Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403125.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_793.0, 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: 34305
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.32
Warning! 4265 characters in sequence are not A, C, G, or T
Found at i:401 original size:20 final size:21
Alignment explanation
Indices: 366--404 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
356 GCTTGGGTGA
366 CAATAAATAGGCTTTTCTTGC
1 CAATAAATAGGCTTTTCTTGC
*
387 CAATGAATA-GCTTTTCTT
1 CAATAAATAGGCTTTTCTT
405 TAGGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (21 bp):
CAATAAATAGGCTTTTCTTGC
Found at i:674 original size:171 final size:171
Alignment explanation
Indices: 2--1229 Score: 703
Period size: 171 Copynumber: 7.3 Consensus size: 171
1 T
* * * * *
2 AAGGCTTTCGAAGGCAT-GAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTTTTC
1 AAGGCTTTTGAAGGTATAG-GTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTC
* * * * * * * *
66 ACGTTTCTCTAGGTAGAC-TGTTAATTATAATCTGATTTAACCAGAAATG-AAAAAAATTCAA-C
65 ATGTTTCTTTAGGTAGACAT-TCAATTATAATATGTTTTAACAAAAAATGAAAAAAAAATCAACC
* *
128 TGAAAGTCAATTATGAGTTTATAAAACCATTTCAAGCGAGTAAC
129 T-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
**********
172 AAGGCTTTTGAAGGTAT-GAGTGACTATAAATAGACTTTTCTTGCCAANNNNNNNNNNTTTCTTC
1 AAGGCTTTTGAAGGTATAG-GTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTC
* * * * * * *********
236 ATGTTTCTTGAGGTAGGCATTCAATTATACTCTGTTTTAATAGAAAATGTAAAAAANNNNNNNNN
65 ATGTTTCTTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATG-AAAAAAAAATCAACC
* * * * *
301 NAAA-TCAATAAAGAGATTATAAAACAATTTAAAGTGAGTAAC
129 TAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
* * * *
343 AAGGCTTTTGAAGGCT-TGGGTGACAATAAATAGGCTTTTCTTGCCAATGAATAGC-TTTTCTTT
1 AAGGCTTTTGAAGG-TATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTC
* * * * * *
406 AGGTTTCTTTA-ATCAGACATTCAACTGTAATATGTTTGAACAAAAAAT-ATAAAAAAACTCAAC
65 ATGTTTCTTTAGGT-AGACATTCAATTATAATATGTTTTAACAAAAAATGA-AAAAAAAATCAAC
* ********** * *
469 TTAAAGTCAATTATNNNNNNNNNNAACCATTTAAAGCAAGTAAT
128 CTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
* * * * *
513 AAGGCTTTTAAAGGTGTAGGTGACCATACATAGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
1 AAGGCTTTTGAAGGTATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTCA
* * *
578 TGTTTTTTTAGGTAGACATTTAATTATAAT-TGGTTTTAACCAAAAATGAAAAAAAAATCAACCT
66 TGTTTCTTTAGGTAGACATTCAATTATAATAT-GTTTTAACAAAAAATGAAAAAAAAATCAACCT
* * *
642 AAAGTCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAAT
130 AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
* * * * * ** * * * *
684 AAGTCTTTCGAAGGCATAAGTTACTATAGTTAGACTTTTCTTACCAATAAATATCTTTTTTTTCA
1 AAGGCTTTTGAAGGTATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTCA
*** * ** **
749 TGTTTCCAGAAGTAGACATTCAATTATAATATGTTTTAACAAAAAAT------TTAAT---TTTA
66 TGTTTCTTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGAAAAAAAAATCAACCTA
* * *
805 AA-TTAATTATGAGATTATTAAACCATTTAAAACGAGTAAC
131 AAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
* * * * ** *
845 AAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTCTCTTGCTAATGAATATATTTTTCTTCG
1 AAGGCTTTTGAAGGTATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTCA
* * ** * * * ********** **
910 TGTTTC-TT-GG--G---GTCCATTATAATCGGTTTTAATAGACAATG-NNNNNNNNNNAAATTC
66 TGTTTCTTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGAAAAAAAAATCAACCT-
* * * * *
967 AAA-TCAATAAAGAGATTAT-AAACTTATTTATAGCGAGTAGC
130 AAAGTCAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAAC
*
1008 AAGGCTTTTGAAGGCT-T-GAGTGA-TAATAAATATG-CTTTTCTTGCCAATGAATGGCTTTTTC
1 AAGGCTTTTGAAGG-TATAG-GTGACT-ATAAATA-GACTTTTCTTGCCAATGAATAGCTTTTTC
* * * * * * * * *
1069 TTTAGGTTTCTTT-CGTAAGAGATTCAACTGTAATATGTTTGAACAAAAAAT-ATAAAAAGACTC
62 TTCATGTTTCTTTAGGT-AGACATTCAATTATAATATGTTTTAACAAAAAATGA-AAAAAAAATC
* * * *
1132 AACATAAAGTCAATTATGAGATTACAAAACCATTTAAAGCAAGTGAC
125 AACCTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
* * *
1179 AAGGCTTTTGAAGGTATGGGTGACTATAAATGGAATTTTCTTGCCAATGAA
1 AAGGCTTTTGAAGGTATAGGTGACTATAAATAGACTTTTCTTGCCAATGAA
1230 AATNNNNNNN
Statistics
Matches: 784, Mismatches: 230, Indels: 87
0.71 0.21 0.08
Matches are distributed among these distances:
154 22 0.03
157 1 0.00
159 1 0.00
161 87 0.11
162 12 0.02
163 83 0.11
164 5 0.01
165 3 0.00
167 1 0.00
168 1 0.00
169 10 0.01
170 221 0.28
171 318 0.41
172 19 0.02
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.34
Consensus pattern (171 bp):
AAGGCTTTTGAAGGTATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAGCTTTTTCTTCA
TGTTTCTTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGAAAAAAAAATCAACCTA
AAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAC
Found at i:2230 original size:341 final size:332
Alignment explanation
Indices: 1737--2408 Score: 779
Period size: 342 Copynumber: 2.0 Consensus size: 332
1727 NNNNNNNAAT
* * *
1737 TCAACTTAAAGTCAATTATGAGTTTATAAAACCACTTAAAACGAGTAACAAGGCTTTTGAAGGTA
1 TCAACATAAAGTCAATTATGAGATTATAAAACCACTTAAAACGAGTAACAAGACTTTTGAAGGTA
* **
1802 TGGATGACTATAAATGGACTTCTCTTGCTAATGAATATATTTTTCTTCATGTTTCTTGGGGTAGG
66 TGGATGACTATAAATGGACTTCTCTTGCTAATGAATATATTTTTCTTCATGTTTCTTGAGGTACC
* * **********
1867 CATTCCATTATAATCGGTTTTAATAGACAATG-NNNNNNNNNNAAATTCAAATCAATAAAGAGAT
131 CATTCAATTATAATCGGTTTTAATAGAAAATGTAAACAAATTCAAATTCAAATCAATAAAGAGAT
** * * * * *
1931 TATAAAATTATTTATAGCGAGTAGCAAGGCTTTTGAAGGCTTGAGTGATAATAAATACGCTTTTC
196 TATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGGCTTGAGTGACAATAAATAAGCTATTC
* *
1996 TTGCCAATGAATGGCTTTTTCTTTAGGTTTCTTTCATAAGAGATTCAACTGTAATATGTTTGAAC
261 TTGCCAATGAATGGCTTTTTCTTTAGGTTTCTTTAATAAGAGACTCAACTGTAATATGTTTGAAC
2061 AAAANNNNNNNNNNAAC
326 AAAA----------AAC
* * * * **
2078 TCAACATAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGACTTTTGGTGGTA
1 TCAACATAAAGTCAATTATGAGATTATAAAACCACTTAAAACGAGTAACAAGACTTTTGAAGGTA
* * ********** *
2143 TGGGTGACTATAAATGGACTTTTCNNNNNNNNNNATATCTTTTTCTTCATGTTTCTTGAGGTACC
66 TGGATGACTATAAATGGACTTCTCTTGCTAATGAATATATTTTTCTTCATGTTTCTTGAGGTACC
* *
2208 CATTCAATTATTATCTGTTTTAATAGAAAATGTAAACAAATTCAAATTCAAATCAATAAAGAGAT
131 CATTCAATTATAATCGGTTTTAATAGAAAATGTAAACAAATTCAAATTCAAATCAATAAAGAGAT
* * * *
2273 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCTTGGGTGGCAATAAATAAGCTATTC
196 TATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGGCTTGAGTGACAATAAATAAGCTATTC
2338 TTGCCAATGAATGGCTTTTTCTTTAGGTTTCTTTAATAAGAGACTCAACTGTAATATGTTTGAAC
261 TTGCCAATGAATGGCTTTTTCTTTAGGTTTCTTTAATAAGAGACTCAACTGTAATATGTTTGAAC
2403 AAAAAA
326 AAAAAA
2409 TATAAAAAAA
Statistics
Matches: 278, Mismatches: 52, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
332 2 0.01
341 133 0.48
342 143 0.51
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.34
Consensus pattern (332 bp):
TCAACATAAAGTCAATTATGAGATTATAAAACCACTTAAAACGAGTAACAAGACTTTTGAAGGTA
TGGATGACTATAAATGGACTTCTCTTGCTAATGAATATATTTTTCTTCATGTTTCTTGAGGTACC
CATTCAATTATAATCGGTTTTAATAGAAAATGTAAACAAATTCAAATTCAAATCAATAAAGAGAT
TATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGGCTTGAGTGACAATAAATAAGCTATTC
TTGCCAATGAATGGCTTTTTCTTTAGGTTTCTTTAATAAGAGACTCAACTGTAATATGTTTGAAC
AAAAAAC
Found at i:3218 original size:169 final size:171
Alignment explanation
Indices: 3019--3433 Score: 444
Period size: 172 Copynumber: 2.4 Consensus size: 171
3009 AATCAATAAA
* * ** *
3019 GAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGATGGCTTGGGTGACAATAAATAGG-
1 GAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACAATAAAT-GGA
* * * * *
3083 CTTTTCTTGCCAATGAATGGCTTTTTT-TT-GGTTTCTTTAGGCAGTCATTCAACTGTAATAT-G
65 CTTTTCTTACCAATGAAT-ACTTTTTTCTTACGTTTCTTTAGGCAGACATTCAACTATAAT-TGG
* * *
3145 TTTCAACCAAAAAT-ATATAAAAACTCAACTAAAAGTCAATTTT
128 TTTCAACCAAAAATAAAAAAAAAACTCAACTAAAAGTCAATTAT
* * * *
3188 GAGATTATAAAACAATTTAAACCAAGTAATAAGGCTTTTAAAGGAATAGGTGACTATAAATGGAC
1 GAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACAATAAATGGAC
* * * *
3253 TTTTCTTACCAATGAATATTTTTTTCTTCACGTTTCTTTAGGTAGACATTTAATTATAATTGGTT
66 TTTTCTTACCAATGAATACTTTTTTCTT-ACGTTTCTTTAGGCAGACATTCAACTATAATTGGTT
* * * * *
3318 TTAACTAAAAATAAAAAAAAAATTCAACTTAAAGTTAATTAT
130 TCAACCAAAAATAAAAAAAAAACTCAACTAAAAGTCAATTAT
* * * ** * * * *
3360 GAGATTATAAAACCATTTAAAGTGAGTAATAAGTCTTTTGAAGGCGTAAGTGACTATAGATAGAC
1 GAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACAATAAATGGAC
3425 TTTTCTTAC
66 TTTTCTTAC
3434 TGATAAATAT
Statistics
Matches: 203, Mismatches: 37, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
168 8 0.04
169 71 0.35
170 1 0.00
171 37 0.18
172 86 0.42
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (171 bp):
GAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACAATAAATGGAC
TTTTCTTACCAATGAATACTTTTTTCTTACGTTTCTTTAGGCAGACATTCAACTATAATTGGTTT
CAACCAAAAATAAAAAAAAAACTCAACTAAAAGTCAATTAT
Found at i:3889 original size:339 final size:341
Alignment explanation
Indices: 3181--3889 Score: 705
Period size: 339 Copynumber: 2.1 Consensus size: 341
3171 AACTAAAAGT
* *
3181 CAATTTTGAGATTATAAAACAATTTAAACCAAGTAATAAGGCTTTTAAAGGAATAGGTGACTATA
1 CAATTATGAGATTATAAAACAATTTAAACCAAGTAATAAGGCTTTCAAAGGAATAGGTGACTATA
* ** ** * * *
3246 AATGGACTTTTCTTACCAATGAATATTTTTTTCTTCACGTTTCTTTAGGTAGACATTTAATTATA
66 AATGGACTTCTCTTACCAATGAATAGCTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTACA
* *
3311 ATTGGTTTTAACTAAAAATAAAAAAAAAATTCAACTTAAAGTTAATTATGAGATTATAAAACCAT
131 ATTGATTTTAAC-AAAAATAAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCAT
** * * * * **
3376 TTAAAGTGAGTAATAAGTCTTTTGAAGGCGTAAGTGACTATAGATAGACTTTTCTTACTGATAAA
195 TTAAAGCAAGTAATAAGGCTTTCGAAGGCGTAAGCGACTATAGATAGACTATTCTTACCAATAAA
** ********** *
3441 TATCTTTTTCTTCATGTTTNNNNNNNNNNACATTCAATTATAATCTGTTTTAATAAAAAATATAA
260 TATCTTTTTCTTCACATTTCTCAATGTGGACATTAAATTATAATCTGTTTTAATAAAAAATATAA
* * *
3506 AAAAATTAATTTTAAAT
325 AAAAATTAACTTCAAAA
* ********** * * * * * *
3523 TAATNNNNNNNNNNTTAAACCATTTAAAGCGAGTAATAGGGCTTTCAAAGGCAT-GAGTGACTAT
1 CAATTATGAGATTATAAAACAATTTAAACCAAGTAATAAGGCTTTCAAAGGAATAG-GTGACTAT
* * *
3587 AAATGGACTTCTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTAC
65 AAATGGACTTCTCTTACCAATGAATAGCTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTAC
* ** * *
3652 AATCT-ATTTTAAC-CAAA-AACGAAAAAATTCAACTTAAAGTCAATTATGAGCTTATAAAATCA
130 AAT-TGATTTTAACAAAAATAAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCA
*
3714 TTTAAAGCAAGTAATAAGGCTTTCGAA-G-GTATGGACGACTATAGATAGACTATT-TTAGCCAA
194 TTTAAAGCAAGTAATAAGGCTTTCGAAGGCGTA-AG-CGACTATAGATAGACTATTCTTA-CCAA
3776 TAAATATC-TTTTCTTCACATTTCTCAATGTGGACATTAAATTATAATCTGTTTTAATAAAAAAT
256 TAAATATCTTTTTCTTCACATTTCTCAATGTGGACATTAAATTATAATCTGTTTTAATAAAAAAT
* *
3840 GTAAAAAATTTCAACTTCAAAA
321 ATAAAAAAATT-AACTTCAAAA
* *
3862 CAATTATGAGATTATCAAACTATTTAAA
1 CAATTATGAGATTATAAAACAATTTAAA
3890 AGTGAGTGAT
Statistics
Matches: 285, Mismatches: 76, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
337 3 0.01
338 57 0.20
339 112 0.39
340 3 0.01
341 1 0.00
342 108 0.38
343 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.35
Consensus pattern (341 bp):
CAATTATGAGATTATAAAACAATTTAAACCAAGTAATAAGGCTTTCAAAGGAATAGGTGACTATA
AATGGACTTCTCTTACCAATGAATAGCTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTACA
ATTGATTTTAACAAAAATAAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATT
TAAAGCAAGTAATAAGGCTTTCGAAGGCGTAAGCGACTATAGATAGACTATTCTTACCAATAAAT
ATCTTTTTCTTCACATTTCTCAATGTGGACATTAAATTATAATCTGTTTTAATAAAAAATATAAA
AAAATTAACTTCAAAA
Found at i:4177 original size:21 final size:21
Alignment explanation
Indices: 4148--4187 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4138 GCTTGGGTAA
4148 CAATAAATAGGCTTTTCTTAC
1 CAATAAATAGGCTTTTCTTAC
* *
4169 CAATGAATAGGTTTTTCTT
1 CAATAAATAGGCTTTTCTT
4188 TAGGTTTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (21 bp):
CAATAAATAGGCTTTTCTTAC
Found at i:4294 original size:171 final size:168
Alignment explanation
Indices: 4010--5324 Score: 1109
Period size: 171 Copynumber: 7.7 Consensus size: 168
4000 NNNNNATATC
** * * * * ** *
4010 TTTTTCTTCGTGTTTCTTGCGGTAGGCATTCAATTATAATCTATTTTAGTATAAAAT-GAAAAAA
1 TTTTTCTTCACGTTTCTT-AGGTAGACATTCAATTATAATCTGTTTAACCA-AAAATATAAAAAA
* * * ** *
4074 CTTCAAATTCAAA-TCAATAAAAAGATTATAAAACCATTTAAAGCGAGTAATGAGGCTTTTGAAG
64 ATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * * *
4138 GCTTGGGTAACAATAAATAGGCTTTTCTTACCAATGAATAGG
128 GCATAGGTGACTATAAAT-GACTTTTCTTACCAATGAATAGG
* * * * * * * * *
4180 TTTTTCTTTAGGTTTCGTTATGCAGACATTCAACTGTACTATGTTCTAACCAAAACTATAAAAAA
1 TTTTTCTTCACGTTTC-TTAGGTAGACATTCAATTATAATCTGTT-TAACCAAAAATATAAAAAA
* *
4245 ACTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGG
64 ATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG
* **
4310 CATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATA
129 CATAGGTGACTATAAAT-GACTTTTCTTACCAATGAATAGG
* * *
4351 TTTTTCTTCACGTTTCTTTAGG-AGAGATTGAATTATAAT-TGGTTTTAACTAAAAATA-AAAAA
1 TTTTTCTTCACGTTTC-TTAGGTAGACATTCAATTATAATCT-G-TTTAACCAAAAATATAAAAA
* * * *
4413 AATTCAACCTAAAGTCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGTCTTTCGAAG
63 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * * **
4478 GCATAAGTGACTATAGATAGACTTTTTTTACCAATAAATATC
128 GCATAGGTGACTATAAAT-GACTTTTCTTACCAATGAATAGG
** **
4520 TTTTTCTTCATATTTCCGAGGTAGACATTCAATTATAATCTG-TT--CCAAACAAATATAAAAAA
1 TTTTTCTTCACGTTTCTTAGGTAGACATTCAATTATAATCTGTTTAACC-AA-AAATATAAAAAA
* * * * * * *
4582 ATTTAATTTCAAA-TTAATTATGAGATTATTAAACCATTTAAAACGAGGAATAAGGCTTTTGATG
64 ATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* ***
4646 GCATGGGTGACTATAAATGAACTTTTCTTGGTAATGAAT-GG
128 GCATAGGTGACTATAAATG-ACTTTTCTTACCAATGAATAGG
* * * * * *
4687 CTTTTTCTTCACGTTTCTTGAGGTAAAAATTTAATTGTAATCTGTGTTAACCGAAAATA-AAAAC
1 -TTTTTCTTCACGTTTCTT-AGGTAGACATTCAATTATAATCTGT-TTAACCAAAAATATAAAAA
* *
4751 AATTCAACTGAAAGTCAATTATGA-ACTTATAAAACCATTTAAAGCGAGTAATAAGTCTTTTGAA
63 AATTCAACTTAAAGTCAATTATGAGA-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * **
4815 GGCATAGGTGACTATAGATAGACTTTTCTTACCAATAAATATC
127 GGCATAGGTGACTATAAAT-GACTTTTCTTACCAATGAATAGG
* ** * * *
4858 TTTTTCTTCATGTTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAACAAA
1 TTTTTCTTCACGTTT-CTTAGGTAGACATTCAATTATAATCTG-TTTAACCAAAAATATAAAAAA
* * * * * **
4923 ATTCAATTTTCAA-TTAATTATGAGATTATTAAACCATTTAAAGCGGGTAATAAGGCTTACGAAG
64 ATTCAA-CTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
* * * * * *
4987 GCATGGGTGATTATAAATGAAATTTTCTTGCTAACGAAT-GG
128 GCATAGGTGACTATAAATG-ACTTTTCTTACCAATGAATAGG
* * * * *
5028 CTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTATAATCTGCTTTAACCAAAAATAAAAAAG
1 -TTTTTCTTCACGTTTCT-TAGGTAGACATTCAATTATAATCTG-TTTAACCAAAAAT-ATAAA-
* * *
5093 AAAATTCAACTTAAAGTCAATTATGAGCTTATAAAACCATTTAAAGTGAGTAATAAGGCCTTTGA
61 AAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA
* * * * * * **
5158 AAGAAT-GGACGGCTATAAATGGACTATTCTTGCCAATGAATATC
126 AGGCATAGG-TGACTATAAAT-GACTTTTCTTACCAATGAATAGG
* * * * * *
5202 TTTTTGTTCACATTTCTGAAGGTGGACATTCACTTATAATCTGTTTTAA--AAAAACTGTAAAAA
1 TTTTTCTTCACGTTTCT-TAGGTAGACATTCAATTATAATCTG-TTTAACCAAAAA-TATAAAAA
* * * * *
5265 AATTTAACTTTAAA-TCATTTATGAGATTATCAAACTATTTAAAGTGAGTAATAAGGCTTT
63 AATTCAAC-TTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
5325 AAAAAATTTC
Statistics
Matches: 913, Mismatches: 193, Indels: 78
0.77 0.16 0.07
Matches are distributed among these distances:
165 1 0.00
166 2 0.00
167 8 0.01
168 101 0.11
169 157 0.17
170 242 0.27
171 269 0.29
172 14 0.02
173 118 0.13
174 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (168 bp):
TTTTTCTTCACGTTTCTTAGGTAGACATTCAATTATAATCTGTTTAACCAAAAATATAAAAAAAT
TCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCA
TAGGTGACTATAAATGACTTTTCTTACCAATGAATAGG
Found at i:5330 original size:65 final size:65
Alignment explanation
Indices: 5261--5389 Score: 181
Period size: 65 Copynumber: 2.0 Consensus size: 65
5251 AAAAACTGTA
* * * * *
5261 AAAAAATTT-AACTTTAAA-TCATTTATGAGATTATCAAACTATTTAAAGTGAGTAATAAGGCTT
1 AAAAAATTTCAAC-TTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
5324 T
65 T
*
5325 AAAAAATTTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGTCTTT
1 AAAAAATTTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
5390 CGAAGGTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 14 0.25
65 43 0.75
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (65 bp):
AAAAAATTTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
Found at i:5717 original size:170 final size:169
Alignment explanation
Indices: 5392--6932 Score: 1308
Period size: 170 Copynumber: 9.0 Consensus size: 169
5382 AAGTCTTTCG
* *
5392 AAGG-TTTTCGAAGGCATGGGTCACTATAAATGGACTTTTCTTGCCAATGAATGA-CCTTTTCTT
1 AAGGCTTTT-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-ATCTTTTTCTT
* * * * ** *
5455 CACGTCTCTCAAGGTAAATCGTT-AATTATAATCTGTTTTAACCAAAAACAAAAAAAATTCAACT
64 CACGTTTCTTAAGGTAGA-CATTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAATTCAACT
* * * * *
5519 TAGAGTCAATTATAAGTTTACAAAACCATTTAAAGCGAGTAAC
128 TA-AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* *
5562 AAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATATCTTTTTCTTCA
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
*
5627 CGTTTCTTAAGGTAGACATTCAATTATAATATGTTTTAATAAAAAATAAAAAAAATTCAACTTCA
66 CGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAATTCAACTT-A
* * * *
5692 AATCAGTTATCAGATTATCAAACCATTTAAAGCGAATAAT
130 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
5732 AAGG-TTTTCGAAGGTATGGGTGACTATAAATGGACTTTTCTTACCAATAAATAACTTTTACTTC
1 AAGGCTTTT-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTC
* * * *
5796 ACGTTTCTTAAGGTAGAC-TGT-TATTAATAATCTGTTTTTATCAAAAATGAAAAAAATTCAACT
65 ACGTTTCTTAAGGTAGACAT-TCAATT-ATAATCTGTTTTAATAAAAAATAAAAAAAATTCAACT
* * *
5859 TAAAGTCAATTATGAGTTTATAAAACTATTTAAAGCGAGTAAC
128 TAAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
5902 AAGGCTTTTGAAGGTATGGATGACTATAAATGGACTTTTCTTCCCAATTAATATCTTTTTCTTTA
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
* * * * * * *
5967 TGTTTCTTGAGATAGGCATTCAATTATAATCTGTTTTAATAGAAAATATAAAAAAATTTAAATTC
66 CGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATA-AAAAAAATTCAACTT-
* * **
6032 AAATCAATAAAGAGATTATAAAACCATTTAAAGTAAGTAAT
129 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * ** ** *
6073 AAGGCTTTTGAAGGCTTAGGAGGCCGTAAATAGG-CTTTTCTTGCCAATGAATGGCTTTTTCTTT
1 AAGGCTTTTGAAGGCATGGGTGACTATAAAT-GGACTTTTCTTGCCAATGAATATCTTTTTCTTC
* * ** * * * ** * * *
6137 AGGTTTCTTCAGAAAGACATTCAACTATAATATGTTTGAGCCAAAAATTTAAAAAAACTCAACTT
65 ACGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTA-ATAAAAAATAAAAAAAATTCAACTT
* * ***
6202 AAAGTCAATTATGAGCTTATAAAACCATTTAAAGTGAGTNNN
129 AAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
******* * * * *
6244 NNNNNNNTTAAAGGCATAGGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCTACA
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
* * * * * *
6309 TGTCTCTTTAGGTAGACATTTAATTATAAT-TGCTTTTAACTATAAAAA-AAAAACAATTAAACT
66 CGTTTCTTAAGGTAGACATTCAATTATAATCTG-TTTTAA-TA-AAAAATAAAAAAAATTCAACT
** ** *
6372 TAAAGTCAATTATGAGATTATAAAATAATTTAAAATGAGTAAG
128 TAAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * ** * ** *
6415 AAGTCTTTCGAAGGCATAGGTGACTATGGATAGAC-TTTCTTATCAATAAATATCTTTTTCTTCA
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
* *********** * * *
6479 TGTTTCCNNNNNNNNNNATTCAATTATAATCTGTTTTAACAAAAAAGGT-AACAAAATTCAATTT
66 CGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAA--TAAAAAAAATTCAACTT
* * *
6543 CAAATTAATTATGAGATTATTAAACTATTTAAAGCGAGTAAT
129 -AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * *
6585 AAGACTTTCGAAGGCATTGGTGACTATAAATGGACTTTTCGTGCTAATGAATAGCTTTTTCTTCA
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
* ** * * * * *
6650 CGATTCTCGAGGTAAAAATTTAATTACAATCTGTTTTAATCAAAAATAAAAAAAA-TCAACTTAA
66 CGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAATTCAACTTAA
* **********
6714 AGTCAATTATGAGCTTATAAAACCATTNNNNNNNNNNAAT
131 A-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* *
6754 AAGGCTTTTGAAGGCATGGGTGGCTATAAATGGA-TTATTCTTGCCAATGAATACCTTTTTCTTC
1 AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTT-TTCTTGCCAATGAATATCTTTTTCTTC
* * * **
6818 ACGTTTCTCAACGTGGACATTCAATTATAATCTGTTTTAATAAAAAATGTTAAAAAATTCAACTT
65 ACGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-AAAAAAAATTCAACTT
* * * * *
6883 CAAATCATTTATGAAATTGTCAAACTATTTAAAGCGAGTAAT
129 -AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
*
6925 AAAGCTTT
1 AAGGCTTT
6933 AAAGAAATTC
Statistics
Matches: 1087, Mismatches: 252, Indels: 63
0.78 0.18 0.04
Matches are distributed among these distances:
168 10 0.01
169 140 0.13
170 504 0.46
171 416 0.38
172 17 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.35
Consensus pattern (169 bp):
AAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCA
CGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAATTCAACTTAA
ATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
Found at i:5909 original size:585 final size:580
Alignment explanation
Indices: 4744--5909 Score: 1329
Period size: 585 Copynumber: 2.0 Consensus size: 580
4734 TAACCGAAAA
*
4744 TAAAAACAATTCAACTGAAAGTCAATTATGAACTTATAAAACCATTTAAAGCGAGTAATAAGTCT
1 TAAAAACAATTCAACTGAAAGTCAATTATGAAATTATAAAACCATTTAAAGCGAGTAATAAGTCT
* * * * *
4809 TTTGAAGGCATAGGTGACTATAGATAGACTTTTCTTACCAATAAATATCTTTTTCTTCATGTTTC
66 TTTGAAGGCATAGGTCACTATAAATAGACTTTTCTTACCAATAAATATCCTTTTCTTCACGTCTC
* ** * * * *
4874 CAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAACAAAATTCAATTTTCAATTA
131 CAGAGGTAAACATTCAATTATAATCTGTTTTAACAAAAAATCAAAAAAAATTCAACTTACAATCA
* ** * * *
4939 ATTATGAGATTATTAAACCATTTAAAGCGGGTAATAAGGCTTACGAAGGCATGGGTGATTATAAA
196 ATTATAAGATTACAAAACCATTTAAAGCGAGTAACAAGGCTTACGAAGGCATGGGTGACTATAAA
* * * * *
5004 TGAAATTTTCTTGCTAACGAATGGCTTTTTCTTCACGTTTCTCGAGGTAAAAATTTAATTATAAT
261 TGAAATTTTCTTGCCAACAAATAGCTTTTTCTTCACGTTTCTCAAGGTAAAAATTCAATTATAAT
* * *
5069 CTGCTTTAACCAAAAATAAAAAAGAAAATTCAACTTAAAGTCAATTATGAGCTTATAAAACCATT
326 ATGCTTTAACCAAAAATAAAAAAGAAAATTCAACTTAAAGTCAATTATCAGATTATAAAACCATT
* * * * *
5134 TAAAGTGAGTAATAAGGCCTTTGAAAGAATGGACGGCTATAAATGGACTATTCTTGCCAATGAAT
391 TAAAGCGAATAATAAGGCCTTTGAAAGAATGGACGACTATAAATGGACTATTCTTACCAATAAAT
* ** *
5199 ATCTTTTTGTTCACATTTCTGAAGGTGGACATTCACTTATAATCTGTTTTAAAAAAACTGTAAAA
456 AACTTTTACTTCACATTTCTGAAGGTAGACATTCACTTATAATCTGTTTTAAAAAAACTGTAAAA
* * * * *
5264 AAATTTAACTTTAAATCATTTATGAGATTATCAAACTATTTAAAGTGAGTAATAAGGCTT
521 AAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTT
* *
5324 TAAAAA-ATTTCAACTTAAAGTCAATTAT-AAGATTATAAAACCATTTAAAGCGAGTAATAAGTC
1 TAAAAACAATTCAACTGAAAGTCAATTATGAA-ATTATAAAACCATTTAAAGCGAGTAATAAG--
* * * *
5387 TTTCGAAGGTTTTCGAAGGCATGGGTCACTATAAATGGACTTTTCTTGCCAATGAATGA-CCTTT
63 --TC-----TTTT-GAAGGCATAGGTCACTATAAATAGACTTTTCTTACCAATAAAT-ATCCTTT
* *
5451 TCTTCACGTCTCTCA-AGGTAAATCGTT-AATTATAATCTGTTTTAACCAAAAA-CAAAAAAAAT
119 TCTTCACGTCTC-CAGAGGTAAA-CATTCAATTATAATCTGTTTTAACAAAAAATCAAAAAAAAT
* * * ** *
5513 TCAACTTAGAGTCAATTATAAGTTTACAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGGTA
182 TCAACTTACAATCAATTATAAGATTACAAAACCATTTAAAGCGAGTAACAAGGCTTACGAAGGCA
* * * * * *
5578 TGGGTGACTATAAATGGACTTTTCTTGCCAATAAATATCTTTTTCTTCACGTTTCTTAAGGTAGA
247 TGGGTGACTATAAATGAAATTTTCTTGCCAACAAATAGCTTTTTCTTCACGTTTCTCAAGGTAAA
* * * * *
5643 CATTCAATTATAATATGTTTTAA-TAAAAA-ATAAAA-AAAATTCAACTTCAAA-TCAGTTATCA
312 AATTCAATTATAATATGCTTTAACCAAAAATAAAAAAGAAAATTCAACTT-AAAGTCAATTATCA
* * * * **
5704 GATTATCAAACCATTTAAAGCGAATAATAAGG-TTTTCGAAGGTATGGGTGACTATAAATGGACT
376 GATTATAAAACCATTTAAAGCGAATAATAAGGCCTTT-GAAAGAATGGACGACTATAAATGGACT
* * * *
5768 TTTCTTACCAATAAATAACTTTTACTTCACGTTTCTTAAGGTAGAC-TGTTA-TTAATAATCTGT
440 ATTCTTACCAATAAATAACTTTTACTTCACATTTCTGAAGGTAGACAT-TCACTT-ATAATCTG-
* *
5831 TTTTATCAAAAA-TG-AAAAAAATTCAAC-TTAAAGTCAATTATGAGTTTATAAAACTATTTAAA
502 TTTTA-AAAAAACTGTAAAAAAATTCAACTTTAAA-TCAATTATGAGATTATAAAACTATTTAAA
5893 GCGAGTAACAAGGCTT
565 GCGAGTAACAAGGCTT
5909 T
1 T
5910 TGAAGGTATG
Statistics
Matches: 487, Mismatches: 78, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
578 2 0.00
579 49 0.10
580 6 0.01
583 2 0.00
584 11 0.02
585 170 0.35
586 15 0.03
587 10 0.02
588 135 0.28
589 81 0.17
590 6 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (580 bp):
TAAAAACAATTCAACTGAAAGTCAATTATGAAATTATAAAACCATTTAAAGCGAGTAATAAGTCT
TTTGAAGGCATAGGTCACTATAAATAGACTTTTCTTACCAATAAATATCCTTTTCTTCACGTCTC
CAGAGGTAAACATTCAATTATAATCTGTTTTAACAAAAAATCAAAAAAAATTCAACTTACAATCA
ATTATAAGATTACAAAACCATTTAAAGCGAGTAACAAGGCTTACGAAGGCATGGGTGACTATAAA
TGAAATTTTCTTGCCAACAAATAGCTTTTTCTTCACGTTTCTCAAGGTAAAAATTCAATTATAAT
ATGCTTTAACCAAAAATAAAAAAGAAAATTCAACTTAAAGTCAATTATCAGATTATAAAACCATT
TAAAGCGAATAATAAGGCCTTTGAAAGAATGGACGACTATAAATGGACTATTCTTACCAATAAAT
AACTTTTACTTCACATTTCTGAAGGTAGACATTCACTTATAATCTGTTTTAAAAAAACTGTAAAA
AAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTT
Found at i:6783 original size:169 final size:160
Alignment explanation
Indices: 6581--6896 Score: 323
Period size: 169 Copynumber: 1.9 Consensus size: 160
6571 TTAAAGCGAG
* * *
6581 TAATAAGACTTTCGAAGGCATTGGTGACTATAAATGGACTT-TTCGTGCTAATGAATAGCTTTTT
1 TAATAAGACTTTCGAAGGCATGGGTGACTATAAATGGA-TTATTCGTGCCAATGAATACCTTTTT
* * * *
6645 CTTCACGATTCTCGAGGTAAAAATTTAATTACAATCTGTTTTAATCAAAAA-TAAAAAAAATCAA
65 CTTCACGATTCTCAACGTAAAAATTCAATTACAATCTGTTTTAATAAAAAAGTAAAAAAAATCAA
6709 CTT-AAAGTCAATTATGAGCTTATAAAACCAT
130 CTTCAAA-TCAATTATGAGCTTATAAAACCAT
* * * *
6740 TNNNNNNNNNNAATAAGGCTTTTGAAGGCATGGGTGGCTATAAATGGATTATTCTTGCCAATGAA
1 T----------AATAAGACTTTCGAAGGCATGGGTGACTATAAATGGATTATTCGTGCCAATGAA
* ** * * *
6805 TACCTTTTTCTTCACGTTTCTCAACGTGGACATTCAATTATAATCTGTTTTAATAAAAAATGTTA
56 TACCTTTTTCTTCACGATTCTCAACGTAAAAATTCAATTACAATCTGTTTTAATAAAAAA-GTAA
* *
6870 AAAAATTCAACTTCAAATCATTTATGA
120 AAAAAATCAACTTCAAATCAATTATGA
6897 AATTGTCAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
159 1 0.01
168 2 0.02
169 95 0.77
171 23 0.19
172 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.34
Consensus pattern (160 bp):
TAATAAGACTTTCGAAGGCATGGGTGACTATAAATGGATTATTCGTGCCAATGAATACCTTTTTC
TTCACGATTCTCAACGTAAAAATTCAATTACAATCTGTTTTAATAAAAAAGTAAAAAAAATCAAC
TTCAAATCAATTATGAGCTTATAAAACCAT
Found at i:7618 original size:162 final size:163
Alignment explanation
Indices: 7344--7745 Score: 420
Period size: 162 Copynumber: 2.4 Consensus size: 163
7334 ATTTTTGACA
* ** ** * *
7344 AAAATAGATTATAATTAATGATTTACCTTGAGAAATTTGAAGAAAAAGTCATTCATTGGTAAGAA
1 AAAATAAATTATAATTAATGATTTACCTCAAGAAACGTGAACAAAAAGTCATTCATTGGCAAGAA
* * *
7409 AAGTCAATTTATAGTCACCCACGCCTTCGAAAACCTTATTACTCACTTTAAATAG-TTTGATAAT
66 AAGTCAACTTATAGTCACCCACACCTTCGAAAACCTTATTACTCACTTTAAATAGTTTTG-TAAA
* *
7473 CTGATAATTGA-TTTAAAGTTG-ATTTTTTTTATT
130 CTCATAATCGACTTT-AAGTTGAATTTTTTTTATT
*
7506 AAAATAAATTATAATTGAATG-TTTATCTCAAGAAACGTGAACAAAAAGAT-ATTCATTGGCAAG
1 AAAATAAATTATAATT-AATGATTTACCTCAAGAAACGTGAACAAAAAG-TCATTCATTGGCAAG
* * * * * *
7569 AACAGTCCACTTATAGTCACCCATACCTTC-AAAGGCCTTGTTACTCACTTTAAATGGTTTTGTA
64 AAAAGTCAACTTATAGTCACCCACACCTTCGAAA-ACCTTATTACTCACTTTAAATAGTTTTGTA
7633 AACTCATAATCGACTTTAAGTTGAATTTTTTTTATTTTTGGTT
128 AACTCATAATCGACTTTAAGTTGAATTTTTTTTA-------TT
* * * ** * *
7676 AAAACAGATTATAATTAACGATTTACCTTGAGAAACGTGAAGAAAATGTCATTCATTGGCAAGAA
1 AAAATAAATTATAATTAATGATTTACCTCAAGAAACGTGAACAAAAAGTCATTCATTGGCAAGAA
7741 AAGTC
66 AAGTC
7746 CANNNNNNNN
Statistics
Matches: 197, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
161 3 0.02
162 111 0.56
163 22 0.11
169 4 0.02
170 57 0.29
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (163 bp):
AAAATAAATTATAATTAATGATTTACCTCAAGAAACGTGAACAAAAAGTCATTCATTGGCAAGAA
AAGTCAACTTATAGTCACCCACACCTTCGAAAACCTTATTACTCACTTTAAATAGTTTTGTAAAC
TCATAATCGACTTTAAGTTGAATTTTTTTTATT
Found at i:9206 original size:169 final size:171
Alignment explanation
Indices: 8890--9358 Score: 509
Period size: 169 Copynumber: 2.8 Consensus size: 171
8880 NNNNNNNNNN
* *
8890 AAGTTGAATTTTTTTTTATTTTTGGTTAAAACAGATTATAATTAATAGTCTACTTTGAGAAACAT
1 AAGTTGAA-TTTTTTTTATTTTTGGTTAAAACAGATTATAATTAATAGTCTACCTTGAGAAACGT
* * * **********
8955 GAAGAAAAAAATAATTCATTTGCAAGAAAAGTCCATTTATAGTCACTCANNNNNNNNNNAGCCTT
65 GAAGAAAAAGATAATTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATACCGTCAAAAGCCTT
* * *
9020 ATTACTCGCTTTAAATGG-TTTGATAATCTGATAGCTGA-TTT
130 ATTACTCACTTTAAATGGTTTTG-TAAACTGATAACTGACTTT
** * * *
9061 GAAGTTGAATTTTTTTTATTTTTTATTAAAACAGATTATAATTGAAT-CTCCACCTT-AAAAACG
1 -AAGTTGAATTTTTTTTATTTTTGGTTAAAACAGATTATAATT-AATAGTCTACCTTGAGAAACG
* * *
9124 TAAAGAAAAAGAT-ATTCATTGGCAAGAAAAGTCAATTTATAGTCACCCATACCGTCAAAAGCCT
64 TGAAGAAAAAGATAATTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATACCGTCAAAAGCCT
* * * *
9188 TGTTACTTACTTTAAATGGTTTTGTAAACTTATAATTGACTTT
129 TATTACTCACTTTAAATGGTTTTGTAAACTGATAACTGACTTT
* * *
9231 AAGTTGAATTTGTTTTATTTTTGGTTGAAACAGATTATAATTAATGGTCTACCTTGAGAAACGTG
1 AAGTTGAATTTTTTTTATTTTTGGTTAAAACAGATTATAATTAATAGTCTACCTTGAGAAACGTG
* * * * * *
9296 AAGAAAAAG-TCATTCCTTAGCAAGAAAAGTCCATTTACAGTCACCCATGCCTTCGAAAGCCTT
66 AAGAAAAAGATAATTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATACCGTCAAAAGCCTT
9359 CGAAAGACTT
Statistics
Matches: 247, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
168 3 0.01
169 111 0.45
170 84 0.34
171 38 0.15
172 11 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.36
Consensus pattern (171 bp):
AAGTTGAATTTTTTTTATTTTTGGTTAAAACAGATTATAATTAATAGTCTACCTTGAGAAACGTG
AAGAAAAAGATAATTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATACCGTCAAAAGCCTTA
TTACTCACTTTAAATGGTTTTGTAAACTGATAACTGACTTT
Found at i:9729 original size:170 final size:168
Alignment explanation
Indices: 9464--9865 Score: 436
Period size: 170 Copynumber: 2.4 Consensus size: 168
9454 NNNNNNNNNN
* *
9464 ATAATTGATTTGAAGTTAAATTTTTTTACATTTTTTCTTAAAATAGATTATAATTGAATGTCTTT
1 ATAATTGATTTGAAGTTGAATTTTTTTA-A-TTTTTCTT-AAATAGATTATAATTAAATGTCTTT
* * * ** * * * * *
9529 CTTGAGAAATGTGAAGAAAAAGATATTCATTGGCAAGAATAGTCCATTTATAGTCGCCTATGCCT
63 CTCGAGAAACGTGAAGAAAAAGACATTCATTACCAAGAAAAGTCCATTTACAGTCACCCATACCT
* *
9594 TCAAAAGCCTTT-TTACTCACTTTAAATAGTTTTATAAGCTC
128 TCAAAAG-CTTTATTACTCACTTTAAATAGTTTAATAAACTC
* *
9635 ATAATTGATTTTAAGTTGAATTTTCTTT-ATTTTTGGTTAACATAGATTATAATTAAAT-T-TTT
1 ATAATTGATTTGAAGTTGAATTTT-TTTAATTTTT-CTTAA-ATAGATTATAATTAAATGTCTTT
* * *
9697 ACCTCGAGAAACGTGAAGAAAATGCCATTCATTACCAAGAAAAGTTCATTTACAGTCACCCATAC
63 --CTCGAGAAACGTGAAGAAAAAGACATTCATTACCAAGAAAAGTCCATTTACAGTCACCCATAC
* * *
9762 CTTCGAAAGCTTTATTACTCGCTTTAAATGGTTTAATAAACTC
126 CTTCAAAAGCTTTATTACTCACTTTAAATAGTTTAATAAACTC
* * * *
9805 ATAATTAATTTGAAATTG-ATTTTTTTAATATTTTTTTAGAACAGATTATAATTAAATGTCT
1 ATAATTGATTTGAAGTTGAATTTTTTTAAT-TTTTCTTA-AATAGATTATAATTAAATGTCT
9866 ACCCCTGAAG
Statistics
Matches: 193, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
168 6 0.03
169 38 0.20
170 123 0.64
171 23 0.12
172 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (168 bp):
ATAATTGATTTGAAGTTGAATTTTTTTAATTTTTCTTAAATAGATTATAATTAAATGTCTTTCTC
GAGAAACGTGAAGAAAAAGACATTCATTACCAAGAAAAGTCCATTTACAGTCACCCATACCTTCA
AAAGCTTTATTACTCACTTTAAATAGTTTAATAAACTC
Found at i:9790 original size:586 final size:584
Alignment explanation
Indices: 8639--9939 Score: 1280
Period size: 586 Copynumber: 2.2 Consensus size: 584
8629 CTCTTTATTG
* * * *
8639 ATTTGAATTTGAATTTTTTTACAT-TTTCTATTAAAACATATTATAATTGAATGTCTACCTCAAG
1 ATTTGAAATTG-ATTTTTTTA-ATATTT-T-TTGAAACAGATTATAATTAAATGTCTACCTCAAG
* * * * *
8703 AAACATGAAGAAAAAGTCATTGATTGGCAAGAAAAGTCCATTTATAGTTACCAATGCCTTTGAAA
62 AAACATGAAGAAAAAGTCATTCATTAGCAAGAAAAGTCCATTTACAGTCACCAATGCCTTCGAAA
* * *
8768 GCCTTTAAAAGGCTTATTAGTCGCTCTAAATGGTTTTAGAATCTTATAATTGACTTTAAGTTGAA
127 GCCTTCAAAAGACTTATTACTCGCTCTAAATGGTTTTAGAATCTTATAATTGACTTTAAGTTGAA
* ********** *
8833 TTTGTTTAAAGCCTTATTACTCGCTTTAAAAGGTTTGATTATCTTATNNNNNNNNNNAAGTTGAA
192 TTTGTTTAAAGACTTATTACTCGCTTTAAAAGGTTTGATTATCTTATAATTGATTTGAAGTTAAA
** *
8898 TTTTTTTTTATTTTTGGTTAAAACAGATTATAATTAATAGTCTACTTTGAGAAACATGAAGAAAA
257 TTTTTTTACATTTTTGCTTAAAACAGATTATAATTAATAGTCTACTTTGAGAAACATGAAGAAAA
* ********** *
8963 AAATAATTCATTTGCAAGAAAAGTCCATTTATAGTCACTCANNNNNNNNNNAGCCTTATTACTCG
322 AAATAATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCA
* * * * * *
9028 CTTTAAATGGTTTGATAATCTGATAGCTGATTTGAAGTTGAATTTTTTTTATTTTTTATTAAAAC
387 CTTTAAATAGTTTGATAAGCTCATAACTGATTTGAAGTTGAATTTTCTTTATTTTTGATTAAAAC
* * * **
9093 AGATTATAATTGAATCTCCACCTTAAAAACGTAAAGAAAAAGATATTCATTGGCAAGAAAAGTCA
452 AGATTATAATTAAATCTCCACCTGAAAAACGTAAAGAAAAAGACATTCATTACCAAGAAAAGTCA
* * * ** *
9158 ATTTATAGTCACCCATACCGTCAAAAGCCTTGTTACTTACTTTAAATGGTTTTGTAAACTTATAA
517 ATTTACAGTCACCCATACCGTCAAAAGCCTTATTACTCACTTTAAATGGTTTAATAAACTCATAA
9223 TTGA
582 TT-A
* * **
9227 CTTT-AAGTTGAATTTGTTTT-AT-TTTTGGTTGAAACAGATTATAATT-AATGGTCTACCTTGA
1 ATTTGAAATTG-ATTT-TTTTAATATTTT--TTGAAACAGATTATAATTAAAT-GTCTACCTCAA
* * *
9288 GAAACGTGAAGAAAAAGTCATTCCTTAGCAAGAAAAGTCCATTTACAGTCACCCATGCCTTCGAA
61 GAAACATGAAGAAAAAGTCATTCATTAGCAAGAAAAGTCCATTTACAGTCACCAATGCCTTCGAA
*
9353 AGCCTTCGAAAGACTTATTACTCGCT-TCAAATGGTTTTAGAATCTTATAATTGACTTTAAGTTG
126 AGCCTTCAAAAGACTTATTACTCGCTCT-AAATGGTTTTAGAATCTTATAATTGACTTTAAGTTG
* * * **********
9417 GATATT-TTTAAAGACTTATTACTTGCTTTAAATGGTTNNNNNNNNNNATAATTGATTTGAAGTT
190 AAT-TTGTTTAAAGACTTATTACTCGCTTTAAAAGGTTTGATTATCTTATAATTGATTTGAAGTT
* * * **
9481 AAATTTTTTTACATTTTTTCTTAAAATAGATTATAATTGAAT-GTCT-TTCTTGAGAAATGTGAA
254 AAATTTTTTTACATTTTTGCTTAAAACAGATTATAATT-AATAGTCTACT-TTGAGAAACATGAA
* * * *
9544 GAAAAAGAT-ATTCATTGGCAAGAATAGTCCATTTATAGTCGC-CTATGCCTTCAAAAGCCTTTT
317 GAAAAAAATAATTCATTGGCAAGAAAAGTCCATTTATAGTCACTC-ATGCCTTCAAAAGCCTTAT
* * * *
9607 TACTCACTTTAAATAGTTTTATAAGCTCATAATTGATTTTAAGTTGAATTTTCTTTATTTTTGGT
381 TACTCACTTTAAATAGTTTGATAAGCTCATAACTGATTTGAAGTTGAATTTTCTTTATTTTTGAT
* * * ** * * * *
9672 TAACATAGATTATAATTAAATTTTTACCTCGAGAAACGTGAAGAAAATGCCATTCATTACCAAGA
446 TAAAACAGATTATAATTAAATCTCCACCT-GAAAAACGTAAAGAAAAAGACATTCATTACCAAGA
* * * *
9737 AAAGTTC-ATTTACAGTCACCCATACCTTCGAAAGCTTTATTACTCGCTTTAAATGGTTTAATAA
510 AAAG-TCAATTTACAGTCACCCATACCGTCAAAAGCCTTATTACTCACTTTAAATGGTTTAATAA
9801 ACTCATAATTA
574 ACTCATAATTA
* **
9812 ATTTGAAATTGATTTTTTTAATATTTTTTTAGAACAGATTATAATTAAATGTCTACC-CCTGAAG
1 ATTTGAAATTGATTTTTTTAATATTTTTTGA-AACAGATTATAATTAAATGTCTACCTCAAGAA-
* * * * * * * * * *
9876 ATATGAAGAAAAAAAT-ATTTATTGGTAAGAGAAGTCTATCTATAGTCACCTATGCCTTCGAAAG
64 ACATGAAG-AAAAAGTCATTCATTAGCAAGAAAAGTCCATTTACAGTCACCAATGCCTTCGAAAG
9940 ACTNNNNNNN
Statistics
Matches: 576, Mismatches: 120, Indels: 37
0.79 0.16 0.05
Matches are distributed among these distances:
584 11 0.02
585 197 0.34
586 344 0.60
587 17 0.03
588 7 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.38
Consensus pattern (584 bp):
ATTTGAAATTGATTTTTTTAATATTTTTTGAAACAGATTATAATTAAATGTCTACCTCAAGAAAC
ATGAAGAAAAAGTCATTCATTAGCAAGAAAAGTCCATTTACAGTCACCAATGCCTTCGAAAGCCT
TCAAAAGACTTATTACTCGCTCTAAATGGTTTTAGAATCTTATAATTGACTTTAAGTTGAATTTG
TTTAAAGACTTATTACTCGCTTTAAAAGGTTTGATTATCTTATAATTGATTTGAAGTTAAATTTT
TTTACATTTTTGCTTAAAACAGATTATAATTAATAGTCTACTTTGAGAAACATGAAGAAAAAAAT
AATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCACTTT
AAATAGTTTGATAAGCTCATAACTGATTTGAAGTTGAATTTTCTTTATTTTTGATTAAAACAGAT
TATAATTAAATCTCCACCTGAAAAACGTAAAGAAAAAGACATTCATTACCAAGAAAAGTCAATTT
ACAGTCACCCATACCGTCAAAAGCCTTATTACTCACTTTAAATGGTTTAATAAACTCATAATTA
Found at i:10552 original size:65 final size:65
Alignment explanation
Indices: 10448--10575 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 65
10438 GCCTTCGAGA
* * *
10448 GACTTATTACTCGCTTTAAATGGTTTTAGAATCTTATAATTGACTTGAAGTTGAATATTTTTAAT
1 GACTTATTACTCGCTTTAAATGGTTTGAGAATCTCATAATTGACTTGAAGTTAAATATTTTTAAT
* * * *
10513 GACTTATTACTTGCTTTAAATGGTTTGATAATCTCATAATTGATTTGAAGTTAAATTTTTTTA
1 GACTTATTACTCGCTTTAAATGGTTTGAGAATCTCATAATTGACTTGAAGTTAAATATTTTTA
10576 CATTTTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (65 bp):
GACTTATTACTCGCTTTAAATGGTTTGAGAATCTCATAATTGACTTGAAGTTAAATATTTTTAAT
Found at i:11203 original size:171 final size:170
Alignment explanation
Indices: 10515--11539 Score: 1050
Period size: 171 Copynumber: 6.0 Consensus size: 170
10505 TTTTTAATGA
* * * * **
10515 CTTATTACTTGCTTTAAATGGTTTGATAATCTCATAATTGATTTGAAGTTAAATTTTTTTACATT
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTTA-T
*
10580 TTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGATATTCATTG
65 TTTTATTAAAACAGATTATAATTGAATGTCTACCTAGAGAAACGTGAAGAAAAAGATATTCATTG
* * *
10645 GCAAGAATAGTCCATTTATAGTCGCCCATGCCTTCAAAAGC
130 GCAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
* ** * *
10686 GTTATTACTCGCTTTCTATGGTTTTATAAGCTCATAATTGACTTTAAGTTGAATTTTTTTTTA-T
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTTATT
* * * * * * ** **
10750 TTTAGGTTAACATAGACTATAATTAAAT-TTTTCCTAGAGAAACGCAAAGAAAAAGCCATTCATT
66 TTTA--TTAAAACAGATTATAATTGAATGTCTACCTAGAGAAACGTGAAGAAAAAGATATTCATT
** * *
10814 ATCAAGAAAAGT-TCATTTATAGTCACCTATGCCTTCGAAAGC
129 GGCAAGAAAAGTCT-ATTTATAGTCACCCATGCCTTCAAAAGC
* * * * * *
10856 CTTATTACTCGCTTTAAATGGTTTAATAATCTCATAATTAATTTGAAATTGAATTGTTTTATATT
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTTATT
* **
10921 TTT-TTAGAACAGATTATAATTGAATGTCTACCGCT-G-GAAATATGAAGAAAAAGATACTT-AT
66 TTTATTAAAACAGATTATAATTGAATGTCTA-C-CTAGAGAAACGTGAAGAAAAAGATA-TTCAT
* * * * *
10982 TGGTAAGAAAAGTCTATCTATAGTCACCTATGCCTTCGAAAGA
128 TGGCAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
* * * * *
11025 TTTATTACTCACTTTAAATGGTTTTATAATATCATAATTGACTTGAGGTTTAATTTTTTTTTCAT
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTT-AT
* * * *
11090 TTTTAGTTAAAACCA-ATTATAATTCAATCTCT-CATAAAGAAACGTGAAGAAAAAGATATTCAT
65 TTTTA-TTAAAA-CAGATTATAATTGAATGTCTACCTAGAGAAACGTGAAGAAAAAGATATTCAT
* * * *
11153 TGGCAAGAAAAGTCTATTTATAATGACCTATGCCTTTAAAAGC
128 TGGCAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
* * * * *
11196 CTTATTACTTGCTTGAAATGGTTTTATAATCTGATAACTGATTTGAAGTTGAATTTTTTTTTATT
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTTA-T
* * *
11261 TTTTATTAAAACAGATTATAATTGAATGTCAACCTCA-AGAAACGTGAAGAATAAGATATTAATT
65 TTTTATTAAAACAGATTATAATTGAATGTCTACCT-AGAGAAACGTGAAGAAAAAGATATTCATT
* * * * *
11325 GGCAAGAAAAGTCCATTTATAGTCGCCCATACCTTTAAAGGC
129 GGCAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
* * * * * * * *
11367 CTTGTTACTCGCTTTAAATGGTTTTGTAAACTCACAATTGACTTTAAGTGGTATTTTTTTCGT-T
1 CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTT-TTAT
** * * * *
11431 TTTGGTTAAAACAAATTTTAATT-AATGGTTTACCTTGAGAAACGTGAAGAAAAAG-TCATTCAT
65 TTTTATTAAAACAGATTATAATTGAAT-GTCTACCTAGAGAAACGTGAAGAAAAAGAT-ATTCAT
* * *
11494 TGACAAGAAAAGTCAATTTATAGTCACCCATGCCTTCGAAAGC
128 TGGCAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
11537 CTT
1 CTT
11540 CGAAAGACTT
Statistics
Matches: 695, Mismatches: 135, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
168 17 0.02
169 117 0.17
170 237 0.34
171 300 0.43
172 22 0.03
173 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (170 bp):
CTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTGAAGTTGAATTTTTTTTTATT
TTTATTAAAACAGATTATAATTGAATGTCTACCTAGAGAAACGTGAAGAAAAAGATATTCATTGG
CAAGAAAAGTCTATTTATAGTCACCCATGCCTTCAAAAGC
Found at i:11649 original size:65 final size:65
Alignment explanation
Indices: 11542--11672 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 65
11532 AAAGCCTTCG
* * * *
11542 AAAGACTTATTACTCTGTTTAAATGATTTTATAATCTTATAATTGACTTT-AAGTTGAATATTTT
1 AAAGACTTATTACTCTGATTAAATGATTTGATAATCTCATAATTGA-TTTGAAATTGAATATTTT
11606 T
65 T
* * *
11607 AAAGACTTATTACT-TGCATTAAATGGTTTGGTAATCTCATAATTGATTTGAAATTGAATTTTTT
1 AAAGACTTATTACTCTG-ATTAAATGATTTGATAATCTCATAATTGATTTGAAATTGAATATTTT
11671 T
65 T
11672 A
1 A
11673 CTTTTTTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 5 0.09
65 52 0.91
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (65 bp):
AAAGACTTATTACTCTGATTAAATGATTTGATAATCTCATAATTGATTTGAAATTGAATATTTTT
Found at i:11784 original size:927 final size:928
Alignment explanation
Indices: 10796--12467 Score: 2016
Period size: 927 Copynumber: 1.8 Consensus size: 928
10786 GAGAAACGCA
* * *
10796 AAGAAAAAGCCATTCATTATCAAGAAAAGTTCATTTATAGTCACCTATGCCTTCGAAAGCCTTAT
1 AAGAAAAAGACATTCATTAGCAAGAAAAGTTCATTTATAGTCACCCATGCCTTCGAAAGCCTTAT
* *
10861 TACTCGCTTTAAATGGTTTAATAATCTCATAATT-AATTTGAAATTGAATTGTTTTAT-A-TTTT
66 TACTCGCTTTAAATGATTTAATAAGCTCATAATTGAATTT-AAATTGAATT-TTTTATCATTTTT
* * * * *
10923 T-TTAGAACAGATTATAATTGAATGTCTACCGCTG-GAAATATGAAGAAAAAGAT-ACTT-ATTG
129 TATTA-AACAGAGTATAATTAAATGTCTACCGC-GAGAAACATAAAG-AAAAG-TCA-TTCATTA
* * * * **
10984 GTAAGAAAAGTCTATCTATAGTCACCTATGCCTTCGAAAGATTTATTACTCACTTTAAATGGTTT
189 GCAAGAAAAGTCAATCTATAGTCACCAATGCATTCGAAAGATTTATTACTCACTTTAAATAATTT
* * * ** * * *
11049 TATAATATCATAATTGACTTGAGGTTTAATTTTTTTTTCATTTTTAGTTAAAACCA-ATTATAAT
254 AATAATATCATAATTAACTTAAAATTAAACTTTTTTAT-ATTTTTAGTTAAAA-CAGATTATAAT
* *
11113 TCAATCTCT-CATAAAGAAACGTGAAGAAAAAGATATTCATTGGCAAGAAAAGTCTATT-TATAA
317 TCAATCTCTACATAAAGAAACATGAAGAAAAAGATATTCATTGGCAAAAAAAGTCT-TTCTATAA
* * * * ** ** *
11176 TGACCTATGCCTTTAAAAGCCTTATTACTTGCTTGAAATGGTTTTATAATCTGATAACTGA-TTT
381 TCACCTATGCCATCAAAAGACTTATTACTCACTTGAAATAATTTTATAATCTCATAACTGACTTT
* *
11240 GAAGTTGAATTTTTTTTTATTTTTTA-TTAAAAC-AGATTATAATTGAATGTCAACCTCAAGAAA
446 G-AGTTG-ATTTTTTTTTAATTTTTAGTTAAAACTA-ATTATAATTAAATGTCAACCTCAAGAAA
* * ** *
11303 CGTGAAGAATAAGATATTAATTGGCAAGAAAAGTCCATTTATAGTCGCCCATACCTTTAAAGGCC
508 CGTAAAGAAAAAGATATTAATTGGCAAGAAAAGTCCATTTATAGTCAACCATACCTTTAAAAGCC
* * *
11368 TTGTTACTCGCTTTAAATGGTTTTGTAAACTCACAATTGACTTTAAG-TG-GTATTTTTT-TCGT
573 TTATTACTCGCTTTAAATGGTTTTATAAACTCACAATTGACTTTAAGTTGAGT-TTTTTTAT-AT
** * *** * *
11430 TTTTGGTTAAAACAAATTTTAATT-AATGGTTTACCTTGAGAAACGTGAAGAAAAAGTC-ATTCA
636 TTTTGGTTAAAACAAATTACAATTGAAT-GATTACCAAAAGAAACCTAAAGAAAAAG-CAATTCA
* * *
11493 TTGACAAGAAAAGTCAATTTATAGTCACCCATGCCTTCGAAAGCCTTCGAAAGACTTATTACTCT
699 TTGACAAGAAAAGCCAATTTATAGTCACCCAAGCCTTCAAAAGCCTTCGAAAGACTTATTACTCT
11558 GTTTAAATGATTTTATAATCTTATAATTGACTTTAAGTTGAATATTTTTAAAGACTTATTACTTG
764 GTTTAAATGATTTTATAATCTTATAATTGACTTTAAGTTGAATATTTTTAAAGACTTATTACTTG
11623 CATTAAATGGTTTGGTAATCTCATAATTGATTTGAAATTGAATTTTTTTACTTTTTTTATTAAAA
829 CATTAAATGGTTTGGTAATCTCATAATTGATTTGAAATTGAATTTTTTTACTTTTTTTATTAAAA
11688 TAGATTATAATGTAATGTCCACCTTGAGAAATGTG
894 TAGATTATAATGTAATGTCCACCTTGAGAAATGTG
* * * * *
11723 AAGAAAAAGATATTCATTGGCAAGAATAGTCTC-TTTATAGTCGCCCATGTCTT-GAAAAGCCTT
1 AAGAAAAAGACATTCATTAGCAAGAAAAGT-TCATTTATAGTCACCCATGCCTTCG-AAAGCCTT
** * * * * *
11786 ATTTTTGGCTTTAAATGATTTTATAAGCTCATAATTGACTTTAAGTTGAATTTTTTTTCATTTTT
64 ATTACTCGCTTTAAATGATTTAATAAGCTCATAATTGAATTTAAATTGAATTTTTTATCATTTTT
* * * *
11851 TATTAAACAGAGTATAATTAAATTTCTACCTCGAGAAGCGTAAAGAAAAGTCATTCATTAGCAAG
129 TATTAAACAGAGTATAATTAAATGTCTACCGCGAGAAACATAAAGAAAAGTCATTCATTAGCAAG
* * * * *
11916 AAAAGTCAATTTCTAGTCACCAATGCATTTGAAAGCTTTATTACTCGCTTTAAATAATTTAATAA
194 AAAAGTCAATCTATAGTCACCAATGCATTCGAAAGATTTATTACTCACTTTAAATAATTTAATAA
* * * * * *
11981 TCTCATAATTAATTTAAAATTAAACTTTTTTATATTTTTTGTTAAGACAGATTATAATTGAATGT
259 TATCATAATTAACTTAAAATTAAACTTTTTTATATTTTTAGTTAAAACAGATTATAATTCAATCT
* *** * * * **
12046 CTACCTTTGGAAACATGAAGAAAAAGATATTTATTGGTAAAAAAATTCTTTCTATGCTCACCTAT
324 CTACATAAAGAAACATGAAGAAAAAGATATTCATTGGCAAAAAAAGTCTTTCTATAATCACCTAT
* * * * * *
12111 GCCATCGAAAGACTTATTGCTCATTTTAAATAATTTTATAATCTCATAATTGACTTTGGGTTGAT
389 GCCATCAAAAGACTTATTACTCACTTGAAATAATTTTATAATCTCATAACTGACTTTGAGTTGAT
*
12176 TTTTTTTTAATTTTTAGTTAAAACTAATTATAATTAAATGTCTACCTCAAGAAACGTAAAGAAAA
454 TTTTTTTTAATTTTTAGTTAAAACTAATTATAATTAAATGTCAACCTCAAGAAACGTAAAGAAAA
* * * * *
12241 AGATATTCATTGGTAAGAAAAGTCCATTTATAGTCAACTATGCCTTTAAAAGCCTTATTACTCGT
519 AGATATTAATTGGCAAGAAAAGTCCATTTATAGTCAACCATACCTTTAAAAGCCTTATTACTCGC
* * *
12306 TTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAGTTTTTTTATATTTTTGGTTCAAAC
584 TTTAAATGGTTTTATAAACTCACAATTGACTTTAAGTTGAGTTTTTTTATATTTTTGGTTAAAAC
* * * *
12371 ATATTACAGTTGAATGATTGCCAAAAGAAACCTAAAGAAAAAGCAATTCATTGGCAAGAAAAGCC
649 AAATTACAATTGAATGATTACCAAAAGAAACCTAAAGAAAAAGCAATTCATTGACAAGAAAAGCC
* *
12436 TATTTATTGTCACCCAAGCCTTCAAAAGCCTT
714 AATTTATAGTCACCCAAGCCTTCAAAAGCCTT
12468 ATTACTCGCT
Statistics
Matches: 612, Mismatches: 113, Indels: 39
0.80 0.15 0.05
Matches are distributed among these distances:
925 2 0.00
926 55 0.09
927 405 0.66
928 141 0.23
929 9 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (928 bp):
AAGAAAAAGACATTCATTAGCAAGAAAAGTTCATTTATAGTCACCCATGCCTTCGAAAGCCTTAT
TACTCGCTTTAAATGATTTAATAAGCTCATAATTGAATTTAAATTGAATTTTTTATCATTTTTTA
TTAAACAGAGTATAATTAAATGTCTACCGCGAGAAACATAAAGAAAAGTCATTCATTAGCAAGAA
AAGTCAATCTATAGTCACCAATGCATTCGAAAGATTTATTACTCACTTTAAATAATTTAATAATA
TCATAATTAACTTAAAATTAAACTTTTTTATATTTTTAGTTAAAACAGATTATAATTCAATCTCT
ACATAAAGAAACATGAAGAAAAAGATATTCATTGGCAAAAAAAGTCTTTCTATAATCACCTATGC
CATCAAAAGACTTATTACTCACTTGAAATAATTTTATAATCTCATAACTGACTTTGAGTTGATTT
TTTTTTAATTTTTAGTTAAAACTAATTATAATTAAATGTCAACCTCAAGAAACGTAAAGAAAAAG
ATATTAATTGGCAAGAAAAGTCCATTTATAGTCAACCATACCTTTAAAAGCCTTATTACTCGCTT
TAAATGGTTTTATAAACTCACAATTGACTTTAAGTTGAGTTTTTTTATATTTTTGGTTAAAACAA
ATTACAATTGAATGATTACCAAAAGAAACCTAAAGAAAAAGCAATTCATTGACAAGAAAAGCCAA
TTTATAGTCACCCAAGCCTTCAAAAGCCTTCGAAAGACTTATTACTCTGTTTAAATGATTTTATA
ATCTTATAATTGACTTTAAGTTGAATATTTTTAAAGACTTATTACTTGCATTAAATGGTTTGGTA
ATCTCATAATTGATTTGAAATTGAATTTTTTTACTTTTTTTATTAAAATAGATTATAATGTAATG
TCCACCTTGAGAAATGTG
Found at i:12774 original size:170 final size:171
Alignment explanation
Indices: 11607--12890 Score: 1043
Period size: 171 Copynumber: 7.5 Consensus size: 171
11597 GAATATTTTT
* * * ** * *
11607 AAAGACTTATTACTTGCATTAAATGGTTTGGTAATCTCATAATTGA-TTTGAAATTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAATTTTTT
* ** * * * *
11671 TACTTTTTTTATTAAAATAGATTATAA-TGTAATGTCCACCTTGAGAAATGTGAAGAAAAAGATA
66 T-CATTTTTGGTTAAAACAGATTATAATTG-AATGTCTACCTCGAGAAACGTGAAGAAAAAGATA
* * ** *
11735 TTCATTGGCAAGAATAGTCTC-TTTATAGTCGCCCATGTCTTGA
129 TTCATTGGCAAGAAAAGTC-CATTTATAGTCACCCATACCTTCA
** * * * *
11778 AAAGCCTTATTTTTGGCTTTAAATGATTTTATAAGCTCATAATTGACTTT-AAGTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTT-AAATTTTT
** * * * * *
11842 TTCATTTTTTATT-AAACAGAGTATAATTAAATTTCTACCTCGAGAAGCGTAAAG-AAAAG-TCA
65 TTCATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACGTGAAGAAAAAGAT-A
* * * * * * **
11904 TTCATTAGCAAGAAAAGTCAATTTCTAGTCACCAATGCATTTG
129 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATACCTTCA
* ** * * * *
11947 AAAGCTTTATTACTCGCTTTAAATAATTTAATAATCTCATAATT-AATTTAAAATTAAACTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAA-TTTTT
* * * *
12011 TAT-ATTTTTTGTTAAGACAGATTATAATTGAATGTCTACCTTTG-GAAACATGAAGAAAAAGAT
65 T-TCATTTTTGGTTAAAACAGATTATAATTGAATGTCTACC-TCGAGAAACGTGAAGAAAAAGAT
* * * * * * * * *
12074 ATTTATTGGTAA-AAAAATTC-TTTCTATGCTCACCTATGCCATCG
128 ATTCATTGGCAAGAAAAGTCCATTTATA-G-TCACCCATACCTTCA
* * ** ** * **
12118 AAAGACTTATTGCTCATTTTAAATAATTTTATAATCTCATAATTGACTTTG-GGTTGATTTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTT-AAATTTTT
* * * * *
12182 TTAATTTTTAGTTAAAACTA-ATTATAATTAAATGTCTACCTCAAGAAACGTAAAGAAAAAGATA
65 TTCATTTTTGGTTAAAAC-AGATTATAATTGAATGTCTACCTCGAGAAACGTGAAGAAAAAGATA
* * * * *
12246 TTCATTGGTAAGAAAAGTCCATTTATAGTCAACTATGCCTTTA
129 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATACCTTCA
* * *
12289 AAAGCCTTATTACTCGTTTTAAATGGTTTTATAATCTCATAATTGACTTT-AAGTTGAGTTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAATTTTTT
* * * * * * *** * *
12353 TATATTTTTGGTTCAAACATATTACAGTTGAATGAT-TGCCAAAAGAAACCTAAAGAAAAAGCA-
66 T-CATTTTTGGTTAAAACAGATTATAATTGAATG-TCTACCTCGAGAAACGTGAAGAAAAAG-AT
*
12416 ATTCATTGGCAAGAAAAG-CCTATTTATTGTCACCCA-AGCCTTCA
128 ATTCATTGGCAAGAAAAGTCC-ATTTATAGTCACCCATA-CCTTCA
* * * *
12460 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCTTTATTGA-TTTGAATTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAATTTTTT
* * * * *
12524 TACATTTTCT-ATTAAAGCAGATTATAATTGAATGCCTACCTCAAGAAACATGAAGAAAAAGATA
66 T-CATTTT-TGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACGTGAAGAAAAAGATA
* * * * *
12588 TTCATTGACAAGAAAAGTCCATTTATAGACACCCGTACTTTCT
129 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATACCTTCA
* * * **
12631 AAAGCCTTGTTACTCCCTTTAAATGGTTTCATAAAGTCATAATTGACTTT-AAGTTAAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAATTTTTT
* * *
12695 TCATTTTTGGTAAAAATAGATTATAATT-AATGGTCTACCTTGAGAAACGTGAAGAAAAAG-TCA
66 TCATTTTTGGTTAAAACAGATTATAATTGAAT-GTCTACCTCGAGAAACGTGAAGAAAAAGAT-A
** * *
12758 TTCATTGATAAGAAAAGTCCATTAATAGTCACCCACACCTTCA
129 TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATACCTTCA
* * * * * *
12801 AAAACCTTATTACTCGCTTTAAATGGTTTGATAATTTGATAACTGA-TTTGAAGTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTT-AAATTTTT
**
12865 TTCATTTTTTATTAAAACAGATTATA
65 TTCATTTTTGGTTAAAACAGATTATA
12891 NNNNNNNNNN
Statistics
Matches: 899, Mismatches: 174, Indels: 80
0.78 0.15 0.07
Matches are distributed among these distances:
168 7 0.01
169 108 0.12
170 208 0.23
171 537 0.60
172 34 0.04
173 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (171 bp):
AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTGAAGTTAAATTTTTT
TCATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACGTGAAGAAAAAGATATT
CATTGGCAAGAAAAGTCCATTTATAGTCACCCATACCTTCA
Found at i:14775 original size:170 final size:167
Alignment explanation
Indices: 14445--15924 Score: 996
Period size: 170 Copynumber: 8.7 Consensus size: 167
14435 GAATATTTTT
* * * *
14445 AAAGACTTATTACTTGCTTTAAATGGTGTGATAATCTCATAATTG-CTTTGAAGTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTT-AAGTTGAATTTTTT
* * * *
14509 TATATTTTTTCTTAAAATAGATTATAATTGAATGTCCACCTTGAGAAACGTGAAGAAAAAGATAT
65 T-TA-TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAA-ATAT
*****************
14574 TCATTGGCNNNNNNNNNNNNNNNNNAGTCACCCATGCCTTCA
127 TCATT-GCAAAAAAAATTCATTTATAGTCACCCATGCCTTCA
* * * *
14616 AAAGCCTTATTACTCGCTTTAAATAGTTTTATAAGCTAATAATTGATTTTAAGTTGAATTTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT
* * * * * * *
14681 TATTTTTGGTTAACACAGATTATAATTAAATTTTTACCTTGAGAAACGTGAAGAAAAAACCATTG
66 TATTTTT-GTTAAAACAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAA-TATTC
* *
14746 ATTACAAAAAAAAATTCATTTATAGTCACCCATGCCTTCG
129 ATTGC-AAAAAAAATTCATTTATAGTCACCCATGCCTTCA
* * * *
14786 AAAGCCTTATTACTCGCTTTAAACGGTTTAATAATCTCATAATT-AATTTGAAATTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTT-AAGTTGAATTTTTT
* * * * * * ** *
14850 ATATTTTTTTTAGAACAAATTATAATTGAATGTCTACCCCTGA-AAATATGAAAAAAAAGATATT
65 TTATTTTTGTTAAAACAGATTATAATTGAATGTCTA-CCTTAAGAAACGTGAAGAAAAA-ATATT
* * * * * * * *
14914 TATTGGTAAGAGAAA-TCTATCTATAATCACCTATGCCTTCG
128 CATT-GCAAAAAAAATTC-ATTTATAGTCACCCATGCCTTCA
* * * * *
14955 AAAGACTTATTAGTCACTTTAAATGGTTTTACAATCTCATAATTGAC-TTAGGTTGAATTTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT
* * * * *
15019 T-TTTTTAGTTAAAACCA-ATTATAATTAAATGTCTACCTAAAGAAATGTGAATAAAACGATATT
66 TATTTTT-GTTAAAA-CAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAA-AATATT
* * * * * * * * *
15082 CATTAGTAAGAAAAGTCCATGTATAGTCACCTATTCTTTTA
128 CATT-GCAAAAAAAATTCATTTATAGTCACCCATGCCTTCA
* * * *
15123 AAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCAAAATTGACTTTCAGTTGAGTTTTTTA
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTT-
* * * * * * * * * * * **
15188 ATATTTATGTTGAAACATATTACAGTTGAATGACTGCATAAAGAAA-TTGAA-AAAAAGCCATTC
65 TTATTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAA-ATATTC
* ** * * * *
15251 ATTGGC-AAGAAAAGCCTATTTATTGTCACCTAAGCCATCA
129 ATT-GCAAAAAAAATTC-ATTTATAGTCACCCATGCCTTCA
* * * * * * *
15291 AAATCCTTATTACTCACTTTAAATGGTTTTATAATCTCTTTATTGAATTGAATTTGAATTTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT
* * * * ** * *
15356 ACATTTTCTATTAAAACAGATAATAATTGAATGCCTACCACAAGTAACATGAAGAAAAAGATATT
66 -TATTTT-TGTTAAAACAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAA-ATATT
********** *
15421 CATTGGCANNNNNNNNNNATTTATAGTCACCCATACCTTCA
128 CATT-GCAAAAAAAATTCATTTATAGTCACCCATGCCTTCA
* * * * *
15462 AAAACCTTGTTACTCGCTTTAAAAGGTTTTATAAACTCATAATTGACTTTAAGTTGAATTCTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT
* * * *
15527 TATTTTTGGTTAAAACAGATTATAATT-AACTGCCTACCTTGAGAAAGGTGAAGAAAAAGTCATT
66 TATTTTT-GTTAAAACAGATTATAATTGAA-TGTCTACCTTAAGAAACGTGAAGAAAAAAT-ATT
* * * * * *
15591 CGTTAGCAAGAAAACTTCCTTTATAGTCACCTATGCCTTCG
128 CATT-GCAAAAAAAATTCATTTATAGTCACCCATGCCTTCA
* * * * * * *
15632 GAAGCCTTATTACTCGCTTTAAATGGATTGATAATCTGATAACT-AATTTGAAATTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTT-AAGTTGAATTTTTT
* * * * *
15696 TTATTTTTTATTAAAAAAGAATATAATTGAATGTCTA-CTTCAAGAAACTTGAAGAAAAAGATTT
65 TTA-TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTT-AAGAAACGTGAAGAAAAA-ATAT
* * * *
15760 TCATTGGC-AAGAAAATTCCATTTATAATCACACATACCTTCA
127 TCATT-GCAAAAAAAATT-CATTTATAGTCACCCATGCCTTCA
** * * *
15802 AAAGCCTTGCTACTTGCTTTAAATGGTTTTGTTAA-CTCATAATTGACTTTATGTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTT-ATAATCTCATAATTGACTTTAAGTTGAATTTTTT
* * *
15866 TCATTTTTGGTTAAAACAAATTATAATT-AATGGTCTACCTTGAGAAACGTGAA-AAAAAA
65 TTATTTTT-GTTAAAACAGATTATAATTGAAT-GTCTACCTTAAGAAACGTGAAGAAAAAA
15925 GTCATTCANN
Statistics
Matches: 1008, Mismatches: 261, Indels: 83
0.75 0.19 0.06
Matches are distributed among these distances:
167 14 0.01
168 209 0.21
169 195 0.19
170 424 0.42
171 163 0.16
172 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (167 bp):
AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT
TATTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAATATTCAT
TGCAAAAAAAATTCATTTATAGTCACCCATGCCTTCA
Found at i:15799 original size:340 final size:336
Alignment explanation
Indices: 14445--15932 Score: 1173
Period size: 339 Copynumber: 4.4 Consensus size: 336
14435 GAATATTTTT
* * * * *
14445 AAAGACTTATTACTTGCTTTAAATGGTGTGATAATCTCATAATTG-CTTTGAAGTTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTT-AAGTTGAA-TTTTT
* * * * *
14509 TATATTTTTTCTTAAAATAGATTATAATTGAATGTCCACCTTGAGAAACGTGAAGAAAAAGAT-A
64 TATA-TTTTTGTTAAAACAAATTATAATTGAATGTCTACCTTGAGAAA-GTGAAAAAAAAG-TCA
*************** * *
14573 TTCATTGGCNNNNNNNNNNNNNNNNNAGTCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAA
126 TTCATTGGC--AAGAAAACTCTTTATAGTCACCTATGCCTTCAAAAGCCTTATTACTCACTTTAA
* * * * * ** * *
14638 ATAGTTTTATAAGCTAATAATTGATTTTAAGTTGAATTTTTTTTATTTTTGGTTAACACAGATTA
189 ATGGTTTTATAATCTCATAATTAATTTGAAGTTGAATTTTTTTTATTTTTTATTAAAACAGAATA
* * ** * * * * *
14703 TAATTAAATTTTTACCTTGAGAAACGTGAAGAAAAA-ACCATTGATT-ACAAAAAAAAATT-CAT
254 TAATTAAATGTCTACCTCAAGAAACTTGAAGAAAAAGA-TATTCATTGGC--AAGAAAATTCCAT
* *
14765 TTATAGTCACCCATGCCTTCG
316 TTATAGTCACCCATACCTTCA
* * * * *
14786 AAAGCCTTATTACTCGCTTTAAACGGTTTAATAATCTCATAATT-AATTTGAAATTGAATTTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTT-AAGTTGAATTTTTT
* * * *
14850 ATATTTTTTTTAGAACAAATTATAATTGAATGTCTACCCCTGA-AAATATGAAAAAAAAGAT-AT
65 ATATTTTTGTTAAAACAAATTATAATTGAATGTCTA-CCTTGAGAAA-GTGAAAAAAAAG-TCAT
* * * * * *
14913 TTATTGGTAAGAGAAA-TCTATCTATAATCACCTATGCCTTCGAAAGACTTATTAGTCACTTTAA
127 TCATTGGCAAGA-AAACTCT-T-TATAGTCACCTATGCCTTCAAAAGCCTTATTACTCACTTTAA
* * * * *
14977 ATGGTTTTACAATCTCATAATTGACTT-AGGTTGAA-TTTTTTT-TTTTTTAGTTAAAACCA-AT
189 ATGGTTTTATAATCTCATAATTAATTTGAAGTTGAATTTTTTTTATTTTTTA-TTAAAA-CAGAA
* * * * * *
15038 TATAATTAAATGTCTACCTAAAGAAA-TGTGAATAAAACGATATTCATTAGTAAGAAAAGTCCAT
252 TATAATTAAATGTCTACCTCAAGAAACT-TGAAGAAAAAGATATTCATTGGCAAGAAAATTCCAT
* * * * *
15102 GTATAGTCACCTATTCTTTTA
316 TTATAGTCACCCATACCTTCA
* * * * *
15123 AAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCAAAATTGACTTTCAGTTGAGTTTTTTA
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTTAAGTTGAATTTTTT-
* * * * * * * * ** * *
15188 ATATTTATGTTGAAACATATTACAGTTGAATGACTGCATAAAGAAATTG-AAAAAAAGCCATTCA
65 ATATTTTTGTTAAAACAAATTATAATTGAATGTCTACCTTGAGAAAGTGAAAAAAAAGTCATTCA
* * * * *
15252 TTGGCAAGAAAAGCCTATTTATTGTCACCTAAGCCATCAAAATCCTTATTACTCACTTTAAATGG
130 TTGGCAAGAAAA--CTCTTTATAGTCACCTATGCCTTCAAAAGCCTTATTACTCACTTTAAATGG
* * * * *
15317 TTTTATAATCTCTTTATTGAA-TTGAATTTGAATTTTTTTACATTTTCTATTAAAACAG-ATAAT
193 TTTTATAATCTCATAATT-AATTTGAAGTTGAATTTTTTT-TATTTTTTATTAAAACAGAAT-AT
* * * * * **********
15380 AATTGAATGCCTACCACAAGTAACATGAAGAAAAAGATATTCATTGGCANNNNNNNNNNATTTAT
255 AATTAAATGTCTACCTCAAGAAACTTGAAGAAAAAGATATTCATTGGCAAGAAAATTCCATTTAT
15445 AGTCACCCATACCTTCA
320 AGTCACCCATACCTTCA
* * *
15462 AAAACCTTGTTACTCGCTTTAAAAGGTTTTATAAACTCATAATTGACTTTAAGTTGAATTCTTTT
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTTAAGTTGAATT-TTTT
* * *
15527 -TATTTTTGGTTAAAACAGATTATAATT-AACTGCCTACCTTGAGAAAGGTGAAGAAAAAGTCAT
65 ATATTTTT-GTTAAAACAAATTATAATTGAA-TGTCTACCTTGAGAAA-GTGAAAAAAAAGTCAT
* * ** *
15590 TCGTTAGCAAGAAAACTTCCTTTATAGTCACCTATGCCTTCGGAAGCCTTATTACTCGCTTTAAA
127 TCATTGGCAAGAAAAC-T-CTTTATAGTCACCTATGCCTTCAAAAGCCTTATTACTCACTTTAAA
* * * * * *
15655 TGGATTGATAATCTGATAACTAATTTGAAATTGAATTTTTTTTATTTTTTATTAAAAAAGAATAT
190 TGGTTTTATAATCTCATAATTAATTTGAAGTTGAATTTTTTTTATTTTTTATTAAAACAGAATAT
* * *
15720 AATTGAATGTCTACTTCAAGAAACTTGAAGAAAAAGATTTTCATTGGCAAGAAAATTCCATTTAT
255 AATTAAATGTCTACCTCAAGAAACTTGAAGAAAAAGATATTCATTGGCAAGAAAATTCCATTTAT
* *
15785 AATCACACATACCTTCA
320 AGTCACCCATACCTTCA
** * * * *
15802 AAAGCCTTGCTACTTGCTTTAAATGGTTTTGTTAACTCATAATTGACTTTATGTTGAATTTTTT-
1 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTTAAGTTGAATTTTTTA
15866 TCATTTTTGGTTAAAACAAATTATAATT-AATGGTCTACCTTGAGAAACGTGAAAAAAAAGTCAT
66 T-ATTTTT-GTTAAAACAAATTATAATTGAAT-GTCTACCTTGAGAAA-GTGAAAAAAAAGTCAT
15930 TCA
127 TCA
15933 NNNNNNNNNN
Statistics
Matches: 905, Mismatches: 205, Indels: 75
0.76 0.17 0.06
Matches are distributed among these distances:
335 3 0.00
336 87 0.10
337 131 0.14
338 63 0.07
339 255 0.28
340 221 0.24
341 145 0.16
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (336 bp):
AAAGCCTTATTACTCGCTTTAAATGGTTTTATAAACTCATAATTGACTTTAAGTTGAATTTTTTA
TATTTTTGTTAAAACAAATTATAATTGAATGTCTACCTTGAGAAAGTGAAAAAAAAGTCATTCAT
TGGCAAGAAAACTCTTTATAGTCACCTATGCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTT
TATAATCTCATAATTAATTTGAAGTTGAATTTTTTTTATTTTTTATTAAAACAGAATATAATTAA
ATGTCTACCTCAAGAAACTTGAAGAAAAAGATATTCATTGGCAAGAAAATTCCATTTATAGTCAC
CCATACCTTCA
Found at i:18025 original size:65 final size:65
Alignment explanation
Indices: 17938--18062 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 65
17928 TTCGAAAGAC
* * * *
17938 TTATTACTCGCTTTCAATAGTTTTATAATCTTATAATTGACTTT-CAGTTGAAGTTTTTTAAAGC
1 TTATAACTCGCTTTAAATAGTTTGATAATCTTATAATTGA-TTTGAAGTTGAAGTTTTTTAAAGC
18002 T
65 T
*
18003 TTATAACTCGCTTTAAATAGTTTGATAATCTTATAATTGATTTGAAGTTGAATTTTTTTA
1 TTATAACTCGCTTTAAATAGTTTGATAATCTTATAATTGATTTGAAGTTGAAGTTTTTTA
18063 TATTTTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 3 0.06
65 51 0.94
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.50
Consensus pattern (65 bp):
TTATAACTCGCTTTAAATAGTTTGATAATCTTATAATTGATTTGAAGTTGAAGTTTTTTAAAGCT
Found at i:18336 original size:171 final size:167
Alignment explanation
Indices: 18104--18558 Score: 416
Period size: 171 Copynumber: 2.7 Consensus size: 167
18094 GTCTACCTTG
* * * *
18104 AGAAACGTGAAGAAAAAGATATTCATTGGCAAGAATACTGT-ATTTATAGCCACAC-ATGCCTTC
1 AGAAACGTGAAGAGAAAGATATTCATTGGCAAGAAAAGT-TCATTTATAGTCAC-CTATGCCTTC
* * ******
18167 AAAAGCCTTATTAATCGATTTAAATGGTTTTATAATCTCATAATTGACTTTAGNNNNNNNNNNTT
64 AAAAGACTTATTACTCGATTTAAATGGTTTTATAATCTCATAATTGACTTTAG----GTTGAATT
* *
18232 TTTCATTTTTAGTTAAAACCAATTATAATT-CAATCTCTCTTAA
125 TTTCATTTTTAGTTAAAACCAATTATAATTAAAATCTAT-TTAA
* * *
18275 AGAAACGTGAAGAGAAAGATATTCATTGGTAAGAAAAGTTCATCTATAGTCACCTATGCCTTCGA
1 AGAAACGTGAAGAGAAAGATATTCATTGGCAAGAAAAGTTCATTTATAGTCACCTATGCCTTCAA
********** * * * **
18340 NNNNNNNNNNACTC-ACTTTAAATGATTTTATAATTTCATAATTGACTTGAGGTTGAATTTTTTT
66 AAGACTTATTACTCGA-TTTAAATGGTTTTATAATCTCATAATTGACTTTAGGTTGAATTTTTCA
18404 TTTTTAGTTAAAACCAATTATAATTAAAAATCTATTTAA
130 TTTTTAGTTAAAACCAATTATAATT-AAAATCTATTTAA
* * * * * * *
18443 AGAAATGTGAAG-GAAAAGATATTCATTGGCAAGAAAAGTCCATTTATATTTACTTTTGCCTTTA
1 AGAAACGTGAAGAG-AAAGATATTCATTGGCAAGAAAAGTTCATTTATAGTCACCTATGCCTTCA
*
18507 AAAGACTTATTACTCGCTTTAAATGGTTTTTATAATCTCATAATTGACTTTA
65 AAAGACTTATTACTCGATTTAAATGG-TTTTATAATCTCATAATTGACTTTA
18559 AGATGAGTTT
Statistics
Matches: 221, Mismatches: 55, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
167 31 0.14
168 69 0.31
169 29 0.13
170 3 0.01
171 89 0.40
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.36
Consensus pattern (167 bp):
AGAAACGTGAAGAGAAAGATATTCATTGGCAAGAAAAGTTCATTTATAGTCACCTATGCCTTCAA
AAGACTTATTACTCGATTTAAATGGTTTTATAATCTCATAATTGACTTTAGGTTGAATTTTTCAT
TTTTAGTTAAAACCAATTATAATTAAAATCTATTTAA
Found at i:20605 original size:65 final size:65
Alignment explanation
Indices: 20523--20655 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 65
20513 TTCGAAAGCC
* * * * *
20523 TTTAAAAGGCTTATTACTCGCTCTAAATGGTTTTACAATCTTATAATTGACGTTAAG-TTGAATT
1 TTTAAAAGCCTTATTACTCGCTCTAAAAGGTTTGACAATCTTATAATTGACATT-AGCTTAAATT
20587 T
65 T
* * **
20588 TTTAAAAGCCTTATTACTTGCTTTAAAAGGTTTGATTATCTTATAATTGACATTAGCTTAAATTT
1 TTTAAAAGCCTTATTACTCGCTCTAAAAGGTTTGACAATCTTATAATTGACATTAGCTTAAATTT
20653 TTT
1 TTT
20656 TTATTTTTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 2 0.03
65 56 0.97
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (65 bp):
TTTAAAAGCCTTATTACTCGCTCTAAAAGGTTTGACAATCTTATAATTGACATTAGCTTAAATTT
Found at i:21872 original size:170 final size:169
Alignment explanation
Indices: 21588--21984 Score: 453
Period size: 170 Copynumber: 2.3 Consensus size: 169
21578 NNNNNNNNNN
* ** * * *
21588 AAAGCCTTATTACTCGTTTTAAATGG-TTTGATAATCTGATAGTTGA-TTTGAAGTTGAATTTTT
1 AAAGACTTATTACTCACTTTAAATGGTTTTG-TAATCTTATAATTGACTTT-AAGTTG-ACTTTT
* *
21651 TTTTATTTTTTATTAAAACAAATTATAATTGAATGTCTACCTCAAAAACGTGAAGAAAAAGAT-A
63 TTTTATTTTTGATTAAAACAAATTATAATTGAACGTCTACCTCAAAAACGTGAAGAAAAAG-TCA
* **
21715 TTCATTGGCAAGAAAAGTTAATTTATTGTCACCCATACCTACA
127 TTCATTGGCAAGAAAAGTCAATTTACAGTCACCCATACCTACA
* * * *
21758 AAAGCCTTGTTATTCACTTTAAATGGTTTTGTAAACTTATAATTGACTTTAAGTTGACTTTTTTT
1 AAAGACTTATTACTCACTTTAAATGGTTTTGTAATCTTATAATTGACTTTAAGTTGACTTTTTTT
* * * * *
21823 TATTTTTGGTTAAAACAGATTATAATT-AACGATCTATCTTGAGAAACGTGAAGAAAAAGTCATT
66 TATTTTTGATTAAAACAAATTATAATTGAACG-TCTA-CCTCAAAAACGTGAAGAAAAAGTCATT
* * * * *
21887 CATTGGTAAGAAAAGTCCATTTACAGTCACCCATGCCTTCG
129 CATTGGCAAGAAAAGTCAATTTACAGTCACCCATACCTACA
* *
21928 AAAGACTTATTACTCGCTTTAAATGATTTTCG-AATCTTATAATTGACTTTAAGTTGA
1 AAAGACTTATTACTCACTTTAAATGGTTTT-GTAATCTTATAATTGACTTTAAGTTGA
21985 ATATTTTTAA
Statistics
Matches: 192, Mismatches: 29, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
168 3 0.02
169 37 0.19
170 144 0.75
171 8 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.39
Consensus pattern (169 bp):
AAAGACTTATTACTCACTTTAAATGGTTTTGTAATCTTATAATTGACTTTAAGTTGACTTTTTTT
TATTTTTGATTAAAACAAATTATAATTGAACGTCTACCTCAAAAACGTGAAGAAAAAGTCATTCA
TTGGCAAGAAAAGTCAATTTACAGTCACCCATACCTACA
Found at i:22769 original size:171 final size:170
Alignment explanation
Indices: 22246--23488 Score: 739
Period size: 171 Copynumber: 7.3 Consensus size: 170
22236 NNNNNNNNNN
* * * * * *
22246 GACATTCAATTATAATATGTTTTAATAAAAA-ATAAAAAAAATTCAACTTCAAATTAGTTATCAG
1 GACAATCAATTATAATCTGTTTTAAAAAAAATATAAAAAAAATTCAACTT-AAATCAATTATGAG
* * * **
22310 ATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATATGTGACTATAAATGGACTTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTT
* * * * *
22375 TCTTGCCAATGAATATTTTTTTCTTCACGTTTCTTTAGG-A
130 TATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * * ** *********
22415 AAGATTGAATTATAAT-TGATTTTTACTAAAAATGA-AAAAAAAATTCANNNNNNNNNNAATTAT
1 GACAATCAATTATAATCTG--TTTTAAAAAAAAT-ATAAAAAAAATTCA-ACTTAAATCAATTAT
* * * * * * * ********** *
22478 GAGATTATAAAACCATTGAAAGTGAATAATAAGTCTTTCGAAGGCATAGGNNNNNNNNNNTAGAC
62 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGAC
* * * * *
22543 TTTTCTTACCAATAAATATATTTTTCATCATA-TTTC-CAAGGGTA
127 TTTTATTACCAATGAATATCTTTTTCTTCA-AGTTTCTTAA-GGTA
* * * * *
22587 GACATTCAATTATAATTTGTTCTAAAAAAAATATAAAAAAAATTCAATTTCAAATTAATTATGAG
1 GACAATCAATTATAATCTGTTTTAAAAAAAATATAAAAAAAATTCAACTT-AAATCAATTATGAG
* * **
22652 ATTATTAAGCCATTTAAAGCGAGTAATAAGGCTTTTGAAGACATGGGTGACTATAAATGGA-TTG
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTT-
* * * * *
22716 TTATTGCCAGTGAATATCTTTTTTTTCACGTTTCTTAAGATA
129 TTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * * **
22758 GACAATCAATTATAATATGTTTTAATAAAAA-ATAAAAAAAATTCAACTTCAAATCAGTTCTCTG
1 GACAATCAATTATAATCTGTTTTAAAAAAAATATAAAAAAAATTCAACTT-AAATCAATTATGAG
* * * *
22822 ATTATCAAAGCATTTAAAGCGAGTAATAAGG-TTTTAGAAGGTATGAGTGATTATAAATGGACTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT-GAAGGTATGGGTGACTATAAATGGACTT
* * * * *
22886 TTCTTACCAATGAATAACTTTTTCTTCAAGTTTCTCATGGCA
129 TTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * *** * *
22928 GACCATTAATTATAATCTGTTTTTGCCAAAAAT-GAAAAAAAA-TAAACTTAAAGTCAATTATGA
1 GACAATCAATTATAATCTG-TTTTAAAAAAAATATAAAAAAAATTCAACTTAAA-TCAATTATGA
* * ** *
22991 -ATTTATAAAACCTTTTAAAACGAGTAACGAGCCTTTTGAAGGTATGGGTGACTATAAATGGACT
64 GA-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACT
* * *
23055 TTTATTCCCAAT-TATCATCTTTTTCTTCTTA-TTTCTTAAGGTA
128 TTTATTACCAATGAAT-ATCTTTTTCTTC-AAGTTTCTTAAGGTA
* * * * * * * *
23098 GGCATTCAATTTTAATCTGTTTTAATAGAAAATGT-AAAAAAATTCAAATTTAAATCAATAAAGA
1 GACAATCAATTATAATCTGTTTTAA-AAAAAATATAAAAAAAATTC-AACTTAAATCAATTATGA
* * * *
23162 GATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAGGGCTTAT--GTGGCAATAAATAGG-
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG--TATGGGTGACTATAAAT-GGA
* ** * * * * * *
23224 CTTTT-TTGCCAATGAATGGCTTTTACTTTAGGTTTTTTCAGGAA
126 CTTTTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * * * * * *********
23268 GACATTCAATTGTAATATGTTTGAACCAAAAAT-TTAAAAAAACTCAACTTAAAGTNNNNNNNNN
1 GACAATCAATTATAATCTGTTTTAA-AAAAAATATAAAAAAAATTCAACTTAAA-TCAATTATGA
* * * ** *
23332 NATTATAAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATATGTGACTATAAATAGACT
64 GATTAT-AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACT
* * * * * *
23397 TTTCTTGCCAATGAATATCTTTTTCTTTACGTTACTTTAGGTA
128 TTTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * *
23440 GACATTTAATTATAAT-TGGTTTTAACTAAAAATGA-AAAAAAAATTCAAC
1 GACAATCAATTATAATCT-GTTTTAA-AAAAAAT-ATAAAAAAAATTCAAC
23489 CTNNNNNNNN
Statistics
Matches: 815, Mismatches: 216, Indels: 82
0.73 0.19 0.07
Matches are distributed among these distances:
168 2 0.00
169 37 0.05
170 321 0.39
171 353 0.43
172 85 0.10
173 17 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
GACAATCAATTATAATCTGTTTTAAAAAAAATATAAAAAAAATTCAACTTAAATCAATTATGAGA
TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTT
ATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
Found at i:22838 original size:170 final size:170
Alignment explanation
Indices: 22246--23488 Score: 730
Period size: 170 Copynumber: 7.3 Consensus size: 170
22236 NNNNNNNNNN
* * * * *
22246 GACATTCAATTATAATATGTTTTAATAAAAAAT-AAAAAAAATTCAACTTCAAATTAGTTATCAG
1 GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAATCAATTATGAG
* * * **
22310 ATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATATGTGACTATAAATGGACTTT
66 ATTATAAAGC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTT
* * * * *
22375 TCTTGCCAATGAATATTTTTTTCTTCACGTTTCTTTAGG-A
130 TATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * * * **********
22415 AAGATTGAATTATAAT-TGATTTTTACT-AAAAATGAAAAAAAAATTCANNNNNNNNNNAATTAT
1 GACAATCAATTATAATCTG--TTTTAATAAAAAATG-AAAAAAAATTCAACTTCAAATCAATTAT
* * * * * * * * ********** *
22478 GAGATTATAAAACCATTGAAAGTGAATAATAAGTCTTTCGAAGGCATAGGNNNNNNNNNNTAGAC
63 GAGATTAT-AAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGAC
* * * * *
22543 TTTTCTTACCAATAAATATATTTTTCATCATA-TTTC-CAAGGGTA
127 TTTTATTACCAATGAATATCTTTTTCTTCA-AGTTTCTTAA-GGTA
* * * * * *
22587 GACATTCAATTATAATTTGTTCTAA-AAAAAATATAAAAAAAATTCAATTTCAAATTAATTATGA
1 GACAATCAATTATAATCTGTTTTAATAAAAAAT-GAAAAAAAATTCAACTTCAAATCAATTATGA
* **
22651 GATTATTAAGCCATTTAAAGCGAGTAATAAGGCTTTTGAAGACATGGGTGACTATAAATGGA-TT
65 GATTATAAAG-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTT
* * * * *
22715 GTTATTGCCAGTGAATATCTTTTTTTTCACGTTTCTTAAGATA
129 -TTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * **
22758 GACAATCAATTATAATATGTTTTAATAAAAAAT-AAAAAAAATTCAACTTCAAATCAGTTCTCTG
1 GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAATCAATTATGAG
* *
22822 ATTATCAAAGCATTTAAAGCGAGTAATAAGG-TTTTAGAAGGTATGAGTGATTATAAATGGACTT
66 ATTAT-AAAGCATTTAAAGCGAGTAATAAGGCTTTT-GAAGGTATGGGTGACTATAAATGGACTT
* * * * *
22886 TTCTTACCAATGAATAACTTTTTCTTCAAGTTTCTCATGGCA
129 TTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * **** *
22928 GACCATTAATTATAATCTGTTTTTGCCAAAAATGAAAAAAAA-TAAACTT-AAAGTCAATTATGA
1 GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAA-TCAATTATGA
* * * ** *
22991 -ATTTATAAAACCTTTTAAAACGAGTAACGAGCCTTTTGAAGGTATGGGTGACTATAAATGGACT
65 GA-TTAT-AAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACT
* * *
23055 TTTATTCCCAAT-TATCATCTTTTTCTTCTTA-TTTCTTAAGGTA
128 TTTATTACCAATGAAT-ATCTTTTTCTTC-AAGTTTCTTAAGGTA
* * * * * * * * *
23098 GGCATTCAATTTTAATCTGTTTTAATAGAAAATGTAAAAAAATTCAAATTTAAATCAATAAAGAG
1 GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAATCAATTATGAG
* * * *
23163 ATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAGGGCTTAT--GTGGCAATAAATAGG-C
66 ATTATAAAGC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGG--TATGGGTGACTATAAAT-GGAC
* ** * * * * * *
23225 TTTT-TTGCCAATGAATGGCTTTTACTTTAGGTTTTTTCAGGAA
127 TTTTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* * * * ** ** * *********
23268 GACATTCAATTGTAATATGTTTGAACCAAAAATTTAAAAAAACTCAACTT-AAAGTNNNNNNNNN
1 GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAA-TCAATTATGA
* * * * ** *
23332 NATTATAAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATATGTGACTATAAATAGACT
65 GATTAT--AAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACT
* * * * * *
23397 TTTCTTGCCAATGAATATCTTTTTCTTTACGTTACTTTAGGTA
128 TTTATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
* *
23440 GACATTTAATTATAAT-TGGTTTTAACT-AAAAATGAAAAAAAAATTCAAC
1 GACAATCAATTATAATCT-GTTTTAA-TAAAAAATG-AAAAAAAATTCAAC
23489 CTNNNNNNNN
Statistics
Matches: 812, Mismatches: 218, Indels: 84
0.73 0.20 0.08
Matches are distributed among these distances:
168 2 0.00
169 34 0.04
170 337 0.42
171 328 0.40
172 94 0.12
173 17 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
GACAATCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTCAAATCAATTATGAG
ATTATAAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTT
ATTACCAATGAATATCTTTTTCTTCAAGTTTCTTAAGGTA
Found at i:25095 original size:172 final size:171
Alignment explanation
Indices: 24853--25279 Score: 457
Period size: 172 Copynumber: 2.5 Consensus size: 171
24843 NNNNAATAAA
* * * * * *
24853 GAGATTATAAAACCATTTAAAGCGAGTGATAAGGCTTTTGAGGGCTTCGATGGCAA-TAAAT-AA
1 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGT-G-AATTAAATGGA
* * * * *
24916 GCTTTTCTTGCCAAGGAATGGCTTTTTCTTTAGGTTTCTTCAGGAAGACATTCAACTGTAATATG
64 -CTTTTCTTGCCAATGAATAGCTTTTTCTTCACGTTTCTTCAGGAAGACATTCAACTATAAT-TG
*** **
24981 -TTTGAACCAAAAAT-TTTAAAAAACTCAATTTAAAGTCAATTAT
127 ATTTGAACCAAAAATGAAAAAAAAACTCAACCTAAAGTCAATTAT
* *
25024 GAGATTAGAAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGCATAGGTGAATCTAAATGGA
1 GAGATTA-TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGAAT-TAAATGGA
* ** * * *
25089 CTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCTTTGGGTAGACATTTAATTATAATTGAT
64 CTTTTCTTGCCAATGAATAGCTTTTTCTTCACGTTTCTTCAGGAAGACATTCAACTATAATTGAT
* * * *
25154 TTTAACTAAAACTGAAAAAAAAATTCAACCTAAAGTCAATTAT
129 TTGAACCAAAAATGAAAAAAAAACTCAACCTAAAGTCAATTAT
* * * * * *
25197 GAGATTATAAATCCATTTAAAGTGAGTAATAAGTCTTTCGAAGGCATAGGTGACTATAGATGGAC
1 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGAAT-TAAATGGAC
25262 TTTTCTTGCCAATGAATA
65 TTTTCTTGCCAATGAATA
25280 TNNNNNNNNN
Statistics
Matches: 213, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
170 2 0.01
171 10 0.05
172 170 0.80
173 31 0.15
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (171 bp):
GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGAATTAAATGGACT
TTTCTTGCCAATGAATAGCTTTTTCTTCACGTTTCTTCAGGAAGACATTCAACTATAATTGATTT
GAACCAAAAATGAAAAAAAAACTCAACCTAAAGTCAATTAT
Found at i:25646 original size:170 final size:168
Alignment explanation
Indices: 25351--25905 Score: 413
Period size: 170 Copynumber: 3.2 Consensus size: 168
25341 NNNNNNNNNN
* * * * * * *
25351 TATGAGATTATAAAACCATTTAAAGTGAGCAATAAGTCTTTCGAAGGCATAGGT-AACTATAGAT
1 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGTCCACTATAAAT
* * * * ** * * ** *
25415 AGACTTTTCTTACCAATAAATATCT-TTTTCTTCATATTT-TCAGGGGTAGACTTTCAATTATAA
65 AAACTATTCTTGCCAATGAATA-CTATTTTCTTCACGTTTCTCA-AGGTAAAAATTGAATTATAA
* *
25478 TCTGTTCTAA-AATAAATGTAAAAAAATTCAATTTTAAATTAAT
128 TCTATT-TAACAA-AAATGTAAAAAAATTCAA-TTCAAATTAAT
* * ********* *
25521 TATGAGATTATTAAACCATTTAAAGCAAGTAATAAGGCTTTNNNNNNNNNNGGT-GACTATAAAT
1 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-TGAAGGAATGGTCCACTATAAAT
* ** *
25585 AAACTTTTCTTGGTAATGAATGACT-TTTTCTTCACGTTTCTCAAGGTAAAAATTTAATTATAAT
65 AAACTATTCTTGCCAATGAAT-ACTATTTTCTTCACGTTTCTCAAGGTAAAAATTGAATTATAAT
* * * *
25649 CTATGTTAACCAAAAAT-AAAAAAAATTCAACTGAAAGTCAAT
129 CTAT-TTAA-CAAAAATGTAAAAAAATTCAATTCAAA-TTAAT
** * *
25691 TATGATCTGATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTCCACTATAAATT
1 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTCCACTATAAATA
* * * ** *
25756 GACTATTCTTGCCAATGAATATTATTTTCTTCATGTTTCTCAAGGTGGACATTGAATTATAATCT
66 AACTATTCTTGCCAATGAATACTATTTTCTTCACGTTTCTCAAGGTAAAAATTGAATTATAATCT
* *
25821 ATTTTAATAAAAAATGTAAAAAAAAAAATCAACTTCAAATTAAT
131 A-TTTAA-CAAAAATGT---AAAAAAATTCAA-TTCAAATTAAT
* * *
25865 TATGAGATTATCAAACTATTTAAAGCGAGTGATAAGGCTTT
1 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
25906 AAAAAATTCA
Statistics
Matches: 298, Mismatches: 72, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
169 9 0.03
170 223 0.75
171 10 0.03
172 2 0.01
174 50 0.17
175 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.35
Consensus pattern (168 bp):
TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTCCACTATAAATA
AACTATTCTTGCCAATGAATACTATTTTCTTCACGTTTCTCAAGGTAAAAATTGAATTATAATCT
ATTTAACAAAAATGTAAAAAAATTCAATTCAAATTAAT
Found at i:25917 original size:64 final size:64
Alignment explanation
Indices: 25842--25969 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 64
25832 AAATGTAAAA
* * * * *
25842 AAAAAAATCAACTTCAAA-TTAATTATGAGATTATCAAACTATTTAAAGCGAGTGATAAGGCTTT
1 AAAAAAATCAACTT-AAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * *
25906 AAAAAATTCAACTTAAAGTCAATTATAAGTTTATAAAACCATTTAAAGCGAGTAATAAGTCTTT
1 AAAAAAATCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
25970 CAAAGGCTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 3 0.05
64 52 0.95
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (64 bp):
AAAAAAATCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
Found at i:26352 original size:171 final size:171
Alignment explanation
Indices: 26017--26491 Score: 444
Period size: 171 Copynumber: 2.8 Consensus size: 171
26007 NNNNNNNNNN
** * * * **
26017 AATGAATGA-CTTTTTCTTCATGTTTCTCAAGGTATACCATTAATTATAATCTATTTTCACCAAA
1 AATGAATGATCTTTTTCTTCACATTTCTCAAGGTAGATCATTAATTATAATCTATTTTAATAAAA
* * * ** * * *
26081 AATGAAAAAAATTCAACTTAA-AGTCAATTATAAGTTTA-CAAAACTATTGAAAGTGAGTAACAA
66 AATAAAAAAAATTCAACTTAATA-TCAACTATCAGAATATCAAAAC-ATTTAAAGCGAGTAATAA
* * ********** *
26144 GGCTTTTGANNNNNNNNNNGACTATAAATTGACTTTTCTTGCT
129 AGCTTTCGAAGGTATGAGTGACTATAAATTGACTTTTCTTGCC
* *
26187 AATGAAT-ATCTTTTTCTTCACATTTCTTGAA-GTAGA-CATTCAATTATAATCTGTTTTAATAA
1 AATGAATGATCTTTTTCTTCACATTTC-TCAAGGTAGATCATT-AATTATAATCTATTTTAATAA
* * * *
26249 AAAATAAAAAAAAATTTAACTTCAA-ATCAGCTATCAGATTATCAAAACATTTAAAGTGAGTAAT
64 AAAAT-AAAAAAAATTCAACTT-AATATCAACTATCAGAATATCAAAACATTTAAAGCGAGTAAT
26313 AAAGCTTTCGAAGGTATGAGTGACTATAAA-TGAACTTTTCTTGCC
127 AAAGCTTTCGAAGGTATGAGTGACTATAAATTG-ACTTTTCTTGCC
* * *
26358 AATGAATGATTTTTTTCTTCACGTTTCTCAAGGTAGATCATTAATTATAATCTATTTTAATCAAA
1 AATGAATGATCTTTTTCTTCACATTTCTCAAGGTAGATCATTAATTATAATCTATTTTAATAAAA
* * * * * *
26423 AATGAAAAAAATTCAACTTAATGTCAATTATGAGAATATCAAACCATTTAAAGCGAGTAATAAGG
66 AATAAAAAAAATTCAACTTAATATCAACTATCAGAATATCAAAACATTTAAAGCGAGTAATAAAG
26488 CTTT
131 CTTT
26492 AAAAAAATTC
Statistics
Matches: 250, Mismatches: 44, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
169 5 0.02
170 52 0.21
171 134 0.54
172 55 0.22
173 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (171 bp):
AATGAATGATCTTTTTCTTCACATTTCTCAAGGTAGATCATTAATTATAATCTATTTTAATAAAA
AATAAAAAAAATTCAACTTAATATCAACTATCAGAATATCAAAACATTTAAAGCGAGTAATAAAG
CTTTCGAAGGTATGAGTGACTATAAATTGACTTTTCTTGCC
Found at i:26537 original size:65 final size:65
Alignment explanation
Indices: 26427--26556 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
26417 ATCAAAAATG
* * *
26427 AAAAAAATTCAACTTAATGTCAATTATGAGAATATCAAACCATTTAAAGCGAGTAATAAGGCTTT
1 AAAAAAATTCAACTTAAAGTCAATTATAAGAATATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * ** * *
26492 AAAAAAATTCAACTTAAAGTCAATTATAAGATTCTAAAAGTATTTAGAGCGAGTAATAAGTCTTT
1 AAAAAAATTCAACTTAAAGTCAATTATAAGAATATAAAACCATTTAAAGCGAGTAATAAGGCTTT
26557 TAAAGGCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (65 bp):
AAAAAAATTCAACTTAAAGTCAATTATAAGAATATAAAACCATTTAAAGCGAGTAATAAGGCTTT
Found at i:26793 original size:587 final size:581
Alignment explanation
Indices: 25572--26759 Score: 1376
Period size: 587 Copynumber: 2.0 Consensus size: 581
25562 NNNNNNNNNN
** * * * *
25572 GGTGACTATAAATAAACTTTTCTTGGTAATGAATGA-CTTTTTCTTCACGTTTC-TCAAGGTAAA
1 GGTGACTATAAATTGACTTTTCTTGCTAATGAAT-ATCTTTTTCTTCACATTTCTTGAA-GTAGA
* * * * ** * * **
25635 AATTTAATTATAATCTATGTTAACCAAAAAT-AAAAAAAATTCAAC-TGAAAGTCAATTAT--GA
64 CATTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAAATTTAACTTCAAA-TCAGCTATCAGA
* *
25696 TCTGAT-AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTCCACTATAAATTGACT
128 T-T-ATCAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATGGTCCACTATAAATTGACT
* *
25760 ATTCTTGCCAATGAATATTATTTTCTTCATGTTTCTCAAGGTGGACATTGAATTATAATCTATTT
191 ATTCTTGCCAATGAATATTATTTTCTTCACGTTTCTCAAGGTAGACATTGAATTATAATCTATTT
* *
25825 TAATAAAAAATGTAAAAAAAAAAATCAACTTCAAATTAATTATGAGATTATCAAACTATTTAAAG
256 TAATAAAAAATG---AAAAAAAAATCAACTT-AAATTAATTATGAGAATATCAAACCATTTAAAG
* *
25890 CGAGTGATAAGGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGTTTATAAAACCATTTAAAGC
317 CGAGTAATAAGGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGC
* *****
25955 GAGTAATAAGTCTTTCAAAGGCTTTCGAAGGCATGGGTAACTATAAATGGACNNNNNNNNNNAAT
382 GAGTAATAAGTCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGAC-----TTTTCAAT
* * * *
26020 GAATGACTTTTTCTTCATGTTTCTCAAGGTATACCATTAATTATAATCTATTTTCACCAAAAATG
442 GAATGACTTTTTCTTCATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAATA
* * *
26085 AAAAAAATTCAACTTAAAGTCAATTATAAGTTTACAAAACTATTGAAAGTGAGTAACAAGGCTTT
507 AAAAAAATTCAACCTAAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTTT
* *******
26150 TGANNNNNNN
572 TAAAGTTATG
***
26160 NNNGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
1 GGTGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
26225 TTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAAATTTAACTTCAAATCAGCTATCAGATTA
66 TTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAAATTTAACTTCAAATCAGCTATCAGATTA
* * * *
26290 TCAAAA-CATTTAAAGTGAGTAATAAAGCTTTCGAAGGTATGAGT-GACTATAAA-TGAACTTTT
131 TCAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATG-GTCCACTATAAATTG-ACTATT
*
26352 CTTGCCAATGAATGATTTTTTTCTTCACGTTTCTCAAGGTAGATCATT-AATTATAATCTATTTT
194 CTTGCCAATGAAT-ATTATTTTCTTCACGTTTCTCAAGGTAGA-CATTGAATTATAATCTATTTT
* *
26416 AATCAAAAATG-AAAAAAATTCAACTT-AATGTCAATTATGAGAATATCAAACCATTTAAAGCGA
257 AATAAAAAATGAAAAAAAAATCAACTTAAAT-T-AATTATGAGAATATCAAACCATTTAAAGCGA
* ** *
26479 GTAATAAGGCTTTAAAAAAATTCAACTTAAAGTCAATTATAAGATTCTAAAAGTATTTAGAGCGA
320 GTAATAAGGCTTT-AAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGA
* * *****
26544 GTAATAAGTCTTTTAAAGGCTTTCGAAGCCATGGGTGACTATAAATGGACTTTTCNNNNNNNNNN
384 GTAATAAGTCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGACTTTTC-----AATGA
* * * *
26609 ATGACTTTTTCTTCATGTTTCTCAAGATCGACCGTTAATTATAATCTGTTTTAACTAAAAATAAA
444 ATGACTTTTTCTTCATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAATAAA
** * * *
26674 AAAAATTCAACCTAAAGTCAATTATGCGTTTATAAAACCATTTAGAGCGAGTAACAAGGCTTTTA
509 AAAAATTCAACCTAAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTTTTA
26739 AAGTTATG
574 AAGTTATG
26747 GGTGACTATAAAT
1 GGTGACTATAAAT
26760 GAACTTNNNN
Statistics
Matches: 503, Mismatches: 78, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
584 3 0.01
585 1 0.00
586 55 0.11
587 218 0.43
588 75 0.15
589 81 0.16
590 63 0.13
591 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.34
Consensus pattern (581 bp):
GGTGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
TTCAATTATAATCTGTTTTAATAAAAAATAAAAAAAAATTTAACTTCAAATCAGCTATCAGATTA
TCAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATGGTCCACTATAAATTGACTATTCT
TGCCAATGAATATTATTTTCTTCACGTTTCTCAAGGTAGACATTGAATTATAATCTATTTTAATA
AAAAATGAAAAAAAAATCAACTTAAATTAATTATGAGAATATCAAACCATTTAAAGCGAGTAATA
AGGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAA
GTCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGACTTTTCAATGAATGACTTTTTCT
TCATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAATAAAAAAAATTCAACC
TAAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTTTTAAAGTTATG
Found at i:26816 original size:587 final size:580
Alignment explanation
Indices: 25572--26907 Score: 1362
Period size: 587 Copynumber: 2.3 Consensus size: 580
25562 NNNNNNNNNN
** * * * *
25572 GGTGACTATAAATAAACTTTTCTTGGTAATGAATGA-CTTTTTCTTCACGTTTC-TCAAGGTAAA
1 GGTGACTATAAATTGACTTTTCTTGCTAATGAAT-ATCTTTTTCTTCACATTTCTTGAA-GTAGA
* * * * * * **
25635 AATTTAATTATAATCTATGTTAACCA-AAAAT-AAAAAAAATTC-AACTGAAAGTCAATTAT--G
64 CATTCAATTATAATCTGT-TTAA-AAGAAAATAAAAAAAAATTCAAATTCAAA-TCAGCTATCAG
* *
25695 ATCTGAT-AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTCCACTATAAATTGAC
126 AT-T-ATCAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATGGTCCACTATAAATTGAC
* *
25759 TATTCTTGCCAATGAATATTATTTTCTTCATGTTTCTCAAGGTGGACATTGAATTATAATCTATT
189 TATTCTTGCCAATGAATATTATTTTCTTCACGTTTCTCAAGGTAGACATTGAATTATAATCTATT
* *
25824 TTAATAAAAAATGTAAAAAAAAAAATCAACTTCAAATTAATTATGAGATTATCAAACTATTTAAA
254 TTAATAAAAAATG---AAAAAAAAATCAACTT-AAATTAATTATGAGAATATCAAACCATTTAAA
* *
25889 GCGAGTGATAAGGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGTTTATAAAACCATTTAAAG
315 GCGAGTAATAAGGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAG
* *****
25954 CGAGTAATAAGTCTTTCAAAGGCTTTCGAAGGCATGGGTAACTATAAATGGACNNNNNNNNNNAA
380 CGAGTAATAAGTCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGAC-----TTTTCAA
* * *
26019 TGAATGACTTTTTCTTCATGTTTCTCAAGGTATACCATTAATTATAATCTATTTTCACCAAAAAT
440 TGAATGACTTTTTCTTCATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAAT
* * * *
26084 GAAAAAAATTCAACTTAAAGTCAATTATAAGTTTACAAAACTATTGAAAGTGAGTAACAAGGCTT
505 AAAAAAAATTCAACCTAAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTT
* *******
26149 TTGANNNNNNN
570 TTAAAGTTATG
***
26160 NNNGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
1 GGTGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
* *
26225 TTCAATTATAATCTGTTTTAATAA-AAAATAAAAAAAAATTTAACTTCAAATCAGCTATCAGATT
66 TTCAATTATAATCTG-TTTAA-AAGAAAATAAAAAAAAATTCAAATTCAAATCAGCTATCAGATT
* * * *
26289 ATCAAAA-CATTTAAAGTGAGTAATAAAGCTTTCGAAGGTATGAGT-GACTATAAA-TGAACTTT
129 ATCAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATG-GTCCACTATAAATTG-ACTAT
*
26351 TCTTGCCAATGAATGATTTTTTTCTTCACGTTTCTCAAGGTAGATCATT-AATTATAATCTATTT
192 TCTTGCCAATGAAT-ATTATTTTCTTCACGTTTCTCAAGGTAGA-CATTGAATTATAATCTATTT
* *
26415 TAATCAAAAATG-AAAAAAATTCAACTT-AATGTCAATTATGAGAATATCAAACCATTTAAAGCG
255 TAATAAAAAATGAAAAAAAAATCAACTTAAAT-T-AATTATGAGAATATCAAACCATTTAAAGCG
* ** *
26478 AGTAATAAGGCTTTAAAAAAATTCAACTTAAAGTCAATTATAAGATTCTAAAAGTATTTAGAGCG
318 AGTAATAAGGCTTT-AAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCG
* * ****
26543 AGTAATAAGTCTTTTAAAGGCTTTCGAAGCCATGGGTGACTATAAATGGACTTTTCNNNNNNNNN
382 AGTAATAAGTCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGACTTTTC-----AATG
* * * * *
26608 NATGACTTTTTCTTCATGTTTCTCAAGATCGACCGTTAATTATAATCTGTTTTAACTAAAAATAA
442 AATGACTTTTTCTTCATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAATAA
** * * *
26673 AAAAAATTCAACCTAAAGTCAATTATGCGTTTATAAAACCATTTAGAGCGAGTAACAAGGCTTTT
507 AAAAAATTCAACCTAAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTTTT
26738 AAAGTTATG
572 AAAGTTATG
********** ** * *
26747 GGTGACTATAAA-TGAACTTNNNNNNNNNNTGAATATCTTTTTCTTCATGTTTGTTGAGGTCAG-
1 GGTGACTATAAATTG-ACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGT-AGA
** * **
26810 CATTCAATTATAATCTGTTTAAAAGAAAATGTAAAAAAATTCAAATTCAAATCA-ATAAAGAGAT
64 CATTCAATTATAATCTGTTTAAAAGAAAATAAAAAAAAATTCAAATTCAAATCAGCT-ATCAGAT
*
26874 TAT-AAAACCATTTTAAAGGCGAGT-ATAAGGCTTT
128 TATCAAAACCA-TTTAAA-GCGAGTAATAAAGCTTT
26908 TTGAGGGCTT
Statistics
Matches: 619, Mismatches: 102, Indels: 55
0.80 0.13 0.07
Matches are distributed among these distances:
584 3 0.00
585 8 0.01
586 97 0.16
587 280 0.45
588 81 0.13
589 79 0.13
590 64 0.10
591 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.34
Consensus pattern (580 bp):
GGTGACTATAAATTGACTTTTCTTGCTAATGAATATCTTTTTCTTCACATTTCTTGAAGTAGACA
TTCAATTATAATCTGTTTAAAAGAAAATAAAAAAAAATTCAAATTCAAATCAGCTATCAGATTAT
CAAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGGAATGGTCCACTATAAATTGACTATTCTT
GCCAATGAATATTATTTTCTTCACGTTTCTCAAGGTAGACATTGAATTATAATCTATTTTAATAA
AAAATGAAAAAAAAATCAACTTAAATTAATTATGAGAATATCAAACCATTTAAAGCGAGTAATAA
GGCTTTAAAAAATTCAACTTAAAGTCAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAG
TCTTTCAAAGGCTTTCGAAGCCATGGGTAACTATAAATGGACTTTTCAATGAATGACTTTTTCTT
CATGTTTCTCAAGATAGACCATTAATTATAATCTATTTTAACCAAAAATAAAAAAAATTCAACCT
AAAGTCAATTATAAGTTTACAAAACCATTGAAAGCGAGTAACAAGGCTTTTAAAGTTATG
Found at i:27707 original size:170 final size:170
Alignment explanation
Indices: 26613--27743 Score: 679
Period size: 170 Copynumber: 6.6 Consensus size: 170
26603 NNNNNNATGA
* * * **
26613 CTTTTTCTTCATGTTTCTCAAGATCGACCGTT-AATTATAATCTGTTTTAACT-AAAAATAAAAA
1 CTTTTTCTTCATGTTTCTCAAGGTAGA-CATTCAATTATAATCTGTTTTAA-TAAAAAATGTAAA
* * * * * *
26676 AAATTCAACCTAAAGTCAATTATGCGTTTATAAAACCATTTAGAGCGAGTAACAAGGCTTTTAAA
64 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTAAA
** * * *********
26741 GTTATGGGTGACTATAAATGAACT-TNNNNNNNNNNTGAATAT
129 GGCATAGGTGACTATAAATGGACTAT-TTTTTCTAATGAATAT
* **
26783 CTTTTTCTTCATGTTTGTTGAGGTCAG-CATTCAATTATAATCTG-TTTAA-AAGAAAATGTAAA
1 CTTTTTCTTCATGTTTCTCAAGGT-AGACATTCAATTATAATCTGTTTTAATAA-AAAATGT-AA
* * * *
26845 AAAATTCAAATTCAAA-TCAATAAAGAGATTATAAAACCATTTTAAAGGCGAGT-ATAAGGCTTT
63 AAAATTCAACTT-AAAGTCAATTATGAGATTATAAAACCA-TTTAAA-GCGAGTAATAAGAC-TT
* * * * * * * * *
26908 TTGAGGGCTTTAGTTGGCAATGAATAGG-CT-TTCTTGC-AATG-ATGAT
124 TTAAAGGC-ATAGGTGACTATAAAT-GGACTATTTTTTCTAATGAAT-AT
* * * * * * * **
26954 -TTTTCTTTTTAGGTTTTTC-A-G-AGAACATTCAACTGTAATATG-TTTAACTAAAATTAA-AA
1 CTTTT-TCTTCATGTTTCTCAAGGTAG-ACATTCAATTATAATCTGTTTTAA-TAAAA--AATGT
* * * * *
27013 AAAAAACTCTACGTAAAGTCAATTATGCAGA-TATAAAACTATTTAAAGCGAGTAATAAGGCTTT
61 AAAAAATTCAACTTAAAGTCAATTATG-AGATTATAAAACCATTTAAAGCGAGTAATAAGACTTT
* *
27077 TAAAGCCATAGGTGACTATAAATGGACT-TTTCTTTCCAATGAATAT
125 TAAAGGCATAGGTGACTATAAATGGACTATTT-TTTCTAATGAATAT
* ** * * *
27123 CTTTTTCTTCATATTTCTTTAGGTAGACATTTAATTATAAT-TGGTTTTAGCT-AAAAATGAAAA
1 CTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCT-GTTTTA-ATAAAAAATG--TA
* ********** * *
27186 AAAAATTCAACCTAAAGTCANNNNNNNNNNTATAAAACCATTTAAAGTGAGTAATAAGTCTTTCT
62 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTT-T
* *
27251 -AAGGCATTA-GTGACTATAGAA-AGAC-ATTTTTTACTAATAAATAT
126 AAAGGCA-TAGGTGACTATA-AATGGACTATTTTTT-CTAATGAATAT
*
27295 CTTTTTCTTCATGTTT-TCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAA
1 CTTTTTCTTCATGTTTCTCA-AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAA
* * * * * *
27359 ACATTTAATTTCAAA-TTAATTATGGGATTATTAAACCATTTAAAGCGAGTAATAA-AGCTTTCA
65 A-ATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGA-CTTTTA
* * * * * **
27422 AACGCATAGGTGACTATAAATTGACTGTTCTTGCTAATGAATGG
127 AAGGCATAGGTGACTATAAATGGACTATTTTTTCTAATGAATAT
* * * * *********
27466 C-TTTTCTTCACGTTTCTCAAGGTAAAAATTGAATTATAATCTGTTTTAACTAAAANNNNNNNNN
1 CTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAATGTAAAA
* * * * * *
27530 NATTCAACTTAAAGTCAATTATAAGCTTATAAAATCATTTAAAGCGAGTAATACGACTTTTGAAG
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTAAAG
* *
27595 GCATGGGCGACTATAAATGGACTATTTTTGT-TAATGAATAT
130 GCATAGGTGACTATAAATGGACTATTTTT-TCTAATGAATAT
* * *
27636 CTTTTTCTTCATGTTTCTCAAGGTGGACATTCAATTATAATATGTTTGAATAAAAAATGTAAAAA
1 CTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAA
*
27701 ATTCAACTTCAAA-TCAATTATGAGATTATCAAACCATTTAAAG
66 ATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTTAAAG
27744 TAGGTAATAA
Statistics
Matches: 721, Mismatches: 181, Indels: 118
0.71 0.18 0.12
Matches are distributed among these distances:
166 2 0.00
167 17 0.02
168 17 0.02
169 68 0.09
170 274 0.38
171 169 0.23
172 154 0.21
173 19 0.03
174 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
CTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAA
ATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTAAAGG
CATAGGTGACTATAAATGGACTATTTTTTCTAATGAATAT
Found at i:29231 original size:170 final size:170
Alignment explanation
Indices: 28307--30436 Score: 1201
Period size: 171 Copynumber: 12.5 Consensus size: 170
28297 NNNNNNNNNN
* * *
28307 AAGCGAGTAATAAGGCTTTTGAAGGGATAGGTGGCTATAAATGAACTTTTCTTGCCAATGAATAT
1 AAGCGAGTAATAAGGC-TTTGAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATAT
* ********** * * * *
28372 CTTTTTCTTCACGNNNNNNNNNNTAGACATTCAATTATAATCTATTTTAATGAAAAATA-AAAAG
65 ATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAAA
* * * * * *
28436 AATTCAAATTCAAATCAGTTATCATATTATAAAACCA-TTA
130 AATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
* * * * * *
28476 AAGCGAGTAATGAGGCTTTGGAAGGCTTAGGAGACTATAAAT-AAGCTTTTCTTGCCAATGAGTG
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAGGTGACTATAAATGAA-CTTTTCTTACCAATGAATA
* * * * * * * * * * * *
28540 TGTTTTTCTTTAGGTTTCCTTAGGCAGACAATCAACTGTAATCTGTTTTAATGAAAAATATAAAA
64 TATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAA
* ********* * *
28605 AAATTTAAC-TTANNNNNNNNNNTGAGATTATAAATCCATTTA
129 AAATTCAACTTTA-AATCAATTATGAGATTATAAAACTATTTA
* * * * *
28647 AAGTGGGTAATAAGGCTTTTGAAGGCATAAGTGACTATAAAGGAACTTTTCTTGCCAATGAATAT
1 AAGCGAGTAATAAGGC-TTTGAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATAT
* * * ** ** **
28712 ATTTTTCTTCATGTTTCCTGAGGTTAGACATTTAATTATAATTGGTTTTAACCAAAAATGGAAAA
65 ATTTTTCTTCACGTTTCCTGAGG-TAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAA
* * *
28777 AAAATCAGC-TTAAACTTAATTATGAGATTAT-AAACTATTTA
129 AAATTCAACTTTAAA-TCAATTATGAGATTATAAAACTATTTA
* *
28818 AAGTGAGTAATAAGGCTTTGAAAGGCATAGGTGACTATAAATGAACTTTTCTTATCAATGAATAT
1 AAGCGAGTAATAAGGCTTTG-AAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATAT
* * * ** * * * * *
28883 CTTTTTCTTCATGTCTCCCAAGGCAAACATTCAATTATAATCTGTTTTAATAGAAAATGTAAAAA
65 ATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAAA
* ** ********
28948 AATTCAACTTCAAATCAATTATGAGATTACCAANNNNNNNN
130 AATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
** * *
28989 NNGCGAGTAATAAGGCTTTCGAAGGTC-T-GAGTGACTCTAAATGGACTTTTCTTACCAATGAAT
1 AAGCGAGTAATAAGGCTTT-GAAGG-CATAG-GTGACTATAAATGAACTTTTCTTACCAATGAAT
* * * *
29052 GTCTTTTTCTTAACGTTTCCTGAGGTAGACATTCAATTATAATTTATTTTAATAAAAAATAT-AA
63 ATATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAA
*
29116 AAAATTTAACTTTAAATCAATTATGAGATTATAAAACTATTTA
128 AAAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
* ********* * *
29159 AAACGAGTANNNNNNNNNNTGAAGGCATAGGTGACTATAAATGAACTTTTCTTGCCAATTAATAT
1 AAGCGAGTA-ATAAGGCTTTGAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATAT
* * * *
29224 ATTTTTCTTCACGTTTCTTGAGGAAAATATTTAATTATAATTTATTTTAATAAAAAAATATAAAA
65 ATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAAT-AAAAAATATAAAA
* *
29289 AAATTCAACTTTAAATCAATTAAGAGATTATAAAACCATTTA
129 AAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
* * * * * * * * *
29331 AAGCGAGTAATAAGGTTTTAAAAGGCTTGGGTGACTATAAAT-AGGCTTTTCTTGCTAATAAATG
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATA
* * * * * * * * * * ** *
29395 TCA-TTTTCTTTA-GGTTCCTTAGGCAGACACTGAACTGTAATCTGGTTTAATAAAAAATGT-AA
64 T-ATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAA
* **********
29457 AAATTTCAAC-TTAAAGTCAATTATGAGATTANNNNNNNNNNTA
128 AAAATTCAACTTTAAA-TCAATTATGAGATTATAAAACTATTTA
* * * * * *
29500 AAGTGAGCAATAAGGCTTTTGAAGGAATAGGTGACTATAAAT-AGACATTTCTTGCTAATGAATA
1 AAGCGAGTAATAAGGC-TTTGAAGGCATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATA
* * * * * * * * *
29564 TTTTTTTCTTCACGTTTCTTAAGGTAGACATTTAATTATAATCTGTTTTAACAAAAAGTA-AAAA
64 TATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAA
* **********
29628 ACCATTCAAC-TTAAATCAATTATGAGANNNNNNNNNNATTTA
129 A-AATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
* * * * * *
29670 AAGCGAGTAATAAGGCTTTAGAAAGTATAGGTGACTATAAA-CAGGCTTTTCTTGCCAATGAATG
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATA
** * ** * * * * ** * *
29734 GCTTTTTCTTCAGGTTTTTTTAGGTAAACATTCAACTATAATCTGTTTTAACCAAAAGTGTAAAA
64 TATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAA
* * *
29799 AATTTCAAC-TTAAAGTCAATTATGAAATTATAAAAGTATTTA
129 AAATTCAACTTTAAA-TCAATTATGAGATTATAAAACTATTTA
* * *
29841 AAGTGAGTAATAAGGCTTTGGAAGGCATAAGTGACTATAAGT-AGACTTTTCTTACCAATGAATA
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATA
* * * * * * * *
29905 TCTTTTTCTTCATGTTTCCCGGGGTAGACATTCAATTATAATCTATTTTAATAAGAAATGTAAAA
64 TATTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAA
* ** ********
29970 AAATTCAACTTGAAATCAATTATGAGATTACCAANNNNNNNN
129 AAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
** * **
30012 NNGCGAGTAATAAGGCTTTCGAAGGCAT-GCGTGGCTATAAAT-AGACTTGTT-TTACGGATGAA
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAG-GTGACTATAAATGA-ACTT-TTCTTACCAATGAA
* * * * * * * * * **
30074 TGACT-TTTTTGTTAATGTTT-CTCAAGGTAGACTTTTAATTATAAGTTGTTTTAACCAAAAATG
62 T-A-TATTTTTCTTCACGTTTCCT-GAGGTAAACATTCAATTATAATTTATTTTAATAAAAAAT-
** * *
30137 A-AAAAGCATTCAAC-CTAAAGTCAATTATGAGATTATAAAACCATTTA
123 ATAAAAAAATTCAACTTTAAA-TCAATTATGAGATTATAAAACTATTTA
* * * **********
30184 AAGTC-AGTAATAAGTCTTTCGAAGGCATAAGTGACTATAAATGGACTTTTNNNNNNNNNNAATA
1 AAG-CGAGTAATAAGGCTTT-GAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATA
** * * * * * * *
30248 GCTTTTTCTTCACGTTT-CTCAAGGCAGACATTCAATTATTATCTA-TTTAATGAAAAATGTAAA
64 TATTTTTCTTCACGTTTCCT-GAGGTAAACATTCAATTATAATTTATTTTAAT-AAAAA-ATATA
* *
30311 AAAAAATT-AACTTAAAATCAATTATGAGATTGTAAAACTATTTA
126 AAAAAATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
* * * *
30355 AAGCGAGTAATAAGGTTTTCAAAGGTAT-GTGTGACTATAAATGGACTTTTCTTACCAATGAATA
1 AAGCGAGTAATAAGGCTTT-GAAGGCATAG-GTGACTATAAATGAACTTTTCTTACCAATGAATA
* *
30419 TCTTTTTCCTCACGTTTC
64 TATTTTTCTTCACGTTTC
30437 TCAAGGCATG
Statistics
Matches: 1507, Mismatches: 400, Indels: 105
0.75 0.20 0.05
Matches are distributed among these distances:
168 10 0.01
169 183 0.12
170 389 0.26
171 644 0.43
172 278 0.18
173 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
AAGCGAGTAATAAGGCTTTGAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAATGAATATA
TTTTTCTTCACGTTTCCTGAGGTAAACATTCAATTATAATTTATTTTAATAAAAAATATAAAAAA
ATTCAACTTTAAATCAATTATGAGATTATAAAACTATTTA
Found at i:29275 original size:341 final size:332
Alignment explanation
Indices: 28653--30233 Score: 854
Period size: 341 Copynumber: 4.6 Consensus size: 332
28643 TTTAAAGTGG
* *
28653 GTAATAAGGCTTTTGAAGGCATAAGTGACTATAAAGGAACTTTTCTTGCCAATGAATATATTTTT
1 GTAATAAGGCTTTCGAAGGCATAAGTGACTATAAAGGAACTTTTCTTACCAATGAATATATTTTT
* * * * *
28718 CTTCATGTTTCCTGAGGTTAGACATTTAATTATAATTGGTTTTAACCAAAAATGGAAAAAAAATC
66 CTTAACGTTTCCTGAGGTTAGACATTCAATTATAATTGATTTTAACAAAAAAT-GAAAAAAAATC
* * **
28783 AGCTTAAACTTAATTATGAGATTATAAACTATTTAAAGTGAGTAATAAGGCTTTGAAAGGCATAG
130 AACTTAAACTCAATTATGAGATTATAAACTATTTAAAACGAGTAATAAGGCTTTGAAAGGCATAG
* * * *
28848 GTGACTATAAATGAACTTTTCTTATCAATGAATATCTTTTTCTTCATGTCTCCCAAGGCAAACAT
195 GTGACTATAAATGAACTTTTCTTACCAATGAATATATTTTTCTTCACGTCTCCCAAGGAAAACAT
* * * *
28913 TCAATTATAATCTGTTTTAAT-AGAAAATGTAAAAAAATTCAACTTCAAATCAATTATGAGATTA
260 TCAATTATAATCTATTTTAATAAAAAAATATAAAAAAATTCAACTTCAAATCAATTAAGAGATTA
28977 CCAANNNNNNNNNNGCGA
325 CCAA----------GCGA
* * * *
28995 GTAATAAGGCTTTCGAAGGTC-TGAGTGACTCTAAATGG-ACTTTTCTTACCAATGAATGTCTTT
1 GTAATAAGGCTTTCGAAGG-CATAAGTGACTATAAA-GGAACTTTTCTTACCAATGAATATATTT
* * *
29058 TTCTTAACGTTTCCTGAGG-TAGACATTCAATTATAATTTATTTTAATAAAAAAT-ATAAAAAAT
64 TTCTTAACGTTTCCTGAGGTTAGACATTCAATTATAATTGATTTTAACAAAAAATGA-AAAAAAA
* *********
29121 TTAACTTTAAA-TCAATTATGAGATTATAAAACTATTTAAAACGAGTANNNNNNNNNNTG-AAGG
128 TCAAC-TTAAACTCAATTATGAGATTAT-AAACTATTTAAAACGAGTA-ATAAGGCTTTGAAAGG
* * * ***
29184 CATAGGTGACTATAAATGAACTTTTCTTGCCAATTAATATATTTTTCTTCACGTTTCTTGAGGAA
190 CATAGGTGACTATAAATGAACTTTTCTTACCAATGAATATATTTTTCTTCACGTCTCCCAAGGAA
* * * *
29249 AATATTTAATTATAATTTATTTTAATAAAAAAATATAAAAAAATTCAACTTTAAATCAATTAAGA
255 AACATTCAATTATAATCTATTTTAATAAAAAAATATAAAAAAATTCAACTTCAAATCAATTAAGA
29314 GATTATAAAACCATTTAAAGCGA
320 GA-T-T---ACC-----AAGCGA
* ** * ** * * * *
29337 GTAATAAGGTTTTAAAAGGCTTGGGTGACTATAAATAGG--CTTTTCTTGCTAATAAATGTCA-T
1 GTAATAAGGCTTTCGAAGGCATAAGTGACTAT-AA-AGGAACTTTTCTTACCAATGAATAT-ATT
* * * * * * * * * * * *
29399 TTTCTTTA-GGTTCCTTAGG-CAGACACTGAACTGTAATCTG-GTTTAATAAAAAATGTAAAAAT
63 TTTCTTAACGTTTCCTGAGGTTAGACATTCAATTATAAT-TGATTTTAACAAAAAATGAAAAAAA
* * ********* ** *
29461 TTCAACTTAAAGTCAATTATGAGATTANNNNNNNNNNTAAAGTGAGCAATAAGGCTTTTG-AAGG
127 ATCAACTTAAACTCAATTATGAGATTA-TAAACTATTTAAAACGAGTAATAAGGC-TTTGAAAGG
* * * * * * ** *
29525 AATAGGTGACTATAAAT-AGACATTTCTTGCTAATGAATATTTTTTTCTTCACGTTTCTTAAGGT
190 CATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATATATTTTTCTTCACGTCTCCCAAGGA
* * * * * *
29589 AGACATTTAATTATAATCTGTTTTAA-CAAAAAGTA-AAAAACCATTCAACTT-AAATCAATTAT
254 AAACATTCAATTATAATCTATTTTAATAAAAAAATATAAAAA-AATTCAACTTCAAATCAATTA-
*
29651 GAGANNNNNNNNNNATTTA--AAGCGA
317 -AGA---------GA-TTACCAAGCGA
* * * * * ***
29676 GTAATAAGGCTTTAGAAAGTATAGGTGACTATAAACAGG--CTTTTCTTGCCAATGAATGGCTTT
1 GTAATAAGGCTTTCGAAGGCATAAGTGACTAT-AA-AGGAACTTTTCTTACCAATGAATATATTT
* * ** * * * * * *
29739 TTCTTCAGGTTTTTTTAGG-TAAACATTCAACTATAATCTG-TTTTAACCAAAAGTGTAAAAAAT
64 TTCTTAACGTTTCCTGAGGTTAGACATTCAATTATAAT-TGATTTTAACAAAAAATG-AAAAAAA
* * * * ** *
29802 TTCAACTTAAAGTCAATTATGAAATTATAAAAGTATTTAAAGTGAGTAATAAGGCTTTGGAAGGC
127 ATCAACTTAAACTCAATTATGAGATTAT-AAACTATTTAAAACGAGTAATAAGGCTTTGAAAGGC
* * * * * ** *
29867 ATAAGTGACTATAAGT-AGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCCCGGGGTA
191 ATAGGTGACTATAAATGA-ACTTTTCTTACCAATGAATATATTTTTCTTCACGTCTCCCAAGGAA
* * * * *
29931 GACATTCAATTATAATCTATTTTAAT-AAGAAATGTAAAAAAATTCAACTTGAAATCAATTATGA
255 AACATTCAATTATAATCTATTTTAATAAAAAAATATAAAAAAATTCAACTTCAAATCAATTAAGA
29995 GATTACCAANNNNNNNNNNGCGA
320 GATTACCAA----------GCGA
** * * **
30018 GTAATAAGGCTTTCGAAGGCATGCGTGGCTATAAA-TAGACTTGTT-TTACGGATGAATGACT-T
1 GTAATAAGGCTTTCGAAGGCATAAGTGACTATAAAGGA-ACTT-TTCTTACCAATGAAT-A-TAT
* * * * * *
30080 TTTTGTTAATGTTT-CTCAAGG-TAGACTTTTAATTATAAGTTG-TTTTAACCAAAAATGAAAAA
62 TTTTCTTAACGTTTCCT-GAGGTTAGACATTCAATTATAA-TTGATTTTAACAAAAAATGAAAAA
* * * * * * *
30142 GCATTCAACCTAAAGTCAATTATGAGATTATAAAACCATTTAAAGTC-AGTAATAAGTCTTTCG-
125 -AAATCAACTTAAACTCAATTATGAGATTAT-AAACTATTTAAA-ACGAGTAATAAGGCTTT-GA
* *
30205 AAGGCATAAGTGACTATAAATGGACTTTT
186 AAGGCATAGGTGACTATAAATGAACTTTT
30234 NNNNNNNNNN
Statistics
Matches: 975, Mismatches: 193, Indels: 141
0.74 0.15 0.11
Matches are distributed among these distances:
330 3 0.00
331 1 0.00
332 2 0.00
339 79 0.08
340 88 0.09
341 433 0.44
342 225 0.23
343 130 0.13
344 4 0.00
346 1 0.00
347 3 0.00
349 1 0.00
350 3 0.00
352 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (332 bp):
GTAATAAGGCTTTCGAAGGCATAAGTGACTATAAAGGAACTTTTCTTACCAATGAATATATTTTT
CTTAACGTTTCCTGAGGTTAGACATTCAATTATAATTGATTTTAACAAAAAATGAAAAAAAATCA
ACTTAAACTCAATTATGAGATTATAAACTATTTAAAACGAGTAATAAGGCTTTGAAAGGCATAGG
TGACTATAAATGAACTTTTCTTACCAATGAATATATTTTTCTTCACGTCTCCCAAGGAAAACATT
CAATTATAATCTATTTTAATAAAAAAATATAAAAAAATTCAACTTCAAATCAATTAAGAGATTAC
CAAGCGA
Found at i:30739 original size:171 final size:169
Alignment explanation
Indices: 30517--34305 Score: 792
Period size: 171 Copynumber: 22.0 Consensus size: 169
30507 NNNNNNNNNN
* * * * *
30517 TTATAATATGTTTTAACCAAAAATGA-AAAAAAATTCATCTTAAAGTCAATTATGATATTATGAA
1 TTATAATCTATTTTAACTAAAAAT-ATAAAAAAATTCAACTTAAAGTCAATTATGAGATTAT-AA
* * * * *
30581 ATCACTTAAAGTGAATAATAAGGCTTTTAAAGACATTGGTGACTATAAATGAACTTTTCTTGCCA
64 ATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCA
* *
30646 ATCAATATCTTTCTTTTCATGTTTCCTGAGGTAGACATTCAA
129 ATGAATATCTTTCTTTTCATGTTT-CTAAGGTAGACATTCAA
*********** *
30688 TTATAATCTGNNNNNNNNNNAAATATAAAAAAATTCAACTTTAAA-TCAATTATGAGATCATAAA
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAAC-TTAAAGTCAATTATGAGATTAT-AA
* * * * ** *
30752 ACCAATTAAAGTGAGTAATAAAGCTTTGAAAGGC-TCGAGTGACTATAAAT-AGGTTTTTCTTTC
64 ATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAG-GTGACTATAAATGA-ACTTTTCTTAC
** * * * *
30815 CAATGAATGGCTTTCTCTTCAAGTTTATTTAGGTAGACATTCAA
127 CAATGAATATCTTTCTTTTCATGTTT-CTAAGGTAGACATTCAA
* ** * * *
30859 CTGCAATCTATTTTAACTAAAAATGTAAAAAACTTAAACTTAAAGTCAATTATGAGATTATAAAT
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAA-
* * * * *
30924 TCATTTAAAGCGACTAATAAAGCTTTTTAAGGCATAGATGACTATAAATGAACTTTTCTTACCAA
65 TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAA
*
30989 TGAATATCTTT-TTCTTCATGTTTCTCAAGGTAGACATCCAA
130 TGAATATCTTTCTT-TTCATGTTTCT-AAGGTAGACATTCAA
* *
31030 TTATAAT-TTTTGTTAA-TAAAAACTATAAAAAAGTTCAACTTCAAA-TCAATTATGAGATTATA
1 TTATAATCTATT-TTAACTAAAAA-TATAAAAAAATTCAACTT-AAAGTCAATTATGAGATTATA
* * * * ** * * **
31092 AAACATTTAAAGCGAGTAAT-AAGACTTTTAAAGGCATAAATAACTATAAATGAACTTTTTTTGT
63 AATCAATTAAAGTGAATAATAAAG-CTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTAC
* * * *********
31156 CAATGAATATCTATTTTTTTTTTCACGTTTCTCGAGGTANNNNNNNNN
127 CAATGAATATC----TTTCTTTTCATGTTTCT-AAGGTAGACATTCAA
* * * *
31204 NTATAATCTGTTTTAA-TAAAAA-ATAGAAAAAATTCAATCTTAAA-TTAATTATGAAATTATAA
1 TTATAATCTATTTTAACTAAAAATATA-AAAAAATTCAA-CTTAAAGTCAATTATGAGATTATAA
********* * * * * * **
31266 ANNNNNNNNNNGTGAGTAATAAGGCTTTTAAAGGTAT-GAGTGGCTATAAATGGACTTTTCTTGG
64 A-TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAG-GTGACTATAAATGAACTTTTCTTAC
* * **********
31330 CAATGAATGA-CTTT-TTCTTCAAGTTTCTTGAGGTNNNNNNNNNN
127 CAATGAAT-ATCTTTCTT-TTCATGTTTC-TAAGGTAGACATTCAA
* * * * * *
31374 TTATAATATGTTTTAACCAAAAATAAAAAAAAATT-AATCTTAAAGTCAATTATAACATTATAAA
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAA-CTTAAAGTCAATTATGAGATTAT-AA
* * * * * * * **
31438 ACCACTTACAGCGAGTAATAATA-CTTTTAAAGGCATGGGTGACTATAAATGGACTTTTCTTGTC
64 ATCAATTAAAGTGAATAATAA-AGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACC
* * *
31502 AATCAATATCTTT-TTCTTTATGTTTCTTAAGGTAGACATTCAN
128 AATGAATATCTTTCTT-TTCATGTTTC-TAAGGTAGACATTCAA
**********
31545 NNNNNNNNNGTTTTAA-TAAAAAAATATAAAAAAATTCAACTTTAAA-TCAATTATGAGATTATA
1 TTATAATCTATTTTAACT--AAAAATATAAAAAAATTCAAC-TTAAAGTCAATTATGAGATTAT-
* * * * * ** * * * *
31608 AAACCGATTAAAGCGAGTAATAAGGCTTTGGAAGGCTTGGGTGACTATAAAT-AAGTTTTTCTTT
62 AAATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAA-CTTTTCTTA
** * *
31672 CCAATGAATGGCTTT-TTCTTCAAT-TTTATTTAGGTAGACATTCAA
126 CCAATGAATATCTTTCTT-TTC-ATGTTT-CTAAGGTAGACATTCAA
* * * * * *
31717 GTGTAATCCATTTTAACAAAAAATGTAAAAAAATTAAACTTAAAGTCAATTATGAGATTATAAAT
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAA-
* * ** * * * *
31782 TCATTTAAAATGGCTAATAAGGCTTTTTAAGGTATAGGTGACTATAAATGAACTTTTCTTATCAA
65 TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAA
* * *
31847 TGAATATCTTT-TTCTTCACGTTTCTCGAGGTAAACATTCAA
130 TGAATATCTTTCTT-TTCATGTTTCT-AAGGTAGACATTCAA
* * **********************************************
31888 TTATAATATGTTTTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTATAATCTATTTTAA---CTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATA
*** * * * *
31953 NNNCAATT--A-TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAAGTATAGGTA
63 AATCAATTAAAGTGA-ATAATAAAGCT-TTTAAA--G-G-CAT-AGG----TG--A--CTA--T-
* * * *
32015 ACTATAAATGAACTTTTCTTACTAATGAATATATTT-TCTTT-ATGTTTCTCGAGGTAGAAATTC
110 A-----AATGAACTTTTCTTACCAATGAATATCTTTCT-TTTCATGTTTCT-AAGGTAGACATTC
32078 AA
168 AA
* * *
32080 TTATAATCTATTTTGA-TAAAAA-ATTAAAAAAAATT-AATCTCAAA-TTAATTATGAGATTATA
1 TTATAATCTATTTTAACTAAAAATA-T-AAAAAAATTCAA-CTTAAAGTCAATTATGAGATTATA
* * * * * * * ** ** *
32141 AAGCCATTTAAAGCGAGTAATAAGGCTTTTGAATGCAT-GAGTGGTTATAAATGGTCTTTTCTTG
63 AA-TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAG-GTGACTATAAATGAACTTTTCTTA
* * ** * * * *
32205 TCAATAAATGGCTTTC--TTCAAGTGTCTTGAGATAGACATAT-AA
126 CCAATGAATATCTTTCTTTTCATGTTTC-TAAGGTAGACAT-TCAA
* * * * **
32248 TTATAATCTGTTTTAACCAAAAATAAAAAAAAATTCATCTTAAAGTCAATTATGTCATTATAAAA
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTAT-AAA
* * * * * * *
32313 TCACTTAAAGTGAGTAAT-AAGACTTTTAAAGGCATGGGTGGCTATAAATGTACTATTCTTGCCA
65 TCAATTAAAGTGAATAATAAAG-CTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCA
*********
32377 ATGAATATCTTT-TTCTTCATGTTTCTNNNNNNNNNNATTCAA
129 ATGAATATCTTTCTT-TTCATGTTTCT-AAGGTAGACATTCAA
* * *
32419 TTATAATCTATTTTAA-TAAAAAATGTAAAACATTTC-ACTTCAAA-TCAATTATGAGATTATAA
1 TTATAATCTATTTTAACT-AAAAATATAAAAAAATTCAACTT-AAAGTCAATTATGAGATTATAA
******** * * * * * *
32481 ANNNNNNNNNNA-CGAGTAATAAAGCTTTTGAAGGC-TTGCGTGACTATAAAT-AGGCCTTTCTT
64 A--TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAG-GTGACTATAAATGA-ACTTTTCTT
* * ** ** *
32543 ACCAATGAATGA-CATTT-TTCTCAGGTTTCCTTTGACAAACATTCAA
125 ACCAATGAAT-ATC-TTTCTTTTCATGTTT-CTAAGGTAGACATTCAA
** * * ** * *
32589 CCATAATCTGTTTTAAC-AAAACAT-GAAAAAAATGAAACTTAACGTCAATTGTG-GATTATAAA
1 TTATAATCTATTTTAACTAAAA-ATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTAT-AA
* * * * * * ** * *
32651 ACCATTTAAAGCGAGTAATAAGGCTTTGAAAGGCATAATTGACTATAAATGGACTTTTCTTTCCA
64 ATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCA
* * ** *
32716 ATGAATATCTTTTTTTTCATATTTCCCGAGGTAGGCATTCAA
129 ATGAATATCTTTCTTTTCATGTTT-CTAAGGTAGACATTCAA
* * * *
32758 TTATAATTTGTTTTAA-TAAAAAATATAAAAAAATATTCAAACTGAAAATCAATTATGAGGTATT
1 TTATAATCTATTTTAACT-AAAAATAT-AAAAAA-ATTC-AACTTAAAGTCAATTATGA-G-ATT
* * * * * * *
32822 GTAAAACATCTTAAAGCT-AAGTAATAAGGTTTTTTTAAGGTACTATTGGTGTACTATAAATG-A
60 ATAAATCA-ATTAAAG-TGAA-TAATAAAG-CTTTTAAAGG--C-ATAGGTG-ACTATAAATGAA
** * * * * *
32885 CTTTTCTTTGCTATGAAT-TGGCTTTC-TCTCACGTTTCTTGAGGT--A-ATTTAA
117 CTTTTCTTACCAATGAATAT--CTTTCTTTTCATGTTTC-TAAGGTAGACATTCAA
* *
32936 TTATGAAATCTATTTTATA-TAAAAACTGTATAAAAAAATTGAACTTCAAA-TCAATTATAAGAT
1 TTAT--AATCTATTTTA-ACTAAAAA---TATAAAAAAATTCAACTT-AAAGTCAATTATGAGAT
* * * * * * * * * *
32999 TATAAAACCATTTAAAAG-GAGTAATAAGGCTTTTGAGGGCTTGGGTGACGATAAAT-AGGCTTT
59 TAT-AAATCAATT-AAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGA-ACTTT
* ** * * * *
33062 TCTTGCCAATGAATGGCTTT-TTCTTAAGGTTTCCTTAGGCAGACATTCAA
121 TCTTACCAATGAATATCTTTCTT-TTCATGTTT-CTAAGGTAGACATTCAA
* * *******
33112 TTATAATCT-GTTTAACAAAAAATA-AAAAAACATTCAACTTAAAGTCAATTATGAGNNNNNNNN
1 TTATAATCTATTTTAACTAAAAATATAAAAAA-ATTCAACTTAAAGTCAATTATGAG-ATTATAA
** ** * * ** * *
33175 NNC-ATTGAAAACGAGTAATAAGGCTTTGGAAGGCATAGGTGACTATAAATTG-ATTTTTCTTGC
64 ATCAATT-AAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAA-TGAACTTTTCTTAC
*
33238 CAATGAATATCTTT-TCCTTCATGTTTTCTAAGGTAGACATTCAA
127 CAATGAATATCTTTCT-TTTCATG-TTTCTAAGGTAGACATTCAA
* *
33282 TTATAATATGTTTTAA-TAAAAA-ATTCAAAAAAA-TCTAACTTCAAA-TCAATTATGAGATTAT
1 TTATAATCTATTTTAACTAAAAATA-T-AAAAAAATTC-AACTT-AAAGTCAATTATGAGATTAT
* * * * ** ** * *
33343 AGAA-CCATTAAAGGGAGTAATAAGGCTTTGGAAGGTTTGGGTGACTATAAAT-AAGTGTTTCTT
62 A-AATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACT-TTTCTT
* *** * * * * * *
33406 GCCAATGAATGGGTTTTTTTTTAGGTTTCCTTATGCAGACATTCAA
125 ACCAATGAATATCTTTCTTTTCATGTTT-CTAAGGTAGACATTCAA
* * * * **********
33452 CTGTAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTANNNNNNNNNNTGAGATTATAAAT
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAT
* * * * ** * * * *
33517 CCATTTAAAATGAGTAATAAGGCTTTCGAAGGCATAGGTAACTATAAAGGGATTTTTCTTACCAA
66 -CAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAA
* * * * * *
33582 TGAATATCTTT-TCTTCATATTTCTTGAGATGGACATTTAA
130 TGAATATCTTTCTTTTCATGTTTC-TAAGGTAGACATTCAA
* * * *
33622 TTATAATCGATTTTAACCAAAAATA-AAAAAAATTCAACTTAAAGTCAATTATGAGAGTATAAAA
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAT
** ** * * * ** *
33686 CTGTTTAAAACGAGTAATAATGCTGTGGAAGGCATAGGTGACTATAAAT-AGACTTTTCTTATCA
66 C-AATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGA-ACTTTTCTTACCA
* * * **
33750 ATGAATATCTTT-TTCTTTATGTTTCCCAAGGTAAACATTCNN
129 ATGAATATCTTTCTT-TTCATGTTT-CTAAGGTAGACATTCAA
******** * * *
33792 NNNNNNNNTGTTTTAA-TAAAAAAAGTAAAAAAATTCAACTTCAAA-TCAATTATGAGATTATCT
1 TTATAATCTATTTTAACTAAAAATA-TAAAAAAATTCAACTT-AAAGTCAATTATGAGATTAT-A
* * * * * * ********** *
33855 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCNNNNNNNNNNATAAATGGACTTTTCTTACC
63 AATCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACC
* * * *
33920 AATGAATAT-ATT-TTTTCACGTTTTCTAAGTTAAACATTCAA
128 AATGAATATCTTTCTTTTCATG-TTTCTAAGGTAGACATTCAA
* * ********
33961 TTATAATCTATTTTAA-TAAAAGATGT-AAAAAATTTAACTTCAAA-TCAATNNNNNNNNNNTA-
1 TTATAATCTATTTTAACTAAAA-ATATAAAAAAATTCAACTT-AAAGTCAAT--TATGAGATTAT
* * * ** * * * * * *
34022 AAACCATTTAAAGCGAGCAAT-TAGACCTTGAAAGGCTTGGGTGACTATAAAT-AGGCTTTTCTT
62 AAATCAATTAAAGTGAATAATAAAG-CTTTTAAAGGCATAGGTGACTATAAATGA-ACTTTTCTT
* * * *
34085 ACCAATGAATATCTTT-TTCTTTATGTTTCCTTAGGCAAACATTCAA
125 ACCAATGAATATCTTTCTT-TTCATGTTT-CTAAGGTAGACATTCAA
* * * ** *********
34131 CTGTAATCTATTTGAACTAAAAACGTAAAAAAATTCAACTTAAAGTCAATTANNNNNNNNNNAAA
1 TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTA-TGAGATTATAAA
* * * * * * * ** * *
34196 CCATTTAAAGCGAGTAATAAGGCTTTGAAAGGTATAGGTTTCTATAAATGGACTTGTCTTACCAA
65 TCAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAA
*
34261 TGAATATCTTT-TTCTTCATGTTTCCTGAGGTAGACATTCAA
130 TGAATATCTTTCTT-TTCATGTTT-CTAAGGTAGACATTCAA
34302 TTAT
1 TTAT
Statistics
Matches: 2636, Mismatches: 769, Indels: 426
0.69 0.20 0.11
Matches are distributed among these distances:
167 3 0.00
168 127 0.05
169 368 0.14
170 593 0.22
171 878 0.33
172 184 0.07
173 96 0.04
174 95 0.04
175 17 0.01
176 29 0.01
177 21 0.01
178 23 0.01
179 10 0.00
180 30 0.01
181 45 0.02
182 20 0.01
183 4 0.00
184 1 0.00
185 3 0.00
186 2 0.00
187 2 0.00
188 1 0.00
189 4 0.00
190 5 0.00
191 8 0.00
192 36 0.01
193 30 0.01
194 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
TTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAT
CAATTAAAGTGAATAATAAAGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTCTTACCAAT
GAATATCTTTCTTTTCATGTTTCTAAGGTAGACATTCAA
Found at i:31330 original size:21 final size:20
Alignment explanation
Indices: 31306--31344 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31296 AAGGTATGAG
*
31306 TGGCTATAAATGGACTTTTCT
1 TGGCAATAAAT-GACTTTTCT
*
31327 TGGCAATGAATGACTTTT
1 TGGCAATAAATGACTTTT
31345 TCTTCAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (20 bp):
TGGCAATAAATGACTTTTCT
Found at i:33762 original size:169 final size:167
Alignment explanation
Indices: 31956--34305 Score: 1175
Period size: 170 Copynumber: 13.8 Consensus size: 167
31946 NNNNNNNNNN
* * * *
31956 CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAAGTATAGGTAACTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
* * * * * * *
32021 AAT-GAACTTTTCTTACTAATGAATATATTTTCTTTATGTTTCTCGAGGTAGAAATTCAATTATA
66 AATAG-ACTTTTCTTGCCAATGAATATCTTTTCTTCATGTTTCTTGAGATAGACATTCAATTATA
* * * *
32085 ATCTATTTTGATAAAAAATTAAAAAAAATT-AATCTCAAAT
130 ATC-GTTTTAACAAAAAA-TAAAAAAAATTCAA-CTTAAAT
* * * **
32125 TAATTATGAGATTATAAAGCCATTTAAAGCGAGTAATAAGGCTTTTGAATGCAT-GAGTGGTTAT
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-GTGACTAT
* * * * ** * *
32189 AAATGGTCTTTTCTTGTCAATAAATGGC-TTTCTTCAAGTGTCTTGAGATAGACATAT-AATTAT
65 AAATAGACTTTTCTTGCCAATGAATATCTTTTCTTCATGTTTCTTGAGATAGACAT-TCAATTAT
* *
32252 AATCTGTTTTAACCAAAAATAAAAAAAAATTCATCTTAAAGT
129 AATC-GTTTTAACAAAAAAT-AAAAAAAATTCAACTTAAA-T
** * * * * * * *
32294 CAATTATGTCATTATAAAATCACTTAAAGTGAGTAATAAGACTTTTAAAGGCATGGGTGGCTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
* **********
32359 AAT-GTACTATTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTNNNNNNNNNNATTCAATTAT
66 AATAG-ACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTTCTTGAGATAGACATTCAATTAT
* * * * *
32423 AATCTATTTTAATAAAAAATGTAAAACATTTC-ACTTCAAAT
129 AATC-GTTTTAACAAAAAAT-AAAAAAAATTCAACTT-AAAT
********* * *
32464 CAATTATGAGATTATAAANNNNNNNNNNA-CGAGTAATAAAGCTTTTGAAGGC-TTGCGTGACTA
1 CAATTATGAGATTATAAA-ACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-GTGACTA
* * * * *
32527 TAAATAGGCCTTTCTTACCAATGAATGA-CATTTT-TCTCAGGTTTCCTTTGACA-A-ACATTCA
64 TAAATAGACTTTTCTTGCCAATGAAT-ATC-TTTTCT-TCATGTTT-C-TTGAGATAGACATTCA
** * * ** *
32588 ACCATAATCTGTTTTAACAAAACATGAAAAAAATGAAACTTAACGT
124 ATTATAATC-GTTTTAACAAAAAATAAAAAAAATTCAACTTAA-AT
* **
32634 CAATTGTG-GATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGGCATAATTGACTAT
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG-AAGGCATAGGTGACTAT
* * * * ** * *
32697 AAATGGACTTTTCTTTCCAATGAATATCTTTTTTTTCATATTTCCCGAGGTAGGCATTCAATTAT
65 AAATAGACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTTCTTGAGATAGACATTCAATTAT
* * *
32762 AATTTGTTTTAATAAAAAATATAAAAAAATATTCAAACTGAAAAT
129 AA-TCGTTTTAA-CAAAAA-ATAAAAAAA-ATTC-AACT-TAAAT
* * * * *
32807 CAATTATGAGGTATTGTAAAA-CATCTTAAAGCTAAGTAATAAGGTTTTTTTAAGGTACTATTGG
1 CAATTATGA-G-ATTATAAAACCAT-TTAAAGC-GAGTAATAAGG-CTTTTGAAGG--C-ATAGG
* * *
32871 TGTACTATAAAT-GACTTTTCTTTG-CTATGAAT-TGGC-TTTCTCTCACGTTTCTTGAGGT--A
58 TG-ACTATAAATAGACTTTTC-TTGCCAATGAATAT--CTTTTCT-TCATGTTTCTTGAGATAGA
* * * * *
32930 -ATTTAATTATGAAATCTATTTTATATAAAAACTGTATAAAAAAATTGAACTTCAAAT
118 CATTCAATTAT--AATC-GTTTTA-ACAAAAA--ATA-AAAAAAATTCAACTT-AAAT
* * * * *
32987 CAATTATAAGATTATAAAACCATTTAAAAG-GAGTAATAAGGCTTTTGAGGGCTTGGGTGACGAT
1 CAATTATGAGATTATAAAACCATTT-AAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTAT
* ** * * **
33051 AAATAGGCTTTTCTTGCCAATGAATGGCTTTTTCTTAAGGTTTCCTT-AGGCAGACATTCAATTA
65 AAATAGACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTT-CTTGAGATAGACATTCAATTA
33115 TAATC-TGTTTAACAAAAAATAAAAAAACATTCAACTTAAAGT
128 TAATCGT-TTTAACAAAAAATAAAAAAA-ATTCAACTTAAA-T
********** * * *
33157 CAATTATGAGNNNNNNNNNNCATTGAAAACGAGTAATAAGGCTTTGGAAGGCATAGGTGACTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
* * * *
33222 AATTGATTTTTCTTGCCAATGAATATCTTTTCCTTCATGTTT-TCTAAGGTAGACATTCAATTAT
66 AATAGACTTTTCTTGCCAATGAATATCTTTT-CTTCATGTTTCT-TGAGATAGACATTCAATTAT
* * *
33286 AATATGTTTTAATAAAAAATTCAAAAAAA-TCTAACTTCAAAT
129 AAT-CGTTTTAACAAAAAA-TAAAAAAAATTC-AACTT-AAAT
* * * ** *
33328 CAATTATGAGATTATAGAACCA-TTAAAGGGAGTAATAAGGCTTTGGAAGGTTTGGGTGACTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
* * * * * * *
33392 AATA-AGTGTTTCTTGCCAATGAATGGGT-TTTTTTTTAGGTTTCCTT-ATG-CAGACATTCAAC
66 AATAGACT-TTTCTTGCCAATGAAT--ATCTTTTCTTCATGTTT-CTTGA-GATAGACATTCAAT
* * ***
33453 TGTAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTANNNN
126 TATAATC-GTTTTAACAAAAAATA-AAAAAAATTCAACTTA-AAT
****** * ** * *
33498 NNNNNNTGAGATTATAAATCCATTTAAAATGAGTAATAAGGCTTTCGAAGGCATAGGTAACTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
** * * * * *
33563 AAGGGATTTTTCTTACCAATGAATATCTTTTCTTCATATTTCTTGAGATGGACATTTAATTATAA
66 AATAGACTTTTCTTGCCAATGAATATCTTTTCTTCATGTTTCTTGAGATAGACATTCAATTATAA
*
33628 TCGATTTTAACCAAAAATAAAAAAAATTCAACTTAAAGT
131 TCG-TTTTAACAAAAAATAAAAAAAATTCAACTTAAA-T
* ** * * * *
33667 CAATTATGAGAGTATAAAACTGTTTAAAACGAGTAATAATGCTGTGGAAGGCATAGGTGACTATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
** * *** * * *****
33732 AATAGACTTTTCTTATCAATGAATATCTTTTTCTTTATGTTTCCCAAGGTAAACATTCNNNNNNN
66 AATAGACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTTCTTGAGATAGACATTC--AATTA
*** *
33797 NNNT-GTTTTAATAAAAAA-AGTAAAAAAATTCAACTTCAAAT
128 TAATCGTTTTAACAAAAAATA--AAAAAAATTCAACTT-AAAT
** **********
33838 CAATTATGAGATTATCTAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCNNNNNNNNNNATA
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
* * * * * * *
33903 AATGGACTTTTCTTACCAATGAATATATTTT-TTCACGTTT-TCTAAGTTAAACATTCAATTATA
66 AATAGACTTTTCTTGCCAATGAATATCTTTTCTTCATGTTTCT-TGAGATAGACATTCAATTATA
* * * ** *
33966 ATCTATTTTAATAAAAGATGTAAAAAATTTAACTTCAAAT
130 ATC-GTTTTAACAAAAAATAAAAAAAATTCAACTT-AAAT
********** * * * * * *
34006 CAATNNNNNNNNNNTAAAACCATTTAAAGCGAGCAATTAGAC-CTTGAAAGGCTTGGGTGACTAT
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG-AAGGCATAGGTGACTAT
* * * ** * * *
34070 AAATAGGCTTTTCTTACCAATGAATATCTTTTTCTTTATGTTTCCTT-AGGCAAACATTCAACTG
65 AAATAGACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTT-CTTGAGATAGACATTCAATTA
*
34134 TAATC-TATTTGAACTAAAAACGT-AAAAAAATTCAACTTAAAGT
128 TAATCGT-TTT-AAC-AAAAA-ATAAAAAAAATTCAACTTAAA-T
********** * **
34177 CAATTANNNNNNNNNNAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGGTATAGGTTTCTAT
1 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG-AAGGCATAGGTGACTAT
* * * * *
34241 AAATGGACTTGTCTTACCAATGAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTAT
65 AAATAGACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTTCTTGAGATAGACATTCAATTAT
Statistics
Matches: 1646, Mismatches: 418, Indels: 232
0.72 0.18 0.10
Matches are distributed among these distances:
167 7 0.00
168 146 0.09
169 395 0.24
170 454 0.28
171 361 0.22
172 43 0.03
173 44 0.03
174 15 0.01
175 5 0.00
176 31 0.02
177 20 0.01
178 23 0.01
179 12 0.01
180 34 0.02
181 38 0.02
182 18 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (167 bp):
CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATA
AATAGACTTTTCTTGCCAATGAATATCTTTTCTTCATGTTTCTTGAGATAGACATTCAATTATAA
TCGTTTTAACAAAAAATAAAAAAAATTCAACTTAAAT
Done.