Multiple sequence alignment - TraesCS4A01G059400

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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 TraesCS4A01G059400 chr4A 100.000 4198 0 0 1 4198 55571806 55576003 0.000000e+00 7753.0
1 TraesCS4A01G059400 chr4A 89.151 424 42 3 1033 1456 522456926 522456507 3.720000e-145 525.0
2 TraesCS4A01G059400 chr4A 96.491 57 1 1 4142 4198 252272890 252272835 4.470000e-15 93.5
3 TraesCS4A01G059400 chr4B 91.327 3632 183 56 1 3578 490666489 490670042 0.000000e+00 4841.0
4 TraesCS4A01G059400 chr4B 91.852 405 30 3 3747 4149 490672937 490673340 2.830000e-156 562.0
5 TraesCS4A01G059400 chr4B 91.852 405 30 3 3747 4149 490704202 490704605 2.830000e-156 562.0
6 TraesCS4A01G059400 chr4B 93.458 107 7 0 3622 3728 490670226 490670332 4.340000e-35 159.0
7 TraesCS4A01G059400 chr4D 93.138 3352 129 33 316 3621 398292875 398296171 0.000000e+00 4822.0
8 TraesCS4A01G059400 chr4D 89.831 236 17 3 1 231 398292568 398292801 3.170000e-76 296.0
9 TraesCS4A01G059400 chr7D 91.265 767 51 6 2165 2919 471209398 471208636 0.000000e+00 1031.0
10 TraesCS4A01G059400 chr7D 85.824 649 44 13 1336 1976 471210023 471209415 0.000000e+00 645.0
11 TraesCS4A01G059400 chr1D 91.146 768 51 9 2165 2919 468407059 468407822 0.000000e+00 1026.0
12 TraesCS4A01G059400 chr2B 90.482 767 57 6 2165 2919 357158938 357159700 0.000000e+00 998.0
13 TraesCS4A01G059400 chr2B 90.091 767 60 6 2165 2919 710993178 710993940 0.000000e+00 981.0
14 TraesCS4A01G059400 chr2B 85.841 339 29 3 1642 1976 357158598 357158921 4.020000e-90 342.0
15 TraesCS4A01G059400 chr2B 85.546 339 30 3 1642 1976 710992838 710993161 1.870000e-88 337.0
16 TraesCS4A01G059400 chr2B 82.292 96 14 3 320 414 419612165 419612258 3.480000e-11 80.5
17 TraesCS4A01G059400 chrUn 90.352 767 58 6 2165 2919 13808181 13808943 0.000000e+00 992.0
18 TraesCS4A01G059400 chrUn 89.737 419 35 4 1038 1456 13806338 13806748 2.870000e-146 529.0
19 TraesCS4A01G059400 chrUn 85.841 339 29 3 1642 1976 13807841 13808164 4.020000e-90 342.0
20 TraesCS4A01G059400 chrUn 85.841 339 29 3 1642 1976 381011453 381011130 4.020000e-90 342.0
21 TraesCS4A01G059400 chrUn 91.111 45 4 0 327 371 23375130 23375086 1.260000e-05 62.1
22 TraesCS4A01G059400 chr7B 90.352 767 58 6 2165 2919 723885550 723886312 0.000000e+00 992.0
23 TraesCS4A01G059400 chr7B 90.222 767 59 6 2165 2919 729820513 729819751 0.000000e+00 987.0
24 TraesCS4A01G059400 chr7B 85.251 339 31 3 1642 1976 723885210 723885533 8.700000e-87 331.0
25 TraesCS4A01G059400 chr7B 84.956 339 29 4 1642 1976 729820850 729820530 1.460000e-84 324.0
26 TraesCS4A01G059400 chr2A 90.352 767 58 6 2165 2919 177893605 177894367 0.000000e+00 992.0
27 TraesCS4A01G059400 chr2A 89.976 419 34 4 1038 1456 177891761 177892171 6.180000e-148 534.0
28 TraesCS4A01G059400 chr2A 89.976 419 34 4 1038 1456 279478200 279477790 6.180000e-148 534.0
29 TraesCS4A01G059400 chr2A 93.548 62 2 2 4138 4198 141777584 141777524 1.610000e-14 91.6
30 TraesCS4A01G059400 chr3A 89.961 767 61 6 2165 2919 645799237 645799999 0.000000e+00 976.0
31 TraesCS4A01G059400 chr3A 89.737 419 33 5 1038 1456 645797396 645797804 1.030000e-145 527.0
32 TraesCS4A01G059400 chr3A 94.915 59 2 1 4141 4198 339057490 339057548 1.610000e-14 91.6
33 TraesCS4A01G059400 chr3A 92.308 65 3 2 4135 4198 537330899 537330836 1.610000e-14 91.6
34 TraesCS4A01G059400 chr3A 91.176 68 3 2 4134 4198 74656918 74656985 5.780000e-14 89.8
35 TraesCS4A01G059400 chr3B 89.976 419 34 4 1038 1456 728285223 728285633 6.180000e-148 534.0
36 TraesCS4A01G059400 chr3B 85.841 339 29 5 1642 1976 728286728 728287051 4.020000e-90 342.0
37 TraesCS4A01G059400 chr5A 83.495 618 51 14 1336 1943 608811329 608811905 2.870000e-146 529.0
38 TraesCS4A01G059400 chr7A 89.499 419 36 4 1038 1456 518139847 518140257 1.340000e-144 523.0
39 TraesCS4A01G059400 chr7A 85.841 339 29 3 1642 1976 518141350 518141673 4.020000e-90 342.0
40 TraesCS4A01G059400 chr7A 85.417 96 13 1 316 410 38792370 38792275 9.610000e-17 99.0
41 TraesCS4A01G059400 chr7A 94.915 59 2 1 4141 4198 246513623 246513565 1.610000e-14 91.6
42 TraesCS4A01G059400 chr7A 88.158 76 5 4 4126 4198 342981135 342981209 2.080000e-13 87.9
43 TraesCS4A01G059400 chr7A 85.455 55 5 3 327 379 549789149 549789202 2.000000e-03 54.7
44 TraesCS4A01G059400 chr1B 85.234 535 46 7 1453 1976 505644160 505644672 1.730000e-143 520.0
45 TraesCS4A01G059400 chr1B 82.456 114 13 5 314 423 419388434 419388324 4.470000e-15 93.5
46 TraesCS4A01G059400 chr6A 90.909 66 3 3 4134 4198 541528171 541528234 7.480000e-13 86.1
47 TraesCS4A01G059400 chr1A 90.769 65 5 1 4135 4198 357103756 357103820 7.480000e-13 86.1


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 TraesCS4A01G059400 chr4A 55571806 55576003 4197 False 7753.0 7753 100.000000 1 4198 1 chr4A.!!$F1 4197
1 TraesCS4A01G059400 chr4B 490666489 490673340 6851 False 1854.0 4841 92.212333 1 4149 3 chr4B.!!$F2 4148
2 TraesCS4A01G059400 chr4D 398292568 398296171 3603 False 2559.0 4822 91.484500 1 3621 2 chr4D.!!$F1 3620
3 TraesCS4A01G059400 chr7D 471208636 471210023 1387 True 838.0 1031 88.544500 1336 2919 2 chr7D.!!$R1 1583
4 TraesCS4A01G059400 chr1D 468407059 468407822 763 False 1026.0 1026 91.146000 2165 2919 1 chr1D.!!$F1 754
5 TraesCS4A01G059400 chr2B 357158598 357159700 1102 False 670.0 998 88.161500 1642 2919 2 chr2B.!!$F2 1277
6 TraesCS4A01G059400 chr2B 710992838 710993940 1102 False 659.0 981 87.818500 1642 2919 2 chr2B.!!$F3 1277
7 TraesCS4A01G059400 chrUn 13806338 13808943 2605 False 621.0 992 88.643333 1038 2919 3 chrUn.!!$F1 1881
8 TraesCS4A01G059400 chr7B 723885210 723886312 1102 False 661.5 992 87.801500 1642 2919 2 chr7B.!!$F1 1277
9 TraesCS4A01G059400 chr7B 729819751 729820850 1099 True 655.5 987 87.589000 1642 2919 2 chr7B.!!$R1 1277
10 TraesCS4A01G059400 chr2A 177891761 177894367 2606 False 763.0 992 90.164000 1038 2919 2 chr2A.!!$F1 1881
11 TraesCS4A01G059400 chr3A 645797396 645799999 2603 False 751.5 976 89.849000 1038 2919 2 chr3A.!!$F3 1881
12 TraesCS4A01G059400 chr3B 728285223 728287051 1828 False 438.0 534 87.908500 1038 1976 2 chr3B.!!$F1 938
13 TraesCS4A01G059400 chr5A 608811329 608811905 576 False 529.0 529 83.495000 1336 1943 1 chr5A.!!$F1 607
14 TraesCS4A01G059400 chr7A 518139847 518141673 1826 False 432.5 523 87.670000 1038 1976 2 chr7A.!!$F3 938
15 TraesCS4A01G059400 chr1B 505644160 505644672 512 False 520.0 520 85.234000 1453 1976 1 chr1B.!!$F1 523

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
644 685 0.834612 TATGGGCCAAACTAGACCCG 59.165 55.000 11.89 0.00 46.02 5.28 F
1285 1353 2.511373 GGATGGTGCGCATCGACA 60.511 61.111 15.91 11.56 0.00 4.35 F
2591 3612 0.107165 GCAGAATCCCCAGTGGTACC 60.107 60.000 8.74 4.43 34.77 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1508 1613 1.891150 GGTAGAACTTGTCCGTCTCCA 59.109 52.381 0.00 0.0 0.00 3.86 R
3043 4068 0.040603 GTCTGTGCTTCAGTGCTTGC 60.041 55.000 8.75 0.0 43.97 4.01 R
4171 7942 0.102120 CCGGAGCACAGAGATCAGAC 59.898 60.000 0.00 0.0 33.23 3.51 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
63 72 1.507713 CGTTTCGTGCGTGCTGATG 60.508 57.895 0.00 0.00 0.00 3.07
72 81 2.743752 CGTGCTGATGAACCTGCCG 61.744 63.158 0.00 0.00 0.00 5.69
84 93 4.093952 CTGCCGCGCAAGGAACTG 62.094 66.667 8.75 0.00 40.86 3.16
85 94 4.617520 TGCCGCGCAAGGAACTGA 62.618 61.111 8.75 0.00 40.86 3.41
140 149 1.022451 TTCCGCTTTCGTACATGGGC 61.022 55.000 0.00 0.00 0.00 5.36
163 172 2.931512 AAACAACTGTGGTGAAACGG 57.068 45.000 0.00 0.00 38.12 4.44
171 180 2.226330 TGTGGTGAAACGGAGGAATTG 58.774 47.619 0.00 0.00 38.12 2.32
175 184 2.882137 GGTGAAACGGAGGAATTGAACA 59.118 45.455 0.00 0.00 38.12 3.18
216 225 2.738314 GCGCCTACGGAGAAACTAAAAA 59.262 45.455 0.00 0.00 40.57 1.94
218 227 3.992427 CGCCTACGGAGAAACTAAAAACT 59.008 43.478 0.00 0.00 34.97 2.66
236 245 1.067212 ACTGGGAACGCGACAGATATC 59.933 52.381 15.93 0.00 36.17 1.63
240 276 2.540101 GGGAACGCGACAGATATCTTTG 59.460 50.000 15.93 0.00 0.00 2.77
287 326 7.623999 AATCTCTGGAGACACCACATTATAT 57.376 36.000 2.15 0.00 44.64 0.86
288 327 6.410942 TCTCTGGAGACACCACATTATATG 57.589 41.667 0.00 0.00 44.64 1.78
289 328 6.136155 TCTCTGGAGACACCACATTATATGA 58.864 40.000 0.00 0.00 44.64 2.15
290 329 6.266330 TCTCTGGAGACACCACATTATATGAG 59.734 42.308 0.00 0.00 44.64 2.90
293 332 4.348168 GGAGACACCACATTATATGAGGGT 59.652 45.833 7.81 5.39 44.14 4.34
294 333 5.511545 GGAGACACCACATTATATGAGGGTC 60.512 48.000 7.81 10.48 44.14 4.46
296 335 3.071023 ACACCACATTATATGAGGGTCGG 59.929 47.826 7.81 0.00 44.14 4.79
297 336 3.071023 CACCACATTATATGAGGGTCGGT 59.929 47.826 7.81 0.00 44.14 4.69
299 338 3.067106 CACATTATATGAGGGTCGGTGC 58.933 50.000 0.00 0.00 0.00 5.01
300 339 2.038557 ACATTATATGAGGGTCGGTGCC 59.961 50.000 0.00 0.00 0.00 5.01
302 341 1.629043 TATATGAGGGTCGGTGCCTC 58.371 55.000 0.00 0.00 0.00 4.70
305 344 3.692406 GAGGGTCGGTGCCTCGTT 61.692 66.667 0.00 0.00 0.00 3.85
308 347 2.613506 GGGTCGGTGCCTCGTTTTG 61.614 63.158 0.00 0.00 0.00 2.44
309 348 1.595929 GGTCGGTGCCTCGTTTTGA 60.596 57.895 0.00 0.00 0.00 2.69
310 349 1.568025 GTCGGTGCCTCGTTTTGAC 59.432 57.895 0.00 0.00 0.00 3.18
311 350 1.144276 TCGGTGCCTCGTTTTGACA 59.856 52.632 0.00 0.00 0.00 3.58
312 351 0.878523 TCGGTGCCTCGTTTTGACAG 60.879 55.000 0.00 0.00 0.00 3.51
314 353 1.870580 CGGTGCCTCGTTTTGACAGTA 60.871 52.381 0.00 0.00 0.00 2.74
315 354 1.798813 GGTGCCTCGTTTTGACAGTAG 59.201 52.381 0.00 0.00 0.00 2.57
316 355 2.480845 GTGCCTCGTTTTGACAGTAGT 58.519 47.619 0.00 0.00 0.00 2.73
317 356 3.553508 GGTGCCTCGTTTTGACAGTAGTA 60.554 47.826 0.00 0.00 0.00 1.82
318 357 3.673809 GTGCCTCGTTTTGACAGTAGTAG 59.326 47.826 0.00 0.00 0.00 2.57
319 358 3.319972 TGCCTCGTTTTGACAGTAGTAGT 59.680 43.478 0.00 0.00 0.00 2.73
320 359 3.673809 GCCTCGTTTTGACAGTAGTAGTG 59.326 47.826 3.30 3.30 0.00 2.74
321 360 4.558095 GCCTCGTTTTGACAGTAGTAGTGA 60.558 45.833 12.05 0.00 0.00 3.41
322 361 5.710984 CCTCGTTTTGACAGTAGTAGTGAT 58.289 41.667 12.05 0.00 0.00 3.06
323 362 6.157211 CCTCGTTTTGACAGTAGTAGTGATT 58.843 40.000 12.05 0.00 0.00 2.57
324 363 6.089551 CCTCGTTTTGACAGTAGTAGTGATTG 59.910 42.308 12.05 0.00 0.00 2.67
325 364 6.509656 TCGTTTTGACAGTAGTAGTGATTGT 58.490 36.000 12.05 0.00 0.00 2.71
326 365 6.982141 TCGTTTTGACAGTAGTAGTGATTGTT 59.018 34.615 12.05 0.00 0.00 2.83
327 366 8.136800 TCGTTTTGACAGTAGTAGTGATTGTTA 58.863 33.333 12.05 0.00 0.00 2.41
328 367 8.425491 CGTTTTGACAGTAGTAGTGATTGTTAG 58.575 37.037 12.05 0.00 0.00 2.34
329 368 9.472361 GTTTTGACAGTAGTAGTGATTGTTAGA 57.528 33.333 12.05 0.00 0.00 2.10
335 374 8.251721 ACAGTAGTAGTGATTGTTAGATGGTTC 58.748 37.037 12.05 0.00 0.00 3.62
383 423 8.865590 TTATTTTTGAGGTGCTTTGTAAGTTC 57.134 30.769 0.00 0.00 0.00 3.01
385 425 3.462483 TGAGGTGCTTTGTAAGTTCGA 57.538 42.857 0.00 0.00 0.00 3.71
387 427 3.994392 TGAGGTGCTTTGTAAGTTCGATC 59.006 43.478 0.00 0.00 0.00 3.69
545 585 5.243207 ACTATACTTCCCAACCAAGTTTCG 58.757 41.667 0.00 0.00 35.63 3.46
547 587 2.294979 ACTTCCCAACCAAGTTTCGTC 58.705 47.619 0.00 0.00 29.29 4.20
598 639 6.856135 AGTAGTAGTTGAAAAAGGGAAACG 57.144 37.500 0.00 0.00 0.00 3.60
627 668 4.715297 AGTGTGGATTAGGAGAACGGTTAT 59.285 41.667 0.00 0.00 0.00 1.89
644 685 0.834612 TATGGGCCAAACTAGACCCG 59.165 55.000 11.89 0.00 46.02 5.28
768 815 6.017357 AGCCGTCTCAAAACTAAACTAAAAGG 60.017 38.462 0.00 0.00 0.00 3.11
900 948 4.431378 TCCCCCGCTTCTTATATATTCCA 58.569 43.478 0.00 0.00 0.00 3.53
1285 1353 2.511373 GGATGGTGCGCATCGACA 60.511 61.111 15.91 11.56 0.00 4.35
1826 2813 2.665603 GCCGCCTCAGTCTCCTTT 59.334 61.111 0.00 0.00 0.00 3.11
1905 2892 1.202336 GGCAAGCATGAACATAGGCAC 60.202 52.381 0.00 0.00 0.00 5.01
2005 2992 8.495949 TCTCTCGAGAAATTTTTGTGTTCATAC 58.504 33.333 17.36 0.00 33.91 2.39
2016 3003 9.787435 ATTTTTGTGTTCATACCTACACTTCTA 57.213 29.630 0.00 0.00 43.82 2.10
2017 3004 8.597662 TTTTGTGTTCATACCTACACTTCTAC 57.402 34.615 0.00 0.00 43.82 2.59
2018 3005 5.946298 TGTGTTCATACCTACACTTCTACG 58.054 41.667 0.00 0.00 43.82 3.51
2019 3006 5.474532 TGTGTTCATACCTACACTTCTACGT 59.525 40.000 0.00 0.00 43.82 3.57
2141 3131 2.025155 CTCTCCTAGGCTGCTCGTTTA 58.975 52.381 2.96 0.00 0.00 2.01
2147 3137 2.440539 AGGCTGCTCGTTTATATCCG 57.559 50.000 0.00 0.00 0.00 4.18
2149 3139 2.889045 AGGCTGCTCGTTTATATCCGTA 59.111 45.455 0.00 0.00 0.00 4.02
2323 3341 5.143369 GGAAGGGAGGAATATGAGCAAAAT 58.857 41.667 0.00 0.00 0.00 1.82
2343 3361 8.598075 GCAAAATTAAATCATGTTTCCTGCTAG 58.402 33.333 0.00 0.00 0.00 3.42
2355 3373 0.179015 CCTGCTAGCTAGAGTCCGGA 60.179 60.000 25.15 0.00 0.00 5.14
2385 3403 9.725019 TGAAATATGTTCTGAATGTTCTGTACT 57.275 29.630 0.00 1.65 31.20 2.73
2591 3612 0.107165 GCAGAATCCCCAGTGGTACC 60.107 60.000 8.74 4.43 34.77 3.34
2685 3708 0.445436 CAGATGCAAGGTTCGTGAGC 59.555 55.000 0.00 0.00 0.00 4.26
2736 3759 2.562635 CCAGATGTGCTTGGATCTCAG 58.437 52.381 0.00 0.00 0.00 3.35
2744 3767 1.674962 GCTTGGATCTCAGGTCATTGC 59.325 52.381 0.00 0.00 0.00 3.56
2754 3777 3.411446 TCAGGTCATTGCTCGTTGAAAT 58.589 40.909 0.00 0.00 0.00 2.17
2883 3906 1.275010 TCGTCCAAGCTGCAGACATTA 59.725 47.619 20.43 0.00 0.00 1.90
2922 3945 4.556233 GCTTCAAGGTAAATTGGTGTTCC 58.444 43.478 0.00 0.00 0.00 3.62
2938 3961 2.291411 TGTTCCTCGCCTAGTCCTAGTT 60.291 50.000 0.96 0.00 0.00 2.24
2953 3976 7.913674 AGTCCTAGTTCTTCACATTCATTTC 57.086 36.000 0.00 0.00 0.00 2.17
3249 4274 2.093921 TCTGTTGTCGTCAAAGTGGTGA 60.094 45.455 0.00 0.00 35.20 4.02
3321 4346 0.668096 GTGCGTGTCGGGTATCAACA 60.668 55.000 0.00 0.00 0.00 3.33
3359 4384 3.379372 TCTTATGTCGCCGTAGTTTAGCT 59.621 43.478 0.00 0.00 0.00 3.32
3364 4389 2.022195 TCGCCGTAGTTTAGCTGAGAT 58.978 47.619 0.00 0.00 0.00 2.75
3366 4391 3.119245 TCGCCGTAGTTTAGCTGAGATTT 60.119 43.478 0.00 0.00 0.00 2.17
3553 4580 0.751643 ACGCCAGCCAACAGTTTCTT 60.752 50.000 0.00 0.00 0.00 2.52
3554 4581 0.318107 CGCCAGCCAACAGTTTCTTG 60.318 55.000 0.00 0.00 0.00 3.02
3559 4586 3.569701 CCAGCCAACAGTTTCTTGTGTAT 59.430 43.478 0.00 0.00 0.00 2.29
3562 4589 4.757149 AGCCAACAGTTTCTTGTGTATCTC 59.243 41.667 0.00 0.00 0.00 2.75
3592 4619 8.654215 CGAAATACCATTGACATCTCATCATAG 58.346 37.037 0.00 0.00 0.00 2.23
3643 4826 0.541863 AGAAGATAACCGGTGGCCTG 59.458 55.000 8.52 0.00 0.00 4.85
3648 4831 1.037030 ATAACCGGTGGCCTGCATTG 61.037 55.000 8.52 0.00 0.00 2.82
3672 4855 0.454285 ACGCGAATTCAACAATGCCG 60.454 50.000 15.93 0.00 0.00 5.69
3708 4891 6.372981 TCATTGATGCGAAATAAATCCATCG 58.627 36.000 0.00 0.00 36.09 3.84
3712 4895 7.433708 TGATGCGAAATAAATCCATCGTTAT 57.566 32.000 0.00 0.00 37.60 1.89
3722 4905 9.449719 AATAAATCCATCGTTATCATAAGACCC 57.550 33.333 0.00 0.00 0.00 4.46
3728 4911 6.542370 CCATCGTTATCATAAGACCCAAACTT 59.458 38.462 0.00 0.00 0.00 2.66
3729 4912 7.067008 CCATCGTTATCATAAGACCCAAACTTT 59.933 37.037 0.00 0.00 0.00 2.66
3730 4913 7.372451 TCGTTATCATAAGACCCAAACTTTG 57.628 36.000 0.00 0.00 0.00 2.77
3731 4914 7.162761 TCGTTATCATAAGACCCAAACTTTGA 58.837 34.615 2.87 0.00 0.00 2.69
3733 4916 8.122952 CGTTATCATAAGACCCAAACTTTGATC 58.877 37.037 2.87 1.11 32.86 2.92
3734 4917 8.406297 GTTATCATAAGACCCAAACTTTGATCC 58.594 37.037 2.87 0.00 32.86 3.36
3735 4918 5.886609 TCATAAGACCCAAACTTTGATCCA 58.113 37.500 2.87 0.00 0.00 3.41
3736 4919 6.310941 TCATAAGACCCAAACTTTGATCCAA 58.689 36.000 2.87 0.00 0.00 3.53
3737 4920 6.953520 TCATAAGACCCAAACTTTGATCCAAT 59.046 34.615 2.87 0.00 0.00 3.16
3738 4921 5.728637 AAGACCCAAACTTTGATCCAATC 57.271 39.130 2.87 0.00 0.00 2.67
3739 4922 5.003096 AGACCCAAACTTTGATCCAATCT 57.997 39.130 2.87 0.00 0.00 2.40
3741 4924 5.946377 AGACCCAAACTTTGATCCAATCTAC 59.054 40.000 2.87 0.00 0.00 2.59
3743 4926 6.074648 ACCCAAACTTTGATCCAATCTACAA 58.925 36.000 2.87 0.00 0.00 2.41
3745 4928 6.350445 CCCAAACTTTGATCCAATCTACAAGG 60.350 42.308 2.87 0.00 0.00 3.61
3750 7519 7.886338 ACTTTGATCCAATCTACAAGGAAAAC 58.114 34.615 0.00 0.00 34.62 2.43
3751 7520 6.834168 TTGATCCAATCTACAAGGAAAACC 57.166 37.500 0.00 0.00 34.62 3.27
3763 7532 6.860790 ACAAGGAAAACCTAAGACCAAAAA 57.139 33.333 0.00 0.00 0.00 1.94
3772 7541 7.610580 AACCTAAGACCAAAAATTGATCCAA 57.389 32.000 0.00 0.00 0.00 3.53
3795 7564 4.491676 TCTACAAGGAAAATCGAACCGAG 58.508 43.478 0.00 0.00 39.91 4.63
3825 7594 3.018856 CAGCTGAAGGGCAATACATCAA 58.981 45.455 8.42 0.00 34.17 2.57
3840 7609 7.424803 CAATACATCAAGAAAACAGGTGAACA 58.575 34.615 0.00 0.00 0.00 3.18
3880 7649 3.181491 ACCCAACACAAAGATCAACAACG 60.181 43.478 0.00 0.00 0.00 4.10
3951 7721 5.682862 GCAGCACATGTTATATTGTAAGCAC 59.317 40.000 0.00 0.00 0.00 4.40
3964 7734 1.036707 TAAGCACCAACAAGGCAACC 58.963 50.000 0.00 0.00 43.14 3.77
3969 7739 0.539669 ACCAACAAGGCAACCCTAGC 60.540 55.000 0.00 0.00 41.90 3.42
3971 7741 0.883833 CAACAAGGCAACCCTAGCAG 59.116 55.000 0.00 0.00 41.90 4.24
3982 7752 1.414919 ACCCTAGCAGAAACAACACGA 59.585 47.619 0.00 0.00 0.00 4.35
4001 7772 0.668535 AGGCAAACTCAAAAGTCGCC 59.331 50.000 9.72 9.72 33.48 5.54
4006 7777 1.784525 AACTCAAAAGTCGCCGAGAG 58.215 50.000 0.00 0.00 33.48 3.20
4013 7784 1.806461 AAGTCGCCGAGAGAGCACAA 61.806 55.000 0.00 0.00 0.00 3.33
4023 7794 3.198068 GAGAGAGCACAACAACAACAGA 58.802 45.455 0.00 0.00 0.00 3.41
4029 7800 3.119495 AGCACAACAACAACAGAAAGTCC 60.119 43.478 0.00 0.00 0.00 3.85
4063 7834 1.617018 GGGGTACGTAGGGTTCCACC 61.617 65.000 0.00 0.00 37.80 4.61
4069 7840 0.035439 CGTAGGGTTCCACCAGCAAT 60.035 55.000 0.00 0.00 41.02 3.56
4073 7844 0.038166 GGGTTCCACCAGCAATGAGA 59.962 55.000 0.00 0.00 41.02 3.27
4123 7894 6.317642 TCCAATACCCAACATTATGAGTTTCG 59.682 38.462 0.00 0.00 0.00 3.46
4149 7920 4.884668 TGACGGATCTAACCAAAAGTCT 57.115 40.909 0.00 0.00 0.00 3.24
4150 7921 4.566004 TGACGGATCTAACCAAAAGTCTG 58.434 43.478 0.00 0.00 0.00 3.51
4151 7922 4.039973 TGACGGATCTAACCAAAAGTCTGT 59.960 41.667 0.00 0.00 0.00 3.41
4152 7923 5.244402 TGACGGATCTAACCAAAAGTCTGTA 59.756 40.000 0.00 0.00 0.00 2.74
4153 7924 5.721232 ACGGATCTAACCAAAAGTCTGTAG 58.279 41.667 0.00 0.00 0.00 2.74
4154 7925 4.567159 CGGATCTAACCAAAAGTCTGTAGC 59.433 45.833 0.00 0.00 0.00 3.58
4155 7926 4.567159 GGATCTAACCAAAAGTCTGTAGCG 59.433 45.833 0.00 0.00 0.00 4.26
4156 7927 4.859304 TCTAACCAAAAGTCTGTAGCGA 57.141 40.909 0.00 0.00 0.00 4.93
4157 7928 5.401531 TCTAACCAAAAGTCTGTAGCGAT 57.598 39.130 0.00 0.00 0.00 4.58
4158 7929 5.408356 TCTAACCAAAAGTCTGTAGCGATC 58.592 41.667 0.00 0.00 0.00 3.69
4159 7930 3.678056 ACCAAAAGTCTGTAGCGATCA 57.322 42.857 0.00 0.00 0.00 2.92
4160 7931 3.589988 ACCAAAAGTCTGTAGCGATCAG 58.410 45.455 0.00 0.00 0.00 2.90
4161 7932 3.258372 ACCAAAAGTCTGTAGCGATCAGA 59.742 43.478 0.00 4.85 39.25 3.27
4166 7937 2.420058 TCTGTAGCGATCAGACCTCA 57.580 50.000 0.00 0.00 37.07 3.86
4167 7938 2.723273 TCTGTAGCGATCAGACCTCAA 58.277 47.619 0.00 0.00 37.07 3.02
4168 7939 3.089284 TCTGTAGCGATCAGACCTCAAA 58.911 45.455 0.00 0.00 37.07 2.69
4169 7940 3.119459 TCTGTAGCGATCAGACCTCAAAC 60.119 47.826 0.00 0.00 37.07 2.93
4170 7941 2.560981 TGTAGCGATCAGACCTCAAACA 59.439 45.455 0.00 0.00 0.00 2.83
4171 7942 2.376808 AGCGATCAGACCTCAAACAG 57.623 50.000 0.00 0.00 0.00 3.16
4172 7943 1.620819 AGCGATCAGACCTCAAACAGT 59.379 47.619 0.00 0.00 0.00 3.55
4173 7944 1.996191 GCGATCAGACCTCAAACAGTC 59.004 52.381 0.00 0.00 0.00 3.51
4174 7945 2.353208 GCGATCAGACCTCAAACAGTCT 60.353 50.000 0.00 0.00 44.12 3.24
4180 7951 4.799564 AGACCTCAAACAGTCTGATCTC 57.200 45.455 6.91 0.00 41.74 2.75
4181 7952 4.415596 AGACCTCAAACAGTCTGATCTCT 58.584 43.478 6.91 0.00 41.74 3.10
4182 7953 4.220382 AGACCTCAAACAGTCTGATCTCTG 59.780 45.833 6.91 10.09 41.74 3.35
4183 7954 3.900601 ACCTCAAACAGTCTGATCTCTGT 59.099 43.478 6.91 11.07 45.21 3.41
4184 7955 4.244066 CCTCAAACAGTCTGATCTCTGTG 58.756 47.826 6.91 7.82 42.95 3.66
4185 7956 3.657634 TCAAACAGTCTGATCTCTGTGC 58.342 45.455 6.91 0.00 42.95 4.57
4186 7957 3.323115 TCAAACAGTCTGATCTCTGTGCT 59.677 43.478 6.91 7.14 42.95 4.40
4187 7958 3.591196 AACAGTCTGATCTCTGTGCTC 57.409 47.619 6.91 0.00 42.95 4.26
4188 7959 1.824230 ACAGTCTGATCTCTGTGCTCC 59.176 52.381 6.91 0.00 42.30 4.70
4189 7960 1.102154 AGTCTGATCTCTGTGCTCCG 58.898 55.000 0.00 0.00 0.00 4.63
4190 7961 0.102120 GTCTGATCTCTGTGCTCCGG 59.898 60.000 0.00 0.00 0.00 5.14
4191 7962 0.323816 TCTGATCTCTGTGCTCCGGT 60.324 55.000 0.00 0.00 0.00 5.28
4192 7963 0.179116 CTGATCTCTGTGCTCCGGTG 60.179 60.000 0.00 0.00 0.00 4.94
4193 7964 0.900182 TGATCTCTGTGCTCCGGTGT 60.900 55.000 0.00 0.00 0.00 4.16
4194 7965 0.179124 GATCTCTGTGCTCCGGTGTC 60.179 60.000 0.00 0.00 0.00 3.67
4195 7966 0.900182 ATCTCTGTGCTCCGGTGTCA 60.900 55.000 0.00 2.40 0.00 3.58
4196 7967 0.900182 TCTCTGTGCTCCGGTGTCAT 60.900 55.000 0.00 0.00 0.00 3.06
4197 7968 0.459237 CTCTGTGCTCCGGTGTCATC 60.459 60.000 0.00 0.00 0.00 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 47 3.334751 CAGCACGCACGAAACGGA 61.335 61.111 0.00 0.00 34.00 4.69
72 81 2.747855 CCCCTCAGTTCCTTGCGC 60.748 66.667 0.00 0.00 0.00 6.09
140 149 3.175929 GTTTCACCACAGTTGTTTTCCG 58.824 45.455 0.00 0.00 0.00 4.30
163 172 4.272018 CGTGATGGAGATGTTCAATTCCTC 59.728 45.833 7.22 0.00 0.00 3.71
171 180 1.137872 AGGCTCGTGATGGAGATGTTC 59.862 52.381 0.00 0.00 36.08 3.18
175 184 0.397675 TGGAGGCTCGTGATGGAGAT 60.398 55.000 8.69 0.00 36.08 2.75
216 225 1.067212 GATATCTGTCGCGTTCCCAGT 59.933 52.381 5.77 2.88 0.00 4.00
218 227 1.399714 AGATATCTGTCGCGTTCCCA 58.600 50.000 5.77 0.00 0.00 4.37
271 310 5.542779 GACCCTCATATAATGTGGTGTCTC 58.457 45.833 15.10 2.27 41.22 3.36
274 313 3.071023 CCGACCCTCATATAATGTGGTGT 59.929 47.826 8.05 5.63 41.22 4.16
288 327 2.726822 AAAACGAGGCACCGACCCTC 62.727 60.000 6.32 6.06 44.35 4.30
289 328 2.814835 AAAACGAGGCACCGACCCT 61.815 57.895 6.32 0.00 34.77 4.34
290 329 2.281276 AAAACGAGGCACCGACCC 60.281 61.111 6.32 0.00 0.00 4.46
293 332 0.878523 CTGTCAAAACGAGGCACCGA 60.879 55.000 6.32 0.00 0.00 4.69
294 333 1.157870 ACTGTCAAAACGAGGCACCG 61.158 55.000 0.00 0.00 0.00 4.94
296 335 2.480845 ACTACTGTCAAAACGAGGCAC 58.519 47.619 0.00 0.00 0.00 5.01
297 336 2.902705 ACTACTGTCAAAACGAGGCA 57.097 45.000 0.00 0.00 0.00 4.75
299 338 5.117355 TCACTACTACTGTCAAAACGAGG 57.883 43.478 0.00 0.00 0.00 4.63
300 339 6.641314 ACAATCACTACTACTGTCAAAACGAG 59.359 38.462 0.00 0.00 0.00 4.18
302 341 6.764877 ACAATCACTACTACTGTCAAAACG 57.235 37.500 0.00 0.00 0.00 3.60
305 344 9.639601 CATCTAACAATCACTACTACTGTCAAA 57.360 33.333 0.00 0.00 0.00 2.69
308 347 7.773149 ACCATCTAACAATCACTACTACTGTC 58.227 38.462 0.00 0.00 0.00 3.51
309 348 7.719871 ACCATCTAACAATCACTACTACTGT 57.280 36.000 0.00 0.00 0.00 3.55
310 349 7.707035 GGAACCATCTAACAATCACTACTACTG 59.293 40.741 0.00 0.00 0.00 2.74
311 350 7.399191 TGGAACCATCTAACAATCACTACTACT 59.601 37.037 0.00 0.00 0.00 2.57
312 351 7.553334 TGGAACCATCTAACAATCACTACTAC 58.447 38.462 0.00 0.00 0.00 2.73
314 353 6.440647 TCTGGAACCATCTAACAATCACTACT 59.559 38.462 0.00 0.00 0.00 2.57
315 354 6.640518 TCTGGAACCATCTAACAATCACTAC 58.359 40.000 0.00 0.00 0.00 2.73
316 355 6.867519 TCTGGAACCATCTAACAATCACTA 57.132 37.500 0.00 0.00 0.00 2.74
317 356 5.762179 TCTGGAACCATCTAACAATCACT 57.238 39.130 0.00 0.00 0.00 3.41
318 357 6.825721 AGATTCTGGAACCATCTAACAATCAC 59.174 38.462 0.00 0.00 0.00 3.06
319 358 6.962182 AGATTCTGGAACCATCTAACAATCA 58.038 36.000 0.00 0.00 0.00 2.57
320 359 6.201806 CGAGATTCTGGAACCATCTAACAATC 59.798 42.308 0.00 0.00 0.00 2.67
321 360 6.051717 CGAGATTCTGGAACCATCTAACAAT 58.948 40.000 0.00 0.00 0.00 2.71
322 361 5.186992 TCGAGATTCTGGAACCATCTAACAA 59.813 40.000 0.00 0.00 0.00 2.83
323 362 4.709886 TCGAGATTCTGGAACCATCTAACA 59.290 41.667 0.00 0.00 0.00 2.41
324 363 5.263968 TCGAGATTCTGGAACCATCTAAC 57.736 43.478 0.00 0.00 0.00 2.34
325 364 5.363868 ACATCGAGATTCTGGAACCATCTAA 59.636 40.000 2.31 0.00 0.00 2.10
326 365 4.895889 ACATCGAGATTCTGGAACCATCTA 59.104 41.667 2.31 0.00 0.00 1.98
327 366 3.708631 ACATCGAGATTCTGGAACCATCT 59.291 43.478 2.31 0.00 0.00 2.90
328 367 4.065321 ACATCGAGATTCTGGAACCATC 57.935 45.455 2.31 0.00 0.00 3.51
329 368 5.614324 TTACATCGAGATTCTGGAACCAT 57.386 39.130 2.31 0.00 0.00 3.55
362 401 4.636648 TCGAACTTACAAAGCACCTCAAAA 59.363 37.500 0.00 0.00 0.00 2.44
406 446 8.729756 CCCTTTTCACTTTTGTTTTGAAAATCT 58.270 29.630 8.68 0.00 44.27 2.40
415 455 5.738619 AGTCACCCTTTTCACTTTTGTTT 57.261 34.783 0.00 0.00 0.00 2.83
418 458 4.142469 ACGAAGTCACCCTTTTCACTTTTG 60.142 41.667 0.00 0.00 29.74 2.44
421 461 3.277142 ACGAAGTCACCCTTTTCACTT 57.723 42.857 0.00 0.00 29.74 3.16
483 523 3.079578 AGCATCGAATTGGGCAGATATG 58.920 45.455 0.00 0.00 0.00 1.78
598 639 2.501723 TCTCCTAATCCACACTTGCCTC 59.498 50.000 0.00 0.00 0.00 4.70
627 668 1.833787 GACGGGTCTAGTTTGGCCCA 61.834 60.000 0.00 0.00 41.11 5.36
644 685 3.827302 TGACTTGGTGGAGAAGTCTAGAC 59.173 47.826 15.41 15.41 46.42 2.59
714 755 0.110192 GCGCGGTTTCTTCTTTCAGG 60.110 55.000 8.83 0.00 0.00 3.86
715 756 0.451135 CGCGCGGTTTCTTCTTTCAG 60.451 55.000 24.84 0.00 0.00 3.02
717 758 0.442699 ATCGCGCGGTTTCTTCTTTC 59.557 50.000 31.69 0.00 0.00 2.62
718 759 0.442699 GATCGCGCGGTTTCTTCTTT 59.557 50.000 31.69 1.78 0.00 2.52
719 760 1.683790 CGATCGCGCGGTTTCTTCTT 61.684 55.000 31.69 3.44 0.00 2.52
788 835 0.692756 GGAAGGAAGAGGAGGGAGGG 60.693 65.000 0.00 0.00 0.00 4.30
789 836 1.045911 CGGAAGGAAGAGGAGGGAGG 61.046 65.000 0.00 0.00 0.00 4.30
790 837 1.681486 GCGGAAGGAAGAGGAGGGAG 61.681 65.000 0.00 0.00 0.00 4.30
941 989 2.885644 ACCGTCGATGATGCGTGC 60.886 61.111 6.11 0.00 0.00 5.34
1233 1301 1.227674 GAACTCCCTGCCGCCATAG 60.228 63.158 0.00 0.00 0.00 2.23
1508 1613 1.891150 GGTAGAACTTGTCCGTCTCCA 59.109 52.381 0.00 0.00 0.00 3.86
1826 2813 2.599281 TCCGAACTGACCTGGCGA 60.599 61.111 0.00 0.00 0.00 5.54
2141 3131 4.832823 TGATGTGGTGATGTCTACGGATAT 59.167 41.667 0.00 0.00 0.00 1.63
2147 3137 6.932356 ATCAATTGATGTGGTGATGTCTAC 57.068 37.500 20.11 0.00 32.68 2.59
2149 3139 5.359009 GGAATCAATTGATGTGGTGATGTCT 59.641 40.000 21.39 1.18 34.49 3.41
2238 3228 4.286910 TGTCGTTTATGCAAGCTTGTTTC 58.713 39.130 26.55 11.58 0.00 2.78
2241 3231 2.878406 ACTGTCGTTTATGCAAGCTTGT 59.122 40.909 26.55 11.36 0.00 3.16
2323 3341 7.564793 TCTAGCTAGCAGGAAACATGATTTAA 58.435 34.615 18.83 0.00 0.00 1.52
2343 3361 3.735237 TTTCATCATCCGGACTCTAGC 57.265 47.619 6.12 0.00 0.00 3.42
2591 3612 2.886523 TCATGTCCTTGCTCCAAACAAG 59.113 45.455 0.00 0.00 43.36 3.16
2664 3686 1.728971 CTCACGAACCTTGCATCTGAC 59.271 52.381 0.00 0.00 0.00 3.51
2685 3708 1.926511 GCACCAATTCAGACAGGGCG 61.927 60.000 0.00 0.00 0.00 6.13
2736 3759 5.333263 CCAAAAATTTCAACGAGCAATGACC 60.333 40.000 0.00 0.00 0.00 4.02
2744 3767 5.234116 CCTGAAACCCAAAAATTTCAACGAG 59.766 40.000 0.00 0.00 42.62 4.18
2754 3777 3.509575 CCGATGATCCTGAAACCCAAAAA 59.490 43.478 0.00 0.00 0.00 1.94
2814 3837 1.779061 CGTCGGAAACATGTCACGG 59.221 57.895 14.19 9.23 0.00 4.94
2883 3906 0.617820 AGCGATTGTAGGTCCCCTGT 60.618 55.000 0.00 0.00 34.61 4.00
2922 3945 3.065648 GTGAAGAACTAGGACTAGGCGAG 59.934 52.174 10.81 0.00 37.49 5.03
2938 3961 2.415168 GCCGTCGAAATGAATGTGAAGA 59.585 45.455 0.00 0.00 0.00 2.87
3043 4068 0.040603 GTCTGTGCTTCAGTGCTTGC 60.041 55.000 8.75 0.00 43.97 4.01
3249 4274 1.152118 TACCACCTCACCACCAGCT 60.152 57.895 0.00 0.00 0.00 4.24
3364 4389 7.223584 TCTATGTCCTTGAGATCAACAACAAA 58.776 34.615 0.00 0.00 32.45 2.83
3366 4391 6.358974 TCTATGTCCTTGAGATCAACAACA 57.641 37.500 0.00 7.39 32.91 3.33
3382 4407 1.117150 TGCCGTAACCCCTCTATGTC 58.883 55.000 0.00 0.00 0.00 3.06
3470 4497 4.158579 TCAGTCTGTACAGATTGCAGGTAG 59.841 45.833 32.56 15.43 42.66 3.18
3562 4589 8.768957 ATGAGATGTCAATGGTATTTCGATAG 57.231 34.615 0.00 0.00 35.88 2.08
3612 4639 7.005296 ACCGGTTATCTTCTACTGTATCAGAT 58.995 38.462 0.00 11.52 35.18 2.90
3635 4818 1.303561 TCACTCAATGCAGGCCACC 60.304 57.895 5.01 0.00 0.00 4.61
3643 4826 1.128507 TGAATTCGCGTCACTCAATGC 59.871 47.619 5.77 0.00 0.00 3.56
3648 4831 2.941891 TTGTTGAATTCGCGTCACTC 57.058 45.000 5.77 0.00 0.00 3.51
3672 4855 4.211164 TCGCATCAATGATTCGGTACATTC 59.789 41.667 14.54 0.00 35.01 2.67
3708 4891 8.406297 GGATCAAAGTTTGGGTCTTATGATAAC 58.594 37.037 15.47 0.00 30.76 1.89
3712 4895 5.886609 TGGATCAAAGTTTGGGTCTTATGA 58.113 37.500 15.47 0.00 0.00 2.15
3722 4905 7.452880 TCCTTGTAGATTGGATCAAAGTTTG 57.547 36.000 9.44 9.44 0.00 2.93
3728 4911 6.834168 GGTTTTCCTTGTAGATTGGATCAA 57.166 37.500 0.00 0.00 36.94 2.57
3743 4926 8.367911 GATCAATTTTTGGTCTTAGGTTTTCCT 58.632 33.333 0.00 0.00 44.17 3.36
3745 4928 8.147704 TGGATCAATTTTTGGTCTTAGGTTTTC 58.852 33.333 0.00 0.00 40.64 2.29
3750 7519 8.071177 AGATTGGATCAATTTTTGGTCTTAGG 57.929 34.615 0.00 0.00 40.64 2.69
3763 7532 7.775093 TCGATTTTCCTTGTAGATTGGATCAAT 59.225 33.333 0.00 0.00 36.72 2.57
3772 7541 5.080969 TCGGTTCGATTTTCCTTGTAGAT 57.919 39.130 0.00 0.00 0.00 1.98
3786 7555 0.460722 TGTGTGGTTTCTCGGTTCGA 59.539 50.000 0.00 0.00 0.00 3.71
3795 7564 0.954452 CCCTTCAGCTGTGTGGTTTC 59.046 55.000 14.67 0.00 0.00 2.78
3825 7594 1.286553 TGGGGTGTTCACCTGTTTTCT 59.713 47.619 19.42 0.00 38.13 2.52
3840 7609 5.735733 TGGGTTGTAAATATGTATGGGGT 57.264 39.130 0.00 0.00 0.00 4.95
3844 7613 9.352784 CTTTGTGTTGGGTTGTAAATATGTATG 57.647 33.333 0.00 0.00 0.00 2.39
3901 7670 4.703093 CACCCAATAACGTATTCCTTTGGT 59.297 41.667 0.00 0.00 33.38 3.67
3913 7683 0.676466 TGCTGCTCCACCCAATAACG 60.676 55.000 0.00 0.00 0.00 3.18
3915 7685 0.403655 TGTGCTGCTCCACCCAATAA 59.596 50.000 0.00 0.00 34.85 1.40
3921 7691 1.755179 ATAACATGTGCTGCTCCACC 58.245 50.000 0.00 0.00 34.85 4.61
3951 7721 0.539438 TGCTAGGGTTGCCTTGTTGG 60.539 55.000 0.00 0.00 39.35 3.77
3964 7734 2.069273 CCTCGTGTTGTTTCTGCTAGG 58.931 52.381 0.00 0.00 0.00 3.02
3969 7739 2.097466 AGTTTGCCTCGTGTTGTTTCTG 59.903 45.455 0.00 0.00 0.00 3.02
3971 7741 2.096819 TGAGTTTGCCTCGTGTTGTTTC 59.903 45.455 0.00 0.00 43.64 2.78
3982 7752 0.668535 GGCGACTTTTGAGTTTGCCT 59.331 50.000 13.29 0.00 39.20 4.75
4001 7772 1.933181 TGTTGTTGTTGTGCTCTCTCG 59.067 47.619 0.00 0.00 0.00 4.04
4006 7777 4.096732 ACTTTCTGTTGTTGTTGTGCTC 57.903 40.909 0.00 0.00 0.00 4.26
4013 7784 3.829601 TGGTTTGGACTTTCTGTTGTTGT 59.170 39.130 0.00 0.00 0.00 3.32
4023 7794 4.404394 CCCTTTGTTAGTGGTTTGGACTTT 59.596 41.667 0.00 0.00 0.00 2.66
4029 7800 3.251487 CGTACCCCTTTGTTAGTGGTTTG 59.749 47.826 0.00 0.00 35.99 2.93
4063 7834 2.876091 CAATGGTGCTTCTCATTGCTG 58.124 47.619 0.00 0.00 42.14 4.41
4123 7894 5.411669 ACTTTTGGTTAGATCCGTCAACATC 59.588 40.000 0.00 0.00 0.00 3.06
4131 7902 4.567159 GCTACAGACTTTTGGTTAGATCCG 59.433 45.833 0.00 0.00 0.00 4.18
4149 7920 2.560981 TGTTTGAGGTCTGATCGCTACA 59.439 45.455 0.00 0.00 0.00 2.74
4150 7921 3.182967 CTGTTTGAGGTCTGATCGCTAC 58.817 50.000 0.00 0.00 0.00 3.58
4151 7922 2.826128 ACTGTTTGAGGTCTGATCGCTA 59.174 45.455 0.00 0.00 0.00 4.26
4152 7923 1.620819 ACTGTTTGAGGTCTGATCGCT 59.379 47.619 0.00 0.00 0.00 4.93
4153 7924 1.996191 GACTGTTTGAGGTCTGATCGC 59.004 52.381 0.00 0.00 0.00 4.58
4154 7925 3.584406 AGACTGTTTGAGGTCTGATCG 57.416 47.619 0.00 0.00 40.71 3.69
4159 7930 4.220382 CAGAGATCAGACTGTTTGAGGTCT 59.780 45.833 7.14 5.79 42.67 3.85
4160 7931 4.021544 ACAGAGATCAGACTGTTTGAGGTC 60.022 45.833 7.14 6.02 43.52 3.85
4161 7932 3.900601 ACAGAGATCAGACTGTTTGAGGT 59.099 43.478 7.14 0.00 43.52 3.85
4162 7933 4.244066 CACAGAGATCAGACTGTTTGAGG 58.756 47.826 14.43 3.77 43.52 3.86
4163 7934 3.679025 GCACAGAGATCAGACTGTTTGAG 59.321 47.826 14.43 7.51 43.52 3.02
4164 7935 3.323115 AGCACAGAGATCAGACTGTTTGA 59.677 43.478 14.43 3.32 43.52 2.69
4165 7936 3.661944 AGCACAGAGATCAGACTGTTTG 58.338 45.455 14.43 8.32 43.52 2.93
4166 7937 3.306641 GGAGCACAGAGATCAGACTGTTT 60.307 47.826 14.43 8.45 43.52 2.83
4167 7938 2.233431 GGAGCACAGAGATCAGACTGTT 59.767 50.000 14.43 0.00 43.52 3.16
4168 7939 1.824230 GGAGCACAGAGATCAGACTGT 59.176 52.381 12.25 12.25 46.32 3.55
4169 7940 1.202279 CGGAGCACAGAGATCAGACTG 60.202 57.143 11.24 11.24 39.65 3.51
4170 7941 1.102154 CGGAGCACAGAGATCAGACT 58.898 55.000 0.00 0.00 33.23 3.24
4171 7942 0.102120 CCGGAGCACAGAGATCAGAC 59.898 60.000 0.00 0.00 33.23 3.51
4172 7943 0.323816 ACCGGAGCACAGAGATCAGA 60.324 55.000 9.46 0.00 33.23 3.27
4173 7944 0.179116 CACCGGAGCACAGAGATCAG 60.179 60.000 9.46 0.00 33.23 2.90
4174 7945 0.900182 ACACCGGAGCACAGAGATCA 60.900 55.000 9.46 0.00 33.23 2.92
4175 7946 0.179124 GACACCGGAGCACAGAGATC 60.179 60.000 9.46 0.00 0.00 2.75
4176 7947 0.900182 TGACACCGGAGCACAGAGAT 60.900 55.000 9.46 0.00 0.00 2.75
4177 7948 0.900182 ATGACACCGGAGCACAGAGA 60.900 55.000 9.46 0.00 0.00 3.10
4178 7949 0.459237 GATGACACCGGAGCACAGAG 60.459 60.000 9.46 0.00 0.00 3.35
4179 7950 1.591703 GATGACACCGGAGCACAGA 59.408 57.895 9.46 0.00 0.00 3.41
4180 7951 4.192000 GATGACACCGGAGCACAG 57.808 61.111 9.46 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.