Multiple sequence alignment - TraesCS1A01G213800

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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 TraesCS1A01G213800 chr1A 100.000 6741 0 0 1 6741 377021178 377014438 0.000000e+00 12449.0
1 TraesCS1A01G213800 chr1B 95.483 6310 201 46 304 6569 409251660 409245391 0.000000e+00 9997.0
2 TraesCS1A01G213800 chr1B 88.202 178 21 0 78 255 409251853 409251676 5.300000e-51 213.0
3 TraesCS1A01G213800 chr1B 90.000 50 4 1 6514 6563 683517663 683517711 5.640000e-06 63.9
4 TraesCS1A01G213800 chr1D 96.732 4927 144 12 1399 6320 302382443 302377529 0.000000e+00 8191.0
5 TraesCS1A01G213800 chr1D 88.506 1392 100 24 2 1382 302383869 302382527 0.000000e+00 1629.0
6 TraesCS1A01G213800 chr1D 88.182 220 11 9 6350 6556 302377530 302377313 1.450000e-61 248.0
7 TraesCS1A01G213800 chr1D 94.304 158 9 0 6570 6727 121405427 121405270 6.750000e-60 243.0
8 TraesCS1A01G213800 chr1D 97.674 43 1 0 2973 3015 344135216 344135258 2.610000e-09 75.0
9 TraesCS1A01G213800 chr6B 92.442 1204 83 5 1395 2598 346733574 346732379 0.000000e+00 1712.0
10 TraesCS1A01G213800 chr6B 92.793 333 17 5 2594 2922 346711766 346711437 6.120000e-130 475.0
11 TraesCS1A01G213800 chr6B 92.357 314 23 1 2950 3263 346626891 346626579 4.800000e-121 446.0
12 TraesCS1A01G213800 chr6B 94.118 187 11 0 3296 3482 346625970 346625784 1.110000e-72 285.0
13 TraesCS1A01G213800 chr6B 94.488 127 7 0 3473 3599 346625523 346625397 5.330000e-46 196.0
14 TraesCS1A01G213800 chr6B 93.056 72 3 2 4319 4389 346625406 346625336 3.330000e-18 104.0
15 TraesCS1A01G213800 chr7A 88.391 379 44 0 1924 2302 529327642 529328020 2.220000e-124 457.0
16 TraesCS1A01G213800 chr7A 90.521 211 20 0 993 1203 529325852 529326062 5.150000e-71 279.0
17 TraesCS1A01G213800 chr7A 93.827 162 10 0 6566 6727 443397628 443397789 1.880000e-60 244.0
18 TraesCS1A01G213800 chr7A 80.727 275 42 8 2424 2694 529328578 529328845 3.190000e-48 204.0
19 TraesCS1A01G213800 chr7A 93.023 43 3 0 6514 6556 566510555 566510597 5.640000e-06 63.9
20 TraesCS1A01G213800 chr7D 88.889 369 37 4 1936 2302 469841752 469841386 1.030000e-122 451.0
21 TraesCS1A01G213800 chr7D 90.476 210 19 1 994 1203 469843633 469843425 6.660000e-70 276.0
22 TraesCS1A01G213800 chr7B 88.556 367 42 0 1936 2302 493525205 493524839 4.800000e-121 446.0
23 TraesCS1A01G213800 chr7B 90.952 210 18 1 994 1203 493527076 493526868 1.430000e-71 281.0
24 TraesCS1A01G213800 chr7B 81.818 275 39 8 2424 2694 493524241 493523974 3.160000e-53 220.0
25 TraesCS1A01G213800 chr7B 97.959 49 1 0 2973 3021 685247160 685247208 1.200000e-12 86.1
26 TraesCS1A01G213800 chr7B 93.182 44 3 0 2973 3016 452157669 452157712 1.570000e-06 65.8
27 TraesCS1A01G213800 chr4D 95.570 158 7 0 6570 6727 93336848 93336691 3.120000e-63 254.0
28 TraesCS1A01G213800 chr4D 93.293 164 11 0 6565 6728 124787797 124787634 6.750000e-60 243.0
29 TraesCS1A01G213800 chr4D 91.489 47 4 0 4274 4320 465607302 465607256 1.570000e-06 65.8
30 TraesCS1A01G213800 chr5D 94.937 158 8 0 6570 6727 5112186 5112343 1.450000e-61 248.0
31 TraesCS1A01G213800 chr5D 94.304 158 9 0 6570 6727 42949560 42949717 6.750000e-60 243.0
32 TraesCS1A01G213800 chr5D 100.000 35 0 0 6315 6349 359045911 359045945 1.570000e-06 65.8
33 TraesCS1A01G213800 chr6D 94.304 158 9 0 6570 6727 324602407 324602564 6.750000e-60 243.0
34 TraesCS1A01G213800 chr3D 94.304 158 9 0 6570 6727 22383437 22383594 6.750000e-60 243.0
35 TraesCS1A01G213800 chr3D 88.525 61 7 0 4263 4323 556952218 556952158 2.610000e-09 75.0
36 TraesCS1A01G213800 chr3D 93.333 45 3 0 2972 3016 115025304 115025348 4.360000e-07 67.6
37 TraesCS1A01G213800 chr3D 90.385 52 4 1 4274 4325 583611374 583611324 4.360000e-07 67.6
38 TraesCS1A01G213800 chr3D 93.023 43 3 0 6514 6556 281309258 281309300 5.640000e-06 63.9
39 TraesCS1A01G213800 chr2D 93.865 163 7 3 6568 6727 395175087 395175249 6.750000e-60 243.0
40 TraesCS1A01G213800 chr2D 90.000 50 4 1 6514 6563 481966498 481966546 5.640000e-06 63.9
41 TraesCS1A01G213800 chr2B 97.872 47 1 0 2973 3019 281874137 281874091 1.560000e-11 82.4
42 TraesCS1A01G213800 chr2B 92.000 50 3 1 6514 6563 768349477 768349525 1.210000e-07 69.4
43 TraesCS1A01G213800 chr2B 91.667 48 4 0 4274 4321 777628045 777627998 4.360000e-07 67.6
44 TraesCS1A01G213800 chr2B 90.000 50 4 1 6514 6563 768373674 768373722 5.640000e-06 63.9
45 TraesCS1A01G213800 chr4A 97.778 45 1 0 2974 3018 744387367 744387323 2.020000e-10 78.7
46 TraesCS1A01G213800 chr3B 90.741 54 5 0 4274 4327 157768303 157768250 9.380000e-09 73.1
47 TraesCS1A01G213800 chr5B 88.889 54 6 0 4268 4321 319332950 319333003 4.360000e-07 67.6
48 TraesCS1A01G213800 chr3A 89.091 55 5 1 4268 4321 605881365 605881419 4.360000e-07 67.6
49 TraesCS1A01G213800 chr4B 93.023 43 3 0 6514 6556 547183677 547183719 5.640000e-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 TraesCS1A01G213800 chr1A 377014438 377021178 6740 True 12449.000000 12449 100.000000 1 6741 1 chr1A.!!$R1 6740
1 TraesCS1A01G213800 chr1B 409245391 409251853 6462 True 5105.000000 9997 91.842500 78 6569 2 chr1B.!!$R1 6491
2 TraesCS1A01G213800 chr1D 302377313 302383869 6556 True 3356.000000 8191 91.140000 2 6556 3 chr1D.!!$R2 6554
3 TraesCS1A01G213800 chr6B 346732379 346733574 1195 True 1712.000000 1712 92.442000 1395 2598 1 chr6B.!!$R2 1203
4 TraesCS1A01G213800 chr6B 346625336 346626891 1555 True 257.750000 446 93.504750 2950 4389 4 chr6B.!!$R3 1439
5 TraesCS1A01G213800 chr7A 529325852 529328845 2993 False 313.333333 457 86.546333 993 2694 3 chr7A.!!$F3 1701
6 TraesCS1A01G213800 chr7D 469841386 469843633 2247 True 363.500000 451 89.682500 994 2302 2 chr7D.!!$R1 1308
7 TraesCS1A01G213800 chr7B 493523974 493527076 3102 True 315.666667 446 87.108667 994 2694 3 chr7B.!!$R1 1700

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
296 297 0.317799 TGCCCAATGACATGTGTTGC 59.682 50.000 1.15 0.00 0.00 4.17 F
350 351 0.393820 ACGCGGGGTCTTCTTTTGTA 59.606 50.000 12.47 0.00 0.00 2.41 F
1206 1233 2.351447 CGACGTCACCATCAGTAACTGT 60.351 50.000 17.16 0.00 32.61 3.55 F
2253 3268 1.291184 CGATGCGTGGACAAGAGCAA 61.291 55.000 3.26 0.00 43.19 3.91 F
3356 5463 0.319297 CTTTGCTGAAACAGGCTGGC 60.319 55.000 20.34 12.43 31.21 4.85 F
4398 6780 0.466372 TGTTCCGCACCCAATTGTCA 60.466 50.000 4.43 0.00 0.00 3.58 F
5554 7945 1.332686 CATGCATGTGATTCTGACCGG 59.667 52.381 18.91 0.00 0.00 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1206 1233 0.827925 AGTGAGAGAGTGCGGTGGAA 60.828 55.000 0.00 0.0 0.0 3.53 R
2043 3058 1.497286 AGCTTCCCACCAACTTTACCA 59.503 47.619 0.00 0.0 0.0 3.25 R
3062 4592 0.944386 CAAGTCACCCTCACAAACCG 59.056 55.000 0.00 0.0 0.0 4.44 R
3629 6010 0.608035 CCGTTCTTTAGCTTGGCCCA 60.608 55.000 0.00 0.0 0.0 5.36 R
4971 7361 0.170339 GAGCCGCCACCATAAACAAC 59.830 55.000 0.00 0.0 0.0 3.32 R
5716 8107 0.179171 ACTCTGACGGCGTGATAACG 60.179 55.000 21.19 0.0 0.0 3.18 R
6670 9113 1.269723 CAAGTGACTACAGACGGAGCA 59.730 52.381 0.00 0.0 0.0 4.26 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
39 40 0.824109 CGAAGCATAGGACCACCTCA 59.176 55.000 0.00 0.00 46.43 3.86
47 48 2.584608 GACCACCTCACCATCGGG 59.415 66.667 0.00 0.00 41.29 5.14
48 49 3.682292 GACCACCTCACCATCGGGC 62.682 68.421 0.00 0.00 37.90 6.13
50 51 4.838152 CACCTCACCATCGGGCGG 62.838 72.222 0.00 0.00 37.90 6.13
52 53 4.227134 CCTCACCATCGGGCGGAG 62.227 72.222 0.20 0.00 38.18 4.63
102 103 2.690881 TAAGCCCCCACATCGCCT 60.691 61.111 0.00 0.00 0.00 5.52
139 140 0.593128 AACATTCGCCAGAGCAACAC 59.407 50.000 0.00 0.00 39.83 3.32
150 151 0.823356 GAGCAACACTCCAAGGGCAA 60.823 55.000 0.00 0.00 39.75 4.52
169 170 1.189524 ATCCCACGAACCAAGGTCGA 61.190 55.000 9.32 0.00 0.00 4.20
243 244 4.213482 GCGTGAGAAACAAATCCAGTAACT 59.787 41.667 0.00 0.00 0.00 2.24
255 256 1.148310 CAGTAACTGTCAACCGCCAG 58.852 55.000 0.00 0.00 34.82 4.85
293 294 1.001181 GCTTTGCCCAATGACATGTGT 59.999 47.619 1.15 0.00 0.00 3.72
294 295 2.548493 GCTTTGCCCAATGACATGTGTT 60.548 45.455 1.15 0.00 0.00 3.32
296 297 0.317799 TGCCCAATGACATGTGTTGC 59.682 50.000 1.15 0.00 0.00 4.17
297 298 0.604578 GCCCAATGACATGTGTTGCT 59.395 50.000 1.15 0.00 0.00 3.91
298 299 1.001181 GCCCAATGACATGTGTTGCTT 59.999 47.619 1.15 0.00 0.00 3.91
299 300 2.679450 CCCAATGACATGTGTTGCTTG 58.321 47.619 1.15 0.00 0.00 4.01
328 329 3.718815 GATTAGGGTTTTCGCTCGAGAT 58.281 45.455 18.75 0.00 42.98 2.75
350 351 0.393820 ACGCGGGGTCTTCTTTTGTA 59.606 50.000 12.47 0.00 0.00 2.41
449 458 3.710722 AGGCTCAGTTCCCCGCAG 61.711 66.667 0.00 0.00 0.00 5.18
480 499 3.055240 AGAGAGGCTCAGTTTGGAGAATG 60.055 47.826 18.26 0.00 37.05 2.67
502 524 7.746243 ATGAATCAGGCTACATATATGGTCT 57.254 36.000 16.96 4.13 0.00 3.85
503 525 8.844865 ATGAATCAGGCTACATATATGGTCTA 57.155 34.615 16.96 0.06 0.00 2.59
504 526 8.067751 TGAATCAGGCTACATATATGGTCTAC 57.932 38.462 16.96 3.61 0.00 2.59
1206 1233 2.351447 CGACGTCACCATCAGTAACTGT 60.351 50.000 17.16 0.00 32.61 3.55
1239 1266 4.787280 CACTCCCCTCCCCGCTCT 62.787 72.222 0.00 0.00 0.00 4.09
1258 1285 2.697751 TCTGCTTCCTGATCTTAGCCTC 59.302 50.000 0.00 0.00 32.73 4.70
1267 1294 3.445008 TGATCTTAGCCTCACCTGTTCT 58.555 45.455 0.00 0.00 0.00 3.01
1547 1855 2.694628 TGACAACCAGATTGCAAAGCTT 59.305 40.909 1.71 0.00 41.66 3.74
1664 1972 2.496070 ACTGCTAGAGCGTGGTATTCAA 59.504 45.455 0.00 0.00 45.83 2.69
1721 2029 5.431765 TCCAAGATAGCTTTTGATCACCTC 58.568 41.667 0.00 0.00 30.14 3.85
1815 2123 5.060662 TCTGTCCTCAAAGATGTAAGTCG 57.939 43.478 0.00 0.00 0.00 4.18
2190 3205 2.039462 GAGCCCCCAAAGCCCAAT 59.961 61.111 0.00 0.00 0.00 3.16
2253 3268 1.291184 CGATGCGTGGACAAGAGCAA 61.291 55.000 3.26 0.00 43.19 3.91
2352 3367 4.810491 AGTCATGATTTTGCGCAAAGTTTT 59.190 33.333 31.88 19.52 0.00 2.43
2353 3368 5.294060 AGTCATGATTTTGCGCAAAGTTTTT 59.706 32.000 31.88 17.27 0.00 1.94
2454 3984 5.786401 GTGCAACCTTAGTTATCTGTCAG 57.214 43.478 0.00 0.00 33.27 3.51
2587 4117 2.234168 GAGTACCTCTCCTTGTGAACCC 59.766 54.545 0.00 0.00 37.22 4.11
2707 4237 2.034179 GGTACAACTGGTTTTGTGCTCC 59.966 50.000 0.00 0.00 40.70 4.70
2721 4251 4.630894 TGTGCTCCTTTTTGTACACAAG 57.369 40.909 0.00 0.72 37.15 3.16
2790 4320 3.545703 GATTGGTGCAGGCTGTATAGTT 58.454 45.455 17.16 0.00 0.00 2.24
3041 4571 4.035208 CCAGTAATTGTTAAGATGTCCGCC 59.965 45.833 0.00 0.00 0.00 6.13
3062 4592 3.303132 CCGACTTTAATTAGCCGCATGTC 60.303 47.826 0.00 0.00 0.00 3.06
3356 5463 0.319297 CTTTGCTGAAACAGGCTGGC 60.319 55.000 20.34 12.43 31.21 4.85
3484 5864 9.225436 GTTCCAATGGATAATATCTCTTCCTTC 57.775 37.037 1.39 0.00 0.00 3.46
3485 5865 8.510358 TCCAATGGATAATATCTCTTCCTTCA 57.490 34.615 0.00 0.00 0.00 3.02
3486 5866 9.120658 TCCAATGGATAATATCTCTTCCTTCAT 57.879 33.333 0.00 0.00 0.00 2.57
3506 5887 2.212652 TGTTCGCATGTGCATATCTCC 58.787 47.619 0.00 0.00 42.21 3.71
3627 6008 4.475944 CGGAGCTAGAAACAAATTGTTGG 58.524 43.478 12.50 4.88 40.14 3.77
3629 6010 4.280929 GGAGCTAGAAACAAATTGTTGGGT 59.719 41.667 12.50 8.56 40.14 4.51
3646 6027 0.888619 GGTGGGCCAAGCTAAAGAAC 59.111 55.000 8.40 0.00 34.09 3.01
3648 6029 0.608035 TGGGCCAAGCTAAAGAACGG 60.608 55.000 2.13 0.00 0.00 4.44
3664 6045 3.868661 AGAACGGCAAATGTTTTTCCAAC 59.131 39.130 0.00 0.00 0.00 3.77
3704 6085 5.762179 TCATCAGTACCTTCTGTTCCATT 57.238 39.130 0.00 0.00 36.85 3.16
3840 6221 8.094798 TGAGTCACATACTACAAATTGGTTTC 57.905 34.615 0.00 0.00 39.07 2.78
3939 6320 2.159476 GCTACCACACGAATAGACGACA 60.159 50.000 0.00 0.00 37.03 4.35
4060 6441 2.737376 GGTCGTGGCCTCGTGAAC 60.737 66.667 25.10 16.41 0.00 3.18
4064 6445 4.309950 GTGGCCTCGTGAACCGGT 62.310 66.667 0.00 0.00 37.11 5.28
4128 6509 4.320456 CGGCTGTCTGTGTGGGCT 62.320 66.667 0.00 0.00 0.00 5.19
4375 6757 6.100004 CAGTATCCAGATACGTGACAGTTTT 58.900 40.000 11.21 0.00 46.18 2.43
4398 6780 0.466372 TGTTCCGCACCCAATTGTCA 60.466 50.000 4.43 0.00 0.00 3.58
4633 7018 5.671493 AGTACCTTGTCATACATAACCAGC 58.329 41.667 0.00 0.00 0.00 4.85
4917 7307 1.918262 TGATGATTGAGGAGGCCAAGT 59.082 47.619 5.01 0.00 0.00 3.16
4967 7357 5.645497 GGCTAGAAATCTGATCCGCAATAAT 59.355 40.000 0.00 0.00 0.00 1.28
4971 7361 7.199541 AGAAATCTGATCCGCAATAATTCTG 57.800 36.000 0.00 0.00 0.00 3.02
5109 7499 6.682423 ACAAGATGCAATATCGTTTCATCA 57.318 33.333 0.00 0.00 36.81 3.07
5220 7610 3.242944 CACCTATTGATACGTTGACTGCG 59.757 47.826 0.00 0.00 0.00 5.18
5328 7718 6.169419 TGATGATTCAATGAAACGTCACTC 57.831 37.500 19.69 10.35 36.14 3.51
5342 7732 2.582687 GTCACTCGTCCTTGTACTTCG 58.417 52.381 0.00 0.00 0.00 3.79
5355 7745 2.676839 TGTACTTCGAGTCGGATGAGTC 59.323 50.000 13.54 7.07 40.54 3.36
5376 7766 3.000041 CTGTGCGCAAATCCTAGTGTTA 59.000 45.455 14.00 0.00 0.00 2.41
5381 7771 5.064198 GTGCGCAAATCCTAGTGTTATTGTA 59.936 40.000 14.00 0.00 0.00 2.41
5421 7811 3.357079 CGAGGCCAAGGCACACAC 61.357 66.667 13.87 0.00 44.11 3.82
5455 7846 5.102313 GCTTGCACATCCTACCAATTTTAC 58.898 41.667 0.00 0.00 0.00 2.01
5465 7856 5.125417 TCCTACCAATTTTACTGCTTGATGC 59.875 40.000 0.00 0.00 43.25 3.91
5484 7875 2.948315 TGCCGTCAATGCAGCATATTTA 59.052 40.909 8.75 0.00 34.05 1.40
5527 7918 5.766150 TTTGGATGTCTCGTTTCACATTT 57.234 34.783 0.00 0.00 33.22 2.32
5553 7944 2.011947 ACATGCATGTGATTCTGACCG 58.988 47.619 30.92 0.61 40.03 4.79
5554 7945 1.332686 CATGCATGTGATTCTGACCGG 59.667 52.381 18.91 0.00 0.00 5.28
5633 8024 4.098044 GGACCAACGATATGAGAGAACAGA 59.902 45.833 0.00 0.00 0.00 3.41
5674 8065 4.177165 TGGCAAGCAACAACAGATATTG 57.823 40.909 0.00 0.00 35.59 1.90
5701 8092 5.794687 CAACGCAGGTTGTTAAGATGATA 57.205 39.130 0.00 0.00 46.69 2.15
5713 8104 9.469807 GTTGTTAAGATGATACTCAAGATCGAT 57.530 33.333 0.00 0.00 0.00 3.59
5716 8107 9.123709 GTTAAGATGATACTCAAGATCGATGAC 57.876 37.037 0.54 0.00 0.00 3.06
5843 8234 1.169661 TTGGCCACTTGCTTGTACCG 61.170 55.000 3.88 0.00 40.92 4.02
5887 8278 1.268079 GCTTGCTGAAGACCTTGGTTC 59.732 52.381 0.00 0.00 0.00 3.62
5888 8279 2.856222 CTTGCTGAAGACCTTGGTTCT 58.144 47.619 0.00 0.00 0.00 3.01
5969 8360 3.553511 CGATGCTTAGTGCTTTAGTCTGG 59.446 47.826 0.00 0.00 43.37 3.86
5975 8366 0.960861 GTGCTTTAGTCTGGGTGCCC 60.961 60.000 0.00 0.00 0.00 5.36
5981 8372 1.008403 TAGTCTGGGTGCCCTCTACT 58.992 55.000 8.91 10.86 36.94 2.57
5985 8376 2.103263 GTCTGGGTGCCCTCTACTATTG 59.897 54.545 8.91 0.00 36.94 1.90
5997 8388 9.268268 TGCCCTCTACTATTGTTTATTTATTCG 57.732 33.333 0.00 0.00 0.00 3.34
6026 8417 9.762933 AGTGTACAAATTGCATTTAATCTGTTT 57.237 25.926 0.00 0.00 0.00 2.83
6069 8460 9.929722 TGCAGAAATATGAAAATACACGATAAC 57.070 29.630 0.00 0.00 0.00 1.89
6080 8471 3.040147 ACACGATAACAGGTTGGTCAG 57.960 47.619 0.00 0.00 0.00 3.51
6174 8565 9.855021 ATGAAAAGTTTTTCCCTACAATATTCG 57.145 29.630 13.19 0.00 44.48 3.34
6185 8599 8.129496 TCCCTACAATATTCGCAGAATATACA 57.871 34.615 17.94 9.62 45.90 2.29
6186 8600 8.758829 TCCCTACAATATTCGCAGAATATACAT 58.241 33.333 17.94 11.88 45.90 2.29
6187 8601 9.035607 CCCTACAATATTCGCAGAATATACATC 57.964 37.037 17.94 0.00 45.90 3.06
6188 8602 9.809096 CCTACAATATTCGCAGAATATACATCT 57.191 33.333 17.94 5.82 45.90 2.90
6196 8610 9.935241 ATTCGCAGAATATACATCTAGAATTGT 57.065 29.630 0.00 0.00 45.90 2.71
6197 8611 8.748380 TCGCAGAATATACATCTAGAATTGTG 57.252 34.615 8.90 7.76 0.00 3.33
6198 8612 7.329471 TCGCAGAATATACATCTAGAATTGTGC 59.671 37.037 19.09 19.09 41.08 4.57
6199 8613 7.330454 CGCAGAATATACATCTAGAATTGTGCT 59.670 37.037 23.18 9.90 41.83 4.40
6200 8614 9.645059 GCAGAATATACATCTAGAATTGTGCTA 57.355 33.333 20.66 9.51 41.20 3.49
6205 8619 9.935241 ATATACATCTAGAATTGTGCTAGTTGG 57.065 33.333 8.90 0.00 38.81 3.77
6206 8620 6.054860 ACATCTAGAATTGTGCTAGTTGGT 57.945 37.500 0.00 0.00 38.81 3.67
6207 8621 7.182817 ACATCTAGAATTGTGCTAGTTGGTA 57.817 36.000 0.00 0.00 38.81 3.25
6223 8637 8.552034 GCTAGTTGGTATAATGAACTGAATGTC 58.448 37.037 0.00 0.00 32.27 3.06
6271 8685 0.173029 TGCTGTGCAAACTGGTTGTG 59.827 50.000 7.35 0.00 39.63 3.33
6284 8698 8.810427 GCAAACTGGTTGTGATATATTTCAATG 58.190 33.333 7.35 3.08 39.63 2.82
6290 8704 9.253832 TGGTTGTGATATATTTCAATGAAAGGT 57.746 29.630 14.10 7.55 34.92 3.50
6469 8899 8.103305 ACAACCTCTCATATGAGTTATTGTGTT 58.897 33.333 29.43 20.82 42.60 3.32
6596 9039 9.890915 ACTCTCTCCATTCCTAAATATAAGTCT 57.109 33.333 0.00 0.00 0.00 3.24
6617 9060 9.750125 AAGTCTTTTTAGACATTTCAAATGGAC 57.250 29.630 14.70 8.92 41.02 4.02
6618 9061 9.136323 AGTCTTTTTAGACATTTCAAATGGACT 57.864 29.630 14.70 14.18 41.02 3.85
6623 9066 9.959749 TTTTAGACATTTCAAATGGACTACAAC 57.040 29.630 14.70 0.00 0.00 3.32
6624 9067 8.684386 TTAGACATTTCAAATGGACTACAACA 57.316 30.769 14.70 1.25 0.00 3.33
6625 9068 7.765695 AGACATTTCAAATGGACTACAACAT 57.234 32.000 14.70 0.00 0.00 2.71
6626 9069 8.862325 AGACATTTCAAATGGACTACAACATA 57.138 30.769 14.70 0.00 0.00 2.29
6627 9070 8.730680 AGACATTTCAAATGGACTACAACATAC 58.269 33.333 14.70 0.00 0.00 2.39
6628 9071 7.526608 ACATTTCAAATGGACTACAACATACG 58.473 34.615 14.70 0.00 0.00 3.06
6629 9072 7.389330 ACATTTCAAATGGACTACAACATACGA 59.611 33.333 14.70 0.00 0.00 3.43
6630 9073 7.731882 TTTCAAATGGACTACAACATACGAA 57.268 32.000 0.00 0.00 0.00 3.85
6631 9074 7.915293 TTCAAATGGACTACAACATACGAAT 57.085 32.000 0.00 0.00 0.00 3.34
6632 9075 7.302350 TCAAATGGACTACAACATACGAATG 57.698 36.000 0.00 0.00 39.17 2.67
6634 9077 8.035984 TCAAATGGACTACAACATACGAATGTA 58.964 33.333 0.00 0.00 45.79 2.29
6635 9078 7.766219 AATGGACTACAACATACGAATGTAC 57.234 36.000 0.00 0.00 45.79 2.90
6636 9079 5.334319 TGGACTACAACATACGAATGTACG 58.666 41.667 0.00 0.00 45.79 3.67
6637 9080 5.106197 TGGACTACAACATACGAATGTACGT 60.106 40.000 0.00 0.00 45.79 3.57
6638 9081 5.228635 GGACTACAACATACGAATGTACGTG 59.771 44.000 0.00 0.00 45.79 4.49
6639 9082 5.097529 ACTACAACATACGAATGTACGTGG 58.902 41.667 0.00 0.00 45.79 4.94
6640 9083 4.177165 ACAACATACGAATGTACGTGGA 57.823 40.909 0.00 0.00 45.79 4.02
6641 9084 3.922240 ACAACATACGAATGTACGTGGAC 59.078 43.478 0.00 0.00 45.79 4.02
6642 9085 3.853831 ACATACGAATGTACGTGGACA 57.146 42.857 0.00 0.00 44.66 4.02
6643 9086 4.380841 ACATACGAATGTACGTGGACAT 57.619 40.909 0.00 0.00 44.66 3.06
6644 9087 5.503662 ACATACGAATGTACGTGGACATA 57.496 39.130 4.44 0.00 44.66 2.29
6645 9088 6.080648 ACATACGAATGTACGTGGACATAT 57.919 37.500 4.44 0.00 44.66 1.78
6646 9089 6.509656 ACATACGAATGTACGTGGACATATT 58.490 36.000 4.44 0.00 44.66 1.28
6647 9090 6.982141 ACATACGAATGTACGTGGACATATTT 59.018 34.615 4.44 0.00 44.66 1.40
6648 9091 7.493320 ACATACGAATGTACGTGGACATATTTT 59.507 33.333 4.44 0.00 44.66 1.82
6649 9092 8.970293 CATACGAATGTACGTGGACATATTTTA 58.030 33.333 4.44 0.00 46.02 1.52
6650 9093 7.830940 ACGAATGTACGTGGACATATTTTAA 57.169 32.000 4.44 0.00 44.84 1.52
6651 9094 8.254178 ACGAATGTACGTGGACATATTTTAAA 57.746 30.769 4.44 0.00 44.84 1.52
6652 9095 8.385111 ACGAATGTACGTGGACATATTTTAAAG 58.615 33.333 4.44 0.00 44.84 1.85
6653 9096 8.385111 CGAATGTACGTGGACATATTTTAAAGT 58.615 33.333 4.44 0.00 39.16 2.66
6654 9097 9.485591 GAATGTACGTGGACATATTTTAAAGTG 57.514 33.333 4.44 0.00 39.16 3.16
6655 9098 7.966246 TGTACGTGGACATATTTTAAAGTGT 57.034 32.000 0.00 3.53 0.00 3.55
6656 9099 9.656040 ATGTACGTGGACATATTTTAAAGTGTA 57.344 29.630 2.07 0.00 38.29 2.90
6657 9100 9.142515 TGTACGTGGACATATTTTAAAGTGTAG 57.857 33.333 0.00 0.00 0.00 2.74
6658 9101 9.357652 GTACGTGGACATATTTTAAAGTGTAGA 57.642 33.333 0.00 0.00 0.00 2.59
6660 9103 9.444600 ACGTGGACATATTTTAAAGTGTAGATT 57.555 29.630 0.00 0.00 0.00 2.40
6661 9104 9.916397 CGTGGACATATTTTAAAGTGTAGATTC 57.084 33.333 0.00 0.00 0.00 2.52
6672 9115 9.677567 TTTAAAGTGTAGATTCACTCATTTTGC 57.322 29.630 0.00 0.00 46.25 3.68
6673 9116 7.516198 AAAGTGTAGATTCACTCATTTTGCT 57.484 32.000 0.00 0.00 46.25 3.91
6674 9117 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
6675 9118 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
6676 9119 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
6677 9120 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
6678 9121 3.686726 AGATTCACTCATTTTGCTCCGTC 59.313 43.478 0.00 0.00 0.00 4.79
6679 9122 2.839486 TCACTCATTTTGCTCCGTCT 57.161 45.000 0.00 0.00 0.00 4.18
6680 9123 2.416747 TCACTCATTTTGCTCCGTCTG 58.583 47.619 0.00 0.00 0.00 3.51
6681 9124 2.146342 CACTCATTTTGCTCCGTCTGT 58.854 47.619 0.00 0.00 0.00 3.41
6682 9125 3.006430 TCACTCATTTTGCTCCGTCTGTA 59.994 43.478 0.00 0.00 0.00 2.74
6683 9126 3.369147 CACTCATTTTGCTCCGTCTGTAG 59.631 47.826 0.00 0.00 0.00 2.74
6684 9127 3.006967 ACTCATTTTGCTCCGTCTGTAGT 59.993 43.478 0.00 0.00 0.00 2.73
6685 9128 3.585862 TCATTTTGCTCCGTCTGTAGTC 58.414 45.455 0.00 0.00 0.00 2.59
6686 9129 3.006430 TCATTTTGCTCCGTCTGTAGTCA 59.994 43.478 0.00 0.00 0.00 3.41
6687 9130 2.433868 TTTGCTCCGTCTGTAGTCAC 57.566 50.000 0.00 0.00 0.00 3.67
6688 9131 1.617322 TTGCTCCGTCTGTAGTCACT 58.383 50.000 0.00 0.00 0.00 3.41
6689 9132 1.617322 TGCTCCGTCTGTAGTCACTT 58.383 50.000 0.00 0.00 0.00 3.16
6690 9133 1.269723 TGCTCCGTCTGTAGTCACTTG 59.730 52.381 0.00 0.00 0.00 3.16
6691 9134 1.269998 GCTCCGTCTGTAGTCACTTGT 59.730 52.381 0.00 0.00 0.00 3.16
6692 9135 2.288273 GCTCCGTCTGTAGTCACTTGTT 60.288 50.000 0.00 0.00 0.00 2.83
6693 9136 3.309388 CTCCGTCTGTAGTCACTTGTTG 58.691 50.000 0.00 0.00 0.00 3.33
6694 9137 2.035449 TCCGTCTGTAGTCACTTGTTGG 59.965 50.000 0.00 0.00 0.00 3.77
6695 9138 2.035449 CCGTCTGTAGTCACTTGTTGGA 59.965 50.000 0.00 0.00 0.00 3.53
6696 9139 3.491964 CCGTCTGTAGTCACTTGTTGGAA 60.492 47.826 0.00 0.00 0.00 3.53
6697 9140 4.307432 CGTCTGTAGTCACTTGTTGGAAT 58.693 43.478 0.00 0.00 0.00 3.01
6698 9141 4.386049 CGTCTGTAGTCACTTGTTGGAATC 59.614 45.833 0.00 0.00 0.00 2.52
6699 9142 5.542779 GTCTGTAGTCACTTGTTGGAATCT 58.457 41.667 0.00 0.00 0.00 2.40
6700 9143 6.569801 CGTCTGTAGTCACTTGTTGGAATCTA 60.570 42.308 0.00 0.00 0.00 1.98
6701 9144 7.324178 GTCTGTAGTCACTTGTTGGAATCTAT 58.676 38.462 0.00 0.00 0.00 1.98
6702 9145 8.467598 GTCTGTAGTCACTTGTTGGAATCTATA 58.532 37.037 0.00 0.00 0.00 1.31
6703 9146 8.687242 TCTGTAGTCACTTGTTGGAATCTATAG 58.313 37.037 0.00 0.00 0.00 1.31
6704 9147 8.589701 TGTAGTCACTTGTTGGAATCTATAGA 57.410 34.615 4.57 4.57 0.00 1.98
6705 9148 9.031537 TGTAGTCACTTGTTGGAATCTATAGAA 57.968 33.333 6.52 0.00 0.00 2.10
6706 9149 9.871238 GTAGTCACTTGTTGGAATCTATAGAAA 57.129 33.333 6.52 0.00 0.00 2.52
6708 9151 8.816894 AGTCACTTGTTGGAATCTATAGAAAGA 58.183 33.333 6.52 0.00 0.00 2.52
6709 9152 8.874816 GTCACTTGTTGGAATCTATAGAAAGAC 58.125 37.037 6.52 2.88 0.00 3.01
6710 9153 8.816894 TCACTTGTTGGAATCTATAGAAAGACT 58.183 33.333 6.52 0.00 0.00 3.24
6711 9154 9.442047 CACTTGTTGGAATCTATAGAAAGACTT 57.558 33.333 6.52 0.00 0.00 3.01
6725 9168 8.904099 ATAGAAAGACTTATATTTGGGAACGG 57.096 34.615 0.00 0.00 0.00 4.44
6726 9169 6.954232 AGAAAGACTTATATTTGGGAACGGA 58.046 36.000 0.00 0.00 0.00 4.69
6727 9170 7.574607 AGAAAGACTTATATTTGGGAACGGAT 58.425 34.615 0.00 0.00 0.00 4.18
6728 9171 7.715686 AGAAAGACTTATATTTGGGAACGGATC 59.284 37.037 0.00 0.00 0.00 3.36
6729 9172 6.494666 AGACTTATATTTGGGAACGGATCA 57.505 37.500 0.00 0.00 0.00 2.92
6730 9173 7.079451 AGACTTATATTTGGGAACGGATCAT 57.921 36.000 0.00 0.00 0.00 2.45
6731 9174 7.518188 AGACTTATATTTGGGAACGGATCATT 58.482 34.615 0.00 0.00 0.00 2.57
6732 9175 7.998964 AGACTTATATTTGGGAACGGATCATTT 59.001 33.333 0.00 0.00 0.00 2.32
6733 9176 8.533569 ACTTATATTTGGGAACGGATCATTTT 57.466 30.769 0.00 0.00 0.00 1.82
6734 9177 8.413229 ACTTATATTTGGGAACGGATCATTTTG 58.587 33.333 0.00 0.00 0.00 2.44
6735 9178 3.311486 TTTGGGAACGGATCATTTTGC 57.689 42.857 0.00 0.00 0.00 3.68
6736 9179 2.214376 TGGGAACGGATCATTTTGCT 57.786 45.000 0.00 0.00 0.00 3.91
6737 9180 2.091541 TGGGAACGGATCATTTTGCTC 58.908 47.619 0.00 0.00 0.00 4.26
6738 9181 1.405463 GGGAACGGATCATTTTGCTCC 59.595 52.381 0.00 0.00 29.67 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 0.249398 GGTCCTATGCTTCGTGGTGT 59.751 55.000 0.00 0.00 0.00 4.16
47 48 1.589196 CGCCTAGTAACTGCTCCGC 60.589 63.158 0.00 0.00 0.00 5.54
48 49 0.172803 AACGCCTAGTAACTGCTCCG 59.827 55.000 0.00 0.00 0.00 4.63
50 51 1.000145 GCAACGCCTAGTAACTGCTC 59.000 55.000 0.00 0.00 32.81 4.26
51 52 0.391263 GGCAACGCCTAGTAACTGCT 60.391 55.000 0.00 0.00 46.69 4.24
52 53 2.087344 GGCAACGCCTAGTAACTGC 58.913 57.895 0.00 0.00 46.69 4.40
79 80 0.249911 GATGTGGGGGCTTAGCGTAG 60.250 60.000 0.00 0.00 0.00 3.51
80 81 1.827394 GATGTGGGGGCTTAGCGTA 59.173 57.895 0.00 0.00 0.00 4.42
83 84 2.902343 GCGATGTGGGGGCTTAGC 60.902 66.667 0.00 0.00 0.00 3.09
85 86 2.690881 AGGCGATGTGGGGGCTTA 60.691 61.111 0.00 0.00 35.23 3.09
91 92 2.105128 GACGAGAGGCGATGTGGG 59.895 66.667 0.00 0.00 44.57 4.61
102 103 0.624254 TTGAGGAGGCTAGGACGAGA 59.376 55.000 0.00 0.00 0.00 4.04
147 148 0.893727 ACCTTGGTTCGTGGGATTGC 60.894 55.000 0.00 0.00 0.00 3.56
150 151 1.189524 TCGACCTTGGTTCGTGGGAT 61.190 55.000 0.00 0.00 37.73 3.85
159 160 3.861341 CATGGTGATCGACCTTGGT 57.139 52.632 16.07 0.00 46.32 3.67
169 170 1.453155 GAGTTGTTCGCCATGGTGAT 58.547 50.000 28.01 13.40 34.40 3.06
176 177 2.280524 CGGTGGAGTTGTTCGCCA 60.281 61.111 0.00 0.00 43.45 5.69
284 285 1.653667 CCGCAAGCAACACATGTCA 59.346 52.632 0.00 0.00 0.00 3.58
288 289 2.977456 TCGCCGCAAGCAACACAT 60.977 55.556 0.00 0.00 44.04 3.21
293 294 1.692148 CTAATCGTCGCCGCAAGCAA 61.692 55.000 0.00 0.00 44.04 3.91
294 295 2.125872 TAATCGTCGCCGCAAGCA 60.126 55.556 0.00 0.00 44.04 3.91
296 297 2.237751 CCCTAATCGTCGCCGCAAG 61.238 63.158 0.00 0.00 0.00 4.01
297 298 2.202824 CCCTAATCGTCGCCGCAA 60.203 61.111 0.00 0.00 0.00 4.85
298 299 2.510064 AAACCCTAATCGTCGCCGCA 62.510 55.000 0.00 0.00 0.00 5.69
299 300 1.363885 AAAACCCTAATCGTCGCCGC 61.364 55.000 0.00 0.00 0.00 6.53
328 329 2.091102 AAAAGAAGACCCCGCGTCGA 62.091 55.000 4.92 0.00 46.92 4.20
350 351 3.639094 TGAACAATCGACAAAATTGGGGT 59.361 39.130 0.00 0.00 38.23 4.95
415 416 3.705072 GAGCCTGGGTACTGTACTATTGT 59.295 47.826 16.79 0.00 0.00 2.71
416 417 3.704566 TGAGCCTGGGTACTGTACTATTG 59.295 47.826 16.79 5.98 0.00 1.90
417 418 3.961408 CTGAGCCTGGGTACTGTACTATT 59.039 47.826 16.79 0.00 0.00 1.73
418 419 3.052793 ACTGAGCCTGGGTACTGTACTAT 60.053 47.826 16.79 0.00 0.00 2.12
419 420 2.310945 ACTGAGCCTGGGTACTGTACTA 59.689 50.000 16.79 6.60 0.00 1.82
420 421 1.077334 ACTGAGCCTGGGTACTGTACT 59.923 52.381 16.79 0.00 0.00 2.73
421 422 1.558233 ACTGAGCCTGGGTACTGTAC 58.442 55.000 9.46 9.46 0.00 2.90
422 423 2.176889 GAACTGAGCCTGGGTACTGTA 58.823 52.381 0.00 0.00 0.00 2.74
423 424 0.977395 GAACTGAGCCTGGGTACTGT 59.023 55.000 0.00 0.55 0.00 3.55
426 435 1.602771 GGGAACTGAGCCTGGGTAC 59.397 63.158 0.00 0.00 0.00 3.34
457 466 2.175202 TCTCCAAACTGAGCCTCTCTC 58.825 52.381 0.00 0.00 42.23 3.20
480 499 7.197017 CGTAGACCATATATGTAGCCTGATTC 58.803 42.308 11.73 0.00 0.00 2.52
502 524 4.873827 GGAATTTACACATCTTGCTCCGTA 59.126 41.667 0.00 0.00 0.00 4.02
503 525 3.689649 GGAATTTACACATCTTGCTCCGT 59.310 43.478 0.00 0.00 0.00 4.69
504 526 3.689161 TGGAATTTACACATCTTGCTCCG 59.311 43.478 0.00 0.00 0.00 4.63
534 556 4.274865 GAGCTAACGCATGCTTGATTTAC 58.725 43.478 17.13 0.00 39.91 2.01
671 696 3.664107 TCCCACGAATCTGTTTGAAGAG 58.336 45.455 0.00 0.00 0.00 2.85
745 770 1.112916 AAACCGTTGCTGAAAGGGGG 61.113 55.000 11.62 0.00 46.27 5.40
746 771 0.313987 GAAACCGTTGCTGAAAGGGG 59.686 55.000 11.62 0.00 46.27 4.79
753 778 0.101579 AAAACCCGAAACCGTTGCTG 59.898 50.000 0.00 0.00 0.00 4.41
884 911 1.749609 GCGTACCGGCGATCTTTGTC 61.750 60.000 9.30 0.00 0.00 3.18
1206 1233 0.827925 AGTGAGAGAGTGCGGTGGAA 60.828 55.000 0.00 0.00 0.00 3.53
1239 1266 2.169352 GTGAGGCTAAGATCAGGAAGCA 59.831 50.000 0.00 0.00 36.68 3.91
1547 1855 1.760613 CTACGGGAAAGCTCCACCATA 59.239 52.381 0.00 0.00 44.51 2.74
1583 1891 2.205152 CCCGGTAGTACCATCCCCG 61.205 68.421 19.41 3.98 38.47 5.73
1631 1939 3.864160 GCTCTAGCAGTTTCTCAGCTTGT 60.864 47.826 0.00 0.00 39.55 3.16
1664 1972 2.169769 TCCTTCGGCAATTCTTATCGGT 59.830 45.455 0.00 0.00 0.00 4.69
1721 2029 5.902681 TCAAACCTAGTGGAGATATGTTCG 58.097 41.667 0.00 0.00 37.04 3.95
2043 3058 1.497286 AGCTTCCCACCAACTTTACCA 59.503 47.619 0.00 0.00 0.00 3.25
2190 3205 6.488344 TGTCAATGTCAACCTTATGCTTTGTA 59.512 34.615 0.00 0.00 0.00 2.41
2352 3367 8.910666 CAACAATGATACGATGCAAAGTAAAAA 58.089 29.630 8.41 0.00 0.00 1.94
2353 3368 8.293157 TCAACAATGATACGATGCAAAGTAAAA 58.707 29.630 8.41 1.90 0.00 1.52
2414 3625 1.682854 CACCAACATCCTGCAAGTGTT 59.317 47.619 5.48 5.48 36.57 3.32
2454 3984 2.094026 GGCTTCATCATCAAAACCCCAC 60.094 50.000 0.00 0.00 0.00 4.61
2778 4308 2.834113 AGACACCCAACTATACAGCCT 58.166 47.619 0.00 0.00 0.00 4.58
3062 4592 0.944386 CAAGTCACCCTCACAAACCG 59.056 55.000 0.00 0.00 0.00 4.44
3294 5401 8.807118 CCACATGAGATACAAGTAGTATGGTAT 58.193 37.037 0.00 0.00 43.39 2.73
3356 5463 6.467677 TCCAAATGACTTCTCTCTAACCAAG 58.532 40.000 0.00 0.00 0.00 3.61
3413 5520 2.522185 ACAGCTCTGGAATTTGCACAT 58.478 42.857 1.66 0.00 34.19 3.21
3485 5865 2.810274 GGAGATATGCACATGCGAACAT 59.190 45.455 0.00 0.00 45.83 2.71
3486 5866 2.212652 GGAGATATGCACATGCGAACA 58.787 47.619 0.00 0.00 45.83 3.18
3618 5999 4.737346 TGGCCCACCCAACAATTT 57.263 50.000 0.00 0.00 41.82 1.82
3627 6008 0.888619 GTTCTTTAGCTTGGCCCACC 59.111 55.000 0.00 0.00 0.00 4.61
3629 6010 0.608035 CCGTTCTTTAGCTTGGCCCA 60.608 55.000 0.00 0.00 0.00 5.36
3646 6027 4.873768 AAAGTTGGAAAAACATTTGCCG 57.126 36.364 0.00 0.00 0.00 5.69
3648 6029 7.967303 TGATTCAAAAGTTGGAAAAACATTTGC 59.033 29.630 11.87 0.00 38.18 3.68
3664 6045 5.584442 TGATGAATGCCGATGATTCAAAAG 58.416 37.500 0.00 0.00 41.85 2.27
3939 6320 5.337652 CCTTCTCCTAAATTCGACTGAGGTT 60.338 44.000 4.50 0.00 0.00 3.50
4060 6441 3.612247 CTCCCAGCCAGTTGACCGG 62.612 68.421 0.00 0.00 0.00 5.28
4064 6445 4.020617 CGCCTCCCAGCCAGTTGA 62.021 66.667 0.00 0.00 0.00 3.18
4111 6492 4.320456 AGCCCACACAGACAGCCG 62.320 66.667 0.00 0.00 0.00 5.52
4375 6757 0.179004 AATTGGGTGCGGAACAGTGA 60.179 50.000 0.00 0.00 0.00 3.41
4917 7307 2.826128 ACAGAGCGTCCTGAATACTTCA 59.174 45.455 12.04 0.00 37.59 3.02
4928 7318 2.154798 TAGCCACACACAGAGCGTCC 62.155 60.000 0.00 0.00 0.00 4.79
4967 7357 1.883275 CCGCCACCATAAACAACAGAA 59.117 47.619 0.00 0.00 0.00 3.02
4971 7361 0.170339 GAGCCGCCACCATAAACAAC 59.830 55.000 0.00 0.00 0.00 3.32
5136 7526 1.358725 GCGCATCAGCAAACGACCTA 61.359 55.000 0.30 0.00 42.27 3.08
5220 7610 6.272822 ACCTGAATTTGCTGAGATTTTACC 57.727 37.500 0.00 0.00 0.00 2.85
5328 7718 1.465354 CCGACTCGAAGTACAAGGACG 60.465 57.143 0.00 0.00 0.00 4.79
5342 7732 0.524392 CGCACAGACTCATCCGACTC 60.524 60.000 0.00 0.00 0.00 3.36
5355 7745 1.442769 ACACTAGGATTTGCGCACAG 58.557 50.000 11.12 3.06 0.00 3.66
5376 7766 9.204570 GTAACACTTCTGTATCACAAGTACAAT 57.795 33.333 0.00 0.00 32.15 2.71
5381 7771 6.016527 TCGAGTAACACTTCTGTATCACAAGT 60.017 38.462 0.00 0.00 0.00 3.16
5391 7781 1.272490 TGGCCTCGAGTAACACTTCTG 59.728 52.381 12.31 0.00 0.00 3.02
5465 7856 4.383649 GCATTAAATATGCTGCATTGACGG 59.616 41.667 21.56 6.29 41.52 4.79
5484 7875 6.592607 CCAAATCAGCTTTTAATCACAGCATT 59.407 34.615 0.00 0.00 35.88 3.56
5490 7881 7.542025 AGACATCCAAATCAGCTTTTAATCAC 58.458 34.615 0.00 0.00 0.00 3.06
5492 7883 6.909357 CGAGACATCCAAATCAGCTTTTAATC 59.091 38.462 0.00 0.00 0.00 1.75
5493 7884 6.375455 ACGAGACATCCAAATCAGCTTTTAAT 59.625 34.615 0.00 0.00 0.00 1.40
5497 7888 3.679389 ACGAGACATCCAAATCAGCTTT 58.321 40.909 0.00 0.00 0.00 3.51
5527 7918 5.352293 GTCAGAATCACATGCATGTTACTCA 59.648 40.000 29.48 10.24 39.39 3.41
5554 7945 1.267121 TCTCCTGCAGAGGTGGTAAC 58.733 55.000 17.39 0.00 43.44 2.50
5633 8024 3.317993 CCAATCAGGGTTTCAAAGACGTT 59.682 43.478 0.00 0.00 0.00 3.99
5692 8083 7.173390 ACGTCATCGATCTTGAGTATCATCTTA 59.827 37.037 0.00 0.00 42.46 2.10
5701 8092 5.274718 GTGATAACGTCATCGATCTTGAGT 58.725 41.667 0.00 0.00 39.48 3.41
5716 8107 0.179171 ACTCTGACGGCGTGATAACG 60.179 55.000 21.19 0.00 0.00 3.18
5749 8140 0.397187 TTGCCCATGCTTGCAACATT 59.603 45.000 10.35 0.00 42.19 2.71
5770 8161 2.746904 TGATGGTTTGTTATCCAGCACG 59.253 45.455 0.00 0.00 43.68 5.34
5785 8176 4.103013 TGCTGCATGGTATAATGATGGT 57.897 40.909 0.00 0.00 0.00 3.55
5843 8234 5.277345 CGTCACAAGCAAAATATAGGCCTAC 60.277 44.000 16.61 0.00 0.00 3.18
5887 8278 3.885484 AACAAGATGTGAGAACGCAAG 57.115 42.857 0.00 0.00 39.99 4.01
5888 8279 4.123506 TGTAACAAGATGTGAGAACGCAA 58.876 39.130 0.00 0.00 39.99 4.85
6026 8417 3.769300 TCTGCATAGTTCCTCTGTAGCAA 59.231 43.478 0.00 0.00 0.00 3.91
6069 8460 0.823356 CCCACCAACTGACCAACCTG 60.823 60.000 0.00 0.00 0.00 4.00
6080 8471 1.744320 GCCAAGTGAACCCCACCAAC 61.744 60.000 0.00 0.00 46.87 3.77
6107 8498 1.037493 ACTGCACGAGTACACCTGAA 58.963 50.000 0.00 0.00 30.86 3.02
6174 8565 8.545229 AGCACAATTCTAGATGTATATTCTGC 57.455 34.615 6.34 6.34 0.00 4.26
6186 8600 9.764363 CATTATACCAACTAGCACAATTCTAGA 57.236 33.333 6.66 0.00 37.53 2.43
6187 8601 9.764363 TCATTATACCAACTAGCACAATTCTAG 57.236 33.333 0.00 0.00 39.43 2.43
6189 8603 8.893727 GTTCATTATACCAACTAGCACAATTCT 58.106 33.333 0.00 0.00 0.00 2.40
6190 8604 8.893727 AGTTCATTATACCAACTAGCACAATTC 58.106 33.333 0.00 0.00 0.00 2.17
6191 8605 8.677300 CAGTTCATTATACCAACTAGCACAATT 58.323 33.333 0.00 0.00 0.00 2.32
6192 8606 8.046708 TCAGTTCATTATACCAACTAGCACAAT 58.953 33.333 0.00 0.00 0.00 2.71
6193 8607 7.390823 TCAGTTCATTATACCAACTAGCACAA 58.609 34.615 0.00 0.00 0.00 3.33
6194 8608 6.941857 TCAGTTCATTATACCAACTAGCACA 58.058 36.000 0.00 0.00 0.00 4.57
6195 8609 7.843490 TTCAGTTCATTATACCAACTAGCAC 57.157 36.000 0.00 0.00 0.00 4.40
6196 8610 8.046708 ACATTCAGTTCATTATACCAACTAGCA 58.953 33.333 0.00 0.00 0.00 3.49
6197 8611 8.438676 ACATTCAGTTCATTATACCAACTAGC 57.561 34.615 0.00 0.00 0.00 3.42
6198 8612 9.823647 AGACATTCAGTTCATTATACCAACTAG 57.176 33.333 0.00 0.00 0.00 2.57
6570 9013 9.890915 AGACTTATATTTAGGAATGGAGAGAGT 57.109 33.333 0.00 0.00 0.00 3.24
6591 9034 9.750125 GTCCATTTGAAATGTCTAAAAAGACTT 57.250 29.630 15.93 0.00 39.41 3.01
6592 9035 9.136323 AGTCCATTTGAAATGTCTAAAAAGACT 57.864 29.630 15.93 14.21 39.41 3.24
6597 9040 9.959749 GTTGTAGTCCATTTGAAATGTCTAAAA 57.040 29.630 15.93 14.59 0.00 1.52
6598 9041 9.126151 TGTTGTAGTCCATTTGAAATGTCTAAA 57.874 29.630 15.93 10.39 0.00 1.85
6599 9042 8.684386 TGTTGTAGTCCATTTGAAATGTCTAA 57.316 30.769 15.93 4.89 0.00 2.10
6600 9043 8.862325 ATGTTGTAGTCCATTTGAAATGTCTA 57.138 30.769 15.93 13.97 0.00 2.59
6601 9044 7.765695 ATGTTGTAGTCCATTTGAAATGTCT 57.234 32.000 15.93 14.81 0.00 3.41
6602 9045 7.692291 CGTATGTTGTAGTCCATTTGAAATGTC 59.308 37.037 15.93 9.10 0.00 3.06
6603 9046 7.389330 TCGTATGTTGTAGTCCATTTGAAATGT 59.611 33.333 15.93 1.43 0.00 2.71
6604 9047 7.747888 TCGTATGTTGTAGTCCATTTGAAATG 58.252 34.615 10.84 10.84 0.00 2.32
6605 9048 7.915293 TCGTATGTTGTAGTCCATTTGAAAT 57.085 32.000 0.00 0.00 0.00 2.17
6606 9049 7.731882 TTCGTATGTTGTAGTCCATTTGAAA 57.268 32.000 0.00 0.00 0.00 2.69
6607 9050 7.389330 ACATTCGTATGTTGTAGTCCATTTGAA 59.611 33.333 1.31 0.00 42.29 2.69
6608 9051 6.876789 ACATTCGTATGTTGTAGTCCATTTGA 59.123 34.615 1.31 0.00 42.29 2.69
6609 9052 7.072177 ACATTCGTATGTTGTAGTCCATTTG 57.928 36.000 1.31 0.00 42.29 2.32
6610 9053 7.009815 CGTACATTCGTATGTTGTAGTCCATTT 59.990 37.037 13.12 0.00 42.29 2.32
6611 9054 6.474427 CGTACATTCGTATGTTGTAGTCCATT 59.526 38.462 13.12 0.00 42.29 3.16
6612 9055 5.975344 CGTACATTCGTATGTTGTAGTCCAT 59.025 40.000 13.12 0.00 42.29 3.41
6613 9056 5.106197 ACGTACATTCGTATGTTGTAGTCCA 60.106 40.000 13.12 0.00 43.85 4.02
6614 9057 5.228635 CACGTACATTCGTATGTTGTAGTCC 59.771 44.000 13.12 0.00 43.85 3.85
6615 9058 5.228635 CCACGTACATTCGTATGTTGTAGTC 59.771 44.000 13.12 0.00 43.85 2.59
6616 9059 5.097529 CCACGTACATTCGTATGTTGTAGT 58.902 41.667 13.12 5.97 43.85 2.73
6617 9060 5.228635 GTCCACGTACATTCGTATGTTGTAG 59.771 44.000 13.12 6.24 43.85 2.74
6618 9061 5.094812 GTCCACGTACATTCGTATGTTGTA 58.905 41.667 13.12 0.00 43.85 2.41
6619 9062 3.922240 GTCCACGTACATTCGTATGTTGT 59.078 43.478 13.12 9.48 43.85 3.32
6620 9063 3.921630 TGTCCACGTACATTCGTATGTTG 59.078 43.478 13.12 8.89 43.85 3.33
6621 9064 4.177165 TGTCCACGTACATTCGTATGTT 57.823 40.909 13.12 0.00 43.85 2.71
6622 9065 3.853831 TGTCCACGTACATTCGTATGT 57.146 42.857 12.50 12.50 46.59 2.29
6623 9066 7.402811 AAATATGTCCACGTACATTCGTATG 57.597 36.000 9.14 0.00 42.27 2.39
6624 9067 9.531942 TTAAAATATGTCCACGTACATTCGTAT 57.468 29.630 9.14 0.00 42.27 3.06
6625 9068 8.923609 TTAAAATATGTCCACGTACATTCGTA 57.076 30.769 9.14 0.00 42.27 3.43
6626 9069 7.830940 TTAAAATATGTCCACGTACATTCGT 57.169 32.000 9.14 0.00 45.10 3.85
6627 9070 8.385111 ACTTTAAAATATGTCCACGTACATTCG 58.615 33.333 9.14 0.00 40.52 3.34
6628 9071 9.485591 CACTTTAAAATATGTCCACGTACATTC 57.514 33.333 9.14 0.00 40.52 2.67
6629 9072 9.005777 ACACTTTAAAATATGTCCACGTACATT 57.994 29.630 9.14 0.00 40.52 2.71
6630 9073 8.556213 ACACTTTAAAATATGTCCACGTACAT 57.444 30.769 8.87 8.87 42.62 2.29
6631 9074 7.966246 ACACTTTAAAATATGTCCACGTACA 57.034 32.000 0.00 0.00 0.00 2.90
6632 9075 9.357652 TCTACACTTTAAAATATGTCCACGTAC 57.642 33.333 0.00 0.00 0.00 3.67
6634 9077 9.444600 AATCTACACTTTAAAATATGTCCACGT 57.555 29.630 3.40 0.00 0.00 4.49
6635 9078 9.916397 GAATCTACACTTTAAAATATGTCCACG 57.084 33.333 3.40 0.00 0.00 4.94
6652 9095 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
6653 9096 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
6654 9097 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
6655 9098 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
6656 9099 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
6657 9100 3.686726 AGACGGAGCAAAATGAGTGAATC 59.313 43.478 0.00 0.00 0.00 2.52
6658 9101 3.438087 CAGACGGAGCAAAATGAGTGAAT 59.562 43.478 0.00 0.00 0.00 2.57
6659 9102 2.807967 CAGACGGAGCAAAATGAGTGAA 59.192 45.455 0.00 0.00 0.00 3.18
6660 9103 2.224281 ACAGACGGAGCAAAATGAGTGA 60.224 45.455 0.00 0.00 0.00 3.41
6661 9104 2.146342 ACAGACGGAGCAAAATGAGTG 58.854 47.619 0.00 0.00 0.00 3.51
6662 9105 2.550830 ACAGACGGAGCAAAATGAGT 57.449 45.000 0.00 0.00 0.00 3.41
6663 9106 3.589988 ACTACAGACGGAGCAAAATGAG 58.410 45.455 0.00 0.00 0.00 2.90
6664 9107 3.006430 TGACTACAGACGGAGCAAAATGA 59.994 43.478 0.00 0.00 0.00 2.57
6665 9108 3.123621 GTGACTACAGACGGAGCAAAATG 59.876 47.826 0.00 0.00 0.00 2.32
6666 9109 3.006967 AGTGACTACAGACGGAGCAAAAT 59.993 43.478 0.00 0.00 0.00 1.82
6667 9110 2.364324 AGTGACTACAGACGGAGCAAAA 59.636 45.455 0.00 0.00 0.00 2.44
6668 9111 1.961394 AGTGACTACAGACGGAGCAAA 59.039 47.619 0.00 0.00 0.00 3.68
6669 9112 1.617322 AGTGACTACAGACGGAGCAA 58.383 50.000 0.00 0.00 0.00 3.91
6670 9113 1.269723 CAAGTGACTACAGACGGAGCA 59.730 52.381 0.00 0.00 0.00 4.26
6671 9114 1.269998 ACAAGTGACTACAGACGGAGC 59.730 52.381 0.00 0.00 0.00 4.70
6672 9115 3.309388 CAACAAGTGACTACAGACGGAG 58.691 50.000 0.00 0.00 0.00 4.63
6673 9116 2.035449 CCAACAAGTGACTACAGACGGA 59.965 50.000 0.00 0.00 0.00 4.69
6674 9117 2.035449 TCCAACAAGTGACTACAGACGG 59.965 50.000 0.00 0.00 0.00 4.79
6675 9118 3.364889 TCCAACAAGTGACTACAGACG 57.635 47.619 0.00 0.00 0.00 4.18
6676 9119 5.542779 AGATTCCAACAAGTGACTACAGAC 58.457 41.667 0.00 0.00 0.00 3.51
6677 9120 5.808366 AGATTCCAACAAGTGACTACAGA 57.192 39.130 0.00 0.00 0.00 3.41
6678 9121 8.687242 TCTATAGATTCCAACAAGTGACTACAG 58.313 37.037 0.00 0.00 0.00 2.74
6679 9122 8.589701 TCTATAGATTCCAACAAGTGACTACA 57.410 34.615 0.00 0.00 0.00 2.74
6680 9123 9.871238 TTTCTATAGATTCCAACAAGTGACTAC 57.129 33.333 2.58 0.00 0.00 2.73
6682 9125 8.816894 TCTTTCTATAGATTCCAACAAGTGACT 58.183 33.333 2.58 0.00 0.00 3.41
6683 9126 8.874816 GTCTTTCTATAGATTCCAACAAGTGAC 58.125 37.037 2.58 0.00 0.00 3.67
6684 9127 8.816894 AGTCTTTCTATAGATTCCAACAAGTGA 58.183 33.333 2.58 0.00 0.00 3.41
6685 9128 9.442047 AAGTCTTTCTATAGATTCCAACAAGTG 57.558 33.333 2.58 0.00 0.00 3.16
6699 9142 9.991906 CCGTTCCCAAATATAAGTCTTTCTATA 57.008 33.333 0.00 0.00 0.00 1.31
6700 9143 8.711170 TCCGTTCCCAAATATAAGTCTTTCTAT 58.289 33.333 0.00 0.00 0.00 1.98
6701 9144 8.081517 TCCGTTCCCAAATATAAGTCTTTCTA 57.918 34.615 0.00 0.00 0.00 2.10
6702 9145 6.954232 TCCGTTCCCAAATATAAGTCTTTCT 58.046 36.000 0.00 0.00 0.00 2.52
6703 9146 7.497909 TGATCCGTTCCCAAATATAAGTCTTTC 59.502 37.037 0.00 0.00 0.00 2.62
6704 9147 7.343357 TGATCCGTTCCCAAATATAAGTCTTT 58.657 34.615 0.00 0.00 0.00 2.52
6705 9148 6.895782 TGATCCGTTCCCAAATATAAGTCTT 58.104 36.000 0.00 0.00 0.00 3.01
6706 9149 6.494666 TGATCCGTTCCCAAATATAAGTCT 57.505 37.500 0.00 0.00 0.00 3.24
6707 9150 7.745620 AATGATCCGTTCCCAAATATAAGTC 57.254 36.000 0.00 0.00 0.00 3.01
6708 9151 8.413229 CAAAATGATCCGTTCCCAAATATAAGT 58.587 33.333 0.00 0.00 0.00 2.24
6709 9152 7.382218 GCAAAATGATCCGTTCCCAAATATAAG 59.618 37.037 0.00 0.00 0.00 1.73
6710 9153 7.069331 AGCAAAATGATCCGTTCCCAAATATAA 59.931 33.333 0.00 0.00 0.00 0.98
6711 9154 6.549364 AGCAAAATGATCCGTTCCCAAATATA 59.451 34.615 0.00 0.00 0.00 0.86
6712 9155 5.363580 AGCAAAATGATCCGTTCCCAAATAT 59.636 36.000 0.00 0.00 0.00 1.28
6713 9156 4.709397 AGCAAAATGATCCGTTCCCAAATA 59.291 37.500 0.00 0.00 0.00 1.40
6714 9157 3.515104 AGCAAAATGATCCGTTCCCAAAT 59.485 39.130 0.00 0.00 0.00 2.32
6715 9158 2.896685 AGCAAAATGATCCGTTCCCAAA 59.103 40.909 0.00 0.00 0.00 3.28
6716 9159 2.491693 GAGCAAAATGATCCGTTCCCAA 59.508 45.455 0.00 0.00 0.00 4.12
6717 9160 2.091541 GAGCAAAATGATCCGTTCCCA 58.908 47.619 0.00 0.00 0.00 4.37
6718 9161 1.405463 GGAGCAAAATGATCCGTTCCC 59.595 52.381 0.00 0.00 43.58 3.97
6719 9162 2.851805 GGAGCAAAATGATCCGTTCC 57.148 50.000 0.00 0.00 43.58 3.62


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

AutoCloner maintained by Alex Coulton.