Multiple sequence alignment - TraesCS2B01G379800

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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 TraesCS2B01G379800 chr2B 100.000 5871 0 0 1 5871 543195013 543189143 0.000000e+00 10842.0
1 TraesCS2B01G379800 chr2B 90.882 340 22 2 5320 5652 543167749 543167412 1.160000e-121 448.0
2 TraesCS2B01G379800 chr2B 95.930 172 4 1 5152 5323 543168190 543168022 5.800000e-70 276.0
3 TraesCS2B01G379800 chr2B 96.503 143 4 1 5038 5180 543172316 543172175 9.840000e-58 235.0
4 TraesCS2B01G379800 chr2B 93.548 124 6 1 5750 5871 543058199 543058076 3.610000e-42 183.0
5 TraesCS2B01G379800 chr2B 92.308 91 5 2 5783 5871 543165178 543165088 1.720000e-25 128.0
6 TraesCS2B01G379800 chr2B 95.652 69 3 0 5652 5720 543165255 543165187 1.730000e-20 111.0
7 TraesCS2B01G379800 chr2B 92.208 77 3 3 5176 5252 543142101 543142028 8.050000e-19 106.0
8 TraesCS2B01G379800 chr2A 91.816 5816 273 67 1 5733 605804817 605799122 0.000000e+00 7915.0
9 TraesCS2B01G379800 chr2D 93.556 5307 230 47 1 5261 461306389 461301149 0.000000e+00 7803.0
10 TraesCS2B01G379800 chr2D 88.889 306 11 7 5348 5652 461301099 461300816 7.240000e-94 355.0
11 TraesCS2B01G379800 chr2D 100.000 42 0 0 5830 5871 461295375 461295334 1.750000e-10 78.7


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 TraesCS2B01G379800 chr2B 543189143 543195013 5870 True 10842.0 10842 100.0000 1 5871 1 chr2B.!!$R3 5870
1 TraesCS2B01G379800 chr2B 543165088 543172316 7228 True 239.6 448 94.2550 5038 5871 5 chr2B.!!$R4 833
2 TraesCS2B01G379800 chr2A 605799122 605804817 5695 True 7915.0 7915 91.8160 1 5733 1 chr2A.!!$R1 5732
3 TraesCS2B01G379800 chr2D 461300816 461306389 5573 True 4079.0 7803 91.2225 1 5652 2 chr2D.!!$R2 5651

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
187 201 0.034960 GAGGACAGCTCCCCCTTTTC 60.035 60.0 0.17 0.0 37.25 2.29 F
819 853 0.106967 CCAGGCCTCCTCTTTAAGCC 60.107 60.0 0.00 0.0 44.20 4.35 F
822 856 0.181587 GGCCTCCTCTTTAAGCCTCC 59.818 60.0 0.00 0.0 40.57 4.30 F
2245 2297 0.108567 ACAAAACAACACGGGGCAAC 60.109 50.0 0.00 0.0 0.00 4.17 F
2895 2947 0.175073 GAAGTATCGGGTGCTTCGGT 59.825 55.0 3.32 0.0 39.28 4.69 F
4225 4290 0.105964 TTCCCCGCTCGTTATCATGG 59.894 55.0 0.00 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1435 1486 1.609501 CCCCCACACGAGAGAGGAA 60.610 63.158 0.00 0.00 0.00 3.36 R
2245 2297 0.334676 TTTCCTTGGGGCCTATGTGG 59.665 55.000 0.84 0.21 39.35 4.17 R
2764 2816 0.677731 TGGCATGTGCTCTGTTAGGC 60.678 55.000 4.84 0.00 41.70 3.93 R
3967 4031 0.040958 GCGCATCGATTTTAGGCCAG 60.041 55.000 5.01 0.00 0.00 4.85 R
4550 4615 0.462759 GCTCCGAGGCATGCTTTACT 60.463 55.000 18.92 5.68 0.00 2.24 R
5808 12347 0.234625 TGAACGAACATGCGTGCTTC 59.765 50.000 5.64 8.29 44.86 3.86 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
38 39 2.614969 TGCCAGATTCCCTGCCCT 60.615 61.111 0.00 0.00 41.57 5.19
39 40 2.123982 GCCAGATTCCCTGCCCTG 60.124 66.667 0.00 0.00 41.57 4.45
148 151 0.793617 TGTTTCTCCTCCTCTCCCCT 59.206 55.000 0.00 0.00 0.00 4.79
149 152 1.273324 TGTTTCTCCTCCTCTCCCCTC 60.273 57.143 0.00 0.00 0.00 4.30
169 172 0.884514 CGGAGAAGACTGCAGAGTGA 59.115 55.000 23.35 0.00 34.08 3.41
187 201 0.034960 GAGGACAGCTCCCCCTTTTC 60.035 60.000 0.17 0.00 37.25 2.29
199 213 2.221169 CCCCTTTTCCTTTTGCTTTGC 58.779 47.619 0.00 0.00 0.00 3.68
226 240 2.355193 GGCTCGTTCCTCTGCTCCT 61.355 63.158 0.00 0.00 0.00 3.69
236 250 3.779444 TCCTCTGCTCCTCAGTTTTCTA 58.221 45.455 0.00 0.00 43.32 2.10
237 251 4.160329 TCCTCTGCTCCTCAGTTTTCTAA 58.840 43.478 0.00 0.00 43.32 2.10
241 260 5.491982 TCTGCTCCTCAGTTTTCTAAATCC 58.508 41.667 0.00 0.00 43.32 3.01
246 265 6.309389 TCCTCAGTTTTCTAAATCCCCTAC 57.691 41.667 0.00 0.00 0.00 3.18
252 271 6.314648 CAGTTTTCTAAATCCCCTACGTTACC 59.685 42.308 0.00 0.00 0.00 2.85
257 276 2.378378 ATCCCCTACGTTACCTCTCC 57.622 55.000 0.00 0.00 0.00 3.71
275 294 3.138283 TCTCCTTCATCCACCACAGTTTT 59.862 43.478 0.00 0.00 0.00 2.43
277 296 3.636300 TCCTTCATCCACCACAGTTTTTG 59.364 43.478 0.00 0.00 0.00 2.44
279 298 4.141959 CCTTCATCCACCACAGTTTTTGTT 60.142 41.667 0.00 0.00 38.16 2.83
283 302 5.298276 TCATCCACCACAGTTTTTGTTAGAC 59.702 40.000 0.00 0.00 38.16 2.59
297 316 7.962934 TTTTGTTAGACACATTTTGAACTCG 57.037 32.000 0.00 0.00 34.43 4.18
298 317 6.912203 TTGTTAGACACATTTTGAACTCGA 57.088 33.333 0.00 0.00 34.43 4.04
322 341 5.815740 ACAGCTCGAGTTTTTAACTTCTCAA 59.184 36.000 15.13 0.00 43.03 3.02
363 382 1.740025 CAAAGCCGATCTCCTTTCCAC 59.260 52.381 4.94 0.00 0.00 4.02
364 383 0.253327 AAGCCGATCTCCTTTCCACC 59.747 55.000 0.00 0.00 0.00 4.61
565 597 1.580845 CCTGTTGGCTGCTGCTACAC 61.581 60.000 15.64 10.52 39.59 2.90
588 622 1.413118 CACTTTTCCAACTTGCCCCT 58.587 50.000 0.00 0.00 0.00 4.79
589 623 1.341209 CACTTTTCCAACTTGCCCCTC 59.659 52.381 0.00 0.00 0.00 4.30
590 624 0.969149 CTTTTCCAACTTGCCCCTCC 59.031 55.000 0.00 0.00 0.00 4.30
591 625 0.560688 TTTTCCAACTTGCCCCTCCT 59.439 50.000 0.00 0.00 0.00 3.69
592 626 0.112412 TTTCCAACTTGCCCCTCCTC 59.888 55.000 0.00 0.00 0.00 3.71
593 627 0.772124 TTCCAACTTGCCCCTCCTCT 60.772 55.000 0.00 0.00 0.00 3.69
594 628 1.201429 TCCAACTTGCCCCTCCTCTC 61.201 60.000 0.00 0.00 0.00 3.20
595 629 1.301293 CAACTTGCCCCTCCTCTCC 59.699 63.158 0.00 0.00 0.00 3.71
596 630 1.162085 AACTTGCCCCTCCTCTCCT 59.838 57.895 0.00 0.00 0.00 3.69
597 631 1.204113 AACTTGCCCCTCCTCTCCTG 61.204 60.000 0.00 0.00 0.00 3.86
598 632 1.614824 CTTGCCCCTCCTCTCCTGT 60.615 63.158 0.00 0.00 0.00 4.00
627 661 1.671850 CCAGGCACAGTCGTTTATCGT 60.672 52.381 0.00 0.00 40.80 3.73
777 811 2.507886 TCCAAGTTTTCCTGTGAGGACA 59.492 45.455 0.00 0.00 45.78 4.02
818 852 0.621082 ACCAGGCCTCCTCTTTAAGC 59.379 55.000 0.00 0.00 0.00 3.09
819 853 0.106967 CCAGGCCTCCTCTTTAAGCC 60.107 60.000 0.00 0.00 44.20 4.35
821 855 3.790691 GGCCTCCTCTTTAAGCCTC 57.209 57.895 0.00 0.00 40.57 4.70
822 856 0.181587 GGCCTCCTCTTTAAGCCTCC 59.818 60.000 0.00 0.00 40.57 4.30
823 857 0.181587 GCCTCCTCTTTAAGCCTCCC 59.818 60.000 0.00 0.00 0.00 4.30
891 930 4.821589 GCCTCCCAAGACGCTCCG 62.822 72.222 0.00 0.00 0.00 4.63
973 1017 8.956426 TCTTGTTATTTAGTTAGCTTGATTGGG 58.044 33.333 0.00 0.00 0.00 4.12
1033 1077 0.716108 GTTTCATGTCCTCTGCGTCG 59.284 55.000 0.00 0.00 0.00 5.12
1037 1081 1.148310 CATGTCCTCTGCGTCGTTTT 58.852 50.000 0.00 0.00 0.00 2.43
1061 1105 1.745232 AACTTCTTTGCCGTGACACA 58.255 45.000 6.37 0.00 0.00 3.72
1152 1199 2.029728 GGCGATGATCAACTTGTTCGAG 59.970 50.000 16.18 0.00 0.00 4.04
1180 1227 2.268920 GGATGGCCAGCACGAAGA 59.731 61.111 24.75 0.00 0.00 2.87
1261 1308 2.991190 CAATGTTGTTGATCTGCAAGGC 59.009 45.455 0.00 0.00 37.12 4.35
1266 1313 3.374220 TGTTGATCTGCAAGGCTTTTG 57.626 42.857 0.00 0.00 37.12 2.44
1325 1374 8.186163 TCATTTTACTTGAGATAAATGCTGCTG 58.814 33.333 0.00 0.00 37.70 4.41
1391 1442 5.857268 AGCATTTTGTACATTTCTGCCTTT 58.143 33.333 13.41 0.00 0.00 3.11
1511 1563 7.214467 TCCTTTCCACAATGTAGACATTTTC 57.786 36.000 5.14 0.00 43.48 2.29
1570 1622 4.214986 TGGATGTTTTTCGCTCCATAGA 57.785 40.909 0.00 0.00 32.92 1.98
1585 1637 6.634436 CGCTCCATAGATTTGAAATAGCAAAC 59.366 38.462 8.33 0.00 40.23 2.93
1587 1639 7.646922 GCTCCATAGATTTGAAATAGCAAACAG 59.353 37.037 3.87 0.00 40.23 3.16
1589 1641 9.679661 TCCATAGATTTGAAATAGCAAACAGTA 57.320 29.630 0.00 0.00 40.23 2.74
1751 1803 0.683504 TCTCCAGTTCGTAGAGGCCC 60.684 60.000 0.00 0.00 38.43 5.80
2245 2297 0.108567 ACAAAACAACACGGGGCAAC 60.109 50.000 0.00 0.00 0.00 4.17
2285 2337 7.121315 AGGAAACAGTAGAATTTAAGGATGTGC 59.879 37.037 0.00 0.00 0.00 4.57
2287 2339 6.743575 ACAGTAGAATTTAAGGATGTGCAC 57.256 37.500 10.75 10.75 0.00 4.57
2306 2358 1.862806 GCAGTCTGCGAAGAACCAC 59.137 57.895 9.53 0.00 31.71 4.16
2310 2362 2.731976 CAGTCTGCGAAGAACCACTAAC 59.268 50.000 0.00 0.00 0.00 2.34
2320 2372 5.007234 CGAAGAACCACTAACAACACATCAA 59.993 40.000 0.00 0.00 0.00 2.57
2340 2392 7.286316 ACATCAACTTCAGGATCAAACTTCTTT 59.714 33.333 0.00 0.00 0.00 2.52
2346 2398 6.054860 TCAGGATCAAACTTCTTTAGGAGG 57.945 41.667 0.00 0.00 0.00 4.30
2350 2402 5.189934 GGATCAAACTTCTTTAGGAGGGAGA 59.810 44.000 0.00 0.00 0.00 3.71
2372 2424 6.586344 AGATCTTCACAAAACAAGAGAGACA 58.414 36.000 0.00 0.00 32.16 3.41
2467 2519 2.869101 AGGAGTTTCAAGAAGCCCTC 57.131 50.000 0.00 0.00 0.00 4.30
2485 2537 3.995048 CCCTCGAGGTTCTAAGTTCAAAC 59.005 47.826 29.25 0.00 0.00 2.93
2500 2552 6.382869 AGTTCAAACAAGGATCTGTTTCTG 57.617 37.500 9.47 2.72 45.51 3.02
2582 2634 0.546122 TGCACCACCTCAGACAAAGT 59.454 50.000 0.00 0.00 0.00 2.66
2764 2816 2.619074 CCTAAAGCCAAGTCCTGGGAAG 60.619 54.545 0.00 0.00 46.54 3.46
2814 2866 3.887716 CCCAGATCATCTCCATTTGAACC 59.112 47.826 0.00 0.00 0.00 3.62
2895 2947 0.175073 GAAGTATCGGGTGCTTCGGT 59.825 55.000 3.32 0.00 39.28 4.69
2941 2993 1.542767 CGGCGGGATGAGTCTCTACTA 60.543 57.143 0.00 0.00 35.56 1.82
2944 2996 2.750712 GCGGGATGAGTCTCTACTATCC 59.249 54.545 7.98 7.98 35.56 2.59
3026 3081 3.939740 ACATTGATGATGGTGGTAGCT 57.060 42.857 0.00 0.00 40.21 3.32
3061 3116 0.887836 TAGTCAGTCCAGTGTCGCGT 60.888 55.000 5.77 0.00 0.00 6.01
3195 3250 4.753233 CGACTTTCAGAGAGATGGACAAT 58.247 43.478 0.00 0.00 0.00 2.71
3313 3368 6.206829 AGGAAACTGTTGCTGTAATAAACTCC 59.793 38.462 0.00 0.00 41.13 3.85
3385 3440 7.820578 AGCTAGTTCCGTATCTACATTAAGT 57.179 36.000 0.00 0.00 0.00 2.24
3398 3453 7.252612 TCTACATTAAGTGAGGATGAAACCA 57.747 36.000 0.00 0.00 0.00 3.67
3449 3504 2.028112 TCAAAATCTCTCCCGGTGTCAG 60.028 50.000 0.00 0.00 0.00 3.51
3488 3543 2.229792 TGGTGGTGTCTGCAAATTCTC 58.770 47.619 0.00 0.00 0.00 2.87
3535 3590 2.627699 TGCAAGGCAAGGTAAAGGAAAG 59.372 45.455 0.00 0.00 34.76 2.62
3610 3665 2.155279 GCAGAAGAGAAAACCACCCTC 58.845 52.381 0.00 0.00 0.00 4.30
3741 3796 3.004752 AGCTGACAATTCCACCATACC 57.995 47.619 0.00 0.00 0.00 2.73
3809 3864 6.373216 TCGTTTATGCCTTACTATTTGCTTGT 59.627 34.615 0.00 0.00 0.00 3.16
3810 3865 6.468956 CGTTTATGCCTTACTATTTGCTTGTG 59.531 38.462 0.00 0.00 0.00 3.33
3862 3923 8.659925 TTTGATGCAAAAGAATATTGTTGTGT 57.340 26.923 15.00 0.00 29.89 3.72
3868 3929 9.243637 TGCAAAAGAATATTGTTGTGTTTACTC 57.756 29.630 15.00 1.03 0.00 2.59
3869 3930 9.243637 GCAAAAGAATATTGTTGTGTTTACTCA 57.756 29.630 15.00 0.00 0.00 3.41
3902 3966 1.672881 GACATGTAGCAGGATGTTGGC 59.327 52.381 0.00 0.00 39.31 4.52
3916 3980 0.895100 GTTGGCTCCATGGAAGCACA 60.895 55.000 26.93 21.19 0.00 4.57
3920 3984 1.408683 GGCTCCATGGAAGCACATGTA 60.409 52.381 26.93 1.26 45.21 2.29
3924 3988 4.503817 GCTCCATGGAAGCACATGTATCTA 60.504 45.833 23.33 0.00 45.21 1.98
3935 3999 3.132824 CACATGTATCTACTGACTGCCCA 59.867 47.826 0.00 0.00 0.00 5.36
3946 4010 3.780294 ACTGACTGCCCAAGTGGATATAA 59.220 43.478 0.00 0.00 40.07 0.98
3955 4019 6.006449 GCCCAAGTGGATATAATGATGAACT 58.994 40.000 0.00 0.00 37.39 3.01
3956 4020 7.168219 GCCCAAGTGGATATAATGATGAACTA 58.832 38.462 0.00 0.00 37.39 2.24
3958 4022 9.224267 CCCAAGTGGATATAATGATGAACTAAG 57.776 37.037 0.00 0.00 37.39 2.18
3979 4043 3.378427 AGATCAAACGCTGGCCTAAAATC 59.622 43.478 3.32 0.00 0.00 2.17
3980 4044 1.466950 TCAAACGCTGGCCTAAAATCG 59.533 47.619 3.32 0.72 0.00 3.34
4012 4076 3.131400 CAGCCTAGTCCTACTTCAGTTCC 59.869 52.174 0.00 0.00 0.00 3.62
4023 4087 1.667724 CTTCAGTTCCGGATGCATCAC 59.332 52.381 27.25 16.63 0.00 3.06
4030 4094 1.554617 TCCGGATGCATCACTTGAAGA 59.445 47.619 27.25 10.05 0.00 2.87
4096 4160 5.335976 CCTGCAATGAGAGTAAGTTTTTCCC 60.336 44.000 0.00 0.00 0.00 3.97
4097 4161 5.385198 TGCAATGAGAGTAAGTTTTTCCCT 58.615 37.500 0.00 0.00 0.00 4.20
4098 4162 5.833131 TGCAATGAGAGTAAGTTTTTCCCTT 59.167 36.000 0.00 0.00 0.00 3.95
4154 4219 9.871175 TCCTGTTGGTATACATACTAAGTATGA 57.129 33.333 1.37 0.00 40.11 2.15
4225 4290 0.105964 TTCCCCGCTCGTTATCATGG 59.894 55.000 0.00 0.00 0.00 3.66
4231 4296 1.068588 CGCTCGTTATCATGGGAGGAA 59.931 52.381 0.00 0.00 0.00 3.36
4257 4322 2.742053 ACTCACATTCGCCATTACACAC 59.258 45.455 0.00 0.00 0.00 3.82
4316 4381 6.889177 TGAATCAGAATGTTATGCCCTTGTAA 59.111 34.615 0.00 0.00 37.40 2.41
4344 4409 7.658525 AGATACTATCATCTGCTGGATTAGG 57.341 40.000 0.00 0.00 33.93 2.69
4435 4500 1.673920 GACAAGTTCTTGGACCGCAAA 59.326 47.619 15.51 0.00 0.00 3.68
4453 4518 3.883669 CAAAGAGGAGGCTGCTAAATCT 58.116 45.455 9.08 0.00 0.00 2.40
4486 4551 3.315470 GGTCGAACCAAAAGCTTCTCTTT 59.685 43.478 0.00 0.00 46.42 2.52
4550 4615 4.412199 CCTTGATAAGAACCTACCCATGGA 59.588 45.833 15.22 0.00 0.00 3.41
4562 4627 1.035139 CCCATGGAGTAAAGCATGCC 58.965 55.000 15.22 0.00 0.00 4.40
4588 4653 2.125552 CGGAGCGAGGCATTGTCA 60.126 61.111 0.00 0.00 0.00 3.58
4595 4660 2.093500 AGCGAGGCATTGTCACAAGATA 60.093 45.455 0.00 0.00 0.00 1.98
4621 4686 3.391296 GGGAAGAAGTATGGAGCCATGTA 59.609 47.826 12.18 0.00 37.82 2.29
4633 4698 1.322442 GCCATGTAAGGGATTGGCTC 58.678 55.000 5.56 0.00 43.46 4.70
4680 4745 1.328680 CGAGTATGGTGATGCTGCAAC 59.671 52.381 6.36 4.29 0.00 4.17
4685 4750 0.606130 TGGTGATGCTGCAACGATGT 60.606 50.000 6.36 0.00 0.00 3.06
4748 4813 3.040147 TGAAATCAGTGAGGTCGGAAC 57.960 47.619 0.00 0.00 0.00 3.62
4808 4873 1.038130 GGAGCTAGTCGGAGAAGCCA 61.038 60.000 7.66 0.00 40.96 4.75
4859 4930 2.048444 AGATCTCGCAATGCCAATGT 57.952 45.000 0.00 0.00 0.00 2.71
4878 4949 6.294675 CCAATGTCAAATCTGTAGGAAGCAAA 60.295 38.462 0.00 0.00 0.00 3.68
4893 4964 2.042104 GCAAATGCTCTGTGTGTGAC 57.958 50.000 0.00 0.00 38.21 3.67
4922 4993 9.042450 TGTTATCATAGGAGAAGTGGTCTTAAA 57.958 33.333 0.00 0.00 36.41 1.52
5019 5090 1.068541 TCTGCATATACCTGTAGCGCG 60.069 52.381 0.00 0.00 0.00 6.86
5025 5096 2.901051 ATACCTGTAGCGCGCCACAC 62.901 60.000 28.04 22.51 0.00 3.82
5313 9403 7.989170 TGCAATATAATACTCCTAGATGCATGG 59.011 37.037 2.46 0.00 0.00 3.66
5346 9712 1.590932 CTGTTGTGCTGTCTTGAGCT 58.409 50.000 0.00 0.00 39.90 4.09
5428 9795 3.056678 TGAATCATTTTGGTGCGCAAGAT 60.057 39.130 14.00 4.39 43.02 2.40
5429 9796 4.157472 TGAATCATTTTGGTGCGCAAGATA 59.843 37.500 14.00 0.00 43.02 1.98
5499 9873 3.508840 GGCCCCGCACATTCTTCG 61.509 66.667 0.00 0.00 0.00 3.79
5512 9886 4.331168 CACATTCTTCGGGTCTGAGATTTC 59.669 45.833 0.00 0.00 0.00 2.17
5534 9908 3.521126 CCTACCCTGGATTGGATAGGATG 59.479 52.174 0.00 0.00 32.68 3.51
5557 9938 8.807948 ATGCTTTTGTTATATCAAGGTGTAGT 57.192 30.769 0.00 0.00 0.00 2.73
5603 9984 3.006247 GGGCAGATGTTTCTCTTGACTC 58.994 50.000 0.00 0.00 0.00 3.36
5631 10012 0.398381 AACCTGGTGCATGGTTTGGT 60.398 50.000 13.61 4.08 43.27 3.67
5655 12193 5.525745 TGTGTATGTGTTTGACTGTAACCAG 59.474 40.000 0.00 0.00 44.68 4.00
5689 12228 4.756502 CTTTACCTTGGTACTACTCCTGC 58.243 47.826 0.00 0.00 0.00 4.85
5723 12262 1.763545 GGACTGGTAGATCCTTGGGTC 59.236 57.143 0.00 0.00 37.07 4.46
5730 12269 3.688185 GGTAGATCCTTGGGTCGTTTTTC 59.312 47.826 0.00 0.00 0.00 2.29
5733 12272 2.668144 TCCTTGGGTCGTTTTTCCAT 57.332 45.000 0.00 0.00 0.00 3.41
5734 12273 2.235016 TCCTTGGGTCGTTTTTCCATG 58.765 47.619 0.00 0.00 0.00 3.66
5735 12274 1.336795 CCTTGGGTCGTTTTTCCATGC 60.337 52.381 0.00 0.00 0.00 4.06
5736 12275 1.339610 CTTGGGTCGTTTTTCCATGCA 59.660 47.619 0.00 0.00 0.00 3.96
5737 12276 1.403814 TGGGTCGTTTTTCCATGCAA 58.596 45.000 0.00 0.00 0.00 4.08
5738 12277 1.757118 TGGGTCGTTTTTCCATGCAAA 59.243 42.857 0.00 0.00 0.00 3.68
5739 12278 2.168521 TGGGTCGTTTTTCCATGCAAAA 59.831 40.909 0.00 0.00 0.00 2.44
5740 12279 3.198872 GGGTCGTTTTTCCATGCAAAAA 58.801 40.909 3.08 3.08 33.72 1.94
5787 12326 8.523523 TTTTTCACATATGAACTCTGCATTTG 57.476 30.769 10.38 0.00 44.66 2.32
5788 12327 5.823209 TCACATATGAACTCTGCATTTGG 57.177 39.130 10.38 0.00 31.64 3.28
5789 12328 5.255687 TCACATATGAACTCTGCATTTGGT 58.744 37.500 10.38 0.00 31.64 3.67
5790 12329 5.711506 TCACATATGAACTCTGCATTTGGTT 59.288 36.000 10.38 0.00 31.64 3.67
5791 12330 6.883756 TCACATATGAACTCTGCATTTGGTTA 59.116 34.615 10.38 0.00 31.64 2.85
5792 12331 7.557358 TCACATATGAACTCTGCATTTGGTTAT 59.443 33.333 10.38 0.00 31.64 1.89
5793 12332 7.859377 CACATATGAACTCTGCATTTGGTTATC 59.141 37.037 10.38 0.00 31.64 1.75
5805 12344 5.163713 GCATTTGGTTATCCTCTTGTGAGAC 60.164 44.000 0.00 0.00 42.73 3.36
5808 12347 6.531503 TTGGTTATCCTCTTGTGAGACTAG 57.468 41.667 0.00 0.00 42.73 2.57
5809 12348 5.827756 TGGTTATCCTCTTGTGAGACTAGA 58.172 41.667 0.00 0.00 42.73 2.43
5842 12381 1.204704 CGTTCATACTGACCCAGCTCA 59.795 52.381 0.00 0.00 34.37 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
148 151 0.251386 ACTCTGCAGTCTTCTCCGGA 60.251 55.000 14.67 2.93 0.00 5.14
149 152 0.108898 CACTCTGCAGTCTTCTCCGG 60.109 60.000 14.67 0.00 0.00 5.14
169 172 1.501654 GGAAAAGGGGGAGCTGTCCT 61.502 60.000 0.00 0.00 43.36 3.85
226 240 5.750352 ACGTAGGGGATTTAGAAAACTGA 57.250 39.130 0.00 0.00 0.00 3.41
236 250 3.036819 GGAGAGGTAACGTAGGGGATTT 58.963 50.000 0.00 0.00 46.39 2.17
237 251 2.246849 AGGAGAGGTAACGTAGGGGATT 59.753 50.000 0.00 0.00 46.39 3.01
241 260 2.731572 TGAAGGAGAGGTAACGTAGGG 58.268 52.381 0.00 0.00 46.39 3.53
246 265 2.159085 GGTGGATGAAGGAGAGGTAACG 60.159 54.545 0.00 0.00 46.39 3.18
252 271 1.905215 ACTGTGGTGGATGAAGGAGAG 59.095 52.381 0.00 0.00 0.00 3.20
257 276 4.654091 ACAAAAACTGTGGTGGATGAAG 57.346 40.909 0.00 0.00 36.69 3.02
275 294 6.314152 TGTCGAGTTCAAAATGTGTCTAACAA 59.686 34.615 0.00 0.00 43.61 2.83
277 296 6.281848 TGTCGAGTTCAAAATGTGTCTAAC 57.718 37.500 0.00 0.00 0.00 2.34
279 298 4.447724 GCTGTCGAGTTCAAAATGTGTCTA 59.552 41.667 0.00 0.00 0.00 2.59
283 302 3.803555 GAGCTGTCGAGTTCAAAATGTG 58.196 45.455 0.00 0.00 30.03 3.21
297 316 5.462398 TGAGAAGTTAAAAACTCGAGCTGTC 59.538 40.000 13.61 1.64 41.91 3.51
298 317 5.357257 TGAGAAGTTAAAAACTCGAGCTGT 58.643 37.500 13.61 0.00 41.91 4.40
322 341 2.165167 CTTGCACACTTCATGGGATGT 58.835 47.619 0.00 0.00 30.67 3.06
363 382 3.025978 AGCTCACATGAGAGAGAGAAGG 58.974 50.000 22.47 0.00 44.74 3.46
364 383 3.444742 ACAGCTCACATGAGAGAGAGAAG 59.555 47.826 22.47 7.96 44.74 2.85
565 597 1.341209 GGCAAGTTGGAAAAGTGGAGG 59.659 52.381 4.75 0.00 0.00 4.30
588 622 1.251527 GCGACAGGAACAGGAGAGGA 61.252 60.000 0.00 0.00 0.00 3.71
589 623 1.216710 GCGACAGGAACAGGAGAGG 59.783 63.158 0.00 0.00 0.00 3.69
590 624 1.216710 GGCGACAGGAACAGGAGAG 59.783 63.158 0.00 0.00 0.00 3.20
591 625 1.533033 TGGCGACAGGAACAGGAGA 60.533 57.895 0.00 0.00 35.01 3.71
592 626 3.059982 TGGCGACAGGAACAGGAG 58.940 61.111 0.00 0.00 35.01 3.69
627 661 1.833434 AAATGGCGCGTCGAACGAAA 61.833 50.000 6.09 0.70 46.05 3.46
818 852 1.497161 ACGGGACATAAAGAGGGAGG 58.503 55.000 0.00 0.00 0.00 4.30
819 853 2.628657 CCTACGGGACATAAAGAGGGAG 59.371 54.545 0.00 0.00 33.58 4.30
820 854 2.023695 ACCTACGGGACATAAAGAGGGA 60.024 50.000 0.00 0.00 36.25 4.20
821 855 2.395619 ACCTACGGGACATAAAGAGGG 58.604 52.381 0.00 0.00 36.25 4.30
822 856 3.449737 TGAACCTACGGGACATAAAGAGG 59.550 47.826 0.00 0.00 36.25 3.69
823 857 4.730949 TGAACCTACGGGACATAAAGAG 57.269 45.455 0.00 0.00 36.25 2.85
865 899 2.675317 CGTCTTGGGAGGCTCTTAAGTG 60.675 54.545 21.75 15.39 0.00 3.16
891 930 1.513586 GCAAGCAATGACGCAGAGC 60.514 57.895 0.00 0.00 0.00 4.09
899 938 1.980232 CCAGCAGGGCAAGCAATGA 60.980 57.895 3.26 0.00 0.00 2.57
900 939 2.577059 CCAGCAGGGCAAGCAATG 59.423 61.111 3.26 0.00 0.00 2.82
1033 1077 4.026886 CACGGCAAAGAAGTTAAGCAAAAC 60.027 41.667 0.00 0.00 0.00 2.43
1037 1081 2.289547 GTCACGGCAAAGAAGTTAAGCA 59.710 45.455 0.00 0.00 0.00 3.91
1152 1199 2.109181 GCCATCCCCGTACTCAGC 59.891 66.667 0.00 0.00 0.00 4.26
1261 1308 7.403421 TGAATACGCATTACCGAATACAAAAG 58.597 34.615 0.00 0.00 0.00 2.27
1266 1313 6.352526 CAACTGAATACGCATTACCGAATAC 58.647 40.000 0.00 0.00 0.00 1.89
1333 1384 7.310237 CCCACCACCAAGTAGTACCATATATAC 60.310 44.444 0.00 0.00 0.00 1.47
1339 1390 1.913419 CCCACCACCAAGTAGTACCAT 59.087 52.381 0.00 0.00 0.00 3.55
1391 1442 8.034215 CAGCAAATGTCCAAAATATTAGAACCA 58.966 33.333 0.00 0.00 0.00 3.67
1435 1486 1.609501 CCCCCACACGAGAGAGGAA 60.610 63.158 0.00 0.00 0.00 3.36
1511 1563 5.172934 CAAAACATGTCATCATCCAAAGGG 58.827 41.667 0.00 0.00 31.15 3.95
1585 1637 8.128582 TGTTGCAAAGAAATAGAAACAGTACTG 58.871 33.333 21.44 21.44 0.00 2.74
1587 1639 7.111593 CGTGTTGCAAAGAAATAGAAACAGTAC 59.888 37.037 0.00 0.00 0.00 2.73
1589 1641 5.971202 CGTGTTGCAAAGAAATAGAAACAGT 59.029 36.000 0.00 0.00 0.00 3.55
1751 1803 4.294416 ACGGTTCTCTTGATATCTGTCG 57.706 45.455 3.98 0.40 0.00 4.35
1912 1964 4.464008 AGACAGAAAAATCTCACTTGCCA 58.536 39.130 0.00 0.00 0.00 4.92
2245 2297 0.334676 TTTCCTTGGGGCCTATGTGG 59.665 55.000 0.84 0.21 39.35 4.17
2250 2302 1.913419 CTACTGTTTCCTTGGGGCCTA 59.087 52.381 0.84 0.00 0.00 3.93
2306 2358 6.427853 TGATCCTGAAGTTGATGTGTTGTTAG 59.572 38.462 0.00 0.00 0.00 2.34
2310 2362 5.694231 TTGATCCTGAAGTTGATGTGTTG 57.306 39.130 0.00 0.00 0.00 3.33
2320 2372 7.079451 TCCTAAAGAAGTTTGATCCTGAAGT 57.921 36.000 0.00 0.00 0.00 3.01
2340 2392 4.844085 TGTTTTGTGAAGATCTCCCTCCTA 59.156 41.667 0.00 0.00 0.00 2.94
2346 2398 6.147000 GTCTCTCTTGTTTTGTGAAGATCTCC 59.853 42.308 0.00 0.00 0.00 3.71
2350 2402 7.630242 TTTGTCTCTCTTGTTTTGTGAAGAT 57.370 32.000 0.00 0.00 0.00 2.40
2372 2424 7.562454 TTTGTCGAACAACTTCTATCCTTTT 57.438 32.000 0.00 0.00 37.90 2.27
2458 2510 2.104170 CTTAGAACCTCGAGGGCTTCT 58.896 52.381 34.04 31.50 40.27 2.85
2467 2519 5.054477 TCCTTGTTTGAACTTAGAACCTCG 58.946 41.667 0.00 0.00 0.00 4.63
2485 2537 5.312079 AGGAACTTCAGAAACAGATCCTTG 58.688 41.667 0.00 0.00 38.79 3.61
2582 2634 6.403866 AAATGGTTTCAAGACAGTAATGCA 57.596 33.333 0.00 0.00 0.00 3.96
2686 2738 4.465305 TCTGCTGAATGAGATCTCTTGTGA 59.535 41.667 22.95 3.16 0.00 3.58
2764 2816 0.677731 TGGCATGTGCTCTGTTAGGC 60.678 55.000 4.84 0.00 41.70 3.93
2814 2866 1.021390 AAAGGCTGTCCGCTGAATCG 61.021 55.000 0.00 0.00 39.13 3.34
2895 2947 3.432186 CCGATCTTCTGGCAGGTATTGAA 60.432 47.826 15.73 0.00 0.00 2.69
2941 2993 9.615660 TTATACCCATTTGAGTATACAGAGGAT 57.384 33.333 5.50 0.00 32.53 3.24
2944 2996 9.658799 CCATTATACCCATTTGAGTATACAGAG 57.341 37.037 5.50 0.00 32.53 3.35
2995 3047 5.829924 ACCATCATCAATGTTATCACCTTCC 59.170 40.000 0.00 0.00 33.13 3.46
3026 3081 4.008330 CTGACTACCTCCGAGTCACTTAA 58.992 47.826 1.42 0.00 46.49 1.85
3181 3236 3.378512 TGCTACCATTGTCCATCTCTCT 58.621 45.455 0.00 0.00 0.00 3.10
3195 3250 3.708121 ACTGATCTCATCACATGCTACCA 59.292 43.478 0.00 0.00 35.06 3.25
3313 3368 2.158959 CGACCGGCTACTTGAAGCG 61.159 63.158 0.00 0.00 43.74 4.68
3385 3440 2.191400 CTCTCCCTGGTTTCATCCTCA 58.809 52.381 0.00 0.00 0.00 3.86
3488 3543 1.002468 CTTCGGTGTTTCACAGCCTTG 60.002 52.381 0.66 0.00 43.18 3.61
3515 3570 2.628178 ACTTTCCTTTACCTTGCCTTGC 59.372 45.455 0.00 0.00 0.00 4.01
3535 3590 8.519799 TTGATACTTTCCCCTTGAATGATAAC 57.480 34.615 0.00 0.00 33.50 1.89
3610 3665 3.198635 TCTCACCAAAGCTATCAGAAGGG 59.801 47.826 0.00 0.00 0.00 3.95
3715 3770 2.622942 GGTGGAATTGTCAGCTTTGTCA 59.377 45.455 0.00 0.00 0.00 3.58
3809 3864 4.444733 CCATACTCATGGCCATAGACAACA 60.445 45.833 20.30 0.24 45.29 3.33
3810 3865 4.067896 CCATACTCATGGCCATAGACAAC 58.932 47.826 20.30 0.00 45.29 3.32
3862 3923 8.465999 ACATGTCAAAAAGTGATTGTGAGTAAA 58.534 29.630 0.00 0.00 38.90 2.01
3868 3929 6.207928 TGCTACATGTCAAAAAGTGATTGTG 58.792 36.000 0.00 0.00 38.90 3.33
3869 3930 6.389830 TGCTACATGTCAAAAAGTGATTGT 57.610 33.333 0.00 0.00 38.90 2.71
3870 3931 5.860182 CCTGCTACATGTCAAAAAGTGATTG 59.140 40.000 0.00 0.00 38.90 2.67
3871 3932 5.769662 TCCTGCTACATGTCAAAAAGTGATT 59.230 36.000 0.00 0.00 38.90 2.57
3872 3933 5.316167 TCCTGCTACATGTCAAAAAGTGAT 58.684 37.500 0.00 0.00 38.90 3.06
3873 3934 4.713553 TCCTGCTACATGTCAAAAAGTGA 58.286 39.130 0.00 0.00 0.00 3.41
3874 3935 5.048504 ACATCCTGCTACATGTCAAAAAGTG 60.049 40.000 0.00 0.00 0.00 3.16
3879 3940 3.758023 CCAACATCCTGCTACATGTCAAA 59.242 43.478 0.00 0.00 31.79 2.69
3902 3966 4.082665 AGATACATGTGCTTCCATGGAG 57.917 45.455 15.53 10.43 45.21 3.86
3916 3980 4.033709 ACTTGGGCAGTCAGTAGATACAT 58.966 43.478 0.00 0.00 0.00 2.29
3920 3984 1.556911 CCACTTGGGCAGTCAGTAGAT 59.443 52.381 0.00 0.00 30.92 1.98
3924 3988 1.656587 TATCCACTTGGGCAGTCAGT 58.343 50.000 0.00 0.00 36.21 3.41
3946 4010 5.295292 CCAGCGTTTGATCTTAGTTCATCAT 59.705 40.000 0.00 0.00 0.00 2.45
3955 4019 3.620427 TTAGGCCAGCGTTTGATCTTA 57.380 42.857 5.01 0.00 0.00 2.10
3956 4020 2.489938 TTAGGCCAGCGTTTGATCTT 57.510 45.000 5.01 0.00 0.00 2.40
3958 4022 3.695816 GATTTTAGGCCAGCGTTTGATC 58.304 45.455 5.01 0.00 0.00 2.92
3967 4031 0.040958 GCGCATCGATTTTAGGCCAG 60.041 55.000 5.01 0.00 0.00 4.85
3979 4043 2.050077 TAGGCTGATCGCGCATCG 60.050 61.111 8.75 7.57 40.44 3.84
3980 4044 1.006314 GACTAGGCTGATCGCGCATC 61.006 60.000 8.75 10.45 40.44 3.91
4012 4076 3.186001 GCTATCTTCAAGTGATGCATCCG 59.814 47.826 23.67 9.83 0.00 4.18
4023 4087 7.335422 AGGTTCATTAGTGTTGCTATCTTCAAG 59.665 37.037 0.00 0.00 0.00 3.02
4030 4094 7.112122 TGATTCAGGTTCATTAGTGTTGCTAT 58.888 34.615 0.00 0.00 0.00 2.97
4104 4168 3.997021 ACGACAGGCTCAACAATTAGAAG 59.003 43.478 0.00 0.00 0.00 2.85
4153 4218 8.604890 GCAACTCCTGTAATGTAATAAGAACTC 58.395 37.037 0.00 0.00 0.00 3.01
4154 4219 7.553044 GGCAACTCCTGTAATGTAATAAGAACT 59.447 37.037 0.00 0.00 0.00 3.01
4166 4231 8.605601 CGAGATCGTAAGGCAACTCCTGTAAT 62.606 46.154 0.00 0.00 39.84 1.89
4225 4290 3.309954 GCGAATGTGAGTATGTTTCCTCC 59.690 47.826 0.00 0.00 0.00 4.30
4231 4296 5.064707 GTGTAATGGCGAATGTGAGTATGTT 59.935 40.000 0.00 0.00 0.00 2.71
4257 4322 4.888038 TTTGAGGAATTCAGATGATGCG 57.112 40.909 7.93 0.00 37.07 4.73
4316 4381 7.795534 ATCCAGCAGATGATAGTATCTTCTT 57.204 36.000 20.54 9.19 40.55 2.52
4344 4409 3.939066 ACCATACTCACTTGTAGGTTGC 58.061 45.455 0.00 0.00 0.00 4.17
4435 4500 3.238597 CCTAGATTTAGCAGCCTCCTCT 58.761 50.000 0.00 0.00 0.00 3.69
4453 4518 0.749454 GGTTCGACCTACGCTCCCTA 60.749 60.000 0.00 0.00 42.26 3.53
4486 4551 4.282957 ACCAATGCCATGTTTACACAATCA 59.717 37.500 0.00 0.00 36.16 2.57
4532 4597 6.409349 GCTTTACTCCATGGGTAGGTTCTTAT 60.409 42.308 13.02 0.00 0.00 1.73
4550 4615 0.462759 GCTCCGAGGCATGCTTTACT 60.463 55.000 18.92 5.68 0.00 2.24
4562 4627 4.544689 CTCGCTCCGTGCTCCGAG 62.545 72.222 0.00 0.00 40.76 4.63
4588 4653 7.313731 TCCATACTTCTTCCCCTATATCTTGT 58.686 38.462 0.00 0.00 0.00 3.16
4595 4660 3.252351 GGCTCCATACTTCTTCCCCTAT 58.748 50.000 0.00 0.00 0.00 2.57
4621 4686 1.345715 CCCCGTAGAGCCAATCCCTT 61.346 60.000 0.00 0.00 0.00 3.95
4653 4718 2.483013 GCATCACCATACTCGTTAGCCA 60.483 50.000 0.00 0.00 0.00 4.75
4657 4722 2.167487 TGCAGCATCACCATACTCGTTA 59.833 45.455 0.00 0.00 0.00 3.18
4680 4745 2.159430 TGCACGATTCTTTCCAACATCG 59.841 45.455 0.00 0.00 43.36 3.84
4685 4750 1.974265 TGGTGCACGATTCTTTCCAA 58.026 45.000 11.45 0.00 0.00 3.53
4737 4802 1.304630 TCATCCGGTTCCGACCTCA 60.305 57.895 13.08 0.00 44.20 3.86
4748 4813 2.159240 TCTGTTTCGTCATCTCATCCGG 60.159 50.000 0.00 0.00 0.00 5.14
4808 4873 1.003580 ACAAACTGTGAGATCCGCCAT 59.996 47.619 0.00 0.00 0.00 4.40
4859 4930 5.314923 GCATTTGCTTCCTACAGATTTGA 57.685 39.130 0.00 0.00 38.21 2.69
4878 4949 0.947660 CAGCGTCACACACAGAGCAT 60.948 55.000 0.00 0.00 0.00 3.79
4893 4964 4.202161 ACCACTTCTCCTATGATAACAGCG 60.202 45.833 0.00 0.00 0.00 5.18
4922 4993 6.491403 AGGTTTCTCTCAGCACAACAAATAAT 59.509 34.615 0.00 0.00 0.00 1.28
4923 4994 5.827797 AGGTTTCTCTCAGCACAACAAATAA 59.172 36.000 0.00 0.00 0.00 1.40
4924 4995 5.376625 AGGTTTCTCTCAGCACAACAAATA 58.623 37.500 0.00 0.00 0.00 1.40
5019 5090 2.699954 AGCTGTAGTACAATGTGTGGC 58.300 47.619 4.21 2.56 0.00 5.01
5025 5096 7.609760 TGACCAAAATAGCTGTAGTACAATG 57.390 36.000 4.21 0.00 0.00 2.82
5077 5148 0.250513 CTAGTTGCCCCACAGGACTC 59.749 60.000 0.00 0.00 38.24 3.36
5263 9353 7.581464 GCAATCCCTGACCTGCTAATATATACA 60.581 40.741 0.00 0.00 0.00 2.29
5313 9403 1.202770 ACAACAGGGTGCTAACTGACC 60.203 52.381 8.68 0.00 38.09 4.02
5335 9701 5.913514 CAGATTGACAAAAAGCTCAAGACAG 59.086 40.000 0.00 0.00 30.04 3.51
5346 9712 6.645827 TCGTAATCCGTACAGATTGACAAAAA 59.354 34.615 13.53 0.00 37.09 1.94
5374 9740 4.898861 TGGGTTGCTCCATTAATTAATCCC 59.101 41.667 16.60 16.60 38.11 3.85
5428 9795 1.078497 CTTGGCCCGTGCTGTCATA 60.078 57.895 0.00 0.00 37.74 2.15
5429 9796 2.360350 CTTGGCCCGTGCTGTCAT 60.360 61.111 0.00 0.00 37.74 3.06
5499 9873 2.436173 CAGGGTAGGAAATCTCAGACCC 59.564 54.545 0.00 0.00 43.68 4.46
5534 9908 9.379791 ACTACTACACCTTGATATAACAAAAGC 57.620 33.333 0.00 0.00 0.00 3.51
5557 9938 4.976987 GCGCTTTGCCTAAACAAATACTA 58.023 39.130 0.00 0.00 38.76 1.82
5603 9984 3.525537 CATGCACCAGGTTAGACTACAG 58.474 50.000 0.00 0.00 0.00 2.74
5631 10012 5.429130 TGGTTACAGTCAAACACATACACA 58.571 37.500 0.00 0.00 0.00 3.72
5672 12210 4.406003 ACATTAGCAGGAGTAGTACCAAGG 59.594 45.833 0.00 0.00 0.00 3.61
5689 12228 6.936279 TCTACCAGTCCTCTGAAAACATTAG 58.064 40.000 0.00 0.00 43.76 1.73
5772 12311 5.513233 AGGATAACCAAATGCAGAGTTCAT 58.487 37.500 0.00 0.00 38.94 2.57
5775 12314 5.184892 AGAGGATAACCAAATGCAGAGTT 57.815 39.130 0.00 0.00 38.94 3.01
5776 12315 4.851639 AGAGGATAACCAAATGCAGAGT 57.148 40.909 0.00 0.00 38.94 3.24
5777 12316 4.946157 ACAAGAGGATAACCAAATGCAGAG 59.054 41.667 0.00 0.00 38.94 3.35
5778 12317 4.701651 CACAAGAGGATAACCAAATGCAGA 59.298 41.667 0.00 0.00 38.94 4.26
5779 12318 4.701651 TCACAAGAGGATAACCAAATGCAG 59.298 41.667 0.00 0.00 38.94 4.41
5780 12319 4.661222 TCACAAGAGGATAACCAAATGCA 58.339 39.130 0.00 0.00 38.94 3.96
5781 12320 4.943705 TCTCACAAGAGGATAACCAAATGC 59.056 41.667 0.00 0.00 42.34 3.56
5782 12321 6.176183 AGTCTCACAAGAGGATAACCAAATG 58.824 40.000 0.00 0.00 42.34 2.32
5783 12322 6.380079 AGTCTCACAAGAGGATAACCAAAT 57.620 37.500 0.00 0.00 42.34 2.32
5784 12323 5.825593 AGTCTCACAAGAGGATAACCAAA 57.174 39.130 0.00 0.00 42.34 3.28
5785 12324 6.253758 TCTAGTCTCACAAGAGGATAACCAA 58.746 40.000 0.00 0.00 42.34 3.67
5786 12325 5.827756 TCTAGTCTCACAAGAGGATAACCA 58.172 41.667 0.00 0.00 42.34 3.67
5787 12326 6.681865 GCTTCTAGTCTCACAAGAGGATAACC 60.682 46.154 0.00 0.00 42.34 2.85
5788 12327 6.127591 TGCTTCTAGTCTCACAAGAGGATAAC 60.128 42.308 0.00 0.00 42.34 1.89
5789 12328 5.952347 TGCTTCTAGTCTCACAAGAGGATAA 59.048 40.000 0.00 0.00 42.34 1.75
5790 12329 5.358442 GTGCTTCTAGTCTCACAAGAGGATA 59.642 44.000 0.00 0.00 42.34 2.59
5791 12330 4.159506 GTGCTTCTAGTCTCACAAGAGGAT 59.840 45.833 0.00 0.00 42.34 3.24
5792 12331 3.508012 GTGCTTCTAGTCTCACAAGAGGA 59.492 47.826 0.00 0.00 42.34 3.71
5793 12332 3.671971 CGTGCTTCTAGTCTCACAAGAGG 60.672 52.174 10.07 0.00 42.34 3.69
5805 12344 1.350193 ACGAACATGCGTGCTTCTAG 58.650 50.000 5.64 1.23 43.79 2.43
5808 12347 0.234625 TGAACGAACATGCGTGCTTC 59.765 50.000 5.64 8.29 44.86 3.86
5809 12348 0.874390 ATGAACGAACATGCGTGCTT 59.126 45.000 5.64 0.00 44.86 3.91
5842 12381 1.967066 TGGATTTGATTTTGGTGGCGT 59.033 42.857 0.00 0.00 0.00 5.68


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

AutoCloner maintained by Alex Coulton.