Multiple sequence alignment - TraesCS5A01G520100

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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 TraesCS5A01G520100 chr5A 100.000 3263 0 0 1 3263 680987504 680984242 0.000000e+00 6026
1 TraesCS5A01G520100 chr5A 89.482 618 52 9 2658 3263 680869171 680868555 0.000000e+00 769
2 TraesCS5A01G520100 chr5A 80.707 622 73 24 1820 2431 680869792 680869208 1.070000e-119 440
3 TraesCS5A01G520100 chr4D 95.614 1482 52 4 960 2438 500306109 500304638 0.000000e+00 2364
4 TraesCS5A01G520100 chr4D 98.594 640 8 1 2624 3263 500304647 500304009 0.000000e+00 1131
5 TraesCS5A01G520100 chr4D 90.282 638 54 8 2630 3263 500200892 500200259 0.000000e+00 828
6 TraesCS5A01G520100 chr4D 79.811 1164 151 35 1296 2432 500201998 500200892 0.000000e+00 771
7 TraesCS5A01G520100 chr4D 89.024 492 45 5 1 485 500307972 500307483 4.660000e-168 601
8 TraesCS5A01G520100 chr4D 81.074 782 97 22 1540 2310 500156113 500155372 7.850000e-161 577
9 TraesCS5A01G520100 chr4B 95.228 1488 57 6 951 2438 643634271 643632798 0.000000e+00 2342
10 TraesCS5A01G520100 chr4B 96.568 641 18 4 2624 3263 643632807 643632170 0.000000e+00 1059
11 TraesCS5A01G520100 chr4B 90.610 639 52 6 2630 3263 643531881 643531246 0.000000e+00 841
12 TraesCS5A01G520100 chr4B 89.833 600 55 4 2668 3263 643485516 643484919 0.000000e+00 765
13 TraesCS5A01G520100 chr4B 80.023 866 104 37 1 839 643635360 643634537 7.850000e-161 577
14 TraesCS5A01G520100 chr4B 78.507 991 130 44 1250 2213 643486670 643485736 1.020000e-159 573
15 TraesCS5A01G520100 chr4B 79.144 911 129 27 1541 2432 643532749 643531881 1.020000e-159 573
16 TraesCS5A01G520100 chrUn 91.680 637 45 8 2630 3263 60471154 60471785 0.000000e+00 876
17 TraesCS5A01G520100 chrUn 91.457 597 48 3 2668 3263 60413555 60414149 0.000000e+00 817
18 TraesCS5A01G520100 chrUn 91.349 578 49 1 2687 3263 16757544 16758121 0.000000e+00 789
19 TraesCS5A01G520100 chrUn 78.224 1194 157 44 1262 2432 60412402 60413515 0.000000e+00 669
20 TraesCS5A01G520100 chrUn 77.844 1169 152 46 1250 2386 60470022 60471115 2.760000e-175 625
21 TraesCS5A01G520100 chrUn 77.052 1011 141 38 1251 2233 285026545 285025598 6.290000e-137 497
22 TraesCS5A01G520100 chrUn 77.052 1011 141 38 1251 2233 293568153 293569100 6.290000e-137 497
23 TraesCS5A01G520100 chrUn 79.096 708 88 24 1262 1951 16756537 16757202 1.800000e-117 433
24 TraesCS5A01G520100 chrUn 77.385 283 38 8 1251 1523 60365331 60365597 9.440000e-31 145
25 TraesCS5A01G520100 chr7A 92.718 206 12 2 2435 2640 610942944 610942742 8.850000e-76 294
26 TraesCS5A01G520100 chr7D 93.750 192 11 1 2434 2624 552968435 552968244 1.480000e-73 287
27 TraesCS5A01G520100 chr1A 91.919 198 14 2 2436 2632 398057800 398057996 3.210000e-70 276
28 TraesCS5A01G520100 chr1A 93.085 188 11 2 2439 2626 586291274 586291459 1.150000e-69 274
29 TraesCS5A01G520100 chr2D 93.514 185 11 1 2440 2624 620298107 620298290 1.150000e-69 274
30 TraesCS5A01G520100 chr2B 92.973 185 12 1 2440 2624 796458543 796458726 5.370000e-68 268
31 TraesCS5A01G520100 chr5D 90.955 199 16 2 2430 2628 488352311 488352507 1.930000e-67 267
32 TraesCS5A01G520100 chr3A 90.099 202 15 4 2436 2635 157724368 157724170 1.160000e-64 257
33 TraesCS5A01G520100 chr2A 87.773 229 13 11 2422 2646 3113440 3113657 1.500000e-63 254
34 TraesCS5A01G520100 chr6D 83.475 236 31 8 55 285 379484502 379484270 2.550000e-51 213


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 TraesCS5A01G520100 chr5A 680984242 680987504 3262 True 6026.000000 6026 100.000000 1 3263 1 chr5A.!!$R1 3262
1 TraesCS5A01G520100 chr5A 680868555 680869792 1237 True 604.500000 769 85.094500 1820 3263 2 chr5A.!!$R2 1443
2 TraesCS5A01G520100 chr4D 500304009 500307972 3963 True 1365.333333 2364 94.410667 1 3263 3 chr4D.!!$R3 3262
3 TraesCS5A01G520100 chr4D 500200259 500201998 1739 True 799.500000 828 85.046500 1296 3263 2 chr4D.!!$R2 1967
4 TraesCS5A01G520100 chr4D 500155372 500156113 741 True 577.000000 577 81.074000 1540 2310 1 chr4D.!!$R1 770
5 TraesCS5A01G520100 chr4B 643632170 643635360 3190 True 1326.000000 2342 90.606333 1 3263 3 chr4B.!!$R3 3262
6 TraesCS5A01G520100 chr4B 643531246 643532749 1503 True 707.000000 841 84.877000 1541 3263 2 chr4B.!!$R2 1722
7 TraesCS5A01G520100 chr4B 643484919 643486670 1751 True 669.000000 765 84.170000 1250 3263 2 chr4B.!!$R1 2013
8 TraesCS5A01G520100 chrUn 60470022 60471785 1763 False 750.500000 876 84.762000 1250 3263 2 chrUn.!!$F5 2013
9 TraesCS5A01G520100 chrUn 60412402 60414149 1747 False 743.000000 817 84.840500 1262 3263 2 chrUn.!!$F4 2001
10 TraesCS5A01G520100 chrUn 16756537 16758121 1584 False 611.000000 789 85.222500 1262 3263 2 chrUn.!!$F3 2001
11 TraesCS5A01G520100 chrUn 285025598 285026545 947 True 497.000000 497 77.052000 1251 2233 1 chrUn.!!$R1 982
12 TraesCS5A01G520100 chrUn 293568153 293569100 947 False 497.000000 497 77.052000 1251 2233 1 chrUn.!!$F2 982

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
173 174 0.326618 ACACCACCATAGGGAGAGGG 60.327 60.0 0.00 0.00 38.05 4.3 F
939 1809 0.399454 CCAGATCGGCCCATCAATCT 59.601 55.0 13.24 3.57 0.00 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1743 2948 1.000396 ATTCTTCAGCAGGCACCCC 60.000 57.895 0.0 0.0 0.0 4.95 R
2438 3702 0.331616 ATGTGCCCTAGACAAACCCC 59.668 55.000 0.0 0.0 0.0 4.95 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
43 44 4.515191 GTGAAGGCACAACATACTTCAGAA 59.485 41.667 6.24 0.00 46.84 3.02
45 46 5.769662 TGAAGGCACAACATACTTCAGAAAT 59.230 36.000 0.00 0.00 42.95 2.17
68 69 3.361158 CGCCGCCACAACATCCAA 61.361 61.111 0.00 0.00 0.00 3.53
82 83 6.038603 CACAACATCCAAAACAGAGAGAGAAA 59.961 38.462 0.00 0.00 0.00 2.52
88 89 6.234177 TCCAAAACAGAGAGAGAAAAGATCC 58.766 40.000 0.00 0.00 0.00 3.36
142 143 5.261040 TCTCTTCCACCCATCTTCATTTT 57.739 39.130 0.00 0.00 0.00 1.82
173 174 0.326618 ACACCACCATAGGGAGAGGG 60.327 60.000 0.00 0.00 38.05 4.30
177 178 2.294536 ACCACCATAGGGAGAGGGATTT 60.295 50.000 0.00 0.00 38.05 2.17
178 179 2.107204 CCACCATAGGGAGAGGGATTTG 59.893 54.545 0.00 0.00 38.05 2.32
247 248 8.579682 AGATCAAAACTTGTTTAAGCATTCAC 57.420 30.769 0.00 0.00 37.43 3.18
255 256 7.951591 ACTTGTTTAAGCATTCACCTTATTGT 58.048 30.769 0.00 0.00 37.43 2.71
269 270 4.336433 ACCTTATTGTGGATCTTTGCGATG 59.664 41.667 0.00 0.00 30.84 3.84
293 294 8.918202 TGTTATCGATATAATTTTCCTTGGCT 57.082 30.769 5.84 0.00 30.42 4.75
330 331 5.796424 ATTTGGTTATTCCCATCTCATGC 57.204 39.130 0.00 0.00 33.60 4.06
371 372 2.612212 CGTGGGACATGTAAGGTATTGC 59.388 50.000 0.00 0.00 44.52 3.56
418 426 7.123098 TCCTTATGTCGTCATTGGTAAGAGTTA 59.877 37.037 0.00 0.00 35.70 2.24
424 432 5.032863 CGTCATTGGTAAGAGTTACTACCG 58.967 45.833 0.00 0.00 36.39 4.02
439 447 4.866508 ACTACCGAAATCTGAGTCAACA 57.133 40.909 0.00 0.00 0.00 3.33
530 1154 5.568620 AATGACAAGTAGGAAAGGTGAGT 57.431 39.130 0.00 0.00 0.00 3.41
538 1162 6.694877 AGTAGGAAAGGTGAGTTTTTGTTC 57.305 37.500 0.00 0.00 0.00 3.18
613 1237 5.738619 ATGTTCCAGGTAATTGGGAAAAC 57.261 39.130 0.00 0.00 41.99 2.43
616 1240 5.663556 TGTTCCAGGTAATTGGGAAAACTTT 59.336 36.000 0.00 0.00 41.99 2.66
619 1243 8.372459 GTTCCAGGTAATTGGGAAAACTTTATT 58.628 33.333 0.00 0.00 41.99 1.40
669 1293 3.994392 TCAGCTCGAAAGGTTCATACAAC 59.006 43.478 0.00 0.00 0.00 3.32
675 1327 3.000078 CGAAAGGTTCATACAACCGATCG 60.000 47.826 8.51 8.51 44.82 3.69
679 1331 1.004927 GTTCATACAACCGATCGCAGC 60.005 52.381 10.32 0.00 0.00 5.25
685 1337 0.807667 CAACCGATCGCAGCTAGCTT 60.808 55.000 16.46 0.00 42.61 3.74
701 1353 2.077413 GCTTCATAGCATCTCGAGGG 57.923 55.000 13.56 6.62 46.95 4.30
703 1355 1.617850 CTTCATAGCATCTCGAGGGCT 59.382 52.381 27.41 27.41 41.51 5.19
733 1385 1.457346 CAAGTCATGGTTCTGCCCTC 58.543 55.000 0.00 0.00 36.04 4.30
738 1390 1.559682 TCATGGTTCTGCCCTCTAACC 59.440 52.381 0.00 0.00 42.49 2.85
740 1392 0.543410 TGGTTCTGCCCTCTAACCGA 60.543 55.000 0.00 0.00 44.62 4.69
756 1408 7.286215 TCTAACCGAGCAAACTTAGCTATAT 57.714 36.000 0.00 0.00 43.58 0.86
758 1410 8.853126 TCTAACCGAGCAAACTTAGCTATATTA 58.147 33.333 0.00 0.00 43.58 0.98
792 1444 9.619316 CTTAATTTTGGTTACGATTCACATGAA 57.381 29.630 0.00 0.00 38.56 2.57
799 1451 7.626446 TGGTTACGATTCACATGAATAATTCG 58.374 34.615 7.09 9.80 44.14 3.34
832 1484 9.968870 ACGAAGAGACATAAGATAGGAAAATAC 57.031 33.333 0.00 0.00 0.00 1.89
869 1739 7.576287 GCATTCCAGAGTCAAATCTCATTTTCA 60.576 37.037 0.00 0.00 36.97 2.69
873 1743 7.772292 TCCAGAGTCAAATCTCATTTTCATAGG 59.228 37.037 0.00 0.00 36.97 2.57
926 1796 4.147701 CCATTCACGGCCCAGATC 57.852 61.111 0.00 0.00 0.00 2.75
927 1797 1.889105 CCATTCACGGCCCAGATCG 60.889 63.158 0.00 0.00 0.00 3.69
928 1798 1.889105 CATTCACGGCCCAGATCGG 60.889 63.158 0.00 0.00 0.00 4.18
935 1805 3.877450 GCCCAGATCGGCCCATCA 61.877 66.667 13.24 0.00 43.66 3.07
936 1806 2.918248 CCCAGATCGGCCCATCAA 59.082 61.111 13.24 0.00 0.00 2.57
937 1807 1.457604 CCCAGATCGGCCCATCAAT 59.542 57.895 13.24 0.00 0.00 2.57
938 1808 0.607489 CCCAGATCGGCCCATCAATC 60.607 60.000 13.24 1.29 0.00 2.67
939 1809 0.399454 CCAGATCGGCCCATCAATCT 59.601 55.000 13.24 3.57 0.00 2.40
940 1810 1.610102 CCAGATCGGCCCATCAATCTC 60.610 57.143 13.24 0.00 0.00 2.75
941 1811 1.071228 CAGATCGGCCCATCAATCTCA 59.929 52.381 13.24 0.00 0.00 3.27
942 1812 1.347050 AGATCGGCCCATCAATCTCAG 59.653 52.381 13.24 0.00 0.00 3.35
943 1813 1.071385 GATCGGCCCATCAATCTCAGT 59.929 52.381 5.34 0.00 0.00 3.41
944 1814 0.911769 TCGGCCCATCAATCTCAGTT 59.088 50.000 0.00 0.00 0.00 3.16
945 1815 1.019673 CGGCCCATCAATCTCAGTTG 58.980 55.000 0.00 0.00 0.00 3.16
946 1816 0.743097 GGCCCATCAATCTCAGTTGC 59.257 55.000 0.00 0.00 0.00 4.17
947 1817 0.743097 GCCCATCAATCTCAGTTGCC 59.257 55.000 0.00 0.00 0.00 4.52
948 1818 1.956636 GCCCATCAATCTCAGTTGCCA 60.957 52.381 0.00 0.00 0.00 4.92
949 1819 1.747355 CCCATCAATCTCAGTTGCCAC 59.253 52.381 0.00 0.00 0.00 5.01
1071 2231 1.720694 CGACCTTCTCCTCCTCGAGC 61.721 65.000 6.99 0.00 0.00 5.03
1130 2293 1.731709 CACCTCAAATGCGATCGTCAA 59.268 47.619 17.81 3.25 0.00 3.18
1416 2595 4.176752 CCCCTTACCGAGCAGGCC 62.177 72.222 0.00 0.00 46.52 5.19
1641 2844 2.789409 ACTACAATGTCCTCTTGGCC 57.211 50.000 0.00 0.00 0.00 5.36
1743 2948 2.234908 CAACTCCTGGAACTACCTCCTG 59.765 54.545 0.00 0.00 39.86 3.86
2100 3336 2.833582 GGGAGGATCGTCGAGGCA 60.834 66.667 9.20 0.00 34.37 4.75
2257 3498 5.630121 TCATTGTACAGTCAGGTTTGGAAT 58.370 37.500 0.00 0.00 0.00 3.01
2287 3533 8.807667 ATTTATTTTTGAGCTCTTGTTGAGTG 57.192 30.769 16.19 0.00 44.41 3.51
2343 3606 6.840780 AGATATTTAGGTGCCATTTATGCC 57.159 37.500 0.00 0.00 0.00 4.40
2346 3609 3.396685 TTAGGTGCCATTTATGCCCTT 57.603 42.857 0.00 0.00 33.37 3.95
2353 3616 2.687914 GCCATTTATGCCCTTCACTCCT 60.688 50.000 0.00 0.00 0.00 3.69
2354 3617 2.954318 CCATTTATGCCCTTCACTCCTG 59.046 50.000 0.00 0.00 0.00 3.86
2355 3618 3.371917 CCATTTATGCCCTTCACTCCTGA 60.372 47.826 0.00 0.00 0.00 3.86
2356 3619 3.350219 TTTATGCCCTTCACTCCTGAC 57.650 47.619 0.00 0.00 0.00 3.51
2357 3620 2.254152 TATGCCCTTCACTCCTGACT 57.746 50.000 0.00 0.00 0.00 3.41
2358 3621 0.908198 ATGCCCTTCACTCCTGACTC 59.092 55.000 0.00 0.00 0.00 3.36
2359 3622 1.194781 TGCCCTTCACTCCTGACTCC 61.195 60.000 0.00 0.00 0.00 3.85
2360 3623 1.893786 CCCTTCACTCCTGACTCCG 59.106 63.158 0.00 0.00 0.00 4.63
2361 3624 1.216710 CCTTCACTCCTGACTCCGC 59.783 63.158 0.00 0.00 0.00 5.54
2362 3625 1.216710 CTTCACTCCTGACTCCGCC 59.783 63.158 0.00 0.00 0.00 6.13
2363 3626 1.533033 TTCACTCCTGACTCCGCCA 60.533 57.895 0.00 0.00 0.00 5.69
2364 3627 0.904865 TTCACTCCTGACTCCGCCAT 60.905 55.000 0.00 0.00 0.00 4.40
2365 3628 1.153489 CACTCCTGACTCCGCCATG 60.153 63.158 0.00 0.00 0.00 3.66
2366 3629 1.610673 ACTCCTGACTCCGCCATGT 60.611 57.895 0.00 0.00 0.00 3.21
2367 3630 0.324368 ACTCCTGACTCCGCCATGTA 60.324 55.000 0.00 0.00 0.00 2.29
2441 3705 9.726438 CCTACTTTGTATAGATATGAAAAGGGG 57.274 37.037 10.98 9.26 0.00 4.79
2444 3708 9.990868 ACTTTGTATAGATATGAAAAGGGGTTT 57.009 29.630 10.98 0.00 0.00 3.27
2446 3710 9.762381 TTTGTATAGATATGAAAAGGGGTTTGT 57.238 29.630 0.00 0.00 0.00 2.83
2447 3711 8.974060 TGTATAGATATGAAAAGGGGTTTGTC 57.026 34.615 0.00 0.00 0.00 3.18
2448 3712 8.778059 TGTATAGATATGAAAAGGGGTTTGTCT 58.222 33.333 0.00 0.00 0.00 3.41
2451 3715 6.663734 AGATATGAAAAGGGGTTTGTCTAGG 58.336 40.000 0.00 0.00 0.00 3.02
2452 3716 3.518992 TGAAAAGGGGTTTGTCTAGGG 57.481 47.619 0.00 0.00 0.00 3.53
2453 3717 2.168496 GAAAAGGGGTTTGTCTAGGGC 58.832 52.381 0.00 0.00 0.00 5.19
2454 3718 1.154430 AAAGGGGTTTGTCTAGGGCA 58.846 50.000 0.00 0.00 0.00 5.36
2455 3719 0.404426 AAGGGGTTTGTCTAGGGCAC 59.596 55.000 0.00 0.00 0.00 5.01
2456 3720 0.770557 AGGGGTTTGTCTAGGGCACA 60.771 55.000 0.00 0.00 0.00 4.57
2457 3721 0.331616 GGGGTTTGTCTAGGGCACAT 59.668 55.000 0.00 0.00 0.00 3.21
2458 3722 1.682087 GGGGTTTGTCTAGGGCACATC 60.682 57.143 0.00 0.00 0.00 3.06
2459 3723 1.282157 GGGTTTGTCTAGGGCACATCT 59.718 52.381 0.00 0.00 0.00 2.90
2460 3724 2.504175 GGGTTTGTCTAGGGCACATCTA 59.496 50.000 0.00 0.00 0.00 1.98
2461 3725 3.432326 GGGTTTGTCTAGGGCACATCTAG 60.432 52.174 0.00 0.00 36.46 2.43
2462 3726 3.451178 GGTTTGTCTAGGGCACATCTAGA 59.549 47.826 0.00 0.00 40.38 2.43
2463 3727 4.101741 GGTTTGTCTAGGGCACATCTAGAT 59.898 45.833 0.00 0.00 43.25 1.98
2464 3728 4.944619 TTGTCTAGGGCACATCTAGATG 57.055 45.455 27.63 27.63 43.25 2.90
2480 3744 8.992835 CATCTAGATGTGCTATAGTTATTGCA 57.007 34.615 22.42 4.52 40.96 4.08
2490 3754 8.593492 TGCTATAGTTATTGCACATCTAAGTG 57.407 34.615 0.84 0.00 38.99 3.16
2491 3755 8.421002 TGCTATAGTTATTGCACATCTAAGTGA 58.579 33.333 0.84 0.00 42.05 3.41
2492 3756 8.704234 GCTATAGTTATTGCACATCTAAGTGAC 58.296 37.037 0.84 0.00 42.05 3.67
2493 3757 9.750125 CTATAGTTATTGCACATCTAAGTGACA 57.250 33.333 0.00 0.00 42.05 3.58
2494 3758 6.974932 AGTTATTGCACATCTAAGTGACAG 57.025 37.500 0.00 0.00 42.05 3.51
2495 3759 6.701340 AGTTATTGCACATCTAAGTGACAGA 58.299 36.000 0.00 0.00 42.05 3.41
2496 3760 7.161404 AGTTATTGCACATCTAAGTGACAGAA 58.839 34.615 0.00 0.00 42.05 3.02
2497 3761 7.826252 AGTTATTGCACATCTAAGTGACAGAAT 59.174 33.333 0.00 0.00 42.05 2.40
2498 3762 6.674694 ATTGCACATCTAAGTGACAGAATC 57.325 37.500 0.00 0.00 42.05 2.52
2499 3763 5.151297 TGCACATCTAAGTGACAGAATCA 57.849 39.130 0.00 0.00 42.05 2.57
2500 3764 5.550290 TGCACATCTAAGTGACAGAATCAA 58.450 37.500 0.00 0.00 42.05 2.57
2501 3765 5.640783 TGCACATCTAAGTGACAGAATCAAG 59.359 40.000 0.00 0.00 42.05 3.02
2502 3766 5.641209 GCACATCTAAGTGACAGAATCAAGT 59.359 40.000 0.00 0.00 42.05 3.16
2503 3767 6.813649 GCACATCTAAGTGACAGAATCAAGTA 59.186 38.462 0.00 0.00 42.05 2.24
2504 3768 7.493971 GCACATCTAAGTGACAGAATCAAGTAT 59.506 37.037 0.00 0.00 42.05 2.12
2505 3769 8.815189 CACATCTAAGTGACAGAATCAAGTATG 58.185 37.037 0.00 0.00 42.05 2.39
2506 3770 7.984050 ACATCTAAGTGACAGAATCAAGTATGG 59.016 37.037 0.00 0.00 39.72 2.74
2507 3771 7.718334 TCTAAGTGACAGAATCAAGTATGGA 57.282 36.000 0.00 0.00 39.72 3.41
2508 3772 8.134202 TCTAAGTGACAGAATCAAGTATGGAA 57.866 34.615 0.00 0.00 39.72 3.53
2509 3773 8.593679 TCTAAGTGACAGAATCAAGTATGGAAA 58.406 33.333 0.00 0.00 39.72 3.13
2510 3774 7.678947 AAGTGACAGAATCAAGTATGGAAAG 57.321 36.000 0.00 0.00 39.72 2.62
2511 3775 6.176183 AGTGACAGAATCAAGTATGGAAAGG 58.824 40.000 0.00 0.00 39.72 3.11
2512 3776 6.013379 AGTGACAGAATCAAGTATGGAAAGGA 60.013 38.462 0.00 0.00 39.72 3.36
2513 3777 6.655003 GTGACAGAATCAAGTATGGAAAGGAA 59.345 38.462 0.00 0.00 39.72 3.36
2514 3778 7.174946 GTGACAGAATCAAGTATGGAAAGGAAA 59.825 37.037 0.00 0.00 39.72 3.13
2515 3779 7.723616 TGACAGAATCAAGTATGGAAAGGAAAA 59.276 33.333 0.00 0.00 33.02 2.29
2516 3780 8.115490 ACAGAATCAAGTATGGAAAGGAAAAG 57.885 34.615 0.00 0.00 0.00 2.27
2517 3781 7.944554 ACAGAATCAAGTATGGAAAGGAAAAGA 59.055 33.333 0.00 0.00 0.00 2.52
2518 3782 8.796475 CAGAATCAAGTATGGAAAGGAAAAGAA 58.204 33.333 0.00 0.00 0.00 2.52
2519 3783 9.367160 AGAATCAAGTATGGAAAGGAAAAGAAA 57.633 29.630 0.00 0.00 0.00 2.52
2520 3784 9.981114 GAATCAAGTATGGAAAGGAAAAGAAAA 57.019 29.630 0.00 0.00 0.00 2.29
2542 3806 7.767250 AAAAACCCAAAAGAAAATTTCCACA 57.233 28.000 1.57 0.00 0.00 4.17
2543 3807 6.751514 AAACCCAAAAGAAAATTTCCACAC 57.248 33.333 1.57 0.00 0.00 3.82
2544 3808 4.438148 ACCCAAAAGAAAATTTCCACACG 58.562 39.130 1.57 0.00 0.00 4.49
2545 3809 4.160626 ACCCAAAAGAAAATTTCCACACGA 59.839 37.500 1.57 0.00 0.00 4.35
2546 3810 5.112686 CCCAAAAGAAAATTTCCACACGAA 58.887 37.500 1.57 0.00 0.00 3.85
2547 3811 5.757808 CCCAAAAGAAAATTTCCACACGAAT 59.242 36.000 1.57 0.00 0.00 3.34
2548 3812 6.073819 CCCAAAAGAAAATTTCCACACGAATC 60.074 38.462 1.57 0.00 0.00 2.52
2549 3813 6.701400 CCAAAAGAAAATTTCCACACGAATCT 59.299 34.615 1.57 0.00 0.00 2.40
2550 3814 7.096065 CCAAAAGAAAATTTCCACACGAATCTC 60.096 37.037 1.57 0.00 0.00 2.75
2551 3815 5.629079 AGAAAATTTCCACACGAATCTCC 57.371 39.130 1.57 0.00 0.00 3.71
2552 3816 5.070001 AGAAAATTTCCACACGAATCTCCA 58.930 37.500 1.57 0.00 0.00 3.86
2553 3817 4.766404 AAATTTCCACACGAATCTCCAC 57.234 40.909 0.00 0.00 0.00 4.02
2554 3818 2.920724 TTTCCACACGAATCTCCACA 57.079 45.000 0.00 0.00 0.00 4.17
2555 3819 3.417069 TTTCCACACGAATCTCCACAT 57.583 42.857 0.00 0.00 0.00 3.21
2556 3820 4.545208 TTTCCACACGAATCTCCACATA 57.455 40.909 0.00 0.00 0.00 2.29
2557 3821 4.545208 TTCCACACGAATCTCCACATAA 57.455 40.909 0.00 0.00 0.00 1.90
2558 3822 4.123497 TCCACACGAATCTCCACATAAG 57.877 45.455 0.00 0.00 0.00 1.73
2559 3823 3.767131 TCCACACGAATCTCCACATAAGA 59.233 43.478 0.00 0.00 0.00 2.10
2560 3824 4.405680 TCCACACGAATCTCCACATAAGAT 59.594 41.667 0.00 0.00 34.96 2.40
2561 3825 4.747108 CCACACGAATCTCCACATAAGATC 59.253 45.833 0.00 0.00 32.29 2.75
2562 3826 5.351458 CACACGAATCTCCACATAAGATCA 58.649 41.667 0.00 0.00 32.29 2.92
2563 3827 5.812127 CACACGAATCTCCACATAAGATCAA 59.188 40.000 0.00 0.00 32.29 2.57
2564 3828 6.481313 CACACGAATCTCCACATAAGATCAAT 59.519 38.462 0.00 0.00 32.29 2.57
2565 3829 6.481313 ACACGAATCTCCACATAAGATCAATG 59.519 38.462 0.00 0.75 32.29 2.82
2566 3830 6.703165 CACGAATCTCCACATAAGATCAATGA 59.297 38.462 13.33 0.00 32.29 2.57
2567 3831 6.703607 ACGAATCTCCACATAAGATCAATGAC 59.296 38.462 13.33 0.00 32.29 3.06
2568 3832 6.703165 CGAATCTCCACATAAGATCAATGACA 59.297 38.462 13.33 0.00 32.29 3.58
2569 3833 7.387122 CGAATCTCCACATAAGATCAATGACAT 59.613 37.037 13.33 0.00 32.29 3.06
2570 3834 9.716531 GAATCTCCACATAAGATCAATGACATA 57.283 33.333 13.33 0.00 32.29 2.29
2571 3835 9.722184 AATCTCCACATAAGATCAATGACATAG 57.278 33.333 13.33 6.61 32.29 2.23
2572 3836 7.674120 TCTCCACATAAGATCAATGACATAGG 58.326 38.462 13.33 7.85 0.00 2.57
2573 3837 7.510343 TCTCCACATAAGATCAATGACATAGGA 59.490 37.037 13.33 10.56 0.00 2.94
2574 3838 7.445121 TCCACATAAGATCAATGACATAGGAC 58.555 38.462 13.33 0.00 0.00 3.85
2575 3839 7.290948 TCCACATAAGATCAATGACATAGGACT 59.709 37.037 13.33 0.00 0.00 3.85
2576 3840 7.935755 CCACATAAGATCAATGACATAGGACTT 59.064 37.037 13.33 0.00 0.00 3.01
2577 3841 9.987272 CACATAAGATCAATGACATAGGACTTA 57.013 33.333 13.33 0.00 0.00 2.24
2582 3846 8.489676 AGATCAATGACATAGGACTTAGATGT 57.510 34.615 0.00 0.00 36.52 3.06
2583 3847 8.366401 AGATCAATGACATAGGACTTAGATGTG 58.634 37.037 0.00 0.00 33.99 3.21
2584 3848 6.283694 TCAATGACATAGGACTTAGATGTGC 58.716 40.000 0.00 0.00 33.99 4.57
2585 3849 5.876651 ATGACATAGGACTTAGATGTGCA 57.123 39.130 0.00 0.00 33.99 4.57
2586 3850 5.675684 TGACATAGGACTTAGATGTGCAA 57.324 39.130 0.00 0.00 33.99 4.08
2587 3851 6.239217 TGACATAGGACTTAGATGTGCAAT 57.761 37.500 0.00 0.00 33.99 3.56
2588 3852 7.360113 TGACATAGGACTTAGATGTGCAATA 57.640 36.000 0.00 0.00 33.99 1.90
2589 3853 7.210174 TGACATAGGACTTAGATGTGCAATAC 58.790 38.462 0.00 0.00 33.99 1.89
2590 3854 7.069950 TGACATAGGACTTAGATGTGCAATACT 59.930 37.037 0.00 0.00 33.99 2.12
2591 3855 7.796054 ACATAGGACTTAGATGTGCAATACTT 58.204 34.615 0.00 0.00 32.62 2.24
2592 3856 8.924303 ACATAGGACTTAGATGTGCAATACTTA 58.076 33.333 0.00 0.00 32.62 2.24
2593 3857 9.935241 CATAGGACTTAGATGTGCAATACTTAT 57.065 33.333 0.00 0.00 0.00 1.73
2594 3858 9.935241 ATAGGACTTAGATGTGCAATACTTATG 57.065 33.333 0.00 0.00 0.00 1.90
2595 3859 7.220030 AGGACTTAGATGTGCAATACTTATGG 58.780 38.462 0.00 0.00 0.00 2.74
2596 3860 6.073003 GGACTTAGATGTGCAATACTTATGGC 60.073 42.308 0.00 0.00 33.16 4.40
2597 3861 6.356556 ACTTAGATGTGCAATACTTATGGCA 58.643 36.000 0.00 0.00 40.19 4.92
2723 3995 5.532406 TGACTCAAACTGGATTCAGAAAAGG 59.468 40.000 8.39 0.00 43.49 3.11
3232 4518 5.765182 ACAACTCCATAAGGAACAAACAGAG 59.235 40.000 0.00 0.00 45.19 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 4.528596 TCGGGATCTTTTCTCTCTCTGTTT 59.471 41.667 0.00 0.00 0.00 2.83
82 83 3.055747 GTGGTTCTTCTTCTCGGGATCTT 60.056 47.826 0.00 0.00 0.00 2.40
88 89 0.389948 CCGGTGGTTCTTCTTCTCGG 60.390 60.000 0.00 0.00 0.00 4.63
142 143 3.431673 TGGTGGTGTTGCTATGAATGA 57.568 42.857 0.00 0.00 0.00 2.57
173 174 9.797556 ACAAACCTTAACTTACAACTTCAAATC 57.202 29.630 0.00 0.00 0.00 2.17
177 178 7.608761 AGTCACAAACCTTAACTTACAACTTCA 59.391 33.333 0.00 0.00 0.00 3.02
178 179 7.982224 AGTCACAAACCTTAACTTACAACTTC 58.018 34.615 0.00 0.00 0.00 3.01
229 230 8.421002 ACAATAAGGTGAATGCTTAAACAAGTT 58.579 29.630 0.00 0.00 0.00 2.66
240 241 5.841957 AAGATCCACAATAAGGTGAATGC 57.158 39.130 0.00 0.00 41.32 3.56
247 248 4.336433 ACATCGCAAAGATCCACAATAAGG 59.664 41.667 0.00 0.00 37.52 2.69
280 281 9.479549 TCATAGAGATAAAAGCCAAGGAAAATT 57.520 29.630 0.00 0.00 0.00 1.82
303 304 9.251440 CATGAGATGGGAATAACCAAATATCAT 57.749 33.333 0.00 0.00 45.13 2.45
330 331 4.561606 CACGTCTAAGGGAAATTACTCACG 59.438 45.833 0.00 0.00 0.00 4.35
342 343 0.902531 ACATGTCCCACGTCTAAGGG 59.097 55.000 2.20 2.20 46.90 3.95
394 395 7.974501 AGTAACTCTTACCAATGACGACATAAG 59.025 37.037 0.00 1.61 36.81 1.73
418 426 4.322049 CCTGTTGACTCAGATTTCGGTAGT 60.322 45.833 0.00 0.00 37.61 2.73
424 432 3.999663 CAGGTCCTGTTGACTCAGATTTC 59.000 47.826 11.09 0.00 43.89 2.17
444 452 0.898320 ACCGTTGGACCAGAGATCAG 59.102 55.000 0.00 0.00 0.00 2.90
495 1119 8.783093 TCCTACTTGTCATTTGAAACACTTATG 58.217 33.333 0.00 0.00 0.00 1.90
530 1154 2.415625 CCACCGTTGGTTCGAACAAAAA 60.416 45.455 28.24 16.55 38.23 1.94
538 1162 2.373540 TTCTATCCACCGTTGGTTCG 57.626 50.000 0.00 0.00 44.35 3.95
569 1193 8.954950 ACATTGAATATAGAACTTGAGACAGG 57.045 34.615 0.00 0.00 0.00 4.00
572 1196 9.383519 TGGAACATTGAATATAGAACTTGAGAC 57.616 33.333 0.00 0.00 0.00 3.36
574 1198 8.834465 CCTGGAACATTGAATATAGAACTTGAG 58.166 37.037 0.00 0.00 38.20 3.02
640 1264 6.222038 TGAACCTTTCGAGCTGAGTAATAT 57.778 37.500 0.00 0.00 0.00 1.28
653 1277 3.000078 CGATCGGTTGTATGAACCTTTCG 60.000 47.826 7.38 0.00 38.15 3.46
685 1337 1.342496 CAAGCCCTCGAGATGCTATGA 59.658 52.381 23.83 0.00 34.29 2.15
701 1353 2.185004 TGACTTGGTTAGGCTCAAGC 57.815 50.000 12.79 6.64 42.82 4.01
703 1355 3.071874 CCATGACTTGGTTAGGCTCAA 57.928 47.619 0.00 0.00 40.99 3.02
733 1385 7.948278 AATATAGCTAAGTTTGCTCGGTTAG 57.052 36.000 15.20 0.00 41.46 2.34
765 1417 8.788806 TCATGTGAATCGTAACCAAAATTAAGT 58.211 29.630 0.00 0.00 0.00 2.24
766 1418 9.619316 TTCATGTGAATCGTAACCAAAATTAAG 57.381 29.630 0.00 0.00 0.00 1.85
797 1449 7.492352 TCTTATGTCTCTTCGTGAATATCGA 57.508 36.000 0.00 0.00 35.50 3.59
799 1451 9.781834 CCTATCTTATGTCTCTTCGTGAATATC 57.218 37.037 0.00 0.00 0.00 1.63
807 1459 9.119329 CGTATTTTCCTATCTTATGTCTCTTCG 57.881 37.037 0.00 0.00 0.00 3.79
839 1491 5.713389 TGAGATTTGACTCTGGAATGCATTT 59.287 36.000 14.33 0.00 37.73 2.32
841 1493 4.851843 TGAGATTTGACTCTGGAATGCAT 58.148 39.130 0.00 0.00 37.73 3.96
843 1495 5.831702 AATGAGATTTGACTCTGGAATGC 57.168 39.130 0.00 0.00 37.73 3.56
846 1498 9.170734 CTATGAAAATGAGATTTGACTCTGGAA 57.829 33.333 0.00 0.00 37.73 3.53
847 1499 7.772292 CCTATGAAAATGAGATTTGACTCTGGA 59.228 37.037 0.00 0.00 37.73 3.86
848 1500 7.555554 ACCTATGAAAATGAGATTTGACTCTGG 59.444 37.037 0.00 0.00 37.73 3.86
849 1501 8.503458 ACCTATGAAAATGAGATTTGACTCTG 57.497 34.615 0.00 0.00 37.73 3.35
869 1739 9.275572 TCCTGTGGTACTTAGAAAATTACCTAT 57.724 33.333 6.32 0.00 40.10 2.57
873 1743 7.148523 CGGTTCCTGTGGTACTTAGAAAATTAC 60.149 40.741 0.00 0.00 0.00 1.89
887 1757 2.424302 CCGAACGGTTCCTGTGGT 59.576 61.111 14.83 0.00 0.00 4.16
891 1761 2.742372 CTGGCCGAACGGTTCCTG 60.742 66.667 14.83 7.82 37.65 3.86
911 1781 2.505982 CCGATCTGGGCCGTGAAT 59.494 61.111 0.00 0.00 0.00 2.57
926 1796 1.019673 CAACTGAGATTGATGGGCCG 58.980 55.000 0.00 0.00 0.00 6.13
927 1797 0.743097 GCAACTGAGATTGATGGGCC 59.257 55.000 0.00 0.00 0.00 5.80
928 1798 0.743097 GGCAACTGAGATTGATGGGC 59.257 55.000 0.00 0.00 0.00 5.36
929 1799 1.747355 GTGGCAACTGAGATTGATGGG 59.253 52.381 0.00 0.00 37.61 4.00
930 1800 2.719739 AGTGGCAACTGAGATTGATGG 58.280 47.619 0.00 0.00 34.48 3.51
945 1815 1.008538 CTGTTTGAACGCCAGTGGC 60.009 57.895 25.07 25.07 46.75 5.01
946 1816 0.307760 GACTGTTTGAACGCCAGTGG 59.692 55.000 4.20 4.20 39.43 4.00
947 1817 0.307760 GGACTGTTTGAACGCCAGTG 59.692 55.000 0.00 0.00 39.43 3.66
948 1818 0.107410 TGGACTGTTTGAACGCCAGT 60.107 50.000 0.00 0.00 41.90 4.00
949 1819 0.588252 CTGGACTGTTTGAACGCCAG 59.412 55.000 12.58 12.58 37.21 4.85
1416 2595 2.815647 GCCTCCAGGAACGCGAAG 60.816 66.667 15.93 0.00 37.39 3.79
1677 2880 2.609491 CCTCATTTCGTCGAACACCTCA 60.609 50.000 7.29 0.00 0.00 3.86
1743 2948 1.000396 ATTCTTCAGCAGGCACCCC 60.000 57.895 0.00 0.00 0.00 4.95
2257 3498 9.897744 CAACAAGAGCTCAAAAATAAATCAGTA 57.102 29.630 17.77 0.00 0.00 2.74
2287 3533 6.203723 ACAAGCAAGTTTCACTCAAGTAGATC 59.796 38.462 0.00 0.00 0.00 2.75
2343 3606 1.216710 GCGGAGTCAGGAGTGAAGG 59.783 63.158 0.00 0.00 33.27 3.46
2346 3609 2.117423 TGGCGGAGTCAGGAGTGA 59.883 61.111 0.00 0.00 36.97 3.41
2354 3617 2.604046 ACTCATTACATGGCGGAGTC 57.396 50.000 0.00 0.00 33.84 3.36
2355 3618 3.296854 TCTACTCATTACATGGCGGAGT 58.703 45.455 13.57 13.57 41.37 3.85
2356 3619 4.527509 ATCTACTCATTACATGGCGGAG 57.472 45.455 0.00 1.05 0.00 4.63
2357 3620 5.538813 AGTTATCTACTCATTACATGGCGGA 59.461 40.000 0.00 0.00 28.23 5.54
2358 3621 5.784177 AGTTATCTACTCATTACATGGCGG 58.216 41.667 0.00 0.00 28.23 6.13
2359 3622 7.567571 CAAAGTTATCTACTCATTACATGGCG 58.432 38.462 0.00 0.00 35.54 5.69
2360 3623 7.227512 AGCAAAGTTATCTACTCATTACATGGC 59.772 37.037 0.00 0.00 35.54 4.40
2361 3624 8.554528 CAGCAAAGTTATCTACTCATTACATGG 58.445 37.037 0.00 0.00 35.54 3.66
2362 3625 9.102757 ACAGCAAAGTTATCTACTCATTACATG 57.897 33.333 0.00 0.00 35.54 3.21
2432 3696 2.490168 GCCCTAGACAAACCCCTTTTCA 60.490 50.000 0.00 0.00 0.00 2.69
2433 3697 2.168496 GCCCTAGACAAACCCCTTTTC 58.832 52.381 0.00 0.00 0.00 2.29
2434 3698 1.501604 TGCCCTAGACAAACCCCTTTT 59.498 47.619 0.00 0.00 0.00 2.27
2435 3699 1.154430 TGCCCTAGACAAACCCCTTT 58.846 50.000 0.00 0.00 0.00 3.11
2436 3700 0.404426 GTGCCCTAGACAAACCCCTT 59.596 55.000 0.00 0.00 0.00 3.95
2437 3701 0.770557 TGTGCCCTAGACAAACCCCT 60.771 55.000 0.00 0.00 0.00 4.79
2438 3702 0.331616 ATGTGCCCTAGACAAACCCC 59.668 55.000 0.00 0.00 0.00 4.95
2439 3703 1.282157 AGATGTGCCCTAGACAAACCC 59.718 52.381 0.00 0.00 0.00 4.11
2440 3704 2.789409 AGATGTGCCCTAGACAAACC 57.211 50.000 0.00 0.00 0.00 3.27
2441 3705 4.737855 TCTAGATGTGCCCTAGACAAAC 57.262 45.455 0.00 0.00 38.08 2.93
2442 3706 5.282055 CATCTAGATGTGCCCTAGACAAA 57.718 43.478 22.42 0.00 43.57 2.83
2443 3707 4.944619 CATCTAGATGTGCCCTAGACAA 57.055 45.455 22.42 0.00 43.57 3.18
2455 3719 8.992835 TGCAATAACTATAGCACATCTAGATG 57.007 34.615 27.63 27.63 44.15 2.90
2465 3729 8.421002 TCACTTAGATGTGCAATAACTATAGCA 58.579 33.333 0.00 0.00 37.81 3.49
2466 3730 8.704234 GTCACTTAGATGTGCAATAACTATAGC 58.296 37.037 0.00 0.00 37.81 2.97
2467 3731 9.750125 TGTCACTTAGATGTGCAATAACTATAG 57.250 33.333 0.00 0.00 37.81 1.31
2468 3732 9.750125 CTGTCACTTAGATGTGCAATAACTATA 57.250 33.333 0.00 0.00 37.81 1.31
2469 3733 8.478066 TCTGTCACTTAGATGTGCAATAACTAT 58.522 33.333 0.00 0.00 37.81 2.12
2470 3734 7.836842 TCTGTCACTTAGATGTGCAATAACTA 58.163 34.615 0.00 0.00 37.81 2.24
2471 3735 6.701340 TCTGTCACTTAGATGTGCAATAACT 58.299 36.000 0.00 0.00 37.81 2.24
2472 3736 6.968131 TCTGTCACTTAGATGTGCAATAAC 57.032 37.500 0.00 0.00 37.81 1.89
2473 3737 7.823799 TGATTCTGTCACTTAGATGTGCAATAA 59.176 33.333 0.00 0.00 37.81 1.40
2474 3738 7.330262 TGATTCTGTCACTTAGATGTGCAATA 58.670 34.615 0.00 0.00 37.81 1.90
2475 3739 6.175471 TGATTCTGTCACTTAGATGTGCAAT 58.825 36.000 0.00 0.00 37.81 3.56
2476 3740 5.550290 TGATTCTGTCACTTAGATGTGCAA 58.450 37.500 0.00 0.00 37.81 4.08
2477 3741 5.151297 TGATTCTGTCACTTAGATGTGCA 57.849 39.130 0.00 0.00 37.81 4.57
2478 3742 5.641209 ACTTGATTCTGTCACTTAGATGTGC 59.359 40.000 0.00 0.00 36.32 4.57
2479 3743 8.815189 CATACTTGATTCTGTCACTTAGATGTG 58.185 37.037 0.00 0.00 36.32 3.21
2480 3744 7.984050 CCATACTTGATTCTGTCACTTAGATGT 59.016 37.037 0.00 0.00 36.32 3.06
2481 3745 8.200120 TCCATACTTGATTCTGTCACTTAGATG 58.800 37.037 0.00 0.00 36.32 2.90
2482 3746 8.311395 TCCATACTTGATTCTGTCACTTAGAT 57.689 34.615 0.00 0.00 36.32 1.98
2483 3747 7.718334 TCCATACTTGATTCTGTCACTTAGA 57.282 36.000 0.00 0.00 36.32 2.10
2484 3748 8.777865 TTTCCATACTTGATTCTGTCACTTAG 57.222 34.615 0.00 0.00 36.32 2.18
2485 3749 7.824289 CCTTTCCATACTTGATTCTGTCACTTA 59.176 37.037 0.00 0.00 36.32 2.24
2486 3750 6.656693 CCTTTCCATACTTGATTCTGTCACTT 59.343 38.462 0.00 0.00 36.32 3.16
2487 3751 6.013379 TCCTTTCCATACTTGATTCTGTCACT 60.013 38.462 0.00 0.00 36.32 3.41
2488 3752 6.173339 TCCTTTCCATACTTGATTCTGTCAC 58.827 40.000 0.00 0.00 36.32 3.67
2489 3753 6.373005 TCCTTTCCATACTTGATTCTGTCA 57.627 37.500 0.00 0.00 34.25 3.58
2490 3754 7.687941 TTTCCTTTCCATACTTGATTCTGTC 57.312 36.000 0.00 0.00 0.00 3.51
2491 3755 7.944554 TCTTTTCCTTTCCATACTTGATTCTGT 59.055 33.333 0.00 0.00 0.00 3.41
2492 3756 8.340618 TCTTTTCCTTTCCATACTTGATTCTG 57.659 34.615 0.00 0.00 0.00 3.02
2493 3757 8.940397 TTCTTTTCCTTTCCATACTTGATTCT 57.060 30.769 0.00 0.00 0.00 2.40
2494 3758 9.981114 TTTTCTTTTCCTTTCCATACTTGATTC 57.019 29.630 0.00 0.00 0.00 2.52
2518 3782 7.574030 CGTGTGGAAATTTTCTTTTGGGTTTTT 60.574 33.333 8.93 0.00 0.00 1.94
2519 3783 6.128145 CGTGTGGAAATTTTCTTTTGGGTTTT 60.128 34.615 8.93 0.00 0.00 2.43
2520 3784 5.352846 CGTGTGGAAATTTTCTTTTGGGTTT 59.647 36.000 8.93 0.00 0.00 3.27
2521 3785 4.873259 CGTGTGGAAATTTTCTTTTGGGTT 59.127 37.500 8.93 0.00 0.00 4.11
2522 3786 4.160626 TCGTGTGGAAATTTTCTTTTGGGT 59.839 37.500 8.93 0.00 0.00 4.51
2523 3787 4.688021 TCGTGTGGAAATTTTCTTTTGGG 58.312 39.130 8.93 0.00 0.00 4.12
2524 3788 6.701400 AGATTCGTGTGGAAATTTTCTTTTGG 59.299 34.615 8.93 0.00 38.36 3.28
2525 3789 7.096065 GGAGATTCGTGTGGAAATTTTCTTTTG 60.096 37.037 8.93 0.00 38.36 2.44
2526 3790 6.923508 GGAGATTCGTGTGGAAATTTTCTTTT 59.076 34.615 8.93 0.00 38.36 2.27
2527 3791 6.040391 TGGAGATTCGTGTGGAAATTTTCTTT 59.960 34.615 8.93 0.00 38.36 2.52
2528 3792 5.534654 TGGAGATTCGTGTGGAAATTTTCTT 59.465 36.000 8.93 0.00 38.36 2.52
2529 3793 5.048713 GTGGAGATTCGTGTGGAAATTTTCT 60.049 40.000 8.93 0.00 38.36 2.52
2530 3794 5.154222 GTGGAGATTCGTGTGGAAATTTTC 58.846 41.667 0.24 0.24 38.36 2.29
2531 3795 4.582656 TGTGGAGATTCGTGTGGAAATTTT 59.417 37.500 0.00 0.00 38.36 1.82
2532 3796 4.141287 TGTGGAGATTCGTGTGGAAATTT 58.859 39.130 0.00 0.00 38.36 1.82
2533 3797 3.750371 TGTGGAGATTCGTGTGGAAATT 58.250 40.909 0.00 0.00 38.36 1.82
2534 3798 3.417069 TGTGGAGATTCGTGTGGAAAT 57.583 42.857 0.00 0.00 38.36 2.17
2535 3799 2.920724 TGTGGAGATTCGTGTGGAAA 57.079 45.000 0.00 0.00 38.36 3.13
2536 3800 4.221924 TCTTATGTGGAGATTCGTGTGGAA 59.778 41.667 0.00 0.00 39.42 3.53
2537 3801 3.767131 TCTTATGTGGAGATTCGTGTGGA 59.233 43.478 0.00 0.00 0.00 4.02
2538 3802 4.123497 TCTTATGTGGAGATTCGTGTGG 57.877 45.455 0.00 0.00 0.00 4.17
2539 3803 5.351458 TGATCTTATGTGGAGATTCGTGTG 58.649 41.667 0.00 0.00 34.13 3.82
2540 3804 5.598416 TGATCTTATGTGGAGATTCGTGT 57.402 39.130 0.00 0.00 34.13 4.49
2541 3805 6.703165 TCATTGATCTTATGTGGAGATTCGTG 59.297 38.462 0.00 0.00 34.13 4.35
2542 3806 6.703607 GTCATTGATCTTATGTGGAGATTCGT 59.296 38.462 0.00 0.00 34.13 3.85
2543 3807 6.703165 TGTCATTGATCTTATGTGGAGATTCG 59.297 38.462 0.00 0.00 34.13 3.34
2544 3808 8.618702 ATGTCATTGATCTTATGTGGAGATTC 57.381 34.615 0.00 0.00 34.13 2.52
2545 3809 9.722184 CTATGTCATTGATCTTATGTGGAGATT 57.278 33.333 0.00 0.00 34.13 2.40
2546 3810 8.319881 CCTATGTCATTGATCTTATGTGGAGAT 58.680 37.037 0.00 0.00 36.60 2.75
2547 3811 7.510343 TCCTATGTCATTGATCTTATGTGGAGA 59.490 37.037 0.00 0.00 0.00 3.71
2548 3812 7.601886 GTCCTATGTCATTGATCTTATGTGGAG 59.398 40.741 0.00 0.00 0.00 3.86
2549 3813 7.290948 AGTCCTATGTCATTGATCTTATGTGGA 59.709 37.037 0.00 0.00 0.00 4.02
2550 3814 7.448420 AGTCCTATGTCATTGATCTTATGTGG 58.552 38.462 0.00 0.00 0.00 4.17
2551 3815 8.899427 AAGTCCTATGTCATTGATCTTATGTG 57.101 34.615 0.00 0.00 0.00 3.21
2556 3820 8.932610 ACATCTAAGTCCTATGTCATTGATCTT 58.067 33.333 0.00 0.82 0.00 2.40
2557 3821 8.366401 CACATCTAAGTCCTATGTCATTGATCT 58.634 37.037 0.00 0.00 31.60 2.75
2558 3822 7.117523 GCACATCTAAGTCCTATGTCATTGATC 59.882 40.741 0.00 0.00 31.60 2.92
2559 3823 6.933521 GCACATCTAAGTCCTATGTCATTGAT 59.066 38.462 0.00 0.00 31.60 2.57
2560 3824 6.127083 TGCACATCTAAGTCCTATGTCATTGA 60.127 38.462 0.00 0.00 31.60 2.57
2561 3825 6.051074 TGCACATCTAAGTCCTATGTCATTG 58.949 40.000 0.00 0.00 31.60 2.82
2562 3826 6.239217 TGCACATCTAAGTCCTATGTCATT 57.761 37.500 0.00 0.00 31.60 2.57
2563 3827 5.876651 TGCACATCTAAGTCCTATGTCAT 57.123 39.130 0.00 0.00 31.60 3.06
2564 3828 5.675684 TTGCACATCTAAGTCCTATGTCA 57.324 39.130 0.00 0.00 31.60 3.58
2565 3829 7.437748 AGTATTGCACATCTAAGTCCTATGTC 58.562 38.462 0.00 0.00 31.60 3.06
2566 3830 7.366847 AGTATTGCACATCTAAGTCCTATGT 57.633 36.000 0.00 0.00 34.22 2.29
2567 3831 9.935241 ATAAGTATTGCACATCTAAGTCCTATG 57.065 33.333 0.00 0.00 0.00 2.23
2568 3832 9.935241 CATAAGTATTGCACATCTAAGTCCTAT 57.065 33.333 0.00 0.00 0.00 2.57
2569 3833 8.367911 CCATAAGTATTGCACATCTAAGTCCTA 58.632 37.037 0.00 0.00 0.00 2.94
2570 3834 7.220030 CCATAAGTATTGCACATCTAAGTCCT 58.780 38.462 0.00 0.00 0.00 3.85
2571 3835 6.073003 GCCATAAGTATTGCACATCTAAGTCC 60.073 42.308 0.00 0.00 0.00 3.85
2572 3836 6.483307 TGCCATAAGTATTGCACATCTAAGTC 59.517 38.462 0.00 0.00 30.49 3.01
2573 3837 6.356556 TGCCATAAGTATTGCACATCTAAGT 58.643 36.000 0.00 0.00 30.49 2.24
2574 3838 6.866010 TGCCATAAGTATTGCACATCTAAG 57.134 37.500 0.00 0.00 30.49 2.18
2582 3846 8.102676 ACATATAGATGTGCCATAAGTATTGCA 58.897 33.333 1.31 0.00 44.90 4.08
2583 3847 8.498054 ACATATAGATGTGCCATAAGTATTGC 57.502 34.615 1.31 0.00 44.90 3.56
2609 3873 8.977505 TGTTTTTCATATCAGTTTTGCTAAAGC 58.022 29.630 0.00 0.00 42.50 3.51
2643 3907 3.925913 GCTTTGCACAGTTTTGTTTCTGA 59.074 39.130 1.15 0.00 34.62 3.27
3232 4518 4.907879 AGCTTATTTGCAAGATACTGGC 57.092 40.909 0.00 5.98 34.99 4.85


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

AutoCloner maintained by Alex Coulton.