Multiple sequence alignment - TraesCS2B01G306400

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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 TraesCS2B01G306400 chr2B 100.000 5620 0 0 1 5620 437012241 437006622 0.000000e+00 10379
1 TraesCS2B01G306400 chr2B 97.222 72 2 0 1325 1396 245731126 245731197 7.650000e-24 122
2 TraesCS2B01G306400 chr2A 94.201 4518 158 47 549 5013 498109146 498104680 0.000000e+00 6796
3 TraesCS2B01G306400 chr2A 81.505 638 40 26 5020 5620 498104573 498103977 2.390000e-123 453
4 TraesCS2B01G306400 chr2A 94.175 206 12 0 3 208 498110655 498110450 1.180000e-81 315
5 TraesCS2B01G306400 chr2D 95.444 1734 56 11 1400 3125 368012782 368011064 0.000000e+00 2743
6 TraesCS2B01G306400 chr2D 93.057 1858 84 25 3173 5013 368011068 368009239 0.000000e+00 2675
7 TraesCS2B01G306400 chr2D 93.942 1337 57 12 3 1326 368014112 368012787 0.000000e+00 1999
8 TraesCS2B01G306400 chr2D 81.861 634 31 33 5020 5620 368008750 368008168 1.850000e-124 457
9 TraesCS2B01G306400 chr5D 98.611 72 1 0 1325 1396 536531045 536530974 1.640000e-25 128
10 TraesCS2B01G306400 chr5D 97.260 73 2 0 1325 1397 162424874 162424946 2.130000e-24 124
11 TraesCS2B01G306400 chr5D 96.000 75 3 0 1325 1399 2748888 2748814 7.650000e-24 122
12 TraesCS2B01G306400 chr7D 97.260 73 2 0 1325 1397 17861672 17861744 2.130000e-24 124
13 TraesCS2B01G306400 chr1B 97.260 73 2 0 1325 1397 569426967 569426895 2.130000e-24 124
14 TraesCS2B01G306400 chr6B 94.805 77 4 0 1325 1401 66977690 66977614 2.750000e-23 121
15 TraesCS2B01G306400 chr5B 92.683 82 6 0 1325 1406 137656287 137656368 9.890000e-23 119


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 TraesCS2B01G306400 chr2B 437006622 437012241 5619 True 10379.000000 10379 100.000000 1 5620 1 chr2B.!!$R1 5619
1 TraesCS2B01G306400 chr2A 498103977 498110655 6678 True 2521.333333 6796 89.960333 3 5620 3 chr2A.!!$R1 5617
2 TraesCS2B01G306400 chr2D 368008168 368014112 5944 True 1968.500000 2743 91.076000 3 5620 4 chr2D.!!$R1 5617

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
819 1850 0.110056 CTCGTTTGCAGCATGGTCAC 60.110 55.000 0.00 0.0 35.86 3.67 F
1643 2692 0.165944 CATCGGCGTGGAAACTCAAC 59.834 55.000 6.85 0.0 0.00 3.18 F
2204 3254 1.765904 TCTGCCACAGAACCTGTACAA 59.234 47.619 0.00 0.0 43.43 2.41 F
3225 4283 1.830477 GTCTGCCCATCTCTCTGAACT 59.170 52.381 0.00 0.0 0.00 3.01 F
4550 5614 0.826715 TGAAGATTGGAGAGGGCTCG 59.173 55.000 0.00 0.0 42.25 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2165 3215 0.460284 ATAGCCTGTGGAGAAACGCG 60.460 55.000 3.53 3.53 0.00 6.01 R
3462 4520 0.401356 TGCTCCTGCAGAACCATGAA 59.599 50.000 17.39 0.00 45.31 2.57 R
3833 4891 4.811969 TCTAACGAAAACCAGGCTATGA 57.188 40.909 0.00 0.00 0.00 2.15 R
4604 5668 0.110295 ATGCCTACTTGTGCCACACA 59.890 50.000 0.00 0.00 43.02 3.72 R
5543 7134 0.761802 GAGATGGAAGTAGCCCAGGG 59.238 60.000 0.00 0.00 37.08 4.45 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
115 116 3.096092 TGCCACATGGGTCCTAAATTTC 58.904 45.455 0.00 0.00 39.65 2.17
117 118 3.707316 CCACATGGGTCCTAAATTTCCA 58.293 45.455 0.00 0.00 0.00 3.53
159 160 3.172339 CACCAAAATCCCCCTCAATTCA 58.828 45.455 0.00 0.00 0.00 2.57
404 1416 7.654520 GGGGGTAAAAGTACTGATTTTGTTTTC 59.345 37.037 0.00 0.00 32.38 2.29
459 1471 3.407967 TCGCCATTGGGGAGGGAC 61.408 66.667 17.81 0.00 39.75 4.46
460 1472 4.856801 CGCCATTGGGGAGGGACG 62.857 72.222 14.33 0.00 40.01 4.79
461 1473 4.506255 GCCATTGGGGAGGGACGG 62.506 72.222 4.53 0.00 40.01 4.79
462 1474 4.506255 CCATTGGGGAGGGACGGC 62.506 72.222 0.00 0.00 40.01 5.68
529 1549 2.960688 GCCTCCAGGGTCCACTCAC 61.961 68.421 0.00 0.00 37.43 3.51
534 1554 1.142870 TCCAGGGTCCACTCACAAAAG 59.857 52.381 0.00 0.00 0.00 2.27
535 1555 1.142870 CCAGGGTCCACTCACAAAAGA 59.857 52.381 0.00 0.00 0.00 2.52
540 1560 4.402474 AGGGTCCACTCACAAAAGAAAAAG 59.598 41.667 0.00 0.00 0.00 2.27
541 1561 4.401202 GGGTCCACTCACAAAAGAAAAAGA 59.599 41.667 0.00 0.00 0.00 2.52
667 1688 0.541764 GCCGAGGAGAGGAGATCCAT 60.542 60.000 0.92 0.00 39.47 3.41
725 1746 4.324254 CCCTAACCTGCTTGGATTGTTCTA 60.324 45.833 3.40 0.00 39.71 2.10
798 1829 3.124921 CCATTCCTTTCGCCGCGT 61.125 61.111 13.39 0.00 0.00 6.01
819 1850 0.110056 CTCGTTTGCAGCATGGTCAC 60.110 55.000 0.00 0.00 35.86 3.67
848 1879 6.404293 GGAGTTCTAACTGCAGTTGTTTTTCA 60.404 38.462 36.50 17.49 45.43 2.69
857 1888 7.962917 ACTGCAGTTGTTTTTCAAGTAATTTG 58.037 30.769 15.25 0.00 37.58 2.32
876 1907 3.524346 GGGGGTTCAACAGGTTCAA 57.476 52.632 0.00 0.00 0.00 2.69
877 1908 1.037493 GGGGGTTCAACAGGTTCAAC 58.963 55.000 0.00 0.00 0.00 3.18
878 1909 1.686741 GGGGGTTCAACAGGTTCAACA 60.687 52.381 1.50 0.00 0.00 3.33
879 1910 1.681264 GGGGTTCAACAGGTTCAACAG 59.319 52.381 1.50 0.00 0.00 3.16
881 1912 3.020984 GGGTTCAACAGGTTCAACAGAA 58.979 45.455 1.50 0.00 0.00 3.02
947 1978 3.244345 ACGTTTATGATATTGTGACGGCG 59.756 43.478 4.80 4.80 33.74 6.46
973 2004 2.224305 ACAGTCCTTCGCTGCTTACTTT 60.224 45.455 0.00 0.00 37.47 2.66
1019 2050 0.915872 ATGGGCCAGATGGTGAGTGA 60.916 55.000 13.78 0.00 37.57 3.41
1180 2211 7.534282 TGGTAATCACGACGTAAACTTACATA 58.466 34.615 0.00 0.00 33.28 2.29
1282 2320 2.364324 CGGGATCATTAAGAACGGGAGA 59.636 50.000 0.00 0.00 0.00 3.71
1305 2343 6.011122 AGAAATCCTATTGCAGGTGAGAAT 57.989 37.500 0.00 0.00 45.71 2.40
1306 2344 7.071698 AGAGAAATCCTATTGCAGGTGAGAATA 59.928 37.037 0.00 0.00 45.71 1.75
1323 2361 9.360093 GGTGAGAATATATGTCTAAGCATGTAC 57.640 37.037 0.00 0.00 0.00 2.90
1364 2412 3.165875 TCTCTCCATCAGTTCGGACTTT 58.834 45.455 0.00 0.00 32.54 2.66
1505 2553 1.812235 TATGTGCTCACTTGCTGTGG 58.188 50.000 9.78 3.63 46.20 4.17
1512 2560 0.465460 TCACTTGCTGTGGAACCACC 60.465 55.000 19.39 7.29 46.20 4.61
1552 2600 8.007405 TCTGTAATCTGCTAGCACATACTTTA 57.993 34.615 14.93 3.12 0.00 1.85
1643 2692 0.165944 CATCGGCGTGGAAACTCAAC 59.834 55.000 6.85 0.00 0.00 3.18
1952 3002 6.767524 ACGAGTTCTCTCACATATCTCTTT 57.232 37.500 0.00 0.00 40.44 2.52
1979 3029 6.403866 TCAATTGTGTGTCAGGCTTTTAAT 57.596 33.333 5.13 0.00 0.00 1.40
2118 3168 5.590530 AGGTAAGCTAGTCATGAGTTCAG 57.409 43.478 8.68 2.03 0.00 3.02
2136 3186 7.489435 TGAGTTCAGCATTACTCTTTCTTATCG 59.511 37.037 11.68 0.00 41.05 2.92
2204 3254 1.765904 TCTGCCACAGAACCTGTACAA 59.234 47.619 0.00 0.00 43.43 2.41
2243 3293 5.072741 TGGTTCTCTTCAGCAGCTAAATTT 58.927 37.500 0.00 0.00 0.00 1.82
2564 3614 9.423061 GTTTGTGCAAGATATTCCTATTTTGTT 57.577 29.630 0.00 0.00 33.86 2.83
2588 3638 8.345565 GTTCAGCCTTTTACTTATCACCATATG 58.654 37.037 0.00 0.00 0.00 1.78
2638 3688 3.782889 ACTCAACTTTGGTGCAACTTC 57.217 42.857 2.04 0.00 36.74 3.01
2859 3909 7.315142 ACAAATTGACTACTGTTGCCATATTG 58.685 34.615 0.00 0.00 0.00 1.90
2874 3932 6.506147 TGCCATATTGTTAATGTGCTGATTC 58.494 36.000 0.00 0.00 0.00 2.52
2943 4001 5.595952 AGAATACATTGAGGAATCAAAGCCC 59.404 40.000 0.00 0.00 32.94 5.19
3225 4283 1.830477 GTCTGCCCATCTCTCTGAACT 59.170 52.381 0.00 0.00 0.00 3.01
3238 4296 4.060900 TCTCTGAACTGTTCTTGACATGC 58.939 43.478 20.18 0.00 37.69 4.06
3241 4299 4.823442 TCTGAACTGTTCTTGACATGCAAT 59.177 37.500 20.18 0.00 37.69 3.56
3274 4332 2.504367 ACTACGAATGCAAGGCAGTTT 58.496 42.857 0.00 0.00 43.65 2.66
3341 4399 7.847487 TGAAACCAAATAAAGATATACGAGCG 58.153 34.615 0.00 0.00 0.00 5.03
3457 4515 5.254115 ACAAAGGGTATTCTTCAGGTTAGC 58.746 41.667 0.00 0.00 0.00 3.09
3462 4520 5.044846 AGGGTATTCTTCAGGTTAGCAATGT 60.045 40.000 0.00 0.00 0.00 2.71
3473 4531 4.460382 AGGTTAGCAATGTTCATGGTTCTG 59.540 41.667 0.00 0.00 0.00 3.02
3621 4679 2.673368 GTGGCCTTCAAGATCAGTTACG 59.327 50.000 3.32 0.00 0.00 3.18
3833 4891 6.570378 GCCATCAGTTGTTTGCACTACTTATT 60.570 38.462 0.00 0.00 36.93 1.40
3883 4942 5.809719 TTGCATGTTCTACGCAATCAATA 57.190 34.783 0.00 0.00 40.54 1.90
3935 4994 5.527214 CCTGACGCCAGTTAAATAATGATCA 59.473 40.000 0.00 0.00 38.74 2.92
3982 5041 9.552114 GTCACATTAAGAATTTCAAGACAGATG 57.448 33.333 0.00 0.00 0.00 2.90
4087 5151 3.744660 AGTCTGTTTCAAGATGTGACCC 58.255 45.455 0.00 0.00 35.39 4.46
4209 5273 8.568794 TCTTCGGAGATATAACTGTTAGTCATG 58.431 37.037 6.40 0.00 35.04 3.07
4306 5370 7.095607 ACAGTGTTCTACGATCATTTCTTTGAC 60.096 37.037 0.00 0.00 0.00 3.18
4384 5448 9.833917 CAATCTATTCTAGCATACATCCATGAT 57.166 33.333 0.00 0.00 0.00 2.45
4411 5475 7.396055 AGCTGTTTGCCCTAAACTTTGAATATA 59.604 33.333 0.00 0.00 46.96 0.86
4412 5476 8.197439 GCTGTTTGCCCTAAACTTTGAATATAT 58.803 33.333 0.00 0.00 46.96 0.86
4505 5569 2.680339 GGCAAGCTCAAATCTGTACTCC 59.320 50.000 0.00 0.00 0.00 3.85
4538 5602 6.539826 TCGATGATAAGTTGTGCATGAAGATT 59.460 34.615 0.00 0.00 0.00 2.40
4548 5612 1.133853 GCATGAAGATTGGAGAGGGCT 60.134 52.381 0.00 0.00 0.00 5.19
4550 5614 0.826715 TGAAGATTGGAGAGGGCTCG 59.173 55.000 0.00 0.00 42.25 5.03
4604 5668 2.224475 GGCATGTGGAGACAGATATGCT 60.224 50.000 0.00 0.00 43.50 3.79
4630 5707 1.739035 GCACAAGTAGGCATCAGCGTA 60.739 52.381 0.00 0.00 43.41 4.42
4638 5715 3.045601 AGGCATCAGCGTACCATATTC 57.954 47.619 0.00 0.00 43.41 1.75
4652 5729 5.643421 ACCATATTCCTGCTGAAGAGAAT 57.357 39.130 0.00 5.18 36.14 2.40
4653 5730 6.753913 ACCATATTCCTGCTGAAGAGAATA 57.246 37.500 8.24 8.24 36.14 1.75
4654 5731 6.529220 ACCATATTCCTGCTGAAGAGAATAC 58.471 40.000 8.06 0.00 36.14 1.89
4675 5754 4.579869 ACATTAGCCTGGTAACTGAAGTG 58.420 43.478 0.00 0.00 37.83 3.16
4690 5769 3.566261 GTGCACCACACCAGATCG 58.434 61.111 5.22 0.00 44.02 3.69
4708 5787 1.144057 GCCGCAGCATACCTACACT 59.856 57.895 0.00 0.00 39.53 3.55
4713 5792 3.318017 CGCAGCATACCTACACTTATCC 58.682 50.000 0.00 0.00 0.00 2.59
4717 5796 5.765182 GCAGCATACCTACACTTATCCATTT 59.235 40.000 0.00 0.00 0.00 2.32
4718 5797 6.934645 GCAGCATACCTACACTTATCCATTTA 59.065 38.462 0.00 0.00 0.00 1.40
4719 5798 7.095187 GCAGCATACCTACACTTATCCATTTAC 60.095 40.741 0.00 0.00 0.00 2.01
4744 5823 9.330063 ACGAATAATGATATTTCTGCTGAAGAA 57.670 29.630 6.13 0.00 43.37 2.52
4756 5835 7.559590 TTCTGCTGAAGAAAAGATATTAGCC 57.440 36.000 1.33 0.00 42.09 3.93
4757 5836 6.893583 TCTGCTGAAGAAAAGATATTAGCCT 58.106 36.000 0.00 0.00 29.54 4.58
4758 5837 6.765036 TCTGCTGAAGAAAAGATATTAGCCTG 59.235 38.462 0.00 0.00 29.54 4.85
4759 5838 5.824624 TGCTGAAGAAAAGATATTAGCCTGG 59.175 40.000 0.00 0.00 0.00 4.45
4773 5852 2.069776 CCTGGTTCCTGAAGAGGCA 58.930 57.895 0.00 0.00 39.57 4.75
4792 5871 1.521457 CTAATGCCGCGCTTCTCCA 60.521 57.895 5.56 0.00 0.00 3.86
4825 5904 1.766496 TCGAGTTCTGGGACAAACCTT 59.234 47.619 0.00 0.00 38.70 3.50
4830 5909 0.688487 TCTGGGACAAACCTTACGGG 59.312 55.000 0.00 0.00 38.70 5.28
4860 5939 4.873827 AGTTTGTTCGAGTGCTAAACTTCA 59.126 37.500 0.00 0.00 40.07 3.02
4864 5943 5.806286 TGTTCGAGTGCTAAACTTCAAAAG 58.194 37.500 0.00 0.00 40.07 2.27
4867 5946 7.064847 TGTTCGAGTGCTAAACTTCAAAAGTAA 59.935 33.333 0.00 0.00 41.91 2.24
4893 5972 7.775397 ATAAAATTTTATGAGTGCACCATGC 57.225 32.000 20.14 9.55 36.61 4.06
4915 5994 3.382546 CCACTGCATTTATTTGGCTAGCT 59.617 43.478 15.72 0.00 0.00 3.32
4987 6066 7.283633 CAGAATGTACATGTATAATGTGACGC 58.716 38.462 9.63 0.00 33.76 5.19
4988 6067 6.983890 AGAATGTACATGTATAATGTGACGCA 59.016 34.615 9.63 0.00 33.76 5.24
4989 6068 7.494298 AGAATGTACATGTATAATGTGACGCAA 59.506 33.333 9.63 0.00 33.76 4.85
4990 6069 6.582437 TGTACATGTATAATGTGACGCAAG 57.418 37.500 9.18 0.00 37.07 4.01
5013 6092 6.492007 GCACACAGCTGCTTGATTATATAT 57.508 37.500 15.27 0.00 41.15 0.86
5014 6093 7.601073 GCACACAGCTGCTTGATTATATATA 57.399 36.000 15.27 0.00 41.15 0.86
5015 6094 8.206325 GCACACAGCTGCTTGATTATATATAT 57.794 34.615 15.27 0.00 41.15 0.86
5016 6095 8.671921 GCACACAGCTGCTTGATTATATATATT 58.328 33.333 15.27 0.00 41.15 1.28
5017 6096 9.983804 CACACAGCTGCTTGATTATATATATTG 57.016 33.333 15.27 0.23 0.00 1.90
5018 6097 9.948964 ACACAGCTGCTTGATTATATATATTGA 57.051 29.630 15.27 0.00 0.00 2.57
5042 6604 6.983474 AAAAGGGTTTCATGTTTCAGTTTG 57.017 33.333 0.00 0.00 0.00 2.93
5061 6623 2.198406 TGCTCGGTGTTATGTATTCGC 58.802 47.619 0.00 0.00 0.00 4.70
5062 6624 2.198406 GCTCGGTGTTATGTATTCGCA 58.802 47.619 0.00 0.00 0.00 5.10
5103 6665 4.058124 GTTGAGGCAATTTTCAAAGGTCC 58.942 43.478 0.00 0.00 35.29 4.46
5126 6688 3.471354 CTCTCACAGCATCATGGCA 57.529 52.632 0.00 0.00 35.83 4.92
5128 6690 0.906775 TCTCACAGCATCATGGCAGA 59.093 50.000 0.00 0.00 35.83 4.26
5142 6711 2.747396 GGCAGATTGGCAATGTTGAA 57.253 45.000 19.07 0.00 43.14 2.69
5148 6717 5.870978 GCAGATTGGCAATGTTGAATTAACT 59.129 36.000 19.07 1.03 40.05 2.24
5152 6721 7.599998 AGATTGGCAATGTTGAATTAACTTGTC 59.400 33.333 19.07 0.00 40.05 3.18
5201 6778 4.020617 CCCAGCCAAGGAGTCGCA 62.021 66.667 0.00 0.00 0.00 5.10
5202 6779 2.743928 CCAGCCAAGGAGTCGCAC 60.744 66.667 0.00 0.00 0.00 5.34
5240 6817 7.182206 ACACAACTCCCTTAGTTCCTGTATATT 59.818 37.037 0.00 0.00 45.64 1.28
5245 6822 8.925338 ACTCCCTTAGTTCCTGTATATTTACTG 58.075 37.037 0.00 0.00 33.35 2.74
5246 6823 7.732996 TCCCTTAGTTCCTGTATATTTACTGC 58.267 38.462 0.00 0.00 0.00 4.40
5247 6824 7.567622 TCCCTTAGTTCCTGTATATTTACTGCT 59.432 37.037 0.00 0.00 0.00 4.24
5268 6846 9.593134 ACTGCTAGTTCTTAATCTTCATTACAG 57.407 33.333 0.00 0.00 0.00 2.74
5292 6870 2.326428 AGTCCGTTTTCCCTCTCTTCA 58.674 47.619 0.00 0.00 0.00 3.02
5297 6875 3.254892 CGTTTTCCCTCTCTTCACTAGC 58.745 50.000 0.00 0.00 0.00 3.42
5298 6876 3.306088 CGTTTTCCCTCTCTTCACTAGCA 60.306 47.826 0.00 0.00 0.00 3.49
5299 6877 4.621747 CGTTTTCCCTCTCTTCACTAGCAT 60.622 45.833 0.00 0.00 0.00 3.79
5301 6879 4.478206 TTCCCTCTCTTCACTAGCATTG 57.522 45.455 0.00 0.00 0.00 2.82
5303 6881 2.768527 CCCTCTCTTCACTAGCATTGGA 59.231 50.000 0.00 0.00 0.00 3.53
5304 6882 3.390639 CCCTCTCTTCACTAGCATTGGAT 59.609 47.826 0.00 0.00 0.00 3.41
5305 6883 4.502950 CCCTCTCTTCACTAGCATTGGATC 60.503 50.000 0.00 0.00 0.00 3.36
5306 6884 4.344679 CCTCTCTTCACTAGCATTGGATCT 59.655 45.833 0.00 0.00 0.00 2.75
5307 6885 5.163322 CCTCTCTTCACTAGCATTGGATCTT 60.163 44.000 0.00 0.00 0.00 2.40
5309 6887 6.810911 TCTCTTCACTAGCATTGGATCTTAC 58.189 40.000 0.00 0.00 0.00 2.34
5310 6888 6.609212 TCTCTTCACTAGCATTGGATCTTACT 59.391 38.462 0.00 0.00 0.00 2.24
5311 6889 7.780271 TCTCTTCACTAGCATTGGATCTTACTA 59.220 37.037 0.00 0.00 0.00 1.82
5312 6890 8.484214 TCTTCACTAGCATTGGATCTTACTAT 57.516 34.615 0.00 0.00 0.00 2.12
5313 6891 8.363390 TCTTCACTAGCATTGGATCTTACTATG 58.637 37.037 0.00 0.00 0.00 2.23
5314 6892 6.459066 TCACTAGCATTGGATCTTACTATGC 58.541 40.000 8.17 8.17 41.35 3.14
5318 6896 4.645535 GCATTGGATCTTACTATGCTGGA 58.354 43.478 8.73 0.00 38.75 3.86
5319 6897 4.694509 GCATTGGATCTTACTATGCTGGAG 59.305 45.833 8.73 0.00 38.75 3.86
5320 6898 4.963318 TTGGATCTTACTATGCTGGAGG 57.037 45.455 0.00 0.00 0.00 4.30
5321 6899 4.199002 TGGATCTTACTATGCTGGAGGA 57.801 45.455 0.00 0.00 0.00 3.71
5322 6900 4.155709 TGGATCTTACTATGCTGGAGGAG 58.844 47.826 0.00 0.00 0.00 3.69
5323 6901 4.140924 TGGATCTTACTATGCTGGAGGAGA 60.141 45.833 0.00 0.00 0.00 3.71
5324 6902 4.462483 GGATCTTACTATGCTGGAGGAGAG 59.538 50.000 0.00 0.00 0.00 3.20
5325 6903 4.797912 TCTTACTATGCTGGAGGAGAGA 57.202 45.455 0.00 0.00 0.00 3.10
5326 6904 4.724399 TCTTACTATGCTGGAGGAGAGAG 58.276 47.826 0.00 0.00 0.00 3.20
5341 6919 3.259625 GGAGAGAGGGGCATATTCTGTAC 59.740 52.174 0.00 0.00 0.00 2.90
5345 6923 5.540719 AGAGAGGGGCATATTCTGTACTAAC 59.459 44.000 0.00 0.00 0.00 2.34
5374 6952 2.821307 GAGTACGTACTCCGGAACAG 57.179 55.000 35.45 0.00 45.33 3.16
5375 6953 2.350522 GAGTACGTACTCCGGAACAGA 58.649 52.381 35.45 0.00 45.33 3.41
5376 6954 2.744202 GAGTACGTACTCCGGAACAGAA 59.256 50.000 35.45 0.00 45.33 3.02
5378 6956 3.569701 AGTACGTACTCCGGAACAGAAAA 59.430 43.478 22.45 0.00 42.24 2.29
5379 6957 3.672767 ACGTACTCCGGAACAGAAAAT 57.327 42.857 5.23 0.00 42.24 1.82
5381 6959 4.383173 ACGTACTCCGGAACAGAAAATTT 58.617 39.130 5.23 0.00 42.24 1.82
5382 6960 4.450080 ACGTACTCCGGAACAGAAAATTTC 59.550 41.667 5.23 0.00 42.24 2.17
5385 6963 5.376854 ACTCCGGAACAGAAAATTTCATG 57.623 39.130 5.23 6.14 0.00 3.07
5419 7010 7.283580 CGGGAACAGGTACAAAATATAAATCCA 59.716 37.037 0.00 0.00 0.00 3.41
5474 7065 0.845102 TTCTCCCCTTCCCAGTTCCC 60.845 60.000 0.00 0.00 0.00 3.97
5543 7134 0.530870 GACCCATCTACTTCTGGCGC 60.531 60.000 0.00 0.00 0.00 6.53
5569 7160 0.312416 CTACTTCCATCTCCGCCTCG 59.688 60.000 0.00 0.00 0.00 4.63
5592 7186 2.103340 GCCGAGTCGCTCTTCCTC 59.897 66.667 7.12 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
115 116 5.300034 TGCTATGATCTTTATGTTGCCTTGG 59.700 40.000 0.00 0.00 0.00 3.61
117 118 5.300286 GGTGCTATGATCTTTATGTTGCCTT 59.700 40.000 0.00 0.00 0.00 4.35
423 1435 3.526931 GATTGGTGAGAGGTCAATCGA 57.473 47.619 0.00 0.00 37.89 3.59
459 1471 4.445545 GAAAAGCGCTCCGTGCCG 62.446 66.667 12.06 0.00 40.23 5.69
460 1472 4.103103 GGAAAAGCGCTCCGTGCC 62.103 66.667 12.06 3.21 40.23 5.01
461 1473 3.028366 GAGGAAAAGCGCTCCGTGC 62.028 63.158 12.06 4.11 38.08 5.34
462 1474 0.951040 AAGAGGAAAAGCGCTCCGTG 60.951 55.000 12.06 0.00 38.08 4.94
473 1490 1.427753 GGTTGGGGGAAGAAGAGGAAA 59.572 52.381 0.00 0.00 0.00 3.13
667 1688 3.056536 CAGAAGAAATCGACCAGACCAGA 60.057 47.826 0.00 0.00 0.00 3.86
798 1829 0.874390 GACCATGCTGCAAACGAGAA 59.126 50.000 6.36 0.00 0.00 2.87
819 1850 1.000955 ACTGCAGTTAGAACTCCACCG 59.999 52.381 15.25 0.00 37.08 4.94
873 1904 0.930726 AGGGTTTGGGGTTCTGTTGA 59.069 50.000 0.00 0.00 0.00 3.18
874 1905 2.235891 GTAGGGTTTGGGGTTCTGTTG 58.764 52.381 0.00 0.00 0.00 3.33
876 1907 0.399075 CGTAGGGTTTGGGGTTCTGT 59.601 55.000 0.00 0.00 0.00 3.41
877 1908 0.399075 ACGTAGGGTTTGGGGTTCTG 59.601 55.000 0.00 0.00 0.00 3.02
878 1909 1.142936 AACGTAGGGTTTGGGGTTCT 58.857 50.000 0.00 0.00 34.41 3.01
879 1910 2.302733 TCTAACGTAGGGTTTGGGGTTC 59.697 50.000 0.00 0.00 40.09 3.62
881 1912 2.028561 TCTAACGTAGGGTTTGGGGT 57.971 50.000 0.00 0.00 40.09 4.95
947 1978 1.071567 GCAGCGAAGGACTGTACGAC 61.072 60.000 0.00 0.00 37.47 4.34
953 1984 2.086054 AAGTAAGCAGCGAAGGACTG 57.914 50.000 0.00 0.00 38.22 3.51
973 2004 3.057548 CAGCCTCACCAATGCGCA 61.058 61.111 14.96 14.96 0.00 6.09
1019 2050 5.982890 AATGTTAAAGCATAACAGTGGCT 57.017 34.783 16.84 0.00 40.27 4.75
1076 2107 2.892425 GGCATCGGAACAGGCTCG 60.892 66.667 0.00 0.00 0.00 5.03
1180 2211 4.398673 ACCAAAACAACATGCTGCAAAAAT 59.601 33.333 6.36 0.00 0.00 1.82
1183 2214 2.983229 ACCAAAACAACATGCTGCAAA 58.017 38.095 6.36 0.00 0.00 3.68
1323 2361 4.074970 AGAGGCGGGCAATATATTTCAAG 58.925 43.478 3.78 0.00 0.00 3.02
1364 2412 1.900351 CTCCAGCCAACTCATCCGA 59.100 57.895 0.00 0.00 0.00 4.55
1505 2553 1.737793 CACTCTTATTGGCGGTGGTTC 59.262 52.381 0.00 0.00 0.00 3.62
1512 2560 5.812642 AGATTACAGAACACTCTTATTGGCG 59.187 40.000 0.00 0.00 0.00 5.69
1593 2642 8.470002 TCAGATACATCTCCATAATTATCGGTG 58.530 37.037 11.39 9.90 34.22 4.94
1606 2655 1.040646 TGCCGGTCAGATACATCTCC 58.959 55.000 1.90 0.00 34.22 3.71
1607 2656 2.669670 CGATGCCGGTCAGATACATCTC 60.670 54.545 1.90 0.00 35.96 2.75
1608 2657 1.270826 CGATGCCGGTCAGATACATCT 59.729 52.381 1.90 0.00 35.96 2.90
1630 2679 1.757574 TACGTCGTTGAGTTTCCACG 58.242 50.000 1.78 0.00 0.00 4.94
1643 2692 3.501062 TGCTAGATTACCCTGATACGTCG 59.499 47.826 0.00 0.00 0.00 5.12
1746 2795 3.421844 GGCAACCTTAAGACCACAAGAT 58.578 45.455 3.36 0.00 0.00 2.40
1863 2913 3.244875 ACTCCTGTTGCCATTGTCATACA 60.245 43.478 0.00 0.00 0.00 2.29
1952 3002 7.701539 AAAAGCCTGACACACAATTGATATA 57.298 32.000 13.59 0.00 0.00 0.86
2136 3186 7.172361 AGTCAGACTTTCTGCAACTATTCTTTC 59.828 37.037 0.00 0.00 43.95 2.62
2165 3215 0.460284 ATAGCCTGTGGAGAAACGCG 60.460 55.000 3.53 3.53 0.00 6.01
2204 3254 5.308237 AGAGAACCATAACAAGAGTCAAGGT 59.692 40.000 0.00 0.00 0.00 3.50
2564 3614 7.573710 ACATATGGTGATAAGTAAAAGGCTGA 58.426 34.615 7.80 0.00 0.00 4.26
2588 3638 8.017946 GCTTAATAATAGTGCTTAGCCATCAAC 58.982 37.037 0.29 0.00 0.00 3.18
2638 3688 6.151144 CCAGTACTTTTGTTCCCCTGATAAAG 59.849 42.308 0.00 0.00 0.00 1.85
2859 3909 2.161410 TGTGGCGAATCAGCACATTAAC 59.839 45.455 0.00 0.00 39.27 2.01
2874 3932 2.979813 GCACTAAACAGAAAATGTGGCG 59.020 45.455 0.00 0.00 43.00 5.69
2943 4001 1.351076 ATTCCCCCACTGCAAAAAGG 58.649 50.000 0.00 0.00 0.00 3.11
2998 4056 2.826488 ACCCTGATTGTAGCTCAGACT 58.174 47.619 0.00 0.00 42.22 3.24
3225 4283 8.659925 AAATTAAACATTGCATGTCAAGAACA 57.340 26.923 8.23 0.00 44.07 3.18
3274 4332 8.068380 CGTCGAGACAATCTGATATAGTTACAA 58.932 37.037 4.02 0.00 0.00 2.41
3297 4355 6.197096 GGTTTCATCAATATGACAAATGCGTC 59.803 38.462 0.00 0.00 41.87 5.19
3359 4417 9.160496 GATAATTCTCTGCCTATGTTTATCTGG 57.840 37.037 0.00 0.00 0.00 3.86
3457 4515 2.821378 TCCTGCAGAACCATGAACATTG 59.179 45.455 17.39 0.00 0.00 2.82
3462 4520 0.401356 TGCTCCTGCAGAACCATGAA 59.599 50.000 17.39 0.00 45.31 2.57
3473 4531 5.358160 ACCAAAGATACTTATTTGCTCCTGC 59.642 40.000 0.00 0.00 35.53 4.85
3621 4679 7.378181 ACCCTGTGTCATGATTTTCAATAAAC 58.622 34.615 0.00 0.00 0.00 2.01
3753 4811 5.246883 GCCAATGGCCCTGAAATAATAGAAT 59.753 40.000 14.47 0.00 44.06 2.40
3833 4891 4.811969 TCTAACGAAAACCAGGCTATGA 57.188 40.909 0.00 0.00 0.00 2.15
3891 4950 8.840321 CGTCAGGGTTTTATAAAATCATCATCT 58.160 33.333 20.11 7.18 30.62 2.90
3935 4994 5.240623 TGACGAACAACTTTTTGATGCCTAT 59.759 36.000 0.00 0.00 36.48 2.57
4030 5094 9.082313 TCTAGATCAAGTCAGATACAATATGCA 57.918 33.333 0.00 0.00 0.00 3.96
4209 5273 8.901748 CAATTAGTTTGTGCATGTGTTTAGTAC 58.098 33.333 0.00 0.00 0.00 2.73
4306 5370 1.555075 TCGTGGAAAGAATCTCCCCAG 59.445 52.381 4.20 0.98 31.32 4.45
4419 5483 6.901615 TTTCCTAATCTCCATCTGGGTAAA 57.098 37.500 0.00 0.00 38.11 2.01
4420 5484 6.044404 GGATTTCCTAATCTCCATCTGGGTAA 59.956 42.308 0.00 0.00 40.07 2.85
4505 5569 5.561499 GCACAACTTATCATCGATTATTGCG 59.439 40.000 0.00 0.00 0.00 4.85
4538 5602 2.997315 CACCACGAGCCCTCTCCA 60.997 66.667 0.00 0.00 35.94 3.86
4604 5668 0.110295 ATGCCTACTTGTGCCACACA 59.890 50.000 0.00 0.00 43.02 3.72
4630 5707 5.643421 ATTCTCTTCAGCAGGAATATGGT 57.357 39.130 0.00 0.00 34.32 3.55
4638 5715 4.754114 GGCTAATGTATTCTCTTCAGCAGG 59.246 45.833 0.00 0.00 0.00 4.85
4652 5729 5.730550 CACTTCAGTTACCAGGCTAATGTA 58.269 41.667 0.00 0.00 0.00 2.29
4653 5730 4.579869 CACTTCAGTTACCAGGCTAATGT 58.420 43.478 0.00 0.00 0.00 2.71
4654 5731 3.375299 GCACTTCAGTTACCAGGCTAATG 59.625 47.826 0.00 0.00 0.00 1.90
4675 5754 3.127533 GGCGATCTGGTGTGGTGC 61.128 66.667 0.00 0.00 0.00 5.01
4689 5768 2.106131 TGTAGGTATGCTGCGGCG 59.894 61.111 13.96 0.51 42.25 6.46
4690 5769 0.462047 AAGTGTAGGTATGCTGCGGC 60.462 55.000 11.65 11.65 39.26 6.53
4717 5796 9.981114 TCTTCAGCAGAAATATCATTATTCGTA 57.019 29.630 0.00 0.00 32.35 3.43
4718 5797 8.893219 TCTTCAGCAGAAATATCATTATTCGT 57.107 30.769 0.00 0.00 32.35 3.85
4732 5811 7.281774 CAGGCTAATATCTTTTCTTCAGCAGAA 59.718 37.037 0.00 0.00 39.99 3.02
4734 5813 6.017275 CCAGGCTAATATCTTTTCTTCAGCAG 60.017 42.308 0.00 0.00 0.00 4.24
4737 5816 7.012799 GGAACCAGGCTAATATCTTTTCTTCAG 59.987 40.741 0.00 0.00 0.00 3.02
4738 5817 6.828785 GGAACCAGGCTAATATCTTTTCTTCA 59.171 38.462 0.00 0.00 0.00 3.02
4739 5818 7.012799 CAGGAACCAGGCTAATATCTTTTCTTC 59.987 40.741 0.00 0.00 0.00 2.87
4740 5819 6.830838 CAGGAACCAGGCTAATATCTTTTCTT 59.169 38.462 0.00 0.00 0.00 2.52
4741 5820 6.158695 TCAGGAACCAGGCTAATATCTTTTCT 59.841 38.462 0.00 0.00 0.00 2.52
4742 5821 6.357367 TCAGGAACCAGGCTAATATCTTTTC 58.643 40.000 0.00 0.00 0.00 2.29
4744 5823 5.975988 TCAGGAACCAGGCTAATATCTTT 57.024 39.130 0.00 0.00 0.00 2.52
4745 5824 5.667626 TCTTCAGGAACCAGGCTAATATCTT 59.332 40.000 0.00 0.00 0.00 2.40
4746 5825 5.219739 TCTTCAGGAACCAGGCTAATATCT 58.780 41.667 0.00 0.00 0.00 1.98
4748 5827 4.349342 CCTCTTCAGGAACCAGGCTAATAT 59.651 45.833 0.00 0.00 43.65 1.28
4751 5830 1.909302 CCTCTTCAGGAACCAGGCTAA 59.091 52.381 0.00 0.00 43.65 3.09
4752 5831 1.573108 CCTCTTCAGGAACCAGGCTA 58.427 55.000 0.00 0.00 43.65 3.93
4753 5832 1.846712 GCCTCTTCAGGAACCAGGCT 61.847 60.000 15.47 0.00 43.65 4.58
4754 5833 1.377856 GCCTCTTCAGGAACCAGGC 60.378 63.158 10.14 10.14 43.65 4.85
4755 5834 0.322008 GTGCCTCTTCAGGAACCAGG 60.322 60.000 0.00 0.00 42.40 4.45
4756 5835 3.239861 GTGCCTCTTCAGGAACCAG 57.760 57.895 0.00 0.00 42.40 4.00
4773 5852 1.521681 GGAGAAGCGCGGCATTAGT 60.522 57.895 8.83 0.00 0.00 2.24
4825 5904 2.769893 GAACAAACTAAGGTGCCCGTA 58.230 47.619 0.00 0.00 0.00 4.02
4830 5909 2.349532 GCACTCGAACAAACTAAGGTGC 60.350 50.000 3.79 3.79 41.09 5.01
4838 5917 5.151632 TGAAGTTTAGCACTCGAACAAAC 57.848 39.130 0.00 0.00 32.94 2.93
4842 5921 5.807344 ACTTTTGAAGTTTAGCACTCGAAC 58.193 37.500 0.00 0.00 39.04 3.95
4867 5946 8.667463 GCATGGTGCACTCATAAAATTTTATTT 58.333 29.630 18.72 5.85 44.26 1.40
4893 5972 3.382546 AGCTAGCCAAATAAATGCAGTGG 59.617 43.478 12.13 0.00 0.00 4.00
4903 5982 7.182026 TGCCCTCTATTATTAGCTAGCCAAATA 59.818 37.037 12.13 12.97 0.00 1.40
4915 5994 9.373450 GAGATAGGATGATGCCCTCTATTATTA 57.627 37.037 0.00 0.00 35.30 0.98
4960 6039 9.458374 CGTCACATTATACATGTACATTCTGTA 57.542 33.333 7.96 7.93 0.00 2.74
4961 6040 7.042725 GCGTCACATTATACATGTACATTCTGT 60.043 37.037 7.96 5.69 0.00 3.41
4974 6053 3.124466 TGTGTGCTTGCGTCACATTATAC 59.876 43.478 15.24 0.00 44.96 1.47
4990 6069 4.825546 ATATAATCAAGCAGCTGTGTGC 57.174 40.909 16.64 0.71 44.35 4.57
5013 6092 8.482128 ACTGAAACATGAAACCCTTTTTCAATA 58.518 29.630 0.00 0.00 41.16 1.90
5014 6093 7.337938 ACTGAAACATGAAACCCTTTTTCAAT 58.662 30.769 0.00 0.00 41.16 2.57
5015 6094 6.706295 ACTGAAACATGAAACCCTTTTTCAA 58.294 32.000 0.00 0.00 41.16 2.69
5016 6095 6.293004 ACTGAAACATGAAACCCTTTTTCA 57.707 33.333 0.00 1.68 41.91 2.69
5017 6096 7.463544 CAAACTGAAACATGAAACCCTTTTTC 58.536 34.615 0.00 0.00 0.00 2.29
5018 6097 6.128035 GCAAACTGAAACATGAAACCCTTTTT 60.128 34.615 0.00 0.00 0.00 1.94
5019 6098 5.353956 GCAAACTGAAACATGAAACCCTTTT 59.646 36.000 0.00 0.00 0.00 2.27
5020 6099 4.875536 GCAAACTGAAACATGAAACCCTTT 59.124 37.500 0.00 0.00 0.00 3.11
5021 6100 4.162131 AGCAAACTGAAACATGAAACCCTT 59.838 37.500 0.00 0.00 0.00 3.95
5022 6101 3.706086 AGCAAACTGAAACATGAAACCCT 59.294 39.130 0.00 0.00 0.00 4.34
5023 6102 4.051237 GAGCAAACTGAAACATGAAACCC 58.949 43.478 0.00 0.00 0.00 4.11
5036 6598 5.545658 AATACATAACACCGAGCAAACTG 57.454 39.130 0.00 0.00 0.00 3.16
5042 6604 2.198406 TGCGAATACATAACACCGAGC 58.802 47.619 0.00 0.00 0.00 5.03
5061 6623 4.543590 ACCTGTCCAGATACACTTTCTG 57.456 45.455 0.00 0.00 40.25 3.02
5062 6624 4.593206 TCAACCTGTCCAGATACACTTTCT 59.407 41.667 0.00 0.00 0.00 2.52
5120 6682 2.093921 TCAACATTGCCAATCTGCCATG 60.094 45.455 0.00 0.00 39.56 3.66
5121 6683 2.181125 TCAACATTGCCAATCTGCCAT 58.819 42.857 0.00 0.00 0.00 4.40
5124 6686 5.870978 AGTTAATTCAACATTGCCAATCTGC 59.129 36.000 0.00 0.00 39.81 4.26
5126 6688 7.444299 ACAAGTTAATTCAACATTGCCAATCT 58.556 30.769 0.00 0.00 39.81 2.40
5128 6690 6.365789 CGACAAGTTAATTCAACATTGCCAAT 59.634 34.615 0.00 0.00 39.81 3.16
5142 6711 4.331968 TGGAAGATTGCCGACAAGTTAAT 58.668 39.130 0.00 0.00 39.69 1.40
5148 6717 1.298157 CGCTGGAAGATTGCCGACAA 61.298 55.000 0.00 0.00 40.87 3.18
5152 6721 1.745115 TTCCGCTGGAAGATTGCCG 60.745 57.895 6.01 0.00 36.71 5.69
5268 6846 4.268797 AGAGAGGGAAAACGGACTTAAC 57.731 45.455 0.00 0.00 0.00 2.01
5297 6875 5.012458 TCCTCCAGCATAGTAAGATCCAATG 59.988 44.000 0.00 0.00 0.00 2.82
5298 6876 5.158141 TCCTCCAGCATAGTAAGATCCAAT 58.842 41.667 0.00 0.00 0.00 3.16
5299 6877 4.556697 TCCTCCAGCATAGTAAGATCCAA 58.443 43.478 0.00 0.00 0.00 3.53
5301 6879 4.411927 TCTCCTCCAGCATAGTAAGATCC 58.588 47.826 0.00 0.00 0.00 3.36
5303 6881 5.324409 CTCTCTCCTCCAGCATAGTAAGAT 58.676 45.833 0.00 0.00 0.00 2.40
5304 6882 4.447034 CCTCTCTCCTCCAGCATAGTAAGA 60.447 50.000 0.00 0.00 0.00 2.10
5305 6883 3.826157 CCTCTCTCCTCCAGCATAGTAAG 59.174 52.174 0.00 0.00 0.00 2.34
5306 6884 3.437198 CCCTCTCTCCTCCAGCATAGTAA 60.437 52.174 0.00 0.00 0.00 2.24
5307 6885 2.109128 CCCTCTCTCCTCCAGCATAGTA 59.891 54.545 0.00 0.00 0.00 1.82
5309 6887 1.631405 CCCTCTCTCCTCCAGCATAG 58.369 60.000 0.00 0.00 0.00 2.23
5310 6888 0.189574 CCCCTCTCTCCTCCAGCATA 59.810 60.000 0.00 0.00 0.00 3.14
5311 6889 1.074623 CCCCTCTCTCCTCCAGCAT 60.075 63.158 0.00 0.00 0.00 3.79
5312 6890 2.366167 CCCCTCTCTCCTCCAGCA 59.634 66.667 0.00 0.00 0.00 4.41
5313 6891 3.160748 GCCCCTCTCTCCTCCAGC 61.161 72.222 0.00 0.00 0.00 4.85
5314 6892 0.189574 TATGCCCCTCTCTCCTCCAG 59.810 60.000 0.00 0.00 0.00 3.86
5315 6893 0.870313 ATATGCCCCTCTCTCCTCCA 59.130 55.000 0.00 0.00 0.00 3.86
5316 6894 1.905894 GAATATGCCCCTCTCTCCTCC 59.094 57.143 0.00 0.00 0.00 4.30
5317 6895 2.566724 CAGAATATGCCCCTCTCTCCTC 59.433 54.545 0.00 0.00 0.00 3.71
5318 6896 2.090267 ACAGAATATGCCCCTCTCTCCT 60.090 50.000 0.00 0.00 0.00 3.69
5319 6897 2.334023 ACAGAATATGCCCCTCTCTCC 58.666 52.381 0.00 0.00 0.00 3.71
5320 6898 4.156477 AGTACAGAATATGCCCCTCTCTC 58.844 47.826 0.00 0.00 0.00 3.20
5321 6899 4.206244 AGTACAGAATATGCCCCTCTCT 57.794 45.455 0.00 0.00 0.00 3.10
5322 6900 5.279556 GGTTAGTACAGAATATGCCCCTCTC 60.280 48.000 0.00 0.00 0.00 3.20
5323 6901 4.593634 GGTTAGTACAGAATATGCCCCTCT 59.406 45.833 0.00 0.00 0.00 3.69
5324 6902 4.347000 TGGTTAGTACAGAATATGCCCCTC 59.653 45.833 0.00 0.00 0.00 4.30
5325 6903 4.303794 TGGTTAGTACAGAATATGCCCCT 58.696 43.478 0.00 0.00 0.00 4.79
5326 6904 4.699925 TGGTTAGTACAGAATATGCCCC 57.300 45.455 0.00 0.00 0.00 5.80
5356 6934 2.479566 TCTGTTCCGGAGTACGTACT 57.520 50.000 27.71 27.71 42.24 2.73
5357 6935 3.559238 TTTCTGTTCCGGAGTACGTAC 57.441 47.619 18.10 18.10 42.24 3.67
5358 6936 4.789012 ATTTTCTGTTCCGGAGTACGTA 57.211 40.909 3.34 0.00 42.24 3.57
5359 6937 3.672767 ATTTTCTGTTCCGGAGTACGT 57.327 42.857 3.34 0.00 42.24 3.57
5360 6938 4.449743 TGAAATTTTCTGTTCCGGAGTACG 59.550 41.667 3.34 0.00 43.80 3.67
5361 6939 5.934935 TGAAATTTTCTGTTCCGGAGTAC 57.065 39.130 3.34 0.82 0.00 2.73
5362 6940 6.001460 ACATGAAATTTTCTGTTCCGGAGTA 58.999 36.000 3.34 0.00 0.00 2.59
5363 6941 4.827284 ACATGAAATTTTCTGTTCCGGAGT 59.173 37.500 3.34 0.00 0.00 3.85
5364 6942 5.376854 ACATGAAATTTTCTGTTCCGGAG 57.623 39.130 3.34 0.00 0.00 4.63
5365 6943 6.885952 TTACATGAAATTTTCTGTTCCGGA 57.114 33.333 0.00 0.00 0.00 5.14
5366 6944 7.063308 CCATTTACATGAAATTTTCTGTTCCGG 59.937 37.037 10.33 0.00 35.45 5.14
5368 6946 7.411804 CGCCATTTACATGAAATTTTCTGTTCC 60.412 37.037 10.33 0.00 35.45 3.62
5369 6947 7.411804 CCGCCATTTACATGAAATTTTCTGTTC 60.412 37.037 10.33 0.00 35.45 3.18
5372 6950 5.291614 CCCGCCATTTACATGAAATTTTCTG 59.708 40.000 10.33 8.36 35.45 3.02
5373 6951 5.186797 TCCCGCCATTTACATGAAATTTTCT 59.813 36.000 10.33 0.00 35.45 2.52
5374 6952 5.415221 TCCCGCCATTTACATGAAATTTTC 58.585 37.500 0.00 2.05 35.45 2.29
5375 6953 5.413309 TCCCGCCATTTACATGAAATTTT 57.587 34.783 0.00 0.00 35.45 1.82
5376 6954 5.175127 GTTCCCGCCATTTACATGAAATTT 58.825 37.500 0.00 0.00 35.45 1.82
5378 6956 3.766591 TGTTCCCGCCATTTACATGAAAT 59.233 39.130 0.00 0.00 38.34 2.17
5379 6957 3.157881 TGTTCCCGCCATTTACATGAAA 58.842 40.909 0.00 0.00 31.07 2.69
5381 6959 2.364632 CTGTTCCCGCCATTTACATGA 58.635 47.619 0.00 0.00 31.07 3.07
5382 6960 1.405105 CCTGTTCCCGCCATTTACATG 59.595 52.381 0.00 0.00 0.00 3.21
5385 6963 2.011947 GTACCTGTTCCCGCCATTTAC 58.988 52.381 0.00 0.00 0.00 2.01
5443 7034 2.124942 GGAGAAGAGCCGCCAAGG 60.125 66.667 0.00 0.00 44.97 3.61
5444 7035 2.124942 GGGAGAAGAGCCGCCAAG 60.125 66.667 0.00 0.00 0.00 3.61
5445 7036 3.717294 GGGGAGAAGAGCCGCCAA 61.717 66.667 0.00 0.00 35.69 4.52
5446 7037 4.722535 AGGGGAGAAGAGCCGCCA 62.723 66.667 0.00 0.00 39.01 5.69
5447 7038 3.393149 GAAGGGGAGAAGAGCCGCC 62.393 68.421 0.00 0.00 39.01 6.13
5448 7039 2.188207 GAAGGGGAGAAGAGCCGC 59.812 66.667 0.00 0.00 38.53 6.53
5449 7040 2.736826 GGGAAGGGGAGAAGAGCCG 61.737 68.421 0.00 0.00 0.00 5.52
5474 7065 3.652687 CCATGAGGTGGGAGGGAG 58.347 66.667 0.00 0.00 44.79 4.30
5510 7101 4.922026 GGTCGCCGTGGTGGTTGT 62.922 66.667 0.00 0.00 41.21 3.32
5543 7134 0.761802 GAGATGGAAGTAGCCCAGGG 59.238 60.000 0.00 0.00 37.08 4.45
5572 7163 4.856607 GAAGAGCGACTCGGCGGG 62.857 72.222 4.58 4.58 38.18 6.13
5573 7164 4.856607 GGAAGAGCGACTCGGCGG 62.857 72.222 7.21 0.00 38.18 6.13
5575 7166 2.103340 GAGGAAGAGCGACTCGGC 59.897 66.667 0.00 0.00 35.36 5.54
5579 7170 1.751162 CGGAGGAGGAAGAGCGACT 60.751 63.158 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.