Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1041
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: 1020100
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:12 original size:7 final size:7
Alignment explanation
Indices: 1--5455 Score: 4119
Period size: 7 Copynumber: 787.3 Consensus size: 7
1 AACCCTA
1 AACCCTA
8 AACCCT-
1 AACCCTA
*
14 CACCCTA
1 AACCCTA
21 AACCCT-
1 AACCCTA
27 AACCCT-
1 AACCCTA
33 AACCCTA
1 AACCCTA
40 AACCGCTA
1 AACC-CTA
48 AACCCCTA
1 AA-CCCTA
56 AACCCTAA
1 AACCCT-A
64 AACCCT-
1 AACCCTA
70 AACCCTA
1 AACCCTA
*
77 AA-CCGA
1 AACCCTA
83 AACCCTA
1 AACCCTA
90 AACCCTA
1 AACCCTA
97 AACCCCTAAAA
1 AA-CCCT---A
*
108 AACACTA
1 AACCCTA
115 AACCCTA
1 AACCCTA
122 AA-CCTAA
1 AACCCT-A
129 AACCCT-
1 AACCCTA
135 AACCCT-
1 AACCCTA
*
141 AACCCAGA
1 AACCC-TA
149 AACCC-A
1 AACCCTA
155 AACCCT-
1 AACCCTA
161 AACCCTAA
1 AACCCT-A
169 AACCCTAA
1 AACCCT-A
177 AACCCTA
1 AACCCTA
* *
184 ACAACC-G
1 A-ACCCTA
191 AACCCTA
1 AACCCTA
198 AACCCTA
1 AACCCTA
205 AACCCTA
1 AACCCTA
*
212 AACCCGAA
1 AACCC-TA
220 AACCCTAAAA
1 AACCCT---A
230 AACCCTA
1 AACCCTA
237 AACCC-A
1 AACCCTA
243 AACCCTA
1 AACCCTA
250 AA-CCT-
1 AACCCTA
**
255 AACCGAA
1 AACCCTA
*
262 AACCCGA
1 AACCCTA
269 AACCCTA
1 AACCCTA
* *
276 ACCCCGA
1 AACCCTA
283 AACCCCTAA
1 AA-CCCT-A
292 AACCCTA
1 AACCCTA
*
299 CACCCTA
1 AACCCTA
*
306 CACCCTA
1 AACCCTA
313 AACCCTA
1 AACCCTA
320 AACCCTA
1 AACCCTA
327 AACCC-A
1 AACCCTA
333 AACCCTA
1 AACCCTA
340 AACCCTA
1 AACCCTA
347 AACCC-A
1 AACCCTA
353 AACCCTA
1 AACCCTA
*
360 AACCCGA
1 AACCCTA
367 AACCCTA
1 AACCCTA
**
374 AA-CAGA
1 AACCCTA
380 AACGCACTAA
1 AAC-C-CT-A
390 AACCCTA
1 AACCCTA
397 AACCCCTA
1 AA-CCCTA
405 AACCCTA
1 AACCCTA
*
412 AACCCGA
1 AACCCTA
* *
419 ACCCCGA
1 AACCCTA
426 AACCCTA
1 AACCCTA
433 AACCCT-
1 AACCCTA
*
439 AACCC-G
1 AACCCTA
*
445 AACCCGA
1 AACCCTA
452 AACCCTA
1 AACCCTA
459 AACCCTAAAA
1 AACCCT---A
469 AACCCTA
1 AACCCTA
476 AACCC--
1 AACCCTA
481 AACCCTA
1 AACCCTA
488 AACCCTA
1 AACCCTA
495 AACCCTAAAA
1 AACCCT---A
*
505 AACCCAAAA
1 AACCC--TA
514 AACCCTA
1 AACCCTA
521 AA-CCTA
1 AACCCTA
527 AAGCCCTA
1 AA-CCCTA
535 AA-CCTA
1 AACCCTA
541 AACCCTA
1 AACCCTA
548 AACCCTA
1 AACCCTA
*
555 AAACCTAAAA
1 AACCCT---A
**
565 AACCGAAA
1 AACC-CTA
573 AACCCTA
1 AACCCTA
580 AACCCTA
1 AACCCTA
*
587 AACCCGA
1 AACCCTA
594 AACCCTA
1 AACCCTA
601 AACCCTA
1 AACCCTA
*
608 AA---AA
1 AACCCTA
612 AACCCTA
1 AACCCTA
619 AACCCCTA
1 AA-CCCTA
627 AACCCTA
1 AACCCTA
634 AACCCTA
1 AACCCTA
*
641 AACCCGA
1 AACCCTA
648 AACCCTA
1 AACCCTA
655 AACCCTA
1 AACCCTA
662 AACCCTA
1 AACCCTA
669 AACCC-A
1 AACCCTA
675 AACCCTA
1 AACCCTA
682 AACCCTA
1 AACCCTA
*
689 AACCCGA
1 AACCCTA
696 AACCCTA
1 AACCCTA
703 AA--C-A
1 AACCCTA
*
707 ACCCCTA
1 AACCCTA
714 AACCCCT-
1 AA-CCCTA
721 AACGCCTA
1 AAC-CCTA
729 AACCCTA
1 AACCCTA
736 AACCCTA
1 AACCCTA
743 AACCCTA
1 AACCCTA
750 AACCCTA
1 AACCCTA
757 AACCCTA
1 AACCCTA
764 AACCCTA
1 AACCCTA
771 AA-CCTA
1 AACCCTA
*
777 AACCCGA
1 AACCCTA
784 AACCCT-
1 AACCCTA
790 AACCCTA
1 AACCCTA
797 AACCCTA
1 AACCCTA
*
804 AAACCTA
1 AACCCTA
811 AA-CCTA
1 AACCCTA
817 AACCCTAA
1 AACCCT-A
825 AACCCTA
1 AACCCTA
832 AACCCTA
1 AACCCTA
839 AACCCCT-
1 AA-CCCTA
846 AA-CCTA
1 AACCCTA
*
852 AACCCGA
1 AACCCTA
859 AACCCTA
1 AACCCTA
*
866 AACCCGA
1 AACCCTA
873 AACCCTA
1 AACCCTA
*
880 AA-CATA
1 AACCCTA
886 AACCCTA
1 AACCCTA
893 AACCCTA
1 AACCCTA
*
900 AACCC-G
1 AACCCTA
906 AACCCTA
1 AACCCTA
913 AACCCTA
1 AACCCTA
920 AACCCTA
1 AACCCTA
927 AACCCTA
1 AACCCTA
934 AA-CCTAA
1 AACCCT-A
*
941 AAACCTA
1 AACCCTA
*
948 AACCC-G
1 AACCCTA
*
954 AACCCGAAAA
1 AACCC---TA
964 AACCCTA
1 AACCCTA
971 AACCCTA
1 AACCCTA
978 AACCCTA
1 AACCCTA
*
985 AACCCGA
1 AACCCTA
992 AACCCTA
1 AACCCTA
999 AACCCTA
1 AACCCTA
1006 AACCCTAA
1 AACCCT-A
**
1014 CTAACAATA
1 --AACCCTA
*
1023 AACCAT-
1 AACCCTA
1029 AACCCTA
1 AACCCTA
*
1036 AACCCGAAA
1 AACCC--TA
1045 AACCCT-
1 AACCCTA
1051 AA-CCTA
1 AACCCTA
*
1057 AACCATA
1 AACCCTA
1064 AACCCT-
1 AACCCTA
1070 AACCCATA
1 AACCC-TA
1078 AACCCTAA
1 AACCCT-A
1086 ACACCCTA
1 A-ACCCTA
*
1094 ACCCCTAA
1 AACCCT-A
1102 AACCCTA
1 AACCCTA
1109 AACCCTA
1 AACCCTA
1116 AACCC--
1 AACCCTA
1121 -ACCC-A
1 AACCCTA
1126 AACGCC-A
1 AAC-CCTA
*
1133 AACCCCA
1 AACCCTA
*
1140 AACCCCA
1 AACCCTA
1147 AACCC-A
1 AACCCTA
*
1153 AACCCCA
1 AACCCTA
*
1160 AACCCCAA
1 AA-CCCTA
*
1168 AACCCCCA
1 AA-CCCTA
*
1176 AACCCCAA
1 AA-CCCTA
*
1184 AACCCCAA
1 AA-CCCTA
1192 AACCC-A
1 AACCCTA
*
1198 AACCCCA
1 AACCCTA
*
1205 AACCC-C
1 AACCCTA
*
1211 AACCCCA
1 AACCCTA
*
1218 AACCCAA
1 AACCCTA
*
1225 AACCCCA
1 AACCCTA
*
1232 AACCCCAA
1 AA-CCCTA
*
1240 AACCCCA
1 AACCCTA
1247 AACCC--
1 AACCCTA
*
1252 AACCCCA
1 AACCCTA
1259 AACCC--
1 AACCCTA
*
1264 AACCCCA
1 AACCCTA
*
1271 AACCCCA
1 AACCCTA
*
1278 AACCCCCA
1 AA-CCCTA
*
1286 AACCCCA
1 AACCCTA
1293 AACCC-A
1 AACCCTA
*
1299 AACCCAA
1 AACCCTA
*
1306 AACCCCCA
1 AA-CCCTA
*
1314 AACCCACA
1 AACCC-TA
*
1322 AACCCCA
1 AACCCTA
*
1329 AACCCCA
1 AACCCTA
*
1336 AACCCCA
1 AACCCTA
1343 AACCC-A
1 AACCCTA
*
1349 AACCCCAA
1 AA-CCCTA
1357 AACCC-A
1 AACCCTA
1363 AA-CC-A
1 AACCCTA
*
1368 AACCCCA
1 AACCCTA
*
1375 AACCCCA
1 AACCCTA
*
1382 AACCCCA
1 AACCCTA
1389 AACCC-A
1 AACCCTA
1395 AA-CC--
1 AACCCTA
*
1399 AACCCCA
1 AACCCTA
*
1406 AACCCCA
1 AACCCTA
*
1413 AACCCAA
1 AACCCTA
*
1420 AACCCCA
1 AACCCTA
*
1427 AACCCCA
1 AACCCTA
*
1434 AACCCCA
1 AACCCTA
*
1441 AACCC-C
1 AACCCTA
*
1447 AACCCCA
1 AACCCTA
1454 AACCC-A
1 AACCCTA
**
1460 AACCCGC
1 AACCCTA
*
1467 AACCCCA
1 AACCCTA
*
1474 AACCCCCA
1 AA-CCCTA
*
1482 AACCCCA
1 AACCCTA
*
1489 AACCC-C
1 AACCCTA
*
1495 AACCCCA
1 AACCCTA
1502 AA-CC--
1 AACCCTA
*
1506 AACCCCA
1 AACCCTA
*
1513 AACCCCA
1 AACCCTA
*
1520 AACCCCA
1 AACCCTA
*
1527 AACCCCA
1 AACCCTA
*
1534 AACCC-C
1 AACCCTA
*
1540 AACCCAA
1 AACCCTA
*
1547 AACCC-C
1 AACCCTA
1553 AACCC-A
1 AACCCTA
*
1559 AACCCAA
1 AACCCTA
*
1566 AACCCCA
1 AACCCTA
*
1573 AACCC-C
1 AACCCTA
*
1579 AACCC-C
1 AACCCTA
*
1585 AACCCGCA
1 AACCC-TA
*
1593 AACCCCA
1 AACCCTA
1600 CCAA-CC-A
1 --AACCCTA
*
1607 AACCCCA
1 AACCCTA
*
1614 AACCCCCA
1 AA-CCCTA
*
1622 AACCCCA
1 AACCCTA
*
1629 AACCCCAA
1 AA-CCCTA
*
1637 ACCACCCCA
1 A--ACCCTA
1646 AACCC-A
1 AACCCTA
1652 AACCC-A
1 AACCCTA
1658 AACCCT-
1 AACCCTA
1664 AA-CCTA
1 AACCCTA
1670 AACCCTA
1 AACCCTA
*
1677 AACCCGAA
1 AACCC-TA
1685 AACCCCTA
1 AA-CCCTA
*
1693 AAGACCTAA
1 AA-CCCT-A
1702 AACCCTA
1 AACCCTA
1709 AACCCTA
1 AACCCTA
1716 AACCCTAA
1 AACCCT-A
1724 AACCCTA
1 AACCCTA
1731 AACCCTA
1 AACCCTA
1738 AACCCT-
1 AACCCTA
1744 AACCCTAAAA
1 AACCCT---A
1754 AACCCTAAAA
1 AACCCT---A
1764 AACCCTA
1 AACCCTA
*
1771 AACCCGA
1 AACCCTA
1778 AACCCT-
1 AACCCTA
*
1784 AACCCGAAA
1 AACCC--TA
1793 AACCCTA
1 AACCCTA
*
1800 CCGAAACCT-
1 ---AACCCTA
1809 AACCCTA
1 AACCCTA
1816 AACCCTAA
1 AACCCT-A
1824 AACCCT-
1 AACCCTA
1830 AACCCTA
1 AACCCTA
1837 AACCCTA
1 AACCCTA
1844 AACCCT-
1 AACCCTA
1850 AA-CCT-
1 AACCCTA
1855 AACCC-A
1 AACCCTA
1861 AACCCTAA
1 AACCCT-A
1869 AACCCTA
1 AACCCTA
1876 AACCCTA
1 AACCCTA
1883 AACCCTA
1 AACCCTA
1890 AACCCTA
1 AACCCTA
1897 AA-CCTA
1 AACCCTA
1903 AA-CCTA
1 AACCCTA
1909 AA-CCTA
1 AACCCTA
1915 AA-CCT-
1 AACCCTA
1920 AACCCTA
1 AACCCTA
1927 AA-CCTA
1 AACCCTA
1933 AACCCTA
1 AACCCTA
1940 AACCCTA
1 AACCCTA
1947 AACCCT-
1 AACCCTA
1953 AACCCTA
1 AACCCTA
1960 AACCCTAA
1 AACCCT-A
1968 AACTCCTCAA
1 AAC-CCT--A
* *
1978 CAACTACAA
1 -AAC-CCTA
1987 AACCCTA
1 AACCCTA
1994 AACCCTA
1 AACCCTA
2001 AACCCT-
1 AACCCTA
2007 AACCCTA
1 AACCCTA
2014 AACCCCTA
1 AA-CCCTA
2022 AACCCCTA
1 AA-CCCTA
2030 AACCCTA
1 AACCCTA
*
2037 AA---AA
1 AACCCTA
2041 AACCCTA
1 AACCCTA
2048 AA-CCTAA
1 AACCCT-A
2055 AACCCTA
1 AACCCTA
2062 GAA-CCTA
1 -AACCCTA
2069 AACCCTA
1 AACCCTA
*
2076 AACCCGAA
1 AACCC-TA
*
2084 AACCCGAA
1 AACCC-TA
2092 AACCCTA
1 AACCCTA
*
2099 ACCCCTA
1 AACCCTA
2106 AACCCTA
1 AACCCTA
2113 AACCCTA
1 AACCCTA
2120 AACCCTA
1 AACCCTA
*
2127 AACCCGA
1 AACCCTA
2134 AACCCT-
1 AACCCTA
2140 AACCCTA
1 AACCCTA
2147 AACCCTA
1 AACCCTA
2154 AACCCTA
1 AACCCTA
2161 AA-CCTA
1 AACCCTA
2167 AACCCTA
1 AACCCTA
2174 AACCCTA
1 AACCCTA
2181 AACCCT-
1 AACCCTA
2187 AACCCT-
1 AACCCTA
2193 AACCCT-
1 AACCCTA
2199 AA-CCTA
1 AACCCTA
*
2205 AAACCT-
1 AACCCTA
2211 AA-CCTA
1 AACCCTA
2217 AA-CCT-
1 AACCCTA
2222 AACCC-A
1 AACCCTA
2228 AACCCTA
1 AACCCTA
2235 AACCCT-
1 AACCCTA
2241 AACCCT-
1 AACCCTA
2247 AACCC-A
1 AACCCTA
*
2253 ACCCCTA
1 AACCCTA
**
2260 AAAAC--
1 AACCCTA
2265 AACCCTAA
1 AACCCT-A
2273 AACCCTA
1 AACCCTA
2280 AACCCTA
1 AACCCTA
**
2287 AAAAC-A
1 AACCCTA
2293 AACCCT-
1 AACCCTA
2299 AACCCT-
1 AACCCTA
2305 AACCCTA
1 AACCCTA
2312 AA-CCTA
1 AACCCTA
2318 AACCCTA
1 AACCCTA
*
2325 AACACTA
1 AACCCTA
2332 AACCCTA
1 AACCCTA
2339 AACCCT-
1 AACCCTA
*
2345 AACCCGA
1 AACCCTA
2352 AACCCTA
1 AACCCTA
2359 AACCCT-
1 AACCCTA
2365 AACCCTA
1 AACCCTA
2372 AACCCTA
1 AACCCTA
2379 AA-CCTA
1 AACCCTA
2385 AACCCT-
1 AACCCTA
2391 AACCCTA
1 AACCCTA
2398 AACCCTA
1 AACCCTA
2405 AACCCTAAAA
1 AACCCT---A
*
2415 AACCCCGA
1 AA-CCCTA
2423 AACCCTA
1 AACCCTA
2430 AACCCTA
1 AACCCTA
*
2437 AA-AC-A
1 AACCCTA
2442 AACCCTA
1 AACCCTA
2449 AACCCTA
1 AACCCTA
2456 AACCCTA
1 AACCCTA
2463 AACCCCTA
1 AA-CCCTA
2471 AACCCTA
1 AACCCTA
2478 AACCC--
1 AACCCTA
*
2483 AACCC-G
1 AACCCTA
2489 AACCCTA
1 AACCCTA
*
2496 AA--CGA
1 AACCCTA
2501 AA-CCT-
1 AACCCTA
2506 AACCCTA
1 AACCCTA
2513 AACCCTA
1 AACCCTA
2520 AACCCTA
1 AACCCTA
2527 AACCCT-
1 AACCCTA
*
2533 -ACCCCA
1 AACCCTA
*
2539 AACCCCAA
1 AA-CCCTA
*
2547 AACCCCAA
1 AA-CCCTA
*
2555 AACCCCA
1 AACCCTA
2562 AACCC--
1 AACCCTA
2567 AACCCTAA
1 AACCCT-A
2575 AACCCT-
1 AACCCTA
2581 AACCCTA
1 AACCCTA
2588 AACCCTAA
1 AACCCT-A
2596 AACCCTA
1 AACCCTA
2603 AACCCTA
1 AACCCTA
*
2610 AACCAT-
1 AACCCTA
2616 AACCCTAAAA
1 AACCCT---A
2626 AACCCTA
1 AACCCTA
*
2633 AACCC-C
1 AACCCTA
2639 AACACC-A
1 AAC-CCTA
*
2646 AACACCCA
1 AAC-CCTA
*
2654 AACCC-C
1 AACCCTA
*
2660 AACCCGA
1 AACCCTA
2667 AACCCTAA
1 AACCCT-A
2675 AACCCTAA
1 AACCCT-A
2683 AACCCTA
1 AACCCTA
2690 AA-CCTA
1 AACCCTA
**
2696 AA--AAA
1 AACCCTA
*
2701 CAACCCGA
1 -AACCCTA
2709 AACCCTA
1 AACCCTA
2716 AACCCT-
1 AACCCTA
*
2722 AACCCGA
1 AACCCTA
2729 AACCCTA
1 AACCCTA
2736 AACCCTA
1 AACCCTA
2743 AACCCTA
1 AACCCTA
*
2750 ACCCCTA
1 AACCCTA
2757 AACCCTA
1 AACCCTA
2764 AACCC-A
1 AACCCTA
**
2770 AA--AAA
1 AACCCTA
2775 AACCCTA
1 AACCCTA
*
2782 AACCATA
1 AACCCTA
2789 AACCCT-
1 AACCCTA
2795 AACCCTA
1 AACCCTA
2802 AACCCTA
1 AACCCTA
*
2809 AAACCTA
1 AACCCTA
*
2816 AACCCGA
1 AACCCTA
2823 AACCCTA
1 AACCCTA
2830 AACCCTA
1 AACCCTA
2837 AACCCTAAA
1 AACCCT--A
*
2846 AAACCT-
1 AACCCTA
2852 AACCCTA
1 AACCCTA
2859 AACCCTA
1 AACCCTA
2866 AA-CCT-
1 AACCCTA
*
2871 AACCCGA
1 AACCCTA
2878 AACCCTA
1 AACCCTA
2885 AACCCTA
1 AACCCTA
2892 AACCCCTA
1 AA-CCCTA
2900 AACCCTAA
1 AACCCT-A
2908 AACCCT-
1 AACCCTA
2914 AACCCTA
1 AACCCTA
2921 AACCCT-
1 AACCCTA
2927 AACCCTA
1 AACCCTA
2934 AACCCTA
1 AACCCTA
2941 AACACCTA
1 AAC-CCTA
*
2949 AACCCGA
1 AACCCTA
2956 AACCCTAAA
1 AACCCT--A
2965 AACCCTA
1 AACCCTA
2972 GAACCCTA
1 -AACCCTA
2980 AA-CCTA
1 AACCCTA
*
2986 AAACCTA
1 AACCCTA
2993 AACCCTA
1 AACCCTA
*
3000 AGACCC-G
1 A-ACCCTA
3007 AACCCT-
1 AACCCTA
3013 AACCCTAAA
1 AACCCT--A
3022 AACCCTA
1 AACCCTA
3029 AACCCT-
1 AACCCTA
3035 AACCCTA
1 AACCCTA
3042 AACCCTAA
1 AACCCT-A
3050 AACCCT-
1 AACCCTA
3056 AA-CCTA
1 AACCCTA
3062 AACCCTA
1 AACCCTA
3069 AACCCCTA
1 AA-CCCTA
3077 AACCCTA
1 AACCCTA
3084 AACCCTA
1 AACCCTA
3091 AACCCTA
1 AACCCTA
3098 AA-CC--
1 AACCCTA
*
3102 AACCATA
1 AACCCTA
3109 AACCC--
1 AACCCTA
3114 AACCCTA
1 AACCCTA
*
3121 AACCATA
1 AACCCTA
3128 AA-CCTA
1 AACCCTA
3134 AACCCTA
1 AACCCTA
*
3141 AAACCT-
1 AACCCTA
3147 AACCCTA
1 AACCCTA
3154 AACCCTA
1 AACCCTA
3161 AA--CTA
1 AACCCTA
3166 AACCCTA
1 AACCCTA
3173 AACCCTA
1 AACCCTA
*
3180 AAACCT-
1 AACCCTA
*
3186 TACCCTA
1 AACCCTA
3193 AACGCCTA
1 AAC-CCTA
3201 AACCCCTA
1 AA-CCCTA
*
3209 GACCCTA
1 AACCCTA
3216 AACCCTA
1 AACCCTA
3223 AACCCTA
1 AACCCTA
3230 AACCCTA
1 AACCCTA
3237 AACCCTA
1 AACCCTA
3244 AACCCTA
1 AACCCTA
3251 AACCCTA
1 AACCCTA
3258 AACCC-A
1 AACCCTA
3264 AACCCCTA
1 AA-CCCTA
3272 AACCCTA
1 AACCCTA
3279 AACCCTA
1 AACCCTA
3286 AACCCTAA
1 AACCCT-A
3294 AACCCCT-
1 AA-CCCTA
3301 AACCCTA
1 AACCCTA
*
3308 AACCCGA
1 AACCCTA
*
3315 AACCCGAA
1 AACCC-TA
3323 AACCCTA
1 AACCCTA
*
3330 AACCCGA
1 AACCCTA
3337 AACCCTAA
1 AACCCT-A
*
3345 AAACCTA
1 AACCCTA
3352 AACCACTA
1 AACC-CTA
3360 AACCCTAA
1 AACCCT-A
3368 AACCCTA
1 AACCCTA
3375 AACCC-A
1 AACCCTA
3381 AACCCT-
1 AACCCTA
*
3387 AACCCGAA
1 AACCC-TA
*
3395 AACACTA
1 AACCCTA
3402 AACCCTA
1 AACCCTA
3409 AACCCTA
1 AACCCTA
*
3416 AACCCCCCA
1 AA--CCCTA
3425 AACCCT-
1 AACCCTA
*
3431 AACCCAA
1 AACCCTA
3438 AACCCTA
1 AACCCTA
*
3445 AACCAC-C
1 AACC-CTA
*
3452 AACCCCA
1 AACCCTA
*
3459 AACCCCA
1 AACCCTA
*
3466 AACCCCA
1 AACCCTA
*
3473 AAACCTAA
1 AACCCT-A
*
3481 AACCCGA
1 AACCCTA
3488 AACCCTA
1 AACCCTA
3495 AACCCTA
1 AACCCTA
3502 AACCCTA
1 AACCCTA
3509 AACCCCTA
1 AA-CCCTA
3517 AACCCTA
1 AACCCTA
3524 AACCCT-
1 AACCCTA
3530 AACCCTAA
1 AACCCT-A
3538 AACCCTA
1 AACCCTA
3545 AACCCTA
1 AACCCTA
3552 AACCCCTTA
1 AA-CCC-TA
3561 AACCCTA
1 AACCCTA
3568 AACCCCTA
1 AA-CCCTA
3576 AA-CCTAAA
1 AACCCT--A
3584 AACCCTA
1 AACCCTA
3591 AACCCTA
1 AACCCTA
3598 AA-CCTAAA
1 AACCCT--A
3606 CAACCCTA
1 -AACCCTA
3614 AA-CCTA
1 AACCCTA
3620 AACCCCTA
1 AA-CCCTA
*
3628 AACACTA
1 AACCCTA
3635 ACACCCT-
1 A-ACCCTA
3642 AACCCTA
1 AACCCTA
3649 AACCCTA
1 AACCCTA
3656 AACCCTA
1 AACCCTA
3663 AACCCTA
1 AACCCTA
*
3670 AAACC-A
1 AACCCTA
3676 TAACCCTA
1 -AACCCTA
3684 AACCCTA
1 AACCCTA
*
3691 AACACT-
1 AACCCTA
3697 AACGCC-A
1 AAC-CCTA
*
3704 GAACCCGA
1 -AACCCTA
3712 AACCCTA
1 AACCCTA
3719 AA-CCTA
1 AACCCTA
3725 AACCCTA
1 AACCCTA
3732 AACCCT-
1 AACCCTA
3738 AACCCTA
1 AACCCTA
3745 AACCCCTA
1 AA-CCCTA
3753 AACCCTA
1 AACCCTA
3760 AA-CCT-
1 AACCCTA
3765 AA-CCTAA
1 AACCCT-A
3772 AACCCTA
1 AACCCTA
*
3779 AACACTAAAA
1 AACCCT---A
3789 AACCCTA
1 AACCCTA
*
3796 AAACCT-
1 AACCCTA
*
3802 AACACTA
1 AACCCTA
*
3809 AA-CCGA
1 AACCCTA
3815 AACCCTA
1 AACCCTA
*
3822 CACCCTA
1 AACCCTA
3829 AACCC-A
1 AACCCTA
*
3835 AACCTTA
1 AACCCTA
3842 AACCCTAAA
1 AACCCT--A
*
3851 AACCCCGA
1 AA-CCCTA
*
3859 AA-ACTA
1 AACCCTA
3865 AACCCT-
1 AACCCTA
3871 AACCC-A
1 AACCCTA
3877 AA-CCTA
1 AACCCTA
3883 AACCCTA
1 AACCCTA
3890 AACCCTAA
1 AACCCT-A
3898 AACCCTA
1 AACCCTA
3905 AACGCCTA
1 AAC-CCTA
3913 AACCCT-
1 AACCCTA
*
3919 ACCCCTA
1 AACCCTA
*
3926 AACCCGA
1 AACCCTA
3933 AACCCTA
1 AACCCTA
*
3940 AACAC-A
1 AACCCTA
3946 AACCCTA
1 AACCCTA
3953 AACCACTA
1 AACC-CTA
3961 AACCCTA
1 AACCCTA
3968 AACCCTA
1 AACCCTA
3975 AACCCCCATA
1 AA--CCC-TA
3985 AACCCTA
1 AACCCTA
3992 AACCCTAA
1 AACCCT-A
4000 AACCCTA
1 AACCCTA
*
4007 AAACC--
1 AACCCTA
4012 AACCCTAA
1 AACCCT-A
4020 AACCCTA
1 AACCCTA
4027 AACCCT-
1 AACCCTA
*
4033 AA-CCGA
1 AACCCTA
4039 AACCCTA
1 AACCCTA
4046 AACCCT-
1 AACCCTA
4052 AA-CCTA
1 AACCCTA
*
4058 AACCC-G
1 AACCCTA
*
4064 AACACTA
1 AACCCTA
4071 AACCCTA
1 AACCCTA
4078 AACCCTA
1 AACCCTA
4085 AACCCTA
1 AACCCTA
4092 AACCCTAA
1 AACCCT-A
4100 AACCCTA
1 AACCCTA
4107 AACCCTA
1 AACCCTA
4114 AACCCTAA
1 AACCCT-A
4122 AACCCTA
1 AACCCTA
4129 AACCCTA
1 AACCCTA
4136 AACCC--
1 AACCCTA
4141 AACCC-A
1 AACCCTA
4147 AACCCTA
1 AACCCTA
4154 AACCCTA
1 AACCCTA
4161 AACCCTA
1 AACCCTA
4168 AACCCTA
1 AACCCTA
4175 AACCCCTA
1 AA-CCCTA
4183 AACCCTA
1 AACCCTA
*
4190 AACACTA
1 AACCCTA
*
4197 AAACCTA
1 AACCCTA
*
4204 AACCATA
1 AACCCTA
*
4211 AAACCTAAA
1 AACCCT--A
*
4220 AACCCGA
1 AACCCTA
*
4227 AA-CCTG
1 AACCCTA
4233 AACCCTA
1 AACCCTA
4240 AACCC--
1 AACCCTA
4245 -ACCCT-
1 AACCCTA
4250 AACCCTA
1 AACCCTA
4257 AACCCTA
1 AACCCTA
*
4264 AACCC-G
1 AACCCTA
4270 AACCCTAA
1 AACCCT-A
4278 AACCCTAA
1 AACCCT-A
4286 AACCCTAA
1 AACCCT-A
4294 AACCCTA
1 AACCCTA
4301 AACCCTA
1 AACCCTA
4308 AACCCTA
1 AACCCTA
*
4315 AACACTA
1 AACCCTA
4322 AACCCT-
1 AACCCTA
*
4328 AACCCGA
1 AACCCTA
4335 AACCCTA
1 AACCCTA
4342 AACCCT-
1 AACCCTA
4348 AACCCTA
1 AACCCTA
*
4355 AACCATA
1 AACCCTA
4362 AA-CCTA
1 AACCCTA
4368 AACCCTA
1 AACCCTA
4375 AA-CCTA
1 AACCCTA
4381 AACCCTAA
1 AACCCT-A
4389 AACCCTA
1 AACCCTA
4396 AACCCCTA
1 AA-CCCTA
**
4404 AACCCCC
1 AACCCTA
*
4411 AACCCCA
1 AACCCTA
*
4418 AACCCCA
1 AACCCTA
4425 AA-CC-A
1 AACCCTA
*
4430 AACCCCA
1 AACCCTA
4437 AACCC-A
1 AACCCTA
*
4443 AACCCCA
1 AACCCTA
4450 AA-CC-A
1 AACCCTA
*
4455 CAACCCCA
1 -AACCCTA
*
4463 AACCCCA
1 AACCCTA
*
4470 AACACTA
1 AACCCTA
4477 AACCC-A
1 AACCCTA
4483 AACACC--
1 AAC-CCTA
4489 AA-CCTA
1 AACCCTA
*
4495 AACCCGA
1 AACCCTA
*
4502 AAACCTA
1 AACCCTA
4509 AACCCTA
1 AACCCTA
*
4516 AA-CATAA
1 AACCCT-A
4523 AACCCTA
1 AACCCTA
4530 AACCCTA
1 AACCCTA
4537 AACCCT-
1 AACCCTA
4543 AACCC-A
1 AACCCTA
4549 AACCCGTA
1 AACCC-TA
4557 AACACC--
1 AAC-CCTA
4563 AA-CCTA
1 AACCCTA
*
4569 AACCCCA
1 AACCCTA
*
4576 AACCCCA
1 AACCCTA
*
4583 AACCCCA
1 AACCCTA
*
4590 AACCCCCA
1 AA-CCCTA
4598 AACCC-A
1 AACCCTA
*
4604 AACCCCACCA
1 AA--CC-CTA
*
4614 AACCCCA
1 AACCCTA
*
4621 AACCCCA
1 AACCCTA
*
4628 AACCCCA
1 AACCCTA
4635 AACCC-A
1 AACCCTA
*
4641 AACCCCA
1 AACCCTA
*
4648 AACCCCA
1 AACCCTA
*
4655 AACCCCA
1 AACCCTA
*
4662 AACCCCA
1 AACCCTA
4669 AACCC--
1 AACCCTA
4674 AACCC-A
1 AACCCTA
*
4680 ACACCCCA
1 A-ACCCTA
*
4688 AACCCCCA
1 AA-CCCTA
*
4696 AACCC-C
1 AACCCTA
*
4702 AACCCCA
1 AACCCTA
*
4709 AACCCCA
1 AACCCTA
*
4716 AACCCCA
1 AACCCTA
* *
4723 ACCCCAA
1 AACCCTA
*
4730 AACCCCA
1 AACCCTA
*
4737 AACCCCA
1 AACCCTA
*
4744 AACCCCA
1 AACCCTA
*
4751 AACCCCA
1 AACCCTA
*
4758 AACCCCA
1 AACCCTA
*
4765 AACCCCCA
1 AA-CCCTA
*
4773 AACCCCA
1 AACCCTA
*
4780 AACCCCA
1 AACCCTA
*
4787 AACCCCCA
1 AA-CCCTA
*
4795 AACCCCA
1 AACCCTA
*
4802 AACCCCA
1 AACCCTA
* *
4809 ACCCCCA
1 AACCCTA
*
4816 AACCCCA
1 AACCCTA
4823 AACCC--
1 AACCCTA
4828 AACCC-A
1 AACCCTA
*
4834 AACCCCA
1 AACCCTA
*
4841 AACCCCA
1 AACCCTA
*
4848 AACCCCA
1 AACCCTA
*
4855 AACCCCA
1 AACCCTA
* *
4862 ACCCCCA
1 AACCCTA
*
4869 AACCCCA
1 AACCCTA
**
4876 AACACCCC
1 AAC-CCTA
4884 AACCAC-A
1 AACC-CTA
*
4891 AACCCCA
1 AACCCTA
*
4898 AACCCCA
1 AACCCTA
*
4905 AACCCCA
1 AACCCTA
*
4912 AACCCCA
1 AACCCTA
*
4919 AACCCCA
1 AACCCTA
*
4926 AACCCCA
1 AACCCTA
*
4933 AACCCCA
1 AACCCTA
4940 AACCC--
1 AACCCTA
**
4945 AACCCCC
1 AACCCTA
*
4952 AACCC-C
1 AACCCTA
*
4958 AACCCCA
1 AACCCTA
* *
4965 ACCCCCA
1 AACCCTA
* *
4972 ACCCCCA
1 AACCCTA
*
4979 AACCC-C
1 AACCCTA
*
4985 AACCCCA
1 AACCCTA
*
4992 AACCCCA
1 AACCCTA
*
4999 AACCCCA
1 AACCCTA
*
5006 AACCCCA
1 AACCCTA
*
5013 AACCCCA
1 AACCCTA
*
5020 AACCC-C
1 AACCCTA
*
5026 AACCCCA
1 AACCCTA
*
5033 AACCCCA
1 AACCCTA
*
5040 AACCCCA
1 AACCCTA
*
5047 AACCCCA
1 AACCCTA
*
5054 AACCCCA
1 AACCCTA
*
5061 AACCC-C
1 AACCCTA
5067 AACCC-A
1 AACCCTA
*
5073 AACCC-C
1 AACCCTA
*
5079 AACCC-C
1 AACCCTA
*
5085 AACCCCA
1 AACCCTA
*
5092 AACCCCA
1 AACCCTA
*
5099 AACCCCA
1 AACCCTA
*
5106 AACCCCA
1 AACCCTA
*
5113 AACCCCA
1 AACCCTA
*
5120 AACCCCA
1 AACCCTA
*
5127 AACCCCA
1 AACCCTA
*
5134 AACCCCA
1 AACCCTA
*
5141 AACCCCA
1 AACCCTA
*
5148 AACCCCA
1 AACCCTA
*
5155 AACCCCA
1 AACCCTA
*
5162 AACCCCA
1 AACCCTA
5169 AACCC-A
1 AACCCTA
*
5175 AACCCCA
1 AACCCTA
*
5182 AACCCCA
1 AACCCTA
*
5189 AACCCCA
1 AACCCTA
5196 AACCC-A
1 AACCCTA
*
5202 AACCCCA
1 AACCCTA
*
5209 AACCCAAA
1 AACCC-TA
*
5217 AACCCCAAA
1 AA-CCC-TA
5226 AACCC-A
1 AACCCTA
*
5232 AACCCCA
1 AACCCTA
*
5239 AACCC-C
1 AACCCTA
*
5245 AACCCCA
1 AACCCTA
*
5252 AACCCCA
1 AACCCTA
**
5259 AACCCCC
1 AACCCTA
*
5266 AACCCCA
1 AACCCTA
**
5273 AACCCCC
1 AACCCTA
**
5280 AACCCCC
1 AACCCTA
**
5287 AACCCCC
1 AACCCTA
*
5294 AACCCCA
1 AACCCTA
5301 AACCC-A
1 AACCCTA
5307 AACCCTA
1 AACCCTA
*
5314 AACCCCA
1 AACCCTA
*
5321 AACCCCA
1 AACCCTA
*
5328 AACCCCA
1 AACCCTA
**
5335 AACCCCC
1 AACCCTA
*
5342 AACCCCA
1 AACCCTA
*
5349 AACCCCCA
1 AA-CCCTA
*
5357 ACCCCT-
1 AACCCTA
**
5363 AACCCCC
1 AACCCTA
**
5370 AACCCCC
1 AACCCTA
*
5377 AACCCCA
1 AACCCTA
*
5384 AACCCCA
1 AACCCTA
*
5391 AACCCCA
1 AACCCTA
5398 AA-CCTCA
1 AACCCT-A
5405 AACCCTA
1 AACCCTA
*
5412 AACCCCA
1 AACCCTA
*
5419 AACTCTA
1 AACCCTA
5426 AACCCTA
1 AACCCTA
**
5433 AACTTTA
1 AACCCTA
*
5440 AACTCTA
1 AACCCTA
5447 AACCCTA
1 AACCCTA
5454 AA
1 AA
5456 TTTAAACTTT
Statistics
Matches: 4687, Mismatches: 340, Indels: 842
0.80 0.06 0.14
Matches are distributed among these distances:
4 26 0.01
5 141 0.03
6 848 0.18
7 2803 0.60
8 659 0.14
9 107 0.02
10 92 0.02
11 11 0.00
ACGTcount: A:0.44, C:0.46, G:0.01, T:0.09
Consensus pattern (7 bp):
AACCCTA
Found at i:115 original size:18 final size:17
Alignment explanation
Indices: 89--123 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
79 CCGAAACCCT
*
89 AAACCCTAAACCCCTAAA
1 AAACACTAAA-CCCTAAA
107 AAACACTAAACCCTAAA
1 AAACACTAAACCCTAAA
124 CCTAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.34, G:0.00, T:0.11
Consensus pattern (17 bp):
AAACACTAAACCCTAAA
Found at i:237 original size:25 final size:23
Alignment explanation
Indices: 204--4400 Score: 447
Period size: 22 Copynumber: 177.6 Consensus size: 23
194 CCTAAACCCT
204 AAACCCTAAACCCGAAAACCCTAAA
1 AAACCCTAAACCC--AAACCCTAAA
229 AAACCCTAAACCCAAACCCTAAA
1 AAACCCTAAACCCAAACCCTAAA
* **
252 CCTAACCGAAAACCCGAAACCCT---
1 --AAACCCTAAACCC-AAACCCTAAA
* *
275 AACCCCGAAACCCCTAAAACCCT---
1 AAACCCTAAA-CCC--AAACCCTAAA
* *
298 ACACCCTACACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
322 CCCTAAACCC-AAACCCTAAACCCTAAA
1 ----AAACCCTAAACCC-AAACCCTAAA
349 CCCAAACCCTAAACCCGAAACCCTAAACA
1 ---AAACCCTAAACCC-AAACCCT-AA-A
378 GAAACGCACTAAAACCCTAAACCCCT---
1 -AAAC-C-CT-AAACCC-AAA-CCCTAAA
* **
404 AAACCCTAAACCCGAACCC--CG
1 AAACCCTAAACCCAAACCCTAAA
*
425 AAACCCTAAACCCTAACCC----
1 AAACCCTAAACCCAAACCCTAAA
* *
444 GAACCCGAAACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
468 AAACCCTAAACCC-AACCCT---
1 AAACCCTAAACCCAAACCCTAAA
487 AAACCCTAAACCCTAAAAAACCC-AAA
1 AAACCCTAAACCC----AAACCCTAAA
*
513 AAACCCTAAACCTAAAGCCCTAAA
1 AAACCCTAAACCCAAA-CCCTAAA
*
537 CCTAAACCCTAAACCCTAAAACCTAAA
1 ---AAACCCTAAACCC-AAACCCTAAA
**
564 AAACCGAAAAACCCTAAACCCT---
1 AAACC-CTAAACCC-AAACCCTAAA
*
586 AAACCCGAAACCCTAAACCCTAAAA
1 AAACCCTAAACCC-AAACCCT-AAA
611 AAACCCTAAACCCCTAAACCCT---
1 AAACCCTAAA-CCC-AAACCCTAAA
633 AAACCCTAAACCCGAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
657 CCCTAAACCCTAAACCCAAACCCT---
1 ----AAACCCTAAACCCAAACCCTAAA
681 AAACCCTAAACCCGAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
* *
705 CAACCCCTAAACCCCTAACGCCT---
1 -AAACCCTAAA-CCCAAAC-CCTAAA
728 AAACCCTAAACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
752 CCCTAAACCCTAAACCCTAAA-CCTAAA
1 ----AAACCCTAAACCC-AAACCCTAAA
779 CCCGAAACCCT-AACCCTAAACCCT--A
1 ----AAACCCTAAACCC-AAACCCTAAA
*
804 AAA-CCTAAACCTAAACCCT--A
1 AAACCCTAAACCCAAACCCTAAA
*
824 AAACCCTAAACCCTAAACCCCTAACCT
1 AAACCCTAAACCC-AAA-CCCTAA--A
* *
851 AAACCCGAAACCCTAAACCC---G
1 AAACCCTAAACCC-AAACCCTAAA
**
872 AAACCCTAAACATAAACCCT---
1 AAACCCTAAACCCAAACCCTAAA
*
892 AAACCCTAAACCCGAACCCTAAA
1 AAACCCTAAACCCAAACCCTAAA
915 CCCTAAACCCTAAACCCTAAA-CCT-AA
1 ----AAACCCTAAACCC-AAACCCTAAA
* *
941 AAA-CCTAAACCCGAACCCGAAA
1 AAACCCTAAACCCAAACCCTAAA
963 AAACCCTAAACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
987 CCCGAAACCCTAAACCCTAAACCCTAACTAACA
1 ----AAACCCTAAACCC-AAACCCT----AA-A
* *
1020 ATAAACC-ATAACCCTAAACCC-GAA
1 A-AACCCTA-AACCC-AAACCCTAAA
* *
1044 AAACCCT-AACCTAAA-CC--AT
1 AAACCCTAAACCCAAACCCTAAA
1063 AAACCCT-AACCCATAAACCCT-AA
1 AAACCCTAAACCC--AAACCCTAAA
* *
1086 ACACCCTAACCCCTAAAACCCT---
1 AAACCCTAAACCC--AAACCCTAAA
1108 AAACCCTAAACCC--ACCC----
1 AAACCCTAAACCCAAACCCTAAA
*
1125 AAACGCC-AAACCCCAAACCCCAAA
1 AAAC-CCTAAA-CCCAAACCCTAAA
* **
1149 CCCAAACCCCAAACCCCAAAACCC-CCA
1 ---AAACCCTAAA-CCC-AAACCCTAAA
* *
1176 AACCCCAAAACCCCAAAACCC-AAA
1 AAACCCTAAA-CCC-AAACCCTAAA
* *
1200 CCCCAAACCCCAACCCCAAACCC---A
1 ----AAACCCTAAACCCAAACCCTAAA
* *
1224 AAACCCCAAACCCCAAAACCCCAAA
1 AAACCCTAAA-CCC-AAACCCTAAA
* * *
1249 CCCAACCCCAAACCC-AACCC---C
1 --AAACCCTAAACCCAAACCCTAAA
* *
1270 AAACCCCAAACCCCCAAACCCCAAA
1 AAACCCTAAA--CCCAAACCCTAAA
* *
1295 CCCAAACCCAAAACCCCCAAACCC--AC
1 ---AAACCCTAAA--CCCAAACCCTAAA
* *
1321 AAACCCCAAACCCCAAACCCCAAA
1 AAACCCTAAA-CCCAAACCCTAAA
*
1345 CCCAAACCCCAAAACCCAAA-CC-AAA
1 ---AAA-CCCTAAACCCAAACCCTAAA
*
1370 CCCCAAACCCCAAACCCCAAACCC-AAA
1 ----AAACCCTAAA-CCCAAACCCTAAA
* *
1397 CCAACCCCAAACCCCAAACCC---A
1 -AAACCCTAAAC-CCAAACCCTAAA
* *
1419 AAACCCCAAACCCCAAACCCCAAA
1 AAACCCTAAA-CCCAAACCCTAAA
* * *
1443 CCCCAACCCCAAACCCAAACCC---G
1 ---AAACCCTAAACCCAAACCCTAAA
* * *
1466 CAACCCCAAACCCCCAAACCC---C
1 AAACCCTAAA--CCCAAACCCTAAA
* * *
1488 AAACCCCAACCCCAAA-CC-AACCCC
1 AAACCCTAAACCCAAACCCTAA---A
* *
1512 AAACCCCAAACCCCAAACCCCAAA
1 AAACCCTAAA-CCCAAACCCTAAA
* * * *
1536 CCCCAACCCAAAACCCCAACCCAAACCCA
1 ---AAACCCTAAACCCAAACCCTAA---A
* * * *
1565 AAACCCCAAACCCCAACCCCAACCCGC
1 AAACCCTAAACCCAAACCCTAA----A
* *
1592 AAACCCCACCAA-CCAAACCC--CA
1 AAACCCTA--AACCCAAACCCTAAA
* * *
1614 AACCCCCAAACCCCAAACCCCAAA
1 AAACCCTAAA-CCCAAACCCTAAA
** *
1638 CCACCCCAAACCCAAACCC-AAA
1 AAACCCTAAACCCAAACCCTAAA
* *
1660 CCCTAA-CCTAAACCCTAAACCC-GAA
1 ---AAACCCTAAACCC-AAACCCTAAA
* *
1685 AACCCCTAAAGACCTAAAACCCT---
1 AAACCCT-AA-ACC-CAAACCCTAAA
1708 AAACCCTAAACCCTAAAACCCT---
1 AAACCCTAAACCC--AAACCCTAAA
*
1730 AAACCCTAAACCCTAACCCTAAA
1 AAACCCTAAACCCAAACCCTAAA
1753 AAACCCTAAA---AAACCCT---
1 AAACCCTAAACCCAAACCCTAAA
* * *
1770 AAACCCGAAACCCTAACCC-GAA
1 AAACCCTAAACCCAAACCCTAAA
* *
1792 AAACCCT--ACCGAAA-CCTAACCCT
1 AAACCCTAAACCCAAACCCTAA---A
*
1815 AAACCCTAAAACCCTAACCCT---
1 AAACCCT-AAACCCAAACCCTAAA
* *
1836 AAACCCTAAACCCTAA-CCTAACCC
1 AAACCCTAAACCCAAACCCTAA--A
1860 AAACCCTAAAACCCTAAACCCT---
1 AAACCCT-AAACCC-AAACCCTAAA
1882 AAACCCTAAACCCTAAA-CCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
*
1905 CCTAAA-CCTAAA-CCTAACCCTAAA
1 ---AAACCCTAAACCCAAACCCTAAA
*
1929 CCTAAACCCTAAACCCTAAACCCTAACCCT
1 ---AAACCCTAAACCC-AAACCCTAA---A
* * *
1959 AAACCCTAAAACTCCTCAACAACTACA
1 AAACCCTAAA-C-CC-AAAC-CCTAAA
1986 AAACCCTAAACCCTAAACCCT---
1 AAACCCTAAACCC-AAACCCTAAA
2007 -AACCCTAAACCCCTAAACCCCT---
1 AAACCCTAAA-CCC-AAA-CCCTAAA
*
2029 AAACCCTAAA--AAAACCCTAAACCTA
1 AAACCCTAAACCCAAACCCT-AA---A
*
2054 AAACCCTAGAACCTAAACCCT---
1 AAACCCTA-AACCCAAACCCTAAA
* *
2075 AAACCCGAAAACCCGAAAACCCTAACCCCT
1 AAACCC-TAAACCC--AAACCCTAA----A
2105 AAACCCTAAACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
2129 CCCGAAACCCT-AACCCTAAACCCT---
1 ----AAACCCTAAACCC-AAACCCTAAA
*
2153 AAACCCTAAACCTAAACCCT---
1 AAACCCTAAACCCAAACCCTAAA
* *
2173 AAACCCTAAACCCTAACCCTAACCC
1 AAACCCTAAACCCAAACCCTAA--A
* * *
2198 TAA-CCTAAAACCTAA-CCT---
1 AAACCCTAAACCCAAACCCTAAA
2216 AAA-CCT-AACCCAAACCCTAAA
1 AAACCCTAAACCCAAACCCTAAA
* *
2237 CCCTAACCCT-AACCCAACCCCTAAAA
1 ---AAACCCTAAACCCAAACCCT-AAA
2263 ACAACCCTAAAACCCTAAACCCTAAAAA
1 A-AACCCT-AAACCC-AAACCCT--AAA
*
2291 CAAACCCT-AACCCTAACCCTAAA
1 -AAACCCTAAACCCAAACCCTAAA
*
2314 CCTAAACCCTAAACACTAAACCCT---
1 ---AAACCCTAAAC-CCAAACCCTAAA
2338 AAACCCT-AACCCGAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
*
2361 CCCTAACCCTAAACCCTAAA-CCTAAA
1 ---AAACCCTAAACCC-AAACCCTAAA
*
2387 CCCTAACCCTAAACCCTAAACCCTAAA
1 ---AAACCCTAAACCC-AAACCCTAAA
*
2414 AAACCCCGAAACCCTAAACCCTAAAA
1 AAA-CCCTAAACCC-AAACCCT-AAA
2440 CAAACCCTAAACCCTAAACCCT--A
1 -AAACCCTAAACCC-AAACCCTAAA
* *
2463 AACCCCTAAACCCTAAACCC-AACCC
1 AAACCCTAAACCC-AAACCCTAA--A
* * *
2488 GAACCCTAAA-CGAAA-CCTAACCCT
1 AAACCCTAAACCCAAACCCTAA---A
*
2512 AAACCCTAAACCCTAAACCCTACCCCA
1 AAACCCTAAACCC-AAACCCTA---AA
* * *
2539 AACCCCAAAACCCCAAAACCCCAAA
1 AAACCCTAAA-CCC-AAACCCTAAA
* *
2564 CCCAACCCTAAAACCCTAACCCT---
1 --AAACCCT-AAACCCAAACCCTAAA
2587 AAACCCTAAAACCCTAAACCCTAAA
1 AAACCCT-AAACCC-AAACCCTAAA
2612 CCATAACCCTAAA---AAACCCT---
1 --A-AACCCTAAACCCAAACCCTAAA
* *
2632 AAACCC-CAACACCAAACACC---C
1 AAACCCTAAAC-CCAAAC-CCTAAA
*
2653 AAACCC-CAACCCGAAACCCT-AA
1 AAACCCTAAACCC-AAACCCTAAA
2675 AA-CCCTAAAACCCTAAA-CCTAAAAA
1 AAACCCT-AAACCC-AAACCCT--AAA
* *
2700 ACAACCCGAAACCCTAAACCCTAACCCG
1 A-AACCCTAAACCC-AAACCCTAA---A
2728 AAACCCTAAACCCTAAACCCT---
1 AAACCCTAAACCC-AAACCCTAAA
* *
2749 AACCCCTAAACCCTAAACCCAAAAA
1 AAACCCTAAACCC-AAACCC-TAAA
*
2774 AAACCCTAAACCATAAACCCT---
1 AAACCCTAAACC-CAAACCCTAAA
*
2795 -AACCCTAAACCCTAAAACCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
2818 CCCGAAACCCTAAACCCTAAACCCTAAA
1 ----AAACCCTAAACCC-AAACCCTAAA
2846 AAA-CCT-AACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
* *
2868 CCTAACCCGAAACCCTAAACCCT--A
1 --AAACCCTAAACCC-AAACCCTAAA
* *
2892 AACCCCTAAACCCTAAAACCCTAACCCT
1 AAACCCTAAACCC--AAACCCTAA---A
2920 AAACCCT-AACCCTAAACCCT-AA
1 AAACCCTAAACCC-AAACCCTAAA
*
2942 ACA-CCTAAACCCGAAACCCT-AA
1 AAACCCTAAACCC-AAACCCTAAA
2964 AAACCCTAGAACCCTAAA-CCT--A
1 AAACCCTA-AACCC-AAACCCTAAA
* *
2986 AAA-CCTAAACCCTAAGACCCGAACCC
1 AAACCCTAAACCC-AA-ACCCTAA--A
*
3012 TAACCCTAAAAACCCTAAACCCT---
1 AAACCCT--AAACCC-AAACCCTAAA
*
3035 -AACCCTAAACCCTAAAACCCTAACCT
1 AAACCCTAAACCC--AAACCCTAA--A
3061 AAACCCTAAACCCCTAAACCCT---
1 AAACCCTAAA-CCC-AAACCCTAAA
3083 AAACCCTAAACCCTAAA-CC-AACCA
1 AAACCCTAAACCC-AAACCCTAA--A
*
3107 TAAACCC--AACCCTAAACCATAAA
1 -AAACCCTAAACCC-AAACCCTAAA
* *
3130 CCTAAACCCTAAAACCTAACCCT---
1 ---AAACCCTAAACCCAAACCCTAAA
*
3153 AAACCCTAAA-CTAAACCCT---
1 AAACCCTAAACCCAAACCCTAAA
* **
3172 AAACCCTAAAACCTTACCCT---
1 AAACCCTAAACCCAAACCCTAAA
*
3192 AAACGCCTAAACCCCTAGACCCTAAA
1 AAAC-CCTAAA-CCC-AAACCCTAAA
3218 CCCTAAACCCTAAACCCTAAACCCTAAA
1 ----AAACCCTAAACCC-AAACCCTAAA
3246 CCCTAAACCCTAAACCCAAACCCCT---
1 ----AAACCCTAAACCCAAA-CCCTAAA
3271 AAACCCTAAACCCTAAACCCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
*
3295 ACCCCTAACCCTAAACCCGAAACCC--GA
1 A-----AACCCTAAACCC-AAACCCTAAA
3322 AAACCCTAAACCCGAAACCCT-AA
1 AAACCCTAAACCC-AAACCCTAAA
3345 AAA-CCTAAACCACTAAACCCT--A
1 AAACCCTAAACC-C-AAACCCTAAA
3367 AAACCCTAAACCCAAACCCTAACCCGA
1 AAACCCTAAACCCAAACCCTAA----A
*
3394 AAACACTAAACCCTAAACCCT-AA
1 AAACCCTAAACCC-AAACCCTAAA
** * *
3417 ACCCCCCAAACCCTAACCC---A
1 AAACCCTAAACCCAAACCCTAAA
* *
3437 AAACCCTAAACCACCAACCC---C
1 AAACCCTAAACC-CAAACCCTAAA
* *
3458 AAACCCCAAACCCCAAAACCT--A
1 AAACCCTAAA-CCCAAACCCTAAA
*
3480 AAACCCGAAACCCTAAACCCT---
1 AAACCCTAAACCC-AAACCCTAAA
3501 AAACCCTAAACCCCTAAACCCTAAA
1 AAACCCTAAA-CCC-AAACCCTAAA
*
3526 CCCTAACCCTAAAACCCTAAACCCTAAA
1 ---AAACCCT-AAACCC-AAACCCTAAA
* *
3554 CCCCTTAAACCCTAAACCCCTAAACCT-AA
1 ------AAACCCTAAAC-CCAAACCCTAAA
3583 AAACCCTAAACCCTAAA-CCTAAA
1 AAACCCTAAACCC-AAACCCTAAA
* *
3606 CAACCCTAAACCTAAACCCCTAAACA
1 AAACCCTAAACCCAAA-CCCT-AA-A
3632 CTAACACCCT-AACCCTAAACCCT---
1 --AA-ACCCTAAACCC-AAACCCTAAA
*
3655 AAACCCTAAACCCTAAAACC---A
1 AAACCCTAAACCC-AAACCCTAAA
* *
3676 TAACCCTAAACCCTAAACACT---
1 AAACCCTAAACCC-AAACCCTAAA
3697 -AACGCC-AGAACCCGAAACCCTAAA
1 AAAC-CCTA-AACCC-AAACCCTAAA
*
3721 CCTAAACCCTAAACCCTAACCCT--A
1 ---AAACCCTAAACCCAAACCCTAAA
*
3745 AACCCCTAAACCCTAAA-CCT---
1 AAACCCTAAACCC-AAACCCTAAA
*
3765 -AA-CCTAAAACCCTAAACACTAAA
1 AAACCCT-AAACCC-AAACCCTAAA
* * *
3788 AAACCCTAAAACCTAACACTAAA
1 AAACCCTAAACCCAAACCCTAAA
*
3811 CCGAAACCCTACACCCTAAACCC-AAA
1 ---AAACCCTAAACCC-AAACCCTAAA
* *
3837 CCTTAAACCCTAAA---AACCCCGAAAA
1 ----AAACCCTAAACCCAAACCC-TAAA
3862 CTAAACCCT-AACCCAAA-CCT---
1 --AAACCCTAAACCCAAACCCTAAA
3882 AAACCCTAAACCCTAAAACCCT---
1 AAACCCTAAACCC--AAACCCTAAA
* *
3904 AAACGCCTAAACCCTACCCCTAAA
1 AAAC-CCTAAACCCAAACCCTAAA
*
3928 CCCGAAACCCTAAACACAAACCCT---
1 ----AAACCCTAAACCCAAACCCTAAA
3952 AAACCACTAAACCCTAAACCCT-AA
1 AAACC-CTAAACCC-AAACCCTAAA
**
3976 ACCCCCATAAACCCTAAACCCT-AA
1 AAACCC-TAAACCC-AAACCCTAAA
*
4000 AA-CCCTAAAACC-AACCCT--A
1 AAACCCTAAACCCAAACCCTAAA
* *
4019 AAACCCTAAACCCTAA-CC---G
1 AAACCCTAAACCCAAACCCTAAA
*
4038 AAACCCTAAACCCTAA-CCTAAA
1 AAACCCTAAACCCAAACCCTAAA
* *
4060 CCCGAACACTAAACCCTAAACCCT---
1 ---AAACCCTAAACCC-AAACCCTAAA
4084 AAACCCTAAACCCTAAAACCCT---
1 AAACCCTAAACCC--AAACCCTAAA
4106 AAACCCTAAACCCTAAAACCCT---
1 AAACCCTAAACCC--AAACCCTAAA
4128 AAACCCTAAACCC-AACCC-AAA
1 AAACCCTAAACCCAAACCCTAAA
4149 CCCTAAACCCTAAACCCTAAACCCT--A
1 ----AAACCCTAAACCC-AAACCCTAAA
* *
4175 AACCCCTAAACCCTAAACACT--A
1 AAACCCTAAACCC-AAACCCTAAA
* *
4197 AAA-CCTAAACCATAAAACCT-AA
1 AAACCCTAAACC-CAAACCCTAAA
* **
4219 AAACCCGAAACCTGAACCCTAAA
1 AAACCCTAAACCCAAACCCTAAA
**
4242 CCCACCCT-AACCCTAAACCCTAAA
1 -AAACCCTAAACCC-AAACCCTAAA
*
4266 CCCGAACCCTAAAACCCTAAAACCCT--A
1 ---AAACCCT-AAACCC--AAACCCTAAA
4293 AAACCCTAAACCCTAAACCCTAAACA
1 AAACCCTAAACCC-AAACCCT-AA-A
4319 CTAAACCCT-AACCCGAAACCCT---
1 --AAACCCTAAACCC-AAACCCTAAA
*
4341 AAACCCT-AACCCTAAACCATAAA
1 AAACCCTAAACCC-AAACCCTAAA
*
4364 CCTAAACCCTAAACCTAAACCCT--A
1 ---AAACCCTAAACCCAAACCCTAAA
4388 AAACCCTAAACCC
1 AAACCCTAAACCC
4401 CTAAACCCCC
Statistics
Matches: 3281, Mismatches: 346, Indels: 1094
0.69 0.07 0.23
Matches are distributed among these distances:
16 2 0.00
17 27 0.01
18 32 0.01
19 115 0.04
20 301 0.09
21 429 0.13
22 456 0.14
23 284 0.09
24 246 0.07
25 259 0.08
26 297 0.09
27 407 0.12
28 289 0.09
29 74 0.02
30 47 0.01
31 13 0.00
32 2 0.00
33 1 0.00
ACGTcount: A:0.45, C:0.43, G:0.02, T:0.10
Consensus pattern (23 bp):
AAACCCTAAACCCAAACCCTAAA
Found at i:515 original size:9 final size:10
Alignment explanation
Indices: 458--522 Score: 60
Period size: 10 Copynumber: 6.0 Consensus size: 10
448 CCGAAACCCT
458 AAACCCTAAA
1 AAACCCTAAA
468 AAACCCTAAA
1 AAACCCTAAA
*
478 CCCAACCCTAAA
1 --AAACCCTAAA
490 CCCTAAACCCTAAA
1 ----AAACCCTAAA
504 AAACCC-AAA
1 AAACCCTAAA
513 AAACCCTAAA
1 AAACCCTAAA
523 CCTAAAGCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
9 9 0.19
10 19 0.40
12 9 0.19
14 10 0.21
ACGTcount: A:0.54, C:0.37, G:0.00, T:0.09
Consensus pattern (10 bp):
AAACCCTAAA
Found at i:1759 original size:10 final size:10
Alignment explanation
Indices: 1744--1772 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1734 CCTAAACCCT
1744 AACCCTAAAA
1 AACCCTAAAA
1754 AACCCTAAAA
1 AACCCTAAAA
1764 AACCCTAAA
1 AACCCTAAA
1773 CCCGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.31, G:0.00, T:0.10
Consensus pattern (10 bp):
AACCCTAAAA
Found at i:3110 original size:11 final size:11
Alignment explanation
Indices: 3077--3125 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
3067 TAAACCCCTA
3077 AACCCTAAACCC
1 AACCCTAAA-CC
3089 TAAACCCTAAACC
1 --AACCCTAAACC
*
3102 AACCATAAACCC
1 AACCCTAAA-CC
3114 AACCCTAAACC
1 AACCCTAAACC
3125 A
1 A
3126 TAAACCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 11 0.34
12 10 0.31
13 2 0.06
14 9 0.28
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (11 bp):
AACCCTAAACC
Found at i:5442 original size:21 final size:21
Alignment explanation
Indices: 5404--5463 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
5394 CCCAAACCTC
***
5404 AAACCCTAAACCCCAAACTCT
1 AAACCCTAAACTTTAAACTCT
5425 AAACCCTAAACTTTAAACTCT
1 AAACCCTAAACTTTAAACTCT
5446 AAACCCTAAA-TTTAAACT
1 AAACCCTAAACTTTAAACT
5464 TTAAGTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCCTAAACTTTAAACTCT
Found at i:5627 original size:35 final size:34
Alignment explanation
Indices: 5577--5642 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
5567 TGGGTTTTAT
* *
5577 GTTTGGGGTTCAGGGTTCGAGCTTTGGAGTTAAG
1 GTTTGGGGTTAAGGGTTAGAGCTTTGGAGTTAAG
* *
5611 GTTTAGGGGTTAAGGGTTATAGGTTTGGAGTT
1 GTTT-GGGGTTAAGGGTTAGAGCTTTGGAGTT
5643 TAGGGGGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 4 0.15
35 23 0.85
ACGTcount: A:0.17, C:0.05, G:0.41, T:0.38
Consensus pattern (34 bp):
GTTTGGGGTTAAGGGTTAGAGCTTTGGAGTTAAG
Found at i:5684 original size:6 final size:7
Alignment explanation
Indices: 5645--5694 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
5635 TTGGAGTTTA
5645 GGGGGTT
1 GGGGGTT
5652 GGGGGTT
1 GGGGGTT
* *
5659 TGCGGTT
1 GGGGGTT
5666 AGGGGGTT
1 -GGGGGTT
5674 GGGGGTT
1 GGGGGTT
*
5681 GGGGTTT
1 GGGGGTT
*
5688 TGGGGTT
1 GGGGGTT
5695 TCAAGTCTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.02, C:0.02, G:0.62, T:0.34
Consensus pattern (7 bp):
GGGGGTT
Found at i:5692 original size:22 final size:23
Alignment explanation
Indices: 5632--5692 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
5622 AAGGGTTATA
*
5632 GGTTTGGAGTTTAGGGGGTTGGG
1 GGTTTGGGGTTTAGGGGGTTGGG
*
5655 GGTTTGCGG-TTAGGGGGTTGGG
1 GGTTTGGGGTTTAGGGGGTTGGG
*
5677 GG-TTGGGGTTTTGGGG
1 GGTTTGGGGTTTAGGGG
5693 TTTCAAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.15
22 21 0.64
23 7 0.21
ACGTcount: A:0.05, C:0.02, G:0.59, T:0.34
Consensus pattern (23 bp):
GGTTTGGGGTTTAGGGGGTTGGG
Found at i:5730 original size:21 final size:21
Alignment explanation
Indices: 5702--5751 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
5692 GTTTCAAGTC
5702 TGGA-GTTTAAGGTTTAAGGT
1 TGGAGGTTTAAGGTTTAAGGT
**
5722 TGGAGGTTTGGGGTTTAAGGT
1 TGGAGGTTTAAGGTTTAAGGT
*
5743 TCGAGGTTT
1 TGGAGGTTT
5752 GAGATTGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.18, C:0.02, G:0.40, T:0.40
Consensus pattern (21 bp):
TGGAGGTTTAAGGTTTAAGGT
Found at i:5736 original size:14 final size:14
Alignment explanation
Indices: 5646--5887 Score: 59
Period size: 14 Copynumber: 17.3 Consensus size: 14
5636 TGGAGTTTAG
*
5646 GGGGTTGGGGGTTT
1 GGGGTTGGAGGTTT
* * *
5660 GCGGTTAGGGGGTTG
1 GGGGTT-GGAGGTTT
5675 GGGGTTGG-GGTTTT
1 GGGGTTGGAGG-TTT
** * *
5689 GGGGTTTCAAGTCT
1 GGGGTTGGAGGTTT
* **
5703 GGAGTTTAAGGTTT
1 GGGGTTGGAGGTTT
**
5717 AAGGTTGGAGGTTT
1 GGGGTTGGAGGTTT
** *
5731 GGGGTTTAAGGTTC
1 GGGGTTGGAGGTTT
* * *
5745 GAGGTTTGA-GATT
1 GGGGTTGGAGGTTT
*
5758 GGGGTTCGAGGGTTT
1 GGGGTTGGA-GGTTT
* *
5773 TGGGTTTGA-GTTT
1 GGGGTTGGAGGTTT
* *
5786 GGGGTTAG-GGTTA
1 GGGGTTGGAGGTTT
* *
5799 AGGTTTGG-GGTTT
1 GGGGTTGGAGGTTT
** **
5812 GAGATTTTAAGGTTTT
1 G-GGGTTGGAGG-TTT
5828 GGGGTTTGG-GGTTT
1 GGGG-TTGGAGGTTT
*
5842 GGGGTTAGGA-GTTG
1 GGGGTT-GGAGGTTT
*
5856 GGGGTTGGGGGTTT
1 GGGGTTGGAGGTTT
*
5870 GGGATTTGG-GGTTT
1 GGG-GTTGGAGGTTT
5884 GGGG
1 GGGG
5888 GTTCGAGATT
Statistics
Matches: 163, Mismatches: 51, Indels: 29
0.67 0.21 0.12
Matches are distributed among these distances:
13 37 0.23
14 88 0.54
15 32 0.20
16 6 0.04
ACGTcount: A:0.11, C:0.02, G:0.49, T:0.38
Consensus pattern (14 bp):
GGGGTTGGAGGTTT
Found at i:5752 original size:21 final size:21
Alignment explanation
Indices: 5712--5752 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5702 TGGAGTTTAA
*
5712 GGTTTAAGGTTGGAGGTTTGG
1 GGTTTAAGGTTCGAGGTTTGG
5733 GGTTTAAGGTTCGAGGTTTG
1 GGTTTAAGGTTCGAGGTTTG
5753 AGATTGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.02, G:0.44, T:0.39
Consensus pattern (21 bp):
GGTTTAAGGTTCGAGGTTTGG
Found at i:5812 original size:7 final size:7
Alignment explanation
Indices: 5756--5933 Score: 92
Period size: 7 Copynumber: 25.1 Consensus size: 7
5746 AGGTTTGAGA
5756 TTGGGGT
1 TTGGGGT
*
5763 TCGAGGGT
1 TTG-GGGT
*
5771 TTTGGGT
1 TTGGGGT
*
5778 TT-GAGT
1 TTGGGGT
5784 TTGGGG-
1 TTGGGGT
*
5790 TTAGGG-
1 TTGGGGT
**
5796 TTAAGGT
1 TTGGGGT
5803 TTGGGGT
1 TTGGGGT
**
5810 TTGAGATT
1 TTG-GGGT
**
5818 TTAAGGT
1 TTGGGGT
5825 TTTGGGGT
1 -TTGGGGT
5833 TTGGGGT
1 TTGGGGT
5840 TTGGGGT
1 TTGGGGT
* *
5847 TAGGAGT
1 TTGGGGT
*
5854 TGGGGGT
1 TTGGGGT
*
5861 TGGGGGT
1 TTGGGGT
*
5868 TTGGGAT
1 TTGGGGT
5875 TTGGGGT
1 TTGGGGT
5882 TTGGGGGT
1 TT-GGGGT
* * *
5890 TCGAGAT
1 TTGGGGT
*
5897 TCGGGGT
1 TTGGGGT
5904 TTGGGGGT
1 TT-GGGGT
* *
5912 TCGGGAT
1 TTGGGGT
*
5919 TTTGGGT
1 TTGGGGT
5926 TTGGGGT
1 TTGGGGT
5933 T
1 T
5934 CCGGGTTCCG
Statistics
Matches: 128, Mismatches: 36, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
6 15 0.12
7 87 0.68
8 26 0.20
ACGTcount: A:0.08, C:0.02, G:0.49, T:0.40
Consensus pattern (7 bp):
TTGGGGT
Found at i:5847 original size:22 final size:22
Alignment explanation
Indices: 5832--5931 Score: 123
Period size: 22 Copynumber: 4.6 Consensus size: 22
5822 GGTTTTGGGG
*
5832 TTTGGGGTTT-GGGGTT-AGGA
1 TTTGGGGTTTGGGGGTTCGGGA
* * *
5852 GTTGGGGGTTGGGGGTTTGGGA
1 TTTGGGGTTTGGGGGTTCGGGA
*
5874 TTTGGGGTTTGGGGGTTCGAGA
1 TTTGGGGTTTGGGGGTTCGGGA
*
5896 TTCGGGGTTTGGGGGTTCGGGA
1 TTTGGGGTTTGGGGGTTCGGGA
*
5918 TTTTGGGTTTGGGG
1 TTTGGGGTTTGGGG
5932 TTCCGGGTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 8 0.12
21 6 0.09
22 53 0.79
ACGTcount: A:0.06, C:0.03, G:0.54, T:0.37
Consensus pattern (22 bp):
TTTGGGGTTTGGGGGTTCGGGA
Found at i:5950 original size:22 final size:21
Alignment explanation
Indices: 5860--5948 Score: 72
Period size: 22 Copynumber: 4.1 Consensus size: 21
5850 GAGTTGGGGG
* **
5860 TTGGGGGTTTGGGATTTGGGGT
1 TTGGGGGTTCGGG-TTCCGGGT
* *
5882 TTGGGGGTTCGAGATTCGGGGT
1 TTGGGGGTTCG-GGTTCCGGGT
**
5904 TTGGGGGTTCGGGATTTTGGGT
1 TTGGGGGTTCGGG-TTCCGGGT
5926 TT-GGGGTTCCGGGTTCCGGGT
1 TTGGGGGTT-CGGGTTCCGGGT
5947 TT
1 TT
5949 TGAGTTTCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
21 15 0.27
22 40 0.71
23 1 0.02
ACGTcount: A:0.04, C:0.08, G:0.49, T:0.38
Consensus pattern (21 bp):
TTGGGGGTTCGGGTTCCGGGT
Found at i:6048 original size:13 final size:13
Alignment explanation
Indices: 5990--6054 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
5980 AGGGTTTTTT
5990 GGGGTTCGGGGTTC
1 GGGGTT-GGGGTTC
6004 GGGGTTCGGGGTTC
1 GGGGTT-GGGGTTC
6018 -GGGTTGGGGTTTC
1 GGGGTTGGGG-TTC
* *
6031 -AGGTTGGGGTCC
1 GGGGTTGGGGTTC
*
6043 GGGGTTAGGGTT
1 GGGGTTGGGGTT
6055 TAGGGTTCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 6 0.14
13 24 0.55
14 14 0.32
ACGTcount: A:0.03, C:0.11, G:0.55, T:0.31
Consensus pattern (13 bp):
GGGGTTGGGGTTC
Found at i:6064 original size:32 final size:33
Alignment explanation
Indices: 5999--6074 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
5989 TGGGGTTCGG
* * *
5999 GGTTCGGGGTTCGGGGTTCGGGTTGGGGTTTCA
1 GGTTCGGGGTCCGGGGTTAGGGTTAGGGTTTCA
6032 GGTT-GGGGTCCGGGGTTAGGGTTTAGGG-TTCA
1 GGTTCGGGGTCCGGGGTTAGGG-TTAGGGTTTCA
*
6064 GGGTTCAGGGT
1 -GGTTCGGGGT
6075 TTAGGGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 19 0.53
33 13 0.36
34 4 0.11
ACGTcount: A:0.07, C:0.11, G:0.51, T:0.32
Consensus pattern (33 bp):
GGTTCGGGGTCCGGGGTTAGGGTTAGGGTTTCA
Found at i:6076 original size:21 final size:21
Alignment explanation
Indices: 6044--6091 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
6034 TTGGGGTCCG
6044 GGGTT-AGGGTTTAGGGTTCA
1 GGGTTCAGGGTTTAGGGTTCA
6064 GGGTTCAGGGTTTAGGGTTCA
1 GGGTTCAGGGTTTAGGGTTCA
*
6085 GAGTTCA
1 GGGTTCA
6092 AACCCTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.17, C:0.08, G:0.42, T:0.33
Consensus pattern (21 bp):
GGGTTCAGGGTTTAGGGTTCA
Found at i:6090 original size:7 final size:7
Alignment explanation
Indices: 5991--6091 Score: 68
Period size: 7 Copynumber: 15.0 Consensus size: 7
5981 GGGTTTTTTG
*
5991 GGGTTCG
1 GGGTTCA
*
5998 GGGTTCG
1 GGGTTCA
*
6005 GGGTTCG
1 GGGTTCA
6012 GGGTTC-
1 GGGTTCA
*
6018 GGGTT-G
1 GGGTTCA
6024 GGGTTTCA
1 GGG-TTCA
*
6032 -GGTT-G
1 GGGTTCA
* *
6037 GGGTCCG
1 GGGTTCA
6044 GGGTT-A
1 GGGTTCA
*
6050 GGGTTTA
1 GGGTTCA
6057 GGGTTCA
1 GGGTTCA
6064 GGGTTCA
1 GGGTTCA
*
6071 GGGTTTA
1 GGGTTCA
6078 GGGTTCA
1 GGGTTCA
*
6085 GAGTTCA
1 GGGTTCA
6092 AACCCTAAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
6 18 0.23
7 61 0.77
ACGTcount: A:0.09, C:0.11, G:0.49, T:0.32
Consensus pattern (7 bp):
GGGTTCA
Found at i:9689 original size:21 final size:21
Alignment explanation
Indices: 9660--9701 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9650 AGAAATTGTT
9660 CAAAAAAATGTTAGTCAGAGA
1 CAAAAAAATGTTAGTCAGAGA
*
9681 CAAAGAAATGTTAGTCAGAGA
1 CAAAAAAATGTTAGTCAGAGA
9702 TAGAGCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (21 bp):
CAAAAAAATGTTAGTCAGAGA
Found at i:13585 original size:2 final size:2
Alignment explanation
Indices: 13578--13622 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13568 TTCTGACCAA
13578 CT CT CT CT CT 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 CT CT CT CT CT
13620 CT C
1 CT C
13623 GGGGACTGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17975 original size:2 final size:2
Alignment explanation
Indices: 17968--18004 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
17958 CATCAGGTTC
*
17968 CT CT CT CT CT CT C- CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18005 AACCCTGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:19315 original size:3 final size:3
Alignment explanation
Indices: 19307--19331 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19297 TCCCAAGCTT
19307 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
19332 ATATGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:24036 original size:31 final size:31
Alignment explanation
Indices: 24001--24096 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
23991 TCTCTCTAAA
24001 TCAGCTTTTATCGTTGATTTATTTCATTCAG
1 TCAGCTTTTATCGTTGATTTATTTCATTCAG
* * * * **
24032 TCAGCCTTCA--GTACTAATTGATTTTGTT-AG
1 TCAGCTTTTATCGT--TGATTTATTTCATTCAG
24062 ATCAGCTTTTATCGTTGATTTATTTCATTCAG
1 -TCAGCTTTTATCGTTGATTTATTTCATTCAG
24094 TCA
1 TCA
24097 ACCTTCATTG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 39 0.83
32 2 0.04
33 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
TCAGCTTTTATCGTTGATTTATTTCATTCAG
Found at i:24102 original size:62 final size:62
Alignment explanation
Indices: 24000--24119 Score: 204
Period size: 62 Copynumber: 1.9 Consensus size: 62
23990 TTCTCTCTAA
*
24000 ATCAGCTTTTATCGTTGATTTATTTCATTCAGTCAGCCTTCAGTACTAATTGATTTTGTTAG
1 ATCAGCTTTTATCGTTGATTTATTTCATTCAGTCAACCTTCAGTACTAATTGATTTTGTTAG
* * *
24062 ATCAGCTTTTATCGTTGATTTATTTCATTCAGTCAACCTTCATTGCTGATTGATTTTG
1 ATCAGCTTTTATCGTTGATTTATTTCATTCAGTCAACCTTCAGTACTAATTGATTTTG
24120 ATTGATAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (62 bp):
ATCAGCTTTTATCGTTGATTTATTTCATTCAGTCAACCTTCAGTACTAATTGATTTTGTTAG
Found at i:24112 original size:31 final size:31
Alignment explanation
Indices: 24015--24117 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
24005 CTTTTATCGT
* * *
24015 TGATTTATTTCATTCAGTCAGCCTTCAGTAC
1 TGATTGATTTCATTCAGTCAGCCTTCATTGC
* ** * * * *
24046 TAATTGATTTTGTT-AGATCAGCTTTTATCGT
1 TGATTGATTTCATTCAG-TCAGCCTTCATTGC
* *
24077 TGATTTATTTCATTCAGTCAACCTTCATTGC
1 TGATTGATTTCATTCAGTCAGCCTTCATTGC
24108 TGATTGATTT
1 TGATTGATTT
24118 TGATTGATAG
Statistics
Matches: 50, Mismatches: 20, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
30 2 0.04
31 46 0.92
32 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
TGATTGATTTCATTCAGTCAGCCTTCATTGC
Found at i:28022 original size:30 final size:30
Alignment explanation
Indices: 27987--28079 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
27977 ATTTAAATTA
* *
27987 GATAGTGGTGCATTAGTTCTTAATTTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
*
28017 GATAGTGGTGCACTAGTCCTTAATCTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
* * *
28047 GATAGTGATACACTAATCCTTAATTTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
28077 GAT
1 GAT
28080 TTAAATTAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (30 bp):
GATAGTGGTGCACTAGTCCTTAATTTAAGG
Found at i:30202 original size:21 final size:22
Alignment explanation
Indices: 30167--30210 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
30157 AATTTTGAAT
30167 TTCAATAATTTGTATCGATACA
1 TTCAATAATTTGTATCGATACA
*
30189 TTCAGTAA-TTGTATCGATACA
1 TTCAATAATTTGTATCGATACA
30210 T
1 T
30211 AAGTTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (22 bp):
TTCAATAATTTGTATCGATACA
Found at i:30221 original size:19 final size:21
Alignment explanation
Indices: 30174--30225 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
30164 AATTTCAATA
*
30174 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
*
30195 AATTGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
30215 -TTTGTATCGAT
1 ATTTGTATCGAT
30226 TATCGATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 10 0.36
20 4 0.14
21 14 0.50
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:30285 original size:13 final size:13
Alignment explanation
Indices: 30267--30292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30257 GTCAAGGAAA
30267 TGTATCGATACAT
1 TGTATCGATACAT
30280 TGTATCGATACAT
1 TGTATCGATACAT
30293 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:32724 original size:52 final size:53
Alignment explanation
Indices: 32662--32765 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 53
32652 CAATTGTTTA
* *
32662 TAATCGGGGATACTCCAA-TCCCGATTTTATTTTC-AAAACACTAATTTTTCTT
1 TAATCAGGGATACTCCAACT-CCGATTTTATTTTCAAAAACACCAATTTTTCTT
*
32714 TAATCAGGGATACTCTAACTCCGATTTTATTTTCAAAAAACACCAATTTTTC
1 TAATCAGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACCAATTTTTC
32766 ACAAGCGAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 30 0.65
53 1 0.02
54 15 0.33
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (53 bp):
TAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCTT
Found at i:32888 original size:51 final size:50
Alignment explanation
Indices: 32828--32999 Score: 209
Period size: 51 Copynumber: 3.4 Consensus size: 50
32818 TTACCTCAGA
* * * *
32828 GGGGATACTCTAACCCCGGCTTTATTTCCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CAATTTTCCATAATC
* * *
32879 GAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACAC-AATTTTCCATAATC
* * * *
32930 GGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTCATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CAATTTTCC-ATAATC
32982 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
33000 TTATTTCCGA
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 81 0.79
52 21 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACAATTTTCCATAATC
Found at i:33022 original size:80 final size:79
Alignment explanation
Indices: 32930--33104 Score: 230
Period size: 79 Copynumber: 2.2 Consensus size: 79
32920 TTCCACAATC
* * *
32930 GGGGATACTCCAATCCCG-GTTTTATTT-TCAAAACACCAATTT-TCCTTTCATCGGGGATACTC
1 GGGGATACTCCAA-CCCGAGCTTTATTTCT-AAAACACCAATTTCT-C-ATAATCGGGGATACTC
32992 CAACCCCGTTATTTCCGA
62 CAACCCCGTTATTTCCGA
* **
33010 GGGGATACTCCAACCCGAGCTTTATTTCTAAAAGATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCGAGCTTTATTTCTAAAACACCAATTTCTCATAATCGGGGATACTCCAAC
33075 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
*
33089 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
33105 CGTTATTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
79 51 0.60
80 32 0.38
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCGAGCTTTATTTCTAAAACACCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:33102 original size:28 final size:28
Alignment explanation
Indices: 33062--33137 Score: 152
Period size: 28 Copynumber: 2.7 Consensus size: 28
33052 CTCATAATCG
33062 GGGATACTCCAACCCCGTTATTTCCGAA
1 GGGATACTCCAACCCCGTTATTTCCGAA
33090 GGGATACTCCAACCCCGTTATTTCCGAA
1 GGGATACTCCAACCCCGTTATTTCCGAA
33118 GGGATACTCCAACCCCGTTA
1 GGGATACTCCAACCCCGTTA
33138 CCATCTCCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCCGAA
Found at i:35684 original size:2 final size:2
Alignment explanation
Indices: 35679--35713 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
35669 TATATATATA
*
35679 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
35714 ATAGAAGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:35824 original size:6 final size:6
Alignment explanation
Indices: 35813--35840 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35803 AGGAGAGCGT
35813 ACCATA ACCATA ACCATA ACCATA ACCA
1 ACCATA ACCATA ACCATA ACCATA ACCA
35841 GACGCAGAAG
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:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (6 bp):
ACCATA
Found at i:36295 original size:3 final size:3
Alignment explanation
Indices: 36242--36276 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
36232 TACGATTATT
36242 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
36277 CTACCAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36362 original size:13 final size:13
Alignment explanation
Indices: 36344--36369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36334 CATTGTTTAT
36344 TTATGATTATGAA
1 TTATGATTATGAA
36357 TTATGATTATGAA
1 TTATGATTATGAA
36370 ATTGAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTATGATTATGAA
Found at i:47915 original size:3 final size:3
Alignment explanation
Indices: 47907--47933 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47897 GTCGCCGTAA
47907 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
47934 TACTGAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53645 original size:20 final size:20
Alignment explanation
Indices: 53598--53672 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
53588 AAAAAGACAT
*
53598 AATGTATCGATACATTTA-A
1 AATGTATCGATACATTCATA
*
53617 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
53638 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
53658 AATGTATCGATACAT
1 AATGTATCGATACAT
53673 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:53666 original size:40 final size:39
Alignment explanation
Indices: 53595--53672 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
53585 GGTAAAAAGA
* *
53595 CATAATGTATCGATACATTTAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
53634 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
53673 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:54423 original size:19 final size:19
Alignment explanation
Indices: 54399--54448 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
54389 AAACGGAAAA
54399 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
54418 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
54437 TGTATCGATACA
1 TGTATCGATACA
54449 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:54499 original size:21 final size:21
Alignment explanation
Indices: 54473--54514 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54463 AGCTACTACC
54473 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
54494 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
54515 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:54519 original size:13 final size:13
Alignment explanation
Indices: 54501--54526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54491 ATTAAGGAAA
54501 TGTATCGATACAT
1 TGTATCGATACAT
54514 TGTATCGATACAT
1 TGTATCGATACAT
54527 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55642 original size:13 final size:14
Alignment explanation
Indices: 55620--55653 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
55610 TGAAATAAAA
55620 ATGTTTTTTTTAAC
1 ATGTTTTTTTTAAC
55634 ATGTTTTTTTTAAC
1 ATGTTTTTTTTAAC
55648 ATGTTT
1 ATGTTT
55654 ATCTTGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (14 bp):
ATGTTTTTTTTAAC
Found at i:57079 original size:51 final size:51
Alignment explanation
Indices: 57014--57185 Score: 195
Period size: 51 Copynumber: 3.4 Consensus size: 51
57004 TTACCTCCGA
* * * * *
57014 GGGGATACTTCAACCCCGGCTTTATTTTC-AAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAATACTAATTT-TCACAATC
* *
57065 GGGGATACTCCAACCCCTGTTTTA-TTTCTAAAATACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAATACTAATTTT-CACAATC
* * * *
57116 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAATACTAA-TTTTCACAATC
*
57168 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
57186 TTATTTCCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
50 5 0.05
51 59 0.57
52 35 0.34
53 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAAATACTAATTTTCACAATC
Found at i:57180 original size:52 final size:51
Alignment explanation
Indices: 57052--57184 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 51
57042 CAAAATATTG
* * * * *
57052 ATTTCTCATAATCGGGGATACTCCAACCCCTGTTTTATTTCTAAAATACTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCTGTTTTATTTCAAAAACACCA
* *
57103 ATTTTCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAAACACCA
1 ATTTTTCACAATCGGGGATACTCCAACCCCTG-TTTTA-TTTCAAAAACACCA
*
57155 ATTTTTCACAATCGAGGATACTCCAACCCC
1 ATTTTTCACAATCGGGGATACTCCAACCCC
57185 GTTATTTCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 31 0.44
52 38 0.54
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCTGTTTTATTTCAAAAACACCA
Found at i:64571 original size:2 final size:2
Alignment explanation
Indices: 64564--64589 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64554 ATCAATTTTC
64564 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
64590 GATCCTTACT
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:66505 original size:18 final size:18
Alignment explanation
Indices: 66484--66526 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
66474 AAATATATAT
66484 ATATATATATATACACAC
1 ATATATATATATACACAC
66502 ATATATATATATACACAC
1 ATATATATATATACACAC
66520 ATATATA
1 ATATATA
66527 CACGTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATATATATATACACAC
Found at i:66526 original size:2 final size:2
Alignment explanation
Indices: 66470--66514 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
66460 TTGAGGACCA
* * * *
66470 AT AT AA AT AT AT AT AT AT AT AT AT AT AC AC AC 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
66512 AT A
1 AT A
66515 CACACATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:67347 original size:2 final size:2
Alignment explanation
Indices: 67335--67378 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
67325 ACTGTCTGTC
*
67335 AT AT CAT AT AT AT AT AT AT AT AT GT 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
67378 A
1 A
67379 CACACACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81129 original size:22 final size:22
Alignment explanation
Indices: 81055--81133 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
81045 CATATCACTA
* *
81055 TTTAAATAATAAAATAATATTTTT
1 TTTAAATATTAATATAA-A-TTTT
** *
81079 ATTTAAAT-TTAATTATAAAAATA
1 -TTTAAATATTAA-TATAAATTTT
*
81102 TATAAATATTAATATAAATTTT
1 TTTAAATATTAATATAAATTTT
81124 TTTAAATATT
1 TTTAAATATT
81134 TTAATACATA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
22 22 0.52
23 5 0.12
24 4 0.10
25 11 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAATATTAATATAAATTTT
Found at i:81595 original size:15 final size:15
Alignment explanation
Indices: 81575--81626 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
81565 CAATTTCTTC
*
81575 TTTTTTTCTAATTTA
1 TTTTTTACTAATTTA
**
81590 TTTTTTAAAAATTTA
1 TTTTTTACTAATTTA
* *
81605 ATTTTTAGTAATTTA
1 TTTTTTACTAATTTA
81620 TTATTTT
1 TT-TTTT
81627 CCTTTATTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTTACTAATTTA
Found at i:83256 original size:21 final size:21
Alignment explanation
Indices: 83230--83269 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
83220 GTATTTAGAG
83230 TCTTCTTTACTAATGAAAGGC
1 TCTTCTTTACTAATGAAAGGC
*
83251 TCTTCTTTCCTAATGAAAG
1 TCTTCTTTACTAATGAAAG
83270 CCTCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (21 bp):
TCTTCTTTACTAATGAAAGGC
Found at i:83514 original size:22 final size:22
Alignment explanation
Indices: 83449--83514 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
83439 TATGAAATAA
83449 AATAATTATATA-ATACATATT
1 AATAATTATATACATACATATT
*
83470 AA-ATATTATATTACATATA-ATT
1 AATA-ATTATA-TACATACATATT
* *
83492 AATAATTATATACAAAGATATT
1 AATAATTATATACATACATATT
83514 A
1 A
83515 TACAGGTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 17 0.46
23 5 0.14
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAATTATATACATACATATT
Found at i:83605 original size:13 final size:14
Alignment explanation
Indices: 83587--83660 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 14
83577 TTAATTTTTG
83587 TTTAAATTT-AATT
1 TTTAAATTTAAATT
83600 TTTAAATTTAAATT
1 TTTAAATTTAAATT
*
83614 TTT-TATTTAAAATTT
1 TTTAAATTT-AAA-TT
83629 TTTAAAATATTAAATAACT
1 TTT-AAAT-TTAAAT---T
83648 TTTAAATTTAAAT
1 TTTAAATTTAAAT
83661 AAATAATGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
13 13 0.26
14 10 0.20
15 5 0.10
16 1 0.02
17 11 0.22
18 6 0.12
19 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAAATTTAAATT
Found at i:83624 original size:19 final size:19
Alignment explanation
Indices: 83566--83614 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
83556 AACCTGTTTA
*
83566 AAATATAAATTTTAATTTTT
1 AAATTTAAA-TTTAATTTTT
*
83586 --GTTTAAATTTAATTTTT
1 AAATTTAAATTTAATTTTT
83603 AAATTTAAATTT
1 AAATTTAAATTT
83615 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
19 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAATTTAAATTTAATTTTT
Found at i:83658 original size:17 final size:19
Alignment explanation
Indices: 83628--83662 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
83618 ATTTAAAATT
83628 TTTTAAAATATTAAATAAC
1 TTTTAAAATATTAAATAAC
83647 TTTT-AAAT-TTAAATAA
1 TTTTAAAATATTAAATAA
83663 ATAATGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTAAAATATTAAATAAC
Found at i:83892 original size:3 final size:3
Alignment explanation
Indices: 83884--83924 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
83874 TACTTTATTG
83884 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83925 TAAAATGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:84066 original size:3 final size:3
Alignment explanation
Indices: 84058--84096 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
84048 GTAGTGTATA
84058 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84097 CAGAATTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:85928 original size:2 final size:2
Alignment explanation
Indices: 85921--85947 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85911 GCCGAGTTAT
85921 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
85948 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:85952 original size:2 final size:2
Alignment explanation
Indices: 85947--85979 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
85937 ACACACACAC
85947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85980 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85984 original size:2 final size:2
Alignment explanation
Indices: 85979--86012 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
85969 ATATATATAT
85979 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
86013 TTCTAAATAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:87837 original size:2 final size:2
Alignment explanation
Indices: 87832--87866 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
87822 TATATATATA
87832 TG TG TG TG 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 TG TG TG TG T
87867 ATTTTTAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:91019 original size:2 final size:2
Alignment explanation
Indices: 91014--91044 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91004 GAGACAGAAC
91014 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 A
91045 ATAGGCTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95139 original size:6 final size:6
Alignment explanation
Indices: 95128--95155 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95118 TCAAAATGGG
95128 TGACTC TGACTC TGACTC TGACTC TGAC
1 TGACTC TGACTC TGACTC TGACTC TGAC
95156 CTTACTGCGA
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:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (6 bp):
TGACTC
Found at i:98682 original size:13 final size:13
Alignment explanation
Indices: 98664--98689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98654 AACTCTACAG
98664 ATCAGAAAATAAA
1 ATCAGAAAATAAA
98677 ATCAGAAAATAAA
1 ATCAGAAAATAAA
98690 TTAATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
ATCAGAAAATAAA
Found at i:103511 original size:12 final size:13
Alignment explanation
Indices: 103483--103512 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
103473 AACTCTATCG
103483 ATCAAGAAATAAA
1 ATCAAGAAATAAA
103496 ATCAAGAAAT-AA
1 ATCAAGAAATAAA
103508 ATCAA
1 ATCAA
103513 TAATTGACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (13 bp):
ATCAAGAAATAAA
Found at i:104957 original size:14 final size:14
Alignment explanation
Indices: 104955--105010 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
104945 TATTTAATAA
104955 AATAAAAATATATTT
1 AATA-AAATATATTT
104970 AATAAAATATA-TT
1 AATAAAATATATTT
104983 --TAAAATATATTT
1 AATAAAATATATTT
104995 AATAAAATATATTT
1 AATAAAATATATTT
105009 AA
1 AA
105011 AACTAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.24
12 2 0.05
13 2 0.05
14 21 0.55
15 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAAATATATTT
Found at i:104964 original size:20 final size:21
Alignment explanation
Indices: 104938--105005 Score: 93
Period size: 20 Copynumber: 3.1 Consensus size: 21
104928 AATTAATATT
104938 TAAAATATATTTAATAAAATA
1 TAAAATATATTTAATAAAATA
104959 -AAAATATATTTAATAAAATATA
1 TAAAATATATTTAAT-AAA-ATA
104981 TTTAAAATATATTTAATAAAATA
1 --TAAAATATATTTAATAAAATA
105004 TA
1 TA
105006 TTTAAAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
20 14 0.33
21 5 0.12
22 3 0.07
23 3 0.07
24 3 0.07
25 14 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATATTTAATAAAATA
Found at i:105004 original size:25 final size:25
Alignment explanation
Indices: 104933--105012 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
104923 AACCGAATTA
104933 ATATTTAAAATATATTTAAT-AAA-
1 ATATTTAAAATATATTTAATAAAAT
104956 ATA---AAAATATATTTAATAAAAT
1 ATATTTAAAATATATTTAATAAAAT
104978 ATATTTAAAATATATTTAATAAAAT
1 ATATTTAAAATATATTTAATAAAAT
105003 ATATTTAAAA
1 ATATTTAAAA
105013 CTAAAAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
20 14 0.27
21 3 0.06
22 3 0.06
23 3 0.06
25 29 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATTTAAAATATATTTAATAAAAT
Found at i:105022 original size:45 final size:45
Alignment explanation
Indices: 104933--105022 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
104923 AACCGAATTA
* ** *
104933 ATATTTAAAATATATTTAATAAAATAAAAATATATTTAATAAAAT
1 ATATTTAAAATATATTTAATAAAATAAAAATAAAACTAAAAAAAT
* **
104978 ATATTTAAAATATATTTAATAAAATATATTTAAAACTAAAAAAAT
1 ATATTTAAAATATATTTAATAAAATAAAAATAAAACTAAAAAAAT
105023 GATCGAACTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (45 bp):
ATATTTAAAATATATTTAATAAAATAAAAATAAAACTAAAAAAAT
Found at i:113403 original size:22 final size:23
Alignment explanation
Indices: 113356--113403 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
113346 GAAAACGCTA
* **
113356 AAATTTTGGATGCTTTCATGTTG
1 AAATTTTAGATGCTTTCATGAAG
113379 AAATTTTAG-TGCTTTCATGAAG
1 AAATTTTAGATGCTTTCATGAAG
113401 AAA
1 AAA
113404 ACCCTTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (23 bp):
AAATTTTAGATGCTTTCATGAAG
Found at i:118689 original size:2 final size:2
Alignment explanation
Indices: 118678--118714 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
118668 CTGCACGTGC
118678 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118715 CACACGCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:133328 original size:2 final size:2
Alignment explanation
Indices: 133317--133351 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
133307 TAAATACTGC
*
133317 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
133352 ACTTCGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:134756 original size:2 final size:2
Alignment explanation
Indices: 134749--134783 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
134739 AAATTCATCA
134749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134784 CACACTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:136320 original size:18 final size:18
Alignment explanation
Indices: 136278--136320 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
136268 GATTAAAAGT
136278 GATTT-AAAATATAATAA
1 GATTTAAAAATATAATAA
* * *
136295 GGTATAAAAATATAATAC
1 GATTTAAAAATATAATAA
136313 GATTTAAA
1 GATTTAAA
136321 TATAAAAATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (18 bp):
GATTTAAAAATATAATAA
Found at i:136374 original size:28 final size:29
Alignment explanation
Indices: 136317--136390 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
136307 TAATACGATT
*
136317 TAAATATAAAA-ATATTTTAAAATTTATA
1 TAAATATAAAATATATTTTAAAATATATA
136345 TAAATATAAAATAT-TTTTAAAATA-ATTA
1 TAAATATAAAATATATTTTAAAATATA-TA
136373 TAATATAATAAAATATAT
1 TAA-AT-ATAAAATATAT
136391 AAATGATCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 1 0.03
28 25 0.62
29 4 0.10
30 9 0.22
31 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAATATAAAATATATTTTAAAATATATA
Found at i:136601 original size:2 final size:2
Alignment explanation
Indices: 136596--136636 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
136586 ATATATATAT
136596 AG 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 AG A
136637 TTTATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:139698 original size:48 final size:48
Alignment explanation
Indices: 139635--139780 Score: 292
Period size: 48 Copynumber: 3.0 Consensus size: 48
139625 ATGCAACGGA
139635 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
1 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
139683 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
1 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
139731 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
1 AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
139779 AG
1 AG
139781 CAAAAGTGGA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (48 bp):
AGTTGAAAAGAGACCTCATTCATTACAATGACAAATTAAGATGCAAAT
Found at i:147945 original size:3 final size:3
Alignment explanation
Indices: 147937--147961 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
147927 ATATGAAAAT
147937 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
147962 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:148043 original size:14 final size:14
Alignment explanation
Indices: 148024--148184 Score: 85
Period size: 14 Copynumber: 11.1 Consensus size: 14
148014 GCATGCATAT
*
148024 TTTCATGCATTACA
1 TTTCATGCATTGCA
148038 TTTCATGCA-TGCA
1 TTTCATGCATTGCA
* * *
148051 TTGCACGTAATTTGCA
1 TTTCATG-CA-TTGCA
*
148067 TTTCATGCATTACA
1 TTTCATGCATTGCA
*
148081 TTTTATGCA-TGCA
1 TTTCATGCATTGCA
* * * *
148094 TTTTACGTAATGTTCA
1 TTTCATG-CAT-TGCA
148110 TTTCATGCATTGCA
1 TTTCATGCATTGCA
*
148124 TACATTACATTTCA-TGCA
1 T---TT-CA-TGCATTGCA
* * *
148142 TTGCATACATTACA
1 TTTCATGCATTGCA
*
148156 TTTCATGCATTTCA
1 TTTCATGCATTGCA
148170 TTTCATGCATTGCA
1 TTTCATGCATTGCA
148184 T
1 T
148185 ACATTACATT
Statistics
Matches: 110, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
13 20 0.18
14 57 0.52
15 4 0.04
16 17 0.15
17 2 0.02
18 7 0.06
19 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTCATGCATTGCA
Found at i:148072 original size:43 final size:42
Alignment explanation
Indices: 148024--148184 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
148014 GCATGCATAT
148024 TTTCATGCATTACATTTCATGCATGCATTGCACGTAATTTGCA
1 TTTCATGCATTACATTTCATGCATGCATTGCACGTAATTT-CA
* **
148067 TTTCATGCATTACATTTTATGCATGCATTTTACGTAATGTTCA
1 TTTCATGCATTACATTTCATGCATGCATTGCACGTAAT-TTCA
* * *
148110 TTTCATGCATTGCATACATTACATTTCATGCATTGCA--TACATTACA
1 TTTCATGCA-T---TACATTTCA-TGCATGCATTGCACGTA-ATTTCA
*
148156 TTTCATGCATTTCATTTCATGCATTGCAT
1 TTTCATGCATTACATTTCATGCA-TGCAT
148185 ACATTACATT
Statistics
Matches: 98, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
41 3 0.03
42 12 0.12
43 46 0.47
44 3 0.03
45 1 0.01
46 14 0.14
47 9 0.09
48 10 0.10
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (42 bp):
TTTCATGCATTACATTTCATGCATGCATTGCACGTAATTTCA
Found at i:148172 original size:37 final size:37
Alignment explanation
Indices: 148117--148202 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
148107 TCATTTCATG
* *
148117 CATTGCATACATTACATTTCATGCATTGCATACATTA
1 CATTTCATGCATTACATTTCATGCATTGCATACATTA
*
148154 CATTTCATGCATTTCATTTCATGCATTGCATACATTA
1 CATTTCATGCATTACATTTCATGCATTGCATACATTA
148191 CATTTCATGCAT
1 CATTTCATGCAT
148203 GTTTCACGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (37 bp):
CATTTCATGCATTACATTTCATGCATTGCATACATTA
Found at i:148180 original size:23 final size:23
Alignment explanation
Indices: 148108--148166 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
148098 ACGTAATGTT
148108 CATTTCATGCATTGCATACATTA
1 CATTTCATGCATTGCATACATTA
148131 CATTTCATGCATTGCATACATTA
1 CATTTCATGCATTGCATACATTA
148154 CATTTCATGCATT
1 CATTTCATGCATT
148167 TCATTTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (23 bp):
CATTTCATGCATTGCATACATTA
Found at i:148189 original size:23 final size:23
Alignment explanation
Indices: 148154--148202 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
148144 GCATACATTA
* * *
148154 CATTTCATGCATTTCATTTCATG
1 CATTGCATACATTACATTTCATG
148177 CATTGCATACATTACATTTCATG
1 CATTGCATACATTACATTTCATG
148200 CAT
1 CAT
148203 GTTTCACGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (23 bp):
CATTGCATACATTACATTTCATG
Found at i:148924 original size:33 final size:34
Alignment explanation
Indices: 148887--148957 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
148877 ACAGCAACGA
**
148887 AACAGCAGTAGAAAACAAG-CAAGCAACGGCAAC
1 AACAGCACAAGAAAACAAGCCAAGCAACGGCAAC
*
148920 AACAGCACAAGCAAACAAGCCACAAGCAACGGCAAC
1 AACAGCACAAGAAAACAAG-C-CAAGCAACGGCAAC
148956 AA
1 AA
148958 AACTAGCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 16 0.50
36 16 0.50
ACGTcount: A:0.52, C:0.28, G:0.18, T:0.01
Consensus pattern (34 bp):
AACAGCACAAGAAAACAAGCCAAGCAACGGCAAC
Found at i:162548 original size:42 final size:41
Alignment explanation
Indices: 162497--163242 Score: 476
Period size: 42 Copynumber: 17.8 Consensus size: 41
162487 TCCTACCTTC
*
162497 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATTTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTT-A
* * * *
162539 AGTTTGCCTGTCGGCTTTGACCTTGGAGACTTTCCT-ACCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCA-CTTA
* * *
162581 AGTCTGCCTGTCGGCTTTGATCTTGGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* ** * * * * *
162623 AGTCTGCTTGTCAACTTTGACCTTGGAGACTTTCTTACCCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCT-CACTTA
* * * * *
162666 AGTCTGCTTGTCAGCTTTAACCCTAGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * * *
162708 AGTCTGCCTGTCGACTTTGACCATGGAGACTTTCCT-ACCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCA-CTTA
* * * ** *
162750 AGTCTGCTTGTCGACTTTGACCTTGGAGACTTTCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * * *
162792 AGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCCT-ACCCTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCA-CTTA
* * * * *
162834 AGTCTGCTTGTCGGCTTAGACTCTCGAGACTGCCTCACCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * ** *
162876 AGTCTGCCTGTCGGTTTTGACCCTGGAGACTGTCTTTTCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTG-CCTCACTTA
* * * * *
162918 AGTCAGCCTATCGGCTTTGACCCTAGAGACTGTCTCATCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * * * * * *
162960 AGTCTGCTTATTGGCTTTGACCTTAGAGACTTTCCT-ACCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCA-CTTA
* * *
163002 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * * *** * *
163044 AGTCTGCCTATCGGCTTTGACCCTAGAAACTTTTTTACCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* * * *
163086 AGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* ** * * *
163128 AGTCTGCCTGTCAGCTTTGACCCTAAAAACTTTCCT-ACTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCAC-TTA
* * * * * *
163170 AGTTTGCTTGTCAGCTTTGATCTTGGAGACTGTCTCACCTTA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTA
* *
163212 AGTCTGCCTGTCGGCTTTGACCTTGCAGACT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT
163243 TTTTCACCTT
Statistics
Matches: 553, Mismatches: 133, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
41 22 0.04
42 475 0.86
43 55 0.10
44 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (41 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTA
Found at i:162582 original size:84 final size:84
Alignment explanation
Indices: 162485--163244 Score: 854
Period size: 84 Copynumber: 9.0 Consensus size: 84
162475 CAATATGAAT
* * *
162485 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATTTAAAGTTTGCCTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
*
162550 CGGCTTTGACCTTGGAGAC
66 CGGCTTTGACCCTGGAGAC
* * * *
162569 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGATCTTGGAGACTGCCTCATCTAAAGTCTGCTTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
** *
162634 CAACTTTGACCTTGGAGAC
66 CGGCTTTGACCCTGGAGAC
* * * *
162653 TTTCTTACCCTTCAGTCTGCTTGTCAGCTTTAACCCTAGAGACTGCCTCATCTAAAGTCTGCCTG
1 TTTCCTA-CCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTG
* *
162718 TCGACTTTGACCATGGAGAC
65 TCGGCTTTGACCCTGGAGAC
* * * * ** *
162738 TTTCCTACCTTCAGTCTGCTTGTCGACTTTGACCTTGGAGACTTTCTCATCTAAAGTCTACCTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
162803 CGGCTTTGACCCTGGAGAC
66 CGGCTTTGACCCTGGAGAC
* * * * * * *
162822 TTTCCTACCCTCAGTCTGCTTGTCGGCTTAGACTCTCGAGACTGCCTCACCTCAAGTCTGCCTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
*
162887 CGGTTTTGACCCTGGAGAC
66 CGGCTTTGACCCTGGAGAC
* * ** ** * * * * * *
162906 TGTCTTTTCTAAAGTCAGCCTATCGGCTTTGACCCTAGAGACTGTCTCATCTCAAGTCTGCTTAT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
* * *
162971 TGGCTTTGACCTTAGAGAC
66 CGGCTTTGACCCTGGAGAC
* * *
162990 TTTCCTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTAAAGTCTGCCTAT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
* *
163055 CGGCTTTGACCCTAGAAAC
66 CGGCTTTGACCCTGGAGAC
** * * *
163074 TTTTTTACCTTCAGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAAAGTCTGCCTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
* ** *
163139 CAGCTTTGACCCTAAAAAC
66 CGGCTTTGACCCTGGAGAC
* * * * * * * * * *
163158 TTTCCTACTTTCAGTTTGCTTGTCAGCTTTGATCTTGGAGACTGTCTCACCTTAAGTCTGCCTGT
1 TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
* *
163223 CGGCTTTGACCTTGCAGAC
66 CGGCTTTGACCCTGGAGAC
163242 TTT
1 TTT
163245 TTCACCTTTT
Statistics
Matches: 574, Mismatches: 101, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
84 500 0.87
85 74 0.13
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.34
Consensus pattern (84 bp):
TTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGT
CGGCTTTGACCCTGGAGAC
Found at i:163152 original size:126 final size:126
Alignment explanation
Indices: 162497--163151 Score: 596
Period size: 126 Copynumber: 5.2 Consensus size: 126
162487 TCCTACCTTC
* * * *
162497 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATTTAAAGTTTGCCTGTCGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCC
* * * * * * *
162562 TGGAGACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGATCTTGGAGACTGCCTCATCTAA
66 TAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
* ** * * * * ** * * *
162623 AGTCTGCTTGTCAACTTTGACCTTGGAGACTTTCTTACCCTTCAGTCTGCTTGTCAGCTTTAACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCA-TCTAAAGTCTGCCTGTCGGCTTTGACC
** * * ** * * * * **
162688 CTAGAGACTGCCTCATCTAAAGTCTGCCTGTCGACTTTGACCATGGAGACTTTCC-TACCTTC
65 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TGCCTTACCTAA
* * * * *
162750 AGTCTGCTTGTCGACTTTGACCTTGGAGACTTTCTCATCTAAAGTCTACCTGTCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCC
* * * * * * * * *
162815 TGGAGACTTTCCTACCCTCAGTCTGCTTGTCGGCTTAGACTCTCGAGACTGCCTCACCTCA
66 TAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
* ** * *
162876 AGTCTGCCTGTCGGTTTTGACCCTGGAGACTGTCTTTTCTAAAGTCAGCCTATCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCC
* * * * * * * * **
162941 TAGAGACTGTCTCATC-TCAAGTCTGCTTATTGGCTTTGACCTTAGAGACTTTCC-TACCTTC
66 TAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TGCCTTACCTAA
* * * * *
163002 AGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTCACCTAAAGTCTGCCTATCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCC
* * *
163067 TAGAAACTTTTTTACCTTCAGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
66 TAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
*
163128 AGTCTGCCTGTCAGCTTTGACCCT
1 AGTCTGCCTGTCGGCTTTGACCCT
163152 AAAAACTTTC
Statistics
Matches: 414, Mismatches: 108, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
125 8 0.02
126 303 0.73
127 100 0.24
128 3 0.01
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.34
Consensus pattern (126 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCC
TAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTACCTAA
Found at i:163886 original size:14 final size:14
Alignment explanation
Indices: 163867--163961 Score: 68
Period size: 14 Copynumber: 6.7 Consensus size: 14
163857 GCATGCGTAT
163867 TTTCATGCATTACA
1 TTTCATGCATTACA
*
163881 TTTCATGCA-TGCA
1 TTTCATGCATTACA
* * *
163894 TTTCACGTAATTTGCA
1 TTTCATG-CA-TTACA
163910 TTTCATGCATTACA
1 TTTCATGCATTACA
* *
163924 TTTCATTTCA-TGCA
1 TTTCA-TGCATTACA
* *
163938 TTGCTTGCATTACA
1 TTTCATGCATTACA
*
163952 TTTCACGCAT
1 TTTCATGCAT
163962 GTTTCACGCC
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
13 12 0.20
14 35 0.57
15 4 0.07
16 10 0.16
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTCATGCATTACA
Found at i:164145 original size:25 final size:26
Alignment explanation
Indices: 164109--164170 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
164099 AGTTGAAATA
*
164109 ATGCAATTAAGAAGCAATTAAGCTG-
1 ATGCAATGAAGAAGCAATTAAGCTGC
*
164134 ATGCAATGAAGAAGCAATTAAGTTGC
1 ATGCAATGAAGAAGCAATTAAGCTGC
164160 A-GCAATGAAGA
1 ATGCAATGAAGA
164171 CACCGATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (26 bp):
ATGCAATGAAGAAGCAATTAAGCTGC
Found at i:164681 original size:21 final size:21
Alignment explanation
Indices: 164657--164704 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
164647 AAATAGCACA
164657 AGCAAACA-AGCAAGCAACGGC
1 AGCAAACAGA-CAAGCAACGGC
164678 AGC-AACAGCACAAGCAACGGC
1 AGCAAACAG-ACAAGCAACGGC
*
164699 AACAAA
1 AGCAAA
164705 AACAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.50, C:0.29, G:0.21, T:0.00
Consensus pattern (21 bp):
AGCAAACAGACAAGCAACGGC
Found at i:165943 original size:180 final size:179
Alignment explanation
Indices: 165646--166162 Score: 734
Period size: 180 Copynumber: 2.9 Consensus size: 179
165636 CACTCGAGTC
* *
165646 ATGTTTTCATATTCCTATGG-TTTTCTGTAGGAGTATGAAAA-TTTTTAACACCTTTCGTATCCC
1 ATGTTTTCATATCCCTATGGTTTTTC-GTAGGGGTATGAAAATTTTTTAACACCTTTCGTATCCC
* *
165709 CTGGTTTTTCCGTCGGGTACGAAACATAATTTTCGAAATTAGAAGTTAAATTTAAAAATTTAGAA
65 CTGGTTTTT-CGTCGGGTACGAAACATAATTTTCAAAATTAGAAATTAAATTTAAAAATTTAGAA
*
165774 AAATTTGATTTTCCTAAATTAATATTTTAAAAAAAGAATATGAGGTCGTTT
129 AAATTCGATTTTCCTAAATTAATATTTTAAAAAAAGAATATGAGGTCGTTT
* *
165825 ATGTTTTCATATCCCTATGGTTTTTCATAGGGGTATGAAAATTTTTTTAACACCTTTCGCATCCC
1 ATGTTTTCATATCCCTATGGTTTTTCGTAGGGGTATGAAAA-TTTTTTAACACCTTTCGTATCCC
* * *
165890 CTGGTTTTTCGTCGGGTACAAAATATAATTTTCAAAATTAGAAATTAAATTTAAGAATTTAGAAA
65 CTGGTTTTTCGTCGGGTACGAAACATAATTTTCAAAATTAGAAATTAAATTTAAAAATTTAGAAA
* * *
165955 GATTCGGTTTTCCTAAATTAATATTTTTAAAAAAGAATATGAGGTCGTTT
130 AATTCGATTTTCCTAAATTAATATTTTAAAAAAAGAATATGAGGTCGTTT
* * * * *
166005 ATGTTTTCATATCCCTATAGTTTTCCGTAGAGGTATGAAAATTTTTTAACACCTTTTGTATCCTC
1 ATGTTTTCATATCCCTATGGTTTTTCGTAGGGGTATGAAAATTTTTTAACACCTTTCGTATCCCC
* * * **
166070 TGGTTTTCCGTAGGATACGAAACATAATTTTCGAACTTTA-AAAGTTAAATTTAAAAATTTAGAA
66 TGGTTTTTCGTCGGGTACGAAACATAATTTTC-AAAATTAGAAA-TTAAATTTAAAAATTTAGAA
* *
166134 AAATTCAATTTTCTTAAAATTAATATTTT
129 AAATTCGATTTTCCT-AAATTAATATTTT
166163 TTAAAAAATG
Statistics
Matches: 300, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
179 83 0.28
180 174 0.58
181 43 0.14
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (179 bp):
ATGTTTTCATATCCCTATGGTTTTTCGTAGGGGTATGAAAATTTTTTAACACCTTTCGTATCCCC
TGGTTTTTCGTCGGGTACGAAACATAATTTTCAAAATTAGAAATTAAATTTAAAAATTTAGAAAA
ATTCGATTTTCCTAAATTAATATTTTAAAAAAAGAATATGAGGTCGTTT
Found at i:173765 original size:264 final size:264
Alignment explanation
Indices: 173295--173825 Score: 1044
Period size: 264 Copynumber: 2.0 Consensus size: 264
173285 AGTAACCCCC
173295 CTGTTTTTGAATGCTTCACAAATAAGGTGTGATCTCTTTGACTTTGTTTGTATCCATTAGCTAGC
1 CTGTTTTTGAATGCTTCACAAATAAGGTGTGATCTCTTTGACTTTGTTTGTATCCATTAGCTAGC
173360 ATTACTTTTGCAAATCTACCAAACCAGGCCCTTGGTGACTGTTTAAGGCCATATAGTGCTTTTTG
66 ATTACTTTTGCAAATCTACCAAACCAGGCCCTTGGTGACTGTTTAAGGCCATATAGTGCTTTTTG
*
173425 TAGTTTACATACCTTCCCCTTCTCTATGTTGTTTCCAAACCCCGGTGGAATATCCATATAAACCT
131 TAGTTTACATACCTTCCCCTTCTCTATGTTGTTTCCAAACCCCGATGGAATATCCATATAAACCT
173490 CTTCCTCTAAGTTTCCATGAAGAAATGCATTCTTAACATCGAATTGTTGTAGATCCCAATTTAGA
196 CTTCCTCTAAGTTTCCATGAAGAAATGCATTCTTAACATCGAATTGTTGTAGATCCCAATTTAGA
173555 TTAT
261 TTAT
173559 CTGTTTTTGAATGCTTCACAAATAAGGTGTGATCTCTTTGACTTTGTTTGTATCCATTAGCTAGC
1 CTGTTTTTGAATGCTTCACAAATAAGGTGTGATCTCTTTGACTTTGTTTGTATCCATTAGCTAGC
173624 ATTACTTTTGCAAATCTACCAAACCAGGCCCTTGGTGACTGTTTAAGGCCATATAGTGCTTTTTG
66 ATTACTTTTGCAAATCTACCAAACCAGGCCCTTGGTGACTGTTTAAGGCCATATAGTGCTTTTTG
173689 TAGTTTACATACCTTCCCCTTCTCTATGTTGTTTCCAAACCCCGATGGAATATCCATATAAACCT
131 TAGTTTACATACCTTCCCCTTCTCTATGTTGTTTCCAAACCCCGATGGAATATCCATATAAACCT
*
173754 CTTCCTCTAAGTTTCCATGAAGAAATGCATTCTTAACCTCGAATTGTTGTAGATCCCAATTTAGA
196 CTTCCTCTAAGTTTCCATGAAGAAATGCATTCTTAACATCGAATTGTTGTAGATCCCAATTTAGA
173819 TTAT
261 TTAT
173823 CTG
1 CTG
173826 CTATCGACAA
Statistics
Matches: 265, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 265 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (264 bp):
CTGTTTTTGAATGCTTCACAAATAAGGTGTGATCTCTTTGACTTTGTTTGTATCCATTAGCTAGC
ATTACTTTTGCAAATCTACCAAACCAGGCCCTTGGTGACTGTTTAAGGCCATATAGTGCTTTTTG
TAGTTTACATACCTTCCCCTTCTCTATGTTGTTTCCAAACCCCGATGGAATATCCATATAAACCT
CTTCCTCTAAGTTTCCATGAAGAAATGCATTCTTAACATCGAATTGTTGTAGATCCCAATTTAGA
TTAT
Found at i:174452 original size:33 final size:33
Alignment explanation
Indices: 174412--174487 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
174402 GTATCAGCAA
*
174412 CAAGTTGGGATTGAGGTTGAGTGGGTTGTATTT
1 CAAGTTGGGATTGAGGTTGAGTGGGCTGTATTT
*
174445 CAGGTTGGGATTGAGGTTGAGTGGGCTGTATTT
1 CAAGTTGGGATTGAGGTTGAGTGGGCTGTATTT
174478 CAAGTTGGGA
1 CAAGTTGGGA
174488 CTGTTCTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.36
Consensus pattern (33 bp):
CAAGTTGGGATTGAGGTTGAGTGGGCTGTATTT
Found at i:182347 original size:2 final size:2
Alignment explanation
Indices: 182340--182390 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
182330 AAACGTCTTC
*
182340 AT AT AT 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
*
182382 AT AC AT AT A
1 AT AT AT AT A
182391 AAATGATAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:188337 original size:3 final size:3
Alignment explanation
Indices: 188329--188369 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
188319 GTGAGTAGCC
188329 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
188370 AGATTTTAGG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:188465 original size:12 final size:11
Alignment explanation
Indices: 188444--188477 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
188434 TAATAAATTA
188444 TTATTTATATT
1 TTATTTATATT
188455 TTATATTATATT
1 TTAT-TTATATT
*
188467 TTATTCATATT
1 TTATTTATATT
188478 CGTATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTATATT
Found at i:195917 original size:3 final size:3
Alignment explanation
Indices: 195909--195933 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
195899 AAGTCTAACT
195909 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
195934 ACAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:199360 original size:5 final size:5
Alignment explanation
Indices: 199350--199375 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
199340 CCTACTATGC
199350 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
199376 ACTTTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:202416 original size:22 final size:22
Alignment explanation
Indices: 202391--202444 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
202381 ATATAAGATA
*
202391 AAATAATAAT-TTATCCAAAAGT
1 AAATAAT-ATCTTATCAAAAAGT
* *
202413 AAATTATATCTTATTAAAAAGT
1 AAATAATATCTTATCAAAAAGT
*
202435 AAATTATATC
1 AAATAATATC
202445 ATGAGCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATAATATCTTATCAAAAAGT
Found at i:203081 original size:50 final size:50
Alignment explanation
Indices: 203002--203236 Score: 380
Period size: 50 Copynumber: 4.7 Consensus size: 50
202992 CCACCAAAAC
* *
203002 TAATTGTTGACTATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGATCG
* * *
203052 TAATTGTTGACTATTCTTCATCAAACTTTGACAATCGAGAGAGGTGATCA
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGATCG
* * *
203102 TAATTGTTGACTATTTTTCACCAACTTTTGACAATCGAGAGAGGTGGTCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGATCG
* *
203152 TAATTATTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGATCG
203202 TAATTGTTGACTATTCTTCACCAACCTTTGACAAT
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAAT
203237 AAATAAAGGT
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 170 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGATCG
Found at i:203256 original size:100 final size:99
Alignment explanation
Indices: 203002--203263 Score: 371
Period size: 100 Copynumber: 2.6 Consensus size: 99
202992 CCACCAAAAC
*
203002 TAATTGTTGACTATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCGTAATTGTTGACTATT
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTG-CCGTAATTGTTGACTATT
*
203067 CTTCATCAAACTTTGACAATCGAGAGAGGTGATCA
65 CTTCACCAAACTTTGACAATCGAGAGAGGTGATCA
* * * * *
203102 TAATTGTTGACTATTTTTCACCAACTTTTGACAATCGAGAGAGGTGGTCGTAATTATTGACTATT
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGT-GCCGTAATTGTTGACTATT
* * *
203167 CTTCACCAACCTTTGACAATCGAGAGAGGTGGTCG
65 CTTCACCAAACTTTGACAATCGAGAGAGGTGATCA
* * * *
203202 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAAATAAAGGTAGCCATAATTGTTGACT
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGT-GCCGTAATTGTTGACT
203264 CTAAGTAACT
Statistics
Matches: 142, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 141 0.99
101 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (99 bp):
TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGCCGTAATTGTTGACTATTC
TTCACCAAACTTTGACAATCGAGAGAGGTGATCA
Found at i:207762 original size:50 final size:50
Alignment explanation
Indices: 207678--207989 Score: 446
Period size: 50 Copynumber: 6.2 Consensus size: 50
207668 CCACCAAAAC
* * * *
207678 TAATTATTGACTATTCTTCACCAACTTTTAACAATCGAGAGAGGTGACCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
* * *
207728 TAATTGTTGACTATTCTTCATCAACCTTGGACAATCGAGAGAGGT-GCTTG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGC-CG
* * *
207778 TAATTGTTGACTATTCTTTACCAATCTTTGACAATCGAGAGAGGTGACCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
* *
207828 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCA
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
* * *
207878 TAATTGTTAACTATTCTTCACCAACTTTTGACAATCGAGACAGGTGGCCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
* * *
207928 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGATAGAAGTGGCCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
207978 TAATTGTTGACT
1 TAATTGTTGACT
207990 CTAAGCAACT
Statistics
Matches: 231, Mismatches: 29, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
49 1 0.00
50 229 0.99
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (50 bp):
TAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCG
Found at i:208910 original size:16 final size:16
Alignment explanation
Indices: 208891--208943 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
208881 TAGAAAAAAA
208891 TTAAACCAAAATAAAT
1 TTAAACCAAAATAAAT
*
208907 TTAAACCCAAATAAAT
1 TTAAACCAAAATAAAT
208923 TTAAACCTAAAA-AAAT
1 TTAAACC-AAAATAAAT
*
208939 ATAAA
1 TTAAA
208944 TTTAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 30 0.91
17 3 0.09
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAACCAAAATAAAT
Found at i:208967 original size:16 final size:16
Alignment explanation
Indices: 208915--208968 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
208905 ATTTAAACCC
**
208915 AAATAAATTTAAACCTA
1 AAAT-AATTTAAATATA
* * *
208932 AAAAAATATAAATTTA
1 AAATAATTTAAATATA
208948 AAATAATTTAAATATA
1 AAATAATTTAAATATA
208964 AAATA
1 AAATA
208969 CTTCGATCTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAATTTAAATATA
Found at i:209043 original size:2 final size:2
Alignment explanation
Indices: 209036--209069 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
209026 TTTAAGGTCC
209036 CT 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 CT
209070 AAATATCTGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:209906 original size:2 final size:2
Alignment explanation
Indices: 209899--209924 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
209889 GATGCTTGGA
209899 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
209925 TGCACTTGTT
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:209966 original size:2 final size:2
Alignment explanation
Indices: 209951--209985 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
209941 TAGTTTCTAC
* *
209951 CA CA CA CG CG CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
209986 TCGGTTTGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.51, G:0.06, T:0.00
Consensus pattern (2 bp):
CA
Found at i:210828 original size:2 final size:2
Alignment explanation
Indices: 210821--210846 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
210811 CTCCCATCTG
210821 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
210847 TTTCCATAAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:214336 original size:31 final size:31
Alignment explanation
Indices: 214301--214364 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
214291 CGAAAAGGTA
214301 CTTAAATGCACTTCTTTTTCCTCTCAGTTTC
1 CTTAAATGCACTTCTTTTTCCTCTCAGTTTC
214332 CTTAAATGCACTTCTTTTTCCTCTCAGTTTC
1 CTTAAATGCACTTCTTTTTCCTCTCAGTTTC
214363 CT
1 CT
214365 CCTCGCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.30, G:0.06, T:0.48
Consensus pattern (31 bp):
CTTAAATGCACTTCTTTTTCCTCTCAGTTTC
Found at i:215984 original size:6 final size:6
Alignment explanation
Indices: 215968--216014 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
215958 ACTGAGGCTG
* * * *
215968 GGGATT TGGATT GGGATT GGGATT GGGATA GGGATA GGGATA GGGAT
1 GGGATT GGGATT GGGATT GGGATT GGGATT GGGATT GGGATT GGGAT
216015 CGGTATCAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.23, C:0.00, G:0.49, T:0.28
Consensus pattern (6 bp):
GGGATT
Found at i:216376 original size:6 final size:6
Alignment explanation
Indices: 216365--216393 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
216355 ATAATAGAAT
216365 TAGGAA TAGGAA TAGGAA TAGGAA TAGGA
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGA
216394 CTGGCGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.34, T:0.17
Consensus pattern (6 bp):
TAGGAA
Found at i:216784 original size:3 final size:3
Alignment explanation
Indices: 216778--216814 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
216768 TTCTTTTTTG
216778 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
216815 CTCATTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:216793 original size:17 final size:17
Alignment explanation
Indices: 216773--216814 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
216763 TTTTTTTCTT
*
216773 TTTTGTTATTATTATTA
1 TTTTATTATTATTATTA
216790 TTTTATTATTATTATTA
1 TTTTATTATTATTATTA
216807 TTATTATT
1 TT-TTATT
216815 CTCATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTATTATTATTATTA
Found at i:216902 original size:2 final size:2
Alignment explanation
Indices: 216897--216923 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
216887 CACTGGAATT
216897 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
216924 TAAGGTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:219336 original size:2 final size:2
Alignment explanation
Indices: 219329--219377 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
219319 ACGTATAGAT
219329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
219371 TA TA TA T
1 TA TA TA T
219378 CAAACGTACA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:219945 original size:2 final size:2
Alignment explanation
Indices: 219938--219965 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
219928 GCTTTTCGTA
219938 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
219966 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.