Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004048.1 Hibiscus syriacus cultivar Beakdansim tig00008843_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: 625444
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:35 original size:7 final size:7
Alignment explanation
Indices: 1--4450 Score: 6229
Period size: 7 Copynumber: 652.1 Consensus size: 7
1 CTAAACC
1 CTAAACC
8 C-AAACC
1 CTAAACC
14 CT-AACC
1 CTAAACC
20 CTAAAACC
1 CT-AAACC
28 CTAAACC
1 CTAAACC
35 CTAAACC
1 CTAAACC
*
42 C-GAACC
1 CTAAACC
*
48 CGAAACC
1 CTAAACC
55 CTAAACC
1 CTAAACC
*
62 C-GAACC
1 CTAAACC
*
68 C-GAA-C
1 CTAAACC
*
73 CTAACCCCC
1 CTAA--ACC
*
82 CGAAACC
1 CTAAACC
89 CTAAACC
1 CTAAACC
*
96 C-GAACC
1 CTAAACC
102 CT-AACC
1 CTAAACC
*
108 CGAAACC
1 CTAAACC
115 CTAAACC
1 CTAAACC
122 C-AAACC
1 CTAAACC
*
128 CGAAACC
1 CTAAACC
*
135 CGAAACC
1 CTAAACC
142 CTAAACC
1 CTAAACC
*
149 CGAAACC
1 CTAAACC
156 CTAAACC
1 CTAAACC
*
163 CGAAACC
1 CTAAACC
170 CTAAACC
1 CTAAACC
*
177 CGAAACC
1 CTAAACC
184 CTAAACC
1 CTAAACC
191 CTAAACC
1 CTAAACC
*
198 CGAAACC
1 CTAAACC
205 CTAAACC
1 CTAAACC
212 CTAAA-C
1 CTAAACC
*
218 C-GAACC
1 CTAAACC
224 C-AAACC
1 CTAAACC
*
230 CGAAACC
1 CTAAACC
237 CTAATAACC
1 CT-A-AACC
*
246 CGAAACC
1 CTAAACC
253 CTAAACC
1 CTAAACC
*
260 CGAAACC
1 CTAAACC
*
267 CGAAACC
1 CTAAACC
274 CTAAA-C
1 CTAAACC
*
280 CGAAACC
1 CTAAACC
287 CTAAACCC
1 CTAAA-CC
295 CTAAACC
1 CTAAACC
302 CTAAACC
1 CTAAACC
*
309 CGAAACC
1 CTAAACC
316 CT-AACC
1 CTAAACC
322 CTAAACC
1 CTAAACC
329 CTAAA-C
1 CTAAACC
*
335 C-GAACC
1 CTAAACC
341 C-AAACC
1 CTAAACC
347 CTAAACC
1 CTAAACC
354 CTAAACC
1 CTAAACC
361 CT-AACC
1 CTAAACC
*
367 C-GAACC
1 CTAAACC
373 CTAAA-C
1 CTAAACC
379 CTAAACC
1 CTAAACC
386 CTAAACC
1 CTAAACC
393 CTAAACC
1 CTAAACC
400 CTAAACC
1 CTAAACC
407 CTAAACC
1 CTAAACC
414 CTAAACC
1 CTAAACC
421 C-AAACC
1 CTAAACC
427 CGTAAACC
1 C-TAAACC
*
435 CGAAA-C
1 CTAAACC
441 C-AAACC
1 CTAAACC
447 CTAAACC
1 CTAAACC
454 CTAAACC
1 CTAAACC
461 CTAAACC
1 CTAAACC
468 CTAAACCC
1 CTAAA-CC
*
476 CGAAACC
1 CTAAACC
483 CTAAACC
1 CTAAACC
*
490 CGAAAACC
1 C-TAAACC
498 CT--ACC
1 CTAAACC
503 CTAAACC
1 CTAAACC
510 CT-AACC
1 CTAAACC
516 CTAAA-C
1 CTAAACC
*
522 CGAAACC
1 CTAAACC
529 CTAAACC
1 CTAAACC
536 CTAAACC
1 CTAAACC
*
543 CGAAACC
1 CTAAACC
*
550 CGAAACC
1 CTAAACC
*
557 CGAAACC
1 CTAAACC
564 CTAAACC
1 CTAAACC
571 CT--ACC
1 CTAAACC
*
576 CGAAACC
1 CTAAACC
583 CTAAA-C
1 CTAAACC
589 CTAAACC
1 CTAAACC
596 CTAAAACC
1 CT-AAACC
*
604 C-GAACC
1 CTAAACC
610 C-AAACC
1 CTAAACC
616 CTAAACC
1 CTAAACC
**
623 CCGAACC
1 CTAAACC
630 C-AAACC
1 CTAAACC
636 CTAAACC
1 CTAAACC
643 CTAAACC
1 CTAAACC
650 CT-AACC
1 CTAAACC
656 CTAAACC
1 CTAAACC
*
663 CGAAACC
1 CTAAACC
670 C-AAACC
1 CTAAACC
*
676 CGAAACC
1 CTAAACC
683 CTAAACC
1 CTAAACC
690 CTAAACC
1 CTAAACC
697 CT-AACC
1 CTAAACC
703 CTAAACC
1 CTAAACC
*
710 CGAAA-C
1 CTAAACC
716 CTAAACC
1 CTAAACC
723 CTAAACC
1 CTAAACC
*
730 CTAACCC
1 CTAAACC
737 CTAAACC
1 CTAAACC
744 CTAAACC
1 CTAAACC
*
751 CGAAACCCCC
1 CTAAA---CC
761 CTAAAAACC
1 CT--AAACC
770 C--AACC
1 CTAAACC
775 CTAAACC
1 CTAAACC
*
782 CGAAACC
1 CTAAACC
789 CTAAACC
1 CTAAACC
796 CTAAACC
1 CTAAACC
803 CTAAACC
1 CTAAACC
810 CTAAAACC
1 CT-AAACC
818 CT--ACC
1 CTAAACC
*
823 CGAAACC
1 CTAAACC
*
830 C-AAA-A
1 CTAAACC
835 C-AAACC
1 CTAAACC
841 CT-AACC
1 CTAAACC
847 CTAAACC
1 CTAAACC
854 C-AAACC
1 CTAAACC
860 CT-AACC
1 CTAAACC
866 CTAAACC
1 CTAAACC
873 CTAAACC
1 CTAAACC
880 CTAAACC
1 CTAAACC
887 CTAAACC
1 CTAAACC
*
894 C-CAACC
1 CTAAACC
900 CTAAACC
1 CTAAACC
907 CTAAACC
1 CTAAACC
914 CT-AACC
1 CTAAACC
920 CTAAACC
1 CTAAACC
927 CTAAACC
1 CTAAACC
934 CTAAACC
1 CTAAACC
941 CT-AACC
1 CTAAACC
947 C-AAACC
1 CTAAACC
*
953 CAAAACC
1 CTAAACC
960 C--AACC
1 CTAAACC
965 CT-AACC
1 CTAAACC
*
971 CGAAACC
1 CTAAACC
*
978 C-GAACC
1 CTAAACC
984 CT-AACC
1 CTAAACC
990 CTAAACC
1 CTAAACC
*
997 CGAAACC
1 CTAAACC
*
1004 CGAAACC
1 CTAAACC
*
1011 CGAAACC
1 CTAAACC
1018 CTAAACC
1 CTAAACC
1025 CTAAACC
1 CTAAACC
*
1032 CGAAA--
1 CTAAACC
*
1037 -AAAACC
1 CTAAACC
1043 CTAAACC
1 CTAAACC
*
1050 CGAAACC
1 CTAAACC
1057 CTAAACC
1 CTAAACC
1064 CTAAACC
1 CTAAACC
1071 CTAAACC
1 CTAAACC
1078 CTAAACC
1 CTAAACC
1085 CTAAACCC
1 CTAAA-CC
1093 CTAAACC
1 CTAAACC
*
1100 CGAAACC
1 CTAAACC
*
1107 CGAAACC
1 CTAAACC
*
1114 CGAAACC
1 CTAAACC
*
1121 CGAAAACC
1 C-TAAACC
1129 CTAAACC
1 CTAAACC
*
1136 CGAAACC
1 CTAAACC
*
1143 CGAAACC
1 CTAAACC
1150 CT-AACC
1 CTAAACC
1156 CTAAACC
1 CTAAACC
*
1163 CGAAACC
1 CTAAACC
1170 CTAAACC
1 CTAAACC
*
1177 CGAAACC
1 CTAAACC
*
1184 CGAAACC
1 CTAAACC
* *
1191 CGAACCCC
1 CTAA-ACC
*
1199 CGAAACC
1 CTAAACC
1206 CTAAACC
1 CTAAACC
*
1213 CGAAACC
1 CTAAACC
1220 CT-AACC
1 CTAAACC
*
1226 CGAAACC
1 CTAAACC
1233 CTAAACCC
1 CTAAA-CC
1241 CTAAACC
1 CTAAACC
1248 CTAAACC
1 CTAAACC
1255 CTAAACC
1 CTAAACC
*
1262 CGAAACC
1 CTAAACC
*
1269 CGAAACC
1 CTAAACC
1276 CTAAACC
1 CTAAACC
*
1283 C-GAACC
1 CTAAACC
1289 CT-AACC
1 CTAAACC
1295 CTAAACC
1 CTAAACC
1302 CTAAACC
1 CTAAACC
1309 CTAAACC
1 CTAAACC
*
1316 CGAAACC
1 CTAAACC
1323 CTAAA-C
1 CTAAACC
*
1329 CGAAA-C
1 CTAAACC
*
1335 CGAAACC
1 CTAAACC
*
1342 C-GAACC
1 CTAAACC
1348 CTAAACC
1 CTAAACC
1355 CTAAACC
1 CTAAACC
1362 CT-AACC
1 CTAAACC
1368 CTAAACC
1 CTAAACC
*
1375 CGAAACC
1 CTAAACC
1382 CTAAACC
1 CTAAACC
1389 C-AAACC
1 CTAAACC
1395 CTAAACC
1 CTAAACC
1402 CTAAACC
1 CTAAACC
*
1409 CGAAACC
1 CTAAACC
1416 C-AAACC
1 CTAAACC
*
1422 CGAAACC
1 CTAAACC
1429 CTAAACC
1 CTAAACC
*
1436 CGAAACC
1 CTAAACC
1443 CTAAACC
1 CTAAACC
*
1450 C-GAA-C
1 CTAAACC
1455 CTAAACC
1 CTAAACC
1462 CT-AACC
1 CTAAACC
*
1468 CGAAACC
1 CTAAACC
1475 CTAAACC
1 CTAAACC
*
1482 CGAAAAACC
1 C--TAAACC
*
1491 C-GAACC
1 CTAAACC
1497 CTAAACC
1 CTAAACC
1504 CTAAACC
1 CTAAACC
1511 CTAAACC
1 CTAAACC
*
1518 CGAAACC
1 CTAAACC
1525 CTAAACC
1 CTAAACC
*
1532 CGAAACC
1 CTAAACC
*
1539 CGAAACC
1 CTAAACC
*
1546 CGAAACC
1 CTAAACC
1553 C-AAACC
1 CTAAACC
*
1559 CGAAACC
1 CTAAACC
1566 CTAAACC
1 CTAAACC
*
1573 CGAAACC
1 CTAAACC
*
1580 CGAAACC
1 CTAAACC
*
1587 CGAAACC
1 CTAAACC
*
1594 CGAAACC
1 CTAAACC
1601 CTAAACC
1 CTAAACC
*
1608 CGAAACC
1 CTAAACC
*
1615 CGAAACC
1 CTAAACC
*
1622 CGAAACC
1 CTAAACC
*
1629 C-GAACC
1 CTAAACC
1635 C-AAACC
1 CTAAACC
1641 CTAAA-C
1 CTAAACC
*
1647 CGAAACC
1 CTAAACC
1654 CTAAACC
1 CTAAACC
1661 CTAAACC
1 CTAAACC
1668 CT-AACC
1 CTAAACC
1674 CTAAACC
1 CTAAACC
*
1681 CGAAACC
1 CTAAACC
*
1688 CGAAACC
1 CTAAACC
*
1695 C-GAACC
1 CTAAACC
*
1701 CGAAACC
1 CTAAACC
1708 CTAAACC
1 CTAAACC
*
1715 CGAAACC
1 CTAAACC
1722 CTAAACC
1 CTAAACC
*
1729 CGAAACCCCC
1 CTAAA---CC
1739 CT-AACC
1 CTAAACC
*
1745 CGAAACC
1 CTAAACC
*
1752 CGAAACC
1 CTAAACC
*
1759 CGAAACC
1 CTAAACC
1766 CTAAACC
1 CTAAACC
1773 CTAAACC
1 CTAAACC
1780 CTAAACC
1 CTAAACC
*
1787 CGAAACC
1 CTAAACC
1794 CTAAACC
1 CTAAACC
1801 CTAAACC
1 CTAAACC
*
1808 CGAAACC
1 CTAAACC
1815 CTAAACC
1 CTAAACC
1822 CTAAACC
1 CTAAACC
1829 CTAAACC
1 CTAAACC
1836 CTAAACC
1 CTAAACC
1843 CTAAACC
1 CTAAACC
1850 CT-AACC
1 CTAAACC
1856 CTAAACC
1 CTAAACC
1863 C-AAACC
1 CTAAACC
1869 CT-AACC
1 CTAAACC
1875 CTAAACC
1 CTAAACC
*
1882 CGAAACC
1 CTAAACC
1889 CTAAACC
1 CTAAACC
1896 CTAAACC
1 CTAAACC
1903 CTAAACC
1 CTAAACC
1910 CT-AACC
1 CTAAACC
1916 CTAAACC
1 CTAAACC
1923 CTAAA-C
1 CTAAACC
1929 C-AAACC
1 CTAAACC
*
1935 CGAAACC
1 CTAAACC
*
1942 C-GAACC
1 CTAAACC
1948 CTAAACC
1 CTAAACC
1955 CTAAACC
1 CTAAACC
1962 CTAAA-C
1 CTAAACC
*
1968 C--GACC
1 CTAAACC
1973 CTAAACC
1 CTAAACC
1980 CTAAACC
1 CTAAACC
*
1987 CAAAAACC
1 C-TAAACC
1995 CTAAACC
1 CTAAACC
2002 CTAAACC
1 CTAAACC
2009 CTAAAACC
1 CT-AAACC
2017 CTAAA-C
1 CTAAACC
*
2023 CGAAACC
1 CTAAACC
2030 CTAAACC
1 CTAAACC
2037 CTAAA-C
1 CTAAACC
2043 C-AAACC
1 CTAAACC
2049 CT-AACC
1 CTAAACC
2055 CTAAACC
1 CTAAACC
2062 CTAAACC
1 CTAAACC
*
2069 CGAAAACC
1 C-TAAACC
2077 CTAAACC
1 CTAAACC
2084 CT-AACC
1 CTAAACC
2090 CTAAACC
1 CTAAACC
2097 CTAAACC
1 CTAAACC
*
2104 CGAAACC
1 CTAAACC
*
2111 CGAAACC
1 CTAAACC
2118 CTAAACC
1 CTAAACC
2125 CT-AACC
1 CTAAACC
2131 CTAAACC
1 CTAAACC
2138 CTAAACC
1 CTAAACC
2145 CTAAA-C
1 CTAAACC
2151 CTAAACC
1 CTAAACC
2158 CTAAACC
1 CTAAACC
2165 CTAAACC
1 CTAAACC
*
2172 CGAAACC
1 CTAAACC
2179 CTAAACC
1 CTAAACC
2186 CTAAAACC
1 CT-AAACC
2194 CTAAACC
1 CTAAACC
*
2201 CGAAACC
1 CTAAACC
2208 CTAAACC
1 CTAAACC
*
2215 CGAAACC
1 CTAAACC
*
2222 CGAAACC
1 CTAAACC
*
2229 CAAAAACC
1 C-TAAACC
2237 C-AAACC
1 CTAAACC
2243 CTAAACC
1 CTAAACC
2250 CTAAACC
1 CTAAACC
2257 CTAAACC
1 CTAAACC
2264 CTAAACC
1 CTAAACC
2271 CTAAAAAACC
1 CT---AAACC
2281 CTAAACC
1 CTAAACC
2288 CTAAACC
1 CTAAACC
2295 CTAAACC
1 CTAAACC
*
2302 CGAAACC
1 CTAAACC
2309 CTAAACC
1 CTAAACC
2316 CTAAACC
1 CTAAACC
*
2323 CGAAACC
1 CTAAACC
2330 CTAAACC
1 CTAAACC
2337 C-AAACC
1 CTAAACC
2343 C---ACC
1 CTAAACC
2347 CTAAACC
1 CTAAACC
*
2354 CGAAACC
1 CTAAACC
2361 C-AAACC
1 CTAAACC
2367 CTAAACC
1 CTAAACC
2374 CTAAACC
1 CTAAACC
2381 CTAAACC
1 CTAAACC
2388 CTAAACC
1 CTAAACC
*
2395 CGAAACC
1 CTAAACC
2402 CTAAACC
1 CTAAACC
2409 CTAAACC
1 CTAAACC
2416 CTAAACC
1 CTAAACC
2423 CTAAACC
1 CTAAACC
2430 CTAAACC
1 CTAAACC
2437 CT-AACC
1 CTAAACC
2443 CTAAACC
1 CTAAACC
2450 CT-AACC
1 CTAAACC
2456 CTAAACC
1 CTAAACC
*
2463 CGAAACC
1 CTAAACC
2470 CTAAACC
1 CTAAACC
2477 CTAAACC
1 CTAAACC
2484 CTAAACC
1 CTAAACC
2491 CTAAACC
1 CTAAACC
2498 CTAAACC
1 CTAAACC
2505 CTAAACC
1 CTAAACC
2512 CTAAACC
1 CTAAACC
2519 CTAAACC
1 CTAAACC
2526 C-AAACC
1 CTAAACC
2532 CTAAACC
1 CTAAACC
2539 CT-AACC
1 CTAAACC
2545 CTAAACC
1 CTAAACC
2552 C-AAA-C
1 CTAAACC
2557 C-AAACC
1 CTAAACC
2563 CTAAACC
1 CTAAACC
*
2570 CGAAACC
1 CTAAACC
2577 CTAAACC
1 CTAAACC
2584 CTAAACC
1 CTAAACC
2591 CTAAACC
1 CTAAACC
2598 CTAAACC
1 CTAAACC
2605 CTAAACC
1 CTAAACC
*
2612 CGAAACC
1 CTAAACC
*
2619 CGAAACC
1 CTAAACC
2626 CTAAACC
1 CTAAACC
2633 CTAAACC
1 CTAAACC
*
2640 C-GAACC
1 CTAAACC
2646 CTAAACC
1 CTAAACC
2653 CTAAACC
1 CTAAACC
2660 CTAAACC
1 CTAAACC
2667 C--AACC
1 CTAAACC
2672 C-AAACC
1 CTAAACC
2678 CT-AACC
1 CTAAACC
2684 CTAAACC
1 CTAAACC
2691 C-AAACC
1 CTAAACC
2697 CTAAACC
1 CTAAACC
2704 CTAAACC
1 CTAAACC
2711 CTAAACC
1 CTAAACC
2718 CTAAACC
1 CTAAACC
2725 CTAAACC
1 CTAAACC
2732 CTAAACCC
1 CTAAA-CC
2740 CTAAACC
1 CTAAACC
2747 CTAAACC
1 CTAAACC
2754 CTAAACC
1 CTAAACC
2761 CT-AACC
1 CTAAACC
2767 CTAAACC
1 CTAAACC
2774 CTAAACC
1 CTAAACC
*
2781 CTAAAAAC
1 CT-AAACC
*
2789 CGAAACC
1 CTAAACC
2796 CTAAACC
1 CTAAACC
2803 CTAAACC
1 CTAAACC
2810 CTAAACC
1 CTAAACC
2817 CTAAACC
1 CTAAACC
2824 CTAAACC
1 CTAAACC
2831 CT-AACC
1 CTAAACC
2837 CTAAACC
1 CTAAACC
2844 CTAAACC
1 CTAAACC
2851 CTAAACC
1 CTAAACC
2858 CT-AACC
1 CTAAACC
2864 CTAAACC
1 CTAAACC
2871 CTAAACC
1 CTAAACC
2878 CTAAACC
1 CTAAACC
2885 CTAAACC
1 CTAAACC
2892 CTAAACC
1 CTAAACC
2899 CTAAACC
1 CTAAACC
2906 CTAAACC
1 CTAAACC
2913 CTAAACC
1 CTAAACC
2920 CTAAACC
1 CTAAACC
2927 CTAAACC
1 CTAAACC
2934 CTAAACC
1 CTAAACC
2941 CTAAACC
1 CTAAACC
2948 C-AAACC
1 CTAAACC
2954 CTAAACC
1 CTAAACC
2961 CTAAACC
1 CTAAACC
2968 CTAAACC
1 CTAAACC
2975 CTAAACC
1 CTAAACC
2982 CTAAA-C
1 CTAAACC
2988 C-AAACC
1 CTAAACC
2994 CT-AACC
1 CTAAACC
3000 CTAAACC
1 CTAAACC
3007 CTAAACC
1 CTAAACC
3014 C-AAACC
1 CTAAACC
3020 CTAAACC
1 CTAAACC
3027 CTAAACC
1 CTAAACC
3034 CTAAACC
1 CTAAACC
3041 CTAAACC
1 CTAAACC
3048 CTAAACC
1 CTAAACC
3055 CTAAACC
1 CTAAACC
*
3062 CGAAACC
1 CTAAACC
3069 CTAAACC
1 CTAAACC
*
3076 CGAAA-C
1 CTAAACC
3082 CTAAACC
1 CTAAACC
3089 CTAAACC
1 CTAAACC
3096 CTAAACC
1 CTAAACC
3103 CTAAACC
1 CTAAACC
*
3110 CGAAACC
1 CTAAACC
3117 CTAAACC
1 CTAAACC
3124 CTAAACC
1 CTAAACC
3131 CTAAACC
1 CTAAACC
*
3138 CGAAACC
1 CTAAACC
3145 CTAAAACC
1 CT-AAACC
*
3153 CGAAACC
1 CTAAACC
3160 CT-AACC
1 CTAAACC
3166 CTAAACC
1 CTAAACC
3173 CT-AACC
1 CTAAACC
3179 CTAAACC
1 CTAAACC
3186 CTAAACC
1 CTAAACC
3193 CTAAACC
1 CTAAACC
3200 CTAAACC
1 CTAAACC
3207 CTAAACC
1 CTAAACC
3214 CTAAACC
1 CTAAACC
*
3221 CAAAACC
1 CTAAACC
3228 CTAAACC
1 CTAAACC
3235 CTAAACCC
1 CTAAA-CC
3243 CTAAACC
1 CTAAACC
3250 CTAAACC
1 CTAAACC
3257 CTAAACC
1 CTAAACC
3264 CTAAACC
1 CTAAACC
3271 CTAAACC
1 CTAAACC
3278 CTAAACC
1 CTAAACC
3285 CT-AACC
1 CTAAACC
3291 C-AAACC
1 CTAAACC
3297 C--AACC
1 CTAAACC
3302 CTAAACC
1 CTAAACC
3309 CT-AA-C
1 CTAAACC
3314 CTAAACC
1 CTAAACC
3321 CTAAACC
1 CTAAACC
3328 CTAAACC
1 CTAAACC
3335 CTAAACC
1 CTAAACC
3342 CTAAACC
1 CTAAACC
3349 CTAAACC
1 CTAAACC
3356 CTAAACC
1 CTAAACC
3363 CT-AACC
1 CTAAACC
3369 CTAAACC
1 CTAAACC
*
3376 CGAAACC
1 CTAAACC
3383 CTAAACC
1 CTAAACC
3390 CTAAACC
1 CTAAACC
3397 CTAAACC
1 CTAAACC
3404 CTAAACC
1 CTAAACC
3411 CTAAAAACC
1 CT--AAACC
3420 CTAAACC
1 CTAAACC
3427 C--AACC
1 CTAAACC
3432 CT-AACC
1 CTAAACC
3438 CTAAACC
1 CTAAACC
3445 CTAAACC
1 CTAAACC
3452 CTAAACC
1 CTAAACC
3459 CTAAACC
1 CTAAACC
3466 CTAAACC
1 CTAAACC
3473 CTAAACC
1 CTAAACC
3480 CTAAACC
1 CTAAACC
3487 CT-AACC
1 CTAAACC
3493 CTAAACC
1 CTAAACC
3500 CTAAACC
1 CTAAACC
3507 CTAAACC
1 CTAAACC
3514 CTAAACC
1 CTAAACC
3521 CTAAACC
1 CTAAACC
3528 CTAAACC
1 CTAAACC
3535 C-AAACC
1 CTAAACC
3541 CTAAACC
1 CTAAACC
3548 CTAAACC
1 CTAAACC
3555 CT-AACC
1 CTAAACC
3561 CTAAACC
1 CTAAACC
3568 CTAAACC
1 CTAAACC
3575 CTAAACC
1 CTAAACC
3582 CTAAACC
1 CTAAACC
3589 CTAAACC
1 CTAAACC
3596 CTAAACC
1 CTAAACC
3603 CTAAACC
1 CTAAACC
3610 C--AACC
1 CTAAACC
3615 CTAAACC
1 CTAAACC
3622 CTAAACC
1 CTAAACC
3629 CTAAACC
1 CTAAACC
3636 CT-AACC
1 CTAAACC
3642 CTAAACC
1 CTAAACC
3649 CTAAACC
1 CTAAACC
3656 CT-AA-C
1 CTAAACC
3661 C-AAACC
1 CTAAACC
3667 CTAAACC
1 CTAAACC
3674 CT-AACC
1 CTAAACC
3680 CTAAACC
1 CTAAACC
3687 CTAAACC
1 CTAAACC
3694 CT-AACC
1 CTAAACC
3700 CTAAACC
1 CTAAACC
3707 CTAAACC
1 CTAAACC
3714 CTAAACC
1 CTAAACC
3721 CTAAACC
1 CTAAACC
3728 CTAAACC
1 CTAAACC
3735 CTAAACC
1 CTAAACC
3742 CTAAACC
1 CTAAACC
3749 CTAAACC
1 CTAAACC
3756 CT-AACC
1 CTAAACC
3762 CTAAACC
1 CTAAACC
3769 CTAAACC
1 CTAAACC
3776 CTAAACC
1 CTAAACC
3783 CTAAACC
1 CTAAACC
3790 CTAAACC
1 CTAAACC
3797 CTAAACC
1 CTAAACC
3804 CTAAACC
1 CTAAACC
3811 CTAAACC
1 CTAAACC
3818 CTAAACC
1 CTAAACC
3825 CTAAACC
1 CTAAACC
3832 CTAAACC
1 CTAAACC
3839 CTAAACC
1 CTAAACC
3846 CTAAACC
1 CTAAACC
3853 CTAAACC
1 CTAAACC
3860 CTAAACC
1 CTAAACC
3867 CTAAACC
1 CTAAACC
3874 CTAAACC
1 CTAAACC
3881 CTAAACC
1 CTAAACC
3888 CTAAACC
1 CTAAACC
3895 CT-AACC
1 CTAAACC
3901 CTAAACC
1 CTAAACC
3908 CTAAACC
1 CTAAACC
3915 CTAAACC
1 CTAAACC
3922 CTAAACC
1 CTAAACC
3929 CTAAACC
1 CTAAACC
3936 CT-AACC
1 CTAAACC
3942 CTAAACC
1 CTAAACC
3949 CTAAACC
1 CTAAACC
3956 CTAAACC
1 CTAAACC
3963 CTAAACC
1 CTAAACC
3970 CTAAACC
1 CTAAACC
3977 CTAAACC
1 CTAAACC
3984 CTAAACC
1 CTAAACC
3991 CTAAACC
1 CTAAACC
3998 CTAAACC
1 CTAAACC
4005 CTAAACC
1 CTAAACC
4012 CTAAACC
1 CTAAACC
4019 CT-AACC
1 CTAAACC
4025 CTAAACC
1 CTAAACC
4032 CTAAACC
1 CTAAACC
4039 CTAAACC
1 CTAAACC
4046 CTAAACC
1 CTAAACC
4053 CTAAACC
1 CTAAACC
4060 CTAAACC
1 CTAAACC
4067 CTAAACC
1 CTAAACC
4074 CTAAACC
1 CTAAACC
4081 CTAAACC
1 CTAAACC
4088 CTAAACC
1 CTAAACC
4095 CTAAACC
1 CTAAACC
4102 CTAAACC
1 CTAAACC
4109 CTAAACC
1 CTAAACC
4116 CTAAACC
1 CTAAACC
4123 CTAAACC
1 CTAAACC
4130 CTAAACC
1 CTAAACC
4137 CT-AACC
1 CTAAACC
4143 CTAAACC
1 CTAAACC
4150 CTAAACC
1 CTAAACC
4157 CTAAACC
1 CTAAACC
4164 CTAAACC
1 CTAAACC
4171 CTAAACC
1 CTAAACC
4178 CTAAACC
1 CTAAACC
4185 CTAAACC
1 CTAAACC
4192 CTAAACC
1 CTAAACC
4199 CTAAACC
1 CTAAACC
4206 CTAAACC
1 CTAAACC
4213 CTAAACC
1 CTAAACC
4220 CTAAACC
1 CTAAACC
4227 CTAAACC
1 CTAAACC
4234 CTAAACC
1 CTAAACC
4241 CT-AACC
1 CTAAACC
4247 CTAAACC
1 CTAAACC
4254 CTAAACC
1 CTAAACC
4261 CTAAACC
1 CTAAACC
4268 CTAAACC
1 CTAAACC
4275 CTAAACC
1 CTAAACC
4282 CTAAACC
1 CTAAACC
4289 CTAAACC
1 CTAAACC
4296 CTAAACC
1 CTAAACC
4303 CTAAACC
1 CTAAACC
4310 CTAAACC
1 CTAAACC
4317 CTAAACC
1 CTAAACC
4324 CTAAACC
1 CTAAACC
4331 CTAAACC
1 CTAAACC
4338 CTAAACC
1 CTAAACC
4345 CTAAACC
1 CTAAACC
4352 CTAAACC
1 CTAAACC
4359 CTAAACC
1 CTAAACC
4366 CTAAACC
1 CTAAACC
4373 CTAAACC
1 CTAAACC
4380 CTAAACC
1 CTAAACC
4387 CTAAACC
1 CTAAACC
4394 CTAAACC
1 CTAAACC
4401 CTAAACC
1 CTAAACC
4408 CTAAACC
1 CTAAACC
4415 CTAAACC
1 CTAAACC
4422 CTAAACC
1 CTAAACC
4429 CTAAACC
1 CTAAACC
4436 CTAAACC
1 CTAAACC
4443 CTAAACC
1 CTAAACC
4450 C
1 C
4451 CGGACCCCGG
Statistics
Matches: 4074, Mismatches: 189, Indels: 360
0.88 0.04 0.08
Matches are distributed among these distances:
4 8 0.00
5 81 0.02
6 612 0.15
7 3201 0.79
8 129 0.03
9 27 0.01
10 13 0.00
12 3 0.00
ACGTcount: A:0.43, C:0.44, G:0.03, T:0.11
Consensus pattern (7 bp):
CTAAACC
Found at i:4457 original size:7 final size:7
Alignment explanation
Indices: 4447--4509 Score: 126
Period size: 7 Copynumber: 9.0 Consensus size: 7
4437 TAAACCCTAA
4447 ACCCCGG
1 ACCCCGG
4454 ACCCCGG
1 ACCCCGG
4461 ACCCCGG
1 ACCCCGG
4468 ACCCCGG
1 ACCCCGG
4475 ACCCCGG
1 ACCCCGG
4482 ACCCCGG
1 ACCCCGG
4489 ACCCCGG
1 ACCCCGG
4496 ACCCCGG
1 ACCCCGG
4503 ACCCCGG
1 ACCCCGG
4510 TGTTTGAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.14, C:0.57, G:0.29, T:0.00
Consensus pattern (7 bp):
ACCCCGG
Found at i:5433 original size:18 final size:18
Alignment explanation
Indices: 5410--5444 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5400 AGCAAAAGGC
*
5410 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
5428 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
5445 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:5640 original size:20 final size:20
Alignment explanation
Indices: 5615--5848 Score: 191
Period size: 20 Copynumber: 12.7 Consensus size: 20
5605 TTACACATTC
* *
5615 ATTTGAATATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
5635 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* * *
5654 A----A-AATCACAACGGGA
1 ATTTGACTATCGCAACGCGA
5669 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
5688 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5703 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
5723 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
5743 ATTTAACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
5763 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
5783 ATTTGACTATCGCAA--CGA
1 ATTTGACTATCGCAACGCGA
* * *
5801 A--AGA--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
5817 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5837 A-TTGACTTTCGC
1 ATTTGACTATCGC
5849 GTTGCGATTT
Statistics
Matches: 171, Mismatches: 25, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
14 25 0.15
15 6 0.04
16 5 0.03
18 6 0.04
19 15 0.09
20 114 0.67
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:5735 original size:40 final size:40
Alignment explanation
Indices: 5615--5848 Score: 191
Period size: 34 Copynumber: 6.3 Consensus size: 40
5605 TTACACATTC
* *
5615 ATTTGAATATCACAACGCGAATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
* * *
5654 A----A-AATCACAACGGGAATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
* *
5688 A----A-AATCGCAACGCGAATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
* *
5723 ATTTGACTATCGCAACGCGAATTTAACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
* *
5763 ATTTGATTATCGCAACGGGAATTTGACTATCGCAA--CGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
* * * *
5801 A--AGA--ATCGCAAAGCGTATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
*
5837 A-TTGACTTTCGC
1 ATTTGACTATCGC
5849 GTTGCGATTT
Statistics
Matches: 164, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
34 83 0.51
35 3 0.02
36 6 0.04
37 2 0.01
38 3 0.02
39 6 0.04
40 61 0.37
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (40 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
Found at i:5785 original size:60 final size:54
Alignment explanation
Indices: 5657--5848 Score: 217
Period size: 54 Copynumber: 3.5 Consensus size: 54
5647 CAACGCAAAA
5657 ATCACAACGGGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
1 ATCACAACGGGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
* * *
5711 ATCACAACGCGAATTTGACTATCGCAACGCGAATTTAACTATCGCAACGTGAATTTGATT
1 ATCACAACGGGAATTTGACTATCGCAACGC-AA---AA--ATCGCAACGCGAATTTGACT
* * * *
5771 ATCGCAACGGGAATTTGACTATCGCAACG-AAAGAATCGCAAAGCGTATTAGACT
1 ATCACAACGGGAATTTGACTATCGCAACGCAAA-AATCGCAACGCGAATTTGACT
* * *
5825 ATCGCAACGCGAA-TTGACTTTCGC
1 ATCACAACGGGAATTTGACTATCGC
5849 GTTGCGATTT
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
53 10 0.08
54 56 0.47
55 3 0.03
56 1 0.01
58 4 0.03
60 45 0.38
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (54 bp):
ATCACAACGGGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
Found at i:5901 original size:20 final size:20
Alignment explanation
Indices: 5838--5915 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
5828 GCAACGCGAA
*
5838 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
5858 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
5878 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
5898 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
5916 AAGTGTACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:6072 original size:64 final size:67
Alignment explanation
Indices: 5967--6143 Score: 173
Period size: 64 Copynumber: 2.6 Consensus size: 67
5957 GATTGAAATC
** * ** *
5967 AACAAATCAACTTTTACATTTCAATCAATTAAACAACAAATAAGAAT-TATTTA-T-ACATCAAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAATATATTTATTCACATCAAT
6029 TA
66 TA
* * * *
6031 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATAATAATTTTTATTTTCCTCAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAAT-ATATTTA--TT-CACAT
6096 CAATTA
62 CAATTA
*
6102 AACAAATCAGACTTTTA-AGAATCAATTAAACAATCAAAAAAT
1 AACAAATCA-ACTTTTACA-AATCAATTAAACAAACAAAAAAT
6144 GTGTACCCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
64 39 0.42
66 5 0.05
69 1 0.01
71 19 0.20
72 29 0.31
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.31
Consensus pattern (67 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAATATATTTATTCACATCAAT
TA
Found at i:8062 original size:20 final size:20
Alignment explanation
Indices: 8037--8079 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
8027 ATAGTTTCTT
8037 AAACTTAAAATCGCAACACG
1 AAACTTAAAATCGCAACACG
*
8057 AAACTTAAAATCGCAACGCG
1 AAACTTAAAATCGCAACACG
8077 AAA
1 AAA
8080 ATGACTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (20 bp):
AAACTTAAAATCGCAACACG
Found at i:8089 original size:20 final size:20
Alignment explanation
Indices: 8066--8134 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
8056 GAAACTTAAA
8066 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
8086 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
8106 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
8126 ATCGCAACG
1 ATCGCAACG
8135 GGATAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:8152 original size:34 final size:37
Alignment explanation
Indices: 8065--8153 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 37
8055 CGAAACTTAA
8065 AATCGCAACGCGAAAATGACTATCGCAACGCGGAAATG
1 AATCGCAACGCGAAAATGACTATCGCAACGCGG-AATG
**
8103 ACTATCGCAACGCGAATTTGACTATCGCAACG-GG-AT-
1 A--ATCGCAACGCGAAAATGACTATCGCAACGCGGAATG
*
8139 AATCGCAATGCGAAA
1 AATCGCAACGCGAAA
8154 TAAAAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 12 0.27
36 1 0.02
37 2 0.04
38 1 0.02
39 2 0.04
40 27 0.60
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (37 bp):
AATCGCAACGCGAAAATGACTATCGCAACGCGGAATG
Found at i:8215 original size:19 final size:19
Alignment explanation
Indices: 8171--8215 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8161 CGCAAAGAGA
8171 AAATT-GCAACACGAAACC
1 AAATTCGCAACACGAAACC
* * *
8189 AAAATCGCAACGCGAAACT
1 AAATTCGCAACACGAAACC
8208 AAATTCGC
1 AAATTCGC
8216 GTTGCGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (19 bp):
AAATTCGCAACACGAAACC
Found at i:8244 original size:20 final size:20
Alignment explanation
Indices: 8211--8248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8201 CGAAACTAAA
*
8211 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
*
8231 TTCGCATTGTGATTTTCA
1 TTCGCATTGCGATTTTCA
8249 CGTTGTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:8286 original size:33 final size:34
Alignment explanation
Indices: 8215--8302 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 34
8205 ACTAAATTCG
* *
8215 CGTTGCGATTTTCATTTTCGCATTGTGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* * * *
8249 CGTTGTGATTTTTA-TTTCGTATTGCGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
**
8282 CGTTGCGATAGTCATTTTCGC
1 CGTTGCGATTTTCATTTTCGC
8303 GTTACGATAG
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 25 0.60
34 17 0.40
ACGTcount: A:0.15, C:0.18, G:0.19, T:0.48
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:8310 original size:20 final size:20
Alignment explanation
Indices: 8282--8325 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
8272 GCGATTATCC
*
8282 CGTTGCGATAGTCATTTTCG
1 CGTTACGATAGTCATTTTCG
8302 CGTTACGATAGTCATTTTCG
1 CGTTACGATAGTCATTTTCG
8322 CGTT
1 CGTT
8326 GCGGTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTACGATAGTCATTTTCG
Found at i:10272 original size:20 final size:20
Alignment explanation
Indices: 10249--10353 Score: 108
Period size: 19 Copynumber: 5.4 Consensus size: 20
10239 TCTGAAACTT
*
10249 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
10269 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** * *
10289 ACTATCGTAATGC-AAAATG
1 AAAATCGCAACGCGAAAATG
* *
10308 AAAATCGCAATGCGAAACT-
1 AAAATCGCAACGCGAAAATG
*
10327 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
10346 AAAATCGC
1 AAAATCGC
10354 GTTGCGATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
19 42 0.57
20 32 0.43
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:10755 original size:22 final size:22
Alignment explanation
Indices: 10729--10782 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
10719 GAGATAAACA
10729 GATTTCGCCAGAGATGGGGACG
1 GATTTCGCCAGAGATGGGGACG
* *
10751 GATTTCGTCGGAGATGGGGACG
1 GATTTCGCCAGAGATGGGGACG
*
10773 GATGTCGCCA
1 GATTTCGCCA
10783 TAGAGGGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.20
Consensus pattern (22 bp):
GATTTCGCCAGAGATGGGGACG
Found at i:11017 original size:41 final size:40
Alignment explanation
Indices: 10971--11055 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
10961 AAATCGCAAC
* *
10971 GCGAATTTGGAAAATCATAATGCGATAGTCA-AAATCGCGTT
1 GCGAATCTGGAAAATCAT-ATGCGATAAT-AGAAATCGCGTT
* * *
11012 GCGAATCTGGAAACTGATATGCGATAATAGAGATCGCGTT
1 GCGAATCTGGAAAATCATATGCGATAATAGAAATCGCGTT
11052 GCGA
1 GCGA
11056 TTTAGTGATC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 1 0.03
40 22 0.58
41 15 0.39
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (40 bp):
GCGAATCTGGAAAATCATATGCGATAATAGAAATCGCGTT
Found at i:11067 original size:19 final size:19
Alignment explanation
Indices: 11039--11096 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
11029 TATGCGATAA
11039 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCGTTGCGATT
* *
11058 TAGTGATCGCGTTGCGGTT
1 TAGAGATCGCGTTGCGATT
*
11077 TAGAGATCGCATTGCGATT
1 TAGAGATCGCGTTGCGATT
11096 T
1 T
11097 TGTTGGTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (19 bp):
TAGAGATCGCGTTGCGATT
Found at i:16694 original size:13 final size:13
Alignment explanation
Indices: 16676--16704 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16666 AGCTAGCTAC
16676 TTTATATGTTAGT
1 TTTATATGTTAGT
16689 TTTATATGTTAGT
1 TTTATATGTTAGT
16702 TTT
1 TTT
16705 TTTTAGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTATATGTTAGT
Found at i:28390 original size:15 final size:16
Alignment explanation
Indices: 28352--28391 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
28342 TCAGAGCCTC
*
28352 TGAATCATTCAACATT
1 TGAATCATTCAACACT
*
28368 TGAATCATTCAACGCT
1 TGAATCATTCAACACT
28384 T-AATCATT
1 TGAATCATT
28392 ATGAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:32152 original size:29 final size:29
Alignment explanation
Indices: 32089--32144 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
32079 TTATTCATTA
32089 TTTATTATTTTTAACAACAATTAATAATG
1 TTTATTATTTTTAACAACAATTAATAATG
*
32118 TTTATTCATTTTTAATAA-AATT-ATAAT
1 TTTATT-ATTTTTAACAACAATTAATAAT
32145 TTAATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 10 0.40
30 10 0.40
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTATTATTTTTAACAACAATTAATAATG
Found at i:32157 original size:29 final size:30
Alignment explanation
Indices: 32089--32158 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
32079 TTATTCATTA
32089 TTTA-TTATTTTTAACAACAATTAATAATG
1 TTTATTTATTTTTAACAACAATTAATAATG
* *
32118 TTTATTCATTTTTAATAA-AATT-ATAAT-
1 TTTATTTATTTTTAACAACAATTAATAATG
32145 TTAATATTTATTTT
1 TT--TATTTATTTT
32159 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 5 0.14
29 17 0.49
30 11 0.31
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTATTTATTTTTAACAACAATTAATAATG
Found at i:32347 original size:28 final size:28
Alignment explanation
Indices: 32311--32370 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
32301 TGATTTATAC
* *
32311 TTTTCTTTTAGAAATATTTTACCATAAT
1 TTTTATTTTAAAAATATTTTACCATAAT
32339 TTTTATTTTAAAAATATTTTACCATAAT
1 TTTTATTTTAAAAATATTTTACCATAAT
32367 TTTT
1 TTTT
32371 CTTAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTATTTTAAAAATATTTTACCATAAT
Found at i:32458 original size:12 final size:10
Alignment explanation
Indices: 32430--32487 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
32420 CTCATATATT
32430 TAAAAATAAA
1 TAAAAATAAA
32440 TAAAAATACAA
1 TAAAAATA-AA
*
32451 TAAAAAATAAT
1 T-AAAAATAAA
* *
32462 TAAAAGTGAA
1 TAAAAATAAA
* *
32472 TAAAATTCAA
1 TAAAAATAAA
32482 TAAAAA
1 TAAAAA
32488 ATAATGTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 27 0.69
11 5 0.13
12 7 0.18
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:36870 original size:22 final size:23
Alignment explanation
Indices: 36840--36887 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
36830 ATTTCTATAA
* *
36840 AATATGATC-TATATTAATATATT
1 AATATGATCAGATATCAATA-ATT
36863 AATA-GATCAGATATCAATAATT
1 AATATGATCAGATATCAATAATT
36885 AAT
1 AAT
36888 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (23 bp):
AATATGATCAGATATCAATAATT
Found at i:64491 original size:301 final size:301
Alignment explanation
Indices: 63949--64551 Score: 1170
Period size: 301 Copynumber: 2.0 Consensus size: 301
63939 TTTGGTCACA
63949 ATCTTTTACAATATCTTTTTGACACGCTAAGCATCTTCTTAAATTCCATGGGCCATTTACATAAA
1 ATCTTTTACAATATCTTTTTGACACGCTAAGCATCTTCTTAAATTCCATGGGCCATTTACATAAA
64014 TGTTGAATCTTAATCTACTTGGCTTAATTGGCTCACTTCATATGCTTCCAAGTATAACGATAGAA
66 TGTTGAATCTTAATCTACTTGGCTTAATTGGCTCACTTCATATGCTTCCAAGTATAACGATAGAA
*
64079 AGTAGTTTTCTGTTTCTTTTTGTTTGATCCCTTTATTTATATGGCAACTTGTTTTGCTTGTTTGA
131 AGTACTTTTCTGTTTCTTTTTGTTTGATCCCTTTATTTATATGGCAACTTGTTTTGCTTGTTTGA
64144 ATGAGCATTTACCCAAATATTTGGTCCATTCTTATGGTCACTACTTGCTAGTGCTGTGATCATCA
196 ATGAGCATTTACCCAAATATTTGGTCCATTCTTATGGTCACTACTTGCTAGTGCTGTGATCATCA
64209 GAACTACTTTGTTGTTGCAAACGGGCAATTGTGGACTTTTC
261 GAACTACTTTGTTGTTGCAAACGGGCAATTGTGGACTTTTC
*
64250 ATCTTTTACAATATCTTTTTGACACGCTAAGCATCTTCTTAAATTTCATGGGCCATTTACATAAA
1 ATCTTTTACAATATCTTTTTGACACGCTAAGCATCTTCTTAAATTCCATGGGCCATTTACATAAA
*
64315 TGTTGAATCTTAATCTACTTGGCTTAATTGGCTTACTTCATATGCTTCCAAGTATAACGATAGAA
66 TGTTGAATCTTAATCTACTTGGCTTAATTGGCTCACTTCATATGCTTCCAAGTATAACGATAGAA
64380 AGTACTTTTCTGTTTCTTTTTGTTTGATCCCTTTATTTATATGGCAACTTGTTTTGCTTGTTTGA
131 AGTACTTTTCTGTTTCTTTTTGTTTGATCCCTTTATTTATATGGCAACTTGTTTTGCTTGTTTGA
*
64445 ATGAGCATTTACCCAAATATTTGGTCCATTCTTATGGTGACTACTTGCTAGTGCTGTGATCATCA
196 ATGAGCATTTACCCAAATATTTGGTCCATTCTTATGGTCACTACTTGCTAGTGCTGTGATCATCA
64510 GAACTACTTTGTTGTTGCAAACGGGCAATTGTGGACTTTTC
261 GAACTACTTTGTTGTTGCAAACGGGCAATTGTGGACTTTTC
64551 A
1 A
64552 AGGAATAATG
Statistics
Matches: 298, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 298 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (301 bp):
ATCTTTTACAATATCTTTTTGACACGCTAAGCATCTTCTTAAATTCCATGGGCCATTTACATAAA
TGTTGAATCTTAATCTACTTGGCTTAATTGGCTCACTTCATATGCTTCCAAGTATAACGATAGAA
AGTACTTTTCTGTTTCTTTTTGTTTGATCCCTTTATTTATATGGCAACTTGTTTTGCTTGTTTGA
ATGAGCATTTACCCAAATATTTGGTCCATTCTTATGGTCACTACTTGCTAGTGCTGTGATCATCA
GAACTACTTTGTTGTTGCAAACGGGCAATTGTGGACTTTTC
Found at i:71212 original size:30 final size:30
Alignment explanation
Indices: 71143--71224 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
71133 TATTTTTTTA
* * *
71143 GTTACAATCATGTCACTTAATTTATTAAAT
1 GTTATAATCATATCACTTAATTTATCAAAT
* *
71173 G-TATCAATCATATCACTTAATTTATCGATT
1 GTTAT-AATCATATCACTTAATTTATCAAAT
*
71203 GTTATAATCATATCACTCAATT
1 GTTATAATCATATCACTTAATT
71225 ATAACTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 2 0.05
30 39 0.89
31 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (30 bp):
GTTATAATCATATCACTTAATTTATCAAAT
Found at i:72152 original size:24 final size:24
Alignment explanation
Indices: 72120--72173 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
72110 TACCTATAGA
72120 GTATCGATACTTCTCTTACTTTTG
1 GTATCGATACTTCTCTTACTTTTG
72144 GTATCGATACTTCTCTTACTTTTG
1 GTATCGATACTTCTCTTACTTTTG
72168 GTATCG
1 GTATCG
72174 GTACCACATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (24 bp):
GTATCGATACTTCTCTTACTTTTG
Found at i:79605 original size:87 final size:87
Alignment explanation
Indices: 79456--79630 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
79446 AAATTTTATA
*
79456 TACTTCGTCTTATCTTATTTAAAAATTTTCTATTATCCACTCGACCTGATTTTTTGATATAAAAT
1 TACTTCGTCTTATCTTATTTAAAAATTTTCTATTATCCACTCGACCTGATTTTTTGAGATAAAAT
79521 ATGAATTCGACCAGACCCGAAC
66 ATGAATTCGACCAGACCCGAAC
*
79543 TACTTCGTCTTA-CTTGATTTAAAATTTTTCTATTATCCACTCGACCTGATTTTTTGAGATAAAA
1 TACTTCGTCTTATCTT-ATTTAAAAATTTTCTATTATCCACTCGACCTGATTTTTTGAGATAAAA
79607 TATGAATTCGACCAGACCCGAAC
65 TATGAATTCGACCAGACCCGAAC
79630 T
1 T
79631 CGACCCGAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 3 0.04
87 82 0.96
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (87 bp):
TACTTCGTCTTATCTTATTTAAAAATTTTCTATTATCCACTCGACCTGATTTTTTGAGATAAAAT
ATGAATTCGACCAGACCCGAAC
Found at i:79885 original size:47 final size:47
Alignment explanation
Indices: 79831--79927 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
79821 CCAAAATAAA
*
79831 AATCATTTTATAGTTTTTGTATTATTTGGTCAAAAGTTATAATTACT
1 AATCATTTCATAGTTTTTGTATTATTTGGTCAAAAGTTATAATTACT
79878 AATCATTTCATAGTTTTTGTATTATTTGGTCAAAAGTTATAATTACT
1 AATCATTTCATAGTTTTTGTATTATTTGGTCAAAAGTTATAATTACT
79925 AAT
1 AAT
79928 TTGATTTGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (47 bp):
AATCATTTCATAGTTTTTGTATTATTTGGTCAAAAGTTATAATTACT
Found at i:82609 original size:2 final size:2
Alignment explanation
Indices: 82602--82634 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
82592 GTAAATGTTT
82602 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
82635 TTTGTATTAC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:86694 original size:14 final size:14
Alignment explanation
Indices: 86675--86705 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
86665 TTGTGTTTGT
*
86675 GTTCGTTTGTGTTC
1 GTTCGTTTATGTTC
86689 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
86703 GTT
1 GTT
86706 TATCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.26, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:86798 original size:16 final size:16
Alignment explanation
Indices: 86774--86814 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
86764 AAAAAAAAAT
86774 TGTTAGTTTATGTTCG
1 TGTTAGTTTATGTTCG
*
86790 TGTTTGTTTATGTTCG
1 TGTTAGTTTATGTTCG
86806 T-TTA-TTTAT
1 TGTTAGTTTAT
86815 TAAATGAGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 16 0.70
ACGTcount: A:0.12, C:0.05, G:0.20, T:0.63
Consensus pattern (16 bp):
TGTTAGTTTATGTTCG
Found at i:87758 original size:42 final size:43
Alignment explanation
Indices: 87584--87842 Score: 140
Period size: 44 Copynumber: 6.0 Consensus size: 43
87574 ACCAAAATTG
* * * *
87584 TAAAAAGGTGAGATT--AAAAATTTAGTGGCCCCAATTATAAAGG
1 TAAAAA-GTGAGATTGAAAAAAATTAG-GACCTCAATTATAAAGA
* * * ** * * *
87627 TAGAAATTGAGATTGAAAAAACTTAAAAGCATCGATTATTAAG-
1 TAAAAAGTGAGATTGAAAAAAATTAGGA-CCTCAATTATAAAGA
* * * * *
87670 TTAAAAGTGAAATT--ATAAAATTAGGGCCTCAATT-TAAAGG
1 TAAAAAGTGAGATTGAAAAAAATTAGGACCTCAATTATAAAGA
*
87710 TAAAAAAG-G-GATTGAAAAAAATTAGAGACTTCAATTATAAAGA
1 T-AAAAAGTGAGATTGAAAAAAATTAG-GACCTCAATTATAAAGA
* *
87753 TAAAAAGTGAGATTGAATAATATTAGGACCTCAATTATAAAAGTAA
1 TAAAAAGTGAGATTGAAAAAAATTAGGACCTCAATTAT-AAAG--A
* * * * * *
87799 AAAAAATTAAGATTTAAAAAAATTAAGAACCT-AGTTATAAAGA
1 TAAAAAGTGAGATTGAAAAAAATT-AGGACCTCAATTATAAAGA
87842 T
1 T
87843 GTAAAAATGG
Statistics
Matches: 161, Mismatches: 40, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
39 7 0.04
40 8 0.05
41 21 0.13
42 21 0.13
43 34 0.21
44 36 0.22
45 4 0.02
46 24 0.15
47 6 0.04
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.27
Consensus pattern (43 bp):
TAAAAAGTGAGATTGAAAAAAATTAGGACCTCAATTATAAAGA
Found at i:87758 original size:43 final size:44
Alignment explanation
Indices: 87686--87842 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 44
87676 GTGAAATTAT
* *
87686 AAAATTAGGGCCTCAATT-TAAAGGTAAAAAAG-G-GATTGAAA
1 AAAATTAGGACCTCAATTATAAAGATAAAAAAGTGAGATTGAAA
* *
87727 AAAATTAGAGACTTCAATTATAAAGAT-AAAAAGTGAGATTGAAT
1 AAAATTAG-GACCTCAATTATAAAGATAAAAAAGTGAGATTGAAA
* * * * *
87771 AATATTAGGACCTCAATTATAAAAGTAAAAAAAATTAAGATTTAAA
1 AAAATTAGGACCTCAATTAT-AAAG-ATAAAAAAGTGAGATTGAAA
* *
87817 AAAATTAAGAACCT-AGTTATAAAGAT
1 AAAATT-AGGACCTCAATTATAAAGAT
87843 GTAAAAATGG
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 8 0.09
42 14 0.15
43 18 0.19
44 19 0.20
45 5 0.05
46 23 0.25
47 6 0.06
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (44 bp):
AAAATTAGGACCTCAATTATAAAGATAAAAAAGTGAGATTGAAA
Found at i:87778 original size:44 final size:41
Alignment explanation
Indices: 87686--87801 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 41
87676 GTGAAATTAT
* *
87686 AAAATTAGGGCCTCAATT-TAAAGGTAAAAAAGGGATTGAAA
1 AAAATTAGGACCTCAATTATAAAGAT-AAAAAGGGATTGAAA
* *
87727 AAAATTAGAGACTTCAATTATAAAGATAAAAAGTGAGATTGAAT
1 AAAATTAG-GACCTCAATTATAAAGATAAAAAG-G-GATTGAAA
*
87771 AATATTAGGACCTCAATTATAAA-AGTAAAAA
1 AAAATTAGGACCTCAATTATAAAGA-TAAAAA
87802 AAATTAAGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 8 0.12
42 15 0.23
43 27 0.42
44 14 0.22
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (41 bp):
AAAATTAGGACCTCAATTATAAAGATAAAAAGGGATTGAAA
Found at i:87802 original size:44 final size:44
Alignment explanation
Indices: 87672--87802 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
87662 TTATTAAGTT
* * *
87672 AAAAGTGAAATT--ATAAAATTAGGGCCTCAATT-TAAAGGTAA
1 AAAAGTGAGATTGAATAAAATTAGGACCTCAATTATAAAAGTAA
* *
87713 AAAAG-G-GATTGAAAAAAATTAGAGACTTCAATTAT-AAAG-ATA
1 AAAAGTGAGATTGAATAAAATTAG-GACCTCAATTATAAAAGTA-A
*
87755 AAAAGTGAGATTGAATAATATTAGGACCTCAATTATAAAAGTAA
1 AAAAGTGAGATTGAATAAAATTAGGACCTCAATTATAAAAGTAA
87799 AAAA
1 AAAA
87803 AATTAAGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
39 3 0.04
40 1 0.01
41 15 0.21
42 17 0.23
43 13 0.18
44 23 0.32
45 1 0.01
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (44 bp):
AAAAGTGAGATTGAATAAAATTAGGACCTCAATTATAAAAGTAA
Found at i:94368 original size:32 final size:32
Alignment explanation
Indices: 94208--94368 Score: 155
Period size: 32 Copynumber: 5.0 Consensus size: 32
94198 AATGTGACCC
* * *
94208 TAAT-ACTCTTGATATGCATTATTTGCATGTAA
1 TAATAACTC-TGATATGCATTATCTGAATGCAA
* * * *
94240 CACTGACTCTGCTATGCATTATCTGAATGCAA
1 TAATAACTCTGATATGCATTATCTGAATGCAA
* * * *
94272 TACTAACTATGATATGCATTATATTAATGCAA
1 TAATAACTCTGATATGCATTATCTGAATGCAA
* *
94304 TAATGACTCT-ATTATGCATTATCTAAATGCAA
1 TAATAACTCTGA-TATGCATTATCTGAATGCAA
* *
94336 TATTAACTCTGATGTGCATTATCTGAATGCAA
1 TAATAACTCTGATATGCATTATCTGAATGCAA
94368 T
1 T
94369 GCTGATACTA
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
31 1 0.01
32 99 0.94
33 5 0.05
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (32 bp):
TAATAACTCTGATATGCATTATCTGAATGCAA
Found at i:94368 original size:64 final size:64
Alignment explanation
Indices: 94217--94368 Score: 187
Period size: 64 Copynumber: 2.4 Consensus size: 64
94207 CTAATACTCT
* * * * * * *
94217 TGATATGCATTATTTGCATGTAACACTGACTCTGCTATGCATTATCTGAATGCAATACTAACTA
1 TGATATGCATTATATGAATGCAATAATGACTCTACTATGCATTATCTAAATGCAATACTAACTA
* * * *
94281 TGATATGCATTATATTAATGCAATAATGACTCTATTATGCATTATCTAAATGCAATATTAACTC
1 TGATATGCATTATATGAATGCAATAATGACTCTACTATGCATTATCTAAATGCAATACTAACTA
* *
94345 TGATGTGCATTATCTGAATGCAAT
1 TGATATGCATTATATGAATGCAAT
94369 GCTGATACTA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (64 bp):
TGATATGCATTATATGAATGCAATAATGACTCTACTATGCATTATCTAAATGCAATACTAACTA
Found at i:103564 original size:17 final size:17
Alignment explanation
Indices: 103542--103585 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
103532 ATGTAAAAAT
103542 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
103559 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
103576 AAATATTTAA
1 AAATATTTAA
103586 TAAGTAGAGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:104682 original size:21 final size:21
Alignment explanation
Indices: 104658--104719 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
104648 TGTTATAATG
* *
104658 AAATATGATATAAATTAAGTT
1 AAATATGACATAAATTAAGTA
104679 AAATATGACATAAATTAAGTA
1 AAATATGACATAAATTAAGTA
*
104700 AAATATTACATAAATTAAGT
1 AAATATGACATAAATTAAGT
104720 GACCAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATATGACATAAATTAAGTA
Found at i:111500 original size:164 final size:163
Alignment explanation
Indices: 111229--111554 Score: 519
Period size: 164 Copynumber: 2.0 Consensus size: 163
111219 TGTTATGTCC
* * * * *
111229 GTAACGTGAACTGTCAATTAACATTGTAACAATCAACGACAAAAAAAATGTTGGTCACAGGATCA
1 GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAAGGATCA
* * * *
111294 CATTAAGTTTATTTTTTGGGTTGGAGAATATTGAGTTTATTTTTTGATTTGGAGGGTCACATTGA
66 CATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTGA
*
111359 TTTTTTTTCAAAATTACAACATTTTTGCCCTTTA
131 -TTTTTTTCAAAATTACAACATTTTTACCCTTTA
* *
111393 GTAACGTGAATTATCAATCAACATTGTAACAATCAACGATAAAAAAAATATTAGTCAAATGG-TC
1 GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAA-GGATC
111457 ACATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTG
65 ACATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTG
111522 ATTTTTTTCAAAATTACAACATTTTTACCCTTT
130 ATTTTTTTCAAAATTACAACATTTTTACCCTTT
111555 TTTTCTATTG
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
163 31 0.21
164 116 0.78
165 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (163 bp):
GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAAGGATCA
CATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTGA
TTTTTTTCAAAATTACAACATTTTTACCCTTTA
Found at i:112618 original size:23 final size:23
Alignment explanation
Indices: 112592--112639 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
112582 ATAAAGTACA
*
112592 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
112615 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
112638 AT
1 AT
112640 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:113514 original size:408 final size:407
Alignment explanation
Indices: 112759--113571 Score: 1583
Period size: 408 Copynumber: 2.0 Consensus size: 407
112749 ACTTTAACAG
112759 TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
1 TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
112824 GTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTA
66 GTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTA
112889 AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
131 AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
112954 CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTA
196 CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTA
113019 CAATATAACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTAT
261 CAATATAACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTAT
113084 ATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGA-TATGTAATTTATG
326 ATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAA-ACTATGTAATTTATG
113148 TTTCAATATTTTTTAAGTA
390 TTTCAAT-TTTTTTAAGTA
113167 TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
1 TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
*
113232 GTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTA
66 GTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTA
113297 AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
131 AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
113362 CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTA
196 CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTA
113427 CAATATAACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTAT
261 CAATATAACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTAT
113492 ATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATG
326 ATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAC-TATGTAATTTATG
113557 TTTCAATTTTTTTAA
390 TTTCAATTTTTTTAA
113572 CAGTGTACTG
Statistics
Matches: 402, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
407 1 0.00
408 381 0.95
409 20 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (407 bp):
TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
GTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTA
AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTA
CAATATAACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTAT
ATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTATGTAATTTATGT
TTCAATTTTTTTAAGTA
Found at i:116345 original size:184 final size:184
Alignment explanation
Indices: 116036--117073 Score: 1981
Period size: 184 Copynumber: 5.7 Consensus size: 184
116026 TTTTAAATGG
* *
116036 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
116101 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
116166 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
116220 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
116285 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
116350 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
116404 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
116469 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
116534 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
116588 TATGGATATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
116652 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
116717 GATGTGT-AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
116770 TATGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
116835 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
116900 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
116954 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
** **
117019 TAAGCCCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
117074 ATGTTGAAAG
Statistics
Matches: 844, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
182 74 0.09
183 215 0.25
184 555 0.66
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:118546 original size:3 final size:3
Alignment explanation
Indices: 118538--118611 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
118528 ACTTGTTTGG
* * * **
118538 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
118586 AGC TTC ATC GTC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
118612 TGTCATCTTC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:118605 original size:42 final size:42
Alignment explanation
Indices: 118546--118636 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
118536 GGATCATCAT
*
118546 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* ** * *
118588 CTTCATCGTCATCATCATCATCATTGTCATCTTCATTGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
118630 CTTCATC
1 CTTCATC
118637 TTCTGCGACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:118617 original size:9 final size:9
Alignment explanation
Indices: 118551--118618 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
118541 ATCATCTTCA
*
118551 TCATCATCA
1 TCATCATCG
118560 TCATCATCG
1 TCATCATCG
*
118569 TCATCATCT
1 TCATCATCG
**
118578 TCATCGCCAG
1 TCATCATC-G
*
118588 -CTTCATCG
1 TCATCATCG
*
118596 TCATCATCA
1 TCATCATCG
*
118605 TCATCATTG
1 TCATCATCG
118614 TCATC
1 TCATC
118619 TTCATTGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
8 1 0.02
9 44 0.98
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:118639 original size:6 final size:6
Alignment explanation
Indices: 118542--118639 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
118532 GTTTGGATCA
* * * * * * * *
118542 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
118590 TCATCG TCATCA TCATCA TCAT-T GTCATCT TCAT-T GTCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT -TCATCT TCATCT -TCATCT TCATCT
118638 TC
1 TC
118640 TGCGACCGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
5 1 0.01
6 70 0.96
7 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:120445 original size:199 final size:200
Alignment explanation
Indices: 120104--121925 Score: 3399
Period size: 199 Copynumber: 9.1 Consensus size: 200
120094 TTTAAATTAG
120104 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
120169 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * **
120234 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120298 AAAAA
196 AAAAA
120303 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120368 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
120432 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120497 AAAAA
196 AAAAA
*
120502 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
120567 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
120632 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGTAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120697 AAAAA
196 AAAAA
120702 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120767 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
120831 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120896 AAAAA
196 AAAAA
*
120901 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120966 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
121030 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121095 AAAAA
196 AAAAA
121100 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
121165 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
121230 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121294 AAAAA
196 AAAAA
121299 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
121364 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
121429 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121494 AAAAA
196 AAAAA
121499 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
121564 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
121629 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121693 AAAAA
196 AAAAA
121698 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
121763 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGA
* *
121828 TCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGA
130 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
121891 AAAAAA
195 AAAAAA
*
121897 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
121926 TGACCCTTAA
Statistics
Matches: 1596, Mismatches: 22, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
198 53 0.03
199 1031 0.65
200 512 0.32
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (200 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAA
Found at i:120841 original size:399 final size:399
Alignment explanation
Indices: 120104--121925 Score: 3395
Period size: 399 Copynumber: 4.6 Consensus size: 399
120094 TTTAAATTAG
120104 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120169 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * **
120234 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120298 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
120363 GTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
120427 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
326 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT
120492 GGGAAAAAAA
390 GGGAAAAAAA
*
120502 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120567 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
120632 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGTAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120697 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
120762 GTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
120826 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
326 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT
120891 GGGAAAAAAA
390 GGGAAAAAAA
*
120901 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120966 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
121030 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121095 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
121160 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
121225 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTG
121290 GGAAAAAAA
391 GGAAAAAAA
121299 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
121364 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
121429 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121494 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
121559 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
121624 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTG
121689 GGAAAAAAA
391 GGAAAAAAA
121698 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
121763 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTTGGGA
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGA
* *
121828 TCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGA
130 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
*
121891 AAAAAATATCGACACAAACTATATTAGTATCGACA
195 AAAAAATATCGACACAAACTATATTAGTGTCGACA
121926 TGACCCTTAA
Statistics
Matches: 1407, Mismatches: 13, Indels: 8
0.99 0.01 0.01
Matches are distributed among these distances:
398 511 0.36
399 881 0.63
400 15 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (399 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTG
GGAAAAAAA
Found at i:121239 original size:598 final size:597
Alignment explanation
Indices: 120104--121925 Score: 3434
Period size: 598 Copynumber: 3.0 Consensus size: 597
120094 TTTAAATTAG
120104 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120169 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * **
120234 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
120298 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
120363 GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
120428 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
*
120493 GGAAAAAAATATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
391 GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
* *
120558 ACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
456 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA
* *
120623 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCA
521 TTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
*
120688 TTCTGTAAAAAAAA
585 TTCTG-GAAAAAAA
120702 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
120767 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
120831 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
*
120896 AAAAATATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
120961 GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
121026 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
121091 GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
391 GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
121156 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA
456 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA
121221 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCAT
521 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCAT
121286 TCTGGGAAAAAAA
586 TCT-GGAAAAAAA
121299 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
121364 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
121429 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
121494 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
121559 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
* *
121624 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
325 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
121688 GGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
390 GGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
121753 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATG
455 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATG
121818 ATTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTC
520 A-TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTC
121883 ATTCTGGAAAAAAA
584 ATTCTGGAAAAAAA
*
121897 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
121926 TGACCCTTAA
Statistics
Matches: 1203, Mismatches: 16, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
597 193 0.16
598 890 0.74
599 120 0.10
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (597 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA
TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCAT
TCTGGAAAAAAA
Found at i:122034 original size:19 final size:19
Alignment explanation
Indices: 122007--122051 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
121997 ATTCACATAA
*
122007 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
122026 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
122045 AAAATTA
1 AAAATTA
122052 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:123883 original size:33 final size:33
Alignment explanation
Indices: 123846--123911 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
123836 CATCTTAATA
*
123846 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
123879 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
123912 CCTTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:126238 original size:17 final size:18
Alignment explanation
Indices: 126216--126258 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
126206 ATATATCCGG
126216 TATCATT-TTACCGGTTT
1 TATCATTATTACCGGTTT
126233 TATCATTTTATTACCGGTTT
1 TATCA--TTATTACCGGTTT
126253 TATCAT
1 TATCAT
126259 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (18 bp):
TATCATTATTACCGGTTT
Found at i:126248 original size:20 final size:20
Alignment explanation
Indices: 126221--126267 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
126211 TCCGGTATCA
126221 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
126240 TTATTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
126261 TTTTACC
1 TTTTACC
126268 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:126415 original size:20 final size:20
Alignment explanation
Indices: 126389--126434 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
126379 CACTTTTAAA
126389 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
126408 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
126429 TTTACC
1 TTTACC
126435 TGGTATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:126894 original size:227 final size:227
Alignment explanation
Indices: 126500--126945 Score: 770
Period size: 227 Copynumber: 2.0 Consensus size: 227
126490 TTAAAACTGC
126500 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
**
126565 TAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATT
66 TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
126630 TAGAATTTAAATTTAACAATATTAACCAAATATAATAAT-AA-ATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAAG
*
126693 TATGGACACTTTTATAAAAATGATATATACTTT
195 TATGGACACTTTTATAAAAAGGATATATACTTT
*
126726 TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTG-TTCATGTTTTCCACCTACAATA
*
126791 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
65 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
126856 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
130 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
*
126921 TATGGATACTTTTATAAAAAGGATA
195 TATGGACACTTTTATAAAAAGGATA
126946 GATAATTTAC
Statistics
Matches: 207, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
226 41 0.20
227 121 0.58
228 38 0.18
229 7 0.03
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATATACTTT
Found at i:130677 original size:164 final size:163
Alignment explanation
Indices: 130406--130731 Score: 519
Period size: 164 Copynumber: 2.0 Consensus size: 163
130396 TGTTATGTCC
* * * * *
130406 GTAACGTGAACTGTCAATTAACATTGTAACAATCAACGACAAAAAAAATGTTGGTCACAGGATCA
1 GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAAGGATCA
* * * *
130471 CATTAAGTTTATTTTTTGGGTTGGAGAATATTGAGTTTATTTTTTGATTTGGAGGGTCACATTGA
66 CATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTGA
*
130536 TTTTTTTTCAAAATTACAACATTTTTGCCCTTTA
131 -TTTTTTTCAAAATTACAACATTTTTACCCTTTA
* *
130570 GTAACGTGAATTATCAATCAACATTGTAACAATCAACGATAAAAAAAATATTAGTCAAATGG-TC
1 GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAA-GGATC
130634 ACATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTG
65 ACATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTG
130699 ATTTTTTTCAAAATTACAACATTTTTACCCTTT
130 ATTTTTTTCAAAATTACAACATTTTTACCCTTT
130732 TTTTCTATTG
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
163 31 0.21
164 116 0.78
165 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (163 bp):
GTAACGTGAACTATCAATCAACATTGTAACAATCAACGACAAAAAAAATATTAGTCAAAGGATCA
CATTAAGTTTATTTTTAGAGTTGAAGAATATTGAGTTTATTTTTTGATTTGAAGGGTCACATTGA
TTTTTTTCAAAATTACAACATTTTTACCCTTTA
Found at i:134126 original size:22 final size:22
Alignment explanation
Indices: 134092--134141 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
134082 TAACTAACGG
* * * *
134092 AAGTACCTTAGCACTAATCCTA
1 AAGTGCCTCAGCACTAATACAA
134114 AAGTGCCTCAGCACTAATACAA
1 AAGTGCCTCAGCACTAATACAA
134136 AAGTGC
1 AAGTGC
134142 ATTCACTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
AAGTGCCTCAGCACTAATACAA
Found at i:135402 original size:12 final size:11
Alignment explanation
Indices: 135379--135411 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
135369 CAACTTCGTG
135379 GATGAA-AAGA
1 GATGAAGAAGA
135389 GATGAGAGAAGA
1 GATGA-AGAAGA
135401 GATGAAGAAGA
1 GATGAAGAAGA
135412 AGACAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (11 bp):
GATGAAGAAGA
Found at i:136492 original size:2 final size:2
Alignment explanation
Indices: 136487--136528 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
136477 CGGCGAAAGA
136487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136529 GCAAAAGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:148086 original size:20 final size:20
Alignment explanation
Indices: 148061--148105 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
148051 TTCAACAAAA
*
148061 AAAATACATAAAAAAAATTT
1 AAAATACATAAAAAAAATCT
*
148081 AAAATATATAAAAAAAATCT
1 AAAATACATAAAAAAAATCT
148101 AAAAT
1 AAAAT
148106 GTATGACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATACATAAAAAAAATCT
Found at i:154305 original size:31 final size:32
Alignment explanation
Indices: 154231--154294 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
154221 AAATAATAAT
154231 ATATGATCAC-TTTACTTTTTATTTAATTAAG
1 ATATGATCACTTTTACTTTTTATTTAATTAAG
*
154262 ATATGATTACTTTTA-TTTTTATTTAATTAAG
1 ATATGATCACTTTTACTTTTTATTTAATTAAG
154293 AT
1 AT
154295 GTAGTCACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (32 bp):
ATATGATCACTTTTACTTTTTATTTAATTAAG
Found at i:154312 original size:31 final size:30
Alignment explanation
Indices: 154231--154312 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 30
154221 AAATAATAAT
154231 ATATGATCACTTTACTTTTTATTTAATTAAG
1 ATATGATCACTTT-CTTTTTATTTAATTAAG
* *
154262 ATATGATTACTTTTATTTTTATTTAATTAAG
1 ATATGATCAC-TTTCTTTTTATTTAATTAAG
*
154293 ATGT-AGTCACTTTCGTTTTT
1 ATATGA-TCACTTTC-TTTTT
154313 TATTATGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.09
31 36 0.84
32 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (30 bp):
ATATGATCACTTTCTTTTTATTTAATTAAG
Found at i:159952 original size:5 final size:5
Alignment explanation
Indices: 159942--159985 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
159932 TTAATTAATC
159942 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
159986 AATCGATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:162183 original size:72 final size:69
Alignment explanation
Indices: 162067--162243 Score: 203
Period size: 72 Copynumber: 2.4 Consensus size: 69
162057 AAACTCATAT
* * *
162067 ATTTTTAAATATTTTAAATTAAAAAGATATTTATTATCTCTTTAAACTTGAATATTAATAGGATG
1 ATTTTT-AATA-TTTAAATT-AAAAGATATTTATTATCTCTTTAAACTTAAATATTAAAAAGAT-
162132 ATT-ATAC
62 ATTAATAC
* * *
162139 ATCTTTTAATTATCTTAAATTAAAGGATATTTATTATCTTTTTAAATTTAAATATTAAAAAGATA
1 AT-TTTTAA-TAT-TTAAATTAAAAGATATTTATTATCTCTTTAAACTTAAATATTAAAAAGATA
*
162204 TTAATAT
63 TTAATAC
162211 ATTTTTGAATATTTCAAATTAAAAGATATTTAT
1 ATTTTT-AATATTT-AAATTAAAAGATATTTAT
162244 AATCAAAGGC
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
70 2 0.02
71 27 0.30
72 49 0.54
73 13 0.14
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (69 bp):
ATTTTTAATATTTAAATTAAAAGATATTTATTATCTCTTTAAACTTAAATATTAAAAAGATATTA
ATAC
Found at i:162196 original size:35 final size:37
Alignment explanation
Indices: 162063--162244 Score: 127
Period size: 36 Copynumber: 5.1 Consensus size: 37
162053 GATTAAACTC
* *
162063 ATATAT-TTTTAAATATTTTAAAT-TAAAAAGATATTT
1 ATATATCTTTTTAATA-TTTAAATATTAAAAGATATTT
* * * *
162099 AT-TATCTCTTTAA-ACTTGAATATTAATAGGATGA-TT
1 ATATATCTTTTTAATATTTAAATATTAA-AAGAT-ATTT
* *
162135 ATACATC-TTTTAATTATCTT-AA-ATTAAAGGATATTT
1 ATATATCTTTTTAA-TAT-TTAAATATTAAAAGATATTT
*
162171 AT-TATCTTTTTAA-ATTTAAATATTAAAAAGATATTA
1 ATATATCTTTTTAATATTTAAATATT-AAAAGATATTT
* *
162207 ATATAT-TTTTGAATATTTCAA-ATTAAAAGATATTT
1 ATATATCTTTTTAATATTTAAATATTAAAAGATATTT
162242 ATA
1 ATA
162245 ATCAAAGGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 31
0.72 0.09 0.19
Matches are distributed among these distances:
33 2 0.02
34 9 0.08
35 27 0.23
36 55 0.47
37 18 0.16
38 3 0.03
39 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
ATATATCTTTTTAATATTTAAATATTAAAAGATATTT
Found at i:163631 original size:13 final size:13
Alignment explanation
Indices: 163599--163640 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
163589 ACAGAGAAAA
163599 CTATAGTTCGTAATCT
1 CTATAGTT-GT-A-CT
163615 CTATAGTTGTACT
1 CTATAGTTGTACT
163628 CTATAGTTGTACT
1 CTATAGTTGTACT
163641 ACGGTGTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.58
14 1 0.04
15 2 0.08
16 8 0.31
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (13 bp):
CTATAGTTGTACT
Found at i:175656 original size:26 final size:27
Alignment explanation
Indices: 175607--175661 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
175597 ATTCGAGCTC
*
175607 GAATCCAATCCATTCAATTAGAGT-TT
1 GAATCCAATCCATTCAACTAGAGTGTT
*
175633 GAATCCAATCCATTCAACTCGAGTGTT
1 GAATCCAATCCATTCAACTAGAGTGTT
175660 GA
1 GA
175662 CCATGTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (27 bp):
GAATCCAATCCATTCAACTAGAGTGTT
Found at i:179752 original size:20 final size:20
Alignment explanation
Indices: 179729--179772 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
179719 GGGAGTACTA
179729 ATACT-TAAGAGGCAGTATCG
1 ATACTCTAAG-GGCAGTATCG
**
179749 ATACTCTAAGGTTAGTATCG
1 ATACTCTAAGGGCAGTATCG
179769 ATAC
1 ATAC
179773 CAGAGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (20 bp):
ATACTCTAAGGGCAGTATCG
Found at i:181502 original size:59 final size:60
Alignment explanation
Indices: 181381--181536 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 60
181371 TTGTGATGAG
* ** *
181381 ATTAAAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTTATAGTTGAGAATGAAA
1 ATTAAAATGTTC-AAAAGTTTGAGGATTAATTTAGAATGAAGATTATAGTTGAGAATGAAA
* * *
181442 A-TGAAATGTTCAAAAGTTTGAGGATTAATTTAGAATGATA-ATTATAGTTTAGGCAT-AAA
1 ATTAAAATGTTCAAAAGTTTGAGGATTAATTTAGAATGA-AGATTATAGTTGA-GAATGAAA
* * *
181501 ATTAAAATATTTAAAAGTTT-AGGGATT-AGTTAGAAT
1 ATTAAAATGTTCAAAAGTTTGA-GGATTAATTTAGAAT
181537 AAAAATCAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
59 46 0.57
60 33 0.41
61 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (60 bp):
ATTAAAATGTTCAAAAGTTTGAGGATTAATTTAGAATGAAGATTATAGTTGAGAATGAAA
Found at i:183819 original size:21 final size:21
Alignment explanation
Indices: 183793--183835 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
183783 CATATAAGTT
183793 AGAATAAAACTCTTAGTTAGA
1 AGAATAAAACTCTTAGTTAGA
*
183814 AGAATACAACTCTTAGTTAGA
1 AGAATAAAACTCTTAGTTAGA
183835 A
1 A
183836 CAAAGCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (21 bp):
AGAATAAAACTCTTAGTTAGA
Found at i:185063 original size:29 final size:29
Alignment explanation
Indices: 185028--185123 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 29
185018 TTGTTATTTT
185028 TATTTTAAATTAGTCCCTAAACTTTTAAA
1 TATTTTAAATTAGTCCCTAAACTTTTAAA
* * * *
185057 TATTTTAATTTCA-TCTCTAAAC-TCTAAT
1 TATTTTAAATT-AGTCCCTAAACTTTTAAA
*
185085 TATCGTTCTAAACTAGT-CCTCAAACTTTTAAA
1 TAT--TT-TAAATTAGTCCCT-AAACTTTTAAA
185117 TATTTTA
1 TATTTTA
185124 GTTTCATCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
28 7 0.14
29 20 0.39
30 8 0.16
31 9 0.18
32 7 0.14
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (29 bp):
TATTTTAAATTAGTCCCTAAACTTTTAAA
Found at i:185154 original size:60 final size:59
Alignment explanation
Indices: 185033--185173 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 59
185023 ATTTTTATTT
* **
185033 TAAATTAGTCCCTAAACTTTTAAATATTTTAATTTCATCTCTAAACTCTAATTATCGTTC
1 TAAATTAGTCCC-AAACTTTTAAATATTTTAATTTCATCTCTAAACTATAATTATAATTC
* * **
185093 TAAACTAGTCCTCAAACTTTTAAATATTTTAGTTTCATC-CTCAAACTATGGTCT-TAATTC
1 TAAATTAGTCC-CAAACTTTTAAATATTTTAATTTCATCTCT-AAACTATAAT-TATAATTC
185153 TAAATTAGTCCCCAAACTTTT
1 TAAATTAGT-CCCAAACTTTT
185174 TTGAATATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
59 2 0.03
60 63 0.91
61 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (59 bp):
TAAATTAGTCCCAAACTTTTAAATATTTTAATTTCATCTCTAAACTATAATTATAATTC
Found at i:187920 original size:2 final size:2
Alignment explanation
Indices: 187913--187939 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
187903 ATTTATTTAT
187913 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
187940 TTATGACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:188899 original size:18 final size:18
Alignment explanation
Indices: 188877--188931 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
188867 TTATATTATT
188877 TCTCTGTTTTTTTTTTCGG
1 TCTCTGTTTTTTTTTT-GG
*
188896 -CTCTGTGTTCTTCTTTTGG
1 TCTCTGT-TT-TTTTTTTGG
188915 TCTCTGTTTTTTCTTTT
1 TCTCTGTTTTTT-TTTT
188932 TTTTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.27
19 10 0.33
20 12 0.40
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (18 bp):
TCTCTGTTTTTTTTTTGG
Found at i:188904 original size:20 final size:20
Alignment explanation
Indices: 188877--188932 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
188867 TTATATTATT
*
188877 TCTCTGT-TTTTTTTTTCGG
1 TCTCTGTGTTTTTTTTTTGG
* *
188896 -CTCTGTGTTCTTCTTTTGG
1 TCTCTGTGTTTTTTTTTTGG
188915 TCTCTGT-TTTTTCTTTTT
1 TCTCTGTGTTTTT-TTTTT
188933 TTTTTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.21
19 13 0.45
20 10 0.34
ACGTcount: A:0.00, C:0.18, G:0.14, T:0.68
Consensus pattern (20 bp):
TCTCTGTGTTTTTTTTTTGG
Found at i:189391 original size:3 final size:3
Alignment explanation
Indices: 189383--189447 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
189373 AATATATATT
* *
189383 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
189431 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
189448 TGGGTAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:189932 original size:113 final size:113
Alignment explanation
Indices: 189734--190641 Score: 1701
Period size: 113 Copynumber: 8.0 Consensus size: 113
189724 TTTCTTTAGA
**
189734 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
189799 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
189847 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
189912 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
*
189960 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTGTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
190025 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
*
190073 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
190138 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
190186 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
190251 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
190299 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
190364 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
*
190412 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
190477 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
190525 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* ** *
190590 TGAGTTCTTCTCATTATGAACCTTCTCTGG-AAATGTAAATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAAT-AATCCATCAAG
190638 TGAT
1 TGAT
190642 AGATTTGAAT
Statistics
Matches: 778, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
112 4 0.01
113 774 0.99
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (113 bp):
TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
Found at i:191513 original size:83 final size:83
Alignment explanation
Indices: 191374--191835 Score: 888
Period size: 83 Copynumber: 5.6 Consensus size: 83
191364 GTAGTTCCTA
*
191374 CCAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
191439 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
191457 CCAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
191522 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
191540 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
*
191605 ATTCAATGATTGGTTCTA
66 ATTCAATGATTGGTTCTG
*
191623 CCAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
191688 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
191706 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
191771 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
191789 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
191836 GAGTCTCTTT
Statistics
Matches: 374, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 374 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:192996 original size:6 final size:6
Alignment explanation
Indices: 192980--193058 Score: 60
Period size: 6 Copynumber: 13.3 Consensus size: 6
192970 TGACCCCCCA
* *
192980 TTTTTC TTTTTTC TTTTTTC TTTTT- TTCTTT- TTCTTTC -TTTTG TTTTTG
1 TTTTTC -TTTTTC -TTTTTC TTTTTC TT-TTTC TT-TTTC TTTTTC TTTTTC
*
193029 TTTTTC -TTTTC TCTTT- TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
193059 CAAGCATAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
5 14 0.22
6 36 0.57
7 13 0.21
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:193006 original size:22 final size:22
Alignment explanation
Indices: 192980--193055 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
192970 TGACCCCCCA
192980 TTTTTCTTTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTTTTTTCTT
*
193002 TTTTTC-TTTTTCTTTCTTT-TG
1 TTTTTCTTTTTTCTTT-TTTCTT
* *
193023 TTTTT-GTTTTTCTTTTCTCTTT
1 TTTTTCTTTTTTCTTTTTTC-TT
193045 TTTTTCTTTTT
1 TTTTTCTTTTT
193056 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
20 2 0.04
21 24 0.53
22 15 0.33
23 4 0.09
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTTCTT
Found at i:193056 original size:22 final size:22
Alignment explanation
Indices: 192980--193058 Score: 101
Period size: 22 Copynumber: 3.6 Consensus size: 22
192970 TGACCCCCCA
*
192980 TTTTTCTTTTTTCTTTTTTC-TT
1 TTTTTC-TTTTTCTTTTCTCTTT
193002 TTTTTCTTTTTC-TTTCT-TTT
1 TTTTTCTTTTTCTTTTCTCTTT
*
193022 GTTTTTGTTTTTCTTTTCTCTTT
1 -TTTTTCTTTTTCTTTTCTCTTT
193045 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
193059 CAAGCATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 6 0.12
21 17 0.34
22 24 0.48
23 3 0.06
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTCTCTTT
Found at i:203698 original size:15 final size:13
Alignment explanation
Indices: 203669--203703 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
203659 CTCTGACAGA
203669 AAAATAATGAAAT
1 AAAATAATGAAAT
203682 AAAATAATTGCAAAT
1 AAAATAA-TG-AAAT
203697 AAAATAA
1 AAAATAA
203704 AATGAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 2 0.10
15 11 0.55
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (13 bp):
AAAATAATGAAAT
Found at i:203746 original size:28 final size:28
Alignment explanation
Indices: 203712--203782 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
203702 AAAATGAAAC
203712 ATATAAATATTATGAAA-ATAATAAATAA
1 ATATAAATATTATGAAAGATAA-AAATAA
* * *
203740 ATATAAAAATTTTGAAAAGATAAAATTAA
1 ATATAAATATTATG-AAAGATAAAAATAA
203769 AT-TAAATA-TATGAA
1 ATATAAATATTATGAA
203783 TTTTTAATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
27 3 0.08
28 17 0.47
29 10 0.28
30 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (28 bp):
ATATAAATATTATGAAAGATAAAAATAA
Found at i:205919 original size:3 final size:3
Alignment explanation
Indices: 205911--205972 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
205901 AATATATATT
205911 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
205959 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
205973 TGGGTAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:206483 original size:2 final size:2
Alignment explanation
Indices: 206472--206505 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
206462 TTCTGAACAA
206472 AT AT -T 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 A
206506 ATTATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:206530 original size:22 final size:22
Alignment explanation
Indices: 206505--206554 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
206495 ATATATATAT
206505 AATTATTTTAAATTTAATGATA
1 AATTATTTTAAATTTAATGATA
206527 AATTATTTTAAATTTAATGATA
1 AATTATTTTAAATTTAATGATA
*
206549 TATTAT
1 AATTAT
206555 ATATTCATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
AATTATTTTAAATTTAATGATA
Found at i:211612 original size:16 final size:16
Alignment explanation
Indices: 211588--211647 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
211578 TGCACAACGT
*
211588 AACACAATCGAAAATC
1 AACAGAATCGAAAATC
211604 AACAGAATCGAAAA-C
1 AACAGAATCGAAAATC
***
211619 -GTGGCAATCGAAAATC
1 AACAG-AATCGAAAATC
211635 AACAGAATCGAAA
1 AACAGAATCGAAA
211648 GCATGACCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 22 0.65
17 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (16 bp):
AACAGAATCGAAAATC
Found at i:211971 original size:15 final size:15
Alignment explanation
Indices: 211951--211982 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
211941 TCAAAATTAA
211951 ATTAGATTTTTAGGT
1 ATTAGATTTTTAGGT
211966 ATTAGATTTTTAGGT
1 ATTAGATTTTTAGGT
211981 AT
1 AT
211983 AGTGTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (15 bp):
ATTAGATTTTTAGGT
Found at i:212057 original size:30 final size:30
Alignment explanation
Indices: 212021--212080 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
212011 CGTCCTCATC
*
212021 GTTTCATTCTAGGGCAACAAAACCTTTAAT
1 GTTTCATTCTAAGGCAACAAAACCTTTAAT
* * *
212051 GTTTCATTTTAATGTAACAAAACCTTTAAT
1 GTTTCATTCTAAGGCAACAAAACCTTTAAT
212081 ATTTGATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (30 bp):
GTTTCATTCTAAGGCAACAAAACCTTTAAT
Found at i:221451 original size:23 final size:23
Alignment explanation
Indices: 221425--221474 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
221415 TTTATGTTAT
221425 GTTTATATCTACCTTTATGACAC
1 GTTTATATCTACCTTTATGACAC
* * ** *
221448 GTTTTTCTCTGTCTTTGTGACAC
1 GTTTATATCTACCTTTATGACAC
221471 GTTT
1 GTTT
221475 TTCTCTGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (23 bp):
GTTTATATCTACCTTTATGACAC
Found at i:221475 original size:23 final size:23
Alignment explanation
Indices: 221437--221482 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
221427 TTATATCTAC
221437 CTTTATGACACGTTTTTCTCTGT
1 CTTTATGACACGTTTTTCTCTGT
*
221460 CTTTGTGACACGTTTTTCTCTGT
1 CTTTATGACACGTTTTTCTCTGT
221483 TTTTTAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.15, T:0.52
Consensus pattern (23 bp):
CTTTATGACACGTTTTTCTCTGT
Found at i:221764 original size:17 final size:17
Alignment explanation
Indices: 221751--221784 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
221741 ATTTGTTCTT
221751 ATCTTTATTTTGTTCGA
1 ATCTTTATTTTGTTCGA
221768 ATCTTTATTTTGTTCGA
1 ATCTTTATTTTGTTCGA
221785 GTTTTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (17 bp):
ATCTTTATTTTGTTCGA
Found at i:234931 original size:22 final size:23
Alignment explanation
Indices: 234888--234931 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
234878 TAAATTCATA
* **
234888 AAATAATATATTTATATTTAATC
1 AAATAATAAATTTATAAATAATC
234911 AAAT-ATAAATTTATAAATAAT
1 AAATAATAAATTTATAAATAAT
234932 ATATTCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATAATAAATTTATAAATAATC
Found at i:234954 original size:38 final size:37
Alignment explanation
Indices: 234851--234964 Score: 131
Period size: 38 Copynumber: 3.0 Consensus size: 37
234841 TGTTGATCAT
* *
234851 ATAATATATTCGTATTTTGATTGAATATAAATTCATAAA
1 ATAATATATTCTTA-TTTAATTGAATATAAATTCAT-AA
** *
234890 ATAATATATT-TATATTTAATCAAATATAAATTTATAA
1 ATAATATATTCT-TATTTAATTGAATATAAATTCATAA
*
234927 ATAATATATTCTTATTCCAATTGAATATAAATTCATAA
1 ATAATATATTCTTATT-TAATTGAATATAAATTCATAA
234965 TATTGTACTC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
37 16 0.25
38 35 0.56
39 12 0.19
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
ATAATATATTCTTATTTAATTGAATATAAATTCATAA
Found at i:252468 original size:23 final size:25
Alignment explanation
Indices: 252415--252474 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
252405 TGAGTTAGAA
*
252415 TTTAGGGATTTTTTAAACAGTAGAAG
1 TTTAGGGATTTTTTAAACAG-AAAAG
252441 TTTAGGGATTTTTTAAA-A-AAAAG
1 TTTAGGGATTTTTTAAACAGAAAAG
*
252464 TTTAGAGATTT
1 TTTAGGGATTT
252475 AGGGTAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 14 0.44
25 1 0.03
26 17 0.53
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.42
Consensus pattern (25 bp):
TTTAGGGATTTTTTAAACAGAAAAG
Found at i:253451 original size:2 final size:2
Alignment explanation
Indices: 253444--253479 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
253434 GACACAATTC
253444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
253480 TTTAAATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:273315 original size:153 final size:153
Alignment explanation
Indices: 273013--273307 Score: 547
Period size: 153 Copynumber: 1.9 Consensus size: 153
273003 AAATTTATTA
273013 TCAAGTACATATTGAGAGAACAGTGTAAAACTAAAGTAGTTTTTACTCATTTCCCTATCTTTTTA
1 TCAAGTACATATTGAGAGAACAGTGTAAAACTAAAGTAGTTTTTACTCATTTCCCTATCTTTTTA
*
273078 TATGATACATGTTTTATTAAGATTGATCTTACATGTCAAGTTTTGAGTTAATGAAATATCTGTGT
66 TATGATACATGTTTTATTAAGATTGATCTTACATGTCAAGTTTTGAGTTAATGAAATATATGTGT
273143 TCAATGTAAAAGATCTCAACCCG
131 TCAATGTAAAAGATCTCAACCCG
*
273166 TCAAGTACATATTGAGAGAACAGTGTAAAACTAAAGTAGTTTTTACTCATTTCCGTATCTTTTTA
1 TCAAGTACATATTGAGAGAACAGTGTAAAACTAAAGTAGTTTTTACTCATTTCCCTATCTTTTTA
273231 TATGATACATGTTTTATTAAGATTGATCTTACATGTCAAGTTTTGAGTTAAT-AAAGTATATGTG
66 TATGATACATGTTTTATTAAGATTGATCTTACATGTCAAGTTTTGAGTTAATGAAA-TATATGTG
*
273295 TTTAATGTAAAAG
130 TTCAATGTAAAAG
273308 GTTTCAACGG
Statistics
Matches: 138, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
152 3 0.02
153 135 0.98
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (153 bp):
TCAAGTACATATTGAGAGAACAGTGTAAAACTAAAGTAGTTTTTACTCATTTCCCTATCTTTTTA
TATGATACATGTTTTATTAAGATTGATCTTACATGTCAAGTTTTGAGTTAATGAAATATATGTGT
TCAATGTAAAAGATCTCAACCCG
Found at i:274427 original size:46 final size:45
Alignment explanation
Indices: 274366--274463 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 45
274356 AACAAATGGA
274366 AAATGAAGACCTAAGTGAAAT-AACACTGGCCTTGCGCCTTCAGT
1 AAATGAAGACCTAAGTGAAATAAACACTGGCCTTGCGCCTTCAGT
* * *
274410 AAATGAAGTAACCTAAGTGAAATAAACACTGGTCTTGTGCCTTTAGT
1 AAATGAAG--ACCTAAGTGAAATAAACACTGGCCTTGCGCCTTCAGT
274457 AAATGAA
1 AAATGAA
274464 ATAAAACTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
44 8 0.17
46 13 0.27
47 27 0.56
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (45 bp):
AAATGAAGACCTAAGTGAAATAAACACTGGCCTTGCGCCTTCAGT
Found at i:286206 original size:29 final size:30
Alignment explanation
Indices: 286133--286206 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
286123 GCAATCGCTA
286133 AGGA-CCCCAATTTTTTTGTATTTATAATT
1 AGGAGCCCCAATTTTTTTGTATTTATAATT
*
286162 AGGAGCCTCC-ACTTTTTT-TATTTATAATT
1 AGGAGCC-CCAATTTTTTTGTATTTATAATT
286191 AGG-GCCCCTAATTTTT
1 AGGAGCCCC-AATTTTT
286207 ATAATTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 23 0.59
30 9 0.23
31 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (30 bp):
AGGAGCCCCAATTTTTTTGTATTTATAATT
Found at i:286213 original size:29 final size:29
Alignment explanation
Indices: 286152--286218 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
286142 ATTTTTTTGT
* *
286152 ATTTATAATTAGGAGCCTCCACTTTTTTT
1 ATTTATAATTAGGAGCCTCCAATTTTTTA
286181 ATTTATAATTAGG-GCC-CCTAATTTTTATA
1 ATTTATAATTAGGAGCCTCC-AATTTTT-TA
286210 ATTTCATAA
1 ATTT-ATAA
286219 AATTTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 2 0.06
28 9 0.27
29 18 0.55
30 4 0.12
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (29 bp):
ATTTATAATTAGGAGCCTCCAATTTTTTA
Found at i:286411 original size:117 final size:116
Alignment explanation
Indices: 286174--286401 Score: 336
Period size: 116 Copynumber: 2.0 Consensus size: 116
286164 GAGCCTCCAC
* * *
286174 TTTTTTTATTTATAATTAGGGCCCCTAATTTTTATAATTTCATAAAATTTTAGTTTTTGACTTTC
1 TTTTTTTATTTATAATTAGGGCCCCTAATTTTTATAAGTCCATAAAATTTTAGTTTTTGACCTTC
* *
286239 TTTTTTCATTTCTCTTATTAATTCATCCATTTTTGAATTAAATTTAACTAT
66 TTTTTCCATTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAACTAT
*
286290 TTTTTTATATTTATAATTAGGG-CCCTAATTTTTATAAGTCCATAAAATGTTTAGTTTTTTACCT
1 TTTTTT-TATTTATAATTAGGGCCCCTAATTTTTATAAGTCCATAAAAT-TTTAGTTTTTGACCT
* *
286354 TCTTTTTCCATTT-T-TGTATTTATTCATTCAATTTTGAATTAAATTTAA
64 TCTTTTTCCATTTCTCT-TATTAATTCATCCAATTTTGAATTAAATTTAA
286402 TCATGTTTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
115 1 0.01
116 60 0.59
117 40 0.40
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.55
Consensus pattern (116 bp):
TTTTTTTATTTATAATTAGGGCCCCTAATTTTTATAAGTCCATAAAATTTTAGTTTTTGACCTTC
TTTTTCCATTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAACTAT
Found at i:287124 original size:36 final size:36
Alignment explanation
Indices: 287077--287148 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
287067 TACCCAGTAC
287077 TTGTTATCTTCATCTTCTCCATACCCAACTATTGCT
1 TTGTTATCTTCATCTTCTCCATACCCAACTATTGCT
287113 TTGTTATCTTCATCTTCTCCATACCCAACTATTGCT
1 TTGTTATCTTCATCTTCTCCATACCCAACTATTGCT
287149 GCTCCATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (36 bp):
TTGTTATCTTCATCTTCTCCATACCCAACTATTGCT
Found at i:301909 original size:37 final size:38
Alignment explanation
Indices: 301846--301918 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
301836 ATAAAAAGCA
* **
301846 ATAGAAAAGTATGAAACCAGTGTTAATATAGCAAAGTG
1 ATAGAAAAGAATGAAAAAAGTGTTAATATAGCAAAGTG
301884 ATAGAAAAGAAT-AAAAAAGTGTTAATATAGCAAAG
1 ATAGAAAAGAATGAAAAAAGTGTTAATATAGCAAAG
301919 CAATTATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.22
Consensus pattern (38 bp):
ATAGAAAAGAATGAAAAAAGTGTTAATATAGCAAAGTG
Found at i:305896 original size:24 final size:24
Alignment explanation
Indices: 305867--305929 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
305857 AGTTCGTGAA
305867 CGTTCGGTTATGTTTGTTTATGCT
1 CGTTCGGTTATGTTTGTTTATGCT
* *
305891 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTTGTTTATGCT
**
305915 CGTTCATTTATGTTT
1 CGTTCGGTTATGTTT
305930 AACCCAATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.10, C:0.13, G:0.22, T:0.56
Consensus pattern (24 bp):
CGTTCGGTTATGTTTGTTTATGCT
Found at i:309154 original size:87 final size:87
Alignment explanation
Indices: 309006--309179 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
308996 GCTCCGACGA
309006 CAATTGAAGCTGCCAGTCTAGAAAAGGTTTCACTCCGGAAGAGTGACAAAGGTGTTAAGAATTCG
1 CAATTGAAGCTGCCAGTCTAGAAAAGGTTTCACTCCGGAAGAGTGACAAAGGTGTTAAGAATTCG
309071 AGTAACAAATTTGGCGAGGATG
66 AGTAACAAATTTGGCGAGGATG
* *
309093 CAATTGAAGCTGCCAGTCTAGAAAAGGTTTCACTCCGGAAGAGTGCCAAAGGTGTTGAGAATTCG
1 CAATTGAAGCTGCCAGTCTAGAAAAGGTTTCACTCCGGAAGAGTGACAAAGGTGTTAAGAATTCG
*
309158 AGTAACAAATTTGGGGAGGATG
66 AGTAACAAATTTGGCGAGGATG
309180 ATCTAATTAA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (87 bp):
CAATTGAAGCTGCCAGTCTAGAAAAGGTTTCACTCCGGAAGAGTGACAAAGGTGTTAAGAATTCG
AGTAACAAATTTGGCGAGGATG
Found at i:310794 original size:2 final size:2
Alignment explanation
Indices: 310787--310826 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
310777 TCTATAGGTA
310787 AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
310827 TCTCTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:315060 original size:21 final size:21
Alignment explanation
Indices: 315021--315071 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
315011 ACATTAAAAA
* *
315021 ATATAATATCATATTATTAAAT
1 ATATAATA-AATATAATTAAAT
315043 -TATCAATAAATATAATTAAAT
1 ATAT-AATAAATATAATTAAAT
315064 ATATAATA
1 ATATAATA
315072 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATAAATATAATTAAAT
Found at i:321329 original size:22 final size:23
Alignment explanation
Indices: 321291--321333 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
321281 CTTATAGAGG
*
321291 TAGAGGCTACCTAATGAGTCTGT
1 TAGAGACTACCTAATGAGTCTGT
321314 TAGAGACTA-CTAATGAGTCT
1 TAGAGACTACCTAATGAGTCT
321334 AAGGTTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (23 bp):
TAGAGACTACCTAATGAGTCTGT
Found at i:325876 original size:34 final size:34
Alignment explanation
Indices: 325814--325917 Score: 192
Period size: 34 Copynumber: 3.1 Consensus size: 34
325804 CCATAGTTGT
*
325814 ATAAAGGTATAGGTCCAAA-AAAATATTATAAAC
1 ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
325847 ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
1 ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
325881 ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
1 ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
325915 ATA
1 ATA
325918 CAGAAGCTGT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
33 18 0.26
34 51 0.74
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (34 bp):
ATAAAGGTATAGGTCAAAAGAAAATATTATAAAC
Found at i:336345 original size:33 final size:32
Alignment explanation
Indices: 336294--336370 Score: 77
Period size: 33 Copynumber: 2.4 Consensus size: 32
336284 GTTTATTTAG
* *
336294 ATTTTG-CCCCTTTATTTTCCATGGTT-AGCTAT
1 ATTTTGTCCCC-TCATTTTCCATGATTGA-CTAT
* *
336326 ATTTTGTCGCCCTCATTTTCTATGATTGATTAT
1 ATTTTGTC-CCCTCATTTTCCATGATTGACTAT
336359 ATTTTGTCCCCT
1 ATTTTGTCCCCT
336371 TAAGTTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 10 0.26
33 24 0.63
34 4 0.11
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.51
Consensus pattern (32 bp):
ATTTTGTCCCCTCATTTTCCATGATTGACTAT
Found at i:340050 original size:6 final size:6
Alignment explanation
Indices: 340041--340115 Score: 53
Period size: 6 Copynumber: 12.5 Consensus size: 6
340031 AAAATGAAGA
* * * * * *
340041 TGATGC TGATGC TGATGC TAATGG TGGTGC CGGTGC TGCTGC TGATGC
1 TGATGC TGATGC TGATGC TGATGC TGATGC TGATGC TGATGC TGATGC
* * *
340089 TAATAG- TGATGC CGGTGC TGATGC TGA
1 TGAT-GC TGATGC TGATGC TGATGC TGA
340116 AGAAGATAAT
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
5 1 0.02
6 50 0.96
7 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.36, T:0.31
Consensus pattern (6 bp):
TGATGC
Found at i:340078 original size:30 final size:30
Alignment explanation
Indices: 340044--340115 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
340034 ATGAAGATGA
* *
340044 TGCTGATGCTGATGCTAATGGTGGTGCCGG
1 TGCTGATGCTGATGCTAATAGTGATGCCGG
*
340074 TGCTGCTGCTGATGCTAATAGTGATGCCGG
1 TGCTGATGCTGATGCTAATAGTGATGCCGG
340104 TGCTGATGCTGA
1 TGCTGATGCTGA
340116 AGAAGATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.31
Consensus pattern (30 bp):
TGCTGATGCTGATGCTAATAGTGATGCCGG
Found at i:342575 original size:62 final size:62
Alignment explanation
Indices: 342499--342622 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
342489 TTAGCGAACC
342499 GCCGCTAAGCGTGTTTACAGGAATTCGAATTGCCACAGGCCGATCATTTCTCCCAACGCTAT
1 GCCGCTAAGCGTGTTTACAGGAATTCGAATTGCCACAGGCCGATCATTTCTCCCAACGCTAT
342561 GCCGCTAAGCGTGTTTACAGGAATTCGAATTGCCACAGGCCGATCATTTCTCCCAACGCTAT
1 GCCGCTAAGCGTGTTTACAGGAATTCGAATTGCCACAGGCCGATCATTTCTCCCAACGCTAT
342623 TTTCAAACAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (62 bp):
GCCGCTAAGCGTGTTTACAGGAATTCGAATTGCCACAGGCCGATCATTTCTCCCAACGCTAT
Found at i:344962 original size:29 final size:30
Alignment explanation
Indices: 344902--344962 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
344892 TTTGTCCAAT
*
344902 AAAATTTTATAAATTCAAGGTTGTCCTCCA
1 AAAATTTTATAAATTCAAGATTGTCCTCCA
344932 AAAATTTTA-AAAGTTCAA-ATTCGTCC-CCA
1 AAAATTTTATAAA-TTCAAGATT-GTCCTCCA
344961 AA
1 AA
344963 CATAAATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (30 bp):
AAAATTTTATAAATTCAAGATTGTCCTCCA
Found at i:347305 original size:17 final size:17
Alignment explanation
Indices: 347283--347317 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
347273 TCACGAGGAT
347283 AAAAAATATACATATGA
1 AAAAAATATACATATGA
347300 AAAAAATATACATATGA
1 AAAAAATATACATATGA
347317 A
1 A
347318 TAGGGTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAAAATATACATATGA
Found at i:348991 original size:18 final size:19
Alignment explanation
Indices: 348954--348993 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
348944 CTATTAAAAG
348954 TTATAAAATAGTTCTTTTA
1 TTATAAAATAGTTCTTTTA
* *
348973 TTATAGAAT-GTTGTTTTA
1 TTATAAAATAGTTCTTTTA
348991 TTA
1 TTA
348994 AGTCCATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (19 bp):
TTATAAAATAGTTCTTTTA
Done.