Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401545.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_467.0, 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: 21298
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.33
Warning! 2992 characters in sequence are not A, C, G, or T
Found at i:1009 original size:168 final size:158
Alignment explanation
Indices: 816--1123 Score: 363
Period size: 168 Copynumber: 1.9 Consensus size: 158
806 TATTAATCTA
* *
816 TTTAAATAGTTTTATAATATCAAAATTGATTTTAAG-TTTAATTTTTTTTACTTTTTTGATTAAA
1 TTTAAATAGTTTTATAATATCAAAATTGATGTTAAGTTTTAA-TTTTTTTACTTTTTTGACTAAA
* * * * * *
880 ACATATTATTATTGAATGTCTACCTTGA-AAACTTAAA-AAAAAATGCATTCATTAGCAAGAAAA
65 ACAGATTATAATTGAATGTCTACATTGAGAAACGTAAAGAAAAAA-ACATTCATT-G-AAAAAAA
943 ATC-ATTTATTATCTTATTCCTNNNNNNNNNNTATTACTCGC
127 ATCTATTTATTATCTTATTCCT----------TATTACTCGC
* * *
984 TTTAAATGGTTTTATAATCTCAAAATTGATGTTAAGTTTTAATTTTTTTACTTTTTTGGCTAAAA
1 TTTAAATAGTTTTATAATATCAAAATTGATGTTAAGTTTTAATTTTTTTACTTTTTTGACTAAAA
1049 CAGATTATAATTGAATGTCTACATTGAGAAACGTAAAGAAAAAAACATTCATTGAAAAAAAATCT
66 CAGATTATAATTGAATGTCTACATTGAGAAACGTAAAGAAAAAAACATTCATTGAAAAAAAATCT
1114 ATTTATTATC
131 ATTTATTATC
1124 ACCCATTCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
167 9 0.07
168 89 0.71
169 21 0.17
170 6 0.05
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.42
Consensus pattern (158 bp):
TTTAAATAGTTTTATAATATCAAAATTGATGTTAAGTTTTAATTTTTTTACTTTTTTGACTAAAA
CAGATTATAATTGAATGTCTACATTGAGAAACGTAAAGAAAAAAACATTCATTGAAAAAAAATCT
ATTTATTATCTTATTCCTTATTACTCGC
Found at i:1511 original size:170 final size:169
Alignment explanation
Indices: 179--2160 Score: 1097
Period size: 171 Copynumber: 11.6 Consensus size: 169
169 NNNNNNNNNN
* * * *
179 TATATTTTTAGTTAAAATAGACTATAATTGAATATCTACTTCGAGAAA-CTAAAAGAAAAAAGAC
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCT-AAAG--AAAAGAC
* * * ********** *
243 ATTTATTGGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAANNNNNNNNNNACTCGATGTA
63 ATTCATTGGCAAGAAAAGT-CATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTA
* * *
308 AAT-AGTTTTATAATCTCATAATTGATTGTAAGTTGTATTTTTT
127 AATGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * * * * * *
351 TACATTTTTTGTTAAAACAGGCTATAATTAAATATCAACCTCAAGAAACCTCAACA-AAAAGACA
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCT-AA-AGAAAAGACA
* * * ********** * *
415 TTCATTGGTATGAAAAGTCCATTTATAGTCACCCATTCTTTNNNNNNNNNNATTACTCGTTTTAA
64 TTCATTGGCAAGAAAAGT-CATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAA
* * *
480 ATG-GTTTTATAATCTCATAATTGATTTAAAGTTGAGTTTTTTT
128 ATGAG-TTTATAATCTCATAATTAATTTTAAGTTGA-ATTTTTT
* * ** * * * * * *
523 TACATTTTTCGTTAAATTAAACTATTGA-TGAATGTCTACCTCAAGAAACATGAAGAAAAAGGCA
1 TATATTTTTGGTTAAAACAGACTA-TAATTGAATGTCTACCTCGAGAAACCTAAAG-AAAAGACA
** * * * **********
587 TTCATTGAAAAGAGAAGTCCATTTGTAGTCACTCATTCCTTCAAAAGCCTTANNNNNNNNNNTAA
64 TTCATTGGCAAGAAAAGT-CATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAA
*
652 ATG-GTTTTATAATCTCATAATTAATTTTAAGTT-AA-ATTTT
128 ATGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * * * * * * * * *
692 TAAATTTTTCGTTATAACAGACTATAATTAAATGTCTACCTCAAGAAACGTGAGGAAAAAAGTAT
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAAGA-CAT
********** * * * ** * ** *
757 TCATNNNNNNNNNNAGTTCATTTATAGTCTCCCATTCCTTCGCAAGCCTTATTAATCTATTTAAA
65 TCATTGGCAAGAAAAG-TCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAAA
* * * *
822 T-AGTTTTATAATATCAAAATTGATTTTAAGTTTAATTTTTT
129 TGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * * * * * *
863 T-TACTTTTTTGATTAAAACATATTATTATTGAATGTCTACCTTGA-AAACTTAAA-AAAAAATG
1 TATA--TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAAGA--
* * * * ********** *
925 CATTCATTAGCAAGAAAAATCATTTAT--T-ATCTTATTCCTNNNNNNNNNNTATTACTCGCTTT
62 CATTCATTGGCAAGAAAAGTCATTTATAGTCA-CTCATTCTTTCAAAAGCCTTATTACTCGCTGT
* * * *
987 AAATG-GTTTTATAATCTCAAAATTGATGTTAAGTTTTAATTTTTT
126 AAATGAG-TTTATAATCTCATAATTAATTTTAAG-TTGAATTTTTT
* * * * * *
1032 TACT-TTTTTGGCTAAAACAGATTATAATTGAATGTCTACATTGAGAAACGTAAAGAAAAAAACA
1 TA-TATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAG-AAAAGACA
* * * * * *
1096 TTCATT-G-AAAAAAAATCTATTTATTA-TCACCCATTCTTTCGAAAGCCATATTACTCGCTTTA
64 TTCATTGGCAAGAAAAGTC-ATTTA-TAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTA
* * * * *
1158 AATG-GTTTTACAATCTCATAATTGATTATAAGTTAAATGTTTT
127 AATGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* ** ** * * * ** * * * *
1201 TACAAATTTCTTTAAAACAGACTTTTATTGAATATCTGGCTCGAGACACGTATAGAAAATGCCAT
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAA-GACAT
* * * ********** *
1266 TTATTGAG-AAGAAAAGTCTATTTATAGACACCCATTCTTTCNNNNNNNNNNTTACTCGCTTTAA
65 TCATTG-GCAAGAAAAGTC-ATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAA
* * * *
1330 ATG-GTTTTATAATCGCATAATTCA-TTTAAGTTCAATTTGTT
128 ATGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
** * * *
1371 TACCTTTTTGGTTAAAACAAACAATAATTGAATGTCTACC-CTGAGAAACCTAAAGATAAAGATA
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTC-GAGAAACCTAAAGA-AAAGACA
* * ** *
1435 TTCATTGGTAAGAAAAGCTCATTTATAGCCACTCATTCTTTCAAAAGCCTTATTGGTTGCTGTAA
64 TTCATTGGCAAGAAAAG-TCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAA
* * * *
1500 ATAAGTTTATAATTTTATAATTAATTTTAAGTTGTATTTTTT
128 ATGAGTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* ********** * * * **
1542 TATATTTTTTGTTAAAANNNNNNNNNNTTGAATGCCTACCTCAAGAAACATAAA-AAAAGGGATT
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAAGACATT
* * * * * *
1606 CATTGGCAAGAAAAATTTATTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAAAT
66 CATTGGCAAG-AAAAGTCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAAAT
* * *
1671 GATTTTATAATCTCATAATTAATTTTAAGCTGTATTTTTT
130 GAGTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * *
1711 TATATTTTTGGTTAAAACAGACTATAATTGAATCTCTACCTCTAGAAACCTGAAGAAAATGACAT
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAA-GACAT
** * * *
1776 TCATTGAAAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTTTTGCTCGCTTTAAA
65 TCATTGGCAAGAAAAGTC-ATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAAA
* * * * *
1841 TGACTTTATAATCTCATAATCAATTTTAGGTTTAATTTTCT
129 TGAGTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * * ** * *
1882 TACATTTTTAGTTAAAAGAGACTATTGTTGAATG-CTTACCTCGAGAAACATAAAGAAAAGGCAT
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTC-TACCTCGAGAAACCTAAAGAAAAGACAT
* * * *
1946 TCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAGAAGACTTATTACTCGCTGTAAA
65 TCATTGGCAAGAAAAGT-CATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAAA
* *
2011 TG-GTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTT
129 TGAG-TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
* * *
2052 TATATTTTTGGTCAAAACAGACTATAATTGAATATCTACTTCGAGAAA-CTAGAAGAAAAAGACA
1 TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTA-AAG-AAAAGACA
* * *
2116 TTTATTGGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAAA
64 TTCATTGGCAAGAAAAGT-CATTTATAGTCACTCATTCTTTCAAA
2161 NNNNNNNNNN
Statistics
Matches: 1390, Mismatches: 370, Indels: 101
0.75 0.20 0.05
Matches are distributed among these distances:
167 9 0.01
168 99 0.07
169 331 0.24
170 331 0.24
171 421 0.30
172 192 0.14
173 6 0.00
174 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37
Consensus pattern (169 bp):
TATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACCTAAAGAAAAGACATT
CATTGGCAAGAAAAGTCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTGTAAATG
AGTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
Found at i:1685 original size:510 final size:500
Alignment explanation
Indices: 1106--2060 Score: 1028
Period size: 510 Copynumber: 1.9 Consensus size: 500
1096 TTCATTGAAA
* * * *
1106 AAAAATCTATTTATTATCACCCATTCTTTCGAAAGCCATATTACTCGCTTTAAATGGTTTTACAA
1 AAAAATCTATTTATTATCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATGATTTTACAA
* * * * *
1171 TCTCATAATTGATTATAAGTTAAATGTTTTTACAAATTTCTTTAAAACAGACTTTTATTGAATAT
66 TCTCATAATTAATTATAAGCTAAATGTTTTTACAAATTTCGTTAAAACAGACTATAATTGAATAT
** * * * * *
1236 CTGGCTCGAGACACGT-ATAGAAAATGCCATTTATTGAGAAGAAAAGTCTATTTATAGACACCCA
131 CTACCTCGAGAAACCTGA-AGAAAATGACATTCATTGAAAAGAAAAGTCTATTTATAGACACCCA
********** **
1300 TTCTTTCNNNNNNNNNNTTACTCGCTTTAAATGGTTTTATAATCGCATAATTC-A-TTTAAGTTC
195 TTCTTTCAAAAGCCTTTTTACTCGCTTTAAATGACTTTATAATCGCATAA-TCAATTTTAAGTTC
* * *
1363 AATTTGT-TTACCTTTTTGGTTAAAACAAACAATAATTGAATG-TCTACC-CTGAGAAACCTAAA
259 AATTT-TCTTACATTTTTAGTTAAAACAAACAATAATTGAATGCT-TACCTC-GAGAAACATAAA
* * * * *
1425 GATAAAGATATTCATTGGTAAG-AAAAGCTCATTTATAGCCACTCATTCTTTCAAAAGCCTTATT
321 GA-AAAGACATTCATTGGCAAGAAAAATC-CATTTATAGCCACTCATTCCTTCAAAAGACTTATT
** * * * * *
1489 GGTTGCTGTAAATAAG-TTTATAATTTTATAATTAATTTTAAGTTGTATTTTTTTATATTTTTTG
384 ACTCGCTGTAAAT-AGTTTTATAATCTCATAATTAATTTTAAATTGAATTTTTTTATATTTTTTG
1553 TTAAAANNNNNNNNNNTTGAATGCCTACCTCAAGAAACATAAAAAAAGGGATTCATTGGCAAG
448 TTAAAA----------TTGAATGCCTACCTCAAGAAACATAAAAAAAGGGATTCATTGGCAAG
* * *
1616 AAAAATTTATTTA-TAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATA
1 AAAAATCTATTTATTA-TCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATGATTTTACA
* ** * * ** * *
1680 ATCTCATAATTAATTTTAAGCTGTATTTTTTTATATTTTTGGTTAAAACAGACTATAATTGAATC
65 ATCTCATAATTAATTATAAGCTAAATGTTTTTACAAATTTCGTTAAAACAGACTATAATTGAATA
* * *
1745 TCTACCTCTAGAAACCTGAAGAAAATGACATTCATTGAAAAGAAAAGTCTATTTATAGTCACTCA
130 TCTACCTCGAGAAACCTGAAGAAAATGACATTCATTGAAAAGAAAAGTCTATTTATAGACACCCA
* * * *
1810 TTCTTTCAAAAGCCTTTTTGCTCGCTTTAAATGACTTTATAATCTCATAATCAATTTTAGGTTTA
195 TTCTTTCAAAAGCCTTTTTACTCGCTTTAAATGACTTTATAATCGCATAATCAATTTTAAGTTCA
* * * **
1875 ATTTTCTTACATTTTTAGTTAAAAGAGACTATTGTTGAATGCTTACCTCGAGAAACATAAAGAAA
260 ATTTTCTTACATTTTTAGTTAAAACAAACAATAATTGAATGCTTACCTCGAGAAACATAAAGAAA
* * *
1940 AGGCATTCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAGAAGACTTATTACTCGC
325 AGACATTCATTGGCAAGAAAAATCCATTTATAGCCACTCATTCCTTCAAAAGACTTATTACTCGC
* *
2005 TGTAAATGGTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTATATTTTT
390 TGTAAATAGTTTTATAATCTCATAATTAATTTTAAATTGAATTTTTTTATATTTTT
2061 GGTCAAAACA
Statistics
Matches: 364, Mismatches: 72, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
509 5 0.01
510 294 0.81
511 63 0.17
512 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.39
Consensus pattern (500 bp):
AAAAATCTATTTATTATCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATGATTTTACAA
TCTCATAATTAATTATAAGCTAAATGTTTTTACAAATTTCGTTAAAACAGACTATAATTGAATAT
CTACCTCGAGAAACCTGAAGAAAATGACATTCATTGAAAAGAAAAGTCTATTTATAGACACCCAT
TCTTTCAAAAGCCTTTTTACTCGCTTTAAATGACTTTATAATCGCATAATCAATTTTAAGTTCAA
TTTTCTTACATTTTTAGTTAAAACAAACAATAATTGAATGCTTACCTCGAGAAACATAAAGAAAA
GACATTCATTGGCAAGAAAAATCCATTTATAGCCACTCATTCCTTCAAAAGACTTATTACTCGCT
GTAAATAGTTTTATAATCTCATAATTAATTTTAAATTGAATTTTTTTATATTTTTTGTTAAAATT
GAATGCCTACCTCAAGAAACATAAAAAAAGGGATTCATTGGCAAG
Found at i:2071 original size:341 final size:340
Alignment explanation
Indices: 182--2160 Score: 1400
Period size: 341 Copynumber: 5.8 Consensus size: 340
172 NNNNNNNTAT
* * * * * *
182 ATTTTTAGTTAAAATAGACTATAATTGAATATCTACTTCGAGAAAC-TAAAAGAAAAAAGACATT
1 ATTTTTCGTTAAAACAGACTATTATTGAATGTCTACCTCGAGAAACAT-AAAG--AAAAGGCATT
* * * * * ********* * *
246 TATTGGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAANNNNNNNNNNACTCGATGTAAAT
63 CATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAA-AGACTTATTACTCGCTTTAAAT
* * * * * *
311 AGTTTTATAATCTCATAATTGATTGTAAGTTGTATTTTTTTACATTTTTTGTTAAAACAGGCTAT
127 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTAT
* * * * * * * * *
376 AATTAAATATCAACCTCAAGAAACCTCAACAAAAAGACATTCATTGGTATGAAAAGTCCATTTAT
192 AATTGAATGTCTACCTCTAGAAACCTGAAGAAAAAGACATTCATTGGAAAGAAAAGTCTATTTAT
********** * *
441 AGTCACCCATTCTTTNNNNNNNNNNATTACTCGTTTTAAATGGTTTTATAATCTCATAATTGATT
257 AGTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATT
* * *
506 TAAAGTTGAGTTTTTTTTAC
322 TTAAGTTTA-ATTTTTTTAC
** * * *
526 ATTTTTCGTTAAATTAAACTATTGA-TGAATGTCTACCTCAAGAAACATGAAGAAAAAGGCATTC
1 ATTTTTCGTTAAAACAGACTATT-ATTGAATGTCTACCTCGAGAAACATAAAG-AAAAGGCATTC
** * * * * **********
590 ATTGAAAAGAGAAGTCCATTTGTAGTCACTCATTCCTTCAAAAGCCTTANNNNNNNNNNTAAATG
64 ATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTC-AAAGACTTATTACTCGCTTTAAATG
* * * * *
655 GTTTTATAATCTCATAATTAATTTTAAGTT-AA-ATTTTTAAATTTTTCGTTATAACAGACTATA
128 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTATA
* * * * * **********
718 ATTAAATGTCTACCTCAAGAAACGTGAGGAAAAA-AGTATTCATNNNNNNNNNNAGT-TCATTTA
193 ATTGAATGTCTACCTCTAGAAACCTGAAGAAAAAGA-CATTCATTGGAAAGAAAAGTCT-ATTTA
* * ** * ** * *
781 TAGTCTCCCATTCCTTCGCAAGCCTTATTAATCTATTTAAAT-AGTTTTATAATATCAAAATTGA
256 TAGTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGA-TTTTATAATCTCATAATTGA
845 TTTTAAGTTTAATTTTTTTTAC
320 TTTTAAGTTTAA-TTTTTTTAC
* * * * * * *
867 -TTTTTTGATTAAAACATATTATTATTGAATGTCTACCTTGA-AAACTTAAAAAAAAATGCATTC
1 ATTTTTCG-TTAAAACAGACTATTATTGAATGTCTACCTCGAGAAACAT-AAAGAAAAGGCATTC
* * *********
930 ATTAGCAAGAAAAAT-CATTTAT--T-ATCTTATTCCTNNNNNNNNNNTATTACTCGCTTTAAAT
64 ATTGGCAAGAAAAATCCATTTATAGTCA-CTCATTCCT-TCAAAGACTTATTACTCGCTTTAAAT
* * * * *
991 GGTTTTATAATCTCAAAATTGATGTTAAGTTTTAATTTTTTTACT-TTTTTGGCTAAAACAGATT
127 GGTTTTATAATCTCATAATTGATTTTAAG-TTGAATTTTTTTA-TATTTTTGGTTAAAACAGACT
* * * * *
1055 ATAATTGAATGTCTACAT-TGAGAAACGTAAAGAAAAAAACATTCATT-GAAA-AAAAATCTATT
190 ATAATTGAATGTCTACCTCT-AGAAACCTGAAGAAAAAGACATTCATTGGAAAGAAAAGTCTATT
* * * *
1117 TATTA-TCACCCATTCTTTCGAAAGCCATATTACTCGCTTTAAATGGTTTTACAATCTCATAATT
254 TA-TAGTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATT
* * *
1181 GATTATAAGTTAAATGTTTTTAC
318 GATTTTAAGTTTAATTTTTTTAC
** * * * ** * * * * *
1204 AAATTTCTTTAAAACAGACTTTTATTGAATATCTGGCTCGAGACACGTATAGAAAATGCCATTTA
1 ATTTTTCGTTAAAACAGACTATTATTGAATGTCTACCTCGAGAAACATAAAGAAAA-GGCATTCA
* * * * * *********
1269 TTGAG-AAGAAAAGTCTATTTATAGACACCCATTCTTTCNNNNNNNNNNTTACTCGCTTTAAATG
65 TTG-GCAAGAAAAATCCATTTATAGTCACTCATTCCTTC-AAAGACTTATTACTCGCTTTAAATG
* * * * ** * *
1333 GTTTTATAATCGCATAATTCA-TTTAAGTTCAATTTGTTTACCTTTTTGGTTAAAACAAACAATA
128 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTATA
* * * *
1397 ATTGAATGTCTACC-CTGAGAAACCTAAAGATAAAGATATTCATTGGTAAGAAAAG-CTCATTTA
193 ATTGAATGTCTACCTCT-AGAAACCTGAAGAAAAAGACATTCATTGGAAAGAAAAGTCT-ATTTA
* * ** * * * * * * *
1460 TAGCCACTCATTCTTTCAAAAGCCTTATTGGTTGCTGTAAATAAGTTTATAATTTTATAATTAAT
256 TAGTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGAT
*
1525 TTTAAGTTGT-ATTTTTTTAT
321 TTTAAGTT-TAATTTTTTTAC
* ********** * * *
1545 ATTTTTTGTTAAAANNNNNNNNNNTTGAATGCCTACCTCAAGAAACATAAA-AAAAGGGATTCAT
1 ATTTTTCGTTAAAACAGACTATTATTGAATGTCTACCTCGAGAAACATAAAGAAAAGGCATTCAT
** * * *
1609 TGGCAAGAAAAATTTATTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAAATGAT
66 TGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAAAGA-CTTATTACTCGCTTTAAATGGT
* * *
1674 TTTATAATCTCATAATTAATTTTAAGCTGTATTTTTTTATATTTTTGGTTAAAACAGACTATAAT
130 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTATAAT
* * *
1739 TGAATCTCTACCTCTAGAAACCTGAAGAAAATGACATTCATTGAAAAGAAAAGTCTATTTATAGT
195 TGAATGTCTACCTCTAGAAACCTGAAGAAAAAGACATTCATTGGAAAGAAAAGTCTATTTATAGT
* * * * **
1804 CACTCATTCTTTCAAAAGCCTTTTTGCTCGCTTTAAATGACTTTATAATCTCATAATCAATTTTA
260 CACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTA
* *
1869 GGTTTAATTTTCTTAC
325 AGTTTAATTTTTTTAC
* * *
1885 ATTTTTAGTTAAAAGAGACTATTGTTGAATG-CTTACCTCGAGAAACATAAAGAAAAGGCATTCA
1 ATTTTTCGTTAAAACAGACTATTATTGAATGTC-TACCTCGAGAAACATAAAGAAAAGGCATTCA
*
1949 TTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAGAAGACTTATTACTCGCTGTAAATGG
65 TTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCA-AAGACTTATTACTCGCTTTAAATGG
* *
2014 TTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTATATTTTTGGTCAAAACAGACTATAA
129 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTATAA
* * * * * *
2079 TTGAATATCTACTTCGAGAAA-CTAGAAGAAAAAGACATTTATTGGGAAGAAAAGTCCATTTATA
194 TTGAATGTCTACCTCTAGAAACCT-GAAGAAAAAGACATTCATTGGAAAGAAAAGTCTATTTATA
* *
2143 CTCACTCATTCTTTCAAA
258 GTCACCCATTCTTTCAAA
2161 NNNNNNNNNN
Statistics
Matches: 1266, Mismatches: 322, Indels: 97
0.75 0.19 0.06
Matches are distributed among these distances:
336 1 0.00
337 82 0.06
338 91 0.07
339 158 0.12
340 301 0.24
341 506 0.40
342 5 0.00
343 78 0.06
344 42 0.03
345 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37
Consensus pattern (340 bp):
ATTTTTCGTTAAAACAGACTATTATTGAATGTCTACCTCGAGAAACATAAAGAAAAGGCATTCAT
TGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAAAGACTTATTACTCGCTTTAAATGGTT
TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTTAAAACAGACTATAATT
GAATGTCTACCTCTAGAAACCTGAAGAAAAAGACATTCATTGGAAAGAAAAGTCTATTTATAGTC
ACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAA
GTTTAATTTTTTTAC
Found at i:3014 original size:20 final size:21
Alignment explanation
Indices: 2981--3019 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2971 GAGAAACTTG
2981 AAGAAAAATGCATTCATTAGC
1 AAGAAAAATGCATTCATTAGC
*
3002 AAGAAAAAT-CATTTATTA
1 AAGAAAAATGCATTCATTA
3020 TCTTATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
AAGAAAAATGCATTCATTAGC
Found at i:3706 original size:170 final size:168
Alignment explanation
Indices: 3421--3733 Score: 380
Period size: 170 Copynumber: 1.8 Consensus size: 168
3411 CTTTAAATGG
* *
3421 TTTTATAATCGCATAATTCATTTAAGTTGATTTTTTTTACCTTTTTGGTTAAAATAGACAATAAT
1 TTTTATAATCGCATAATTAATTTAAGTTGATTTTTTATA-CTTTTTGGTTAAAATAGACAATAAT
* * ** * * *
3486 TGGATGTCTACCTTGAGAAACCTGAAGAAAAAAAATTCATTGGTAAGAAAAGTTCATTTATAGCC
65 TGAATGACTACCTCAAGAAACATGAAGAAAAAAAATTCATTGGCAAGAAAAATTCATTTATAGCC
* *
3551 ACTCATTCTTTCAAAAGCCTTATTGCTTGCTGTAAATAA
130 ACCCATTCCTTCAAAAGCCTTATTGCTTGCTGTAAATAA
* *
3590 TTTTATAATCTCATAATTAATTTTAAGTTGTATTTTCTTATA-TTGTTT-GTTAAAATAGACTAT
1 TTTTATAATCGCATAATTAA-TTTAAGTTG-ATTTT-TTATACTT-TTTGGTTAAAATAGACAAT
** ** *
3653 TGTTGAATGACTACCTCAAGAAACATGAA-AAAAAGGGATTCATTGGCAAGAAAAATTTATTTAT
62 AATTGAATGACTACCTCAAGAAACATGAAGAAAAA-AAATTCATTGGCAAGAAAAATTCATTTAT
*
3717 AGTCACCCATTCCTTCA
126 AGCCACCCATTCCTTCA
3734 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
169 23 0.19
170 85 0.71
171 8 0.07
172 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (168 bp):
TTTTATAATCGCATAATTAATTTAAGTTGATTTTTTATACTTTTTGGTTAAAATAGACAATAATT
GAATGACTACCTCAAGAAACATGAAGAAAAAAAATTCATTGGCAAGAAAAATTCATTTATAGCCA
CCCATTCCTTCAAAAGCCTTATTGCTTGCTGTAAATAA
Found at i:4354 original size:170 final size:169
Alignment explanation
Indices: 3865--4641 Score: 562
Period size: 171 Copynumber: 4.6 Consensus size: 169
3855 NNNNNNNNNN
* * * * *
3865 TTAAGTTGAATTTGTTTACATTTTTAGTTAAAATAGAATATAATTGAATGCTTGCCTCAAAAAAC
1 TTAAGTTGAATTT-TTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTCAAGAAAC
* * * * *
3930 ATAAAGAAAAAGATATTAATTGGCAAGAAAAGTCGATTTATACTCACTCA-TCCTTTCAAAAGCC
65 ATAAAG-AAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCC-TTCAAAAGCC
* * *
3994 TTATTACTCGCTGAAAATGATTTTATAATCTCATAATTAATT
128 TTATTACTCGCTGTAAATGGTTTTATAATCTCATAATTGATT
* ********** * **
4036 TTAAGCTGTANNNNNNNNNNTTTTTGGTTAAAACAGACTATAATTGAAT-CTCTACCTTTAGAAA
1 TTAAGTTG-AATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGC-CTACCTCAAGAAA
* * * *
4100 CCTAAAGAAAATGACATTCATT-GAAAAAAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGC
64 CATAAAGAAAA-GACATTCATTGGCAAGAAAAA-TCCATTTATAGTCACTCATTCCTTCAAAAGC
* * * * * *
4164 CTTTTTGCTCGCTTTAAATGGCTTTATAATCTCTTAATCGATT
127 CTTATTACTCGCTGTAAATGGTTTTATAATCTCATAATTGATT
* * * ** * *
4207 TTAGGTTGAATTTTCTTATATTTTTAGTTAAAAGAGACTATTGTTGAATGCCTACCTCGAGAAAT
1 TTAAGTTGAATTTT-TTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTCAAGAAAC
* * *
4272 ATAAAGAAAAGGCATTCATTGGCAAGAAAAATCCATTTACAGTCACTCATTCCTTCAAAAGACTT
65 ATAAAGAAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAAAAGCCTT
*
4337 ATTACTCGCTGTAAATGGTTTTATATTCTCATAATTGATT
130 ATTACTCGCTGTAAATGGTTTTATAATCTCATAATTGATT
* * * * ********** *
4377 TTTATTTTATTTTTTTACATCTTTT-GTTAAANNNNNNNNNNATTGAATGTCTACCTCAAGAAAC
1 TTAAGTTGAATTTTTTACAT-TTTTAGTTAAAACAGACTATAATTGAATGCCTACCTCAAGAAAC
* * ********** *
4441 -TAGAAGAAAA-ACGCATTCATTGGGAAGAAAAGTCCATTTATAGTCACTCNNNNNNNNNNAAGT
65 ATA-AAGAAAAGA--CATTCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAAAAGC
** * * *
4504 CTTATTGTTCACTTTAAATGGCTTTATAATCTCATAATTGATT
127 CTTATTACTCGCTGTAAATGGTTTTATAATCTCATAATTGATT
* * *
4547 TTAAGTTGAATTGTTTCACATTTTTTA-TTAAAACA-AGCTATAATTAAATGTCTACCTCAAGAA
1 TTAAGTTGAATT-TTTTACA-TTTTTAGTTAAAACAGA-CTATAATTGAATGCCTACCTCAAGAA
* * * *
4610 ACATGAAGAAAAAAGCATTTATTGGTAAGAAA
63 ACATAAAGAAAAGA-CATTCATTGGCAAGAAA
4642 NNNNNNNNNN
Statistics
Matches: 459, Mismatches: 129, Indels: 36
0.74 0.21 0.06
Matches are distributed among these distances:
168 2 0.00
169 37 0.08
170 180 0.39
171 233 0.51
172 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.36
Consensus pattern (169 bp):
TTAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACA
TAAAGAAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACTCATTCCTTCAAAAGCCTTA
TTACTCGCTGTAAATGGTTTTATAATCTCATAATTGATT
Found at i:5863 original size:171 final size:167
Alignment explanation
Indices: 4866--6775 Score: 833
Period size: 171 Copynumber: 11.2 Consensus size: 167
4856 NNNNNNACTC
* * * * *
4866 GCTTTAAAGGGTTTTATAGTCTCATAATTAATTTTAAGTTGAAT-TTTTATATTTTTTATTAAAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTA-ATTTTTGA-TAAAA
* * * ** *
4930 CAGGCTATAATTAAATGTCTACCTCTAGAAACATGAAGAAAAA-AGTATTCATTGGCAAGAAAAG
64 CAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGA-CATTCATTGGCAAGAAAAG
* * ** **
4994 TCCATTTACAGTCTTCATTCCTTT-AAAAGCCTTATTACTC
128 TCTATTTATAGTCACCATT-CTTTCAAAAGCCTTATTACGA
* * * * * * * *
5034 GATTTAAATGATTTTATAATCTTAAAATTAATTTTAAGTTCAATTTTTTTGACTTTTTTTATTAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAA-TGTTTT-A-ATTTTTGA-TAA
* * * * ** *** ** * * *
5099 ATCATATTATAACTGAATGTCTATGTTGTGAAACATGAAGAAAAATATATTCATTAGCAAGAAAA
62 AACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAA
* ********* *
5164 GACTATTTATTA-TCACCNNNNNNNNNNAAAGCCTTATTACTCA
127 GTCTATTTA-TAGTCACC-ATTCTTTCAAAAGCCTTATTAC-GA
* * * * * * * *
5207 -TTTTAAATGGTTTTATATTCGT-AAAATTGATTTTAAGTTTAA--TTTT--TTTTAGTTAAAAT
1 GCTTTAAATGATTTTATAATC-TCATAATTGATTTTAAGTTGAATGTTTTAATTTTTGATAAAAC
* * * ** **** * * *** *
5266 AGATTATAATTAAATGTCTACATTGAGAAACGTGGAGAAAAAGGCTTTCATTAATAAGAAAAATC
65 AGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTC
* * * * * **
5331 CATTTATTGTCATCTATTCCTTAAAAAGCCTTATTACTC
130 TATTTATAGTCA-CCATTCTTTCAAAAGCCTTATTACGA
* * * * * **
5370 GTTTTAAAT-AGTTTTGTAATCTAATAATTGATTATCAA-TTGAATTTTTTTACATTTTTCTTTA
1 GCTTTAAATGA-TTTTATAATCTCATAATTGATT-TTAAGTTGAA-TGTTTTA-ATTTTT-GATA
* * * * * ** * ** ** * * *
5433 AAATAGATTTTAATTGAATTTTTGGCTCAACAAATGAGTAGAAAATG-CTATTTATTGAG-AAAA
61 AAACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGAC-ATTCATTG-GCAAGA
* * * * * * **
5496 AAAGTCCATTTACAGACACCCATTCTTTCAAAAGCATCATTGCTC
124 AAAGTCTATTTATAGTCA-CCATTCTTTCAAAAGCCTTATTACGA
* * * * * *
5541 GCTTGAAATGGTTTTATAATCTCATAATTCATTCTAAGTTGAAT-TTTCTAATATTTTAGGTTAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATGTTT-TAAT-TTTT-GATAAA
* * ********** *** * *
5605 ATAGACTATAATTAAATGTCNNNNNNNNNNAACGTGAAGAAAAA-AGCATTCATGGGCAAGGAAA
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGA-CATTCATTGGCAAGAAAA
*
5669 GTCTCA-TTATAGTCACTCATTCTTTCAAAAGTCTTATTACGA
127 GTCT-ATTTATAGTCAC-CATTCTTTCAAAAGCCTTATTACGA
* *
5711 GCTTTAAATGATTTTATAATCTCACAATTGATTTTAAGTTGAACTGTTTTACCTTTTTGATTAAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAA-TGTTTTA-ATTTTTGA-TAAA
**********
5776 ACAGACTATAATTGAATGTCTACCTCANNNNNNNNNNAGAAAAAGACATTCATTGGCAAGAAAAG
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
* * *
5841 TCTATTTACAGCCAACCATTCTTTCACAAA-CCTTATTACTCA
128 TCTATTTATAGTC-ACCATTCTTTCA-AAAGCCTTATTAC-GA
* * **
5883 -CTTTAAATCATTTTATAATCTCATAATTAATTTTAAGTTGAATGTTTTTATATTTTTGGCCAAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATG-TTTTA-ATTTTT-GATAAA
* * *
5947 ACAAACTATAATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
* * * *
6012 TTTATTTATAGTCACCTATTCTTTCGAAAGCCTTATTGCGC
128 TCTATTTATAGTCACC-ATTCTTTCAAAAGCCTTATTACGA
* * * * *
6053 GCTTTAAATGGTTTTACAATCTCATAATTGATTTTAAGTTGAATATTTTTGTAGTTTTGGATAAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG-A-ATGTTT-TAATTTTTGATAAA
* * * * **** * *
6118 ATAGATTATAGTTGAATGTCTACCTCGAGAAATGTGAAGAAAAAGGCATTCATGGGCAAGAAAAG
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
* * * * **
6183 TCTATTTATAGTCACCCCTTCCTTCAAAATCCTTCTTACTC
128 TCTATTTATAGTCA-CCATTCTTTCAAAAGCCTTATTACGA
* * * ** * * *******
6224 GTTTTAAATAATTTTATAATCTCATAACTGATTTTTTGTTAAATTTTTTTACATTTTNNNNNNNN
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAA-TGTTTTA-ATTTT-TGATAAA
** * ** * *
6289 NNAGACTATAATTGAATGTCTACCTCGAGAAGTATAAAGAAAAAGACATTCATCGGCAAGAAAAG
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
* * **
6354 TCTATTTATAGTCATCCATTCTTTTAAAAGCTTTATTACTC
128 TCTATTTATAGTCA-CCATTCTTTCAAAAGCCTTATTACGA
********** * * * * * *
6395 GCTTTAAANNNNNNNNNNATCTCATAATTAATTTTAAATTGAATTTCTTTTCATTTATGGTTAAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAA--TGTTTTAATTT-TTGATAAA
* * * * * ** * * * *
6460 ACAAATTAGAGTTGAATGTTTATGTCGAGAAACGAGAAGAAAAAGGCATTCATTGGCAAGAAAAG
63 ACAGACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAG
* * * **
6525 TCGATTTATAGTCACTCATTCCTTCAAAATG-GTTATTACCC
128 TCTATTTATAGTCAC-CATTCTTTCAAAA-GCCTTATTACGA
* * ** * *
6566 GCTTTAAGTGGTTTTATAATCTCATAATTGATTTTAAGCAGAATTTTTTTATATTTTTTTATCAA
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAA-TGTTTTA-A-TTTTTGAT-AA
* * * * *
6631 AATAAACTATAATTGAATGTCTACCT-AGAGAAACTAGAAGAAAAAGACATTCATTGGGAA-AAA
62 AACAGACTATAATTGAATGTCTACCTCA-AGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAA
* * **
6694 GAGTCCATTTATACTCACTCATTCTTTC-AAAGCCTTATTACTC
126 -AGTCTATTTATAGTCAC-CATTCTTTCAAAAGCCTTATTACGA
* * * *
6737 GATGTAAATGGTTTTATAATCTCATAATTGATTGTAAGT
1 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGT
6776 NNNNNNNNNN
Statistics
Matches: 1313, Mismatches: 365, Indels: 125
0.73 0.20 0.07
Matches are distributed among these distances:
163 2 0.00
164 103 0.08
165 8 0.01
167 4 0.00
168 36 0.03
169 15 0.01
170 152 0.12
171 831 0.63
172 157 0.12
173 5 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (167 bp):
GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTAATTTTTGATAAAACA
GACTATAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTCT
ATTTATAGTCACCATTCTTTCAAAAGCCTTATTACGA
Found at i:6088 original size:342 final size:341
Alignment explanation
Indices: 4748--6775 Score: 1156
Period size: 342 Copynumber: 6.0 Consensus size: 341
4738 NNNNTTTATT
* * * *
4748 TTTTTGGTTAAAACAGACTATTGTTGAATGT-TCACCTCGAGAAAC-ATGAAAAAAAAGGCATTC
1 TTTTTGATTAAAACAGATTATAGTTGAATGTCT-ACCTCGAGAAACGA-GAAGAAAAAGGCATTC
* * * * * ********** *
4811 ATT-GAAAAAAAACGTCCATTTCTAGTCACCCATTCCTTCAANNNNNNNNNNACTCGCTTTAAAG
64 ATTGGCAAGAAAA-GTCTATTTATAGTCAACCATTCCTTCAAAATCCTTATTACTCGCTTTAAAT
** * * * ** **
4875 GGTTTTATAGTCTCATAATTAATTTTAAGTTGAA--TTTTTATATTTTTTATTAAAACAGGCTAT
128 AATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTAT
* * ** *
4938 AATTAAATGTCTACCTCTAGAAACATGAAGAAAAA-AGTATTCATTGGCAAGAAAAGTCCATTTA
193 AATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCCATTTA
* * * * * * * *
5002 CAGTC-TTCATTCCTTT-AAAAGCCTTATTACTCGATTTAAATGATTTTATAATCTTAAAATTAA
257 TAGTCACTCATT-CTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGA
* *
5065 TTTTAAGTTCAATTTTTTTGACT
321 TTTTAAGTTGAA-TTTTTT-ACA
* * * ** ** * * ***
5088 TTTTTTATTAAATCATATTATAACTGAATGTCTATGTTGTGAAAC-ATGAAGAAAAATATATTCA
1 TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACGA-GAAGAAAAAGGCATTCA
* * ********* * **
5152 TTAGCAAGAAAAGACTATTTATTA-TC-ACCNNNNNNNNNNAAAGCCTTATTACTCATTTTAAAT
65 TTGGCAAGAAAAGTCTATTTA-TAGTCAACC-ATTCCTTCAAAATCCTTATTACTCGCTTTAAAT
** * * * * * * *
5215 GGTTTTATATTCGT-AAAATTGATTTTAAGTTTAATTTTTTT-TA--GTT----AAAATAGATTA
128 AATTTTATAATC-TCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTA
* * ** **** * * *** *
5272 TAATTAAATGTCTACATTGAGAAACGTGGAGAAAAAGGCTTTCATTAATAAGAAAAATCCATTTA
192 TAATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTA
* * * * * * * *
5337 TTGTCA-TCTATTCCTTAAAAAGCCTTATTACTCGTTTTAAATAGTTTTGTAATCTAATAATTGA
257 TAGTCACTC-ATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGA
*
5401 TTATCAA-TTGAATTTTTTTACA
321 TT-TTAAGTTGAA-TTTTTTACA
** * * * * * ** * * * * * *
5423 TTTTTCTTTAAAATAGATTTTAATTGAATTTTTGGCTCAACAAATGAGTAG-AAAATGCTATTTA
1 TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACGAGAAGAAAAAGGC-ATTCA
* * * * * * * * * * * *
5487 TTGAG-AAAAAAAGTCCATTTACAGACACCCATTCTTTCAAAAGCATCATTGCTCGCTTGAAATG
65 TTG-GCAAGAAAAGTCTATTTATAGTCAACCATTCCTTCAAAATCCTTATTACTCGCTTTAAATA
* * * * * * *** * *
5551 GTTTTATAATCTCATAATTCATTCTAAGTTGAATTTTCTAATATTTTAG-GTTAAATAGACTATA
129 ATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTATA
* ********** *** * *
5615 ATTAAATGTCNNNNNNNNNNAACGTGAAGAAAAA-AGCATTCATGGGCAAGGAAAGTCTCA-TTA
194 ATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGA-CATTCATTGGCAAGAAAAGTC-CATTTA
* * * *
5678 TAGTCACTCATTCTTTCAAAAGTCTTATTACGAGCTTTAAATGATTTTATAATCTCACAATTGAT
257 TAGTCACTCATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* *
5743 TTTAAGTTGAACTGTTTTACC
322 TTTAAGTTGAA-TTTTTTACA
* * ********* *
5764 TTTTTGATTAAAACAGACTATAATTGAATGTCTACCTC-ANNNNNNNNNNAGAAAAAGACATTCA
1 TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGA-GAAACGAGAAGAAAAAGGCATTCA
* * * * *
5828 TTGGCAAGAAAAGTCTATTTACAGCCAACCATTCTTTCACAAA-CCTTATTACTCACTTTAAATC
65 TTGGCAAGAAAAGTCTATTTATAGTCAACCATTCCTTCA-AAATCCTTATTACTCGCTTTAAATA
* * *
5892 ATTTTATAATCTCATAATTAATTTTAAGTTGAATGTTTTTATATTTTTGGCCAAAACAAACTATA
129 ATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTATA
* * **
5957 ATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTTTATTTATA
194 ATTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATA
* * *
6022 GTCAC-CTATTCTTTCGAAAGCCTTATTGCGCGCTTTAAATGGTTTTACAATCTCATAATTGATT
259 GTCACTC-ATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGATT
**
6086 TTAAGTTGAATATTTTTGTA
323 TTAAGTTGAAT-TTTTTACA
* * * *
6106 GTTTTGGA-TAAAATAGATTATAGTTGAATGTCTACCTCGAGAAATGTGAAGAAAAAGGCATTCA
1 -TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACGAGAAGAAAAAGGCATTCA
* * * * *
6170 TGGGCAAGAAAAGTCTATTTATAGTCACCCCTTCCTTCAAAATCCTTCTTACTCGTTTTAAATAA
65 TTGGCAAGAAAAGTCTATTTATAGTCAACCATTCCTTCAAAATCCTTATTACTCGCTTTAAATAA
* ** * * ********** *
6235 TTTTATAATCTCATAACTGATTTTTTGTTAAATTTTTTTACATTTTNNNNNNNNNNAGACTATAA
130 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTATAA
* ** * * *
6300 TTGAATGTCTACCTCGAGAAGTATAAAGAAAAAGACATTCATCGGCAAGAAAAGTCTATTTATAG
195 TTGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAG
* * * ********** *
6365 TCA-TCCATTCTTTTAAAAGCTTTATTACTCGCTTTAAANNNNNNNNNNATCTCATAATTAATTT
260 TCACT-CATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* *
6429 TAAATTGAATTTCTTTTCA
324 TAAGTTGAATTT-TTTACA
* * * * * **
6448 TTTATGGTTAAAACAAATTAGAGTTGAATGTTTATGTCGAGAAACGAGAAGAAAAAGGCATTCAT
1 TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACGAGAAGAAAAAGGCATTCAT
* ** * * **
6513 TGGCAAGAAAAGTCGATTTATAGTC-ACTCATTCCTTCAAAATGGTTATTACCCGCTTTAAGTGG
66 TGGCAAGAAAAGTCTATTTATAGTCAAC-CATTCCTTCAAAATCCTTATTACTCGCTTTAAATAA
** * * *
6577 TTTTATAATCTCATAATTGATTTTAAGCAGAATTTTTTTATATTTTTTTATCAAAATAAACTATA
130 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATA-TTTTTGACCAAAACAAACTATA
* * *
6642 ATTGAATGTCTACCT-AGAGAAACTAGAAGAAAAAGACATTCATTGGGAA-AAAGAGTCCATTTA
194 ATTGAATGTCTACCTCA-AGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAA-AGTCCATTTA
* * * *
6705 TACTCACTCATTCTTTC-AAAGCCTTATTACTCGATGTAAATGGTTTTATAATCTCATAATTGAT
257 TAGTCACTCATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGAT
*
6769 TGTAAGT
322 TTTAAGT
6776 NNNNNNNNNN
Statistics
Matches: 1263, Mismatches: 376, Indels: 96
0.73 0.22 0.06
Matches are distributed among these distances:
334 7 0.01
335 171 0.14
336 62 0.05
337 3 0.00
338 1 0.00
339 4 0.00
340 100 0.08
341 265 0.21
342 567 0.45
343 82 0.06
344 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.37
Consensus pattern (341 bp):
TTTTTGATTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACGAGAAGAAAAAGGCATTCAT
TGGCAAGAAAAGTCTATTTATAGTCAACCATTCCTTCAAAATCCTTATTACTCGCTTTAAATAAT
TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGACCAAAACAAACTATAAT
TGAATGTCTACCTCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGT
CACTCATTCTTTCAAAAGCCTTATTACGCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA
AGTTGAATTTTTTACA
Found at i:6300 original size:513 final size:503
Alignment explanation
Indices: 5813--6769 Score: 1104
Period size: 513 Copynumber: 1.9 Consensus size: 503
5803 NNNNNNNNNN
*
5813 AGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTACAGCCAACCATTCTTTCACAAA-CCTTAT
1 AGAAAAAGACATTCATCGGCAAGAAAAGTCTATTTACAGCCAACCATTCTTTCA-AAAGCCTTAT
* *
5877 TACTCACTTTAAATCATTTTATAATCTCATAATTAATTTTAAGTTGAATGTT-TTTAT-ATTTTT
65 TACTCACTTTAAATCATTTTATAATCTCATAATTAATTTTAAATTGAAT-TTCTTT-TCATTTAT
*
5940 GGCCAAAACAAACTATAATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCA
128 GGCCAAAACAAACTAGAATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCA
** * * * *
6005 AGAAAAGTTTATTTATAGTCAC-CTATTCTTTCGAAA-GCCTTATTGCGCGCTTTAAATGGTTTT
193 AGAAAAGTCGATTTATAGTCACTC-ATTCCTTCAAAATG-CTTATTACCCGCTTTAAATGGTTTT
** * * * *
6068 ACAATCTCATAATTGATTTTAAGTTGAATATTTTTGTAGTTTTGGAT-AAAATAGATTATAGTTG
256 ACAATCTCATAATTGATTTTAAGCAGAATATTTTTATAGTTTTGGATCAAAATAAACTATAATTG
* * * * *
6132 AATGTCTACCTCGAGAAA-TGTGAAGAAAAAGGCATTCA-TGGGCAAGAAA-AGTCTATTTATAG
321 AATGTCTACCTAGAGAAACT-AGAAGAAAAAGACATTCATTGGG-AA-AAAGAGTCCATTTATAC
* * * * *
6194 TCACCCCTTCCTTCAAAATCCTTCTTACTCGTTTTAAATAATTTTATAATCTCATAACTGATTTT
383 TCACCCATTCCTTC-AAAGCCTTATTACTCGATGTAAATAATTTTATAATCTCATAACTGATTTT
6259 TTGTTAAATTTTTTTACATTTTNNNNNNNNNNAGACTATAATTGAATGTCTACCTCGAGAAGTAT
447 TTGTTAAATTTTTTTACATTTT----------AGACTATAATTGAATGTCTACCTCGAGAAGTAT
6324 AA
502 AA
* * * * *
6326 AGAAAAAGACATTCATCGGCAAGAAAAGTCTATTTATAGTCATCCATTCTTTTAAAAGCTTTATT
1 AGAAAAAGACATTCATCGGCAAGAAAAGTCTATTTACAGCCAACCATTCTTTCAAAAGCCTTATT
* ********** *
6391 ACTCGCTTTAAANNNNNNNNNNATCTCATAATTAATTTTAAATTGAATTTCTTTTCATTTATGGT
66 ACTCACTTTAAATCATTTTATAATCTCATAATTAATTTTAAATTGAATTTCTTTTCATTTATGGC
* * * ** * * * *
6456 TAAAACAAATTAGAGTTGAATGTTTATGTCGAGAAACGAGAAGAAAAAGGCATTCATTGGCAAGA
131 CAAAACAAACTAGAATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGA
* * *
6521 AAAGTCGATTTATAGTCACTCATTCCTTCAAAATGGTTATTACCCGCTTTAAGTGGTTTTATAAT
196 AAAGTCGATTTATAGTCACTCATTCCTTCAAAATGCTTATTACCCGCTTTAAATGGTTTTACAAT
* * **
6586 CTCATAATTGATTTTAAGCAGAATTTTTTTATATTTTTTTATCAAAATAAACTATAATTGAATGT
261 CTCATAATTGATTTTAAGCAGAATATTTTTATAGTTTTGGATCAAAATAAACTATAATTGAATGT
*
6651 CTACCTAGAGAAACTAGAAGAAAAAGACATTCATTGGGAAAAAGAGTCCATTTATACTCACTCAT
326 CTACCTAGAGAAACTAGAAGAAAAAGACATTCATTGGGAAAAAGAGTCCATTTATACTCACCCAT
* ** *
6716 TCTTTCAAAGCCTTATTACTCGATGTAAATGGTTTTATAATCTCATAATTGATT
391 TCCTTCAAAGCCTTATTACTCGATGTAAATAATTTTATAATCTCATAACTGATT
6770 GTAAGTNNNN
Statistics
Matches: 371, Mismatches: 64, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
512 6 0.02
513 287 0.77
514 73 0.20
515 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.36
Consensus pattern (503 bp):
AGAAAAAGACATTCATCGGCAAGAAAAGTCTATTTACAGCCAACCATTCTTTCAAAAGCCTTATT
ACTCACTTTAAATCATTTTATAATCTCATAATTAATTTTAAATTGAATTTCTTTTCATTTATGGC
CAAAACAAACTAGAATTGAATGTTTACATCAAGAAACAAAAAGAAAAAGACATTCATTGGCAAGA
AAAGTCGATTTATAGTCACTCATTCCTTCAAAATGCTTATTACCCGCTTTAAATGGTTTTACAAT
CTCATAATTGATTTTAAGCAGAATATTTTTATAGTTTTGGATCAAAATAAACTATAATTGAATGT
CTACCTAGAGAAACTAGAAGAAAAAGACATTCATTGGGAAAAAGAGTCCATTTATACTCACCCAT
TCCTTCAAAGCCTTATTACTCGATGTAAATAATTTTATAATCTCATAACTGATTTTTTGTTAAAT
TTTTTTACATTTTAGACTATAATTGAATGTCTACCTCGAGAAGTATAA
Found at i:8659 original size:341 final size:331
Alignment explanation
Indices: 7900--8897 Score: 647
Period size: 340 Copynumber: 3.0 Consensus size: 331
7890 NNNNNNNNNN
* *** * *
7900 GATTTTAAGTTGAATTT-TTTGACCTTTTTGGTTAAAACAGACTATAATTGAATG-TCTATC-CT
1 GATTTTAAGTTGAATTTGTTT-ACATTTTTAACTAAAACAGAATATAATTGAATGCT-TAACTC-
* * * * * * * * * * *
7962 GAAAAACCTGAAGAAAAAGACATTCATTGGCAACAAAAGTTCACTTATAGC-CACTCATTCTTTG
63 AAAAAACATGAAGAAAAA-ACATTAACTGACAAGAAAAATCCATTTACAGCTCACTCATTC-TTC
* * * * * ** *
8026 AAAAGCCTTATTGCTTGCTGTAAATGATTTTACAATCTTATAATTGATTTTAAGTTATATTTTTT
126 AAAAGCCTTATTACTCGCTATAAATGATTTTATAATCTCATAATTGATTTTAAACTGTATTTTTT
* ** * * * * * ***
8091 TACATTTTTTGTTAAAACCGACTATTGTTGAATGGCTACCTTGAGAAAAGT-G-AAGAAAAGGGA
191 TACATTTTTTGTTAAAACAGACTATAATTGAATGTCTAGCTCGA-AAAACTAGAAAAAAAAAACA
* * * * * * *
8154 TT-AAT-TGACAAAAAAATCCATTTATAGTCACCCATT-TCTTCAAAATCCTTATTACTCGCTTN
255 TTCACTCGGA-AGAAAAGTCCATTTATACTCACTCATTCT-TTCAAAAGCCTTATTACTCGCTT-
*
8216 NNNNNNNNNTATAAT-CTCATAATT
317 ---------TA-AATAGTCATAATT
* * **
8240 GATTTTAAGTTGAATTTGTTTACATTTTTAGCTAAAATAGAATATAATTGAATGCTTGTCTCAAA
1 GATTTTAAGTTGAATTTGTTTACATTTTTAACTAAAACAGAATATAATTGAATGCTTAACTCAAA
* * * * *
8305 AAACGTGAAGAAAAAAACATTAATTGACAAGAAAAGTTCATTTACA-CTCACTCATTCTTTCGAA
66 AAACATGAAG-AAAAAACATTAACTGACAAGAAAAATCCATTTACAGCTCACTCATTC-TTCAAA
***********
8369 AGCCTTATTACTCGCTGNNNNNNNNNNTATAATCTCATAATTGATTTTAAACTGTATTTTTTTAC
129 AGCCTTATTACTCGCTATAAATGATTTTATAATCTCATAATTGATTTTAAACTGTATTTTTTTAC
* * * * *
8434 ATTTTTT-TTAAAATATACTATAATTGAATGTCTATCTCTAAAAACTTGAAAAAAAAAACATTCA
194 ATTTTTTGTTAAAACAGACTATAATTGAATGTCTAGCTCGAAAAACTAGAAAAAAAAAACATTCA
* * *
8498 CTCGTAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAGGCCTTATTACTCGCTTTAAATAG
259 CTCGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATAG
8563 NNNNNNNNNNTCATAATT
324 ----------TCATAATT
* * * ** * *
8581 GATTTTAGGTTGAA-TTGTTTTAC-TTTTTAAATTAAAACAGACTATTGTTGAATGTTTAACTCG
1 GATTTTAAGTTGAATTTG-TTTACATTTTT-AACTAAAACAGAATATAATTGAATGCTTAACTCA
* ** * * * **********
8644 AGAAACATGAAGAAAAGGCATTCACTGGCAAGAAAAATCCATTTATAGNNNNNNNNNNCTTCAAA
64 AAAAACATGAAGAAAAAACATTAACTGACAAGAAAAATCCATTTACAGCTCACTCATTCTTCAAA
* * ** *
8709 AGCCTTATTACTCGCTATAAATGATTTTATACTCTTATAATTGATTTTAAGTTTTATTTTTTTAC
129 AGCCTTATTACTCGCTATAAATGATTTTATAATCTCATAATTGATTTTAAACTGTATTTTTTTAC
* * *
8774 ATTTTTTGTTAAAACAGACTATAATTGAATGTCTAGCTCGAGAAACTAGAAGAAAAAGACATTCA
194 ATTTTTTGTTAAAACAGACTATAATTGAATGTCTAGCTCGAAAAACTAGAAAAAAAAAACATTCA
* * *
8839 TTGGGAAGAAAAGTTCATTTATACTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTT
259 CTCGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTT
8898 NNNNNNNNNN
Statistics
Matches: 516, Mismatches: 117, Indels: 49
0.76 0.17 0.07
Matches are distributed among these distances:
330 3 0.01
331 2 0.00
338 5 0.01
339 26 0.05
340 258 0.50
341 220 0.43
342 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.36
Consensus pattern (331 bp):
GATTTTAAGTTGAATTTGTTTACATTTTTAACTAAAACAGAATATAATTGAATGCTTAACTCAAA
AAACATGAAGAAAAAACATTAACTGACAAGAAAAATCCATTTACAGCTCACTCATTCTTCAAAAG
CCTTATTACTCGCTATAAATGATTTTATAATCTCATAATTGATTTTAAACTGTATTTTTTTACAT
TTTTTGTTAAAACAGACTATAATTGAATGTCTAGCTCGAAAAACTAGAAAAAAAAAACATTCACT
CGGAAGAAAAGTCCATTTATACTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATAGTC
ATAATT
Found at i:8741 original size:21 final size:20
Alignment explanation
Indices: 8717--8757 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8707 AAAGCCTTAT
8717 TACTCGCTATAAATGATTTTA
1 TACTC-CTATAAATGATTTTA
* *
8738 TACTCTTATAATTGATTTTA
1 TACTCCTATAAATGATTTTA
8758 AGTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
TACTCCTATAAATGATTTTA
Found at i:8941 original size:171 final size:153
Alignment explanation
Indices: 8743--9069 Score: 232
Period size: 171 Copynumber: 2.0 Consensus size: 153
8733 TTTTATACTC
** * * *
8743 TTATAATTGATTTTAAGTTTTATTTTTTTACATTTTTTGTTAAAACAGACTATAATTG-AATGTC
1 TTATAATTGATTTTAAGTTAAATTTTTTAACATTTTTAGTTAAAACAGACTATAA-TGAAATATC
* * *
8807 TAGCTCGAGAAAC-TAGAAG-AAAAAGACATTCATTGGGAAGAAAAGTTCATTTATACTCACTCA
65 TACCTCAAGAAACAT-GAAGAAAAAAGA-ATTCATTGGGAAGAAAAGTTCATTTATACTCACCCA
8870 -TTCTTTCAAAAGCCTTATTACTCGCT
128 TTTC-TTCAAAAGCCTTATTACTCGCT
*** * **
8896 TTNNNNNNNNNNNNNNNNNNA-TAATTGATTTTAAGTTAAATTTTTTAACATTTTTAGTTAAAAC
1 TT---------------ATAATTGATT--TTAA--GTTAAATTTTTTAACATTTTTAGTTAAAAC
* *
8960 AGACTATAATGAAATATCTACCTCAAGAAACATGAAGAAAAAAGAATTTATTGGTAAGAAAAGTT
47 AGACTATAATGAAATATCTACCTCAAGAAACATGAAGAAAAAAGAATTCATTGGGAAGAAAAGTT
* * * *
9025 CATTTATAGTCTCCCATTTCTTCGAAAGCCTTATTACTCGAT
112 CATTTATACTCACCCATTTCTTCAAAAGCCTTATTACTCGCT
9067 TTA
1 TTA
9070 AATAGTTTTA
Statistics
Matches: 130, Mismatches: 21, Indels: 43
0.67 0.11 0.22
Matches are distributed among these distances:
153 2 0.02
167 4 0.03
168 1 0.01
169 2 0.02
170 2 0.02
171 108 0.83
172 11 0.08
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.36
Consensus pattern (153 bp):
TTATAATTGATTTTAAGTTAAATTTTTTAACATTTTTAGTTAAAACAGACTATAATGAAATATCT
ACCTCAAGAAACATGAAGAAAAAAGAATTCATTGGGAAGAAAAGTTCATTTATACTCACCCATTT
CTTCAAAAGCCTTATTACTCGCT
Found at i:8991 original size:341 final size:329
Alignment explanation
Indices: 8396--9496 Score: 701
Period size: 341 Copynumber: 3.2 Consensus size: 329
8386 NNNNNNNNNN
* *
8396 TATAATCTCATAATTGATTTTAAACTGTATTTTTTTACATTTTTT-TTAAAATATACTATAATTG
1 TATAATCTCATAATTGATTTTAAA-TTTATTTTTTTACATTTTTTGTTAAAACATACTATAATTG
* * * * *
8460 AATGTCTATCTCTAA-AAACTTGAAAAAAAAAACATTCACTCGTAAGAAAAGTCCATTTATAGTC
65 AATGTCTA-CTC-AAGAAACTTGAAGAAAAAAACATTCATTAGCAAGAAAAGTTCATTTATA-TC
* *
8524 ACTCATTCTTTCAAAGGCCTTATTACTCGCTTTAAATAGNNNNNNNNNNTCATAATTGATTTTAG
127 ACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATAG----------TCATAATTGATTTTAA
* ** * * *
8589 GTTGAATTGTTTTACTTTTTAAATTAAAACAGACTATTGTTGAATGTTTAACTCGAGAAACATGA
182 GTTAAATTGTTTTACTTTTTAAATTAAAACAGACTATTAATGAATATCTAACTCAAGAAACATGA
* * **********
8654 AG-AAAAGGCATTCACTGGCAAGAAAAATCCATTTATAGNNNNNNNNNNCTTCAAAAGCCTTATT
247 AGAAAAAAGAATTCACTGGCAAGAAAAATCCATTTATAGTCTCCCATTTCTTCAAAAGCCTTATT
*
8718 ACTCGCTATAAAT-GATTT
312 ACTCGATATAAATAG-TTT
* * * *
8736 TATACTCTTATAATTGATTTTAAGTTTTATTTTTTTACATTTTTTGTTAAAACAGACTATAATTG
1 TATAATCTCATAATTGATTTTAA-ATTTATTTTTTTACATTTTTTGTTAAAACATACTATAATTG
* * * * *
8801 AATGTCTAGCTCGAGAAACTAGAAGAAAAAGACATTCATTGGGAAGAAAAGTTCATTTATACTCA
65 AATGTCTA-CTCAAGAAACTTGAAGAAAAAAACATTCATTAGCAAGAAAAGTTCATTTATA-TCA
********
8866 CTCATTCTTTCAAAAGCCTTATTACTCGCTTTNNNNNNNNNNNNNNNNNNATAATTGATTTTAAG
128 CTCATTCTTTCAAAAGCCTTATTACTCGCTTT----------AAATAGTCATAATTGATTTTAAG
* *
8931 TTAAATT-TTTTAACATTTTT-AGTTAAAACAGACTA-TAATGAAATATCTACCTCAAGAAACAT
183 TTAAATTGTTTT-AC-TTTTTAAATTAAAACAGACTATTAATG-AATATCTAACTCAAGAAACAT
* * * * * *
8993 GAAGAAAAAAGAATTTATTGGTAAGAAAAGTTCATTTATAGTCTCCCATTTCTTCGAAAGCCTTA
245 GAAGAAAAAAGAATTCACTGGCAAGAAAAATCCATTTATAGTCTCCCATTTCTTCAAAAGCCTTA
*
9058 TTACTCGATTTAAATAGTTT
310 TTACTCGATATAAATAGTTT
* * * * *
9078 TATAATATCAAAATTGATTTTAAATTTAATTTTTTAC-TTTTTTGGTTAAAACATATTATAACTG
1 TATAATCTCATAATTGATTTTAAATTTATTTTTTTACATTTTTT-GTTAAAACATACTATAATTG
* ** * *
9142 AATGTCTACATTAAGAAACTTGAAGAAAAATTCATTCATTAGCAAGAAAA-ATAATTTATTATC-
65 AATGTCTAC-TCAAGAAACTTGAAGAAAAAAACATTCATTAGCAAGAAAAGTTCATTTA-TATCA
* * * * ** * *
9205 CT-ATTCCTTCAAAAGCCTTATTACNNNNNNNNNNTGGTTTTATATTCTCAAAATTGATGTTAAG
128 CTCATTCTTTCAAAAGCCTTATTAC----------TCGCTTTAAATAGTCATAATTGATTTTAAG
* *** * * * *
9269 TTCAAATTTTTTTACTTTTTTGGTTAAAACAAATTA-TAATTGAATGTCTACACT-GAGAAACAT
183 TT-AAATTGTTTTACTTTTTAAATTAAAACAGACTATTAA-TGAATATCTA-ACTCAAGAAACAT
* ** * * *
9332 GAAG-AAAAAGACATTCATTGATAA-AAAAGTCTATTTATTA-TCACCCA-TTCTTTCAAAAGCC
245 GAAGAAAAAAGA-ATTCACTGGCAAGAAAAATCCATTTA-TAGTCTCCCATTTC-TTCAAAAGCC
* * * *
9393 TTATTACTTGCTTTAAATGGTTT
307 TTATTACTCGATATAAATAGTTT
** * ** * *
9416 TGCAATCTCATAATTGATTATAAGATCAATTTTTTTACATTTTTCT-TTAAAACAGACT-TCTAT
1 TATAATCTCATAATTGATTTTAA-ATTTATTTTTTTACATTTTT-TGTTAAAACATACTAT-AAT
*
9479 TGAATATCTGACTCAAGA
63 TGAATGTCT-ACTCAAGA
9497 CACGTATAGA
Statistics
Matches: 603, Mismatches: 114, Indels: 89
0.75 0.14 0.11
Matches are distributed among these distances:
337 3 0.00
338 113 0.19
339 90 0.15
340 78 0.13
341 231 0.38
342 82 0.14
343 1 0.00
348 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.38
Consensus pattern (329 bp):
TATAATCTCATAATTGATTTTAAATTTATTTTTTTACATTTTTTGTTAAAACATACTATAATTGA
ATGTCTACTCAAGAAACTTGAAGAAAAAAACATTCATTAGCAAGAAAAGTTCATTTATATCACTC
ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATAGTCATAATTGATTTTAAGTTAAATTGTTTTA
CTTTTTAAATTAAAACAGACTATTAATGAATATCTAACTCAAGAAACATGAAGAAAAAAGAATTC
ACTGGCAAGAAAAATCCATTTATAGTCTCCCATTTCTTCAAAAGCCTTATTACTCGATATAAATA
GTTT
Found at i:9202 original size:20 final size:21
Alignment explanation
Indices: 9164--9202 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9154 AAGAAACTTG
*
9164 AAGAAAAATTCATTCATTAGC
1 AAGAAAAATTAATTCATTAGC
*
9185 AAGAAAAA-TAATTTATTA
1 AAGAAAAATTAATTCATTA
9203 TCCTATTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (21 bp):
AAGAAAAATTAATTCATTAGC
Found at i:9315 original size:169 final size:158
Alignment explanation
Indices: 9074--9400 Score: 347
Period size: 169 Copynumber: 2.0 Consensus size: 158
9064 GATTTAAATA
* * *
9074 GTTTTATAATATCAAAATTGATTTTAAATTTAATTTTTTACTTTTTTGGTTAAAACATATTATAA
1 GTTTTATAATATCAAAATTGATGTTAAATTAAATTTTTTACTTTTTTGGTTAAAACAAATTATAA
* * **
9139 CTGAATGTCTACATTAAGAAACTTGAAGAAAAATTCATTCATTAGCA-AGAAAAA-T-AATTTAT
66 CTGAATGTCTACACTAAGAAACATGAAGAAAAAGACATTCATT-G-ATA-AAAAAGTCAATTTAT
*
9201 TAT-CCTATTCCTTCAAAAGCCTTATTACNNNNNNNNNNTG
128 TATACCCATTCCTTCAAAAGCCTTATTAC----------TG
* * *
9241 GTTTTATATTCTCAAAATTGATGTTAAGTTCAAATTTTTTTACTTTTTTGGTTAAAACAAATTAT
1 GTTTTATAATATCAAAATTGATGTTAAATT-AAA-TTTTTTACTTTTTTGGTTAAAACAAATTAT
* * *
9306 AATTGAATGTCTACACTGAGAAACATGAAGAAAAAGACATTCATTGATAAAAAAGTCTATTTATT
64 AACTGAATGTCTACACTAAGAAACATGAAGAAAAAGACATTCATTGATAAAAAAGTCAATTTATT
*
9371 ATCACCCATTCTTTCAAAAGCCTTATTACT
129 AT-ACCCATTCCTTCAAAAGCCTTATTACT
9401 TGCTTTAAAT
Statistics
Matches: 138, Mismatches: 15, Indels: 20
0.80 0.09 0.12
Matches are distributed among these distances:
161 1 0.01
167 32 0.23
168 5 0.04
169 77 0.56
171 23 0.17
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.39
Consensus pattern (158 bp):
GTTTTATAATATCAAAATTGATGTTAAATTAAATTTTTTACTTTTTTGGTTAAAACAAATTATAA
CTGAATGTCTACACTAAGAAACATGAAGAAAAAGACATTCATTGATAAAAAAGTCAATTTATTAT
ACCCATTCCTTCAAAAGCCTTATTACTG
Found at i:9749 original size:170 final size:170
Alignment explanation
Indices: 7903--9941 Score: 525
Period size: 170 Copynumber: 12.0 Consensus size: 170
7893 NNNNNNNGAT
* * * *
7903 TTTAAGTTGAATT-TTTTGACCTTTTTGGTTAAAACAGACTATAATTGAATGTCTATCC-TGAAA
1 TTTAAGTTGAATTGTTTT-ACATTTTTGATTAAAACAGACTATAATTGAATGTCTA-CCACGAGA
* * * *
7966 AACCTGAAGAAAAAGACATTCATTGGCAACAAAAGTTCACTTATAGCCACTCATTCTTT-GAAAA
64 AACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCTTTCG-AAA
* * * * ** *
8030 GCCTTATTGCTTGCTGTAAATGATTTTACAATCTTATAATTGA
128 GCTTTATTGCGTGCTTTAAATGATTTTATAATCACATAATTCA
* * ** * **
8073 TTTTAAGTT-ATATTTTTTTACATTTTTTG-TTAAAACCGACTATTGTTGAATGGCTACCTTGAG
1 -TTTAAGTTGA-ATTGTTTTACA-TTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAG
** ** * ** * * * *
8136 AAAAGTGAAG-AAAAGGGATTAATTGACAA-AAAAATCCATTTATAGTCACCCATT-TCTTCAAA
63 AAACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCT-TTCGAA
* * * ********** * *
8198 ATCCTTATTAC-TCGCTTNNNNNNNNNNTATAATCTCATAATTGA
127 AGCTTTATTGCGT-GCTTTAAATGATTTTATAATCACATAATTCA
* * * ** * *
8242 TTTTAAGTTGAATT-TGTTTACATTTTT-AGCTAAAATAGAATATAATTGAATG-CTTGTCTCAA
1 -TTTAAGTTGAATTGT-TTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTC-TACCACGA
* * * * ** * *
8304 AAAACGTGAAGAAAAAAACATTAATTGACAAGAAAAGTTCATTTACA-CTCACTCATTCTTTCGA
62 GAAACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGC-CACTCATTCTTTCGA
* * *********** * *
8368 AAGCCTTATTAC-TCGCTGNNNNNNNNNNTATAATCTCATAATTGA
126 AAGCTTTATTGCGT-GCTTTAAATGATTTTATAATCACATAATTCA
** * * * * * * * * *
8413 TTTTAAACTGTATTTTTTTACATTTTT-TTTAAAATATACTATAATTGAATGTCTATCTCTAAAA
1 -TTTAAGTTGAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAGAA
* * * * * * *
8477 ACTTGAAAAAAAAAACATTCACTCGTAAGAAAAGTCCATTTATAGTCACTCATTCTTTC-AAAGG
65 ACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCTTTCGAAA-G
* * ********* *
8541 CCTTATTAC-TCGCTTTAAATAGNNNNNNNNNNT--CATAATTGA
129 CTTTATTGCGT-GCTTTAAAT-G-ATTTTATAATCACATAATTCA
* * ** * * *
8583 TTTTAGGTTGAATTGTTTTAC-TTTTTAAATTAAAACAGACTATTGTTGAATGTTTAACTCGAGA
1 -TTTAAGTTGAATTGTTTTACATTTTT-GATTAAAACAGACTATAATTGAATGTCTACCACGAGA
* * * * * ********* *
8647 AACATGAAG-AAAAGGCATTCACTGGCAAGAAAAATCCATTTATAGNNNNNNNNNNC-TTCAAAA
64 AACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAG-CCACTCATTCTTTCGAAA
* * * * ** *
8710 GCCTTATTAC-TCGCTATAAATGATTTTATACTCTTATAATTGA
128 GCTTTATTGCGT-GCTTTAAATGATTTTATAATCACATAATTCA
** * * *
8753 TTTTAAGTTTTATTTTTTTACATTTTTTG-TTAAAACAGACTATAATTGAATGTCTAGCTCGAGA
1 -TTTAAGTTGAATTGTTTTACA-TTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAGA
* *
8817 AA-CTAGAAGAAAAAGACATTCATTGGGAAGAAAAGTTCATTTATA-CTCACTCATTCTTTCAAA
64 AACCT-GAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGC-CACTCATTCTTTCGAA
* * ****************** *
8880 AGCCTTATTAC-TCGCTTTNNNNNNNNNNNNNNNNNNATAATTGA
127 AGCTTTATTGCGT-GCTTTAAATGATTTTATAATCACATAATTCA
* * * *
8924 TTTTAAGTTAAATT-TTTTAACATTTTT-AGTTAAAACAGACTATAA-TGAAATATCTACCTCAA
1 -TTTAAGTTGAATTGTTTT-ACATTTTTGA-TTAAAACAGACTATAATTG-AATGTCTACCACGA
* * * * * * *
8986 GAAACATGAAGAAAAAAGA-ATTTATTGGTAAGAAAAGTTCATTTATAGTCTCCCATT-TCTTCG
62 GAAACCTGAAG-AAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCT-TTCG
* * * * *
9049 AAAGCCTTATTAC-TCGATTTAAAT-AGTTTTATAAT-ATCAAAATTGA
125 AAAGCTTTATTGCGT-GCTTTAAATGA-TTTTATAATCA-CATAATTCA
* * * * * * * **
9095 TTTTAAATTTAATT-TTTTACTTTTTTGGTTAAAACATATTATAACTGAATGTCTA-CATTAAGA
1 -TTTAAGTTGAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCA-CGAGA
* ** * * * * * * *
9158 AACTTGAAGAAAAATTCATTCATTAGCAAGAAAAAT-AATTTATTA-TC-CT-ATTCCTTCAAAA
64 AACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTA-TAGCCACTCATTCTTTCGAAA
* * ********** * * * * *
9219 GCCTTATTACNNNNNNNNNNTGGTTTTATATTCTCAAAATTGA
128 GCTTTATTGCGTGCTTTAAATGATTTTATAATCACATAATTCA
* * * * * *
9262 TGTTAAGTTCAAATTTTTTTACTTTTTTGGTTAAAACAAATTATAATTGAATGTCTA-CACTGAG
1 T-TTAAGTT-GAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCAC-GAG
* ** * * * *
9326 AAACATGAAGAAAAAGACATTCATTGATAA-AAAAGTCTATTTATTA-TCACCCATTCTTTCAAA
63 AAACCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTA-TAGCCACTCATTCTTTCGAA
* * * * ** * *
9389 AGCCTTATTACTTGCTTTAAATGGTTTTGCAATCTCATAATTGA
127 AGCTTTATTGCGTGCTTTAAATGATTTTATAATCACATAATTCA
* * * ** * *
9433 TTATAAGATCAATTTTTTTACATTTTTCTTTAAAACAGACT-TCTATTGAATATCTGACTCA--A
1 TT-TAAGTTGAATTGTTTTACATTTTTGATTAAAACAGACTAT-AATTGAATGTCT-AC-CACGA
* * * * * * ** *
9495 GACACGT-ATAGAAAATGTCATTTATTGAGAAGAAAAGTGTATTTATAGACAC-CTATTCTTTC-
62 GAAACCTGA-AGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTC-ATTCTTTCG
********** *
9557 AANNNNNNNNNNAC-TCGCTTTAAATGGTTTTATAATCACATAATTCA
125 AA-AGCTTTATTGCGT-GCTTTAAATGATTTTATAATCACATAATTCA
* *
9604 TTTTAAGTAT-AATTGTTTTATATTTTTTATT-AAACAGACTATAATTGAATGTCTACCACGAGA
1 -TTTAAGT-TGAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAGA
* ** * *
9667 CATGTGAAGAAAAA-ATCATTCA-TGGGCAAGAAAAGTCCATTTATAGTCACTTATTCTTTCGAA
64 AACCTGAAGAAAAAGA-CATTCATTGGG-AAGAAAAGTCCATTTATAGCCACTCATTCTTTCGAA
* ** *
9730 AGCTTTATTGCGTGCTTTAAATGATTTTATATTCTTATAATTGA
127 AGCTTTATTGCGTGCTTTAAATGATTTTATAATCACATAATTCA
* * * * ** * *
9774 TTTAAGTTGAATTTTTTTACCTTTTTGGTTAAAATAGACTATAATTGGCTGTCTACCTCTAGAAA
1 TTTAAGTTGAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAGAAA
* * * * *
9839 CCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTTCATTTATTGCCACTCATTCTTGCAAAAGCC
66 CCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCTTTCGAAAGCT
* * ** * * *
9904 TAATTGCTTGCAGTACATAATTTTATAATCTCATAATT
131 TTATTGCGTGCTTTAAATGATTTTATAATCACATAATT
9942 GATTNNNNNN
Statistics
Matches: 1430, Mismatches: 352, Indels: 173
0.73 0.18 0.09
Matches are distributed among these distances:
166 1 0.00
167 43 0.03
168 23 0.02
169 229 0.16
170 605 0.42
171 494 0.35
172 33 0.02
173 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37
Consensus pattern (170 bp):
TTTAAGTTGAATTGTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCACGAGAAA
CCTGAAGAAAAAGACATTCATTGGGAAGAAAAGTCCATTTATAGCCACTCATTCTTTCGAAAGCT
TTATTGCGTGCTTTAAATGATTTTATAATCACATAATTCA
Found at i:10666 original size:169 final size:158
Alignment explanation
Indices: 10439--10744 Score: 318
Period size: 169 Copynumber: 1.9 Consensus size: 158
10429 AAAGAGAAAT
*
10439 GTAAAAAAATTTAACTTATAATCAATTATGAGATTGCAAAACCATTTAAAGCGAGTAATAAGGCT
1 GTAAAAAAATTTAACTTATAATCAATTATGAGATTACAAAACCATTTAAAGCGAGTAATAAGGCT
* *
10504 TTTGAAAGAAT-GGTCATAATAAATAGACTTTTT-TAT-C-AATGAATG-CCTTTTCTTCATGTT
66 TTTGAAAGAATAGG--ATAATAAAT-GA-TTTTTCT-TGCTAATGAATGTACTTTTCTTCAAGTT
10564 TCTCAATGTAGATNNNNNNNNNNAATCTGTTTTAACTAAAAAA
126 TCTCAATGTAGAT----------AATCTGTTTTAACTAAAAAA
* * * * *
10607 GTAAAAAAATTTGAACTTA-ACATCAGTTTTTAGATTATAAAACCATTTAAAGTGAGTAATAAGG
1 GTAAAAAAATTT-AACTTATA-ATCAATTATGAGATTACAAAACCATTTAAAGCGAGTAATAAGG
* *
10671 CTTTTGAAGGAATAGGATAATAAATGATTTTTCTTGCTAATGAATGTAGTTTTCTTCAAGTTTCT
64 CTTTTGAAAGAATAGGATAATAAATGATTTTTCTTGCTAATGAATGTACTTTTCTTCAAGTTTCT
*
10736 CATTGTAGA
129 CAATGTAGA
10745 CATTTAGTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
166 6 0.05
167 4 0.03
168 30 0.25
169 78 0.65
170 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.36
Consensus pattern (158 bp):
GTAAAAAAATTTAACTTATAATCAATTATGAGATTACAAAACCATTTAAAGCGAGTAATAAGGCT
TTTGAAAGAATAGGATAATAAATGATTTTTCTTGCTAATGAATGTACTTTTCTTCAAGTTTCTCA
ATGTAGATAATCTGTTTTAACTAAAAAA
Found at i:10716 original size:20 final size:21
Alignment explanation
Indices: 10688--10726 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10678 AGGAATAGGA
*
10688 TAATAAATG-ATTTTTCTTGC
1 TAATAAATGTAGTTTTCTTGC
*
10708 TAATGAATGTAGTTTTCTT
1 TAATAAATGTAGTTTTCTT
10727 CAAGTTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (21 bp):
TAATAAATGTAGTTTTCTTGC
Found at i:10766 original size:169 final size:170
Alignment explanation
Indices: 10591--11057 Score: 457
Period size: 170 Copynumber: 2.7 Consensus size: 170
10581 NNNNNNAATC
* * * *
10591 TGTTTTAACTAAAAAAGTAAAAAAATTTGAACTTAACATCAGTTTTTAGATTATAAAACCATTTA
1 TGTTTTAACTAAAAAAGTAAAAAAA-TTAAACTTAAAATCAATTTTGAGATTATAAAACCATTTA
* * * *
10656 AAGTGAGTAATAAGGCTTTTGAAGGAATAGGATA-ATAAATG-ATTTTTCTTGCTAATGAAT-GT
65 AAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACATAAATGAACTTTTCTTGCCAATGAATACT
* * *
10718 AGTTTTCTTCA-AGTTTC-TCATTGTAGACATTTAGTTATAATA
130 AG-TTTCCTCACA-TTTCTTCA-GGTAGACATTTAATTATAATA
* * * **
10760 TGTTTTAA-TCAAAAGAGTAAAAAAAATTAAACTTAAAATGAATTTTGATATTATAAAAATATTT
1 TGTTTTAACT-AAAAAAGT-AAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACCATTT
** *
10824 AAA-TCGAGTAATAAGGCTTTCAAAGGAATGGGAGACTATAAATGAACTTTTCTTGCCAATGAAT
64 AAAGT-GAGTAATAAGGCTTTTGAAGGAATAGGAGAC-ATAAATGAACTTTTCTTGCCAATGAAT
* * * *
10888 ACTTGTTTCCTCACATTTCTTGAGGTAGACATTTAATTATAGTC
127 ACTAGTTTCCTCACATTTCTTCAGGTAGACATTTAATTATAATA
* * * * * * * *
10932 TGTTTTAACGAAAAATGT-TAAAAATTCAACTTAAAATTAATTATGAGGTTATAAAACCATTTTA
1 TGTTTTAACTAAAAAAGTAAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACCATTTAA
* * * * *
10996 AGCGAGTAATAAGGCTTTTGAAGGAAT-GAGTGACTACAAATGGACTTTTCTTTCCAATGAAT
66 AGTGAGTAATAAGGCTTTTGAAGGAATAG-GAGAC-ATAAATGAACTTTTCTTGCCAATGAAT
11058 GCCNNNNNNN
Statistics
Matches: 244, Mismatches: 42, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
168 2 0.01
169 75 0.31
170 96 0.39
171 7 0.03
172 59 0.24
173 5 0.02
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (170 bp):
TGTTTTAACTAAAAAAGTAAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACCATTTAA
AGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACATAAATGAACTTTTCTTGCCAATGAATACTA
GTTTCCTCACATTTCTTCAGGTAGACATTTAATTATAATA
Found at i:11358 original size:171 final size:170
Alignment explanation
Indices: 10204--12092 Score: 1049
Period size: 171 Copynumber: 11.1 Consensus size: 170
10194 NNNNNNNNNN
* * *
10204 TGAATG-AGTTTTTCTTCACGTGTCTCGAGGTAGACATTCAATTATAGTCTG-TTTAACCAAAAA
1 TGAATGTA-TTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * * * ********** *
10267 TGTAAAAACATTCTACTTAAAATGAATTATGCGATTATAAAACCATTTAAANNNNNNNNNNATGC
65 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGC
* * * *
10332 TTTTGAAAGAATGGGTGTCTATAAATAGACTTTTCTTCCCAA
130 TTTTGAAAGAAT-GGAGACTATAAATGGACTTTTCTTGCCAA
* * * * ** * * * * * ** *
10374 TAAATG-ACATTTTCTAT-ACGTGTCTTGAGCCAAATATTCAATAAAAGTCTATTTTAAAGAGAA
1 TGAATGTA-TTTTTCT-TCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAA
* * ** *
10437 ATGTAAAAAAATTTAACTTATAATCAATTATGAGATTGCAAAACCATTTAAAGCGAGTAATAAGG
64 ATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGG
** * **
10502 CTTTTGAAAGAATGGTCA-TAATAAATAGACTTTT-TTATCAA
129 CTTTTGAAAGAATGGAGACT-ATAAATGGACTTTTCTTGCCAA
** * ** * *********** * * *
10543 TGAATG-CCTTTTCTTCATGTTTCTCAATGTAGATNNNNNNNNNNAATCTGTTTTAACTAAAAAA
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * * *
10607 GTAAAAAAATTTGAACTTAACATCAGTTTTTAGATTATAAAACCATTTAAAGT-GAGTAATAAGG
66 GTAAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-TCGAGTAATAAGG
* * * *
10671 CTTTTGAAGGAATAG-GA-TAATAAAT-GATTTTTCTTGCTAA
129 CTTTTGAAAGAATGGAGACT-ATAAATGGACTTTTCTTGCCAA
* * * * * * * *
10711 TGAATGTAGTTTTCTTCAAGTTTC-TCATTGTAGACATTTAGTTATAATATGTTTTAATCAAAAG
1 TGAATGTATTTTTCTTCAAGTTTCTTGA-GGTAGACATTCAATTATAGTCTGTTTTAACCAAAA-
* * * * **
10775 A-GTAAAAAAAATTAAACTTAAAATGAATTTTGATATTATAAAAATATTTAAATCGAGTAATAAG
64 ATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAG
* *
10839 GC-TTTCAAAGGAATGGGAGACTATAAATGAACTTTTCTTGCCAA
128 GCTTTTGAAA-GAAT-GGAGACTATAAATGGACTTTTCTTGCCAA
* * *
10883 TGAA--TACTTGTTTCCTCACA-TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACGAAA
1 TGAATGTA-TT-TTTCTTCA-AGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
* * * * *
10945 AATGT-TAAAAATTCAACTTAAAATTAATTATGAGGTTATAAAACCATTTTAAGCGAGTAATAAG
63 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAG
* * * *
11009 GCTTTTGAAGGAATGAGTGACTACAAATGGACTTTTCTTTCCAA
128 GCTTTTGAAAGAATG-GAGACTATAAATGGACTTTTCTTGCCAA
************* * ** *
11053 TGAATGCCNNNNNNNNNNTGTTTCTTGAGGTAAACATTCAACAATAGTCTGGTTTAACCAAAAAT
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
********** * *
11118 GTAAAAAAATTCAACTTAAAATNNNNNNNNNNATTATAAAACCATTTAAAACGAGTAATAAGCCT
66 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGCT
*
11183 TTTGAAAGAATGGACGACTATAAATGGACTTTTCATGCCAA
131 TTTGAAAGAATGGA-GACTATAAATGGACTTTTCTTGCCAA
* * *
11224 TGAATGTATTTTTCTTTAGGTTTTTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * ** * *
11289 GTAGAAAAATAT-AACTTACAATCAATTATGAGATTATTAAACTTTTTACATCGAGCAATAAGGC
66 GTAAAAAAAT-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGC
* * ********** *
11353 TTTTGAAAGAATGAGTGAGTNNNNNNNNNNTTTTCTTCCCAA
130 TTTTGAAAGAATG-GAGACTATAAATGGACTTTTCTTGCCAA
* * * * * *
11395 TGAATGTCTTTTTCTTCTAGTTTCTCGACGTAGACATTCAATTATAGTCTGTTTTGATCAAAAAT
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * ********** * *
11460 ATTAAAAACTTCAACTTANNNNNNNNNNTGAGATTATAAAACCATTTAAAGC-AGGTAATAAGGA
66 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGA-GTAATAAGGC
* *
11524 TTTT-AAAGGAATAAGAGACTATAAATGGACTTTTCTTGTCAA
130 TTTTGAAA-GAAT-GGAGACTATAAATGGACTTTTCTTGCCAA
*** * * ** * ** * *
11566 TGAATACCTTTTTCTTCTTA-TTTCTCGATATAGACATTTAACAATAATTTGTTTTAACCAAAAA
1 TGAATGTATTTTTCTTC-AAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
********** *
11630 TGTAAAAAAA-TCAACTTAAAATCAATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGC
65 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGC
* ** *
11694 TTTTGAAAGAATTGATGACTATAAATGGACTTTTCTTGAGAT
130 TTTTGAAAGAATGGA-GACTATAAATGGACTTTTCTTGCCAA
* *** ** *
11736 TGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAATTAT-GATCTGTTTTAACCAAAAA
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAG-TCTGTTTTAACCAAAAA
** * *
11800 TGTGAAAACAAATT-AACAGAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAG
65 TGT-AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAG
* ********* * * *
11864 GATTTTNNNNNNNNNNGTGACTATAAATAGACTTTTCTTGCCCA
128 GCTTTT-GAAAGAATGGAGACTATAAATGGACTTTTCTTGCCAA
** * * * * * *
11908 TGAATGCCTTTTTCTTCATGTTTCTTAAGGTAGACATTCAACTATAATCTGTTTTATCCAAAATT
1 TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * ** * * *
11973 GTAAAAAAAATTCAATTTAAAATCAATTATGAGATTGTAAAAGTATTTAAAGCGCGTAACAAGGC
66 GT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGC
* * * **
12038 TTTCT-AAATAATGGGTGACTTTAAATAAACTTTTCTTGCCAA
130 TTT-TGAAAGAAT-GGAGACTATAAATGGACTTTTCTTGCCAA
*
12080 TGAATGTCTTTTT
1 TGAATGTATTTTT
12093 NNNNNNNNNN
Statistics
Matches: 1286, Mismatches: 384, Indels: 96
0.73 0.22 0.05
Matches are distributed among these distances:
167 7 0.01
168 65 0.05
169 157 0.12
170 309 0.24
171 467 0.36
172 275 0.21
173 6 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TGAATGTATTTTTCTTCAAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGCT
TTTGAAAGAATGGAGACTATAAATGGACTTTTCTTGCCAA
Found at i:12072 original size:172 final size:172
Alignment explanation
Indices: 11488--12092 Score: 455
Period size: 172 Copynumber: 3.5 Consensus size: 172
11478 NNNNNNNNNN
* * ** ** * **
11488 TGAGATTATAAAACCATTTAAAGC-AGGTAATAAGGATTTTAAAGGAATAAGAGACTATAAATGG
1 TGAGATTATAAAACTATTTAAAGCGA-GTAACAAGGATTTTAAAATAATGGGTGACTATAAATAA
* ** * ** * ** * * * *
11552 ACTTTTCTTGTCAATGAATACCTTTTTCTTCTTATTTCTCGATATAGACATTTAACAATAATTTG
65 ACTTTTCTTGCCAATGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAACTATAATCTG
* **
11617 TTTTAACCAAAAATGT--AAAAAAATCAACTTAAAATCAATTA
130 TTTTAACCAAAAATGTGAAAAAAAATTAACAGAAAATCAATTA
********** * * * * * * **
11658 TGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAAGAATTGATGACTATAAATGGA
1 TGAGATTATAAAACTATTTAAAGCGAGTAACAAGGATTTTAAAATAATGGGTGACTATAAATAAA
** * * *
11723 CTTTTCTTGAGATTGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAATTATGATCTGT
66 CTTTTCTTGCCAATGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAACTATAATCTGT
*
11788 TTTAACCAAAAATGTGAAAACAAATTAACAGAAAATCAATTA
131 TTTAACCAAAAATGTGAAAAAAAATTAACAGAAAATCAATTA
* ********** *
11830 TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGATTTTNNNNNNNNNNGTGACTATAAATAGA
1 TGAGATTATAAAACTATTTAAAGCGAGTAACAAGGATTTTAAAATAATGGGTGACTATAAATAAA
* * ** * *
11895 CTTTTCTTGCCCATGAATGCCTTTTTCTTCATGTTTCTTAAGGTAGACATTCAACTATAATCTGT
66 CTTTTCTTGCCAATGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAACTATAATCTGT
* * ***
11960 TTTATCCAAAATTGT-AAAAAAAATTCAATTTAAAATCAATTA
131 TTTAACCAAAAATGTGAAAAAAAATT-AACAGAAAATCAATTA
* * * * *
12002 TGAGATTGTAAAAGTATTTAAAGCGCGTAACAAGGCTTTCT-AAATAATGGGTGACTTTAAATAA
1 TGAGATTATAAAACTATTTAAAGCGAGTAACAAGGATTT-TAAAATAATGGGTGACTATAAATAA
12066 ACTTTTCTTGCCAATGAATGTCTTTTT
65 ACTTTTCTTGCCAATGAATGTCTTTTT
12093 NNNNNNNNNN
Statistics
Matches: 334, Mismatches: 96, Indels: 8
0.76 0.22 0.02
Matches are distributed among these distances:
170 109 0.33
171 10 0.03
172 214 0.64
173 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (172 bp):
TGAGATTATAAAACTATTTAAAGCGAGTAACAAGGATTTTAAAATAATGGGTGACTATAAATAAA
CTTTTCTTGCCAATGAATGTCTTTTTCTTCATCCTTCTCAAGGTAGACAATCAACTATAATCTGT
TTTAACCAAAAATGTGAAAAAAAATTAACAGAAAATCAATTA
Found at i:13678 original size:172 final size:171
Alignment explanation
Indices: 13248--14654 Score: 1126
Period size: 172 Copynumber: 8.3 Consensus size: 171
13238 NNNNNNNNNN
*
13248 GAATGTCTACCTCAAGAAACATGAAGAAAAA-AGCATTTATTGGCAAGAAAAGTCTATTTATAGT
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCTATTTATAGT
* * * * * *
13312 CTCCCATTCCTTT-AAAAGCCTAATTACTCGA-TCTAAATAGTTTTATAATCTCAAAATTGATTT
65 CACCTATT-CTTTCAAAAGCCTTATTACTC-ACTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * * * * *
13375 TAAATTCGATTTTTTTTACTTTTTTAGTTAAAACATATTATAACT
128 TAAGTT-GAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* * * * *
13420 GAATGTCTACACT-GAGAAACATGAAGAAAAATG-TATTCATTAGCAAGAAAAGACCATTTATTA
1 GAATGTCTAC-CTCAAGAAACATGAAGAAAAA-GACATTCATTGGCAAGAAAAGTCTATTTA-TA
************** * *
13483 -TCANNNNNNNNNNNNNNAGCCTTATTACTCACTTTAAATGGTTTTATAATCTGAAAATTGATTT
63 GTCACCTATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTT
* *
13547 TAAGTTCG-ATTTTTTTAACTTTTTTGGTTAAAACAGATTATAATT
128 TAAGTT-GAATTTTTTT-ACATTTTTGGTTAAAACAGACTATAATT
** ** * *
13592 GAATGTCTATGTCAAGAAACGGGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTACTTATTGTC
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * * * *
13657 ACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGCTTTGTAATCTCATAATTCATTCTAA
66 ACCTATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * *
13722 G-TGTAATTTTCTAACATTTTTGGTT-AAACAAACTATAATT
131 GTTG-AATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* * * * *
13762 G-ATGTCTATCTCAAGAAACGTGAAGAAAAA-AGTATTCATGGGCAAGAAAAGTCCT-CTTATAG
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGT-CTATTTATAG
* * * *
13824 TCA-CTCATTCTTTCTAAAA-CCTTATTACGCATTTTAAATGATTTTATAATCTCATAATCGATT
64 TCACCT-ATTCTTTC-AAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATT
* * *
13887 TTAAGTTGAAGTCTTTTGCATTTTTGGTTAAAACAGACTATAATT
127 TTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* * * *
13932 GAATGTGTACTTCGAGAAACATGAAGAAAAAG--A--CATTGGCAAGAAAAGT-TCATTTACAG-
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCT-ATTTATAGT
* * **********
13991 CTACCCATTCTTTCAAAACCCTTATTACTCNNNNNNNNNNGTTTTATAATCTCATAATTGATTTT
65 C-ACCTATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTT
* * *
14056 AA-TGTGAATTTTTTTATATTTCTGGTTAAAATAGACTATAATT
129 AAGT-TGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* * * *
14099 GAATGTTTACCTCAAGAAACATGAAGAAAAAGACATTTATTGGCAAGAAAAGTTTATTTAAAGTC
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * * * * *
14164 ACCCATTCTTTCGAAAGCCTTGTTACGCGCTTTAAATGGTTTTACAATCTCATAATTGATTTCAA
66 ACCTATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
** * * * *
14229 GTTGAATTTTTTTGTA-TTCTGGATAAAACAGATTATAGTT
131 GTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* * *
14269 GAATGTCTACCTTAAGAAACATGAAGAAAAA-AGCATTCATGGGTAAGAAAAGTCTATTTATAGT
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCTATTTATAGT
* * *
14333 CA-CTAATTCCTTT-AAAATCCTTATTACTCACTTTAAATAGTTTTGTAATCTCAT-A---A--T
65 CACCT-ATT-CTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTT
* *
14390 TAA-TT---TTTTTTTCACATTTTTAGTTAAAATAGACTATAATT
128 TAAGTTGAATTTTTTT-ACATTTTTGGTTAAAACAGACTATAATT
* ** * * * * * * * *
14431 GAATGTTTACCTTGAGAAGCATGAAGGAAAAGACATTGAATCGTAAGAAAAATCCATTTATAGTC
1 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * ** *
14496 A-TTCATTCTTTCAACAGCCTTATTGCTGGCTTTAAAAGGTTTTATAATCTCATAATTGATTTTA
66 ACCT-ATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTA
* * * **
14560 AGTT-AATTTTTTTTCATTTTTGGTTAAAACAAATTATTGTT
130 AGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
* ** * *
14601 AAATGTCTATGTCGAGAAACGA-GAAGAAAAAGGCATTCATTGGCAAGAAAAGTC
1 GAATGTCTACCTCAAGAAAC-ATGAAGAAAAAGACATTCATTGGCAAGAAAAGTC
14655 CNNNNNNNNN
Statistics
Matches: 979, Mismatches: 206, Indels: 102
0.76 0.16 0.08
Matches are distributed among these distances:
160 7 0.01
161 5 0.01
162 109 0.11
163 4 0.00
164 3 0.00
165 1 0.00
166 8 0.01
167 126 0.13
168 8 0.01
169 124 0.13
170 211 0.22
171 143 0.15
172 226 0.23
173 4 0.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.37
Consensus pattern (171 bp):
GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
ACCTATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
GTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATT
Found at i:14038 original size:167 final size:158
Alignment explanation
Indices: 13865--14189 Score: 359
Period size: 167 Copynumber: 2.0 Consensus size: 158
13855 TTTTAAATGA
* *
13865 TTTTATAATCTCATAATCGATTTTAA-GTTGAAGTCTTTTGCATTTTTGGTTAAAACAGACTATA
1 TTTTATAATCTCATAATCGATTTTAATG-TGAAGTCTTTTACATTTCTGGTTAAAACAGACTATA
* * *
13929 ATTGAATGTGTACTTCGAGAAACATGAAGAAAAAGAC-ATTGGCAAGAAAAGTTCATTTACAG-C
65 ATTGAATGTGTACCTCAAGAAACATGAAGAAAAAGACTATTGGCAAGAAAAGTTCATTTAAAGTC
13992 TACCCATTCTTTCAAAACCCTTATTACTCNNNNNNNNNNG
130 -ACCCATTCTTTCAAAACCCTTATTACTC----------G
* * * * *
14032 TTTTATAATCTCATAATTGATTTTAATGTGAATTTTTTTATATTTCTGGTTAAAATAGACTATAA
1 TTTTATAATCTCATAATCGATTTTAATGTGAAGTCTTTTACATTTCTGGTTAAAACAGACTATAA
* *
14097 TTGAATGTTTACCTCAAGAAACATGAAGAAAAAGACATTTATTGGCAAGAAAAGTTTATTTAAAG
66 TTGAATGTGTACCTCAAGAAACATGAAGAAAAAGAC---TATTGGCAAGAAAAGTTCATTTAAAG
* * *
14162 TCACCCATTCTTTCGAAAGCCTTGTTAC
128 TCACCCATTCTTTCAAAACCCTTATTAC
14190 GCGCTTTAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
167 89 0.65
168 1 0.01
171 46 0.34
172 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.36
Consensus pattern (158 bp):
TTTTATAATCTCATAATCGATTTTAATGTGAAGTCTTTTACATTTCTGGTTAAAACAGACTATAA
TTGAATGTGTACCTCAAGAAACATGAAGAAAAAGACTATTGGCAAGAAAAGTTCATTTAAAGTCA
CCCATTCTTTCAAAACCCTTATTACTCG
Found at i:14467 original size:332 final size:331
Alignment explanation
Indices: 13248--14654 Score: 1055
Period size: 332 Copynumber: 4.2 Consensus size: 331
13238 NNNNNNNNNN
* *
13248 GAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTTATTGGCAAGAAAAGTCTATTTATAGTC
1 GAATGTCTATCTCAAGAAACATGAAG-AAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * * * * *
13313 TCCCATTCCTTTAAAAGCCTAATTACTCGA-TCTAAATAGTTTTATAATCTCAAAATTGATTTTA
65 -ACTATTCCTTTAAAACCCTTATTACTC-ACTTTAAATAGTTTTGTAATCTC---A-T-A-ATT-
* * * * * * * * *
13377 AATTCGATTTTTTTTACTTTTTTAGTTAAAACATATTATAACTGAATGTCTACACT-GAGAAACA
121 AATT--ATTTTTTTCACATTTTTGGTTAAAATAGACTATAATTGAATGTTTAC-CTCAAGAAACA
* * * * * *************
13441 TGAAGAAAAATG-TATTCATTAGCAAGAAAAGACCATTTATTA-TCANNNNNNNNNNNNNNAGCC
183 TGAAGGAAAA-GACATTCATTGGCAAGAAAAGTCTATTTA-TAGTCA-CTCATTCTTTCAAAGCC
* * * *
13504 TTATTACTCACTTTAAATGGTTTTATAATCTGAAAATTGATTTTAAGTTCG-ATTTTTTT-AACT
245 TTATTACGCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-GAATTTTTTTGTA--
13567 TTTTTGGTTAAAACAGATTATAATT
307 TTTTTGGTTAAAACAGATTATAATT
* ** * *
13592 GAATGTCTATGTCAAGAAACGGGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTACTTATTGTC
1 GAATGTCTATCTCAAGAAACATGAAGAAAAAG-CATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * * * *
13657 ACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGCTTTGTAATCTCATAATTCATTCTAA
65 A-CTATTCCTTTAAAACCCTTATTACTCACTTTAAATAGTTTTGTAATCTCATAATT-AAT-T-A
* * * *
13722 GTGTAATTTTCTAACATTTTTGGTTAAACA-A-ACTATAATTG-ATGTCTATCTCAAGAAACGTG
126 -T-T--TTTT-TCACATTTTTGGTTAAA-ATAGACTATAATTGAATGTTTACCTCAAGAAACATG
* * * * *
13784 AA-GAAAAAAGTATTCATGGGCAAGAAAAGTCCT-CTTATAGTCACTCATTCTTTCTAAAACCTT
185 AAGGAAAAGA-CATTCATTGGCAAGAAAAGT-CTATTTATAGTCACTCATTCTTTC-AAAGCCTT
* * * * * *
13847 ATTACGCATTTTAAATGATTTTATAATCTCATAATCGATTTTAAGTTGAAGTCTTTTGCATTTTT
247 ATTACGCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGTATTTTT
*
13912 GGTTAAAACAGACTATAATT
312 GGTTAAAACAGATTATAATT
* * *
13932 GAATGTGTA-CTTCGAGAAACATGAAGAAAAAG-A--CATTGGCAAGAAAAGT-TCATTTACAG-
1 GAATGTCTATC-TCAAGAAACATGAAGAAAAAGCATTCATTGGCAAGAAAAGTCT-ATTTATAGT
* ********** *
13991 CTACCCATT-CTTTCAAAACCCTTATTACTCNNNNNNNNNNGTTTTATAATCTCATAATTGATTT
64 C-A-CTATTCCTTT-AAAACCCTTATTACTCACTTTAAATAGTTTTGTAATCTCAT-A---A--T
* *
14055 TAATGTGAATTTTTTT-ATATTTCTGGTTAAAATAGACTATAATTGAATGTTTACCTCAAGAAAC
120 TAAT-T--ATTTTTTTCACATTTTTGGTTAAAATAGACTATAATTGAATGTTTACCTCAAGAAAC
* * * * *
14119 ATGAAGAAAAAGACATTTATTGGCAAGAAAAGTTTATTTAAAGTCACCCATTCTTTCGAAAGCCT
182 ATGAAGGAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTCACTCATTCTTTC-AAAGCCT
* * * * *
14184 TGTTACGCGCTTTAAATGGTTTTACAATCTCATAATTGATTTCAAGTTGAATTTTTTTGTA-TTC
246 TATTACGCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGTATTTT
* *
14248 TGGATAAAACAGATTATAGTT
311 TGGTTAAAACAGATTATAATT
* * * *
14269 GAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATGGGTAAGAAAAGTCTATTTATAGTC
1 GAATGTCTATCTCAAGAAACATGAAG-AAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTC
*
14334 ACTAATTCCTTTAAAATCCTTATTACTCACTTTAAATAGTTTTGTAATCTCATAATTAATT-TTT
65 ACT-ATTCCTTTAAAACCCTTATTACTCACTTTAAATAGTTTTGTAATCTCATAATTAATTATTT
* ** *
14398 TTTTCACATTTTTAGTTAAAATAGACTATAATTGAATGTTTACCTTGAGAAGCATGAAGGAAAAG
129 TTTTCACATTTTTGGTTAAAATAGACTATAATTGAATGTTTACCTCAAGAAACATGAAGGAAAAG
* * * * * * * * *
14463 ACATTGAATCGTAAGAAAAATCCATTTATAGTCATTCATTCTTTCAACAGCCTTATTGCTG-GCT
194 ACATTCATTGGCAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAA-AGCCTTATTAC-GCACT
*
14527 TTAAAAGGTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTT-TCATTTTTGGTTAAAAC
257 TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGT-ATTTTTGGTTAAAAC
* **
14590 AAATTATTGTT
321 AGATTATAATT
* * *
14601 AAATGTCTATGTCGAGAAACGA-GAAGAAAAAGGCATTCATTGGCAAGAAAAGTC
1 GAATGTCTATCTCAAGAAAC-ATGAAGAAAAA-GCATTCATTGGCAAGAAAAGTC
14655 CNNNNNNNNN
Statistics
Matches: 847, Mismatches: 166, Indels: 112
0.75 0.15 0.10
Matches are distributed among these distances:
330 1 0.00
331 24 0.03
332 193 0.23
333 2 0.00
334 1 0.00
335 11 0.01
336 69 0.08
337 55 0.06
338 129 0.15
339 9 0.01
340 65 0.08
341 151 0.18
342 24 0.03
343 21 0.02
344 92 0.11
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.37
Consensus pattern (331 bp):
GAATGTCTATCTCAAGAAACATGAAGAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCA
CTATTCCTTTAAAACCCTTATTACTCACTTTAAATAGTTTTGTAATCTCATAATTAATTATTTTT
TTCACATTTTTGGTTAAAATAGACTATAATTGAATGTTTACCTCAAGAAACATGAAGGAAAAGAC
ATTCATTGGCAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAGCCTTATTACGCACTTTAA
ATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGTATTTTTGGTTAAAACAGATT
ATAATT
Found at i:14492 original size:162 final size:162
Alignment explanation
Indices: 14252--14558 Score: 370
Period size: 162 Copynumber: 1.9 Consensus size: 162
14242 GTATTCTGGA
* * * *
14252 TAAAACAGATTATAGTTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATGGGTAAGA
1 TAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTAATGCGTAAGA
* * * *
14317 AAAGTCTATTTATAGTCACTAATTCCTTT-AAAATCCTTATTACTCACTTTAAATA-GTTTTGTA
66 AAAATCCATTTATAGTCACTAATT-CTTTCAAAAGCCTTATTACTCACTTTAAA-AGGTTTTATA
14380 ATCTCATAATTAATTTTTTTTTCACATTTTTAGT
129 ATCTCATAATTAATTTTTTTTTCACATTTTTAGT
* * * * *
14414 TAAAATAGACTATAATTGAATGTTTACCTTGAGAAGCATGAAG-GAAAAGACATTGAAT-CGTAA
1 TAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAG-CATT-AATGCGTAA
* * * * **
14477 GAAAAATCCATTTATAGTCATTCATTCTTTCAACAGCCTTATTGCTGGCTTTAAAAGGTTTTATA
64 GAAAAATCCATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATA
*
14542 ATCTCATAATTGATTTT
129 ATCTCATAATTAATTTT
14559 AAGTTAATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
161 10 0.08
162 109 0.90
163 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (162 bp):
TAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTAATGCGTAAGA
AAAATCCATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAAT
CTCATAATTAATTTTTTTTTCACATTTTTAGT
Found at i:15447 original size:169 final size:170
Alignment explanation
Indices: 14756--15635 Score: 467
Period size: 170 Copynumber: 5.2 Consensus size: 170
14746 NNNNNNNNNN
* * * * ** *
14756 TAAATGGTTTTATAATCTCATAATTGATTGTAAGTTGTATTTTTCTATA-TTTT-TGGTTAAAAC
1 TAAATAGTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTT-TTTACTTTTATGGTTAAAAC
* * * * * * * * * *
14819 AGACTATAATTGGATATCTACCTCGAGAAACCTAAAGAAAAAGACATTCATTGGCATGAAAAGTC
65 AGAATATAACTGAATGTCTACATTGAGAAACATGAAGAAAAAGACATTCATTAGCA-AAAAAG-C
* * * *
14884 CATTTA-TGTCACTCATT-CTGTTAAAAGCCTTATTACTCATTT
128 CATTTATTATCACCCATTCCT-TCAAAAGCCTTATTACTCACTT
* * **
14926 TAAATTA-TTTTATAATCTC-ATATATGATTTTAAGTAGAA-TTTTTTTACATTTT-TGGTTAAA
1 TAAA-TAGTTTTATAATCTCAAAAT-TGATTTTAAATTCAATTTTTTTTAC-TTTTATGGTTAAA
* *** * * * *
14987 ACAGATTATTGTTGAATATCTATC-TCGAGAAACGTGAA-AAAAAG-CATTCATT-GGAAAGAAA
63 ACAGAATATAACTGAATGTCTA-CATTGAGAAACATGAAGAAAAAGACATTCATTAGCAAA-AAA
* * * * *
15048 GGTCCATTT-GTAGTCATCCATTCTTTCAAAAGACTTATTACTCATTT
126 -G-CCATTTATTA-TCACCCATTCCTTCAAAAGCCTTATTACTCACTT
* ********** * * * * * *
15095 TAAATGGTTNNNNNNNNNNATAAA-TAATTTTAAGTTGAATTTTATATA-TTTT-TTGTTAAAAC
1 TAAATAGTTTTATAATCTCA-AAATTGATTTTAAATTCAATTTTTTTTACTTTTATGGTTAAAAC
* * * ** ** * * *
15157 A-AACTATAATTAAATGTCTACCTCAAGAAATGTGAGGAAAAA-AGTATTCATTGGCAAGAAAAG
65 AGAA-TATAACTGAATGTCTACATTGAGAAACATGAAGAAAAAGA-CATTCATTAGCAA-AAAAG
* *****
15220 TTCATTTA-TAGTCTA-CCATTCCTTCAAAAGCCTTATTACTTGNNN
127 -CCATTTATTA-TC-ACCCATTCCTTCAAAAGCCTTATTACTCACTT
******* * *
15265 NNNNNNNTTTTATAATCTCAAAATTGATTTTAAATTTAA-TTTTTTTACTTTTTTGGTTAAAACA
1 TAAATAGTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTTTTTACTTTTATGGTTAAAACA
* * *
15329 TAATATAACTGAATGTCTACATTGAGAAACATGAAGACAAATG-CATTCATTAGCAAGCGAAA-C
66 GAATATAACTGAATGTCTACATTGAGAAACATGAAGA-AAAAGACATTCATTAGCAA--AAAAGC
**
15392 CATTTATTATCA-CCATTCCTTCAAAAGCCTTATTGTTCACTT
128 CATTTATTATCACCCATTCCTTCAAAAGCCTTATTACTCACTT
* * *
15434 TAAATAGTTTTATAGTCTCAAAATTGATGTTAAGTTCAATTTTTTTTTTACTTTTATGGTTAAAA
1 TAAATAGTTTTATAATCTCAAAATTGATTTTAAATTCAA--TTTTTTTTACTTTTATGGTTAAAA
* * * * *
15499 TAGATTATAATTGAATGTCTACATTGAGAAACATGAAGAAAAAGACATTCATTGGTAAAAAAGTC
64 CAGAATATAACTGAATGTCTACATTGAGAAACATGAAGAAAAAGACATTCATTAGCAAAAAAG-C
* **
15564 TATTTATTATCACCCATTCCTTCAAAAGCCTTATTACTCGTTT
128 CATTTATTATCACCCATTCCTTCAAAAGCCTTATTACTCACTT
* ** *
15607 TAAATGGTTTTGCAATCTCATAATTGATT
1 TAAATAGTTTTATAATCTCAAAATTGATT
15636 ATAANNNNNN
Statistics
Matches: 541, Mismatches: 131, Indels: 73
0.73 0.18 0.10
Matches are distributed among these distances:
166 1 0.00
167 7 0.01
168 58 0.11
169 124 0.23
170 149 0.28
171 64 0.12
172 89 0.16
173 49 0.09
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.39
Consensus pattern (170 bp):
TAAATAGTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTTTTTACTTTTATGGTTAAAACA
GAATATAACTGAATGTCTACATTGAGAAACATGAAGAAAAAGACATTCATTAGCAAAAAAGCCAT
TTATTATCACCCATTCCTTCAAAAGCCTTATTACTCACTT
Found at i:15550 original size:172 final size:169
Alignment explanation
Indices: 15272--15634 Score: 444
Period size: 172 Copynumber: 2.1 Consensus size: 169
15262 NNNNNNNNNN
* * * *
15272 TTTTATAATCTCAAAATTGATTTTAAATTTAATTTTTTTACTTTTTTGGTTAAAACATAATATAA
1 TTTTATAATCTCAAAATTGATGTTAAATTCAATTTTTTTACTTTTATGGTTAAAACAGAATATAA
* *
15337 CTGAATGTCTACATTGAGAAACATGAAGACAAATGCATTCATTAGCAAGCGAAA-CCATTTATTA
66 CTGAATGTCTACATTGAGAAACATGAAGACAAAAGCATTCATTAGCAA--AAAAGCCATTTATTA
15401 TCA-CCATTCCTTCAAAAGCCTTATTGTTCACTTTAAATAG
129 TCACCCATTCCTTCAAAAGCCTTATTGTTCACTTTAAATAG
* * * *
15441 TTTTATAGTCTCAAAATTGATGTTAAGTTCAATTTTTTTTTTACTTTTATGGTTAAAATAGATTA
1 TTTTATAATCTCAAAATTGATGTTAAATTCAA---TTTTTTTACTTTTATGGTTAAAACAGAATA
* * * *
15506 TAATTGAATGTCTACATTGAGAAACATGAAGA-AAAAGACATTCATTGGTAAAAAAGTCTATTTA
63 TAACTGAATGTCTACATTGAGAAACATGAAGACAAAAG-CATTCATTAGCAAAAAAG-CCATTTA
** ** *
15570 TTATCACCCATTCCTTCAAAAGCCTTATTACTCGTTTTAAATGG
126 TTATCACCCATTCCTTCAAAAGCCTTATTGTTCACTTTAAATAG
** *
15614 TTTTGCAATCTCATAATTGAT
1 TTTTATAATCTCAAAATTGAT
15635 TATAANNNNN
Statistics
Matches: 164, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
169 28 0.17
170 3 0.02
171 4 0.02
172 80 0.49
173 49 0.30
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (169 bp):
TTTTATAATCTCAAAATTGATGTTAAATTCAATTTTTTTACTTTTATGGTTAAAACAGAATATAA
CTGAATGTCTACATTGAGAAACATGAAGACAAAAGCATTCATTAGCAAAAAAGCCATTTATTATC
ACCCATTCCTTCAAAAGCCTTATTGTTCACTTTAAATAG
Found at i:16035 original size:171 final size:170
Alignment explanation
Indices: 15713--16675 Score: 656
Period size: 171 Copynumber: 5.7 Consensus size: 170
15703 ATAGATACCT
* * * * * * * *
15713 ATTCTTTCAAAAGCATTATTACTCACTTTAAATGGTTTTGTAATCGT-ATAATTCATTTTAAG-T
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATC-TCATAATTGATTTTAAGTT
* * * ** * *
15776 AGAATGTTTTTACAGTTTTT-ATT-AAACAGACTATAATTGAATGTCTACCTCAAGACACGTGAA
65 A-TATTTTTTTACA-TTTTTGGTTAAAACAGACTATAATTGAATGTCTA-CTTGAGAAACCTGAA
* * * * **
15839 GAAAACA-ATATTCATGGGGAAGAAAACTCCATTTATAGTCATTC
127 GAAAA-AGACATTCATTGGCAAGAAAAATCCATTTATAGTCACCC
* * * * ***
15883 ATTCTTTCAAAAACCTTATTAAGCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGNNN
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTTA
******* * *
15948 NNNNNNNTTACCTTTTTGGTTAAAACAGACTATAATTGAATGTCTAGCTTAAGAAACCTGAAGAA
66 TATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTA-CTTGAGAAACCTGAAGAA
* ** ****
16013 AAAGACATTCATTGGCAAGAAAAGTTTATTTATAG-CNNNNN
130 AAAGACATTCATTGGCAAGAAAAATCCATTTATAGTC-ACCC
***** * ** *
16054 NNNNNTTCAAAAGCCTTATTGCTTGCTGTAAATGATTTTATAATCTCATAAATGATTTTAAGTTA
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTTA
* * ** * *
16119 TATTTTTTTACATTTTTTGTTAAAAGAGACTATTGTTGAATGCCTACTTTGAGAAACGTGAAG-A
66 TATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTAC-TTGAGAAACCTGAAGAA
** *
16183 AAAGGGATTCATTGACAAGAAAAATCCATTTATAGTCACCC
130 AAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACCC
* * * * * **********
16224 ATTCCTTCAACATCCTTAGTACTCGCTTTAAATGATTTTATAATCTCATAANNNNNNNNNNGTTG
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTT-
* * * **
16289 A-ATTGTTTTACATTTTTGGTTAAAACAGACTATTATTGAATG-CTTAGCTCGAGAAATATGAAG
65 ATATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTC-TA-CTTGAGAAACCTGAAG
*
16352 AAAACG-CATTCATTGGCAAGAAAAATCCATTTATAGTCA-CC
128 AAAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACCC
* * *
16393 ATTCCTTCAAAAGCCTTATTACTCGCTGTAAATGATTTTATAATTTCATAATTGATTTTAAGTTT
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTTA
* ** * *
16458 TATTTTTTTATATTTTTTATTAAAACAGACTATAATTAAATGTCTATTTCGAGAAA-CTAGAAGA
66 TATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACTT-GAGAAACCT-GAAGA
* * * * * *
16522 CAAAGACATTCATTGGGAATAAAAGTTCATTTATAGTCACTC
129 AAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACCC
* *********** * ** *
16564 ATTCTTTCAAAAGCNNNNNNNNNNACTTTAAATGGCTTTATAATCTCATAATTCATTTTAAGTTG
1 ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTT-
* * * *
16629 A-ATTTTTTAACATTTTTAGTTAAAACAGACTATAATTAAATATCTAC
65 ATATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTAC
16676 CTCAAGAAAC
Statistics
Matches: 614, Mismatches: 160, Indels: 37
0.76 0.20 0.05
Matches are distributed among these distances:
168 2 0.00
169 109 0.18
170 246 0.40
171 257 0.42
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.37
Consensus pattern (170 bp):
ATTCCTTCAAAAGCCTTATTACGCGCTGTAAATGATTTTATAATCTCATAATTGATTTTAAGTTA
TATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACTTGAGAAACCTGAAGAAA
AAGACATTCATTGGCAAGAAAAATCCATTTATAGTCACCC
Found at i:16559 original size:170 final size:168
Alignment explanation
Indices: 15713--16685 Score: 747
Period size: 170 Copynumber: 5.7 Consensus size: 168
15703 ATAGATACCT
* * * * * *
15713 ATTCTTTCAAAAGCATTATTACTCACTTTAAATGGTTTTGTAATCGT-ATAATTCATTTTAAGTA
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATC-TCATAATTGATTTTAAGTT
* * * * * *
15777 GAATGTTTTTACAGTTTTTATT-AAACAGACTATAATTGAATGTCTACCTCAAGACACGTGAAGA
65 GAATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAAC-TGAAGA
* * * * * *
15841 AAACAATATTCATGGGGAAGAAAACTCCATTTATAGTCATTC
129 AAA-GACATTCATTGGCAAGAAAAATCCATTTATAGTCA-CC
* ** ***
15883 ATTCTTTCAAAAACCTTATTAAGCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGNNN
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
******* * * *
15948 NNNNNNNTTACCTTTTTGGTTAAAACAGACTATAATTGAATGTCTAGCTT-AAGAAACCTGAAGA
66 AATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTA-CTTCGAGAAA-CTGAAG-
* ** ***
16012 AAAAGACATTCATTGGCAAGAAAAGTTTATTTATAG-CNNNNN
128 AAAAGACATTCATTGGCAAGAAAAATCCATTTATAGTC--ACC
***** * * * *
16054 NNNNNTTCAAAAGCCTTATTGCTTGCTGTAAATGATTTTATAATCTCATAAATGATTTTAAGTT-
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
* ** * *
16118 ATATTTTTTTACATTTTTTGTTAAAAGAGACTATTGTTGAATGCCTACTTTGAGAAACGTGAAGA
66 A-ATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAAC-TGAAGA
** *
16183 AAAGGGATTCATTGACAAGAAAAATCCATTTATAGTCACCC
129 AAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCA-CC
* * * * **********
16224 ATTCCTTCAACATCCTTAGTACTCGCTTTAAATGATTTTATAATCTCATAANNNNNNNNNNGTTG
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
* * * *
16289 AATTGTTTTACATTTTTGGTTAAAACAGACTATTATTGAATG-CTTAGC-TCGAGAAATATGAAG
66 AATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTC-TA-CTTCGAGAAA-CTGAAG
16352 AAAACG-CATTCATTGGCAAGAAAAATCCATTTATAGTCACC
128 AAAA-GACATTCATTGGCAAGAAAAATCCATTTATAGTCACC
* * * *
16393 ATTCCTTCAAAAGCCTTATTACTCGCTGTAAATGATTTTATAATTTCATAATTGATTTTAAGTTT
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
* * * * *
16458 TATTTTTTTATATTTTTTATTAAAACAGACTATAATTAAATGTCTATTTCGAGAAACTAGAAGAC
66 AATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAACT-GAAGA-
* * * *
16523 AAAGACATTCATTGGGAATAAAAGTTCATTTATAGTCACTC
129 AAAGACATTCATTGGCAAGAAAAATCCATTTATAGTCAC-C
*********** ** *
16564 ATTCTTTCAAAAGCNNNNNNNNNNACTTTAAATGGCTTTATAATCTCATAATTCATTTTAAGTTG
1 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
* * * * * *
16629 AATTTTTTAACATTTTTAGTTAAAACAGACTATAATTAAATATCTACCTCAAGAAAC
66 AATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAAC
16686 ATNNNNNNNN
Statistics
Matches: 624, Mismatches: 156, Indels: 45
0.76 0.19 0.05
Matches are distributed among these distances:
168 1 0.00
169 104 0.17
170 260 0.42
171 252 0.40
172 7 0.01
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.37
Consensus pattern (168 bp):
ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTG
AATTTTTTTACATTTTTTGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAACTGAAGAAA
AGACATTCATTGGCAAGAAAAATCCATTTATAGTCACC
Found at i:17555 original size:172 final size:171
Alignment explanation
Indices: 17372--17730 Score: 436
Period size: 172 Copynumber: 2.1 Consensus size: 171
17362 NNNNNNNNNN
* * * *
17372 AATTTTTTTTACATTTTTGGATAAAACAGA-TTATAGTTGAATGTCTACCTC-AGGAAACATGCA
1 AATTTTTTTTACATTTTTAGATAAAACAGACTT-TAATTGAATGCCTACCTCGA-GAAACATGAA
* ** * * *
17435 GAAAAAGGCATTCATGGGGGAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAATCCTTATTA
64 GAAAAAGACATTCATGGGCAAGAAAAGTCCATTCATAGTCACCCATTCCTTTAAAAACCTTATTA
*
17500 TTCACTTTAAATAGTTTTATAATCTT-ATAATTGATTTTTTGTT
129 CTCACTTTAAATAGTTTTATAAT-TTCATAATTGATTTTTTGTT
* **
17543 AATTTGTTTTTACATTTTTAGTTAAAACAGACTTTAATTGAATGCCTACCTCGAGAAGTATGAAG
1 AATTT-TTTTTACATTTTTAGATAAAACAGACTTTAATTGAATGCCTACCTCGAGAAACATGAAG
* * ** *
17608 ACAAAGACATTCATTGGCAAGAAAAGTCCATTCATAGTCATTCATTCTTTTAAAAACCTTATTAC
65 AAAAAGACATTCATGGGCAAGAAAAGTCCATTCATAGTCACCCATTCCTTTAAAAACCTTATTAC
* * ***
17673 TCATTTTAAATGGTTTTATAATTTCATAATTGATTTTAAATT
130 TCACTTTAAATAGTTTTATAATTTCATAATTGATTTTTTGTT
*
17715 GATTTTTTTTACATTT
1 AATTTTTTTTACATTT
17731 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
171 18 0.11
172 138 0.87
173 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (171 bp):
AATTTTTTTTACATTTTTAGATAAAACAGACTTTAATTGAATGCCTACCTCGAGAAACATGAAGA
AAAAGACATTCATGGGCAAGAAAAGTCCATTCATAGTCACCCATTCCTTTAAAAACCTTATTACT
CACTTTAAATAGTTTTATAATTTCATAATTGATTTTTTGTT
Found at i:19507 original size:170 final size:169
Alignment explanation
Indices: 18031--20160 Score: 737
Period size: 170 Copynumber: 12.5 Consensus size: 169
18021 NNNNNNTCGA
* * * * *
18031 TGTAAATAGTTTTATAATCTCATAATTGATTGTAAGTT-ATATTTTTCTACATTTTTAG-CACAA
1 TGTAAATAATTTTATAATCTCATAATTAATT-TAAGTTGA-ATTTTTTTATATTTTT-GTTA-AA
* * *
18094 ACAGACTATAATTGAATATCTACCTCAAGAAACCTAAAGAAAAAGACATTCATTGG-AATGAAAA
62 ATAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAA-GAAAA
* * ** *
18158 GTCCATTTATAGTCACCCATTCTTTCAAAAG-ACTTATTACTTGT
126 GTTCATTTATAGTCACTCATTCTTTCAAAAGCA-TTATTACGCGC
* ** * ********** * * **
18202 TTTAAATGGTTTTCTAANNNNNNNNNNGATTTTAAGTTGAATTTTTTTACATTTAAGGTTAAAAT
1 TGTAAATAATTTTATAA-TCTCATAATTAATTTAAGTTGAATTTTTTTATATTT-TTGTTAAAAT
** * * * *
18267 AGACTATTGTTGAATGTCTACCTCGAGAAACATGAAGAAAAAGACATTCGTTGG-AAGAAAAGTC
64 AGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTT
* * ********** *
18331 CATTTGTAGTCACTCATTCCTTCAAAAGCNNNNNNNNNNGT
129 CATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* * * *
18372 TTTAAATAGTTTTATAATCTCATAATTAATTTAAAGTTGAA-TTTTTTACATTTTTCATTAAAAT
1 TGTAAATAATTTTATAATCTCATAATTAATTT-AAGTTGAATTTTTTTATATTTTT-GTTAAAAT
* * * * * *
18436 AGACTATAATTAAATGTCTACCTCAAGAAATATGACGAAAAA-AGTATACATTGGCAAGAAAAGT
64 AGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGT
********** * * * * **
18500 TCATTTANNNNNNNNNNTTCCTTCGAAAGCCTTATTACTCTA
128 TCATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* * * * * * *
18542 TTTAAATAGTTTTATAATATCAAAATTAATTTTAAGTTTAATTTTTTTATTTTTTTTGTTAAAAC
1 TGTAAATAATTTTATAATCTCATAATTAA-TTTAAGTTGAATTTTTTTA-TATTTTTGTTAAAAT
* * * * * ** * * *
18607 ATATTATAACTGAATGTCTACATTGAGAAACTTGAAGAAAAATG-CATTCATTAGCAAGAAAA-A
64 AGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAA-GACATTCATTGGCAAGAAAAGT
* * * ****
18670 TCATTTATCA-TC-CT-ATTCCTTCAAAAGCCTGATTACTNNN
128 TCATTTAT-AGTCACTCATTCTTTCAAAAGCATTATTACGCGC
********* * * * * *
18710 NNNNNNNGGTTTTATAATCTCAAAATTGATGTTAAGTTTAAATTTTTTTACT-TATTTGGTTCAA
1 TGTAAATAATTTTATAATCTCATAATTAAT-TTAAG-TTGAATTTTTTTA-TAT-TTTTGTTAAA
* * * * * * * **
18774 ACATATTATAATTGAATATCTACATCGAGAAACGTAAAGAAAAAGACATTCATTGATAA-AAAAG
62 ATAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAG
* * * ****
18838 TTTATTTATTA-TCATTCATTCTTTCAAAAGCCTTATTACTNNN
127 TTCATTTA-TAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
******* * * * * * * * *
18881 NNNNNNNAGTTTTACAATCTCATAATTGATTATAAGTTAAATTTTTTTACATTTTTCTTTCAAAC
1 TGTAAATAATTTTATAATCTCATAATTAATT-TAAGTTGAATTTTTTTATATTTTT-GTTAAAAT
* * ** * * * * *
18946 AGACTTTTATTGAATATCTGGCTCAAGACAC-TTATAGAAAATGTCATTTATTGAG-AAGAAAAG
64 AGACTATAATTGAATATCTACCTCAAGAAACATGA-AGAAAAAGACATTCATTG-GCAAGAAAAG
* * *
19009 TCCATTTATAGACACTCATTCTTTCAAAAGCATTATTACTCGC
127 TTCATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* ********** * * * * *
19052 TTTNNNNNNNNNNATAATCGCATAATTCATTTTAAGTAGAATTTTTTTACATTTTTGGTAAAATA
1 TGTAAATAATTTTATAATCTCATAATT-AATTTAAGTTGAATTTTTTTATATTTTTGTTAAAATA
* * * * *
19117 GACAATAATTGAATATCTACCTCAAGACACGTGAAGAAAAA-ATCATTCATGGGGAAGAAAAGTT
65 GACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTT
* * *
19181 CATTTATAGTCAATCATTCTTTCGAAAGCCTTATTACGCGC
129 CATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* * * * *
19222 TTTAAATGATTTTATAATCTTATAATTAATTTAAGTTGAATTTTTTTATCGTTTTGGTTAAAATA
1 TGTAAATAATTTTATAATCTCATAATTAATTTAAGTTGAATTTTTTTAT-ATTTTTGTTAAAATA
* ** *
19287 GACTATAATTGGATATCTACCTTGAGAAACCTGAAGAAAAAGACATTCATTGGCAAGAAAAGTTC
65 GACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTTC
* * * **
19352 ATTTATAGCCACTCATTCTTTTAAAAGCATTATTGCTTGC
130 ATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* *********
19392 TGTAAATAATTTTATAATCTCATAATTGATNNNNNNNNNNATTTTTTTATATTTTTTGTTAAAAT
1 TGTAAATAATTTTATAATCTCATAATTAAT-TTAAGTTGAATTTTTTTATA-TTTTTGTTAAAAT
* ** * ** * *
19457 AGGCTATTGTTGAATACCTACCTCAAGAAACATGAAG-AAAAGGGATTCATTGGCAGGAAAAATT
64 AGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTT
* * * *
19521 CATTTATAGTCACCCATTCCTTCAAAAATC-TTATTACTCGC
129 CATTTATAGTCACTCATTCTTTC-AAAAGCATTATTACGCGC
* ** **************** * *
19562 TTTAAATGGTTTTANNNNNNNNNNNNNNNNNTTAAGTTGAATTTGTTTACATTTTTAGTTAAAAT
1 TGTAAATAATTTTA-TAATCTCATAATTAATTTAAGTTGAATTTTTTTATATTTTT-GTTAAAAT
* * ** * ** * * **
19627 AGAATATAATTGAAT-GCTTGTCTCAAAAAACATGAAGAAAAAGGTATTAATAGGCAAGTGAAGT
64 AGACTATAATTGAATATC-TACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGT
* * * * * *
19691 TCATTTATACTCACTCATTCTTCCGAAAGCCTTACTACTCGC
128 TCATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* ********** *
19733 TGTAAA-AGATTTTATAATCTCATAATTGATTTTANNNNNNNNNNTTTTACATTTTTTGTTAAAA
1 TGTAAATA-ATTTTATAATCTCATAATT-AATTTAAGTTGAATTTTTTTATA-TTTTTGTTAAAA
* * * * * **
19797 TAGACTATAATTGAATGTCTATCTCTAA-AAACCTGAAAAAAAAAGACATTCACTGATAAGAAAA
63 TAGACTATAATTGAATATCTACCTC-AAGAAACATG-AAGAAAAAGACATTCATTGGCAAGAAAA
* * *****
19861 G-TCTATTTATAGTCACTCATTCTTTCAAAGGCCTTATTANNNNN
126 GTTC-ATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
***** ** ** * * * *
19905 NNNNNATGGTTTTATAATCTCATAATTGCTTCTAAGTTGAATTGTTTAACATTTTTAGTTAAAAC
1 TGTAAATAATTTTATAATCTCATAATTAATT-TAAGTTGAATTTTTTTATATTTTT-GTTAAAAT
** * * * ** ** *** * *
19970 AGACTATTGTTGAATGTTTACATTGAGAAACATGAAG-AAAAGGGATTCATTCAAAAGAAAAATC
64 AGACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTT
* * ***********
20034 CATTTATAGTCACCCATTCCTTCAAAAGCCNNNNNNNNNNC
129 CATTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
* ** *
20075 TGTAAATGATTTTATAATCTCATAATTAATTTTAAGTTTTATTTTTTTACCTTTTTTTGTTAAAA
1 TGTAAATAATTTTATAATCTCATAATTAA-TTTAAGTTGAATTTTTTTA--TATTTTTGTTAAAA
* * *
20140 CATACTATAATTGAATGTCTA
63 TAGACTATAATTGAATATCTA
20161 TTATACTATA
Statistics
Matches: 1448, Mismatches: 452, Indels: 118
0.72 0.22 0.06
Matches are distributed among these distances:
167 1 0.00
168 51 0.04
169 176 0.12
170 611 0.42
171 478 0.33
172 131 0.09
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.37
Consensus pattern (169 bp):
TGTAAATAATTTTATAATCTCATAATTAATTTAAGTTGAATTTTTTTATATTTTTGTTAAAATAG
ACTATAATTGAATATCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTTCA
TTTATAGTCACTCATTCTTTCAAAAGCATTATTACGCGC
Found at i:20169 original size:22 final size:22
Alignment explanation
Indices: 20141--20182 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20131 TTGTTAAAAC
* *
20141 ATACTATAATTGAATGTCTATT
1 ATACTATAATTAAATATCTATT
20163 ATACTATAATTAAATATCTA
1 ATACTATAATTAAATATCTA
20183 CCTCAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (22 bp):
ATACTATAATTAAATATCTATT
Found at i:20617 original size:172 final size:170
Alignment explanation
Indices: 20165--21298 Score: 626
Period size: 172 Copynumber: 6.6 Consensus size: 170
20155 TGTCTATTAT
* * * * * *
20165 ACTATAATTAAATATCTACCTCAAGAAACATGAAGAAAAAAATATTTATTGGCAAGAAAAGTCTA
1 ACTATAATT-AATGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCTA
** * * *
20230 -TTATAGTGTCTCATTCCTTCAAAAGCCTTATTACTCGATTTAAATAG-TTTATAATCTCAAAAT
65 CTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAAT
* * *
20293 TGATTTCAAATTCAATTTTTTTTTTACTTTTTT-GATTAAAACAT
130 TGATTTTAAGTTCAA---TTTTTTTACTTTTTTAG-TTAAAACAG
* * ** * * * *
20337 ATTATAACTGAATGTCTACATTGAGAAACATGAAGAAAAATATATTCATT-AGCAAGAAAAGACC
1 ACTATAA-TTAATGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGA-CAAGAAAAGTCT
* * * ********** *
20401 ATTTATTA-TCACCCATTTCTTCAAANNNNNNNNNNCTCGCTTTAAATGGTTTTATAATCTGA-A
64 ACTTA-TAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATA
*
20464 ATTTGATTTTAAGTTCAATTTTTTTTACTTTTTTAGTTAAAATAG
128 A-TTGATTTTAAGTTCAA-TTTTTTTACTTTTTTAGTTAAAACAG
* * * **
20509 ATTATAATTAATTTTCTATATCAAGAAACGGGAAGAAAAAGACATTCATTGACAAGAAAAGTCTA
1 ACTATAATTAA-TGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCTA
* * * * * *
20574 CTTATTGTCACTTATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGCTTTGTAAACTCATAAT
65 CTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAAT
* * * * * * *
20639 TCATTCTCAG-TCTAATTTTCTAACATTTTTCA-TT-AAACAA
130 TGATTTTAAGTTC-AATTTTTTTAC-TTTTTTAGTTAAAACAG
********** * * *
20679 ACTATAATTGAATGTCTNNNNNNNNNNACGTGAAGAAAAA-AGCATTCATGGCCAAGAAAAGTCC
1 ACTATAATT-AATGTCTACATCAAGAAACATGAAGAAAAAGA-CATTCATTGACAAGAAAAGT-C
* * * ** * *
20743 T-CTTATAGGCACTCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTGTATAATCTCATA
63 TACTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATA
* * * *
20807 ATTTATTTTATGTTGAATTTTTTTACCTTTTTAGTTAAAACAG
128 ATTGATTTTAAGTTCAATTTTTTTACTTTTTTAGTTAAAACAG
* * * * * *
20850 ACTATAGTTGAATGTTTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCGAGAAAAGTTTA
1 ACTATAATT-AATGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCTA
* * * * * * * *
20915 TTTAAAGTCACGT-ATTCTTTCAAAAGCCTTGTTACGCTCTTTAAATGGTTTTACAATTTCATAA
65 CTTATAGTCAC-TCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAA
* * * * * ****
20979 TTGATTTTATGTTGAATTTTTTTACATTTTTGGATAAANNNN
129 TTGATTTTAAGTTCAATTTTTTTACTTTTTTAGTTAAAACAG
******* * * * * * *
21021 NNNNNNGTTGAATGTCTACCTCGAGAAACATGAAGAAAAAGGCATTCATGGGCAAGAAAAGACTA
1 ACTATAATT-AATGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCTA
* * * * * * * *
21086 TTTATAGTCACCCATTCTTTTAAAATCCTTATTTCTTGCTTTAAATAGTTTTATAATCTCATAAT
65 CTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAAT
********* * *
21151 TGATTTNNNNNNNNNNTTTTTTTA-TATTTTTGGTTACAACAG
130 TGATTT-TAAGTTCAATTTTTTTACT-TTTTTAGTTAAAACAG
** * ** * * *
21193 ACTATAATTGAATACCTATC-TCGAGAAGTATAAAGAAAAAGACATTCAATCG-TAAGAAAAGTC
1 ACTATAATT-AATGTCTA-CATCAAGAAACATGAAGAAAAAGACATTC-ATTGACAAGAAAAGTC
* * *
21256 CATTTATAGTCA-TCCATTCTTTCAAAAGCCTTATTACTCGCTT
63 TACTTATAGTCACT-CATTCCTTCAAAAGCCTTATTACTCGCTT
Statistics
Matches: 728, Mismatches: 206, Indels: 56
0.74 0.21 0.06
Matches are distributed among these distances:
169 6 0.01
170 116 0.16
171 266 0.37
172 274 0.38
173 39 0.05
174 27 0.04
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.37
Consensus pattern (170 bp):
ACTATAATTAATGTCTACATCAAGAAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCTAC
TTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATT
GATTTTAAGTTCAATTTTTTTACTTTTTTAGTTAAAACAG
Found at i:20934 original size:171 final size:171
Alignment explanation
Indices: 20165--21292 Score: 501
Period size: 171 Copynumber: 6.6 Consensus size: 171
20155 TGTCTATTAT
* * * * * * * *
20165 ACTATAATTAAATATCTACCTCAAGAAACATGAAGAAAAAAATATTTATTGGCAAGAAAAGTCTA
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACTA
* ** * * * ** * *
20230 -TTATAGTGTCTCATTCCTTCAAAAGCCTTATTACTCGATTTAAAT-AGTTTATAATCTCAAAAT
66 TTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTTTATAATCTCATAAT
* ** * * *
20293 TGATTTCAAATTCAATTTTTTTTTTAC-TTTTTTGATTAAAACAT
131 TGATTTTATGTTGAA---TTTTTTTACATTTTTAGA-TAAAACAG
* ** * ** * * ** *
20337 ATTATAACTGAATGTCTACATTGAGAAACATGAAGAAAAATATATTCATTAGCAAGAAAAGACCA
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACTA
* ********** * ** * *
20402 TTTATTA-TCACCCATT-TCTTCAAANNNNNNNNNNCTCGCTTTAAATGGTTTTATAATCTGA-A
66 TTTA-AAGTCACCCATTCT-TTCAAAAGCCTTATTACGCTTTTTAAATGATTTTATAATCTCATA
* * * * *
20464 ATTTGATTTTAAGTTCAATTTTTTTTACTTTTTTAGTTAAAATAG
129 A-TTGATTTTATGTTGAA-TTTTTTTACATTTTTAGATAAAACAG
* * * ** ** * * *
20509 ATTATAATT-AATTTTCTATATCAAGAAACGGGAAGAAAAAGACATTCATTGACAAGAAAAGTCT
1 ACTATAGTTGAA-TGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACT
* ** ** * ** * *
20573 ACTTATTGTCACTTATTCCTTCAAAAGCCTTATTA--CTTGCTTTAAATGGCTTTGTAAACTCAT
65 ATTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTT--TTTAAATGATTTTATAATCTCAT
* * * * * * *
20636 AATTCATTCTCA-GTCT-AATTTTCTAACATTTTT-CATTAAACAA
128 AATTGATT-TTATGT-TGAATTTTTTTACATTTTTAGATAAAACAG
* ********** * * *
20679 ACTATAATTGAATGTCTNNNNNNNNNNACGTGAAGAAAAA-AGCATTCATGGCCAAGAAAAGTCC
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATGGGCAAGAAAAG-AC
* * * * *
20743 T-CTTATAGGCACTCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTGTATAATCTCATA
64 TATTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTTTATAATCTCATA
* * *
20807 ATTTATTTTATGTTGAATTTTTTTACCTTTTTAGTTAAAACAG
129 ATTGATTTTATGTTGAATTTTTTTACATTTTTAGATAAAACAG
* * * **
20850 ACTATAGTTGAATGTTTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCGAGAAAAGTTTA
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACTA
** * * * * *
20915 TTTAAAGTCACGTATTCTTTCAAAAGCCTTGTTACGCTCTTTAAATGGTTTTACAATTTCATAAT
66 TTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTTTATAATCTCATAAT
* ****
20980 TGATTTTATGTTGAATTTTTTTACATTTTTGGATAAANNNN
131 TGATTTTATGTTGAATTTTTTTACATTTTTAGATAAAACAG
****** * *
21021 NNNNNNGTTGAATGTCTACCTCGAGAAACATGAAGAAAAAGGCATTCATGGGCAAGAAAAGACTA
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACTA
* * * *
21086 TTTATAGTCACCCATTCTTTTAAAATCCTTATT--TCTTGCTTTAAAT-AGTTTTATAATCTCAT
66 TTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTT--TTTAAATGA-TTTTATAATCTCAT
********* * * * *
21148 AATTGATTTNNNNNNNNNNTTTTTTTATATTTTTGGTTACAACAG
128 AATTGATTT-TATGTTGAATTTTTTTACATTTTTAGATAAAACAG
* ** * * ** * * * * *
21193 ACTATAATTGAATACCTATCTCGAGAAGTATAAAGAAAAAGACATTCAAT-CGTAAGAAAAGTCC
1 ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC-ATGGGCAAGAAAAGACT
* *
21257 ATTTATAGTCATCCATTCTTTCAAAAGCCTTATTAC
65 ATTTAAAGTCACCCATTCTTTCAAAAGCCTTATTAC
21293 TCGCTT
Statistics
Matches: 713, Mismatches: 212, Indels: 60
0.72 0.22 0.06
Matches are distributed among these distances:
169 6 0.01
170 119 0.17
171 262 0.37
172 258 0.36
173 41 0.06
174 27 0.04
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.37
Consensus pattern (171 bp):
ACTATAGTTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATGGGCAAGAAAAGACTA
TTTAAAGTCACCCATTCTTTCAAAAGCCTTATTACGCTTTTTAAATGATTTTATAATCTCATAAT
TGATTTTATGTTGAATTTTTTTACATTTTTAGATAAAACAG
Done.