Multiple sequence alignment - TraesCS1D01G441900

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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 TraesCS1D01G441900 chr1D 100.000 5710 0 0 1 5710 486754102 486759811 0.000000e+00 10545.0
1 TraesCS1D01G441900 chr1D 82.065 4048 615 67 991 4972 486400912 486396910 0.000000e+00 3350.0
2 TraesCS1D01G441900 chr1D 86.145 1725 205 12 879 2581 486733369 486735081 0.000000e+00 1831.0
3 TraesCS1D01G441900 chr1D 82.210 2063 264 51 3382 5395 396183155 396181147 0.000000e+00 1681.0
4 TraesCS1D01G441900 chr1D 84.884 1290 167 13 2117 3378 396184646 396183357 0.000000e+00 1277.0
5 TraesCS1D01G441900 chr1D 83.562 1241 182 14 878 2114 396185900 396184678 0.000000e+00 1142.0
6 TraesCS1D01G441900 chr1D 79.581 1621 263 42 3384 4978 486736133 486737711 0.000000e+00 1098.0
7 TraesCS1D01G441900 chr1D 85.605 785 106 4 2596 3378 486735135 486735914 0.000000e+00 817.0
8 TraesCS1D01G441900 chr1D 80.146 1098 143 37 4042 5128 482061858 482060825 0.000000e+00 750.0
9 TraesCS1D01G441900 chr1A 95.351 5550 165 18 1 5543 584350999 584356462 0.000000e+00 8733.0
10 TraesCS1D01G441900 chr1A 84.004 1019 132 14 2388 3377 584072349 584071333 0.000000e+00 950.0
11 TraesCS1D01G441900 chr1A 84.425 931 129 9 3388 4303 584071136 584070207 0.000000e+00 902.0
12 TraesCS1D01G441900 chr1A 82.008 717 93 7 1226 1921 584073063 584072362 1.380000e-160 577.0
13 TraesCS1D01G441900 chr1A 83.871 341 48 5 886 1221 584073568 584073230 9.230000e-83 318.0
14 TraesCS1D01G441900 chr1B 82.891 2525 369 38 887 3368 677382827 677380323 0.000000e+00 2211.0
15 TraesCS1D01G441900 chr1B 83.309 1372 191 28 3384 4726 677633198 677634560 0.000000e+00 1230.0
16 TraesCS1D01G441900 chr1B 79.618 1624 246 53 3388 4979 677380117 677378547 0.000000e+00 1086.0
17 TraesCS1D01G441900 chr1B 81.833 1255 187 25 857 2101 677630413 677631636 0.000000e+00 1016.0
18 TraesCS1D01G441900 chr1B 84.674 783 117 1 2596 3378 677632200 677632979 0.000000e+00 778.0
19 TraesCS1D01G441900 chr1B 86.538 468 63 0 2117 2584 677631682 677632149 3.050000e-142 516.0
20 TraesCS1D01G441900 chr2A 86.549 1762 221 11 827 2578 750412385 750410630 0.000000e+00 1927.0
21 TraesCS1D01G441900 chr2A 87.653 737 85 3 2644 3377 750410543 750409810 0.000000e+00 852.0
22 TraesCS1D01G441900 chr2A 81.748 652 101 10 3382 4015 750383311 750382660 3.920000e-146 529.0
23 TraesCS1D01G441900 chr4A 74.335 752 153 29 1808 2536 716998235 716997501 3.370000e-72 283.0
24 TraesCS1D01G441900 chr4A 74.895 478 94 16 1804 2265 676543678 676544145 1.620000e-45 195.0
25 TraesCS1D01G441900 chr4A 80.220 91 14 4 4567 4655 574109382 574109470 1.330000e-06 65.8
26 TraesCS1D01G441900 chr4A 80.435 92 12 5 4567 4655 574120930 574121018 1.330000e-06 65.8
27 TraesCS1D01G441900 chr4A 79.121 91 15 3 4567 4655 456852706 456852794 6.180000e-05 60.2
28 TraesCS1D01G441900 chr7D 73.525 729 163 26 1802 2515 17258614 17259327 3.420000e-62 250.0
29 TraesCS1D01G441900 chr4D 80.645 93 14 3 4565 4655 14651819 14651909 1.030000e-07 69.4
30 TraesCS1D01G441900 chr3B 78.022 91 16 3 4567 4655 452976172 452976084 3.000000e-03 54.7


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 TraesCS1D01G441900 chr1D 486754102 486759811 5709 False 10545.000000 10545 100.0000 1 5710 1 chr1D.!!$F1 5709
1 TraesCS1D01G441900 chr1D 486396910 486400912 4002 True 3350.000000 3350 82.0650 991 4972 1 chr1D.!!$R2 3981
2 TraesCS1D01G441900 chr1D 396181147 396185900 4753 True 1366.666667 1681 83.5520 878 5395 3 chr1D.!!$R3 4517
3 TraesCS1D01G441900 chr1D 486733369 486737711 4342 False 1248.666667 1831 83.7770 879 4978 3 chr1D.!!$F2 4099
4 TraesCS1D01G441900 chr1D 482060825 482061858 1033 True 750.000000 750 80.1460 4042 5128 1 chr1D.!!$R1 1086
5 TraesCS1D01G441900 chr1A 584350999 584356462 5463 False 8733.000000 8733 95.3510 1 5543 1 chr1A.!!$F1 5542
6 TraesCS1D01G441900 chr1A 584070207 584073568 3361 True 686.750000 950 83.5770 886 4303 4 chr1A.!!$R1 3417
7 TraesCS1D01G441900 chr1B 677378547 677382827 4280 True 1648.500000 2211 81.2545 887 4979 2 chr1B.!!$R1 4092
8 TraesCS1D01G441900 chr1B 677630413 677634560 4147 False 885.000000 1230 84.0885 857 4726 4 chr1B.!!$F1 3869
9 TraesCS1D01G441900 chr2A 750409810 750412385 2575 True 1389.500000 1927 87.1010 827 3377 2 chr2A.!!$R2 2550
10 TraesCS1D01G441900 chr2A 750382660 750383311 651 True 529.000000 529 81.7480 3382 4015 1 chr2A.!!$R1 633
11 TraesCS1D01G441900 chr4A 716997501 716998235 734 True 283.000000 283 74.3350 1808 2536 1 chr4A.!!$R1 728
12 TraesCS1D01G441900 chr7D 17258614 17259327 713 False 250.000000 250 73.5250 1802 2515 1 chr7D.!!$F1 713

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
144 145 0.110869 TTGTTTCCCCTTACCCACCG 59.889 55.0 0.00 0.0 0.00 4.94 F
696 698 0.178924 AAATGTTGGGGAGCTTGCCT 60.179 50.0 0.00 0.0 0.00 4.75 F
1548 1750 0.390866 CAGAGGTCGTTGCAGAGCAT 60.391 55.0 7.76 0.0 38.76 3.79 F
1568 1770 0.463654 ATGCGTGTTGGCCGTCATAT 60.464 50.0 0.00 0.0 0.00 1.78 F
3116 3423 1.022735 GCCATCCAAGATGCTGACAG 58.977 55.0 0.00 0.0 0.00 3.51 F
3402 3928 1.133181 TGGTGGTCAGAGGGATGCAA 61.133 55.0 0.00 0.0 0.00 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1548 1750 0.175989 TATGACGGCCAACACGCATA 59.824 50.000 2.24 0.00 33.00 3.14 R
1568 1770 1.271163 CCTCCGGTTTCCAGTTGCTAA 60.271 52.381 0.00 0.00 0.00 3.09 R
3116 3423 2.208431 CATCTTCCTTCTCCATGACGC 58.792 52.381 0.00 0.00 0.00 5.19 R
3408 3934 4.022416 GCATTGAAGTAACATGTGTTCCCA 60.022 41.667 0.00 0.00 39.31 4.37 R
4194 4765 1.269569 TGCAACTCGTATGGCCTATCG 60.270 52.381 3.32 5.98 0.00 2.92 R
5293 5921 0.249120 CTGGTGACCGGCACTTCATA 59.751 55.000 22.54 4.81 46.86 2.15 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
28 29 8.040716 AGGAAAGGTATAATCACGTTTTCAAG 57.959 34.615 6.07 0.00 36.82 3.02
48 49 1.067060 GAACACACCTTTTCCCTGTGC 59.933 52.381 0.00 0.00 39.16 4.57
123 124 2.289133 GCCTTAGGTCATAGCTAGGCAC 60.289 54.545 13.78 7.11 39.75 5.01
124 125 3.235200 CCTTAGGTCATAGCTAGGCACT 58.765 50.000 0.00 3.88 46.37 4.40
125 126 3.643792 CCTTAGGTCATAGCTAGGCACTT 59.356 47.826 0.00 0.00 41.75 3.16
126 127 4.101741 CCTTAGGTCATAGCTAGGCACTTT 59.898 45.833 0.00 0.00 41.75 2.66
127 128 3.550437 AGGTCATAGCTAGGCACTTTG 57.450 47.619 0.00 0.00 41.75 2.77
128 129 2.840651 AGGTCATAGCTAGGCACTTTGT 59.159 45.455 0.00 0.00 41.75 2.83
129 130 3.264450 AGGTCATAGCTAGGCACTTTGTT 59.736 43.478 0.00 0.00 41.75 2.83
130 131 4.010349 GGTCATAGCTAGGCACTTTGTTT 58.990 43.478 0.00 0.00 41.75 2.83
131 132 4.095036 GGTCATAGCTAGGCACTTTGTTTC 59.905 45.833 0.00 0.00 41.75 2.78
132 133 4.095036 GTCATAGCTAGGCACTTTGTTTCC 59.905 45.833 0.00 0.00 41.75 3.13
133 134 1.911057 AGCTAGGCACTTTGTTTCCC 58.089 50.000 0.00 0.00 41.75 3.97
134 135 0.888619 GCTAGGCACTTTGTTTCCCC 59.111 55.000 0.00 0.00 41.75 4.81
135 136 1.547901 GCTAGGCACTTTGTTTCCCCT 60.548 52.381 0.00 0.00 41.75 4.79
136 137 2.876581 CTAGGCACTTTGTTTCCCCTT 58.123 47.619 0.00 0.00 41.75 3.95
137 138 3.812882 GCTAGGCACTTTGTTTCCCCTTA 60.813 47.826 0.00 0.00 41.75 2.69
138 139 2.594131 AGGCACTTTGTTTCCCCTTAC 58.406 47.619 0.00 0.00 27.25 2.34
139 140 1.616865 GGCACTTTGTTTCCCCTTACC 59.383 52.381 0.00 0.00 0.00 2.85
140 141 1.616865 GCACTTTGTTTCCCCTTACCC 59.383 52.381 0.00 0.00 0.00 3.69
141 142 2.952116 CACTTTGTTTCCCCTTACCCA 58.048 47.619 0.00 0.00 0.00 4.51
142 143 2.626266 CACTTTGTTTCCCCTTACCCAC 59.374 50.000 0.00 0.00 0.00 4.61
143 144 2.244695 CTTTGTTTCCCCTTACCCACC 58.755 52.381 0.00 0.00 0.00 4.61
144 145 0.110869 TTGTTTCCCCTTACCCACCG 59.889 55.000 0.00 0.00 0.00 4.94
145 146 0.767446 TGTTTCCCCTTACCCACCGA 60.767 55.000 0.00 0.00 0.00 4.69
146 147 0.321919 GTTTCCCCTTACCCACCGAC 60.322 60.000 0.00 0.00 0.00 4.79
203 204 4.595762 TCTCCCGTTCTTAATATTCCGG 57.404 45.455 0.00 0.00 35.32 5.14
211 212 5.467399 CGTTCTTAATATTCCGGCATGGTTA 59.533 40.000 0.00 0.00 39.52 2.85
389 390 3.548770 TGGCTAAATCTTGAGCATGGAG 58.451 45.455 1.81 0.00 40.64 3.86
390 391 2.883386 GGCTAAATCTTGAGCATGGAGG 59.117 50.000 1.81 0.00 40.64 4.30
391 392 3.434167 GGCTAAATCTTGAGCATGGAGGA 60.434 47.826 1.81 0.00 40.64 3.71
392 393 4.202441 GCTAAATCTTGAGCATGGAGGAA 58.798 43.478 0.00 0.00 38.62 3.36
423 424 8.641541 TCCAATTTAAGAAGTGCAAAGAAATCT 58.358 29.630 0.00 0.00 29.82 2.40
557 558 4.953579 GCCCAAAATCCACTCTACCAATTA 59.046 41.667 0.00 0.00 0.00 1.40
599 600 8.803397 AATTAGGTCTTTACTTGGATGGTTAC 57.197 34.615 0.00 0.00 0.00 2.50
696 698 0.178924 AAATGTTGGGGAGCTTGCCT 60.179 50.000 0.00 0.00 0.00 4.75
703 705 1.686325 GGGGAGCTTGCCTCGTGATA 61.686 60.000 0.00 0.00 41.71 2.15
721 723 4.767928 GTGATAGGAGAGGTGGTACATAGG 59.232 50.000 0.00 0.00 44.52 2.57
726 728 4.078571 AGGAGAGGTGGTACATAGGATTCA 60.079 45.833 0.00 0.00 44.52 2.57
777 779 6.825213 TCAAAATCATGGATTGGAGACTGTAG 59.175 38.462 0.00 0.00 32.14 2.74
813 815 5.069516 GTGCATAACATTTTGGGATGGAGAT 59.930 40.000 0.00 0.00 0.00 2.75
1221 1396 7.094549 GGCGTCTCTGACTCTATTGTCTTATAT 60.095 40.741 0.00 0.00 37.79 0.86
1453 1640 2.032528 TCTGGTCGCTTTGGGCTG 59.967 61.111 0.00 0.00 39.13 4.85
1455 1642 2.281484 TGGTCGCTTTGGGCTGTC 60.281 61.111 0.00 0.00 39.13 3.51
1458 1645 1.675641 GTCGCTTTGGGCTGTCCAT 60.676 57.895 0.00 0.00 46.52 3.41
1462 1649 2.146342 CGCTTTGGGCTGTCCATATAG 58.854 52.381 0.00 1.43 46.52 1.31
1494 1681 3.118629 GGTACAGATTCTGTGAGCATGGA 60.119 47.826 26.01 3.79 45.01 3.41
1524 1711 4.025360 TCAGTTCTATTTGGCATGGCAAT 58.975 39.130 32.28 23.36 0.00 3.56
1548 1750 0.390866 CAGAGGTCGTTGCAGAGCAT 60.391 55.000 7.76 0.00 38.76 3.79
1556 1758 0.729116 GTTGCAGAGCATATGCGTGT 59.271 50.000 25.05 10.55 46.87 4.49
1562 1764 2.024588 GCATATGCGTGTTGGCCG 59.975 61.111 12.82 0.00 0.00 6.13
1568 1770 0.463654 ATGCGTGTTGGCCGTCATAT 60.464 50.000 0.00 0.00 0.00 1.78
2020 2249 1.070914 GCTACCCTATGGTCTTCTGGC 59.929 57.143 0.00 0.00 43.06 4.85
2268 2527 4.528596 ACAAGATTACTCCTAGTGTGCAGT 59.471 41.667 0.00 0.00 0.00 4.40
2295 2554 1.301716 GTGGAAGGAAGAGCGCACA 60.302 57.895 11.47 0.00 0.00 4.57
2804 3108 9.605275 CCTAAGATCACTCTTGTCATATTTCAA 57.395 33.333 0.00 0.00 41.83 2.69
3116 3423 1.022735 GCCATCCAAGATGCTGACAG 58.977 55.000 0.00 0.00 0.00 3.51
3185 3498 5.413833 GCAAGGAACTGATTGATCAAGAGAA 59.586 40.000 19.33 3.86 40.86 2.87
3262 3575 2.983592 CCCCCACTTGGAACGCAC 60.984 66.667 0.00 0.00 37.39 5.34
3402 3928 1.133181 TGGTGGTCAGAGGGATGCAA 61.133 55.000 0.00 0.00 0.00 4.08
3408 3934 4.646492 GTGGTCAGAGGGATGCAAAATAAT 59.354 41.667 0.00 0.00 0.00 1.28
3680 4206 7.090808 GGTTCCTTGATAAATGGTTTGAAGAC 58.909 38.462 0.00 0.00 0.00 3.01
3718 4253 4.836175 TGGTTGAGTCACTATTCCACAGTA 59.164 41.667 0.00 0.00 0.00 2.74
4194 4765 5.606348 AGAGATTCAACTATGTCCACTCC 57.394 43.478 0.00 0.00 0.00 3.85
4389 4982 7.377397 TGTTGTTCCGATTCAAGAAAAATAACG 59.623 33.333 0.00 0.00 0.00 3.18
4430 5023 5.426509 TCCTCTAATTTTCAGGCATCTCAGA 59.573 40.000 0.00 0.00 0.00 3.27
4594 5187 1.750572 GCAAGCGACGAGAGCATCAG 61.751 60.000 0.00 0.00 37.82 2.90
4724 5321 4.161189 GGTCACTGATGAGGAGAAAGATGA 59.839 45.833 0.00 0.00 34.75 2.92
4727 5324 6.822676 GTCACTGATGAGGAGAAAGATGAATT 59.177 38.462 0.00 0.00 34.75 2.17
4854 5456 1.216678 TGGGAAGGGCTTGAAGTTTGA 59.783 47.619 0.00 0.00 0.00 2.69
4886 5488 1.266718 GCTCGAACCATTGCTTTGACA 59.733 47.619 0.00 0.00 0.00 3.58
4896 5498 7.193377 ACCATTGCTTTGACATTGATTTTTC 57.807 32.000 0.00 0.00 0.00 2.29
4911 5513 8.658609 CATTGATTTTTCGCTATTCAATTTGGT 58.341 29.630 0.00 0.00 35.44 3.67
4912 5514 8.600449 TTGATTTTTCGCTATTCAATTTGGTT 57.400 26.923 0.00 0.00 0.00 3.67
4913 5515 8.016497 TGATTTTTCGCTATTCAATTTGGTTG 57.984 30.769 0.00 0.00 39.25 3.77
4914 5516 7.655328 TGATTTTTCGCTATTCAATTTGGTTGT 59.345 29.630 0.00 0.00 38.95 3.32
4915 5517 9.134734 GATTTTTCGCTATTCAATTTGGTTGTA 57.865 29.630 0.00 0.00 38.95 2.41
4916 5518 8.873215 TTTTTCGCTATTCAATTTGGTTGTAA 57.127 26.923 0.00 0.00 38.95 2.41
4917 5519 8.873215 TTTTCGCTATTCAATTTGGTTGTAAA 57.127 26.923 0.00 0.00 38.95 2.01
5010 5626 5.691305 CCGAAATTGCAATCAGAAACTTGAA 59.309 36.000 13.38 0.00 0.00 2.69
5142 5770 5.554437 TTTGAACTGTGTCCACCATACTA 57.446 39.130 0.00 0.00 0.00 1.82
5208 5836 6.594788 AGACCGTACAAGGTTTGTTAGATA 57.405 37.500 0.00 0.00 46.09 1.98
5293 5921 2.009774 GCTGTATGGTTGCTTCGTCAT 58.990 47.619 0.00 0.00 0.00 3.06
5305 5933 1.860950 CTTCGTCATATGAAGTGCCGG 59.139 52.381 16.71 0.00 36.68 6.13
5389 6018 5.347342 CAAGGCATCTACAGACTAGAGTTG 58.653 45.833 0.00 0.00 0.00 3.16
5395 6024 5.826601 TCTACAGACTAGAGTTGCTGATG 57.173 43.478 0.00 0.00 32.86 3.07
5398 6027 2.114616 AGACTAGAGTTGCTGATGGGG 58.885 52.381 0.00 0.00 0.00 4.96
5402 6031 1.668826 AGAGTTGCTGATGGGGGTAA 58.331 50.000 0.00 0.00 0.00 2.85
5440 6069 0.458669 GGCTGAAGGGTTGATGCATG 59.541 55.000 2.46 0.00 0.00 4.06
5442 6071 1.179152 CTGAAGGGTTGATGCATGCA 58.821 50.000 25.04 25.04 0.00 3.96
5443 6072 1.754803 CTGAAGGGTTGATGCATGCAT 59.245 47.619 32.66 32.66 39.69 3.96
5444 6073 2.953648 CTGAAGGGTTGATGCATGCATA 59.046 45.455 32.27 16.12 36.70 3.14
5445 6074 2.689471 TGAAGGGTTGATGCATGCATAC 59.311 45.455 32.27 25.80 36.70 2.39
5446 6075 1.696063 AGGGTTGATGCATGCATACC 58.304 50.000 31.86 31.86 36.70 2.73
5447 6076 1.063792 AGGGTTGATGCATGCATACCA 60.064 47.619 36.39 27.61 36.99 3.25
5449 6078 2.481795 GGGTTGATGCATGCATACCAAC 60.482 50.000 36.39 35.71 36.99 3.77
5450 6079 2.481795 GGTTGATGCATGCATACCAACC 60.482 50.000 40.23 40.23 35.93 3.77
5451 6080 1.023502 TGATGCATGCATACCAACCG 58.976 50.000 32.27 0.00 36.70 4.44
5452 6081 0.311790 GATGCATGCATACCAACCGG 59.688 55.000 32.27 0.00 36.70 5.28
5453 6082 1.737355 ATGCATGCATACCAACCGGC 61.737 55.000 31.35 0.00 34.49 6.13
5454 6083 2.715005 CATGCATACCAACCGGCG 59.285 61.111 0.00 0.00 34.57 6.46
5455 6084 2.515991 ATGCATACCAACCGGCGG 60.516 61.111 27.06 27.06 34.57 6.13
5456 6085 4.787286 TGCATACCAACCGGCGGG 62.787 66.667 31.78 15.34 40.11 6.13
5543 6172 2.689034 CCGCTCTTCCCCCTTCCT 60.689 66.667 0.00 0.00 0.00 3.36
5544 6173 2.736826 CCGCTCTTCCCCCTTCCTC 61.737 68.421 0.00 0.00 0.00 3.71
5545 6174 2.904131 GCTCTTCCCCCTTCCTCG 59.096 66.667 0.00 0.00 0.00 4.63
5546 6175 1.686110 GCTCTTCCCCCTTCCTCGA 60.686 63.158 0.00 0.00 0.00 4.04
5547 6176 1.681486 GCTCTTCCCCCTTCCTCGAG 61.681 65.000 5.13 5.13 0.00 4.04
5548 6177 1.681486 CTCTTCCCCCTTCCTCGAGC 61.681 65.000 6.99 0.00 0.00 5.03
5549 6178 1.990060 CTTCCCCCTTCCTCGAGCA 60.990 63.158 6.99 0.00 0.00 4.26
5550 6179 2.245438 CTTCCCCCTTCCTCGAGCAC 62.245 65.000 6.99 0.00 0.00 4.40
5551 6180 2.685380 CCCCCTTCCTCGAGCACT 60.685 66.667 6.99 0.00 0.00 4.40
5552 6181 2.581354 CCCCTTCCTCGAGCACTG 59.419 66.667 6.99 0.00 0.00 3.66
5553 6182 2.581354 CCCTTCCTCGAGCACTGG 59.419 66.667 6.99 5.99 0.00 4.00
5554 6183 2.125350 CCTTCCTCGAGCACTGGC 60.125 66.667 6.99 0.00 41.61 4.85
5555 6184 2.125350 CTTCCTCGAGCACTGGCC 60.125 66.667 6.99 0.00 42.56 5.36
5556 6185 3.997064 CTTCCTCGAGCACTGGCCG 62.997 68.421 6.99 0.00 42.56 6.13
5571 6200 4.953868 CCGTGGCGTGTCGGTGAA 62.954 66.667 6.23 0.00 41.58 3.18
5572 6201 3.403057 CGTGGCGTGTCGGTGAAG 61.403 66.667 0.00 0.00 0.00 3.02
5573 6202 3.712881 GTGGCGTGTCGGTGAAGC 61.713 66.667 0.00 0.00 0.00 3.86
5593 6222 4.488136 CCATAGCGCAGGGCCACA 62.488 66.667 11.47 0.00 45.17 4.17
5594 6223 2.438254 CATAGCGCAGGGCCACAA 60.438 61.111 11.47 0.00 45.17 3.33
5595 6224 1.825191 CATAGCGCAGGGCCACAAT 60.825 57.895 11.47 0.00 45.17 2.71
5596 6225 0.534877 CATAGCGCAGGGCCACAATA 60.535 55.000 11.47 0.00 45.17 1.90
5597 6226 0.250467 ATAGCGCAGGGCCACAATAG 60.250 55.000 11.47 0.00 45.17 1.73
5598 6227 1.622607 TAGCGCAGGGCCACAATAGT 61.623 55.000 11.47 0.00 45.17 2.12
5599 6228 2.472909 GCGCAGGGCCACAATAGTC 61.473 63.158 6.18 0.00 34.80 2.59
5600 6229 1.819632 CGCAGGGCCACAATAGTCC 60.820 63.158 6.18 0.00 0.00 3.85
5601 6230 1.609783 GCAGGGCCACAATAGTCCT 59.390 57.895 6.18 0.00 0.00 3.85
5602 6231 0.464554 GCAGGGCCACAATAGTCCTC 60.465 60.000 6.18 0.00 0.00 3.71
5603 6232 1.207791 CAGGGCCACAATAGTCCTCT 58.792 55.000 6.18 0.00 0.00 3.69
5604 6233 1.139853 CAGGGCCACAATAGTCCTCTC 59.860 57.143 6.18 0.00 0.00 3.20
5605 6234 0.470341 GGGCCACAATAGTCCTCTCC 59.530 60.000 4.39 0.00 0.00 3.71
5606 6235 1.501582 GGCCACAATAGTCCTCTCCT 58.498 55.000 0.00 0.00 0.00 3.69
5607 6236 1.414550 GGCCACAATAGTCCTCTCCTC 59.585 57.143 0.00 0.00 0.00 3.71
5608 6237 2.111384 GCCACAATAGTCCTCTCCTCA 58.889 52.381 0.00 0.00 0.00 3.86
5609 6238 2.703007 GCCACAATAGTCCTCTCCTCAT 59.297 50.000 0.00 0.00 0.00 2.90
5610 6239 3.244044 GCCACAATAGTCCTCTCCTCATC 60.244 52.174 0.00 0.00 0.00 2.92
5611 6240 3.963374 CCACAATAGTCCTCTCCTCATCA 59.037 47.826 0.00 0.00 0.00 3.07
5612 6241 4.039004 CCACAATAGTCCTCTCCTCATCAG 59.961 50.000 0.00 0.00 0.00 2.90
5613 6242 4.648762 CACAATAGTCCTCTCCTCATCAGT 59.351 45.833 0.00 0.00 0.00 3.41
5614 6243 4.892934 ACAATAGTCCTCTCCTCATCAGTC 59.107 45.833 0.00 0.00 0.00 3.51
5615 6244 2.452600 AGTCCTCTCCTCATCAGTCC 57.547 55.000 0.00 0.00 0.00 3.85
5616 6245 1.028905 GTCCTCTCCTCATCAGTCCG 58.971 60.000 0.00 0.00 0.00 4.79
5617 6246 0.919710 TCCTCTCCTCATCAGTCCGA 59.080 55.000 0.00 0.00 0.00 4.55
5618 6247 1.496857 TCCTCTCCTCATCAGTCCGAT 59.503 52.381 0.00 0.00 33.27 4.18
5626 6255 2.967599 CATCAGTCCGATGTTCCTGA 57.032 50.000 0.00 0.00 45.61 3.86
5627 6256 2.544685 CATCAGTCCGATGTTCCTGAC 58.455 52.381 0.00 0.00 45.61 3.51
5628 6257 1.924731 TCAGTCCGATGTTCCTGACT 58.075 50.000 0.00 0.00 38.56 3.41
5629 6258 1.819288 TCAGTCCGATGTTCCTGACTC 59.181 52.381 0.00 0.00 35.97 3.36
5630 6259 0.811915 AGTCCGATGTTCCTGACTCG 59.188 55.000 0.00 0.00 32.85 4.18
5631 6260 0.802607 GTCCGATGTTCCTGACTCGC 60.803 60.000 0.00 0.00 31.74 5.03
5632 6261 1.519455 CCGATGTTCCTGACTCGCC 60.519 63.158 0.00 0.00 31.74 5.54
5633 6262 1.215382 CGATGTTCCTGACTCGCCA 59.785 57.895 0.00 0.00 0.00 5.69
5634 6263 0.389817 CGATGTTCCTGACTCGCCAA 60.390 55.000 0.00 0.00 0.00 4.52
5635 6264 1.079503 GATGTTCCTGACTCGCCAAC 58.920 55.000 0.00 0.00 0.00 3.77
5636 6265 0.670546 ATGTTCCTGACTCGCCAACG 60.671 55.000 0.00 0.00 42.01 4.10
5637 6266 2.357034 TTCCTGACTCGCCAACGC 60.357 61.111 0.00 0.00 39.84 4.84
5638 6267 3.158537 TTCCTGACTCGCCAACGCA 62.159 57.895 0.00 0.00 39.84 5.24
5639 6268 3.414700 CCTGACTCGCCAACGCAC 61.415 66.667 0.00 0.00 39.84 5.34
5640 6269 3.767230 CTGACTCGCCAACGCACG 61.767 66.667 0.00 0.00 39.84 5.34
5641 6270 4.273257 TGACTCGCCAACGCACGA 62.273 61.111 0.00 0.00 39.84 4.35
5642 6271 2.809601 GACTCGCCAACGCACGAT 60.810 61.111 0.00 0.00 37.72 3.73
5643 6272 1.515519 GACTCGCCAACGCACGATA 60.516 57.895 0.00 0.00 37.72 2.92
5644 6273 1.472276 GACTCGCCAACGCACGATAG 61.472 60.000 0.00 0.00 37.72 2.08
5645 6274 1.226575 CTCGCCAACGCACGATAGA 60.227 57.895 0.00 0.00 37.72 1.98
5646 6275 0.595053 CTCGCCAACGCACGATAGAT 60.595 55.000 0.00 0.00 37.72 1.98
5647 6276 0.179121 TCGCCAACGCACGATAGATT 60.179 50.000 0.00 0.00 39.84 2.40
5648 6277 0.650512 CGCCAACGCACGATAGATTT 59.349 50.000 0.00 0.00 41.38 2.17
5649 6278 1.062002 CGCCAACGCACGATAGATTTT 59.938 47.619 0.00 0.00 41.38 1.82
5650 6279 2.475519 CGCCAACGCACGATAGATTTTT 60.476 45.455 0.00 0.00 41.38 1.94
5673 6302 7.675962 TTTTTAAGTGATGTAGTGGCGTAAT 57.324 32.000 0.00 0.00 0.00 1.89
5674 6303 6.656314 TTTAAGTGATGTAGTGGCGTAATG 57.344 37.500 0.00 0.00 0.00 1.90
5675 6304 3.887621 AGTGATGTAGTGGCGTAATGT 57.112 42.857 0.00 0.00 0.00 2.71
5676 6305 4.994907 AGTGATGTAGTGGCGTAATGTA 57.005 40.909 0.00 0.00 0.00 2.29
5677 6306 4.933330 AGTGATGTAGTGGCGTAATGTAG 58.067 43.478 0.00 0.00 0.00 2.74
5678 6307 3.489785 GTGATGTAGTGGCGTAATGTAGC 59.510 47.826 0.00 0.00 0.00 3.58
5679 6308 3.383505 TGATGTAGTGGCGTAATGTAGCT 59.616 43.478 0.00 0.00 0.00 3.32
5680 6309 3.159353 TGTAGTGGCGTAATGTAGCTG 57.841 47.619 0.00 0.00 0.00 4.24
5681 6310 2.494471 TGTAGTGGCGTAATGTAGCTGT 59.506 45.455 0.00 0.00 0.00 4.40
5682 6311 2.762535 AGTGGCGTAATGTAGCTGTT 57.237 45.000 0.00 0.00 0.00 3.16
5683 6312 2.618053 AGTGGCGTAATGTAGCTGTTC 58.382 47.619 0.00 0.00 0.00 3.18
5684 6313 2.233922 AGTGGCGTAATGTAGCTGTTCT 59.766 45.455 0.00 0.00 0.00 3.01
5685 6314 2.348666 GTGGCGTAATGTAGCTGTTCTG 59.651 50.000 0.00 0.00 0.00 3.02
5686 6315 2.028476 TGGCGTAATGTAGCTGTTCTGT 60.028 45.455 0.00 0.00 0.00 3.41
5687 6316 3.000727 GGCGTAATGTAGCTGTTCTGTT 58.999 45.455 0.00 0.00 0.00 3.16
5688 6317 3.062234 GGCGTAATGTAGCTGTTCTGTTC 59.938 47.826 0.00 0.00 0.00 3.18
5689 6318 3.678072 GCGTAATGTAGCTGTTCTGTTCA 59.322 43.478 0.00 0.00 0.00 3.18
5690 6319 4.434330 GCGTAATGTAGCTGTTCTGTTCAC 60.434 45.833 0.00 0.00 0.00 3.18
5691 6320 4.684242 CGTAATGTAGCTGTTCTGTTCACA 59.316 41.667 0.00 0.00 0.00 3.58
5692 6321 5.176774 CGTAATGTAGCTGTTCTGTTCACAA 59.823 40.000 0.00 0.00 0.00 3.33
5693 6322 6.292649 CGTAATGTAGCTGTTCTGTTCACAAA 60.293 38.462 0.00 0.00 0.00 2.83
5694 6323 6.449635 AATGTAGCTGTTCTGTTCACAAAA 57.550 33.333 0.00 0.00 0.00 2.44
5695 6324 6.639632 ATGTAGCTGTTCTGTTCACAAAAT 57.360 33.333 0.00 0.00 0.00 1.82
5696 6325 6.449635 TGTAGCTGTTCTGTTCACAAAATT 57.550 33.333 0.00 0.00 0.00 1.82
5697 6326 6.494842 TGTAGCTGTTCTGTTCACAAAATTC 58.505 36.000 0.00 0.00 0.00 2.17
5698 6327 5.581126 AGCTGTTCTGTTCACAAAATTCA 57.419 34.783 0.00 0.00 0.00 2.57
5699 6328 5.585390 AGCTGTTCTGTTCACAAAATTCAG 58.415 37.500 0.00 0.00 0.00 3.02
5700 6329 4.741676 GCTGTTCTGTTCACAAAATTCAGG 59.258 41.667 0.00 0.00 0.00 3.86
5701 6330 5.450412 GCTGTTCTGTTCACAAAATTCAGGA 60.450 40.000 0.00 0.00 0.00 3.86
5702 6331 5.890334 TGTTCTGTTCACAAAATTCAGGAC 58.110 37.500 0.00 0.00 35.80 3.85
5703 6332 5.163561 TGTTCTGTTCACAAAATTCAGGACC 60.164 40.000 0.00 0.00 34.75 4.46
5704 6333 4.531854 TCTGTTCACAAAATTCAGGACCA 58.468 39.130 0.00 0.00 0.00 4.02
5705 6334 4.952957 TCTGTTCACAAAATTCAGGACCAA 59.047 37.500 0.00 0.00 0.00 3.67
5706 6335 5.420421 TCTGTTCACAAAATTCAGGACCAAA 59.580 36.000 0.00 0.00 0.00 3.28
5707 6336 6.098124 TCTGTTCACAAAATTCAGGACCAAAT 59.902 34.615 0.00 0.00 0.00 2.32
5708 6337 6.648192 TGTTCACAAAATTCAGGACCAAATT 58.352 32.000 0.00 0.00 0.00 1.82
5709 6338 6.538021 TGTTCACAAAATTCAGGACCAAATTG 59.462 34.615 5.82 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 4.561213 GGAAAAGGTGTGTTCTTGAAAACG 59.439 41.667 0.00 0.00 31.58 3.60
28 29 1.067060 GCACAGGGAAAAGGTGTGTTC 59.933 52.381 3.83 0.00 42.96 3.18
123 124 2.244695 GGTGGGTAAGGGGAAACAAAG 58.755 52.381 0.00 0.00 0.00 2.77
124 125 1.479021 CGGTGGGTAAGGGGAAACAAA 60.479 52.381 0.00 0.00 0.00 2.83
125 126 0.110869 CGGTGGGTAAGGGGAAACAA 59.889 55.000 0.00 0.00 0.00 2.83
126 127 0.767446 TCGGTGGGTAAGGGGAAACA 60.767 55.000 0.00 0.00 0.00 2.83
127 128 0.321919 GTCGGTGGGTAAGGGGAAAC 60.322 60.000 0.00 0.00 0.00 2.78
128 129 0.474273 AGTCGGTGGGTAAGGGGAAA 60.474 55.000 0.00 0.00 0.00 3.13
129 130 0.474273 AAGTCGGTGGGTAAGGGGAA 60.474 55.000 0.00 0.00 0.00 3.97
130 131 0.474273 AAAGTCGGTGGGTAAGGGGA 60.474 55.000 0.00 0.00 0.00 4.81
131 132 0.322187 CAAAGTCGGTGGGTAAGGGG 60.322 60.000 0.00 0.00 0.00 4.79
132 133 0.399075 ACAAAGTCGGTGGGTAAGGG 59.601 55.000 0.00 0.00 0.00 3.95
133 134 1.609841 GGACAAAGTCGGTGGGTAAGG 60.610 57.143 0.00 0.00 32.65 2.69
134 135 1.346722 AGGACAAAGTCGGTGGGTAAG 59.653 52.381 0.00 0.00 32.65 2.34
135 136 1.071071 CAGGACAAAGTCGGTGGGTAA 59.929 52.381 0.00 0.00 32.65 2.85
136 137 0.682852 CAGGACAAAGTCGGTGGGTA 59.317 55.000 0.00 0.00 32.65 3.69
137 138 1.450211 CAGGACAAAGTCGGTGGGT 59.550 57.895 0.00 0.00 32.65 4.51
138 139 1.302511 CCAGGACAAAGTCGGTGGG 60.303 63.158 8.53 0.00 35.20 4.61
139 140 0.602905 GACCAGGACAAAGTCGGTGG 60.603 60.000 12.89 12.89 40.77 4.61
140 141 2.914379 GACCAGGACAAAGTCGGTG 58.086 57.895 0.00 0.00 29.05 4.94
144 145 0.602905 CACCCGACCAGGACAAAGTC 60.603 60.000 0.00 0.00 45.00 3.01
145 146 1.450211 CACCCGACCAGGACAAAGT 59.550 57.895 0.00 0.00 45.00 2.66
146 147 1.966451 GCACCCGACCAGGACAAAG 60.966 63.158 0.00 0.00 45.00 2.77
389 390 6.071391 TGCACTTCTTAAATTGGATTCCTTCC 60.071 38.462 3.95 0.00 45.69 3.46
390 391 6.924111 TGCACTTCTTAAATTGGATTCCTTC 58.076 36.000 3.95 0.00 0.00 3.46
391 392 6.916360 TGCACTTCTTAAATTGGATTCCTT 57.084 33.333 3.95 0.00 0.00 3.36
392 393 6.916360 TTGCACTTCTTAAATTGGATTCCT 57.084 33.333 3.95 0.00 0.00 3.36
423 424 8.421002 TCACCTCATCGATTATGATTTGAACTA 58.579 33.333 0.00 0.00 43.70 2.24
514 515 2.286833 GCAAAATCCGAACATAGCGCTA 59.713 45.455 21.30 21.30 0.00 4.26
696 698 2.240414 TGTACCACCTCTCCTATCACGA 59.760 50.000 0.00 0.00 0.00 4.35
703 705 4.078571 TGAATCCTATGTACCACCTCTCCT 60.079 45.833 0.00 0.00 0.00 3.69
822 824 2.096069 CACACTCCGATGCTCAAACAAG 60.096 50.000 0.00 0.00 0.00 3.16
835 837 1.299541 AGCTTTTCACACACACTCCG 58.700 50.000 0.00 0.00 0.00 4.63
1148 1161 5.125356 TCATGATTGTGTTGCGGATAAGAT 58.875 37.500 0.00 0.00 0.00 2.40
1152 1165 5.398169 GTTTTCATGATTGTGTTGCGGATA 58.602 37.500 0.00 0.00 0.00 2.59
1221 1396 1.505151 TTTGCATGGCCCCCAGTAGA 61.505 55.000 0.00 0.00 36.75 2.59
1453 1640 3.235200 ACCAGCTCCTCACTATATGGAC 58.765 50.000 0.00 0.00 0.00 4.02
1455 1642 4.152647 TGTACCAGCTCCTCACTATATGG 58.847 47.826 0.00 0.00 0.00 2.74
1458 1645 4.790718 TCTGTACCAGCTCCTCACTATA 57.209 45.455 0.00 0.00 0.00 1.31
1462 1649 2.763448 AGAATCTGTACCAGCTCCTCAC 59.237 50.000 0.00 0.00 0.00 3.51
1512 1699 3.018856 CTCTGAACTATTGCCATGCCAA 58.981 45.455 0.00 0.00 0.00 4.52
1524 1711 2.229062 CTCTGCAACGACCTCTGAACTA 59.771 50.000 0.00 0.00 0.00 2.24
1548 1750 0.175989 TATGACGGCCAACACGCATA 59.824 50.000 2.24 0.00 33.00 3.14
1556 1758 2.942376 CAGTTGCTAATATGACGGCCAA 59.058 45.455 2.24 0.00 0.00 4.52
1562 1764 4.035208 CCGGTTTCCAGTTGCTAATATGAC 59.965 45.833 0.00 0.00 0.00 3.06
1568 1770 1.271163 CCTCCGGTTTCCAGTTGCTAA 60.271 52.381 0.00 0.00 0.00 3.09
1590 1792 5.693961 TCCATATTATTCTCTGGCTTGCAA 58.306 37.500 0.00 0.00 0.00 4.08
2268 2527 1.626321 TCTTCCTTCCACCGTGCATAA 59.374 47.619 0.00 0.00 0.00 1.90
2295 2554 2.731572 CCCTCCATGCATCTGTTTCTT 58.268 47.619 0.00 0.00 0.00 2.52
3078 3385 2.620108 GGCCTTCTCTGCTTCTTCCATT 60.620 50.000 0.00 0.00 0.00 3.16
3116 3423 2.208431 CATCTTCCTTCTCCATGACGC 58.792 52.381 0.00 0.00 0.00 5.19
3185 3498 4.792513 ATCTCCCAGCATTCTTCTTCAT 57.207 40.909 0.00 0.00 0.00 2.57
3402 3928 8.415950 TGAAGTAACATGTGTTCCCATTATTT 57.584 30.769 0.00 0.00 39.31 1.40
3408 3934 4.022416 GCATTGAAGTAACATGTGTTCCCA 60.022 41.667 0.00 0.00 39.31 4.37
3592 4118 8.763984 AAATCTGAATTCCTTGAGCAGATATT 57.236 30.769 2.27 0.00 43.38 1.28
3597 4123 7.414984 GGTCTAAAATCTGAATTCCTTGAGCAG 60.415 40.741 2.27 0.00 0.00 4.24
3680 4206 5.738909 ACTCAACCATTGTATCTTCCTCAG 58.261 41.667 0.00 0.00 0.00 3.35
3718 4253 4.278419 GCTGGAGACATGTTTAACAACCTT 59.722 41.667 0.66 0.00 41.51 3.50
3763 4298 6.778821 TGAGATCAAGGTCCTCAATTGTAAA 58.221 36.000 5.13 0.00 34.38 2.01
4194 4765 1.269569 TGCAACTCGTATGGCCTATCG 60.270 52.381 3.32 5.98 0.00 2.92
4389 4982 9.794719 AATTAGAGGAAATAATAGTGGTTAGCC 57.205 33.333 0.00 0.00 0.00 3.93
4430 5023 1.728971 CGGTACTTGTACTCGTCGTCT 59.271 52.381 10.26 0.00 0.00 4.18
4550 5143 3.055167 AGAACCATGTTGGATCGTCATGA 60.055 43.478 18.39 0.00 43.27 3.07
4594 5187 6.635755 AGCACCTCTTTTAGTGATACTTCTC 58.364 40.000 0.00 0.00 36.01 2.87
4724 5321 3.012730 TCCCATCCATCTTTCACCCAATT 59.987 43.478 0.00 0.00 0.00 2.32
4727 5324 1.679981 TCCCATCCATCTTTCACCCA 58.320 50.000 0.00 0.00 0.00 4.51
4854 5456 1.634702 GTTCGAGCGAGCTCTTCATT 58.365 50.000 20.97 0.00 40.69 2.57
4886 5488 8.776376 ACCAAATTGAATAGCGAAAAATCAAT 57.224 26.923 0.00 0.00 41.20 2.57
4896 5498 7.381139 ACAAGTTTACAACCAAATTGAATAGCG 59.619 33.333 0.00 0.00 41.23 4.26
5109 5733 6.979817 TGGACACAGTTCAAAATTCTGAATTG 59.020 34.615 15.80 13.68 44.36 2.32
5142 5770 1.542492 CAGCTGCAGGTGAGGAAAAT 58.458 50.000 36.58 0.00 45.66 1.82
5220 5848 5.660417 TCAGAGAAGGCAAGATAGAATCTGT 59.340 40.000 0.00 0.00 40.13 3.41
5293 5921 0.249120 CTGGTGACCGGCACTTCATA 59.751 55.000 22.54 4.81 46.86 2.15
5325 5953 9.952030 TGGAAAACATTACATATGAACAGTCTA 57.048 29.630 10.38 0.00 0.00 2.59
5370 5999 4.097135 TCAGCAACTCTAGTCTGTAGATGC 59.903 45.833 9.26 9.26 32.59 3.91
5389 6018 6.127101 ACTAGTTTTATTTACCCCCATCAGC 58.873 40.000 0.00 0.00 0.00 4.26
5395 6024 6.593268 TTGCAACTAGTTTTATTTACCCCC 57.407 37.500 5.07 0.00 0.00 5.40
5398 6027 6.471198 GCCGATTGCAACTAGTTTTATTTACC 59.529 38.462 5.07 0.00 40.77 2.85
5402 6031 5.414454 TCAGCCGATTGCAACTAGTTTTATT 59.586 36.000 5.07 0.00 44.83 1.40
5524 6153 4.491409 GAAGGGGGAAGAGCGGGC 62.491 72.222 0.00 0.00 0.00 6.13
5534 6163 2.685380 AGTGCTCGAGGAAGGGGG 60.685 66.667 15.58 0.00 0.00 5.40
5555 6184 3.403057 CTTCACCGACACGCCACG 61.403 66.667 0.00 0.00 0.00 4.94
5556 6185 3.712881 GCTTCACCGACACGCCAC 61.713 66.667 0.00 0.00 0.00 5.01
5557 6186 4.980805 GGCTTCACCGACACGCCA 62.981 66.667 0.00 0.00 40.41 5.69
5576 6205 3.861292 TATTGTGGCCCTGCGCTATGG 62.861 57.143 9.73 7.56 37.74 2.74
5577 6206 0.534877 TATTGTGGCCCTGCGCTATG 60.535 55.000 9.73 0.00 37.74 2.23
5578 6207 0.250467 CTATTGTGGCCCTGCGCTAT 60.250 55.000 9.73 0.00 37.74 2.97
5579 6208 1.146041 CTATTGTGGCCCTGCGCTA 59.854 57.895 9.73 0.00 37.74 4.26
5580 6209 2.124570 CTATTGTGGCCCTGCGCT 60.125 61.111 9.73 0.00 37.74 5.92
5581 6210 2.438434 ACTATTGTGGCCCTGCGC 60.438 61.111 0.00 0.00 0.00 6.09
5582 6211 1.819632 GGACTATTGTGGCCCTGCG 60.820 63.158 0.00 0.00 0.00 5.18
5583 6212 0.464554 GAGGACTATTGTGGCCCTGC 60.465 60.000 0.00 0.00 0.00 4.85
5584 6213 1.139853 GAGAGGACTATTGTGGCCCTG 59.860 57.143 0.00 0.00 0.00 4.45
5585 6214 1.501582 GAGAGGACTATTGTGGCCCT 58.498 55.000 0.00 0.00 0.00 5.19
5586 6215 0.470341 GGAGAGGACTATTGTGGCCC 59.530 60.000 0.00 0.00 0.00 5.80
5587 6216 1.414550 GAGGAGAGGACTATTGTGGCC 59.585 57.143 0.00 0.00 0.00 5.36
5588 6217 2.111384 TGAGGAGAGGACTATTGTGGC 58.889 52.381 0.00 0.00 0.00 5.01
5589 6218 3.963374 TGATGAGGAGAGGACTATTGTGG 59.037 47.826 0.00 0.00 0.00 4.17
5590 6219 4.648762 ACTGATGAGGAGAGGACTATTGTG 59.351 45.833 0.00 0.00 0.00 3.33
5591 6220 4.877773 ACTGATGAGGAGAGGACTATTGT 58.122 43.478 0.00 0.00 0.00 2.71
5592 6221 4.280677 GGACTGATGAGGAGAGGACTATTG 59.719 50.000 0.00 0.00 0.00 1.90
5593 6222 4.479158 GGACTGATGAGGAGAGGACTATT 58.521 47.826 0.00 0.00 0.00 1.73
5594 6223 3.497763 CGGACTGATGAGGAGAGGACTAT 60.498 52.174 0.00 0.00 0.00 2.12
5595 6224 2.158740 CGGACTGATGAGGAGAGGACTA 60.159 54.545 0.00 0.00 0.00 2.59
5596 6225 1.409521 CGGACTGATGAGGAGAGGACT 60.410 57.143 0.00 0.00 0.00 3.85
5597 6226 1.028905 CGGACTGATGAGGAGAGGAC 58.971 60.000 0.00 0.00 0.00 3.85
5598 6227 0.919710 TCGGACTGATGAGGAGAGGA 59.080 55.000 0.00 0.00 0.00 3.71
5599 6228 1.993956 ATCGGACTGATGAGGAGAGG 58.006 55.000 0.00 0.00 35.45 3.69
5608 6237 2.428890 GAGTCAGGAACATCGGACTGAT 59.571 50.000 0.00 0.00 41.46 2.90
5609 6238 1.819288 GAGTCAGGAACATCGGACTGA 59.181 52.381 0.00 0.00 40.48 3.41
5610 6239 1.468224 CGAGTCAGGAACATCGGACTG 60.468 57.143 0.00 0.00 40.48 3.51
5611 6240 0.811915 CGAGTCAGGAACATCGGACT 59.188 55.000 0.00 0.00 42.90 3.85
5612 6241 0.802607 GCGAGTCAGGAACATCGGAC 60.803 60.000 0.00 0.00 35.76 4.79
5613 6242 1.511305 GCGAGTCAGGAACATCGGA 59.489 57.895 0.00 0.00 35.76 4.55
5614 6243 1.519455 GGCGAGTCAGGAACATCGG 60.519 63.158 0.00 0.00 35.76 4.18
5615 6244 0.389817 TTGGCGAGTCAGGAACATCG 60.390 55.000 0.00 0.00 38.19 3.84
5616 6245 1.079503 GTTGGCGAGTCAGGAACATC 58.920 55.000 0.00 0.00 0.00 3.06
5617 6246 0.670546 CGTTGGCGAGTCAGGAACAT 60.671 55.000 0.00 0.00 41.33 2.71
5618 6247 1.300620 CGTTGGCGAGTCAGGAACA 60.301 57.895 0.00 0.00 41.33 3.18
5619 6248 2.668280 GCGTTGGCGAGTCAGGAAC 61.668 63.158 0.00 0.00 41.33 3.62
5620 6249 2.357034 GCGTTGGCGAGTCAGGAA 60.357 61.111 0.00 0.00 41.33 3.36
5621 6250 3.611674 TGCGTTGGCGAGTCAGGA 61.612 61.111 0.00 0.00 44.10 3.86
5622 6251 3.414700 GTGCGTTGGCGAGTCAGG 61.415 66.667 0.00 0.00 44.10 3.86
5623 6252 3.767230 CGTGCGTTGGCGAGTCAG 61.767 66.667 0.00 0.00 44.10 3.51
5624 6253 2.202703 TATCGTGCGTTGGCGAGTCA 62.203 55.000 0.00 0.00 44.10 3.41
5625 6254 1.472276 CTATCGTGCGTTGGCGAGTC 61.472 60.000 0.00 0.00 44.10 3.36
5626 6255 1.516386 CTATCGTGCGTTGGCGAGT 60.516 57.895 0.00 0.00 44.10 4.18
5627 6256 0.595053 ATCTATCGTGCGTTGGCGAG 60.595 55.000 0.00 0.00 44.10 5.03
5628 6257 0.179121 AATCTATCGTGCGTTGGCGA 60.179 50.000 0.00 0.00 44.10 5.54
5629 6258 0.650512 AAATCTATCGTGCGTTGGCG 59.349 50.000 0.00 0.00 44.10 5.69
5630 6259 2.825086 AAAATCTATCGTGCGTTGGC 57.175 45.000 0.00 0.00 40.52 4.52
5649 6278 7.173562 ACATTACGCCACTACATCACTTAAAAA 59.826 33.333 0.00 0.00 0.00 1.94
5650 6279 6.651643 ACATTACGCCACTACATCACTTAAAA 59.348 34.615 0.00 0.00 0.00 1.52
5651 6280 6.167685 ACATTACGCCACTACATCACTTAAA 58.832 36.000 0.00 0.00 0.00 1.52
5652 6281 5.726397 ACATTACGCCACTACATCACTTAA 58.274 37.500 0.00 0.00 0.00 1.85
5653 6282 5.333299 ACATTACGCCACTACATCACTTA 57.667 39.130 0.00 0.00 0.00 2.24
5654 6283 4.202245 ACATTACGCCACTACATCACTT 57.798 40.909 0.00 0.00 0.00 3.16
5655 6284 3.887621 ACATTACGCCACTACATCACT 57.112 42.857 0.00 0.00 0.00 3.41
5656 6285 3.489785 GCTACATTACGCCACTACATCAC 59.510 47.826 0.00 0.00 0.00 3.06
5657 6286 3.383505 AGCTACATTACGCCACTACATCA 59.616 43.478 0.00 0.00 0.00 3.07
5658 6287 3.736252 CAGCTACATTACGCCACTACATC 59.264 47.826 0.00 0.00 0.00 3.06
5659 6288 3.132289 ACAGCTACATTACGCCACTACAT 59.868 43.478 0.00 0.00 0.00 2.29
5660 6289 2.494471 ACAGCTACATTACGCCACTACA 59.506 45.455 0.00 0.00 0.00 2.74
5661 6290 3.160777 ACAGCTACATTACGCCACTAC 57.839 47.619 0.00 0.00 0.00 2.73
5662 6291 3.446161 AGAACAGCTACATTACGCCACTA 59.554 43.478 0.00 0.00 0.00 2.74
5663 6292 2.233922 AGAACAGCTACATTACGCCACT 59.766 45.455 0.00 0.00 0.00 4.00
5664 6293 2.348666 CAGAACAGCTACATTACGCCAC 59.651 50.000 0.00 0.00 0.00 5.01
5665 6294 2.028476 ACAGAACAGCTACATTACGCCA 60.028 45.455 0.00 0.00 0.00 5.69
5666 6295 2.618053 ACAGAACAGCTACATTACGCC 58.382 47.619 0.00 0.00 0.00 5.68
5667 6296 3.678072 TGAACAGAACAGCTACATTACGC 59.322 43.478 0.00 0.00 0.00 4.42
5668 6297 4.684242 TGTGAACAGAACAGCTACATTACG 59.316 41.667 0.00 0.00 0.00 3.18
5669 6298 6.539649 TTGTGAACAGAACAGCTACATTAC 57.460 37.500 0.00 0.00 0.00 1.89
5670 6299 7.561021 TTTTGTGAACAGAACAGCTACATTA 57.439 32.000 0.00 0.00 0.00 1.90
5671 6300 6.449635 TTTTGTGAACAGAACAGCTACATT 57.550 33.333 0.00 0.00 0.00 2.71
5672 6301 6.639632 ATTTTGTGAACAGAACAGCTACAT 57.360 33.333 0.00 0.00 0.00 2.29
5673 6302 6.094742 TGAATTTTGTGAACAGAACAGCTACA 59.905 34.615 0.00 0.00 0.00 2.74
5674 6303 6.494842 TGAATTTTGTGAACAGAACAGCTAC 58.505 36.000 0.00 0.00 0.00 3.58
5675 6304 6.238731 CCTGAATTTTGTGAACAGAACAGCTA 60.239 38.462 0.00 0.00 0.00 3.32
5676 6305 5.450965 CCTGAATTTTGTGAACAGAACAGCT 60.451 40.000 0.00 0.00 0.00 4.24
5677 6306 4.741676 CCTGAATTTTGTGAACAGAACAGC 59.258 41.667 0.00 0.00 0.00 4.40
5678 6307 5.973565 GTCCTGAATTTTGTGAACAGAACAG 59.026 40.000 0.00 0.00 0.00 3.16
5679 6308 5.163561 GGTCCTGAATTTTGTGAACAGAACA 60.164 40.000 0.00 0.00 0.00 3.18
5680 6309 5.163561 TGGTCCTGAATTTTGTGAACAGAAC 60.164 40.000 0.00 0.00 0.00 3.01
5681 6310 4.952957 TGGTCCTGAATTTTGTGAACAGAA 59.047 37.500 0.00 0.00 0.00 3.02
5682 6311 4.531854 TGGTCCTGAATTTTGTGAACAGA 58.468 39.130 0.00 0.00 0.00 3.41
5683 6312 4.916983 TGGTCCTGAATTTTGTGAACAG 57.083 40.909 0.00 0.00 0.00 3.16
5684 6313 5.667539 TTTGGTCCTGAATTTTGTGAACA 57.332 34.783 0.00 0.00 0.00 3.18
5685 6314 6.947258 CAATTTGGTCCTGAATTTTGTGAAC 58.053 36.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.