Multiple sequence alignment - TraesCS2B01G417400

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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 TraesCS2B01G417400 chr2B 100.000 2620 0 0 1 2620 596931948 596929329 0.000000e+00 4839.0
1 TraesCS2B01G417400 chr2B 100.000 2321 0 0 3520 5840 596928429 596926109 0.000000e+00 4287.0
2 TraesCS2B01G417400 chr2D 93.291 1416 86 7 3541 4954 508054852 508053444 0.000000e+00 2080.0
3 TraesCS2B01G417400 chr2D 90.797 1456 68 23 1196 2620 508057156 508055736 0.000000e+00 1886.0
4 TraesCS2B01G417400 chr2D 91.706 844 36 13 354 1193 508058004 508057191 0.000000e+00 1140.0
5 TraesCS2B01G417400 chr2D 89.671 852 70 10 4992 5838 508053452 508052614 0.000000e+00 1070.0
6 TraesCS2B01G417400 chr2D 92.182 307 16 5 1 300 508058398 508058093 1.500000e-115 427.0
7 TraesCS2B01G417400 chr2D 98.077 52 1 0 320 371 508058097 508058046 2.240000e-14 91.6
8 TraesCS2B01G417400 chr2A 92.903 1240 56 11 952 2167 652534112 652532881 0.000000e+00 1773.0
9 TraesCS2B01G417400 chr2A 92.366 1179 84 4 3541 4716 652530936 652529761 0.000000e+00 1674.0
10 TraesCS2B01G417400 chr2A 89.309 767 49 7 4992 5754 652529564 652528827 0.000000e+00 931.0
11 TraesCS2B01G417400 chr2A 91.152 599 33 12 113 702 652535970 652535383 0.000000e+00 795.0
12 TraesCS2B01G417400 chr2A 91.304 322 22 5 2300 2620 652532160 652531844 8.990000e-118 435.0
13 TraesCS2B01G417400 chr2A 93.548 217 14 0 4738 4954 652529772 652529556 2.030000e-84 324.0
14 TraesCS2B01G417400 chr2A 83.744 203 13 3 752 953 652535385 652535202 2.160000e-39 174.0
15 TraesCS2B01G417400 chr2A 89.922 129 8 5 5714 5839 652528826 652528700 1.680000e-35 161.0


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 TraesCS2B01G417400 chr2B 596926109 596931948 5839 True 4563.000000 4839 100.000000 1 5840 2 chr2B.!!$R1 5839
1 TraesCS2B01G417400 chr2D 508052614 508058398 5784 True 1115.766667 2080 92.620667 1 5838 6 chr2D.!!$R1 5837
2 TraesCS2B01G417400 chr2A 652528700 652535970 7270 True 783.375000 1773 90.531000 113 5839 8 chr2A.!!$R1 5726

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
924 1020 0.175302 CACTGTTTTGGCTGCAACCA 59.825 50.000 4.25 4.25 38.16 3.67 F
992 2180 0.607489 AACATCCTCTGCACTGCACC 60.607 55.000 0.00 0.00 33.79 5.01 F
994 2182 0.743701 CATCCTCTGCACTGCACCTC 60.744 60.000 0.00 0.00 33.79 3.85 F
1076 2281 0.859232 AACTCGTGCGTGTCACAATC 59.141 50.000 3.42 0.00 45.92 2.67 F
1720 2963 1.001974 TGGGAATTCACCTCACGTCTG 59.998 52.381 4.96 0.00 0.00 3.51 F
4003 5958 0.250901 AATCCGGCAGTTTGAGCAGT 60.251 50.000 0.00 0.00 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2566 4431 1.002142 CACGTTTCCCCCGTTCTTTTC 60.002 52.381 0.00 0.0 36.17 2.29 R
2570 4435 1.070275 GTCACGTTTCCCCCGTTCT 59.930 57.895 0.00 0.0 36.17 3.01 R
2573 4438 3.539791 ACGTCACGTTTCCCCCGT 61.540 61.111 0.00 0.0 36.35 5.28 R
3552 5424 8.972127 AGTCTATGTATGCTTCGACCATATTAT 58.028 33.333 7.89 8.3 0.00 1.28 R
4027 5982 0.102481 GTCGTGGTAGCATCGTCCAT 59.898 55.000 13.72 0.0 33.68 3.41 R
5041 6996 0.605319 GGGCGGATTGTGTGAGTGAA 60.605 55.000 0.00 0.0 0.00 3.18 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
111 119 1.000283 CATACCCTCGCAGATCTCCAC 60.000 57.143 0.00 0.00 33.89 4.02
255 266 2.668632 GCACCTGTCCCGATGGAA 59.331 61.111 0.00 0.00 44.07 3.53
296 324 2.401766 GGCCGTCACATGAAGCCAG 61.402 63.158 15.89 0.00 42.32 4.85
297 325 3.044059 GCCGTCACATGAAGCCAGC 62.044 63.158 0.00 0.00 0.00 4.85
298 326 1.376424 CCGTCACATGAAGCCAGCT 60.376 57.895 0.00 0.00 0.00 4.24
299 327 1.364626 CCGTCACATGAAGCCAGCTC 61.365 60.000 0.00 0.00 0.00 4.09
300 328 0.390866 CGTCACATGAAGCCAGCTCT 60.391 55.000 0.00 0.00 0.00 4.09
301 329 1.085091 GTCACATGAAGCCAGCTCTG 58.915 55.000 0.00 0.00 0.00 3.35
302 330 0.675837 TCACATGAAGCCAGCTCTGC 60.676 55.000 0.00 0.00 0.00 4.26
303 331 1.378250 ACATGAAGCCAGCTCTGCC 60.378 57.895 0.00 0.00 0.00 4.85
304 332 2.119655 CATGAAGCCAGCTCTGCCC 61.120 63.158 1.17 0.00 0.00 5.36
305 333 3.694058 ATGAAGCCAGCTCTGCCCG 62.694 63.158 1.17 0.00 0.00 6.13
385 473 3.295228 CTTTGCCACGGCGAGTTCG 62.295 63.158 16.62 0.00 45.51 3.95
397 485 1.860676 CGAGTTCGGGTTTGAGTTCA 58.139 50.000 0.00 0.00 35.37 3.18
407 495 4.381079 CGGGTTTGAGTTCAAAAGTTGGAA 60.381 41.667 8.74 0.00 46.08 3.53
464 555 7.290110 TGTCTCAAGTAAAAGATCTGACTCA 57.710 36.000 0.00 0.00 0.00 3.41
465 556 7.726216 TGTCTCAAGTAAAAGATCTGACTCAA 58.274 34.615 0.00 0.00 0.00 3.02
538 629 1.001406 AGAAAAGTGTCTCTCAGCGGG 59.999 52.381 0.00 0.00 0.00 6.13
590 682 7.879070 TGATTTCCTCACAAAGAAATTCTCTG 58.121 34.615 0.00 0.00 41.56 3.35
618 714 7.889600 AGTTCAGTACTACTAGTAGCTCCTTTT 59.110 37.037 26.54 10.35 36.66 2.27
619 715 9.171877 GTTCAGTACTACTAGTAGCTCCTTTTA 57.828 37.037 26.54 9.43 36.66 1.52
620 716 8.729805 TCAGTACTACTAGTAGCTCCTTTTAC 57.270 38.462 26.54 18.87 36.66 2.01
621 717 8.324306 TCAGTACTACTAGTAGCTCCTTTTACA 58.676 37.037 26.54 5.50 36.66 2.41
622 718 9.122779 CAGTACTACTAGTAGCTCCTTTTACAT 57.877 37.037 26.54 7.92 36.66 2.29
707 803 6.099701 TCTGCAGTTCTAGCTAATTAATCCCA 59.900 38.462 14.67 0.00 0.00 4.37
756 852 7.803279 ACAGTTATTTAGCCAGTATTTAGCC 57.197 36.000 0.00 0.00 0.00 3.93
757 853 7.343357 ACAGTTATTTAGCCAGTATTTAGCCA 58.657 34.615 0.00 0.00 0.00 4.75
758 854 7.499232 ACAGTTATTTAGCCAGTATTTAGCCAG 59.501 37.037 0.00 0.00 0.00 4.85
780 876 2.428569 CACGACGACGGTGACCTG 60.429 66.667 12.58 0.00 44.46 4.00
805 901 5.174761 CGGACACACCACATGTTTAATTTTG 59.825 40.000 0.00 0.00 40.64 2.44
806 902 5.465056 GGACACACCACATGTTTAATTTTGG 59.535 40.000 0.00 0.00 40.64 3.28
807 903 6.227298 ACACACCACATGTTTAATTTTGGA 57.773 33.333 0.00 0.00 40.64 3.53
924 1020 0.175302 CACTGTTTTGGCTGCAACCA 59.825 50.000 4.25 4.25 38.16 3.67
925 1021 1.122227 ACTGTTTTGGCTGCAACCAT 58.878 45.000 10.21 0.00 40.13 3.55
931 1027 2.124151 GGCTGCAACCATCCCGAT 60.124 61.111 0.00 0.00 0.00 4.18
987 2175 3.731716 TGCAAACATCCTCTGCACT 57.268 47.368 0.00 0.00 41.01 4.40
988 2176 1.241165 TGCAAACATCCTCTGCACTG 58.759 50.000 0.00 0.00 41.01 3.66
990 2178 1.241165 CAAACATCCTCTGCACTGCA 58.759 50.000 3.11 3.11 36.92 4.41
991 2179 1.068748 CAAACATCCTCTGCACTGCAC 60.069 52.381 0.00 0.00 33.79 4.57
992 2180 0.607489 AACATCCTCTGCACTGCACC 60.607 55.000 0.00 0.00 33.79 5.01
993 2181 1.298993 CATCCTCTGCACTGCACCT 59.701 57.895 0.00 0.00 33.79 4.00
994 2182 0.743701 CATCCTCTGCACTGCACCTC 60.744 60.000 0.00 0.00 33.79 3.85
1000 2203 2.745492 GCACTGCACCTCTGGCTC 60.745 66.667 0.00 0.00 0.00 4.70
1076 2281 0.859232 AACTCGTGCGTGTCACAATC 59.141 50.000 3.42 0.00 45.92 2.67
1089 2294 4.449068 GTGTCACAATCCGGCAGATTATAG 59.551 45.833 0.00 0.00 43.63 1.31
1121 2326 1.681793 ACTTGTAGTGTCTGCGTCTGT 59.318 47.619 0.00 0.00 0.00 3.41
1184 2389 2.888863 GTCTCCTCTGCTCCACCG 59.111 66.667 0.00 0.00 0.00 4.94
1212 2449 1.442520 CGTGCAATTCAGTTGGGCG 60.443 57.895 0.00 0.00 38.29 6.13
1258 2495 1.863155 GCCATGGAGTTGGAGGGGAA 61.863 60.000 18.40 0.00 39.25 3.97
1570 2813 4.139234 GACTACCGCCGGTGGGAC 62.139 72.222 36.25 20.11 38.55 4.46
1571 2814 4.691359 ACTACCGCCGGTGGGACT 62.691 66.667 36.25 19.37 38.55 3.85
1621 2864 3.644399 GACGACGGAACCCAGAGCC 62.644 68.421 0.00 0.00 0.00 4.70
1720 2963 1.001974 TGGGAATTCACCTCACGTCTG 59.998 52.381 4.96 0.00 0.00 3.51
1779 3036 1.234821 TATTTGCATTCGATCGGGCC 58.765 50.000 16.41 0.00 0.00 5.80
1997 3254 4.786609 GCATAGCCAACATTCGAAGTAAGC 60.787 45.833 3.35 8.46 0.00 3.09
2105 3370 2.030335 CACGCGCATGCTGATTTAGTTA 59.970 45.455 17.13 0.00 39.65 2.24
2184 3727 1.352404 GCGACTCGATCACGTAGCT 59.648 57.895 1.63 0.00 40.69 3.32
2233 3784 1.918543 GCACAACGTTTTCTACCACGC 60.919 52.381 0.00 0.00 40.16 5.34
2258 3809 2.101770 GTCCTCCGGCGTCTAACG 59.898 66.667 6.01 0.00 45.88 3.18
2413 4278 6.009115 TCGATGTATATATGCACACGAACT 57.991 37.500 22.20 2.61 34.20 3.01
2431 4296 3.175109 ACTGTTGGCGTATTAGGCTAC 57.825 47.619 8.16 7.49 41.25 3.58
2433 4298 1.750206 TGTTGGCGTATTAGGCTACGA 59.250 47.619 12.18 0.00 45.64 3.43
2445 4310 5.618056 TTAGGCTACGACTATGATAACCG 57.382 43.478 0.00 0.00 0.00 4.44
2450 4315 3.026630 ACGACTATGATAACCGCATGG 57.973 47.619 0.00 0.00 42.84 3.66
2500 4365 4.406972 CCTGTCTCCCATCTTATCAACTCA 59.593 45.833 0.00 0.00 0.00 3.41
2551 4416 7.028361 GCAAGTAAGGAACAGTGTAGTAGTAG 58.972 42.308 0.00 0.00 0.00 2.57
2552 4417 7.309073 GCAAGTAAGGAACAGTGTAGTAGTAGT 60.309 40.741 0.00 0.00 0.00 2.73
2554 4419 9.447157 AAGTAAGGAACAGTGTAGTAGTAGTAG 57.553 37.037 0.00 0.00 0.00 2.57
2555 4420 8.601546 AGTAAGGAACAGTGTAGTAGTAGTAGT 58.398 37.037 0.00 0.00 0.00 2.73
2557 4422 8.785329 AAGGAACAGTGTAGTAGTAGTAGTAC 57.215 38.462 13.61 13.61 36.10 2.73
2559 4424 8.378565 AGGAACAGTGTAGTAGTAGTAGTACAA 58.621 37.037 21.62 8.14 43.62 2.41
2560 4425 8.663911 GGAACAGTGTAGTAGTAGTAGTACAAG 58.336 40.741 21.62 19.02 43.62 3.16
2562 4427 9.784531 AACAGTGTAGTAGTAGTAGTACAAGAA 57.215 33.333 21.62 2.55 43.62 2.52
2563 4428 9.434420 ACAGTGTAGTAGTAGTAGTACAAGAAG 57.566 37.037 21.62 15.20 43.62 2.85
2564 4429 9.650539 CAGTGTAGTAGTAGTAGTACAAGAAGA 57.349 37.037 21.62 1.64 43.62 2.87
3552 5424 9.249053 TCCATTGACTTTATTTAAGTTATGCCA 57.751 29.630 0.00 0.00 47.00 4.92
3590 5462 6.943146 AGCATACATAGACTCGGATTCTCTAA 59.057 38.462 0.68 0.00 0.00 2.10
3604 5476 6.017852 CGGATTCTCTAAAGTTTTGGATAGCC 60.018 42.308 0.00 0.00 0.00 3.93
3605 5477 6.828785 GGATTCTCTAAAGTTTTGGATAGCCA 59.171 38.462 0.00 0.00 44.17 4.75
3606 5478 7.012799 GGATTCTCTAAAGTTTTGGATAGCCAG 59.987 40.741 0.00 0.00 46.91 4.85
3612 5566 8.768397 TCTAAAGTTTTGGATAGCCAGAGAATA 58.232 33.333 0.00 0.00 46.91 1.75
3633 5587 9.618890 AGAATATGAAAATTAAGCTAGCAGACA 57.381 29.630 18.83 5.75 0.00 3.41
3641 5595 1.747709 AGCTAGCAGACAAGCAATGG 58.252 50.000 18.83 0.00 41.32 3.16
3684 5638 4.881920 ACACCCAATATCTTGTGTTTTGC 58.118 39.130 0.00 0.00 38.74 3.68
3726 5680 1.829523 GCCATGTTGCCACCCAATGT 61.830 55.000 0.00 0.00 35.55 2.71
3860 5815 6.357367 CAGATGTTAGTTTATAAGTGCCCCT 58.643 40.000 0.00 0.00 0.00 4.79
3865 5820 8.937207 TGTTAGTTTATAAGTGCCCCTTTTTA 57.063 30.769 0.00 0.00 34.46 1.52
3866 5821 9.536510 TGTTAGTTTATAAGTGCCCCTTTTTAT 57.463 29.630 0.00 0.00 34.46 1.40
3881 5836 7.428826 CCCCTTTTTATTCTAATGCAAGCTAG 58.571 38.462 0.00 0.00 0.00 3.42
3889 5844 5.016051 TCTAATGCAAGCTAGTTCAGAGG 57.984 43.478 0.00 0.00 0.00 3.69
3932 5887 9.778993 CATCTTTTAAATCATTCGACATCAACT 57.221 29.630 0.00 0.00 0.00 3.16
3966 5921 4.446371 ACTTATGATGTGTAGGAGCAAGC 58.554 43.478 0.00 0.00 0.00 4.01
4003 5958 0.250901 AATCCGGCAGTTTGAGCAGT 60.251 50.000 0.00 0.00 0.00 4.40
4027 5982 1.215244 CGAGCTAGACGTATCCGACA 58.785 55.000 0.00 0.00 37.88 4.35
4064 6019 1.153489 CCACGGAGGATGTGAGCTG 60.153 63.158 0.00 0.00 41.22 4.24
4097 6052 8.690203 TTGGAAACAGATTTCATAGAAGACAA 57.310 30.769 2.48 0.00 45.26 3.18
4107 6062 5.009854 TCATAGAAGACAATGACGATGCA 57.990 39.130 0.00 0.00 0.00 3.96
4113 6068 0.654160 ACAATGACGATGCATCTGCG 59.346 50.000 23.73 14.33 45.83 5.18
4143 6098 6.039941 GCATACTAGAACTCCTAGAAGCAAGA 59.960 42.308 0.00 0.00 46.17 3.02
4188 6143 7.687941 CTTCCAGAAGCTTTTGGTAGATTTA 57.312 36.000 28.46 11.03 34.77 1.40
4193 6148 8.522830 CCAGAAGCTTTTGGTAGATTTATTTCA 58.477 33.333 24.51 0.00 0.00 2.69
4195 6150 9.301897 AGAAGCTTTTGGTAGATTTATTTCACT 57.698 29.630 0.00 0.00 0.00 3.41
4212 6167 7.660030 ATTTCACTATGATAAAACCCCAAGG 57.340 36.000 0.00 0.00 40.04 3.61
4350 6305 2.699846 GTGGAGATGCCTCAGAGAAGAT 59.300 50.000 0.00 0.00 41.20 2.40
4386 6341 0.385029 CCGCTGATCTGGAGAGTGAG 59.615 60.000 1.46 0.00 0.00 3.51
4398 6353 3.210227 GGAGAGTGAGATCATCTCGTCA 58.790 50.000 15.87 0.00 46.25 4.35
4478 6433 5.243507 TGCTGAAAACTGCTTTGGAATATCA 59.756 36.000 0.00 0.00 0.00 2.15
4513 6468 0.796927 GCAACTTTGTCCCGCTACTC 59.203 55.000 0.00 0.00 0.00 2.59
4568 6523 3.317711 CCATGTGAACTGTTGCAACCTTA 59.682 43.478 26.14 7.52 0.00 2.69
4571 6526 2.353579 GTGAACTGTTGCAACCTTACGT 59.646 45.455 26.14 12.36 0.00 3.57
4646 6601 4.970003 GTGAGTGCTTGTACATTTGTGAAC 59.030 41.667 0.00 0.00 0.00 3.18
4672 6627 8.040727 CGGTCCACAATCTATTGGATATGAATA 58.959 37.037 7.56 0.00 43.85 1.75
4693 6648 3.678965 TTTTGCTTGGGATAGGGCATA 57.321 42.857 0.00 0.00 34.59 3.14
4826 6781 8.848474 TGTTTTCTTGTAAGATCCTAGGAAAG 57.152 34.615 17.30 13.54 34.49 2.62
4836 6791 1.003118 TCCTAGGAAAGCACGTGCATT 59.997 47.619 39.21 34.21 45.16 3.56
4837 6792 1.131126 CCTAGGAAAGCACGTGCATTG 59.869 52.381 39.21 21.96 45.16 2.82
4923 6878 9.373450 AGAGGACATACATCATAATGAGTACTT 57.627 33.333 0.00 0.00 36.67 2.24
4954 6909 5.989777 AGTTTCCTATGTAGAACACACACAC 59.010 40.000 0.00 0.00 40.86 3.82
4956 6911 4.878439 TCCTATGTAGAACACACACACAC 58.122 43.478 0.00 0.00 40.86 3.82
4957 6912 4.342665 TCCTATGTAGAACACACACACACA 59.657 41.667 0.00 0.00 40.86 3.72
4958 6913 4.447724 CCTATGTAGAACACACACACACAC 59.552 45.833 0.00 0.00 40.86 3.82
4959 6914 3.320673 TGTAGAACACACACACACACA 57.679 42.857 0.00 0.00 30.04 3.72
4960 6915 2.997303 TGTAGAACACACACACACACAC 59.003 45.455 0.00 0.00 30.04 3.82
4961 6916 2.177394 AGAACACACACACACACACA 57.823 45.000 0.00 0.00 0.00 3.72
4962 6917 1.804151 AGAACACACACACACACACAC 59.196 47.619 0.00 0.00 0.00 3.82
4963 6918 1.533299 GAACACACACACACACACACA 59.467 47.619 0.00 0.00 0.00 3.72
4964 6919 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4965 6920 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4966 6921 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4967 6922 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4968 6923 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4969 6924 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4970 6925 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4971 6926 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4972 6927 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4973 6928 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4974 6929 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4975 6930 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4976 6931 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4977 6932 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4978 6933 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4979 6934 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4980 6935 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4981 6936 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4982 6937 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4983 6938 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4984 6939 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4985 6940 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4986 6941 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4987 6942 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4988 6943 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4989 6944 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4990 6945 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4991 6946 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4992 6947 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4993 6948 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4994 6949 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4995 6950 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4996 6951 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4997 6952 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
4998 6953 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
4999 6954 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5000 6955 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5001 6956 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5002 6957 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5041 6996 1.491668 GTTTGGGTTTGACCAGGGTT 58.508 50.000 0.00 0.00 42.47 4.11
5067 7024 1.200020 CACACAATCCGCCCTCTTTTC 59.800 52.381 0.00 0.00 0.00 2.29
5072 7030 0.833949 ATCCGCCCTCTTTTCTCCTC 59.166 55.000 0.00 0.00 0.00 3.71
5077 7035 1.267121 CCCTCTTTTCTCCTCACGGA 58.733 55.000 0.00 0.00 37.82 4.69
5117 7075 6.769512 TCTTAATACTTGAGTGCAAACTCCT 58.230 36.000 3.56 0.00 35.97 3.69
5131 7089 6.428159 GTGCAAACTCCTTCTTCTCTAATTCA 59.572 38.462 0.00 0.00 0.00 2.57
5155 7113 0.549950 ATGCTCCTCCCATGTTCAGG 59.450 55.000 0.00 0.00 0.00 3.86
5397 7357 3.066760 CGATCTAGTGTACACATGAGCCA 59.933 47.826 27.06 7.44 0.00 4.75
5435 7395 5.277825 TGGCTTACATGAACAAAAGAAACG 58.722 37.500 0.00 0.00 0.00 3.60
5471 7431 7.129457 ACTAGCCAATGATTTGATCTCTACA 57.871 36.000 0.00 0.00 34.60 2.74
5473 7433 6.939132 AGCCAATGATTTGATCTCTACAAG 57.061 37.500 0.00 0.00 34.60 3.16
5522 7482 8.040727 TCTCTAGCAGCAACATTCAACTTTATA 58.959 33.333 0.00 0.00 0.00 0.98
5630 7590 0.945265 CAGCAATTTTGGCGTGGTGG 60.945 55.000 0.00 0.00 37.17 4.61
5634 7594 1.680522 AATTTTGGCGTGGTGGTGCA 61.681 50.000 0.00 0.00 0.00 4.57
5638 7598 3.522731 GGCGTGGTGGTGCAAACA 61.523 61.111 0.00 0.00 0.00 2.83
5639 7599 2.492090 GCGTGGTGGTGCAAACAA 59.508 55.556 0.00 0.00 0.00 2.83
5640 7600 1.153745 GCGTGGTGGTGCAAACAAA 60.154 52.632 0.00 0.00 0.00 2.83
5641 7601 0.737715 GCGTGGTGGTGCAAACAAAA 60.738 50.000 0.00 0.00 0.00 2.44
5642 7602 1.276415 CGTGGTGGTGCAAACAAAAG 58.724 50.000 0.00 0.00 0.00 2.27
5643 7603 1.135257 CGTGGTGGTGCAAACAAAAGA 60.135 47.619 0.00 0.00 0.00 2.52
5644 7604 2.481104 CGTGGTGGTGCAAACAAAAGAT 60.481 45.455 0.00 0.00 0.00 2.40
5645 7605 2.865551 GTGGTGGTGCAAACAAAAGATG 59.134 45.455 0.00 0.00 0.00 2.90
5652 7612 6.258507 GTGGTGCAAACAAAAGATGAAAAGAT 59.741 34.615 0.00 0.00 0.00 2.40
5657 7617 7.548427 TGCAAACAAAAGATGAAAAGATTGACA 59.452 29.630 0.00 0.00 0.00 3.58
5673 7633 2.221169 TGACAACAAGCCATCAGACAC 58.779 47.619 0.00 0.00 0.00 3.67
5690 7650 2.623889 GACACGTGCCTCTATGGTATCT 59.376 50.000 17.22 0.00 38.35 1.98
5706 7666 3.431766 GGTATCTAATCACCACGCCACTT 60.432 47.826 0.00 0.00 34.77 3.16
5798 7801 5.053811 AGCCCACTTTTAAAAATTGTTCCG 58.946 37.500 1.66 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.243008 TCGCCTGCCCGTGTTGAA 62.243 61.111 0.00 0.00 0.00 2.69
79 80 4.174129 GGTATGTGCGCGGCCAAC 62.174 66.667 8.83 0.00 0.00 3.77
242 253 1.519455 GTCGCTTCCATCGGGACAG 60.519 63.158 0.00 0.00 44.89 3.51
250 261 1.327690 TTAGGGCTCGTCGCTTCCAT 61.328 55.000 2.94 0.00 38.97 3.41
255 266 1.180029 TAGTTTTAGGGCTCGTCGCT 58.820 50.000 0.00 1.70 41.27 4.93
311 339 4.803426 GAGTGGAGCTCCGTGCCG 62.803 72.222 27.43 0.00 44.23 5.69
312 340 3.655810 CTGAGTGGAGCTCCGTGCC 62.656 68.421 27.43 16.22 43.48 5.01
313 341 2.125753 CTGAGTGGAGCTCCGTGC 60.126 66.667 27.43 19.14 43.48 5.34
314 342 2.125753 GCTGAGTGGAGCTCCGTG 60.126 66.667 27.43 15.46 43.48 4.94
315 343 3.753434 CGCTGAGTGGAGCTCCGT 61.753 66.667 27.43 17.57 43.48 4.69
385 473 4.729227 TCCAACTTTTGAACTCAAACCC 57.271 40.909 4.38 0.00 44.56 4.11
387 475 5.410924 AGCTTCCAACTTTTGAACTCAAAC 58.589 37.500 4.38 0.00 44.56 2.93
464 555 4.013050 GAGCAAAAGACTTCCATAGCCTT 58.987 43.478 0.00 0.00 0.00 4.35
465 556 3.009473 TGAGCAAAAGACTTCCATAGCCT 59.991 43.478 0.00 0.00 0.00 4.58
538 629 1.812922 CTGTCATGCACTCCTCGGC 60.813 63.158 0.00 0.00 0.00 5.54
748 844 3.884693 TCGTCGTGGATACTGGCTAAATA 59.115 43.478 0.00 0.00 37.61 1.40
749 845 2.691526 TCGTCGTGGATACTGGCTAAAT 59.308 45.455 0.00 0.00 37.61 1.40
750 846 2.093890 TCGTCGTGGATACTGGCTAAA 58.906 47.619 0.00 0.00 37.61 1.85
751 847 1.402968 GTCGTCGTGGATACTGGCTAA 59.597 52.381 0.00 0.00 37.61 3.09
752 848 1.019673 GTCGTCGTGGATACTGGCTA 58.980 55.000 0.00 0.00 37.61 3.93
753 849 1.807886 GTCGTCGTGGATACTGGCT 59.192 57.895 0.00 0.00 37.61 4.75
754 850 1.585521 CGTCGTCGTGGATACTGGC 60.586 63.158 0.00 0.00 37.61 4.85
755 851 1.063649 CCGTCGTCGTGGATACTGG 59.936 63.158 0.71 0.00 35.01 4.00
756 852 0.522705 CACCGTCGTCGTGGATACTG 60.523 60.000 12.18 0.00 35.01 2.74
757 853 0.674581 TCACCGTCGTCGTGGATACT 60.675 55.000 12.18 0.00 35.01 2.12
758 854 0.522076 GTCACCGTCGTCGTGGATAC 60.522 60.000 12.18 6.63 35.01 2.24
780 876 1.231221 TAAACATGTGGTGTGTCCGC 58.769 50.000 0.00 0.00 41.14 5.54
805 901 4.982241 TGGATTAGAATGACCATCCTCC 57.018 45.455 0.00 0.00 36.83 4.30
806 902 5.182760 GCATTGGATTAGAATGACCATCCTC 59.817 44.000 0.00 0.00 36.83 3.71
807 903 5.075493 GCATTGGATTAGAATGACCATCCT 58.925 41.667 0.00 0.00 36.83 3.24
924 1020 1.118965 TGTCGCATGGGTATCGGGAT 61.119 55.000 9.86 0.00 0.00 3.85
925 1021 1.758906 TGTCGCATGGGTATCGGGA 60.759 57.895 9.86 0.00 0.00 5.14
987 2175 2.459969 TTTGGGAGCCAGAGGTGCA 61.460 57.895 0.00 0.00 33.81 4.57
988 2176 1.973812 GTTTGGGAGCCAGAGGTGC 60.974 63.158 0.00 0.00 33.81 5.01
990 2178 0.555769 TTTGTTTGGGAGCCAGAGGT 59.444 50.000 0.00 0.00 33.81 3.85
991 2179 1.703411 TTTTGTTTGGGAGCCAGAGG 58.297 50.000 0.00 0.00 33.81 3.69
992 2180 4.341366 AAATTTTGTTTGGGAGCCAGAG 57.659 40.909 0.00 0.00 33.81 3.35
993 2181 4.769345 AAAATTTTGTTTGGGAGCCAGA 57.231 36.364 1.75 0.00 33.81 3.86
994 2182 5.610398 AGTAAAATTTTGTTTGGGAGCCAG 58.390 37.500 13.76 0.00 33.81 4.85
1000 2203 8.414778 TGGTAGTGTAGTAAAATTTTGTTTGGG 58.585 33.333 13.76 0.00 0.00 4.12
1076 2281 6.692486 AGTAATCTTGTCTATAATCTGCCGG 58.308 40.000 0.00 0.00 0.00 6.13
1104 2309 0.237498 CGACAGACGCAGACACTACA 59.763 55.000 0.00 0.00 34.51 2.74
1121 2326 1.816863 GAGGGTGGTGAACAGAGCGA 61.817 60.000 0.00 0.00 0.00 4.93
1382 2619 1.792118 CGGATACCCTCGCGATGACA 61.792 60.000 10.36 0.00 0.00 3.58
1469 2712 3.227276 ATACGCAGCCTCCTCGGG 61.227 66.667 0.00 0.00 0.00 5.14
1535 2778 2.426023 GACGGTGAACAGCTGGGT 59.574 61.111 19.93 5.09 0.00 4.51
1570 2813 1.067582 GGCGACGAACCATCCCTAG 59.932 63.158 0.00 0.00 0.00 3.02
1571 2814 3.213264 GGCGACGAACCATCCCTA 58.787 61.111 0.00 0.00 0.00 3.53
1702 2945 1.275291 TCCAGACGTGAGGTGAATTCC 59.725 52.381 2.27 0.00 0.00 3.01
1720 2963 5.567138 AACATGATCGGAAAAGACAATCC 57.433 39.130 0.00 0.00 0.00 3.01
1760 3017 1.234821 GGCCCGATCGAATGCAAATA 58.765 50.000 18.66 0.00 0.00 1.40
1779 3036 1.199097 GTCCCGCAACCTGTTATTGTG 59.801 52.381 0.00 0.00 37.32 3.33
1927 3184 2.362503 TCGTCTCCATCCACGCCT 60.363 61.111 0.00 0.00 35.93 5.52
1958 3215 2.127232 GCTTTGCTGGAACGTCGC 60.127 61.111 0.00 0.00 0.00 5.19
2085 3342 1.086696 AACTAAATCAGCATGCGCGT 58.913 45.000 13.01 0.00 45.49 6.01
2089 3354 3.791353 GGCGTTTAACTAAATCAGCATGC 59.209 43.478 10.51 10.51 34.76 4.06
2105 3370 1.004200 CCTGGTCTTACGGGCGTTT 60.004 57.895 0.00 0.00 0.00 3.60
2184 3727 4.202441 GTCGGGGACTACAGTCAACTATA 58.798 47.826 11.31 0.00 46.47 1.31
2258 3809 2.436646 ATGGCTGCAGCACGTACC 60.437 61.111 37.63 20.78 44.36 3.34
2413 4278 1.750206 TCGTAGCCTAATACGCCAACA 59.250 47.619 1.57 0.00 46.28 3.33
2431 4296 1.726791 GCCATGCGGTTATCATAGTCG 59.273 52.381 0.00 0.00 33.28 4.18
2433 4298 2.494059 GTGCCATGCGGTTATCATAGT 58.506 47.619 0.00 0.00 33.28 2.12
2445 4310 3.494626 CCGGATATATATTCGTGCCATGC 59.505 47.826 19.67 0.00 32.85 4.06
2450 4315 4.110482 GGTCACCGGATATATATTCGTGC 58.890 47.826 19.67 13.36 32.85 5.34
2500 4365 1.106351 TTGCATCCAACGGTGTGCTT 61.106 50.000 15.99 0.00 36.76 3.91
2551 4416 7.095732 CCCGTTCTTTTCTTCTTCTTGTACTAC 60.096 40.741 0.00 0.00 0.00 2.73
2552 4417 6.927381 CCCGTTCTTTTCTTCTTCTTGTACTA 59.073 38.462 0.00 0.00 0.00 1.82
2554 4419 5.049612 CCCCGTTCTTTTCTTCTTCTTGTAC 60.050 44.000 0.00 0.00 0.00 2.90
2555 4420 5.061179 CCCCGTTCTTTTCTTCTTCTTGTA 58.939 41.667 0.00 0.00 0.00 2.41
2557 4422 3.253432 CCCCCGTTCTTTTCTTCTTCTTG 59.747 47.826 0.00 0.00 0.00 3.02
2559 4424 2.709397 TCCCCCGTTCTTTTCTTCTTCT 59.291 45.455 0.00 0.00 0.00 2.85
2560 4425 3.136009 TCCCCCGTTCTTTTCTTCTTC 57.864 47.619 0.00 0.00 0.00 2.87
2562 4427 3.220110 GTTTCCCCCGTTCTTTTCTTCT 58.780 45.455 0.00 0.00 0.00 2.85
2563 4428 2.031420 CGTTTCCCCCGTTCTTTTCTTC 60.031 50.000 0.00 0.00 0.00 2.87
2564 4429 1.951602 CGTTTCCCCCGTTCTTTTCTT 59.048 47.619 0.00 0.00 0.00 2.52
2565 4430 1.134007 ACGTTTCCCCCGTTCTTTTCT 60.134 47.619 0.00 0.00 34.28 2.52
2566 4431 1.002142 CACGTTTCCCCCGTTCTTTTC 60.002 52.381 0.00 0.00 36.17 2.29
2570 4435 1.070275 GTCACGTTTCCCCCGTTCT 59.930 57.895 0.00 0.00 36.17 3.01
2573 4438 3.539791 ACGTCACGTTTCCCCCGT 61.540 61.111 0.00 0.00 36.35 5.28
3552 5424 8.972127 AGTCTATGTATGCTTCGACCATATTAT 58.028 33.333 7.89 8.30 0.00 1.28
3567 5439 8.788806 ACTTTAGAGAATCCGAGTCTATGTATG 58.211 37.037 3.30 0.00 33.66 2.39
3568 5440 8.927675 ACTTTAGAGAATCCGAGTCTATGTAT 57.072 34.615 3.30 0.00 33.66 2.29
3572 5444 7.982354 CCAAAACTTTAGAGAATCCGAGTCTAT 59.018 37.037 0.00 0.00 33.66 1.98
3590 5462 7.577303 TCATATTCTCTGGCTATCCAAAACTT 58.423 34.615 0.00 0.00 42.91 2.66
3612 5566 6.151648 TGCTTGTCTGCTAGCTTAATTTTCAT 59.848 34.615 17.23 0.00 42.51 2.57
3631 5585 5.395546 CCCATAACTATTTGCCATTGCTTGT 60.396 40.000 0.00 0.00 38.71 3.16
3633 5587 4.443315 GCCCATAACTATTTGCCATTGCTT 60.443 41.667 0.00 0.00 38.71 3.91
3641 5595 4.582656 TGTACATGGCCCATAACTATTTGC 59.417 41.667 0.00 0.00 0.00 3.68
3684 5638 2.093921 TCATTGGCATGGCAAATCACAG 60.094 45.455 34.71 20.39 28.48 3.66
3726 5680 6.539173 AGTAGTATGTCAATGGTGAAAACCA 58.461 36.000 0.00 0.00 44.85 3.67
3865 5820 6.054295 CCTCTGAACTAGCTTGCATTAGAAT 58.946 40.000 0.00 0.00 0.00 2.40
3866 5821 5.046304 ACCTCTGAACTAGCTTGCATTAGAA 60.046 40.000 0.00 0.00 0.00 2.10
3881 5836 7.933577 TGGTGATTGATATTATGACCTCTGAAC 59.066 37.037 8.23 0.00 0.00 3.18
4003 5958 2.149578 GGATACGTCTAGCTCGCCTAA 58.850 52.381 0.00 0.00 0.00 2.69
4027 5982 0.102481 GTCGTGGTAGCATCGTCCAT 59.898 55.000 13.72 0.00 33.68 3.41
4064 6019 5.049167 TGAAATCTGTTTCCAACATGTTGC 58.951 37.500 29.42 17.69 42.44 4.17
4085 6040 5.009854 TGCATCGTCATTGTCTTCTATGA 57.990 39.130 0.00 0.00 34.54 2.15
4097 6052 1.496403 CTGCGCAGATGCATCGTCAT 61.496 55.000 33.66 0.24 45.26 3.06
4113 6068 2.043227 AGGAGTTCTAGTATGCCCTGC 58.957 52.381 0.00 0.00 0.00 4.85
4128 6083 3.960102 CTGAGGATCTTGCTTCTAGGAGT 59.040 47.826 0.00 0.00 34.92 3.85
4143 6098 1.997874 GTGGCTGGACCCTGAGGAT 60.998 63.158 0.00 0.00 37.83 3.24
4167 6122 8.522830 TGAAATAAATCTACCAAAAGCTTCTGG 58.477 33.333 17.56 17.56 38.77 3.86
4188 6143 7.418378 TCCTTGGGGTTTTATCATAGTGAAAT 58.582 34.615 0.00 0.00 0.00 2.17
4193 6148 7.226059 AGATTCCTTGGGGTTTTATCATAGT 57.774 36.000 0.00 0.00 0.00 2.12
4195 6150 7.694293 GCCTAGATTCCTTGGGGTTTTATCATA 60.694 40.741 0.00 0.00 36.09 2.15
4197 6152 5.633854 GCCTAGATTCCTTGGGGTTTTATCA 60.634 44.000 0.00 0.00 36.09 2.15
4212 6167 1.763545 ACCTTTCCTCGGCCTAGATTC 59.236 52.381 5.70 0.00 0.00 2.52
4350 6305 4.159693 TCAGCGGCTAGTAGATTCTTTTCA 59.840 41.667 0.26 0.00 0.00 2.69
4386 6341 4.083057 TCTCCGATCAATGACGAGATGATC 60.083 45.833 12.11 12.11 43.75 2.92
4398 6353 3.623060 CGTCAACCAATTCTCCGATCAAT 59.377 43.478 0.00 0.00 0.00 2.57
4478 6433 2.025321 AGTTGCCCGGTCCAATTATCTT 60.025 45.455 0.00 0.00 0.00 2.40
4509 6464 6.353404 TGATACACACACCAAATGAGAGTA 57.647 37.500 0.00 0.00 31.66 2.59
4513 6468 4.869861 TCGATGATACACACACCAAATGAG 59.130 41.667 0.00 0.00 0.00 2.90
4568 6523 6.208988 ACATACTATGTTGTGAGATCACGT 57.791 37.500 8.36 2.11 41.63 4.49
4646 6601 5.793817 TCATATCCAATAGATTGTGGACCG 58.206 41.667 1.78 0.00 46.53 4.79
4672 6627 2.548464 TGCCCTATCCCAAGCAAAAT 57.452 45.000 0.00 0.00 30.97 1.82
4693 6648 5.956068 AACACAATGTTGCCAAACTTTTT 57.044 30.435 0.00 0.00 39.45 1.94
4826 6781 1.349234 GATTTTCCCAATGCACGTGC 58.651 50.000 33.11 33.11 42.50 5.34
4836 6791 1.810151 CGGAAGAAAGCGATTTTCCCA 59.190 47.619 10.46 0.00 45.15 4.37
4837 6792 1.467543 GCGGAAGAAAGCGATTTTCCC 60.468 52.381 10.46 6.77 45.15 3.97
4954 6909 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4956 6911 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4957 6912 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4958 6913 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4959 6914 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4960 6915 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4961 6916 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4962 6917 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4963 6918 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4964 6919 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4965 6920 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4966 6921 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4967 6922 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4968 6923 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4969 6924 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4970 6925 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4971 6926 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4972 6927 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4973 6928 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4974 6929 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4975 6930 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4976 6931 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4977 6932 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4978 6933 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4979 6934 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4980 6935 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4981 6936 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4982 6937 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4983 6938 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
4984 6939 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4985 6940 1.535028 CTTGTGTGTGTGTGTGTGTGT 59.465 47.619 0.00 0.00 0.00 3.72
4986 6941 1.535028 ACTTGTGTGTGTGTGTGTGTG 59.465 47.619 0.00 0.00 0.00 3.82
4987 6942 1.890876 ACTTGTGTGTGTGTGTGTGT 58.109 45.000 0.00 0.00 0.00 3.72
4988 6943 2.987413 AACTTGTGTGTGTGTGTGTG 57.013 45.000 0.00 0.00 0.00 3.82
4989 6944 5.216648 GTTTAAACTTGTGTGTGTGTGTGT 58.783 37.500 11.18 0.00 0.00 3.72
4990 6945 4.619336 GGTTTAAACTTGTGTGTGTGTGTG 59.381 41.667 17.50 0.00 0.00 3.82
4991 6946 4.278669 TGGTTTAAACTTGTGTGTGTGTGT 59.721 37.500 17.50 0.00 0.00 3.72
4992 6947 4.619336 GTGGTTTAAACTTGTGTGTGTGTG 59.381 41.667 17.50 0.00 0.00 3.82
4993 6948 4.278669 TGTGGTTTAAACTTGTGTGTGTGT 59.721 37.500 17.50 0.00 0.00 3.72
4994 6949 4.619336 GTGTGGTTTAAACTTGTGTGTGTG 59.381 41.667 17.50 0.00 0.00 3.82
4995 6950 4.278669 TGTGTGGTTTAAACTTGTGTGTGT 59.721 37.500 17.50 0.00 0.00 3.72
4996 6951 4.799678 TGTGTGGTTTAAACTTGTGTGTG 58.200 39.130 17.50 0.00 0.00 3.82
4997 6952 5.224135 GTTGTGTGGTTTAAACTTGTGTGT 58.776 37.500 17.50 0.00 0.00 3.72
4998 6953 4.623595 GGTTGTGTGGTTTAAACTTGTGTG 59.376 41.667 17.50 0.00 0.00 3.82
4999 6954 4.616373 CGGTTGTGTGGTTTAAACTTGTGT 60.616 41.667 17.50 0.00 0.00 3.72
5000 6955 3.854809 CGGTTGTGTGGTTTAAACTTGTG 59.145 43.478 17.50 0.00 0.00 3.33
5001 6956 3.506844 ACGGTTGTGTGGTTTAAACTTGT 59.493 39.130 17.50 1.87 0.00 3.16
5002 6957 4.099380 ACGGTTGTGTGGTTTAAACTTG 57.901 40.909 17.50 1.34 0.00 3.16
5036 6991 2.810400 CGGATTGTGTGAGTGAAACCCT 60.810 50.000 0.00 0.00 37.80 4.34
5041 6996 0.605319 GGGCGGATTGTGTGAGTGAA 60.605 55.000 0.00 0.00 0.00 3.18
5077 7035 4.722700 GATGGTGGCCCACGTGCT 62.723 66.667 10.91 0.00 45.65 4.40
5117 7075 7.070946 AGGAGCATGAGATGAATTAGAGAAGAA 59.929 37.037 0.00 0.00 0.00 2.52
5131 7089 1.817087 ACATGGGAGGAGCATGAGAT 58.183 50.000 0.00 0.00 0.00 2.75
5171 7129 0.668401 GTGTCAACGACCCCTAACGG 60.668 60.000 0.00 0.00 0.00 4.44
5276 7235 7.446931 TGTTTGTTTGAATACTGAGCCATCTTA 59.553 33.333 0.00 0.00 0.00 2.10
5313 7272 3.281727 TGGTTGTATCCAGGATCTTGC 57.718 47.619 4.75 0.00 33.19 4.01
5336 7296 8.830580 CCTCACTCGATGTATTTTCATTGTATT 58.169 33.333 0.00 0.00 32.68 1.89
5383 7343 1.347062 TGAGGTGGCTCATGTGTACA 58.653 50.000 0.00 0.00 0.00 2.90
5384 7344 2.698855 ATGAGGTGGCTCATGTGTAC 57.301 50.000 0.00 0.00 41.95 2.90
5397 7357 4.901849 TGTAAGCCATAGAGCTAATGAGGT 59.098 41.667 9.58 3.89 44.11 3.85
5435 7395 9.914131 AAATCATTGGCTAGTAGTTTTTCTTTC 57.086 29.630 0.00 0.00 0.00 2.62
5471 7431 1.021390 CCGCCACGAGCTCAATTCTT 61.021 55.000 15.40 0.00 40.39 2.52
5473 7433 1.447838 TCCGCCACGAGCTCAATTC 60.448 57.895 15.40 0.00 40.39 2.17
5486 7446 0.885196 CTGCTAGAGATAGGTCCGCC 59.115 60.000 0.00 0.00 0.00 6.13
5488 7448 1.610363 TGCTGCTAGAGATAGGTCCG 58.390 55.000 0.00 0.00 0.00 4.79
5522 7482 7.348080 TCGATATGATTGTCTTACTCTGGTT 57.652 36.000 0.00 0.00 0.00 3.67
5575 7535 2.754552 TGAAGTGTTGTTGCTCTTGCTT 59.245 40.909 0.00 0.00 40.48 3.91
5630 7590 7.847564 GTCAATCTTTTCATCTTTTGTTTGCAC 59.152 33.333 0.00 0.00 0.00 4.57
5634 7594 9.434420 TGTTGTCAATCTTTTCATCTTTTGTTT 57.566 25.926 0.00 0.00 0.00 2.83
5638 7598 7.225341 GGCTTGTTGTCAATCTTTTCATCTTTT 59.775 33.333 0.00 0.00 32.82 2.27
5639 7599 6.703165 GGCTTGTTGTCAATCTTTTCATCTTT 59.297 34.615 0.00 0.00 32.82 2.52
5640 7600 6.183360 TGGCTTGTTGTCAATCTTTTCATCTT 60.183 34.615 0.00 0.00 32.82 2.40
5641 7601 5.302568 TGGCTTGTTGTCAATCTTTTCATCT 59.697 36.000 0.00 0.00 32.82 2.90
5642 7602 5.531634 TGGCTTGTTGTCAATCTTTTCATC 58.468 37.500 0.00 0.00 32.82 2.92
5643 7603 5.534207 TGGCTTGTTGTCAATCTTTTCAT 57.466 34.783 0.00 0.00 32.82 2.57
5644 7604 4.998671 TGGCTTGTTGTCAATCTTTTCA 57.001 36.364 0.00 0.00 32.82 2.69
5645 7605 5.531634 TGATGGCTTGTTGTCAATCTTTTC 58.468 37.500 0.00 0.00 32.16 2.29
5652 7612 2.618241 GTGTCTGATGGCTTGTTGTCAA 59.382 45.455 0.00 0.00 32.16 3.18
5657 7617 1.229428 CACGTGTCTGATGGCTTGTT 58.771 50.000 7.58 0.00 0.00 2.83
5673 7633 5.403246 GTGATTAGATACCATAGAGGCACG 58.597 45.833 0.00 0.00 43.14 5.34
5690 7650 0.958382 GGCAAGTGGCGTGGTGATTA 60.958 55.000 0.00 0.00 46.16 1.75
5706 7666 0.960861 TCTCTTCTTCGAGCTCGGCA 60.961 55.000 33.98 20.57 40.29 5.69


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

AutoCloner maintained by Alex Coulton.