Multiple sequence alignment - TraesCS4D01G078700

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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 TraesCS4D01G078700 chr4D 100.000 4355 0 0 1 4355 52757577 52753223 0.000000e+00 8043.0
1 TraesCS4D01G078700 chr4D 79.317 556 89 17 3666 4202 52496433 52495885 2.470000e-97 366.0
2 TraesCS4D01G078700 chr4D 82.734 139 18 3 567 705 398275986 398275854 7.650000e-23 119.0
3 TraesCS4D01G078700 chr4A 94.134 2097 102 9 1882 3974 544056662 544058741 0.000000e+00 3171.0
4 TraesCS4D01G078700 chr4A 92.877 1418 66 14 1 1395 544054762 544056167 0.000000e+00 2026.0
5 TraesCS4D01G078700 chr4A 90.022 461 34 6 1392 1842 544056202 544056660 1.740000e-163 586.0
6 TraesCS4D01G078700 chr4A 81.443 97 16 2 609 705 55558305 55558211 1.300000e-10 78.7
7 TraesCS4D01G078700 chr4A 92.500 40 3 0 2621 2660 640236062 640236101 1.690000e-04 58.4
8 TraesCS4D01G078700 chr4B 93.957 1572 88 4 2659 4226 77515137 77513569 0.000000e+00 2370.0
9 TraesCS4D01G078700 chr4B 92.044 1194 73 11 1398 2572 77516326 77515136 0.000000e+00 1659.0
10 TraesCS4D01G078700 chr4B 95.986 573 15 5 768 1338 77517234 77516668 0.000000e+00 924.0
11 TraesCS4D01G078700 chr4B 89.162 692 58 6 1 690 77590846 77590170 0.000000e+00 846.0
12 TraesCS4D01G078700 chr4B 79.541 567 88 20 3654 4202 77003258 77002702 3.180000e-101 379.0
13 TraesCS4D01G078700 chr4B 81.481 135 19 3 567 701 490657297 490657169 5.960000e-19 106.0
14 TraesCS4D01G078700 chr5A 82.081 173 26 2 529 700 106356143 106356311 4.540000e-30 143.0
15 TraesCS4D01G078700 chr7D 79.670 182 32 2 526 706 53709670 53709847 4.570000e-25 126.0
16 TraesCS4D01G078700 chr2D 86.735 98 6 3 2570 2660 566989100 566989003 7.710000e-18 102.0
17 TraesCS4D01G078700 chr2D 92.453 53 3 1 2568 2619 533660179 533660231 1.680000e-09 75.0
18 TraesCS4D01G078700 chr2B 84.404 109 10 3 2559 2660 679898359 679898251 2.770000e-17 100.0
19 TraesCS4D01G078700 chr2B 89.024 82 4 5 627 706 637829135 637829057 3.580000e-16 97.1
20 TraesCS4D01G078700 chr2B 93.750 48 3 0 2568 2615 633269575 633269622 6.040000e-09 73.1
21 TraesCS4D01G078700 chr2A 85.714 98 7 3 2570 2660 706753003 706752906 3.580000e-16 97.1
22 TraesCS4D01G078700 chr3D 86.364 88 8 1 2570 2657 524715628 524715711 4.640000e-15 93.5
23 TraesCS4D01G078700 chr3D 97.619 42 1 0 2619 2660 163869601 163869642 6.040000e-09 73.1
24 TraesCS4D01G078700 chr5B 76.744 172 25 8 543 706 670796420 670796256 1.000000e-11 82.4
25 TraesCS4D01G078700 chr6A 79.825 114 16 2 2554 2660 562693652 562693765 4.670000e-10 76.8
26 TraesCS4D01G078700 chrUn 93.750 48 3 0 2568 2615 26140683 26140730 6.040000e-09 73.1
27 TraesCS4D01G078700 chr6B 89.655 58 4 2 2556 2612 555856385 555856441 6.040000e-09 73.1


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 TraesCS4D01G078700 chr4D 52753223 52757577 4354 True 8043.000000 8043 100.000000 1 4355 1 chr4D.!!$R2 4354
1 TraesCS4D01G078700 chr4D 52495885 52496433 548 True 366.000000 366 79.317000 3666 4202 1 chr4D.!!$R1 536
2 TraesCS4D01G078700 chr4A 544054762 544058741 3979 False 1927.666667 3171 92.344333 1 3974 3 chr4A.!!$F2 3973
3 TraesCS4D01G078700 chr4B 77513569 77517234 3665 True 1651.000000 2370 93.995667 768 4226 3 chr4B.!!$R4 3458
4 TraesCS4D01G078700 chr4B 77590170 77590846 676 True 846.000000 846 89.162000 1 690 1 chr4B.!!$R2 689
5 TraesCS4D01G078700 chr4B 77002702 77003258 556 True 379.000000 379 79.541000 3654 4202 1 chr4B.!!$R1 548

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
505 507 0.454452 GTAAGAAAAGCCCAAGCGCG 60.454 55.000 0.0 0.0 46.67 6.86 F
1766 2110 0.463295 CCATCCTGTCAGCGAGCAAT 60.463 55.000 0.0 0.0 0.00 3.56 F
1794 2138 2.851195 CTTGTGGTGGTAGAAACAGCT 58.149 47.619 0.0 0.0 37.25 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1888 2232 1.586422 AGATACCGTGCATGCATGTC 58.414 50.000 32.28 24.42 0.0 3.06 R
3263 3622 1.174712 CCTGCCTTTGTGTGTCCTGG 61.175 60.000 0.00 0.00 0.0 4.45 R
3492 3851 1.951130 CATCGGGCGTCCAGATTCG 60.951 63.158 6.96 0.00 0.0 3.34 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
71 72 9.745018 ATCATCCATTATACCATTTCTAGGTTG 57.255 33.333 0.00 0.00 40.54 3.77
121 122 3.638860 TCCTCCTATTTTGAGTAGCCGA 58.361 45.455 0.00 0.00 0.00 5.54
183 185 6.589523 CCCGCAAATGAAATTTCTTAATGACA 59.410 34.615 18.64 0.00 44.81 3.58
201 203 5.195001 TGACATGGTTTTTCTTTACAGCC 57.805 39.130 0.00 0.00 0.00 4.85
244 246 7.175990 GGGTAGTATCTTTTGAATGTTGGTTGA 59.824 37.037 0.00 0.00 0.00 3.18
246 248 9.774742 GTAGTATCTTTTGAATGTTGGTTGATC 57.225 33.333 0.00 0.00 0.00 2.92
248 250 6.669125 ATCTTTTGAATGTTGGTTGATCCA 57.331 33.333 0.00 0.00 45.60 3.41
316 318 2.652348 TCTGGGGATTTTTGGCTCCTAA 59.348 45.455 0.00 0.00 0.00 2.69
342 344 2.933139 AGGATTGTAGGGGAATTTGGGT 59.067 45.455 0.00 0.00 0.00 4.51
434 436 1.328279 GTTTGCCCTTTAGCACTGGT 58.672 50.000 0.00 0.00 43.97 4.00
505 507 0.454452 GTAAGAAAAGCCCAAGCGCG 60.454 55.000 0.00 0.00 46.67 6.86
554 556 5.484715 CCGACCTAGAAATTTTGTGGAGTA 58.515 41.667 10.06 0.00 0.00 2.59
691 693 0.745845 GGCACCCACTCAGCACTATG 60.746 60.000 0.00 0.00 0.00 2.23
732 734 5.954335 CACCTGATGCTAGTTTTAAAAGGG 58.046 41.667 0.00 0.00 0.00 3.95
733 735 5.016831 ACCTGATGCTAGTTTTAAAAGGGG 58.983 41.667 0.00 0.00 0.00 4.79
745 747 5.652994 TTTAAAAGGGGAATGATGAACCG 57.347 39.130 0.00 0.00 0.00 4.44
751 753 2.555227 GGGGAATGATGAACCGGCATAT 60.555 50.000 0.00 0.00 0.00 1.78
765 767 3.181507 CCGGCATATCAGTCACACAAAAG 60.182 47.826 0.00 0.00 0.00 2.27
839 842 4.644685 CACTCTTTCCCAAAAAGGTTCTGA 59.355 41.667 0.00 0.00 34.66 3.27
1098 1111 1.153489 CTCCACCATGGCAGAGACG 60.153 63.158 21.77 1.28 37.47 4.18
1190 1203 4.202202 CGGAAGAAGGATATTGTCAGCTCT 60.202 45.833 0.00 0.00 0.00 4.09
1363 1391 3.035363 TCATACTCCCAAATAGGTCGCA 58.965 45.455 0.00 0.00 34.66 5.10
1415 1739 1.561542 AGCCTTCATTACCCTGTCTGG 59.438 52.381 0.00 0.00 0.00 3.86
1513 1849 2.156917 TGTTGCTTCAGCTGAGGATTG 58.843 47.619 28.36 12.86 42.66 2.67
1545 1881 6.500684 AAACATGGTAGAAACATACAGCTG 57.499 37.500 13.48 13.48 0.00 4.24
1596 1940 7.168219 TGTCTACTGGAGTATCAAGCAAAAAT 58.832 34.615 0.00 0.00 40.94 1.82
1599 1943 9.733556 TCTACTGGAGTATCAAGCAAAAATAAA 57.266 29.630 0.00 0.00 40.94 1.40
1612 1956 9.519905 CAAGCAAAAATAAATTCATTGTCGAAG 57.480 29.630 0.00 0.00 0.00 3.79
1616 1960 8.486383 CAAAAATAAATTCATTGTCGAAGTGCA 58.514 29.630 0.00 0.00 0.00 4.57
1622 1966 2.299013 TCATTGTCGAAGTGCAGTAGGT 59.701 45.455 0.00 0.00 0.00 3.08
1639 1983 5.069119 CAGTAGGTGTATTGCTCCATGTAGA 59.931 44.000 0.00 0.00 33.35 2.59
1653 1997 4.005650 CCATGTAGACACAACAGAGCAAT 58.994 43.478 0.00 0.00 38.42 3.56
1766 2110 0.463295 CCATCCTGTCAGCGAGCAAT 60.463 55.000 0.00 0.00 0.00 3.56
1794 2138 2.851195 CTTGTGGTGGTAGAAACAGCT 58.149 47.619 0.00 0.00 37.25 4.24
1814 2158 6.998673 ACAGCTCAGGTAGAAAGTTGTATTTT 59.001 34.615 0.00 0.00 33.46 1.82
1845 2189 6.826741 TGTAAACTGGAAGGACTATATTTGGC 59.173 38.462 0.00 0.00 39.30 4.52
1850 2194 6.954102 ACTGGAAGGACTATATTTGGCTTTTT 59.046 34.615 0.00 0.00 39.30 1.94
1890 2234 9.477484 TTGTTTGTATGTAAAAGAGAGAGAGAC 57.523 33.333 0.00 0.00 0.00 3.36
1937 2282 4.498894 TGAGATGACTTCCATGCTTCAT 57.501 40.909 0.00 0.00 35.17 2.57
1952 2297 6.034898 CCATGCTTCATACCGTCAAAAATTTC 59.965 38.462 0.00 0.00 0.00 2.17
2021 2366 5.611374 TCTAGCTATATCCACCAAGCAAAC 58.389 41.667 0.00 0.00 37.44 2.93
2066 2414 5.856126 TGTTTTCATAGAGCCTGTAAACG 57.144 39.130 0.00 0.00 36.96 3.60
2102 2450 6.728200 ACGCAATGTTATATGATTGTTCCAG 58.272 36.000 0.00 0.00 32.98 3.86
2110 2458 7.227314 TGTTATATGATTGTTCCAGCTCATGAC 59.773 37.037 0.00 0.00 31.20 3.06
2123 2471 8.579850 TCCAGCTCATGACTATTGTAATTTTT 57.420 30.769 0.00 0.00 0.00 1.94
2526 2885 8.319057 ACTTCCACTATCTTTGACCATATACA 57.681 34.615 0.00 0.00 0.00 2.29
2579 2938 5.506708 ACCACAAAATATGTTACTCCCTCC 58.493 41.667 0.00 0.00 41.46 4.30
2580 2939 5.014755 ACCACAAAATATGTTACTCCCTCCA 59.985 40.000 0.00 0.00 41.46 3.86
2613 2972 9.649167 ATTAATTGTCGTAGCTTTAGTACAACT 57.351 29.630 0.00 0.00 30.40 3.16
2614 2973 7.958053 AATTGTCGTAGCTTTAGTACAACTT 57.042 32.000 0.00 0.00 30.40 2.66
2649 3008 7.543868 CCAAAACTGCGACAATTAATTTGGATA 59.456 33.333 7.93 0.00 45.18 2.59
2661 3020 9.289782 CAATTAATTTGGATAGGAGGGAGTAAG 57.710 37.037 0.00 0.00 0.00 2.34
2671 3030 7.147461 GGATAGGAGGGAGTAAGAATTGTTTCT 60.147 40.741 0.00 0.00 44.20 2.52
2788 3147 7.106239 AGATTCACGTCAAGGAACTGAATTAT 58.894 34.615 0.00 0.00 40.86 1.28
2806 3165 8.771521 TGAATTATGTTCATGATCCCAAGAAT 57.228 30.769 0.00 0.00 33.33 2.40
2899 3258 5.296780 TGACTTTGTTCATTCCTGTTCTGTC 59.703 40.000 0.00 0.00 0.00 3.51
2914 3273 4.574828 TGTTCTGTCTTGTAGTCCTTTTGC 59.425 41.667 0.00 0.00 0.00 3.68
2921 3280 5.408909 GTCTTGTAGTCCTTTTGCCTCTTAC 59.591 44.000 0.00 0.00 0.00 2.34
3198 3557 3.415087 GCAGGGATGGCAGAGGGT 61.415 66.667 0.00 0.00 0.00 4.34
3263 3622 3.179048 TGACGAATGTGACGATGATGAC 58.821 45.455 0.00 0.00 34.70 3.06
3316 3675 4.936411 ACTGAATTCTGCAAGATGACTGAG 59.064 41.667 11.86 0.00 46.36 3.35
3369 3728 5.530915 TGACTGTAAAACTGAATGGAAGTGG 59.469 40.000 0.00 0.00 0.00 4.00
3467 3826 5.547465 CTGAATAGTGTGGGTTGTAACTCA 58.453 41.667 0.00 0.00 36.97 3.41
3492 3851 0.815734 ATTCAGTGCTGCAATGGAGC 59.184 50.000 27.09 19.99 36.95 4.70
3503 3862 0.933097 CAATGGAGCGAATCTGGACG 59.067 55.000 0.00 0.00 0.00 4.79
3528 3887 6.511282 GCCCGATGCACTTTATTAACTCTTAC 60.511 42.308 0.00 0.00 40.77 2.34
3652 4011 4.479619 GTTGCTGTTATTTGCTTCAGAGG 58.520 43.478 0.00 0.00 0.00 3.69
3916 4275 1.532868 CTTGGTCGCTTCCTGTCAAAG 59.467 52.381 0.00 0.00 0.00 2.77
3931 4326 5.461032 TGTCAAAGGAACAAAACACAAGT 57.539 34.783 0.00 0.00 0.00 3.16
3935 4330 8.091449 TGTCAAAGGAACAAAACACAAGTAAAT 58.909 29.630 0.00 0.00 0.00 1.40
3936 4331 8.592155 GTCAAAGGAACAAAACACAAGTAAATC 58.408 33.333 0.00 0.00 0.00 2.17
4000 4399 0.462375 AGTGTTCCAGCGTGTGTGTA 59.538 50.000 0.00 0.00 0.00 2.90
4047 4446 0.541392 AACGCTGCATGTATCCAGGA 59.459 50.000 0.00 0.00 0.00 3.86
4109 4508 6.566079 ATCATCCAGATACTTTCCAGTCAA 57.434 37.500 0.00 0.00 34.43 3.18
4124 4523 1.530419 TCAAAACACCGCTGCCCAT 60.530 52.632 0.00 0.00 0.00 4.00
4142 4541 3.458163 CGGGGAGTAGGCGAGCAA 61.458 66.667 0.00 0.00 0.00 3.91
4182 4581 1.239968 GGTGGCAGACTTCAGCAAGG 61.240 60.000 0.00 0.00 33.37 3.61
4193 4592 2.708216 TCAGCAAGGTCAACTGTGAA 57.292 45.000 0.00 0.00 34.87 3.18
4220 4619 2.631062 CAATGCATGCAGACCCCATTAT 59.369 45.455 26.69 1.43 0.00 1.28
4226 4625 3.507162 TGCAGACCCCATTATACCATG 57.493 47.619 0.00 0.00 0.00 3.66
4227 4626 2.108075 TGCAGACCCCATTATACCATGG 59.892 50.000 11.19 11.19 43.26 3.66
4228 4627 2.795329 CAGACCCCATTATACCATGGC 58.205 52.381 13.04 0.00 42.39 4.40
4229 4628 2.376518 CAGACCCCATTATACCATGGCT 59.623 50.000 13.04 1.51 42.39 4.75
4230 4629 2.644798 AGACCCCATTATACCATGGCTC 59.355 50.000 13.04 0.00 42.39 4.70
4231 4630 2.375174 GACCCCATTATACCATGGCTCA 59.625 50.000 13.04 0.00 42.39 4.26
4232 4631 2.788807 ACCCCATTATACCATGGCTCAA 59.211 45.455 13.04 3.06 42.39 3.02
4233 4632 3.206412 ACCCCATTATACCATGGCTCAAA 59.794 43.478 13.04 1.44 42.39 2.69
4234 4633 3.573967 CCCCATTATACCATGGCTCAAAC 59.426 47.826 13.04 0.00 42.39 2.93
4235 4634 3.253188 CCCATTATACCATGGCTCAAACG 59.747 47.826 13.04 0.00 42.39 3.60
4236 4635 4.133820 CCATTATACCATGGCTCAAACGA 58.866 43.478 13.04 0.00 37.51 3.85
4237 4636 4.761739 CCATTATACCATGGCTCAAACGAT 59.238 41.667 13.04 0.00 37.51 3.73
4238 4637 5.106555 CCATTATACCATGGCTCAAACGATC 60.107 44.000 13.04 0.00 37.51 3.69
4239 4638 3.558931 ATACCATGGCTCAAACGATCA 57.441 42.857 13.04 0.00 0.00 2.92
4240 4639 1.453155 ACCATGGCTCAAACGATCAC 58.547 50.000 13.04 0.00 0.00 3.06
4241 4640 1.271325 ACCATGGCTCAAACGATCACA 60.271 47.619 13.04 0.00 0.00 3.58
4242 4641 1.811965 CCATGGCTCAAACGATCACAA 59.188 47.619 0.00 0.00 0.00 3.33
4243 4642 2.228582 CCATGGCTCAAACGATCACAAA 59.771 45.455 0.00 0.00 0.00 2.83
4244 4643 3.495193 CATGGCTCAAACGATCACAAAG 58.505 45.455 0.00 0.00 0.00 2.77
4245 4644 1.266718 TGGCTCAAACGATCACAAAGC 59.733 47.619 0.00 0.00 0.00 3.51
4246 4645 1.401539 GGCTCAAACGATCACAAAGCC 60.402 52.381 7.21 7.21 40.84 4.35
4247 4646 1.401539 GCTCAAACGATCACAAAGCCC 60.402 52.381 0.00 0.00 0.00 5.19
4248 4647 1.879380 CTCAAACGATCACAAAGCCCA 59.121 47.619 0.00 0.00 0.00 5.36
4249 4648 1.606668 TCAAACGATCACAAAGCCCAC 59.393 47.619 0.00 0.00 0.00 4.61
4250 4649 1.336440 CAAACGATCACAAAGCCCACA 59.664 47.619 0.00 0.00 0.00 4.17
4251 4650 1.686355 AACGATCACAAAGCCCACAA 58.314 45.000 0.00 0.00 0.00 3.33
4252 4651 0.951558 ACGATCACAAAGCCCACAAC 59.048 50.000 0.00 0.00 0.00 3.32
4253 4652 0.950836 CGATCACAAAGCCCACAACA 59.049 50.000 0.00 0.00 0.00 3.33
4254 4653 1.541147 CGATCACAAAGCCCACAACAT 59.459 47.619 0.00 0.00 0.00 2.71
4255 4654 2.669113 CGATCACAAAGCCCACAACATG 60.669 50.000 0.00 0.00 0.00 3.21
4256 4655 1.774110 TCACAAAGCCCACAACATGT 58.226 45.000 0.00 0.00 0.00 3.21
4257 4656 1.680735 TCACAAAGCCCACAACATGTC 59.319 47.619 0.00 0.00 0.00 3.06
4258 4657 1.682854 CACAAAGCCCACAACATGTCT 59.317 47.619 0.00 0.00 0.00 3.41
4259 4658 1.682854 ACAAAGCCCACAACATGTCTG 59.317 47.619 0.00 2.58 0.00 3.51
4260 4659 0.675633 AAAGCCCACAACATGTCTGC 59.324 50.000 0.00 0.00 0.00 4.26
4261 4660 0.467844 AAGCCCACAACATGTCTGCA 60.468 50.000 0.00 0.00 0.00 4.41
4262 4661 0.467844 AGCCCACAACATGTCTGCAA 60.468 50.000 0.00 0.00 0.00 4.08
4263 4662 0.388659 GCCCACAACATGTCTGCAAA 59.611 50.000 0.00 0.00 0.00 3.68
4264 4663 1.001181 GCCCACAACATGTCTGCAAAT 59.999 47.619 0.00 0.00 0.00 2.32
4265 4664 2.230992 GCCCACAACATGTCTGCAAATA 59.769 45.455 0.00 0.00 0.00 1.40
4266 4665 3.305950 GCCCACAACATGTCTGCAAATAA 60.306 43.478 0.00 0.00 0.00 1.40
4267 4666 4.798924 GCCCACAACATGTCTGCAAATAAA 60.799 41.667 0.00 0.00 0.00 1.40
4268 4667 5.481105 CCCACAACATGTCTGCAAATAAAT 58.519 37.500 0.00 0.00 0.00 1.40
4269 4668 5.933463 CCCACAACATGTCTGCAAATAAATT 59.067 36.000 0.00 0.00 0.00 1.82
4270 4669 6.427547 CCCACAACATGTCTGCAAATAAATTT 59.572 34.615 0.00 0.00 0.00 1.82
4271 4670 7.360269 CCCACAACATGTCTGCAAATAAATTTC 60.360 37.037 0.00 0.00 0.00 2.17
4272 4671 7.171167 CCACAACATGTCTGCAAATAAATTTCA 59.829 33.333 0.00 0.00 0.00 2.69
4273 4672 8.218441 CACAACATGTCTGCAAATAAATTTCAG 58.782 33.333 0.00 0.00 0.00 3.02
4274 4673 8.143193 ACAACATGTCTGCAAATAAATTTCAGA 58.857 29.630 0.00 0.00 34.59 3.27
4275 4674 8.980610 CAACATGTCTGCAAATAAATTTCAGAA 58.019 29.630 0.00 1.66 36.58 3.02
4276 4675 8.524870 ACATGTCTGCAAATAAATTTCAGAAC 57.475 30.769 7.81 4.68 36.58 3.01
4277 4676 7.599998 ACATGTCTGCAAATAAATTTCAGAACC 59.400 33.333 7.81 0.00 36.58 3.62
4278 4677 6.148948 TGTCTGCAAATAAATTTCAGAACCG 58.851 36.000 7.81 0.00 36.58 4.44
4279 4678 6.016693 TGTCTGCAAATAAATTTCAGAACCGA 60.017 34.615 7.81 0.00 36.58 4.69
4280 4679 6.524586 GTCTGCAAATAAATTTCAGAACCGAG 59.475 38.462 7.81 0.00 36.58 4.63
4281 4680 5.708948 TGCAAATAAATTTCAGAACCGAGG 58.291 37.500 0.00 0.00 0.00 4.63
4282 4681 5.102313 GCAAATAAATTTCAGAACCGAGGG 58.898 41.667 0.00 0.00 0.00 4.30
4283 4682 5.650543 CAAATAAATTTCAGAACCGAGGGG 58.349 41.667 0.00 0.00 40.11 4.79
4284 4683 4.855298 ATAAATTTCAGAACCGAGGGGA 57.145 40.909 0.00 0.00 36.97 4.81
4285 4684 3.739401 AAATTTCAGAACCGAGGGGAT 57.261 42.857 0.00 0.00 36.97 3.85
4286 4685 3.283259 AATTTCAGAACCGAGGGGATC 57.717 47.619 0.00 0.00 35.43 3.36
4287 4686 1.952621 TTTCAGAACCGAGGGGATCT 58.047 50.000 0.00 0.00 45.55 2.75
4288 4687 1.952621 TTCAGAACCGAGGGGATCTT 58.047 50.000 0.00 0.00 42.33 2.40
4289 4688 1.195115 TCAGAACCGAGGGGATCTTG 58.805 55.000 0.00 0.00 42.33 3.02
4290 4689 0.462759 CAGAACCGAGGGGATCTTGC 60.463 60.000 0.00 0.00 42.33 4.01
4291 4690 0.618968 AGAACCGAGGGGATCTTGCT 60.619 55.000 0.00 0.00 42.33 3.91
4292 4691 1.120530 GAACCGAGGGGATCTTGCTA 58.879 55.000 0.00 0.00 36.97 3.49
4293 4692 1.694696 GAACCGAGGGGATCTTGCTAT 59.305 52.381 0.00 0.00 36.97 2.97
4294 4693 1.051812 ACCGAGGGGATCTTGCTATG 58.948 55.000 0.00 0.00 36.97 2.23
4295 4694 1.342074 CCGAGGGGATCTTGCTATGA 58.658 55.000 0.00 0.00 34.06 2.15
4296 4695 1.694150 CCGAGGGGATCTTGCTATGAA 59.306 52.381 0.00 0.00 34.06 2.57
4297 4696 2.104792 CCGAGGGGATCTTGCTATGAAA 59.895 50.000 0.00 0.00 34.06 2.69
4298 4697 3.433598 CCGAGGGGATCTTGCTATGAAAA 60.434 47.826 0.00 0.00 34.06 2.29
4299 4698 4.392940 CGAGGGGATCTTGCTATGAAAAT 58.607 43.478 0.00 0.00 0.00 1.82
4300 4699 4.214971 CGAGGGGATCTTGCTATGAAAATG 59.785 45.833 0.00 0.00 0.00 2.32
4301 4700 3.893813 AGGGGATCTTGCTATGAAAATGC 59.106 43.478 0.00 0.00 0.00 3.56
4302 4701 3.638160 GGGGATCTTGCTATGAAAATGCA 59.362 43.478 0.00 0.00 34.69 3.96
4303 4702 4.282703 GGGGATCTTGCTATGAAAATGCAT 59.717 41.667 0.00 0.00 36.55 3.96
4304 4703 5.477984 GGGGATCTTGCTATGAAAATGCATA 59.522 40.000 0.00 0.00 36.55 3.14
4305 4704 6.349944 GGGGATCTTGCTATGAAAATGCATAG 60.350 42.308 0.00 4.31 46.66 2.23
4306 4705 6.432162 GGGATCTTGCTATGAAAATGCATAGA 59.568 38.462 11.84 0.00 46.81 1.98
4307 4706 7.361885 GGGATCTTGCTATGAAAATGCATAGAG 60.362 40.741 11.84 2.58 46.81 2.43
4308 4707 7.174599 GGATCTTGCTATGAAAATGCATAGAGT 59.825 37.037 11.84 0.00 46.81 3.24
4309 4708 7.870509 TCTTGCTATGAAAATGCATAGAGTT 57.129 32.000 11.84 0.00 46.81 3.01
4310 4709 7.923888 TCTTGCTATGAAAATGCATAGAGTTC 58.076 34.615 11.84 2.61 46.81 3.01
4311 4710 7.553760 TCTTGCTATGAAAATGCATAGAGTTCA 59.446 33.333 11.84 8.43 46.81 3.18
4312 4711 7.628769 TGCTATGAAAATGCATAGAGTTCAA 57.371 32.000 11.84 7.49 46.81 2.69
4313 4712 7.700505 TGCTATGAAAATGCATAGAGTTCAAG 58.299 34.615 11.84 13.91 46.81 3.02
4314 4713 7.337689 TGCTATGAAAATGCATAGAGTTCAAGT 59.662 33.333 11.84 6.47 46.81 3.16
4315 4714 7.642978 GCTATGAAAATGCATAGAGTTCAAGTG 59.357 37.037 11.84 10.74 46.81 3.16
4316 4715 7.692460 ATGAAAATGCATAGAGTTCAAGTGA 57.308 32.000 15.00 0.00 32.36 3.41
4317 4716 7.509141 TGAAAATGCATAGAGTTCAAGTGAA 57.491 32.000 0.00 0.00 0.00 3.18
4318 4717 8.114331 TGAAAATGCATAGAGTTCAAGTGAAT 57.886 30.769 0.00 0.00 36.33 2.57
4319 4718 8.024865 TGAAAATGCATAGAGTTCAAGTGAATG 58.975 33.333 0.00 0.00 36.33 2.67
4320 4719 7.692460 AAATGCATAGAGTTCAAGTGAATGA 57.308 32.000 0.00 0.00 36.33 2.57
4321 4720 7.692460 AATGCATAGAGTTCAAGTGAATGAA 57.308 32.000 0.00 0.00 36.99 2.57
4322 4721 7.692460 ATGCATAGAGTTCAAGTGAATGAAA 57.308 32.000 0.00 0.00 40.76 2.69
4323 4722 7.509141 TGCATAGAGTTCAAGTGAATGAAAA 57.491 32.000 0.00 0.00 40.76 2.29
4324 4723 8.114331 TGCATAGAGTTCAAGTGAATGAAAAT 57.886 30.769 0.00 0.00 40.76 1.82
4325 4724 8.024865 TGCATAGAGTTCAAGTGAATGAAAATG 58.975 33.333 0.00 0.92 40.76 2.32
4326 4725 8.239314 GCATAGAGTTCAAGTGAATGAAAATGA 58.761 33.333 0.00 0.00 40.76 2.57
4327 4726 9.552114 CATAGAGTTCAAGTGAATGAAAATGAC 57.448 33.333 0.00 0.00 40.76 3.06
4328 4727 7.814264 AGAGTTCAAGTGAATGAAAATGACT 57.186 32.000 0.00 0.00 40.76 3.41
4329 4728 8.908786 AGAGTTCAAGTGAATGAAAATGACTA 57.091 30.769 0.00 0.00 40.76 2.59
4330 4729 8.997323 AGAGTTCAAGTGAATGAAAATGACTAG 58.003 33.333 0.00 0.00 40.76 2.57
4331 4730 8.908786 AGTTCAAGTGAATGAAAATGACTAGA 57.091 30.769 0.00 0.00 40.76 2.43
4332 4731 9.512588 AGTTCAAGTGAATGAAAATGACTAGAT 57.487 29.630 0.00 0.00 40.76 1.98
4333 4732 9.766277 GTTCAAGTGAATGAAAATGACTAGATC 57.234 33.333 0.00 0.00 40.76 2.75
4334 4733 9.730705 TTCAAGTGAATGAAAATGACTAGATCT 57.269 29.630 0.00 0.00 36.42 2.75
4338 4737 9.775854 AGTGAATGAAAATGACTAGATCTATGG 57.224 33.333 2.11 0.00 0.00 2.74
4339 4738 8.502387 GTGAATGAAAATGACTAGATCTATGGC 58.498 37.037 2.11 0.66 0.00 4.40
4340 4739 8.435187 TGAATGAAAATGACTAGATCTATGGCT 58.565 33.333 2.11 0.00 0.00 4.75
4341 4740 8.618702 AATGAAAATGACTAGATCTATGGCTG 57.381 34.615 2.11 0.00 0.00 4.85
4342 4741 7.365497 TGAAAATGACTAGATCTATGGCTGA 57.635 36.000 2.11 0.00 0.00 4.26
4343 4742 7.212976 TGAAAATGACTAGATCTATGGCTGAC 58.787 38.462 2.11 0.00 0.00 3.51
4344 4743 6.737720 AAATGACTAGATCTATGGCTGACA 57.262 37.500 2.11 0.00 0.00 3.58
4345 4744 6.931790 AATGACTAGATCTATGGCTGACAT 57.068 37.500 2.11 0.00 43.68 3.06
4346 4745 5.973899 TGACTAGATCTATGGCTGACATC 57.026 43.478 0.00 0.00 41.03 3.06
4347 4746 5.639139 TGACTAGATCTATGGCTGACATCT 58.361 41.667 0.00 0.00 41.03 2.90
4348 4747 5.709631 TGACTAGATCTATGGCTGACATCTC 59.290 44.000 0.00 0.00 41.03 2.75
4349 4748 5.891198 ACTAGATCTATGGCTGACATCTCT 58.109 41.667 0.00 3.90 41.03 3.10
4350 4749 5.711506 ACTAGATCTATGGCTGACATCTCTG 59.288 44.000 0.00 0.18 41.03 3.35
4351 4750 3.258872 AGATCTATGGCTGACATCTCTGC 59.741 47.826 0.00 0.00 41.03 4.26
4352 4751 2.675583 TCTATGGCTGACATCTCTGCT 58.324 47.619 0.00 0.00 41.03 4.24
4353 4752 3.036819 TCTATGGCTGACATCTCTGCTT 58.963 45.455 0.00 0.00 41.03 3.91
4354 4753 2.328819 ATGGCTGACATCTCTGCTTC 57.671 50.000 0.00 0.00 40.38 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.042871 TCTTGCCAATTGATGCAAACC 57.957 42.857 18.65 0.00 45.94 3.27
11 12 6.535865 GTGATTTATTCTTGCCAATTGATGCA 59.464 34.615 7.12 6.12 35.27 3.96
71 72 2.866762 GGCGAAGGTAGATGTGTTGATC 59.133 50.000 0.00 0.00 0.00 2.92
145 147 3.756933 TTTGCGGGTATAGGGTGATAC 57.243 47.619 0.00 0.00 0.00 2.24
183 185 3.254903 GGACGGCTGTAAAGAAAAACCAT 59.745 43.478 0.00 0.00 0.00 3.55
244 246 1.902508 AGGTGACGTGTCAGATTGGAT 59.097 47.619 2.31 0.00 40.75 3.41
246 248 1.800586 CAAGGTGACGTGTCAGATTGG 59.199 52.381 14.74 0.00 40.75 3.16
248 250 2.289072 CCTCAAGGTGACGTGTCAGATT 60.289 50.000 2.31 0.00 40.75 2.40
316 318 5.248248 CCAAATTCCCCTACAATCCTTTTGT 59.752 40.000 0.00 0.00 36.49 2.83
481 483 3.004315 CGCTTGGGCTTTTCTTACAAAGA 59.996 43.478 0.00 0.00 36.03 2.52
485 487 0.596082 GCGCTTGGGCTTTTCTTACA 59.404 50.000 0.00 0.00 36.09 2.41
501 503 1.557443 GCATACACATAGACCCGCGC 61.557 60.000 0.00 0.00 0.00 6.86
554 556 3.138518 TCCCACCCCAATGATTTATCCT 58.861 45.455 0.00 0.00 0.00 3.24
691 693 2.822399 CATCAGGGGCGGACCTAC 59.178 66.667 0.00 0.00 39.34 3.18
732 734 3.411446 TGATATGCCGGTTCATCATTCC 58.589 45.455 1.90 0.00 0.00 3.01
733 735 4.067896 ACTGATATGCCGGTTCATCATTC 58.932 43.478 1.90 0.00 0.00 2.67
745 747 4.009675 TCCTTTTGTGTGACTGATATGCC 58.990 43.478 0.00 0.00 0.00 4.40
751 753 3.454447 TCTTCCTCCTTTTGTGTGACTGA 59.546 43.478 0.00 0.00 0.00 3.41
765 767 3.023832 CTCAACTCCTCTCTCTTCCTCC 58.976 54.545 0.00 0.00 0.00 4.30
908 914 6.458210 GCCTTCCATGATCTTTTTCTTTTGA 58.542 36.000 0.00 0.00 0.00 2.69
912 918 3.771479 GGGCCTTCCATGATCTTTTTCTT 59.229 43.478 0.84 0.00 35.00 2.52
913 919 3.369175 GGGCCTTCCATGATCTTTTTCT 58.631 45.455 0.84 0.00 35.00 2.52
914 920 2.099756 CGGGCCTTCCATGATCTTTTTC 59.900 50.000 0.84 0.00 34.36 2.29
920 926 0.472471 TTACCGGGCCTTCCATGATC 59.528 55.000 6.32 0.00 34.36 2.92
965 975 5.918576 CCGATTGGTTTTTGGACTTTTAGAC 59.081 40.000 0.00 0.00 0.00 2.59
1190 1203 0.179137 CGATGAGGCTGCACGAGTTA 60.179 55.000 0.50 0.00 0.00 2.24
1363 1391 2.740981 CGAGCATGAACAAGAGAAAGCT 59.259 45.455 0.00 0.00 0.00 3.74
1415 1739 6.619801 AAAGCAGAATATAACCCAATCGAC 57.380 37.500 0.00 0.00 0.00 4.20
1503 1839 6.072112 TGTTTAGAACAAACAATCCTCAGC 57.928 37.500 0.28 0.00 38.72 4.26
1545 1881 2.026636 TGCTAACCCAGGAATACCACAC 60.027 50.000 0.00 0.00 38.94 3.82
1596 1940 5.940192 ACTGCACTTCGACAATGAATTTA 57.060 34.783 0.00 0.00 0.00 1.40
1599 1943 3.935203 CCTACTGCACTTCGACAATGAAT 59.065 43.478 0.00 0.00 0.00 2.57
1612 1956 2.280628 GGAGCAATACACCTACTGCAC 58.719 52.381 0.00 0.00 37.26 4.57
1616 1960 5.069251 GTCTACATGGAGCAATACACCTACT 59.931 44.000 0.00 0.00 0.00 2.57
1622 1966 4.817318 TGTGTCTACATGGAGCAATACA 57.183 40.909 0.00 0.00 0.00 2.29
1639 1983 8.043113 TCATATAAGAAGATTGCTCTGTTGTGT 58.957 33.333 0.00 0.00 0.00 3.72
1850 2194 7.066142 ACATACAAACAATGGATATAGCCCAA 58.934 34.615 4.18 0.00 37.22 4.12
1888 2232 1.586422 AGATACCGTGCATGCATGTC 58.414 50.000 32.28 24.42 0.00 3.06
1890 2234 2.723209 CAAAGATACCGTGCATGCATG 58.277 47.619 29.36 29.36 0.00 4.06
1937 2282 5.298276 AGAGTTGCAGAAATTTTTGACGGTA 59.702 36.000 12.62 0.00 0.00 4.02
1952 2297 2.827800 TCACCTCTCAAGAGTTGCAG 57.172 50.000 6.30 0.00 40.48 4.41
2154 2505 7.915397 GTGTCACTCTGTTCAAATTGTTTACAT 59.085 33.333 0.00 0.00 0.00 2.29
2388 2739 6.150396 ACCGATCTTCTAAATGATCTCGTT 57.850 37.500 0.00 0.00 37.51 3.85
2390 2741 6.074088 CCAAACCGATCTTCTAAATGATCTCG 60.074 42.308 0.00 0.00 37.51 4.04
2526 2885 8.132362 TGAAGTAGAAACAATTTTGTATGCGTT 58.868 29.630 0.00 0.00 41.31 4.84
2579 2938 8.687824 AAAGCTACGACAATTAATTTGGATTG 57.312 30.769 0.00 7.11 39.80 2.67
2624 2983 6.761731 TCCAAATTAATTGTCGCAGTTTTG 57.238 33.333 0.39 0.00 37.32 2.44
2649 3008 5.788014 AGAGAAACAATTCTTACTCCCTCCT 59.212 40.000 0.00 0.00 45.91 3.69
2661 3020 6.580041 CACATAGCAACACAGAGAAACAATTC 59.420 38.462 0.00 0.00 35.70 2.17
2671 3030 6.293900 CCAACAATAACACATAGCAACACAGA 60.294 38.462 0.00 0.00 0.00 3.41
2767 3126 5.547465 ACATAATTCAGTTCCTTGACGTGA 58.453 37.500 0.00 0.00 0.00 4.35
2788 3147 4.868172 AGGATTCTTGGGATCATGAACA 57.132 40.909 0.00 0.00 39.03 3.18
2806 3165 5.455872 ACCGAGTCTTTATCATTCCTAGGA 58.544 41.667 7.62 7.62 0.00 2.94
2899 3258 4.695928 GGTAAGAGGCAAAAGGACTACAAG 59.304 45.833 0.00 0.00 31.94 3.16
2914 3273 8.528044 AAGACAGTAAGAGATTAGGTAAGAGG 57.472 38.462 0.00 0.00 0.00 3.69
2921 3280 7.607250 ACAACAGAAGACAGTAAGAGATTAGG 58.393 38.462 0.00 0.00 0.00 2.69
3069 3428 2.294233 TGTCCTTGTGCTTGAAATCAGC 59.706 45.455 0.00 0.00 0.00 4.26
3077 3436 1.525995 ACGGGTGTCCTTGTGCTTG 60.526 57.895 0.00 0.00 0.00 4.01
3198 3557 1.962807 CCATCTTGGGTTTGTCAAGCA 59.037 47.619 1.64 0.00 40.82 3.91
3263 3622 1.174712 CCTGCCTTTGTGTGTCCTGG 61.175 60.000 0.00 0.00 0.00 4.45
3316 3675 4.821589 CGCAGGAGACCCGCCTTC 62.822 72.222 0.00 0.00 37.58 3.46
3333 3692 6.744537 CAGTTTTACAGTCAAGCATAATCAGC 59.255 38.462 0.00 0.00 0.00 4.26
3369 3728 6.710597 TTCTCTACCATCTATACACACACC 57.289 41.667 0.00 0.00 0.00 4.16
3467 3826 3.129813 CCATTGCAGCACTGAATGTACAT 59.870 43.478 14.16 1.41 31.93 2.29
3492 3851 1.951130 CATCGGGCGTCCAGATTCG 60.951 63.158 6.96 0.00 0.00 3.34
3503 3862 3.877508 AGAGTTAATAAAGTGCATCGGGC 59.122 43.478 0.00 0.00 45.13 6.13
3504 3863 6.018180 GGTAAGAGTTAATAAAGTGCATCGGG 60.018 42.308 0.00 0.00 0.00 5.14
3528 3887 3.619483 TGTTCTGGATAAACATTACGCGG 59.381 43.478 12.47 0.00 31.90 6.46
3652 4011 5.352846 GTCCTCTAGATGGTTTTTCAGCTTC 59.647 44.000 0.00 0.00 34.92 3.86
3854 4213 1.819632 GCATGGGCTAACTCCGGTG 60.820 63.158 0.00 0.00 36.96 4.94
3916 4275 8.871686 ATTCTGATTTACTTGTGTTTTGTTCC 57.128 30.769 0.00 0.00 0.00 3.62
3922 4317 9.463443 GCAAGTAATTCTGATTTACTTGTGTTT 57.537 29.630 35.72 18.21 45.41 2.83
3964 4363 7.455058 TGGAACACTACAACCAAGTATATTGT 58.545 34.615 0.00 0.00 39.75 2.71
3975 4374 0.865769 CACGCTGGAACACTACAACC 59.134 55.000 0.00 0.00 0.00 3.77
4034 4433 5.371526 TGAATCTCTTTCCTGGATACATGC 58.628 41.667 0.00 0.00 37.97 4.06
4070 4469 3.681897 GGATGATAACTCTGGCAATAGCG 59.318 47.826 0.00 0.00 43.41 4.26
4109 4508 3.055719 CGATGGGCAGCGGTGTTT 61.056 61.111 17.07 0.00 36.46 2.83
4124 4523 3.949885 TTGCTCGCCTACTCCCCGA 62.950 63.158 0.00 0.00 0.00 5.14
4142 4541 2.419851 CCAAACAACTGCAACATTGGGT 60.420 45.455 9.19 0.00 34.94 4.51
4199 4598 0.828022 AATGGGGTCTGCATGCATTG 59.172 50.000 22.97 11.02 0.00 2.82
4202 4601 2.488891 GGTATAATGGGGTCTGCATGCA 60.489 50.000 21.29 21.29 0.00 3.96
4205 4604 3.245371 CCATGGTATAATGGGGTCTGCAT 60.245 47.826 2.57 0.00 43.02 3.96
4213 4612 3.253188 CGTTTGAGCCATGGTATAATGGG 59.747 47.826 14.67 0.00 46.24 4.00
4220 4619 2.027653 TGTGATCGTTTGAGCCATGGTA 60.028 45.455 14.67 0.00 0.00 3.25
4226 4625 1.401539 GGCTTTGTGATCGTTTGAGCC 60.402 52.381 10.03 10.03 41.06 4.70
4227 4626 1.401539 GGGCTTTGTGATCGTTTGAGC 60.402 52.381 0.00 0.00 0.00 4.26
4228 4627 1.879380 TGGGCTTTGTGATCGTTTGAG 59.121 47.619 0.00 0.00 0.00 3.02
4229 4628 1.606668 GTGGGCTTTGTGATCGTTTGA 59.393 47.619 0.00 0.00 0.00 2.69
4230 4629 1.336440 TGTGGGCTTTGTGATCGTTTG 59.664 47.619 0.00 0.00 0.00 2.93
4231 4630 1.686355 TGTGGGCTTTGTGATCGTTT 58.314 45.000 0.00 0.00 0.00 3.60
4232 4631 1.336755 GTTGTGGGCTTTGTGATCGTT 59.663 47.619 0.00 0.00 0.00 3.85
4233 4632 0.951558 GTTGTGGGCTTTGTGATCGT 59.048 50.000 0.00 0.00 0.00 3.73
4234 4633 0.950836 TGTTGTGGGCTTTGTGATCG 59.049 50.000 0.00 0.00 0.00 3.69
4235 4634 2.297033 ACATGTTGTGGGCTTTGTGATC 59.703 45.455 0.00 0.00 0.00 2.92
4236 4635 2.297033 GACATGTTGTGGGCTTTGTGAT 59.703 45.455 0.00 0.00 0.00 3.06
4237 4636 1.680735 GACATGTTGTGGGCTTTGTGA 59.319 47.619 0.00 0.00 0.00 3.58
4238 4637 1.682854 AGACATGTTGTGGGCTTTGTG 59.317 47.619 0.00 0.00 0.00 3.33
4239 4638 1.682854 CAGACATGTTGTGGGCTTTGT 59.317 47.619 0.00 0.00 0.00 2.83
4240 4639 1.603678 GCAGACATGTTGTGGGCTTTG 60.604 52.381 0.00 0.00 0.00 2.77
4241 4640 0.675633 GCAGACATGTTGTGGGCTTT 59.324 50.000 0.00 0.00 0.00 3.51
4242 4641 0.467844 TGCAGACATGTTGTGGGCTT 60.468 50.000 0.00 0.00 30.24 4.35
4243 4642 0.467844 TTGCAGACATGTTGTGGGCT 60.468 50.000 0.00 0.00 30.24 5.19
4244 4643 0.388659 TTTGCAGACATGTTGTGGGC 59.611 50.000 0.00 0.48 0.00 5.36
4245 4644 4.517952 TTATTTGCAGACATGTTGTGGG 57.482 40.909 0.00 0.00 0.00 4.61
4246 4645 7.171167 TGAAATTTATTTGCAGACATGTTGTGG 59.829 33.333 0.00 0.00 0.00 4.17
4247 4646 8.074474 TGAAATTTATTTGCAGACATGTTGTG 57.926 30.769 0.00 1.98 0.00 3.33
4248 4647 8.143193 TCTGAAATTTATTTGCAGACATGTTGT 58.857 29.630 0.00 0.00 33.37 3.32
4249 4648 8.523523 TCTGAAATTTATTTGCAGACATGTTG 57.476 30.769 0.00 1.64 33.37 3.33
4250 4649 8.981647 GTTCTGAAATTTATTTGCAGACATGTT 58.018 29.630 0.00 0.00 35.61 2.71
4251 4650 7.599998 GGTTCTGAAATTTATTTGCAGACATGT 59.400 33.333 0.00 0.00 35.61 3.21
4252 4651 7.201376 CGGTTCTGAAATTTATTTGCAGACATG 60.201 37.037 6.13 0.00 35.61 3.21
4253 4652 6.808212 CGGTTCTGAAATTTATTTGCAGACAT 59.192 34.615 6.13 0.00 35.61 3.06
4254 4653 6.016693 TCGGTTCTGAAATTTATTTGCAGACA 60.017 34.615 6.13 0.00 35.61 3.41
4255 4654 6.378582 TCGGTTCTGAAATTTATTTGCAGAC 58.621 36.000 6.13 3.38 35.61 3.51
4256 4655 6.349280 CCTCGGTTCTGAAATTTATTTGCAGA 60.349 38.462 3.15 3.15 34.87 4.26
4257 4656 5.801947 CCTCGGTTCTGAAATTTATTTGCAG 59.198 40.000 0.00 0.00 0.00 4.41
4258 4657 5.336372 CCCTCGGTTCTGAAATTTATTTGCA 60.336 40.000 0.00 0.00 0.00 4.08
4259 4658 5.102313 CCCTCGGTTCTGAAATTTATTTGC 58.898 41.667 0.00 0.00 0.00 3.68
4260 4659 5.417580 TCCCCTCGGTTCTGAAATTTATTTG 59.582 40.000 0.00 0.00 0.00 2.32
4261 4660 5.576128 TCCCCTCGGTTCTGAAATTTATTT 58.424 37.500 0.00 0.00 0.00 1.40
4262 4661 5.187621 TCCCCTCGGTTCTGAAATTTATT 57.812 39.130 0.00 0.00 0.00 1.40
4263 4662 4.855298 TCCCCTCGGTTCTGAAATTTAT 57.145 40.909 0.00 0.00 0.00 1.40
4264 4663 4.473559 AGATCCCCTCGGTTCTGAAATTTA 59.526 41.667 0.00 0.00 36.92 1.40
4265 4664 3.267031 AGATCCCCTCGGTTCTGAAATTT 59.733 43.478 0.00 0.00 36.92 1.82
4266 4665 2.846827 AGATCCCCTCGGTTCTGAAATT 59.153 45.455 0.00 0.00 36.92 1.82
4267 4666 2.482494 AGATCCCCTCGGTTCTGAAAT 58.518 47.619 0.00 0.00 36.92 2.17
4268 4667 1.952621 AGATCCCCTCGGTTCTGAAA 58.047 50.000 0.00 0.00 36.92 2.69
4269 4668 1.555075 CAAGATCCCCTCGGTTCTGAA 59.445 52.381 0.00 0.00 38.09 3.02
4270 4669 1.195115 CAAGATCCCCTCGGTTCTGA 58.805 55.000 0.00 0.00 38.09 3.27
4271 4670 0.462759 GCAAGATCCCCTCGGTTCTG 60.463 60.000 0.00 0.00 38.09 3.02
4272 4671 0.618968 AGCAAGATCCCCTCGGTTCT 60.619 55.000 0.00 0.00 39.50 3.01
4273 4672 1.120530 TAGCAAGATCCCCTCGGTTC 58.879 55.000 0.00 0.00 0.00 3.62
4274 4673 1.417890 CATAGCAAGATCCCCTCGGTT 59.582 52.381 0.00 0.00 0.00 4.44
4275 4674 1.051812 CATAGCAAGATCCCCTCGGT 58.948 55.000 0.00 0.00 0.00 4.69
4276 4675 1.342074 TCATAGCAAGATCCCCTCGG 58.658 55.000 0.00 0.00 0.00 4.63
4277 4676 3.475566 TTTCATAGCAAGATCCCCTCG 57.524 47.619 0.00 0.00 0.00 4.63
4278 4677 4.022503 GCATTTTCATAGCAAGATCCCCTC 60.023 45.833 0.00 0.00 0.00 4.30
4279 4678 3.893813 GCATTTTCATAGCAAGATCCCCT 59.106 43.478 0.00 0.00 0.00 4.79
4280 4679 3.638160 TGCATTTTCATAGCAAGATCCCC 59.362 43.478 0.00 0.00 34.97 4.81
4281 4680 4.924305 TGCATTTTCATAGCAAGATCCC 57.076 40.909 0.00 0.00 34.97 3.85
4282 4681 7.174599 ACTCTATGCATTTTCATAGCAAGATCC 59.825 37.037 3.54 0.00 43.37 3.36
4283 4682 8.097078 ACTCTATGCATTTTCATAGCAAGATC 57.903 34.615 3.54 0.00 43.37 2.75
4284 4683 8.461249 AACTCTATGCATTTTCATAGCAAGAT 57.539 30.769 3.54 0.00 43.37 2.40
4285 4684 7.553760 TGAACTCTATGCATTTTCATAGCAAGA 59.446 33.333 3.54 0.00 43.37 3.02
4286 4685 7.700505 TGAACTCTATGCATTTTCATAGCAAG 58.299 34.615 3.54 0.00 43.37 4.01
4287 4686 7.628769 TGAACTCTATGCATTTTCATAGCAA 57.371 32.000 3.54 0.00 43.37 3.91
4288 4687 7.337689 ACTTGAACTCTATGCATTTTCATAGCA 59.662 33.333 3.54 0.00 43.37 3.49
4289 4688 7.642978 CACTTGAACTCTATGCATTTTCATAGC 59.357 37.037 3.54 0.00 43.37 2.97
4290 4689 8.886719 TCACTTGAACTCTATGCATTTTCATAG 58.113 33.333 3.54 10.90 44.45 2.23
4291 4690 8.791327 TCACTTGAACTCTATGCATTTTCATA 57.209 30.769 3.54 1.05 0.00 2.15
4292 4691 7.692460 TCACTTGAACTCTATGCATTTTCAT 57.308 32.000 3.54 0.00 0.00 2.57
4293 4692 7.509141 TTCACTTGAACTCTATGCATTTTCA 57.491 32.000 3.54 6.57 0.00 2.69
4294 4693 8.239314 TCATTCACTTGAACTCTATGCATTTTC 58.761 33.333 3.54 3.90 36.80 2.29
4295 4694 8.114331 TCATTCACTTGAACTCTATGCATTTT 57.886 30.769 3.54 0.00 36.80 1.82
4296 4695 7.692460 TCATTCACTTGAACTCTATGCATTT 57.308 32.000 3.54 0.00 36.80 2.32
4297 4696 7.692460 TTCATTCACTTGAACTCTATGCATT 57.308 32.000 3.54 0.00 36.80 3.56
4298 4697 7.692460 TTTCATTCACTTGAACTCTATGCAT 57.308 32.000 3.79 3.79 35.42 3.96
4299 4698 7.509141 TTTTCATTCACTTGAACTCTATGCA 57.491 32.000 0.00 0.00 35.42 3.96
4300 4699 8.239314 TCATTTTCATTCACTTGAACTCTATGC 58.761 33.333 0.00 0.00 35.42 3.14
4301 4700 9.552114 GTCATTTTCATTCACTTGAACTCTATG 57.448 33.333 0.00 0.00 35.42 2.23
4302 4701 9.512588 AGTCATTTTCATTCACTTGAACTCTAT 57.487 29.630 0.00 0.00 35.42 1.98
4303 4702 8.908786 AGTCATTTTCATTCACTTGAACTCTA 57.091 30.769 0.00 0.00 35.42 2.43
4304 4703 7.814264 AGTCATTTTCATTCACTTGAACTCT 57.186 32.000 0.00 0.00 35.42 3.24
4305 4704 8.993121 TCTAGTCATTTTCATTCACTTGAACTC 58.007 33.333 0.00 0.00 35.42 3.01
4306 4705 8.908786 TCTAGTCATTTTCATTCACTTGAACT 57.091 30.769 0.00 0.00 35.42 3.01
4307 4706 9.766277 GATCTAGTCATTTTCATTCACTTGAAC 57.234 33.333 0.00 0.00 35.42 3.18
4308 4707 9.730705 AGATCTAGTCATTTTCATTCACTTGAA 57.269 29.630 0.00 0.00 38.56 2.69
4312 4711 9.775854 CCATAGATCTAGTCATTTTCATTCACT 57.224 33.333 8.70 0.00 0.00 3.41
4313 4712 8.502387 GCCATAGATCTAGTCATTTTCATTCAC 58.498 37.037 8.70 0.00 0.00 3.18
4314 4713 8.435187 AGCCATAGATCTAGTCATTTTCATTCA 58.565 33.333 8.70 0.00 0.00 2.57
4315 4714 8.719648 CAGCCATAGATCTAGTCATTTTCATTC 58.280 37.037 8.70 0.00 0.00 2.67
4316 4715 8.435187 TCAGCCATAGATCTAGTCATTTTCATT 58.565 33.333 8.70 0.00 0.00 2.57
4317 4716 7.877097 GTCAGCCATAGATCTAGTCATTTTCAT 59.123 37.037 8.70 0.00 0.00 2.57
4318 4717 7.147672 TGTCAGCCATAGATCTAGTCATTTTCA 60.148 37.037 8.70 0.00 0.00 2.69
4319 4718 7.212976 TGTCAGCCATAGATCTAGTCATTTTC 58.787 38.462 8.70 0.00 0.00 2.29
4320 4719 7.129457 TGTCAGCCATAGATCTAGTCATTTT 57.871 36.000 8.70 0.00 0.00 1.82
4321 4720 6.737720 TGTCAGCCATAGATCTAGTCATTT 57.262 37.500 8.70 0.00 0.00 2.32
4322 4721 6.725369 AGATGTCAGCCATAGATCTAGTCATT 59.275 38.462 8.70 0.00 32.56 2.57
4323 4722 6.255287 AGATGTCAGCCATAGATCTAGTCAT 58.745 40.000 8.70 3.88 32.56 3.06
4324 4723 5.639139 AGATGTCAGCCATAGATCTAGTCA 58.361 41.667 8.70 0.00 32.56 3.41
4325 4724 5.945784 AGAGATGTCAGCCATAGATCTAGTC 59.054 44.000 8.70 0.07 32.56 2.59
4326 4725 5.711506 CAGAGATGTCAGCCATAGATCTAGT 59.288 44.000 8.70 0.00 32.56 2.57
4327 4726 5.393352 GCAGAGATGTCAGCCATAGATCTAG 60.393 48.000 8.70 0.00 32.56 2.43
4328 4727 4.462132 GCAGAGATGTCAGCCATAGATCTA 59.538 45.833 4.57 4.57 32.56 1.98
4329 4728 3.258872 GCAGAGATGTCAGCCATAGATCT 59.741 47.826 0.00 0.00 32.56 2.75
4330 4729 3.258872 AGCAGAGATGTCAGCCATAGATC 59.741 47.826 3.48 0.00 35.84 2.75
4331 4730 3.241156 AGCAGAGATGTCAGCCATAGAT 58.759 45.455 3.48 0.00 35.84 1.98
4332 4731 2.675583 AGCAGAGATGTCAGCCATAGA 58.324 47.619 3.48 0.00 35.84 1.98
4333 4732 3.391965 GAAGCAGAGATGTCAGCCATAG 58.608 50.000 3.48 0.00 35.84 2.23
4334 4733 3.465742 GAAGCAGAGATGTCAGCCATA 57.534 47.619 3.48 0.00 35.84 2.74
4335 4734 2.328819 GAAGCAGAGATGTCAGCCAT 57.671 50.000 3.48 0.00 35.84 4.40
4336 4735 3.849002 GAAGCAGAGATGTCAGCCA 57.151 52.632 3.48 0.00 35.84 4.75


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

AutoCloner maintained by Alex Coulton.