Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1979160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:18 original size:7 final size:7
Alignment explanation
Indices: 1--5150 Score: 6339
Period size: 7 Copynumber: 754.0 Consensus size: 7
1 AAACCC-
1 AAACCCT
7 AAACCCT
1 AAACCCT
14 AAACCCT
1 AAACCCT
*
21 ACTAAACCT
1 A--AACCCT
30 AAACCCT
1 AAACCCT
37 AAACCCT
1 AAACCCT
44 AAAAACCCT
1 --AAACCCT
53 AAACCCT
1 AAACCCT
60 AAA-CC-
1 AAACCCT
65 AAACCCT
1 AAACCCT
72 -AACCCT
1 AAACCCT
78 AAACCCT
1 AAACCCT
85 AAACCCT
1 AAACCCT
92 AAACCCT
1 AAACCCT
99 AAACCCT
1 AAACCCT
*
106 CAACCCT
1 AAACCCT
*
113 AAACCCG
1 AAACCCT
120 AAACCCT
1 AAACCCT
127 AAACCCT
1 AAACCCT
134 AAACCCT
1 AAACCCT
141 AAACCCT
1 AAACCCT
148 AAA-CC-
1 AAACCCT
153 AAACCCT
1 AAACCCT
160 AAACCCT
1 AAACCCT
167 AAACCCT
1 AAACCCT
174 AAACCCT
1 AAACCCT
181 AAA--CT
1 AAACCCT
186 AAACCCT
1 AAACCCT
193 AAACCCT
1 AAACCCT
200 AAACCCT
1 AAACCCT
207 AAACCCT
1 AAACCCT
214 AAAAAACCCT
1 ---AAACCCT
224 AAACCCT
1 AAACCCT
231 AAACCCT
1 AAACCCT
238 -AACCCT
1 AAACCCT
244 AAACCCT
1 AAACCCT
251 AAACCCT
1 AAACCCT
*
258 AAA-CCA
1 AAACCCT
264 AAACCCT
1 AAACCCT
271 -AACCCT
1 AAACCCT
277 AAACCCT
1 AAACCCT
284 AAACCC-
1 AAACCCT
290 AAACCCT
1 AAACCCT
*
297 AAACCCG
1 AAACCCT
304 AAACCCT
1 AAACCCT
311 AAAAACCCT
1 --AAACCCT
320 AAACCCT
1 AAACCCT
*
327 AAACCCG
1 AAACCCT
334 AAA-CCT
1 AAACCCT
340 AAA-CCT
1 AAACCCT
346 AAACCCT
1 AAACCCT
353 AAACCCT
1 AAACCCT
360 AAAAAACCCCT
1 ---AAA-CCCT
371 AAACCCT
1 AAACCCT
378 AAACCCT
1 AAACCCT
385 AAACCCT
1 AAACCCT
392 AAACCCT
1 AAACCCT
*
399 AAACCCG
1 AAACCCT
406 AAA-CCT
1 AAACCCT
412 AAACCCT
1 AAACCCT
419 AAA-CCT
1 AAACCCT
425 AAACCCT
1 AAACCCT
432 AAACCCT
1 AAACCCT
439 AAACCCT
1 AAACCCT
446 AAACCC-
1 AAACCCT
*
452 GAACCCT
1 AAACCCT
459 -AACCCT
1 AAACCCT
465 AAACCCT
1 AAACCCT
472 AAACCCT
1 AAACCCT
*
479 AAA-CCG
1 AAACCCT
485 AAACCCT
1 AAACCCT
492 AAACCCT
1 AAACCCT
499 AAACCCT
1 AAACCCT
*
506 AAACCCG
1 AAACCCT
513 AAACCCT
1 AAACCCT
*
520 AAACCCG
1 AAACCCT
527 AAACCCT
1 AAACCCT
*
534 AAA-CCG
1 AAACCCT
540 AAACCCT
1 AAACCCT
*
547 AAACCCG
1 AAACCCT
554 AAACCCT
1 AAACCCT
561 AAACCCT
1 AAACCCT
568 AAAACCCT
1 -AAACCCT
576 AAACCCT
1 AAACCCT
583 AAAAACCCT
1 --AAACCCT
592 AAACCCT
1 AAACCCT
599 AAACCCT
1 AAACCCT
606 AAACCCT
1 AAACCCT
*
613 AAACCCG
1 AAACCCT
620 AAACCCT
1 AAACCCT
627 AAACCC-
1 AAACCCT
*
633 AAACCCG
1 AAACCCT
640 AAACCC-
1 AAACCCT
646 AAACCCT
1 AAACCCT
653 AAACCCT
1 AAACCCT
660 AAACCCT
1 AAACCCT
667 AAACCC-
1 AAACCCT
673 AAA-CCT
1 AAACCCT
679 AAACCCT
1 AAACCCT
686 AAACCCT
1 AAACCCT
*
693 AAA-CCG
1 AAACCCT
699 AAACCC-
1 AAACCCT
705 -AACCCT
1 AAACCCT
711 AAACCCT
1 AAACCCT
*
718 AAA-CCA
1 AAACCCT
*
724 AAACCCG
1 AAACCCT
731 AAACCCT
1 AAACCCT
738 AAACCCT
1 AAACCCT
745 AAACCCT
1 AAACCCT
752 AAACCC-
1 AAACCCT
758 AAACCCT
1 AAACCCT
*
765 AAACCCG
1 AAACCCT
*
772 AAACCCG
1 AAACCCT
*
779 AAACCCA
1 AAACCCT
786 AAACCCT
1 AAACCCT
793 AAACCCT
1 AAACCCT
800 AAACCC-
1 AAACCCT
*
806 AAACCCG
1 AAACCCT
813 AAACCCT
1 AAACCCT
820 AAA-CCT
1 AAACCCT
826 AAACCCT
1 AAACCCT
833 AAACCCT
1 AAACCCT
840 AAACCCT
1 AAACCCT
*
847 AAA-CCG
1 AAACCCT
853 AAACCC-
1 AAACCCT
* *
859 GAACCCG
1 AAACCCT
866 AAACCCT
1 AAACCCT
873 AAA-CCT
1 AAACCCT
*
879 AAACCCG
1 AAACCCT
886 AAACCCT
1 AAACCCT
*
893 AAA-CCG
1 AAACCCT
*
899 AAACCCG
1 AAACCCT
906 AAACCCT
1 AAACCCT
913 AAACCCT
1 AAACCCT
*
920 AAACCCG
1 AAACCCT
927 AAACCCT
1 AAACCCT
934 AAACCCT
1 AAACCCT
*
941 AAACCCG
1 AAACCCT
948 AAACCCT
1 AAACCCT
955 AAACCC-
1 AAACCCT
* *
961 GAACCCG
1 AAACCCT
*
968 AAACCCG
1 AAACCCT
**
975 AAACCAA
1 AAACCCT
*
982 AAACCCA
1 AAACCCT
989 AAACCCT
1 AAACCCT
*
996 AAACCCG
1 AAACCCT
1003 AAACCCT
1 AAACCCT
1010 AAACCCT
1 AAACCCT
1017 AAACCCT
1 AAACCCT
*
1024 AAACCCG
1 AAACCCT
1031 AAACCCT
1 AAACCCT
1038 AAACCCT
1 AAACCCT
1045 AAACCCT
1 AAACCCT
1052 AAACCC-
1 AAACCCT
1058 AAACCCT
1 AAACCCT
1065 AAACCCT
1 AAACCCT
1072 AAACCC-
1 AAACCCT
1078 AAACCCT
1 AAACCCT
1085 AAACCCT
1 AAACCCT
1092 AAACCCT
1 AAACCCT
1099 AAACCC-
1 AAACCCT
1105 AAACCCT
1 AAACCCT
1112 AAACCCT
1 AAACCCT
1119 AAACCC-
1 AAACCCT
1125 AAACCCT
1 AAACCCT
1132 AAACCCT
1 AAACCCT
1139 AAACCCT
1 AAACCCT
1146 AAACCCT
1 AAACCCT
*
1153 AAACCCG
1 AAACCCT
*
1160 AAACCCG
1 AAACCCT
*
1167 AAACCCG
1 AAACCCT
1174 AAACCCT
1 AAACCCT
1181 AAACCCT
1 AAACCCT
1188 AAACCCT
1 AAACCCT
*
1195 AAACCCG
1 AAACCCT
1202 AAACCCT
1 AAACCCT
1209 AAACCCT
1 AAACCCT
1216 AAACCCT
1 AAACCCT
*
1223 AAACCCG
1 AAACCCT
*
1230 AAACCCG
1 AAACCCT
*
1237 AAACCCG
1 AAACCCT
1244 AAACCCT
1 AAACCCT
* *
1251 AACCCCG
1 AAACCCT
1258 AAACCCT
1 AAACCCT
1265 AAACCCT
1 AAACCCT
*
1272 AAACCCG
1 AAACCCT
*
1279 AAACCCG
1 AAACCCT
*
1286 AAACCCG
1 AAACCCT
1293 AAACCCT
1 AAACCCT
1300 AAACCCT
1 AAACCCT
1307 AAACCC-
1 AAACCCT
* *
1313 GAACCCG
1 AAACCCT
1320 AAACCCT
1 AAACCCT
1327 AAA-CCT
1 AAACCCT
*
1333 -AACCCG
1 AAACCCT
*
1339 AAACCCG
1 AAACCCT
1346 AAACCC-
1 AAACCCT
1352 AAACCCT
1 AAACCCT
1359 AAACCC-
1 AAACCCT
1365 AAACCCT
1 AAACCCT
1372 AAACCCT
1 AAACCCT
*
1379 AAACCCG
1 AAACCCT
1386 AAACCCT
1 AAACCCT
1393 AAACCCT
1 AAACCCT
1400 AAACCCT
1 AAACCCT
1407 AAACCCT
1 AAACCCT
*
1414 AAACCCG
1 AAACCCT
1421 AAACCCT
1 AAACCCT
*
1428 AAACCCG
1 AAACCCT
1435 AAACCCT
1 AAACCCT
*
1442 AAACCCG
1 AAACCCT
1449 AAACCC-
1 AAACCCT
1455 AAACCCT
1 AAACCCT
1462 AAACCCT
1 AAACCCT
1469 AAACCCCT
1 AAA-CCCT
1477 AAACCCT
1 AAACCCT
*
1484 AAACCCGA
1 AAACCC-T
1492 AAACCCT
1 AAACCCT
1499 -AACCCT
1 AAACCCT
1505 -AACCCT
1 AAACCCT
1511 AAACCCT
1 AAACCCT
1518 AAACCCT
1 AAACCCT
1525 AAA-CCT
1 AAACCCT
1531 AAACCCT
1 AAACCCT
1538 AAACCCT
1 AAACCCT
1545 AAACCCT
1 AAACCCT
1552 AAACCCT
1 AAACCCT
1559 AAACCCT
1 AAACCCT
1566 AAACCCT
1 AAACCCT
1573 AAA-CCT
1 AAACCCT
*
1579 AAACCCG
1 AAACCCT
1586 AAACCCT
1 AAACCCT
*
1593 AAACCCG
1 AAACCCT
*
1600 AAACCCG
1 AAACCCT
1607 AAACCCT
1 AAACCCT
*
1614 AAACCCG
1 AAACCCT
1621 AAACCCT
1 AAACCCT
1628 AAA-CCT
1 AAACCCT
1634 -AACCCT
1 AAACCCT
*
1640 AAA-CCG
1 AAACCCT
1646 AAACCC-
1 AAACCCT
*
1652 GAACCCT
1 AAACCCT
*
1659 AAACCCG
1 AAACCCT
1666 AAACCC-
1 AAACCCT
*
1672 AAACCCG
1 AAACCCT
1679 AAACCCT
1 AAACCCT
1686 AAACCCT
1 AAACCCT
1693 AAACCCT
1 AAACCCT
1700 AAACCCT
1 AAACCCT
1707 AAACCCT
1 AAACCCT
*
1714 AAACCCG
1 AAACCCT
1721 AAACCCT
1 AAACCCT
1728 AAACCCT
1 AAACCCT
1735 AAACCCT
1 AAACCCT
1742 AAACCC-
1 AAACCCT
*
1748 -AACCCG
1 AAACCCT
1754 AAACCCT
1 AAACCCT
*
1761 AAACCCG
1 AAACCCT
1768 AAA-CCT
1 AAACCCT
1774 AAACCCT
1 AAACCCT
1781 AAACCCT
1 AAACCCT
1788 AAACCCT
1 AAACCCT
1795 AAACCCT
1 AAACCCT
1802 AAA-CCT
1 AAACCCT
1808 AAA-CCT
1 AAACCCT
1814 AAACCC-
1 AAACCCT
1820 AAACCCT
1 AAACCCT
*
1827 AAACCCG
1 AAACCCT
1834 AAACCCT
1 AAACCCT
1841 AAACCCT
1 AAACCCT
1848 AAACCCT
1 AAACCCT
1855 AAACCCT
1 AAACCCT
1862 AAACCCT
1 AAACCCT
1869 AAACCCT
1 AAACCCT
1876 AAACCCT
1 AAACCCT
1883 AAACCCT
1 AAACCCT
1890 AAACCC-
1 AAACCCT
**
1896 CCACCCT
1 AAACCCT
1903 AAACCCT
1 AAACCCT
*
1910 AAACCCG
1 AAACCCT
1917 AAACCC-
1 AAACCCT
1923 AAACCCT
1 AAACCCT
1930 AAACCCT
1 AAACCCT
*
1937 AAA-CCG
1 AAACCCT
*
1943 AAACCCG
1 AAACCCT
1950 AAACCCT
1 AAACCCT
1957 AAACCC-
1 AAACCCT
1963 --ACCCT
1 AAACCCT
1968 AAACCCT
1 AAACCCT
1975 AAACCCT
1 AAACCCT
1982 AAACCCT
1 AAACCCT
1989 AAACCCT
1 AAACCCT
1996 AAACCCT
1 AAACCCT
*
2003 AAACCCG
1 AAACCCT
2010 AAACCCT
1 AAACCCT
2017 -AACCCT
1 AAACCCT
2023 AAACCCT
1 AAACCCT
2030 AAACCCT
1 AAACCCT
2037 AAACCCT
1 AAACCCT
2044 AAACCCT
1 AAACCCT
*
2051 AAACCCG
1 AAACCCT
2058 AAACCCT
1 AAACCCT
2065 AAACCCT
1 AAACCCT
2072 AAACCCCT
1 AAA-CCCT
*
2080 AAACCCG
1 AAACCCT
2087 AAA-CCT
1 AAACCCT
*
2093 AAACCCG
1 AAACCCT
2100 AAACCCT
1 AAACCCT
2107 AAACCC-
1 AAACCCT
2113 AAACCCT
1 AAACCCT
2120 AAACCC-
1 AAACCCT
2126 AAACCCT
1 AAACCCT
2133 AAACCCT
1 AAACCCT
2140 AAA-CCT
1 AAACCCT
*
2146 AAACCCGAAA
1 AAACCC---T
*
2156 AAACCCG
1 AAACCCT
2163 AAACCCT
1 AAACCCT
2170 AAA-CCT
1 AAACCCT
2176 AAACCCT
1 AAACCCT
2183 AAACCCT
1 AAACCCT
2190 AAACCCT
1 AAACCCT
2197 AAACCCT
1 AAACCCT
*
2204 AAACCCG
1 AAACCCT
2211 AAACCC-
1 AAACCCT
2217 AAACCCT
1 AAACCCT
2224 AAACCCT
1 AAACCCT
2231 AAACCCT
1 AAACCCT
2238 AAACCCT
1 AAACCCT
2245 AAACCCT
1 AAACCCT
2252 AAACCCT
1 AAACCCT
2259 AAACCCT
1 AAACCCT
2266 AAACCCT
1 AAACCCT
2273 AAACCCT
1 AAACCCT
2280 AAACCCT
1 AAACCCT
2287 AAA-CCT
1 AAACCCT
2293 AAA-CCT
1 AAACCCT
2299 AAACCCT
1 AAACCCT
2306 AAACCCT
1 AAACCCT
2313 AAACCCT
1 AAACCCT
2320 AAACCCT
1 AAACCCT
2327 AAACCCT
1 AAACCCT
2334 AAACCCT
1 AAACCCT
*
2341 AAACCCG
1 AAACCCT
2348 AAACCCT
1 AAACCCT
2355 AAACCCT
1 AAACCCT
2362 AAACCCT
1 AAACCCT
2369 AAACCCT
1 AAACCCT
2376 AAACCCT
1 AAACCCT
2383 AAACCCT
1 AAACCCT
2390 AAACCCT
1 AAACCCT
2397 AAACCCT
1 AAACCCT
2404 AAACCCT
1 AAACCCT
2411 AAACCCT
1 AAACCCT
2418 AAACCCT
1 AAACCCT
2425 AAACCCT
1 AAACCCT
2432 AAACCCT
1 AAACCCT
2439 AAACCCT
1 AAACCCT
2446 AAA-CCT
1 AAACCCT
2452 -AACCCT
1 AAACCCT
2458 AAACCC-
1 AAACCCT
*
2464 AAACCCG
1 AAACCCT
2471 AAACCCT
1 AAACCCT
2478 AAACCCT
1 AAACCCT
2485 -AACCCT
1 AAACCCT
2491 AAACCCT
1 AAACCCT
2498 AAACCCT
1 AAACCCT
2505 AAACCCT
1 AAACCCT
2512 AAACCCT
1 AAACCCT
2519 AAACCCT
1 AAACCCT
2526 AAACCCT
1 AAACCCT
*
2533 AAACCCG
1 AAACCCT
2540 AAA-CCT
1 AAACCCT
2546 AAACCCT
1 AAACCCT
2553 AAACCCT
1 AAACCCT
2560 AAACCCT
1 AAACCCT
2567 AAACCCT
1 AAACCCT
2574 AAACCCT
1 AAACCCT
2581 AAACCCT
1 AAACCCT
2588 AAACCC-
1 AAACCCT
2594 -AACCC-
1 AAACCCT
2599 AAACCCT
1 AAACCCT
2606 AAACCCT
1 AAACCCT
2613 AAACCCT
1 AAACCCT
2620 AAA-CCT
1 AAACCCT
2626 AAACCC-
1 AAACCCT
2632 AAACCCT
1 AAACCCT
2639 AAACCCT
1 AAACCCT
2646 AAACCCT
1 AAACCCT
2653 AAACCCT
1 AAACCCT
2660 AAA-CCT
1 AAACCCT
2666 AAACCCT
1 AAACCCT
2673 -AACCCT
1 AAACCCT
2679 AAACCCT
1 AAACCCT
2686 AAA-CCT
1 AAACCCT
2692 AAACCCT
1 AAACCCT
2699 AAA-CCT
1 AAACCCT
2705 AAACCCT
1 AAACCCT
2712 AAACCCT
1 AAACCCT
2719 AAA-CCT
1 AAACCCT
2725 AAACCCT
1 AAACCCT
2732 AAACCCT
1 AAACCCT
2739 AAACCCT
1 AAACCCT
2746 AAA-CCT
1 AAACCCT
2752 AAACCCT
1 AAACCCT
2759 AAACCCT
1 AAACCCT
2766 AAACCCT
1 AAACCCT
2773 AAACCCT
1 AAACCCT
2780 AAACCC-
1 AAACCCT
2786 AAACCCT
1 AAACCCT
2793 AAACCC-
1 AAACCCT
2799 AAACCCT
1 AAACCCT
2806 AAACCCT
1 AAACCCT
2813 AAACCCT
1 AAACCCT
2820 AAACCCT
1 AAACCCT
2827 AAACCCT
1 AAACCCT
2834 AAACCCT
1 AAACCCT
2841 AAACCCT
1 AAACCCT
2848 AAACCCT
1 AAACCCT
2855 AAACCCT
1 AAACCCT
2862 AAACCCT
1 AAACCCT
2869 AAACCCT
1 AAACCCT
2876 AAACCCT
1 AAACCCT
2883 AAACCCT
1 AAACCCT
2890 AAACCCT
1 AAACCCT
2897 AAACCCT
1 AAACCCT
2904 AAACCC-
1 AAACCCT
2910 -AACCCT
1 AAACCCT
2916 AAACCCT
1 AAACCCT
2923 AAACCCT
1 AAACCCT
2930 AAACCCCT
1 AAA-CCCT
2938 AAACCCT
1 AAACCCT
2945 AAACCCT
1 AAACCCT
2952 AAACCCT
1 AAACCCT
2959 AAACCCT
1 AAACCCT
2966 AAACCCT
1 AAACCCT
2973 AAACCCT
1 AAACCCT
*
2980 AAACCCG
1 AAACCCT
2987 AAACCCT
1 AAACCCT
2994 AAACCCT
1 AAACCCT
3001 AACACCCT
1 AA-ACCCT
3009 AAACCCT
1 AAACCCT
3016 -AACCCT
1 AAACCCT
3022 AAACCCT
1 AAACCCT
3029 AAACCCT
1 AAACCCT
3036 AAACCCT
1 AAACCCT
3043 AAACCCT
1 AAACCCT
3050 AAACCCT
1 AAACCCT
3057 AAACCCT
1 AAACCCT
3064 AAACCCT
1 AAACCCT
3071 AAACCCT
1 AAACCCT
3078 AAACCCT
1 AAACCCT
3085 AAACCCT
1 AAACCCT
3092 AAACCC-
1 AAACCCT
3098 -AACCCT
1 AAACCCT
3104 AAACCCT
1 AAACCCT
3111 AAACCCT
1 AAACCCT
3118 AAACCCT
1 AAACCCT
3125 AAACCCT
1 AAACCCT
3132 -AACCCT
1 AAACCCT
3138 -AACCCT
1 AAACCCT
3144 AAACCCT
1 AAACCCT
3151 AAACCCT
1 AAACCCT
3158 AAACCCT
1 AAACCCT
3165 AAACCCT
1 AAACCCT
3172 AAACCCT
1 AAACCCT
3179 AAACCCT
1 AAACCCT
3186 -AACCCT
1 AAACCCT
3192 AAACCCT
1 AAACCCT
3199 AAA-CCT
1 AAACCCT
3205 AAACCCT
1 AAACCCT
3212 AAACCCT
1 AAACCCT
3219 AAACCCT
1 AAACCCT
*
3226 ACACCCT
1 AAACCCT
3233 AAACCCT
1 AAACCCT
3240 AAACCCT
1 AAACCCT
3247 AAACCCT
1 AAACCCT
3254 AAACCCT
1 AAACCCT
3261 AAACCCT
1 AAACCCT
3268 AAACCCT
1 AAACCCT
3275 AAACCCT
1 AAACCCT
3282 AAACCCT
1 AAACCCT
3289 AAACCCT
1 AAACCCT
3296 AAAACCCT
1 -AAACCCT
3304 AAACCCT
1 AAACCCT
*
3311 AACCCCT
1 AAACCCT
3318 AAACCCT
1 AAACCCT
3325 AAACCCT
1 AAACCCT
3332 AAACCCT
1 AAACCCT
3339 AAACCCT
1 AAACCCT
3346 AAACCCT
1 AAACCCT
3353 -AACCCT
1 AAACCCT
3359 AAACCCT
1 AAACCCT
3366 AAACCCT
1 AAACCCT
3373 AAACCCT
1 AAACCCT
3380 AAACCCT
1 AAACCCT
3387 AAACCCT
1 AAACCCT
3394 AAA-CCT
1 AAACCCT
3400 AAACCCT
1 AAACCCT
3407 AAACCCT
1 AAACCCT
3414 AAACCCT
1 AAACCCT
3421 AAACCCT
1 AAACCCT
3428 AAACCCT
1 AAACCCT
3435 AAAACCCT
1 -AAACCCT
3443 AAACCCT
1 AAACCCT
3450 AAACCCT
1 AAACCCT
3457 AAACCCT
1 AAACCCT
3464 AAACCCT
1 AAACCCT
3471 AAACCCT
1 AAACCCT
3478 -AACCCT
1 AAACCCT
3484 AAA-CCT
1 AAACCCT
3490 -AACCCT
1 AAACCCT
3496 AAA-CCT
1 AAACCCT
3502 AAACCCT
1 AAACCCT
3509 --ACCC-
1 AAACCCT
*
3513 AAAACCT
1 AAACCCT
3520 AAACCCT
1 AAACCCT
3527 AAACCCT
1 AAACCCT
3534 AAACCCT
1 AAACCCT
3541 AAACCC-
1 AAACCCT
3547 AAACCCT
1 AAACCCT
3554 AAACCCT
1 AAACCCT
3561 AAACCCT
1 AAACCCT
3568 AAACCCT
1 AAACCCT
3575 AAACCCCCT
1 AAA--CCCT
3584 AAACCCT
1 AAACCCT
3591 AAACCCT
1 AAACCCT
3598 AAA-CCT
1 AAACCCT
3604 AAA-CC-
1 AAACCCT
3609 AAA-CCT
1 AAACCCT
3615 AAACCCT
1 AAACCCT
3622 AAACCCT
1 AAACCCT
3629 AAACCCT
1 AAACCCT
3636 AAA-CCT
1 AAACCCT
3642 AAACCCT
1 AAACCCT
3649 AAACCCT
1 AAACCCT
3656 -AACCCT
1 AAACCCT
3662 AAACCCT
1 AAACCCT
3669 AAACCCT
1 AAACCCT
3676 AAACCCT
1 AAACCCT
3683 AAACCCT
1 AAACCCT
3690 AAACCCT
1 AAACCCT
3697 AAA-CCT
1 AAACCCT
3703 AAACCCT
1 AAACCCT
3710 AAACCCT
1 AAACCCT
3717 AAACCCT
1 AAACCCT
3724 AAACCCT
1 AAACCCT
3731 -AA-CCT
1 AAACCCT
3736 AAACCCT
1 AAACCCT
3743 AAACCCT
1 AAACCCT
3750 -AACCCT
1 AAACCCT
3756 AAACCCT
1 AAACCCT
3763 AAA-CCT
1 AAACCCT
3769 -AACCCT
1 AAACCCT
*
3775 AAGCCCT
1 AAACCCT
*
3782 AAGCCCT
1 AAACCCT
*
3789 AAGCCCT
1 AAACCCT
3796 AAAGCCCT
1 AAA-CCCT
*
3804 AAGCCCT
1 AAACCCT
*
3811 AAGCCCT
1 AAACCCT
*
3818 AAGCCCT
1 AAACCCT
*
3825 AAGCCCT
1 AAACCCT
*
3832 AAGCCCT
1 AAACCCT
*
3839 AAGCCCT
1 AAACCCT
*
3846 -AAGCCT
1 AAACCCT
*
3852 AAGCCCT
1 AAACCCT
*
3859 AAGCCCT
1 AAACCCT
*
3866 AAGCCCT
1 AAACCCT
*
3873 AAGCCCT
1 AAACCCT
*
3880 AAGCCCT
1 AAACCCT
*
3887 AAGCCCT
1 AAACCCT
*
3894 AAGCCCT
1 AAACCCT
*
3901 AAGCCCT
1 AAACCCT
*
3908 -AAGCCT
1 AAACCCT
*
3914 AAGCCCT
1 AAACCCT
*
3921 AAGCCCT
1 AAACCCT
*
3928 AAGCCCT
1 AAACCCT
*
3935 AAGCCCT
1 AAACCCT
*
3942 AAGCCCT
1 AAACCCT
*
3949 AAGCCCT
1 AAACCCT
*
3956 AAGCCCT
1 AAACCCT
*
3963 AAGCCCT
1 AAACCCT
*
3970 AAGCCCT
1 AAACCCT
*
3977 AAGCCCT
1 AAACCCT
*
3984 AAGCCCT
1 AAACCCT
*
3991 --AGCCT
1 AAACCCT
*
3996 AAGCCCT
1 AAACCCT
*
4003 AAGCCCT
1 AAACCCT
*
4010 AAGCCCT
1 AAACCCT
*
4017 AAGCCCT
1 AAACCCT
*
4024 AAGCCCT
1 AAACCCT
*
4031 AAGCCCT
1 AAACCCT
*
4038 AAGCCCT
1 AAACCCT
*
4045 AAGCCCT
1 AAACCCT
*
4052 AAGCCCT
1 AAACCCT
*
4059 AAGCCCT
1 AAACCCT
*
4066 AAGCCCT
1 AAACCCT
*
4073 AAGCCCT
1 AAACCCT
*
4080 -AAGCCT
1 AAACCCT
*
4086 AAGCCCT
1 AAACCCT
*
4093 AAGCCCT
1 AAACCCT
*
4100 AAGCCCT
1 AAACCCT
*
4107 AAGCCCT
1 AAACCCT
*
4114 AAGCCCT
1 AAACCCT
*
4121 AAGCCCT
1 AAACCCT
*
4128 AAGCCCT
1 AAACCCT
*
4135 -AAGCCT
1 AAACCCT
*
4141 -AAGCCT
1 AAACCCT
*
4147 AAGCCCT
1 AAACCCT
*
4154 AAGCCCT
1 AAACCCT
*
4161 AAGCCCT
1 AAACCCT
*
4168 AAGCCCT
1 AAACCCT
*
4175 AAGCCCT
1 AAACCCT
*
4182 AAGCCCT
1 AAACCCT
*
4189 AAGCCCT
1 AAACCCT
*
4196 AAGCCCT
1 AAACCCT
*
4203 AAGCCCT
1 AAACCCT
4210 -AA-CCT
1 AAACCCT
*
4215 AAGCCCT
1 AAACCCT
*
4222 AAGCCCT
1 AAACCCT
*
4229 AAGCCCT
1 AAACCCT
*
4236 -AAGCCT
1 AAACCCT
*
4242 -AAGCCT
1 AAACCCT
*
4248 -AAGCCT
1 AAACCCT
*
4254 -AAGCCT
1 AAACCCT
*
4260 AAGCCCT
1 AAACCCT
*
4267 AAGCCCT
1 AAACCCT
*
4274 AAGCCCT
1 AAACCCT
*
4281 AAGCCCT
1 AAACCCT
*
4288 AAGCCCT
1 AAACCCT
*
4295 AAGCCCT
1 AAACCCT
*
4302 AAGCCCT
1 AAACCCT
*
4309 AAGCCCT
1 AAACCCT
*
4316 AAGCCCT
1 AAACCCT
*
4323 AAGCCCT
1 AAACCCT
*
4330 AAGCCCT
1 AAACCCT
*
4337 AAGCCCT
1 AAACCCT
*
4344 AAGCCCT
1 AAACCCT
*
4351 AAGCCCT
1 AAACCCT
*
4358 AAGCCCT
1 AAACCCT
*
4365 AAGCCCT
1 AAACCCT
*
4372 AAGCCCT
1 AAACCCT
*
4379 -AAGCCT
1 AAACCCT
*
4385 AAGCCCT
1 AAACCCT
*
4392 AAGCCCT
1 AAACCCT
*
4399 AAGCCCT
1 AAACCCT
*
4406 AAGCCCT
1 AAACCCT
*
4413 AAGCCCT
1 AAACCCT
*
4420 AAGCCCT
1 AAACCCT
*
4427 -AAGCCT
1 AAACCCT
*
4433 AAGCCCT
1 AAACCCT
*
4440 AAGCCCT
1 AAACCCT
*
4447 AAGCCCT
1 AAACCCT
*
4454 AAGCCCT
1 AAACCCT
*
4461 AAGCCCT
1 AAACCCT
*
4468 AAGCCCT
1 AAACCCT
*
4475 AAGCCCT
1 AAACCCT
*
4482 AAGCCCT
1 AAACCCT
*
4489 AAGCCCT
1 AAACCCT
*
4496 AAGCCCT
1 AAACCCT
*
4503 -AAGCCT
1 AAACCCT
*
4509 -AGCCCT
1 AAACCCT
*
4515 AAGCCCT
1 AAACCCT
*
4522 AAGCCCT
1 AAACCCT
*
4529 AAGCCCT
1 AAACCCT
*
4536 AAGCCCT
1 AAACCCT
*
4543 AAGCCCT
1 AAACCCT
*
4550 AAGCCCT
1 AAACCCT
*
4557 AAGCCCT
1 AAACCCT
*
4564 AAGCCCT
1 AAACCCT
*
4571 AAGCCCT
1 AAACCCT
*
4578 AAGCCCT
1 AAACCCT
*
4585 AAGCCCT
1 AAACCCT
*
4592 AAGCCCT
1 AAACCCT
*
4599 AAGCCCT
1 AAACCCT
*
4606 AAGCCCT
1 AAACCCT
*
4613 -AAGCCT
1 AAACCCT
*
4619 AAGCCCT
1 AAACCCT
*
4626 AAGCCCT
1 AAACCCT
*
4633 -AAGCCT
1 AAACCCT
*
4639 AAGCCCT
1 AAACCCT
*
4646 AAGCCCT
1 AAACCCT
*
4653 AAGCCCT
1 AAACCCT
*
4660 AAGCCCT
1 AAACCCT
*
4667 AAGCCCT
1 AAACCCT
*
4674 AAGCCCT
1 AAACCCT
*
4681 AAGCCCT
1 AAACCCT
*
4688 AAGCCCT
1 AAACCCT
*
4695 AAGCCCT
1 AAACCCT
*
4702 AAGCCCT
1 AAACCCT
*
4709 AAGCCCT
1 AAACCCT
*
4716 -AAGCCT
1 AAACCCT
*
4722 AAGCCCT
1 AAACCCT
*
4729 -AAGCCT
1 AAACCCT
*
4735 AAGCCCT
1 AAACCCT
*
4742 AAGCCCT
1 AAACCCT
*
4749 AAGCCCT
1 AAACCCT
*
4756 AAGCCCT
1 AAACCCT
*
4763 AAGCCCT
1 AAACCCT
*
4770 -AAGCCT
1 AAACCCT
*
4776 AAGCCCT
1 AAACCCT
*
4783 AAGCCCT
1 AAACCCT
*
4790 AAGCCCT
1 AAACCCT
*
4797 -AAGCCT
1 AAACCCT
*
4803 AAGCCCT
1 AAACCCT
*
4810 AAGCCCT
1 AAACCCT
*
4817 AAGCCCT
1 AAACCCT
*
4824 AAGCCCT
1 AAACCCT
*
4831 AAGCCCT
1 AAACCCT
*
4838 AAGCCCT
1 AAACCCT
*
4845 AAGCCCT
1 AAACCCT
*
4852 AAGCCCT
1 AAACCCT
*
4859 -AAGCCT
1 AAACCCT
*
4865 AAGCCCT
1 AAACCCT
*
4872 AAGCCCT
1 AAACCCT
*
4879 AAGCCCT
1 AAACCCT
*
4886 AAGCCCT
1 AAACCCT
*
4893 AAGCCCT
1 AAACCCT
*
4900 AAGCCCT
1 AAACCCT
*
4907 AAGCCCT
1 AAACCCT
*
4914 -AAGCCT
1 AAACCCT
*
4920 -AAGCCT
1 AAACCCT
*
4926 AAGCCCT
1 AAACCCT
*
4933 -AAGCCT
1 AAACCCT
*
4939 AAGCCCT
1 AAACCCT
*
4946 AAGCCCT
1 AAACCCT
*
4953 AAGCCCT
1 AAACCCT
*
4960 -AAGCCT
1 AAACCCT
*
4966 AAGCCCT
1 AAACCCT
*
4973 -AAGCCT
1 AAACCCT
*
4979 AAGCCCT
1 AAACCCT
*
4986 -AAGCCT
1 AAACCCT
*
4992 AAGCCCT
1 AAACCCT
*
4999 -AAGCCT
1 AAACCCT
*
5005 AAGCCCT
1 AAACCCT
*
5012 AAGCCCT
1 AAACCCT
*
5019 AAGCCCT
1 AAACCCT
*
5026 AAGCCCT
1 AAACCCT
*
5033 -AGCCCT
1 AAACCCT
*
5039 AAGCCCT
1 AAACCCT
*
5046 AAGCCCT
1 AAACCCT
*
5053 AAGCCCT
1 AAACCCT
*
5060 AAGCCCT
1 AAACCCT
*
5067 AAGCCCT
1 AAACCCT
*
5074 AAGCCCT
1 AAACCCT
*
5081 AAGCCCT
1 AAACCCT
*
5088 AAGCCCT
1 AAACCCT
*
5095 AAGCCCT
1 AAACCCT
*
5102 AAGCCCT
1 AAACCCT
*
5109 AAGCCCT
1 AAACCCT
*
5116 AAGCCCT
1 AAACCCT
*
5123 AAGCCCT
1 AAACCCT
*
5130 AAGCCCT
1 AAACCCT
*
5137 AAGCCCT
1 AAACCCT
*
5144 AAGCCCT
1 AAACCCT
5151 CGACCCTCGA
Statistics
Matches: 4747, Mismatches: 225, Indels: 343
0.89 0.04 0.06
Matches are distributed among these distances:
4 4 0.00
5 66 0.01
6 675 0.14
7 3884 0.82
8 64 0.01
9 34 0.01
10 16 0.00
11 4 0.00
ACGTcount: A:0.40, C:0.43, G:0.05, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:5157 original size:7 final size:7
Alignment explanation
Indices: 5147--5401 Score: 510
Period size: 7 Copynumber: 36.4 Consensus size: 7
5137 AAGCCCTAAG
5147 CCCTCGA
1 CCCTCGA
5154 CCCTCGA
1 CCCTCGA
5161 CCCTCGA
1 CCCTCGA
5168 CCCTCGA
1 CCCTCGA
5175 CCCTCGA
1 CCCTCGA
5182 CCCTCGA
1 CCCTCGA
5189 CCCTCGA
1 CCCTCGA
5196 CCCTCGA
1 CCCTCGA
5203 CCCTCGA
1 CCCTCGA
5210 CCCTCGA
1 CCCTCGA
5217 CCCTCGA
1 CCCTCGA
5224 CCCTCGA
1 CCCTCGA
5231 CCCTCGA
1 CCCTCGA
5238 CCCTCGA
1 CCCTCGA
5245 CCCTCGA
1 CCCTCGA
5252 CCCTCGA
1 CCCTCGA
5259 CCCTCGA
1 CCCTCGA
5266 CCCTCGA
1 CCCTCGA
5273 CCCTCGA
1 CCCTCGA
5280 CCCTCGA
1 CCCTCGA
5287 CCCTCGA
1 CCCTCGA
5294 CCCTCGA
1 CCCTCGA
5301 CCCTCGA
1 CCCTCGA
5308 CCCTCGA
1 CCCTCGA
5315 CCCTCGA
1 CCCTCGA
5322 CCCTCGA
1 CCCTCGA
5329 CCCTCGA
1 CCCTCGA
5336 CCCTCGA
1 CCCTCGA
5343 CCCTCGA
1 CCCTCGA
5350 CCCTCGA
1 CCCTCGA
5357 CCCTCGA
1 CCCTCGA
5364 CCCTCGA
1 CCCTCGA
5371 CCCTCGA
1 CCCTCGA
5378 CCCTCGA
1 CCCTCGA
5385 CCCTCGA
1 CCCTCGA
5392 CCCTCGA
1 CCCTCGA
5399 CCC
1 CCC
5402 GAGCCCCGGG
Statistics
Matches: 248, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 248 1.00
ACGTcount: A:0.14, C:0.58, G:0.14, T:0.14
Consensus pattern (7 bp):
CCCTCGA
Found at i:8784 original size:19 final size:19
Alignment explanation
Indices: 8760--8818 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
8750 TTTGGTGCAA
*
8760 AGGGAATCGATCCCCCCTG
1 AGGGAACCGATCCCCCCTG
*
8779 AGGGAACCGATTCCCCCTTTG
1 AGGGAACCGA-TCCCCC-CTG
8800 AAGGGGAACCGATCCCCCC
1 -A-GGGAACCGATCCCCCC
8819 ACAGGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.27
20 6 0.18
21 2 0.06
22 7 0.21
23 9 0.27
ACGTcount: A:0.22, C:0.37, G:0.25, T:0.15
Consensus pattern (19 bp):
AGGGAACCGATCCCCCCTG
Found at i:10792 original size:17 final size:17
Alignment explanation
Indices: 10770--10817 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
10760 TTTCAACATT
10770 TTTGATATTTTGGATTG
1 TTTGATATTTTGGATTG
10787 TTTGAT-TTTGTGGATTG
1 TTTGATATTT-TGGATTG
*
10804 -TTG-GATTTTGGATT
1 TTTGATATTTTGGATT
10818 TATGAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (17 bp):
TTTGATATTTTGGATTG
Found at i:11086 original size:30 final size:30
Alignment explanation
Indices: 11052--11123 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
11042 GGAGAAGAAT
11052 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
11082 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
11112 AGAAGTGTTAAA
1 AG--GTGTTAAA
11124 GTAAGGGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
AGGTGTTAAATGTTTTACATAATAAATTGA
Found at i:11567 original size:76 final size:76
Alignment explanation
Indices: 11440--11638 Score: 339
Period size: 76 Copynumber: 2.6 Consensus size: 76
11430 AATTACAGAT
*
11440 TGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGCTCCG
1 TGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGCTCCG
11505 AGAATTCCAGTA
65 AGAATTCCAGTA
11517 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGCTCCGA
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGCTCCGA
11582 GAATTCCAGTA
66 GAATTCCAGTA
* * *
11593 TGCTCGGAGGGAACCGA-TCCCCCCA-AGGGGGTACTGATTCCCCCCT
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
11639 TGTACAACGG
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
74 18 0.15
75 8 0.07
76 74 0.63
77 18 0.15
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (76 bp):
TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGCTCCGA
GAATTCCAGTA
Found at i:25460 original size:11 final size:11
Alignment explanation
Indices: 25423--25466 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
25413 ATATTTTTAT
25423 TTTTATTATAA
1 TTTTATTATAA
*
25434 TTATAATTATAA
1 TT-TTATTATAA
* *
25446 TTTTTTTATAT
1 TTTTATTATAA
25457 TTTTATTATA
1 TTTTATTATA
25467 GTTTAAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTATTATAA
Found at i:25531 original size:26 final size:26
Alignment explanation
Indices: 25457--25531 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 26
25447 TTTTTTATAT
*
25457 TTTTATTATAGTTTAAATTGATATAA
1 TTTTATTATAGTTTAAATTGATATGA
* *
25483 TTCTTA-TATA---TATATT--TTTGA
1 TT-TTATTATAGTTTAAATTGATATGA
25504 TTTTATTATAGTTTAAATTGATATGA
1 TTTTATTATAGTTTAAATTGATATGA
25530 TT
1 TT
25532 CATATAAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
23 5 0.14
24 5 0.14
26 12 0.32
27 3 0.08
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTATTATAGTTTAAATTGATATGA
Found at i:44486 original size:27 final size:27
Alignment explanation
Indices: 44454--44512 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
44444 TAGAATTCGA
44454 TTAATGGTTAATTCGGTTCGAAATCGG
1 TTAATGGTTAATTCGGTTCGAAATCGG
*
44481 TTAATGGTTAATTCGGTTTGAAATCGG
1 TTAATGGTTAATTCGGTTCGAAATCGG
44508 TTAAT
1 TTAAT
44513 TAACCTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (27 bp):
TTAATGGTTAATTCGGTTCGAAATCGG
Found at i:51462 original size:20 final size:19
Alignment explanation
Indices: 51439--51485 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
51429 CGATATACCA
51439 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
51459 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
51479 GGTAAAA
1 GGTAAAA
51486 CATTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:51525 original size:181 final size:181
Alignment explanation
Indices: 51228--51698 Score: 689
Period size: 181 Copynumber: 2.6 Consensus size: 181
51218 GATCCAAATT
* * * * * **
51228 AAAAATGTGTTGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
51293 AAACCGGTAAAGC-TCTACTGGATACATTTAAAGT-TTGGTACTTTAATATAAGGATCGACACTT
66 AAACCGGTAAAACAT-TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
*
51356 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTA
*
51409 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
51474 AAACCGGTAAAACATTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACATTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
51538 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
** *
51589 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
51654 AAACCGGTAAAACGA-TACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAAC-ATTACCGGATATATTGAAAGTGTCGATACTTT
51699 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
180 108 0.41
181 147 0.56
182 9 0.03
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACATTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:51642 original size:20 final size:19
Alignment explanation
Indices: 51619--51665 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
51609 CGATATAACA
51619 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
51639 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
51659 GGTAAAA
1 GGTAAAA
51666 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:51670 original size:17 final size:19
Alignment explanation
Indices: 51630--51670 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
51620 GTAAAAATAT
*
51630 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
51650 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
51667 GATA
1 GATA
51671 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:53920 original size:21 final size:21
Alignment explanation
Indices: 53894--53958 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
53884 AAGACAATCA
* *
53894 AGAGTCAAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
53915 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
53936 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
53957 AG
1 AG
53959 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:54029 original size:33 final size:33
Alignment explanation
Indices: 53992--54057 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
53982 AAATAGATGG
*
53992 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
54025 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
54058 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:55875 original size:19 final size:19
Alignment explanation
Indices: 55851--55899 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
55841 AATGTAGGGT
55851 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
55870 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
55889 TAATTTTGTAT
1 TAATTTTGTAT
55900 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:56475 original size:200 final size:200
Alignment explanation
Indices: 56132--56895 Score: 1289
Period size: 200 Copynumber: 3.8 Consensus size: 200
56122 AATTTACAAT
* *
56132 ATGGCAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
56197 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
56262 ATGAGAGAATAGGTCTAAATAATGTATCTACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
56327 AATGA
196 AATGA
* *
56332 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAGCAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
56397 CGAAACCCATAAGTATAATGTAATAGGTAATATTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
56462 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
56527 AATGA
196 AATGA
* * *
56532 ATGGCAAACAGGGTGCAATAATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
56597 CGAAACCCATATGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGGTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
56662 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
56727 AATGA
196 AATGA
56732 ATGGCAAACAGGGTGCAA-ACATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACA
1 ATGGCAAACAGGGTGCAACA-ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACA
* * *
56796 TCGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTT
65 TCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
* * *
56861 TATGGGAGAATTGGTATATAAT-ATGTATCGACACT
130 TATGAGAGAATAGGTCTA-AATAATGTATCGACACT
56896 GTTTAATGTT
Statistics
Matches: 531, Mismatches: 31, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 527 0.99
201 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:58402 original size:6 final size:6
Alignment explanation
Indices: 58391--58448 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
58381 CAAGCGGTCA
* * * * *
58391 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
58439 ATGATG ATGA
1 ATGAAG ATGA
58449 TCCAAACAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:58449 original size:12 final size:12
Alignment explanation
Indices: 58391--58448 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
58381 CAAGCGGTCA
*
58391 ATGAAGATGAAG
1 ATGACGATGAAG
*
58403 CTGACGATGAAG
1 ATGACGATGAAG
58415 ATGACGATGAAG
1 ATGACGATGAAG
*
58427 ATGACGATGATG
1 ATGACGATGAAG
*
58439 ATGATGATGA
1 ATGACGATGA
58449 TCCAAACAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:60013 original size:183 final size:182
Alignment explanation
Indices: 59658--60242 Score: 949
Period size: 183 Copynumber: 3.2 Consensus size: 182
59648 CAAAGTTTTC
* * *
59658 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGGAAAATATGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
59723 CAAAAAGTGTCG--ATTGAAAAAACATCGAAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TAAACATCG-AACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
59786 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCA
127 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
59842 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
59907 CAAAAAGTGTCGACATTTATACATCAGAACCCAGAATTATAATGTAATATATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTAAACATC-GAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
59972 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
60025 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
60090 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTAAACATC-GAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* * * *
60155 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGATATACAATCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
60208 ACACTTTTTAATTTTGTGTCGATACTTTATGTCCA
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
60243 AAATTATAAT
Statistics
Matches: 378, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
183 300 0.79
184 75 0.20
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTAAACATCGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:60337 original size:120 final size:120
Alignment explanation
Indices: 60124--60362 Score: 379
Period size: 120 Copynumber: 2.0 Consensus size: 120
60114 CGGAACCCAG
*
60124 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
* *
60189 AGATATACAATCTATATCGACACTTTTTAATTTTGTGTCGATACTTTATGTCCAA
66 AGATATACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAA
* * * *
60244 AATTATAATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
* * * *
60309 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
66 AGATATACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCA
60363 GAATGGAAGA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGATATACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAA
Found at i:60488 original size:303 final size:303
Alignment explanation
Indices: 59941--60531 Score: 1056
Period size: 303 Copynumber: 2.0 Consensus size: 303
59931 CAGAACCCAG
*
59941 AATTATAATGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
60006 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
60071 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
* *
60136 ATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGATATACAATC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGATATACAACC
*
60201 TATATCGACACTTTTTAATTTTGTGTCGATACTTTATGTCCAA
261 TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAA
* * * * *
60244 AATTATAATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
60309 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
* *
60374 AAATGTGTTGATACCTTGTCTAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
* *
60439 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGATATACAACC
60504 TATATCGACACTTTTTAATATTGTGTCG
261 TATATCGACACTTTTTAATATTGTGTCG
60532 CTAATTTTAA
Statistics
Matches: 274, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 274 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (303 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGATATACAACC
TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAA
Found at i:63925 original size:23 final size:23
Alignment explanation
Indices: 63869--63925 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
63859 TTACTTATAA
*
63869 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* ** *
63893 ATTACATTATATAAGCGCTATCT
1 AATATGTTATATAAGCGCTACCT
63916 AATATGTTAT
1 AATATGTTAT
63926 TGTACTTGAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:63982 original size:87 final size:87
Alignment explanation
Indices: 63878--64097 Score: 377
Period size: 87 Copynumber: 2.5 Consensus size: 87
63868 AAATATGTCA
* * * *
63878 ATATAAGCGCTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAAAATTT
63943 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
*
63965 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTATTTGATAAAATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAAAATTT
64030 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
* *
64052 ATATAACCGTTATCTATTACATTATATAAGCGTTACCTAATATGTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTT
64098 GAGTGAGTTT
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 126 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAAAATTT
CCCGTTAAATACCTATTTTATT
Found at i:64012 original size:23 final size:23
Alignment explanation
Indices: 63962--64006 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
63952 TACCTATTTT
* *
63962 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
63985 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
64007 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:64489 original size:22 final size:22
Alignment explanation
Indices: 64445--64489 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
64435 ATTACATAAC
*
64445 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
64467 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
64489 T
1 T
64490 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:64538 original size:23 final size:23
Alignment explanation
Indices: 64507--64579 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
64497 ATAAGTAAAA
* *
64507 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
64530 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
64553 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
64576 ATAT
1 ATAT
64580 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:65025 original size:23 final size:23
Alignment explanation
Indices: 64994--65066 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
64984 ATAAGTAAAA
*
64994 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
65017 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
65040 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
65063 ATAT
1 ATAT
65067 TGTAAATATC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:65204 original size:487 final size:488
Alignment explanation
Indices: 64145--66423 Score: 4055
Period size: 487 Copynumber: 4.7 Consensus size: 488
64135 GTGAGTATGG
64145 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
**
64210 ATGATTTATTTTTTACGTTGTGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
64275 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
64340 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
*
64405 TGAAACACTATTAAAAAAATTGAAATATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
261 TGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
* *
64470 ATAAAAAGTATGAACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAACGCTTATATA
325 ATAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATA
64535 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
390 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
*
64600 TATAAAAGTGTCTATACTTTTTTCACTGT-GAAA
455 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
*
64633 ACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
64698 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
64763 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
* *
64828 TCAAGACAATCAAATAACTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
* *
64893 TGAAACACTATTAAAAAATTAAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTCTA
261 TGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTA
64958 TAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
326 TAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
65023 TGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAA-TATCTATCCTTTTT
391 TGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTT
65087 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
456 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
* * *
65120 ACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTTTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
65185 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
65250 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
*
65315 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
*
65380 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTT
261 TGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
65445 ATAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATA
325 ATAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATA
65510 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
390 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
*
65575 TATAAAAGTGTACATACTTTTTTCACTGTGGAAA
455 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
*
65609 ACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
65674 ATGATTT-TTTTTTACGTTACGGTATATATTATTATTAAATTAAAAA-AATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
65737 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
* *
65802 TCAAAACAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAGCA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
65867 TGAAACAC-------AAATT---ACAT--A--AC-T---TTT-AAAAAAGTATCGATCCTTTTTA
261 TGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTA
* *
65913 TAAAAAGTATGTACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
326 TAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
* * *
65978 TGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGTTTATATTGTAAATTATCTATCCTTTTT
391 TGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTT
*
66043 ATAAAAGTGTCTATACTTTTTTCACTGTGGAAA
456 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
* *
66076 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGACGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
* * *
66141 ATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAGAAAAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
*
66206 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
*
66271 TCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
*
66336 TGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCTATCCTTTTTA
261 TGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTA
*
66401 TAAAAAAGTATGGACGCTTTCAA
326 T-AAAAAGTATGGACACTTTCAA
66424 CATATTATAA
Statistics
Matches: 1719, Mismatches: 47, Indels: 49
0.95 0.03 0.03
Matches are distributed among these distances:
467 246 0.14
468 41 0.02
469 150 0.09
471 1 0.00
472 2 0.00
474 1 0.00
476 9 0.01
479 9 0.01
481 1 0.00
483 2 0.00
484 1 0.00
486 41 0.02
487 589 0.34
488 493 0.29
489 133 0.08
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (488 bp):
ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
TGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTA
TAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
TGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTT
ATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
Found at i:65513 original size:23 final size:23
Alignment explanation
Indices: 65482--65554 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
65472 ATAAGTAAAA
*
65482 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
65505 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
65528 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
65551 ATAT
1 ATAT
65555 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:65980 original size:23 final size:23
Alignment explanation
Indices: 65949--66021 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
65939 ATAGGTAAAA
* *
65949 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
*
65972 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
65995 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
66018 ATAT
1 ATAT
66022 TGTAAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:69141 original size:37 final size:36
Alignment explanation
Indices: 69042--69143 Score: 143
Period size: 35 Copynumber: 2.8 Consensus size: 36
69032 TGGTAACCAA
69042 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAA-GGTTTTCAAAGTTTGGTAAATGTTT
* *
69079 CTTTG-AAAAGGGTTTTCGAAGTTTGGTAAATGTTT
1 CTTTGAAAAAAGGTTTTCAAAGTTTGGTAAATGTTT
* *
69114 CTTTGAAAAATAGTTTTTCAAATTTTGGTA
1 CTTTGAAAAA-AGGTTTTCAAAGTTTGGTA
69144 GATGCTTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 29 0.51
36 8 0.14
37 20 0.35
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAAAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:73683 original size:35 final size:36
Alignment explanation
Indices: 73637--73758 Score: 149
Period size: 35 Copynumber: 3.4 Consensus size: 36
73627 TAGTAACCAA
73637 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
73674 CTTTG-AAAATGGTTTTCGAAGTTTTGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
73709 CTTTGAAAAATAGTTTTTCAAATTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
73746 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
73759 AATGGATAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 34 0.47
36 14 0.19
37 25 0.34
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:73735 original size:36 final size:36
Alignment explanation
Indices: 73637--73755 Score: 120
Period size: 36 Copynumber: 3.3 Consensus size: 36
73627 TAGTAACCAA
*
73637 CTTTGAAAAA-ATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GATTTTCAAA-TTTTGTAAATGTTT
* *
73674 CTTTG-AAAAT-GGTTTTCGAAGTTTTGTAAATGTTT
1 CTTTGAAAAATAGATTTTC-AAATTTTGTAAATGTTT
* *
73709 CTTTGAAAAATAGTTTTTCAAATTTTGGTAGATGTTT
1 CTTTGAAAAATAGATTTTCAAATTTT-GTAAATGTTT
*
73746 -GTTGAAAAAT
1 CTTTGAAAAAT
73756 GATAATGGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
35 24 0.34
36 26 0.37
37 20 0.29
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATAGATTTTCAAATTTTGTAAATGTTT
Found at i:76059 original size:15 final size:15
Alignment explanation
Indices: 76039--76070 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
76029 TGAGACATTA
*
76039 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
76054 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
76069 CC
1 CC
76071 TACCCAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.69, G:0.16, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:78863 original size:111 final size:111
Alignment explanation
Indices: 78669--79000 Score: 610
Period size: 111 Copynumber: 3.0 Consensus size: 111
78659 TGGAAATCAT
*
78669 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
78734 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* **
78780 ATATCTCGACATTTTGCTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
78845 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
78891 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
78956 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
79001 TTTTTGTAAT
Statistics
Matches: 212, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 212 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:80551 original size:27 final size:27
Alignment explanation
Indices: 80521--80579 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
80511 GCCATATATA
* *
80521 ATGCCGCCATCGCCTTTCCATTACCAG
1 ATGCCGCAATCGCCTTTCAATTACCAG
80548 ATGCCGCAATCGCCTTTCAATTACCAG
1 ATGCCGCAATCGCCTTTCAATTACCAG
80575 ATGCC
1 ATGCC
80580 ACCGCCGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.25
Consensus pattern (27 bp):
ATGCCGCAATCGCCTTTCAATTACCAG
Found at i:80931 original size:21 final size:21
Alignment explanation
Indices: 80907--80950 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
80897 CGACGTTGAC
80907 GATGGTGACAACGACGACGAT
1 GATGGTGACAACGACGACGAT
** *
80928 GATGGTGATGACGACGATGAT
1 GATGGTGACAACGACGACGAT
80949 GA
1 GA
80951 CAGCGAGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (21 bp):
GATGGTGACAACGACGACGAT
Found at i:81135 original size:26 final size:25
Alignment explanation
Indices: 81058--81135 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
81048 TTTTTATTAT
* *
81058 ATTTGTATTTACTTTATTTTGTTTA
1 ATTTATATTTACTTTATTTTGTTCA
81083 ATTGTA-ATTT--TTTATTATT-TCTC-
1 ATT-TATATTTACTTTATT-TTGT-TCA
81106 ATTTAATATTTACTTTATTTTGTTCA
1 ATTT-ATATTTACTTTATTTTGTTCA
81132 ATTT
1 ATTT
81136 GTTGGATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
22 1 0.02
23 11 0.26
24 7 0.17
25 11 0.26
26 12 0.29
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.65
Consensus pattern (25 bp):
ATTTATATTTACTTTATTTTGTTCA
Found at i:85349 original size:87 final size:87
Alignment explanation
Indices: 85203--85365 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
85193 TATGTTATAT
*
85203 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATTGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
85268 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
85290 CATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
85355 AGCGCTTATAT
66 AGCGCTTATAT
85366 TGACCTATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:85791 original size:199 final size:197
Alignment explanation
Indices: 85383--86078 Score: 815
Period size: 199 Copynumber: 3.5 Consensus size: 197
85373 TTTTATAAGT
** **
85383 AAACCGGTATATTTATACCGGTAACATTACAAATTTTA-CTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATATTGGT-ACATTGTAAA-TTTACCTATTACATTATAATTATCGGTTTCG
* * * * *
85447 ATATTTTTTGGATCGATACAATTT--GAAATGTATCAACACTTTATGTGTGCACCTCGTTGGGCA
64 ATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCA
* * * * *
85510 TTCATTCTGGAAAAAAAGTATCAATACAAACTTAA-AAGTATCGATACATTATTTAT-ACATATT
128 TTCATTCTGG-ACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTA--TATGACATATT
85573 TTCTCATA
190 TTCTCATA
* * * *
85581 AAACCGGTATATTTTTATTGGGTACATTGTAAATTTGCCTATCACATTGTAATTATCGGTTTCGA
1 AAACCGGTATATTTATATT-GGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
85646 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACC-CGTTTGGCATT
65 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATT
* *
85710 CATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGATGACATATTTTC
130 CATTCTGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACATTAT-ATGACATATTTTC
85775 TCATA
193 TCATA
* *
85780 AAACTGGTATATTTATA-T--TACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGAT
1 AAACCGGTATATTTATATTGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
*
85842 -TTTATTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGGGAT
66 ATTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTT-GGCAT
* ** * ** *
85906 TCATTCTGGACAATAAATATCGACACAAATTCCACAAGTGTCGATACATTATTTGATTTGTTTTC
129 TCATTCTGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACATTATATGACATATTTTC
*
85971 TAAT-
193 TCATA
* * * * *
85975 TAACCGGTATATTTATATCGGTTACATTGTTAATTTACCTATTATATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATATTGG-TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
86040 TGTTTTTTGGG-TTGATACTTTTAGA-AAATATATCGACAC
65 T-ATTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
86079 ATATTTAGGT
Statistics
Matches: 433, Mismatches: 46, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
194 3 0.01
195 103 0.24
196 17 0.04
197 60 0.14
198 103 0.24
199 138 0.32
200 6 0.01
201 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (197 bp):
AAACCGGTATATTTATATTGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
ATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTC
ATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATATGACATATTTTCTCA
TA
Found at i:90029 original size:195 final size:197
Alignment explanation
Indices: 89582--90325 Score: 941
Period size: 195 Copynumber: 3.8 Consensus size: 197
89572 ACGTGTTTTT
* *
89582 AAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACCGG
1 AAAAGTATCGACACAAATTTACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGG
* * * *
89647 TATACTT-TAACCAGTTACATTGTAAATTTACCTATTACGTTATAATTATCGG-TTCAATG-TTT
66 TATAGTTAT-ACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
89709 TGGGATCGATACAATTTCAAATGTATCGACACTTTGTGCTTGCACCCCGTTTGGCATTCATTCTG
130 TGGGATCGATAC-ATTTTAAAAGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTTTG
89774 GACA
194 GACA
* * * * *
89778 AAAA-TATCGACACAAATATA-AACGTGTCGATACCTTATG-ATCACCTATTTTCTCATAAAATC
1 AAAAGTATCGACACAAATTTACAA-GTGTCGATACATTATGTA-GACCTATTCTCTCATAAAACC
*
89840 GGTATATTTATACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATCGGTTTCGATGTTT
64 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
89904 TTGTGATCGATAC-TTTTAAAA-TATCGACACTTTATGCGTGCACCCCGTTGGGCATTCATTTTG
129 TTGGGATCGATACATTTTAAAAGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTTTG
89967 GACA
194 GACA
* *
89971 AAAAGTATCGACAAAAATTTCCACAAGTGTCGATACA-TATGTAGACCTATGCTCTCATAAAACC
1 AAAAGTATCGACACAAATTT--ACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
*
90035 GGTATAGTTATACCGGTTACA-TGTAAA-TTA--TATTACATTATAATTATGGGTTTCGATGTTT
64 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
90096 TTGGGATCGATAC-TTTTATAAATGTATTGACACTTTATGTGTGCA-CCCGTTTGGCATTCGTTT
129 TTGGGATCGATACATTTTA-AAA-GTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTT
90159 TGGAC-
192 TGGACA
* * * * * * *
90164 AAAAGTATTGACACAAATTCCT-CAAGTGTCGATACATTATGTATATCTATTTTCTAAAAAAAAC
1 AAAAGTATCGACACAAATT--TACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* *
90228 GGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATT-TTGGTTTCGATGTTT
64 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
90292 TTGGGATCGATACTTTTTAAAATGTATCGACACT
129 TTGGGATCGATACATTTTAAAA-GTATCGACACT
90326 CTATAGGAAA
Statistics
Matches: 485, Mismatches: 42, Indels: 42
0.85 0.07 0.07
Matches are distributed among these distances:
192 61 0.13
193 107 0.22
194 81 0.17
195 142 0.29
196 72 0.15
197 22 0.05
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (197 bp):
AAAAGTATCGACACAAATTTACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGG
TATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGATCGATACATTTTAAAAGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTTTGGA
CA
Found at i:90592 original size:23 final size:25
Alignment explanation
Indices: 90565--90616 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
90555 AAATTTATAT
90565 TGAAATTCAAACT-CAAAT-TGAAA
1 TGAAATTCAAACTCCAAATATGAAA
*
90588 TGAAATTCAAACTCCATATATGAAA
1 TGAAATTCAAACTCCAAATATGAAA
90613 TGAA
1 TGAA
90617 TATGAAATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 13 0.50
24 4 0.15
25 9 0.35
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (25 bp):
TGAAATTCAAACTCCAAATATGAAA
Found at i:91850 original size:3 final size:3
Alignment explanation
Indices: 91842--91880 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
91832 TACTTGTTGG
* * *
91842 ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
91881 TTTATTGACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:91859 original size:12 final size:12
Alignment explanation
Indices: 91842--91880 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
91832 TACTTGTTGG
*
91842 ATCATCATCATC
1 ATCATCATCTTC
91854 ATCATCATCTTC
1 ATCATCATCTTC
*
91866 ATCGTCATCTTC
1 ATCATCATCTTC
91878 ATC
1 ATC
91881 TTTATTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:93686 original size:180 final size:188
Alignment explanation
Indices: 93311--94180 Score: 688
Period size: 175 Copynumber: 4.8 Consensus size: 188
93301 ATTTAAAATG
* * * *
93311 GTATCGACACAAATTTAATAATTGTCGATAC-TTATG-ATGACATATTTCTCATAAAACCGGTAT
1 GTATCGACACAAAATTAACAAGTGTCGATACATTATGTA-GACCTA--TCTCATAAAA-CGGTAT
** * * * *
93374 ATTT-TACCAGTTACATT-GGAA--ACC---TACAT-TAA-TATCGGTTTTGAAGTTTTTAGGAT
62 ATTTATACCAGTTACATTAAAAATTACCTATTACATATAATTATGGGTTTCGATG-TTTTGGGAT
*
93430 CGATACTTTTTAAAAATATCGACACTTTATGGGTGCACCC-GTTGGGCATTCC-TCTGGACCAAA
126 CGATACTTTTTAAAAATATCG-CAC-TTAT-GGTGCACCCTTTTGGGCATTCCTTCTGGACCAAA
93493 A
188 A
* * *
93494 GTATCGACACAAATTTCACAAGTGTCGATACA-TGTGTAGACCTATCTC-TAAAA-GGTA-A-TT
1 GTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTATCTCATAAAACGGTATATTT
* *
93554 ATATCAG-TATATTAAAAACTTACCTATTAC-T-TAATTATGGGTTTCGATGTTTTGGGATCGAT
66 ATACCAGTTACATTAAAAA-TTACCTATTACATATAATTATGGGTTTCGATGTTTTGGGATCGAT
*
93616 ACTTTTTAAAAATA-CG-ACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGA-TAAAA
130 ACTTTTTAAAAATATCGCAC-TTAT-GGTGCACCCTTTTGGGCATTCCTTCTGGACCAAAA
* * * * *
93674 GTATCAACACAAAATAAACAAGTGTCGATATATTTTCTAGACCTATTCTCATAAAACCGGTATAT
1 GTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTA-TCTCATAAAA-CGGTATAT
* *
93739 TTATACCGGTTACATTGAAAAATGACCTATTACAT-TAATTATGGGTTTCGATGTTTTTGGGATC
64 TTATACCAGTTACATT-AAAAATTACCTATTACATATAATTATGGGTTTCGATG-TTTTGGGATC
* *
93803 GATACTTTTTATAAAGTATCG-----A-----CA--CTTTATGGGCA----TTCTGGA-CAACA
127 GATACTTTTTA-AAAATATCGCACTTATGGTGCACCCTTT-TGGGCATTCCTTCTGGACCAAAA
* * * * * *
93850 GTATCGACACAAATTTCAGAA-AGTCGATACATTATGTAGACAATTCTCTCATAAAACCGGTATA
1 GTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGAC--CTATCTCATAAAA-CGGTATA
* * ** * *
93914 -GTATACTAGTTACATTGTAAATTACCTATTACATATATTTATAGGTTTCGATGTTTCTGGGATC
63 TTTATACCAGTTACATTAAAAATTACCTATTACATATAATTATGGGTTTCGATGTTT-TGGGATC
* * * * * * *
93978 GATACTTTTTATAAATGTATCGCACTTATGCTTCAGCATTTTGGGCATTCATTCTGGACAAAAA
127 GATACTTTTTA-AAA-ATATCGCACTTATGGTGCACCCTTTTGGGCATTCCTTCTGGACCAAAA
* * * *
94042 GTATCGATACAAAATTAAAAAGTGTTGATACA-TATGTAGACCTATCAT-ATAAAATTGGTATAT
1 GTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTATC-TCATAAAA-CGGTATAT
* *
94105 TTATACCGGTTATATTACAAAATTACCTATT--ATATAA-T-TGGGTTTCGATGTTTTGGGATCG
64 TTATACCAGTTACATTA-AAAATTACCTATTACATATAATTATGGGTTTCGATGTTTTGGGATCG
*
94166 ATACTTTTTTAAAAT
128 ATACTTTTTAAAAAT
94181 GTATTGACAT
Statistics
Matches: 563, Mismatches: 71, Indels: 104
0.76 0.10 0.14
Matches are distributed among these distances:
174 18 0.03
175 67 0.12
176 57 0.10
177 9 0.02
178 4 0.01
179 21 0.04
180 56 0.10
181 25 0.04
182 34 0.06
183 55 0.10
184 1 0.00
185 5 0.01
186 6 0.01
187 31 0.06
188 32 0.06
189 25 0.04
190 41 0.07
191 25 0.04
192 43 0.08
193 8 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (188 bp):
GTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTATCTCATAAAACGGTATATTT
ATACCAGTTACATTAAAAATTACCTATTACATATAATTATGGGTTTCGATGTTTTGGGATCGATA
CTTTTTAAAAATATCGCACTTATGGTGCACCCTTTTGGGCATTCCTTCTGGACCAAAA
Found at i:95891 original size:14 final size:15
Alignment explanation
Indices: 95849--95893 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
95839 ATTCTTCCTC
*
95849 CTTCCTCCATCTTTTT
1 CTTCCTCCAT-ATTTT
95865 CTTCCTCCATATTTT
1 CTTCCTCCATATTTT
*
95880 CTT-CTTCATATTTT
1 CTTCCTCCATATTTT
95894 TTCAGTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 10 0.37
15 7 0.26
16 10 0.37
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (15 bp):
CTTCCTCCATATTTT
Found at i:95894 original size:15 final size:16
Alignment explanation
Indices: 95849--95894 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
95839 ATTCTTCCTC
*
95849 CTTCCTCCATCTTTTT
1 CTTCCTCCATATTTTT
95865 CTTCCTCCATA-TTTT
1 CTTCCTCCATATTTTT
*
95880 CTT-CTTCATATTTTT
1 CTTCCTCCATATTTTT
95895 TCAGTTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 11 0.41
16 10 0.37
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (16 bp):
CTTCCTCCATATTTTT
Found at i:96119 original size:33 final size:33
Alignment explanation
Indices: 96079--96178 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
96069 ATATCTTAAG
96079 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
96112 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
* *
96145 TTCACCCATCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
96178 T
1 T
96179 CCATTTATTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.27, C:0.45, G:0.00, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAAATTCTTTCACCAC
Found at i:96236 original size:21 final size:21
Alignment explanation
Indices: 96211--96255 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
96201 CCCCCTTATG
96211 TCTCTCAAGTGTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCGAC
*
96232 TCTCTCAAGTTTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCGAC
96253 TCT
1 TCT
96256 TGATTGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTGTCTCTTCGAC
Found at i:96357 original size:15 final size:15
Alignment explanation
Indices: 96337--96369 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
96327 ACTCTACTTT
96337 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
96352 CCCTCATCGTCATCC
1 CCCTCACCGTCATCC
96367 CCC
1 CCC
96370 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.61, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:98962 original size:180 final size:180
Alignment explanation
Indices: 98633--99295 Score: 837
Period size: 180 Copynumber: 3.7 Consensus size: 180
98623 TACGCGTACT
* * * * * *
98633 TATTAAAGTATCGACACTTTCAATATATACAGTAGCGT-TTTACTGGTTTT-ATCATTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGC-TCTATACCGGTTTTGTTCATTT-AAGAC
* * * * * * *
98696 CGATTTTGTCATATTTTTACCTATTATCTCGTTATAGATCGATACATTTTTATATAGTATCGACA
64 CGATTTTGTCATA-TTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACA
98761 CTTTATAGGCACTAAAATGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
128 CTTTATAGGCACTAAAATGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
*
98814 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTTC-TTTAGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTA-AGACC
* *
98878 GATTTTGTCATATTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAACGTATCGACACT
65 GATTTTGTCATATTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACACT
* *
98943 TTATAGACACTAAAATGCTTCTCATTTAAATTCACAAAA-TGTCGATAC-T-
130 TTATAGGCACTAAAATGCTTCTCTTTTAAATTCA-AAAAGTGTCGATACTTA
* * * *
98992 TATTAAAGTATCGACACTTTCAATATAT-CGGTTGCTCTATACCGATTTT-ATCCTTT-AGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTAAGACCG
* **
99054 GTTTTGTCATATTTTAGTTGTTATATCGATGTGGATCGATACATTGTT-TAAAGTATCGACACTT
66 ATTTTGTCATATTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACACTT
* * * *
99118 TATAGGCGCTAAACTGCTTATCTTTTAAATTCACAAAGTGTCGATACTTA
131 TATAGGCACTAAAATGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* * * *
99168 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTA-CGGTTTTG-TCTTTTCAAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTT-AAGACC
* * * *
99231 GGTTTTTGTCATAATTTTACATGTTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
65 -GATTTTGTCAT-ATTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACA
99296 TAAACCGACA
Statistics
Matches: 426, Mismatches: 41, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
173 3 0.01
174 52 0.12
175 51 0.12
176 41 0.10
177 31 0.07
178 33 0.08
179 11 0.03
180 122 0.29
181 80 0.19
182 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (180 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTAAGACCG
ATTTTGTCATATTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACACTT
TATAGGCACTAAAATGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
Found at i:105358 original size:75 final size:75
Alignment explanation
Indices: 105278--105421 Score: 261
Period size: 75 Copynumber: 1.9 Consensus size: 75
105268 TTTGGTAACA
* *
105278 AAGGGAGCTTTTTAACAGCAGTTATACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
1 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
105343 GCGACCTCAG
66 GCGACCTCAG
*
105353 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGTAGAAGACT
1 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
105418 GCGA
66 GCGA
105422 ACCGCAGCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (75 bp):
AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
GCGACCTCAG
Found at i:107927 original size:2 final size:2
Alignment explanation
Indices: 107920--107945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107910 CAAAGGCAAT
107920 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
107946 ATTATTGATA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:109135 original size:24 final size:24
Alignment explanation
Indices: 109106--109179 Score: 148
Period size: 24 Copynumber: 3.1 Consensus size: 24
109096 ATTAAAAGCT
109106 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
109130 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
109154 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
109178 AA
1 AA
109180 TCAACATTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.51, C:0.04, G:0.32, T:0.12
Consensus pattern (24 bp):
AAAAGAAGCTTAGAGATAGAAGGG
Found at i:110022 original size:23 final size:23
Alignment explanation
Indices: 109996--110040 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
109986 AGGCATAGAA
109996 AAATGTGCCACAAAGACAGAGAT
1 AAATGTGCCACAAAGACAGAGAT
** *
110019 AAATGTGTTATAAAGACAGAGA
1 AAATGTGCCACAAAGACAGAGA
110041 ATATGTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (23 bp):
AAATGTGCCACAAAGACAGAGAT
Found at i:111284 original size:26 final size:27
Alignment explanation
Indices: 111255--111306 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
111245 TTTAAGTATA
*
111255 TTTTCTTTTTAC-ACAT-TAATTATTAG
1 TTTTCTTTATACTAC-TGTAATTATTAG
111281 TTTTCTTTATACTACTGTAATTATTA
1 TTTTCTTTATACTACTGTAATTATTA
111307 TTGTAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTCTTTATACTACTGTAATTATTAG
Found at i:111644 original size:13 final size:13
Alignment explanation
Indices: 111626--111651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111616 TAATATAATG
111626 TAGTTTTTGAAAA
1 TAGTTTTTGAAAA
111639 TAGTTTTTGAAAA
1 TAGTTTTTGAAAA
111652 CCTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TAGTTTTTGAAAA
Found at i:111670 original size:37 final size:37
Alignment explanation
Indices: 111626--111854 Score: 143
Period size: 38 Copynumber: 6.2 Consensus size: 37
111616 TAATATAATG
*
111626 TAGTTTTTGAAAATAGTTTTTGAAAACCTATAATATA
1 TAGTTTTTGAAAATAGTTTTTGAAAACATATAATATA
* *
111663 TAGTTTTTAGAAAA-CGTTTTTTGAAAGCATATAATATA
1 TAGTTTTT-GAAAATAG-TTTTTGAAAACATATAATATA
* * *
111701 TAGTTTTTAAAAAATTAATTTTTGAAAATATAT-A-ATA
1 TAGTTTTT-GAAAA-TAGTTTTTGAAAACATATAATATA
* * * * * *
111738 -AGGTTTTGAAACTATTTTTTGACAATATATATTATA
1 TAGTTTTTGAAAATAGTTTTTGAAAACATATAATATA
* * * **
111774 TAG-TTTTGAAAACACATTTTT-TAAATGTATAATATACA
1 TAGTTTTTGAAAATA-GTTTTTGAAAACATATAATAT--A
* *
111812 TAG-TTTTAAAAAT-GATTTTTGAAAACGTAT-ATAATA
1 TAGTTTTTGAAAATAG-TTTTTGAAAACATATAAT-ATA
111848 TAGTTTT
1 TAGTTTT
111855 CAAAACGTAT
Statistics
Matches: 152, Mismatches: 26, Indels: 28
0.74 0.13 0.14
Matches are distributed among these distances:
34 16 0.11
35 3 0.02
36 32 0.21
37 29 0.19
38 59 0.39
39 13 0.09
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (37 bp):
TAGTTTTTGAAAATAGTTTTTGAAAACATATAATATA
Found at i:111851 original size:36 final size:35
Alignment explanation
Indices: 111618--111887 Score: 121
Period size: 36 Copynumber: 7.4 Consensus size: 35
111608 ATATATAATA
* *
111618 ATATAATGTAGTTTTTGAAAAT-AGTTTTTGAAAACCT
1 ATATAATATAG-TTTTAAAAATGA-TTTTTGAAAA-CT
* * *
111655 ATA-ATATATAGTTTTTAGAAAACGTTTTTTGAAAGC-
1 ATATA-ATATAG-TTTTA-AAAATGATTTTTGAAAACT
*
111691 ATATAATATATAGTTTTTAAAAAATTAATTTTTGAAAA-T
1 ATAT-A-ATATAG-TTTT-AAAAA-TGATTTTTGAAAACT
* *
111730 ATATAATA-AGGTTTTGAAACT-ATTTTTTGACAATA-T
1 ATATAATATA-GTTTTAAAAATGA-TTTTTGA-AA-ACT
* * * **
111766 ATATTATATAGTTTTGAAAACA-CATTTTTTAAATGT
1 ATATAATATAGTTTT-AAAA-ATGATTTTTGAAAACT
*
111802 ATAATATACATAGTTTTAAAAATGATTTTTGAAAACGT
1 AT-ATA-ATATAGTTTTAAAAATGATTTTTGAAAAC-T
* * *
111840 ATATAATATAGTTTTCAAAACG-TATTTTAAAAAC-
1 ATATAATATAGTTTTAAAAATGAT-TTTTGAAAACT
111874 ATAT-ATATAGTTTT
1 ATATAATATAGTTTT
111888 TTAAAACGGT
Statistics
Matches: 185, Mismatches: 26, Indels: 48
0.71 0.10 0.19
Matches are distributed among these distances:
33 11 0.06
34 12 0.06
35 6 0.03
36 52 0.28
37 46 0.25
38 44 0.24
39 14 0.08
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (35 bp):
ATATAATATAGTTTTAAAAATGATTTTTGAAAACT
Found at i:111994 original size:11 final size:11
Alignment explanation
Indices: 111972--112021 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
111962 TTATATAGTT
111972 TTTATTATTATA
1 TTTATTA-TATA
111984 TTTATTATATA
1 TTTATTATATA
*
111995 -TTATTATTTA
1 TTTATTATATA
112005 TTTATTATATA
1 TTTATTATATA
112016 TTTATT
1 TTTATT
112022 GTATTTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
10 9 0.26
11 19 0.54
12 7 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTATATA
Found at i:111998 original size:19 final size:19
Alignment explanation
Indices: 111974--112029 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
111964 ATATAGTTTT
111974 TATTATTATATTTATTATA
1 TATTATTATATTTATTATA
111993 TATTATTATTTATTTATTATA
1 TATTATTA--TATTTATTATA
*
112014 TATTTATTGTATTTAT
1 TA-TTATTATATTTAT
112030 CTATTTAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 13 0.39
22 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTATTATATTTATTATA
Found at i:112000 original size:36 final size:32
Alignment explanation
Indices: 111955--112036 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 32
111945 TTTTTTAAAA
*
111955 TATAGTATTATATAGTT-TTTATTATTATATTTAT
1 TATA-TATTAT-TATTTATTTATTA-TATATTTAT
111989 TATATATTATTATTTATTTATTATATATTTAT
1 TATATATTATTATTTATTTATTATATATTTAT
*
112021 TGTAT-TTATCTATTTA
1 TATATATTAT-TATTTA
112037 ACCATTTCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
31 4 0.09
32 23 0.52
33 13 0.30
34 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (32 bp):
TATATATTATTATTTATTTATTATATATTTAT
Found at i:112002 original size:17 final size:18
Alignment explanation
Indices: 111955--112036 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 18
111945 TTTTTTAAAA
111955 TATAGTATTATATAGTTT-T
1 TATA-TATTATATA-TTTAT
111974 TAT-TA-T-TATATTTAT
1 TATATATTATATATTTAT
111989 TATATATTAT-TATTTA-
1 TATATATTATATATTTAT
112005 T-T-TATTATATATTTAT
1 TATATATTATATATTTAT
* *
112021 TGTAT-TTATCTATTTA
1 TATATATTATATATTTA
112037 ACCATTTCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
14 9 0.17
15 15 0.28
16 5 0.09
17 20 0.37
18 2 0.04
19 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (18 bp):
TATATATTATATATTTAT
Found at i:112005 original size:4 final size:4
Alignment explanation
Indices: 111972--112036 Score: 55
Period size: 4 Copynumber: 16.0 Consensus size: 4
111962 TTATATAGTT
*
111972 TTTA -TTA TTATA TTTA TTATA TATTA -TTA TTTA TTTA -TTA TATA TTTA
1 TTTA TTTA TT-TA TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
*
112020 TTGTA TTTA TCTA TTTA
1 TT-TA TTTA TTTA TTTA
112037 ACCATTTCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 9 0.18
4 27 0.54
5 13 0.26
6 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:112487 original size:17 final size:17
Alignment explanation
Indices: 112461--112507 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
112451 ACATCAATGA
* *
112461 CAACAGAGCAATCAAGC
1 CAACAAAGCAAACAAGC
*
112478 CAACAAAGCAAACAAGG
1 CAACAAAGCAAACAAGC
112495 CAAGCAAAGCAAA
1 CAA-CAAAGCAAA
112508 GCATTCGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.55, C:0.26, G:0.17, T:0.02
Consensus pattern (17 bp):
CAACAAAGCAAACAAGC
Found at i:116376 original size:26 final size:26
Alignment explanation
Indices: 116346--116408 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
116336 GGTGAAATTC
*
116346 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
116372 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
116398 TTGGTCATTTC
1 TTGGTCATTTC
116409 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:121631 original size:26 final size:26
Alignment explanation
Indices: 121601--121663 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
121591 GGTGAAATTC
*
121601 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
121627 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
121653 TTGGTCATTTC
1 TTGGTCATTTC
121664 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:126784 original size:26 final size:26
Alignment explanation
Indices: 126754--126816 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
126744 GGTGAAATTC
*
126754 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
126780 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
126806 TTGGTCATTTC
1 TTGGTCATTTC
126817 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:131937 original size:26 final size:26
Alignment explanation
Indices: 131907--131969 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
131897 GGTGAAATTC
*
131907 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
131933 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
131959 TTGGTCATTTC
1 TTGGTCATTTC
131970 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:134882 original size:13 final size:13
Alignment explanation
Indices: 134866--134890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134856 AGAAAAGTTT
134866 AAAATATCAAAAC
1 AAAATATCAAAAC
134879 AAAATATCAAAA
1 AAAATATCAAAA
134891 TAATCAATAA
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:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATATCAAAAC
Found at i:135413 original size:27 final size:27
Alignment explanation
Indices: 135375--135437 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
135365 CATTTTGATC
*
135375 CGAACTAAAATTAA-TCCGATCCAAGCG
1 CGAACTGAAATTAACT-CGATCCAAGCG
* * *
135402 CGAACTGAAATTAACTTGATCTAAGCT
1 CGAACTGAAATTAACTCGATCCAAGCG
135429 CGAACTGAA
1 CGAACTGAA
135438 TCTGATGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
CGAACTGAAATTAACTCGATCCAAGCG
Found at i:144198 original size:13 final size:13
Alignment explanation
Indices: 144169--144197 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
144159 TTTTTAAAAT
144169 AAAATATTATTTA
1 AAAATATTATTTA
144182 AAAATATT-TTTA
1 AAAATATTATTTA
144194 AAAA
1 AAAA
144198 ACTTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:145107 original size:20 final size:20
Alignment explanation
Indices: 145084--145125 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
145074 TATAAAAATG
*
145084 CAACAAGATATATAGAAAGA
1 CAACAAAATATATAGAAAGA
145104 CAACAAAATATATAGAAAGA
1 CAACAAAATATATAGAAAGA
145124 CA
1 CA
145126 CTTATGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.14
Consensus pattern (20 bp):
CAACAAAATATATAGAAAGA
Found at i:150571 original size:22 final size:22
Alignment explanation
Indices: 150545--150589 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
150535 TTGAGTAAAC
*
150545 TTATATAAA-ATTTATAAAATTT
1 TTATAGAAAGATTTA-AAAATTT
150567 TTATAGAAAGTATTTAAAAATTT
1 TTATAGAAAG-ATTTAAAAATTT
150590 GTTAGATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATAGAAAGATTTAAAAATTT
Found at i:167179 original size:42 final size:42
Alignment explanation
Indices: 167128--167209 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
167118 CTAGAAAACA
* ** *
167128 TTTTCCGGAAAATGCTTTCCGATGTTTGATAGTTGTAATTTG
1 TTTTACGGAAAACACTTTCCAATGTTTGATAGTTGTAATTTG
*
167170 TTTTACGGAAAACATTTTCCAATGTTTGATAGTTGTAATT
1 TTTTACGGAAAACACTTTCCAATGTTTGATAGTTGTAATT
167210 GATTTGTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTTACGGAAAACACTTTCCAATGTTTGATAGTTGTAATTTG
Found at i:167434 original size:13 final size:13
Alignment explanation
Indices: 167416--167440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167406 ATAGTTTTAA
167416 TAATATTATATTT
1 TAATATTATATTT
167429 TAATATTATATT
1 TAATATTATATT
167441 AATATGTACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:170387 original size:23 final size:22
Alignment explanation
Indices: 170367--170415 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 22
170357 AACGCGATTT
170367 TGAAAAATGTGTTGCTGCGATAG
1 TGAAAAA-GTGTTGCTGCGATAG
170390 TGAAAAAGTG-T--TGCGATAG
1 TGAAAAAGTGTTGCTGCGATAG
170409 TGAAAAA
1 TGAAAAA
170416 TCCAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.58
21 1 0.04
22 3 0.12
23 7 0.27
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (22 bp):
TGAAAAAGTGTTGCTGCGATAG
Found at i:170728 original size:6 final size:6
Alignment explanation
Indices: 170717--170743 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
170707 TTCCGTCTCG
170717 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
170744 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:170993 original size:21 final size:21
Alignment explanation
Indices: 170956--171000 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
170946 GCGATTTTCT
** *
170956 AAAATCGCGTTGTGAATTTGG
1 AAAATCGCGTTACGAATCTGG
170977 AAAATCGCGTTACGAATCTGG
1 AAAATCGCGTTACGAATCTGG
170998 AAA
1 AAA
171001 CTGATTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (21 bp):
AAAATCGCGTTACGAATCTGG
Found at i:179667 original size:52 final size:51
Alignment explanation
Indices: 179518--179672 Score: 168
Period size: 52 Copynumber: 3.0 Consensus size: 51
179508 TTTATATTGC
* * *
179518 AAAAAAATGTAACACTTAATACATACTTACACTGATATAAGTGAATAAAAAT
1 AAAAAAATGTAACACTTAACACATACTTACAC-GATGTAAGTAAATAAAAAT
* * * * * *
179570 AAACAAGTGTAACGCTTAACACATACTTACACCAGCGTAACTAAATAAAACA-
1 AAAAAAATGTAACACTTAACACATACTTACACGA-TGTAAGTAAATAAAA-AT
* *
179622 AAAAAAATATAGCACTTAACACATACTTACAACGATGTAAGTAAATAAAAA
1 AAAAAAATGTAACACTTAACACATACTTAC-ACGATGTAAGTAAATAAAAA
179673 AATGTAGTAC
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
51 2 0.02
52 77 0.93
53 4 0.05
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (51 bp):
AAAAAAATGTAACACTTAACACATACTTACACGATGTAAGTAAATAAAAAT
Found at i:179709 original size:46 final size:46
Alignment explanation
Indices: 179622--179710 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
179612 AAATAAAACA
*
179622 AAAAAAATATAGCACTTAACACATACTTACAACGATGTAAGTAAAT
1 AAAAAAATATAGCACTTAACACATACTTACAACGATATAAGTAAAT
* * * **
179668 AAAAAAATGTAGTACTTAACACATATTTACTCCGATATAAGTA
1 AAAAAAATATAGCACTTAACACATACTTACAACGATATAAGTA
179711 TGTACATCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (46 bp):
AAAAAAATATAGCACTTAACACATACTTACAACGATATAAGTAAAT
Found at i:185459 original size:10 final size:10
Alignment explanation
Indices: 185446--185476 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
185436 AATGTTTTTC
185446 AAAGTTTGGT
1 AAAGTTTGGT
*
185456 AAAGTTTGAT
1 AAAGTTTGGT
185466 AAAGTTTGGT
1 AAAGTTTGGT
185476 A
1 A
185477 GATGTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (10 bp):
AAAGTTTGGT
Found at i:192177 original size:14 final size:14
Alignment explanation
Indices: 192158--192209 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
192148 TGTTCGATAA
192158 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
192172 TATGTTGGTTCATT
1 TATGTTCGTTCATT
*
192186 TATGTTCATTCATT
1 TATGTTCGTTCATT
*
192200 TATATTCGTT
1 TATGTTCGTT
192210 TATGGTCGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.17, C:0.12, G:0.13, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:192242 original size:24 final size:24
Alignment explanation
Indices: 192158--192277 Score: 100
Period size: 24 Copynumber: 4.8 Consensus size: 24
192148 TGTTCGATAA
*
192158 TATGTTCGTTCATTTATGTTGGTTCATT
1 TATGTTCGTTCATTTA---T-GTTCGTT
* *
192186 TATGTTCATTCATTTATATTCGTT
1 TATGTTCGTTCATTTATGTTCGTT
* * *
192210 TATGGTCGTTCGTTTATGTTTGTT
1 TATGTTCGTTCATTTATGTTCGTT
*
192234 TATGTTCGTGT-ACTTT-CGTTCGTT
1 TATGTTCGT-TCA-TTTATGTTCGTT
*
192258 TATGTTCGTTTATTTATGTT
1 TATGTTCGTTCATTTATGTT
192278 TAGCCCAATC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
23 4 0.05
24 51 0.68
25 5 0.07
28 15 0.20
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.58
Consensus pattern (24 bp):
TATGTTCGTTCATTTATGTTCGTT
Found at i:192242 original size:34 final size:34
Alignment explanation
Indices: 192198--192270 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
192188 TGTTCATTCA
* *
192198 TTTATATTCGTTTA-TGGTCGTTCGTTTATGTTTG
1 TTTATATTCGTGTACT-GTCGTTCGTTTATGTTCG
* *
192232 TTTATGTTCGTGTACTTTCGTTCGTTTATGTTCG
1 TTTATATTCGTGTACTGTCGTTCGTTTATGTTCG
192266 TTTAT
1 TTTAT
192271 TTATGTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (34 bp):
TTTATATTCGTGTACTGTCGTTCGTTTATGTTCG
Found at i:192265 original size:14 final size:14
Alignment explanation
Indices: 192158--192277 Score: 59
Period size: 14 Copynumber: 9.4 Consensus size: 14
192148 TGTTCGATAA
*
192158 TATGTTCGTTCATT
1 TATGTTCGTTCGTT
* *
192172 TATGTTGGTTCATT
1 TATGTTCGTTCGTT
* *
192186 TATGTTCATTCATT
1 TATGTTCGTTCGTT
*
192200 TA---T-ATTCGTT
1 TATGTTCGTTCGTT
*
192210 TATGGTCGTTCGTT
1 TATGTTCGTTCGTT
192224 TATG-T--TT-GTT
1 TATGTTCGTTCGTT
192234 TATGTTCG-T-G--
1 TATGTTCGTTCGTT
192244 TACT-TTCGTTCGTT
1 TA-TGTTCGTTCGTT
**
192258 TATGTTCGTTTATT
1 TATGTTCGTTCGTT
192272 TATGTT
1 TATGTT
192278 TAGCCCAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
10 21 0.24
11 6 0.07
12 3 0.03
13 3 0.03
14 53 0.62
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCGTT
Found at i:196598 original size:21 final size:21
Alignment explanation
Indices: 196574--196634 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
196564 AACTTTTAAA
196574 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
196595 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
196609 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
196630 AAATG
1 AAATG
196635 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:196665 original size:37 final size:36
Alignment explanation
Indices: 196572--196685 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 36
196562 CCAACTTTTA
196572 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
196608 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
196643 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 AAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
196679 AAAAATG
1 AAAAATG
196686 ATAATGGGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 36 0.49
36 14 0.19
37 23 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.43
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:197117 original size:16 final size:16
Alignment explanation
Indices: 197096--197127 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
197086 ACTATTCACA
*
197096 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
197112 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
197128 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:200731 original size:21 final size:21
Alignment explanation
Indices: 200707--200767 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
200697 AACTTTGAAA
200707 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
200728 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
200742 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
200763 AAATG
1 AAATG
200768 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:200798 original size:37 final size:37
Alignment explanation
Indices: 200699--200817 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
200689 TGGTAACCAA
200699 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
200736 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
200771 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
200808 -GTTGAAAAAT
1 CTTTGAAAAAT
200818 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:202056 original size:22 final size:22
Alignment explanation
Indices: 202031--202072 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
202021 TATGTAGGCA
* *
202031 AAAATTTAAAACCTAGAAGTCT
1 AAAATCTAAAACCTAAAAGTCT
*
202053 AAAATCTAAAATCTAAAAGT
1 AAAATCTAAAACCTAAAAGT
202073 GGAAAGTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (22 bp):
AAAATCTAAAACCTAAAAGTCT
Found at i:207560 original size:14 final size:14
Alignment explanation
Indices: 207541--207572 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
207531 CGTTCGTGAA
207541 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
207555 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
207569 CGTT
1 CGTT
207573 TATGTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:207589 original size:24 final size:24
Alignment explanation
Indices: 207542--207592 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
207532 GTTCGTGAAC
* *
207542 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
* *
207566 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
207590 GTT
1 GTT
207593 TAACCCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTCGGTTATGTTCATTCAGTTAT
Found at i:210356 original size:30 final size:30
Alignment explanation
Indices: 210315--210371 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
210305 TAGTTTACGT
*
210315 TGTAGTTGTAAGTCTTTGTTATAACTTGGA
1 TGTAGTCGTAAGTCTTTGTTATAACTTGGA
210345 TGTAGTCGTAAGTCTTTGTTATAACTT
1 TGTAGTCGTAAGTCTTTGTTATAACTT
210372 TGATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (30 bp):
TGTAGTCGTAAGTCTTTGTTATAACTTGGA
Found at i:213448 original size:48 final size:48
Alignment explanation
Indices: 213396--213515 Score: 132
Period size: 48 Copynumber: 2.5 Consensus size: 48
213386 AGCCTTAGCT
* * * *
213396 CCGCCGCCAACTAGCACTCCTTCCACACCCCCACCAACAGCAGCAACA
1 CCGCCGCCAACTACCACTCCCTCCACAACACCACCAACAGCAGCAACA
* * * * * * *
213444 CCGCCTCCAACCACCACTCCCTCCACAACACCACCAGCCGCTGCAGCT
1 CCGCCGCCAACTACCACTCCCTCCACAACACCACCAACAGCAGCAACA
*
213492 CCGCCGCCAACTACTACTCCCTCC
1 CCGCCGCCAACTACCACTCCCTCC
213516 CCACCACCTG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.24, C:0.55, G:0.10, T:0.11
Consensus pattern (48 bp):
CCGCCGCCAACTACCACTCCCTCCACAACACCACCAACAGCAGCAACA
Found at i:216765 original size:12 final size:12
Alignment explanation
Indices: 216723--216762 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
216713 AATATTTAAG
216723 TAAACGAGTCAA
1 TAAACGAGTCAA
**
216735 TAAACGAGTTTA
1 TAAACGAGTCAA
*
216747 TAAATGAGTCAA
1 TAAACGAGTCAA
216759 TAAA
1 TAAA
216763 TGATTTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (12 bp):
TAAACGAGTCAA
Found at i:220276 original size:233 final size:233
Alignment explanation
Indices: 219869--220337 Score: 938
Period size: 233 Copynumber: 2.0 Consensus size: 233
219859 ATTCGGGTTT
219869 GATATAGATACGGATATGATGAAGGAAAAGTTTGGTAAGTTGCTTTTGGGTGAAGATATGTCAGG
1 GATATAGATACGGATATGATGAAGGAAAAGTTTGGTAAGTTGCTTTTGGGTGAAGATATGTCAGG
219934 AGGAGGAAAGGGTGTTTCTTCAGCTTTGGCTTTGTCAAATGCATTAACAAACCTAGCAGGTACAA
66 AGGAGGAAAGGGTGTTTCTTCAGCTTTGGCTTTGTCAAATGCATTAACAAACCTAGCAGGTACAA
219999 TATTCCTATCTAAAATCGAATAATCATATGCACAAGTTTTCATTCAGAAATTAAAATACGAAAGG
131 TATTCCTATCTAAAATCGAATAATCATATGCACAAGTTTTCATTCAGAAATTAAAATACGAAAGG
220064 AAACCCCGAAATCCAGAAATTTTAGGATAGATCTCACC
196 AAACCCCGAAATCCAGAAATTTTAGGATAGATCTCACC
220102 GATATAGATACGGATATGATGAAGGAAAAGTTTGGTAAGTTGCTTTTGGGTGAAGATATGTCAGG
1 GATATAGATACGGATATGATGAAGGAAAAGTTTGGTAAGTTGCTTTTGGGTGAAGATATGTCAGG
220167 AGGAGGAAAGGGTGTTTCTTCAGCTTTGGCTTTGTCAAATGCATTAACAAACCTAGCAGGTACAA
66 AGGAGGAAAGGGTGTTTCTTCAGCTTTGGCTTTGTCAAATGCATTAACAAACCTAGCAGGTACAA
220232 TATTCCTATCTAAAATCGAATAATCATATGCACAAGTTTTCATTCAGAAATTAAAATACGAAAGG
131 TATTCCTATCTAAAATCGAATAATCATATGCACAAGTTTTCATTCAGAAATTAAAATACGAAAGG
220297 AAACCCCGAAATCCAGAAATTTTAGGATAGATCTCACC
196 AAACCCCGAAATCCAGAAATTTTAGGATAGATCTCACC
220335 GAT
1 GAT
220338 CTTCTAGCTT
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 236 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (233 bp):
GATATAGATACGGATATGATGAAGGAAAAGTTTGGTAAGTTGCTTTTGGGTGAAGATATGTCAGG
AGGAGGAAAGGGTGTTTCTTCAGCTTTGGCTTTGTCAAATGCATTAACAAACCTAGCAGGTACAA
TATTCCTATCTAAAATCGAATAATCATATGCACAAGTTTTCATTCAGAAATTAAAATACGAAAGG
AAACCCCGAAATCCAGAAATTTTAGGATAGATCTCACC
Found at i:226488 original size:52 final size:52
Alignment explanation
Indices: 226410--226514 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
226400 CTAAATAGTA
226410 AAAGAGGATATTGTTCTCTCTAAGTTATTCGAGTTGAAACAGTTATGTCTAC
1 AAAGAGGATATTGTTCTCTCTAAGTTATTCGAGTTGAAACAGTTATGTCTAC
226462 AAAGAGGATATTGTTCTCTCTAAGTTATTCGAGTTGAAACAGTTATGTCTAC
1 AAAGAGGATATTGTTCTCTCTAAGTTATTCGAGTTGAAACAGTTATGTCTAC
226514 A
1 A
226515 TCATGTGAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (52 bp):
AAAGAGGATATTGTTCTCTCTAAGTTATTCGAGTTGAAACAGTTATGTCTAC
Found at i:241622 original size:24 final size:23
Alignment explanation
Indices: 241593--241647 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
241583 GAAATTTGAA
241593 ATATTTTTTTTGCAAAATAA-ATTT
1 ATATTTTTTTT--AAAATAATATTT
241617 ATATTTATTTTTAAAATAATATTT
1 ATATTT-TTTTTAAAATAATATTT
*
241641 AAATTTT
1 ATATTTT
241648 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 15 0.54
25 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTTTTTTAAAATAATATTT
Found at i:242018 original size:2 final size:2
Alignment explanation
Indices: 242011--242044 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
242001 TTAAAAATCC
242011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
242045 TAAAGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:244513 original size:29 final size:29
Alignment explanation
Indices: 244481--244538 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
244471 AAATGGTTCT
244481 TTGACTATAGAATGTTACTTTGTTGAGTC
1 TTGACTATAGAATGTTACTTTGTTGAGTC
*
244510 TTGACTATAGAATGTTGCTTTGTTGAGTC
1 TTGACTATAGAATGTTACTTTGTTGAGTC
244539 CCTCGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.45
Consensus pattern (29 bp):
TTGACTATAGAATGTTACTTTGTTGAGTC
Found at i:245110 original size:33 final size:35
Alignment explanation
Indices: 245068--245138 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
245058 ACATGAAAAT
*
245068 AATAATAAAACAAGGAAAA-AGAAGAAA-AAATAA
1 AATAATAAAACAAGGAAAACAGAAAAAACAAATAA
* * *
245101 AATAATAAAATAAGTAAAACATAAAAAACAAATAA
1 AATAATAAAACAAGGAAAACAGAAAAAACAAATAA
245136 AAT
1 AAT
245139 TGTTAGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 17 0.53
34 6 0.19
35 9 0.28
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (35 bp):
AATAATAAAACAAGGAAAACAGAAAAAACAAATAA
Found at i:245299 original size:3 final size:3
Alignment explanation
Indices: 245293--245322 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
245283 AAAAAATATA
245293 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
245323 CACGTATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:245311 original size:14 final size:14
Alignment explanation
Indices: 245290--245322 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
245280 ATAAAAAAAT
245290 ATAA-ATAATAATA
1 ATAATATAATAATA
245303 ATAATATAATAATA
1 ATAATATAATAATA
245317 ATAATA
1 ATAATA
245323 CACGTATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATATAATAATA
Found at i:246812 original size:60 final size:60
Alignment explanation
Indices: 246680--246812 Score: 139
Period size: 60 Copynumber: 2.2 Consensus size: 60
246670 GGGTGACCGG
* * * *
246680 TTTGTG-ACTTTTAATAGTCGAGGGACTCAACAAAGCGACACTCTATAGTAGAATGATCA
1 TTTGTGTACTTTTAATAGTCGAGAGACTCAACAAAGCAACACTCTATAGTAGAAGGACCA
* * * *
246739 TTT-TGTAAGTTTTAATAGTCGAGAGACTTAATAAAGCAACAACT-TATAGTCAG-GGGACCA
1 TTTGTGT-ACTTTTAATAGTCGAGAGACTCAACAAAGCAAC-ACTCTATAGT-AGAAGGACCA
246799 TTTGTGTACTTTTA
1 TTTGTGTACTTTTA
246813 CCCTTTTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
58 2 0.03
59 3 0.05
60 47 0.78
61 8 0.13
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (60 bp):
TTTGTGTACTTTTAATAGTCGAGAGACTCAACAAAGCAACACTCTATAGTAGAAGGACCA
Found at i:250020 original size:437 final size:435
Alignment explanation
Indices: 249201--250072 Score: 1669
Period size: 437 Copynumber: 2.0 Consensus size: 435
249191 AACACACATA
*
249201 TGTCCGTGTTCGATCGTTTATTAAATAAACATTAAAATTCGGTTTATACTCGTTTATTTAGCTTA
1 TGTCCGTGTTCGATCGTTTATTAAATAAACATAAAAATTCGGTTTATACTCGTTTATTTAGCTTA
249266 ATAAACAAGCGGTTGACCAACCGTTCATCGAACATTATATTCATTTACATCCCTAACATAGCTAT
66 ATAAACAAGCGGTTGACCAACCGTTCATCGAACATTATATTCATTTACATCCCTAACATAGCTAT
249331 TCTACATTAAAAAAAATAGCTAAGAAACTGGATGAAGTTTTAATCACCTGAAAAATCAAGGTAAA
131 TCTACATTAAAAAAAATAGCTAAGAAACTGGATGAAGTTTTAATCACCTGAAAAATCAAGGTAAA
249396 GCTTATGATCAGGCACAAAGCTGCTAGATTGCAATAGAGGATTCATCTCAAAGGTATTTGGCACT
196 GCTTATGATCAGGCACAAAGCTGCTAGATTGCAATAGAGGATTCATCTCAAAGGTATTTGGCACT
249461 ATTATGGCCAAGTATGGACCTCCCATGTTTATCCTATCGATCTTCCTCAAAGTAGAAGAAGAAAT
261 ATTATGGCCAAGTATGGACCTCCCATGTTTATCCTATCGATCTTCCTCAAAGTAGAAGAAGAAAT
249526 CGAACCATCGACTCCATTGATACCAATCCCCAAAAGAACAAGAAAAGAACAAAACAACACCATTT
326 CGAACCATCGACTCCATTGATACCAATCCCCAAAAGAACAAGAAAAGAACAAAACAACACCATTT
249591 CCAAGCTCAGA-CCATCGTCTCCTGCAGAAATCTGT-AAACTTGG
391 CCAAGCTCAGACCCATCGTCTCCTGCAGAAATCTGTAAAACTTGG
249634 TGTCCGTGTTCGATCGTTTATTAAATAAACATAAAAATTCGGTTTATACTCGTTTATTTAGCTTA
1 TGTCCGTGTTCGATCGTTTATTAAATAAACATAAAAATTCGGTTTATACTCGTTTATTTAGCTTA
249699 ATAAACAAGCGGTTGACCAACCGTTCATCGAACATTATATTCATTTACATCCCTAACATAGCTAT
66 ATAAACAAGCGGTTGACCAACCGTTCATCGAACATTATATTCATTTACATCCCTAACATAGCTAT
249764 TCTACATTAAAAAAAATAGCTAAGAAACTGGATGAAGTTTATAATCACCTGAAAAATCAAGGTAA
131 TCTACATTAAAAAAAATAGCTAAGAAACTGGATGAAGTTT-TAATCACCTGAAAAATCAAGGT-A
249829 GGAAGCTTATGATCAGGCACAAAGCTGCTAGATTGCAATAGAGGATTCATCTCAAAGGTATTTGG
194 --AAGCTTATGATCAGGCACAAAGCTGCTAGATTGCAATAGAGGATTCATCTCAAAGGTATTTGG
249894 CACTATTATGGCCAAGTATGGACCTCCCATGTTTATCCTATCGATCTTCCTCAAAGTAGAAGAAG
257 CACTATTATGGCCAAGTATGGACCTCCCATGTTTATCCTATCGATCTTCCTCAAAGTAGAAGAAG
249959 AAATCGAACCATCGACTCCATTGATACCAATCCCCAAAAGAACAAGAAAATGAAC-AAACAACAC
322 AAATCGAACCATCGACTCCATTGATACCAATCCCCAAAAGAACAAGAAAA-GAACAAAACAACAC
250023 CATTTCCAAGCTCAGACCCATCGTCTCCTGCAGAAATCTGTAAAACTTGG
386 CATTTCCAAGCTCAGACCCATCGTCTCCTGCAGAAATCTGTAAAACTTGG
250073 CCTAATTTTT
Statistics
Matches: 431, Mismatches: 1, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
433 169 0.39
434 22 0.05
435 1 0.00
437 203 0.47
438 28 0.06
439 8 0.02
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (435 bp):
TGTCCGTGTTCGATCGTTTATTAAATAAACATAAAAATTCGGTTTATACTCGTTTATTTAGCTTA
ATAAACAAGCGGTTGACCAACCGTTCATCGAACATTATATTCATTTACATCCCTAACATAGCTAT
TCTACATTAAAAAAAATAGCTAAGAAACTGGATGAAGTTTTAATCACCTGAAAAATCAAGGTAAA
GCTTATGATCAGGCACAAAGCTGCTAGATTGCAATAGAGGATTCATCTCAAAGGTATTTGGCACT
ATTATGGCCAAGTATGGACCTCCCATGTTTATCCTATCGATCTTCCTCAAAGTAGAAGAAGAAAT
CGAACCATCGACTCCATTGATACCAATCCCCAAAAGAACAAGAAAAGAACAAAACAACACCATTT
CCAAGCTCAGACCCATCGTCTCCTGCAGAAATCTGTAAAACTTGG
Found at i:251120 original size:20 final size:20
Alignment explanation
Indices: 251070--251120 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
251060 CACGGAATGT
*
251070 AAGATTACCAATGGGAATAA
1 AAGATTACCAGTGGGAATAA
251090 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
251110 AAGATTACCAG
1 AAGATTACCAG
251121 AGAATAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:256908 original size:25 final size:24
Alignment explanation
Indices: 256865--256911 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
256855 CCTTAGATTA
256865 TTATTAGAATGTAAGATTATCTCG
1 TTATTAGAATGTAAGATTATCTCG
* *
256889 TTATTAGATATGTTATATTATCT
1 TTATTAGA-ATGTAAGATTATCT
256912 TATTTGACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (24 bp):
TTATTAGAATGTAAGATTATCTCG
Found at i:258398 original size:18 final size:20
Alignment explanation
Indices: 258358--258401 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
258348 TTTGATTCAC
*
258358 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
258378 GGAATAAAAGATTACC-G-G
1 GGAATAAAAGATTACCAGTG
258396 GGAATA
1 GGAATA
258402 TGATTACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 15 0.65
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:259649 original size:15 final size:16
Alignment explanation
Indices: 259629--259665 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
259619 CCCTTAAATG
259629 TATATAA-TTTTTTAT
1 TATATAATTTTTTTAT
259644 TATATAATTTTTTTAT
1 TATATAATTTTTTTAT
259660 T-TATAA
1 TATATAA
259666 GATTCGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATAATTTTTTTAT
Found at i:265022 original size:45 final size:45
Alignment explanation
Indices: 264912--265192 Score: 316
Period size: 45 Copynumber: 6.2 Consensus size: 45
264902 TATTCTTTAT
* * * *
264912 TTTCATTGATGACATC-TGTTCATGCTTATAATGCACCATTATGAA
1 TTTCATTTATGGCATCAT-TTCATGCTGATAATGCACCATTATGCA
*
264957 TTTTCATTTATGGCATCATTTCATGCTGATGATGCACCATTATGCA
1 -TTTCATTTATGGCATCATTTCATGCTGATAATGCACCATTATGCA
* *
265003 TTTCATTTATGGTATCATTTCATG-TCGATAATGCACCTTTATGCA
1 TTTCATTTATGGCATCATTTCATGCT-GATAATGCACCATTATGCA
* * * * * *
265048 TTTTATTTATGACATCTTTTCATGCCGATAATGTACAATTATGCA
1 TTTCATTTATGGCATCATTTCATGCTGATAATGCACCATTATGCA
* * *
265093 TTTCATTTATGACATCCTTTCATG-TCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGCT-GATAATGCACCATTATGCA
* * * **
265138 TTTCATTTATGGTATCCTTTCATGCTGATAATACACTGTTATGCA
1 TTTCATTTATGGCATCATTTCATGCTGATAATGCACCATTATGCA
265183 TTTCATTTAT
1 TTTCATTTAT
265193 TCATTCGTTT
Statistics
Matches: 204, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
44 1 0.00
45 163 0.80
46 39 0.19
47 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (45 bp):
TTTCATTTATGGCATCATTTCATGCTGATAATGCACCATTATGCA
Found at i:265168 original size:135 final size:136
Alignment explanation
Indices: 264910--265192 Score: 376
Period size: 135 Copynumber: 2.1 Consensus size: 136
264900 GTTATTCTTT
* ** * *
264910 ATTTTCATTGATGACATCTGTTCATGCTTATAATGCACCATTATGAATTTTCATTTATGGCATCA
1 ATTTT-ATTTATGACATCTGTTCATGCCGATAATGCACAATTATGAATTTTCATTTATGACATCA
* *
264975 TTTCATGCTGATGATGCACCATTATGCATTTCATTTATGGTATCATTTCATGTCGATAATGCACC
65 TTTCATGCTGATAATGCACCATTATGCATTTCATTTATGGTATCATTTCATGTCGATAATACA-C
265040 T-TTATGC
129 TGTTATGC
* * * *
265047 ATTTTATTTATGACATCTTTTCATGCCGATAATGTACAATTATGCA-TTTCATTTATGACATCCT
1 ATTTTATTTATGACATCTGTTCATGCCGATAATGCACAATTATGAATTTTCATTTATGACATCAT
* *
265111 TTCATG-TCGATAATGCACCGTTATGCATTTCATTTATGGTATCCTTTCATG-CTGATAATACAC
66 TTCATGCT-GATAATGCACCATTATGCATTTCATTTATGGTATCATTTCATGTC-GATAATACAC
265174 TGTTATGC
129 TGTTATGC
*
265182 ATTTCATTTAT
1 ATTTTATTTAT
265193 TCATTCGTTT
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
134 4 0.03
135 86 0.67
136 34 0.26
137 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (136 bp):
ATTTTATTTATGACATCTGTTCATGCCGATAATGCACAATTATGAATTTTCATTTATGACATCAT
TTCATGCTGATAATGCACCATTATGCATTTCATTTATGGTATCATTTCATGTCGATAATACACTG
TTATGC
Found at i:265622 original size:20 final size:20
Alignment explanation
Indices: 265597--265648 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
265587 CTGTACTTCA
*
265597 TAGTATCGATACCTTTCTCT
1 TAGTATCGATACATTTCTCT
265617 TAGTATCGATACATTTCTCT
1 TAGTATCGATACATTTCTCT
265637 TAGTATCGATAC
1 TAGTATCGATAC
265649 TTCTATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (20 bp):
TAGTATCGATACATTTCTCT
Found at i:265704 original size:115 final size:115
Alignment explanation
Indices: 265524--265743 Score: 343
Period size: 115 Copynumber: 1.9 Consensus size: 115
265514 CCCTACCATG
* * *
265524 GTATCGATACTTCTATAATATGGTACCGATATGTCCTTTCAGTATCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATAATATGGTACCAATATGCCCTTTCAGTATCGATACCATTTCGACATTCT
* *
265589 GTACTTCATAGTATCGATACCTTTCTCTTAGTATCGATACATTTCTCTTA
66 GGAATTCATAGTATCGATACCTTTCTCTTAGTATCGATACATTTCTCTTA
* *
265639 GTATCGATACTTCTATATTATGGTATCAATACT-CCCTTTCAGTATCGATACCATTTCGACATTC
1 GTATCGATACTTCTATAATATGGTACCAATA-TGCCCTTTCAGTATCGATACCATTTCGACATTC
* *
265703 TGGAATTCCTGGTATCGATACCTTTCTCTTAGTATCGATAC
65 TGGAATTCATAGTATCGATACCTTTCTCTTAGTATCGATAC
265744 CCACAACAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 94 0.99
116 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (115 bp):
GTATCGATACTTCTATAATATGGTACCAATATGCCCTTTCAGTATCGATACCATTTCGACATTCT
GGAATTCATAGTATCGATACCTTTCTCTTAGTATCGATACATTTCTCTTA
Found at i:267888 original size:23 final size:23
Alignment explanation
Indices: 267858--267916 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
267848 TTAATAGGCC
267858 TCATCTTAGTCATTGATCTAGAT
1 TCATCTTAGTCATTGATCTAGAT
267881 TCATCTTAGTCATTGATCTAGAT
1 TCATCTTAGTCATTGATCTAGAT
*
267904 TGATCTTAGTCAT
1 TCATCTTAGTCAT
267917 CCATTGTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (23 bp):
TCATCTTAGTCATTGATCTAGAT
Found at i:275449 original size:22 final size:22
Alignment explanation
Indices: 275424--275469 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
275414 AAATTCCTTG
*
275424 TTGCCGAGAATAAAAAGGTATC
1 TTGCCGAGAACAAAAAGGTATC
** *
275446 TTGCTTAGAACACAAAGGTATC
1 TTGCCGAGAACAAAAAGGTATC
275468 TT
1 TT
275470 CTTCTTTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (22 bp):
TTGCCGAGAACAAAAAGGTATC
Found at i:279490 original size:22 final size:22
Alignment explanation
Indices: 279464--279589 Score: 117
Period size: 22 Copynumber: 5.7 Consensus size: 22
279454 TGTATACCAT
*
279464 CAGTGCTAAGGCACATTAGTAC
1 CAGTGCTAAGGCACTTTAGTAC
* *** * *
279486 CAGTGCGAATTTACTTTCGTAT
1 CAGTGCTAAGGCACTTTAGTAC
*
279508 CAGTGCTAAGGCACATTAGTAC
1 CAGTGCTAAGGCACTTTAGTAC
* * * * *
279530 CAGTGCGAATGTACTTTCGTAT
1 CAGTGCTAAGGCACTTTAGTAC
* *
279552 CAGTGCTGAGGCACTTTAATAC
1 CAGTGCTAAGGCACTTTAGTAC
279574 CAGTGCTAAGGCACTT
1 CAGTGCTAAGGCACTT
279590 CCATGAATTG
Statistics
Matches: 76, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (22 bp):
CAGTGCTAAGGCACTTTAGTAC
Found at i:279525 original size:44 final size:44
Alignment explanation
Indices: 279462--279579 Score: 200
Period size: 44 Copynumber: 2.7 Consensus size: 44
279452 GATGTATACC
*
279462 ATCAGTGCTAAGGCACATTAGTACCAGTGCGAATTTACTTTCGT
1 ATCAGTGCTAAGGCACATTAGTACCAGTGCGAATGTACTTTCGT
279506 ATCAGTGCTAAGGCACATTAGTACCAGTGCGAATGTACTTTCGT
1 ATCAGTGCTAAGGCACATTAGTACCAGTGCGAATGTACTTTCGT
* * *
279550 ATCAGTGCTGAGGCACTTTAATACCAGTGC
1 ATCAGTGCTAAGGCACATTAGTACCAGTGC
279580 TAAGGCACTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCAGTGCTAAGGCACATTAGTACCAGTGCGAATGTACTTTCGT
Done.