Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007034.1 Hibiscus syriacus cultivar Beakdansim tig00018224_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: 64315
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Found at i:12 original size:7 final size:7
Alignment explanation
Indices: 1--3342 Score: 4121
Period size: 7 Copynumber: 491.4 Consensus size: 7
1 CCCGAAA
1 CCCGAAA
8 CCCGAAA
1 CCCGAAA
15 CCCGAAA
1 CCCGAAA
22 CCCGAAA
1 CCCGAAA
*
29 CCCTAAA
1 CCCGAAA
36 CCCG-AA
1 CCCGAAA
42 CCCGAAA
1 CCCGAAA
49 CCCGAAA
1 CCCGAAA
56 CCCGAAA
1 CCCGAAA
*
63 CCC-TAA
1 CCCGAAA
69 -CCGAAA
1 CCCGAAA
75 CCCG-AA
1 CCCGAAA
81 CCCGAAA
1 CCCGAAA
*
88 CCCTAAA
1 CCCGAAA
95 CCCGAAA
1 CCCGAAA
102 CCCGAAA
1 CCCGAAA
109 CCCGAAA
1 CCCGAAA
116 CCC-AAA
1 CCCGAAA
122 CCCGAAA
1 CCCGAAA
129 CCC-AAA
1 CCCGAAA
135 CCCGAAA
1 CCCGAAA
142 CCCGAAA
1 CCCGAAA
149 CCCGAAA
1 CCCGAAA
*
156 CCCAAAA
1 CCCGAAA
163 CCCGAAA
1 CCCGAAA
170 CCCGAAAA
1 CCCG-AAA
178 CCC-AAA
1 CCCGAAA
*
184 CCC-TAA
1 CCCGAAA
190 CCCGAAA
1 CCCGAAA
*
197 CCCTAAA
1 CCCGAAA
204 CCCGAAA
1 CCCGAAA
211 CCCGAAA
1 CCCGAAA
218 CCCGAAA
1 CCCGAAA
225 CCCGAAA
1 CCCGAAA
232 CCCGAAA
1 CCCGAAA
239 CCCGAAAA
1 CCCG-AAA
*
247 CCCTAAA
1 CCCGAAA
254 CCCGAAA
1 CCCGAAA
261 CCCGAAA
1 CCCGAAA
268 CCCGAAA
1 CCCGAAA
275 CCCGAAA
1 CCCGAAA
282 CCCGAAA
1 CCCGAAA
289 CCCGAAA
1 CCCGAAA
296 CCCGAAA
1 CCCGAAA
*
303 CCCTAAA
1 CCCGAAA
310 CCCG-AA
1 CCCGAAA
316 CCCGAAA
1 CCCGAAA
323 CCCGAAA
1 CCCGAAA
330 CCCGAAA
1 CCCGAAA
337 -CCGAAA
1 CCCGAAA
343 CCCGAAA
1 CCCGAAA
350 CCCGAAA
1 CCCGAAA
357 CCCGAAA
1 CCCGAAA
364 CCCGAAA
1 CCCGAAA
371 CCCGAAA
1 CCCGAAA
378 CCCGAAA
1 CCCGAAA
385 CCCGAAA
1 CCCGAAA
392 CCCGAAA
1 CCCGAAA
399 CCC-AAA
1 CCCGAAA
*
405 CCCTAAA
1 CCCGAAA
412 CCCGAAA
1 CCCGAAA
419 CCCGAAA
1 CCCGAAA
426 CCCGAAA
1 CCCGAAA
433 CCC-AAA
1 CCCGAAA
439 CCCGAAA
1 CCCGAAA
446 CCCGAAA
1 CCCGAAA
453 CCCGAAA
1 CCCGAAA
460 CCCGAAAA
1 CCCG-AAA
*
468 CCC-TAA
1 CCCGAAA
474 CCCGAAA
1 CCCGAAA
481 CCCGAAA
1 CCCGAAA
488 -CCGAAA
1 CCCGAAA
494 CCCG--A
1 CCCGAAA
*
499 -CCTAAA
1 CCCGAAA
505 CCCGAAA
1 CCCGAAA
512 CCCGAAA
1 CCCGAAA
*
519 CCCAAAA
1 CCCGAAA
526 CCCGAAA
1 CCCGAAA
533 CCCGAAA
1 CCCGAAA
540 CCCGAAA
1 CCCGAAA
547 CCCG-AA
1 CCCGAAA
553 CCCG-AA
1 CCCGAAA
559 CCCGAAA
1 CCCGAAA
566 CCCGAAA
1 CCCGAAA
573 CCCGAAA
1 CCCGAAA
580 CCCGAAA
1 CCCGAAA
587 CCCGAAA
1 CCCGAAA
594 CCCGAAA
1 CCCGAAA
601 CCCGAAA
1 CCCGAAA
608 CCCGAAA
1 CCCGAAA
615 CCCGAAA
1 CCCGAAA
622 CCCG-AA
1 CCCGAAA
628 -CCGAAA
1 CCCGAAA
634 CCCGAAA
1 CCCGAAA
641 -CCGAAA
1 CCCGAAA
647 CCCGAAA
1 CCCGAAA
654 CCCGAAA
1 CCCGAAA
661 CCCGAAA
1 CCCGAAA
668 -CCGAAA
1 CCCGAAA
674 CCCGAAA
1 CCCGAAA
681 CCCGAAA
1 CCCGAAA
688 CCCGAAA
1 CCCGAAA
*
695 CCCTAAAA
1 CCC-GAAA
703 CCCGAAA
1 CCCGAAA
710 CCCGAAA
1 CCCGAAA
717 CCCGAAA
1 CCCGAAA
724 CCCGAAA
1 CCCGAAA
731 CCCG-AA
1 CCCGAAA
737 CCCGAAA
1 CCCGAAA
744 CCC-AAA
1 CCCGAAA
750 CCCGAAA
1 CCCGAAA
757 CCCGAAA
1 CCCGAAA
764 CCCGAAA
1 CCCGAAA
771 CCCG-AA
1 CCCGAAA
777 CCCGAAA
1 CCCGAAA
784 CCCG-AA
1 CCCGAAA
*
790 CCCTAAA
1 CCCGAAA
797 CCCGAAA
1 CCCGAAA
804 CCCGAAA
1 CCCGAAA
811 CCCGAAA
1 CCCGAAA
818 CCCCGAAA
1 -CCCGAAA
826 CCCGAAAAAA
1 CCCG---AAA
836 CCCGAAA
1 CCCGAAA
843 CCCGAAA
1 CCCGAAA
850 CCCGAAA
1 CCCGAAA
857 CCCGAAA
1 CCCGAAA
864 CCC-AAA
1 CCCGAAA
870 CCCGAAA
1 CCCGAAA
877 CCCGAAA
1 CCCGAAA
884 CCCGAAA
1 CCCGAAA
891 CCCGAAA
1 CCCGAAA
*
898 CCCTAAA
1 CCCGAAA
905 CCCGAAA
1 CCCGAAA
912 CCCGAAA
1 CCCGAAA
919 CCCGAAA
1 CCCGAAA
926 CCCCGAAA
1 -CCCGAAA
934 CCCGAAA
1 CCCGAAA
941 CCCGAAA
1 CCCGAAA
948 CCCG-AA
1 CCCGAAA
954 -CCG-AA
1 CCCGAAA
*
959 CCCTAAA
1 CCCGAAA
966 CCCGAAAAAA
1 CCCG---AAA
*
976 CCCTAAA
1 CCCGAAA
983 CCCGAAA
1 CCCGAAA
990 CCCGAAA
1 CCCGAAA
997 CCCGAAA
1 CCCGAAA
1004 CCCGAAA
1 CCCGAAA
*
1011 CCC--TA
1 CCCGAAA
1016 CCCGAAA
1 CCCGAAA
1023 CCCGAAA
1 CCCGAAA
1030 CCCGAAA
1 CCCGAAA
1037 CCCGAAA
1 CCCGAAA
*
1044 CCCTAAA
1 CCCGAAA
1051 CCCG-AA
1 CCCGAAA
1057 CCCGAAA
1 CCCGAAA
1064 CCCGAAA
1 CCCGAAA
1071 CCC--AA
1 CCCGAAA
*
1076 CCCTAAA
1 CCCGAAA
1083 CCCGAAA
1 CCCGAAA
1090 CCCG--A
1 CCCGAAA
1095 CCCGAAAA
1 CCCG-AAA
*
1103 CCCTAAA
1 CCCGAAA
1110 CCCGAAAA
1 CCCG-AAA
1118 CCCG-AA
1 CCCGAAA
1124 CCCGAAA
1 CCCGAAA
1131 CCCGAAA
1 CCCGAAA
1138 CCC-AAA
1 CCCGAAA
*
1144 CCCTAAA
1 CCCGAAA
1151 CCCGAAA
1 CCCGAAA
1158 CCCGAAA
1 CCCGAAA
*
1165 CCCTAAA
1 CCCGAAA
*
1172 CCCTAAA
1 CCCGAAA
1179 CCCGAAAA
1 CCCG-AAA
1187 CCC-AAA
1 CCCGAAA
1193 CCCGAAA
1 CCCGAAA
1200 CCCGAAA
1 CCCGAAA
*
1207 CCC-TAA
1 CCCGAAA
1213 CCCG-AA
1 CCCGAAA
*
1219 CCCTAAA
1 CCCGAAA
1226 CCCGAAA
1 CCCGAAA
1233 CCCGAAA
1 CCCGAAA
1240 CCCGAAAA
1 CCCG-AAA
1248 CCCGAAA
1 CCCGAAA
1255 CCCGAAA
1 CCCGAAA
1262 CCCGAAA
1 CCCGAAA
1269 CCCGAAA
1 CCCGAAA
*
1276 CCCTAAA
1 CCCGAAA
1283 CCCGAAA
1 CCCGAAA
*
1290 CCCTAAAA
1 CCC-GAAA
1298 CCCG-AA
1 CCCGAAA
*
1304 CCC-TAA
1 CCCGAAA
1310 CCCG-AA
1 CCCGAAA
*
1316 CCCTAAA
1 CCCGAAA
1323 CCCGAAA
1 CCCGAAA
1330 CCCGAAA
1 CCCGAAA
1337 CCC-AAA
1 CCCGAAA
* **
1343 -CCTACC
1 CCCGAAA
1349 CCCGAAA
1 CCCGAAA
1356 CCCGAAA
1 CCCGAAA
1363 CCC-AAA
1 CCCGAAA
1369 CCCGAAA
1 CCCGAAA
1376 CCCGAAA
1 CCCGAAA
*
1383 CCCTAAA
1 CCCGAAA
1390 CCCGAAA
1 CCCGAAA
1397 CCCGAAA
1 CCCGAAA
1404 CCCGAAA
1 CCCGAAA
1411 CCCG--A
1 CCCGAAA
1416 CCCG-AA
1 CCCGAAA
1422 CCC-AAA
1 CCCGAAA
1428 CCCGAAA
1 CCCGAAA
1435 CCCGAAA
1 CCCGAAA
1442 CCCGAAA
1 CCCGAAA
1449 CCCGAAA
1 CCCGAAA
1456 CCCGAAA
1 CCCGAAA
1463 CCCGAAA
1 CCCGAAA
1470 CCCGAAA
1 CCCGAAA
1477 CCCGAAA
1 CCCGAAA
1484 CCCGAAA
1 CCCGAAA
1491 CCCGAAA
1 CCCGAAA
1498 CCCGAAA
1 CCCGAAA
1505 CCCG-AA
1 CCCGAAA
1511 CCCGAAA
1 CCCGAAA
1518 CCCGAAA
1 CCCGAAA
*
1525 CCCTAAA
1 CCCGAAA
*
1532 CCCTAAA
1 CCCGAAA
1539 CCCGAAA
1 CCCGAAA
1546 CCCGAAA
1 CCCGAAA
1553 CCCGAAA
1 CCCGAAA
1560 CCCG-AA
1 CCCGAAA
1566 CCCGAAA
1 CCCGAAA
1573 CCCGAAA
1 CCCGAAA
1580 CCCGAAA
1 CCCGAAA
1587 CCCGAAA
1 CCCGAAA
*
1594 CCCTAAA
1 CCCGAAA
1601 CCCGAAA
1 CCCGAAA
*
1608 CCCTAAA
1 CCCGAAA
1615 CCCGAAA
1 CCCGAAA
1622 CCCGAAA
1 CCCGAAA
1629 CCC-AAA
1 CCCGAAA
1635 CCCGAAA
1 CCCGAAA
1642 CCCGAAA
1 CCCGAAA
*
1649 CCCTAAA
1 CCCGAAA
1656 CCCGAAA
1 CCCGAAA
1663 CCC--AA
1 CCCGAAA
*
1668 CCCTAAA
1 CCCGAAA
1675 CCCGAAA
1 CCCGAAA
*
1682 CCCTAAA
1 CCCGAAA
*
1689 CCCTAAA
1 CCCGAAA
*
1696 CCCTAAA
1 CCCGAAA
1703 CCCGAAA
1 CCCGAAA
1710 -CC-AAA
1 CCCGAAA
1715 CCCGAAA
1 CCCGAAA
1722 CCCGAAA
1 CCCGAAA
1729 -CCGAAA
1 CCCGAAA
*
1735 CCCTAAA
1 CCCGAAA
1742 CCCGAAA
1 CCCGAAA
1749 CCCGAAA
1 CCCGAAA
1756 CCCGAAAA
1 CCCG-AAA
1764 CCCGAAA
1 CCCGAAA
1771 CCCGAAA
1 CCCGAAA
1778 CCCGAAA
1 CCCGAAA
1785 CCCG-AA
1 CCCGAAA
1791 CCCGAAA
1 CCCGAAA
1798 CCC-AAA
1 CCCGAAA
1804 CCCG-AA
1 CCCGAAA
1810 CCCGAAA
1 CCCGAAA
1817 CCCGAAA
1 CCCGAAA
1824 CCCGAAA
1 CCCGAAA
1831 CCCGAAA
1 CCCGAAA
1838 CCCG-AA
1 CCCGAAA
1844 CCCGAAA
1 CCCGAAA
*
1851 CCCAAAA
1 CCCGAAA
1858 CCCGAAA
1 CCCGAAA
1865 CCCG-AA
1 CCCGAAA
1871 CCCGAAA
1 CCCGAAA
1878 CCCCGAAA
1 -CCCGAAA
1886 CCCGAAA
1 CCCGAAA
*
1893 -CCTAAA
1 CCCGAAA
1899 CCCGAAA
1 CCCGAAA
1906 CCCGAAA
1 CCCGAAA
1913 -CCG-AA
1 CCCGAAA
*
1918 CCC-TAA
1 CCCGAAA
1924 CCCGAAA
1 CCCGAAA
1931 CCCGAAA
1 CCCGAAA
1938 CCCGAAA
1 CCCGAAA
1945 CCCGAAA
1 CCCGAAA
*
1952 CCCTAAAA
1 CCC-GAAA
1960 CCCGAAA
1 CCCGAAA
1967 CCCGAAA
1 CCCGAAA
1974 -CCGAAA
1 CCCGAAA
1980 CCCGAAA
1 CCCGAAA
1987 CCCGAAA
1 CCCGAAA
1994 CCCGAAA
1 CCCGAAA
*
2001 CCC-TAA
1 CCCGAAA
2007 CCC-AAA
1 CCCGAAA
2013 CCC--AA
1 CCCGAAA
2018 CCCGAAA
1 CCCGAAA
*
2025 CCCTAAAAA
1 CCC--GAAA
2034 CCCGAAA
1 CCCGAAA
*
2041 CCCTAAA
1 CCCGAAA
2048 CCC--AA
1 CCCGAAA
*
2053 CCCTAAA
1 CCCGAAA
*
2060 CCCTAAA
1 CCCGAAA
2067 CCCGAAA
1 CCCGAAA
2074 CCCGAAA
1 CCCGAAA
*
2081 CCCTAAA
1 CCCGAAA
2088 CCCGAAA
1 CCCGAAA
2095 CCCGAAA
1 CCCGAAA
2102 CCC-AAA
1 CCCGAAA
2108 CCCGAAA
1 CCCGAAA
2115 CCCGAAA
1 CCCGAAA
2122 CCCGAAA
1 CCCGAAA
2129 CCCGAAA
1 CCCGAAA
2136 CCCGAAA
1 CCCGAAA
2143 CCCGAAA
1 CCCGAAA
2150 CCCG--A
1 CCCGAAA
*
2155 -CCTAAA
1 CCCGAAA
2161 CCCGAAA
1 CCCGAAA
*
2168 CCCTAAAA
1 CCC-GAAA
2176 CCCG-AA
1 CCCGAAA
2182 CCCG-AA
1 CCCGAAA
2188 -CCGAAA
1 CCCGAAA
2194 -CCGAAAAA
1 CCCG--AAA
2202 CCCGAAA
1 CCCGAAA
*
2209 CCCTAAA
1 CCCGAAA
2216 CCCGAAA
1 CCCGAAA
*
2223 ACC-AAA
1 CCCGAAA
*
2229 CCCCCCAAA
1 --CCCGAAA
*
2238 CCCTAAA
1 CCCGAAA
*
2245 CCCTAAA
1 CCCGAAA
2252 -CCGAAA
1 CCCGAAA
*
2258 CCC-TAA
1 CCCGAAA
2264 CCCGAAA
1 CCCGAAA
*
2271 CCC-TAA
1 CCCGAAA
*
2277 CCCTAAA
1 CCCGAAA
2284 CCCG-AA
1 CCCGAAA
*
2290 CCCTAAA
1 CCCGAAA
2297 CCCGAAA
1 CCCGAAA
2304 CCCGAAA
1 CCCGAAA
*
2311 CCCTAAA
1 CCCGAAA
2318 CCCGAAA
1 CCCGAAA
2325 CCCGAAA
1 CCCGAAA
*
2332 CCCTAAA
1 CCCGAAA
2339 CCCG-AA
1 CCCGAAA
*
2345 CCCTAAA
1 CCCGAAA
2352 CCC-AAA
1 CCCGAAA
*
2358 CCCTAAA
1 CCCGAAA
2365 CCCGAAA
1 CCCGAAA
2372 CCCGAAA
1 CCCGAAA
*
2379 CCC-TAA
1 CCCGAAA
*
2385 CCCTAAA
1 CCCGAAA
2392 CCCGAAA
1 CCCGAAA
2399 CCCGAAA
1 CCCGAAA
*
2406 CCCTAAA
1 CCCGAAA
*
2413 CCCTAAA
1 CCCGAAA
*
2420 CCCTAAA
1 CCCGAAA
2427 CCC-AAA
1 CCCGAAA
2433 CCCGAAAA
1 CCCG-AAA
*
2441 CCC-TAA
1 CCCGAAA
2447 CCCGAAA
1 CCCGAAA
2454 CCCGAAA
1 CCCGAAA
2461 CCCGAAA
1 CCCGAAA
*
2468 CCCTAAA
1 CCCGAAA
*
2475 CCCTAAA
1 CCCGAAA
*
2482 CCCTAAA
1 CCCGAAA
2489 CCCGAAA
1 CCCGAAA
2496 CCC-AAA
1 CCCGAAA
2502 CCCGAAA
1 CCCGAAA
*
2509 CCCTAAA
1 CCCGAAA
2516 CCCGAAA
1 CCCGAAA
2523 CCCGAAA
1 CCCGAAA
*
2530 CCCTAAA
1 CCCGAAA
2537 CCCCCGAAA
1 --CCCGAAA
2546 -CCG-AA
1 CCCGAAA
*
2551 CCC-TAA
1 CCCGAAA
2557 CCCG-AA
1 CCCGAAA
2563 CCCGAAA
1 CCCGAAA
2570 CCCCGAAA
1 -CCCGAAA
*
2578 CCCTAAA
1 CCCGAAA
*
2585 CCCTAAA
1 CCCGAAA
2592 CCCGAAA
1 CCCGAAA
2599 CCCGAAA
1 CCCGAAA
*
2606 -CCAAAA
1 CCCGAAA
2612 CCCG-AA
1 CCCGAAA
2618 CCCGAAA
1 CCCGAAA
2625 CCCGAAA
1 CCCGAAA
*
2632 CCCTAAA
1 CCCGAAA
2639 CCCGAAA
1 CCCGAAA
2646 CCCGAAAAAA
1 CCCG---AAA
2656 CCCGAAA
1 CCCGAAA
*
2663 CCC-TAA
1 CCCGAAA
2669 CCCGAAA
1 CCCGAAA
2676 CCCGAAA
1 CCCGAAA
*
2683 CCCTAAA
1 CCCGAAA
*
2690 CCC-TAA
1 CCCGAAA
2696 CCCGAAA
1 CCCGAAA
*
2703 CCCTAAA
1 CCCGAAA
2710 CCCG-AA
1 CCCGAAA
2716 CCCGAAA
1 CCCGAAA
2723 CCCGAAA
1 CCCGAAA
2730 CCC-AAA
1 CCCGAAA
2736 CCCGAAA
1 CCCGAAA
*
2743 CCCTAAA
1 CCCGAAA
2750 CCCGAAA
1 CCCGAAA
*
2757 CCCTAAA
1 CCCGAAA
2764 CCCGAAA
1 CCCGAAA
*
2771 CCCTAAAA
1 CCC-GAAA
2779 CCCG-AA
1 CCCGAAA
2785 CCCGAAA
1 CCCGAAA
*
2792 CCCTAAA
1 CCCGAAA
2799 CCCGAAA
1 CCCGAAA
2806 CCC-AAA
1 CCCGAAA
2812 CCCG-AA
1 CCCGAAA
2818 CCCG-AA
1 CCCGAAA
2824 CCCGAAA
1 CCCGAAA
*
2831 CCC-TAA
1 CCCGAAA
2837 -CCGAAA
1 CCCGAAA
*
2843 CCCTAACA
1 CCCGAA-A
2851 CCCG-AA
1 CCCGAAA
*
2857 CCC-TAA
1 CCCGAAA
2863 CCCGAAA
1 CCCGAAA
*
2870 CCCTAAA
1 CCCGAAA
2877 CCCGAAA
1 CCCGAAA
2884 CCCG-AA
1 CCCGAAA
*
2890 CCCTAAA
1 CCCGAAA
2897 CCCG-AA
1 CCCGAAA
*
2903 CCCTAAA
1 CCCGAAA
*
2910 CCCTAAA
1 CCCGAAA
2917 CCCGAAA
1 CCCGAAA
2924 CCCGAAAA
1 CCCG-AAA
2932 CCCGAAA
1 CCCGAAA
*
2939 CCCTAAA
1 CCCGAAA
*
2946 CCCTAAA
1 CCCGAAA
2953 CCCGAAA
1 CCCGAAA
2960 CCCG-AA
1 CCCGAAA
*
2966 CCCTAAA
1 CCCGAAA
2973 CCCGAAA
1 CCCGAAA
*
2980 CCCTAAA
1 CCCGAAA
*
2987 CCCTAAA
1 CCCGAAA
*
2994 CCC-TAA
1 CCCGAAA
*
3000 CCCTAAA
1 CCCGAAA
*
3007 CCCTAAA
1 CCCGAAA
*
3014 CCCTAAA
1 CCCGAAA
3021 CCCGAAA
1 CCCGAAA
3028 CCC-AAA
1 CCCGAAA
*
3034 CCCTAAA
1 CCCGAAA
*
3041 CCC-TAA
1 CCCGAAA
*
3047 CCCTAAA
1 CCCGAAA
*
3054 CCCTAAA
1 CCCGAAA
*
3061 CCCTAAA
1 CCCGAAA
*
3068 CCCTAAA
1 CCCGAAA
*
3075 CCCTAAA
1 CCCGAAA
3082 CCC-AAA
1 CCCGAAA
3088 CCCGAAA
1 CCCGAAA
*
3095 CCCTAAA
1 CCCGAAA
*
3102 CCCTAAA
1 CCCGAAA
3109 CCCGAAA
1 CCCGAAA
*
3116 CCCTAAA
1 CCCGAAA
*
3123 CCCTAAA
1 CCCGAAA
*
3130 CCCTAAA
1 CCCGAAA
*
3137 CCCTAAA
1 CCCGAAA
*
3144 CCCTAAA
1 CCCGAAA
*
3151 CCCTAAA
1 CCCGAAA
*
3158 CCCTAAA
1 CCCGAAA
*
3165 CCC-TAA
1 CCCGAAA
3171 CCCGAAA
1 CCCGAAA
*
3178 CCCTAAA
1 CCCGAAA
*
3185 CCCTAAA
1 CCCGAAA
*
3192 CCCTAAA
1 CCCGAAA
*
3199 CCC-TAA
1 CCCGAAA
3205 CCC--AA
1 CCCGAAA
*
3210 CCCTAAA
1 CCCGAAA
*
3217 CCCTAAA
1 CCCGAAA
3224 CCC-AAA
1 CCCGAAA
*
3230 CCC-TAA
1 CCCGAAA
3236 CCC-AAA
1 CCCGAAA
*
3242 CCCTAAA
1 CCCGAAA
*
3249 CCCTAAA
1 CCCGAAA
*
3256 CCCTAAA
1 CCCGAAA
3263 CCC-AAA
1 CCCGAAA
3269 CCCGAAA
1 CCCGAAA
*
3276 CCC-TAA
1 CCCGAAA
3282 CCCGAAA
1 CCCGAAA
*
3289 CCCTAAA
1 CCCGAAA
*
3296 CCCTAAA
1 CCCGAAA
3303 CCC--AA
1 CCCGAAA
*
3308 CCC-TAA
1 CCCGAAA
3314 CCCG-AA
1 CCCGAAA
3320 CCCG-AA
1 CCCGAAA
3326 CCCTG-AA
1 CCC-GAAA
*
3333 CCCGGAA
1 CCCGAAA
3340 CCC
1 CCC
3343 TAACCCTAAC
Statistics
Matches: 3000, Mismatches: 176, Indels: 318
0.86 0.05 0.09
Matches are distributed among these distances:
4 4 0.00
5 70 0.02
6 546 0.18
7 2213 0.74
8 129 0.04
9 18 0.01
10 20 0.01
ACGTcount: A:0.43, C:0.44, G:0.10, T:0.04
Consensus pattern (7 bp):
CCCGAAA
Found at i:3367 original size:7 final size:7
Alignment explanation
Indices: 2256--6657 Score: 6744
Period size: 7 Copynumber: 636.1 Consensus size: 7
2246 CCTAAACCGA
2256 AACCCT-
1 AACCCTG
2262 AACCC-G
1 AACCCTG
2268 AAACCCT-
1 -AACCCTG
*
2275 AACCCTA
1 AACCCTG
2282 AACCC-G
1 AACCCTG
*
2288 AACCCTA
1 AACCCTG
2295 AACCC-G
1 AACCCTG
2301 AAACCC-G
1 -AACCCTG
*
2308 AAACCCTA
1 -AACCCTG
2316 AACCC-G
1 AACCCTG
2322 AAACCC-G
1 -AACCCTG
*
2329 AAACCCTA
1 -AACCCTG
2337 AACCC-G
1 AACCCTG
*
2343 AACCCTA
1 AACCCTG
*
2350 AACCC-A
1 AACCCTG
*
2356 AACCCTA
1 AACCCTG
2363 AACCC-G
1 AACCCTG
2369 AAACCC-G
1 -AACCCTG
2376 AAACCCT-
1 -AACCCTG
*
2383 AACCCTA
1 AACCCTG
2390 AACCC-G
1 AACCCTG
2396 AAACCC-G
1 -AACCCTG
*
2403 AAACCCTA
1 -AACCCTG
*
2411 AACCCTA
1 AACCCTG
*
2418 AACCCTA
1 AACCCTG
*
2425 AACCC-A
1 AACCCTG
2431 AACCC-G
1 AACCCTG
2437 AAAACCCT-
1 --AACCCTG
2445 AACCC-G
1 AACCCTG
2451 AAACCC-G
1 -AACCCTG
2458 AAACCC-G
1 -AACCCTG
*
2465 AAACCCTA
1 -AACCCTG
*
2473 AACCCTA
1 AACCCTG
*
2480 AACCCTA
1 AACCCTG
2487 AACCC-G
1 AACCCTG
*
2493 AAACCC-A
1 -AACCCTG
2500 AACCC-G
1 AACCCTG
*
2506 AAACCCTA
1 -AACCCTG
2514 AACCC-G
1 AACCCTG
2520 AAACCC-G
1 -AACCCTG
*
2527 AAACCCTA
1 -AACCCTG
*
2535 AACCCCCG
1 AA-CCCTG
*
2543 AAACC-G
1 AACCCTG
2549 AACCCT-
1 AACCCTG
2555 AACCC-G
1 AACCCTG
2561 AACCC-G
1 AACCCTG
*
2567 AAACCCCG
1 -AACCCTG
*
2575 AAACCCTA
1 -AACCCTG
*
2583 AACCCTA
1 AACCCTG
2590 AACCC-G
1 AACCCTG
2596 AAACCC-G
1 -AACCCTG
* **
2603 AAACCAA
1 AACCCTG
2610 AACCC-G
1 AACCCTG
2616 AACCC-G
1 AACCCTG
2622 AAACCC-G
1 -AACCCTG
*
2629 AAACCCTA
1 -AACCCTG
2637 AACCC-G
1 AACCCTG
2643 AAACCC-G
1 -AACCCTG
2650 AAAAAACCC-G
1 ----AACCCTG
2660 AAACCCT-
1 -AACCCTG
2667 AACCC-G
1 AACCCTG
2673 AAACCC-G
1 -AACCCTG
*
2680 AAACCCTA
1 -AACCCTG
2688 AACCCT-
1 AACCCTG
2694 AACCC-G
1 AACCCTG
*
2700 AAACCCTA
1 -AACCCTG
2708 AACCC-G
1 AACCCTG
2714 AACCC-G
1 AACCCTG
2720 AAACCC-G
1 -AACCCTG
*
2727 AAACCC-A
1 -AACCCTG
2734 AACCC-G
1 AACCCTG
*
2740 AAACCCTA
1 -AACCCTG
2748 AACCC-G
1 AACCCTG
*
2754 AAACCCTA
1 -AACCCTG
2762 AACCC-G
1 AACCCTG
*
2768 AAACCCTAA
1 -AACCCT-G
2777 AACCC-G
1 AACCCTG
2783 AACCC-G
1 AACCCTG
*
2789 AAACCCTA
1 -AACCCTG
2797 AACCC-G
1 AACCCTG
*
2803 AAACCC-A
1 -AACCCTG
2810 AACCC-G
1 AACCCTG
2816 AACCC-G
1 AACCCTG
2822 AACCC-G
1 AACCCTG
2828 AAACCCT-
1 -AACCCTG
2835 AA-CC-G
1 AACCCTG
2840 AAACCCT-
1 -AACCCTG
*
2847 AACACCCG
1 AAC-CCTG
2855 AACCCT-
1 AACCCTG
2861 AACCC-G
1 AACCCTG
*
2867 AAACCCTA
1 -AACCCTG
2875 AACCC-G
1 AACCCTG
2881 AAACCC-G
1 -AACCCTG
*
2888 AACCCTA
1 AACCCTG
2895 AACCC-G
1 AACCCTG
*
2901 AACCCTA
1 AACCCTG
*
2908 AACCCTA
1 AACCCTG
2915 AACCC-G
1 AACCCTG
2921 AAACCC-G
1 -AACCCTG
2928 AAAACCC-G
1 --AACCCTG
*
2936 AAACCCTA
1 -AACCCTG
*
2944 AACCCTA
1 AACCCTG
2951 AACCC-G
1 AACCCTG
2957 AAACCC-G
1 -AACCCTG
*
2964 AACCCTA
1 AACCCTG
2971 AACCC-G
1 AACCCTG
*
2977 AAACCCTA
1 -AACCCTG
*
2985 AACCCTA
1 AACCCTG
2992 AACCCT-
1 AACCCTG
*
2998 AACCCTA
1 AACCCTG
*
3005 AACCCTA
1 AACCCTG
*
3012 AACCCTA
1 AACCCTG
3019 AACCC-G
1 AACCCTG
*
3025 AAACCC-A
1 -AACCCTG
*
3032 AACCCTA
1 AACCCTG
3039 AACCCT-
1 AACCCTG
*
3045 AACCCTA
1 AACCCTG
*
3052 AACCCTA
1 AACCCTG
*
3059 AACCCTA
1 AACCCTG
*
3066 AACCCTA
1 AACCCTG
*
3073 AACCCTA
1 AACCCTG
*
3080 AACCC-A
1 AACCCTG
3086 AACCC-G
1 AACCCTG
*
3092 AAACCCTA
1 -AACCCTG
*
3100 AACCCTA
1 AACCCTG
3107 AACCC-G
1 AACCCTG
*
3113 AAACCCTA
1 -AACCCTG
*
3121 AACCCTA
1 AACCCTG
*
3128 AACCCTA
1 AACCCTG
*
3135 AACCCTA
1 AACCCTG
*
3142 AACCCTA
1 AACCCTG
*
3149 AACCCTA
1 AACCCTG
*
3156 AACCCTA
1 AACCCTG
3163 AACCCT-
1 AACCCTG
3169 AACCC-G
1 AACCCTG
*
3175 AAACCCTA
1 -AACCCTG
*
3183 AACCCTA
1 AACCCTG
*
3190 AACCCTA
1 AACCCTG
3197 AACCCT-
1 AACCCTG
3203 AACCC--
1 AACCCTG
*
3208 AACCCTA
1 AACCCTG
*
3215 AACCCTA
1 AACCCTG
*
3222 AACCC-A
1 AACCCTG
3228 AACCCT-
1 AACCCTG
*
3234 AACCC-A
1 AACCCTG
*
3240 AACCCTA
1 AACCCTG
*
3247 AACCCTA
1 AACCCTG
*
3254 AACCCTA
1 AACCCTG
*
3261 AACCC-A
1 AACCCTG
3267 AACCC-G
1 AACCCTG
3273 AAACCCT-
1 -AACCCTG
3280 AACCC-G
1 AACCCTG
*
3286 AAACCCTA
1 -AACCCTG
*
3294 AACCCTA
1 AACCCTG
3301 AACCC--
1 AACCCTG
3306 AACCCT-
1 AACCCTG
3312 AACCC-G
1 AACCCTG
3318 AACCC-G
1 AACCCTG
3324 AACCCTG
1 AACCCTG
*
3331 AACCCGG
1 AACCCTG
3338 AACCCT-
1 AACCCTG
3344 AACCCT-
1 AACCCTG
3350 AACCC-G
1 AACCCTG
3356 AACCCTG
1 AACCCTG
3363 AACCCTG
1 AACCCTG
3370 AACCCTG
1 AACCCTG
3377 AACCCTG
1 AACCCTG
3384 ACCCACCCTG
1 A---ACCCTG
3394 AACCCTG
1 AACCCTG
3401 AACCCTG
1 AACCCTG
3408 AACCCTG
1 AACCCTG
3415 AACCC-G
1 AACCCTG
3421 AACCCTG
1 AACCCTG
3428 AACCCTG
1 AACCCTG
3435 AACCCTG
1 AACCCTG
3442 AACCCTG
1 AACCCTG
3449 AACCCTG
1 AACCCTG
3456 AACCCTG
1 AACCCTG
3463 AACCCTG
1 AACCCTG
3470 AACCCTG
1 AACCCTG
3477 AACCCTG
1 AACCCTG
3484 AACCCTG
1 AACCCTG
3491 AACCCTG
1 AACCCTG
3498 AACCCTG
1 AACCCTG
3505 AACCCTG
1 AACCCTG
3512 AA-CCTG
1 AACCCTG
3518 AACCCTG
1 AACCCTG
3525 AACCCTG
1 AACCCTG
3532 AACCCTG
1 AACCCTG
3539 AACCCTG
1 AACCCTG
3546 AACCCTG
1 AACCCTG
3553 AACCCTG
1 AACCCTG
3560 AACCCTG
1 AACCCTG
3567 AACCCTG
1 AACCCTG
3574 AACCCTG
1 AACCCTG
3581 AACCCTG
1 AACCCTG
3588 AACCCTG
1 AACCCTG
3595 AACCCTG
1 AACCCTG
3602 AACCCTG
1 AACCCTG
3609 AACCCTG
1 AACCCTG
3616 AACCCTG
1 AACCCTG
3623 AACCCTG
1 AACCCTG
3630 AACCCTG
1 AACCCTG
3637 AACCCTG
1 AACCCTG
3644 AACCCTG
1 AACCCTG
3651 AACCCTG
1 AACCCTG
3658 AACCCTG
1 AACCCTG
3665 AACCCTG
1 AACCCTG
3672 AACCCTG
1 AACCCTG
3679 AACCCTG
1 AACCCTG
3686 AACCCTG
1 AACCCTG
3693 AACCCTG
1 AACCCTG
3700 AACCCTG
1 AACCCTG
3707 AACCCTG
1 AACCCTG
3714 AACCCTG
1 AACCCTG
3721 AACCCTG
1 AACCCTG
3728 AACCCTG
1 AACCCTG
3735 AACCCTG
1 AACCCTG
3742 AACCCTG
1 AACCCTG
3749 AACCCTG
1 AACCCTG
3756 AACCCTG
1 AACCCTG
3763 AACCCTG
1 AACCCTG
3770 AACCCTG
1 AACCCTG
3777 AACCCTG
1 AACCCTG
3784 AACCCTG
1 AACCCTG
3791 AACCCTG
1 AACCCTG
3798 AACCCTG
1 AACCCTG
3805 AACCCTG
1 AACCCTG
3812 AACCCTG
1 AACCCTG
3819 AACCCTG
1 AACCCTG
3826 AACCCTG
1 AACCCTG
3833 AACCCTG
1 AACCCTG
3840 AACCCTG
1 AACCCTG
3847 AACCCTG
1 AACCCTG
3854 AACCCTG
1 AACCCTG
3861 AACCCTG
1 AACCCTG
3868 AACCCTG
1 AACCCTG
3875 AACCCTG
1 AACCCTG
3882 AACCCTG
1 AACCCTG
3889 AACCCTG
1 AACCCTG
3896 AACCCTG
1 AACCCTG
3903 AACCCTG
1 AACCCTG
3910 AACCCTG
1 AACCCTG
3917 AACCCTG
1 AACCCTG
3924 AACCCTG
1 AACCCTG
3931 AACCCTG
1 AACCCTG
3938 AACCCTG
1 AACCCTG
3945 AACCCTG
1 AACCCTG
3952 AACCCTG
1 AACCCTG
3959 AACCCTG
1 AACCCTG
3966 AACCCTG
1 AACCCTG
3973 AACCCTG
1 AACCCTG
3980 AACCCTG
1 AACCCTG
3987 AACCCTG
1 AACCCTG
3994 AACCCTG
1 AACCCTG
4001 AACCCTG
1 AACCCTG
4008 AACCCTG
1 AACCCTG
4015 AACCCTG
1 AACCCTG
4022 AACCCTG
1 AACCCTG
4029 AACCCTG
1 AACCCTG
4036 AACCCTG
1 AACCCTG
4043 AACCCTG
1 AACCCTG
4050 AACCCTG
1 AACCCTG
4057 AACCCTG
1 AACCCTG
4064 AACCCTG
1 AACCCTG
4071 AACCCTG
1 AACCCTG
4078 AACCCTG
1 AACCCTG
4085 AACCCTG
1 AACCCTG
4092 AACCCTG
1 AACCCTG
4099 AACCCTG
1 AACCCTG
4106 AACCCTG
1 AACCCTG
4113 AACCCTG
1 AACCCTG
4120 AACCCTG
1 AACCCTG
4127 AACCCTG
1 AACCCTG
4134 AACCCTG
1 AACCCTG
4141 AACCCTG
1 AACCCTG
4148 AACCCTG
1 AACCCTG
4155 AACCCTG
1 AACCCTG
4162 AACCCTG
1 AACCCTG
4169 AACCCTG
1 AACCCTG
4176 AACCCTG
1 AACCCTG
4183 AACCCTG
1 AACCCTG
4190 AACCCTG
1 AACCCTG
4197 AACCCTG
1 AACCCTG
4204 AACCCTG
1 AACCCTG
4211 AACCCTG
1 AACCCTG
4218 AACCCTG
1 AACCCTG
4225 AACCCTG
1 AACCCTG
4232 AACCCTG
1 AACCCTG
4239 AACCCTG
1 AACCCTG
4246 AACCCTG
1 AACCCTG
4253 AACCCTG
1 AACCCTG
4260 AACCCTG
1 AACCCTG
4267 AACCCTG
1 AACCCTG
4274 AACCCTG
1 AACCCTG
4281 AACCCTG
1 AACCCTG
4288 AACCCTG
1 AACCCTG
4295 AACCCTG
1 AACCCTG
4302 AACCCTG
1 AACCCTG
4309 AACCCTG
1 AACCCTG
4316 AACCCTG
1 AACCCTG
4323 AACCCTG
1 AACCCTG
4330 AACCCTG
1 AACCCTG
4337 AACCCTG
1 AACCCTG
4344 AACCCTG
1 AACCCTG
4351 AACCCTG
1 AACCCTG
4358 AACCCTG
1 AACCCTG
4365 AACCCTG
1 AACCCTG
4372 AACCCTG
1 AACCCTG
4379 AACCCTG
1 AACCCTG
4386 AACCCTG
1 AACCCTG
4393 AACCCTG
1 AACCCTG
4400 AACCCTG
1 AACCCTG
4407 AACCCTG
1 AACCCTG
4414 -ACCC-G
1 AACCCTG
4419 AACCCTG
1 AACCCTG
4426 AACCCTG
1 AACCCTG
4433 AA-CCTG
1 AACCCTG
4439 AACCCTG
1 AACCCTG
4446 AACCCTG
1 AACCCTG
4453 AACCCTG
1 AACCCTG
4460 AACCCTG
1 AACCCTG
4467 AACCCTG
1 AACCCTG
4474 AACCCTG
1 AACCCTG
4481 AACCCTG
1 AACCCTG
4488 AACCCTG
1 AACCCTG
4495 AACCCTG
1 AACCCTG
4502 AACCCTG
1 AACCCTG
4509 AACCCTG
1 AACCCTG
4516 AACCCTG
1 AACCCTG
4523 AACCCTG
1 AACCCTG
4530 AACCCTG
1 AACCCTG
4537 AACCCTG
1 AACCCTG
4544 AACCCTG
1 AACCCTG
4551 AACCCTG
1 AACCCTG
4558 AACCCTG
1 AACCCTG
4565 AACCCTG
1 AACCCTG
4572 AACCCTG
1 AACCCTG
4579 -ACCCTG
1 AACCCTG
4585 AACCCTG
1 AACCCTG
4592 AA-CCTG
1 AACCCTG
4598 AACCCTG
1 AACCCTG
4605 AACCCTG
1 AACCCTG
4612 AACCCTG
1 AACCCTG
4619 AA-CCTG
1 AACCCTG
4625 AACCCTG
1 AACCCTG
4632 AACCCTG
1 AACCCTG
4639 AACCCTG
1 AACCCTG
4646 AACCCTG
1 AACCCTG
4653 AACCCTG
1 AACCCTG
4660 AACCCTG
1 AACCCTG
4667 AACCCTG
1 AACCCTG
4674 AACCCTG
1 AACCCTG
4681 AAACCCTG
1 -AACCCTG
4689 AACCCTG
1 AACCCTG
4696 AACCCTG
1 AACCCTG
4703 AACCCTG
1 AACCCTG
4710 AACCCTG
1 AACCCTG
4717 AACCCTG
1 AACCCTG
4724 AACCCTG
1 AACCCTG
4731 AACCCTG
1 AACCCTG
4738 AACCCTG
1 AACCCTG
4745 AACCCTG
1 AACCCTG
4752 AACCCTG
1 AACCCTG
4759 AACCCTG
1 AACCCTG
4766 AACCCTG
1 AACCCTG
4773 AACCCTG
1 AACCCTG
4780 AACCCTG
1 AACCCTG
4787 AACCCTG
1 AACCCTG
4794 AACCCTG
1 AACCCTG
4801 AACCCTG
1 AACCCTG
4808 AACCCTG
1 AACCCTG
4815 AACCCTG
1 AACCCTG
4822 AACCCTG
1 AACCCTG
4829 AACCCTG
1 AACCCTG
4836 AACCCTG
1 AACCCTG
4843 AACCCTG
1 AACCCTG
4850 AACCCTG
1 AACCCTG
4857 AACCCTG
1 AACCCTG
4864 AACCCTG
1 AACCCTG
4871 AACCCTG
1 AACCCTG
4878 AACCCTG
1 AACCCTG
4885 AACCCTG
1 AACCCTG
4892 AACCCTG
1 AACCCTG
4899 AACCCTG
1 AACCCTG
4906 AACCCTG
1 AACCCTG
4913 AACCCTG
1 AACCCTG
4920 AACCCTG
1 AACCCTG
4927 AACCCTG
1 AACCCTG
4934 AACCCTG
1 AACCCTG
4941 AACCCTG
1 AACCCTG
4948 -ACCCTG
1 AACCCTG
4954 AACCCTG
1 AACCCTG
4961 -ACCCTG
1 AACCCTG
4967 AACCCTG
1 AACCCTG
4974 AACCCTG
1 AACCCTG
4981 AACCCTG
1 AACCCTG
4988 AACCCTG
1 AACCCTG
4995 AACCCTG
1 AACCCTG
5002 AACCCTG
1 AACCCTG
5009 AACCCTG
1 AACCCTG
5016 AACCCTG
1 AACCCTG
5023 AACCCTG
1 AACCCTG
5030 AACCCTG
1 AACCCTG
5037 AACCCTG
1 AACCCTG
5044 AACCCTG
1 AACCCTG
5051 AACCCTG
1 AACCCTG
5058 AACCCTG
1 AACCCTG
5065 AACCCTG
1 AACCCTG
5072 AACCCTG
1 AACCCTG
5079 AACCCTG
1 AACCCTG
5086 AACCCTG
1 AACCCTG
5093 AACCCTG
1 AACCCTG
5100 AACCCTG
1 AACCCTG
5107 AACCCTG
1 AACCCTG
5114 AACCCTG
1 AACCCTG
5121 AACCCTG
1 AACCCTG
5128 AACCCTG
1 AACCCTG
5135 AACCCTG
1 AACCCTG
5142 AACCCTG
1 AACCCTG
5149 AACCCTG
1 AACCCTG
5156 AACCCTG
1 AACCCTG
5163 AACCCTG
1 AACCCTG
5170 AACCCTG
1 AACCCTG
5177 AACCCTG
1 AACCCTG
5184 AACCCTG
1 AACCCTG
5191 AACCCTG
1 AACCCTG
5198 AACCCTG
1 AACCCTG
5205 AA-CC-G
1 AACCCTG
5210 AACCCTG
1 AACCCTG
5217 AACCCTG
1 AACCCTG
5224 AACCCTG
1 AACCCTG
5231 AACCCTG
1 AACCCTG
5238 AACCCTG
1 AACCCTG
5245 AACCCTG
1 AACCCTG
5252 AACCCTG
1 AACCCTG
5259 AACCCTG
1 AACCCTG
5266 AACCCTG
1 AACCCTG
5273 AACCCTG
1 AACCCTG
5280 AACCCTG
1 AACCCTG
5287 -ACCCTG
1 AACCCTG
5293 AACCCTG
1 AACCCTG
5300 AACCCTG
1 AACCCTG
5307 AACCCTG
1 AACCCTG
5314 AACCCTG
1 AACCCTG
5321 AACCCTG
1 AACCCTG
5328 AACCCTG
1 AACCCTG
5335 -ACCCTG
1 AACCCTG
5341 AACCCTG
1 AACCCTG
5348 AACCCTG
1 AACCCTG
5355 AACCCTG
1 AACCCTG
5362 AACCCTG
1 AACCCTG
5369 AACCCTG
1 AACCCTG
5376 AACCCTG
1 AACCCTG
5383 AACCCTG
1 AACCCTG
5390 AACCCTG
1 AACCCTG
5397 AACCCTG
1 AACCCTG
5404 AACCCTG
1 AACCCTG
5411 AACCCTG
1 AACCCTG
5418 AACCCTG
1 AACCCTG
5425 AACCCTG
1 AACCCTG
5432 AACCCTG
1 AACCCTG
5439 AACCCTG
1 AACCCTG
5446 AACCCTG
1 AACCCTG
5453 AACCCTG
1 AACCCTG
5460 AACCCTG
1 AACCCTG
5467 AACCCTG
1 AACCCTG
5474 AACCCTG
1 AACCCTG
5481 AACCCTG
1 AACCCTG
5488 AACCCTG
1 AACCCTG
5495 AACCCTG
1 AACCCTG
5502 AACCCTG
1 AACCCTG
5509 AACCCTG
1 AACCCTG
5516 AACCCTG
1 AACCCTG
5523 AACCCTG
1 AACCCTG
5530 AACCCTG
1 AACCCTG
5537 AACCCTG
1 AACCCTG
5544 AACCCTG
1 AACCCTG
5551 AACCCTG
1 AACCCTG
5558 AACCCTG
1 AACCCTG
5565 AACCCTG
1 AACCCTG
5572 AACCCTG
1 AACCCTG
5579 AACCCTG
1 AACCCTG
5586 AACCCTG
1 AACCCTG
5593 AACCCTG
1 AACCCTG
5600 AACCCTG
1 AACCCTG
5607 AACCCTG
1 AACCCTG
5614 AACCCTG
1 AACCCTG
5621 AACCCTG
1 AACCCTG
5628 AACCCTG
1 AACCCTG
5635 AACCCTG
1 AACCCTG
5642 AACCCTG
1 AACCCTG
5649 AACCCTG
1 AACCCTG
5656 AACCCTG
1 AACCCTG
5663 AACCCTG
1 AACCCTG
5670 AACCCTG
1 AACCCTG
5677 AACCCTG
1 AACCCTG
5684 AACCCTG
1 AACCCTG
5691 AACCCTG
1 AACCCTG
5698 AACCCTG
1 AACCCTG
5705 AACCCTG
1 AACCCTG
5712 AACCCTG
1 AACCCTG
5719 AACCCTG
1 AACCCTG
5726 AACCCTG
1 AACCCTG
5733 AACCCTG
1 AACCCTG
5740 AACCCTG
1 AACCCTG
5747 AACCCTG
1 AACCCTG
5754 AACCCTG
1 AACCCTG
5761 AACCCTG
1 AACCCTG
5768 AACCCTG
1 AACCCTG
5775 AACCCTG
1 AACCCTG
5782 AACCCTG
1 AACCCTG
5789 AACCCTG
1 AACCCTG
5796 AACCCTG
1 AACCCTG
5803 AACCCTG
1 AACCCTG
5810 AACCCTG
1 AACCCTG
5817 AACCCTG
1 AACCCTG
5824 AACCCTG
1 AACCCTG
5831 AACCCTG
1 AACCCTG
5838 AACCCTG
1 AACCCTG
5845 AACCCTG
1 AACCCTG
5852 AACCCTG
1 AACCCTG
5859 AACCCTG
1 AACCCTG
5866 AACCCTG
1 AACCCTG
5873 AACCCTG
1 AACCCTG
5880 AACCCTG
1 AACCCTG
5887 AACCCTG
1 AACCCTG
5894 AACCCTG
1 AACCCTG
5901 AACCCTG
1 AACCCTG
5908 AACCCTG
1 AACCCTG
5915 AACCCTG
1 AACCCTG
5922 AACCCTG
1 AACCCTG
5929 AACCCTG
1 AACCCTG
5936 AACCCTG
1 AACCCTG
5943 AACCCTG
1 AACCCTG
5950 AACCCTG
1 AACCCTG
5957 AACCCTG
1 AACCCTG
5964 AACCCTG
1 AACCCTG
5971 AACCCTG
1 AACCCTG
5978 AACCCTG
1 AACCCTG
5985 AACCCTG
1 AACCCTG
5992 AACCCTG
1 AACCCTG
5999 AACCCTG
1 AACCCTG
6006 AACCCTG
1 AACCCTG
6013 AACCCTG
1 AACCCTG
6020 AACCCTG
1 AACCCTG
6027 AACCCTG
1 AACCCTG
6034 AACCCTG
1 AACCCTG
6041 AACCCTG
1 AACCCTG
6048 AACCCTG
1 AACCCTG
6055 AACCCTG
1 AACCCTG
6062 AACCCTG
1 AACCCTG
6069 AACCCTG
1 AACCCTG
6076 AACCCTG
1 AACCCTG
6083 AACCCTG
1 AACCCTG
6090 AACCCTG
1 AACCCTG
6097 AACCCTG
1 AACCCTG
6104 AACCCTG
1 AACCCTG
6111 AACCCTG
1 AACCCTG
6118 AACCCTG
1 AACCCTG
6125 AACCCTG
1 AACCCTG
6132 AACCCTG
1 AACCCTG
6139 AACCCTG
1 AACCCTG
6146 AACCCTG
1 AACCCTG
6153 AACCCTG
1 AACCCTG
6160 AACCCTG
1 AACCCTG
6167 AACCCTG
1 AACCCTG
6174 AACCCTG
1 AACCCTG
6181 AACCCTG
1 AACCCTG
6188 AACCCTG
1 AACCCTG
6195 AACCCTG
1 AACCCTG
6202 AACCCTG
1 AACCCTG
6209 AACCCTG
1 AACCCTG
6216 AACCCTG
1 AACCCTG
6223 AACCCTG
1 AACCCTG
6230 AACCCTG
1 AACCCTG
6237 AACCCTG
1 AACCCTG
6244 AACCCTG
1 AACCCTG
6251 AACCCTG
1 AACCCTG
6258 AACCCTG
1 AACCCTG
6265 AACCCTG
1 AACCCTG
6272 AACCCTG
1 AACCCTG
6279 AACCCTG
1 AACCCTG
6286 AACCCTG
1 AACCCTG
6293 AACCCTG
1 AACCCTG
6300 AACCCTG
1 AACCCTG
6307 AACCCTG
1 AACCCTG
6314 AACCCTG
1 AACCCTG
6321 AACCCTG
1 AACCCTG
6328 AACCCTG
1 AACCCTG
6335 AACCCTG
1 AACCCTG
6342 AACCCTG
1 AACCCTG
6349 AACCCTG
1 AACCCTG
6356 AACCCTG
1 AACCCTG
6363 AACCCTG
1 AACCCTG
6370 AACCCTG
1 AACCCTG
6377 AACCCTG
1 AACCCTG
6384 AACCCTG
1 AACCCTG
6391 AACCCTG
1 AACCCTG
6398 AACCCTG
1 AACCCTG
6405 AACCCTG
1 AACCCTG
6412 AACCCTG
1 AACCCTG
6419 AACCCTG
1 AACCCTG
6426 AACCCTG
1 AACCCTG
6433 AACCCTG
1 AACCCTG
6440 AACCCTG
1 AACCCTG
6447 AACCCTG
1 AACCCTG
6454 AACCCTG
1 AACCCTG
6461 AACCCTG
1 AACCCTG
6468 AACCCTG
1 AACCCTG
6475 AACCCTG
1 AACCCTG
6482 AACCCTG
1 AACCCTG
6489 AACCCTG
1 AACCCTG
6496 AACCCTG
1 AACCCTG
6503 AACCCTG
1 AACCCTG
6510 AACCCTG
1 AACCCTG
6517 AACCCTG
1 AACCCTG
6524 AACCCTG
1 AACCCTG
6531 AACCCTG
1 AACCCTG
6538 AACCCTG
1 AACCCTG
6545 AACCCTG
1 AACCCTG
6552 AACCCTG
1 AACCCTG
6559 AACCCTG
1 AACCCTG
6566 AACCCTG
1 AACCCTG
6573 AACCCTG
1 AACCCTG
6580 AACCCTG
1 AACCCTG
6587 AACCCTG
1 AACCCTG
6594 AACCCTG
1 AACCCTG
6601 AACCCTG
1 AACCCTG
6608 AACCCTG
1 AACCCTG
6615 AACCCTG
1 AACCCTG
6622 AACCCTG
1 AACCCTG
6629 AACCCTG
1 AACCCTG
6636 AACCCTG
1 AACCCTG
6643 AACCCTG
1 AACCCTG
6650 AACCCTG
1 AACCCTG
6657 A
1 A
6658 GCCCCGAGCC
Statistics
Matches: 4202, Mismatches: 71, Indels: 245
0.93 0.02 0.05
Matches are distributed among these distances:
5 16 0.00
6 310 0.07
7 3823 0.91
8 39 0.01
10 14 0.00
ACGTcount: A:0.32, C:0.43, G:0.12, T:0.13
Consensus pattern (7 bp):
AACCCTG
Found at i:6666 original size:7 final size:7
Alignment explanation
Indices: 6656--6704 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
6646 CCTGAACCCT
6656 GAGCCCC
1 GAGCCCC
6663 GAGCCCC
1 GAGCCCC
*
6670 GAACCCC
1 GAGCCCC
6677 GAGCCCC
1 GAGCCCC
6684 GAGCCCC
1 GAGCCCC
6691 GAGCCCC
1 GAGCCCC
6698 GAGCCCC
1 GAGCCCC
6705 TCAGTCACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.16, C:0.57, G:0.27, T:0.00
Consensus pattern (7 bp):
GAGCCCC
Found at i:6680 original size:21 final size:21
Alignment explanation
Indices: 6649--6704 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
6639 CCTGAACCCT
*
6649 GAACCCTGAGCCCCGAGCCCC
1 GAACCCCGAGCCCCGAGCCCC
6670 GAACCCCGAGCCCCGAGCCCC
1 GAACCCCGAGCCCCGAGCCCC
*
6691 GAGCCCCGAGCCCC
1 GAACCCCGAGCCCC
6705 TCAGTCACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.55, G:0.25, T:0.02
Consensus pattern (21 bp):
GAACCCCGAGCCCCGAGCCCC
Found at i:7958 original size:29 final size:29
Alignment explanation
Indices: 7916--7974 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7906 ATTGTCTATC
7916 GTTGGCCTCTATGGTGTTTGATGAAAATT
1 GTTGGCCTCTATGGTGTTTGATGAAAATT
7945 GTTGGCCTCTATGGTGTTTGATGAAAATT
1 GTTGGCCTCTATGGTGTTTGATGAAAATT
7974 G
1 G
7975 GCTTGGTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (29 bp):
GTTGGCCTCTATGGTGTTTGATGAAAATT
Found at i:9308 original size:527 final size:527
Alignment explanation
Indices: 8315--9372 Score: 2089
Period size: 527 Copynumber: 2.0 Consensus size: 527
8305 CTTGGGGGGG
*
8315 AATTGGTTCTCTCTGAGCAACCTGTAATTTTTGGCTTTGAAATGGTTCGAAATATTTTGTAAAAT
1 AATTGGTTCTCTCTGAGCAACCTGTAATTTTTGGCTTTAAAATGGTTCGAAATATTTTGTAAAAT
8380 TGTTTTGAAATTATTTTAAGACTAAAACTTAATTTTACACTTTAGTAAGGATTTAAAATAAACTT
66 TGTTTTGAAATTATTTTAAGACTAAAACTTAATTTTACACTTTAGTAAGGATTTAAAATAAACTT
8445 TGAAATACTTTGAGTAATATTTTGATATTCGATTAATATATCAAATATGCTTAGAAAAATCTTTT
131 TGAAATACTTTGAGTAATATTTTGATATTCGATTAATATATCAAATATGCTTAGAAAAATCTTTT
*
8510 TCAAAATTAAAATTCTTTTAATTTAATTTGTTATATCGAAACATCAAAATGTTTTCAACAAATCT
196 TCAAAATTAAAATACTTTTAATTTAATTTGTTATATCGAAACATCAAAATGTTTTCAACAAATCT
8575 CTAATTATGGTTTTTTTAATATTTGTTTGTGTCGCAACAATCCTTCAGCTGATCCCAAGTTTGCA
261 CTAATTATGGTTTTTTTAATATTTGTTTGTGTCGCAACAATCCTTCAGCTGATCCCAAGTTTGCA
8640 TTCCGACTTGGAATTAATGATAGAGTCGCCATTGATCGTTTTCAAATTAGGTAGATTGAAAAACT
326 TTCCGACTTGGAATTAATGATAGAGTCGCCATTGATCGTTTTCAAATTAGGTAGATTGAAAAACT
8705 AAGTTTTACCCATTTACAAAATCTGCATCTTACTATAGAATTGTCGAATTCATGAGTCGATTACA
391 AAGTTTTACCCATTTACAAAATCTGCATCTTACTATAGAATTGTCGAATTCATGAGTCGATTACA
8770 ATCGAGGAATGATGAACCCCCTTGAATCTCTCTTTCTGTACTACACGATTATCCGGTTGTCTTTA
456 ATCGAGGAATGATGAACCCCCTTGAATCTCTCTTTCTGTACTACACGATTATCCGGTTGTCTTTA
8835 TCGGGAA
521 TCGGGAA
8842 AATTGGTTCTCTCTGAGCAACCTGTAATTTTTGGCTTTAAAATGGTTCGAAATATTTTGTAAAAT
1 AATTGGTTCTCTCTGAGCAACCTGTAATTTTTGGCTTTAAAATGGTTCGAAATATTTTGTAAAAT
8907 TGTTTTGAAATTATTTTAAGACTAAAACTTAATTTTACACTTTAGTAAGGATTTAAAATAAACTT
66 TGTTTTGAAATTATTTTAAGACTAAAACTTAATTTTACACTTTAGTAAGGATTTAAAATAAACTT
*
8972 TGAAATACTTTGAGTAATATTTTGATATTCTATTAATATATCAAATATGCTTAGAAAAATCTTTT
131 TGAAATACTTTGAGTAATATTTTGATATTCGATTAATATATCAAATATGCTTAGAAAAATCTTTT
9037 TCAAAATTAAAATACTTTTAATTTAATTTGTTATATCGAAACATCAAAATGTTTTCAACAAATCT
196 TCAAAATTAAAATACTTTTAATTTAATTTGTTATATCGAAACATCAAAATGTTTTCAACAAATCT
9102 CTAATTATGGTTTTTTTAATATTTGTTTGTGTCGCAACAATCCTTCAGCTGATCCCAAGTTTGCA
261 CTAATTATGGTTTTTTTAATATTTGTTTGTGTCGCAACAATCCTTCAGCTGATCCCAAGTTTGCA
9167 TTCCGACTTGGAATTAATGATAGAGTCGCCATTGATCGTTTTCAAATTAGGTAGATTGAAAAACT
326 TTCCGACTTGGAATTAATGATAGAGTCGCCATTGATCGTTTTCAAATTAGGTAGATTGAAAAACT
9232 AAGTTTTACCCATTTACAAAATCTGCATCTTACTATAGAATTGTCGAATTCATGAGTCGATTACA
391 AAGTTTTACCCATTTACAAAATCTGCATCTTACTATAGAATTGTCGAATTCATGAGTCGATTACA
9297 ATCGAGGAATGATGAACCCCCTTGAATCTCTCTTTCTGTACTACACGATTATCCGGTTGTCTTTA
456 ATCGAGGAATGATGAACCCCCTTGAATCTCTCTTTCTGTACTACACGATTATCCGGTTGTCTTTA
9362 TCGGGAA
521 TCGGGAA
9369 AATT
1 AATT
9373 TTAATATTTA
Statistics
Matches: 528, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
527 528 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (527 bp):
AATTGGTTCTCTCTGAGCAACCTGTAATTTTTGGCTTTAAAATGGTTCGAAATATTTTGTAAAAT
TGTTTTGAAATTATTTTAAGACTAAAACTTAATTTTACACTTTAGTAAGGATTTAAAATAAACTT
TGAAATACTTTGAGTAATATTTTGATATTCGATTAATATATCAAATATGCTTAGAAAAATCTTTT
TCAAAATTAAAATACTTTTAATTTAATTTGTTATATCGAAACATCAAAATGTTTTCAACAAATCT
CTAATTATGGTTTTTTTAATATTTGTTTGTGTCGCAACAATCCTTCAGCTGATCCCAAGTTTGCA
TTCCGACTTGGAATTAATGATAGAGTCGCCATTGATCGTTTTCAAATTAGGTAGATTGAAAAACT
AAGTTTTACCCATTTACAAAATCTGCATCTTACTATAGAATTGTCGAATTCATGAGTCGATTACA
ATCGAGGAATGATGAACCCCCTTGAATCTCTCTTTCTGTACTACACGATTATCCGGTTGTCTTTA
TCGGGAA
Found at i:9691 original size:18 final size:18
Alignment explanation
Indices: 9668--9722 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
9658 CCCAATTTCC
*
9668 AAAACCTAAAATCCCTAG
1 AAAACCTAAAAACCCTAG
9686 AAAACCTAAAAACCCTA-
1 AAAACCTAAAAACCCTAG
* *
9703 CAAACACTAGAAACCCTAG
1 AAAAC-CTAAAAACCCTAG
9722 A
1 A
9723 TCTTAAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.53, C:0.29, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAACCTAAAAACCCTAG
Found at i:9702 original size:27 final size:26
Alignment explanation
Indices: 9668--9720 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
9658 CCCAATTTCC
*
9668 AAAACCTA-AAATCCCTAGAAAACCTA
1 AAAACCTACAAA-CACTAGAAAACCTA
*
9694 AAAACCCTACAAACACTAGAAACCCTA
1 AAAA-CCTACAAACACTAGAAAACCTA
9721 GATCTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 16 0.70
28 3 0.13
ACGTcount: A:0.53, C:0.30, G:0.04, T:0.13
Consensus pattern (26 bp):
AAAACCTACAAACACTAGAAAACCTA
Found at i:9721 original size:9 final size:9
Alignment explanation
Indices: 9680--9722 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
9670 AACCTAAAAT
9680 CCCTAGAAA
1 CCCTAGAAA
* *
9689 ACCTAAAAA
1 CCCTAGAAA
*
9698 CCCTACAAA
1 CCCTAGAAA
*
9707 CACTAGAAA
1 CCCTAGAAA
9716 CCCTAGA
1 CCCTAGA
9723 TCTTAAACCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.49, C:0.33, G:0.07, T:0.12
Consensus pattern (9 bp):
CCCTAGAAA
Found at i:9781 original size:25 final size:26
Alignment explanation
Indices: 9753--9824 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
9743 TAAACCTAGG
**
9753 AAATCTTAGAAACCCTAAACCCCCT-
1 AAATCTTAGAAACCCTAAAAACCCTA
* *
9778 AAATGTTAGAAACACTAAAAACCCTA
1 AAATCTTAGAAACCCTAAAAACCCTA
* *
9804 GAAATCCTAAAAACCCTAAAA
1 -AAATCTTAGAAACCCTAAAA
9825 CCTATTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 21 0.57
27 16 0.43
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.18
Consensus pattern (26 bp):
AAATCTTAGAAACCCTAAAAACCCTA
Found at i:9805 original size:18 final size:17
Alignment explanation
Indices: 9784--9828 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
9774 CCCTAAATGT
9784 TAGAAACACTAAAAACCC
1 TAGAAAC-CTAAAAACCC
9802 TAGAAATCCTAAAAACCC
1 TAGAAA-CCTAAAAACCC
9820 TA-AAACCTA
1 TAGAAACCTA
9829 TTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 18 0.69
19 1 0.04
ACGTcount: A:0.53, C:0.27, G:0.04, T:0.16
Consensus pattern (17 bp):
TAGAAACCTAAAAACCC
Found at i:9843 original size:9 final size:9
Alignment explanation
Indices: 9832--9878 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
9822 AAACCTATTA
*
9832 TTTATAAGA
1 TTTATAAGG
*
9841 TTTATAGGG
1 TTTATAAGG
*
9850 TAT-TAAGG
1 TTTATAAGG
9858 TTTATAAGG
1 TTTATAAGG
9867 TTTATAAGG
1 TTTATAAGG
9876 TTT
1 TTT
9879 TAGGGTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (9 bp):
TTTATAAGG
Found at i:9861 original size:17 final size:18
Alignment explanation
Indices: 9834--9884 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
9824 ACCTATTATT
*
9834 TATAAGATTTATAGGGTA
1 TATAAGGTTTATAGGGTA
* *
9852 T-TAAGGTTTATAAGGTT
1 TATAAGGTTTATAGGGTA
9869 TATAAGGTTT-TAGGGT
1 TATAAGGTTTATAGGGT
9885 TTGTAGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.43
Consensus pattern (18 bp):
TATAAGGTTTATAGGGTA
Found at i:9898 original size:26 final size:26
Alignment explanation
Indices: 9832--9894 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
9822 AAACCTATTA
* *
9832 TTTATAAGATTTATAGGGTATTAAGG
1 TTTATAAGGTTTATAAGGTATTAAGG
* *
9858 TTTATAAGGTTTATAAGGTTTTAGGG
1 TTTATAAGGTTTATAAGGTATTAAGG
*
9884 TTTGT-AGGTTT
1 TTTATAAGGTTT
9895 TATAGAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (26 bp):
TTTATAAGGTTTATAAGGTATTAAGG
Found at i:9978 original size:9 final size:9
Alignment explanation
Indices: 9966--10324 Score: 120
Period size: 9 Copynumber: 40.9 Consensus size: 9
9956 AGGATTATAA
9966 GGTTTCTAG
1 GGTTTCTAG
9975 GGTTT-TAAAG
1 GGTTTCT--AG
*
9985 GATTT-TAGG
1 GGTTTCTA-G
9994 GGTTT-TAG
1 GGTTTCTAG
* *
10002 GGCTTGTAG
1 GGTTTCTAG
* *
10011 GGTTTATAA
1 GGTTTCTAG
*
10020 GGTTTCTAT
1 GGTTTCTAG
10029 GGTTTCTAAG
1 GGTTTCT-AG
10039 GGTTT-TAG
1 GGTTTCTAG
*
10047 GGTTGT-AAG
1 GGTT-TCTAG
10056 GGTTT-TAAG
1 GGTTTCT-AG
* *
10065 TGTTTCTAA
1 GGTTTCTAG
*
10074 GGTTTTTAG
1 GGTTTCTAG
10083 GGTTTCTAG
1 GGTTTCTAG
** *
10092 TATTT-TAA
1 GGTTTCTAG
10100 GGTTT-TAAG
1 GGTTTCT-AG
10109 GGTTTC-A-
1 GGTTTCTAG
**
10116 ATTTTCTAG
1 GGTTTCTAG
10125 GG-TT-TAG
1 GGTTTCTAG
10132 GGTTTCTAG
1 GGTTTCTAG
* *
10141 GATTTATAG
1 GGTTTCTAG
* * *
10150 GATTTGTAA
1 GGTTTCTAG
* *
10159 GGTTTGTAT
1 GGTTTCTAG
*
10168 GGTTTATAG
1 GGTTTCTAG
*
10177 GGTTTGTAG
1 GGTTTCTAG
* *
10186 GGTTTTTAA
1 GGTTTCTAG
* * *
10195 AGTTTTTAA
1 GGTTTCTAG
* *
10204 GGTTTGTAT
1 GGTTTCTAG
* *
10213 GATTTGTAG
1 GGTTTCTAG
*
10222 GGTTT-TTG
1 GGTTTCTAG
* *
10230 GGTTTTTTG
1 GGTTTCTAG
10239 GGTTTCTAG
1 GGTTTCTAG
*
10248 GG--TGTAG
1 GGTTTCTAG
* *
10255 GTTTTCTAT
1 GGTTTCTAG
* *
10264 GGTTTATAA
1 GGTTTCTAG
* *
10273 GGTTTATAA
1 GGTTTCTAG
10282 GGTTT-TAG
1 GGTTTCTAG
*
10290 GGTTTGTAG
1 GGTTTCTAG
*
10299 TGTTTCTAG
1 GGTTTCTAG
* *
10308 GATTTGTAG
1 GGTTTCTAG
10317 GGTTTCTA
1 GGTTTCTA
10325 AGATTTAGGA
Statistics
Matches: 269, Mismatches: 63, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
7 14 0.05
8 40 0.15
9 201 0.75
10 14 0.05
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (9 bp):
GGTTTCTAG
Found at i:9993 original size:18 final size:17
Alignment explanation
Indices: 9966--10113 Score: 104
Period size: 17 Copynumber: 8.3 Consensus size: 17
9956 AGGATTATAA
9966 GGTTTCTAGGGTTTTAAAG
1 GGTTT-TAGGGTTTT-AAG
*
9985 GATTTTAGGGGTTTT-AG
1 GGTTTTA-GGGTTTTAAG
*
10002 GGCTTGTAGGGTTTATAA-
1 GG-TTTTAGGGTTT-TAAG
*
10020 GGTTTCTATGGTTTCTAAG
1 GGTTT-TAGGGTTT-TAAG
*
10039 GGTTTTAGGGTTGTAAG
1 GGTTTTAGGGTTTTAAG
*
10056 GGTTTTAAGTGTTTCTAAG
1 GGTTTT-AGGGTTT-TAAG
*
10075 GTTTTTAGGGTTTCT-AG
1 GGTTTTAGGGTTT-TAAG
** *
10092 TATTTTAAGGTTTTAAG
1 GGTTTTAGGGTTTTAAG
10109 GGTTT
1 GGTTT
10114 CAATTTTCTA
Statistics
Matches: 103, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.01
17 38 0.37
18 38 0.37
19 26 0.25
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (17 bp):
GGTTTTAGGGTTTTAAG
Found at i:10015 original size:45 final size:45
Alignment explanation
Indices: 9993--10208 Score: 143
Period size: 45 Copynumber: 4.9 Consensus size: 45
9983 AGGATTTTAG
*
9993 GGGTTTTAGGGCTTGT-AGGGTTTATAAGGTTTCTATGGTTTCTAA
1 GGGTTTTAGGG-TTGTAAGGGTTTATAAGGTTTCTAAGGTTTCTAA
*
10038 GGGTTTTAGGGTTGTAAGGGTTT-TAAGTGTTTCTAAGGTTT-TTA
1 GGGTTTTAGGGTTGTAAGGGTTTATAAG-GTTTCTAAGGTTTCTAA
** * *
10082 GGGTTTCTAGTATTTTAA-GGTTT-TAAGGGTTTC-AA-TTTTCT-A
1 GGGTTT-TAGGGTTGTAAGGGTTTATAA-GGTTTCTAAGGTTTCTAA
* * * *
10124 GGG-TTTAGGGTT-TCTAGGATTTAT-AGGATTTGTAAGGTTTGT-A
1 GGGTTTTAGGGTTGT-AAGGGTTTATAAGG-TTTCTAAGGTTTCTAA
* * * *
10167 TGGTTTATAGGGTTTGT-AGGGTTTTTAAAGTTTTTAAGGTTT
1 GGGTTT-TAGGG-TTGTAAGGGTTTATAAGGTTTCTAAGGTTT
10209 GTATGATTTG
Statistics
Matches: 137, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
39 1 0.01
40 8 0.06
41 10 0.07
42 10 0.07
43 10 0.07
44 31 0.23
45 62 0.45
46 4 0.03
47 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.29, T:0.48
Consensus pattern (45 bp):
GGGTTTTAGGGTTGTAAGGGTTTATAAGGTTTCTAAGGTTTCTAA
Found at i:10027 original size:54 final size:54
Alignment explanation
Indices: 9960--10190 Score: 169
Period size: 54 Copynumber: 4.4 Consensus size: 54
9950 AGTTTAAGGA
*
9960 TTATAAGGTTTCTAGGGTTT-TAAAGGATTTTAGGGGTT-TTAGGGCTTGT-AGGGT
1 TTATAAGGTTTCTAGGGTTTCT-AAGGATTTTA-GGGTTGTAAGGG-TTGTAAGGGT
* * * *
10014 TTATAAGGTTTCTATGGTTTCTAAGGGTTTTAGGGTTGTAAGGGTTTTAAGTGT
1 TTATAAGGTTTCTAGGGTTTCTAAGGATTTTAGGGTTGTAAGGGTTGTAAGGGT
* * * * * *
10068 TTCTAAGGTTTTTAGGGTTTCT-AGTATTTTAAGGTTTTAAGGGTT-TCAA--TT
1 TTATAAGGTTTCTAGGGTTTCTAAGGATTTTAGGGTTGTAAGGGTTGT-AAGGGT
* * * * *
10119 TTCT-AGGGTT-TAGGGTTTCT-AGGATTTATAGGATTTGTAAGGTTTGT-ATGGT
1 TTATAAGGTTTCTAGGGTTTCTAAGGATTT-TAGG-GTTGTAAGGGTTGTAAGGGT
* *
10171 TTATAGGGTTTGTAGGGTTT
1 TTATAAGGTTTCTAGGGTTT
10191 TTAAAGTTTT
Statistics
Matches: 143, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
49 16 0.11
50 9 0.06
51 14 0.10
52 6 0.04
53 33 0.23
54 64 0.45
55 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (54 bp):
TTATAAGGTTTCTAGGGTTTCTAAGGATTTTAGGGTTGTAAGGGTTGTAAGGGT
Found at i:10114 original size:26 final size:27
Alignment explanation
Indices: 10029--10114 Score: 95
Period size: 26 Copynumber: 3.2 Consensus size: 27
10019 AGGTTTCTAT
** * *
10029 GGTTTCTAAGGGTTTTAGGGTTGTAAG
1 GGTTTCTAAGTATTTTAAGGTTTTAAG
* *
10056 GGTTT-TAAGTGTTTCTAAGGTTTTTAG
1 GGTTTCTAAGTATTT-TAAGGTTTTAAG
10083 GGTTTCT-AGTATTTTAAGGTTTTAAG
1 GGTTTCTAAGTATTTTAAGGTTTTAAG
10109 GGTTTC
1 GGTTTC
10115 AATTTTCTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 25 0.49
27 25 0.49
28 1 0.02
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (27 bp):
GGTTTCTAAGTATTTTAAGGTTTTAAG
Found at i:10313 original size:18 final size:18
Alignment explanation
Indices: 10282--10330 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
10272 AGGTTTATAA
*
10282 GGTTT-TAGGGTTTGTAG
1 GGTTTCTAGGATTTGTAG
*
10299 TGTTTCTAGGATTTGTAG
1 GGTTTCTAGGATTTGTAG
*
10317 GGTTTCTAAGATTT
1 GGTTTCTAGGATTT
10331 AGGATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (18 bp):
GGTTTCTAGGATTTGTAG
Found at i:17183 original size:18 final size:18
Alignment explanation
Indices: 17162--17282 Score: 61
Period size: 18 Copynumber: 6.8 Consensus size: 18
17152 TAAACTCTAA
17162 AAACTCTAAAAACCTTAC
1 AAACTCTAAAAACCTTAC
* * *
17180 AAACTATAGAAACCTTAA
1 AAACTCTAAAAACCTTAC
* *
17198 AAATTC-AATAAATCTTAC
1 AAACTCTAA-AAACCTTAC
* * *
17216 AAAC-CTTACAAATCTGAC
1 AAACTC-TAAAAACCTTAC
* *
17234 AAACTCTACAAACCCTA-
1 AAACTCTAAAAACCTTAC
* * *
17251 AAAATCTTACAAACCCTAC
1 AAACTC-TAAAAACCTTAC
*
17270 AAAC-CTTAAAACC
1 AAACTCTAAAAACC
17283 CCAACAAACA
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
17 13 0.16
18 61 0.77
19 5 0.06
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (18 bp):
AAACTCTAAAAACCTTAC
Found at i:17183 original size:27 final size:27
Alignment explanation
Indices: 17126--17282 Score: 85
Period size: 27 Copynumber: 5.9 Consensus size: 27
17116 TTATAACCCT
* * **
17126 AAACCCTACAAAACCTAAAAATCTTGT
1 AAACTCTACAAAACCTAAAAACCTTAC
17153 AAACTCTA-AAAACTCTAAAAACCTTAC
1 AAACTCTACAAAAC-CTAAAAACCTTAC
* *
17180 AAACTATA-GAAACCTTAAAAA--TT-C
1 AAACTCTACAAAACC-TAAAAACCTTAC
* * * *
17204 AATAAATCTTAC-AAACCTTACAAATCTGAC
1 -A-AACTC-TACAAAACC-TAAAAACCTTAC
* *
17234 AAACTCTACAAACCCTAAAAATCTTAC
1 AAACTCTACAAAACCTAAAAACCTTAC
* *
17261 AAACCCTAC-AAACCTTAAAACC
1 AAACTCTACAAAACCTAAAAACC
17283 CCAACAAACA
Statistics
Matches: 102, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 19 0.19
27 68 0.67
28 8 0.08
29 2 0.02
30 1 0.01
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (27 bp):
AAACTCTACAAAACCTAAAAACCTTAC
Found at i:17223 original size:9 final size:9
Alignment explanation
Indices: 17211--17347 Score: 77
Period size: 9 Copynumber: 15.4 Consensus size: 9
17201 TTCAATAAAT
17211 CTTACAAAC
1 CTTACAAAC
*
17220 CTTACAAAT
1 CTTACAAAC
*
17229 CTGACAAA-
1 CTTACAAAC
17237 CTCTACAAAC
1 CT-TACAAAC
* * *
17247 CCTAAAAAT
1 CTTACAAAC
17256 CTTACAAAC
1 CTTACAAAC
*
17265 CCTACAAAC
1 CTTACAAAC
17274 CTTA-AAACC
1 CTTACAAA-C
**
17283 CCAACAAAC
1 CTTACAAAC
* *
17292 ATTAGAAATC
1 CTTACAAA-C
*
17302 C-TA-AAAA
1 CTTACAAAC
* *
17309 CTTAAAAAT
1 CTTACAAAC
17318 CTTACAAAC
1 CTTACAAAC
* *
17327 CATAGAAAC
1 CTTACAAAC
17336 CTTA-AAAC
1 CTTACAAAC
17344 CTTA
1 CTTA
17348 TAACCATATA
Statistics
Matches: 96, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
7 1 0.01
8 18 0.19
9 72 0.75
10 5 0.05
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (9 bp):
CTTACAAAC
Found at i:21877 original size:2 final size:2
Alignment explanation
Indices: 21870--21898 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21860 ACCCTTCTGT
21870 TA 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 TA T
21899 TGTTAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23383 original size:12 final size:12
Alignment explanation
Indices: 23368--23401 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23358 TTTAAACAGA
23368 TATTGGGCCGGG
1 TATTGGGCCGGG
* *
23380 TATTGGGTCGGT
1 TATTGGGCCGGG
23392 TATTGGGCCG
1 TATTGGGCCG
23402 AGAATCGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.44, T:0.32
Consensus pattern (12 bp):
TATTGGGCCGGG
Found at i:23423 original size:2 final size:2
Alignment explanation
Indices: 23416--23509 Score: 56
Period size: 2 Copynumber: 50.0 Consensus size: 2
23406 TCGGGCCAGG
* * * *
23416 TA TA TA TA TA TA TA TA TA TA TA TT TA AA T- TA AA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
23457 TA TA TA T- TT TT TA TT TA AA T- TA AA TT TA T- TA -A TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23494 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
23510 ATTATTTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
1 6 0.09
2 63 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23556 original size:13 final size:12
Alignment explanation
Indices: 23525--23561 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
23515 TTTTAATATT
23525 TATCGGGGCGGG
1 TATCGGGGCGGG
23537 TATCGGGGCGGG
1 TATCGGGGCGGG
23549 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
23562 GATTACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.11, C:0.16, G:0.57, T:0.16
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:24778 original size:25 final size:25
Alignment explanation
Indices: 24732--24779 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24722 TTAATATTTA
* *
24732 ATTATTATTTTTAATTTATTAAAGT
1 ATTATGATTTTTAATATATTAAAGT
24757 ATTATGATTTATTAATAT-TTAAA
1 ATTATGATTT-TTAATATATTAAA
24780 AATTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTATGATTTTTAATATATTAAAGT
Found at i:27671 original size:19 final size:19
Alignment explanation
Indices: 27647--27685 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27637 CCCCTTTCCC
27647 CCTTCATTCCCCATCCCCT
1 CCTTCATTCCCCATCCCCT
27666 CCTTCATTCCCCATCCCCT
1 CCTTCATTCCCCATCCCCT
27685 C
1 C
27686 TTCCCCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.59, G:0.00, T:0.31
Consensus pattern (19 bp):
CCTTCATTCCCCATCCCCT
Found at i:29460 original size:27 final size:27
Alignment explanation
Indices: 29422--29480 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
29412 TTAATGATTT
29422 CCTTCTGTGATACAGCAAAACTT-ACAC
1 CCTTCTGTGATACAGCAAAA-TTAACAC
* * *
29449 CCTTTTGTGATACTGCAGAATTAACAC
1 CCTTCTGTGATACAGCAAAATTAACAC
29476 CCTTC
1 CCTTC
29481 ATATAAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (27 bp):
CCTTCTGTGATACAGCAAAATTAACAC
Found at i:30082 original size:188 final size:188
Alignment explanation
Indices: 29765--30137 Score: 683
Period size: 188 Copynumber: 2.0 Consensus size: 188
29755 GCTGGTTTGT
*
29765 TAACTTTCAACTTAGCAAGTTATTTCCTGGTGTGTGTATGGAGTTTAATATTGCATATGTGGAGA
1 TAACTTTCAACTTAGCAAGTTATTTCCTGGTGTGTGTATGGAGTTTAATATTGCATACGTGGAGA
*
29830 CTTGAAAATAAATGAAGTTCAAGTAAACTAGTTATGGTTGTTATCCTGAAGAGTGTCAACCTTGT
66 CTTGAAAACAAATGAAGTTCAAGTAAACTAGTTATGGTTGTTATCCTGAAGAGTGTCAACCTTGT
* *
29895 ACATCTTGTTGTTTGCTTTTAATCTTGTGCATTGTTTTCCATTCTTTAGTTTGTATGC
131 ACATCTTGTTGTTTGCTTTTAATCATGTGCATTGTTCTCCATTCTTTAGTTTGTATGC
* *
29953 TAACTTTCAACTTAGCAAGTTATTTCCTGTTGTGTGTATGGGGTTTAATATTGCATACGTGGAGA
1 TAACTTTCAACTTAGCAAGTTATTTCCTGGTGTGTGTATGGAGTTTAATATTGCATACGTGGAGA
30018 CTTGAAAACAAATGAAGTTCAAGTAAACTAGTTATGGTTGTTATCCTGAAGAGTGTCAACCTTGT
66 CTTGAAAACAAATGAAGTTCAAGTAAACTAGTTATGGTTGTTATCCTGAAGAGTGTCAACCTTGT
*
30083 ACATTTTGTTGTTTGCTTTTAATCATGTGCATTGTTCTCCATTCTTTAGTTTGTA
131 ACATCTTGTTGTTTGCTTTTAATCATGTGCATTGTTCTCCATTCTTTAGTTTGTA
30138 AGTAGCATTT
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
188 178 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (188 bp):
TAACTTTCAACTTAGCAAGTTATTTCCTGGTGTGTGTATGGAGTTTAATATTGCATACGTGGAGA
CTTGAAAACAAATGAAGTTCAAGTAAACTAGTTATGGTTGTTATCCTGAAGAGTGTCAACCTTGT
ACATCTTGTTGTTTGCTTTTAATCATGTGCATTGTTCTCCATTCTTTAGTTTGTATGC
Found at i:31859 original size:10 final size:10
Alignment explanation
Indices: 31834--31892 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
31824 TAGAAATAAT
*
31834 ATTTTTATTG
1 ATTTTTATTC
*
31844 AATTTTATTC
1 ATTTTTATTC
*
31854 ACTTTTAATTC
1 A-TTTTTATTC
*
31865 TTTTTTATTAC
1 ATTTTTATT-C
*
31876 ATTTTTATTG
1 ATTTTTATTC
31886 ATTTTTA
1 ATTTTTA
31893 AAAAAGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 23 0.59
11 16 0.41
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:31859 original size:21 final size:21
Alignment explanation
Indices: 31834--31892 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
31824 TAGAAATAAT
*
31834 ATTTTTATTGAATTTTATT-C
1 ATTTTTATTGATTTTTATTAC
* **
31854 ACTTTTAATTCTTTTTTATTAC
1 A-TTTTTATTGATTTTTATTAC
31876 ATTTTTATTGATTTTTA
1 ATTTTTATTGATTTTTA
31893 AAAAAGTAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (21 bp):
ATTTTTATTGATTTTTATTAC
Found at i:43385 original size:27 final size:27
Alignment explanation
Indices: 43350--43415 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
43340 AATTTAAATT
43350 AAATTAATTATTATATTTAAAATTTTA
1 AAATTAATTATTATATTTAAAATTTTA
*
43377 AAATTAATTATTATATTTAAATTTTTA
1 AAATTAATTATTATATTTAAAATTTTA
43404 AAATTAATTATT
1 AAATTAATTATT
43416 TAATATATGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATTAATTATTATATTTAAAATTTTA
Found at i:43386 original size:31 final size:30
Alignment explanation
Indices: 43336--43423 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 30
43326 TCGTGGTGAG
43336 TTAAAA-TTTAAATTAAATTAATTATTATAT
1 TTAAAATTTTAAATT-AATTAATTATTATAT
43366 TTAAAATTTT-AA--AATTAATTATTATAT
1 TTAAAATTTTAAATTAATTAATTATTATAT
* * *
43393 TTAAATTTTTAAAATTAATTATTTAATATAT
1 TTAAAATTTT-AAATTAATTAATTATTATAT
43424 GCGCATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
27 24 0.48
29 2 0.04
30 8 0.16
31 16 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTAAAATTTTAAATTAATTAATTATTATAT
Found at i:43417 original size:14 final size:14
Alignment explanation
Indices: 43373--43418 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
43363 TATTTAAAAT
43373 TTTAAAATTAATTA
1 TTTAAAATTAATTA
* *
43387 -TTATATTTAAATT-
1 TTTAAAATT-AATTA
43400 TTTAAAATTAATTA
1 TTTAAAATTAATTA
43414 TTTAA
1 TTTAA
43419 TATATGCGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAAAATTAATTA
Found at i:45529 original size:14 final size:15
Alignment explanation
Indices: 45512--45540 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45502 TAAAAATAAA
45512 AAATTA-GAGTAATT
1 AAATTACGAGTAATT
45526 AAATTACGAGTAATT
1 AAATTACGAGTAATT
45541 TGATAGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (15 bp):
AAATTACGAGTAATT
Found at i:47768 original size:41 final size:41
Alignment explanation
Indices: 47691--47774 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
47681 TGGGCTAAAA
*
47691 TTCTGAATTTATGGGAAGTATCTTAATTTATACAACTGCAG
1 TTCTGAATTTATGGGAAGTATCTTAAGTTATACAACTGCAG
* * * *
47732 TTCTGAATTTATGGGAAGTATTTTCAGTTATGCAACTGTAG
1 TTCTGAATTTATGGGAAGTATCTTAAGTTATACAACTGCAG
47773 TT
1 TT
47775 GGTTTCGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (41 bp):
TTCTGAATTTATGGGAAGTATCTTAAGTTATACAACTGCAG
Found at i:49645 original size:2 final size:2
Alignment explanation
Indices: 49638--49696 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
49628 TTAAGTCCAT
49638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49680 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
49697 GTGTGTGTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55254 original size:24 final size:24
Alignment explanation
Indices: 55209--55258 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55199 ATAAAGAACC
*
55209 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
55233 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
55257 AA
1 AA
55259 CCAACAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:57045 original size:20 final size:20
Alignment explanation
Indices: 57020--57062 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57010 TCTAAGAGCA
*
57020 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
57040 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
57060 CAT
1 CAT
57063 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Done.