Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 1 of 170
Found at i:12 original size:7 final size:7
Alignment explanation
Indices: 1--4674 Score: 7647
Period size: 7 Copynumber: 664.3 Consensus size: 7
1 ACCCTAA
1 ACCCTAA
8 ACCCTAA
1 ACCCTAA
15 ACCCTAA
1 ACCCTAA
22 ACCCTAA
1 ACCCTAA
29 ACCCTAA
1 ACCCTAA
36 ACCCTAA
1 ACCCTAA
43 ACCCTAA
1 ACCCTAA
50 ACCCTAA
1 ACCCTAA
57 ACCCTAA
1 ACCCTAA
64 ACCCTAA
1 ACCCTAA
71 ACCCTAA
1 ACCCTAA
78 ACCCTAA
1 ACCCTAA
85 ACCCTAA
1 ACCCTAA
92 ACCCTAA
1 ACCCTAA
99 ACCCTAA
1 ACCCTAA
106 ACCCTAAA
1 ACCCT-AA
114 ACCCTAA
1 ACCCTAA
121 ACCCT-A
1 ACCCTAA
127 ACCCTAA
1 ACCCTAA
134 ACCCTAA
1 ACCCTAA
141 ACCCTAA
1 ACCCTAA
148 ACCCTAA
1 ACCCTAA
155 ACCCTAA
1 ACCCTAA
162 ACCCTAA
1 ACCCTAA
169 ACCCTAA
1 ACCCTAA
176 ACCCTAA
1 ACCCTAA
183 ACCCTAA
1 ACCCTAA
190 A-CCTAA
1 ACCCTAA
196 A-CCTAA
1 ACCCTAA
202 ACCCTAA
1 ACCCTAA
209 ACCCTAA
1 ACCCTAA
216 ACCCTAA
1 ACCCTAA
223 ACCCTAA
1 ACCCTAA
230 ACCCTAA
1 ACCCTAA
237 ACCCTAA
1 ACCCTAA
244 ACCCTAA
1 ACCCTAA
251 ACCCTAA
1 ACCCTAA
258 ACCCTAA
1 ACCCTAA
265 ACCCTAA
1 ACCCTAA
272 ACCCTAA
1 ACCCTAA
279 ACCCTAAA
1 ACCCT-AA
287 ACCCT-A
1 ACCCTAA
293 ACCCTAA
1 ACCCTAA
300 ACCCTAA
1 ACCCTAA
307 ACCCTAA
1 ACCCTAA
314 ACCCTAA
1 ACCCTAA
321 ACCCTAA
1 ACCCTAA
328 ACCCTAAA
1 ACCCT-AA
336 ACCCTAA
1 ACCCTAA
343 ACCCTAA
1 ACCCTAA
350 ACCCTAA
1 ACCCTAA
357 ACCCTAA
1 ACCCTAA
364 ACCCTAA
1 ACCCTAA
371 ACCCTAA
1 ACCCTAA
378 ACCCTAAA
1 ACCCT-AA
386 ACCCTAA
1 ACCCTAA
393 ACCCTAA
1 ACCCTAA
400 A-CCTAA
1 ACCCTAA
406 ACCCTAA
1 ACCCTAA
413 ACCCTAA
1 ACCCTAA
420 ACCCTAA
1 ACCCTAA
427 ACCCTAA
1 ACCCTAA
434 ACCCTAA
1 ACCCTAA
441 ACCCTAA
1 ACCCTAA
448 ACCCTAA
1 ACCCTAA
455 ACCCTAA
1 ACCCTAA
462 ACCCTAA
1 ACCCTAA
469 ACCCTAA
1 ACCCTAA
476 ACCCTAA
1 ACCCTAA
483 ACCCTAA
1 ACCCTAA
490 ACCCTAA
1 ACCCTAA
497 ACCCTAA
1 ACCCTAA
504 ACCCTAA
1 ACCCTAA
511 ACCCTAA
1 ACCCTAA
518 ACCCTAA
1 ACCCTAA
525 ACCCTAA
1 ACCCTAA
532 ACCCTAA
1 ACCCTAA
539 ACCCTAA
1 ACCCTAA
546 ACCCTAA
1 ACCCTAA
553 ACCCTAA
1 ACCCTAA
560 ACCCTAA
1 ACCCTAA
567 ACCCTAA
1 ACCCTAA
574 ACCCTAA
1 ACCCTAA
581 ACCCTAA
1 ACCCTAA
588 ACCCTAA
1 ACCCTAA
595 ACCCTAA
1 ACCCTAA
602 ACCCTAAA
1 ACCCT-AA
610 ACCCTAA
1 ACCCTAA
617 ACCCTAA
1 ACCCTAA
624 ACCCTAA
1 ACCCTAA
631 ACCCTAA
1 ACCCTAA
638 ACCCTAA
1 ACCCTAA
645 ACCCTAA
1 ACCCTAA
652 ACCCTAA
1 ACCCTAA
659 ACCCTAA
1 ACCCTAA
666 ACCCTAA
1 ACCCTAA
673 ACCCTAA
1 ACCCTAA
680 ACCCTAA
1 ACCCTAA
687 ACCCTAA
1 ACCCTAA
694 ACCCTAA
1 ACCCTAA
701 ACCCTAA
1 ACCCTAA
708 ACCCTAAA
1 ACCCT-AA
716 ACCCTAA
1 ACCCTAA
723 ACCCTAA
1 ACCCTAA
730 ACCCTAA
1 ACCCTAA
737 ACCCTAA
1 ACCCTAA
744 ACCCTAA
1 ACCCTAA
751 ACCCTAA
1 ACCCTAA
758 ACCCTAA
1 ACCCTAA
765 ACCCTAA
1 ACCCTAA
772 ACCCTAA
1 ACCCTAA
779 ACCCTAA
1 ACCCTAA
786 ACCCTAA
1 ACCCTAA
793 ACCCTAA
1 ACCCTAA
800 ACCCT-A
1 ACCCTAA
806 ACCCTAA
1 ACCCTAA
813 ACCCTAA
1 ACCCTAA
820 ACCCTAA
1 ACCCTAA
827 ACCCTAA
1 ACCCTAA
834 ACCCTAA
1 ACCCTAA
841 ACCCT-A
1 ACCCTAA
847 ACCCTAA
1 ACCCTAA
854 ACCCTAA
1 ACCCTAA
861 ACCCTAA
1 ACCCTAA
868 ACCCTAA
1 ACCCTAA
875 ACCCTAA
1 ACCCTAA
882 ACCCTAA
1 ACCCTAA
889 A-CCTAA
1 ACCCTAA
895 ACCCTAA
1 ACCCTAA
902 ACCCTAA
1 ACCCTAA
909 ACCCTAA
1 ACCCTAA
916 ACCCTAA
1 ACCCTAA
923 ACCCTAA
1 ACCCTAA
930 ACCCTAA
1 ACCCTAA
937 ACCCTAA
1 ACCCTAA
944 ACCCTAA
1 ACCCTAA
951 ACCCTAA
1 ACCCTAA
958 ACCCTAA
1 ACCCTAA
965 ACCCTAA
1 ACCCTAA
972 ACCCTAAA
1 ACCCT-AA
980 ACCCTAA
1 ACCCTAA
987 ACCCTAA
1 ACCCTAA
994 ACCCTAA
1 ACCCTAA
1001 ACCCTAA
1 ACCCTAA
1008 ACCCTAA
1 ACCCTAA
1015 ACCCTAA
1 ACCCTAA
1022 ACCCTAA
1 ACCCTAA
1029 ACCCTAA
1 ACCCTAA
1036 ACCCTAA
1 ACCCTAA
1043 ACCCTAA
1 ACCCTAA
1050 ACCCTAA
1 ACCCTAA
1057 ACCCTAA
1 ACCCTAA
1064 ACCCTAA
1 ACCCTAA
1071 ACCCTAA
1 ACCCTAA
1078 ACCCTAA
1 ACCCTAA
1085 ACCCTAA
1 ACCCTAA
1092 ACCCTAA
1 ACCCTAA
1099 ACCCTAA
1 ACCCTAA
1106 ACCCTAA
1 ACCCTAA
1113 ACCCTAA
1 ACCCTAA
1120 ACCCTAA
1 ACCCTAA
1127 ACCCTAA
1 ACCCTAA
1134 ACCCTAA
1 ACCCTAA
1141 ACCCTAA
1 ACCCTAA
1148 ACCCTAA
1 ACCCTAA
1155 ACCCTAA
1 ACCCTAA
1162 ACCCTAA
1 ACCCTAA
1169 ACCCTAA
1 ACCCTAA
1176 ACCCTAA
1 ACCCTAA
1183 ACCCTAA
1 ACCCTAA
1190 ACCCTAA
1 ACCCTAA
1197 ACCCTAAA
1 ACCCT-AA
1205 ACCCTAA
1 ACCCTAA
1212 ACCCTAA
1 ACCCTAA
1219 A-CCTAA
1 ACCCTAA
1225 ACCCTAA
1 ACCCTAA
1232 ACCCTAA
1 ACCCTAA
1239 ACCCTAA
1 ACCCTAA
1246 ACCCTAA
1 ACCCTAA
1253 ACCCTAA
1 ACCCTAA
1260 ACCCTAA
1 ACCCTAA
1267 ACCCTAA
1 ACCCTAA
1274 ACCCTAA
1 ACCCTAA
1281 ACCCTAA
1 ACCCTAA
1288 ACCCTAA
1 ACCCTAA
1295 ACCCTAA
1 ACCCTAA
1302 ACCCTAA
1 ACCCTAA
1309 ACCCTAA
1 ACCCTAA
1316 ACCCTAA
1 ACCCTAA
1323 ACCCTAA
1 ACCCTAA
1330 ACCCTAA
1 ACCCTAA
1337 ACCCTAA
1 ACCCTAA
1344 ACCCTAA
1 ACCCTAA
1351 ACCCTAA
1 ACCCTAA
1358 ACCCTAA
1 ACCCTAA
1365 ACCCTAA
1 ACCCTAA
1372 ACCCTAAA
1 ACCCT-AA
1380 ACCCTAA
1 ACCCTAA
1387 ACCCTAA
1 ACCCTAA
1394 ACCCTAA
1 ACCCTAA
1401 ACCCTAA
1 ACCCTAA
1408 ACCC-AA
1 ACCCTAA
1414 ACCCTAA
1 ACCCTAA
1421 ACCCTAA
1 ACCCTAA
1428 ACCCTAA
1 ACCCTAA
1435 ACCCTAA
1 ACCCTAA
1442 ACCCTAA
1 ACCCTAA
1449 ACCCTAA
1 ACCCTAA
1456 ACCCTAA
1 ACCCTAA
1463 ACCCTAA
1 ACCCTAA
1470 ACCCTAA
1 ACCCTAA
1477 ACCCTAA
1 ACCCTAA
1484 ACCCTAA
1 ACCCTAA
1491 ACCCTAA
1 ACCCTAA
1498 ACCCTAA
1 ACCCTAA
1505 ACCCTAAA
1 ACCCT-AA
1513 ACCCTAA
1 ACCCTAA
1520 ACCCTAA
1 ACCCTAA
1527 ACCCTAA
1 ACCCTAA
1534 ACCCTAA
1 ACCCTAA
1541 ACCCTAA
1 ACCCTAA
1548 ACCCTAA
1 ACCCTAA
1555 ACCCTAA
1 ACCCTAA
1562 ACCCTAA
1 ACCCTAA
1569 ACCCTAA
1 ACCCTAA
1576 ACCCTAA
1 ACCCTAA
1583 ACCCTAA
1 ACCCTAA
1590 ACCCTAA
1 ACCCTAA
1597 ACCCTAA
1 ACCCTAA
1604 ACCCTAA
1 ACCCTAA
1611 ACCCTAA
1 ACCCTAA
1618 A-CC-AA
1 ACCCTAA
1623 ACCCTAA
1 ACCCTAA
1630 ACCCTAA
1 ACCCTAA
1637 ACCCTAA
1 ACCCTAA
1644 ACCCTAAA
1 ACCCT-AA
1652 ACCCTAA
1 ACCCTAA
1659 ACCCTAA
1 ACCCTAA
1666 ACCCTAA
1 ACCCTAA
1673 ACCCTAA
1 ACCCTAA
1680 ACCCTAAA
1 ACCCT-AA
1688 ACCCTAA
1 ACCCTAA
1695 ACCCTAA
1 ACCCTAA
1702 ACCCTAA
1 ACCCTAA
1709 ACCCTAA
1 ACCCTAA
1716 ACCCTAA
1 ACCCTAA
1723 ACCCTAA
1 ACCCTAA
1730 ACCCTAA
1 ACCCTAA
1737 ACCCTAA
1 ACCCTAA
1744 ACCCTAA
1 ACCCTAA
1751 ACCCTAA
1 ACCCTAA
1758 ACCCTAA
1 ACCCTAA
1765 ACCCTAA
1 ACCCTAA
1772 ACCCT-A
1 ACCCTAA
1778 ACCCTAA
1 ACCCTAA
1785 ACCCTAA
1 ACCCTAA
1792 ACCCTAA
1 ACCCTAA
1799 ACCCTAA
1 ACCCTAA
1806 ACCCTAA
1 ACCCTAA
1813 ACCCTAA
1 ACCCTAA
1820 ACCCTAA
1 ACCCTAA
1827 ACCCTAA
1 ACCCTAA
1834 ACCCTAA
1 ACCCTAA
1841 ACCCTAA
1 ACCCTAA
1848 ACCCTAAA
1 ACCCT-AA
1856 ACCCTAA
1 ACCCTAA
1863 ACCCTAA
1 ACCCTAA
1870 ACCCTAA
1 ACCCTAA
1877 ACCCTAA
1 ACCCTAA
1884 ACCCTAA
1 ACCCTAA
1891 ACCCTAA
1 ACCCTAA
1898 ACCCTAA
1 ACCCTAA
1905 ACCCTAAA
1 ACCCT-AA
1913 ACCCTAA
1 ACCCTAA
1920 ACCCTAA
1 ACCCTAA
1927 ACCCTAA
1 ACCCTAA
1934 ACCCTAA
1 ACCCTAA
1941 ACCCTAA
1 ACCCTAA
1948 ACCCTAAA
1 ACCCT-AA
1956 ACCCTAA
1 ACCCTAA
1963 ACCCTAA
1 ACCCTAA
1970 ACCCTAAA
1 ACCCT-AA
1978 ACCCTAA
1 ACCCTAA
1985 ACCCTAA
1 ACCCTAA
1992 ACCCTAA
1 ACCCTAA
1999 ACCCTAA
1 ACCCTAA
2006 ACCCTAA
1 ACCCTAA
2013 ACCCTAA
1 ACCCTAA
2020 ACCCTAA
1 ACCCTAA
2027 ACCCTAA
1 ACCCTAA
2034 ACCCTAA
1 ACCCTAA
2041 ACCCTAA
1 ACCCTAA
2048 ACCCTAA
1 ACCCTAA
2055 ACCCTAA
1 ACCCTAA
2062 ACCCTAA
1 ACCCTAA
2069 ACCCTAA
1 ACCCTAA
2076 ACCCTAA
1 ACCCTAA
2083 ACCCTAA
1 ACCCTAA
2090 ACCCTAA
1 ACCCTAA
2097 ACCCTAA
1 ACCCTAA
2104 ACCCTAA
1 ACCCTAA
2111 ACCCTAA
1 ACCCTAA
2118 ACCCTAA
1 ACCCTAA
2125 ACCCTAA
1 ACCCTAA
2132 ACCCTAA
1 ACCCTAA
2139 ACCCTAA
1 ACCCTAA
2146 ACCCTAA
1 ACCCTAA
2153 ACCCTAA
1 ACCCTAA
2160 ACCCTAAA
1 ACCCT-AA
2168 ACCCTAA
1 ACCCTAA
2175 ACCCTAA
1 ACCCTAA
2182 ACCCTAA
1 ACCCTAA
2189 ACCCTAA
1 ACCCTAA
2196 ACCCTAA
1 ACCCTAA
2203 ACCCTAAAA
1 ACCCT--AA
2212 ACCCTAA
1 ACCCTAA
2219 ACCCTAAA
1 ACCCT-AA
2227 ACCCTAA
1 ACCCTAA
2234 ACCCTAA
1 ACCCTAA
2241 ACCCTAA
1 ACCCTAA
2248 ACCCTAA
1 ACCCTAA
2255 ACCCTAA
1 ACCCTAA
2262 ACCCTAA
1 ACCCTAA
2269 ACCCTAA
1 ACCCTAA
2276 ACCCTAA
1 ACCCTAA
2283 ACCCTAA
1 ACCCTAA
2290 ACCCTAA
1 ACCCTAA
2297 ACCCTAA
1 ACCCTAA
2304 ACCCTAA
1 ACCCTAA
2311 ACCCTAA
1 ACCCTAA
2318 ACCCTAA
1 ACCCTAA
2325 ACCCTAA
1 ACCCTAA
2332 ACCCTAA
1 ACCCTAA
2339 ACCCTAA
1 ACCCTAA
2346 ACCCTAA
1 ACCCTAA
2353 ACCCTAA
1 ACCCTAA
2360 ACCCTAA
1 ACCCTAA
2367 A--CT-A
1 ACCCTAA
2371 ACCCTAA
1 ACCCTAA
2378 ACCCTAA
1 ACCCTAA
2385 ACCCTAA
1 ACCCTAA
2392 ACCCTAA
1 ACCCTAA
2399 ACCCTAA
1 ACCCTAA
2406 ACCCTAA
1 ACCCTAA
2413 ACCCTAA
1 ACCCTAA
2420 ACCCTAA
1 ACCCTAA
2427 ACCCTAA
1 ACCCTAA
2434 ACCCTAA
1 ACCCTAA
2441 ACCCTAA
1 ACCCTAA
2448 ACCCTAA
1 ACCCTAA
2455 ACCCTAA
1 ACCCTAA
2462 ACCCTAA
1 ACCCTAA
2469 ACCCTAA
1 ACCCTAA
2476 ACCCTAA
1 ACCCTAA
2483 ACCCTAA
1 ACCCTAA
2490 ACCCTAA
1 ACCCTAA
2497 ACCCTAA
1 ACCCTAA
2504 ACCCTAA
1 ACCCTAA
2511 ACCCTAA
1 ACCCTAA
2518 ACCCTAA
1 ACCCTAA
2525 ACCCTAA
1 ACCCTAA
2532 ACCCTAA
1 ACCCTAA
2539 ACCCTAA
1 ACCCTAA
2546 ACCCTAA
1 ACCCTAA
2553 ACCCTAA
1 ACCCTAA
2560 ACCCTAA
1 ACCCTAA
2567 ACCCTAA
1 ACCCTAA
2574 ACCCTAA
1 ACCCTAA
2581 ACCCTAA
1 ACCCTAA
2588 ACCCTAA
1 ACCCTAA
2595 ACCCTAA
1 ACCCTAA
2602 ACCCTAA
1 ACCCTAA
2609 ACCCTAA
1 ACCCTAA
2616 ACCCTAA
1 ACCCTAA
2623 ACCCTAA
1 ACCCTAA
2630 ACCCTAA
1 ACCCTAA
2637 ACCCTAA
1 ACCCTAA
2644 ACCCTAA
1 ACCCTAA
2651 ACCCTAA
1 ACCCTAA
2658 ACCCTAA
1 ACCCTAA
2665 ACCCTAA
1 ACCCTAA
2672 ACCCTAA
1 ACCCTAA
2679 ACCCTAAA
1 ACCCT-AA
2687 ACCCTAA
1 ACCCTAA
2694 ACCCTAA
1 ACCCTAA
2701 ACCCTAA
1 ACCCTAA
2708 ACCCTAA
1 ACCCTAA
2715 ACCCTAA
1 ACCCTAA
2722 ACCCTAA
1 ACCCTAA
2729 ACCCTAA
1 ACCCTAA
2736 ACCCTAA
1 ACCCTAA
2743 ACCCTAA
1 ACCCTAA
2750 ACCCTAA
1 ACCCTAA
2757 ACCCTAA
1 ACCCTAA
2764 ACCCTAA
1 ACCCTAA
2771 ACCCTAA
1 ACCCTAA
2778 ACCCTAA
1 ACCCTAA
2785 ACCCTAA
1 ACCCTAA
2792 ACCCTAA
1 ACCCTAA
2799 ACCCTAA
1 ACCCTAA
2806 ACCCTAA
1 ACCCTAA
2813 ACCCTAA
1 ACCCTAA
2820 ACCCTAA
1 ACCCTAA
2827 ACCCTAA
1 ACCCTAA
2834 ACCCTAA
1 ACCCTAA
2841 ACCCTAA
1 ACCCTAA
2848 ACCCTAA
1 ACCCTAA
2855 ACCCTAA
1 ACCCTAA
2862 ACCCTAA
1 ACCCTAA
2869 ACCCT-A
1 ACCCTAA
2875 ACCCTAA
1 ACCCTAA
2882 ACCCTAA
1 ACCCTAA
2889 ACCCTAA
1 ACCCTAA
2896 ACCCTAA
1 ACCCTAA
2903 ACCCTAA
1 ACCCTAA
2910 ACCCTAA
1 ACCCTAA
2917 ACCCTAA
1 ACCCTAA
2924 ACCCTAA
1 ACCCTAA
2931 ACCCTAA
1 ACCCTAA
2938 ACCCTAA
1 ACCCTAA
2945 ACCCTAA
1 ACCCTAA
2952 ACCCTAA
1 ACCCTAA
2959 ACCCTAA
1 ACCCTAA
2966 ACCCTAA
1 ACCCTAA
2973 ACCCTAA
1 ACCCTAA
2980 ACCCTAA
1 ACCCTAA
2987 ACCCTAA
1 ACCCTAA
2994 ACCCTAA
1 ACCCTAA
3001 ACCCTAA
1 ACCCTAA
3008 ACCCT-A
1 ACCCTAA
3014 ACCCTAA
1 ACCCTAA
3021 ACCCTAA
1 ACCCTAA
3028 ACCCTAA
1 ACCCTAA
3035 ACCCTAA
1 ACCCTAA
3042 ACCCTAA
1 ACCCTAA
3049 ACCCTAA
1 ACCCTAA
3056 ACCCTAA
1 ACCCTAA
3063 ACCCTAA
1 ACCCTAA
3070 ACCCTAAA
1 ACCCT-AA
3078 ACCCTAA
1 ACCCTAA
3085 ACCCTAA
1 ACCCTAA
3092 ACCCTAA
1 ACCCTAA
3099 ACCCTAA
1 ACCCTAA
3106 ACCCT-A
1 ACCCTAA
3112 ACCCTAA
1 ACCCTAA
3119 ACCCTAA
1 ACCCTAA
3126 ACCCTAAA
1 ACCCT-AA
3134 ACCCTAA
1 ACCCTAA
3141 ACCCTAA
1 ACCCTAA
3148 ACCCTAA
1 ACCCTAA
3155 ACCCTAA
1 ACCCTAA
3162 ACCCTAA
1 ACCCTAA
3169 ACCCTAA
1 ACCCTAA
3176 ACCCTAA
1 ACCCTAA
3183 ACCCTAA
1 ACCCTAA
3190 ACCCTAA
1 ACCCTAA
3197 ACCCTAA
1 ACCCTAA
3204 A-CC--A
1 ACCCTAA
3208 ACCCTAA
1 ACCCTAA
3215 ACCCTAA
1 ACCCTAA
3222 ACCCTAA
1 ACCCTAA
3229 ACCCTAA
1 ACCCTAA
3236 ACCCTAA
1 ACCCTAA
3243 ACCCTAA
1 ACCCTAA
3250 ACCCTAA
1 ACCCTAA
3257 ACCCTAA
1 ACCCTAA
3264 ACCCTAA
1 ACCCTAA
3271 ACCCTAA
1 ACCCTAA
3278 ACCCTAA
1 ACCCTAA
3285 ACCCTAA
1 ACCCTAA
3292 ACCCTAA
1 ACCCTAA
3299 ACCCTAAA
1 ACCCT-AA
3307 ACCCTAAA
1 ACCCT-AA
3315 ACCCTAA
1 ACCCTAA
3322 ACCCTAA
1 ACCCTAA
3329 ACCCTAA
1 ACCCTAA
3336 ACCCTAA
1 ACCCTAA
3343 ACCCTAA
1 ACCCTAA
3350 ACCCTAA
1 ACCCTAA
3357 ACCCTAA
1 ACCCTAA
3364 ACCCTAA
1 ACCCTAA
3371 ACCCTAA
1 ACCCTAA
3378 ACCCTAA
1 ACCCTAA
3385 ACCCTAA
1 ACCCTAA
3392 ACCCTAA
1 ACCCTAA
3399 ACCCTAA
1 ACCCTAA
3406 ACCCTAA
1 ACCCTAA
3413 ACCCTAA
1 ACCCTAA
3420 ACCCTAA
1 ACCCTAA
3427 ACCCTAA
1 ACCCTAA
3434 ACCCTAA
1 ACCCTAA
3441 ACCCTAA
1 ACCCTAA
3448 ACCCTAA
1 ACCCTAA
3455 ACCCTAA
1 ACCCTAA
3462 ACCCTAA
1 ACCCTAA
3469 ACCCTAA
1 ACCCTAA
3476 ACCCTAA
1 ACCCTAA
3483 ACCCTAA
1 ACCCTAA
3490 ACCCTAA
1 ACCCTAA
3497 ACCCTAA
1 ACCCTAA
3504 ACCCTAA
1 ACCCTAA
3511 ACCCTAA
1 ACCCTAA
3518 ACCCTAAA
1 ACCCT-AA
3526 ACCCTAA
1 ACCCTAA
3533 ACCCTAA
1 ACCCTAA
3540 ACCCTAA
1 ACCCTAA
3547 ACCCTAA
1 ACCCTAA
3554 ACCCTAAA
1 ACCCT-AA
3562 ACCCTAA
1 ACCCTAA
3569 ACCCTAA
1 ACCCTAA
3576 ACCCTAA
1 ACCCTAA
3583 ACCCTAA
1 ACCCTAA
*
3590 ACCCTGA
1 ACCCTAA
3597 ACCCTAA
1 ACCCTAA
3604 ACCCTAA
1 ACCCTAA
*
3611 ACCCTGA
1 ACCCTAA
*
3618 ACCCTGA
1 ACCCTAA
*
3625 ACCCTGA
1 ACCCTAA
*
3632 ACCCTGA
1 ACCCTAA
*
3639 ACCCTGA
1 ACCCTAA
*
3646 ACCCTGA
1 ACCCTAA
*
3653 ACCCTGA
1 ACCCTAA
*
3660 ACCCTGA
1 ACCCTAA
*
3667 ACCCTGA
1 ACCCTAA
3674 ACCCTAAA
1 ACCCT-AA
*
3682 ACCCTGA
1 ACCCTAA
*
3689 ACCCTGA
1 ACCCTAA
*
3696 ACCCTGA
1 ACCCTAA
*
3703 ACCCTGA
1 ACCCTAA
*
3710 ACCCTGA
1 ACCCTAA
*
3717 ACCCTGA
1 ACCCTAA
*
3724 ACCCTGA
1 ACCCTAA
*
3731 ACCCTGA
1 ACCCTAA
*
3738 ACCCTGA
1 ACCCTAA
*
3745 ACCCTGA
1 ACCCTAA
*
3752 ACCCTGA
1 ACCCTAA
*
3759 ACCCTGA
1 ACCCTAA
*
3766 ACCCTGA
1 ACCCTAA
*
3773 ACCCTGA
1 ACCCTAA
*
3780 ACCCTGA
1 ACCCTAA
*
3787 ACCCTGA
1 ACCCTAA
*
3794 ACCCTGA
1 ACCCTAA
*
3801 ACCCTGA
1 ACCCTAA
*
3808 ACCCTGA
1 ACCCTAA
*
3815 ACCCTGA
1 ACCCTAA
*
3822 ACCCTGA
1 ACCCTAA
*
3829 ACCCTGA
1 ACCCTAA
*
3836 ACCCTGA
1 ACCCTAA
*
3843 ACCCTGA
1 ACCCTAA
*
3850 ACCCTGA
1 ACCCTAA
*
3857 ACCCTGA
1 ACCCTAA
3864 ACCCTAA
1 ACCCTAA
3871 ACCCTAAA
1 ACCCT-AA
3879 ACCCTAA
1 ACCCTAA
**
3886 ACTTTAA
1 ACCCTAA
3893 ACCCTAA
1 ACCCTAA
3900 ACCCTAA
1 ACCCTAA
3907 ACCCTAA
1 ACCCTAA
3914 ACCCTAAA
1 ACCCT-AA
3922 ACCCTAA
1 ACCCTAA
3929 ACCCTAA
1 ACCCTAA
3936 ACCCTAA
1 ACCCTAA
3943 ACCCTAA
1 ACCCTAA
3950 ACCCTAA
1 ACCCTAA
3957 ACCCTAA
1 ACCCTAA
3964 ACCCTAA
1 ACCCTAA
3971 ACCCTAA
1 ACCCTAA
3978 ACCCTAA
1 ACCCTAA
3985 ACCCTAA
1 ACCCTAA
3992 ACCCTAA
1 ACCCTAA
3999 ACCCTAA
1 ACCCTAA
4006 ACCCTAA
1 ACCCTAA
4013 ACCCTAA
1 ACCCTAA
4020 ACCCTAA
1 ACCCTAA
4027 ACCCTAA
1 ACCCTAA
*
4034 ACCCTGA
1 ACCCTAA
*
4041 ACCCTGA
1 ACCCTAA
*
4048 ACCCTGA
1 ACCCTAA
*
4055 ACCTTTAA
1 ACC-CTAA
*
4063 ACCCTGA
1 ACCCTAA
4070 ACCCTGAA
1 ACCCT-AA
*
4078 CCCCTAA
1 ACCCTAA
*
4085 ACCCTGA
1 ACCCTAA
*
4092 ACCCCAA
1 ACCCTAA
*
4099 ACCCCAA
1 ACCCTAA
*
4106 ACCCCAA
1 ACCCTAA
4113 ACCCTAA
1 ACCCTAA
* *
4120 ACTCAAA
1 ACCCTAA
4127 ACCCTAA
1 ACCCTAA
*
4134 ACCCTGA
1 ACCCTAA
4141 ACCCTAAA
1 ACCCT-AA
*
4149 ACCTTAA
1 ACCCTAA
*
4156 ACCCCAA
1 ACCCTAA
4163 ACCCTAA
1 ACCCTAA
4170 A-CCTCAA
1 ACCCT-AA
*
4177 ACCC-CA
1 ACCCTAA
* *
4183 ACTCCCAG
1 AC-CCTAA
* * *
4191 GCCCCAG
1 ACCCTAA
* *
4198 GCCCCAA
1 ACCCTAA
*
4205 GCCCTAA
1 ACCCTAA
4212 ACCCTAA
1 ACCCTAA
*
4219 GCCCTAA
1 ACCCTAA
*
4226 GCCCTAA
1 ACCCTAA
4233 ACCCTAAA
1 ACCCT-AA
4241 ACCCTAAA
1 ACCCT-AA
*
4249 ACCCCAA
1 ACCCTAA
*
4256 ACCCTAT
1 ACCCTAA
*
4263 ACCATAA
1 ACCCTAA
4270 ACCCTAA
1 ACCCTAA
4277 ACCCTAA
1 ACCCTAA
*
4284 GCCCTAA
1 ACCCTAA
*
4291 ACCCTTA
1 ACCCTAA
4298 ACCCTAA
1 ACCCTAA
*
4305 ACCTTAAAA
1 ACCCT--AA
4314 ACCCTAA
1 ACCCTAA
*
4321 ACCCCAA
1 ACCCTAA
*
4328 ACCCCAA
1 ACCCTAA
**
4335 ACAAT-A
1 ACCCTAA
*
4341 ACACTTAA
1 AC-CCTAA
4349 ACCCT-A
1 ACCCTAA
4355 ACCCTTAA
1 ACCC-TAA
*
4363 ACTCC-AT
1 AC-CCTAA
*
4370 ACCCCAA
1 ACCCTAA
4377 ACCCTAAA
1 ACCCT-AA
*
4385 ACCCAAA
1 ACCCTAA
4392 ACCCTAA
1 ACCCTAA
*
4399 ATCCCAAA
1 A-CCCTAA
4407 ACCCTAA
1 ACCCTAA
*
4414 ACCCCAGA
1 ACCCTA-A
*
4422 ACCATAA
1 ACCCTAA
*
4429 ACCCTCA
1 ACCCTAA
*
4436 ACCCTCA
1 ACCCTAA
4443 ACCCTAA
1 ACCCTAA
*
4450 GCCCTAA
1 ACCCTAA
* *
4457 GCCCTTA
1 ACCCTAA
*
4464 GCCCTGAA
1 ACCCT-AA
*
4472 ACACTAAA
1 ACCCT-AA
4480 ACCCTAA
1 ACCCTAA
*
4487 ACCCCAAA
1 A-CCCTAA
* *
4495 ACCATGA
1 ACCCTAA
*
4502 ACCCTCA
1 ACCCTAA
*
4509 ACCCTCA
1 ACCCTAA
* *
4516 ACCATCA
1 ACCCTAA
*
4523 ACCCTCA
1 ACCCTAA
4530 ACCCTAA
1 ACCCTAA
*
4537 GCCCTAA
1 ACCCTAA
*
4544 GCCCTAA
1 ACCCTAA
* *
4551 GCCCTAG
1 ACCCTAA
*
4558 ACCCTAG
1 ACCCTAA
4565 ACCCTAA
1 ACCCTAA
*
4572 CCCCTAA
1 ACCCTAA
*
4579 ACCCAAA
1 ACCCTAA
*
4586 ACCTTAA
1 ACCCTAA
*
4593 ACTCTAAA
1 ACCCT-AA
* *
4601 ACCATAG
1 ACCCTAA
4608 ACCCTAAA
1 ACCCT-AA
***
4616 ATTATAA
1 ACCCTAA
*
4623 ACACTAA
1 ACCCTAA
4630 ACCCTAAA
1 ACCCT-AA
*
4638 ACCTTAA
1 ACCCTAA
* *
4645 TCTCTAA
1 ACCCTAA
* *
4652 CCCCCAA
1 ACCCTAA
*
4659 ACCTTAA
1 ACCCTAA
4666 ACCCTAA
1 ACCCTAA
4673 AC
1 AC
4675 ATTAAATAAA
Statistics
Matches: 4470, Mismatches: 123, Indels: 148
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.00
5 7 0.00
6 108 0.02
7 4055 0.91
8 281 0.06
9 15 0.00
ACGTcount: A:0.42, C:0.42, G:0.01, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:6122 original size:21 final size:21
Alignment explanation
Indices: 6089--6147 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
6079 GTCCATACAT
6089 ACAAAAA-ATCTGAACCGG-CC
1 ACAAAAACA-CTGAACCGGACC
* *
6109 ACTAAAACAACTGAACCGGACT
1 ACAAAAAC-ACTGAACCGGACC
6131 ACAAAAACACTGAACCG
1 ACAAAAACACTGAACCG
6148 AAACGGGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 6 0.18
21 18 0.55
22 9 0.27
ACGTcount: A:0.47, C:0.29, G:0.14, T:0.10
Consensus pattern (21 bp):
ACAAAAACACTGAACCGGACC
Found at i:7000 original size:96 final size:96
Alignment explanation
Indices: 6836--7033 Score: 306
Period size: 96 Copynumber: 2.1 Consensus size: 96
6826 AGAAGAAAAT
* *
6836 GCAGGATATCCGAGGAATAACTTAATCTAAGAAGGAATAGTAGCGGAATATGACAGGGATAAATC
1 GCAGGATATCCGAAGAATAACTTAATCTAAGAAGGAATAGTAGCGGAATATGACAGGAATAAATC
* *
6901 CGGAGAGGAATAGGACAGAAAATTAACTATA
66 CGGAGAGGAATAGGACAGAAAATTAACAACA
* * * **
6932 GCAGGATATCCTAAGAATAGCTTAATCTGAGAAGGAATAGTCTCGGAATATGACAGGAATAAATC
1 GCAGGATATCCGAAGAATAACTTAATCTAAGAAGGAATAGTAGCGGAATATGACAGGAATAAATC
*
6997 CGGAGAGGAATAGGATAGAAAATTAACAACA
66 CGGAGAGGAATAGGACAGAAAATTAACAACA
7028 GCAGGA
1 GCAGGA
7034 CAGTTAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (96 bp):
GCAGGATATCCGAAGAATAACTTAATCTAAGAAGGAATAGTAGCGGAATATGACAGGAATAAATC
CGGAGAGGAATAGGACAGAAAATTAACAACA
Found at i:10491 original size:11 final size:11
Alignment explanation
Indices: 10475--10506 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10465 TTAAAATTTT
10475 AAAAAATTATA
1 AAAAAATTATA
10486 AAAAAA-T-TA
1 AAAAAATTATA
10495 AAAAAATTATA
1 AAAAAATTATA
10506 A
1 A
10507 TGAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.42
10 2 0.11
11 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:11940 original size:28 final size:28
Alignment explanation
Indices: 11900--11955 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11890 ACTACTGAAG
11900 AAGCTATTCAGGCACTATATGACAGGAA
1 AAGCTATTCAGGCACTATATGACAGGAA
11928 AAGCTATTCAGGCACTATATGACAGGAA
1 AAGCTATTCAGGCACTATATGACAGGAA
11956 TAAAGTCGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (28 bp):
AAGCTATTCAGGCACTATATGACAGGAA
Found at i:12218 original size:20 final size:19
Alignment explanation
Indices: 12193--12232 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12183 AACCTTAAAA
12193 TTTTAAA-TTATATTAAATTT
1 TTTTAAACTTAT-TT-AATTT
12213 TTTTAAACTTATTTAATTT
1 TTTTAAACTTATTTAATTT
12232 T
1 T
12233 AAAACAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAACTTATTTAATTT
Found at i:12225 original size:19 final size:20
Alignment explanation
Indices: 12193--12232 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12183 AACCTTAAAA
*
12193 TTTTAAATTATATTAAATTT
1 TTTTAAACTATATTAAATTT
*
12213 TTTTAAACT-TATTTAATTT
1 TTTTAAACTATATTAAATTT
12232 T
1 T
12233 AAAACAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAACTATATTAAATTT
Found at i:13553 original size:16 final size:16
Alignment explanation
Indices: 13532--13566 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13522 AGTCCTCGTA
13532 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
13548 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
13564 ATT
1 ATT
13567 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:22867 original size:29 final size:29
Alignment explanation
Indices: 22829--22913 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
22819 AACATTTGTT
* *
22829 AATATGCATTAATTAAAACAAATATATAA
1 AATATACATTAATTATAACAAATATATAA
* *
22858 AATATACATTAATTATACCAAATGTATAA
1 AATATACATTAATTATAACAAATATATAA
*
22887 AATATACATTAGTTATAACAAATATAT
1 AATATACATTAATTATAACAAATATAT
22914 TATTATTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (29 bp):
AATATACATTAATTATAACAAATATATAA
Found at i:24370 original size:66 final size:66
Alignment explanation
Indices: 24298--24499 Score: 368
Period size: 66 Copynumber: 3.0 Consensus size: 66
24288 GAAAAAGAAC
*
24298 AAAGAATATACAATTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
24363 A
66 A
*
24364 AAAGAATATACATTTTATTGTTTACTAATACTATTTCCATTATTTAGTTATTAATATCTACAAAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTAC-AAA
24429 AA
65 AA
*
24431 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGCTATTAATATCTACAAAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
24496 A
66 A
24497 AAA
1 AAA
24500 AAAGAAAAAA
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
66 67 0.51
67 64 0.49
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (66 bp):
AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
A
Found at i:24466 original size:67 final size:67
Alignment explanation
Indices: 24298--24500 Score: 372
Period size: 67 Copynumber: 3.0 Consensus size: 67
24288 GAAAAAGAAC
*
24298 AAAGAATATACAATTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTAC-AAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
24362 AA
66 AA
*
24364 AAAGAATATACATTTTATTGTTTACTAATACTATTTCCATTATTTAGTTATTAATATCTACAAAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
24429 AA
66 AA
*
24431 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGCTATTAATATCTACAAAA
1 AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
24496 AA
66 AA
24498 AAA
1 AAA
24501 AAGAAAAAAG
Statistics
Matches: 132, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 59 0.45
67 73 0.55
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (67 bp):
AAAGAATATACATTTTATTGTTTACTAATATTATTTCCATTATTTAGTTATTAATATCTACAAAA
AA
Found at i:42309 original size:24 final size:24
Alignment explanation
Indices: 42282--42333 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
42272 CCTAGCCACC
**
42282 CACACCCACACACTTGCACTCACT
1 CACACCCACACACACGCACTCACT
** *
42306 CACATGCACACACACGCACTCGCT
1 CACACCCACACACACGCACTCACT
42330 CACA
1 CACA
42334 TATACACATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.48, G:0.08, T:0.13
Consensus pattern (24 bp):
CACACCCACACACACGCACTCACT
Found at i:42334 original size:24 final size:23
Alignment explanation
Indices: 42288--42383 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 23
42278 CACCCACACC
**
42288 CACACACTTGCACTCACTCACAT
1 CACACACACGCACTCACTCACAT
*
42311 GCACACACACGCACTCGCTCACAT
1 -CACACACACGCACTCACTCACAT
* * *
42335 -ATACACATGCA-T-ACACACA-
1 CACACACACGCACTCACTCACAT
*
42354 CACACACACACACTCACTCACAT
1 CACACACACGCACTCACTCACAT
42377 GCACACA
1 -CACACA
42384 TGCATGCACA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
20 13 0.23
21 2 0.04
22 15 0.27
24 26 0.46
ACGTcount: A:0.36, C:0.43, G:0.06, T:0.15
Consensus pattern (23 bp):
CACACACACGCACTCACTCACAT
Found at i:42368 original size:42 final size:42
Alignment explanation
Indices: 42312--42396 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
42302 CACTCACATG
* * *
42312 CACACACACGCACTCGCTCACATATACACATGCATACACACA
1 CACACACACACACTCACTCACATACACACATGCATACACACA
* *
42354 CACACACACACACTCACTCACATGCACACATGCATGCACACA
1 CACACACACACACTCACTCACATACACACATGCATACACACA
42396 C
1 C
42397 TCATTTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.38, C:0.42, G:0.07, T:0.13
Consensus pattern (42 bp):
CACACACACACACTCACTCACATACACACATGCATACACACA
Found at i:43408 original size:54 final size:54
Alignment explanation
Indices: 43341--43443 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
43331 AATATACCTA
* * *
43341 TTTCATCGCAATCAGAGGCTATGAATGTTGATAATCAGGTAATATGAACAATCT
1 TTTCATCGCAATCAGAGGATATGAATGTTGAGAATCAGGTAACATGAACAATCT
* * *
43395 TTTCATCTCAATCAGAGTATATGGATGTTGAGAATCAGGTAACATGAAC
1 TTTCATCGCAATCAGAGGATATGAATGTTGAGAATCAGGTAACATGAAC
43444 TTTCTTCCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (54 bp):
TTTCATCGCAATCAGAGGATATGAATGTTGAGAATCAGGTAACATGAACAATCT
Found at i:46320 original size:27 final size:28
Alignment explanation
Indices: 46290--46348 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
46280 GGACTTTGGA
*
46290 ATTTATAATATAAAAA-TATATAAATTT
1 ATTTATAATAAAAAAATTATATAAATTT
* *
46317 ATTT-TTATAAAAAAATTGTATAAATTT
1 ATTTATAATAAAAAAATTATATAAATTT
*
46344 TTTTA
1 ATTTA
46349 ATTTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTTATAATAAAAAAATTATATAAATTT
Found at i:46556 original size:23 final size:24
Alignment explanation
Indices: 46529--46574 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
46519 ATCTACTTTA
*
46529 AAATTGTTAA-AAAAATATTAAAG
1 AAATTATTAAGAAAAATATTAAAG
*
46552 AAATTATTAAGAAAAGTATTAAA
1 AAATTATTAAGAAAAATATTAAA
46575 AATACCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATTATTAAGAAAAATATTAAAG
Found at i:49426 original size:19 final size:20
Alignment explanation
Indices: 49402--49452 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
49392 TTACAAAAAG
49402 AAATTCAAAATAATTTT-T-A
1 AAATTCAAAAT-ATTTTATAA
49421 AAATTCAAAATATTTTATAA
1 AAATTCAAAATATTTTATAA
49441 AAATTTCAAAAT
1 AAA-TTCAAAAT
49453 TTATATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 4 0.14
21 8 0.28
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTCAAAATATTTTATAA
Found at i:49459 original size:20 final size:20
Alignment explanation
Indices: 49402--49459 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
49392 TTACAAAAAG
*
49402 AAATTCAAAATAATT-T-TTA
1 AAATTCAAAAT-ATTATATAA
*
49421 AAATTCAAAATATTTTATAA
1 AAATTCAAAATATTATATAA
49441 AAATTTCAAAAT-TTATATA
1 AAA-TTCAAAATATTATATA
49460 TCTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 11 0.32
21 8 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTCAAAATATTATATAA
Found at i:53369 original size:4 final size:4
Alignment explanation
Indices: 53360--53391 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
53350 TTGCTAGCTC
53360 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
53392 ATATTCTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:62048 original size:20 final size:20
Alignment explanation
Indices: 62023--62061 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62013 ATGTGATTTT
62023 AAATTAGAA-AAAAATAATTA
1 AAATTA-AATAAAAATAATTA
*
62043 AAATTAAATATAAATAATT
1 AAATTAAATAAAAATAATT
62062 TTTAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATTAAATAAAAATAATTA
Found at i:81966 original size:23 final size:22
Alignment explanation
Indices: 81914--81966 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
81904 TCCACGTCTT
*
81914 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
81936 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
81959 TTTCTTTT
1 TTTCTTTT
81967 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:85362 original size:4 final size:4
Alignment explanation
Indices: 85353--85381 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
85343 AGAAAAGGTA
85353 TAGC TAGC TAGC TAGC TAGC TAGC TAGC T
1 TAGC TAGC TAGC TAGC TAGC TAGC TAGC T
85382 CTAAAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (4 bp):
TAGC
Found at i:89131 original size:5 final size:5
Alignment explanation
Indices: 89121--89158 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
89111 AAACAACTCT
89121 TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TTGGTC TT
1 TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TT-GTC TT
89159 TAAGTAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.18, G:0.21, T:0.61
Consensus pattern (5 bp):
TTGTC
Found at i:107560 original size:69 final size:69
Alignment explanation
Indices: 107436--107683 Score: 257
Period size: 69 Copynumber: 3.6 Consensus size: 69
107426 AGGGGTACCT
** ** *
107436 GGAACAGAATCAGCAAAAATAGACGAGGT-TTGCCCCTTGAACAACTTATCC-GCATAGACAGGA
1 GGAACAGAATCAGCAAAAATAGACGAACTCTT-CCCCTTGAACATGTTA-CCTGCATAGGCAGGA
*
107499 GAGCTT
64 GAGCTA
* * * * * * * *
107505 GGAATAGATTCTGCAAATATGGCCGAATTCTTCCCCTTGAACATGTTACCTGCATAGGCAGGAGT
1 GGAACAGAATCAGCAAAAATAGACGAACTCTTCCCCTTGAACATGTTACCTGCATAGGCAGGAGA
107570 GCTA
66 GCTA
* * * *
107574 GGAACAGAATCAGCAAAAATAGATGAGCTCTTTCCCTTGAACATGTTATCTGCATAGGCAGGAGA
1 GGAACAGAATCAGCAAAAATAGACGAACTCTTCCCCTTGAACATGTTACCTGCATAGGCAGGAGA
**
107639 ATTA
66 GCTA
* * *
107643 GGAACAGAATCTGCAAAAATAGATGAGCTCTTCCCCTTGAA
1 GGAACAGAATCAGCAAAAATAGACGAACTCTTCCCCTTGAA
107684 GACTTTGTTT
Statistics
Matches: 148, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
68 2 0.01
69 144 0.97
70 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (69 bp):
GGAACAGAATCAGCAAAAATAGACGAACTCTTCCCCTTGAACATGTTACCTGCATAGGCAGGAGA
GCTA
Found at i:113696 original size:4 final size:4
Alignment explanation
Indices: 113687--113713 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
113677 CCTACTATTA
113687 TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT
113714 ATGGATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:116599 original size:6 final size:6
Alignment explanation
Indices: 116590--116638 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
116580 GAAGGCGAGT
* *
116590 GTGAGG GTGAGG GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG
1 GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG GTGAAG
116638 G
1 G
116639 AGGAGATGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.55, T:0.16
Consensus pattern (6 bp):
GTGAAG
Found at i:116648 original size:18 final size:18
Alignment explanation
Indices: 116604--116649 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
116594 GGGTGAGGGT
* *
116604 GAAGGTGAAGGTGAAGGT
1 GAAGATGAAGGTGAAGGA
*
116622 GAAGGTGAAGGTGAAGGA
1 GAAGATGAAGGTGAAGGA
*
116640 GGAGATGAAG
1 GAAGATGAAG
116650 AGGAAGAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.50, T:0.13
Consensus pattern (18 bp):
GAAGATGAAGGTGAAGGA
Found at i:129238 original size:4 final size:4
Alignment explanation
Indices: 129229--129285 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
129219 CCCCATTCGT
129229 TTTC TTTC -TTC TTTC TTTC -TTC -TTC -TTC -TTC -TTC TTT- TATTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC
129271 TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTT
129286 TTTATTTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 19 0.39
4 29 0.59
5 1 0.02
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:129259 original size:20 final size:20
Alignment explanation
Indices: 129234--129291 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
129224 TTCGTTTTCT
*
129234 TTCTTCTTTCTTTCTTCTTC
1 TTCTTCTTTCTTTCTTATTC
129254 TTCTTC-TTC-TT-TTATTC
1 TTCTTCTTTCTTTCTTATTC
*
129271 TTTCTTTCTTTCTTTTTTATT
1 -TTC-TTCTTTCTTTCTTATT
129292 TTATTTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 6 0.19
20 9 0.28
21 2 0.06
22 5 0.16
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTCTTTCTTTCTTATTC
Found at i:134774 original size:246 final size:250
Alignment explanation
Indices: 134336--134833 Score: 959
Period size: 246 Copynumber: 2.0 Consensus size: 250
134326 GGAACAGTCA
134336 ACACGCACATGATGTCAGTGGGGACTCTTCCTTTGAATTTATTCTTCATTTCTTCCCCCTTTACT
1 ACACGCACATGATGTCAGTGGGGACTCTTCCTTTGAATTTATTCTTCATTTCTTCCCCCTTTACT
134401 TGCGCTTTTACCTACTTTTCTCGTGGTAAAAACAGGAAACCTATCCCCCTTCAAATCAATTATTT
66 TGCGCTTTTACCTACTTTTCTCGTGGTAAAAACAGGAAACCTATCCCCCTTCAAATCAATTATTT
134466 GCTGACCTTACTTTTCTAAGTTGGAATATTTAGTATTTAGGTGATGTTAACTGTTGTTCTTTGTA
131 GCTGACCTTACTTTTCTAAGTTGGAATATTTAGTATTTAGGTGATGTTAACTGTTGTTCTTTGTA
134531 TCAGCCCAATTTAAGAAATGTCAATACCATATTAAACTCCAACAGACCATGTCTC
196 TCAGCCCAATTTAAGAAATGTCAATACCATATTAAACTCCAACAGACCATGTCTC
134586 ACACGCACATGATGTCAGTGGGGACTCTTCCTTTGAATTTATTCTTC-TTTCTT-CCCCTTTACT
1 ACACGCACATGATGTCAGTGGGGACTCTTCCTTTGAATTTATTCTTCATTTCTTCCCCCTTTACT
*
134649 TGCGCTTTTACCTACTTTT-TCGTGGTAAAAACAGGAAACTTAT-CCCCTTCAAATCAATTATTT
66 TGCGCTTTTACCTACTTTTCTCGTGGTAAAAACAGGAAACCTATCCCCCTTCAAATCAATTATTT
134712 GCTGACCTTACTTTTCTAAGTTGGAATATTTAGTATTTAGGTGATGTTAACTGTTGTTCTTTGTA
131 GCTGACCTTACTTTTCTAAGTTGGAATATTTAGTATTTAGGTGATGTTAACTGTTGTTCTTTGTA
134777 TCAGCCCAATTTAAGAAATGTCAATACCATATTAAACTCCAACAGACCATGTCTC
196 TCAGCCCAATTTAAGAAATGTCAATACCATATTAAACTCCAACAGACCATGTCTC
134832 AC
1 AC
134834 CCCTTCATTT
Statistics
Matches: 247, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
246 142 0.57
247 23 0.09
248 29 0.12
249 6 0.02
250 47 0.19
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (250 bp):
ACACGCACATGATGTCAGTGGGGACTCTTCCTTTGAATTTATTCTTCATTTCTTCCCCCTTTACT
TGCGCTTTTACCTACTTTTCTCGTGGTAAAAACAGGAAACCTATCCCCCTTCAAATCAATTATTT
GCTGACCTTACTTTTCTAAGTTGGAATATTTAGTATTTAGGTGATGTTAACTGTTGTTCTTTGTA
TCAGCCCAATTTAAGAAATGTCAATACCATATTAAACTCCAACAGACCATGTCTC
Found at i:134880 original size:23 final size:23
Alignment explanation
Indices: 134848--134896 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
134838 TCATTTTACG
* *
134848 AAAAAAATAATTTTTATAATAAT
1 AAAAAAATAAATTTTAAAATAAT
* *
134871 AAAAATATAAATTTTAAAATATT
1 AAAAAAATAAATTTTAAAATAAT
134894 AAA
1 AAA
134897 TTAAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAAAATAAATTTTAAAATAAT
Found at i:134888 original size:15 final size:15
Alignment explanation
Indices: 134872--134907 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
134862 TATAATAATA
134872 AAAATA-TAAATTTT
1 AAAATATTAAATTTT
134886 AAAATATTAAA--TT
1 AAAATATTAAATTTT
134899 AAAATATTA
1 AAAATATTA
134908 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.52
14 6 0.29
15 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATATTAAATTTT
Found at i:150865 original size:5 final size:5
Alignment explanation
Indices: 150857--150882 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
150847 TGAAATATTC
150857 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
150883 GTTGGGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:154274 original size:75 final size:75
Alignment explanation
Indices: 154151--154297 Score: 294
Period size: 75 Copynumber: 2.0 Consensus size: 75
154141 GGAATATCAT
154151 GTATTGTAGAATTCATTCATTTTATTTGTCAAGAGACAAAAGTGATAAAATTTGATGTGTTTTTT
1 GTATTGTAGAATTCATTCATTTTATTTGTCAAGAGACAAAAGTGATAAAATTTGATGTGTTTTTT
154216 TTTTTTTACC
66 TTTTTTTACC
154226 GTATTGTAGAATTCATTCATTTTATTTGTCAAGAGACAAAAGTGATAAAATTTGATGTGTTTTTT
1 GTATTGTAGAATTCATTCATTTTATTTGTCAAGAGACAAAAGTGATAAAATTTGATGTGTTTTTT
154291 TTTTTTT
66 TTTTTTT
154298 TTTTTACTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (75 bp):
GTATTGTAGAATTCATTCATTTTATTTGTCAAGAGACAAAAGTGATAAAATTTGATGTGTTTTTT
TTTTTTTACC
Found at i:155135 original size:3 final size:3
Alignment explanation
Indices: 155127--155156 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
155117 ATGCTTTTAC
155127 ATT ATT ATT ATT ATT ATT ATT ATT AATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT
155157 ACAGTCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:166717 original size:17 final size:17
Alignment explanation
Indices: 166695--166730 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
166685 GGAAGTCAGT
166695 TTCCATATTGAATACCA
1 TTCCATATTGAATACCA
166712 TTCCATATTGAATACCA
1 TTCCATATTGAATACCA
166729 TT
1 TT
166731 GTAGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (17 bp):
TTCCATATTGAATACCA
Found at i:172432 original size:13 final size:13
Alignment explanation
Indices: 172414--172438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
172404 ATAAGTAAGT
172414 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
172427 AAAAAAAAAAAA
1 AAAAAAAAAAAA
172439 AACCCACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:181936 original size:26 final size:28
Alignment explanation
Indices: 181897--181948 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
181887 CAATATAGGC
*
181897 TTTTACAATATTATCATAA-TTTTTTCA
1 TTTTACAATATTATAATAACTTTTTTCA
*
181924 TTTTATAA-ATTATAATAACTTTTTT
1 TTTTACAATATTATAATAACTTTTTT
181949 TTTACCGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTACAATATTATAATAACTTTTTTCA
Found at i:199527 original size:25 final size:25
Alignment explanation
Indices: 199489--199550 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
199479 TAATTTCTCC
*
199489 TTTCTTTC--TTTC-CCCT-TTTCT
1 TTTCTTTCTTTTTCTCCCTGTTTCG
199510 TTTCTTTCTTTTTCTCCCTGTTTCG
1 TTTCTTTCTTTTTCTCCCTGTTTCG
*
199535 TTTCTATTCTATTTCT
1 TTTCT-TTCTTTTTCT
199551 TTTATTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.24
23 4 0.12
24 4 0.12
25 9 0.26
26 9 0.26
ACGTcount: A:0.03, C:0.27, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTCTTTCTTTTTCTCCCTGTTTCG
Found at i:201788 original size:29 final size:30
Alignment explanation
Indices: 201745--201807 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
201735 TTCAAGACTC
* *
201745 AAATTTCATAATTCAAAAAA-A-AAGTACT
1 AAATTTAATAATTCAAAAAATATAAGAACT
201773 AAATTTAATCAATTCAAAAAATATAAGAACT
1 AAATTTAAT-AATTCAAAAAATATAAGAACT
201804 AAAT
1 AAAT
201808 CCGCAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 8 0.27
29 11 0.37
30 1 0.03
31 10 0.33
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATTTAATAATTCAAAAAATATAAGAACT
Found at i:210390 original size:7 final size:7
Alignment explanation
Indices: 210378--210407 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
210368 TTGCCTTGCT
210378 TCAGGTC
1 TCAGGTC
210385 TCAGGTC
1 TCAGGTC
210392 TCAGGTC
1 TCAGGTC
210399 TCAGGTC
1 TCAGGTC
210406 TC
1 TC
210408 GAGACATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (7 bp):
TCAGGTC
Found at i:215753 original size:17 final size:17
Alignment explanation
Indices: 215731--215769 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
215721 ACTTTCATAA
215731 TATTATTCGT-ATAACAT
1 TATTATTC-TAATAACAT
215748 TATTATTCTAATAACAT
1 TATTATTCTAATAACAT
215765 T-TTAT
1 TATTAT
215770 CGTTTTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTATTCTAATAACAT
Found at i:215815 original size:12 final size:12
Alignment explanation
Indices: 215798--215822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
215788 CAGGATAGTG
215798 AAAATTATGAAC
1 AAAATTATGAAC
215810 AAAATTATGAAC
1 AAAATTATGAAC
215822 A
1 A
215823 GTTTCAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTATGAAC
Found at i:217073 original size:10 final size:10
Alignment explanation
Indices: 217058--217091 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
217048 TAAATTTTAG
217058 TTTTTTTATT
1 TTTTTTTATT
217068 TTTTTTTATT
1 TTTTTTTATT
217078 TTTTCTTATATT
1 TTTT-TT-TATT
217090 TT
1 TT
217092 GATCCTATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 2 0.09
12 6 0.27
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:217086 original size:20 final size:20
Alignment explanation
Indices: 217052--217091 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
217042 AAATTATAAA
217052 TTTTAGTTTTTTTAT-TTTT
1 TTTTAGTTTTTTTATATTTT
*
217071 TTTTATTTTTTCTTATATTTT
1 TTTTAGTTTTT-TTATATTTT
217092 GATCCTATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTAGTTTTTTTATATTTT
Found at i:217687 original size:7 final size:7
Alignment explanation
Indices: 217675--217748 Score: 51
Period size: 7 Copynumber: 9.9 Consensus size: 7
217665 TACCCTTGAC
217675 ACCCTAA
1 ACCCTAA
217682 ACCCTAA
1 ACCCTAA
217689 ATCCCTAA
1 A-CCCTAA
*
217697 CCCCT-A
1 ACCCTAA
217703 ACCCTTAA
1 ACCC-TAA
217711 ATCCCCCTAA
1 A---CCCTAA
*
217721 CCCCTAA
1 ACCCTAA
217728 ATCCCTAA
1 A-CCCTAA
*
217736 TCCCTAA
1 ACCCTAA
*
217743 CCCCTA
1 ACCCTA
217749 CCCCCTACTC
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
6 4 0.07
7 30 0.56
8 14 0.26
10 3 0.06
11 3 0.06
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:217696 original size:15 final size:15
Alignment explanation
Indices: 217675--217742 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
217665 TACCCTTGAC
217675 ACCCTAAA-CCCTAA
1 ACCCTAAATCCCTAA
*
217689 ATCCCT-AACCCCT-A
1 A-CCCTAAATCCCTAA
217703 ACCCTTAAATCCCCCTAA
1 ACCC-TAAAT--CCCTAA
*
217721 CCCCTAAATCCCTAA
1 ACCCTAAATCCCTAA
*
217736 TCCCTAA
1 ACCCTAA
217743 CCCCTACCCC
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 3 0.07
14 6 0.14
15 22 0.50
17 9 0.20
18 4 0.09
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.21
Consensus pattern (15 bp):
ACCCTAAATCCCTAA
Found at i:217719 original size:17 final size:17
Alignment explanation
Indices: 217697--217732 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
217687 AAATCCCTAA
*
217697 CCCCTAACCCTTAAATC
1 CCCCTAACCCCTAAATC
217714 CCCCTAACCCCTAAATC
1 CCCCTAACCCCTAAATC
217731 CC
1 CC
217733 TAATCCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.53, G:0.00, T:0.19
Consensus pattern (17 bp):
CCCCTAACCCCTAAATC
Found at i:223853 original size:30 final size:30
Alignment explanation
Indices: 223819--223881 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
223809 ACTTAACAAC
223819 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
* * *
223849 CAAATGTTTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
223879 CAA
1 CAA
223882 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:234393 original size:29 final size:29
Alignment explanation
Indices: 234331--234401 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
234321 AAAAATAAAA
234331 ATTTACCAAAATA-TTACAACTTTTTTTT
1 ATTTACCAAAATATTTACAACTTTTTTTT
234359 ATTTACCAAAATATTTA-AACTTTTTTATT
1 ATTTACCAAAATATTTACAACTTTTTT-TT
234388 ATTTACCAAAATAT
1 ATTTACCAAAATAT
234402 ATCAAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTACCAAAATATTTACAACTTTTTTTT
Found at i:234439 original size:17 final size:16
Alignment explanation
Indices: 234408--234438 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
234398 ATATATCAAA
234408 AAAACCAAAAAAAAAC
1 AAAACCAAAAAAAAAC
234424 AAAACCAAAAAAAAA
1 AAAACCAAAAAAAAA
234439 ATCTGACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACCAAAAAAAAAC
Found at i:234537 original size:27 final size:27
Alignment explanation
Indices: 234469--234539 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
234459 CCCCAATGGT
* *
234469 ATTGGCGGCACCAAAGGTGCCAAAATC
1 ATTGGCGGCACCAATGGTGCCAAAACC
*
234496 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
234523 ATTGGCGGCACCAATGG
1 ATTGGCGGCACCAATGG
234540 GTTTTATGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAACC
Found at i:234606 original size:18 final size:19
Alignment explanation
Indices: 234579--234727 Score: 112
Period size: 20 Copynumber: 7.6 Consensus size: 19
234569 AGAAGAGAAA
234579 AAAGGA-AAGAAAGAAAGG
1 AAAGGAGAAGAAAGAAAGG
*
234597 AGAGGGAAGAAAGAAAGAAAGG
1 A-AAGG-AG-AAGAAAGAAAGG
*
234619 AGAGGA-AAGAAAGAAAAGG
1 AAAGGAGAAGAAAG-AAAGG
*
234638 AAAGGAGAAGAGAAAAAAGG
1 AAAGGAGAAGA-AAGAAAGG
*
234658 AAAGAAAGAAG-AAGAAAAGG
1 AAAG-GAGAAGAAAG-AAAGG
234678 AGAA-GAGAAGAAA-AAA-G
1 A-AAGGAGAAGAAAGAAAGG
*
234695 AAAGAAAGAAGGAAAGAAAGGG
1 AAAG-GAGAA-GAAAGAAA-GG
234717 AAAGGAGAAGA
1 AAAGGAGAAGA
234728 GAAAAAAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 15 0.14
19 24 0.23
20 28 0.27
21 15 0.14
22 18 0.17
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
AAAGGAGAAGAAAGAAAGG
Found at i:234608 original size:22 final size:22
Alignment explanation
Indices: 234583--234665 Score: 103
Period size: 22 Copynumber: 3.6 Consensus size: 22
234573 GAGAAAAAAG
234583 GAAAGAAAGAAAGGAGAGGGAA
1 GAAAGAAAGAAAGGAGAGGGAA
*
234605 GAAAGAAAGAAAGGAGAGGAAA
1 GAAAGAAAGAAAGGAGAGGGAA
*
234627 GAAAGAAAAGGAAAGGAGAAGAGAA
1 GAAAG-AAA-GAAAGGAG-AGGGAA
*
234652 AAAAGGAAAGAAAG
1 GAAA-GAAAGAAAG
234666 AAGAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
22 26 0.49
23 3 0.06
24 13 0.25
25 10 0.19
26 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (22 bp):
GAAAGAAAGAAAGGAGAGGGAA
Found at i:234626 original size:14 final size:14
Alignment explanation
Indices: 234578--234714 Score: 85
Period size: 12 Copynumber: 10.0 Consensus size: 14
234568 CAGAAGAGAA
234578 AAAAGGAAAGAAAG
1 AAAAGGAAAGAAAG
* *
234592 -AAAGGAGAGGGAAG
1 AAAAGGA-AAGAAAG
234606 -AAA-GAAAGAAAG
1 AAAAGGAAAGAAAG
* *
234618 GAGAGGAAAGAAAG
1 AAAAGGAAAGAAAG
*
234632 AAAAGGAAAG-GAG
1 AAAAGGAAAGAAAG
*
234645 AAGA-GAAA-AAAG
1 AAAAGGAAAGAAAG
*
234657 GAAA-GAAAGAAGAAG
1 AAAAGGAAAG-A-AAG
234672 AAAAGGAGAAGAGAAG
1 AAAAGGA-AAGA-AAG
*
234688 AAAAAAGAAAGAAAG
1 -AAAAGGAAAGAAAG
234703 --AAGGAAAGAAAG
1 AAAAGGAAAGAAAG
234715 GGAAAGGAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
12 28 0.29
13 15 0.15
14 26 0.27
15 9 0.09
16 11 0.11
17 9 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAGAAAG
Found at i:234746 original size:79 final size:80
Alignment explanation
Indices: 234569--234748 Score: 229
Period size: 79 Copynumber: 2.4 Consensus size: 80
234559 GTGGTGGGGC
* *
234569 AGAAGAGAAAAAAG---GAAAG-A-AAG-AAAGGAGAGGGAAGAAAGAAAGAAAGGAGAGGAAAG
1 AGAAGAGAAAAAAGAAAGAAAGAAGAAGAAAAGGAGAGAGAAGAAAGAAAGAAAGGAGAAGAAAG
234628 AAAGAAAAGGAAAGG
66 AAAGAAAAGGAAAGG
234643 AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAA-AAAGAAA-GA-AAGAA
1 AGAAGAGAAAAAA-GAAAGAAAGAAGAAGAAAAGGAG-AGAGAAGAAAGAAAGAAAGGAGAAGAA
* *
234705 GGAAAGAAAGGGAAAGG
64 AGAAAGAAAAGGAAAGG
234722 AGAAGAGAAAAAA-AAAG-AAGAAGAAGA
1 AGAAGAGAAAAAAGAAAGAAAGAAGAAGA
234749 GGGAAGAAAG
Statistics
Matches: 94, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
74 13 0.14
75 1 0.01
76 10 0.11
77 4 0.04
78 5 0.05
79 33 0.35
80 5 0.05
81 14 0.15
82 9 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (80 bp):
AGAAGAGAAAAAAGAAAGAAAGAAGAAGAAAAGGAGAGAGAAGAAAGAAAGAAAGGAGAAGAAAG
AAAGAAAAGGAAAGG
Found at i:234759 original size:44 final size:44
Alignment explanation
Indices: 234569--234747 Score: 152
Period size: 44 Copynumber: 4.3 Consensus size: 44
234559 GTGGTGGGGC
* * *
234569 AGAAGAGAAAAAAGGAAAGAAA--GAAAGGAG-AGGGAAGAAAGAA
1 AGAA-AGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAAAAA
* * *
234612 AGAAAGGAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAG--AAAAAA
1 AGAAA-GA-AAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
* *
234656 GGAAAGAAAGAA-G-AAG--A---AAAGGAGAAGAGAAGAAAAA
1 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
234693 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
1 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
234737 AG-AAG-AAGAAG
1 AGAAAGAAAGAAG
234748 AGGGAAGAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
35 12 0.11
37 16 0.14
38 2 0.02
39 3 0.03
40 3 0.03
41 2 0.02
42 11 0.10
43 11 0.10
44 41 0.37
46 8 0.07
47 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (44 bp):
AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
Found at i:234767 original size:34 final size:34
Alignment explanation
Indices: 234624--234769 Score: 131
Period size: 34 Copynumber: 4.1 Consensus size: 34
234614 AAAGGAGAGG
**
234624 AAAGAAAGAA-AAGGAAAGGAGAAGAGAA-AAAAGG
1 AAAGAAAGAAGAA-GAAAGG-GAAGAGAAGAAAAAA
234658 AAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAA
1 AAAGAAAGAAGAAG-AAAGG-GAAGAGAAGAAAAAA
*
234694 GAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAG-AGAAA
1 -AAAGAAAGAA-G-AAGAAAGGG-AA-GAGAAGAAAAAA
234732 AAA-AAAGAAGAAGAAGAGGGAAGA-AAGGAAAAAA
1 AAAGAAAGAAGAAGAA-AGGGAAGAGAA-GAAAAAA
234766 AAAG
1 AAAG
234770 GGAAAAAAAG
Statistics
Matches: 96, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
32 2 0.02
33 3 0.03
34 25 0.26
35 21 0.22
36 10 0.10
37 14 0.15
38 12 0.12
39 9 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (34 bp):
AAAGAAAGAAGAAGAAAGGGAAGAGAAGAAAAAA
Found at i:234868 original size:33 final size:35
Alignment explanation
Indices: 234831--234920 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 35
234821 GTGTTTAAAA
*
234831 TTTATGTA-ATGTATA-TTATAGTTATTTTATTAT
1 TTTATGTACATATATATTTATAGTTATTTTATTAT
*
234864 TTTATTTAGCATATATATTTTATAGTTATTTTATTAT
1 TTTATGTA-CATATATA-TTTATAGTTATTTTATTAT
*
234901 TTTATTTAGCATATATATTT
1 TTTATGTA-CATATATATTT
234921 TATGAAATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.14
35 6 0.12
36 3 0.06
37 35 0.69
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (35 bp):
TTTATGTACATATATATTTATAGTTATTTTATTAT
Found at i:234871 original size:37 final size:37
Alignment explanation
Indices: 234842--234923 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
234832 TTATGTAATG
234842 TATATTATAGTTATTTTATTATTTTATTTAGCATATA
1 TATATTATAGTTATTTTATTATTTTATTTAGCATATA
*
234879 TATTTTATAGTTATTTTATTATTTTATTTAGCATATA
1 TATATTATAGTTATTTTATTATTTTATTTAGCATATA
*
234916 TATTTTAT
1 TATATTAT
234924 GAAATATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (37 bp):
TATATTATAGTTATTTTATTATTTTATTTAGCATATA
Found at i:234884 original size:18 final size:18
Alignment explanation
Indices: 234861--234923 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
234851 GTTATTTTAT
234861 TATTTTATTTAGCATATA
1 TATTTTATTTAGCATATA
***
234879 TATTTTATAGTTATTTTAT-
1 TATTTTAT--TTAGCATATA
234898 TATTTTATTTAGCATATA
1 TATTTTATTTAGCATATA
234916 TATTTTAT
1 TATTTTAT
234924 GAAATATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.17
18 16 0.44
19 8 0.22
20 6 0.17
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTTTATTTAGCATATA
Found at i:235452 original size:11 final size:11
Alignment explanation
Indices: 235438--235473 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
235428 TTCGGGTTAT
235438 TTACCAAAATA
1 TTACCAAAATA
* *
235449 TTACAAAAAAA
1 TTACCAAAATA
235460 TTACCAAAATA
1 TTACCAAAATA
235471 TTA
1 TTA
235474 TAAAGTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (11 bp):
TTACCAAAATA
Found at i:241126 original size:26 final size:26
Alignment explanation
Indices: 241077--241129 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
241067 ACACACTAAA
* *
241077 ATTATTAATTTTATACTACGAATAAT
1 ATTAATAATTTTATACTACAAATAAT
241103 ATTAATAATTTTATACT-CAAAATAAT
1 ATTAATAATTTTATACTAC-AAATAAT
241129 A
1 A
241130 CACACTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAATAATTTTATACTACAAATAAT
Found at i:241323 original size:3 final size:3
Alignment explanation
Indices: 241315--241355 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
241305 TCTTCATACT
241315 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
241356 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:241838 original size:10 final size:10
Alignment explanation
Indices: 241795--241842 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
241785 AAAAATACAT
241795 AATTTAAAAA
1 AATTTAAAAA
* *
241805 AACTTAAAAT
1 AATTTAAAAA
* **
241815 AATATAAACT
1 AATTTAAAAA
241825 AATTTAAAAA
1 AATTTAAAAA
241835 AATTTAAA
1 AATTTAAA
241843 TCCAACATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (10 bp):
AATTTAAAAA
Found at i:244893 original size:8 final size:8
Alignment explanation
Indices: 244882--244911 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
244872 TTCTTTGCAT
*
244882 TTTTGTTA
1 TTTTATTA
244890 TTTTATTA
1 TTTTATTA
244898 TTTTATTA
1 TTTTATTA
244906 TTTTAT
1 TTTTAT
244912 AGACGTGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:250741 original size:18 final size:17
Alignment explanation
Indices: 250720--250763 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
250710 TTAGGGTTTG
**
250720 TTTTTTATTTATTTTATA
1 TTTTTTATAAATTTTA-A
*
250738 TTTTTTAAAAATTTTAA
1 TTTTTTATAAATTTTAA
250755 TTTTTTATA
1 TTTTTTATA
250764 TTTGAACTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTATAAATTTTAA
Found at i:260618 original size:11 final size:12
Alignment explanation
Indices: 260587--260617 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
260577 ACAATTTATC
260587 TTATTTTTGTAA
1 TTATTTTTGTAA
260599 TTATTTTTGTAA
1 TTATTTTTGTAA
260611 TTATTTT
1 TTATTTT
260618 GATTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TTATTTTTGTAA
Found at i:266646 original size:72 final size:72
Alignment explanation
Indices: 266563--266708 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
266553 CTGCAAGCAA
266563 GTAATGTTCTTGATTTGTCTTGTTTGATCATTATGTGGAAAATAAGGGCTTGACTGATGTTTGTG
1 GTAATGTTCTTGATTTGTCTTGTTTGATCATTATGTGGAAAATAAGGGCTTGACTGATGTTTGTG
266628 AAGAATT
66 AAGAATT
266635 GTAATGTTCTTGATTTGTCTTGTTTGATCATTATGTGGAAAATAAGGGCTTGACTGATGTTTGTG
1 GTAATGTTCTTGATTTGTCTTGTTTGATCATTATGTGGAAAATAAGGGCTTGACTGATGTTTGTG
266700 AAGAATT
66 AAGAATT
266707 GT
1 GT
266709 CTTATCACAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (72 bp):
GTAATGTTCTTGATTTGTCTTGTTTGATCATTATGTGGAAAATAAGGGCTTGACTGATGTTTGTG
AAGAATT
Found at i:269606 original size:28 final size:28
Alignment explanation
Indices: 269574--269637 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
269564 GAAATTTTTT
269574 TAAATTTTCCATAATTTTTTA-AAATA-TA
1 TAAATTTT-CA-AATTTTTTATAAATATTA
* *
269602 TAAATTTTGAAATTTTTTATAAATATTT
1 TAAATTTTCAAATTTTTTATAAATATTA
269630 TAAATTTT
1 TAAATTTT
269638 TAAAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.28
27 6 0.19
28 17 0.53
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (28 bp):
TAAATTTTCAAATTTTTTATAAATATTA
Found at i:269626 original size:27 final size:27
Alignment explanation
Indices: 269586--269637 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
269576 AATTTTCCAT
269586 AATTTTTTAAAATA-TATAAATTTTGA
1 AATTTTTTAAAATATTATAAATTTTGA
*
269612 AATTTTTTATAAATATTTTAAATTTT
1 AATTTTTTA-AAATATTATAAATTTT
269638 TAAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 5 0.22
28 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AATTTTTTAAAATATTATAAATTTTGA
Found at i:269636 original size:20 final size:20
Alignment explanation
Indices: 269600--269659 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
269590 TTTTAAAATA
*
269600 TATAAAT-TTTGAAATTTTT
1 TATAAATATTTTAAATTTTT
269619 TATAAATATTTTAAA-TTTT
1 TATAAATATTTTAAATTTTT
*
269638 TAAAAATTATTTTAAATTTTT
1 TATAAA-TATTTTAAATTTTT
269659 T
1 T
269660 TAATAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.44
20 15 0.42
21 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATAAATATTTTAAATTTTT
Found at i:270288 original size:18 final size:18
Alignment explanation
Indices: 270261--270353 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
270251 TACGACCGTT
*
270261 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
* *
270279 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
** *
270297 TATAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
270315 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
270333 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
270351 TAC
1 TAC
270354 AGTAGTTGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:277721 original size:24 final size:25
Alignment explanation
Indices: 277694--277752 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
277684 TATTGTTTTT
277694 TATTTTAAAAAATAATG-AG-CAATA
1 TATTTTAAAAAAT-ATGTAGTCAATA
*
277718 TATTTTATAAAATATGTAGTTCAATA
1 TATTTTAAAAAATATGTAG-TCAATA
277744 TATTTTAAA
1 TATTTTAAA
277753 TTAGTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 14 0.47
26 13 0.43
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (25 bp):
TATTTTAAAAAATATGTAGTCAATA
Found at i:279864 original size:162 final size:162
Alignment explanation
Indices: 279555--279867 Score: 388
Period size: 162 Copynumber: 1.9 Consensus size: 162
279545 ACCACTTTCT
*
279555 TTTTGGAAGTCAAAACACAACATCACTGAAACCGAGCATTTGTTACAACTGCAACACCTATGGTC
1 TTTTGGAAGTCAAAACACAACATCACTGAAACCGAGCATTTGTTACAAATGCAACACCTATGGTC
*
279620 CCTTTTCTCTTTTGACCAAATCCTTAGTGAATTCTTAGAAATTAGAAATGACAATAATAATCAAT
66 CC--TTCTCTTTTGACCAAATCCTTAGTGAATTCTTAGAAATTAGAAATGAAAATAATAATCAAT
** *
279685 GAGTGTATCTTAAAGTGCATTGTTAGAACTTTTA
129 GAACGTATCTCAAAGTGCATTGTTAGAACTTTTA
279719 TTTTGGAAGTCACAACACAACAACATCACTGAAACCTG-GCATTTGTTACAAATGCAA-ATCC-A
1 TTTTGGAAGTCA-AA-AC-ACAACATCACTGAAACC-GAGCATTTGTTACAAATGCAACA-CCTA
* ** * *
279781 CTGGTCCC-T-T-TTTTGGCCAAATCCTTAGTGAATTCTTAGAGCTTTGACGA-GAAAATAATAA
61 -TGGTCCCTTCTCTTTTGACCAAATCCTTAGTGAATTCTTAGAAATTAGA-AATGAAAATAATAA
**
279842 TCGGTGAACGTATCTCAAAGTGCATT
124 TCAATGAACGTATCTCAAAGTGCATT
279868 ATTTCTTGAC
Statistics
Matches: 130, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
162 64 0.49
163 2 0.02
164 13 0.10
165 2 0.02
166 4 0.03
167 44 0.34
168 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (162 bp):
TTTTGGAAGTCAAAACACAACATCACTGAAACCGAGCATTTGTTACAAATGCAACACCTATGGTC
CCTTCTCTTTTGACCAAATCCTTAGTGAATTCTTAGAAATTAGAAATGAAAATAATAATCAATGA
ACGTATCTCAAAGTGCATTGTTAGAACTTTTA
Found at i:295654 original size:31 final size:31
Alignment explanation
Indices: 295619--295709 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
295609 ATTAAATCAA
295619 AATTAAAGGTTCAAGTATACATTTGAACCAC
1 AATTAAAGGTTCAAGTATACATTTGAACCAC
* * *
295650 AATT-AGGGTTTCATGT-TA-AATT--A--A-
1 AATTAAAGG-TTCAAGTATACATTTGAACCAC
295674 AATTAAAGGTTCAAGTATACATTTGAACCAC
1 AATTAAAGGTTCAAGTATACATTTGAACCAC
295705 AATTA
1 AATTA
295710 GGGTTTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
24 10 0.22
25 6 0.13
26 3 0.07
27 1 0.02
28 1 0.02
29 3 0.07
30 6 0.13
31 15 0.33
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (31 bp):
AATTAAAGGTTCAAGTATACATTTGAACCAC
Found at i:295694 original size:55 final size:55
Alignment explanation
Indices: 295610--295720 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
295600 ATGTATATGA
295610 TTAAATCAAAATTAAAGGTTCAAGTATACATTTGAACCACAATTAGGGTTTCATG
1 TTAAATCAAAATTAAAGGTTCAAGTATACATTTGAACCACAATTAGGGTTTCATG
*
295665 TTAAATTAAAATTAAAGGTTCAAGTATACATTTGAACCACAATTAGGGTTTCATG
1 TTAAATCAAAATTAAAGGTTCAAGTATACATTTGAACCACAATTAGGGTTTCATG
295720 T
1 T
295721 GTATAATTGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (55 bp):
TTAAATCAAAATTAAAGGTTCAAGTATACATTTGAACCACAATTAGGGTTTCATG
Found at i:295739 original size:30 final size:29
Alignment explanation
Indices: 295673--295783 Score: 87
Period size: 31 Copynumber: 3.7 Consensus size: 29
295663 TGTTAAATTA
* * * *
295673 AAATTAAAGGTTCAAGTATACATTTGAACC
1 AAATTAAA-GTTCATGTATACAATTGCACT
** * *
295703 ACAATTAGGGTTTCATGTGTATAATTGCACT
1 A-AATTAAAG-TTCATGTATACAATTGCACT
295734 AAATTAAAGTTCATGTATACAATTGCACATT
1 AAATTAAAGTTCATGTATACAATTGCAC--T
**
295765 AAATCGAAGTTCATGTATA
1 AAATTAAAGTTCATGTATA
295784 ATTTTGAGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
29 17 0.27
30 8 0.13
31 38 0.60
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATACAATTGCACT
Found at i:295748 original size:29 final size:30
Alignment explanation
Indices: 295714--295783 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
295704 CAATTAGGGT
* * *
295714 TTCATGTGTATAATTGCAC-TAAATTAAAG
1 TTCATGTATACAATTGCACATAAATCAAAG
*
295743 TTCATGTATACAATTGCACATTAAATCGAAG
1 TTCATGTATACAATTGCACA-TAAATCAAAG
295774 TTCATGTATA
1 TTCATGTATA
295784 ATTTTGAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.49
31 18 0.51
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (30 bp):
TTCATGTATACAATTGCACATAAATCAAAG
Found at i:295824 original size:8 final size:7
Alignment explanation
Indices: 295810--295858 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
295800 CAATAAAAAT
295810 ATATTAA
1 ATATTAA
295817 ATTATTAA
1 A-TATTAA
295825 ATATTAA
1 ATATTAA
295832 ATATTAA
1 ATATTAA
*
295839 A-ATAAA
1 ATATTAA
295845 ATAATATAA
1 AT-AT-TAA
295854 ATATT
1 ATATT
295859 TAGAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 5 0.14
7 16 0.44
8 11 0.31
9 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATTAA
Found at i:295830 original size:15 final size:15
Alignment explanation
Indices: 295810--295858 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
295800 CAATAAAAAT
295810 ATATTAAATTATTAA
1 ATATTAAATTATTAA
295825 ATATTAAA-TATTAA
1 ATATTAAATTATTAA
* *
295839 A-ATAAAATAATATAA
1 ATATTAAATTAT-TAA
295854 ATATT
1 ATATT
295859 TAGAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.18
14 9 0.32
15 12 0.43
16 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTAAATTATTAA
Found at i:311951 original size:38 final size:38
Alignment explanation
Indices: 311900--311976 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
311890 CCTGAATCCC
311900 GTCATTTGTTGAATAAATAAATACAGTGACAAAATAAG
1 GTCATTTGTTGAATAAATAAATACAGTGACAAAATAAG
*
311938 GTCATTTGTTGAATAAATAAATATAGTGACAAAATAAG
1 GTCATTTGTTGAATAAATAAATACAGTGACAAAATAAG
311976 G
1 G
311977 AGGTCTGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (38 bp):
GTCATTTGTTGAATAAATAAATACAGTGACAAAATAAG
Found at i:312394 original size:4 final size:4
Alignment explanation
Indices: 312385--312431 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
312375 ACACACGTGC
312385 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
312432 ACGACGCACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:317739 original size:16 final size:16
Alignment explanation
Indices: 317714--317747 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
317704 TGGTTCGCTA
317714 TATTGAATTAGAGGTG
1 TATTGAATTAGAGGTG
*
317730 TATTGGATTAGAGGTG
1 TATTGAATTAGAGGTG
317746 TA
1 TA
317748 ATAGTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (16 bp):
TATTGAATTAGAGGTG
Found at i:318000 original size:16 final size:16
Alignment explanation
Indices: 317963--318017 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
317953 TTAATCATAT
*
317963 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
317979 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
317994 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
318012 -TAAAAT
1 TTAAAAT
318018 GCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:318010 original size:18 final size:18
Alignment explanation
Indices: 317969--318017 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
317959 ATATTTAAAC
317969 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
317987 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
318003 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
318018 GCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:318175 original size:18 final size:18
Alignment explanation
Indices: 318116--318166 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
318106 TCATATTTAA
*
318116 ATATAATTATTATT-AAAT
1 ATATAATT-TAATTAAAAT
318134 ATAT--TTTAATTAAAAT
1 ATATAATTTAATTAAAAT
318150 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
318167 TTTATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 6 0.21
18 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:318202 original size:129 final size:135
Alignment explanation
Indices: 318063--318313 Score: 343
Period size: 136 Copynumber: 1.9 Consensus size: 135
318053 TTATTGTTAA
* * * *
318063 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAAT-A-AA-T-TCATATTTAAATATAATT
1 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAATAATTATCATATTTAAACAAAATT
* *
318124 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT-TT-ATAATTAGCAGAAATTA
66 ATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTA
318187 CATAT
131 CATAT
318192 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAA
1 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT-AATAA-TT-ATCATATTTAAACAAA
****
318257 ATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
63 ATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
318314 CATATTCTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
129 37 0.36
131 1 0.01
132 2 0.02
134 1 0.01
136 54 0.52
137 2 0.02
138 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (135 bp):
TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAATAATTATCATATTTAAACAAAATT
ATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTA
CATAT
Found at i:318218 original size:149 final size:153
Alignment explanation
Indices: 317870--318183 Score: 449
Period size: 156 Copynumber: 2.1 Consensus size: 153
317860 TAGAATACCC
* * * * * * *
317870 TTAGCATAAAATTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAAAAAGATTATTA
1 TTAGCAGAAAATTATATTGGTAGATGATAATTGTTAATGTTATTTAAATTTTAAAAAGATTATTA
317935 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATA--TT-ATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
318000 TATATAATTTAATAAAATGCTTATAA
128 TATATAATTTAATAAAATGCTTATAA
* * *
318026 TTAGCAGAAAATTATTTTGGTAGATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATATTGGTAGATGATAATTGTTAATGTTATTTAAATTTTAAAAAGATTATTA
* *
318091 TTATCAGTAAT-AA-A-T-TCATATTTAAATATAATTATTATTAAATATATTTTAATTAAAATAT
66 TTATCAGTAATAAATATTATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATAT
*
318152 ATAATTTAATAAAAT-TTTATAA
131 ATAATTTAATAAAATGCTTATAA
318174 TTAGCAGAAA
1 TTAGCAGAAA
318184 TTACATATTG
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
148 16 0.11
149 59 0.40
151 1 0.01
154 1 0.01
155 2 0.01
156 70 0.47
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (153 bp):
TTAGCAGAAAATTATATTGGTAGATGATAATTGTTAATGTTATTTAAATTTTAAAAAGATTATTA
TTATCAGTAATAAATATTATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATAT
ATAATTTAATAAAATGCTTATAA
Found at i:321443 original size:33 final size:33
Alignment explanation
Indices: 321404--321513 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
321394 ATTATAAAGC
321404 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
321437 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
321470 AATGT-T-ATTGTCCCTAAAA-AACATTGTTTGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
321503 ATGTATAATTG
1 ATGTATAATTG
321514 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 9 0.14
33 48 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:321520 original size:51 final size:51
Alignment explanation
Indices: 321460--321613 Score: 283
Period size: 51 Copynumber: 3.0 Consensus size: 51
321450 CTAAAATTAC
*
321460 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTTGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
321511 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
321562 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
321613 T
1 T
321614 CTTTTAATTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
50 1 0.01
51 100 0.99
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:321788 original size:86 final size:86
Alignment explanation
Indices: 321692--321868 Score: 327
Period size: 86 Copynumber: 2.1 Consensus size: 86
321682 CTCCACAAAA
*
321692 AATTATATCAACATTAATTCTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTATTAAC
1 AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTATTAAC
321757 ATTAAAGATAAAAATTATAAT
66 ATTAAAGATAAAAATTATAAT
* *
321778 AATTATATCAACATTAATACTTAACAAACAGGTTTCTTGTTTATTATTAATTTCAAATTATTAAT
1 AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTATTAAC
321843 ATTAAAGATAAAAATTATAAT
66 ATTAAAGATAAAAATTATAAT
321864 AATTA
1 AATTA
321869 CAATTATATT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (86 bp):
AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTATTAAC
ATTAAAGATAAAAATTATAAT
Found at i:330746 original size:21 final size:21
Alignment explanation
Indices: 330713--330894 Score: 87
Period size: 21 Copynumber: 8.7 Consensus size: 21
330703 ACTGTACCCA
* *
330713 GGAGAAGTGGGGCTATATGCT
1 GGAGAAGTAGGGCTATATGAT
* *
330734 GGGGAAGTAGGGCTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * *
330755 GGAGATGTAGGGCTATAGGAG
1 GGAGAAGTAGGGCTATATGAT
* * * * * *
330776 GGTGAGGTTGGGCTGTAAGAA
1 GGAGAAGTAGGGCTATATGAT
* * * *
330797 GGAGATGTCGGACTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * * *
330818 GGCGATGTTGGGCTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * *
330839 GGAGACGTGGGGCTGTATGCA-
1 GGAGAAGTAGGGCTATATG-AT
* * **
330860 GGTGAAGTTGGGCTATATGCC
1 GGAGAAGTAGGGCTATATGAT
*
330881 GGTGAAGTAGGGCT
1 GGAGAAGTAGGGCT
330895 GTAGCTTGGT
Statistics
Matches: 126, Mismatches: 33, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
21 125 0.99
22 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.45, T:0.25
Consensus pattern (21 bp):
GGAGAAGTAGGGCTATATGAT
Found at i:330759 original size:42 final size:42
Alignment explanation
Indices: 330713--330878 Score: 147
Period size: 42 Copynumber: 4.0 Consensus size: 42
330703 ACTGTACCCA
* * *
330713 GGAGAAGTGGGGCTATATGCTGGGGAAGTAGGGCTGTATGAT
1 GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATGAT
* * * * *
330755 GGAGATGTAGGGCTATA-GGAGGGTGAGGTTGGGCTGTAAGAA
1 GGAGATGTGGGGCTATATGCAGGG-GAAGTTGGGCTGTATGAT
* * * * *
330797 GGAGATGTCGGACTGTATG-ATGGCGATGTTGGGCTGTATGAT
1 GGAGATGTGGGGCTATATGCA-GGGGAAGTTGGGCTGTATGAT
* * * *
330839 GGAGACGTGGGGCTGTATGCAGGTGAAGTTGGGCTATATG
1 GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATG
330879 CCGGTGAAGT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
41 4 0.04
42 91 0.92
43 4 0.04
ACGTcount: A:0.22, C:0.08, G:0.45, T:0.25
Consensus pattern (42 bp):
GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATGAT
Found at i:331014 original size:21 final size:21
Alignment explanation
Indices: 330881--331011 Score: 136
Period size: 21 Copynumber: 6.2 Consensus size: 21
330871 GCTATATGCC
330881 GGTGAAGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* * * *
330902 GGTGAAGTTGGACTATAACTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
330923 GGTGAAGTAGGACTGTAACTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
330944 GGAGACGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
330965 GGAGACGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* * * *
330986 GGAGAGGTAGGGCTATAGCTC
1 GGTGAAGTAGGGCTGTAGCTT
331007 GGTGA
1 GGTGA
331012 GGTTGGAGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 96 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (21 bp):
GGTGAAGTAGGGCTGTAGCTT
Found at i:331105 original size:42 final size:43
Alignment explanation
Indices: 331058--331197 Score: 169
Period size: 42 Copynumber: 3.3 Consensus size: 43
331048 TGGACTTGTT
* * ** * * *
331058 GGGCTGTAACCTGGTGAACTAGGACTGTAAG-TAGGTGATGTG
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
331100 GGGCTGTAACCAGGCGAGGTAGGACTGT-AGCCAGGAGATGTA
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
*
331142 GGGCTGTAACCAGGCGAGGTAGGACTGT-AGCCAGGAGATGAA
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
* *
331184 GGACTGTAGCCAGG
1 GGGCTGTAACCAGG
331198 AGATGATGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.02
42 85 0.98
ACGTcount: A:0.26, C:0.16, G:0.40, T:0.19
Consensus pattern (43 bp):
GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
Found at i:331127 original size:21 final size:21
Alignment explanation
Indices: 331103--331200 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
331093 TGATGTGGGG
* *
331103 CTGTAACCAGGCGAGGTAGGA
1 CTGTAGCCAGGAGAGGTAGGA
* *
331124 CTGTAGCCAGGAGATGTAGGG
1 CTGTAGCCAGGAGAGGTAGGA
* *
331145 CTGTAACCAGGCGAGGTAGGA
1 CTGTAGCCAGGAGAGGTAGGA
* *
331166 CTGTAGCCAGGAGATGAAGGA
1 CTGTAGCCAGGAGAGGTAGGA
331187 CTGTAGCCAGGAGA
1 CTGTAGCCAGGAGA
331201 TGATGGGCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.39, T:0.15
Consensus pattern (21 bp):
CTGTAGCCAGGAGAGGTAGGA
Found at i:331201 original size:21 final size:21
Alignment explanation
Indices: 331120--331224 Score: 120
Period size: 21 Copynumber: 5.0 Consensus size: 21
331110 CAGGCGAGGT
*
331120 AGGACTGTAGCCAGGAGATGT
1 AGGACTGTAGCCAGGAGATGA
* * * * *
331141 AGGGCTGTAACCAGGCGAGGT
1 AGGACTGTAGCCAGGAGATGA
331162 AGGACTGTAGCCAGGAGATGA
1 AGGACTGTAGCCAGGAGATGA
331183 AGGACTGTAGCCAGGAGATGA
1 AGGACTGTAGCCAGGAGATGA
* * * *
331204 TGGGCTGTAACCAGGGGATGA
1 AGGACTGTAGCCAGGAGATGA
331225 CGTGGGAGAG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.29, C:0.15, G:0.40, T:0.16
Consensus pattern (21 bp):
AGGACTGTAGCCAGGAGATGA
Found at i:331212 original size:42 final size:42
Alignment explanation
Indices: 331103--331224 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
331093 TGATGTGGGG
* * * *
331103 CTGTAACCAGGCGAGGTAGGACTGTAGCCAGGAGATGTAGGG
1 CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
* *
331145 CTGTAACCAGGCGAGGTAGGACTGTAGCCAGGAGATGAAGGA
1 CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
* * * *
331187 CTGTAGCCAGGAGATGAT-GGGCTGTAACCAGGGGATGA
1 CTGTAACCAGGAGA-GATAGGACTGTAGCCAGGAGATGA
331225 CGTGGGAGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 69 0.97
43 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.39, T:0.16
Consensus pattern (42 bp):
CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
Found at i:340202 original size:29 final size:29
Alignment explanation
Indices: 340142--340217 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
340132 TGAACTTGAA
* * **
340142 TTTAAAAATCTAAATAATTTAAGGACTAAAT
1 TTTAAAAA-ATAAA-AATATAAGGAAAAAAT
340173 TTTAAAAAATAAAAATATAAGGAAAAAAT
1 TTTAAAAAATAAAAATATAAGGAAAAAAT
* *
340202 TTCAAATAA-AAAAATA
1 TTTAAAAAATAAAAATA
340218 AAAAAACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 7 0.18
29 20 0.51
30 4 0.10
31 8 0.21
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (29 bp):
TTTAAAAAATAAAAATATAAGGAAAAAAT
Found at i:340983 original size:12 final size:12
Alignment explanation
Indices: 340966--340990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
340956 GAATTTTGGG
340966 TTTTTCTTTTTT
1 TTTTTCTTTTTT
340978 TTTTTCTTTTTT
1 TTTTTCTTTTTT
340990 T
1 T
340991 GGGGGGGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:350794 original size:31 final size:31
Alignment explanation
Indices: 350757--350825 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
350747 TGGACCCCAA
*
350757 AAAGTTTAAGTACCAACTTAAGAAAAAGTGT
1 AAAGTTTAAGTACCAAATTAAGAAAAAGTGT
* *
350788 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
1 AAAGTTTAAGTACCAAATTAAGAAAAAGTGT
*
350819 CAAGTTT
1 AAAGTTT
350826 GGGTATCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (31 bp):
AAAGTTTAAGTACCAAATTAAGAAAAAGTGT
Found at i:350890 original size:89 final size:90
Alignment explanation
Indices: 350707--350894 Score: 229
Period size: 89 Copynumber: 2.1 Consensus size: 90
350697 AAAAAATTAA
* * *
350707 GTACCGAATTAAGAAAAAGAGTCAAGTTCATGTACCAAATTGGACCCCAAAAAGTTTAAGTACCA
1 GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAGTACCA
*
350772 ACTTAAGAAAAAGTGTAAAGTTTAG
66 AATTAAGAAAAAGTGTAAAGTTTAG
* * ** * *
350797 GTACCAAATTAGGAAAAAGTGTCAAGTTTGGGTATCTAATTGGA-CCAAAAAAGTTT-AGATACC
1 GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAG-TACC
* *
350860 AAATT-AGAAAAAATTGTCAAGTTTAG
65 AAATTAAG-AAAAAGTGTAAAGTTTAG
350886 GTACCAAAT
1 GTACCAAAT
350895 ATTATATTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 4 0.05
89 44 0.52
90 36 0.43
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (90 bp):
GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAGTACCA
AATTAAGAAAAAGTGTAAAGTTTAG
Found at i:350939 original size:14 final size:14
Alignment explanation
Indices: 350914--350963 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
350904 AGCCCGTACT
350914 ATTTTCTTATTATTA
1 ATTTT-TTATTATTA
*
350929 ATTTTTTATTA-CA
1 ATTTTTTATTATTA
*
350942 ATTTTTTATTTTTA
1 ATTTTTTATTATTA
*
350956 ATATTTTA
1 ATTTTTTA
350964 AAGAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 11 0.37
14 14 0.47
15 5 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTATTATTA
Found at i:350946 original size:13 final size:14
Alignment explanation
Indices: 350914--350951 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
350904 AGCCCGTACT
*
350914 ATTTTCTTATTATTA
1 ATTTT-TTATTATCA
350929 ATTTTTTATTA-CA
1 ATTTTTTATTATCA
350942 ATTTTTTATT
1 ATTTTTTATT
350952 TTTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 6 0.27
15 5 0.23
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTATTATCA
Found at i:351646 original size:18 final size:18
Alignment explanation
Indices: 351607--351649 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
351597 GAATAGATTT
*
351607 TTAATTAAATAATTTTAT
1 TTAATTAAATAATTTTAA
351625 TTAATTAAA-AATTTTAAA
1 TTAATTAAATAATTTT-AA
351643 TTAATTA
1 TTAATTA
351650 CATCTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAAATAATTTTAA
Found at i:355431 original size:2 final size:2
Alignment explanation
Indices: 355424--355449 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
355414 AGGCAACAAC
355424 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
355450 TATATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:356472 original size:5 final size:5
Alignment explanation
Indices: 356464--356504 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
356454 GACATCAATT
* *
356464 AAAAC AAAAAC CAGAC AAAAC AAAAC AAAAC AAAAC AAAAC
1 AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
356505 TCATTTCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.76, C:0.22, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:362733 original size:14 final size:13
Alignment explanation
Indices: 362687--362749 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
362677 ACAATAATTA
362687 TAAAA-ATAAAATT
1 TAAAATATAAAA-T
362700 TAAAAGTATACCAAAT
1 TAAAA-TATA--AAAT
362716 TAAAATATAAAGAT
1 TAAAATATAAA-AT
* *
362730 TAAATTATAAATT
1 TAAAATATAAAAT
362743 TAAAATA
1 TAAAATA
362750 GTATAGGGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 14 0.33
14 12 0.29
15 7 0.17
16 6 0.14
17 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAAATATAAAAT
Found at i:364381 original size:29 final size:26
Alignment explanation
Indices: 364329--364382 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
364319 TTTAAAATAC
*
364329 TTTTAAAATATTTTTATTTTTATTAT
1 TTTTAAAATATTTTTATGTTTATTAT
364355 TTTTAAAATAATTTTTTAATGTTTATTA
1 TTTTAAAAT-A-TTTTT-ATGTTTATTA
364383 AAAAATATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 5 0.21
29 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTAAAATATTTTTATGTTTATTAT
Found at i:367652 original size:27 final size:28
Alignment explanation
Indices: 367621--367685 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
367611 TAAAAAAATA
367621 ATCAAAATATTAT-AACTTTTTTTATTT
1 ATCAAAATATTATAAACTTTTTTTATTT
*
367648 ATCAAAATATTATAAAGTTTTTTTATTT
1 ATCAAAATATTATAAACTTTTTTTATTT
*
367676 ACCAAAATAT
1 ATCAAAATAT
367686 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (28 bp):
ATCAAAATATTATAAACTTTTTTTATTT
Found at i:367714 original size:16 final size:15
Alignment explanation
Indices: 367695--367724 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
367685 TACAAAAAAA
367695 AAAAACAAAAACCTGC
1 AAAAA-AAAAACCTGC
367711 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
367725 TGATTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACCTGC
Found at i:367928 original size:18 final size:18
Alignment explanation
Indices: 367907--367959 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
367897 AGTAATAACT
*
367907 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
367925 CTATTCTCATTTAATAAA
1 CTATTCTAATTTAATAAA
367943 C---TCTAATTTAATAAA
1 CTATTCTAATTTAATAAA
367958 CT
1 CT
367960 CTATTTTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 14 0.45
18 17 0.55
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:367953 original size:15 final size:15
Alignment explanation
Indices: 367913--367962 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
367903 AACTCTATTT
367913 TAATTTAATAAACTATTC
1 TAATTTAATAAAC---TC
*
367931 TCATTTAATAAACTC
1 TAATTTAATAAACTC
367946 TAATTTAATAAACTC
1 TAATTTAATAAACTC
367961 TA
1 TA
367963 TTTTGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 18 0.60
18 12 0.40
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTAATAAACTC
Found at i:368622 original size:15 final size:16
Alignment explanation
Indices: 368602--368631 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
368592 GGTGCCGCCA
368602 CAGGTTTTT-TTTTTG
1 CAGGTTTTTGTTTTTG
368617 CAGGTTTTTGTTTTT
1 CAGGTTTTTGTTTTT
368632 TGTTTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.67
Consensus pattern (16 bp):
CAGGTTTTTGTTTTTG
Found at i:368676 original size:27 final size:28
Alignment explanation
Indices: 368642--368706 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
368632 TGTTTTTGGT
368642 ATATTTTGATAAATAAAAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
*
368669 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
368697 ATATTTTGAT
1 ATATTTTGAT
368707 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Found at i:370538 original size:26 final size:26
Alignment explanation
Indices: 370507--370560 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
370497 CCAATTTTTT
* *
370507 AATAAACACCAAAAAAATATTTTAAA
1 AATAAAAAACAAAAAAATATTTTAAA
*
370533 AATAAAAAATAAAAAAATATTTTAAA
1 AATAAAAAACAAAAAAATATTTTAAA
370559 AA
1 AA
370561 AATTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (26 bp):
AATAAAAAACAAAAAAATATTTTAAA
Found at i:370574 original size:26 final size:26
Alignment explanation
Indices: 370517--370579 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 26
370507 AATAAACACC
370517 AAAAAAATATTTTAAAAATAAAAAAT
1 AAAAAAATATTTTAAAAATAAAAAAT
370543 AAAAAAATATTTTAAAAA-AATTAAAATT
1 AAAAAAATATTTTAAAAATAA--AAAA-T
370571 AAAAAAATA
1 AAAAAAATA
370580 AAAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.06
26 18 0.53
27 4 0.12
28 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAAAAATATTTTAAAAATAAAAAAT
Found at i:372894 original size:18 final size:18
Alignment explanation
Indices: 372871--372908 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
372861 TCTGTTTTTG
372871 TTAGAAAGATTGCTGAAC
1 TTAGAAAGATTGCTGAAC
* *
372889 TTAGAAGGATTGTTGAAC
1 TTAGAAAGATTGCTGAAC
372907 TT
1 TT
372909 CAAGCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (18 bp):
TTAGAAAGATTGCTGAAC
Done.