Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401565.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_469.0, 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: 45654
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.26
Warning! 13174 characters in sequence are not A, C, G, or T
Found at i:1057 original size:343 final size:336
Alignment explanation
Indices: 1--1150 Score: 1227
Period size: 343 Copynumber: 3.4 Consensus size: 336
* * **
1 TCATAATCGATTTTGAGTTGAATTTTTTTACACTTTTGGTTAAAACAGACTATAGCTGAATGCTT
1 TCATAATCGATTTTAAGTTGAATTTTTTTACACTTTTGATTAAAACAGACTATAATTGAATGCTT
* * *
66 GCCTTAGGAAATGCGTAGAAAAAGCCATTCATTGAGAAGAAAAGTCCATTTATAGTTACCCATTC
66 GCCTTAGGAAACGTGTAGAAAAAG-CATTCATTGAGAAGAAAAGTCCATTTATAGTTACCTATTC
* * * * * * * *
131 CTTCAAAAGCTTTGTTACTCACTTTAAATGGTTTTGTATTCCCATAATTGATATG-AAGCTGAAC
130 CTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT-TGTAAGTTGAAT
* * * * * * ** *
195 GTTTTTACATTTTTGGCTAAAATA-AATAATAATTGAATGTCAGCCTCAAGAAATGTAAAGAAAC
194 TTTTTTAAATTTTTGGTTAAAACAGACT-ATAATTGAATGTCTGCCT-TGGAAACG--AAGAAA-
* ** * * *
259 AAGCATTCATCGGTAAGAAAATTTCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCGC
254 AAGCATTCATTGG-AAGAAAAAGTCATTTATAGTTATCCATTTCTTTAAAAGCCTTATTACTCGC
324 TTTAAATGGTTTTATAATC
318 TTTAAATGGTTTTATAATC
* *
343 TCATATTTGATTTTAAGTTGAATTTTTTTTACACTTTTGATTAAAACAGACTATAATTGAATGTC
1 TCATAATCGATTTTAAGTTGAA-TTTTTTTACACTTTTGATTAAAACAGACTATAATTGAATG-C
* * * * * *
408 TAG--TTCAAGAAATGTGAAGAAAAAGGGATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCT
64 TTGCCTT-AGGAAACGTGTAGAAAAA-GCATTCATTGAG-AAGAAAAGTCCATTTATAGTTACCT
* * * *
470 ATTCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTTTATAATCTCAAAATTAATTTTAAGT
126 ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG--TTTTATAATCTCATAATTGATTGTAAGT
* * * *
535 AGAATTATTTTATATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGGAACACGAAG
189 TGAATTTTTTTAAATTTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTT--GGAA-ACGAAG
* *
600 AAAAATGCATTCATTGGTAA-AAAAAGTCCATTTATAGTGATCCATTTCTTTGAAAGCCTTATTA
251 AAAAA-GCATTCATTGG-AAGAAAAAGT-CATTTATAGTTATCCATTTCTTTAAAAGCCTTATTA
* * *
664 CTTGCTTTAAATGATTTTATAATA
313 CTCGCTTTAAATGGTTTTATAATC
* * * * * * * *
688 TCATATTTGGTTTTAATTTCAATTTTTTTTACA-TCTTTCATTAAAATAAACTATAATTGAATGC
1 TCATAATCGATTTTAAGTTGAA-TTTTTTTACACT-TTTGATTAAAACAGACTATAATTGAATGC
* * * *
752 TTGCTTTAGGAAACGTGTAGAAAAAGCTATTCATTAAAAAGAAAAGTCCATTTATAGTTAGCTAT
64 TTGCCTTAGGAAACGTGTAGAAAAAGC-ATTCATTGAGAAGAAAAGTCCATTTATAGTTACCTAT
* * * * * *
817 TCCTTGAAAAACCTAATTACTCGCTTTAAATGGTTTTATAGTCTCATAATCGATTGTGAGTTGAA
128 TCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTGTAAGTTGAA
* * * *
882 TTTTTTTAAAATTTTAGTTAAAACAGACTATAACTAAATGTCTGCCTTGGACAACGAGTAGAAAA
193 TTTTTTTAAATTTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTTGGA-AACGA--AGAAAA
* * * *
947 AGCCGTTCATTGGCAGAAAAAGTCAATTTATAGTTATCCATTTCTTTAAAAGCTTTATTACTCAC
255 AG-CATTCATTGGAAGAAAAAGTC-ATTTATAGTTATCCATTTCTTTAAAAGCCTTATTACTCGC
1012 TTTAAATGGTTTTATAATC
318 TTTAAATGGTTTTATAATC
*
1031 TCATAATCGATTTTGAGTTGAATTTTTTTACACTTTT-AGTTAAAACAGACTATAATTGAATGCT
1 TCATAATCGATTTTAAGTTGAATTTTTTTACACTTTTGA-TTAAAACAGACTATAATTGAATGCT
* * * * *
1095 TGCCTTGGGAAACGTGTAAAAAAATCATTCATTGAGAAGAAAAGTCTATATATAGT
65 TGCCTTAGGAAACGTGTAGAAAAAGCATTCATTGAGAAGAAAAGTCCATTTATAGT
1151 GAGGAACATG
Statistics
Matches: 676, Mismatches: 105, Indels: 55
0.81 0.13 0.07
Matches are distributed among these distances:
341 34 0.05
342 84 0.12
343 272 0.40
344 17 0.03
345 260 0.38
346 7 0.01
347 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (336 bp):
TCATAATCGATTTTAAGTTGAATTTTTTTACACTTTTGATTAAAACAGACTATAATTGAATGCTT
GCCTTAGGAAACGTGTAGAAAAAGCATTCATTGAGAAGAAAAGTCCATTTATAGTTACCTATTCC
TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTGTAAGTTGAATTT
TTTTAAATTTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTTGGAAACGAAGAAAAAGCATT
CATTGGAAGAAAAAGTCATTTATAGTTATCCATTTCTTTAAAAGCCTTATTACTCGCTTTAAATG
GTTTTATAATC
Found at i:1101 original size:171 final size:170
Alignment explanation
Indices: 1--1150 Score: 1051
Period size: 171 Copynumber: 6.7 Consensus size: 170
* * **
1 TCATAATCGATTTTGAGTTGAATTTTTTTACACTTTTGGTTAAAACAGACTATAGCTGAATGCTT
1 TCATAATTGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCTT
* *
66 GCCTTAGGAAATGCGTAGAAAAAGCCATTCATTGAGAAG-AAAAGTCCATTTATAGTTACCCATT
66 GCCTTAGGAAACGAGTAGAAAAAG-CATTCATTG-GAAGAAAAAGTCCATTTATAGTTACCCATT
* * * * * *
130 CCTTCAAAAGCTTTGTTACTCACTTTAAATGGTTTTGTATTC
129 CCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * ** * * * * *
172 CCATAATTGA-TATGAAGCTGAACGTTTTTACATTTTTGGCTAAAATA-AATAATAATTGAATG-
1 TCATAATTGATTTTG-AGTTGAATTTTTTTACACTTTTAGTTAAAACAGACT-ATAATTGAATGC
* * * * * * * *
234 TCAGCCTCAAGAAATGTA-AAGAAACAAGCATTCATCGGTAAG-AAAATTTCATTTATAGTTACC
64 T-TGCCTTAGGAAACG-AGTAGAAA-AAGCATTCATTGG-AAGAAAAAGTCCATTTATAGTTACC
*
297 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
125 CATTCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* *
343 TCATATTTGATTTTAAGTTGAATTTTTTTTACACTTTT-GATTAAAACAGACTATAATTGAATGT
1 TCATAATTGATTTTGAGTTGAA-TTTTTTTACACTTTTAG-TTAAAACAGACTATAATTGAATG-
* * * * * * *
407 CTAG--TTCAAGAAATGTGAAGAAAAAGGGATTCATTGGCAAG-AAAAGTCCATTTATAGTCACC
63 CTTGCCTT-AGGAAACGAGTAGAAAAA-GCATTCATTGG-AAGAAAAAGTCCATTTATAGTTACC
*
469 TATTCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTTTATAATC
125 CATTCCTTTAAAAGCCTTATTACTCGCTTTAAATGG--TTTTATAATC
* * * * * * * *
517 TCAAAATTAATTTTAAGTAGAATTATTTTATATTTTTGGTTAAAACAGACTATAATTGAATG-TC
1 TCATAATTGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCT-
* * *
581 TACCTTAAGGAACACGA--AGAAAAATGCATTCATTGGTAA-AAAAAGTCCATTTATAGTGATCC
65 TGCCTT-AGGAA-ACGAGTAGAAAAA-GCATTCATTGG-AAGAAAAAGTCCATTTATAGTTACCC
* * * * *
643 ATTTCTTTGAAAGCCTTATTACTTGCTTTAAATGATTTTATAATA
126 ATTCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * * * * *
688 TCATATTTGGTTTTAATTTCAATTTTTTTTACATCTTTCA-TTAAAATAAACTATAATTGAATGC
1 TCATAATTGATTTTGAGTTGAA-TTTTTTTACA-CTTTTAGTTAAAACAGACTATAATTGAATGC
* * * * * *
752 TTGCTTTAGGAAACGTGTAGAAAAAGCTATTCATT-AAAAAGAAAAGTCCATTTATAGTTAGCTA
64 TTGCCTTAGGAAACGAGTAGAAAAAGC-ATTCATTGGAAGA-AAAAGTCCATTTATAGTTACCCA
* * * *
816 TTCCTTGAAAAACCTAATTACTCGCTTTAAATGGTTTTATAGTC
127 TTCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * * *
860 TCATAATCGATTGTGAGTTGAATTTTTTTAAAATTTTAGTTAAAACAGACTATAACTAAATG-TC
1 TCATAATTGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCT-
* * * *
924 TGCCTT-GGACAACGAGTAGAAAAAGCCGTTCATTGGCAGAAAAAGTCAATTTATAGTTATCCAT
65 TGCCTTAGGA-AACGAGTAGAAAAAG-CATTCATTGGAAGAAAAAGTCCATTTATAGTTACCCAT
* * *
988 TTCTTTAAAAGCTTTATTACTCACTTTAAATGGTTTTATAATC
128 TCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
*
1031 TCATAATCGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCTT
1 TCATAATTGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCTT
* * * * * *
1096 GCCTTGGGAAACGTGTAAAAAAATCATTCATTGAGAAG-AAAAGTCTATATATAGT
66 GCCTTAGGAAACGAGTAGAAAAAGCATTCATTG-GAAGAAAAAGTCCATTTATAGT
1151 GAGGAACATG
Statistics
Matches: 798, Mismatches: 142, Indels: 79
0.78 0.14 0.08
Matches are distributed among these distances:
170 43 0.05
171 369 0.46
172 236 0.30
173 112 0.14
174 36 0.05
175 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (170 bp):
TCATAATTGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACTATAATTGAATGCTT
GCCTTAGGAAACGAGTAGAAAAAGCATTCATTGGAAGAAAAAGTCCATTTATAGTTACCCATTCC
TTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
Found at i:1347 original size:221 final size:221
Alignment explanation
Indices: 952--1349 Score: 498
Period size: 221 Copynumber: 1.8 Consensus size: 221
942 GAAAAAGCCG
* * * * *
952 TTCATTGGCAGAAAAAGTCAATTTATAGTTATCCATTTCTTTAAAAGCTTTATTACTCACTTTAA
1 TTCATTGGCAGAAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAA
* * * * *
1017 ATGGTTTTATAATCTCATAATCGATTTTGAGTTGAATTTTTTTACACTTTTAGTTAAAACAGACT
66 ATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACACTTTTAGTTAAAACAAACT
* * *
1082 ATAATTGAATGCTTGCCTTGGGAAACGTGTAAAAAAATCATTCATTGAGAAGAAAAGTCTATATA
131 ATAATTGAATACTTGCCTTGGAAAACGCGTAAAAAAATCATTCATTGAGAAGAAAAGTCTATATA
1147 TAGTGAGGAACATGAAGAAAAATGTA
196 TAGTGAGGAACATGAAGAAAAATGTA
* * *
1173 TTCATTGGCA-AGAAAAGTCAATTTCTAGTCACCCATTCCTTCGAAAGCCTTATTACTCTCTTTA
1 TTCATTGGCAGA-AAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTA
* * * * * *
1237 AATGGTTTTATAATATGATATTTGGTTTTAAGTTCAATTTATTTACATTTTTCA-TT-AAGCTAA
65 AATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACACTTTT-AGTTAAAAC-AA
* * * *
1300 ACTATAATTGAATACTTTCTTTGGAAAACGCGTGGAAAAGA-CATTCATTG
128 ACTATAATTGAATACTTGCCTTGGAAAACGCGT-AAAAAAATCATTCATTG
1350 GCAAAAAAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
220 4 0.03
221 137 0.93
222 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (221 bp):
TTCATTGGCAGAAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAA
ATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACACTTTTAGTTAAAACAAACT
ATAATTGAATACTTGCCTTGGAAAACGCGTAAAAAAATCATTCATTGAGAAGAAAAGTCTATATA
TAGTGAGGAACATGAAGAAAAATGTA
Found at i:1454 original size:170 final size:171
Alignment explanation
Indices: 1172--1570 Score: 509
Period size: 170 Copynumber: 2.3 Consensus size: 171
1162 AGAAAAATGT
* * * * *
1172 ATTCATTGGCAAGAAAAGTCAATTTCTAGTCACCCATTCCTTCGAAAGCCTTATTACTCTCTTTA
1 ATTCATTGGCAAGAAAAGTCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCGCTTTA
* * * * *
1237 AATGGTTTTATAATATGATATTTGGTTTTAAGTTCAATTTATTTACATTTTTCATT-AAGCTAAA
66 AATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACATTTTTCATTAAAAC-AAA
* * * *
1301 CTATAATTGAATACTTTCTTTGGAAAACGCGT-GGAAAAGAC
130 CTATAACTGAATACCTTCCTTGGAAAACGCGTAGAAAAAGAC
* *
1342 ATTCATTGGCAAAAAAAGACCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCGCTTTA
1 ATTCATTGGCAAGAAAAGTCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCGCTTTA
* * * ** *
1407 AATGGTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACATAC
66 AATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACATTTTTCATTAAAACAAAC
* * * *
1472 TATAACTGAATGCCTTCCTTGGAAAATGTGTAGAAAAAGCC
131 TATAACTGAATACCTTCCTTGGAAAACGCGTAGAAAAAGAC
*
1513 ATTCATTGAG-AAGAAAAGTCCA-TTATAGTTACCCATTCCTTCAAAAGCTTTATTACTC
1 ATTCATTG-GCAAGAAAAGTCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTC
1571 ACTTNNNNNN
Statistics
Matches: 197, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
170 168 0.85
171 28 0.14
172 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (171 bp):
ATTCATTGGCAAGAAAAGTCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCGCTTTA
AATGGTTTTATAATATCATAATCGATTTTAAGTTCAATTTATTTACATTTTTCATTAAAACAAAC
TATAACTGAATACCTTCCTTGGAAAACGCGTAGAAAAAGAC
Found at i:8306 original size:171 final size:169
Alignment explanation
Indices: 7605--8710 Score: 617
Period size: 171 Copynumber: 6.5 Consensus size: 169
7595 NNNNNNNNNN
* * * * *
7605 GATTATAAAACCATTTAAAGTGAGTAATAAGCCTTTTAAAGGAATGGGTGACTA-AATGTGGACT
1 GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA-ATGGACT
* * * *
7669 TTTCTT-CTCAATGAATGGTA-CTTTCTA--CACGTTTCTTAATA-TAGGCATTCAATTATAGTT
65 TTTCTTGC-CAATGAA---TACCTTTTTATTCACTTTTCTTAA-AGTAGACATTCAATTATAGTC
* **
7729 TGTTTTAGCCAAAAATGTAAAAAAATTTGACTTAAAATCAATTATGA
125 T-CTTTAGCCAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGA
** **********
7776 GATTA-AAAAACTATTTAAATCGAGTAATAAGGCTTTTGAAGGAANNNNNNNNNNTAAATGGACT
1 GATTATAAAAAC-ATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
** *
7840 TTTCTTGCCAATGAATACC-TTTTACTTCACTTTTCTTGTAGTAGACATTCAATTATAGTCTATT
65 TTTCTTGCCAATGAATACCTTTTTA-TTCACTTTTCTTAAAGTAGACATTCAATTATAGTCTCTT
* ** *
7904 ATAGCTAAAAATACAAAAACATTCAACATAAAATCAATTATGA
129 -TAGCCAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATGA
* ** *******
7947 GTTTA-AAAAACCATTTAAAGCA-AGTAATACTGCTTTTGAAGGAATGGGTGACTATANNNNNNN
1 GATTATAAAAA-CATTTAAAG-AGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGAC
*** * * * *
8010 NNNTCTTGCCAATGAATATCTTTTTCTTTACTTTTC-TAGTAGTAGACATTCAATTATAGTCTCT
64 TTTTCTTGCCAATGAATACCTTTTTATTCACTTTTCTTA-AAGTAGACATTCAATTATAGTCTC-
******
8074 TTTAGCCAAAAATGTAAAATAATTCAACTTAAAATCAANNNNNN
127 TTTAGCCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
**** * * * * ** **
8118 NNNNATAAAACCATTTAAAAAGAGAAATAAGGCTTTTAAAGGAATAAGTGACTATAAAAAGACTT
1 GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
* *
8183 TTCTTGTCAATGAATGCCTTTTTATTCA-TGTTTCTTAAAGTAGACATTCAATTATAGTCTGCTT
66 TTCTTGCCAATGAATACCTTTTTATTCACT-TTTCTTAAAGTAGACATTCAATTATAGTCT-CTT
* * * * *
8247 TAACTAAAAATTTAAAACAATTTAACTTAAAATAAATTATGA
129 TAGCCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * *
8289 GATTATAAAAACATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATGGGTGATTATAAATGGACTT
1 GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
* * * * * * * * *
8354 TTCTTACCGATGAAT-GCTTGTTTCTTTACGTTTCTCAAGGCT-GACATTCAATTATTA-TCTAT
66 TTCTTGCCAATGAATACCTT-TTTATTCACTTTTCTTAAAG-TAGACATTCAATTA-TAGTCTCT
* ** * * *
8416 TATAACCAAAAATGTAAAAAAGTTCAGGTTCAAATCAAATATGG
128 T-TAGCCAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATGA
* * * * * * * ********** *
8460 GAATACAAAAGCATTTAAAGTGAGTAATAAAGTTTTTGAAGAAATGGGNNNNNNNNNNTAGACTT
1 GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
* * * ** ** * * * *
8525 TTCTT-CTCAATGGATAGCTTTTTCTAGA-TGTTTCCCAAGGCAGGCATTCAATTATAGTCTATT
66 TTCTTGC-CAATGAATACCTTTTTATTCACT-TTTCTTAAAGTAGACATTCAATTATAGTCT-CT
* ** * * *
8588 TTAACCAAATGTATAAAACAATTCAACCTAAAATCGATTATGA
128 TTAGCCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * * * * * *
8631 GATTATAAAACCATTTGAAGCGAGTAATAAGGCTTCTGAAGGAATGAGTAAATACAAATGGACTT
1 GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
*
8696 TTCCTGCCAATGAAT
66 TTCTTGCCAATGAAT
8711 NNNNNNNNNN
Statistics
Matches: 696, Mismatches: 204, Indels: 70
0.72 0.21 0.07
Matches are distributed among these distances:
168 6 0.01
169 1 0.00
170 26 0.04
171 633 0.91
172 30 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.33
Consensus pattern (169 bp):
GATTATAAAAACATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
TTCTTGCCAATGAATACCTTTTTATTCACTTTTCTTAAAGTAGACATTCAATTATAGTCTCTTTA
GCCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGA
Found at i:9255 original size:171 final size:171
Alignment explanation
Indices: 9078--9441 Score: 415
Period size: 171 Copynumber: 2.1 Consensus size: 171
9068 NNNNNNNNNN
* * * **
9078 GAAGGAATGGGTAACTACAAATAGACTTTTCTTCTCAATGATTGGCTTTTTCTACACGTTTCCCA
1 GAAGGAATGGGTGACTATAAATAGACTTTTCTTCTCAATGAATGGCACTTTCTACACGTTTCCCA
** *
9143 AAGCAAGCATTCAATTATAA-TTTATTTTAATGAAAAATGTAAAAAAATTGAACTTAAAATGAAA
66 AAGCAAGCATTCAATTATAATTTTA-TTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAAA
* *
9207 TATGAGATTACAAAACCATTTAAAACGAGTAATAAGGCTTTT
130 TATGAGATTAAAAAACCATTTAAAACAAGTAATAAGGCTTTT
* * * ********** ***
9249 GAAGGAATAGGTGACTATAGATGGACTTTTNNNNNNNNNNAATGGCACTTTCTACACGTTTCTTG
1 GAAGGAATGGGTGACTATAAATAGACTTTTCTTCTCAATGAATGGCACTTTCTACACGTTTCCCA
* * * * *
9314 ATGTAGGCATTCAATTATAGTTTTATTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT
66 AAGCAAGCATTCAATTATAATTTTATTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAAAT
*
9379 ATGAGATTAAAAAACTATTTAAAACAAGTAATAAGGCTTTT
131 ATGAGATTAAAAAACCATTTAAAACAAGTAATAAGGCTTTT
*
9420 GAAGAAATGGGTGACTATAAAT
1 GAAGGAATGGGTGACTATAAAT
9442 GGNNNNNNNN
Statistics
Matches: 157, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
171 153 0.97
172 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.32
Consensus pattern (171 bp):
GAAGGAATGGGTGACTATAAATAGACTTTTCTTCTCAATGAATGGCACTTTCTACACGTTTCCCA
AAGCAAGCATTCAATTATAATTTTATTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAAAT
ATGAGATTAAAAAACCATTTAAAACAAGTAATAAGGCTTTT
Found at i:9884 original size:171 final size:170
Alignment explanation
Indices: 9587--10530 Score: 755
Period size: 171 Copynumber: 5.5 Consensus size: 170
9577 NNNNNNNACA
* * * *
9587 TAAAATCAATTATGAGATTAAAAAACCATTTAAAGCA-AGTAATACGGCTTTCGAAGGAAT-GAG
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAG-AGAGTAATAAGGCTTTTGAAGGAATAG-G
* * *
9650 TGACTATAAATGGACTTTTCTTGCCAATGGATGTCTTTTTCTTCACTTTTCTAGTAGTAGACATT
64 TGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACTTTTC-GGTAATAGACATT
* ** * *
9715 CAATTATAGTCTCTTTTAGTCAAAAATATAAAATAATTCAACT
128 CAATTATAGTCTATTTTAACCAAAAATGTAAAAAAATTCAACT
* * * **
9758 TAGAATTAATTATGAGATTATAAAACCATTTAAAAAGAGAAATAAGGCTTTTGAAGGAATAAATG
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGTG
9823 ACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACTTTTCTGGTAATAGACATTCA
66 ACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACTTTTC-GGTAATAGACATTCA
* * *
9888 ATTGTAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACT
130 ATTATAGTCTATTTTAACCAAAAATGTAAAAAAATTCAACT
********** *
9929 NNNNNNNNNNTATGAGATTATAAAACCATTTAAAGCA-AGTATTAAGGCTTTTGAAGGAA-AGGA
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAG-AGAGTAATAAGGCTTTTGAAGGAATAGG-
* ** * *
9992 TGACTATAAATGAACTTTTCTTATCGATGAATG-CTTGTTTCTTTACGTTTCTCAAGGT--T-GA
64 TGACTATAAATGGACTTTTCTTGCCAATGAATGTCTT-TTTCTTCAC-TTT-TC--GGTAATAGA
*
10053 CATTCAATTATTA-TCTATTTTAACCAAAAATGTAAAAAAGTTCAGA-T
124 CATTCAATTA-TAGTCTATTTTAACCAAAAATGTAAAAAAATTCA-ACT
* * * * ** * * * ********** * *
10100 TCAAATCAGTTATGGGAAAACAAAACCATTTAAAGTGAGTAATAAAGNNNNNNNNNNAATGGGTA
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGTG
** * * ** * *
10165 ACTATAAATGGACTTTTCTTTTCAATGAATGGCTTTTTCTAT-ACATTTC-ACAAGGGAGGCATT
66 ACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT-TCACTTTTCGGTAA--TAGACATT
* * *
10228 TACTTATAGTCTATTTTAACCAAAAGTGTAAAAAAATTCAACT
128 CAATTATAGTCTATTTTAACCAAAAATGTAAAAAAATTCAACT
* * * * * *
10271 CAAAATTGATTACGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTCTGAAGGAATAGGTA
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGTG
* * * * *** *
10336 ACTATAATTCGACTTTTCTT-CTCAATGAATGACTTTTTCTACA-TGTTTCCCAAAGTAAACATT
66 ACTATAAATGGACTTTTCTTGC-CAATGAATGTCTTTTTCTTCACT-TTTCGGTAA-TAGACATT
* ** * *
10399 CAATTATAGTTTATTTTAATGAAAAATGTAAAAAAAATTAAACA
128 CAATTATAGTCTATTTTAACCAAAAATGT-AAAAAAATTCAACT
* * * * * * *
10443 AAAAACTAAATATGAGATTATAAAACTATTTAACGCGAGTAATAAGGCTTTCGAAGGAATAGGTG
1 TAAAATTAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGTG
10508 ACTATAAATGGACTTTTCTTGCC
66 ACTATAAATGGACTTTTCTTGCC
10531 NNNNNNNNNN
Statistics
Matches: 607, Mismatches: 139, Indels: 53
0.76 0.17 0.07
Matches are distributed among these distances:
169 2 0.00
170 10 0.02
171 487 0.80
172 102 0.17
173 3 0.00
174 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
TAAAATTAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGTG
ACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACTTTTCGGTAATAGACATTCAA
TTATAGTCTATTTTAACCAAAAATGTAAAAAAATTCAACT
Found at i:11110 original size:343 final size:340
Alignment explanation
Indices: 10682--11400 Score: 832
Period size: 343 Copynumber: 2.1 Consensus size: 340
10672 NNNNNNNNNN
* * * *
10682 CTTTTCTTCTCAATGAAAGGCTTTTTCTACATGTTTTCTAAGGCAGGCATTCAATTATAGTCTGT
1 CTTTTCTTCTCAATG-AATGCTTTTTCTACATGTTTCCCAAGGCAGGCATTCAATTATAGTCTCT
* * * *** *
10747 TTTAGCTAATAGTTTAAAAAAATTCAACTCAAAATCGATTATGAGATTATAAAACTATTTTAAGC
65 TTTAACCAAAACCATAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACTATTTTAAGC
**********
10812 GAGTAATAAGGCTTTTGAAGGAANNNNNNNNNNTAAATGAACTTTTCTTGCCAATGAATGGCTTT
130 GAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTGCCAATGAATGGC-TT
*
10877 TTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGTTTA-TCTTAATGAAAAATGTAAAAAAAA
194 TTCTACACGTTTCCCAAAGCAAGCATTCAATTATAGTTTAGT-TTAATGAAAAATGT-AAAAAAA
* *
10941 TTGAACTTAAAA-TGAAATATGAGATTATAAAGCCATTTAAAACGAGTAATAAGGCTTTCGAAGA
257 TTGAACTTAAAACT-AAATATCAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGA
* *
11005 AATGGGTGACTAAAGATGGA
321 AATGGGTGACTAAAAATGAA
* *
11025 CTTTTGTTCTCAATGAATGACTTTTTCTACATGTTTCCCAAGGCAGGCATTCAGTTATAGTCTCT
1 CTTTTCTTCTCAATGAATG-CTTTTTCTACATGTTTCCCAAGGCAGGCATTCAATTATAGTCTCT
* **********
11090 TTTAACCAAAACCATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAANNNNNNNNNNGC
65 TTTAACCAAAACCATAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACTATTTTAAGC
* ** * * *
11155 GAGTAATAAGGCTTTTGAAGGAATGGGTAACTATATATGGTCTTTTTTTGCTAATGAATGTCTTT
130 GAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTGCCAATGAATGGCTTT
** * * * *
11220 TCTATGCGTTTCTCAAAGTAAGTATTCAATTATAGTTTAGTTTAATGAAAAATGTAAACAAATTG
195 TCTACACGTTTCCCAAAGCAAGCATTCAATTATAGTTTAGTTTAATGAAAAATGTAAAAAAATTG
* ** * *
11285 AACTTAAAACTAAATATCAGATTATAAAACTATTTAAAGTGAGTAGTAAGGCTTTCGAAGGAATG
260 AACTTAAAACTAAATATCAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGAAATG
11350 GGTGACTAAAAATGAA
325 GGTGACTAAAAATGAA
*
11366 CTTTTCTTGC-CAATGAATGCATTTTTCTTCATGTT
1 CTTTTCTT-CTCAATGAATGC-TTTTTCTACATGTT
11401 CCTCACTATA
Statistics
Matches: 313, Mismatches: 58, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
340 1 0.00
341 108 0.35
342 55 0.18
343 149 0.48
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.34
Consensus pattern (340 bp):
CTTTTCTTCTCAATGAATGCTTTTTCTACATGTTTCCCAAGGCAGGCATTCAATTATAGTCTCTT
TTAACCAAAACCATAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACTATTTTAAGCG
AGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTGCCAATGAATGGCTTTT
CTACACGTTTCCCAAAGCAAGCATTCAATTATAGTTTAGTTTAATGAAAAATGTAAAAAAATTGA
ACTTAAAACTAAATATCAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGAAATGG
GTGACTAAAAATGAA
Found at i:11337 original size:170 final size:170
Alignment explanation
Indices: 10682--11400 Score: 581
Period size: 171 Copynumber: 4.2 Consensus size: 170
10672 NNNNNNNNNN
* * * * * *
10682 CTTTTCTT-CTCAATGAAAGGCTTTTTCTACATGTTTTCTAAGGCAGGCATTCAATTATAGTCTG
1 CTTTTCTTGC-CAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGT-T-
* * * * * * * * * *
10746 T-TTTAGCT-AATAGTTTAAAAAAATTCAACTCAAAATCGATTATGAGATTATAAAACTATTTTA
63 TATTTA-ATGAAAAATGTAAAAAAATTGAACTTAAAATCAAATATGAGATTATAAAACCATTTAA
* *********** *
10809 AGCGAGTAATAAGGCTTTTGAAGGAANNNNNNNNNNTAAATGAA
127 AGCGAGTAATAAGGCTTTCGAAGGAATGGGTGACTAAAAATGGA
*
10853 CTTTTCTTGCCAATGAATGGCTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGTTTAT
1 CTTTTCTTGCCAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGTTTAT
* * *
10918 CTTAATGAAAAATGTAAAAAAAATTGAACTTAAAATGAAATATGAGATTATAAAGCCATTTAAAA
66 -TTAATGAAAAATGT-AAAAAAATTGAACTTAAAATCAAATATGAGATTATAAAACCATTTAAAG
* *
10983 CGAGTAATAAGGCTTTCGAAGAAATGGGTGACTAAAGATGGA
129 CGAGTAATAAGGCTTTCGAAGGAATGGGTGACTAAAAATGGA
* * * *
11025 CTTTTGTT-CTCAATGAATGACTTTTTCTACATGTTTCCCAAGGCAGGCATTCAGTTATAGTCTC
1 CTTTTCTTGC-CAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGT-T-
** *** * * **********
11089 T-TTTAACCAAAACCATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAANNNNNNNNNN
63 TATTTAATGAAAAATGTAAAAAAATTGAACTTAAAATCAAATATGAGATTATAAAACCATTTAAA
* * * * *
11153 GCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATATATGGT
128 GCGAGTAATAAGGCTTTCGAAGGAATGGGTGACTAAAAATGGA
* * * *** * * *
11196 CTTTTTTTGCTAATGAATGTC-TTTTCTATGCGTTTCTCAAAGTAAGTATTCAATTATAGTTTAG
1 CTTTTCTTGCCAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGTTTA-
* * *
11260 TTTAATGAAAAATGTAAACAAATTGAACTTAAAA-CTAAATATCAGATTATAAAACTATTTAAAG
65 TTTAATGAAAAATGTAAAAAAATTGAACTTAAAATC-AAATATGAGATTATAAAACCATTTAAAG
* * *
11324 TGAGTAGTAAGGCTTTCGAAGGAATGGGTGACTAAAAATGAA
129 CGAGTAATAAGGCTTTCGAAGGAATGGGTGACTAAAAATGGA
*
11366 CTTTTCTTGCCAATGAATG-CATTTTTCTTCATGTT
1 CTTTTCTTGCCAATGAATGAC-TTTTTCTACATGTT
11401 CCTCACTATA
Statistics
Matches: 426, Mismatches: 108, Indels: 28
0.76 0.19 0.05
Matches are distributed among these distances:
168 1 0.00
169 4 0.01
170 127 0.30
171 159 0.37
172 132 0.31
173 2 0.00
174 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.34
Consensus pattern (170 bp):
CTTTTCTTGCCAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAATTATAGTTTAT
TTAATGAAAAATGTAAAAAAATTGAACTTAAAATCAAATATGAGATTATAAAACCATTTAAAGCG
AGTAATAAGGCTTTCGAAGGAATGGGTGACTAAAAATGGA
Found at i:14456 original size:171 final size:169
Alignment explanation
Indices: 13825--15325 Score: 1519
Period size: 171 Copynumber: 8.8 Consensus size: 169
13815 NNNNNNAATG
* * * * *
13825 TAAACAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAATAATACGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
** * * * *
13890 TTGAAGGCTTGGTTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTCTTTCTTCAAGTTTCC
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC-A-TTTCC
* * *
13955 -CATGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATA
129 TCAAGG-TAACATTCAATTATAGTCTGTTTTAACCAAAAATA
* * *
13996 TAAAAAAATTCAACTCAAAATCAGTTATGAGATTATAAAACCATTTAAAAGCAAGTAATAAGG-T
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAAGCGAGTAATAAGGCT
* *** * *
14060 ATTTGAAGGAATGGGTAACTATAAATGGACTTTTCTTTTTAATGAATGACTTTTTCTACATGTTT
65 -TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCA--TTT
* * * * ** *
14125 CC-CAAAGCAAGCATTCAATTATAGTTTATTTTAATGAAAAATG
127 CCTCAAGGTAA-CATTCAATTATAGTCTGTTTTAACCAAAAATA
* * * * * *
14168 TAAAAAACTTGAACTTAAAACCAAATATGAGATTATAAAATCATTTAAAGAGAGT-ATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
** * * * *
14232 TCAAAGAAATGGGTGACTATAAATGGACTTTTCTTACCAATCAATGCCTTTTTCTTCGTATTCCT
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCAT-TTCCT
*
14297 CAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATA
130 CAAGGTA-ACATTCAATTATAGTCTGTTTTAACCAAAAATA
* ** * *
14338 TAAAATAATTCTTCTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
** * * *
14403 TCCAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTATACGTTT-C
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCT-T-CATTTCC
** * * *
14467 TTGATGTAAGCATTCAATTATAGTTTGTTTTAACCAAAAATG
129 TCAAGGTAA-CATTCAATTATAGTCTGTTTTAACCAAAAATA
* * * * * *
14509 TAAAAAAATTCGACTTTAAATCAATTATAAGGTTAAAAAACCATTTAAAGTGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* ** * * * *
14574 TTGATGGAATGAATGACTGTAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTTTTCATTTTT
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC--TTTTTCTTCA-TTTC
* * * *
14639 CTCATA-GTAGACATTCAATTAGAGTCTATTTTATCCAAAATTA
128 CTCA-AGGTA-ACATTCAATTATAGTCTGTTTTAACCAAAAATA
* * **
14682 TAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAACCTTGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * *
14747 TTGAAGGAATCGGTGACTATAAATGGACTTTTATTCCCAATGAATGCCTTTTTTTTTCACATTTC
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC-TTTTTCTT--CATTTC
* * * * *
14812 TTGAA-GTAAACATTCAATTATAGTTTGTTTTAACCAAAAGTG
128 CTCAAGGT-AACATTCAATTATAGTCTGTTTTAACCAAAAATA
* * *
14854 TAAAAAAATTCAACTTAAAATCAAATATGAGATTATAGAACCATTTAAACCGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * * * *
14919 TTGAAGGAATTGGTGACTATAAATGGAATTTTCTTACCGAGGACTG-CTTGTTTCTTTACATTT-
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT-TTTC-TT-CATTTC
** * * * * * *
14982 CTTGAGACTGACATTCAATTATTGTTTATTTTAACCAAAAATG
128 CTCAAG-GTAACATTCAATTATAGTCTGTTTTAACCAAAAATA
** * * * * * * *
15025 TAAAAATGTTCAGCTTCACATCAATTATGGGAATATAAAACCATTTAAAGTGAGTAATAAAGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * * **
15090 TTAAAGGAATGGGTAACTATAAATGGACTTTTCTT-CTCAATGAATGGCTTTTTCTACATGTTTT
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGC-CAATGAATGCCTTTTTCTTCAT-TTCC
* *
15154 TCAAGGCAAGCATTCAATTATAGTCTGTTTTAACCAAAACTA
129 TCAAGGTAA-CATTCAATTATAGTCTGTTTTAACCAAAAATA
* * *
15196 TAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGTGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* *
15261 TTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTCCT
66 TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCAT-TTCCT
15326 AGCTATAAAT
Statistics
Matches: 1098, Mismatches: 201, Indels: 62
0.81 0.15 0.05
Matches are distributed among these distances:
168 1 0.00
169 7 0.01
170 140 0.13
171 518 0.47
172 285 0.26
173 143 0.13
174 4 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (169 bp):
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
TTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATTTCCTC
AAGGTAACATTCAATTATAGTCTGTTTTAACCAAAAATA
Found at i:14573 original size:342 final size:341
Alignment explanation
Indices: 13821--15325 Score: 1703
Period size: 342 Copynumber: 4.4 Consensus size: 341
13811 NNNNNNNNNN
* * * *
13821 AATGTAAACAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAATAATACG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
** * * * *
13886 GCTTTTGAAGGCTTGGTTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTCTTTCTTCA-AG
66 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA-
* * * * * *
13950 TTTCC-CATGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTCAA
130 -TTCCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAAATTCAACTTAA
* *
14014 AATCAGTTATGAGATTATAAAACCATTTAAAAGCAAGTAATAAGG-TATTTGAAGGAATGGGTAA
194 AATCAATTATGAGATTATAAAACCATTT-AAAGCGAGTAATAAGGCT-TTTGAAGGAATGGGTAA
* * * **
14078 CTATAAATGGACTTTTCTTTTTAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAA
257 CTATAAATGGACTTTTC-TTCTAATGAATGGCTTTTTCTACACGTTTCTTAAAGCAAGCATTCAA
* **
14143 TTATAGTTTATTTTAATGAAA
321 TTATAGTTTGTTTTAACCAAA
* * * * *
14164 AATGTAAAAAACTTGAACTTAAAACCAAATATGAGATTATAAAATCATTTAAAGAGAGT-ATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
** * * * *
14228 GCTTTCAAAGAAATGGGTGACTATAAATGGACTTTTCTTACCAATCAATGCCTTTTTCTTCGTAT
66 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATAT
* * * **
14293 TCCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATATAAAATAATTCTTCTTAAAA
131 TCCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAA
* * ** *
14358 TCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCCAAGGAATGGGTGACTAT
196 TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTAT
* * * *
14423 AAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTATACGTTTCTTGATGTAAGCATTCAATTAT
261 AAATGGACTTTTCTT-CTAATGAATGGCTTTTTCTACACGTTTCTTAAAGCAAGCATTCAATTAT
14488 AGTTTGTTTTAACCAAA
325 AGTTTGTTTTAACCAAA
* * * * * *
14505 AATGTAAAAAAATTCGACTTTAAATCAATTATAAGGTTAAAAAACCATTTAAAGTGAGTAATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
* ** * * *
14570 GCTTTTGATGGAATGAATGACTGTAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTTTTCAT
66 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC--TTTTTCTTCAT
* * * * *
14635 TTTTCTCATA-GTAGACATTCAATTAGAGTCTATTTTATCCAAAATTATAAAAAAATTCAACTTA
129 ATTCCTCA-AGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAAATTCAACTTA
* * ** * *
14699 AAATCAATTATAAGATTATAAAACCATTTAAACCTTGTAATAAGGCTTTTGAAGGAATCGGTGAC
193 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAAC
* * * * * * * * *
14764 TATAAATGGACTTTTATTCCCAATGAATGCCTTTTTTTTTCACATTTCTTGAAGTAAACATTCAA
258 TATAAATGGACTTTTCTT-CTAATGAATGGC-TTTTTCTACACGTTTCTTAAAGCAAGCATTCAA
14829 TTATAGTTTGTTTTAACCAAA
321 TTATAGTTTGTTTTAACCAAA
* * * **
14850 AGTGTAAAAAAATTCAACTTAAAATCAAATATGAGATTATAGAACCATTTAAACCGAGTAATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
* * * * * * * *
14915 GCTTTTGAAGGAATTGGTGACTATAAATGGAATTTTCTTACCGAGGACTG-CTTGTTTCTTTACA
66 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT-TTTCTTCATA
* ** * * * * ** * *
14979 TTTCTTGAGACT-GACATTCAATTATTGTTTATTTTAACCAAAAATGTAAAAATGTTCAGCTTCA
130 TTCCTCAAG-GTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAAATTCAACTTAA
* * * * * *
15043 CATCAATTATGGGAATATAAAACCATTTAAAGTGAGTAATAAAGCTTTTAAAGGAATGGGTAACT
194 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACT
* *
15108 ATAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTACATGTTT-TTCAAGGCAAGCATTCAAT
259 ATAAATGGACTTTTCTTCT-AATGAATGGCTTTTTCTACACGTTTCTT-AAAGCAAGCATTCAAT
*
15172 TATAGTCTGTTTTAACCAAA
322 TATAGTTTGTTTTAACCAAA
* * * * *
15192 ACTATAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGTGAGTAATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
* * *
15257 GCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGT
66 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATAT
15322 TCCT
131 TCCT
15326 AGCTATAAAT
Statistics
Matches: 965, Mismatches: 182, Indels: 31
0.82 0.15 0.03
Matches are distributed among these distances:
340 2 0.00
341 154 0.16
342 333 0.35
343 187 0.19
344 146 0.15
345 143 0.15
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (341 bp):
AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATAT
TCCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAA
TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTAT
AAATGGACTTTTCTTCTAATGAATGGCTTTTTCTACACGTTTCTTAAAGCAAGCATTCAATTATA
GTTTGTTTTAACCAAA
Found at i:15134 original size:687 final size:686
Alignment explanation
Indices: 13821--15313 Score: 1852
Period size: 687 Copynumber: 2.2 Consensus size: 686
13811 NNNNNNNNNN
* * * * *
13821 AATGTAAACAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAATAATACG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
** ** * ** *
13886 GCTTTTGAAGGCTTGGTTGACTATAAATGGGCTTTTCTTGCCAATGAATGGC--TCTTTCTTCAA
66 GCTTTTGAAGGAATGAATGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTCTTCAA
* * *
13949 GTTTCCCATGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTCAA
131 GTTTCCCATAGAAAACATTCAATTAGAATCTATTTTAACCAAAAATATAAAAAAATTCAACTCAA
* * * *
14014 AATCAGTTATGAGATTATAAAACCATTTAAAAGCAAGTAATAAGGTATTTGAAGGAATGGGTAAC
196 AATCAATTATAAGATTATAAAACCATTTAAAACCAAGTAATAAGGTATTTGAAGGAATCGGTAAC
* *** ** *
14079 TATAAATGGACTTTTCTTTTTAATGAATGACTTTTTCTACATGTTTCCCAAAGCAAGCATTCAAT
261 TATAAATGGACTTTTATTCCCAATGAATGACTTTTTCTACACATTTCCCAAAGCAAACATTCAAT
** * * *
14144 TATAGTTTATTTTAATGAAAAATGTAAAAAACTTGAACTTAAAACCAAATATGAGATTATAAAAT
326 TATAGTTTATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAACCAAATATGAGATTATAAAAC
* * *
14209 CATTTAAAGAGAGTATAAGGCTTTCAAAGAAATGGGTGACTATAAATGGACTTTTCTTACCAATC
391 CATTTAAACAGAGTATAAGGCTTTCAAAGAAATGGGTGACTATAAATGGAATTTTCTTACCAAGC
** * * *
14274 AATGCCTTTTTCTTCGTATTCCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATAT
456 AATGCCTTTTTCTTCACATTCCTCAAGCTAGACATTCAATTATAGTCTATTTTAACCAAAAATAT
** * * * *
14339 AAAATAATTCTTCTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTT
521 AAAATAATTCAGCTTAAAATCAATTATGAGAATATAAAACCATTTAAAGCGAGTAATAAAGCTTT
* * *
14404 CCAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTATACGTTTCTT
586 CAAAGGAATGGGTAACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTACACGTTT-TT
* * * *
14469 -GATGTAAGCATTCAATTATAGTTTGTTTTAACCAAA
650 CAAGGCAAGCATTCAATTATAGTCTGTTTTAACCAAA
* * * * *
14505 AATGTAAAAAAATTCGACTTTAAATCAATTATAAGGTTAAAAAACCATTTAAAGTGAGTAATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* * * *
14570 GCTTTTGATGGAATGAATGACTGTAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTTTTCAT
66 GCTTTTGAAGGAATGAATGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTCTTCAA
* * * * * * * *
14635 TTTTCTCATAGTAGACATTCAATTAGAGTCTATTTTATCCAAAATTATAAAAAAATTCAACTTAA
131 GTTTCCCATAGAAAACATTCAATTAGAATCTATTTTAACCAAAAATATAAAAAAATTCAACTCAA
** *
14700 AATCAATTATAAGATTATAAAACCATTT-AAACCTTGTAATAAGGCT-TTTGAAGGAATCGGTGA
196 AATCAATTATAAGATTATAAAACCATTTAAAACCAAGTAATAAGG-TATTTGAAGGAATCGGTAA
* * * *** *
14763 CTATAAATGGACTTTTATTCCCAATGAATGCCTTTTTTTTTCACATTTCTTGAAGTAAACATTCA
260 CTATAAATGGACTTTTATTCCCAATGAATGAC-TTTTTCTACACATTTCCCAAAGCAAACATTCA
* * * *
14828 ATTATAGTTTGTTTTAACCAAAAGTGTAAAAAAATTCAACTTAAAATCAAATATGAGATTATAGA
324 ATTATAGTTTATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAACCAAATATGAGATTATAAA
* ** * * *
14893 ACCATTTAAACCGAGTAATAAGGCTTTTGAAGGAATTGGTGACTATAAATGGAATTTTCTTACCG
389 ACCATTTAAACAGAGT-ATAAGGCTTTCAAAGAAATGGGTGACTATAAATGGAATTTTCTTACCA
* * * * ** * *
14958 AGGACTG-CTTGTTTCTTTACATTTCTTGAGACT-GACATTCAATTATTGTTTATTTTAACCAAA
453 AGCAATGCCTT-TTTCTTCACATTCCTCAAG-CTAGACATTCAATTATAGTCTATTTTAACCAAA
* * * * * *
15021 AATGTAAAA-ATGTTCAGCTTCACATCAATTATGGGAATATAAAACCATTTAAAGTGAGTAATAA
516 AATATAAAATA-ATTCAGCTTAAAATCAATTATGAGAATATAAAACCATTTAAAGCGAGTAATAA
* *
15085 AGCTTTTAAAGGAATGGGTAACTATAAATGGACTTTTCTT-CTCAATGAATGGCTTTTTCTACAT
580 AGCTTTCAAAGGAATGGGTAACTATAAATGGACTTTTCTTGCT-AATGAATGGCTTTTTCTACAC
15149 GTTTTTCAAGGCAAGCATTCAATTATAGTCTGTTTTAACCAAA
644 GTTTTTCAAGGCAAGCATTCAATTATAGTCTGTTTTAACCAAA
* * * *
15192 ACTATAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGTGAGTAATAAG
1 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
*
15257 GCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTT
66 GCTTTTGAAGGAATGAATGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTT
15314 CTTCATGTTC
Statistics
Matches: 681, Mismatches: 118, Indels: 17
0.83 0.14 0.02
Matches are distributed among these distances:
684 98 0.14
685 55 0.08
686 190 0.28
687 337 0.49
688 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (686 bp):
AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
GCTTTTGAAGGAATGAATGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTTTCTTCAA
GTTTCCCATAGAAAACATTCAATTAGAATCTATTTTAACCAAAAATATAAAAAAATTCAACTCAA
AATCAATTATAAGATTATAAAACCATTTAAAACCAAGTAATAAGGTATTTGAAGGAATCGGTAAC
TATAAATGGACTTTTATTCCCAATGAATGACTTTTTCTACACATTTCCCAAAGCAAACATTCAAT
TATAGTTTATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAACCAAATATGAGATTATAAAAC
CATTTAAACAGAGTATAAGGCTTTCAAAGAAATGGGTGACTATAAATGGAATTTTCTTACCAAGC
AATGCCTTTTTCTTCACATTCCTCAAGCTAGACATTCAATTATAGTCTATTTTAACCAAAAATAT
AAAATAATTCAGCTTAAAATCAATTATGAGAATATAAAACCATTTAAAGCGAGTAATAAAGCTTT
CAAAGGAATGGGTAACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTACACGTTTTTC
AAGGCAAGCATTCAATTATAGTCTGTTTTAACCAAA
Found at i:15337 original size:51 final size:52
Alignment explanation
Indices: 15277--15378 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 52
15267 GAATGAGTGA
*
15277 CTATAAATGGACTTTTCTTGC-CAATGAAT-ACCTTTTTCTTCATG-TTCCTAG
1 CTATAAATGGACTTTTCTT-CTCAATGAATGA-CTTTTTCTACATGTTTCCTAG
15328 CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCTA
1 CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCTA
15379 AGACAGGCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
50 1 0.02
51 39 0.83
52 7 0.15
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (52 bp):
CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCTAG
Found at i:15685 original size:171 final size:171
Alignment explanation
Indices: 15328--15708 Score: 410
Period size: 171 Copynumber: 2.2 Consensus size: 171
15318 ATGTTCCTAG
*
15328 CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCTAAGACAGGCATTTAG
1 CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCAAAGACAGGCATTTAG
* * * * * * * *
15393 TTATAGTTTGTTTTAGCCAAAAGTGTAAAAAAACTCAACTCAAAATCGATTATGAGGTTATAAAA
66 TTATAGTTTATTTTAACCAAAAATATAAAAAAACTCAACTCAAAACCAAATATGAGATTATAAAA
********** *
15458 CCATTTAAAGCGAGTAATAAGGCTNNNNNNNNNNTGGGTAA
131 CCATTTAAAGCGAGTAATAAGGCTTTCAAAGAAATAGGTAA
* *
15499 CTATAAATGGACTTTTCTTCTCAATGAATGGCTTATTCTACATGTTTCCCAAAGTA-A-GCATTC
1 CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTT-CCAAAG-ACAGGCATT-
** * * *
15562 TA-TTATAGTTTATTTTAATGAAAAATATAAAAAAATTGAACTTAAAACCAAATATGAGATTATA
63 TAGTTATAGTTTATTTTAACCAAAAATATAAAAAAACTCAACTCAAAACCAAATATGAGATTATA
* *
15626 AAACCTTTTAAAGCGAGTAATAAGGCTTTCAAAGAAATAGGTGA
128 AAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGAAATAGGTAA
* * *
15670 CTATAGATAGACTTTTCTTAC-CAATGAATGCCTTTTTCT
1 CTATAAATGGACTTTTCTT-CTCAATGAATGACTTTTTCT
15709 TCGTGTTCCT
Statistics
Matches: 173, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
171 163 0.94
172 9 0.05
173 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.34
Consensus pattern (171 bp):
CTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCAAAGACAGGCATTTAG
TTATAGTTTATTTTAACCAAAAATATAAAAAAACTCAACTCAAAACCAAATATGAGATTATAAAA
CCATTTAAAGCGAGTAATAAGGCTTTCAAAGAAATAGGTAA
Found at i:18204 original size:171 final size:170
Alignment explanation
Indices: 17894--19067 Score: 1197
Period size: 171 Copynumber: 6.9 Consensus size: 170
17884 NNNNNNNNNN
* * * * * *
17894 AATTCAACTCAAAATCGATTATGAGATTATAAAACTATTTAAAGTGAGTAATAATGTTTTTGAAG
1 AATTCAACTCAAAATCAATTATAAG-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * * * *
17959 GAATAAGTAACTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACATGTTTCCCAAGGT
65 GAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAAGT
* *
18024 AGGCATTCAATTATAGT-TAGTTTTAACCAAAAGTGTAAAAA
130 AGACATTCAATTATAGTCT-GTTTTAACCAAAAATGTAAAAA
* * *
18065 ATTTCAACTCAAAATCAACTATAAAGTTATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAG
1 AATTCAACTCAAAATCAATTAT-AAGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * * * *
18130 GAATTGGTGACTCTAAATGGACTTTTCTTGTCAATAAATGCCTTTCTCTTCACGTTTCTCAAAGT
65 GAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAAGT
*
18195 AGACATTCAATTATAGTCTGTTTTTTACCAAAAATGTAAAAA
130 AGACATTCAATTATAGTCTG-TTTTAACCAAAAATGTAAAAA
* * * * * *
18237 ACATTCAACTTAAAATTAATTATGAAATTATAAAATCATTTAAAACGAGTAATAAAGCTTTTGAA
1 A-ATTCAACTCAAAATCAATTAT-AAGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * ** * *
18302 GAAATAGCTGACTATAAATAGACTTTTCTTGGCAATGAATGCCTTTTTCTTCACGTTTCTCGAAG
64 GGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAAG
*
18367 TAGACATTCAATTATAGTCTGTTTTAACAAAAAATGT-AAAA
129 TAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
* * * *
18408 AATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGATG
1 AATTCAACTCAAAATCAATTATAAG-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * ** *
18473 GAAGAGGGGACTATAAATGGACTTTTCATGGCAATGAATGCCTTTTTCTTCATGTTTCTCGAAGT
65 GAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAAGT
* * *
18538 AGACATTCAATTATAGCCTGGTTTCACCAAAAATGTAAAAA
130 AGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
* * * * *
18579 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTTATGCGAGTAATAAGGCTTTCGAAG
1 AATTCAACTCAAAATCAATTATAAG-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * *
18644 GAAT-GAGTGACTATAAATGGACTTTTCTTATCGATGAATG-CTTGTTTCCTT-ATGTTTTTCAA
65 GAATAG-GTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTT-TTT-CTTCATGTTTCTCAA
* * *
18706 GGCT-GACATTCAATTATTGTCTATTTTAA-CATAAAATGTAAAAA
127 AG-TAGACATTCAATTATAGTCTGTTTTAACCA-AAAATGTAAAAA
** * ** * * * *
18750 CGTTCAGCTTC-AAATCAATTATGGGAATACAAAACCACTTAAAGTGAGTAATAAAGG-TTTTGA
1 AATTCAAC-TCAAAATCAATTATAAG-TTATAAAACCATTTAAAGCGAGTAAT-AAGGCTTTTGA
* * * * * **
18813 AGGAATGGGTAACTATAAATAGACGTTTCTTCTCAATGAATGGCTTTTTCTAAATGTTTC-CTAA
63 AGGAATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTC-AA
* * * * * *
18877 GGCA-AGCATGCAATTATAGTCTGTTTTAACTAAAAGTGCAAAAA
127 AGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
* * * *
18921 AATTCAACTGACAATCCATTATGATA-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAA
1 AATTCAACTCAAAATCAATTAT-A-AGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * * * *
18985 GGAATAAGTAACTATAAATAGG-CTTTTCTTCTCAATAAATGGCTTTTTCTACATGTTTCCCAAA
64 GGAATAGGTGACTATAAAT-GGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAA
*
19049 GCA-AGCATTCAATTATAGT
128 GTAGA-CATTCAATTATAGT
19068 TTATNNNNNN
Statistics
Matches: 847, Mismatches: 130, Indels: 52
0.82 0.13 0.05
Matches are distributed among these distances:
169 1 0.00
170 159 0.19
171 504 0.60
172 53 0.06
173 130 0.15
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (170 bp):
AATTCAACTCAAAATCAATTATAAGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG
AATAGGTGACTATAAATGGACTTTTCTTCTCAATGAATGCCTTTTTCTTCATGTTTCTCAAAGTA
GACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
Found at i:19507 original size:172 final size:167
Alignment explanation
Indices: 19172--19691 Score: 548
Period size: 172 Copynumber: 3.0 Consensus size: 167
19162 NNNNNNNNNN
* * *
19172 ATGAATGGCTTTTTCTACACATTTTCC-AAGGTAGGCATTCAATTATACTCTGTTTTCACTAAAA
1 ATGAATGGCTTTTTCTACACA-TTTCCTAA-GTAGGCATTCAATTATAATTTGTTTT-AATAAAA
* *
19236 GTGTAAAAAAATTCAACTCAAAATCG-ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
63 ATGTAAAAAAATT-AACTTAAAAT-GAATTATGAGATTATAAAA-CATTTAAAGCGAGTAATAAG
* * *
19300 GCTTTTAAAGGAATGAGTAACTATAAATAGACTTTTCTTCCCA
125 GCTTTTAAAAGAATGGGTGACTATAAATAGACTTTTCTTCCCA
** * * *
19343 ATGAATGGCTTTTTCTACATGTTTCCCTAAGCAAGCATTCAATTATAATTTATTTTAATAAAAAA
1 ATGAATGGCTTTTTCTACACATTT-CCTAAGTAGGCATTCAATTATAATTTGTTTTAAT-AAAAA
* * * *
19408 TGTAAAAAAACTTGAACTTAAAATGAAATATGAGATTATAAAATCATTTAAAGTGAGTAGTAAGC
64 TGTAAAAAAA-TT-AACTTAAAATGAATTATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGG
* *
19473 CTTTTAAAAGAATGGGCGACTA-AAGATAGACTTTTCTTCTCA
126 CTTTTAAAAGAATGGGTGACTATAA-ATAGACTTTTCTTCCCA
** * * *
19515 ATGAATGGCACTTTCTACACATTTCTTGATA-TAGGCATTCAATTATAGTTTGTTTTAACCAAAA
1 ATGAATGGCTTTTTCTACACATTTCCT-A-AGTAGGCATTCAATTATAATTTGTTTTAA-TAAAA
* * *
19579 ATGTAAAACAATTAGACTTAAAATCAATTATAAGATT-TAAAGACTATTTAAAGCGAGTAATAAG
63 ATGTAAAAAAATTA-ACTTAAAATGAATTATGAGATTATAAA-AC-ATTTAAAGCGAGTAATAAG
* * * *
19643 GCTTTTGAAAGAATTGGTGACTATAAAT-GAACTTTTCTTTCAA
125 GCTTTTAAAAGAATGGGTGACTATAAATAG-ACTTTTCTTCCCA
19686 ATGAAT
1 ATGAAT
19692 ACCATTTTCT
Statistics
Matches: 291, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
170 12 0.04
171 137 0.47
172 141 0.48
173 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (167 bp):
ATGAATGGCTTTTTCTACACATTTCCTAAGTAGGCATTCAATTATAATTTGTTTTAATAAAAATG
TAAAAAAATTAACTTAAAATGAATTATGAGATTATAAAACATTTAAAGCGAGTAATAAGGCTTTT
AAAAGAATGGGTGACTATAAATAGACTTTTCTTCCCA
Found at i:20254 original size:171 final size:170
Alignment explanation
Indices: 19957--20557 Score: 554
Period size: 171 Copynumber: 3.5 Consensus size: 170
19947 NNNNNNNNNN
* * * * *
19957 TGGGTGACTATAAATAGACTTTTCTTCTCAATGGATAGCTTTTTCTACATGTTT-TCCAAGGCAT
1 TGGGTAACTATAAATAGACTTTTCTAC-CAATGAATA-CTTTTTCTTCATGTTTCT-CAAGGTA-
* * * *
20021 G-CATTCAATTATAGTATGTTTTAAC--CAAATGTATAAAAAAATTCAACTTAAAATCGATTATG
62 GACATTCAATTATGGTCTGTTTTAACTAAAAATG-ACAAAAAAATTCAACTTAAAATCGATTATG
* *
20083 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTCTGAAGGAA
126 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
*
20128 TGGGTAACTATAAATAGACTTTTTCTACCAATGAATACTTTTTTCTTTATGTTTCTCAAGGTAGA
1 TGGGTAACTATAAATAGAC-TTTTCTACCAATGAATAC-TTTTTCTTCATGTTTCTCAAGGTAGA
* * * * *
20193 CATTCAATTTTGGTCTATTTTAACTATAAATGA-AAAAAAATTCAACTCAAAATCAATTATGAGA
64 CATTCAATTATGGTCTGTTTTAACTAAAAATGACAAAAAAATTCAACTTAAAATCGATTATGAGA
* * *
20257 TTATATAACCATTTAAAGTGGGTAATAAGGATTTTGAAGGAA
129 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
* * * * * * * *
20299 TGGGTGACTATAAATGGACTTTTTTTGCCAATGAAAGACTTTGTATTCATGTTTCTCGAGGTAGA
1 TGGGTAACTATAAATAGAC-TTTTCTACCAATG-AATACTTTTTCTTCATGTTTCTCAAGGTAGA
* ***********
20364 CGTTCAATTATTGG-CTGTTTTAACTAAAAAT-ACANNNNNNNNNNNCTTAAAATCGATTATGAG
64 CATTCAATTA-TGGTCTGTTTTAACTAAAAATGACAAAAAAATTCAACTTAAAATCGATTATGAG
* * *
20427 ATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTTAAAGAA
128 ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
* * * * ** *
20470 TAGGCAATTATAAATGGACTTTTCTTACCAATGAATGTTTTTTTCTTCACGTTTCTCGAA-GTAG
1 TGGGTAACTATAAATAGACTTTTC-TACCAATGAAT-ACTTTTTCTTCATGTTTCTC-AAGGTAG
*
20534 ACATAT-AATTATGGTCTGCTTTAA
63 ACAT-TCAATTATGGTCTGTTTTAA
20558 NNNNNNNNNN
Statistics
Matches: 351, Mismatches: 65, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
170 12 0.03
171 316 0.90
172 18 0.05
173 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.36
Consensus pattern (170 bp):
TGGGTAACTATAAATAGACTTTTCTACCAATGAATACTTTTTCTTCATGTTTCTCAAGGTAGACA
TTCAATTATGGTCTGTTTTAACTAAAAATGACAAAAAAATTCAACTTAAAATCGATTATGAGATT
ATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
Found at i:24056 original size:171 final size:170
Alignment explanation
Indices: 23664--24222 Score: 683
Period size: 171 Copynumber: 3.3 Consensus size: 170
23654 TTCTTTTTGA
* * * * * *
23664 CATTCAATTATTGTCTGTTTTAACCAAAAACGTAAAAAAGTTCATCTTC-AACTCAATTATG-GG
1 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAAC-TCAAAATCAATTATGAGA
* * * * *
23727 TATACAAAACCATTGAAAGCAAATAATAGAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTT
65 T-TA-TAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTT
* *
23792 TCTTCTCAATGACTGGC-TTTTCTACATGTTTTCCAAGGTAGG
128 TCTTCTCAATGAATGGCTTTTTCTACATGTTTCCCAAGGTAGG
* * *
23834 CATTCAATTATAGTCTGTTTTAACCACAAGTGTAAAAAAATTCAACTCAAAATCGATTATGAGAT
1 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGAT
*
23899 TATAAATCCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATGGGTAACTATAAATGGACTTTTC
66 TATAAA-CCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTTTC
* *
23964 TTCTCAATGAATGGCTTTTTCTACATGTTCCCCAAGGCAGG
130 TTCTCAATGAATGGCTTTTTCTACATGTTTCCCAAGGTAGG
* * * * * *
24005 CATTCAATTATAGTTTGTTTTAACTAAAAGTGTAAAAAATTTCAACTCAAAATCAACTATGAAAT
1 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGAT
* * * * *
24070 TATTAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAAGAATGGGTGACTCTAAATGGACTTTTT
66 TA-TAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTTTC
* * * * * * * * **
24135 TTGTCAATAAATGCCTTTCTCTTCACGTTTCTCAAAGTACA
130 TTCTCAATGAATGGCTTTTTCTACATGTTTCCCAAGGTAGG
*
24176 CATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACT
1 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
24223 TANNNNNNNN
Statistics
Matches: 337, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
169 5 0.01
170 119 0.35
171 209 0.62
172 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (170 bp):
CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGAT
TATAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTTTCT
TCTCAATGAATGGCTTTTTCTACATGTTTCCCAAGGTAGG
Found at i:26232 original size:170 final size:160
Alignment explanation
Indices: 26006--26329 Score: 341
Period size: 170 Copynumber: 2.0 Consensus size: 160
25996 GTAATAAGAG
* * *
26006 TTTTGAAGGTATTAGTGACTATAAAAGGACTTTTCTTATCAATGAATGTATTTTCTTCACATT-T
1 TTTTGAAGGAATGAGTGACTATAAAAGGACTTTTCTTACCAATGAATGTATTTTCTTCAC-TTCT
* * *
26070 CTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATACAAAATAATTCT-ACTTAAAAT
65 CTTGAACTAGACATTCAATTATAGTATGTTTTAACTAAAAATACAAAAAAATT-TAACTTAAAAT
* *
26134 CATTTATTAGATTATAAAACCATTTAAANNNNNNNNNNAGGC
129 CAATTATGAGATTATAAAACCATTTAAA----------AGGC
* * * *
26176 TTTTGAAGGAATGGGTGACTATGAATGGAC-TTTCTTGCCAATGAATGCCT-TTTTCTTCACTTC
1 TTTTGAAGGAATGAGTGACTATAAAAGGACTTTTCTTACCAATGAATG--TATTTTCTTCACTTC
* * *
26239 TCTTGTACTAGACATTCAATTATAGTATGTTTTAGCTAAAAATATAAAAAAATTTAACTTAAAAT
64 TCTTGAACTAGACATTCAATTATAGTATGTTTTAACTAAAAATACAAAAAAATTTAACTTAAAAT
* *
26304 CAATTATGCGATTATAAAACTATTTA
129 CAATTATGAGATTATAAAACCATTTA
26330 NNNNNNNNNN
Statistics
Matches: 133, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
169 18 0.14
170 114 0.86
171 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.38
Consensus pattern (160 bp):
TTTTGAAGGAATGAGTGACTATAAAAGGACTTTTCTTACCAATGAATGTATTTTCTTCACTTCTC
TTGAACTAGACATTCAATTATAGTATGTTTTAACTAAAAATACAAAAAAATTTAACTTAAAATCA
ATTATGAGATTATAAAACCATTTAAAAGGC
Found at i:26858 original size:169 final size:171
Alignment explanation
Indices: 26572--26920 Score: 465
Period size: 169 Copynumber: 2.1 Consensus size: 171
26562 NNNATAAATA
* * * * * * *
26572 GACTTTTCTTGCCAATGAATGCCATTTTCTTCACTTTTCTCATAGTATACATTCAATTATAGTCT
1 GACTTTTCTTGACAATGAATACCATTTTCTTAACCTTTCTCATAGCAGACATTCAATTAGAGTCT
*
26637 GTTTTAGTCAAAAATATAAAATAATTCAACTTAAAATCAATTATGAGATTAT-AAACCTATTTAA
66 GTTTTAGTCAAAAATATAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACC-ATTTAA
26701 AAAGAGAAATAAGGCTTTGGAAGGAATA-AGTGACTATAAAAG
130 AAAGAGAAATAAGGCTTTGGAAGGAATAGA-TGACTATAAAAG
* * *
26743 GATTTTTCTTGACAATGAATACC-TTTTCTTAACCTTTCTCGTAGCAGACATTCAATTAGAGTTT
1 GACTTTTCTTGACAATGAATACCATTTTCTTAACCTTTCTCATAGCAGACATTCAATTAGAGTCT
* * *
26807 G-TTTA-TCAAAAAATGTAAAACAATTCAACTTAGAATCAATTATGGGATTATAAAACCATTTAA
66 GTTTTAGTC-AAAAATATAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
** * * *
26870 AGTGAGGAATAAGGCTTTTGAAGGAATAGATGACTATAAATG
130 AAAGAGAAATAAGGCTTTGGAAGGAATAGATGACTATAAAAG
26912 GACTTTTCT
1 GACTTTTCT
26921 NNNNNNNNNN
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
168 2 0.01
169 92 0.59
170 41 0.26
171 20 0.13
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
GACTTTTCTTGACAATGAATACCATTTTCTTAACCTTTCTCATAGCAGACATTCAATTAGAGTCT
GTTTTAGTCAAAAATATAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
AAGAGAAATAAGGCTTTGGAAGGAATAGATGACTATAAAAG
Found at i:28692 original size:171 final size:171
Alignment explanation
Indices: 28500--28836 Score: 432
Period size: 171 Copynumber: 2.0 Consensus size: 171
28490 AATGCTTGCT
* *
28500 TTGGGAAACATGTAAAAAAAGCCATTCATT-AGCAAGAAAAGTCTATTTATAGTTGCCCATTCCT
1 TTGGGAAACATGTAAAAAAAGCCATTCATTGAG-AAGAAAAGTCCATTTATAGTTACCCATTCCT
* * * *
28564 TCAAAAG-TCTTATTAC-CTGCTTTAAATGGTTTTATAATCTGC-TAATCGATTTTG-AGTTGAA
65 TCAAAAGCT-TTATTACTC-ACTTTAAATAGTTTTATAATC-CCATAATCGA-TTTGAAGCTGAA
* * *
28625 TTTTTTTACACTTTTGGTTTAAACAAACTATAATTGAATGTGTGCC
126 CTTTTTTACACTTTTGGTTAAAACAAACAATAATTGAATGTGTGCC
* * *
28671 TTGGGAAACATGTAGAAAAAGCCATTTATTGAGAAGAAAAGTCCATTTATAGTTACCCATTTCTT
1 TTGGGAAACATGTAAAAAAAGCCATTCATTGAGAAGAAAAGTCCATTTATAGTTACCCATTCCTT
* * *
28736 CAAAAGCTTTATTACTCACTTTAAATAGTTTTGTATTCCCATAATTGATTTGAAGCTGAACTTTT
66 CAAAAGCTTTATTACTCACTTTAAATAGTTTTATAATCCCATAATCGATTTGAAGCTGAACTTTT
* * *
28801 TTACATTTTTGGTTAAAATAGACAATAATTGAATGT
131 TTACACTTTTGGTTAAAACAAACAATAATTGAATGT
28837 CAACCNNNNN
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
170 5 0.03
171 134 0.94
172 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (171 bp):
TTGGGAAACATGTAAAAAAAGCCATTCATTGAGAAGAAAAGTCCATTTATAGTTACCCATTCCTT
CAAAAGCTTTATTACTCACTTTAAATAGTTTTATAATCCCATAATCGATTTGAAGCTGAACTTTT
TTACACTTTTGGTTAAAACAAACAATAATTGAATGTGTGCC
Found at i:29794 original size:171 final size:171
Alignment explanation
Indices: 29497--30721 Score: 1263
Period size: 171 Copynumber: 7.2 Consensus size: 171
29487 NNNNNNNNNN
* ** * *
29497 GGTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTACATTTTTGGCTAAAACAAATTAT
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTAT
* * * * *
29562 AATTGAATGCCTACTATGAGAAAAGTTAAGAAAAAGGCATTCATT-AGCAATAAAAGTCTATTTA
66 AATTGAATGTCTACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAG-AAGAAAAGTCTATTTA
* *
29626 TAGTCACCCATTCCTTCAAAAGCTTTATTACTCATTTTAAAA
130 TAGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
* * * * ** * * * * * *
29668 AGTTTTATAACCTCATATTTGGTTTTTTGTTTAATTTTTTTACATTTTTCATTAACATAAACTAC
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTAT
* * * * *
29733 AATTGAATG-CTTGA-TTTGGGAAACGTGTATAAAAAGCCATTTATTGAGAAGAAAAGTCTATTT
66 AATTGAATGTC-T-ACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAGAAGAAAAGTCTATTT
* * * *
29796 ATAGTTACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAAT
129 ATAGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
* * * * * * *
29839 GGTTTTATAATATCGTAATCGATTTTCAGTTGAATTTTTTTGCACTTTT-AGTTAAAATAGACTA
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGA-TTAAAACAGACTA
* * * * ** * *
29903 TAATTGAATG-CTGGCCTT-AGGAAACATTTAA-AAAAACTCATTCATTAAGAAGAAAAGTTTAT
65 TAATTGAATGTCT-ACTTTGA-GAAAC-GTGAAGAAAAAGGCATTCATTGAGAAGAAAAGTCTAT
* * *
29965 TTATAGTTATCCATTCCTTCAAAAGCTTTATTACTCACTTTAAGT
127 TTATAGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
* * * * * ** * *
30010 GGTTTTGTATTCCCAATAATTGATTTGAAGATGAACGTTTTTACATTTTTGATTAAAATAGACAA
1 GGTTTTATAATCTC-ATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTA
* * * * *
30075 TAATTGAATGTC-AGCCTTGAGAAACGTAAAGAAACAA-GCATTCATAGACAAGAAAAGTCCATT
65 TAATTGAATGTCTA-CTTTGAGAAACGTGAAGAAA-AAGGCATTCATTGAGAAGAAAAGTCTATT
* *
30138 TATAGTCACTCATTCCTTCAAAAG-TCTTATTACAT-GCTTTAAAT
128 TATAGTCACCCATTCCTTCAAAAGCT-TTATTAC-TCACTTTAAAT
* * * *
30182 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTCAAACCAGACTAT
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTAT
* *
30247 AATTGAATGTCTACTTTGAGAAACGTGAAGAGAAAGGCATTTATTG-GCAAGAAAAGTCTATTTA
66 AATTGAATGTCTACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAG-AAGAAAAGTCTATTTA
* * * **
30311 TAGTCACCTATTCCTTTAAAAGCCTTATTACTTGCTTTAAAT
130 TAGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
*
30353 GGTTTTATAATCTCATAATTGAATTTAAGTTGAATTGTTTTTACATTTTT-AGTTAAAACAGACT
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATT-TTTTTACATTTTTGA-TTAAAACAGACT
* * *
30417 ATAATTGAATGTCTACTTCGAGAAACATGAAGAAAAAGGCATTCATTG-GCAAGAAAAGTCCATT
64 ATAATTGAATGTCTACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAG-AAGAAAAGTCTATT
* * * *
30481 TATAGTTAGCTATTCCTTCAAAAGCTTTATTACTCATTTTAAAT
128 TATAGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
* * *
30525 GATTTTATAATTTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
1 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTAT
* * * * * *
30590 AATTGAATGTCTACTTTGAGAAATGTGAAGAGAAAGGCATTTATTGACAAGAAAAGTCCATTTAG
66 AATTGAATGTCTACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAGAAGAAAAGTCTATTTAT
* * * * ** *
30655 AGTCACCCATTCTTTCGACAGCCTTGGTACTCGCTTTAAAT
131 AGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
* * *
30696 GGTTTAATAATTTCATAGTTGATTTT
1 GGTTTTATAATCTCATAATTGATTTT
30722 GAGTNNNNNN
Statistics
Matches: 874, Mismatches: 155, Indels: 50
0.81 0.14 0.05
Matches are distributed among these distances:
170 7 0.01
171 578 0.66
172 283 0.32
173 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (171 bp):
GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTAT
AATTGAATGTCTACTTTGAGAAACGTGAAGAAAAAGGCATTCATTGAGAAGAAAAGTCTATTTAT
AGTCACCCATTCCTTCAAAAGCTTTATTACTCACTTTAAAT
Found at i:30190 original size:343 final size:341
Alignment explanation
Indices: 29497--30706 Score: 1182
Period size: 343 Copynumber: 3.5 Consensus size: 341
29487 NNNNNNNNNN
* * * * *
29497 GGTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTACATTTTTGGCTAAAACAAATTAT
1 GGTTTTATAATATCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
* * * * *
29562 AATTGAATGCCTAC-TATGAGAAAAGTTAAGAAAAAGGCATTCATTAGCAATAAAAGTCTATTTA
66 AATTGAATGTCTACTTA-GAGAAACGTGAAGAAAAACGCATTCATTAGCAAGAAAAGTCTATTTA
* * * ** * *
29626 TAGTCACCCATTCCTTCAAAAGCTTTATTACTCATTTTAAAAAGTTTTATAA-CCTCATATTTGG
130 TAGTCACCTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCC-CATAATTGA
* ** * * * * * * * * *
29690 TTTTTTGTTTAAT-TTTTTTACATTTTTCA-TTAACATAAACTACAATTGAATG-CTTGA-TTTG
194 ATTTAAGATGAATCGTTTTTACATTTTT-AGTTAAAACAGACAATAATTGAATGTC-T-ACTTCG
* * ** * * * * * * * *
29751 GGAAACGTGTATAAAAAGCCATTTATTGAGAAGAAAAGTCTATTTATAGTTACCCATTCCTTTAA
256 AGAAACATAAAGAAAAAGGCATTCATAGACAAGAAAAGTCCATTTATAGTTACTCATTCCTTCAA
29816 AAGCCTTATTACTCGCTTTAAAT
321 AAG-CTTATTACT-GCTTTAAAT
* * * * * * *
29839 GGTTTTATAATATCGTAATCGATTTTCAGTTGAATTTTTTTGCACTTTTAGTTAAAATAGACTAT
1 GGTTTTATAATATCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
* * * * *
29904 AATTGAATG-CTGGCCTTAG-GAAACATTTAA-AAAAACTCATTCATTAAG-AAGAAAAGTTTAT
66 AATTGAATGTCT--ACTTAGAGAAAC-GTGAAGAAAAACGCATTCATT-AGCAAGAAAAGTCTAT
* * * * *
29965 TTATAGTTATCC-ATTCCTTCAAAAGCTTTATTACTCACTTTAAGTGGTTTTGTATTCCCAATAA
127 TTATAGTCA-CCTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCCC-ATAA
*
30029 TTG-ATTTGAAGATGAA-CGTTTTTACATTTTT-GATTAAAATAGACAATAATTGAATGTC-AGC
190 TTGAATTT-AAGATGAATCGTTTTTACATTTTTAG-TTAAAACAGACAATAATTGAATGTCTA--
* *
30090 CTT-GAGAAACGTAAAGAAACAA-GCATTCATAGACAAGAAAAGTCCATTTATAGTCACTCATTC
251 CTTCGAGAAACATAAAGAAA-AAGGCATTCATAGACAAGAAAAGTCCATTTATAGTTACTCATTC
30153 CTTCAAAAGTCTTATTACATGCTTTAAAT
315 CTTCAAAAG-CTTATTAC-TGCTTTAAAT
* * * *
30182 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGGTCAAACCAGACTAT
1 GGTTTTATAATATCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
* * * * *
30247 AATTGAATGTCTACTTTGAGAAACGTGAAGAGAAAGGCATTTATTGGCAAGAAAAGTCTATTTAT
66 AATTGAATGTCTACTTAGAGAAACGTGAAGAAAAACGCATTCATTAGCAAGAAAAGTCTATTTAT
* ** *
30312 AGTCACCTATTCCTTTAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGAAT
131 AGTCACCTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCCCATAATTGAAT
* * *
30377 TTAAGTTGAATTGTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAA
196 TTAAGATGAATCGTTTTTACATTTTTAGTTAAAACAGACAATAATTGAATGTCTACTTCGAGAAA
* * *
30442 CATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTTAGCT-ATTCCTTCAAAAGC
261 CATAAAGAAAAAGGCATTCATAGACAAGAAAAGTCCATTTATAGTTA-CTCATTCCTTCAAAAGC
30506 TTTATTACT-CATTTTAAAT
325 -TTATTACTGC--TTTAAAT
* *
30525 GATTTTATAATTTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
1 GGTTTTATAATATCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
* * * * * *
30590 AATTGAATGTCTACTTTGAGAAATGTGAAGAGAAAGGCATTTATT-GACAAGAAAAGTCCATTTA
66 AATTGAATGTCTACTTAGAGAAACGTGAAGAAAAACGCATTCATTAG-CAAGAAAAGTCTATTTA
* * * * * ** * *
30654 GAGTCACCCATTCTTTCGACAGCCTTGGTACTCGCTTTAAATGGTTTAATAAT
130 TAGTCACCTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT
30707 TTCATAGTTG
Statistics
Matches: 728, Mismatches: 106, Indels: 67
0.81 0.12 0.07
Matches are distributed among these distances:
341 4 0.01
342 171 0.23
343 539 0.74
344 14 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (341 bp):
GGTTTTATAATATCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
AATTGAATGTCTACTTAGAGAAACGTGAAGAAAAACGCATTCATTAGCAAGAAAAGTCTATTTAT
AGTCACCTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCCCATAATTGAAT
TTAAGATGAATCGTTTTTACATTTTTAGTTAAAACAGACAATAATTGAATGTCTACTTCGAGAAA
CATAAAGAAAAAGGCATTCATAGACAAGAAAAGTCCATTTATAGTTACTCATTCCTTCAAAAGCT
TATTACTGCTTTAAAT
Found at i:30545 original size:514 final size:509
Alignment explanation
Indices: 29499--30721 Score: 1419
Period size: 514 Copynumber: 2.4 Consensus size: 509
29489 NNNNNNNNGG
* * * *
29499 TTTTATAATCTCATAATTGATTTTAA-ATTGAATTTTTTTACATTTTTGGCTAAAACAAATTATA
1 TTTTATAATTTCATAATTGATTTTAAGA-TGAATTTTTTTACATTTTTGGTTAAAACAGACTATA
* * * *
29563 ATTGAATGCCTA-CTATGAGAAAAGTTAAGAAAAAGGCATTCATTAG-CAATAAAAGTCTATTTA
65 ATTGAATGTCTACCT-TGAGAAAAGTAAAGAAAAA-GCATTCA-TAGACAAGAAAAGTCCATTTA
** * * *
29626 TAGTCACCCATTCCTTCAAAAGCTTTATTACT-CATTTTAAAAAGTTTTATAACCTCATATTTGG
127 TAGTCACCCATTCCTTCAAAAGC-TTATTACTGC--TTTAAATGGTTTTATAATCTCATAATTGA
** * * * *
29690 TTTTTTGTTTAATTTTTTTACATTTTTCATTAACATAAACTACAATTGAATGCTTGATTTGGGAA
189 TTTTAAGTTGAATTTTTTTACATTTTTCATAAACACAAACTACAATTGAATGCTTGATTTGAGAA
* * *
29755 ACGTGTATAAAAAGCCATTTATTGAGAAGAAAAGTCTATTTATAGTTACCCATTCCTTTAAAAGC
254 ACGTGAAGAAAAAGCCATTTATTGAGAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAAGC
* * * *
29820 CTTATTACTCGCTTTAAATGGTTTTATAATATCGTAATCGATTTTCAGTTGAATTTTTTTGCACT
319 CTTATTACTCGCTTTAAATGGTTTTATAATATCATAATCGAATTTAAGTTGAATTTTTTTACACT
* * * *
29885 TTTAGTTAAAATAGACTATAATTGAATGCTGGCCTTAGGAAACATTTAAAAAAACTCATTCATTA
384 TTTAGTTAAAACAGACTATAATTGAATGCT-GACTTAGGAAACATTGAAAAAAACGCATTCATTA
** * * *
29950 AGAAGAAAAGTTTATTTATAGTTATCCATTCCTTCAAAAGCTTTATTACTCACTTTAAGTGG
448 AGAAGAAAAGTCCATTTATAGTTAGCCATTCCTTCAAAAGCTTTATTACTCACTTTAAATGA
* * * ** * * *
30012 TTTTGT-ATTCCCAATAATTGATTTGAAGATGAACGTTTTTACATTTTTGATTAAAATAGACAAT
1 TTTTATAATT-TC-ATAATTGATTTTAAGATGAATTTTTTTACATTTTTGGTTAAAACAGACTAT
*
30076 AATTGAATGTC-AGCCTTGAGAAACGTAAAGAAACAAGCATTCATAGACAAGAAAAGTCCATTTA
64 AATTGAATGTCTA-CCTTGAGAAAAGTAAAGAAA-AAGCATTCATAGACAAGAAAAGTCCATTTA
*
30140 TAGTCACTCATTCCTTCAAAAGTCTTATTACATGCTTTAAATGGTTTTATAATCTCATAATTGAT
127 TAGTCACCCATTCCTTCAAAAG-CTTATTAC-TGCTTTAAATGGTTTTATAATCTCATAATTGAT
* ** * *
30205 TTTAAGTTGAATTTTTTTATATTTTTGGTCAAAC-CAGACTATAATTGAATG-TCT-ACTTTGAG
190 TTTAAGTTGAATTTTTTTACATTTTTCAT-AAACACAAACTACAATTGAATGCT-TGA-TTTGAG
* * *
30267 AAACGTGAAGAGAAAGGCATTTATTG-GCAAGAAAAGTCTATTTATAGTCACCTATTCCTTTAAA
252 AAACGTGAAGAAAAAGCCATTTATTGAG-AAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAA
* * *
30331 AGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGAATTTAAGTTGAATTGTTTTTA
316 AGCCTTATTACTCGCTTTAAATGGTTTTATAATATCATAATCGAATTTAAGTTGAATT-TTTTTA
* * *
30396 CATTTTTAGTTAAAACAGACTATAATTGAATGTCT-ACTTCGAGAAACA-TGAAGAAAAAGGCAT
380 CACTTTTAGTTAAAACAGACTATAATTGAATG-CTGACTTAG-GAAACATTGAA-AAAAACGCAT
* * *
30459 TCATT-GGCAAGAAAAGTCCATTTATAGTTAGCTATTCCTTCAAAAGCTTTATTACTCATTTTAA
442 TCATTAAG-AAGAAAAGTCCATTTATAGTTAGCCATTCCTTCAAAAGCTTTATTACTCACTTTAA
30523 ATGA
506 ATGA
*
30527 TTTTATAATTTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
1 TTTTATAATTTCATAATTGATTTTAAGATGAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
* * * * * * *
30592 TTGAATGTCTACTTTGAGAAATGTGAAGAGAAAGGCATTTATTGACAAGAAAAGTCCATTTAGAG
66 TTGAATGTCTACCTTGAGAAAAGTAAAGA-AAAAGCATTCATAGACAAGAAAAGTCCATTTATAG
* * * ** * * *
30657 TCACCCATTCTTTCGACAGCCTTGGTACTCGCTTTAAATGGTTTAATAATTTCATAGTTGATTTT
130 TCACCCATTCCTTCAAAAG-CTTATTACT-GCTTTAAATGGTTTTATAATCTCATAATTGATTTT
30722 GAGTNNNNNN
Statistics
Matches: 599, Mismatches: 88, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
512 2 0.00
513 14 0.02
514 451 0.75
515 126 0.21
516 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (509 bp):
TTTTATAATTTCATAATTGATTTTAAGATGAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
TTGAATGTCTACCTTGAGAAAAGTAAAGAAAAAGCATTCATAGACAAGAAAAGTCCATTTATAGT
CACCCATTCCTTCAAAAGCTTATTACTGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
TTGAATTTTTTTACATTTTTCATAAACACAAACTACAATTGAATGCTTGATTTGAGAAACGTGAA
GAAAAAGCCATTTATTGAGAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAAGCCTTATTA
CTCGCTTTAAATGGTTTTATAATATCATAATCGAATTTAAGTTGAATTTTTTTACACTTTTAGTT
AAAACAGACTATAATTGAATGCTGACTTAGGAAACATTGAAAAAAACGCATTCATTAAGAAGAAA
AGTCCATTTATAGTTAGCCATTCCTTCAAAAGCTTTATTACTCACTTTAAATGA
Found at i:32114 original size:171 final size:169
Alignment explanation
Indices: 31804--32281 Score: 580
Period size: 171 Copynumber: 2.8 Consensus size: 169
31794 CTTTCCAATG
* *
31804 AATGCCTTTTTCTTCATGTTTCTCGA-AGTAGACATTCAATTATAGTCTTTTTTAACAAACAAAT
1 AATGCCTTTTTCTTCAT-TTTCTC-ATAGTAGACATTCAATTATAGTCTGTTTTAACCAA-AAAT
********** *
31868 GTGAAAAAAATCAACTTAAAATCAATTATGAGANNNNNNNNNNATTTAAAGTGAGTAATAAGGCT
63 GT-AAAAAAATCAACTTAAAATCAATTATGAGATTATAAAAACATTTAAAGTGAGGAATAAGGCT
*
31933 TTTAAAGAAATAGGTAACTATAAATGGACTTTTCTTACAAATA
127 TTTGAAGAAATAGGTAACTATAAATGGACTTTTCTTACAAATA
* * *
31976 AATGCCTTTTTCTTCACTTTTCTCATAATAGACATTCAATTATCGTCTGTTTTAGCCAAAAATGT
1 AATGCCTTTTTCTTCA-TTTTCTCATAGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* * *
32041 AAAAAAATTCAACTTATAATCAATTATGAGATTATAAAAACATTTAAAGCGAGGAATAAAGCTTT
65 AAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAAACATTTAAAGTGAGGAATAAGGCTTT
* * * *
32106 TGAAGAAATTGGTGACTATAAATGGACTTTTCTTACCAATG
129 TGAAGAAATAGGTAACTATAAATGGACTTTTCTTACAAATA
** * * * *
32147 AATGCCTTTTTCTTTGGTTTTCTTATAGTAGCCATTCAATTATAATCTGTTTTACCCAAAAATGT
1 AATGCCTTTTTC-TTCATTTTCTCATAGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
** *
32212 AAAAAAAATCAACTTCGAATCAATTATGAGATTATAAAACCATTTAAAGTGAGGAATAAGGCTTT
65 -AAAAAAATCAACTTAAAATCAATTATGAGATTATAAAAACATTTAAAGTGAGGAATAAGGCTTT
32277 TGAAG
129 TGAAG
32282 GNNNNNNNNN
Statistics
Matches: 264, Mismatches: 37, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
170 7 0.03
171 197 0.75
172 59 0.22
173 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.35
Consensus pattern (169 bp):
AATGCCTTTTTCTTCATTTTCTCATAGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
AAAAAATCAACTTAAAATCAATTATGAGATTATAAAAACATTTAAAGTGAGGAATAAGGCTTTTG
AAGAAATAGGTAACTATAAATGGACTTTTCTTACAAATA
Found at i:35863 original size:171 final size:170
Alignment explanation
Indices: 35456--36365 Score: 1046
Period size: 171 Copynumber: 5.3 Consensus size: 170
35446 NNNNNNNNNN
* * **
35456 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCGATTCCTTCAAAAGCCTTATTCCTCACTTTAA
1 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTTGCTTTAA
* * * * *
35521 AT-GATTTTGTAATCCCATAATTGATTCTAAGTTAAATTGTTTTACATTTTTGGATAAAACAGAC
66 ATAG-TTTTATAATCTCATAATTGATT-TAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGAC
* * * *
35585 TCTAATTGAATATCTACTGTGAGAAAAGTTAAG-AAAAGGCA
129 TATAATTGAATGTCTACTTTGAGAAACGTTAAGAAAAAGGCA
* * * * *
35626 TTCATTGGCAAGAAAAGTCCTTTTATAGTCTCTTATTCCTTCAAAAGCCTTATTTCTCT-TTTTA
1 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACT-TGCTTTA
* * *
35690 AATAGTTTTATAATCTCATAATTAAGTTTAAGTTGAATTATTTTACATTTTTGGTTAAAACAAAC
65 AATAGTTTTATAATCTCATAATTGA-TTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGAC
* * * ** *
35755 TATAATTTAATGCCTACATCAAGAAACGTGT-AGAAAGAA-CCA
129 TATAATTGAATGTCTACTTTGAGAAACGT-TAAGAAA-AAGGCA
* * * *
35797 TTCATTGAG-AAGAAATGTTCATTTATATTCACCTATTCGTTCAAAAGCCTTATTACTTGCTTTA
1 TTCATTG-GCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTTGCTTTA
* *
35861 AATAGTTTTATAATCTCATAATTGATTTCAAGTTGAACTTTTTTACATTTTTGGTTAAAACAGTC
65 AATAGTTTTATAATCTCATAATTGATTT-AAGTTGAATTTTTTTACATTTTTGGTTAAAACAGAC
* * *
35926 TATAATTGAATGTCTACTTTGAGAAACATGAAGAAAAAGTCA
129 TATAATTGAATGTCTACTTTGAGAAACGTTAAGAAAAAGGCA
* * * ** * * *
35968 TTCACTAGCAAAAAAAGTTTATCTATAGTCACCTATTCCTTCGAAAGCCTTATTACTAGCTTTAA
1 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTTGCTTTAA
* * *
36033 ATGGTTTTATAATCTCATAATTGATTTTAATTTGAATTTTTTTACATTTTTGGTTGTAAA-AGAC
66 ATAGTTTTATAATCTCATAATTGA-TTTAAGTTGAATTTTTTTACATTTTTGGTT-AAAACAGAC
* * *
36097 TATAATT-ATATGTCTAGTTTGAGAAACCTTAAGAAAAAGGTA
129 TATAATTGA-ATGTCTACTTTGAGAAACGTTAAGAAAAAGGCA
* *
36139 TTCATTGGCAAGAAAAGTCCATTTGTAGTCACCTATTCCTTCAAAAGCCTTATT-CTTTTCTTTA
1 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTAC-TTGCTTTA
* * * *
36203 AATGGTTTTATAATCTCATAATTGATTATAAGTTGAATTTTTTTACACTTTTGGCTAAAACAGAT
65 AATAGTTTTATAATCTCATAATTGATT-TAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGAC
* * * * * *
36268 TATAATTGAATGGCGACTATGAGAAAAGATAAGAAAAAGACA
129 TATAATTGAATGTCTACTTTGAGAAACGTTAAGAAAAAGGCA
* * * *
36310 TGCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCGAAAGCCTTATTAC
1 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTAC
36366 NNNNNNNNNN
Statistics
Matches: 625, Mismatches: 95, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
170 145 0.23
171 469 0.75
172 11 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (170 bp):
TTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTTGCTTTAA
ATAGTTTTATAATCTCATAATTGATTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTA
TAATTGAATGTCTACTTTGAGAAACGTTAAGAAAAAGGCA
Found at i:38259 original size:170 final size:172
Alignment explanation
Indices: 38083--38395 Score: 391
Period size: 172 Copynumber: 1.8 Consensus size: 172
38073 NNNNNNNGTG
* * * * * *
38083 ACTATAAATGGACTTTTCTT-CTCAATAAATGG-TTTTTTTACATGTTTTC-CAAGGCAGGCATT
1 ACTATAAATGAACTTTTCTTGC-CAATAAATGGATTTTTCTACACG-TTTCGAAAAGCAAGCATT
* * * * * *
38145 CAATTATAGTTTGTTTTAACCAAAAGTGT-AAAAAAATTCAAATCAAAATCGATTATGAGATTAT
64 CAATTATAGTTTATTTTAACCAAAAATATAAAAAAAATTCAAATCAAAACCAATAATGAGATTAT
38209 AAAACCATTTAAAGCAAGTAATAATGCTTTTGAAGGAATGCGTA
129 AAAACCATTTAAAGCAAGTAATAATGCTTTTGAAGGAATGCGTA
* * * *
38253 ACTATAAATTAACTTTTCTTGCCAATGAATGGATTTTTCTACACGTTTCGAAAATCAAGCATTTA
1 ACTATAAATGAACTTTTCTTGCCAATAAATGGATTTTTCTACACGTTTCGAAAAGCAAGCATTCA
** * * *
38318 ATTATAGTTTATTTTAATGAAAAATATAAAAAAAATTGAACTTAAAACCAATAATGAGATTATAA
66 ATTATAGTTTATTTTAACCAAAAATATAAAAAAAATTCAAATCAAAACCAATAATGAGATTATAA
38383 AACCATTTAAAGC
131 AACCATTTAAAGC
38396 GAGNNNNNNN
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
170 31 0.26
171 43 0.36
172 44 0.37
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (172 bp):
ACTATAAATGAACTTTTCTTGCCAATAAATGGATTTTTCTACACGTTTCGAAAAGCAAGCATTCA
ATTATAGTTTATTTTAACCAAAAATATAAAAAAAATTCAAATCAAAACCAATAATGAGATTATAA
AACCATTTAAAGCAAGTAATAATGCTTTTGAAGGAATGCGTA
Found at i:38943 original size:156 final size:156
Alignment explanation
Indices: 38659--38945 Score: 373
Period size: 156 Copynumber: 1.8 Consensus size: 156
38649 NTATTATTCT
* *
38659 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTAACATTTTTTATTAAAA
1 CTTTAAATGGTTTTATAATCTCATAATTGATTCTAAGTTGAATTTGTTAACATTTTTGATTAAAA
* ********** *
38724 CAGACTATAATTGAANNNNNNNNNNGAGAAACATGAAGAAAAAGGCATTCATTGGTAAGAAAAGT
66 CAAACTATAATTGAATGTCTACTATGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGT
38789 CATTCCTTCAAAAGCCTTATTCCCCA
131 CATTCCTTCAAAAGCCTTATTCCCCA
* *
38815 CTTTAAATGGTTTTATAATCTTATAATTGATTCTAAGTTGAATTAT-TTTACATTTTTGGA-TAA
1 CTTTAAATGGTTTTATAATCTCATAATTGATTCTAAGTTGAATT-TGTTAACATTTTT-GATTAA
*
38878 AACAAACTCTAATTGAATGTCTACTATGAGAAA-AGTGAAGAAAAAGGCATTCATTGGCAAGAAA
64 AACAAACTATAATTGAATGTCTACTATGAGAAACA-TGAAGAAAAAGGCATTCATTGGCAAGAAA
38942 AGTC
128 AGTC
38946 CTTTTATAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
155 1 0.01
156 108 0.97
157 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.34
Consensus pattern (156 bp):
CTTTAAATGGTTTTATAATCTCATAATTGATTCTAAGTTGAATTTGTTAACATTTTTGATTAAAA
CAAACTATAATTGAATGTCTACTATGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGT
CATTCCTTCAAAAGCCTTATTCCCCA
Found at i:44497 original size:88 final size:78
Alignment explanation
Indices: 44381--44543 Score: 166
Period size: 88 Copynumber: 2.0 Consensus size: 78
44371 CAAACTATAA
* * * *
44381 TTGAATGCCTGCCTTAGGAAACATGTAGAAAAAGACATTCATTGAG-AAGAAAAGTCCATTTATA
1 TTGAATGCCTACCTTAGGAAACATGTAG-AAAAGACAGTCATTGAGAAAAAAAAATCCATTTATA
44445 GTTACCCATTCCTT
65 GTTACCCATTCCTT
* *
44459 NNNNNNNNNNTTGAATGCCTACCTTGGGAAACATGTAGAAAAGCCAGTCATTGAGAAAAAAAAAT
1 ----------TTGAATGCCTACCTTAGGAAACATGTAGAAAAGACAGTCATTGAGAAAAAAAAAT
44524 CCATTTATAGTTACCCATTC
56 CCATTTATAGTTACCCATTC
44544 TTTCAAAAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 15 0.22
88 53 0.78
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.26
Consensus pattern (78 bp):
TTGAATGCCTACCTTAGGAAACATGTAGAAAAGACAGTCATTGAGAAAAAAAAATCCATTTATAG
TTACCCATTCCTT
Found at i:45249 original size:171 final size:161
Alignment explanation
Indices: 45072--45390 Score: 322
Period size: 171 Copynumber: 1.9 Consensus size: 161
45062 NNNNNNNNNN
* * * *
45072 TACTCGCTTTAAAA-AGTTTTATAATATCATATTTTG-TTTT-ATGTTTAATTGTTTTACATTTT
1 TACTCGCTTTAAAAGA-TTTTATAATATCATA-ATCGATTTTCA-GTTGAATTGTTTTACA-CTT
* * * * *
45134 TTA-TTAAAATAAACTATAATTGAGTGCTTGCTTTGGGAAACATGTAGAAAAAGCCATTTATTGA
62 TTAGTTAAAACAAACTATAATTGAATGCTTGCCTTAGGAAACATGTAGAAAAAGCCATTCATTGA
*
45198 GAAGAAAAGTCTATTTATAGTTACCTNNNNNNNNNNAAGCCTTAT
127 GAAGAAAAGTCCATTTATAGTTACCT----------AAGCCTTAT
* * * *
45243 TACTCGCTTTAAATGATTTTATAATATCTTAATCGATTTTCAGTTGAATTTTTTTGCACTTTTAG
1 TACTCGCTTTAAAAGATTTTATAATATCATAATCGATTTTCAGTTGAATTGTTTTACACTTTTAG
* * *
45308 TTAAAACATACTATAATTGAATGCTTGCCTTAGGAAGCATTTAGAAAAAGCCATTCATTGAGAAG
66 TTAAAACAAACTATAATTGAATGCTTGCCTTAGGAAACATGTAGAAAAAGCCATTCATTGAGAAG
*
45373 AAAAGTCCATTTCTAGTT
131 AAAAGTCCATTTATAGTT
45391 TTTCATTCAT
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
170 7 0.06
171 117 0.93
172 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.40
Consensus pattern (161 bp):
TACTCGCTTTAAAAGATTTTATAATATCATAATCGATTTTCAGTTGAATTGTTTTACACTTTTAG
TTAAAACAAACTATAATTGAATGCTTGCCTTAGGAAACATGTAGAAAAAGCCATTCATTGAGAAG
AAAAGTCCATTTATAGTTACCTAAGCCTTAT
Done.