Multiple sequence alignment - TraesCS6D01G026700

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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 TraesCS6D01G026700 chr6D 100.000 5535 0 0 1 5535 10311884 10306350 0.000000e+00 10222
1 TraesCS6D01G026700 chr6D 82.399 2960 387 62 336 3258 9912075 9914937 0.000000e+00 2457
2 TraesCS6D01G026700 chr6D 80.787 2134 341 41 1215 3315 9852705 9850608 0.000000e+00 1605
3 TraesCS6D01G026700 chr6D 79.823 2260 379 43 1286 3506 9860579 9858358 0.000000e+00 1576
4 TraesCS6D01G026700 chr6D 82.629 639 89 13 3707 4334 9858118 9857491 3.770000e-151 545
5 TraesCS6D01G026700 chr6D 87.857 140 10 5 9 148 9911326 9911458 2.060000e-34 158
6 TraesCS6D01G026700 chr6A 84.262 2891 322 58 336 3187 11682251 11679455 0.000000e+00 2695
7 TraesCS6D01G026700 chr6A 81.973 1875 263 38 1339 3187 11732790 11730965 0.000000e+00 1520
8 TraesCS6D01G026700 chr6A 78.701 2033 315 78 2564 4526 11498432 11500416 0.000000e+00 1247
9 TraesCS6D01G026700 chr6A 77.484 1932 319 73 2038 3915 11475831 11477700 0.000000e+00 1051
10 TraesCS6D01G026700 chr6A 84.629 1119 89 32 336 1437 11467488 11468540 0.000000e+00 1037
11 TraesCS6D01G026700 chr6A 93.692 428 13 4 914 1337 11747317 11746900 3.640000e-176 628
12 TraesCS6D01G026700 chr6A 82.930 744 55 36 4387 5090 11729750 11729039 6.130000e-169 604
13 TraesCS6D01G026700 chr6A 82.661 744 57 36 4387 5090 11678239 11677528 1.330000e-165 593
14 TraesCS6D01G026700 chr6A 88.546 454 34 8 336 784 11756379 11755939 8.160000e-148 534
15 TraesCS6D01G026700 chr6A 89.552 402 36 5 5137 5535 11728906 11728508 6.400000e-139 505
16 TraesCS6D01G026700 chr6A 89.055 402 36 7 5137 5535 11677395 11676999 4.980000e-135 492
17 TraesCS6D01G026700 chr6A 89.947 189 11 5 154 336 11686810 11686624 2.580000e-58 237
18 TraesCS6D01G026700 chr6A 89.947 189 12 3 154 336 11761131 11760944 2.580000e-58 237
19 TraesCS6D01G026700 chr6A 91.275 149 12 1 1 148 11761561 11761413 9.400000e-48 202
20 TraesCS6D01G026700 chr6B 90.757 1915 101 24 3641 5529 18633158 18635022 0.000000e+00 2486
21 TraesCS6D01G026700 chr6B 79.715 3160 512 86 1303 4382 18266420 18269530 0.000000e+00 2165
22 TraesCS6D01G026700 chr6B 77.788 3255 561 93 1347 4524 18165045 18168214 0.000000e+00 1857
23 TraesCS6D01G026700 chr6B 91.235 1255 80 8 3952 5201 18816946 18818175 0.000000e+00 1681
24 TraesCS6D01G026700 chr6B 79.411 2375 380 56 1347 3672 18812735 18815049 0.000000e+00 1576
25 TraesCS6D01G026700 chr6B 78.111 2636 465 67 1347 3917 18225430 18228018 0.000000e+00 1568
26 TraesCS6D01G026700 chr6B 81.552 1946 310 32 1191 3108 17729258 17727334 0.000000e+00 1559
27 TraesCS6D01G026700 chr6B 79.846 2208 362 48 1342 3506 17764462 17762295 0.000000e+00 1535
28 TraesCS6D01G026700 chr6B 79.611 873 112 35 3950 4788 18431734 18432574 2.890000e-157 566
29 TraesCS6D01G026700 chr6B 83.548 389 36 10 865 1252 18812321 18812682 6.870000e-89 339
30 TraesCS6D01G026700 chr6B 93.532 201 11 2 5192 5392 18827731 18827929 1.170000e-76 298
31 TraesCS6D01G026700 chr6B 87.586 145 15 2 5381 5524 18840836 18840694 1.230000e-36 165
32 TraesCS6D01G026700 chr6B 74.699 498 62 35 4592 5051 18398508 18398037 4.440000e-36 163
33 TraesCS6D01G026700 chr6B 74.947 471 58 27 4620 5051 18243141 18243590 1.600000e-35 161
34 TraesCS6D01G026700 chrUn 86.345 1992 177 37 336 2315 240890919 240892827 0.000000e+00 2084
35 TraesCS6D01G026700 chrUn 86.345 1992 177 37 336 2315 268932981 268931073 0.000000e+00 2084
36 TraesCS6D01G026700 chrUn 86.860 1484 106 32 336 1803 300672887 300674297 0.000000e+00 1578
37 TraesCS6D01G026700 chrUn 79.777 1617 228 60 2357 3915 240892825 240894400 0.000000e+00 1083
38 TraesCS6D01G026700 chrUn 79.777 1617 228 59 2357 3915 268931075 268929500 0.000000e+00 1083
39 TraesCS6D01G026700 chrUn 81.071 803 104 29 3961 4742 240894476 240895251 1.030000e-166 597
40 TraesCS6D01G026700 chrUn 80.425 848 112 32 3961 4787 268929424 268928610 1.030000e-166 597
41 TraesCS6D01G026700 chrUn 89.695 262 17 6 336 597 240889686 240889937 5.350000e-85 326
42 TraesCS6D01G026700 chrUn 89.961 259 16 6 339 597 268934211 268933963 5.350000e-85 326
43 TraesCS6D01G026700 chrUn 93.243 148 10 0 1 148 328250131 328249984 9.340000e-53 219
44 TraesCS6D01G026700 chrUn 76.854 445 61 27 4627 5051 240895327 240895749 4.340000e-51 213
45 TraesCS6D01G026700 chrUn 77.136 433 57 27 4639 5051 268928561 268928151 4.340000e-51 213
46 TraesCS6D01G026700 chrUn 76.786 336 55 14 4698 5021 71132253 71132577 3.430000e-37 167
47 TraesCS6D01G026700 chrUn 81.218 197 23 9 4530 4722 71131876 71132062 4.470000e-31 147


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 TraesCS6D01G026700 chr6D 10306350 10311884 5534 True 10222.000000 10222 100.000000 1 5535 1 chr6D.!!$R2 5534
1 TraesCS6D01G026700 chr6D 9850608 9852705 2097 True 1605.000000 1605 80.787000 1215 3315 1 chr6D.!!$R1 2100
2 TraesCS6D01G026700 chr6D 9911326 9914937 3611 False 1307.500000 2457 85.128000 9 3258 2 chr6D.!!$F1 3249
3 TraesCS6D01G026700 chr6D 9857491 9860579 3088 True 1060.500000 1576 81.226000 1286 4334 2 chr6D.!!$R3 3048
4 TraesCS6D01G026700 chr6A 11676999 11682251 5252 True 1260.000000 2695 85.326000 336 5535 3 chr6A.!!$R4 5199
5 TraesCS6D01G026700 chr6A 11498432 11500416 1984 False 1247.000000 1247 78.701000 2564 4526 1 chr6A.!!$F3 1962
6 TraesCS6D01G026700 chr6A 11475831 11477700 1869 False 1051.000000 1051 77.484000 2038 3915 1 chr6A.!!$F2 1877
7 TraesCS6D01G026700 chr6A 11467488 11468540 1052 False 1037.000000 1037 84.629000 336 1437 1 chr6A.!!$F1 1101
8 TraesCS6D01G026700 chr6A 11728508 11732790 4282 True 876.333333 1520 84.818333 1339 5535 3 chr6A.!!$R5 4196
9 TraesCS6D01G026700 chr6A 11760944 11761561 617 True 219.500000 237 90.611000 1 336 2 chr6A.!!$R6 335
10 TraesCS6D01G026700 chr6B 18633158 18635022 1864 False 2486.000000 2486 90.757000 3641 5529 1 chr6B.!!$F6 1888
11 TraesCS6D01G026700 chr6B 18266420 18269530 3110 False 2165.000000 2165 79.715000 1303 4382 1 chr6B.!!$F4 3079
12 TraesCS6D01G026700 chr6B 18165045 18168214 3169 False 1857.000000 1857 77.788000 1347 4524 1 chr6B.!!$F1 3177
13 TraesCS6D01G026700 chr6B 18225430 18228018 2588 False 1568.000000 1568 78.111000 1347 3917 1 chr6B.!!$F2 2570
14 TraesCS6D01G026700 chr6B 17727334 17729258 1924 True 1559.000000 1559 81.552000 1191 3108 1 chr6B.!!$R1 1917
15 TraesCS6D01G026700 chr6B 17762295 17764462 2167 True 1535.000000 1535 79.846000 1342 3506 1 chr6B.!!$R2 2164
16 TraesCS6D01G026700 chr6B 18812321 18818175 5854 False 1198.666667 1681 84.731333 865 5201 3 chr6B.!!$F8 4336
17 TraesCS6D01G026700 chr6B 18431734 18432574 840 False 566.000000 566 79.611000 3950 4788 1 chr6B.!!$F5 838
18 TraesCS6D01G026700 chrUn 300672887 300674297 1410 False 1578.000000 1578 86.860000 336 1803 1 chrUn.!!$F1 1467
19 TraesCS6D01G026700 chrUn 240889686 240895749 6063 False 860.600000 2084 82.748400 336 5051 5 chrUn.!!$F3 4715
20 TraesCS6D01G026700 chrUn 268928151 268934211 6060 True 860.600000 2084 82.728800 336 5051 5 chrUn.!!$R2 4715

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
44 45 0.883814 ACTGCTGCAGCTTCTGTGTC 60.884 55.0 36.61 7.74 42.66 3.67 F
151 153 1.084018 TGCCCCCTTCCTTTGAATCT 58.916 50.0 0.00 0.00 0.00 2.40 F
306 702 1.098050 CGCAACGTAGTAGTAGGGGT 58.902 55.0 0.00 0.00 45.00 4.95 F
2102 3894 1.211818 GCATCGGCTCTCACATCGTC 61.212 60.0 0.00 0.00 36.96 4.20 F
2708 4527 0.482446 TGGGTGCTGAAAACTGGGAT 59.518 50.0 0.00 0.00 0.00 3.85 F
3150 4995 0.035458 AGAAAACTGGCCGAGAGTGG 59.965 55.0 8.91 0.00 0.00 4.00 F
3679 5655 0.034767 TCCGTCACCAGTATCTCCGT 60.035 55.0 0.00 0.00 0.00 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1587 3354 1.152989 CTCTGCATCGCTCTTCTGCC 61.153 60.000 0.00 0.0 35.02 4.85 R
2102 3894 2.032204 GTGTATAGCCCAGTCGTAGTCG 60.032 54.545 0.00 0.0 38.55 4.18 R
2160 3952 2.221169 TGCCTTGTCAATGTCTGTCAC 58.779 47.619 0.00 0.0 0.00 3.67 R
3131 4971 0.035458 CCACTCTCGGCCAGTTTTCT 59.965 55.000 2.24 0.0 0.00 2.52 R
3663 5639 0.179108 GGCACGGAGATACTGGTGAC 60.179 60.000 0.00 0.0 0.00 3.67 R
3971 7634 0.608130 CCTCCGTGAGATCACCACAA 59.392 55.000 15.49 5.2 43.66 3.33 R
5166 9232 0.835276 GGGCAGTCCGTATTAGGGTT 59.165 55.000 2.52 0.0 0.00 4.11 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
44 45 0.883814 ACTGCTGCAGCTTCTGTGTC 60.884 55.000 36.61 7.74 42.66 3.67
94 96 3.059800 GTCGTCAGTTAGTTTCTTGGTGC 60.060 47.826 0.00 0.00 0.00 5.01
104 106 2.380084 TTCTTGGTGCGGTGATAGAC 57.620 50.000 0.00 0.00 0.00 2.59
148 150 2.256306 GATTTGCCCCCTTCCTTTGAA 58.744 47.619 0.00 0.00 0.00 2.69
149 151 2.414250 TTTGCCCCCTTCCTTTGAAT 57.586 45.000 0.00 0.00 0.00 2.57
150 152 1.937191 TTGCCCCCTTCCTTTGAATC 58.063 50.000 0.00 0.00 0.00 2.52
151 153 1.084018 TGCCCCCTTCCTTTGAATCT 58.916 50.000 0.00 0.00 0.00 2.40
152 154 1.272648 TGCCCCCTTCCTTTGAATCTG 60.273 52.381 0.00 0.00 0.00 2.90
172 562 6.452494 TCTGTGTAGGAGAACTAAGCATAC 57.548 41.667 0.00 0.00 32.37 2.39
191 581 3.685139 ACCATGTCAACCTCACACTAG 57.315 47.619 0.00 0.00 0.00 2.57
196 586 6.156949 ACCATGTCAACCTCACACTAGATTAT 59.843 38.462 0.00 0.00 0.00 1.28
200 590 7.997482 TGTCAACCTCACACTAGATTATAGAC 58.003 38.462 0.00 0.00 0.00 2.59
216 612 6.764308 TTATAGACGCCTTGTAGTACACTT 57.236 37.500 1.43 0.00 0.00 3.16
217 613 7.864108 TTATAGACGCCTTGTAGTACACTTA 57.136 36.000 1.43 0.00 0.00 2.24
218 614 6.764308 ATAGACGCCTTGTAGTACACTTAA 57.236 37.500 1.43 0.00 0.00 1.85
243 639 7.334090 ACACAGCTCTTATATGAATCTGTGTT 58.666 34.615 28.14 20.28 46.38 3.32
275 671 3.965292 CAGAGCTGCAAACAGATATGG 57.035 47.619 1.02 0.00 45.44 2.74
293 689 1.729131 GCAACCACATTCCGCAACG 60.729 57.895 0.00 0.00 0.00 4.10
306 702 1.098050 CGCAACGTAGTAGTAGGGGT 58.902 55.000 0.00 0.00 45.00 4.95
310 708 3.056607 GCAACGTAGTAGTAGGGGTTCAA 60.057 47.826 0.00 0.00 45.00 2.69
347 829 8.056407 AGCATCCTACCTTAAGTTTTTCAATC 57.944 34.615 0.97 0.00 0.00 2.67
470 956 9.601217 TCTATCTTTAGCTAAAGCAAAAGGTAG 57.399 33.333 32.56 23.15 45.16 3.18
475 961 5.757099 AGCTAAAGCAAAAGGTAGTCCTA 57.243 39.130 4.54 0.00 43.11 2.94
601 1087 1.376812 CACAAGGTTACTCCCCCGC 60.377 63.158 0.00 0.00 36.75 6.13
606 1092 2.046604 GTTACTCCCCCGCACCAC 60.047 66.667 0.00 0.00 0.00 4.16
648 2374 5.380043 TCTCTTGTTTTTGCTCTCCAATCT 58.620 37.500 0.00 0.00 32.49 2.40
711 2437 6.157904 TCTATCGACCTACAGATTCTCTACG 58.842 44.000 0.00 0.00 0.00 3.51
720 2446 3.762288 ACAGATTCTCTACGTAGTGCCAA 59.238 43.478 21.53 11.06 45.73 4.52
784 2510 4.003648 ACACCTGTACTAAATCTGCTTGC 58.996 43.478 0.00 0.00 0.00 4.01
787 2513 4.256920 CCTGTACTAAATCTGCTTGCTGT 58.743 43.478 0.00 0.00 0.00 4.40
788 2514 4.697352 CCTGTACTAAATCTGCTTGCTGTT 59.303 41.667 0.00 0.00 0.00 3.16
789 2515 5.182001 CCTGTACTAAATCTGCTTGCTGTTT 59.818 40.000 0.00 1.08 0.00 2.83
790 2516 6.294176 CCTGTACTAAATCTGCTTGCTGTTTT 60.294 38.462 11.31 11.31 0.00 2.43
791 2517 7.038154 TGTACTAAATCTGCTTGCTGTTTTT 57.962 32.000 11.65 9.50 0.00 1.94
835 2561 8.480643 TTCTTTAGATTTGTGTAAGCTAGCTC 57.519 34.615 19.65 7.13 36.21 4.09
845 2571 3.379372 TGTAAGCTAGCTCGGTTTATCGT 59.621 43.478 19.65 0.00 0.00 3.73
882 2610 6.775142 TCTCAATGTAGATAGGAAGTCAGGAG 59.225 42.308 0.00 0.00 0.00 3.69
1033 2768 5.997385 AGGTACTTTTGCACTTACAAATCG 58.003 37.500 0.00 0.00 39.18 3.34
1051 2786 3.071874 TCGCCTTTCATTCCATTCTGT 57.928 42.857 0.00 0.00 0.00 3.41
1211 2956 6.418101 ACTATGCATGTTCAGTTAATGGAGT 58.582 36.000 10.16 0.00 0.00 3.85
1525 3292 1.860950 CGGAGTATCAAATGAGCCGTG 59.139 52.381 0.00 0.00 36.25 4.94
1586 3353 2.727123 TTGACTGCTCAAAGTGGGAA 57.273 45.000 0.00 0.00 33.20 3.97
1587 3354 2.260844 TGACTGCTCAAAGTGGGAAG 57.739 50.000 0.00 0.00 0.00 3.46
1598 3365 1.743252 GTGGGAAGGCAGAAGAGCG 60.743 63.158 0.00 0.00 34.64 5.03
1671 3438 3.631145 TGTTTGACAAGCAAGATGAGC 57.369 42.857 1.81 0.00 37.87 4.26
1672 3439 3.216800 TGTTTGACAAGCAAGATGAGCT 58.783 40.909 1.81 0.00 45.97 4.09
1680 3447 4.141551 ACAAGCAAGATGAGCTGGATGATA 60.142 41.667 0.00 0.00 42.53 2.15
1682 3449 6.171213 CAAGCAAGATGAGCTGGATGATATA 58.829 40.000 0.00 0.00 42.53 0.86
1901 3672 2.224523 TGACCCCAAGATGACAGACAAC 60.225 50.000 0.00 0.00 0.00 3.32
2010 3793 1.458639 GGCTGCACAACTTTCCTGCT 61.459 55.000 0.50 0.00 0.00 4.24
2102 3894 1.211818 GCATCGGCTCTCACATCGTC 61.212 60.000 0.00 0.00 36.96 4.20
2132 3924 4.689612 CTGGGCTATACACACCAGTAAT 57.310 45.455 0.00 0.00 44.21 1.89
2213 4005 4.503910 GTGATGTTGTACAGCATGAGGTA 58.496 43.478 27.28 7.74 46.78 3.08
2227 4022 3.263489 TGAGGTACGGTTGTTGAACAA 57.737 42.857 6.66 6.66 35.42 2.83
2280 4078 4.586421 CAGTAATGCTATCCTCTCACCTGA 59.414 45.833 0.00 0.00 0.00 3.86
2338 4142 3.951037 ACAGCAACTTGTGGATTTGTACA 59.049 39.130 0.00 0.00 0.00 2.90
2344 4148 2.093306 TGTGGATTTGTACAGAGCCG 57.907 50.000 15.18 0.00 0.00 5.52
2347 4151 1.003118 TGGATTTGTACAGAGCCGCTT 59.997 47.619 15.18 0.00 0.00 4.68
2349 4153 2.346803 GATTTGTACAGAGCCGCTTCA 58.653 47.619 0.00 0.00 0.00 3.02
2385 4189 1.003972 ACATGTTTCAACACTCGCACG 60.004 47.619 0.00 0.00 42.51 5.34
2497 4304 3.539604 AGCACTGCCAAGATGATCTAAC 58.460 45.455 0.00 0.00 0.00 2.34
2538 4351 4.717877 TCACCACACAGATGAAGACAAAT 58.282 39.130 0.00 0.00 0.00 2.32
2539 4352 5.132502 TCACCACACAGATGAAGACAAATT 58.867 37.500 0.00 0.00 0.00 1.82
2550 4369 7.120873 CAGATGAAGACAAATTGAAGGATGAGT 59.879 37.037 0.00 0.00 0.00 3.41
2648 4467 9.725613 GATTGTGATCAGATCTTGTCAGCAAGC 62.726 44.444 11.83 15.85 40.54 4.01
2708 4527 0.482446 TGGGTGCTGAAAACTGGGAT 59.518 50.000 0.00 0.00 0.00 3.85
2835 4657 5.473039 AGCTTCTTGATTTTTCGGGAAATG 58.527 37.500 2.36 0.00 29.75 2.32
2880 4702 4.047059 CTGGGCCAGCAAGCAACG 62.047 66.667 22.68 0.00 0.00 4.10
2964 4786 1.526464 GCAAAGAATTGGCAAACGTGG 59.474 47.619 3.01 0.00 37.02 4.94
3049 4883 4.026744 CTCAACCTTGGAGGAGTCAGATA 58.973 47.826 0.07 0.00 37.67 1.98
3050 4884 3.769844 TCAACCTTGGAGGAGTCAGATAC 59.230 47.826 0.07 0.00 37.67 2.24
3051 4888 2.379972 ACCTTGGAGGAGTCAGATACG 58.620 52.381 0.07 0.00 37.67 3.06
3066 4903 2.083835 ATACGTCCCCAAGCGGATCG 62.084 60.000 0.00 0.00 33.48 3.69
3076 4913 0.752009 AAGCGGATCGTCCTGCTAGA 60.752 55.000 16.70 0.00 42.48 2.43
3121 4961 3.384168 TGTGGCCAAGGAGTATGATAGT 58.616 45.455 7.24 0.00 0.00 2.12
3123 4963 4.130118 GTGGCCAAGGAGTATGATAGTTG 58.870 47.826 7.24 0.00 0.00 3.16
3124 4964 3.136443 TGGCCAAGGAGTATGATAGTTGG 59.864 47.826 0.61 0.00 37.98 3.77
3125 4965 3.136626 GGCCAAGGAGTATGATAGTTGGT 59.863 47.826 0.00 0.00 37.38 3.67
3126 4966 4.385310 GGCCAAGGAGTATGATAGTTGGTT 60.385 45.833 0.00 0.00 37.38 3.67
3127 4967 4.576463 GCCAAGGAGTATGATAGTTGGTTG 59.424 45.833 0.00 0.00 37.38 3.77
3128 4968 5.126067 CCAAGGAGTATGATAGTTGGTTGG 58.874 45.833 0.00 0.00 31.59 3.77
3129 4969 4.423625 AGGAGTATGATAGTTGGTTGGC 57.576 45.455 0.00 0.00 0.00 4.52
3130 4970 3.131396 GGAGTATGATAGTTGGTTGGCG 58.869 50.000 0.00 0.00 0.00 5.69
3131 4971 3.181469 GGAGTATGATAGTTGGTTGGCGA 60.181 47.826 0.00 0.00 0.00 5.54
3150 4995 0.035458 AGAAAACTGGCCGAGAGTGG 59.965 55.000 8.91 0.00 0.00 4.00
3191 5101 4.225042 TCACCATCAACACCAGCTTATAGT 59.775 41.667 0.00 0.00 0.00 2.12
3218 5128 1.031235 CACCACTTGCACATCCACAA 58.969 50.000 0.00 0.00 0.00 3.33
3287 5197 2.695359 TGGCAGATTTCTGTTACGGAC 58.305 47.619 9.21 0.00 45.45 4.79
3290 5200 3.326747 GCAGATTTCTGTTACGGACACT 58.673 45.455 9.21 0.00 45.45 3.55
3305 5215 2.358405 GGACACTAGGCTCCTTAGGTCT 60.358 54.545 0.00 0.00 0.00 3.85
3320 5230 1.909986 AGGTCTCTTTGTCCCTTAGGC 59.090 52.381 0.00 0.00 0.00 3.93
3325 5235 1.351017 TCTTTGTCCCTTAGGCAGTGG 59.649 52.381 0.00 0.00 0.00 4.00
3390 5321 4.159135 CAGCAAATATCCAAGGAACAAGCT 59.841 41.667 0.00 0.00 0.00 3.74
3393 5324 3.659183 ATATCCAAGGAACAAGCTGCT 57.341 42.857 0.00 0.00 0.00 4.24
3410 5341 3.672511 GCTGCTACGAACTAGTGCAAGTA 60.673 47.826 0.74 0.00 33.07 2.24
3414 5345 4.682860 GCTACGAACTAGTGCAAGTACAAA 59.317 41.667 0.74 0.00 0.00 2.83
3421 5352 4.992319 ACTAGTGCAAGTACAAACGCATAA 59.008 37.500 0.00 0.00 36.64 1.90
3448 5379 5.772393 ACCATAATGGACTCCAAGTACAA 57.228 39.130 0.66 0.00 43.35 2.41
3478 5415 0.112995 AAGAATGGCCCAGTTGCAGA 59.887 50.000 0.00 0.00 0.00 4.26
3479 5416 0.333993 AGAATGGCCCAGTTGCAGAT 59.666 50.000 0.00 0.00 0.00 2.90
3480 5417 1.188863 GAATGGCCCAGTTGCAGATT 58.811 50.000 0.00 0.00 0.00 2.40
3486 5423 1.134907 GCCCAGTTGCAGATTTGATGG 60.135 52.381 0.00 0.00 0.00 3.51
3513 5450 3.381590 GGACTGCCCCAAGATTTACATTC 59.618 47.826 0.00 0.00 0.00 2.67
3520 5457 4.700213 CCCCAAGATTTACATTCGTTCACT 59.300 41.667 0.00 0.00 0.00 3.41
3532 5481 9.647797 TTACATTCGTTCACTTGAATATACAGT 57.352 29.630 0.00 0.00 36.33 3.55
3552 5501 9.730705 ATACAGTTATGATAAAGGTGATCATGG 57.269 33.333 0.00 0.00 42.63 3.66
3595 5571 3.095912 TGCTCCAGGTGCTAGTACTAA 57.904 47.619 14.60 0.00 0.00 2.24
3599 5575 1.475280 CCAGGTGCTAGTACTAACGCA 59.525 52.381 16.47 14.12 0.00 5.24
3608 5584 8.985805 GGTGCTAGTACTAACGCATTATTATTT 58.014 33.333 17.04 0.00 34.60 1.40
3621 5597 9.216117 ACGCATTATTATTTCCTTCCTGTATAC 57.784 33.333 0.00 0.00 0.00 1.47
3628 5604 8.657074 TTATTTCCTTCCTGTATACATTGTCG 57.343 34.615 5.91 0.00 0.00 4.35
3638 5614 4.587262 TGTATACATTGTCGGGCTACATCT 59.413 41.667 0.08 0.00 0.00 2.90
3639 5615 5.771165 TGTATACATTGTCGGGCTACATCTA 59.229 40.000 0.08 0.00 0.00 1.98
3663 5639 2.731451 CACATGTATGATAACGCCTCCG 59.269 50.000 0.00 0.00 41.14 4.63
3679 5655 0.034767 TCCGTCACCAGTATCTCCGT 60.035 55.000 0.00 0.00 0.00 4.69
3680 5656 0.100682 CCGTCACCAGTATCTCCGTG 59.899 60.000 0.00 0.00 0.00 4.94
3684 5660 0.179100 CACCAGTATCTCCGTGCCTG 60.179 60.000 0.00 0.00 0.00 4.85
3685 5661 0.324368 ACCAGTATCTCCGTGCCTGA 60.324 55.000 0.00 0.00 0.00 3.86
3686 5662 0.824109 CCAGTATCTCCGTGCCTGAA 59.176 55.000 0.00 0.00 0.00 3.02
3746 7307 1.064314 TGCCCCAAGTTACACACAGTT 60.064 47.619 0.00 0.00 0.00 3.16
3762 7326 0.396556 AGTTTTTGCTGTTCCCCGGT 60.397 50.000 0.00 0.00 0.00 5.28
3890 7490 2.097110 TCTTACACCTGGACCACTGT 57.903 50.000 0.00 5.55 0.00 3.55
3942 7542 1.037579 GGGCTATTGGACAGGGTTGC 61.038 60.000 0.00 0.00 0.00 4.17
3971 7634 6.636454 TTGGAAACCCTTGAGATAGTGTAT 57.364 37.500 0.00 0.00 0.00 2.29
3998 7667 1.619332 GATCTCACGGAGGTATTCCCC 59.381 57.143 1.76 0.00 43.63 4.81
4005 7674 0.106894 GGAGGTATTCCCCTTGAGCG 59.893 60.000 0.00 0.00 40.37 5.03
4055 7724 0.038166 AATTTCCCAAGCTGAGGCGA 59.962 50.000 0.00 0.00 44.37 5.54
4058 7727 0.908910 TTCCCAAGCTGAGGCGAATA 59.091 50.000 0.00 0.00 44.37 1.75
4077 7746 3.790437 ACCTGCATGAGCTCCCCG 61.790 66.667 12.15 0.06 42.74 5.73
4294 7964 1.508632 CCAACCCACTCGTTGTACTG 58.491 55.000 0.00 0.00 41.30 2.74
4376 8078 8.623903 CCACTTGTACGTATGTTCCTTAGTATA 58.376 37.037 0.00 0.00 0.00 1.47
4430 8140 5.819901 AGCTCTTGTGCTGAACCTAATTATC 59.180 40.000 0.00 0.00 42.33 1.75
4499 8225 6.618287 ATGTGTGGTTAATCATTCATACCG 57.382 37.500 6.76 0.00 0.00 4.02
4528 8255 2.979814 TGTATGCTGCAGGTAATCGT 57.020 45.000 17.12 1.86 0.00 3.73
4635 8381 2.027460 CTGTGCGTTGTTTGCCCC 59.973 61.111 0.00 0.00 0.00 5.80
4659 8408 0.038343 CCCGCTTGATTGGTTTGTGG 60.038 55.000 0.00 0.00 0.00 4.17
4660 8409 0.673437 CCGCTTGATTGGTTTGTGGT 59.327 50.000 0.00 0.00 0.00 4.16
4661 8410 1.602668 CCGCTTGATTGGTTTGTGGTG 60.603 52.381 0.00 0.00 0.00 4.17
5021 8995 3.763360 TCTGTTCCCATGCCAGTTTTATG 59.237 43.478 0.00 0.00 0.00 1.90
5052 9027 1.196808 GTGCCATTGTGTACTTGGACG 59.803 52.381 8.34 0.00 31.94 4.79
5053 9028 0.802494 GCCATTGTGTACTTGGACGG 59.198 55.000 8.34 0.00 31.94 4.79
5054 9029 1.880646 GCCATTGTGTACTTGGACGGT 60.881 52.381 8.34 0.00 31.94 4.83
5055 9030 2.500229 CCATTGTGTACTTGGACGGTT 58.500 47.619 0.00 0.00 31.94 4.44
5056 9031 2.225491 CCATTGTGTACTTGGACGGTTG 59.775 50.000 0.00 0.00 31.94 3.77
5057 9032 1.956297 TTGTGTACTTGGACGGTTGG 58.044 50.000 0.00 0.00 0.00 3.77
5058 9033 1.121378 TGTGTACTTGGACGGTTGGA 58.879 50.000 0.00 0.00 0.00 3.53
5059 9034 1.202557 TGTGTACTTGGACGGTTGGAC 60.203 52.381 0.00 0.00 0.00 4.02
5096 9143 6.448369 TTACCTGTTAGGCTGGCATATATT 57.552 37.500 3.38 0.00 39.63 1.28
5224 9291 7.655236 TTGCATACAATTTCATTTCTTGGTG 57.345 32.000 0.00 0.00 0.00 4.17
5250 9319 1.090728 TTTCAGTGCGTCTTTGTGCA 58.909 45.000 0.00 0.00 39.13 4.57
5310 9379 1.594310 GGCTGGCTCGAAAGACTCT 59.406 57.895 0.00 0.00 35.39 3.24
5341 9410 4.458397 CTCAATTAGCATCATGGTCCTGT 58.542 43.478 0.00 0.00 0.00 4.00
5493 9562 6.897966 ACCCATCTTCTAGTGACTTCTGAATA 59.102 38.462 0.00 0.00 0.00 1.75
5495 9564 7.708752 CCCATCTTCTAGTGACTTCTGAATAAC 59.291 40.741 0.00 0.00 0.00 1.89
5529 9598 7.831691 TTCTGCTGAGCTAAAGACTATCTAT 57.168 36.000 5.83 0.00 0.00 1.98
5530 9599 7.213216 TCTGCTGAGCTAAAGACTATCTATG 57.787 40.000 5.83 0.00 0.00 2.23
5531 9600 6.775142 TCTGCTGAGCTAAAGACTATCTATGT 59.225 38.462 5.83 0.00 0.00 2.29
5533 9602 8.465273 TGCTGAGCTAAAGACTATCTATGTTA 57.535 34.615 5.83 0.00 0.00 2.41
5534 9603 9.083422 TGCTGAGCTAAAGACTATCTATGTTAT 57.917 33.333 5.83 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 0.942962 GAAATGCAGAGCCGATGGAG 59.057 55.000 0.00 0.00 0.00 3.86
94 96 3.165559 GCAGTAGCGTCTATCACCG 57.834 57.895 0.00 0.00 0.00 4.94
148 150 6.041069 GGTATGCTTAGTTCTCCTACACAGAT 59.959 42.308 0.00 0.00 0.00 2.90
149 151 5.360144 GGTATGCTTAGTTCTCCTACACAGA 59.640 44.000 0.00 0.00 0.00 3.41
150 152 5.127194 TGGTATGCTTAGTTCTCCTACACAG 59.873 44.000 0.00 0.00 0.00 3.66
151 153 5.020795 TGGTATGCTTAGTTCTCCTACACA 58.979 41.667 0.00 0.00 0.00 3.72
152 154 5.593679 TGGTATGCTTAGTTCTCCTACAC 57.406 43.478 0.00 0.00 0.00 2.90
172 562 3.961480 TCTAGTGTGAGGTTGACATGG 57.039 47.619 0.00 0.00 0.00 3.66
191 581 6.968250 AGTGTACTACAAGGCGTCTATAATC 58.032 40.000 0.00 0.00 0.00 1.75
196 586 5.473162 TGTTAAGTGTACTACAAGGCGTCTA 59.527 40.000 0.00 0.00 0.00 2.59
200 590 4.300803 TGTGTTAAGTGTACTACAAGGCG 58.699 43.478 0.00 0.00 0.00 5.52
216 612 8.877808 CACAGATTCATATAAGAGCTGTGTTA 57.122 34.615 22.08 0.00 42.02 2.41
217 613 7.783090 CACAGATTCATATAAGAGCTGTGTT 57.217 36.000 22.08 0.00 42.02 3.32
243 639 1.817357 CAGCTCTGGAGAAATGTGCA 58.183 50.000 1.35 0.00 0.00 4.57
275 671 1.729131 CGTTGCGGAATGTGGTTGC 60.729 57.895 0.00 0.00 0.00 4.17
293 689 4.880120 GGCAAATTGAACCCCTACTACTAC 59.120 45.833 0.00 0.00 0.00 2.73
306 702 3.134442 GGATGCTAATGGGGCAAATTGAA 59.866 43.478 0.00 0.00 43.14 2.69
310 708 2.781403 AGGATGCTAATGGGGCAAAT 57.219 45.000 0.00 0.00 43.14 2.32
347 829 1.475280 CATTGTGGGGTCTTCATGCTG 59.525 52.381 0.00 0.00 0.00 4.41
470 956 5.879223 CCATATTCTCAATCCATGCTAGGAC 59.121 44.000 0.00 0.00 41.30 3.85
475 961 6.267014 CCTTTTCCATATTCTCAATCCATGCT 59.733 38.462 0.00 0.00 0.00 3.79
601 1087 1.992233 AACAGCTGTGCAACGTGGTG 61.992 55.000 22.49 0.00 43.51 4.17
624 1110 5.829924 AGATTGGAGAGCAAAAACAAGAGAA 59.170 36.000 0.00 0.00 0.00 2.87
625 1111 5.380043 AGATTGGAGAGCAAAAACAAGAGA 58.620 37.500 0.00 0.00 0.00 3.10
626 1112 5.702349 AGATTGGAGAGCAAAAACAAGAG 57.298 39.130 0.00 0.00 0.00 2.85
711 2437 5.472137 TGGTTAAGTGAAGAATTGGCACTAC 59.528 40.000 0.00 0.00 41.65 2.73
788 2514 9.849166 AAGAATTCAACAAGTTCGTCTTAAAAA 57.151 25.926 8.44 0.00 34.66 1.94
789 2515 9.849166 AAAGAATTCAACAAGTTCGTCTTAAAA 57.151 25.926 8.44 0.00 34.66 1.52
792 2518 9.537192 TCTAAAGAATTCAACAAGTTCGTCTTA 57.463 29.630 8.44 0.00 34.66 2.10
793 2519 8.433421 TCTAAAGAATTCAACAAGTTCGTCTT 57.567 30.769 8.44 0.00 36.75 3.01
794 2520 8.608844 ATCTAAAGAATTCAACAAGTTCGTCT 57.391 30.769 8.44 0.00 0.00 4.18
795 2521 9.665264 AAATCTAAAGAATTCAACAAGTTCGTC 57.335 29.630 8.44 0.00 0.00 4.20
796 2522 9.450807 CAAATCTAAAGAATTCAACAAGTTCGT 57.549 29.630 8.44 0.00 0.00 3.85
797 2523 9.450807 ACAAATCTAAAGAATTCAACAAGTTCG 57.549 29.630 8.44 0.00 0.00 3.95
803 2529 9.677567 GCTTACACAAATCTAAAGAATTCAACA 57.322 29.630 8.44 0.00 0.00 3.33
804 2530 9.899226 AGCTTACACAAATCTAAAGAATTCAAC 57.101 29.630 8.44 0.00 0.00 3.18
835 2561 7.699391 TGAGATACAAGTAGAAACGATAAACCG 59.301 37.037 0.00 0.00 0.00 4.44
1033 2768 3.256631 ACACACAGAATGGAATGAAAGGC 59.743 43.478 0.00 0.00 43.62 4.35
1066 2801 2.555199 ACTGCGCTTGAATGGATAGAC 58.445 47.619 9.73 0.00 0.00 2.59
1094 2829 6.301486 ACCCCAAAATCTACCGTAATTATCC 58.699 40.000 0.00 0.00 0.00 2.59
1232 2977 6.138391 TGGGCTATTGGCAATATTCTGATA 57.862 37.500 19.55 0.00 44.01 2.15
1546 3313 7.014518 AGTCAATGTGGATGATTTTCTCAAACA 59.985 33.333 0.00 0.00 37.44 2.83
1586 3353 1.153409 CTGCATCGCTCTTCTGCCT 60.153 57.895 0.00 0.00 35.02 4.75
1587 3354 1.152989 CTCTGCATCGCTCTTCTGCC 61.153 60.000 0.00 0.00 35.02 4.85
1598 3365 3.250521 GCTCTGCTATTTTCCTCTGCATC 59.749 47.826 0.00 0.00 33.02 3.91
1671 3438 9.610705 CTCATCTAACCCATTTATATCATCCAG 57.389 37.037 0.00 0.00 0.00 3.86
1672 3439 8.551440 CCTCATCTAACCCATTTATATCATCCA 58.449 37.037 0.00 0.00 0.00 3.41
1680 3447 4.043435 GGAGCCCTCATCTAACCCATTTAT 59.957 45.833 0.00 0.00 0.00 1.40
1682 3449 2.175715 GGAGCCCTCATCTAACCCATTT 59.824 50.000 0.00 0.00 0.00 2.32
1901 3672 7.869747 AACATGTGTTGTTGTGCTCTTCACG 62.870 44.000 0.00 0.00 46.80 4.35
2023 3806 6.760127 GCAATCGCTGAATCTATGAAGATAC 58.240 40.000 0.00 0.00 36.96 2.24
2102 3894 2.032204 GTGTATAGCCCAGTCGTAGTCG 60.032 54.545 0.00 0.00 38.55 4.18
2132 3924 3.329225 TGATCCCATCGCATACCCAATAA 59.671 43.478 0.00 0.00 0.00 1.40
2160 3952 2.221169 TGCCTTGTCAATGTCTGTCAC 58.779 47.619 0.00 0.00 0.00 3.67
2213 4005 4.606961 GATTGTCATTGTTCAACAACCGT 58.393 39.130 4.73 0.00 41.40 4.83
2227 4022 9.770097 ATTCATCATTACTAAGTCGATTGTCAT 57.230 29.630 0.00 0.00 0.00 3.06
2280 4078 3.647824 GCGCTCAGCTGACTTTGT 58.352 55.556 13.74 0.00 44.04 2.83
2338 4142 2.234908 AGAATAACACTGAAGCGGCTCT 59.765 45.455 1.45 0.00 0.00 4.09
2344 4148 5.985781 TGTTTTCGAGAATAACACTGAAGC 58.014 37.500 0.00 0.00 0.00 3.86
2347 4151 7.490962 AACATGTTTTCGAGAATAACACTGA 57.509 32.000 4.92 0.00 34.90 3.41
2349 4153 7.925993 TGAAACATGTTTTCGAGAATAACACT 58.074 30.769 24.02 0.00 34.90 3.55
2497 4304 8.685427 TGTGGTGATGATTTATGGTAATTCTTG 58.315 33.333 0.00 0.00 0.00 3.02
2530 4337 6.015940 GTCCAACTCATCCTTCAATTTGTCTT 60.016 38.462 0.00 0.00 0.00 3.01
2538 4351 4.163441 TGTTGTCCAACTCATCCTTCAA 57.837 40.909 11.14 0.00 41.67 2.69
2539 4352 3.855255 TGTTGTCCAACTCATCCTTCA 57.145 42.857 11.14 0.00 41.67 3.02
2550 4369 0.171455 GCGGTGTTGTTGTTGTCCAA 59.829 50.000 0.00 0.00 0.00 3.53
2568 4387 1.863267 AAGCATGAGCACGATCTAGC 58.137 50.000 0.00 0.00 45.49 3.42
2708 4527 1.806247 CGTCCTCGCAAATGGCTCATA 60.806 52.381 0.00 0.00 41.67 2.15
2835 4657 2.153645 TGTCATGCCTTGTGTGATGTC 58.846 47.619 0.00 0.00 0.00 3.06
2880 4702 2.892784 ATGACGCTCTTAAGGCTACC 57.107 50.000 1.85 0.00 0.00 3.18
2964 4786 5.016831 ACCCCTCAATAATCCTTTCAACAC 58.983 41.667 0.00 0.00 0.00 3.32
3049 4883 4.143333 CGATCCGCTTGGGGACGT 62.143 66.667 8.60 0.00 39.34 4.34
3050 4884 4.143333 ACGATCCGCTTGGGGACG 62.143 66.667 18.73 18.73 39.34 4.79
3051 4888 2.202892 GACGATCCGCTTGGGGAC 60.203 66.667 8.60 3.10 39.34 4.46
3066 4903 2.099098 GCTTCTCAGAGTCTAGCAGGAC 59.901 54.545 7.61 1.53 36.56 3.85
3076 4913 1.181741 TGCACGGAGCTTCTCAGAGT 61.182 55.000 0.00 0.00 45.94 3.24
3121 4961 1.028905 CCAGTTTTCTCGCCAACCAA 58.971 50.000 0.00 0.00 0.00 3.67
3123 4963 1.285950 GCCAGTTTTCTCGCCAACC 59.714 57.895 0.00 0.00 0.00 3.77
3124 4964 4.944249 GCCAGTTTTCTCGCCAAC 57.056 55.556 0.00 0.00 0.00 3.77
3128 4968 1.355066 CTCTCGGCCAGTTTTCTCGC 61.355 60.000 2.24 0.00 33.36 5.03
3129 4969 0.038159 ACTCTCGGCCAGTTTTCTCG 60.038 55.000 2.24 0.00 0.00 4.04
3130 4970 1.433534 CACTCTCGGCCAGTTTTCTC 58.566 55.000 2.24 0.00 0.00 2.87
3131 4971 0.035458 CCACTCTCGGCCAGTTTTCT 59.965 55.000 2.24 0.00 0.00 2.52
3150 4995 1.675483 TGAGGTTGTGTCAATGTGCAC 59.325 47.619 10.75 10.75 36.26 4.57
3218 5128 1.059006 GGTGGAGGGATGGATCAGCT 61.059 60.000 0.00 0.00 0.00 4.24
3287 5197 3.306472 AGAGACCTAAGGAGCCTAGTG 57.694 52.381 0.00 0.00 0.00 2.74
3290 5200 4.024670 GACAAAGAGACCTAAGGAGCCTA 58.975 47.826 0.00 0.00 0.00 3.93
3305 5215 1.351017 CCACTGCCTAAGGGACAAAGA 59.649 52.381 0.00 0.00 33.58 2.52
3365 5275 2.423185 TGTTCCTTGGATATTTGCTGCG 59.577 45.455 0.00 0.00 0.00 5.18
3371 5281 4.347607 AGCAGCTTGTTCCTTGGATATTT 58.652 39.130 0.00 0.00 0.00 1.40
3374 5305 3.678806 CGTAGCAGCTTGTTCCTTGGATA 60.679 47.826 0.00 0.00 0.00 2.59
3390 5321 3.253921 TGTACTTGCACTAGTTCGTAGCA 59.746 43.478 0.95 0.95 30.92 3.49
3393 5324 4.676471 CGTTTGTACTTGCACTAGTTCGTA 59.324 41.667 0.00 0.00 0.00 3.43
3410 5341 7.121463 TCCATTATGGTACTTTTATGCGTTTGT 59.879 33.333 11.39 0.00 39.03 2.83
3414 5345 6.354130 AGTCCATTATGGTACTTTTATGCGT 58.646 36.000 11.39 0.00 39.03 5.24
3421 5352 6.388619 ACTTGGAGTCCATTATGGTACTTT 57.611 37.500 14.00 0.00 39.03 2.66
3448 5379 3.266772 TGGGCCATTCTTCAGTACATCTT 59.733 43.478 0.00 0.00 0.00 2.40
3478 5415 1.549203 GCAGTCCCACACCATCAAAT 58.451 50.000 0.00 0.00 0.00 2.32
3479 5416 0.539438 GGCAGTCCCACACCATCAAA 60.539 55.000 0.00 0.00 0.00 2.69
3480 5417 1.074775 GGCAGTCCCACACCATCAA 59.925 57.895 0.00 0.00 0.00 2.57
3506 5443 9.647797 ACTGTATATTCAAGTGAACGAATGTAA 57.352 29.630 0.00 0.00 36.80 2.41
3531 5480 7.389053 GTCCTCCATGATCACCTTTATCATAAC 59.611 40.741 0.00 0.00 41.13 1.89
3532 5481 7.072328 TGTCCTCCATGATCACCTTTATCATAA 59.928 37.037 0.00 0.00 41.13 1.90
3536 5485 5.296151 TGTCCTCCATGATCACCTTTATC 57.704 43.478 0.00 0.00 0.00 1.75
3552 5501 3.951680 TCCTCCAAAAGTTTGTTGTCCTC 59.048 43.478 3.26 0.00 36.45 3.71
3595 5571 9.216117 GTATACAGGAAGGAAATAATAATGCGT 57.784 33.333 0.00 0.00 0.00 5.24
3608 5584 3.386726 CCCGACAATGTATACAGGAAGGA 59.613 47.826 11.91 0.00 0.00 3.36
3612 5588 2.394632 AGCCCGACAATGTATACAGGA 58.605 47.619 11.91 0.00 0.00 3.86
3613 5589 2.910688 AGCCCGACAATGTATACAGG 57.089 50.000 11.91 8.56 0.00 4.00
3621 5597 2.738846 GCATAGATGTAGCCCGACAATG 59.261 50.000 0.00 0.00 31.83 2.82
3624 5600 1.068588 GTGCATAGATGTAGCCCGACA 59.931 52.381 0.00 0.00 0.00 4.35
3625 5601 1.068588 TGTGCATAGATGTAGCCCGAC 59.931 52.381 0.00 0.00 0.00 4.79
3626 5602 1.408969 TGTGCATAGATGTAGCCCGA 58.591 50.000 0.00 0.00 0.00 5.14
3628 5604 3.131709 ACATGTGCATAGATGTAGCCC 57.868 47.619 0.00 0.00 38.85 5.19
3638 5614 4.893608 AGGCGTTATCATACATGTGCATA 58.106 39.130 9.11 0.00 0.00 3.14
3639 5615 3.743521 AGGCGTTATCATACATGTGCAT 58.256 40.909 9.11 0.00 0.00 3.96
3663 5639 0.179108 GGCACGGAGATACTGGTGAC 60.179 60.000 0.00 0.00 0.00 3.67
3684 5660 4.348168 TCCTAGCATATCCCAACCTTCTTC 59.652 45.833 0.00 0.00 0.00 2.87
3685 5661 4.307259 TCCTAGCATATCCCAACCTTCTT 58.693 43.478 0.00 0.00 0.00 2.52
3686 5662 3.941629 TCCTAGCATATCCCAACCTTCT 58.058 45.455 0.00 0.00 0.00 2.85
3692 7252 2.040278 GCACCATCCTAGCATATCCCAA 59.960 50.000 0.00 0.00 0.00 4.12
3700 7261 3.479203 CCCGGCACCATCCTAGCA 61.479 66.667 0.00 0.00 0.00 3.49
3746 7307 0.885596 CGTACCGGGGAACAGCAAAA 60.886 55.000 6.32 0.00 0.00 2.44
3971 7634 0.608130 CCTCCGTGAGATCACCACAA 59.392 55.000 15.49 5.20 43.66 3.33
4055 7724 1.133976 GGGAGCTCATGCAGGTGTATT 60.134 52.381 17.19 0.00 42.74 1.89
4058 7727 2.673523 GGGAGCTCATGCAGGTGT 59.326 61.111 17.19 0.00 42.74 4.16
4294 7964 3.756727 GCAGCTGGGCCTTCTTGC 61.757 66.667 17.12 6.10 0.00 4.01
4472 8198 8.559536 GGTATGAATGATTAACCACACATACTG 58.440 37.037 19.09 0.00 37.85 2.74
4499 8225 1.000385 TGCAGCATACAAACCAGCAAC 60.000 47.619 0.00 0.00 0.00 4.17
4635 8381 1.247567 AACCAATCAAGCGGGAAGTG 58.752 50.000 0.00 0.00 0.00 3.16
4659 8408 6.019779 ACACAGATGTAGAGAGAAGAACAC 57.980 41.667 0.00 0.00 37.26 3.32
4660 8409 6.450545 CAACACAGATGTAGAGAGAAGAACA 58.549 40.000 0.00 0.00 38.45 3.18
4661 8410 5.347364 GCAACACAGATGTAGAGAGAAGAAC 59.653 44.000 0.00 0.00 38.45 3.01
5021 8995 2.924926 CACAATGGCACAATGCACATAC 59.075 45.455 2.81 0.00 44.27 2.39
5052 9027 2.717639 ATAGCACATCAGGTCCAACC 57.282 50.000 0.00 0.00 38.99 3.77
5053 9028 5.163652 GGTAAAATAGCACATCAGGTCCAAC 60.164 44.000 0.00 0.00 0.00 3.77
5054 9029 4.947388 GGTAAAATAGCACATCAGGTCCAA 59.053 41.667 0.00 0.00 0.00 3.53
5055 9030 4.227300 AGGTAAAATAGCACATCAGGTCCA 59.773 41.667 0.00 0.00 0.00 4.02
5056 9031 4.576463 CAGGTAAAATAGCACATCAGGTCC 59.424 45.833 0.00 0.00 0.00 4.46
5057 9032 5.186198 ACAGGTAAAATAGCACATCAGGTC 58.814 41.667 0.00 0.00 0.00 3.85
5058 9033 5.179452 ACAGGTAAAATAGCACATCAGGT 57.821 39.130 0.00 0.00 0.00 4.00
5059 9034 6.260936 CCTAACAGGTAAAATAGCACATCAGG 59.739 42.308 0.00 0.00 0.00 3.86
5166 9232 0.835276 GGGCAGTCCGTATTAGGGTT 59.165 55.000 2.52 0.00 0.00 4.11
5177 9243 5.562298 TTAATTATAGTGAGGGGCAGTCC 57.438 43.478 0.00 0.00 0.00 3.85
5231 9300 1.090728 TGCACAAAGACGCACTGAAA 58.909 45.000 0.00 0.00 31.95 2.69
5232 9301 1.090728 TTGCACAAAGACGCACTGAA 58.909 45.000 0.00 0.00 38.00 3.02
5233 9302 1.090728 TTTGCACAAAGACGCACTGA 58.909 45.000 0.00 0.00 38.00 3.41
5234 9303 1.191096 GTTTGCACAAAGACGCACTG 58.809 50.000 0.00 0.00 38.00 3.66
5341 9410 5.851720 TGGAGACAAAATATTGCAAAGCAA 58.148 33.333 1.71 6.90 45.82 3.91
5452 9521 1.146774 TGGGTGGATTGGAGAGCAAAA 59.853 47.619 0.00 0.00 0.00 2.44
5495 9564 3.350833 AGCTCAGCAGAAACCAAATAGG 58.649 45.455 0.00 0.00 45.67 2.57


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

AutoCloner maintained by Alex Coulton.