Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007642.1 Hibiscus syriacus cultivar Beakdansim tig00024296_pilon, 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: 74908
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:81 original size:14 final size:14
Alignment explanation
Indices: 1--945 Score: 244
Period size: 13 Copynumber: 71.4 Consensus size: 14
*
1 ACCCTAAACCCT-A
1 ACCCTGAACCCTGA
*
14 ACCCT-AAACCT-A
1 ACCCTGAACCCTGA
* *
26 AACCTAAACCCT-A
1 ACCCTGAACCCTGA
39 ACCCT-AACCCT-A
1 ACCCTGAACCCTGA
*
51 ACCCT-AAACCT-A
1 ACCCTGAACCCTGA
* *
63 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
*
77 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
* *
90 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
104 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
118 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
132 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
146 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
*
160 ACCCTAAACCCT-A
1 ACCCTGAACCCTGA
* *
173 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
187 ACCCT-AAACCTAA
1 ACCCTGAACCCTGA
200 ACCCT-AACCCT-A
1 ACCCTGAACCCTGA
*
212 ACCCTAAACCCT-A
1 ACCCTGAACCCTGA
*
225 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
* *
238 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
252 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
*
266 ACCCTAAACCCT-A
1 ACCCTGAACCCTGA
* *
279 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
*
293 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
* *
306 ACCCT-AA-ACTAA
1 ACCCTGAACCCTGA
318 ACCCT-AA-CCT-A
1 ACCCTGAACCCTGA
* * *
329 A-ACTAAACCCTAA
1 ACCCTGAACCCTGA
* *
342 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
356 ACCCT-AAACCTAA
1 ACCCTGAACCCTGA
* *
369 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
383 ACCCTAAACCCTAAA
1 ACCCTGAACCCT-GA
* *
398 ACCCCCT-AAACCTAA
1 A--CCCTGAACCCTGA
413 ACCCT-AACCCT-A
1 ACCCTGAACCCTGA
425 ACCCT-AACCCCT-A
1 ACCCTGAA-CCCTGA
*
438 ACCCT-AAGCCT-A
1 ACCCTGAACCCTGA
450 AGCCCT-AACCCT-A
1 A-CCCTGAACCCTGA
463 ACCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGA
* *
476 AGCCTAAGCACGCCCT-A
1 ACCCT--G-A-ACCCTGA
*
493 AGCCCT-AA-GCT-A
1 A-CCCTGAACCCTGA
505 AGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGA
*
519 AGCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGA
532 AGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGA
546 AGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGA
560 ACCCT---CCCT-A
1 ACCCTGAACCCTGA
* *
570 ACCCTAAAGCCCTAA
1 ACCCTGAA-CCCTGA
585 ACCCT-AACCCT-A
1 ACCCTGAACCCTGA
* *
597 AACCT-AAGCCCTAA
1 ACCCTGAA-CCCTGA
*
611 ACCCT-AAGCCCTAA
1 ACCCTGAA-CCCTGA
*
625 ACCCT-AAACCT-A
1 ACCCTGAACCCTGA
* *
637 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
651 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
*
665 ACCCTAAACCCT-A
1 ACCCTGAACCCTGA
* *
678 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
* *
692 ACCCCTAAACCCTAA
1 A-CCCTGAACCCTGA
* *
707 ACCCT-AAACCTAA
1 ACCCTGAACCCTGA
*
720 ACCCT-AACCC-AA
1 ACCCTGAACCCTGA
* *
732 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
746 ACCCCT-AACCCT-A
1 A-CCCTGAACCCTGA
759 ACCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGA
772 AGCCCT-AAGCCCT--
1 A-CCCTGAA-CCCTGA
*
785 AGCCT-AACCCT-A
1 ACCCTGAACCCTGA
797 AGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGA
*
811 AGCCCT-AAGCCT-A
1 A-CCCTGAACCCTGA
*
824 AGCCCT-AAGCCT-A
1 A-CCCTGAACCCTGA
*
837 AGCCCT-AAGCCT-A
1 A-CCCTGAACCCTGA
*
850 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
863 ACCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGA
* *
876 AGCCT-AACCCTAA
1 ACCCTGAACCCTGA
* *
889 ACCCTAAACCCTAA
1 ACCCTGAACCCTGA
903 ACCCT-AACCCT-A
1 ACCCTGAACCCTGA
*
915 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
*
928 ACCCT-AACCCTAA
1 ACCCTGAACCCTGA
941 ACCCT
1 ACCCT
946 AAGCCCTAAG
Statistics
Matches: 841, Mismatches: 38, Indels: 106
0.85 0.04 0.11
Matches are distributed among these distances:
10 12 0.01
11 8 0.01
12 148 0.18
13 320 0.38
14 304 0.36
15 30 0.04
16 5 0.01
17 11 0.01
18 3 0.00
ACGTcount: A:0.38, C:0.44, G:0.03, T:0.15
Consensus pattern (14 bp):
ACCCTGAACCCTGA
Found at i:108 original size:21 final size:21
Alignment explanation
Indices: 1--945 Score: 244
Period size: 20 Copynumber: 47.6 Consensus size: 21
*
1 ACCCTAAACCCT-AACCCT-A
1 ACCCTGAACCCTGAACCCTGA
* * *
20 AACCT-AAACCTAAACCCT-A
1 ACCCTGAACCCTGAACCCTGA
39 ACCCT-AACCCT-AACCCT-A
1 ACCCTGAACCCTGAACCCTGA
* * *
57 AACCT-AACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* *
77 ACCCT-AACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
97 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
118 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
139 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* *
160 ACCCTAAACCCT-AACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
180 ACCCTAAACCCT-AAACCTAA
1 ACCCTGAACCCTGAACCCTGA
*
200 ACCCT-AACCCT-AACCCTAA
1 ACCCTGAACCCTGAACCCTGA
*
219 ACCCT-AACCCT-AACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
238 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* *
259 ACCCTAAACCCTAAACCCT-A
1 ACCCTGAACCCTGAACCCTGA
* *
279 ACCCTAAACCCTAAACCCT-A
1 ACCCTGAACCCTGAACCCTGA
* * *
299 ACCCTAAACCCT-AA-ACTAA
1 ACCCTGAACCCTGAACCCTGA
* *
318 ACCCT-AA-CCT-AA-ACTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
335 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
356 ACCCT-AAACCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* * *
376 ACCCTAAACCCTAAACCCTAAA
1 ACCCTGAACCCTGAACCCT-GA
* *
398 ACCCCCT-AAACCTAAACCCT-A
1 A--CCCTGAACCCTGAACCCTGA
419 ACCCT-AACCCT-AACCCCT-A
1 ACCCTGAACCCTGAA-CCCTGA
*
438 ACCCT-AAGCCT-AAGCCCT-A
1 ACCCTGAACCCTGAA-CCCTGA
457 ACCCT-AACCCT-AAGCCCT-A
1 ACCCTGAACCCTGAA-CCCTGA
* *
476 AGCCTAAGCACGCCCT-AAGCCCT-A
1 ACCCT--G-A-ACCCTGAA-CCCTGA
*
500 A-GCT-AAGCCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGAA-CCCTGA
*
519 AGCCT-AAGCCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGAA-CCCTGA
539 AGCCCT-AAGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGAA-CCCTGA
*
560 ACCCT---CCCT-AACCCTAA
1 ACCCTGAACCCTGAACCCTGA
*
577 AGCCCTAAACCCT-AACCCT-A
1 A-CCCTGAACCCTGAACCCTGA
* *
597 AACCT-AAGCCCTAAACCCT-A
1 ACCCTGAA-CCCTGAACCCTGA
* *
617 AGCCCTAAACCCT-AAACCT-A
1 A-CCCTGAACCCTGAACCCTGA
* * *
637 ACCCTAAACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
* *
658 ACCCTAAACCCTAAACCCT-A
1 ACCCTGAACCCTGAACCCTGA
* * *
678 ACCCTAAACCCTAAACCCCTAA
1 ACCCTGAACCCTGAA-CCCTGA
* * *
700 ACCCTAAACCCT-AAACCTAA
1 ACCCTGAACCCTGAACCCTGA
* *
720 ACCCT-AACCC-AAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
*
739 ACCCTAAACCCCT-AACCCT-A
1 ACCCTGAA-CCCTGAACCCTGA
759 ACCCT-AAGCCCT-AAGCCCT-A
1 ACCCTGAA-CCCTGAA-CCCTGA
*
779 AGCCCT--AGCCT-AACCCT-A
1 A-CCCTGAACCCTGAACCCTGA
797 AGCCCT-AAGCCCT-AAGCCCT-A
1 A-CCCTGAA-CCCTGAA-CCCTGA
* *
818 AGCCT-AAGCCCT-AAGCCT-A
1 ACCCTGAA-CCCTGAACCCTGA
*
837 AGCCCT-AAGCCT-AACCCT-A
1 A-CCCTGAACCCTGAACCCTGA
*
856 ACCCTAAACCCT-AAGCCCT-A
1 ACCCTGAACCCTGAA-CCCTGA
* * *
876 AGCCT-AACCCTAAACCCTAA
1 ACCCTGAACCCTGAACCCTGA
*
896 ACCCTAAACCCT-AACCCT-A
1 ACCCTGAACCCTGAACCCTGA
*
915 ACCCT-AACCCTAAACCCT-A
1 ACCCTGAACCCTGAACCCTGA
*
934 ACCCTAAACCCT
1 ACCCTGAACCCT
946 AAGCCCTAAG
Statistics
Matches: 832, Mismatches: 40, Indels: 107
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.00
17 23 0.03
18 57 0.07
19 240 0.29
20 252 0.30
21 206 0.25
22 18 0.02
23 15 0.02
24 17 0.02
ACGTcount: A:0.38, C:0.44, G:0.03, T:0.15
Consensus pattern (21 bp):
ACCCTGAACCCTGAACCCTGA
Found at i:952 original size:7 final size:7
Alignment explanation
Indices: 2--2374 Score: 2508
Period size: 7 Copynumber: 352.6 Consensus size: 7
1 A
*
2 CCCTAAA
1 CCCTAAG
9 CCCTAA-
1 CCCTAAG
15 CCCTAA-
1 CCCTAAG
*
21 ACCTAA-
1 CCCTAAG
* *
27 ACCTAAA
1 CCCTAAG
34 CCCTAA-
1 CCCTAAG
40 CCCTAA-
1 CCCTAAG
46 CCCTAA-
1 CCCTAAG
52 CCCTAA-
1 CCCTAAG
*
58 ACCTAA-
1 CCCTAAG
*
64 CCCTAAA
1 CCCTAAG
*
71 CCCTAAA
1 CCCTAAG
78 CCCTAA-
1 CCCTAAG
*
84 CCCTAAA
1 CCCTAAG
*
91 CCCTAAA
1 CCCTAAG
*
98 CCCTAAA
1 CCCTAAG
*
105 CCCTAAA
1 CCCTAAG
*
112 CCCTAAA
1 CCCTAAG
*
119 CCCTAAA
1 CCCTAAG
*
126 CCCTAAA
1 CCCTAAG
*
133 CCCTAAA
1 CCCTAAG
*
140 CCCTAAA
1 CCCTAAG
*
147 CCCTAAA
1 CCCTAAG
*
154 CCCTAAA
1 CCCTAAG
*
161 CCCTAAA
1 CCCTAAG
168 CCCTAA-
1 CCCTAAG
*
174 CCCTAAA
1 CCCTAAG
*
181 CCCTAAA
1 CCCTAAG
188 CCCTAA-
1 CCCTAAG
* *
194 ACCTAAA
1 CCCTAAG
201 CCCTAA-
1 CCCTAAG
207 CCCTAA-
1 CCCTAAG
*
213 CCCTAAA
1 CCCTAAG
220 CCCTAA-
1 CCCTAAG
226 CCCTAA-
1 CCCTAAG
*
232 CCCTAAA
1 CCCTAAG
*
239 CCCTAAA
1 CCCTAAG
*
246 CCCTAAA
1 CCCTAAG
*
253 CCCTAAA
1 CCCTAAG
*
260 CCCTAAA
1 CCCTAAG
*
267 CCCTAAA
1 CCCTAAG
274 CCCTAA-
1 CCCTAAG
*
280 CCCTAAA
1 CCCTAAG
*
287 CCCTAAA
1 CCCTAAG
294 CCCTAA-
1 CCCTAAG
*
300 CCCTAAA
1 CCCTAAG
307 CCCTAA-
1 CCCTAAG
* *
313 -ACTAAA
1 CCCTAAG
319 CCCTAA-
1 CCCTAAG
325 -CCTAA-
1 CCCTAAG
* *
330 -ACTAAA
1 CCCTAAG
*
336 CCCTAAA
1 CCCTAAG
*
343 CCCTAAA
1 CCCTAAG
*
350 CCCTAAA
1 CCCTAAG
357 CCCTAA-
1 CCCTAAG
* *
363 ACCTAAA
1 CCCTAAG
*
370 CCCTAAA
1 CCCTAAG
*
377 CCCTAAA
1 CCCTAAG
*
384 CCCTAAA
1 CCCTAAG
*
391 CCCTAAAACC
1 CCCT--AA-G
401 CCCTAA-
1 CCCTAAG
* *
407 ACCTAAA
1 CCCTAAG
414 CCCTAA-
1 CCCTAAG
420 CCCTAA-
1 CCCTAAG
*
426 CCCTAAC
1 CCCTAAG
433 CCCTAA-
1 CCCTAAG
439 CCCTAAG
1 CCCTAAG
446 -CCTAAG
1 CCCTAAG
452 CCCTAA-
1 CCCTAAG
458 CCCTAA-
1 CCCTAAG
464 CCCTAAG
1 CCCTAAG
471 CCCTAAG
1 CCCTAAG
478 -CCTAAG
1 CCCTAAG
*
484 --C-ACG
1 CCCTAAG
488 CCCTAAG
1 CCCTAAG
495 CCCTAAG
1 CCCTAAG
502 --CTAAG
1 CCCTAAG
507 CCCTAAG
1 CCCTAAG
514 CCCTAAG
1 CCCTAAG
521 -CCTAAG
1 CCCTAAG
527 CCCTAAG
1 CCCTAAG
534 CCCTAAG
1 CCCTAAG
541 CCCTAAG
1 CCCTAAG
548 CCCTAAG
1 CCCTAAG
555 CCCTAA-
1 CCCTAAG
561 CCCT---
1 CCCTAAG
565 CCCTAA-
1 CCCTAAG
571 CCCTAAAG
1 CCCT-AAG
*
579 CCCTAAA
1 CCCTAAG
586 CCCTAA-
1 CCCTAAG
592 CCCTAA-
1 CCCTAAG
*
598 ACCTAAG
1 CCCTAAG
*
605 CCCTAAA
1 CCCTAAG
612 CCCTAAG
1 CCCTAAG
*
619 CCCTAAA
1 CCCTAAG
626 CCCTAA-
1 CCCTAAG
*
632 ACCTAA-
1 CCCTAAG
*
638 CCCTAAA
1 CCCTAAG
*
645 CCCTAAA
1 CCCTAAG
*
652 CCCTAAA
1 CCCTAAG
*
659 CCCTAAA
1 CCCTAAG
*
666 CCCTAAA
1 CCCTAAG
673 CCCTAA-
1 CCCTAAG
*
679 CCCTAAA
1 CCCTAAG
*
686 CCCTAAAC
1 CCCT-AAG
*
694 CCCTAAA
1 CCCTAAG
*
701 CCCTAAA
1 CCCTAAG
708 CCCTAA-
1 CCCTAAG
* *
714 ACCTAAA
1 CCCTAAG
721 CCCTAA-
1 CCCTAAG
*
727 CCC-AAA
1 CCCTAAG
*
733 CCCTAAA
1 CCCTAAG
*
740 CCCTAAAC
1 CCCT-AAG
748 CCCTAA-
1 CCCTAAG
754 CCCTAA-
1 CCCTAAG
760 CCCTAAG
1 CCCTAAG
767 CCCTAAG
1 CCCTAAG
774 CCCTAAG
1 CCCTAAG
781 CCCT-AG
1 CCCTAAG
787 -CCTAA-
1 CCCTAAG
792 CCCTAAG
1 CCCTAAG
799 CCCTAAG
1 CCCTAAG
806 CCCTAAG
1 CCCTAAG
813 CCCTAAG
1 CCCTAAG
820 -CCTAAG
1 CCCTAAG
826 CCCTAAG
1 CCCTAAG
833 -CCTAAG
1 CCCTAAG
839 CCCTAAG
1 CCCTAAG
846 -CCTAA-
1 CCCTAAG
851 CCCTAA-
1 CCCTAAG
*
857 CCCTAAA
1 CCCTAAG
864 CCCTAAG
1 CCCTAAG
871 CCCTAAG
1 CCCTAAG
878 -CCTAA-
1 CCCTAAG
*
883 CCCTAAA
1 CCCTAAG
*
890 CCCTAAA
1 CCCTAAG
*
897 CCCTAAA
1 CCCTAAG
904 CCCTAA-
1 CCCTAAG
910 CCCTAA-
1 CCCTAAG
916 CCCTAA-
1 CCCTAAG
*
922 CCCTAAA
1 CCCTAAG
929 CCCTAA-
1 CCCTAAG
*
935 CCCTAAA
1 CCCTAAG
942 CCCTAAG
1 CCCTAAG
949 CCCTAAG
1 CCCTAAG
956 CCCTAAG
1 CCCTAAG
963 CCCTAA-
1 CCCTAAG
*
969 ACCTAAG
1 CCCTAAG
976 -CCTAAG
1 CCCTAAG
982 -CC-AAG
1 CCCTAAG
987 CCCTAAG
1 CCCTAAG
994 CCCTAAG
1 CCCTAAG
1001 CCCTAAG
1 CCCTAAG
1008 CCCTAAG
1 CCCTAAG
1015 CCCTAAG
1 CCCTAAG
1022 CCCTAAG
1 CCCTAAG
1029 CCCTAAG
1 CCCTAAG
1036 CCCTAAG
1 CCCTAAG
1043 CCCTAAAAAG
1 CCCT---AAG
1053 CCCT-AG
1 CCCTAAG
1059 CCCTAAG
1 CCCTAAG
1066 CCCTAAG
1 CCCTAAG
1073 CCCTAAG
1 CCCTAAG
1080 CCCTAAG
1 CCCTAAG
1087 CCCTAA-
1 CCCTAAG
1093 CCCTAAG
1 CCCTAAG
1100 CCCTAAG
1 CCCTAAG
1107 CCCTAAG
1 CCCTAAG
1114 CCCTAAG
1 CCCTAAG
1121 -CCTAAG
1 CCCTAAG
1127 -CCTAAG
1 CCCTAAG
1133 CCCTAAG
1 CCCTAAG
1140 CCCTAAG
1 CCCTAAG
1147 CCCTAAG
1 CCCTAAG
1154 CCCTAAG
1 CCCTAAG
1161 CCCTAAG
1 CCCTAAG
1168 CCCCCTAAG
1 --CCCTAAG
1177 CCCTAAG
1 CCCTAAG
1184 CCCTAAG
1 CCCTAAG
1191 CCCTAA-
1 CCCTAAG
1197 --CTAA-
1 CCCTAAG
1201 CCCTAA-
1 CCCTAAG
1207 CCCTAAG
1 CCCTAAG
1214 CCCTAAG
1 CCCTAAG
1221 CCCTAAAG
1 CCCT-AAG
1229 CCCTAAG
1 CCCTAAG
1236 CCCTAAG
1 CCCTAAG
1243 -CCTAAG
1 CCCTAAG
1249 CCCTAAG
1 CCCTAAG
1256 CCCTAAG
1 CCCTAAG
1263 CCCTAAG
1 CCCTAAG
1270 CCCTAAG
1 CCCTAAG
1277 CCCTAAG
1 CCCTAAG
1284 CCCTAAG
1 CCCTAAG
1291 CCCTAAG
1 CCCTAAG
1298 CCCTAAG
1 CCCTAAG
1305 CCCTAAG
1 CCCTAAG
1312 CCCTAAG
1 CCCTAAG
1319 CCCTAAG
1 CCCTAAG
1326 -CCTAAG
1 CCCTAAG
1332 CCCTAA-
1 CCCTAAG
1338 CCCTAAG
1 CCCTAAG
1345 CCCTAAG
1 CCCTAAG
1352 CCCTAAG
1 CCCTAAG
1359 -CCTAAG
1 CCCTAAG
1365 CCCTAAG
1 CCCTAAG
1372 CCCTAA-
1 CCCTAAG
1378 CCCTAAG
1 CCCTAAG
1385 CCCTAA-
1 CCCTAAG
1391 CCCTAAG
1 CCCTAAG
1398 CCCTAAG
1 CCCTAAG
1405 CCCTAAG
1 CCCTAAG
1412 CCCTAAG
1 CCCTAAG
1419 -CCTAAG
1 CCCTAAG
1425 CCCTAAG
1 CCCTAAG
1432 CCCTAAG
1 CCCTAAG
1439 CCCTAAG
1 CCCTAAG
1446 CCCTAAG
1 CCCTAAG
1453 CCCTAAG
1 CCCTAAG
1460 CCCTAAG
1 CCCTAAG
1467 CCCTAAG
1 CCCTAAG
1474 CCCTAAG
1 CCCTAAG
1481 CCCTAAG
1 CCCTAAG
1488 -CCTAAGAAG
1 CCCT---AAG
1497 CCCTAAG
1 CCCTAAG
1504 CCCTAAG
1 CCCTAAG
1511 -CCTAAG
1 CCCTAAG
1517 CCCTAAG
1 CCCTAAG
1524 CCCTAAG
1 CCCTAAG
1531 CCCTAAG
1 CCCTAAG
1538 CCCTAAG
1 CCCTAAG
1545 CCCT-AG
1 CCCTAAG
1551 CCCTAAG
1 CCCTAAG
1558 CCCTAAG
1 CCCTAAG
1565 CCCCTAAG
1 -CCCTAAG
1573 CCCTAAG
1 CCCTAAG
1580 CCCTAAG
1 CCCTAAG
1587 CCCTAAG
1 CCCTAAG
1594 CCCTAAG
1 CCCTAAG
1601 CCCTAAG
1 CCCTAAG
1608 -CCTAAG
1 CCCTAAG
1614 CCCTAA-
1 CCCTAAG
1620 CCCTAAG
1 CCCTAAG
1627 CCCTAAG
1 CCCTAAG
1634 CCCTAAG
1 CCCTAAG
1641 CCCTAAG
1 CCCTAAG
1648 -CCTAAG
1 CCCTAAG
1654 CCCTAAG
1 CCCTAAG
1661 CCCTAAG
1 CCCTAAG
1668 CCCTAA-
1 CCCTAAG
1674 CCCTAAG
1 CCCTAAG
1681 CCCTAAG
1 CCCTAAG
1688 CCCTAAG
1 CCCTAAG
1695 CCCTAAG
1 CCCTAAG
1702 CCCTAAG
1 CCCTAAG
1709 CCCTAAG
1 CCCTAAG
1716 CCCTAAG
1 CCCTAAG
1723 -CCTAAG
1 CCCTAAG
1729 CCCTAAG
1 CCCTAAG
1736 CCCTAAG
1 CCCTAAG
1743 CCCTAAG
1 CCCTAAG
1750 CCCTAAG
1 CCCTAAG
1757 -CCTAAGAAG
1 CCCT---AAG
1766 CCCTAAG
1 CCCTAAG
1773 CCCCTAAG
1 -CCCTAAG
1781 CCCTAAG
1 CCCTAAG
1788 CCCTAAG
1 CCCTAAG
1795 CCCTAAG
1 CCCTAAG
1802 CCCTAAG
1 CCCTAAG
1809 CCCTAAG
1 CCCTAAG
1816 CCCTAAG
1 CCCTAAG
1823 CCCTAAG
1 CCCTAAG
1830 CCCTAAAG
1 CCCT-AAG
1838 CCCTAAG
1 CCCTAAG
1845 -CCTAAG
1 CCCTAAG
1851 CCCTAAG
1 CCCTAAG
1858 CCCTAAG
1 CCCTAAG
1865 CCCTAAG
1 CCCTAAG
1872 --CTAAG
1 CCCTAAG
1877 CCCTAAG
1 CCCTAAG
1884 CCCTAAG
1 CCCTAAG
1891 CCCTAAG
1 CCCTAAG
1898 -CCTAAG
1 CCCTAAG
1904 CCCTAAG
1 CCCTAAG
1911 CCCTAAG
1 CCCTAAG
1918 CCCTAAG
1 CCCTAAG
1925 CCCTAAG
1 CCCTAAG
1932 CCCTAAG
1 CCCTAAG
1939 CCCTAAG
1 CCCTAAG
1946 CCCTAAG
1 CCCTAAG
*
1953 -CCTGAG
1 CCCTAAG
1959 CCCT--G
1 CCCTAAG
1964 CCCTAAG
1 CCCTAAG
1971 -CCTAAG
1 CCCTAAG
1977 CCCT--G
1 CCCTAAG
*
1982 -CCTGA-
1 CCCTAAG
1987 CCCTAAG
1 CCCTAAG
1994 -CCTAAG
1 CCCTAAG
2000 CCCTAA-
1 CCCTAAG
*
2006 CCCTGAG
1 CCCTAAG
2013 CCCTAAG
1 CCCTAAG
2020 CCCTAAG
1 CCCTAAG
2027 CCCTAAG
1 CCCTAAG
*
2034 -CCTGAG
1 CCCTAAG
*
2040 CCCTGAG
1 CCCTAAG
*
2047 CCCTGAG
1 CCCTAAG
*
2054 -CCTGAG
1 CCCTAAG
*
2060 CCCTGAG
1 CCCTAAG
*
2067 CCCCCCTGAG
1 ---CCCTAAG
*
2077 CCCTGAG
1 CCCTAAG
*
2084 CCCTGAG
1 CCCTAAG
2091 CCCTGAAG
1 CCCT-AAG
*
2099 CCCTGAG
1 CCCTAAG
*
2106 CCCTGAG
1 CCCTAAG
*
2113 CCCTGAG
1 CCCTAAG
2120 CCCTGATGAG
1 CCCT-A--AG
*
2130 CCCTGAG
1 CCCTAAG
*
2137 CCCTGAG
1 CCCTAAG
*
2144 CCCTGAG
1 CCCTAAG
2151 CCCT--G
1 CCCTAAG
* *
2156 ACCTGAG
1 CCCTAAG
*
2163 CCCTGAG
1 CCCTAAG
*
2170 CCCTGAG
1 CCCTAAG
*
2177 CCCTGAG
1 CCCTAAG
*
2184 CCCTGAG
1 CCCTAAG
*
2191 -CCTGAG
1 CCCTAAG
*
2197 CCCTGAG
1 CCCTAAG
*
2204 CCCTGAG
1 CCCTAAG
*
2211 CCCTGAG
1 CCCTAAG
*
2218 CCCTGAG
1 CCCTAAG
*
2225 -CCTGAG
1 CCCTAAG
*
2231 CCCTGAG
1 CCCTAAG
*
2238 CCCTGAG
1 CCCTAAG
*
2245 CCCTGAG
1 CCCTAAG
*
2252 CCCTGAG
1 CCCTAAG
*
2259 CCCTGAG
1 CCCTAAG
*
2266 -CCTGAG
1 CCCTAAG
*
2272 -CCTGAG
1 CCCTAAG
*
2278 CCCTGAG
1 CCCTAAG
*
2285 CCCTGA-
1 CCCTAAG
*
2291 CCCTGAG
1 CCCTAAG
*
2298 CCCTGAG
1 CCCTAAG
2305 CCCT--G
1 CCCTAAG
*
2310 CCCTGAG
1 CCCTAAG
*
2317 CCCTGAG
1 CCCTAAG
*
2324 CCCTGAG
1 CCCTAAG
*
2331 CCCTGAG
1 CCCTAAG
*
2338 CCCTGA-
1 CCCTAAG
*
2344 CCCTGAG
1 CCCTAAG
*
2351 -CCTGAG
1 CCCTAAG
*
2357 CCCTGAG
1 CCCTAAG
*
2364 CCCTGAG
1 CCCTAAG
2371 CCCT
1 CCCT
2375 GACCTGACCC
Statistics
Matches: 2197, Mismatches: 44, Indels: 250
0.88 0.02 0.10
Matches are distributed among these distances:
4 13 0.01
5 47 0.02
6 515 0.23
7 1525 0.69
8 52 0.02
9 15 0.01
10 30 0.01
ACGTcount: A:0.31, C:0.43, G:0.12, T:0.15
Consensus pattern (7 bp):
CCCTAAG
Found at i:5849 original size:7 final size:7
Alignment explanation
Indices: 2070--5847 Score: 6159
Period size: 7 Copynumber: 554.6 Consensus size: 7
2060 CCCTGAGCCC
*
2070 CCCTGAG
1 CCCTGAA
*
2077 CCCTGAG
1 CCCTGAA
*
2084 CCCTGAG
1 CCCTGAA
2091 CCCTGAA
1 CCCTGAA
*
2098 GCCCTGAG
1 -CCCTGAA
*
2106 CCCTGAG
1 CCCTGAA
*
2113 CCCTGAG
1 CCCTGAA
2120 CCCTGATGA
1 CCCTGA--A
*
2129 GCCCTGAG
1 -CCCTGAA
*
2137 CCCTGAG
1 CCCTGAA
*
2144 CCCTGAG
1 CCCTGAA
2151 CCCTG-A
1 CCCTGAA
*
2157 -CCTGAG
1 CCCTGAA
*
2163 CCCTGAG
1 CCCTGAA
*
2170 CCCTGAG
1 CCCTGAA
*
2177 CCCTGAG
1 CCCTGAA
2184 CCCTG-A
1 CCCTGAA
* *
2190 GCCTGAG
1 CCCTGAA
*
2197 CCCTGAG
1 CCCTGAA
*
2204 CCCTGAG
1 CCCTGAA
*
2211 CCCTGAG
1 CCCTGAA
2218 CCCTG-A
1 CCCTGAA
* *
2224 GCCTGAG
1 CCCTGAA
*
2231 CCCTGAG
1 CCCTGAA
*
2238 CCCTGAG
1 CCCTGAA
*
2245 CCCTGAG
1 CCCTGAA
*
2252 CCCTGAG
1 CCCTGAA
2259 CCCTG-A
1 CCCTGAA
*
2265 GCCTG-A
1 CCCTGAA
* *
2271 GCCTGAG
1 CCCTGAA
*
2278 CCCTGAG
1 CCCTGAA
2285 CCCTG-A
1 CCCTGAA
*
2291 CCCTGAG
1 CCCTGAA
*
2298 CCCTGAG
1 CCCTGAA
2305 CCCTG--
1 CCCTGAA
*
2310 CCCTGAG
1 CCCTGAA
*
2317 CCCTGAG
1 CCCTGAA
*
2324 CCCTGAG
1 CCCTGAA
*
2331 CCCTGAG
1 CCCTGAA
2338 CCCTG-A
1 CCCTGAA
2344 CCCTG-A
1 CCCTGAA
* *
2350 GCCTGAG
1 CCCTGAA
*
2357 CCCTGAG
1 CCCTGAA
*
2364 CCCTGAG
1 CCCTGAA
2371 CCCTG-A
1 CCCTGAA
2377 -CCTG-A
1 CCCTGAA
*
2382 CCCTGAG
1 CCCTGAA
2389 CCCTGAA
1 CCCTGAA
*
2396 CCCTGAG
1 CCCTGAA
2403 CCCTGAA
1 CCCTGAA
*
2410 CCCTGAG
1 CCCTGAA
2417 CCCTGAA
1 CCCTGAA
2424 -CCTG-A
1 CCCTGAA
2429 CCCTG-A
1 CCCTGAA
2435 CCCTGAA
1 CCCTGAA
2442 CCCTG-A
1 CCCTGAA
2448 CCCTGAA
1 CCCTGAA
2455 CCCTG-A
1 CCCTGAA
2461 CCCTG-A
1 CCCTGAA
2467 CCCTGAA
1 CCCTGAA
2474 -CCTG-A
1 CCCTGAA
2479 CCCTGAA
1 CCCTGAA
2486 CCCTGAA
1 CCCTGAA
2493 CCCTGAA
1 CCCTGAA
2500 CCCTG-A
1 CCCTGAA
2506 -CCTG-A
1 CCCTGAA
2511 CCCTGAA
1 CCCTGAA
2518 CCCTG--
1 CCCTGAA
2523 CCCTGAA
1 CCCTGAA
2530 -CCTGAA
1 CCCTGAA
2536 --CTGAA
1 CCCTGAA
2541 CCCTGAA
1 CCCTGAA
2548 CCCTGAA
1 CCCTGAA
2555 -CCTGAA
1 CCCTGAA
2561 CCCTGAA
1 CCCTGAA
2568 CCCTGAA
1 CCCTGAA
2575 CCCTGAA
1 CCCTGAA
2582 CCCTGAA
1 CCCTGAA
2589 -CCTG-A
1 CCCTGAA
2594 CCCTGAA
1 CCCTGAA
2601 CCCTGAA
1 CCCTGAA
2608 CCCTGAA
1 CCCTGAA
2615 CCCTGAA
1 CCCTGAA
2622 CCCTG--
1 CCCTGAA
2627 CCCTGAA
1 CCCTGAA
2634 CCCTGAA
1 CCCTGAA
2641 CCCTGAA
1 CCCTGAA
2648 CCCTGAA
1 CCCTGAA
2655 CCCTGAA
1 CCCTGAA
2662 -CCTGAA
1 CCCTGAA
2668 CCCTGAA
1 CCCTGAA
2675 CCCTGAA
1 CCCTGAA
2682 CCCTGAA
1 CCCTGAA
2689 CCCTGAA
1 CCCTGAA
2696 CCCTGAA
1 CCCTGAA
2703 CCCTGAA
1 CCCTGAA
2710 CCCTGAA
1 CCCTGAA
2717 CCCTGAA
1 CCCTGAA
2724 CCCTGAA
1 CCCTGAA
2731 CCCTGAA
1 CCCTGAA
2738 CCCTGAA
1 CCCTGAA
2745 CCCTGAA
1 CCCTGAA
2752 -CCTGAA
1 CCCTGAA
2758 CCCTGAA
1 CCCTGAA
2765 CCCTG-A
1 CCCTGAA
2771 CCCTGAA
1 CCCTGAA
2778 CCCTGAA
1 CCCTGAA
2785 CCCTGAA
1 CCCTGAA
2792 CCCTGAA
1 CCCTGAA
2799 CCCTGAA
1 CCCTGAA
2806 CCCTGAA
1 CCCTGAA
2813 CCCTGAA
1 CCCTGAA
2820 CCCTGAA
1 CCCTGAA
2827 CCCTG-A
1 CCCTGAA
2833 CCCTGAA
1 CCCTGAA
2840 CCCTGAA
1 CCCTGAA
2847 CCCTGAA
1 CCCTGAA
2854 -CCTGAA
1 CCCTGAA
2860 CCCTGAA
1 CCCTGAA
2867 CCCCCTGAA
1 --CCCTGAA
2876 CCCTGAA
1 CCCTGAA
2883 CCCTGAA
1 CCCTGAA
2890 CCCTGAA
1 CCCTGAA
2897 CCCTGAA
1 CCCTGAA
2904 CCCTGAA
1 CCCTGAA
2911 CCCTG-A
1 CCCTGAA
2917 CCCTTGAA
1 CCC-TGAA
2925 CCCTGAA
1 CCCTGAA
2932 CCCTGAA
1 CCCTGAA
2939 CCCTGAA
1 CCCTGAA
2946 CCCTGAA
1 CCCTGAA
2953 CCCTGAA
1 CCCTGAA
2960 CCCTGAA
1 CCCTGAA
2967 -CCTGAA
1 CCCTGAA
2973 CCCTGAA
1 CCCTGAA
2980 CCCTG-A
1 CCCTGAA
2986 CCCTGAA
1 CCCTGAA
2993 CCCTGAA
1 CCCTGAA
3000 CCCTGAA
1 CCCTGAA
3007 CCCTGAA
1 CCCTGAA
3014 CCCTGAA
1 CCCTGAA
3021 CCCTGAA
1 CCCTGAA
3028 CCCTGAA
1 CCCTGAA
3035 CCCTGAA
1 CCCTGAA
3042 CCCTGAA
1 CCCTGAA
3049 CCCTGAA
1 CCCTGAA
3056 CCCTGAA
1 CCCTGAA
3063 CCCTGAA
1 CCCTGAA
3070 CCCTGAA
1 CCCTGAA
3077 CCCTGAA
1 CCCTGAA
3084 CCCTGAA
1 CCCTGAA
3091 CCCTGAA
1 CCCTGAA
3098 -CCTGAA
1 CCCTGAA
3104 CCCTGAA
1 CCCTGAA
3111 CCCTGAA
1 CCCTGAA
3118 CCCTGAA
1 CCCTGAA
3125 CCCTGAA
1 CCCTGAA
3132 CCCTGAA
1 CCCTGAA
3139 -CCTGAA
1 CCCTGAA
3145 CCCTGAA
1 CCCTGAA
3152 CCCTGAA
1 CCCTGAA
3159 CCCTGAA
1 CCCTGAA
3166 -CCTGAA
1 CCCTGAA
3172 CCCTGAA
1 CCCTGAA
3179 CCCTGAA
1 CCCTGAA
3186 CCCTGAA
1 CCCTGAA
3193 CCCTGAA
1 CCCTGAA
3200 CCCCTGAA
1 -CCCTGAA
3208 CCCTGAA
1 CCCTGAA
3215 CCCTGAA
1 CCCTGAA
3222 CCCTGAA
1 CCCTGAA
3229 -CCTGAA
1 CCCTGAA
3235 CCCTGAA
1 CCCTGAA
3242 CCCTGAA
1 CCCTGAA
3249 CCCTGAA
1 CCCTGAA
3256 CCCTGAA
1 CCCTGAA
3263 CCCTGAA
1 CCCTGAA
3270 CCCTGAA
1 CCCTGAA
3277 CCCTGAA
1 CCCTGAA
3284 CCCTGAA
1 CCCTGAA
3291 CCCTGAA
1 CCCTGAA
3298 CCCTGAA
1 CCCTGAA
3305 -CCTGAA
1 CCCTGAA
3311 CCCTGAA
1 CCCTGAA
3318 CCCTGAA
1 CCCTGAA
3325 CCCTGAA
1 CCCTGAA
3332 CCCTGAA
1 CCCTGAA
3339 CCCTGAA
1 CCCTGAA
3346 CCCTGAA
1 CCCTGAA
3353 CCCTGAA
1 CCCTGAA
3360 CCCTGAA
1 CCCTGAA
3367 CCCTGAA
1 CCCTGAA
3374 CCCTGAA
1 CCCTGAA
3381 CCCTGAA
1 CCCTGAA
3388 CCCTGAA
1 CCCTGAA
3395 CCCTGAA
1 CCCTGAA
3402 CCCTGAA
1 CCCTGAA
3409 CCCTGAA
1 CCCTGAA
3416 CCCTGAA
1 CCCTGAA
3423 CCC-GAA
1 CCCTGAA
3429 CCCTGAA
1 CCCTGAA
3436 --CTGAA
1 CCCTGAA
3441 -CCTGAA
1 CCCTGAA
3447 CCCTGAA
1 CCCTGAA
3454 CCCTGAA
1 CCCTGAA
3461 CCCTGAA
1 CCCTGAA
3468 CCCTGAA
1 CCCTGAA
3475 CCCTGAA
1 CCCTGAA
3482 CCCTGAA
1 CCCTGAA
3489 CCCTGAA
1 CCCTGAA
3496 CCCTGAA
1 CCCTGAA
3503 CCCTGAA
1 CCCTGAA
3510 CCCTGAA
1 CCCTGAA
3517 CCCTGAA
1 CCCTGAA
3524 CCCTGAA
1 CCCTGAA
3531 CCCTGAAA
1 CCCTG-AA
3539 CCCTGAA
1 CCCTGAA
3546 CCCTGAA
1 CCCTGAA
3553 CCCTGAA
1 CCCTGAA
3560 CCCTGAA
1 CCCTGAA
3567 CCCTGAA
1 CCCTGAA
3574 CCCTG-A
1 CCCTGAA
3580 CCCTGAA
1 CCCTGAA
3587 CCCTGAA
1 CCCTGAA
3594 CCCTGAA
1 CCCTGAA
3601 CCCTGAA
1 CCCTGAA
3608 CCCTGAA
1 CCCTGAA
3615 CCCTGAA
1 CCCTGAA
3622 CCCTGAA
1 CCCTGAA
3629 CCCTGAA
1 CCCTGAA
3636 -CCTGAA
1 CCCTGAA
3642 CCCTGAA
1 CCCTGAA
3649 CCCTGAA
1 CCCTGAA
3656 CCCTGAA
1 CCCTGAA
3663 CCCTGAA
1 CCCTGAA
3670 CCCTGAA
1 CCCTGAA
3677 CCCTGAA
1 CCCTGAA
3684 -CCTGAA
1 CCCTGAA
3690 CCCTGAA
1 CCCTGAA
3697 CCCTGAA
1 CCCTGAA
3704 CCCTGAA
1 CCCTGAA
3711 CCCTGAA
1 CCCTGAA
3718 CCCTGAA
1 CCCTGAA
3725 -CCTGAA
1 CCCTGAA
3731 CCCTGAA
1 CCCTGAA
3738 CCCTGAA
1 CCCTGAA
3745 CCCTGAA
1 CCCTGAA
3752 CCCTGAA
1 CCCTGAA
3759 CCCTGAA
1 CCCTGAA
3766 -CCTGAA
1 CCCTGAA
3772 CCCTGAA
1 CCCTGAA
3779 CCCTGAA
1 CCCTGAA
3786 CCCTGAA
1 CCCTGAA
3793 -CCTGAA
1 CCCTGAA
3799 -CCTGAA
1 CCCTGAA
3805 CCCTGAA
1 CCCTGAA
3812 CCCTGAA
1 CCCTGAA
3819 -CCTGAA
1 CCCTGAA
3825 CCCTGAA
1 CCCTGAA
3832 CCCTGAA
1 CCCTGAA
3839 CCCTGAA
1 CCCTGAA
3846 CCCTGAA
1 CCCTGAA
3853 CCCTGAA
1 CCCTGAA
3860 CCCTGAA
1 CCCTGAA
3867 CCCTGAA
1 CCCTGAA
3874 CCCTGAA
1 CCCTGAA
3881 CCCTGAA
1 CCCTGAA
3888 CCCTGAA
1 CCCTGAA
3895 CCCTGAA
1 CCCTGAA
3902 CCCTGAA
1 CCCTGAA
3909 -CCTGAA
1 CCCTGAA
3915 CCCTGAA
1 CCCTGAA
3922 CCCTGAA
1 CCCTGAA
3929 CCCTGAA
1 CCCTGAA
3936 CCCTGAAA
1 CCCTG-AA
3944 CCCTGAA
1 CCCTGAA
3951 CCCTGAA
1 CCCTGAA
3958 CCCTGAA
1 CCCTGAA
3965 -CCTGAA
1 CCCTGAA
3971 CCCTG-A
1 CCCTGAA
3977 CCCTGAA
1 CCCTGAA
3984 CCCTGAA
1 CCCTGAA
3991 CCCTGAA
1 CCCTGAA
3998 CCCTGAA
1 CCCTGAA
4005 CCCTGAA
1 CCCTGAA
4012 CCCTGAA
1 CCCTGAA
4019 CCCTGAA
1 CCCTGAA
4026 CCCTGAA
1 CCCTGAA
4033 CCCTGAA
1 CCCTGAA
4040 CCCTGAA
1 CCCTGAA
4047 CCCTGAA
1 CCCTGAA
4054 CCCTGAA
1 CCCTGAA
4061 CCCTGAA
1 CCCTGAA
4068 CCCTGAA
1 CCCTGAA
4075 CCCTGAA
1 CCCTGAA
4082 CCCTGAA
1 CCCTGAA
4089 CCCTGAA
1 CCCTGAA
4096 CCCTGAA
1 CCCTGAA
4103 CCCTGAA
1 CCCTGAA
4110 CCCTGAA
1 CCCTGAA
4117 CCCTGAA
1 CCCTGAA
4124 CCCTGAA
1 CCCTGAA
4131 CCCTGAA
1 CCCTGAA
4138 CCCTGAA
1 CCCTGAA
4145 CCCTGAA
1 CCCTGAA
4152 -CCTGAA
1 CCCTGAA
4158 -CCTGAA
1 CCCTGAA
4164 CCCTGAA
1 CCCTGAA
4171 CCCTGAA
1 CCCTGAA
4178 CCCTGAA
1 CCCTGAA
4185 CCCTGAA
1 CCCTGAA
4192 -CCTGAA
1 CCCTGAA
4198 CCCTGAA
1 CCCTGAA
4205 -CCTGAA
1 CCCTGAA
4211 CCCTGAA
1 CCCTGAA
4218 CCCTGAA
1 CCCTGAA
4225 CCCTGAA
1 CCCTGAA
4232 CCCTGAA
1 CCCTGAA
4239 CCCTGAA
1 CCCTGAA
4246 CCCTGAA
1 CCCTGAA
4253 CCCTGAA
1 CCCTGAA
4260 CCCTGAA
1 CCCTGAA
4267 CCCTGAA
1 CCCTGAA
4274 CCCTGAA
1 CCCTGAA
4281 CCCTGAA
1 CCCTGAA
4288 CCCTGAA
1 CCCTGAA
4295 CCCTGAA
1 CCCTGAA
4302 CCCTGAA
1 CCCTGAA
4309 CCCTGAA
1 CCCTGAA
4316 CCCTGAA
1 CCCTGAA
4323 CCCTGAA
1 CCCTGAA
4330 -CCTGAA
1 CCCTGAA
4336 -CCTGAA
1 CCCTGAA
4342 CCC-GAA
1 CCCTGAA
4348 CCCTGAA
1 CCCTGAA
4355 CCCTGAA
1 CCCTGAA
4362 -CCTG-A
1 CCCTGAA
4367 CCCTGAA
1 CCCTGAA
4374 CCCTGAA
1 CCCTGAA
4381 CCCTGAA
1 CCCTGAA
4388 -CCTGAA
1 CCCTGAA
4394 CCCTGAA
1 CCCTGAA
4401 CCCTGAA
1 CCCTGAA
4408 CCCTGAA
1 CCCTGAA
4415 CCCTGAA
1 CCCTGAA
4422 -CCTGAA
1 CCCTGAA
4428 CCCTGAA
1 CCCTGAA
4435 -CCTGAA
1 CCCTGAA
4441 CCCTGAA
1 CCCTGAA
4448 -CCTGAA
1 CCCTGAA
4454 CCCTGAA
1 CCCTGAA
4461 -CCTGAA
1 CCCTGAA
4467 -CCTGAA
1 CCCTGAA
4473 -CCTGAA
1 CCCTGAA
4479 CCCTGAA
1 CCCTGAA
4486 CCCTGAA
1 CCCTGAA
4493 CCCTGAA
1 CCCTGAA
4500 CCCTGAA
1 CCCTGAA
4507 CCCTGAA
1 CCCTGAA
4514 CCCTGAA
1 CCCTGAA
4521 CCCTGAA
1 CCCTGAA
4528 CCCTGAA
1 CCCTGAA
4535 CCCTGAA
1 CCCTGAA
4542 CCCTGAA
1 CCCTGAA
4549 CCCTGAAA
1 CCCTG-AA
*
4557 ACCTGAA
1 CCCTGAA
4564 CCCTGAA
1 CCCTGAA
4571 CCCTGAA
1 CCCTGAA
4578 CCCTGAA
1 CCCTGAA
4585 CCCTGAA
1 CCCTGAA
4592 CCCTGAA
1 CCCTGAA
4599 CCCTGAA
1 CCCTGAA
4606 CCCTGAA
1 CCCTGAA
4613 CCCTGAA
1 CCCTGAA
4620 -CCTGAA
1 CCCTGAA
4626 CCCTGAA
1 CCCTGAA
4633 CCCTGAA
1 CCCTGAA
4640 CCCTGAA
1 CCCTGAA
4647 CCCTGAA
1 CCCTGAA
4654 CCCTGAA
1 CCCTGAA
4661 CCCTGAA
1 CCCTGAA
4668 CCCTGAA
1 CCCTGAA
4675 CCCTGAA
1 CCCTGAA
4682 CCCTGAA
1 CCCTGAA
4689 CCCTGAA
1 CCCTGAA
4696 -CCTGAA
1 CCCTGAA
4702 CCCTG-A
1 CCCTGAA
4708 CCCTGAA
1 CCCTGAA
4715 CCCTGAA
1 CCCTGAA
4722 CCCTGAA
1 CCCTGAA
4729 CCCTGAA
1 CCCTGAA
4736 CCCTGAA
1 CCCTGAA
4743 CCCTGAA
1 CCCTGAA
4750 CCCTGAA
1 CCCTGAA
4757 CCCTGAA
1 CCCTGAA
4764 -CCTGAA
1 CCCTGAA
4770 CCCTGAA
1 CCCTGAA
4777 CCCTGAA
1 CCCTGAA
4784 CCCTGAA
1 CCCTGAA
4791 CCCTGAA
1 CCCTGAA
4798 CCCTGAA
1 CCCTGAA
4805 CCCTGAA
1 CCCTGAA
4812 CCCTGAA
1 CCCTGAA
*
4819 CCCTGAC
1 CCCTGAA
4826 CCCTGAA
1 CCCTGAA
4833 -CCTGAA
1 CCCTGAA
4839 CCCTGAA
1 CCCTGAA
4846 CCCTGAA
1 CCCTGAA
4853 CCCTGAA
1 CCCTGAA
4860 -CCTGAA
1 CCCTGAA
4866 CCCTGAA
1 CCCTGAA
4873 CCCCTGAA
1 -CCCTGAA
4881 CCCTGAA
1 CCCTGAA
4888 CCCTGAA
1 CCCTGAA
4895 CCCTGAA
1 CCCTGAA
4902 CCCTGAA
1 CCCTGAA
4909 CCCTGAA
1 CCCTGAA
4916 CCCTGAA
1 CCCTGAA
4923 CCCTGAA
1 CCCTGAA
4930 CCCTGAA
1 CCCTGAA
4937 CCCTGAA
1 CCCTGAA
4944 CCCTG-A
1 CCCTGAA
4950 CCCTGAA
1 CCCTGAA
4957 CCCTGAA
1 CCCTGAA
4964 CCCTGAA
1 CCCTGAA
4971 CCCTGAA
1 CCCTGAA
4978 CCCTGAA
1 CCCTGAA
4985 CCCTG-A
1 CCCTGAA
4991 CCCTGAA
1 CCCTGAA
4998 -CCTGAA
1 CCCTGAA
5004 CCCTGAA
1 CCCTGAA
5011 CCCTGAA
1 CCCTGAA
5018 -CCTGAA
1 CCCTGAA
5024 CCCTGAA
1 CCCTGAA
5031 -CCTGAA
1 CCCTGAA
5037 -CCTGAA
1 CCCTGAA
5043 CCCTGAA
1 CCCTGAA
5050 CCCTGAA
1 CCCTGAA
5057 CCCTGAA
1 CCCTGAA
5064 CCCTGAA
1 CCCTGAA
5071 -CCTGAA
1 CCCTGAA
5077 -CCTGAA
1 CCCTGAA
5083 CCCTGAA
1 CCCTGAA
5090 -CCTGAA
1 CCCTGAA
5096 CCCTGAA
1 CCCTGAA
5103 -CCTGAA
1 CCCTGAA
5109 CCCTGAA
1 CCCTGAA
5116 CCCTGAA
1 CCCTGAA
5123 CCCTGAA
1 CCCTGAA
5130 CCCTGAA
1 CCCTGAA
5137 CCCTGAA
1 CCCTGAA
5144 -CCTGAA
1 CCCTGAA
5150 CCCTGAA
1 CCCTGAA
5157 CCCTGAA
1 CCCTGAA
5164 -CCTGAA
1 CCCTGAA
5170 CCCTGAA
1 CCCTGAA
5177 CCCTGAA
1 CCCTGAA
5184 CCCTGAA
1 CCCTGAA
5191 -CCTGAA
1 CCCTGAA
5197 -CCTG-A
1 CCCTGAA
5202 CCCTGAA
1 CCCTGAA
5209 CCCTGAA
1 CCCTGAA
5216 CCCTGAA
1 CCCTGAA
5223 -CCTGAA
1 CCCTGAA
5229 CCCTGAA
1 CCCTGAA
5236 CCCTGAA
1 CCCTGAA
5243 CCCTGAA
1 CCCTGAA
5250 CCCTGAA
1 CCCTGAA
5257 -CCTGAA
1 CCCTGAA
5263 CCCTGAA
1 CCCTGAA
5270 CCCTGAA
1 CCCTGAA
5277 CCCTGAA
1 CCCTGAA
5284 CCCTGAA
1 CCCTGAA
5291 CCCTGAA
1 CCCTGAA
5298 CCCTGAA
1 CCCTGAA
5305 CCCTGAA
1 CCCTGAA
5312 CCCTGAA
1 CCCTGAA
5319 CCCTGAA
1 CCCTGAA
5326 CCCTGAA
1 CCCTGAA
5333 CCCTGAA
1 CCCTGAA
5340 CCCTGAA
1 CCCTGAA
5347 CCCTGAA
1 CCCTGAA
5354 CCCTGAA
1 CCCTGAA
5361 CCCTGAA
1 CCCTGAA
5368 CCCTGAA
1 CCCTGAA
5375 CCCTGAA
1 CCCTGAA
5382 CCCTGAA
1 CCCTGAA
5389 CCCTGAA
1 CCCTGAA
5396 CCCTGAA
1 CCCTGAA
5403 CCCTGAA
1 CCCTGAA
5410 CCCTGAA
1 CCCTGAA
5417 -CCTGAA
1 CCCTGAA
5423 CCCTGAA
1 CCCTGAA
5430 CCCTGAA
1 CCCTGAA
5437 -CCTGAA
1 CCCTGAA
5443 CCCTGAA
1 CCCTGAA
5450 -CCTGAA
1 CCCTGAA
5456 CCCTGAA
1 CCCTGAA
5463 CCCTGAA
1 CCCTGAA
5470 CCCTGAA
1 CCCTGAA
5477 CCCTGAA
1 CCCTGAA
5484 CCCTGAA
1 CCCTGAA
5491 CCCTGAA
1 CCCTGAA
5498 CCCTGAA
1 CCCTGAA
5505 CCCTGAA
1 CCCTGAA
5512 CCC--AA
1 CCCTGAA
5517 CCCTGAA
1 CCCTGAA
5524 CCCTGAA
1 CCCTGAA
5531 CCCTGAA
1 CCCTGAA
5538 CCCTGAA
1 CCCTGAA
5545 CCCTGAA
1 CCCTGAA
5552 CCCTGAA
1 CCCTGAA
5559 CCCTGAA
1 CCCTGAA
5566 -CCTGAA
1 CCCTGAA
5572 -CC-GAA
1 CCCTGAA
5577 CCCTGAA
1 CCCTGAA
5584 CCCTGAA
1 CCCTGAA
5591 CCCTGAA
1 CCCTGAA
5598 CCCTGAA
1 CCCTGAA
5605 CCCTGAA
1 CCCTGAA
5612 CCCTGAA
1 CCCTGAA
5619 CCCTGAA
1 CCCTGAA
5626 CCCTGAA
1 CCCTGAA
5633 CCCTGAA
1 CCCTGAA
5640 CCCTGAA
1 CCCTGAA
5647 CCCTGAA
1 CCCTGAA
5654 CCCTGAA
1 CCCTGAA
5661 CCCTGAA
1 CCCTGAA
5668 CCCTGAA
1 CCCTGAA
5675 CCCTGAA
1 CCCTGAA
5682 -CCTGAA
1 CCCTGAA
5688 -CC-GAA
1 CCCTGAA
5693 -CCTGAA
1 CCCTGAA
5699 CCCTG-A
1 CCCTGAA
5705 CCCTGAA
1 CCCTGAA
5712 CCCTGAA
1 CCCTGAA
5719 -CCTGAA
1 CCCTGAA
5725 CCCTGAA
1 CCCTGAA
5732 CCCTGAA
1 CCCTGAA
5739 CCCTGAA
1 CCCTGAA
5746 CCCTGAA
1 CCCTGAA
5753 CCCTGAA
1 CCCTGAA
5760 CCCTGAA
1 CCCTGAA
5767 CCCTGAA
1 CCCTGAA
*
5774 CCCTAAA
1 CCCTGAA
*
5781 CCCTAAA
1 CCCTGAA
*
5788 CCCTAAA
1 CCCTGAA
*
5795 CCCTAAA
1 CCCTGAA
*
5802 CCCTAAA
1 CCCTGAA
*
5809 CCCTAAA
1 CCCTGAA
*
5816 CCCTAAA
1 CCCTGAA
*
5823 CCCTAAA
1 CCCTGAA
*
5830 CCCTAAA
1 CCCTGAA
*
5837 CCCTAAA
1 CCCTGAA
5844 CCCT
1 CCCT
5848 AATAACCCCT
Statistics
Matches: 3626, Mismatches: 36, Indels: 218
0.93 0.01 0.06
Matches are distributed among these distances:
5 57 0.02
6 532 0.15
7 2980 0.82
8 44 0.01
9 7 0.00
10 6 0.00
ACGTcount: A:0.28, C:0.42, G:0.16, T:0.15
Consensus pattern (7 bp):
CCCTGAA
Found at i:6139 original size:7 final size:7
Alignment explanation
Indices: 6090--6167 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
6080 TAACCCTTAG
*
6090 TAAACCC
1 TAAACCT
6097 TAAA-CT
1 TAAACCT
*
6103 CTAAAACT
1 -TAAACCT
*
6111 TAAACAT
1 TAAACCT
*
6118 CTAAACTT
1 -TAAACCT
6126 ATAAACCT
1 -TAAACCT
6134 TAAACCT
1 TAAACCT
6141 TAAACCAT
1 TAAACC-T
6149 AATAAACCT
1 --TAAACCT
*
6158 TGAACCT
1 TAAACCT
6165 TAA
1 TAA
6168 TAAACCCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
6 1 0.02
7 34 0.60
8 15 0.26
9 1 0.02
10 6 0.11
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:6156 original size:17 final size:17
Alignment explanation
Indices: 6134--6173 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
6124 TTATAAACCT
6134 TAAACCTTAAACCATAA
1 TAAACCTTAAACCATAA
* *
6151 TAAACCTTGAACCTTAA
1 TAAACCTTAAACCATAA
6168 TAAACC
1 TAAACC
6174 CTTATAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAACCTTAAACCATAA
Found at i:6198 original size:19 final size:19
Alignment explanation
Indices: 6160--6209 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
6150 ATAAACCTTG
6160 AACCTTAATAAACCCTTATA
1 AACCTTAAT-AACCCTTATA
*
6180 AACCTTAATAACTCTTATA
1 AACCTTAATAACCCTTATA
*
6199 AACCCTAATAA
1 AACCTTAATAA
6210 ATTCTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (19 bp):
AACCTTAATAACCCTTATA
Found at i:6402 original size:10 final size:10
Alignment explanation
Indices: 5840--6435 Score: 248
Period size: 10 Copynumber: 61.0 Consensus size: 10
5830 CCCTAAACCC
5840 TAAACCCTAA
1 TAAACCCTAA
*
5850 TAACCCCTAA
1 TAAACCCTAA
*
5860 GAAACCCTAA
1 TAAACCCTAA
* * *
5870 CAAACCTTAG
1 TAAACCCTAA
*
5880 TAAACCCGT-G
1 TAAACCC-TAA
**
5890 TAAACCAAAA
1 TAAACCCTAA
5900 TAAACCCTAA
1 TAAACCCTAA
*
5910 T-AACCCTAG
1 TAAACCCTAA
*
5919 TAAACCCTAC
1 TAAACCCTAA
*
5929 TAAACCTTAA
1 TAAACCCTAA
* *
5939 TAAACTCTTA
1 TAAACCCTAA
*
5949 TAAACCCTAG
1 TAAACCCTAA
*
5959 TAAACCCTTA
1 TAAACCCTAA
* *
5969 TAAACCATTA
1 TAAACCCTAA
* *
5979 TAAACCATTA
1 TAAACCCTAA
*
5989 TAAACCCTAT
1 TAAACCCTAA
*
5999 TAAACCCTTA
1 TAAACCCTAA
**
6009 TAAACCCTTG
1 TAAACCCTAA
*
6019 TAAACCCTAG
1 TAAACCCTAA
* *
6029 CAAACCCTAG
1 TAAACCCTAA
*
6039 TAAACCATAA
1 TAAACCCTAA
* *
6049 TAAACCTTAG
1 TAAACCCTAA
*
6059 TAAACCCATAG
1 TAAACCC-TAA
*
6070 TAAACCCTTA
1 TAAACCCTAA
*
6080 T-AACCCTTAG
1 TAAACCC-TAA
6090 TAAACCC---
1 TAAACCCTAA
*
6097 TAAACTCTAAAA
1 TAAACCCT--AA
* *
6109 CTTAAA-CAT-C
1 --TAAACCCTAA
*
6119 TAAA--CTTA
1 TAAACCCTAA
6127 TAAA-CCT--
1 TAAACCCTAA
6134 TAAA-CCT--
1 TAAACCCTAA
*
6141 TAAACCATAA
1 TAAACCCTAA
6151 TAAA-CCT--
1 TAAACCCTAA
* *
6158 TGAACCTTAA
1 TAAACCCTAA
*
6168 TAAACCCTTA
1 TAAACCCTAA
*
6178 TAAACCTTAA
1 TAAACCCTAA
* *
6188 T-AACTCTTA
1 TAAACCCTAA
6197 TAAACCCTAA
1 TAAACCCTAA
** **
6207 TAAATTCTTG
1 TAAACCCTAA
*
6217 TAAACCCTAG
1 TAAACCCTAA
* *
6227 TAAAACCTAG
1 TAAACCCTAA
* **
6237 TAAA-TCTTG
1 TAAACCCTAA
6246 TAAACCCTAA
1 TAAACCCTAA
*
6256 TAAACCCTTA
1 TAAACCCTAA
*
6266 T-AATCCTATA
1 TAAACCCTA-A
*
6276 TAAACCCTAG
1 TAAACCCTAA
* *
6286 TAAACACTTA
1 TAAACCCTAA
6296 TAAACCCTAA
1 TAAACCCTAA
*
6306 TAAACCCTAG
1 TAAACCCTAA
* * **
6316 TAAGCCTTTG
1 TAAACCCTAA
*
6326 TAAACCCTTA
1 TAAACCCTAA
*
6336 TAAACCCTAG
1 TAAACCCTAA
* *
6346 TAAGCCCTAG
1 TAAACCCTAA
**
6356 TAAACCCTTG
1 TAAACCCTAA
* *
6366 TAAATCCTAG
1 TAAACCCTAA
** *
6376 TAAATACTAG
1 TAAACCCTAA
6386 TAAACCCTAA
1 TAAACCCTAA
6396 TAAACCCTAA
1 TAAACCCTAA
* *
6406 TACACCAT-A
1 TAAACCCTAA
* *
6415 TCATACCCTTA
1 T-AAACCCTAA
6426 TAAACCCTAA
1 TAAACCCTAA
6436 CCCCAAAAAG
Statistics
Matches: 448, Mismatches: 111, Indels: 54
0.73 0.18 0.09
Matches are distributed among these distances:
7 21 0.05
8 12 0.03
9 37 0.08
10 349 0.78
11 24 0.05
13 1 0.00
14 4 0.01
ACGTcount: A:0.43, C:0.27, G:0.05, T:0.26
Consensus pattern (10 bp):
TAAACCCTAA
Found at i:20836 original size:24 final size:24
Alignment explanation
Indices: 20809--20865 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
20799 TTGATGACCC
* *
20809 GACTCCTTATCAGTACCATTCTGA
1 GACTCCTGATCAGCACCATTCTGA
*
20833 GACTCCTGATCAGCACCGTTCTGA
1 GACTCCTGATCAGCACCATTCTGA
*
20857 GACCCCTGA
1 GACTCCTGA
20866 ATATCCGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (24 bp):
GACTCCTGATCAGCACCATTCTGA
Found at i:23924 original size:20 final size:22
Alignment explanation
Indices: 23901--23941 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
23891 TTGACATAAA
*
23901 TAATAT-TAAATAA-ATTATTC
1 TAATATATAAAAAATATTATTC
23921 TAATATATAAAAAATATTATT
1 TAATATATAAAAAATATTATT
23942 ATTTTGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATATATAAAAAATATTATTC
Found at i:24349 original size:22 final size:21
Alignment explanation
Indices: 24323--24363 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
24313 CATAAAATTA
*
24323 TAAACCTTAAACCCTTACACTT
1 TAAACCATAAACCC-TACACTT
24345 TAAACCATAAACCCTACAC
1 TAAACCATAAACCCTACAC
24364 CCTAACCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCATAAACCCTACACTT
Found at i:35414 original size:27 final size:27
Alignment explanation
Indices: 35344--35413 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
35334 CCGGTTTTAT
*
35344 TAACAAAACCGGTAAAACGCCTAATAA
1 TAACAAAACCGATAAAACGCCTAATAA
*
35371 TAACAAAATCGATAAAACG-CTCAATAA
1 TAACAAAACCGATAAAACGCCT-AATAA
*
35398 TAA-TAAACCGATAAAA
1 TAACAAAACCGATAAAA
35414 AATAATATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.56, C:0.19, G:0.09, T:0.17
Consensus pattern (27 bp):
TAACAAAACCGATAAAACGCCTAATAA
Found at i:36359 original size:6 final size:6
Alignment explanation
Indices: 36348--36382 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
36338 GTTCGGTCTT
36348 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
36383 TTTTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTTCC
Found at i:36389 original size:5 final size:5
Alignment explanation
Indices: 36379--36418 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
36369 TCCCTTTCCC
36379 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCCTT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT-C-T TTTCT TTT
36419 TTCCCCTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 27 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:43823 original size:27 final size:27
Alignment explanation
Indices: 43749--43829 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
43739 GAGTGTTACC
* * *
43749 AAGGATGCCCGCTCCACTCCAACCGCA
1 AAGGATGCCTGCTCAATTCCAACCGCA
*
43776 AAGGATGCCTG-T-GATCCTCCAACCGCA
1 AAGGATGCCTGCTCAAT--TCCAACCGCA
43803 AAGGATGCCTGCTCAATTCCAACCGCA
1 AAGGATGCCTGCTCAATTCCAACCGCA
43830 GAGTCTTGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 41 0.89
28 1 0.02
29 2 0.04
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.16
Consensus pattern (27 bp):
AAGGATGCCTGCTCAATTCCAACCGCA
Found at i:43887 original size:63 final size:63
Alignment explanation
Indices: 43783--43925 Score: 243
Period size: 63 Copynumber: 2.3 Consensus size: 63
43773 GCAAAGGATG
*
43783 CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAATTCCAACCGCAGAGTCTTGGGGTAAT-
1 CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
* *
43845 CCTGGTGATCCTCCAACCGCAAAGGATGCCTGCTCTACTCCAACCGCAGAGTGTTGGGGTAATC
1 CCT-GTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
43909 CCTGTGATCCTCCAACC
1 CCTGTGATCCTCCAACC
43926 CCGGAGTCTT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
62 3 0.04
63 70 0.92
64 3 0.04
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (63 bp):
CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
Found at i:45763 original size:2 final size:2
Alignment explanation
Indices: 45756--45792 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45746 TATAAGTTTA
45756 AT AT 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 AT AT A
45793 CATTTATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57978 original size:15 final size:15
Alignment explanation
Indices: 57960--58080 Score: 63
Period size: 18 Copynumber: 7.8 Consensus size: 15
57950 TATAGTTTAC
57960 ATATAAACTATATTTAT
1 ATATAAACTATA-TT-T
57977 ATTATAAACTATATAATT
1 A-TATAAACTATAT--TT
*
57995 ATTATAAGCTATATATAT
1 A-TATAAACTATAT-T-T
*
58013 ATATAAATTATGA-TT
1 ATATAAACTAT-ATTT
* *
58028 ATGTGAACTATA--T
1 ATATAAACTATATTT
*
58041 ATATAAAC--TATGT
1 ATATAAACTATATTT
*
58054 ATATAAACTATATAT
1 ATATAAACTATATTT
*
58069 GTATAAACTATA
1 ATATAAACTATA
58081 AAAAGTATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
11 2 0.02
13 16 0.19
14 1 0.01
15 24 0.28
16 1 0.01
17 12 0.14
18 28 0.33
19 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (15 bp):
ATATAAACTATATTT
Found at i:57991 original size:20 final size:20
Alignment explanation
Indices: 57961--58016 Score: 75
Period size: 18 Copynumber: 3.0 Consensus size: 20
57951 ATAGTTTACA
57961 TATAAACTATAT-T-TATAT
1 TATAAACTATATATATATAT
57979 TATAAACTATATA-AT-TAT
1 TATAAACTATATATATATAT
*
57997 TATAAGCTATATATATATAT
1 TATAAACTATATATATATAT
58017 AAATTATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 27 0.82
19 3 0.09
20 3 0.09
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
TATAAACTATATATATATAT
Found at i:58040 original size:28 final size:26
Alignment explanation
Indices: 58008--58079 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
57998 ATAAGCTATA
* * *
58008 TATATATATAAATTATGATTATGTGAAC
1 TATATATATAAACTATG--TATATAAAC
58036 TATATATATAAACTATGTATATAAAC
1 TATATATATAAACTATGTATATAAAC
58062 TATATATGTATAAACTAT
1 TATATA--TATAAACTAT
58080 AAAAAGTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 13 0.33
28 26 0.67
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (26 bp):
TATATATATAAACTATGTATATAAAC
Found at i:58051 original size:13 final size:13
Alignment explanation
Indices: 58008--58080 Score: 74
Period size: 13 Copynumber: 5.3 Consensus size: 13
57998 ATAAGCTATA
*
58008 TATATATATAAAT
1 TATATATATAAAC
* *
58021 TATGATTATGTGAAC
1 TAT-A-TATATAAAC
58036 TATATATATAAAC
1 TATATATATAAAC
*
58049 TATGTATATAAAC
1 TATATATATAAAC
58062 TATATATGTATAAAC
1 TATATA--TATAAAC
58077 TATA
1 TATA
58081 AAAAGTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 27 0.55
14 2 0.04
15 20 0.41
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:58069 original size:17 final size:17
Alignment explanation
Indices: 57960--58162 Score: 76
Period size: 17 Copynumber: 11.2 Consensus size: 17
57950 TATAGTTTAC
* *
57960 ATATAAACTATATTTAT
1 ATATAAACTATATATGT
57977 ATTATAAACTATATAAT-T
1 A-TATAAACTATAT-ATGT
* *
57995 ATTATAAGCTATATATAT
1 A-TATAAACTATATATGT
*
58013 ATATAAATTATGATTATGT
1 ATATAAACTAT-A-TATGT
*
58032 GAACTATATATA-TAAACTATGT
1 --A-TATA-A-ACTATA-TATGT
58054 ATATAAACTATATATGT
1 ATATAAACTATATATGT
**
58071 ATAAACTATAAAAAGTATATAGT
1 AT--A-TA-AACTA-TATAT-GT
* * *
58094 TTATAAAATAT-TATTT
1 ATATAAACTATATATGT
* *
58110 ATATTAA-TATAGTATAT
1 ATATAAACTATA-TATGT
58127 ATATATAA--ATATATGT
1 ATATA-AACTATATATGT
58143 ATATAAACTATATATGT
1 ATATAAACTATATATGT
58160 ATA
1 ATA
58163 AATTATATAA
Statistics
Matches: 146, Mismatches: 18, Indels: 44
0.70 0.09 0.21
Matches are distributed among these distances:
15 5 0.03
16 15 0.10
17 44 0.30
18 36 0.25
19 14 0.10
20 5 0.03
21 5 0.03
22 15 0.10
23 6 0.04
24 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (17 bp):
ATATAAACTATATATGT
Found at i:58129 original size:2 final size:2
Alignment explanation
Indices: 58116--58255 Score: 82
Period size: 2 Copynumber: 72.0 Consensus size: 2
58106 ATTTATATTA
* * * *
58116 AT AT AGT AT AT AT AT AT AA AT AT AT GT AT AT AA ACT AT AT AT GT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
58160 AT AA AT -T AT AT A- AA AT AT AT AGT TT AT AT AT -T AT A- AT TT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* *
58199 AT ACT A- AT AT AGT AT AT AT AT GT AT GT AT A- AT -T A- AT AT A-
1 AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58238 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
58256 TAAAGAAACA
Statistics
Matches: 105, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
1 9 0.09
2 88 0.84
3 8 0.08
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:58150 original size:89 final size:88
Alignment explanation
Indices: 58036--58219 Score: 289
Period size: 89 Copynumber: 2.1 Consensus size: 88
58026 TTATGTGAAC
*
58036 TATATATATAAACTATGTATATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAA
1 TATATATATAAAATATGTATATAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAA
* *
58100 AATATTATTTATATTAATATAGTA
65 AATATAATTTATACTAATATAGTA
* *
58124 TATATATATAAATATATGTATATAAACTATATATGTATAAATTATATAAAATATATAGTTTATAT
1 TATATATATAAA-ATATGTATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAA
*
58189 ATTATAATTTATACTAATATAGTA
65 AATATAATTTATACTAATATAGTA
58213 TATATAT
1 TATATAT
58220 GTATGTATAA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 12 0.14
89 72 0.82
90 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (88 bp):
TATATATATAAAATATGTATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAA
ATATAATTTATACTAATATAGTA
Found at i:58216 original size:29 final size:28
Alignment explanation
Indices: 58087--58251 Score: 86
Period size: 33 Copynumber: 5.5 Consensus size: 28
58077 TATAAAAAGT
* * * *
58087 ATATAGTTTATAAAATATTATTTATATTA
1 ATATAGTATATATATTATAATTTATA-TA
* *
58116 ATATAGTATATATA-TATAA-ATATATGT
1 ATATAGTATATATATTATAATTTATAT-A
* *
58143 ATATA-AACTATATATGTATAAATTATATAAAA
1 ATATAGTA-TATATAT-TAT-AATT-TAT-ATA
*
58175 TATATAGTTTATATATTATAATTTATACTA
1 -ATATAGTATATATATTATAATTTATA-TA
*
58205 ATATAGTATATATATGTATGTATAATTAATATA
1 ATATAG--TATATA--TAT-TATAATTTATATA
58238 ATATA-TATATATAT
1 ATATAGTATATATAT
58252 ATATTAAAGA
Statistics
Matches: 106, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
26 2 0.02
27 15 0.14
28 7 0.07
29 22 0.21
30 12 0.11
31 9 0.08
32 6 0.06
33 23 0.22
34 10 0.09
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (28 bp):
ATATAGTATATATATTATAATTTATATA
Found at i:62101 original size:27 final size:27
Alignment explanation
Indices: 62059--62129 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
62049 CGGGTTTTAT
*
62059 TAACAAAACCGGTAAAACGC-CTAATAA
1 TAACAAAACCGATAAAACGCTC-AATAA
*
62086 TAACAAAATCGATAAAACGCTCAATAA
1 TAACAAAACCGATAAAACGCTCAATAA
*
62113 TAATAAAACCGATAAAA
1 TAACAAAACCGATAAAA
62130 ATAATAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.56, C:0.18, G:0.08, T:0.17
Consensus pattern (27 bp):
TAACAAAACCGATAAAACGCTCAATAA
Found at i:63109 original size:6 final size:6
Alignment explanation
Indices: 63098--63132 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
63088 GTTCGGTCTT
63098 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
63133 TTTTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTTCC
Found at i:63139 original size:5 final size:5
Alignment explanation
Indices: 63129--63168 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
63119 TCCCTTTCCC
63129 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCCTT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT-C-T TTTCT TTT
63169 TTTCCCCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 27 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:70544 original size:27 final size:27
Alignment explanation
Indices: 70470--70550 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
70460 GAGTGTTACC
* * *
70470 AAGGATGCCCGCTCCACTCCAACCGCA
1 AAGGATGCCTGCTCAATTCCAACCGCA
*
70497 AAGGATGCCTG-T-GATCCTCCAACCGCA
1 AAGGATGCCTGCTCAAT--TCCAACCGCA
70524 AAGGATGCCTGCTCAATTCCAACCGCA
1 AAGGATGCCTGCTCAATTCCAACCGCA
70551 GAGTCTTGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 41 0.89
28 1 0.02
29 2 0.04
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.16
Consensus pattern (27 bp):
AAGGATGCCTGCTCAATTCCAACCGCA
Found at i:70607 original size:62 final size:63
Alignment explanation
Indices: 70504--70645 Score: 234
Period size: 62 Copynumber: 2.3 Consensus size: 63
70494 GCAAAGGATG
*
70504 CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAATTCCAACCGCAGAGTCTT-GGGTAAT-
1 CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
* *
70565 CCTGGTGATCCTCCAACCGCAAAGGATGCCTGCTCTACTCCAACCGCAGAGTGTTGGGGTAATC
1 CCT-GTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
70629 CCTGTGATCCTCCAACC
1 CCTGTGATCCTCCAACC
70646 CCGGAGTCTT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
61 3 0.04
62 48 0.64
63 21 0.28
64 3 0.04
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.23
Consensus pattern (63 bp):
CCTGTGATCCTCCAACCGCAAAGGATGCCTGCTCAACTCCAACCGCAGAGTCTTGGGGTAATC
Found at i:72298 original size:20 final size:20
Alignment explanation
Indices: 72275--72312 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72265 TTTGAAATAA
72275 ATAAAATCCATTT-TATTAAT
1 ATAAAAT-CATTTGTATTAAT
*
72295 ATAAGATCATTTGTATTA
1 ATAAAATCATTTGTATTA
72313 CTAGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
ATAAAATCATTTGTATTAAT
Found at i:72448 original size:2 final size:2
Alignment explanation
Indices: 72441--72479 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
72431 TATAAGTTTA
72441 AT AT AT 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 AT AT AT A
72480 CATTTATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.