Multiple sequence alignment - TraesCS2A01G090300

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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 TraesCS2A01G090300 chr2A 100.000 4849 0 0 1 4849 43196872 43201720 0.000000e+00 8955
1 TraesCS2A01G090300 chr2A 92.086 1251 95 2 2574 3824 43820044 43818798 0.000000e+00 1759
2 TraesCS2A01G090300 chr2A 92.006 1251 95 3 2574 3824 43902308 43901063 0.000000e+00 1751
3 TraesCS2A01G090300 chr2A 91.847 1251 99 1 2574 3824 43844332 43843085 0.000000e+00 1742
4 TraesCS2A01G090300 chr2A 88.521 1420 143 12 486 1892 43940311 43938899 0.000000e+00 1701
5 TraesCS2A01G090300 chr2A 92.550 698 51 1 1888 2584 43928704 43928007 0.000000e+00 1000
6 TraesCS2A01G090300 chr2A 89.059 393 43 0 100 492 43940729 43940337 5.640000e-134 488
7 TraesCS2A01G090300 chr2A 81.616 359 49 8 4500 4849 43290738 43291088 1.030000e-71 281
8 TraesCS2A01G090300 chr2A 79.330 358 61 9 4498 4849 43842121 43841771 6.270000e-59 239
9 TraesCS2A01G090300 chr2A 84.000 225 36 0 4625 4849 43909694 43909470 2.940000e-52 217
10 TraesCS2A01G090300 chr2A 83.628 226 37 0 4624 4849 43899975 43899750 3.800000e-51 213
11 TraesCS2A01G090300 chr2A 84.375 160 23 2 4051 4209 44094215 44094057 6.500000e-34 156
12 TraesCS2A01G090300 chr2B 91.150 3514 266 27 490 3986 66751746 66755231 0.000000e+00 4724
13 TraesCS2A01G090300 chr2B 89.024 492 28 6 1 486 66751239 66751710 1.940000e-163 586
14 TraesCS2A01G090300 chr2B 84.731 334 36 10 4525 4849 66780027 66780354 2.180000e-83 320
15 TraesCS2A01G090300 chr2B 82.192 365 52 4 4498 4849 66757663 66758027 7.890000e-78 302
16 TraesCS2A01G090300 chr2D 90.938 3134 243 21 859 3986 38370645 38373743 0.000000e+00 4176
17 TraesCS2A01G090300 chr2D 97.575 1237 27 1 1513 2749 38197345 38198578 0.000000e+00 2115
18 TraesCS2A01G090300 chr2D 97.278 845 23 0 2978 3822 38198571 38199415 0.000000e+00 1434
19 TraesCS2A01G090300 chr2D 94.470 868 23 6 651 1516 38196420 38197264 0.000000e+00 1314
20 TraesCS2A01G090300 chr2D 94.761 439 23 0 54 492 38195759 38196197 0.000000e+00 684
21 TraesCS2A01G090300 chr2D 90.488 389 34 2 100 486 38358797 38359184 1.200000e-140 510
22 TraesCS2A01G090300 chr2D 90.181 387 28 5 486 866 38359216 38359598 3.370000e-136 496
23 TraesCS2A01G090300 chr2D 83.747 363 47 3 4498 4848 38374482 38374844 2.800000e-87 333
24 TraesCS2A01G090300 chr2D 96.667 180 6 0 486 665 38196223 38196402 2.840000e-77 300
25 TraesCS2A01G090300 chr2D 85.036 274 30 4 4582 4849 38200582 38200850 8.000000e-68 268
26 TraesCS2A01G090300 chr2D 84.375 160 23 2 4051 4209 39400072 39400230 6.500000e-34 156
27 TraesCS2A01G090300 chr1D 83.063 3271 447 49 488 3712 248112686 248109477 0.000000e+00 2872
28 TraesCS2A01G090300 chr1D 83.285 2064 277 36 488 2540 248203099 248201093 0.000000e+00 1838
29 TraesCS2A01G090300 chr1B 83.341 2113 287 35 488 2587 329942017 329944077 0.000000e+00 1892
30 TraesCS2A01G090300 chr1B 85.169 1126 160 5 2589 3712 329944106 329945226 0.000000e+00 1147
31 TraesCS2A01G090300 chr1A 82.938 2110 288 38 488 2583 299103800 299105851 0.000000e+00 1836
32 TraesCS2A01G090300 chr1A 84.411 1129 166 6 2589 3712 299105884 299107007 0.000000e+00 1101


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 TraesCS2A01G090300 chr2A 43196872 43201720 4848 False 8955.000000 8955 100.000000 1 4849 1 chr2A.!!$F1 4848
1 TraesCS2A01G090300 chr2A 43818798 43820044 1246 True 1759.000000 1759 92.086000 2574 3824 1 chr2A.!!$R1 1250
2 TraesCS2A01G090300 chr2A 43938899 43940729 1830 True 1094.500000 1701 88.790000 100 1892 2 chr2A.!!$R7 1792
3 TraesCS2A01G090300 chr2A 43928007 43928704 697 True 1000.000000 1000 92.550000 1888 2584 1 chr2A.!!$R3 696
4 TraesCS2A01G090300 chr2A 43841771 43844332 2561 True 990.500000 1742 85.588500 2574 4849 2 chr2A.!!$R5 2275
5 TraesCS2A01G090300 chr2A 43899750 43902308 2558 True 982.000000 1751 87.817000 2574 4849 2 chr2A.!!$R6 2275
6 TraesCS2A01G090300 chr2B 66751239 66758027 6788 False 1870.666667 4724 87.455333 1 4849 3 chr2B.!!$F2 4848
7 TraesCS2A01G090300 chr2D 38370645 38374844 4199 False 2254.500000 4176 87.342500 859 4848 2 chr2D.!!$F4 3989
8 TraesCS2A01G090300 chr2D 38195759 38200850 5091 False 1019.166667 2115 94.297833 54 4849 6 chr2D.!!$F2 4795
9 TraesCS2A01G090300 chr2D 38358797 38359598 801 False 503.000000 510 90.334500 100 866 2 chr2D.!!$F3 766
10 TraesCS2A01G090300 chr1D 248109477 248112686 3209 True 2872.000000 2872 83.063000 488 3712 1 chr1D.!!$R1 3224
11 TraesCS2A01G090300 chr1D 248201093 248203099 2006 True 1838.000000 1838 83.285000 488 2540 1 chr1D.!!$R2 2052
12 TraesCS2A01G090300 chr1B 329942017 329945226 3209 False 1519.500000 1892 84.255000 488 3712 2 chr1B.!!$F1 3224
13 TraesCS2A01G090300 chr1A 299103800 299107007 3207 False 1468.500000 1836 83.674500 488 3712 2 chr1A.!!$F1 3224

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
907 988 0.465824 AGCTTCTCATGCATCTGGCC 60.466 55.0 0.0 0.0 43.89 5.36 F
2196 2379 1.123077 ACGGCTATGGATTGCTGAGA 58.877 50.0 8.6 0.0 38.11 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2751 2980 0.179116 CTGACATCCAGCGTCTCCAG 60.179 60.0 0.00 0.0 35.89 3.86 R
3897 4228 0.036732 TCTTCAAGCTTGCCACGGAT 59.963 50.0 21.99 0.0 0.00 4.18 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
59 60 2.758979 CAATCAAGGGAAGAGCAAGCAT 59.241 45.455 0.00 0.00 0.00 3.79
149 150 0.790207 CGAGGTCGATTTGTGGTGTG 59.210 55.000 0.00 0.00 43.02 3.82
182 183 4.649674 CACTACTTCCCTAATGGTAGAGCA 59.350 45.833 0.00 0.00 35.20 4.26
184 185 5.905913 ACTACTTCCCTAATGGTAGAGCAAT 59.094 40.000 0.00 0.00 35.20 3.56
216 217 2.417933 ACACAAGATGAATTCAGCGAGC 59.582 45.455 17.42 3.03 37.34 5.03
646 694 2.224161 GGTGAGTCTTGAGCAGTCAGTT 60.224 50.000 0.00 0.00 32.98 3.16
700 780 3.165071 GGTGGAAACTTTGGTCCATGAT 58.835 45.455 0.00 0.00 45.50 2.45
701 781 3.056607 GGTGGAAACTTTGGTCCATGATG 60.057 47.826 0.00 0.00 45.50 3.07
702 782 3.826157 GTGGAAACTTTGGTCCATGATGA 59.174 43.478 0.00 0.00 45.50 2.92
736 817 2.621998 GGACATGGATGAATTGCAGGAG 59.378 50.000 0.00 0.00 31.27 3.69
757 838 6.500751 AGGAGAAACTAATCCAGGACTACAAA 59.499 38.462 0.00 0.00 38.12 2.83
832 913 1.026718 CAGCCTCCGTTGATTGTCCC 61.027 60.000 0.00 0.00 0.00 4.46
853 934 5.492524 TCCCCTGATTTATGAGGAGAAAACT 59.507 40.000 0.00 0.00 32.39 2.66
907 988 0.465824 AGCTTCTCATGCATCTGGCC 60.466 55.000 0.00 0.00 43.89 5.36
940 1021 5.298347 GCGAGGCTAAAGTTGGTATCTATT 58.702 41.667 0.00 0.00 0.00 1.73
956 1037 2.503765 TCTATTGTCGGAATGGAAGGCA 59.496 45.455 0.00 0.00 0.00 4.75
1193 1275 8.903723 CACGAAGAGGTATTTCTCGTTTATATC 58.096 37.037 0.00 0.00 38.71 1.63
1281 1363 2.522836 ATGCAGACTGAGGCTATTCG 57.477 50.000 6.65 0.00 0.00 3.34
1853 2036 3.033184 ACGCCCAATTGATTTCATCCAT 58.967 40.909 7.12 0.00 0.00 3.41
2052 2235 3.073678 TCAACATCAGACCAATGTTCCG 58.926 45.455 0.00 0.00 43.62 4.30
2133 2316 9.706691 CTTTGAAGTCTTGTCTTGTATACCTTA 57.293 33.333 0.00 0.00 0.00 2.69
2196 2379 1.123077 ACGGCTATGGATTGCTGAGA 58.877 50.000 8.60 0.00 38.11 3.27
2213 2396 6.176183 TGCTGAGAGATTTTTCTTAGGAAGG 58.824 40.000 0.00 0.00 32.92 3.46
2327 2518 1.831106 CAGGCTGTAGGATGTGTGGTA 59.169 52.381 6.28 0.00 0.00 3.25
2423 2622 2.963782 GTCCGGACTAACTCCATGGTAT 59.036 50.000 27.64 1.68 39.39 2.73
2455 2654 2.357009 GGTTCTCATTCGATTGCTGCAT 59.643 45.455 1.84 0.00 0.00 3.96
2751 2980 1.260544 AATTGGAAAGCTGGAGCACC 58.739 50.000 0.65 0.00 45.16 5.01
2773 3002 2.887568 GACGCTGGATGTCAGGCG 60.888 66.667 14.03 14.03 43.54 5.52
3088 3317 3.135348 TCCCTATCTCTGCATTGTCTTGG 59.865 47.826 0.00 0.00 0.00 3.61
3662 3891 2.892334 CTCCGCCAACACACCAACG 61.892 63.158 0.00 0.00 0.00 4.10
3757 3986 4.527564 GTGACAACGATCACCAAGAAAAG 58.472 43.478 7.66 0.00 42.74 2.27
3761 3990 3.059352 ACGATCACCAAGAAAAGGAGG 57.941 47.619 0.00 0.00 0.00 4.30
3779 4008 3.350833 GAGGTTGAGCAGATGGTTGATT 58.649 45.455 0.00 0.00 0.00 2.57
3891 4131 3.357079 GTGCAGGCCACGGAACAG 61.357 66.667 5.01 0.00 34.22 3.16
3897 4228 1.525077 GGCCACGGAACAGAACACA 60.525 57.895 0.00 0.00 0.00 3.72
3911 4242 3.672293 CACATCCGTGGCAAGCTT 58.328 55.556 0.00 0.00 39.64 3.74
3941 4272 2.855963 CGCACGTATAGAAATCCAACGT 59.144 45.455 0.00 0.00 46.72 3.99
3956 4287 6.811253 ATCCAACGTGAAATTAAACTAGCA 57.189 33.333 0.00 0.00 0.00 3.49
3965 4296 6.358030 GTGAAATTAAACTAGCATATGCAGCG 59.642 38.462 28.62 17.73 45.16 5.18
3970 4301 0.319728 CTAGCATATGCAGCGGGAGT 59.680 55.000 28.62 8.65 45.16 3.85
3980 4311 2.042230 GCGGGAGTAAGGGAGGGA 60.042 66.667 0.00 0.00 0.00 4.20
3981 4312 2.433146 GCGGGAGTAAGGGAGGGAC 61.433 68.421 0.00 0.00 0.00 4.46
3982 4313 1.001248 CGGGAGTAAGGGAGGGACA 59.999 63.158 0.00 0.00 0.00 4.02
3983 4314 1.043673 CGGGAGTAAGGGAGGGACAG 61.044 65.000 0.00 0.00 0.00 3.51
3984 4315 0.691413 GGGAGTAAGGGAGGGACAGG 60.691 65.000 0.00 0.00 0.00 4.00
3985 4316 0.338814 GGAGTAAGGGAGGGACAGGA 59.661 60.000 0.00 0.00 0.00 3.86
3986 4317 1.062044 GGAGTAAGGGAGGGACAGGAT 60.062 57.143 0.00 0.00 0.00 3.24
3987 4318 2.321719 GAGTAAGGGAGGGACAGGATC 58.678 57.143 0.00 0.00 0.00 3.36
4043 4415 7.893833 TCCCTATCGAGAAATATATCTCCACAA 59.106 37.037 0.00 0.00 42.34 3.33
4049 4421 5.933617 AGAAATATATCTCCACAAGCTGCA 58.066 37.500 1.02 0.00 0.00 4.41
4055 4427 0.108472 CTCCACAAGCTGCATCTCGA 60.108 55.000 1.02 0.00 0.00 4.04
4094 4466 3.356529 ACATCCTCGCCTGAATCTTTT 57.643 42.857 0.00 0.00 0.00 2.27
4111 4483 9.927668 TGAATCTTTTCAGTCTTTTGTTCTTTT 57.072 25.926 0.00 0.00 36.94 2.27
4148 4526 4.571919 AGTTGTTATTAGCTGCACGGTTA 58.428 39.130 1.02 0.00 0.00 2.85
4152 4530 4.269123 TGTTATTAGCTGCACGGTTAATCG 59.731 41.667 6.57 6.57 0.00 3.34
4167 4545 5.277925 CGGTTAATCGTGGTAAGTTTGGTTT 60.278 40.000 0.00 0.00 0.00 3.27
4169 4547 7.077605 GGTTAATCGTGGTAAGTTTGGTTTAC 58.922 38.462 0.00 0.00 0.00 2.01
4188 4567 6.255237 GGTTTACTATTCTAAGTTCAGGCGAC 59.745 42.308 0.00 0.00 0.00 5.19
4197 4576 2.032634 TTCAGGCGACGCAATCACC 61.033 57.895 23.09 2.46 0.00 4.02
4204 4583 3.599285 GACGCAATCACCGACCCCA 62.599 63.158 0.00 0.00 0.00 4.96
4211 4590 1.067295 ATCACCGACCCCATATGCAT 58.933 50.000 3.79 3.79 0.00 3.96
4212 4591 0.108396 TCACCGACCCCATATGCATG 59.892 55.000 10.16 0.00 0.00 4.06
4214 4593 1.071542 CACCGACCCCATATGCATGTA 59.928 52.381 10.16 0.00 0.00 2.29
4215 4594 1.071699 ACCGACCCCATATGCATGTAC 59.928 52.381 10.16 0.00 0.00 2.90
4216 4595 1.610624 CCGACCCCATATGCATGTACC 60.611 57.143 10.16 0.00 0.00 3.34
4220 4599 2.782925 ACCCCATATGCATGTACCTTGA 59.217 45.455 10.16 0.00 0.00 3.02
4221 4600 3.149196 CCCCATATGCATGTACCTTGAC 58.851 50.000 10.16 0.00 0.00 3.18
4222 4601 3.181440 CCCCATATGCATGTACCTTGACT 60.181 47.826 10.16 0.00 0.00 3.41
4223 4602 3.817084 CCCATATGCATGTACCTTGACTG 59.183 47.826 10.16 0.00 0.00 3.51
4224 4603 4.444733 CCCATATGCATGTACCTTGACTGA 60.445 45.833 10.16 0.00 0.00 3.41
4225 4604 5.311265 CCATATGCATGTACCTTGACTGAT 58.689 41.667 10.16 0.00 0.00 2.90
4236 4615 5.636903 ACCTTGACTGATATAGCCATTGT 57.363 39.130 0.00 0.00 0.00 2.71
4247 4626 8.201242 TGATATAGCCATTGTAATCACAGGTA 57.799 34.615 0.00 0.00 35.67 3.08
4253 4632 7.322664 AGCCATTGTAATCACAGGTAATTTTG 58.677 34.615 0.00 0.00 35.67 2.44
4255 4634 7.610865 CCATTGTAATCACAGGTAATTTTGGT 58.389 34.615 0.00 0.00 35.67 3.67
4256 4635 7.759433 CCATTGTAATCACAGGTAATTTTGGTC 59.241 37.037 0.00 0.00 35.67 4.02
4257 4636 6.827586 TGTAATCACAGGTAATTTTGGTCC 57.172 37.500 0.00 0.00 0.00 4.46
4258 4637 6.307776 TGTAATCACAGGTAATTTTGGTCCA 58.692 36.000 0.00 0.00 0.00 4.02
4259 4638 6.778069 TGTAATCACAGGTAATTTTGGTCCAA 59.222 34.615 0.00 0.00 0.00 3.53
4260 4639 5.982890 ATCACAGGTAATTTTGGTCCAAG 57.017 39.130 4.09 0.00 0.00 3.61
4261 4640 4.798882 TCACAGGTAATTTTGGTCCAAGT 58.201 39.130 4.09 0.00 0.00 3.16
4262 4641 5.942961 TCACAGGTAATTTTGGTCCAAGTA 58.057 37.500 4.09 0.00 0.00 2.24
4263 4642 6.548321 TCACAGGTAATTTTGGTCCAAGTAT 58.452 36.000 4.09 0.14 0.00 2.12
4264 4643 7.007723 TCACAGGTAATTTTGGTCCAAGTATT 58.992 34.615 4.09 10.92 0.00 1.89
4265 4644 7.507616 TCACAGGTAATTTTGGTCCAAGTATTT 59.492 33.333 15.32 7.23 0.00 1.40
4266 4645 8.147704 CACAGGTAATTTTGGTCCAAGTATTTT 58.852 33.333 15.32 5.89 0.00 1.82
4276 4655 6.843752 TGGTCCAAGTATTTTAAGTTCAGGA 58.156 36.000 0.00 0.00 0.00 3.86
4277 4656 7.466804 TGGTCCAAGTATTTTAAGTTCAGGAT 58.533 34.615 0.00 0.00 0.00 3.24
4281 4660 8.167392 TCCAAGTATTTTAAGTTCAGGATGGAA 58.833 33.333 0.00 0.00 36.16 3.53
4283 4662 9.793252 CAAGTATTTTAAGTTCAGGATGGAATG 57.207 33.333 0.00 0.00 36.16 2.67
4288 6362 8.885494 TTTTAAGTTCAGGATGGAATGTTTTG 57.115 30.769 0.00 0.00 36.16 2.44
4293 6367 5.867903 TCAGGATGGAATGTTTTGTTTGT 57.132 34.783 0.00 0.00 36.16 2.83
4310 7063 4.023279 TGTTTGTTTGCACTATGTAGCTGG 60.023 41.667 0.00 0.00 0.00 4.85
4315 7068 5.353956 TGTTTGCACTATGTAGCTGGTAATG 59.646 40.000 0.00 0.00 0.00 1.90
4341 7094 1.867233 AGCATGTTGACGACAGTTGTC 59.133 47.619 13.53 13.53 42.62 3.18
4355 7109 8.064336 ACGACAGTTGTCCTTCTATATAAAGT 57.936 34.615 6.68 0.00 41.86 2.66
4385 7139 6.765512 CCTGAAGGCCTATTCTCTAGAAAAAG 59.234 42.308 5.16 0.00 37.61 2.27
4390 7144 9.760926 AAGGCCTATTCTCTAGAAAAAGAAAAT 57.239 29.630 5.16 0.00 37.61 1.82
4402 7156 7.838771 AGAAAAAGAAAATAGCCATTGCATC 57.161 32.000 0.00 0.00 41.13 3.91
4407 7161 2.936919 AATAGCCATTGCATCGGAGA 57.063 45.000 6.11 0.00 41.13 3.71
4409 7163 2.936919 TAGCCATTGCATCGGAGAAT 57.063 45.000 6.11 0.00 41.13 2.40
4410 7164 1.315690 AGCCATTGCATCGGAGAATG 58.684 50.000 6.11 0.00 41.13 2.67
4411 7165 0.313043 GCCATTGCATCGGAGAATGG 59.687 55.000 16.38 16.38 46.11 3.16
4412 7166 0.313043 CCATTGCATCGGAGAATGGC 59.687 55.000 11.23 0.00 43.58 4.40
4414 7168 1.168407 ATTGCATCGGAGAATGGCGG 61.168 55.000 0.00 0.00 43.58 6.13
4415 7169 3.654020 GCATCGGAGAATGGCGGC 61.654 66.667 0.00 0.00 43.58 6.53
4416 7170 2.203056 CATCGGAGAATGGCGGCA 60.203 61.111 16.34 16.34 43.58 5.69
4418 7172 1.819632 ATCGGAGAATGGCGGCAAC 60.820 57.895 18.31 13.62 43.58 4.17
4430 7184 4.481112 GGCAACGGCGGCTTCATG 62.481 66.667 13.24 1.56 42.47 3.07
4431 7185 3.430862 GCAACGGCGGCTTCATGA 61.431 61.111 13.24 0.00 0.00 3.07
4432 7186 2.480555 CAACGGCGGCTTCATGAC 59.519 61.111 13.24 0.00 0.00 3.06
4433 7187 2.031919 AACGGCGGCTTCATGACA 59.968 55.556 13.24 0.00 0.00 3.58
4434 7188 1.377202 AACGGCGGCTTCATGACAT 60.377 52.632 13.24 0.00 0.00 3.06
4435 7189 1.369091 AACGGCGGCTTCATGACATC 61.369 55.000 13.24 0.00 0.00 3.06
4436 7190 1.522355 CGGCGGCTTCATGACATCT 60.522 57.895 7.61 0.00 0.00 2.90
4437 7191 1.091771 CGGCGGCTTCATGACATCTT 61.092 55.000 7.61 0.00 0.00 2.40
4438 7192 0.659957 GGCGGCTTCATGACATCTTC 59.340 55.000 0.00 0.00 0.00 2.87
4439 7193 1.372582 GCGGCTTCATGACATCTTCA 58.627 50.000 0.00 0.00 39.11 3.02
4440 7194 1.329906 GCGGCTTCATGACATCTTCAG 59.670 52.381 0.00 0.00 37.77 3.02
4441 7195 2.625737 CGGCTTCATGACATCTTCAGT 58.374 47.619 0.00 0.00 37.77 3.41
4442 7196 3.785486 CGGCTTCATGACATCTTCAGTA 58.215 45.455 0.00 0.00 37.77 2.74
4443 7197 4.375272 CGGCTTCATGACATCTTCAGTAT 58.625 43.478 0.00 0.00 37.77 2.12
4444 7198 4.813161 CGGCTTCATGACATCTTCAGTATT 59.187 41.667 0.00 0.00 37.77 1.89
4445 7199 5.277202 CGGCTTCATGACATCTTCAGTATTG 60.277 44.000 0.00 0.00 37.77 1.90
4446 7200 5.819379 GGCTTCATGACATCTTCAGTATTGA 59.181 40.000 0.00 0.00 37.77 2.57
4447 7201 6.238320 GGCTTCATGACATCTTCAGTATTGAC 60.238 42.308 0.00 0.00 37.77 3.18
4448 7202 6.314648 GCTTCATGACATCTTCAGTATTGACA 59.685 38.462 0.00 0.00 37.77 3.58
4449 7203 7.465647 GCTTCATGACATCTTCAGTATTGACAG 60.466 40.741 0.00 0.00 37.77 3.51
4450 7204 7.174107 TCATGACATCTTCAGTATTGACAGA 57.826 36.000 0.00 0.00 37.77 3.41
4451 7205 7.263496 TCATGACATCTTCAGTATTGACAGAG 58.737 38.462 0.00 0.00 37.77 3.35
4452 7206 5.414360 TGACATCTTCAGTATTGACAGAGC 58.586 41.667 0.00 0.00 31.71 4.09
4453 7207 5.047092 TGACATCTTCAGTATTGACAGAGCA 60.047 40.000 0.00 0.00 31.71 4.26
4454 7208 5.798132 ACATCTTCAGTATTGACAGAGCAA 58.202 37.500 0.00 0.00 31.71 3.91
4455 7209 5.641209 ACATCTTCAGTATTGACAGAGCAAC 59.359 40.000 0.00 0.00 31.71 4.17
4456 7210 4.569943 TCTTCAGTATTGACAGAGCAACC 58.430 43.478 0.00 0.00 31.71 3.77
4457 7211 4.040339 TCTTCAGTATTGACAGAGCAACCA 59.960 41.667 0.00 0.00 31.71 3.67
4458 7212 4.558226 TCAGTATTGACAGAGCAACCAT 57.442 40.909 0.00 0.00 0.00 3.55
4459 7213 4.910195 TCAGTATTGACAGAGCAACCATT 58.090 39.130 0.00 0.00 0.00 3.16
4460 7214 4.937620 TCAGTATTGACAGAGCAACCATTC 59.062 41.667 0.00 0.00 0.00 2.67
4461 7215 4.940046 CAGTATTGACAGAGCAACCATTCT 59.060 41.667 0.00 0.00 0.00 2.40
4462 7216 4.940046 AGTATTGACAGAGCAACCATTCTG 59.060 41.667 0.27 0.27 44.93 3.02
4467 7221 2.787994 CAGAGCAACCATTCTGTTCCT 58.212 47.619 0.00 0.00 36.82 3.36
4468 7222 2.486982 CAGAGCAACCATTCTGTTCCTG 59.513 50.000 0.00 0.00 36.82 3.86
4469 7223 2.373169 AGAGCAACCATTCTGTTCCTGA 59.627 45.455 0.00 0.00 0.00 3.86
4470 7224 3.009916 AGAGCAACCATTCTGTTCCTGAT 59.990 43.478 0.00 0.00 0.00 2.90
4471 7225 3.087031 AGCAACCATTCTGTTCCTGATG 58.913 45.455 0.00 0.00 0.00 3.07
4472 7226 2.821969 GCAACCATTCTGTTCCTGATGT 59.178 45.455 0.00 0.00 0.00 3.06
4473 7227 4.009675 GCAACCATTCTGTTCCTGATGTA 58.990 43.478 0.00 0.00 0.00 2.29
4474 7228 4.641989 GCAACCATTCTGTTCCTGATGTAT 59.358 41.667 0.00 0.00 0.00 2.29
4475 7229 5.449588 GCAACCATTCTGTTCCTGATGTATG 60.450 44.000 0.00 0.00 0.00 2.39
4476 7230 4.785301 ACCATTCTGTTCCTGATGTATGG 58.215 43.478 0.00 0.00 37.79 2.74
4477 7231 4.228210 ACCATTCTGTTCCTGATGTATGGT 59.772 41.667 0.00 0.00 39.60 3.55
4478 7232 5.428457 ACCATTCTGTTCCTGATGTATGGTA 59.572 40.000 0.00 0.00 41.85 3.25
4479 7233 5.994054 CCATTCTGTTCCTGATGTATGGTAG 59.006 44.000 0.00 0.00 0.00 3.18
4480 7234 5.614324 TTCTGTTCCTGATGTATGGTAGG 57.386 43.478 0.00 0.00 0.00 3.18
4483 7237 3.118408 TGTTCCTGATGTATGGTAGGTGC 60.118 47.826 0.00 0.00 0.00 5.01
4508 7601 3.470709 CAGTCCATGTATTGGTAGCCAG 58.529 50.000 0.00 0.00 46.52 4.85
4513 7606 4.289410 TCCATGTATTGGTAGCCAGCATAT 59.711 41.667 0.00 0.00 46.52 1.78
4522 7615 4.019051 TGGTAGCCAGCATATGCAGATTAT 60.019 41.667 28.62 11.99 45.16 1.28
4526 7619 4.015084 GCCAGCATATGCAGATTATTCCT 58.985 43.478 28.62 1.58 45.16 3.36
4530 7623 7.088905 CCAGCATATGCAGATTATTCCTTTTC 58.911 38.462 28.62 0.00 45.16 2.29
4551 7644 0.104304 GGGTTGCGATCGGTGATACT 59.896 55.000 18.30 0.00 0.00 2.12
4553 7646 1.209128 GTTGCGATCGGTGATACTGG 58.791 55.000 18.30 0.00 0.00 4.00
4555 7648 1.067416 GCGATCGGTGATACTGGCA 59.933 57.895 18.30 0.00 0.00 4.92
4580 7677 2.290093 GCTTCATTGATGCTAGCTGGTC 59.710 50.000 17.23 11.74 34.50 4.02
4602 7699 4.935205 TCGACAAGGTTATTCACAAGGATG 59.065 41.667 0.00 0.00 0.00 3.51
4615 7712 2.040813 ACAAGGATGGTCACATTGCTCT 59.959 45.455 0.00 0.00 37.47 4.09
4659 7765 3.120580 GCGCTTTTGCTGTAAAATGCAAT 60.121 39.130 17.12 0.00 46.55 3.56
4710 7817 8.345565 AGAATGCACTAGTTTGTTGTTAAGAAG 58.654 33.333 0.00 0.00 0.00 2.85
4724 7831 8.993121 TGTTGTTAAGAAGATTCTCTGTTGATC 58.007 33.333 0.00 0.00 36.28 2.92
4735 7842 5.752036 TCTCTGTTGATCCATTCTCAAGT 57.248 39.130 0.00 0.00 33.49 3.16
4738 7845 6.438741 TCTCTGTTGATCCATTCTCAAGTAGT 59.561 38.462 0.00 0.00 33.49 2.73
4781 7888 4.461198 GAAGGATTCCGTTAATGGGTCAT 58.539 43.478 13.87 7.49 39.83 3.06
4782 7889 4.086706 AGGATTCCGTTAATGGGTCATC 57.913 45.455 13.87 11.94 0.00 2.92
4808 7915 2.175202 TCTTGACAGAGAGCTTCCTCC 58.825 52.381 0.00 0.00 38.96 4.30
4819 7926 1.079819 CTTCCTCCGCGAGCTTTCA 60.080 57.895 8.23 0.00 0.00 2.69
4820 7927 1.355066 CTTCCTCCGCGAGCTTTCAC 61.355 60.000 8.23 0.00 0.00 3.18
4831 7938 3.068881 CTTTCACCCCTCGAGGCA 58.931 61.111 26.87 6.24 0.00 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 1.557099 AACCAGCCTCGTACAGATGA 58.443 50.000 0.00 0.00 0.00 2.92
184 185 9.065798 TGAATTCATCTTGTGTGTTTCAATCTA 57.934 29.630 3.38 0.00 0.00 1.98
216 217 4.757149 ACCAAACTGAAAAATCCTCTCTCG 59.243 41.667 0.00 0.00 0.00 4.04
431 440 1.726853 GATGTCAAAGACCAGGTCCG 58.273 55.000 16.72 5.46 32.18 4.79
646 694 3.444742 GCTCACATGTTTGATCCATCCAA 59.555 43.478 0.00 0.00 0.00 3.53
700 780 1.125093 TGTCCTTTCCGGGCTTCTCA 61.125 55.000 0.00 0.00 38.58 3.27
701 781 0.253327 ATGTCCTTTCCGGGCTTCTC 59.747 55.000 0.00 0.00 38.58 2.87
702 782 0.035056 CATGTCCTTTCCGGGCTTCT 60.035 55.000 0.00 0.00 38.58 2.85
736 817 5.354513 GGCTTTGTAGTCCTGGATTAGTTTC 59.645 44.000 0.00 0.00 0.00 2.78
757 838 1.674817 CGTGTTTCCCGTATCTTGGCT 60.675 52.381 0.00 0.00 0.00 4.75
832 913 6.036517 CACGAGTTTTCTCCTCATAAATCAGG 59.963 42.308 0.00 0.00 43.49 3.86
940 1021 1.462616 CAATGCCTTCCATTCCGACA 58.537 50.000 0.00 0.00 42.15 4.35
976 1057 5.509498 TGAAGCTTTGCATATACCTCCTTT 58.491 37.500 0.00 0.00 0.00 3.11
1159 1241 4.870305 CCTCTTCGTGACGAGGTG 57.130 61.111 16.56 13.86 41.49 4.00
1281 1363 5.220605 GGAAAAGCACGATGAATACACCTAC 60.221 44.000 0.00 0.00 0.00 3.18
1853 2036 2.165357 TGCTAAGAGGCTCCATCTGA 57.835 50.000 11.71 0.00 0.00 3.27
2052 2235 2.082231 CATTCTCATCCCATCCGATGC 58.918 52.381 2.53 0.00 39.64 3.91
2189 2372 6.176183 CCTTCCTAAGAAAAATCTCTCAGCA 58.824 40.000 0.00 0.00 0.00 4.41
2196 2379 4.906618 TCACGCCTTCCTAAGAAAAATCT 58.093 39.130 0.00 0.00 0.00 2.40
2213 2396 2.612212 TCTCCACAAGTTTTCTTCACGC 59.388 45.455 0.00 0.00 38.17 5.34
2327 2518 3.072915 TGAAGTCAAGGATCACACCATGT 59.927 43.478 0.00 0.00 31.61 3.21
2455 2654 0.392998 GCCGGCTTCATCTTCCTTGA 60.393 55.000 22.15 0.00 0.00 3.02
2751 2980 0.179116 CTGACATCCAGCGTCTCCAG 60.179 60.000 0.00 0.00 35.89 3.86
2773 3002 2.680339 GGCAGATTTCTCAGGTTAGTGC 59.320 50.000 0.00 0.00 0.00 4.40
3088 3317 1.454847 TGGCCAACCAAGTCACCAC 60.455 57.895 0.61 0.00 45.37 4.16
3662 3891 4.499696 GGCTTCTCTCTGCTGAACTCTATC 60.500 50.000 0.00 0.00 0.00 2.08
3757 3986 1.003580 TCAACCATCTGCTCAACCTCC 59.996 52.381 0.00 0.00 0.00 4.30
3779 4008 3.792401 CTGCATCATTTCGTACTGGGTA 58.208 45.455 0.00 0.00 0.00 3.69
3831 4060 1.466167 GCATCATTTCACACTGCGTCT 59.534 47.619 0.00 0.00 0.00 4.18
3840 4069 2.219562 GCGCGCTGCATCATTTCAC 61.220 57.895 26.67 0.00 45.45 3.18
3841 4070 2.100797 GCGCGCTGCATCATTTCA 59.899 55.556 26.67 0.00 45.45 2.69
3881 4121 1.156736 GGATGTGTTCTGTTCCGTGG 58.843 55.000 0.00 0.00 0.00 4.94
3885 4125 1.156736 CCACGGATGTGTTCTGTTCC 58.843 55.000 0.00 0.00 41.35 3.62
3890 4130 1.237285 GCTTGCCACGGATGTGTTCT 61.237 55.000 0.00 0.00 44.92 3.01
3891 4131 1.210155 GCTTGCCACGGATGTGTTC 59.790 57.895 0.00 0.00 44.92 3.18
3897 4228 0.036732 TCTTCAAGCTTGCCACGGAT 59.963 50.000 21.99 0.00 0.00 4.18
3910 4241 2.162809 TCTATACGTGCGTGCTCTTCAA 59.837 45.455 7.55 0.00 0.00 2.69
3911 4242 1.741145 TCTATACGTGCGTGCTCTTCA 59.259 47.619 7.55 0.00 0.00 3.02
3941 4272 6.429624 CGCTGCATATGCTAGTTTAATTTCA 58.570 36.000 27.13 2.47 42.66 2.69
3956 4287 0.687354 CCCTTACTCCCGCTGCATAT 59.313 55.000 0.00 0.00 0.00 1.78
3965 4296 0.691413 CCTGTCCCTCCCTTACTCCC 60.691 65.000 0.00 0.00 0.00 4.30
3970 4301 1.364678 TGTGATCCTGTCCCTCCCTTA 59.635 52.381 0.00 0.00 0.00 2.69
3980 4311 0.036952 CGTTGCTCCTGTGATCCTGT 60.037 55.000 0.00 0.00 0.00 4.00
3981 4312 0.036952 ACGTTGCTCCTGTGATCCTG 60.037 55.000 0.00 0.00 0.00 3.86
3982 4313 1.478510 CTACGTTGCTCCTGTGATCCT 59.521 52.381 0.00 0.00 0.00 3.24
3983 4314 1.204941 ACTACGTTGCTCCTGTGATCC 59.795 52.381 0.00 0.00 0.00 3.36
3984 4315 2.263077 CACTACGTTGCTCCTGTGATC 58.737 52.381 0.00 0.00 0.00 2.92
3985 4316 1.673033 GCACTACGTTGCTCCTGTGAT 60.673 52.381 4.97 0.00 39.59 3.06
3986 4317 0.319555 GCACTACGTTGCTCCTGTGA 60.320 55.000 4.97 0.00 39.59 3.58
3987 4318 0.599991 TGCACTACGTTGCTCCTGTG 60.600 55.000 13.05 4.18 43.41 3.66
4020 4392 8.465999 AGCTTGTGGAGATATATTTCTCGATAG 58.534 37.037 14.61 12.99 42.57 2.08
4043 4415 1.145598 CACCCATCGAGATGCAGCT 59.854 57.895 2.90 2.90 37.49 4.24
4049 4421 3.168292 TGCTGATATCACCCATCGAGAT 58.832 45.455 0.00 0.00 0.00 2.75
4055 4427 4.442401 TGTTCATGCTGATATCACCCAT 57.558 40.909 0.00 4.92 0.00 4.00
4094 4466 9.787532 CAAGTTATCAAAAGAACAAAAGACTGA 57.212 29.630 0.00 0.00 0.00 3.41
4127 4499 3.824414 AACCGTGCAGCTAATAACAAC 57.176 42.857 0.00 0.00 0.00 3.32
4129 4501 4.269123 CGATTAACCGTGCAGCTAATAACA 59.731 41.667 0.00 0.00 0.00 2.41
4130 4502 4.269363 ACGATTAACCGTGCAGCTAATAAC 59.731 41.667 0.00 0.00 41.70 1.89
4148 4526 8.625786 AATAGTAAACCAAACTTACCACGATT 57.374 30.769 0.00 0.00 30.88 3.34
4159 4537 8.235226 GCCTGAACTTAGAATAGTAAACCAAAC 58.765 37.037 0.00 0.00 0.00 2.93
4167 4545 4.497006 GCGTCGCCTGAACTTAGAATAGTA 60.497 45.833 5.75 0.00 0.00 1.82
4169 4547 2.789893 GCGTCGCCTGAACTTAGAATAG 59.210 50.000 5.75 0.00 0.00 1.73
4188 4567 0.250295 ATATGGGGTCGGTGATTGCG 60.250 55.000 0.00 0.00 0.00 4.85
4197 4576 1.347707 AGGTACATGCATATGGGGTCG 59.652 52.381 0.00 0.00 38.66 4.79
4204 4583 7.984050 GCTATATCAGTCAAGGTACATGCATAT 59.016 37.037 0.00 0.00 0.00 1.78
4211 4590 6.099701 ACAATGGCTATATCAGTCAAGGTACA 59.900 38.462 0.00 0.00 43.59 2.90
4212 4591 6.525629 ACAATGGCTATATCAGTCAAGGTAC 58.474 40.000 0.00 0.00 43.59 3.34
4214 4593 5.636903 ACAATGGCTATATCAGTCAAGGT 57.363 39.130 0.00 0.00 43.59 3.50
4215 4594 7.879677 TGATTACAATGGCTATATCAGTCAAGG 59.120 37.037 0.00 0.00 43.59 3.61
4216 4595 8.715998 GTGATTACAATGGCTATATCAGTCAAG 58.284 37.037 0.00 0.00 43.59 3.02
4220 4599 7.164122 CCTGTGATTACAATGGCTATATCAGT 58.836 38.462 0.00 0.00 36.14 3.41
4221 4600 7.164122 ACCTGTGATTACAATGGCTATATCAG 58.836 38.462 0.00 0.00 36.14 2.90
4222 4601 7.078249 ACCTGTGATTACAATGGCTATATCA 57.922 36.000 0.00 0.00 36.14 2.15
4223 4602 9.672673 ATTACCTGTGATTACAATGGCTATATC 57.327 33.333 0.00 0.00 36.14 1.63
4225 4604 9.860650 AAATTACCTGTGATTACAATGGCTATA 57.139 29.630 0.00 0.00 36.14 1.31
4236 4615 7.007723 ACTTGGACCAAAATTACCTGTGATTA 58.992 34.615 8.59 0.00 0.00 1.75
4250 4629 7.780745 TCCTGAACTTAAAATACTTGGACCAAA 59.219 33.333 8.59 0.00 0.00 3.28
4253 4632 7.148069 CCATCCTGAACTTAAAATACTTGGACC 60.148 40.741 0.00 0.00 0.00 4.46
4255 4634 7.695055 TCCATCCTGAACTTAAAATACTTGGA 58.305 34.615 0.00 0.00 0.00 3.53
4256 4635 7.938140 TCCATCCTGAACTTAAAATACTTGG 57.062 36.000 0.00 0.00 0.00 3.61
4257 4636 9.793252 CATTCCATCCTGAACTTAAAATACTTG 57.207 33.333 0.00 0.00 0.00 3.16
4258 4637 9.533831 ACATTCCATCCTGAACTTAAAATACTT 57.466 29.630 0.00 0.00 0.00 2.24
4259 4638 9.533831 AACATTCCATCCTGAACTTAAAATACT 57.466 29.630 0.00 0.00 0.00 2.12
4262 4641 9.492973 CAAAACATTCCATCCTGAACTTAAAAT 57.507 29.630 0.00 0.00 0.00 1.82
4263 4642 8.482128 ACAAAACATTCCATCCTGAACTTAAAA 58.518 29.630 0.00 0.00 0.00 1.52
4264 4643 8.017418 ACAAAACATTCCATCCTGAACTTAAA 57.983 30.769 0.00 0.00 0.00 1.52
4265 4644 7.595819 ACAAAACATTCCATCCTGAACTTAA 57.404 32.000 0.00 0.00 0.00 1.85
4266 4645 7.595819 AACAAAACATTCCATCCTGAACTTA 57.404 32.000 0.00 0.00 0.00 2.24
4276 4655 5.647225 AGTGCAAACAAACAAAACATTCCAT 59.353 32.000 0.00 0.00 0.00 3.41
4277 4656 4.999950 AGTGCAAACAAACAAAACATTCCA 59.000 33.333 0.00 0.00 0.00 3.53
4281 4660 7.042791 GCTACATAGTGCAAACAAACAAAACAT 60.043 33.333 0.00 0.00 0.00 2.71
4283 4662 6.475402 AGCTACATAGTGCAAACAAACAAAAC 59.525 34.615 0.00 0.00 0.00 2.43
4288 6362 4.023193 ACCAGCTACATAGTGCAAACAAAC 60.023 41.667 0.00 0.00 0.00 2.93
4293 6367 4.335315 GCATTACCAGCTACATAGTGCAAA 59.665 41.667 11.39 0.00 33.22 3.68
4315 7068 2.177531 CGTCAACATGCTGCTGGC 59.822 61.111 0.00 0.00 42.22 4.85
4323 7076 2.483876 AGGACAACTGTCGTCAACATG 58.516 47.619 0.83 0.00 45.65 3.21
4330 7083 7.974501 CACTTTATATAGAAGGACAACTGTCGT 59.025 37.037 3.85 1.59 45.65 4.34
4341 7094 4.597507 TCAGGCCCCACTTTATATAGAAGG 59.402 45.833 0.00 0.00 0.00 3.46
4375 7129 8.121305 TGCAATGGCTATTTTCTTTTTCTAGA 57.879 30.769 0.00 0.00 41.91 2.43
4378 7132 6.532657 CGATGCAATGGCTATTTTCTTTTTCT 59.467 34.615 0.00 0.00 41.91 2.52
4380 7134 5.581874 CCGATGCAATGGCTATTTTCTTTTT 59.418 36.000 0.00 0.00 41.91 1.94
4381 7135 5.105392 TCCGATGCAATGGCTATTTTCTTTT 60.105 36.000 0.00 0.00 41.91 2.27
4385 7139 3.565482 TCTCCGATGCAATGGCTATTTTC 59.435 43.478 0.00 0.00 41.91 2.29
4390 7144 2.497138 CATTCTCCGATGCAATGGCTA 58.503 47.619 0.00 0.00 41.91 3.93
4393 7147 0.313043 GCCATTCTCCGATGCAATGG 59.687 55.000 6.91 6.91 46.52 3.16
4402 7156 3.864686 CGTTGCCGCCATTCTCCG 61.865 66.667 0.00 0.00 0.00 4.63
4414 7168 3.430862 TCATGAAGCCGCCGTTGC 61.431 61.111 0.00 0.00 0.00 4.17
4415 7169 1.647545 ATGTCATGAAGCCGCCGTTG 61.648 55.000 0.00 0.00 0.00 4.10
4416 7170 1.369091 GATGTCATGAAGCCGCCGTT 61.369 55.000 0.00 0.00 0.00 4.44
4418 7172 1.091771 AAGATGTCATGAAGCCGCCG 61.092 55.000 0.00 0.00 0.00 6.46
4419 7173 0.659957 GAAGATGTCATGAAGCCGCC 59.340 55.000 0.00 0.00 0.00 6.13
4421 7175 2.625737 ACTGAAGATGTCATGAAGCCG 58.374 47.619 0.00 0.00 35.07 5.52
4422 7176 5.819379 TCAATACTGAAGATGTCATGAAGCC 59.181 40.000 0.00 0.00 35.07 4.35
4423 7177 6.314648 TGTCAATACTGAAGATGTCATGAAGC 59.685 38.462 0.00 0.00 35.07 3.86
4424 7178 7.763071 TCTGTCAATACTGAAGATGTCATGAAG 59.237 37.037 0.00 0.00 35.07 3.02
4425 7179 7.614494 TCTGTCAATACTGAAGATGTCATGAA 58.386 34.615 0.00 0.00 35.07 2.57
4426 7180 7.174107 TCTGTCAATACTGAAGATGTCATGA 57.826 36.000 0.00 0.00 35.07 3.07
4427 7181 6.018913 GCTCTGTCAATACTGAAGATGTCATG 60.019 42.308 0.00 0.00 35.07 3.07
4428 7182 6.047870 GCTCTGTCAATACTGAAGATGTCAT 58.952 40.000 0.00 0.00 35.07 3.06
4429 7183 5.047092 TGCTCTGTCAATACTGAAGATGTCA 60.047 40.000 0.00 0.00 33.71 3.58
4430 7184 5.414360 TGCTCTGTCAATACTGAAGATGTC 58.586 41.667 0.00 0.00 33.71 3.06
4431 7185 5.411831 TGCTCTGTCAATACTGAAGATGT 57.588 39.130 0.00 0.00 33.71 3.06
4432 7186 5.064452 GGTTGCTCTGTCAATACTGAAGATG 59.936 44.000 0.00 0.00 33.71 2.90
4433 7187 5.181748 GGTTGCTCTGTCAATACTGAAGAT 58.818 41.667 0.00 0.00 33.71 2.40
4434 7188 4.040339 TGGTTGCTCTGTCAATACTGAAGA 59.960 41.667 0.00 0.00 33.71 2.87
4435 7189 4.318332 TGGTTGCTCTGTCAATACTGAAG 58.682 43.478 0.00 0.00 33.71 3.02
4436 7190 4.350368 TGGTTGCTCTGTCAATACTGAA 57.650 40.909 0.00 0.00 33.71 3.02
4437 7191 4.558226 ATGGTTGCTCTGTCAATACTGA 57.442 40.909 0.00 0.00 33.14 3.41
4438 7192 4.940046 AGAATGGTTGCTCTGTCAATACTG 59.060 41.667 0.00 0.00 0.00 2.74
4439 7193 4.940046 CAGAATGGTTGCTCTGTCAATACT 59.060 41.667 0.00 0.00 35.38 2.12
4440 7194 5.227238 CAGAATGGTTGCTCTGTCAATAC 57.773 43.478 0.00 0.00 35.38 1.89
4447 7201 2.486982 CAGGAACAGAATGGTTGCTCTG 59.513 50.000 0.00 0.00 44.77 3.35
4448 7202 2.373169 TCAGGAACAGAATGGTTGCTCT 59.627 45.455 0.00 0.00 44.77 4.09
4449 7203 2.783135 TCAGGAACAGAATGGTTGCTC 58.217 47.619 0.00 0.00 44.77 4.26
4451 7205 2.821969 ACATCAGGAACAGAATGGTTGC 59.178 45.455 0.00 0.00 33.00 4.17
4452 7206 5.066893 CCATACATCAGGAACAGAATGGTTG 59.933 44.000 0.00 0.00 33.00 3.77
4453 7207 5.195940 CCATACATCAGGAACAGAATGGTT 58.804 41.667 0.00 0.00 33.00 3.67
4454 7208 4.228210 ACCATACATCAGGAACAGAATGGT 59.772 41.667 0.00 0.00 42.46 3.55
4455 7209 4.785301 ACCATACATCAGGAACAGAATGG 58.215 43.478 0.00 0.00 43.62 3.16
4456 7210 5.994054 CCTACCATACATCAGGAACAGAATG 59.006 44.000 0.00 0.00 46.00 2.67
4457 7211 5.667626 ACCTACCATACATCAGGAACAGAAT 59.332 40.000 0.00 0.00 32.25 2.40
4458 7212 5.030147 ACCTACCATACATCAGGAACAGAA 58.970 41.667 0.00 0.00 32.25 3.02
4459 7213 4.405680 CACCTACCATACATCAGGAACAGA 59.594 45.833 0.00 0.00 32.25 3.41
4460 7214 4.697514 CACCTACCATACATCAGGAACAG 58.302 47.826 0.00 0.00 32.25 3.16
4461 7215 3.118408 GCACCTACCATACATCAGGAACA 60.118 47.826 0.00 0.00 32.25 3.18
4462 7216 3.118408 TGCACCTACCATACATCAGGAAC 60.118 47.826 0.00 0.00 32.25 3.62
4463 7217 3.111484 TGCACCTACCATACATCAGGAA 58.889 45.455 0.00 0.00 32.25 3.36
4464 7218 2.758130 TGCACCTACCATACATCAGGA 58.242 47.619 0.00 0.00 32.25 3.86
4465 7219 3.405831 CATGCACCTACCATACATCAGG 58.594 50.000 0.00 0.00 0.00 3.86
4466 7220 2.810274 GCATGCACCTACCATACATCAG 59.190 50.000 14.21 0.00 0.00 2.90
4467 7221 2.172293 TGCATGCACCTACCATACATCA 59.828 45.455 18.46 0.00 0.00 3.07
4468 7222 2.810274 CTGCATGCACCTACCATACATC 59.190 50.000 18.46 0.00 0.00 3.06
4469 7223 2.173356 ACTGCATGCACCTACCATACAT 59.827 45.455 18.46 0.00 0.00 2.29
4470 7224 1.559219 ACTGCATGCACCTACCATACA 59.441 47.619 18.46 0.00 0.00 2.29
4471 7225 2.213499 GACTGCATGCACCTACCATAC 58.787 52.381 18.46 0.00 0.00 2.39
4472 7226 1.140852 GGACTGCATGCACCTACCATA 59.859 52.381 18.46 0.00 0.00 2.74
4473 7227 0.107017 GGACTGCATGCACCTACCAT 60.107 55.000 18.46 0.00 0.00 3.55
4474 7228 1.299648 GGACTGCATGCACCTACCA 59.700 57.895 18.46 0.00 0.00 3.25
4475 7229 0.107017 ATGGACTGCATGCACCTACC 60.107 55.000 23.49 19.51 0.00 3.18
4476 7230 1.019673 CATGGACTGCATGCACCTAC 58.980 55.000 23.49 11.44 0.00 3.18
4477 7231 0.620030 ACATGGACTGCATGCACCTA 59.380 50.000 23.49 14.39 33.61 3.08
4478 7232 0.620030 TACATGGACTGCATGCACCT 59.380 50.000 23.49 10.37 33.61 4.00
4479 7233 1.683943 ATACATGGACTGCATGCACC 58.316 50.000 18.46 18.28 33.61 5.01
4480 7234 3.074504 CAATACATGGACTGCATGCAC 57.925 47.619 18.46 8.17 33.61 4.57
4508 7601 6.088824 CGGAAAAGGAATAATCTGCATATGC 58.911 40.000 21.09 21.09 42.50 3.14
4513 7606 3.287222 CCCGGAAAAGGAATAATCTGCA 58.713 45.455 0.73 0.00 0.00 4.41
4522 7615 0.250989 ATCGCAACCCGGAAAAGGAA 60.251 50.000 0.73 0.00 37.59 3.36
4526 7619 2.036006 CCGATCGCAACCCGGAAAA 61.036 57.895 10.32 0.00 45.58 2.29
4551 7644 1.067425 GCATCAATGAAGCAAGTGCCA 60.067 47.619 5.52 0.00 43.38 4.92
4553 7646 2.649331 AGCATCAATGAAGCAAGTGC 57.351 45.000 13.09 4.74 42.49 4.40
4555 7648 3.377485 CAGCTAGCATCAATGAAGCAAGT 59.623 43.478 18.83 0.00 39.40 3.16
4580 7677 4.094887 CCATCCTTGTGAATAACCTTGTCG 59.905 45.833 0.00 0.00 0.00 4.35
4602 7699 0.671781 AGACGCAGAGCAATGTGACC 60.672 55.000 8.52 1.22 34.73 4.02
4615 7712 0.464036 AGGACACTCAACAAGACGCA 59.536 50.000 0.00 0.00 0.00 5.24
4659 7765 4.023980 AGACGTACCAGATCCAGATGAAA 58.976 43.478 0.00 0.00 0.00 2.69
4710 7817 6.822676 ACTTGAGAATGGATCAACAGAGAATC 59.177 38.462 0.00 0.00 33.28 2.52
4724 7831 6.699642 GCTAAGAAGCTACTACTTGAGAATGG 59.300 42.308 0.00 0.00 45.85 3.16
4774 7881 0.684535 TCAAGAAGCACGATGACCCA 59.315 50.000 0.00 0.00 0.00 4.51
4781 7888 1.336332 GCTCTCTGTCAAGAAGCACGA 60.336 52.381 0.00 0.00 36.94 4.35
4782 7889 1.066914 GCTCTCTGTCAAGAAGCACG 58.933 55.000 0.00 0.00 36.94 5.34
4808 7915 2.815647 GAGGGGTGAAAGCTCGCG 60.816 66.667 0.00 0.00 41.96 5.87
4819 7926 1.201429 ACTTCATTGCCTCGAGGGGT 61.201 55.000 32.06 7.47 35.18 4.95
4820 7927 0.462759 GACTTCATTGCCTCGAGGGG 60.463 60.000 32.06 10.20 35.18 4.79


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

AutoCloner maintained by Alex Coulton.