Multiple sequence alignment - TraesCS6A01G100400

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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 TraesCS6A01G100400 chr6A 100.000 5502 0 0 1 5502 67640406 67645907 0.000000e+00 10161.0
1 TraesCS6A01G100400 chr6A 87.037 108 13 1 43 150 30502468 30502362 2.690000e-23 121.0
2 TraesCS6A01G100400 chr6A 87.037 108 13 1 43 150 30523584 30523478 2.690000e-23 121.0
3 TraesCS6A01G100400 chr6A 92.308 65 3 1 5396 5460 41580198 41580136 2.110000e-14 91.6
4 TraesCS6A01G100400 chr6A 93.617 47 3 0 3708 3754 3686474 3686520 2.750000e-08 71.3
5 TraesCS6A01G100400 chr6D 93.007 3947 195 36 1 3919 47639925 47636032 0.000000e+00 5685.0
6 TraesCS6A01G100400 chr6D 94.927 887 34 4 4514 5397 47635414 47634536 0.000000e+00 1378.0
7 TraesCS6A01G100400 chr6D 96.501 543 16 2 3912 4451 47635977 47635435 0.000000e+00 894.0
8 TraesCS6A01G100400 chr6D 77.373 1180 230 30 1577 2743 34588541 34587386 0.000000e+00 665.0
9 TraesCS6A01G100400 chr6D 76.714 846 161 23 1959 2795 34583878 34583060 6.540000e-119 438.0
10 TraesCS6A01G100400 chr6D 76.160 625 96 32 3915 4508 3822017 3821415 4.200000e-71 279.0
11 TraesCS6A01G100400 chr6D 75.689 617 87 39 3927 4508 2699992 2699404 3.290000e-62 250.0
12 TraesCS6A01G100400 chr6D 82.707 133 21 2 43 174 462541635 462541504 3.480000e-22 117.0
13 TraesCS6A01G100400 chr6D 92.000 50 4 0 3711 3760 3822293 3822244 2.750000e-08 71.3
14 TraesCS6A01G100400 chr6B 92.106 3965 193 53 1 3919 123909666 123913556 0.000000e+00 5478.0
15 TraesCS6A01G100400 chr6B 89.756 1435 62 10 3967 5397 123913645 123914998 0.000000e+00 1757.0
16 TraesCS6A01G100400 chr6B 77.487 1186 219 37 1577 2743 71496559 71495403 0.000000e+00 667.0
17 TraesCS6A01G100400 chr6B 75.789 855 173 24 1950 2795 71491841 71491012 8.580000e-108 401.0
18 TraesCS6A01G100400 chr6B 73.864 528 109 21 2258 2777 124084950 124085456 3.390000e-42 183.0
19 TraesCS6A01G100400 chr6B 82.184 174 31 0 1576 1749 19043651 19043478 3.430000e-32 150.0
20 TraesCS6A01G100400 chr6B 75.908 303 58 8 614 912 714325366 714325657 2.070000e-29 141.0
21 TraesCS6A01G100400 chr6B 97.826 46 1 0 5457 5502 123914997 123915042 4.570000e-11 80.5
22 TraesCS6A01G100400 chr1A 81.157 1279 224 12 1509 2781 560181322 560180055 0.000000e+00 1011.0
23 TraesCS6A01G100400 chr1A 80.546 293 53 4 622 912 391947368 391947658 7.170000e-54 222.0
24 TraesCS6A01G100400 chr1A 74.372 398 87 9 2388 2781 576352984 576352598 7.380000e-34 156.0
25 TraesCS6A01G100400 chr1A 85.185 108 16 0 43 150 259013709 259013602 1.620000e-20 111.0
26 TraesCS6A01G100400 chr1A 82.407 108 19 0 43 150 259014527 259014634 1.630000e-15 95.3
27 TraesCS6A01G100400 chr1A 77.686 121 14 7 43 150 258914288 258914408 1.650000e-05 62.1
28 TraesCS6A01G100400 chr1B 80.328 1281 227 19 1512 2781 645707388 645708654 0.000000e+00 946.0
29 TraesCS6A01G100400 chr1D 80.611 1212 210 11 1576 2781 467801323 467802515 0.000000e+00 913.0
30 TraesCS6A01G100400 chr1D 95.455 66 1 1 5396 5461 487358101 487358038 2.710000e-18 104.0
31 TraesCS6A01G100400 chr1D 78.125 160 28 4 616 773 452764909 452765063 1.630000e-15 95.3
32 TraesCS6A01G100400 chr3D 80.255 314 52 8 614 922 357075104 357074796 1.540000e-55 228.0
33 TraesCS6A01G100400 chr3D 73.608 485 92 18 286 759 55150562 55150103 2.650000e-33 154.0
34 TraesCS6A01G100400 chr3D 96.774 31 1 0 5386 5416 24129020 24128990 1.000000e-02 52.8
35 TraesCS6A01G100400 chr7A 73.576 632 129 18 299 917 56979450 56978844 2.010000e-49 207.0
36 TraesCS6A01G100400 chr7A 88.571 70 5 3 5406 5475 48110375 48110441 1.270000e-11 82.4
37 TraesCS6A01G100400 chr4A 77.955 313 55 11 619 922 587206765 587206458 3.390000e-42 183.0
38 TraesCS6A01G100400 chr4A 77.333 150 28 4 3282 3427 602374019 602374166 3.530000e-12 84.2
39 TraesCS6A01G100400 chr4A 76.220 164 32 7 3243 3400 602381500 602381662 4.570000e-11 80.5
40 TraesCS6A01G100400 chr3A 79.182 269 50 5 647 912 640842433 640842698 1.220000e-41 182.0
41 TraesCS6A01G100400 chr3A 77.667 300 57 8 619 912 690116680 690116385 2.040000e-39 174.0
42 TraesCS6A01G100400 chr3A 87.356 87 7 3 5392 5477 727071330 727071247 4.540000e-16 97.1
43 TraesCS6A01G100400 chrUn 76.174 298 55 9 614 906 299938140 299937854 5.750000e-30 143.0
44 TraesCS6A01G100400 chrUn 76.174 298 55 9 614 906 337008864 337009150 5.750000e-30 143.0
45 TraesCS6A01G100400 chrUn 85.507 69 6 2 3284 3349 412748943 412748876 9.890000e-08 69.4
46 TraesCS6A01G100400 chrUn 77.778 108 21 3 3322 3427 51909493 51909599 4.600000e-06 63.9
47 TraesCS6A01G100400 chrUn 77.778 108 21 3 3322 3427 290970679 290970785 4.600000e-06 63.9
48 TraesCS6A01G100400 chr4B 96.875 64 2 0 5396 5459 664364420 664364357 2.100000e-19 108.0
49 TraesCS6A01G100400 chr4B 77.778 108 21 3 3322 3427 2693286 2693392 4.600000e-06 63.9
50 TraesCS6A01G100400 chr4B 77.570 107 22 2 3322 3427 2704801 2704906 4.600000e-06 63.9
51 TraesCS6A01G100400 chr7B 78.767 146 31 0 1609 1754 667146755 667146610 1.260000e-16 99.0
52 TraesCS6A01G100400 chr2A 92.537 67 5 0 5395 5461 70149664 70149730 4.540000e-16 97.1
53 TraesCS6A01G100400 chr5A 91.304 69 0 1 5396 5458 279117359 279117427 7.590000e-14 89.8
54 TraesCS6A01G100400 chr5A 88.406 69 6 2 5406 5472 580938469 580938537 1.270000e-11 82.4
55 TraesCS6A01G100400 chr2D 90.141 71 3 1 5396 5462 447496969 447497039 7.590000e-14 89.8
56 TraesCS6A01G100400 chr2D 96.970 33 1 0 5384 5416 343104433 343104465 7.700000e-04 56.5
57 TraesCS6A01G100400 chr5D 81.513 119 11 7 43 150 41550702 41550584 2.730000e-13 87.9
58 TraesCS6A01G100400 chr4D 76.000 150 30 4 3282 3427 3227231 3227084 7.650000e-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 TraesCS6A01G100400 chr6A 67640406 67645907 5501 False 10161.000000 10161 100.000000 1 5502 1 chr6A.!!$F2 5501
1 TraesCS6A01G100400 chr6D 47634536 47639925 5389 True 2652.333333 5685 94.811667 1 5397 3 chr6D.!!$R5 5396
2 TraesCS6A01G100400 chr6D 34583060 34588541 5481 True 551.500000 665 77.043500 1577 2795 2 chr6D.!!$R4 1218
3 TraesCS6A01G100400 chr6D 2699404 2699992 588 True 250.000000 250 75.689000 3927 4508 1 chr6D.!!$R1 581
4 TraesCS6A01G100400 chr6B 123909666 123915042 5376 False 2438.500000 5478 93.229333 1 5502 3 chr6B.!!$F3 5501
5 TraesCS6A01G100400 chr6B 71491012 71496559 5547 True 534.000000 667 76.638000 1577 2795 2 chr6B.!!$R2 1218
6 TraesCS6A01G100400 chr1A 560180055 560181322 1267 True 1011.000000 1011 81.157000 1509 2781 1 chr1A.!!$R2 1272
7 TraesCS6A01G100400 chr1B 645707388 645708654 1266 False 946.000000 946 80.328000 1512 2781 1 chr1B.!!$F1 1269
8 TraesCS6A01G100400 chr1D 467801323 467802515 1192 False 913.000000 913 80.611000 1576 2781 1 chr1D.!!$F2 1205
9 TraesCS6A01G100400 chr7A 56978844 56979450 606 True 207.000000 207 73.576000 299 917 1 chr7A.!!$R1 618

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
800 809 0.034337 GTAGGGGAACGACAACAGCA 59.966 55.0 0.0 0.0 0.00 4.41 F
1030 1052 0.534203 GTGAGGCCGTGACTCCAAAA 60.534 55.0 0.0 0.0 36.76 2.44 F
1357 1382 0.978146 CGGTGAGACCTCCAATCCCT 60.978 60.0 0.0 0.0 35.66 4.20 F
3081 7818 0.885196 GTTTGGCCCATTGAGCGTAA 59.115 50.0 0.0 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2178 6902 0.950116 GCAGCATATGAGGGAGTTGC 59.050 55.000 6.97 0.0 0.00 4.17 R
2481 7205 2.200067 GTGTGATCTCGCATCCTCAAG 58.800 52.381 3.52 0.0 38.74 3.02 R
3201 7938 4.137543 GGGATAGTAGCATTTGTGAAGGG 58.862 47.826 0.00 0.0 0.00 3.95 R
4615 9454 0.249868 CACCAAGACTCGAGGCAACA 60.250 55.000 22.94 0.0 41.41 3.33 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
90 92 6.098017 GCTTAAGTCGGTTGTAGTTAGTGAT 58.902 40.000 4.02 0.00 0.00 3.06
99 101 8.192774 TCGGTTGTAGTTAGTGATAAGGTAATG 58.807 37.037 0.00 0.00 0.00 1.90
155 157 9.525409 CCCAGTTTTCAATCAATGAGATTAATC 57.475 33.333 7.41 7.41 45.06 1.75
263 265 9.440784 GTGTAATCGTTCATTTGAAACTTGTTA 57.559 29.630 0.00 0.00 35.58 2.41
344 346 1.272704 GGCAAACTTTCCCCTCCAGAT 60.273 52.381 0.00 0.00 0.00 2.90
351 353 3.660669 ACTTTCCCCTCCAGATTTTACCA 59.339 43.478 0.00 0.00 0.00 3.25
353 355 2.929301 TCCCCTCCAGATTTTACCAGT 58.071 47.619 0.00 0.00 0.00 4.00
372 374 2.925170 AGCCTGTGGACTCGCCTT 60.925 61.111 0.00 0.00 37.63 4.35
389 391 2.754664 CTTCCCTCTGCCTGCCGTTT 62.755 60.000 0.00 0.00 0.00 3.60
436 439 3.708544 CCACCTCCGCCCCGTTAA 61.709 66.667 0.00 0.00 0.00 2.01
492 496 1.009108 CGCTCGAGCAGATGACGAT 60.009 57.895 34.69 0.00 42.21 3.73
520 524 4.386867 TCTTCAAGTTTGTCTGTCGAGT 57.613 40.909 0.00 0.00 0.00 4.18
550 559 2.618053 CTTTAGTTCGTCCGCTTGGAT 58.382 47.619 0.00 0.00 45.53 3.41
564 573 2.101582 GCTTGGATGTAGTCGATGGAGT 59.898 50.000 0.00 0.00 0.00 3.85
581 590 3.637229 TGGAGTTCCGACATAGATTCCTC 59.363 47.826 0.00 0.00 39.43 3.71
583 592 3.637229 GAGTTCCGACATAGATTCCTCCA 59.363 47.826 0.00 0.00 0.00 3.86
597 606 1.557269 CCTCCAGTCTCCTTGGGGTG 61.557 65.000 0.00 0.00 34.17 4.61
637 646 2.904434 GGGGTGAGGTTAGAGTTTCTCA 59.096 50.000 0.00 0.00 34.34 3.27
665 674 2.271800 GCGAGATTTGGTGTCAGGTAG 58.728 52.381 0.00 0.00 0.00 3.18
693 702 6.882610 AATCTATGCAAGAGTTCAACAACA 57.117 33.333 0.00 0.00 37.74 3.33
703 712 3.331150 AGTTCAACAACAACGACTGTGA 58.669 40.909 0.00 0.00 38.67 3.58
710 719 2.675844 CAACAACGACTGTGACTCCAAA 59.324 45.455 0.00 0.00 38.67 3.28
742 751 3.808036 GGGCACGTGCACGAATAT 58.192 55.556 42.94 20.39 44.36 1.28
773 782 2.224281 TGTCATCGACAAAGGTCAAGCT 60.224 45.455 0.00 0.00 44.54 3.74
800 809 0.034337 GTAGGGGAACGACAACAGCA 59.966 55.000 0.00 0.00 0.00 4.41
823 832 3.449227 TCGGCGGCTCGTTCTGAT 61.449 61.111 7.21 0.00 0.00 2.90
825 834 2.184322 GGCGGCTCGTTCTGATGA 59.816 61.111 0.00 0.00 0.00 2.92
989 1009 5.422214 AAGTATCTCACGGGAAATTCACT 57.578 39.130 0.00 0.00 0.00 3.41
998 1018 2.814097 CGGGAAATTCACTTGACCCAGT 60.814 50.000 0.00 0.00 35.32 4.00
1003 1023 4.713792 AATTCACTTGACCCAGTTCTCT 57.286 40.909 0.00 0.00 0.00 3.10
1004 1024 5.825593 AATTCACTTGACCCAGTTCTCTA 57.174 39.130 0.00 0.00 0.00 2.43
1009 1029 0.617820 TGACCCAGTTCTCTAGCCCC 60.618 60.000 0.00 0.00 0.00 5.80
1010 1030 1.307084 ACCCAGTTCTCTAGCCCCC 60.307 63.158 0.00 0.00 0.00 5.40
1011 1031 2.435693 CCCAGTTCTCTAGCCCCCG 61.436 68.421 0.00 0.00 0.00 5.73
1012 1032 1.686110 CCAGTTCTCTAGCCCCCGT 60.686 63.158 0.00 0.00 0.00 5.28
1013 1033 1.517832 CAGTTCTCTAGCCCCCGTG 59.482 63.158 0.00 0.00 0.00 4.94
1014 1034 0.970937 CAGTTCTCTAGCCCCCGTGA 60.971 60.000 0.00 0.00 0.00 4.35
1015 1035 0.684805 AGTTCTCTAGCCCCCGTGAG 60.685 60.000 0.00 0.00 0.00 3.51
1030 1052 0.534203 GTGAGGCCGTGACTCCAAAA 60.534 55.000 0.00 0.00 36.76 2.44
1044 1066 6.535150 GTGACTCCAAAAGAAAAAGAAAAGGG 59.465 38.462 0.00 0.00 0.00 3.95
1047 1069 5.656480 TCCAAAAGAAAAAGAAAAGGGTCG 58.344 37.500 0.00 0.00 0.00 4.79
1171 1196 7.233553 TGAGTTCTTCTTCTTCCTGTAATCTCA 59.766 37.037 0.00 0.00 0.00 3.27
1192 1217 7.762382 TCTCACAGTTTCCTTTTTCTTTTCTC 58.238 34.615 0.00 0.00 0.00 2.87
1214 1239 1.469308 TCTCTTCTCTTCTCGCGGAAC 59.531 52.381 6.13 0.00 0.00 3.62
1273 1298 5.728351 TTACCGTAATTGCATCTACTTGC 57.272 39.130 0.00 0.00 43.07 4.01
1304 1329 2.038975 TAGCTGAGGCGGGAAGGT 59.961 61.111 0.00 0.00 44.37 3.50
1357 1382 0.978146 CGGTGAGACCTCCAATCCCT 60.978 60.000 0.00 0.00 35.66 4.20
1568 1600 2.203252 CCAGACATCCATGGGCCG 60.203 66.667 13.02 3.02 32.63 6.13
1569 1601 2.903855 CAGACATCCATGGGCCGC 60.904 66.667 13.02 0.00 0.00 6.53
1570 1602 4.552365 AGACATCCATGGGCCGCG 62.552 66.667 13.02 0.00 0.00 6.46
1593 1631 3.366070 CGATATCCGAGGTGCTTAACGAT 60.366 47.826 0.00 0.00 41.76 3.73
1600 1638 3.064207 GAGGTGCTTAACGATGACAACA 58.936 45.455 0.00 0.00 0.00 3.33
1804 1842 2.775032 TACTCCGCGCTTTGTCCCAC 62.775 60.000 5.56 0.00 0.00 4.61
2178 6902 2.461110 GCATACCTCGGCCACAACG 61.461 63.158 2.24 0.00 0.00 4.10
2481 7205 2.042686 TGCATCAGATGTGGGCTAAC 57.957 50.000 12.18 0.00 0.00 2.34
2741 7466 6.409524 TGATCATGCAAGGTTTTCTCTTTT 57.590 33.333 0.00 0.00 0.00 2.27
2742 7467 6.218019 TGATCATGCAAGGTTTTCTCTTTTG 58.782 36.000 0.00 0.00 0.00 2.44
2743 7468 5.850557 TCATGCAAGGTTTTCTCTTTTGA 57.149 34.783 0.00 0.00 0.00 2.69
2744 7469 6.219417 TCATGCAAGGTTTTCTCTTTTGAA 57.781 33.333 0.00 0.00 0.00 2.69
2826 7552 3.655276 ATACTGCGGGTAATACCTTCG 57.345 47.619 9.58 6.57 38.64 3.79
2834 7560 5.068987 TGCGGGTAATACCTTCGTATTAAGT 59.931 40.000 9.58 0.00 44.94 2.24
2836 7562 6.479990 GCGGGTAATACCTTCGTATTAAGTTT 59.520 38.462 9.58 0.00 44.94 2.66
2864 7601 8.867112 TCTGTACCTAACATGATTTATTCGAC 57.133 34.615 0.00 0.00 37.50 4.20
2878 7615 1.865865 TTCGACTCACTTGTGGAAGC 58.134 50.000 0.64 0.00 32.43 3.86
3035 7772 7.821595 TGTACCAAGTAAATACTCATTGTCG 57.178 36.000 0.00 0.00 34.99 4.35
3054 7791 4.873827 TGTCGGAGGTTTCTAAATATGTGC 59.126 41.667 0.00 0.00 0.00 4.57
3081 7818 0.885196 GTTTGGCCCATTGAGCGTAA 59.115 50.000 0.00 0.00 0.00 3.18
3229 7966 5.903010 TCACAAATGCTACTATCCCTTCCTA 59.097 40.000 0.00 0.00 0.00 2.94
3230 7967 6.558775 TCACAAATGCTACTATCCCTTCCTAT 59.441 38.462 0.00 0.00 0.00 2.57
3231 7968 6.876257 CACAAATGCTACTATCCCTTCCTATC 59.124 42.308 0.00 0.00 0.00 2.08
3232 7969 6.558775 ACAAATGCTACTATCCCTTCCTATCA 59.441 38.462 0.00 0.00 0.00 2.15
3233 7970 7.072454 ACAAATGCTACTATCCCTTCCTATCAA 59.928 37.037 0.00 0.00 0.00 2.57
3234 7971 6.865834 ATGCTACTATCCCTTCCTATCAAG 57.134 41.667 0.00 0.00 0.00 3.02
3235 7972 5.716979 TGCTACTATCCCTTCCTATCAAGT 58.283 41.667 0.00 0.00 0.00 3.16
3425 8164 6.722301 CAGGTGAAGTAAATCTATGTGCATG 58.278 40.000 0.00 0.00 0.00 4.06
3563 8303 9.832445 AAAGAGAACTTGTCTTTGAGTTACATA 57.168 29.630 12.02 0.00 41.66 2.29
3587 8327 3.316588 CGGATGTGTCTGCTATGTACTCT 59.683 47.826 0.00 0.00 0.00 3.24
3671 8411 3.060070 AGGTACGTTTCTTTTTCGCGAAG 60.060 43.478 22.21 10.96 0.00 3.79
3816 8560 1.574339 CCTAGAGGGACAGGGGTTAGA 59.426 57.143 0.00 0.00 37.23 2.10
3880 8624 5.642063 TCAATCCTTTGTATGTTCGGAGTTC 59.358 40.000 0.00 0.00 34.32 3.01
4030 8840 4.018688 GTGTGGTTTTCCCCTCTATAACCT 60.019 45.833 0.00 0.00 39.16 3.50
4086 8904 8.299570 CAGGGCATTTATTATATGAACAGTTCC 58.700 37.037 10.93 0.00 0.00 3.62
4111 8929 3.368495 GTTTTGACTTTTGGGTACTGCG 58.632 45.455 0.00 0.00 0.00 5.18
4136 8963 4.223923 AGAGTTGGACCTCCATTTGTAGAG 59.776 45.833 0.00 0.00 46.97 2.43
4222 9054 1.452145 GCTTTGAACAGGGACGCCAA 61.452 55.000 0.00 0.00 0.00 4.52
4386 9220 3.255397 AGTTGCTGCTCTGCCCCT 61.255 61.111 0.00 0.00 0.00 4.79
4425 9259 9.624697 CTTGTATGTTTATGCTTGAAAAAGCTA 57.375 29.630 11.39 0.00 45.66 3.32
4511 9350 1.717937 GCAATGTGCAGCTCTACCG 59.282 57.895 0.00 0.00 44.26 4.02
4512 9351 0.740868 GCAATGTGCAGCTCTACCGA 60.741 55.000 0.00 0.00 44.26 4.69
4513 9352 1.002366 CAATGTGCAGCTCTACCGAC 58.998 55.000 0.00 0.00 0.00 4.79
4514 9353 0.898320 AATGTGCAGCTCTACCGACT 59.102 50.000 0.00 0.00 0.00 4.18
4515 9354 0.174389 ATGTGCAGCTCTACCGACTG 59.826 55.000 0.00 0.00 34.48 3.51
4516 9355 1.179174 TGTGCAGCTCTACCGACTGT 61.179 55.000 0.00 0.00 33.87 3.55
4517 9356 0.038159 GTGCAGCTCTACCGACTGTT 60.038 55.000 0.00 0.00 33.87 3.16
4518 9357 0.679505 TGCAGCTCTACCGACTGTTT 59.320 50.000 0.00 0.00 33.87 2.83
4554 9393 0.692476 ACCTGGCAACTCAGTATGCA 59.308 50.000 12.24 0.00 44.32 3.96
4591 9430 6.652900 GCTAAATACAAGATCCTTCTCCATCC 59.347 42.308 0.00 0.00 0.00 3.51
4658 9497 5.482908 CACACTAACCTATGAAGCTCAACT 58.517 41.667 0.00 0.00 0.00 3.16
4680 9519 6.584488 ACTCTATCTCGAACTGAGCTACTAA 58.416 40.000 0.00 0.00 44.86 2.24
4746 9585 2.546494 GCTTGCACCTGCTTGACGT 61.546 57.895 0.00 0.00 42.66 4.34
4850 9689 6.521477 CAGAATGTTATCGTAGTCGCTGATAG 59.479 42.308 0.00 0.00 36.96 2.08
4907 9746 0.674581 TGCAAGACCAAGATCCGCAG 60.675 55.000 0.00 0.00 0.00 5.18
5082 9922 1.627834 CCAAGCACTCCTCTTCCTTCT 59.372 52.381 0.00 0.00 0.00 2.85
5136 9976 3.453070 GAGCTCATCCCCGCCTCAC 62.453 68.421 9.40 0.00 0.00 3.51
5236 10078 1.620259 CCTCTGCCTCCTCCTCTCT 59.380 63.158 0.00 0.00 0.00 3.10
5241 10083 1.529713 GCCTCCTCCTCTCTACCCG 60.530 68.421 0.00 0.00 0.00 5.28
5397 10241 8.189460 ACAGTACTTAGTAATGCTTGCTACTAC 58.811 37.037 18.07 0.00 37.58 2.73
5398 10242 8.407064 CAGTACTTAGTAATGCTTGCTACTACT 58.593 37.037 6.90 4.91 31.82 2.57
5399 10243 8.623030 AGTACTTAGTAATGCTTGCTACTACTC 58.377 37.037 0.00 0.00 31.82 2.59
5400 10244 6.807789 ACTTAGTAATGCTTGCTACTACTCC 58.192 40.000 2.54 0.00 31.82 3.85
5401 10245 4.674281 AGTAATGCTTGCTACTACTCCC 57.326 45.455 0.00 0.00 0.00 4.30
5402 10246 4.290942 AGTAATGCTTGCTACTACTCCCT 58.709 43.478 0.00 0.00 0.00 4.20
5403 10247 3.828875 AATGCTTGCTACTACTCCCTC 57.171 47.619 0.00 0.00 0.00 4.30
5404 10248 1.486211 TGCTTGCTACTACTCCCTCC 58.514 55.000 0.00 0.00 0.00 4.30
5405 10249 0.386113 GCTTGCTACTACTCCCTCCG 59.614 60.000 0.00 0.00 0.00 4.63
5406 10250 1.765230 CTTGCTACTACTCCCTCCGT 58.235 55.000 0.00 0.00 0.00 4.69
5407 10251 2.100989 CTTGCTACTACTCCCTCCGTT 58.899 52.381 0.00 0.00 0.00 4.44
5408 10252 1.760192 TGCTACTACTCCCTCCGTTC 58.240 55.000 0.00 0.00 0.00 3.95
5409 10253 1.031235 GCTACTACTCCCTCCGTTCC 58.969 60.000 0.00 0.00 0.00 3.62
5410 10254 1.684248 GCTACTACTCCCTCCGTTCCA 60.684 57.143 0.00 0.00 0.00 3.53
5411 10255 2.731572 CTACTACTCCCTCCGTTCCAA 58.268 52.381 0.00 0.00 0.00 3.53
5412 10256 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
5413 10257 2.547990 ACTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
5414 10258 2.910977 ACTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
5415 10259 4.098894 ACTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
5416 10260 4.720273 ACTACTCCCTCCGTTCCAAATTAT 59.280 41.667 0.00 0.00 0.00 1.28
5417 10261 4.586306 ACTCCCTCCGTTCCAAATTATT 57.414 40.909 0.00 0.00 0.00 1.40
5418 10262 4.270008 ACTCCCTCCGTTCCAAATTATTG 58.730 43.478 0.00 0.00 36.25 1.90
5419 10263 4.018779 ACTCCCTCCGTTCCAAATTATTGA 60.019 41.667 0.00 0.00 38.94 2.57
5420 10264 4.924625 TCCCTCCGTTCCAAATTATTGAA 58.075 39.130 0.00 0.00 38.94 2.69
5421 10265 4.703093 TCCCTCCGTTCCAAATTATTGAAC 59.297 41.667 5.15 5.15 38.94 3.18
5422 10266 4.705023 CCCTCCGTTCCAAATTATTGAACT 59.295 41.667 10.89 0.00 38.94 3.01
5423 10267 5.883673 CCCTCCGTTCCAAATTATTGAACTA 59.116 40.000 10.89 2.18 38.94 2.24
5424 10268 6.376018 CCCTCCGTTCCAAATTATTGAACTAA 59.624 38.462 10.89 1.96 38.94 2.24
5425 10269 7.094118 CCCTCCGTTCCAAATTATTGAACTAAA 60.094 37.037 10.89 0.28 38.94 1.85
5426 10270 8.301002 CCTCCGTTCCAAATTATTGAACTAAAA 58.699 33.333 10.89 0.00 38.94 1.52
5427 10271 9.124807 CTCCGTTCCAAATTATTGAACTAAAAC 57.875 33.333 10.89 0.00 38.94 2.43
5428 10272 8.083462 TCCGTTCCAAATTATTGAACTAAAACC 58.917 33.333 10.89 0.00 38.94 3.27
5429 10273 7.868415 CCGTTCCAAATTATTGAACTAAAACCA 59.132 33.333 10.89 0.00 38.94 3.67
5430 10274 8.696175 CGTTCCAAATTATTGAACTAAAACCAC 58.304 33.333 10.89 0.00 38.94 4.16
5431 10275 9.535878 GTTCCAAATTATTGAACTAAAACCACA 57.464 29.630 7.17 0.00 38.94 4.17
5433 10277 9.535878 TCCAAATTATTGAACTAAAACCACAAC 57.464 29.630 0.00 0.00 38.94 3.32
5434 10278 8.484008 CCAAATTATTGAACTAAAACCACAACG 58.516 33.333 0.00 0.00 38.94 4.10
5435 10279 9.239002 CAAATTATTGAACTAAAACCACAACGA 57.761 29.630 0.00 0.00 38.94 3.85
5436 10280 9.458374 AAATTATTGAACTAAAACCACAACGAG 57.542 29.630 0.00 0.00 0.00 4.18
5437 10281 7.556733 TTATTGAACTAAAACCACAACGAGT 57.443 32.000 0.00 0.00 0.00 4.18
5438 10282 8.659925 TTATTGAACTAAAACCACAACGAGTA 57.340 30.769 0.00 0.00 0.00 2.59
5439 10283 6.981762 TTGAACTAAAACCACAACGAGTAA 57.018 33.333 0.00 0.00 0.00 2.24
5440 10284 7.556733 TTGAACTAAAACCACAACGAGTAAT 57.443 32.000 0.00 0.00 0.00 1.89
5441 10285 7.556733 TGAACTAAAACCACAACGAGTAATT 57.443 32.000 0.00 0.00 0.00 1.40
5442 10286 7.987649 TGAACTAAAACCACAACGAGTAATTT 58.012 30.769 0.00 0.00 0.00 1.82
5443 10287 7.911205 TGAACTAAAACCACAACGAGTAATTTG 59.089 33.333 0.00 0.00 0.00 2.32
5444 10288 6.731164 ACTAAAACCACAACGAGTAATTTGG 58.269 36.000 0.00 0.00 0.00 3.28
5445 10289 5.838531 AAAACCACAACGAGTAATTTGGA 57.161 34.783 0.00 0.00 0.00 3.53
5446 10290 5.838531 AAACCACAACGAGTAATTTGGAA 57.161 34.783 0.00 0.00 0.00 3.53
5447 10291 4.823790 ACCACAACGAGTAATTTGGAAC 57.176 40.909 0.00 0.00 0.00 3.62
5448 10292 3.249080 ACCACAACGAGTAATTTGGAACG 59.751 43.478 0.00 0.00 0.00 3.95
5449 10293 3.364565 CCACAACGAGTAATTTGGAACGG 60.365 47.826 0.00 0.00 0.00 4.44
5450 10294 3.495377 CACAACGAGTAATTTGGAACGGA 59.505 43.478 0.00 0.00 0.00 4.69
5451 10295 3.744426 ACAACGAGTAATTTGGAACGGAG 59.256 43.478 0.00 0.00 0.00 4.63
5452 10296 2.968675 ACGAGTAATTTGGAACGGAGG 58.031 47.619 0.00 0.00 0.00 4.30
5453 10297 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
5454 10298 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
5455 10299 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
5456 10300 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
5457 10301 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
5497 10341 0.463654 TTGCATGGTGACGATAGCCC 60.464 55.000 0.00 0.00 42.67 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 101 2.930682 CCTTCTTTACGAGGCAGTTAGC 59.069 50.000 0.00 0.00 44.65 3.09
283 285 6.698380 AGCAAGGAAACGAGAGAAAGTAATA 58.302 36.000 0.00 0.00 0.00 0.98
286 288 4.602340 AGCAAGGAAACGAGAGAAAGTA 57.398 40.909 0.00 0.00 0.00 2.24
351 353 2.936912 GCGAGTCCACAGGCTCACT 61.937 63.158 0.00 0.00 0.00 3.41
353 355 3.695606 GGCGAGTCCACAGGCTCA 61.696 66.667 0.00 0.00 34.01 4.26
372 374 3.249189 AAACGGCAGGCAGAGGGA 61.249 61.111 0.00 0.00 0.00 4.20
429 432 4.847198 ACCTAACCCAAACTATTAACGGG 58.153 43.478 0.00 0.00 43.02 5.28
492 496 6.402118 CGACAGACAAACTTGAAGAAGAAACA 60.402 38.462 0.00 0.00 32.98 2.83
520 524 3.368739 GGACGAACTAAAGGGGATCGAAA 60.369 47.826 0.00 0.00 37.27 3.46
550 559 1.741706 GTCGGAACTCCATCGACTACA 59.258 52.381 7.68 0.00 46.49 2.74
564 573 3.637229 GACTGGAGGAATCTATGTCGGAA 59.363 47.826 0.00 0.00 0.00 4.30
571 580 4.230455 CCAAGGAGACTGGAGGAATCTAT 58.770 47.826 0.00 0.00 42.68 1.98
581 590 2.606587 CCCACCCCAAGGAGACTGG 61.607 68.421 0.00 0.00 42.68 4.00
637 646 2.019249 CACCAAATCTCGCCACATGAT 58.981 47.619 0.00 0.00 0.00 2.45
665 674 7.362662 TGTTGAACTCTTGCATAGATTTGAAC 58.637 34.615 16.14 16.14 38.89 3.18
693 702 1.931172 CGTTTTGGAGTCACAGTCGTT 59.069 47.619 0.00 0.00 0.00 3.85
710 719 1.377612 GCCCCTTAGGACCAACGTT 59.622 57.895 0.00 0.00 38.24 3.99
722 731 2.457743 TATTCGTGCACGTGCCCCTT 62.458 55.000 35.72 19.38 41.18 3.95
742 751 0.108804 GTCGATGACAGCCGAGGAAA 60.109 55.000 3.36 0.00 35.31 3.13
823 832 1.611977 CCTGAACGACCACTACTGTCA 59.388 52.381 0.00 0.00 32.91 3.58
825 834 1.612463 GACCTGAACGACCACTACTGT 59.388 52.381 0.00 0.00 0.00 3.55
937 956 6.670695 AGGGAACTGCAAAACTTTATTCAT 57.329 33.333 0.00 0.00 41.13 2.57
989 1009 1.276622 GGGCTAGAGAACTGGGTCAA 58.723 55.000 0.00 0.00 0.00 3.18
998 1018 1.381327 CCTCACGGGGGCTAGAGAA 60.381 63.158 0.00 0.00 0.00 2.87
1009 1029 4.436998 GGAGTCACGGCCTCACGG 62.437 72.222 0.00 0.00 38.39 4.94
1010 1030 2.709125 TTTGGAGTCACGGCCTCACG 62.709 60.000 0.00 0.00 40.31 4.35
1011 1031 0.534203 TTTTGGAGTCACGGCCTCAC 60.534 55.000 0.00 0.00 0.00 3.51
1012 1032 0.250295 CTTTTGGAGTCACGGCCTCA 60.250 55.000 0.00 0.00 0.00 3.86
1013 1033 0.034896 TCTTTTGGAGTCACGGCCTC 59.965 55.000 0.00 0.00 0.00 4.70
1014 1034 0.472471 TTCTTTTGGAGTCACGGCCT 59.528 50.000 0.00 0.00 0.00 5.19
1015 1035 1.314730 TTTCTTTTGGAGTCACGGCC 58.685 50.000 0.00 0.00 0.00 6.13
1016 1036 3.066203 TCTTTTTCTTTTGGAGTCACGGC 59.934 43.478 0.00 0.00 0.00 5.68
1030 1052 3.628008 ACACCGACCCTTTTCTTTTTCT 58.372 40.909 0.00 0.00 0.00 2.52
1112 1134 1.613630 GGAGAGGGAGGTGAAGCCA 60.614 63.158 0.00 0.00 40.61 4.75
1113 1135 2.371259 GGGAGAGGGAGGTGAAGCC 61.371 68.421 0.00 0.00 37.58 4.35
1118 1140 1.739338 CGAATCGGGAGAGGGAGGTG 61.739 65.000 0.00 0.00 45.48 4.00
1171 1196 8.354711 AGAAGAGAAAAGAAAAAGGAAACTGT 57.645 30.769 0.00 0.00 42.68 3.55
1192 1217 1.740585 TCCGCGAGAAGAGAAGAGAAG 59.259 52.381 8.23 0.00 0.00 2.85
1214 1239 3.000727 CAAAACTGTAGCTAGGGTTCGG 58.999 50.000 10.47 0.00 0.00 4.30
1273 1298 2.105930 GCTAGGCTCCGCACTGAG 59.894 66.667 0.00 0.00 35.40 3.35
1332 1357 1.911766 GGAGGTCTCACCGTTGGGA 60.912 63.158 0.14 0.00 44.90 4.37
1357 1382 3.209843 TGGGGAGAATAGAAGAGATGGGA 59.790 47.826 0.00 0.00 0.00 4.37
1568 1600 3.106407 GCACCTCGGATATCGCGC 61.106 66.667 0.00 0.00 39.05 6.86
1569 1601 0.240145 TAAGCACCTCGGATATCGCG 59.760 55.000 0.00 0.00 39.05 5.87
1570 1602 2.059541 GTTAAGCACCTCGGATATCGC 58.940 52.381 0.00 0.00 39.05 4.58
1593 1631 3.068732 GGATCTCGATGAGGATGTTGTCA 59.931 47.826 0.00 0.00 0.00 3.58
1600 1638 3.364549 GGATGAGGATCTCGATGAGGAT 58.635 50.000 0.00 0.00 34.92 3.24
1659 1697 1.667830 GTACCAGCGCTTGCAGACA 60.668 57.895 7.50 0.00 42.66 3.41
2178 6902 0.950116 GCAGCATATGAGGGAGTTGC 59.050 55.000 6.97 0.00 0.00 4.17
2209 6933 4.481930 TTTTATCGTCAACAAGCACAGG 57.518 40.909 0.00 0.00 0.00 4.00
2481 7205 2.200067 GTGTGATCTCGCATCCTCAAG 58.800 52.381 3.52 0.00 38.74 3.02
2741 7466 6.252599 ACATAGATCATGTAAAGGCCTTCA 57.747 37.500 20.79 14.28 46.34 3.02
2836 7562 9.961265 CGAATAAATCATGTTAGGTACAGAGTA 57.039 33.333 0.00 0.00 40.83 2.59
2864 7601 5.757850 AACTTTAAGCTTCCACAAGTGAG 57.242 39.130 0.00 0.00 31.45 3.51
3054 7791 4.333372 GCTCAATGGGCCAAACAAAATATG 59.667 41.667 11.89 0.00 0.00 1.78
3081 7818 4.623932 TGTTGAGAGAGCTTGTACCATT 57.376 40.909 0.00 0.00 0.00 3.16
3099 7836 7.903995 ATTGCGTTCATCCAAAATTATTGTT 57.096 28.000 0.00 0.00 0.00 2.83
3201 7938 4.137543 GGGATAGTAGCATTTGTGAAGGG 58.862 47.826 0.00 0.00 0.00 3.95
3540 8279 8.587950 CGATATGTAACTCAAAGACAAGTTCTC 58.412 37.037 0.00 0.00 37.02 2.87
3542 8281 7.544566 TCCGATATGTAACTCAAAGACAAGTTC 59.455 37.037 0.00 0.00 37.02 3.01
3545 8284 7.492669 ACATCCGATATGTAACTCAAAGACAAG 59.507 37.037 1.98 0.00 0.00 3.16
3546 8285 7.277760 CACATCCGATATGTAACTCAAAGACAA 59.722 37.037 3.45 0.00 0.00 3.18
3563 8303 3.891977 AGTACATAGCAGACACATCCGAT 59.108 43.478 0.00 0.00 0.00 4.18
3587 8327 4.804597 AGCTGTACTATCATACCTCCACA 58.195 43.478 0.00 0.00 0.00 4.17
3759 8499 4.320714 CCTTGATTGCCCATTGTGATATCG 60.321 45.833 0.00 0.00 0.00 2.92
3816 8560 3.861131 GCTTGACGACCACAGTTCATAGT 60.861 47.826 0.00 0.00 0.00 2.12
3880 8624 7.072177 ACACATCAATTCCGTTATACAACAG 57.928 36.000 0.00 0.00 34.05 3.16
3897 8641 4.476628 AGCATACAGACATGACACATCA 57.523 40.909 0.00 0.00 39.83 3.07
3985 8792 6.044637 ACACCCAGGTACCATACTTTTTAGAA 59.955 38.462 15.94 0.00 0.00 2.10
4030 8840 1.440618 TCCCTCCCAAACTACAAGCA 58.559 50.000 0.00 0.00 0.00 3.91
4086 8904 5.212194 CAGTACCCAAAAGTCAAAACGATG 58.788 41.667 0.00 0.00 0.00 3.84
4136 8963 4.202111 GGATCTGGAGAACTGAGAAGTAGC 60.202 50.000 0.00 0.00 0.00 3.58
4222 9054 3.136626 CCGGATATCCCCTTTTCTTCACT 59.863 47.826 16.36 0.00 0.00 3.41
4425 9259 2.746279 AGATCGGACTCTGGACAGAT 57.254 50.000 2.00 0.00 36.76 2.90
4508 9347 7.414098 GCAAAATATCATCTGTAAACAGTCGGT 60.414 37.037 9.81 2.08 44.12 4.69
4509 9348 6.907212 GCAAAATATCATCTGTAAACAGTCGG 59.093 38.462 9.81 1.97 44.12 4.79
4510 9349 7.426456 GTGCAAAATATCATCTGTAAACAGTCG 59.574 37.037 9.81 3.20 44.12 4.18
4511 9350 7.698130 GGTGCAAAATATCATCTGTAAACAGTC 59.302 37.037 9.81 0.00 44.12 3.51
4512 9351 7.394359 AGGTGCAAAATATCATCTGTAAACAGT 59.606 33.333 9.81 0.00 44.12 3.55
4513 9352 7.699391 CAGGTGCAAAATATCATCTGTAAACAG 59.301 37.037 3.64 3.64 45.08 3.16
4514 9353 7.362834 CCAGGTGCAAAATATCATCTGTAAACA 60.363 37.037 0.00 0.00 39.22 2.83
4515 9354 6.974622 CCAGGTGCAAAATATCATCTGTAAAC 59.025 38.462 0.00 0.00 39.22 2.01
4516 9355 6.405731 GCCAGGTGCAAAATATCATCTGTAAA 60.406 38.462 0.00 0.00 39.22 2.01
4517 9356 5.067674 GCCAGGTGCAAAATATCATCTGTAA 59.932 40.000 0.00 0.00 39.22 2.41
4518 9357 4.580167 GCCAGGTGCAAAATATCATCTGTA 59.420 41.667 0.00 0.00 39.22 2.74
4554 9393 5.764686 TCTTGTATTTAGCGCAATCCATCAT 59.235 36.000 11.47 0.00 0.00 2.45
4615 9454 0.249868 CACCAAGACTCGAGGCAACA 60.250 55.000 22.94 0.00 41.41 3.33
4658 9497 6.072948 GCATTAGTAGCTCAGTTCGAGATAGA 60.073 42.308 0.00 0.00 43.14 1.98
4680 9519 7.043391 GCTCGAACTTTTTGTTAGAAAAAGCAT 60.043 33.333 21.86 13.88 45.98 3.79
4850 9689 8.502161 AACAAAAGATAATAAGCACGTCAAAC 57.498 30.769 0.00 0.00 0.00 2.93
4907 9746 4.021016 TCTCAAGTAGGCAAAGTTCTCCTC 60.021 45.833 0.00 0.00 0.00 3.71
4955 9794 9.374838 GTAATTCCTAGAACGAACCTTAATGAA 57.625 33.333 0.00 0.00 0.00 2.57
5136 9976 2.284921 TGGAGGGGACAGGAGCTG 60.285 66.667 0.00 0.00 37.52 4.24
5208 10050 2.376855 AGGAGGCAGAGGCTAACTTTTT 59.623 45.455 0.00 0.00 38.98 1.94
5209 10051 1.988846 AGGAGGCAGAGGCTAACTTTT 59.011 47.619 0.00 0.00 38.98 2.27
5212 10054 0.689412 GGAGGAGGCAGAGGCTAACT 60.689 60.000 0.00 0.00 38.98 2.24
5236 10078 2.037251 GCAAGCTTATCTCATCCGGGTA 59.963 50.000 0.00 0.00 0.00 3.69
5397 10241 4.523083 TCAATAATTTGGAACGGAGGGAG 58.477 43.478 0.00 0.00 33.44 4.30
5398 10242 4.577988 TCAATAATTTGGAACGGAGGGA 57.422 40.909 0.00 0.00 33.44 4.20
5399 10243 4.705023 AGTTCAATAATTTGGAACGGAGGG 59.295 41.667 9.49 0.00 32.68 4.30
5400 10244 5.897377 AGTTCAATAATTTGGAACGGAGG 57.103 39.130 9.49 0.00 32.68 4.30
5401 10245 9.124807 GTTTTAGTTCAATAATTTGGAACGGAG 57.875 33.333 9.49 0.00 32.68 4.63
5402 10246 8.083462 GGTTTTAGTTCAATAATTTGGAACGGA 58.917 33.333 9.49 2.59 32.68 4.69
5403 10247 7.868415 TGGTTTTAGTTCAATAATTTGGAACGG 59.132 33.333 9.49 0.00 32.68 4.44
5404 10248 8.696175 GTGGTTTTAGTTCAATAATTTGGAACG 58.304 33.333 9.49 0.00 32.68 3.95
5405 10249 9.535878 TGTGGTTTTAGTTCAATAATTTGGAAC 57.464 29.630 7.92 7.92 33.44 3.62
5407 10251 9.535878 GTTGTGGTTTTAGTTCAATAATTTGGA 57.464 29.630 0.00 0.00 33.44 3.53
5408 10252 8.484008 CGTTGTGGTTTTAGTTCAATAATTTGG 58.516 33.333 0.00 0.00 33.44 3.28
5409 10253 9.239002 TCGTTGTGGTTTTAGTTCAATAATTTG 57.761 29.630 0.00 0.00 0.00 2.32
5410 10254 9.458374 CTCGTTGTGGTTTTAGTTCAATAATTT 57.542 29.630 0.00 0.00 0.00 1.82
5411 10255 8.626526 ACTCGTTGTGGTTTTAGTTCAATAATT 58.373 29.630 0.00 0.00 0.00 1.40
5412 10256 8.161699 ACTCGTTGTGGTTTTAGTTCAATAAT 57.838 30.769 0.00 0.00 0.00 1.28
5413 10257 7.556733 ACTCGTTGTGGTTTTAGTTCAATAA 57.443 32.000 0.00 0.00 0.00 1.40
5414 10258 8.659925 TTACTCGTTGTGGTTTTAGTTCAATA 57.340 30.769 0.00 0.00 0.00 1.90
5415 10259 7.556733 TTACTCGTTGTGGTTTTAGTTCAAT 57.443 32.000 0.00 0.00 0.00 2.57
5416 10260 6.981762 TTACTCGTTGTGGTTTTAGTTCAA 57.018 33.333 0.00 0.00 0.00 2.69
5417 10261 7.556733 AATTACTCGTTGTGGTTTTAGTTCA 57.443 32.000 0.00 0.00 0.00 3.18
5418 10262 7.377662 CCAAATTACTCGTTGTGGTTTTAGTTC 59.622 37.037 0.00 0.00 0.00 3.01
5419 10263 7.067251 TCCAAATTACTCGTTGTGGTTTTAGTT 59.933 33.333 0.00 0.00 0.00 2.24
5420 10264 6.543100 TCCAAATTACTCGTTGTGGTTTTAGT 59.457 34.615 0.00 0.00 0.00 2.24
5421 10265 6.961576 TCCAAATTACTCGTTGTGGTTTTAG 58.038 36.000 0.00 0.00 0.00 1.85
5422 10266 6.939132 TCCAAATTACTCGTTGTGGTTTTA 57.061 33.333 0.00 0.00 0.00 1.52
5423 10267 5.838531 TCCAAATTACTCGTTGTGGTTTT 57.161 34.783 0.00 0.00 0.00 2.43
5424 10268 5.584442 GTTCCAAATTACTCGTTGTGGTTT 58.416 37.500 0.00 0.00 0.00 3.27
5425 10269 4.260866 CGTTCCAAATTACTCGTTGTGGTT 60.261 41.667 0.00 0.00 0.00 3.67
5426 10270 3.249080 CGTTCCAAATTACTCGTTGTGGT 59.751 43.478 0.00 0.00 0.00 4.16
5427 10271 3.364565 CCGTTCCAAATTACTCGTTGTGG 60.365 47.826 0.00 0.00 0.00 4.17
5428 10272 3.495377 TCCGTTCCAAATTACTCGTTGTG 59.505 43.478 0.00 0.00 0.00 3.33
5429 10273 3.731089 TCCGTTCCAAATTACTCGTTGT 58.269 40.909 0.00 0.00 0.00 3.32
5430 10274 3.124636 CCTCCGTTCCAAATTACTCGTTG 59.875 47.826 0.00 0.00 0.00 4.10
5431 10275 3.332034 CCTCCGTTCCAAATTACTCGTT 58.668 45.455 0.00 0.00 0.00 3.85
5432 10276 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
5433 10277 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
5434 10278 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
5435 10279 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
5436 10280 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
5437 10281 4.098894 ACTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
5438 10282 2.910977 ACTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
5439 10283 2.547990 ACTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
5440 10284 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
5441 10285 2.905415 TACTACTCCCTCCGTTCCAA 57.095 50.000 0.00 0.00 0.00 3.53
5442 10286 4.105217 TCATATACTACTCCCTCCGTTCCA 59.895 45.833 0.00 0.00 0.00 3.53
5443 10287 4.458642 GTCATATACTACTCCCTCCGTTCC 59.541 50.000 0.00 0.00 0.00 3.62
5444 10288 5.068636 TGTCATATACTACTCCCTCCGTTC 58.931 45.833 0.00 0.00 0.00 3.95
5445 10289 5.057843 TGTCATATACTACTCCCTCCGTT 57.942 43.478 0.00 0.00 0.00 4.44
5446 10290 4.719026 TGTCATATACTACTCCCTCCGT 57.281 45.455 0.00 0.00 0.00 4.69
5447 10291 5.254115 TCATGTCATATACTACTCCCTCCG 58.746 45.833 0.00 0.00 0.00 4.63
5448 10292 6.493802 TGTTCATGTCATATACTACTCCCTCC 59.506 42.308 0.00 0.00 0.00 4.30
5449 10293 7.526142 TGTTCATGTCATATACTACTCCCTC 57.474 40.000 0.00 0.00 0.00 4.30
5450 10294 7.472100 GCTTGTTCATGTCATATACTACTCCCT 60.472 40.741 0.00 0.00 0.00 4.20
5451 10295 6.647067 GCTTGTTCATGTCATATACTACTCCC 59.353 42.308 0.00 0.00 0.00 4.30
5452 10296 6.647067 GGCTTGTTCATGTCATATACTACTCC 59.353 42.308 0.00 0.00 0.00 3.85
5453 10297 7.437748 AGGCTTGTTCATGTCATATACTACTC 58.562 38.462 0.00 0.00 0.00 2.59
5454 10298 7.366847 AGGCTTGTTCATGTCATATACTACT 57.633 36.000 0.00 0.00 0.00 2.57
5455 10299 7.519008 GCAAGGCTTGTTCATGTCATATACTAC 60.519 40.741 26.71 1.47 0.00 2.73
5456 10300 6.483307 GCAAGGCTTGTTCATGTCATATACTA 59.517 38.462 26.71 0.00 0.00 1.82
5457 10301 5.297776 GCAAGGCTTGTTCATGTCATATACT 59.702 40.000 26.71 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.