Multiple sequence alignment - TraesCS3B01G162100

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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 TraesCS3B01G162100 chr3B 100.000 5274 0 0 962 6235 159509963 159504690 0.000000e+00 9740.0
1 TraesCS3B01G162100 chr3B 100.000 551 0 0 1 551 159510924 159510374 0.000000e+00 1018.0
2 TraesCS3B01G162100 chr3A 93.266 2985 139 29 972 3927 123326283 123329234 0.000000e+00 4342.0
3 TraesCS3B01G162100 chr3A 92.835 949 47 18 4681 5616 123329976 123330916 0.000000e+00 1356.0
4 TraesCS3B01G162100 chr3A 87.755 735 43 19 3925 4642 123329276 123329980 0.000000e+00 815.0
5 TraesCS3B01G162100 chr3A 85.915 213 20 6 335 546 123325591 123325794 1.050000e-52 219.0
6 TraesCS3B01G162100 chr3A 82.716 81 13 1 352 432 123313910 123313989 3.120000e-08 71.3
7 TraesCS3B01G162100 chr3D 97.543 2157 46 3 2158 4307 108244459 108242303 0.000000e+00 3683.0
8 TraesCS3B01G162100 chr3D 95.691 1671 34 8 4306 5971 108242114 108240477 0.000000e+00 2652.0
9 TraesCS3B01G162100 chr3D 95.854 1230 29 8 962 2170 108246295 108245067 0.000000e+00 1969.0
10 TraesCS3B01G162100 chr3D 90.554 307 17 7 250 551 108246604 108246305 4.530000e-106 396.0
11 TraesCS3B01G162100 chr3D 90.909 242 18 2 5 243 108246940 108246700 7.800000e-84 322.0
12 TraesCS3B01G162100 chr6D 79.630 108 17 4 5732 5838 104421356 104421253 8.670000e-09 73.1
13 TraesCS3B01G162100 chr5D 100.000 28 0 0 5692 5719 412066714 412066741 1.100000e-02 52.8


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 TraesCS3B01G162100 chr3B 159504690 159510924 6234 True 5379.0 9740 100.00000 1 6235 2 chr3B.!!$R1 6234
1 TraesCS3B01G162100 chr3A 123325591 123330916 5325 False 1683.0 4342 89.94275 335 5616 4 chr3A.!!$F2 5281
2 TraesCS3B01G162100 chr3D 108240477 108246940 6463 True 1804.4 3683 94.11020 5 5971 5 chr3D.!!$R1 5966

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
189 190 0.244721 GCATTCACTTCCTTGGTGGC 59.755 55.000 0.00 0.0 35.61 5.01 F
360 453 1.460273 CGCTAGGCCTCCTCCTTCTC 61.460 65.000 9.68 0.0 37.66 2.87 F
1083 1678 2.435938 GCTCGGCGGAATGTCCAA 60.436 61.111 7.21 0.0 35.91 3.53 F
1951 2555 0.458543 CCTTAGATCTGCGCGTGTGT 60.459 55.000 8.43 0.0 0.00 3.72 F
3003 4243 1.001181 GCACATGCCCAAGTTGACATT 59.999 47.619 3.87 0.0 34.31 2.71 F
3833 5073 2.719046 GTGTCCTTCGTTTGAAAATGCG 59.281 45.455 0.00 0.0 32.66 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1027 1606 3.114650 CTCAGATCTCGGCGCTGA 58.885 61.111 19.73 19.73 37.17 4.26 R
1920 2524 4.158394 GCAGATCTAAGGGCAAACAATTCA 59.842 41.667 0.00 0.00 0.00 2.57 R
2659 3899 0.037590 CCCCAACCTTCCGTGAATCA 59.962 55.000 0.00 0.00 0.00 2.57 R
3371 4611 0.890996 CCCTGTTGCAGTGAAGGACC 60.891 60.000 0.00 0.00 30.92 4.46 R
4130 5415 1.372128 GCCCACAAAGCGAGCAAAG 60.372 57.895 0.00 0.00 0.00 2.77 R
5578 7078 0.101219 CACTGATCATGGCGAGACGA 59.899 55.000 0.00 0.00 0.00 4.20 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
20 21 2.279650 ACGGTGTTGCGCTTACGT 60.280 55.556 9.73 9.62 42.83 3.57
30 31 2.486966 GCTTACGTACCGGCGTCT 59.513 61.111 10.50 0.00 44.55 4.18
53 54 2.490509 TGAAGAGACGCCGAAAGATACA 59.509 45.455 0.00 0.00 0.00 2.29
56 57 2.492484 AGAGACGCCGAAAGATACAAGT 59.508 45.455 0.00 0.00 0.00 3.16
60 61 2.230508 ACGCCGAAAGATACAAGTGAGA 59.769 45.455 0.00 0.00 0.00 3.27
85 86 1.136565 GTGCTTACGTACCGGCGTA 59.863 57.895 9.86 9.86 45.06 4.42
86 87 0.248621 GTGCTTACGTACCGGCGTAT 60.249 55.000 13.93 0.00 45.12 3.06
106 107 1.272490 TGTGAAGAGACGCCGAAAGAT 59.728 47.619 0.00 0.00 0.00 2.40
139 140 1.369625 GTCGAGCCGAAATGGTCAAT 58.630 50.000 0.00 0.00 41.21 2.57
140 141 1.062587 GTCGAGCCGAAATGGTCAATG 59.937 52.381 0.00 0.00 41.21 2.82
143 144 1.406539 GAGCCGAAATGGTCAATGCAT 59.593 47.619 0.00 0.00 41.21 3.96
154 155 8.674263 AAATGGTCAATGCATGTAAAGAAAAA 57.326 26.923 0.00 0.00 0.00 1.94
189 190 0.244721 GCATTCACTTCCTTGGTGGC 59.755 55.000 0.00 0.00 35.61 5.01
239 243 6.878923 TGTCTATCCGATTGAAAATTCACTGT 59.121 34.615 0.00 0.00 36.83 3.55
245 249 8.105097 TCCGATTGAAAATTCACTGTTATTCA 57.895 30.769 0.00 0.00 36.83 2.57
247 251 9.013490 CCGATTGAAAATTCACTGTTATTCATC 57.987 33.333 0.00 0.00 36.83 2.92
261 354 7.066766 ACTGTTATTCATCTGCTGGAAATCTTC 59.933 37.037 0.00 0.00 0.00 2.87
262 355 6.885918 TGTTATTCATCTGCTGGAAATCTTCA 59.114 34.615 0.00 0.00 0.00 3.02
296 389 7.149973 TGATGATGAAAGGAAAAGAAAAGCAG 58.850 34.615 0.00 0.00 0.00 4.24
297 390 5.291971 TGATGAAAGGAAAAGAAAAGCAGC 58.708 37.500 0.00 0.00 0.00 5.25
357 450 3.157949 GCGCTAGGCCTCCTCCTT 61.158 66.667 9.68 0.00 37.66 3.36
358 451 3.133946 CGCTAGGCCTCCTCCTTC 58.866 66.667 9.68 0.00 37.66 3.46
360 453 1.460273 CGCTAGGCCTCCTCCTTCTC 61.460 65.000 9.68 0.00 37.66 2.87
528 635 2.758979 CCTTCATCATTCCTTGCTTGCT 59.241 45.455 0.00 0.00 0.00 3.91
547 658 4.179599 CCTCCCCTCCCCTCCCTC 62.180 77.778 0.00 0.00 0.00 4.30
548 659 4.179599 CTCCCCTCCCCTCCCTCC 62.180 77.778 0.00 0.00 0.00 4.30
1083 1678 2.435938 GCTCGGCGGAATGTCCAA 60.436 61.111 7.21 0.00 35.91 3.53
1423 2027 3.005539 GGCTCCACCTCCAGCTCA 61.006 66.667 0.00 0.00 35.82 4.26
1951 2555 0.458543 CCTTAGATCTGCGCGTGTGT 60.459 55.000 8.43 0.00 0.00 3.72
2315 3551 1.607225 TATGTGCCCCTGGATTTCCT 58.393 50.000 0.00 0.00 36.82 3.36
2716 3956 1.160137 GGGAATGTGATGCCGCTATC 58.840 55.000 0.00 0.00 0.00 2.08
2746 3986 1.265236 CTGACTCCTCTGCTCTGGTT 58.735 55.000 0.00 0.00 0.00 3.67
3003 4243 1.001181 GCACATGCCCAAGTTGACATT 59.999 47.619 3.87 0.00 34.31 2.71
3026 4266 2.871096 TTGGGAAGGTAATTCAGCGT 57.129 45.000 0.00 0.00 39.91 5.07
3140 4380 3.386726 TCGGTTGCCTGTTATAGCTGTAT 59.613 43.478 0.00 0.00 0.00 2.29
3332 4572 5.467399 TGGAAAATTTTCAGAAGCTTGCATG 59.533 36.000 27.53 0.00 38.92 4.06
3371 4611 4.006989 TCAAACATCACCCTGTAAATCCG 58.993 43.478 0.00 0.00 0.00 4.18
3833 5073 2.719046 GTGTCCTTCGTTTGAAAATGCG 59.281 45.455 0.00 0.00 32.66 4.73
4072 5357 8.456471 GTTCCTTAAAACAGTTAGTGAGTTGTT 58.544 33.333 0.00 0.00 35.43 2.83
4130 5415 9.565213 CCTTGATTAATCATGTTTCTTGTCTTC 57.435 33.333 18.61 0.00 36.56 2.87
4716 6205 3.701542 TCTCTATCTTGTAGCAGTGGTGG 59.298 47.826 4.76 0.00 0.00 4.61
4911 6403 3.140325 TGGTTGATCCTTGTCACCTTC 57.860 47.619 0.00 0.00 37.07 3.46
5109 6605 1.483415 TCAGTAAGGCATTACGGGACC 59.517 52.381 18.79 0.00 45.01 4.46
5216 6715 0.035881 CCAGAGCAGAGCCAGTGAAA 59.964 55.000 0.00 0.00 0.00 2.69
5232 6731 6.623767 GCCAGTGAAAGGTAATCTTTGATGAC 60.624 42.308 0.00 0.00 45.00 3.06
5311 6810 2.513897 CATCCGAACCCGCCCTTC 60.514 66.667 0.00 0.00 0.00 3.46
5388 6888 2.235016 TCTTTTCATTTGTCCCCGTGG 58.765 47.619 0.00 0.00 0.00 4.94
5412 6912 3.091545 ACATCATTGTTGCCGAATTCCT 58.908 40.909 0.00 0.00 29.55 3.36
5578 7078 3.439857 TGCATGTTTTAAGCCTCTCCT 57.560 42.857 0.00 0.00 0.00 3.69
5580 7080 2.352960 GCATGTTTTAAGCCTCTCCTCG 59.647 50.000 0.00 0.00 0.00 4.63
5647 7147 9.678260 GAAATATCCATTATCCAAGCAGATACT 57.322 33.333 0.00 0.00 0.00 2.12
5656 7156 1.061711 CAAGCAGATACTGTCGCTTGC 59.938 52.381 16.10 8.89 46.56 4.01
5666 7166 3.338249 ACTGTCGCTTGCACATATCTTT 58.662 40.909 0.00 0.00 0.00 2.52
5803 7308 5.778241 CCCATAACTTTTAGGGGAAGTTGTT 59.222 40.000 9.64 0.00 44.56 2.83
5809 7314 1.272807 TAGGGGAAGTTGTTCGGGAG 58.727 55.000 0.00 0.00 32.92 4.30
5817 7322 2.863401 GTTGTTCGGGAGCAACTTTT 57.137 45.000 17.62 0.00 45.25 2.27
5823 7328 1.877443 TCGGGAGCAACTTTTGTTAGC 59.123 47.619 0.00 0.00 41.35 3.09
5834 7339 9.025041 AGCAACTTTTGTTAGCTCCTATAAATT 57.975 29.630 0.00 0.00 40.23 1.82
5843 7348 8.215736 TGTTAGCTCCTATAAATTTCTAACCCC 58.784 37.037 15.52 0.30 35.72 4.95
5919 7424 2.808206 CCTAGGGCCCGCCAGTTAG 61.808 68.421 18.44 11.43 37.98 2.34
6019 7524 3.679738 CCGGCGTTTTGGCATGGT 61.680 61.111 6.01 0.00 45.16 3.55
6020 7525 2.430582 CGGCGTTTTGGCATGGTG 60.431 61.111 0.00 0.00 45.16 4.17
6021 7526 2.048316 GGCGTTTTGGCATGGTGG 60.048 61.111 0.00 0.00 44.08 4.61
6022 7527 2.738139 GCGTTTTGGCATGGTGGC 60.738 61.111 0.00 0.00 44.03 5.01
6030 7535 4.120331 GCATGGTGGCGGTGCTTC 62.120 66.667 0.00 0.00 36.02 3.86
6031 7536 3.803082 CATGGTGGCGGTGCTTCG 61.803 66.667 0.00 0.00 0.00 3.79
6038 7543 4.884257 GCGGTGCTTCGGCGGATA 62.884 66.667 7.21 0.00 45.37 2.59
6039 7544 2.029073 CGGTGCTTCGGCGGATAT 59.971 61.111 7.21 0.00 45.37 1.63
6040 7545 2.022129 CGGTGCTTCGGCGGATATC 61.022 63.158 7.21 0.00 45.37 1.63
6041 7546 1.668151 GGTGCTTCGGCGGATATCC 60.668 63.158 12.14 12.14 45.37 2.59
6042 7547 1.668151 GTGCTTCGGCGGATATCCC 60.668 63.158 16.36 8.75 45.37 3.85
6059 7564 4.602259 CGTGGGATGGCGGCGTAT 62.602 66.667 9.37 3.28 0.00 3.06
6060 7565 2.203153 GTGGGATGGCGGCGTATT 60.203 61.111 9.37 0.00 0.00 1.89
6061 7566 2.203139 TGGGATGGCGGCGTATTG 60.203 61.111 9.37 0.00 0.00 1.90
6062 7567 2.978010 GGGATGGCGGCGTATTGG 60.978 66.667 9.37 0.00 0.00 3.16
6063 7568 2.110213 GGATGGCGGCGTATTGGA 59.890 61.111 9.37 0.00 0.00 3.53
6064 7569 1.961277 GGATGGCGGCGTATTGGAG 60.961 63.158 9.37 0.00 0.00 3.86
6065 7570 1.961277 GATGGCGGCGTATTGGAGG 60.961 63.158 9.37 0.00 0.00 4.30
6066 7571 3.476031 ATGGCGGCGTATTGGAGGG 62.476 63.158 9.37 0.00 0.00 4.30
6068 7573 4.547367 GCGGCGTATTGGAGGGCT 62.547 66.667 9.37 0.00 36.39 5.19
6069 7574 2.588877 CGGCGTATTGGAGGGCTG 60.589 66.667 0.00 0.00 36.39 4.85
6070 7575 2.902343 GGCGTATTGGAGGGCTGC 60.902 66.667 0.00 0.00 35.69 5.25
6071 7576 2.124736 GCGTATTGGAGGGCTGCA 60.125 61.111 0.50 0.00 0.00 4.41
6072 7577 2.472909 GCGTATTGGAGGGCTGCAC 61.473 63.158 0.50 0.00 0.00 4.57
6073 7578 1.078497 CGTATTGGAGGGCTGCACA 60.078 57.895 4.01 0.00 0.00 4.57
6074 7579 0.464373 CGTATTGGAGGGCTGCACAT 60.464 55.000 4.01 0.00 0.00 3.21
6075 7580 1.027357 GTATTGGAGGGCTGCACATG 58.973 55.000 4.01 0.00 0.00 3.21
6076 7581 0.106569 TATTGGAGGGCTGCACATGG 60.107 55.000 4.01 0.00 0.00 3.66
6077 7582 2.159101 ATTGGAGGGCTGCACATGGT 62.159 55.000 4.01 0.00 0.00 3.55
6078 7583 1.496444 TTGGAGGGCTGCACATGGTA 61.496 55.000 4.01 0.00 0.00 3.25
6079 7584 1.153086 GGAGGGCTGCACATGGTAG 60.153 63.158 4.01 0.00 0.00 3.18
6080 7585 1.604378 GAGGGCTGCACATGGTAGT 59.396 57.895 4.01 0.00 0.00 2.73
6081 7586 0.035056 GAGGGCTGCACATGGTAGTT 60.035 55.000 4.01 0.00 0.00 2.24
6082 7587 0.405585 AGGGCTGCACATGGTAGTTT 59.594 50.000 4.01 0.00 0.00 2.66
6083 7588 0.811281 GGGCTGCACATGGTAGTTTC 59.189 55.000 0.50 0.00 0.00 2.78
6084 7589 1.533625 GGCTGCACATGGTAGTTTCA 58.466 50.000 0.50 0.00 0.00 2.69
6085 7590 2.094675 GGCTGCACATGGTAGTTTCAT 58.905 47.619 0.50 0.00 0.00 2.57
6086 7591 2.159338 GGCTGCACATGGTAGTTTCATG 60.159 50.000 0.50 0.00 45.31 3.07
6087 7592 2.159338 GCTGCACATGGTAGTTTCATGG 60.159 50.000 0.00 0.37 44.42 3.66
6088 7593 3.084039 CTGCACATGGTAGTTTCATGGT 58.916 45.455 0.00 0.00 44.42 3.55
6089 7594 2.819019 TGCACATGGTAGTTTCATGGTG 59.181 45.455 0.00 0.00 44.42 4.17
6090 7595 2.164219 GCACATGGTAGTTTCATGGTGG 59.836 50.000 0.00 0.44 44.42 4.61
6091 7596 3.420893 CACATGGTAGTTTCATGGTGGT 58.579 45.455 0.00 0.00 44.42 4.16
6092 7597 3.826157 CACATGGTAGTTTCATGGTGGTT 59.174 43.478 0.00 0.00 44.42 3.67
6093 7598 5.007034 CACATGGTAGTTTCATGGTGGTTA 58.993 41.667 0.00 0.00 44.42 2.85
6094 7599 5.652014 CACATGGTAGTTTCATGGTGGTTAT 59.348 40.000 0.00 0.00 44.42 1.89
6095 7600 6.152661 CACATGGTAGTTTCATGGTGGTTATT 59.847 38.462 0.00 0.00 44.42 1.40
6096 7601 6.723977 ACATGGTAGTTTCATGGTGGTTATTT 59.276 34.615 0.00 0.00 44.42 1.40
6097 7602 7.234577 ACATGGTAGTTTCATGGTGGTTATTTT 59.765 33.333 0.00 0.00 44.42 1.82
6098 7603 7.222000 TGGTAGTTTCATGGTGGTTATTTTC 57.778 36.000 0.00 0.00 0.00 2.29
6099 7604 6.209788 TGGTAGTTTCATGGTGGTTATTTTCC 59.790 38.462 0.00 0.00 0.00 3.13
6100 7605 6.436218 GGTAGTTTCATGGTGGTTATTTTCCT 59.564 38.462 0.00 0.00 0.00 3.36
6101 7606 6.994421 AGTTTCATGGTGGTTATTTTCCTT 57.006 33.333 0.00 0.00 0.00 3.36
6102 7607 6.993079 AGTTTCATGGTGGTTATTTTCCTTC 58.007 36.000 0.00 0.00 0.00 3.46
6103 7608 5.637006 TTCATGGTGGTTATTTTCCTTCG 57.363 39.130 0.00 0.00 0.00 3.79
6104 7609 4.912586 TCATGGTGGTTATTTTCCTTCGA 58.087 39.130 0.00 0.00 0.00 3.71
6105 7610 5.317808 TCATGGTGGTTATTTTCCTTCGAA 58.682 37.500 0.00 0.00 0.00 3.71
6106 7611 5.770663 TCATGGTGGTTATTTTCCTTCGAAA 59.229 36.000 0.00 0.00 36.18 3.46
6116 7621 5.616488 TTTTCCTTCGAAAAAGATACGGG 57.384 39.130 0.00 0.00 43.38 5.28
6117 7622 4.540359 TTCCTTCGAAAAAGATACGGGA 57.460 40.909 0.00 0.00 0.00 5.14
6118 7623 4.540359 TCCTTCGAAAAAGATACGGGAA 57.460 40.909 0.00 0.00 0.00 3.97
6119 7624 4.501071 TCCTTCGAAAAAGATACGGGAAG 58.499 43.478 0.00 0.00 0.00 3.46
6120 7625 3.621715 CCTTCGAAAAAGATACGGGAAGG 59.378 47.826 0.00 2.87 41.95 3.46
6121 7626 3.967332 TCGAAAAAGATACGGGAAGGT 57.033 42.857 0.00 0.00 0.00 3.50
6122 7627 3.853475 TCGAAAAAGATACGGGAAGGTC 58.147 45.455 0.00 0.00 0.00 3.85
6123 7628 3.258872 TCGAAAAAGATACGGGAAGGTCA 59.741 43.478 0.00 0.00 0.00 4.02
6124 7629 4.081309 TCGAAAAAGATACGGGAAGGTCAT 60.081 41.667 0.00 0.00 0.00 3.06
6125 7630 4.270325 CGAAAAAGATACGGGAAGGTCATC 59.730 45.833 0.00 0.00 0.00 2.92
6126 7631 5.429130 GAAAAAGATACGGGAAGGTCATCT 58.571 41.667 0.00 0.00 0.00 2.90
6127 7632 5.437191 AAAAGATACGGGAAGGTCATCTT 57.563 39.130 0.00 0.00 37.51 2.40
6140 7645 7.830099 GAAGGTCATCTTCCCATAAATCAAT 57.170 36.000 0.00 0.00 44.60 2.57
6141 7646 7.592885 AAGGTCATCTTCCCATAAATCAATG 57.407 36.000 0.00 0.00 0.00 2.82
6142 7647 6.073314 AGGTCATCTTCCCATAAATCAATGG 58.927 40.000 0.00 0.00 45.20 3.16
6154 7659 7.651027 CATAAATCAATGGAAGAAAGGACCT 57.349 36.000 0.00 0.00 0.00 3.85
6155 7660 7.710896 CATAAATCAATGGAAGAAAGGACCTC 58.289 38.462 0.00 0.00 0.00 3.85
6156 7661 5.527026 AATCAATGGAAGAAAGGACCTCT 57.473 39.130 0.00 0.00 0.00 3.69
6157 7662 5.527026 ATCAATGGAAGAAAGGACCTCTT 57.473 39.130 0.00 0.00 35.82 2.85
6159 7664 5.705400 TCAATGGAAGAAAGGACCTCTTTT 58.295 37.500 0.00 0.00 45.00 2.27
6160 7665 6.848069 TCAATGGAAGAAAGGACCTCTTTTA 58.152 36.000 0.00 0.00 45.00 1.52
6161 7666 6.715264 TCAATGGAAGAAAGGACCTCTTTTAC 59.285 38.462 0.00 0.00 45.00 2.01
6162 7667 5.906772 TGGAAGAAAGGACCTCTTTTACT 57.093 39.130 0.00 0.00 45.00 2.24
6163 7668 5.621193 TGGAAGAAAGGACCTCTTTTACTG 58.379 41.667 0.00 0.00 45.00 2.74
6164 7669 5.004448 GGAAGAAAGGACCTCTTTTACTGG 58.996 45.833 0.00 0.00 45.00 4.00
6165 7670 5.221864 GGAAGAAAGGACCTCTTTTACTGGA 60.222 44.000 0.00 0.00 45.00 3.86
6166 7671 6.455690 AAGAAAGGACCTCTTTTACTGGAT 57.544 37.500 0.00 0.00 45.00 3.41
6167 7672 6.056090 AGAAAGGACCTCTTTTACTGGATC 57.944 41.667 0.00 0.00 45.00 3.36
6168 7673 4.846168 AAGGACCTCTTTTACTGGATCC 57.154 45.455 4.20 4.20 29.99 3.36
6169 7674 4.081695 AGGACCTCTTTTACTGGATCCT 57.918 45.455 14.23 0.00 31.42 3.24
6170 7675 4.034410 AGGACCTCTTTTACTGGATCCTC 58.966 47.826 14.23 0.00 30.92 3.71
6171 7676 4.034410 GGACCTCTTTTACTGGATCCTCT 58.966 47.826 14.23 0.00 0.00 3.69
6172 7677 5.043281 AGGACCTCTTTTACTGGATCCTCTA 60.043 44.000 14.23 0.00 30.92 2.43
6173 7678 5.661759 GGACCTCTTTTACTGGATCCTCTAA 59.338 44.000 14.23 5.50 0.00 2.10
6174 7679 6.156429 GGACCTCTTTTACTGGATCCTCTAAA 59.844 42.308 14.23 11.18 0.00 1.85
6175 7680 7.189079 ACCTCTTTTACTGGATCCTCTAAAG 57.811 40.000 14.23 15.67 0.00 1.85
6176 7681 6.960542 ACCTCTTTTACTGGATCCTCTAAAGA 59.039 38.462 14.23 18.45 0.00 2.52
6177 7682 7.625682 ACCTCTTTTACTGGATCCTCTAAAGAT 59.374 37.037 21.31 12.06 31.90 2.40
6178 7683 9.148879 CCTCTTTTACTGGATCCTCTAAAGATA 57.851 37.037 21.31 9.43 31.90 1.98
6180 7685 9.716556 TCTTTTACTGGATCCTCTAAAGATAGT 57.283 33.333 14.23 7.05 0.00 2.12
6181 7686 9.974980 CTTTTACTGGATCCTCTAAAGATAGTC 57.025 37.037 14.23 0.00 0.00 2.59
6182 7687 9.488762 TTTTACTGGATCCTCTAAAGATAGTCA 57.511 33.333 14.23 0.00 0.00 3.41
6183 7688 8.698973 TTACTGGATCCTCTAAAGATAGTCAG 57.301 38.462 14.23 0.00 0.00 3.51
6184 7689 6.678547 ACTGGATCCTCTAAAGATAGTCAGT 58.321 40.000 14.23 0.00 31.00 3.41
6185 7690 6.775629 ACTGGATCCTCTAAAGATAGTCAGTC 59.224 42.308 14.23 0.00 30.51 3.51
6186 7691 6.916909 TGGATCCTCTAAAGATAGTCAGTCT 58.083 40.000 14.23 0.00 0.00 3.24
6187 7692 7.001674 TGGATCCTCTAAAGATAGTCAGTCTC 58.998 42.308 14.23 0.00 0.00 3.36
6188 7693 6.433093 GGATCCTCTAAAGATAGTCAGTCTCC 59.567 46.154 3.84 0.00 0.00 3.71
6189 7694 5.369833 TCCTCTAAAGATAGTCAGTCTCCG 58.630 45.833 0.00 0.00 0.00 4.63
6190 7695 4.517453 CCTCTAAAGATAGTCAGTCTCCGG 59.483 50.000 0.00 0.00 0.00 5.14
6191 7696 4.462133 TCTAAAGATAGTCAGTCTCCGGG 58.538 47.826 0.00 0.00 0.00 5.73
6192 7697 3.383698 AAAGATAGTCAGTCTCCGGGA 57.616 47.619 0.00 0.00 0.00 5.14
6193 7698 3.383698 AAGATAGTCAGTCTCCGGGAA 57.616 47.619 0.00 0.00 0.00 3.97
6194 7699 2.657143 AGATAGTCAGTCTCCGGGAAC 58.343 52.381 0.00 0.00 0.00 3.62
6195 7700 2.242708 AGATAGTCAGTCTCCGGGAACT 59.757 50.000 0.00 2.15 0.00 3.01
6196 7701 1.835494 TAGTCAGTCTCCGGGAACTG 58.165 55.000 23.44 23.44 0.00 3.16
6197 7702 0.178958 AGTCAGTCTCCGGGAACTGT 60.179 55.000 26.26 12.99 0.00 3.55
6198 7703 0.680061 GTCAGTCTCCGGGAACTGTT 59.320 55.000 26.26 0.00 0.00 3.16
6199 7704 0.679505 TCAGTCTCCGGGAACTGTTG 59.320 55.000 26.26 10.96 0.00 3.33
6200 7705 0.320771 CAGTCTCCGGGAACTGTTGG 60.321 60.000 21.97 0.00 0.00 3.77
6201 7706 0.763223 AGTCTCCGGGAACTGTTGGT 60.763 55.000 0.00 0.00 0.00 3.67
6202 7707 0.602905 GTCTCCGGGAACTGTTGGTG 60.603 60.000 0.00 0.00 0.00 4.17
6203 7708 0.761323 TCTCCGGGAACTGTTGGTGA 60.761 55.000 0.00 0.00 0.00 4.02
6204 7709 0.602905 CTCCGGGAACTGTTGGTGAC 60.603 60.000 0.00 0.00 0.00 3.67
6205 7710 1.959226 CCGGGAACTGTTGGTGACG 60.959 63.158 0.00 0.00 0.00 4.35
6206 7711 1.227438 CGGGAACTGTTGGTGACGT 60.227 57.895 0.00 0.00 0.00 4.34
6207 7712 0.812412 CGGGAACTGTTGGTGACGTT 60.812 55.000 0.00 0.00 0.00 3.99
6208 7713 1.385528 GGGAACTGTTGGTGACGTTT 58.614 50.000 0.00 0.00 0.00 3.60
6209 7714 1.332686 GGGAACTGTTGGTGACGTTTC 59.667 52.381 0.00 0.00 0.00 2.78
6210 7715 2.285977 GGAACTGTTGGTGACGTTTCT 58.714 47.619 0.00 0.00 0.00 2.52
6211 7716 2.681344 GGAACTGTTGGTGACGTTTCTT 59.319 45.455 0.00 0.00 0.00 2.52
6212 7717 3.486875 GGAACTGTTGGTGACGTTTCTTG 60.487 47.826 0.00 0.00 0.00 3.02
6213 7718 2.706890 ACTGTTGGTGACGTTTCTTGT 58.293 42.857 0.00 0.00 0.00 3.16
6214 7719 2.676342 ACTGTTGGTGACGTTTCTTGTC 59.324 45.455 0.00 0.00 36.88 3.18
6215 7720 2.011222 TGTTGGTGACGTTTCTTGTCC 58.989 47.619 0.00 0.00 35.46 4.02
6216 7721 1.332686 GTTGGTGACGTTTCTTGTCCC 59.667 52.381 0.00 0.00 35.46 4.46
6217 7722 0.834612 TGGTGACGTTTCTTGTCCCT 59.165 50.000 0.00 0.00 35.46 4.20
6218 7723 2.040939 TGGTGACGTTTCTTGTCCCTA 58.959 47.619 0.00 0.00 35.46 3.53
6219 7724 2.224113 TGGTGACGTTTCTTGTCCCTAC 60.224 50.000 0.00 0.00 35.46 3.18
6220 7725 2.036862 GGTGACGTTTCTTGTCCCTACT 59.963 50.000 0.00 0.00 35.46 2.57
6221 7726 3.493873 GGTGACGTTTCTTGTCCCTACTT 60.494 47.826 0.00 0.00 35.46 2.24
6222 7727 4.124970 GTGACGTTTCTTGTCCCTACTTT 58.875 43.478 0.00 0.00 35.46 2.66
6223 7728 4.573607 GTGACGTTTCTTGTCCCTACTTTT 59.426 41.667 0.00 0.00 35.46 2.27
6224 7729 5.065602 GTGACGTTTCTTGTCCCTACTTTTT 59.934 40.000 0.00 0.00 35.46 1.94
6225 7730 5.065474 TGACGTTTCTTGTCCCTACTTTTTG 59.935 40.000 0.00 0.00 35.46 2.44
6226 7731 4.945543 ACGTTTCTTGTCCCTACTTTTTGT 59.054 37.500 0.00 0.00 0.00 2.83
6227 7732 6.114767 ACGTTTCTTGTCCCTACTTTTTGTA 58.885 36.000 0.00 0.00 0.00 2.41
6228 7733 6.598850 ACGTTTCTTGTCCCTACTTTTTGTAA 59.401 34.615 0.00 0.00 0.00 2.41
6229 7734 7.121020 ACGTTTCTTGTCCCTACTTTTTGTAAA 59.879 33.333 0.00 0.00 0.00 2.01
6230 7735 8.132995 CGTTTCTTGTCCCTACTTTTTGTAAAT 58.867 33.333 0.00 0.00 0.00 1.40
6231 7736 9.459640 GTTTCTTGTCCCTACTTTTTGTAAATC 57.540 33.333 0.00 0.00 0.00 2.17
6232 7737 7.429636 TCTTGTCCCTACTTTTTGTAAATCG 57.570 36.000 0.00 0.00 0.00 3.34
6233 7738 7.218614 TCTTGTCCCTACTTTTTGTAAATCGA 58.781 34.615 0.00 0.00 0.00 3.59
6234 7739 7.716123 TCTTGTCCCTACTTTTTGTAAATCGAA 59.284 33.333 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.644913 GTAAGCGCAACACCGTGTT 59.355 52.632 11.47 11.24 42.08 3.32
1 2 2.591311 CGTAAGCGCAACACCGTGT 61.591 57.895 11.47 0.00 0.00 4.49
2 3 1.276820 TACGTAAGCGCAACACCGTG 61.277 55.000 11.47 0.00 42.83 4.94
3 4 1.007502 TACGTAAGCGCAACACCGT 60.008 52.632 11.47 12.73 42.83 4.83
20 21 0.607217 TCTCTTCACAGACGCCGGTA 60.607 55.000 1.90 0.00 0.00 4.02
30 31 0.671796 TCTTTCGGCGTCTCTTCACA 59.328 50.000 6.85 0.00 0.00 3.58
53 54 2.717639 AAGCACAACACCTCTCACTT 57.282 45.000 0.00 0.00 0.00 3.16
56 57 1.411246 ACGTAAGCACAACACCTCTCA 59.589 47.619 0.00 0.00 45.62 3.27
60 61 2.159327 GGTACGTAAGCACAACACCT 57.841 50.000 0.00 0.00 45.62 4.00
85 86 1.272490 TCTTTCGGCGTCTCTTCACAT 59.728 47.619 6.85 0.00 0.00 3.21
86 87 0.671796 TCTTTCGGCGTCTCTTCACA 59.328 50.000 6.85 0.00 0.00 3.58
106 107 3.792047 CGACGAGCGTCACCCGTA 61.792 66.667 21.09 0.00 44.77 4.02
120 121 1.062587 CATTGACCATTTCGGCTCGAC 59.937 52.381 0.00 0.00 39.03 4.20
139 140 9.255304 GTTAAATGAGGTTTTTCTTTACATGCA 57.745 29.630 0.00 0.00 0.00 3.96
140 141 8.708742 GGTTAAATGAGGTTTTTCTTTACATGC 58.291 33.333 0.00 0.00 0.00 4.06
154 155 5.539955 AGTGAATGCAAAGGTTAAATGAGGT 59.460 36.000 0.00 0.00 0.00 3.85
189 190 1.917303 GTCAAACAACAACTTGGCACG 59.083 47.619 0.00 0.00 0.00 5.34
221 225 8.915871 ATGAATAACAGTGAATTTTCAATCGG 57.084 30.769 0.00 0.00 39.21 4.18
222 226 9.778993 AGATGAATAACAGTGAATTTTCAATCG 57.221 29.630 0.00 0.00 39.21 3.34
231 235 5.748402 TCCAGCAGATGAATAACAGTGAAT 58.252 37.500 0.00 0.00 0.00 2.57
239 243 7.997223 AGATGAAGATTTCCAGCAGATGAATAA 59.003 33.333 0.00 0.00 0.00 1.40
243 247 5.369409 AGATGAAGATTTCCAGCAGATGA 57.631 39.130 0.00 0.00 0.00 2.92
245 249 7.098074 GAAAAGATGAAGATTTCCAGCAGAT 57.902 36.000 0.00 0.00 0.00 2.90
261 354 7.400599 TTCCTTTCATCATCAGGAAAAGATG 57.599 36.000 0.00 0.00 42.60 2.90
296 389 2.830285 GCGGTCTCTCTCCTCTCGC 61.830 68.421 0.00 0.00 35.12 5.03
297 390 2.530497 CGCGGTCTCTCTCCTCTCG 61.530 68.421 0.00 0.00 0.00 4.04
354 447 5.048434 GTGGAGTGAAAATGGAAAGAGAAGG 60.048 44.000 0.00 0.00 0.00 3.46
357 450 4.398319 GGTGGAGTGAAAATGGAAAGAGA 58.602 43.478 0.00 0.00 0.00 3.10
358 451 3.189287 CGGTGGAGTGAAAATGGAAAGAG 59.811 47.826 0.00 0.00 0.00 2.85
360 453 2.351738 GCGGTGGAGTGAAAATGGAAAG 60.352 50.000 0.00 0.00 0.00 2.62
420 517 1.141185 GGGGAGGGTAGATTTGGAGG 58.859 60.000 0.00 0.00 0.00 4.30
1027 1606 3.114650 CTCAGATCTCGGCGCTGA 58.885 61.111 19.73 19.73 37.17 4.26
1920 2524 4.158394 GCAGATCTAAGGGCAAACAATTCA 59.842 41.667 0.00 0.00 0.00 2.57
1951 2555 8.538856 CAAGAACAAAAATCATTTCGCAGTAAA 58.461 29.630 0.00 0.00 0.00 2.01
2315 3551 4.957954 AGCAGATATTTTCATGCCAAGGAA 59.042 37.500 0.00 0.00 39.51 3.36
2659 3899 0.037590 CCCCAACCTTCCGTGAATCA 59.962 55.000 0.00 0.00 0.00 2.57
2746 3986 4.834496 GGATTGGATAATGGGCAGAATCAA 59.166 41.667 0.00 0.00 0.00 2.57
3003 4243 2.760092 GCTGAATTACCTTCCCAATGCA 59.240 45.455 0.00 0.00 32.49 3.96
3026 4266 9.678941 CTTATCTGTGCGAGTATAATGAGTAAA 57.321 33.333 0.00 0.00 0.00 2.01
3140 4380 5.773176 TCACTAGTGTCAAGTCATGTAAGGA 59.227 40.000 21.99 0.00 0.00 3.36
3332 4572 1.894282 GAGCCCTTCGCCATAAGCC 60.894 63.158 0.00 0.00 38.78 4.35
3371 4611 0.890996 CCCTGTTGCAGTGAAGGACC 60.891 60.000 0.00 0.00 30.92 4.46
3849 5089 1.540267 TTAGCAAATGGTGGTTCCCG 58.460 50.000 0.00 0.00 39.22 5.14
3992 5277 6.538742 GCAAGGCTTACATGACAATCTTACTA 59.461 38.462 0.00 0.00 0.00 1.82
4130 5415 1.372128 GCCCACAAAGCGAGCAAAG 60.372 57.895 0.00 0.00 0.00 2.77
4911 6403 4.590647 TGTCAAGAATAGGCCAGAGATAGG 59.409 45.833 5.01 0.00 0.00 2.57
5216 6715 3.432326 GCCCTCGTCATCAAAGATTACCT 60.432 47.826 0.00 0.00 0.00 3.08
5232 6731 1.588824 TTCATGCTTTGCTGCCCTCG 61.589 55.000 0.00 0.00 0.00 4.63
5388 6888 4.351192 GAATTCGGCAACAATGATGTACC 58.649 43.478 0.00 0.00 39.40 3.34
5578 7078 0.101219 CACTGATCATGGCGAGACGA 59.899 55.000 0.00 0.00 0.00 4.20
5580 7080 0.461548 TCCACTGATCATGGCGAGAC 59.538 55.000 15.47 0.00 37.13 3.36
5647 7147 3.501828 ACAAAAGATATGTGCAAGCGACA 59.498 39.130 0.00 1.10 0.00 4.35
5666 7166 6.719370 AGCAAATGTGGACCTTTTATCTACAA 59.281 34.615 0.00 0.00 40.43 2.41
5803 7308 1.877443 GCTAACAAAAGTTGCTCCCGA 59.123 47.619 0.00 0.00 0.00 5.14
5809 7314 9.639601 AAATTTATAGGAGCTAACAAAAGTTGC 57.360 29.630 0.00 0.00 0.00 4.17
5817 7322 8.215736 GGGGTTAGAAATTTATAGGAGCTAACA 58.784 37.037 18.08 0.00 38.46 2.41
5902 7407 1.749334 CTCTAACTGGCGGGCCCTAG 61.749 65.000 22.43 17.47 34.56 3.02
5913 7418 2.125106 GGCGGCCACCTCTAACTG 60.125 66.667 15.62 0.00 0.00 3.16
6002 7507 3.679738 ACCATGCCAAAACGCCGG 61.680 61.111 0.00 0.00 0.00 6.13
6003 7508 2.430582 CACCATGCCAAAACGCCG 60.431 61.111 0.00 0.00 0.00 6.46
6004 7509 2.048316 CCACCATGCCAAAACGCC 60.048 61.111 0.00 0.00 0.00 5.68
6005 7510 2.738139 GCCACCATGCCAAAACGC 60.738 61.111 0.00 0.00 0.00 4.84
6006 7511 2.430582 CGCCACCATGCCAAAACG 60.431 61.111 0.00 0.00 0.00 3.60
6007 7512 2.048316 CCGCCACCATGCCAAAAC 60.048 61.111 0.00 0.00 0.00 2.43
6008 7513 2.522923 ACCGCCACCATGCCAAAA 60.523 55.556 0.00 0.00 0.00 2.44
6009 7514 3.301554 CACCGCCACCATGCCAAA 61.302 61.111 0.00 0.00 0.00 3.28
6013 7518 4.120331 GAAGCACCGCCACCATGC 62.120 66.667 0.00 0.00 39.74 4.06
6014 7519 3.803082 CGAAGCACCGCCACCATG 61.803 66.667 0.00 0.00 0.00 3.66
6021 7526 4.884257 TATCCGCCGAAGCACCGC 62.884 66.667 0.00 0.00 39.83 5.68
6022 7527 2.022129 GATATCCGCCGAAGCACCG 61.022 63.158 0.00 0.00 39.83 4.94
6023 7528 1.668151 GGATATCCGCCGAAGCACC 60.668 63.158 5.86 0.00 39.83 5.01
6024 7529 1.668151 GGGATATCCGCCGAAGCAC 60.668 63.158 15.69 0.00 39.83 4.40
6025 7530 2.741092 GGGATATCCGCCGAAGCA 59.259 61.111 15.69 0.00 39.83 3.91
6042 7547 4.602259 ATACGCCGCCATCCCACG 62.602 66.667 0.00 0.00 0.00 4.94
6043 7548 2.203153 AATACGCCGCCATCCCAC 60.203 61.111 0.00 0.00 0.00 4.61
6044 7549 2.203139 CAATACGCCGCCATCCCA 60.203 61.111 0.00 0.00 0.00 4.37
6045 7550 2.978010 CCAATACGCCGCCATCCC 60.978 66.667 0.00 0.00 0.00 3.85
6046 7551 1.961277 CTCCAATACGCCGCCATCC 60.961 63.158 0.00 0.00 0.00 3.51
6047 7552 1.961277 CCTCCAATACGCCGCCATC 60.961 63.158 0.00 0.00 0.00 3.51
6048 7553 2.111043 CCTCCAATACGCCGCCAT 59.889 61.111 0.00 0.00 0.00 4.40
6049 7554 4.169696 CCCTCCAATACGCCGCCA 62.170 66.667 0.00 0.00 0.00 5.69
6051 7556 4.547367 AGCCCTCCAATACGCCGC 62.547 66.667 0.00 0.00 0.00 6.53
6052 7557 2.588877 CAGCCCTCCAATACGCCG 60.589 66.667 0.00 0.00 0.00 6.46
6053 7558 2.902343 GCAGCCCTCCAATACGCC 60.902 66.667 0.00 0.00 0.00 5.68
6054 7559 2.124736 TGCAGCCCTCCAATACGC 60.125 61.111 0.00 0.00 0.00 4.42
6055 7560 0.464373 ATGTGCAGCCCTCCAATACG 60.464 55.000 0.00 0.00 0.00 3.06
6056 7561 1.027357 CATGTGCAGCCCTCCAATAC 58.973 55.000 0.00 0.00 0.00 1.89
6057 7562 0.106569 CCATGTGCAGCCCTCCAATA 60.107 55.000 0.00 0.00 0.00 1.90
6058 7563 1.380785 CCATGTGCAGCCCTCCAAT 60.381 57.895 0.00 0.00 0.00 3.16
6059 7564 1.496444 TACCATGTGCAGCCCTCCAA 61.496 55.000 0.00 0.00 0.00 3.53
6060 7565 1.913951 CTACCATGTGCAGCCCTCCA 61.914 60.000 0.00 0.00 0.00 3.86
6061 7566 1.153086 CTACCATGTGCAGCCCTCC 60.153 63.158 0.00 0.00 0.00 4.30
6062 7567 0.035056 AACTACCATGTGCAGCCCTC 60.035 55.000 0.00 0.00 0.00 4.30
6063 7568 0.405585 AAACTACCATGTGCAGCCCT 59.594 50.000 0.00 0.00 0.00 5.19
6064 7569 0.811281 GAAACTACCATGTGCAGCCC 59.189 55.000 0.00 0.00 0.00 5.19
6065 7570 1.533625 TGAAACTACCATGTGCAGCC 58.466 50.000 0.00 0.00 0.00 4.85
6066 7571 2.159338 CCATGAAACTACCATGTGCAGC 60.159 50.000 0.00 0.00 39.66 5.25
6067 7572 3.084039 ACCATGAAACTACCATGTGCAG 58.916 45.455 0.00 0.00 39.66 4.41
6068 7573 2.819019 CACCATGAAACTACCATGTGCA 59.181 45.455 0.00 0.00 39.66 4.57
6069 7574 2.164219 CCACCATGAAACTACCATGTGC 59.836 50.000 0.00 0.00 39.66 4.57
6070 7575 3.420893 ACCACCATGAAACTACCATGTG 58.579 45.455 0.00 0.00 39.66 3.21
6071 7576 3.806949 ACCACCATGAAACTACCATGT 57.193 42.857 0.00 0.00 39.66 3.21
6072 7577 6.773976 AATAACCACCATGAAACTACCATG 57.226 37.500 0.00 0.00 40.66 3.66
6073 7578 7.093509 GGAAAATAACCACCATGAAACTACCAT 60.094 37.037 0.00 0.00 0.00 3.55
6074 7579 6.209788 GGAAAATAACCACCATGAAACTACCA 59.790 38.462 0.00 0.00 0.00 3.25
6075 7580 6.436218 AGGAAAATAACCACCATGAAACTACC 59.564 38.462 0.00 0.00 0.00 3.18
6076 7581 7.462571 AGGAAAATAACCACCATGAAACTAC 57.537 36.000 0.00 0.00 0.00 2.73
6077 7582 7.094549 CGAAGGAAAATAACCACCATGAAACTA 60.095 37.037 0.00 0.00 0.00 2.24
6078 7583 6.294508 CGAAGGAAAATAACCACCATGAAACT 60.295 38.462 0.00 0.00 0.00 2.66
6079 7584 5.861787 CGAAGGAAAATAACCACCATGAAAC 59.138 40.000 0.00 0.00 0.00 2.78
6080 7585 5.770663 TCGAAGGAAAATAACCACCATGAAA 59.229 36.000 0.00 0.00 0.00 2.69
6081 7586 5.317808 TCGAAGGAAAATAACCACCATGAA 58.682 37.500 0.00 0.00 0.00 2.57
6082 7587 4.912586 TCGAAGGAAAATAACCACCATGA 58.087 39.130 0.00 0.00 0.00 3.07
6083 7588 5.637006 TTCGAAGGAAAATAACCACCATG 57.363 39.130 0.00 0.00 0.00 3.66
6084 7589 6.658188 TTTTCGAAGGAAAATAACCACCAT 57.342 33.333 0.00 0.00 44.86 3.55
6095 7600 4.897140 TCCCGTATCTTTTTCGAAGGAAA 58.103 39.130 0.00 0.00 40.29 3.13
6096 7601 4.540359 TCCCGTATCTTTTTCGAAGGAA 57.460 40.909 0.00 0.00 0.00 3.36
6097 7602 4.501071 CTTCCCGTATCTTTTTCGAAGGA 58.499 43.478 0.00 0.00 0.00 3.36
6098 7603 3.621715 CCTTCCCGTATCTTTTTCGAAGG 59.378 47.826 0.00 0.00 0.00 3.46
6099 7604 4.251268 ACCTTCCCGTATCTTTTTCGAAG 58.749 43.478 0.00 0.00 0.00 3.79
6100 7605 4.248058 GACCTTCCCGTATCTTTTTCGAA 58.752 43.478 0.00 0.00 0.00 3.71
6101 7606 3.258872 TGACCTTCCCGTATCTTTTTCGA 59.741 43.478 0.00 0.00 0.00 3.71
6102 7607 3.592059 TGACCTTCCCGTATCTTTTTCG 58.408 45.455 0.00 0.00 0.00 3.46
6103 7608 5.429130 AGATGACCTTCCCGTATCTTTTTC 58.571 41.667 0.00 0.00 0.00 2.29
6104 7609 5.437191 AGATGACCTTCCCGTATCTTTTT 57.563 39.130 0.00 0.00 0.00 1.94
6105 7610 5.429130 GAAGATGACCTTCCCGTATCTTTT 58.571 41.667 0.00 0.00 44.27 2.27
6106 7611 5.024785 GAAGATGACCTTCCCGTATCTTT 57.975 43.478 0.00 0.00 44.27 2.52
6107 7612 4.674281 GAAGATGACCTTCCCGTATCTT 57.326 45.455 0.00 0.00 44.27 2.40
6117 7622 6.552350 CCATTGATTTATGGGAAGATGACCTT 59.448 38.462 0.00 0.00 41.18 3.50
6118 7623 6.073314 CCATTGATTTATGGGAAGATGACCT 58.927 40.000 0.00 0.00 41.18 3.85
6119 7624 6.070656 TCCATTGATTTATGGGAAGATGACC 58.929 40.000 0.00 0.00 44.32 4.02
6120 7625 7.503566 TCTTCCATTGATTTATGGGAAGATGAC 59.496 37.037 15.37 0.00 44.32 3.06
6121 7626 7.585440 TCTTCCATTGATTTATGGGAAGATGA 58.415 34.615 15.37 0.00 44.32 2.92
6122 7627 7.828508 TCTTCCATTGATTTATGGGAAGATG 57.171 36.000 15.37 0.00 44.32 2.90
6123 7628 8.843308 TTTCTTCCATTGATTTATGGGAAGAT 57.157 30.769 18.84 0.00 44.32 2.40
6124 7629 7.342799 CCTTTCTTCCATTGATTTATGGGAAGA 59.657 37.037 15.37 15.37 44.32 2.87
6125 7630 7.342799 TCCTTTCTTCCATTGATTTATGGGAAG 59.657 37.037 11.51 11.51 44.32 3.46
6126 7631 7.124147 GTCCTTTCTTCCATTGATTTATGGGAA 59.876 37.037 0.00 0.00 44.32 3.97
6127 7632 6.607198 GTCCTTTCTTCCATTGATTTATGGGA 59.393 38.462 0.00 0.00 44.32 4.37
6128 7633 6.183360 GGTCCTTTCTTCCATTGATTTATGGG 60.183 42.308 0.00 0.00 44.32 4.00
6129 7634 6.608808 AGGTCCTTTCTTCCATTGATTTATGG 59.391 38.462 0.00 0.00 45.34 2.74
6130 7635 7.559170 AGAGGTCCTTTCTTCCATTGATTTATG 59.441 37.037 0.00 0.00 0.00 1.90
6131 7636 7.646884 AGAGGTCCTTTCTTCCATTGATTTAT 58.353 34.615 0.00 0.00 0.00 1.40
6132 7637 7.032598 AGAGGTCCTTTCTTCCATTGATTTA 57.967 36.000 0.00 0.00 0.00 1.40
6133 7638 5.896963 AGAGGTCCTTTCTTCCATTGATTT 58.103 37.500 0.00 0.00 0.00 2.17
6134 7639 5.527026 AGAGGTCCTTTCTTCCATTGATT 57.473 39.130 0.00 0.00 0.00 2.57
6135 7640 5.527026 AAGAGGTCCTTTCTTCCATTGAT 57.473 39.130 0.00 0.00 29.05 2.57
6136 7641 5.324832 AAAGAGGTCCTTTCTTCCATTGA 57.675 39.130 0.00 0.00 40.97 2.57
6137 7642 6.717084 AGTAAAAGAGGTCCTTTCTTCCATTG 59.283 38.462 0.00 0.00 43.90 2.82
6138 7643 6.717084 CAGTAAAAGAGGTCCTTTCTTCCATT 59.283 38.462 0.00 0.00 43.90 3.16
6139 7644 6.241645 CAGTAAAAGAGGTCCTTTCTTCCAT 58.758 40.000 0.00 0.00 43.90 3.41
6140 7645 5.456186 CCAGTAAAAGAGGTCCTTTCTTCCA 60.456 44.000 0.00 0.00 43.90 3.53
6141 7646 5.004448 CCAGTAAAAGAGGTCCTTTCTTCC 58.996 45.833 0.00 0.00 43.90 3.46
6142 7647 5.866207 TCCAGTAAAAGAGGTCCTTTCTTC 58.134 41.667 0.00 0.00 43.90 2.87
6143 7648 5.906772 TCCAGTAAAAGAGGTCCTTTCTT 57.093 39.130 0.00 0.00 43.90 2.52
6144 7649 5.045505 GGATCCAGTAAAAGAGGTCCTTTCT 60.046 44.000 6.95 0.00 43.90 2.52
6145 7650 5.045505 AGGATCCAGTAAAAGAGGTCCTTTC 60.046 44.000 15.82 0.00 43.90 2.62
6146 7651 4.852697 AGGATCCAGTAAAAGAGGTCCTTT 59.147 41.667 15.82 0.00 46.47 3.11
6147 7652 4.439860 AGGATCCAGTAAAAGAGGTCCTT 58.560 43.478 15.82 0.00 32.60 3.36
6148 7653 4.034410 GAGGATCCAGTAAAAGAGGTCCT 58.966 47.826 15.82 0.00 36.39 3.85
6149 7654 4.034410 AGAGGATCCAGTAAAAGAGGTCC 58.966 47.826 15.82 0.00 33.66 4.46
6150 7655 6.793505 TTAGAGGATCCAGTAAAAGAGGTC 57.206 41.667 15.82 0.00 33.66 3.85
6151 7656 6.960542 TCTTTAGAGGATCCAGTAAAAGAGGT 59.039 38.462 15.82 0.00 33.66 3.85
6152 7657 7.425224 TCTTTAGAGGATCCAGTAAAAGAGG 57.575 40.000 15.82 5.70 33.66 3.69
6154 7659 9.716556 ACTATCTTTAGAGGATCCAGTAAAAGA 57.283 33.333 22.86 22.86 36.32 2.52
6155 7660 9.974980 GACTATCTTTAGAGGATCCAGTAAAAG 57.025 37.037 15.82 16.38 33.66 2.27
6156 7661 9.488762 TGACTATCTTTAGAGGATCCAGTAAAA 57.511 33.333 15.82 7.83 33.66 1.52
6157 7662 9.137459 CTGACTATCTTTAGAGGATCCAGTAAA 57.863 37.037 15.82 15.05 33.66 2.01
6158 7663 8.282982 ACTGACTATCTTTAGAGGATCCAGTAA 58.717 37.037 15.82 8.10 33.66 2.24
6159 7664 7.817440 ACTGACTATCTTTAGAGGATCCAGTA 58.183 38.462 15.82 1.31 33.66 2.74
6160 7665 6.678547 ACTGACTATCTTTAGAGGATCCAGT 58.321 40.000 15.82 4.81 33.66 4.00
6161 7666 7.004086 AGACTGACTATCTTTAGAGGATCCAG 58.996 42.308 15.82 1.63 33.66 3.86
6162 7667 6.916909 AGACTGACTATCTTTAGAGGATCCA 58.083 40.000 15.82 0.00 33.66 3.41
6163 7668 6.433093 GGAGACTGACTATCTTTAGAGGATCC 59.567 46.154 2.48 2.48 33.66 3.36
6164 7669 6.148811 CGGAGACTGACTATCTTTAGAGGATC 59.851 46.154 0.00 0.00 0.00 3.36
6165 7670 6.001460 CGGAGACTGACTATCTTTAGAGGAT 58.999 44.000 0.00 0.00 0.00 3.24
6166 7671 5.369833 CGGAGACTGACTATCTTTAGAGGA 58.630 45.833 0.00 0.00 0.00 3.71
6167 7672 4.517453 CCGGAGACTGACTATCTTTAGAGG 59.483 50.000 0.00 0.00 0.00 3.69
6168 7673 4.517453 CCCGGAGACTGACTATCTTTAGAG 59.483 50.000 0.73 0.00 0.00 2.43
6169 7674 4.165565 TCCCGGAGACTGACTATCTTTAGA 59.834 45.833 0.73 0.00 0.00 2.10
6170 7675 4.462133 TCCCGGAGACTGACTATCTTTAG 58.538 47.826 0.73 0.00 0.00 1.85
6171 7676 4.515028 TCCCGGAGACTGACTATCTTTA 57.485 45.455 0.73 0.00 0.00 1.85
6172 7677 3.383698 TCCCGGAGACTGACTATCTTT 57.616 47.619 0.73 0.00 0.00 2.52
6173 7678 3.025262 GTTCCCGGAGACTGACTATCTT 58.975 50.000 0.73 0.00 0.00 2.40
6174 7679 2.242708 AGTTCCCGGAGACTGACTATCT 59.757 50.000 0.73 0.00 0.00 1.98
6175 7680 2.359531 CAGTTCCCGGAGACTGACTATC 59.640 54.545 24.48 0.00 44.65 2.08
6176 7681 2.291670 ACAGTTCCCGGAGACTGACTAT 60.292 50.000 31.19 14.72 44.65 2.12
6177 7682 1.075050 ACAGTTCCCGGAGACTGACTA 59.925 52.381 31.19 1.03 44.65 2.59
6178 7683 0.178958 ACAGTTCCCGGAGACTGACT 60.179 55.000 31.19 15.54 44.65 3.41
6179 7684 0.680061 AACAGTTCCCGGAGACTGAC 59.320 55.000 31.19 12.51 44.65 3.51
6180 7685 0.679505 CAACAGTTCCCGGAGACTGA 59.320 55.000 31.19 8.50 44.65 3.41
6181 7686 0.320771 CCAACAGTTCCCGGAGACTG 60.321 60.000 26.01 26.01 46.65 3.51
6182 7687 0.763223 ACCAACAGTTCCCGGAGACT 60.763 55.000 0.73 2.89 0.00 3.24
6183 7688 0.602905 CACCAACAGTTCCCGGAGAC 60.603 60.000 0.73 0.00 0.00 3.36
6184 7689 0.761323 TCACCAACAGTTCCCGGAGA 60.761 55.000 0.73 0.00 0.00 3.71
6185 7690 0.602905 GTCACCAACAGTTCCCGGAG 60.603 60.000 0.73 0.00 0.00 4.63
6186 7691 1.448497 GTCACCAACAGTTCCCGGA 59.552 57.895 0.73 0.00 0.00 5.14
6187 7692 1.959226 CGTCACCAACAGTTCCCGG 60.959 63.158 0.00 0.00 0.00 5.73
6188 7693 0.812412 AACGTCACCAACAGTTCCCG 60.812 55.000 0.00 0.00 0.00 5.14
6189 7694 1.332686 GAAACGTCACCAACAGTTCCC 59.667 52.381 0.00 0.00 0.00 3.97
6190 7695 2.285977 AGAAACGTCACCAACAGTTCC 58.714 47.619 0.00 0.00 0.00 3.62
6191 7696 3.126343 ACAAGAAACGTCACCAACAGTTC 59.874 43.478 0.00 0.00 0.00 3.01
6192 7697 3.078837 ACAAGAAACGTCACCAACAGTT 58.921 40.909 0.00 0.00 0.00 3.16
6193 7698 2.676342 GACAAGAAACGTCACCAACAGT 59.324 45.455 0.00 0.00 33.43 3.55
6194 7699 2.031683 GGACAAGAAACGTCACCAACAG 59.968 50.000 0.00 0.00 34.97 3.16
6195 7700 2.011222 GGACAAGAAACGTCACCAACA 58.989 47.619 0.00 0.00 34.97 3.33
6196 7701 1.332686 GGGACAAGAAACGTCACCAAC 59.667 52.381 0.00 0.00 34.97 3.77
6197 7702 1.210967 AGGGACAAGAAACGTCACCAA 59.789 47.619 0.00 0.00 37.52 3.67
6198 7703 0.834612 AGGGACAAGAAACGTCACCA 59.165 50.000 0.00 0.00 37.52 4.17
6199 7704 2.036862 AGTAGGGACAAGAAACGTCACC 59.963 50.000 0.00 0.00 37.52 4.02
6200 7705 3.382048 AGTAGGGACAAGAAACGTCAC 57.618 47.619 0.00 0.00 37.04 3.67
6201 7706 4.411256 AAAGTAGGGACAAGAAACGTCA 57.589 40.909 0.00 0.00 34.97 4.35
6202 7707 5.065602 ACAAAAAGTAGGGACAAGAAACGTC 59.934 40.000 0.00 0.00 0.00 4.34
6203 7708 4.945543 ACAAAAAGTAGGGACAAGAAACGT 59.054 37.500 0.00 0.00 0.00 3.99
6204 7709 5.494632 ACAAAAAGTAGGGACAAGAAACG 57.505 39.130 0.00 0.00 0.00 3.60
6205 7710 9.459640 GATTTACAAAAAGTAGGGACAAGAAAC 57.540 33.333 0.00 0.00 33.43 2.78
6206 7711 8.347035 CGATTTACAAAAAGTAGGGACAAGAAA 58.653 33.333 0.00 0.00 33.43 2.52
6207 7712 7.716123 TCGATTTACAAAAAGTAGGGACAAGAA 59.284 33.333 0.00 0.00 33.43 2.52
6208 7713 7.218614 TCGATTTACAAAAAGTAGGGACAAGA 58.781 34.615 0.00 0.00 33.43 3.02
6209 7714 7.429636 TCGATTTACAAAAAGTAGGGACAAG 57.570 36.000 0.00 0.00 33.43 3.16
6210 7715 7.804843 TTCGATTTACAAAAAGTAGGGACAA 57.195 32.000 0.00 0.00 33.43 3.18


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

AutoCloner maintained by Alex Coulton.