Multiple sequence alignment - TraesCS4B01G228300

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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 TraesCS4B01G228300 chr4B 100.000 4487 0 0 685 5171 477230763 477226277 0.000000e+00 8287
1 TraesCS4B01G228300 chr4B 100.000 230 0 0 1 230 477231447 477231218 4.790000e-115 425
2 TraesCS4B01G228300 chr4D 94.670 3527 136 17 685 4169 388932189 388928673 0.000000e+00 5424
3 TraesCS4B01G228300 chr4D 92.714 796 39 11 4284 5069 388928613 388927827 0.000000e+00 1131
4 TraesCS4B01G228300 chr4D 87.727 220 14 4 1 219 388932653 388932446 1.440000e-60 244
5 TraesCS4B01G228300 chr4D 93.913 115 7 0 5057 5171 388927805 388927691 1.910000e-39 174
6 TraesCS4B01G228300 chr4A 94.658 1142 58 3 2204 3343 70314095 70312955 0.000000e+00 1768
7 TraesCS4B01G228300 chr4A 93.088 1085 59 8 685 1757 70315595 70314515 0.000000e+00 1574
8 TraesCS4B01G228300 chr4A 93.182 924 41 8 3297 4219 70312968 70312066 0.000000e+00 1338
9 TraesCS4B01G228300 chr4A 93.869 473 22 7 4284 4751 70312050 70311580 0.000000e+00 706
10 TraesCS4B01G228300 chr4A 92.708 288 16 5 4785 5069 70311509 70311224 1.340000e-110 411
11 TraesCS4B01G228300 chr4A 89.565 115 8 4 5057 5171 70311203 70311093 5.400000e-30 143


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 TraesCS4B01G228300 chr4B 477226277 477231447 5170 True 4356.00 8287 100.000 1 5171 2 chr4B.!!$R1 5170
1 TraesCS4B01G228300 chr4D 388927691 388932653 4962 True 1743.25 5424 92.256 1 5171 4 chr4D.!!$R1 5170
2 TraesCS4B01G228300 chr4A 70311093 70315595 4502 True 990.00 1768 92.845 685 5171 6 chr4A.!!$R1 4486

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
76 77 0.179094 AAACTCGACACGGCAGAACA 60.179 50.000 0.00 0.0 0.00 3.18 F
100 101 1.067635 GCTGGAATTGCGAACATGGTT 60.068 47.619 0.00 0.0 0.00 3.67 F
1914 1929 0.304705 GTGCTCACTTTGTGGTGTCG 59.695 55.000 0.00 0.0 38.28 4.35 F
3427 3533 0.103937 CGAAGAGATGCTCCTCCACC 59.896 60.000 2.94 0.0 33.76 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1548 1554 0.321210 TTAAGCACGCTTAGCAGGCA 60.321 50.0 17.12 0.00 39.36 4.75 R
1918 1933 1.459455 CGGCCAATGGAACCACACAA 61.459 55.0 2.05 0.00 0.00 3.33 R
3543 3649 0.317603 GTGCTTGACTGCTGCTGTTG 60.318 55.0 13.49 8.35 0.00 3.33 R
4826 5018 0.180642 TATCGCAGGTCCGTCTCTCT 59.819 55.0 0.00 0.00 0.00 3.10 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
26 27 4.263435 TGAGTTAGTTTTTGTTGGACGGT 58.737 39.130 0.00 0.00 0.00 4.83
27 28 4.701171 TGAGTTAGTTTTTGTTGGACGGTT 59.299 37.500 0.00 0.00 0.00 4.44
33 34 8.871862 GTTAGTTTTTGTTGGACGGTTAAATTT 58.128 29.630 0.00 0.00 0.00 1.82
70 71 1.620413 CCGGTAAAACTCGACACGGC 61.620 60.000 0.00 0.00 33.01 5.68
76 77 0.179094 AAACTCGACACGGCAGAACA 60.179 50.000 0.00 0.00 0.00 3.18
100 101 1.067635 GCTGGAATTGCGAACATGGTT 60.068 47.619 0.00 0.00 0.00 3.67
101 102 2.163412 GCTGGAATTGCGAACATGGTTA 59.837 45.455 0.00 0.00 0.00 2.85
103 104 2.752354 TGGAATTGCGAACATGGTTAGG 59.248 45.455 0.00 0.00 0.00 2.69
104 105 3.013921 GGAATTGCGAACATGGTTAGGA 58.986 45.455 0.00 0.00 0.00 2.94
105 106 3.065371 GGAATTGCGAACATGGTTAGGAG 59.935 47.826 0.00 0.00 0.00 3.69
106 107 2.851263 TTGCGAACATGGTTAGGAGT 57.149 45.000 0.00 0.00 0.00 3.85
107 108 3.965379 TTGCGAACATGGTTAGGAGTA 57.035 42.857 0.00 0.00 0.00 2.59
108 109 3.241067 TGCGAACATGGTTAGGAGTAC 57.759 47.619 0.00 0.00 0.00 2.73
109 110 2.829720 TGCGAACATGGTTAGGAGTACT 59.170 45.455 0.00 0.00 0.00 2.73
110 111 3.187700 GCGAACATGGTTAGGAGTACTG 58.812 50.000 0.00 0.00 0.00 2.74
111 112 3.187700 CGAACATGGTTAGGAGTACTGC 58.812 50.000 6.22 6.22 0.00 4.40
112 113 3.119101 CGAACATGGTTAGGAGTACTGCT 60.119 47.826 21.35 21.35 34.87 4.24
113 114 4.097437 CGAACATGGTTAGGAGTACTGCTA 59.903 45.833 19.15 19.15 32.14 3.49
114 115 5.340439 AACATGGTTAGGAGTACTGCTAC 57.660 43.478 22.30 16.52 33.17 3.58
132 133 2.938956 ACGATCCAATCCTGGGATTC 57.061 50.000 11.50 1.20 45.05 2.52
158 159 1.632409 CCCCCACTATCATGCTGCTAT 59.368 52.381 0.00 0.00 0.00 2.97
159 160 2.617276 CCCCCACTATCATGCTGCTATG 60.617 54.545 0.00 3.58 0.00 2.23
163 164 4.323257 CCCACTATCATGCTGCTATGATCA 60.323 45.833 22.07 0.00 44.43 2.92
165 166 5.880887 CCACTATCATGCTGCTATGATCATT 59.119 40.000 22.07 11.11 44.43 2.57
923 926 4.340620 GACTCCGTGTAGAGGCCT 57.659 61.111 3.86 3.86 35.71 5.19
925 928 1.668101 GACTCCGTGTAGAGGCCTGG 61.668 65.000 12.00 3.43 35.71 4.45
932 935 1.626825 GTGTAGAGGCCTGGTTGGTAA 59.373 52.381 12.00 0.00 38.35 2.85
944 947 3.636313 TTGGTAAGCGAGGCGGACG 62.636 63.158 0.00 0.00 0.00 4.79
1139 1142 3.470888 CGAGAGCCCCCAATCCGT 61.471 66.667 0.00 0.00 0.00 4.69
1170 1174 1.567504 TCTTCCCGCGAATCGAAATC 58.432 50.000 8.23 0.00 41.67 2.17
1236 1242 4.077184 ATTCCGAGGGTTCGCGCA 62.077 61.111 8.75 0.00 45.38 6.09
1466 1472 3.575399 GATTTGGGAATCGCATGCC 57.425 52.632 13.15 0.00 32.96 4.40
1573 1587 2.817258 TGCTAAGCGTGCTTAAATTGGT 59.183 40.909 14.63 0.00 37.97 3.67
1681 1695 1.520787 GTACCCAGATTGACGCCCG 60.521 63.158 0.00 0.00 0.00 6.13
1715 1729 5.871465 TTTGTCAATCGCATTGCTAGTTA 57.129 34.783 7.12 0.00 40.05 2.24
1716 1730 4.857871 TGTCAATCGCATTGCTAGTTAC 57.142 40.909 7.12 0.00 40.05 2.50
1728 1742 7.464178 CGCATTGCTAGTTACGAGACTAAATTT 60.464 37.037 7.12 0.00 32.10 1.82
1767 1781 4.563580 CCTTCCGGAGATCTCACTTGAAAA 60.564 45.833 23.85 7.25 0.00 2.29
1914 1929 0.304705 GTGCTCACTTTGTGGTGTCG 59.695 55.000 0.00 0.00 38.28 4.35
1918 1933 2.688507 CTCACTTTGTGGTGTCGCTAT 58.311 47.619 0.00 0.00 38.28 2.97
1935 1950 2.417243 GCTATTGTGTGGTTCCATTGGC 60.417 50.000 0.00 0.00 0.00 4.52
1954 1969 2.640184 GCCGTTACTTGCCTTATCCTT 58.360 47.619 0.00 0.00 0.00 3.36
1970 1985 8.466798 GCCTTATCCTTTTTGCTATCTTGTTTA 58.533 33.333 0.00 0.00 0.00 2.01
2016 2044 4.158209 CACATGCCATTTGAGTTGTCCATA 59.842 41.667 0.00 0.00 0.00 2.74
2109 2171 3.181480 TGTTTAACTGTTCTTTGCCTGGC 60.181 43.478 12.87 12.87 0.00 4.85
2110 2172 2.356665 TAACTGTTCTTTGCCTGGCA 57.643 45.000 19.30 19.30 36.47 4.92
2127 2189 2.229543 TGGCAATGAATGTGTCTTCTGC 59.770 45.455 0.00 0.00 0.00 4.26
2135 2204 5.102313 TGAATGTGTCTTCTGCGTAGTATG 58.898 41.667 0.00 0.00 0.00 2.39
2223 2292 8.912787 ATGACTAACTGTGTAAAGAAGATACG 57.087 34.615 0.00 0.00 0.00 3.06
2325 2395 7.102993 TCTGTGTTAGTGCTGCATTATTTCTA 58.897 34.615 5.27 0.00 0.00 2.10
2500 2573 2.795329 TGACAAGAAAGCTTCCCATCC 58.205 47.619 0.00 0.00 30.14 3.51
2563 2636 6.715280 AGAAGAGAAAGCATGAAGATACCAA 58.285 36.000 0.00 0.00 0.00 3.67
2667 2740 4.074970 GGCTCCTTCTTTCATTCAGACAA 58.925 43.478 0.00 0.00 0.00 3.18
2669 2742 5.184671 GGCTCCTTCTTTCATTCAGACAATT 59.815 40.000 0.00 0.00 0.00 2.32
2740 2813 0.543749 CTCCCAGGCCCTAGTCAAAG 59.456 60.000 0.00 0.00 0.00 2.77
3173 3246 3.709653 TCACGCAAAAGATAGATACCCCT 59.290 43.478 0.00 0.00 0.00 4.79
3271 3344 3.549794 GAAGTGCTGATCCTTTGCCTAT 58.450 45.455 0.00 0.00 0.00 2.57
3274 3347 0.957362 GCTGATCCTTTGCCTATGCC 59.043 55.000 0.00 0.00 36.33 4.40
3323 3396 0.247736 CTAAGGCGGCACAGAGAGTT 59.752 55.000 13.08 0.00 0.00 3.01
3345 3451 1.180029 CATTCCTCCTGCCAAGGTTG 58.820 55.000 0.00 0.00 44.82 3.77
3361 3467 2.443255 AGGTTGTTGACATTCCTCCTGT 59.557 45.455 3.59 0.00 0.00 4.00
3362 3468 2.554032 GGTTGTTGACATTCCTCCTGTG 59.446 50.000 0.00 0.00 0.00 3.66
3367 3473 2.338809 TGACATTCCTCCTGTGAAGGT 58.661 47.619 0.00 0.00 39.22 3.50
3374 3480 1.233019 CTCCTGTGAAGGTGTTGCAG 58.767 55.000 0.00 0.00 0.00 4.41
3383 3489 1.680338 AGGTGTTGCAGAAGGTTGAC 58.320 50.000 0.00 0.00 0.00 3.18
3386 3492 0.467290 TGTTGCAGAAGGTTGACCCC 60.467 55.000 0.00 0.00 36.42 4.95
3427 3533 0.103937 CGAAGAGATGCTCCTCCACC 59.896 60.000 2.94 0.00 33.76 4.61
3446 3552 1.435515 GAGTTTGCCGGTGTTGCAA 59.564 52.632 1.90 0.00 46.30 4.08
3464 3570 7.902917 GTGTTGCAAAAGGAAACAATAAAAGTC 59.097 33.333 0.00 0.00 46.64 3.01
3468 3574 6.562086 GCAAAAGGAAACAATAAAAGTCGCTG 60.562 38.462 0.00 0.00 0.00 5.18
3474 3580 3.146066 ACAATAAAAGTCGCTGCTTCCA 58.854 40.909 0.00 0.00 0.00 3.53
3520 3626 0.389025 GTCCTGCACAAACCAAAGGG 59.611 55.000 0.00 0.00 41.29 3.95
3529 3635 0.114364 AAACCAAAGGGGCCTGTAGG 59.886 55.000 0.84 3.64 42.05 3.18
3540 3646 2.427245 CCTGTAGGCACTCCCCTCG 61.427 68.421 0.00 0.00 41.75 4.63
3543 3649 2.043248 TAGGCACTCCCCTCGTCC 60.043 66.667 0.00 0.00 41.75 4.79
3562 3668 0.317603 CAACAGCAGCAGTCAAGCAC 60.318 55.000 0.00 0.00 36.85 4.40
3563 3669 1.450531 AACAGCAGCAGTCAAGCACC 61.451 55.000 0.00 0.00 36.85 5.01
3564 3670 1.600076 CAGCAGCAGTCAAGCACCT 60.600 57.895 0.00 0.00 36.85 4.00
3615 3721 1.028905 CAGGAACACCGAAAAAGGCA 58.971 50.000 0.00 0.00 33.69 4.75
3628 3734 0.036875 AAAGGCACAGTACCAGAGGC 59.963 55.000 0.00 0.00 0.00 4.70
3638 3744 1.137282 GTACCAGAGGCTAAGCAGTCC 59.863 57.143 0.00 0.00 0.00 3.85
3809 3915 2.226962 AGAAACCTGATGCCAGCAAT 57.773 45.000 0.00 0.00 39.07 3.56
3924 4030 2.166254 CAGTTGCCATATGTTGTTCCCC 59.834 50.000 1.24 0.00 0.00 4.81
4123 4238 7.728847 ATGACTTAATTTTTGGTTTCAAGCC 57.271 32.000 0.00 0.00 33.98 4.35
4125 4240 6.536941 TGACTTAATTTTTGGTTTCAAGCCAC 59.463 34.615 0.00 0.00 35.46 5.01
4199 4335 3.761897 TGACAAATCTTGTTACCCCTGG 58.238 45.455 0.00 0.00 45.52 4.45
4233 4376 9.466497 ACATCATTCAGACCATGTAAATAAACT 57.534 29.630 0.00 0.00 0.00 2.66
4235 4378 8.279970 TCATTCAGACCATGTAAATAAACTGG 57.720 34.615 0.00 0.00 0.00 4.00
4236 4379 8.106462 TCATTCAGACCATGTAAATAAACTGGA 58.894 33.333 0.00 0.00 0.00 3.86
4237 4380 7.921786 TTCAGACCATGTAAATAAACTGGAG 57.078 36.000 0.00 0.00 0.00 3.86
4238 4381 7.252612 TCAGACCATGTAAATAAACTGGAGA 57.747 36.000 0.00 0.00 0.00 3.71
4239 4382 7.685481 TCAGACCATGTAAATAAACTGGAGAA 58.315 34.615 0.00 0.00 0.00 2.87
4240 4383 7.824289 TCAGACCATGTAAATAAACTGGAGAAG 59.176 37.037 0.00 0.00 0.00 2.85
4241 4384 7.066284 CAGACCATGTAAATAAACTGGAGAAGG 59.934 40.741 0.00 0.00 0.00 3.46
4242 4385 7.027874 ACCATGTAAATAAACTGGAGAAGGA 57.972 36.000 0.00 0.00 0.00 3.36
4243 4386 7.112779 ACCATGTAAATAAACTGGAGAAGGAG 58.887 38.462 0.00 0.00 0.00 3.69
4244 4387 6.038714 CCATGTAAATAAACTGGAGAAGGAGC 59.961 42.308 0.00 0.00 0.00 4.70
4245 4388 6.374417 TGTAAATAAACTGGAGAAGGAGCT 57.626 37.500 0.00 0.00 0.00 4.09
4246 4389 6.779860 TGTAAATAAACTGGAGAAGGAGCTT 58.220 36.000 0.00 0.00 0.00 3.74
4247 4390 6.879458 TGTAAATAAACTGGAGAAGGAGCTTC 59.121 38.462 0.00 0.00 40.45 3.86
4256 4399 2.520069 AGAAGGAGCTTCTCGACAAGA 58.480 47.619 4.45 0.00 46.42 3.02
4257 4400 2.230266 AGAAGGAGCTTCTCGACAAGAC 59.770 50.000 4.45 0.00 46.42 3.01
4258 4401 0.892063 AGGAGCTTCTCGACAAGACC 59.108 55.000 4.45 6.77 32.27 3.85
4259 4402 0.603569 GGAGCTTCTCGACAAGACCA 59.396 55.000 4.45 0.00 32.27 4.02
4260 4403 1.205893 GGAGCTTCTCGACAAGACCAT 59.794 52.381 4.45 0.00 32.27 3.55
4261 4404 2.427453 GGAGCTTCTCGACAAGACCATA 59.573 50.000 4.45 0.00 32.27 2.74
4262 4405 3.440228 GAGCTTCTCGACAAGACCATAC 58.560 50.000 4.45 0.00 32.27 2.39
4263 4406 2.826128 AGCTTCTCGACAAGACCATACA 59.174 45.455 4.45 0.00 32.27 2.29
4264 4407 2.924290 GCTTCTCGACAAGACCATACAC 59.076 50.000 4.45 0.00 32.27 2.90
4265 4408 3.367498 GCTTCTCGACAAGACCATACACT 60.367 47.826 4.45 0.00 32.27 3.55
4266 4409 4.810790 CTTCTCGACAAGACCATACACTT 58.189 43.478 0.00 0.00 32.27 3.16
4267 4410 5.621555 GCTTCTCGACAAGACCATACACTTA 60.622 44.000 4.45 0.00 32.27 2.24
4268 4411 6.525578 TTCTCGACAAGACCATACACTTAT 57.474 37.500 0.00 0.00 32.27 1.73
4269 4412 7.634671 TTCTCGACAAGACCATACACTTATA 57.365 36.000 0.00 0.00 32.27 0.98
4270 4413 7.260558 TCTCGACAAGACCATACACTTATAG 57.739 40.000 0.00 0.00 0.00 1.31
4271 4414 5.828747 TCGACAAGACCATACACTTATAGC 58.171 41.667 0.00 0.00 0.00 2.97
4272 4415 5.593095 TCGACAAGACCATACACTTATAGCT 59.407 40.000 0.00 0.00 0.00 3.32
4273 4416 5.915758 CGACAAGACCATACACTTATAGCTC 59.084 44.000 0.00 0.00 0.00 4.09
4274 4417 6.238786 CGACAAGACCATACACTTATAGCTCT 60.239 42.308 0.00 0.00 0.00 4.09
4275 4418 7.041303 CGACAAGACCATACACTTATAGCTCTA 60.041 40.741 0.00 0.00 0.00 2.43
4276 4419 8.172352 ACAAGACCATACACTTATAGCTCTAG 57.828 38.462 0.00 0.00 0.00 2.43
4277 4420 7.780745 ACAAGACCATACACTTATAGCTCTAGT 59.219 37.037 0.00 0.00 0.00 2.57
4278 4421 7.753309 AGACCATACACTTATAGCTCTAGTG 57.247 40.000 16.77 16.77 43.72 2.74
4279 4422 7.519057 AGACCATACACTTATAGCTCTAGTGA 58.481 38.462 22.34 11.15 41.33 3.41
4280 4423 7.999545 AGACCATACACTTATAGCTCTAGTGAA 59.000 37.037 22.34 0.00 41.33 3.18
4281 4424 8.172352 ACCATACACTTATAGCTCTAGTGAAG 57.828 38.462 22.34 13.77 41.33 3.02
4282 4425 7.999545 ACCATACACTTATAGCTCTAGTGAAGA 59.000 37.037 22.34 11.67 41.33 2.87
4331 4475 0.961019 GGCACACTGAAAGGCATTCA 59.039 50.000 4.95 4.95 45.71 2.57
4392 4536 4.586306 TCTATCGGCTATCATGTCCCTA 57.414 45.455 0.00 0.00 0.00 3.53
4435 4579 7.537306 CACCTGCTTTGTTTATGTTATGTACAC 59.463 37.037 0.00 0.00 40.19 2.90
4449 4593 7.868922 ATGTTATGTACACGAGTTTGTAACTCA 59.131 33.333 17.02 0.91 46.90 3.41
4480 4624 5.360714 AGACAAGCAAACTCATCCAAAAAGA 59.639 36.000 0.00 0.00 0.00 2.52
4482 4626 6.405538 ACAAGCAAACTCATCCAAAAAGAAA 58.594 32.000 0.00 0.00 0.00 2.52
4484 4628 7.064966 ACAAGCAAACTCATCCAAAAAGAAAAG 59.935 33.333 0.00 0.00 0.00 2.27
4489 4633 9.112725 CAAACTCATCCAAAAAGAAAAGGAAAT 57.887 29.630 0.00 0.00 33.17 2.17
4491 4635 7.795047 ACTCATCCAAAAAGAAAAGGAAATGT 58.205 30.769 0.00 0.00 33.17 2.71
4499 4643 9.986833 CAAAAAGAAAAGGAAATGTTAAACAGG 57.013 29.630 0.00 0.00 0.00 4.00
4714 4862 2.100603 CTCGTCGCGTCCTCTTCC 59.899 66.667 5.77 0.00 0.00 3.46
4755 4903 1.253593 TGCCACCACACACAAGCAAA 61.254 50.000 0.00 0.00 0.00 3.68
4761 4909 4.043750 CACCACACACAAGCAAATGTTAG 58.956 43.478 0.00 0.00 0.00 2.34
4767 4915 4.207635 CACACAAGCAAATGTTAGCACTTG 59.792 41.667 0.00 0.00 40.19 3.16
4779 4927 2.877043 AGCACTTGAAAAACTGCAGG 57.123 45.000 19.93 0.00 33.21 4.85
4780 4928 1.410153 AGCACTTGAAAAACTGCAGGG 59.590 47.619 19.93 0.00 33.21 4.45
4781 4929 1.856802 CACTTGAAAAACTGCAGGGC 58.143 50.000 19.93 2.70 0.00 5.19
4782 4930 0.752658 ACTTGAAAAACTGCAGGGCC 59.247 50.000 19.93 0.00 0.00 5.80
4817 5009 2.757868 TCTGAAGAAGAGCCTGCTACTC 59.242 50.000 0.00 0.00 0.00 2.59
4822 5014 2.025416 AGAAGAGCCTGCTACTCAGAGA 60.025 50.000 3.79 0.00 45.72 3.10
4823 5015 2.057137 AGAGCCTGCTACTCAGAGAG 57.943 55.000 3.79 0.00 45.72 3.20
4824 5016 1.563879 AGAGCCTGCTACTCAGAGAGA 59.436 52.381 3.79 0.00 45.72 3.10
5031 5223 1.446792 CCGCGTCAGCACAATCTCT 60.447 57.895 4.92 0.00 45.49 3.10
5049 5241 3.383505 TCTCTCTCTCTCTCTACACGAGG 59.616 52.174 0.00 0.00 40.30 4.63
5054 5246 3.799366 TCTCTCTCTACACGAGGATGAC 58.201 50.000 0.00 0.00 40.30 3.06
5055 5247 3.197983 TCTCTCTCTACACGAGGATGACA 59.802 47.826 0.00 0.00 40.30 3.58
5059 5287 4.270008 TCTCTACACGAGGATGACAATGA 58.730 43.478 0.00 0.00 40.30 2.57
5063 5291 7.231519 TCTCTACACGAGGATGACAATGATAAT 59.768 37.037 0.00 0.00 40.30 1.28
5089 5317 3.857157 AACACAGTGAGGTGGTTATGT 57.143 42.857 7.81 0.00 43.08 2.29
5102 5330 4.261698 GGTGGTTATGTGTGTGGGTTTAAC 60.262 45.833 0.00 0.00 0.00 2.01
5149 5377 1.456287 GAGACTTTGGTGGTGGCCT 59.544 57.895 3.32 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 5.943706 TGAATCAACGACCCGAAATTTAA 57.056 34.783 0.00 0.00 0.00 1.52
27 28 5.943706 TTGAATCAACGACCCGAAATTTA 57.056 34.783 0.00 0.00 0.00 1.40
33 34 1.737696 CGGATTGAATCAACGACCCGA 60.738 52.381 17.05 0.00 0.00 5.14
70 71 2.477357 CGCAATTCCAGCTCATGTTCTG 60.477 50.000 9.11 9.11 0.00 3.02
76 77 1.825090 TGTTCGCAATTCCAGCTCAT 58.175 45.000 0.00 0.00 0.00 2.90
100 101 3.851458 TGGATCGTAGCAGTACTCCTA 57.149 47.619 0.00 0.00 28.84 2.94
101 102 2.730934 TGGATCGTAGCAGTACTCCT 57.269 50.000 0.00 0.00 28.84 3.69
103 104 3.570550 AGGATTGGATCGTAGCAGTACTC 59.429 47.826 0.00 0.00 0.00 2.59
104 105 3.319405 CAGGATTGGATCGTAGCAGTACT 59.681 47.826 0.00 0.00 0.00 2.73
105 106 3.643763 CAGGATTGGATCGTAGCAGTAC 58.356 50.000 0.00 0.00 0.00 2.73
107 108 2.898729 CAGGATTGGATCGTAGCAGT 57.101 50.000 0.00 0.00 0.00 4.40
139 140 2.303890 TCATAGCAGCATGATAGTGGGG 59.696 50.000 0.00 0.00 41.98 4.96
140 141 3.690475 TCATAGCAGCATGATAGTGGG 57.310 47.619 0.00 0.00 41.98 4.61
141 142 4.828829 TGATCATAGCAGCATGATAGTGG 58.171 43.478 15.95 0.00 41.98 4.00
142 143 6.371825 ACAATGATCATAGCAGCATGATAGTG 59.628 38.462 9.04 15.31 41.98 2.74
153 154 2.874086 CGCCTGAACAATGATCATAGCA 59.126 45.455 9.04 4.32 0.00 3.49
154 155 2.350197 GCGCCTGAACAATGATCATAGC 60.350 50.000 9.04 0.19 0.00 2.97
158 159 0.390998 TCGCGCCTGAACAATGATCA 60.391 50.000 0.00 0.00 0.00 2.92
159 160 0.302890 CTCGCGCCTGAACAATGATC 59.697 55.000 0.00 0.00 0.00 2.92
163 164 2.309528 TAATCTCGCGCCTGAACAAT 57.690 45.000 0.00 0.00 0.00 2.71
165 166 1.730064 GTTTAATCTCGCGCCTGAACA 59.270 47.619 0.00 0.00 0.00 3.18
905 908 1.380112 AGGCCTCTACACGGAGTCC 60.380 63.158 0.00 0.00 41.61 3.85
923 926 2.047655 CGCCTCGCTTACCAACCA 60.048 61.111 0.00 0.00 0.00 3.67
925 928 2.098831 GTCCGCCTCGCTTACCAAC 61.099 63.158 0.00 0.00 0.00 3.77
1466 1472 1.077429 GCAAGGTTAGCCTCCCCTG 60.077 63.158 0.00 0.00 46.33 4.45
1548 1554 0.321210 TTAAGCACGCTTAGCAGGCA 60.321 50.000 17.12 0.00 39.36 4.75
1573 1587 8.986847 CATGTTTTGTTTGCATTCAGGTTATTA 58.013 29.630 0.00 0.00 0.00 0.98
1767 1781 5.271598 TGGAGGAATATGAAATGTTTGCCT 58.728 37.500 0.00 0.00 0.00 4.75
1778 1792 7.748677 TCATTGCTAAATCTGGAGGAATATGA 58.251 34.615 0.00 0.00 32.60 2.15
1781 1795 7.379059 TCTCATTGCTAAATCTGGAGGAATA 57.621 36.000 0.00 0.00 32.60 1.75
1882 1897 3.559238 GTGAGCACACTAATTTGTGGG 57.441 47.619 21.35 19.14 46.00 4.61
1914 1929 2.417243 GCCAATGGAACCACACAATAGC 60.417 50.000 2.05 0.00 0.00 2.97
1918 1933 1.459455 CGGCCAATGGAACCACACAA 61.459 55.000 2.05 0.00 0.00 3.33
1935 1950 5.399013 CAAAAAGGATAAGGCAAGTAACGG 58.601 41.667 0.00 0.00 0.00 4.44
1970 1985 5.105752 GTCAAGATTGCGAGACTACAAGAT 58.894 41.667 0.00 0.00 0.00 2.40
1972 1987 4.090642 GTGTCAAGATTGCGAGACTACAAG 59.909 45.833 0.00 0.00 32.41 3.16
2109 2171 3.818961 ACGCAGAAGACACATTCATTG 57.181 42.857 0.00 0.00 0.00 2.82
2110 2172 4.569943 ACTACGCAGAAGACACATTCATT 58.430 39.130 0.00 0.00 0.00 2.57
2111 2173 4.193826 ACTACGCAGAAGACACATTCAT 57.806 40.909 0.00 0.00 0.00 2.57
2112 2174 3.660501 ACTACGCAGAAGACACATTCA 57.339 42.857 0.00 0.00 0.00 2.57
2113 2175 4.504461 CCATACTACGCAGAAGACACATTC 59.496 45.833 0.00 0.00 0.00 2.67
2127 2189 6.146216 TCAAAATTTGCACAACCATACTACG 58.854 36.000 0.00 0.00 0.00 3.51
2135 2204 3.560896 AGCACATCAAAATTTGCACAACC 59.439 39.130 0.00 0.00 40.36 3.77
2325 2395 5.574891 TTCAAACTTACACAAGCACACAT 57.425 34.783 0.00 0.00 34.94 3.21
2413 2483 3.950395 GAGCTTCAGCCACCAGATTAATT 59.050 43.478 0.00 0.00 43.38 1.40
2500 2573 0.464735 TTTTGTCTCACCACCACCCG 60.465 55.000 0.00 0.00 0.00 5.28
2563 2636 1.043673 GGACTCCGGACCAGCTATGT 61.044 60.000 0.00 0.00 0.00 2.29
2573 2646 1.072505 GGCAGTTTTGGACTCCGGA 59.927 57.895 2.93 2.93 36.10 5.14
2667 2740 3.047115 AGCTCTCTGGTGATCCATGAAT 58.953 45.455 0.00 0.00 43.43 2.57
2669 2742 2.037901 GAGCTCTCTGGTGATCCATGA 58.962 52.381 6.43 0.00 43.43 3.07
2982 3055 4.018870 TGACTTTACCATAACATCCCTGCA 60.019 41.667 0.00 0.00 0.00 4.41
3173 3246 3.632643 TGCATGATCTTTGCTGAGGTA 57.367 42.857 18.04 0.00 40.77 3.08
3271 3344 4.700365 CTCGTCGTGTCAGCGGCA 62.700 66.667 1.45 0.00 36.09 5.69
3274 3347 1.206745 AACAACTCGTCGTGTCAGCG 61.207 55.000 0.00 0.00 0.00 5.18
3323 3396 0.329261 CCTTGGCAGGAGGAATGTCA 59.671 55.000 0.00 0.00 44.19 3.58
3345 3451 3.077359 CCTTCACAGGAGGAATGTCAAC 58.923 50.000 0.00 0.00 44.19 3.18
3361 3467 2.023673 CAACCTTCTGCAACACCTTCA 58.976 47.619 0.00 0.00 0.00 3.02
3362 3468 2.033424 GTCAACCTTCTGCAACACCTTC 59.967 50.000 0.00 0.00 0.00 3.46
3367 3473 0.467290 GGGGTCAACCTTCTGCAACA 60.467 55.000 0.00 0.00 40.03 3.33
3383 3489 3.667217 CTTGGATGGCACCAGGGGG 62.667 68.421 9.37 0.00 41.19 5.40
3386 3492 1.679977 CACCTTGGATGGCACCAGG 60.680 63.158 15.74 15.74 41.19 4.45
3427 3533 2.051345 GCAACACCGGCAAACTCG 60.051 61.111 0.00 0.00 0.00 4.18
3446 3552 4.982295 GCAGCGACTTTTATTGTTTCCTTT 59.018 37.500 0.00 0.00 0.00 3.11
3468 3574 1.228245 TGTCTGGCTGGTTGGAAGC 60.228 57.895 0.00 0.00 40.06 3.86
3503 3609 1.747774 CCCCTTTGGTTTGTGCAGG 59.252 57.895 0.00 0.00 0.00 4.85
3529 3635 2.047179 GTTGGACGAGGGGAGTGC 60.047 66.667 0.00 0.00 0.00 4.40
3531 3637 2.584391 GCTGTTGGACGAGGGGAGT 61.584 63.158 0.00 0.00 0.00 3.85
3540 3646 0.590195 CTTGACTGCTGCTGTTGGAC 59.410 55.000 13.49 1.78 0.00 4.02
3543 3649 0.317603 GTGCTTGACTGCTGCTGTTG 60.318 55.000 13.49 8.35 0.00 3.33
3562 3668 1.731720 CTCTTCTTTCGCCAAGGAGG 58.268 55.000 3.39 0.00 38.57 4.30
3563 3669 1.082690 GCTCTTCTTTCGCCAAGGAG 58.917 55.000 0.00 0.00 39.36 3.69
3564 3670 0.321653 GGCTCTTCTTTCGCCAAGGA 60.322 55.000 0.00 0.00 43.25 3.36
3605 3711 2.480419 CTCTGGTACTGTGCCTTTTTCG 59.520 50.000 15.99 0.00 0.00 3.46
3615 3721 1.827969 CTGCTTAGCCTCTGGTACTGT 59.172 52.381 0.29 0.00 0.00 3.55
3628 3734 3.119316 ACGATCAGACTTGGACTGCTTAG 60.119 47.826 0.00 0.00 35.61 2.18
3638 3744 4.109050 GGCTCTTCTTACGATCAGACTTG 58.891 47.826 0.00 0.00 0.00 3.16
3809 3915 1.073722 ACTTGCCTTGCAGCTGCTA 59.926 52.632 36.61 29.17 40.61 3.49
3887 3993 4.449068 GGCAACTGATACATATGAAGGTCG 59.551 45.833 10.38 0.00 0.00 4.79
3924 4030 6.522054 TCAGTCTTCCTACACAAACCTAAAG 58.478 40.000 0.00 0.00 0.00 1.85
4099 4205 7.226523 GTGGCTTGAAACCAAAAATTAAGTCAT 59.773 33.333 0.00 0.00 39.39 3.06
4100 4206 6.536941 GTGGCTTGAAACCAAAAATTAAGTCA 59.463 34.615 0.00 0.00 39.39 3.41
4101 4207 6.761242 AGTGGCTTGAAACCAAAAATTAAGTC 59.239 34.615 0.00 0.00 39.39 3.01
4102 4208 6.538381 CAGTGGCTTGAAACCAAAAATTAAGT 59.462 34.615 0.00 0.00 39.39 2.24
4103 4209 6.760770 TCAGTGGCTTGAAACCAAAAATTAAG 59.239 34.615 0.00 0.00 39.39 1.85
4104 4210 6.644347 TCAGTGGCTTGAAACCAAAAATTAA 58.356 32.000 0.00 0.00 39.39 1.40
4105 4211 6.227298 TCAGTGGCTTGAAACCAAAAATTA 57.773 33.333 0.00 0.00 39.39 1.40
4106 4212 5.096443 TCAGTGGCTTGAAACCAAAAATT 57.904 34.783 0.00 0.00 39.39 1.82
4107 4213 4.751767 TCAGTGGCTTGAAACCAAAAAT 57.248 36.364 0.00 0.00 39.39 1.82
4108 4214 4.405358 AGATCAGTGGCTTGAAACCAAAAA 59.595 37.500 0.00 0.00 39.39 1.94
4112 4227 2.957402 AGATCAGTGGCTTGAAACCA 57.043 45.000 0.00 0.00 33.84 3.67
4114 4229 2.673368 CCGTAGATCAGTGGCTTGAAAC 59.327 50.000 0.00 0.00 0.00 2.78
4117 4232 1.476891 GTCCGTAGATCAGTGGCTTGA 59.523 52.381 0.00 0.00 0.00 3.02
4123 4238 3.056821 TCAAGGTTGTCCGTAGATCAGTG 60.057 47.826 0.00 0.00 39.05 3.66
4125 4240 3.868757 TCAAGGTTGTCCGTAGATCAG 57.131 47.619 0.00 0.00 39.05 2.90
4169 4305 8.303876 GGGTAACAAGATTTGTCATACAACATT 58.696 33.333 0.00 0.00 44.59 2.71
4170 4306 7.093945 GGGGTAACAAGATTTGTCATACAACAT 60.094 37.037 0.00 0.00 44.59 2.71
4171 4307 6.207810 GGGGTAACAAGATTTGTCATACAACA 59.792 38.462 0.00 0.00 44.59 3.33
4172 4308 6.433093 AGGGGTAACAAGATTTGTCATACAAC 59.567 38.462 0.00 0.00 44.59 3.32
4173 4309 6.432783 CAGGGGTAACAAGATTTGTCATACAA 59.567 38.462 0.00 0.00 44.59 2.41
4174 4310 5.943416 CAGGGGTAACAAGATTTGTCATACA 59.057 40.000 0.00 0.00 44.59 2.29
4175 4311 5.357032 CCAGGGGTAACAAGATTTGTCATAC 59.643 44.000 0.00 0.00 44.59 2.39
4176 4312 5.251932 TCCAGGGGTAACAAGATTTGTCATA 59.748 40.000 0.00 0.00 44.59 2.15
4177 4313 4.044065 TCCAGGGGTAACAAGATTTGTCAT 59.956 41.667 0.00 0.00 44.59 3.06
4178 4314 3.396276 TCCAGGGGTAACAAGATTTGTCA 59.604 43.478 0.00 0.00 44.59 3.58
4179 4315 4.028993 TCCAGGGGTAACAAGATTTGTC 57.971 45.455 0.00 0.00 44.59 3.18
4181 4317 5.016173 TCATTCCAGGGGTAACAAGATTTG 58.984 41.667 0.00 0.00 39.74 2.32
4182 4318 5.269554 TCATTCCAGGGGTAACAAGATTT 57.730 39.130 0.00 0.00 39.74 2.17
4183 4319 4.946160 TCATTCCAGGGGTAACAAGATT 57.054 40.909 0.00 0.00 39.74 2.40
4184 4320 4.946160 TTCATTCCAGGGGTAACAAGAT 57.054 40.909 0.00 0.00 39.74 2.40
4185 4321 4.946160 ATTCATTCCAGGGGTAACAAGA 57.054 40.909 0.00 0.00 39.74 3.02
4186 4322 5.505780 TGTATTCATTCCAGGGGTAACAAG 58.494 41.667 0.00 0.00 39.74 3.16
4187 4323 5.522315 TGTATTCATTCCAGGGGTAACAA 57.478 39.130 0.00 0.00 39.74 2.83
4188 4324 5.192722 TGATGTATTCATTCCAGGGGTAACA 59.807 40.000 0.00 0.00 34.06 2.41
4237 4380 2.601804 GTCTTGTCGAGAAGCTCCTTC 58.398 52.381 17.06 0.00 40.45 3.46
4238 4381 1.273886 GGTCTTGTCGAGAAGCTCCTT 59.726 52.381 17.06 0.00 35.79 3.36
4239 4382 0.892063 GGTCTTGTCGAGAAGCTCCT 59.108 55.000 17.06 0.00 35.79 3.69
4240 4383 0.603569 TGGTCTTGTCGAGAAGCTCC 59.396 55.000 17.06 19.33 35.79 4.70
4241 4384 2.663826 ATGGTCTTGTCGAGAAGCTC 57.336 50.000 17.06 11.92 35.79 4.09
4242 4385 2.826128 TGTATGGTCTTGTCGAGAAGCT 59.174 45.455 17.06 4.91 35.79 3.74
4243 4386 2.924290 GTGTATGGTCTTGTCGAGAAGC 59.076 50.000 17.06 11.84 35.79 3.86
4244 4387 4.442375 AGTGTATGGTCTTGTCGAGAAG 57.558 45.455 15.84 15.84 35.79 2.85
4245 4388 4.866508 AAGTGTATGGTCTTGTCGAGAA 57.133 40.909 0.00 0.00 35.79 2.87
4246 4389 6.238676 GCTATAAGTGTATGGTCTTGTCGAGA 60.239 42.308 0.00 0.00 0.00 4.04
4247 4390 5.915758 GCTATAAGTGTATGGTCTTGTCGAG 59.084 44.000 0.00 0.00 0.00 4.04
4248 4391 5.593095 AGCTATAAGTGTATGGTCTTGTCGA 59.407 40.000 0.00 0.00 0.00 4.20
4249 4392 5.833082 AGCTATAAGTGTATGGTCTTGTCG 58.167 41.667 0.00 0.00 0.00 4.35
4250 4393 7.045126 AGAGCTATAAGTGTATGGTCTTGTC 57.955 40.000 0.00 0.00 0.00 3.18
4251 4394 7.780745 ACTAGAGCTATAAGTGTATGGTCTTGT 59.219 37.037 0.00 0.00 0.00 3.16
4252 4395 8.079203 CACTAGAGCTATAAGTGTATGGTCTTG 58.921 40.741 12.30 0.00 36.66 3.02
4253 4396 7.999545 TCACTAGAGCTATAAGTGTATGGTCTT 59.000 37.037 17.44 0.00 41.12 3.01
4254 4397 7.519057 TCACTAGAGCTATAAGTGTATGGTCT 58.481 38.462 17.44 0.00 41.12 3.85
4255 4398 7.747155 TCACTAGAGCTATAAGTGTATGGTC 57.253 40.000 17.44 0.00 41.12 4.02
4256 4399 7.999545 TCTTCACTAGAGCTATAAGTGTATGGT 59.000 37.037 17.44 0.00 41.12 3.55
4257 4400 8.293867 GTCTTCACTAGAGCTATAAGTGTATGG 58.706 40.741 17.44 9.57 41.12 2.74
4258 4401 8.012809 CGTCTTCACTAGAGCTATAAGTGTATG 58.987 40.741 17.44 11.25 41.12 2.39
4259 4402 7.716123 ACGTCTTCACTAGAGCTATAAGTGTAT 59.284 37.037 17.44 0.00 41.12 2.29
4260 4403 7.011202 CACGTCTTCACTAGAGCTATAAGTGTA 59.989 40.741 17.44 10.44 41.12 2.90
4261 4404 5.881443 ACGTCTTCACTAGAGCTATAAGTGT 59.119 40.000 17.44 0.00 41.12 3.55
4262 4405 6.195868 CACGTCTTCACTAGAGCTATAAGTG 58.804 44.000 13.73 13.73 41.58 3.16
4263 4406 5.297278 CCACGTCTTCACTAGAGCTATAAGT 59.703 44.000 0.00 0.00 32.23 2.24
4264 4407 5.753744 CCACGTCTTCACTAGAGCTATAAG 58.246 45.833 0.00 0.00 32.23 1.73
4265 4408 4.036498 GCCACGTCTTCACTAGAGCTATAA 59.964 45.833 0.00 0.00 32.23 0.98
4266 4409 3.564644 GCCACGTCTTCACTAGAGCTATA 59.435 47.826 0.00 0.00 32.23 1.31
4267 4410 2.359531 GCCACGTCTTCACTAGAGCTAT 59.640 50.000 0.00 0.00 32.23 2.97
4268 4411 1.743958 GCCACGTCTTCACTAGAGCTA 59.256 52.381 0.00 0.00 32.23 3.32
4269 4412 0.528470 GCCACGTCTTCACTAGAGCT 59.472 55.000 0.00 0.00 32.23 4.09
4270 4413 0.528470 AGCCACGTCTTCACTAGAGC 59.472 55.000 0.00 0.00 32.23 4.09
4271 4414 2.989840 CAAAGCCACGTCTTCACTAGAG 59.010 50.000 0.00 0.00 32.23 2.43
4272 4415 2.364324 ACAAAGCCACGTCTTCACTAGA 59.636 45.455 0.00 0.00 0.00 2.43
4273 4416 2.476619 CACAAAGCCACGTCTTCACTAG 59.523 50.000 0.00 0.00 0.00 2.57
4274 4417 2.159014 ACACAAAGCCACGTCTTCACTA 60.159 45.455 0.00 0.00 0.00 2.74
4275 4418 1.299541 CACAAAGCCACGTCTTCACT 58.700 50.000 0.00 0.00 0.00 3.41
4276 4419 1.003866 GACACAAAGCCACGTCTTCAC 60.004 52.381 0.00 0.00 0.00 3.18
4277 4420 1.295792 GACACAAAGCCACGTCTTCA 58.704 50.000 0.00 0.00 0.00 3.02
4278 4421 0.586802 GGACACAAAGCCACGTCTTC 59.413 55.000 0.00 0.00 0.00 2.87
4279 4422 1.157870 CGGACACAAAGCCACGTCTT 61.158 55.000 0.00 0.00 0.00 3.01
4280 4423 1.594293 CGGACACAAAGCCACGTCT 60.594 57.895 0.00 0.00 0.00 4.18
4281 4424 1.155424 TTCGGACACAAAGCCACGTC 61.155 55.000 0.00 0.00 0.00 4.34
4282 4425 0.534203 ATTCGGACACAAAGCCACGT 60.534 50.000 0.00 0.00 0.00 4.49
4449 4593 5.812127 GGATGAGTTTGCTTGTCTTTTGTTT 59.188 36.000 0.00 0.00 0.00 2.83
4462 4606 6.048509 TCCTTTTCTTTTTGGATGAGTTTGC 58.951 36.000 0.00 0.00 0.00 3.68
4480 4624 7.125053 TGACCTTCCTGTTTAACATTTCCTTTT 59.875 33.333 0.00 0.00 0.00 2.27
4482 4626 6.133356 TGACCTTCCTGTTTAACATTTCCTT 58.867 36.000 0.00 0.00 0.00 3.36
4484 4628 6.399639 TTGACCTTCCTGTTTAACATTTCC 57.600 37.500 0.00 0.00 0.00 3.13
4489 4633 4.963373 TCGATTGACCTTCCTGTTTAACA 58.037 39.130 0.00 0.00 0.00 2.41
4491 4635 4.454504 GCTTCGATTGACCTTCCTGTTTAA 59.545 41.667 0.00 0.00 0.00 1.52
4496 4640 2.005451 CAGCTTCGATTGACCTTCCTG 58.995 52.381 0.00 0.00 0.00 3.86
4499 4643 2.275318 CTCCAGCTTCGATTGACCTTC 58.725 52.381 0.00 0.00 0.00 3.46
4714 4862 1.991121 TACTGAGCATACTACGGGGG 58.009 55.000 0.00 0.00 0.00 5.40
4767 4915 2.620251 AAAAGGCCCTGCAGTTTTTC 57.380 45.000 13.81 0.00 0.00 2.29
4817 5009 2.550978 GTCCGTCTCTCTCTCTCTCTG 58.449 57.143 0.00 0.00 0.00 3.35
4822 5014 0.393808 GCAGGTCCGTCTCTCTCTCT 60.394 60.000 0.00 0.00 0.00 3.10
4823 5015 1.711060 CGCAGGTCCGTCTCTCTCTC 61.711 65.000 0.00 0.00 0.00 3.20
4824 5016 1.747367 CGCAGGTCCGTCTCTCTCT 60.747 63.158 0.00 0.00 0.00 3.10
4825 5017 1.098712 ATCGCAGGTCCGTCTCTCTC 61.099 60.000 0.00 0.00 0.00 3.20
4826 5018 0.180642 TATCGCAGGTCCGTCTCTCT 59.819 55.000 0.00 0.00 0.00 3.10
4827 5019 1.198178 GATATCGCAGGTCCGTCTCTC 59.802 57.143 0.00 0.00 0.00 3.20
4906 5098 2.114625 ACGACGAGGTGGAGGTGA 59.885 61.111 0.00 0.00 0.00 4.02
5006 5198 2.970324 TGCTGACGCGGTTGTTCC 60.970 61.111 12.47 0.00 39.65 3.62
5009 5201 1.841663 GATTGTGCTGACGCGGTTGT 61.842 55.000 12.47 0.00 39.65 3.32
5049 5241 9.849607 CTGTGTTACGTTATTATCATTGTCATC 57.150 33.333 0.00 0.00 0.00 2.92
5054 5246 8.328146 CCTCACTGTGTTACGTTATTATCATTG 58.672 37.037 7.79 0.00 0.00 2.82
5055 5247 8.038944 ACCTCACTGTGTTACGTTATTATCATT 58.961 33.333 7.79 0.00 0.00 2.57
5059 5287 6.103997 CCACCTCACTGTGTTACGTTATTAT 58.896 40.000 7.79 0.00 34.35 1.28
5063 5291 2.694628 ACCACCTCACTGTGTTACGTTA 59.305 45.455 7.79 0.00 34.35 3.18
5089 5317 3.226777 CAATCCCAGTTAAACCCACACA 58.773 45.455 0.00 0.00 0.00 3.72
5102 5330 0.815615 GTAAGCCCTCGCAATCCCAG 60.816 60.000 0.00 0.00 37.52 4.45
5149 5377 2.975799 GGCGACGGCTCACCAAAA 60.976 61.111 15.00 0.00 39.81 2.44


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

AutoCloner maintained by Alex Coulton.