Multiple sequence alignment - TraesCS7A01G525700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7A01G525700 chr7A 100.000 3138 0 0 1 3138 708117354 708114217 0.000000e+00 5795.0
1 TraesCS7A01G525700 chr7A 90.054 553 51 3 1619 2167 707978202 707977650 0.000000e+00 713.0
2 TraesCS7A01G525700 chr7A 89.331 478 37 6 1844 2312 707974764 707974292 3.490000e-164 588.0
3 TraesCS7A01G525700 chr7A 88.323 471 40 12 1385 1851 707975464 707975005 4.570000e-153 551.0
4 TraesCS7A01G525700 chr7A 93.137 306 14 5 560 862 707976040 707975739 2.870000e-120 442.0
5 TraesCS7A01G525700 chr7A 90.000 250 13 7 1385 1626 707979531 707979286 2.350000e-81 313.0
6 TraesCS7A01G525700 chr7A 85.135 296 32 7 461 751 707992747 707992459 3.060000e-75 292.0
7 TraesCS7A01G525700 chr7A 87.931 232 19 5 1015 1244 707975726 707975502 6.670000e-67 265.0
8 TraesCS7A01G525700 chr7A 86.207 174 17 4 1072 1244 707979736 707979569 6.910000e-42 182.0
9 TraesCS7A01G525700 chr7A 88.489 139 5 4 953 1080 707985671 707985533 1.170000e-34 158.0
10 TraesCS7A01G525700 chr7A 75.072 349 59 15 2526 2864 67575622 67575952 1.520000e-28 137.0
11 TraesCS7A01G525700 chr7B 83.247 1158 83 40 262 1382 713182546 713181463 0.000000e+00 961.0
12 TraesCS7A01G525700 chr7B 87.956 822 81 9 1430 2244 708089885 708089075 0.000000e+00 953.0
13 TraesCS7A01G525700 chr7B 85.837 932 80 21 1 926 708092347 708091462 0.000000e+00 942.0
14 TraesCS7A01G525700 chr7B 92.880 632 41 4 1682 2310 713188325 713187695 0.000000e+00 915.0
15 TraesCS7A01G525700 chr7B 85.795 711 71 14 2456 3138 708088860 708088152 0.000000e+00 726.0
16 TraesCS7A01G525700 chr7B 89.503 543 48 4 1779 2314 708003279 708002739 0.000000e+00 678.0
17 TraesCS7A01G525700 chr7B 86.928 306 12 11 933 1210 708091422 708091117 5.050000e-83 318.0
18 TraesCS7A01G525700 chr7B 77.914 489 84 16 2454 2923 100355367 100355850 1.840000e-72 283.0
19 TraesCS7A01G525700 chr7B 91.156 147 4 5 1386 1531 713181529 713181391 1.150000e-44 191.0
20 TraesCS7A01G525700 chr7B 90.476 147 6 2 1385 1527 708003434 708003292 1.490000e-43 187.0
21 TraesCS7A01G525700 chr7B 84.868 152 16 3 2263 2407 708094213 708094062 2.520000e-31 147.0
22 TraesCS7A01G525700 chr7B 78.421 190 38 3 2634 2820 683166458 683166269 1.530000e-23 121.0
23 TraesCS7A01G525700 chr7B 87.619 105 5 2 1385 1485 708032066 708031966 7.110000e-22 115.0
24 TraesCS7A01G525700 chr7B 87.097 93 12 0 2306 2398 708002675 708002583 4.280000e-19 106.0
25 TraesCS7A01G525700 chr7B 95.122 41 2 0 2933 2973 511961135 511961175 7.260000e-07 65.8
26 TraesCS7A01G525700 chr7B 84.722 72 3 2 1598 1668 713181394 713181330 7.260000e-07 65.8
27 TraesCS7A01G525700 chr7D 90.000 600 46 10 1644 2237 615469171 615468580 0.000000e+00 763.0
28 TraesCS7A01G525700 chr7D 92.308 260 11 4 930 1189 615469792 615469542 8.270000e-96 361.0
29 TraesCS7A01G525700 chr7D 89.956 229 13 3 1385 1606 615469386 615469161 1.420000e-73 287.0
30 TraesCS7A01G525700 chr7D 74.728 368 67 14 2526 2883 63934032 63934383 1.170000e-29 141.0
31 TraesCS7A01G525700 chr7D 97.143 35 1 0 2944 2978 19246424 19246390 3.380000e-05 60.2
32 TraesCS7A01G525700 chr1A 78.125 384 63 10 2543 2921 500348709 500348342 1.130000e-54 224.0
33 TraesCS7A01G525700 chr1A 86.250 80 11 0 2541 2620 388152274 388152353 1.550000e-13 87.9
34 TraesCS7A01G525700 chr1A 93.103 58 4 0 2925 2982 560236868 560236925 5.580000e-13 86.1
35 TraesCS7A01G525700 chr1A 91.525 59 4 1 2925 2982 554277942 554278000 2.590000e-11 80.5
36 TraesCS7A01G525700 chr1A 92.857 56 3 1 2928 2982 554295432 554295377 2.590000e-11 80.5
37 TraesCS7A01G525700 chr1A 96.875 32 0 1 647 677 556180828 556180859 6.000000e-03 52.8
38 TraesCS7A01G525700 chrUn 76.808 401 76 10 2531 2922 356650202 356649810 3.170000e-50 209.0
39 TraesCS7A01G525700 chrUn 96.875 32 0 1 647 677 212343179 212343210 6.000000e-03 52.8
40 TraesCS7A01G525700 chrUn 96.875 32 0 1 647 677 480345789 480345758 6.000000e-03 52.8
41 TraesCS7A01G525700 chr6D 77.057 401 69 13 2531 2922 446797919 446797533 3.170000e-50 209.0
42 TraesCS7A01G525700 chr1B 76.485 404 78 14 2529 2919 504519363 504519762 1.480000e-48 204.0
43 TraesCS7A01G525700 chr6B 75.460 489 72 22 2462 2922 60669457 60668989 8.880000e-46 195.0
44 TraesCS7A01G525700 chr4D 75.172 435 61 19 2456 2846 505362323 505361892 9.010000e-36 161.0
45 TraesCS7A01G525700 chr4D 84.459 148 17 4 2748 2890 470184635 470184781 1.170000e-29 141.0
46 TraesCS7A01G525700 chr4D 73.099 342 62 15 2536 2862 55378543 55378869 9.270000e-16 95.3
47 TraesCS7A01G525700 chr5A 83.099 142 24 0 1012 1153 616878693 616878834 2.540000e-26 130.0
48 TraesCS7A01G525700 chr5D 80.986 142 27 0 1012 1153 493833642 493833783 2.560000e-21 113.0
49 TraesCS7A01G525700 chr5D 82.727 110 18 1 2515 2623 221861020 221861129 2.580000e-16 97.1
50 TraesCS7A01G525700 chr5D 86.047 86 11 1 2627 2711 501771604 501771519 1.200000e-14 91.6
51 TraesCS7A01G525700 chr1D 91.250 80 7 0 2541 2620 308579686 308579765 3.310000e-20 110.0
52 TraesCS7A01G525700 chr3D 80.000 145 29 0 1018 1162 471044575 471044431 1.190000e-19 108.0
53 TraesCS7A01G525700 chr5B 86.047 86 11 1 2627 2711 625521221 625521136 1.200000e-14 91.6
54 TraesCS7A01G525700 chr5B 100.000 36 0 0 2939 2974 622582468 622582433 2.020000e-07 67.6
55 TraesCS7A01G525700 chr5B 75.000 156 24 13 533 677 162765166 162765015 1.220000e-04 58.4
56 TraesCS7A01G525700 chr5B 89.362 47 1 3 647 689 692952973 692952927 4.370000e-04 56.5
57 TraesCS7A01G525700 chr5B 96.875 32 0 1 647 677 692879283 692879314 6.000000e-03 52.8
58 TraesCS7A01G525700 chr3A 100.000 34 0 0 2941 2974 480905332 480905365 2.610000e-06 63.9
59 TraesCS7A01G525700 chr2B 97.222 36 0 1 2938 2972 614345709 614345674 3.380000e-05 60.2


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G525700 chr7A 708114217 708117354 3137 True 5795.000000 5795 100.000000 1 3138 1 chr7A.!!$R3 3137
1 TraesCS7A01G525700 chr7A 707974292 707979736 5444 True 436.285714 713 89.283286 560 2312 7 chr7A.!!$R4 1752
2 TraesCS7A01G525700 chr7B 713187695 713188325 630 True 915.000000 915 92.880000 1682 2310 1 chr7B.!!$R3 628
3 TraesCS7A01G525700 chr7B 708088152 708094213 6061 True 617.200000 953 86.276800 1 3138 5 chr7B.!!$R5 3137
4 TraesCS7A01G525700 chr7B 713181330 713182546 1216 True 405.933333 961 86.375000 262 1668 3 chr7B.!!$R6 1406
5 TraesCS7A01G525700 chr7B 708002583 708003434 851 True 323.666667 678 89.025333 1385 2398 3 chr7B.!!$R4 1013
6 TraesCS7A01G525700 chr7D 615468580 615469792 1212 True 470.333333 763 90.754667 930 2237 3 chr7D.!!$R2 1307

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
913 4076 0.67964 ACGCACCACCCATATGTTGG 60.68 55.0 15.86 15.86 46.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2781 7608 0.099436 GAATGGTCGTGCAAGCCATC 59.901 55.0 21.66 14.41 41.68 3.51 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 1920 6.292008 GCTTTGAACAGTTTTTCAATCTCTGC 60.292 38.462 0.00 0.00 43.38 4.26
59 1927 6.418819 ACAGTTTTTCAATCTCTGCGAATTTG 59.581 34.615 0.00 0.00 0.00 2.32
62 1930 6.752335 TTTTCAATCTCTGCGAATTTGTTG 57.248 33.333 0.00 0.00 0.00 3.33
68 1936 3.616821 TCTCTGCGAATTTGTTGTATCCG 59.383 43.478 0.00 0.00 0.00 4.18
154 2022 5.590104 AAAGTGTTTTTGAGTGTGCAAAC 57.410 34.783 0.00 0.00 37.48 2.93
179 2047 7.220108 ACTCGTGTTTGCTTTTATTTTTCTGTC 59.780 33.333 0.00 0.00 0.00 3.51
182 2050 5.751028 TGTTTGCTTTTATTTTTCTGTCCCG 59.249 36.000 0.00 0.00 0.00 5.14
184 2052 4.865776 TGCTTTTATTTTTCTGTCCCGTG 58.134 39.130 0.00 0.00 0.00 4.94
193 2061 4.669206 TTTCTGTCCCGTGTAGTACAAA 57.331 40.909 4.11 0.00 0.00 2.83
216 2084 4.814771 ACAGAAAACTAGAAACAGGAACGG 59.185 41.667 0.00 0.00 0.00 4.44
224 2092 6.296803 ACTAGAAACAGGAACGGAAGAAAAT 58.703 36.000 0.00 0.00 0.00 1.82
234 2102 7.918562 CAGGAACGGAAGAAAATTAGAAACAAA 59.081 33.333 0.00 0.00 0.00 2.83
251 2119 8.434733 AGAAACAAAGACTAGTTTAGTTGGAC 57.565 34.615 0.00 0.00 39.59 4.02
252 2120 7.498239 AGAAACAAAGACTAGTTTAGTTGGACC 59.502 37.037 0.00 0.00 39.59 4.46
282 2150 3.493129 GGAACACTTTTTCCCAAATTCGC 59.507 43.478 0.00 0.00 39.47 4.70
308 2176 7.374754 CGAACTTGTTTTGAATTCGTGAATGTA 59.625 33.333 0.04 0.00 37.85 2.29
362 2230 5.376625 TCAGGAACTTATTTCAAGTGCACT 58.623 37.500 15.25 15.25 34.60 4.40
363 2231 5.827797 TCAGGAACTTATTTCAAGTGCACTT 59.172 36.000 26.36 26.36 34.60 3.16
364 2232 5.916883 CAGGAACTTATTTCAAGTGCACTTG 59.083 40.000 41.30 41.30 46.42 3.16
365 2233 5.594317 AGGAACTTATTTCAAGTGCACTTGT 59.406 36.000 42.93 32.10 45.40 3.16
442 2311 9.899226 GCACAAACTTTTATCTAAGTTCTTGAT 57.101 29.630 0.00 0.55 45.13 2.57
483 2352 8.123575 TGAATGTTTTTCAAATGCACAGAATTG 58.876 29.630 0.00 0.00 0.00 2.32
527 2396 6.927416 TCTCAAATCCATGGATGTTTTTCAG 58.073 36.000 27.97 14.74 34.70 3.02
886 4031 2.074547 TAGAAAAACGAGCCGGTCTG 57.925 50.000 1.90 0.00 0.00 3.51
896 4041 3.114616 CCGGTCTGCTGCTCAACG 61.115 66.667 0.00 1.26 0.00 4.10
908 4071 0.748005 GCTCAACGCACCACCCATAT 60.748 55.000 0.00 0.00 38.92 1.78
909 4072 1.016627 CTCAACGCACCACCCATATG 58.983 55.000 0.00 0.00 0.00 1.78
913 4076 0.679640 ACGCACCACCCATATGTTGG 60.680 55.000 15.86 15.86 46.00 3.77
928 4091 7.024340 CATATGTTGGACTTTTCAGATCCTG 57.976 40.000 0.00 0.00 33.34 3.86
1193 4432 6.568844 GCTCGTCTCTTCTTCTTCTTCAGTTA 60.569 42.308 0.00 0.00 0.00 2.24
1232 5651 4.201542 GAGATTTCTCTTTCGACAACGAGC 60.202 45.833 0.22 0.00 43.15 5.03
1238 5657 2.649034 TCGACAACGAGCACCCTC 59.351 61.111 0.00 0.00 43.81 4.30
1253 5672 4.278419 AGCACCCTCAGATTAACAAACAAC 59.722 41.667 0.00 0.00 0.00 3.32
1282 5706 1.904287 AATAACACCTTGCCTTGCGA 58.096 45.000 0.00 0.00 0.00 5.10
1294 5718 1.816224 GCCTTGCGAAGATTTTGGGTA 59.184 47.619 0.00 0.00 0.00 3.69
1308 5732 0.107410 TGGGTAATGGTTGCTAGGCG 60.107 55.000 0.00 0.00 0.00 5.52
1319 5743 2.118313 TGCTAGGCGTACAGTACAGA 57.882 50.000 11.37 0.00 0.00 3.41
1341 5765 7.093377 ACAGATTCAGATTCAGAAAGTCTAGCT 60.093 37.037 0.00 0.00 0.00 3.32
1342 5766 8.412456 CAGATTCAGATTCAGAAAGTCTAGCTA 58.588 37.037 0.00 0.00 0.00 3.32
1343 5767 8.632679 AGATTCAGATTCAGAAAGTCTAGCTAG 58.367 37.037 15.01 15.01 0.00 3.42
1344 5768 6.142818 TCAGATTCAGAAAGTCTAGCTAGC 57.857 41.667 16.35 6.62 0.00 3.42
1345 5769 5.890985 TCAGATTCAGAAAGTCTAGCTAGCT 59.109 40.000 23.12 23.12 0.00 3.32
1346 5770 6.379703 TCAGATTCAGAAAGTCTAGCTAGCTT 59.620 38.462 24.88 17.84 0.00 3.74
1347 5771 7.558081 TCAGATTCAGAAAGTCTAGCTAGCTTA 59.442 37.037 24.88 9.09 0.00 3.09
1348 5772 7.862372 CAGATTCAGAAAGTCTAGCTAGCTTAG 59.138 40.741 24.88 17.16 0.00 2.18
1360 5784 3.733337 GCTAGCTTAGCCATGCTTAAGA 58.267 45.455 7.70 0.00 45.95 2.10
1361 5785 4.322567 GCTAGCTTAGCCATGCTTAAGAT 58.677 43.478 7.70 12.10 45.95 2.40
1362 5786 4.153835 GCTAGCTTAGCCATGCTTAAGATG 59.846 45.833 7.70 7.22 45.95 2.90
1363 5787 4.162040 AGCTTAGCCATGCTTAAGATGT 57.838 40.909 6.67 0.00 40.44 3.06
1364 5788 4.133078 AGCTTAGCCATGCTTAAGATGTC 58.867 43.478 6.67 0.00 40.44 3.06
1365 5789 3.251972 GCTTAGCCATGCTTAAGATGTCC 59.748 47.826 6.67 1.81 40.44 4.02
1366 5790 1.959042 AGCCATGCTTAAGATGTCCG 58.041 50.000 6.67 0.00 33.89 4.79
1367 5791 1.486310 AGCCATGCTTAAGATGTCCGA 59.514 47.619 6.67 0.00 33.89 4.55
1368 5792 2.105477 AGCCATGCTTAAGATGTCCGAT 59.895 45.455 6.67 0.00 33.89 4.18
1369 5793 2.880890 GCCATGCTTAAGATGTCCGATT 59.119 45.455 6.67 0.00 0.00 3.34
1370 5794 3.304257 GCCATGCTTAAGATGTCCGATTG 60.304 47.826 6.67 0.00 0.00 2.67
1371 5795 3.304257 CCATGCTTAAGATGTCCGATTGC 60.304 47.826 6.67 0.00 0.00 3.56
1372 5796 3.266510 TGCTTAAGATGTCCGATTGCT 57.733 42.857 6.67 0.00 0.00 3.91
1373 5797 3.198068 TGCTTAAGATGTCCGATTGCTC 58.802 45.455 6.67 0.00 0.00 4.26
1374 5798 3.198068 GCTTAAGATGTCCGATTGCTCA 58.802 45.455 6.67 0.00 0.00 4.26
1375 5799 3.247173 GCTTAAGATGTCCGATTGCTCAG 59.753 47.826 6.67 0.00 0.00 3.35
1376 5800 1.661341 AAGATGTCCGATTGCTCAGC 58.339 50.000 0.00 0.00 0.00 4.26
1377 5801 0.829333 AGATGTCCGATTGCTCAGCT 59.171 50.000 0.00 0.00 0.00 4.24
1378 5802 1.202510 AGATGTCCGATTGCTCAGCTC 60.203 52.381 0.00 0.00 0.00 4.09
1379 5803 0.529337 ATGTCCGATTGCTCAGCTCG 60.529 55.000 0.00 0.00 0.00 5.03
1380 5804 1.153745 GTCCGATTGCTCAGCTCGT 60.154 57.895 7.46 0.00 0.00 4.18
1381 5805 0.100682 GTCCGATTGCTCAGCTCGTA 59.899 55.000 7.46 0.00 0.00 3.43
1382 5806 0.100682 TCCGATTGCTCAGCTCGTAC 59.899 55.000 7.46 0.00 0.00 3.67
1383 5807 0.179137 CCGATTGCTCAGCTCGTACA 60.179 55.000 7.46 0.00 0.00 2.90
1401 5825 5.417894 TCGTACAGTACAGGTTCAGATTCAT 59.582 40.000 11.37 0.00 0.00 2.57
1531 5961 3.386768 TCCTTTTCGGTGAGAGAACAG 57.613 47.619 0.00 0.00 0.00 3.16
1623 6060 6.542735 ACATCTTCGTGTAGCTATAGACTGAA 59.457 38.462 3.21 2.61 0.00 3.02
1721 6162 1.202154 CGATTTCGAGGTACGTGCTCT 60.202 52.381 3.01 0.00 43.02 4.09
1742 6183 0.734889 CAAAGGCGCATCCGATCTTT 59.265 50.000 10.83 4.60 38.79 2.52
1852 6540 0.600255 CCTTCCAGTGCTTCGTCGTT 60.600 55.000 0.00 0.00 0.00 3.85
1925 6613 0.328258 GAAGCTTAAGGTGGCCCTCA 59.672 55.000 8.16 0.00 41.56 3.86
1954 6642 2.276116 GGAGCGTCTGTCCAGGTCA 61.276 63.158 0.00 0.00 33.84 4.02
2159 6850 3.620427 AAGAGTTGTGTGGTGTGTGTA 57.380 42.857 0.00 0.00 0.00 2.90
2224 6927 9.173939 GATGATTTGTCTTGTTTTCAGTAACTG 57.826 33.333 0.00 0.00 0.00 3.16
2228 6931 9.705290 ATTTGTCTTGTTTTCAGTAACTGTTTT 57.295 25.926 0.00 0.00 32.61 2.43
2232 6935 8.850452 GTCTTGTTTTCAGTAACTGTTTTCAAG 58.150 33.333 0.00 1.69 34.14 3.02
2256 6962 6.260271 AGTTGAATAGTAAGCGGGATAAAAGC 59.740 38.462 0.00 0.00 0.00 3.51
2262 6968 6.667558 AGTAAGCGGGATAAAAGCTATACT 57.332 37.500 0.00 0.00 40.78 2.12
2315 7093 7.125792 AGAGAAGTTTAACTGAACAAGAGGA 57.874 36.000 0.00 0.00 31.94 3.71
2319 7097 8.624776 AGAAGTTTAACTGAACAAGAGGATTTG 58.375 33.333 0.00 0.00 31.94 2.32
2322 7100 8.406297 AGTTTAACTGAACAAGAGGATTTGAAC 58.594 33.333 0.00 0.00 31.94 3.18
2347 7125 5.014202 AGGCGTCAAAGTATACCCAATTTT 58.986 37.500 0.00 0.00 0.00 1.82
2351 7129 7.646526 GGCGTCAAAGTATACCCAATTTTTATC 59.353 37.037 0.00 0.00 0.00 1.75
2352 7130 7.646526 GCGTCAAAGTATACCCAATTTTTATCC 59.353 37.037 0.00 0.00 0.00 2.59
2407 7186 0.769873 ATGGCCCATCTCACCTCATC 59.230 55.000 0.00 0.00 0.00 2.92
2421 7200 1.476471 CCTCATCAGGGCATCTCCAAC 60.476 57.143 0.00 0.00 35.89 3.77
2432 7211 1.830587 ATCTCCAACGCTGAGTGGCA 61.831 55.000 0.00 0.00 0.00 4.92
2433 7212 1.597854 CTCCAACGCTGAGTGGCAA 60.598 57.895 0.00 0.00 0.00 4.52
2434 7213 1.153066 TCCAACGCTGAGTGGCAAA 60.153 52.632 0.00 0.00 0.00 3.68
2435 7214 0.537143 TCCAACGCTGAGTGGCAAAT 60.537 50.000 0.00 0.00 0.00 2.32
2436 7215 0.314935 CCAACGCTGAGTGGCAAATT 59.685 50.000 0.00 0.00 0.00 1.82
2437 7216 1.411394 CAACGCTGAGTGGCAAATTG 58.589 50.000 0.00 0.00 0.00 2.32
2438 7217 0.314935 AACGCTGAGTGGCAAATTGG 59.685 50.000 0.00 0.00 0.00 3.16
2439 7218 1.444895 CGCTGAGTGGCAAATTGGC 60.445 57.895 12.92 12.92 44.03 4.52
2440 7219 1.870055 CGCTGAGTGGCAAATTGGCT 61.870 55.000 20.08 0.72 44.10 4.75
2441 7220 0.108945 GCTGAGTGGCAAATTGGCTC 60.109 55.000 20.08 16.32 44.10 4.70
2442 7221 0.529378 CTGAGTGGCAAATTGGCTCC 59.471 55.000 20.08 10.76 44.10 4.70
2443 7222 0.112995 TGAGTGGCAAATTGGCTCCT 59.887 50.000 20.08 15.05 44.10 3.69
2445 7224 0.178953 AGTGGCAAATTGGCTCCTGT 60.179 50.000 20.08 0.00 44.10 4.00
2447 7226 2.102578 GTGGCAAATTGGCTCCTGTAT 58.897 47.619 20.08 0.00 44.10 2.29
2448 7227 2.099756 GTGGCAAATTGGCTCCTGTATC 59.900 50.000 20.08 0.00 44.10 2.24
2449 7228 1.683385 GGCAAATTGGCTCCTGTATCC 59.317 52.381 12.54 0.00 40.14 2.59
2451 7230 1.334869 CAAATTGGCTCCTGTATCCGC 59.665 52.381 0.00 0.00 0.00 5.54
2452 7231 0.839946 AATTGGCTCCTGTATCCGCT 59.160 50.000 0.00 0.00 0.00 5.52
2454 7260 0.178068 TTGGCTCCTGTATCCGCTTC 59.822 55.000 0.00 0.00 0.00 3.86
2464 7270 4.511826 CCTGTATCCGCTTCCAAAACTATC 59.488 45.833 0.00 0.00 0.00 2.08
2471 7277 5.527214 TCCGCTTCCAAAACTATCATGTATG 59.473 40.000 0.00 0.00 0.00 2.39
2473 7279 6.422223 CGCTTCCAAAACTATCATGTATGTC 58.578 40.000 0.00 0.00 0.00 3.06
2474 7280 6.511767 CGCTTCCAAAACTATCATGTATGTCC 60.512 42.308 0.00 0.00 0.00 4.02
2475 7281 6.511767 GCTTCCAAAACTATCATGTATGTCCG 60.512 42.308 0.00 0.00 0.00 4.79
2539 7347 1.871772 GCGTGCTGGATCATATGCC 59.128 57.895 0.00 0.00 0.00 4.40
2543 7351 2.417243 CGTGCTGGATCATATGCCGATA 60.417 50.000 0.00 0.00 0.00 2.92
2545 7353 3.372206 GTGCTGGATCATATGCCGATAAC 59.628 47.826 0.00 0.00 0.00 1.89
2554 7362 7.752239 GGATCATATGCCGATAACAATCAAAAG 59.248 37.037 0.00 0.00 0.00 2.27
2555 7363 6.969366 TCATATGCCGATAACAATCAAAAGG 58.031 36.000 0.00 0.00 0.00 3.11
2566 7374 5.649782 ACAATCAAAAGGAGGCAAGTATG 57.350 39.130 0.00 0.00 0.00 2.39
2586 7394 2.829120 TGCTTAGTTTTTACATGCCCCC 59.171 45.455 0.00 0.00 0.00 5.40
2590 7398 2.525368 AGTTTTTACATGCCCCCTCAC 58.475 47.619 0.00 0.00 0.00 3.51
2606 7414 5.716703 CCCCCTCACAAAAGAATATCAGTTT 59.283 40.000 0.00 0.00 0.00 2.66
2611 7419 8.237267 CCTCACAAAAGAATATCAGTTTGGTAC 58.763 37.037 8.81 0.00 35.69 3.34
2615 7423 7.119262 ACAAAAGAATATCAGTTTGGTACTCCG 59.881 37.037 0.00 0.00 35.69 4.63
2618 7426 2.094762 ATCAGTTTGGTACTCCGTGC 57.905 50.000 0.00 0.00 33.85 5.34
2619 7427 0.753867 TCAGTTTGGTACTCCGTGCA 59.246 50.000 0.00 0.00 33.85 4.57
2678 7487 2.743928 CCTCCACGCTCAAGGTGC 60.744 66.667 0.00 0.00 34.08 5.01
2718 7533 3.227792 CTCCGCCTCCTTATCCGCC 62.228 68.421 0.00 0.00 0.00 6.13
2721 7536 2.340443 GCCTCCTTATCCGCCGAG 59.660 66.667 0.00 0.00 0.00 4.63
2729 7553 0.396695 TTATCCGCCGAGTCCTCCTT 60.397 55.000 0.00 0.00 0.00 3.36
2734 7558 1.219393 GCCGAGTCCTCCTTCTTGG 59.781 63.158 0.00 0.00 38.05 3.61
2735 7559 1.545706 GCCGAGTCCTCCTTCTTGGT 61.546 60.000 0.00 0.00 37.50 3.67
2757 7581 1.826385 CCGCCTCCAACTCATCTTTT 58.174 50.000 0.00 0.00 0.00 2.27
2765 7592 4.724399 TCCAACTCATCTTTTTGCCACTA 58.276 39.130 0.00 0.00 0.00 2.74
2766 7593 4.518970 TCCAACTCATCTTTTTGCCACTAC 59.481 41.667 0.00 0.00 0.00 2.73
2809 7636 1.736645 ACGACCATTCTTGCGTCGG 60.737 57.895 12.75 0.00 44.12 4.79
2831 7658 5.588648 CGGTATCTAAAGCCTCCAAATTCAA 59.411 40.000 0.00 0.00 0.00 2.69
2835 7662 5.831103 TCTAAAGCCTCCAAATTCAAGGAT 58.169 37.500 5.20 0.00 32.53 3.24
2845 7672 7.408756 TCCAAATTCAAGGATAACATCTTGG 57.591 36.000 0.00 0.00 40.35 3.61
2848 7675 5.841957 ATTCAAGGATAACATCTTGGTGC 57.158 39.130 0.00 0.00 40.35 5.01
2872 7699 4.899239 CATCGGCTGCGACCCTCC 62.899 72.222 0.00 0.00 0.00 4.30
2877 7707 4.475135 GCTGCGACCCTCCCCTTC 62.475 72.222 0.00 0.00 0.00 3.46
2882 7712 1.962321 GCGACCCTCCCCTTCTCTTC 61.962 65.000 0.00 0.00 0.00 2.87
2885 7715 0.324830 ACCCTCCCCTTCTCTTCGAG 60.325 60.000 0.00 0.00 0.00 4.04
2890 7720 0.826715 CCCCTTCTCTTCGAGCATGA 59.173 55.000 0.00 0.00 0.00 3.07
2891 7721 1.415659 CCCCTTCTCTTCGAGCATGAT 59.584 52.381 0.00 0.00 0.00 2.45
2899 7729 4.050553 CTCTTCGAGCATGATCTTCTTCC 58.949 47.826 9.64 0.00 0.00 3.46
2900 7730 3.703556 TCTTCGAGCATGATCTTCTTCCT 59.296 43.478 9.64 0.00 0.00 3.36
2913 7743 2.086054 TCTTCCTTTCGAGCTTGAGC 57.914 50.000 3.32 0.00 42.49 4.26
2926 7756 1.337260 GCTTGAGCTTCTTCTCGGTCA 60.337 52.381 0.00 0.00 38.21 4.02
2930 7760 2.828520 TGAGCTTCTTCTCGGTCAGATT 59.171 45.455 0.00 0.00 35.90 2.40
2939 7769 3.300388 TCTCGGTCAGATTGAGGCTAAT 58.700 45.455 0.00 0.00 0.00 1.73
2942 7772 2.158900 CGGTCAGATTGAGGCTAATGGT 60.159 50.000 0.00 0.00 0.00 3.55
2963 7793 2.692041 TCAACCATGCATCACACAACAA 59.308 40.909 0.00 0.00 0.00 2.83
2967 7797 2.293955 CCATGCATCACACAACAACTCA 59.706 45.455 0.00 0.00 0.00 3.41
2985 7815 1.176527 CATCCTCCCGCATGTTTTGT 58.823 50.000 0.00 0.00 0.00 2.83
2987 7817 0.109532 TCCTCCCGCATGTTTTGTGA 59.890 50.000 0.00 0.00 38.12 3.58
2988 7818 0.240945 CCTCCCGCATGTTTTGTGAC 59.759 55.000 0.00 0.00 38.12 3.67
3021 7851 1.896220 TTCCTTGTGATGTCCTGTGC 58.104 50.000 0.00 0.00 0.00 4.57
3040 7870 5.069318 TGTGCATGGACTTGAGAAATGTTA 58.931 37.500 18.75 0.00 0.00 2.41
3041 7871 5.534278 TGTGCATGGACTTGAGAAATGTTAA 59.466 36.000 18.75 0.00 0.00 2.01
3065 7895 5.592054 TCAAAATTAATGTGCGTGAACCAA 58.408 33.333 0.00 0.00 0.00 3.67
3085 7915 2.706339 AGTTTTGGGCAATGCAACAA 57.294 40.000 7.79 9.03 0.00 2.83
3089 7919 5.128919 AGTTTTGGGCAATGCAACAAATTA 58.871 33.333 21.60 10.14 37.03 1.40
3119 7953 1.820519 TGCATGGACTTGAGAAATGCC 59.179 47.619 0.00 0.00 42.31 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 1920 9.284594 ACATTATTTTCGGATACAACAAATTCG 57.715 29.630 0.00 0.00 0.00 3.34
59 1927 9.019764 CCATTGAACATTATTTTCGGATACAAC 57.980 33.333 0.00 0.00 0.00 3.32
62 1930 7.425606 AGCCATTGAACATTATTTTCGGATAC 58.574 34.615 0.00 0.00 0.00 2.24
154 2022 7.305993 GGACAGAAAAATAAAAGCAAACACGAG 60.306 37.037 0.00 0.00 0.00 4.18
157 2025 6.292114 CGGGACAGAAAAATAAAAGCAAACAC 60.292 38.462 0.00 0.00 0.00 3.32
164 2032 7.198306 ACTACACGGGACAGAAAAATAAAAG 57.802 36.000 0.00 0.00 0.00 2.27
179 2047 4.812626 AGTTTTCTGTTTGTACTACACGGG 59.187 41.667 0.00 0.00 0.00 5.28
182 2050 9.911980 GTTTCTAGTTTTCTGTTTGTACTACAC 57.088 33.333 0.00 0.00 0.00 2.90
193 2061 4.814771 CCGTTCCTGTTTCTAGTTTTCTGT 59.185 41.667 0.00 0.00 0.00 3.41
234 2102 6.099269 TGTTTCTGGTCCAACTAAACTAGTCT 59.901 38.462 18.12 0.00 38.26 3.24
249 2117 4.983671 AAAAGTGTTCCTGTTTCTGGTC 57.016 40.909 0.00 0.00 0.00 4.02
251 2119 4.441495 GGGAAAAAGTGTTCCTGTTTCTGG 60.441 45.833 4.10 0.00 44.00 3.86
252 2120 4.159506 TGGGAAAAAGTGTTCCTGTTTCTG 59.840 41.667 4.10 0.00 44.00 3.02
282 2150 6.196353 ACATTCACGAATTCAAAACAAGTTCG 59.804 34.615 6.22 4.50 45.01 3.95
380 2248 8.175925 TGTTGATGGATATGAAAAAGAACACA 57.824 30.769 0.00 0.00 0.00 3.72
381 2249 9.643693 AATGTTGATGGATATGAAAAAGAACAC 57.356 29.630 0.00 0.00 0.00 3.32
394 2262 6.817641 GTGCATTGGAAAAATGTTGATGGATA 59.182 34.615 0.00 0.00 0.00 2.59
401 2269 6.121613 AGTTTGTGCATTGGAAAAATGTTG 57.878 33.333 0.00 0.00 0.00 3.33
412 2280 9.683069 AGAACTTAGATAAAAGTTTGTGCATTG 57.317 29.630 3.71 0.00 46.92 2.82
617 3755 8.005662 TGAATAAAAAGTTCACGCATTTGATG 57.994 30.769 0.00 0.00 31.07 3.07
618 3756 8.586570 TTGAATAAAAAGTTCACGCATTTGAT 57.413 26.923 0.00 0.00 35.47 2.57
878 4023 3.426568 GTTGAGCAGCAGACCGGC 61.427 66.667 0.00 0.00 34.63 6.13
908 4071 4.437682 ACAGGATCTGAAAAGTCCAACA 57.562 40.909 1.59 0.00 35.18 3.33
909 4072 7.556844 TCTATACAGGATCTGAAAAGTCCAAC 58.443 38.462 1.59 0.00 35.18 3.77
913 4076 8.555361 GCATTTCTATACAGGATCTGAAAAGTC 58.445 37.037 1.59 0.00 35.18 3.01
915 4078 8.442632 TGCATTTCTATACAGGATCTGAAAAG 57.557 34.615 1.59 0.00 35.18 2.27
919 4082 5.306419 AGCTGCATTTCTATACAGGATCTGA 59.694 40.000 1.02 0.00 35.18 3.27
920 4083 5.408909 CAGCTGCATTTCTATACAGGATCTG 59.591 44.000 0.00 0.00 37.52 2.90
922 4085 5.303971 ACAGCTGCATTTCTATACAGGATC 58.696 41.667 15.27 0.00 0.00 3.36
923 4086 5.071519 AGACAGCTGCATTTCTATACAGGAT 59.928 40.000 15.27 0.00 0.00 3.24
924 4087 4.406972 AGACAGCTGCATTTCTATACAGGA 59.593 41.667 15.27 0.00 0.00 3.86
925 4088 4.510711 CAGACAGCTGCATTTCTATACAGG 59.489 45.833 15.27 0.00 34.95 4.00
926 4089 5.114780 ACAGACAGCTGCATTTCTATACAG 58.885 41.667 15.27 0.00 46.26 2.74
927 4090 5.089970 ACAGACAGCTGCATTTCTATACA 57.910 39.130 15.27 0.00 46.26 2.29
928 4091 4.509600 GGACAGACAGCTGCATTTCTATAC 59.490 45.833 15.27 0.00 46.26 1.47
1193 4432 4.348863 AATCTCAATCGGCTGCTAGAAT 57.651 40.909 0.00 0.00 0.00 2.40
1232 5651 4.274950 ACGTTGTTTGTTAATCTGAGGGTG 59.725 41.667 0.00 0.00 0.00 4.61
1238 5657 6.427150 ACTTGCTACGTTGTTTGTTAATCTG 58.573 36.000 0.00 0.00 0.00 2.90
1267 5691 0.250901 ATCTTCGCAAGGCAAGGTGT 60.251 50.000 0.00 0.00 38.47 4.16
1282 5706 5.422012 CCTAGCAACCATTACCCAAAATCTT 59.578 40.000 0.00 0.00 0.00 2.40
1294 5718 1.278127 ACTGTACGCCTAGCAACCATT 59.722 47.619 0.00 0.00 0.00 3.16
1308 5732 8.988064 TTTCTGAATCTGAATCTGTACTGTAC 57.012 34.615 10.98 10.98 0.00 2.90
1319 5743 7.069826 AGCTAGCTAGACTTTCTGAATCTGAAT 59.930 37.037 25.15 0.00 0.00 2.57
1341 5765 5.296151 ACATCTTAAGCATGGCTAAGCTA 57.704 39.130 0.00 0.00 40.90 3.32
1342 5766 4.133078 GACATCTTAAGCATGGCTAAGCT 58.867 43.478 15.06 0.00 44.31 3.74
1343 5767 3.251972 GGACATCTTAAGCATGGCTAAGC 59.748 47.826 15.80 0.00 38.25 3.09
1344 5768 3.496130 CGGACATCTTAAGCATGGCTAAG 59.504 47.826 15.80 8.00 38.25 2.18
1345 5769 3.133901 TCGGACATCTTAAGCATGGCTAA 59.866 43.478 15.80 6.29 38.25 3.09
1346 5770 2.698274 TCGGACATCTTAAGCATGGCTA 59.302 45.455 15.80 6.53 38.25 3.93
1347 5771 1.486310 TCGGACATCTTAAGCATGGCT 59.514 47.619 15.80 0.00 42.56 4.75
1348 5772 1.953559 TCGGACATCTTAAGCATGGC 58.046 50.000 15.06 12.95 0.00 4.40
1349 5773 3.304257 GCAATCGGACATCTTAAGCATGG 60.304 47.826 15.06 2.01 0.00 3.66
1350 5774 3.562973 AGCAATCGGACATCTTAAGCATG 59.437 43.478 0.00 5.60 0.00 4.06
1351 5775 3.812053 GAGCAATCGGACATCTTAAGCAT 59.188 43.478 0.00 0.00 0.00 3.79
1352 5776 3.198068 GAGCAATCGGACATCTTAAGCA 58.802 45.455 0.00 0.00 0.00 3.91
1353 5777 3.198068 TGAGCAATCGGACATCTTAAGC 58.802 45.455 0.00 0.00 0.00 3.09
1354 5778 3.247173 GCTGAGCAATCGGACATCTTAAG 59.753 47.826 0.00 0.00 0.00 1.85
1355 5779 3.118629 AGCTGAGCAATCGGACATCTTAA 60.119 43.478 7.39 0.00 0.00 1.85
1356 5780 2.432146 AGCTGAGCAATCGGACATCTTA 59.568 45.455 7.39 0.00 0.00 2.10
1357 5781 1.209019 AGCTGAGCAATCGGACATCTT 59.791 47.619 7.39 0.00 0.00 2.40
1358 5782 0.829333 AGCTGAGCAATCGGACATCT 59.171 50.000 7.39 0.00 0.00 2.90
1359 5783 1.216122 GAGCTGAGCAATCGGACATC 58.784 55.000 7.39 0.00 0.00 3.06
1360 5784 0.529337 CGAGCTGAGCAATCGGACAT 60.529 55.000 7.39 0.00 32.93 3.06
1361 5785 1.153765 CGAGCTGAGCAATCGGACA 60.154 57.895 7.39 0.00 32.93 4.02
1362 5786 0.100682 TACGAGCTGAGCAATCGGAC 59.899 55.000 18.23 0.00 40.67 4.79
1363 5787 0.100682 GTACGAGCTGAGCAATCGGA 59.899 55.000 18.23 8.81 40.67 4.55
1364 5788 0.179137 TGTACGAGCTGAGCAATCGG 60.179 55.000 18.23 3.33 40.67 4.18
1365 5789 1.195347 CTGTACGAGCTGAGCAATCG 58.805 55.000 13.53 13.53 42.04 3.34
1366 5790 2.285827 ACTGTACGAGCTGAGCAATC 57.714 50.000 7.39 0.00 0.00 2.67
1367 5791 2.492088 TGTACTGTACGAGCTGAGCAAT 59.508 45.455 7.39 0.00 0.00 3.56
1368 5792 1.883926 TGTACTGTACGAGCTGAGCAA 59.116 47.619 7.39 0.00 0.00 3.91
1369 5793 1.468914 CTGTACTGTACGAGCTGAGCA 59.531 52.381 7.39 0.00 0.00 4.26
1370 5794 1.202200 CCTGTACTGTACGAGCTGAGC 60.202 57.143 12.87 0.00 0.00 4.26
1371 5795 2.085320 ACCTGTACTGTACGAGCTGAG 58.915 52.381 12.87 4.03 0.00 3.35
1372 5796 2.195741 ACCTGTACTGTACGAGCTGA 57.804 50.000 12.87 0.00 0.00 4.26
1373 5797 2.228103 TGAACCTGTACTGTACGAGCTG 59.772 50.000 12.87 2.79 0.00 4.24
1374 5798 2.488545 CTGAACCTGTACTGTACGAGCT 59.511 50.000 12.87 0.00 0.00 4.09
1375 5799 2.486982 TCTGAACCTGTACTGTACGAGC 59.513 50.000 12.87 2.25 0.00 5.03
1376 5800 4.966965 ATCTGAACCTGTACTGTACGAG 57.033 45.455 12.87 9.04 0.00 4.18
1377 5801 4.763279 TGAATCTGAACCTGTACTGTACGA 59.237 41.667 12.87 3.20 0.00 3.43
1378 5802 5.055642 TGAATCTGAACCTGTACTGTACG 57.944 43.478 12.87 7.87 0.00 3.67
1379 5803 8.997621 TTTATGAATCTGAACCTGTACTGTAC 57.002 34.615 10.98 10.98 0.00 2.90
1380 5804 8.812972 ACTTTATGAATCTGAACCTGTACTGTA 58.187 33.333 0.00 0.00 0.00 2.74
1381 5805 7.680730 ACTTTATGAATCTGAACCTGTACTGT 58.319 34.615 0.00 0.00 0.00 3.55
1382 5806 9.307121 CTACTTTATGAATCTGAACCTGTACTG 57.693 37.037 0.00 0.00 0.00 2.74
1383 5807 9.036980 ACTACTTTATGAATCTGAACCTGTACT 57.963 33.333 0.00 0.00 0.00 2.73
1401 5825 7.255520 GCATGGTTAGCTAGCTAGACTACTTTA 60.256 40.741 25.15 10.44 0.00 1.85
1623 6060 6.127758 TGTTGTACAGAGCAATTTGTTCAGTT 60.128 34.615 14.58 2.65 30.81 3.16
1671 6111 6.517362 CGACTCTGGGATGACAACATATATGT 60.517 42.308 12.75 12.75 44.20 2.29
1672 6112 5.866092 CGACTCTGGGATGACAACATATATG 59.134 44.000 11.29 11.29 36.82 1.78
2032 6720 4.331166 TCGAGAACCGACGCGCAA 62.331 61.111 5.73 0.00 43.23 4.85
2098 6786 1.347707 TCCATGACCTTCTTCACGCTT 59.652 47.619 0.00 0.00 0.00 4.68
2159 6850 3.054361 AGACAACTTCCACTCCACAAAGT 60.054 43.478 0.00 0.00 33.53 2.66
2224 6927 6.072893 TCCCGCTTACTATTCAACTTGAAAAC 60.073 38.462 8.28 0.00 40.12 2.43
2228 6931 4.811969 TCCCGCTTACTATTCAACTTGA 57.188 40.909 0.00 0.00 0.00 3.02
2232 6935 6.260271 AGCTTTTATCCCGCTTACTATTCAAC 59.740 38.462 0.00 0.00 0.00 3.18
2245 6951 4.286291 AGGGGAAGTATAGCTTTTATCCCG 59.714 45.833 14.45 0.00 38.01 5.14
2256 6962 5.398236 TGAGGAGATTGAGGGGAAGTATAG 58.602 45.833 0.00 0.00 0.00 1.31
2262 6968 3.203040 GGATTTGAGGAGATTGAGGGGAA 59.797 47.826 0.00 0.00 0.00 3.97
2315 7093 2.306847 ACTTTGACGCCTGGTTCAAAT 58.693 42.857 19.46 11.17 32.60 2.32
2319 7097 2.934553 GGTATACTTTGACGCCTGGTTC 59.065 50.000 2.25 0.00 0.00 3.62
2322 7100 1.208535 TGGGTATACTTTGACGCCTGG 59.791 52.381 2.25 0.00 0.00 4.45
2381 7159 3.074412 GGTGAGATGGGCCATTATTACG 58.926 50.000 22.20 0.00 0.00 3.18
2407 7186 2.110967 CAGCGTTGGAGATGCCCTG 61.111 63.158 0.00 0.00 41.38 4.45
2421 7200 1.444895 GCCAATTTGCCACTCAGCG 60.445 57.895 0.00 0.00 34.65 5.18
2432 7211 1.212935 AGCGGATACAGGAGCCAATTT 59.787 47.619 0.00 0.00 30.53 1.82
2433 7212 0.839946 AGCGGATACAGGAGCCAATT 59.160 50.000 0.00 0.00 30.53 2.32
2434 7213 0.839946 AAGCGGATACAGGAGCCAAT 59.160 50.000 0.00 0.00 30.53 3.16
2435 7214 0.178068 GAAGCGGATACAGGAGCCAA 59.822 55.000 0.00 0.00 30.53 4.52
2436 7215 1.686325 GGAAGCGGATACAGGAGCCA 61.686 60.000 0.00 0.00 30.53 4.75
2437 7216 1.069935 GGAAGCGGATACAGGAGCC 59.930 63.158 0.00 0.00 0.00 4.70
2438 7217 0.178068 TTGGAAGCGGATACAGGAGC 59.822 55.000 0.00 0.00 0.00 4.70
2439 7218 2.678336 GTTTTGGAAGCGGATACAGGAG 59.322 50.000 0.00 0.00 0.00 3.69
2440 7219 2.304761 AGTTTTGGAAGCGGATACAGGA 59.695 45.455 0.00 0.00 0.00 3.86
2441 7220 2.711542 AGTTTTGGAAGCGGATACAGG 58.288 47.619 0.00 0.00 0.00 4.00
2442 7221 5.116180 TGATAGTTTTGGAAGCGGATACAG 58.884 41.667 0.00 0.00 0.00 2.74
2443 7222 5.092554 TGATAGTTTTGGAAGCGGATACA 57.907 39.130 0.00 0.00 0.00 2.29
2445 7224 5.680619 ACATGATAGTTTTGGAAGCGGATA 58.319 37.500 0.00 0.00 0.00 2.59
2447 7226 3.950397 ACATGATAGTTTTGGAAGCGGA 58.050 40.909 0.00 0.00 0.00 5.54
2448 7227 5.296780 ACATACATGATAGTTTTGGAAGCGG 59.703 40.000 0.00 0.00 0.00 5.52
2449 7228 6.363577 ACATACATGATAGTTTTGGAAGCG 57.636 37.500 0.00 0.00 0.00 4.68
2451 7230 6.538742 ACGGACATACATGATAGTTTTGGAAG 59.461 38.462 0.00 0.00 0.00 3.46
2452 7231 6.411376 ACGGACATACATGATAGTTTTGGAA 58.589 36.000 0.00 0.00 0.00 3.53
2454 7260 6.677781 AACGGACATACATGATAGTTTTGG 57.322 37.500 0.00 0.00 0.00 3.28
2464 7270 9.745880 ATTACTCTTTACTAACGGACATACATG 57.254 33.333 0.00 0.00 0.00 3.21
2528 7336 6.741992 TTGATTGTTATCGGCATATGATCC 57.258 37.500 6.97 0.00 33.23 3.36
2529 7337 7.752239 CCTTTTGATTGTTATCGGCATATGATC 59.248 37.037 6.97 0.00 33.23 2.92
2539 7347 4.963276 TGCCTCCTTTTGATTGTTATCG 57.037 40.909 0.00 0.00 33.23 2.92
2543 7351 5.567423 GCATACTTGCCTCCTTTTGATTGTT 60.567 40.000 0.00 0.00 43.38 2.83
2545 7353 4.427312 GCATACTTGCCTCCTTTTGATTG 58.573 43.478 0.00 0.00 43.38 2.67
2566 7374 3.096852 AGGGGGCATGTAAAAACTAAGC 58.903 45.455 0.00 0.00 0.00 3.09
2586 7394 9.003658 AGTACCAAACTGATATTCTTTTGTGAG 57.996 33.333 0.00 0.00 36.93 3.51
2590 7398 7.119262 ACGGAGTACCAAACTGATATTCTTTTG 59.881 37.037 0.00 0.00 41.94 2.44
2645 7453 2.435938 GGCTCGAATTGCCGTCCA 60.436 61.111 0.00 0.00 41.03 4.02
2652 7460 1.448540 AGCGTGGAGGCTCGAATTG 60.449 57.895 8.69 0.00 39.61 2.32
2653 7461 2.982130 AGCGTGGAGGCTCGAATT 59.018 55.556 8.69 0.00 39.61 2.17
2686 7495 3.391382 GGAGGCTGCCTACGTGGT 61.391 66.667 23.44 0.00 38.35 4.16
2718 7533 1.941668 GCAACCAAGAAGGAGGACTCG 60.942 57.143 0.00 0.00 41.22 4.18
2721 7536 0.955919 CGGCAACCAAGAAGGAGGAC 60.956 60.000 0.00 0.00 41.22 3.85
2729 7553 3.126703 TTGGAGGCGGCAACCAAGA 62.127 57.895 27.14 13.61 38.52 3.02
2734 7558 1.648467 GATGAGTTGGAGGCGGCAAC 61.648 60.000 13.08 7.19 0.00 4.17
2735 7559 1.377202 GATGAGTTGGAGGCGGCAA 60.377 57.895 13.08 0.00 0.00 4.52
2766 7593 1.331756 GCCATCCGCTACAAGATGTTG 59.668 52.381 0.13 0.13 38.57 3.33
2780 7607 1.315257 AATGGTCGTGCAAGCCATCC 61.315 55.000 21.66 10.80 41.68 3.51
2781 7608 0.099436 GAATGGTCGTGCAAGCCATC 59.901 55.000 21.66 14.41 41.68 3.51
2783 7610 0.537143 AAGAATGGTCGTGCAAGCCA 60.537 50.000 15.44 15.44 36.64 4.75
2809 7636 6.828785 TCCTTGAATTTGGAGGCTTTAGATAC 59.171 38.462 0.00 0.00 0.00 2.24
2831 7658 3.135530 GGAGAGCACCAAGATGTTATCCT 59.864 47.826 0.00 0.00 37.97 3.24
2835 7662 2.672961 CGGAGAGCACCAAGATGTTA 57.327 50.000 0.00 0.00 0.00 2.41
2882 7712 3.244814 CGAAAGGAAGAAGATCATGCTCG 59.755 47.826 0.00 0.00 0.00 5.03
2885 7715 3.002144 GCTCGAAAGGAAGAAGATCATGC 59.998 47.826 0.00 0.00 0.00 4.06
2890 7720 4.502962 CTCAAGCTCGAAAGGAAGAAGAT 58.497 43.478 0.00 0.00 0.00 2.40
2891 7721 3.862642 GCTCAAGCTCGAAAGGAAGAAGA 60.863 47.826 0.00 0.00 38.21 2.87
2913 7743 3.779759 CCTCAATCTGACCGAGAAGAAG 58.220 50.000 6.71 0.00 33.12 2.85
2921 7751 2.158900 ACCATTAGCCTCAATCTGACCG 60.159 50.000 0.00 0.00 0.00 4.79
2926 7756 3.266772 TGGTTGACCATTAGCCTCAATCT 59.733 43.478 0.00 0.00 42.01 2.40
2942 7772 2.305009 TGTTGTGTGATGCATGGTTGA 58.695 42.857 2.46 0.00 0.00 3.18
2955 7785 1.270839 CGGGAGGATGAGTTGTTGTGT 60.271 52.381 0.00 0.00 0.00 3.72
2956 7786 1.442769 CGGGAGGATGAGTTGTTGTG 58.557 55.000 0.00 0.00 0.00 3.33
2967 7797 1.176527 CACAAAACATGCGGGAGGAT 58.823 50.000 0.00 0.00 43.83 3.24
2985 7815 5.218885 CAAGGAATAATTTGTTGCACGTCA 58.781 37.500 0.00 0.00 0.00 4.35
2987 7817 4.981674 CACAAGGAATAATTTGTTGCACGT 59.018 37.500 0.00 0.00 35.46 4.49
2988 7818 5.218885 TCACAAGGAATAATTTGTTGCACG 58.781 37.500 0.00 0.00 35.46 5.34
3021 7851 9.695526 TTTTGATTAACATTTCTCAAGTCCATG 57.304 29.630 0.00 0.00 0.00 3.66
3040 7870 6.219473 TGGTTCACGCACATTAATTTTGATT 58.781 32.000 0.00 0.00 0.00 2.57
3041 7871 5.777802 TGGTTCACGCACATTAATTTTGAT 58.222 33.333 0.00 0.00 0.00 2.57
3065 7895 2.706339 TGTTGCATTGCCCAAAACTT 57.294 40.000 6.12 0.00 0.00 2.66
3073 7903 4.937015 ACAGGAATAATTTGTTGCATTGCC 59.063 37.500 6.12 0.00 0.00 4.52
3085 7915 5.452255 AGTCCATGCATCACAGGAATAATT 58.548 37.500 5.12 0.00 30.47 1.40
3089 7919 3.021695 CAAGTCCATGCATCACAGGAAT 58.978 45.455 5.12 1.71 30.47 3.01


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.