Multiple sequence alignment - TraesCS4A01G124000

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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 TraesCS4A01G124000 chr4A 100.000 3164 0 0 795 3958 157203405 157206568 0.000000e+00 5843.0
1 TraesCS4A01G124000 chr4A 100.000 2357 0 0 4177 6533 157206787 157209143 0.000000e+00 4353.0
2 TraesCS4A01G124000 chr4A 100.000 490 0 0 1 490 157202611 157203100 0.000000e+00 905.0
3 TraesCS4A01G124000 chr4A 93.878 49 3 0 4725 4773 698043053 698043005 2.530000e-09 75.0
4 TraesCS4A01G124000 chr4D 91.975 3190 151 38 795 3955 317606050 317602937 0.000000e+00 4375.0
5 TraesCS4A01G124000 chr4D 91.802 2342 107 29 4198 6532 317602432 317600169 0.000000e+00 3182.0
6 TraesCS4A01G124000 chr4D 92.922 438 29 2 55 490 317606747 317606310 2.570000e-178 636.0
7 TraesCS4A01G124000 chr4D 83.735 166 22 4 195 358 317606066 317606228 1.130000e-32 152.0
8 TraesCS4A01G124000 chr4D 97.826 46 1 0 5218 5263 280308880 280308835 5.430000e-11 80.5
9 TraesCS4A01G124000 chr4D 97.826 46 1 0 5218 5263 294454534 294454579 5.430000e-11 80.5
10 TraesCS4A01G124000 chr4D 93.617 47 1 2 2 47 242157095 242157050 1.180000e-07 69.4
11 TraesCS4A01G124000 chr4D 86.885 61 7 1 5218 5278 340565448 340565507 4.230000e-07 67.6
12 TraesCS4A01G124000 chr4D 100.000 28 0 0 22 49 283636738 283636711 1.200000e-02 52.8
13 TraesCS4A01G124000 chr4B 97.823 1837 29 3 2122 3956 394643297 394641470 0.000000e+00 3160.0
14 TraesCS4A01G124000 chr4B 93.580 1620 50 22 4187 5773 394641297 394639699 0.000000e+00 2366.0
15 TraesCS4A01G124000 chr4B 97.312 1302 33 2 824 2123 394644759 394643458 0.000000e+00 2209.0
16 TraesCS4A01G124000 chr4B 86.076 790 69 13 5769 6532 394625758 394624984 0.000000e+00 811.0
17 TraesCS4A01G124000 chr4B 90.205 439 40 3 48 483 394707867 394707429 2.640000e-158 569.0
18 TraesCS4A01G124000 chr4B 83.908 174 26 1 185 358 394707170 394707341 1.460000e-36 165.0
19 TraesCS4A01G124000 chr4B 90.833 120 9 2 4220 4338 167349965 167350083 6.780000e-35 159.0
20 TraesCS4A01G124000 chr3B 87.336 229 29 0 179 407 312196057 312195829 5.020000e-66 263.0
21 TraesCS4A01G124000 chr3B 92.920 113 7 1 4219 4331 325871112 325871001 5.240000e-36 163.0
22 TraesCS4A01G124000 chr3D 93.805 113 4 3 4220 4331 537915012 537914902 4.050000e-37 167.0
23 TraesCS4A01G124000 chr3D 95.745 47 2 0 1 47 123025772 123025726 7.020000e-10 76.8
24 TraesCS4A01G124000 chr3D 92.593 54 3 1 1 53 449445950 449446003 7.020000e-10 76.8
25 TraesCS4A01G124000 chr3D 95.455 44 2 0 4727 4770 69853531 69853488 3.270000e-08 71.3
26 TraesCS4A01G124000 chr3D 100.000 28 0 0 22 49 334122268 334122241 1.200000e-02 52.8
27 TraesCS4A01G124000 chr6A 92.982 114 7 1 4219 4331 144266676 144266563 1.460000e-36 165.0
28 TraesCS4A01G124000 chr6A 88.136 59 5 2 5218 5276 446760596 446760652 1.180000e-07 69.4
29 TraesCS4A01G124000 chr2D 91.597 119 9 1 4214 4331 607675865 607675747 5.240000e-36 163.0
30 TraesCS4A01G124000 chr2D 79.752 242 34 7 179 420 522626596 522626822 1.890000e-35 161.0
31 TraesCS4A01G124000 chr6B 92.105 114 8 1 4219 4331 205267344 205267231 6.780000e-35 159.0
32 TraesCS4A01G124000 chr6B 80.247 162 30 2 179 339 392485348 392485508 3.200000e-23 121.0
33 TraesCS4A01G124000 chr6B 91.667 48 4 0 4723 4770 636978228 636978275 4.230000e-07 67.6
34 TraesCS4A01G124000 chr6B 93.333 45 3 0 4726 4770 706821592 706821548 4.230000e-07 67.6
35 TraesCS4A01G124000 chr6D 90.000 120 10 2 4219 4337 115788449 115788331 3.150000e-33 154.0
36 TraesCS4A01G124000 chr2A 90.000 120 10 2 4219 4337 715964332 715964214 3.150000e-33 154.0
37 TraesCS4A01G124000 chr2A 81.928 83 8 6 5218 5295 10601296 10601216 5.470000e-06 63.9
38 TraesCS4A01G124000 chr1D 78.528 163 29 4 180 339 263913818 263913659 1.160000e-17 102.0
39 TraesCS4A01G124000 chr1D 95.745 47 2 0 1 47 346267414 346267460 7.020000e-10 76.8
40 TraesCS4A01G124000 chr1D 95.556 45 2 0 2 46 186033753 186033709 9.090000e-09 73.1
41 TraesCS4A01G124000 chr1D 100.000 28 0 0 19 46 180591238 180591265 1.200000e-02 52.8
42 TraesCS4A01G124000 chr1D 100.000 28 0 0 22 49 296345516 296345543 1.200000e-02 52.8
43 TraesCS4A01G124000 chr1B 82.828 99 17 0 219 317 325294520 325294618 9.020000e-14 89.8
44 TraesCS4A01G124000 chr2B 80.165 121 16 7 179 295 59606538 59606422 4.200000e-12 84.2
45 TraesCS4A01G124000 chr7D 78.832 137 13 8 284 420 448936652 448936532 1.950000e-10 78.7
46 TraesCS4A01G124000 chr7D 95.652 46 2 0 4 49 624378210 624378255 2.530000e-09 75.0
47 TraesCS4A01G124000 chr7D 93.750 48 3 0 2 49 624065458 624065505 9.090000e-09 73.1
48 TraesCS4A01G124000 chr7D 93.750 48 3 0 2 49 624175644 624175691 9.090000e-09 73.1
49 TraesCS4A01G124000 chr7D 93.750 48 3 0 2 49 624253147 624253194 9.090000e-09 73.1
50 TraesCS4A01G124000 chr7D 93.750 48 3 0 2 49 624461887 624461934 9.090000e-09 73.1
51 TraesCS4A01G124000 chr7D 94.737 38 1 1 6422 6458 82713916 82713879 2.540000e-04 58.4
52 TraesCS4A01G124000 chr3A 95.833 48 2 0 4723 4770 697753850 697753897 1.950000e-10 78.7
53 TraesCS4A01G124000 chr5B 97.727 44 1 0 4727 4770 213256815 213256858 7.020000e-10 76.8
54 TraesCS4A01G124000 chr5B 93.878 49 3 0 2 50 137063171 137063123 2.530000e-09 75.0
55 TraesCS4A01G124000 chr5B 84.507 71 7 4 5195 5263 499167808 499167740 4.230000e-07 67.6
56 TraesCS4A01G124000 chr1A 84.375 64 8 2 4723 4786 490473098 490473159 1.970000e-05 62.1
57 TraesCS4A01G124000 chr1A 100.000 30 0 0 4665 4694 473033753 473033782 1.000000e-03 56.5
58 TraesCS4A01G124000 chr1A 100.000 28 0 0 22 49 374976773 374976800 1.200000e-02 52.8
59 TraesCS4A01G124000 chr1A 100.000 28 0 0 4668 4695 445501418 445501391 1.200000e-02 52.8


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 TraesCS4A01G124000 chr4A 157202611 157209143 6532 False 3700.333333 5843 100.000000 1 6533 3 chr4A.!!$F1 6532
1 TraesCS4A01G124000 chr4D 317600169 317606747 6578 True 2731.000000 4375 92.233000 55 6532 3 chr4D.!!$R4 6477
2 TraesCS4A01G124000 chr4B 394639699 394644759 5060 True 2578.333333 3160 96.238333 824 5773 3 chr4B.!!$R3 4949
3 TraesCS4A01G124000 chr4B 394624984 394625758 774 True 811.000000 811 86.076000 5769 6532 1 chr4B.!!$R1 763

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
51 52 0.248336 TGGACGTATCAGTTAGCGCG 60.248 55.000 0.00 0.00 0.00 6.86 F
53 54 0.248377 GACGTATCAGTTAGCGCGGT 60.248 55.000 17.70 17.70 0.00 5.68 F
60 61 0.638746 CAGTTAGCGCGGTTTAGACG 59.361 55.000 19.09 4.12 0.00 4.18 F
1656 1662 0.323629 CGTTTAGTGAGGAGGCCCAA 59.676 55.000 0.00 0.00 33.88 4.12 F
1811 1819 2.027561 AGGTTGCAAAGGTATACGCTGA 60.028 45.455 0.00 0.00 0.00 4.26 F
2313 2484 5.123820 TCGAGCTTTGTTATATTTGCTTGCT 59.876 36.000 0.00 0.00 33.39 3.91 F
3957 4149 0.107643 GTAGCCATTCAGCCCTCTCC 59.892 60.000 0.00 0.00 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1523 1529 0.882927 GGCACACTAGCAACCGAACA 60.883 55.000 0.00 0.00 35.83 3.18 R
1635 1641 1.449778 GGCCTCCTCACTAAACGGC 60.450 63.158 0.00 0.00 36.83 5.68 R
1737 1743 1.800805 ACTCAACAGCCTTCACATCG 58.199 50.000 0.00 0.00 0.00 3.84 R
2806 2996 0.250945 TTGGTGATGCCGGCTACAAA 60.251 50.000 29.70 19.72 41.21 2.83 R
3136 3328 2.938756 GCCATAGGCTCATCATACTGCC 60.939 54.545 0.00 0.00 46.69 4.85 R
4184 4376 0.036010 AGCAATCGTCCAGTGGAAGG 60.036 55.000 22.82 14.12 32.23 3.46 R
5756 6245 0.040058 ATCAATCCACCAAGCAGCCA 59.960 50.000 0.00 0.00 0.00 4.75 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
34 35 7.281040 AGTAGGACAATATGATGCAAAATGG 57.719 36.000 0.00 0.00 0.00 3.16
35 36 7.062322 AGTAGGACAATATGATGCAAAATGGA 58.938 34.615 0.00 0.00 0.00 3.41
36 37 6.152932 AGGACAATATGATGCAAAATGGAC 57.847 37.500 0.00 0.00 0.00 4.02
37 38 4.977963 GGACAATATGATGCAAAATGGACG 59.022 41.667 0.00 0.00 0.00 4.79
38 39 5.450412 GGACAATATGATGCAAAATGGACGT 60.450 40.000 0.00 0.00 0.00 4.34
39 40 6.238621 GGACAATATGATGCAAAATGGACGTA 60.239 38.462 0.00 0.00 0.00 3.57
40 41 7.275888 ACAATATGATGCAAAATGGACGTAT 57.724 32.000 0.00 0.00 0.00 3.06
41 42 7.362662 ACAATATGATGCAAAATGGACGTATC 58.637 34.615 0.00 0.00 0.00 2.24
42 43 7.013178 ACAATATGATGCAAAATGGACGTATCA 59.987 33.333 0.00 0.00 36.43 2.15
43 44 4.880886 TGATGCAAAATGGACGTATCAG 57.119 40.909 0.00 0.00 29.90 2.90
44 45 4.260985 TGATGCAAAATGGACGTATCAGT 58.739 39.130 0.00 0.00 29.90 3.41
45 46 4.699735 TGATGCAAAATGGACGTATCAGTT 59.300 37.500 0.00 0.00 29.90 3.16
46 47 5.877564 TGATGCAAAATGGACGTATCAGTTA 59.122 36.000 0.00 0.00 29.90 2.24
47 48 5.794687 TGCAAAATGGACGTATCAGTTAG 57.205 39.130 4.84 0.00 0.00 2.34
48 49 4.094294 TGCAAAATGGACGTATCAGTTAGC 59.906 41.667 4.84 4.08 0.00 3.09
49 50 4.782195 GCAAAATGGACGTATCAGTTAGCG 60.782 45.833 4.84 0.00 0.00 4.26
50 51 2.135664 ATGGACGTATCAGTTAGCGC 57.864 50.000 0.00 0.00 0.00 5.92
51 52 0.248336 TGGACGTATCAGTTAGCGCG 60.248 55.000 0.00 0.00 0.00 6.86
52 53 0.933509 GGACGTATCAGTTAGCGCGG 60.934 60.000 8.83 0.00 0.00 6.46
53 54 0.248377 GACGTATCAGTTAGCGCGGT 60.248 55.000 17.70 17.70 0.00 5.68
60 61 0.638746 CAGTTAGCGCGGTTTAGACG 59.361 55.000 19.09 4.12 0.00 4.18
66 67 0.856080 GCGCGGTTTAGACGAATTGC 60.856 55.000 8.83 0.00 0.00 3.56
71 72 2.993899 CGGTTTAGACGAATTGCAGACT 59.006 45.455 0.00 0.00 0.00 3.24
131 132 9.869757 ATGTGCATTTTAAAAGTATTAAGACCC 57.130 29.630 6.79 0.00 0.00 4.46
161 162 4.003648 ACTTCACCGAAAGAATCATGACC 58.996 43.478 0.00 0.00 0.00 4.02
330 332 4.058817 CTCCGTATTCCAGCTATTTGACC 58.941 47.826 0.00 0.00 0.00 4.02
345 347 1.600023 TGACCGGTCAAACAATCCAC 58.400 50.000 34.60 4.54 36.53 4.02
346 348 1.134068 TGACCGGTCAAACAATCCACA 60.134 47.619 34.60 7.51 36.53 4.17
383 385 6.583427 CAGCTCATTTTCTCTCTCGATCTATG 59.417 42.308 0.00 0.00 0.00 2.23
388 390 2.509569 TCTCTCTCGATCTATGTGGGC 58.490 52.381 0.00 0.00 0.00 5.36
416 419 2.025793 TGTCAGTGGGTGGACAAAGAAA 60.026 45.455 0.00 0.00 40.80 2.52
417 420 2.618709 GTCAGTGGGTGGACAAAGAAAG 59.381 50.000 0.00 0.00 34.22 2.62
445 448 1.006043 AGATTCAGTCCCGAGACCTCA 59.994 52.381 0.00 0.00 44.72 3.86
455 458 1.137086 CCGAGACCTCACACTTATGGG 59.863 57.143 0.00 0.00 0.00 4.00
467 470 1.304879 TTATGGGCCAACTGCACCC 60.305 57.895 11.89 2.32 45.47 4.61
473 476 2.425592 CCAACTGCACCCGTCTCA 59.574 61.111 0.00 0.00 0.00 3.27
477 480 2.047844 CTGCACCCGTCTCACCAG 60.048 66.667 0.00 0.00 0.00 4.00
484 487 2.207229 CCGTCTCACCAGGTGTCCA 61.207 63.158 19.65 0.00 34.79 4.02
1057 1063 2.770048 CCTTCCTCGCCTCCCCAT 60.770 66.667 0.00 0.00 0.00 4.00
1364 1370 2.561467 TATCACCTCTGGACGGCCGA 62.561 60.000 35.90 8.90 36.79 5.54
1373 1379 0.681887 TGGACGGCCGATACTTCAGA 60.682 55.000 35.90 5.83 36.79 3.27
1522 1528 7.501225 TCTGTATAATCTTGACTCGTGTGGATA 59.499 37.037 0.00 0.00 0.00 2.59
1523 1529 8.178313 TGTATAATCTTGACTCGTGTGGATAT 57.822 34.615 0.00 0.00 0.00 1.63
1579 1585 9.940166 CTACGTAAATGAAGTGGTTTTTAGTTT 57.060 29.630 0.00 0.00 0.00 2.66
1589 1595 7.329588 AGTGGTTTTTAGTTTTGTAGGTCAG 57.670 36.000 0.00 0.00 0.00 3.51
1635 1641 2.266055 GAGGTCAAGGAGGTGCCG 59.734 66.667 0.00 0.00 43.43 5.69
1644 1650 2.047560 GAGGTGCCGCCGTTTAGT 60.048 61.111 0.00 0.00 43.70 2.24
1653 1659 1.449778 GCCGTTTAGTGAGGAGGCC 60.450 63.158 0.00 0.00 38.72 5.19
1656 1662 0.323629 CGTTTAGTGAGGAGGCCCAA 59.676 55.000 0.00 0.00 33.88 4.12
1740 1746 9.840427 CAAATTGAGAAAATAACTAACCACGAT 57.160 29.630 0.00 0.00 0.00 3.73
1811 1819 2.027561 AGGTTGCAAAGGTATACGCTGA 60.028 45.455 0.00 0.00 0.00 4.26
2313 2484 5.123820 TCGAGCTTTGTTATATTTGCTTGCT 59.876 36.000 0.00 0.00 33.39 3.91
2382 2568 6.591062 GCATACAAAGAATGGAGCAAATTCAA 59.409 34.615 8.25 0.00 36.65 2.69
2480 2666 8.451748 GCAAATAGGAATAAAATCGATCCTACC 58.548 37.037 11.47 5.55 44.88 3.18
2488 2674 9.630098 GAATAAAATCGATCCTACCGTTACATA 57.370 33.333 0.00 0.00 0.00 2.29
2671 2861 8.029522 AGCACAATGGTCTATATGTAATAGTCG 58.970 37.037 0.00 0.00 28.50 4.18
2806 2996 6.364568 AGCTTAAAATTTTCAGCTTCCCAT 57.635 33.333 26.56 10.10 43.15 4.00
3077 3267 6.545666 ACATTGTCACTTCATTGTTCCTTACA 59.454 34.615 0.00 0.00 30.93 2.41
3085 3277 9.743057 CACTTCATTGTTCCTTACATTTTTACA 57.257 29.630 0.00 0.00 36.44 2.41
3093 3285 7.726291 TGTTCCTTACATTTTTACATCTTGGGA 59.274 33.333 0.00 0.00 0.00 4.37
3136 3328 1.258982 GACTTGTGTCAGAACGCACTG 59.741 52.381 3.50 3.50 45.23 3.66
3374 3566 5.636121 AGCTATGAAGAGTAGACTATCGTCG 59.364 44.000 0.00 0.00 44.93 5.12
3396 3588 6.409185 GTCGAAGAATTTGATTTGATACTGCG 59.591 38.462 0.00 0.00 41.32 5.18
3774 3966 4.701651 TCTTGAACTAATGAACTGCCATGG 59.298 41.667 7.63 7.63 0.00 3.66
3956 4148 0.833287 TGTAGCCATTCAGCCCTCTC 59.167 55.000 0.00 0.00 0.00 3.20
3957 4149 0.107643 GTAGCCATTCAGCCCTCTCC 59.892 60.000 0.00 0.00 0.00 3.71
4217 4671 5.312120 ACGATTGCTCCCTATATAACTCG 57.688 43.478 0.00 0.00 0.00 4.18
4301 4755 9.607333 AGTTCTAGATACATCCATTTCTATCCA 57.393 33.333 0.00 0.00 0.00 3.41
4491 4946 7.707624 AACAGGACATCAACATGTATGAATT 57.292 32.000 14.22 5.43 43.79 2.17
4588 5045 3.334691 TCTGCATCTAAAACCTTGTCCG 58.665 45.455 0.00 0.00 0.00 4.79
4815 5272 5.528690 TGCAATTATCAGTAACCTCAGATGC 59.471 40.000 0.00 0.00 0.00 3.91
5050 5533 9.958180 TTTATGAAGTTTGTATGGATCTTGAGA 57.042 29.630 0.00 0.00 0.00 3.27
5198 5681 9.566432 TGGTCAAAGCCAAAACAATTATTATTT 57.434 25.926 0.00 0.00 35.25 1.40
5273 5758 2.209064 CTGCTGCTGCGAGGCAAATT 62.209 55.000 11.21 0.00 41.94 1.82
5367 5852 0.335019 TGACTAGAGGCCAGGCTGTA 59.665 55.000 12.43 4.82 0.00 2.74
5620 6107 2.165030 GCTTCAAGGGGAACATCACATG 59.835 50.000 0.00 0.00 0.00 3.21
5661 6148 8.895932 AAGATTGTTTGTCACGCTAATTTATC 57.104 30.769 0.00 0.00 0.00 1.75
5671 6158 5.810587 TCACGCTAATTTATCTGGTTCTCAC 59.189 40.000 0.00 0.00 0.00 3.51
5788 6277 1.802960 GGATTGATAGCCGCACATGAG 59.197 52.381 0.00 0.00 0.00 2.90
5829 6318 1.165270 CGCCCCACAGTAAAAAGGAG 58.835 55.000 0.00 0.00 0.00 3.69
5850 6339 2.488153 GAGAAACCTTTTGGGATCGGTG 59.512 50.000 0.00 0.00 46.08 4.94
5926 6416 2.880268 TCGCCCTCATATGATGCTTTTG 59.120 45.455 19.38 8.71 0.00 2.44
5928 6418 2.961062 GCCCTCATATGATGCTTTTGGT 59.039 45.455 16.24 0.00 0.00 3.67
5937 6427 2.035704 TGATGCTTTTGGTTGATGCGTT 59.964 40.909 0.00 0.00 0.00 4.84
5947 6437 1.987770 GTTGATGCGTTTCCAATGCTG 59.012 47.619 2.55 0.00 43.78 4.41
5948 6438 1.246649 TGATGCGTTTCCAATGCTGT 58.753 45.000 2.55 0.00 43.78 4.40
5974 6464 4.201910 CGTAATGGGATTCGTTTGCAAGAT 60.202 41.667 0.00 0.00 0.00 2.40
5986 6476 3.056628 GCAAGATGCGACAGCTACT 57.943 52.632 0.00 0.00 45.42 2.57
6006 6496 9.781633 AGCTACTTAGAAGAATCTCTAATCGTA 57.218 33.333 0.00 3.81 37.30 3.43
6032 6544 8.837788 AAGAAAAGAAAATTCATGTTCATCCC 57.162 30.769 0.00 0.00 0.00 3.85
6038 6550 7.589993 AGAAAATTCATGTTCATCCCTATCCT 58.410 34.615 0.00 0.00 0.00 3.24
6043 6555 0.759346 GTTCATCCCTATCCTGCGGT 59.241 55.000 0.00 0.00 0.00 5.68
6083 6595 1.065928 ATGGCGAGGTCGATTCGTC 59.934 57.895 16.77 16.77 42.62 4.20
6087 6599 2.758089 CGAGGTCGATTCGTCGGGT 61.758 63.158 12.46 0.00 43.02 5.28
6103 6615 5.344665 TCGTCGGGTTAACATTTTACTTACG 59.655 40.000 8.10 4.26 0.00 3.18
6105 6617 4.391523 TCGGGTTAACATTTTACTTACGGC 59.608 41.667 8.10 0.00 0.00 5.68
6106 6618 4.153835 CGGGTTAACATTTTACTTACGGCA 59.846 41.667 8.10 0.00 0.00 5.69
6110 6623 6.579666 GGTTAACATTTTACTTACGGCAACAG 59.420 38.462 8.10 0.00 0.00 3.16
6184 6697 1.285950 CAGCCGACACGTGAGAAGA 59.714 57.895 25.01 0.00 0.00 2.87
6317 6831 1.295792 TGACAAGTTGACAACCGAGC 58.704 50.000 14.72 3.67 0.00 5.03
6324 6838 0.602638 TTGACAACCGAGCGCTCAAT 60.603 50.000 34.69 20.45 0.00 2.57
6337 6851 1.214589 CTCAATTGCTGGGCACTGC 59.785 57.895 11.44 11.44 38.71 4.40
6374 6889 0.037975 GGTGATTTTGGCAGCCTGTG 60.038 55.000 14.15 0.00 0.00 3.66
6379 6894 0.969917 TTTTGGCAGCCTGTGTGTGT 60.970 50.000 14.15 0.00 0.00 3.72
6380 6895 1.665264 TTTGGCAGCCTGTGTGTGTG 61.665 55.000 14.15 0.00 0.00 3.82
6381 6896 3.289834 GGCAGCCTGTGTGTGTGG 61.290 66.667 3.29 0.00 0.00 4.17
6382 6897 3.289834 GCAGCCTGTGTGTGTGGG 61.290 66.667 0.00 0.00 0.00 4.61
6383 6898 2.510411 CAGCCTGTGTGTGTGGGA 59.490 61.111 0.00 0.00 0.00 4.37
6384 6899 1.598962 CAGCCTGTGTGTGTGGGAG 60.599 63.158 0.00 0.00 0.00 4.30
6385 6900 2.281761 GCCTGTGTGTGTGGGAGG 60.282 66.667 0.00 0.00 0.00 4.30
6386 6901 2.281761 CCTGTGTGTGTGGGAGGC 60.282 66.667 0.00 0.00 0.00 4.70
6387 6902 2.822637 CCTGTGTGTGTGGGAGGCT 61.823 63.158 0.00 0.00 0.00 4.58
6388 6903 1.598962 CTGTGTGTGTGGGAGGCTG 60.599 63.158 0.00 0.00 0.00 4.85
6430 6945 2.036731 GGGTGGGGTTAGGGCAAC 59.963 66.667 0.00 0.00 36.32 4.17
6432 6947 1.001269 GGTGGGGTTAGGGCAACTC 60.001 63.158 0.00 0.00 36.83 3.01
6437 6952 0.111639 GGGTTAGGGCAACTCCAACA 59.888 55.000 0.00 0.00 37.30 3.33
6463 6978 3.689347 TCACCAAATGAACATCCTCAGG 58.311 45.455 0.00 0.00 33.02 3.86
6468 6983 4.281688 CCAAATGAACATCCTCAGGTGTTT 59.718 41.667 11.56 0.00 38.57 2.83
6471 6986 1.541588 GAACATCCTCAGGTGTTTGCC 59.458 52.381 11.56 0.00 38.57 4.52
6477 6992 1.207089 CCTCAGGTGTTTGCCGATAGA 59.793 52.381 0.00 0.00 39.76 1.98
6486 7001 2.552743 GTTTGCCGATAGAAATAGGGGC 59.447 50.000 0.00 0.00 40.88 5.80
6520 7035 2.228822 GCCAAAGTCATCAAATGTCCGT 59.771 45.455 0.00 0.00 0.00 4.69
6522 7037 3.119849 CCAAAGTCATCAAATGTCCGTCC 60.120 47.826 0.00 0.00 0.00 4.79
6532 7047 1.392710 ATGTCCGTCCCTGATCCGAC 61.393 60.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 9.017509 CCATTTTGCATCATATTGTCCTACTAT 57.982 33.333 0.00 0.00 0.00 2.12
9 10 8.217111 TCCATTTTGCATCATATTGTCCTACTA 58.783 33.333 0.00 0.00 0.00 1.82
11 12 7.141363 GTCCATTTTGCATCATATTGTCCTAC 58.859 38.462 0.00 0.00 0.00 3.18
12 13 6.017192 CGTCCATTTTGCATCATATTGTCCTA 60.017 38.462 0.00 0.00 0.00 2.94
13 14 5.221106 CGTCCATTTTGCATCATATTGTCCT 60.221 40.000 0.00 0.00 0.00 3.85
14 15 4.977963 CGTCCATTTTGCATCATATTGTCC 59.022 41.667 0.00 0.00 0.00 4.02
15 16 5.581605 ACGTCCATTTTGCATCATATTGTC 58.418 37.500 0.00 0.00 0.00 3.18
16 17 5.581126 ACGTCCATTTTGCATCATATTGT 57.419 34.783 0.00 0.00 0.00 2.71
17 18 7.361894 TGATACGTCCATTTTGCATCATATTG 58.638 34.615 0.00 0.00 0.00 1.90
18 19 7.229306 ACTGATACGTCCATTTTGCATCATATT 59.771 33.333 0.00 0.00 0.00 1.28
19 20 6.712095 ACTGATACGTCCATTTTGCATCATAT 59.288 34.615 0.00 0.00 0.00 1.78
20 21 6.054941 ACTGATACGTCCATTTTGCATCATA 58.945 36.000 0.00 0.00 0.00 2.15
21 22 4.883585 ACTGATACGTCCATTTTGCATCAT 59.116 37.500 0.00 0.00 0.00 2.45
22 23 4.260985 ACTGATACGTCCATTTTGCATCA 58.739 39.130 0.00 0.00 0.00 3.07
23 24 4.882671 ACTGATACGTCCATTTTGCATC 57.117 40.909 0.00 0.00 0.00 3.91
24 25 5.220854 GCTAACTGATACGTCCATTTTGCAT 60.221 40.000 15.88 0.00 30.21 3.96
25 26 4.094294 GCTAACTGATACGTCCATTTTGCA 59.906 41.667 15.88 0.00 30.21 4.08
26 27 4.588278 GCTAACTGATACGTCCATTTTGC 58.412 43.478 0.00 1.61 0.00 3.68
27 28 4.782195 GCGCTAACTGATACGTCCATTTTG 60.782 45.833 0.00 0.00 0.00 2.44
28 29 3.308866 GCGCTAACTGATACGTCCATTTT 59.691 43.478 0.00 0.00 0.00 1.82
29 30 2.864343 GCGCTAACTGATACGTCCATTT 59.136 45.455 0.00 0.00 0.00 2.32
30 31 2.470821 GCGCTAACTGATACGTCCATT 58.529 47.619 0.00 0.00 0.00 3.16
31 32 1.599667 CGCGCTAACTGATACGTCCAT 60.600 52.381 5.56 0.00 0.00 3.41
32 33 0.248336 CGCGCTAACTGATACGTCCA 60.248 55.000 5.56 0.00 0.00 4.02
33 34 0.933509 CCGCGCTAACTGATACGTCC 60.934 60.000 5.56 0.00 0.00 4.79
34 35 0.248377 ACCGCGCTAACTGATACGTC 60.248 55.000 5.56 0.00 0.00 4.34
35 36 0.171903 AACCGCGCTAACTGATACGT 59.828 50.000 5.56 0.00 0.00 3.57
36 37 1.274596 AAACCGCGCTAACTGATACG 58.725 50.000 5.56 0.00 0.00 3.06
37 38 3.485013 GTCTAAACCGCGCTAACTGATAC 59.515 47.826 5.56 0.00 0.00 2.24
38 39 3.699067 GTCTAAACCGCGCTAACTGATA 58.301 45.455 5.56 0.00 0.00 2.15
39 40 2.537401 GTCTAAACCGCGCTAACTGAT 58.463 47.619 5.56 0.00 0.00 2.90
40 41 1.730121 CGTCTAAACCGCGCTAACTGA 60.730 52.381 5.56 0.00 0.00 3.41
41 42 0.638746 CGTCTAAACCGCGCTAACTG 59.361 55.000 5.56 0.00 0.00 3.16
42 43 0.523072 TCGTCTAAACCGCGCTAACT 59.477 50.000 5.56 0.00 0.00 2.24
43 44 1.339711 TTCGTCTAAACCGCGCTAAC 58.660 50.000 5.56 0.00 0.00 2.34
44 45 2.282701 ATTCGTCTAAACCGCGCTAA 57.717 45.000 5.56 0.00 0.00 3.09
45 46 1.921887 CAATTCGTCTAAACCGCGCTA 59.078 47.619 5.56 0.00 0.00 4.26
46 47 0.719465 CAATTCGTCTAAACCGCGCT 59.281 50.000 5.56 0.00 0.00 5.92
47 48 0.856080 GCAATTCGTCTAAACCGCGC 60.856 55.000 0.00 0.00 0.00 6.86
48 49 0.440758 TGCAATTCGTCTAAACCGCG 59.559 50.000 0.00 0.00 0.00 6.46
49 50 1.730064 TCTGCAATTCGTCTAAACCGC 59.270 47.619 0.00 0.00 0.00 5.68
50 51 2.993899 AGTCTGCAATTCGTCTAAACCG 59.006 45.455 0.00 0.00 0.00 4.44
51 52 5.147162 CAAAGTCTGCAATTCGTCTAAACC 58.853 41.667 0.00 0.00 0.00 3.27
52 53 5.049680 TCCAAAGTCTGCAATTCGTCTAAAC 60.050 40.000 0.00 0.00 0.00 2.01
53 54 5.060506 TCCAAAGTCTGCAATTCGTCTAAA 58.939 37.500 0.00 0.00 0.00 1.85
60 61 5.803967 GTGATTCATCCAAAGTCTGCAATTC 59.196 40.000 0.00 0.00 0.00 2.17
66 67 9.748708 TTTTTAAAGTGATTCATCCAAAGTCTG 57.251 29.630 0.00 0.00 0.00 3.51
102 103 9.781834 TCTTAATACTTTTAAAATGCACATCCG 57.218 29.630 0.09 0.00 0.00 4.18
131 132 5.728351 TTCTTTCGGTGAAGTGTTTACTG 57.272 39.130 0.00 0.00 37.19 2.74
140 141 3.062639 CGGTCATGATTCTTTCGGTGAAG 59.937 47.826 0.00 0.00 0.00 3.02
202 204 6.533723 CCAAAGTGAGCGTACATGATAAGTTA 59.466 38.462 0.00 0.00 0.00 2.24
213 215 3.387397 ACAGTAACCAAAGTGAGCGTAC 58.613 45.455 0.00 0.00 0.00 3.67
252 254 8.900781 ACTTCAACACGTATATAGTGACTGTAT 58.099 33.333 15.37 7.05 41.83 2.29
256 258 7.387119 TCACTTCAACACGTATATAGTGACT 57.613 36.000 15.37 0.00 41.83 3.41
307 309 3.495001 GTCAAATAGCTGGAATACGGAGC 59.505 47.826 0.00 0.00 0.00 4.70
330 332 1.402720 GCCATGTGGATTGTTTGACCG 60.403 52.381 2.55 0.00 37.39 4.79
345 347 4.827087 AGCTGACGAGGCGCCATG 62.827 66.667 31.54 22.76 34.52 3.66
346 348 4.521062 GAGCTGACGAGGCGCCAT 62.521 66.667 31.54 14.20 34.52 4.40
383 385 1.918800 ACTGACAGGTAGGGCCCAC 60.919 63.158 27.56 19.64 38.26 4.61
388 390 1.553690 CCACCCACTGACAGGTAGGG 61.554 65.000 21.65 21.65 45.20 3.53
416 419 5.425539 TCTCGGGACTGAATCTTATTTTCCT 59.574 40.000 0.00 0.00 0.00 3.36
417 420 5.524281 GTCTCGGGACTGAATCTTATTTTCC 59.476 44.000 8.58 0.00 39.24 3.13
445 448 0.112218 TGCAGTTGGCCCATAAGTGT 59.888 50.000 0.00 0.00 43.89 3.55
455 458 3.050275 GAGACGGGTGCAGTTGGC 61.050 66.667 0.00 0.00 45.13 4.52
467 470 0.600255 GTTGGACACCTGGTGAGACG 60.600 60.000 32.30 6.70 36.96 4.18
469 472 2.142220 GGTTGGACACCTGGTGAGA 58.858 57.895 32.30 12.79 43.29 3.27
823 826 1.001181 GCTCGGGTGTGTTTGGTAGTA 59.999 52.381 0.00 0.00 0.00 1.82
824 827 0.250166 GCTCGGGTGTGTTTGGTAGT 60.250 55.000 0.00 0.00 0.00 2.73
825 828 0.250124 TGCTCGGGTGTGTTTGGTAG 60.250 55.000 0.00 0.00 0.00 3.18
1113 1119 2.125350 GCAGAGCAGCTTAGGCGT 60.125 61.111 0.00 0.00 44.37 5.68
1522 1528 1.156736 GCACACTAGCAACCGAACAT 58.843 50.000 0.00 0.00 0.00 2.71
1523 1529 0.882927 GGCACACTAGCAACCGAACA 60.883 55.000 0.00 0.00 35.83 3.18
1579 1585 2.637382 TCAGCAACCATCTGACCTACAA 59.363 45.455 0.00 0.00 35.81 2.41
1589 1595 2.816087 TGAGAAAGCTTCAGCAACCATC 59.184 45.455 0.00 0.00 45.16 3.51
1635 1641 1.449778 GGCCTCCTCACTAAACGGC 60.450 63.158 0.00 0.00 36.83 5.68
1644 1650 2.239654 CAGAAATAGTTGGGCCTCCTCA 59.760 50.000 4.53 0.00 0.00 3.86
1653 1659 5.840243 TGATTGCATCCAGAAATAGTTGG 57.160 39.130 0.00 0.00 35.74 3.77
1737 1743 1.800805 ACTCAACAGCCTTCACATCG 58.199 50.000 0.00 0.00 0.00 3.84
1740 1746 4.772624 AGATAGTACTCAACAGCCTTCACA 59.227 41.667 0.00 0.00 0.00 3.58
1811 1819 7.716123 TCAACATCTGCCTTCAAAAATGAAAAT 59.284 29.630 0.00 0.00 0.00 1.82
2313 2484 3.295585 TGCCCTCTTATTGCAGCAATA 57.704 42.857 21.83 21.83 35.54 1.90
2382 2568 3.244596 GGGAGTTAGGAACAGCAGACTTT 60.245 47.826 0.00 0.00 0.00 2.66
2454 2640 8.451748 GGTAGGATCGATTTTATTCCTATTTGC 58.548 37.037 12.20 1.78 41.57 3.68
2480 2666 6.671614 TTAGGCCAGAAACAATATGTAACG 57.328 37.500 5.01 0.00 0.00 3.18
2488 2674 4.039124 CACAAGGTTTAGGCCAGAAACAAT 59.961 41.667 25.89 15.70 38.32 2.71
2671 2861 9.599322 CAATGAACAGTGTTGTCTATTAAGTTC 57.401 33.333 14.57 0.00 36.23 3.01
2806 2996 0.250945 TTGGTGATGCCGGCTACAAA 60.251 50.000 29.70 19.72 41.21 2.83
3052 3242 6.545666 TGTAAGGAACAATGAAGTGACAATGT 59.454 34.615 0.00 0.00 35.75 2.71
3136 3328 2.938756 GCCATAGGCTCATCATACTGCC 60.939 54.545 0.00 0.00 46.69 4.85
3374 3566 7.688372 TCTCGCAGTATCAAATCAAATTCTTC 58.312 34.615 0.00 0.00 0.00 2.87
3774 3966 4.115516 AGATCACGCTGTCATTGATGTAC 58.884 43.478 0.00 0.00 29.93 2.90
4176 4368 1.078426 CCAGTGGAAGGCCTTACGG 60.078 63.158 23.02 16.18 34.31 4.02
4177 4369 0.391263 GTCCAGTGGAAGGCCTTACG 60.391 60.000 23.02 8.61 31.38 3.18
4178 4370 0.391263 CGTCCAGTGGAAGGCCTTAC 60.391 60.000 21.92 21.92 31.38 2.34
4179 4371 0.543410 TCGTCCAGTGGAAGGCCTTA 60.543 55.000 20.54 0.00 32.23 2.69
4180 4372 1.201429 ATCGTCCAGTGGAAGGCCTT 61.201 55.000 20.65 20.65 32.23 4.35
4181 4373 1.201429 AATCGTCCAGTGGAAGGCCT 61.201 55.000 22.82 0.00 32.23 5.19
4182 4374 1.026718 CAATCGTCCAGTGGAAGGCC 61.027 60.000 22.82 6.36 32.23 5.19
4183 4375 1.648467 GCAATCGTCCAGTGGAAGGC 61.648 60.000 22.82 15.34 32.23 4.35
4184 4376 0.036010 AGCAATCGTCCAGTGGAAGG 60.036 55.000 22.82 14.12 32.23 3.46
4185 4377 1.363744 GAGCAATCGTCCAGTGGAAG 58.636 55.000 15.09 16.81 31.38 3.46
4217 4671 0.759436 TTCGGGGCAGAGGGAGTATC 60.759 60.000 0.00 0.00 0.00 2.24
4296 4750 6.540914 GGAATTACTTGTCACGGAAATGGATA 59.459 38.462 0.00 0.00 0.00 2.59
4297 4751 5.357032 GGAATTACTTGTCACGGAAATGGAT 59.643 40.000 0.00 0.00 0.00 3.41
4298 4752 4.698304 GGAATTACTTGTCACGGAAATGGA 59.302 41.667 0.00 0.00 0.00 3.41
4299 4753 4.436852 CGGAATTACTTGTCACGGAAATGG 60.437 45.833 0.00 0.00 0.00 3.16
4300 4754 4.436852 CCGGAATTACTTGTCACGGAAATG 60.437 45.833 0.00 0.00 42.19 2.32
4301 4755 3.687698 CCGGAATTACTTGTCACGGAAAT 59.312 43.478 0.00 0.00 42.19 2.17
4302 4756 3.068560 CCGGAATTACTTGTCACGGAAA 58.931 45.455 0.00 0.00 42.19 3.13
4303 4757 2.299582 TCCGGAATTACTTGTCACGGAA 59.700 45.455 0.00 0.00 44.85 4.30
4304 4758 1.894466 TCCGGAATTACTTGTCACGGA 59.106 47.619 0.00 0.00 45.52 4.69
4420 4874 9.220767 AGAACATAGTCTCCTTTCATTTGTAAC 57.779 33.333 0.00 0.00 0.00 2.50
4559 5016 6.428385 AGGTTTTAGATGCAGAAAGATTCG 57.572 37.500 0.00 0.00 34.02 3.34
4740 5197 7.062957 CCCTCCAATCCATATTACTTGTCTTT 58.937 38.462 0.00 0.00 0.00 2.52
4759 5216 7.319052 TGTAACAAAAGTATTACTCCCTCCA 57.681 36.000 0.00 0.00 33.32 3.86
4892 5375 0.890683 CCCATGTTTGCTCCAAGTCC 59.109 55.000 0.00 0.00 0.00 3.85
5145 5628 4.860022 AGAATACCACTGCAGGCTTAAAT 58.140 39.130 19.93 0.68 0.00 1.40
5198 5681 1.739466 GCATGATTTGCCTCGAGTGAA 59.261 47.619 12.31 3.31 46.15 3.18
5273 5758 7.762615 CCTACAGAGGTCAACGATAAAATTACA 59.237 37.037 0.00 0.00 38.16 2.41
5330 5815 7.735917 TCTAGTCATTTCCTTCAGTTTCTCAA 58.264 34.615 0.00 0.00 0.00 3.02
5367 5852 1.890876 TGCGTATGCTGTCTTTGGTT 58.109 45.000 8.69 0.00 43.34 3.67
5576 6063 3.224884 TCGATGTTATTGTCGCTGTCA 57.775 42.857 0.00 0.00 37.74 3.58
5620 6107 4.392138 ACAATCTTTGAACGCTAAGCTACC 59.608 41.667 0.00 0.00 0.00 3.18
5661 6148 4.096984 ACAAGCTTTTTCAGTGAGAACCAG 59.903 41.667 0.00 0.00 35.56 4.00
5671 6158 1.202290 ACGCACCACAAGCTTTTTCAG 60.202 47.619 0.00 0.00 0.00 3.02
5753 6242 2.697147 AATCCACCAAGCAGCCACGT 62.697 55.000 0.00 0.00 0.00 4.49
5755 6244 0.895100 TCAATCCACCAAGCAGCCAC 60.895 55.000 0.00 0.00 0.00 5.01
5756 6245 0.040058 ATCAATCCACCAAGCAGCCA 59.960 50.000 0.00 0.00 0.00 4.75
5788 6277 3.187022 GCTTGTGGGATGAAACAATTTGC 59.813 43.478 0.00 0.00 35.82 3.68
5829 6318 2.488153 CACCGATCCCAAAAGGTTTCTC 59.512 50.000 0.00 0.00 34.25 2.87
5926 6416 1.067635 AGCATTGGAAACGCATCAACC 60.068 47.619 0.00 0.00 0.00 3.77
5928 6418 1.612950 ACAGCATTGGAAACGCATCAA 59.387 42.857 0.00 0.00 0.00 2.57
5937 6427 1.472082 CATTACGGCACAGCATTGGAA 59.528 47.619 0.00 0.00 0.00 3.53
5947 6437 1.375551 AACGAATCCCATTACGGCAC 58.624 50.000 0.00 0.00 0.00 5.01
5948 6438 1.740585 CAAACGAATCCCATTACGGCA 59.259 47.619 0.00 0.00 0.00 5.69
5974 6464 4.399618 AGATTCTTCTAAGTAGCTGTCGCA 59.600 41.667 0.00 0.00 39.10 5.10
6006 6496 9.276590 GGGATGAACATGAATTTTCTTTTCTTT 57.723 29.630 0.00 0.00 0.00 2.52
6013 6503 7.504911 CAGGATAGGGATGAACATGAATTTTCT 59.495 37.037 0.00 0.00 0.00 2.52
6014 6504 7.655490 CAGGATAGGGATGAACATGAATTTTC 58.345 38.462 0.00 0.00 0.00 2.29
6019 6509 3.494924 CGCAGGATAGGGATGAACATGAA 60.495 47.826 0.00 0.00 0.00 2.57
6020 6510 2.037641 CGCAGGATAGGGATGAACATGA 59.962 50.000 0.00 0.00 0.00 3.07
6038 6550 0.874175 CAACGTCTTCTCACACCGCA 60.874 55.000 0.00 0.00 0.00 5.69
6043 6555 1.535226 CGTCACCAACGTCTTCTCACA 60.535 52.381 0.00 0.00 46.42 3.58
6065 6577 1.065928 GACGAATCGACCTCGCCAT 59.934 57.895 10.55 0.32 39.97 4.40
6066 6578 2.488355 GACGAATCGACCTCGCCA 59.512 61.111 10.55 0.00 39.97 5.69
6083 6595 4.153835 TGCCGTAAGTAAAATGTTAACCCG 59.846 41.667 2.48 0.00 0.00 5.28
6087 6599 7.227116 AGACTGTTGCCGTAAGTAAAATGTTAA 59.773 33.333 0.00 0.00 0.00 2.01
6103 6615 1.004440 AGCCGAGAAGACTGTTGCC 60.004 57.895 0.00 0.00 0.00 4.52
6105 6617 1.270826 TGAGAGCCGAGAAGACTGTTG 59.729 52.381 0.00 0.00 0.00 3.33
6106 6618 1.543802 CTGAGAGCCGAGAAGACTGTT 59.456 52.381 0.00 0.00 0.00 3.16
6110 6623 4.804496 GCTGAGAGCCGAGAAGAC 57.196 61.111 0.00 0.00 34.48 3.01
6128 6641 4.742438 TTCTCGTTTTCCGATTTTCCTG 57.258 40.909 0.00 0.00 46.23 3.86
6152 6665 4.070552 GCTGGAACCGGAGCGACT 62.071 66.667 9.46 0.00 0.00 4.18
6184 6697 0.035343 TGGAGACACGGACGATCTCT 60.035 55.000 20.98 9.29 39.12 3.10
6302 6815 1.222115 GAGCGCTCGGTTGTCAACTT 61.222 55.000 23.61 0.00 0.00 2.66
6317 6831 2.180017 GTGCCCAGCAATTGAGCG 59.820 61.111 10.34 0.00 41.47 5.03
6356 6871 0.675633 ACACAGGCTGCCAAAATCAC 59.324 50.000 22.65 0.00 0.00 3.06
6374 6889 3.249189 TCCCAGCCTCCCACACAC 61.249 66.667 0.00 0.00 0.00 3.82
6379 6894 4.664267 ACAGCTCCCAGCCTCCCA 62.664 66.667 0.00 0.00 43.77 4.37
6380 6895 2.911926 AAACAGCTCCCAGCCTCCC 61.912 63.158 0.00 0.00 43.77 4.30
6381 6896 1.676967 CAAACAGCTCCCAGCCTCC 60.677 63.158 0.00 0.00 43.77 4.30
6382 6897 1.676967 CCAAACAGCTCCCAGCCTC 60.677 63.158 0.00 0.00 43.77 4.70
6383 6898 2.437897 CCAAACAGCTCCCAGCCT 59.562 61.111 0.00 0.00 43.77 4.58
6384 6899 3.376918 GCCAAACAGCTCCCAGCC 61.377 66.667 0.00 0.00 43.77 4.85
6385 6900 3.376918 GGCCAAACAGCTCCCAGC 61.377 66.667 0.00 0.00 42.84 4.85
6386 6901 2.677875 GGGCCAAACAGCTCCCAG 60.678 66.667 4.39 0.00 38.62 4.45
6387 6902 3.185203 AGGGCCAAACAGCTCCCA 61.185 61.111 6.18 0.00 41.22 4.37
6388 6903 2.677875 CAGGGCCAAACAGCTCCC 60.678 66.667 6.18 0.00 39.05 4.30
6413 6928 2.036731 GTTGCCCTAACCCCACCC 59.963 66.667 0.00 0.00 33.01 4.61
6414 6929 1.001269 GAGTTGCCCTAACCCCACC 60.001 63.158 0.00 0.00 40.24 4.61
6430 6945 1.384525 TTTGGTGAACCGTGTTGGAG 58.615 50.000 0.00 0.00 42.00 3.86
6432 6947 1.678627 TCATTTGGTGAACCGTGTTGG 59.321 47.619 0.00 0.00 46.41 3.77
6462 6977 3.564225 CCCTATTTCTATCGGCAAACACC 59.436 47.826 0.00 0.00 0.00 4.16
6463 6978 3.564225 CCCCTATTTCTATCGGCAAACAC 59.436 47.826 0.00 0.00 0.00 3.32
6468 6983 0.320374 CGCCCCTATTTCTATCGGCA 59.680 55.000 0.00 0.00 36.12 5.69
6471 6986 1.204941 CCTCCGCCCCTATTTCTATCG 59.795 57.143 0.00 0.00 0.00 2.92
6508 7023 2.158755 GGATCAGGGACGGACATTTGAT 60.159 50.000 0.00 0.00 33.98 2.57


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

AutoCloner maintained by Alex Coulton.