Multiple sequence alignment - TraesCS1A01G139200

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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 TraesCS1A01G139200 chr1A 100.000 5000 0 0 1 5000 234795415 234800414 0.000000e+00 9234.0
1 TraesCS1A01G139200 chr1A 95.817 765 30 2 4236 5000 513126747 513127509 0.000000e+00 1234.0
2 TraesCS1A01G139200 chr1A 95.703 768 25 2 4236 5000 15631116 15631878 0.000000e+00 1229.0
3 TraesCS1A01G139200 chr1A 99.231 130 1 0 4092 4221 4327535 4327664 8.370000e-58 235.0
4 TraesCS1A01G139200 chr1A 98.450 129 1 1 4093 4221 4322114 4322241 5.040000e-55 226.0
5 TraesCS1A01G139200 chr1D 94.949 2554 77 17 76 2620 159902246 159904756 0.000000e+00 3954.0
6 TraesCS1A01G139200 chr1D 97.085 1475 34 5 2624 4093 159904867 159906337 0.000000e+00 2477.0
7 TraesCS1A01G139200 chr1D 82.182 275 39 7 434 702 288890873 288891143 1.400000e-55 228.0
8 TraesCS1A01G139200 chr1D 93.750 80 5 0 1 80 159902125 159902204 2.440000e-23 121.0
9 TraesCS1A01G139200 chr1B 94.490 1470 42 13 750 2211 223151054 223149616 0.000000e+00 2230.0
10 TraesCS1A01G139200 chr1B 96.886 1156 25 6 2945 4090 223146670 223145516 0.000000e+00 1925.0
11 TraesCS1A01G139200 chr1B 89.589 682 57 11 76 753 223166013 223165342 0.000000e+00 854.0
12 TraesCS1A01G139200 chr1B 93.060 317 15 3 2632 2947 223148529 223148219 1.640000e-124 457.0
13 TraesCS1A01G139200 chr1B 98.086 209 4 0 2269 2477 223149018 223148810 1.020000e-96 364.0
14 TraesCS1A01G139200 chr1B 96.324 136 5 0 4086 4221 150780440 150780575 1.810000e-54 224.0
15 TraesCS1A01G139200 chr1B 90.361 166 5 6 2456 2620 223148784 223148629 1.820000e-49 207.0
16 TraesCS1A01G139200 chr7A 96.094 768 27 1 4236 5000 664278677 664277910 0.000000e+00 1249.0
17 TraesCS1A01G139200 chr7A 95.652 138 6 0 4084 4221 714725250 714725113 6.510000e-54 222.0
18 TraesCS1A01G139200 chr7A 95.652 138 6 0 4084 4221 714731331 714731194 6.510000e-54 222.0
19 TraesCS1A01G139200 chr7A 87.037 54 3 4 2876 2927 379030482 379030533 1.940000e-04 58.4
20 TraesCS1A01G139200 chr3B 95.839 769 27 3 4236 5000 730290316 730291083 0.000000e+00 1238.0
21 TraesCS1A01G139200 chr3B 95.833 768 29 1 4236 5000 781751884 781752651 0.000000e+00 1238.0
22 TraesCS1A01G139200 chr2A 95.937 763 29 2 4238 5000 744950214 744950974 0.000000e+00 1236.0
23 TraesCS1A01G139200 chr2A 80.901 466 82 6 3497 3960 6510824 6511284 1.320000e-95 361.0
24 TraesCS1A01G139200 chr5A 95.948 765 24 3 4236 5000 74936084 74935327 0.000000e+00 1234.0
25 TraesCS1A01G139200 chr5A 75.181 415 77 12 317 714 567254872 567255277 6.650000e-39 172.0
26 TraesCS1A01G139200 chr5A 77.703 148 23 4 574 712 17226636 17226782 1.150000e-11 82.4
27 TraesCS1A01G139200 chr2B 95.686 765 33 0 4236 5000 475750056 475749292 0.000000e+00 1230.0
28 TraesCS1A01G139200 chr2B 81.290 465 75 9 3497 3957 454825142 454825598 2.840000e-97 366.0
29 TraesCS1A01G139200 chrUn 95.703 768 25 2 4236 5000 240452520 240453282 0.000000e+00 1229.0
30 TraesCS1A01G139200 chrUn 96.992 133 3 1 4090 4221 183976787 183976655 6.510000e-54 222.0
31 TraesCS1A01G139200 chrUn 100.000 28 0 0 2876 2903 267213658 267213685 9.000000e-03 52.8
32 TraesCS1A01G139200 chr4A 84.582 467 63 6 3501 3964 559068227 559067767 5.900000e-124 455.0
33 TraesCS1A01G139200 chr4A 95.683 139 4 2 4083 4221 36284371 36284235 6.510000e-54 222.0
34 TraesCS1A01G139200 chr4D 82.553 470 72 7 3501 3967 40568140 40567678 6.030000e-109 405.0
35 TraesCS1A01G139200 chr4B 82.441 467 73 6 3501 3964 59236739 59236279 2.800000e-107 399.0
36 TraesCS1A01G139200 chr4B 83.673 343 52 3 3623 3964 59227173 59226834 2.250000e-83 320.0
37 TraesCS1A01G139200 chr6A 97.692 130 3 0 4092 4221 36095479 36095608 1.810000e-54 224.0
38 TraesCS1A01G139200 chr6A 76.923 169 32 6 538 702 184713434 184713599 6.890000e-14 89.8
39 TraesCS1A01G139200 chr3A 93.750 144 9 0 4078 4221 363433663 363433520 3.030000e-52 217.0


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 TraesCS1A01G139200 chr1A 234795415 234800414 4999 False 9234.0 9234 100.000000 1 5000 1 chr1A.!!$F4 4999
1 TraesCS1A01G139200 chr1A 513126747 513127509 762 False 1234.0 1234 95.817000 4236 5000 1 chr1A.!!$F5 764
2 TraesCS1A01G139200 chr1A 15631116 15631878 762 False 1229.0 1229 95.703000 4236 5000 1 chr1A.!!$F3 764
3 TraesCS1A01G139200 chr1D 159902125 159906337 4212 False 2184.0 3954 95.261333 1 4093 3 chr1D.!!$F2 4092
4 TraesCS1A01G139200 chr1B 223145516 223151054 5538 True 1036.6 2230 94.576600 750 4090 5 chr1B.!!$R2 3340
5 TraesCS1A01G139200 chr1B 223165342 223166013 671 True 854.0 854 89.589000 76 753 1 chr1B.!!$R1 677
6 TraesCS1A01G139200 chr7A 664277910 664278677 767 True 1249.0 1249 96.094000 4236 5000 1 chr7A.!!$R1 764
7 TraesCS1A01G139200 chr3B 730290316 730291083 767 False 1238.0 1238 95.839000 4236 5000 1 chr3B.!!$F1 764
8 TraesCS1A01G139200 chr3B 781751884 781752651 767 False 1238.0 1238 95.833000 4236 5000 1 chr3B.!!$F2 764
9 TraesCS1A01G139200 chr2A 744950214 744950974 760 False 1236.0 1236 95.937000 4238 5000 1 chr2A.!!$F2 762
10 TraesCS1A01G139200 chr5A 74935327 74936084 757 True 1234.0 1234 95.948000 4236 5000 1 chr5A.!!$R1 764
11 TraesCS1A01G139200 chr2B 475749292 475750056 764 True 1230.0 1230 95.686000 4236 5000 1 chr2B.!!$R1 764
12 TraesCS1A01G139200 chrUn 240452520 240453282 762 False 1229.0 1229 95.703000 4236 5000 1 chrUn.!!$F1 764

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
142 191 0.477597 TCATGGACCCCAGGGAAGTT 60.478 55.0 7.25 0.00 36.75 2.66 F
1022 1082 0.959372 GAGTCATTGCTGGCAGCTGT 60.959 55.0 36.50 23.44 42.97 4.40 F
2016 2090 0.337428 AGGGGTATACGGTGTCAGGT 59.663 55.0 0.00 0.00 0.00 4.00 F
2134 2208 1.619654 TGCTGCATAACAAAGTGGCT 58.380 45.0 0.00 0.00 0.00 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 1835 0.108186 CGTCCACTCCTTGCATGCTA 60.108 55.000 20.33 10.88 0.00 3.49 R
2941 3713 1.463444 CGGCCGTATAGCTATTTTGGC 59.537 52.381 24.53 24.53 40.25 4.52 R
3017 5339 1.864711 GTTAAAGACTCGTGCAGTGCA 59.135 47.619 15.37 15.37 34.41 4.57 R
4093 6423 1.562942 AGCCCATCTCAGATTTCAGCA 59.437 47.619 0.00 0.00 0.00 4.41 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
71 72 3.367743 ACTAGCGACGCAACCCGA 61.368 61.111 23.70 0.00 41.02 5.14
142 191 0.477597 TCATGGACCCCAGGGAAGTT 60.478 55.000 7.25 0.00 36.75 2.66
283 333 2.997897 AGGCTCTCGGAAAGCGGT 60.998 61.111 0.00 0.00 40.77 5.68
905 965 1.608590 CGACTCAACCCAAAAGCACAT 59.391 47.619 0.00 0.00 0.00 3.21
1022 1082 0.959372 GAGTCATTGCTGGCAGCTGT 60.959 55.000 36.50 23.44 42.97 4.40
1518 1578 2.753043 GCCACTGGGATGGTGCAG 60.753 66.667 0.00 0.00 42.28 4.41
1664 1724 1.152943 GCAAGGTTAGCCCCTAGCC 60.153 63.158 0.00 0.00 45.47 3.93
1739 1801 4.411927 AGCATCCCCACTACTAGTATCAG 58.588 47.826 2.33 0.00 0.00 2.90
1740 1802 4.106502 AGCATCCCCACTACTAGTATCAGA 59.893 45.833 2.33 0.00 0.00 3.27
1741 1803 4.833380 GCATCCCCACTACTAGTATCAGAA 59.167 45.833 2.33 0.00 0.00 3.02
1742 1804 5.304614 GCATCCCCACTACTAGTATCAGAAA 59.695 44.000 2.33 0.00 0.00 2.52
1743 1805 6.014156 GCATCCCCACTACTAGTATCAGAAAT 60.014 42.308 2.33 0.00 0.00 2.17
1744 1806 7.473511 GCATCCCCACTACTAGTATCAGAAATT 60.474 40.741 2.33 0.00 0.00 1.82
1745 1807 7.598759 TCCCCACTACTAGTATCAGAAATTC 57.401 40.000 2.33 0.00 0.00 2.17
1746 1808 7.130099 TCCCCACTACTAGTATCAGAAATTCA 58.870 38.462 2.33 0.00 0.00 2.57
1771 1833 6.267471 AGAATCAACTTTGGATGGTTTAGCAA 59.733 34.615 0.00 0.00 0.00 3.91
1772 1834 6.610075 ATCAACTTTGGATGGTTTAGCAAT 57.390 33.333 0.00 0.00 0.00 3.56
1773 1835 6.418057 TCAACTTTGGATGGTTTAGCAATT 57.582 33.333 0.00 0.00 0.00 2.32
1774 1836 7.531857 TCAACTTTGGATGGTTTAGCAATTA 57.468 32.000 0.00 0.00 0.00 1.40
1775 1837 7.601856 TCAACTTTGGATGGTTTAGCAATTAG 58.398 34.615 0.00 0.00 0.00 1.73
1776 1838 5.965922 ACTTTGGATGGTTTAGCAATTAGC 58.034 37.500 0.00 0.00 46.19 3.09
1909 1983 3.056607 AGAGTTGCAATTTTAAGGCGCAT 60.057 39.130 10.83 0.00 31.67 4.73
2016 2090 0.337428 AGGGGTATACGGTGTCAGGT 59.663 55.000 0.00 0.00 0.00 4.00
2134 2208 1.619654 TGCTGCATAACAAAGTGGCT 58.380 45.000 0.00 0.00 0.00 4.75
2149 2223 7.802738 ACAAAGTGGCTCAAAAGTTTAAAAAC 58.197 30.769 0.00 0.00 39.17 2.43
2241 2330 5.696724 CGTGGATTAAGGTAAGGTGATCATC 59.303 44.000 0.00 0.00 0.00 2.92
2282 2897 9.668497 CTAGGTTAGGCTCAAAATTAGTTACTT 57.332 33.333 0.00 0.00 0.00 2.24
2535 3199 3.286329 AAGTCCGTAAGTGGTGGTTTT 57.714 42.857 0.00 0.00 0.00 2.43
2550 3214 6.001460 TGGTGGTTTTGATTTACTACTCCTG 58.999 40.000 0.00 0.00 0.00 3.86
2551 3215 6.002082 GGTGGTTTTGATTTACTACTCCTGT 58.998 40.000 0.00 0.00 0.00 4.00
2552 3216 7.163441 GGTGGTTTTGATTTACTACTCCTGTA 58.837 38.462 0.00 0.00 0.00 2.74
2658 3430 4.056050 CAAGGTACAGTTAGGACACACAC 58.944 47.826 0.00 0.00 0.00 3.82
2734 3506 2.421388 GGTAGATAGTGCATGCCCACAA 60.421 50.000 16.68 0.00 38.18 3.33
2797 3569 5.010415 ACGAAATACCTTTCCTACGGGATAG 59.990 44.000 0.00 0.00 41.87 2.08
2834 3606 5.990996 AGTCACGAGATAGCTAAGTACTACC 59.009 44.000 0.00 0.00 0.00 3.18
2839 3611 5.179742 CGAGATAGCTAAGTACTACCCACTG 59.820 48.000 0.00 0.00 0.00 3.66
2940 3712 4.235360 CGTGTTTGGTGTTTGGTGTTAAA 58.765 39.130 0.00 0.00 0.00 1.52
2941 3713 4.324936 CGTGTTTGGTGTTTGGTGTTAAAG 59.675 41.667 0.00 0.00 0.00 1.85
2943 3715 3.528597 TTGGTGTTTGGTGTTAAAGCC 57.471 42.857 0.00 0.00 0.00 4.35
3017 5339 5.799936 GCACGTGATTAATGCATTTTAGTGT 59.200 36.000 22.23 7.12 39.23 3.55
3046 5375 4.148348 GCACGAGTCTTTAACAGTACAGTG 59.852 45.833 0.00 0.00 0.00 3.66
3088 5417 4.787260 TGTGGAATTGATGAACATGGTG 57.213 40.909 0.00 0.00 0.00 4.17
3324 5653 3.117372 CCCTGGGTCTACTACGCG 58.883 66.667 3.53 3.53 43.79 6.01
3513 5842 3.194329 CACTGTCAAGGCTGTCTGAGATA 59.806 47.826 0.00 0.00 0.00 1.98
3990 6319 1.126846 GACGTCAAGCCGATGAACAAG 59.873 52.381 11.55 0.00 34.46 3.16
4012 6341 3.546815 GGCACGCTAGCTAAATGAATGTG 60.547 47.826 13.93 10.80 34.17 3.21
4035 6365 1.823899 CCCCGTGGCTAATTCTGGC 60.824 63.158 0.00 0.00 0.00 4.85
4093 6423 2.291475 TGTGTGGGTGGATGTGCATATT 60.291 45.455 0.00 0.00 0.00 1.28
4094 6424 2.099592 GTGTGGGTGGATGTGCATATTG 59.900 50.000 0.00 0.00 0.00 1.90
4095 6425 1.067516 GTGGGTGGATGTGCATATTGC 59.932 52.381 0.00 0.00 45.29 3.56
4096 6426 1.063792 TGGGTGGATGTGCATATTGCT 60.064 47.619 0.00 0.00 45.31 3.91
4097 6427 1.338973 GGGTGGATGTGCATATTGCTG 59.661 52.381 0.00 0.00 45.31 4.41
4098 6428 2.300433 GGTGGATGTGCATATTGCTGA 58.700 47.619 0.00 0.00 45.31 4.26
4099 6429 2.689471 GGTGGATGTGCATATTGCTGAA 59.311 45.455 0.00 0.00 45.31 3.02
4100 6430 3.130869 GGTGGATGTGCATATTGCTGAAA 59.869 43.478 0.00 0.00 45.31 2.69
4101 6431 4.202182 GGTGGATGTGCATATTGCTGAAAT 60.202 41.667 0.00 0.00 45.31 2.17
4102 6432 4.980434 GTGGATGTGCATATTGCTGAAATC 59.020 41.667 0.00 0.00 45.31 2.17
4103 6433 4.891168 TGGATGTGCATATTGCTGAAATCT 59.109 37.500 0.00 0.00 45.31 2.40
4104 6434 5.220381 GGATGTGCATATTGCTGAAATCTG 58.780 41.667 0.00 0.00 45.31 2.90
4105 6435 5.009310 GGATGTGCATATTGCTGAAATCTGA 59.991 40.000 0.00 0.00 45.31 3.27
4106 6436 5.494632 TGTGCATATTGCTGAAATCTGAG 57.505 39.130 0.00 0.00 45.31 3.35
4107 6437 5.187687 TGTGCATATTGCTGAAATCTGAGA 58.812 37.500 0.00 0.00 45.31 3.27
4108 6438 5.826208 TGTGCATATTGCTGAAATCTGAGAT 59.174 36.000 0.00 0.00 45.31 2.75
4109 6439 6.143496 GTGCATATTGCTGAAATCTGAGATG 58.857 40.000 0.00 0.00 45.31 2.90
4110 6440 5.240844 TGCATATTGCTGAAATCTGAGATGG 59.759 40.000 0.00 0.00 45.31 3.51
4111 6441 5.335740 GCATATTGCTGAAATCTGAGATGGG 60.336 44.000 0.00 0.00 40.96 4.00
4112 6442 2.048444 TGCTGAAATCTGAGATGGGC 57.952 50.000 0.00 0.00 0.00 5.36
4113 6443 1.562942 TGCTGAAATCTGAGATGGGCT 59.437 47.619 0.00 0.00 0.00 5.19
4114 6444 2.220313 GCTGAAATCTGAGATGGGCTC 58.780 52.381 0.00 0.00 44.21 4.70
4115 6445 2.158784 GCTGAAATCTGAGATGGGCTCT 60.159 50.000 0.00 0.00 44.27 4.09
4116 6446 3.070734 GCTGAAATCTGAGATGGGCTCTA 59.929 47.826 0.00 0.00 44.27 2.43
4117 6447 4.800249 GCTGAAATCTGAGATGGGCTCTAG 60.800 50.000 0.00 0.00 44.27 2.43
4118 6448 3.645212 TGAAATCTGAGATGGGCTCTAGG 59.355 47.826 0.00 0.00 44.27 3.02
4119 6449 1.643310 ATCTGAGATGGGCTCTAGGC 58.357 55.000 0.00 0.00 44.27 3.93
4130 6460 2.276732 GCTCTAGGCCCATATTGCAA 57.723 50.000 0.00 0.00 34.27 4.08
4131 6461 2.800250 GCTCTAGGCCCATATTGCAAT 58.200 47.619 17.56 17.56 34.27 3.56
4132 6462 3.160269 GCTCTAGGCCCATATTGCAATT 58.840 45.455 18.75 2.72 34.27 2.32
4133 6463 3.575687 GCTCTAGGCCCATATTGCAATTT 59.424 43.478 18.75 6.94 34.27 1.82
4134 6464 4.321527 GCTCTAGGCCCATATTGCAATTTC 60.322 45.833 18.75 2.72 34.27 2.17
4135 6465 5.065613 TCTAGGCCCATATTGCAATTTCT 57.934 39.130 18.75 5.72 0.00 2.52
4136 6466 4.828939 TCTAGGCCCATATTGCAATTTCTG 59.171 41.667 18.75 12.47 0.00 3.02
4137 6467 3.645434 AGGCCCATATTGCAATTTCTGA 58.355 40.909 18.75 0.00 0.00 3.27
4138 6468 4.032310 AGGCCCATATTGCAATTTCTGAA 58.968 39.130 18.75 0.00 0.00 3.02
4139 6469 4.470664 AGGCCCATATTGCAATTTCTGAAA 59.529 37.500 18.75 5.15 0.00 2.69
4140 6470 5.045724 AGGCCCATATTGCAATTTCTGAAAA 60.046 36.000 18.75 0.00 0.00 2.29
4141 6471 5.647225 GGCCCATATTGCAATTTCTGAAAAA 59.353 36.000 18.75 0.00 0.00 1.94
4142 6472 6.319405 GGCCCATATTGCAATTTCTGAAAAAT 59.681 34.615 18.75 5.16 0.00 1.82
4143 6473 7.412063 GCCCATATTGCAATTTCTGAAAAATC 58.588 34.615 18.75 0.16 0.00 2.17
4144 6474 7.281549 GCCCATATTGCAATTTCTGAAAAATCT 59.718 33.333 18.75 0.00 0.00 2.40
4145 6475 8.823818 CCCATATTGCAATTTCTGAAAAATCTC 58.176 33.333 18.75 0.00 0.00 2.75
4146 6476 9.595823 CCATATTGCAATTTCTGAAAAATCTCT 57.404 29.630 18.75 0.00 0.00 3.10
4150 6480 9.649167 ATTGCAATTTCTGAAAAATCTCTAAGG 57.351 29.630 5.99 0.00 0.00 2.69
4151 6481 7.605449 TGCAATTTCTGAAAAATCTCTAAGGG 58.395 34.615 6.95 0.00 0.00 3.95
4152 6482 6.533012 GCAATTTCTGAAAAATCTCTAAGGGC 59.467 38.462 6.95 0.00 0.00 5.19
4153 6483 6.782082 ATTTCTGAAAAATCTCTAAGGGCC 57.218 37.500 6.95 0.00 0.00 5.80
4154 6484 4.236527 TCTGAAAAATCTCTAAGGGCCC 57.763 45.455 16.46 16.46 0.00 5.80
4155 6485 3.591527 TCTGAAAAATCTCTAAGGGCCCA 59.408 43.478 27.56 2.12 0.00 5.36
4156 6486 4.230502 TCTGAAAAATCTCTAAGGGCCCAT 59.769 41.667 27.56 16.50 0.00 4.00
4157 6487 4.280819 TGAAAAATCTCTAAGGGCCCATG 58.719 43.478 27.56 13.67 0.00 3.66
4158 6488 4.264352 TGAAAAATCTCTAAGGGCCCATGT 60.264 41.667 27.56 11.59 0.00 3.21
4159 6489 3.303351 AAATCTCTAAGGGCCCATGTG 57.697 47.619 27.56 13.94 0.00 3.21
4160 6490 1.143813 ATCTCTAAGGGCCCATGTGG 58.856 55.000 27.56 11.04 37.09 4.17
4173 6503 3.228188 CCATGTGGGTTATATGGCACT 57.772 47.619 0.00 0.00 40.57 4.40
4174 6504 4.365514 CCATGTGGGTTATATGGCACTA 57.634 45.455 0.00 0.00 40.57 2.74
4175 6505 4.326826 CCATGTGGGTTATATGGCACTAG 58.673 47.826 0.00 0.00 40.57 2.57
4176 6506 4.326826 CATGTGGGTTATATGGCACTAGG 58.673 47.826 0.00 0.00 0.00 3.02
4177 6507 3.389866 TGTGGGTTATATGGCACTAGGT 58.610 45.455 0.00 0.00 0.00 3.08
4178 6508 3.135712 TGTGGGTTATATGGCACTAGGTG 59.864 47.826 0.00 0.00 36.51 4.00
4179 6509 3.389983 GTGGGTTATATGGCACTAGGTGA 59.610 47.826 1.57 0.00 35.23 4.02
4180 6510 4.041464 TGGGTTATATGGCACTAGGTGAA 58.959 43.478 1.57 0.00 35.23 3.18
4181 6511 4.102524 TGGGTTATATGGCACTAGGTGAAG 59.897 45.833 1.57 0.00 35.23 3.02
4182 6512 4.102681 GGGTTATATGGCACTAGGTGAAGT 59.897 45.833 1.57 0.00 35.23 3.01
4184 6514 3.845781 ATATGGCACTAGGTGAAGTGG 57.154 47.619 6.17 0.00 45.75 4.00
4185 6515 0.620556 ATGGCACTAGGTGAAGTGGG 59.379 55.000 6.17 0.00 45.75 4.61
4186 6516 0.472925 TGGCACTAGGTGAAGTGGGA 60.473 55.000 6.17 0.00 45.75 4.37
4187 6517 0.690762 GGCACTAGGTGAAGTGGGAA 59.309 55.000 6.17 0.00 45.75 3.97
4188 6518 1.339151 GGCACTAGGTGAAGTGGGAAG 60.339 57.143 6.17 0.00 45.75 3.46
4189 6519 1.348036 GCACTAGGTGAAGTGGGAAGT 59.652 52.381 6.17 0.00 45.75 3.01
4190 6520 2.224548 GCACTAGGTGAAGTGGGAAGTT 60.225 50.000 6.17 0.00 45.75 2.66
4191 6521 3.747708 GCACTAGGTGAAGTGGGAAGTTT 60.748 47.826 6.17 0.00 45.75 2.66
4192 6522 4.504340 GCACTAGGTGAAGTGGGAAGTTTA 60.504 45.833 6.17 0.00 45.75 2.01
4193 6523 5.238583 CACTAGGTGAAGTGGGAAGTTTAG 58.761 45.833 0.00 0.00 42.63 1.85
4194 6524 4.906060 ACTAGGTGAAGTGGGAAGTTTAGT 59.094 41.667 0.00 0.00 0.00 2.24
4195 6525 4.353383 AGGTGAAGTGGGAAGTTTAGTC 57.647 45.455 0.00 0.00 0.00 2.59
4196 6526 3.072622 AGGTGAAGTGGGAAGTTTAGTCC 59.927 47.826 0.00 0.00 0.00 3.85
4202 6532 3.972368 GGAAGTTTAGTCCCACCCC 57.028 57.895 0.00 0.00 0.00 4.95
4203 6533 0.035725 GGAAGTTTAGTCCCACCCCG 60.036 60.000 0.00 0.00 0.00 5.73
4204 6534 0.978907 GAAGTTTAGTCCCACCCCGA 59.021 55.000 0.00 0.00 0.00 5.14
4205 6535 1.348696 GAAGTTTAGTCCCACCCCGAA 59.651 52.381 0.00 0.00 0.00 4.30
4206 6536 1.437397 AGTTTAGTCCCACCCCGAAA 58.563 50.000 0.00 0.00 0.00 3.46
4207 6537 1.350019 AGTTTAGTCCCACCCCGAAAG 59.650 52.381 0.00 0.00 0.00 2.62
4208 6538 1.072806 GTTTAGTCCCACCCCGAAAGT 59.927 52.381 0.00 0.00 0.00 2.66
4209 6539 0.688487 TTAGTCCCACCCCGAAAGTG 59.312 55.000 0.00 0.00 34.91 3.16
4214 6544 4.397348 CACCCCGAAAGTGGAAGG 57.603 61.111 0.00 0.00 0.00 3.46
4215 6545 1.758592 CACCCCGAAAGTGGAAGGA 59.241 57.895 0.00 0.00 0.00 3.36
4216 6546 0.321653 CACCCCGAAAGTGGAAGGAG 60.322 60.000 0.00 0.00 0.00 3.69
4217 6547 1.299976 CCCCGAAAGTGGAAGGAGG 59.700 63.158 0.00 0.00 0.00 4.30
4218 6548 1.299976 CCCGAAAGTGGAAGGAGGG 59.700 63.158 0.00 0.00 0.00 4.30
4219 6549 1.489560 CCCGAAAGTGGAAGGAGGGT 61.490 60.000 0.00 0.00 33.00 4.34
4220 6550 0.400594 CCGAAAGTGGAAGGAGGGTT 59.599 55.000 0.00 0.00 0.00 4.11
4221 6551 1.610886 CCGAAAGTGGAAGGAGGGTTC 60.611 57.143 0.00 0.00 0.00 3.62
4222 6552 1.610886 CGAAAGTGGAAGGAGGGTTCC 60.611 57.143 0.00 0.00 45.63 3.62
4223 6553 0.778083 AAAGTGGAAGGAGGGTTCCC 59.222 55.000 0.00 0.00 44.93 3.97
4224 6554 0.103876 AAGTGGAAGGAGGGTTCCCT 60.104 55.000 10.51 10.51 44.93 4.20
4225 6555 0.103876 AGTGGAAGGAGGGTTCCCTT 60.104 55.000 12.04 0.00 44.93 3.95
4231 6561 3.699025 AAGGAGGGTTCCCTTCAAAAA 57.301 42.857 17.55 0.00 45.24 1.94
4259 6589 1.971357 GTGGAAGGAGAGTTGGAGTGA 59.029 52.381 0.00 0.00 0.00 3.41
4269 6599 6.903534 AGGAGAGTTGGAGTGATTTATAAGGA 59.096 38.462 0.00 0.00 0.00 3.36
4447 6795 1.334160 TGCCAGTCACTAACGGAGAA 58.666 50.000 0.00 0.00 0.00 2.87
4575 6924 1.621622 GGTGTCTCCTAACCCTAGCCA 60.622 57.143 0.00 0.00 0.00 4.75
4604 6953 0.803768 GATCACATCTGCTCACGCGT 60.804 55.000 5.58 5.58 39.65 6.01
4605 6954 0.803768 ATCACATCTGCTCACGCGTC 60.804 55.000 9.86 0.00 39.65 5.19
4637 6986 3.299977 CCTTTGCTGCTGCTGCCA 61.300 61.111 25.44 14.41 40.48 4.92
4654 7003 2.121832 ACCGGTGACTCCATCCCA 59.878 61.111 6.12 0.00 35.57 4.37
4666 7015 3.991051 ATCCCATCCGCCGCGTAG 61.991 66.667 12.58 0.00 0.00 3.51
4686 7035 2.750637 GGTCGACGGGAGAGCAGA 60.751 66.667 9.92 0.00 36.27 4.26
4720 7069 1.263356 CCCTTCTGGTTCCTGTACGA 58.737 55.000 0.00 0.00 0.00 3.43
4749 7098 1.544246 GCGAATAGGTTTTTGGGCAGT 59.456 47.619 0.00 0.00 0.00 4.40
4808 7157 2.813908 GTCCGCGTCGCCTTCATT 60.814 61.111 12.44 0.00 0.00 2.57
4852 7201 4.947147 TGCCGCCGCCAAGAAAGT 62.947 61.111 0.00 0.00 0.00 2.66
4901 7250 3.300765 GCTGCTGCCACCAAAGCT 61.301 61.111 3.85 0.00 40.21 3.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 1.080772 CGTCGCTAGTGCCAGTCAA 60.081 57.895 0.00 0.00 35.36 3.18
46 47 2.566529 CGTCGCTAGTGCCAGTCA 59.433 61.111 0.00 0.00 35.36 3.41
54 55 3.367743 TCGGGTTGCGTCGCTAGT 61.368 61.111 19.50 0.00 0.00 2.57
112 159 3.807839 TCCATGATGGGTGGGCCG 61.808 66.667 12.26 0.00 38.32 6.13
122 169 0.253820 ACTTCCCTGGGGTCCATGAT 60.254 55.000 14.00 0.00 36.47 2.45
180 230 1.347062 CTAGCTCCCTGAAGATCCCC 58.653 60.000 0.00 0.00 0.00 4.81
187 237 2.359169 CCGTGGCTAGCTCCCTGAA 61.359 63.158 15.72 0.00 0.00 3.02
232 282 2.032681 GCAAACGAGGAGGCCACT 59.967 61.111 5.01 1.49 0.00 4.00
233 283 3.423154 CGCAAACGAGGAGGCCAC 61.423 66.667 5.01 0.00 43.93 5.01
304 354 9.778993 CATTCAACATTTTCGATCTCATTACTT 57.221 29.630 0.00 0.00 0.00 2.24
449 500 3.713826 ACGTACATGGTCCTGGAAATT 57.286 42.857 0.00 0.00 0.00 1.82
450 501 3.713826 AACGTACATGGTCCTGGAAAT 57.286 42.857 0.00 0.00 0.00 2.17
451 502 4.620589 TTAACGTACATGGTCCTGGAAA 57.379 40.909 0.00 0.00 0.00 3.13
452 503 4.620589 TTTAACGTACATGGTCCTGGAA 57.379 40.909 0.00 0.00 0.00 3.53
453 504 4.223255 TCATTTAACGTACATGGTCCTGGA 59.777 41.667 0.00 0.00 0.00 3.86
454 505 4.509616 TCATTTAACGTACATGGTCCTGG 58.490 43.478 0.00 0.00 0.00 4.45
455 506 5.063438 CACTCATTTAACGTACATGGTCCTG 59.937 44.000 0.00 0.00 0.00 3.86
584 644 7.148356 GCATACAAGGATGTGATGTGTATATGG 60.148 40.741 0.00 0.00 40.84 2.74
660 720 6.431852 CCATGAAGGCCAGAATTTTTGAAAAT 59.568 34.615 5.01 0.00 40.15 1.82
762 822 3.243975 CGGTAGGGGTATTGTGGTACATC 60.244 52.174 0.00 0.00 44.52 3.06
905 965 2.716244 GCTGCGCGAGTCTAGCTA 59.284 61.111 12.10 0.00 33.53 3.32
1235 1295 3.916544 CAGCCGCAGCCTCCGATA 61.917 66.667 0.00 0.00 41.25 2.92
1739 1801 7.381323 ACCATCCAAAGTTGATTCTGAATTTC 58.619 34.615 4.11 0.00 0.00 2.17
1740 1802 7.307131 ACCATCCAAAGTTGATTCTGAATTT 57.693 32.000 4.11 0.00 0.00 1.82
1741 1803 6.923199 ACCATCCAAAGTTGATTCTGAATT 57.077 33.333 4.11 0.00 0.00 2.17
1742 1804 6.923199 AACCATCCAAAGTTGATTCTGAAT 57.077 33.333 1.81 1.81 0.00 2.57
1743 1805 6.729690 AAACCATCCAAAGTTGATTCTGAA 57.270 33.333 0.00 0.00 0.00 3.02
1744 1806 6.071952 GCTAAACCATCCAAAGTTGATTCTGA 60.072 38.462 0.00 0.00 0.00 3.27
1745 1807 6.095377 GCTAAACCATCCAAAGTTGATTCTG 58.905 40.000 0.00 0.00 0.00 3.02
1746 1808 5.774690 TGCTAAACCATCCAAAGTTGATTCT 59.225 36.000 0.00 0.00 0.00 2.40
1771 1833 2.648059 GTCCACTCCTTGCATGCTAAT 58.352 47.619 20.33 0.00 0.00 1.73
1772 1834 1.675714 CGTCCACTCCTTGCATGCTAA 60.676 52.381 20.33 10.52 0.00 3.09
1773 1835 0.108186 CGTCCACTCCTTGCATGCTA 60.108 55.000 20.33 10.88 0.00 3.49
1774 1836 1.376424 CGTCCACTCCTTGCATGCT 60.376 57.895 20.33 0.00 0.00 3.79
1775 1837 0.391130 TACGTCCACTCCTTGCATGC 60.391 55.000 11.82 11.82 0.00 4.06
1776 1838 1.066858 ACTACGTCCACTCCTTGCATG 60.067 52.381 0.00 0.00 0.00 4.06
1777 1839 1.267121 ACTACGTCCACTCCTTGCAT 58.733 50.000 0.00 0.00 0.00 3.96
1909 1983 4.674281 TGACGCCAATGTATGTACCATA 57.326 40.909 0.00 0.00 0.00 2.74
1928 2002 2.125391 GCAGAGACGCAGGCATGA 60.125 61.111 0.62 0.00 0.00 3.07
2016 2090 6.732531 GCACATGCATATAATAGAGCTGAA 57.267 37.500 0.00 0.00 41.59 3.02
2048 2122 6.567891 GCCATTTTGTACCAACAGTCTAGAAC 60.568 42.308 0.00 0.00 36.83 3.01
2134 2208 7.412853 AGGCCACTAGTTTTTAAACTTTTGA 57.587 32.000 12.62 0.00 46.52 2.69
2149 2223 1.743772 CGGTGATTGGAAGGCCACTAG 60.744 57.143 5.01 0.00 45.94 2.57
2154 2228 1.828979 TTTACGGTGATTGGAAGGCC 58.171 50.000 0.00 0.00 0.00 5.19
2241 2330 3.802948 ACCTAGGCTCAGTTGTAATCG 57.197 47.619 9.30 0.00 0.00 3.34
2282 2897 6.747414 AGTGCACAATAGGGATAGTTGATA 57.253 37.500 21.04 0.00 0.00 2.15
2284 2899 6.070481 TGTTAGTGCACAATAGGGATAGTTGA 60.070 38.462 21.04 0.00 0.00 3.18
2640 3412 3.047796 CGTGTGTGTGTCCTAACTGTAC 58.952 50.000 0.00 0.00 0.00 2.90
2658 3430 3.716006 CACCAAGCGCTGACCGTG 61.716 66.667 12.58 11.35 39.71 4.94
2797 3569 8.917655 GCTATCTCGTGACTAATATTTTCTTCC 58.082 37.037 0.00 0.00 0.00 3.46
2826 3598 2.453521 TGAATCGCAGTGGGTAGTACT 58.546 47.619 7.12 0.00 0.00 2.73
2834 3606 5.046910 ACACTTATTTTGAATCGCAGTGG 57.953 39.130 0.00 0.00 35.50 4.00
2940 3712 2.779506 GGCCGTATAGCTATTTTGGCT 58.220 47.619 28.16 5.11 40.77 4.75
2941 3713 1.463444 CGGCCGTATAGCTATTTTGGC 59.537 52.381 24.53 24.53 40.25 4.52
2943 3715 2.735134 GTCCGGCCGTATAGCTATTTTG 59.265 50.000 26.12 3.34 0.00 2.44
3017 5339 1.864711 GTTAAAGACTCGTGCAGTGCA 59.135 47.619 15.37 15.37 34.41 4.57
3031 5353 6.183360 CGCTCAAGATCACTGTACTGTTAAAG 60.183 42.308 2.16 0.00 0.00 1.85
3046 5375 6.456181 CCACAATTAAAGAGACGCTCAAGATC 60.456 42.308 9.09 0.00 32.06 2.75
3096 5425 4.182433 TGCCACACACGGGAGCAA 62.182 61.111 0.00 0.00 0.00 3.91
3594 5923 3.785859 GGGCAGATGGCGAGGTCA 61.786 66.667 0.00 0.00 46.16 4.02
3690 6019 4.147449 CGGCTCTCCATCGCCACA 62.147 66.667 0.00 0.00 46.62 4.17
3990 6319 2.614057 ACATTCATTTAGCTAGCGTGCC 59.386 45.455 9.55 0.00 0.00 5.01
4093 6423 1.562942 AGCCCATCTCAGATTTCAGCA 59.437 47.619 0.00 0.00 0.00 4.41
4094 6424 2.158784 AGAGCCCATCTCAGATTTCAGC 60.159 50.000 0.00 0.00 44.35 4.26
4095 6425 3.842007 AGAGCCCATCTCAGATTTCAG 57.158 47.619 0.00 0.00 44.35 3.02
4096 6426 3.645212 CCTAGAGCCCATCTCAGATTTCA 59.355 47.826 0.00 0.00 44.35 2.69
4097 6427 3.556843 GCCTAGAGCCCATCTCAGATTTC 60.557 52.174 0.00 0.00 44.35 2.17
4098 6428 2.371510 GCCTAGAGCCCATCTCAGATTT 59.628 50.000 0.00 0.00 44.35 2.17
4099 6429 1.977129 GCCTAGAGCCCATCTCAGATT 59.023 52.381 0.00 0.00 44.35 2.40
4100 6430 1.643310 GCCTAGAGCCCATCTCAGAT 58.357 55.000 0.00 0.00 44.35 2.90
4101 6431 3.139810 GCCTAGAGCCCATCTCAGA 57.860 57.895 0.00 0.00 44.35 3.27
4111 6441 2.276732 TTGCAATATGGGCCTAGAGC 57.723 50.000 4.53 3.23 42.60 4.09
4112 6442 5.048224 CAGAAATTGCAATATGGGCCTAGAG 60.048 44.000 13.39 0.00 0.00 2.43
4113 6443 4.828939 CAGAAATTGCAATATGGGCCTAGA 59.171 41.667 13.39 0.00 0.00 2.43
4114 6444 4.828939 TCAGAAATTGCAATATGGGCCTAG 59.171 41.667 13.39 0.00 0.00 3.02
4115 6445 4.802307 TCAGAAATTGCAATATGGGCCTA 58.198 39.130 13.39 0.00 0.00 3.93
4116 6446 3.645434 TCAGAAATTGCAATATGGGCCT 58.355 40.909 13.39 1.29 0.00 5.19
4117 6447 4.405116 TTCAGAAATTGCAATATGGGCC 57.595 40.909 13.39 0.00 0.00 5.80
4118 6448 6.740411 TTTTTCAGAAATTGCAATATGGGC 57.260 33.333 13.39 0.85 0.00 5.36
4119 6449 8.726870 AGATTTTTCAGAAATTGCAATATGGG 57.273 30.769 13.39 3.65 0.00 4.00
4120 6450 9.595823 AGAGATTTTTCAGAAATTGCAATATGG 57.404 29.630 13.39 3.28 0.00 2.74
4124 6454 9.649167 CCTTAGAGATTTTTCAGAAATTGCAAT 57.351 29.630 5.99 5.99 0.00 3.56
4125 6455 8.090214 CCCTTAGAGATTTTTCAGAAATTGCAA 58.910 33.333 0.00 0.00 0.00 4.08
4126 6456 7.605449 CCCTTAGAGATTTTTCAGAAATTGCA 58.395 34.615 0.00 0.00 0.00 4.08
4127 6457 6.533012 GCCCTTAGAGATTTTTCAGAAATTGC 59.467 38.462 0.00 0.00 0.00 3.56
4128 6458 7.038048 GGCCCTTAGAGATTTTTCAGAAATTG 58.962 38.462 0.00 0.00 0.00 2.32
4129 6459 6.155221 GGGCCCTTAGAGATTTTTCAGAAATT 59.845 38.462 17.04 0.00 0.00 1.82
4130 6460 5.658634 GGGCCCTTAGAGATTTTTCAGAAAT 59.341 40.000 17.04 0.00 0.00 2.17
4131 6461 5.016831 GGGCCCTTAGAGATTTTTCAGAAA 58.983 41.667 17.04 0.00 0.00 2.52
4132 6462 4.044065 TGGGCCCTTAGAGATTTTTCAGAA 59.956 41.667 25.70 0.00 0.00 3.02
4133 6463 3.591527 TGGGCCCTTAGAGATTTTTCAGA 59.408 43.478 25.70 0.00 0.00 3.27
4134 6464 3.968265 TGGGCCCTTAGAGATTTTTCAG 58.032 45.455 25.70 0.00 0.00 3.02
4135 6465 4.264352 ACATGGGCCCTTAGAGATTTTTCA 60.264 41.667 25.70 0.00 0.00 2.69
4136 6466 4.098501 CACATGGGCCCTTAGAGATTTTTC 59.901 45.833 25.70 0.00 0.00 2.29
4137 6467 4.026052 CACATGGGCCCTTAGAGATTTTT 58.974 43.478 25.70 0.00 0.00 1.94
4138 6468 3.628257 CCACATGGGCCCTTAGAGATTTT 60.628 47.826 25.70 0.00 0.00 1.82
4139 6469 2.091665 CCACATGGGCCCTTAGAGATTT 60.092 50.000 25.70 0.00 0.00 2.17
4140 6470 1.496429 CCACATGGGCCCTTAGAGATT 59.504 52.381 25.70 0.00 0.00 2.40
4141 6471 1.143813 CCACATGGGCCCTTAGAGAT 58.856 55.000 25.70 3.22 0.00 2.75
4142 6472 2.620234 CCACATGGGCCCTTAGAGA 58.380 57.895 25.70 0.07 0.00 3.10
4153 6483 3.228188 AGTGCCATATAACCCACATGG 57.772 47.619 0.00 0.00 41.85 3.66
4154 6484 4.202461 ACCTAGTGCCATATAACCCACATG 60.202 45.833 0.00 0.00 0.00 3.21
4155 6485 3.980698 ACCTAGTGCCATATAACCCACAT 59.019 43.478 0.00 0.00 0.00 3.21
4156 6486 3.135712 CACCTAGTGCCATATAACCCACA 59.864 47.826 0.00 0.00 0.00 4.17
4157 6487 3.389983 TCACCTAGTGCCATATAACCCAC 59.610 47.826 0.00 0.00 32.98 4.61
4158 6488 3.659841 TCACCTAGTGCCATATAACCCA 58.340 45.455 0.00 0.00 32.98 4.51
4159 6489 4.102681 ACTTCACCTAGTGCCATATAACCC 59.897 45.833 0.00 0.00 32.98 4.11
4160 6490 5.057149 CACTTCACCTAGTGCCATATAACC 58.943 45.833 0.00 0.00 39.12 2.85
4161 6491 5.057149 CCACTTCACCTAGTGCCATATAAC 58.943 45.833 0.00 0.00 43.31 1.89
4162 6492 4.102524 CCCACTTCACCTAGTGCCATATAA 59.897 45.833 0.00 0.00 43.31 0.98
4163 6493 3.646162 CCCACTTCACCTAGTGCCATATA 59.354 47.826 0.00 0.00 43.31 0.86
4164 6494 2.439507 CCCACTTCACCTAGTGCCATAT 59.560 50.000 0.00 0.00 43.31 1.78
4165 6495 1.837439 CCCACTTCACCTAGTGCCATA 59.163 52.381 0.00 0.00 43.31 2.74
4166 6496 0.620556 CCCACTTCACCTAGTGCCAT 59.379 55.000 0.00 0.00 43.31 4.40
4167 6497 0.472925 TCCCACTTCACCTAGTGCCA 60.473 55.000 0.00 0.00 43.31 4.92
4168 6498 0.690762 TTCCCACTTCACCTAGTGCC 59.309 55.000 0.00 0.00 43.31 5.01
4169 6499 1.348036 ACTTCCCACTTCACCTAGTGC 59.652 52.381 0.00 0.00 43.31 4.40
4170 6500 3.771577 AACTTCCCACTTCACCTAGTG 57.228 47.619 0.00 0.00 44.07 2.74
4171 6501 4.906060 ACTAAACTTCCCACTTCACCTAGT 59.094 41.667 0.00 0.00 0.00 2.57
4172 6502 5.480205 GACTAAACTTCCCACTTCACCTAG 58.520 45.833 0.00 0.00 0.00 3.02
4173 6503 4.285260 GGACTAAACTTCCCACTTCACCTA 59.715 45.833 0.00 0.00 0.00 3.08
4174 6504 3.072622 GGACTAAACTTCCCACTTCACCT 59.927 47.826 0.00 0.00 0.00 4.00
4175 6505 3.409570 GGACTAAACTTCCCACTTCACC 58.590 50.000 0.00 0.00 0.00 4.02
4184 6514 0.035725 CGGGGTGGGACTAAACTTCC 60.036 60.000 0.00 0.00 0.00 3.46
4185 6515 0.978907 TCGGGGTGGGACTAAACTTC 59.021 55.000 0.00 0.00 0.00 3.01
4186 6516 1.437397 TTCGGGGTGGGACTAAACTT 58.563 50.000 0.00 0.00 0.00 2.66
4187 6517 1.350019 CTTTCGGGGTGGGACTAAACT 59.650 52.381 0.00 0.00 0.00 2.66
4188 6518 1.072806 ACTTTCGGGGTGGGACTAAAC 59.927 52.381 0.00 0.00 0.00 2.01
4189 6519 1.072648 CACTTTCGGGGTGGGACTAAA 59.927 52.381 0.00 0.00 0.00 1.85
4190 6520 0.688487 CACTTTCGGGGTGGGACTAA 59.312 55.000 0.00 0.00 0.00 2.24
4191 6521 2.368591 CACTTTCGGGGTGGGACTA 58.631 57.895 0.00 0.00 0.00 2.59
4192 6522 3.157680 CACTTTCGGGGTGGGACT 58.842 61.111 0.00 0.00 0.00 3.85
4197 6527 0.321653 CTCCTTCCACTTTCGGGGTG 60.322 60.000 0.00 0.00 34.78 4.61
4198 6528 1.489560 CCTCCTTCCACTTTCGGGGT 61.490 60.000 0.00 0.00 0.00 4.95
4199 6529 1.299976 CCTCCTTCCACTTTCGGGG 59.700 63.158 0.00 0.00 0.00 5.73
4200 6530 1.299976 CCCTCCTTCCACTTTCGGG 59.700 63.158 0.00 0.00 0.00 5.14
4201 6531 0.400594 AACCCTCCTTCCACTTTCGG 59.599 55.000 0.00 0.00 0.00 4.30
4202 6532 1.610886 GGAACCCTCCTTCCACTTTCG 60.611 57.143 0.00 0.00 39.78 3.46
4203 6533 2.201921 GGAACCCTCCTTCCACTTTC 57.798 55.000 0.00 0.00 39.78 2.62
4230 6560 4.797912 ACTCTCCTTCCACTTCCTTTTT 57.202 40.909 0.00 0.00 0.00 1.94
4231 6561 4.464947 CAACTCTCCTTCCACTTCCTTTT 58.535 43.478 0.00 0.00 0.00 2.27
4232 6562 3.181439 CCAACTCTCCTTCCACTTCCTTT 60.181 47.826 0.00 0.00 0.00 3.11
4233 6563 2.373502 CCAACTCTCCTTCCACTTCCTT 59.626 50.000 0.00 0.00 0.00 3.36
4234 6564 1.981495 CCAACTCTCCTTCCACTTCCT 59.019 52.381 0.00 0.00 0.00 3.36
4447 6795 0.112995 TGGCCCAGCTGTCAGAAAAT 59.887 50.000 13.81 0.00 0.00 1.82
4550 6899 0.462047 GGGTTAGGAGACACCGCATG 60.462 60.000 0.00 0.00 44.74 4.06
4637 6986 1.306997 ATGGGATGGAGTCACCGGT 60.307 57.895 0.00 0.00 42.61 5.28
4666 7015 4.176851 GCTCTCCCGTCGACCGTC 62.177 72.222 10.58 0.00 33.66 4.79
4686 7035 1.838073 AAGGGCGTGGTTTCGGAGAT 61.838 55.000 0.00 0.00 35.04 2.75
4720 7069 0.620700 AACCTATTCGCCCCTCACCT 60.621 55.000 0.00 0.00 0.00 4.00
4808 7157 0.458260 CGTCGGTGGACATGGTGATA 59.542 55.000 0.00 0.00 43.61 2.15
4845 7194 3.541632 TCTTGTCGGCTTCAACTTTCTT 58.458 40.909 0.00 0.00 0.00 2.52
4852 7201 0.889186 GGCCTTCTTGTCGGCTTCAA 60.889 55.000 0.00 0.00 45.57 2.69


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

AutoCloner maintained by Alex Coulton.