Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 10
Found at i:62 original size:7 final size:7
Alignment explanation
Indices: 50--3158 Score: 2048
Period size: 7 Copynumber: 415.4 Consensus size: 7
40 GCTGAGAGAG
50 AACCCGA
1 AACCCGA
57 AACCCGA
1 AACCCGA
64 AACCCTGAAA
1 AACCC-G--A
74 AACCCTGTA
1 AACCC-G-A
83 AACCCGA
1 AACCCGA
90 AACCCTGA
1 AACCC-GA
98 AACCCGA
1 AACCCGA
105 AACCCGA
1 AACCCGA
112 AACCCGA
1 AACCCGA
119 AACCCGA
1 AACCCGA
126 AA-CCGA
1 AACCCGA
132 ATACTCCG-
1 A-AC-CCGA
140 -ACCCGA
1 AACCCGA
146 AA-CCGA
1 AACCCGA
152 AACCCGA
1 AACCCGA
159 AACCTCGA
1 AACC-CGA
*
167 AACCC-T
1 AACCCGA
*
173 AACCGGA
1 AACCCGA
180 ACACCCGA
1 A-ACCCGA
188 AACCCGA
1 AACCCGA
*
195 TACCCCTGA
1 -AACCC-GA
204 AACCCGA
1 AACCCGA
* *
211 ACCCCGG
1 AACCCGA
218 AACCCGA
1 AACCCGA
225 AACCCTGA
1 AACCC-GA
233 ATA-CCGA
1 A-ACCCGA
*
240 AAACCGTA
1 AACCCG-A
248 AACCCGTA
1 AACCCG-A
*
256 ACCCCGA
1 AACCCGA
263 AACCCGAA
1 AACCCG-A
271 AACCCGA
1 AACCCGA
*
278 AACCCGG
1 AACCCGA
285 AACCCGA
1 AACCCGA
*
292 AGATCCCTTCGC
1 A-A--CC--CGA
304 AACCCGA
1 AACCCGA
311 AA-CCG-
1 AACCCGA
316 AACCCGA
1 AACCCGA
323 AACCCTGGA
1 AACCC--GA
332 AACCCGA
1 AACCCGA
339 AACCCGAA
1 AACCCG-A
347 AACCCGA
1 AACCCGA
354 AACCCGA
1 AACCCGA
*
361 CATCCCTGGAA
1 -AACCC--G-A
372 AACCCGGA
1 AACCC-GA
380 ATACCCGA
1 A-ACCCGA
*
388 AACTCGA
1 AACCCGA
395 AACCCGAA
1 AACCCG-A
*
403 AACCGGA
1 AACCCGA
410 AA-CCGCA
1 AACCCG-A
*
417 CACCCGA
1 AACCCGA
* *
424 CACCCTACA
1 AACCC--GA
*
433 AACCAGA
1 AACCCGA
440 AACCCGA
1 AACCCGA
** *
447 AAGCTAGC
1 AA-CCCGA
*
455 CACCCGA
1 AACCCGA
462 AACCCCG-
1 AA-CCCGA
469 AACCCGA
1 AACCCGA
476 AACCCGA
1 AACCCGA
483 AACCCGA
1 AACCCGA
490 AACCCGAA
1 AACCCG-A
*
498 AACCCTA
1 AACCCGA
505 AACCCGGA
1 AACCC-GA
513 AACCCGA
1 AACCCGA
520 AACCCGA
1 AACCCGA
*
527 AACCCGC
1 AACCCGA
*
534 ACCCCGGCA
1 AACCC-G-A
*
543 AACACG-
1 AACCCGA
549 AACCCGCCA
1 AACCCG--A
558 AA-CCGAA
1 AACCCG-A
565 AACCCGAAA
1 AACCCG--A
*
574 AATCCGGA
1 AA-CCCGA
**
582 TAACCCCC
1 -AACCCGA
**
590 GGCCCGTA
1 AACCCG-A
598 AA-CCGTAAA
1 AACCCG---A
607 TAACCCGA
1 -AACCCGA
615 AACCCGA
1 AACCCGA
*
622 CA-CCGA
1 AACCCGA
628 AACCCGAA
1 AACCCG-A
636 AACCCGA
1 AACCCGA
643 AACCCGA
1 AACCCGA
650 AACCCGA
1 AACCCGA
657 AACCCGA
1 AACCCGA
* *
664 CACCCTA
1 AACCCGA
671 AACCCGA
1 AACCCGA
678 AACCCGA
1 AACCCGA
685 CAACCCGA
1 -AACCCGA
693 AACCCGA
1 AACCCGA
700 AACTCCGAA
1 AAC-CCG-A
709 AACCCGA
1 AACCCGA
716 AACCCTGA
1 AACCC-GA
724 TAA-CCGA
1 -AACCCGA
*
731 TACCCGA
1 AACCCGA
738 AACCCGA
1 AACCCGA
745 AA-CCGA
1 AACCCGA
*
751 TACCCGA
1 AACCCGA
758 CACACCCGTACA
1 -A-ACCCG---A
770 AACCCGAAA
1 AACCCG--A
779 AACCCGA
1 AACCCGA
786 TCAACCCGTA
1 --AACCCG-A
796 AA-CCGA
1 AACCCGA
*
802 AACCCGC
1 AACCCGA
809 AACCC-A
1 AACCCGA
815 TAACCCGATA
1 -AACCCG--A
825 AACCCGA
1 AACCCGA
*
832 CACCCGAA
1 AACCCG-A
840 AACCCGA
1 AACCCGA
847 AACCCGA
1 AACCCGA
*
854 CA-CCG-
1 AACCCGA
859 AACCTCGGAA
1 AACC-C-G-A
869 AACCTTCG-
1 AACC--CGA
877 -ACCCGA
1 AACCCGA
883 AACCCGAA
1 AACCCG-A
891 AACCCTGA
1 AACCC-GA
899 ATACCTCGGA
1 A-ACC-C-GA
*
909 AACCCGCT
1 AACCCG-A
917 AACCCGA
1 AACCCGA
924 AA-CCGA
1 AACCCGA
930 AACCCGA
1 AACCCGA
937 AACCCGA
1 AACCCGA
944 AACCCGA
1 AACCCGA
951 AACCCGTGAA
1 AACCC--G-A
961 AACCCGA
1 AACCCGA
*
968 AACCCGC
1 AACCCGA
975 AACCCGA
1 AACCCGA
982 ATA-CCGA
1 A-ACCCGA
989 AATCCCGA
1 AA-CCCGA
997 AA-CCGA
1 AACCCGA
1003 AA-CCGAA
1 AACCCG-A
1010 AACCCGA
1 AACCCGA
1017 TAACCCGA
1 -AACCCGA
1025 AACCCGA
1 AACCCGA
1032 AACCCGA
1 AACCCGA
1039 AACTCTCGA
1 AAC-C-CGA
1048 AACCGCGAGA
1 AACC-C--GA
1058 AACCCGA
1 AACCCGA
1065 AACCCGAA
1 AACCCG-A
1073 AACCCGA
1 AACCCGA
1080 AACCCCGA
1 AA-CCCGA
1088 AACCCGA
1 AACCCGA
1095 AACCCCGA
1 AA-CCCGA
1103 AACCCG-
1 AACCCGA
1109 AACCCGA
1 AACCCGA
*
1116 ACCCCCGA
1 A-ACCCGA
* *
1124 ATCCCGC
1 AACCCGA
*
1131 AACCCTTAA
1 AACCC--GA
* *
1140 TAAGCCGC
1 -AACCCGA
1148 AACCCGA
1 AACCCGA
1155 AACCCGA
1 AACCCGA
1162 AACCCGATA
1 AACCCG--A
1171 AACCCGAA
1 AACCCG-A
1179 AACCCG-
1 AACCCGA
1185 AACCCGAA
1 AACCCG-A
1193 AACCCGA
1 AACCCGA
1200 AA-CCGA
1 AACCCGA
*
1206 CACCCGA
1 AACCCGA
*
1213 ACCCCGA
1 AACCCGA
1220 AACCCGA
1 AACCCGA
1227 AACCCTGA
1 AACCC-GA
1235 AACCCGA
1 AACCCGA
1242 AACCCGAA
1 AACCCG-A
1250 AACCCG-
1 AACCCGA
1256 AA-CCGA
1 AACCCGA
1262 AACCCTG-
1 AACCC-GA
1269 AACCTCGA
1 AACC-CGA
1277 AACCTCGA
1 AACC-CGA
1285 AACCCGTA
1 AACCCG-A
1293 AA-CCGA
1 AACCCGA
1299 AA-CCGA
1 AACCCGA
* *
1305 ATCCCGC
1 AACCCGA
1312 AACCCGTA
1 AACCCG-A
1320 AACCTCCGA
1 AA-C-CCGA
1329 TAACCCGAA
1 -AACCCG-A
1338 AACCCTGA
1 AACCC-GA
1346 AACCCG-
1 AACCCGA
*
1352 AACCAGA
1 AACCCGA
1359 TAACCCGA
1 -AACCCGA
1367 AACTCCGA
1 AAC-CCGA
1375 AACCCGA
1 AACCCGA
*
1382 AA-CCGC
1 AACCCGA
*
1388 AACCGGA
1 AACCCGA
1395 AACCCGA
1 AACCCGA
*
1402 AACCCGC
1 AACCCGA
1409 AACCCGA
1 AACCCGA
1416 AACCCG-
1 AACCCGA
1422 AACCCGCA
1 AACCCG-A
1430 AACCCGA
1 AACCCGA
1437 AATCTCCGGAA
1 AA-C-CC-G-A
1448 ACACCCGA
1 A-ACCCGA
1456 ATATCCCG-
1 A-A-CCCGA
1464 AACCCGA
1 AACCCGA
1471 ATA-CCGA
1 A-ACCCGA
1478 ATA-CCG-
1 A-ACCCGA
1484 AACCCGA
1 AACCCGA
1491 AACCCGA
1 AACCCGA
1498 AA-CCGAA
1 AACCCG-A
1505 AACTCCGA
1 AAC-CCGA
1513 AATCCCCGGAA
1 AA--CCC-G-A
1524 AGACCCGGCA
1 A-ACCC-G-A
*
1534 TACCGCCGA
1 -AAC-CCGA
1543 AACCCTGAA
1 AACCC-G-A
1552 AACCCGGCA
1 AACCC-G-A
*
1561 ACCCTGCGA
1 AACC--CGA
1570 AACCCGAA
1 AACCCG-A
*
1578 AAACC-A
1 AACCCGA
1584 AACCCGA
1 AACCCGA
*
1591 AA-CCGC
1 AACCCGA
1597 AACCCGA
1 AACCCGA
1604 AACCCGA
1 AACCCGA
1611 AA-CCGAA
1 AACCCG-A
1618 AACCCGA
1 AACCCGA
1625 AACCCGA
1 AACCCGA
1632 AACCCGAA
1 AACCCG-A
1640 AACCCGA
1 AACCCGA
*
1647 AACCGGA
1 AACCCGA
*
1654 ACCCCGAA
1 AACCCG-A
*
1662 AACAC-A
1 AACCCGA
1668 AACCCGA
1 AACCCGA
1675 ATACCCTGA
1 A-ACCC-GA
1684 AATCCCGTA
1 AA-CCCG-A
1693 AATCCCG-
1 AA-CCCGA
1700 AA-CCGA
1 AACCCGA
*
1706 CACCCGA
1 AACCCGA
1713 AACCCGA
1 AACCCGA
1720 TTAACCCGGA
1 --AACCC-GA
1730 AACCCGA
1 AACCCGA
1737 AACCCGGA
1 AACCC-GA
*
1745 AA-CCTA
1 AACCCGA
1751 AACCCTGA
1 AACCC-GA
1759 AACCCGA
1 AACCCGA
1766 AACCCGAA
1 AACCCG-A
1774 AACCCGA
1 AACCCGA
1781 TAACCCCGA
1 -AA-CCCGA
1790 AACCCGA
1 AACCCGA
1797 AACCCGA
1 AACCCGA
1804 AACCCGAA
1 AACCCG-A
1812 AACCCGAA
1 AACCCG-A
1820 AACCCGA
1 AACCCGA
*
1827 AAACCGA
1 AACCCGA
1834 AACCCGA
1 AACCCGA
1841 AA-CCGA
1 AACCCGA
1847 AATCCCGA
1 AA-CCCGA
1855 ATACCCGA
1 A-ACCCGA
1863 AA-CCGTA
1 AACCCG-A
1870 TAACCCGA
1 -AACCCGA
1878 AACCCGA
1 AACCCGA
1885 AA-CCGA
1 AACCCGA
1891 AACCCGA
1 AACCCGA
1898 AACCCGA
1 AACCCGA
1905 AACCCGA
1 AACCCGA
*
1912 AACTCCGC
1 AAC-CCGA
1920 AA-CCGA
1 AACCCGA
1926 AACCCGGA
1 AACCC-GA
*
1934 AACCCGC
1 AACCCGA
1941 AACCCGAA
1 AACCCG-A
1949 AACCCCGA
1 AA-CCCGA
* *
1957 TATATCTTCGC
1 -A-A-C-CCGA
*
1968 TACCCGCA
1 AACCCG-A
1976 AACCCGA
1 AACCCGA
1983 AACCCGA
1 AACCCGA
1990 AGACCCGA
1 A-ACCCGA
*
1998 AACCCGCC
1 AACCCG-A
2006 AA-CCGA
1 AACCCGA
2012 AA-CCGA
1 AACCCGA
*
2018 AACCGGTA
1 AACCCG-A
2026 AACCCGA
1 AACCCGA
2033 AACCCGA
1 AACCCGA
*
2040 ATA-CCGC
1 A-ACCCGA
2047 AACCCGA
1 AACCCGA
2054 AACCCGA
1 AACCCGA
2061 AACCCGA
1 AACCCGA
2068 AA-CCGA
1 AACCCGA
2074 AACCCCCGA
1 AA--CCCGA
2083 AACCCGAA
1 AACCCG-A
2091 AACCCGA
1 AACCCGA
2098 AACCCGA
1 AACCCGA
*
2105 CACCCG-
1 AACCCGA
2111 AA-CCGTA
1 AACCCG-A
2118 GAACCCGA
1 -AACCCGA
2126 AACCCGTA
1 AACCCG-A
*
2134 AA-ACGAA
1 AACCCG-A
2141 AACCCGA
1 AACCCGA
*
2148 GACCCGA
1 AACCCGA
*
2155 ACCCCGAA
1 AACCCG-A
2163 AACCCGA
1 AACCCGA
*
2170 AACCTG-
1 AACCCGA
2176 AACCCGA
1 AACCCGA
2183 AACCCGA
1 AACCCGA
*
2190 ATCTCGCCGA
1 A--AC-CCGA
2200 AACCCGA
1 AACCCGA
*
2207 ACACCGGA
1 A-ACCCGA
2215 AACCCGA
1 AACCCGA
2222 ATACCCG-
1 A-ACCCGA
2229 AACCCGGA
1 AACCC-GA
2237 AACCCGA
1 AACCCGA
2244 AA-CCGA
1 AACCCGA
2250 AACCCG-
1 AACCCGA
2256 AACCCGGA
1 AACCC-GA
2264 AACCCGGGA
1 AACCC--GA
2273 AACCCGGA
1 AACCC-GA
2281 AATCCCG-
1 AA-CCCGA
2288 -A-CCGA
1 AACCCGA
2293 AACCCGA
1 AACCCGA
2300 AACCCTGA
1 AACCC-GA
2308 ATACCCGA
1 A-ACCCGA
2316 AACCCGGGA
1 AACCC--GA
2325 AACCCGAA
1 AACCCG-A
2333 AACCCGA
1 AACCCGA
2340 AACCCGA
1 AACCCGA
2347 AACCCGA
1 AACCCGA
*
2354 AACCCGC
1 AACCCGA
*
2361 ACCCCG-
1 AACCCGA
2367 AACCCGGA
1 AACCC-GA
* *
2375 TCACCCGC
1 -AACCCGA
2383 AACCCGA
1 AACCCGA
2390 AA-CCG-
1 AACCCGA
2395 AACCCGA
1 AACCCGA
2402 AA-CCGA
1 AACCCGA
2408 ATACCCGA
1 A-ACCCGA
2416 AACTCCGA
1 AAC-CCGA
2424 AACCCGA
1 AACCCGA
*
2431 ATAACCGA
1 A-ACCCGA
2439 AACCCGA
1 AACCCGA
*
2446 ACCCCGA
1 AACCCGA
2453 AACCCGA
1 AACCCGA
2460 AACCCGAA
1 AACCCG-A
2468 AACCCGGAA
1 AACCC-G-A
*
2477 AACCCTA
1 AACCCGA
*
2484 ACCCCGA
1 AACCCGA
*
2491 AACCTCGC
1 AACC-CGA
2499 AA-CCGA
1 AACCCGA
2505 AACCCGGTA
1 AACCC-G-A
2514 GAACCCTGAA
1 -AACCC-G-A
2524 AACCCGAA
1 AACCCG-A
2532 AACCCGA
1 AACCCGA
2539 AACCCGA
1 AACCCGA
2546 AACCCGCAA
1 AACCCG--A
*
2555 AACCCTGC
1 AACCC-GA
2563 AACCCGA
1 AACCCGA
2570 AACCCGA
1 AACCCGA
2577 AA-CCGA
1 AACCCGA
2583 AACCTCGA
1 AACC-CGA
2591 AACCCGA
1 AACCCGA
2598 AACCCGA
1 AACCCGA
2605 AATCCCG-
1 AA-CCCGA
2612 AACCCGA
1 AACCCGA
2619 AACCTCGA
1 AACC-CGA
* *
2627 CATCCCGC
1 -AACCCGA
2635 AACCCGA
1 AACCCGA
2642 AACCCGA
1 AACCCGA
2649 AACCCGA
1 AACCCGA
*
2656 AACCTGA
1 AACCCGA
2663 AACCCG-
1 AACCCGA
* *
2669 ACCCCGC
1 AACCCGA
2676 AA-CCGTA
1 AACCCG-A
2683 AACCCGA
1 AACCCGA
2690 AACCCGA
1 AACCCGA
2697 AACCCGGA
1 AACCC-GA
2705 AACCCGA
1 AACCCGA
*
2712 AACCCGG
1 AACCCGA
2719 AA--CGA
1 AACCCGA
2724 AACCCGA
1 AACCCGA
2731 ATACCC-A
1 A-ACCCGA
2738 AGACCCGA
1 A-ACCCGA
2746 AACCCGA
1 AACCCGA
2753 TAACCTCGA
1 -AACC-CGA
2762 AATCCCGA
1 AA-CCCGA
2770 AACCTC-A
1 AACC-CGA
2777 AACCCGAA
1 AACCCG-A
2785 AACCCG-
1 AACCCGA
*
2791 AACCCGC
1 AACCCGA
2798 AACCCGA
1 AACCCGA
2805 AACCCGAAA
1 AACCCG--A
2814 AACCCGACA
1 AACCCG--A
* *
2823 TAATTCAGA
1 -AA-CCCGA
2832 AACCCCAGA
1 AA-CCC-GA
2841 AA-CC-A
1 AACCCGA
2846 AACCCGA
1 AACCCGA
2853 AACCCGA
1 AACCCGA
2860 AACCCGA
1 AACCCGA
2867 AACCTCGA
1 AACC-CGA
*
2875 AAACCGA
1 AACCCGA
2882 AACCCGA
1 AACCCGA
*
2889 ACCCCGA
1 AACCCGA
*
2896 AAACCGA
1 AACCCGA
2903 AACCCGGAAAA
1 AACCC-G---A
2914 AACCCGGA
1 AACCC-GA
2922 AACCCGA
1 AACCCGA
2929 AACCTCGGA
1 AACC-C-GA
2938 ATATCGCC-A
1 A-A-C-CCGA
*
2947 ACCCCGA
1 AACCCGA
*
2954 AACCCGT
1 AACCCGA
*
2961 AACTCGA
1 AACCCGA
*
2968 TACCCCCGGA
1 -A-ACCC-GA
*
2978 ACCCCTCGA
1 A-ACC-CGA
*
2987 CACCCGGA
1 AACCC-GA
2995 AACCCGA
1 AACCCGA
*
3002 GACCCCGA
1 -AACCCGA
3010 AAGCCCGA
1 AA-CCCGA
*
3018 ACCCCGA
1 AACCCGA
3025 AACCCGA
1 AACCCGA
**
3032 CCCCCGA
1 AACCCGA
3039 AACCCGA
1 AACCCGA
*
3046 ACCCCGA
1 AACCCGA
*
3053 ACCCCGA
1 AACCCGA
3060 TAACCCGCGA
1 -AA-CC-CGA
*
3070 AACCCTATA
1 AACCC--GA
3079 AACCCGGA
1 AACCC-GA
3087 ATATCTGCCTGA
1 A-A-C--CC-GA
3099 CAACCCGA
1 -AACCCGA
3107 AACCCTGA
1 AACCC-GA
3115 AACCCGA
1 AACCCGA
3122 AAGCCCGA
1 AA-CCCGA
3130 AACCCGTAA
1 AACCCG--A
3139 AACGTCCGCA
1 AAC--CCG-A
3149 AACCCGA
1 AACCCGA
3156 AAC
1 AAC
3159 GCTCGATATA
Statistics
Matches: 2540, Mismatches: 236, Indels: 652
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.00
5 27 0.01
6 253 0.10
7 1200 0.47
8 635 0.25
9 272 0.11
10 102 0.04
11 35 0.01
12 12 0.00
13 1 0.00
ACGTcount: A:0.39, C:0.41, G:0.15, T:0.05
Consensus pattern (7 bp):
AACCCGA
Found at i:143 original size:20 final size:19
Alignment explanation
Indices: 49--2908 Score: 680
Period size: 22 Copynumber: 133.1 Consensus size: 19
39 GGCTGAGAGA
49 GAACCCGAAACCCGAAACCC
1 GAACCCGAAA-CCGAAACCC
69 TGAAAAACCCTGTAAACCCGAAACCC
1 -G---AACCC-G-AAA-CCGAAACCC
95 TGAAACCCGAAACCCGAAACCC
1 -G-AACCCGAAA-CCGAAACCC
117 GAAACCCGAAACCGAATACTCC
1 G-AACCCGAAACCGAA-AC-CC
139 G-ACCCGAAACCGAAACCC
1 GAACCCGAAACCGAAACCC
** *
157 GAAACCTCGAAACCCTAACCG
1 G-AACC-CGAAACCGAAACCC
*
178 GAA--C--ACCCGAAACCC
1 GAACCCGAAACCGAAACCC
*
193 GATACCCCTGAAACCCGAACCCC
1 GA-A-CCC-GAAA-CCGAAACCC
216 GGAACCCGAAACCCTGAATA-CC
1 -GAACCCGAAA-CC-GAA-ACCC
* *
238 GAAAACCGTAAACCCGTAACCCC
1 G-AACCCG-AAA-CCG-AAACCC
261 GAAACCCGAAAACCCGAAACCC
1 G-AACCCG-AAA-CCGAAACCC
*
283 GGAACCCGAAGATCCCTTCGCAACCC
1 -GAACCCGAA-A---C--CGAAACCC
* *
309 GAAACCGAACCCGAAACCC
1 GAACCCGAAACCGAAACCC
328 TGGAAACCCGAAACCCGAAAACCC
1 --G-AACCCGAAA-CCG-AAACCC
*
352 GAAACCCGACATCCCTGGAAAACCC
1 G-AACCCGA-A-ACC--G-AAACCC
377 GGAATACCCGAAACTCGAAACCC
1 -G-A-ACCCGAAAC-CGAAACCC
* *
400 GAAAACCGGAAACCGCACACCC
1 G--AACCCGAAACCG-AAACCC
*
422 GACACCCTACAAACCAGAAACCC
1 GA-ACCC--GAAACC-GAAACCC
** * *
445 GAAAGCTAGCCACCCGAAACCCC
1 G-AA-CCCG-AAACCGAAA-CCC
468 GAACCCGAAACCCGAAACCC
1 GAACCCGAAA-CCGAAACCC
*
488 GAAACCCGAAAACCCTAAACCC
1 G-AACCCG-AAA-CCGAAACCC
510 GGAAACCCGAAACCCGAAACCC
1 -G-AACCCGAAA-CCGAAACCC
*
532 GCACCCCGGCAAACACG-AACCC
1 G-AACCC-G-AAAC-CGAAACCC
554 G---CC-AAACCGAAAACCC
1 GAACCCGAAACCG-AAACCC
570 GAA----AAATCCGGATAACCCCC
1 GAACCCGAAA-CC-GA-AA--CCC
*
590 G-GCCCGTAAACCGTAAATAACCC
1 GAACCCG-AAACCG---A-AACCC
*
613 GAAACCCGACACCGAAACCC
1 G-AACCCGAAACCGAAACCC
*
633 GAA----AACCCGAAACCC
1 GAACCCGAAACCGAAACCC
*
648 GAAACCCGAAACCCGACACCC
1 G-AACCCGAAA-CCGAAACCC
*
669 TAAACCCGAAACCCGACAACCC
1 -GAACCCGAAA-CCGA-AACCC
691 GAAACCCGAAACTCCGAAAACCC
1 G-AACCCGAAA--CCG-AAACCC
*
714 GAAACCCTGATAACCGATACCC
1 G-AACCC-GA-AACCGAAACCC
*
736 GAAACCCGAAACCGATACCC
1 G-AACCCGAAACCGAAACCC
756 GACACACCCGTACAAACCCGAAAAACCC
1 G--A-ACCCG---AAA-CCG--AAACCC
784 GATCAACCCGTAAACCGAAACCC
1 G---AACCCG-AAACCGAAACCC
807 GCAACCC-ATAACCCGATAAACCC
1 G-AACCCGA-AA-CCG--AAACCC
830 GACACCCGAAAACCCGAAACCC
1 GA-ACCCG-AAA-CCGAAACCC
*
852 G-ACACCGAACCTCGGAAAACCTTC
1 GAAC-CCGAAAC-C-G-AAACC--C
876 G-ACCCGAAACCCGAAAACCC
1 GAACCCGAAA-CCG-AAACCC
* * *
896 TGAATACC---TCGGAAACCC
1 -GAA-CCCGAAACCGAAACCC
914 GCTAACCCGAAACCGAAACCC
1 G--AACCCGAAACCGAAACCC
935 GAAACCCGAAACCCGAAACCC
1 G-AACCCGAAA-CCGAAACCC
*
956 GTGAA----AACCCGAAACCC
1 --GAACCCGAAACCGAAACCC
973 GCAACCCGAATACCGAAATCCC
1 G-AACCCGAA-ACCGAAA-CCC
*
995 GAAACCGAAACCGAAAACCC
1 GAACCCGAAACCG-AAACCC
1015 GATAACCCGAAACCCGAAACCC
1 G--AACCCGAAA-CCGAAACCC
1037 GAAACTCTCGAAACCGCGAGAAACCC
1 G-AAC-C-CGAAA-C-C--GAAACCC
1063 GAAACCCGAAAACCCGAAACCCC
1 G-AACCCG-AAA-CCGAAA-CCC
1086 GAAACCCGAAACCCCGAAACCC
1 G-AACCCGAAA--CCGAAACCC
* *
1108 GAACCCGAACCCCCGAATCCC
1 GAACCCGAA--ACCGAAACCC
** * *
1129 GCAACCCTTAA---TAAGCC
1 G-AACCCGAAACCGAAACCC
1146 GCAACCCGAAACCCGAAACCC
1 G-AACCCGAAA-CCGAAACCC
*
1167 GATA----AACCCGAAAACCC
1 GA-ACCCGAAACCG-AAACCC
1184 GAACCCGAAAACCCGAAA-CC
1 GAACCCG-AAA-CCGAAACCC
*
1204 GACACCCGAACCCCGAAACCC
1 GA-ACCCGAA-ACCGAAACCC
1225 GAAACCCTGAAACCCGAAACCC
1 G-AACCC-GAAA-CCGAAACCC
1247 GAAAACCCG-AACCGAAACCC
1 G--AACCCGAAACCGAAACCC
1267 TGAACCTCGAAACCTCGAAACCC
1 -GAACC-CGAAA-C-CGAAACCC
* *
1290 GTAAACCGAAACCGAATCCC
1 G-AACCCGAAACCGAAACCC
1310 GCAACCCGTAAACCTCCGATAACCC
1 G-AACCCG-AAA---CCGA-AACCC
*
1335 GAAAACCCTGAAACCCG-AACCA
1 G--AACCC-GAAA-CCGAAACCC
1357 GATAACCCGAAACTCCGAAACCC
1 G--AACCCGAAA--CCGAAACCC
* *
1380 GAAACCGCAACCGGAAACCC
1 GAACCCGAAACC-GAAACCC
*
1400 GAAACCCGCAACCCGAAACCC
1 G-AACCCG-AAACCGAAACCC
1421 GAACCCGCAAACCCGAAATCTCC
1 GAACCCG-AAA-CCGAAA-C-CC
* *
1444 GGAA-AC--ACCCGAATATCCC
1 -GAACCCGAAACCGAA-A-CCC
1463 GAACCCGAATACCGAATA-CC
1 GAACCCGAA-ACCGAA-ACCC
1483 GAACCCGAAACCCGAAA-CC
1 GAACCCGAAA-CCGAAACCC
1502 GAAAACTCCGAAATCCCCGGAAAGACCC
1 G--AAC-CCGAAA---CC-G-AA-ACCC
1530 GGCATACCGCCGAAACCCTGAAAACCC
1 -G-A-A-C-CCGAAA-CC-G-AAACCC
1557 GGCAACCCTG----CGAAACCC
1 -G-AACCC-GAAACCGAAACCC
1575 GAA----AAACC-AAACCC
1 GAACCCGAAACCGAAACCC
* *
1589 GAAACCGCAACCCGAAACCC
1 GAACCCG-AAACCGAAACCC
*
1609 GAAACCGAAAACCCGAAACCC
1 GAACCCG-AAA-CCGAAACCC
*
1630 GAAACCCGAAAACCCGAAACCG
1 G-AACCCG-AAA-CCGAAACCC
1652 GAACCCCGAAAACAC-AAACCC
1 GAA-CCCG-AAAC-CGAAACCC
1673 GAATACCCTGAAATCCCGTAAATCCC
1 G-A-ACCC-GAAA--CCG-AAA-CCC
*
1699 GAA-CCGACACCCGAAACCC
1 GAACCCGA-AACCGAAACCC
1718 GATTAACCCGGAAACCCGAAACCC
1 G---AACCC-GAAA-CCGAAACCC
* *
1742 GGAAACCTAAACCCTGAAACCC
1 -GAACCCGAAA-CC-GAAACCC
1764 GAAACCCGAAAACCCGATAACCCC
1 G-AACCCG-AAA-CCGA-AA-CCC
1788 GAAACCCGAAACCCGAAACCC
1 G-AACCCGAAA-CCGAAACCC
*
1809 GAAAACCCGAAAACCCGAAAACC
1 G--AACCCG-AAA-CCGAAACCC
1832 GAAACCCGAAACCGAAATCCC
1 G-AACCCGAAACCGAAA-CCC
1853 GAATACCCGAAACCGTATAACCC
1 G-A-ACCCGAAACCG-A-AACCC
1876 GAAACCCGAAACCGAAACCC
1 G-AACCCGAAACCGAAACCC
1896 GAAACCCGAAACCCGAAACTCC
1 G-AACCCGAAA-CCGAAAC-CC
1918 GCAA-CCGAAACCCGGAAACCC
1 G-AACCCGAAA-CC-GAAACCC
*
1939 GCAACCCGAAAACCCCGATATATCTTC
1 G-AACCCG-AAA--CCGA-A-A-C-CC
*
1966 GCTACCCGCAAACCCGAAACCC
1 G-AACCCG-AAA-CCGAAACCC
*
1988 GAA---G-ACCCGAAACCC
1 GAACCCGAAACCGAAACCC
*
2003 GCCAA-CCGAAACCGAAACCG
1 G--AACCCGAAACCGAAACCC
2023 GTAAACCCGAAACCCGAATA-CC
1 G--AACCCGAAA-CCGAA-ACCC
2045 GCAACCCGAAACCCGAAACCC
1 G-AACCCGAAA-CCGAAACCC
*
2066 GAAACCGAAACC----CCC
1 GAACCCGAAACCGAAACCC
2081 GAAACCCGAAAACCCGAAACCC
1 G-AACCCG-AAA-CCGAAACCC
2103 GACACCCG-AACCGTAGAACCC
1 GA-ACCCGAAACCG-A-AACCC
*
2124 GAAACCCGTAAAACGAAAACCC
1 G-AACCCG-AAACCG-AAACCC
*
2146 GAGACCCGAACCCCGAAAACCC
1 GA-ACCCGAA-ACCG-AAACCC
* *
2168 GAAACCTGAACCCGAAACCC
1 G-AACCCGAAACCGAAACCC
*
2188 GAATCTCGCCGAAACCCGAACACCG
1 GAA---C-CCGAAA-CCGAA-ACCC
2213 GAAACCCGAATACCCG-AACCC
1 G-AACCCGAA-A-CCGAAACCC
2234 GGAAACCCGAAACCGAAACCC
1 -G-AACCCGAAACCGAAACCC
2255 GAACCCGGAAACCCGGGAAACCC
1 GAACCC-GAAA-CC--GAAACCC
2278 GGAAATCCCG--ACCGAAACCC
1 -G-AA-CCCGAAACCGAAACCC
2298 GAAACCCTGAATACCCGAAACCC
1 G-AACCC-GAA-A-CCGAAACCC
*
2321 G----GGAAACCCGAAAACCC
1 GAACCCGAAA-CCG-AAACCC
2338 GAAACCCGAAACCCGAAACCC
1 G-AACCCGAAA-CCGAAACCC
* * *
2359 GCACCCCGAACCCGGATCACCC
1 G-AACCCGAAACC-GA-AACCC
2381 GCAACCCGAAACCG-AACCC
1 G-AACCCGAAACCGAAACCC
*
2400 GAAACCGAATACCCGAAACTCC
1 GAACCCGAA-A-CCGAAAC-CC
2422 GAAACCCGAATAACCGAAACCC
1 G-AACCCG-A-AACCGAAACCC
2444 GAACCCCGAAACCCGAAACCC
1 GAA-CCCGAAA-CCGAAACCC
* *
2465 GAAAACCCGGAAAACCCTAACCCC
1 G--AACCC-G-AAA-CCGAAACCC
*
2489 GAAACCTCGCAACCGAAACCC
1 G-AACC-CGAAACCGAAACCC
2510 GGTAGAACCCTGAAAACCCGAAAACCC
1 ----GAACCC-G-AAA-CCG-AAACCC
2537 GAAACCCGAAACCCGCAAAACCC
1 G-AACCCGAAA-CCG--AAACCC
2560 TGCAACCCGAAACCCGAAA-CC
1 -G-AACCCGAAA-CCGAAACCC
2581 GAAACCTCGAAACCCGAAACCC
1 G-AACC-CGAAA-CCGAAACCC
*
2603 GAAATCCCGAACCCGAAACCTC
1 G-AA-CCCGAAACCGAAACC-C
*
2625 GACATCCCGCAACCCGAAACCC
1 GA-A-CCCG-AAACCGAAACCC
2647 GAAACCCGAAACCTGAAACCC
1 G-AACCCGAAACC-GAAACCC
* *
2668 GACCCCGCAACCGTAAACCC
1 GAACCCGAAACCG-AAACCC
2688 GAAACCCGAAACCCGGAAACCC
1 G-AACCCGAAA-CC-GAAACCC
*
2710 GAAACCCGGAA-CGAAACCC
1 G-AACCCGAAACCGAAACCC
2729 GAATACCC-AAGACCCGAAACCC
1 G-A-ACCCGAA-A-CCGAAACCC
2751 GATAACCTCGAAATCCCGAAACCTC
1 G--AACC-CGAAA--CCGAAACC-C
*
2776 AAACCCGAAAACCCG-AACCC
1 GAACCCG-AAA-CCGAAACCC
2796 GCAACCCGAAACCCGAAAAACCC
1 G-AACCCGAAA-CCG--AAACCC
* *
2819 GACATAATTCAGAAACCCCAGAAA-CC
1 G----AA-CCCGAAA--CC-GAAACCC
*
2845 AAACCCGAAACCCGAAACCC
1 GAACCCGAAA-CCGAAACCC
2865 GAAACCTCGAAAACCGAAACCC
1 G-AACC-CG-AAACCGAAACCC
2887 GAACCCCGAAAACCGAAACCC
1 GAA-CCCG-AAACCGAAACCC
2908 G
1 G
2909 GAAAAAACCC
Statistics
Matches: 2277, Mismatches: 186, Indels: 752
0.71 0.06 0.23
Matches are distributed among these distances:
14 11 0.00
15 40 0.02
16 31 0.01
17 52 0.02
18 40 0.02
19 86 0.04
20 292 0.13
21 460 0.20
22 553 0.24
23 336 0.15
24 153 0.07
25 68 0.03
26 78 0.03
27 41 0.02
28 24 0.01
29 5 0.00
30 7 0.00
ACGTcount: A:0.40, C:0.41, G:0.15, T:0.05
Consensus pattern (19 bp):
GAACCCGAAACCGAAACCC
Found at i:158 original size:27 final size:27
Alignment explanation
Indices: 49--3059 Score: 1578
Period size: 29 Copynumber: 102.1 Consensus size: 27
39 GGCTGAGAGA
49 GAACCCGAAACCCGAAACCCTGAAAAACCC
1 GAACCCGAAACCCGAAACCC-G--AAACCC
79 TGTAAACCCGAAACCCTGAAACCCGAAACCC
1 -G--AACCCGAAACCC-GAAACCCGAAACCC
110 GAAACCCGAAACCCGAAA-CCGAATACTCC
1 G-AACCCGAAACCCGAAACCCGAA-AC-CC
139 G-ACCCGAAA-CCGAAACCCGAAACCTC
1 GAACCCGAAACCCGAAACCCGAAACC-C
* *
165 GAAACCC-TAACCGGAACACCCGAAACCC
1 G-AACCCGAAACCCGAA-ACCCGAAACCC
* *
193 GATACCCCTGAAACCCGAACCCCGGAACCC
1 GA-A-CCC-GAAACCCGAAACCCGAAACCC
*
223 GAAACCCTGAATA-CCGAAAACCGTAAACCC
1 G-AACCC-GAA-ACCCGAAACCCG-AAACCC
253 GTAACCCCGAAACCCGAAAACCCGAAACCC
1 G-AA-CCCGAAACCCG-AAACCCGAAACCC
*
283 GGAACCCGAAGATCCCTTCGCAACCCGAAA-CC
1 -GAACCCGAA-A--CC--CGAAACCCGAAACCC
315 GAACCCGAAACCCTGGAAACCCGAAACCC
1 GAACCCGAAACCC--GAAACCCGAAACCC
*
344 GAAAACCCGAAACCCGACATCCCTGGAAAACCC
1 G--AACCCGAAACCCGA-AACCC--G-AAACCC
* *
377 GGAATACCCGAAACTCGAAACCCGAAAACCG
1 -G-A-ACCCGAAACCCGAAACCCG-AAACCC
* * * * *
408 GAAACCGCACACCCGACACCCTACAAACCA
1 GAACCCG-AAACCCGAAACCC--GAAACCC
** **
438 GAAACCCGAAAGCTAGCCACCCGAAACCCC
1 G-AACCCGAAA-CCCGAAACCCGAAA-CCC
468 GAACCCGAAACCCGAAACCCGAAACCC
1 GAACCCGAAACCCGAAACCCGAAACCC
*
495 GAAAACCCTAAACCCGGAAACCCGAAACCC
1 G--AACCCGAAACCC-GAAACCCGAAACCC
* * *
525 GAAACCCGCACCCCGGCAAACACG-AACCC
1 G-AACCCGAAACCC-G-AAACCCGAAACCC
* *
554 GCCAAACCGAAAACCCGAAAAATCCGGATAACCCCC
1 G--AACCCG-AAACCCG--AAA-CCCGA-AA--CCC
*
590 G-GCCCGTAAA-CCGTAAATAACCCGAAACCC
1 GAACCCG-AAACCCG---A-AACCCGAAACCC
620 G-ACACCGAAACCCGAAAACCCGAAACCC
1 GAAC-CCGAAACCCG-AAACCCGAAACCC
* *
648 GAAACCCGAAACCCGACACCCTAAACCC
1 G-AACCCGAAACCCGAAACCCGAAACCC
676 GAAACCCGACAACCCGAAACCCGAAACTCC
1 G-AACCCGA-AACCCGAAACCCGAAAC-CC
*
706 GAAAACCCGAAACCCTGATAA-CCGATACCC
1 G--AACCCGAAACCC-GA-AACCCGAAACCC
*
736 GAAACCCGAAA-CCGATACCCGACACACCC
1 G-AACCCGAAACCCGAAACCCGA-A-ACCC
*
765 GTA--C-AAACCCGAAAAACCCGATCAACCC
1 GAACCCGAAACCCG--AAACCCGA--AACCC
* *
793 GTAAACCGAAACCCGCAACCC-ATAACCC
1 G-AACCCGAAACCCGAAACCCGA-AACCC
*
821 GATAAACCCGACACCCGAAAACCCGAAACCC
1 G---AACCCGAAACCCG-AAACCCGAAACCC
852 G-ACACCG-AACCTCGGAAAACCTTCG--ACCC
1 GAAC-CCGAAACC-C-G-AAACC--CGAAACCC
881 GAAACCCGAAAACCCTGAATACCTCGGAAACCC
1 G-AACCCG-AAACCC-GAA-ACC-C-GAAACCC
914 GCTAACCCGAAA-CCGAAACCCGAAACCC
1 G--AACCCGAAACCCGAAACCCGAAACCC
942 GAAACCCGAAACCCGTGAAAACCCGAAACCC
1 G-AACCCGAAACCC--G-AAACCCGAAACCC
973 GCAACCCGAATA-CCGAAATCCCGAAA-CC
1 G-AACCCGAA-ACCCGAAA-CCCGAAACCC
*
1001 GAAACCGAAAACCCGATAACCCGAAACCC
1 GAACCCG-AAACCCGA-AACCCGAAACCC
1030 GAAACCCGAAACTCTCGAAACCGCGAGAAACCC
1 G-AACCCGAAAC-C-CGAAACC-C--GAAACCC
1063 GAAACCCGAAAACCCGAAACCCCGAAACCC
1 G-AACCCG-AAACCCGAAA-CCCGAAACCC
*
1093 GAAACCCCGAAACCCG-AACCCGAACCCCC
1 G-AA-CCCGAAACCCGAAACCCGAA-ACCC
* * * *
1122 GAATCCCGCAACCCTTAATAAGCCGCAACCC
1 GAA-CCCGAAACCC--GA-AACCCGAAACCC
1153 GAAACCCGAAACCCGATAAACCCGAAAACCC
1 G-AACCCGAAACCCG--AAACCCG-AAACCC
*
1184 GAACCCGAAAACCCGAAA-CCGACACCC
1 GAACCCG-AAACCCGAAACCCGAAACCC
1211 GAACCCCGAAACCCGAAACCCTGAAACCC
1 GAA-CCCGAAACCCGAAACCC-GAAACCC
1240 GAAACCCGAAAACCCG-AA-CCGAAACCC
1 G-AACCCG-AAACCCGAAACCCGAAACCC
1267 TGAACCTCGAAACCTCGAAACCCGTAAA-CC
1 -GAACC-CGAAACC-CGAAACCCG-AAACCC
* * *
1297 GAAACCGAATCCCGCAACCCGTAAA-CC
1 GAACCCGAAACCCGAAACCCG-AAACCC
*
1324 ---TCCGATAACCCGAAAACCCTGAAACCC
1 GAACCCGA-AACCCG-AAACCC-GAAACCC
*
1351 GAACCAGATAACCCGAAACTCCGAAACCC
1 GAACCCGA-AACCCGAAAC-CCGAAACCC
* * *
1380 GAAACCGCAACCGGAAACCCGAAACCC
1 GAACCCGAAACCCGAAACCCGAAACCC
1407 GCAACCCGAAACCCG-AACCCGCAAACCC
1 G-AACCCGAAACCCGAAACCCG-AAACCC
1435 GAAATCTCCGGAAACACCCGAATATCCCG-AACCC
1 G-AA-C-CC-G-AA-ACCCGAA-A-CCCGAAACCC
*
1469 GAATACCGAATA-CCG-AACCCGAAACCC
1 GAA-CCCGAA-ACCCGAAACCCGAAACCC
*
1496 GAAACCGAAAACTCCGAAATCCCCGGAAAGACCC
1 GAACCCG-AAAC-CCGAAA--CCC-G-AA-ACCC
*
1530 GGCATACCGCCGAAACCCTGAAAACCCGGCAACCCTGC
1 -G-A-A-C-CCGAAACCC-G-AAACCC-G-AAACC--C
*
1568 GAAACCCGAAAAACC-AAACCCGAAA-CC
1 G-AACCCG-AAACCCGAAACCCGAAACCC
1595 GCAACCCGAAACCCGAAA-CCGAAAACCC
1 G-AACCCGAAACCCGAAACCCG-AAACCC
*
1623 GAAACCCGAAACCCGAAAACCCGAAACCG
1 G-AACCCGAAACCCG-AAACCCGAAACCC
*
1652 GAACCCCGAAAACAC-AAACCCGAATACCC
1 GAA-CCCG-AAACCCGAAACCCGAA-ACCC
*
1681 TGAAATCCCGTAAATCCCG-AA-CCGACACCC
1 -G-AA-CCCG-AAA-CCCGAAACCCGAAACCC
1711 GAAACCCGATTAACCCGGAAACCCGAAACCC
1 G-AACCCGA--AACCC-GAAACCCGAAACCC
* *
1742 GGAAACCTAAACCCTGAAACCCGAAACCC
1 -GAACCCGAAACCC-GAAACCCGAAACCC
1771 GAAAACCCGATAACCCCGAAACCCGAAACCC
1 G--AACCCGA-AA-CCCGAAACCCGAAACCC
*
1802 GAAACCCGAAAACCCGAAAACCCGAAAACC
1 G-AACCCG-AAACCCG-AAACCCGAAACCC
1832 GAAACCCGAAA-CCGAAATCCCGAATACCC
1 G-AACCCGAAACCCGAAA-CCCGAA-ACCC
*
1861 GAAACCGTATAACCCGAAACCCGAAA-CC
1 GAACCCG-A-AACCCGAAACCCGAAACCC
1889 GAAACCCGAAACCCGAAACCCGAAACTCC
1 G-AACCCGAAACCCGAAACCCGAAAC-CC
*
1918 GCAA-CCGAAACCCGGAAACCCGCAACCC
1 G-AACCCGAAACCC-GAAACCCGAAACCC
* **
1946 GAAAACCCCGATATATCTTCGCTACCCGCAAACCC
1 G--AA-CCCGA-A-A-C-CCGAAACCCG-AAACCC
*
1981 GAAACCCGAAGACCCGAAACCCGCCAA-CC
1 G-AACCCGAA-ACCCGAAACCCG-AAACCC
* *
2010 GAAACCGAAACCGGTAAACCCGAAACCC
1 GAACCCGAAACCCG-AAACCCGAAACCC
* *
2038 GAATACCGCAACCCGAAACCCGAAACCC
1 GAA-CCCGAAACCCGAAACCCGAAACCC
*
2066 GAAACCGAAA-CC----CCCGAAACCC
1 GAACCCGAAACCCGAAACCCGAAACCC
* *
2088 GAAAACCCGAAACCCGACACCCG-AACCGTA
1 G--AACCCGAAACCCGAAACCCGAAACC--C
*
2118 GAACCCGAAACCCGTAAA-ACGAAAACCC
1 GAACCCGAAACCCG-AAACCCG-AAACCC
* *
2146 GAGACCCGAACCCCGAAAACCCGAAACCT
1 GA-ACCCGAAACCCG-AAACCCGAAACCC
* *
2175 GAACCCGAAACCCGAATCTCG----CC
1 GAACCCGAAACCCGAAACCCGAAACCC
*
2198 GAAACCCGAACACCGGAAACCCGAATACCC
1 G-AACCCGAA-ACCCGAAACCCGAA-ACCC
2228 GAACCCGGAAACCCGAAA-CCGAAACCC
1 GAACCC-GAAACCCGAAACCCGAAACCC
2255 GAACCCGGAAACCCGGGAAACCCGGAAATCCC
1 GAACCC-GAAACCC--GAAACCC-GAAA-CCC
2287 G-A-CCGAAACCCGAAACCCTGAATACCC
1 GAACCCGAAACCCGAAACCC-GAA-ACCC
2314 GAAACCCGGGAAACCCGAAAACCCGAAACCC
1 G-AACCC--GAAACCCG-AAACCCGAAACCC
* *
2345 GAAACCCGAAACCCGCACCCCG-AACCC
1 G-AACCCGAAACCCGAAACCCGAAACCC
*
2372 GGATCACCCGCAACCCGAAA-CCG-AACCC
1 -GA--ACCCGAAACCCGAAACCCGAAACCC
*
2400 GAAACCGAATACCCGAAACTCCGAAACCC
1 GAACCCGAA-ACCCGAAAC-CCGAAACCC
* *
2429 GAATAACCGAAACCCGAACCCCGAAACCC
1 G-A-ACCCGAAACCCGAAACCCGAAACCC
* *
2458 GAAACCCGAAAACCCGGAAAACCCTAACCCC
1 G-AACCCG-AAACCC-G-AAACCCGAAACCC
*
2489 GAAACCTCGCAA-CCGAAACCCGGTAGAACCC
1 G-AACC-CGAAACCCGAAACCC-G-A-AACCC
2520 TGAAAACCCGAAAACCCGAAACCCGAAACCC
1 -G--AACCCG-AAACCCGAAACCCGAAACCC
*
2551 GCAAAACCCTGCAACCCGAAACCCGAAA-CC
1 G---AACCC-GAAACCCGAAACCCGAAACCC
2581 GAAACCTCGAAACCCGAAACCCGAAATCCC
1 G-AACC-CGAAACCCGAAACCCGAAA-CCC
* *
2611 GAACCCGAAACCTCGACATCCCGCAACCC
1 GAACCCGAAACC-CGA-AACCCGAAACCC
*
2640 GAAACCCGAAACCCGAAACCTGAAACCC
1 G-AACCCGAAACCCGAAACCCGAAACCC
* *
2668 GACCCCGCAA-CCGTAAACCCGAAACCC
1 GAACCCGAAACCCG-AAACCCGAAACCC
*
2695 GAAACCCGGAAACCCGAAACCCGGAA--C
1 G-AACCC-GAAACCCGAAACCCGAAACCC
2722 GAAACCCGAATACCC-AAGACCCGAAACCC
1 G-AACCCGAA-ACCCGAA-ACCCGAAACCC
2751 GATAACCTCGAAATCCCGAAACCTC-AAACCC
1 G--AACC-CGAAA-CCCGAAACC-CGAAACCC
*
2782 GAAAACCCG-AACCCGCAACCCGAAACCC
1 G--AACCCGAAACCCGAAACCCGAAACCC
* *
2810 GAAAAACCCGACATAATTCAGAAACCCCAGAAA-CC
1 G---AACCCG--A-AA-CCCGAAA-CCC-GAAACCC
*
2845 AAACCCGAAACCCGAAACCCGAAACCTC
1 GAACCCGAAACCCGAAACCCGAAACC-C
* * *
2873 GAAAACCGAAACCCGAACCCCGAAAACC
1 G-AACCCGAAACCCGAAACCCGAAACCC
2901 GAAACCCGGAAAAAACCCGGAAACCCGAAACCTC
1 G-AACCC-G---AAACCC-GAAACCCGAAACC-C
* * *
2935 GGAATATCGCC-AACCCCGAAACCCGTAACTC
1 -G-A-A-C-CCGAAACCCGAAACCCGAAACCC
* *
2966 GATACCCCCGGAACCCCTCGACACCCGGAAACCC
1 GA-A--CCC-GAA-ACC-CGAAACCC-GAAACCC
*
3000 GAGACCCCGAAAGCCCGAACCCCGAAACCC
1 GA-A-CCCGAAA-CCCGAAACCCGAAACCC
* * *
3030 GACCCCCGAAACCCGAACCCCGAACCCC
1 GA-ACCCGAAACCCGAAACCCGAAACCC
3058 GA
1 GA
3060 TAACCCGCGA
Statistics
Matches: 2431, Mismatches: 227, Indels: 647
0.74 0.07 0.20
Matches are distributed among these distances:
22 11 0.00
23 2 0.00
24 20 0.01
25 25 0.01
26 63 0.03
27 264 0.11
28 455 0.19
29 497 0.20
30 346 0.14
31 346 0.14
32 121 0.05
33 132 0.05
34 82 0.03
35 23 0.01
36 17 0.01
37 13 0.01
38 8 0.00
39 6 0.00
ACGTcount: A:0.39, C:0.41, G:0.15, T:0.05
Consensus pattern (27 bp):
GAACCCGAAACCCGAAACCCGAAACCC
Found at i:2928 original size:26 final size:27
Alignment explanation
Indices: 2888--2938 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
2878 CCGAAACCCG
2888 AACCCCGAAAACCGAAACC-CGGAAAA
1 AACCCCGAAAACCGAAACCTCGGAAAA
* *
2914 AACCCGGAAACCCGAAACCTCGGAA
1 AACCCCGAAAACCGAAACCTCGGAA
2939 TATCGCCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.45, C:0.35, G:0.18, T:0.02
Consensus pattern (27 bp):
AACCCCGAAAACCGAAACCTCGGAAAA
Found at i:3204 original size:7 final size:7
Alignment explanation
Indices: 3192--3222 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
3182 AACCTCTCTA
3192 AAACCCC
1 AAACCCC
3199 AAACCCCC
1 AAA-CCCC
3207 AAACCCC
1 AAACCCC
3214 AAACCCC
1 AAACCCC
3221 AA
1 AA
3223 CGCCTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.45, C:0.55, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCC
Found at i:3212 original size:15 final size:15
Alignment explanation
Indices: 3192--3220 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3182 AACCTCTCTA
3192 AAACCCCAAACCCCC
1 AAACCCCAAACCCCC
3207 AAACCCCAAACCCC
1 AAACCCCAAACCCC
3221 AACGCCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACCCCAAACCCCC
Found at i:3367 original size:18 final size:17
Alignment explanation
Indices: 3330--3380 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
3320 CGCAACCCCC
*
3330 AAACCCCCAAACCTCTCT
1 AAACCCCGAAACC-CTCT
*
3348 AAGCTCCCGAAACCCTCT
1 AAAC-CCCGAAACCCTCT
3366 AAACCCCGAATACCC
1 AAACCCCGAA-ACCC
3381 CTAGAATCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.21
18 14 0.50
19 8 0.29
ACGTcount: A:0.33, C:0.47, G:0.06, T:0.14
Consensus pattern (17 bp):
AAACCCCGAAACCCTCT
Found at i:3439 original size:8 final size:7
Alignment explanation
Indices: 3420--4793 Score: 974
Period size: 7 Copynumber: 191.6 Consensus size: 7
3410 AGCCTCCCTC
3420 AACCCCA
1 AACCCCA
3427 AACCCCAA
1 AACCCC-A
3435 AACCCCA
1 AACCCCA
3442 AACCCCA
1 AACCCCA
3449 AACCCTCCA
1 AA-CC-CCA
3458 AGA-CCCA
1 A-ACCCCA
3465 TAATCCCCA
1 -AA-CCCCA
*
3474 ATCCCCGA
1 AACCCC-A
*
3482 AAACCCA
1 AACCCCA
3489 AATCCCCA
1 AA-CCCCA
3497 AACCCCA
1 AACCCCA
3504 AACCCCA
1 AACCCCA
3511 AACCCCA
1 AACCCCA
3518 AACCCTCCA
1 AA-CC-CCA
3527 AACCCCA
1 AACCCCA
*
3534 TAACCCTA
1 -AACCCCA
3542 ATACCCCA
1 A-ACCCCA
3550 AACCCCA
1 AACCCCA
3557 TAACCCCCA
1 -AA-CCCCA
3566 AACCTCCA
1 AACC-CCA
3574 AACCCCA
1 AACCCCA
3581 AACCCCAAAA
1 AACCCC---A
3591 AACCCCA
1 AACCCCA
3598 AACCCCA
1 AACCCCA
3605 TAACCCCA
1 -AACCCCA
* *
3613 CACCCAAA
1 AACCC-CA
3621 TAACTCCCA
1 -AAC-CCCA
3630 AACTCCCAA
1 AAC-CCC-A
3639 AACCCCA
1 AACCCCA
3646 AACCCCAA
1 AACCCC-A
3654 ATACCCC-
1 A-ACCCCA
3661 AA-CCCA
1 AACCCCA
3667 TAACCCCA
1 -AACCCCA
3675 AACCCC-
1 AACCCCA
3681 AA-CCCA
1 AACCCCA
3687 AACCCCA
1 AACCCCA
3694 AACCCCA
1 AACCCCA
3701 AACCCCCA
1 AA-CCCCA
3709 AACCCCA
1 AACCCCA
3716 AACCCCA
1 AACCCCA
3723 AACCCCCA
1 AA-CCCCA
3731 AA-CCCA
1 AACCCCA
*
3737 AACACCA
1 AACCCCA
3744 AA-CCCA
1 AACCCCA
*
3750 CACCCCA
1 AACCCCA
3757 AA-CCCA
1 AACCCCA
3763 AACCCCA
1 AACCCCA
3770 AACCCCCA
1 AA-CCCCA
3778 AACCCCA
1 AACCCCA
3785 AA-CCCA
1 AACCCCA
3791 AACCCCCA
1 AA-CCCCA
3799 AACCCCA
1 AACCCCA
3806 AACCCCAA
1 AACCCC-A
3814 AACCCCCA
1 AA-CCCCA
3822 AACCCCTCA
1 AA-CCC-CA
3831 AACCCCCCA
1 AA--CCCCA
*
3840 AACCCCTC
1 AACCCC-A
3848 AACCCCA
1 AACCCCA
*
3855 ACCCCCA
1 AACCCCA
3862 AACCCCCA
1 AA-CCCCA
*
3870 AACCACAA
1 AACC-CCA
3878 AACCCCCA
1 AA-CCCCA
3886 AACCCCA
1 AACCCCA
3893 AACCCC-
1 AACCCCA
3899 AACCCCA
1 AACCCCA
3906 AACCCCA
1 AACCCCA
3913 AACCCCCA
1 AA-CCCCA
3921 AA-CCCA
1 AACCCCA
3927 AA-CCC-
1 AACCCCA
3932 -ACCCCA
1 AACCCCA
3938 ATACCCCA
1 A-ACCCCA
3946 AACCCC-
1 AACCCCA
3952 AACCCCA
1 AACCCCA
3959 AACCCCCA
1 AA-CCCCA
3967 AACCCCA
1 AACCCCA
3974 AACCCCA
1 AACCCCA
3981 AACCCCA
1 AACCCCA
3988 AACCCCA
1 AACCCCA
3995 AA-CCC-
1 AACCCCA
4000 AACCCCAA
1 AACCCC-A
4008 AACCCCAA
1 AACCCC-A
4016 AACCCCAA
1 AACCCC-A
4024 AACCCCA
1 AACCCCA
4031 AACCCC-
1 AACCCCA
4037 AACCCCA
1 AACCCCA
4044 AACCCC-
1 AACCCCA
4050 AA-CCCA
1 AACCCCA
*
4056 AACACCA
1 AACCCCA
*
4063 AACCCAA
1 AACCCCA
4070 AACCCCA
1 AACCCCA
4077 AACCCCA
1 AACCCCA
4084 AACCCCA
1 AACCCCA
4091 AACCCCA
1 AACCCCA
4098 AACCCCAAA
1 AACCCC--A
4107 AACCCCA
1 AACCCCA
4114 AACCCCA
1 AACCCCA
4121 AACCCCCCA
1 AA--CCCCA
4130 AACCCCA
1 AACCCCA
4137 AACCCCCA
1 AA-CCCCA
4145 AACCCCCA
1 AA-CCCCA
*
4153 AACACCA
1 AACCCCA
*
4160 AACCCCC
1 AACCCCA
4167 AACCCCA
1 AACCCCA
4174 AACCCCA
1 AACCCCA
*
4181 AACCCCC
1 AACCCCA
4188 AA--CCA
1 AACCCCA
4193 AACCCCA
1 AACCCCA
4200 AACCCCA
1 AACCCCA
*
4207 AACCCTA
1 AACCCCA
*
4214 AACCCTA
1 AACCCCA
*
4221 AACCCTATA
1 AACCC--CA
*
4230 AACCCTA
1 AACCCCA
*
4237 AA-CCCT
1 AACCCCA
*
4243 AACCCTA
1 AACCCCA
*
4250 AACCCTA
1 AACCCCA
*
4257 TAA-CCCT
1 -AACCCCA
4264 AACCCCTA
1 AACCCC-A
*
4272 AACCCTA
1 AACCCCA
*
4279 AACCCTA
1 AACCCCA
*
4286 AA-CCCT
1 AACCCCA
4292 AACCCCTA
1 AACCCC-A
*
4300 AACCCTA
1 AACCCCA
4307 AACCCCTA
1 AACCCC-A
*
4315 AACCCTA
1 AACCCCA
4322 AACCCCTA
1 AACCCC-A
* *
4330 AA-CGCT
1 AACCCCA
4336 AACCCCTA
1 AACCCC-A
*
4344 AA-CCCT
1 AACCCCA
*
4350 AACCCTA
1 AACCCCA
*
4357 AA-CCCT
1 AACCCCA
4363 AACCCCTA
1 AACCCC-A
*
4371 AA-CCCT
1 AACCCCA
4377 AACCCCTA
1 AACCCC-A
*
4385 AA-CCCT
1 AACCCCA
4391 AACCCCTA
1 AACCCC-A
*
4399 AA-CCCT
1 AACCCCA
*
4405 AACCCCT
1 AACCCCA
4412 AACCCCTA
1 AACCCC-A
*
4420 AACCCTA
1 AACCCCA
*
4427 AA-CCCT
1 AACCCCA
4433 AACCCCTA
1 AACCCC-A
*
4441 AACCCTA
1 AACCCCA
*
4448 AA-CCCT
1 AACCCCA
4454 AACCCCTA
1 AACCCC-A
*
4462 AACCCTA
1 AACCCCA
*
4469 AACCCTA
1 AACCCCA
*
4476 AACCCTA
1 AACCCCA
*
4483 AACCCTA
1 AACCCCA
* *
4490 GACCCTA
1 AACCCCA
*
4497 AACCCTA
1 AACCCCA
*
4504 AACCCTA
1 AACCCCA
* *
4511 GACCCTA
1 AACCCCA
* *
4518 GACCCTA
1 AACCCCA
* *
4525 GACCCTA
1 AACCCCA
* *
4532 GACCCTA
1 AACCCCA
* *
4539 GACCCTA
1 AACCCCA
* *
4546 GACCCTA
1 AACCCCA
* *
4553 GACCCTA
1 AACCCCA
* *
4560 GACCCTA
1 AACCCCA
* *
4567 GACCCTA
1 AACCCCA
* *
4574 GACCCTA
1 AACCCCA
* *
4581 GACCCTA
1 AACCCCA
* *
4588 GACCCTA
1 AACCCCA
* *
4595 GACCCTA
1 AACCCCA
* *
4602 GACCCTA
1 AACCCCA
* *
4609 GACCCTGA
1 AACCC-CA
4617 AACCCC-
1 AACCCCA
4623 AACCCCTGA
1 AACCCC--A
4632 AACCCC-
1 AACCCCA
4638 AACCCCGA
1 AACCCC-A
4646 AACCCC-
1 AACCCCA
4652 AACCCCAA
1 AACCCC-A
4660 AACCCC-
1 AACCCCA
4666 AACCCC-
1 AACCCCA
4672 AACCCC-
1 AACCCCA
4678 AACCCCA
1 AACCCCA
* *
4685 ACCCCCG
1 AACCCCA
*
4692 AACCCCG
1 AACCCCA
*
4699 AACCCCG
1 AACCCCA
*
4706 AACCCCG
1 AACCCCA
* *
4713 AACCTCG
1 AACCCCA
*
4720 AACCCCG
1 AACCCCA
*
4727 AACCCCG
1 AACCCCA
*
4734 AACCCCG
1 AACCCCA
*
4741 AACCCCG
1 AACCCCA
*
4748 AACCCCG
1 AACCCCA
*
4755 AACCCCG
1 AACCCCA
*
4762 AACCCCG
1 AACCCCA
4769 AACCCCTA
1 AACCCC-A
4777 AACCCC-
1 AACCCCA
4783 AACCCCA
1 AACCCCA
4790 AACC
1 AACC
4794 TTAACACTAA
Statistics
Matches: 1180, Mismatches: 83, Indels: 208
0.80 0.06 0.14
Matches are distributed among these distances:
4 1 0.00
5 18 0.02
6 138 0.12
7 681 0.58
8 257 0.22
9 71 0.06
10 14 0.01
ACGTcount: A:0.39, C:0.53, G:0.02, T:0.06
Consensus pattern (7 bp):
AACCCCA
Found at i:4951 original size:7 final size:7
Alignment explanation
Indices: 4939--4979 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
4929 AGATCGTAAA
4939 AAACCTT
1 AAACCTT
4946 AAACCTT
1 AAACCTT
4953 AAA-CTT
1 AAACCTT
*
4959 AAACCCT
1 AAACCTT
*
4966 AACCCTT
1 AAACCTT
4973 -AACCTT
1 AAACCTT
4979 A
1 A
4980 GACCCTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:4972 original size:20 final size:20
Alignment explanation
Indices: 4939--4988 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4929 AGATCGTAAA
*
4939 AAACCTTAAACCTTAAACTT
1 AAACCCTAAACCTTAAACTT
* *
4959 AAACCCTAACCCTTAACCTT
1 AAACCCTAAACCTTAAACTT
*
4979 AGACCCTAAA
1 AAACCCTAAA
4989 AAACCTTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (20 bp):
AAACCCTAAACCTTAAACTT
Found at i:9619 original size:65 final size:65
Alignment explanation
Indices: 9515--9650 Score: 263
Period size: 65 Copynumber: 2.1 Consensus size: 65
9505 GTACGGATTC
9515 TATTTTAGGCGAGTTTAGTAGTATGAAAGGGTGCAAAGCTCAACTTCAATTAGTCCTTCTAAAAT
1 TATTTTAGGCGAGTTTAGTAGTATGAAAGGGTGCAAAGCTCAACTTCAATTAGTCCTTCTAAAAT
*
9580 TATTTTAGGCGAGTTTAGTAGTATGAAAGGGTGCAAAGCTCAACTTCAATTAGTCTTTCTAAAAT
1 TATTTTAGGCGAGTTTAGTAGTATGAAAGGGTGCAAAGCTCAACTTCAATTAGTCCTTCTAAAAT
9645 TATTTT
1 TATTTT
9651 CTCACTATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (65 bp):
TATTTTAGGCGAGTTTAGTAGTATGAAAGGGTGCAAAGCTCAACTTCAATTAGTCCTTCTAAAAT
Found at i:12968 original size:2 final size:2
Alignment explanation
Indices: 12961--12996 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
12951 ATTGCTGTTT
12961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12997 GTAGTACCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13741 original size:2 final size:2
Alignment explanation
Indices: 13736--13762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13726 ATGGAGCTAA
13736 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 A
13763 CTCATTCAAT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14861 original size:14 final size:14
Alignment explanation
Indices: 14842--14871 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14832 TGTGACTGTC
*
14842 AATTATTTTAAATA
1 AATTATTTAAAATA
14856 AATTATTTAAAATA
1 AATTATTTAAAATA
14870 AA
1 AA
14872 AATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTTAAAATA
Found at i:15153 original size:79 final size:79
Alignment explanation
Indices: 15070--15227 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
15060 AATAAAAAAA
*
15070 TTAAAACAAAATCTAAATAAAAAGCAAAATAAGCCCTCGTGACAGGCTGAACTCATTATGGGATT
1 TTAAAACAAAATCTAAATAAAAAGCAAAATAAGCCCTCGTGACAGGCTGAACTCATTAAGGGATT
15135 CTATATACATATAT
66 CTATATACATATAT
*
15149 TTAAAACAAAATCTAAATAAAGAGCAAAATAAGCCCTCGTGACAGGCTGAACTCATTAAGGGATT
1 TTAAAACAAAATCTAAATAAAAAGCAAAATAAGCCCTCGTGACAGGCTGAACTCATTAAGGGATT
15214 CTATATACATATAT
66 CTATATACATATAT
15228 ATATATATAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (79 bp):
TTAAAACAAAATCTAAATAAAAAGCAAAATAAGCCCTCGTGACAGGCTGAACTCATTAAGGGATT
CTATATACATATAT
Found at i:15227 original size:2 final size:2
Alignment explanation
Indices: 15215--15246 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15205 TAAGGGATTC
*
15215 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15247 GGCACAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15996 original size:32 final size:31
Alignment explanation
Indices: 15955--16046 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 31
15945 TATTTATTTA
15955 TAAAAAAATAAAATGAATGTTAATCAAAATT
1 TAAAAAAATAAAATGAATGTTAATCAAAATT
* * *
15986 GTAAAAAAATAAAGTGTATGTCAATC--AA-T
1 -TAAAAAAATAAAATGAATGTTAATCAAAATT
*
16015 TAAAAAAAT-AAATGGCATGTTAATCAAAATT
1 TAAAAAAATAAAAT-GAATGTTAATCAAAATT
16046 T
1 T
16047 GGATTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.06
28 18 0.36
29 1 0.02
30 4 0.08
31 2 0.04
32 22 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.29
Consensus pattern (31 bp):
TAAAAAAATAAAATGAATGTTAATCAAAATT
Found at i:16034 original size:28 final size:28
Alignment explanation
Indices: 15955--16041 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
15945 TATTTATTTA
* * *
15955 TAAAAAAATAAAATGAATGTTAATCAAAATT
1 TAAAAAAATAAAGTGCATGTCAATC--AA-T
*
15986 GTAAAAAAATAAAGTGTATGTCAATCAAT
1 -TAAAAAAATAAAGTGCATGTCAATCAAT
*
16015 TAAAAAAATAAA-TGGCATGTTAATCAA
1 TAAAAAAATAAAGT-GCATGTCAATCAA
16042 AATTTGGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.47
29 1 0.02
30 2 0.04
32 22 0.45
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (28 bp):
TAAAAAAATAAAGTGCATGTCAATCAAT
Found at i:16954 original size:26 final size:26
Alignment explanation
Indices: 16918--16969 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
16908 AAAAGAAAAC
16918 AGTTATTAAAGCAATTAGTATCTTTT
1 AGTTATTAAAGCAATTAGTATCTTTT
*
16944 AGTTATTAAAGCAATTAGTATTTTTT
1 AGTTATTAAAGCAATTAGTATCTTTT
16970 TTCACGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (26 bp):
AGTTATTAAAGCAATTAGTATCTTTT
Found at i:17389 original size:28 final size:28
Alignment explanation
Indices: 17348--17406 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
17338 AATCAATAAA
*
17348 CCTCAACTCCGTACCCAAACTACAAAGG
1 CCTCAACTCAGTACCCAAACTACAAAGG
* *
17376 CCTCAACTCAGTACGCAAACTACCAAGG
1 CCTCAACTCAGTACCCAAACTACAAAGG
17404 CCT
1 CCT
17407 TTTCTTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.39, G:0.12, T:0.15
Consensus pattern (28 bp):
CCTCAACTCAGTACCCAAACTACAAAGG
Found at i:18330 original size:16 final size:18
Alignment explanation
Indices: 18299--18331 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18289 AATGTGAGTC
18299 AACCAGGCTGCCACAACA
1 AACCAGGCTGCCACAACA
18317 AACCA-GCT-CCACAAC
1 AACCAGGCTGCCACAAC
18332 CATGGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.39, C:0.42, G:0.12, T:0.06
Consensus pattern (18 bp):
AACCAGGCTGCCACAACA
Found at i:21738 original size:17 final size:17
Alignment explanation
Indices: 21716--21767 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
21706 TTTCGATTTA
*
21716 ATTATAAAAAAATTAAT
1 ATTATAAAAATATTAAT
*
21733 ATTATATAAATATTAA-
1 ATTATAAAAATATTAAT
*
21749 ATATATTAAAATATTAAT
1 AT-TATAAAAATATTAAT
21767 A
1 A
21768 AAAATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 26 0.90
18 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATAAAAATATTAAT
Found at i:21798 original size:12 final size:12
Alignment explanation
Indices: 21783--21807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21773 ATATATTTAA
21783 TTTAATATAATT
1 TTTAATATAATT
21795 TTTAATATAATT
1 TTTAATATAATT
21807 T
1 T
21808 AAAGATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATATAATT
Found at i:22229 original size:16 final size:16
Alignment explanation
Indices: 22193--22249 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
22183 ACAAATAAAA
*
22193 TTTAATAATATCTTGAAT
1 TTTAATAAAAT-TT-AAT
22211 TTTAATAAAATTTAAT
1 TTTAATAAAATTTAAT
22227 TTTAA-AATAATTT-AT
1 TTTAATAA-AATTTAAT
22242 TTT-ATAAA
1 TTTAATAAA
22250 TTTTTTTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 2 0.06
15 9 0.25
16 13 0.36
17 2 0.06
18 10 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTAATAAAATTTAAT
Found at i:23383 original size:21 final size:21
Alignment explanation
Indices: 23357--23400 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
23347 ATATCGGTTC
*
23357 AAACTTCAACTTAGATTTGAA
1 AAACTTCAACTTAAATTTGAA
23378 AAACTTCAACTTAAATTTGAA
1 AAACTTCAACTTAAATTTGAA
23399 AA
1 AA
23401 TTTATGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (21 bp):
AAACTTCAACTTAAATTTGAA
Found at i:23490 original size:21 final size:21
Alignment explanation
Indices: 23461--23509 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
23451 AATTTTGAGC
*
23461 CAACCCATTGATTATACAACT
1 CAACTCATTGATTATACAACT
23482 CAACTCATTGATTATACAACT
1 CAACTCATTGATTATACAACT
23503 CAACTCA
1 CAACTCA
23510 ATTTGGATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.29
Consensus pattern (21 bp):
CAACTCATTGATTATACAACT
Found at i:28424 original size:19 final size:19
Alignment explanation
Indices: 28400--28437 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
28390 ATTTCACTAA
28400 ATTACAACTCTAAGTGTTT
1 ATTACAACTCTAAGTGTTT
28419 ATTACAACTCTAAGTGTTT
1 ATTACAACTCTAAGTGTTT
28438 CTTTGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
ATTACAACTCTAAGTGTTT
Found at i:31241 original size:162 final size:162
Alignment explanation
Indices: 30974--31299 Score: 643
Period size: 162 Copynumber: 2.0 Consensus size: 162
30964 CCTCGATAAG
*
30974 ATCAATTTGAGTTCTTGTTTAAATAACAAAGAAGTTCTCGTAAAAGTGAATAAACTCTCAAGATA
1 ATCAATTTGAGTTCTTGTTTAAATAACAAAGAAGTTCTCGTAAAAGTGAAGAAACTCTCAAGATA
31039 TTTTTTTCTATTCAAATATGCTAAAGTACATCGATGAGATAGCTTTTATAGGCTTAAAATCTGTA
66 TTTTTTTCTATTCAAATATGCTAAAGTACATCGATGAGATAGCTTTTATAGGCTTAAAATCTGTA
31104 AAGTCTTAACTAAACAAGGACAATCCTATCTA
131 AAGTCTTAACTAAACAAGGACAATCCTATCTA
31136 ATCAATTTGAGTTCTTGTTTAAATAACAAAGAAGTTCTCGTAAAAGTGAAGAAACTCTCAAGATA
1 ATCAATTTGAGTTCTTGTTTAAATAACAAAGAAGTTCTCGTAAAAGTGAAGAAACTCTCAAGATA
31201 TTTTTTTCTATTCAAATATGCTAAAGTACATCGATGAGATAGCTTTTATAGGCTTAAAATCTGTA
66 TTTTTTTCTATTCAAATATGCTAAAGTACATCGATGAGATAGCTTTTATAGGCTTAAAATCTGTA
31266 AAGTCTTAACTAAACAAGGACAATCCTATCTA
131 AAGTCTTAACTAAACAAGGACAATCCTATCTA
31298 AT
1 AT
31300 AAGGAAAAGT
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (162 bp):
ATCAATTTGAGTTCTTGTTTAAATAACAAAGAAGTTCTCGTAAAAGTGAAGAAACTCTCAAGATA
TTTTTTTCTATTCAAATATGCTAAAGTACATCGATGAGATAGCTTTTATAGGCTTAAAATCTGTA
AAGTCTTAACTAAACAAGGACAATCCTATCTA
Found at i:31413 original size:81 final size:80
Alignment explanation
Indices: 31285--31439 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 80
31275 CTAAACAAGG
* * * * *
31285 ACAATCCTATCTAATAAGGAAAAGTTTATTCCTTATCATAATATGATTAGGACTTATCTAAATAA
1 ACAATCCTATCTAATAAGAAAAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAACAA
*
31350 CTTAAAATTCTAAAC
66 ATTAAAATTCTAAAC
* * *
31365 ACAATCCTAATC-AATAAGAATAAAGTCTACTCCTTCTCATAATTTGATTAGGAATTATCTGAAC
1 ACAATCCT-ATCTAATAAGAA-AAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAAC
31429 AAATTAAAATT
64 AAATTAAAATT
31440 AAAAAGTCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 15 0.23
81 49 0.77
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (80 bp):
ACAATCCTATCTAATAAGAAAAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAACAA
ATTAAAATTCTAAAC
Found at i:33704 original size:14 final size:14
Alignment explanation
Indices: 33687--33715 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33677 GTTAAAATAG
33687 AAAAGTGAAAAAGC
1 AAAAGTGAAAAAGC
33701 AAAAGTGAAAAAGC
1 AAAAGTGAAAAAGC
33715 A
1 A
33716 CAAGCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
AAAAGTGAAAAAGC
Found at i:36935 original size:52 final size:52
Alignment explanation
Indices: 36857--36984 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
36847 CGAAATATGA
*
36857 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
36909 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
36961 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
36985 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:37011 original size:13 final size:13
Alignment explanation
Indices: 36993--37051 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
36983 CAAAGATCAG
36993 TGTATCGATACAA
1 TGTATCGATACAA
37006 TGTATCGATAC-A
1 TGTATCGATACAA
37018 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
*
37027 TGTATCGATACAT
1 TGTATCGATACAA
37040 TGTATCGATACA
1 TGTATCGATACA
37052 CTGATCTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 4 0.11
13 24 0.63
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37014 original size:33 final size:33
Alignment explanation
Indices: 36972--37069 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
36962 AATTGCCTGC
* *
36972 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAATGATCAATGTATCGATACA
*
37005 ATGTATCGATACATTTGAGT-AATGTATCGATACA
1 ATGTATCGATACA-ATGA-TCAATGTATCGATACA
* * **
37039 TTGTATCGATACACTGATCTTTGTATCGATA
1 ATGTATCGATACAATGATCAATGTATCGATA
37070 TAAAAAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 1 0.02
33 26 0.47
34 27 0.49
35 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACAATGATCAATGTATCGATACA
Found at i:37098 original size:13 final size:13
Alignment explanation
Indices: 37080--37104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37070 TAAAAAAATA
37080 TGTATCGATACAT
1 TGTATCGATACAT
37093 TGTATCGATACA
1 TGTATCGATACA
37105 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37839 original size:20 final size:20
Alignment explanation
Indices: 37779--37830 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
37769 AATTAAAATT
* *
37779 AAAATAAAACAAAAAATAAA
1 AAAATCAAATAAAAAATAAA
*
37799 AAAATTAAATAAAAAATAAA
1 AAAATCAAATAAAAAATAAA
37819 AAAATCAAATAA
1 AAAATCAAATAA
37831 CCAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAATCAAATAAAAAATAAA
Found at i:38372 original size:23 final size:22
Alignment explanation
Indices: 38330--38375 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
38320 ACAGCAAGAT
*
38330 AAAAGGGGGAAGAACGAACAAA
1 AAAAGGGGGAAGAACAAACAAA
38352 AAAAGGGGGGAA-AACAAAACAAA
1 AAAA-GGGGGAAGAAC-AAACAAA
38375 A
1 A
38376 GAAAAAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.63, C:0.09, G:0.28, T:0.00
Consensus pattern (22 bp):
AAAAGGGGGAAGAACAAACAAA
Found at i:38727 original size:22 final size:22
Alignment explanation
Indices: 38702--38758 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
38692 AGCCAGTAGC
38702 CAACGACAACAGCTCC-AGCATG
1 CAACGACAACAGC-CCTAGCATG
* *
38724 CAACCG-TAGCAGCCCTAGCATG
1 CAA-CGACAACAGCCCTAGCATG
*
38746 CAACAACAACAGC
1 CAACGACAACAGC
38759 AGTAACACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.37, C:0.37, G:0.18, T:0.09
Consensus pattern (22 bp):
CAACGACAACAGCCCTAGCATG
Found at i:39063 original size:25 final size:23
Alignment explanation
Indices: 39020--39069 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
39010 GGAAGGTAGC
39020 AGCAAAAGAAAAACAAAACAACA
1 AGCAAAAGAAAAACAAAACAACA
39043 AGCAAAA-AACAAACACGAAACAACA
1 AGCAAAAGAA-AAACA--AAACAACA
39068 AG
1 AG
39070 TTACACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.08
23 12 0.50
25 10 0.42
ACGTcount: A:0.70, C:0.20, G:0.10, T:0.00
Consensus pattern (23 bp):
AGCAAAAGAAAAACAAAACAACA
Found at i:40421 original size:639 final size:639
Alignment explanation
Indices: 39203--40483 Score: 2553
Period size: 639 Copynumber: 2.0 Consensus size: 639
39193 TGCTGGAATT
39203 TTTGGATAGTCTGAACGAATGATGTTGGGGGCTAATTGTGTTGATTTGATGCTTATTTTTGCTTG
1 TTTGGATAGTCTGAACGAATGATGTTGGGGGCTAATTGTGTTGATTTGATGCTTATTTTTGCTTG
39268 GTTTCCATGCTGTATAAGTTGTTTAACAAGATTTGCAAACATAAGGATTAAATTGTAAAAATAAA
66 GTTTCCATGCTGTATAAGTTGTTTAACAAGATTTGCAAACATAAGGATTAAATTGTAAAAATAAA
39333 AAATCTTGATCTATGCAAATATATGTTAGGTTAAACCTTGTAAGAAATTTTTGCATGATTTGTTG
131 AAATCTTGATCTATGCAAATATATGTTAGGTTAAACCTTGTAAGAAATTTTTGCATGATTTGTTG
39398 ATGATTTCAGGTTGATTTAATGACTTGATTGTGTTGGAAAAATCCCTTAATCGAAACTCTCCCTT
196 ATGATTTCAGGTTGATTTAATGACTTGATTGTGTTGGAAAAATCCCTTAATCGAAACTCTCCCTT
39463 GTTTTGGCTCCAATTTTTTGCTGGCAACAACGATATTGTATGTTTAAAAATCATTTTAAAATGCT
261 GTTTTGGCTCCAATTTTTTGCTGGCAACAACGATATTGTATGTTTAAAAATCATTTTAAAATGCT
39528 AAAATATTTTTCATCAATTTTGTAATATTTTTCCCTGGACGTGCATCAAAATATCTTTATAACGG
326 AAAATATTTTTCATCAATTTTGTAATATTTTTCCCTGGACGTGCATCAAAATATCTTTATAACGG
39593 TTCTTGTTGGCCTTTGAATCGTTTCGGATGAGGGAGTTATAAGTTTTCAAACCTAAGCTATCCAG
391 TTCTTGTTGGCCTTTGAATCGTTTCGGATGAGGGAGTTATAAGTTTTCAAACCTAAGCTATCCAG
39658 AACTCCTAGAATCAGCGATTCGTATTTTGATCGGGCCGTTTTGGCCCACTAGATGTTTTTCCTAG
456 AACTCCTAGAATCAGCGATTCGTATTTTGATCGGGCCGTTTTGGCCCACTAGATGTTTTTCCTAG
39723 ATTTTCCAAATAATTTTCATAAAAACTTCATGAAATTCTTTTTTTGAAAAGGTATCGTGTGTAAT
521 ATTTTCCAAATAATTTTCATAAAAACTTCATGAAATTCTTTTTTTGAAAAGGTATCGTGTGTAAT
39788 TTTTTGATACCTAATGAATTCGAGGTGATTTTTCAAAGTTTGGCTCACCCTTTC
586 TTTTTGATACCTAATGAATTCGAGGTGATTTTTCAAAGTTTGGCTCACCCTTTC
39842 TTTGGATAGTCTGAACGAATGATGTTGGGGGCTAATTGTGTTGATTTGATGCTTATTTTTGCTTG
1 TTTGGATAGTCTGAACGAATGATGTTGGGGGCTAATTGTGTTGATTTGATGCTTATTTTTGCTTG
39907 GTTTCCATGCTGTATAAGTTGTTTAACAAGATTTGCAAACATAAGGATTAAATTGTAAAAATAAA
66 GTTTCCATGCTGTATAAGTTGTTTAACAAGATTTGCAAACATAAGGATTAAATTGTAAAAATAAA
39972 AAATCTTGATCTATGCAAATATATGTTAGGTTAAACCTTGTAAGAAATTTTTGCATGATTTGTTG
131 AAATCTTGATCTATGCAAATATATGTTAGGTTAAACCTTGTAAGAAATTTTTGCATGATTTGTTG
40037 ATGATTTCAGGTTGATTTAATGACTTGATTGTGTTGGAAAAATCCCTTAATCGAAACTCTCCCTT
196 ATGATTTCAGGTTGATTTAATGACTTGATTGTGTTGGAAAAATCCCTTAATCGAAACTCTCCCTT
40102 GTTTTGGCTCCAATTTTTTGCTGGCAACAACGATATTGTATGTTTAAAAATCATTTTAAAATGCT
261 GTTTTGGCTCCAATTTTTTGCTGGCAACAACGATATTGTATGTTTAAAAATCATTTTAAAATGCT
40167 AAAATATTTTTCATCAATTTTGTAATATTTTTCCCTGGACGTGCATCAAAATATCTTTATAACGG
326 AAAATATTTTTCATCAATTTTGTAATATTTTTCCCTGGACGTGCATCAAAATATCTTTATAACGG
40232 TTCTTGTTGGCCTTTGAATCGTTTCGGATGAGGGAGTTATAAGTTTTCAAACCTAAGCTATCCAG
391 TTCTTGTTGGCCTTTGAATCGTTTCGGATGAGGGAGTTATAAGTTTTCAAACCTAAGCTATCCAG
40297 AACTCCTAGAATCAGCGATTCGTATTTTGATCGGGCCGTTTTGGCCCACTAGATGTTTTTCCTAG
456 AACTCCTAGAATCAGCGATTCGTATTTTGATCGGGCCGTTTTGGCCCACTAGATGTTTTTCCTAG
40362 ATTTTCCAAATAATTTTCATAAAAACTTCATGAAATTCTTTTTTTGAAAAGGTATCGTGTGTAAT
521 ATTTTCCAAATAATTTTCATAAAAACTTCATGAAATTCTTTTTTTGAAAAGGTATCGTGTGTAAT
*
40427 TTTTTGATACCTAATGAATTCGGGGTGATTTTTCAAAGTTTGGCTCACCCTTTC
586 TTTTTGATACCTAATGAATTCGAGGTGATTTTTCAAAGTTTGGCTCACCCTTTC
40481 TTT
1 TTT
40484 CATGTGCTCT
Statistics
Matches: 641, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
639 641 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (639 bp):
TTTGGATAGTCTGAACGAATGATGTTGGGGGCTAATTGTGTTGATTTGATGCTTATTTTTGCTTG
GTTTCCATGCTGTATAAGTTGTTTAACAAGATTTGCAAACATAAGGATTAAATTGTAAAAATAAA
AAATCTTGATCTATGCAAATATATGTTAGGTTAAACCTTGTAAGAAATTTTTGCATGATTTGTTG
ATGATTTCAGGTTGATTTAATGACTTGATTGTGTTGGAAAAATCCCTTAATCGAAACTCTCCCTT
GTTTTGGCTCCAATTTTTTGCTGGCAACAACGATATTGTATGTTTAAAAATCATTTTAAAATGCT
AAAATATTTTTCATCAATTTTGTAATATTTTTCCCTGGACGTGCATCAAAATATCTTTATAACGG
TTCTTGTTGGCCTTTGAATCGTTTCGGATGAGGGAGTTATAAGTTTTCAAACCTAAGCTATCCAG
AACTCCTAGAATCAGCGATTCGTATTTTGATCGGGCCGTTTTGGCCCACTAGATGTTTTTCCTAG
ATTTTCCAAATAATTTTCATAAAAACTTCATGAAATTCTTTTTTTGAAAAGGTATCGTGTGTAAT
TTTTTGATACCTAATGAATTCGAGGTGATTTTTCAAAGTTTGGCTCACCCTTTC
Found at i:41131 original size:169 final size:168
Alignment explanation
Indices: 40852--41378 Score: 779
Period size: 169 Copynumber: 3.1 Consensus size: 168
40842 CGATTTTATT
* *
40852 TACTCCAACCACGTTTTTCTAAACTCATTGAAATTTAAATCTTATTTTGTCTAAATTATCA-TGT
1 TACTCCAACCCCGTTTTT-TAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCATTGT
* * *
40916 CGGGGATACTCCAATCACGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGGTTAAATTG
65 C-GGGATACTCCAACCCCGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTG
* * * **
40981 TCGTCATTGGGGACACTTCAATCCCATTCCTCTGAAAGGA
129 TCATCATCGGGGACACTTCAACCCCATTCCTCTGAGGGGA
*
41021 TACTCCAACCCCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATTATTGTC
1 TACTCCAACCCCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCATTGTC
41086 GGAGATACTCCAACCCCGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGT
66 GG-GATACTCCAACCCCGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGT
*
41151 CATCATCGGGGACACTTCAACCCCATTCCTCCGAGGGGA
130 CATCATCGGGGACACTTCAACCCCATTCCTCTGAGGGGA
* * *
41190 TACTCCAACCCCATTTTTTAAACTTATCAAAATTTAAATCTTATTTTGTCTAAATTATCATTGTC
1 TACTCCAACCCCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCATTGTC
** * * *
41255 AGGGATACTCCAACCCTATTTTTTTTAAACTCATCAAAGTTTAAATCTTATTCTCGCTTAAATTA
66 -GGGATACTCCAACCC-CGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTG
* *
41320 TCATCATCGGGGATC-CTCCAACCCCATTCATCTGAGGGGA
129 TCATCATCGGGGA-CACTTCAACCCCATTCCTCTGAGGGGA
*
41360 TACTCCAACCCCTTTTTTT
1 TACTCCAACCCCGTTTTTT
41379 CAATCAAAAA
Statistics
Matches: 328, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
168 42 0.13
169 187 0.57
170 98 0.30
171 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (168 bp):
TACTCCAACCCCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCATTGTC
GGGATACTCCAACCCCGTTTTTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTC
ATCATCGGGGACACTTCAACCCCATTCCTCTGAGGGGA
Found at i:41301 original size:72 final size:71
Alignment explanation
Indices: 41186--41347 Score: 211
Period size: 72 Copynumber: 2.3 Consensus size: 71
41176 TTCCTCCGAG
* *
41186 GGGATACTCCAACCCCATTTTTTAAACTTATCAAAATTTAAATCTTATT-TTG-TCTAAATTATC
1 GGGATACTCCAACCCCATTTTTTAAACTCATCAAAATTTAAATCTTATTCTCGCT-TAAATTATC
**
41249 ATTGTCA
65 ATCATCA
* *
41256 GGGATACTCCAACCCTATTTTTTTTAAACTCATCAAAGTTTAAATCTTATTCTCGCTTAAATTAT
1 GGGATACTCCAACCCCA--TTTTTTAAACTCATCAAAATTTAAATCTTATTCTCGCTTAAATTAT
*
41321 CATCATCG
64 CATCATCA
*
41329 GGGATCCTCCAACCCCATT
1 GGGATACTCCAACCCCATT
41348 CATCTGAGGG
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
70 16 0.20
71 2 0.03
72 30 0.38
73 30 0.38
74 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (71 bp):
GGGATACTCCAACCCCATTTTTTAAACTCATCAAAATTTAAATCTTATTCTCGCTTAAATTATCA
TCATCA
Found at i:43304 original size:21 final size:21
Alignment explanation
Indices: 43266--43305 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43256 ATTGTCAGGG
**
43266 TTTATTCTTTACCTTTATTCT
1 TTTATTCTTTACAATTATTCT
*
43287 TTTATTCTTTGCAATTATT
1 TTTATTCTTTACAATTATT
43306 TGCATGTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTATTCTTTACAATTATTCT
Found at i:44574 original size:38 final size:38
Alignment explanation
Indices: 44501--44573 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
44491 CAAGTCGAAA
44501 GCAAAAGCACAAAAAATAAAAAGAAAAACAAAAAAAGT
1 GCAAAAGCACAAAAAATAAAAAGAAAAACAAAAAAAGT
* *
44539 GCAAAAGCA-AAATAAA-GAAAAGAACAACAAAAAAA
1 GCAAAAGCACAAA-AAATAAAAAGAAAAACAAAAAAA
44574 AATAAGGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 20 0.62
38 12 0.38
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.04
Consensus pattern (38 bp):
GCAAAAGCACAAAAAATAAAAAGAAAAACAAAAAAAGT
Found at i:45819 original size:29 final size:28
Alignment explanation
Indices: 45755--47243 Score: 706
Period size: 29 Copynumber: 51.9 Consensus size: 28
45745 AAAAACTCAC
**
45755 AGTAAGTGGCACATTTTCAAAGCCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * *
45783 AGTTAGT-GCTATCCTTTCAAAAACCCACA
1 AGTAAGTGGC-ACCCTTTC-AAAGCCCACA
* *** * *
45812 AGTCAGTGGCATATTTTTAAAGCTCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
45840 AGTAAGTGGCACCCTTTCAAATGCCCACA
1 AGTAAGTGGCACCCTTTCAAA-GCCCACA
45869 AGTAAGTGGCACCCTTTCAAAGCCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* ** * * * *
45897 AGTCAGTAACA-TCTTTCCAATCCTTTCAAA
1 AGTAAGTGGCACCCTTTCAAAGCC---CACA
* * *
45927 AGCCCACAAGTCAATGGCACCCTTTTAAAACCCACA
1 AG----TAAG----TGGCACCCTTTCAAAGCCCACA
* * * *
45963 AGTCAGTGGTACCTTTTTCAAAGCCTACA
1 AGTAAGTGGCACC-CTTTCAAAGCCCACA
** * * * *
45992 AGCCAGTGACATCCTTTTAAAAGCTCACA
1 AGTAAGTGGCA-CCCTTTCAAAGCCCACA
* * *
46021 AGTCAGTGGCACCCTTTAAAAGCCCATGA
1 AGTAAGTGGCACCCTTTCAAAGCCCA-CA
* ** * *
46050 ACT-AGTGGCATTCTTTTAAAACCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* *
46077 ACTCAGTGGCACCCTTTTCAAAGCCCACAA
1 AGTAAGTGGCACCC-TTTCAAAGCCCAC-A
* **
46107 ACT-AGTGGCACATTTTTCAAAGCCCACA
1 AGTAAGTGGCAC-CCTTTCAAAGCCCACA
*
46135 AGTCAGTGGCACCCTTTTCAAAGCCCACA
1 AGTAAGTGGCACCC-TTTCAAAGCCCACA
* * * *
46164 AGTCAGTGGTACCCTTTCAAAAGCCTATA
1 AGTAAGTGGCACCCTTTC-AAAGCCCACA
** * *
46193 AGTAAGTGGCACGTTTTTAAAGCCTACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* ** * **
46221 AGTCAGTGGCATTCTTTC-AATCCTTTCA
1 AGTAAGTGGCACCCTTTCAAAGCC-CACA
* * * *
46249 A--AAGTGGCACTCTTTTATAGCCCATA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * *
46275 AGTCAGTCGCACCTTTTTCAAAGCCCACA
1 AGTAAGTGGCACC-CTTTCAAAGCCCACA
** * *
46304 AGCCAGTGGCACCTTTTCAAAAGCTCACA
1 AGTAAGTGGCACCCTTTC-AAAGCCCACA
* * * *
46333 AGTCAGTGGCACCCTTTTAAAGCTCAGA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* **
46361 AGTTAGTAACACCCTTTTCAAAGCCCACA
1 AGTAAGTGGCACCC-TTTCAAAGCCCACA
*
46390 AGTCAA-TGGAACCC-TTCAAAAGCCCACA
1 AGT-AAGTGGCACCCTTTC-AAAGCCCACA
* * * *
46418 AGTTAGTGACACCCTTTTAAAGCCAACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
*** * * *
46446 AGTCAA-TAATACCATTTTTAAAGCCCATA
1 AGT-AAGTGGCACC-CTTTCAAAGCCCACA
*
46475 AGCT-AGTGGCACCCTTTCAAAAGTCCACA
1 AG-TAAGTGGCACCCTTTC-AAAGCCCACA
* * * *
46504 AGTCAGTGGCACCCTTTAAAAGCTCACG
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
** * * *
46532 AGCCAGTGGCACTCTTTTAAAACCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * * *
46560 A-CACAGTGGCACCTTTTTAAAAGCCCACG
1 AGTA-AGTGGCACC-CTTTCAAAGCCCACA
* * * *
46589 AGTCAGTGGCACCATTTTTAAATCCCACA
1 AGTAAGTGGCACC-CTTTCAAAGCCCACA
* *
46618 AGCT-AGTGGCACCCTTTTAAAAGCTCACA
1 AG-TAAGTGGCACCC-TTTCAAAGCCCACA
* * * * * *
46647 AATCAGTGGCGCTCTTTTAAAAGCCCATA
1 AGTAAGTGGCAC-CCTTTCAAAGCCCACA
* *
46676 AGTAAGTGGCACCCTTTTAAAGCCTACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* **
46704 AGTCAA-TGACACTTGTTTCAAAGCCCACA
1 AGT-AAGTGGCAC-CCTTTCAAAGCCCACA
* *
46733 AGTCAA-TAGAACCC-TTCAAAAGCCCACA
1 AGT-AAGTGGCACCCTTTC-AAAGCCCACA
* * * * *
46761 AGTCAGTAGCACCATTTTAAAGCTCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * *
46789 AGTTAGTGACACCTATTTCAAAGCCCACA
1 AGTAAGTGGCACC-CTTTCAAAGCCCACA
* * * *
46818 AGTTAGTGGCACCTTTTTAATGCCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * *
46846 AGTCAGTAGCACCATTTTCAAAGCCCACA
1 AGTAAGTGGCACC-CTTTCAAAGCCCACA
*
46875 AGCT-AGTGGCACCGTTTCAAAAGCCTCACA
1 AG-TAAGTGGCACCCTTTC-AAAGCC-CACA
* * *
46905 AGTCAGAT-GCACCATTTTAAAGCCCACA
1 AGTAAG-TGGCACCCTTTCAAAGCCCACA
* ** *
46933 AGTCAGTGGCATCTTTTTCAAAACCCACA
1 AGTAAGTGGCA-CCCTTTCAAAGCCCACA
** *
46962 AGTCAA-TGAAACCC-TTCAAAAGCTCACA
1 AGT-AAGTGGCACCCTTTC-AAAGCCCACA
* * * *
46990 AGTCAGTGACACCCTTTTAAAACCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* *
47018 AGTTAA-TGGCACCATTTTCAAAGCCCATA
1 AG-TAAGTGGCACC-CTTTCAAAGCCCACA
*
47047 AGCT-AGTGTCACCCTTTCAAAAGCCCACA
1 AG-TAAGTGGCACCCTTTC-AAAGCCCACA
* *
47076 AGTCAGTGGCACCCTTTTAAAGCCCACA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * * * *
47104 AATTAGTCGCACCTTTTCAAAGCCCAAA
1 AGTAAGTGGCACCCTTTCAAAGCCCACA
* * * *
47132 AGCT-ATTGGCACCATTTTAAAGCTCACA
1 AG-TAAGTGGCACCCTTTCAAAGCCCACA
* * * *
47160 AGCCAA-TGGCACTCTTTTAAAACCCACA
1 AG-TAAGTGGCACCCTTTCAAAGCCCACA
* ** *
47188 AGTCAGTGGCACATTTTCAAAAGCCCACG
1 AGTAAGTGGCACCCTTTC-AAAGCCCACA
47217 AGTCAA-TGGCACCCTTTTCAAAGCCCA
1 AGT-AAGTGGCACCC-TTTCAAAGCCCA
47244 ACCTACACAA
Statistics
Matches: 1124, Mismatches: 258, Indels: 157
0.73 0.17 0.10
Matches are distributed among these distances:
26 14 0.01
27 37 0.03
28 462 0.41
29 550 0.49
30 40 0.04
31 1 0.00
32 2 0.00
34 2 0.00
36 5 0.00
38 3 0.00
39 8 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (28 bp):
AGTAAGTGGCACCCTTTCAAAGCCCACA
Found at i:45828 original size:57 final size:57
Alignment explanation
Indices: 45741--47238 Score: 497
Period size: 57 Copynumber: 26.1 Consensus size: 57
45731 TCTTTTTCAT
* * *
45741 TTTCAAAAACTCAC-AGTAAGTGGCACATTTTCAAAGCCCACAAGTTAGT-GCTATCC
1 TTTCAAAAACCCACAAGTAAGTGGCACATTTTCAAAGCCCACAAGTAAGTGGC-ACCC
* * * *
45797 TTTCAAAAACCCACAAGTCAGTGGCATATTTTTAAAGCTCACAAGTAAGTGGCACCC
1 TTTCAAAAACCCACAAGTAAGTGGCACATTTTCAAAGCCCACAAGTAAGTGGCACCC
** ** * **
45854 TTTCAAATGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAACATCTTTCCAATC
1 TTTCAAAAACCCACAAGTAAGTGGCACATTTTCAAAGCCCACAAGTAAGTGGCA------C---C
45919 C
57 C
* * * * * *
45920 TTTCAAAAGCCCACAAGTCAA-TGGCACCCTTTT-AAAACCCACAAGTCAGTGGTACCTT
1 TTTCAAAAACCCACAAGT-AAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACC-C
* * ** * * * * *
45978 TTTC-AAAGCCTACAAGCCAGTGACATCCTTTTAAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * * * *
46035 TTT-AAAAGCCCATGAACT-AGTGGCATTC-TTTT-AAAACCCACAACTCAGTGGCACCC
1 TTTCAAAAACCCA-CAAGTAAGTGGCA--CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * *
46091 TTTTC-AAAGCCCACAAACT-AGTGGCACATTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAAACCCAC-AAGTAAGTGGCACA-TTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * ** * * *
46149 TTTTC-AAAGCCCACAAGTCAGTGGTACCCTTTCAAAAGCCTATAAGTAAGTGGCA-CG
1 -TTTCAAAAACCCACAAGTAAGTGGCACATTTTC-AAAGCCCACAAGTAAGTGGCACCC
** * * * * * ** *
46206 TTTTTAAAGCCTACAAGTCAGTGGCA-TTCTTTC-AATCCTTTCAA--AAGTGGCACTC
1 TTTCAAAAACCCACAAGTAAGTGGCACAT-TTTCAAAGCC-CACAAGTAAGTGGCACCC
* * * * * * * ** *
46261 TTT-TATAGCCCATAAGTCAGTCGCACCTTTTTCAAAGCCCACAAGCCAGTGGCACCT
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * * * * * **
46318 TTTCAAAAGCTCACAAGTCAGTGGCACCCTTTT-AAAGCTCAGAAGTTAGTAACACCC
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * ** * *
46375 TTTTC-AAAGCCCACAAGTCAA-TGGAAC-CCTTCAAAAGCCCACAAGTTAGTGACACCC
1 -TTTCAAAAACCCACAAGT-AAGTGGCACATTTTC-AAAGCCCACAAGTAAGTGGCACCC
* * * *** * *
46432 TTT-TAAAGCCAACAAGTCAA-TAATACCATTTTTAAAGCCCATAAGCT-AGTGGCACCC
1 TTTCAAAAACCCACAAGT-AAGTGGCA-CATTTTCAAAGCCCACAAG-TAAGTGGCACCC
** * ** * * * ** *
46489 TTTCAAAAGTCCACAAGTCAGTGGCACCCTTTAAAAGCTCACGAGCCAGTGGCACTC
1 TTTCAAAAACCCACAAGTAAGTGGCACATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * * * * *
46546 TTT-TAAAACCCACAA-CACAGTGGCACCTTTTTAAAAGCCCACGAGTCAGTGGCACCA
1 TTTCAAAAACCCACAAGTA-AGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
** * * * * * * * *
46603 TTTTTAAATCCCACAAGCT-AGTGGCACCCTTTTAAAAGCTCACAAATCAGTGGCGCTC
1 TTTCAAAAACCCACAAG-TAAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * * * * **
46661 TTTTAAAAGCCCATAAGTAAGTGGCACCCTTTT-AAAGCCTACAAGTCAA-TGACACTTG
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAGT-AAGTGGCAC-CC
* * * ** * * *
46719 TTTC-AAAGCCCACAAGTCAA-TAGAAC-CCTTCAAAAGCCCACAAGTCAGTAGCACCA
1 TTTCAAAAACCCACAAGT-AAGTGGCACATTTTC-AAAGCCCACAAGTAAGTGGCACCC
* * * * * * *
46775 TTT-TAAAGCTCACAAGTTAGTGACACCTATTTCAAAGCCCACAAGTTAGTGGCA-CC
1 TTTCAAAAACCCACAAGTAAGTGGCACAT-TTTCAAAGCCCACAAGTAAGTGGCACCC
** ** * * *
46831 TTTTTAATGCCCACAAGTCAGTAGCACCATTTTCAAAGCCCACAAGCT-AGTGGCACCG
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAG-TAAGTGGCACCC
* * * **
46889 TTTCAAAAGCCTCACAAGTCAGAT-GCACCATTTT-AAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAAACC-CACAAGTAAG-TGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCA-CCC
** ** * * *
46948 TTTC-AAAACCCACAAGTCAA-TGAAAC-CCTTCAAAAGCTCACAAGTCAGTGACACCC
1 TTTCAAAAACCCACAAGT-AAGTGGCACATTTTC-AAAGCCCACAAGTAAGTGGCACCC
* * *
47004 TTT-TAAAACCCACAAGTTAA-TGGCACCATTTTCAAAGCCCATAAGCT-AGTGTCACCC
1 TTTCAAAAACCCACAAG-TAAGTGGCA-CATTTTCAAAGCCCACAAG-TAAGTGGCACCC
* * * * * * *
47061 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAATTAGTCGCACCT
1 TTTCAAAAACCCACAAGTAAGTGGCA-CATTTTCAAAGCCCACAAGTAAGTGGCACCC
* * * * * *
47118 TTTC-AAAGCCCAAAAGCT-ATTGGCACCATTTT-AAAGCTCACAAGCCAA-TGGCACTC
1 TTTCAAAAACCCACAAG-TAAGTGGCA-CATTTTCAAAGCCCACAAG-TAAGTGGCACCC
* * *
47174 TTT-TAAAACCCACAAGTCAGTGGCACATTTTCAAAAGCCCACGAGTCAA-TGGCACCC
1 TTTCAAAAACCCACAAGTAAGTGGCACATTTTC-AAAGCCCACAAGT-AAGTGGCACCC
47231 TTTTCAAA
1 -TTTCAAA
47239 GCCCAACCTA
Statistics
Matches: 1123, Mismatches: 226, Indels: 183
0.73 0.15 0.12
Matches are distributed among these distances:
54 26 0.02
55 29 0.03
56 189 0.17
57 519 0.46
58 282 0.25
59 27 0.02
60 2 0.00
63 1 0.00
66 41 0.04
67 7 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (57 bp):
TTTCAAAAACCCACAAGTAAGTGGCACATTTTCAAAGCCCACAAGTAAGTGGCACCC
Found at i:45965 original size:28 final size:28
Alignment explanation
Indices: 45925--47243 Score: 987
Period size: 29 Copynumber: 46.3 Consensus size: 28
45915 AATCCTTTCA
*
45925 AAAGCCCACAAGTCAATGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
45953 AAAACCCACAAGTCAGTGGTACCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * *
45981 CAAAGCCTACAAGCCAGTGACATCCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46010 AAAAGCTCACAAGTCAGTGGCACCCTTTA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* * **
46039 AAAGCCCATGAACT-AGTGGCATTCTTTT
1 AAAGCCCA-CAAGTCAGTGGCACCCTTTT
* *
46067 AAAACCCACAACTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* **
46095 CAAAGCCCACAA-ACTAGTGGCACATTTTT
1 -AAAGCCCACAAGTC-AGTGGCACCCTTTT
46124 CAAAGCCCACAAGTCAGTGGCACCCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46153 CAAAGCCCACAAGTCAGTGGTACCCTTTCA
1 -AAAGCCCACAAGTCAGTGGCACCCTTT-T
* * * **
46183 AAAGCCTATAAGTAAGTGGCACGTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* **
46211 AAAGCCTACAAGTCAGTGGCATTC-TTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * ** * *
46238 CAATCCTTTCAA--AAGTGGCACTCTTTT
1 AAAGCC-CACAAGTCAGTGGCACCCTTTT
* * * *
46265 ATAGCCCATAAGTCAGTCGCACCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
*
46293 CAAAGCCCACAAGCCAGTGGCA-CCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
*
46321 CAAAAGCTCACAAGTCAGTGGCACCCTTTT
1 --AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * **
46351 AAAGCTCAGAAGTTAGTAACACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * **
46379 CAAAGCCCACAAGTCAATGGAACCCTTCA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46408 AAAGCCCACAAGTTAGTGACACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *** *
46436 AAAGCCAACAAGTCAATAATACCATTTTT
1 AAAGCCCACAAGTCAGTGGCACC-CTTTT
* *
46465 AAAGCCCATAAG-CTAGTGGCACCCTTTCA
1 AAAGCCCACAAGTC-AGTGGCACCCTTT-T
* *
46494 AAAGTCCACAAGTCAGTGGCACCCTTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * *
46522 AAAGCTCACGAGCCAGTGGCACTCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* ** *
46550 AAAACCCACAACACAGTGGCACCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46578 AAAAGCCCACGAGTCAGTGGCACCATTTTT
1 -AAAGCCCACAAGTCAGTGGCACC-CTTTT
*
46608 AAATCCCACAAG-CTAGTGGCACCCTTTT
1 AAAGCCCACAAGTC-AGTGGCACCCTTTT
* * * *
46636 AAAAGCTCACAAATCAGTGGCGCTCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46665 AAAAGCCCATAAGTAAGTGGCACCCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * *
46694 AAAGCCTACAAGTCAATGACA-CTTGTTT
1 AAAGCCCACAAGTCAGTGGCACCCT-TTT
* * * **
46722 CAAAGCCCACAAGTCAATAGAACCCTTCA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46751 AAAGCCCACAAGTCAGTAGCACCATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
46779 AAAGCTCACAAGTTAGTGACA-CCTATTT
1 AAAGCCCACAAGTCAGTGGCACCCT-TTT
* *
46807 CAAAGCCCACAAGTTAGTGGCACCTTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
46836 AATGCCCACAAGTCAGTAGCACCATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46864 CAAAGCCCACAAG-CTAGTGGCACCGTTTCA
1 -AAAGCCCACAAGTC-AGTGGCACCCTTT-T
*
46894 AAAGCCTCACAAGTCAGAT-GCACCATTTT
1 AAAGCC-CACAAGTCAG-TGGCACCCTTTT
* *
46923 AAAGCCCACAAGTCAGTGGCATCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * ** **
46951 CAAAACCCACAAGTCAATGAAACCCTTCA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
46980 AAAGCTCACAAGTCAGTGACACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * *
47008 AAAACCCACAAGTTAATGGCACCATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
47036 CAAAGCCCATAAG-CTAGTGTCACCCTTTCA
1 -AAAGCCCACAAGTC-AGTGGCACCCTTT-T
47066 AAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
47094 AAAGCCCACAAATTAGTCGCA-CCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
47121 CAAAGCCCAAAAG-CTATTGGCACCATTTT
1 -AAAGCCCACAAGTC-AGTGGCACCCTTTT
* * * *
47150 AAAGCTCACAAGCCAATGGCACTCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
47178 AAAACCCACAAGTCAGTGGCA-CATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
47205 CAAAAGCCCACGAGTCAATGGCACCCTTTT
1 --AAAGCCCACAAGTCAGTGGCACCCTTTT
47235 CAAAGCCCA
1 -AAAGCCCA
47244 ACCTACACAA
Statistics
Matches: 1011, Mismatches: 231, Indels: 97
0.76 0.17 0.07
Matches are distributed among these distances:
26 11 0.01
27 32 0.03
28 438 0.43
29 488 0.48
30 40 0.04
31 2 0.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTT
Found at i:45993 original size:95 final size:95
Alignment explanation
Indices: 45830--46004 Score: 237
Period size: 95 Copynumber: 1.8 Consensus size: 95
45820 GCATATTTTT
* *
45830 AAAGCTCACAAGTAAGTGGCACCCTTTCAAATGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCA
1 AAAGCCCACAAGTAAGTGGCACCCTTTCAAATACCCACAAGTAAGTGGCACCCTTTCAAAGCCCA
*
45895 CAAGTCAGTAACATCTTTCCAATCCTTTCA
66 CAAGCCAGTAACATCTTTCCAATCCTTTCA
* * * *
45925 AAAGCCCACAAGTCAA-TGGCACCCTTTTAAA-ACCCACAAGTCAGTGGTACCTTTTTCAAAGCC
1 AAAGCCCACAAGT-AAGTGGCACCCTTTCAAATACCCACAAGTAAGTGGCACC-CTTTCAAAGCC
* *
45988 TACAAGCCAGTGACATC
64 CACAAGCCAGTAACATC
46005 CTTTTAAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 17 0.25
95 50 0.72
96 2 0.03
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.22
Consensus pattern (95 bp):
AAAGCCCACAAGTAAGTGGCACCCTTTCAAATACCCACAAGTAAGTGGCACCCTTTCAAAGCCCA
CAAGCCAGTAACATCTTTCCAATCCTTTCA
Found at i:47403 original size:30 final size:31
Alignment explanation
Indices: 47248--47468 Score: 150
Period size: 32 Copynumber: 7.0 Consensus size: 31
47238 AGCCCAACCT
* * * *
47248 ACACAAGTTGGTGGCAACTATTTTCTAAAGTCC
1 ACACAAGTCGGTGGCAAC-CTCTT-TAAAGCCC
* *
47281 ACACAAG-CTGGTAGCAA-CTTTTCTCAAAGCCC
1 ACACAAGTC-GGTGGCAACCTCTT-T-AAAGCCC
* * *
47313 ACACAAGTAGGTGGCAACCT-TCTCAAAGCCT
1 ACACAAGTCGGTGGCAACCTCT-TTAAAGCCC
* * *
47344 ACATAAG-CTGGTGGTAACCCTCTCTAAAGCCC
1 ACACAAGTC-GGTGGCAA-CCTCTTTAAAGCCC
* *
47376 ACACAAGTCGATGGCAACGT-TTTAAAGCCC
1 ACACAAGTCGGTGGCAACCTCTTTAAAGCCC
* *
47406 ACATAAGTTGGTGGCAACCTCCTTTAAAGCCC
1 ACACAAGTCGGTGGCAACCT-CTTTAAAGCCC
*
47438 ACGCAAGTCGGTGGCAACC-CTTCT-AAGCCC
1 ACACAAGTCGGTGGCAACCTCTT-TAAAGCCC
47468 A
1 A
47469 ATGTCATTGG
Statistics
Matches: 150, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
30 35 0.23
31 28 0.19
32 68 0.45
33 19 0.13
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (31 bp):
ACACAAGTCGGTGGCAACCTCTTTAAAGCCC
Found at i:47434 original size:62 final size:63
Alignment explanation
Indices: 47248--47468 Score: 209
Period size: 62 Copynumber: 3.5 Consensus size: 63
47238 AGCCCAACCT
* * * * * * * *
47248 ACACAAGTTGGTGGCAACTATTTTCTAAAGTCCACACAAGCTGGTAGCAA-CTTTTCTCAAAGCC
1 ACACAAGTCGGTGGCAAC-CTTCTC-AAAGCCCACATAAGCTGGTGGCAACCCTCTCT-AAAGCC
47312 C
63 C
* * *
47313 ACACAAGTAGGTGGCAACCTTCTCAAAGCCTACATAAGCTGGTGGTAACCCTCTCTAAAGCCC
1 ACACAAGTCGGTGGCAACCTTCTCAAAGCCCACATAAGCTGGTGGCAACCCTCTCTAAAGCCC
* * * * *
47376 ACACAAGTCGATGGCAACGTT-TTAAAGCCCACATAAGTTGGTGGCAA-CCTCCTTTAAAGCCC
1 ACACAAGTCGGTGGCAACCTTCTCAAAGCCCACATAAGCTGGTGGCAACCCT-CTCTAAAGCCC
*
47438 ACGCAAGTCGGTGGCAACCCTTCT--AAGCCCA
1 ACACAAGTCGGTGGCAA-CCTTCTCAAAGCCCA
47469 ATGTCATTGG
Statistics
Matches: 131, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
61 3 0.02
62 54 0.41
63 47 0.36
64 10 0.08
65 17 0.13
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (63 bp):
ACACAAGTCGGTGGCAACCTTCTCAAAGCCCACATAAGCTGGTGGCAACCCTCTCTAAAGCCC
Found at i:47640 original size:61 final size:61
Alignment explanation
Indices: 47533--47647 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
47523 AGCCCAATAT
* * * * *
47533 CGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCATCTTTAAGTTCAATGC
1 CGCTGACCTTAAATCAGCATATTGACACCTTTATCATCCTTATCATCTTTAAGTTCAATGC
* *
47594 CGCTGACCTTAAATTAGCATATTGACA-CTCTTCTCATCCTTATCATCTTTAAGT
1 CGCTGACCTTAAATCAGCATATTGACACCT-TTATCATCCTTATCATCTTTAAGT
47648 CCAGACCTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 2 0.04
61 44 0.96
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (61 bp):
CGCTGACCTTAAATCAGCATATTGACACCTTTATCATCCTTATCATCTTTAAGTTCAATGC
Found at i:47813 original size:174 final size:174
Alignment explanation
Indices: 47479--47824 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
47469 ATGTCATTGG
*
47479 CCTTGAATCAACACATTGACACTTGTCAAATCTTTTTTCTTTCAAGCCCAATATCGCTGGCCTTG
1 CCTTGAATCAACACATTGACACTTGTCAAATATTTTTTCTTTCAAGCCCAATATCGCTGGCCTTG
* * * * *
47544 AATCAGCATATTGGCACCTTTATCATTCTTCTCATCTTTAAGTTCAATGCCGCTGACCTTAAATT
66 AATCAACATATCGGCACCTTTATCATTCTTCGCATCTTTAAGTCCAATGCCGCTGACCTTAAATC
* *
47609 AGCATATTGACACTCTTCTCATCCTTATCATCTTTAAGTCCAGA
131 AGCACATTGACACTATTCTCATCCTTATCATCTTTAAGTCCAGA
* * * *
47653 CCTTGAATCAATACATTGGCGCTTGTCAAATATTTTTTCTTTCAAGCCTAATATCGCTGGCCTTG
1 CCTTGAATCAACACATTGACACTTGTCAAATATTTTTTCTTTCAAGCCCAATATCGCTGGCCTTG
* *
47718 AATCAACATATCGGCACCTTTATCATTCTTCGCATCTTTAAGTCCAATGTCGCT-AGCCTTGAAT
66 AATCAACATATCGGCACCTTTATCATTCTTCGCATCTTTAAGTCCAATGCCGCTGA-CCTTAAAT
* *
47782 CAGCACATT-AGCACTATTTTCATCTTTATCATCTTTAAGTCCA
130 CAGCACATTGA-CACTATTCTCATCCTTATCATCTTTAAGTCCA
47825 AGCCTTAAAT
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 2 0.01
174 152 0.99
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (174 bp):
CCTTGAATCAACACATTGACACTTGTCAAATATTTTTTCTTTCAAGCCCAATATCGCTGGCCTTG
AATCAACATATCGGCACCTTTATCATTCTTCGCATCTTTAAGTCCAATGCCGCTGACCTTAAATC
AGCACATTGACACTATTCTCATCCTTATCATCTTTAAGTCCAGA
Found at i:48504 original size:11 final size:11
Alignment explanation
Indices: 48488--48538 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
48478 TTTTTTTGAT
*
48488 ATAAAATTAAA
1 ATAAAAATAAA
48499 ATAAAAATAAA
1 ATAAAAATAAA
* *
48510 ACAAAAAATGAA
1 A-TAAAAATAAA
*
48522 A-AAAAATCAA
1 ATAAAAATAAA
48532 ATAAAAA
1 ATAAAAA
48539 AATTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 9 0.26
11 16 0.47
12 9 0.26
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:49085 original size:20 final size:23
Alignment explanation
Indices: 49046--49090 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
49036 ATAGCAAGAT
49046 AAAAGGGGGAAGAACGAACA-AA
1 AAAAGGGGGAAGAACGAACACAA
*
49068 AAAATGGGGAA-AAC-AACACAA
1 AAAAGGGGGAAGAACGAACACAA
49089 AA
1 AA
49091 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.62, C:0.11, G:0.24, T:0.02
Consensus pattern (23 bp):
AAAAGGGGGAAGAACGAACACAA
Found at i:49372 original size:35 final size:35
Alignment explanation
Indices: 49325--49401 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
49315 TACACAAGCA
* * *
49325 AGCAAAAGAAGCATATTCGAGCAGCAAGGGATAGC
1 AGCAAAAAAAGCATATACGAGCAGCAAGAGATAGC
49360 AGCAAAAAAAGCATATACGAGCAGCAAGAGATAGC
1 AGCAAAAAAAGCATATACGAGCAGCAAGAGATAGC
49395 AGCAAAA
1 AGCAAAA
49402 GAGGCAGCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.49, C:0.17, G:0.25, T:0.09
Consensus pattern (35 bp):
AGCAAAAAAAGCATATACGAGCAGCAAGAGATAGC
Found at i:49426 original size:13 final size:13
Alignment explanation
Indices: 49405--49438 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
49395 AGCAAAAGAG
49405 GCAGCAGCCAACA
1 GCAGCAGCCAACA
*
49418 GCAGTAGCCAACA
1 GCAGCAGCCAACA
49431 GCAGCAGC
1 GCAGCAGC
49439 TCTAGCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.26, T:0.03
Consensus pattern (13 bp):
GCAGCAGCCAACA
Found at i:49456 original size:22 final size:22
Alignment explanation
Indices: 49426--49477 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
49416 CAGCAGTAGC
49426 CAACAGCAGCAG-CTCTAGCATG
1 CAACAGCAGCAGCCTC-AGCATG
* * *
49448 CAACCGCAGTAGCCTCAGCGTG
1 CAACAGCAGCAGCCTCAGCATG
49470 CAACAGCA
1 CAACAGCA
49478 ATAGCAGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.31, C:0.35, G:0.23, T:0.12
Consensus pattern (22 bp):
CAACAGCAGCAGCCTCAGCATG
Found at i:49717 original size:16 final size:17
Alignment explanation
Indices: 49693--49726 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
49683 CAACAAGGTG
*
49693 AAGAGCAAAAGAA-AAA
1 AAGAACAAAAGAACAAA
49709 AAGAACAAAAGAACAAA
1 AAGAACAAAAGAACAAA
49726 A
1 A
49727 CAGCAGCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (17 bp):
AAGAACAAAAGAACAAA
Found at i:50879 original size:11 final size:11
Alignment explanation
Indices: 50863--50892 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
50853 ACCAGTCTTA
50863 GAACCTCTTTT
1 GAACCTCTTTT
50874 GAACCTCTTTT
1 GAACCTCTTTT
*
50885 GGACCTCT
1 GAACCTCT
50893 CTTAGGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.40
Consensus pattern (11 bp):
GAACCTCTTTT
Found at i:51261 original size:71 final size:70
Alignment explanation
Indices: 51107--51261 Score: 206
Period size: 70 Copynumber: 2.2 Consensus size: 70
51097 TTACTCCGAG
*
51107 GGGATACTCCAACAATTTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCAT
1 GGGATACTCCAACCATTTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCAT
*
51172 TATCA
66 CATCA
* *
51177 GGGATACTCCAACCATTTTTTTTAAAGTCATC-AAAGTTTAAATCTTATTTTCGGT-TAAATTGT
1 GGGATACTCCAACCATTTTTTTTAAACTCATCGAAA-TTTAAATCTTATTTT--GTCTAAATTAT
*
51240 TATCATCA
63 CATCATCA
* *
51248 GGGACACTTCAACC
1 GGGATACTCCAACC
51262 CCATTCCTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
69 3 0.04
70 45 0.60
71 25 0.33
72 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (70 bp):
GGGATACTCCAACCATTTTTTTTAAACTCATCGAAATTTAAATCTTATTTTGTCTAAATTATCAT
CATCA
Found at i:51466 original size:170 final size:169
Alignment explanation
Indices: 51028--51638 Score: 813
Period size: 170 Copynumber: 3.6 Consensus size: 169
51018 CCAGCCCCGC
* * * *
51028 TTTTATACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTTATCATC-GAGGACACTCCAA
1 TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAG-GGACACTCCAA
* * * *
51092 CCTCATTACTCCGAGGGGATACTCCAACAAT-TTTTTTTAAACTCATCGAAATTTAAATCTTATT
65 CCTCATTCCTCCAAGGGGATACTCCAAC-CTCGTTTTTTAAACTCATCGAAATTTAAATCTTATT
51156 TTGTCTAAATTATCATTATCAGGGATACTCCAA--CCATTTT
129 TTGTCTAAATTATCATTATCA-GGATACTCCAACCCCATTTT
* * * *
51196 TTTTAAAGTCATCAAAGTTTAAATCTTATTTTCGGTTAAATTGTTATCATCAGGGACACTTCAAC
1 TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAGGGACACTCCAAC
* * *
51261 CCCATTCCTTCGAA-GGGATACTCCAACCCCGTTTTTTAAACTCATCGAAATTTAAATCTTATTT
66 CTCATTCC-TCCAAGGGGATACTCCAACCTCGTTTTTTAAACTCATCGAAATTTAAATCTTATTT
*
51325 TGTCTAAATTATCATTGTCGAGGATACTCCAACCCCATTTT
130 TGTCTAAATTATCATTATC-AGGATACTCCAACCCCATTTT
*
51366 TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAGGGACATTCCAAC
1 TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAGGGACACTCCAAC
* * *
51431 CTCATTCCTCCAAGGGAATACTTCAATCTCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTT
66 CTCATTCCTCCAAGGGGATACTCCAACCTCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTT
* * *
51496 GTCTAAATTATCATTATCAAGGATACTCTAACCTC-GTTT
131 GTCTAAATTATCATTATC-AGGATACTCCAACCCCATTTT
* * * * * * *
51535 TTTTAAATTCATTAAAGTTTAAATCTTATTCTCGCTTAAATTTTCATCATCGGGGACACTACAAT
1 TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAGGGACACTCCAA-
** *
51600 CCT-ATTCCTCTGAGGGGATACTCCAACCTCTTTTTTTAA
65 CCTCATTCCTCCAAGGGGATACTCCAACCTCGTTTTTTAA
51639 TAAAAAATTA
Statistics
Matches: 391, Mismatches: 44, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
168 138 0.35
169 98 0.25
170 155 0.40
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (169 bp):
TTTTAAACTCATCAAAGTTTAAATCTTATTTTCGATTAAATTGTCATCATCAGGGACACTCCAAC
CTCATTCCTCCAAGGGGATACTCCAACCTCGTTTTTTAAACTCATCGAAATTTAAATCTTATTTT
GTCTAAATTATCATTATCAGGATACTCCAACCCCATTTT
Found at i:54047 original size:64 final size:64
Alignment explanation
Indices: 53946--54065 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
53936 TATCTGACTA
*
53946 TCCAAATGTCTATATGAAAAGATATTTAGTTTTTTATAAATAGACCCTATGTTTTGGATGATTG
1 TCCAAATGTCTATATGAAAAGATATTTAGTTTTTTATAAACAGACCCTATGTTTTGGATGATTG
* *
54010 TCCAAATGTCTATATGAAAAGATATTTTGTTTTTTATAAACGGACCCTATGTTTTG
1 TCCAAATGTCTATATGAAAAGATATTTAGTTTTTTATAAACAGACCCTATGTTTTG
54066 AAAGACATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (64 bp):
TCCAAATGTCTATATGAAAAGATATTTAGTTTTTTATAAACAGACCCTATGTTTTGGATGATTG
Found at i:54696 original size:17 final size:17
Alignment explanation
Indices: 54674--54723 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
54664 ATTGTCAAAT
54674 AAATTTATTTAATAAAA
1 AAATTTATTTAATAAAA
* *
54691 AAATTTAATTAA-ACTAA
1 AAATTTATTTAATA-AAA
54708 AAATCTTATTT-ATAAA
1 AAAT-TTATTTAATAAA
54724 TTAAACAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 1 0.04
17 19 0.73
18 6 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTATTTAATAAAA
Found at i:54718 original size:22 final size:24
Alignment explanation
Indices: 54693--54743 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
54683 TAATAAAAAA
54693 ATTTAATTAAACT-AA-AAATCTT
1 ATTTAATTAAACTAAACAAATCTT
*
54715 ATTT-A-TAAATTAAACAAATCTT
1 ATTTAATTAAACTAAACAAATCTT
54737 A-TTAATT
1 ATTTAATT
54744 GTAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 13 0.54
23 1 0.04
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTAATTAAACTAAACAAATCTT
Found at i:55382 original size:14 final size:15
Alignment explanation
Indices: 55340--55384 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 15
55330 TTTATATTAT
*
55340 ATTTATTAACTAT--
1 ATTTATTACCTATAA
55353 ATTTATTACCTATAA
1 ATTTATTACCTATAA
*
55368 ATTTATTA-TTATAA
1 ATTTATTACCTATAA
55382 ATT
1 ATT
55385 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.43
14 8 0.29
15 8 0.29
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATTACCTATAA
Found at i:59927 original size:1 final size:1
Alignment explanation
Indices: 59923--59954 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
59913 CCCCCTCCTT
*
59923 CCCCCCCCCCCCCCCCCCCCCCCCGCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
59955 TCCTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:60767 original size:3 final size:3
Alignment explanation
Indices: 60759--60797 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
60749 AATTACAAAG
60759 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60798 GGGTAAGTAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63195 original size:98 final size:97
Alignment explanation
Indices: 62957--63239 Score: 444
Period size: 97 Copynumber: 2.9 Consensus size: 97
62947 AAATGATAAC
* *
62957 AATTTAAGCAAAATTAAGGTTTAAATATTGATAATTTTTAAAAACAGGGTTGGAGTATCCCTTCG
1 AATTTAAGCAAAATTAAGGTTTAAATCTTGATAATTTTTAAAAACGGGGTTGGAGTATCCCTTCG
63022 AAATAATGGGGTTAGAGTATCCCGATGATGAT
66 AAATAATGGGGTTAGAGTATCCCGATGATGAT
*
63054 AATTTAAGCAAAATTAAGGTTTAAATCTTGATAAGTTTTAAAAACGGGGTTGGAGTATCCCTTCG
1 AATTTAAGCAAAATTAAGGTTTAAATCTTGATAATTTTTAAAAACGGGGTTGGAGTATCCCTTCG
63119 AAATAATGGGGTTAGAGTATCTCCGATGATGAT
66 AAATAATGGGGTTAGAGTATC-CCGATGATGAT
* * **
63152 AATTTAAGCAAAATTAAGATTTAAATCTTTATAATTTTTAAAAACGAAGTTGGAGTATCTCC-TC
1 AATTTAAGCAAAATTAAGGTTTAAATCTTGATAATTTTTAAAAACGGGGTTGGAGTATC-CCTTC
* *
63216 -AGAATAATGGGATTGGAGTATCCC
65 GA-AATAATGGGGTTAGAGTATCCC
63240 AATAAAGAAA
Statistics
Matches: 173, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
97 86 0.50
98 85 0.49
99 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (97 bp):
AATTTAAGCAAAATTAAGGTTTAAATCTTGATAATTTTTAAAAACGGGGTTGGAGTATCCCTTCG
AAATAATGGGGTTAGAGTATCCCGATGATGAT
Found at i:67531 original size:20 final size:20
Alignment explanation
Indices: 67506--67544 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
67496 ATGAAATATT
67506 TGGAAAATAAATTTTCTTAA
1 TGGAAAATAAATTTTCTTAA
67526 TGGAAAATAAATTTTCTTA
1 TGGAAAATAAATTTTCTTA
67545 GTAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TGGAAAATAAATTTTCTTAA
Found at i:67551 original size:20 final size:20
Alignment explanation
Indices: 67508--67553 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
67498 GAAATATTTG
*
67508 GAAAATAAATTTTCTTAATG
1 GAAAATAAATTTTCTTAATA
*
67528 GAAAATAAATTTTCTTAGTA
1 GAAAATAAATTTTCTTAATA
67548 GAAAAT
1 GAAAAT
67554 TGGTTTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (20 bp):
GAAAATAAATTTTCTTAATA
Found at i:67802 original size:11 final size:11
Alignment explanation
Indices: 67783--67839 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
67773 TATCTCTCTC
67783 TTTTC-TCTTT
1 TTTTCTTCTTT
67793 TTTTCTTCTTT
1 TTTTCTTCTTT
*
67804 TTTTTTTC-TT
1 TTTTCTTCTTT
67814 TTTTCTCTCTTT
1 TTTTCT-TCTTT
67826 TTTTGC-TCTTT
1 TTTT-CTTCTTT
67837 TTT
1 TTT
67840 CTTTTACTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 12 0.29
11 22 0.54
12 6 0.15
13 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:67808 original size:22 final size:23
Alignment explanation
Indices: 67783--67839 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
67773 TATCTCTCTC
67783 TTTTCTCTTTTTTTCT-TCTTTT
1 TTTTCTCTTTTTTTCTCTCTTTT
*
67805 TTTTTTC-TTTTTTCTCTCTTTT
1 TTTTCTCTTTTTTTCTCTCTTTT
*
67827 TTTGCTCTTTTTT
1 TTTTCTCTTTTTT
67840 CTTTTACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.27
22 17 0.57
23 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTCTCTTTTTTTCTCTCTTTT
Found at i:67837 original size:20 final size:21
Alignment explanation
Indices: 67793--67841 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
67783 TTTTCTCTTT
* * *
67793 TTTTCTTCTTTTTTTTTTCTT
1 TTTTCTTCTCTTTTTTTGCTC
67814 TTTTC-TCTCTTTTTTTGCTC
1 TTTTCTTCTCTTTTTTTGCTC
67834 TTTT-TTCT
1 TTTTCTTCT
67842 TTTACTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTCTTCTCTTTTTTTGCTC
Found at i:67840 original size:22 final size:21
Alignment explanation
Indices: 67775--67841 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
67765 CTTGAAATTA
*
67775 TCTCTC-TCTTTTCTCTTTTT
1 TCTCTCTTTTTTTCTCTTTTT
*
67795 T-TCTTCTTTTTTTTTTCTTTTT
1 TCTC-TC-TTTTTTTCTCTTTTT
67817 TCTCTCTTTTTTTGCTCTTTTT
1 TCTCTCTTTTTTT-CTCTTTTT
67839 TCT
1 TCT
67842 TTTACTTGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 7 0.18
22 25 0.64
23 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (21 bp):
TCTCTCTTTTTTTCTCTTTTT
Found at i:76514 original size:3 final size:3
Alignment explanation
Indices: 76506--76552 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
76496 ACTTACAGTT
76506 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
76553 TTCCTAAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:82204 original size:13 final size:13
Alignment explanation
Indices: 82186--82210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82176 TTCAACGATT
82186 TGTATCGATACAA
1 TGTATCGATACAA
82199 TGTATCGATACA
1 TGTATCGATACA
82211 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:82223 original size:19 final size:19
Alignment explanation
Indices: 82199--82267 Score: 102
Period size: 19 Copynumber: 3.6 Consensus size: 19
82189 ATCGATACAA
*
82199 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTTT
82218 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
* *
82237 TGTATCAATACAAAAGTTT
1 TGTATCGATACATAAGTTT
*
82256 TGCATCGATACA
1 TGTATCGATACA
82268 ATGTATCGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:82397 original size:52 final size:52
Alignment explanation
Indices: 82340--82468 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
82330 TACTAATCTT
*
82340 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
82392 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* **
82444 TGTATTGATACATGCAAACAAATTT
1 TGTATCGATACATGCAGGCAAATTT
82469 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:89820 original size:2 final size:2
Alignment explanation
Indices: 89813--89842 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
89803 TTGCAGTAGA
*
89813 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89843 TAGATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90174 original size:28 final size:27
Alignment explanation
Indices: 90102--90190 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
90092 AAATGTCACC
90102 TTTTGTATTTATCAAATATGGTGATTT
1 TTTTGTATTTATCAAATATGGTGATTT
* *
90129 TTTTATATTTGTCAAATATGGT-AGTTT
1 TTTTGTATTTATCAAATATGGTGA-TTT
*
90156 TCTTTGTATTTATCAAATATGGTGGTTAT
1 T-TTTGTATTTATCAAATATGGTGATT-T
90185 TTTTGT
1 TTTTGT
90191 TTGTAAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 24 0.45
28 26 0.49
29 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (27 bp):
TTTTGTATTTATCAAATATGGTGATTT
Found at i:94736 original size:28 final size:28
Alignment explanation
Indices: 94704--94792 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
94694 AATGCCACCC
94704 TTTGTATTTGTCAAATATGGTGGTTTCT
1 TTTGTATTTGTCAAATATGGTGGTTTCT
* *
94732 TTTGTATTTATCAAATATGGTGGTTTCG
1 TTTGTATTTGTCAAATATGGTGGTTTCT
*
94760 TTTGTATTTGTCAAATATGATGGTTAT-T
1 TTTGTATTTGTCAAATATGGTGGTT-TCT
94788 TTTGT
1 TTTGT
94793 TTGTAAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 54 0.98
29 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTTCT
Found at i:101034 original size:30 final size:27
Alignment explanation
Indices: 101000--101103 Score: 111
Period size: 30 Copynumber: 3.6 Consensus size: 27
100990 GGAGGAGGTG
101000 TTTATTTTTTAAATTTATATAAAAGGTATA
1 TTTATTTTTTAAATTTATA-AAAA--TATA
101030 TTTATTTTTTAATATTTGA-AAAAATATA
1 TTTATTTTTTAA-ATTT-ATAAAAATATA
*
101058 TATTATTTTTTAAAATTTAGTAAAAAAATA
1 T-TTATTTTTT-AAATTTA-TAAAAATATA
101088 TTTATCTTTTTAAATT
1 TTTAT-TTTTTAAATT
101104 ATTATTTTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
28 6 0.09
29 22 0.33
30 32 0.48
31 5 0.08
32 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTATTTTTTAAATTTATAAAAATATA
Found at i:101306 original size:37 final size:38
Alignment explanation
Indices: 101255--101337 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
101245 TTCCTGTTAA
101255 ATTAAATTATTTTTAAA-TTATATTATAATTTAAGTACAT
1 ATTAAA-TATTTTTAAACTTAT-TTATAATTTAAGTACAT
* * *
101294 ATTAAATA-TTTTAAACTTATTTTTAATTTAATTATAT
1 ATTAAATATTTTTAAACTTATTTATAATTTAAGTACAT
101331 ATTAAAT
1 ATTAAAT
101338 TTAAAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 28 0.70
38 6 0.15
39 6 0.15
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (38 bp):
ATTAAATATTTTTAAACTTATTTATAATTTAAGTACAT
Found at i:101551 original size:35 final size:35
Alignment explanation
Indices: 101512--101583 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
101502 TATAATATAC
* *
101512 TATTAATCAAATTAATGTTTATTTAAATTTTATTT
1 TATTAATCAAATTAATATTTATTTAAATTCTATTT
*
101547 TATTAATTAAATTAATATTTATTTAAATTCTATTT
1 TATTAATCAAATTAATATTTATTTAAATTCTATTT
101582 TA
1 TA
101584 AATATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (35 bp):
TATTAATCAAATTAATATTTATTTAAATTCTATTT
Found at i:101567 original size:19 final size:19
Alignment explanation
Indices: 101512--101569 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
101502 TATAATATAC
* *
101512 TATTAATCAAATTAATGTT
1 TATTAATTAAATTAATATT
*
101531 TA-T--TTAAATT-TTATTT
1 TATTAATTAAATTAATA-TT
101547 TATTAATTAAATTAATATT
1 TATTAATTAAATTAATATT
101566 TATT
1 TATT
101570 TAAATTCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 1 0.03
16 10 0.33
17 1 0.03
18 1 0.03
19 15 0.50
20 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTAATTAAATTAATATT
Found at i:101591 original size:35 final size:35
Alignment explanation
Indices: 101515--101592 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
101505 AATATACTAT
* * * *
101515 TAATCAAATTAATGTTTATTTAAATTTTATTTTAT
1 TAATTAAATTAATATTTATTTAAATTCTATTTTAA
101550 TAATTAAATTAATATTTATTTAAATTCTATTTTAA
1 TAATTAAATTAATATTTATTTAAATTCTATTTTAA
101585 -ATATTAAA
1 TA-ATTAAA
101593 AATATAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (35 bp):
TAATTAAATTAATATTTATTTAAATTCTATTTTAA
Found at i:101930 original size:18 final size:17
Alignment explanation
Indices: 101907--101942 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
101897 TAACTTAGTA
*
101907 ATAATTAAATATAATTTT
1 ATAATTAAAAAT-ATTTT
101925 ATAATTAAAAATATTTT
1 ATAATTAAAAATATTTT
101942 A
1 A
101943 AGTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATTAAAAATATTTT
Found at i:101958 original size:22 final size:22
Alignment explanation
Indices: 101931--101984 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
101921 TTTTATAATT
101931 AAAAATATTTTAAGTAA-AAATA
1 AAAAATATTTTAA-TAATAAATA
* *
101953 AAAAATA-ATTAATAATTAATA
1 AAAAATATTTTAATAATAAATA
101974 AAAATATATTT
1 AAAA-ATATTT
101985 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 10 0.38
23 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAAATATTTTAATAATAAATA
Found at i:101964 original size:21 final size:22
Alignment explanation
Indices: 101931--101983 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
101921 TTTTATAATT
*
101931 AAAAATATTTTAAGTAA-AAATA
1 AAAAATATATTAA-TAATAAATA
*
101953 AAAAATA-ATTAATAATTAAT-
1 AAAAATATATTAATAATAAATA
101973 AAAAATATATT
1 AAAAATATATT
101984 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 10 0.37
22 7 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATATATTAATAATAAATA
Found at i:102073 original size:24 final size:26
Alignment explanation
Indices: 102027--102074 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
102017 TTTTAAAGGT
* *
102027 AAATATATTTTTATCAAATTTTAAAA
1 AAATATATTATTATCAAACTTTAAAA
102053 AAATATATTATT-T-AAACTTTAA
1 AAATATATTATTATCAAACTTTAA
102075 GAGAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 1 0.05
26 11 0.55
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
AAATATATTATTATCAAACTTTAAAA
Found at i:102947 original size:21 final size:20
Alignment explanation
Indices: 102905--102953 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
102895 TATTTAGATT
* *
102905 TATAAATGT-ATATAATTTA
1 TATAAATTTAATATAATTCA
*
102924 TATAATATTTAATATCATTCA
1 TATAA-ATTTAATATAATTCA
102945 TATAAATTT
1 TATAAATTT
102954 TAAATTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 7 0.28
21 13 0.52
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TATAAATTTAATATAATTCA
Found at i:103830 original size:2 final size:2
Alignment explanation
Indices: 103823--103855 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103813 ATCTAATAAT
103823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103856 CACATCATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108009 original size:22 final size:22
Alignment explanation
Indices: 107984--108027 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
107974 TCGAAATGTT
107984 ATTTAATTATTAATAAAAATTA
1 ATTTAATTATTAATAAAAATTA
* * * *
108006 ATTTTATTTTTATTAATAATTA
1 ATTTAATTATTAATAAAAATTA
108028 TATATTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAATTATTAATAAAAATTA
Found at i:108734 original size:3 final size:3
Alignment explanation
Indices: 108726--108751 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108716 GTTTGCCCCT
108726 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
108752 TTTTTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:110291 original size:6 final size:6
Alignment explanation
Indices: 110280--110309 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
110270 AATTGATGAT
110280 TGACAG TGACAG TGACAG TGACAG TGACAG
1 TGACAG TGACAG TGACAG TGACAG TGACAG
110310 AGGATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
TGACAG
Found at i:110459 original size:2 final size:2
Alignment explanation
Indices: 110452--110501 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
110442 TGATTGGTTC
*
110452 CT CT CT CT CT CT CT CT CG 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
*
110494 CT GT CT CT
1 CT CT CT CT
110502 ACAAATATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.04, T:0.48
Consensus pattern (2 bp):
CT
Found at i:116684 original size:19 final size:17
Alignment explanation
Indices: 116650--116687 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
116640 AAATTATAAA
116650 TATTTTTTTACATTTTT
1 TATTTTTTTACATTTTT
116667 TATTTTTATTATCATTTTT
1 TATTTTT-TTA-CATTTTT
116686 TA
1 TA
116688 AATATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 9 0.47
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTTTACATTTTT
Found at i:121844 original size:17 final size:16
Alignment explanation
Indices: 121824--121866 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
121814 TTGAATTTCA
121824 AAATTAATTA-TTTAT
1 AAATTAATTAGTTTAT
*
121839 ATAAATAATTAGTTTAT
1 A-AATTAATTAGTTTAT
121856 AAATATAATTA
1 AAAT-TAATTA
121867 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 10 0.43
17 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATTAATTAGTTTAT
Found at i:121858 original size:15 final size:16
Alignment explanation
Indices: 121828--121860 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
121818 ATTTCAAAAT
*
121828 TAATTATTTATATAAA
1 TAATTAGTTATATAAA
121844 TAATTAGTT-TATAAA
1 TAATTAGTTATATAAA
121859 TA
1 TA
121861 TAATTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TAATTAGTTATATAAA
Found at i:122326 original size:115 final size:113
Alignment explanation
Indices: 122150--122366 Score: 285
Period size: 115 Copynumber: 1.9 Consensus size: 113
122140 CAAACAAAAT
* * * *
122150 ATTGCTTTCTTTATTATCTTTATTTTGTTTCTTTCTTCTTCAATGACTCAAAATTAATAAATTAT
1 ATTGATTTCTTTATTATCTTTATTTTGTTCCTTTCTTCTTCAATAACTCAAAATTAATAAATTAC
* **
122215 GATTACAATTTCATTTATATTAGTATTTTTTAGTAATACTAAAATGAAG
66 AATTACAATTTCATTTATATTAACA-TTTTTAGTAATACTAAAATGAAG
* * *
122264 ATTGATTTCTTTCTTAT-TTTGATTTTGTTCCTTTTTTTCTT-AAGTAACTCAAAATTAGTAAAT
1 ATTGATTTCTTTATTATCTTT-ATTTTGTTCC-TTTCTTCTTCAA-TAACTCAAAATTAATAAAT
*
122327 TACAATTACAATTTTATTTATATTAACATTTTTAGTAATA
63 TACAATTACAATTTCATTTATATTAACATTTTTAGTAATA
122367 TTCTTTTTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
113 3 0.03
114 38 0.43
115 48 0.54
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (113 bp):
ATTGATTTCTTTATTATCTTTATTTTGTTCCTTTCTTCTTCAATAACTCAAAATTAATAAATTAC
AATTACAATTTCATTTATATTAACATTTTTAGTAATACTAAAATGAAG
Found at i:122722 original size:13 final size:13
Alignment explanation
Indices: 122704--122730 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
122694 ACATCATTCT
122704 TTGTATCGATACA
1 TTGTATCGATACA
122717 TTGTATCGATACA
1 TTGTATCGATACA
122730 T
1 T
122731 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:122739 original size:19 final size:19
Alignment explanation
Indices: 122714--122768 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
122704 TTGTATCGAT
**
122714 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATAC
* *
122733 TCATTGTATTGATACATAC
1 ACATTGTATCGATACATAC
122752 ACAATTGTATCGATACA
1 AC-ATTGTATCGATACA
122769 CGAAACTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAC
Found at i:122747 original size:32 final size:33
Alignment explanation
Indices: 122686--122749 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
122676 ATATCTAGAA
*
122686 GTATCGATACATCATTCTTTGTATCGATACATT
1 GTATCGATACATCATTCATTGTATCGATACATT
* *
122719 GTATCGATACAT-GTTCATTGTATTGATACAT
1 GTATCGATACATCATTCATTGTATCGATACAT
122750 ACACAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
GTATCGATACATCATTCATTGTATCGATACATT
Found at i:125921 original size:2 final size:2
Alignment explanation
Indices: 125916--125957 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
125906 ATTTTACTTT
125916 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
125958 CCCTTTTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126877 original size:25 final size:25
Alignment explanation
Indices: 126819--126877 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
126809 AAAAATTAAC
* *
126819 TTATTTTTAAATTTAATTTTATATA
1 TTATTTTTAAATTTAATATAATATA
**
126844 TTAACTTT-AATATTAATATAATATA
1 TTATTTTTAAAT-TTAATATAATATA
126869 TTATTTTTA
1 TTATTTTTA
126878 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTTTTAAATTTAATATAATATA
Found at i:126946 original size:17 final size:16
Alignment explanation
Indices: 126905--126946 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
126895 TACCATTATT
126905 TAAAAAATTTTAAAGA
1 TAAAAAATTTTAAAGA
126921 TAAAGAAATTGATTAAA-A
1 TAAA-AAATT--TTAAAGA
126939 TAAAAAAT
1 TAAAAAAT
126947 AATATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 5 0.22
19 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (16 bp):
TAAAAAATTTTAAAGA
Found at i:127292 original size:22 final size:22
Alignment explanation
Indices: 127267--127310 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
127257 ATTAAAGATA
127267 ATTTTAAGA-AACTTAAATTCTC
1 ATTTTAAGATAA-TTAAATTCTC
127289 ATTTTAAGATAATTAAATTCTC
1 ATTTTAAGATAATTAAATTCTC
127311 GTTATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTTAAGATAATTAAATTCTC
Found at i:136280 original size:46 final size:46
Alignment explanation
Indices: 136228--136319 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
136218 ATTATTAGTC
*
136228 ATTGTCCCATTTTCATAATTCATCTTTTACTAACTTTATTACTAAA
1 ATTGTCCCATTTTCATAATTCATCTTTGACTAACTTTATTACTAAA
136274 ATTGTCCCATTTTCATAATTCATCTTTGACTAACTTTATTACTAAA
1 ATTGTCCCATTTTCATAATTCATCTTTGACTAACTTTATTACTAAA
136320 TTTAAAAGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (46 bp):
ATTGTCCCATTTTCATAATTCATCTTTGACTAACTTTATTACTAAA
Found at i:137934 original size:20 final size:19
Alignment explanation
Indices: 137911--137972 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
137901 ATAATATGAA
137911 TATATAAATATTTTAAAATT
1 TATATAAATA-TTTAAAATT
137931 TATAT-AATA--T-AAA--
1 TATATAAATATTTAAAATT
137944 T-TATAAATATATTAAAATT
1 TATATAAATAT-TTAAAATT
137963 TATATAAATA
1 TATATAAATA
137973 AAAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
15 3 0.09
16 2 0.06
17 3 0.09
19 5 0.15
20 13 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATATAAATATTTAAAATT
Found at i:137939 original size:27 final size:28
Alignment explanation
Indices: 137904--137986 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 28
137894 ATAAAAAATA
*
137904 ATATGAATATATAAATATTTTAAAATTT
1 ATATAAATATATAAATATTTTAAAATTT
*
137932 ATATAATATAAATTATAAATATATTAAAATTT
1 ATATAA-AT--A-TATAAATATTTTAAAATTT
*
137964 ATATAAATA-AAAAATATTTTAAA
1 ATATAAATATATAAATATTTTAAA
137987 TATGATTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.26
28 5 0.11
29 3 0.06
31 3 0.06
32 24 0.51
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (28 bp):
ATATAAATATATAAATATTTTAAAATTT
Found at i:137952 original size:32 final size:33
Alignment explanation
Indices: 137901--137974 Score: 116
Period size: 32 Copynumber: 2.3 Consensus size: 33
137891 CGTATAAAAA
* *
137901 ATAATATGAATATATAAATATTTTAAAATTTAT
1 ATAATATAAATATATAAATATATTAAAATTTAT
137934 ATAATATAAAT-TATAAATATATTAAAATTTAT
1 ATAATATAAATATATAAATATATTAAAATTTAT
137966 ATAA-ATAAA
1 ATAATATAAA
137975 AAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 5 0.13
32 24 0.62
33 10 0.26
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAATATAAATATATAAATATATTAAAATTTAT
Found at i:137976 original size:16 final size:16
Alignment explanation
Indices: 137925--137976 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
137915 TAAATATTTT
137925 AAAATTTATAT-AATA
1 AAAATTTATATAAATA
* * * *
137940 TAAATTATAAATATATT
1 AAAATT-TATATAAATA
137957 AAAATTTATATAAATA
1 AAAATTTATATAAATA
137973 AAAA
1 AAAA
137977 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
15 5 0.19
16 15 0.56
17 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTATATAAATA
Found at i:145001 original size:14 final size:12
Alignment explanation
Indices: 144966--144994 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
144956 AGTGACACTG
144966 AAAAGAAAAAAA
1 AAAAGAAAAAAA
144978 AAAAGAAAAAAA
1 AAAAGAAAAAAA
144990 AAAAG
1 AAAAG
144995 GGAAAAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:145240 original size:18 final size:18
Alignment explanation
Indices: 145194--145248 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
145184 TAGGCATATC
*
145194 ATTTTTATTTTATTATTA
1 ATTTTTATTTTAATATTA
* *
145212 ATATATA-TTTAATATTA
1 ATTTTTATTTTAATATTA
145229 ATTTTTATTTTAATATTA
1 ATTTTTATTTTAATATTA
145247 AT
1 AT
145249 ATATATCGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATTTTAATATTA
Found at i:145325 original size:19 final size:20
Alignment explanation
Indices: 145301--145339 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
145291 ATTTTAATTT
*
145301 TTTTAATATATAAA-AAATA
1 TTTTAAAATATAAATAAATA
145320 TTTTAAAATATAAATAAATA
1 TTTTAAAATATAAATAAATA
145340 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAATATAAATAAATA
Found at i:145345 original size:21 final size:19
Alignment explanation
Indices: 145302--145347 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
145292 TTTTAATTTT
* *
145302 TTTAATATATAAAAAATAT
1 TTTAAAATATAAAAAATAA
145321 TTTAAAATATAAATAAATAAA
1 TTTAAAATATAAA-AAAT-AA
145342 TTTAAA
1 TTTAAA
145348 TAAATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 4 0.17
21 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAAAATATAAAAAATAA
Found at i:145347 original size:14 final size:14
Alignment explanation
Indices: 145325--145362 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
145315 AAATATTTTA
*
145325 AAATATAAATAAAT
1 AAATTTAAATAAAT
145339 AAATTTAAATAAAT
1 AAATTTAAATAAAT
*
145353 ATA-TTAAATA
1 AAATTTAAATA
145363 CTCATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATTTAAATAAAT
Found at i:145348 original size:20 final size:18
Alignment explanation
Indices: 145302--145349 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
145292 TTTTAATTTT
*
145302 TTTAATATATAAAAAATAT
1 TTTAA-ATATAAAAAATAA
145321 TTTAAAATATAAATAAATAAA
1 TTT-AAATATAAA-AAAT-AA
145342 TTTAAATA
1 TTTAAATA
145350 AATATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.40
20 11 0.44
21 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAATATAAAAAATAA
Found at i:145484 original size:32 final size:32
Alignment explanation
Indices: 145461--145555 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
145451 AATCTATTAG
*
145461 TAATTATATTTAATATTTATTAAATTTAAAAA
1 TAATTATATTTAATATTTATTAAATTTATAAA
*
145493 TAATTTTATTTAATATTTATTAAATTTATAAA
1 TAATTATATTTAATATTTATTAAATTTATAAA
* *
145525 TAATTATATTAAATTTATTATTAATATTTAT
1 TAATTATATTTAATAT-TTATTAA-ATTTAT
145556 TTTATTTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 43 0.77
33 7 0.12
34 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TAATTATATTTAATATTTATTAAATTTATAAA
Found at i:145487 original size:16 final size:16
Alignment explanation
Indices: 145463--145520 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
145453 TCTATTAGTA
*
145463 ATTATATTTAATATTT
1 ATTAAATTTAATATTT
* * *
145479 ATTAAATTTAAAAATA
1 ATTAAATTTAATATTT
**
145495 ATTTTATTTAATATTT
1 ATTAAATTTAATATTT
145511 ATTAAATTTA
1 ATTAAATTTA
145521 TAAATAATTA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAAATTTAATATTT
Found at i:145518 original size:21 final size:20
Alignment explanation
Indices: 145497--145556 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
145487 TAAAAATAAT
145497 TTTATTTAATATTTATTAAA
1 TTTATTTAATATTTATTAAA
*
145517 TTTA-TAAATAATTATATTAAA
1 TTTATTTAAT-ATT-TATTAAA
145538 TTTATTATTAATATTTATT
1 TTTA-T-TTAATATTTATT
145557 TTATTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 11 0.33
22 4 0.12
23 3 0.09
24 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATTTAATATTTATTAAA
Done.