Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020796.1 Corchorus olitorius cultivar O-4 contig20829, 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: 57869
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:1913 original size:346 final size:331
Alignment explanation
Indices: 363--3565 Score: 3638
Period size: 346 Copynumber: 9.7 Consensus size: 331
353 ACAACTCCAT
* * * *
363 ATTGAG-CTGGGCTCCGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGAACACGATTTCGGC
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
* * * *
427 TAAAAACTTACCC-AAAATTTTTTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATTAT
66 TAAAAACTGACCCGAAAA-GTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
* * **** * *
491 TCAACGCCAAAAAGATCGACAAACTTTTTA-AGCTTCTAATATCGTTTTTCCATTTTTTCCGAAT
130 TCAACGCCAAAAACATTGATGGGCTTTTCACA-CTTTTAATATCGTTTTTCCATTTTTTCCGAAT
* * * * * *
555 AAATTTATAATTAAATCGAAACAAGATTGACATGCTTGAAAAAACAAATCC---------TTATA
194 TAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATA
* * * * * *
611 TCCAATATT-GCCGAGATTTGCTTCGATGAATATAGATATTTCAAGGAGTCTTTTCGGCAAAAAT
259 TCCAATATTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAAT
675 CATGCAAA
324 CATGCAAA
* * *
683 ATTGAG-CTTGCGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATG---CGTACACGATTTCGG
1 ATTGAGTC-GGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGG
* *
744 CAAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAAT
65 CTAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
* * *
809 CCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCATTTATTTTTCCGA
130 TCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA--T-TTTTTCCGA
* * *
874 ATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATTTGAGTTA
192 ATTAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTA
* * *
939 TATCCAATATT-GTTGAGATTT-GTTTCGATGAATATAGATATTTCATGGAGTCTTTGCGCCAAA
257 TATCCAATATTGGCTGAGATTTGGTTT-GATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAA
1002 AATCATGCAAA
321 AATCATGCAAA
*
1013 ATTGAGTTCGGGGCTCCAGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGG
1 ATTGAG-TCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGG
* * * *
1078 CAAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAAT
65 CTAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
*
1143 TCAACGCCAAAAACATTGATGGGCTTTTCACACTTCTAATATCGTTTTTCCATTTTTTTCCGAAT
130 TCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA-TTTTTTCCGAAT
* * *
1208 TAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCC---------TTATA
194 TAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATA
* *
1264 TCCAATA-TGGCTGAGATTTGGTTTGATGAATATAGATATTTCAAGGAGTCCTTGCGCCAAAAAT
259 TCCAATATTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAAT
1328 CATGCAAA
324 CATGCAAA
* *
1336 TTTGAGTCGAGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATTGATTAGTACACGATTTCGG
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGA-TGATTAGTACACGATTTCGG
1401 CTAAAAACTGACCCGAAAAGTATTTTCTCAAATTTTTTGCCACAATACACAGAAAAAATATATAA
65 CTAAAAACTGACCCGAAAAGTATTTTCTC-AATTTTTTGCCACAATACACAGAAAAAATATATAA
*
1466 TTCAACGCCAAAAATATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAAT
129 TTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAAT
1531 TAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAAACAAATCCTTATATAAGTTAT
194 TAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCG-AAAAAACAAATCCTTATATAAGTTAT
*
1596 ATTCAATATGGCTAAAATTTAATTTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAA
258 A-TC-------C---AA--T-A-TTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAG
1661 TCTTTGCGCCAAAAATCATGCAAA
308 TCTTTGCGCCAAAAATCATGCAAA
*
1685 ATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
1750 T-AAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAATT
66 TAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAATT
*
1814 CAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAATTA
131 CAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAATTA
* * *
1879 ATCTCTAATTAAATCGAAACAAGATTGGGATGCTCGAAAAAACAAATCCTTATATGAGTTATATC
196 ATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATATC
*
1944 CAATATT-GTTGAGATTT-GTTTCGATGAATATATAGATATTTTAAGGAGTCTTTGCGCCAAAAA
261 CAATATTGGCTGAGATTTGGTTT-GATG-A-ATATAGATATTTTAAGGAGTCTTTGCGCCAAAAA
2007 TCATGCAAA
323 TCATGCAAA
* * *
2016 ATTGAGTCGGGGCTCCGGAACACGTTTTTAACCAAAAACCGTGATGATTAGTACACGATTTCGGT
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
* * * * *
2081 TAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAATTATATAAT
66 TAAAAACTGACCCGAAAA-GTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
* * ** *
2146 TCAACGCCAAAAACATTGATGGGCTTTTC-CGA--ATTAATCTC-TAATT-CA---ATT-CGAAA
130 TCAACGCCAAAAACATTGATGGGCTTTTCAC-ACTTTTAATATCGTTTTTCCATTTTTTCCG-AA
** *** ** * * * *** *
2202 CAAGAT-TGGGA-T-GCTCGAAA-AAACA---A-ATCCT-TATATGAGTTATATCC--A-AT-A-
193 TTA-ATCTCTAATTAAATCGAAACAAA-ATTGAGATGCTCGA-A-AAAACAAATCCTTATATAAG
* * * ** **
2253 TTGT-T-GAGAT-TT-GTTTCGA--T-GAAT-AT--A----GATATTTTAAGGAGTCTTTGCGCC
254 TTATATCCA-ATATTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCC
2304 AAAAATCATGCAAA
318 AAAAATCATGCAAA
*
2318 ATTGAGTCGGGGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGATTATAGTACACGATTTCG
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGA-T-TAGTACACGATTTCG
* * * * *
2383 GCTAAAAACTTACCCGAAAATTTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAA
64 GCTAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAA
*
2448 TTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAACATCGTTTTTCCATTTTTTTTCCGA
129 TTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA--TTTTTTCCGA
* ** * * *
2513 ATTAATTTCTAATTAAATCGAAACAAGGTTGAGAAGCTCGAAAAAACAAATCATTATATGAGTTA
192 ATTAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTA
2578 TATCCAATATGGCTAAATCTAATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAG
257 TAT-C-------C--AA--T-AT-TGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAG
2643 TCTTTGCGCCAAAAATCATGCAAA
308 TCTTTGCGCCAAAAATCATGCAAA
* * *
2667 ATTGAGGT-GGGTCTCTGGAACGTGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGG
1 ATTGA-GTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGG
* * * ** * * * * *
2731 CTTAAAATTGACCCGAAAAATGGTTTCTTAAATTTTTGCCACAATTCTCAGAAAAAATATGTAAT
65 CTAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
* * * *
2796 TCAATGCCAAAAAAATTGATGGGCTTGTCACACTTTTAATATCGTTTATCCATTTTTTTCCGAAT
130 TCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA-TTTTTTCCGAAT
* ** * * *
2861 TAATCTCTAATTATATCGAAACAAGTTTAAGATGCTCGAAAAAACAAATCCTTATTTGAGTTATA
194 TAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATA
* * * *
2926 TCCAATATT-GCTGAGATTT-GTTTCGATGAATATAGATATTTCAATGAGTCTTTTCGGCAAAAA
259 TCCAATATTGGCTGAGATTTGGTTT-GATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAA
2989 TCATGCAAA
323 TCATGCAAA
* * * *
2998 ATTGAGTTGGGGCTCCGGAACGCGTTTTTAGCTAAAAACCGTGATGGTTAGTACATGATTTCGGC
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
* * * * *
3063 AAAAAACTGACCCGAAAATTCTTTTCTAAATTTTTTGCCACAATACTCAGAAAAAATATATAATT
66 TAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAATT
* *
3128 CAACGCCAAAAACATTTATGGGCTTTTCACACTTTTAACATCGTTTTTCCATTTTTTCCGAATTA
131 CAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAATTA
* * * *
3193 ATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAAACCTTATATGAGTTATATC
196 ATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATAT-
* *
3258 CAATATGGCTAAATTCTAATATGGCTGAGATTTGGTTTGATTAATATAAATATTTTAAGGAGTCT
260 C-------C--AA---T-AT-TGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCT
3323 TTGCGCCAAAAATCATGCAAA
311 TTGCGCCAAAAATCATGCAAA
* * * * * * * *
3344 ATTTAGTTGTGGCTACAGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGGACACAATTTCGG-
1 ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
* *
3408 TAAAAAACGGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAAT
66 T-AAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAAT
* ** * * * *
3473 TCAACGCCAAAAAGATTGGCGGGTTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCTGAAT
130 TCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA-TTTTTTCCGAAT
* * *
3537 TAATTTCTAATTAAATCAAAACAAGATTG
194 TAATCTCTAATTAAATCGAAACAAAATTG
3566 CCAATATCGT
Statistics
Matches: 2513, Mismatches: 230, Indels: 254
0.84 0.08 0.08
Matches are distributed among these distances:
302 84 0.03
303 74 0.03
304 34 0.01
305 6 0.00
306 4 0.00
307 2 0.00
310 2 0.00
311 2 0.00
312 10 0.00
313 3 0.00
314 14 0.01
315 5 0.00
316 3 0.00
317 7 0.00
318 114 0.05
319 9 0.00
320 15 0.01
321 100 0.04
322 40 0.02
323 169 0.07
324 108 0.04
325 3 0.00
326 7 0.00
327 2 0.00
328 4 0.00
329 17 0.01
330 157 0.06
331 358 0.14
332 80 0.03
333 80 0.03
334 131 0.05
335 1 0.00
336 2 0.00
337 2 0.00
338 3 0.00
339 4 0.00
340 2 0.00
341 2 0.00
342 2 0.00
343 3 0.00
344 6 0.00
345 36 0.01
346 450 0.18
347 150 0.06
348 23 0.01
349 181 0.07
350 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (331 bp):
ATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGC
TAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAATT
CAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTCCGAATTA
ATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAACAAATCCTTATATAAGTTATATC
CAATATTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCA
TGCAAA
Found at i:2422 original size:982 final size:989
Alignment explanation
Indices: 614--4198 Score: 4553
Period size: 982 Copynumber: 3.5 Consensus size: 989
604 CCTTATATCC
* * * * * * *
614 AATATTGCCGAGATTTGCTTCGATGAATATAGATATTTCAAGGAGTCTTTTCGGCAAAAATCATG
1 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
** * *
679 CAAAATTGAGCTTGCGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATG-CGTACACGATTTCG
66 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGTAGTACACGATTTCG
*
743 GCAAAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
131 GCATAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
*
808 TCCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCATTTATTTTTCCG
196 TTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCA-TT-TTTTTCCG
*
873 AATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATTTGAGTT
259 AATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTT
* *
938 ATATCCAATATTGTTGAGATTTGTTTCGATGAATATAGATATTTCATGGAGTCTTTGCGCCAAAA
324 ATATCCAATATTGCTGAGATTTGTTTCGATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAA
*
1003 ATCATGCAAAATTGAGTTCGGGGCTCCAGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTAC
389 ATCATGCAAAATTGAG-TCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTAC
*
1068 ACGATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
453 ACGATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAA
*
1133 AATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTCTAATATCGTTTTTCCATTT
518 AATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTT-T-A-A-C---ATTCC----
*
1198 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCC----
572 --TTCC--A-TAATTTCTAATT--ATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTAT
* * *
1259 -----TTATATCCAATATGGCTGAGATTTGGTTTGATGAATATAGATATTTCAAGGAGTCCTTGC
630 ATGAGTTATATCCAATATTGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGC
*
1319 GCCAAAAATCATGCAAATTTGAGTCGAGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATTGA
695 GCCAAAAATCATGCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGA-TGA
1384 TTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTATTTTCTCAAATTTTTTGCCACAATAC
759 TTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTATTTTCTCAAA-TTTTTGCCACAATAC
* *
1449 ACAGAAAAAATATATAATTCAACGCCAAAAATATTGATGGGCTTTTCACACTTTTAATATCGTTT
823 TCAGAAAAAATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTT
* *
1514 TTCCA-TTTTTTCCGAATTAATCTCTAATTAAATCGAAACAAAATTGAGATGCTCGAAAAAAACA
888 TTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAACA
* * *
1578 AATCCTTATATAAGTTATATTCAATATGGCTAAAATTT
953 AATCATTATATAAGTTATATACAATATGGCT-AAATCT
* *
1616 AATTTGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAATCTTTGCGCCAAAAATCATG
1 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
1681 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTT
66 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATG--TAGTACACGATTT
*
1746 CGGC-TAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATAT
129 CGGCATAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
*
1810 AATTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA-TTTTTTCCG
194 AATTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCATTTTTTTCCG
*
1874 AATTAATCTCTAATTAAATCGAAACAAGATTGGGATGCTCGAAAAAACAAATCCTTATATGAGTT
259 AATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTT
* *
1939 ATATCCAATATTGTTGAGATTTGTTTCGATGAATATATAGATATTTTAAGGAGTCTTTGCGCCAA
324 ATATCCAATATTGCTGAGATTTGTTTCGATG-A-ATATAGATATTTCAAGGAGTCTTTGCGCCAA
* *
2004 AAATCATGCAAAATTGAGTCGGGGCTCCGGAACACGTTTTTAACCAAAAACCGTGATGATTAGTA
387 AAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTA
** * *
2069 CACGATTTCGGTTAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGGCACAATACTCAGAA
452 CACGATTTCGGCAAAAAACTGACCCGAAAA-TTTTTTTCTAAATTTTTTGCCACAATACTCAGAA
* *
2134 AAATTATATAATTCAACGCCAAAAACATTGATGGGCTTTTC-CGA-ATT-A-A-T-C-T-C-TAA
516 AAAATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCAC-ACTTTAACATTCCTTCCATAA
*
2190 -TTC-AA-T-TCGAAACAAGATTGGGATGCTCGAAAAAACAAATCCTTATATGAGTTATATCCAA
580 TTTCTAATTATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTTATATCCAA
*
2251 TATTGTTGAGATTT-GTTTCGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATGC
645 TATTGCTGAGATTTGGTTT-GATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATGC
* *
2315 AAAATTGAGTCGGGGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGATTATAGTACACGATT
709 AAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGA-T-TAGTACACGATT
* * *
2380 TCGGCTAAAAACTTACCCGAAAATTTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATA
772 TCGGCTAAAAACTGACCCGAAAAGTATTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATA
*
2445 TAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAACATCGTTTTTCCATTTTTTTTC
837 TAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCA-TTTTTTTC
* * *
2510 CGAATTAATTTCTAATTAAATCGAAACAAGGTTGAGAAGCTCG-AAAAAACAAATCATTATATGA
901 CGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAACAAATCATTATATAA
*
2574 GTTATATCCAATATGGCTAAATCT
966 GTTATATACAATATGGCTAAATCT
2598 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
1 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
** * * *
2663 CAAAATTGAGGTGGGTCTCTGGAACGTGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTT
66 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATG--TAGTACACGATTT
* * * ** * * * *
2728 CGGCTTAAAATTGACCCGAAAAATGGTTTCTTAAATTTTTGCCACAATTCTCAGAAAAAATATGT
129 CGGCATAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
* * *
2793 AATTCAATGCCAAAAAAATTGATGGGCTTGTCACACTTTTAATATCGTTTATCCATTTTTTTCCG
194 AATTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCATTTTTTTCCG
* * * *
2858 AATTAATCTCTAATTATATCGAAACAAGTTTAAGATGCTCGAAAAAACAAATCCTTATTTGAGTT
259 AATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTT
* * *
2923 ATATCCAATATTGCTGAGATTTGTTTCGATGAATATAGATATTTCAATGAGTCTTTTCGGCAAAA
324 ATATCCAATATTGCTGAGATTTGTTTCGATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAA
* * *
2988 ATCATGCAAAATTGAGTTGGGGCTCCGGAACGCGTTTTTAGCTAAAAACCGTGATGGTTAGTACA
389 ATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACA
* *
3053 TGATTTCGGCAAAAAACTGACCCGAAAATTCTTTTCTAAATTTTTTGCCACAATACTCAGAAAAA
454 CGATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAAA
*
3118 ATATATAATTCAACGCCAAAAACATTTATGGGCTTTTCACACTTTTAACATCGTTTTTCCATTTT
519 ATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACAC-TTTAACA------TTCC-----
*
3183 TTCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAAACCTTATAT
572 TTCC--A-TAATTTCTAATT--ATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATAT
* *
3248 GAGTTATATCCAATATGGCTAAATTCTAATATGGCTGAGATTTGGTTTGATTAATATAAATATTT
632 GAGTTATAT-C-------C--AA---T-AT-T-GCTGAGATTTGGTTTGATGAATATAGATATTT
* * * * *
3313 TAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTTAGTTGTGGCTACAGAACGCGTTTTTAGCCA
681 TAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAGCCA
* * * * *
3378 AAAACCGTGATGGTTAGGACACAATTTCGG-TAAAAAACGGACCCGAAAAGTATTTTCTCAATTT
746 AAAACCGTGATGATTAGTACACGATTTCGGCT-AAAAACTGACCCGAAAAGTATTTTCTCAAATT
* ** * *
3442 TTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGGCGGGTTTTTCACGCT
810 TTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACACT
* * *
3507 TCTAATATCG-TTTTCCATTTTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTGCCAAT
875 TTTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTG-----
* * ** * *
3571 ATCGTTATCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTGAGAAGCTTGTAA
935 A--G--ATGC-------TC-G----AA-----AA--AAA-CAAATCATTA-T-ATAAG--T-TAT
* * * *
3636 AAACAA-AT-CCTTATATCC
971 ATACAATATGGC-TAAATCT
* *
3654 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCCTTGCGCTAAAAATCATG
1 AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
* *
3719 CAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGTAGTACACGATTTCG
66 CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGTAGTACACGATTTCG
* * * *
3784 GC-TAAAAACTAACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATA
131 GCAT-AAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATA
* *
3848 ATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCATTT-TACCA-TTTTTTCCG
195 ATTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTAT-CCATTTTTTTCCG
* * * *
3911 AATTAATTTCTTATTAAATGGAAACAAGATTGAGATGCTCGAAAAAACAAAACCTTATATGAGTT
259 AATTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTT
*
3976 ATATCCAATATGGCTAAAATCTAATATGGCTGAGATTTGGTTT-GATGAATATAGATATTTTAAG
324 ATAT-C-------C---AA--T-AT-T-GCTGAGATTT-GTTTCGATGAATATAGATATTTCAAG
**
4040 GAGTCTTTGCGCCAAAAATCATGCAAAATTGAACCGGGGCTCCGGAACGCGTTTTTAGCCAAAAA
372 GAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAA
4105 CCGTGA-GAATTAGTACACGATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTG
437 CCGTGATG-ATTAGTACACGATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTG
*
4169 CCCCAATACTCAGAAAAAATATATAATTCA
501 CCACAATACTCAGAAAAAATATATAATTCA
4199 CCTGTTTTGA
Statistics
Matches: 2275, Mismatches: 181, Indels: 187
0.86 0.07 0.07
Matches are distributed among these distances:
973 34 0.01
976 1 0.00
977 2 0.00
978 3 0.00
979 3 0.00
981 78 0.03
982 439 0.19
983 187 0.08
984 147 0.06
985 1 0.00
991 1 0.00
992 2 0.00
993 1 0.00
998 1 0.00
999 1 0.00
1000 1 0.00
1001 103 0.05
1002 179 0.08
1003 121 0.05
1004 114 0.05
1005 18 0.01
1006 2 0.00
1007 1 0.00
1010 49 0.02
1011 1 0.00
1018 1 0.00
1020 2 0.00
1022 39 0.02
1023 9 0.00
1024 111 0.05
1025 2 0.00
1026 95 0.04
1027 5 0.00
1029 1 0.00
1031 2 0.00
1038 2 0.00
1039 1 0.00
1044 1 0.00
1049 2 0.00
1051 3 0.00
1052 7 0.00
1053 73 0.03
1054 119 0.05
1055 1 0.00
1056 115 0.05
1057 6 0.00
1061 1 0.00
1064 2 0.00
1066 1 0.00
1067 2 0.00
1068 2 0.00
1069 176 0.08
1070 4 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (989 bp):
AATATGGCTGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATG
CAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGTAGTACACGATTTCG
GCATAAAACTGACCCGAAAAGTATTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
TTCAACGCCAAAAAGATTGATGGGCTTTTCACACTTTTAATATCGTTTATCCATTTTTTTCCGAA
TTAATCTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTTAT
ATCCAATATTGCTGAGATTTGTTTCGATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAAT
CATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACG
ATTTCGGCAAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAAAAT
ATATAATTCAACGCCAAAAACATTGATGGGCTTTTCACACTTTAACATTCCTTCCATAATTTCTA
ATTATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATGAGTTATATCCAATATTGC
TGAGATTTGGTTTGATGAATATAGATATTTTAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTG
AGTCGAGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAA
AACTGACCCGAAAAGTATTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
GCCAAAAACATTGATGGGCTTTTCACACTTTTAATATCGTTTTTCCATTTTTTTCCGAATTAATT
TCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAACAAATCATTATATAAGTTATATACA
ATATGGCTAAATCT
Found at i:3600 original size:58 final size:58
Alignment explanation
Indices: 3510--3623 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
3500 TCACGCTTCT
* *
3510 AATATCGTTTTCCATTTTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTGCC
1 AATATCGTTATCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTGCC
3568 AATATCGTTATCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTG
1 AATATCGTTATCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTG
3624 AGAAGCTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (58 bp):
AATATCGTTATCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAGATTGCC
Found at i:11330 original size:78 final size:78
Alignment explanation
Indices: 11201--11594 Score: 752
Period size: 78 Copynumber: 5.1 Consensus size: 78
11191 TGCATCGGTG
*
11201 TGCCTTTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
1 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
11266 TGTATAATAGGAA
66 TGTATAATAGGAA
11279 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
1 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
11344 TGTATAATAGGAA
66 TGTATAATAGGAA
*
11357 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTAA
1 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
11422 TGTATAATAGGAA
66 TGTATAATAGGAA
* *
11435 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCAGAGGCACCATTATACCTTAA
1 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
11500 TGTATAATAGGAA
66 TGTATAATAGGAA
11513 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
1 TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
11578 TGTATAATAGGAA
66 TGTATAATAGGAA
11591 TGCC
1 TGCC
11595 ATGTTACACG
Statistics
Matches: 311, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 311 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (78 bp):
TGCCTCTAACTGCATATTAAGAATTCCCACAACCAACTTTACTCGGAGGCACCATTATACCTTGA
TGTATAATAGGAA
Found at i:11726 original size:52 final size:52
Alignment explanation
Indices: 11615--11758 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
11605 TTTTAAATAT
*
11615 TTATTTGCACCATTACACC-TAGACTA-TGTAATAGGAATGCACTGTATAACTT
1 TTATTTGCACCATTACACCTTA-AC-AGTGTAATAGGAATGCACTGTATAACTC
* * *
11667 TTGTTTGCACCATTACACCTTTAACAGTGTAATAGGAATGCA-TTTATGACTC
1 TTATTTGCACCATTACACC-TTAACAGTGTAATAGGAATGCACTGTATAACTC
* * *
11719 TTATTTGCACCATTATACCTTAA-TGTATAATAGGAATGCA
1 TTATTTGCACCATTACACCTTAACAGTGTAATAGGAATGCA
11759 ACGTTGTGCC
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 15 0.19
51 4 0.05
52 43 0.53
53 17 0.21
54 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (52 bp):
TTATTTGCACCATTACACCTTAACAGTGTAATAGGAATGCACTGTATAACTC
Found at i:18163 original size:2 final size:2
Alignment explanation
Indices: 18156--18180 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18146 TTAAGTCTTA
18156 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 A
18181 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20854 original size:12 final size:12
Alignment explanation
Indices: 20833--20862 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20823 ATGGAGAAGA
20833 GGGGGG-GGGGG
1 GGGGGGTGGGGG
20844 GGGGGGTGGGGG
1 GGGGGGTGGGGG
20856 GGGGGGT
1 GGGGGGT
20863 ACTGCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.00, C:0.00, G:0.93, T:0.07
Consensus pattern (12 bp):
GGGGGGTGGGGG
Found at i:49945 original size:17 final size:17
Alignment explanation
Indices: 49923--49960 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
49913 CAAACCACCT
*
49923 AACAAACAAAGATAGGA
1 AACAAACAAAGATAAGA
*
49940 AACAAAGAAAGATAAGA
1 AACAAACAAAGATAAGA
49957 AACA
1 AACA
49961 TTCACAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.16, T:0.05
Consensus pattern (17 bp):
AACAAACAAAGATAAGA
Found at i:52694 original size:19 final size:19
Alignment explanation
Indices: 52660--52700 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
52650 TTTGGAGAAT
* *
52660 ATTTTCCATTTATAGGGAA
1 ATTTTCCATTGATAGGAAA
*
52679 ATTTTCCATTGCTAGGAAA
1 ATTTTCCATTGATAGGAAA
52698 ATT
1 ATT
52701 GAAATGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTTTCCATTGATAGGAAA
Found at i:55964 original size:19 final size:20
Alignment explanation
Indices: 55937--55974 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
55927 ATTCAAAACA
55937 AAATAAAAACTACCCATTAT
1 AAATAAAAACTACCCATTAT
55957 AAAT-AAAACTACCCATTA
1 AAATAAAAACTACCCATTA
55975 GAGGATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAAAAACTACCCATTAT
Found at i:56723 original size:31 final size:31
Alignment explanation
Indices: 56688--56795 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 31
56678 AATGGCTGAT
*
56688 TGCTCAAATAAGAGCCTAACGTTTTCCAAAA
1 TGCTCAAATAAGGGCCTAACGTTTTCCAAAA
* * * **
56719 TGCTCAAAAAAGGGCCCGATC-TTTT--AATT
1 TGCTCAAATAAGGG-CCTAACGTTTTCCAAAA
*
56748 TGGC-CAAATAAGGGCCTAACGTTTGCCAAAA
1 T-GCTCAAATAAGGGCCTAACGTTTTCCAAAA
*
56779 TTCTCAAATAAGGGCCT
1 TGCTCAAATAAGGGCCT
56796 GGCATCGAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
28 4 0.07
29 15 0.26
30 3 0.05
31 32 0.55
32 4 0.07
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (31 bp):
TGCTCAAATAAGGGCCTAACGTTTTCCAAAA
Found at i:56905 original size:60 final size:59
Alignment explanation
Indices: 56839--56997 Score: 221
Period size: 60 Copynumber: 2.6 Consensus size: 59
56829 ATGTCAGGCT
* *
56839 CTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGGATC
1 CTTATTTGAGCATTTT-GCAAATGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGGACC
* * *
56899 CTTATTTGAGCATTTT-CAATAATATTAGGCCCTTATTTGGTCAAATTAAAAGATCGGGCC
1 CTTATTTGAGCATTTTGC-A-AATGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGGACC
*
56959 CTTATTTGAGCATTTTGACAAATGTTAGACCCTTATTTG
1 CTTATTTGAGCATTTTG-CAAATGTTAGGCCCTTATTTG
56998 AGCAATTAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 84 0.95
61 1 0.01
62 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (59 bp):
CTTATTTGAGCATTTTGCAAATGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGGACC
Found at i:56936 original size:31 final size:29
Alignment explanation
Indices: 56898--57001 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 29
56888 AAGATCGGAT
56898 CCTTATTTGAGCATTTTCAATAATATTAGGC
1 CCTTATTTGAGCATTTT-AA-AATATTAGGC
** * **
56929 CCTTATTTG-GTCAAATTAAAAGATCGGGC
1 CCTTATTTGAG-CATTTTAAAATATTAGGC
* *
56958 CCTTATTTGAGCATTTTGACAAATGTTAGAC
1 CCTTATTTGAGCATTTT-A-AAATATTAGGC
56989 CCTTATTTGAGCA
1 CCTTATTTGAGCA
57002 ATTAGCCAGG
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 20 0.35
30 5 0.09
31 32 0.56
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (29 bp):
CCTTATTTGAGCATTTTAAAATATTAGGC
Found at i:56963 original size:29 final size:28
Alignment explanation
Indices: 56866--56966 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 28
56856 GCAAACGTTA
56866 GGCCCTTATTTGGCCAAATTAAAAGATCG
1 GGCCCTTATTTGG-CAAATTAAAAGATCG
** ** * **
56895 GATCCTTATTTGAGCATTTTCAATAATATTA
1 GGCCCTTATTTG-GCAAATT-AA-AAGATCG
56926 GGCCCTTATTTGGTCAAATTAAAAGATCG
1 GGCCCTTATTTGG-CAAATTAAAAGATCG
56955 GGCCCTTATTTG
1 GGCCCTTATTTG
56967 AGCATTTTGA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
29 30 0.56
30 6 0.11
31 18 0.33
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (28 bp):
GGCCCTTATTTGGCAAATTAAAAGATCG
Done.