Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017950.1 Corchorus olitorius cultivar O-4 contig17983, 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: 29617
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Found at i:1105 original size:332 final size:332
Alignment explanation
Indices: 180--1123 Score: 1364
Period size: 331 Copynumber: 2.8 Consensus size: 332
170 GCCAAAAACT
*
180 GTACATGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTATTTATCAATTTTTGGCCA
1 GTACATGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATT-TTTCTCAATTTTTGGCCA
* * *
245 CCATACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGATTTTCAGGCTTCTAATA
65 CAATACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGAGCTTTTCAGGCTTCTAATA
*
310 TCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA
130 TCATTTTTCCTACTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA
* * * *
375 ATATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGGATATAAATATTTTAA-AAGGTC
195 AAATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGA-GTC
439 TTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTATAGCAAAAAACAG
259 TTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTATAGCAAAAAACAG
504 TGATGGTTA
324 TGATGGTTA
* * * * * *
513 GTACACGATTTCAGCCAAAATTTTGCAAAAACTGTTCCGGAAAATATTTTCTCAATTTTT-CCCT
1 GTACATGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAAT-TTTTCTCAATTTTTGGCCA
* * * *
577 TAATACTCATAACAAAA-ATATAATTCAACGCCAATAAATTTTAA-AGGCTTTTTAGGCTTCTAA
65 CAATACTCATAA-AAAATATATAACTCAACGCCAATAAAATTTAAGA-GCTTTTCAGGCTTCTAA
* * * *
640 TAT-AATTTTCCTACTTTTCCGAATTAATTACTAATTAAATCGAAGCATAATTCAGTTGCTCGTA
128 TATCATTTTTCCTACTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTA
* * *
704 AAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGGGTAGATGAATATAAATGTTTTATGGAGT
193 AAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGT
** * *
769 CTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGTGCGTTTTTAGCAAAAAATA
258 CTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTATAGCAAAAAACA
*
834 GTGTTGGTTA
323 GTGATGGTTA
* *
844 GTACATGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTGGCCA
1 GTACATGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTT-CTCAATTTTTGGCCA
* * * * * *
909 CAATATTCATAAAAAATATATAACTCATCGCTAAAAAAATTTAAGAGCTTTTCATGCTTATAATA
65 CAATACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGAGCTTTTCAGGCTTCTAATA
* *
974 TCGTTTTTCCTA-TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCATAAA
130 TCATTTTTCCTACTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA
** * *
1038 ACCTTATCCTTAAATCCATTGT-GCGTGAGATTTGGTTAGATGAAAATAGATATTTTAAGGAGTC
195 AAATTATCCTTAAATCCATTGTGGC-TGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTC
1102 TTGCTGCCAAAAATCAT-CAAAA
259 TTGCTGCCAAAAATCATGCAAAA
1124 ACTGTGTCGC
Statistics
Matches: 539, Mismatches: 62, Indels: 22
0.87 0.10 0.04
Matches are distributed among these distances:
330 4 0.01
331 242 0.45
332 226 0.42
333 66 0.12
334 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (332 bp):
GTACATGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCTCAATTTTTGGCCAC
AATACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGAGCTTTTCAGGCTTCTAATAT
CATTTTTCCTACTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAA
AATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT
GCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTATAGCAAAAAACAGTG
ATGGTTA
Found at i:3078 original size:332 final size:330
Alignment explanation
Indices: 2446--6130 Score: 3426
Period size: 333 Copynumber: 11.0 Consensus size: 330
2436 GAGTTGGCCT
* * * * * *
2446 AAAAACTGTGATGGTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGCAAAATTTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCG-AAAAATTT
* * *
2511 TCCTCAATTTTTGGCCACAAAACTCATAAAAAATATATAATTCGAA-TCCAAAAAGACTT-AAGG
65 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTC-AACGCCAAAAAGA-TTGAAAG
* * * *
2574 GCTTTAGACGCTTC-AATTTTCGTTTTTCAATTTTTTTTTCCGAATTAATTTCTAATCAAATCGA
128 GCTTT-CACGCTTCTAA-TATCGTTTTTC--TTTCTTTTTCCGAATTAATTTCTAATTAAATCGA
* * **
2638 AACATA-ATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAGATCTCATTAGAT
189 AACA-AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAT
* * *
2702 AAATATAGATATTTCAATGAGGCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAA
253 GAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAA
*
2767 CGCATTTTTAGCC
318 CGCGTTTTTAGCC
*
2780 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAGAATTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-AATTT
* * *
2845 TCCTAAATTTTTGGCCA-AGATAATCATAAAAAATATATAATTCAACACCAAAAAGATTGAAAGG
65 TCCTCAATTTTTGGCCACA-ATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGG
* * * *
2909 CTATTCACGCTTCTAATATCGTTTTTCTTACTTTTTCCAAATTAATTCCTAATTGAATCGAAACA
129 CT-TTCACGCTTCTAATATCGTTTTTCTTTCTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * * * * *
2974 TGATTCATATGCTCGTAAAAGCAAATCCTTAAATCCAATTTGGTTGAGATTTGGATAGATGGATA
193 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * * * * *
3039 TAGATATTTCAATGAGACATGGGGCCAAAAATCATGCAAAACAGAGCCGGGTCCCCGAAACGCGT
258 TAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAACGCGT
*
3104 TTTTAGTC
323 TTTTAGCC
* * * * * * *
3112 AAAAACTGTGATGGTTAGTACATGATTTCGCCAAAAAATTTTGCAAAAATTGACACGAAACATTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGC-TAAAATTTTGCAAAAATTGACCCGAAAAATTT
* * * * * * * *
3177 CTCCTCAATTTCTGGCGACCATATTCATAAAAAATTTATAATTCAACGTCAAAACGATTGAAGGG
65 -TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGG
* *
3242 CTTCTCACGCTTCTAATATTGTTTTTTTTTCTATTTTTCCGAATTAATTTCTAATTAAATCGAAA
129 CTT-TCACGCTTCTAATATCGTTTTTCTTTC--TTTTTCCGAATTAATTTCTAATTAAATCGAAA
** * * * * *
3307 CCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATCGAATGTGGCTGAGATTTCGTCAGATAAA
191 CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
*
3372 TATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCAGGG-CCTCGGAACG
256 TATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAG-CCGGGACCTCGGAACG
*
3436 CGTTTTAAGCC
320 CGTTTTTAGCC
*
3447 AAAAACC--G-T-G--A-T-----A-TT---CTAAAATTTTGTAAAAATTGACCCGAAAGAATTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-AATTT
* * * * * *
3496 TCCTAAATTTTTGGCCACGATAATCATAAAGAATATATAATTTAACACCAAAAAGATTGAAAGGC
65 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGC
* * *
3561 TATTCACGCTTCTAATATCGTTTTTCCTAT-TTTTTCCGAATTAATTCCTAATTGAATCGAAACA
130 T-TTCACGCTTCTAATATCGTTTTT-CTTTCTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* ** * * * *
3625 TGATTCATTTGCTCGTAAAAGCAAATCCTTAAATTCAATGTGGCTGAGATTTAGTTAGATGGATA
193 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * * * *
3690 TAGATACTTCAATTAGACTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGACCCCGAAACGCGT
258 TAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAACGCGT
*
3755 TTTTAGTC
323 TTTTAGCC
* * * * *
3763 -AAAACTGTGATGGTTAGTACACGATTTTGGCTAAAATTTTGCAAAAATTGACACGAAACATTTC
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTT-
** * * * * * * *
3827 TCCTCAATTTCCGGCCACCATATTCATAAAAAATTTATAATTCAATGTCAAAATGATTGAAGGGC
65 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGC
*
3892 TTCTCACGCTTCTAATAAT-GTTTTT-TTGTCTATTTTTCCGAATTAATTTCTAATTAAATTGAA
130 TT-TCACGCTTCTAAT-ATCGTTTTTCTT-TC--TTTTTCCGAATTAATTTCTAATTAAATCGAA
** * * * * *
3955 ACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATCGAATGTGGCTGAGATTTCGTCAGATAA
190 ACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGA
*
4020 ATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCTCGGAACG
255 ATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAACG
4085 CG-TTTTAGCC
320 CGTTTTTAGCC
* *
4095 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAATTTTTGTAAAAATTGACCCGAAAGAATTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-AATTT
* * * *
4160 TCCTCAATTTTTGGCCACGATAATCAT-AAAAATATATAAATCAACACCAAAAAGATTGAAAGGC
65 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGC
* * *
4224 TATTCACGCTTCTAATATCGTTTTTCCTAT-TTTTTCCGAATTAATTCCTAATTGAATCGAAACA
130 T-TTCACGCTTCTAATATCGTTTTT-CTTTCTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * * * * *
4288 TGATTCATATGCTCGTAAAAGCAAATCCTTAAATTCAATGTGGGTAAGATTTGGTTAGATGGATA
193 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * *
4353 TAGATATTTCAATGAGACTTGGCGCCAAAAATCGTGCAAAACTGAGCCGGGGCAC-CGAAACGCG
258 TAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGAC-CTCGGAACGCG
* *
4417 ATTTTAGTCA
322 TTTTTAG-CC
* *
4427 AAAAACCGTGATAGTTAGTACACGATTTCAGACAAAAAACCGTAACAGTATAAGATTTCGGTTAA
1 AAAAACCGTGATAGTTAGTACACGATTTC-G----------G---C--TA-AA-ATTT-TG-CAA
* * * *
4492 AATTTTGCAAAAACTTAACCGAAAATTTTTTACTCAATTTTTTGCCACAATACTCA-AAAAAAGT
46 AA-ATTG-----AC----CCGAAAA-ATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAA-T
* * * * * * *
4556 ATATGATTCAACGCAAAAAAAATTG-AAGGATTTCAAGTTTCTAATATCGTTTTCCCAATTT-TT
99 ATATAATTCAACGCCAAAAAGATTGAAAGGCTTTCACGCTTCTAATATCGTTTT-TC--TTTCTT
* ** * * *
4619 TTTCCGAAATT-ATTTCTATTTTTATTGAAACAAGATTCAGATGCTCGTAAAGATAAATCCTTAA
161 TTTCCG-AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * *
4683 ATCCAAGGTGGCTG-GTATTTGGTTCA-ATGAATATAGATATTACAAGGATTCATT-GCCCCAAA
225 ATCCAATGTGGCTGAG-ATTTGGTT-AGATGAATATAGATATTTCAATGAGTC-TTGGCGCCAAA
* * * * * * *
4745 ATTCATTCAAAATTAAGCCGGGGCAC-CAGAACGCGTTTTTTTGCC
287 AATCATGCAAAACTGAGCCGGGAC-CTCGGAACGCG-TTTTTAGCC
* * * *
4790 GAAAAATCGTGATAGTTAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCC-AAAAGGTT
1 -AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAA--AT
* * * * * *
4854 TTTTCTGAATTTTAT-GACACAATACTCAGAAAAAATATATATAATTCAACGCAAAAAAAAATTG
63 TTTCCTCAATTTT-TGGCCACAATACTCA-TAAAAA-ATATATAATTCAACGC-CAAAAAGATTG
* * *
4918 -AAGGATTTTTCACGCTTCTAATATCGTTTTCCATTTCTTTTT-CGAATTTATTTCTAATTAAAT
124 AAAGG--CTTTCACGCTTCTAATATCGTTTTTC-TTTCTTTTTCCGAATTAATTTCTAATTAAAT
* * * *
4981 CGAAACAAGATTTAAAT-CTTCCTAAAAACAAATACC-TAAATCCAAAGTGGCTGAGATTTGGTT
186 CGAAACAAGATTCAGATGC-TCGTAAAAACAAAT-CCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * * * * *
5044 AGATGAATATAGATATTACAAGGAGTCATT-GTGCCAAAATTCATGCAAAATTAAGTCGAGA-CT
249 AGATGAATATAGATATTTCAATGAGTC-TTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCT
5107 CCGGAACGCGTTTTTAGCC
313 -CGGAACGCGTTTTTAGCC
* * * *
5126 AAAAACCGTGATGGTTAGGACACGATTTCGGCTAAAATTCTGCAAAAACTGACCC-AAAAAGTTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAA--TT
* * * *
5190 TTTCTCAATTTTTTGCCACAATACTCAGAAGAAATATATATAATTCAACG-CAAAAAAATTG-AA
64 TTCCTCAATTTTTGGCCACAATACTCATAA-AAA-ATATATAATTCAACGCCAAAAAGATTGAAA
* * *
5253 GGATTTTTCACGCTTCTAATATCGTTTTCCATTTC-TTTTCCGAATTCATTTCTAATTAAATCGA
127 GG--CTTTCACGCTTCTAATATCGTTTTTC-TTTCTTTTTCCGAATTAATTTCTAATTAAATCGA
* * * *
5317 AACAAGATTTAGATGCTCCTAAAAACAAATACC-TAAATCCAAAGTGGCTGAGATTTGGTTAGGT
189 AACAAGATTCAGATGCTCGTAAAAACAAAT-CCTTAAATCCAATGTGGCTGAGATTTGGTTAGAT
* * * * * * *
5381 GAATATAGATAATACAAGGAGTCATT-GCGCCAAAATTCATGCAAAATTAAGCCGGG-GCTCCGG
253 GAATATAGATATTTCAATGAGTC-TTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCT-CGG
*
5444 AACGCGTTTCTAGCC
316 AACGCGTTTTTAGCC
* * *
5459 AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCC-AAAAAGTTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAA----
** * * * *
5523 TTTTTTTCAATTTTTTGCCACAATACTCAGAAGAAATATATATAATTCAACGCAAAAAAAATTG-
62 TTTTCCTCAATTTTTGGCCACAATACTCATAA-AAA-ATATATAATTCAACGCCAAAAAGATTGA
* * *
5587 AAGGATTTTTCACGCTTCTAATATCGTTTTCCATTTC-TTTTCCGAATTTATTTCTAATTAAATC
125 AAGG--CTTTCACGCTTCTAATATCGTTTTTC-TTTCTTTTTCCGAATTAATTTCTAATTAAATC
* * *
5651 GAAACAAGATTTAAATGCTTC-TAAAAACAAATACC-TAAATCCAAAGTGGCTGAGATTTGGTTA
187 GAAACAAGATTCAGATGC-TCGTAAAAACAAAT-CCTTAAATCCAATGTGGCTGAGATTTGGTTA
* * * * * *
5714 GATGAATATAGATATTTCAAGGAGGCTT-TCTGCCAAAAATCATACAAAACTGAGCTGGGGCCTC
250 GATGAATATAGATATTTCAATGAGTCTTGGC-GCCAAAAATCATGCAAAACTGAGCCGGGACCTC
* *
5778 GAAACGCATTTTTAGCC
314 GGAACGCGTTTTTAGCC
* * * *
5795 AAAAACCGTG--A--T-GTACACGATTTCAGCTAAAATTTTGCAAAGACTGACCCAAAAAGATTT
1 AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAA-ATTT
* * * * *
5855 TTCTC-ATTTTTTGCCACAATACTCAGAATATATATATAATTCAACG-CAAAAA-ATTG-AAGGA
65 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGG-
* * * *
5916 TTTTTCACGCTTCTAACATCGTTTTTCCATT-TTTTT-CGAATTTATTTCTAATTAAATCGAAAC
129 -CTTTCACGCTTCTAATATCGTTTTT-CTTTCTTTTTCCGAATTAATTTCTAATTAAATCGAAAC
** * * * *
5979 AAGATTCAGATGCTTTTAAAAACAAATACTTAAATCCAATATGGTTGAGATTTGCTTAGATGAAT
192 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAAT
* * * * * * * *
6044 AAAGATATTTCAAGGAGTCTT-TCTTCCAAAAATCATGCAAAACTGAGCCAGGACCCCGAAATGC
257 ATAGATATTTCAATGAGTCTTGGC-GCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAACGC
6108 GTTTTTAGCCC
321 GTTTTTAG-CC
*
6119 CAAAACCGTGAT
1 AAAAACCGTGAT
6131 GGCTGCTACA
Statistics
Matches: 2864, Mismatches: 357, Indels: 268
0.82 0.10 0.08
Matches are distributed among these distances:
315 9 0.00
316 144 0.05
317 1 0.00
318 100 0.03
319 9 0.00
321 1 0.00
322 5 0.00
323 143 0.05
324 50 0.02
325 6 0.00
326 15 0.01
327 2 0.00
328 26 0.01
329 9 0.00
330 148 0.05
331 143 0.05
332 280 0.10
333 597 0.21
334 160 0.06
335 309 0.11
336 239 0.08
337 146 0.05
338 12 0.00
339 21 0.01
343 3 0.00
344 4 0.00
345 1 0.00
346 4 0.00
347 2 0.00
348 4 0.00
349 2 0.00
350 4 0.00
351 1 0.00
352 5 0.00
353 4 0.00
358 2 0.00
361 22 0.01
362 42 0.01
363 149 0.05
364 40 0.01
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (330 bp):
AAAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTT
CCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGCT
TTCACGCTTCTAATATCGTTTTTCTTTCTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGA
TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAG
ATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCTCGGAACGCGTTTT
TAGCC
Found at i:5792 original size:669 final size:660
Alignment explanation
Indices: 4480--6132 Score: 2287
Period size: 669 Copynumber: 2.5 Consensus size: 660
4470 AACAGTATAA
* * * *
4480 GATTTCGGTTAAAATTTTGCAAAAACTTAACCGAAAA-TTTTTTACTCAATTTTTTGCCACAATA
1 GATTTCGGCTAAAATTTTGCAAAAACTGACCCAAAAAGTTTTTT-CTCAATTTTTTGCCACAATA
* * *
4544 CTCA-AAAAA-AGTATATGATTCAACGCAAAAAAAATTGAAGGA--TTTCAAGTTTCTAATATCG
65 CTCAGAAAAATA-TATATAATTCAACGC-AAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG
* ** * *
4605 TTTTCCCAATTTTTTTTCCGAAATTATTTCTATTTTTATTGAAACAAGATTCAGATGCTCGTAAA
128 TTTT-CC-A-TTTTTTTCCG-AATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAA
* * * *
4670 GATAAAT-CCTTAAATCCAAGGTGGCTG-GTATTTGGTTCA-ATGAATATAGATATTACAAGGAT
189 AACAAATACC-TAAATCCAAAGTGGCTGAG-ATTTGGTT-AGATGAATATAGATATTACAAGGAG
* * * *
4732 TCATTGCCCCAAAATTCATTCAAAATTAAGCCGGGGCACCAGAACGCGTTTTTTTGCCGAAAAAT
251 TCATTGCCCCAAAATTCATGCAAAATTAAGCCGGGGCACCGGAACGCG-TTTTTAGCC-AAAAAC
* *
4797 CGTGATAGTTAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCCAAAAGGTTTTTTCTGA
314 CGTGATGGTTAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCCAAAAGGTTTTTTCTCA
4862 ATTTTATGACACAATACTCAGAAAAAATATATATAATTCAACGCAAAAAAAAATTGAAGGATTTT
379 ATTTTATGACACAATACTCAGAAAAAATATATATAATTCAACGCAAAAAAAAATTGAAGGATTTT
*
4927 TCACGCTTCTAATATCGTTTTCCATTTCTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGAT
444 TCACGCTTCTAATATCGTTTTCCATTTCTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGAT
4992 TTAAATCTTCCTAAAAACAAATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGA
509 TTAAATCTTCCTAAAAACAAATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGA
* * * * * * *
5057 TATTACAAGGAGTCATTGTGCCAAAATTCATGCAAAATTAAGTCGAGACTCCGGAACGCGTTTTT
574 TATTACAAGGAGGCATTCTGCCAAAAATCATACAAAACTAAGTCGAGACTCCGAAACGCATTTTT
5122 AGCCAAAAACCGTGATGGTTAGGACAC
639 AGCCAAAAACCGTGAT-G-T---ACAC
*
5149 GATTTCGGCTAAAATTCTGCAAAAACTGACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATAC
1 GATTTCGGCTAAAATTTTGCAAAAACTGACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATAC
5214 TCAGAAGAAATATATATAATTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTT
66 TCAGAA-AAATATATATAATTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTT
*
5279 TTCCATTTCTTTTCCGAATTCATTTCTAATTAAATCGAAACAAGATTTAGATGCTCCTAAAAACA
130 TTCCATTT-TTTTCCGAATT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACA
* *
5344 AATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGGTGAATATAGATAATACAAGGAGTCATTGC
193 AATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTGC
* * *
5409 GCCAAAATTCATGCAAAATTAAGCCGGGGCTCCGGAACGCGTTTCTAGCCAAAAACCGTGATGGT
258 CCCAAAATTCATGCAAAATTAAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
* * *
5474 TAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCCAAAAAGTTTTTTTTTTCAATTTTTT
323 TAGTACACGATTTCGGCTAAAATTCTGCAAAAACTGACCC-AAAAG-GTTTTTTCTCAATTTTAT
* *
5539 GCCACAATACTCAGAAGAAATATATATAATTCAACGC-AAAAAAAATTGAAGGATTTTTCACGCT
386 GACACAATACTCAGAAAAAATATATATAATTCAACGCAAAAAAAAATTGAAGGATTTTTCACGCT
5603 TCTAATATCGTTTTCCATTTCTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTTAAATG
451 TCTAATATCGTTTTCCATTTCTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTTAAAT-
*
5668 CTT-CTAAAAACAAATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
515 CTTCCTAAAAACAAATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGATATTAC
* * * * *
5732 AAGGAGGCTTTCTGCCAAAAATCATACAAAACTGAGCTGGGGCCT-CGAAACGCATTTTTAGCCA
580 AAGGAGGCATTCTGCCAAAAATCATACAAAACTAAG-TCGAGACTCCGAAACGCATTTTTAGCCA
5796 AAAACCGTGATGTACAC
644 AAAACCGTGATGTACAC
* * *
5813 GATTTCAGCTAAAATTTTGCAAAGACTGACCCAAAAAGATTTTTCTC-ATTTTTTGCCACAATAC
1 GATTTCGGCTAAAATTTTGCAAAAACTGACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATAC
* *
5877 TCAG-AATATATATATAATTCAACGC-AAAAAATTGAAGGATTTTTCACGCTTCTAACATCGTTT
66 TCAGAAAAATATATATAATTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG-TT
**
5940 TTCCATTTTTTT-CGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTTTTAAAAACAA
130 TTCCATTTTTTTCCGAA-TTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAA
* * * * * *
6004 ATACTTAAATCCAATA-TGGTTGAGATTTGCTTAGATGAATAAAGATATTTCAAGGAGTC-TTTC
194 ATACCTAAATCCAA-AGTGGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTGC
* * * * * * * * * *
6067 TTCCAAAAATCATGCAAAACTGAGCCAGGACCCCGAAATGCGTTTTTAGCCCCAAAACCGTGATG
258 -CCCAAAATTCATGCAAAATTAAGCCGGGGCACCGGAACGCGTTTTTAG-CCAAAAACCGTGATG
6132 G
321 G
6133 CTGCTACAGA
Statistics
Matches: 888, Mismatches: 76, Indels: 49
0.88 0.08 0.05
Matches are distributed among these distances:
658 3 0.00
659 134 0.15
660 56 0.06
661 29 0.03
662 1 0.00
663 21 0.02
664 47 0.05
667 1 0.00
668 54 0.06
669 283 0.32
670 215 0.24
671 22 0.02
672 22 0.02
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (660 bp):
GATTTCGGCTAAAATTTTGCAAAAACTGACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATAC
TCAGAAAAATATATATAATTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTT
TCCATTTTTTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAAT
ACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTGCCCC
AAAATTCATGCAAAATTAAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
TACACGATTTCGGCTAAAATTCTGCAAAAACTGACCCAAAAGGTTTTTTCTCAATTTTATGACAC
AATACTCAGAAAAAATATATATAATTCAACGCAAAAAAAAATTGAAGGATTTTTCACGCTTCTAA
TATCGTTTTCCATTTCTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTTAAATCTTCCT
AAAAACAAATACCTAAATCCAAAGTGGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAG
GCATTCTGCCAAAAATCATACAAAACTAAGTCGAGACTCCGAAACGCATTTTTAGCCAAAAACCG
TGATGTACAC
Found at i:7578 original size:333 final size:329
Alignment explanation
Indices: 6471--11376 Score: 3989
Period size: 333 Copynumber: 14.9 Consensus size: 329
6461 GAATTCGGCT
* *
6471 AAAAACTGACCCGAAAA-TTTTTTCCTGAATTTTTTGCCACAATACTCA-AAAAAAATATATAAT
1 AAAAACTGACCC-AAAAGTTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAATATATATAAT
* * * * * * *
6534 TCAATGACAAAAAGATT-AATGGGTTTTTCACACTTATAATATCATTTTTCC-TTTTTTCTACGA
64 TCAACG-CAAAAAAATTGAA-GGATTTTTCACGCTTCTAATATC-GTTTTCCATTTTTT-TCCGA
* * * * * * *
6597 GTTTATTTTTACTTAAATCAAAACAA-CTTTCAGATGCTCATAAAAGCAAATCCCTATATCCAAT
125 ATTTATTTCTAATTAAATCGAAACAAGATTT-AGATGCTCATAAAAACAAAT-CCTAAATCCAAT
* * * * * *
6661 GTGGCTGAGATTTGGTTCGATAAAATATAGATATTTCAAAGAGTCTTTGCGCCAAAAATCATACA
188 GTGGCTGAGATTTGGTTAGAT-GAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCA
* ** * * *
6726 AAAATGAGCCGGCCCTTCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACAGGATTTCG
252 AAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCG
*
6791 GCTAAAATTCTGC
317 GCTAAAATTTTGC
*
6804 AAAAACTGACCCAAAAAATTTTTTCTCAATTTTTTGCCACAATACTCA-AAAAAGTATATATAAT
1 AAAAACTGACCC-AAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-TATATATAAT
* *
6868 TCAACGCAAAAAAATTGAAGGATTTTTCAAGCTTCTAATATCATTTTCCATTTCTTTTCCGAATT
64 TCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTT-TTTTCCGAATT
* * * * *
6933 TATTTCTAATTAAATCGAAAAAAGATTTAGAAGCTCCTAAAAACAAATAGCTAAATCCAAAGTGG
128 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGTGG
* *
6998 CTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTACGCCAAAATT-ATGCAAAATT
192 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAAAATT
* * * * * *
7062 AAACCGGGGCTCCAGAACGTGTTTTTTGGCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAA
257 GAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAA
*
7127 AATTCTGC
322 AATTTTGC
* *
7135 AAAAACTGACCCAAAATGTTTTTTCTCAAGTTTTTGCCACAATACTCAGAAAAAGTATATATACT
1 AAAAACTGACCCAAAA-GTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-TATATATAAT
*
7200 TCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTTCATTTCCGAATT
64 TCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTT-TTTTCCGAATT
* *
7265 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCCTAAAAACAAATACCTAAATCCAAAGTGG
128 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGTGG
* * *
7330 CTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTGTGCCAAAATTAATGCAAAATT
192 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAAAATT
* * * * *
7395 AAGCCGGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGCACACGATTTCTGCTAA
257 GAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAA
7460 AATTTTGC
322 AATTTTGC
* * * * *
7468 AGAAACCGGCCCAATAAGTTTTTTCTCAAGTTTTTGCCACAATACTCAGAAAAAGTATATATACT
1 AAAAACTGACCCAA-AAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-TATATATAAT
* * *
7533 TCAACGCAAAAAAATTGAAAGATTTTTCACGCTTCTAACATCGTTTTTCCATTTTTTT-CAAATT
64 TCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCCGAATT
* * ** * * *
7597 TATTTCTAATTAAATTGAAACAAGATTGAGATGCTTTTAAAAAGAAATACTTAAATCCAATCTGG
128 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGTGG
* * * *
7662 CTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGAGTC-TTTCTGCCAAAAATCATGCAAAAC
192 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGC-GCCAAAATTCATGCAAAAT
* * * * *
7726 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCACAAAATTGTGATGGTTAGTACACAAATT---C-
256 TGAGCCGGGGCTCCGGAACGCGTTTTTAGCCA-AAAATCGTGATGGTTAGTACACGATTTCGGCT
*
7787 --AA----GT
320 AAAATTTTGC
* * * *
7791 AAAAACTGACCCGAAAATTTTTTTCTTAATTTTTTGCCAAAATACTCAATATATATATATATATA
1 AAAAACTGACCC-AAAAGTTTTTTCTCAATTTTTTGCCACAATACTC---AGA-A-A-A-ATATA
* * * * * *
7856 TATATATTCAACGACAAAAAGATT-AACTGG-CTTTTAACACTTATTATATCGTTTTTCC-TTTT
58 TATA-ATTCAACG-CAAAAAAATTGAA--GGATTTTTCACGCTTCTAATATCG-TTTTCCATTTT
* * * * * * *
7918 TTTCCGAGTTTATTTTTAATTAAATCAAAACAA-CTTTCGGATGCTCATAAAAGCAAATCCTTAT
118 TTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTT-AGATGCTCATAAAAACAAATCC-TAA
* * *
7982 ATACAATGTGGCTGAGATTTGGTTTGATGAATATAGATATTTCAAAGAGT-ATTTGCGCCAAAAT
181 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCA-TTGCGCCAAAAT
* * * * * *
8046 TCATGTAAAATTGAGCCGAGCCTTCGGAACGTGTTTTTAGCCAAAAACCGTGATGGTATAGTTAG
245 TCATGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGAT-G----GTTAG
* * *
8111 TATACAATTTCGGCTTAAATTTTGC
305 TACACGATTTCGGCTAAAATTTTGC
* ** * * * *
8136 AAAAACTTAACTGAAAATTTTTTTCTCAATTTGTTGCCACAATACTCAGAAAAA-GTATATGATT
1 AAAAAC-TGACCCAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATATAATT
* * * * *
8200 CAACGAAAAAAAATTAAAGGA--TTTCATGTTTCTAATATCGTTTTCCCAATTTTTTTCCGAAAT
65 CAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTT-CC-ATTTTTTTCCGAATT
* ** * * * *** *
8263 TATTTCTATTTTTATCGAAGCAAGATTCAGATGCTCGTAAAGTTAAATCCTTAAATCCAAGGTGG
128 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCC-TAAATCCAATGTGG
* * * *
8328 CTGATATTTGGTTCA-ATGAATATAGATATTACAAGGATTCATTGCGCCAAAATTCATTCAAAAT
192 CTGAGATTTGGTT-AGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAAAAT
* * * * * * *
8392 TAAGCCGGGGCACCAGAACGCGTTTTTTTGCCAAAAATCATGATGGTTAGTATACGATTTCGGTT
256 TGAGCCGGGGCTCCGGAACGCG-TTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCT
* * *
8457 ACAATTCTGT
320 AAAATTTTGC
* * *
8467 AAAAACTGACCCAAAAAGGTATTTCTCAATTTTTTGCCAC-ATAACTCAGAAAAAATATATGTAA
1 AAAAACTGACCC-AAAAGTTTTTTCTCAATTTTTTGCCACAAT-ACTCAG-AAAAATATATATAA
* *
8531 TTCAATGC-AAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTTCTTTTCCTAAT
63 TTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTT-TTTTCCGAAT
* * *
8595 TTATTTCTAATTAAATTGAAACAAGATTGAGATGCTCATAAAAACAAATACCTAAATCCAAAGTG
127 TTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGTG
*
8660 GCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCATTGCGCCAAAATTCATGCAAAAT
191 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAAAAT
* * *** * * ***
8725 TAAGCCGGGGCTCCGGAACGCGTTTCTAGCCAAAAA-C-TGA--CCCA--AAAAG-TTTTTTCTC
256 TGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCT-
**
8783 AATTTTTTGC
320 AAAATTTTGC
* * * * *** * * ** * * * **
8793 CACAA-T-ACTCAGAAGAAATATAT--A-TAATT----C-A-ACGCAAAAAAAT-TGAAGGATTT
1 AAAAACTGACCCAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATAT--A-TATAA
**** ** * * *
8846 TTC-ACGC-TTCTAA-T-ATCG--TTTT----C--C--ATTTC-TTTTCCGAATTTATTT-CTAA
63 TTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCC--ATTTTTTTCCGAA
** * ** ** * * * * *** * *
8895 -TTAAATCGAAACAAGAT--TTAGATGCTCCTA-A-AAACA-AATACCTAAATCC-AAAGTGGCT
126 TTTATTTCTAATTAA-ATCGAAACAAGAT-TTAGATGCTCATAAAAAC-AAATCCTAAA-T--C-
* * * * * * * * ** * * *****
8953 GAGATTTGG-TTAGA--TGAATATAGAT-ATTACA-AGGA-GTCATTGCGCCA-AAATTC---AT
184 CA-ATGTGGCTGAGATTTG-GT-TAGATGAATATAGA-TATTTCAAGGAGTCATTGCGCCAAAAT
* * * * *
9008 G----CAAAATTAAGTCGGGGCTTCGGAACGCGATTTTAGCCAAAAA-CAGTGATGGTTAGTACA
245 TCATGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATC-GTGATGGTTAGTACA
* *
9068 TGATTTTGGCTAAAATTTTGC
309 CGATTTCGGCTAAAATTTTGC
* *
9089 AAAAACTTACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATATACT
1 AAAAACTGACCC-AAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATATAAT
* * * *
9154 TCAATGC-AAAAAATTGAAGGATTTTTCACGCTTCTAACATTGTTTTTCCATTTTTTT-CGATTT
64 TCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCCGAATT
* ** * * * *
9217 TATTTCTAATTAAATCGAAACAAGATTCAGATGCTTTTAAAATCAAATACTTAAATCCAATCTAG
128 TATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGTGG
* * * * *
9282 CTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGAGTC-TTTCTACCAAAAATCATGCAAAAC
192 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGC-GCCAAAATTCATGCAAAAT
* * *
9346 TGAGCCGGGGCCCCGAAACGCG-TTTTAGCCAAAAAAATCGTGATGGTTAGTACACGAATT---C
256 TGAGCCGGGGCTCCGGAACGCGTTTTTAGCC--AAAAATCGTGATGGTTAGTACACGATTTCGGC
9407 ---AA--TT--
319 TAAAATTTTGC
*
9411 AAAAACTGACCCGAAAATTTTTTTC-CGGAATTTTTTGCCACAATACTCAGAAAACATATATAT-
1 AAAAACTGACCC-AAAAGTTTTTTCTC--AATTTTTTGCCACAATACTCAGAAAA-ATATATATA
* * * * * *
9474 -TTCAACGACAAAAAGATT-AACGGGTTTTTCACACTTATTATATCGTTTTTCC-TCTTTTTCCG
62 ATTCAACG-CAAAAAAATTGAA-GGATTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCCG
* * ** * * * * *
9536 AGTTTATTTTTAATTAAATC-AAACTAACTTTTAGATGCTAATAAAAGCAAATCTGTATATACAA
124 AATTTATTTCTAATTAAATCGAAAC-AAGATTTAGATGCTCATAAAAACAAATC-CTAAATCCAA
* * * * * *
9600 TGTGGCTGAGATTTGATTCA-ATAAATATAGATATTTCAAAGAGTCTTTGCACCAAAAAATCATG
187 TGTGGCTGAGATTTGGTT-AGATGAATATAGATATTTCAAGGAGTCATTGCGCC-AAAATTCATG
* * * ** * *
9664 CAAAATTGAGCCGCGCCTTCGGAACATGTTTTTAGCCAAAAAACCGTGATGGTTAGTATACGATT
250 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCC-AAAAATCGTGATGGTTAGTACACGATT
*
9729 TCGGATAAAATTTTGC
314 TCGGCTAAAATTTTGC
* * * *
9745 AAAAACTTAACCGAAAA-TTTTTTCCTCAATTTTTTGCCAAAATACTCAGAAAAA-ATATATGAT
1 AAAAAC-TGACCCAAAAGTTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAATATATATAAT
* *
9808 TCAACGCAAAAAAAATTGAAGGATTTTTGACGTTTCTAATATCGTTTTCGCAATTTTTTTTCCGA
64 TCAACGC-AAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTC-C-A-TTTTTTTCCGA
* ** * * * *
9873 ATTTATTTCTATTTTTATCAAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTAAATCCAATG
125 ATTTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCC-TAAATCCAATG
* * * *
9938 TGACTGATATTTGGTTCA-ATGAATATAGATATTACAAGGATTCATTGCGCCAAAATTCATGCAA
189 TGGCTGAGATTTGGTT-AGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAA
* * * * *
10002 AATTAAGCTGGGGCTCCGGAACGCCTTTTTTGCCAAAAATC--G-T-G--A-TACACAATTTCGG
253 AATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGG
*
10060 CTAAAATTCTGC
318 CTAAAATTTTGC
* * * * *
10072 AAAAATTTATCCAAAAAGCTTTTTCTCAATTTTTTGCCACAATACTCTGAAAAAATATATATAAT
1 AAAAACTGA-CCCAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATATAAT
* *
10137 TCAACGCAAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCATTTTCCTATTTCTTTTACGAA
64 TCAACGC-AAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCC-ATTT-TTTTCCGAA
* * * *
10202 TTTATTTTTAATTAAATCGAAACAAGATTTAGATGCTCCTAAAAACAAATACCTAAATTCAAAGT
126 TTTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGT
10267 GGCTGAGATTTGGTTAGATGAATATAGATATTAT-AAGGAGTCATTGCGCCAAAATTCATGCAAA
190 GGCTGAGATTTGGTTAGATGAATATAGATATT-TCAAGGAGTCATTGCGCCAAAATTCATGCAAA
* * * *
10331 ATTAAGTCGGGGCTCCGGAACGCGATTTTAGCCAAAAAAACGTGATGGTTAGTACACGATTTCGG
254 ATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCC-AAAAATCGTGATGGTTAGTACACGATTTCGG
10396 CTAAAATTTTGC
318 CTAAAATTTTGC
10408 AAAAACTGACCCAAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGGAAAAATATATGTATA
1 AAAAACTGACCC-AAAAGTTTTTTCTCAATTTTTTGCCACAATACTCA-GAAAAATATA--TATA
*
10473 ATTCAACGC--AAAAATTGAAGGATTTTTCACGCTTCTAACATCGTTTTTCCATTTTTTT-CGAA
62 ATTCAACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCCGAA
* ** * *
10535 TTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTTTTAAAAACAAATACTTAAATCCAATCT
126 TTTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAAT-CCTAAATCCAATGT
* * * *
10600 GGCTGAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTC-TTTCTGCCAAAAATCATGCAAA
190 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGC-GCCAAAATTCATGCAAA
* * * * * *
10664 ACTGAGTCGGGACCCCGAAACGCGTTTTTAGCCCAAAAATCGTGATGGTTAGTACACGATTTCAG
254 ATTGAGCCGGGGCTCCGGAACGCGTTTTTAG-CCAAAAATCGTGATGGTTAGTACACGATTTCGG
10729 C--------T--
318 CTAAAATTTTGC
* *
10731 AAAAACTGA-CCAGAAAATTTTTTCCTGAATTTTTTGCCACAATACTCAGAAAAA-ATATATAAT
1 AAAAACTGACCCA-AAAGTTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAATATATATAAT
* * * * * *
10794 TCAATGACAGAAAGATT-AATGGGA-TTTTCACACTTATAATATCGTTTTTCC-TTTTTTCTACG
64 TCAACG-CAAAAAAATTGAA--GGATTTTTCACGCTTCTAATATCG-TTTTCCATTTTTT-TCCG
* * * * * *
10856 AGTTTATTTTTAATTAAATCAAAACAA-CTTTCAGATGCTCATAAAAGCAAATCCTTATATCCAA
124 AATTTATTTCTAATTAAATCGAAACAAGATTT-AGATGCTCATAAAAACAAATCC-TAAATCCAA
* * * * * *
10920 TGTGGATGAGATTTGGTTCGATAAAATATAGATATTTCAAAGAGTCTTTGCGCCAAAAATCATGC
187 TGTGGCTGAGATTTGGTTAGAT-GAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGC
* * * * * * *
10985 AAAAATGAGTCGGGCCTTCGGAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTTAGTATGCGA
251 AAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAG-TA-CA--CGA
*
11050 TTTCGACTAAAATTTTGC
312 TTTCGGCTAAAATTTTGC
* * * * *
11068 AAAAGCTTACCCGAAAA-TTTTTTCCTCATTTTTTTGCCACAATACTCGGAAAAA-ATATATGAT
1 AAAAACTGACCC-AAAAGTTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAATATATATAAT
* *
11131 TCAACGCAAAAAAAAATTGAAGGATTTTTCACGTTTCTAATATTGTTTTTCCATTTTTTTTCCGA
64 TCAACGC--AAAAAAATTGAAGGATTTTTCACGCTTCTAATATCG-TTTTCCA-TTTTTTTCCGA
* ** * * * * *
11196 ATTTATTTCTATTTTTATCAAAACAATATTTAGATACTCGTAAAAATAAATCCTCAAATCCAATG
125 ATTTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCCT-AAATCCAATG
* * * * *
11261 TGGCTGATATTGGGTTCA-ATGAATATAGATATTTCAAAGAGTC-TTTCTGCCAAAAATCATGCA
189 TGGCTGAGATTTGGTT-AGATGAATATAGATATTTCAAGGAGTCATTGC-GCCAAAATTCATGCA
* * * * * *
11324 AAACTGAGTCAGGGC-CTCGAAACGCATTTTTAGCCCAAAAACCGTGATGGTTA
252 AAATTGAGCCGGGGCTC-CGGAACGCGTTTTTAG-CCAAAAATCGTGATGGTTA
11377 CCCGAAATTT
Statistics
Matches: 3698, Mismatches: 631, Indels: 482
0.77 0.13 0.10
Matches are distributed among these distances:
290 39 0.01
292 3 0.00
294 3 0.00
296 17 0.00
297 15 0.00
298 18 0.00
299 19 0.01
300 20 0.01
301 17 0.00
302 10 0.00
303 4 0.00
304 1 0.00
306 2 0.00
307 6 0.00
308 10 0.00
309 7 0.00
310 7 0.00
312 7 0.00
313 7 0.00
314 10 0.00
315 4 0.00
316 3 0.00
318 1 0.00
319 11 0.00
320 21 0.01
321 39 0.01
322 109 0.03
323 333 0.09
324 138 0.04
325 21 0.01
326 17 0.00
327 71 0.02
328 160 0.04
329 72 0.02
330 53 0.01
331 365 0.10
332 454 0.12
333 748 0.20
334 90 0.02
335 231 0.06
336 206 0.06
337 70 0.02
338 113 0.03
339 90 0.02
340 10 0.00
341 3 0.00
342 2 0.00
345 38 0.01
346 3 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (329 bp):
AAAAACTGACCCAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATATAATTC
AACGCAAAAAAATTGAAGGATTTTTCACGCTTCTAATATCGTTTTCCATTTTTTTCCGAATTTAT
TTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCCTAAATCCAATGTGGCTGA
GATTTGGTTAGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAATTCATGCAAAATTGAGC
CGGGGCTCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATT
TTGC
Found at i:16154 original size:19 final size:20
Alignment explanation
Indices: 16123--16160 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16113 AGCCCTGTTT
16123 GGCCCATCTCTACT-TTTTG
1 GGCCCATCTCTACTATTTTG
16142 GGCCCAT-TCCTACTATTTT
1 GGCCCATCT-CTACTATTTT
16161 TCAGTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 12 0.71
20 4 0.24
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.42
Consensus pattern (20 bp):
GGCCCATCTCTACTATTTTG
Found at i:29585 original size:2 final size:2
Alignment explanation
Indices: 29578--29617 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29568 AGAAGGAAAA
29578 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.