Multiple sequence alignment - TraesCS3B01G083900

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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 TraesCS3B01G083900 chr3B 100.000 3243 0 0 1 3243 52858178 52854936 0.000000e+00 5989.0
1 TraesCS3B01G083900 chr3B 92.965 199 13 1 2975 3172 51731479 51731677 4.090000e-74 289.0
2 TraesCS3B01G083900 chr3B 95.122 41 2 0 3170 3210 819276795 819276835 7.510000e-07 65.8
3 TraesCS3B01G083900 chr6B 96.234 1434 32 10 1238 2670 578016790 578018202 0.000000e+00 2329.0
4 TraesCS3B01G083900 chr6B 94.897 921 24 5 2 901 578014277 578015195 0.000000e+00 1419.0
5 TraesCS3B01G083900 chr6B 95.730 726 26 4 179 901 101245742 101245019 0.000000e+00 1164.0
6 TraesCS3B01G083900 chr6B 98.308 532 7 1 2444 2975 263842915 263842386 0.000000e+00 931.0
7 TraesCS3B01G083900 chr6B 85.666 893 79 32 7 887 712068445 712067590 0.000000e+00 894.0
8 TraesCS3B01G083900 chr6B 88.308 650 58 10 2342 2975 101244691 101244044 0.000000e+00 763.0
9 TraesCS3B01G083900 chr6B 97.399 346 9 0 897 1242 578015774 578016119 1.000000e-164 590.0
10 TraesCS3B01G083900 chr6B 95.847 313 13 0 2664 2976 578018228 578018540 1.040000e-139 507.0
11 TraesCS3B01G083900 chr6B 85.846 325 40 6 2655 2975 712066881 712066559 1.110000e-89 340.0
12 TraesCS3B01G083900 chr6B 95.122 41 1 1 3169 3209 30331756 30331795 2.700000e-06 63.9
13 TraesCS3B01G083900 chr4B 95.195 1436 30 6 1238 2670 369780564 369779165 0.000000e+00 2233.0
14 TraesCS3B01G083900 chr4B 94.713 889 33 10 26 901 369783045 369782158 0.000000e+00 1369.0
15 TraesCS3B01G083900 chr4B 95.665 346 15 0 897 1242 369781579 369781234 1.020000e-154 556.0
16 TraesCS3B01G083900 chr4B 96.805 313 10 0 2664 2976 369779139 369778827 1.030000e-144 523.0
17 TraesCS3B01G083900 chr2B 98.199 1055 17 2 1393 2446 198522504 198521451 0.000000e+00 1842.0
18 TraesCS3B01G083900 chr2B 95.695 906 24 7 6 901 198532784 198531884 0.000000e+00 1443.0
19 TraesCS3B01G083900 chr2B 89.982 1108 87 10 1534 2639 516099883 516100968 0.000000e+00 1410.0
20 TraesCS3B01G083900 chr2B 84.284 1368 145 40 1644 2975 592572595 592573928 0.000000e+00 1271.0
21 TraesCS3B01G083900 chr2B 85.218 893 83 34 7 887 706399316 706400171 0.000000e+00 872.0
22 TraesCS3B01G083900 chr2B 95.223 314 12 1 2664 2977 198517985 198517675 8.080000e-136 494.0
23 TraesCS3B01G083900 chr2B 97.248 218 3 2 2456 2670 198518228 198518011 1.840000e-97 366.0
24 TraesCS3B01G083900 chr2B 86.154 325 39 6 2655 2975 706400881 706401203 2.400000e-91 346.0
25 TraesCS3B01G083900 chr2B 97.126 174 5 0 1238 1411 516099681 516099854 8.800000e-76 294.0
26 TraesCS3B01G083900 chr2B 88.235 51 4 2 3160 3209 713968307 713968356 3.490000e-05 60.2
27 TraesCS3B01G083900 chr2B 92.105 38 3 0 2987 3024 236093531 236093568 2.000000e-03 54.7
28 TraesCS3B01G083900 chr5D 84.846 1333 137 36 1696 2981 51157179 51155865 0.000000e+00 1282.0
29 TraesCS3B01G083900 chr5D 84.621 1333 141 36 1696 2981 51119761 51118446 0.000000e+00 1267.0
30 TraesCS3B01G083900 chr5D 84.604 1338 137 36 1696 2981 51177683 51176363 0.000000e+00 1266.0
31 TraesCS3B01G083900 chr5D 83.786 1141 124 36 1887 2981 51196486 51195361 0.000000e+00 1026.0
32 TraesCS3B01G083900 chr7A 86.802 985 86 18 1512 2467 219379959 219378990 0.000000e+00 1059.0
33 TraesCS3B01G083900 chr7A 93.750 336 18 2 910 1242 219381324 219380989 4.830000e-138 501.0
34 TraesCS3B01G083900 chr7A 91.983 237 14 3 1242 1473 219380199 219379963 8.680000e-86 327.0
35 TraesCS3B01G083900 chr7A 91.489 47 1 2 3163 3209 210779619 210779576 9.720000e-06 62.1
36 TraesCS3B01G083900 chr1A 92.917 720 46 3 1534 2252 330762179 330761464 0.000000e+00 1042.0
37 TraesCS3B01G083900 chr1A 90.340 559 44 6 346 901 330764481 330763930 0.000000e+00 725.0
38 TraesCS3B01G083900 chr1A 93.948 347 19 2 897 1242 330763351 330763006 1.030000e-144 523.0
39 TraesCS3B01G083900 chr1A 94.953 317 15 1 926 1242 41320567 41320252 2.250000e-136 496.0
40 TraesCS3B01G083900 chr1A 86.984 315 37 4 2664 2976 330752457 330752145 5.150000e-93 351.0
41 TraesCS3B01G083900 chr1A 89.401 217 19 4 1242 1454 41319597 41319381 1.480000e-68 270.0
42 TraesCS3B01G083900 chr1A 90.338 207 18 2 1239 1443 41412724 41412930 1.480000e-68 270.0
43 TraesCS3B01G083900 chr1A 93.182 44 2 1 3166 3209 518745251 518745293 2.700000e-06 63.9
44 TraesCS3B01G083900 chr3A 87.257 926 91 20 1513 2418 323385860 323386778 0.000000e+00 1031.0
45 TraesCS3B01G083900 chr3A 90.305 753 54 8 1446 2195 486211499 486210763 0.000000e+00 968.0
46 TraesCS3B01G083900 chr3A 85.197 912 80 28 7 901 486215122 486214249 0.000000e+00 885.0
47 TraesCS3B01G083900 chr3A 93.865 326 19 1 917 1242 323384722 323385046 1.050000e-134 490.0
48 TraesCS3B01G083900 chr3A 92.308 208 14 1 1238 1443 323385696 323385903 8.800000e-76 294.0
49 TraesCS3B01G083900 chr3A 92.424 198 15 0 2975 3172 41627889 41628086 1.900000e-72 283.0
50 TraesCS3B01G083900 chr3A 89.205 176 11 4 2975 3150 41281545 41281712 2.530000e-51 213.0
51 TraesCS3B01G083900 chr3A 100.000 46 0 0 3198 3243 41602918 41602963 5.760000e-13 86.1
52 TraesCS3B01G083900 chr3A 95.652 46 2 0 3198 3243 41353800 41353845 1.250000e-09 75.0
53 TraesCS3B01G083900 chr3A 95.652 46 2 0 3198 3243 41628411 41628456 1.250000e-09 75.0
54 TraesCS3B01G083900 chr3A 89.796 49 2 3 3162 3209 675328224 675328178 3.490000e-05 60.2
55 TraesCS3B01G083900 chr2D 88.256 860 83 12 1574 2421 348076140 348075287 0.000000e+00 1013.0
56 TraesCS3B01G083900 chr2D 95.268 317 12 2 926 1242 348077345 348077032 1.740000e-137 499.0
57 TraesCS3B01G083900 chr2D 90.045 221 18 4 1238 1454 348076391 348076171 1.900000e-72 283.0
58 TraesCS3B01G083900 chr2A 85.577 832 80 21 63 887 764688491 764687693 0.000000e+00 835.0
59 TraesCS3B01G083900 chr4A 95.899 317 13 0 926 1242 527577609 527577293 6.200000e-142 514.0
60 TraesCS3B01G083900 chr4A 90.498 221 17 4 1238 1454 527576623 527576403 4.090000e-74 289.0
61 TraesCS3B01G083900 chr4A 93.023 43 3 0 3168 3210 717726811 717726769 2.700000e-06 63.9
62 TraesCS3B01G083900 chr3D 94.953 317 15 1 926 1242 75768175 75767860 2.250000e-136 496.0
63 TraesCS3B01G083900 chr3D 92.424 198 15 0 2975 3172 30063095 30063292 1.900000e-72 283.0
64 TraesCS3B01G083900 chr3D 95.652 46 2 0 3198 3243 30063505 30063550 1.250000e-09 75.0
65 TraesCS3B01G083900 chr6A 87.540 313 37 2 2663 2975 603049312 603049622 8.550000e-96 361.0
66 TraesCS3B01G083900 chr7D 95.238 42 1 1 3168 3209 603144142 603144182 7.510000e-07 65.8
67 TraesCS3B01G083900 chr5B 95.122 41 1 1 3169 3209 35513546 35513507 2.700000e-06 63.9


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 TraesCS3B01G083900 chr3B 52854936 52858178 3242 True 5989.000000 5989 100.000000 1 3243 1 chr3B.!!$R1 3242
1 TraesCS3B01G083900 chr6B 578014277 578018540 4263 False 1211.250000 2329 96.094250 2 2976 4 chr6B.!!$F2 2974
2 TraesCS3B01G083900 chr6B 101244044 101245742 1698 True 963.500000 1164 92.019000 179 2975 2 chr6B.!!$R2 2796
3 TraesCS3B01G083900 chr6B 263842386 263842915 529 True 931.000000 931 98.308000 2444 2975 1 chr6B.!!$R1 531
4 TraesCS3B01G083900 chr6B 712066559 712068445 1886 True 617.000000 894 85.756000 7 2975 2 chr6B.!!$R3 2968
5 TraesCS3B01G083900 chr4B 369778827 369783045 4218 True 1170.250000 2233 95.594500 26 2976 4 chr4B.!!$R1 2950
6 TraesCS3B01G083900 chr2B 198531884 198532784 900 True 1443.000000 1443 95.695000 6 901 1 chr2B.!!$R1 895
7 TraesCS3B01G083900 chr2B 592572595 592573928 1333 False 1271.000000 1271 84.284000 1644 2975 1 chr2B.!!$F2 1331
8 TraesCS3B01G083900 chr2B 198517675 198522504 4829 True 900.666667 1842 96.890000 1393 2977 3 chr2B.!!$R2 1584
9 TraesCS3B01G083900 chr2B 516099681 516100968 1287 False 852.000000 1410 93.554000 1238 2639 2 chr2B.!!$F4 1401
10 TraesCS3B01G083900 chr2B 706399316 706401203 1887 False 609.000000 872 85.686000 7 2975 2 chr2B.!!$F5 2968
11 TraesCS3B01G083900 chr5D 51155865 51157179 1314 True 1282.000000 1282 84.846000 1696 2981 1 chr5D.!!$R2 1285
12 TraesCS3B01G083900 chr5D 51118446 51119761 1315 True 1267.000000 1267 84.621000 1696 2981 1 chr5D.!!$R1 1285
13 TraesCS3B01G083900 chr5D 51176363 51177683 1320 True 1266.000000 1266 84.604000 1696 2981 1 chr5D.!!$R3 1285
14 TraesCS3B01G083900 chr5D 51195361 51196486 1125 True 1026.000000 1026 83.786000 1887 2981 1 chr5D.!!$R4 1094
15 TraesCS3B01G083900 chr7A 219378990 219381324 2334 True 629.000000 1059 90.845000 910 2467 3 chr7A.!!$R2 1557
16 TraesCS3B01G083900 chr1A 330761464 330764481 3017 True 763.333333 1042 92.401667 346 2252 3 chr1A.!!$R3 1906
17 TraesCS3B01G083900 chr1A 41319381 41320567 1186 True 383.000000 496 92.177000 926 1454 2 chr1A.!!$R2 528
18 TraesCS3B01G083900 chr3A 486210763 486215122 4359 True 926.500000 968 87.751000 7 2195 2 chr3A.!!$R2 2188
19 TraesCS3B01G083900 chr3A 323384722 323386778 2056 False 605.000000 1031 91.143333 917 2418 3 chr3A.!!$F5 1501
20 TraesCS3B01G083900 chr2D 348075287 348077345 2058 True 598.333333 1013 91.189667 926 2421 3 chr2D.!!$R1 1495
21 TraesCS3B01G083900 chr2A 764687693 764688491 798 True 835.000000 835 85.577000 63 887 1 chr2A.!!$R1 824
22 TraesCS3B01G083900 chr4A 527576403 527577609 1206 True 401.500000 514 93.198500 926 1454 2 chr4A.!!$R2 528

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
344 408 0.264955 ATCGCCTCCCCTCTCCTTTA 59.735 55.0 0.0 0.0 0.0 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2302 5395 7.202121 CCATACATCACATATATAGGGGCATGA 60.202 40.741 12.78 3.11 0.0 3.07 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
184 204 1.152226 ATCCCATCCGTCCCTCCTC 60.152 63.158 0.00 0.00 0.00 3.71
185 205 2.681273 ATCCCATCCGTCCCTCCTCC 62.681 65.000 0.00 0.00 0.00 4.30
246 310 4.778143 GCGGATGGGTGAAGCGGT 62.778 66.667 0.00 0.00 0.00 5.68
344 408 0.264955 ATCGCCTCCCCTCTCCTTTA 59.735 55.000 0.00 0.00 0.00 1.85
360 424 9.853177 CCTCTCCTTTATTTTATGTAGGTTCAT 57.147 33.333 0.00 0.00 0.00 2.57
751 820 4.461198 GCCACAATAACTACAAGGGCTAT 58.539 43.478 0.00 0.00 37.22 2.97
966 1621 4.385825 ACTGGTAGTAACACAACACATGG 58.614 43.478 0.00 0.00 0.00 3.66
2389 5495 9.506018 TGGACTGTAATATGACAATATGGATTG 57.494 33.333 0.00 0.00 46.77 2.67
2390 5496 9.725019 GGACTGTAATATGACAATATGGATTGA 57.275 33.333 4.73 0.00 44.59 2.57
2845 9280 4.210331 ACCAAACAAAATCTGAGCTGAGT 58.790 39.130 0.00 0.00 0.00 3.41
2855 9290 1.153208 GAGCTGAGTCTGCCCCATG 60.153 63.158 17.44 0.00 0.00 3.66
2985 9420 4.728058 CACGCCCTTTGTGTTTGG 57.272 55.556 0.00 0.00 34.84 3.28
2986 9421 1.591327 CACGCCCTTTGTGTTTGGC 60.591 57.895 0.00 0.00 40.54 4.52
2988 9423 2.811799 GCCCTTTGTGTTTGGCGT 59.188 55.556 0.00 0.00 33.59 5.68
2989 9424 1.299850 GCCCTTTGTGTTTGGCGTC 60.300 57.895 0.00 0.00 33.59 5.19
2990 9425 1.008995 CCCTTTGTGTTTGGCGTCG 60.009 57.895 0.00 0.00 0.00 5.12
2991 9426 1.720694 CCCTTTGTGTTTGGCGTCGT 61.721 55.000 0.00 0.00 0.00 4.34
2992 9427 0.591236 CCTTTGTGTTTGGCGTCGTG 60.591 55.000 0.00 0.00 0.00 4.35
2993 9428 0.591236 CTTTGTGTTTGGCGTCGTGG 60.591 55.000 0.00 0.00 0.00 4.94
2994 9429 1.306642 TTTGTGTTTGGCGTCGTGGT 61.307 50.000 0.00 0.00 0.00 4.16
2995 9430 1.306642 TTGTGTTTGGCGTCGTGGTT 61.307 50.000 0.00 0.00 0.00 3.67
2996 9431 1.298041 GTGTTTGGCGTCGTGGTTG 60.298 57.895 0.00 0.00 0.00 3.77
2997 9432 2.330041 GTTTGGCGTCGTGGTTGG 59.670 61.111 0.00 0.00 0.00 3.77
2998 9433 3.587933 TTTGGCGTCGTGGTTGGC 61.588 61.111 0.00 0.00 0.00 4.52
2999 9434 4.555709 TTGGCGTCGTGGTTGGCT 62.556 61.111 0.00 0.00 0.00 4.75
3000 9435 4.555709 TGGCGTCGTGGTTGGCTT 62.556 61.111 0.00 0.00 0.00 4.35
3001 9436 3.723348 GGCGTCGTGGTTGGCTTC 61.723 66.667 0.00 0.00 0.00 3.86
3002 9437 2.970324 GCGTCGTGGTTGGCTTCA 60.970 61.111 0.00 0.00 0.00 3.02
3003 9438 2.935955 CGTCGTGGTTGGCTTCAC 59.064 61.111 0.00 0.00 0.00 3.18
3004 9439 2.604174 CGTCGTGGTTGGCTTCACC 61.604 63.158 0.00 0.00 39.84 4.02
3005 9440 2.112297 TCGTGGTTGGCTTCACCC 59.888 61.111 0.00 0.00 37.83 4.61
3006 9441 2.113139 CGTGGTTGGCTTCACCCT 59.887 61.111 0.00 0.00 37.83 4.34
3007 9442 2.260869 CGTGGTTGGCTTCACCCTG 61.261 63.158 0.00 0.00 37.83 4.45
3008 9443 2.203480 TGGTTGGCTTCACCCTGC 60.203 61.111 0.00 0.00 37.83 4.85
3009 9444 2.203480 GGTTGGCTTCACCCTGCA 60.203 61.111 0.00 0.00 37.83 4.41
3010 9445 2.270986 GGTTGGCTTCACCCTGCAG 61.271 63.158 6.78 6.78 37.83 4.41
3011 9446 1.228245 GTTGGCTTCACCCTGCAGA 60.228 57.895 17.39 0.00 37.83 4.26
3012 9447 1.073722 TTGGCTTCACCCTGCAGAG 59.926 57.895 17.39 3.79 37.83 3.35
3013 9448 1.418097 TTGGCTTCACCCTGCAGAGA 61.418 55.000 17.39 7.36 37.83 3.10
3014 9449 1.376466 GGCTTCACCCTGCAGAGAA 59.624 57.895 17.39 14.70 0.00 2.87
3015 9450 0.676151 GGCTTCACCCTGCAGAGAAG 60.676 60.000 25.96 25.96 40.23 2.85
3016 9451 0.676151 GCTTCACCCTGCAGAGAAGG 60.676 60.000 28.58 19.79 38.28 3.46
3017 9452 0.676151 CTTCACCCTGCAGAGAAGGC 60.676 60.000 24.10 0.00 35.13 4.35
3018 9453 1.130054 TTCACCCTGCAGAGAAGGCT 61.130 55.000 17.39 0.00 33.07 4.58
3019 9454 1.078567 CACCCTGCAGAGAAGGCTC 60.079 63.158 17.39 0.00 41.62 4.70
3020 9455 2.297129 ACCCTGCAGAGAAGGCTCC 61.297 63.158 17.39 0.00 42.30 4.70
3021 9456 2.186384 CCTGCAGAGAAGGCTCCG 59.814 66.667 17.39 0.00 42.30 4.63
3022 9457 2.186384 CTGCAGAGAAGGCTCCGG 59.814 66.667 8.42 0.00 42.30 5.14
3023 9458 4.087892 TGCAGAGAAGGCTCCGGC 62.088 66.667 0.00 0.00 42.30 6.13
3025 9460 4.521062 CAGAGAAGGCTCCGGCGG 62.521 72.222 22.51 22.51 42.30 6.13
3027 9462 4.821589 GAGAAGGCTCCGGCGGTG 62.822 72.222 27.32 24.90 39.81 4.94
3049 9484 2.034104 CTGCCAAGCTGCTCAATAGA 57.966 50.000 1.00 0.00 0.00 1.98
3050 9485 2.362736 CTGCCAAGCTGCTCAATAGAA 58.637 47.619 1.00 0.00 0.00 2.10
3051 9486 2.950309 CTGCCAAGCTGCTCAATAGAAT 59.050 45.455 1.00 0.00 0.00 2.40
3052 9487 3.359033 TGCCAAGCTGCTCAATAGAATT 58.641 40.909 1.00 0.00 0.00 2.17
3053 9488 4.525996 TGCCAAGCTGCTCAATAGAATTA 58.474 39.130 1.00 0.00 0.00 1.40
3054 9489 4.949238 TGCCAAGCTGCTCAATAGAATTAA 59.051 37.500 1.00 0.00 0.00 1.40
3055 9490 5.066893 TGCCAAGCTGCTCAATAGAATTAAG 59.933 40.000 1.00 0.00 0.00 1.85
3056 9491 5.506982 GCCAAGCTGCTCAATAGAATTAAGG 60.507 44.000 1.00 0.00 0.00 2.69
3057 9492 5.824624 CCAAGCTGCTCAATAGAATTAAGGA 59.175 40.000 1.00 0.00 0.00 3.36
3058 9493 6.238593 CCAAGCTGCTCAATAGAATTAAGGAC 60.239 42.308 1.00 0.00 0.00 3.85
3059 9494 5.053145 AGCTGCTCAATAGAATTAAGGACG 58.947 41.667 0.00 0.00 0.00 4.79
3060 9495 5.050490 GCTGCTCAATAGAATTAAGGACGA 58.950 41.667 0.00 0.00 0.00 4.20
3061 9496 5.698545 GCTGCTCAATAGAATTAAGGACGAT 59.301 40.000 0.00 0.00 0.00 3.73
3062 9497 6.347240 GCTGCTCAATAGAATTAAGGACGATG 60.347 42.308 0.00 0.00 0.00 3.84
3063 9498 6.816136 TGCTCAATAGAATTAAGGACGATGA 58.184 36.000 0.00 0.00 0.00 2.92
3064 9499 6.925718 TGCTCAATAGAATTAAGGACGATGAG 59.074 38.462 0.00 0.00 0.00 2.90
3065 9500 6.926272 GCTCAATAGAATTAAGGACGATGAGT 59.074 38.462 0.00 0.00 0.00 3.41
3066 9501 8.082852 GCTCAATAGAATTAAGGACGATGAGTA 58.917 37.037 0.00 0.00 0.00 2.59
3067 9502 9.619316 CTCAATAGAATTAAGGACGATGAGTAG 57.381 37.037 0.00 0.00 0.00 2.57
3068 9503 8.082852 TCAATAGAATTAAGGACGATGAGTAGC 58.917 37.037 0.00 0.00 0.00 3.58
3069 9504 7.768807 ATAGAATTAAGGACGATGAGTAGCT 57.231 36.000 0.00 0.00 0.00 3.32
3070 9505 8.865420 ATAGAATTAAGGACGATGAGTAGCTA 57.135 34.615 0.00 0.00 0.00 3.32
3071 9506 7.209471 AGAATTAAGGACGATGAGTAGCTAG 57.791 40.000 0.00 0.00 0.00 3.42
3072 9507 4.832590 TTAAGGACGATGAGTAGCTAGC 57.167 45.455 6.62 6.62 0.00 3.42
3073 9508 2.649531 AGGACGATGAGTAGCTAGCT 57.350 50.000 23.12 23.12 0.00 3.32
3074 9509 3.773418 AGGACGATGAGTAGCTAGCTA 57.227 47.619 20.67 20.67 0.00 3.32
3075 9510 3.670625 AGGACGATGAGTAGCTAGCTAG 58.329 50.000 24.78 16.84 0.00 3.42
3076 9511 3.071892 AGGACGATGAGTAGCTAGCTAGT 59.928 47.826 28.37 28.37 35.12 2.57
3077 9512 3.187637 GGACGATGAGTAGCTAGCTAGTG 59.812 52.174 32.04 20.89 32.80 2.74
3078 9513 2.550606 ACGATGAGTAGCTAGCTAGTGC 59.449 50.000 32.04 22.86 40.05 4.40
3079 9514 2.550180 CGATGAGTAGCTAGCTAGTGCA 59.450 50.000 32.04 26.55 42.74 4.57
3080 9515 3.364864 CGATGAGTAGCTAGCTAGTGCAG 60.365 52.174 32.04 17.84 42.74 4.41
3081 9516 3.006112 TGAGTAGCTAGCTAGTGCAGT 57.994 47.619 32.04 13.67 42.74 4.40
3082 9517 3.357203 TGAGTAGCTAGCTAGTGCAGTT 58.643 45.455 32.04 9.99 42.74 3.16
3083 9518 4.524053 TGAGTAGCTAGCTAGTGCAGTTA 58.476 43.478 32.04 8.10 42.74 2.24
3084 9519 4.948004 TGAGTAGCTAGCTAGTGCAGTTAA 59.052 41.667 32.04 4.61 42.74 2.01
3085 9520 5.594725 TGAGTAGCTAGCTAGTGCAGTTAAT 59.405 40.000 32.04 7.41 42.74 1.40
3086 9521 6.079424 AGTAGCTAGCTAGTGCAGTTAATC 57.921 41.667 27.62 11.07 42.74 1.75
3087 9522 5.830991 AGTAGCTAGCTAGTGCAGTTAATCT 59.169 40.000 27.62 13.00 42.74 2.40
3088 9523 5.606348 AGCTAGCTAGTGCAGTTAATCTT 57.394 39.130 17.69 0.00 42.74 2.40
3089 9524 5.596845 AGCTAGCTAGTGCAGTTAATCTTC 58.403 41.667 17.69 0.26 42.74 2.87
3090 9525 5.127845 AGCTAGCTAGTGCAGTTAATCTTCA 59.872 40.000 17.69 0.00 42.74 3.02
3091 9526 5.812642 GCTAGCTAGTGCAGTTAATCTTCAA 59.187 40.000 21.62 0.00 42.74 2.69
3092 9527 6.313905 GCTAGCTAGTGCAGTTAATCTTCAAA 59.686 38.462 21.62 0.00 42.74 2.69
3093 9528 7.011857 GCTAGCTAGTGCAGTTAATCTTCAAAT 59.988 37.037 21.62 0.00 42.74 2.32
3094 9529 7.693969 AGCTAGTGCAGTTAATCTTCAAATT 57.306 32.000 0.00 0.00 42.74 1.82
3095 9530 8.115490 AGCTAGTGCAGTTAATCTTCAAATTT 57.885 30.769 0.00 0.00 42.74 1.82
3096 9531 8.579863 AGCTAGTGCAGTTAATCTTCAAATTTT 58.420 29.630 0.00 0.00 42.74 1.82
3097 9532 8.642020 GCTAGTGCAGTTAATCTTCAAATTTTG 58.358 33.333 0.00 2.59 39.41 2.44
3098 9533 9.683069 CTAGTGCAGTTAATCTTCAAATTTTGT 57.317 29.630 0.00 0.00 0.00 2.83
3099 9534 8.947055 AGTGCAGTTAATCTTCAAATTTTGTT 57.053 26.923 8.89 0.00 0.00 2.83
3100 9535 8.819974 AGTGCAGTTAATCTTCAAATTTTGTTG 58.180 29.630 8.89 3.98 0.00 3.33
3101 9536 8.063630 GTGCAGTTAATCTTCAAATTTTGTTGG 58.936 33.333 8.89 1.84 0.00 3.77
3102 9537 7.071414 GCAGTTAATCTTCAAATTTTGTTGGC 58.929 34.615 8.89 0.00 0.00 4.52
3103 9538 7.254727 GCAGTTAATCTTCAAATTTTGTTGGCA 60.255 33.333 8.89 0.00 0.00 4.92
3104 9539 8.610896 CAGTTAATCTTCAAATTTTGTTGGCAA 58.389 29.630 8.89 0.00 0.00 4.52
3105 9540 9.341078 AGTTAATCTTCAAATTTTGTTGGCAAT 57.659 25.926 1.92 0.00 34.18 3.56
3106 9541 9.949174 GTTAATCTTCAAATTTTGTTGGCAATT 57.051 25.926 1.92 0.00 34.18 2.32
3107 9542 9.947669 TTAATCTTCAAATTTTGTTGGCAATTG 57.052 25.926 1.92 0.00 34.18 2.32
3108 9543 6.998968 TCTTCAAATTTTGTTGGCAATTGT 57.001 29.167 1.92 0.00 34.18 2.71
3109 9544 6.783162 TCTTCAAATTTTGTTGGCAATTGTG 58.217 32.000 1.92 1.62 34.18 3.33
3123 9558 4.675190 CAATTGTGCTCCAGTTACTCTG 57.325 45.455 0.00 0.00 43.27 3.35
3124 9559 4.067896 CAATTGTGCTCCAGTTACTCTGT 58.932 43.478 0.00 0.00 42.19 3.41
3125 9560 5.237815 CAATTGTGCTCCAGTTACTCTGTA 58.762 41.667 0.00 0.00 42.19 2.74
3126 9561 4.521130 TTGTGCTCCAGTTACTCTGTAG 57.479 45.455 0.00 0.00 42.19 2.74
3127 9562 3.497332 TGTGCTCCAGTTACTCTGTAGT 58.503 45.455 0.00 0.00 42.19 2.73
3128 9563 4.659115 TGTGCTCCAGTTACTCTGTAGTA 58.341 43.478 0.00 0.00 42.19 1.82
3129 9564 4.700692 TGTGCTCCAGTTACTCTGTAGTAG 59.299 45.833 0.00 0.00 42.19 2.57
3130 9565 3.695060 TGCTCCAGTTACTCTGTAGTAGC 59.305 47.826 0.00 0.00 42.19 3.58
3131 9566 3.067040 GCTCCAGTTACTCTGTAGTAGCC 59.933 52.174 0.00 0.00 39.53 3.93
3132 9567 3.629087 TCCAGTTACTCTGTAGTAGCCC 58.371 50.000 0.00 0.00 39.53 5.19
3133 9568 2.694109 CCAGTTACTCTGTAGTAGCCCC 59.306 54.545 0.00 0.00 39.53 5.80
3134 9569 2.358267 CAGTTACTCTGTAGTAGCCCCG 59.642 54.545 0.00 0.00 39.53 5.73
3135 9570 2.240667 AGTTACTCTGTAGTAGCCCCGA 59.759 50.000 0.00 0.00 39.53 5.14
3136 9571 3.019564 GTTACTCTGTAGTAGCCCCGAA 58.980 50.000 0.00 0.00 39.36 4.30
3137 9572 2.226962 ACTCTGTAGTAGCCCCGAAA 57.773 50.000 0.00 0.00 32.84 3.46
3138 9573 2.748388 ACTCTGTAGTAGCCCCGAAAT 58.252 47.619 0.00 0.00 32.84 2.17
3139 9574 2.431057 ACTCTGTAGTAGCCCCGAAATG 59.569 50.000 0.00 0.00 32.84 2.32
3140 9575 2.693591 CTCTGTAGTAGCCCCGAAATGA 59.306 50.000 0.00 0.00 0.00 2.57
3141 9576 3.101437 TCTGTAGTAGCCCCGAAATGAA 58.899 45.455 0.00 0.00 0.00 2.57
3142 9577 3.118884 TCTGTAGTAGCCCCGAAATGAAC 60.119 47.826 0.00 0.00 0.00 3.18
3143 9578 2.093341 TGTAGTAGCCCCGAAATGAACC 60.093 50.000 0.00 0.00 0.00 3.62
3144 9579 1.286248 AGTAGCCCCGAAATGAACCT 58.714 50.000 0.00 0.00 0.00 3.50
3145 9580 1.209747 AGTAGCCCCGAAATGAACCTC 59.790 52.381 0.00 0.00 0.00 3.85
3146 9581 1.065709 GTAGCCCCGAAATGAACCTCA 60.066 52.381 0.00 0.00 0.00 3.86
3147 9582 0.625849 AGCCCCGAAATGAACCTCAT 59.374 50.000 0.00 0.00 39.09 2.90
3149 9584 1.134946 GCCCCGAAATGAACCTCATTG 59.865 52.381 2.76 0.00 45.57 2.82
3150 9585 1.750778 CCCCGAAATGAACCTCATTGG 59.249 52.381 2.76 1.64 45.57 3.16
3151 9586 1.134946 CCCGAAATGAACCTCATTGGC 59.865 52.381 2.76 0.00 45.57 4.52
3152 9587 2.094675 CCGAAATGAACCTCATTGGCT 58.905 47.619 2.76 0.00 45.57 4.75
3153 9588 2.159338 CCGAAATGAACCTCATTGGCTG 60.159 50.000 2.76 0.00 45.57 4.85
3154 9589 2.733227 CGAAATGAACCTCATTGGCTGC 60.733 50.000 2.76 0.00 45.57 5.25
3155 9590 2.226962 AATGAACCTCATTGGCTGCT 57.773 45.000 0.00 0.00 44.68 4.24
3156 9591 3.370840 AATGAACCTCATTGGCTGCTA 57.629 42.857 0.00 0.00 44.68 3.49
3157 9592 2.408271 TGAACCTCATTGGCTGCTAG 57.592 50.000 0.00 0.00 40.22 3.42
3158 9593 1.065199 TGAACCTCATTGGCTGCTAGG 60.065 52.381 0.00 2.12 40.22 3.02
3159 9594 1.210478 GAACCTCATTGGCTGCTAGGA 59.790 52.381 0.00 0.00 40.22 2.94
3160 9595 1.516110 ACCTCATTGGCTGCTAGGAT 58.484 50.000 0.00 0.00 40.22 3.24
3161 9596 1.849039 ACCTCATTGGCTGCTAGGATT 59.151 47.619 0.00 0.00 40.22 3.01
3162 9597 3.048600 ACCTCATTGGCTGCTAGGATTA 58.951 45.455 0.00 0.00 40.22 1.75
3163 9598 3.459598 ACCTCATTGGCTGCTAGGATTAA 59.540 43.478 0.00 0.00 40.22 1.40
3164 9599 3.817647 CCTCATTGGCTGCTAGGATTAAC 59.182 47.826 0.00 0.00 0.00 2.01
3165 9600 4.445448 CCTCATTGGCTGCTAGGATTAACT 60.445 45.833 0.00 0.00 0.00 2.24
3166 9601 4.454678 TCATTGGCTGCTAGGATTAACTG 58.545 43.478 0.00 0.00 0.00 3.16
3167 9602 4.080356 TCATTGGCTGCTAGGATTAACTGT 60.080 41.667 0.00 0.00 0.00 3.55
3168 9603 3.266510 TGGCTGCTAGGATTAACTGTG 57.733 47.619 0.00 0.00 0.00 3.66
3169 9604 2.837591 TGGCTGCTAGGATTAACTGTGA 59.162 45.455 0.00 0.00 0.00 3.58
3170 9605 3.455910 TGGCTGCTAGGATTAACTGTGAT 59.544 43.478 0.00 0.00 0.00 3.06
3171 9606 3.812053 GGCTGCTAGGATTAACTGTGATG 59.188 47.826 0.00 0.00 0.00 3.07
3172 9607 4.443457 GGCTGCTAGGATTAACTGTGATGA 60.443 45.833 0.00 0.00 0.00 2.92
3173 9608 4.749099 GCTGCTAGGATTAACTGTGATGAG 59.251 45.833 0.00 0.00 0.00 2.90
3174 9609 5.683509 GCTGCTAGGATTAACTGTGATGAGT 60.684 44.000 0.00 0.00 0.00 3.41
3175 9610 6.461648 GCTGCTAGGATTAACTGTGATGAGTA 60.462 42.308 0.00 0.00 0.00 2.59
3176 9611 7.418337 TGCTAGGATTAACTGTGATGAGTAA 57.582 36.000 0.00 0.00 0.00 2.24
3177 9612 7.847096 TGCTAGGATTAACTGTGATGAGTAAA 58.153 34.615 0.00 0.00 0.00 2.01
3178 9613 8.486210 TGCTAGGATTAACTGTGATGAGTAAAT 58.514 33.333 0.00 0.00 0.00 1.40
3179 9614 9.982651 GCTAGGATTAACTGTGATGAGTAAATA 57.017 33.333 0.00 0.00 0.00 1.40
3181 9616 8.894768 AGGATTAACTGTGATGAGTAAATAGC 57.105 34.615 0.00 0.00 0.00 2.97
3182 9617 8.486210 AGGATTAACTGTGATGAGTAAATAGCA 58.514 33.333 0.00 0.00 0.00 3.49
3183 9618 9.277783 GGATTAACTGTGATGAGTAAATAGCAT 57.722 33.333 0.00 0.00 0.00 3.79
3189 9624 9.672673 ACTGTGATGAGTAAATAGCATAAAACT 57.327 29.630 0.00 0.00 0.00 2.66
3203 9638 7.845066 AGCATAAAACTACTACTTTACTGGC 57.155 36.000 0.00 0.00 0.00 4.85
3204 9639 7.621796 AGCATAAAACTACTACTTTACTGGCT 58.378 34.615 0.00 0.00 0.00 4.75
3205 9640 7.764901 AGCATAAAACTACTACTTTACTGGCTC 59.235 37.037 0.00 0.00 0.00 4.70
3206 9641 7.548075 GCATAAAACTACTACTTTACTGGCTCA 59.452 37.037 0.00 0.00 0.00 4.26
3207 9642 9.088512 CATAAAACTACTACTTTACTGGCTCAG 57.911 37.037 1.16 1.16 37.52 3.35
3208 9643 5.662674 AACTACTACTTTACTGGCTCAGG 57.337 43.478 7.06 0.00 35.51 3.86
3209 9644 4.675038 ACTACTACTTTACTGGCTCAGGT 58.325 43.478 7.06 0.00 35.51 4.00
3210 9645 5.824421 ACTACTACTTTACTGGCTCAGGTA 58.176 41.667 7.06 0.15 35.51 3.08
3211 9646 6.251471 ACTACTACTTTACTGGCTCAGGTAA 58.749 40.000 7.06 0.00 35.51 2.85
3212 9647 5.662674 ACTACTTTACTGGCTCAGGTAAG 57.337 43.478 7.06 10.34 35.51 2.34
3213 9648 3.983044 ACTTTACTGGCTCAGGTAAGG 57.017 47.619 15.79 0.00 35.51 2.69
3214 9649 2.027100 ACTTTACTGGCTCAGGTAAGGC 60.027 50.000 15.79 0.00 41.95 4.35
3218 9653 2.695561 TGGCTCAGGTAAGGCATCA 58.304 52.632 0.00 0.00 45.83 3.07
3219 9654 0.543277 TGGCTCAGGTAAGGCATCAG 59.457 55.000 0.00 0.00 45.83 2.90
3220 9655 0.179034 GGCTCAGGTAAGGCATCAGG 60.179 60.000 0.00 0.00 41.28 3.86
3221 9656 0.543749 GCTCAGGTAAGGCATCAGGT 59.456 55.000 0.00 0.00 0.00 4.00
3222 9657 1.065126 GCTCAGGTAAGGCATCAGGTT 60.065 52.381 0.00 0.00 0.00 3.50
3223 9658 2.911484 CTCAGGTAAGGCATCAGGTTC 58.089 52.381 0.00 0.00 0.00 3.62
3224 9659 2.237143 CTCAGGTAAGGCATCAGGTTCA 59.763 50.000 0.00 0.00 0.00 3.18
3225 9660 2.642311 TCAGGTAAGGCATCAGGTTCAA 59.358 45.455 0.00 0.00 0.00 2.69
3226 9661 3.266772 TCAGGTAAGGCATCAGGTTCAAT 59.733 43.478 0.00 0.00 0.00 2.57
3227 9662 3.629398 CAGGTAAGGCATCAGGTTCAATC 59.371 47.826 0.00 0.00 0.00 2.67
3228 9663 3.266772 AGGTAAGGCATCAGGTTCAATCA 59.733 43.478 0.00 0.00 0.00 2.57
3229 9664 3.378427 GGTAAGGCATCAGGTTCAATCAC 59.622 47.826 0.00 0.00 0.00 3.06
3230 9665 2.134789 AGGCATCAGGTTCAATCACC 57.865 50.000 0.00 0.00 37.04 4.02
3231 9666 1.355381 AGGCATCAGGTTCAATCACCA 59.645 47.619 0.00 0.00 39.62 4.17
3232 9667 2.170166 GGCATCAGGTTCAATCACCAA 58.830 47.619 0.00 0.00 39.62 3.67
3233 9668 2.165030 GGCATCAGGTTCAATCACCAAG 59.835 50.000 0.00 0.00 39.62 3.61
3234 9669 3.084039 GCATCAGGTTCAATCACCAAGA 58.916 45.455 0.00 0.00 39.62 3.02
3235 9670 3.507233 GCATCAGGTTCAATCACCAAGAA 59.493 43.478 0.00 0.00 39.62 2.52
3236 9671 4.022068 GCATCAGGTTCAATCACCAAGAAA 60.022 41.667 0.00 0.00 39.62 2.52
3237 9672 5.706916 CATCAGGTTCAATCACCAAGAAAG 58.293 41.667 0.00 0.00 39.62 2.62
3238 9673 5.047566 TCAGGTTCAATCACCAAGAAAGA 57.952 39.130 0.00 0.00 39.62 2.52
3239 9674 5.065914 TCAGGTTCAATCACCAAGAAAGAG 58.934 41.667 0.00 0.00 39.62 2.85
3240 9675 5.065914 CAGGTTCAATCACCAAGAAAGAGA 58.934 41.667 0.00 0.00 39.62 3.10
3241 9676 5.532406 CAGGTTCAATCACCAAGAAAGAGAA 59.468 40.000 0.00 0.00 39.62 2.87
3242 9677 6.039717 CAGGTTCAATCACCAAGAAAGAGAAA 59.960 38.462 0.00 0.00 39.62 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
360 424 5.339200 GGGAAAAGGAGGATGTTGACAGATA 60.339 44.000 0.00 0.00 0.00 1.98
591 660 6.787170 AGACATGGGCACTGATAATATTGAT 58.213 36.000 0.00 0.00 0.00 2.57
751 820 7.669722 GGATTGGGGCATGATAGTTTCTAATTA 59.330 37.037 0.00 0.00 0.00 1.40
923 1575 9.675464 ACCAGTAATTAGGAAACGATCAAAATA 57.325 29.630 0.00 0.00 0.00 1.40
2302 5395 7.202121 CCATACATCACATATATAGGGGCATGA 60.202 40.741 12.78 3.11 0.00 3.07
2389 5495 6.568869 AGAGTTCGCATATTAGATAGCCATC 58.431 40.000 0.00 0.00 0.00 3.51
2390 5496 6.537453 AGAGTTCGCATATTAGATAGCCAT 57.463 37.500 0.00 0.00 0.00 4.40
2787 9221 4.689812 GGTTGTATGAGAGATGCAGCATAG 59.310 45.833 8.22 0.00 0.00 2.23
2845 9280 3.088912 TGCATGACATGGGGCAGA 58.911 55.556 17.03 0.00 0.00 4.26
2855 9290 0.385029 TGTTTGGTGCACTGCATGAC 59.615 50.000 17.98 9.42 41.91 3.06
2981 9416 3.587933 GCCAACCACGACGCCAAA 61.588 61.111 0.00 0.00 0.00 3.28
2982 9417 4.555709 AGCCAACCACGACGCCAA 62.556 61.111 0.00 0.00 0.00 4.52
2983 9418 4.555709 AAGCCAACCACGACGCCA 62.556 61.111 0.00 0.00 0.00 5.69
2984 9419 3.723348 GAAGCCAACCACGACGCC 61.723 66.667 0.00 0.00 0.00 5.68
2985 9420 2.970324 TGAAGCCAACCACGACGC 60.970 61.111 0.00 0.00 0.00 5.19
2986 9421 2.604174 GGTGAAGCCAACCACGACG 61.604 63.158 0.00 0.00 37.17 5.12
2987 9422 3.340789 GGTGAAGCCAACCACGAC 58.659 61.111 0.00 0.00 37.17 4.34
2993 9428 1.228245 TCTGCAGGGTGAAGCCAAC 60.228 57.895 15.13 0.00 39.65 3.77
2994 9429 1.073722 CTCTGCAGGGTGAAGCCAA 59.926 57.895 15.13 0.00 39.65 4.52
2995 9430 1.418097 TTCTCTGCAGGGTGAAGCCA 61.418 55.000 14.66 0.00 39.65 4.75
2996 9431 0.676151 CTTCTCTGCAGGGTGAAGCC 60.676 60.000 22.20 0.00 31.20 4.35
2997 9432 0.676151 CCTTCTCTGCAGGGTGAAGC 60.676 60.000 25.50 0.00 35.80 3.86
2998 9433 0.676151 GCCTTCTCTGCAGGGTGAAG 60.676 60.000 24.67 24.67 36.59 3.02
2999 9434 1.130054 AGCCTTCTCTGCAGGGTGAA 61.130 55.000 14.66 14.17 40.77 3.18
3000 9435 1.537397 AGCCTTCTCTGCAGGGTGA 60.537 57.895 14.66 7.17 40.77 4.02
3001 9436 1.078567 GAGCCTTCTCTGCAGGGTG 60.079 63.158 14.66 7.91 42.42 4.61
3002 9437 2.297129 GGAGCCTTCTCTGCAGGGT 61.297 63.158 14.66 2.90 45.15 4.34
3003 9438 2.588989 GGAGCCTTCTCTGCAGGG 59.411 66.667 15.13 11.57 39.31 4.45
3004 9439 2.186384 CGGAGCCTTCTCTGCAGG 59.814 66.667 15.13 4.77 38.73 4.85
3005 9440 2.186384 CCGGAGCCTTCTCTGCAG 59.814 66.667 7.63 7.63 42.97 4.41
3006 9441 4.087892 GCCGGAGCCTTCTCTGCA 62.088 66.667 5.05 0.00 42.97 4.41
3008 9443 4.521062 CCGCCGGAGCCTTCTCTG 62.521 72.222 5.05 0.00 43.74 3.35
3010 9445 4.821589 CACCGCCGGAGCCTTCTC 62.822 72.222 11.71 0.00 38.62 2.87
3030 9465 2.034104 TCTATTGAGCAGCTTGGCAG 57.966 50.000 0.00 0.00 35.83 4.85
3031 9466 2.495155 TTCTATTGAGCAGCTTGGCA 57.505 45.000 0.00 0.00 35.83 4.92
3032 9467 5.505173 TTAATTCTATTGAGCAGCTTGGC 57.495 39.130 0.00 0.00 0.00 4.52
3033 9468 5.824624 TCCTTAATTCTATTGAGCAGCTTGG 59.175 40.000 0.00 0.00 0.00 3.61
3034 9469 6.510799 CGTCCTTAATTCTATTGAGCAGCTTG 60.511 42.308 0.00 0.00 0.00 4.01
3035 9470 5.525378 CGTCCTTAATTCTATTGAGCAGCTT 59.475 40.000 0.00 0.00 0.00 3.74
3036 9471 5.053145 CGTCCTTAATTCTATTGAGCAGCT 58.947 41.667 0.00 0.00 0.00 4.24
3037 9472 5.050490 TCGTCCTTAATTCTATTGAGCAGC 58.950 41.667 0.00 0.00 0.00 5.25
3038 9473 6.925718 TCATCGTCCTTAATTCTATTGAGCAG 59.074 38.462 0.00 0.00 0.00 4.24
3039 9474 6.816136 TCATCGTCCTTAATTCTATTGAGCA 58.184 36.000 0.00 0.00 0.00 4.26
3040 9475 6.926272 ACTCATCGTCCTTAATTCTATTGAGC 59.074 38.462 0.00 0.00 32.20 4.26
3041 9476 9.619316 CTACTCATCGTCCTTAATTCTATTGAG 57.381 37.037 0.00 0.00 34.51 3.02
3042 9477 8.082852 GCTACTCATCGTCCTTAATTCTATTGA 58.917 37.037 0.00 0.00 0.00 2.57
3043 9478 8.085296 AGCTACTCATCGTCCTTAATTCTATTG 58.915 37.037 0.00 0.00 0.00 1.90
3044 9479 8.184304 AGCTACTCATCGTCCTTAATTCTATT 57.816 34.615 0.00 0.00 0.00 1.73
3045 9480 7.768807 AGCTACTCATCGTCCTTAATTCTAT 57.231 36.000 0.00 0.00 0.00 1.98
3046 9481 7.094720 GCTAGCTACTCATCGTCCTTAATTCTA 60.095 40.741 7.70 0.00 0.00 2.10
3047 9482 6.294286 GCTAGCTACTCATCGTCCTTAATTCT 60.294 42.308 7.70 0.00 0.00 2.40
3048 9483 5.859648 GCTAGCTACTCATCGTCCTTAATTC 59.140 44.000 7.70 0.00 0.00 2.17
3049 9484 5.536916 AGCTAGCTACTCATCGTCCTTAATT 59.463 40.000 17.69 0.00 0.00 1.40
3050 9485 5.074115 AGCTAGCTACTCATCGTCCTTAAT 58.926 41.667 17.69 0.00 0.00 1.40
3051 9486 4.462133 AGCTAGCTACTCATCGTCCTTAA 58.538 43.478 17.69 0.00 0.00 1.85
3052 9487 4.088056 AGCTAGCTACTCATCGTCCTTA 57.912 45.455 17.69 0.00 0.00 2.69
3053 9488 2.938838 AGCTAGCTACTCATCGTCCTT 58.061 47.619 17.69 0.00 0.00 3.36
3054 9489 2.649531 AGCTAGCTACTCATCGTCCT 57.350 50.000 17.69 0.00 0.00 3.85
3055 9490 3.187637 CACTAGCTAGCTACTCATCGTCC 59.812 52.174 20.67 0.00 0.00 4.79
3056 9491 3.364565 GCACTAGCTAGCTACTCATCGTC 60.365 52.174 20.67 6.77 37.91 4.20
3057 9492 2.550606 GCACTAGCTAGCTACTCATCGT 59.449 50.000 20.67 12.71 37.91 3.73
3058 9493 2.550180 TGCACTAGCTAGCTACTCATCG 59.450 50.000 20.67 12.07 42.74 3.84
3059 9494 3.568007 ACTGCACTAGCTAGCTACTCATC 59.432 47.826 20.67 8.66 42.74 2.92
3060 9495 3.561143 ACTGCACTAGCTAGCTACTCAT 58.439 45.455 20.67 3.98 42.74 2.90
3061 9496 3.006112 ACTGCACTAGCTAGCTACTCA 57.994 47.619 20.67 15.71 42.74 3.41
3062 9497 5.502153 TTAACTGCACTAGCTAGCTACTC 57.498 43.478 20.67 12.23 42.74 2.59
3063 9498 5.830991 AGATTAACTGCACTAGCTAGCTACT 59.169 40.000 20.67 9.18 42.74 2.57
3064 9499 6.079424 AGATTAACTGCACTAGCTAGCTAC 57.921 41.667 20.67 11.71 42.74 3.58
3065 9500 6.321435 TGAAGATTAACTGCACTAGCTAGCTA 59.679 38.462 22.85 22.85 42.74 3.32
3066 9501 5.127845 TGAAGATTAACTGCACTAGCTAGCT 59.872 40.000 23.12 23.12 42.74 3.32
3067 9502 5.352284 TGAAGATTAACTGCACTAGCTAGC 58.648 41.667 20.91 6.62 42.74 3.42
3068 9503 7.834068 TTTGAAGATTAACTGCACTAGCTAG 57.166 36.000 19.44 19.44 42.74 3.42
3069 9504 8.792830 AATTTGAAGATTAACTGCACTAGCTA 57.207 30.769 0.00 0.00 42.74 3.32
3070 9505 7.693969 AATTTGAAGATTAACTGCACTAGCT 57.306 32.000 0.00 0.00 42.74 3.32
3071 9506 8.642020 CAAAATTTGAAGATTAACTGCACTAGC 58.358 33.333 0.00 0.00 33.23 3.42
3072 9507 9.683069 ACAAAATTTGAAGATTAACTGCACTAG 57.317 29.630 13.19 0.00 33.23 2.57
3074 9509 8.819974 CAACAAAATTTGAAGATTAACTGCACT 58.180 29.630 13.19 0.00 33.23 4.40
3075 9510 8.063630 CCAACAAAATTTGAAGATTAACTGCAC 58.936 33.333 13.19 0.00 33.23 4.57
3076 9511 7.254727 GCCAACAAAATTTGAAGATTAACTGCA 60.255 33.333 13.19 0.00 31.26 4.41
3077 9512 7.071414 GCCAACAAAATTTGAAGATTAACTGC 58.929 34.615 13.19 0.00 0.00 4.40
3078 9513 8.140677 TGCCAACAAAATTTGAAGATTAACTG 57.859 30.769 13.19 0.00 0.00 3.16
3079 9514 8.729805 TTGCCAACAAAATTTGAAGATTAACT 57.270 26.923 13.19 0.00 31.21 2.24
3080 9515 9.949174 AATTGCCAACAAAATTTGAAGATTAAC 57.051 25.926 13.19 0.00 39.77 2.01
3081 9516 9.947669 CAATTGCCAACAAAATTTGAAGATTAA 57.052 25.926 13.19 1.43 39.77 1.40
3082 9517 9.118300 ACAATTGCCAACAAAATTTGAAGATTA 57.882 25.926 13.19 0.00 39.77 1.75
3083 9518 7.916450 CACAATTGCCAACAAAATTTGAAGATT 59.084 29.630 13.19 0.00 39.77 2.40
3084 9519 7.419204 CACAATTGCCAACAAAATTTGAAGAT 58.581 30.769 13.19 0.00 39.77 2.40
3085 9520 6.677431 GCACAATTGCCAACAAAATTTGAAGA 60.677 34.615 13.19 0.00 43.66 2.87
3086 9521 5.456173 GCACAATTGCCAACAAAATTTGAAG 59.544 36.000 13.19 4.16 43.66 3.02
3087 9522 5.338365 GCACAATTGCCAACAAAATTTGAA 58.662 33.333 13.19 0.00 43.66 2.69
3088 9523 4.918037 GCACAATTGCCAACAAAATTTGA 58.082 34.783 13.19 0.00 43.66 2.69
3100 9535 6.155481 CAGAGTAACTGGAGCACAATTGCC 62.155 50.000 5.05 0.00 45.05 4.52
3101 9536 3.120060 CAGAGTAACTGGAGCACAATTGC 60.120 47.826 5.05 0.00 44.67 3.56
3102 9537 4.675190 CAGAGTAACTGGAGCACAATTG 57.325 45.455 3.24 3.24 42.39 2.32
3114 9549 2.240667 TCGGGGCTACTACAGAGTAACT 59.759 50.000 0.00 0.00 37.72 2.24
3115 9550 2.648059 TCGGGGCTACTACAGAGTAAC 58.352 52.381 0.00 0.00 37.72 2.50
3116 9551 3.370840 TTCGGGGCTACTACAGAGTAA 57.629 47.619 0.00 0.00 37.72 2.24
3117 9552 3.370840 TTTCGGGGCTACTACAGAGTA 57.629 47.619 0.00 0.00 37.10 2.59
3118 9553 2.226962 TTTCGGGGCTACTACAGAGT 57.773 50.000 0.00 0.00 39.92 3.24
3119 9554 2.693591 TCATTTCGGGGCTACTACAGAG 59.306 50.000 0.00 0.00 0.00 3.35
3120 9555 2.742348 TCATTTCGGGGCTACTACAGA 58.258 47.619 0.00 0.00 0.00 3.41
3121 9556 3.195661 GTTCATTTCGGGGCTACTACAG 58.804 50.000 0.00 0.00 0.00 2.74
3122 9557 2.093341 GGTTCATTTCGGGGCTACTACA 60.093 50.000 0.00 0.00 0.00 2.74
3123 9558 2.169978 AGGTTCATTTCGGGGCTACTAC 59.830 50.000 0.00 0.00 0.00 2.73
3124 9559 2.433239 GAGGTTCATTTCGGGGCTACTA 59.567 50.000 0.00 0.00 0.00 1.82
3125 9560 1.209747 GAGGTTCATTTCGGGGCTACT 59.790 52.381 0.00 0.00 0.00 2.57
3126 9561 1.065709 TGAGGTTCATTTCGGGGCTAC 60.066 52.381 0.00 0.00 0.00 3.58
3127 9562 1.281419 TGAGGTTCATTTCGGGGCTA 58.719 50.000 0.00 0.00 0.00 3.93
3128 9563 0.625849 ATGAGGTTCATTTCGGGGCT 59.374 50.000 0.00 0.00 32.13 5.19
3129 9564 1.134946 CAATGAGGTTCATTTCGGGGC 59.865 52.381 1.71 0.00 44.03 5.80
3130 9565 1.750778 CCAATGAGGTTCATTTCGGGG 59.249 52.381 1.71 0.00 44.03 5.73
3131 9566 1.134946 GCCAATGAGGTTCATTTCGGG 59.865 52.381 1.71 2.76 44.03 5.14
3132 9567 2.094675 AGCCAATGAGGTTCATTTCGG 58.905 47.619 1.71 3.37 44.03 4.30
3133 9568 2.733227 GCAGCCAATGAGGTTCATTTCG 60.733 50.000 1.71 0.00 44.03 3.46
3134 9569 2.494870 AGCAGCCAATGAGGTTCATTTC 59.505 45.455 1.71 0.00 44.03 2.17
3135 9570 2.532843 AGCAGCCAATGAGGTTCATTT 58.467 42.857 1.71 0.00 44.03 2.32
3137 9572 2.422519 CCTAGCAGCCAATGAGGTTCAT 60.423 50.000 0.00 0.00 39.09 2.57
3138 9573 1.065199 CCTAGCAGCCAATGAGGTTCA 60.065 52.381 0.00 0.00 40.61 3.18
3139 9574 1.210478 TCCTAGCAGCCAATGAGGTTC 59.790 52.381 0.00 0.00 40.61 3.62
3140 9575 1.289160 TCCTAGCAGCCAATGAGGTT 58.711 50.000 0.00 0.00 40.61 3.50
3141 9576 1.516110 ATCCTAGCAGCCAATGAGGT 58.484 50.000 0.00 0.00 40.61 3.85
3142 9577 2.653234 AATCCTAGCAGCCAATGAGG 57.347 50.000 0.00 0.00 41.84 3.86
3143 9578 4.514441 CAGTTAATCCTAGCAGCCAATGAG 59.486 45.833 0.00 0.00 0.00 2.90
3144 9579 4.080356 ACAGTTAATCCTAGCAGCCAATGA 60.080 41.667 0.00 0.00 0.00 2.57
3145 9580 4.036027 CACAGTTAATCCTAGCAGCCAATG 59.964 45.833 0.00 0.00 0.00 2.82
3146 9581 4.080356 TCACAGTTAATCCTAGCAGCCAAT 60.080 41.667 0.00 0.00 0.00 3.16
3147 9582 3.263170 TCACAGTTAATCCTAGCAGCCAA 59.737 43.478 0.00 0.00 0.00 4.52
3148 9583 2.837591 TCACAGTTAATCCTAGCAGCCA 59.162 45.455 0.00 0.00 0.00 4.75
3149 9584 3.543680 TCACAGTTAATCCTAGCAGCC 57.456 47.619 0.00 0.00 0.00 4.85
3150 9585 4.697514 TCATCACAGTTAATCCTAGCAGC 58.302 43.478 0.00 0.00 0.00 5.25
3151 9586 5.911752 ACTCATCACAGTTAATCCTAGCAG 58.088 41.667 0.00 0.00 0.00 4.24
3152 9587 5.939764 ACTCATCACAGTTAATCCTAGCA 57.060 39.130 0.00 0.00 0.00 3.49
3153 9588 8.894768 ATTTACTCATCACAGTTAATCCTAGC 57.105 34.615 0.00 0.00 0.00 3.42
3155 9590 9.982651 GCTATTTACTCATCACAGTTAATCCTA 57.017 33.333 0.00 0.00 30.32 2.94
3156 9591 8.486210 TGCTATTTACTCATCACAGTTAATCCT 58.514 33.333 0.00 0.00 30.32 3.24
3157 9592 8.662781 TGCTATTTACTCATCACAGTTAATCC 57.337 34.615 0.00 0.00 30.32 3.01
3163 9598 9.672673 AGTTTTATGCTATTTACTCATCACAGT 57.327 29.630 0.00 0.00 0.00 3.55
3177 9612 9.543783 GCCAGTAAAGTAGTAGTTTTATGCTAT 57.456 33.333 8.25 0.00 0.00 2.97
3178 9613 8.755977 AGCCAGTAAAGTAGTAGTTTTATGCTA 58.244 33.333 8.25 0.00 0.00 3.49
3179 9614 7.621796 AGCCAGTAAAGTAGTAGTTTTATGCT 58.378 34.615 8.25 8.77 0.00 3.79
3180 9615 7.548075 TGAGCCAGTAAAGTAGTAGTTTTATGC 59.452 37.037 8.25 6.96 0.00 3.14
3181 9616 8.997621 TGAGCCAGTAAAGTAGTAGTTTTATG 57.002 34.615 8.25 7.66 0.00 1.90
3182 9617 8.258708 CCTGAGCCAGTAAAGTAGTAGTTTTAT 58.741 37.037 8.25 0.00 0.00 1.40
3183 9618 7.234166 ACCTGAGCCAGTAAAGTAGTAGTTTTA 59.766 37.037 8.25 0.00 0.00 1.52
3184 9619 6.042897 ACCTGAGCCAGTAAAGTAGTAGTTTT 59.957 38.462 8.25 0.00 0.00 2.43
3185 9620 5.543020 ACCTGAGCCAGTAAAGTAGTAGTTT 59.457 40.000 8.04 8.04 0.00 2.66
3186 9621 5.085219 ACCTGAGCCAGTAAAGTAGTAGTT 58.915 41.667 2.18 0.00 0.00 2.24
3187 9622 4.675038 ACCTGAGCCAGTAAAGTAGTAGT 58.325 43.478 2.18 0.00 0.00 2.73
3188 9623 6.183360 CCTTACCTGAGCCAGTAAAGTAGTAG 60.183 46.154 2.18 0.00 0.00 2.57
3189 9624 5.655532 CCTTACCTGAGCCAGTAAAGTAGTA 59.344 44.000 2.18 0.00 0.00 1.82
3190 9625 4.466726 CCTTACCTGAGCCAGTAAAGTAGT 59.533 45.833 2.18 0.00 0.00 2.73
3191 9626 4.680975 GCCTTACCTGAGCCAGTAAAGTAG 60.681 50.000 2.18 0.00 0.00 2.57
3192 9627 3.197116 GCCTTACCTGAGCCAGTAAAGTA 59.803 47.826 2.18 0.00 0.00 2.24
3193 9628 2.027100 GCCTTACCTGAGCCAGTAAAGT 60.027 50.000 2.18 0.00 0.00 2.66
3194 9629 2.027192 TGCCTTACCTGAGCCAGTAAAG 60.027 50.000 2.18 4.85 0.00 1.85
3195 9630 1.982226 TGCCTTACCTGAGCCAGTAAA 59.018 47.619 2.18 0.00 0.00 2.01
3196 9631 1.651737 TGCCTTACCTGAGCCAGTAA 58.348 50.000 2.18 0.00 0.00 2.24
3197 9632 1.762957 GATGCCTTACCTGAGCCAGTA 59.237 52.381 2.18 0.00 0.00 2.74
3198 9633 0.543749 GATGCCTTACCTGAGCCAGT 59.456 55.000 2.18 0.00 0.00 4.00
3199 9634 0.543277 TGATGCCTTACCTGAGCCAG 59.457 55.000 0.00 0.00 0.00 4.85
3200 9635 0.543277 CTGATGCCTTACCTGAGCCA 59.457 55.000 0.00 0.00 0.00 4.75
3201 9636 0.179034 CCTGATGCCTTACCTGAGCC 60.179 60.000 0.00 0.00 0.00 4.70
3202 9637 0.543749 ACCTGATGCCTTACCTGAGC 59.456 55.000 0.00 0.00 0.00 4.26
3203 9638 2.237143 TGAACCTGATGCCTTACCTGAG 59.763 50.000 0.00 0.00 0.00 3.35
3204 9639 2.265367 TGAACCTGATGCCTTACCTGA 58.735 47.619 0.00 0.00 0.00 3.86
3205 9640 2.787473 TGAACCTGATGCCTTACCTG 57.213 50.000 0.00 0.00 0.00 4.00
3206 9641 3.266772 TGATTGAACCTGATGCCTTACCT 59.733 43.478 0.00 0.00 0.00 3.08
3207 9642 3.378427 GTGATTGAACCTGATGCCTTACC 59.622 47.826 0.00 0.00 0.00 2.85
3208 9643 3.378427 GGTGATTGAACCTGATGCCTTAC 59.622 47.826 0.00 0.00 37.24 2.34
3209 9644 3.010027 TGGTGATTGAACCTGATGCCTTA 59.990 43.478 0.00 0.00 41.16 2.69
3210 9645 2.225091 TGGTGATTGAACCTGATGCCTT 60.225 45.455 0.00 0.00 41.16 4.35
3211 9646 1.355381 TGGTGATTGAACCTGATGCCT 59.645 47.619 0.00 0.00 41.16 4.75
3212 9647 1.838112 TGGTGATTGAACCTGATGCC 58.162 50.000 0.00 0.00 41.16 4.40
3213 9648 3.084039 TCTTGGTGATTGAACCTGATGC 58.916 45.455 0.00 0.00 41.16 3.91
3214 9649 5.474532 TCTTTCTTGGTGATTGAACCTGATG 59.525 40.000 0.00 0.00 41.16 3.07
3215 9650 5.634118 TCTTTCTTGGTGATTGAACCTGAT 58.366 37.500 0.00 0.00 41.16 2.90
3216 9651 5.047566 TCTTTCTTGGTGATTGAACCTGA 57.952 39.130 0.00 0.00 41.16 3.86
3217 9652 5.065914 TCTCTTTCTTGGTGATTGAACCTG 58.934 41.667 0.00 0.00 41.16 4.00
3218 9653 5.310409 TCTCTTTCTTGGTGATTGAACCT 57.690 39.130 0.00 0.00 41.16 3.50
3219 9654 6.391227 TTTCTCTTTCTTGGTGATTGAACC 57.609 37.500 0.00 0.00 40.94 3.62


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

AutoCloner maintained by Alex Coulton.