Multiple sequence alignment - TraesCS2B01G008100

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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 TraesCS2B01G008100 chr2B 100.000 3186 0 0 1 3186 4726007 4729192 0.000000e+00 5884.0
1 TraesCS2B01G008100 chr2B 81.279 219 35 5 1890 2105 490790238 490790023 4.230000e-39 172.0
2 TraesCS2B01G008100 chr2B 84.848 99 14 1 1610 1708 4721140 4721237 7.270000e-17 99.0
3 TraesCS2B01G008100 chr2D 90.662 1360 87 19 1839 3186 8338567 8339898 0.000000e+00 1772.0
4 TraesCS2B01G008100 chr2D 87.784 1146 101 30 1 1134 8336310 8337428 0.000000e+00 1304.0
5 TraesCS2B01G008100 chr2D 96.809 188 5 1 1536 1722 8338238 8338425 2.390000e-81 313.0
6 TraesCS2B01G008100 chr2D 83.444 151 23 2 1956 2105 418764010 418763861 4.290000e-29 139.0
7 TraesCS2B01G008100 chr2A 85.104 960 98 26 1264 2193 7386268 7387212 0.000000e+00 939.0
8 TraesCS2B01G008100 chr2A 93.235 473 30 2 2715 3186 7402212 7402683 0.000000e+00 695.0
9 TraesCS2B01G008100 chr2A 92.157 408 26 5 2309 2713 7401196 7401600 3.570000e-159 571.0
10 TraesCS2B01G008100 chr2A 87.352 506 41 10 316 800 7378302 7378805 2.780000e-155 558.0
11 TraesCS2B01G008100 chr2A 88.128 219 19 7 2 217 7378086 7378300 1.470000e-63 254.0
12 TraesCS2B01G008100 chr2A 84.000 250 28 6 826 1075 7380387 7380624 2.470000e-56 230.0
13 TraesCS2B01G008100 chr2A 81.100 291 20 15 514 796 7327837 7328100 1.940000e-47 200.0
14 TraesCS2B01G008100 chr2A 90.833 120 8 2 2193 2312 7390462 7390578 1.180000e-34 158.0
15 TraesCS2B01G008100 chr5D 81.340 209 30 8 1891 2096 490870325 490870527 9.150000e-36 161.0
16 TraesCS2B01G008100 chr7D 87.407 135 17 0 1961 2095 619113052 619113186 4.260000e-34 156.0
17 TraesCS2B01G008100 chr7D 97.222 36 1 0 268 303 581754514 581754549 9.540000e-06 62.1
18 TraesCS2B01G008100 chr5B 80.769 208 33 6 1891 2096 605336405 605336607 4.260000e-34 156.0
19 TraesCS2B01G008100 chr5B 85.507 69 5 4 1126 1189 250605942 250605874 2.050000e-07 67.6
20 TraesCS2B01G008100 chr7B 85.816 141 20 0 1956 2096 714050001 714050141 1.980000e-32 150.0
21 TraesCS2B01G008100 chr5A 84.177 158 22 2 1939 2096 7453735 7453889 1.980000e-32 150.0
22 TraesCS2B01G008100 chr4B 88.710 62 5 2 1133 1192 621432505 621432444 1.230000e-09 75.0
23 TraesCS2B01G008100 chr1A 87.692 65 4 3 1137 1200 495446259 495446320 4.410000e-09 73.1
24 TraesCS2B01G008100 chrUn 87.097 62 7 1 254 315 71515276 71515216 5.700000e-08 69.4
25 TraesCS2B01G008100 chr6B 89.286 56 3 3 1134 1188 667073210 667073157 2.050000e-07 67.6
26 TraesCS2B01G008100 chr4D 86.667 60 6 2 1136 1193 322663811 322663870 7.380000e-07 65.8
27 TraesCS2B01G008100 chr4D 84.375 64 3 3 1137 1194 486185982 486185920 4.440000e-04 56.5
28 TraesCS2B01G008100 chr4D 84.375 64 3 3 1137 1193 486185925 486185988 4.440000e-04 56.5
29 TraesCS2B01G008100 chr7A 88.462 52 2 4 1139 1189 608671723 608671771 3.430000e-05 60.2
30 TraesCS2B01G008100 chr7A 84.746 59 6 2 1134 1189 538579004 538579062 4.440000e-04 56.5


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 TraesCS2B01G008100 chr2B 4726007 4729192 3185 False 5884.000000 5884 100.000000 1 3186 1 chr2B.!!$F2 3185
1 TraesCS2B01G008100 chr2D 8336310 8339898 3588 False 1129.666667 1772 91.751667 1 3186 3 chr2D.!!$F1 3185
2 TraesCS2B01G008100 chr2A 7401196 7402683 1487 False 633.000000 695 92.696000 2309 3186 2 chr2A.!!$F4 877
3 TraesCS2B01G008100 chr2A 7386268 7390578 4310 False 548.500000 939 87.968500 1264 2312 2 chr2A.!!$F3 1048
4 TraesCS2B01G008100 chr2A 7378086 7380624 2538 False 347.333333 558 86.493333 2 1075 3 chr2A.!!$F2 1073

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
925 2505 0.17576 ACACTGACACGCACAAGTCT 59.824 50.0 0.0 0.0 35.81 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2710 8131 0.109342 AGGCATCGATGTTGATCCCC 59.891 55.0 25.47 16.03 0.0 4.81 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
31 32 4.842531 TGATTCTATGCTTTGTCCAGGA 57.157 40.909 0.00 0.00 0.00 3.86
38 39 3.998913 TGCTTTGTCCAGGATCACATA 57.001 42.857 0.00 0.00 0.00 2.29
84 85 3.091545 ACAGGTTTAGCCATGTTCATGG 58.908 45.455 22.95 22.95 44.44 3.66
167 168 3.964909 GTGTTTGGCACTTTTCGATTCT 58.035 40.909 0.00 0.00 44.41 2.40
169 170 5.516090 GTGTTTGGCACTTTTCGATTCTAA 58.484 37.500 0.00 0.00 44.41 2.10
193 194 0.597118 TGCTGCAACATTGAAACCGC 60.597 50.000 0.00 0.00 0.00 5.68
203 204 1.964552 TTGAAACCGCTCCCGTTTAA 58.035 45.000 0.00 0.00 0.00 1.52
282 284 7.814107 TCAAAGAAATGCACCTTGCTTTATTAG 59.186 33.333 5.82 0.00 45.31 1.73
285 287 8.348285 AGAAATGCACCTTGCTTTATTAGTAA 57.652 30.769 0.00 0.00 45.31 2.24
286 288 8.462016 AGAAATGCACCTTGCTTTATTAGTAAG 58.538 33.333 0.00 0.00 45.31 2.34
287 289 7.703058 AATGCACCTTGCTTTATTAGTAAGT 57.297 32.000 0.00 0.00 45.31 2.24
288 290 8.801882 AATGCACCTTGCTTTATTAGTAAGTA 57.198 30.769 0.00 0.00 45.31 2.24
289 291 8.980481 ATGCACCTTGCTTTATTAGTAAGTAT 57.020 30.769 0.00 0.00 45.31 2.12
291 293 9.542462 TGCACCTTGCTTTATTAGTAAGTATAG 57.458 33.333 0.00 0.00 45.31 1.31
292 294 8.989980 GCACCTTGCTTTATTAGTAAGTATAGG 58.010 37.037 0.00 0.00 42.92 2.57
395 409 6.171213 ACTCTTAATAAAAACGGAGGGAGTG 58.829 40.000 0.00 0.00 0.00 3.51
420 434 4.271533 CGCATTCTTTGGCCGTTTAGTATA 59.728 41.667 0.00 0.00 0.00 1.47
598 621 1.472552 CCGATTTCCCGTAGATGCACA 60.473 52.381 0.00 0.00 0.00 4.57
603 626 0.824109 TCCCGTAGATGCACAAGGAG 59.176 55.000 0.00 0.00 0.00 3.69
609 632 1.279496 AGATGCACAAGGAGCCAGTA 58.721 50.000 0.00 0.00 0.00 2.74
759 783 2.038557 GGAGTCACTTCAGGTAAAGCCA 59.961 50.000 0.00 0.00 40.61 4.75
769 793 3.682885 TAAAGCCACGGCCGTCGA 61.683 61.111 31.80 2.03 43.17 4.20
770 794 3.223710 TAAAGCCACGGCCGTCGAA 62.224 57.895 31.80 8.07 43.17 3.71
776 800 4.719369 ACGGCCGTCGAACTCAGC 62.719 66.667 28.70 0.00 42.43 4.26
780 804 2.259818 CCGTCGAACTCAGCAGCT 59.740 61.111 0.00 0.00 0.00 4.24
796 820 0.392863 AGCTGACAGCACACACAACA 60.393 50.000 28.43 0.00 45.56 3.33
910 2490 3.941188 CGGCCCCTCACACACACT 61.941 66.667 0.00 0.00 0.00 3.55
911 2491 2.281761 GGCCCCTCACACACACTG 60.282 66.667 0.00 0.00 0.00 3.66
925 2505 0.175760 ACACTGACACGCACAAGTCT 59.824 50.000 0.00 0.00 35.81 3.24
952 2532 1.275291 CTTCTTTCTGGTAGTCCGGCA 59.725 52.381 0.00 0.00 39.81 5.69
1019 2600 3.799755 GGCCAGCCGCAACGTTAG 61.800 66.667 0.00 0.00 40.31 2.34
1062 2643 4.419939 TGCGACTGCTGCGACGAT 62.420 61.111 16.34 0.00 43.34 3.73
1092 2673 4.142609 CTGTAAGCTTAGCTTCATCCCA 57.857 45.455 23.57 11.74 46.77 4.37
1095 2676 0.548510 AGCTTAGCTTCATCCCACCC 59.451 55.000 0.00 0.00 33.89 4.61
1096 2677 0.548510 GCTTAGCTTCATCCCACCCT 59.451 55.000 0.00 0.00 0.00 4.34
1098 2679 1.141858 CTTAGCTTCATCCCACCCTCC 59.858 57.143 0.00 0.00 0.00 4.30
1099 2680 1.048724 TAGCTTCATCCCACCCTCCG 61.049 60.000 0.00 0.00 0.00 4.63
1100 2681 2.190578 CTTCATCCCACCCTCCGC 59.809 66.667 0.00 0.00 0.00 5.54
1107 2693 3.322466 CCACCCTCCGCTCCAACT 61.322 66.667 0.00 0.00 0.00 3.16
1120 2706 2.693069 CTCCAACTAGAGCAACACCTG 58.307 52.381 0.00 0.00 0.00 4.00
1138 2724 9.737427 CAACACCTGCTACTATGCTATATATAC 57.263 37.037 0.00 0.00 0.00 1.47
1139 2725 9.702253 AACACCTGCTACTATGCTATATATACT 57.298 33.333 0.00 0.00 0.00 2.12
1140 2726 9.344772 ACACCTGCTACTATGCTATATATACTC 57.655 37.037 0.00 0.00 0.00 2.59
1141 2727 8.788806 CACCTGCTACTATGCTATATATACTCC 58.211 40.741 0.00 0.00 0.00 3.85
1142 2728 7.945664 ACCTGCTACTATGCTATATATACTCCC 59.054 40.741 0.00 0.00 0.00 4.30
1143 2729 7.394923 CCTGCTACTATGCTATATATACTCCCC 59.605 44.444 0.00 0.00 0.00 4.81
1144 2730 7.239438 TGCTACTATGCTATATATACTCCCCC 58.761 42.308 0.00 0.00 0.00 5.40
1145 2731 7.147015 TGCTACTATGCTATATATACTCCCCCA 60.147 40.741 0.00 0.00 0.00 4.96
1146 2732 7.896496 GCTACTATGCTATATATACTCCCCCAT 59.104 40.741 0.00 0.00 0.00 4.00
1147 2733 9.469097 CTACTATGCTATATATACTCCCCCATC 57.531 40.741 0.00 0.00 0.00 3.51
1148 2734 7.249715 ACTATGCTATATATACTCCCCCATCC 58.750 42.308 0.00 0.00 0.00 3.51
1149 2735 4.827789 TGCTATATATACTCCCCCATCCC 58.172 47.826 0.00 0.00 0.00 3.85
1150 2736 3.833070 GCTATATATACTCCCCCATCCCG 59.167 52.174 0.00 0.00 0.00 5.14
1151 2737 4.448787 GCTATATATACTCCCCCATCCCGA 60.449 50.000 0.00 0.00 0.00 5.14
1152 2738 4.637288 ATATATACTCCCCCATCCCGAA 57.363 45.455 0.00 0.00 0.00 4.30
1153 2739 2.799282 TATACTCCCCCATCCCGAAA 57.201 50.000 0.00 0.00 0.00 3.46
1154 2740 2.133858 ATACTCCCCCATCCCGAAAT 57.866 50.000 0.00 0.00 0.00 2.17
1155 2741 2.799282 TACTCCCCCATCCCGAAATA 57.201 50.000 0.00 0.00 0.00 1.40
1156 2742 1.901648 ACTCCCCCATCCCGAAATAA 58.098 50.000 0.00 0.00 0.00 1.40
1157 2743 2.210644 ACTCCCCCATCCCGAAATAAA 58.789 47.619 0.00 0.00 0.00 1.40
1158 2744 2.789399 ACTCCCCCATCCCGAAATAAAT 59.211 45.455 0.00 0.00 0.00 1.40
1159 2745 3.157087 CTCCCCCATCCCGAAATAAATG 58.843 50.000 0.00 0.00 0.00 2.32
1160 2746 2.516277 TCCCCCATCCCGAAATAAATGT 59.484 45.455 0.00 0.00 0.00 2.71
1161 2747 2.627699 CCCCCATCCCGAAATAAATGTG 59.372 50.000 0.00 0.00 0.00 3.21
1162 2748 3.561143 CCCCATCCCGAAATAAATGTGA 58.439 45.455 0.00 0.00 0.00 3.58
1163 2749 3.317993 CCCCATCCCGAAATAAATGTGAC 59.682 47.826 0.00 0.00 0.00 3.67
1164 2750 3.951037 CCCATCCCGAAATAAATGTGACA 59.049 43.478 0.00 0.00 0.00 3.58
1165 2751 4.202010 CCCATCCCGAAATAAATGTGACAC 60.202 45.833 0.00 0.00 0.00 3.67
1166 2752 4.640201 CCATCCCGAAATAAATGTGACACT 59.360 41.667 7.20 0.00 0.00 3.55
1167 2753 5.125417 CCATCCCGAAATAAATGTGACACTT 59.875 40.000 7.20 0.00 0.00 3.16
1168 2754 6.317642 CCATCCCGAAATAAATGTGACACTTA 59.682 38.462 7.20 0.00 0.00 2.24
1169 2755 7.013274 CCATCCCGAAATAAATGTGACACTTAT 59.987 37.037 7.20 0.00 0.00 1.73
1170 2756 7.931578 TCCCGAAATAAATGTGACACTTATT 57.068 32.000 6.23 6.23 0.00 1.40
1171 2757 8.343168 TCCCGAAATAAATGTGACACTTATTT 57.657 30.769 20.49 20.49 37.73 1.40
1172 2758 8.798402 TCCCGAAATAAATGTGACACTTATTTT 58.202 29.630 21.06 9.12 36.07 1.82
1173 2759 8.859156 CCCGAAATAAATGTGACACTTATTTTG 58.141 33.333 22.92 22.92 36.07 2.44
1174 2760 8.859156 CCGAAATAAATGTGACACTTATTTTGG 58.141 33.333 29.27 29.27 43.50 3.28
1175 2761 8.859156 CGAAATAAATGTGACACTTATTTTGGG 58.141 33.333 22.46 13.78 36.07 4.12
1176 2762 9.921637 GAAATAAATGTGACACTTATTTTGGGA 57.078 29.630 21.06 2.39 36.07 4.37
1177 2763 9.705290 AAATAAATGTGACACTTATTTTGGGAC 57.295 29.630 16.29 0.00 33.51 4.46
1178 2764 5.371115 AATGTGACACTTATTTTGGGACG 57.629 39.130 7.20 0.00 0.00 4.79
1179 2765 3.142951 TGTGACACTTATTTTGGGACGG 58.857 45.455 7.20 0.00 0.00 4.79
1180 2766 3.181453 TGTGACACTTATTTTGGGACGGA 60.181 43.478 7.20 0.00 0.00 4.69
1181 2767 3.435671 GTGACACTTATTTTGGGACGGAG 59.564 47.826 0.00 0.00 0.00 4.63
1182 2768 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
1183 2769 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
1184 2770 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
1185 2771 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
1189 2775 0.115745 TTTGGGACGGAGGGAGTACT 59.884 55.000 0.00 0.00 0.00 2.73
1212 2805 2.015587 TGATGAATAACGCTGCATGCA 58.984 42.857 21.29 21.29 43.06 3.96
1214 2807 2.478547 TGAATAACGCTGCATGCATG 57.521 45.000 22.97 22.70 43.06 4.06
1226 2819 0.733566 CATGCATGGAACGTGTTGGC 60.734 55.000 19.40 0.00 0.00 4.52
1232 2825 1.209127 GGAACGTGTTGGCCATTCG 59.791 57.895 6.09 14.54 0.00 3.34
1247 2840 7.867305 TGGCCATTCGTTTATCTACATTTAA 57.133 32.000 0.00 0.00 0.00 1.52
1250 2843 9.394477 GGCCATTCGTTTATCTACATTTAATTC 57.606 33.333 0.00 0.00 0.00 2.17
1251 2844 9.394477 GCCATTCGTTTATCTACATTTAATTCC 57.606 33.333 0.00 0.00 0.00 3.01
1286 2933 5.994887 TTACTCGCAGTTTTTACACATGT 57.005 34.783 0.00 0.00 0.00 3.21
1294 2941 6.359617 CGCAGTTTTTACACATGTCCTTTTAG 59.640 38.462 0.00 0.00 0.00 1.85
1298 2945 7.284489 AGTTTTTACACATGTCCTTTTAGCTCA 59.716 33.333 0.00 0.00 0.00 4.26
1312 2959 7.557358 TCCTTTTAGCTCATCTTTGCATATGAA 59.443 33.333 6.97 0.00 31.97 2.57
1319 2966 6.914757 GCTCATCTTTGCATATGAAAGGTAAC 59.085 38.462 19.02 8.30 31.97 2.50
1347 2994 9.413048 GTATGTAATAAGTAGATGTGAAGAGCC 57.587 37.037 0.00 0.00 0.00 4.70
1364 3014 0.322546 GCCTTAAGTGGTGGGTCTGG 60.323 60.000 0.97 0.00 0.00 3.86
1384 3034 5.541101 TCTGGGTAGCTCTTACTTTGTTACA 59.459 40.000 0.00 0.00 32.61 2.41
1404 3054 5.677319 ACATCCCGTATGAAAAGAAGAGA 57.323 39.130 2.30 0.00 39.07 3.10
1413 3063 6.265649 CGTATGAAAAGAAGAGATAGGAGGGA 59.734 42.308 0.00 0.00 0.00 4.20
1431 3081 3.153919 GGGACCATGTTAAACTTGCTCA 58.846 45.455 0.00 0.00 0.00 4.26
1435 3085 6.460123 GGGACCATGTTAAACTTGCTCATATG 60.460 42.308 0.00 0.00 0.00 1.78
1528 3178 5.545588 TGTGTGAAAAGAAGAGATGAGAGG 58.454 41.667 0.00 0.00 0.00 3.69
1567 3647 9.766277 CAAAAAGAGACTAGAAACATATTGCTC 57.234 33.333 0.00 0.00 0.00 4.26
1582 3663 8.854614 ACATATTGCTCAAGAAACTAGAAACT 57.145 30.769 0.00 0.00 0.00 2.66
1698 3779 2.101082 GAGGGGGAGATACGTGAGTTTC 59.899 54.545 0.00 0.00 46.40 2.78
1714 3795 6.153756 GTGAGTTTCCTTTCTGTCTCTCTAC 58.846 44.000 0.00 0.00 0.00 2.59
1722 3803 7.558604 TCCTTTCTGTCTCTCTACTAGTACTC 58.441 42.308 0.00 0.00 0.00 2.59
1728 3809 6.681538 TGTCTCTCTACTAGTACTCCCTCTA 58.318 44.000 0.00 0.00 0.00 2.43
1730 3811 8.455309 TGTCTCTCTACTAGTACTCCCTCTATA 58.545 40.741 0.00 0.00 0.00 1.31
1731 3812 8.964772 GTCTCTCTACTAGTACTCCCTCTATAG 58.035 44.444 0.00 0.00 0.00 1.31
1732 3813 8.681584 TCTCTCTACTAGTACTCCCTCTATAGT 58.318 40.741 0.00 0.00 0.00 2.12
1733 3814 8.654485 TCTCTACTAGTACTCCCTCTATAGTG 57.346 42.308 0.00 0.00 0.00 2.74
1734 3815 8.455309 TCTCTACTAGTACTCCCTCTATAGTGA 58.545 40.741 0.00 0.00 0.00 3.41
1735 3816 9.263446 CTCTACTAGTACTCCCTCTATAGTGAT 57.737 40.741 0.00 0.00 0.00 3.06
1736 3817 9.258629 TCTACTAGTACTCCCTCTATAGTGATC 57.741 40.741 0.00 0.00 0.00 2.92
1739 3820 9.618447 ACTAGTACTCCCTCTATAGTGATCTAA 57.382 37.037 0.00 0.00 0.00 2.10
1742 3823 8.725256 AGTACTCCCTCTATAGTGATCTAAACA 58.275 37.037 3.34 0.00 0.00 2.83
1745 3826 8.697292 ACTCCCTCTATAGTGATCTAAACAAAC 58.303 37.037 3.34 0.00 0.00 2.93
1746 3827 8.840200 TCCCTCTATAGTGATCTAAACAAACT 57.160 34.615 3.34 0.00 0.00 2.66
1747 3828 9.268282 TCCCTCTATAGTGATCTAAACAAACTT 57.732 33.333 3.34 0.00 0.00 2.66
1828 3986 5.808366 ATTAATAACTGAGCGATCCAGGA 57.192 39.130 0.00 0.00 36.03 3.86
1939 4097 2.263021 GCTGCTGTGCATGACCACA 61.263 57.895 0.00 0.89 42.99 4.17
1943 4101 2.435663 TGTGCATGACCACAGGGG 59.564 61.111 0.00 0.00 40.55 4.79
1989 4147 2.216750 TACCGGTACAAGCTGCGGAC 62.217 60.000 11.16 0.00 0.00 4.79
2041 4199 0.179045 ACTGCTGCGTCCACTTCTTT 60.179 50.000 0.00 0.00 0.00 2.52
2044 4202 0.663153 GCTGCGTCCACTTCTTTTGT 59.337 50.000 0.00 0.00 0.00 2.83
2085 4243 0.248296 GAGTACCGCGAGCTCAAGAG 60.248 60.000 15.40 0.00 0.00 2.85
2206 7614 9.371136 CGTTAATCACTTATATGATGCCAGTAT 57.629 33.333 0.00 0.00 39.32 2.12
2213 7621 6.931281 ACTTATATGATGCCAGTATGTGTGTC 59.069 38.462 0.00 0.00 0.00 3.67
2214 7622 2.008752 TGATGCCAGTATGTGTGTCG 57.991 50.000 0.00 0.00 0.00 4.35
2215 7623 1.275010 TGATGCCAGTATGTGTGTCGT 59.725 47.619 0.00 0.00 0.00 4.34
2216 7624 1.927174 GATGCCAGTATGTGTGTCGTC 59.073 52.381 0.00 0.00 0.00 4.20
2224 7632 1.089112 ATGTGTGTCGTCGATCGGTA 58.911 50.000 16.41 0.00 40.32 4.02
2227 7635 0.723414 TGTGTCGTCGATCGGTAGAC 59.277 55.000 22.30 22.30 40.32 2.59
2304 7721 1.449601 CCTACCACCACCATCGTGC 60.450 63.158 0.00 0.00 38.79 5.34
2317 7734 1.434622 ATCGTGCGTCGGTCGTATCT 61.435 55.000 0.00 0.00 42.13 1.98
2322 7739 2.221749 GTGCGTCGGTCGTATCTATGTA 59.778 50.000 0.00 0.00 42.13 2.29
2333 7750 9.454585 CGGTCGTATCTATGTATAACTTTCAAA 57.545 33.333 0.00 0.00 0.00 2.69
2344 7761 8.836268 TGTATAACTTTCAAAGGAATGTACGT 57.164 30.769 1.31 0.00 39.63 3.57
2345 7762 9.926158 TGTATAACTTTCAAAGGAATGTACGTA 57.074 29.630 1.31 0.00 39.63 3.57
2348 7765 7.972832 AACTTTCAAAGGAATGTACGTATCA 57.027 32.000 1.31 0.00 39.63 2.15
2508 7929 3.391296 ACAAGCCCACTCTTCTTTACTGA 59.609 43.478 0.00 0.00 0.00 3.41
2536 7957 2.686915 CAAAGTCCTCAATGGCATCTCC 59.313 50.000 0.00 0.00 35.26 3.71
2540 7961 1.487976 TCCTCAATGGCATCTCCTCAC 59.512 52.381 0.00 0.00 35.26 3.51
2607 8028 3.426787 TCCTGGCCGATTTTTGTAGAA 57.573 42.857 0.00 0.00 0.00 2.10
2623 8044 3.767673 TGTAGAATAGAAGCTGGAACGGT 59.232 43.478 0.00 0.00 36.83 4.83
2634 8055 1.221021 GGAACGGTGGTCTGGATCC 59.779 63.158 4.20 4.20 0.00 3.36
2727 8759 1.972872 AAGGGGATCAACATCGATGC 58.027 50.000 25.11 8.31 33.30 3.91
2764 8796 2.528797 ACAGAAACGTCGGTGATGC 58.471 52.632 0.00 0.00 30.30 3.91
2817 8849 0.393673 CCGGTGGGCATGTCAACATA 60.394 55.000 7.24 0.00 34.26 2.29
2844 8876 5.221048 GCTTTTGCTCCAGTCTTGTTTCTTA 60.221 40.000 0.00 0.00 43.35 2.10
2850 8882 6.149973 TGCTCCAGTCTTGTTTCTTATGAATG 59.850 38.462 0.00 0.00 31.56 2.67
2901 8933 0.968901 AGTCGTTATCCGTCCAGCCA 60.969 55.000 0.00 0.00 37.94 4.75
2925 8957 1.509463 CTGCCACCATGTGTCATGC 59.491 57.895 4.43 0.00 0.00 4.06
2936 8968 1.943340 TGTGTCATGCTTACGTGCAAA 59.057 42.857 4.54 0.00 46.61 3.68
2937 8969 2.551887 TGTGTCATGCTTACGTGCAAAT 59.448 40.909 4.54 0.00 46.61 2.32
2939 8971 1.913403 GTCATGCTTACGTGCAAATGC 59.087 47.619 4.54 0.00 46.61 3.56
2953 8985 4.509915 GCAAATGCACAATAAGACATGC 57.490 40.909 0.00 0.00 41.59 4.06
2969 9001 6.369059 AGACATGCACTATCATAACTTTGC 57.631 37.500 0.00 0.00 0.00 3.68
2995 9027 2.334838 AGAACAAAGACCGCGATACAC 58.665 47.619 8.23 0.00 0.00 2.90
3002 9034 1.664321 GACCGCGATACACACTCCCT 61.664 60.000 8.23 0.00 0.00 4.20
3015 9047 1.584724 ACTCCCTGGTAATGAGTGGG 58.415 55.000 2.99 0.00 37.92 4.61
3034 9066 3.834489 GGATCATGTCCAGACTGTGAT 57.166 47.619 14.74 14.74 46.96 3.06
3067 9099 4.199310 CGGTAATGAGTGGGATCATGTTT 58.801 43.478 0.00 0.00 39.84 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 7.786178 AAGTTAGCACATTAGCGATTGATTA 57.214 32.000 0.00 0.00 40.15 1.75
148 149 4.617223 GCTTAGAATCGAAAAGTGCCAAAC 59.383 41.667 0.00 0.00 0.00 2.93
151 152 3.674997 AGCTTAGAATCGAAAAGTGCCA 58.325 40.909 0.00 0.00 0.00 4.92
160 161 2.698803 TGCAGCAAAGCTTAGAATCGA 58.301 42.857 0.00 0.00 36.40 3.59
167 168 4.319139 TTCAATGTTGCAGCAAAGCTTA 57.681 36.364 10.11 0.00 36.40 3.09
169 170 2.867975 GTTTCAATGTTGCAGCAAAGCT 59.132 40.909 10.11 0.00 40.77 3.74
251 253 6.063640 GCAAGGTGCATTTCTTTGATTTTT 57.936 33.333 2.36 0.00 44.26 1.94
252 254 5.678132 GCAAGGTGCATTTCTTTGATTTT 57.322 34.783 2.36 0.00 44.26 1.82
266 268 8.989980 CCTATACTTACTAATAAAGCAAGGTGC 58.010 37.037 0.00 0.00 45.46 5.01
337 339 9.269453 AGTCTAACTTTGACCAAGTGTATAAAC 57.731 33.333 0.00 0.00 45.77 2.01
372 385 5.064834 GCACTCCCTCCGTTTTTATTAAGAG 59.935 44.000 0.00 0.00 0.00 2.85
395 409 2.763627 AAACGGCCAAAGAATGCGGC 62.764 55.000 2.24 0.00 45.47 6.53
398 412 4.632538 ATACTAAACGGCCAAAGAATGC 57.367 40.909 2.24 0.00 0.00 3.56
409 423 8.141909 TGGTTCAGATTGATCTATACTAAACGG 58.858 37.037 0.00 0.00 34.85 4.44
420 434 5.622180 CAGATGGATGGTTCAGATTGATCT 58.378 41.667 0.00 0.00 37.72 2.75
438 452 1.746615 CCCGTCCAACCAGCAGATG 60.747 63.158 0.00 0.00 0.00 2.90
481 496 3.067601 AGGTTAAAAGTCACGGCCTTTTG 59.932 43.478 15.09 0.00 41.08 2.44
552 567 3.036084 AACAGCAACGACTCCGCG 61.036 61.111 0.00 0.00 39.95 6.46
584 607 0.824109 CTCCTTGTGCATCTACGGGA 59.176 55.000 0.00 0.00 0.00 5.14
598 621 1.597461 GCTCCGTTACTGGCTCCTT 59.403 57.895 0.00 0.00 0.00 3.36
603 626 2.033194 GTGTGGCTCCGTTACTGGC 61.033 63.158 0.00 0.00 0.00 4.85
609 632 4.657824 CGGACGTGTGGCTCCGTT 62.658 66.667 0.00 0.00 43.79 4.44
759 783 4.719369 GCTGAGTTCGACGGCCGT 62.719 66.667 34.89 34.89 39.75 5.68
769 793 0.883814 GTGCTGTCAGCTGCTGAGTT 60.884 55.000 31.10 0.00 41.46 3.01
770 794 1.301558 GTGCTGTCAGCTGCTGAGT 60.302 57.895 31.10 0.00 41.46 3.41
776 800 0.028505 GTTGTGTGTGCTGTCAGCTG 59.971 55.000 24.76 7.63 42.97 4.24
780 804 2.103941 TCCTATGTTGTGTGTGCTGTCA 59.896 45.455 0.00 0.00 0.00 3.58
796 820 2.231478 CCACAGACGTCAGTTGTCCTAT 59.769 50.000 19.50 0.00 37.04 2.57
834 2414 4.848685 CGGGTTATTCACTCCGGG 57.151 61.111 0.00 0.00 36.24 5.73
899 2479 0.805711 TGCGTGTCAGTGTGTGTGAG 60.806 55.000 0.00 0.00 0.00 3.51
910 2490 1.887242 GCCAGACTTGTGCGTGTCA 60.887 57.895 0.00 0.00 35.81 3.58
911 2491 2.939022 GCCAGACTTGTGCGTGTC 59.061 61.111 0.00 0.00 0.00 3.67
925 2505 0.973632 TACCAGAAAGAAGCTCGCCA 59.026 50.000 0.00 0.00 0.00 5.69
952 2532 0.396811 ACTTGCGGTTGTAGGAGCTT 59.603 50.000 0.00 0.00 0.00 3.74
1062 2643 0.970640 TAAGCTTACAGCCACCGACA 59.029 50.000 0.86 0.00 43.77 4.35
1087 2668 3.943137 TTGGAGCGGAGGGTGGGAT 62.943 63.158 0.00 0.00 0.00 3.85
1092 2673 0.684805 CTCTAGTTGGAGCGGAGGGT 60.685 60.000 0.00 0.00 0.00 4.34
1100 2681 2.693069 CAGGTGTTGCTCTAGTTGGAG 58.307 52.381 0.00 0.00 36.50 3.86
1118 2704 7.394923 GGGGGAGTATATATAGCATAGTAGCAG 59.605 44.444 0.00 0.00 36.85 4.24
1119 2705 7.147015 TGGGGGAGTATATATAGCATAGTAGCA 60.147 40.741 0.00 0.00 36.85 3.49
1120 2706 7.239438 TGGGGGAGTATATATAGCATAGTAGC 58.761 42.308 0.00 0.00 0.00 3.58
1121 2707 9.469097 GATGGGGGAGTATATATAGCATAGTAG 57.531 40.741 0.00 0.00 0.00 2.57
1122 2708 8.399529 GGATGGGGGAGTATATATAGCATAGTA 58.600 40.741 0.00 0.00 0.00 1.82
1123 2709 7.249715 GGATGGGGGAGTATATATAGCATAGT 58.750 42.308 0.00 0.00 0.00 2.12
1124 2710 6.670027 GGGATGGGGGAGTATATATAGCATAG 59.330 46.154 0.00 0.00 0.00 2.23
1125 2711 6.571624 GGGATGGGGGAGTATATATAGCATA 58.428 44.000 0.00 0.00 0.00 3.14
1126 2712 5.415961 GGGATGGGGGAGTATATATAGCAT 58.584 45.833 0.00 0.00 0.00 3.79
1127 2713 4.694468 CGGGATGGGGGAGTATATATAGCA 60.694 50.000 0.00 0.00 0.00 3.49
1128 2714 3.833070 CGGGATGGGGGAGTATATATAGC 59.167 52.174 0.00 0.00 0.00 2.97
1129 2715 5.335028 TCGGGATGGGGGAGTATATATAG 57.665 47.826 0.00 0.00 0.00 1.31
1130 2716 5.754588 TTCGGGATGGGGGAGTATATATA 57.245 43.478 0.00 0.00 0.00 0.86
1131 2717 4.637288 TTCGGGATGGGGGAGTATATAT 57.363 45.455 0.00 0.00 0.00 0.86
1132 2718 4.423167 TTTCGGGATGGGGGAGTATATA 57.577 45.455 0.00 0.00 0.00 0.86
1133 2719 3.285290 TTTCGGGATGGGGGAGTATAT 57.715 47.619 0.00 0.00 0.00 0.86
1134 2720 2.799282 TTTCGGGATGGGGGAGTATA 57.201 50.000 0.00 0.00 0.00 1.47
1135 2721 2.133858 ATTTCGGGATGGGGGAGTAT 57.866 50.000 0.00 0.00 0.00 2.12
1136 2722 2.799282 TATTTCGGGATGGGGGAGTA 57.201 50.000 0.00 0.00 0.00 2.59
1137 2723 1.901648 TTATTTCGGGATGGGGGAGT 58.098 50.000 0.00 0.00 0.00 3.85
1138 2724 3.157087 CATTTATTTCGGGATGGGGGAG 58.843 50.000 0.00 0.00 0.00 4.30
1139 2725 2.516277 ACATTTATTTCGGGATGGGGGA 59.484 45.455 0.00 0.00 0.00 4.81
1140 2726 2.627699 CACATTTATTTCGGGATGGGGG 59.372 50.000 0.00 0.00 0.00 5.40
1141 2727 3.317993 GTCACATTTATTTCGGGATGGGG 59.682 47.826 0.00 0.00 0.00 4.96
1142 2728 3.951037 TGTCACATTTATTTCGGGATGGG 59.049 43.478 0.00 0.00 0.00 4.00
1143 2729 4.640201 AGTGTCACATTTATTTCGGGATGG 59.360 41.667 5.62 0.00 0.00 3.51
1144 2730 5.818136 AGTGTCACATTTATTTCGGGATG 57.182 39.130 5.62 0.00 0.00 3.51
1145 2731 8.519799 AATAAGTGTCACATTTATTTCGGGAT 57.480 30.769 11.51 0.00 34.28 3.85
1146 2732 7.931578 AATAAGTGTCACATTTATTTCGGGA 57.068 32.000 11.51 0.00 34.28 5.14
1147 2733 8.859156 CAAAATAAGTGTCACATTTATTTCGGG 58.141 33.333 23.77 15.68 41.72 5.14
1148 2734 8.859156 CCAAAATAAGTGTCACATTTATTTCGG 58.141 33.333 23.77 20.30 41.72 4.30
1149 2735 8.859156 CCCAAAATAAGTGTCACATTTATTTCG 58.141 33.333 23.77 16.49 41.72 3.46
1150 2736 9.921637 TCCCAAAATAAGTGTCACATTTATTTC 57.078 29.630 23.77 0.00 41.72 2.17
1151 2737 9.705290 GTCCCAAAATAAGTGTCACATTTATTT 57.295 29.630 19.98 19.98 43.17 1.40
1152 2738 8.026607 CGTCCCAAAATAAGTGTCACATTTATT 58.973 33.333 11.51 11.51 37.68 1.40
1153 2739 7.362574 CCGTCCCAAAATAAGTGTCACATTTAT 60.363 37.037 5.62 0.00 29.66 1.40
1154 2740 6.072397 CCGTCCCAAAATAAGTGTCACATTTA 60.072 38.462 5.62 0.00 0.00 1.40
1155 2741 5.278758 CCGTCCCAAAATAAGTGTCACATTT 60.279 40.000 5.62 0.74 0.00 2.32
1156 2742 4.217550 CCGTCCCAAAATAAGTGTCACATT 59.782 41.667 5.62 0.00 0.00 2.71
1157 2743 3.756434 CCGTCCCAAAATAAGTGTCACAT 59.244 43.478 5.62 0.00 0.00 3.21
1158 2744 3.142951 CCGTCCCAAAATAAGTGTCACA 58.857 45.455 5.62 0.00 0.00 3.58
1159 2745 3.404899 TCCGTCCCAAAATAAGTGTCAC 58.595 45.455 0.00 0.00 0.00 3.67
1160 2746 3.558321 CCTCCGTCCCAAAATAAGTGTCA 60.558 47.826 0.00 0.00 0.00 3.58
1161 2747 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
1162 2748 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
1163 2749 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
1164 2750 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
1165 2751 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
1166 2752 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
1167 2753 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
1168 2754 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
1169 2755 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
1170 2756 0.115745 AGTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
1171 2757 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
1172 2758 0.613853 CAAGTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
1173 2759 0.614134 ACAAGTACTCCCTCCGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
1174 2760 0.531200 CACAAGTACTCCCTCCGTCC 59.469 60.000 0.00 0.00 0.00 4.79
1175 2761 1.542492 TCACAAGTACTCCCTCCGTC 58.458 55.000 0.00 0.00 0.00 4.79
1176 2762 1.825474 CATCACAAGTACTCCCTCCGT 59.175 52.381 0.00 0.00 0.00 4.69
1177 2763 2.100197 TCATCACAAGTACTCCCTCCG 58.900 52.381 0.00 0.00 0.00 4.63
1178 2764 4.762289 ATTCATCACAAGTACTCCCTCC 57.238 45.455 0.00 0.00 0.00 4.30
1179 2765 5.749109 CGTTATTCATCACAAGTACTCCCTC 59.251 44.000 0.00 0.00 0.00 4.30
1180 2766 5.661458 CGTTATTCATCACAAGTACTCCCT 58.339 41.667 0.00 0.00 0.00 4.20
1181 2767 4.270325 GCGTTATTCATCACAAGTACTCCC 59.730 45.833 0.00 0.00 0.00 4.30
1182 2768 5.005779 CAGCGTTATTCATCACAAGTACTCC 59.994 44.000 0.00 0.00 0.00 3.85
1183 2769 5.500931 GCAGCGTTATTCATCACAAGTACTC 60.501 44.000 0.00 0.00 0.00 2.59
1184 2770 4.330074 GCAGCGTTATTCATCACAAGTACT 59.670 41.667 0.00 0.00 0.00 2.73
1185 2771 4.092821 TGCAGCGTTATTCATCACAAGTAC 59.907 41.667 0.00 0.00 0.00 2.73
1189 2775 3.731565 GCATGCAGCGTTATTCATCACAA 60.732 43.478 14.21 0.00 0.00 3.33
1212 2805 0.887933 GAATGGCCAACACGTTCCAT 59.112 50.000 10.96 0.00 40.77 3.41
1214 2807 1.209127 CGAATGGCCAACACGTTCC 59.791 57.895 10.96 0.00 31.71 3.62
1247 2840 9.862371 CTGCGAGTAATATATAGACAAAGGAAT 57.138 33.333 0.00 0.00 0.00 3.01
1250 2843 9.477484 AAACTGCGAGTAATATATAGACAAAGG 57.523 33.333 0.00 0.00 0.00 3.11
1262 2855 7.148540 GGACATGTGTAAAAACTGCGAGTAATA 60.149 37.037 1.15 0.00 0.00 0.98
1282 2929 5.106038 TGCAAAGATGAGCTAAAAGGACATG 60.106 40.000 0.00 0.00 0.00 3.21
1283 2930 5.012239 TGCAAAGATGAGCTAAAAGGACAT 58.988 37.500 0.00 0.00 0.00 3.06
1284 2931 4.397420 TGCAAAGATGAGCTAAAAGGACA 58.603 39.130 0.00 0.00 0.00 4.02
1285 2932 5.573337 ATGCAAAGATGAGCTAAAAGGAC 57.427 39.130 0.00 0.00 0.00 3.85
1286 2933 7.056006 TCATATGCAAAGATGAGCTAAAAGGA 58.944 34.615 0.00 0.00 0.00 3.36
1294 2941 5.511234 ACCTTTCATATGCAAAGATGAGC 57.489 39.130 20.22 0.00 33.73 4.26
1298 2945 7.944729 ACTGTTACCTTTCATATGCAAAGAT 57.055 32.000 20.22 11.76 33.34 2.40
1331 2978 5.105146 CCACTTAAGGCTCTTCACATCTACT 60.105 44.000 7.53 0.00 0.00 2.57
1332 2979 5.112686 CCACTTAAGGCTCTTCACATCTAC 58.887 45.833 7.53 0.00 0.00 2.59
1334 2981 3.584848 ACCACTTAAGGCTCTTCACATCT 59.415 43.478 7.53 0.00 0.00 2.90
1335 2982 3.686726 CACCACTTAAGGCTCTTCACATC 59.313 47.826 7.53 0.00 0.00 3.06
1336 2983 3.560025 CCACCACTTAAGGCTCTTCACAT 60.560 47.826 7.53 0.00 0.00 3.21
1337 2984 2.224523 CCACCACTTAAGGCTCTTCACA 60.225 50.000 7.53 0.00 0.00 3.58
1339 2986 1.351017 CCCACCACTTAAGGCTCTTCA 59.649 52.381 7.53 0.00 0.00 3.02
1340 2987 1.351350 ACCCACCACTTAAGGCTCTTC 59.649 52.381 7.53 0.00 0.00 2.87
1341 2988 1.351350 GACCCACCACTTAAGGCTCTT 59.649 52.381 7.53 0.00 0.00 2.85
1342 2989 0.984995 GACCCACCACTTAAGGCTCT 59.015 55.000 7.53 0.00 0.00 4.09
1343 2990 0.984995 AGACCCACCACTTAAGGCTC 59.015 55.000 7.53 0.00 0.00 4.70
1344 2991 0.693049 CAGACCCACCACTTAAGGCT 59.307 55.000 7.53 0.00 0.00 4.58
1345 2992 0.322546 CCAGACCCACCACTTAAGGC 60.323 60.000 7.53 0.00 0.00 4.35
1346 2993 0.328258 CCCAGACCCACCACTTAAGG 59.672 60.000 7.53 0.00 0.00 2.69
1347 2994 1.064825 ACCCAGACCCACCACTTAAG 58.935 55.000 0.00 0.00 0.00 1.85
1364 3014 5.816258 GGGATGTAACAAAGTAAGAGCTACC 59.184 44.000 0.00 0.00 0.00 3.18
1384 3034 6.782988 TCCTATCTCTTCTTTTCATACGGGAT 59.217 38.462 0.00 0.00 0.00 3.85
1404 3054 5.755849 CAAGTTTAACATGGTCCCTCCTAT 58.244 41.667 0.00 0.00 37.07 2.57
1413 3063 8.574251 TTACATATGAGCAAGTTTAACATGGT 57.426 30.769 10.38 4.69 29.65 3.55
1487 3137 9.495572 TTTCACACAAAAATTAAGAAGGTTTGT 57.504 25.926 0.00 0.00 41.74 2.83
1490 3140 9.936759 TCTTTTCACACAAAAATTAAGAAGGTT 57.063 25.926 0.00 0.00 0.00 3.50
1501 3151 8.279970 TCTCATCTCTTCTTTTCACACAAAAA 57.720 30.769 0.00 0.00 0.00 1.94
1505 3155 5.305386 TCCTCTCATCTCTTCTTTTCACACA 59.695 40.000 0.00 0.00 0.00 3.72
1506 3156 5.788450 TCCTCTCATCTCTTCTTTTCACAC 58.212 41.667 0.00 0.00 0.00 3.82
1523 3173 2.550830 TGAGCAAAGTGGTTCCTCTC 57.449 50.000 0.00 0.00 0.00 3.20
1528 3178 5.037385 GTCTCTTTTTGAGCAAAGTGGTTC 58.963 41.667 0.00 0.00 42.38 3.62
1582 3663 2.016604 GCAGGCCGGTCATGACAAATA 61.017 52.381 26.47 0.00 0.00 1.40
1698 3779 6.764560 GGAGTACTAGTAGAGAGACAGAAAGG 59.235 46.154 1.87 0.00 0.00 3.11
1799 3881 9.074576 TGGATCGCTCAGTTATTAATTAGTAGA 57.925 33.333 0.00 0.00 0.00 2.59
1800 3882 9.347934 CTGGATCGCTCAGTTATTAATTAGTAG 57.652 37.037 0.00 0.00 0.00 2.57
1802 3884 7.015292 TCCTGGATCGCTCAGTTATTAATTAGT 59.985 37.037 0.00 0.00 0.00 2.24
1803 3885 7.378966 TCCTGGATCGCTCAGTTATTAATTAG 58.621 38.462 0.00 0.00 0.00 1.73
1828 3986 4.947388 ACATCAACACCACAACAAGTTACT 59.053 37.500 0.00 0.00 0.00 2.24
1912 4070 2.684843 GCACAGCAGCAGGTACAGC 61.685 63.158 0.00 0.00 42.86 4.40
1913 4071 1.301953 TGCACAGCAGCAGGTACAG 60.302 57.895 0.00 0.00 40.11 2.74
1939 4097 4.701437 AGTCCCATGCCCACCCCT 62.701 66.667 0.00 0.00 0.00 4.79
1943 4101 0.466124 GAGTAGAGTCCCATGCCCAC 59.534 60.000 0.00 0.00 0.00 4.61
2122 4280 2.040442 TTCCCCATCCTCTCGGCA 59.960 61.111 0.00 0.00 0.00 5.69
2206 7614 0.445043 CTACCGATCGACGACACACA 59.555 55.000 18.66 0.00 45.77 3.72
2213 7621 1.138337 ATCGAGTCTACCGATCGACG 58.862 55.000 18.66 2.80 46.99 5.12
2224 7632 3.316588 AGCACACAATATCGATCGAGTCT 59.683 43.478 23.84 9.48 0.00 3.24
2227 7635 4.742167 AGAAAGCACACAATATCGATCGAG 59.258 41.667 23.84 12.04 0.00 4.04
2238 7646 7.360017 CGACTTATTACATGAGAAAGCACACAA 60.360 37.037 0.00 0.00 0.00 3.33
2322 7739 9.661563 TGATACGTACATTCCTTTGAAAGTTAT 57.338 29.630 0.00 0.00 34.49 1.89
2357 7774 6.258727 TGTCTGCTTCTTCAGTTTTTCTACAG 59.741 38.462 0.00 0.00 35.63 2.74
2361 7778 4.336713 GGTGTCTGCTTCTTCAGTTTTTCT 59.663 41.667 0.00 0.00 35.63 2.52
2362 7779 4.498177 GGGTGTCTGCTTCTTCAGTTTTTC 60.498 45.833 0.00 0.00 35.63 2.29
2364 7781 2.952310 GGGTGTCTGCTTCTTCAGTTTT 59.048 45.455 0.00 0.00 35.63 2.43
2365 7782 2.092429 TGGGTGTCTGCTTCTTCAGTTT 60.092 45.455 0.00 0.00 35.63 2.66
2474 7895 7.136822 AGAGTGGGCTTGTGTATCAATATAA 57.863 36.000 0.00 0.00 35.35 0.98
2488 7909 4.706842 TTCAGTAAAGAAGAGTGGGCTT 57.293 40.909 0.00 0.00 0.00 4.35
2508 7929 4.834496 TGCCATTGAGGACTTTGATTCTTT 59.166 37.500 0.00 0.00 41.22 2.52
2536 7957 9.066939 GCGATATATGAGTAATACAAGTGTGAG 57.933 37.037 0.00 0.00 0.00 3.51
2540 7961 9.211556 CTACGCGATATATGAGTAATACAAGTG 57.788 37.037 15.93 0.00 0.00 3.16
2607 8028 1.207329 GACCACCGTTCCAGCTTCTAT 59.793 52.381 0.00 0.00 0.00 1.98
2623 8044 0.544357 ACCAGAACGGATCCAGACCA 60.544 55.000 13.41 0.00 38.63 4.02
2659 8080 8.877864 TGTTACCCAAACTTCATCAAGATTAT 57.122 30.769 0.00 0.00 38.99 1.28
2705 8126 3.243201 GCATCGATGTTGATCCCCTTTTC 60.243 47.826 25.47 0.96 0.00 2.29
2710 8131 0.109342 AGGCATCGATGTTGATCCCC 59.891 55.000 25.47 16.03 0.00 4.81
2764 8796 1.399440 CTGTCAATGATGGCGGTCAAG 59.601 52.381 0.00 0.00 32.67 3.02
2817 8849 4.026356 ACAAGACTGGAGCAAAAGCTAT 57.974 40.909 0.00 0.00 0.00 2.97
2844 8876 5.865013 CACACAAACACATACATGCATTCAT 59.135 36.000 0.00 0.00 0.00 2.57
2850 8882 3.287312 AGCACACAAACACATACATGC 57.713 42.857 0.00 0.00 0.00 4.06
2901 8933 3.583380 ACATGGTGGCAGGTGGCT 61.583 61.111 5.03 0.00 44.01 4.75
2937 8969 5.184711 TGATAGTGCATGTCTTATTGTGCA 58.815 37.500 0.00 0.00 44.50 4.57
2939 8971 9.049523 AGTTATGATAGTGCATGTCTTATTGTG 57.950 33.333 0.00 0.00 0.00 3.33
2953 8985 7.987268 TCTTCTACGCAAAGTTATGATAGTG 57.013 36.000 0.00 0.00 0.00 2.74
2969 9001 1.385743 CGCGGTCTTTGTTCTTCTACG 59.614 52.381 0.00 0.00 0.00 3.51
3002 9034 3.136443 GGACATGATCCCACTCATTACCA 59.864 47.826 0.00 0.00 42.46 3.25
3015 9047 5.268118 TGTATCACAGTCTGGACATGATC 57.732 43.478 17.64 12.55 39.02 2.92
3029 9061 2.464796 ACCGGGGAGTATGTATCACA 57.535 50.000 6.32 0.00 0.00 3.58
3030 9062 4.525487 TCATTACCGGGGAGTATGTATCAC 59.475 45.833 6.32 0.00 0.00 3.06
3034 9066 3.893200 CACTCATTACCGGGGAGTATGTA 59.107 47.826 16.53 0.00 39.75 2.29
3067 9099 1.339055 GGCTTCCACACAGATGCTGTA 60.339 52.381 0.00 0.00 43.43 2.74


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

AutoCloner maintained by Alex Coulton.