Multiple sequence alignment - TraesCS4B01G192500

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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 TraesCS4B01G192500 chr4B 100.000 4911 0 0 1 4911 415505148 415510058 0.000000e+00 9070.0
1 TraesCS4B01G192500 chr4B 100.000 105 0 0 4359 4463 415509401 415509505 1.390000e-45 195.0
2 TraesCS4B01G192500 chr4B 100.000 105 0 0 4254 4358 415509506 415509610 1.390000e-45 195.0
3 TraesCS4B01G192500 chr4D 97.127 4142 100 12 227 4355 336973684 336977819 0.000000e+00 6972.0
4 TraesCS4B01G192500 chr4D 85.876 354 15 10 4359 4708 336977718 336978040 1.310000e-90 344.0
5 TraesCS4B01G192500 chr4D 90.698 172 15 1 4740 4911 26895776 26895946 1.380000e-55 228.0
6 TraesCS4B01G192500 chr4D 98.000 50 1 0 2 51 336973327 336973376 2.440000e-13 87.9
7 TraesCS4B01G192500 chr4A 97.545 3177 72 3 365 3541 136434694 136431524 0.000000e+00 5430.0
8 TraesCS4B01G192500 chr4A 90.522 823 38 11 3540 4358 136431376 136430590 0.000000e+00 1051.0
9 TraesCS4B01G192500 chr4A 88.745 462 23 6 2 447 136435141 136434693 5.590000e-149 538.0
10 TraesCS4B01G192500 chr4A 83.898 354 33 17 4359 4707 136430692 136430358 2.850000e-82 316.0
11 TraesCS4B01G192500 chr4A 80.952 210 30 8 962 1162 32599286 32599494 1.830000e-34 158.0
12 TraesCS4B01G192500 chr3A 89.252 1805 148 12 336 2136 685426949 685425187 0.000000e+00 2217.0
13 TraesCS4B01G192500 chr3A 94.264 1203 59 8 2315 3514 685425118 685423923 0.000000e+00 1831.0
14 TraesCS4B01G192500 chr3A 86.829 410 31 8 3563 3971 685423912 685423525 2.100000e-118 436.0
15 TraesCS4B01G192500 chr3A 98.551 69 1 0 2193 2261 685425186 685425118 6.680000e-24 122.0
16 TraesCS4B01G192500 chr1D 73.095 1929 462 54 1370 3268 48023916 48022015 6.930000e-178 634.0
17 TraesCS4B01G192500 chr1D 90.698 172 15 1 4740 4911 27881890 27881720 1.380000e-55 228.0
18 TraesCS4B01G192500 chr1B 72.879 1921 469 49 1379 3272 67682870 67680975 9.030000e-172 614.0
19 TraesCS4B01G192500 chr1A 72.548 1927 476 48 1370 3268 47826433 47824532 3.300000e-161 579.0
20 TraesCS4B01G192500 chr7D 81.000 400 65 8 1059 1457 412473881 412473492 1.720000e-79 307.0
21 TraesCS4B01G192500 chr7D 90.698 172 15 1 4740 4911 31061841 31062011 1.380000e-55 228.0
22 TraesCS4B01G192500 chr6B 91.803 183 13 2 4729 4911 523343888 523343708 2.270000e-63 254.0
23 TraesCS4B01G192500 chr2A 91.329 173 13 2 4740 4911 362445894 362446065 8.220000e-58 235.0
24 TraesCS4B01G192500 chr2A 78.571 210 32 9 965 1165 475365456 475365251 5.160000e-25 126.0
25 TraesCS4B01G192500 chr2D 91.279 172 14 1 4740 4911 295166402 295166572 2.960000e-57 233.0
26 TraesCS4B01G192500 chr7A 90.230 174 16 1 4737 4910 17693935 17694107 4.950000e-55 226.0
27 TraesCS4B01G192500 chr3D 90.643 171 15 1 4740 4910 346851439 346851270 4.950000e-55 226.0
28 TraesCS4B01G192500 chr7B 89.385 179 16 3 4733 4911 611709494 611709319 6.400000e-54 222.0


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 TraesCS4B01G192500 chr4B 415505148 415510058 4910 False 3153.333333 9070 100.000000 1 4911 3 chr4B.!!$F1 4910
1 TraesCS4B01G192500 chr4D 336973327 336978040 4713 False 2467.966667 6972 93.667667 2 4708 3 chr4D.!!$F2 4706
2 TraesCS4B01G192500 chr4A 136430358 136435141 4783 True 1833.750000 5430 90.177500 2 4707 4 chr4A.!!$R1 4705
3 TraesCS4B01G192500 chr3A 685423525 685426949 3424 True 1151.500000 2217 92.224000 336 3971 4 chr3A.!!$R1 3635
4 TraesCS4B01G192500 chr1D 48022015 48023916 1901 True 634.000000 634 73.095000 1370 3268 1 chr1D.!!$R2 1898
5 TraesCS4B01G192500 chr1B 67680975 67682870 1895 True 614.000000 614 72.879000 1379 3272 1 chr1B.!!$R1 1893
6 TraesCS4B01G192500 chr1A 47824532 47826433 1901 True 579.000000 579 72.548000 1370 3268 1 chr1A.!!$R1 1898

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
181 198 0.676466 TTGAATCGGGCGATGTTGCT 60.676 50.000 0.0 0.0 34.70 3.91 F
552 761 1.066071 TGGTTCACGGTCACTCAAACA 60.066 47.619 0.0 0.0 0.00 2.83 F
2043 2263 2.765135 TCTGAAGCAAGAGGAGGATCAG 59.235 50.000 0.0 0.0 36.25 2.90 F
3156 3381 1.376037 CCCAGAGCTTCACCGTTCC 60.376 63.158 0.0 0.0 0.00 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1003 1223 0.323629 ACGAAGATCGCCCAGGAAAA 59.676 50.0 0.0 0.0 45.12 2.29 R
2110 2330 2.592102 ACAATGGCATCCTTGACAGT 57.408 45.0 0.0 0.0 46.32 3.55 R
3715 4090 0.318441 CAGCTTTCGTCAGACCCTCA 59.682 55.0 0.0 0.0 0.00 3.86 R
4777 5165 0.310854 GGTCAAAGTTGAAGCACGGG 59.689 55.0 0.0 0.0 39.21 5.28 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
51 52 3.761752 CGGTCCCAGTATCATTTTGGTTT 59.238 43.478 0.00 0.00 0.00 3.27
62 63 4.599041 TCATTTTGGTTTCCCGATCTGAT 58.401 39.130 0.00 0.00 0.00 2.90
91 108 4.656117 GGTTGGCGGCGGGTTTTG 62.656 66.667 9.78 0.00 0.00 2.44
119 136 4.082523 CGTGGGCAGATCCGTGGT 62.083 66.667 0.00 0.00 34.94 4.16
128 145 2.614481 GCAGATCCGTGGTGGTTTTAGA 60.614 50.000 0.00 0.00 39.52 2.10
138 155 3.055144 GGTTTTAGACCGCCTACCG 57.945 57.895 0.00 0.00 39.00 4.02
139 156 1.086067 GGTTTTAGACCGCCTACCGC 61.086 60.000 0.00 0.00 39.00 5.68
170 187 0.727398 GGCTTTCGTCCTTGAATCGG 59.273 55.000 0.00 0.00 0.00 4.18
181 198 0.676466 TTGAATCGGGCGATGTTGCT 60.676 50.000 0.00 0.00 34.70 3.91
191 208 2.512885 GCGATGTTGCTGTTGATTCTG 58.487 47.619 0.00 0.00 0.00 3.02
194 211 3.365666 CGATGTTGCTGTTGATTCTGCTT 60.366 43.478 0.00 0.00 34.27 3.91
204 221 5.423015 TGTTGATTCTGCTTAGGAGATGTC 58.577 41.667 3.90 6.95 0.00 3.06
220 237 3.438087 AGATGTCGATTTGGCTTGTCTTG 59.562 43.478 0.00 0.00 0.00 3.02
255 388 1.819288 GTTCTGGTCTGATCAGGTCGA 59.181 52.381 22.42 11.94 33.36 4.20
385 518 3.071479 TGACGCCCTGTTGAATAACTTC 58.929 45.455 0.00 0.00 37.68 3.01
488 696 3.134574 TGACGCCCTGTTGAACTATTT 57.865 42.857 0.00 0.00 0.00 1.40
490 698 4.643463 TGACGCCCTGTTGAACTATTTAA 58.357 39.130 0.00 0.00 0.00 1.52
492 701 4.391155 ACGCCCTGTTGAACTATTTAACA 58.609 39.130 0.00 0.00 33.67 2.41
498 707 8.495148 GCCCTGTTGAACTATTTAACATTTTTG 58.505 33.333 0.00 0.00 34.22 2.44
552 761 1.066071 TGGTTCACGGTCACTCAAACA 60.066 47.619 0.00 0.00 0.00 2.83
595 804 9.702726 GATTTACGTTGTATAGTAACAGTCGTA 57.297 33.333 0.00 10.21 39.98 3.43
685 900 4.352893 ACCCCCACTTCAGGAAAATAATG 58.647 43.478 0.00 0.00 0.00 1.90
688 903 5.016173 CCCCACTTCAGGAAAATAATGACA 58.984 41.667 0.00 0.00 0.00 3.58
1137 1357 6.545666 TCAAGCAATTTGAGGAACAGAGTTTA 59.454 34.615 0.00 0.00 40.82 2.01
1146 1366 4.704965 AGGAACAGAGTTTACCACAGTTC 58.295 43.478 0.00 0.00 35.13 3.01
1149 1369 5.221581 GGAACAGAGTTTACCACAGTTCCTA 60.222 44.000 12.71 0.00 43.66 2.94
1221 1441 3.274095 AGGCTTGCTGGTATTCTTCTC 57.726 47.619 0.00 0.00 0.00 2.87
1287 1507 3.188460 GCACACAACGATGGATAAGTGTT 59.812 43.478 0.00 0.00 38.05 3.32
1383 1603 3.548587 CAGTTCTTCACAAGTCATTGCG 58.451 45.455 0.00 0.00 40.27 4.85
1954 2174 5.293079 GCTGAAGAATCTGGTGATGTTAGTC 59.707 44.000 0.00 0.00 32.44 2.59
1958 2178 5.026121 AGAATCTGGTGATGTTAGTCCTGA 58.974 41.667 0.00 0.00 32.44 3.86
2043 2263 2.765135 TCTGAAGCAAGAGGAGGATCAG 59.235 50.000 0.00 0.00 36.25 2.90
2110 2330 1.732917 CTTGGGCTTGTTGCAACGA 59.267 52.632 23.79 21.14 45.15 3.85
2418 2638 8.131731 GCAAACCTTCCTCATGTTATAGAAATC 58.868 37.037 0.00 0.00 0.00 2.17
3156 3381 1.376037 CCCAGAGCTTCACCGTTCC 60.376 63.158 0.00 0.00 0.00 3.62
3435 3660 3.325816 GTTCGCCGAACTAGTCCTC 57.674 57.895 21.95 0.00 39.23 3.71
3715 4090 8.893563 TTATTGTTCAAATTCCTTGTAGGGAT 57.106 30.769 0.00 0.00 34.10 3.85
3951 4326 1.679032 GCTGCAGGTTCTTTATCCGGT 60.679 52.381 17.12 0.00 0.00 5.28
4015 4391 8.805175 TCTCTTGCCAGATGAAATATTTTTGAA 58.195 29.630 1.43 0.00 0.00 2.69
4054 4430 6.791028 ACATGTCCTGTTATCATGTTGCAAAC 60.791 38.462 0.00 0.00 46.26 2.93
4070 4446 1.581602 CAAACGTGAAACAAGGTTGCG 59.418 47.619 3.08 0.00 34.36 4.85
4084 4460 5.069119 ACAAGGTTGCGTGAGATCATCTATA 59.931 40.000 0.00 0.00 0.00 1.31
4174 4552 0.390340 CAGGTGTCCATGTGAGTCGG 60.390 60.000 0.00 0.00 0.00 4.79
4233 4611 3.325870 CTCATCAGTAAAGTTGTCGCCA 58.674 45.455 0.00 0.00 0.00 5.69
4273 4651 1.933181 CTCCGCGTATTGCTTCATTCA 59.067 47.619 4.92 0.00 43.27 2.57
4296 4674 5.723672 AGTGGTGATTAGTGGATATACCG 57.276 43.478 0.00 0.00 42.61 4.02
4302 4680 7.159372 GGTGATTAGTGGATATACCGATGTTT 58.841 38.462 0.00 0.00 42.61 2.83
4303 4681 7.660208 GGTGATTAGTGGATATACCGATGTTTT 59.340 37.037 0.00 0.00 42.61 2.43
4304 4682 9.052759 GTGATTAGTGGATATACCGATGTTTTT 57.947 33.333 0.00 0.00 42.61 1.94
4328 4706 7.411486 TTTTAATCTTGTTTGTGGAAGTCCA 57.589 32.000 0.00 0.00 45.30 4.02
4338 4716 3.642778 GGAAGTCCACGCGCAGCTA 62.643 63.158 5.73 0.00 44.55 3.32
4355 4733 2.063156 CTACTCCAGCTGATCGCATC 57.937 55.000 17.39 0.00 42.61 3.91
4356 4734 1.339291 CTACTCCAGCTGATCGCATCA 59.661 52.381 17.39 0.05 42.61 3.07
4363 4741 2.279717 TGATCGCATCAGCTCCGC 60.280 61.111 0.00 0.00 39.10 5.54
4367 4745 2.355126 CGCATCAGCTCCGCGTAT 60.355 61.111 4.92 0.00 43.86 3.06
4368 4746 1.951130 CGCATCAGCTCCGCGTATT 60.951 57.895 4.92 0.00 43.86 1.89
4369 4747 1.566563 GCATCAGCTCCGCGTATTG 59.433 57.895 4.92 0.00 37.91 1.90
4370 4748 1.566563 CATCAGCTCCGCGTATTGC 59.433 57.895 4.92 3.41 41.47 3.56
4371 4749 0.877649 CATCAGCTCCGCGTATTGCT 60.878 55.000 4.92 5.95 43.27 3.91
4372 4750 0.179073 ATCAGCTCCGCGTATTGCTT 60.179 50.000 4.92 0.00 43.27 3.91
4373 4751 0.806102 TCAGCTCCGCGTATTGCTTC 60.806 55.000 4.92 0.00 43.27 3.86
4374 4752 1.083806 CAGCTCCGCGTATTGCTTCA 61.084 55.000 4.92 0.00 43.27 3.02
4375 4753 0.179073 AGCTCCGCGTATTGCTTCAT 60.179 50.000 4.92 0.00 43.27 2.57
4376 4754 0.657840 GCTCCGCGTATTGCTTCATT 59.342 50.000 4.92 0.00 43.27 2.57
4377 4755 1.333258 GCTCCGCGTATTGCTTCATTC 60.333 52.381 4.92 0.00 43.27 2.67
4378 4756 1.933181 CTCCGCGTATTGCTTCATTCA 59.067 47.619 4.92 0.00 43.27 2.57
4379 4757 2.351418 CTCCGCGTATTGCTTCATTCAA 59.649 45.455 4.92 0.00 43.27 2.69
4380 4758 2.351418 TCCGCGTATTGCTTCATTCAAG 59.649 45.455 4.92 0.00 43.27 3.02
4381 4759 2.095853 CCGCGTATTGCTTCATTCAAGT 59.904 45.455 4.92 0.00 43.27 3.16
4382 4760 3.093574 CGCGTATTGCTTCATTCAAGTG 58.906 45.455 0.00 0.00 43.27 3.16
4383 4761 3.429085 GCGTATTGCTTCATTCAAGTGG 58.571 45.455 0.00 0.00 41.73 4.00
4384 4762 3.119849 GCGTATTGCTTCATTCAAGTGGT 60.120 43.478 0.00 0.00 41.73 4.16
4385 4763 4.406069 CGTATTGCTTCATTCAAGTGGTG 58.594 43.478 0.00 0.00 34.13 4.17
4386 4764 4.154015 CGTATTGCTTCATTCAAGTGGTGA 59.846 41.667 0.00 0.00 34.13 4.02
4387 4765 5.163723 CGTATTGCTTCATTCAAGTGGTGAT 60.164 40.000 0.00 0.00 35.70 3.06
4388 4766 5.733620 ATTGCTTCATTCAAGTGGTGATT 57.266 34.783 0.00 0.00 35.70 2.57
4389 4767 6.839124 ATTGCTTCATTCAAGTGGTGATTA 57.161 33.333 0.00 0.00 35.70 1.75
4390 4768 5.885230 TGCTTCATTCAAGTGGTGATTAG 57.115 39.130 0.00 0.00 35.70 1.73
4391 4769 5.316167 TGCTTCATTCAAGTGGTGATTAGT 58.684 37.500 0.00 0.00 35.70 2.24
4392 4770 5.181811 TGCTTCATTCAAGTGGTGATTAGTG 59.818 40.000 0.00 0.00 35.70 2.74
4393 4771 5.392380 GCTTCATTCAAGTGGTGATTAGTGG 60.392 44.000 0.00 0.00 35.70 4.00
4394 4772 5.497464 TCATTCAAGTGGTGATTAGTGGA 57.503 39.130 0.00 0.00 35.70 4.02
4395 4773 6.065976 TCATTCAAGTGGTGATTAGTGGAT 57.934 37.500 0.00 0.00 35.70 3.41
4396 4774 7.194112 TCATTCAAGTGGTGATTAGTGGATA 57.806 36.000 0.00 0.00 35.70 2.59
4397 4775 7.805163 TCATTCAAGTGGTGATTAGTGGATAT 58.195 34.615 0.00 0.00 35.70 1.63
4398 4776 8.933653 TCATTCAAGTGGTGATTAGTGGATATA 58.066 33.333 0.00 0.00 35.70 0.86
4399 4777 8.993121 CATTCAAGTGGTGATTAGTGGATATAC 58.007 37.037 0.00 0.00 35.70 1.47
4400 4778 7.062749 TCAAGTGGTGATTAGTGGATATACC 57.937 40.000 0.00 0.00 39.54 2.73
4401 4779 5.723672 AGTGGTGATTAGTGGATATACCG 57.276 43.478 0.00 0.00 42.61 4.02
4402 4780 5.391256 AGTGGTGATTAGTGGATATACCGA 58.609 41.667 0.00 0.00 42.61 4.69
4403 4781 6.017192 AGTGGTGATTAGTGGATATACCGAT 58.983 40.000 0.00 0.00 42.61 4.18
4404 4782 6.071334 AGTGGTGATTAGTGGATATACCGATG 60.071 42.308 0.00 0.00 42.61 3.84
4405 4783 5.778241 TGGTGATTAGTGGATATACCGATGT 59.222 40.000 0.00 0.00 42.61 3.06
4406 4784 6.269077 TGGTGATTAGTGGATATACCGATGTT 59.731 38.462 0.00 0.00 42.61 2.71
4541 4919 9.892444 TTCTGTAGGATAGATATAAAAGTCCCA 57.108 33.333 0.00 0.00 0.00 4.37
4586 4972 1.593750 GCTGCATACTGAGCCCTCG 60.594 63.158 0.00 0.00 0.00 4.63
4600 4986 1.432270 CCCTCGAAAGGATTCTGCGC 61.432 60.000 0.00 0.00 46.67 6.09
4608 4994 0.962356 AGGATTCTGCGCACCTTTGG 60.962 55.000 5.66 0.00 0.00 3.28
4679 5067 7.412137 TGAAAGTATATGCTCATTCGTGATG 57.588 36.000 0.00 0.00 37.08 3.07
4739 5127 9.521841 TTTGAGGGTATAATACACACAAAATGA 57.478 29.630 0.00 0.00 45.24 2.57
4740 5128 9.693739 TTGAGGGTATAATACACACAAAATGAT 57.306 29.630 0.00 0.00 39.20 2.45
4748 5136 7.865706 AATACACACAAAATGATACTCCCTC 57.134 36.000 0.00 0.00 0.00 4.30
4749 5137 5.241403 ACACACAAAATGATACTCCCTCA 57.759 39.130 0.00 0.00 0.00 3.86
4750 5138 5.248640 ACACACAAAATGATACTCCCTCAG 58.751 41.667 0.00 0.00 0.00 3.35
4751 5139 5.221925 ACACACAAAATGATACTCCCTCAGT 60.222 40.000 0.00 0.00 39.41 3.41
4752 5140 5.707298 CACACAAAATGATACTCCCTCAGTT 59.293 40.000 0.00 0.00 36.43 3.16
4753 5141 5.940470 ACACAAAATGATACTCCCTCAGTTC 59.060 40.000 0.00 0.00 36.43 3.01
4754 5142 5.355350 CACAAAATGATACTCCCTCAGTTCC 59.645 44.000 0.00 0.00 36.43 3.62
4755 5143 4.408182 AAATGATACTCCCTCAGTTCCG 57.592 45.455 0.00 0.00 36.43 4.30
4756 5144 2.820728 TGATACTCCCTCAGTTCCGA 57.179 50.000 0.00 0.00 36.43 4.55
4757 5145 3.095912 TGATACTCCCTCAGTTCCGAA 57.904 47.619 0.00 0.00 36.43 4.30
4758 5146 3.437213 TGATACTCCCTCAGTTCCGAAA 58.563 45.455 0.00 0.00 36.43 3.46
4759 5147 4.030913 TGATACTCCCTCAGTTCCGAAAT 58.969 43.478 0.00 0.00 36.43 2.17
4760 5148 5.205821 TGATACTCCCTCAGTTCCGAAATA 58.794 41.667 0.00 0.00 36.43 1.40
4761 5149 5.839063 TGATACTCCCTCAGTTCCGAAATAT 59.161 40.000 0.00 0.00 36.43 1.28
4762 5150 7.008332 TGATACTCCCTCAGTTCCGAAATATA 58.992 38.462 0.00 0.00 36.43 0.86
4763 5151 5.793030 ACTCCCTCAGTTCCGAAATATAG 57.207 43.478 0.00 0.00 26.56 1.31
4764 5152 5.209659 ACTCCCTCAGTTCCGAAATATAGT 58.790 41.667 0.00 0.00 26.56 2.12
4765 5153 5.069251 ACTCCCTCAGTTCCGAAATATAGTG 59.931 44.000 0.00 0.00 26.56 2.74
4766 5154 4.960469 TCCCTCAGTTCCGAAATATAGTGT 59.040 41.667 0.00 0.00 0.00 3.55
4767 5155 5.424252 TCCCTCAGTTCCGAAATATAGTGTT 59.576 40.000 0.00 0.00 0.00 3.32
4768 5156 6.070424 TCCCTCAGTTCCGAAATATAGTGTTT 60.070 38.462 0.00 0.00 0.00 2.83
4769 5157 6.258068 CCCTCAGTTCCGAAATATAGTGTTTC 59.742 42.308 0.00 0.00 33.36 2.78
4770 5158 6.258068 CCTCAGTTCCGAAATATAGTGTTTCC 59.742 42.308 0.00 0.00 33.15 3.13
4771 5159 6.942976 TCAGTTCCGAAATATAGTGTTTCCT 58.057 36.000 0.00 0.00 33.15 3.36
4772 5160 7.391620 TCAGTTCCGAAATATAGTGTTTCCTT 58.608 34.615 0.00 0.00 33.15 3.36
4773 5161 7.881232 TCAGTTCCGAAATATAGTGTTTCCTTT 59.119 33.333 0.00 0.00 33.15 3.11
4774 5162 9.158233 CAGTTCCGAAATATAGTGTTTCCTTTA 57.842 33.333 0.00 0.00 33.15 1.85
4775 5163 9.901172 AGTTCCGAAATATAGTGTTTCCTTTAT 57.099 29.630 0.00 0.00 33.15 1.40
4778 5166 9.333724 TCCGAAATATAGTGTTTCCTTTATTCC 57.666 33.333 0.00 0.00 33.15 3.01
4779 5167 8.565416 CCGAAATATAGTGTTTCCTTTATTCCC 58.435 37.037 0.00 0.00 33.15 3.97
4780 5168 8.280497 CGAAATATAGTGTTTCCTTTATTCCCG 58.720 37.037 0.00 0.00 33.15 5.14
4781 5169 9.117183 GAAATATAGTGTTTCCTTTATTCCCGT 57.883 33.333 0.00 0.00 31.08 5.28
4782 5170 8.446599 AATATAGTGTTTCCTTTATTCCCGTG 57.553 34.615 0.00 0.00 0.00 4.94
4783 5171 2.817844 AGTGTTTCCTTTATTCCCGTGC 59.182 45.455 0.00 0.00 0.00 5.34
4784 5172 2.817844 GTGTTTCCTTTATTCCCGTGCT 59.182 45.455 0.00 0.00 0.00 4.40
4785 5173 3.254903 GTGTTTCCTTTATTCCCGTGCTT 59.745 43.478 0.00 0.00 0.00 3.91
4786 5174 3.504520 TGTTTCCTTTATTCCCGTGCTTC 59.495 43.478 0.00 0.00 0.00 3.86
4787 5175 3.426787 TTCCTTTATTCCCGTGCTTCA 57.573 42.857 0.00 0.00 0.00 3.02
4788 5176 3.426787 TCCTTTATTCCCGTGCTTCAA 57.573 42.857 0.00 0.00 0.00 2.69
4789 5177 3.078837 TCCTTTATTCCCGTGCTTCAAC 58.921 45.455 0.00 0.00 0.00 3.18
4790 5178 3.081804 CCTTTATTCCCGTGCTTCAACT 58.918 45.455 0.00 0.00 0.00 3.16
4791 5179 3.506067 CCTTTATTCCCGTGCTTCAACTT 59.494 43.478 0.00 0.00 0.00 2.66
4792 5180 4.022329 CCTTTATTCCCGTGCTTCAACTTT 60.022 41.667 0.00 0.00 0.00 2.66
4793 5181 4.497473 TTATTCCCGTGCTTCAACTTTG 57.503 40.909 0.00 0.00 0.00 2.77
4794 5182 2.045561 TTCCCGTGCTTCAACTTTGA 57.954 45.000 0.00 0.00 34.92 2.69
4795 5183 1.305201 TCCCGTGCTTCAACTTTGAC 58.695 50.000 0.00 0.00 36.83 3.18
4796 5184 0.310854 CCCGTGCTTCAACTTTGACC 59.689 55.000 0.00 0.00 36.83 4.02
4797 5185 1.021202 CCGTGCTTCAACTTTGACCA 58.979 50.000 0.00 0.00 36.83 4.02
4798 5186 1.608590 CCGTGCTTCAACTTTGACCAT 59.391 47.619 0.00 0.00 36.83 3.55
4799 5187 2.811431 CCGTGCTTCAACTTTGACCATA 59.189 45.455 0.00 0.00 36.83 2.74
4800 5188 3.252215 CCGTGCTTCAACTTTGACCATAA 59.748 43.478 0.00 0.00 36.83 1.90
4801 5189 4.261405 CCGTGCTTCAACTTTGACCATAAA 60.261 41.667 0.00 0.00 36.83 1.40
4802 5190 5.460646 CGTGCTTCAACTTTGACCATAAAT 58.539 37.500 0.00 0.00 36.83 1.40
4803 5191 5.920273 CGTGCTTCAACTTTGACCATAAATT 59.080 36.000 0.00 0.00 36.83 1.82
4804 5192 6.420604 CGTGCTTCAACTTTGACCATAAATTT 59.579 34.615 0.00 0.00 36.83 1.82
4805 5193 7.593273 CGTGCTTCAACTTTGACCATAAATTTA 59.407 33.333 0.00 0.00 36.83 1.40
4806 5194 9.255304 GTGCTTCAACTTTGACCATAAATTTAA 57.745 29.630 1.21 0.00 36.83 1.52
4807 5195 9.995003 TGCTTCAACTTTGACCATAAATTTAAT 57.005 25.926 1.21 0.00 36.83 1.40
4817 5205 9.921637 TTGACCATAAATTTAATCAACAAGACC 57.078 29.630 14.31 0.00 0.00 3.85
4818 5206 9.083422 TGACCATAAATTTAATCAACAAGACCA 57.917 29.630 1.21 0.00 0.00 4.02
4819 5207 9.921637 GACCATAAATTTAATCAACAAGACCAA 57.078 29.630 1.21 0.00 0.00 3.67
4820 5208 9.705290 ACCATAAATTTAATCAACAAGACCAAC 57.295 29.630 1.21 0.00 0.00 3.77
4821 5209 9.927668 CCATAAATTTAATCAACAAGACCAACT 57.072 29.630 1.21 0.00 0.00 3.16
4823 5211 7.713764 AAATTTAATCAACAAGACCAACTGC 57.286 32.000 0.00 0.00 0.00 4.40
4824 5212 4.481930 TTAATCAACAAGACCAACTGCG 57.518 40.909 0.00 0.00 0.00 5.18
4825 5213 1.238439 ATCAACAAGACCAACTGCGG 58.762 50.000 0.00 0.00 0.00 5.69
4826 5214 1.008538 CAACAAGACCAACTGCGGC 60.009 57.895 0.00 0.00 0.00 6.53
4827 5215 2.542907 AACAAGACCAACTGCGGCG 61.543 57.895 0.51 0.51 0.00 6.46
4828 5216 3.726517 CAAGACCAACTGCGGCGG 61.727 66.667 9.78 7.39 0.00 6.13
4848 5236 5.269459 CGGGAGCGAAAATTATATCAGTG 57.731 43.478 0.00 0.00 0.00 3.66
4849 5237 4.988540 CGGGAGCGAAAATTATATCAGTGA 59.011 41.667 0.00 0.00 0.00 3.41
4850 5238 5.465390 CGGGAGCGAAAATTATATCAGTGAA 59.535 40.000 0.00 0.00 0.00 3.18
4851 5239 6.147821 CGGGAGCGAAAATTATATCAGTGAAT 59.852 38.462 0.00 0.00 0.00 2.57
4852 5240 7.307989 CGGGAGCGAAAATTATATCAGTGAATT 60.308 37.037 0.00 0.00 0.00 2.17
4853 5241 8.017946 GGGAGCGAAAATTATATCAGTGAATTC 58.982 37.037 0.00 0.00 0.00 2.17
4854 5242 7.742089 GGAGCGAAAATTATATCAGTGAATTCG 59.258 37.037 0.00 6.64 39.85 3.34
4855 5243 8.142994 AGCGAAAATTATATCAGTGAATTCGT 57.857 30.769 0.00 0.00 39.28 3.85
4856 5244 9.256477 AGCGAAAATTATATCAGTGAATTCGTA 57.744 29.630 0.00 0.00 39.28 3.43
4903 5291 3.520187 TTTTTCTCCCGCCGTAGTC 57.480 52.632 0.00 0.00 0.00 2.59
4904 5292 0.388907 TTTTTCTCCCGCCGTAGTCG 60.389 55.000 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 1.456196 GGAGCGTCATCAGATCGGGA 61.456 60.000 0.00 0.00 0.00 5.14
62 63 2.425592 CCAACCACAGGAGCGTCA 59.574 61.111 0.00 0.00 0.00 4.35
139 156 0.093026 CGAAAGCCAAAGCGACTACG 59.907 55.000 0.00 0.00 46.67 3.51
140 157 1.126296 GACGAAAGCCAAAGCGACTAC 59.874 52.381 0.00 0.00 46.67 2.73
141 158 1.425412 GACGAAAGCCAAAGCGACTA 58.575 50.000 0.00 0.00 46.67 2.59
142 159 1.228657 GGACGAAAGCCAAAGCGACT 61.229 55.000 0.00 0.00 46.67 4.18
143 160 1.206831 GGACGAAAGCCAAAGCGAC 59.793 57.895 0.00 0.00 46.67 5.19
144 161 0.534203 AAGGACGAAAGCCAAAGCGA 60.534 50.000 0.00 0.00 46.67 4.93
153 170 0.727398 GCCCGATTCAAGGACGAAAG 59.273 55.000 0.00 0.00 0.00 2.62
170 187 1.470098 AGAATCAACAGCAACATCGCC 59.530 47.619 0.00 0.00 0.00 5.54
181 198 5.423015 GACATCTCCTAAGCAGAATCAACA 58.577 41.667 0.00 0.00 0.00 3.33
191 208 2.545946 GCCAAATCGACATCTCCTAAGC 59.454 50.000 0.00 0.00 0.00 3.09
194 211 3.197766 ACAAGCCAAATCGACATCTCCTA 59.802 43.478 0.00 0.00 0.00 2.94
220 237 7.284944 TCAGACCAGAACTAAAGTATAGTAGGC 59.715 40.741 0.00 0.00 0.00 3.93
224 241 8.824756 TGATCAGACCAGAACTAAAGTATAGT 57.175 34.615 0.00 0.00 0.00 2.12
225 242 8.356657 CCTGATCAGACCAGAACTAAAGTATAG 58.643 40.741 24.62 0.00 33.65 1.31
295 428 1.061253 CGCGTGTTTGTGGAAACGT 59.939 52.632 0.00 0.00 43.92 3.99
296 429 1.061253 ACGCGTGTTTGTGGAAACG 59.939 52.632 12.93 0.00 43.92 3.60
361 494 2.747446 GTTATTCAACAGGGCGTCATGT 59.253 45.455 0.00 0.00 39.84 3.21
385 518 4.677378 CGACAGGCATCTAGTAGAAAATCG 59.323 45.833 3.45 4.90 0.00 3.34
457 665 2.222027 CAGGGCGTCAAATAATCTCCC 58.778 52.381 0.00 0.00 0.00 4.30
545 754 7.038048 TCTCAGCTATCAACATACTGTTTGAG 58.962 38.462 5.24 9.34 38.77 3.02
552 761 7.717568 ACGTAAATCTCAGCTATCAACATACT 58.282 34.615 0.00 0.00 0.00 2.12
685 900 7.040409 ACCAGGTCATTTAGTTTCTGAATTGTC 60.040 37.037 0.00 0.00 0.00 3.18
688 903 8.934023 TTACCAGGTCATTTAGTTTCTGAATT 57.066 30.769 0.00 0.00 0.00 2.17
1003 1223 0.323629 ACGAAGATCGCCCAGGAAAA 59.676 50.000 0.00 0.00 45.12 2.29
1128 1348 4.652421 TGTAGGAACTGTGGTAAACTCTGT 59.348 41.667 0.00 0.00 41.52 3.41
1137 1357 3.508845 AATGCTTGTAGGAACTGTGGT 57.491 42.857 0.00 0.00 41.52 4.16
1221 1441 9.685828 AAATCATTTGCATCCAAAGAATTTTTG 57.314 25.926 0.00 6.27 43.60 2.44
1287 1507 1.142667 TGTGACTTGATTGCAGGGTCA 59.857 47.619 0.00 0.00 36.75 4.02
1383 1603 4.277921 GGGATCTCAATGGAAGCAATCTTC 59.722 45.833 0.00 0.00 46.15 2.87
1954 2174 9.656040 TTCAATAAAATGGAAATGACATTCAGG 57.344 29.630 0.05 0.00 37.55 3.86
2043 2263 5.238624 TCCAGATTCCATCATCTTCATCC 57.761 43.478 0.00 0.00 30.50 3.51
2110 2330 2.592102 ACAATGGCATCCTTGACAGT 57.408 45.000 0.00 0.00 46.32 3.55
2418 2638 6.088824 GGAGTCTTTGATGCTTGTTAACATG 58.911 40.000 9.56 12.93 0.00 3.21
2430 2650 4.096984 GCAACATTAGGGGAGTCTTTGATG 59.903 45.833 0.00 0.00 0.00 3.07
2531 2754 8.079211 AGCTGATACTAATTGACCAAAGTAGA 57.921 34.615 9.45 0.00 38.46 2.59
2893 3116 4.761227 TGCTTCTTCATGCACATTAGAACA 59.239 37.500 0.00 0.00 33.94 3.18
3156 3381 1.784283 GACAAAATTGGCGGTTTCACG 59.216 47.619 0.00 0.00 0.00 4.35
3429 3654 2.374184 CTTGATGTCTCTCGGAGGACT 58.626 52.381 20.06 10.74 34.01 3.85
3435 3660 1.821753 ACTCACCTTGATGTCTCTCGG 59.178 52.381 0.00 0.00 0.00 4.63
3522 3747 8.842358 TCATTTACTTCGGTTTTCTAGTTGAT 57.158 30.769 0.00 0.00 0.00 2.57
3533 3758 7.827236 TCATGTTTCCTATCATTTACTTCGGTT 59.173 33.333 0.00 0.00 0.00 4.44
3715 4090 0.318441 CAGCTTTCGTCAGACCCTCA 59.682 55.000 0.00 0.00 0.00 3.86
3829 4204 0.459237 CGTCATCAGACTGGGAGCAC 60.459 60.000 1.81 0.00 42.73 4.40
3832 4207 1.546029 TGTTCGTCATCAGACTGGGAG 59.454 52.381 1.81 0.00 42.73 4.30
4015 4391 3.765511 AGGACATGTATGCAGCACATTTT 59.234 39.130 12.73 4.87 40.38 1.82
4030 4406 4.968812 TGCAACATGATAACAGGACATG 57.031 40.909 0.00 0.00 44.42 3.21
4054 4430 0.375454 TCACGCAACCTTGTTTCACG 59.625 50.000 0.00 0.00 0.00 4.35
4058 4434 2.571212 TGATCTCACGCAACCTTGTTT 58.429 42.857 0.00 0.00 0.00 2.83
4070 4446 9.243637 GAACTTGACAACTATAGATGATCTCAC 57.756 37.037 16.18 2.45 0.00 3.51
4084 4460 3.319972 TGCCTACTACGAACTTGACAACT 59.680 43.478 0.00 0.00 0.00 3.16
4174 4552 4.984161 AGACACAATTGCTGCAATTACAAC 59.016 37.500 32.88 24.24 41.40 3.32
4233 4611 1.877443 GTGTAACAGTTCCACGCCATT 59.123 47.619 0.00 0.00 36.32 3.16
4273 4651 5.836898 TCGGTATATCCACTAATCACCACTT 59.163 40.000 0.00 0.00 35.57 3.16
4303 4681 7.841956 TGGACTTCCACAAACAAGATTAAAAA 58.158 30.769 0.00 0.00 42.01 1.94
4304 4682 7.411486 TGGACTTCCACAAACAAGATTAAAA 57.589 32.000 0.00 0.00 42.01 1.52
4320 4698 3.642778 TAGCTGCGCGTGGACTTCC 62.643 63.158 8.43 0.00 0.00 3.46
4321 4699 2.126071 TAGCTGCGCGTGGACTTC 60.126 61.111 8.43 0.00 0.00 3.01
4322 4700 2.432628 GTAGCTGCGCGTGGACTT 60.433 61.111 8.43 0.00 0.00 3.01
4323 4701 3.343788 GAGTAGCTGCGCGTGGACT 62.344 63.158 8.43 3.42 0.00 3.85
4324 4702 2.881352 GAGTAGCTGCGCGTGGAC 60.881 66.667 8.43 0.00 0.00 4.02
4325 4703 4.129737 GGAGTAGCTGCGCGTGGA 62.130 66.667 8.43 0.00 0.00 4.02
4326 4704 4.435436 TGGAGTAGCTGCGCGTGG 62.435 66.667 8.43 1.49 0.00 4.94
4327 4705 2.882777 CTGGAGTAGCTGCGCGTG 60.883 66.667 8.43 1.88 0.00 5.34
4362 4740 3.119849 ACCACTTGAATGAAGCAATACGC 60.120 43.478 0.00 0.00 42.91 4.42
4363 4741 4.154015 TCACCACTTGAATGAAGCAATACG 59.846 41.667 0.00 0.00 34.68 3.06
4364 4742 5.627499 TCACCACTTGAATGAAGCAATAC 57.373 39.130 0.00 0.00 34.68 1.89
4365 4743 6.839124 AATCACCACTTGAATGAAGCAATA 57.161 33.333 0.00 0.00 37.92 1.90
4366 4744 5.733620 AATCACCACTTGAATGAAGCAAT 57.266 34.783 0.00 0.00 37.92 3.56
4367 4745 5.769662 ACTAATCACCACTTGAATGAAGCAA 59.230 36.000 0.00 0.00 37.92 3.91
4368 4746 5.181811 CACTAATCACCACTTGAATGAAGCA 59.818 40.000 0.00 0.00 37.92 3.91
4369 4747 5.392380 CCACTAATCACCACTTGAATGAAGC 60.392 44.000 0.00 0.00 37.92 3.86
4370 4748 5.939883 TCCACTAATCACCACTTGAATGAAG 59.060 40.000 0.00 0.00 37.92 3.02
4371 4749 5.875224 TCCACTAATCACCACTTGAATGAA 58.125 37.500 0.00 0.00 37.92 2.57
4372 4750 5.497464 TCCACTAATCACCACTTGAATGA 57.503 39.130 0.00 0.00 37.92 2.57
4373 4751 8.993121 GTATATCCACTAATCACCACTTGAATG 58.007 37.037 0.00 0.00 37.92 2.67
4374 4752 8.157476 GGTATATCCACTAATCACCACTTGAAT 58.843 37.037 0.00 0.00 35.28 2.57
4375 4753 7.506114 GGTATATCCACTAATCACCACTTGAA 58.494 38.462 0.00 0.00 35.28 2.69
4376 4754 6.239204 CGGTATATCCACTAATCACCACTTGA 60.239 42.308 0.00 0.00 35.58 3.02
4377 4755 5.926542 CGGTATATCCACTAATCACCACTTG 59.073 44.000 0.00 0.00 35.57 3.16
4378 4756 5.836898 TCGGTATATCCACTAATCACCACTT 59.163 40.000 0.00 0.00 35.57 3.16
4379 4757 5.391256 TCGGTATATCCACTAATCACCACT 58.609 41.667 0.00 0.00 35.57 4.00
4380 4758 5.717078 TCGGTATATCCACTAATCACCAC 57.283 43.478 0.00 0.00 35.57 4.16
4381 4759 5.778241 ACATCGGTATATCCACTAATCACCA 59.222 40.000 0.00 0.00 35.57 4.17
4382 4760 6.282199 ACATCGGTATATCCACTAATCACC 57.718 41.667 0.00 0.00 35.57 4.02
4383 4761 8.603242 AAAACATCGGTATATCCACTAATCAC 57.397 34.615 0.00 0.00 35.57 3.06
4541 4919 0.328258 CTTGGACGGATCCCCAAAGT 59.672 55.000 19.47 6.45 45.59 2.66
4553 4931 1.344942 GCAGCTGTACGACTTGGACG 61.345 60.000 16.64 0.00 0.00 4.79
4586 4972 1.168714 AAGGTGCGCAGAATCCTTTC 58.831 50.000 20.87 2.45 37.01 2.62
4713 5101 9.521841 TCATTTTGTGTGTATTATACCCTCAAA 57.478 29.630 9.68 9.68 0.00 2.69
4714 5102 9.693739 ATCATTTTGTGTGTATTATACCCTCAA 57.306 29.630 0.00 0.00 0.00 3.02
4722 5110 9.561069 GAGGGAGTATCATTTTGTGTGTATTAT 57.439 33.333 0.00 0.00 36.25 1.28
4723 5111 8.544622 TGAGGGAGTATCATTTTGTGTGTATTA 58.455 33.333 0.00 0.00 36.25 0.98
4724 5112 7.402054 TGAGGGAGTATCATTTTGTGTGTATT 58.598 34.615 0.00 0.00 36.25 1.89
4725 5113 6.957631 TGAGGGAGTATCATTTTGTGTGTAT 58.042 36.000 0.00 0.00 36.25 2.29
4726 5114 6.013725 ACTGAGGGAGTATCATTTTGTGTGTA 60.014 38.462 0.00 0.00 36.25 2.90
4727 5115 5.221925 ACTGAGGGAGTATCATTTTGTGTGT 60.222 40.000 0.00 0.00 36.25 3.72
4728 5116 5.248640 ACTGAGGGAGTATCATTTTGTGTG 58.751 41.667 0.00 0.00 36.25 3.82
4729 5117 5.505181 ACTGAGGGAGTATCATTTTGTGT 57.495 39.130 0.00 0.00 36.25 3.72
4730 5118 5.355350 GGAACTGAGGGAGTATCATTTTGTG 59.645 44.000 0.00 0.00 36.25 3.33
4731 5119 5.501156 GGAACTGAGGGAGTATCATTTTGT 58.499 41.667 0.00 0.00 36.25 2.83
4732 5120 4.572389 CGGAACTGAGGGAGTATCATTTTG 59.428 45.833 0.00 0.00 36.25 2.44
4733 5121 4.469945 TCGGAACTGAGGGAGTATCATTTT 59.530 41.667 0.00 0.00 36.25 1.82
4734 5122 4.030913 TCGGAACTGAGGGAGTATCATTT 58.969 43.478 0.00 0.00 36.25 2.32
4735 5123 3.643237 TCGGAACTGAGGGAGTATCATT 58.357 45.455 0.00 0.00 36.25 2.57
4736 5124 3.314307 TCGGAACTGAGGGAGTATCAT 57.686 47.619 0.00 0.00 36.25 2.45
4737 5125 2.820728 TCGGAACTGAGGGAGTATCA 57.179 50.000 0.00 0.00 36.25 2.15
4738 5126 4.674281 ATTTCGGAACTGAGGGAGTATC 57.326 45.455 0.00 0.00 33.09 2.24
4739 5127 7.011382 ACTATATTTCGGAACTGAGGGAGTAT 58.989 38.462 0.00 0.00 33.09 2.12
4740 5128 6.264744 CACTATATTTCGGAACTGAGGGAGTA 59.735 42.308 0.00 0.00 33.09 2.59
4741 5129 5.069251 CACTATATTTCGGAACTGAGGGAGT 59.931 44.000 0.00 0.00 35.94 3.85
4742 5130 5.069251 ACACTATATTTCGGAACTGAGGGAG 59.931 44.000 0.00 0.00 0.00 4.30
4743 5131 4.960469 ACACTATATTTCGGAACTGAGGGA 59.040 41.667 0.00 0.00 0.00 4.20
4744 5132 5.277857 ACACTATATTTCGGAACTGAGGG 57.722 43.478 0.00 0.00 0.00 4.30
4745 5133 6.258068 GGAAACACTATATTTCGGAACTGAGG 59.742 42.308 0.00 0.00 37.00 3.86
4746 5134 7.042335 AGGAAACACTATATTTCGGAACTGAG 58.958 38.462 0.00 0.00 37.00 3.35
4747 5135 6.942976 AGGAAACACTATATTTCGGAACTGA 58.057 36.000 0.00 0.00 37.00 3.41
4748 5136 7.611213 AAGGAAACACTATATTTCGGAACTG 57.389 36.000 0.00 0.00 37.00 3.16
4749 5137 9.901172 ATAAAGGAAACACTATATTTCGGAACT 57.099 29.630 0.00 0.00 37.00 3.01
4752 5140 9.333724 GGAATAAAGGAAACACTATATTTCGGA 57.666 33.333 0.00 0.00 37.00 4.55
4753 5141 8.565416 GGGAATAAAGGAAACACTATATTTCGG 58.435 37.037 0.00 0.00 37.00 4.30
4754 5142 8.280497 CGGGAATAAAGGAAACACTATATTTCG 58.720 37.037 0.00 0.00 37.00 3.46
4755 5143 9.117183 ACGGGAATAAAGGAAACACTATATTTC 57.883 33.333 0.00 0.00 35.67 2.17
4756 5144 8.899771 CACGGGAATAAAGGAAACACTATATTT 58.100 33.333 0.00 0.00 0.00 1.40
4757 5145 7.012989 GCACGGGAATAAAGGAAACACTATATT 59.987 37.037 0.00 0.00 0.00 1.28
4758 5146 6.485648 GCACGGGAATAAAGGAAACACTATAT 59.514 38.462 0.00 0.00 0.00 0.86
4759 5147 5.818857 GCACGGGAATAAAGGAAACACTATA 59.181 40.000 0.00 0.00 0.00 1.31
4760 5148 4.638865 GCACGGGAATAAAGGAAACACTAT 59.361 41.667 0.00 0.00 0.00 2.12
4761 5149 4.004982 GCACGGGAATAAAGGAAACACTA 58.995 43.478 0.00 0.00 0.00 2.74
4762 5150 2.817844 GCACGGGAATAAAGGAAACACT 59.182 45.455 0.00 0.00 0.00 3.55
4763 5151 2.817844 AGCACGGGAATAAAGGAAACAC 59.182 45.455 0.00 0.00 0.00 3.32
4764 5152 3.149005 AGCACGGGAATAAAGGAAACA 57.851 42.857 0.00 0.00 0.00 2.83
4765 5153 3.504520 TGAAGCACGGGAATAAAGGAAAC 59.495 43.478 0.00 0.00 0.00 2.78
4766 5154 3.757270 TGAAGCACGGGAATAAAGGAAA 58.243 40.909 0.00 0.00 0.00 3.13
4767 5155 3.426787 TGAAGCACGGGAATAAAGGAA 57.573 42.857 0.00 0.00 0.00 3.36
4768 5156 3.078837 GTTGAAGCACGGGAATAAAGGA 58.921 45.455 0.00 0.00 0.00 3.36
4769 5157 3.081804 AGTTGAAGCACGGGAATAAAGG 58.918 45.455 0.00 0.00 0.00 3.11
4770 5158 4.766404 AAGTTGAAGCACGGGAATAAAG 57.234 40.909 0.00 0.00 0.00 1.85
4771 5159 4.580995 TCAAAGTTGAAGCACGGGAATAAA 59.419 37.500 0.00 0.00 33.55 1.40
4772 5160 4.023536 GTCAAAGTTGAAGCACGGGAATAA 60.024 41.667 0.00 0.00 39.21 1.40
4773 5161 3.500680 GTCAAAGTTGAAGCACGGGAATA 59.499 43.478 0.00 0.00 39.21 1.75
4774 5162 2.293399 GTCAAAGTTGAAGCACGGGAAT 59.707 45.455 0.00 0.00 39.21 3.01
4775 5163 1.673920 GTCAAAGTTGAAGCACGGGAA 59.326 47.619 0.00 0.00 39.21 3.97
4776 5164 1.305201 GTCAAAGTTGAAGCACGGGA 58.695 50.000 0.00 0.00 39.21 5.14
4777 5165 0.310854 GGTCAAAGTTGAAGCACGGG 59.689 55.000 0.00 0.00 39.21 5.28
4778 5166 1.021202 TGGTCAAAGTTGAAGCACGG 58.979 50.000 0.00 0.00 39.21 4.94
4779 5167 4.481930 TTATGGTCAAAGTTGAAGCACG 57.518 40.909 0.00 0.00 39.21 5.34
4780 5168 7.713764 AAATTTATGGTCAAAGTTGAAGCAC 57.286 32.000 0.00 0.00 39.21 4.40
4781 5169 9.995003 ATTAAATTTATGGTCAAAGTTGAAGCA 57.005 25.926 0.00 0.00 39.21 3.91
4791 5179 9.921637 GGTCTTGTTGATTAAATTTATGGTCAA 57.078 29.630 13.07 13.07 0.00 3.18
4792 5180 9.083422 TGGTCTTGTTGATTAAATTTATGGTCA 57.917 29.630 0.00 2.14 0.00 4.02
4793 5181 9.921637 TTGGTCTTGTTGATTAAATTTATGGTC 57.078 29.630 0.00 0.00 0.00 4.02
4794 5182 9.705290 GTTGGTCTTGTTGATTAAATTTATGGT 57.295 29.630 0.00 0.00 0.00 3.55
4795 5183 9.927668 AGTTGGTCTTGTTGATTAAATTTATGG 57.072 29.630 0.00 0.00 0.00 2.74
4797 5185 9.423061 GCAGTTGGTCTTGTTGATTAAATTTAT 57.577 29.630 0.00 0.00 0.00 1.40
4798 5186 7.593273 CGCAGTTGGTCTTGTTGATTAAATTTA 59.407 33.333 0.00 0.00 0.00 1.40
4799 5187 6.420604 CGCAGTTGGTCTTGTTGATTAAATTT 59.579 34.615 0.00 0.00 0.00 1.82
4800 5188 5.920273 CGCAGTTGGTCTTGTTGATTAAATT 59.080 36.000 0.00 0.00 0.00 1.82
4801 5189 5.460646 CGCAGTTGGTCTTGTTGATTAAAT 58.539 37.500 0.00 0.00 0.00 1.40
4802 5190 4.261405 CCGCAGTTGGTCTTGTTGATTAAA 60.261 41.667 0.00 0.00 0.00 1.52
4803 5191 3.252215 CCGCAGTTGGTCTTGTTGATTAA 59.748 43.478 0.00 0.00 0.00 1.40
4804 5192 2.811431 CCGCAGTTGGTCTTGTTGATTA 59.189 45.455 0.00 0.00 0.00 1.75
4805 5193 1.608590 CCGCAGTTGGTCTTGTTGATT 59.391 47.619 0.00 0.00 0.00 2.57
4806 5194 1.238439 CCGCAGTTGGTCTTGTTGAT 58.762 50.000 0.00 0.00 0.00 2.57
4807 5195 1.444119 GCCGCAGTTGGTCTTGTTGA 61.444 55.000 0.00 0.00 0.00 3.18
4808 5196 1.008538 GCCGCAGTTGGTCTTGTTG 60.009 57.895 0.00 0.00 0.00 3.33
4809 5197 2.542907 CGCCGCAGTTGGTCTTGTT 61.543 57.895 0.00 0.00 0.00 2.83
4810 5198 2.972505 CGCCGCAGTTGGTCTTGT 60.973 61.111 0.00 0.00 0.00 3.16
4811 5199 3.726517 CCGCCGCAGTTGGTCTTG 61.727 66.667 0.00 0.00 0.00 3.02
4821 5209 4.997580 TATAATTTTCGCTCCCGCCGCA 62.998 50.000 0.00 0.00 0.00 5.69
4822 5210 1.782028 ATAATTTTCGCTCCCGCCGC 61.782 55.000 0.00 0.00 0.00 6.53
4823 5211 1.504359 TATAATTTTCGCTCCCGCCG 58.496 50.000 0.00 0.00 0.00 6.46
4824 5212 3.071479 TGATATAATTTTCGCTCCCGCC 58.929 45.455 0.00 0.00 0.00 6.13
4825 5213 3.746492 ACTGATATAATTTTCGCTCCCGC 59.254 43.478 0.00 0.00 0.00 6.13
4826 5214 4.988540 TCACTGATATAATTTTCGCTCCCG 59.011 41.667 0.00 0.00 0.00 5.14
4827 5215 6.861065 TTCACTGATATAATTTTCGCTCCC 57.139 37.500 0.00 0.00 0.00 4.30
4828 5216 7.742089 CGAATTCACTGATATAATTTTCGCTCC 59.258 37.037 6.22 0.00 0.00 4.70
4829 5217 8.276325 ACGAATTCACTGATATAATTTTCGCTC 58.724 33.333 6.22 0.00 37.53 5.03
4830 5218 8.142994 ACGAATTCACTGATATAATTTTCGCT 57.857 30.769 6.22 0.00 37.53 4.93
4885 5273 0.388907 CGACTACGGCGGGAGAAAAA 60.389 55.000 13.24 0.00 35.72 1.94
4886 5274 1.213537 CGACTACGGCGGGAGAAAA 59.786 57.895 13.24 0.00 35.72 2.29
4887 5275 2.879907 CGACTACGGCGGGAGAAA 59.120 61.111 13.24 0.00 35.72 2.52


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

AutoCloner maintained by Alex Coulton.