Multiple sequence alignment - TraesCS6B01G226900

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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 TraesCS6B01G226900 chr6B 100.000 7516 0 0 1 7516 349465695 349473210 0.000000e+00 13880.0
1 TraesCS6B01G226900 chr6B 90.323 682 61 4 1798 2479 348852649 348853325 0.000000e+00 889.0
2 TraesCS6B01G226900 chr6B 92.358 615 44 3 2964 3577 348854622 348855234 0.000000e+00 872.0
3 TraesCS6B01G226900 chr6B 89.985 689 49 14 4896 5580 348855298 348855970 0.000000e+00 872.0
4 TraesCS6B01G226900 chr6B 90.184 489 43 3 1326 1810 348852148 348852635 4.160000e-177 632.0
5 TraesCS6B01G226900 chr6B 100.000 283 0 0 7893 8175 349473587 349473869 2.610000e-144 523.0
6 TraesCS6B01G226900 chr6B 78.278 511 70 31 267 758 348851214 348851702 2.890000e-74 291.0
7 TraesCS6B01G226900 chr6B 89.785 186 13 2 2630 2815 348854212 348854391 4.930000e-57 233.0
8 TraesCS6B01G226900 chr6B 87.162 148 16 2 2819 2966 348854433 348854577 1.830000e-36 165.0
9 TraesCS6B01G226900 chr6D 94.040 2869 103 28 7 2815 248510484 248507624 0.000000e+00 4289.0
10 TraesCS6B01G226900 chr6D 97.288 1991 42 9 4896 6884 248506790 248504810 0.000000e+00 3367.0
11 TraesCS6B01G226900 chr6D 89.945 1283 115 11 3614 4882 362922162 362923444 0.000000e+00 1642.0
12 TraesCS6B01G226900 chr6D 88.983 1180 95 12 1326 2477 262186149 262184977 0.000000e+00 1426.0
13 TraesCS6B01G226900 chr6D 97.121 799 15 6 2819 3615 248507582 248506790 0.000000e+00 1341.0
14 TraesCS6B01G226900 chr6D 93.659 615 36 3 2964 3577 262181391 262180779 0.000000e+00 917.0
15 TraesCS6B01G226900 chr6D 89.451 692 46 14 4899 5580 262180712 262180038 0.000000e+00 848.0
16 TraesCS6B01G226900 chr6D 94.960 496 23 2 6840 7333 248504812 248504317 0.000000e+00 776.0
17 TraesCS6B01G226900 chr6D 86.544 327 31 8 2496 2815 262181944 262181624 1.690000e-91 348.0
18 TraesCS6B01G226900 chr6D 79.302 401 58 20 267 654 262187209 262186821 2.930000e-64 257.0
19 TraesCS6B01G226900 chr6D 87.838 148 15 2 2819 2966 262181582 262181438 3.920000e-38 171.0
20 TraesCS6B01G226900 chr6D 87.719 114 12 1 5662 5775 262180043 262179932 1.850000e-26 132.0
21 TraesCS6B01G226900 chr6D 86.325 117 9 6 7402 7515 427092316 427092428 4.010000e-23 121.0
22 TraesCS6B01G226900 chr6D 95.000 40 0 2 1 38 403794511 403794472 2.460000e-05 62.1
23 TraesCS6B01G226900 chr6A 93.779 2186 105 11 4896 7054 326393400 326395581 0.000000e+00 3254.0
24 TraesCS6B01G226900 chr6A 93.890 2095 84 15 755 2811 326390474 326392562 0.000000e+00 3120.0
25 TraesCS6B01G226900 chr6A 96.855 795 19 4 2819 3612 326392608 326393397 0.000000e+00 1325.0
26 TraesCS6B01G226900 chr6A 86.949 1180 116 10 1326 2477 324286866 324288035 0.000000e+00 1291.0
27 TraesCS6B01G226900 chr6A 92.520 615 42 4 2965 3577 324291659 324292271 0.000000e+00 878.0
28 TraesCS6B01G226900 chr6A 89.260 689 52 14 4896 5580 324292335 324293005 0.000000e+00 843.0
29 TraesCS6B01G226900 chr6A 92.661 327 24 0 7044 7370 326514681 326515007 9.600000e-129 472.0
30 TraesCS6B01G226900 chr6A 86.316 285 36 2 884 1168 324286585 324286866 2.870000e-79 307.0
31 TraesCS6B01G226900 chr6A 86.765 272 26 2 4614 4875 17575067 17575338 2.230000e-75 294.0
32 TraesCS6B01G226900 chr6A 84.667 150 18 3 2819 2966 324291466 324291612 2.380000e-30 145.0
33 TraesCS6B01G226900 chr6A 86.842 114 13 1 5662 5775 324293000 324293111 8.610000e-25 126.0
34 TraesCS6B01G226900 chr6A 100.000 35 0 0 1 35 155577800 155577834 1.900000e-06 65.8
35 TraesCS6B01G226900 chr2D 92.078 1275 89 4 3615 4879 12910808 12909536 0.000000e+00 1784.0
36 TraesCS6B01G226900 chr2D 90.566 1272 107 4 3615 4873 9629733 9631004 0.000000e+00 1672.0
37 TraesCS6B01G226900 chr1D 90.118 1275 100 11 3618 4882 204025505 204026763 0.000000e+00 1633.0
38 TraesCS6B01G226900 chr1D 100.000 33 0 0 1 33 468986516 468986484 2.460000e-05 62.1
39 TraesCS6B01G226900 chr1D 87.755 49 4 2 1 48 365842954 365842907 1.000000e-03 56.5
40 TraesCS6B01G226900 chr4D 89.766 1280 120 6 3614 4882 477127993 477126714 0.000000e+00 1628.0
41 TraesCS6B01G226900 chr4D 84.507 71 6 5 7429 7496 224913523 224913591 1.900000e-06 65.8
42 TraesCS6B01G226900 chr4D 84.058 69 6 5 7399 7463 420516103 420516170 2.460000e-05 62.1
43 TraesCS6B01G226900 chr3D 89.549 1263 102 12 3615 4875 462839186 462840420 0.000000e+00 1574.0
44 TraesCS6B01G226900 chr3D 78.319 226 28 18 402 616 488240619 488240834 8.610000e-25 126.0
45 TraesCS6B01G226900 chr3D 82.432 74 10 3 7425 7496 82164021 82164093 2.460000e-05 62.1
46 TraesCS6B01G226900 chr2B 90.709 1184 98 4 3616 4788 622655892 622654710 0.000000e+00 1567.0
47 TraesCS6B01G226900 chr2B 90.893 1120 85 11 3615 4723 768106359 768107472 0.000000e+00 1487.0
48 TraesCS6B01G226900 chr4B 89.011 1274 117 10 3615 4874 658000305 657999041 0.000000e+00 1555.0
49 TraesCS6B01G226900 chr4B 78.475 223 32 14 379 589 592275939 592276157 1.850000e-26 132.0
50 TraesCS6B01G226900 chr4B 83.784 74 7 5 7426 7496 151905300 151905371 1.900000e-06 65.8
51 TraesCS6B01G226900 chrUn 85.457 1279 147 21 3614 4876 268840202 268838947 0.000000e+00 1295.0
52 TraesCS6B01G226900 chrUn 85.457 1279 147 21 3614 4876 273479382 273480637 0.000000e+00 1295.0
53 TraesCS6B01G226900 chrUn 85.085 1294 157 18 3615 4882 62667678 62666395 0.000000e+00 1288.0
54 TraesCS6B01G226900 chrUn 85.991 928 107 15 3970 4880 12273897 12274818 0.000000e+00 972.0
55 TraesCS6B01G226900 chrUn 100.000 389 0 0 4903 5291 480163773 480164161 0.000000e+00 719.0
56 TraesCS6B01G226900 chr4A 84.693 1287 163 26 3616 4882 214189301 214190573 0.000000e+00 1254.0
57 TraesCS6B01G226900 chr4A 85.217 115 17 0 7402 7516 560403249 560403135 1.440000e-22 119.0
58 TraesCS6B01G226900 chr5B 83.242 1283 190 16 3613 4875 377841438 377840161 0.000000e+00 1155.0
59 TraesCS6B01G226900 chr5D 85.072 623 76 13 4277 4885 553029957 553029338 3.240000e-173 619.0
60 TraesCS6B01G226900 chr5D 79.412 204 25 11 410 601 465983210 465983012 2.390000e-25 128.0
61 TraesCS6B01G226900 chr5D 100.000 35 0 0 1 35 377989399 377989365 1.900000e-06 65.8
62 TraesCS6B01G226900 chr5D 97.222 36 1 0 1 36 458155518 458155553 2.460000e-05 62.1
63 TraesCS6B01G226900 chr3A 88.421 285 31 2 7893 8175 81486096 81486380 7.860000e-90 342.0
64 TraesCS6B01G226900 chr3A 87.546 273 32 2 7904 8175 741781938 741782209 1.710000e-81 315.0
65 TraesCS6B01G226900 chr3A 80.417 240 33 10 388 621 67436699 67436930 3.920000e-38 171.0
66 TraesCS6B01G226900 chr3A 90.517 116 10 1 7399 7514 81485966 81486080 1.420000e-32 152.0
67 TraesCS6B01G226900 chr3A 100.000 35 0 0 1 35 51504934 51504968 1.900000e-06 65.8
68 TraesCS6B01G226900 chr2A 77.632 304 49 17 379 676 711074393 711074683 5.080000e-37 167.0
69 TraesCS6B01G226900 chr2A 86.667 60 7 1 7404 7463 455450999 455451057 1.900000e-06 65.8
70 TraesCS6B01G226900 chr2A 85.246 61 6 3 379 438 571152607 571152665 8.860000e-05 60.2
71 TraesCS6B01G226900 chr1B 77.731 238 41 12 385 616 528388527 528388758 1.430000e-27 135.0
72 TraesCS6B01G226900 chr7D 85.938 64 9 0 6661 6724 186244917 186244854 1.470000e-07 69.4
73 TraesCS6B01G226900 chr7D 83.333 72 9 3 7427 7496 407963938 407963868 6.850000e-06 63.9
74 TraesCS6B01G226900 chr7B 85.938 64 9 0 6661 6724 328969833 328969770 1.470000e-07 69.4
75 TraesCS6B01G226900 chr7B 94.872 39 1 1 1 38 50898231 50898193 8.860000e-05 60.2
76 TraesCS6B01G226900 chr7A 85.938 64 9 0 6661 6724 194054826 194054763 1.470000e-07 69.4
77 TraesCS6B01G226900 chr1A 100.000 35 0 0 1 35 267143142 267143108 1.900000e-06 65.8


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 TraesCS6B01G226900 chr6B 349465695 349473869 8174 False 7201.500000 13880 100.000000 1 8175 2 chr6B.!!$F2 8174
1 TraesCS6B01G226900 chr6B 348851214 348855970 4756 False 564.857143 889 88.296429 267 5580 7 chr6B.!!$F1 5313
2 TraesCS6B01G226900 chr6D 248504317 248510484 6167 True 2443.250000 4289 95.852250 7 7333 4 chr6D.!!$R2 7326
3 TraesCS6B01G226900 chr6D 362922162 362923444 1282 False 1642.000000 1642 89.945000 3614 4882 1 chr6D.!!$F1 1268
4 TraesCS6B01G226900 chr6D 262179932 262187209 7277 True 585.571429 1426 87.642286 267 5775 7 chr6D.!!$R3 5508
5 TraesCS6B01G226900 chr6A 326390474 326395581 5107 False 2566.333333 3254 94.841333 755 7054 3 chr6A.!!$F5 6299
6 TraesCS6B01G226900 chr6A 324286585 324293111 6526 False 598.333333 1291 87.759000 884 5775 6 chr6A.!!$F4 4891
7 TraesCS6B01G226900 chr2D 12909536 12910808 1272 True 1784.000000 1784 92.078000 3615 4879 1 chr2D.!!$R1 1264
8 TraesCS6B01G226900 chr2D 9629733 9631004 1271 False 1672.000000 1672 90.566000 3615 4873 1 chr2D.!!$F1 1258
9 TraesCS6B01G226900 chr1D 204025505 204026763 1258 False 1633.000000 1633 90.118000 3618 4882 1 chr1D.!!$F1 1264
10 TraesCS6B01G226900 chr4D 477126714 477127993 1279 True 1628.000000 1628 89.766000 3614 4882 1 chr4D.!!$R1 1268
11 TraesCS6B01G226900 chr3D 462839186 462840420 1234 False 1574.000000 1574 89.549000 3615 4875 1 chr3D.!!$F2 1260
12 TraesCS6B01G226900 chr2B 622654710 622655892 1182 True 1567.000000 1567 90.709000 3616 4788 1 chr2B.!!$R1 1172
13 TraesCS6B01G226900 chr2B 768106359 768107472 1113 False 1487.000000 1487 90.893000 3615 4723 1 chr2B.!!$F1 1108
14 TraesCS6B01G226900 chr4B 657999041 658000305 1264 True 1555.000000 1555 89.011000 3615 4874 1 chr4B.!!$R1 1259
15 TraesCS6B01G226900 chrUn 268838947 268840202 1255 True 1295.000000 1295 85.457000 3614 4876 1 chrUn.!!$R2 1262
16 TraesCS6B01G226900 chrUn 273479382 273480637 1255 False 1295.000000 1295 85.457000 3614 4876 1 chrUn.!!$F2 1262
17 TraesCS6B01G226900 chrUn 62666395 62667678 1283 True 1288.000000 1288 85.085000 3615 4882 1 chrUn.!!$R1 1267
18 TraesCS6B01G226900 chrUn 12273897 12274818 921 False 972.000000 972 85.991000 3970 4880 1 chrUn.!!$F1 910
19 TraesCS6B01G226900 chr4A 214189301 214190573 1272 False 1254.000000 1254 84.693000 3616 4882 1 chr4A.!!$F1 1266
20 TraesCS6B01G226900 chr5B 377840161 377841438 1277 True 1155.000000 1155 83.242000 3613 4875 1 chr5B.!!$R1 1262
21 TraesCS6B01G226900 chr5D 553029338 553029957 619 True 619.000000 619 85.072000 4277 4885 1 chr5D.!!$R3 608

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
959 1246 0.324943 CGGGAGGCTGAAAAAGGAGA 59.675 55.000 0.00 0.00 0.00 3.71 F
1184 1472 2.284039 TGACGATCCGTTGGGGGA 60.284 61.111 0.00 0.00 41.37 4.81 F
2816 6227 2.330440 TGTCTCTGCAAGCACAAGAA 57.670 45.000 4.50 0.00 0.00 2.52 F
4058 7597 1.066303 GAGTCCATCTTCGCTCATCGT 59.934 52.381 0.00 0.00 39.67 3.73 F
4889 8463 0.197661 AGGGGTAGGGGGTCTTTTCA 59.802 55.000 0.00 0.00 0.00 2.69 F
6070 9655 1.002888 CTGTGGCAACTCATGAGGACT 59.997 52.381 26.08 7.96 39.74 3.85 F
6860 10512 0.036199 AAGCAGAGGCAGAAGCAGAG 60.036 55.000 0.00 0.00 44.61 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2732 6143 1.741394 GCCTTAACACGACCGGCTATT 60.741 52.381 0.00 0.00 37.76 1.73 R
3214 6718 8.941977 CACTGTTTTAGGTAACACTATATTGCA 58.058 33.333 0.00 0.00 41.41 4.08 R
4341 7885 0.871722 CTTCCGGTGAAAATCGCACA 59.128 50.000 0.00 0.00 37.99 4.57 R
5956 9541 0.179067 TAAAGCCTACGCGGGGATTG 60.179 55.000 20.83 0.97 41.18 2.67 R
6251 9836 0.038744 ACAGCTGCTTAAGGCCATGT 59.961 50.000 15.27 0.00 40.92 3.21 R
7074 10726 0.179045 AGCTTTAATCGGCGCAGGAT 60.179 50.000 10.83 8.74 0.00 3.24 R
8018 11672 1.227002 GAGGAACGCGGTGGATCTC 60.227 63.158 12.47 4.30 0.00 2.75 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 6.503524 TGCTCTAAACAATGAACCAAAGAAC 58.496 36.000 0.00 0.00 0.00 3.01
63 64 5.049267 TGAACCAAAGAACCGTAATAGCAAC 60.049 40.000 0.00 0.00 0.00 4.17
64 65 3.754850 ACCAAAGAACCGTAATAGCAACC 59.245 43.478 0.00 0.00 0.00 3.77
65 66 3.754323 CCAAAGAACCGTAATAGCAACCA 59.246 43.478 0.00 0.00 0.00 3.67
66 67 4.216687 CCAAAGAACCGTAATAGCAACCAA 59.783 41.667 0.00 0.00 0.00 3.67
67 68 5.278561 CCAAAGAACCGTAATAGCAACCAAA 60.279 40.000 0.00 0.00 0.00 3.28
68 69 6.210078 CAAAGAACCGTAATAGCAACCAAAA 58.790 36.000 0.00 0.00 0.00 2.44
73 74 8.745590 AGAACCGTAATAGCAACCAAAATAAAT 58.254 29.630 0.00 0.00 0.00 1.40
74 75 8.920509 AACCGTAATAGCAACCAAAATAAATC 57.079 30.769 0.00 0.00 0.00 2.17
141 157 4.322385 GCGAACCGTGCAACCACC 62.322 66.667 0.00 0.00 38.79 4.61
150 166 1.742411 CGTGCAACCACCGGAGATAAT 60.742 52.381 9.46 0.00 38.79 1.28
156 172 4.213482 GCAACCACCGGAGATAATTGATAC 59.787 45.833 9.46 0.00 0.00 2.24
188 204 7.253817 GCTTGCTAGACTGATTAAGTAAGTTCG 60.254 40.741 0.00 0.00 40.07 3.95
201 217 5.079397 AGTAAGTTCGAAGAAGCAAAACG 57.921 39.130 0.00 0.00 45.90 3.60
212 228 9.142515 TCGAAGAAGCAAAACGTAGATTAATAA 57.857 29.630 0.00 0.00 0.00 1.40
270 286 9.070149 GTTGCTTGTACATAACTACTAGTGTAC 57.930 37.037 5.39 8.70 44.33 2.90
334 355 6.964370 TCAGACAAAGTTTCAACGTGTATTTG 59.036 34.615 0.00 0.00 33.92 2.32
363 384 7.118496 AGTTCAACACATATTTGAAAACCCA 57.882 32.000 3.24 0.00 42.98 4.51
706 754 8.883954 TGATGCAAAACAGTGAAATAAAATCA 57.116 26.923 0.00 0.00 0.00 2.57
707 755 8.763356 TGATGCAAAACAGTGAAATAAAATCAC 58.237 29.630 0.00 0.00 45.94 3.06
741 800 7.825331 ACTTCTATGCAGCTACAGTATTAGA 57.175 36.000 0.00 0.00 0.00 2.10
743 802 7.285629 ACTTCTATGCAGCTACAGTATTAGACA 59.714 37.037 0.00 0.00 0.00 3.41
759 818 1.307343 ACAGGCCCAGTAGCTCCAT 60.307 57.895 0.00 0.00 0.00 3.41
801 860 2.395360 CCGCGGCGAGAAAAATCCA 61.395 57.895 25.92 0.00 0.00 3.41
806 865 2.076863 CGGCGAGAAAAATCCAAGAGT 58.923 47.619 0.00 0.00 0.00 3.24
822 883 1.002087 AGAGTCGTCCACCCATGAAAC 59.998 52.381 0.00 0.00 0.00 2.78
828 889 2.795329 GTCCACCCATGAAACATGAGT 58.205 47.619 12.46 3.47 0.00 3.41
959 1246 0.324943 CGGGAGGCTGAAAAAGGAGA 59.675 55.000 0.00 0.00 0.00 3.71
992 1279 6.893020 AGCTTCTCCCTTTTTCTTCCTATA 57.107 37.500 0.00 0.00 0.00 1.31
993 1280 7.458796 AGCTTCTCCCTTTTTCTTCCTATAT 57.541 36.000 0.00 0.00 0.00 0.86
1098 1385 2.418976 GAGTGAATAGTTTTCGGGTGCC 59.581 50.000 0.00 0.00 0.00 5.01
1184 1472 2.284039 TGACGATCCGTTGGGGGA 60.284 61.111 0.00 0.00 41.37 4.81
1194 1482 2.583566 TCCGTTGGGGGATATTTTTCCT 59.416 45.455 0.00 0.00 35.97 3.36
1213 1501 7.531857 TTTCCTGCAAGTGTAATAATTCCAA 57.468 32.000 0.00 0.00 0.00 3.53
1304 1592 5.163343 TGGTGCTAATTAGTCCTAGCGATTT 60.163 40.000 20.89 0.00 42.89 2.17
1817 2138 8.514594 TCTGTTGATTCCACATTTTCACTTATC 58.485 33.333 0.00 0.00 0.00 1.75
2313 2644 2.507471 ACTGAATCCATGGGAGAGGAAC 59.493 50.000 13.02 0.00 37.48 3.62
2537 5941 5.104109 TGGTTTTCAGGGAAGGGTAGATATG 60.104 44.000 0.00 0.00 0.00 1.78
2669 6080 4.927422 TCTTTTTGGTGTCGACAAATTCC 58.073 39.130 21.95 17.52 37.62 3.01
2723 6134 4.383850 AACATAACTGTGCTTTGCAACA 57.616 36.364 0.00 0.00 41.47 3.33
2726 6137 2.857592 AACTGTGCTTTGCAACAGAG 57.142 45.000 20.35 15.71 41.47 3.35
2732 6143 3.056962 TGTGCTTTGCAACAGAGAAACAA 60.057 39.130 0.00 0.00 41.47 2.83
2815 6226 2.556144 ATGTCTCTGCAAGCACAAGA 57.444 45.000 0.00 0.00 0.00 3.02
2816 6227 2.330440 TGTCTCTGCAAGCACAAGAA 57.670 45.000 4.50 0.00 0.00 2.52
2817 6228 2.854963 TGTCTCTGCAAGCACAAGAAT 58.145 42.857 4.50 0.00 0.00 2.40
3238 6742 9.378551 TCTGCAATATAGTGTTACCTAAAACAG 57.621 33.333 1.67 0.00 39.92 3.16
3602 7133 8.696374 TGGATATTACACAAAACACCTGAAAAA 58.304 29.630 0.00 0.00 0.00 1.94
4021 7560 3.036084 CACCACGACGCCAGACAC 61.036 66.667 0.00 0.00 0.00 3.67
4058 7597 1.066303 GAGTCCATCTTCGCTCATCGT 59.934 52.381 0.00 0.00 39.67 3.73
4310 7854 1.900498 AAGGGAACGACGTCCGAGT 60.900 57.895 10.58 0.00 41.76 4.18
4333 7877 2.579201 CCATCGTCCGCCAAGACT 59.421 61.111 0.00 0.00 34.46 3.24
4428 7972 4.447365 CGAAGACGTACGTCACCC 57.553 61.111 40.48 28.66 46.76 4.61
4435 7979 1.021390 ACGTACGTCACCCTCGGTAG 61.021 60.000 16.72 0.00 32.11 3.18
4727 8294 1.953138 CAGATGAGATCCACCGCGC 60.953 63.158 0.00 0.00 0.00 6.86
4731 8298 4.241555 GAGATCCACCGCGCCCAT 62.242 66.667 0.00 0.00 0.00 4.00
4824 8397 2.759973 CTAGAGGGTGCTGGCGGA 60.760 66.667 0.00 0.00 0.00 5.54
4884 8458 4.477119 GCGAGGGGTAGGGGGTCT 62.477 72.222 0.00 0.00 0.00 3.85
4885 8459 2.367378 CGAGGGGTAGGGGGTCTT 59.633 66.667 0.00 0.00 0.00 3.01
4886 8460 1.306739 CGAGGGGTAGGGGGTCTTT 60.307 63.158 0.00 0.00 0.00 2.52
4887 8461 0.912968 CGAGGGGTAGGGGGTCTTTT 60.913 60.000 0.00 0.00 0.00 2.27
4888 8462 0.917533 GAGGGGTAGGGGGTCTTTTC 59.082 60.000 0.00 0.00 0.00 2.29
4889 8463 0.197661 AGGGGTAGGGGGTCTTTTCA 59.802 55.000 0.00 0.00 0.00 2.69
4890 8464 1.203701 AGGGGTAGGGGGTCTTTTCAT 60.204 52.381 0.00 0.00 0.00 2.57
4891 8465 1.063942 GGGGTAGGGGGTCTTTTCATG 60.064 57.143 0.00 0.00 0.00 3.07
4892 8466 1.920351 GGGTAGGGGGTCTTTTCATGA 59.080 52.381 0.00 0.00 0.00 3.07
4893 8467 2.092375 GGGTAGGGGGTCTTTTCATGAG 60.092 54.545 0.00 0.00 0.00 2.90
4894 8468 2.844348 GGTAGGGGGTCTTTTCATGAGA 59.156 50.000 0.00 0.00 0.00 3.27
4901 8475 4.446889 GGGGTCTTTTCATGAGATAGGCAT 60.447 45.833 0.00 0.00 0.00 4.40
5408 8992 2.563620 TGTTCCGCCTGTTATCTGTGTA 59.436 45.455 0.00 0.00 0.00 2.90
5415 8999 5.692204 CCGCCTGTTATCTGTGTATTAGAAG 59.308 44.000 0.00 0.00 0.00 2.85
6070 9655 1.002888 CTGTGGCAACTCATGAGGACT 59.997 52.381 26.08 7.96 39.74 3.85
6142 9727 7.594351 AGAGATTACAGATGCTGACATTCTA 57.406 36.000 0.82 0.00 36.35 2.10
6447 10032 0.509499 TCGCGTTTCCGTTGTCATTC 59.491 50.000 5.77 0.00 36.15 2.67
6448 10033 0.233590 CGCGTTTCCGTTGTCATTCA 59.766 50.000 0.00 0.00 36.15 2.57
6456 10041 4.974368 TCCGTTGTCATTCACTTTTGTT 57.026 36.364 0.00 0.00 0.00 2.83
6468 10053 4.671377 TCACTTTTGTTGTTGCAGATGAC 58.329 39.130 0.00 0.00 0.00 3.06
6802 10412 0.930726 GAAGAGGAGGAGGAGGAGGA 59.069 60.000 0.00 0.00 0.00 3.71
6806 10416 1.075600 GGAGGAGGAGGAGGAGGTG 60.076 68.421 0.00 0.00 0.00 4.00
6807 10417 1.075600 GAGGAGGAGGAGGAGGTGG 60.076 68.421 0.00 0.00 0.00 4.61
6808 10418 2.766229 GGAGGAGGAGGAGGTGGC 60.766 72.222 0.00 0.00 0.00 5.01
6814 10424 4.779733 GGAGGAGGTGGCGGAGGA 62.780 72.222 0.00 0.00 0.00 3.71
6831 10441 1.725182 AGGAGGAGGAGGAGGAAGAAA 59.275 52.381 0.00 0.00 0.00 2.52
6860 10512 0.036199 AAGCAGAGGCAGAAGCAGAG 60.036 55.000 0.00 0.00 44.61 3.35
6878 10530 1.449956 GGCAGAGGCAGAAGCAGAG 60.450 63.158 0.00 0.00 44.61 3.35
6879 10531 1.595882 GCAGAGGCAGAAGCAGAGA 59.404 57.895 0.00 0.00 44.61 3.10
6963 10615 2.200092 GGCAGGGGGTGGTTTCAA 59.800 61.111 0.00 0.00 0.00 2.69
7109 10761 7.306051 CGATTAAAGCTTGTGTAAGATACTCCG 60.306 40.741 0.00 0.00 35.92 4.63
7124 10776 5.924825 AGATACTCCGGTTTATATGCGTTTC 59.075 40.000 0.00 0.00 0.00 2.78
7130 10782 3.200483 GGTTTATATGCGTTTCCCGTCT 58.800 45.455 0.00 0.00 39.32 4.18
7185 10838 4.175337 TGCCTCGCCAGCATACCC 62.175 66.667 0.00 0.00 34.69 3.69
7193 10846 1.878102 CGCCAGCATACCCCAGATTAC 60.878 57.143 0.00 0.00 0.00 1.89
7248 10901 2.357517 AAGTTCGACTGGCCAGCG 60.358 61.111 33.06 31.94 0.00 5.18
7276 10929 3.096092 AGATGAGAGGACAGTCAACTCC 58.904 50.000 17.77 8.22 31.70 3.85
7290 10943 6.041409 ACAGTCAACTCCATGATCGATCTAAT 59.959 38.462 25.02 9.52 0.00 1.73
7306 10960 4.908601 TCTAATTTCAAGGGAGCAGTCA 57.091 40.909 0.00 0.00 0.00 3.41
7324 10978 3.036084 CCGTGCGGCCGTATGATC 61.036 66.667 33.45 13.94 0.00 2.92
7333 10987 2.051256 CGTATGATCGGCGCGTCT 60.051 61.111 9.90 0.00 0.00 4.18
7334 10988 1.657487 CGTATGATCGGCGCGTCTT 60.657 57.895 9.90 0.00 0.00 3.01
7335 10989 1.846648 GTATGATCGGCGCGTCTTG 59.153 57.895 9.90 0.00 0.00 3.02
7336 10990 1.299850 TATGATCGGCGCGTCTTGG 60.300 57.895 9.90 0.00 0.00 3.61
7337 10991 1.730451 TATGATCGGCGCGTCTTGGA 61.730 55.000 9.90 0.00 0.00 3.53
7338 10992 3.255379 GATCGGCGCGTCTTGGAC 61.255 66.667 9.90 0.00 0.00 4.02
7339 10993 4.814294 ATCGGCGCGTCTTGGACC 62.814 66.667 9.90 0.00 0.00 4.46
7342 10996 2.746277 GGCGCGTCTTGGACCATT 60.746 61.111 8.43 0.00 0.00 3.16
7343 10997 2.332654 GGCGCGTCTTGGACCATTT 61.333 57.895 8.43 0.00 0.00 2.32
7344 10998 1.022451 GGCGCGTCTTGGACCATTTA 61.022 55.000 8.43 0.00 0.00 1.40
7345 10999 0.373716 GCGCGTCTTGGACCATTTAG 59.626 55.000 8.43 0.00 0.00 1.85
7346 11000 2.004583 CGCGTCTTGGACCATTTAGA 57.995 50.000 0.00 0.00 0.00 2.10
7347 11001 2.550978 CGCGTCTTGGACCATTTAGAT 58.449 47.619 0.00 0.00 0.00 1.98
7348 11002 2.540101 CGCGTCTTGGACCATTTAGATC 59.460 50.000 0.00 0.00 0.00 2.75
7349 11003 3.738281 CGCGTCTTGGACCATTTAGATCT 60.738 47.826 0.00 0.00 0.00 2.75
7350 11004 4.192317 GCGTCTTGGACCATTTAGATCTT 58.808 43.478 0.00 0.00 0.00 2.40
7351 11005 5.357257 GCGTCTTGGACCATTTAGATCTTA 58.643 41.667 0.00 0.00 0.00 2.10
7352 11006 5.992217 GCGTCTTGGACCATTTAGATCTTAT 59.008 40.000 0.00 0.00 0.00 1.73
7353 11007 6.146347 GCGTCTTGGACCATTTAGATCTTATC 59.854 42.308 0.00 0.00 0.00 1.75
7354 11008 6.647067 CGTCTTGGACCATTTAGATCTTATCC 59.353 42.308 0.00 0.00 0.00 2.59
7355 11009 7.509546 GTCTTGGACCATTTAGATCTTATCCA 58.490 38.462 0.00 0.00 33.21 3.41
7356 11010 7.442666 GTCTTGGACCATTTAGATCTTATCCAC 59.557 40.741 0.00 0.00 34.78 4.02
7357 11011 5.853936 TGGACCATTTAGATCTTATCCACG 58.146 41.667 0.00 0.00 30.08 4.94
7358 11012 4.691216 GGACCATTTAGATCTTATCCACGC 59.309 45.833 0.00 0.00 0.00 5.34
7359 11013 5.290493 ACCATTTAGATCTTATCCACGCA 57.710 39.130 0.00 0.00 0.00 5.24
7360 11014 5.057149 ACCATTTAGATCTTATCCACGCAC 58.943 41.667 0.00 0.00 0.00 5.34
7361 11015 4.452455 CCATTTAGATCTTATCCACGCACC 59.548 45.833 0.00 0.00 0.00 5.01
7362 11016 5.300752 CATTTAGATCTTATCCACGCACCT 58.699 41.667 0.00 0.00 0.00 4.00
7363 11017 4.585955 TTAGATCTTATCCACGCACCTC 57.414 45.455 0.00 0.00 0.00 3.85
7364 11018 1.689273 AGATCTTATCCACGCACCTCC 59.311 52.381 0.00 0.00 0.00 4.30
7365 11019 0.759346 ATCTTATCCACGCACCTCCC 59.241 55.000 0.00 0.00 0.00 4.30
7366 11020 1.227263 CTTATCCACGCACCTCCCG 60.227 63.158 0.00 0.00 0.00 5.14
7367 11021 1.956629 CTTATCCACGCACCTCCCGT 61.957 60.000 0.00 0.00 39.91 5.28
7368 11022 1.952102 TTATCCACGCACCTCCCGTC 61.952 60.000 0.00 0.00 36.69 4.79
7369 11023 2.849096 TATCCACGCACCTCCCGTCT 62.849 60.000 0.00 0.00 36.69 4.18
7370 11024 4.742201 CCACGCACCTCCCGTCTG 62.742 72.222 0.00 0.00 36.69 3.51
7373 11027 4.379243 CGCACCTCCCGTCTGCTT 62.379 66.667 0.00 0.00 0.00 3.91
7374 11028 2.743928 GCACCTCCCGTCTGCTTG 60.744 66.667 0.00 0.00 0.00 4.01
7375 11029 2.743928 CACCTCCCGTCTGCTTGC 60.744 66.667 0.00 0.00 0.00 4.01
7376 11030 4.379243 ACCTCCCGTCTGCTTGCG 62.379 66.667 0.00 0.00 0.00 4.85
7389 11043 4.669809 TTGCGCCCCGGTTCCAAT 62.670 61.111 4.18 0.00 0.00 3.16
7391 11045 4.796495 GCGCCCCGGTTCCAATCT 62.796 66.667 0.00 0.00 0.00 2.40
7392 11046 2.824041 CGCCCCGGTTCCAATCTG 60.824 66.667 0.00 0.00 0.00 2.90
7393 11047 2.440247 GCCCCGGTTCCAATCTGG 60.440 66.667 0.00 0.00 39.43 3.86
7394 11048 2.440247 CCCCGGTTCCAATCTGGC 60.440 66.667 0.00 0.00 37.47 4.85
7395 11049 2.354729 CCCGGTTCCAATCTGGCA 59.645 61.111 0.00 0.00 37.47 4.92
7396 11050 1.304052 CCCGGTTCCAATCTGGCAA 60.304 57.895 0.00 0.00 37.47 4.52
7397 11051 0.897863 CCCGGTTCCAATCTGGCAAA 60.898 55.000 0.00 0.00 37.47 3.68
7398 11052 0.243636 CCGGTTCCAATCTGGCAAAC 59.756 55.000 0.00 0.00 37.47 2.93
7399 11053 0.243636 CGGTTCCAATCTGGCAAACC 59.756 55.000 6.47 6.47 39.64 3.27
7400 11054 1.632589 GGTTCCAATCTGGCAAACCT 58.367 50.000 8.85 0.00 39.81 3.50
7401 11055 1.546029 GGTTCCAATCTGGCAAACCTC 59.454 52.381 8.85 0.00 39.81 3.85
7402 11056 1.200020 GTTCCAATCTGGCAAACCTCG 59.800 52.381 0.00 0.00 37.47 4.63
7403 11057 0.960364 TCCAATCTGGCAAACCTCGC 60.960 55.000 0.00 0.00 37.47 5.03
7404 11058 0.962356 CCAATCTGGCAAACCTCGCT 60.962 55.000 0.00 0.00 36.63 4.93
7405 11059 0.449388 CAATCTGGCAAACCTCGCTC 59.551 55.000 0.00 0.00 36.63 5.03
7406 11060 0.678048 AATCTGGCAAACCTCGCTCC 60.678 55.000 0.00 0.00 36.63 4.70
7407 11061 1.557269 ATCTGGCAAACCTCGCTCCT 61.557 55.000 0.00 0.00 36.63 3.69
7408 11062 1.743252 CTGGCAAACCTCGCTCCTC 60.743 63.158 0.00 0.00 36.63 3.71
7409 11063 2.815647 GGCAAACCTCGCTCCTCG 60.816 66.667 0.00 0.00 40.15 4.63
7410 11064 3.491652 GCAAACCTCGCTCCTCGC 61.492 66.667 0.00 0.00 38.27 5.03
7411 11065 2.262915 CAAACCTCGCTCCTCGCT 59.737 61.111 0.00 0.00 38.27 4.93
7412 11066 1.374758 CAAACCTCGCTCCTCGCTT 60.375 57.895 0.00 0.00 38.27 4.68
7413 11067 1.079750 AAACCTCGCTCCTCGCTTC 60.080 57.895 0.00 0.00 38.27 3.86
7414 11068 1.536943 AAACCTCGCTCCTCGCTTCT 61.537 55.000 0.00 0.00 38.27 2.85
7415 11069 1.939769 AACCTCGCTCCTCGCTTCTC 61.940 60.000 0.00 0.00 38.27 2.87
7416 11070 2.024022 CTCGCTCCTCGCTTCTCG 59.976 66.667 0.00 0.00 38.27 4.04
7417 11071 4.180946 TCGCTCCTCGCTTCTCGC 62.181 66.667 0.00 0.00 38.27 5.03
7419 11073 3.832492 GCTCCTCGCTTCTCGCCT 61.832 66.667 0.00 0.00 38.27 5.52
7420 11074 2.411290 CTCCTCGCTTCTCGCCTC 59.589 66.667 0.00 0.00 38.27 4.70
7421 11075 3.462333 CTCCTCGCTTCTCGCCTCG 62.462 68.421 0.00 0.00 38.27 4.63
7422 11076 3.509757 CCTCGCTTCTCGCCTCGA 61.510 66.667 0.00 0.00 38.27 4.04
7921 11575 4.424711 GCCGCTGGTTGGATGGGA 62.425 66.667 0.00 0.00 0.00 4.37
7922 11576 2.124570 CCGCTGGTTGGATGGGAG 60.125 66.667 0.00 0.00 0.00 4.30
7923 11577 2.825836 CGCTGGTTGGATGGGAGC 60.826 66.667 0.00 0.00 0.00 4.70
7924 11578 2.440980 GCTGGTTGGATGGGAGCC 60.441 66.667 0.00 0.00 0.00 4.70
7925 11579 2.276740 CTGGTTGGATGGGAGCCC 59.723 66.667 0.00 0.00 0.00 5.19
7926 11580 3.346734 TGGTTGGATGGGAGCCCC 61.347 66.667 2.49 3.42 45.71 5.80
7927 11581 3.023735 GGTTGGATGGGAGCCCCT 61.024 66.667 11.10 0.00 45.70 4.79
7928 11582 2.597903 GTTGGATGGGAGCCCCTC 59.402 66.667 11.10 2.50 45.70 4.30
8022 11676 4.144727 AGGACCCCGCTCCGAGAT 62.145 66.667 0.00 0.00 35.20 2.75
8023 11677 3.607661 GGACCCCGCTCCGAGATC 61.608 72.222 0.00 0.00 0.00 2.75
8024 11678 3.607661 GACCCCGCTCCGAGATCC 61.608 72.222 0.00 0.00 0.00 3.36
8025 11679 4.458829 ACCCCGCTCCGAGATCCA 62.459 66.667 0.00 0.00 0.00 3.41
8026 11680 3.917760 CCCCGCTCCGAGATCCAC 61.918 72.222 0.00 0.00 0.00 4.02
8027 11681 3.917760 CCCGCTCCGAGATCCACC 61.918 72.222 0.00 0.00 0.00 4.61
8028 11682 4.271816 CCGCTCCGAGATCCACCG 62.272 72.222 0.00 0.00 0.00 4.94
8029 11683 4.933064 CGCTCCGAGATCCACCGC 62.933 72.222 0.00 0.00 0.00 5.68
8030 11684 4.933064 GCTCCGAGATCCACCGCG 62.933 72.222 0.00 0.00 0.00 6.46
8031 11685 3.518998 CTCCGAGATCCACCGCGT 61.519 66.667 4.92 0.00 0.00 6.01
8032 11686 3.064987 CTCCGAGATCCACCGCGTT 62.065 63.158 4.92 0.00 0.00 4.84
8033 11687 2.582498 CCGAGATCCACCGCGTTC 60.582 66.667 4.92 0.00 0.00 3.95
8034 11688 2.582498 CGAGATCCACCGCGTTCC 60.582 66.667 4.92 0.00 0.00 3.62
8035 11689 2.893398 GAGATCCACCGCGTTCCT 59.107 61.111 4.92 0.00 0.00 3.36
8036 11690 1.227002 GAGATCCACCGCGTTCCTC 60.227 63.158 4.92 0.00 0.00 3.71
8037 11691 2.202892 GATCCACCGCGTTCCTCC 60.203 66.667 4.92 0.00 0.00 4.30
8038 11692 3.000819 ATCCACCGCGTTCCTCCA 61.001 61.111 4.92 0.00 0.00 3.86
8039 11693 2.907897 GATCCACCGCGTTCCTCCAG 62.908 65.000 4.92 0.00 0.00 3.86
8040 11694 4.003788 CCACCGCGTTCCTCCAGT 62.004 66.667 4.92 0.00 0.00 4.00
8041 11695 2.738521 CACCGCGTTCCTCCAGTG 60.739 66.667 4.92 0.00 0.00 3.66
8042 11696 4.003788 ACCGCGTTCCTCCAGTGG 62.004 66.667 4.92 1.40 41.04 4.00
8043 11697 3.691342 CCGCGTTCCTCCAGTGGA 61.691 66.667 12.40 12.40 37.73 4.02
8094 11748 4.944372 GACCGCCGTCCATAGCCG 62.944 72.222 0.00 0.00 32.40 5.52
8099 11753 4.609018 CCGTCCATAGCCGCCAGG 62.609 72.222 0.00 0.00 41.62 4.45
8166 11820 3.630148 CGACCATGATGCGTCGCC 61.630 66.667 15.88 0.00 44.54 5.54
8167 11821 3.272334 GACCATGATGCGTCGCCC 61.272 66.667 15.88 7.27 0.00 6.13
8168 11822 4.856801 ACCATGATGCGTCGCCCC 62.857 66.667 15.88 6.89 0.00 5.80
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 8.918961 TTGATTTATTTTGGTTGCTATTACGG 57.081 30.769 0.00 0.00 0.00 4.02
107 123 1.705337 CGCGGCTTACAAGGTCATGG 61.705 60.000 0.00 0.00 0.00 3.66
156 172 3.523606 ATCAGTCTAGCAAGCAGTGAG 57.476 47.619 0.00 0.00 0.00 3.51
230 246 5.940192 ACAAGCAACACAGATCGAAAATA 57.060 34.783 0.00 0.00 0.00 1.40
236 252 5.348724 AGTTATGTACAAGCAACACAGATCG 59.651 40.000 16.20 0.00 0.00 3.69
354 375 5.046304 TGGAATGTTTCTTGTTGGGTTTTCA 60.046 36.000 0.00 0.00 0.00 2.69
681 728 8.763356 GTGATTTTATTTCACTGTTTTGCATCA 58.237 29.630 0.00 0.00 40.26 3.07
741 800 1.307343 ATGGAGCTACTGGGCCTGT 60.307 57.895 20.36 20.36 0.00 4.00
743 802 2.750657 GCATGGAGCTACTGGGCCT 61.751 63.158 4.53 0.00 41.15 5.19
801 860 1.348064 TTCATGGGTGGACGACTCTT 58.652 50.000 0.00 0.00 0.00 2.85
806 865 1.349357 TCATGTTTCATGGGTGGACGA 59.651 47.619 9.39 0.00 0.00 4.20
822 883 5.827267 TCTCTCTCTCTCCAACATACTCATG 59.173 44.000 0.00 0.00 38.21 3.07
828 889 5.665360 TCTCTCTCTCTCTCTCTCCAACATA 59.335 44.000 0.00 0.00 0.00 2.29
937 1224 0.967380 CCTTTTTCAGCCTCCCGCAT 60.967 55.000 0.00 0.00 41.38 4.73
959 1246 4.388577 AAGGGAGAAGCTAAAATGGTGT 57.611 40.909 0.00 0.00 0.00 4.16
1098 1385 1.205893 CTTCCTGTCTTCCTTCCTCCG 59.794 57.143 0.00 0.00 0.00 4.63
1194 1482 6.892658 ACTGTTGGAATTATTACACTTGCA 57.107 33.333 0.00 0.00 0.00 4.08
1213 1501 6.601332 TCAAGAAGAATAGGACCAAAACTGT 58.399 36.000 0.00 0.00 0.00 3.55
1304 1592 5.762179 AAGACAGTCCAACCATGATCTTA 57.238 39.130 0.00 0.00 0.00 2.10
1715 2010 1.622312 GGTCCATATCGGGGTAAGACC 59.378 57.143 0.00 0.00 37.60 3.85
2011 2338 4.533815 GGTCCTCCCCGAGAAATTTATTT 58.466 43.478 0.00 0.00 0.00 1.40
2186 2513 7.646548 AGGGAATAACTGCCTTAGAAAATTC 57.353 36.000 0.00 0.00 45.33 2.17
2313 2644 3.053455 GAGACAAAGAGTGTGGTTCTCG 58.947 50.000 0.00 0.00 41.96 4.04
2537 5941 7.624344 GCACAACCTAGTCAAGAATGTCATTAC 60.624 40.741 0.00 0.00 0.00 1.89
2669 6080 8.950210 AGTGATATGTAACATTTTTCAGTCCAG 58.050 33.333 0.00 0.00 0.00 3.86
2723 6134 2.028385 ACGACCGGCTATTTGTTTCTCT 60.028 45.455 0.00 0.00 0.00 3.10
2726 6137 1.802365 ACACGACCGGCTATTTGTTTC 59.198 47.619 0.00 0.00 0.00 2.78
2732 6143 1.741394 GCCTTAACACGACCGGCTATT 60.741 52.381 0.00 0.00 37.76 1.73
3214 6718 8.941977 CACTGTTTTAGGTAACACTATATTGCA 58.058 33.333 0.00 0.00 41.41 4.08
3233 6737 7.934855 AGAAAGATAGCATTCATCACTGTTT 57.065 32.000 0.00 0.00 0.00 2.83
3727 7259 2.035449 CGGATATTGCTTAGACGGTGGA 59.965 50.000 0.00 0.00 0.00 4.02
4058 7597 3.051210 CAGTGGAGACTCGGTGCA 58.949 61.111 0.00 0.00 0.00 4.57
4290 7834 1.859427 CTCGGACGTCGTTCCCTTGA 61.859 60.000 9.92 0.00 40.32 3.02
4291 7835 1.443872 CTCGGACGTCGTTCCCTTG 60.444 63.158 9.92 0.00 40.32 3.61
4333 7877 1.878734 TGAAAATCGCACATGACTGCA 59.121 42.857 0.00 0.00 36.94 4.41
4341 7885 0.871722 CTTCCGGTGAAAATCGCACA 59.128 50.000 0.00 0.00 37.99 4.57
4343 7887 1.582610 GGCTTCCGGTGAAAATCGCA 61.583 55.000 0.00 0.00 0.00 5.10
4510 8055 2.246761 ATCCAACGCCCCGATCGAAA 62.247 55.000 18.66 0.00 0.00 3.46
4512 8057 3.146726 GATCCAACGCCCCGATCGA 62.147 63.158 18.66 0.00 0.00 3.59
4727 8294 4.447342 GGCACCTGGGTGGATGGG 62.447 72.222 19.69 0.00 45.49 4.00
4731 8298 3.636231 CGAAGGCACCTGGGTGGA 61.636 66.667 19.69 0.00 45.49 4.02
4824 8397 1.078528 GGGCCCCAAAACCTTAGCT 59.921 57.895 12.23 0.00 0.00 3.32
4829 8402 3.927501 CCAGGGGCCCCAAAACCT 61.928 66.667 42.48 18.99 38.92 3.50
5393 8977 7.265673 TGTCTTCTAATACACAGATAACAGGC 58.734 38.462 0.00 0.00 0.00 4.85
5956 9541 0.179067 TAAAGCCTACGCGGGGATTG 60.179 55.000 20.83 0.97 41.18 2.67
5969 9554 5.124617 ACAGAAATAAGAGCAAGCTAAAGCC 59.875 40.000 0.00 0.00 43.38 4.35
6142 9727 5.304686 TGACCTTATTATTCGCCCAGATT 57.695 39.130 0.00 0.00 0.00 2.40
6251 9836 0.038744 ACAGCTGCTTAAGGCCATGT 59.961 50.000 15.27 0.00 40.92 3.21
6447 10032 3.483196 CGTCATCTGCAACAACAAAAGTG 59.517 43.478 0.00 0.00 0.00 3.16
6448 10033 3.376859 TCGTCATCTGCAACAACAAAAGT 59.623 39.130 0.00 0.00 0.00 2.66
6456 10041 3.005791 TCTTCTTCTCGTCATCTGCAACA 59.994 43.478 0.00 0.00 0.00 3.33
6468 10053 4.934075 TGTTGCATTCATCTTCTTCTCG 57.066 40.909 0.00 0.00 0.00 4.04
6802 10412 4.787280 CCTCCTCCTCCGCCACCT 62.787 72.222 0.00 0.00 0.00 4.00
6806 10416 4.144727 TCCTCCTCCTCCTCCGCC 62.145 72.222 0.00 0.00 0.00 6.13
6807 10417 2.520741 CTCCTCCTCCTCCTCCGC 60.521 72.222 0.00 0.00 0.00 5.54
6808 10418 1.939082 TTCCTCCTCCTCCTCCTCCG 61.939 65.000 0.00 0.00 0.00 4.63
6814 10424 3.875571 TCTTTTTCTTCCTCCTCCTCCT 58.124 45.455 0.00 0.00 0.00 3.69
6831 10441 5.171339 TCTGCCTCTGCTTCTAATTCTTT 57.829 39.130 0.00 0.00 38.71 2.52
6860 10512 1.449956 CTCTGCTTCTGCCTCTGCC 60.450 63.158 0.00 0.00 38.71 4.85
6878 10530 5.049060 GCTTTCTTCTCCTCCTTTTTCTGTC 60.049 44.000 0.00 0.00 0.00 3.51
6879 10531 4.824537 GCTTTCTTCTCCTCCTTTTTCTGT 59.175 41.667 0.00 0.00 0.00 3.41
6963 10615 1.343465 CGTTTGCTATCCCTCCCGTAT 59.657 52.381 0.00 0.00 0.00 3.06
7074 10726 0.179045 AGCTTTAATCGGCGCAGGAT 60.179 50.000 10.83 8.74 0.00 3.24
7124 10776 1.001406 ACTGCAGAGAAGAAAGACGGG 59.999 52.381 23.35 0.00 0.00 5.28
7130 10782 1.867233 GAACGCACTGCAGAGAAGAAA 59.133 47.619 23.35 0.00 0.00 2.52
7185 10838 7.307337 GCACCTTTTGTCAAAAATGTAATCTGG 60.307 37.037 11.73 8.45 33.85 3.86
7193 10846 9.733219 AATAAATTGCACCTTTTGTCAAAAATG 57.267 25.926 11.73 12.97 34.81 2.32
7229 10882 1.301716 GCTGGCCAGTCGAACTTCA 60.302 57.895 32.81 0.00 0.00 3.02
7248 10901 5.133941 TGACTGTCCTCTCATCTATGGTAC 58.866 45.833 5.17 0.00 0.00 3.34
7276 10929 6.128336 GCTCCCTTGAAATTAGATCGATCATG 60.128 42.308 26.47 8.27 0.00 3.07
7290 10943 0.250295 CGGTGACTGCTCCCTTGAAA 60.250 55.000 0.00 0.00 0.00 2.69
7306 10960 3.785189 GATCATACGGCCGCACGGT 62.785 63.158 28.58 9.88 38.39 4.83
7330 10984 7.442666 GTGGATAAGATCTAAATGGTCCAAGAC 59.557 40.741 0.00 0.00 36.38 3.01
7333 10987 6.288294 CGTGGATAAGATCTAAATGGTCCAA 58.712 40.000 0.00 0.00 36.38 3.53
7334 10988 5.741964 GCGTGGATAAGATCTAAATGGTCCA 60.742 44.000 0.00 0.00 32.48 4.02
7335 10989 4.691216 GCGTGGATAAGATCTAAATGGTCC 59.309 45.833 0.00 0.00 0.00 4.46
7336 10990 5.177696 GTGCGTGGATAAGATCTAAATGGTC 59.822 44.000 0.00 0.00 0.00 4.02
7337 10991 5.057149 GTGCGTGGATAAGATCTAAATGGT 58.943 41.667 0.00 0.00 0.00 3.55
7338 10992 4.452455 GGTGCGTGGATAAGATCTAAATGG 59.548 45.833 0.00 0.00 0.00 3.16
7339 10993 5.300752 AGGTGCGTGGATAAGATCTAAATG 58.699 41.667 0.00 0.00 0.00 2.32
7340 10994 5.511545 GGAGGTGCGTGGATAAGATCTAAAT 60.512 44.000 0.00 0.00 0.00 1.40
7341 10995 4.202223 GGAGGTGCGTGGATAAGATCTAAA 60.202 45.833 0.00 0.00 0.00 1.85
7342 10996 3.321111 GGAGGTGCGTGGATAAGATCTAA 59.679 47.826 0.00 0.00 0.00 2.10
7343 10997 2.891580 GGAGGTGCGTGGATAAGATCTA 59.108 50.000 0.00 0.00 0.00 1.98
7344 10998 1.689273 GGAGGTGCGTGGATAAGATCT 59.311 52.381 0.00 0.00 0.00 2.75
7345 10999 1.270358 GGGAGGTGCGTGGATAAGATC 60.270 57.143 0.00 0.00 0.00 2.75
7346 11000 0.759346 GGGAGGTGCGTGGATAAGAT 59.241 55.000 0.00 0.00 0.00 2.40
7347 11001 1.672854 CGGGAGGTGCGTGGATAAGA 61.673 60.000 0.00 0.00 0.00 2.10
7348 11002 1.227263 CGGGAGGTGCGTGGATAAG 60.227 63.158 0.00 0.00 0.00 1.73
7349 11003 1.952102 GACGGGAGGTGCGTGGATAA 61.952 60.000 0.00 0.00 0.00 1.75
7350 11004 2.363276 ACGGGAGGTGCGTGGATA 60.363 61.111 0.00 0.00 0.00 2.59
7351 11005 3.771160 GACGGGAGGTGCGTGGAT 61.771 66.667 0.00 0.00 0.00 3.41
7352 11006 4.988716 AGACGGGAGGTGCGTGGA 62.989 66.667 0.00 0.00 0.00 4.02
7353 11007 4.742201 CAGACGGGAGGTGCGTGG 62.742 72.222 0.00 0.00 0.00 4.94
7356 11010 4.379243 AAGCAGACGGGAGGTGCG 62.379 66.667 0.00 0.00 45.39 5.34
7357 11011 2.743928 CAAGCAGACGGGAGGTGC 60.744 66.667 0.00 0.00 42.34 5.01
7358 11012 2.743928 GCAAGCAGACGGGAGGTG 60.744 66.667 0.00 0.00 0.00 4.00
7359 11013 4.379243 CGCAAGCAGACGGGAGGT 62.379 66.667 0.00 0.00 0.00 3.85
7372 11026 4.669809 ATTGGAACCGGGGCGCAA 62.670 61.111 10.83 4.46 0.00 4.85
7374 11028 4.796495 AGATTGGAACCGGGGCGC 62.796 66.667 6.32 0.00 0.00 6.53
7375 11029 2.824041 CAGATTGGAACCGGGGCG 60.824 66.667 6.32 0.00 0.00 6.13
7376 11030 2.440247 CCAGATTGGAACCGGGGC 60.440 66.667 6.32 0.00 40.96 5.80
7377 11031 2.440247 GCCAGATTGGAACCGGGG 60.440 66.667 6.32 0.00 40.96 5.73
7378 11032 0.897863 TTTGCCAGATTGGAACCGGG 60.898 55.000 6.32 0.00 40.96 5.73
7379 11033 0.243636 GTTTGCCAGATTGGAACCGG 59.756 55.000 0.00 0.00 40.96 5.28
7380 11034 0.243636 GGTTTGCCAGATTGGAACCG 59.756 55.000 0.00 0.00 40.96 4.44
7381 11035 1.546029 GAGGTTTGCCAGATTGGAACC 59.454 52.381 9.54 9.54 41.96 3.62
7382 11036 1.200020 CGAGGTTTGCCAGATTGGAAC 59.800 52.381 0.00 0.00 40.96 3.62
7383 11037 1.533625 CGAGGTTTGCCAGATTGGAA 58.466 50.000 0.00 0.00 40.96 3.53
7384 11038 0.960364 GCGAGGTTTGCCAGATTGGA 60.960 55.000 0.00 0.00 40.96 3.53
7385 11039 0.962356 AGCGAGGTTTGCCAGATTGG 60.962 55.000 0.00 0.00 41.55 3.16
7386 11040 0.449388 GAGCGAGGTTTGCCAGATTG 59.551 55.000 0.00 0.00 37.19 2.67
7387 11041 0.678048 GGAGCGAGGTTTGCCAGATT 60.678 55.000 0.00 0.00 37.19 2.40
7388 11042 1.078143 GGAGCGAGGTTTGCCAGAT 60.078 57.895 0.00 0.00 37.19 2.90
7389 11043 2.172483 GAGGAGCGAGGTTTGCCAGA 62.172 60.000 0.00 0.00 37.19 3.86
7390 11044 1.743252 GAGGAGCGAGGTTTGCCAG 60.743 63.158 0.00 0.00 37.19 4.85
7391 11045 2.347490 GAGGAGCGAGGTTTGCCA 59.653 61.111 0.00 0.00 37.19 4.92
7392 11046 2.815647 CGAGGAGCGAGGTTTGCC 60.816 66.667 0.00 0.00 44.57 4.52
7393 11047 3.491652 GCGAGGAGCGAGGTTTGC 61.492 66.667 0.00 0.00 44.57 3.68
7904 11558 4.424711 TCCCATCCAACCAGCGGC 62.425 66.667 0.00 0.00 0.00 6.53
7905 11559 2.124570 CTCCCATCCAACCAGCGG 60.125 66.667 0.00 0.00 0.00 5.52
7906 11560 2.825836 GCTCCCATCCAACCAGCG 60.826 66.667 0.00 0.00 0.00 5.18
7907 11561 2.440980 GGCTCCCATCCAACCAGC 60.441 66.667 0.00 0.00 0.00 4.85
7908 11562 2.276740 GGGCTCCCATCCAACCAG 59.723 66.667 0.00 0.00 35.81 4.00
7909 11563 3.346734 GGGGCTCCCATCCAACCA 61.347 66.667 7.34 0.00 44.65 3.67
8005 11659 4.144727 ATCTCGGAGCGGGGTCCT 62.145 66.667 14.37 0.00 34.00 3.85
8006 11660 3.607661 GATCTCGGAGCGGGGTCC 61.608 72.222 6.84 6.84 30.28 4.46
8007 11661 3.607661 GGATCTCGGAGCGGGGTC 61.608 72.222 0.00 0.00 36.65 4.46
8008 11662 4.458829 TGGATCTCGGAGCGGGGT 62.459 66.667 0.00 0.00 0.00 4.95
8009 11663 3.917760 GTGGATCTCGGAGCGGGG 61.918 72.222 0.00 0.00 0.00 5.73
8010 11664 3.917760 GGTGGATCTCGGAGCGGG 61.918 72.222 0.00 0.00 0.00 6.13
8011 11665 4.271816 CGGTGGATCTCGGAGCGG 62.272 72.222 0.00 0.00 0.00 5.52
8012 11666 4.933064 GCGGTGGATCTCGGAGCG 62.933 72.222 0.00 0.00 0.00 5.03
8013 11667 4.933064 CGCGGTGGATCTCGGAGC 62.933 72.222 0.00 0.00 0.00 4.70
8014 11668 2.938539 GAACGCGGTGGATCTCGGAG 62.939 65.000 12.47 0.00 0.00 4.63
8015 11669 3.060020 GAACGCGGTGGATCTCGGA 62.060 63.158 12.47 0.00 0.00 4.55
8016 11670 2.582498 GAACGCGGTGGATCTCGG 60.582 66.667 12.47 0.00 0.00 4.63
8017 11671 2.582498 GGAACGCGGTGGATCTCG 60.582 66.667 12.47 0.00 0.00 4.04
8018 11672 1.227002 GAGGAACGCGGTGGATCTC 60.227 63.158 12.47 4.30 0.00 2.75
8019 11673 2.722201 GGAGGAACGCGGTGGATCT 61.722 63.158 12.47 0.00 0.00 2.75
8020 11674 2.202892 GGAGGAACGCGGTGGATC 60.203 66.667 12.47 0.44 0.00 3.36
8021 11675 3.000819 TGGAGGAACGCGGTGGAT 61.001 61.111 12.47 0.00 0.00 3.41
8022 11676 3.691342 CTGGAGGAACGCGGTGGA 61.691 66.667 12.47 0.00 0.00 4.02
8023 11677 4.003788 ACTGGAGGAACGCGGTGG 62.004 66.667 12.47 0.00 0.00 4.61
8024 11678 2.738521 CACTGGAGGAACGCGGTG 60.739 66.667 12.47 1.74 0.00 4.94
8025 11679 4.003788 CCACTGGAGGAACGCGGT 62.004 66.667 12.47 1.91 0.00 5.68
8026 11680 3.649277 CTCCACTGGAGGAACGCGG 62.649 68.421 16.57 0.00 45.43 6.46
8027 11681 2.125912 CTCCACTGGAGGAACGCG 60.126 66.667 16.57 3.53 45.43 6.01
8077 11731 4.944372 CGGCTATGGACGGCGGTC 62.944 72.222 15.59 15.59 45.27 4.79
8082 11736 4.609018 CCTGGCGGCTATGGACGG 62.609 72.222 6.41 0.00 45.43 4.79
8150 11804 3.272334 GGGCGACGCATCATGGTC 61.272 66.667 23.09 0.62 0.00 4.02
8151 11805 4.856801 GGGGCGACGCATCATGGT 62.857 66.667 23.09 0.00 43.99 3.55


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

AutoCloner maintained by Alex Coulton.