Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397335.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3572.0, 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: 49612
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.30
Warning! 7977 characters in sequence are not A, C, G, or T
Found at i:309 original size:171 final size:161
Alignment explanation
Indices: 185--2514 Score: 209
Period size: 172 Copynumber: 13.7 Consensus size: 161
175 NNNNNNNNNN
* **
185 AATTGATTTTAAGTTGAATTTTTTTA-TATTTTTGGTCAAAATAGACTATTGTTGAATGTTTACC
1 AATTGATTTTAAGTTGAA-TTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAATGTTTACC
* *
249 TTGAGAAACATAAAGAAAAAAGC-ATTCATTGAAAAGAAAAGTTCATTTGTAGTCACCCATTCCT
65 TTAAGAAACATAAAG-AAAAAGCTATTCATTGAAAAGAAAAGTTCATTTATAGTCACCCATTCCT
* * * * * **
313 TCAAAAGCCTTANNNNNNNNNNTAAATGGTTTTATAAT-CTCAT
129 TCAAAAGCCTTA----------TTACTCGCTTTA-AATAGTTTT
* * * * * *
356 AATTAATTTTAAGTTGAATTTTTGA-CATTTTTCGTTC-AAACAGACTATAATTAAATGTCTACC
1 AATTGATTTTAAGTTGAATTTTTTAGTATTTTT-GGTCAAAACAGACTATAATTGAATGTTTACC
** * * * * *
419 TCTAA-AAATGTGAAGAAACAAGC-ATTCATCGACAAGAAAAGTTCATTTATGGTCTCCCATTCC
65 T-TAAGAAACATAAAGAAA-AAGCTATTCATTGAAAAGAAAAGTTCATTTATAGTCACCCATTCC
* * ** *
482 CTCAAAAGACTTATTACTCTATTTAAATGATTTTATAATCT
128 TTCAAAAGCCTTATTACTCGCTTTAAAT-A--GT-T--T-T
* ** * * * *
523 CAAAATTGATTTTAAGTT-CATTTTTTTTTACTTTTATGGTTC-AAACATATTATAACTGAATAT
1 ---AATTGATTTTAAGTTGAATTTTTTAGTA-TTTT-TGG-TCAAAACAGACTATAATTGAATGT
* * * * * * *
586 CTACATTGAGAAATATAAAGAAAAATAC-ATTCATT-AGCAAGAAAAG-ACTATTTATTA-TCAC
60 TTACCTTAAGAAACATAAAGAAAAA-GCTATTCATTGA-AAAGAAAAGTTC-ATTTA-TAGTCAC
** ** * *
647 TTATTCCTTTGAAAGCGTTATTACTCGCTTTAAATGGTTTGAT
121 CCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTT--T
* ** * * *
690 AATTGTAAAATTAATTTAAAGTTCAATTTTTTTTTACTTTTTTTGTTAAAACAGATTATAATTGA
1 AATTG----A-T--TTT-AAGTTGAATTTTTTAGTA--TTTTTGGTCAAAACAGACTATAATTGA
* * * * * ** * ** *********
755 ATGTCTGCATTGAGACATGTGAAGAAAAAGGC-ATTCATTGGTAAGAAAANNNNNNNNNNTA-TC
56 ATGTTTACCTTAAGAAACATAAAGAAAAA-GCTATTCATTGAAAAGAAAA-GTTCATTTATAGTC
* * *
818 ACCCATTCTTTCAAAAGCCTAATTACTCACTTTAAATAGTTTTGTAATCTCAT
119 ACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATA-----GT--T-T--T
* * ** * * ** *
871 AATTGATTATAACTTGAATTTTTTTA-TATTTTTCTTTAAAACAGACTATAATTTAATCCTTGCT
1 AATTGATTTTAAGTTGAA-TTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAATGTTTAC-
** * * ** * * * * *
935 CTGGA-AAACGTGAAGAAAAAGGC-ATTCATTGGTAAGAAATG-TCTATTTATACTTACTCACTC
64 CTTAAGAAACATAAAGAAAAA-GCTATTCATTGAAAAGAAAAGTTC-ATTTATAGTCACCCATTC
* * *
997 TTTCAAAAGCCTTATTACTCGATGTAAA-AGGTTTCGT
127 CTTCAAAAGCCTTATTACTCGCTTTAAATA-GTTT--T
* * * * ** *
1034 AATCTCATAAGAGATTGTAAGTTGTATTTTTCTACTTTTTTTTATTAAAACAGACTATAATTGAA
1 AA--T--T----GATTTTAAGTTGAATTTTT-TAGTATTTTTGGTCAAAACAGACTATAATTGAA
** ** * ** * *
1099 TAATTACCTCGAGAAACCTAAAGAAAAAGGC-ATTCATTGGCATGAAAAGTCCATTTATAGTCAC
57 TGTTTACCTTAAGAAACATAAAGAAAAA-GCTATTCATTGAAAAGAAAAGTTCATTTATAGTCAC
* * * * *
1163 CCATTCTTTCCAACGCCTTATTACTCGTTTTAAATGATTTTAT
121 CCATTCCTTCAAAAGCCTTATTACTCGCTTTAAAT-AGTTT-T
* *** * ** * **
1206 AATCTCATNNNNNNNNNNAAGTTGAATTTTTTTA-CATTTTTTATTAAAACAGACTATTGTTGAA
1 AAT-TGAT-------TTTAAGTTGAA-TTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAA
* * * * * * * *
1270 TGTATA-CTTCGAGAAACGTGAAGAAAAAGGC-ATTCATTGGAAAGAGAAGTCCATTTGTAGTCA
57 TGTTTACCTT-AAGAAACATAAAGAAAAA-GCTATTCATTGAAAAGAAAAGTTCATTTATAGTCA
* * * *
1333 CCTATTCTTTCAAATA-CCTTATTACTCACTTTAAATGATTTTAT
120 CCCATTCCTTCAAA-AGCCTTATTACTCGCTTTAAAT-AGTTT-T
* * ** * *
1377 AATCTCATAAATAATTTTAAGTTGAATTTTTTA-CATTTTTCTTCAAAATAGACTATAATTAAAT
1 -A----AT---TGATTTTAAGTTGAATTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAAT
* * * * * ** * * *
1441 GTCTATCTTAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTTTA-TTATAGTCTCT
58 GTTTACCTTAAGAAAC-ATAAAGAAAAAGCTATTCATTGAAAAGAAAAGTTCATTTATAGTCACC
* ** ** *
1504 CATTCTTTCAAAAGAGTTATTACTCAATTTAAATTGTTTTAT
122 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTT-T
*** * * * * * * *
1546 AATTTNNNNNNNNNNTTTAAGTTCAATTTTTT-TTACTTTTTTGGTTAAAACATATTATAACTCA
1 AA-TT-------GATTTTAAGTTGAATTTTTTAGTA--TTTTTGGTCAAAACAGACTATAATTGA
* * * * *
1610 ATGTTTACATTGAGAAATACAAAGAAAAATGC-ATTCATTTG-CAAGAAAAGATT-ATTTATTA-
56 ATGTTTACCTTAAGAAACATAAAGAAAAA-GCTATTCA-TTGAAAAGAAAAG-TTCATTTA-TAG
*
1671 TCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCGT
117 TCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG---T-T--T--T
* * * * * * *
1724 AAAATTGATTTTAAGTTCAATTTTTTTTGCT-TTTTTTGTTAAAACAGATTATAATTGAATATAT
1 --AATTGATTTTAAGTTGAA-TTTTTTAG-TATTTTTGGTCAAAACAGACTATAATTGAATGTTT
* * * * * * * * * *
1788 ACATTGAGAAACGTGAAGAAAAAGGTATTAATTGATAAGAAAAGTCCATTTATTGTCACCCATTT
62 ACCTTAAGAAACATAAAGAAAAAGCTATTCATTGAAAAGAAAAGTTCATTTATAGTCACCCATTC
* **
1853 CTTCAAAAGCCTTATTACACATTTTAAATAGTTTTGT
127 CTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTT-T
* ***** * ** * *
1890 AATCTCATAATTNNNNNNNNNNTGAATTTTTTTTA-CATTTTTCTTTAAAACAAACT-TCAATTG
1 AAT-TGAT--TT-----TAAGTTGAA--TTTTTTAGTATTTTTGGTCAAAACAGACTAT-AATTG
** ** ** ** * * *
1953 AACT-TTTGGCTGGAGAAATGTGTAGAAAATGCCATTTATTGAGAAA-AAAAGTTCATTTATA-T
55 AA-TGTTTACCTTAAGAAACATAAAGAAAAAGCTATTCATTGA-AAAGAAAAGTTCATTTATAGT
* * * * * *
2015 ACACCCATTCTTTCAAAAGCGTTATTGCCCACTTTAAATGGTTTTAT
118 -CACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTT-T
* * ** * * *
2062 AATCTCATAATTCATTCTAAGTCGAATTTTTTAACATTTTTGCT-TAAACAGACAATAATTGAAT
1 AA--T--TGA-T--TT-TAAGTTGAATTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAAT
* * * ********** * ** * *
2126 GTCTACCTCAAGAAACATGAANNNNNNNNNNTTCATGGGCAAGAAAAG-TCCTCTTATAGTCACT
58 GTTTACCTTAAGAAACATAAAGAAAAAGCTATTCATTGAAAAGAAAAGTTCAT-TTATAGTCACC
* * * *
2190 CATTCTTTCAAAAGCCTTATTACGCGTTTTAAATGATTTTATAATCTCAT
122 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAAT-A----GT--T-T--T
* * *
2240 AATTGATTTTAAGTT-AATTTTTT--TACCTTTTTGGTTAAAACAGACTATAATTGAATATCTAC
1 AATTGATTTTAAGTTGAATTTTTTAGTA--TTTTTGGTCAAAACAGACTATAATTGAATGTTTAC
* * * ** *
2302 C-TCAGCAAACATGAAGAAAAAGATATTCATTGTCAAGAAAAG-TCTATTTACAGTCACCCATTC
64 CTTAAG-AAACATAAAGAAAAAGCTATTCATTGAAAAGAAAAGTTC-ATTTATAGTCACCCATTC
* * * **
2365 TTTCAAAAGCCTTATTATTCACTTTAAATAGNNNNNNNNNNTCAT
127 CTTCAAAAGCCTTATTACTCGCTTTAAATAG----------TTTT
* *
2410 AATTGATTTTAAGTTGAATTCTTTTA-TATTTTTGGTCAAAACAGACAATAATTGAATGTCTACC
1 AATTGATTTTAAGTTGAATT-TTTTAGTATTTTTGGTCAAAACAGACTATAATTGAATGTTTACC
* * **
2474 TTAAGAAACATGAAGAAAAAGATATTCATTGCTAAGAAAAG
65 TTAAGAAACATAAAGAAAAAGCTATTCATTGAAAAGAAAAG
2515 ACCATTTANN
Statistics
Matches: 1609, Mismatches: 380, Indels: 340
0.69 0.16 0.15
Matches are distributed among these distances:
159 3 0.00
160 7 0.00
162 1 0.00
163 6 0.00
164 10 0.01
165 7 0.00
166 5 0.00
167 7 0.00
168 4 0.00
169 96 0.06
170 376 0.23
171 417 0.26
172 472 0.29
173 139 0.09
174 19 0.01
175 5 0.00
176 9 0.01
177 3 0.00
178 10 0.01
179 2 0.00
180 3 0.00
181 8 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.38
Consensus pattern (161 bp):
AATTGATTTTAAGTTGAATTTTTTAGTATTTTTGGTCAAAACAGACTATAATTGAATGTTTACCT
TAAGAAACATAAAGAAAAAGCTATTCATTGAAAAGAAAAGTTCATTTATAGTCACCCATTCCTTC
AAAAGCCTTATTACTCGCTTTAAATAGTTTT
Found at i:670 original size:172 final size:173
Alignment explanation
Indices: 492--803 Score: 412
Period size: 173 Copynumber: 1.8 Consensus size: 173
482 CTCAAAAGAC
* * * *
492 TTATTACTCTATTTAAATGATTTTATAATCT-CAAAATTGATTTTAAGTTC-ATTTTTTTTTACT
1 TTATTACTCGATTTAAATGATTTGATAAT-TGCAAAATTAATTTAAAGTTCAATTTTTTTTTACT
* * *
555 TTTATGGTTCAAACATATTATAACTGAATATCTACATTGAGAAATATAAAGAAAAATACATTCAT
65 TTTATGGTTAAAACAGATTATAACTGAATATCTACATTGAGAAATATAAAGAAAAAGACATTCAT
620 TAGCAAGAAAAGACTATTTATTATCACTTATTCCTTTGAAAGCG
130 TAGCAAGAAAAGACTATTTATTATCACTTATTCCTTTGAAAGCG
* * *
664 TTATTACTCGCTTTAAATGGTTTGATAATTGTAAAATTAATTTAAAGTTCAATTTTTTTTTACTT
1 TTATTACTCGATTTAAATGATTTGATAATTGCAAAATTAATTTAAAGTTCAATTTTTTTTTACTT
* * * * * * * * *
729 TTTTTGTTAAAACAGATTATAATTGAATGTCTGCATTGAGACATGTGAAGAAAAAGGCATTCATT
66 TTATGGTTAAAACAGATTATAACTGAATATCTACATTGAGAAATATAAAGAAAAAGACATTCATT
* *
794 GGTAAGAAAA
131 AGCAAGAAAA
804 NNNNNNNNNN
Statistics
Matches: 117, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
171 1 0.01
172 41 0.35
173 75 0.64
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (173 bp):
TTATTACTCGATTTAAATGATTTGATAATTGCAAAATTAATTTAAAGTTCAATTTTTTTTTACTT
TTATGGTTAAAACAGATTATAACTGAATATCTACATTGAGAAATATAAAGAAAAAGACATTCATT
AGCAAGAAAAGACTATTTATTATCACTTATTCCTTTGAAAGCG
Found at i:1165 original size:343 final size:339
Alignment explanation
Indices: 4--2392 Score: 814
Period size: 343 Copynumber: 7.0 Consensus size: 339
1 TTT
* * * * ** * *
4 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTAGTATTTTTGGTCAAAACAGACTCTAATTGA
1 ATAATCTCATAAATAATTGTAAGTTGAATTTTTTA-CATTTTTCTTCAAAACAGACTATAATTAA
* * * * * * * * *
69 ATGTTTACCTTAAGAAAC-ATGAAGAAAAAGCTATTCATTGGCAAGAAAAGTTCATTTATATTTA
65 ATATCTACCTCAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTCCA-TTATAGTCA
* ** ********** * *
133 CCCATTCTTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTTNNNNNNNNNNAATTGATTTTAAG
128 CCCATTCTTTCAAAAGCCTTATTACTCAATTTAAAT-GTTTTATAATCTCATAATTGATTATAAC
* ** * * ** * * * *
198 TTGAATTTTTTTATATTTTTGGTCAAAATAGACTATTGTTGAATGTTTACCTT-GAGAAACATAA
192 TTGAATTTTTTTACATTTTTTATTAAAACAGACTATAATTGAATCTATA-CTTCGAGAAACGTGA
* * * * * * * * * *
262 AGAAAAAAGCATTCATTGAAAAGAAAAGTTCATTTGTAGTCACCCATTCCTTCAAA-AGCCTTAN
256 AGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTATACTCACCTACTCTTTCAAATA-CCTTAT
********* * * *
326 NNNNNNNNNTAAATGGTTTT
320 TACTCACTGTAAAAGATTTC
* * *
346 ATAATCTCATAATTAATTTTAAGTTGAATTTTTGACATTTTTCGTTC-AAACAGACTATAATTAA
1 ATAATCTCATAAATAATTGTAAGTTGAATTTTTTACATTTTTC-TTCAAAACAGACTATAATTAA
* * * * * * * *
410 ATGTCTACCTCTAA-AAATG-TGAAGAAACAAGCATTCATCGACAAGAAAAGTTCATTTATGGTC
65 ATATCTACCTC-AAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTCCA-TTATAGTC
* ** * * * *
473 TCCCATTCCCTCAAAAGACTTATTACTCTATTTAAATGATTTTATAATCTCAAAATTGATTTTAA
127 ACCCATTCTTTCAAAAGCCTTATTACTCAATTTAAATG-TTTTATAATCTCATAATTGATTATAA
* * * ** * * * * * * **
538 GTTCATTTTTTTTTAC-TTTTATGGTTCAAACATATTATAACTGAATATCTACATT-GAGAAATA
191 CTTGA-ATTTTTTTACATTTT-TTATTAAAACAGACTATAATTGAATCTATAC-TTCGAGAAACG
* ** * * * * * * * * * *
601 TAAAGAAAAATACATTCATTAGCAAGAAAAGACTATTTATTA-TCACTTATTCCTTTGAAA-GCG
253 TGAAGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTA-TACTCACCTACT-CTTTCAAATACC
* * * * *
664 TTATTACTCGCTTTAAATGGTTTG
316 TTATTACTCACTGTAAAAGATTTC
* * * * *
688 ATAAT-T-GTAAAATTAATT-TAAAGTTCAATTTTTTTTTAC-TTTTTTTGTTAAAACAGATTAT
1 ATAATCTCAT-AAA-TAATTGT-AAGTTGAA---TTTTTTACATTTTTCT-TCAAAACAGACTAT
* * * * ** * * ** * *******
749 AATTGAATGTCTGCATTGAGACATG-TGAAGAAAAAGGCATTCATTGGTAAGAAAANNNNNNNNN
59 AATTAAATATCTACCTCAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAA--GTCCATT
* * * *
813 NTA-TCACCCATTCTTTCAAAAGCCTAATTACTCACTTTAAATAGTTTTGTAATCTCATAATTGA
121 ATAGTCACCCATTCTTTCAAAAGCCTTATTACTCAATTTAAAT-GTTTTATAATCTCATAATTGA
* * * *
877 TTATAACTTGAATTTTTTTATATTTTTCT-TTAAAACAGACTATAATTTAATCCT-TGCTCTGGA
185 TTATAACTTGAATTTTTTTACATTTTT-TATTAAAACAGACTATAATTGAAT-CTATACT-TCGA
* * *
940 -AAACGTGAAGAAAAAGGCATTCATTGGTAAGA-AATGTCTATTTATACTTA-CTCACTCTTTCA
247 GAAACGTGAAGAAAAAGGCATTCATTGGAAAGAGAA-GTCCATTTATACTCACCT-ACTCTTTCA
*
1002 AA-AGCCTTATTACTCGA-TGTAAAAGGTTTC
310 AATA-CCTTATTACTC-ACTGTAAAAGATTTC
* * * * * *
1032 GTAATCTCATAAGA-GATTGTAAGTTGTATTTTTCTACTTTTTTTTATTAAAACAGACTATAATT
1 ATAATCTCATAA-ATAATTGTAAGTTGAATTTTT-TACATTTTTCT-TCAAAACAGACTATAATT
* * ** *
1096 GAATAAT-TACCTCGAGAAAC-CTAAAGAAAAAGGCATTCATTGGCATGAAAAGTCCATTTATAG
63 AAAT-ATCTACCTCAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTCCA-TTATAG
* * ** **********
1159 TCACCCATTCTTTCCAACGCCTTATTACTCGTTTTAAATGATTTTATAATCTCATNNNNNNNNNN
125 TCACCCATTCTTTCAAAAGCCTTATTACTCAATTTAAATG-TTTTATAATCTCATAATTGATTAT
* ** *
1224 AAGTTGAATTTTTTTACATTTTTTATTAAAACAGACTATTGTTGAATGTATACTTCGAGAAACGT
189 AACTTGAATTTTTTTACATTTTTTATTAAAACAGACTATAATTGAATCTATACTTCGAGAAACGT
* * *
1289 GAAGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTGTAGTCACCTATTCTTTCAAATACCTTA
254 GAAGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTATACTCACCTACTCTTTCAAATACCTTA
* * *
1354 TTACTCACTTTAAATGATTTT
319 TTACTCACTGTAAAAGATTTC
* *
1375 ATAATCTCATAAATAATTTTAAGTTGAATTTTTTACATTTTTCTTCAAAATAGACTATAATTAAA
1 ATAATCTCATAAATAATTGTAAGTTGAATTTTTTACATTTTTCTTCAAAACAGACTATAATTAAA
* * * ** * *
1440 TGTCTATCTTAAGAAACGCTAAGAAAAAACCATTCATTGGCAAGAAAAGTTTATTATAGTCTCTC
66 TATCTACCTCAAGAAACGCTAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTATAGTCACCC
** * ********* *
1505 ATTCTTTCAAAAGAGTTATTACTCAATTTAAATTGTTTTATAATTTNNNNNNNNNNTT-TAAGTT
131 ATTCTTTCAAAAGCCTTATTACTCAATTTAAA-TGTTTTATAATCT-CATAATTGATTATAACTT
* * * * * * * * ****
1569 CAATTTTTTTTAC-TTTTTTGGTTAAAACATATTATAACTCAATGTTTACATT-GAGAAATACAA
194 GAA-TTTTTTTACATTTTTT-ATTAAAACAGACTATAATTGAATCTATAC-TTCGAGAAACGTGA
* * * * * * *
1632 AGAAAAATGCATTCATTTGCAAGAAAAGAT-TATTTATTA-TCATCC-ATTCCTTCAAA-AGCCT
256 AGAAAAAGGCATTCATTGGAAAGAGAAG-TCCATTTA-TACTCA-CCTACTCTTTCAAATA-CCT
* * *
1693 TATTACTCGCTTTAAATAG-TTTT
317 TATTACTCACTGTAAA-AGATTTC
* * * * * * *
1716 ATAATCGT-A-AAATTGATTTTAAGTTCAATTTTTTTTGC-TTTTTTTGTTAAAACAGATTATAA
1 ATAATC-TCATAAA-TAATTGTAAGTTGAA--TTTTTTACATTTTTCT-TCAAAACAGACTATAA
* * * ** *** * ** *
1778 TTGAATATATACATTGAGAAACG-TGAAGAAAAAGGTATTAATTGATAAGAAAAGTCCATTTATT
61 TTAAATATCTACCTCAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTCCA-TTATA
* * * ****
1842 GTCACCCATT-TCTTCAAAAGCCTTATTACACATTTTAAATAGTTTTGTAATCTCATAATTNNNN
124 GTCACCCATTCT-TTCAAAAGCCTTATTACTCAATTTAAAT-GTTTTATAATCTCATAATTGATT
****** * * * *
1906 NNNNNNTGAATTTTTTTTACATTTTTCT-TTAAAACAAACT-TCAATTGAA-CTTTTGGC-TGGA
187 ATAACTTGAA-TTTTTTTACATTTTT-TATTAAAACAGACTAT-AATTGAATC-TAT-ACTTCGA
* * * * * * * * *
1967 GAAATGTGTAGAAAATGCCATTTATTGAGAAA-AAAAGTTCATTTATA-TACACCCATTCTTTCA
247 GAAACGTGAAGAAAAAGGCATTCATTG-GAAAGAGAAGTCCATTTATACT-CACCTACTCTTTCA
* * * * * * *
2030 AA-AGCGTTATTGCCCACTTTAAATGGTTTT
310 AATA-CCTTATTACTCACTGTAAAAGATTTC
* * * * * *
2060 ATAATCTCATAATTCATTCTAAGTCGAATTTTTTAACATTTTTGCTT--AAACAGACAATAATTG
1 ATAATCTCATAAATAATTGTAAGTTGAATTTTTT-ACATTTTT-CTTCAAAACAGACTATAATTA
* * ********** * *
2123 AATGTCTACCTCAAGAAAC-ATGAANNNNNNNNNNTTCATGGGCAAGAAAAGTCCTCTTATAGTC
64 AATATCTACCTCAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTCC-ATTATAGTC
* * ** *
2187 ACTCATTCTTTCAAAAGCCTTATTACGCGTTTTAAATGATTTTATAATCTCATAATTGATTTTAA
127 ACCCATTCTTTCAAAAGCCTTATTACTCAATTTAAATG-TTTTATAATCTCATAATTGATTATAA
* * ** * * * *
2252 GTT-AATTTTTTTACCTTTTTGGTTAAAACAGACTATAATTGAATATCTACCTC-AGCAAACATG
191 CTTGAATTTTTTTACATTTTTTATTAAAACAGACTATAATTGAATCTATACTTCGAG-AAACGTG
** ** * * * * * *
2315 AAGAAAAAGATATTCATTGTCAAGAAAAGTCTATTTACAGTCACCCATTCTTTCAAA-AGCCTTA
255 AAGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTATACTCACCTACTCTTTCAAATA-CCTTA
* *
2379 TTATTCACTTTAAA
319 TTACTCACTGTAAA
2393 TAGNNNNNNN
Statistics
Matches: 1557, Mismatches: 391, Indels: 200
0.72 0.18 0.09
Matches are distributed among these distances:
339 5 0.00
340 165 0.11
341 322 0.21
342 293 0.19
343 352 0.23
344 275 0.18
345 140 0.09
346 5 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.38
Consensus pattern (339 bp):
ATAATCTCATAAATAATTGTAAGTTGAATTTTTTACATTTTTCTTCAAAACAGACTATAATTAAA
TATCTACCTCAAGAAACGCTAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTATAGTCACCC
ATTCTTTCAAAAGCCTTATTACTCAATTTAAATGTTTTATAATCTCATAATTGATTATAACTTGA
ATTTTTTTACATTTTTTATTAAAACAGACTATAATTGAATCTATACTTCGAGAAACGTGAAGAAA
AAGGCATTCATTGGAAAGAGAAGTCCATTTATACTCACCTACTCTTTCAAATACCTTATTACTCA
CTGTAAAAGATTTC
Found at i:1211 original size:172 final size:170
Alignment explanation
Indices: 1--2522 Score: 1282
Period size: 171 Copynumber: 14.7 Consensus size: 170
* ** * *
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTAGTA-TTTTTGGTCAAAACAGACTCTAA
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTT--TACTTTTTTTTTAAAACAGACTATAA
* * * * *
65 TTGAATGTTTACCTTAAGAAACATGAAGAAAAA-GCTATTCATTGGCAAGAAAAGTTCATTTATA
64 TTGAATATATACCTTGAGAAACCTGAAGAAAAAGGC-ATTCATTGGCAAGAAAAGTCCATTTATA
* * * *
129 TTTACCCATTCTTTCGAAAGCCTTATTACTCGCTTTAAAT-AGT
128 GTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGA-T
********** * * * * **
172 TTTNNNNNNNNNNAATTGATTTTAAGTTGAATTTTTTTA-TATTTTTGGTCAAAATAGACTATTG
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTACT-TTTTT-TTTAAAACAGACTATAA
* * * * * ** * *
236 TTGAATGTTTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGAAAAGAAAAGTTCATTTGTAG
64 TTGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAG
* ********** *
301 TCACCCATTCCTTCAAAAGCCTTANNNNNNNNNNTAAATGGT
129 TCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGAT
* ** *
343 TTTATAATCTCATAATTA-ATTTTAAGTTGAA-TTTTTGACATTTTTCGTTCAAACAGACTATAA
1 TTTATAATCTCATAA-TAGATTTTAAGTTGAATTTTTTTAC-TTTTTTTTTAAAACAGACTATAA
* * * * ** * * *
406 TTAAATGTCTACCTCT-AAAAATGTGAAGAAACAA-GCATTCATCGACAAGAAAAGTTCATTTAT
64 TTGAATATATACCT-TGAGAAACCTGAAGAAA-AAGGCATTCATTGGCAAGAAAAGTCCATTTAT
* * ** *
469 GGTCTCCCATTCCCTCAAAAGACTTATTACTCTA-TTTAAATGAT
127 AGTCACCCATTCTTTCAAAAGCCTTATTACTC-ACTTTAAATGAT
* * * * ** * * *
513 TTTATAATCTCAAAATTGATTTTAAGTTCATTTTTTTTTACTTTTATGGTTCAAACATATTATAA
1 TTTATAATCTCATAATAGATTTTAAGTTGA-ATTTTTTTACTTTT-TTTTTAAAACAGACTATAA
* * * ** * ** * * *
578 CTGAATATCTACATTGAGAAATATAAAGAAAAATACATTCATTAGCAAGAAAAGACTATTTATTA
64 TTGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTA-TA
** * * * *
643 -TCACTTATTCCTTT-GAAAGCGTTATTACTCGCTTTAAATGGT
128 GTCACCCATT-CTTTCAAAAGCCTTATTACTCACTTTAAATGAT
* * * * * *
685 TTGATAAT-TGTAAAATTA-ATTTAAAGTTCAATTTTTTTTTACTTTTTTTGTTAAAACAGATTA
1 TTTATAATCT-CATAA-TAGATTTTAAGTTGAA--TTTTTTTACTTTTTTT-TTAAAACAGACTA
* * * * * ** * ********
748 TAATTGAATGTCTGCATTGAGACATGTGAAGAAAAAGGCATTCATTGGTAAGAAAANNNNNNNNN
61 TAATTGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAA-GTCCATTT
* *
813 NTA-TCACCCATTCTTTCAAAAGCCTAATTACTCACTTTAAAT-AGT
125 ATAGTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGA-T
* * * *
858 TTTGTAATCTCATAATTGATTATAACTTGAATTTTTTTA-TATTTTTCTTTAAAACAGACTATAA
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTACT-TTTTT-TTTAAAACAGACTATAA
* * * * * * * *
922 TTTAATCCT-TGCTCTGGA-AAACGTGAAGAAAAAGGCATTCATTGGTAAGAAATGTCTATTTAT
64 TTGAAT-ATATAC-CTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTAT
* * * * * * *
985 ACTTACTCACTCTTTCAAAAGCCTTATTACTCGA-TGTAAAAGGT
127 AGTCACCCATTCTTTCAAAAGCCTTATTACTC-ACTTTAAATGAT
** * * * *
1029 TTCGTAATCTCATAAGAGATTGTAAGTTGTATTTTTCTACTTTTTTTTATTAAAACAGACTATAA
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTAC-TTTTTTT-TTAAAACAGACTATAA
* * *
1094 TTGAATA-ATTACCTCGAGAAACCTAAAGAAAAAGGCATTCATTGGCATGAAAAGTCCATTTATA
64 TTGAATATA-TACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATA
* * **
1158 GTCACCCATTCTTTCCAACGCCTTATTACTCGTTTTAAATGAT
128 GTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGAT
********** * **
1201 TTTATAATCTCATNNNNNNNNNNAAGTTGAATTTTTTTACATTTTTTATTAAAACAGACTATTGT
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTAC-TTTTTTTTTAAAACAGACTATAAT
* * * * *
1266 TGAATGTATA-CTTCGAGAAACGTGAAGAAAAAGGCATTCATTGGAAAGAGAAGTCCATTTGTAG
65 TGAATATATACCTT-GAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAG
*
1330 TCACCTATTCTTTCAAATA-CCTTATTACTCACTTTAAATGAT
129 TCACCCATTCTTTCAAA-AGCCTTATTACTCACTTTAAATGAT
* * *
1372 TTTATAATCTCATAAATA-ATTTTAAGTTGAA-TTTTTTACATTTTTCTTCAAAATAGACTATAA
1 TTTATAATCTCAT-AATAGATTTTAAGTTGAATTTTTTTAC-TTTTTTTTTAAAACAGACTATAA
* * * * * ** **
1435 TTAAATGTCTATCTTAAGAAACGCT-AAGAAAAAACCATTCATTGGCAAGAAAAGTTTA-TTATA
64 TTGAATATATACCTTGAGAAAC-CTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATA
* * ** *
1498 GTCTCTCATTCTTTCAAAAGAGTTATTACTCAATTTAAATTG-T
128 GTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAA-TGAT
* ********** * * * *
1541 TTTATAATTTNNNNNNNNNNTTTAAGTTCAATTTTTTTTACTTTTTTGGTTAAAACATATTATAA
1 TTTATAATCTCATAATAGATTTTAAGTTGAA-TTTTTTTACTTTTTT-TTTAAAACAGACTATAA
* * * * * * * * * *
1606 CTCAATGTTTACATTGAGAAATAC-AAAGAAAAATGCATTCATTTGCAAGAAAAGAT-TATTTAT
64 TTGAATATATACCTTGAGAAA-CCTGAAGAAAAAGGCATTCATTGGCAAGAAAAG-TCCATTTA-
* * *
1669 TA-TCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAAT-AGT
126 TAGTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGA-T
* * * * *
1713 TTTATAATCGT-AAAATTGATTTTAAGTTCAATTTTTTTTGCTTTTTTTGTTAAAACAGATTATA
1 TTTATAATC-TCATAATAGATTTTAAGTTGAA-TTTTTTTACTTTTTTT-TTAAAACAGACTATA
* * * * ** *
1777 ATTGAATATATACATTGAGAAACGTGAAGAAAAAGGTATTAATTGATAAGAAAAGTCCATTTATT
63 ATTGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATA
* *
1842 GTCACCCATT-TCTTCAAAAGCCTTATTACACATTTTAAAT-AGT
128 GTCACCCATTCT-TTCAAAAGCCTTATTACTCACTTTAAATGA-T
* *********** * *
1885 TTTGTAATCTCATAATTNNNNNNNNNNTGAATTTTTTTTACATTTTTCTTTAAAACAAACT-TCA
1 TTTATAATCTCATAATAGATTTTAAGTTGAA-TTTTTTTAC-TTTTTTTTTAAAACAGACTAT-A
* ** * ** * * * * * *
1949 ATTGAACT-TTTGGCTGGAGAAATGTGTAGAAAATGCCATTTATTGAG-AAAAAAAGTTCATTTA
63 ATTGAA-TATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTG-GCAAGAAAAGTCCATTTA
* * * *
2012 TA-TACACCCATTCTTTCAAAAGCGTTATTGCCCACTTTAAATGGT
126 TAGT-CACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGAT
** * * * ** *
2057 TTTATAATCTCATAATTCATTCTAAGTCGAATTTTTTAACATTTTTGCTT-AAACAGACAATAAT
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTAC-TTTTTTTTTAAAACAGACTATAAT
* * ** * ********** *
2121 TGAATGTCTACCTCAAGAAACATGAANNNNNNNNNNTTCATGGGCAAGAAAAGTCC-TCTTATAG
65 TGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCAT-TTATAG
* * **
2185 TCACTCATTCTTTCAAAAGCCTTATTACGCGTTTTAAATGAT
129 TCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGAT
* **
2227 TTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTACCTTTTTGGTTAAAACAGACTATAAT
1 TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTA-CTTTTTTTTTAAAACAGACTATAAT
* * * ** * * *
2291 TGAATATCTACC-TCAGCAAACATGAAGAAAAAGATATTCATTGTCAAGAAAAGTCTATTTACAG
65 TGAATATATACCTTGAG-AAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAG
* *
2355 TCACCCATTCTTTCAAAAGCCTTATTATTCACTTTAAAT-AGN
129 TCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGA-T
********* * ** * *
2397 NNNNNNNNNTCATAATTGATTTTAAGTTGAATTCTTTTATA-TTTTTGGTCAAAACAGACAATAA
1 TTTATAATCTCATAATAGATTTTAAGTTGAATT-TTTT-TACTTTTTTTTTAAAACAGACTATAA
* * * * ** *
2461 TTGAATGTCTACCTTAAGAAACATGAAGAAAAAGATATTCATT-GCTAAGAAAAGACCATTTA
64 TTGAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGC-AAGAAAAGTCCATTTA
2523 NNNNNNNNNN
Statistics
Matches: 1797, Mismatches: 463, Indels: 182
0.74 0.19 0.07
Matches are distributed among these distances:
168 1 0.00
169 82 0.05
170 419 0.23
171 585 0.33
172 572 0.32
173 137 0.08
174 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.38
Consensus pattern (170 bp):
TTTATAATCTCATAATAGATTTTAAGTTGAATTTTTTTACTTTTTTTTTAAAACAGACTATAATT
GAATATATACCTTGAGAAACCTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTC
ACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGAT
Found at i:3634 original size:171 final size:169
Alignment explanation
Indices: 2757--3908 Score: 466
Period size: 170 Copynumber: 6.8 Consensus size: 169
2747 NNNNNNNNNN
* * * * * * * *
2757 TTTTTTTATATTTTTGGTCAAAACAGACTATAATTGAATGTTTACCTCAAGAAACATAAAGAAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACATTAAGAAACGTGAAGAAAA
* * * *
2822 AGACATTCATTGG-ATAGAAAAGTTCATTTATAGTCACCCATACTTTCAAAAGCCTTATTACTCG
65 AGGCATTCATTGGCA-AGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCG
* * * *********** ** *
2886 CTTTGAATGGTTTTATNNNNNNNNNNTTGATTTTAAATTGA-A
129 ATGTAAATGG-TTTATAATCTCATAAGTGATGATAAGTT-ATA
* * * * ** * * * *
2928 TTTTTTTATATTTTTGGTCAAAAGAGACTATTGTTGAATGTTTACCTCGAA-AAACGT-AAAAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACAT-TAAGAAACGTGAAGAAA
*** *
2991 AAGGCATTCATTTAAAAGAAAAGTCCATTTGTAGTCACTCATTCTTTCAAAAGCCTTATTACTCG
64 AAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCG
* * ********* * * **
3056 CTTTAAATGGTTTNNNNNNNNNNTAATTAATTTTAAGTTGA-A
129 ATGTAAATGGTTT-ATAATCTCATAAGTGATGATAAGTT-ATA
* * * * * *
3098 -TTTTTTACATTTTTCATTCAAACAGACTATAATTAAATGGCTACCTCT-AGAAACATGAAGAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACAT-TAAGAAACGTGAAGAAA
* * *** * * * * * *
3161 AAAGCATTTATCAACAAGAAAAGTCCATTTATATTCTCTCATTCCTTCTAAAGACTTATTACTTG
64 AAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCG
* * * * * * ********
3226 ATTTAAAAGATTTTATAATCTCAAAATTGAT-TTNNNNNNNNNN
129 ATGTAAATG-GTTTATAATCTCATAAGTGATGAT--AAGTTATA
* * * * * * * * *
3269 TTTTTTTACTTTTTTGGTTCAAACATATTATAACTGAATGTCTACGTTGAGAAACATGAAGAAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACATTAAGAAACGTGAAGAAAA
*** * * * * * * *
3334 ATATATTTATTAGCAAG-AAAGACTATTTATTA-CCAC-CTATTTCTTT-GAAAGTCTTATTACT
65 AGGCATTCATTGGCAAGAAAAGTCCATTTA-TAGTCACTC-A-TTCTTTCAAAAGCCTTATTACT
* * * * * * **
3395 CGCTTTAAATGATTTTATAATCGCA-AAATTATTTTAAAGTTCA-A
127 CGATGTAAATG-GTTTATAATCTCATAAGTGATGAT-AAGTT-ATA
*** *
3439 TTTTTTTTAGGGCTTTT-GTTAAAACAGATTATAATTGAATGTCTACATTAAGAAACGTGAAGAA
1 -TTTTTTTA-CATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACATTAAGAAACGTGAAGAA
* * * * *
3503 AAAGGCATTCATTGGTACGAAAAGTCCATTTATTGTCACCCATTCTTTCAAAAGCCTAATTACTC
63 AAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTC
* * * * * ***
3568 GCTTTAAA-GAGTTTTGTAATCTCATAATTGATTATAAGTTNNN
128 GATGTAAATG-G-TTTATAATCTCATAAGTGATGATAAGTTATA
******* * * ***
3611 NNNNNNNACATTTTTCTTTAAAACAGACTATAATTGAATCCTTGGTTTGAA-AAACGTGAAGAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAATTC-TACATT-AAGAAACGTGAAGAAA
* * * * * *
3675 AAGGCATTCATTAGCAAGAAATGTCTATTTATACTCACTCTTTCTTTCAAAAGCCTTATTACTCT
64 AAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCG
*
3740 ATGTAAATGGTTTATAATCTCATAAGTGATGGTAAGTTATA
129 ATGTAAATGGTTTATAATCTCATAAGTGATGATAAGTTATA
* * * ** * * *
3781 TTTTTTTATATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCGAGAACCCTAAAGAAAA
1 TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAAT-TCTACATTAAGAAACGTGAAGAAAA
* * *
3846 AGACATTCATTGACAGGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTC
65 AGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTC
3909 ATTTTAANNN
Statistics
Matches: 753, Mismatches: 197, Indels: 63
0.74 0.19 0.06
Matches are distributed among these distances:
168 1 0.00
169 47 0.06
170 294 0.39
171 272 0.36
172 131 0.17
173 8 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (169 bp):
TTTTTTTACATTTTTCGTTAAAACAGACTATAATTGAATTCTACATTAAGAAACGTGAAGAAAAA
GGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGAT
GTAAATGGTTTATAATCTCATAAGTGATGATAAGTTATA
Found at i:5040 original size:169 final size:161
Alignment explanation
Indices: 4775--5102 Score: 387
Period size: 169 Copynumber: 2.0 Consensus size: 161
4765 TTTTATAATC
*
4775 TCATAATTCATTCTAAGTTGAATTTTTTAACATTTTTTACTTAAACAGACTATAATTGAATGTCT
1 TCATAATTCATTCTAAGTTGAATTTTTTAACATTTCTTACTTAAACAGACTATAATTGAATGTCT
* *
4840 ACCTCAAGAAACATGAAAAAAAAAGTATTCATGGGCAAGAAAAGTCCT-CTTATAGTCACTCATT
66 ACCTCAAGAAACATGAAAAAAAAAGTATTCATGGGCAAGAAAAGT-CTACTTACAGTCACCCATT
4904 C-TTCAAAAGCCTTATTATGCGCTTTAAATGA
130 CTTTCAAAAGCCTTATTATGCGCTTTAAATGA
* * * ** *
4935 NNNNNNNNNNTCATAATTGATTTTAAGTTGAATTTTTT-TC-TTTCTTGGTTAAAATAGACTATA
1 ----------TCATAATTCATTCTAAGTTGAATTTTTTAACATTTCTTACTT-AAACAGACTATA
* * *
4998 ATTGAATGTCTACCTCAAGAAACATG-AAGAAAAAGATATTCATTGTCAAGAAAAGTCTACTTAC
55 ATTGAATGTCTACCTCAAGAAACATGAAAAAAAAAG-TATTCATGGGCAAGAAAAGTCTACTTAC
*
5062 AGTCACCCATTCTTTCAAAAGCCTTATTATTCGCTTTAAAT
119 AGTCACCCATTCTTTCAAAAGCCTTATTATGCGCTTTAAAT
5103 AGTTGTATAA
Statistics
Matches: 141, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
168 17 0.12
169 71 0.50
170 53 0.38
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.35
Consensus pattern (161 bp):
TCATAATTCATTCTAAGTTGAATTTTTTAACATTTCTTACTTAAACAGACTATAATTGAATGTCT
ACCTCAAGAAACATGAAAAAAAAAGTATTCATGGGCAAGAAAAGTCTACTTACAGTCACCCATTC
TTTCAAAAGCCTTATTATGCGCTTTAAATGA
Found at i:5313 original size:172 final size:172
Alignment explanation
Indices: 4708--5397 Score: 562
Period size: 172 Copynumber: 4.0 Consensus size: 172
4698 TATTGAGGAA
* * * * * * * *
4708 AAAAGTCCATTTATA-TACACCCATCCTTTCAAAAGCATTATTGCTCACTTTAAAT-GATTTTAT
1 AAAAGTCCACTTACAGT-CACCCATTCTATCAAAAGCCTTATTACTCGCTTTAAATAG-TTGTAT
* * * * *
4771 AATCTCATAATTCATTCTAAGTTGAA-TTTTTTAACATTTTT--TACTTAAACAGACTATAATTG
64 AATCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTTTTGGT-C-AAAACAGACTATAATTG
* * * *
4833 AATGTCTACCTCAAGAAACATGAA-AAAAAAAGTATTCATGGGC-AAG
127 AATGTCTACCTTAAGAAACATGAAGAAAAAGA-CATTCAT-TGCTAAG
* * * ******
4879 AAAAGTCCTCTTATAGTCACTCATTCT-TCAAAAGCCTTATTA-TGCGCTTTAAAT-GANNNNNN
1 AAAAGTCCACTTACAGTCACCCATTCTATCAAAAGCCTTATTACT-CGCTTTAAATAG-TTGTAT
**** * * * * *
4941 NNNNTCATAATTGATTTTAAGTTGAA-TTTTTTTCT-TTCTTGGTTAAAATAGACTATAATTGAA
64 AATCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTTTTGGTCAAAACAGACTATAATTGAA
* *
5004 TGTCTACCTCAAGAAACATGAAGAAAAAGATATTCATTG-TCAAG
129 TGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGCT-AAG
* * *
5048 AAAAGTCTACTTACAGTCACCCATTCTTTCAAAAGCCTTATTATTCGCTTTAAATAGTTGTATAA
1 AAAAGTCCACTTACAGTCACCCATTCTATCAAAAGCCTTATTACTCGCTTTAAATAGTTGTATAA
********** * *
5113 TCTCANNNNNNNNNNTAAGTTGAATTTTTTTTATATTTTTGGTCAAAACATACTATAATTAAATG
66 TCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTTTTGGTCAAAACAGACTATAATTGAATG
* *
5178 TCTACCTTGAGAAACATAAAGAAAAAGACATTCATTGCTAAG
131 TCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGCTAAG
* * ********
5220 AAAAGTCCATTTACAGTCACCTATTCTATCAAAAGCCTTATTACTCGCTTTAAATAGNNNNNNNN
1 AAAAGTCCACTTACAGTCACCCATTCTATCAAAAGCCTTATTACTCGCTTTAAATAGTTGTATAA
** * * *
5285 NNTCATAATTAATTTTAAGTTAAATTTTTTTTATATTTTTGATCAAAACAGACTATAATTGAATA
66 TCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTTTTGGTCAAAACAGACTATAATTGAATG
*
5350 TCTACTTTAAGAAACATGAAGAAAAAGACATTCATTGGC-AAG
131 TCTACCTTAAGAAACATGAAGAAAAAGACATTCATT-GCTAAG
5392 AAAAGT
1 AAAAGT
5398 TCANNNNNNN
Statistics
Matches: 410, Mismatches: 95, Indels: 27
0.77 0.18 0.05
Matches are distributed among these distances:
168 1 0.00
169 77 0.19
170 93 0.23
171 32 0.08
172 204 0.50
173 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.35
Consensus pattern (172 bp):
AAAAGTCCACTTACAGTCACCCATTCTATCAAAAGCCTTATTACTCGCTTTAAATAGTTGTATAA
TCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTTTTGGTCAAAACAGACTATAATTGAATG
TCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGCTAAG
Found at i:7229 original size:172 final size:171
Alignment explanation
Indices: 6586--9465 Score: 1865
Period size: 171 Copynumber: 16.9 Consensus size: 171
6576 NNNNNNNNNN
* * * * ** *
6586 ATAACTGATTATAAGTTGAATTTTTTTACATTTTTCT-TTAAAACAAACTATAATCAAATGT-TT
1 ATAATTGATTTTAAGTTGAATTTTTTTAC-TTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* ** * *
6649 GCTTTAGAAAACGTGAAGAAAAAGGCATTCATTGGC-AGAAAAAGTCCATTTATAGTCACTTATT
65 CCTCGAG-AAACATGAAGAAAAAGGCATTCATTGGCAAG-AAAAGTCCATTTATAGTCACCTATT
* * * **********
6713 ATTTCAAAAGCCTTATTACTCGATGTAAATNNNNNNNNNNTCTC
128 CTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * *
6757 ATAATTGATTGTAAGTTGTATTTTTCTA-TATTTTTTGTTAAAACAGACCATAATTGAATGTCTA
1 ATAATTGATTTTAAGTTGAATTTTTTTACT-TTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * ** * *
6821 CCTTGAGAAACCT-AAGGAAAAAGAAATTCATTGGCATGAAAAGTCCATTTATAGTCACCCATTC
65 CCTCGAGAAACATGAA-GAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTC
* * * * *
6885 TTTTAAAAGCCGTATTTCTAGTTTTAAATGGTTTTATAATCTC
129 TTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
********** * * * ** *
6928 ATAATTGNNNNNNNNNNGAATGTTTTTACATTTTTAGTTAAAACAGACTATTGTTGATTGTCTA-
1 ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTAC
* * * * * * *
6992 CTCGACAAACGTGAAGAAAAATGCATTCATTAGCAAGAAAAGACCATTTATTA-TCACCCATTCC
66 CTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTA-TAGTCACCTATTCT
* * *
7056 TTCAGAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCGC
130 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * *
7098 AAAATTGATTTTAAGTTCAATTTTTTTTACTTTTTTTGTTAAAACAGATTATAATTGAATGTCTA
1 ATAATTGATTTTAAGTTGAA-TTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * * * * *
7163 CATTGAGAAACATGAAGAAAAAGGCATTCATTGGTAAGAGAAGTCCATTTATTGTCACCTATTCC
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCT
* * * * * *
7228 TTCAAAAGTCTTATTTCTCGTTTTATATAGTTTTGTAATCTC
130 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * *
7270 ATAATTGATTATAAGTTAAATTTGTTTACATTTTTCT-TTAAAACAGACTTTAATTGAATTTCTA
1 ATAATTGATTTTAAGTTGAATTTTTTTAC-TTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* ** ** * * *
7334 GCTCGAGAAATGTGTGGAAAATA-CCATTTATTGAG-AA-AAAAGTCCATTTATAGACA-CTCAT
65 CCTCGAGAAACATGAAGAAAA-AGGCATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCT-AT
** *
7395 TCTTTCAAAAGTATTATTGCTCGCTTTAAATGGTTTTATAATCTC
127 TCTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * *********************
7440 ATAATT-CTTTCTAAG-TCAANNNNNNNNNNNNNNNNNNNNNAACAGACTATAATTGAATGTCTA
1 ATAATTGATTT-TAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
** * * * *
7503 CCTTAAGAAACGTGAAGAAAAAAGCATTCATGGGCAAGAACAGTTCTCA--TATAGTCA-CTCAT
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAG-TC-CATTTATAGTCACCT-AT
* *
7565 TCTTCCAAAAGCCTTATTA-TGCGCTTTAAATGATTTTATAATCTC
127 TCTTTCAAAAGCCTTATTACT-CGCTTTAAATGGTTTTATAATCTC
* * * *
7610 ATAATTGATTTTAACTTGATTTTTTTTACCTTTTTAGTTAAAACAGACTATAATTGAATGTCTAC
1 ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTAC
* * * * * *
7675 CTCGAGAAGCATGAAGAAAAAGACATTCACTGGCAAGAAAAGTCCATTTACAGACACCCATTCTT
66 CTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCTT
********** *
7740 TCAAAAGCCTTATTACTCGCTNNNNNNNNNNTTATAATCTT
131 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * *
7781 ATAATTAATTTTAAGTT-AAGTTATTGTTA-TATTTTTTGTCAAAACAGACTATAATTGAATGTT
1 ATAATTGATTTTAAGTTGAA-TT-TTTTTACT-TTTTTTGTTAAAACAGACTATAATTGAATGTC
* * * * * * *
7844 TACTTCAAGAAATATGAA-AAAAAGGACATTCATTAGCAAGAAAAGTTCATTTATTGTCACCCAT
63 TACCTCGAGAAACATGAAGAAAAAGG-CATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTAT
* * * * *
7908 TCTTTCGAAAGCCCTATTA---GCTTTAATTAGTTTTATAATCGC
127 TCTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * ** *
7950 ATAATTGATTTTAAGTTGAATTTATTTA-TATTTTTGCTTCAAATAGACTATTGTTGAATGTTTA
1 ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTG-TTAAAACAGACTATAATTGAATGTCTA
* * ** * * *
8014 CCTCGAGAAACATGAAAAAAAAGACATTCATTGAAAAGAAAAGTCCATTTCTAGTCACCCATTCC
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCT
********** * *
8079 TTNNNNNNNNNNATTACTCGCTTTAAAGGGTTTTATAGTCTC
130 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * * *
8121 ATTATTAATTTTTAGTTGAA-TTTTTTA-TATATTTT-TTAAAACAGGCTATAATTAAATGTCTG
1 ATAATTGATTTTAAGTTGAATTTTTTTACT-TTTTTTGTTAAAACAGACTATAATTGAATGTCTA
** * * * * * *
8183 TTTCTAGAAACGTGAAGAAAAAAGTATTCATTGGCAAGAAAAGTCCATTTATAGTCTCC-ATTCC
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCT
* ***********
8247 TTCAAAAGCCTTCTTACTCGANNNNNNNNNNTTTATAATCTC
130 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * * * * *
8289 AAAATTGATTTTAGGTTTAATTTTTTTACTTTTTTGGTTAAAACATATTATAACTGAATATCTAT
1 ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTAC
* * * * * *
8354 GTC-ATGAAGCATGAAGAAAAATGTATTCATTAGCAAGAAAAGACCATTTATTA-TCACAC-ATT
66 CTCGA-GAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTA-TAGTCAC-CTATT
* *
8416 CTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATATTCGC
128 CTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * ** * * * * *
8460 AAAATTAATTTTGATTTTTATTTTTTTTACTTTTTTGGTTTAAACAGATTATAATTGAATGTCTA
1 ATAATTGATTTT-AAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * * * * * * *
8525 CATTGAGAAACGTGGAGAAAAAGGCATTCATTGGTAAGAAAAGTCTATTTATTGTCACCTATTCC
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCT
* * * *
8590 TTAAAAAGCCTTATTACTCGTTTTAAATAGTTTTGTAATCTC
130 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * *
8632 ATAATTGATTATCAGTTGAATTTTTTTACATTTTTAT-TTAAAACAGACTTTAATTGAATTTTTA
1 ATAATTGATTTTAAGTTGAATTTTTTTAC-TTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * * * * * * * *
8696 GCTCGAG-AA-ATGAGTAGAAAATGCCATTTATTGAG-AAAAAGAAATTCATTTACAGACATCC-
65 CCTCGAGAAACATGA--AGAAAAAGGCATTCATTG-GCAAGAA-AAGTCCATTTATAGTCA-CCT
* *
8757 ATTCTTTCAAAAGCATTATTGCTCGCTTTAAATGGTTTTATAATCTC
125 ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * ** **********
8804 ATAATTCG-TTATAAGTCGAATTTTCTAACATTTTAGGTT-AAACAGACTATANNNNNNNNNNTA
1 ATAATT-GATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * ** **
8867 CCTCAAGAAACATAAAGAAAAAAACATTCA-TGGACAAGAAAAGTCCCCTTATAGTCA-CTCATT
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGG-CAAGAAAAGTCCATTTATAGTCACCT-ATT
* * **********
8930 CTTTCAAAAGCCTTATTACGCACTTTAAATNNNNNNNNNNTCTC
128 CTTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * *
8974 ATAATTGATTTTAAGTTGAATTTTTTTACCTTTTTGGTTAAAGCAGACTATAATTGAATGTCTAC
1 ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTAC
* * * * ** * * * *
9039 CTCAAGAGATATAAAGAAAAAAACATTCATTGGCAAGAAAAGCCCATTTACAGCCAACTATTCTT
66 CTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCTT
*
9104 TCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTC
131 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * *
9145 ATAA-TGAATTTTAAGTTGAAGTTTTTTA-TATTTTTAGTCAAAACAAACTATAATTGAATGTTT
1 ATAATTG-ATTTTAAGTTGAATTTTTTTACT-TTTTTTGTTAAAACAGACTATAATTGAATGTCT
* * * * * **
9208 ACCTCAAAAAACAT---GAAAAAGACATTCATTAGTAAGAAAAGTTTATTTATAGTCACCTATTC
64 ACCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTC
* * *
9270 TTTTAAAAGCCTTATTGCTCGCTTTAAATGGTTTTACAATCTC
129 TTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
* * * * * * * * *
9313 ATAATTAATTTTAAGTTGATTGTTTTTTACATTTTTGGATAAAATAAATTATAGTTGAATGTCTA
1 ATAATTGATTTTAAGTTGAAT-TTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTA
* * * * * ** * * *
9378 CCTCAAGAAACGTGAAGAAAGAGGCATTCGTAGATAAGAAAAGTCTATTTATAGTCACCCATTCC
65 CCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCT
* *
9443 TTCAAAATCTTTATTACTCGCTT
130 TTCAAAAGCCTTATTACTCGCTT
9466 NNNNNNNNNN
Statistics
Matches: 2057, Mismatches: 576, Indels: 151
0.74 0.21 0.05
Matches are distributed among these distances:
167 6 0.00
168 215 0.10
169 219 0.11
170 386 0.19
171 724 0.35
172 500 0.24
173 7 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.37
Consensus pattern (171 bp):
ATAATTGATTTTAAGTTGAATTTTTTTACTTTTTTTGTTAAAACAGACTATAATTGAATGTCTAC
CTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCTATTCTT
TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
Found at i:13154 original size:171 final size:171
Alignment explanation
Indices: 10807--15412 Score: 2308
Period size: 171 Copynumber: 26.9 Consensus size: 171
10797 NNNNNNNNNN
* * * *
10807 ATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGATTTTTCTTGCCAATGAATGCCTTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTC-T
* * * * ** * *
10872 TACAT-TTTC-CAAAGCA-AGCATTCGATTATAGTCTGTTTTAAAGAAAAATGTAAAAAGATTTA
65 T-CATGTTTCTCGAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCA
** * * * *
10934 ACTTCTAATCAGTTATGACATTACAAAGCCATTTAAAGCGAGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* *
10978 ATAAGGCTTTTG-AAGTAATGGGTGA-TAATAAATGGACTTTTCTTGCCAATGAATCTCTTTTTT
1 ATAAGGCTTTTGAAAG-AATGGGTGACT-ATAAATAGACTTTTCTTGCCAATGAATGTC-TTTTT
* * * * * * * *
11041 TTTCATGTTTCTTGAGGTAGACATTCAATTATATTCTATTTTGACCACAAATATAAAAAAAATTA
63 CTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAAATTC
* *
11106 AACTTAAAATCAACTT-TGAGATTATAAAATCATTTAAAGCAAGTA
127 AACTTAAAATCAA-TTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *
11151 ACAAGGCTTTTAAAAGAATGGGTAACTATAAATGGACTTTTCCTACCAATGAATGTCTTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
** * ********** *
11216 CATGTTTCTTAAGGTAGACATTCAATTATAGTTTG-TNNNNNNNNNNATATAAAAAAATTCAACT
66 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
* * * **
11280 TAAAATCAATTATGAGATTATAAAACCGTTTATAGCAAACA
131 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * *
11321 ACAAGGCTTTGGAAAGAATGAGTGACTATAAATAGACTTTTCTTGTCC-ATAAATGTTTTTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTG-CCAATGAATGTCTTTTTCT
* * * *
11385 TCATGTTTATCGAGGTAGACATTCAATTATTGTCTGTTTTTAGCAAAAATGT-AAAAAATTCAAC
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* * **********
11449 TTAAAATCAATTATGAGATCATAAAATCATTNNNNNNNNNNA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * *
11491 ATAAAGCTTCTGAAGGAATGGGTGACTATAAATGGACTTTTGTTGGCTAATGAAT-CCTTTTTTC
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTT-GCCAATGAATGTC-TTTTTC
* ** * * * * * * *
11555 TTTACATTTCTCGAGATAGACATTCAATTATAGACTGTTTTAGCGAAAAATGTTAAACAATTTAA
64 TTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAA
* * * * * *
11620 CTTAAAATTAATTATGAGCTTATAAAACTATTTGAAGCAACTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *
11663 ATACA-GCTTTTGAAAGAATGTGTGACCATAAATAGGCTTTTCTTACCAATGAATGCCTTTTTAT
1 ATA-AGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCT
** * * * * ** *
11727 TC-TCGTTT-TCGATATAAACATTCAACTATAATTTGTTTTAACCAAAAATACAAGAAAATTCAA
65 TCAT-GTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAA
**********
11790 CTTAAAATCAATTATGAGATTATAAAACCNNNNNNNNNNAGTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *
11833 ATAAGGTTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCGAATAAATGTTTTTTTCA
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCC-AATGAATGTCTTTTTCT
* * ** * * ** *
11897 ACATGTTTCCCGAGACA-AGCATTCAATTGTAGTGTGTTTTAA-CAAAAACTGT-TGAAAATTTA
65 TCATGTTTCTCGAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAA-TGTAAAAAAATTCA
* * * *
11959 ACTCAAAATCAATGATGAGATTATAAAACCATTTAAAACGGGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * * *
12003 ATAACGATTTTGAAGGAATTGGTGCCTATACATGGACTTTTCTTGCCAATGAATGCCTTGTTT-T
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTT-TTTCT
* ** * * * * * * *
12067 TC-TCGTTTCTCAACATAGACATTCAACTACAAT-TAGTTTAAACTAGAAATGCAAAAAAATTCA
65 TCAT-GTTTCTCGAGGTAGACATTCAATTATAGTCT-GTTTTAACCAAAAATGTAAAAAAATTCA
* * ***
12130 ACTTAAAATTAATAATGAGATTATAAAACCATTT-AA--G-NNN
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
*****************************
12170 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAAT-GAACTTTTCTTGCCAATGAATGTCTTTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATGTCTTTTTCT
* * * * *
12234 TCATGTTTCTTGAGGCAAACATTCAATTATAGTCTGTTTTGATCAAAAATGTAAAAAAAATT-AA
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* ********* *
12298 CTTAAAATCTATTAT-ANNNNNNNNNNACTATTTAAAGCGAGTA
129 CTTAAAATCAATTATGA-GATTATAAAACCATTTAAAGCGAGTA
* * * * * * *
12341 ATAAGGCTTTCGATAGAATGAGTGACTGTAAATAGACTTTTCTTGGCAATAAATGTATTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * ********** *
12406 CATGTTTCTCAAGGTAGACATTCAATTATAGTATGTTTNNNNNNNNNNTATAAAAAAATTCAACT
66 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
* ** *
12471 GAAAATCAATTATGAGATTATAAAATTATTTAAAGCGAATA
131 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
********** * * *
12512 ATAAGGCTTTTGAAAGAATGGNNNNNNNNNNATGGACTTTTCTTGCCAATGAATGCCTTGTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
** * * * * * ** **
12577 C-TCGTTTCTCGACATAGACATTCAACTACAAT-TGGTTTAAACTAGTAATACAAAAAAATTCAA
66 CAT-GTTTCTCGAGGTAGACATTCAATTATAGTCT-GTTTTAACCAAAAATGTAAAAAAATTCAA
* * * *
12640 CTTAAAATTAATAATGAGATTATAAAACCATTTAAGGTGAGTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * ****
12683 ATAAGGCTTTTGAAAGAATGCGTGACTATAAA-CGAACTTTTCTTGCCAATGAATGTCTTTNNNN
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATGTCTTTTTCT
****** * * * * *
12747 NNNNNNTTCTTGAGGCAGACATTCAATTATAGCCTGTTTTGATCAAAAATGTAAAAAAAAATT-A
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT--AAAAAAATTCA
* ********* *
12811 ACTTAAAATCTATTAT-ANNNNNNNNNNACTATTTAAAGCGAGTA
128 ACTTAAAATCAATTATGA-GATTATAAAACCATTTAAAGCGAGTA
** * *
12855 ATAAGGCTTTTGATAA-AATGAATGACTGTAAATAGACTTTTCTTAG-CAATAAATGTCTTTTTC
1 ATAAGGCTTTTGA-AAGAATGGGTGACTATAAATAGACTTTTCTT-GCCAATGAATGTCTTTTTC
* *********************
12918 TTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGNNNNNNNNNNNNNNNNNNNNNAATTCAA
64 TTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAA
** *
12983 CTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCGAATA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * *
13026 ATAAAGCTTTCGAAAGAATGGGTGACTGTAAATAGACTTTTCTTGACAATGAATGTCTTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * * * * *
13091 CATGTTTCTTGAGGTAGATATTCAATTATAGTCTCTTTTAACCATAAAGGTAAAAATATTCAACT
66 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
********** *
13156 TAAAATCAATTATGAGANNNNNNNNNNATTTAAAGCGCGTA
131 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* ** * * * *
13197 ATAAGGTTTTTGAAAGAATAAGTGATTATAAGA-GGATTTTTCTTGCCCATGAATG-CTTTTTTC
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAA-ATAGACTTTTCTTGCCAATGAATGTC-TTTTTC
********** * * * *
13260 TTNNNNNNNNNNGAGGTAGACATTCAATTATAGTCTG-TTTAAGCAAAAATGTTATAAAATTCGA
64 TTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAA
* * * * *
13324 TTTAGAATGAATTATGAGATTATAAAACCATTTAAAGAGAGCA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *
13367 ATAATGCTTTTGAAAGAATTGGTGTA-TATAAAT-GAACTTTT-TTTCTCAATAAATGGCATTTT
1 ATAAGGCTTTTGAAAGAATGGGTG-ACTATAAATAG-ACTTTTCTTGC-CAATGAATGTCTTTTT
* * ** * **
13429 CTACATATTTCTCGAGCCA-AAAGTTCAATTGA-AGTCTGTTTTAAAGAAAAATGTAAAAAAAAT
63 CTTCATGTTTCTCGAGGTAGACA-TTCAATT-ATAGTCTGTTTTAACCAAAAATGT-AAAAAAAT
********** * * **
13492 TNNNNNNNNNNTCAATTATGAGATTACAAAACTATTTAAAATGAGTA
125 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * ** * * *
13539 ATAAGCCTTTTG-AAGAAATGGGTGACAATAAATAGACTTTTCTTATCAATCACTGCCTTTTTCT
1 ATAAGGCTTTTGAAAG-AATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCT
* ** * * * * * *
13603 TCACGTTTCTTAATGTAGATATTCAATTATAATCTGTTTTAACAAAAAAAGTAAAAAAAATTGAA
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* *
13668 CTTAAAAAATCAATT-TTACTATTATAAAACCATTTAAAGCGAGTA
129 CTT--AAAATCAATTATGA-GATTATAAAACCATTTAAAGCGAGTA
* * *
13713 ATAAGGCTTTTG-AAGAAATTGATGA-TAATAAAT-GATCTTTTCTTGCTAATGAATG-CATTTT
1 ATAAGGCTTTTGAAAG-AATGGGTGACT-ATAAATAGA-CTTTTCTTGCCAATGAATGTC-TTTT
* * * * * * * * * *
13774 CCTTTATATTTCTCAATGTAAACATTCAGTTATAATATGTTTTAACCAAAAAAGTAAAAAATAAT
62 TCTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAA-AAT
* * * ********** **
13839 TAAACTTAAAATCAATTTTGAAATTATAANNNNNNNNNNATTGAGTA
125 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
** * * *
13886 ATAACTCTTTTGAAAGAATAGGAGACTATAAATAAACTTTTCTTGCCAATGAATG-CTTTTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTC-TTTTTCT
* * * * * * *
13950 TAACGTTTCTTGAGCTAGACATTTAATTATAGTCTGTTTTGACGAAAAATGT-AAAAAATTCAAC
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
********** *
14014 TTAAAAGT-ANNNNNNNNNNTATAAAATCATTTAAAGCGAGTA
130 TTAAAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * *
14056 ATAAGG-TATTTGAAAGAATGGGTGACTACAAATAGACCTCTCTTTCCAATGAATG-CTTTTTTC
1 ATAAGGCT-TTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTC-TTTTTC
** * ** * *
14119 TTCACATTTCTCGAAGTAGACATTCAACAATAGTCTGTTTTAATCAAAAATGTAAAAAAATTTAA
64 TTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAA
************* *
14184 CTTAAAATCAATTATGAGNNNNNNNNNNNNNTTAAAACGAGTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * *
14227 ATAAAGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCATACCAATAAATGCCCTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * * * * * *
14292 TAGGTTTCTCGAGGTAGATATTCAATTATAGTCTATTTTAACTAAAAAAGTAGAAAAATAT-AAC
66 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT-TCAAC
** * * *
14356 TTTGAATCACTTATGAGATTATAAAACCATTTACATCGAGTA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * ** *
14398 ATAAGGCTTTTGAAAGAGTGAGTGGGTATAAATAGACATTTCTTGCCAATGAATGTCTTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * * * * *
14463 CACGTTT-TCCAAAGCA-AGGATTCAATTATAGTTTGTTTTAA--AGAAAATGTAAAAAAATTCA
66 CATGTTTCT-CGAGGTAGA-CATTCAATTATAGTCTGTTTTAACCA-AAAATGTAAAAAAATTCA
* * * *
14524 ACTTATACTCAATTATGAGATTACAAAACTATTTAAAGCGAGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* ********* * *
14568 ATTAGGCTTTTGAAAGAATGGGTGA-TANNNNNNNNNNTTTTCTTACCAATGAATGCCTTTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTA-TAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCT
* * * * ********** * * *
14632 TCACGTGTCTCAATGTAGACATTCAATTATNNNNNNNNNNAACAAAAAAAGTAAAAAAAATTAAA
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* * * ** * *
14697 CTTTAAATTAATTTTTTGATTATCAAACTATTTAAAGCGAGTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * *
14740 ATAAGGC-TTTCAAAGGAATAGGTGA-TAATAAATAGTCTTTTCTT-CCTAATGAATATATTTTT
1 ATAAGGCTTTTGAAA-GAATGGGTGACT-ATAAATAGACTTTTCTTGCC-AATGAATGTCTTTTT
* * * * * * * * * *
14802 CTTCATGTTTCTCAACGTATATATTCAGTTATAATATGTTTGAACCAAAAAAGTAAAAAAATTGA
63 CTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCA
* * * ** *
14867 ACTTAAAATCGATTTTGAGATTATAAAATCATTTAAATAGTGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * * * *
14911 ATAAGTCTTTTGAAGGAATGAGAGACTATAAATGGATTTTTCTTGTCGATGAAT-ACTTTTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTC-TTTTTCT
** * * * **
14975 TCACATTTCTAGAGGTAGACATTTAATTATAGTCTGTTTAAATGAAAAATGT-AAAAAATTCAAC
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* **********
15039 TTAAAATTAATTATGAGATTATNNNNNNNNNNAAAGCGAGTA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * ** * **
15081 ATAAGGCTTTTGAATGAATGGGTGACTACAAATGGAATTTTTTTTTCAGTGAATACCTTTTTCTT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * ** * ** * * * *
15146 CACGTTTCTCGTGAAAAACATTCAACAATAGTCTATTTTGACCAAAAATATAAAAAAATTTAACT
66 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
********** * *
15211 TAAAATCNNNNNNNNNNTTATAAAACCATTCAAAACGAGTA
131 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * *
15252 ATAAGGCTTTTGAAAGTATAGGTGACTATAAAT-GAACTTTTCTTACCAATGAATGTC-TTTTCT
1 ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATGTCTTTTTCT
* * * * * *
15315 TCATGTTTCTTGAGGTAAACATTCAATTACAGTCTATTTTGACCAAAAATATAAAAAAAATT-AA
65 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* *
15379 TTTAAAATCAATTATGAGATTATAAAACTATTTA
129 CTTAAAATCAATTATGAGATTATAAAACCATTTA
15413 NNNNNNNNNN
Statistics
Matches: 3231, Mismatches: 1087, Indels: 235
0.71 0.24 0.05
Matches are distributed among these distances:
166 5 0.00
167 80 0.02
168 14 0.00
169 19 0.01
170 1028 0.32
171 1215 0.38
172 504 0.16
173 220 0.07
174 137 0.04
175 9 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.34
Consensus pattern (171 bp):
ATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTT
CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
Found at i:13745 original size:174 final size:173
Alignment explanation
Indices: 13514--13857 Score: 424
Period size: 174 Copynumber: 2.0 Consensus size: 173
13504 CAATTATGAG
* * *
13514 ATTACAAAACTATTTAAAATGAGTAATAAGCCTTTTGAAGAAATGGGTGACAATAAATAGA-CTT
1 ATTACAAAACCATTTAAAACGAGTAATAAGCCTTTTGAAGAAATGGATGACAATAAAT-GATCTT
* * * * * * * * *
13578 TTCTT-ATCAATCACTGCCTTTTTCTTCACGTTTCTTAATGTAGATATTCAATTATAATCTGTTT
65 TTCTTGCT-AATCAATGCATTTTCCTTCACATTTCTCAATGTAAACATTCAATTATAATATGTTT
*
13642 TAACAAAAAAAGTAAAAAA-AATTGAACTTAAAAAATCAATTTTACT
129 TAACAAAAAAAGTAAAAAATAATTAAACTT--AAAATCAATTTTACT
* * * * *
13688 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATTGATGATAATAAATGATCTTT
1 ATTACAAAACCATTTAAAACGAGTAATAAGCCTTTTGAAGAAATGGATGACAATAAATGATCTTT
* * * *
13753 TCTTGCTAATGAATGCATTTTCCTTTATATTTCTCAATGTAAACATTCAGTTATAATATGTTTTA
66 TCTTGCTAATCAATGCATTTTCCTTCACATTTCTCAATGTAAACATTCAATTATAATATGTTTTA
*
13818 ACCAAAAAAGTAAAAAATAATTAAACTTAAAATCAATTTT
131 ACAAAAAAAGTAAAAAATAATTAAACTTAAAATCAATTTT
13858 GAAATTATAA
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
173 14 0.10
174 120 0.83
175 10 0.07
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (173 bp):
ATTACAAAACCATTTAAAACGAGTAATAAGCCTTTTGAAGAAATGGATGACAATAAATGATCTTT
TCTTGCTAATCAATGCATTTTCCTTCACATTTCTCAATGTAAACATTCAATTATAATATGTTTTA
ACAAAAAAAGTAAAAAATAATTAAACTTAAAATCAATTTTACT
Found at i:16930 original size:172 final size:169
Alignment explanation
Indices: 16563--17018 Score: 389
Period size: 172 Copynumber: 2.7 Consensus size: 169
16553 NNNNNNNNNN
* * *
16563 TCTTACCAATGAATG-TCTTTTTCTCCATGTTTCTCAATGTAGACATTCAATTATAATATGTTTC
1 TCTTACCAATGAATGCT-TTTTTCTTCATGTTTCTTAATGTAGACATTCAATTATAATATGTTTT
******** * * * *
16627 AACCAAAANNNNNNNNNNAATTGAACTTAAAATCAATTTTGCGATTATAAAACCATTTAAAGCGA
65 AA-CAAAA--AATAAAAAAATTAAACTTAAAATTAAATTTGAGATTATAAAACCATTTAAAGCGA
* * * ** *
16692 GTAAAAAGGCTTTTAAAGGAATGGGTGATAATAAATGATCTTT
127 GTAAAAAGGCTTCTAAAGCAATGAGAAATAATAAATAATCTTT
* * * * *
16735 TCTTGCTAACGAATGCATTTTTCTTCATGTTTCTTAATGTAGACATTCAGTTATAATATGTTTTA
1 TCTTACCAATGAATGCTTTTTTCTTCATGTTTCTTAATGTAGACATTCAATTATAATATGTTTTA
* * * *
16800 ATCAAAAATGTAAAAAAAATTAAACTTAAAATTAAATTTGAGATTATAAAACTATTTAAATCTAG
66 A-CAAAAA-AT-AAAAAAATTAAACTTAAAATTAAATTTGAGATTATAAAACCATTTAAAGCGAG
* *
16865 TAATAAGGCTTCTCAAGCAATGAGAAACT-ATAAATAAAT-TTT
128 TAAAAAGGCTTCTAAAGCAATGAGAAA-TAATAAAT-AATCTTT
* * * * * * * * * *
16907 TTTTACCAATGAATGCTTTTTTCTTCACGTTTCTTGATATACATATTTAATTATAGTCTATTTTA
1 TCTTACCAATGAATGCTTTTTTCTTCATGTTTCTTAATGTAGACATTCAATTATAATATGTTTTA
* * *
16972 ACAAAAAATATAAAAATTCAACTTAAAATT-AATTATAAGATTATAAA
66 ACAAAAAATAAAAAAATTAAACTTAAAATTAAATT-TGAGATTATAAA
17019 NNNNNNNNNN
Statistics
Matches: 227, Mismatches: 51, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
168 4 0.02
169 30 0.13
170 1 0.00
171 6 0.03
172 183 0.81
173 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.38
Consensus pattern (169 bp):
TCTTACCAATGAATGCTTTTTTCTTCATGTTTCTTAATGTAGACATTCAATTATAATATGTTTTA
ACAAAAAATAAAAAAATTAAACTTAAAATTAAATTTGAGATTATAAAACCATTTAAAGCGAGTAA
AAAGGCTTCTAAAGCAATGAGAAATAATAAATAATCTTT
Found at i:17736 original size:171 final size:170
Alignment explanation
Indices: 17559--17955 Score: 400
Period size: 171 Copynumber: 2.3 Consensus size: 170
17549 NNNNNNNNNN
* *
17559 CCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATGAAACCATTCGAAGCGAGTA
1 CCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA-ATTATAAAACCATTCAAAGCGAGTA
* *
17624 ATAAGGCTTTCGAAAGAATGGGTAACTATAAATGAACTTTTCGTGCCAATGAATGCCTTTTTCTT
65 ATAAGACTTTCGAAAGAATGGGTAACTATAAATGAACTTTTCGTGCCAATGAATGCCTTTTTCTC
* * * **
17689 CATGTTTCTTAAGGTAAACATTCAATTGTAGTCTATTTTGA
130 CATGTTTCTCAAGGTAAACATTCAATTATAATCTATTTCAA
* * ********** *
17730 CCAAAAATACT-AAAAACTTCAACTTAAAATCAATTATGANNNNNNNNNNCATTTTAAAGCGAGT
1 CCAAAAAT-GTAAAAAAATTCAACTTAAAATCAATTATGAATTATAAAACCA-TTCAAAGCGAGT
* * ** * * *
17794 AATAAGACTTTTGAAAGAATGTGTGGCTGTAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCT
64 AATAAGACTTTCGAAAGAATGGGTAACTATAAATGAACTTTTCGTGCCAATGAATGCCTTTTTCT
* * * *
17859 CCATGTTTCTCAATGTAGATATTCAATTATAATCTGTTTCAA
129 CCATGTTTCTCAAGGTAAACATTCAATTATAATCTATTTCAA
* * * * *
17901 CCAAAAAAGGAAAAAAAATTGAACTTAAAATCAATTTTGCCATTATAAAACCATT
1 CC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATG-AATTATAAAACCATT
17956 TNNNNNNNNN
Statistics
Matches: 172, Mismatches: 49, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
170 2 0.01
171 136 0.79
172 32 0.19
173 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.32
Consensus pattern (170 bp):
CCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAATTATAAAACCATTCAAAGCGAGTAA
TAAGACTTTCGAAAGAATGGGTAACTATAAATGAACTTTTCGTGCCAATGAATGCCTTTTTCTCC
ATGTTTCTCAAGGTAAACATTCAATTATAATCTATTTCAA
Found at i:18952 original size:172 final size:161
Alignment explanation
Indices: 18600--18932 Score: 330
Period size: 172 Copynumber: 2.0 Consensus size: 161
18590 TCAATTAAGA
*
18600 GATTATAAAACCATTCAAAGCGAGTAATAAGGCTTTCGAAAGAATGGGTAACTATAAATGAACTT
1 GATTATAAAACCATTCAAAGCGAGTAATAAGACTTTCGAAAGAATGGGTAACTATAAATGAACTT
* *
18665 TTCTGGCCAATGAATGCCTTTTATTTCATGTTTCTTAAGATAAACATTCAATTATAGTCTATTTT
66 TTCTGGCCAATGAATACCTTTTATTTCATGTTTCTCAAGATAAACATTCAATTATAGTCTATTTT
*
18730 GACCAAAAATACTAAAAAATTCAACTTAAAAT
131 AACCAAAAATAC-AAAAAATTCAACTTAAAAT
* * * * * *** *
18762 NNNNNNNNNNATTATAAAAACTATTTAAAGCGAGTAATAAGACTTTTGAATGAATGGGTGGTTGT
1 ---------GATTAT-AAAACCATTCAAAGCGAGTAATAAGACTTTCGAAAGAATGGGTAACTAT
* * * * *
18827 AAATGGATTTTTC-GTGCCAATGAATATCTTTT-TCTTCATGTTTCTCGAGGTAAACATTCAATT
56 AAATGAACTTTTCTG-GCCAATGAATACCTTTTAT-TTCATGTTTCTCAAGATAAACATTCAATT
* *
18890 ATAGTCTGTTTTAACCGAAAAGGTA-AAAAAATTCAACTTAAAA
119 ATAGTCTATTTTAACC-AAAA-ATACAAAAAATTCAACTTAAAA
18933 NNNNNNNNNN
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
171 7 0.05
172 124 0.91
173 4 0.03
174 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.34
Consensus pattern (161 bp):
GATTATAAAACCATTCAAAGCGAGTAATAAGACTTTCGAAAGAATGGGTAACTATAAATGAACTT
TTCTGGCCAATGAATACCTTTTATTTCATGTTTCTCAAGATAAACATTCAATTATAGTCTATTTT
AACCAAAAATACAAAAAATTCAACTTAAAAT
Found at i:19872 original size:171 final size:171
Alignment explanation
Indices: 19460--19896 Score: 420
Period size: 172 Copynumber: 2.5 Consensus size: 171
19450 ATGGGTGACA
* * * * * * *
19460 ATAAATGGACTTTTCTTACCAATGAATGTC-TTTTTC-TC-TGCGTTTTTCAATGTAGACATTTA
1 ATAAATAGTCTTTTCTTGCCAATGAATG-CATTTTTCTTCAT--GTTTCTCAAGGTAAAAATTTA
*
19522 ATTATAATTTGTTTTAACCAAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTACGATTATCA
63 ATTATAATATGTTTTAACC-AAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTACGATTATCA
* * **********
19587 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGANNNNNNNNNN
127 AACCATTTAAAGCGAGTAATAAAGCTTCTGAAGGAATGGAAGACT
* * * * * *
19632 ATAAATAGTCTTTTCTTGCTAATTAATGCATTTTTCTTCATGTTTCTCAATGTAAACATTCAGTT
1 ATAAATAGTCTTTTCTTGCCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAAAAATTTAATT
* *
19697 ATAATATGTTTTAACCAAAAGAGTAAAAAAAATTGAATTTAAAATCAATTTTGA-GATTAT-AAA
66 ATAATATGTTTTAACCAAAA-AGTAAAAAAAATTAAACTTAAAATCAATTTT-ACGATTATCAAA
* *
19760 GCTATTTAAATCGAGTAATAAAGCTTCT-AAGGAATGGAAGACT
129 -CCATTTAAAGCGAGTAATAAAGCTTCTGAAGGAATGGAAGACT
* **
19803 ATAAATAAG-CTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGTAAAAATTTAAT
1 ATAAAT-AGTCTTTTCTTGCCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAAAAATTTAAT
** *
19867 TATAATCCGTTTTAACGAAAAACGTAAAAA
65 TATAATATGTTTTAACCAAAAA-GTAAAAA
19897 CTTCAACTTA
Statistics
Matches: 219, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
170 1 0.00
171 90 0.41
172 124 0.57
173 3 0.01
174 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.37
Consensus pattern (171 bp):
ATAAATAGTCTTTTCTTGCCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAAAAATTTAATT
ATAATATGTTTTAACCAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTACGATTATCAAACC
ATTTAAAGCGAGTAATAAAGCTTCTGAAGGAATGGAAGACT
Found at i:22456 original size:21 final size:21
Alignment explanation
Indices: 22432--22480 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
22422 TTATACACTA
22432 TTTGAAGCAACTAATAAGACT
1 TTTGAAGCAACTAATAAGACT
22453 TTTGAAGCAACTAATAAGACT
1 TTTGAAGCAACTAATAAGACT
22474 TTTGAAG
1 TTTGAAG
22481 GAATGGGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (21 bp):
TTTGAAGCAACTAATAAGACT
Found at i:24311 original size:168 final size:160
Alignment explanation
Indices: 24075--24401 Score: 277
Period size: 168 Copynumber: 2.0 Consensus size: 160
24065 AATTAACTAT
** * *
24075 AAGATTATAAAACTATTTAAAGTAAGTAATAAGGCATTTGAAGGAATGGGTGACTACAAATAGAC
1 AAGATTATAAAACTATTTAAAACAAGAAATAAGGCATTTGAAAGAATGGGTGACTACAAATAGAC
* *
24140 TTTTCTTTCCAAAGAAT-GCCTTTTCTTCACGTTTCTCGAA-TAGACATTCAACAATAATCTGTT
66 TTTTCATGCCAAAGAATAGCCTTTTCTTCACGTTTCT-GAAGTAGACATTCAACAATAATCTGTT
* *
24203 TTAACCAAAAATGT-AAAAAATTCAACTTGA
130 TTAACCAAAAATATAAAAAAATACAACTTGA
* * *
24233 ANNNNNNNNNNAGATTATAAAATTATTTAAAACGAGAAATACA-GCTTTTGAAAGAATGGGTGA-
1 A----------AGATTATAAAACTATTTAAAACAAGAAATA-AGGCATTTGAAAGAATGGGTGAC
* * * * * * * * *
24296 TAATAAATGGACTTTTCATGCCAATGAATATCTTTTTCTTTAGGTTTCTTAAGGTAGACATTCCA
55 T-ACAAATAGACTTTTCATGCCAAAGAATAGCCTTTTCTTCACGTTTCTGAA-GTAGACATTCAA
** * *
24361 TTATAGTCTGTTTTAACTAAAAATATAAAAAAATACAACTT
118 CAATAATCTGTTTTAACCAAAAATATAAAAAAATACAACTT
24402 ACAATCAATT
Statistics
Matches: 129, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
158 1 0.01
167 1 0.01
168 67 0.52
169 16 0.12
170 31 0.24
171 13 0.10
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.33
Consensus pattern (160 bp):
AAGATTATAAAACTATTTAAAACAAGAAATAAGGCATTTGAAAGAATGGGTGACTACAAATAGAC
TTTTCATGCCAAAGAATAGCCTTTTCTTCACGTTTCTGAAGTAGACATTCAACAATAATCTGTTT
TAACCAAAAATATAAAAAAATACAACTTGA
Found at i:26274 original size:170 final size:171
Alignment explanation
Indices: 23063--28112 Score: 2460
Period size: 171 Copynumber: 29.7 Consensus size: 171
23053 NNNNNNNNCT
* * * *
23063 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGGCTGTAAATGAACTTTTCCTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
** * * * * *
23128 AATATCTTTTTCTTCATGTTTGTCGAGGTAAACATTCAATTATAGTTTGTTTTAACCAAAAAGGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
********* * * *
23193 AAAAAANNNNNNNNNNAAAATTAATTATTAGATTATAAAATC
131 AAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * *
23235 ATTTAATG-TATGTAATAAGGCTTTTAAAAGAATGAGTGACTATAAGTGGACTTTTCTTTCCCAT
1 ATTTAAAGCGA-GTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * * ********** *
23299 GAATACTTTTTTCTTCACGTTTCTTGANNNNNNNNNNCAATTATAGTCTG-TTTAACTAAAAATG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * * * *
23363 TTAAAATATTCAACTTAAAATGAAGTATGAGATTATAAAACT
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * * *
23405 ATTTAAAGCGAGCAATAATGCTTTTGAAAGAATGCGTGTCTATAAATGAACTTTTTTTGTCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** *** * * * *******
23470 AATG-ATATTTTCTACTCA--TTTCTCAATCCAAAAATTCAATTAAAGTCTGTTTTAAANNNNNN
66 AATGCCT-TTTTCT--TCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
**** * * * *
23532 NNNNAAAAAATTCAACTTATAATCAATTATGATG-CTACAAAACT
128 TGTAAAAAAATTCAACTTAAAATCAATTATGA-GATTATAAAACC
** * * * * *
23576 ATTTAAAATGAGTAATGAGACTTTT-AAAGGAATGGGTGACAATAAATGAACTTTTCTTACCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * * ** ** * * * * * *
23640 GAATGTCTTTTTCTCCACGTTTCTCAATATAGACTTTTAATTATAATCTATTTTAACTAAAAAAG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * *
23705 TAAAAATTATTGAACTTAAAATCAATT-TTATGA-TAGTAAAACC
130 TAAAAA-AATTCAACTTAAAATCAATTATGA-GATTA-TAAAACC
* * * * * * *
23748 ATTTAAAGTGAGTTATAAGGCTTTTGAAGGAATAGGTGA-TAATAAATAGTCTTTTCTTGCTAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACT-ATAAATGGACTTTTCTTGCCAAT
* ** * * * * * * *
23812 GAATGCATTTTT-TTCATGTTTCTCAATGTAAACATTCAGTTATAATATGTTTTAACTAAAAAAG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* ********** *
23876 TAAAAAGAATTGAACTTAAAATCAATNNNNNNNNNNTAAAACT
130 TAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
23919 ATTTAAATCGAGTAATAAGGCTTCT-AAAGGAATGAGAGACTATAAAT-AAGCTTTTCTTGCCAA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATAAATGGA-CTTTTCTTGCCAA
* * * * * * * * *
23982 TGAATGCTTTTTTCTTCACGTTTCATGAGGTAAAAATTTAATTATAGTATATTTTAACGAAAAAT
64 TGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * * * *
24047 GT-AAACACTTCAACTTAAAATTAACTATAAGATTATAAAACT
129 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
** * * * * * *
24089 ATTTAAAGTAAGTAATAAGGCATTTGAAGGAATGGGTGACTACAAATAGACTTTTCTTTCCAAAG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * ** *
24154 AATGCC-TTTTCTTCACGTTTCTCGA-ATAGACATTCAACAATAATCTGTTTTAACCAAAAATGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* ********** **
24217 -AAAAAATTCAACTTGAANNNNNNNNNNAGATTATAAAATT
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * *
24257 ATTTAAAACGAGAAATACA-GCTTTTGAAAGAATGGGTGA-TAATAAATGGACTTTTCATGCCAA
1 ATTTAAAGCGAGTAATA-AGGCTTTTGAAAGAATGGGTGACT-ATAAATGGACTTTTCTTGCCAA
** * * * * *
24320 TGAATATCTTTTTCTTTAGGTTTCTTAAGGTAGACATTCCATTATAGTCTGTTTTAACTAAAAAT
64 TGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * *
24385 ATAAAAAAATACAACTTACAATCAATTATGAGATTATAAAACC
129 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * **********
24428 ATTTACATCGAGCAATAAGGCTTTAGAAAGAATGAGTGACTATAAATAGACTTNNNNNNNNNNTG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
** * *** ** * ** *
24493 AATATCTTTTTCTTCACGTTTTCCAAAGCAAG-CATTCAATTATAATCTGTTTTAAAGAAAAATA
66 AATGCCTTTTTCTTCATG-TTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
*********** * * *
24557 TAAAAAANNNNNNNNNNTAATCAGTTATGAGATTACAAAGCC
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * *
24599 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACAAAAAATAGACTTTTCTTGTCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * ** * * * * * *
24664 AATCCCTTTTTTTTCATGTTTCTCAAGGTAGATATTCAATTATATTCTATTTTGACCACAAATAT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* * ********** *
24729 AAAGAAAATTGAACTTAAAATCAATTTTGNNNNNNNNNNACT
131 AAA-AAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * **********
24771 ATTTAAAGCGAGTAACAAGGCATTTAAAAGAATGGGTGACTATAAATGAACTTNNNNNNNNNNTG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * * *
24836 AATGTCTTTTTCTTCATGTTTCTTAATGTAAACTTTCAATTATAGTTTGTTTTAA-CACAAATAG
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT-G
* ** *
24900 -AAAAAAATTTAAAATAAAATCAATTATGAGATTATAAAATC
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * *
24941 GTTTATAGCGAATAATAAGGCTTTGGAAAGAATGAGTGACTATATAA-GGAATTTTCTCAT-CC-
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATA-AATGGACTTTTCT--TGCCA
* ** * * ** * *
25003 TTGAATGTTTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATTA-TCTATTTTCACCAAAA
63 ATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTA-TAGTCTGTTTTAACCAAAA
25067 ATGT-AAAAAATTCAACTTAAAATCAATTATGA-A--AT-----C
127 ATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
25103 ATTAAAAGCAAGTAATAAGGCTTTTGAAGGAAT-GG-GACTATAAATGAACTTTT-TT--TAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** ** * * * * * *
25163 AATGTCTTTTTCTTCAAATTTCTCAAGGTAGGCATTTAATGATAGGCTATTTTAACCAAAAAT-A
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* *
25227 AAAAACAATTCAACTTAAAATCAATTATGAGCTTATAAAACT
131 AAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * **********
25269 ATTTGAAGTGACTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACNNNNNNNNNNAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * * * *
25334 AATGCCTTTTTCTTC-TCGTTTCTCGACATAGACATTCAACTCTAATTTGTTTTAACCAAAAATA
66 AATGCCTTTTTCTTCAT-GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* *
25398 TAAAAAAATTCGACTTAAAATCAATTAT-AGAATTATAAAACT
130 TAAAAAAATTCAACTTAAAATCAATTATGAG-ATTATAAAACC
* ********** ** * *
25440 ATTTAAAGTGAGTAATAAGGNNNNNNNNNNAATAAGAGACTATAAATAGACTTTTCTT-CCGAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCC-AAT
* *** ** ** ** * **
25504 AAATATTTTTTTCAACATGTTTCCCGAGACA-AGCATTCAATTATAGTCTGTGTTAATGAAAAAT
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAAT
** * **********
25568 -TTTAAAAATTCAACTCAAAATCAATTANNNNNNNNNNAAACC
129 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * **********
25610 ATTTAAAGCGGGTAATAAAG-ATTTGAAGGAATGGGTGACTATAAANNNNNNNNNNTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * * * *
25674 AATGTCTTTTTCTTC-TCGTTTCTTGATATAGACAATCAACTGTAATTTGTTTTAACCAAAAATG
66 AATGCCTTTTTCTTCAT-GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* *******
25738 CAAAAAAATTCAACTTAAAATCAATTATGAGATTANNNNNNN
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
*** * * *
25780 NNNTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTT-TTAGTCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTT-GCCAAT
* ** * * *********** *
25844 AAATATCTTTTTCTTCATGTTTCTCGAGATAGATNNNNNNNNNNAGTCTGTTTTAACTAAAAATG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * ** * *
25909 TAAAAACATTTAACAAAAAATCAATGATGAGATTATAAAACT
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * ********** *
25951 ATTTAAAGTGAGTAATAAGGATTTTGAAGGAATAGGTGACNNNNNNNNNNCTTTTCTTGCCCATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * *
26016 AATGCCTTTTTCTTCATGTTTCTCGA-GTAGACATTTAACTATAATTTGTTTTAACCAAAAATGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* ********** *
26080 GAAAAAATNNNNNNNNNNATCAATTATGAGATTATAGAACC
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
** * * *
26121 ATCCAAAGCGAGTAATAAGGCCTTCGAAAGAATGGGTGACTATAAATGGACATTTCTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * *
26186 AATGTCTATTTGTTCATGTTTCTTGA-GTAAACACTCAATTATAGTCTGTTTTAACCTAAAATGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* * * *
26250 AAAACAATTTAATTTAAAATCAATTATGAGATTATAAAATC
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* ********** * *
26291 ACTTAAAGCGAGTANNNNNNNNNNTGAAAGAATGGGTGACTGTAAATAGACTTTTCTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * *
26356 AATGCCCTTTTCTTCATGCTTCTTGAGGTAGACATTCAATTATTGTCTGTTTTCACAAAAAATGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* *
26421 -GAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACC
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
********** * * *
26461 ATTNNNNNNNNNNAATAAGGCTTTTGAAAGAATGGGTGACTGTAAATGGACTTTTTTTTACCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGAC-TTTTCTTGCCAAT
* ** * *
26526 GAATACC-TTTTCTTCACATTTTTTGAGGTAGACATTCAATTATAGCCTGTTTTAACCAAAAATG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * * * *******
26590 TACAACAATTTAACTTAAAATCAATTATGAGCTTANNNNNNN
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
*** * * * *
26632 NNNTGAAGCGACTAATAAGGCTTTT-AAAGGAATGGATGACTATAAATGGACTTTTCTCGCCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
*** * * *
26696 GAATGCCTTTTTCTTCCCATTTCTCGAGGTGGACATTCAATTATAATCTGTTTTAACCAAAAATG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * ********** * *
26761 CAAAAAAAAATCAACNNNNNNNNNNTTATAAGATTATAAAATC
130 -TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * * *
26804 ATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGAGAGACTATAAATGGACTTTTCTTTCGAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * ** **
26869 AATG-TTTTTTACAACATGTTTTCCATGA-CAAG-CATTCAATTATAGTCTGTTTTAATAAAAAA
66 AATGCCTTTTT-CTTCATG-TTT-CTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * * * * *
26931 TAT-TAAAAATTCAACTCATAATTAATTATGAGATTATACAACC
128 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * **********
26974 ATTT-AAGCGGGTAATAAGGATTTTGAAGGAATGGGTGACTATAAANNNNNNNNNNTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * * * * *
27038 AATGCTTTTTTCTTC-TCGTTTCTTGATATGGACATTCAACTATAATTTGCTTTAACCAAAAAAG
66 AATGCCTTTTTCTTCAT-GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* ***********
27102 TAAAAAAATTTAACTTAAAATCAATTATGAGNNNNNNNNNNT
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * *
27144 ATTTAAAGCGAGTAATAAGGCCTTTGAAAGAATGGGTGACTATAGATGAACTTATCTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * ** * * **
27209 AATGTCTTTTTCTTCATGCTTCTCAAGGTAAACATTCACTTATAGTCTGTTTTAATAAAAAATGT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* * *
27274 AAAAAAATTTAA-TAGAAAATCAATTATGAGATTATAAAACG
131 AAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACC
* * * * *
27315 TTTTAAAGCAAGTAAAAAGGATTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGTCC-AT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTG-CCAAT
* * * * * * * *
27379 GAATGCCTTTTTCTTCACGTTTCATGGGGCAGACATTCAACTATAATCAGTTTTAACCTAAAATG
65 GAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
********** *
27444 TAAAAAAATTCAACTTANNNNNNNNNNTGAGATTGTAAAACC
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * *
27486 ATTCAATGCAAGTAATAAGGCTTTCGAAAGAATGGGTGACCATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
********** * * * * * * *
27551 AANNNNNNNNNNTTCAGGTTTCTTGATGTAAACACTCAGTTATAGTCTGTTTTAACCAAATATAT
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* * * * *
27616 AACAAAATTCAAATTCAAATTAATAATGAGATTATAAAACC
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * **********
27657 ACTTAAAGCAAGTAATAAGGCTTTTGAAAGAATGGGNNNNNNNNNNTGGACTTTTCTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
** * * * * * *
27722 AATGTTTTTTTCTTAATGCTTCTCGAGGTAGACATTCAATTATTGTCTAG-TTTCACCAAAAATA
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCT-GTTTTAACCAAAAATG
* ** * ***
27786 T-AAAACATTCAACCAAAAATTAATTATGAGATTATAAANNN
130 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
******* * * * * * * * * *
27827 NNNNNNNGCGAGAAATAAGGCTTTCGAAGGAATGAGTGATTGTAAATGGACTTTTTTTTCTAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * * * * * *
27892 AATGCATTTTTC-TCACATTTCTCGAGGCAAACGTTCAATTATAGCCTGTTTTAATCAAAAATGG
66 AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
* *
27956 AAAAGAATTCAACTTAAAATCAATTATGAGTTTATAAAACC
131 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
27997 ATTTGAAGCGACTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTTGTCAAT-
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * *
28061 AATGCC-TTTTCTTC-TCATTTCTTGAGGTAGACATTCAATTATAATCTATTTT
66 AATGCCTTTTTCTTCAT-GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTT
28113 CTTTCAAATA
Statistics
Matches: 3527, Mismatches: 1251, Indels: 203
0.71 0.25 0.04
Matches are distributed among these distances:
156 2 0.00
157 58 0.02
158 24 0.01
159 3 0.00
160 13 0.00
161 3 0.00
162 27 0.01
166 28 0.01
167 9 0.00
168 133 0.04
169 244 0.07
170 1038 0.29
171 1497 0.42
172 437 0.12
173 8 0.00
174 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.33
Consensus pattern (171 bp):
ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
AATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
Found at i:30402 original size:341 final size:340
Alignment explanation
Indices: 29600--31762 Score: 1638
Period size: 341 Copynumber: 6.4 Consensus size: 340
29590 NNNNNNNNNN
* * * **
29600 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATCCCTTTTTCTTCTCATTTCTTGACA
1 GGAATGGGTGACTATAAATGGACTTTTCTTG-CAATGAATGCCTTTTTCTTCTCGTTTCTAGAGG
* * ********
29665 TAGACATTCAATTATAATTTGTTTTAACCAAAAATACAAAAAAATTCAACTTAAAATNNNNNNNN
65 TAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATG
****** * ** * *
29730 NNNNNNTAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATCAGAGACTATAAATTGACT
130 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACT
* ** * * * ** *
29795 TTTCTT-CAGAAAAAATAT-TTTTT-TTAACATGTTTCCCGAGACA-AGCATTCAATTATAGTTT
195 TTTCTTGC-CAATGAATGTCTTTTTCTT--CATGCTTCTCGAGGTAGA-CATTCAATTATAGTCT
* * ** * * * *
29856 GTGTTAA-AAAAAAT-TTTAAAAATTCAACTCAAAATCAATTATGGGATTATAAAACCATTTAAA
256 GTTTTAACCAAAAATATAAAAAAATTTAAC-AAAAATCAATTATGAGATTATAAAACTATTTAAA
* *
29919 GTGGGTAATAAGGATTTTGAA
320 GCGAGTAATAAGGATTTTGAA
* ********** * **
29940 GGAGTGGGTGACTATAANNNNNNNNNNCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCTTGATA
1 GGAATGGGTGACTATAAATGGACTTTTCTTG-CAATGAATGCCTTTTTCTTCTCGTTTCTAGAGG
** * * * *
30005 TAGACATTCAACTATAATTTGTTTTAAGTACAAATGCAAAACAATTC-GCTTAAAATCAATTATA
65 TAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATG
* * * * **********
30069 AGATTATAAAACTATTTAAAGTGTGTAATTAGGCTTTTGAAAGAATNNNNNNNNNNAAATGGACT
130 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACT
* * *
30134 TTTCTTGCCAATGAGTGTCTTTTTCTTCATGCTTCTCGAGATACACATTCAATTATAGTCTGTTT
195 TTTCTTGCCAATGAATGTCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
* *********
30199 TAACCAAAAATGTAAAAAAATTTAACAAANNNNNNNNNNTGAGATTATAAAACTATTTAAAGCGA
260 TAACCAAAAATATAAAAAAATTTAACAAA-AATCAATTATGAGATTATAAAACTATTTAAAGCGA
30264 GTAATAAGGATTTTGAA
324 GTAATAAGGATTTTGAA
* ** *** * *
30281 GGAATGGGCGACTATAAATAAACTTTTCTTGTTGTGAATGTCTTTTTCTTCACGTTTCTAGAGGT
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCAATGAATGCCTTTTTCTTCTCGTTTCTAGAGGT
* *
30346 AGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTTAACCTAAAATCAATTATGA
66 AGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATGA
* * * ** ** * **********
30411 TATTGTAAACCCATCCAAAATGAGTAATAAGGGTTTTGAAAGAATNNNNNNNNNNAAATGGACTT
131 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTT
* * * * * *
30476 TTCTTGCCAATGAATCTCTTTTTGTTCATGTTTCTTGAGGTAGACACTCAATTATAGTATGTTTT
196 TTCTTGCCAATGAATGTCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
* * ********* * *
30541 TATCAAAAATATAAAAAAATTTAACNNNNNNNNNNTTATGAGATTATAAAACCACTTAAAGCGAG
261 AACCAAAAATATAAAAAAATTTAAC-AAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAG
*
30606 TAATAAGGCTTTTGGAA
325 TAATAAGGATTTT-GAA
* * * * *
30623 -GAATGGGTGACTGTAATTAGCCTTTTCTTGCCAATGAATG---TCTT-TT-TC--TT-T--A--
1 GGAATGGGTGACTATAAATGGACTTTTCTTG-CAATGAATGCCTTTTTCTTCTCGTTTCTAGAGG
* ** * * ** *
30675 T-G-C-TTCAATTATTGTTTGTTTTCATCAAAAATG-TGAAAAATTCAACCTAAAATCAATTATG
65 TAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATG
* ********** *
30736 AGAATATAAAACCATNNNNNNNNNNTAATAAGGCTTTTGAAAGAATGGGTGACTGTAAATGGACT
130 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACT
* * *** * *
30801 TCTTTTTGCCAATGAATGTCTTTTTTTTCACATTTCTCGAGGTAGACATTTAATTATAGCCTGTT
195 T-TTCTTGCCAATGAATGTCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * * * * *
30866 TTAACTAAAAATATAAAACACTTTAACTTAAAATCTATTATGAGCTTATAAAACTATTTAAAGCG
259 TTAACCAAAAATATAAAAAAATTTAAC-AAAAATCAATTATGAGATTATAAAACTATTTAAAGCG
* *
30931 ACTAATAAGGCTTTTGAA
323 AGTAATAAGGATTTTGAA
* * * * * * * *
30949 GAAATAGATGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTATTCTCATTTCTCA-AT
1 GGAATGGGTGACTATAAATGGACTTTTCTT-GCAATGAATGCCTTTTTCTTCTCGTTTCT-AGAG
* * * ** *
31013 GTGGACATTCAATTATAATATGTTTTAATAAAAAATGCAAAAACAATTCAACTTAAAATCAATTT
64 GTAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAA-AATTCAACTTAAAATCAATTA
* * * *
31078 TAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGA
128 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGA
* * ** * * * * *
31143 CTTTTCTT-CCTAATAAATGTTTTTTTCAACGTG-TTTTCGAAG-ACAAGCATTCAATTATAGTT
193 CTTTTCTTGCC-AATGAATGTCTTTTTCTTCATGCTTCTCGAGGTA-GA-CATTCAATTATAGTC
** * * * * * * * *
31205 TGTTTTAATGAGAAATGT-TAAAAATTCAACTCATAATTAATTATGAGATTATAAAACCATTTAA
255 TGTTTTAACCAAAAATATAAAAAAATTTAAC-AAAAATCAATTATGAGATTATAAAACTATTTAA
*
31269 AGCGGGTAATAAGGATTTTGAA
319 AGCGAGTAATAAGGATTTTGAA
* **
31291 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCTTGACA
1 GGAATGGGTGACTATAAATGGACTTTTCTTG-CAATGAATGCCTTTTTCTTCTCGTTTCTAGAGG
* * * *
31356 TGGACATTCAACTATAATTTGCTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTACG
65 TAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATG
* * *
31421 AGATTATAAAACCATTTAAAGCGAGTAATAAGG-TCTTTGAAAGAATGGATGACTATAGATGAAC
130 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTTGAAAGAATGGGTGACTATAAATGGAC
* * * * *
31485 TTTTCTTGCTAATGAATATCTTTTTCTTCATACTTCTCAAGGTAGACATTCACTTATAGTCTGTT
194 TTTTCTTGCCAATGAATGTCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * *
31550 TTAACTAAAAATTTAAAAAAATTTAACAGAAAATCAATTATGAGATTAT-AAACTATTTAAAGTG
259 TTAACCAAAAATATAAAAAAATTTAACA-AAAATCAATTATGAGATTATAAAACTATTTAAAGCG
31614 AGTAA-AAGGGATTTTGAA
323 AGTAATAA-GGATTTTGAA
* * * * *
31632 GGAATGGCTGACTATAAATGGACTTTTCTTACCCATGAATACCTTTTTCTTCCCGTTTC-ATGAG
1 GGAATGGGTGACTATAAATGGACTTTTCTT-GCAATGAATGCCTTTTTCTTCTCGTTTCTA-GAG
* * * * * *
31696 GTAAATATTCAACTATAGTCTGTTTTAACCTAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
64 GTAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTAT
31761 GA
129 GA
31763 NNNNNNNNNN
Statistics
Matches: 1434, Mismatches: 344, Indels: 89
0.77 0.18 0.05
Matches are distributed among these distances:
326 69 0.05
327 169 0.12
328 1 0.00
329 1 0.00
330 4 0.00
331 2 0.00
332 3 0.00
334 3 0.00
335 3 0.00
337 2 0.00
338 2 0.00
339 100 0.07
340 178 0.12
341 554 0.39
342 224 0.16
343 48 0.03
344 71 0.05
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.35
Consensus pattern (340 bp):
GGAATGGGTGACTATAAATGGACTTTTCTTGCAATGAATGCCTTTTTCTTCTCGTTTCTAGAGGT
AGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTT
TTCTTGCCAATGAATGTCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
AACCAAAAATATAAAAAAATTTAACAAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGT
AATAAGGATTTTGAA
Found at i:30438 original size:170 final size:171
Alignment explanation
Indices: 29600--31762 Score: 1479
Period size: 171 Copynumber: 12.8 Consensus size: 171
29590 NNNNNNNNNN
** * * * **
29600 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATCCCTTTTTCTTCTCATTTCTTGACA
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* ** ********
29665 TAGACATTCAATTATAATTTGTTTTAACCAAAAATACAAAAAAATTCAACTTAAAATNNNNNNNN
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
******
29730 NNNNNNTAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
** * * * ** * * **
29771 GGAATCAGAGACTATAAATTGACTTTTCTT-CAGAAAAAATAT-TTTTT-TTAACATGTTTCCCG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGC-CAATGAATGTCTTTTTCTT--CACGTTTCTAG
** * * ** *
29833 AGACA-AGCATTCAATTATAGTTTGTGTTAA-AAAAAAT-TTTAAAAATTCAACTCAAAATCAAT
63 AGGTAGA-CATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* * * *
29895 TATGGGATTATAAAACCATTTAAAGTGGGTAATAAGGATTTTGAA
127 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* ********** * * * **
29940 GGAGTGGGTGACTATAANNNNNNNNNNCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCTTGATA
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * ** * * * * *
30005 TAGACATTCAACTATAATTTGTTTTAAGTACAAATGCAAAACAATTC-GCTTAAAATCAATTATA
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * *
30069 AGATTATAAAACTATTTAAAGTGTGTAATTAGGCTTTTGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* ********** * * * * *
30110 AGAATNNNNNNNNNNAAATGGACTTTTCTTGCCAATGAGTGTCTTTTTCTTCATGCTTCTCGAGA
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * * ********
30175 TACACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTTAAC--AAANNNNNNNNNN
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAA--ATCAATTA
* *
30238 TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGATTTTGAA
129 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* ** ***
30281 GGAATGGGCGACTATAAATAAACTTTTCTTG-TTGTGAATGTCTTTTTCTTCACGTTTCTAGAGG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * * * *
30345 TAGACATTCAACTATAATTTGTTTTAACCAAAAATGCAAAAAAATTTAACCTAAAATCAATTATG
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * ** ** *
30410 ATATTGTAAACCCATCCAAAATGAGTAATAAGGGTTTTGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* ********** * * * *
30451 AGAATNNNNNNNNNNAAATGGACTTTTCTTGCCAATGAATCTCTTTTTGTTCATGTTTCTTGAGG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * * * * * **********
30516 TAGACACTCAATTATAGTATGTTTTTATCAAAAATATAAAAAAATTTAACNNNNNNNNNNTTATG
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
*
30581 AGATTATAAAACCACTTAAAGCGAGTAATAAGGCTTTTGGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT-GAA
* * * *
30623 -GAATGGGTGACTGTAATTAGCCTTTTCTTGCCAATGAATGTC--TTT-TT--C--TT-T--A--
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * * * *
30675 T-G-C-TTCAATTATTGTTTGTTTTCATCAAAAATGT-GAAAAATTCAACCTAAAATCAATTATG
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* **********
30736 AGAATATAAAACCATNNNNNNNNNNTAATAAGGCTTTTGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * * * *
30777 AGAATGGGTGACTGTAAATGGACTTCTTTTTGCCAATGAATGTCTTTTTTTTCACATTTCTCGAG
1 GGAATGGGTGACTATAAATGGACTT-TTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAG
* ** * * * * * *
30842 GTAGACATTTAATTATAGCCTGTTTTAACTAAAAATATAAAACACTTTAACTTAAAATCTATTAT
65 GTAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * *
30907 GAGCTTATAAAACTATTTAAAGCGACTAATAAGGCTTTTGAA
130 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * * ** * * * *
30949 GAAATAGATGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTATTCTCATTTCTCA-AT
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCT-AGAG
* * * ** * *
31013 GTGGACATTCAATTATAATATGTTTTAATAAAAAATGCAAAAACAATTCAACTTAAAATCAATTT
65 GTAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAA-AATTCAACTTAAAATCAATTA
*
31078 TAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
129 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * * *
31121 GGAATGAGAGACTATAAATGGACTTTTCTT-CCTAATAAATG--TTTTT-TTCAACGTGTTTTCG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCC-AATGAATGTCTTTTTCTTC-ACGT-TTCTAG
* * ** * * * * *
31182 AAG-ACAAGCATTCAATTATAGTTTGTTTTAATGAGAAATGT-TAAAAATTCAACTCATAATTAA
63 AGGTA-GA-CATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAA
* *
31245 TTATGAGATTATAAAACCATTTAAAGCGGGTAATAAGGATTTTGAA
126 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * **
31291 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCTTGACA
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
* * * * *
31356 TGGACATTCAACTATAATTTGCTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTACG
66 TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
31421 AGATTATAAAACCATTTAAAGCGAGTAATAAGG-TCTTTGAA
131 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTTGAA
* * * * * * ***
31462 AGAATGGATGACTATAGATGAACTTTTCTTGCTAATGAATATCTTTTTCTTCATACTTCTCA-AG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCT-AGAG
* * * * * **
31526 GTAGACATTCACTTATAGTCTGTTTTAACTAAAAATTTAAAAAAATTTAACAGAAAATCAATTAT
65 GTAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * *
31591 GAGATTAT-AAACTATTTAAAGTGAGTAA-AAGGGATTTTGAA
130 GAGATTATAAAACCATTTAAAGCGAGTAATAA-GGCTTTTGAA
* * * ** *
31632 GGAATGGCTGACTATAAATGGACTTTTCTTACCCATGAATACCTTTTTCTTCCCGTTTC-ATGAG
1 GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTA-GAG
* * * * *
31696 GTAAATATTCAACTATAGTCTGTTTTAACCTAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
65 GTAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
31761 GA
130 GA
31763 NNNNNNNNNN
Statistics
Matches: 1507, Mismatches: 430, Indels: 111
0.74 0.21 0.05
Matches are distributed among these distances:
154 3 0.00
155 62 0.04
156 43 0.03
157 1 0.00
158 4 0.00
159 3 0.00
161 2 0.00
163 3 0.00
164 3 0.00
166 1 0.00
168 4 0.00
169 114 0.08
170 530 0.35
171 533 0.35
172 198 0.13
173 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
GGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTAGAGG
TAGACATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
Found at i:32172 original size:171 final size:171
Alignment explanation
Indices: 31863--32654 Score: 726
Period size: 171 Copynumber: 4.6 Consensus size: 171
31853 NNNNNNNNNN
* * *
31863 AAAGAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTTTA-GTTTCTTG
1 AAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTC-TTCACATTTCTTG
* * * * *
31927 AGATAGACATTCAATTATAGTCTG-TTATAATAAAAAATATAAAAAAATTCAA-TCAAAAATGAA
65 AGGTAGACATTCAATTATAGTCTGTTTA-AACAAAAAATGTAAAAAAATTCAACT-TAAAATTAA
*
31990 TTATGAGATTATAAATCTATTTAAAGCGCA-TAATAAGGCTTTTG
128 TTATGAGATTATAAAACTATTTAAAGCG-AGTAATAAGGCTTTTG
* * * * *
32034 AAATAATGAGTGACTATAAATAGACTTTTTTTGCCCATGAATG-CTTTATTCTTCACGTTTCTTG
1 AAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTT-TTCTTCACATTTCTTG
* *
32098 AGGTAGACATTCAATTATTGTCTGTTTAAACAAAAAATGTAAAAAAATTTAACTTAAAATTAATT
65 AGGTAGACATTCAATTATAGTCTGTTTAAACAAAAAATGTAAAAAAATTCAACTTAAAATTAATT
* * * *
32163 ATTAGATTATAAAACCACTTAAAGCGAGTAATAAGACTTTTG
130 ATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
********** * * *
32205 NNNNNNNNNNTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTGCTTCATACTTCTTGA
1 AAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACATTTCTTGA
* * * * *
32270 GGTAGACATTCAATTATTA-TCTATTTTCATC-AAAAATGT-AAAAAATTCAACCTAAAATAAAT
66 GGTAGACATTCAATTA-TAGTCT-GTTTAAACAAAAAATGTAAAAAAATTCAACTTAAAATTAAT
**********
32332 TATGAGANNNNNNNNNNATTTAAAGCGAGTAATAAGGCTTTTG
129 TATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
* ** ** * * *
32375 AAGGAATGAGTGACCGTAAATAAACTTTTTTTTGCCATTGAATGCCTATTTT-TTCACATTTCTC
1 AAAGAATGAGTGACTATAAATGGAC-TTTTCTTGCCAATGAATGTCT-TTTTCTTCACATTTCT-
* * * * * * *
32439 T-TGGTAGACATTCAATTATAGCCTATTTTAACCAAAAATGGAAAACAATTCAACTTAAAATTAA
63 TGAGGTAGACATTCAATTATAGTCTGTTTAAACAAAAAATGTAAAAAAATTCAACTTAAAATTAA
* * * * *
32503 TTATGAGCTTATAAAACTATTTGAAGCAATTAATAAGGCTTTCG
128 TTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
* * * *
32547 -AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATG-CGTTTTTCTTCTCATTTCTTG
1 AAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTC-TTTTTCTTCACATTTCTTG
* * *
32610 AGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAA
65 AGGTAGACATTCAATTATAGTCTGTTTAAACAAAAAATGTAAAAA
32655 NNNNNNNNNN
Statistics
Matches: 487, Mismatches: 117, Indels: 35
0.76 0.18 0.05
Matches are distributed among these distances:
169 6 0.01
170 141 0.29
171 274 0.56
172 66 0.14
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.36
Consensus pattern (171 bp):
AAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACATTTCTTGA
GGTAGACATTCAATTATAGTCTGTTTAAACAAAAAATGTAAAAAAATTCAACTTAAAATTAATTA
TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
Found at i:32500 original size:342 final size:338
Alignment explanation
Indices: 31864--32654 Score: 858
Period size: 342 Copynumber: 2.3 Consensus size: 338
31854 NNNNNNNNNA
* * *
31864 AAGAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTTTAGTTTCTTGAG
1 AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCTA-TTTCTTGAG
* * * * * *
31929 ATAGACATTCAATTA-TAGTCTGTTATAATAAAAAATATAAAAAAATTCAATCAAAAATGAATTA
65 GTAGACATTCAATTATTA-TCTGTT-TTATCAAAAATGT-AAAAAATTCAACCAAAAATAAATTA
* * *
31993 TGAGATTATAAATCTATTTAAAGCGCATAATAAGGCTTTTGAAATAATGAGTGACTATAAATAGA
127 TGAGATTATAAATCTATTTAAAGCGCATAATAAGGCTTTTGAAAGAATGAGTGACCATAAATAAA
* * * *
32058 CTTTTTTTGCCCATGAATGCTTTATTCTTCACGTTTCTTGAGGTAGACATTCAATTATTGTCTGT
192 CTTTTTTTGCCCATGAATGCTTTATTCTTCACATTTCTTGAGGTAGACATTCAATTATAGCCTAT
* * *
32123 TTAAACAAAAAATGTAAAAAAATTTAACTTAAAATTAATTATTAGATTATAAAACCACTTAAAGC
257 TTAAACAAAAAATGGAAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCACTTAAAGC
* *
32188 GAGTAATAAGACTTTTG
322 AAGTAATAAGACTTTCG
********* * * *
32205 NNNNNNNNNNTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTGCTTCATACTTCTTGA
1 -AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTC-TATTTCTTGA
* *
32270 GGTAGACATTCAATTATTATCTATTTTCATCAAAAATGTAAAAAATTCAACCTAAAATAAATTAT
64 GGTAGACATTCAATTATTATCTGTTTT-ATCAAAAATGTAAAAAATTCAACCAAAAATAAATTAT
********** * *
32335 GAGANNNNNNNNNNATTTAAAGCG-AGTAATAAGGCTTTTGAAGGAATGAGTGACCGTAAATAAA
128 GAGATTATAAATCTATTTAAAGCGCA-TAATAAGGCTTTTGAAAGAATGAGTGACCATAAATAAA
*
32399 CTTTTTTTTG-CCATTGAATGCCTATT-TT-TTCACATTTCTCT-TGGTAGACATTCAATTATAG
192 C-TTTTTTTGCCCA-TGAATG-CT-TTATTCTTCACATTTCT-TGAGGTAGACATTCAATTATAG
* * * * * *
32460 CCTATTTTAACCAAAAATGGAAAACAATTCAACTTAAAATTAATTATGAGCTTATAAAACTATTT
252 CCTATTTAAACAAAAAATGGAAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCACTT
* * *
32525 GAAGCAATTAATAAGGCTTTCG
317 AAAGCAAGTAATAAGACTTTCG
32547 AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATG-CGTTTTTCTTCTCATTTCTTGA
1 AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATGTC-TTTTTCTTCT-ATTTCTTGA
* *
32611 GGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAA
64 GGTAGACATTCAATTATTATCTGTTTTATC-AAAAATGTAAAAA
32655 NNNNNNNNNN
Statistics
Matches: 367, Mismatches: 70, Indels: 25
0.79 0.15 0.05
Matches are distributed among these distances:
340 5 0.01
341 161 0.44
342 190 0.52
343 9 0.02
344 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.36
Consensus pattern (338 bp):
AAGAATAAATAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCTATTTCTTGAGG
TAGACATTCAATTATTATCTGTTTTATCAAAAATGTAAAAAATTCAACCAAAAATAAATTATGAG
ATTATAAATCTATTTAAAGCGCATAATAAGGCTTTTGAAAGAATGAGTGACCATAAATAAACTTT
TTTTGCCCATGAATGCTTTATTCTTCACATTTCTTGAGGTAGACATTCAATTATAGCCTATTTAA
ACAAAAAATGGAAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCACTTAAAGCAAGT
AATAAGACTTTCG
Found at i:33501 original size:342 final size:342
Alignment explanation
Indices: 32851--33556 Score: 778
Period size: 342 Copynumber: 2.1 Consensus size: 342
32841 NNNNNNNGTT
** *
32851 AAAAATTCAACTCAAAATTAATTATGAGATTATAAAACCATTTAAAGTGGGAAATAAGGATTTTG
1 AAAAATTCAACAAAAAATTAATTATGAGATTATAAAACCATTTAAAGCGGGAAATAAGGATTTTG
* ********** *
32916 AAGGAATGGGTGACTATAAANNNNNNNNNNTTGCCAATGAATGCCTTTTTCTTCTCGTTTCTTGA
66 AAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCATGA
* * * **********
32981 TGTGGACATTCAACTATAATTTGCTTTAACCAAAAATGTAAAAAANNNNNNNNNNAAATCAATTA
131 GGTAGACATTCAACTATAATTTGCTTTAACCAAAAATGCAAAAAAAATCGACTTAAAATCAATTA
* * * * *
33046 TGAGATTATAAAATCATTTAAAGCGAGTAATATGACCTTTGAAGGAATAGGTGACTATAAATGAA
196 TGAGATTATAAAACCATTCAAAGCAAGTAATATGACCTTTAAAAGAATAGGTGACTATAAATGAA
* * * * *
33111 CTTTTCTTACCAATGAATGTCCTTTTCTTTATGCTTCTCAAGGTAGACATTCACTTATCGTCTGT
261 CTTTTCTTACCAATGAATGTCCTTTTCTTTAGGCTTCTCAACGTAGACACTCAATTATAGTCTGT
33176 TTTAACCAAAAAAATAA
326 TTTAACCAAAAAAATAA
* *
33193 AAAAATTTAACAAAAAATTAATTATGAGATTATAAAACTC-TTTAAAGCGAGTAAA-AAGGATTT
1 AAAAATTCAACAAAAAATTAATTATGAGATTATAAAAC-CATTTAAAGCG-GGAAATAAGGATTT
*
33256 TGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCCATGAATGCCTTTTTCTT-TACGTTTCA
64 TGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCT-CGTTTCA
* *
33320 TGAGGTAGACATTCAACTATAATCTT-TTTTAACCTAAAATGCAAAAAAAATCGACTTAAAATCA
128 TGAGGTAGACATTCAACTATAAT-TTGCTTTAACCAAAAATGCAAAAAAAATCGACTTAAAATCA
* * * *
33384 ATTATGAGATTGTAAAACCATTCAATGCAAGTAATATGGCTTTTAAAAGAAT-GAGTGACTATAA
192 ATTATGAGATTATAAAACCATTCAAAGCAAGTAATATGACCTTTAAAAGAATAG-GTGACTATAA
* * * **
33448 AT-AGACTTTTCTTGCCAATGAATGTCTTTTTCTTCT-GGTTTCTTGACGTAGACACTCAATTAT
256 ATGA-ACTTTTCTTACCAATGAATGTCCTTTTCTT-TAGGCTTCTCAACGTAGACACTCAATTAT
* **
33511 AGTCTGTTTTAACTAAAAATGTAA
319 AGTCTGTTTTAACCAAAAAAATAA
* **
33535 AAATATTCAACTTAAAATTAAT
1 AAAAATTCAACAAAAAATTAAT
33557 NNNNNNNNNN
Statistics
Matches: 298, Mismatches: 59, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
341 3 0.01
342 287 0.96
343 8 0.03
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.34
Consensus pattern (342 bp):
AAAAATTCAACAAAAAATTAATTATGAGATTATAAAACCATTTAAAGCGGGAAATAAGGATTTTG
AAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCTCGTTTCATGA
GGTAGACATTCAACTATAATTTGCTTTAACCAAAAATGCAAAAAAAATCGACTTAAAATCAATTA
TGAGATTATAAAACCATTCAAAGCAAGTAATATGACCTTTAAAAGAATAGGTGACTATAAATGAA
CTTTTCTTACCAATGAATGTCCTTTTCTTTAGGCTTCTCAACGTAGACACTCAATTATAGTCTGT
TTTAACCAAAAAAATAA
Found at i:33550 original size:171 final size:170
Alignment explanation
Indices: 32851--33552 Score: 595
Period size: 171 Copynumber: 4.1 Consensus size: 170
32841 NNNNNNNGTT
* * * * * * *
32851 AAAAATTCAACTCAAAATTAATTATGAGATTATAAAACCATTTAAAGTGGGAAATAAGGATTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGGCTTTTG
* * ********* *
32916 AAGGAATGGGTGACTATAAANNNNNNNNNNTTGCCAATGAATGCCTTTTTCTTCT-CGTTTCTTG
66 AAAGAATGAGTGACTATAAA-TGACTTTTCTTGCCAATGAATGTCTTTTTCTT-TACGTTTCTTG
* * * * * * *
32980 ATGTGGACATTCAACTATAATTTGCTTTAACCAAAAATGTAA
129 AGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAA
********** * * *
33022 AAAANNNNNNNNNNAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATATGACCTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGGCTTTTG
* * * * * **
33087 AAGGAAT-AGGTGACTATAAATGAACTTTTCTTACCAATGAATGTCCTTTTCTTTATGCTTCTCA
66 AAAGAATGA-GTGACTATAAATG-ACTTTTCTTGCCAATGAATGTCTTTTTCTTTACGTTTCTTG
* * * **
33151 AGGTAGACATTCACTTATCGTCTGTTTTAACCAAAAAAATAA
129 AGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAA
* ** * * * *
33193 AAAAATTTAACAAAAAATTAATTATGAGATTATAAAACTC-TTTAAAGCGAGTAAAAAGGATTTT
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATATGGCTTTT
* * * *
33257 GAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCCATGAATGCCTTTTTCTTTACGTTTCATG
65 GAAAGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATGTCTTTTTCTTTACGTTTCTTG
* * * *
33322 AGGTAGACATTCAACTATAATCTTTTTTAACCT-AAAATGCAA
129 AGGTAGACATTCAATTATAGTCTGTTTTAA-CTAAAAATGTAA
* * * * * * *
33364 AAAAAATCGACTTAAAATCAATTATGAGATTGTAAAACCATTCAATGCAAGTAATATGGCTTTTA
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGGCTTTTG
*
33429 AAAGAATGAGTGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTTCT-GGTTTCTTG
66 AAAGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATGTCTTTTTCTT-TACGTTTCTTG
* *
33493 ACGTAGACACTCAATTATAGTCTGTTTTAACTAAAAATGTAA
129 AGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAA
*
33535 AAATATTCAACTTAAAAT
1 AAAAATTCAACTTAAAAT
33553 TAATNNNNNN
Statistics
Matches: 409, Mismatches: 112, Indels: 20
0.76 0.21 0.04
Matches are distributed among these distances:
170 4 0.01
171 401 0.98
172 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.34
Consensus pattern (170 bp):
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGGCTTTTG
AAAGAATGAGTGACTATAAATGACTTTTCTTGCCAATGAATGTCTTTTTCTTTACGTTTCTTGAG
GTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAA
Found at i:34713 original size:171 final size:161
Alignment explanation
Indices: 34589--34906 Score: 175
Period size: 167 Copynumber: 1.9 Consensus size: 161
34579 NNNNNNNNNN
* * ** *
34589 GAGTAATAAGGCCTTTGAAAGAATGGGTGACTATAAACGGACTTTTCGTGTTAATGAAAGTCTTT
1 GAGTAATAAGGACTTTGAAAGAATGGGTGACTATAAACGAACTTTTCGTGCCAATGAAAGCCTTT
** * *
34654 TTCTTCAT-GCTTCTCAAGGTAGACATT-CACTTATAGTCTGTTTT-ATCAAAAACTGTAAAAAT
66 TTCTTC-TCGCTTCTCAACATAGACATTCCAC-TATAATCTGTTTTAATCAAAAA-TGTAAAAAA
* *
34716 ATTCAACTTAAAATGAATTATGAG-ATTGTAAAACC
128 ATTCAACTTAAAATCAATTATG-GTATTATAAAA-C
* * * * * * *
34751 AGTCAAAGTAATAAGG-CTTTCGAAAGAATAGATGACTATAAATGGACTTTTCTTACCAGTGAAT
1 -G----AGTAATAAGGACTTT-GAAAGAATGGGTGACTATAAACGAACTTTTCGTGCCAATGAA-
* * * ** * * * * *
34815 A-TCTTTTTCTTCTTAG-TTCTTAAGGTA-AGCATTCAATTATAGTCTATTTTTAATGAAAAATG
59 AGCCTTTTTCTTC-TCGCTTCTCAACATAGA-CATTCCACTATAATCT-GTTTTAATCAAAAATG
*
34877 TAAAAACAATGCAACTTAAAATCAATTATG
121 TAAAAA-AATTCAACTTAAAATCAATTATG
34907 AGATGATAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
163 1 0.01
166 5 0.04
167 78 0.62
168 15 0.12
169 27 0.21
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (161 bp):
GAGTAATAAGGACTTTGAAAGAATGGGTGACTATAAACGAACTTTTCGTGCCAATGAAAGCCTTT
TTCTTCTCGCTTCTCAACATAGACATTCCACTATAATCTGTTTTAATCAAAAATGTAAAAAAATT
CAACTTAAAATCAATTATGGTATTATAAAAC
Found at i:35208 original size:172 final size:168
Alignment explanation
Indices: 34422--35352 Score: 633
Period size: 171 Copynumber: 5.5 Consensus size: 168
34412 NNNNNNNNNN
* * * * * *
34422 AATAAGGATTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAAGGCCTTTTTCT
1 AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
* ** ** ** * * * * * *
34487 TCTCGTTTCTTGACATAGGCATTCCACTATAATTTGTTTTAATCGAAAATGTAAAAAAATTCAAC
66 TC-AGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* ********
34552 TTAAAATCAATTATG-GTATTATAAAACNNNNNNNNNNG-AGT
130 TTAAAATTAATTATGAG-ATTATAAAAC--CATTTAAAGCA-T
* * * * ** *
34593 AATAAGGCCTTTGAAAGAATGGGTGACTATAAACGGACTTTTCGTGTTAATGAAAGTCTTTTTCT
1 AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
* * * * *
34658 TCATGCTTCTCAAGGTAGACATTCACTTATAGTCTGTTTT-ATCAAAAACTGTAAAAATATTCAA
66 TCA-GTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAA-TGTAAAAAAATTCAA
* * * *
34722 CTTAAAATGAATTATGAGATTGTAAAACCAGTCAAAG--T
129 CTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCAT
* * * *
34760 AATAAGGCTTTCGAAAGAAT-AGATGACTATAAATGGACTTTTCTTACCAGTGAATATCTTTTTC
1 AATAAGGCTTTTGAAAGAATGAG-TGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTC
* * * ** *
34824 TTCTTAG-TTCTTAAGGTAAGCATTCAATTATAGTCTATTTTTAATGAAAAATGTAAAAACAATG
65 TTC--AGTTTCTCAAGGTAAACATTCAATTATAGTCT-GTTTTAACCAAAAATGTAAAAA-AATT
* * ** *
34888 CAACTTAAAATCAATTATGAGATGATAAAGTCATTTAAAGCGAGC
126 CAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGC-A-T
********** *
34933 AATNNNNNNNNNNAAAGAATGAGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCT
1 AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTC-
** * **********
34998 TTTGGTTTCTCAAGGTAGACATNNNNNNNNNNTCTGTTTTAACCAAAAATGTAAAACAAATTCAA
65 TTCAGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAA-AAATTCAA
* *
35063 TTTAAAATTAATTATGAGATTTTAAAACCATTTAAAATGCAT
129 CTTAAAATTAATTATGAGATTATAAAACCATTT-AAA-GCAT
* *
35105 AATAAGGCTTTTGAAACAATGAGTGACTATAAATGGACTTTTCTTGCCCATGAATG-CTTTATTC
1 AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTT-TTC
*
35169 TTCACGTTTCTTC-AGGTAAACATTCAATTATAGTCTG-TTTAACTAAAAAATGT-AAAAAATTC
65 TTCA-GTTTC-TCAAGGTAAACATTCAATTATAGTCTGTTTTAAC-CAAAAATGTAAAAAAATTC
********** *
35231 AACTTAAAATTAATTATGAGATTATANNNNNNNNNNAAGCGAGC
127 AACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGC-A-T
* * **
35275 AATAAGGCTTTCGAAAGAATGGGCAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
1 AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
35340 TCATGTTTCTCAA
66 TCA-GTTTCTCAA
35353 NNNNNNNNNN
Statistics
Matches: 585, Mismatches: 148, Indels: 55
0.74 0.19 0.07
Matches are distributed among these distances:
166 1 0.00
167 80 0.14
168 15 0.03
169 49 0.08
170 100 0.17
171 139 0.24
172 125 0.21
173 70 0.12
174 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.34
Consensus pattern (168 bp):
AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
TCAGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
TAAAATTAATTATGAGATTATAAAACCATTTAAAGCAT
Found at i:35350 original size:342 final size:337
Alignment explanation
Indices: 34593--35352 Score: 773
Period size: 342 Copynumber: 2.2 Consensus size: 337
34583 NNNNNNGAGT
* * ** *
34593 AATAAGGCCTTTGAAAGAATGGGTGACTATAAACGGACTTTTCGTGTTAATGAAAGTCTTTTTCT
1 AATAAGG-CTTTGAAAGAATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCT
* * *
34658 TCATGCTTCTCAAGGTAGACATTCACTTATAGTCTGTTTTATCAAAAACTGTAAAAATATTCAAC
65 TCATGTTTCTCAAGGTAGACATTCACTTATAGTCTGTTTTACCAAAAACTGTAAAAAAATTCAAC
* *
34723 TTAAAATGAATTATGAGATTGTAAAACCAGTCAAAGTAATAAGGCTTTCGAAAGAATAGATGACT
130 TTAAAATGAATTATGAGATTGTAAAACCAGTAAAAGTAATAAGGCTTTCGAAACAATAGATGACT
* *
34788 ATAAATGGACTTTTCTTACCAGTGAATATCTTTTTCTTCTTAGTTCTTAAGGTAAGCATTCAATT
195 ATAAATGGACTTTTCTTACCAGTGAATAGCTTTTTCTTC-TAGTTCTTAAGGTAAACATTCAATT
* *
34853 ATAGTCTATTTTTAATGAAAAATGTAAAAACAATGCAACTTAAAATCAATTATGAGATGATAAAG
259 ATAGTC-ATGTTTAATAAAAAATGTAAAAACAATGCAACTTAAAATCAATTATGAGATGATAAAG
34918 TCATTTAAAGCGAGC
323 TCATTTAAAGCGAGC
********* *
34933 AATNNNNNNNNNNAAAGAATGAGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCT
1 AAT-AAGGCTTTGAAAGAATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCT
* **********
34998 T-TTGGTTTCTCAAGGTAGACATNNNNNNNNNNTCTGTTTTAACCAAAAA-TGTAAAACAAATTC
65 TCAT-GTTTCTCAAGGTAGACATTCACTTATAGTCTGTTTT-ACCAAAAACTGTAAAA-AAATTC
* * * * *
35061 AATTTAAAATTAATTATGAGATTTTAAAACCATTTAAAATGCATAATAAGGCTTTTGAAACAAT-
127 AACTTAAAATGAATTATGAGATTGTAAAACCA-GTAAAA-G--TAATAAGGCTTTCGAAACAATA
* *
35125 GAGTGACTATAAATGGACTTTTCTTGCCCA-TGAAT-GCTTTATTCTTC-ACGTTTCTTCAGGTA
188 GA-TGACTATAAATGGACTTTTCTT-ACCAGTGAATAGCTTT-TTCTTCTA-G-TTCTTAAGGTA
* *
35187 AACATTCAATTATAGTC-TGTTTAACTAAAAAATGT-AAAA-AATTCAACTTAAAATTAATTATG
248 AACATTCAATTATAGTCATGTTTAA-TAAAAAATGTAAAAACAATGCAACTTAAAATCAATTATG
* **********
35249 AGATTATANNNNNNNNNNAAGCGAGC
312 AGATGATAAAGTCATTTAAAGCGAGC
** *
35275 AATAAGGCTTTCGAAAGAATGGGCAACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCT
1 AATAAGGCTTT-GAAAGAATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCT
35340 TCATGTTTCTCAA
65 TCATGTTTCTCAA
35353 NNNNNNNNNN
Statistics
Matches: 335, Mismatches: 69, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
339 1 0.00
340 82 0.24
341 41 0.12
342 101 0.30
343 13 0.04
344 16 0.05
345 78 0.23
346 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.34
Consensus pattern (337 bp):
AATAAGGCTTTGAAAGAATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGTCTTTTTCTT
CATGTTTCTCAAGGTAGACATTCACTTATAGTCTGTTTTACCAAAAACTGTAAAAAAATTCAACT
TAAAATGAATTATGAGATTGTAAAACCAGTAAAAGTAATAAGGCTTTCGAAACAATAGATGACTA
TAAATGGACTTTTCTTACCAGTGAATAGCTTTTTCTTCTAGTTCTTAAGGTAAACATTCAATTAT
AGTCATGTTTAATAAAAAATGTAAAAACAATGCAACTTAAAATCAATTATGAGATGATAAAGTCA
TTTAAAGCGAGC
Found at i:37281 original size:171 final size:170
Alignment explanation
Indices: 36993--37609 Score: 675
Period size: 171 Copynumber: 3.6 Consensus size: 170
36983 NNNNNTCTCA
* * * *
36993 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAACAATTTAATTTAAAATTAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
* *
37058 ATGAGATTATAAAACCATTTAAAGCGTA-TAATAAAGCTTTTGAAACAATGGGTGACTATAAATG
66 ATGAGATTATAAAACCATTTAAAGCG-AGTAATAAAGCTTTTGAAAGAATGGGTGACTGTAAATG
*
37122 GACTTTTCTTGCCCATGAATGCTTTATTCTTCACATTTCTTG
130 GACTTTTCTTGCCAATGAATGCTTT-TTCTTCACATTTCTTG
* * * *
37164 AGGTAGACATTCAATTATAGTCTG-TTTAACTAAAAAATATAAAAAAATTCAAGTTAAAATTAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAAC-CAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* **********
37228 TATGAGATTATAAAACCACTTAAAGCGAGTAANNNNNNNNNNGAAAGAATGGGTGACTGTAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTGACTGTAAATG
* *** *
37293 GACTTTTCTTGCCAATGAATCTCTTTTTCTTCATGCTTCTCG
130 GACTTTTCTTGCCAATGAAT-GCTTTTTCTTCACATTTCTTG
* * * *
37335 AGGTAGACATTCAATTATTGTCTATTTTCACCAAAAATGT-AAAAAATTCAACCTAAAATCAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
* * * * * * ** *
37399 ATTAGATGATAAAATCATTTTAAGCGAGTAATAAGGCTTTTGAAGGAATGAATGAATGTAAATGG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTGACTGTAAATGG
* *
37464 ACTCTTTTTTGCTAATGAATGCCTTTTTCTTCACATTTCTTG
131 ACT-TTTCTTGCCAATGAATG-CTTTTTCTTCACATTTCTTG
* ** * * *
37506 AGTTAGACATTCAATTATAACCTGTTTTAACC-AAAATGGAAAACAATTCAACTTAAAATCGATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
* * * * *
37570 ATGAGCTTATAAAACTATTTGAAGCGACTAATAAGGCTTT
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTT
37610 NNNNNNNNNN
Statistics
Matches: 364, Mismatches: 75, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
170 83 0.23
171 272 0.75
172 9 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
ATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTGACTGTAAATGG
ACTTTTCTTGCCAATGAATGCTTTTTCTTCACATTTCTTG
Found at i:38596 original size:172 final size:171
Alignment explanation
Indices: 38163--38971 Score: 685
Period size: 172 Copynumber: 4.7 Consensus size: 171
38153 NNNNNNNNNT
* *
38163 CAATGAATGTCTTTTTCTTCATGCTTCTCAAGGTAGACATTCACTTATAGTCTGTTTTAACCAAA
1 CAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
* * ** ** * ** *
38228 ACTGT-AAAAAACTTTAACAGAAAATCAATTCTGAGATTATAAAACTGTTTAAAGCGAGTAAAAA
66 AATGTAAAAAAAATGCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
38292 AGATTTTGAAGGAATGAGTGACTATAAATGGACTTTTTTTGC
131 GGCTTTTGAAAGAATGA-TGACTATAAATGGACTTTTCTTGC
* * * * * *
38334 C-ATTAATG-CTTTTTTTTTCATGTTTCACGAGGTAGACATTCAACTATAATCTGTTTTAACCAA
1 CAATGAATGTC-TTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * * *
38397 AAA-ATACAAAAATATTCAACTTAAAATCAATTATGAGATTGA-AAAACCATTCAAAGCAAGTAA
65 AAATGTA-AAAAAAATGCAACTTAAAATCAATTATGAGATT-ATAAAACCATTTAAAGCGAGTAA
** *
38460 TAAGGCTTTCAAAAGAATAGATGACTATAAATGGGCTTTTCTTGC
128 TAAGGCTTTTGAAAGAAT-GATGACTATAAATGGACTTTTCTTGC
* * * * **
38505 CAATGAATGTCTTTTTCTTCTTGGTTCTTAAGGTAAACATTCAATTATAGTCTGTTTTAATGAAA
1 CAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
* * ** *
38570 AATGTAAAAAAAATGCAACTTAAAATCAAGTATGAGATGATAAAGTCATTTAAAGCGAGCAATAA
66 AATGTAAAAAAAATGCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
*********
38635 GGCTTTTGNNNNNNNNNNTGACTATAAATGGACTTTTCTTGC
131 GGCTTTTG-AAAGAATGATGACTATAAATGGACTTTTCTTGC
* ** *
38677 CAATGAATGTCTTTTTCTT-TTAGTTTCTTGAGGTAGACATTCAATTATAGTCAG-TTTAACCAA
1 CAATGAATGTCTTTTTCTTCAT-GTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * * *
38740 AAATGTAAAAAAATTTG--ACTTAAAATGAATTATGCGATTATAAAACTATTTAAATCGAGTAAT
65 AAATGTAAAAAAA-ATGCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * *
38803 AATGCTTTTGAAAGAATGGGTGTCTATAAATGGACTCTTT-TT-C
129 AAGGCTTTTGAAAGAAT-GATGACTATAAATGGACT-TTTCTTGC
* * * * ** * * *
38846 TCAATAAAT-TACATTTTCTACATGTTTC-CTGAGCCAGATATGT-AATTAAAGTCTGTTTTAAA
1 -CAATGAATGT-CTTTTTCTTCATGTTTCTC-AAGGTAGACAT-TCAATTATAGTCTGTTTTAAC
* * * * * * *
38908 GAGAAACGTAAAACAATTG-AACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCCAGTA
62 CAAAAATGTAAAAAAAATGCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
38972 NNNNNNNNNN
Statistics
Matches: 507, Mismatches: 110, Indels: 42
0.77 0.17 0.06
Matches are distributed among these distances:
169 4 0.01
170 157 0.31
171 163 0.32
172 180 0.36
173 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
CAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
AATGTAAAAAAAATGCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
GGCTTTTGAAAGAATGATGACTATAAATGGACTTTTCTTGC
Found at i:38901 original size:342 final size:332
Alignment explanation
Indices: 38309--38966 Score: 661
Period size: 342 Copynumber: 2.0 Consensus size: 332
38299 GAAGGAATGA
* *
38309 GTGACTATAAATGGACTTTTTTTGCCATTAATGCTTTTTTTTTCATGTTTCACGAGGTAGACATT
1 GTGACTATAAATGGACTTTTCTTGCCATGAATGCTTTTTTTTTCATGTTTCACGAGGTAGACATT
*
38374 CAACTATAATCTGTTTTAACCAAAAAATACAAAAATATTCAACTTAAAATCAATTATGAGATTGA
66 CAACTATAATCAGTTTTAACCAAAAAATACAAAAATATTCAACTTAAAATCAATTATGAGATTGA
*
38439 AAAACCATTCAAAGCAAGTAATAAGGCTTTCAAAAGAATAGATGACTATAAATGGGCTTTTCTTG
131 AAAACCATTCAAAGCAAGTAATAAGGCTTTCAAAAGAATAGATGACTATAAATGGACTTTTCTTG
* * * * * ** * *
38504 CCAATGAATGTCTTTTTCTTCTTGGTTCTTAAGGTAAACATTCAATTATAGTCTGTTTTAATGAA
196 CCAATAAATGTCATTTTCTACATGGTTCCTAAGCCAAACATTCAATTAAAGTCTGTTTTAAAGAA
* **
38569 AAATGTAAAAAAAATGCAACTTAAAATCAAGTATGAGATGATAAAGTCATTTAAAGCGAGCAATA
261 AAACGTAAAAAAAATG-AACTTAAAATCAAGTATGAGATGATAAAACCATTTAAAGCGAGCAATA
38634 AGGCTTTT
325 AGGCTTTT
*
38642 GNNNNNNNNNNTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTTT-A-GTTTCT
1 G----------TGACTATAAATGGACTTTTCTTGCC-ATGAATG-CTTTTT-TTTTCATGTTTCA
* * * * ** *
38705 TGAGGTAGACATTCAATTATAGTCAG-TTTAACCAAAAATGTA-AAAAA-ATTTGACTTAAAATG
53 CGAGGTAGACATTCAACTATAATCAGTTTTAACCAAAAA-ATACAAAAATATTCAACTTAAAATC
* * * * * * ** * * *
38767 AATTATGCGATT-ATAAAACTATTTAAATCGAGTAATAATGCTTTTGAAAGAATGGGTGTCTATA
117 AATTATGAGATTGA-AAAACCATTCAAAGCAAGTAATAAGGCTTTCAAAAGAATAGATGACTATA
* * * *
38831 AATGGACTCTTT-TT-CTCAATAAAT-TACATTTTCTACATGTTTCCTGAGCCAGATATGT-AAT
181 AATGGACT-TTTCTTGC-CAATAAATGT-CATTTTCTACATGGTTCCTAAGCCAAACAT-TCAAT
* * * * * *
38892 TAAAGTCTGTTTTAAAGAGAAACGTAAAACAATTGAACTTAAAATCAATTTTGAGATTATAAAAC
242 TAAAGTCTGTTTTAAAGAAAAACGTAAAAAAAATGAACTTAAAATCAAGTATGAGATGATAAAAC
38957 CATTTAAAGC
307 CATTTAAAGC
38967 CAGTANNNNN
Statistics
Matches: 261, Mismatches: 45, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
333 1 0.00
341 38 0.15
342 131 0.50
343 45 0.17
344 35 0.13
345 7 0.03
346 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (332 bp):
GTGACTATAAATGGACTTTTCTTGCCATGAATGCTTTTTTTTTCATGTTTCACGAGGTAGACATT
CAACTATAATCAGTTTTAACCAAAAAATACAAAAATATTCAACTTAAAATCAATTATGAGATTGA
AAAACCATTCAAAGCAAGTAATAAGGCTTTCAAAAGAATAGATGACTATAAATGGACTTTTCTTG
CCAATAAATGTCATTTTCTACATGGTTCCTAAGCCAAACATTCAATTAAAGTCTGTTTTAAAGAA
AAACGTAAAAAAAATGAACTTAAAATCAAGTATGAGATGATAAAACCATTTAAAGCGAGCAATAA
GGCTTTT
Found at i:40228 original size:169 final size:169
Alignment explanation
Indices: 39178--40244 Score: 448
Period size: 170 Copynumber: 6.3 Consensus size: 169
39168 NNNNNNNNNN
** * ** * **
39178 TCTGTTTTAATGAAAAATGTAAAAACAATGCAACTTAAAATCAACCATAAGATGATAAAGTCATT
1 TCTGTTTTAACCAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATAAGATTATAAAACCATT
** * ** *
39243 TAAAGCAAGCAATAAGGCTTTTGAAA-GAATTAGTGACTATAAATGGACTTTTCTTGCCAATAAA
65 TAAAGCGGGTAATAAGGCTTTT-AAAGGAATGGGTGACTAT-AATGGACTTTTCTTGCCAATGAA
********* ** * ** ** * *
39307 NNNNNNNNNNTTCAGGTTTCTTGATGTAAACACTCAATTATAG
128 -TGCCTTTTTTTCTTGTTTCTAGACATGGACATTCAATTATAA
* * * * * * *
39350 TCTGTTTTAACCAAAAATATAAAATAATTCAAATTAAAATTAATAATGAGATTATAAAACCACTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTT
* * *********
39415 AAATCGAGTAATAAGGCTTTTGAAA-GAATGGGTGNNNNNNNNNNGACTTTTCTTGCCAATGAAT
66 AAAGCGGGTAATAAGGCTTTT-AAAGGAATGGGTG-ACTATAATGGACTTTTCTTGCCAATGAAT
*** * * * ** * **
39479 ATTTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATTG
129 GCCTTTTT-TTCTTGTTTCTAGACATGGACATTCAATTATAA
* * * * * ********** *
39521 TCTAG-TTTCACAAAAAATAT-AAACAATTCAACCTAAAATCAATTATNNNNNNNNNNAATCATT
1 TCT-GTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATT
* * * * * * * * *
39584 TAAAGCGAGTAATAAGGCTTTTGAAGAAATGAGTGACTGTAAATGAATTTTTTTTACCAATGAAT
65 TAAAGCGGGTAATAAGGCTTTTAAAGGAATGGGTGACTAT-AATGGACTTTTCTTGCCAATGAAT
* ** * ** * * *
39649 GTCTTTTTCTTAGTATTTCTCTAGATTGACATTCAATTATAG
129 GCCTTTTT-TTCTTGTTTCTAGACATGGACATTCAATTATAA
* * * * * * * **********
39691 CCTGTTTTAACTAAAAATGTACAACAATTTAACTTAAAATCAATTATGAGCTTANNNNNNNNNNT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTT
* ** * *
39756 GAAGCGACTAATAAGGCTTTTAAAGGAATGGATGACTATAATGGACTTTTCTCGCCAATGAATGC
66 AAAGCGGGTAATAAGGCTTTTAAAGGAATGGGTGACTATAATGGACTTTTCTTGCCAATGAATGC
** * **
39821 CTTTTTCTTCTCATTTCTCGAGGTGGACATTCAATTATAA
131 CTTTTT-TTCTTGTTTCTAGACATGGACATTCAATTATAA
* * * *
39861 TCTGTTTTAACCGAAGATGCAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACTATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTT
********** * * *
39926 ANNNNNNNNNNTAAGGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTT-CCGAATAAAT
66 AAAGCGGGTAATAAGGCTTTTAAAGGAATGGGTGACTAT-AATGGACTTTTCTTGCC-AATGAAT
* * * * *
39990 G--TTGTTTTCAACATGTTTCCCAAGACA-AG-CATTCAATTATAG
129 GCCTT-TTTT--TCTTGTTT--CTAGACATGGACATTCAATTATAA
** * * * * *
40032 TCTGTTTTAATGAAAAATAT-TAAAAATTCAA-TTCATAATTAATTATGAGATTATAAAACCATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTT-AAAATCAATTATAAGATTATAAAACCATT
* * *
40095 T-AAGCGGGTAATAAGGATTTTGAAGGAATGGGTGACTATGAATGCACTTTTCTTGCCAATGAAT
65 TAAAGCGGGTAATAAGGCTTTTAAAGGAATGGGTGACTAT-AATGGACTTTTCTTGCCAATGAAT
* *
40159 GCCTTTTTTTCTTGTTTCTTGACATGGACATTTAATTATAA
129 GCCTTTTTTTCTTGTTTCTAGACATGGACATTCAATTATAA
* *
40200 TTTGCTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT
40245 NNNNNNNNNN
Statistics
Matches: 652, Mismatches: 221, Indels: 47
0.71 0.24 0.05
Matches are distributed among these distances:
166 5 0.01
167 1 0.00
168 32 0.05
169 70 0.11
170 288 0.44
171 230 0.35
172 23 0.04
173 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.34
Consensus pattern (169 bp):
TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTT
AAAGCGGGTAATAAGGCTTTTAAAGGAATGGGTGACTATAATGGACTTTTCTTGCCAATGAATGC
CTTTTTTTCTTGTTTCTAGACATGGACATTCAATTATAA
Found at i:40726 original size:167 final size:161
Alignment explanation
Indices: 40518--40843 Score: 331
Period size: 167 Copynumber: 2.0 Consensus size: 161
40508 ACCTAAAATG
* *
40518 CAAAAACTTTCAACTTAAAATTAATAATGAGATTATAAAACCACTTAAAGCG-AGTAATAAGGCT
1 CAAAAA-TTT-AATTTAAAATTAATAATGAGAGTATAAAACCACTTAAAGCGCA-TAATAAGGCT
** * * * * *
40582 TTTGAAAGTATGGGTGACTATAAATGGTCCTTTCTTGCCAATGAATG-TTT-TT-TTTA-GTTTC
63 TTTGAAACAATGAGTGACTATAAATGGACCTTTCTTGCCAAGGAATGCTTTATTCTTCACATTTC
40643 TCGAGGTAGACATTCAATTATTA-TCTGTTTTAAC
128 TCGAGGTAGACATTCAATTA-TAGTCTGTTTTAAC
* * *
40677 CANNNNNNNNNNAAAATTTAATTTAAAATTAATTATGAGAGTCTAAAACCATTTAAAGCGCATAA
1 CA----------AAAATTTAATTTAAAATTAATAATGAGAGTATAAAACCACTTAAAGCGCATAA
* * *
40742 TAGGGCTTTTGAAACAATGAGTGACTATAAATGGACTTTTCTTGCCCAGGAATGCTTTATTCTTC
56 TAAGGCTTTTGAAACAATGAGTGACTATAAATGGACCTTTCTTGCCAAGGAATGCTTTATTCTTC
* *
40807 ACATTTCTTGAGGTGGACATTCAATTATAGTCTGTTT
121 ACATTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
40844 AGTCAAAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
159 2 0.01
167 85 0.63
168 7 0.05
169 6 0.04
170 5 0.04
171 29 0.22
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.36
Consensus pattern (161 bp):
CAAAAATTTAATTTAAAATTAATAATGAGAGTATAAAACCACTTAAAGCGCATAATAAGGCTTTT
GAAACAATGAGTGACTATAAATGGACCTTTCTTGCCAAGGAATGCTTTATTCTTCACATTTCTCG
AGGTAGACATTCAATTATAGTCTGTTTTAAC
Found at i:40904 original size:170 final size:167
Alignment explanation
Indices: 40479--42740 Score: 662
Period size: 170 Copynumber: 13.3 Consensus size: 167
40469 NNNNNNNNNN
* * * * ** *
40479 AGGTAGACATTCAACTATAATCAGTTTTAACC-TAAAATGCAAAAACTTTCAACTTAAAATTAAT
1 AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAAATATAAAAAATTT-AACTTAAAATTAAT
* * ** *
40543 AATGAGATTATAAAACCACTTAAAGCGAGTAATAAGGCTTTTGAAAGTATGGGTGACTATAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAATG
* * * *
40608 GTCCTTTCTTGCCAATGAATGTTTTTTTTAGTTTCTCG
130 GACCTTTCTTGCCAAGGAATGTTTTTTTCAATTTCTCG
********** *
40646 AGGTAGACATTCAATTATTATCTGTTTTAACCANNNNNNNNNNAAAATTTAATTTAAAATTAATT
1 AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAAATATAAAAAATTTAACTTAAAATTAATT
* * *
40711 ATGAGAGTCTAAAACCATTTAAAGCGCA-TAATAGGGCTTTTGAAACAATGAGTGACTATAAATG
66 ATGAGATTATAAAACCATTTAAAGCG-AGTAATAAGGCTTTTGAAACAATGAGTGACTATAAATG
* * *
40775 GACTTTTCTTGCCCAGGAATGCTTTATTCTTCACATTTCTTG
130 GACCTTTCTTGCCAAGGAATG-TTT-TT-TTCA-ATTTCTCG
* ** * *
40817 AGGTGGACATTCAATTA-TAGTCTG-TTTAGTCAAAAAATATAAAAAATTTAACTCAAAATGAAT
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCAAAAAATATAAAAAATTTAACTTAAAATTAAT
********** * *
40880 TATGAGATTATAAAACCATTTAAAGCNNNNNNNNNNGCTTTTGAAAGAAT-AGGTGTCTATAAAT
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGA-GTGACTATAAAT
* * * ** * * *
40944 AGACTTTTCTTCCCAATAAATAGCATTTTCTACACGTTTC-CGG
129 GGACCTTTCTTGCCAAGGAAT-G--TTTTTTTCA-ATTTCTC-G
** * * ** * * * * *
40987 AGCCAGATATTCAATTA-AAGTCTGTTTTAA-TGAAAAGTGTAAAAAAAATTAACTTATAATCAA
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCAAAAAATAT-AAAAAATTTAACTTAAAATTAA
* * * ** * *
41050 TTATGAGATTACAAAATCATTTAAAGCTAGTAAATAAGGCTTTTGAAGGAAT-AGGTAACAATAA
64 TTATGAGATTATAAAACCATTTAAAGCGAGT-AATAAGGCTTTTGAAACAATGA-GTGACTATAA
* * * ** *
41114 ATGGACTTTTCTTGCCAATGAATGCCCTTTTGTTCTTGTTTCTAG
127 ATGGACCTTTCTTGCCAAGGAATG---TTTTTTTC-AATTTCTCG
* * * * * *
41159 ACGTGGACATTCAATTATAATCTGTTTTAACGAAAAAAGTA-AAAAAATTGAACTTAAAATCAAT
1 AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAAA-TATAAAAAATTTAACTTAAAATTAAT
* ********** * **
41223 TTTGAGATTATANNNNNNNNNNAAGTGAGTAATAAGGCTTTTGAAGGAATTG-GTGA-TAATAAA
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAA-TGAGTGACT-ATAAA
* * * * *
41286 TGG-CCTTTTCTTACTAATGAATGCATTTTTCTTCATGTTTCTCA
128 TGGACC-TTTCTTGCCAAGGAATG--TTTTT-TTCA-ATTTCTCG
* * * * * * *****
41330 AGGTATACATTCAATTATAATTTTTTTTAACCAAAAAGGTA-AAAAAATTCAACTTAAAANNNNN
1 AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAA-ATATAAAAAATTTAACTTAAAATTAAT
***** ** * *
41394 NNNNNGATTATAAAATTATTTAAAGCGCAG-AATAAGGCTTTTGAAAGAATGAGTGAATATAAAT
65 TATGAGATTATAAAACCATTTAAAGCG-AGTAATAAGGCTTTTGAAACAATGAGTGACTATAAAT
* * *
41458 GGACTTTTCTTGTCC-ATGAATGGTTTTTTCTTCACATTTCTTG
129 GGACCTTTCTTG-CCAAGGAAT-G-TTTTT-TTCA-ATTTCTCG
* * * * *
41501 AGGTACACATT-ATATT-TTAGTCTG-TTTAACCAAAAATGTAAAAAAAATTTGACTTAAAATGA
1 AGGTAGACATTCA-ATTATTA-TCTGTTTTAACCAAAAA-ATATAAAAAATTTAACTTAAAATTA
* * * * *********** *
41563 ACTATGAGATTATATAACCATTTGAAGCGAGTAATAATGC-TTTCNNNNNNNNNNTGTCTATAAA
63 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAA
* ** * * * * *
41627 TGGACTTTTCTT-CTCAATAAATGGTATTTTCTATACGTGTCCCA
128 TGGACCTTTCTTGC-CAAGGAATGTTTTTTTC-A-A--TTTCTCG
* * * * * *
41671 AGCTAAACATTCAATTA-AAGTCTATTTTAA--AGAAAAATATAAAACAATTTAACTTATAATCA
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCA-AAAAATATAAAA-AATTTAACTTAAAATTA
* * ** * * *
41733 ATTATAATATTGCAAAACCATTTAAAGCGAGTAATAAGGCTTTTGTAAGAATGGGTGA-TAATAA
63 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACT-ATAA
* * * ** * * *
41797 AT-AAACTTTTTTGTTAATGAATGCTTTTTTTTTCACATTTTTTG
127 ATGGACCTTTCTTGCCAAGGAATG---TTTTTTTCA-ATTTCTCG
** * * * * * * * * *
41841 ACATATAAATTCAATTATAATCTGTGTTAACTGAAAAAGTA-AAAATAATTCAACTTAACATCAA
1 AGGTAGACATTCAATTATTATCTGTTTTAAC-CAAAAAATATAAAA-AATTTAACTTAAAATTAA
* * ********** **
41905 TTTTGAGATTATAAAACTANNNNNNNNNNGTAATAAGGCTTTTGAAGGAATG-GTGA-TAATAAA
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACT-ATAAA
** * ** *** *
41968 TGG-TTTTTCTTGCTAATAAATGCATTTTTCTTTGTGTTTCTCA
128 TGGACCTTTCTTGCCAAGGAATG---TTTT-TTTCAATTTCTCG
* * * * * * * * **
42011 ATGTAAACATTCAGTTATAATATGTTTTAATCAAAAAAGTAAAAAAAATTGAACTTAAAACCAAT
1 AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAAA-TATAAAAAATTTAACTTAAAATTAAT
* * ** ** **********
42076 TTTGAGATTTTAAAACCATTTAAATTGAGTAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAATG
* * * * *
42141 GACTTTTCTTGCCAATGAAAGCTTCTTTCTTCACGTTTCTCA
130 GACCTTTCTTGCCAAGGAATG-TT-TTT-TTCA-ATTTCTCG
* * * * * * * *
42183 AGCTAGACATTTAATTA-TACTCTATTTTAACAAAAAAATGTAAATAAATTCAACATAAAATCAA
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCAAAAAATATAAA-AAATTTAACTTAAAATTAA
* * * * * *
42247 TTATGAGATTATAAAACTATTTAAGGCGAGTTATAAGGCTTTTGAAAGAATGGGTGAATATAAAT
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAAT
* ** ** ** * * *
42312 GCATTTTTCTTGCCAATAAATGCCTTTTCCTGACGTTTCTCA
129 GGACCTTTCTTGCCAAGGAATG--TTTTTTTCA-ATTTCTCG
* * * * * **********
42354 AGGTA-AGCATTCAA-CAATAGTCTATTTTAA-CTAAAAATGTAAAACNNNNNNNNNNAAAATTA
1 AGGTAGA-CATTCAATTATTA-TCTGTTTTAACCAAAAAATATAAAA-AATTTAACTTAAAATTA
* * * * *
42416 ATTATGAGATTATAAAACCATTGAAAGCGAGCAATAAGGCTTTTGAAAAAATAAGTGACTGTAAA
63 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAA
* * * * **
42481 TGAACTTTTCTTGCAAATGAATGTCTTTTTCTTCTGGTTTCTCG
128 TGGACCTTTCTTGCCAAGGAATG--TTTTT-TTC-AATTTCTCG
* * * * *
42525 AGGTAAACATTCAGTTA-TAGTCTGTTTTAACC-AAAAATATAAAAAAATATAATTTAAAATCAA
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCAAAAAATAT-AAAAAATTTAACTTAAAATTAA
* * * * * *
42588 ATATGAGATTATAAAACCATTTATAGCAAGCAATTAGGCTTTTGAAAGAATGAGTGACTATAAAT
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAAT
* * * * **
42653 -GAACTTTCTTGCTAATGAATGTCTTTTTCTTCTGATTTCTTA
129 GGACCTTTCTTGCCAAGGAATG--TTTTT-TTC-AATTTCTCG
* *
42695 AGGTAGACATTCAATTA-AAGTTTGTTTTAA-CAAAAAATGA-AAAAAA
1 AGGTAGACATTCAATTATTA-TCTGTTTTAACCAAAAAAT-ATAAAAAA
42741 NNNNNNNNNN
Statistics
Matches: 1552, Mismatches: 461, Indels: 162
0.71 0.21 0.07
Matches are distributed among these distances:
167 117 0.08
168 16 0.01
169 25 0.02
170 573 0.37
171 534 0.34
172 270 0.17
173 16 0.01
174 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (167 bp):
AGGTAGACATTCAATTATTATCTGTTTTAACCAAAAAATATAAAAAATTTAACTTAAAATTAATT
ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAACAATGAGTGACTATAAATGG
ACCTTTCTTGCCAAGGAATGTTTTTTTCAATTTCTCG
Found at i:41757 original size:684 final size:668
Alignment explanation
Indices: 40727--42070 Score: 1422
Period size: 684 Copynumber: 2.0 Consensus size: 668
40717 GTCTAAAACC
* * *
40727 ATTTAAAGCGCATAATAGGGCTTTTGAAACAATGAGTGACTATAAATGGACTTTTCTTGCCCAGG
1 ATTTAAAGCGCAGAATAAGGCTTTTGAAACAATGAGTGAATATAAATGGACTTTTCTTGCCCAGG
** ** *
40792 AATGCTTTATTCTTCACATTTCTTGAGGTGGACATTCAATTATAGTCTGTTTAGTCAAAAAATAT
66 AATGCTTTATTCTTCACATTTCTTGAGGTACACATTCAATTATAGTCTGTTTAACCAAAAAATAA
* **********
40857 AAAAAATTTAACTCAAAATGAATTATGAGATTATAAAACCATTTAAAGCNNNNNNNNNNGCTTTT
131 AAAAAATTTAACTCAAAATGAACTATGAGATTATAAAACCATTTAAAGCGAGTAATAATGCTTTT
* * **
40922 GAAAGAATAGGTGTCTATAAATAGACTTTTCTTCCCAATAAATAGCATTTTCTACACGTTTCCGG
196 CAAAGAATAGGTGTCTATAAATAGACTTTTCTTCCCAATAAATAGCATTTTCTACACGTGTCCCA
* * * * * *
40987 AGCCAGATATTCAATTAAAGTCTGTTTTAATGAAAAGTGTAAAAAAAATTAACTTATAATCAATT
261 AGCCAAACATTCAATTAAAGTCTATTTTAAAGAAAAATATAAAAAAAATTAACTTATAATCAATT
* * *
41052 ATGAGATTACAAAATCATTTAAAGCTAGTAAATAAGGCTTTTG-AAGGAATAGGTAACAATAAAT
326 ATAAGATTACAAAACCATTTAAAGCGAGT-AATAAGGCTTTTGTAA-GAATAGGTAACAATAAAT
** *** * * *
41116 GGACTTTTCTTGCCAATGAATGCCCTTTTGTTCTTGTTTCTAGACGTGGACATTCAATTATAATC
389 AAACTTTT-TTGCCAATGAATGCCCTTTTGTTCACATTTCTAGACATAGAAATTCAATTATAATC
* * *****
41181 TGTTTTAAC-GAAAAAAGTAAAAA-AATTGAACTTAAAATCAATTTTGAGATTATANNNNNNNNN
453 TGTGTTAACTG-AAAAAGTAAAAATAATTCAACTTAAAATCAATTTTGAGATTATA----AAACT
* *
41244 NAAGTGAGTAATAAGGCTTTTGAAGGAATTGGTGATAATAAATGGCCTTTTCTTACTAATGAATG
513 AAAGTGAGTAATAAGGCTTTTGAAGGAA-TGGTGATAATAAATGG-CTTTTCTTACTAATAAATG
* * * *
41309 CATTTTTCTTCATGTTTCTCAAGGTATACATTCAATTATAATTTTTTTTAACCAAAAAGGT-AAA
576 CATTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAATATGTTTTAACCAAAAAAGTAAAA
41373 AAAATTCAACTTAAAANNNNNNNNNNGATTATAAAATT
641 AAAATTCAACTTAAAA----------GATTATAAAATT
* * *
41411 ATTTAAAGCGCAGAATAAGGCTTTTGAAAGAATGAGTGAATATAAATGGACTTTTCTTGTCCATG
1 ATTTAAAGCGCAGAATAAGGCTTTTGAAACAATGAGTGAATATAAATGGACTTTTCTTGCCCAGG
* * * *
41476 AATGGTTTTTTCTTCACATTTCTTGAGGTACACATT-ATATTTTAGTCTGTTTAACCAAAAATGT
66 AATGCTTTATTCTTCACATTTCTTGAGGTACACATTCA-ATTATAGTCTGTTTAACCAAAAA-AT
* * * *
41540 AAAAAAAATTTGACTTAAAATGAACTATGAGATTATATAACCATTTGAAGCGAGTAATAATGC-T
129 AAAAAAAATTTAACTCAAAATGAACTATGAGATTATAAAACCATTTAAAGCGAGTAATAATGCTT
********** * * * * *
41604 TTCNNNNNNNNNNTGTCTATAAATGGACTTTTCTTCTCAATAAATGGTATTTTCTATACGTGTCC
194 TTCAAAGAATAGGTGTCTATAAATAGACTTTTCTTCCCAATAAATAGCATTTTCTACACGTGTCC
* * *
41669 CAAGCTAAACATTCAATTAAAGTCTATTTTAAAGAAAAATATAAAACAATTTAACTTATAATCAA
259 CAAGCCAAACATTCAATTAAAGTCTATTTTAAAGAAAAATATAAAAAAAATTAACTTATAATCAA
* * * * *
41734 TTATAATATTGCAAAACCATTTAAAGCGAGTAATAAGGCTTTTGTAAGAATGGGTGATAATAAAT
324 TTATAAGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGTAAGAATAGGTAACAATAAAT
** ** * * * *
41799 AAACTTTTTTGTTAATGAATGCTTTTTTTTTCACATTTTTTGACATATAAATTCAATTATAATCT
389 AAACTTTTTTGCCAATGAATGCCCTTTTGTTCACATTTCTAGACATAGAAATTCAATTATAATCT
* *
41864 GTGTTAACTGAAAAAGTAAAAATAATTCAACTTAACATCAATTTTGAGATTATAAAACTANNNNN
454 GTGTTAACTGAAAAAGTAAAAATAATTCAACTTAAAATCAATTTTGAGATTATAAAACTA----A
***** * *
41929 NNNNNGTAATAAGGCTTTTGAAGGAATGGTGATAATAAATGGTTTTTCTTGCTAATAAATGCATT
515 AGTGAGTAATAAGGCTTTTGAAGGAATGGTGATAATAAATGGCTTTTCTTACTAATAAATGCATT
** * * *
41994 TTTCTTTGTGTTTCTCAATGTAAACATTCAGTTATAATATGTTTTAATCAAAAAAGTAAAAAAAA
580 TTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAATATGTTTTAACCAAAAAAGTAAAAAAAA
*
42059 TTGAACTTAAAA
645 TTCAACTTAAAA
42071 CCAATTTTGA
Statistics
Matches: 540, Mismatches: 110, Indels: 22
0.80 0.16 0.03
Matches are distributed among these distances:
681 68 0.13
682 96 0.18
683 86 0.16
684 242 0.45
685 48 0.09
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (668 bp):
ATTTAAAGCGCAGAATAAGGCTTTTGAAACAATGAGTGAATATAAATGGACTTTTCTTGCCCAGG
AATGCTTTATTCTTCACATTTCTTGAGGTACACATTCAATTATAGTCTGTTTAACCAAAAAATAA
AAAAAATTTAACTCAAAATGAACTATGAGATTATAAAACCATTTAAAGCGAGTAATAATGCTTTT
CAAAGAATAGGTGTCTATAAATAGACTTTTCTTCCCAATAAATAGCATTTTCTACACGTGTCCCA
AGCCAAACATTCAATTAAAGTCTATTTTAAAGAAAAATATAAAAAAAATTAACTTATAATCAATT
ATAAGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGTAAGAATAGGTAACAATAAATAA
ACTTTTTTGCCAATGAATGCCCTTTTGTTCACATTTCTAGACATAGAAATTCAATTATAATCTGT
GTTAACTGAAAAAGTAAAAATAATTCAACTTAAAATCAATTTTGAGATTATAAAACTAAAGTGAG
TAATAAGGCTTTTGAAGGAATGGTGATAATAAATGGCTTTTCTTACTAATAAATGCATTTTTCTT
CATGTTTCTCAAGGTAAACATTCAATTATAATATGTTTTAACCAAAAAAGTAAAAAAAATTCAAC
TTAAAAGATTATAAAATT
Found at i:41986 original size:20 final size:21
Alignment explanation
Indices: 41961--41999 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
41951 GGAATGGTGA
*
41961 TAATAAATG-GTTTTTCTTGC
1 TAATAAATGCATTTTTCTTGC
41981 TAATAAATGCATTTTTCTT
1 TAATAAATGCATTTTTCTT
42000 TGTGTTTCTC
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:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
TAATAAATGCATTTTTCTTGC
Found at i:43147 original size:171 final size:171
Alignment explanation
Indices: 42860--43192 Score: 429
Period size: 171 Copynumber: 1.9 Consensus size: 171
42850 AAGAATGAGT
* * * * *
42860 GACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCTAGTTTCTCGAGGTAAATAGTC
1 GACTATAAATAGACTTTTCTAGCCAATGAATGTCCTTTTCTTCTAGTTTCTCAAGGTAAACAGTC
** * *
42925 AATTATAGTCTATTTTAACAAAAAATGTAAAAAAACACAATTTAAAATCAATTATTAGATTATAA
66 AACAATAGTCTATTTTAACAAAAAATGTAAAAAAACACAACTTAAAATCAATTATGAGATTAT-A
* *
42990 AAACTATTTACAGCGAGTAATAAGGCTTTTGAAGAAATGGAC
130 AAACTATTTAAAGCGAGCAATAAGGCTTTTGAAGAAATGGAC
* * * *
43032 GACTATAAATAGATTTTTCTAGCCAATGAATG-CCTTTTCTTC-ACGTTTCTTAAGGTAAGCATT
1 GACTATAAATAGACTTTTCTAGCCAATGAATGTCCTTTTCTTCTA-GTTTCTCAAGGTAAACAGT
* * * * * *
43095 CAACAATAGTTTGTTTTGACGAAAAATGTAAAAAAA-ATTAACTTAGAATCAATTATGAGATTAT
65 CAACAATAGTCTATTTTAACAAAAAATGTAAAAAAACA-CAACTTAAAATCAATTATGAGATTAT
43159 AAAACTATTTAAAGCGAGCAATAAGGCTTTTGAA
129 AAAACTATTTAAAGCGAGCAATAAGGCTTTTGAA
43193 AGNNNNNNNN
Statistics
Matches: 138, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
170 34 0.25
171 75 0.54
172 29 0.21
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (171 bp):
GACTATAAATAGACTTTTCTAGCCAATGAATGTCCTTTTCTTCTAGTTTCTCAAGGTAAACAGTC
AACAATAGTCTATTTTAACAAAAAATGTAAAAAAACACAACTTAAAATCAATTATGAGATTATAA
AACTATTTAAAGCGAGCAATAAGGCTTTTGAAGAAATGGAC
Found at i:44399 original size:168 final size:149
Alignment explanation
Indices: 44300--44716 Score: 244
Period size: 169 Copynumber: 2.5 Consensus size: 149
44290 NNNNNNNNNN
44300 CTCACGTTTCTTGAGGTGGACATTTA-ATTATAGTATATTTTAACAAAAAATATAAAAAATTCAA
1 CTCACGTTTCTTGAGGTGGACATTTATA-TATAGTATATTTTAACAAAAAATATAAAAAATTCAA
* * * *
44364 CTTAAAATCAATTGNNNNNNNNNNAAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGAATGGG
65 CTTAAAATCAATTG----------AAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGAAAAGGG
* *
44429 TGATTATAAATAGACTTTTCTTGCCAAGAA
120 AGACTATAAATAGACTTTTCTTGCCAAGAA
*
44459 NNNNNNNNNNCTCACGTTTCTTGAGGTGGACATTTATATATAGTATATTTTGACAAAAAATATAA
1 ----------CTCACGTTTCTTGAGGTGGACATTTATATATAGTATATTTTAACAAAAAATATAA
* *
44524 AAAATTCAACTTAAAATCAATTGNNNNNNNNNNAAACCATTTAAAGCGAGTAATAAATCTTTTGA
56 AAAATTCAACTTAAAATCAATTG----------AAACCATTTAAAGCGAGTAATAAAGCTTTCGA
* ** * * *
44589 AGGACTGGGTGATTATAAATGGACTTTTCTTGCCAATGAATA
111 AGAAAAGGGAGACTATAAATAGACTTTTCTTGCCAA-G-A-A
* * * * *
44631 TCTTTTCTCCTTGATTTCTCGAGGTAGACATTTA-ATTATAGTCTGTTTTAACAAAAAATATAAA
1 -C---TC-AC--G-TTTCTTGAGGTGGACATTTATA-TATAGTATATTTTAACAAAAAATATAAA
44695 CAAATTCAACTTAAAATCAATT
57 -AAATTCAACTTAAAATCAATT
44717 ANNNNNNNNN
Statistics
Matches: 225, Mismatches: 10, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
163 1 0.00
166 2 0.01
167 1 0.00
169 153 0.68
170 45 0.20
171 22 0.10
172 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.33
Consensus pattern (149 bp):
CTCACGTTTCTTGAGGTGGACATTTATATATAGTATATTTTAACAAAAAATATAAAAAATTCAAC
TTAAAATCAATTGAAACCATTTAAAGCGAGTAATAAAGCTTTCGAAGAAAAGGGAGACTATAAAT
AGACTTTTCTTGCCAAGAA
Found at i:44448 original size:169 final size:158
Alignment explanation
Indices: 44388--44716 Score: 349
Period size: 169 Copynumber: 2.0 Consensus size: 158
44378 NNNNNNNNNN
44388 AAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGAATGGGTGATTATAAATAGACTTTTCTTGC
1 AAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGAATGGGTGATTATAAATAGACTTTTCTTGC
******** *
44453 CAA-GAANNNNNNNNNNCTCACGTTTCTTGAGGTGGACATTT-ATATATAGTATATTTTGACAAA
66 CAATGAA--TATCTTTTCTCACGTTTCTTGAGGTGGACATTTAAT-TATAGTATATTTTAACAAA
44516 AAATATAAAAAATTCAACTTAAAATCAATTG
128 AAATATAAAAAATTCAACTTAAAATCAATTG
* *
44547 NNNNNNNNNNAAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGACTGGGTGATTATAAATGGA
1 ----------AAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGAATGGGTGATTATAAATAGA
* * * *
44612 CTTTTCTTGCCAATGAATATCTTTTCTC-CTTGATTTCTCGAGGTAGACATTTAATTATAGTCTG
56 CTTTTCTTGCCAATGAATATCTTTTCTCAC--G-TTTCTTGAGGTGGACATTTAATTATAGTATA
44676 TTTTAACAAAAAATATAAACAAATTCAACTTAAAATCAATT
118 TTTTAACAAAAAATATAAA-AAATTCAACTTAAAATCAATT
44717 ANNNNNNNNN
Statistics
Matches: 139, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
167 1 0.01
168 3 0.02
169 67 0.48
170 45 0.32
171 23 0.17
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.33
Consensus pattern (158 bp):
AAACCATTTAAAGCGAGTAATAAATCTTTTGAAGGAATGGGTGATTATAAATAGACTTTTCTTGC
CAATGAATATCTTTTCTCACGTTTCTTGAGGTGGACATTTAATTATAGTATATTTTAACAAAAAA
TATAAAAAATTCAACTTAAAATCAATTG
Found at i:44923 original size:171 final size:169
Alignment explanation
Indices: 43677--46165 Score: 1095
Period size: 171 Copynumber: 14.6 Consensus size: 169
43667 NNNNNNGGTA
* ** * *
43677 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCG-CT-ATAAGGCTTTT
1 AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * * *
43740 GAAAGAATTAGTGACTATAAATGGACTTTTCTTGTCC-ATGAATGTTTTTTTCGTC-ATGTGTCT
66 GAAAGAATGAGTGACTATAAATGGACTTTTC-T-TCCAATGAATGTCTTTTTCTTCTA-GTTTCT
* * * * * *
43803 TGAGGTAGACATTTAATTATAGTCTG-TTTAACCAAACATGT
128 AGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
*** * * * ** *
43844 AAAAAAATTTGACTTAAAATGAATCATGCGATTATAAAACCATTTAAAGCAAGTAATAATGCTTT
1 -AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* * * * * * *
43909 TAAAAGAATGGGTGTCTATAAATGGACTTTTCTTCTCAATAAATGACATTTTC-TATACGTTTCC
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTTC-CAATGAATGTCTTTTTCTTCTA-GTTT-C
** * * * * * * *
43973 T-GAGCCAAATATTCAATTAAAGTCTATTTTAA-AAGAAATGT
127 TAGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
** * ********** ** *
44014 AAAAAAATTTAACTTAAAATCAATTTTGNNNNNNNNNNACCATTTAAAGCAAGTAATAAGACTTT
1 -AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* * * * * *
44079 TGAAGGGAT-AGGTGA-TAATAAATGGTCTTTTCTTGCTAGTGAATG-CATTTTCTTC-ATGTTT
65 TGAAAGAATGA-GTGACT-ATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTA-GTTT
* * * * * * *
44140 CTCA-ACGTAGATATTTAGTTATAATATGTTTTATCCAAAAAAGTAA
126 CT-AGAGGTAGACATTCAATTATAGTATGTTTTA-ACAAAAAA-TAT
** * *
44186 AAAAAATTGAACTT-AAATCAATTTTGAGATTATAAAACTATTTAAA-TCGAGTAATAAGGCTTT
1 AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-GAGTAATAAGGCTTT
* * * * * *********
44249 CGAAA-AAAGGGAGACTATAAATAGACTTTTCTTGCCAA-GAANNNNNNNNNNC-TC-ACGTTTC
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAA-TGTCTTTTTCTTCTA-GTTTC
* * * *
44310 TTGAGGTGGACATTTAATTATAGTATATTTTAACAAAAAATAT
127 TAGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
* *********** * **
44353 AAAAAATTCAACTTAAAATCAATTGNNNNNNNNNNAAACCATTTAAAGCGAGTAATAAATCTTTT
1 AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * * * *********
44418 GAAGGAATGGGTGATTATAAATAGACTTTTCTTGCCAA-GAANNNNNNNNNNC-TC-ACGTTTCT
66 GAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAA-TGTCTTTTTCTTCTA-GTTTCT
* * * * *
44480 TGAGGTGGACATT-TATATATAGTATATTTTGACAAAAAATAT
128 AGAGGTAGACATTCAAT-TATAGTATGTTTTAACAAAAAATAT
* *********** * **
44522 AAAAAATTCAACTTAAAATCAATTGNNNNNNNNNNAAACCATTTAAAGCGAGTAATAAATCTTTT
1 AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * * * * * * *
44587 GAAGGACTGGGTGATTATAAATGGACTTTTCTTGCCAATGAATATC-TTTTCTCCTTGATTTCTC
66 GAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTAG-TTTCTA
* *
44651 GAGGTAGACATTTAATTATAGTCTGTTTTAACAAAAAATAT
129 GAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
* ******************* * *
44692 AAACAAATTCAACTTAAAATCAATTANNNNNNNNNNNNNNNNNNNAAAGCGAGCAATAAGGCTTT
1 AAA-AAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
*
44757 TGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCTAATGAATGTCTTTTTGTTCTAGTTTCTC
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTTCC-AATGAATGTCTTTTTCTTCTAGTTTCT-
*
44822 AG-GGTAGACATTCAATTATAATATGTTTTAACAAAAAATAT
128 AGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
***********
44863 AAAACAATACAACTTAAAATCAATTATGAGATTATANNNNNNNNNNCAGTGAGTAATAAGGCTTT
1 AAAA-AATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* * * * *
44928 TGAAGGAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATG-CCTTTTCTTC-ATGTTTCT
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTA-GTTTCT
* * * ** * * * *
44991 TGAAGTA-AGCATTCCACAATAGTCTGTTTTAACTAAAATTGT
128 AGAGGTAGA-CATTCAATTATAGTATGTTTTAACAAAAAATAT
* * ********** * *
45033 AATAAAATTCAACTTAGAATCAATTATGAGATTATAAAACCNNNNNNNNNNAGCACTAAGGCTTT
1 AA-AAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
*
45098 TGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATGTCTTTTTTTTCTAGTTTCTC
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTAGTTTCT-
* * * *
45163 A-AGGAAGACATTCAATTATAGTCTGTTTTAATAAAAAATGT
128 AGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
* * * *
45204 AAAAAAATATATCTTAAAATCAATTATGAGATTATAAAACCATTTATAGTGAGTAATAAGGTTTT
1 -AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
********** * *
45269 TG-AAGAAATGAGTGACTANNNNNNNNNNTTTCTTGCCAATGAATG-CCTTTTCTTC-ACATTTC
65 TGAAAG-AATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTA-GTTTC
* * ** *
45331 TAGAGCTAAACATTCAACAATAGTTTGTTTTAATC-AAAAATAT
127 TAGAGGTAGACATTCAATTATAGTATGTTTTAA-CAAAAAATAT
* * * ** * *
45374 AAAAAAATTCAACTTAGAATCAATTATGAGATAATAAAATGATTTAAAGCGAGTAACAAGGCTTT
1 -AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* * *
45439 TGAAAGAATGAGTGACTATAAATGGACTTTTCTTGTCAATTAATGTCTTTTTCTT-TGGGTTTCT
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCT-AGTTTCT
* * *
45503 AGAGGTAGACATTTAATTATAGTATATTTTAACTAAAAATAT
128 AGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
* * ** * * *
45545 AAGAAAATATAACTTAAAATCAATTATGAGATTAAAAAATTATTTACAGCGAGTAATAAGGCTTN
1 AA-AAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
********* * * * *
45610 NNNNNNNNNGAGTGAGTATAAATAGACTTTTCTTGCCAATTAATGTCTTTTTCTT-AACGTTTTC
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTA-G-TTTC
* * * * * * *
45674 TA-AGGCAGGCATTTAATTATATTCTGTTTTAACCAAAAATGT
127 TAGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
* * **********
45716 AAACAAATTCAACTTAAAATCAATTATTA-AGTTATAAAACCANNNNNNNNNNGTAATAAGGCTT
1 AAA-AAATACAACTTAAAATCAATTATGAGA-TTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * * * * * * * *
45780 TTGGAGGAATGGGTGACAATAAATTGAATTTTCTTGTCAATGAATG-CCTTTTCTTC-ACATTTC
64 TTGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTA-GTTTC
* * * * * *
45843 TTGAGGTAGGCATTCAATAATAGTCTATTTTAATAAAAAATAT
127 TAGAGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
** * ** * *
45886 AAAAAAATACAACTTAAAATCAATTATGACCTTATAAAACTATTTACTGCGAGCAATAAGGCTTT
1 -AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* ** * * * * * *
45951 TGAAAGAATAAACGGCTATAAATGAACTTTACTTGCCAATTAATGTCTTTTTCTTCAAGTTTCTT
65 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTAGTTTCTA
* * * *
46016 GACGTAAACATTCAATTATAGTTTGTTTTAACCAAAAAGGTA-
129 GAGGTAGACATTCAATTATAGTATGTTTTAA-CAAAAA-ATAT
*********** * *
46058 AAAAAATTNNNNNNNNNNTCAATTATGAGATTATAAAATCATTTCAAA--CATGTAATATA-GCT
1 AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAAGTGA-GTAATA-AGGCT
*
46120 TTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCCATGAAT
63 TTTGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAAT
46166 ATTTTNNNNN
Statistics
Matches: 1796, Mismatches: 454, Indels: 139
0.75 0.19 0.06
Matches are distributed among these distances:
167 15 0.01
168 95 0.05
169 294 0.16
170 627 0.35
171 733 0.41
172 30 0.02
173 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (169 bp):
AAAAAATACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
GAAAGAATGAGTGACTATAAATGGACTTTTCTTCCAATGAATGTCTTTTTCTTCTAGTTTCTAGA
GGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT
Found at i:45141 original size:341 final size:340
Alignment explanation
Indices: 44737--46165 Score: 1051
Period size: 341 Copynumber: 4.2 Consensus size: 340
44727 NNNNNNNNNN
* *
44737 AAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCTAATGAATG
1 AAAGCGAGCACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATG
* *
44802 TCTTTTTGTTCTAGTTTCTCAGGGTAGACATTCAATTATAATATGTTTTAACAAAAAATATAAAA
66 TCTTTTTCTTCTAGTTTCTCAGGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATATAAAA
* **********
44867 CAATACAACTTAAAATCAATTATGAGATTATANNNNNNNNNNCAGTGAGTAATAAGGCTTTTGAA
131 -AATATAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAA
* ** *
44932 GGAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTTGAAG-
195 GAAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAG-AGC
* * * * *
44996 TAAGCATTCCACAATAGTCTGTTTTAA-CTAAAATTGTAATAAAATTCAACTTAGAATCAATTAT
259 TAAACATTCAACAATAGTCTGTTTTAATC-AAAAATATAAAAAAATTCAACTTAGAATCAATTAT
* ****
45060 GAGATTATAAAACCNNNN
323 GAGATAATAAAACCATTT
******
45078 NNNNNNAGCACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATG
1 AAAGCGAGCACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATG
* * * * * *
45143 TCTTTTTTTTCTAGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAA
66 TCTTTTTCTTCTAGTTTCTCAGGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT-AAA
* * *
45208 AAATATATCTTAAAATCAATTATGAGATTATAAAACCATTTATAGTGAGTAATAAGGTTTTTGAA
130 AAATATAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAA
* **********
45273 GAAATGAGTGACTANNNNNNNNNNTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCT
195 GAAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCT
*
45338 AAACATTCAACAATAGTTTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCAATTATGA
260 AAACATTCAACAATAGTCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCAATTATGA
**
45403 GATAATAAAATGATTT
325 GATAATAAAACCATTT
* ** *
45419 AAAGCGAGTAAC-AAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGTCAATTAAT
1 AAAGCGAG-CACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAAT
* * * *
45483 GTCTTTTTCTT-TGGGTTTCT-AGAGGTAGACATTTAATTATAGTATATTTTAACTAAAAATATA
65 GTCTTTTTCTTCT-AGTTTCTCAG-GGTAGACATTCAATTATAGTATGTTTTAACAAAAAATATA
* ** * **
45546 AGAAAATATAACTTAAAATCAATTATGAGATTAAAAAATTATTTACAGCGAGTAATAAGGCTTNN
128 A-AAAATATAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTT
********* * * * * * *
45611 NNNNNNNNGAGTGAGTATAAATAGACTTTTCTTGCCAATTAATGTCTTTTTCTTAACGTTTTCTA
192 GAAGAAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATG-CCTTTTCTTCAC-ATTTCTA
** * ** * * * * *
45676 -AGGC-AGGCATTTAATTATATTCTGTTTTAACCAAAAATGTAAACAAATTCAACTTAAAATCAA
255 GA-GCTAAACATTCAACAATAGTCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCAA
* * ***
45739 TTATTA-AGTTATAAAACCANNN
319 TTATGAGA-TAATAAAACCATTT
******* * * * * * * * * **
45761 NNNNNNNGTAATAAGGCTTTTGGAGGAATGGGTGACAATAAATTGAATTTTCTTGTCAATGAATG
1 AAAGCGAGCACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATG
* * * * * * * *
45826 -CCTTTTCTTC-ACATTTCT-TGAGGTAGGCATTCAATAATAGTCTATTTTAATAAAAAATATAA
66 TCTTTTTCTTCTA-GTTTCTCAG-GGTAGACATTCAATTATAGTATGTTTTAACAAAAAATAT-A
* ** * * * *
45888 AAAAATACAACTTAAAATCAATTATGACCTTATAAAACTATTTACTGCGAGCAATAAGGCTTTTG
128 AAAAATATAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTG
** * * * * *
45953 AA-AGAATAAACGGCTATAAAT-GAACTTTACTTGCCAATTAATGTCTTTTTCTTCA-AGTTTCT
193 AAGA-AATAAGTGACTATAAATAG-ATTTTTCTTGCCAATGAATG-CCTTTTCTTCACA-TTTCT
* ** * * ** **********
46015 TGA-CGTAAACATTCAATTATAGTTTGTTTTAACCAAAAAGGTAAAAAAATTNNNNNNNNNNTCA
254 AGAGC-TAAACATTCAACAATAGTCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCA
* *
46079 ATTATGAGATTATAAAATCATTT
318 ATTATGAGATAATAAAACCATTT
* *
46102 CAAA-C-ATGTAATATA-GCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCC-ATG
1 -AAAGCGA-GCACTA-AGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCCAATG
46163 AAT
62 AAT
46166 ATTTTNNNNN
Statistics
Matches: 849, Mismatches: 213, Indels: 52
0.76 0.19 0.05
Matches are distributed among these distances:
339 1 0.00
340 12 0.01
341 697 0.82
342 131 0.15
343 8 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (340 bp):
AAAGCGAGCACTAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATG
TCTTTTTCTTCTAGTTTCTCAGGGTAGACATTCAATTATAGTATGTTTTAACAAAAAATATAAAA
AATATAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAG
AAATAAGTGACTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCTA
AACATTCAACAATAGTCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCAATTATGAG
ATAATAAAACCATTT
Found at i:45607 original size:512 final size:512
Alignment explanation
Indices: 45089--46165 Score: 1085
Period size: 512 Copynumber: 2.1 Consensus size: 512
45079 NNNNNAGCAC
*
45089 TAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATGTCTTTTTTTTC
1 TAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATGTCTTTTTCTT-
* * *
45154 TA-G-TTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAATAT-AT
65 AACGTTTTCT-AAGGAAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAAT-TCAA
*
45216 CTTAAAATCAATTATG-AGATTATAAAACCATTTATAGTGAGTAATAAGGTTTTTGAAGAAATGA
128 CTTAAAATCAATTATGAAG-TTATAAAACCATTTATAGTGAGTAATAAGGCTTTTGAAGAAATGA
* **********
45280 GTGACTANNNNNNNNNNTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCTAAACATT
192 GTGACAATAAATTGAATTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCTAAACATT
* * * * * *
45345 CAACAATAGTTTGTTTTAATCAAAAATATAAAAAAATTCAACTTAGAATCAATTATGAGATAATA
257 CAACAATAGTCTATTTTAATAAAAAATATAAAAAAATACAACTTAAAATCAATTATGACATAATA
* * ** * *
45410 AAA-TGATTTAAAGCGAGTAACAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTG
322 AAACT-ATTTAAAGCGAGCAACAAGGCTTTTGAAAGAATAAACGACTATAAATGAACTTTACTTG
* *** * * * *
45474 TCAATTAATGTCTTTTTCTTTGGGTTTCTAGAGGTAGACATTTAATTATAGTATATTTTAACTAA
386 CCAATTAATGTCTTTTTCTTCAAGTTTCTAGACGTAAACATTCAATTATAGTATATTTTAACCAA
* * * *
45539 AAATATAAGAAAA-TATAACTTAAAATCAATTATGAGATTAAAAAATTATTT-ACAGCGA-GTAA
451 AAAGATAAAAAAATTA-AACTTAAAATCAATTATGAGATTAAAAAATCATTTCA-AAC-ATGTAA
********** * * * *
45601 TAAGGCTTNNNNNNNNNNGAGTGAGTATAAATAGACTTTTCTTGCCAATTAATGTCTTTTTCTTA
1 TAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATGTCTTTTTCTTA
* * * * * *
45666 ACGTTTTCTAAGGCAGGCATTTAATTATATTCTGTTTTAACCAAAAATGTAAACAAATTCAACTT
66 ACGTTTTCTAAGGAAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAATTCAACTT
* ********** * * *
45731 AAAATCAATTATTAAGTTATAAAACCANNNNNNNNNNGTAATAAGGCTTTTGGAGGAATGGGTGA
131 AAAATCAATTATGAAGTTATAAAACCATTTATAGTGAGTAATAAGGCTTTTGAAGAAATGAGTGA
* * * ** *
45796 CAATAAATTGAATTTTCTTGTCAATGAATGCCTTTTCTTCACATTTCTTGAGGTAGGCATTCAAT
196 CAATAAATTGAATTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCTAAACATTCAAC
* *
45861 AATAGTCTATTTTAATAAAAAATATAAAAAAATACAACTTAAAATCAATTATGACCTTATAAAAC
261 AATAGTCTATTTTAATAAAAAATATAAAAAAATACAACTTAAAATCAATTATGACATAATAAAAC
** * *
45926 TATTTACTGCGAGCAATAAGGCTTTTGAAAGAATAAACGGCTATAAATGAACTTTACTTGCCAAT
326 TATTTAAAGCGAGCAACAAGGCTTTTGAAAGAATAAACGACTATAAATGAACTTTACTTGCCAAT
* * * *
45991 TAATGTCTTTTTCTTCAAGTTTCTTGACGTAAACATTCAATTATAGTTTGTTTTAACCAAAAAGG
391 TAATGTCTTTTTCTTCAAGTTTCTAGACGTAAACATTCAATTATAGTATATTTTAACCAAAAAGA
********** *
46056 TAAAAAAATTNNNNNNNNNNTCAATTATGAGATTATAAAATCATTTCAAACATGTAA
456 TAAAAAAATTAAACTTAAAATCAATTATGAGATTAAAAAATCATTTCAAACATGTAA
46113 TATA-GCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCC-ATGAAT
1 TA-AGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCCAATGAAT
46166 ATTTTNNNNN
Statistics
Matches: 440, Mismatches: 115, Indels: 20
0.77 0.20 0.03
Matches are distributed among these distances:
511 3 0.01
512 424 0.96
513 13 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (512 bp):
TAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCCAATGAATGTCTTTTTCTTA
ACGTTTTCTAAGGAAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAATTCAACTT
AAAATCAATTATGAAGTTATAAAACCATTTATAGTGAGTAATAAGGCTTTTGAAGAAATGAGTGA
CAATAAATTGAATTTTCTTGCCAATGAATGCCTTTTCTTCACATTTCTAGAGCTAAACATTCAAC
AATAGTCTATTTTAATAAAAAATATAAAAAAATACAACTTAAAATCAATTATGACATAATAAAAC
TATTTAAAGCGAGCAACAAGGCTTTTGAAAGAATAAACGACTATAAATGAACTTTACTTGCCAAT
TAATGTCTTTTTCTTCAAGTTTCTAGACGTAAACATTCAATTATAGTATATTTTAACCAAAAAGA
TAAAAAAATTAAACTTAAAATCAATTATGAGATTAAAAAATCATTTCAAACATGTAA
Found at i:47691 original size:169 final size:168
Alignment explanation
Indices: 47142--47696 Score: 577
Period size: 167 Copynumber: 3.3 Consensus size: 168
47132 NNNNNNNNNN
* * *
47142 GAGATTATAAAACCATTTAAAGCGAGTAATAAGA-CTTTTGAAGGAATAGGTGATAATAAATTAT
1 GAGATTATAAAACCATTTAAAGCGAGTAATAAGAGCTTTTGAAGGAATGGGTGACAATAAATGAT
* ** * * *
47206 CTTTTCTTGCTAATGAATGCATTTTTCTTCATATTTCTCAACGTAGACATTTAGTTATAATATAT
66 -TTTTCTTGCTAATAAATGC-TTTTTCTTCACGTTTCTCGAGGTAGACATTTAATTATAATATAT
* * *
47271 TTTAACTAAAAAAGTAAAAAAAATTAAACTTAAAATGAATTTT
129 TTTAAC-AAAAAA-TATAAAAAATT-AACTTAAAATCAATTAT
* * ** ** *
47314 AAGATTATAAAACTATTTAAATTGAGTAATAAG-GCTTTTGAAGGAATGGGAAACTATAAATAGA
1 GAGATTATAAAACCATTTAAAGCGAGTAATAAGAGCTTTTGAAGGAATGGGTGACAATAAAT-GA
* * * * *
47378 CTTTTCTTG-TCAATAAATGCTTTTTC-TCACGTTTCTTGAGGTAGATATTTAATTATAGTATGT
65 TTTTTCTTGCT-AATAAATGCTTTTTCTTCACGTTTCTCGAGGTAGACATTTAATTATAATATAT
* *
47441 TTTAAC-AAAAATGTAAAAAATTTAACTTAAAATCAATTGT
129 TTTAACAAAAAATATAAAAAA-TTAACTTAAAATCAATTAT
* *
47481 GAGATTATAAAACCATTTAGAGCGTGTAATAA-AGCTTTTGAAGGAATGGGTGACAATAAATGGA
1 GAGATTATAAAACCATTTAAAGCGAGTAATAAGAGCTTTTGAAGGAATGGGTGACAATAAAT-GA
* * * * * * ** *
47545 TTTTTTTTGCTAATAAATACCTTTTCTTCACGTTTCTCGAGGTAGGCATTCAATGATTCTCTATT
65 TTTTTCTTGCTAATAAATGCTTTTTCTTCACGTTTCTCGAGGTAGACATTTAATTATAATATATT
*
47610 TTAACAAAAAATATAAAAAATGTAACTTGAAATCAATTAT
130 TTAACAAAAAATATAAAAAAT-TAACTTAAAATCAATTAT
* * * *
47650 GAGATTATAAAACTATTTACTA-CGAGCAATAAGAG-TTTTGAAAGAAT
1 GAGATTATAAAACCATTTA-AAGCGAGTAATAAGAGCTTTTGAAGGAAT
47697 AAGTGGCTAT
Statistics
Matches: 316, Mismatches: 56, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
167 95 0.30
168 43 0.14
169 66 0.21
170 37 0.12
171 7 0.02
172 67 0.21
173 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (168 bp):
GAGATTATAAAACCATTTAAAGCGAGTAATAAGAGCTTTTGAAGGAATGGGTGACAATAAATGAT
TTTTCTTGCTAATAAATGCTTTTTCTTCACGTTTCTCGAGGTAGACATTTAATTATAATATATTT
TAACAAAAAATATAAAAAATTAACTTAAAATCAATTAT
Found at i:49177 original size:170 final size:170
Alignment explanation
Indices: 48638--49612 Score: 603
Period size: 170 Copynumber: 5.7 Consensus size: 170
48628 NNNNNNNNAG
* * * * * * *
48638 GAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGTCTTTTTTTTCTAGTTTTTCAAAGT
1 GAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCTTTATAGTTTCTCAAGGT
* * ********** *
48703 -AGACATTCAATTATAGTCTGTTTT-ANNNNNNNNNNAAAAAAATTCAACTTAAAATCAATTACG
66 AAG-CATTCAATAATAGTCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * * *
48766 AGATCATAAAGCCGTTTAGAGCGAGCAATAAGGCTTTTGAAA
130 AGATTATAAAACCATTTACAGCAAGCAA-AAGGCTTTTGAAA
* * * * * ** * * *
48808 GAATGAGTGACTGTAAATGGACCTTCCTTCCCAATAAATATCTTTT-TCTTCTAGTTTTTGAAGG
1 GAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCT-TTATAGTTTCTCAAGG
* * * * * * ** * *
48872 T-AGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAACAATAGAACTTATAATTAATTAT
65 TAAG-CATTCAATAATAGTCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* ** * *
48936 GAGATTATAAAACCATTTAGAGTGAGTAATAAGGCTTTTGAAG
129 GAGATTATAAAACCATTTACAGCAAGCAA-AAGGCTTTTGAAA
*************** * *
48979 GAATGNNNNNNNNNNNNNNNATTTTTCTTGCCAATGAATGCCTTTTCTTTAT-GTTTCTCGAGGT
1 GAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCTTTATAGTTTCTCAAGGT
* * * *
49043 AAGCATTCAATAATAGTCTCTTTTAACTAAAAATGTAAGAAAATTCAACCTAAAATCGATTATGA
66 AAGCATTCAATAATAGTCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * *
49108 GATTATAAAGCCATTTAAAGCGAGCCAAAAGGCTTTTGAAA
131 GATTATAAAACCATTTACAGCAAG-CAAAAGGCTTTTGAAA
* *
49149 GAATAAGTGACTATAAATGGACTTTTCTT-CTCAATGAATGTCTTTTTCTTT-TAGTTTC-CAGA
1 GAATGAGTGACTATAAATGGACTTTTCTTGC-CAATGAATG-CCTTTTCTTTATAGTTTCTCA-A
* * *
49211 GGT-AGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAAATAT-AACTTAAAATCAA
63 GGTAAG-CATTCAATAATAGTCTATTTTAACTAAAAATGT-AAAAAAAT-TCAACTTAAAATCAA
* * * ********* *
49274 TTAGGAGATTATAAAACCATTTACAGCTAGTANNNNNNNNNNTGAAG
125 TTATGAGATTATAAAACCATTTACAGCAAGCA-AAAGGCTTTTGAAA
* * *
49321 GAATGGGTGACTATAAATGGA-TTTCTCTTGTCAATGAATGCCTTTTCTTCAT-GTTTCTCAAGG
1 GAATGAGTGACTATAAATGGACTTT-TCTTGCCAATGAATGCCTTTTCTTTATAGTTTCTCAAGG
* * ************* *
49384 TAGGCATTCAACAATANNNNNNNNNNNNNAAAAATGTAAAAAAATACAACTTAAAATCAATTATG
65 TAAGCATTCAATAATAGTCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
*
49449 AGATTATAAAATCATTTACAGCAAGCAATAAGGCTTTTGAAA
130 AGATTATAAAACCATTTACAGCAAGCAA-AAGGCTTTTGAAA
* * * * *
49491 AAATGAGT-AGCTATAAATGAACTTCTCTTGCCAATGAATGTCTTTT-TCTACTAGTTTCTCAAG
1 GAATGAGTGA-CTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCTTTA-TAGTTTCTCAAG
* * *
49554 GTAGGCATTCAATTACAGTCTATTTTAA-TAAAAAATGTAAAAAAATTCAACTTAAAATC
64 GTAAGCATTCAATAATAGTCTATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATC
Statistics
Matches: 604, Mismatches: 176, Indels: 49
0.73 0.21 0.06
Matches are distributed among these distances:
169 5 0.01
170 282 0.47
171 231 0.38
172 85 0.14
173 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.33
Consensus pattern (170 bp):
GAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCTTTATAGTTTCTCAAGGT
AAGCATTCAATAATAGTCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAACCATTTACAGCAAGCAAAAGGCTTTTGAAA
Found at i:49369 original size:171 final size:170
Alignment explanation
Indices: 48738--49612 Score: 493
Period size: 171 Copynumber: 5.1 Consensus size: 170
48728 NNNNNNNNNN
* * * * * *
48738 AAAAAAATTCAACTTAAAATCAATTACGAGATCATAAAGCCGTTTAGAGCGAG-CAATAAGGCTT
1 AAAAAAATTCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCAA-AAGGCTT
* * * * ** * * * *
48802 TTGAAAGAATGAGTGACTGTAAATGGACCTTCCTTCCCAATAAATATCTTTTTCTTCTA-GTTTT
65 TTGAAAGAATAAGTGACTATAAATGGA-TTTTCTTGTCAATGAAT-GCCTTTTCTT-TATGTTTC
* * * * *
48866 TGA-AGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAT
127 TCAGAGGTAGACATTCAATAATAGTCTCTTTTAACAAAAAATGT
* ** * * * * * * *
48909 AAAACAATAGAACTTATAATTAATTATGAGATTATAAAACCATTTAGAGTGAG-TAATAAGGCTT
1 AAAAAAATTCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCAA-AAGGCTT
* **************** *
48973 TTGAAGGAATGNNNNNNNNNNNNNNNATTTTTCTTGCCAATGAATGCCTTTTCTTTATGTTTCTC
65 TTGAAAGAATAAGTGACTATAAATGGA-TTTTCTTGTCAATGAATGCCTTTTCTTTATGTTTCTC
*
49038 -GAGGTA-AGCATTCAATAATAGTCTCTTTTAACTAAAAATGT
129 AGAGGTAGA-CATTCAATAATAGTCTCTTTTAACAAAAAATGT
* * * *
49079 AAGAAAATTCAACCTAAAATCGATTATGAGATTATAAAGCCATTTAAAGCGAGCCAAAAGGCTTT
1 AAAAAAATTCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCAAAAGGCTTT
* *
49144 TGAAAGAATAAGTGACTATAAATGGACTTTTCTTCTCAATGAATGTCTTTTTCTTT-TAGTTTC-
66 TGAAAGAATAAGTGACTATAAATGGA-TTTTCTTGTCAATGAATG-CCTTTTCTTTAT-GTTTCT
* *
49207 CAGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGT
128 CAGAGGTAGACATTCAATAATAGTCTCTTTTAACAAAAAATGT
* * * * ******
49250 AAAAAAAATAT-AACTTAAAATCAATTAGGAGATTATAAAACCATTTACAGCTAG-TANNNNNNN
1 -AAAAAAAT-TCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCA-AAAGGC
*** * ** *
49313 NNNTGAAGGAATGGGTGACTATAAATGGATTTCTCTTGTCAATGAATGCCTTTTCTTCATGTTTC
63 TTTTGAAAGAATAAGTGACTATAAATGGATTT-TCTTGTCAATGAATGCCTTTTCTTTATGTTTC
* * *************
49378 TCA-AGGTAGGCATTCAACAATANNNNNNNNNNNNNAAAAATGT
127 TCAGAGGTAGACATTCAATAATAGTCTCTTTTAACAAAAAATGT
* * * * * *
49421 AAAAAAATACAACTTAAAATCAATTATGAGATTATAAAATCATTTACAGCAAG-CAATAAGGCTT
1 AAAAAAATTCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCAA-AAGGCTT
* * * * * * *
49485 TTGAAAAAATGAGT-AGCTATAAATGAACTTCTCTTGCCAATGAATGTCTTTT-TCTACTAGTTT
65 TTGAAAGAATAAGTGA-CTATAAATGGA-TTTTCTTGTCAATGAATGCCTTTTCTTTA-T-GTTT
* * * * *
49548 CTCA-AGGTAGGCATTCAATTACAGTCTATTTTAATAAAAAATGT
126 CTCAGAGGTAGACATTCAATAATAGTCTCTTTTAACAAAAAATGT
*
49592 AAAAAAATTCAACTTAAAATC
1 AAAAAAATTCAACCTAAAATC
Statistics
Matches: 528, Mismatches: 156, Indels: 40
0.73 0.22 0.06
Matches are distributed among these distances:
169 6 0.01
170 212 0.40
171 224 0.42
172 85 0.16
173 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.32
Consensus pattern (170 bp):
AAAAAAATTCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGCCAAAAGGCTTT
TGAAAGAATAAGTGACTATAAATGGATTTTCTTGTCAATGAATGCCTTTTCTTTATGTTTCTCAG
AGGTAGACATTCAATAATAGTCTCTTTTAACAAAAAATGT
Found at i:49456 original size:342 final size:340
Alignment explanation
Indices: 48738--49612 Score: 889
Period size: 342 Copynumber: 2.6 Consensus size: 340
48728 NNNNNNNNNN
* * * *
48738 AAAAAAATTCAACTTAAAATCAATTACGAGATCATAAAGCCGTTTAGAGCGAGCAATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAGCAATAAGGCTTT
* * * * * **
48803 TGAAAGAATGAGTGACTGTAAATGGACCTTCCTTCCCAATAAATATCTTTTTCTTCTAGTTT-TT
66 TGAAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTAGTTTCCA
* * * * * *
48867 GAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAACAATAGAACTTATAATTAA
130 G-AGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAATATAACTTAAAATCAA
* * *************
48932 TTATGAGATTATAAAACCATTTAGAGTGAGTAATAAGGCTTTTGAAGGAATGNNNNNNNNNNNNN
194 TTAGGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
** * * * *
48997 NNATTTTTCTTGCCAATGAATGCCTTTTCTTTATGTTTCTCGAGGTAAGCATTCAATAATAGTCT
259 GGATTTCTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTCAAGGTAAGCATTCAACAATAGTCT
49062 CTTTTAACTAAAAATGT
324 CTTTTAACTAAAAATGT
* * *
49079 AAGAAAATTCAACCTAAAATCGATTATGAGATTATAAAGCCATTTAAAGCGAGCCAA-AAGGCTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAG-CAATAAGGCTT
* *
49143 TTGAAAGAATAAGTGACTATAAATGGACTTTTCTTCTCAATGAATGTCTTTTTCTTTTAGTTTCC
65 TTGAAAGAATGAGTGACTATAAATGGACTTTTCTTC-CAATGAATGTCTTTTTCTTCTAGTTTCC
49208 AGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAAATATAACTTAAAATCA
129 AGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGT-AAAAAAATATAACTTAAAATCA
**********
49273 ATTAGGAGATTATAAAACCATTTACAGCT-AGTANNNNNNNNNNTGAAGGAATGGGTGACTATAA
193 ATTAGGAGATTATAAAACCATTTACAG-TGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA
* * **
49337 ATGGATTTCTCTTGTCAATGAATGCCTTTTCTTCATGTTTCTCAAGGTAGGCATTCAACAATANN
257 ATGGATTTCTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTCAAGGTAAGCATTCAACAATAGT
***********
49402 NNNNNNNNNNNAAAAATGT
322 CTCTTTTAACTAAAAATGT
* ** * *
49421 AAAAAAATACAACTTAAAATCAATTATGAGATTATAAAATCATTTACAGCAAGCAATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAGCAATAAGGCTTT
* * * *
49486 TGAAAAAATGAGT-AGCTATAAATGAACTTCTCTTGCCAATGAATGTCTTTTTCTACTAGTTTCT
66 TGAAAGAATGAGTGA-CTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCTAGTTTC-
* * * *
49550 CA-AGGTAGGCATTCAATTACAGTCTATTTTAATAAAAAATGTAAAAAAAT-TCAACTTAAAATC
128 CAGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAATAT-AACTTAAAATC
Statistics
Matches: 438, Mismatches: 86, Indels: 20
0.81 0.16 0.04
Matches are distributed among these distances:
340 2 0.00
341 168 0.38
342 264 0.60
343 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.32
Consensus pattern (340 bp):
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAGCAATAAGGCTTT
TGAAAGAATGAGTGACTATAAATGGACTTTTCTTCCAATGAATGTCTTTTTCTTCTAGTTTCCAG
AGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTAAAAAAATATAACTTAAAATCAATT
AGGAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG
ATTTCTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTCAAGGTAAGCATTCAACAATAGTCTCT
TTTAACTAAAAATGT
Done.