Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold137
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: 675198
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:56 original size:8 final size:7
Alignment explanation
Indices: 1--7100 Score: 4873
Period size: 7 Copynumber: 966.3 Consensus size: 7
1 CCGAAAC
1 CCGAAAC
8 CCGAAAC
1 CCGAAAC
15 CCG-AAC
1 CCGAAAC
*
21 CCCAAAC
1 CCGAAAC
*
28 CCG-CAC
1 CCGAAAC
34 CCGAAA-
1 CCGAAAC
40 CCG-AAC
1 CCGAAAC
46 TCCGAAAC
1 -CCGAAAC
54 TCCTGAAAC
1 -CC-GAAAC
*
63 CCAAAAC
1 CCGAAAC
70 CCG-AA-
1 CCGAAAC
75 CCGAAAC
1 CCGAAAC
82 CCTGAAAC
1 CC-GAAAC
*
90 TCCGCATTAC
1 -CCG-A-AAC
100 CCGAAAC
1 CCGAAAC
*
107 CCTGCAAC
1 CC-GAAAC
115 CCGAAAC
1 CCGAAAC
122 CCGAAAC
1 CCGAAAC
129 CCGAAAC
1 CCGAAAC
136 CC-AAAC
1 CCGAAAC
*
142 CCGAAAA
1 CCGAAAC
149 CCGAAAC
1 CCGAAAC
156 CCGAAAC
1 CCGAAAC
*
163 CCTAAAC
1 CCGAAAC
170 CCGAAA-
1 CCGAAAC
*
176 CCTAAAC
1 CCGAAAC
*
183 CCGAAAG
1 CCGAAAC
190 CCGAAAAAC
1 CCG--AAAC
199 CC-AAAC
1 CCGAAAC
205 CCTGAAAC
1 CC-GAAAC
213 CC-AAAC
1 CCGAAAC
219 CCGAAAAC
1 CCG-AAAC
227 CCGAATAC
1 CCGAA-AC
*
235 CCGAAGC
1 CCGAAAC
242 CCGATAAC
1 CCGA-AAC
250 CCGAAAC
1 CCGAAAC
257 CCGAAAC
1 CCGAAAC
264 CCGAAA-
1 CCGAAAC
270 CCGAAAC
1 CCGAAAC
277 CCGAACAC
1 CCGAA-AC
285 CCGAAAC
1 CCGAAAC
292 CCGAAAAC
1 CCG-AAAC
300 CCGGCAATAC
1 CC-G-AA-AC
310 CCGAAAC
1 CCGAAAC
317 CCGATAAC
1 CCGA-AAC
*
325 CCGACAC
1 CCGAAAC
332 CCGGAAATC
1 CC-GAAA-C
341 CCGAAAGC
1 CCGAAA-C
349 CCG-AAC
1 CCGAAAC
355 CTCG-AAC
1 C-CGAAAC
*
362 CCGCAAC
1 CCGAAAC
369 CCGAAATC
1 CCGAAA-C
377 TCCGAAAC
1 -CCGAAAC
385 CTCGAAATC
1 C-CGAAA-C
394 CCGAAAAC
1 CCG-AAAC
402 CCG-AAC
1 CCGAAAC
*
408 CCGAACTC
1 CCGAA-AC
416 CCGGAATAC
1 CC-GAA-AC
*
425 CCAAAAC
1 CCGAAAC
432 CCGAAAC
1 CCGAAAC
439 CCGAAAC
1 CCGAAAC
446 CCGAAAC
1 CCGAAAC
453 CCGAAAC
1 CCGAAAC
460 CCGAATATAC
1 CCG-A-A-AC
470 CCGAAAC
1 CCGAAAC
477 CCGAAAC
1 CCGAAAC
484 CCGAAAC
1 CCGAAAC
491 CCGAAAAC
1 CCG-AAAC
499 CCGAAAC
1 CCGAAAC
*
506 CCTGACAC
1 CC-GAAAC
514 CCGAACAC
1 CCGAA-AC
522 CCGAAAC
1 CCGAAAC
529 CCGAAATAC
1 CCG-AA-AC
538 CCTGAAAC
1 CC-GAAAC
546 CCGGAAAC
1 CC-GAAAC
554 CCGAAAC
1 CCGAAAC
561 TCCGAGAATC
1 -CCGA-AA-C
571 CCGAAAC
1 CCGAAAC
578 CCGAAAC
1 CCGAAAC
585 CCGAAAC
1 CCGAAAC
592 CCGAAAC
1 CCGAAAC
599 CCGAAAC
1 CCGAAAC
*
606 CCGCAAC
1 CCGAAAC
**
613 CCGCCACCC
1 CCG--AAAC
622 CCGAAAAC
1 CCG-AAAC
*
630 CCGCAAC
1 CCGAAAC
637 CCGGAAAC
1 CC-GAAAC
645 CCGAAAC
1 CCGAAAC
*
652 CCGAACC
1 CCGAAAC
659 CCGATAAC
1 CCGA-AAC
667 CTCG-AAC
1 C-CGAAAC
*
674 CCGCTAAC
1 CCG-AAAC
682 CCGAAAC
1 CCGAAAC
689 CCGAAAC
1 CCGAAAC
696 CCGAAAC
1 CCGAAAC
703 CCGAAAC
1 CCGAAAC
710 CCGAAAAAC
1 CCG--AAAC
719 CCGAAAAC
1 CCG-AAAC
*
727 TCGAAAC
1 CCGAAAC
734 CCGAAAC
1 CCGAAAC
741 CCGAAAC
1 CCGAAAC
748 CCGAAAC
1 CCGAAAC
755 CCGAAAAC
1 CCG-AAAC
763 CCGAAAAC
1 CCG-AAAC
771 CCGAAAC
1 CCGAAAC
*
778 CCGAAATA
1 CCGAAA-C
*
786 CCGAAAAT
1 CCG-AAAC
794 CCGAAATC
1 CCGAAA-C
802 CCTGTAAAGAC
1 CC-G--AA-AC
813 CCGAAAC
1 CCGAAAC
820 CTCGAAA-
1 C-CGAAAC
827 CCGAAAC
1 CCGAAAC
834 CCGAAAAAC
1 CCG--AAAC
843 CCTGAAAC
1 CC-GAAAC
851 CCAGGAAAC
1 CC--GAAAC
860 CCGAAAC
1 CCGAAAC
*
867 CCGACAC
1 CCGAAAC
874 CCGAAACC
1 CCGAAA-C
882 CCGAAAC
1 CCGAAAC
889 CCGAAAC
1 CCGAAAC
896 CCGAAAAAC
1 CCG--AAAC
905 CC--AAC
1 CCGAAAC
910 ACCGAAAC
1 -CCGAAAC
*
918 CC-CAAC
1 CCGAAAC
924 CCGGAAAC
1 CC-GAAAC
932 CCGGAAAC
1 CC-GAAAC
940 CCGAATAC
1 CCGAA-AC
948 CCGAAAAC
1 CCG-AAAC
956 CCGAAAC
1 CCGAAAC
963 CCTTGTGAAAC
1 CC----GAAAC
974 CCGAAATC
1 CCGAAA-C
982 CTCGAAA-
1 C-CGAAAC
989 CCGAAAC
1 CCGAAAC
996 CCG-AAC
1 CCGAAAC
1002 TCCGAAAC
1 -CCGAAAC
1010 CCGAAAC
1 CCGAAAC
1017 CCGAAAC
1 CCGAAAC
1024 CCGAATAC
1 CCGAA-AC
1032 CCGAAAAC
1 CCG-AAAC
1040 CCGAAAC
1 CCGAAAC
1047 CCGAAAC
1 CCGAAAC
*
1054 CAGAAA-
1 CCGAAAC
1060 CCGAAAC
1 CCGAAAC
*
1067 CCGGAACCC
1 CC-GAA-AC
1076 CCGAAAC
1 CCGAAAC
1083 CCGAAAC
1 CCGAAAC
1090 CCGTAAAAC
1 CCG--AAAC
1099 CCGAAAC
1 CCGAAAC
1106 TCTCGAAA-
1 -C-CGAAAC
1114 CC-AAAC
1 CCGAAAC
1120 CCG-AAC
1 CCGAAAC
1126 CCGAAAGC
1 CCGAAA-C
1134 CCGAAAC
1 CCGAAAC
1141 CCGAAAC
1 CCGAAAC
* *
1148 CCTACAC
1 CCGAAAC
1155 CCGGAAAC
1 CC-GAAAC
* *
1163 CCGCATC
1 CCGAAAC
1170 CCGAAAC
1 CCGAAAC
1177 CCGGAAAC
1 CC-GAAAC
1185 CCGAAAC
1 CCGAAAC
1192 CCGAAACC
1 CCGAAA-C
1200 CCG-AAC
1 CCGAAAC
1206 CCGAAGAC
1 CCGAA-AC
1214 CCGAAAC
1 CCGAAAC
1221 CCGAAAC
1 CCGAAAC
1228 CCGAAAC
1 CCGAAAC
*
1235 CCTAAAC
1 CCGAAAC
*
1242 CCTGGCTAA-
1 CC--G-AAAC
1251 CC--AAC
1 CCGAAAC
*
1256 CCGAATC
1 CCGAAAC
1263 CCTGAAATAATC
1 CC-G--A-AA-C
1275 CCGAAAC
1 CCGAAAC
*
1282 TCGAATATCC
1 CCGAA-A--C
1292 CCGTTATAAC
1 CCG--A-AAC
1302 CCGAAAC
1 CCGAAAC
1309 CCGAAAAC
1 CCG-AAAC
1317 CCGAATAC
1 CCGAA-AC
*
1325 CCGCAA-
1 CCGAAAC
1331 CCGAAAC
1 CCGAAAC
1338 CCGAAAC
1 CCGAAAC
*
1345 CCGCAAC
1 CCGAAAC
*
1352 CAGAAAC
1 CCGAAAC
1359 CCG-AAC
1 CCGAAAC
1365 CCG-AAC
1 CCGAAAC
1371 CCG-AAC
1 CCGAAAC
1377 CCGAAACC
1 CCGAAA-C
1385 CCGAAAC
1 CCGAAAC
1392 CCGAAAC
1 CCGAAAC
*
1399 CCG-ACC
1 CCGAAAC
*
1405 CCTAAAC
1 CCGAAAC
1412 CCGAAAC
1 CCGAAAC
1419 CCGAAAC
1 CCGAAAC
1426 CCGTAAAC
1 CCG-AAAC
*
1434 CCGCAAC
1 CCGAAAC
1441 CCGAAAC
1 CCGAAAC
*
1448 TCGAAAAC
1 CCG-AAAC
1456 CCGATAAAC
1 CCG--AAAC
1465 CCG-AAC
1 CCGAAAC
*
1471 AC-AAAC
1 CCGAAAC
1477 CCGAAAC
1 CCGAAAC
1484 TCGCGAAAAC
1 -C-CG-AAAC
1494 CCGAAAC
1 CCGAAAC
1501 CCGAAAC
1 CCGAAAC
1508 CCGAAA-
1 CCGAAAC
1514 CCGAAAC
1 CCGAAAC
1521 CCGAAAC
1 CCGAAAC
*
1528 CGGGACAAC
1 C-CGA-AAC
1537 CCTGAAAC
1 CC-GAAAC
1545 TCCGAAAC
1 -CCGAAAC
1553 CCGAATA-
1 CCGAA-AC
1560 CCGAAAAC
1 CCG-AAAC
1568 CCGAAAAAC
1 CCG--AAAC
1577 CCGAAAC
1 CCGAAAC
*
1584 CGCGCAA-
1 C-CGAAAC
1591 CCGAAAC
1 CCGAAAC
1598 CCGAAAC
1 CCGAAAC
1605 CCGAAAC
1 CCGAAAC
1612 CTCGAAATC
1 C-CGAAA-C
*
1621 CCGTCATAC
1 CCG--AAAC
1630 CCGTAGATAC
1 CCG-A-A-AC
*
1640 CCGGAAC
1 CCGAAAC
1647 CCGATAAC
1 CCGA-AAC
1655 CTCGAAAC
1 C-CGAAAC
1663 CCGAAAC
1 CCGAAAC
*
1670 CC-TAA-
1 CCGAAAC
1675 CCG-AAC
1 CCGAAAC
1681 CCGAAA-
1 CCGAAAC
1687 CCGAAAC
1 CCGAAAC
1694 CCGAAAC
1 CCGAAAC
1701 CCG-AAC
1 CCGAAAC
1707 CCGAAATC
1 CCGAAA-C
1715 CCGAAAC
1 CCGAAAC
1722 CCTGAAAC
1 CC-GAAAC
1730 CCGAAACC
1 CCGAAA-C
1738 CCGAAAC
1 CCGAAAC
1745 CCGAATA-
1 CCGAA-AC
*
1752 CCGAATC
1 CCGAAAC
1759 CCGAAAC
1 CCGAAAC
1766 CTCGAAAC
1 C-CGAAAC
1774 CCGATAAC
1 CCGA-AAC
1782 TCCGAAAC
1 -CCGAAAC
*
1790 CAGAAAC
1 CCGAAAC
1797 CCGAAAC
1 CCGAAAC
1804 CCGAATA-
1 CCGAA-AC
1811 CCGAAAC
1 CCGAAAC
1818 CCGAAAC
1 CCGAAAC
1825 CCGAAAAC
1 CCG-AAAC
1833 CCGGACAAC
1 CC-GA-AAC
1842 CCTGAAAC
1 CC-GAAAC
1850 CCGAAAC
1 CCGAAAC
1857 CCGAAAC
1 CCGAAAC
1864 CCGAAAC
1 CCGAAAC
*
1871 CTGAAAC
1 CCGAAAC
1878 CCGAAAC
1 CCGAAAC
1885 CCG-AAC
1 CCGAAAC
1891 CCGAAAAC
1 CCG-AAAC
*
1899 CCTAAA-
1 CCGAAAC
*
1905 CCGAACC
1 CCGAAAC
1912 CCGAAAC
1 CCGAAAC
1919 CCGAAAGC
1 CCGAAA-C
1927 CC-AAAC
1 CCGAAAC
1933 CCGAAAC
1 CCGAAAC
1940 CCGAATAC
1 CCGAA-AC
*
1948 CCGAACC
1 CCGAAAC
1955 CCGAAAC
1 CCGAAAC
1962 CCGAAAAC
1 CCG-AAAC
1970 CCG-AAC
1 CCGAAAC
1976 CCGAAAC
1 CCGAAAC
1983 CCGAAAC
1 CCGAAAC
1990 CCGAATAC
1 CCGAA-AC
1998 CCGAAAC
1 CCGAAAC
*
2005 CCGAACC
1 CCGAAAC
2012 CCGATAAC
1 CCGA-AAC
2020 CCGAAAAC
1 CCG-AAAC
*
2028 CCGCAAC
1 CCGAAAC
2035 CCGGACAAC
1 CC-GA-AAC
2044 CCGAAA-
1 CCGAAAC
2050 CCGAAAC
1 CCGAAAC
2057 CCGAACAC
1 CCGAA-AC
2065 CCGAAAC
1 CCGAAAC
2072 CCGAAAAC
1 CCG-AAAC
2080 CCGAAAC
1 CCGAAAC
2087 CCGAAAC
1 CCGAAAC
2094 CCGAAA-
1 CCGAAAC
*
2100 CCGCAAC
1 CCGAAAC
2107 CCG-AAC
1 CCGAAAC
2113 CGCGAAAGC
1 C-CGAAA-C
2122 TCTCGAAAC
1 -C-CGAAAC
2131 CCGAAAC
1 CCGAAAC
2138 CCGAATAC
1 CCGAA-AC
*
2146 CCGACAC
1 CCGAAAC
2153 CCGAAAAC
1 CCG-AAAC
2161 CCGAGAA-
1 CCGA-AAC
2168 CCGAAA-
1 CCGAAAC
2174 CCGAAAC
1 CCGAAAC
2181 CCGAAAC
1 CCGAAAC
2188 CCTGAAAC
1 CC-GAAAC
2196 CCGAAAC
1 CCGAAAC
2203 CCGAAAC
1 CCGAAAC
2210 CCGAAAC
1 CCGAAAC
*
2217 CCTAAAC
1 CCGAAAC
2224 CCGGAAACC
1 CC-GAAA-C
2233 CCGGAAAC
1 CC-GAAAC
2241 CTCGAAAAGAC
1 C-CG--AA-AC
*
2252 TCGTAAATC
1 CCG-AAA-C
2261 CCG-AAC
1 CCGAAAC
2267 CTCGCAAGAC
1 C-CG-AA-AC
2277 CCGAAAC
1 CCGAAAC
2284 CCGAATAC
1 CCGAA-AC
2292 CCGAAAC
1 CCGAAAC
2299 CCGAAAC
1 CCGAAAC
2306 CC-AAA-
1 CCGAAAC
2311 CCGACAAC
1 CCGA-AAC
2319 CCGAAAC
1 CCGAAAC
2326 CCGAAAC
1 CCGAAAC
2333 CCGAAAC
1 CCGAAAC
2340 CCGAAAC
1 CCGAAAC
2347 CCGAAAC
1 CCGAAAC
*
2354 CCGACA-
1 CCGAAAC
2360 CCGAAAC
1 CCGAAAC
*
2367 CCGATAAA
1 CCGA-AAC
2375 CCGAAAC
1 CCGAAAC
2382 CCGAAAC
1 CCGAAAC
2389 CCTGAAAAAC
1 CC-G--AAAC
*
2399 ACGGGAAAC
1 -C-CGAAAC
2408 CCGAACAC
1 CCGAA-AC
2416 CCGAAAC
1 CCGAAAC
2423 CCG-AAC
1 CCGAAAC
2429 CCGAAACC
1 CCGAAA-C
2437 CCGAAAC
1 CCGAAAC
2444 CTCG-AAC
1 C-CGAAAC
2451 CCGAAAC
1 CCGAAAC
2458 CCGAAAC
1 CCGAAAC
2465 CCTGAAAC
1 CC-GAAAC
2473 CCGAAAC
1 CCGAAAC
2480 CCGAAAC
1 CCGAAAC
2487 CCG-AAC
1 CCGAAAC
2493 CC-AAAC
1 CCGAAAC
*
2499 CC-TAA-
1 CCGAAAC
2504 CCG-AAC
1 CCGAAAC
*
2510 CCGCATA-
1 CCG-AAAC
2517 CCGAAAC
1 CCGAAAC
2524 CCGAAAC
1 CCGAAAC
2531 CCGAAATC
1 CCGAAA-C
2539 CCGAAAC
1 CCGAAAC
2546 CCGAAAC
1 CCGAAAC
2553 TCCGAAAC
1 -CCGAAAC
*
2561 CCGCAAC
1 CCGAAAC
2568 CCGAAAC
1 CCGAAAC
2575 CCGAAAC
1 CCGAAAC
*
2582 CCTAAAC
1 CCGAAAC
*
2589 CCTAAAC
1 CCGAAAC
2596 CCGAAAC
1 CCGAAAC
2603 CCGAAAC
1 CCGAAAC
2610 CCGAAAC
1 CCGAAAC
2617 CCGAAATC
1 CCGAAA-C
*
2625 CCGAACC
1 CCGAAAC
2632 CCGAAAC
1 CCGAAAC
2639 CCAGACAAC
1 CC-GA-AAC
2648 CCGAAA-
1 CCGAAAC
*** *
2654 AATAAAA
1 CCGAAAC
2661 CCGAAAC
1 CCGAAAC
2668 CCGTAAAC
1 CCG-AAAC
2676 CCGAAAC
1 CCGAAAC
2683 CCGAAAC
1 CCGAAAC
2690 TTCCGAAAAC
1 --CCG-AAAC
2700 CCTGAAAC
1 CC-GAAAC
2708 CCG-AAC
1 CCGAAAC
2714 CTCGAAACC
1 C-CGAAA-C
2723 CGCGAAAC
1 C-CGAAAC
2731 CCGAAAAC
1 CCG-AAAC
*
2739 CCGCAAC
1 CCGAAAC
2746 CCGAATAC
1 CCGAA-AC
2754 CCGAAATC
1 CCGAAA-C
*
2762 CCGATCAC
1 CCGA-AAC
*
2770 ACGAAAC
1 CCGAAAC
2777 CCGAAAC
1 CCGAAAC
2784 CCGAAAC
1 CCGAAAC
2791 CCG-AAC
1 CCGAAAC
2797 CCGATAAACC
1 CCG--AAA-C
2807 CCGAAAC
1 CCGAAAC
2814 CCGAAA-
1 CCGAAAC
2820 CCGAAAC
1 CCGAAAC
2827 CCG-AAC
1 CCGAAAC
2833 CCGAGAACC
1 CCGA-AA-C
2842 CCGATAACC
1 CCGA-AA-C
2851 CCGAAAC
1 CCGAAAC
*
2858 CCGAACTC
1 CCGAA-AC
2866 CCGAAAC
1 CCGAAAC
2873 CCGAAAC
1 CCGAAAC
2880 CCGAAAC
1 CCGAAAC
***
2887 CC-CCCC
1 CCGAAAC
*
2893 CCGAACC
1 CCGAAAC
2900 CCGAAAC
1 CCGAAAC
*
2907 CCGTAAAT
1 CCG-AAAC
2915 CCGAAATC
1 CCGAAA-C
2923 CCGAAAC
1 CCGAAAC
2930 CTCGAAAAAC
1 C-CG--AAAC
2940 CCGAAAC
1 CCGAAAC
2947 CCG-AAC
1 CCGAAAC
2953 CCGAAAC
1 CCGAAAC
* *
2960 CGGAACC
1 CCGAAAC
2967 CCGAAAC
1 CCGAAAC
2974 CCGAAAC
1 CCGAAAC
2981 CCGAAAC
1 CCGAAAC
2988 CCG-AAC
1 CCGAAAC
2994 CCGAAAC
1 CCGAAAC
3001 TCCGATAAGCC
1 -CCGA-AA--C
3012 CCGAAAC
1 CCGAAAC
*
3019 CTGAAAC
1 CCGAAAC
3026 CCGAAAC
1 CCGAAAC
3033 CCGAAAC
1 CCGAAAC
3040 CCGATAAC
1 CCGA-AAC
3048 GCCGAAA-
1 -CCGAAAC
3055 CCGAAAC
1 CCGAAAC
*
3062 CCGCAAC
1 CCGAAAC
3069 CCGAATAAC
1 CCG-A-AAC
3078 TCGCGAAA-
1 -C-CGAAAC
3086 CC-AAAC
1 CCGAAAC
*
3092 CCTAAAC
1 CCGAAAC
*
3099 CCGACA-
1 CCGAAAC
3105 CCGAAAC
1 CCGAAAC
*
3112 CCGCAAC
1 CCGAAAC
3119 CCGAAAC
1 CCGAAAC
3126 CCGAAAC
1 CCGAAAC
3133 TCCTGAAAC
1 -CC-GAAAC
3142 CCGAAAC
1 CCGAAAC
*
3149 TCCGACTAC
1 -CCGA-AAC
3158 CCGAAAC
1 CCGAAAC
3165 CCG-AAC
1 CCGAAAC
3171 CCG--A-
1 CCGAAAC
3175 CCGAAAC
1 CCGAAAC
*
3182 CCGCAAC
1 CCGAAAC
*
3189 CC-TAAC
1 CCGAAAC
3195 CCGAAAC
1 CCGAAAC
3202 CCGGAAATC
1 CC-GAAA-C
3211 TCCGAAAC
1 -CCGAAAC
3219 CCGAAAC
1 CCGAAAC
3226 CCGAAAC
1 CCGAAAC
3233 CCGAGAAAC
1 CC--GAAAC
3242 CCGAAAC
1 CCGAAAC
*
3249 CCGCAAC
1 CCGAAAC
3256 CCGAAAC
1 CCGAAAC
*
3263 CCGAAATA
1 CCGAAA-C
3271 CCGATAAAC
1 CCG--AAAC
3280 TCCGAAAC
1 -CCGAAAC
3288 CCGAAAC
1 CCGAAAC
* *
3295 CCTACAC
1 CCGAAAC
3302 CCGAAA-
1 CCGAAAC
*
3308 CCTAAA-
1 CCGAAAC
3314 CCGAATAC
1 CCGAA-AC
3322 TCCG-AAC
1 -CCGAAAC
*
3329 CC-TAAC
1 CCGAAAC
*
3335 CTGAAAC
1 CCGAAAC
3342 CCTGTAAAC
1 CC-G-AAAC
3351 CCGAAAC
1 CCGAAAC
3358 CCGAAAC
1 CCGAAAC
*
3365 CC--ACC
1 CCGAAAC
3370 CCGAAAC
1 CCGAAAC
3377 CGGCGCTAAAAC
1 C--CG---AAAC
3389 CCGAAAC
1 CCGAAAC
*
3396 CGCTAAAC
1 C-CGAAAC
3404 CTCGAAAC
1 C-CGAAAC
3412 CCGAAAC
1 CCGAAAC
3419 CCGAAAC
1 CCGAAAC
3426 CCGAAAC
1 CCGAAAC
3433 CCGATAA-
1 CCGA-AAC
3440 CCGAAGAC
1 CCGAA-AC
3448 CCGATAA-
1 CCGA-AAC
3455 CCGAAAC
1 CCGAAAC
3462 CCGAAAC
1 CCGAAAC
3469 CCGGAAAC
1 CC-GAAAC
*
3477 CCGATCAC
1 CCGA-AAC
3485 CCGAAACC
1 CCGAAA-C
3493 CCGAAA-
1 CCGAAAC
3499 CCGAAATC
1 CCGAAA-C
3507 CCG-AAC
1 CCGAAAC
3513 CCG-AAC
1 CCGAAAC
3519 CCGAAACC
1 CCGAAA-C
3527 CCGAAAAC
1 CCG-AAAC
3535 CCGAAAC
1 CCGAAAC
*
3542 CCTTAAAC
1 CC-GAAAC
3550 CCGAAAC
1 CCGAAAC
3557 CCGAAAC
1 CCGAAAC
3564 CCGAAAC
1 CCGAAAC
3571 CCGAAAC
1 CCGAAAC
3578 CCGAAAAC
1 CCG-AAAC
3586 CCGAAAC
1 CCGAAAC
3593 CCGAAAC
1 CCGAAAC
*
3600 CCGAACCC
1 CCGAA-AC
****
3608 CCCCCCC
1 CCGAAAC
3615 CCGGAAAC
1 CC-GAAAC
3623 CCGAATAC
1 CCGAA-AC
3631 CCG-AAC
1 CCGAAAC
3637 CCGAAAC
1 CCGAAAC
3644 TCCGAAAC
1 -CCGAAAC
3652 CCGAAAC
1 CCGAAAC
3659 CCGAAGAC
1 CCGAA-AC
3667 CCGAAAC
1 CCGAAAC
3674 CCGAAAC
1 CCGAAAC
3681 CCGAAAC
1 CCGAAAC
3688 CCGAAAC
1 CCGAAAC
3695 CCGAAATC
1 CCGAAA-C
3703 CCGGAAAC
1 CC-GAAAC
3711 CCGAATAC
1 CCGAA-AC
3719 CCGAAATC
1 CCGAAA-C
3727 CCGAAATC
1 CCGAAA-C
* *
3735 AC-AACC
1 CCGAAAC
3741 CCGAAAC
1 CCGAAAC
3748 CCTGAAAC
1 CC-GAAAC
*
3756 CCGACAC
1 CCGAAAC
3763 TCCGAAATC
1 -CCGAAA-C
3772 CCGAAAC
1 CCGAAAC
3779 TCCTGAAAC
1 -CC-GAAAC
3788 CCGTATAAC
1 CCG-A-AAC
3797 CCGATAAC
1 CCGA-AAC
3805 CCGTAAACC
1 CCG-AAA-C
3814 CCGAAAC
1 CCGAAAC
3821 CCGGAAAC
1 CC-GAAAC
3829 CCGAAAC
1 CCGAAAC
3836 CCGAAAC
1 CCGAAAC
3843 CCGAAAC
1 CCGAAAC
3850 CCGATAAC
1 CCGA-AAC
**
3858 CCTTAA-
1 CCGAAAC
3864 -C-AAAC
1 CCGAAAC
3869 TCCG-AAC
1 -CCGAAAC
3876 CCGAAAC
1 CCGAAAC
3883 CC-AAAC
1 CCGAAAC
3889 CC--AAC
1 CCGAAAC
3894 TCCGAAAAC
1 -CCG-AAAC
3903 CCGAAAC
1 CCGAAAC
3910 CCGAAAC
1 CCGAAAC
3917 CCGAAGAC
1 CCGAA-AC
3925 CCGAAAAGC
1 CCG-AAA-C
3934 CC-AAACC
1 CCGAAA-C
3941 CCGAAAC
1 CCGAAAC
3948 CCGAAAC
1 CCGAAAC
3955 CCGAAAC
1 CCGAAAC
3962 CCTGAAAC
1 CC-GAAAC
3970 CCGAAA-
1 CCGAAAC
3976 CCGAAAC
1 CCGAAAC
*
3983 CCGACAC
1 CCGAAAC
3990 CCGAATAC
1 CCGAA-AC
3998 CCGAAAC
1 CCGAAAC
4005 CCG-AAC
1 CCGAAAC
4011 CCGAGAAC
1 CCGA-AAC
4019 CCGAAAC
1 CCGAAAC
4026 CCGAAAAC
1 CCG-AAAC
4034 CCGAAAC
1 CCGAAAC
*
4041 CCGATAC
1 CCGAAAC
4048 CCGTAACAC
1 CCG-AA-AC
4057 CCTGAAA-
1 CC-GAAAC
*
4064 GCGAATTAC
1 CCGAA--AC
*
4073 CCTAAAC
1 CCGAAAC
*
4080 CCGAAAAT
1 CCG-AAAC
4088 CCGAAAAC
1 CCG-AAAC
4096 CCGAATAC
1 CCGAA-AC
4104 CCGAAATAACC
1 CCG--A-AA-C
4115 CCGATAAC
1 CCGA-AAC
*
4123 CGGAAAC
1 CCGAAAC
4130 CCG-AAC
1 CCGAAAC
4136 CCGAAAC
1 CCGAAAC
4143 CCGAAAC
1 CCGAAAC
4150 CCGTAAAC
1 CCG-AAAC
4158 CCGTAATAC
1 CCG-AA-AC
4167 TCCGAAA-
1 -CCGAAAC
*
4174 CCGAAAAT
1 CCG-AAAC
* *
4182 CGGAACC
1 CCGAAAC
*
4189 CCTAATA-
1 CCGAA-AC
4196 CCGAAATC
1 CCGAAA-C
4204 CCTGAAAC
1 CC-GAAAC
4212 CCGATAAC
1 CCGA-AAC
*
4220 CTGAAAC
1 CCGAAAC
4227 CTC--AAC
1 C-CGAAAC
4233 CCGAAAC
1 CCGAAAC
* *
4240 CCTAACC
1 CCGAAAC
4247 CCGAAAAC
1 CCG-AAAC
4255 CCGAAA-
1 CCGAAAC
4261 CCGAAAC
1 CCGAAAC
4268 CCGAACAC
1 CCGAA-AC
4276 CCGAAAC
1 CCGAAAC
4283 CCGAATAC
1 CCGAA-AC
4291 CCGAAAC
1 CCGAAAC
*
4298 CCG-CAC
1 CCGAAAC
4304 CCGAAAC
1 CCGAAAC
4311 CCGACTAAC
1 CCGA--AAC
4320 CCGAAACC
1 CCGAAA-C
**
4328 CCGAATG
1 CCGAAAC
******
4335 TTTTGTC
1 CCGAAAC
*
4342 CTTCTG-TAC
1 C--C-GAAAC
*
4351 CCTGTACAC
1 CC-G-AAAC
4360 CTCGAAAAC
1 C-CG-AAAC
4369 CCG-AAC
1 CCGAAAC
4375 CCGATATAC
1 CCGA-A-AC
*
4384 CTGAAAAC
1 CCG-AAAC
4392 CCTGAAAC
1 CC-GAAAC
4400 CCGAAAC
1 CCGAAAC
*
4407 CC-CAA-
1 CCGAAAC
4412 CCGAAAC
1 CCGAAAC
4419 GCCGAAAC
1 -CCGAAAC
4427 CCGAATAC
1 CCGAA-AC
4435 CTCGAAAC
1 C-CGAAAC
*
4443 CCGCAAC
1 CCGAAAC
*
4450 CCGCAA-
1 CCGAAAC
4456 CCGAACAC
1 CCGAA-AC
*
4464 CAC-CAAC
1 C-CGAAAC
*
4471 CTCCAAAC
1 C-CGAAAC
4479 CCGAAAC
1 CCGAAAC
4486 CTTCGAAAC
1 C--CGAAAC
4495 CCGAAA-
1 CCGAAAC
4501 CCGAAAC
1 CCGAAAC
4508 TTCCGAAAC
1 --CCGAAAC
**
4517 CCGGTACCC
1 CC-G-AAAC
4526 CCGAAAC
1 CCGAAAC
*
4533 CCGCAAC
1 CCGAAAC
*
4540 CCGCAATC
1 CCG-AAAC
4548 CCGAAAC
1 CCGAAAC
*
4555 CCGCAAC
1 CCGAAAC
*
4562 CCGACACC
1 CCGA-AAC
*
4570 CCTACAAC
1 CCGA-AAC
*
4578 CCCAAAC
1 CCGAAAC
* *
4585 CCCATCAC
1 CCGA-AAC
4593 CC-AATA-
1 CCGAA-AC
4599 CCGAAAC
1 CCGAAAC
4606 CCGAAAC
1 CCGAAAC
4613 CCGAAAC
1 CCGAAAC
4620 CCGAAAC
1 CCGAAAC
4627 CCTGAAAC
1 CC-GAAAC
4635 CCGATAAC
1 CCGA-AAC
4643 CCGAATAC
1 CCGAA-AC
4651 CCGAAAC
1 CCGAAAC
4658 CCGAAAC
1 CCGAAAC
4665 CCGGAAA-
1 CC-GAAAC
4672 CCGAAAC
1 CCGAAAC
*
4679 CCGCAATC
1 CCG-AAAC
4687 CCGAAAAC
1 CCG-AAAC
4695 TCCGAAAC
1 -CCGAAAC
4703 CCGAAAC
1 CCGAAAC
4710 CCG-AAC
1 CCGAAAC
4716 CCGAAAC
1 CCGAAAC
4723 CCGAAAC
1 CCGAAAC
4730 CCGAAAC
1 CCGAAAC
*
4737 CCTAAA-
1 CCGAAAC
4743 CCGAAAAC
1 CCG-AAAC
4751 CCG-AAC
1 CCGAAAC
4757 CCGAAAC
1 CCGAAAC
*
4764 CCTGGTACAC
1 CC--G-AAAC
4774 CCGAAAC
1 CCGAAAC
4781 CCTGAAA-
1 CC-GAAAC
4788 CCGATAAC
1 CCGA-AAC
4796 CCGAATAC
1 CCGAA-AC
*
4804 CCTAAAAC
1 CC-GAAAC
4812 CCGAAAC
1 CCGAAAC
4819 CCGAAAC
1 CCGAAAC
4826 CCGAAAC
1 CCGAAAC
4833 CCGAAAAC
1 CCG-AAAC
*
4841 CCAAAAC
1 CCGAAAC
* *
4848 CCTCAATC
1 CC-GAAAC
*
4856 CCTAAAC
1 CCGAAAC
*
4863 CCGAAAA
1 CCGAAAC
4870 CCGAAAC
1 CCGAAAC
4877 CCGAAAC
1 CCGAAAC
4884 CCG-AAC
1 CCGAAAC
4890 CCGAATAAAAC
1 CCG----AAAC
4901 TCCGAAAAC
1 -CCG-AAAC
4910 CCGAAACC
1 CCGAAA-C
4918 CCGAAACC
1 CCGAAA-C
4926 CCGAAA-
1 CCGAAAC
4932 CCGAAAC
1 CCGAAAC
**
4939 CCCCAAC
1 CCGAAAC
*
4946 CCGACAC
1 CCGAAAC
4953 CCGACAAAC
1 CCG--AAAC
4962 CCGAAAC
1 CCGAAAC
4969 CCGAAAC
1 CCGAAAC
4976 CCGAAAC
1 CCGAAAC
4983 CCG-AAC
1 CCGAAAC
4989 CCTGAAAC
1 CC-GAAAC
*
4997 CCGATAATA
1 CCGA-AA-C
5006 CCG-AAC
1 CCGAAAC
5012 CCGAAAC
1 CCGAAAC
5019 CGCG-AAC
1 C-CGAAAC
5026 CCGAAAC
1 CCGAAAC
5033 CTCGAAAC
1 C-CGAAAC
5041 TCCGATAAC
1 -CCGA-AAC
5050 CCGAAA-
1 CCGAAAC
5056 CCGAAAC
1 CCGAAAC
5063 CCGAAAC
1 CCGAAAC
5070 CCGAAAC
1 CCGAAAC
5077 CCGAAAC
1 CCGAAAC
5084 CCGAAAC
1 CCGAAAC
5091 CCG-AAC
1 CCGAAAC
5097 ACCGAAA-
1 -CCGAAAC
5104 CC--AAC
1 CCGAAAC
*
5109 CCGACAC
1 CCGAAAC
5116 CTCGAAATC
1 C-CGAAA-C
5125 CCGAAATAC
1 CCG-AA-AC
5134 CCGAAA-
1 CCGAAAC
5140 CCGAAAAC
1 CCG-AAAC
*
5148 CCGATA-
1 CCGAAAC
*
5154 CCGCAAC
1 CCGAAAC
5161 CCTGGAAAGC
1 CC--GAAA-C
*
5171 CTCTATAAC
1 C-CGA-AAC
5180 CCGAAAC
1 CCGAAAC
* *
5187 TCC-TACC
1 -CCGAAAC
5194 CCGAAAC
1 CCGAAAC
5201 CCGAAAC
1 CCGAAAC
5208 TCCTGAAA-
1 -CC-GAAAC
*
5216 CCGCAAC
1 CCGAAAC
5223 CCGAAATC
1 CCGAAA-C
5231 GCCG-AAC
1 -CCGAAAC
5238 CCGAAAC
1 CCGAAAC
5245 CCGAAA-
1 CCGAAAC
5251 CCGAAAAAC
1 CCG--AAAC
5260 CCGAAAC
1 CCGAAAC
5267 CGCGAAAC
1 C-CGAAAC
5275 CCGGTAAATC
1 CC-G-AAA-C
5285 CCGACATAC
1 CCGA-A-AC
5294 CCG-AAC
1 CCGAAAC
5300 CCGAAAC
1 CCGAAAC
*
5307 CCGACAC
1 CCGAAAC
5314 CCG-AA-
1 CCGAAAC
5319 CCG-AAC
1 CCGAAAC
5325 CCGAAAC
1 CCGAAAC
5332 CCGAAAC
1 CCGAAAC
5339 CCGAAAC
1 CCGAAAC
*
5346 TCCGACAC
1 -CCGAAAC
5354 CCGAAAC
1 CCGAAAC
5361 CCGAAAC
1 CCGAAAC
5368 CCGAAAC
1 CCGAAAC
*
5375 CCGCAAC
1 CCGAAAC
5382 CCGCAAAC
1 CCG-AAAC
5390 CCGAAAC
1 CCGAAAC
5397 CCGAAAC
1 CCGAAAC
*
5404 CCCAAAC
1 CCGAAAC
*
5411 CCCAAAC
1 CCGAAAC
5418 CCGAAAC
1 CCGAAAC
*
5425 CAGAAAC
1 CCGAAAC
5432 CCGAAAC
1 CCGAAAC
5439 CCGAAATC
1 CCGAAA-C
5447 TCTCG-AAC
1 -C-CGAAAC
*
5455 ACGAATAC
1 CCGAA-AC
5463 CCG-AAC
1 CCGAAAC
5469 CCGAAAC
1 CCGAAAC
*
5476 CCTTAAAC
1 CC-GAAAC
5484 CCG-AAC
1 CCGAAAC
5490 CTCGAAAC
1 C-CGAAAC
**
5498 CTTAATA-
1 CCGAA-AC
5505 CCGTAAAC
1 CCG-AAAC
5513 CCGAAAC
1 CCGAAAC
5520 CTCGAAAC
1 C-CGAAAC
5528 CTCGAAA-
1 C-CGAAAC
5535 CCGAAAC
1 CCGAAAC
*
5542 CAGAAA-
1 CCGAAAC
5548 CCGAAAC
1 CCGAAAC
*
5555 CCTAAAC
1 CCGAAAC
*
5562 CCGAACC
1 CCGAAAC
5569 CCGAAAC
1 CCGAAAC
5576 CCGAATA-
1 CCGAA-AC
5583 CCGAAAC
1 CCGAAAC
5590 CCG-AAC
1 CCGAAAC
5596 CCGAAAC
1 CCGAAAC
5603 CCGAAAC
1 CCGAAAC
5610 CCGAAAC
1 CCGAAAC
5617 CCGATAAC
1 CCGA-AAC
5625 TCCGAAATC
1 -CCGAAA-C
5634 CCGAAAC
1 CCGAAAC
5641 CCGAGAAC
1 CCGA-AAC
5649 CCG-AAC
1 CCGAAAC
5655 CCG-AAC
1 CCGAAAC
*
5661 CCCAAACC
1 CCGAAA-C
*
5669 CCCAAAC
1 CCGAAAC
*
5676 CCCAAAC
1 CCGAAAC
*
5683 GCCCAAAC
1 -CCGAAAC
*
5691 CC-CAAC
1 CCGAAAC
*
5697 CCCAAAC
1 CCGAAAC
**
5704 CCCCAAC
1 CCGAAAC
*
5711 CCCAAAC
1 CCGAAAC
*
5718 CCCAAAC
1 CCGAAAC
*
5725 CC--CAC
1 CCGAAAC
*
5730 CCCAAAC
1 CCGAAAC
*
5737 CCCAAACC
1 CCGAAA-C
*
5745 GCCAAAAACC
1 -CC-GAAA-C
*
5755 CCCAAAC
1 CCGAAAC
*
5762 CCCAAAC
1 CCGAAAC
**
5769 CTCCCAAC
1 C-CGAAAC
*
5777 CCCATAAGCC
1 CCGA-AA--C
*
5787 CCTAAAC
1 CCGAAAC
*
5794 CCCATTAAC
1 CCGA--AAC
5803 CCGCAATAC
1 CCG-AA-AC
5812 CC-AAATC
1 CCGAAA-C
* *
5819 CCCATAC
1 CCGAAAC
*
5826 TCC-CAAC
1 -CCGAAAC
*
5833 CCCAAAC
1 CCGAAAC
*
5840 CCCAAAC
1 CCGAAAC
*
5847 CCCAAAC
1 CCGAAAC
*
5854 CCCAAAC
1 CCGAAAC
*
5861 CCCAAAC
1 CCGAAAC
*
5868 CCCAAAC
1 CCGAAAC
*
5875 CCCAAAC
1 CCGAAAC
*
5882 CCCAAACC
1 CCGAAA-C
*
5890 CCAAAAC
1 CCGAAAC
*
5897 CCCAAACC
1 CCGAAA-C
**
5905 CCCCAAC
1 CCGAAAC
*
5912 CCCAAACC
1 CCGAAA-C
*
5920 CCTAAAC
1 CCGAAAC
*
5927 TCCTCAAAC
1 -CC-GAAAC
*
5936 CCCACAATC
1 CCGA-AA-C
*
5945 CC-ATAC
1 CCGAAAC
*
5951 CCCAAAC
1 CCGAAAC
5958 CTC-AAACC
1 C-CGAAA-C
*
5966 CCTAAAC
1 CCGAAAC
5973 CC--AAC
1 CCGAAAC
*
5978 CCCAAAC
1 CCGAAAC
*
5985 CC-CAAC
1 CCGAAAC
5991 CC-AATAC
1 CCGAA-AC
*
5998 CCCAAACC
1 CCGAAA-C
*
6006 CCTAAAC
1 CCGAAAC
*
6013 CCCAAACCC
1 CCGAAA--C
*
6022 CCCAAATC
1 CCGAAA-C
*
6030 CCCAAAC
1 CCGAAAC
*
6037 CCCAAAC
1 CCGAAAC
6044 CC--AAC
1 CCGAAAC
* *
6049 CCCAACC
1 CCGAAAC
*
6056 CCCAAACC
1 CCGAAA-C
*
6064 CCCAAAC
1 CCGAAAC
* *
6071 CCCAAAA
1 CCGAAAC
*
6078 CCAAAAC
1 CCGAAAC
*
6085 CCCAAAC
1 CCGAAAC
*
6092 CCCAAAC
1 CCGAAAC
6099 CC-AAAC
1 CCGAAAC
*
6105 CCCAAAC
1 CCGAAAC
*
6112 CCCAAAC
1 CCGAAAC
* *
6119 CCCAACC
1 CCGAAAC
6126 CCGAAAC
1 CCGAAAC
6133 CCGAAACC
1 CCGAAA-C
6141 CCGAATAC
1 CCGAA-AC
6149 CCGAAAC
1 CCGAAAC
6156 CCGAAAC
1 CCGAAAC
*
6163 ACGAAA-
1 CCGAAAC
6169 CCGAAAC
1 CCGAAAC
* **
6176 TGTCGGTTTTTTGA-
1 ---CCG-----AAAC
6190 CCGAAAC
1 CCGAAAC
6197 CCGAAAC
1 CCGAAAC
6204 CCGAAAC
1 CCGAAAC
*
6211 CCTAAAC
1 CCGAAAC
6218 CCGAAAC
1 CCGAAAC
*
6225 CAG-AAC
1 CCGAAAC
*
6231 CCTAAAC
1 CCGAAAC
6238 CCGAAAAC
1 CCG-AAAC
6246 CCGAAAC
1 CCGAAAC
6253 CCGAAAC
1 CCGAAAC
6260 CCGAAA-
1 CCGAAAC
6266 CCGAAAC
1 CCGAAAC
**
6273 TGGAAAAC
1 CCG-AAAC
*
6281 CCTAAAC
1 CCGAAAC
*
6288 CCTTAAAAC
1 CC--GAAAC
*
6297 CCGAACC
1 CCGAAAC
6304 CCGAAAC
1 CCGAAAC
6311 CCG-AAC
1 CCGAAAC
6317 CCGAAAACATC
1 CCG--AA-A-C
6328 CCGAAA-
1 CCGAAAC
6334 CCGAAAC
1 CCGAAAC
6341 CCGAAAC
1 CCGAAAC
6348 CCGAAAC
1 CCGAAAC
*
6355 CCTAAAC
1 CCGAAAC
6362 ACCGAAAACC
1 -CCG-AAA-C
6372 CCGAAAC
1 CCGAAAC
*
6379 CGGAAAAC
1 CCG-AAAC
6387 CCGTATAAAC
1 CCG---AAAC
6397 CCGAAAAGC
1 CCG-AAA-C
6406 CCGAAAAC
1 CCG-AAAC
*
6414 CCTAAAAC
1 CC-GAAAC
6422 CCGAAAC
1 CCGAAAC
*
6429 CCTAAAC
1 CCGAAAC
*
6436 CAG-AAC
1 CCGAAAC
*
6442 CCTAAAAAC
1 CC--GAAAC
*
6451 CCTAAACC
1 CCGAAA-C
6459 CCGTAAAC
1 CCG-AAAC
**
6467 CC-TCAC
1 CCGAAAC
**
6473 CCCTAAC
1 CCGAAAC
*
6480 CCTTAGACACC
1 CC---GA-AAC
*
6491 CCTAAAC
1 CCGAAAC
6498 CCGAAACC
1 CCGAAA-C
*
6506 CCTAAACC
1 CCGAAA-C
*
6514 CCTAAACC
1 CCGAAA-C
* *
6522 CCTAACC
1 CCGAAAC
*
6529 CCTAAACC
1 CCGAAA-C
*
6537 CCTAAAC
1 CCGAAAC
*
6544 CCTAAAC
1 CCGAAAC
*
6551 CCCAAAC
1 CCGAAAC
*
6558 CCCAAAC
1 CCGAAAC
*
6565 CCCAAAC
1 CCGAAAC
*
6572 CC-AACC
1 CCGAAAC
*
6578 CCCAAACC
1 CCGAAA-C
*
6586 CCAAAACC
1 CCGAAA-C
*
6594 CCAAAACC
1 CCGAAA-C
*
6602 CCAAAAC
1 CCGAAAC
* *
6609 CCCAACC
1 CCGAAAC
*
6616 CCCAAAC
1 CCGAAAC
* *
6623 CCCAACC
1 CCGAAAC
* *
6630 CCCAACC
1 CCGAAAC
* *
6637 CCTAACC
1 CCGAAAC
*
6644 CCCAAAC
1 CCGAAAC
*
6651 CCCAAAC
1 CCGAAAC
*
6658 CCCAAAC
1 CCGAAAC
*
6665 CCCAAAC
1 CCGAAAC
*
6672 CCCAAAC
1 CCGAAAC
* *
6679 CCCAACC
1 CCGAAAC
*
6686 CCCAAACC
1 CCGAAA-C
*
6694 CCAAAACC
1 CCGAAA-C
*
6702 CCAAAACC
1 CCGAAA-C
*
6710 CCAAAAC
1 CCGAAAC
* *
6717 CCCAACC
1 CCGAAAC
*
6724 CCCAAAC
1 CCGAAAC
* *
6731 CCCAACC
1 CCGAAAC
* *
6738 CCCAACC
1 CCGAAAC
* *
6745 CCTAACC
1 CCGAAAC
*
6752 CCCAAAC
1 CCGAAAC
*
6759 CCCAAAC
1 CCGAAAC
*
6766 CCCAAAC
1 CCGAAAC
*
6773 CCCAAAC
1 CCGAAAC
*
6780 CCCAAAC
1 CCGAAAC
*
6787 CCCAAAC
1 CCGAAAC
*
6794 CCCAAAC
1 CCGAAAC
* *
6801 CCTAACC
1 CCGAAAC
*
6808 CCTAAACC
1 CCGAAA-C
*
6816 CCTAAACC
1 CCGAAA-C
*
6824 CCTAAAC
1 CCGAAAC
* *
6831 CCTAACC
1 CCGAAAC
*
6838 CCAAAACC
1 CCGAAA-C
*
6846 CCGAACC
1 CCGAAAC
*
6853 CCAAAAC
1 CCGAAAC
*
6860 CCTAAACC
1 CCGAAA-C
*
6868 CCAAAACC
1 CCGAAA-C
*
6876 CCGAACC
1 CCGAAAC
*
6883 CCGAACC
1 CCGAAAC
*
6890 CCGAACC
1 CCGAAAC
*
6897 CCGAACC
1 CCGAAAC
*
6904 CCGAACC
1 CCGAAAC
*
6911 CCGAACC
1 CCGAAAC
*
6918 CCGAACC
1 CCGAAAC
*
6925 CCGAACC
1 CCGAAAC
*
6932 CCGAACC
1 CCGAAAC
6939 CCG-AAC
1 CCGAAAC
*
6945 CCGAACC
1 CCGAAAC
*
6952 CCCAAAC
1 CCGAAAC
*
6959 CCCAAAC
1 CCGAAAC
*
6966 CCCAAAC
1 CCGAAAC
**
6973 CCCCAAC
1 CCGAAAC
*
6980 CCCAAAC
1 CCGAAAC
*
6987 CCCAAAC
1 CCGAAAC
*
6994 CCCAAAC
1 CCGAAAC
**
7001 CCCCAAC
1 CCGAAAC
*
7008 CCCAAAC
1 CCGAAAC
*
7015 CCTAAAC
1 CCGAAAC
*
7022 CCCAAAC
1 CCGAAAC
*
7029 CCCAAAC
1 CCGAAAC
* *
7036 CCCAATC
1 CCGAAAC
*
7043 CCCAAAC
1 CCGAAAC
* *
7050 CCCAATC
1 CCGAAAC
*
7057 CCCAAAC
1 CCGAAAC
*
7064 CCCAAAC
1 CCGAAAC
*
7071 CCCAAAC
1 CCGAAAC
*
7078 CCCAAAC
1 CCGAAAC
* *
7085 CCCAACC
1 CCGAAAC
*
7092 CCTAAAC
1 CCGAAAC
7099 CC
1 CC
7101 CAAAACCTTA
Statistics
Matches: 5952, Mismatches: 499, Indels: 1284
0.77 0.06 0.17
Matches are distributed among these distances:
4 9 0.00
5 59 0.01
6 606 0.10
7 3147 0.53
8 1452 0.24
9 496 0.08
10 127 0.02
11 40 0.01
12 14 0.00
13 1 0.00
15 1 0.00
ACGTcount: A:0.40, C:0.43, G:0.12, T:0.05
Consensus pattern (7 bp):
CCGAAAC
Found at i:106 original size:66 final size:66
Alignment explanation
Indices: 32--4042 Score: 468
Period size: 67 Copynumber: 60.5 Consensus size: 66
22 CCAAACCCGC
* *
32 ACCCGAAA-CC-G-AACTCCGAAACTCCTGAAACCCAAAACCCGAA-CCGAAACCCTGAAACTCC
1 ACCCGAAACCCTGCAAC-CCGAAAC-CC-GAAACCCAAAACCCAAACCCGAAAACC-GAAACTCC
93 GCATT
62 GCATT
*
98 ACCCGAAACCCTGCAACCCGAAACCCGAAACCCGAAACCCAAACCCGAAAACCGAAAC-CCG-A-
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCCAAACCCGAAAACCGAAACTCCGCAT
*
160 A
66 T
* * * * *
161 ACCCTAAACCC-G-AAACCTAAACCCGAAAGCCGAAAAACCCAAACCCTG-AAACCCAAAC-CCG
1 ACCCGAAACCCTGCAACCCGAAACCCGAAA-CC-CAAAACCCAAACCC-GAAAACCGAAACTCCG
**
222 -AAA
63 CATT
* *
225 ACCCGAATACCC-G-AAGCCCGATAACCCGAAACCCGAAACCCGAAA-CCGAAACCCGAACAC-C
1 ACCCGAA-ACCCTGCAA-CCCGA-AACCCGAAACCCAAAACCC-AAACCCGAAAACCGAA-ACTC
*
286 CG-A-A
61 CGCATT
* * * * *
290 ACCCGAAAACCCGGCAATACCCGAAACCCGATAACCCGACACCCGGAAATCCCGAAAGCCCGAAC
1 ACCCG-AAACCCTGC-A-ACCCGAAACCCGA-AACCCAAAACCC--AAA-CCCGAAA-ACCGAAA
355 CT-CG-A--
58 CTCCGCATT
* * * ** *
360 ACCCGCAACCC-GAAATCTCCGAAACCTCGAAATCCCGAAAACCCGAACCCGAACTCCCGGAA-T
1 ACCCGAAACCCTGCAA-C-CCGAAACC-CGAAA-CCC-AAAACCCAAACCCGAA-AACCGAAACT
**
423 ACC-CAAA
60 -CCGCATT
* *
430 ACCCGAAACCC-GAAACCCGAAACCCGAAACCCGAATATACCCGAAACCCGAAACCCGAAAC-CC
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCC-AA-A-ACCC-AAACCCGAAAACCGAAACTCC
**
493 G-AAA
62 GCATT
*
497 ACCCGAAACCCTG-ACACCCGAACACCCGAAACCCGAAATACCCTGAAACCCGGAAACCCGAAAC
1 ACCCGAAACCCTGCA-ACCCGAA-ACCCGAAACCC-AAA-ACCC--AAACCC-GAAAACCGAAAC
**
561 TCCG-AGA
59 TCCGCATT
* * * ***
568 ATCCCGAAACCC-GAAACCCGAAACCCGAAACCCGAAACCCGCAACCCGCCACCCCCGAAAAC-C
1 A-CCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCC-AAACCCG--AAAACCG-AAACTC
631 CGCA--
61 CGCATT
* * * * * *
635 ACCCGGAAACCC-GAAACCCGAACCCCGATAACCTCGAACCCGCTAACCCGAAACCCGAAAC-CC
1 ACCC-GAAACCCTGCAACCCGAAACCCGA-AACC-CAAAACC-CAAACCCGAAAACCGAAACTCC
*
698 G-A-A
62 GCATT
* * * *
701 ACCCGAAACCC-GAAAAACCCGAAAACTCGAAACCCGAAACCCGAAACCCGAAACCCGAAAAC-C
1 ACCCGAAACCCTG--CAACCCG-AAACCCGAAACCCAAAACCC-AAACCCGAAAACCG-AAACTC
**
764 CG-AAA
61 CGCATT
* * *
769 ACCCGAAACCC-GAAATACCGAAAATCCGAAATCCCTGTAAAGACCCGAAACCTCG-AAACCGAA
1 ACCCGAAACCCTGCAA-CCCG-AAACCCGAAA-CCC---AAA-ACCC-AAACC-CGAAAACCGAA
* **
832 AC-CCGAAAA
57 ACTCCGCATT
* * * * * **
841 ACCCTGAAACCCAGGAAACCCGAAACCCGACACCCGAAACCCCGAAACCCGAAACCCGAAAAACC
1 ACCC-GAAACCC-TGCAACCCGAAACCCGAAACCC-AAAACCC-AAACCCGAAAACCGAAACTCC
906 -CA--
62 GCATT
* *
908 ACACCGAAACCC--CAACCCGGAAACCCGGAAACCCGAATACCCGAAAACCCGAAACCCTTGTGA
1 AC-CCGAAACCCTGCAACCC-GAAACCC-GAAACCC-AAAACCC--AAACCCGAAAACC----GA
* *
971 AAC-CCGAAAT
56 AACTCCGCATT
* * *
981 -CCTCGAAA-CC-GAAACCCG-AACTCCGAAACCCGAAACCCGAAACCCGAATACCCGAAAAC-C
1 ACC-CGAAACCCTGCAACCCGAAAC-CCGAAACCCAAAACCC-AAACCCGAA-AACCG-AAACTC
*
1041 CG-A-A
61 CGCATT
* * * *
1045 ACCCGAAA-CCAG-AAACCGAAACCCGGAACCCCCGAAACCCGAAACCCGTAAAACCCGAAACTC
1 ACCCGAAACCCTGCAACCCGAAACCC-GAA-ACCCAAAACCC-AAACCCG-AAAA-CCGAAACTC
1108 TCG-A--
61 -CGCATT
* * *
1112 AACC-AAACCC-G-AACCCGAAAGCCCGAAACCCGAAACCCTACACCCG------GAAAC-CCGC
1 ACCCGAAACCCTGCAACCCGAAA-CCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCCGC
1167 A-T
64 ATT
* * ** *
1169 -CCCGAAACCCGGAAACCCGAAACCCGAAACCCCGAACCCGAAGACCCGAAACCCGAAAC-CCG-
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCC-AA-ACCCGAAAACCGAAACTCCGC
*
1231 A-A
64 ATT
* * * * * *
1233 ACCCTAAACCCTGGCTAA-CC--AACCCGAATCCCTGAAA--TAATCCCG-AAACTCGAATATCC
1 ACCCGAAACCCT-GC-AACCCGAAACCCGAAACCC-AAAACCCAAACCCGAAAAC-CGAA-A-CT
* *
1292 CCGTTATA
60 CCG-CATT
* * * *
1300 ACCCGAAACCC-GAAAACCCGAATACCCGCAA-CCGAAACCCGAAACCCG-CAACCAGAAAC-CC
1 ACCCGAAACCCTG-CAACCCGAA-ACCCGAAACCCAAAACCC-AAACCCGAAAACC-GAAACTCC
1361 G-A--
62 GCATT
* * * * *
1363 ACCCG-AACCC-G-AACCCGAAACCCCGAAACCCGAAACCCGACCCCTAAACCCGAAAC-CCG-A
1 ACCCGAAACCCTGCAACCCGAAA-CCCGAAACCCAAAACCCAAACCCGAAAACCGAAACTCCGCA
*
1423 -A
65 TT
* * * *
1424 ACCCGTAAACCC-GCAACCCGAAACTCGAAAACCCGATAAACCCGAACAC-AAACCCGAAACT-C
1 ACCCG-AAACCCTGCAACCCGAAACCCG-AAACCC-A-AAACCCAAACCCGAAAACCGAAACTCC
**
1486 GCGAAA
62 GC-ATT
* * * *
1492 ACCCGAAACCC-GAAACCCGAAA-CCGAAACCCGAAACCGGGACAACCCTGAAACTCCGAAAC-C
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACC--CA-AACCC-GAAA-ACCGAAACTC
*
1554 CG-AAT
61 CGCATT
* * * *
1559 A-CCGAAAACCC-GAAAAACCCGAAACCGCGCAA-CCGAAACCCGAAACCCGAAACCTCGAAA-T
1 ACCCG-AAACCCTG--CAACCCGAAACC-CGAAACCCAAAACCC-AAACCCGAAAAC-CGAAACT
1620 CCCGTCA-T
60 -CCG-CATT
* * * *
1628 ACCCGTAGATACCC-GGAACCCGATAACCTCGAAACCCGAAACCCTAA-CCG-AACCCGAAA--C
1 ACCCG-A-A-ACCCTGCAACCCGA-AACC-CGAAACCCAAAACCCAAACCCGAAAACCGAAACTC
*
1688 CG-A-A
61 CGCATT
* *
1692 ACCCGAAACCC-G-AACCCGAAATCCCGAAACCCTGAAACCCGAAACCCCGAAACCCG-AA-TAC
1 ACCCGAAACCCTGCAACCCGAAA-CCCGAAACCC-AAAACCC-AAA-CCCGAAAACCGAAACT-C
*
1753 CG-AAT
61 CGCATT
* *
1758 -CCCGAAA-CCTCGAAACCCGATAACTCCGAAA-CCAGAAACCCGAAACCCGAATACCGAAAC-C
1 ACCCGAAACCCT-GCAACCCGA-AAC-CCGAAACCCA-AAACCC-AAACCCGAAAACCGAAACTC
*
1819 CG-A-A
61 CGCATT
* * * *
1823 ACCCGAAAACCCGGACAACCCTGAAACCCGAAACCCGAAACCCGAAACCTGAAACCCGAAAC-CC
1 ACCCG-AAACCCTG-CAACCC-GAAACCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCC
1887 G-A--
62 GCATT
* * * *
1889 ACCCGAAAACCCT--AAACCGAACCCCGAAACCCGAAAGCCCAAACCCGAAACCCGAATAC-CCG
1 ACCCG-AAACCCTGCAACCCGAAACCCGAAACCC-AAAACCCAAACCCGAAAACCGAA-ACTCCG
1951 -A--
63 CATT
* * * *
1952 ACCCCGAAACCC-GAAAACCCG-AACCCGAAACCCGAAACCCGAATACCCGAAACCCG-AACCCC
1 A-CCCGAAACCCTG-CAACCCGAAACCCGAAACCCAAAACCC-AA-ACCCGAAAACCGAAACTCC
*
2014 G-ATA
62 GCATT
* *
2018 ACCCGAAAACCC-GCAACCCGGACAACCCGAAA-CCGAAACCCGAACACCCGAAACCCGAAAAC-
1 ACCCG-AAACCCTGCAACCC-GA-AACCCGAAACCCAAAACCC-AA-ACCCGAAAACCG-AAACT
*
2080 CCG-A-A
60 CCGCATT
* * * *
2085 ACCCGAAACCC-G-AAACCGCAACCCG-AACCGCGAAAGCTCTCGAAACCCGAAACCCGAATAC-
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACC-C-AAAAC-C-C-AAACCCGAAAACCGAA-ACT
*
2146 CCG-A-C
60 CCGCATT
* * *
2151 ACCCGAAAACCC-G-AGAACCGAAA-CCGAAACCCGAAACCCTGAAACCCGAAACCCGAAAC-CC
1 ACCCG-AAACCCTGCA-ACCCGAAACCCGAAACCCAAAACCC--AAACCCGAAAACCGAAACTCC
*
2212 G-A-A
62 GCATT
* * * * * *
2215 ACCCTAAACCCGGAAACCCCGGAAACCTCG-AA---AAGACTCGTAAATCCCG-AACCTCGCAAG
1 ACCCGAAACCCTGCAA-CCC-GAAACC-CGAAACCCAAAAC-C-CAAA-CCCGAAAAC-CG-AA-
*
2275 AC-CCG-A-A
57 ACTCCGCATT
* * * *
2282 ACCCGAATACCC-GAAACCCGAAACCC-AAACCGACAACCCGAAACCCGAAACCCGAAAC-CCG-
1 ACCCGAA-ACCCTGCAACCCGAAACCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCCGC
*
2343 A-A
64 ATT
* *
2345 ACCCGAAACCC-G-A-CACCGAAACCCGATAAACCGAAACCCGAAACCCTGAAAAACACGGGAAA
1 ACCCGAAACCCTGCAAC-CCGAAACCCGA-AACCCAAAACCC-AAACCC-G-AAAAC-C--GAAA
**
2407 C-CCG-AAC
58 CTCCGCATT
* *
2414 ACCCGAAACCC-G-AACCCGAAACCCCGAAACCTC-GAACCCGAAACCCGAAACCCTGAAAC-CC
1 ACCCGAAACCCTGCAACCCGAAA-CCCGAAACC-CAAAACCC-AAACCCGAAAACC-GAAACTCC
*
2475 G-A-A
62 GCATT
* * * * *
2478 ACCCGAAACCC-G-AACCC-AAACCCTAACCGAACCCGCATACCGAAACCCGAAACCCGAAA-TC
1 ACCCGAAACCCTGCAACCCGAAACCC-GA---AACCC-AAAACCCAAACCCGAAAACCGAAACTC
*
2539 C-CGA-A
61 CGC-ATT
* * * * *
2544 ACCCGAAACTCC-GAAACCCGCAACCCGAAACCCGAAACCCTAAACCCTAAACCCGAAAC-CCG-
1 ACCCGAAAC-CCTGCAACCCGAAACCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCCGC
*
2606 A-A
64 ATT
* * ***
2608 ACCCGAAACCC-GAAATCCCGAACCCCGAAACCCAGACAACCCGAAA-AATAAAACCGAAAC-CC
1 ACCCGAAACCCTGCAA-CCCGAAACCCGAAACCCA-A-AACCC-AAACCCGAAAACCGAAACTCC
* *
2670 GTA-A
62 GCATT
* * *
2674 ACCCGAAACCC-GAAACTTCCGAAAACCCTGAAACCC-GAACCTCGAAACCCGCGAAACCCGAAA
1 ACCCGAAACCCTGCAAC--CCG-AAACCC-GAAACCCAAAACC-C-AAA-CC-CGAAAACCG-AA
2737 AC-CCGCA--
57 ACTCCGCATT
* * * * * *
2744 ACCCGAATACCC-GAAATCCCGATCACACGAAACCCGAAACCCGAAACCCG-AACCCGATAAACC
1 ACCCGAA-ACCCTGCAA-CCCGA-AACCCGAAACCCAAAACCC-AAACCCGAAAACCG--AAACT
*
2807 CCG-A-A
60 CCGCATT
* * **
2812 ACCCGAAA-CC-GAAACCCG-AACCCGAGAACCCCGATAACCCCGAAACCCGAACTCCCGAAAC-
1 ACCCGAAACCCTGCAACCCGAAACCCGA-AA-CCC-A-AAACCC-AAACCCGAA-AACCGAAACT
*
2873 CCG-A-A
60 CCGCATT
** * * * *
2878 ACCCGAAACCC--CCCCCCGAACCCCGAAACCCGTAAATCCGAAATCCCGAAACCTCGAAAAAC-
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCC--AAAACCCAAA-CCCGAAAAC-CG--AAACT
*
2940 CCG-A-A
60 CCGCATT
* * * * *
2945 ACCCG-AACCC-GAAACCGGAACCCCGAAACCCGAAACCCGAAACCCG-AACCCGAAACTCCG-A
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCCGCA
*
3006 TA
65 TT
* * * *
3008 AGCCCCGAAA-CCTGAAACCCGAAACCCGAAACCCGATAACGCCGAAA-CCGAAACCCGCAAC-C
1 A--CCCGAAACCCTGCAACCCGAAACCCGAAACCC-AAAAC-CC-AAACCCGAAAACCGAAACTC
* *
3070 CGAATA
61 CGCATT
* * * * * *
3076 ACTCGCGAAA-CC--AAACCCTAAACCCGACA-CCGAAACCCGCAACCCGAAACCCGAAACTCCT
1 AC-C-CGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCC-AAACCCGAAAACCGAAACTCC-
*
3137 G-A-A
62 GCATT
* * * *
3140 ACCCGAAACTCC-GACTACCCGAAACCCG-AACCCGACCGAAACCCGCAACCC-TAACCCGAAAC
1 ACCCGAAAC-CCTG-CAACCCGAAACCCGAAACCC-A---AAACCC-AAACCCGAAAACCGAAAC
* *
3202 -CCGGA-A
59 TCCGCATT
* * * *
3208 ATCTCCGAAACCC-GAAACCCGAAACCCGAGAAACCCGAAACCCGCAACCCGAAACCCGAAA-TA
1 A-C-CCGAAACCCTGCAACCCGAAACCC--GAAACCCAAAACCC-AAACCCGAAAACCGAAACT-
*
3271 CCG-ATAA
60 CCGCAT-T
* * * * *
3278 ACTCCGAAACCC-GAAACCCTACACCCGAAA-CCTAAACCGAATACTCCGAACCCTAACCTGAAA
1 AC-CCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCCAA-AC-CCGAA----AACC-GAAA
* *
3341 C-CCTGTA-A
58 CTCC-GCATT
* * * *
3349 ACCCGAAACCC-GAAACCC--ACCCCGAAACCGGCGCTAAAACCCGAAACCGCTAAACCTCGAAA
1 ACCCGAAACCCTGCAACCCGAAACCCGAAA-C--C-C-AAAACCC-AAACC-CGAAAAC-CGAAA
*
3411 C-CCG-A-A
58 CTCCGCATT
* * * *
3417 ACCCGAAACCC-GAAACCCGATAA-CCGAAGACCCGATAACCGAAACCCGAAACCCGGAAAC-CC
1 ACCCGAAACCCTGCAACCCGA-AACCCGAA-ACCC-AAAACCCAAACCCGAAAACC-GAAACTCC
*
3479 G-ATC
62 GCATT
* * *
3483 ACCCGAAACCCCG-AAACCGAAATCCCG-AACCC-GAACCCGAAACCCCGAAAACCCGAAAC-CC
1 ACCCGAAACCCTGCAACCCGAAA-CCCGAAACCCAAAACCC-AAA-CCCGAAAA-CCGAAACTCC
** *
3544 TTA-A
62 GCATT
* *
3548 ACCCGAAACCC-GAAACCCGAAACCCGAAACCCGAAAACCCGAAACCCGAAACCCG-AAC-CC-C
1 ACCCGAAACCCTGCAACCCGAAACCCGAAACCC-AAAACCC-AAACCCGAAAACCGAAACTCCGC
3609 ---
64 ATT
** * * * *
3609 -CCC--CCCCCGGAAACCCGAATACCCG-AACCCGAAACTCCGAAACCCGAAACCCGAAGAC-CC
1 ACCCGAAACCCTGCAACCCGAA-ACCCGAAACCCAAAAC-CC-AAACCCGAAAACCGAA-ACTCC
*
3669 G-A-A
62 GCATT
* * *
3672 ACCCGAAACCC-GAAACCCGAAACCCGAAATCCCGGAAACCCGAATACCCGAAATCCCGAAA-T-
1 ACCCGAAACCCTGCAACCCGAAACCCGAAA-CCC-AAAACCC-AA-ACCCGAAA-ACCGAAACTC
*
3734 CACA--
61 CGCATT
* * * *
3738 ACCCCGAAACCCTGAAACCCGACACTCCGAAATCCCGAAACTCCTGAAACCCGTATAACCCGATA
1 A-CCCGAAACCCTGCAACCCGAAAC-CCGAAA-CCCAAAAC-CC--AAACCCG-A-AAACCGA-A
* *
3803 AC-CCGTA-A
57 ACTCCGCATT
* * * **
3811 ACCCCGAAACCCGGAAACCCGAAACCCGAAACCCGAAACCCGATAACCC-TTAA-C-AAACTCCG
1 A-CCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCC-A-AACCCGAAAACCGAAACTCCG
3873 -A--
63 CATT
** * *
3874 ACCCGAAACCCAAACCCAACTCCGAAAACCCGAAACCCGAAACCCGAAGACCCGAAAAGCCCAAA
1 ACCCGAAACCC---TGCAAC-CCG-AAACCCGAAACCCAAAACCC-AA-ACCCGAAAA-CCGAAA
* *
3939 CCCCG-A-A
58 CTCCGCATT
* * * *
3946 ACCCGAAACCC-GAAACCCTGAAACCCGAAA-CCGAAACCCGACACCCGAATACCCGAAAC-CCG
1 ACCCGAAACCCTGCAACCC-GAAACCCGAAACCCAAAACCC-AAACCCGAA-AACCGAAACTCCG
4008 -A--
63 CATT
*
4009 ACCCGAGAACCC-GAAACCCGAAAACCCGAAACCC
1 ACCCGA-AACCCTGCAACCCG-AAACCCGAAACCC
4043 GATACCCGTA
Statistics
Matches: 3221, Mismatches: 302, Indels: 845
0.74 0.07 0.19
Matches are distributed among these distances:
55 2 0.00
56 4 0.00
57 11 0.00
58 24 0.01
59 57 0.02
60 56 0.02
61 64 0.02
62 71 0.02
63 169 0.05
64 257 0.08
65 404 0.13
66 488 0.15
67 545 0.17
68 344 0.11
69 257 0.08
70 202 0.06
71 111 0.03
72 93 0.03
73 43 0.01
74 13 0.00
75 6 0.00
ACGTcount: A:0.40, C:0.41, G:0.14, T:0.05
Consensus pattern (66 bp):
ACCCGAAACCCTGCAACCCGAAACCCGAAACCCAAAACCCAAACCCGAAAACCGAAACTCCGCAT
T
Found at i:107 original size:25 final size:22
Alignment explanation
Indices: 3--5669 Score: 3320
Period size: 22 Copynumber: 256.6 Consensus size: 22
1 CC
3 GAAACCCGAAACCCG-AACCC-
1 GAAACCCGAAACCCGAAACCCT
* *
23 CAAACCCG-CACCCGAAA-CC-
1 GAAACCCGAAACCCGAAACCCT
42 G-AACTCCGAAACTCCTGAAACCC-
1 GAAAC-CCGAAAC-CC-GAAACCCT
*
65 AAAACCCG-AA-CCGAAACCCT
1 GAAACCCGAAACCCGAAACCCT
*
85 GAAACTCCGCATTACCCGAAACCCT
1 GAAAC-CCG-A-AACCCGAAACCCT
*
110 GCAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
131 GAAACCC-AAACCCGAAAACC-
1 GAAACCCGAAACCCGAAACCCT
*
151 GAAACCCGAAACCCTAAACCC-
1 GAAACCCGAAACCCGAAACCCT
* *
172 GAAA-CCTAAACCCGAAAGCC-
1 GAAACCCGAAACCCGAAACCCT
192 GAAAAACCC-AAACCCTGAAACCC-
1 G--AAACCCGAAACCC-GAAACCCT
215 -AAACCCGAAAACCCGAATACCC-
1 GAAACCCG-AAACCCGAA-ACCCT
*
237 GAAGCCCGATAACCCGAAACCC-
1 GAAACCCGA-AACCCGAAACCCT
259 GAAACCCGAAA-CCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
279 GAACACCCGAAACCCGAAAACCCG
1 GAA-ACCCGAAACCCG-AAACCCT
303 GCAATACCCGAAACCCGATAACCC-
1 G-AA-ACCCGAAACCCGA-AACCCT
*
327 GACACCCGGAAATCCCGAAAGCCC-
1 GAAACCC-GAAA-CCCGAAA-CCCT
*
351 G-AACCTCG-AACCCGCAACCC-
1 GAAACC-CGAAACCCGAAACCCT
371 GAAATCTCCGAAACCTCGAAATCCC-
1 GAAA-C-CCGAAACC-CGAAA-CCCT
* *
396 GAAAACCCG-AACCCGAACTCCCG
1 G-AAACCCGAAACCCGAA-ACCCT
*
419 GAATACCCAAAACCCGAAACCC-
1 GAA-ACCCGAAACCCGAAACCCT
441 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
462 GAATATACCCGAAACCCGAAACCC-
1 G-A-A-ACCCGAAACCCGAAACCCT
486 GAAACCCGAAAACCCGAAACCCT
1 GAAACCCG-AAACCCGAAACCCT
*
509 GACACCCGAACACCCGAAACCC-
1 GAAACCCGAA-ACCCGAAACCCT
531 GAAATACCCTGAAACCCGGAAACCC-
1 G-AA-ACCC-GAAACCC-GAAACCCT
556 GAAACTCCGAGAATCCCGAAACCC-
1 GAAAC-CCGA-AA-CCCGAAACCCT
580 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
* * * *
601 GAAACCCGCAACCCGCCACCCCC
1 GAAACCCGAAACCCG-AAACCCT
*
624 GAAAACCCGCAACCCGGAAACCC-
1 G-AAACCCGAAACCC-GAAACCCT
*
647 GAAACCCGAACCCCGATAA-CCT
1 GAAACCCGAAACCCGA-AACCCT
*
669 CG-AACCCGCTAACCCGAAACCC-
1 -GAAACCCG-AAACCCGAAACCCT
691 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
712 GAAAAACCCGAAAACTCGAAACCC-
1 G--AAACCCG-AAACCCGAAACCCT
736 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
757 GAAAACCCGAAAACCCGAAACCC-
1 G-AAACCCG-AAACCCGAAACCCT
* *
780 GAAATACCGAAAATCCGAAATCCCT
1 GAAA-CCCG-AAACCCGAAA-CCCT
805 GTAAAGACCCGAAACCTCGAAA-CC-
1 G--AA-ACCCGAAACC-CGAAACCCT
*
829 GAAACCCGAAAAACCCTGAAACCCAG
1 GAAACCCG--AAACCC-GAAACCC-T
*
855 GAAACCCGAAACCCGACACCC-
1 GAAACCCGAAACCCGAAACCCT
876 GAAACCCCGAAACCCGAAACCC-
1 GAAA-CCCGAAACCCGAAACCCT
898 GAAAAACCC--AACACCGAAACCC-
1 G--AAACCCGAAAC-CCGAAACCCT
*
920 -CAACCCGGAAACCCGGAAACCC-
1 GAAACCC-GAAACCC-GAAACCCT
942 GAATACCCGAAAACCCGAAACCCTTGT
1 GAA-ACCCG-AAACCCGAAACCC---T
969 GAAACCCGAAATCCTCGAAA-CC-
1 GAAACCCGAAA-CC-CGAAACCCT
991 GAAACCCG-AACTCCGAAACCC-
1 GAAACCCGAAAC-CCGAAACCCT
1012 GAAACCCGAAACCCGAATACCC-
1 GAAACCCGAAACCCGAA-ACCCT
*
1034 GAAAACCCGAAACCCGAAA-CCA
1 G-AAACCCGAAACCCGAAACCCT
* *
1056 GAAA-CCGAAACCCGGAACCCCC
1 GAAACCCGAAACCC-GAAACCCT
1078 GAAACCCGAAACCCGTAAAACCC-
1 GAAACCCGAAACCCG--AAACCCT
1101 GAAACTCTCGAAA-CC-AAACCC-
1 GAAAC-C-CGAAACCCGAAACCCT
1122 G-AACCCGAAAGCCCGAAACCC-
1 GAAACCCGAAA-CCCGAAACCCT
* *
1143 GAAACCCTACACCCGGAAACCC-
1 GAAACCCGAAACCC-GAAACCCT
* *
1165 GCATCCCGAAACCCGGAAACCC-
1 GAAACCCGAAACCC-GAAACCCT
1187 GAAACCCGAAACCCCG-AACCC-
1 GAAACCCGAAA-CCCGAAACCCT
1208 GAAGACCCGAAACCCGAAACCC-
1 GAA-ACCCGAAACCCGAAACCCT
* *
1230 GAAACCCTAAACCCTGGCTAA-CC-
1 GAAACCCGAAACCC--G-AAACCCT
*
1253 --AACCCGAATCCCTGAAA---T
1 GAAACCCGAAACCC-GAAACCCT
* *
1271 -AATCCCGAAACTCGAATATCCCCGT
1 GAAACCCGAAACCCGAA-A--CCC-T
*
1296 TATAACCCGAAACCCGAAAACCC-
1 GA-AACCCGAAACCCG-AAACCCT
*
1319 GAATACCCGCAA-CCGAAACCC-
1 GAA-ACCCGAAACCCGAAACCCT
* *
1340 GAAACCCGCAACCAGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
1361 G-AACCCG-AACCCG-AACCC-
1 GAAACCCGAAACCCGAAACCCT
1379 GAAACCCCGAAACCCGAAACCC-
1 GAAA-CCCGAAACCCGAAACCCT
* *
1401 G-ACCCCTAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
1421 GAAACCCGTAAACCCGCAACCC-
1 GAAACCCG-AAACCCGAAACCCT
*
1443 GAAACTCGAAAACCCGATAAACCC-
1 GAAACCCG-AAACCCG--AAACCCT
*
1467 G-AACAC-AAACCCGAAACTCGC-
1 GAAACCCGAAACCCGAAAC-C-CT
1488 GAAAACCCGAAACCCGAAACCC-
1 G-AAACCCGAAACCCGAAACCCT
**
1510 GAAA-CCGAAACCCGAAACCGG
1 GAAACCCGAAACCCGAAACCCT
1531 GACAACCCTGAAACTCCGAAACCC-
1 GA-AACCC-GAAAC-CCGAAACCCT
1555 GAATA-CCGAAAACCCGAAAAACCC-
1 GAA-ACCCG-AAACCCG--AAACCCT
*
1579 GAAACCGCGCAA-CCGAAACCC-
1 GAAACC-CGAAACCCGAAACCCT
1600 GAAACCCGAAACCTCGAAATCCCGT
1 GAAACCCGAAACC-CGAAA-CCC-T
* * *
1625 CATACCCGTAGATACCCGGAACCC-
1 GAAACCCG-A-A-ACCCGAAACCCT
1649 GATAACCTCGAAACCCGAAACCCT
1 GA-AACC-CGAAACCCGAAACCCT
1673 --AA-CCG-AACCCGAAA-CC-
1 GAAACCCGAAACCCGAAACCCT
1689 GAAACCCGAAACCCG-AACCC-
1 GAAACCCGAAACCCGAAACCCT
1709 GAAATCCCGAAACCCTGAAACCC-
1 GAAA-CCCGAAACCC-GAAACCCT
1732 GAAACCCCGAAACCCGAATA-CC-
1 GAAA-CCCGAAACCCGAA-ACCCT
*
1754 GAATCCCGAAACCTCGAAACCC-
1 GAAACCCGAAACC-CGAAACCCT
*
1776 GATAACTCCGAAACCAGAAACCC-
1 GA-AAC-CCGAAACCCGAAACCCT
1799 GAAACCCGAATA-CCGAAACCC-
1 GAAACCCGAA-ACCCGAAACCCT
1820 GAAACCCGAAAACCCGGACAACCCT
1 GAAACCCG-AAACCC-GA-AACCCT
1845 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
1866 GAAACCTGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
1887 G-AACCCGAAAACCCTAAA-CC-
1 GAAACCCG-AAACCCGAAACCCT
*
1907 GAACCCCGAAACCCGAAAGCCC-
1 GAAACCCGAAACCCGAAA-CCCT
1929 -AAACCCGAAACCCGAATACCC-
1 GAAACCCGAAACCCGAA-ACCCT
*
1950 GAACCCCGAAACCCGAAAACCC-
1 GAAACCCGAAACCCG-AAACCCT
1972 G-AACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
1992 GAATACCCGAAACCCG-AACCCC
1 GAA-ACCCGAAACCCGAAACCCT
* *
2014 GATAACCCGAAAACCCGCAACCCG
1 GA-AACCCG-AAACCCGAAACCCT
2038 GACAACCCGAAA-CCGAAACCC-
1 GA-AACCCGAAACCCGAAACCCT
2059 GAACACCCGAAACCCGAAAACCC-
1 GAA-ACCCGAAACCCG-AAACCCT
2082 GAAACCCGAAACCCGAAA-CC-
1 GAAACCCGAAACCCGAAACCCT
* *
2102 GCAACCCG-AACCGCGAAAGCTCT
1 GAAACCCGAAACC-CGAAA-CCCT
2125 CGAAACCCGAAACCCGAATACCC-
1 -GAAACCCGAAACCCGAA-ACCCT
*
2148 GACACCCGAAAACCCGAGAA-CC-
1 GAAACCCG-AAACCCGA-AACCCT
2170 GAAA-CCGAAACCCGAAACCCT
1 GAAACCCGAAACCCGAAACCCT
2191 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
* *
2212 GAAACCCTAAACCCGGAAACCCCG
1 GAAACCCGAAACCC-GAAA-CCCT
*
2236 GAAACCTCGAAAAGACTCGTAAATCCC-
1 GAAACC-CG--AA-ACCCG-AAA-CCCT
2263 G-AACCTCGCAAGACCCGAAACCC-
1 GAAACC-CG-AA-ACCCGAAACCCT
2286 GAATACCCGAAACCCGAAACCC-
1 GAA-ACCCGAAACCCGAAACCCT
2308 -AAA-CCGACAACCCGAAACCC-
1 GAAACCCGA-AACCCGAAACCCT
2328 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
2349 GAAACCCGACA-CCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
2369 GATAAACCGAAACCCGAAACCCT
1 GA-AACCCGAAACCCGAAACCCT
*
2392 GAAAAACACGGGAAACCCGAACACCC-
1 G--AAAC-C-CGAAACCCGAA-ACCCT
*
2418 GAAACCCG-AACCCGAAACCCC
1 GAAACCCGAAACCCGAAACCCT
2439 GAAACCTCG-AACCCGAAACCC-
1 GAAACC-CGAAACCCGAAACCCT
2460 GAAACCCTGAAACCCGAAACCC-
1 GAAACCC-GAAACCCGAAACCCT
2482 GAAACCCG-AACCC-AAACCCT
1 GAAACCCGAAACCCGAAACCCT
*
2502 --AA-CCG-AACCCGCATA-CC-
1 GAAACCCGAAACCCG-AAACCCT
2519 GAAACCCGAAACCCGAAATCCC-
1 GAAACCCGAAACCCGAAA-CCCT
2541 GAAACCCGAAACTCCGAAACCC-
1 GAAACCCGAAAC-CCGAAACCCT
*
2563 GCAACCCGAAACCCGAAACCCT
1 GAAACCCGAAACCCGAAACCCT
*
2585 -AAACCCTAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
2605 GAAACCCGAAACCCGAAATCCC-
1 GAAACCCGAAACCCGAAA-CCCT
*
2627 GAACCCCGAAACCCAGACAACCC-
1 GAAACCCGAAACCC-GA-AACCCT
*** *
2650 GAAA-AATAAAACCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
2670 GTAAACCCGAAACCCGAAACTTCC-
1 G-AAACCCGAAACCCGAAAC--CCT
2694 GAAAACCCTGAAACCCG-AA-CCT
1 G-AAACCC-GAAACCCGAAACCCT
2716 CGAAACCCGCGAAACCCGAAAACCC-
1 -GAAA-CC-CGAAACCCG-AAACCCT
*
2741 GCAACCCGAATACCCGAAATCCC-
1 GAAACCCGAA-ACCCGAAA-CCCT
* *
2764 GATCACACGAAACCCGAAACCC-
1 GA-AACCCGAAACCCGAAACCCT
*
2786 GAAACCCG-AACCCGATAAACCCC
1 GAAACCCGAAACCCG--AAACCCT
2809 GAAACCCGAAA-CCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
2829 G-AACCCGAGAACCCCGATAACCCC
1 GAAACCCGA-AA-CCCGA-AACCCT
*
2853 GAAACCCGAACTCCCGAAACCC-
1 GAAACCCGAA-ACCCGAAACCCT
** *
2875 GAAACCCGAAACCC--CCCCCC
1 GAAACCCGAAACCCGAAACCCT
* *
2895 GAACCCCGAAACCCGTAAATCC-
1 GAAACCCGAAACCCG-AAACCCT
2917 GAAATCCCGAAACCTCGAAAAACCC-
1 GAAA-CCCGAAACC-CG--AAACCCT
*
2942 GAAACCCG-AACCCGAAA-CCG
1 GAAACCCGAAACCCGAAACCCT
*
2962 GAACCCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
2983 GAAACCCG-AACCCGAAACTCC-
1 GAAACCCGAAACCCGAAAC-CCT
*
3004 GATAAGCCCCGAAACCTGAAACCC-
1 GA-AA--CCCGAAACCCGAAACCCT
3028 GAAACCCGAAACCCGATAACGCC-
1 GAAACCCGAAACCCGA-AAC-CCT
*
3051 GAAA-CCGAAACCCGCAACCC-
1 GAAACCCGAAACCCGAAACCCT
3071 GAATAACTCGCGAAA-CC-AAACCCT
1 G-A-AAC-C-CGAAACCCGAAACCCT
*
3095 -AAACCCGACA-CCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
3114 GCAACCCGAAACCCGAAACTCCT
1 GAAACCCGAAACCCGAAAC-CCT
*
3137 GAAACCCGAAACTCCGACTACCC-
1 GAAACCCGAAAC-CCGA-AACCCT
3160 GAAACCCG-AACCCG--A-CC-
1 GAAACCCGAAACCCGAAACCCT
* *
3177 GAAACCCGCAACCC-TAACCC-
1 GAAACCCGAAACCCGAAACCCT
3197 GAAACCCGGAAATCTCCGAAACCC-
1 GAAACCC-GAAA-C-CCGAAACCCT
3221 GAAACCCGAAACCCGAGAAACCC-
1 GAAACCCGAAACCC--GAAACCCT
*
3244 GAAACCCGCAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
3265 GAAATACCGATAAACTCCGAAACCC-
1 GAAA-CCCG--AAAC-CCGAAACCCT
* *
3290 GAAACCCTACACCCGAAA-CCT
1 GAAACCCGAAACCCGAAACCCT
3311 -AAA-CCGAATACTCCG-AACCCT
1 GAAACCCGAA-AC-CCGAAACCCT
*
3332 --AACCTGAAACCCTGTAAACCC-
1 GAAACCCGAAACCC-G-AAACCCT
*
3353 GAAACCCGAAACCC---ACCCC
1 GAAACCCGAAACCCGAAACCCT
3372 GAAACCGGCGCTAAAACCCGAAACCGCT
1 GAAACC--CG---AAACCCGAAACC-CT
3400 -AAACCTCGAAACCCGAAACCC-
1 GAAACC-CGAAACCCGAAACCCT
3421 GAAACCCGAAACCCGATAA-CC-
1 GAAACCCGAAACCCGA-AACCCT
3442 GAAGACCCGATAA-CCGAAACCC-
1 GAA-ACCCGA-AACCCGAAACCCT
*
3464 GAAACCCGGAAACCCGATCACCC-
1 GAAACCC-GAAACCCGA-AACCCT
3487 GAAACCCCGAAA-CCGAAATCCC-
1 GAAA-CCCGAAACCCGAAA-CCCT
*
3509 G-AACCCG-AACCCGAAACCCC
1 GAAACCCGAAACCCGAAACCCT
*
3529 GAAAACCCGAAACCCTTAAACCC-
1 G-AAACCCGAAACCC-GAAACCCT
3552 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
3573 GAAACCCGAAAACCCGAAACCC-
1 GAAACCCG-AAACCCGAAACCCT
* **** *
3595 GAAACCCGAACCCCCCCCCCCCG
1 GAAACCCGAA-ACCCGAAACCCT
3618 GAAACCCGAATACCCG-AACCC-
1 GAAACCCGAA-ACCCGAAACCCT
3639 GAAACTCCGAAACCCGAAACCC-
1 GAAAC-CCGAAACCCGAAACCCT
3661 GAAGACCCGAAACCCGAAACCC-
1 GAA-ACCCGAAACCCGAAACCCT
*
3683 GAAACCCGAAACCCGAAATCCCG
1 GAAACCCGAAACCCGAAA-CCCT
3706 GAAACCCGAATACCCGAAATCCC-
1 GAAACCCGAA-ACCCGAAA-CCCT
* *
3729 GAAATCAC-AACCCCGAAACCCT
1 GAAA-CCCGAAACCCGAAACCCT
*
3751 GAAACCCGACACTCCGAAATCCC-
1 GAAACCCGAAAC-CCGAAA-CCCT
3774 GAAACTCCTGAAACCCGTATAACCC-
1 GAAAC-CC-GAAACCCG-A-AACCCT
*
3799 GATAACCCGTAAACCCCGAAACCCG
1 GA-AACCCG-AAA-CCCGAAACCCT
3824 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
3845 GAAACCCGATAACCCTTAACAAACTCC-
1 GAAACCCGA-AACCC----GAAAC-CCT
3872 G-AACCCGAAACCC-AAACCC-
1 GAAACCCGAAACCCGAAACCCT
3891 --AACTCCGAAAACCCGAAACCC-
1 GAAAC-CCG-AAACCCGAAACCCT
3912 GAAACCCGAAGACCCGAAAAGCCC-
1 GAAACCCGAA-ACCCG-AAA-CCCT
3936 -AAACCCCGAAACCCGAAACCC-
1 GAAA-CCCGAAACCCGAAACCCT
3957 GAAACCCTGAAACCCGAAA-CC-
1 GAAACCC-GAAACCCGAAACCCT
*
3978 GAAACCCGACACCCGAATACCC-
1 GAAACCCGAAACCCGAA-ACCCT
4000 GAAACCCG-AACCCGAGAACCC-
1 GAAACCCGAAACCCGA-AACCCT
4021 GAAACCCGAAAACCCGAAACCC-
1 GAAACCCG-AAACCCGAAACCCT
* *
4043 GATACCCGTAACACCCTGAAA-GC-
1 GAAACCCG-AA-ACCC-GAAACCCT
* *
4066 GAATTACCCTAAACCCGAAAATCC-
1 GAA--ACCCGAAACCCG-AAACCCT
*
4090 GAAAACCCGAATACCCGAAATAACCCC
1 G-AAACCCGAA-ACCCG--A-AACCCT
*
4117 GATAACCGGAAACCCG-AACCC-
1 GA-AACCCGAAACCCGAAACCCT
4138 GAAACCCGAAACCCGTAAACCC-
1 GAAACCCGAAACCCG-AAACCCT
** *
4160 GTAATACTCCGAAA-CCGAAAATCG
1 G-AA-AC-CCGAAACCCGAAACCCT
* *
4184 GAACCCCTAATA-CCGAAATCCCT
1 GAAACCCGAA-ACCCGAAA-CCCT
*
4207 GAAACCCGATAACCTGAAA-CCT
1 GAAACCCGA-AACCCGAAACCCT
* * *
4229 -CAACCCGAAACCC-TAACCCC
1 GAAACCCGAAACCCGAAACCCT
4249 GAAAACCCGAAA-CCGAAACCC-
1 G-AAACCCGAAACCCGAAACCCT
4270 GAACACCCGAAACCCGAATACCC-
1 GAA-ACCCGAAACCCGAA-ACCCT
*
4293 GAAACCCG-CACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
****
4313 GACTAACCCGAAACCCCGAATGTTTT
1 GA--AACCCGAAA-CCCGAA-ACCCT
* * *
4339 G--TCCTTCTG-TACCCTG-TACACCT
1 GAAACC--C-GAAACCC-GAAAC-CCT
4362 CGAAAACCCG-AACCCGATATA-CCT
1 -G-AAACCCGAAACCCGA-A-ACCCT
4386 GAAAACCCTGAAACCCGAAACCC-
1 G-AAACCC-GAAACCCGAAACCCT
*
4409 -CAA-CCGAAACGCCGAAACCC-
1 GAAACCCGAAAC-CCGAAACCCT
*
4429 GAATACCTCGAAACCCGCAACCC-
1 GAA-ACC-CGAAACCCGAAACCCT
* *
4452 GCAA-CCGAACACCAC-CAA-CCT
1 GAAACCCGAA-ACC-CGAAACCCT
*
4473 CCAAACCCGAAACCTTCGAAACCC-
1 -GAAACCCGAAACC--CGAAACCCT
*
4497 GAAA-CCGAAACTTCCGAAACCCG
1 GAAACCCGAAAC--CCGAAACCCT
** *
4520 GTACCCCCGAAACCCGCAACCC-
1 G-AAACCCGAAACCCGAAACCCT
* *
4542 GCAATCCCGAAACCCGCAACCC-
1 G-AAACCCGAAACCCGAAACCCT
* * *
4564 GACACCCCTACAACCCCAAACCC-
1 GA-AACCCGA-AACCCGAAACCCT
* *
4587 CATCACCC-AATA-CCGAAACCC-
1 GA-AACCCGAA-ACCCGAAACCCT
4608 GAAACCCGAAACCCGAAACCCT
1 GAAACCCGAAACCCGAAACCCT
4630 GAAACCCGATAACCCGAATACCC-
1 GAAACCCGA-AACCCGAA-ACCCT
4653 GAAACCCGAAACCCGGAAA-CC-
1 GAAACCCGAAACCC-GAAACCCT
*
4674 GAAACCCGCAATCCCGAAAACTCC-
1 GAAACCCG-AAACCCG-AAAC-CCT
4698 GAAACCCGAAACCCG-AACCC-
1 GAAACCCGAAACCCGAAACCCT
4718 GAAACCCGAAACCCGAAACCCT
1 GAAACCCGAAACCCGAAACCCT
4740 -AAA-CCGAAAACCCG-AACCC-
1 GAAACCCG-AAACCCGAAACCCT
*
4759 GAAACCCTGGTACACCCGAAACCCT
1 GAAACCC--G-AAACCCGAAACCCT
4784 GAAA-CCGATAACCCGAATACCCT
1 GAAACCCGA-AACCCGAA-ACCCT
*
4807 AAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
4828 GAAACCCGAAAACCCAAAACCCT
1 GAAACCCG-AAACCCGAAACCCT
* * * *
4851 CAATCCCTAAACCCGAAAACC-
1 GAAACCCGAAACCCGAAACCCT
4872 GAAACCCGAAACCCG-AACCCGAAT
1 GAAACCCGAAACCCGAAACCC---T
* *
4896 AAAACTCCGAAAACCCGAAACCCC
1 GAAAC-CCG-AAACCCGAAACCCT
4920 GAAACCCCGAAA-CCGAAACCC-
1 GAAA-CCCGAAACCCGAAACCCT
** *
4941 CCAACCCGACACCCGACAAACCC-
1 GAAACCCGAAACCCG--AAACCCT
4964 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
4985 G-AACCCTGAAACCCGATAATACC-
1 GAAACCC-GAAACCCGA-AA-CCCT
5008 G-AACCCGAAACCGCG-AACCC-
1 GAAACCCGAAACC-CGAAACCCT
5028 GAAACCTCGAAACTCCGATAACCC-
1 GAAACC-CGAAAC-CCGA-AACCCT
5052 GAAA-CCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
5072 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
5093 G-AACACCGAAA-CC--AACCC-
1 GAAAC-CCGAAACCCGAAACCCT
*
5111 GACACCTCGAAATCCCGAAATACCC-
1 GAAACC-CGAAA-CCCG-AA-ACCCT
*
5136 GAAA-CCGAAAACCCGATA-CC-
1 GAAACCCG-AAACCCGAAACCCT
* *
5156 GCAACCCTGGAAAGCCTCTATAACCC-
1 GAAACCC--GAAA-CC-CGA-AACCCT
* *
5182 GAAACTCC-TACCCCGAAACCC-
1 GAAAC-CCGAAACCCGAAACCCT
*
5203 GAAACTCCTGAAA-CCGCAACCC-
1 GAAAC-CC-GAAACCCGAAACCCT
5225 GAAATCGCCG-AACCCGAAACCC-
1 GAAA-C-CCGAAACCCGAAACCCT
5247 GAAA-CCGAAAAACCCGAAACCGC-
1 GAAACCCG--AAACCCGAAACC-CT
5270 GAAACCCGGTAAATCCCGACATACCC-
1 GAAACCC-G-AAA-CCCGA-A-ACCCT
*
5296 G-AACCCGAAACCCGACACCC-
1 GAAACCCGAAACCCGAAACCCT
5316 G-AA-CCG-AACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
5334 GAAACCCGAAACTCCGACACCC-
1 GAAACCCGAAAC-CCGAAACCCT
5356 GAAACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
5377 GCAACCCGCAAACCCGAAACCC-
1 GAAACCCG-AAACCCGAAACCCT
* *
5399 GAAACCCCAAACCCCAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
5420 GAAACCAGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
*
5441 GAAATCTCTCG-AACACGAATACCC-
1 GAAA-C-C-CGAAACCCGAA-ACCCT
*
5465 G-AACCCGAAACCCTTAAACCC-
1 GAAACCCGAAACCC-GAAACCCT
** *
5486 G-AACCTCGAAACCTTAATACCGT
1 GAAACC-CGAAACCCGAA-ACCCT
5509 -AAACCCGAAACCTCGAAA-CCT
1 GAAACCCGAAACC-CGAAACCCT
*
5530 CGAAA-CCGAAACCAGAAA-CC-
1 -GAAACCCGAAACCCGAAACCCT
* *
5550 GAAACCCTAAACCCG-AACCCC
1 GAAACCCGAAACCCGAAACCCT
5571 GAAACCCGAATA-CCGAAACCC-
1 GAAACCCGAA-ACCCGAAACCCT
5592 G-AACCCGAAACCCGAAACCC-
1 GAAACCCGAAACCCGAAACCCT
5612 GAAACCCGATAACTCCGAAATCCC-
1 GAAACCCGA-AAC-CCGAAA-CCCT
5636 GAAACCCGAGAACCCG-AACCC-
1 GAAACCCGA-AACCCGAAACCCT
*
5657 G-AACCCCAAACCC
1 GAAACCCGAAACCC
5670 CCAAACCCCA
Statistics
Matches: 4710, Mismatches: 350, Indels: 1175
0.76 0.06 0.19
Matches are distributed among these distances:
17 20 0.00
18 64 0.01
19 147 0.03
20 527 0.11
21 1037 0.22
22 1153 0.24
23 806 0.17
24 514 0.11
25 251 0.05
26 101 0.02
27 74 0.02
28 16 0.00
ACGTcount: A:0.40, C:0.41, G:0.14, T:0.05
Consensus pattern (22 bp):
GAAACCCGAAACCCGAAACCCT
Found at i:6341 original size:44 final size:43
Alignment explanation
Indices: 6193--6436 Score: 192
Period size: 44 Copynumber: 5.4 Consensus size: 43
6183 TTTTTGACCG
* * *
6193 AAACCCGAAACCCGAAACCCTAAACCCGAAACCAGAACCC--T
1 AAACCCGAAACCCGAAACCCGAAACCCGAAACCCGAACCCGAA
* * *
6234 AAACCCGAAAACCCGAAACCCGAAACCCGAAA-CCGAAACTGGA
1 AAACCCG-AAACCCGAAACCCGAAACCCGAAACCCGAACCCGAA
* * *
6277 AAACCCTAAACCCTTAAAACCCGAACCCCGAAACCCGAACCCGAA
1 AAACCCGAAACCC--GAAACCCGAAACCCGAAACCCGAACCCGAA
*
6322 AACATCCCGAAA-CCGAAACCCGAAACCCGAAACCCTAAACACCGAA
1 AA-A-CCCGAAACCCGAAACCCGAAACCCGAAACCC-GAAC-CCGAA
* * *
6368 AACCCCGAAACCGGAAAACCCGTATAAACCCGAAAAGCCCGAAAACCC-TA
1 AAACCCGAAACCCG-AAACCCG---AAACCCG-AAA-CCCG--AACCCGAA
*
6418 AAACCCGAAACCCTAAACC
1 AAACCCGAAACCCGAAACC
6437 AGAACCCTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
41 12 0.07
42 29 0.18
43 6 0.04
44 42 0.26
45 15 0.09
46 17 0.10
47 6 0.04
49 12 0.07
50 15 0.09
51 5 0.03
52 3 0.02
ACGTcount: A:0.45, C:0.39, G:0.11, T:0.05
Consensus pattern (43 bp):
AAACCCGAAACCCGAAACCCGAAACCCGAAACCCGAACCCGAA
Found at i:6399 original size:25 final size:23
Alignment explanation
Indices: 6193--6430 Score: 139
Period size: 20 Copynumber: 10.6 Consensus size: 23
6183 TTTTTGACCG
6193 AAACCCGAAACCCG-AAACCCT-
1 AAACCCGAAACCCGAAAACCCTA
*
6214 AAACCCGAAA-CC-AGAACCCT-
1 AAACCCGAAACCCGAAAACCCTA
*
6234 AAACCCGAAAACCCG-AAACCC-G
1 AAACCCG-AAACCCGAAAACCCTA
***
6256 AAACCCGAAA-CCG-AAACTGGA
1 AAACCCGAAACCCGAAAACCCTA
* * *
6277 AAACCCTAAACCCTTAAAACCC-G
1 AAACCCGAAACCC-GAAAACCCTA
* *
6300 AACCCCGAAACCCG--AACCCGAA
1 AAACCCGAAACCCGAAAACCC-TA
*
6322 AACATCCCGAAA-CCG-AAACCC-G
1 AA-A-CCCGAAACCCGAAAACCCTA
* *
6344 AAACCCGAAACCC-TAAACACCGA
1 AAACCCGAAACCCGAAAAC-CCTA
*
6367 AAACCCCGAAACCGGAAAACCCGTA
1 AAA-CCCGAAACCCGAAAACCC-TA
6392 TAAACCCGAAAAGCCCGAAAACCCTA
1 -AAACCCG-AAA-CCCGAAAACCCTA
6418 AAACCCGAAACCC
1 AAACCCGAAACCC
6431 TAAACCAGAA
Statistics
Matches: 172, Mismatches: 21, Indels: 46
0.72 0.09 0.19
Matches are distributed among these distances:
20 34 0.20
21 32 0.19
22 22 0.13
23 20 0.12
24 30 0.17
25 16 0.09
26 8 0.05
27 10 0.06
ACGTcount: A:0.45, C:0.39, G:0.12, T:0.05
Consensus pattern (23 bp):
AAACCCGAAACCCGAAAACCCTA
Found at i:7208 original size:14 final size:14
Alignment explanation
Indices: 7181--7218 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
7171 CCCGAACCTT
7181 TAACCCCTAAACTC
1 TAACCCCTAAACTC
7195 TAAACCCC-AAACTC
1 T-AACCCCTAAACTC
7209 TAACCCCTAA
1 TAACCCCTAA
7219 CCCTTAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (14 bp):
TAACCCCTAAACTC
Found at i:7218 original size:7 final size:7
Alignment explanation
Indices: 7181--7280 Score: 53
Period size: 7 Copynumber: 14.4 Consensus size: 7
7171 CCCGAACCTT
7181 TAACCCC
1 TAACCCC
* *
7188 TAAACTC
1 TAACCCC
7195 TAAACCCC
1 T-AACCCC
* *
7203 -AAACTC
1 TAACCCC
7209 TAACCCC
1 TAACCCC
*
7216 TAACCCT
1 TAACCCC
*
7223 TAATCCC
1 TAACCCC
*
7230 TAAGGCCC
1 TAA-CCCC
*
7238 -AATCCC
1 TAACCCC
7244 TAACCCC
1 TAACCCC
* *
7251 TAATCTC
1 TAACCCC
7258 TAACCCC
1 TAACCCC
*
7265 CAA-CCC
1 TAACCCC
*
7271 TAAACCC
1 TAACCCC
7278 TAA
1 TAA
7281 AAGCTAATAT
Statistics
Matches: 68, Mismatches: 20, Indels: 10
0.69 0.20 0.10
Matches are distributed among these distances:
6 12 0.18
7 49 0.72
8 7 0.10
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:7244 original size:28 final size:27
Alignment explanation
Indices: 7213--7278 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
7203 AAACTCTAAC
**
7213 CCCTAACCCTTAATCCCTAAGGCCCAA
1 CCCTAACCCTTAATCCCTAACCCCCAA
* *
7240 TCCCTAACCCCTAATCTCTAACCCCCAA
1 -CCCTAACCCTTAATCCCTAACCCCCAA
7268 CCCTAAACCCT
1 CCCT-AACCCT
7279 AAAAGCTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.29, C:0.48, G:0.03, T:0.20
Consensus pattern (27 bp):
CCCTAACCCTTAATCCCTAACCCCCAA
Found at i:7264 original size:14 final size:14
Alignment explanation
Indices: 7208--7280 Score: 69
Period size: 14 Copynumber: 5.3 Consensus size: 14
7198 ACCCCAAACT
*
7208 CTAACCCCTAACCC
1 CTAATCCCTAACCC
* *
7222 TTAATCCCTAAGGCC
1 CTAATCCCTAA-CCC
7237 C-AATCCCTAACCC
1 CTAATCCCTAACCC
*
7250 CTAATCTCTAACCC
1 CTAATCCCTAACCC
* *
7264 CCAA-CCCTAAACC
1 CTAATCCCTAACCC
7277 CTAA
1 CTAA
7281 AAGCTAATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
13 13 0.28
14 32 0.68
15 2 0.04
ACGTcount: A:0.32, C:0.47, G:0.03, T:0.19
Consensus pattern (14 bp):
CTAATCCCTAACCC
Found at i:9741 original size:83 final size:83
Alignment explanation
Indices: 9602--9767 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
9592 TTTTGTATTG
9602 GTCTTCAAACTTCAAAACCTAACAATTAGGTATCCAATTTTAACATTGCGTATTAATCAGGTCTT
1 GTCTTCAAACTTCAAAACCTAACAATTAGGTATCCAATTTTAACATTGCGTATTAATCAGGTCTT
*
9667 CCGTTAGCAAAACCATTA
66 CCGCTAGCAAAACCATTA
*
9685 GTCTTCAAACTTCAAAACGTAACAATTAGGTATCCAATTTTAACATTGCGTATTAATCAGGTCTT
1 GTCTTCAAACTTCAAAACCTAACAATTAGGTATCCAATTTTAACATTGCGTATTAATCAGGTCTT
9750 CCGCTAGCAAAACCATTA
66 CCGCTAGCAAAACCATTA
9768 CAATAGATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (83 bp):
GTCTTCAAACTTCAAAACCTAACAATTAGGTATCCAATTTTAACATTGCGTATTAATCAGGTCTT
CCGCTAGCAAAACCATTA
Found at i:15207 original size:3 final size:3
Alignment explanation
Indices: 15199--15239 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15189 ATATAAAATA
15199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15240 AGAAACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16461 original size:6 final size:6
Alignment explanation
Indices: 16418--16458 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
16408 GGAGGAGCGC
* *
16418 TCTCTG TATCTG TCTCTG TCTCTG TCTCTG TCTCTA TCTCT
1 TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCT
16459 ATCGAGTCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.05, C:0.32, G:0.12, T:0.51
Consensus pattern (6 bp):
TCTCTG
Found at i:22733 original size:3 final size:3
Alignment explanation
Indices: 22727--22776 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
22717 CAACAAATTA
* * *
22727 ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT GTT GTT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22774 ATT
1 ATT
22777 GTCATCACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25632 original size:20 final size:18
Alignment explanation
Indices: 25595--25649 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
25585 CACTCTCCCC
25595 TTCTCTCTCT-TCTTTTT
1 TTCTCTCTCTATCTTTTT
*
25612 CTT-TCTTTCTATCTTTTT
1 -TTCTCTCTCTATCTTTTT
25630 TTCTCTCTCTATCTTTTT
1 TTCTCTCTCTATCTTTTT
25648 TT
1 TT
25650 TTTTGGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTCTCTCTATCTTTTT
Found at i:33642 original size:2 final size:2
Alignment explanation
Indices: 33630--33678 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
33620 GAGGGTAAGA
* *
33630 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33672 AT AT AT A
1 AT AT AT A
33679 CCTTGCATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34462 original size:2 final size:2
Alignment explanation
Indices: 34450--34484 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
34440 TTCATAATTC
34450 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34485 TTATCCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34808 original size:2 final size:2
Alignment explanation
Indices: 34801--34833 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
34791 TAAAATCATA
*
34801 AT AT AT AT -T AT AC 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
34834 CAATCGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35378 original size:2 final size:2
Alignment explanation
Indices: 35366--35395 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35356 ACTTACCAAG
*
35366 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35396 CTCATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:41532 original size:2 final size:2
Alignment explanation
Indices: 41525--41558 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
41515 AGAGACAATA
41525 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
41559 TCTGGATACT
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:44596 original size:14 final size:14
Alignment explanation
Indices: 44577--44605 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44567 GGTTGTATGA
44577 TGTTTTTTTTTTTT
1 TGTTTTTTTTTTTT
44591 TGTTTTTTTTTTTT
1 TGTTTTTTTTTTTT
44605 T
1 T
44606 TGGGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TGTTTTTTTTTTTT
Found at i:44598 original size:13 final size:13
Alignment explanation
Indices: 44580--44604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44570 TGTATGATGT
44580 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
44593 TTTTTTTTTTTT
1 TTTTTTTTTTTT
44605 TTGGGGGGGG
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:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:44599 original size:15 final size:15
Alignment explanation
Indices: 44579--44607 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44569 TTGTATGATG
44579 TTTTTTTTTTTTTGT
1 TTTTTTTTTTTTTGT
44594 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
44608 GGGGGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTTGT
Found at i:45589 original size:2 final size:2
Alignment explanation
Indices: 45572--45612 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
45562 TTTTAAATTG
45572 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45611 TA
1 TA
45613 GGAAAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:48859 original size:20 final size:22
Alignment explanation
Indices: 48820--48861 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
48810 GAAATGAAAG
*
48820 AGAGGAAAGAAAAGAAAACCAA
1 AGAGAAAAGAAAAGAAAACCAA
48842 AGAGAAAAG-AAA-AAAACCAA
1 AGAGAAAAGAAAAGAAAACCAA
48862 CAATTCACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.71, C:0.10, G:0.19, T:0.00
Consensus pattern (22 bp):
AGAGAAAAGAAAAGAAAACCAA
Found at i:51388 original size:6 final size:6
Alignment explanation
Indices: 51377--51404 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51367 TAATGAAGAC
51377 GGTGAA GGTGAA GGTGAA GGTGAA GGTG
1 GGTGAA GGTGAA GGTGAA GGTGAA GGTG
51405 GAGGAACGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.54, T:0.18
Consensus pattern (6 bp):
GGTGAA
Found at i:52658 original size:3 final size:3
Alignment explanation
Indices: 52652--52685 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
52642 CCTCAATTAA
52652 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
52686 GTCATCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:53043 original size:4 final size:4
Alignment explanation
Indices: 53036--53077 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
53026 CAATCAATTG
*
53036 GATT GATT GATT GATT GATT GATT GTATA G-TT GA-T GATT GAT
1 GATT GATT GATT GATT GATT GATT G-ATT GATT GATT GATT GAT
53078 GACTCACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.15
4 25 0.76
5 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GATT
Found at i:57551 original size:16 final size:18
Alignment explanation
Indices: 57516--57637 Score: 65
Period size: 16 Copynumber: 7.5 Consensus size: 18
57506 ATGTATAATT
*
57516 TAAAA-ATTTTAT-AATA
1 TAAAATATTATATAAATA
*
57532 TAAATTATTA-ATAAAT-
1 TAAAATATTATATAAATA
57548 TAAAAT-TTATATAAATA
1 TAAAATATTATATAAATA
57565 TAAAATATT-T-T--ATCA
1 TAAAATATTATATAAAT-A
* * *
57580 T-AATTATGATAAAAATA
1 TAAAATATTATATAAATA
**
57597 T-ATTTATTA-ATAAAT-
1 TAAAATATTATATAAATA
57612 TAAAAT-TTATATAAATA
1 TAAAATATTATATAAATA
*
57629 TTAAATATT
1 TAAAATATT
57638 TTTAAAATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
14 7 0.09
15 10 0.12
16 31 0.39
17 26 0.32
18 6 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
TAAAATATTATATAAATA
Found at i:57561 original size:32 final size:33
Alignment explanation
Indices: 57518--57634 Score: 111
Period size: 30 Copynumber: 3.6 Consensus size: 33
57508 GTATAATTTA
57518 AAAATTT-TAT-AATATAAATTATTAATAAATT
1 AAAATTTATATAAATATAAATTATTAATAAATT
* * *
57549 AAAATTTATATAAATATAAAATATT--T-TATC
1 AAAATTTATATAAATATAAATTATTAATAAATT
* * *
57579 ATAA-TTATGATAAAAATATATTTATTAATAAATT
1 AAAATTTAT-ATAAATATA-AATTATTAATAAATT
57613 AAAATTTATATAAATATTAAAT
1 AAAATTTATATAAATA-TAAAT
57635 ATTTTTAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
29 4 0.06
30 13 0.20
31 13 0.20
32 3 0.05
33 13 0.20
34 13 0.20
35 6 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
AAAATTTATATAAATATAAATTATTAATAAATT
Found at i:57619 original size:18 final size:18
Alignment explanation
Indices: 57596--57644 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
57586 TGATAAAAAT
57596 ATATTTATTAATAAATTAA
1 ATATTTATTAA-AAATTAA
*
57615 A-ATTTATATAAATATTAA
1 ATATTTAT-TAAAAATTAA
57633 ATATTT-TTAAAA
1 ATATTTATTAAAA
57645 TAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
19 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATTAAAAATTAA
Found at i:57995 original size:67 final size:67
Alignment explanation
Indices: 57885--58018 Score: 169
Period size: 67 Copynumber: 2.0 Consensus size: 67
57875 CAACATTAAG
* *
57885 TAACAACATCAAAACTTGTTCAGCCTCAAAACGACATGCAAAACGCAGATGACCTCAATATCTCC
1 TAACAACATCAAAACTTGTTCAGCCTCAAAACGACATGCAAAACCCAAATGACCTCAATATCTCC
57950 TA
66 TA
* * * * * * * * *
57952 TAACAACATCAACACTTGTTTAGTCTCAAAATGTCCTGTAAAACCCAAATGACCTTAGTATCTCC
1 TAACAACATCAAAACTTGTTCAGCCTCAAAACGACATGCAAAACCCAAATGACCTCAATATCTCC
58017 TA
66 TA
58019 CCAGCACCGC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (67 bp):
TAACAACATCAAAACTTGTTCAGCCTCAAAACGACATGCAAAACCCAAATGACCTCAATATCTCC
TA
Found at i:59786 original size:14 final size:15
Alignment explanation
Indices: 59756--59788 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59746 AAATAGAATA
59756 AAATTTATAAATATT
1 AAATTTATAAATATT
*
59771 AAATTT-TAAATTTT
1 AAATTTATAAATATT
59785 AAAT
1 AAAT
59789 GTGACTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTATAAATATT
Found at i:60096 original size:2 final size:2
Alignment explanation
Indices: 60089--60127 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
60079 AAAGTGGCAA
* *
60089 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60128 AGTCAACAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:68668 original size:2 final size:2
Alignment explanation
Indices: 68661--68706 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
68651 TTTAAGAAGC
68661 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
68703 GA GA
1 GA GA
68707 ACGCACCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:69479 original size:23 final size:24
Alignment explanation
Indices: 69444--69507 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
69434 CAAATTATAT
69444 AATAATAAA-TTTATAAAATA-AAA
1 AATAA-AAATTTTATAAAATATAAA
**
69467 AATAAAAATTTTATTTAATATAAA
1 AATAAAAATTTTATAAAATATAAA
*
69491 ATTAAATAATTTT-TAAA
1 AATAAA-AATTTTATAAA
69508 TAATTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 3 0.09
23 14 0.42
24 10 0.30
25 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAAAAATTTTATAAAATATAAA
Found at i:72706 original size:2 final size:2
Alignment explanation
Indices: 72701--72732 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72691 CACACAAACA
72701 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
72733 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:72737 original size:2 final size:2
Alignment explanation
Indices: 72732--72756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72722 TCTCTCTCTC
72732 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
72757 GCATGTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74970 original size:29 final size:30
Alignment explanation
Indices: 74918--74992 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
74908 TAAACCCTCT
74918 ATTTATATCCAAATAATATCTTAATCTTTA
1 ATTTATATCCAAATAATATCTTAATCTTTA
* *
74948 ATTTGTAT-CAAATAA-ATCTTTAATTTTTA
1 ATTTATATCCAAATAATATC-TTAATCTTTA
* *
74977 ATTTATTTCTAAATAA
1 ATTTATATCCAAATAA
74993 ACCTTATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 3 0.08
29 22 0.58
30 13 0.34
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.49
Consensus pattern (30 bp):
ATTTATATCCAAATAATATCTTAATCTTTA
Found at i:75010 original size:26 final size:25
Alignment explanation
Indices: 74977--75025 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
74967 TTAATTTTTA
*
74977 ATTTATTTCTAAATAA-ACCTTATAC
1 ATTTATTT-GAAATAATACCTTATAC
75002 ATTTCATTTGAAATAATACCTTAT
1 ATTT-ATTTGAAATAATACCTTAT
75026 TTCAGTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTTATTTGAAATAATACCTTATAC
Found at i:75309 original size:15 final size:17
Alignment explanation
Indices: 75279--75310 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
75269 AATTTTTAGC
75279 AATAAATTACATATTAA
1 AATAAATTACATATTAA
75296 AATAAA-TA-ATATTAA
1 AATAAATTACATATTAA
75311 CATATTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAATTACATATTAA
Found at i:75685 original size:2 final size:2
Alignment explanation
Indices: 75678--75731 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
75668 CATGGACCAC
75678 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
75720 GA GA GA GA GA GA
1 GA GA GA GA GA GA
75732 AATTCAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:78876 original size:3 final size:3
Alignment explanation
Indices: 78868--78901 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
78858 TTTTCATATT
*
78868 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78902 GCGATCGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:80397 original size:18 final size:19
Alignment explanation
Indices: 80366--80401 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
80356 ATATGAGGAT
80366 TTAGATATTTGAAATTAAA
1 TTAGATATTTGAAATTAAA
80385 TTAGATA-TTGAAATTAA
1 TTAGATATTTGAAATTAA
80402 TTTCGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
TTAGATATTTGAAATTAAA
Found at i:87258 original size:2 final size:2
Alignment explanation
Indices: 87253--87279 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
87243 TATATATATA
87253 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
87280 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:93742 original size:9 final size:9
Alignment explanation
Indices: 93715--93748 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
93705 GTCTTATTTA
93715 TTTATTATT
1 TTTATTATT
*
93724 ATTATTATT
1 TTTATTATT
93733 TTTATTATT
1 TTTATTATT
93742 TTGTATT
1 TT-TATT
93749 TAATTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTATTATT
Found at i:99485 original size:22 final size:22
Alignment explanation
Indices: 99460--99502 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
99450 AAAGTGTGTC
99460 TACTTTAAGAAGAAATGAAAAT
1 TACTTTAAGAAGAAATGAAAAT
99482 TACTTTAAGAAGAAATGAAAA
1 TACTTTAAGAAGAAATGAAAA
99503 ATATTTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (22 bp):
TACTTTAAGAAGAAATGAAAAT
Found at i:99521 original size:23 final size:22
Alignment explanation
Indices: 99460--99518 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
99450 AAAGTGTGTC
*
99460 TACTTTAAGAAGAAATGAAAAT
1 TACTTTAAGAAGAAATGAAAAA
99482 TACTTTAAGAAGAAATGAAAAA
1 TACTTTAAGAAGAAATGAAAAA
*
99504 TA-TTTACTGAAGAAA
1 TACTTTA-AGAAGAAA
99519 ATGTTGGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.27
Consensus pattern (22 bp):
TACTTTAAGAAGAAATGAAAAA
Found at i:100218 original size:2 final size:2
Alignment explanation
Indices: 100211--100249 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
100201 TTGCTTTCCT
100211 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
100250 AGACTTAGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:101166 original size:2 final size:2
Alignment explanation
Indices: 101161--101190 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
101151 TTAAAAAAAC
*
101161 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101191 GCCTCATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105992 original size:23 final size:22
Alignment explanation
Indices: 105956--105999 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
105946 TAAAACTAAT
105956 TTTATAATTATATTTAAATAAAA
1 TTTATAATTATA-TTAAATAAAA
* *
105979 TTTATTATTTTATTAAATAAA
1 TTTATAATTATATTAAATAAA
106000 TAATAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTATAATTATATTAAATAAAA
Found at i:109791 original size:63 final size:63
Alignment explanation
Indices: 109692--109820 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
109682 TCTGGATGAG
109692 GATCACCCCTTATCATTTCTTTACACTGTTTGGCTTTGGCATCTGCTTTGGCAGACCTAAGGT
1 GATCACCCCTTATCATTTCTTTACACTGTTTGGCTTTGGCATCTGCTTTGGCAGACCTAAGGT
*
109755 GATCACCCCTTATCATTTCTTTACACTGTTTGGCTTTGGCATCTGCTTTGGCAGACCTGAGGT
1 GATCACCCCTTATCATTTCTTTACACTGTTTGGCTTTGGCATCTGCTTTGGCAGACCTAAGGT
109818 GAT
1 GAT
109821 GGATCGTGCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (63 bp):
GATCACCCCTTATCATTTCTTTACACTGTTTGGCTTTGGCATCTGCTTTGGCAGACCTAAGGT
Found at i:114226 original size:2 final size:2
Alignment explanation
Indices: 114219--114267 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
114209 ACATACATAC
114219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114261 AT AT AT A
1 AT AT AT A
114268 AATGAGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120063 original size:14 final size:15
Alignment explanation
Indices: 120040--120068 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
120030 CCTTTCATAC
120040 AAAATAAAAATAATA
1 AAAATAAAAATAATA
120055 AAAAT-AAAATAATA
1 AAAATAAAAATAATA
120069 TAATTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:126909 original size:2 final size:2
Alignment explanation
Indices: 126902--126941 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
126892 TAAGAATGAC
126902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126942 GGGTCAGTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130858 original size:8 final size:8
Alignment explanation
Indices: 130842--130882 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
130832 TATGCTTAAG
130842 ATGTATAT
1 ATGTATAT
*
130850 ATATATAT
1 ATGTATAT
*
130858 ATGTATGT
1 ATGTATAT
*
130866 ATGTATGT
1 ATGTATAT
130874 ATGTATAT
1 ATGTATAT
130882 A
1 A
130883 GCAAATATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (8 bp):
ATGTATAT
Found at i:131194 original size:19 final size:20
Alignment explanation
Indices: 131149--131195 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
131139 AATATTAAAT
* *
131149 ATAATTATAGTATGTATTTA
1 ATAATAATAATATGTATTTA
*
131169 AT-TTAATAATATG-ATTTA
1 ATAATAATAATATGTATTTA
131187 ATAATAATA
1 ATAATAATA
131196 GTTCAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 7 0.32
19 13 0.59
20 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
ATAATAATAATATGTATTTA
Found at i:136936 original size:22 final size:22
Alignment explanation
Indices: 136897--136948 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
136887 ATAATATTTT
*
136897 TATATATATTTAATTATAAAAA
1 TATATAAATTTAATTATAAAAA
136919 TATATAAATATTAA-TATAAAAA
1 TATATAAAT-TTAATTATAAAAA
136941 TAATATAA
1 T-ATATAA
136949 TAAACAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATATAAATTTAATTATAAAAA
Found at i:136963 original size:26 final size:25
Alignment explanation
Indices: 136917--136965 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
136907 TAATTATAAA
* * *
136917 AATATATAAATATTAATATAAAAAT
1 AATATATAAACAATAAAATAAAAAT
136942 AATATAATAAACAATAAAATAAAA
1 AATAT-ATAAACAATAAAATAAAA
136966 TTTTCAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AATATATAAACAATAAAATAAAAAT
Found at i:144817 original size:2 final size:2
Alignment explanation
Indices: 144810--144859 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
144800 ACATACATAC
* *
144810 AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144852 AT AT AT AT
1 AT AT AT AT
144860 GCGTTCATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:144823 original size:16 final size:16
Alignment explanation
Indices: 144802--144852 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
144792 GCTCTGAGAC
144802 ATACATACATATATAT
1 ATACATACATATATAT
144818 ATACATACATATATAT
1 ATACATACATATATAT
* *
144834 ATATATATATATATAT
1 ATACATACATATATAT
144850 ATA
1 ATA
144853 TATATATGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (16 bp):
ATACATACATATATAT
Found at i:150640 original size:21 final size:21
Alignment explanation
Indices: 150614--150654 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
150604 AAAAAAAAAC
150614 AATTAAAATATTATATATAAT
1 AATTAAAATATTATATATAAT
150635 AATTAAAATATTATATATAA
1 AATTAAAATATTATATATAA
150655 AGAGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTAAAATATTATATATAAT
Found at i:150662 original size:21 final size:21
Alignment explanation
Indices: 150617--150663 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
150607 AAAAAACAAT
*
150617 TAAAATATTATATATAATAAT
1 TAAAATATTATATATAATAAG
150638 TAAAATATTATATATAA-AGAG
1 TAAAATATTATATATAATA-AG
150659 TAAAA
1 TAAAA
150664 ATAATGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
TAAAATATTATATATAATAAG
Found at i:150723 original size:17 final size:17
Alignment explanation
Indices: 150703--150760 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
150693 TTTTTAAGAT
150703 TTATATAATATAAATTA
1 TTATATAATATAAATTA
*
150720 TTATAT-AT-TAAAAT-
1 TTATATAATATAAATTA
*
150734 TTATATAAATATATAATAA
1 TTATAT-AATATA-AATTA
*
150753 TTTTATAA
1 TTATATAA
150761 GATGACCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 4 0.12
17 8 0.25
18 4 0.12
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATATAATATAAATTA
Found at i:150747 original size:20 final size:19
Alignment explanation
Indices: 150722--150760 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
150712 ATAAATTATT
150722 ATATATTAA-AATTTATATAA
1 ATATA-TAATAATTT-TATAA
150742 ATATATAATAATTTTATAA
1 ATATATAATAATTTTATAA
150761 GATGACCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATAATAATTTTATAA
Found at i:151231 original size:2 final size:2
Alignment explanation
Indices: 151219--151250 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
151209 GGCCAGAACC
151219 AT AT AT A- AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
151251 TGTCTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:151458 original size:20 final size:21
Alignment explanation
Indices: 151408--151459 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
151398 ATTTTTAATA
*
151408 AAAATTTAAAAAATATATTTT
1 AAAATTTAAAAAATATATTAT
151429 AAAATTTTTAAATAAAT-T-TTAT
1 AAAA--TTTAAA-AAATATATTAT
151451 AAAATTTAA
1 AAAATTTAA
151460 TTAATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 5 0.19
21 4 0.15
22 7 0.26
23 7 0.26
24 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATTTAAAAAATATATTAT
Found at i:151492 original size:16 final size:16
Alignment explanation
Indices: 151451--151508 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
151441 TAAATTTTAT
*
151451 AAAATTT-AATTAATTA
1 AAAATTTAAAATAA-TA
151467 AAATATTTAAAATAATA
1 AAA-ATTTAAAATAATA
*
151484 AAAATTTAAAAT-TTAA
1 AAAATTTAAAATAAT-A
151500 AAAATTTAA
1 AAAATTTAA
151509 TAAAAAAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 1 0.03
16 22 0.59
17 9 0.24
18 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTAAAATAATA
Found at i:152685 original size:17 final size:19
Alignment explanation
Indices: 152665--152708 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
152655 ATAATTAAAT
152665 ATAAAAAA-TA-AAATATA
1 ATAAAAAATTACAAATATA
*
152682 ATAAAAAAATTACGAATATA
1 AT-AAAAAATTACAAATATA
152702 ATAAAAA
1 ATAAAAA
152709 TTATATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 6 0.26
19 7 0.30
20 8 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
ATAAAAAATTACAAATATA
Found at i:152737 original size:27 final size:27
Alignment explanation
Indices: 152705--152757 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
152695 GAATATAATA
* *
152705 AAAATTATATATTATTTTAATTAAATC
1 AAAATTATAAAATATTTTAATTAAATC
* *
152732 AAAATTTTAAAATATTTTATTTAAAT
1 AAAATTATAAAATATTTTAATTAAAT
152758 TTAATTTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AAAATTATAAAATATTTTAATTAAATC
Found at i:153013 original size:15 final size:15
Alignment explanation
Indices: 152993--153062 Score: 79
Period size: 15 Copynumber: 4.5 Consensus size: 15
152983 TTTCGATAAA
152993 TAAATATATAAATTT
1 TAAATATATAAATTT
*
153008 TAAATAAAATATAATTT
1 TAAAT-ATATA-AATTT
153025 T-AATATATTAAATTT
1 TAAATATA-TAAATTT
* *
153040 TAAATAAATATATTT
1 TAAATATATAAATTT
153055 TAAATATA
1 TAAATATA
153063 ATTATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
15 26 0.57
16 14 0.30
17 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATATATAAATTT
Found at i:153049 original size:31 final size:30
Alignment explanation
Indices: 152995--153087 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 30
152985 TCGATAAATA
152995 AATATATAAATTTTAAATAAAATATAATTTT
1 AATATATAAATTTTAAAT-AAATATAATTTT
153026 AATATATTAAATTTTAAATAAATAT-ATTTT
1 AATATA-TAAATTTTAAATAAATATAATTTT
* * *
153056 AA-ATAT-AATTATAATAAAAATATAATATT
1 AATATATAAATTTTAA-ATAAATATAATTTT
153085 AAT
1 AAT
153088 TAACCAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
27 7 0.13
28 8 0.15
29 9 0.16
30 7 0.13
31 12 0.22
32 12 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AATATATAAATTTTAAATAAATATAATTTT
Found at i:153053 original size:20 final size:19
Alignment explanation
Indices: 152967--153052 Score: 89
Period size: 19 Copynumber: 4.8 Consensus size: 19
152957 CTATTTAACA
152967 TTTAAATAAAT-T-TAAAT
1 TTTAAATAAATATATAAAT
152984 TTCGATAAATAAATATATAAAT
1 TT---TAAATAAATATATAAAT
153006 TTTAAATAAA-ATAT-AAT
1 TTTAAATAAATATATAAAT
153023 TTT-AAT--ATAT-TAAAT
1 TTTAAATAAATATATAAAT
153038 TTTAAATAAATATAT
1 TTTAAATAAATATAT
153053 TTTAAATATA
Statistics
Matches: 58, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.03
15 8 0.14
16 6 0.10
17 8 0.14
18 8 0.14
19 9 0.16
20 9 0.16
21 1 0.02
22 7 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (19 bp):
TTTAAATAAATATATAAAT
Found at i:153073 original size:15 final size:15
Alignment explanation
Indices: 152998--153087 Score: 55
Period size: 17 Copynumber: 5.9 Consensus size: 15
152988 ATAAATAAAT
152998 ATATAAATTTTAAATAAA
1 ATAT-AATTTT-AAT-AA
*
153016 ATATAATTTTAATAT
1 ATATAATTTTAATAA
153031 AT-TAAATTTTAAATAA
1 ATAT-AATTTT-AATAA
153047 ATAT-A-TTT--TAA
1 ATATAATTTTAATAA
*
153058 ATATAATTATAATAAAA
1 ATATAATTTTAAT--AA
*
153075 ATATAATATTAAT
1 ATATAATTTTAAT
153088 TAACCAATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
11 7 0.12
12 1 0.02
13 2 0.03
14 4 0.07
15 11 0.19
16 9 0.16
17 20 0.34
18 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATAATTTTAATAA
Found at i:161434 original size:21 final size:21
Alignment explanation
Indices: 161409--161449 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
161399 AAGGGGGAGA
161409 AGGTGGAGGATAAGAAGAAGC
1 AGGTGGAGGATAAGAAGAAGC
* *
161430 AGGTGTAGGATAAGGAGAAG
1 AGGTGGAGGATAAGAAGAAG
161450 ATAGATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.44, T:0.12
Consensus pattern (21 bp):
AGGTGGAGGATAAGAAGAAGC
Found at i:163812 original size:6 final size:6
Alignment explanation
Indices: 163794--163834 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
163784 GCATATGATA
* *
163794 ATTTAT A-TTAT ATTTAT ATTTAT -TTTAT ATATAT ATATAT A
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
163835 AATTTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTAT
Found at i:163814 original size:17 final size:17
Alignment explanation
Indices: 163794--163925 Score: 67
Period size: 17 Copynumber: 7.5 Consensus size: 17
163784 GCATATGATA
*
163794 ATTTATATTATATTTAT
1 ATTTATATTATATATAT
*
163811 ATTTATTTTATATATAT
1 ATTTATATTATATATAT
* *
163828 ATATATAAATTTTTATATAAAT
1 AT-T-T--A-TATTATATATAT
163850 AATTTATATTATATA-A-
1 -ATTTATATTATATATAT
*
163866 ATTT-TA--ATATAAAT
1 ATTTATATTATATATAT
* *
163880 ATTCATATAATATTATAT
1 ATTTATATTATA-TATAT
163898 ATTTAATATTTATATATCAT
1 ATTT-ATA-TTATATAT-AT
*
163918 ATTAATAT
1 ATTTATAT
163926 AATCATATTT
Statistics
Matches: 91, Mismatches: 9, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
12 5 0.05
13 1 0.01
14 5 0.05
15 6 0.07
17 21 0.23
18 17 0.19
19 11 0.12
20 9 0.10
21 2 0.02
22 12 0.13
23 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATATTATATATAT
Found at i:163846 original size:14 final size:14
Alignment explanation
Indices: 163827--163879 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
163817 TTTATATATA
163827 TATATATAAATTTT
1 TATATATAAATTTT
* *
163841 TATATAAATAATTTA
1 TATATATA-AATTTT
163856 TATTATATAAA-TTT
1 TA-TATATAAATTTT
163870 TA-ATATAAAT
1 TATATATAAAT
163880 ATTCATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 7 0.22
14 11 0.34
15 9 0.28
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATATAAATTTT
Found at i:163846 original size:16 final size:16
Alignment explanation
Indices: 163825--163876 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
163815 ATTTTATATA
163825 TATATATATAAATTTT
1 TATATATATAAATTTT
* *
163841 TATATAAAT-AATTTA
1 TATATATATAAATTTT
163856 TAT-TATATAAATTTT
1 TATATATATAAATTTT
*
163871 AATATA
1 TATATA
163877 AATATTCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.52
16 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATATAAATTTT
Found at i:163846 original size:18 final size:18
Alignment explanation
Indices: 163823--163881 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
163813 TTATTTTATA
163823 TATATATATATAAATTTT
1 TATATATATATAAATTTT
163841 TATATA-A-AT-AA--TT
1 TATATATATATAAATTTT
163854 TATAT-TATATAAATTTT
1 TATATATATATAAATTTT
* *
163871 AATATAAATAT
1 TATATATATAT
163882 TCATATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
15 4 0.12
16 2 0.06
17 7 0.21
18 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATATATATAAATTTT
Found at i:163865 original size:30 final size:31
Alignment explanation
Indices: 163823--163906 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 31
163813 TTATTTTATA
*
163823 TATATATATATAAATTTTTATATAAATAATT
1 TATATATATATAAATTTTAATATAAATAATT
163854 TATAT-TATATAAATTTTAATATAAAT-ATT
1 TATATATATATAAATTTTAATATAAATAATT
* *
163883 CATATA-ATATTATATATTTAATAT
1 TATATATATA-TAAAT-TTTAATAT
163907 TTATATATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.21
30 24 0.51
31 13 0.28
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TATATATATATAAATTTTAATATAAATAATT
Found at i:163877 original size:12 final size:12
Alignment explanation
Indices: 163855--163927 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
163845 TAAATAATTT
163855 ATATT-ATATAA
1 ATATTAATATAA
*
163866 ATTTTAATATAA
1 ATATTAATATAA
*
163878 ATATTCATAT-A
1 ATATTAATATAA
*
163889 ATATTATATATTTA
1 ATATTA-ATA-TAA
* *
163903 ATATTTATATATC
1 ATATTAATATA-A
163916 ATATTAATATAA
1 ATATTAATATAA
163928 TCATATTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
11 10 0.21
12 18 0.38
13 14 0.29
14 6 0.12
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTAATATAA
Found at i:163990 original size:29 final size:29
Alignment explanation
Indices: 163935--163990 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
163925 TAATCATATT
* *
163935 TAAAATTATTAAATAATGTCAATATTTTA
1 TAAAATTATTAAATAAAGTCAAAATTTTA
*
163964 TAAAATT-TTGAAATAAAGTTAAAATTT
1 TAAAATTATT-AAATAAAGTCAAAATTT
163991 AACCTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (29 bp):
TAAAATTATTAAATAAAGTCAAAATTTTA
Found at i:169564 original size:2 final size:2
Alignment explanation
Indices: 169557--169598 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
169547 CATATGAATC
*
169557 AT AT AT AT AT AT AT AT AT AT A- AA AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
169597 AT
1 AT
169599 TTTAAGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:169583 original size:15 final size:15
Alignment explanation
Indices: 169565--169598 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
169555 TCATATATAT
169565 ATATATATATATAAA
1 ATATATATATATAAA
*
169580 ATATATATATATATA
1 ATATATATATATAAA
169595 ATAT
1 ATAT
169599 TTTAAGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATATATATAAA
Found at i:169583 original size:17 final size:17
Alignment explanation
Indices: 169563--169595 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
169553 AATCATATAT
169563 ATATATATATATATAAA
1 ATATATATATATATAAA
169580 ATATATATATATATAA
1 ATATATATATATATAA
169596 TATTTTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATATATATATAAA
Found at i:169737 original size:16 final size:15
Alignment explanation
Indices: 169712--169741 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
169702 TCCCTATTCC
169712 TTTTTTTATTTTTAT
1 TTTTTTTATTTTTAT
169727 TTTTTTATATTTTTA
1 TTTTTT-TATTTTTA
169742 AATTAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTATTTTTAT
Found at i:172236 original size:18 final size:18
Alignment explanation
Indices: 172213--172247 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
172203 TCAAATATAA
172213 ATAT-AAAATTCTTAAAAT
1 ATATAAAAATT-TTAAAAT
172231 ATATAAAAATTTTAAAA
1 ATATAAAAATTTTAAAA
172248 AAATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAAAATTTTAAAAT
Found at i:179149 original size:11 final size:11
Alignment explanation
Indices: 179117--179175 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
179107 AGTTTTTTCA
179117 ATTTTAATATAT
1 ATTTTAA-ATAT
* *
179129 TTTATTAAATGT
1 ATT-TTAAATAT
179141 ATTTTAAATAAT
1 ATTTTAAAT-AT
*
179153 TTTATTAAATAT
1 ATT-TTAAATAT
179165 ATTTTAAATAT
1 ATTTTAAATAT
179176 TAATTCAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
11 14 0.37
12 14 0.37
13 10 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTTTAAATAT
Found at i:179154 original size:24 final size:25
Alignment explanation
Indices: 179117--179175 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
179107 AGTTTTTTCA
*
179117 ATTTT-AATATATTTTATTAAATGT
1 ATTTTAAATATATTTTATTAAATAT
179141 ATTTTAAATA-ATTTTATTAAATAT
1 ATTTTAAATATATTTTATTAAATAT
179165 ATTTTAAATAT
1 ATTTTAAATAT
179176 TAATTCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
ATTTTAAATATATTTTATTAAATAT
Found at i:179957 original size:2 final size:2
Alignment explanation
Indices: 179950--179992 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
179940 TGAGAGGGAC
179950 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
179992 A
1 A
179993 AGCAAAAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:184898 original size:3 final size:3
Alignment explanation
Indices: 184890--184925 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
184880 CAATAGTTAT
*
184890 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
184926 ATCACTGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:185201 original size:17 final size:17
Alignment explanation
Indices: 185179--185224 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
185169 GATGAGCATC
*
185179 AATTATAGATTTTTAAG
1 AATTATAGATTTTTAAA
185196 AATTATAGATTTTTAAA
1 AATTATAGATTTTTAAA
185213 AATTATAGATTT
1 AATTATAGATTT
185225 CTGTAATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTATAGATTTTTAAA
Found at i:186008 original size:29 final size:28
Alignment explanation
Indices: 185976--186098 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 28
185966 ACTTTTTCTT
185976 AATTACACTCTAA-CCCTCAACTTTTCTAA
1 AATTACACT-TAACCCCTCAACTTTTC-AA
* * *
186005 AATTATAGTATAACCCCTTAACTTTTCAA
1 AATTACACT-TAACCCCTCAACTTTTCAA
* * * *
186034 AACTACACATTAACCCCTAAAATTTTTAA
1 AATTACAC-TTAACCCCTCAACTTTTCAA
* * *
186063 AATTACAAATTAACCTCT-TACTTTTCAA
1 AATTAC-ACTTAACCCCTCAACTTTTCAA
186091 AATTACAC
1 AATTACAC
186099 ACTAGCCATA
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.01
28 13 0.18
29 46 0.62
30 14 0.19
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.35
Consensus pattern (28 bp):
AATTACACTTAACCCCTCAACTTTTCAA
Found at i:191624 original size:2 final size:2
Alignment explanation
Indices: 191617--191648 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
191607 ATGCCAATTA
191617 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
191649 TCTACCATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192762 original size:2 final size:2
Alignment explanation
Indices: 192757--192803 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
192747 TATATATATA
*
192757 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG AG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
192799 TG TG T
1 TG TG T
192804 AATGTAAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:193822 original size:42 final size:42
Alignment explanation
Indices: 193758--193844 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
193748 CTCGAAGAAC
*
193758 ATCGCTTTCTTCCCAATAGTCCACATTCAAGGCATATGCAGA
1 ATCGCTTTCTTCCCAATAGTCCACATCCAAGGCATATGCAGA
*
193800 ATCGCTTTCTTCCCAATTGTCCACATCCAAGGCATATGCAGA
1 ATCGCTTTCTTCCCAATAGTCCACATCCAAGGCATATGCAGA
193842 ATC
1 ATC
193845 CTGCCAGTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (42 bp):
ATCGCTTTCTTCCCAATAGTCCACATCCAAGGCATATGCAGA
Found at i:194098 original size:36 final size:36
Alignment explanation
Indices: 194051--194195 Score: 245
Period size: 36 Copynumber: 4.0 Consensus size: 36
194041 TCCAAGACAT
194051 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
1 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
194087 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
1 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
194123 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
1 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
* ** * *
194159 ATGCTGAATCCTGCCAGCCCTCTGCCACAACATCAA
1 ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
194195 A
1 A
194196 GCATGTAGTG
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 104 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (36 bp):
ATGCCGAATCCTGCCAGTTCTCTTCCGCAACATCAA
Found at i:195918 original size:15 final size:15
Alignment explanation
Indices: 195870--195918 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
195860 AATATTTTTT
*
195870 TTATTTTGAAATAAA
1 TTATTTTAAAATAAA
195885 TTA--TTAAAATAATA
1 TTATTTTAAAATAA-A
*
195899 TTATTTTTAAATAAA
1 TTATTTTAAAATAAA
195914 TTATT
1 TTATT
195919 AAATTCTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 9 0.31
16 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATTTTAAAATAAA
Found at i:196340 original size:27 final size:26
Alignment explanation
Indices: 196310--196397 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
196300 TAGATACGAA
196310 TTTTGATTAAATTTAATTTAAAATAAT
1 TTTTGATTAAATTT-ATTTAAAATAAT
* * *
196337 TTTTTATTTAA-TTATAT-AAATAAT
1 TTTTGATTAAATTTATTTAAAATAAT
* * *
196361 AATTTTAATTAAATTTGATTTAAGATGAT
1 --TTTTGATTAAATTT-ATTTAAAATAAT
196390 TTTTGATT
1 TTTTGATT
196398 TGATTATATA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
24 7 0.15
25 3 0.06
26 11 0.23
27 18 0.38
28 3 0.06
29 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (26 bp):
TTTTGATTAAATTTATTTAAAATAAT
Found at i:196392 original size:53 final size:53
Alignment explanation
Indices: 196308--196415 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 53
196298 TTTAGATACG
* *
196308 AATTTTGATTAAATTTAATTTAAAATAATTTTTTATTTAATTATATAAATAAT
1 AATTTTAATTAAATTTAATTTAAAATAATTTTTGATTTAATTATATAAATAAT
* * * *
196361 AATTTTAATTAAATTTGATTTAAGATGATTTTTGATTTGATTATATAAATAAT
1 AATTTTAATTAAATTTAATTTAAAATAATTTTTGATTTAATTATATAAATAAT
196414 AA
1 AA
196416 AATATTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.51
Consensus pattern (53 bp):
AATTTTAATTAAATTTAATTTAAAATAATTTTTGATTTAATTATATAAATAAT
Found at i:198175 original size:16 final size:17
Alignment explanation
Indices: 198143--198176 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
198133 CAAATTTCTC
198143 ATTTTTTCATACTTATT
1 ATTTTTTCATACTTATT
*
198160 ATTTTTTTATAC-TATT
1 ATTTTTTCATACTTATT
198176 A
1 A
198177 AAAGTTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTTCATACTTATT
Found at i:199034 original size:167 final size:161
Alignment explanation
Indices: 198645--199123 Score: 453
Period size: 167 Copynumber: 2.9 Consensus size: 161
198635 AATTTTTCAG
* * * * *
198645 AAAAAGGAAATTTTCAA-AGAAAAAATTC-AACACTTATGAAAATAAATTAATTTTTTAAAATTG
1 AAAAAAGAAA-TTTCAAGAAAAAAAATTCAAAAACTAATGAAAAT-AATTAA-TTTTTAAAAATG
* * * * * *
198708 ATTTAATATGAATCAAATGATGATGTTTAATGAATTTTAAAAATTAAAAATCAAGAAAAATCCAC
63 AATTAATATAAAT-AAATAATGATATTTGATGAATTTTAAAAATTAAAACT-AAGAAAAAT-C-C
* * * *
198773 TCGAAAAAATTTACAAAGTAGAAAACATCATATTTTAG
124 TCAAAAAAATTTACGAAGTAGAAAACATCATATTTGAA
* * * * *
198811 AAAAATGAGAGTTTTAAGGAAAAAAAA-T-AAAAAATGAATGAAAATGATTGAATTTTTGAAAAA
1 AAAAAAGA-AATTTCAA-GAAAAAAAATTCAAAAACT-AATGAAAATAATT-AATTTTT-AAAAA
*
198874 TGAATTAATATAAAATAATTAATGATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCT
61 TGAATTAATAT-AAATAAATAATGATATTTGATGAATTTTAAAAATT-AAAACTAAGAAAAATC-
* *
198939 CTCAAAAAAATTTACGGAGTAGAAAATATCATATTTCGAA
123 CTCAAAAAAATTTACGAAGTAGAAAACATCATATTT-GAA
* *
198979 AAAAAAGAAATTTCAAGAAAAAAAATTCAAAAACTCATGAAAATAAGTTAATTTTTAAAAACTAA
1 AAAAAAGAAATTTCAAGAAAAAAAATTCAAAAACTAATGAAAATAA-TTAATTTTTAAAAA-TGA
* ** * *
199044 ATTACTATGAAATAAATAAAAAGATTTGATGAATTTTAAAAGTTAAAACTTAAGAAAAATCCTCC
64 ATTAATAT-AAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAC-TAAGAAAAATCCT-C
**
199109 TTAAAAATTTACGAA
126 AAAAAAATTTACGAA
199124 AAAAAAACCC
Statistics
Matches: 257, Mismatches: 40, Indels: 31
0.78 0.12 0.09
Matches are distributed among these distances:
166 33 0.13
167 133 0.52
168 83 0.32
169 8 0.03
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.30
Consensus pattern (161 bp):
AAAAAAGAAATTTCAAGAAAAAAAATTCAAAAACTAATGAAAATAATTAATTTTTAAAAATGAAT
TAATATAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAACTAAGAAAAATCCTCAAAAA
AATTTACGAAGTAGAAAACATCATATTTGAA
Found at i:199734 original size:46 final size:46
Alignment explanation
Indices: 199684--199775 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
199674 TCATCTAGAG
*
199684 ATAGTTTTTAAAATTTCAAGAAATTATTTAAAGATAAAATTTTTGC
1 ATAGTTTTTAAAATTCCAAGAAATTATTTAAAGATAAAATTTTTGC
199730 ATAGTTTTTAAAATTCCAAGAAATTATTTAAAGATAAAATTTTTGC
1 ATAGTTTTTAAAATTCCAAGAAATTATTTAAAGATAAAATTTTTGC
199776 TTTGGATTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (46 bp):
ATAGTTTTTAAAATTCCAAGAAATTATTTAAAGATAAAATTTTTGC
Found at i:200114 original size:17 final size:18
Alignment explanation
Indices: 200094--200129 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
200084 TTTAATATAA
200094 ATAT-TTTA-AATT-TTT
1 ATATATTTATAATTATTT
200109 ATATATTTATAATTATTT
1 ATATATTTATAATTATTT
200127 ATA
1 ATA
200130 AAATTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.22
16 4 0.22
17 4 0.22
18 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATATTTATAATTATTT
Found at i:201127 original size:2 final size:2
Alignment explanation
Indices: 201122--201147 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
201112 TGATTTTTTA
201122 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
201148 TATGTTATAT
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):
AT
Found at i:203167 original size:2 final size:2
Alignment explanation
Indices: 203155--203183 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
203145 GACAGCATAC
203155 AT AT A- 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
203184 TGTAAGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:204838 original size:36 final size:36
Alignment explanation
Indices: 204788--204857 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
204778 TTGACGACAT
* *
204788 AAACATTTTCTGATGTAGTAGAAAAATTGACCCAAC
1 AAACATTTTCTGATGGAGGAGAAAAATTGACCCAAC
* * * *
204824 AAACTTTTTTTGATGGAGGAGATAATTTGACCCA
1 AAACATTTTCTGATGGAGGAGAAAAATTGACCCA
204858 TTGAACCTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (36 bp):
AAACATTTTCTGATGGAGGAGAAAAATTGACCCAAC
Found at i:206281 original size:17 final size:18
Alignment explanation
Indices: 206249--206282 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
206239 TGTTGAATTT
206249 ATGTATAATATATTAATA
1 ATGTATAATATATTAATA
*
206267 ATGTA-AATTTATTAAT
1 ATGTATAATATATTAAT
206283 TATATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGTATAATATATTAATA
Found at i:206704 original size:20 final size:20
Alignment explanation
Indices: 206681--206721 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
206671 GTTAACAAAA
206681 TTTTAATATAAAATAAATAT
1 TTTTAATATAAAATAAATAT
206701 TTTTAATATAAAATAAATAT
1 TTTTAATATAAAATAAATAT
206721 T
1 T
206722 AAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAATATAAAATAAATAT
Found at i:206865 original size:8 final size:8
Alignment explanation
Indices: 206852--206937 Score: 52
Period size: 8 Copynumber: 10.2 Consensus size: 8
206842 ACTTAAATTT
206852 ATTTTTTA
1 ATTTTTTA
206860 A-TTTTTA
1 ATTTTTTA
206867 A--TTTTA
1 ATTTTTTA
206873 ATTTTAATTA
1 ATTTT--TTA
206883 ATTTTTTA
1 ATTTTTTA
*
206891 CTTATTCAATTA
1 ATT-TT---TTA
206903 ATTTTTTTA
1 A-TTTTTTA
206912 ATTTTTTA
1 ATTTTTTA
**
206920 AAATTTTA
1 ATTTTTTA
*
206928 ATTTTATA
1 ATTTTTTA
206936 AT
1 AT
206938 ATGTATGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 28 0.45
9 6 0.10
10 8 0.13
12 5 0.08
13 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTTTA
Found at i:207575 original size:22 final size:24
Alignment explanation
Indices: 207539--207582 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
207529 TTTAACTTCT
*
207539 TTTTATTTATATTAAATAAATTAA
1 TTTTATTTATATTAAAAAAATTAA
207563 TTTT-TTTA-ATTAAAAAAATT
1 TTTTATTTATATTAAAAAAATT
207583 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATTTATATTAAAAAAATTAA
Found at i:208354 original size:26 final size:25
Alignment explanation
Indices: 208307--208356 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
208297 TATAGTAAAA
208307 TATTCATAATAAAAAAGGTTTATATT
1 TATTCATAATAAAAAA-GTTTATATT
208333 TATTCATGAATATAAAAA-TTTATA
1 TATTCAT-AATA-AAAAAGTTTATA
208357 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.59
27 4 0.18
28 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (25 bp):
TATTCATAATAAAAAAGTTTATATT
Found at i:208679 original size:20 final size:20
Alignment explanation
Indices: 208651--208708 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
208641 AATAAAAATT
*
208651 ATTACAAAATTTAAATATAA
1 ATTATAAAATTTAAATATAA
*
208671 ATTATAAAATAATAAA-ATAA
1 ATTATAAAAT-TTAAATATAA
208691 ATATATAATAA-TTAAATA
1 AT-TATAA-AATTTAAATA
208709 CACCTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 19 0.61
21 10 0.32
22 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTATAAAATTTAAATATAA
Found at i:208700 original size:19 final size:20
Alignment explanation
Indices: 208611--208708 Score: 66
Period size: 19 Copynumber: 5.1 Consensus size: 20
208601 TTTAATTATT
208611 TAAATTA-AAAATAATAAAA
1 TAAATTATAAAATAATAAAA
*
208630 -AAACATATCAAAAT-A-AAAA
1 TAAA-TTAT-AAAATAATAAAA
* * *
208649 T-TATTACAAAAT-TTAAATA
1 TAAATTATAAAATAATAAA-A
208668 TAAATTATAAAATAATAAAA
1 TAAATTATAAAATAATAAAA
* *
208688 TAAA-TATATAATAATTAAA
1 TAAATTATAAAATAATAAAA
208707 TA
1 TA
208709 CACCTCTAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
17 5 0.08
18 8 0.13
19 24 0.39
20 15 0.25
21 9 0.15
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATTATAAAATAATAAAA
Found at i:208812 original size:15 final size:15
Alignment explanation
Indices: 208792--208820 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
208782 TAATTTATAA
208792 AAAAATTAATAAATT
1 AAAAATTAATAAATT
208807 AAAAATTAATAAAT
1 AAAAATTAATAAAT
208821 ATATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATTAATAAATT
Found at i:214107 original size:20 final size:20
Alignment explanation
Indices: 214082--214119 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
214072 TAGTTAAAAA
214082 AATTTTAATATAAAATAAAT
1 AATTTTAATATAAAATAAAT
*
214102 AATTTTAATATTAAATAA
1 AATTTTAATATAAAATAA
214120 GTATTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTTAATATAAAATAAAT
Found at i:214282 original size:20 final size:20
Alignment explanation
Indices: 214253--214311 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
214243 AATAAACTTA
*
214253 AATTTATTTTTTT-ATTTTT
1 AATTAATTTTTTTAATTTTT
* * *
214272 AATTAA-TTTTTTACCTATTC
1 AATTAATTTTTTTA-ATTTTT
214292 AATTAATTTTTTTAATTTTT
1 AATTAATTTTTTTAATTTTT
214312 TAAAATTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 6 0.20
19 5 0.17
20 12 0.40
21 7 0.23
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTAATTTTTTTAATTTTT
Found at i:214359 original size:26 final size:27
Alignment explanation
Indices: 214325--214381 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
214315 AATTTTAATT
214325 TTATAATATGT-ATTAAATTAAATTAAA
1 TTATAATAT-TAATTAAATTAAATTAAA
* * *
214352 TTAT-ATATTAATTTAATTAATTTAAT
1 TTATAATATTAATTAAATTAAATTAAA
214378 TTAT
1 TTAT
214382 CCAACCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 21 0.81
27 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTATAATATTAATTAAATTAAATTAAA
Found at i:214560 original size:31 final size:31
Alignment explanation
Indices: 214525--214583 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
214515 AAAAAATAAA
214525 TTAAAATATGATAT-AATA-AAATATATTTATT
1 TTAAAAT-TGATATAAATATAAA-ATATTTATT
*
214556 TTAAAATTTATATAAATATAAAATATTT
1 TTAAAATTGATATAAATATAAAATATTT
214584 TAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 5 0.20
31 17 0.68
32 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
TTAAAATTGATATAAATATAAAATATTTATT
Found at i:214605 original size:16 final size:17
Alignment explanation
Indices: 214526--214605 Score: 57
Period size: 16 Copynumber: 5.0 Consensus size: 17
214516 AAAAATAAAT
*
214526 TAAAATATGATATAATA
1 TAAAATATTATATAATA
*
214543 -AAATATATT-TAT--TT
1 TAAA-ATATTATATAATA
214557 TAAAAT-TTATATAAATA
1 TAAAATATTATAT-AATA
*
214574 TAAAATATTTTA-AATA
1 TAAAATATTATATAATA
*
214590 T-AATTATTATATAATA
1 TAAAATATTATATAATA
214606 ATATATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
13 2 0.04
14 6 0.12
15 11 0.22
16 15 0.31
17 11 0.22
18 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
TAAAATATTATATAATA
Done.