Multiple sequence alignment - TraesCS7D01G158200

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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 TraesCS7D01G158200 chr7D 100.000 2677 0 0 1 2677 105843068 105840392 0.000000e+00 4944
1 TraesCS7D01G158200 chr7D 92.814 2004 88 18 243 2227 106301868 106299902 0.000000e+00 2852
2 TraesCS7D01G158200 chr7D 94.085 541 20 8 244 783 105841371 105840842 0.000000e+00 811
3 TraesCS7D01G158200 chr7D 94.085 541 20 8 1698 2227 105842825 105842286 0.000000e+00 811
4 TraesCS7D01G158200 chr7D 93.066 548 21 8 244 784 106300438 106299901 0.000000e+00 785
5 TraesCS7D01G158200 chr7D 91.803 549 26 5 1698 2227 106301867 106301319 0.000000e+00 747
6 TraesCS7D01G158200 chr7D 94.043 470 25 2 316 783 35324224 35323756 0.000000e+00 710
7 TraesCS7D01G158200 chr7D 92.952 454 27 3 1778 2227 35324208 35323756 0.000000e+00 656
8 TraesCS7D01G158200 chr7D 88.257 545 24 15 1694 2227 35325651 35325136 1.360000e-172 616
9 TraesCS7D01G158200 chr7D 90.051 392 37 2 2228 2619 105639862 105639473 8.550000e-140 507
10 TraesCS7D01G158200 chr7D 91.358 243 21 0 1 243 105640100 105639858 1.540000e-87 333
11 TraesCS7D01G158200 chr7D 84.940 166 15 7 244 399 563460489 563460654 2.760000e-35 159
12 TraesCS7D01G158200 chr2D 93.110 2003 79 21 243 2227 536932521 536930560 0.000000e+00 2880
13 TraesCS7D01G158200 chr2D 95.009 541 22 3 244 783 536931096 536930560 0.000000e+00 845
14 TraesCS7D01G158200 chr2D 93.394 545 21 2 1698 2227 536932520 536931976 0.000000e+00 793
15 TraesCS7D01G158200 chr6D 85.397 1801 161 56 244 1959 160417814 160419597 0.000000e+00 1775
16 TraesCS7D01G158200 chr3A 93.434 1127 71 3 670 1793 722458850 722459976 0.000000e+00 1668
17 TraesCS7D01G158200 chr3A 93.091 1129 73 4 670 1793 722461956 722463084 0.000000e+00 1648
18 TraesCS7D01G158200 chr3A 93.015 1131 72 6 670 1793 722460401 722461531 0.000000e+00 1644
19 TraesCS7D01G158200 chr1A 90.476 1260 103 13 603 1848 407132067 407133323 0.000000e+00 1646
20 TraesCS7D01G158200 chr1A 90.560 1197 106 4 602 1793 42720736 42719542 0.000000e+00 1578
21 TraesCS7D01G158200 chr5B 92.845 1132 73 4 670 1793 16185145 16184014 0.000000e+00 1635
22 TraesCS7D01G158200 chr5B 76.799 556 57 24 1698 2195 688707511 688708052 2.060000e-61 246
23 TraesCS7D01G158200 chr7A 93.165 1112 74 2 684 1793 38719971 38721082 0.000000e+00 1631
24 TraesCS7D01G158200 chr7A 86.392 485 46 6 330 796 86082169 86081687 1.840000e-141 512
25 TraesCS7D01G158200 chr7A 85.745 470 45 6 1778 2227 86082167 86081700 6.700000e-131 477
26 TraesCS7D01G158200 chr7A 90.574 244 22 1 1 243 110650613 110650370 3.320000e-84 322
27 TraesCS7D01G158200 chr7A 90.868 219 20 0 2228 2446 110650374 110650156 7.250000e-76 294
28 TraesCS7D01G158200 chr7B 89.602 452 43 3 2228 2677 64427924 64427475 2.990000e-159 571
29 TraesCS7D01G158200 chr7B 87.111 450 45 7 2228 2673 64378886 64378446 5.150000e-137 497
30 TraesCS7D01G158200 chr7B 90.164 244 23 1 1 243 64428163 64427920 1.550000e-82 316
31 TraesCS7D01G158200 chr4A 82.042 568 46 24 243 783 603281117 603280579 1.470000e-117 433
32 TraesCS7D01G158200 chr5D 85.906 149 20 1 244 391 220780986 220780838 9.920000e-35 158
33 TraesCS7D01G158200 chr5D 84.810 158 21 3 244 399 504720067 504720223 3.570000e-34 156
34 TraesCS7D01G158200 chr5D 80.093 216 29 10 243 447 504719049 504719261 5.970000e-32 148
35 TraesCS7D01G158200 chr6A 82.955 176 26 4 244 416 26261358 26261184 3.570000e-34 156
36 TraesCS7D01G158200 chr1B 75.350 357 43 21 244 559 21850047 21849695 2.160000e-26 130


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 TraesCS7D01G158200 chr7D 105840392 105843068 2676 True 2188.666667 4944 96.056667 1 2677 3 chr7D.!!$R3 2676
1 TraesCS7D01G158200 chr7D 106299901 106301868 1967 True 1461.333333 2852 92.561000 243 2227 3 chr7D.!!$R4 1984
2 TraesCS7D01G158200 chr7D 35323756 35325651 1895 True 660.666667 710 91.750667 316 2227 3 chr7D.!!$R1 1911
3 TraesCS7D01G158200 chr7D 105639473 105640100 627 True 420.000000 507 90.704500 1 2619 2 chr7D.!!$R2 2618
4 TraesCS7D01G158200 chr2D 536930560 536932521 1961 True 1506.000000 2880 93.837667 243 2227 3 chr2D.!!$R1 1984
5 TraesCS7D01G158200 chr6D 160417814 160419597 1783 False 1775.000000 1775 85.397000 244 1959 1 chr6D.!!$F1 1715
6 TraesCS7D01G158200 chr3A 722458850 722463084 4234 False 1653.333333 1668 93.180000 670 1793 3 chr3A.!!$F1 1123
7 TraesCS7D01G158200 chr1A 407132067 407133323 1256 False 1646.000000 1646 90.476000 603 1848 1 chr1A.!!$F1 1245
8 TraesCS7D01G158200 chr1A 42719542 42720736 1194 True 1578.000000 1578 90.560000 602 1793 1 chr1A.!!$R1 1191
9 TraesCS7D01G158200 chr5B 16184014 16185145 1131 True 1635.000000 1635 92.845000 670 1793 1 chr5B.!!$R1 1123
10 TraesCS7D01G158200 chr5B 688707511 688708052 541 False 246.000000 246 76.799000 1698 2195 1 chr5B.!!$F1 497
11 TraesCS7D01G158200 chr7A 38719971 38721082 1111 False 1631.000000 1631 93.165000 684 1793 1 chr7A.!!$F1 1109
12 TraesCS7D01G158200 chr7B 64427475 64428163 688 True 443.500000 571 89.883000 1 2677 2 chr7B.!!$R2 2676
13 TraesCS7D01G158200 chr4A 603280579 603281117 538 True 433.000000 433 82.042000 243 783 1 chr4A.!!$R1 540

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
543 614 0.038801 GATCAGATGGATCGAGCGCA 60.039 55.0 11.47 0.0 42.81 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2391 5713 0.032117 TGTCCGACCCATCCATCTCT 60.032 55.0 0.0 0.0 0.0 3.1 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
96 98 1.003003 AGAGCTGCCTCTTCCAAAGAC 59.997 52.381 0.00 0.00 46.16 3.01
105 107 2.291741 CTCTTCCAAAGACACCACTTGC 59.708 50.000 0.00 0.00 33.12 4.01
106 108 2.023673 CTTCCAAAGACACCACTTGCA 58.976 47.619 0.00 0.00 0.00 4.08
111 113 2.418368 AAGACACCACTTGCAGTTCA 57.582 45.000 0.00 0.00 0.00 3.18
113 115 1.210478 AGACACCACTTGCAGTTCAGT 59.790 47.619 0.00 0.00 0.00 3.41
122 124 3.244353 ACTTGCAGTTCAGTAGCATGAGT 60.244 43.478 0.00 0.00 38.19 3.41
130 132 4.456280 TCAGTAGCATGAGTGGTGTTAG 57.544 45.455 0.00 0.00 37.28 2.34
178 180 1.160137 ATGCTGCACGTTTCTTCTCC 58.840 50.000 3.57 0.00 0.00 3.71
187 189 1.065854 CGTTTCTTCTCCATGCCTCCT 60.066 52.381 0.00 0.00 0.00 3.69
188 190 2.363683 GTTTCTTCTCCATGCCTCCTG 58.636 52.381 0.00 0.00 0.00 3.86
189 191 0.914644 TTCTTCTCCATGCCTCCTGG 59.085 55.000 0.00 0.00 34.93 4.45
225 227 1.226101 CTGCGCGCACAACATAAGG 60.226 57.895 33.09 13.74 0.00 2.69
335 355 2.264794 GGTGTCGTCGGGCTCATT 59.735 61.111 0.00 0.00 0.00 2.57
488 521 3.307242 GGAGTTAGTTAGCTTGACATGCG 59.693 47.826 7.60 0.00 35.28 4.73
506 551 1.460504 CGTGTAGTGTGGAGGAGCTA 58.539 55.000 0.00 0.00 0.00 3.32
543 614 0.038801 GATCAGATGGATCGAGCGCA 60.039 55.000 11.47 0.00 42.81 6.09
908 4136 0.523072 GCGGACAACTACACGGTCTA 59.477 55.000 0.00 0.00 0.00 2.59
1007 4235 0.036732 AAGAAGGACAAGATGGCGCA 59.963 50.000 10.83 0.00 0.00 6.09
1202 4432 1.357258 GAGGAGCTCGACGTGTACGA 61.357 60.000 11.79 0.00 43.02 3.43
1260 4490 3.797353 GGGGAGATGCTGGGCGAA 61.797 66.667 0.00 0.00 0.00 4.70
1487 4720 4.796231 GCACGGGAGCGTCGACAT 62.796 66.667 17.16 2.72 0.00 3.06
1641 4875 3.292656 CGGAGCAGGCTCTCTTGA 58.707 61.111 19.67 0.00 42.38 3.02
1715 4949 1.202830 TGTGTTGGAATAAGCCACGGT 60.203 47.619 0.00 0.00 37.75 4.83
1815 5064 4.308458 CGTGGGACAGGCGGAACA 62.308 66.667 0.00 0.00 41.80 3.18
1952 5243 1.717032 TGTAGTGTGGAGGAGCTGTT 58.283 50.000 0.00 0.00 0.00 3.16
1993 5305 2.506217 GGATCGAGCGCGTTGTGA 60.506 61.111 10.30 1.93 38.98 3.58
2031 5343 3.182472 GATCGCTCGCTCCGCTACA 62.182 63.158 0.00 0.00 0.00 2.74
2144 5462 0.041535 TGGGAAGAGTAACGGGGCTA 59.958 55.000 0.00 0.00 0.00 3.93
2183 5505 0.969894 AGTGTACTGTGTGCTCCTCC 59.030 55.000 0.00 0.00 0.00 4.30
2227 5549 0.035317 TGAGAGAGCGGCAACAACAT 59.965 50.000 1.45 0.00 0.00 2.71
2228 5550 0.445436 GAGAGAGCGGCAACAACATG 59.555 55.000 1.45 0.00 0.00 3.21
2229 5551 1.154150 GAGAGCGGCAACAACATGC 60.154 57.895 1.45 0.00 45.67 4.06
2238 5560 3.984018 GCAACAACATGCATCAATGAC 57.016 42.857 0.00 0.00 45.70 3.06
2239 5561 3.318886 GCAACAACATGCATCAATGACA 58.681 40.909 0.00 0.00 45.70 3.58
2240 5562 3.930229 GCAACAACATGCATCAATGACAT 59.070 39.130 0.00 0.00 45.70 3.06
2241 5563 4.390603 GCAACAACATGCATCAATGACATT 59.609 37.500 0.00 0.00 45.70 2.71
2242 5564 5.577554 GCAACAACATGCATCAATGACATTA 59.422 36.000 0.00 0.00 45.70 1.90
2243 5565 6.454583 GCAACAACATGCATCAATGACATTAC 60.455 38.462 0.00 0.00 45.70 1.89
2244 5566 6.519679 ACAACATGCATCAATGACATTACT 57.480 33.333 0.00 0.00 0.00 2.24
2245 5567 7.628769 ACAACATGCATCAATGACATTACTA 57.371 32.000 0.00 0.00 0.00 1.82
2246 5568 8.054152 ACAACATGCATCAATGACATTACTAA 57.946 30.769 0.00 0.00 0.00 2.24
2247 5569 8.522003 ACAACATGCATCAATGACATTACTAAA 58.478 29.630 0.00 0.00 0.00 1.85
2248 5570 9.016623 CAACATGCATCAATGACATTACTAAAG 57.983 33.333 0.00 0.00 0.00 1.85
2249 5571 7.198390 ACATGCATCAATGACATTACTAAAGC 58.802 34.615 0.00 1.11 0.00 3.51
2250 5572 5.809464 TGCATCAATGACATTACTAAAGCG 58.191 37.500 0.00 0.00 0.00 4.68
2251 5573 5.584251 TGCATCAATGACATTACTAAAGCGA 59.416 36.000 0.00 0.00 0.00 4.93
2252 5574 5.904080 GCATCAATGACATTACTAAAGCGAC 59.096 40.000 0.00 0.00 0.00 5.19
2253 5575 6.238211 GCATCAATGACATTACTAAAGCGACT 60.238 38.462 0.00 0.00 0.00 4.18
2254 5576 7.677276 GCATCAATGACATTACTAAAGCGACTT 60.677 37.037 0.00 0.00 0.00 3.01
2255 5577 7.290857 TCAATGACATTACTAAAGCGACTTC 57.709 36.000 0.00 0.00 0.00 3.01
2256 5578 6.871492 TCAATGACATTACTAAAGCGACTTCA 59.129 34.615 0.00 0.00 0.00 3.02
2257 5579 7.386573 TCAATGACATTACTAAAGCGACTTCAA 59.613 33.333 0.00 0.00 0.00 2.69
2258 5580 6.462073 TGACATTACTAAAGCGACTTCAAC 57.538 37.500 0.00 0.00 0.00 3.18
2259 5581 6.220930 TGACATTACTAAAGCGACTTCAACT 58.779 36.000 0.00 0.00 0.00 3.16
2260 5582 6.145534 TGACATTACTAAAGCGACTTCAACTG 59.854 38.462 0.00 0.00 0.00 3.16
2261 5583 5.989777 ACATTACTAAAGCGACTTCAACTGT 59.010 36.000 0.00 0.00 0.00 3.55
2262 5584 6.482308 ACATTACTAAAGCGACTTCAACTGTT 59.518 34.615 0.00 0.00 0.00 3.16
2263 5585 4.795970 ACTAAAGCGACTTCAACTGTTG 57.204 40.909 14.24 14.24 0.00 3.33
2264 5586 3.560068 ACTAAAGCGACTTCAACTGTTGG 59.440 43.478 19.55 7.83 0.00 3.77
2265 5587 2.038387 AAGCGACTTCAACTGTTGGT 57.962 45.000 19.55 10.93 0.00 3.67
2266 5588 2.902705 AGCGACTTCAACTGTTGGTA 57.097 45.000 19.55 8.12 0.00 3.25
2267 5589 2.755650 AGCGACTTCAACTGTTGGTAG 58.244 47.619 19.55 17.83 0.00 3.18
2268 5590 2.102588 AGCGACTTCAACTGTTGGTAGT 59.897 45.455 19.55 20.42 0.00 2.73
2269 5591 2.870411 GCGACTTCAACTGTTGGTAGTT 59.130 45.455 19.55 8.74 41.37 2.24
2270 5592 3.311596 GCGACTTCAACTGTTGGTAGTTT 59.688 43.478 19.55 4.13 38.78 2.66
2271 5593 4.508861 GCGACTTCAACTGTTGGTAGTTTA 59.491 41.667 19.55 0.00 38.78 2.01
2272 5594 5.333111 GCGACTTCAACTGTTGGTAGTTTAG 60.333 44.000 19.55 16.47 38.78 1.85
2273 5595 5.751990 CGACTTCAACTGTTGGTAGTTTAGT 59.248 40.000 19.55 11.28 38.78 2.24
2274 5596 6.292168 CGACTTCAACTGTTGGTAGTTTAGTG 60.292 42.308 19.55 8.92 38.78 2.74
2275 5597 6.646267 ACTTCAACTGTTGGTAGTTTAGTGA 58.354 36.000 19.55 0.00 38.78 3.41
2276 5598 7.107542 ACTTCAACTGTTGGTAGTTTAGTGAA 58.892 34.615 19.55 2.35 38.78 3.18
2277 5599 7.280205 ACTTCAACTGTTGGTAGTTTAGTGAAG 59.720 37.037 19.55 13.10 42.22 3.02
2278 5600 6.880484 TCAACTGTTGGTAGTTTAGTGAAGA 58.120 36.000 19.55 0.00 38.78 2.87
2279 5601 7.332557 TCAACTGTTGGTAGTTTAGTGAAGAA 58.667 34.615 19.55 0.00 38.78 2.52
2280 5602 7.990886 TCAACTGTTGGTAGTTTAGTGAAGAAT 59.009 33.333 19.55 0.00 38.78 2.40
2281 5603 9.268268 CAACTGTTGGTAGTTTAGTGAAGAATA 57.732 33.333 12.66 0.00 38.78 1.75
2313 5635 8.994429 CATATGTTAATATGTCTCACTCTCCC 57.006 38.462 0.00 0.00 40.51 4.30
2314 5636 8.811017 CATATGTTAATATGTCTCACTCTCCCT 58.189 37.037 0.00 0.00 40.51 4.20
2315 5637 7.682787 ATGTTAATATGTCTCACTCTCCCTT 57.317 36.000 0.00 0.00 0.00 3.95
2316 5638 7.496346 TGTTAATATGTCTCACTCTCCCTTT 57.504 36.000 0.00 0.00 0.00 3.11
2317 5639 7.331026 TGTTAATATGTCTCACTCTCCCTTTG 58.669 38.462 0.00 0.00 0.00 2.77
2318 5640 7.038302 TGTTAATATGTCTCACTCTCCCTTTGT 60.038 37.037 0.00 0.00 0.00 2.83
2319 5641 6.380079 AATATGTCTCACTCTCCCTTTGTT 57.620 37.500 0.00 0.00 0.00 2.83
2320 5642 4.713792 ATGTCTCACTCTCCCTTTGTTT 57.286 40.909 0.00 0.00 0.00 2.83
2321 5643 4.073293 TGTCTCACTCTCCCTTTGTTTC 57.927 45.455 0.00 0.00 0.00 2.78
2322 5644 3.711704 TGTCTCACTCTCCCTTTGTTTCT 59.288 43.478 0.00 0.00 0.00 2.52
2323 5645 4.164221 TGTCTCACTCTCCCTTTGTTTCTT 59.836 41.667 0.00 0.00 0.00 2.52
2324 5646 5.126779 GTCTCACTCTCCCTTTGTTTCTTT 58.873 41.667 0.00 0.00 0.00 2.52
2325 5647 5.237561 GTCTCACTCTCCCTTTGTTTCTTTC 59.762 44.000 0.00 0.00 0.00 2.62
2326 5648 4.461198 TCACTCTCCCTTTGTTTCTTTCC 58.539 43.478 0.00 0.00 0.00 3.13
2327 5649 4.166144 TCACTCTCCCTTTGTTTCTTTCCT 59.834 41.667 0.00 0.00 0.00 3.36
2328 5650 5.368523 TCACTCTCCCTTTGTTTCTTTCCTA 59.631 40.000 0.00 0.00 0.00 2.94
2329 5651 6.062095 CACTCTCCCTTTGTTTCTTTCCTAA 58.938 40.000 0.00 0.00 0.00 2.69
2330 5652 6.717084 CACTCTCCCTTTGTTTCTTTCCTAAT 59.283 38.462 0.00 0.00 0.00 1.73
2331 5653 6.943146 ACTCTCCCTTTGTTTCTTTCCTAATC 59.057 38.462 0.00 0.00 0.00 1.75
2332 5654 6.246163 TCTCCCTTTGTTTCTTTCCTAATCC 58.754 40.000 0.00 0.00 0.00 3.01
2333 5655 5.330233 TCCCTTTGTTTCTTTCCTAATCCC 58.670 41.667 0.00 0.00 0.00 3.85
2334 5656 4.157840 CCCTTTGTTTCTTTCCTAATCCCG 59.842 45.833 0.00 0.00 0.00 5.14
2335 5657 4.157840 CCTTTGTTTCTTTCCTAATCCCGG 59.842 45.833 0.00 0.00 0.00 5.73
2336 5658 3.359695 TGTTTCTTTCCTAATCCCGGG 57.640 47.619 16.85 16.85 0.00 5.73
2337 5659 2.022195 GTTTCTTTCCTAATCCCGGGC 58.978 52.381 18.49 0.00 0.00 6.13
2338 5660 1.291109 TTCTTTCCTAATCCCGGGCA 58.709 50.000 18.49 5.14 0.00 5.36
2339 5661 1.291109 TCTTTCCTAATCCCGGGCAA 58.709 50.000 18.49 0.00 0.00 4.52
2340 5662 1.211949 TCTTTCCTAATCCCGGGCAAG 59.788 52.381 18.49 12.65 0.00 4.01
2341 5663 0.996583 TTTCCTAATCCCGGGCAAGT 59.003 50.000 18.49 0.15 0.00 3.16
2342 5664 1.882308 TTCCTAATCCCGGGCAAGTA 58.118 50.000 18.49 1.69 0.00 2.24
2343 5665 1.420430 TCCTAATCCCGGGCAAGTAG 58.580 55.000 18.49 12.81 0.00 2.57
2344 5666 1.129058 CCTAATCCCGGGCAAGTAGT 58.871 55.000 18.49 0.00 0.00 2.73
2345 5667 1.489230 CCTAATCCCGGGCAAGTAGTT 59.511 52.381 18.49 4.16 0.00 2.24
2346 5668 2.484947 CCTAATCCCGGGCAAGTAGTTC 60.485 54.545 18.49 0.00 0.00 3.01
2347 5669 1.286248 AATCCCGGGCAAGTAGTTCT 58.714 50.000 18.49 0.00 0.00 3.01
2348 5670 0.831307 ATCCCGGGCAAGTAGTTCTC 59.169 55.000 18.49 0.00 0.00 2.87
2349 5671 0.252103 TCCCGGGCAAGTAGTTCTCT 60.252 55.000 18.49 0.00 0.00 3.10
2350 5672 1.006281 TCCCGGGCAAGTAGTTCTCTA 59.994 52.381 18.49 0.00 0.00 2.43
2351 5673 2.040178 CCCGGGCAAGTAGTTCTCTAT 58.960 52.381 8.08 0.00 0.00 1.98
2352 5674 3.117398 TCCCGGGCAAGTAGTTCTCTATA 60.117 47.826 18.49 0.00 0.00 1.31
2353 5675 3.640029 CCCGGGCAAGTAGTTCTCTATAA 59.360 47.826 8.08 0.00 0.00 0.98
2354 5676 4.100498 CCCGGGCAAGTAGTTCTCTATAAA 59.900 45.833 8.08 0.00 0.00 1.40
2355 5677 5.221661 CCCGGGCAAGTAGTTCTCTATAAAT 60.222 44.000 8.08 0.00 0.00 1.40
2356 5678 6.289064 CCGGGCAAGTAGTTCTCTATAAATT 58.711 40.000 0.00 0.00 0.00 1.82
2357 5679 6.424207 CCGGGCAAGTAGTTCTCTATAAATTC 59.576 42.308 0.00 0.00 0.00 2.17
2358 5680 7.210873 CGGGCAAGTAGTTCTCTATAAATTCT 58.789 38.462 0.00 0.00 0.00 2.40
2359 5681 8.358148 CGGGCAAGTAGTTCTCTATAAATTCTA 58.642 37.037 0.00 0.00 0.00 2.10
2360 5682 9.478768 GGGCAAGTAGTTCTCTATAAATTCTAC 57.521 37.037 0.00 0.00 0.00 2.59
2368 5690 9.810545 AGTTCTCTATAAATTCTACTGAAGTGC 57.189 33.333 0.00 0.00 35.44 4.40
2369 5691 8.747666 GTTCTCTATAAATTCTACTGAAGTGCG 58.252 37.037 0.00 0.00 35.44 5.34
2370 5692 7.426410 TCTCTATAAATTCTACTGAAGTGCGG 58.574 38.462 0.00 0.00 35.44 5.69
2371 5693 7.068348 TCTCTATAAATTCTACTGAAGTGCGGT 59.932 37.037 0.00 0.00 39.97 5.68
2372 5694 8.229253 TCTATAAATTCTACTGAAGTGCGGTA 57.771 34.615 0.00 0.00 37.31 4.02
2373 5695 8.857098 TCTATAAATTCTACTGAAGTGCGGTAT 58.143 33.333 0.00 0.00 37.70 2.73
2378 5700 9.998106 AAATTCTACTGAAGTGCGGTATATATT 57.002 29.630 0.00 0.00 37.70 1.28
2381 5703 9.903682 TTCTACTGAAGTGCGGTATATATTAAC 57.096 33.333 0.00 0.00 37.70 2.01
2382 5704 8.517878 TCTACTGAAGTGCGGTATATATTAACC 58.482 37.037 0.00 0.00 37.70 2.85
2383 5705 6.461640 ACTGAAGTGCGGTATATATTAACCC 58.538 40.000 0.00 0.00 33.26 4.11
2384 5706 5.472148 TGAAGTGCGGTATATATTAACCCG 58.528 41.667 4.74 4.74 41.50 5.28
2385 5707 5.010922 TGAAGTGCGGTATATATTAACCCGT 59.989 40.000 9.65 0.00 40.70 5.28
2386 5708 4.813027 AGTGCGGTATATATTAACCCGTG 58.187 43.478 9.65 0.00 40.70 4.94
2387 5709 4.523943 AGTGCGGTATATATTAACCCGTGA 59.476 41.667 9.65 0.00 40.70 4.35
2388 5710 5.186409 AGTGCGGTATATATTAACCCGTGAT 59.814 40.000 9.65 0.00 40.70 3.06
2389 5711 5.870978 GTGCGGTATATATTAACCCGTGATT 59.129 40.000 9.65 0.00 40.70 2.57
2390 5712 6.035327 GTGCGGTATATATTAACCCGTGATTC 59.965 42.308 9.65 0.00 40.70 2.52
2391 5713 6.101332 GCGGTATATATTAACCCGTGATTCA 58.899 40.000 9.65 0.00 40.70 2.57
2392 5714 6.255020 GCGGTATATATTAACCCGTGATTCAG 59.745 42.308 9.65 0.00 40.70 3.02
2393 5715 7.541162 CGGTATATATTAACCCGTGATTCAGA 58.459 38.462 0.00 0.00 34.10 3.27
2394 5716 7.701078 CGGTATATATTAACCCGTGATTCAGAG 59.299 40.741 0.00 0.00 34.10 3.35
2395 5717 8.746530 GGTATATATTAACCCGTGATTCAGAGA 58.253 37.037 0.00 0.00 0.00 3.10
2398 5720 2.698855 AACCCGTGATTCAGAGATGG 57.301 50.000 0.00 0.00 0.00 3.51
2399 5721 1.866015 ACCCGTGATTCAGAGATGGA 58.134 50.000 0.00 0.00 0.00 3.41
2400 5722 2.402564 ACCCGTGATTCAGAGATGGAT 58.597 47.619 0.00 0.00 0.00 3.41
2401 5723 2.103771 ACCCGTGATTCAGAGATGGATG 59.896 50.000 0.00 0.00 0.00 3.51
2402 5724 2.549563 CCCGTGATTCAGAGATGGATGG 60.550 54.545 0.00 0.00 0.00 3.51
2403 5725 2.549563 CCGTGATTCAGAGATGGATGGG 60.550 54.545 0.00 0.00 0.00 4.00
2404 5726 2.103771 CGTGATTCAGAGATGGATGGGT 59.896 50.000 0.00 0.00 0.00 4.51
2405 5727 3.737850 GTGATTCAGAGATGGATGGGTC 58.262 50.000 0.00 0.00 0.00 4.46
2406 5728 2.366590 TGATTCAGAGATGGATGGGTCG 59.633 50.000 0.00 0.00 0.00 4.79
2407 5729 1.123077 TTCAGAGATGGATGGGTCGG 58.877 55.000 0.00 0.00 0.00 4.79
2408 5730 0.261696 TCAGAGATGGATGGGTCGGA 59.738 55.000 0.00 0.00 0.00 4.55
2409 5731 0.390860 CAGAGATGGATGGGTCGGAC 59.609 60.000 0.00 0.00 0.00 4.79
2410 5732 0.032117 AGAGATGGATGGGTCGGACA 60.032 55.000 10.76 0.00 0.00 4.02
2411 5733 0.390860 GAGATGGATGGGTCGGACAG 59.609 60.000 10.76 0.00 0.00 3.51
2412 5734 0.325671 AGATGGATGGGTCGGACAGT 60.326 55.000 10.76 0.00 0.00 3.55
2413 5735 0.179073 GATGGATGGGTCGGACAGTG 60.179 60.000 10.76 0.00 0.00 3.66
2414 5736 0.617535 ATGGATGGGTCGGACAGTGA 60.618 55.000 10.76 0.00 0.00 3.41
2415 5737 1.257750 TGGATGGGTCGGACAGTGAG 61.258 60.000 10.76 0.00 0.00 3.51
2416 5738 1.258445 GGATGGGTCGGACAGTGAGT 61.258 60.000 10.76 0.00 0.00 3.41
2417 5739 0.608640 GATGGGTCGGACAGTGAGTT 59.391 55.000 10.76 0.00 0.00 3.01
2418 5740 0.608640 ATGGGTCGGACAGTGAGTTC 59.391 55.000 10.76 0.00 0.00 3.01
2419 5741 0.469331 TGGGTCGGACAGTGAGTTCT 60.469 55.000 10.76 0.00 0.00 3.01
2420 5742 0.680061 GGGTCGGACAGTGAGTTCTT 59.320 55.000 10.76 0.00 0.00 2.52
2421 5743 1.336980 GGGTCGGACAGTGAGTTCTTC 60.337 57.143 10.76 0.00 0.00 2.87
2422 5744 1.666311 GGTCGGACAGTGAGTTCTTCG 60.666 57.143 10.76 0.00 0.00 3.79
2423 5745 0.596577 TCGGACAGTGAGTTCTTCGG 59.403 55.000 0.00 0.00 0.00 4.30
2424 5746 0.388649 CGGACAGTGAGTTCTTCGGG 60.389 60.000 0.00 0.00 0.00 5.14
2425 5747 0.037232 GGACAGTGAGTTCTTCGGGG 60.037 60.000 0.00 0.00 0.00 5.73
2434 5756 1.229209 TTCTTCGGGGTGAGCTCCT 60.229 57.895 12.15 0.00 31.37 3.69
2449 5771 6.351117 GGTGAGCTCCTACAAGTTTATACACT 60.351 42.308 12.15 0.00 0.00 3.55
2494 5816 1.069823 AGGCTGCCAAGTCTATGATCG 59.930 52.381 22.65 0.00 36.29 3.69
2515 5837 7.770433 TGATCGTTGAGAGAAAATCCAATACAT 59.230 33.333 0.00 0.00 0.00 2.29
2650 5974 7.434307 CACAATCATAGAAAATCAAGGATGTGC 59.566 37.037 0.00 0.00 0.00 4.57
2656 5980 0.331278 AATCAAGGATGTGCGGGGAA 59.669 50.000 0.00 0.00 0.00 3.97
2674 5998 6.183360 GCGGGGAATAAATTTCTTCACATACA 60.183 38.462 17.40 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 107 2.998670 CACCACTCATGCTACTGAACTG 59.001 50.000 0.00 0.00 0.00 3.16
106 108 2.634940 ACACCACTCATGCTACTGAACT 59.365 45.455 0.00 0.00 0.00 3.01
111 113 3.195825 GGACTAACACCACTCATGCTACT 59.804 47.826 0.00 0.00 0.00 2.57
113 115 2.165641 CGGACTAACACCACTCATGCTA 59.834 50.000 0.00 0.00 0.00 3.49
122 124 2.264005 ACAAATGCGGACTAACACCA 57.736 45.000 0.00 0.00 0.00 4.17
147 149 2.418280 CGTGCAGCATACAACACCATTA 59.582 45.455 0.00 0.00 0.00 1.90
155 157 3.138304 AGAAGAAACGTGCAGCATACAA 58.862 40.909 0.00 0.00 0.00 2.41
178 180 2.593978 CTGGGACCAGGAGGCATG 59.406 66.667 10.55 0.00 40.17 4.06
187 189 1.490490 GCAAGGATATGACTGGGACCA 59.510 52.381 0.00 0.00 0.00 4.02
188 190 1.771255 AGCAAGGATATGACTGGGACC 59.229 52.381 0.00 0.00 0.00 4.46
189 191 2.843701 CAGCAAGGATATGACTGGGAC 58.156 52.381 0.00 0.00 0.00 4.46
225 227 6.494893 TCAACAATGCAAATAGACCACTAC 57.505 37.500 0.00 0.00 0.00 2.73
314 324 3.916392 GAGCCCGACGACACCAGTG 62.916 68.421 0.00 0.00 0.00 3.66
315 325 3.681835 GAGCCCGACGACACCAGT 61.682 66.667 0.00 0.00 0.00 4.00
316 326 2.507110 AATGAGCCCGACGACACCAG 62.507 60.000 0.00 0.00 0.00 4.00
317 327 2.579657 AATGAGCCCGACGACACCA 61.580 57.895 0.00 0.00 0.00 4.17
318 328 2.100631 CAATGAGCCCGACGACACC 61.101 63.158 0.00 0.00 0.00 4.16
371 391 4.969196 CACACTGCTGCGTCCCGT 62.969 66.667 0.00 0.00 0.00 5.28
488 521 2.482142 GCATAGCTCCTCCACACTACAC 60.482 54.545 0.00 0.00 0.00 2.90
506 551 0.392863 TCGTAACAGCCTGCATGCAT 60.393 50.000 22.97 7.74 0.00 3.96
543 614 2.248140 CAACGACGCGCACACAAT 59.752 55.556 5.73 0.00 0.00 2.71
851 4079 2.283316 TCGTCACCGATCCACCCA 60.283 61.111 0.00 0.00 38.40 4.51
926 4154 0.608308 AGTGTGGACGTCGAGGATCA 60.608 55.000 12.85 6.59 33.17 2.92
1007 4235 3.036084 CACCGAAGAGCAACGCGT 61.036 61.111 5.58 5.58 0.00 6.01
1056 4286 1.528309 CCTGGCGGTGAGGTTTGTT 60.528 57.895 0.00 0.00 0.00 2.83
1163 4393 0.179000 GCCGTCCACCATCTTCATCT 59.821 55.000 0.00 0.00 0.00 2.90
1260 4490 4.357947 TTCTTGACGAGCGCCGCT 62.358 61.111 13.40 13.40 43.88 5.52
1715 4949 4.293648 CGAGCCCGACCACACACA 62.294 66.667 0.00 0.00 38.22 3.72
1806 5055 2.897972 GTCCCGTATGTTCCGCCT 59.102 61.111 0.00 0.00 0.00 5.52
1952 5243 1.206849 TGATCGTAACAGCCTGCATGA 59.793 47.619 0.00 0.00 0.00 3.07
2058 5370 2.015587 GTAGTCCTACAGCTACGCAGT 58.984 52.381 0.00 0.00 39.27 4.40
2144 5462 1.425066 TGGAGTTTCACCTGGCTTCAT 59.575 47.619 0.00 0.00 0.00 2.57
2152 5474 3.753294 CAGTACACTGGAGTTTCACCT 57.247 47.619 1.21 0.00 40.20 4.00
2183 5505 4.100189 ACGGATGGATGAAGGTAGAAGAAG 59.900 45.833 0.00 0.00 0.00 2.85
2227 5549 5.584251 TCGCTTTAGTAATGTCATTGATGCA 59.416 36.000 8.39 0.00 0.00 3.96
2228 5550 5.904080 GTCGCTTTAGTAATGTCATTGATGC 59.096 40.000 8.39 5.08 0.00 3.91
2229 5551 7.239166 AGTCGCTTTAGTAATGTCATTGATG 57.761 36.000 8.39 0.00 0.00 3.07
2230 5552 7.549134 TGAAGTCGCTTTAGTAATGTCATTGAT 59.451 33.333 8.39 0.00 0.00 2.57
2231 5553 6.871492 TGAAGTCGCTTTAGTAATGTCATTGA 59.129 34.615 8.39 0.00 0.00 2.57
2232 5554 7.060600 TGAAGTCGCTTTAGTAATGTCATTG 57.939 36.000 8.39 0.00 0.00 2.82
2233 5555 7.387948 AGTTGAAGTCGCTTTAGTAATGTCATT 59.612 33.333 3.06 3.06 0.00 2.57
2234 5556 6.874134 AGTTGAAGTCGCTTTAGTAATGTCAT 59.126 34.615 0.00 0.00 0.00 3.06
2235 5557 6.145534 CAGTTGAAGTCGCTTTAGTAATGTCA 59.854 38.462 0.00 0.00 0.00 3.58
2236 5558 6.145696 ACAGTTGAAGTCGCTTTAGTAATGTC 59.854 38.462 0.00 0.00 0.00 3.06
2237 5559 5.989777 ACAGTTGAAGTCGCTTTAGTAATGT 59.010 36.000 0.00 0.00 0.00 2.71
2238 5560 6.467723 ACAGTTGAAGTCGCTTTAGTAATG 57.532 37.500 0.00 0.00 0.00 1.90
2239 5561 6.073222 CCAACAGTTGAAGTCGCTTTAGTAAT 60.073 38.462 15.36 0.00 0.00 1.89
2240 5562 5.235616 CCAACAGTTGAAGTCGCTTTAGTAA 59.764 40.000 15.36 0.00 0.00 2.24
2241 5563 4.748102 CCAACAGTTGAAGTCGCTTTAGTA 59.252 41.667 15.36 0.00 0.00 1.82
2242 5564 3.560068 CCAACAGTTGAAGTCGCTTTAGT 59.440 43.478 15.36 0.00 0.00 2.24
2243 5565 3.560068 ACCAACAGTTGAAGTCGCTTTAG 59.440 43.478 15.36 0.00 0.00 1.85
2244 5566 3.537580 ACCAACAGTTGAAGTCGCTTTA 58.462 40.909 15.36 0.00 0.00 1.85
2245 5567 2.365582 ACCAACAGTTGAAGTCGCTTT 58.634 42.857 15.36 0.00 0.00 3.51
2246 5568 2.038387 ACCAACAGTTGAAGTCGCTT 57.962 45.000 15.36 0.00 0.00 4.68
2247 5569 2.102588 ACTACCAACAGTTGAAGTCGCT 59.897 45.455 15.36 0.00 0.00 4.93
2248 5570 2.480845 ACTACCAACAGTTGAAGTCGC 58.519 47.619 15.36 0.00 0.00 5.19
2249 5571 5.751990 ACTAAACTACCAACAGTTGAAGTCG 59.248 40.000 15.36 11.15 38.74 4.18
2250 5572 6.759827 TCACTAAACTACCAACAGTTGAAGTC 59.240 38.462 15.36 0.00 38.74 3.01
2251 5573 6.646267 TCACTAAACTACCAACAGTTGAAGT 58.354 36.000 15.36 13.91 38.74 3.01
2252 5574 7.494625 TCTTCACTAAACTACCAACAGTTGAAG 59.505 37.037 15.36 13.31 39.17 3.02
2253 5575 7.332557 TCTTCACTAAACTACCAACAGTTGAA 58.667 34.615 15.36 1.66 38.74 2.69
2254 5576 6.880484 TCTTCACTAAACTACCAACAGTTGA 58.120 36.000 15.36 0.00 38.74 3.18
2255 5577 7.548196 TTCTTCACTAAACTACCAACAGTTG 57.452 36.000 6.28 6.28 38.74 3.16
2288 5610 8.811017 AGGGAGAGTGAGACATATTAACATATG 58.189 37.037 0.00 0.00 45.64 1.78
2289 5611 8.964533 AGGGAGAGTGAGACATATTAACATAT 57.035 34.615 0.00 0.00 0.00 1.78
2290 5612 8.783660 AAGGGAGAGTGAGACATATTAACATA 57.216 34.615 0.00 0.00 0.00 2.29
2291 5613 7.682787 AAGGGAGAGTGAGACATATTAACAT 57.317 36.000 0.00 0.00 0.00 2.71
2292 5614 7.038302 ACAAAGGGAGAGTGAGACATATTAACA 60.038 37.037 0.00 0.00 0.00 2.41
2293 5615 7.331791 ACAAAGGGAGAGTGAGACATATTAAC 58.668 38.462 0.00 0.00 0.00 2.01
2294 5616 7.496346 ACAAAGGGAGAGTGAGACATATTAA 57.504 36.000 0.00 0.00 0.00 1.40
2295 5617 7.496346 AACAAAGGGAGAGTGAGACATATTA 57.504 36.000 0.00 0.00 0.00 0.98
2296 5618 6.380079 AACAAAGGGAGAGTGAGACATATT 57.620 37.500 0.00 0.00 0.00 1.28
2297 5619 6.214412 AGAAACAAAGGGAGAGTGAGACATAT 59.786 38.462 0.00 0.00 0.00 1.78
2298 5620 5.544176 AGAAACAAAGGGAGAGTGAGACATA 59.456 40.000 0.00 0.00 0.00 2.29
2299 5621 4.349342 AGAAACAAAGGGAGAGTGAGACAT 59.651 41.667 0.00 0.00 0.00 3.06
2300 5622 3.711704 AGAAACAAAGGGAGAGTGAGACA 59.288 43.478 0.00 0.00 0.00 3.41
2301 5623 4.344359 AGAAACAAAGGGAGAGTGAGAC 57.656 45.455 0.00 0.00 0.00 3.36
2302 5624 5.368989 GAAAGAAACAAAGGGAGAGTGAGA 58.631 41.667 0.00 0.00 0.00 3.27
2303 5625 4.517075 GGAAAGAAACAAAGGGAGAGTGAG 59.483 45.833 0.00 0.00 0.00 3.51
2304 5626 4.166144 AGGAAAGAAACAAAGGGAGAGTGA 59.834 41.667 0.00 0.00 0.00 3.41
2305 5627 4.464947 AGGAAAGAAACAAAGGGAGAGTG 58.535 43.478 0.00 0.00 0.00 3.51
2306 5628 4.797912 AGGAAAGAAACAAAGGGAGAGT 57.202 40.909 0.00 0.00 0.00 3.24
2307 5629 6.375736 GGATTAGGAAAGAAACAAAGGGAGAG 59.624 42.308 0.00 0.00 0.00 3.20
2308 5630 6.246163 GGATTAGGAAAGAAACAAAGGGAGA 58.754 40.000 0.00 0.00 0.00 3.71
2309 5631 5.419155 GGGATTAGGAAAGAAACAAAGGGAG 59.581 44.000 0.00 0.00 0.00 4.30
2310 5632 5.330233 GGGATTAGGAAAGAAACAAAGGGA 58.670 41.667 0.00 0.00 0.00 4.20
2311 5633 4.157840 CGGGATTAGGAAAGAAACAAAGGG 59.842 45.833 0.00 0.00 0.00 3.95
2312 5634 4.157840 CCGGGATTAGGAAAGAAACAAAGG 59.842 45.833 0.00 0.00 0.00 3.11
2313 5635 4.157840 CCCGGGATTAGGAAAGAAACAAAG 59.842 45.833 18.48 0.00 0.00 2.77
2314 5636 4.083565 CCCGGGATTAGGAAAGAAACAAA 58.916 43.478 18.48 0.00 0.00 2.83
2315 5637 3.692690 CCCGGGATTAGGAAAGAAACAA 58.307 45.455 18.48 0.00 0.00 2.83
2316 5638 2.619590 GCCCGGGATTAGGAAAGAAACA 60.620 50.000 29.31 0.00 0.00 2.83
2317 5639 2.022195 GCCCGGGATTAGGAAAGAAAC 58.978 52.381 29.31 0.00 0.00 2.78
2318 5640 1.636519 TGCCCGGGATTAGGAAAGAAA 59.363 47.619 29.31 0.00 0.00 2.52
2319 5641 1.291109 TGCCCGGGATTAGGAAAGAA 58.709 50.000 29.31 0.00 0.00 2.52
2320 5642 1.211949 CTTGCCCGGGATTAGGAAAGA 59.788 52.381 29.31 0.00 0.00 2.52
2321 5643 1.064685 ACTTGCCCGGGATTAGGAAAG 60.065 52.381 29.31 16.46 0.00 2.62
2322 5644 0.996583 ACTTGCCCGGGATTAGGAAA 59.003 50.000 29.31 4.94 0.00 3.13
2323 5645 1.766496 CTACTTGCCCGGGATTAGGAA 59.234 52.381 29.31 2.46 0.00 3.36
2324 5646 1.343681 ACTACTTGCCCGGGATTAGGA 60.344 52.381 29.31 13.38 0.00 2.94
2325 5647 1.129058 ACTACTTGCCCGGGATTAGG 58.871 55.000 29.31 12.68 0.00 2.69
2326 5648 2.434702 AGAACTACTTGCCCGGGATTAG 59.565 50.000 29.31 19.64 0.00 1.73
2327 5649 2.433239 GAGAACTACTTGCCCGGGATTA 59.567 50.000 29.31 6.54 0.00 1.75
2328 5650 1.209747 GAGAACTACTTGCCCGGGATT 59.790 52.381 29.31 6.76 0.00 3.01
2329 5651 0.831307 GAGAACTACTTGCCCGGGAT 59.169 55.000 29.31 8.63 0.00 3.85
2330 5652 0.252103 AGAGAACTACTTGCCCGGGA 60.252 55.000 29.31 6.60 0.00 5.14
2331 5653 1.481871 TAGAGAACTACTTGCCCGGG 58.518 55.000 19.09 19.09 0.00 5.73
2332 5654 4.931661 TTATAGAGAACTACTTGCCCGG 57.068 45.455 0.00 0.00 0.00 5.73
2333 5655 7.210873 AGAATTTATAGAGAACTACTTGCCCG 58.789 38.462 0.00 0.00 0.00 6.13
2334 5656 9.478768 GTAGAATTTATAGAGAACTACTTGCCC 57.521 37.037 0.00 0.00 0.00 5.36
2342 5664 9.810545 GCACTTCAGTAGAATTTATAGAGAACT 57.189 33.333 0.00 0.00 32.31 3.01
2343 5665 8.747666 CGCACTTCAGTAGAATTTATAGAGAAC 58.252 37.037 0.00 0.00 32.31 3.01
2344 5666 7.921214 CCGCACTTCAGTAGAATTTATAGAGAA 59.079 37.037 0.00 0.00 32.31 2.87
2345 5667 7.068348 ACCGCACTTCAGTAGAATTTATAGAGA 59.932 37.037 0.00 0.00 32.31 3.10
2346 5668 7.203910 ACCGCACTTCAGTAGAATTTATAGAG 58.796 38.462 0.00 0.00 32.31 2.43
2347 5669 7.108841 ACCGCACTTCAGTAGAATTTATAGA 57.891 36.000 0.00 0.00 32.31 1.98
2352 5674 9.998106 AATATATACCGCACTTCAGTAGAATTT 57.002 29.630 0.00 0.00 32.31 1.82
2355 5677 9.903682 GTTAATATATACCGCACTTCAGTAGAA 57.096 33.333 0.00 0.00 0.00 2.10
2356 5678 8.517878 GGTTAATATATACCGCACTTCAGTAGA 58.482 37.037 0.00 0.00 0.00 2.59
2357 5679 7.758528 GGGTTAATATATACCGCACTTCAGTAG 59.241 40.741 0.00 0.00 35.19 2.57
2358 5680 7.575532 CGGGTTAATATATACCGCACTTCAGTA 60.576 40.741 0.00 0.00 37.93 2.74
2359 5681 6.461640 GGGTTAATATATACCGCACTTCAGT 58.538 40.000 0.00 0.00 35.19 3.41
2360 5682 5.575606 CGGGTTAATATATACCGCACTTCAG 59.424 44.000 0.00 0.00 37.93 3.02
2361 5683 5.472148 CGGGTTAATATATACCGCACTTCA 58.528 41.667 0.00 0.00 37.93 3.02
2369 5691 8.746530 TCTCTGAATCACGGGTTAATATATACC 58.253 37.037 0.00 0.00 0.00 2.73
2372 5694 8.260818 CCATCTCTGAATCACGGGTTAATATAT 58.739 37.037 0.00 0.00 0.00 0.86
2373 5695 7.453439 TCCATCTCTGAATCACGGGTTAATATA 59.547 37.037 0.00 0.00 0.00 0.86
2374 5696 6.270000 TCCATCTCTGAATCACGGGTTAATAT 59.730 38.462 0.00 0.00 0.00 1.28
2375 5697 5.600898 TCCATCTCTGAATCACGGGTTAATA 59.399 40.000 0.00 0.00 0.00 0.98
2376 5698 4.408921 TCCATCTCTGAATCACGGGTTAAT 59.591 41.667 0.00 0.00 0.00 1.40
2377 5699 3.772572 TCCATCTCTGAATCACGGGTTAA 59.227 43.478 0.00 0.00 0.00 2.01
2378 5700 3.371034 TCCATCTCTGAATCACGGGTTA 58.629 45.455 0.00 0.00 0.00 2.85
2379 5701 2.187958 TCCATCTCTGAATCACGGGTT 58.812 47.619 0.00 0.00 0.00 4.11
2380 5702 1.866015 TCCATCTCTGAATCACGGGT 58.134 50.000 0.00 0.00 0.00 5.28
2381 5703 2.549563 CCATCCATCTCTGAATCACGGG 60.550 54.545 0.00 0.00 0.00 5.28
2382 5704 2.549563 CCCATCCATCTCTGAATCACGG 60.550 54.545 0.00 0.00 0.00 4.94
2383 5705 2.103771 ACCCATCCATCTCTGAATCACG 59.896 50.000 0.00 0.00 0.00 4.35
2384 5706 3.737850 GACCCATCCATCTCTGAATCAC 58.262 50.000 0.00 0.00 0.00 3.06
2385 5707 2.366590 CGACCCATCCATCTCTGAATCA 59.633 50.000 0.00 0.00 0.00 2.57
2386 5708 2.289320 CCGACCCATCCATCTCTGAATC 60.289 54.545 0.00 0.00 0.00 2.52
2387 5709 1.696336 CCGACCCATCCATCTCTGAAT 59.304 52.381 0.00 0.00 0.00 2.57
2388 5710 1.123077 CCGACCCATCCATCTCTGAA 58.877 55.000 0.00 0.00 0.00 3.02
2389 5711 0.261696 TCCGACCCATCCATCTCTGA 59.738 55.000 0.00 0.00 0.00 3.27
2390 5712 0.390860 GTCCGACCCATCCATCTCTG 59.609 60.000 0.00 0.00 0.00 3.35
2391 5713 0.032117 TGTCCGACCCATCCATCTCT 60.032 55.000 0.00 0.00 0.00 3.10
2392 5714 0.390860 CTGTCCGACCCATCCATCTC 59.609 60.000 0.00 0.00 0.00 2.75
2393 5715 0.325671 ACTGTCCGACCCATCCATCT 60.326 55.000 0.00 0.00 0.00 2.90
2394 5716 0.179073 CACTGTCCGACCCATCCATC 60.179 60.000 0.00 0.00 0.00 3.51
2395 5717 0.617535 TCACTGTCCGACCCATCCAT 60.618 55.000 0.00 0.00 0.00 3.41
2396 5718 1.229051 TCACTGTCCGACCCATCCA 60.229 57.895 0.00 0.00 0.00 3.41
2397 5719 1.258445 ACTCACTGTCCGACCCATCC 61.258 60.000 0.00 0.00 0.00 3.51
2398 5720 0.608640 AACTCACTGTCCGACCCATC 59.391 55.000 0.00 0.00 0.00 3.51
2399 5721 0.608640 GAACTCACTGTCCGACCCAT 59.391 55.000 0.00 0.00 0.00 4.00
2400 5722 0.469331 AGAACTCACTGTCCGACCCA 60.469 55.000 0.00 0.00 0.00 4.51
2401 5723 0.680061 AAGAACTCACTGTCCGACCC 59.320 55.000 0.00 0.00 0.00 4.46
2402 5724 1.666311 CGAAGAACTCACTGTCCGACC 60.666 57.143 0.00 0.00 0.00 4.79
2403 5725 1.666311 CCGAAGAACTCACTGTCCGAC 60.666 57.143 0.00 0.00 0.00 4.79
2404 5726 0.596577 CCGAAGAACTCACTGTCCGA 59.403 55.000 0.00 0.00 0.00 4.55
2405 5727 0.388649 CCCGAAGAACTCACTGTCCG 60.389 60.000 0.00 0.00 0.00 4.79
2406 5728 0.037232 CCCCGAAGAACTCACTGTCC 60.037 60.000 0.00 0.00 0.00 4.02
2407 5729 0.680061 ACCCCGAAGAACTCACTGTC 59.320 55.000 0.00 0.00 0.00 3.51
2408 5730 0.393077 CACCCCGAAGAACTCACTGT 59.607 55.000 0.00 0.00 0.00 3.55
2409 5731 0.679505 TCACCCCGAAGAACTCACTG 59.320 55.000 0.00 0.00 0.00 3.66
2410 5732 0.969894 CTCACCCCGAAGAACTCACT 59.030 55.000 0.00 0.00 0.00 3.41
2411 5733 0.670854 GCTCACCCCGAAGAACTCAC 60.671 60.000 0.00 0.00 0.00 3.51
2412 5734 0.832135 AGCTCACCCCGAAGAACTCA 60.832 55.000 0.00 0.00 0.00 3.41
2413 5735 0.108567 GAGCTCACCCCGAAGAACTC 60.109 60.000 9.40 0.00 0.00 3.01
2414 5736 1.545706 GGAGCTCACCCCGAAGAACT 61.546 60.000 17.19 0.00 0.00 3.01
2415 5737 1.079057 GGAGCTCACCCCGAAGAAC 60.079 63.158 17.19 0.00 0.00 3.01
2416 5738 0.040646 TAGGAGCTCACCCCGAAGAA 59.959 55.000 17.19 0.00 0.00 2.52
2417 5739 0.683504 GTAGGAGCTCACCCCGAAGA 60.684 60.000 17.19 0.00 0.00 2.87
2418 5740 0.970937 TGTAGGAGCTCACCCCGAAG 60.971 60.000 17.19 0.00 0.00 3.79
2419 5741 0.543410 TTGTAGGAGCTCACCCCGAA 60.543 55.000 17.19 0.00 0.00 4.30
2420 5742 0.970937 CTTGTAGGAGCTCACCCCGA 60.971 60.000 17.19 0.00 0.00 5.14
2421 5743 1.258445 ACTTGTAGGAGCTCACCCCG 61.258 60.000 17.19 1.39 0.00 5.73
2422 5744 0.984995 AACTTGTAGGAGCTCACCCC 59.015 55.000 17.19 0.00 0.00 4.95
2423 5745 2.861147 AAACTTGTAGGAGCTCACCC 57.139 50.000 17.19 0.00 0.00 4.61
2424 5746 5.811100 GTGTATAAACTTGTAGGAGCTCACC 59.189 44.000 17.19 0.00 0.00 4.02
2425 5747 6.631962 AGTGTATAAACTTGTAGGAGCTCAC 58.368 40.000 17.19 6.65 0.00 3.51
2434 5756 9.305555 ACAACTCCTCTAGTGTATAAACTTGTA 57.694 33.333 0.00 0.00 38.88 2.41
2449 5771 2.943690 CGCTGCTAGTACAACTCCTCTA 59.056 50.000 0.00 0.00 0.00 2.43
2494 5816 9.178758 AGGTTATGTATTGGATTTTCTCTCAAC 57.821 33.333 0.00 0.00 0.00 3.18
2623 5945 8.680001 CACATCCTTGATTTTCTATGATTGTGA 58.320 33.333 0.00 0.00 0.00 3.58
2624 5946 7.434307 GCACATCCTTGATTTTCTATGATTGTG 59.566 37.037 0.00 0.00 0.00 3.33
2650 5974 7.328277 TGTATGTGAAGAAATTTATTCCCCG 57.672 36.000 19.90 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.