Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016600.1 Corchorus olitorius cultivar O-4 contig16633, 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: 79441
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:573 original size:289 final size:289
Alignment explanation
Indices: 54--704 Score: 1153
Period size: 289 Copynumber: 2.3 Consensus size: 289
44 TCTTTCTTCT
*
54 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCTTTTTTTCATTTTTA-TTTCT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC-ACCCCTTTTTTCATTTTTATTTTCT
*
118 TTTCTTCTTCATTCGAAATTTCTTATGGTAGACAATCGTTTCAGGTAAGCATTAAGTCTTCAAAC
65 TTTCTTCTTCATTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAAC
*
183 GTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCGATGAGATGTGCTTATATATA
130 GTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATA
*
248 TTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAG-AAC
195 TATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGTAA-
**
312 TCCGCAGTTAAGCGTGCTTGGGCGAGAGTAG
259 TCCGCAGTTAAGCGTGCTTAAGCGAGAGTAG
343 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
*
408 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCATTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAACG
473 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
* *
538 ATATTATGCGATGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGTTCCCATCAGTAATC
196 ATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGTAATC
* *
603 CGCGGTTAAGCGTGCTTAAGTGAGAGTAG
261 CGCAGTTAAGCGTGCTTAAGCGAGAGTAG
* *
632 TACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
697 TTCTTCTT
66 TTCTTCTT
705 ACTAGGATGG
Statistics
Matches: 347, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
288 18 0.05
289 327 0.94
290 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (289 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
TTCTTCTTCATTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAACG
TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
ATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGTAATC
CGCAGTTAAGCGTGCTTAAGCGAGAGTAG
Found at i:737 original size:361 final size:361
Alignment explanation
Indices: 343--2200 Score: 1476
Period size: 361 Copynumber: 5.0 Consensus size: 361
333 GCGAGAGTAG
343 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
*
408 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
*
473 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
* *
538 ATATTATGCGATGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGTTCCCATCAGTAA-T
196 ATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAG-AACT
* *
602 CCGCGGTTAAGCGTGCTTAAGTGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTG
260 CCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTG
*
667 TTGCA-CCCCTTTATTCATTTTTATTTTCTTTTCTTCT
325 TTGCACCCCCTTT-TTCATTTTTATTTCCTTTTCTTCT
704 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
769 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
834 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
*
899 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
196 ATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
* ** *
964 CGCAGTTAGGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
261 CGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGT
1029 TGCACCCCCTTTTTCATTTTTATTTCCTTTTCTTCT
326 TGCACCCCCTTTTTCATTTTTATTTCCTTTTCTTCT
** ** ** * * * * * * ** * * ****
1065 T-CT----TTCGAAATTTCTTATGGTAGACAATCGT-TTCAAGTAAGCATTAAGTCTTCAAACGT
1 TACTAGGATGGGTGACCTCCT-GGGAAGTC-CTCGTGTT---GCACCCCTT---TTTTCATTTTT
** * ** * * * * * ** ** * *
1124 A-TGGCGTGTATGATCATATGTCGGCAAAAATGC--ACCGTATCCAATGAGATGTGCT-TA-TAT
58 ATTTTC-T-TTTCTTCTTCTTTC-G--AAATTTCTTATGGTAGACAAT-CG-T-T--TAAAGTA-
* * * * * * * * ** * *
1184 A-TATTTATTATGCGAAGAC-TGATGG-GTG--CGATCATA--CCAGCACTAATGTACCGGATCC
112 AGCATTAAGTCTTC-AA-ACGT-ATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCC
* * ** * ** ** * ** * *
1242 CATCAGAACTCCGCAGT-TA-AGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGAC-CTCCTG
174 AATGAGATGTGCTTA-TATATA-TAT-ATTATGC--GA--AG-ACT--GATGGGTG-CGATCAT-
*** * ** ** * * *
1304 GGAAGTCCTCGTGTTGCACCCGCGTGTATGATCAAATGTCGGCAACAATGCACCGGATCCA-ATG
227 ACCAG--CAC-TAATGCA--C-C--G---GATCCCA--TCAG-AAC--T---CC-G---CAGTTA
* *** * * * * * * * * ** * **
1368 AGATGTGCTTATATATATTTATTATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAA
269 AG-CGTGCTTA-AGCGA--GAGTA---GTACTAGGAAGGGTG--A-CCT-CCTG-GGAAGT-CCT
* * *** *** * * ** * ** * **
1433 CG-GATCCAATCAGAAC-TCCGCA-GTTAAGCGTGCTTAGGCGAGAGTAG
321 CGTGTTGC-A-C-CCCCTTTTTCATTTTTA-TTTCCTT-TTC----TTCT
1480 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCCATTTTTATTTTCT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTT-CATTTTTATTTTCT
1545 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTT-AAGTAAGCATTAAGTCTTCAAAC
65 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAAC
*
1609 GTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATA
130 GTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATA
*
1674 TTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
195 TATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
* ** * * *
1739 CCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGGGTGACTTCCTGGGAAGTCCTCGTG
260 CCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTG
*
1804 TTGCA-CCCCTTTATCATTTTTATTTCAC--TTCTTCT
325 TTGCACCCCCTTTTTCATTTTTATTTC-CTTTTCTTCT
*
1839 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCTTTTTTTCATTTTTA-TTTCT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC-ACCCCTTTTTTCATTTTTATTTTCT
1903 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAAC
65 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAAC
*
1968 GTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATA
130 GTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATA
*
2033 TTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
195 TATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
* * ** * *
2098 CCGCAGTTAGGGGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTTGGAAGTCCTCGTG
260 CCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTG
* *
2163 TTGCACCCCTTTTTTCATTTTTATTTTCTTTTCTTCT
325 TTGCACCCCCTTTTTCATTTTTATTTCCTTTTCTTCT
2200 T
1 T
2201 CTTTCGAAAT
Statistics
Matches: 1142, Mismatches: 243, Indels: 224
0.71 0.15 0.14
Matches are distributed among these distances:
356 6 0.01
357 7 0.01
358 50 0.04
359 266 0.23
360 37 0.03
361 347 0.30
362 9 0.01
363 9 0.01
364 10 0.01
365 40 0.04
366 10 0.01
367 17 0.01
368 18 0.02
369 11 0.01
370 11 0.01
371 4 0.00
373 23 0.02
374 3 0.00
376 4 0.00
377 5 0.00
378 1 0.00
379 9 0.01
380 3 0.00
382 2 0.00
383 2 0.00
385 5 0.00
386 1 0.00
387 3 0.00
388 6 0.01
389 3 0.00
390 1 0.00
391 5 0.00
393 2 0.00
394 2 0.00
396 3 0.00
397 9 0.01
398 1 0.00
399 5 0.00
400 5 0.00
402 3 0.00
403 23 0.02
405 4 0.00
406 10 0.01
407 12 0.01
408 17 0.01
409 15 0.01
410 19 0.02
411 30 0.03
412 10 0.01
413 11 0.01
414 5 0.00
415 4 0.00
416 7 0.01
418 4 0.00
419 7 0.01
420 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (361 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
ATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
CGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGT
TGCACCCCCTTTTTCATTTTTATTTCCTTTTCTTCT
Found at i:749 original size:72 final size:72
Alignment explanation
Indices: 632--776 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
622 GTGAGAGTAG
632 TACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTT
1 TACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTT
697 TTCTTCT
66 TTCTTCT
* *
704 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
1 TACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTT
769 TTCTTCT
66 TTCTTCT
776 T
1 T
777 CTTTCGAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (72 bp):
TACTAGGAAGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTT
TTCTTCT
Found at i:1223 original size:289 final size:289
Alignment explanation
Indices: 704--1324 Score: 1197
Period size: 289 Copynumber: 2.1 Consensus size: 289
694 CTTTTCTTCT
* *
704 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCATTTTTATTTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTTTTCATTTTTATTTCCTT
769 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
834 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
899 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
196 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
*
964 CGCAGTTAGGCGTGCTTGGGCGAGAGTAG
261 CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
993 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTTTTCATTTTTATTTCCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTTTTCATTTTTATTTCCTT
*
1058 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
1123 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
*
1188 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGTACCGGATCCCATCAGAACTC
196 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
1253 CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
261 CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
1282 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
1325 GCGTGTATGA
Statistics
Matches: 327, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
289 327 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (289 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTTTTCATTTTTATTTCCTT
TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
TATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATAT
TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
Found at i:1287 original size:650 final size:648
Alignment explanation
Indices: 1--1324 Score: 2427
Period size: 650 Copynumber: 2.0 Consensus size: 648
1 TCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTCTTTCTTCTTACTAGGATGGG
1 TCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTCTTTCTTCTTACTAGGATGGG
*
66 TGACCTCCTGGGAAGTCCTCGTGTTGCTACCCTTTTTTTCATTTTTATTTCTTTTCTTCTTCATT
66 TGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTATTTCTTTTCTTCTTCATT
* *
131 CGAAATTTCTTATGGTAGACAATCGTTTCAGGTAAGCATTAAGTCTTCAAACGTATGGCGTGTAT
131 CGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTAT
* *
196 GATCATATGTCGGCAACAATGCACCGTATCCGATGAGATGTGCTTATATATATTTATTATGCGAA
196 GATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTATTATGCGAA
261 GACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCG
261 GACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCG
*
326 TGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTT
326 TGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTT
*
391 TTCATTTTTATTTTCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAG
391 TTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAG
*
456 CATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGA
456 CATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGA
*
521 GATGTGCTTATATATATATATTATGCGATGACTGATGGGTGCGATCATACCAGCACTAATGCACC
521 GATGTGCTTATATATATATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACC
* * *
586 GGTTCCCATCAGTAATCCGCGGTTAAGCGTGCTTAAGTGAGAGTAGTACTAGGAAGGGTGACC
586 GGATCCCATCAGTAATCCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACC
649 TCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTTCTTTTCTTCTTACTAGGATG
1 TCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTA-TTTC-TTTCTTCTTACTAGGATG
714 GGTGACCTCCTGGGAAGTCCTCGTGTTGC-ACCCCTTTTTTCATTTTTATTTTCTTTTCTTCTTC
64 GGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTA-TTTCTTTTCTTCTTC
*
778 TTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACGTATGGCGTG
128 ATTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACGTATGGCGTG
843 TATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTATTATGC
193 TATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTATTATGC
*
908 GAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAG
258 GAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAA
973 GCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCC
323 GCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCC
1038 TTTTTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGT
388 TTTTTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGT
1103 AAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAA
453 AAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAA
* *
1168 TGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGT
518 TGAGATGTGCTTATATATATATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGC
** *
1233 ACCGGATCCCATCAG-AACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGA
583 ACCGGATCCCATCAGTAA-TCCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGA
1297 CC
647 CC
1299 TCCTGGGAAGTCCTCGTGTTGCACCC
1 TCCTGGGAAGTCCTCGTGTTGCACCC
1325 GCGTGTATGA
Statistics
Matches: 653, Mismatches: 19, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
648 41 0.06
649 24 0.04
650 588 0.90
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (648 bp):
TCCTGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTTTTATTTCTTTCTTCTTACTAGGATGGG
TGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTATTTCTTTTCTTCTTCATT
CGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTAT
GATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTATTATGCGAA
GACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCAGTTAAGCG
TGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCCTTT
TTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAG
CATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGA
GATGTGCTTATATATATATATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACC
GGATCCCATCAGTAATCCGCAGTTAAGCGTGCTTAAGCGAGAGTAGTACTAGGAAGGGTGACC
Found at i:1465 original size:198 final size:198
Alignment explanation
Indices: 1127--1522 Score: 702
Period size: 198 Copynumber: 2.0 Consensus size: 198
1117 CAAACGTATG
* *
1127 GCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTAT
1 GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
* * * * * *
1192 TATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGTACCGGATCCCATCAGAACTCCGCA
66 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
*
1257 GTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
131 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
1322 CCC
196 CCC
*
1325 GCGTGTATGATCAAATGTCGGCAACAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
1 GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
1390 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
66 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
1455 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
131 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
1520 CCC
196 CCC
1523 CTTTTTTCCA
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
198 188 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (198 bp):
GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
CCC
Found at i:1756 original size:487 final size:487
Alignment explanation
Indices: 838--1811 Score: 1779
Period size: 487 Copynumber: 2.0 Consensus size: 487
828 CAAACGTATG
* *
838 GCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCAATGAGATGTGCTTATATATATTTAT
1 GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
* * * * *
903 TATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTCCGCA
66 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
* *
968 GTTAGGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
131 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
1033 CCCCCTTTTTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTT
196 CCCCCTTTTTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTT
1098 CAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTA
261 CAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTA
1163 TCCAATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACT
326 TCCAATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACT
* * *
1228 AATGTACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGG
391 AATGCACCGGATCCCATCAGAACTCCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGG
1293 GTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
456 GTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
*
1325 GCGTGTATGATCAAATGTCGGCAACAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
1 GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
1390 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
66 TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
1455 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
131 GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
* *
1520 CCCCTTTTTTCCATTTTTATTTTCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTT
196 CCCCCTTTTT-CATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTT
*
1585 T-AAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGT
260 TCAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGT
1649 ATCCAATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCAC
325 ATCCAATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCAC
1714 TAATGCACCGGATCCCATCAGAACTCCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATG
390 TAATGCACCGGATCCCATCAGAACTCCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATG
*
1779 GGTGACTTCCTGGGAAGTCCTCGTGTTGCACCC
455 GGTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
1812 CTTTATCATT
Statistics
Matches: 469, Mismatches: 17, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
487 415 0.88
488 54 0.12
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (487 bp):
GCGTGTATGATCAAATGTCGGCAAAAATGCACCGGATCCAATGAGATGTGCTTATATATATTTAT
TATGCGAACAATGATGGGTGCGATCATACCAGCACAAATGCAACGGATCCAATCAGAACTCCGCA
GTTAAGCGTGCTTAGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
CCCCCTTTTTCATTTTTATTTCCTTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTT
CAAGTAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTA
TCCAATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACT
AATGCACCGGATCCCATCAGAACTCCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGG
GTGACCTCCTGGGAAGTCCTCGTGTTGCACCC
Found at i:1884 original size:70 final size:71
Alignment explanation
Indices: 1769--1911 Score: 225
Period size: 70 Copynumber: 2.0 Consensus size: 71
1759 GCGAGAGAAG
*
1769 TACTAGGATGGGTGACTTCCTGGGAAGTCCTCGTGTTGCACCCC-TTTATCATTTTTATTTCACT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTATCATTTTTATTTCACT
1833 TCTTCT
66 TCTTCT
* * **
1839 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCTTTTTTTCATTTTTATTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC-ACCCCTTTTATCATTTTTATTTCAC
1904 TTCTTCT
65 TTCTTCT
1911 T
1 T
1912 CTTTCGAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 38 0.58
71 4 0.06
72 24 0.36
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (71 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTATCATTTTTATTTCACT
TCTTCT
Found at i:2139 original size:359 final size:360
Alignment explanation
Indices: 1480--2188 Score: 1307
Period size: 359 Copynumber: 2.0 Consensus size: 360
1470 GCGAGAGTAG
1480 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCCATTTTTATTTTCT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCCATTTTTATTTTCT
1545 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAGTAAGCATTAAGTCTTCAAACG
66 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAGTAAGCATTAAGTCTTCAAACG
1610 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
1675 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
196 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
*
1740 CGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGGGTGACTTCCTGGGAAGTCCTCGTGT
261 CGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
1805 TGCACCCC-TTTATCATTTTTATTTCACTTCTTCT
326 TGCACCCCTTTTATCATTTTTATTTCACTTCTTCT
*
1839 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTA-CCCTTTTTTTCATTTTTA-TTTC
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC-ACCCCTTTTTTCCATTTTTATTTTC
1902 TTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAA
65 TTTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTT-AAGTAAGCATTAAGTCTTCAAA
1967 CGTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATAT
129 CGTATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATAT
2032 ATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAAC
194 ATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAAC
*** * *
2097 TCCGCAGTTAGGGGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTTGGAAGTCCTCGT
259 TCCGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGT
*
2162 GTTGCACCCCTTTTTTCATTTTTATTT
324 GTTGCACCCCTTTTATCATTTTTATTT
2189 TCTTTTCTTC
Statistics
Matches: 339, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
358 46 0.14
359 277 0.82
360 16 0.05
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (360 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCTTTTTTCCATTTTTATTTTCT
TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAGTAAGCATTAAGTCTTCAAACG
TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
CGCAGTTAAACGTGCTTGGGCGAGAGAAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
TGCACCCCTTTTATCATTTTTATTTCACTTCTTCT
Found at i:2429 original size:290 final size:289
Alignment explanation
Indices: 1839--2454 Score: 1126
Period size: 290 Copynumber: 2.1 Consensus size: 289
1829 CACTTCTTCT
*
1839 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCTTTTTTTCATTTTTATTTCTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTATTTCTT
1904 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
66 TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
* * *
1969 TATGGCGTGTATGATCATATGTCGGCAACAATGCACCGTATCCAATGAGATGTGCTTATATATAT
131 TATGGCGTGTATGATCATATGTCGACAACAATGCACCGGATCCAATGAGATGTGCTTATACATAT
*
2034 TTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
196 TTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAATGCACCGGATCCCATCAGAACTC
* *
2099 CGCAGTTAGGGGTGCTTGGGCGAGAGTAG
261 CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
*
2128 TACTAGGATGGGTGACCTCCTTGGAAGTCCTCGTGTTGC-ACCCCTTTTTTCATTTTTATTTTCT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTA-TTTCT
*
2192 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTCAAGTAAGCATTAAGTCTTCAAAC
65 TTTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAAC
2257 GTATGGCGTGTATGATCATATGTCTGACAACAATGCACCGGATCCAATGAGATGTGCTTATACAT
130 GTATGGCGTGTATGATCATATGTC-GACAACAATGCACCGGATCCAATGAGATGTGCTTATACAT
2322 ATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAATGCACCGGATCCCATCAGAAC
194 ATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAATGCACCGGATCCCATCAGAAC
2387 TCCGCAGTTAAGCGTGCTTGGGCGAGAGTAG
259 TCCGCAGTTAAGCGTGCTTGGGCGAGAGTAG
2418 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
1 TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
2455 AAGCATTAAG
Statistics
Matches: 315, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
288 18 0.06
289 131 0.42
290 166 0.53
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (289 bp):
TACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCTACCCCTTTTTTCATTTTTATTTCTT
TTCTTCTTCTTTCGAAATTTCTTATGGTAGACAATCGTTTAAAGTAAGCATTAAGTCTTCAAACG
TATGGCGTGTATGATCATATGTCGACAACAATGCACCGGATCCAATGAGATGTGCTTATACATAT
TTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAATGCACCGGATCCCATCAGAACTC
CGCAGTTAAGCGTGCTTGGGCGAGAGTAG
Found at i:2612 original size:216 final size:217
Alignment explanation
Indices: 2237--2670 Score: 762
Period size: 216 Copynumber: 2.0 Consensus size: 217
2227 TCGTTTCAAG
*
2237 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCTGACAACAATGCACCGGATCC
1 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCTGACAAAAATGCACCGGATCC
2302 AATGAGATGTGCTTATACATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAAT
66 AATGAGATGTGCTTATACATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAAT
* *
2367 GCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTG
131 GCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTG
*
2432 ACCTCCTGGGAAGTCCTCGTGT
196 ACCTCCAGGGAAGTCCTCGTGT
* *
2454 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTC-GGCAAAAATGCACCGTATCC
1 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCTGACAAAAATGCACCGGATCC
* * *
2518 AATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACTAGCACTAAT
66 AATGAGATGTGCTTATACATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAAT
* *
2583 GCACCGGTTCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGTGAGAGCAATACTAGGATGGGTG
131 GCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTG
2648 ACCTCCAGGGAAGTCCTCGTGT
196 ACCTCCAGGGAAGTCCTCGTGT
2670 T
1 T
2671 GCACCCCTTT
Statistics
Matches: 206, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
216 162 0.79
217 44 0.21
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (217 bp):
TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCTGACAAAAATGCACCGGATCC
AATGAGATGTGCTTATACATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAACACTAAT
GCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTG
ACCTCCAGGGAAGTCCTCGTGT
Found at i:2923 original size:258 final size:258
Alignment explanation
Indices: 2454--2950 Score: 877
Period size: 258 Copynumber: 1.9 Consensus size: 258
2444 GTCCTCGTGT
2454 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCA
1 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCA
*
2519 ATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACTAGCACTAATG
66 ATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATG
* *
2584 CACCGGTTCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGTGAGAGCAATACTAGGATGGGTGA
131 CACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTGA
2649 CCTCCAGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTCTTATGATAGACAATCGTTTCAAG
196 CCTCCAGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTCTTATGATAGACAATCGTTTCAAG
2712 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCA
1 TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCA
2777 ATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATG
66 ATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATG
* * * *
2842 CACCGGATCCCATCAGAACTCCGCAGTTAGGGGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGA
131 CACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTGA
* * * * * *
2907 TCTCCTGGGTAGTCCTCGTGTTGTACCCCTTTTTTCATTTTTAT
196 CCTCCAGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTCTTAT
2951 TTTCTTTTCT
Statistics
Matches: 226, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
258 226 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (258 bp):
TAAGCATTAAGTCTTCAAACGTATGGCGTGTATGATCATATGTCGGCAAAAATGCACCGTATCCA
ATGAGATGTGCTTATATATATTTATTATGCGAAGACTGATGGGTGCGATCATACCAGCACTAATG
CACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGCAATACTAGGATGGGTGA
CCTCCAGGGAAGTCCTCGTGTTGCACCCCTTTATTCATTCTTATGATAGACAATCGTTTCAAG
Found at i:3173 original size:13 final size:13
Alignment explanation
Indices: 3155--3180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3145 AAAACTCCGC
3155 AGTTAAGCGTGCT
1 AGTTAAGCGTGCT
3168 AGTTAAGCGTGCT
1 AGTTAAGCGTGCT
3181 TGGGCGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
AGTTAAGCGTGCT
Found at i:3944 original size:51 final size:51
Alignment explanation
Indices: 3862--3964 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
3852 TATTGTTTTC
* *
3862 TTCTTCTTTCGAAAATTTTTTTGGTAGGTATCGGTTCAAGTACGTATTAAG
1 TTCTTCTTTCGAAAATTTTTTTGGTAAGTATCGGTTCAAATACGTATTAAG
3913 TTCTTCTTTCG-AAATTTTTTTGGGTAAGTATCGGTTCAAATACGTATTAAG
1 TTCTTCTTTCGAAAATTTTTTT-GGTAAGTATCGGTTCAAATACGTATTAAG
3964 T
1 T
3965 CTTAGAACGT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 10 0.20
51 39 0.80
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (51 bp):
TTCTTCTTTCGAAAATTTTTTTGGTAAGTATCGGTTCAAATACGTATTAAG
Found at i:5931 original size:18 final size:18
Alignment explanation
Indices: 5908--5942 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5898 CGAAAAGGTT
5908 TTGCCCCAATTAGACGCC
1 TTGCCCCAATTAGACGCC
* *
5926 TTGCCCCTATTTGACGC
1 TTGCCCCAATTAGACGC
5943 GATTTCGGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.17, T:0.29
Consensus pattern (18 bp):
TTGCCCCAATTAGACGCC
Found at i:8890 original size:11 final size:11
Alignment explanation
Indices: 8874--8898 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8864 CACAATTTTG
8874 GCAGATGCTAT
1 GCAGATGCTAT
8885 GCAGATGCTAT
1 GCAGATGCTAT
8896 GCA
1 GCA
8899 CCTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (11 bp):
GCAGATGCTAT
Found at i:9573 original size:22 final size:21
Alignment explanation
Indices: 9545--9585 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9535 GCAATGCTTC
*
9545 TTTTTTTCGTTTCTTTTTTGTT
1 TTTTTTTC-TTTATTTTTTGTT
9567 TTTTTTTCTTTATTTTTTG
1 TTTTTTTCTTTATTTTTTG
9586 AAAGAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTTTATTTTTTGTT
Found at i:9710 original size:74 final size:75
Alignment explanation
Indices: 9632--9777 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 75
9622 GAGTACTCTG
9632 TTTATTATTTTTGGGTGAATGAAATGTAGTCTGTTGATATTTTGACATTCTTGATTTTTTTCT-T
1 TTTATTATTTTTGGGTGAATGAAATGTAGTCTGTTGATATTTTGACATTCTTGATTTTTTTCTGT
9696 TTTTTTTCCT
66 TTTTTTTCCT
9706 TTTATTATTTTTGGGTGAATGAAATGTAGTCTGTTGATATTTTGACATTCTTGATTTTTTTCTGT
1 TTTATTATTTTTGGGTGAATGAAATGTAGTCTGTTGATATTTTGACATTCTTGATTTTTTTCTGT
9771 TTTTTTT
66 TTTTTTT
9778 TTCCCTCCAG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 63 0.89
75 8 0.11
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.60
Consensus pattern (75 bp):
TTTATTATTTTTGGGTGAATGAAATGTAGTCTGTTGATATTTTGACATTCTTGATTTTTTTCTGT
TTTTTTTCCT
Found at i:10264 original size:13 final size:13
Alignment explanation
Indices: 10246--10270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10236 ACCAAGTTGG
10246 TTTTTCTTAAATT
1 TTTTTCTTAAATT
10259 TTTTTCTTAAAT
1 TTTTTCTTAAAT
10271 CTCTAACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTCTTAAATT
Found at i:15928 original size:26 final size:26
Alignment explanation
Indices: 15884--16017 Score: 124
Period size: 26 Copynumber: 4.8 Consensus size: 26
15874 CTGATTAGTA
**
15884 ATTACCATTTTTTTACTCTTTTTACGG
1 ATTACCA-TTTTTTACTCTTTTTACTT
* *
15911 ATTACCATTTTTTACTCTTTCTAATT
1 ATTACCATTTTTTACTCTTTTTACTT
** *
15937 AAATTATTGATTTCCCTTACTCTTTTTACTT
1 --ATTA-CCATTT--TTTACTCTTTTTACTT
*
15968 ATTACCATTTTTCACTCTTTTTACTT
1 ATTACCATTTTTTACTCTTTTTACTT
15994 ATTACCATTTTCTTACTCTCTTTT
1 ATTACCATTTT-TTACTCT-TTTT
16018 TTTTACTGGT
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
26 40 0.47
27 13 0.15
28 12 0.14
29 8 0.09
31 13 0.15
ACGTcount: A:0.20, C:0.21, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTACCATTTTTTACTCTTTTTACTT
Found at i:16136 original size:9 final size:9
Alignment explanation
Indices: 16122--16160 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
16112 CTAAATACCA
16122 TTTTTACTC
1 TTTTTACTC
*
16131 TTTTTAATC
1 TTTTTACTC
16140 TTTTTAC-C
1 TTTTTACTC
16148 ATTTTTACTC
1 -TTTTTACTC
16158 TTT
1 TTT
16161 GAATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTACTC
Found at i:16264 original size:22 final size:22
Alignment explanation
Indices: 16188--16287 Score: 125
Period size: 22 Copynumber: 4.6 Consensus size: 22
16178 TACCATTTTT
16188 TTTTACTGATTACTCTTTACTC
1 TTTTACTGATTACTCTTTACTC
* *
16210 -TTTACTGATTGCT-ATTA-TC
1 TTTTACTGATTACTCTTTACTC
* * *
16229 ATTTTATTGTTTACTGTTTACTC
1 -TTTTACTGATTACTCTTTACTC
16252 TTTTACTGATTACTCTTTACTC
1 TTTTACTGATTACTCTTTACTC
16274 TTTTACTGATTACT
1 TTTTACTGATTACT
16288 ATTACCATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 22 0.34
22 36 0.55
23 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTACTGATTACTCTTTACTC
Found at i:16287 original size:15 final size:15
Alignment explanation
Indices: 16238--16269 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16228 CATTTTATTG
*
16238 TTTACTGTTTACTCT
1 TTTACTGATTACTCT
16253 TTTACTGATTACTCT
1 TTTACTGATTACTCT
16268 TT
1 TT
16270 ACTCTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.59
Consensus pattern (15 bp):
TTTACTGATTACTCT
Found at i:16351 original size:7 final size:7
Alignment explanation
Indices: 16238--16420 Score: 60
Period size: 7 Copynumber: 25.9 Consensus size: 7
16228 CATTTTATTG
*
16238 TTTACTG
1 TTTACTC
16245 TTTACTC
1 TTTACTC
*
16252 TTTTACTG
1 -TTTACTC
*
16260 ATTACTC
1 TTTACTC
16267 TTTACTC
1 TTTACTC
*
16274 TTTTACTG
1 -TTTACTC
*
16282 ATTACT-
1 TTTACTC
* *
16288 ATTACCATT
1 TTTA-C-TC
16297 TTTACTC
1 TTTACTC
*
16304 TTTGCTC
1 TTTACTC
*
16311 TTTACTG
1 TTTACTC
* *
16318 ATTGCT-
1 TTTACTC
*
16324 ATTACTC
1 TTTACTC
16331 TTT-CTC
1 TTTACTC
*
16337 GATTACTC
1 -TTTACTC
16345 TTTACTC
1 TTTACTC
16352 TTTA--C
1 TTTACTC
16357 -TTACTAC
1 TTTACT-C
*
16364 TATTACCC
1 T-TTACTC
*
16372 TTTTACTG
1 -TTTACTC
*
16380 ATTACTC
1 TTTACTC
16387 TTTAC-C
1 TTTACTC
16393 ATTT-CT-
1 -TTTACTC
16399 TGATTACTC
1 T--TTACTC
16408 TTTACTC
1 TTTACTC
16415 TTTACT
1 TTTACT
16421 GATTACTATT
Statistics
Matches: 132, Mismatches: 24, Indels: 40
0.67 0.12 0.20
Matches are distributed among these distances:
4 3 0.02
5 2 0.02
6 14 0.11
7 80 0.61
8 24 0.18
9 9 0.07
ACGTcount: A:0.19, C:0.23, G:0.05, T:0.53
Consensus pattern (7 bp):
TTTACTC
Found at i:16398 original size:63 final size:63
Alignment explanation
Indices: 16246--16481 Score: 235
Period size: 63 Copynumber: 3.8 Consensus size: 63
16236 TGTTTACTGT
* * *
16246 TTACTCTTTTACTGATTACTCTTTACTCTTTTACT-GATTACT-ATTAC-CATTT--TTACT-CT
1 TTACTCTTTTACTGATTACT-ATTACTCATTT-CTCGATTACTCTTTACTC-TTTACTTACTACT
16305 -
63 A
* *
16305 TTGCTC-TTTACTGATTGCTATTACTC-TTTCTCGATTACTCTTTACTCTTTACTTACTACTA
1 TTACTCTTTTACTGATTACTATTACTCATTTCTCGATTACTCTTTACTCTTTACTTACTACTA
* * * * *
16366 TTACCCTTTTACTGATTACTCTTTAC-CATTTCTTGATTACTCTTTACTCTTTACTGATTACTA
1 TTACTCTTTTACTGATTACT-ATTACTCATTTCTCGATTACTCTTTACTCTTTACTTACTACTA
16429 TTACTCTTTTACTGATTACTATTAC-CATTT-TACTGATTACTCTTTACTTCTTT
1 TTACTCTTTTACTGATTACTATTACTCATTTCT-C-GATTACTCTTTAC-TCTTT
16482 GAATTTTAAT
Statistics
Matches: 150, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
55 2 0.01
56 10 0.07
57 13 0.09
58 13 0.09
59 10 0.07
60 2 0.01
61 5 0.03
62 22 0.15
63 68 0.45
64 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.53
Consensus pattern (63 bp):
TTACTCTTTTACTGATTACTATTACTCATTTCTCGATTACTCTTTACTCTTTACTTACTACTA
Found at i:16439 original size:21 final size:20
Alignment explanation
Indices: 16189--16469 Score: 186
Period size: 21 Copynumber: 13.7 Consensus size: 20
16179 ACCATTTTTT
*
16189 TTTACTGATTACTCTTTACTC
1 TTTACTGATTACT-ATTACTC
*
16210 TTTACTGATTGCTATTA-TC
1 TTTACTGATTACTATTACTC
* * *
16229 ATTTTATTGTTTACTGTTTACTC
1 --TTTACTGATTACT-ATTACTC
*
16252 TTTTACTGATTACTCTTTACTC
1 -TTTACTGATTACT-ATTACTC
16274 TTTTACTGATTACTATTAC-C
1 -TTTACTGATTACTATTACTC
* * *
16294 ATT--T--TTACTCTTTGCTC
1 TTTACTGATTACT-ATTACTC
*
16311 TTTACTGATTGCTATTACTC
1 TTTACTGATTACTATTACTC
*
16331 TTT-CTCGATTACTCTTTACTC
1 TTTACT-GATTACT-ATTACTC
* * *
16352 TTTACTTACTACTATTACCC
1 TTTACTGATTACTATTACTC
*
16372 TTTTACTGATTACTCTTTAC-C
1 -TTTACTGATTACT-ATTACTC
*
16393 ATTT-CTTGATTACTCTTTACTC
1 -TTTAC-TGATTACT-ATTACTC
16415 TTTACTGATTACTATTACTC
1 TTTACTGATTACTATTACTC
16435 TTTTACTGATTACTATTAC-C
1 -TTTACTGATTACTATTACTC
16455 ATTTTACTGATTACT
1 --TTTACTGATTACT
16470 CTTTACTTCT
Statistics
Matches: 212, Mismatches: 28, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
15 5 0.02
16 3 0.01
17 4 0.02
19 7 0.03
20 31 0.15
21 116 0.55
22 44 0.21
23 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.06, T:0.53
Consensus pattern (20 bp):
TTTACTGATTACTATTACTC
Found at i:16452 original size:27 final size:27
Alignment explanation
Indices: 16401--16453 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16391 CCATTTCTTG
*
16401 ATTACTCTTTACTCTTTACTGATTACT
1 ATTACTCTTTACTCATTACTGATTACT
*
16428 ATTACTCTTTTACTGATTACT-ATTAC
1 ATTACTC-TTTACTCATTACTGATTAC
16454 CATTTTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTACTCTTTACTCATTACTGATTACT
Found at i:17217 original size:7 final size:6
Alignment explanation
Indices: 17188--17217 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17178 TATTGACAAT
17188 TAAATC TAAATC TAAATC TAAATCC TAAAT
1 TAAATC TAAATC TAAATC TAAAT-C TAAAT
17218 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATC
Found at i:18239 original size:23 final size:23
Alignment explanation
Indices: 18191--18239 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
18181 TCTGTTGTGA
*
18191 TTTTTTCTCTTATCTTTTCTTTT
1 TTTTTTCTCTTATCTTTTCTTAT
18214 TTTTTTCTCTCT-T-TTTTCTGTAT
1 TTTTTTCTCT-TATCTTTTCT-TAT
18237 TTT
1 TTT
18240 CTTTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.26
23 16 0.70
24 1 0.04
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTCTCTTATCTTTTCTTAT
Found at i:20728 original size:22 final size:22
Alignment explanation
Indices: 20703--20749 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
20693 ATAAATGGGA
20703 TAAAAGGGAAATGGGCTTTAAC
1 TAAAAGGGAAATGGGCTTTAAC
20725 TAAAAGGGAAATGGGCTTTAAC
1 TAAAAGGGAAATGGGCTTTAAC
20747 TAA
1 TAA
20750 TTATGATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (22 bp):
TAAAAGGGAAATGGGCTTTAAC
Found at i:21847 original size:13 final size:14
Alignment explanation
Indices: 21829--21885 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
21819 GTTGCACCCC
21829 TTTTTTATTT-TCT
1 TTTTTTATTTATCT
**
21842 TTTTTT-TTTGAAAT
1 TTTTTTATTT-ATCT
21856 TTTTTATATTTAT-T
1 TTTTT-TATTTATCT
21870 TTTTTTATTT-TCT
1 TTTTTTATTTATCT
21883 TTT
1 TTT
21886 CTTTCGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
12 4 0.11
13 15 0.42
14 12 0.33
15 2 0.06
16 3 0.08
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTATCT
Found at i:22321 original size:474 final size:471
Alignment explanation
Indices: 21410--22322 Score: 1418
Period size: 474 Copynumber: 1.9 Consensus size: 471
21400 CTTTTTTTTC
* * *
21410 TTCTTTCGAAATTTCTTATGGTAGAAAATCGGTTCAAGTAAGCATTAAGTCTTAGTATGGCTGCG
1 TTCTTTCGAAATTTCTTATGGTAGAAAAGCGGTTCAACTAAGCATTAAGTCTTAGTATGGCTACG
* *
21475 AATGAACATCATGTTCGATGAATGGCTCGTGAGCAAGCTCGATTAAAACTCGTTTATGTTCGCTT
66 AATGAACAACATGTTCGATGAACGGCTCGTGAGCAAGCTCGATTAAAACTCGTTTATGTTCGCTT
* * *
21540 GGTTGCGTTTGCAATGAGAAATATTGTTTTCTTCTTCTTTCGAAATTTTTTTGGGTAGCTATCGG
131 GGTTGCGTTAGCAATGAGAAATATTGTTTTCATCTTCTTTCGAAATTTTTTTGGATAGCTATCGG
*
21605 TTCAAGTACGTATTAAGTCTTAGTACGTATGGCGTGTACGATCATATGTCGGCAACAATGCACCG
196 TTCAAGTACGTATTAAGTCTTAGTACGTATGGCGTGTACAATCATATGTCGGCAACAATGCACCG
*
21670 GATCCAATGAGATGTGCTTCTATATATTTATTATGCAAAGACTGATGGGTGCGATCATACCAGCA
261 GATCC-ATGAGATGTGCTTATATATATTTATTATGCAAAGACTGATGGGTGCGATCATACCAGCA
* * **
21735 CTAATGCACTGGATCCCATCAGAACTCCGCAGTGAAGCGTGCTTGGGCGAGAGTAGGATGGGTGA
325 CTAATGCACCGGATCCCATCAGAACTCCACAGTGAAGCACGCTTGGGCGAGAGTAGGATGGGTGA
* *
21800 CCTCCTGGGAAGTCCTCATGTTGCACCCCTTTTTTATTTTCTTTTTTTTTTGAAATTTTTTATAT
390 CCTACTGGGAAGACCTCATGTTGCACCCCTTTTTTA--TTCTTTTTTTTTTGAAATTTTTTATAT
21865 TTATTTTTTTTATTTTCTT
453 TTATTTTTTTTATTTTCTT
* *
21884 TTCTTTCGAAATTTCTTATGGTATACAAGCGGTTCAACTAAGCATTAAGTCTTAGTATGGCTACG
1 TTCTTTCGAAATTTCTTATGGTAGAAAAGCGGTTCAACTAAGCATTAAGTCTTAGTATGGCTACG
* * * *
21949 AATGAATAACATGTTCGATGAACGGCTCGTGAGCAATCTTGATTAAAGCTCGTTTATGTTCGCTT
66 AATGAACAACATGTTCGATGAACGGCTCGTGAGCAAGCTCGATTAAAACTCGTTTATGTTCGCTT
* * *
22014 GGTTGGGTTAGCAATGTGAAATATTGTTTTCATCTTCTTTCGAAATTTTTTTGGATATG-TATTG
131 GGTTGCGTTAGCAATGAGAAATATTGTTTTCATCTTCTTTCGAAATTTTTTTGGATA-GCTATCG
* *
22078 GTTCAAGTACGTATTAAGTCTTAGTACGTATGGTGTGTACAATCATATGTCGGCAACAATGCATC
195 GTTCAAGTACGTATTAAGTCTTAGTACGTATGGCGTGTACAATCATATGTCGGCAACAATGCACC
*
22143 GGATCC-TGAGATGTGCTTATATATATTTATTATGCAAAGACTGATGGGTTCGATCATACCAGCA
260 GGATCCATGAGATGTGCTTATATATATTTATTATGCAAAGACTGATGGGTGCGATCATACCAGCA
* ** *
22207 CTAATGCACCGGATCCGATCAGATTTCCACAGTTAAGCACGCTTGGGCGAGAGTAGTACTAGGAT
325 CTAATGCACCGGATCCCATCAGAACTCCACAGTGAAGCACGCTTGGGC--GAG-AG---TAGGAT
*
22272 GGGTGACCTACTGGGAAGACCTCGTGTTGCACCCCTTTTTTATT-TTTTTTT
384 GGGTGACCTACTGGGAAGACCTCATGTTGCACCCCTTTTTTATTCTTTTTTT
22323 ATTTTCTTCT
Statistics
Matches: 399, Mismatches: 33, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
472 96 0.24
474 246 0.62
475 10 0.03
476 2 0.01
478 45 0.11
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (471 bp):
TTCTTTCGAAATTTCTTATGGTAGAAAAGCGGTTCAACTAAGCATTAAGTCTTAGTATGGCTACG
AATGAACAACATGTTCGATGAACGGCTCGTGAGCAAGCTCGATTAAAACTCGTTTATGTTCGCTT
GGTTGCGTTAGCAATGAGAAATATTGTTTTCATCTTCTTTCGAAATTTTTTTGGATAGCTATCGG
TTCAAGTACGTATTAAGTCTTAGTACGTATGGCGTGTACAATCATATGTCGGCAACAATGCACCG
GATCCATGAGATGTGCTTATATATATTTATTATGCAAAGACTGATGGGTGCGATCATACCAGCAC
TAATGCACCGGATCCCATCAGAACTCCACAGTGAAGCACGCTTGGGCGAGAGTAGGATGGGTGAC
CTACTGGGAAGACCTCATGTTGCACCCCTTTTTTATTCTTTTTTTTTTGAAATTTTTTATATTTA
TTTTTTTTATTTTCTT
Found at i:25395 original size:26 final size:26
Alignment explanation
Indices: 25351--25443 Score: 143
Period size: 26 Copynumber: 3.5 Consensus size: 26
25341 AAAAATTCAC
25351 CAGGGGCATTTTGGTCATTTTTG-CT
1 CAGGGGCATTTTGGTCATTTTTGCCT
*
25376 CAGGGGCATTTTTGGTCATTTTCGCCT
1 CAGGGGCA-TTTTGGTCATTTTTGCCT
*
25403 CAAGGGCATTTTGGTCATTTTTCGCCT
1 CAGGGGCATTTTGGTCATTTTT-GCCT
25430 CAGGGGCATTTTGG
1 CAGGGGCATTTTGG
25444 ACAAAATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 8 0.13
26 27 0.44
27 26 0.43
ACGTcount: A:0.13, C:0.19, G:0.28, T:0.40
Consensus pattern (26 bp):
CAGGGGCATTTTGGTCATTTTTGCCT
Found at i:25412 original size:27 final size:26
Alignment explanation
Indices: 25351--25443 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 26
25341 AAAAATTCAC
*
25351 CAGGGGCATTTTGGTCATTTTTG-CT
1 CAGGGGCATTTTGGTCATTTTCGCCT
25376 CAGGGGCATTTTTGGTCATTTTCGCCT
1 CAGGGGCA-TTTTGGTCATTTTCGCCT
*
25403 CAAGGGCATTTTGGTCATTTTTCGCCT
1 CAGGGGCATTTTGGTCA-TTTTCGCCT
25430 CAGGGGCATTTTGG
1 CAGGGGCATTTTGG
25444 ACAAAATTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
25 8 0.13
26 23 0.37
27 31 0.50
ACGTcount: A:0.13, C:0.19, G:0.28, T:0.40
Consensus pattern (26 bp):
CAGGGGCATTTTGGTCATTTTCGCCT
Found at i:29290 original size:47 final size:47
Alignment explanation
Indices: 29236--29769 Score: 919
Period size: 47 Copynumber: 11.4 Consensus size: 47
29226 AGAAGATAGT
*
29236 ATTAAACTAAATAGTAAAAGAAGAAGAGATTAGTTTAATTACCTA-G-A
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATT--CTAGGTA
29283 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29330 ATTAAACTAAATAGTAAAAGAAGAAGAGATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
* *
29377 ATTAAACTAAGTAGTAAAAGAAGAAGAAATTAGTTTAATTATAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
* *
29424 ATTAAACTAAAGAGTAAAAGAAGAAGAGATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
29471 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29518 ATTAAACTAAGTAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29565 ATTAAACTAAGTAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
* *
29612 ATTAAACTAAATAGTAAAAGAAGAAGAGATTGGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29659 ATTAAAATAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29706 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTC
1 ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
*
29753 ATTAAACTAAGTAGTAA
1 ATTAAACTAAATAGTAA
29770 GGAGTAGTCA
Statistics
Matches: 464, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 460 0.99
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.29
Consensus pattern (47 bp):
ATTAAACTAAATAGTAAAAGAAGAAGAAATTAGTTTAATTCTAGGTA
Found at i:32806 original size:2 final size:2
Alignment explanation
Indices: 32794--32825 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
32784 CATTAGAAAG
*
32794 CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32826 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32830 original size:2 final size:2
Alignment explanation
Indices: 32825--32857 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32815 ACACACACAC
32825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32858 CAACAGTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35403 original size:22 final size:22
Alignment explanation
Indices: 35378--35424 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
35368 TTTTTAGTTG
*
35378 AGTAAAACT-ATAAAAGTAAAAT
1 AGTAAAA-TGATAAAAATAAAAT
*
35400 AGTAAAATGGTAAAAATAAAAT
1 AGTAAAATGATAAAAATAAAAT
35422 AGT
1 AGT
35425 TATAAGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (22 bp):
AGTAAAATGATAAAAATAAAAT
Found at i:35579 original size:31 final size:31
Alignment explanation
Indices: 35521--35582 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
35511 ATATTCGAAA
* *
35521 AATAAGGGTATGATAGGCAGTTTAAAAGTTT
1 AATAAGGGTATAATAGGCAGTTCAAAAGTTT
*
35552 AATAAGGGTATAATAGG-TGATTCAAAAGTTT
1 AATAAGGGTATAATAGGCAG-TTCAAAAGTTT
35583 TACAGAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.32
Consensus pattern (31 bp):
AATAAGGGTATAATAGGCAGTTCAAAAGTTT
Found at i:37015 original size:35 final size:34
Alignment explanation
Indices: 36957--37156 Score: 197
Period size: 35 Copynumber: 5.6 Consensus size: 34
36947 TTAAAAAAAT
* *
36957 TTGGGAAAGTTCCCACCAGTTTTAAGTTTTTAAA
1 TTGGGAAAGTTCCCATCAATTTTAAGTTTTTAAA
*
36991 TTGGGAAAGTTCCCATCAACTTTTAAGTTTTCAAA
1 TTGGGAAAGTTCCCATCAA-TTTTAAGTTTTTAAA
* *
37026 TTGGGAAAGTTCCCATTCAGTTTTCAAAGTTTTTTTAA
1 TTGGGAAAGTTCCCA-TCAATTTT--AAG-TTTTTAAA
* *
37064 TTGGGAAAGTTCCCATCAGATTTT-AGTTTTCAAT
1 TTGGGAAAGTTCCCATCA-ATTTTAAGTTTTTAAA
37098 TTAGGGAAAGTTCCTGTCATTTTCAATTTT-AGTTTTTAAA
1 TT-GGGAAAGTTCC---CA---TCAATTTTAAGTTTTTAAA
*
37138 ATGGGAAAGTTCCCATCAA
1 TTGGGAAAGTTCCCATCAA
37157 AAACATTTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
33 4 0.03
34 24 0.17
35 46 0.33
36 5 0.04
37 6 0.04
38 27 0.19
39 11 0.08
40 14 0.10
41 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (34 bp):
TTGGGAAAGTTCCCATCAATTTTAAGTTTTTAAA
Found at i:37077 original size:73 final size:71
Alignment explanation
Indices: 36957--37156 Score: 225
Period size: 73 Copynumber: 2.8 Consensus size: 71
36947 TTAAAAAAAT
* *
36957 TTGGGAAAGTTCCCA-CCAGTTTT--AAG-TTTTTAAATTGGGAAAGTTCCCATCAACTTTTAAG
1 TTGGGAAAGTTCCCATTCAGTTTTCAAAGTTTTTTTAATTGGGAAAGTTCCCATCAA-TTTT-AG
37018 TTTTCAAA
64 TTTTCAAA
37026 TTGGGAAAGTTCCCATTCAGTTTTCAAAGTTTTTTTAATTGGGAAAGTTCCCATCAGATTTTAGT
1 TTGGGAAAGTTCCCATTCAGTTTTCAAAGTTTTTTTAATTGGGAAAGTTCCCATCA-ATTTTAGT
*
37091 TTTCAAT
65 TTTCAAA
** *
37098 TTAGGGAAAGTT-CC-TGTCA-TTTTCAATTTTAGTTTTTAAAATGGGAAAGTTCCCATCAA
1 TT-GGGAAAGTTCCCAT-TCAGTTTTCAAAGTT--TTTTT-AATTGGGAAAGTTCCCATCAA
37157 AAACATTTTT
Statistics
Matches: 115, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
69 15 0.13
70 7 0.06
71 10 0.09
72 19 0.17
73 44 0.38
74 20 0.17
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (71 bp):
TTGGGAAAGTTCCCATTCAGTTTTCAAAGTTTTTTTAATTGGGAAAGTTCCCATCAATTTTAGTT
TTCAAA
Found at i:41396 original size:24 final size:24
Alignment explanation
Indices: 41362--41409 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
41352 ATTGGTGCCA
41362 CTGGCCATTTGACAGAGGAAAACT
1 CTGGCCATTTGACAGAGGAAAACT
*
41386 CTGGCCTTTTGACAGAGGAAAACT
1 CTGGCCATTTGACAGAGGAAAACT
41410 GTCGATGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (24 bp):
CTGGCCATTTGACAGAGGAAAACT
Found at i:49877 original size:63 final size:66
Alignment explanation
Indices: 49737--49880 Score: 204
Period size: 63 Copynumber: 2.2 Consensus size: 66
49727 CTTTTAAACT
* * *
49737 TGTTTAGGTAGTCTATTCGATAATTATCGAAAAAGAAAATGGATTTGGAATTACAAATACACATT
1 TGTTTAGGTAGTCTATTCAATAATTATCG--AAAGAAAATGGAATTGGAATTACAAATACAAATT
49802 TCA
64 TCA
* *
49805 TGTTTAGGTAGTTTATTCAATAATTATCG-AA-AAAA-GGAATTGGAATTGCAAATACAAATTTC
1 TGTTTAGGTAGTCTATTCAATAATTATCGAAAGAAAATGGAATTGGAATTACAAATACAAATTTC
49867 A
66 A
49868 TGTTTAGGTAGTC
1 TGTTTAGGTAGTC
49881 CATTTCATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
63 37 0.53
64 4 0.06
65 2 0.03
68 27 0.39
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (66 bp):
TGTTTAGGTAGTCTATTCAATAATTATCGAAAGAAAATGGAATTGGAATTACAAATACAAATTTC
A
Found at i:55031 original size:19 final size:19
Alignment explanation
Indices: 54981--55031 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
54971 CATAAGATTT
54981 TTAATAA-TAATTATTCAA
1 TTAATAATTAATTATTCAA
* *
54999 TAAAATAATT-ATTATTTAA
1 T-TAATAATTAATTATTCAA
55018 TTAATAATTAATTA
1 TTAATAATTAATTA
55032 ATTTCAGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.30
19 18 0.67
20 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATAATTAATTATTCAA
Found at i:55278 original size:20 final size:21
Alignment explanation
Indices: 55241--55279 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
55231 ATCTCACACA
55241 AAGATTATCAAAAATCATAGG
1 AAGATTATCAAAAATCATAGG
*
55262 AAGATTA-CAAAATTCATA
1 AAGATTATCAAAAATCATA
55280 TGAAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (21 bp):
AAGATTATCAAAAATCATAGG
Found at i:55333 original size:44 final size:43
Alignment explanation
Indices: 55245--55412 Score: 153
Period size: 44 Copynumber: 3.9 Consensus size: 43
55235 CACACAAAGA
* * *
55245 TTATCAAAA-ATCATAGGAAGATTA-CAAAA-TTCATATGAAAGT
1 TTATCAAAATTTCATAGGTA-ATTATCAAAATTTCATATG-GAGT
* * * * *
55287 TTATTAAAATTTCATAGTTAGGTTATCAAAGTTTCTTATGGAGT
1 TTATCAAAATTTCATAGGTA-ATTATCAAAATTTCATATGGAGT
* * * *
55331 TTATCACAATTTTATAGGTAATTATCAAAATTTCATATGGTGG
1 TTATCAAAATTTCATAGGTAATTATCAAAATTTCATATGGAGT
* *
55374 TTATCACAATTTAATAGGGTAATTATCAAAATTTCATAT
1 TTATCAAAATTTCATA-GGTAATTATCAAAATTTCATAT
55413 ATTCAATTGA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 8 0.08
43 44 0.42
44 45 0.43
45 7 0.07
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (43 bp):
TTATCAAAATTTCATAGGTAATTATCAAAATTTCATATGGAGT
Found at i:55378 original size:22 final size:22
Alignment explanation
Indices: 55287--55412 Score: 94
Period size: 22 Copynumber: 5.8 Consensus size: 22
55277 ATATGAAAGT
* * *
55287 TTATTAAAATTTCATA-GTTAGG
1 TTATCAAAATTTCATATGGT-GA
* * * *
55309 TTATCAAAGTTTCTTATGGAGT
1 TTATCAAAATTTCATATGGTGA
* * *
55331 TTATCACAATTTTATA-GGTAA
1 TTATCAAAATTTCATATGGTGA
*
55352 TTATCAAAATTTCATATGGTGG
1 TTATCAAAATTTCATATGGTGA
* * * *
55374 TTATCACAATTTAATAGGGTAA
1 TTATCAAAATTTCATATGGTGA
55396 TTATCAAAATTTCATAT
1 TTATCAAAATTTCATAT
55413 ATTCAATTGA
Statistics
Matches: 77, Mismatches: 25, Indels: 4
0.73 0.24 0.04
Matches are distributed among these distances:
21 16 0.21
22 60 0.78
23 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (22 bp):
TTATCAAAATTTCATATGGTGA
Found at i:57874 original size:13 final size:13
Alignment explanation
Indices: 57856--57880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57846 CCCCTTTCTG
57856 CTTCTTCTTCCTC
1 CTTCTTCTTCCTC
57869 CTTCTTCTTCCT
1 CTTCTTCTTCCT
57881 TTCGCGAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (13 bp):
CTTCTTCTTCCTC
Found at i:67235 original size:20 final size:21
Alignment explanation
Indices: 67210--67257 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
67200 CTCCTTTCTG
67210 GAAGTTG-TCACCTTCCTAAA
1 GAAGTTGATCACCTTCCTAAA
*
67230 GAAGTTGAAATCACCTTCCTGAA
1 GAAGTTG--ATCACCTTCCTAAA
67253 GAAGT
1 GAAGT
67258 CAAGCCCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
23 17 0.71
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (21 bp):
GAAGTTGATCACCTTCCTAAA
Found at i:67541 original size:51 final size:51
Alignment explanation
Indices: 67439--67541 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
67429 CATTCGACAA
* **
67439 TATTTCCTTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTAAGTGT
1 TATTTCCTTGTTTCAATCTTGTCTCCGGACAAAAGAACACTATACAAGTGT
** * *
67490 TATTTCCTTGTTTCAATCTTGTCTTTGGACGTAAA-AACACTATACACGTGT
1 TATTTCCTTGTTTCAATCTTGTCTCCGGAC-AAAAGAACACTATACAAGTGT
67541 T
1 T
67542 TCTCTCTCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (51 bp):
TATTTCCTTGTTTCAATCTTGTCTCCGGACAAAAGAACACTATACAAGTGT
Found at i:69159 original size:19 final size:18
Alignment explanation
Indices: 69126--69168 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
69116 AGTATTAGTT
*
69126 AAGAGAGTGAATAGGATGA
1 AAGAGAGTGAATAGG-GGA
69145 AAGAGAGT-AAGTAGGGGA
1 AAGAGAGTGAA-TAGGGGA
69163 AAGAGA
1 AAGAGA
69169 ATAGGGGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.40, T:0.12
Consensus pattern (18 bp):
AAGAGAGTGAATAGGGGA
Found at i:72722 original size:15 final size:15
Alignment explanation
Indices: 72704--72733 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72694 TAATTAAATA
72704 TATATATATATATAT
1 TATATATATATATAT
*
72719 TATATTTATATATAT
1 TATATATATATATAT
72734 AGGAGTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:72742 original size:15 final size:15
Alignment explanation
Indices: 72724--72756 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
72714 TATATTATAT
72724 TTATATATATAGGAG
1 TTATATATATAGGAG
72739 TTATATATATAGGAG
1 TTATATATATAGGAG
72754 TTA
1 TTA
72757 AATTAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (15 bp):
TTATATATATAGGAG
Found at i:72749 original size:2 final size:2
Alignment explanation
Indices: 72701--72734 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
72691 GTTTAATTAA
*
72701 AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72735 GGAGTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Done.