Multiple sequence alignment - TraesCS6B01G208600

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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 TraesCS6B01G208600 chr6B 100.000 4818 0 0 1 4818 270733115 270737932 0.000000e+00 8898.0
1 TraesCS6B01G208600 chr6B 98.100 4263 40 9 1 4242 270582780 270587022 0.000000e+00 7385.0
2 TraesCS6B01G208600 chr6B 99.212 3299 21 3 947 4242 270468072 270471368 0.000000e+00 5943.0
3 TraesCS6B01G208600 chr6B 98.311 1835 29 2 963 2797 267018795 267020627 0.000000e+00 3216.0
4 TraesCS6B01G208600 chr6B 98.035 1323 22 3 2998 4319 267021889 267023208 0.000000e+00 2296.0
5 TraesCS6B01G208600 chr6B 99.444 900 3 1 2938 3837 270647197 270648094 0.000000e+00 1633.0
6 TraesCS6B01G208600 chr6B 90.293 989 24 6 1 960 270467095 270468040 0.000000e+00 1229.0
7 TraesCS6B01G208600 chr6B 90.769 520 15 6 439 930 267018284 267018798 0.000000e+00 664.0
8 TraesCS6B01G208600 chr6B 91.720 471 36 2 5 475 267017363 267017830 0.000000e+00 651.0
9 TraesCS6B01G208600 chr6B 92.821 390 26 2 1 390 267017896 267018283 9.050000e-157 564.0
10 TraesCS6B01G208600 chr6B 84.127 504 75 5 1072 1574 267325868 267326367 2.610000e-132 483.0
11 TraesCS6B01G208600 chr6B 84.127 504 75 5 1072 1574 267504306 267504805 2.610000e-132 483.0
12 TraesCS6B01G208600 chr6B 76.739 877 148 36 2480 3340 267505674 267506510 5.720000e-119 438.0
13 TraesCS6B01G208600 chr6B 81.102 508 82 8 2845 3340 267327567 267328072 1.260000e-105 394.0
14 TraesCS6B01G208600 chr6B 91.822 269 19 3 4552 4818 251141299 251141566 5.890000e-99 372.0
15 TraesCS6B01G208600 chr6B 97.585 207 5 0 2790 2996 267021569 267021775 5.930000e-94 355.0
16 TraesCS6B01G208600 chr6B 82.500 400 53 12 23 418 197761228 197761614 7.730000e-88 335.0
17 TraesCS6B01G208600 chr6B 88.298 282 28 4 4536 4816 209733384 209733661 2.780000e-87 333.0
18 TraesCS6B01G208600 chr6B 100.000 125 0 0 4118 4242 270648525 270648649 1.040000e-56 231.0
19 TraesCS6B01G208600 chr6B 96.124 129 5 0 4317 4445 267023177 267023305 1.360000e-50 211.0
20 TraesCS6B01G208600 chr6B 81.250 128 17 5 498 623 580371551 580371429 3.970000e-16 97.1
21 TraesCS6B01G208600 chr6B 95.833 48 2 0 4106 4153 267023035 267023082 1.440000e-10 78.7
22 TraesCS6B01G208600 chr6B 93.878 49 3 0 4447 4495 463394867 463394819 1.860000e-09 75.0
23 TraesCS6B01G208600 chr4B 78.592 1378 256 26 1072 2437 497179761 497178411 0.000000e+00 874.0
24 TraesCS6B01G208600 chr4B 87.912 273 18 11 4552 4818 609748071 609748334 1.680000e-79 307.0
25 TraesCS6B01G208600 chr4B 88.430 121 13 1 2609 2728 497178299 497178179 1.400000e-30 145.0
26 TraesCS6B01G208600 chr4B 77.778 171 32 6 460 628 79735177 79735343 3.070000e-17 100.0
27 TraesCS6B01G208600 chr1B 88.433 268 28 3 4552 4818 220384291 220384026 2.160000e-83 320.0
28 TraesCS6B01G208600 chr3D 87.636 275 29 4 4545 4818 598387793 598387523 1.010000e-81 315.0
29 TraesCS6B01G208600 chr3D 78.231 441 51 23 2 411 558495933 558496359 1.730000e-59 241.0
30 TraesCS6B01G208600 chr7B 87.687 268 31 2 4552 4818 544031567 544031833 1.300000e-80 311.0
31 TraesCS6B01G208600 chr7B 88.168 262 23 7 4548 4806 27592737 27592993 6.060000e-79 305.0
32 TraesCS6B01G208600 chr2B 85.526 304 35 9 4517 4818 470512177 470512473 4.680000e-80 309.0
33 TraesCS6B01G208600 chr5B 87.823 271 22 9 4552 4818 673108051 673107788 1.680000e-79 307.0
34 TraesCS6B01G208600 chr1D 80.714 420 51 22 2 411 355097481 355097082 2.820000e-77 300.0
35 TraesCS6B01G208600 chr1D 76.628 261 37 13 644 882 392792615 392792357 6.550000e-24 122.0
36 TraesCS6B01G208600 chr1D 88.000 75 6 1 483 554 50074581 50074507 8.590000e-13 86.1
37 TraesCS6B01G208600 chr2D 80.000 420 54 22 2 411 629069620 629069221 2.840000e-72 283.0
38 TraesCS6B01G208600 chr5A 79.339 363 53 16 424 770 698623233 698622877 8.060000e-58 235.0
39 TraesCS6B01G208600 chr5A 87.273 55 7 0 374 428 621016176 621016122 4.030000e-06 63.9
40 TraesCS6B01G208600 chr4A 78.230 418 50 26 501 889 627504542 627504137 3.750000e-56 230.0
41 TraesCS6B01G208600 chr4A 85.833 120 16 1 2609 2727 59313857 59313738 5.060000e-25 126.0
42 TraesCS6B01G208600 chr4A 85.714 119 17 0 1072 1190 59318768 59318650 5.060000e-25 126.0
43 TraesCS6B01G208600 chr5D 76.866 402 51 24 520 889 108173104 108172713 6.370000e-44 189.0
44 TraesCS6B01G208600 chr1A 75.521 384 62 28 522 889 539327974 539327607 4.990000e-35 159.0
45 TraesCS6B01G208600 chr7D 73.125 480 91 26 429 898 418898060 418897609 2.340000e-28 137.0
46 TraesCS6B01G208600 chr3B 98.718 78 0 1 4511 4587 598051033 598051110 2.340000e-28 137.0
47 TraesCS6B01G208600 chr3B 93.878 49 3 0 4447 4495 431125994 431125946 1.860000e-09 75.0
48 TraesCS6B01G208600 chr3B 93.878 49 3 0 4447 4495 431145838 431145790 1.860000e-09 75.0
49 TraesCS6B01G208600 chr3B 100.000 30 0 0 589 618 669753224 669753195 6.740000e-04 56.5
50 TraesCS6B01G208600 chr6D 82.222 90 12 4 468 553 424933752 424933663 1.860000e-09 75.0


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 TraesCS6B01G208600 chr6B 270733115 270737932 4817 False 8898.0000 8898 100.00000 1 4818 1 chr6B.!!$F5 4817
1 TraesCS6B01G208600 chr6B 270582780 270587022 4242 False 7385.0000 7385 98.10000 1 4242 1 chr6B.!!$F4 4241
2 TraesCS6B01G208600 chr6B 270467095 270471368 4273 False 3586.0000 5943 94.75250 1 4242 2 chr6B.!!$F9 4241
3 TraesCS6B01G208600 chr6B 267017363 267023305 5942 False 1004.4625 3216 95.14975 1 4445 8 chr6B.!!$F6 4444
4 TraesCS6B01G208600 chr6B 270647197 270648649 1452 False 932.0000 1633 99.72200 2938 4242 2 chr6B.!!$F10 1304
5 TraesCS6B01G208600 chr6B 267504306 267506510 2204 False 460.5000 483 80.43300 1072 3340 2 chr6B.!!$F8 2268
6 TraesCS6B01G208600 chr6B 267325868 267328072 2204 False 438.5000 483 82.61450 1072 3340 2 chr6B.!!$F7 2268
7 TraesCS6B01G208600 chr4B 497178179 497179761 1582 True 509.5000 874 83.51100 1072 2728 2 chr4B.!!$R1 1656

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
960 1552 1.551019 GGTTTAGCCCTGGACCGAGT 61.551 60.0 0.00 0.0 0.0 4.18 F
2469 3106 2.057137 AGAACAAGAAAGCTGCACCA 57.943 45.0 1.02 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2926 4514 1.683011 GGCAGAGCAATTCCTTAGCCA 60.683 52.381 7.86 0.00 40.50 4.75 R
4318 6176 0.101040 CCATAACAGGCATGGCAACG 59.899 55.000 22.64 11.66 36.77 4.10 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
48 50 5.763204 AGAAATTGACGAGGTCTTTTTGCTA 59.237 36.000 0.00 0.00 33.15 3.49
60 62 5.569059 GGTCTTTTTGCTACAATTGTCATCG 59.431 40.000 15.85 3.68 0.00 3.84
274 276 1.918112 GCGCGTCGTTGTGATTTTTGA 60.918 47.619 8.43 0.00 0.00 2.69
294 296 5.643379 TGAGCACAAAAGAAAGAAACAGT 57.357 34.783 0.00 0.00 0.00 3.55
363 365 3.145551 CGGGAAGGGATCGGACGT 61.146 66.667 0.00 0.00 0.00 4.34
960 1552 1.551019 GGTTTAGCCCTGGACCGAGT 61.551 60.000 0.00 0.00 0.00 4.18
1194 1786 4.002982 CGACTGGGAGAAAATGTCAATCA 58.997 43.478 0.00 0.00 0.00 2.57
2053 2673 9.121658 CTTTAGTGTAGATACTAGTGACATCCA 57.878 37.037 5.39 0.00 34.84 3.41
2469 3106 2.057137 AGAACAAGAAAGCTGCACCA 57.943 45.000 1.02 0.00 0.00 4.17
2669 3306 4.686191 ACATCCTTGTTGCCATTCAAAA 57.314 36.364 0.00 0.00 36.26 2.44
2693 3330 3.247442 TCACGTCGTTAGGTATTTGCTG 58.753 45.455 0.00 0.00 0.00 4.41
2926 4514 6.094603 GGATGAAACACAGCTAGATCAAACAT 59.905 38.462 0.00 0.00 35.04 2.71
3394 5100 8.603242 TGATGTTTCCTCTACTGTCTAAAAAC 57.397 34.615 0.00 0.00 0.00 2.43
3845 5551 3.316071 TGTGCGAAACGGTAGGATAAA 57.684 42.857 0.00 0.00 0.00 1.40
3894 5600 3.650070 TGTTAATGCAAATGTTCCGCA 57.350 38.095 0.00 0.00 40.50 5.69
3914 5620 1.484038 TCCTTTGCTGGCTGTTGTTT 58.516 45.000 0.00 0.00 0.00 2.83
4058 5766 1.230182 CTACCCCCAACCCCCTCTT 60.230 63.158 0.00 0.00 0.00 2.85
4059 5767 0.849540 CTACCCCCAACCCCCTCTTT 60.850 60.000 0.00 0.00 0.00 2.52
4094 5802 9.005777 TGATGTAAAATAGTGGTTGGAGTAAAC 57.994 33.333 0.00 0.00 0.00 2.01
4300 6158 3.361977 AACCGTCGTTGCCATGGC 61.362 61.111 30.54 30.54 42.35 4.40
4301 6159 3.842925 AACCGTCGTTGCCATGGCT 62.843 57.895 35.53 11.81 42.51 4.75
4302 6160 3.803082 CCGTCGTTGCCATGGCTG 61.803 66.667 35.53 24.65 42.51 4.85
4303 6161 3.049674 CGTCGTTGCCATGGCTGT 61.050 61.111 35.53 0.00 42.51 4.40
4304 6162 2.616330 CGTCGTTGCCATGGCTGTT 61.616 57.895 35.53 0.00 42.51 3.16
4305 6163 1.295357 CGTCGTTGCCATGGCTGTTA 61.295 55.000 35.53 14.65 42.51 2.41
4306 6164 1.094785 GTCGTTGCCATGGCTGTTAT 58.905 50.000 35.53 0.00 42.51 1.89
4307 6165 1.093972 TCGTTGCCATGGCTGTTATG 58.906 50.000 35.53 22.03 42.51 1.90
4308 6166 0.101040 CGTTGCCATGGCTGTTATGG 59.899 55.000 35.53 14.79 46.28 2.74
4309 6167 1.473258 GTTGCCATGGCTGTTATGGA 58.527 50.000 35.53 11.81 46.42 3.41
4310 6168 1.406539 GTTGCCATGGCTGTTATGGAG 59.593 52.381 35.53 0.00 46.42 3.86
4311 6169 0.106569 TGCCATGGCTGTTATGGAGG 60.107 55.000 35.53 0.00 46.42 4.30
4312 6170 0.183492 GCCATGGCTGTTATGGAGGA 59.817 55.000 29.98 0.00 46.42 3.71
4313 6171 1.410083 GCCATGGCTGTTATGGAGGAA 60.410 52.381 29.98 0.00 46.42 3.36
4314 6172 2.579873 CCATGGCTGTTATGGAGGAAG 58.420 52.381 0.00 0.00 46.42 3.46
4315 6173 2.092212 CCATGGCTGTTATGGAGGAAGT 60.092 50.000 0.00 0.00 46.42 3.01
4316 6174 2.787473 TGGCTGTTATGGAGGAAGTG 57.213 50.000 0.00 0.00 0.00 3.16
4317 6175 1.985159 TGGCTGTTATGGAGGAAGTGT 59.015 47.619 0.00 0.00 0.00 3.55
4318 6176 2.027192 TGGCTGTTATGGAGGAAGTGTC 60.027 50.000 0.00 0.00 0.00 3.67
4319 6177 2.271800 GCTGTTATGGAGGAAGTGTCG 58.728 52.381 0.00 0.00 0.00 4.35
4320 6178 2.353803 GCTGTTATGGAGGAAGTGTCGT 60.354 50.000 0.00 0.00 0.00 4.34
4321 6179 3.864921 GCTGTTATGGAGGAAGTGTCGTT 60.865 47.826 0.00 0.00 0.00 3.85
4322 6180 3.659786 TGTTATGGAGGAAGTGTCGTTG 58.340 45.455 0.00 0.00 0.00 4.10
4323 6181 2.380084 TATGGAGGAAGTGTCGTTGC 57.620 50.000 0.00 0.00 0.00 4.17
4324 6182 0.321653 ATGGAGGAAGTGTCGTTGCC 60.322 55.000 0.00 0.00 0.00 4.52
4325 6183 1.070786 GGAGGAAGTGTCGTTGCCA 59.929 57.895 0.00 0.00 0.00 4.92
4326 6184 0.321653 GGAGGAAGTGTCGTTGCCAT 60.322 55.000 0.00 0.00 0.00 4.40
4327 6185 0.798776 GAGGAAGTGTCGTTGCCATG 59.201 55.000 0.00 0.00 0.00 3.66
4328 6186 1.210155 GGAAGTGTCGTTGCCATGC 59.790 57.895 0.00 0.00 0.00 4.06
4335 6193 1.094785 GTCGTTGCCATGCCTGTTAT 58.905 50.000 0.00 0.00 0.00 1.89
4370 6228 0.815734 CGAGACACATAGTTCGGGGT 59.184 55.000 0.00 0.00 31.58 4.95
4423 6281 2.036604 TGCAAGACAAGTCACACCGATA 59.963 45.455 2.72 0.00 0.00 2.92
4445 6303 7.267600 CGATATCGCAACGATTTTAAAATACCC 59.732 37.037 12.95 1.20 44.59 3.69
4446 6304 4.649977 TCGCAACGATTTTAAAATACCCG 58.350 39.130 13.34 14.41 0.00 5.28
4447 6305 3.787105 CGCAACGATTTTAAAATACCCGG 59.213 43.478 13.34 0.00 0.00 5.73
4448 6306 4.106909 GCAACGATTTTAAAATACCCGGG 58.893 43.478 22.25 22.25 0.00 5.73
4449 6307 4.106909 CAACGATTTTAAAATACCCGGGC 58.893 43.478 24.08 0.00 0.00 6.13
4450 6308 3.354467 ACGATTTTAAAATACCCGGGCA 58.646 40.909 24.08 8.78 0.00 5.36
4451 6309 3.955551 ACGATTTTAAAATACCCGGGCAT 59.044 39.130 24.08 11.58 0.00 4.40
4452 6310 4.202070 ACGATTTTAAAATACCCGGGCATG 60.202 41.667 24.08 0.00 0.00 4.06
4453 6311 4.036971 CGATTTTAAAATACCCGGGCATGA 59.963 41.667 24.08 3.41 0.00 3.07
4454 6312 4.722361 TTTTAAAATACCCGGGCATGAC 57.278 40.909 24.08 0.00 0.00 3.06
4455 6313 2.351706 TAAAATACCCGGGCATGACC 57.648 50.000 24.08 7.86 37.93 4.02
4456 6314 0.629058 AAAATACCCGGGCATGACCT 59.371 50.000 24.08 0.29 39.10 3.85
4457 6315 0.106719 AAATACCCGGGCATGACCTG 60.107 55.000 24.08 9.49 45.52 4.00
4474 6332 7.993101 CATGACCTGCTTTATATCCCATTATG 58.007 38.462 0.00 0.00 0.00 1.90
4475 6333 5.945784 TGACCTGCTTTATATCCCATTATGC 59.054 40.000 0.00 0.00 0.00 3.14
4476 6334 5.891198 ACCTGCTTTATATCCCATTATGCA 58.109 37.500 0.00 0.00 0.00 3.96
4477 6335 5.711976 ACCTGCTTTATATCCCATTATGCAC 59.288 40.000 0.00 0.00 0.00 4.57
4478 6336 5.126061 CCTGCTTTATATCCCATTATGCACC 59.874 44.000 0.00 0.00 0.00 5.01
4479 6337 5.639139 TGCTTTATATCCCATTATGCACCA 58.361 37.500 0.00 0.00 0.00 4.17
4480 6338 6.255287 TGCTTTATATCCCATTATGCACCAT 58.745 36.000 0.00 0.00 0.00 3.55
4481 6339 6.725369 TGCTTTATATCCCATTATGCACCATT 59.275 34.615 0.00 0.00 0.00 3.16
4482 6340 7.235193 TGCTTTATATCCCATTATGCACCATTT 59.765 33.333 0.00 0.00 0.00 2.32
4483 6341 8.096414 GCTTTATATCCCATTATGCACCATTTT 58.904 33.333 0.00 0.00 0.00 1.82
4484 6342 9.643693 CTTTATATCCCATTATGCACCATTTTC 57.356 33.333 0.00 0.00 0.00 2.29
4485 6343 8.954834 TTATATCCCATTATGCACCATTTTCT 57.045 30.769 0.00 0.00 0.00 2.52
4486 6344 5.540400 ATCCCATTATGCACCATTTTCTG 57.460 39.130 0.00 0.00 0.00 3.02
4487 6345 4.352009 TCCCATTATGCACCATTTTCTGT 58.648 39.130 0.00 0.00 0.00 3.41
4488 6346 5.514169 TCCCATTATGCACCATTTTCTGTA 58.486 37.500 0.00 0.00 0.00 2.74
4489 6347 6.135454 TCCCATTATGCACCATTTTCTGTAT 58.865 36.000 0.00 0.00 0.00 2.29
4490 6348 6.265196 TCCCATTATGCACCATTTTCTGTATC 59.735 38.462 0.00 0.00 0.00 2.24
4491 6349 6.266103 CCCATTATGCACCATTTTCTGTATCT 59.734 38.462 0.00 0.00 0.00 1.98
4492 6350 7.448161 CCCATTATGCACCATTTTCTGTATCTA 59.552 37.037 0.00 0.00 0.00 1.98
4493 6351 8.849168 CCATTATGCACCATTTTCTGTATCTAA 58.151 33.333 0.00 0.00 0.00 2.10
4496 6354 9.851686 TTATGCACCATTTTCTGTATCTAATCT 57.148 29.630 0.00 0.00 0.00 2.40
4497 6355 7.792374 TGCACCATTTTCTGTATCTAATCTC 57.208 36.000 0.00 0.00 0.00 2.75
4498 6356 7.568349 TGCACCATTTTCTGTATCTAATCTCT 58.432 34.615 0.00 0.00 0.00 3.10
4499 6357 8.704668 TGCACCATTTTCTGTATCTAATCTCTA 58.295 33.333 0.00 0.00 0.00 2.43
4500 6358 8.983724 GCACCATTTTCTGTATCTAATCTCTAC 58.016 37.037 0.00 0.00 0.00 2.59
4501 6359 9.482627 CACCATTTTCTGTATCTAATCTCTACC 57.517 37.037 0.00 0.00 0.00 3.18
4502 6360 9.440761 ACCATTTTCTGTATCTAATCTCTACCT 57.559 33.333 0.00 0.00 0.00 3.08
4503 6361 9.921637 CCATTTTCTGTATCTAATCTCTACCTC 57.078 37.037 0.00 0.00 0.00 3.85
4509 6367 8.818860 TCTGTATCTAATCTCTACCTCTCTACC 58.181 40.741 0.00 0.00 0.00 3.18
4510 6368 8.745149 TGTATCTAATCTCTACCTCTCTACCT 57.255 38.462 0.00 0.00 0.00 3.08
4511 6369 9.840690 TGTATCTAATCTCTACCTCTCTACCTA 57.159 37.037 0.00 0.00 0.00 3.08
4578 6436 4.766404 AAGCAAATTAGGTTTCTGGTCG 57.234 40.909 0.00 0.00 0.00 4.79
4579 6437 3.751518 AGCAAATTAGGTTTCTGGTCGT 58.248 40.909 0.00 0.00 0.00 4.34
4580 6438 4.901868 AGCAAATTAGGTTTCTGGTCGTA 58.098 39.130 0.00 0.00 0.00 3.43
4581 6439 4.694037 AGCAAATTAGGTTTCTGGTCGTAC 59.306 41.667 0.00 0.00 0.00 3.67
4582 6440 4.435121 GCAAATTAGGTTTCTGGTCGTACG 60.435 45.833 9.53 9.53 0.00 3.67
4583 6441 4.525912 AATTAGGTTTCTGGTCGTACGT 57.474 40.909 16.05 0.00 0.00 3.57
4584 6442 3.559238 TTAGGTTTCTGGTCGTACGTC 57.441 47.619 16.05 9.80 0.00 4.34
4585 6443 1.321474 AGGTTTCTGGTCGTACGTCA 58.679 50.000 16.05 13.58 0.00 4.35
4586 6444 1.891150 AGGTTTCTGGTCGTACGTCAT 59.109 47.619 16.05 0.00 0.00 3.06
4587 6445 3.084039 AGGTTTCTGGTCGTACGTCATA 58.916 45.455 16.05 5.39 0.00 2.15
4588 6446 3.507233 AGGTTTCTGGTCGTACGTCATAA 59.493 43.478 16.05 10.77 0.00 1.90
4589 6447 4.022068 AGGTTTCTGGTCGTACGTCATAAA 60.022 41.667 16.05 15.36 0.00 1.40
4590 6448 4.685628 GGTTTCTGGTCGTACGTCATAAAA 59.314 41.667 16.05 13.81 0.00 1.52
4591 6449 5.177327 GGTTTCTGGTCGTACGTCATAAAAA 59.823 40.000 16.05 11.84 0.00 1.94
4609 6467 2.871096 AAATACCCTCGAAGTTGGCA 57.129 45.000 0.00 0.00 0.00 4.92
4610 6468 2.871096 AATACCCTCGAAGTTGGCAA 57.129 45.000 0.00 0.00 0.00 4.52
4611 6469 2.403252 ATACCCTCGAAGTTGGCAAG 57.597 50.000 0.00 0.00 0.00 4.01
4612 6470 1.344065 TACCCTCGAAGTTGGCAAGA 58.656 50.000 0.00 0.00 0.00 3.02
4613 6471 0.472471 ACCCTCGAAGTTGGCAAGAA 59.528 50.000 0.00 0.00 0.00 2.52
4614 6472 1.073923 ACCCTCGAAGTTGGCAAGAAT 59.926 47.619 0.00 0.00 0.00 2.40
4615 6473 2.162681 CCCTCGAAGTTGGCAAGAATT 58.837 47.619 0.00 0.00 0.00 2.17
4616 6474 3.244770 ACCCTCGAAGTTGGCAAGAATTA 60.245 43.478 0.00 0.00 0.00 1.40
4617 6475 3.127030 CCCTCGAAGTTGGCAAGAATTAC 59.873 47.826 0.00 0.00 0.00 1.89
4618 6476 3.127030 CCTCGAAGTTGGCAAGAATTACC 59.873 47.826 0.00 0.00 29.93 2.85
4619 6477 3.078837 TCGAAGTTGGCAAGAATTACCC 58.921 45.455 0.00 0.00 27.17 3.69
4620 6478 2.817258 CGAAGTTGGCAAGAATTACCCA 59.183 45.455 0.00 0.00 27.17 4.51
4621 6479 3.365969 CGAAGTTGGCAAGAATTACCCAC 60.366 47.826 0.00 0.00 27.17 4.61
4622 6480 2.525368 AGTTGGCAAGAATTACCCACC 58.475 47.619 0.00 0.00 27.17 4.61
4623 6481 2.158385 AGTTGGCAAGAATTACCCACCA 60.158 45.455 0.00 0.00 27.17 4.17
4624 6482 2.630580 GTTGGCAAGAATTACCCACCAA 59.369 45.455 0.00 0.00 27.17 3.67
4625 6483 3.182887 TGGCAAGAATTACCCACCAAT 57.817 42.857 0.00 0.00 27.17 3.16
4626 6484 2.830923 TGGCAAGAATTACCCACCAATG 59.169 45.455 0.00 0.00 27.17 2.82
4627 6485 2.418609 GGCAAGAATTACCCACCAATGC 60.419 50.000 0.00 0.00 0.00 3.56
4628 6486 2.418609 GCAAGAATTACCCACCAATGCC 60.419 50.000 0.00 0.00 0.00 4.40
4629 6487 2.830923 CAAGAATTACCCACCAATGCCA 59.169 45.455 0.00 0.00 0.00 4.92
4630 6488 2.456577 AGAATTACCCACCAATGCCAC 58.543 47.619 0.00 0.00 0.00 5.01
4631 6489 1.480545 GAATTACCCACCAATGCCACC 59.519 52.381 0.00 0.00 0.00 4.61
4632 6490 0.325203 ATTACCCACCAATGCCACCC 60.325 55.000 0.00 0.00 0.00 4.61
4633 6491 2.773007 TTACCCACCAATGCCACCCG 62.773 60.000 0.00 0.00 0.00 5.28
4634 6492 4.676951 CCCACCAATGCCACCCGT 62.677 66.667 0.00 0.00 0.00 5.28
4635 6493 2.353189 CCACCAATGCCACCCGTA 59.647 61.111 0.00 0.00 0.00 4.02
4636 6494 1.303724 CCACCAATGCCACCCGTAA 60.304 57.895 0.00 0.00 0.00 3.18
4637 6495 1.312371 CCACCAATGCCACCCGTAAG 61.312 60.000 0.00 0.00 0.00 2.34
4638 6496 0.608035 CACCAATGCCACCCGTAAGT 60.608 55.000 0.00 0.00 0.00 2.24
4639 6497 0.111639 ACCAATGCCACCCGTAAGTT 59.888 50.000 0.00 0.00 0.00 2.66
4640 6498 1.351683 ACCAATGCCACCCGTAAGTTA 59.648 47.619 0.00 0.00 0.00 2.24
4641 6499 2.224818 ACCAATGCCACCCGTAAGTTAA 60.225 45.455 0.00 0.00 0.00 2.01
4642 6500 2.820787 CCAATGCCACCCGTAAGTTAAA 59.179 45.455 0.00 0.00 0.00 1.52
4643 6501 3.256136 CCAATGCCACCCGTAAGTTAAAA 59.744 43.478 0.00 0.00 0.00 1.52
4644 6502 4.081917 CCAATGCCACCCGTAAGTTAAAAT 60.082 41.667 0.00 0.00 0.00 1.82
4645 6503 5.125739 CCAATGCCACCCGTAAGTTAAAATA 59.874 40.000 0.00 0.00 0.00 1.40
4646 6504 6.262601 CAATGCCACCCGTAAGTTAAAATAG 58.737 40.000 0.00 0.00 0.00 1.73
4647 6505 5.163281 TGCCACCCGTAAGTTAAAATAGA 57.837 39.130 0.00 0.00 0.00 1.98
4648 6506 5.558818 TGCCACCCGTAAGTTAAAATAGAA 58.441 37.500 0.00 0.00 0.00 2.10
4649 6507 6.002704 TGCCACCCGTAAGTTAAAATAGAAA 58.997 36.000 0.00 0.00 0.00 2.52
4650 6508 6.489361 TGCCACCCGTAAGTTAAAATAGAAAA 59.511 34.615 0.00 0.00 0.00 2.29
4651 6509 6.803320 GCCACCCGTAAGTTAAAATAGAAAAC 59.197 38.462 0.00 0.00 0.00 2.43
4652 6510 7.521910 GCCACCCGTAAGTTAAAATAGAAAACA 60.522 37.037 0.00 0.00 0.00 2.83
4653 6511 8.351461 CCACCCGTAAGTTAAAATAGAAAACAA 58.649 33.333 0.00 0.00 0.00 2.83
4654 6512 9.902196 CACCCGTAAGTTAAAATAGAAAACAAT 57.098 29.630 0.00 0.00 0.00 2.71
4681 6539 3.839823 TTTTTCGAAATTCGTCGTCGT 57.160 38.095 15.34 0.00 41.35 4.34
4682 6540 4.945292 TTTTTCGAAATTCGTCGTCGTA 57.055 36.364 15.34 0.00 41.35 3.43
4683 6541 3.933740 TTTCGAAATTCGTCGTCGTAC 57.066 42.857 15.34 0.00 41.35 3.67
4684 6542 2.880822 TCGAAATTCGTCGTCGTACT 57.119 45.000 15.34 0.00 41.35 2.73
4685 6543 3.187478 TCGAAATTCGTCGTCGTACTT 57.813 42.857 15.34 0.00 41.35 2.24
4686 6544 4.320667 TCGAAATTCGTCGTCGTACTTA 57.679 40.909 15.34 0.00 41.35 2.24
4687 6545 4.326205 TCGAAATTCGTCGTCGTACTTAG 58.674 43.478 15.34 0.00 41.35 2.18
4688 6546 4.084507 CGAAATTCGTCGTCGTACTTAGT 58.915 43.478 7.29 0.00 36.26 2.24
4689 6547 4.551126 CGAAATTCGTCGTCGTACTTAGTT 59.449 41.667 7.29 0.00 36.26 2.24
4690 6548 5.494485 CGAAATTCGTCGTCGTACTTAGTTG 60.494 44.000 7.29 0.00 36.26 3.16
4691 6549 3.878086 TTCGTCGTCGTACTTAGTTGT 57.122 42.857 1.33 0.00 38.33 3.32
4692 6550 3.878086 TCGTCGTCGTACTTAGTTGTT 57.122 42.857 1.33 0.00 38.33 2.83
4693 6551 4.983215 TCGTCGTCGTACTTAGTTGTTA 57.017 40.909 1.33 0.00 38.33 2.41
4694 6552 5.530519 TCGTCGTCGTACTTAGTTGTTAT 57.469 39.130 1.33 0.00 38.33 1.89
4695 6553 6.641176 TCGTCGTCGTACTTAGTTGTTATA 57.359 37.500 1.33 0.00 38.33 0.98
4696 6554 7.234187 TCGTCGTCGTACTTAGTTGTTATAT 57.766 36.000 1.33 0.00 38.33 0.86
4697 6555 8.347729 TCGTCGTCGTACTTAGTTGTTATATA 57.652 34.615 1.33 0.00 38.33 0.86
4698 6556 8.813282 TCGTCGTCGTACTTAGTTGTTATATAA 58.187 33.333 1.33 0.00 38.33 0.98
4699 6557 9.420966 CGTCGTCGTACTTAGTTGTTATATAAA 57.579 33.333 0.00 0.00 0.00 1.40
4723 6581 9.979578 AAATGTGATACTGCAAATACAAAAGAA 57.020 25.926 0.00 0.00 0.00 2.52
4724 6582 9.979578 AATGTGATACTGCAAATACAAAAGAAA 57.020 25.926 0.00 0.00 0.00 2.52
4725 6583 8.795786 TGTGATACTGCAAATACAAAAGAAAC 57.204 30.769 0.00 0.00 0.00 2.78
4726 6584 8.629158 TGTGATACTGCAAATACAAAAGAAACT 58.371 29.630 0.00 0.00 0.00 2.66
4727 6585 9.118236 GTGATACTGCAAATACAAAAGAAACTC 57.882 33.333 0.00 0.00 0.00 3.01
4728 6586 8.015087 TGATACTGCAAATACAAAAGAAACTCG 58.985 33.333 0.00 0.00 0.00 4.18
4729 6587 5.519722 ACTGCAAATACAAAAGAAACTCGG 58.480 37.500 0.00 0.00 0.00 4.63
4730 6588 5.298276 ACTGCAAATACAAAAGAAACTCGGA 59.702 36.000 0.00 0.00 0.00 4.55
4731 6589 5.757886 TGCAAATACAAAAGAAACTCGGAG 58.242 37.500 2.83 2.83 0.00 4.63
4732 6590 5.298276 TGCAAATACAAAAGAAACTCGGAGT 59.702 36.000 4.45 4.45 0.00 3.85
4733 6591 6.183360 TGCAAATACAAAAGAAACTCGGAGTT 60.183 34.615 17.38 17.38 40.80 3.01
4734 6592 6.142320 GCAAATACAAAAGAAACTCGGAGTTG 59.858 38.462 23.05 13.04 38.66 3.16
4735 6593 5.941948 ATACAAAAGAAACTCGGAGTTGG 57.058 39.130 23.05 11.36 38.66 3.77
4736 6594 2.357952 ACAAAAGAAACTCGGAGTTGGC 59.642 45.455 23.05 17.46 38.66 4.52
4737 6595 1.226746 AAAGAAACTCGGAGTTGGCG 58.773 50.000 23.05 0.00 38.66 5.69
4738 6596 1.228657 AAGAAACTCGGAGTTGGCGC 61.229 55.000 23.05 13.04 38.66 6.53
4739 6597 1.959226 GAAACTCGGAGTTGGCGCA 60.959 57.895 23.05 0.00 38.66 6.09
4740 6598 1.901650 GAAACTCGGAGTTGGCGCAG 61.902 60.000 23.05 0.00 38.66 5.18
4741 6599 2.660258 AAACTCGGAGTTGGCGCAGT 62.660 55.000 23.05 3.77 38.66 4.40
4742 6600 3.114616 CTCGGAGTTGGCGCAGTG 61.115 66.667 10.83 0.00 0.00 3.66
4743 6601 4.680237 TCGGAGTTGGCGCAGTGG 62.680 66.667 10.83 0.00 0.00 4.00
4746 6604 3.426568 GAGTTGGCGCAGTGGCTC 61.427 66.667 10.83 5.33 45.14 4.70
4747 6605 4.254709 AGTTGGCGCAGTGGCTCA 62.255 61.111 10.83 0.00 45.14 4.26
4748 6606 3.286751 GTTGGCGCAGTGGCTCAA 61.287 61.111 10.83 0.00 45.14 3.02
4749 6607 2.979676 TTGGCGCAGTGGCTCAAG 60.980 61.111 10.83 0.00 45.14 3.02
4761 6619 3.167189 GCTCAAGCCTTTCTCTCCC 57.833 57.895 0.00 0.00 34.31 4.30
4762 6620 0.326264 GCTCAAGCCTTTCTCTCCCA 59.674 55.000 0.00 0.00 34.31 4.37
4763 6621 1.948144 GCTCAAGCCTTTCTCTCCCAC 60.948 57.143 0.00 0.00 34.31 4.61
4764 6622 0.693049 TCAAGCCTTTCTCTCCCACC 59.307 55.000 0.00 0.00 0.00 4.61
4765 6623 0.674895 CAAGCCTTTCTCTCCCACCG 60.675 60.000 0.00 0.00 0.00 4.94
4766 6624 2.436824 GCCTTTCTCTCCCACCGC 60.437 66.667 0.00 0.00 0.00 5.68
4767 6625 2.125512 CCTTTCTCTCCCACCGCG 60.126 66.667 0.00 0.00 0.00 6.46
4768 6626 2.125512 CTTTCTCTCCCACCGCGG 60.126 66.667 26.86 26.86 0.00 6.46
4769 6627 2.602267 TTTCTCTCCCACCGCGGA 60.602 61.111 35.90 8.44 36.56 5.54
4770 6628 2.837371 CTTTCTCTCCCACCGCGGAC 62.837 65.000 35.90 0.00 36.56 4.79
4771 6629 4.671590 TCTCTCCCACCGCGGACA 62.672 66.667 35.90 11.12 36.56 4.02
4772 6630 4.436998 CTCTCCCACCGCGGACAC 62.437 72.222 35.90 0.00 36.56 3.67
4782 6640 3.998672 GCGGACACCAGGGTTCGA 61.999 66.667 4.55 0.00 0.00 3.71
4783 6641 2.738480 CGGACACCAGGGTTCGAA 59.262 61.111 0.00 0.00 0.00 3.71
4784 6642 1.295423 CGGACACCAGGGTTCGAAT 59.705 57.895 0.00 0.00 0.00 3.34
4785 6643 0.739813 CGGACACCAGGGTTCGAATC 60.740 60.000 0.00 0.00 0.00 2.52
4786 6644 0.392595 GGACACCAGGGTTCGAATCC 60.393 60.000 20.31 20.31 0.00 3.01
4787 6645 0.392595 GACACCAGGGTTCGAATCCC 60.393 60.000 23.96 22.49 44.90 3.85
4788 6646 1.131303 ACACCAGGGTTCGAATCCCA 61.131 55.000 23.96 0.00 46.82 4.37
4789 6647 0.392998 CACCAGGGTTCGAATCCCAG 60.393 60.000 23.96 19.29 46.82 4.45
4790 6648 0.840722 ACCAGGGTTCGAATCCCAGT 60.841 55.000 23.96 17.97 46.82 4.00
4791 6649 0.328258 CCAGGGTTCGAATCCCAGTT 59.672 55.000 23.96 2.05 46.82 3.16
4792 6650 1.453155 CAGGGTTCGAATCCCAGTTG 58.547 55.000 23.96 11.75 46.82 3.16
4793 6651 1.064825 AGGGTTCGAATCCCAGTTGT 58.935 50.000 23.96 0.81 46.82 3.32
4794 6652 2.027561 CAGGGTTCGAATCCCAGTTGTA 60.028 50.000 23.96 0.00 46.82 2.41
4795 6653 2.027469 AGGGTTCGAATCCCAGTTGTAC 60.027 50.000 23.96 0.00 46.82 2.90
4796 6654 2.027469 GGGTTCGAATCCCAGTTGTACT 60.027 50.000 17.16 0.00 44.05 2.73
4797 6655 3.196254 GGGTTCGAATCCCAGTTGTACTA 59.804 47.826 17.16 0.00 44.05 1.82
4798 6656 4.322953 GGGTTCGAATCCCAGTTGTACTAA 60.323 45.833 17.16 0.00 44.05 2.24
4799 6657 5.425630 GGTTCGAATCCCAGTTGTACTAAT 58.574 41.667 0.00 0.00 0.00 1.73
4800 6658 5.878669 GGTTCGAATCCCAGTTGTACTAATT 59.121 40.000 0.00 0.00 0.00 1.40
4801 6659 6.373495 GGTTCGAATCCCAGTTGTACTAATTT 59.627 38.462 0.00 0.00 0.00 1.82
4802 6660 7.094506 GGTTCGAATCCCAGTTGTACTAATTTT 60.095 37.037 0.00 0.00 0.00 1.82
4803 6661 7.605410 TCGAATCCCAGTTGTACTAATTTTC 57.395 36.000 0.00 0.00 0.00 2.29
4804 6662 6.596497 TCGAATCCCAGTTGTACTAATTTTCC 59.404 38.462 0.00 0.00 0.00 3.13
4805 6663 6.183360 CGAATCCCAGTTGTACTAATTTTCCC 60.183 42.308 0.00 0.00 0.00 3.97
4806 6664 4.925836 TCCCAGTTGTACTAATTTTCCCC 58.074 43.478 0.00 0.00 0.00 4.81
4807 6665 4.354387 TCCCAGTTGTACTAATTTTCCCCA 59.646 41.667 0.00 0.00 0.00 4.96
4808 6666 5.015817 TCCCAGTTGTACTAATTTTCCCCAT 59.984 40.000 0.00 0.00 0.00 4.00
4809 6667 5.359860 CCCAGTTGTACTAATTTTCCCCATC 59.640 44.000 0.00 0.00 0.00 3.51
4810 6668 5.949354 CCAGTTGTACTAATTTTCCCCATCA 59.051 40.000 0.00 0.00 0.00 3.07
4811 6669 6.607198 CCAGTTGTACTAATTTTCCCCATCAT 59.393 38.462 0.00 0.00 0.00 2.45
4812 6670 7.201821 CCAGTTGTACTAATTTTCCCCATCATC 60.202 40.741 0.00 0.00 0.00 2.92
4813 6671 7.557719 CAGTTGTACTAATTTTCCCCATCATCT 59.442 37.037 0.00 0.00 0.00 2.90
4814 6672 8.116026 AGTTGTACTAATTTTCCCCATCATCTT 58.884 33.333 0.00 0.00 0.00 2.40
4815 6673 8.749354 GTTGTACTAATTTTCCCCATCATCTTT 58.251 33.333 0.00 0.00 0.00 2.52
4816 6674 8.292444 TGTACTAATTTTCCCCATCATCTTTG 57.708 34.615 0.00 0.00 0.00 2.77
4817 6675 7.893302 TGTACTAATTTTCCCCATCATCTTTGT 59.107 33.333 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 50 6.539826 TCATAGCAGAAATCGATGACAATTGT 59.460 34.615 11.78 11.78 0.00 2.71
60 62 2.217393 CGCGTCTGTCATAGCAGAAATC 59.783 50.000 0.00 0.00 45.75 2.17
274 276 4.627035 GCAACTGTTTCTTTCTTTTGTGCT 59.373 37.500 0.00 0.00 0.00 4.40
280 282 3.694566 ACTCCGCAACTGTTTCTTTCTTT 59.305 39.130 0.00 0.00 0.00 2.52
294 296 1.030488 CCTACCTCTCGACTCCGCAA 61.030 60.000 0.00 0.00 35.37 4.85
960 1552 2.037367 AGACCTAGGCCAGCACGA 59.963 61.111 9.30 0.00 0.00 4.35
1194 1786 3.745797 GCCAAGGAAGAAGAACACTCAGT 60.746 47.826 0.00 0.00 0.00 3.41
2053 2673 6.850752 AATCCCAACTTTCATCGGTTAAAT 57.149 33.333 0.00 0.00 0.00 1.40
2669 3306 3.508762 CAAATACCTAACGACGTGAGCT 58.491 45.455 6.86 0.00 0.00 4.09
2926 4514 1.683011 GGCAGAGCAATTCCTTAGCCA 60.683 52.381 7.86 0.00 40.50 4.75
3845 5551 3.055819 ACACTGTCAACGCTCAGGATATT 60.056 43.478 0.00 0.00 36.17 1.28
3894 5600 1.708341 AACAACAGCCAGCAAAGGAT 58.292 45.000 0.00 0.00 0.00 3.24
3914 5620 1.144093 ACAACCAAGGAACCGGAATCA 59.856 47.619 9.46 0.00 0.00 2.57
4058 5766 9.407380 ACCACTATTTTACATCATCTATTGCAA 57.593 29.630 0.00 0.00 0.00 4.08
4059 5767 8.978874 ACCACTATTTTACATCATCTATTGCA 57.021 30.769 0.00 0.00 0.00 4.08
4300 6158 3.594603 ACGACACTTCCTCCATAACAG 57.405 47.619 0.00 0.00 0.00 3.16
4301 6159 3.659786 CAACGACACTTCCTCCATAACA 58.340 45.455 0.00 0.00 0.00 2.41
4302 6160 2.415512 GCAACGACACTTCCTCCATAAC 59.584 50.000 0.00 0.00 0.00 1.89
4303 6161 2.614481 GGCAACGACACTTCCTCCATAA 60.614 50.000 0.00 0.00 0.00 1.90
4304 6162 1.066430 GGCAACGACACTTCCTCCATA 60.066 52.381 0.00 0.00 0.00 2.74
4305 6163 0.321653 GGCAACGACACTTCCTCCAT 60.322 55.000 0.00 0.00 0.00 3.41
4306 6164 1.070786 GGCAACGACACTTCCTCCA 59.929 57.895 0.00 0.00 0.00 3.86
4307 6165 0.321653 ATGGCAACGACACTTCCTCC 60.322 55.000 0.00 0.00 42.51 4.30
4308 6166 0.798776 CATGGCAACGACACTTCCTC 59.201 55.000 0.00 0.00 42.51 3.71
4309 6167 1.237285 GCATGGCAACGACACTTCCT 61.237 55.000 0.00 0.00 42.51 3.36
4310 6168 1.210155 GCATGGCAACGACACTTCC 59.790 57.895 0.00 0.00 42.51 3.46
4311 6169 1.210155 GGCATGGCAACGACACTTC 59.790 57.895 15.47 0.00 42.51 3.01
4312 6170 1.228245 AGGCATGGCAACGACACTT 60.228 52.632 22.64 0.00 42.51 3.16
4313 6171 1.968017 CAGGCATGGCAACGACACT 60.968 57.895 22.64 0.00 42.51 3.55
4314 6172 1.795170 AACAGGCATGGCAACGACAC 61.795 55.000 22.64 0.00 42.51 3.67
4315 6173 0.250510 TAACAGGCATGGCAACGACA 60.251 50.000 22.64 0.00 42.51 4.35
4316 6174 1.094785 ATAACAGGCATGGCAACGAC 58.905 50.000 22.64 0.00 42.51 4.34
4317 6175 1.093972 CATAACAGGCATGGCAACGA 58.906 50.000 22.64 4.19 42.51 3.85
4318 6176 0.101040 CCATAACAGGCATGGCAACG 59.899 55.000 22.64 11.66 36.77 4.10
4319 6177 1.406539 CTCCATAACAGGCATGGCAAC 59.593 52.381 22.64 0.00 42.36 4.17
4320 6178 1.685803 CCTCCATAACAGGCATGGCAA 60.686 52.381 22.64 4.05 42.36 4.52
4321 6179 0.106569 CCTCCATAACAGGCATGGCA 60.107 55.000 22.64 0.00 42.36 4.92
4322 6180 0.183492 TCCTCCATAACAGGCATGGC 59.817 55.000 12.14 12.14 42.36 4.40
4323 6181 2.092212 ACTTCCTCCATAACAGGCATGG 60.092 50.000 2.31 0.00 43.74 3.66
4324 6182 2.947652 CACTTCCTCCATAACAGGCATG 59.052 50.000 0.00 0.00 0.00 4.06
4325 6183 2.578021 ACACTTCCTCCATAACAGGCAT 59.422 45.455 0.00 0.00 0.00 4.40
4326 6184 1.985159 ACACTTCCTCCATAACAGGCA 59.015 47.619 0.00 0.00 0.00 4.75
4327 6185 2.633488 GACACTTCCTCCATAACAGGC 58.367 52.381 0.00 0.00 0.00 4.85
4328 6186 2.418746 CGGACACTTCCTCCATAACAGG 60.419 54.545 0.00 0.00 40.23 4.00
4335 6193 3.691342 CGCCGGACACTTCCTCCA 61.691 66.667 5.05 0.00 40.23 3.86
4370 6228 1.770658 CCATGGCCATCTCCACTAGAA 59.229 52.381 17.61 0.00 39.25 2.10
4396 6254 2.287644 TGTGACTTGTCTTGCAATCACG 59.712 45.455 18.67 12.77 39.42 4.35
4449 6307 7.415989 GCATAATGGGATATAAAGCAGGTCATG 60.416 40.741 0.00 0.00 0.00 3.07
4450 6308 6.604795 GCATAATGGGATATAAAGCAGGTCAT 59.395 38.462 0.00 0.00 0.00 3.06
4451 6309 5.945784 GCATAATGGGATATAAAGCAGGTCA 59.054 40.000 0.00 0.00 0.00 4.02
4452 6310 5.945784 TGCATAATGGGATATAAAGCAGGTC 59.054 40.000 0.00 0.00 0.00 3.85
4453 6311 5.711976 GTGCATAATGGGATATAAAGCAGGT 59.288 40.000 0.00 0.00 0.00 4.00
4454 6312 5.126061 GGTGCATAATGGGATATAAAGCAGG 59.874 44.000 0.00 0.00 0.00 4.85
4455 6313 5.711506 TGGTGCATAATGGGATATAAAGCAG 59.288 40.000 0.00 0.00 0.00 4.24
4456 6314 5.639139 TGGTGCATAATGGGATATAAAGCA 58.361 37.500 0.00 0.00 0.00 3.91
4457 6315 6.780457 ATGGTGCATAATGGGATATAAAGC 57.220 37.500 0.00 0.00 0.00 3.51
4458 6316 9.643693 GAAAATGGTGCATAATGGGATATAAAG 57.356 33.333 0.00 0.00 0.00 1.85
4459 6317 9.378504 AGAAAATGGTGCATAATGGGATATAAA 57.621 29.630 0.00 0.00 0.00 1.40
4460 6318 8.805175 CAGAAAATGGTGCATAATGGGATATAA 58.195 33.333 0.00 0.00 0.00 0.98
4461 6319 7.949565 ACAGAAAATGGTGCATAATGGGATATA 59.050 33.333 0.00 0.00 0.00 0.86
4462 6320 6.783977 ACAGAAAATGGTGCATAATGGGATAT 59.216 34.615 0.00 0.00 0.00 1.63
4463 6321 6.135454 ACAGAAAATGGTGCATAATGGGATA 58.865 36.000 0.00 0.00 0.00 2.59
4464 6322 4.964262 ACAGAAAATGGTGCATAATGGGAT 59.036 37.500 0.00 0.00 0.00 3.85
4465 6323 4.352009 ACAGAAAATGGTGCATAATGGGA 58.648 39.130 0.00 0.00 0.00 4.37
4466 6324 4.741321 ACAGAAAATGGTGCATAATGGG 57.259 40.909 0.00 0.00 0.00 4.00
4467 6325 7.281040 AGATACAGAAAATGGTGCATAATGG 57.719 36.000 0.00 0.00 0.00 3.16
4470 6328 9.851686 AGATTAGATACAGAAAATGGTGCATAA 57.148 29.630 0.00 0.00 0.00 1.90
4471 6329 9.494271 GAGATTAGATACAGAAAATGGTGCATA 57.506 33.333 0.00 0.00 0.00 3.14
4472 6330 8.216423 AGAGATTAGATACAGAAAATGGTGCAT 58.784 33.333 0.00 0.00 0.00 3.96
4473 6331 7.568349 AGAGATTAGATACAGAAAATGGTGCA 58.432 34.615 0.00 0.00 0.00 4.57
4474 6332 8.983724 GTAGAGATTAGATACAGAAAATGGTGC 58.016 37.037 0.00 0.00 0.00 5.01
4475 6333 9.482627 GGTAGAGATTAGATACAGAAAATGGTG 57.517 37.037 0.00 0.00 0.00 4.17
4476 6334 9.440761 AGGTAGAGATTAGATACAGAAAATGGT 57.559 33.333 0.00 0.00 0.00 3.55
4477 6335 9.921637 GAGGTAGAGATTAGATACAGAAAATGG 57.078 37.037 0.00 0.00 0.00 3.16
4483 6341 8.818860 GGTAGAGAGGTAGAGATTAGATACAGA 58.181 40.741 0.00 0.00 0.00 3.41
4484 6342 8.822805 AGGTAGAGAGGTAGAGATTAGATACAG 58.177 40.741 0.00 0.00 0.00 2.74
4485 6343 8.745149 AGGTAGAGAGGTAGAGATTAGATACA 57.255 38.462 0.00 0.00 0.00 2.29
4552 6410 8.455682 CGACCAGAAACCTAATTTGCTTTATTA 58.544 33.333 0.00 0.00 0.00 0.98
4553 6411 7.039993 ACGACCAGAAACCTAATTTGCTTTATT 60.040 33.333 0.00 0.00 0.00 1.40
4554 6412 6.433093 ACGACCAGAAACCTAATTTGCTTTAT 59.567 34.615 0.00 0.00 0.00 1.40
4555 6413 5.766174 ACGACCAGAAACCTAATTTGCTTTA 59.234 36.000 0.00 0.00 0.00 1.85
4556 6414 4.583073 ACGACCAGAAACCTAATTTGCTTT 59.417 37.500 0.00 0.00 0.00 3.51
4557 6415 4.142038 ACGACCAGAAACCTAATTTGCTT 58.858 39.130 0.00 0.00 0.00 3.91
4558 6416 3.751518 ACGACCAGAAACCTAATTTGCT 58.248 40.909 0.00 0.00 0.00 3.91
4559 6417 4.435121 CGTACGACCAGAAACCTAATTTGC 60.435 45.833 10.44 0.00 0.00 3.68
4560 6418 4.687483 ACGTACGACCAGAAACCTAATTTG 59.313 41.667 24.41 0.00 0.00 2.32
4561 6419 4.886579 ACGTACGACCAGAAACCTAATTT 58.113 39.130 24.41 0.00 0.00 1.82
4562 6420 4.022068 TGACGTACGACCAGAAACCTAATT 60.022 41.667 24.41 0.00 0.00 1.40
4563 6421 3.507233 TGACGTACGACCAGAAACCTAAT 59.493 43.478 24.41 0.00 0.00 1.73
4564 6422 2.884012 TGACGTACGACCAGAAACCTAA 59.116 45.455 24.41 0.00 0.00 2.69
4565 6423 2.503331 TGACGTACGACCAGAAACCTA 58.497 47.619 24.41 0.00 0.00 3.08
4566 6424 1.321474 TGACGTACGACCAGAAACCT 58.679 50.000 24.41 0.00 0.00 3.50
4567 6425 2.358939 ATGACGTACGACCAGAAACC 57.641 50.000 24.41 0.05 0.00 3.27
4568 6426 5.827568 TTTTATGACGTACGACCAGAAAC 57.172 39.130 24.41 3.35 0.00 2.78
4588 6446 3.492337 TGCCAACTTCGAGGGTATTTTT 58.508 40.909 0.00 0.00 0.00 1.94
4589 6447 3.149005 TGCCAACTTCGAGGGTATTTT 57.851 42.857 0.00 0.00 0.00 1.82
4590 6448 2.871096 TGCCAACTTCGAGGGTATTT 57.129 45.000 0.00 0.00 0.00 1.40
4591 6449 2.304761 TCTTGCCAACTTCGAGGGTATT 59.695 45.455 0.00 0.00 0.00 1.89
4592 6450 1.906574 TCTTGCCAACTTCGAGGGTAT 59.093 47.619 0.00 0.00 0.00 2.73
4593 6451 1.344065 TCTTGCCAACTTCGAGGGTA 58.656 50.000 0.00 0.00 0.00 3.69
4594 6452 0.472471 TTCTTGCCAACTTCGAGGGT 59.528 50.000 0.00 0.00 0.00 4.34
4595 6453 1.826385 ATTCTTGCCAACTTCGAGGG 58.174 50.000 0.00 0.00 0.00 4.30
4596 6454 3.127030 GGTAATTCTTGCCAACTTCGAGG 59.873 47.826 0.00 0.00 35.27 4.63
4597 6455 3.127030 GGGTAATTCTTGCCAACTTCGAG 59.873 47.826 0.00 0.00 37.12 4.04
4598 6456 3.078837 GGGTAATTCTTGCCAACTTCGA 58.921 45.455 0.00 0.00 37.12 3.71
4599 6457 2.817258 TGGGTAATTCTTGCCAACTTCG 59.183 45.455 0.00 0.00 37.12 3.79
4600 6458 3.056821 GGTGGGTAATTCTTGCCAACTTC 60.057 47.826 2.20 0.00 39.15 3.01
4601 6459 2.897326 GGTGGGTAATTCTTGCCAACTT 59.103 45.455 2.20 0.00 39.15 2.66
4602 6460 2.158385 TGGTGGGTAATTCTTGCCAACT 60.158 45.455 0.00 0.00 39.15 3.16
4603 6461 2.243810 TGGTGGGTAATTCTTGCCAAC 58.756 47.619 0.00 0.00 38.51 3.77
4604 6462 2.685106 TGGTGGGTAATTCTTGCCAA 57.315 45.000 0.00 0.00 37.12 4.52
4605 6463 2.685106 TTGGTGGGTAATTCTTGCCA 57.315 45.000 0.00 0.00 37.12 4.92
4606 6464 2.418609 GCATTGGTGGGTAATTCTTGCC 60.419 50.000 0.00 0.00 34.30 4.52
4607 6465 2.418609 GGCATTGGTGGGTAATTCTTGC 60.419 50.000 0.00 0.00 0.00 4.01
4608 6466 2.830923 TGGCATTGGTGGGTAATTCTTG 59.169 45.455 0.00 0.00 0.00 3.02
4609 6467 2.831526 GTGGCATTGGTGGGTAATTCTT 59.168 45.455 0.00 0.00 0.00 2.52
4610 6468 2.456577 GTGGCATTGGTGGGTAATTCT 58.543 47.619 0.00 0.00 0.00 2.40
4611 6469 1.480545 GGTGGCATTGGTGGGTAATTC 59.519 52.381 0.00 0.00 0.00 2.17
4612 6470 1.567357 GGTGGCATTGGTGGGTAATT 58.433 50.000 0.00 0.00 0.00 1.40
4613 6471 0.325203 GGGTGGCATTGGTGGGTAAT 60.325 55.000 0.00 0.00 0.00 1.89
4614 6472 1.077625 GGGTGGCATTGGTGGGTAA 59.922 57.895 0.00 0.00 0.00 2.85
4615 6473 2.767352 GGGTGGCATTGGTGGGTA 59.233 61.111 0.00 0.00 0.00 3.69
4616 6474 4.676951 CGGGTGGCATTGGTGGGT 62.677 66.667 0.00 0.00 0.00 4.51
4617 6475 2.773007 TTACGGGTGGCATTGGTGGG 62.773 60.000 0.00 0.00 0.00 4.61
4618 6476 1.303724 TTACGGGTGGCATTGGTGG 60.304 57.895 0.00 0.00 0.00 4.61
4619 6477 0.608035 ACTTACGGGTGGCATTGGTG 60.608 55.000 0.00 0.00 0.00 4.17
4620 6478 0.111639 AACTTACGGGTGGCATTGGT 59.888 50.000 0.00 0.00 0.00 3.67
4621 6479 2.116827 TAACTTACGGGTGGCATTGG 57.883 50.000 0.00 0.00 0.00 3.16
4622 6480 4.506886 TTTTAACTTACGGGTGGCATTG 57.493 40.909 0.00 0.00 0.00 2.82
4623 6481 6.181908 TCTATTTTAACTTACGGGTGGCATT 58.818 36.000 0.00 0.00 0.00 3.56
4624 6482 5.747342 TCTATTTTAACTTACGGGTGGCAT 58.253 37.500 0.00 0.00 0.00 4.40
4625 6483 5.163281 TCTATTTTAACTTACGGGTGGCA 57.837 39.130 0.00 0.00 0.00 4.92
4626 6484 6.499234 TTTCTATTTTAACTTACGGGTGGC 57.501 37.500 0.00 0.00 0.00 5.01
4627 6485 7.873910 TGTTTTCTATTTTAACTTACGGGTGG 58.126 34.615 0.00 0.00 0.00 4.61
4628 6486 9.902196 ATTGTTTTCTATTTTAACTTACGGGTG 57.098 29.630 0.00 0.00 0.00 4.61
4661 6519 3.839823 ACGACGACGAATTTCGAAAAA 57.160 38.095 24.50 0.00 43.74 1.94
4662 6520 3.974401 AGTACGACGACGAATTTCGAAAA 59.026 39.130 24.50 0.00 43.74 2.29
4663 6521 3.554524 AGTACGACGACGAATTTCGAAA 58.445 40.909 24.50 13.91 43.74 3.46
4664 6522 3.187478 AGTACGACGACGAATTTCGAA 57.813 42.857 24.50 0.00 43.74 3.71
4665 6523 2.880822 AGTACGACGACGAATTTCGA 57.119 45.000 24.50 0.00 43.74 3.71
4666 6524 4.084507 ACTAAGTACGACGACGAATTTCG 58.915 43.478 15.32 16.84 46.93 3.46
4667 6525 5.340667 ACAACTAAGTACGACGACGAATTTC 59.659 40.000 15.32 0.00 42.66 2.17
4668 6526 5.215160 ACAACTAAGTACGACGACGAATTT 58.785 37.500 15.32 7.15 42.66 1.82
4669 6527 4.787598 ACAACTAAGTACGACGACGAATT 58.212 39.130 15.32 7.80 42.66 2.17
4670 6528 4.410492 ACAACTAAGTACGACGACGAAT 57.590 40.909 15.32 0.00 42.66 3.34
4671 6529 3.878086 ACAACTAAGTACGACGACGAA 57.122 42.857 15.32 0.00 42.66 3.85
4672 6530 3.878086 AACAACTAAGTACGACGACGA 57.122 42.857 15.32 0.00 42.66 4.20
4673 6531 8.972073 TTATATAACAACTAAGTACGACGACG 57.028 34.615 5.58 5.58 45.75 5.12
4697 6555 9.979578 TTCTTTTGTATTTGCAGTATCACATTT 57.020 25.926 0.00 0.00 0.00 2.32
4698 6556 9.979578 TTTCTTTTGTATTTGCAGTATCACATT 57.020 25.926 0.00 0.00 0.00 2.71
4699 6557 9.410556 GTTTCTTTTGTATTTGCAGTATCACAT 57.589 29.630 0.00 0.00 0.00 3.21
4700 6558 8.629158 AGTTTCTTTTGTATTTGCAGTATCACA 58.371 29.630 0.00 0.00 0.00 3.58
4701 6559 9.118236 GAGTTTCTTTTGTATTTGCAGTATCAC 57.882 33.333 0.00 0.00 0.00 3.06
4702 6560 8.015087 CGAGTTTCTTTTGTATTTGCAGTATCA 58.985 33.333 0.00 0.00 0.00 2.15
4703 6561 7.481798 CCGAGTTTCTTTTGTATTTGCAGTATC 59.518 37.037 0.00 0.00 0.00 2.24
4704 6562 7.174253 TCCGAGTTTCTTTTGTATTTGCAGTAT 59.826 33.333 0.00 0.00 0.00 2.12
4705 6563 6.483974 TCCGAGTTTCTTTTGTATTTGCAGTA 59.516 34.615 0.00 0.00 0.00 2.74
4706 6564 5.298276 TCCGAGTTTCTTTTGTATTTGCAGT 59.702 36.000 0.00 0.00 0.00 4.40
4707 6565 5.757886 TCCGAGTTTCTTTTGTATTTGCAG 58.242 37.500 0.00 0.00 0.00 4.41
4708 6566 5.298276 ACTCCGAGTTTCTTTTGTATTTGCA 59.702 36.000 0.00 0.00 0.00 4.08
4709 6567 5.758924 ACTCCGAGTTTCTTTTGTATTTGC 58.241 37.500 0.00 0.00 0.00 3.68
4710 6568 6.636850 CCAACTCCGAGTTTCTTTTGTATTTG 59.363 38.462 11.24 0.00 36.03 2.32
4711 6569 6.734871 GCCAACTCCGAGTTTCTTTTGTATTT 60.735 38.462 11.24 0.00 36.03 1.40
4712 6570 5.278315 GCCAACTCCGAGTTTCTTTTGTATT 60.278 40.000 11.24 0.00 36.03 1.89
4713 6571 4.215613 GCCAACTCCGAGTTTCTTTTGTAT 59.784 41.667 11.24 0.00 36.03 2.29
4714 6572 3.562557 GCCAACTCCGAGTTTCTTTTGTA 59.437 43.478 11.24 0.00 36.03 2.41
4715 6573 2.357952 GCCAACTCCGAGTTTCTTTTGT 59.642 45.455 11.24 0.00 36.03 2.83
4716 6574 2.602217 CGCCAACTCCGAGTTTCTTTTG 60.602 50.000 11.24 0.06 36.03 2.44
4717 6575 1.602377 CGCCAACTCCGAGTTTCTTTT 59.398 47.619 11.24 0.00 36.03 2.27
4718 6576 1.226746 CGCCAACTCCGAGTTTCTTT 58.773 50.000 11.24 0.00 36.03 2.52
4719 6577 1.228657 GCGCCAACTCCGAGTTTCTT 61.229 55.000 11.24 0.00 36.03 2.52
4720 6578 1.668151 GCGCCAACTCCGAGTTTCT 60.668 57.895 11.24 0.00 36.03 2.52
4721 6579 1.901650 CTGCGCCAACTCCGAGTTTC 61.902 60.000 11.24 5.76 36.03 2.78
4722 6580 1.961277 CTGCGCCAACTCCGAGTTT 60.961 57.895 11.24 0.00 36.03 2.66
4723 6581 2.357517 CTGCGCCAACTCCGAGTT 60.358 61.111 8.03 8.03 39.39 3.01
4724 6582 3.616721 ACTGCGCCAACTCCGAGT 61.617 61.111 4.18 0.00 0.00 4.18
4725 6583 3.114616 CACTGCGCCAACTCCGAG 61.115 66.667 4.18 0.00 0.00 4.63
4726 6584 4.680237 CCACTGCGCCAACTCCGA 62.680 66.667 4.18 0.00 0.00 4.55
4729 6587 3.426568 GAGCCACTGCGCCAACTC 61.427 66.667 4.18 0.67 44.33 3.01
4730 6588 3.772853 TTGAGCCACTGCGCCAACT 62.773 57.895 4.18 0.00 44.33 3.16
4731 6589 3.259425 CTTGAGCCACTGCGCCAAC 62.259 63.158 4.18 0.00 44.33 3.77
4732 6590 2.979676 CTTGAGCCACTGCGCCAA 60.980 61.111 4.18 0.00 44.33 4.52
4743 6601 0.326264 TGGGAGAGAAAGGCTTGAGC 59.674 55.000 0.00 0.00 41.14 4.26
4744 6602 1.339535 GGTGGGAGAGAAAGGCTTGAG 60.340 57.143 0.00 0.00 0.00 3.02
4745 6603 0.693049 GGTGGGAGAGAAAGGCTTGA 59.307 55.000 0.00 0.00 0.00 3.02
4746 6604 0.674895 CGGTGGGAGAGAAAGGCTTG 60.675 60.000 0.00 0.00 0.00 4.01
4747 6605 1.679898 CGGTGGGAGAGAAAGGCTT 59.320 57.895 0.00 0.00 0.00 4.35
4748 6606 2.960688 GCGGTGGGAGAGAAAGGCT 61.961 63.158 0.00 0.00 0.00 4.58
4749 6607 2.436824 GCGGTGGGAGAGAAAGGC 60.437 66.667 0.00 0.00 0.00 4.35
4750 6608 2.125512 CGCGGTGGGAGAGAAAGG 60.126 66.667 0.00 0.00 0.00 3.11
4751 6609 2.125512 CCGCGGTGGGAGAGAAAG 60.126 66.667 19.50 0.00 0.00 2.62
4752 6610 2.602267 TCCGCGGTGGGAGAGAAA 60.602 61.111 27.15 0.00 38.76 2.52
4753 6611 3.379445 GTCCGCGGTGGGAGAGAA 61.379 66.667 27.15 0.00 36.58 2.87
4754 6612 4.671590 TGTCCGCGGTGGGAGAGA 62.672 66.667 27.15 0.00 36.58 3.10
4755 6613 4.436998 GTGTCCGCGGTGGGAGAG 62.437 72.222 27.15 0.00 36.58 3.20
4765 6623 2.798148 ATTCGAACCCTGGTGTCCGC 62.798 60.000 0.00 0.00 0.00 5.54
4766 6624 0.739813 GATTCGAACCCTGGTGTCCG 60.740 60.000 0.00 0.00 0.00 4.79
4767 6625 0.392595 GGATTCGAACCCTGGTGTCC 60.393 60.000 0.00 0.00 0.00 4.02
4768 6626 0.392595 GGGATTCGAACCCTGGTGTC 60.393 60.000 21.61 5.75 43.65 3.67
4769 6627 1.131303 TGGGATTCGAACCCTGGTGT 61.131 55.000 26.07 0.96 46.82 4.16
4770 6628 0.392998 CTGGGATTCGAACCCTGGTG 60.393 60.000 26.07 15.12 46.82 4.17
4771 6629 0.840722 ACTGGGATTCGAACCCTGGT 60.841 55.000 28.80 23.68 46.29 4.00
4772 6630 0.328258 AACTGGGATTCGAACCCTGG 59.672 55.000 28.80 23.28 46.29 4.45
4773 6631 1.271379 ACAACTGGGATTCGAACCCTG 60.271 52.381 26.30 26.30 46.82 4.45
4774 6632 1.064825 ACAACTGGGATTCGAACCCT 58.935 50.000 26.07 12.12 46.82 4.34
4775 6633 2.027469 AGTACAACTGGGATTCGAACCC 60.027 50.000 21.92 21.92 46.87 4.11
4776 6634 3.329929 AGTACAACTGGGATTCGAACC 57.670 47.619 0.00 4.00 0.00 3.62
4777 6635 6.980051 AATTAGTACAACTGGGATTCGAAC 57.020 37.500 0.00 0.00 0.00 3.95
4778 6636 7.120138 GGAAAATTAGTACAACTGGGATTCGAA 59.880 37.037 0.00 0.00 0.00 3.71
4779 6637 6.596497 GGAAAATTAGTACAACTGGGATTCGA 59.404 38.462 0.00 0.00 0.00 3.71
4780 6638 6.183360 GGGAAAATTAGTACAACTGGGATTCG 60.183 42.308 0.00 0.00 0.00 3.34
4781 6639 6.096423 GGGGAAAATTAGTACAACTGGGATTC 59.904 42.308 0.00 0.00 0.00 2.52
4782 6640 5.955959 GGGGAAAATTAGTACAACTGGGATT 59.044 40.000 0.00 0.00 0.00 3.01
4783 6641 5.015817 TGGGGAAAATTAGTACAACTGGGAT 59.984 40.000 0.00 0.00 0.00 3.85
4784 6642 4.354387 TGGGGAAAATTAGTACAACTGGGA 59.646 41.667 0.00 0.00 0.00 4.37
4785 6643 4.668636 TGGGGAAAATTAGTACAACTGGG 58.331 43.478 0.00 0.00 0.00 4.45
4786 6644 5.949354 TGATGGGGAAAATTAGTACAACTGG 59.051 40.000 0.00 0.00 0.00 4.00
4787 6645 7.557719 AGATGATGGGGAAAATTAGTACAACTG 59.442 37.037 0.00 0.00 0.00 3.16
4788 6646 7.643123 AGATGATGGGGAAAATTAGTACAACT 58.357 34.615 0.00 0.00 0.00 3.16
4789 6647 7.881775 AGATGATGGGGAAAATTAGTACAAC 57.118 36.000 0.00 0.00 0.00 3.32
4790 6648 8.748412 CAAAGATGATGGGGAAAATTAGTACAA 58.252 33.333 0.00 0.00 0.00 2.41
4791 6649 7.893302 ACAAAGATGATGGGGAAAATTAGTACA 59.107 33.333 0.00 0.00 0.00 2.90
4792 6650 8.293699 ACAAAGATGATGGGGAAAATTAGTAC 57.706 34.615 0.00 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.