Multiple sequence alignment - TraesCS4A01G178900

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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 TraesCS4A01G178900 chr4A 100.000 4635 0 0 1 4635 452072093 452067459 0.000000e+00 8560
1 TraesCS4A01G178900 chr4A 87.039 787 78 16 3659 4441 236533073 236532307 0.000000e+00 867
2 TraesCS4A01G178900 chr4A 92.143 140 11 0 3648 3787 236533311 236533172 1.020000e-46 198
3 TraesCS4A01G178900 chr4A 92.143 140 11 0 3648 3787 236533538 236533399 1.020000e-46 198
4 TraesCS4A01G178900 chr4B 94.090 3215 137 19 1359 4548 183561731 183558545 0.000000e+00 4835
5 TraesCS4A01G178900 chr4B 89.384 1121 70 21 228 1319 183562917 183561817 0.000000e+00 1365
6 TraesCS4A01G178900 chr4B 96.721 61 1 1 4571 4630 183558544 183558484 2.950000e-17 100
7 TraesCS4A01G178900 chr4D 96.133 2715 81 7 1901 4614 120832565 120829874 0.000000e+00 4410
8 TraesCS4A01G178900 chr4D 93.011 1345 68 14 552 1889 120833946 120832621 0.000000e+00 1940
9 TraesCS4A01G178900 chr4D 78.061 588 53 38 1 553 120834660 120834114 7.540000e-78 302
10 TraesCS4A01G178900 chr1A 86.267 801 79 21 3648 4441 548729671 548730447 0.000000e+00 841
11 TraesCS4A01G178900 chr6D 85.945 804 76 24 3648 4442 262405953 262405178 0.000000e+00 824
12 TraesCS4A01G178900 chr5B 86.612 605 60 14 3619 4221 119892250 119892835 0.000000e+00 649
13 TraesCS4A01G178900 chr6B 90.374 187 18 0 3619 3805 72312569 72312755 3.580000e-61 246


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 TraesCS4A01G178900 chr4A 452067459 452072093 4634 True 8560.000000 8560 100.000000 1 4635 1 chr4A.!!$R1 4634
1 TraesCS4A01G178900 chr4A 236532307 236533538 1231 True 421.000000 867 90.441667 3648 4441 3 chr4A.!!$R2 793
2 TraesCS4A01G178900 chr4B 183558484 183562917 4433 True 2100.000000 4835 93.398333 228 4630 3 chr4B.!!$R1 4402
3 TraesCS4A01G178900 chr4D 120829874 120834660 4786 True 2217.333333 4410 89.068333 1 4614 3 chr4D.!!$R1 4613
4 TraesCS4A01G178900 chr1A 548729671 548730447 776 False 841.000000 841 86.267000 3648 4441 1 chr1A.!!$F1 793
5 TraesCS4A01G178900 chr6D 262405178 262405953 775 True 824.000000 824 85.945000 3648 4442 1 chr6D.!!$R1 794
6 TraesCS4A01G178900 chr5B 119892250 119892835 585 False 649.000000 649 86.612000 3619 4221 1 chr5B.!!$F1 602

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
320 347 0.035317 AGATTCTGCACGCCACTGAA 59.965 50.0 0.00 0.0 0.00 3.02 F
411 439 0.096976 CCGTGTTTATTCTGCCTGCG 59.903 55.0 0.00 0.0 0.00 5.18 F
1348 1612 0.247460 GAAAACCAATCTGGCCCAGC 59.753 55.0 5.66 0.0 42.67 4.85 F
2690 3001 0.114364 TCACTCCAGGCCAGACTACA 59.886 55.0 5.01 0.0 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1329 1593 0.247460 GCTGGGCCAGATTGGTTTTC 59.753 55.000 37.07 11.96 40.46 2.29 R
1466 1731 0.315251 GGACTTGGTTGAGCAAAGCC 59.685 55.000 0.00 0.00 35.29 4.35 R
3152 3463 1.210722 GTTTGAAGGTTTTTGGGGCCA 59.789 47.619 4.39 0.00 0.00 5.36 R
4330 5128 1.103398 GCACACTCCTGCAGGTTTGT 61.103 55.000 31.58 28.72 37.11 2.83 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
21 22 4.897025 ACGCACCACTTACTAGATAGAC 57.103 45.455 0.00 0.00 0.00 2.59
22 23 4.267536 ACGCACCACTTACTAGATAGACA 58.732 43.478 0.00 0.00 0.00 3.41
36 37 7.420856 ACTAGATAGACATCCATGATCCATCT 58.579 38.462 0.00 0.00 0.00 2.90
55 56 3.149196 TCTCTTCCACATCACCAAAAGC 58.851 45.455 0.00 0.00 0.00 3.51
63 64 1.112315 ATCACCAAAAGCGGTTGCCA 61.112 50.000 0.00 0.00 44.31 4.92
64 65 1.112315 TCACCAAAAGCGGTTGCCAT 61.112 50.000 0.00 0.00 44.31 4.40
65 66 0.667184 CACCAAAAGCGGTTGCCATC 60.667 55.000 0.00 0.00 44.31 3.51
66 67 0.827507 ACCAAAAGCGGTTGCCATCT 60.828 50.000 0.00 0.00 44.31 2.90
67 68 0.109132 CCAAAAGCGGTTGCCATCTC 60.109 55.000 0.00 0.00 44.31 2.75
68 69 0.109132 CAAAAGCGGTTGCCATCTCC 60.109 55.000 0.00 0.00 44.31 3.71
72 73 2.189499 GCGGTTGCCATCTCCATCC 61.189 63.158 0.00 0.00 33.98 3.51
75 76 1.526917 GTTGCCATCTCCATCCCCG 60.527 63.158 0.00 0.00 0.00 5.73
78 79 3.151906 CCATCTCCATCCCCGTCC 58.848 66.667 0.00 0.00 0.00 4.79
84 85 3.570212 CCATCCCCGTCCCCATCC 61.570 72.222 0.00 0.00 0.00 3.51
85 86 3.570212 CATCCCCGTCCCCATCCC 61.570 72.222 0.00 0.00 0.00 3.85
89 90 3.570212 CCCGTCCCCATCCCCATC 61.570 72.222 0.00 0.00 0.00 3.51
90 91 3.570212 CCGTCCCCATCCCCATCC 61.570 72.222 0.00 0.00 0.00 3.51
101 102 0.193574 TCCCCATCCCCTAGGCTAAG 59.806 60.000 2.05 0.00 0.00 2.18
102 103 1.492993 CCCCATCCCCTAGGCTAAGC 61.493 65.000 2.05 0.00 0.00 3.09
103 104 0.474660 CCCATCCCCTAGGCTAAGCT 60.475 60.000 2.05 0.00 0.00 3.74
104 105 1.203313 CCCATCCCCTAGGCTAAGCTA 60.203 57.143 2.05 0.00 0.00 3.32
106 107 3.185455 CCATCCCCTAGGCTAAGCTAAT 58.815 50.000 2.05 0.00 0.00 1.73
108 109 4.323868 CCATCCCCTAGGCTAAGCTAATTC 60.324 50.000 2.05 0.00 0.00 2.17
111 112 2.028020 CCCTAGGCTAAGCTAATTCCCG 60.028 54.545 2.05 0.00 0.00 5.14
112 113 2.633481 CCTAGGCTAAGCTAATTCCCGT 59.367 50.000 0.00 0.00 0.00 5.28
113 114 2.912690 AGGCTAAGCTAATTCCCGTC 57.087 50.000 0.00 0.00 0.00 4.79
115 116 1.542767 GGCTAAGCTAATTCCCGTCCC 60.543 57.143 0.00 0.00 0.00 4.46
116 117 1.416772 GCTAAGCTAATTCCCGTCCCT 59.583 52.381 0.00 0.00 0.00 4.20
117 118 2.548280 GCTAAGCTAATTCCCGTCCCTC 60.548 54.545 0.00 0.00 0.00 4.30
119 120 1.054978 AGCTAATTCCCGTCCCTCCC 61.055 60.000 0.00 0.00 0.00 4.30
120 121 1.054978 GCTAATTCCCGTCCCTCCCT 61.055 60.000 0.00 0.00 0.00 4.20
121 122 1.049402 CTAATTCCCGTCCCTCCCTC 58.951 60.000 0.00 0.00 0.00 4.30
122 123 0.399519 TAATTCCCGTCCCTCCCTCC 60.400 60.000 0.00 0.00 0.00 4.30
123 124 3.715848 ATTCCCGTCCCTCCCTCCC 62.716 68.421 0.00 0.00 0.00 4.30
126 128 4.862823 CCGTCCCTCCCTCCCTCC 62.863 77.778 0.00 0.00 0.00 4.30
145 147 3.162666 TCCCTGTACACCTGACAACTAG 58.837 50.000 0.00 0.00 0.00 2.57
146 148 3.162666 CCCTGTACACCTGACAACTAGA 58.837 50.000 0.00 0.00 0.00 2.43
147 149 3.769844 CCCTGTACACCTGACAACTAGAT 59.230 47.826 0.00 0.00 0.00 1.98
149 151 4.220821 CCTGTACACCTGACAACTAGATGT 59.779 45.833 5.17 5.17 35.90 3.06
162 164 7.653311 TGACAACTAGATGTATCAATCAATCCG 59.347 37.037 5.52 0.00 32.57 4.18
165 167 7.953158 ACTAGATGTATCAATCAATCCGTTG 57.047 36.000 0.00 0.00 36.65 4.10
185 202 4.827304 TGATCGATTTGTTTCTGCACAA 57.173 36.364 0.00 0.00 34.76 3.33
193 210 4.511617 TTGTTTCTGCACAAACAAGACA 57.488 36.364 23.74 7.15 46.51 3.41
194 211 4.511617 TGTTTCTGCACAAACAAGACAA 57.488 36.364 16.63 0.00 42.11 3.18
195 212 5.070770 TGTTTCTGCACAAACAAGACAAT 57.929 34.783 16.63 0.00 42.11 2.71
196 213 6.201226 TGTTTCTGCACAAACAAGACAATA 57.799 33.333 16.63 0.00 42.11 1.90
197 214 6.804677 TGTTTCTGCACAAACAAGACAATAT 58.195 32.000 16.63 0.00 42.11 1.28
198 215 7.935520 TGTTTCTGCACAAACAAGACAATATA 58.064 30.769 16.63 0.00 42.11 0.86
199 216 8.575589 TGTTTCTGCACAAACAAGACAATATAT 58.424 29.630 16.63 0.00 42.11 0.86
200 217 8.853345 GTTTCTGCACAAACAAGACAATATATG 58.147 33.333 12.11 0.00 36.44 1.78
201 218 7.087409 TCTGCACAAACAAGACAATATATGG 57.913 36.000 0.00 0.00 0.00 2.74
202 219 6.658816 TCTGCACAAACAAGACAATATATGGT 59.341 34.615 0.00 0.00 0.00 3.55
203 220 7.176515 TCTGCACAAACAAGACAATATATGGTT 59.823 33.333 0.00 0.00 0.00 3.67
204 221 7.089538 TGCACAAACAAGACAATATATGGTTG 58.910 34.615 0.00 1.17 44.11 3.77
205 222 6.034898 GCACAAACAAGACAATATATGGTTGC 59.965 38.462 2.55 0.00 42.72 4.17
208 225 7.598493 ACAAACAAGACAATATATGGTTGCAAC 59.402 33.333 21.59 21.59 42.72 4.17
220 237 3.963383 GGTTGCAACCGGTCAATATAG 57.037 47.619 31.73 0.00 39.66 1.31
221 238 2.032924 GGTTGCAACCGGTCAATATAGC 59.967 50.000 31.73 5.40 39.66 2.97
222 239 2.943033 GTTGCAACCGGTCAATATAGCT 59.057 45.455 19.15 0.00 0.00 3.32
223 240 2.833794 TGCAACCGGTCAATATAGCTC 58.166 47.619 8.04 0.00 0.00 4.09
224 241 2.169561 TGCAACCGGTCAATATAGCTCA 59.830 45.455 8.04 0.00 0.00 4.26
225 242 3.181455 TGCAACCGGTCAATATAGCTCAT 60.181 43.478 8.04 0.00 0.00 2.90
226 243 3.187227 GCAACCGGTCAATATAGCTCATG 59.813 47.826 8.04 0.00 0.00 3.07
255 272 3.678056 TCTAAACGACACATCAAGCCT 57.322 42.857 0.00 0.00 0.00 4.58
257 274 4.744570 TCTAAACGACACATCAAGCCTAG 58.255 43.478 0.00 0.00 0.00 3.02
260 277 4.530710 AACGACACATCAAGCCTAGTAA 57.469 40.909 0.00 0.00 0.00 2.24
267 284 7.965655 CGACACATCAAGCCTAGTAATATCTAG 59.034 40.741 0.00 0.00 37.66 2.43
270 297 8.961634 CACATCAAGCCTAGTAATATCTAGCTA 58.038 37.037 0.00 0.00 36.89 3.32
271 298 9.184523 ACATCAAGCCTAGTAATATCTAGCTAG 57.815 37.037 15.01 15.01 36.89 3.42
279 306 9.337396 CCTAGTAATATCTAGCTAGTGATCTGG 57.663 40.741 20.10 12.83 36.89 3.86
286 313 5.140454 TCTAGCTAGTGATCTGGTGCATAA 58.860 41.667 20.10 0.00 0.00 1.90
287 314 4.065321 AGCTAGTGATCTGGTGCATAAC 57.935 45.455 0.00 0.00 0.00 1.89
288 315 3.452264 AGCTAGTGATCTGGTGCATAACA 59.548 43.478 0.00 0.00 0.00 2.41
292 319 6.183360 GCTAGTGATCTGGTGCATAACAAATT 60.183 38.462 0.00 0.00 0.00 1.82
295 322 4.220163 TGATCTGGTGCATAACAAATTGCA 59.780 37.500 0.00 0.00 46.03 4.08
318 345 0.671472 TGAGATTCTGCACGCCACTG 60.671 55.000 0.00 0.00 0.00 3.66
320 347 0.035317 AGATTCTGCACGCCACTGAA 59.965 50.000 0.00 0.00 0.00 3.02
326 353 0.105964 TGCACGCCACTGAACTTACT 59.894 50.000 0.00 0.00 0.00 2.24
327 354 0.512952 GCACGCCACTGAACTTACTG 59.487 55.000 0.00 0.00 0.00 2.74
328 355 1.872237 GCACGCCACTGAACTTACTGA 60.872 52.381 0.00 0.00 0.00 3.41
369 397 7.455641 TCCGGCTAATGTAATTTCAAAAGAA 57.544 32.000 0.00 0.00 37.87 2.52
371 399 7.392113 TCCGGCTAATGTAATTTCAAAAGAAGA 59.608 33.333 0.00 0.00 37.87 2.87
386 414 7.867752 TCAAAAGAAGACCACTAAATTAACCG 58.132 34.615 0.00 0.00 0.00 4.44
391 419 5.340439 AGACCACTAAATTAACCGAGGAG 57.660 43.478 0.00 0.00 0.00 3.69
411 439 0.096976 CCGTGTTTATTCTGCCTGCG 59.903 55.000 0.00 0.00 0.00 5.18
415 443 2.030946 GTGTTTATTCTGCCTGCGCTAG 59.969 50.000 9.73 4.25 35.36 3.42
431 466 2.416162 CGCTAGTGCTAGGCTATAAGGC 60.416 54.545 8.16 0.00 37.84 4.35
442 477 1.534595 GCTATAAGGCTCAGTGCATGC 59.465 52.381 11.82 11.82 45.15 4.06
443 478 2.842457 CTATAAGGCTCAGTGCATGCA 58.158 47.619 18.46 18.46 45.15 3.96
447 482 2.341101 GGCTCAGTGCATGCAGCTT 61.341 57.895 23.41 7.08 45.94 3.74
459 494 1.442987 GCAGCTTTGGGTTGCTTGT 59.557 52.632 0.00 0.00 46.39 3.16
460 495 0.673437 GCAGCTTTGGGTTGCTTGTA 59.327 50.000 0.00 0.00 46.39 2.41
461 496 1.602920 GCAGCTTTGGGTTGCTTGTAC 60.603 52.381 0.00 0.00 46.39 2.90
538 580 3.188159 TGATGGCTATTAACCGACACC 57.812 47.619 0.00 0.00 0.00 4.16
550 592 0.659957 CCGACACCCGTACTAGCTAC 59.340 60.000 0.00 0.00 36.31 3.58
590 801 1.131638 ACAAGTGCTCTTCCCAGTGA 58.868 50.000 0.00 0.00 0.00 3.41
605 816 1.135546 CAGTGAGCAGAGACAGGTACG 60.136 57.143 0.00 0.00 0.00 3.67
664 875 1.209019 CAAGTCCTGCAGATGGCTACT 59.791 52.381 17.39 5.69 45.15 2.57
665 876 1.118838 AGTCCTGCAGATGGCTACTC 58.881 55.000 17.39 0.00 45.15 2.59
666 877 0.826715 GTCCTGCAGATGGCTACTCA 59.173 55.000 17.39 0.00 45.15 3.41
667 878 1.415659 GTCCTGCAGATGGCTACTCAT 59.584 52.381 17.39 0.00 45.15 2.90
670 881 2.617308 CCTGCAGATGGCTACTCATTTG 59.383 50.000 17.39 0.00 45.15 2.32
671 882 3.276857 CTGCAGATGGCTACTCATTTGT 58.723 45.455 8.42 0.00 45.15 2.83
672 883 4.445453 CTGCAGATGGCTACTCATTTGTA 58.555 43.478 8.42 0.00 45.15 2.41
673 884 4.191544 TGCAGATGGCTACTCATTTGTAC 58.808 43.478 0.00 0.00 45.15 2.90
674 885 4.080919 TGCAGATGGCTACTCATTTGTACT 60.081 41.667 0.00 0.00 45.15 2.73
676 887 5.694006 GCAGATGGCTACTCATTTGTACTAG 59.306 44.000 0.00 0.00 40.25 2.57
678 889 7.470147 GCAGATGGCTACTCATTTGTACTAGTA 60.470 40.741 0.00 0.00 40.25 1.82
679 890 8.580720 CAGATGGCTACTCATTTGTACTAGTAT 58.419 37.037 5.75 0.00 0.00 2.12
680 891 8.580720 AGATGGCTACTCATTTGTACTAGTATG 58.419 37.037 5.75 1.32 0.00 2.39
681 892 7.655521 TGGCTACTCATTTGTACTAGTATGT 57.344 36.000 5.75 0.67 0.00 2.29
682 893 8.756486 TGGCTACTCATTTGTACTAGTATGTA 57.244 34.615 5.75 0.00 0.00 2.29
683 894 9.192642 TGGCTACTCATTTGTACTAGTATGTAA 57.807 33.333 5.75 1.73 0.00 2.41
695 910 8.900781 TGTACTAGTATGTAAAGGAGTTAGCTG 58.099 37.037 5.75 0.00 0.00 4.24
761 976 6.491403 ACACAAGAAGAAATTACCTGCAATCT 59.509 34.615 0.00 0.00 0.00 2.40
892 1108 1.544686 CATTAAAACCATGCGTCGCC 58.455 50.000 15.88 0.00 0.00 5.54
893 1109 0.454196 ATTAAAACCATGCGTCGCCC 59.546 50.000 15.88 0.00 0.00 6.13
894 1110 1.913451 TTAAAACCATGCGTCGCCCG 61.913 55.000 15.88 5.32 40.40 6.13
935 1151 3.721625 GCATACTGCACTGTCTCGA 57.278 52.632 0.00 0.00 44.26 4.04
1166 1382 9.122613 CATCATCAGAAAGACACATATACGTAG 57.877 37.037 0.08 0.00 0.00 3.51
1171 1387 9.557061 TCAGAAAGACACATATACGTAGATACT 57.443 33.333 1.73 0.00 0.00 2.12
1291 1507 6.091169 ACAATGCTTTCTTTGCCATAATTTCG 59.909 34.615 0.00 0.00 32.42 3.46
1325 1541 9.807649 ATTTTCCTTTCTGATGCAACATAATAC 57.192 29.630 0.00 0.00 0.00 1.89
1326 1542 8.579850 TTTCCTTTCTGATGCAACATAATACT 57.420 30.769 0.00 0.00 0.00 2.12
1329 1593 7.066163 TCCTTTCTGATGCAACATAATACTGTG 59.934 37.037 0.00 0.00 0.00 3.66
1331 1595 7.920160 TTCTGATGCAACATAATACTGTGAA 57.080 32.000 0.00 0.00 0.00 3.18
1338 1602 7.665690 TGCAACATAATACTGTGAAAACCAAT 58.334 30.769 0.00 0.00 0.00 3.16
1342 1606 8.055279 ACATAATACTGTGAAAACCAATCTGG 57.945 34.615 0.00 0.00 45.02 3.86
1348 1612 0.247460 GAAAACCAATCTGGCCCAGC 59.753 55.000 5.66 0.00 42.67 4.85
1349 1613 1.535204 AAAACCAATCTGGCCCAGCG 61.535 55.000 5.66 0.00 42.67 5.18
1385 1650 1.997256 AAACGGCCACCCTTACACCA 61.997 55.000 2.24 0.00 0.00 4.17
1419 1684 2.513204 CTCAGGCTGCCGTGATGG 60.513 66.667 13.96 3.46 42.50 3.51
1466 1731 3.370978 GTGGTTATGAGGAACATGACACG 59.629 47.826 0.00 0.00 44.06 4.49
1500 1765 4.289672 ACCAAGTCCATCCTCACTGTTAAT 59.710 41.667 0.00 0.00 0.00 1.40
1533 1798 1.227674 GCCGACCCTCTATGCAAGG 60.228 63.158 0.00 0.00 0.00 3.61
1545 1810 2.664402 ATGCAAGGGAAGGCGATAAT 57.336 45.000 0.00 0.00 0.00 1.28
1566 1831 2.933906 TGTTCTTGTCAAGGTCGTCAAC 59.066 45.455 12.66 8.77 0.00 3.18
1652 1917 3.882888 CAGAAAACTGCCACCTCAAAGTA 59.117 43.478 0.00 0.00 0.00 2.24
1672 1937 1.969085 CAACTGCATGCCCACACAT 59.031 52.632 16.68 0.00 0.00 3.21
1676 1941 3.295585 ACTGCATGCCCACACATATAA 57.704 42.857 16.68 0.00 0.00 0.98
1677 1942 3.630168 ACTGCATGCCCACACATATAAA 58.370 40.909 16.68 0.00 0.00 1.40
1703 1968 1.202382 GCCTCAATCTTTCTGGCATGC 60.202 52.381 9.90 9.90 42.79 4.06
1713 1978 3.332493 CTGGCATGCTGTTGACGCC 62.332 63.158 18.92 0.00 43.28 5.68
1734 1999 4.390909 GCCTGAGAATTTTTCATTTGCTGG 59.609 41.667 0.00 0.00 0.00 4.85
1763 2028 3.511540 AGAAGGAAAAAGGTTATGCCAGC 59.488 43.478 0.00 0.00 40.61 4.85
1764 2029 3.175438 AGGAAAAAGGTTATGCCAGCT 57.825 42.857 0.00 0.00 40.61 4.24
1767 2032 5.083821 AGGAAAAAGGTTATGCCAGCTAAA 58.916 37.500 0.00 0.00 40.61 1.85
1824 2090 1.480954 TCTAAGGAACCACGCATCCTC 59.519 52.381 0.00 0.00 45.33 3.71
1828 2094 1.519455 GAACCACGCATCCTCTCCG 60.519 63.158 0.00 0.00 0.00 4.63
1866 2132 2.846206 ACATCCTTTCCATAGACAGGCA 59.154 45.455 0.00 0.00 39.47 4.75
2071 2381 0.757512 TTACTGGCCAACGTGGTACA 59.242 50.000 7.01 0.00 40.46 2.90
2134 2444 5.508994 CGTCCATGGTGCTATTGTCATACTA 60.509 44.000 12.58 0.00 0.00 1.82
2161 2471 2.117051 CTTGGAGTACCCTACCCCTTC 58.883 57.143 0.00 0.00 35.38 3.46
2370 2680 3.071874 TCTGATTCCCACACCATCAAC 57.928 47.619 0.00 0.00 0.00 3.18
2432 2742 6.747414 AGGTATATGAATGAAGGTGCTACA 57.253 37.500 0.00 0.00 0.00 2.74
2687 2998 0.252421 TCATCACTCCAGGCCAGACT 60.252 55.000 5.01 0.00 0.00 3.24
2690 3001 0.114364 TCACTCCAGGCCAGACTACA 59.886 55.000 5.01 0.00 0.00 2.74
3152 3463 4.876107 CACAAGTTCAACTACACAGGAAGT 59.124 41.667 0.00 0.00 0.00 3.01
3314 3625 2.931921 GTTGGGAGGGGTGTTGGT 59.068 61.111 0.00 0.00 0.00 3.67
3327 3638 2.827322 GGTGTTGGTAATTACAACCCCC 59.173 50.000 17.16 15.11 45.72 5.40
3406 3717 0.616111 CCTACTGGAGGCTGGACAGT 60.616 60.000 16.93 16.93 46.30 3.55
3657 3986 7.039882 TGATTACAAGAAGAGTAACCGGATTC 58.960 38.462 9.46 0.00 34.59 2.52
3694 4477 5.581126 AAACAGATGCTGAAACTTCAACA 57.419 34.783 0.82 0.00 37.64 3.33
3709 4492 5.680619 ACTTCAACAGTGGTGATTTACTCA 58.319 37.500 12.63 0.00 32.83 3.41
3769 4553 7.660030 TCCTTTCTCTCCTTTTGATTTGTTT 57.340 32.000 0.00 0.00 0.00 2.83
3883 4667 6.817641 TGGAATAAATGGAATTGCATGTGTTC 59.182 34.615 23.14 23.14 36.10 3.18
3901 4685 2.281140 TCGCATGCACATGAATTTGG 57.719 45.000 19.57 0.00 41.20 3.28
3905 4689 2.674357 GCATGCACATGAATTTGGGAAC 59.326 45.455 14.21 0.00 41.20 3.62
4161 4950 0.623723 AGCGAAATTGGGGAGCCTAA 59.376 50.000 0.00 0.00 0.00 2.69
4162 4951 1.025041 GCGAAATTGGGGAGCCTAAG 58.975 55.000 0.00 0.00 0.00 2.18
4442 5243 4.148825 GAGGACCACGCGGCTGAT 62.149 66.667 12.47 0.00 34.57 2.90
4469 5270 2.423446 GAGCCAATCGCCGGAGAT 59.577 61.111 15.69 15.69 38.78 2.75
4483 5284 1.767759 GGAGATGGGGTTGAACATGG 58.232 55.000 0.00 0.00 0.00 3.66
4537 5338 1.673009 GTTCGCCGATGAACCCCAA 60.673 57.895 8.11 0.00 41.88 4.12
4564 5365 2.463589 CTACTGCAACGGCTTGGGGA 62.464 60.000 0.00 0.00 41.91 4.81
4568 5369 3.451894 CAACGGCTTGGGGATGCC 61.452 66.667 0.00 0.00 45.25 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 4.041321 TGGAAGAGATGGATCATGGATGTC 59.959 45.833 0.00 0.00 0.00 3.06
20 21 3.978672 TGGAAGAGATGGATCATGGATGT 59.021 43.478 0.00 0.00 0.00 3.06
21 22 4.202430 TGTGGAAGAGATGGATCATGGATG 60.202 45.833 0.00 0.00 0.00 3.51
22 23 3.978672 TGTGGAAGAGATGGATCATGGAT 59.021 43.478 0.00 0.00 0.00 3.41
36 37 1.879380 CGCTTTTGGTGATGTGGAAGA 59.121 47.619 0.00 0.00 0.00 2.87
55 56 1.526917 GGGATGGAGATGGCAACCG 60.527 63.158 0.00 0.00 0.00 4.44
63 64 2.122369 GGGGACGGGGATGGAGAT 60.122 66.667 0.00 0.00 0.00 2.75
64 65 2.965226 GATGGGGACGGGGATGGAGA 62.965 65.000 0.00 0.00 0.00 3.71
65 66 2.448542 ATGGGGACGGGGATGGAG 60.449 66.667 0.00 0.00 0.00 3.86
66 67 2.447765 GATGGGGACGGGGATGGA 60.448 66.667 0.00 0.00 0.00 3.41
67 68 3.570212 GGATGGGGACGGGGATGG 61.570 72.222 0.00 0.00 0.00 3.51
68 69 3.570212 GGGATGGGGACGGGGATG 61.570 72.222 0.00 0.00 0.00 3.51
72 73 3.570212 GATGGGGATGGGGACGGG 61.570 72.222 0.00 0.00 0.00 5.28
75 76 2.355484 TAGGGGATGGGGATGGGGAC 62.355 65.000 0.00 0.00 0.00 4.46
78 79 1.542375 CCTAGGGGATGGGGATGGG 60.542 68.421 0.00 0.00 33.58 4.00
84 85 0.474660 AGCTTAGCCTAGGGGATGGG 60.475 60.000 11.72 0.00 31.53 4.00
85 86 2.327325 TAGCTTAGCCTAGGGGATGG 57.673 55.000 11.72 0.00 31.53 3.51
89 90 2.306219 GGGAATTAGCTTAGCCTAGGGG 59.694 54.545 11.72 0.00 0.00 4.79
90 91 2.028020 CGGGAATTAGCTTAGCCTAGGG 60.028 54.545 11.72 0.00 0.00 3.53
101 102 1.054978 AGGGAGGGACGGGAATTAGC 61.055 60.000 0.00 0.00 0.00 3.09
102 103 1.049402 GAGGGAGGGACGGGAATTAG 58.951 60.000 0.00 0.00 0.00 1.73
103 104 0.399519 GGAGGGAGGGACGGGAATTA 60.400 60.000 0.00 0.00 0.00 1.40
104 105 1.693103 GGAGGGAGGGACGGGAATT 60.693 63.158 0.00 0.00 0.00 2.17
106 107 4.410033 GGGAGGGAGGGACGGGAA 62.410 72.222 0.00 0.00 0.00 3.97
108 109 4.862823 GAGGGAGGGAGGGACGGG 62.863 77.778 0.00 0.00 0.00 5.28
111 112 3.369388 AGGGAGGGAGGGAGGGAC 61.369 72.222 0.00 0.00 0.00 4.46
112 113 2.836293 TACAGGGAGGGAGGGAGGGA 62.836 65.000 0.00 0.00 0.00 4.20
113 114 2.333462 TACAGGGAGGGAGGGAGGG 61.333 68.421 0.00 0.00 0.00 4.30
115 116 0.688087 GTGTACAGGGAGGGAGGGAG 60.688 65.000 0.00 0.00 0.00 4.30
116 117 1.390926 GTGTACAGGGAGGGAGGGA 59.609 63.158 0.00 0.00 0.00 4.20
117 118 1.689582 GGTGTACAGGGAGGGAGGG 60.690 68.421 0.00 0.00 0.00 4.30
119 120 0.041238 TCAGGTGTACAGGGAGGGAG 59.959 60.000 0.00 0.00 0.00 4.30
120 121 0.252103 GTCAGGTGTACAGGGAGGGA 60.252 60.000 0.00 0.00 0.00 4.20
121 122 0.544357 TGTCAGGTGTACAGGGAGGG 60.544 60.000 0.00 0.00 0.00 4.30
122 123 1.002087 GTTGTCAGGTGTACAGGGAGG 59.998 57.143 0.00 0.00 0.00 4.30
123 124 1.971357 AGTTGTCAGGTGTACAGGGAG 59.029 52.381 0.00 0.00 0.00 4.30
126 128 4.220821 ACATCTAGTTGTCAGGTGTACAGG 59.779 45.833 0.00 0.00 35.59 4.00
162 164 4.536065 TGTGCAGAAACAAATCGATCAAC 58.464 39.130 0.00 0.00 0.00 3.18
200 217 2.032924 GCTATATTGACCGGTTGCAACC 59.967 50.000 34.48 34.48 45.76 3.77
201 218 2.943033 AGCTATATTGACCGGTTGCAAC 59.057 45.455 21.59 21.59 0.00 4.17
202 219 3.202906 GAGCTATATTGACCGGTTGCAA 58.797 45.455 9.42 10.27 0.00 4.08
203 220 2.169561 TGAGCTATATTGACCGGTTGCA 59.830 45.455 9.42 0.00 0.00 4.08
204 221 2.833794 TGAGCTATATTGACCGGTTGC 58.166 47.619 9.42 0.00 0.00 4.17
205 222 4.380531 ACATGAGCTATATTGACCGGTTG 58.619 43.478 9.42 0.00 0.00 3.77
208 225 7.716612 TGATATACATGAGCTATATTGACCGG 58.283 38.462 0.00 0.00 0.00 5.28
218 235 9.841880 GTCGTTTAGATTGATATACATGAGCTA 57.158 33.333 0.00 0.00 0.00 3.32
219 236 8.360390 TGTCGTTTAGATTGATATACATGAGCT 58.640 33.333 0.00 0.00 0.00 4.09
220 237 8.428536 GTGTCGTTTAGATTGATATACATGAGC 58.571 37.037 0.00 0.00 0.00 4.26
221 238 9.463443 TGTGTCGTTTAGATTGATATACATGAG 57.537 33.333 0.00 0.00 0.00 2.90
222 239 9.981114 ATGTGTCGTTTAGATTGATATACATGA 57.019 29.630 0.00 0.00 0.00 3.07
224 241 9.981114 TGATGTGTCGTTTAGATTGATATACAT 57.019 29.630 0.00 0.00 0.00 2.29
225 242 9.810545 TTGATGTGTCGTTTAGATTGATATACA 57.189 29.630 0.00 0.00 0.00 2.29
252 269 8.836413 CAGATCACTAGCTAGATATTACTAGGC 58.164 40.741 27.45 6.26 39.88 3.93
255 272 9.674068 CACCAGATCACTAGCTAGATATTACTA 57.326 37.037 27.45 3.60 0.00 1.82
257 274 7.094162 TGCACCAGATCACTAGCTAGATATTAC 60.094 40.741 27.45 12.21 0.00 1.89
260 277 5.328565 TGCACCAGATCACTAGCTAGATAT 58.671 41.667 27.45 18.11 0.00 1.63
267 284 3.797039 TGTTATGCACCAGATCACTAGC 58.203 45.455 0.00 0.00 0.00 3.42
270 297 5.622914 GCAATTTGTTATGCACCAGATCACT 60.623 40.000 0.00 0.00 42.12 3.41
271 298 4.563976 GCAATTTGTTATGCACCAGATCAC 59.436 41.667 0.00 0.00 42.12 3.06
286 313 5.416639 TGCAGAATCTCATAGTGCAATTTGT 59.583 36.000 4.57 0.00 41.05 2.83
287 314 5.742453 GTGCAGAATCTCATAGTGCAATTTG 59.258 40.000 0.00 0.00 45.24 2.32
288 315 5.448225 CGTGCAGAATCTCATAGTGCAATTT 60.448 40.000 0.00 0.00 45.24 1.82
292 319 2.543641 CGTGCAGAATCTCATAGTGCA 58.456 47.619 0.00 0.00 41.72 4.57
295 322 1.482182 TGGCGTGCAGAATCTCATAGT 59.518 47.619 0.00 0.00 0.00 2.12
296 323 1.863454 GTGGCGTGCAGAATCTCATAG 59.137 52.381 0.00 0.00 0.00 2.23
297 324 1.482182 AGTGGCGTGCAGAATCTCATA 59.518 47.619 0.00 0.00 0.00 2.15
318 345 6.309251 GTGACAAGTGAGCTATCAGTAAGTTC 59.691 42.308 0.00 0.00 38.18 3.01
320 347 5.243954 TGTGACAAGTGAGCTATCAGTAAGT 59.756 40.000 0.00 0.00 38.18 2.24
326 353 3.429410 CGGATGTGACAAGTGAGCTATCA 60.429 47.826 0.00 0.00 0.00 2.15
327 354 3.119291 CGGATGTGACAAGTGAGCTATC 58.881 50.000 0.00 0.00 0.00 2.08
328 355 2.159043 CCGGATGTGACAAGTGAGCTAT 60.159 50.000 0.00 0.00 0.00 2.97
369 397 4.382793 GCTCCTCGGTTAATTTAGTGGTCT 60.383 45.833 0.00 0.00 0.00 3.85
371 399 3.370209 GGCTCCTCGGTTAATTTAGTGGT 60.370 47.826 0.00 0.00 0.00 4.16
376 404 2.234414 ACACGGCTCCTCGGTTAATTTA 59.766 45.455 0.00 0.00 0.00 1.40
377 405 1.002773 ACACGGCTCCTCGGTTAATTT 59.997 47.619 0.00 0.00 0.00 1.82
378 406 0.611714 ACACGGCTCCTCGGTTAATT 59.388 50.000 0.00 0.00 0.00 1.40
379 407 0.611714 AACACGGCTCCTCGGTTAAT 59.388 50.000 0.00 0.00 0.00 1.40
380 408 0.393820 AAACACGGCTCCTCGGTTAA 59.606 50.000 0.00 0.00 0.00 2.01
381 409 1.255882 TAAACACGGCTCCTCGGTTA 58.744 50.000 0.00 0.00 0.00 2.85
382 410 0.611714 ATAAACACGGCTCCTCGGTT 59.388 50.000 0.00 0.00 0.00 4.44
383 411 0.611714 AATAAACACGGCTCCTCGGT 59.388 50.000 0.00 0.00 0.00 4.69
384 412 1.134788 AGAATAAACACGGCTCCTCGG 60.135 52.381 0.00 0.00 0.00 4.63
385 413 1.927174 CAGAATAAACACGGCTCCTCG 59.073 52.381 0.00 0.00 0.00 4.63
386 414 1.666189 GCAGAATAAACACGGCTCCTC 59.334 52.381 0.00 0.00 0.00 3.71
391 419 0.179163 GCAGGCAGAATAAACACGGC 60.179 55.000 0.00 0.00 0.00 5.68
411 439 2.829120 AGCCTTATAGCCTAGCACTAGC 59.171 50.000 0.00 0.00 42.56 3.42
415 443 2.630580 ACTGAGCCTTATAGCCTAGCAC 59.369 50.000 0.00 0.00 0.00 4.40
431 466 0.109272 CCAAAGCTGCATGCACTGAG 60.109 55.000 18.46 8.43 45.94 3.35
442 477 1.956477 AGTACAAGCAACCCAAAGCTG 59.044 47.619 0.00 0.00 41.70 4.24
443 478 2.364972 AGTACAAGCAACCCAAAGCT 57.635 45.000 0.00 0.00 44.31 3.74
447 482 5.622180 TGTTATGTAGTACAAGCAACCCAA 58.378 37.500 7.16 0.00 0.00 4.12
481 522 3.056107 TGCAGTCCACTTCCATGTAGTAC 60.056 47.826 0.00 0.00 0.00 2.73
482 523 3.169908 TGCAGTCCACTTCCATGTAGTA 58.830 45.455 0.00 0.00 0.00 1.82
483 524 1.977854 TGCAGTCCACTTCCATGTAGT 59.022 47.619 0.00 0.00 0.00 2.73
484 525 2.768253 TGCAGTCCACTTCCATGTAG 57.232 50.000 0.00 0.00 0.00 2.74
538 580 1.065701 CCAGTGCTGTAGCTAGTACGG 59.934 57.143 5.38 0.00 42.66 4.02
560 771 1.946768 GAGCACTTGTGCTGTTAACCA 59.053 47.619 29.60 0.00 46.36 3.67
571 782 1.071385 CTCACTGGGAAGAGCACTTGT 59.929 52.381 0.00 0.00 36.39 3.16
584 795 1.203523 GTACCTGTCTCTGCTCACTGG 59.796 57.143 0.00 0.00 37.57 4.00
590 801 0.251209 TCCACGTACCTGTCTCTGCT 60.251 55.000 0.00 0.00 0.00 4.24
605 816 2.882137 TCGATTTGGAGTTTGGTTCCAC 59.118 45.455 0.00 0.00 44.13 4.02
670 881 8.351461 CCAGCTAACTCCTTTACATACTAGTAC 58.649 40.741 4.31 0.00 0.00 2.73
671 882 7.504911 CCCAGCTAACTCCTTTACATACTAGTA 59.495 40.741 4.77 4.77 0.00 1.82
672 883 6.324254 CCCAGCTAACTCCTTTACATACTAGT 59.676 42.308 0.00 0.00 0.00 2.57
673 884 6.324254 ACCCAGCTAACTCCTTTACATACTAG 59.676 42.308 0.00 0.00 0.00 2.57
674 885 6.097839 CACCCAGCTAACTCCTTTACATACTA 59.902 42.308 0.00 0.00 0.00 1.82
676 887 5.116882 CACCCAGCTAACTCCTTTACATAC 58.883 45.833 0.00 0.00 0.00 2.39
678 889 3.622455 GCACCCAGCTAACTCCTTTACAT 60.622 47.826 0.00 0.00 41.15 2.29
679 890 2.290071 GCACCCAGCTAACTCCTTTACA 60.290 50.000 0.00 0.00 41.15 2.41
680 891 2.290071 TGCACCCAGCTAACTCCTTTAC 60.290 50.000 0.00 0.00 45.94 2.01
681 892 1.982226 TGCACCCAGCTAACTCCTTTA 59.018 47.619 0.00 0.00 45.94 1.85
682 893 0.771127 TGCACCCAGCTAACTCCTTT 59.229 50.000 0.00 0.00 45.94 3.11
683 894 0.771127 TTGCACCCAGCTAACTCCTT 59.229 50.000 0.00 0.00 45.94 3.36
684 895 0.036875 GTTGCACCCAGCTAACTCCT 59.963 55.000 0.00 0.00 45.94 3.69
685 896 0.036875 AGTTGCACCCAGCTAACTCC 59.963 55.000 0.00 0.00 45.94 3.85
695 910 1.377333 GTAGCTCCCAGTTGCACCC 60.377 63.158 0.00 0.00 0.00 4.61
761 976 1.808531 GCTGTGCTGGGAATTGTGCA 61.809 55.000 0.00 0.00 0.00 4.57
935 1151 0.388649 GAACGACGATGCCTGTGAGT 60.389 55.000 0.00 0.00 0.00 3.41
1145 1361 9.557061 AGTATCTACGTATATGTGTCTTTCTGA 57.443 33.333 7.89 0.00 0.00 3.27
1146 1362 9.814507 GAGTATCTACGTATATGTGTCTTTCTG 57.185 37.037 7.89 0.00 0.00 3.02
1147 1363 9.557061 TGAGTATCTACGTATATGTGTCTTTCT 57.443 33.333 7.89 0.15 34.92 2.52
1166 1382 1.112113 TTGCTCCTCCGGTGAGTATC 58.888 55.000 19.95 8.49 36.86 2.24
1171 1387 3.494398 GCTATTTATTGCTCCTCCGGTGA 60.494 47.826 4.76 0.31 0.00 4.02
1291 1507 6.869913 TGCATCAGAAAGGAAAATGACATTTC 59.130 34.615 13.68 7.62 38.00 2.17
1325 1541 1.273327 GGGCCAGATTGGTTTTCACAG 59.727 52.381 4.39 0.00 40.46 3.66
1326 1542 1.337118 GGGCCAGATTGGTTTTCACA 58.663 50.000 4.39 0.00 40.46 3.58
1329 1593 0.247460 GCTGGGCCAGATTGGTTTTC 59.753 55.000 37.07 11.96 40.46 2.29
1331 1595 1.978617 CGCTGGGCCAGATTGGTTT 60.979 57.895 37.07 0.00 40.46 3.27
1385 1650 0.461961 GAGTTCTGTAGCCGCCTCAT 59.538 55.000 0.00 0.00 0.00 2.90
1419 1684 3.608474 GCACGAGTGAAACCATGGTAAAC 60.608 47.826 20.12 16.29 37.80 2.01
1466 1731 0.315251 GGACTTGGTTGAGCAAAGCC 59.685 55.000 0.00 0.00 35.29 4.35
1533 1798 3.938963 TGACAAGAACATTATCGCCTTCC 59.061 43.478 0.00 0.00 0.00 3.46
1545 1810 2.933906 GTTGACGACCTTGACAAGAACA 59.066 45.455 16.99 6.28 0.00 3.18
1566 1831 2.095853 GGTAACGTTGTGAGATGCATGG 59.904 50.000 11.99 0.00 0.00 3.66
1573 1838 2.631062 AGTGGATGGTAACGTTGTGAGA 59.369 45.455 11.99 0.00 42.51 3.27
1652 1917 2.203523 TGTGGGCATGCAGTTGCT 60.204 55.556 21.36 0.00 42.38 3.91
1667 1932 7.341805 AGATTGAGGCTGTCTTTTATATGTGT 58.658 34.615 0.00 0.00 0.00 3.72
1672 1937 7.554118 CCAGAAAGATTGAGGCTGTCTTTTATA 59.446 37.037 15.86 0.00 41.01 0.98
1676 1941 4.077822 CCAGAAAGATTGAGGCTGTCTTT 58.922 43.478 15.10 15.10 42.94 2.52
1677 1942 3.683802 CCAGAAAGATTGAGGCTGTCTT 58.316 45.455 0.00 0.00 33.86 3.01
1703 1968 3.904136 AAAATTCTCAGGCGTCAACAG 57.096 42.857 0.00 0.00 0.00 3.16
1713 1978 7.718272 TTTCCAGCAAATGAAAAATTCTCAG 57.282 32.000 0.00 0.00 0.00 3.35
1734 1999 7.385205 GGCATAACCTTTTTCCTTCTTCTTTTC 59.615 37.037 0.00 0.00 34.51 2.29
1763 2028 7.186021 ACATGTTCCTTCTTGTAACGTTTAG 57.814 36.000 5.91 2.13 0.00 1.85
1764 2029 7.556733 AACATGTTCCTTCTTGTAACGTTTA 57.443 32.000 5.91 0.00 0.00 2.01
1767 2032 6.445357 AAAACATGTTCCTTCTTGTAACGT 57.555 33.333 12.39 0.00 0.00 3.99
1837 2103 1.909700 TGGAAAGGATGTGTCTTGGC 58.090 50.000 0.00 0.00 0.00 4.52
1894 2160 8.442384 CGTATGTGTGCTGCATAAATATGAATA 58.558 33.333 18.71 0.00 35.75 1.75
1895 2161 7.041167 ACGTATGTGTGCTGCATAAATATGAAT 60.041 33.333 26.13 9.72 35.75 2.57
1896 2162 6.259829 ACGTATGTGTGCTGCATAAATATGAA 59.740 34.615 26.13 1.63 35.75 2.57
1945 2255 0.771127 GCCTTACCCCATGCCTGATA 59.229 55.000 0.00 0.00 0.00 2.15
2071 2381 1.746157 TATGGGCATGCCATAGGAGT 58.254 50.000 36.56 16.15 37.98 3.85
2481 2792 6.873076 GCATAAAACATTCATCAGGAAACCAA 59.127 34.615 0.00 0.00 39.39 3.67
2484 2795 7.315142 TCTGCATAAAACATTCATCAGGAAAC 58.685 34.615 0.00 0.00 39.39 2.78
2536 2847 1.831106 TCCGGAGCATGTATGTCTTGT 59.169 47.619 0.00 0.00 0.00 3.16
3152 3463 1.210722 GTTTGAAGGTTTTTGGGGCCA 59.789 47.619 4.39 0.00 0.00 5.36
3314 3625 3.245694 GGGAGGTTTGGGGGTTGTAATTA 60.246 47.826 0.00 0.00 0.00 1.40
3327 3638 2.309136 AATGTGGAAGGGGAGGTTTG 57.691 50.000 0.00 0.00 0.00 2.93
3406 3717 2.265367 TGTCTGCCCTGAACCTGATTA 58.735 47.619 0.00 0.00 0.00 1.75
3657 3986 6.072286 AGCATCTGTTTTTCATAGTTGGACTG 60.072 38.462 0.00 0.00 0.00 3.51
3694 4477 3.071602 AGCACACTGAGTAAATCACCACT 59.928 43.478 0.00 0.00 33.22 4.00
3709 4492 1.678101 GGAGTCAAGCAAAAGCACACT 59.322 47.619 0.00 0.00 0.00 3.55
3858 4642 6.297080 ACACATGCAATTCCATTTATTCCA 57.703 33.333 0.00 0.00 0.00 3.53
3859 4643 6.019640 CGAACACATGCAATTCCATTTATTCC 60.020 38.462 0.00 0.00 0.00 3.01
3878 4662 2.267188 ATTCATGTGCATGCGAACAC 57.733 45.000 14.09 6.05 38.65 3.32
3883 4667 1.135053 TCCCAAATTCATGTGCATGCG 60.135 47.619 14.09 0.00 38.65 4.73
3901 4685 2.614229 GGACTGAGCTTTCTCCAGTTCC 60.614 54.545 6.47 6.04 38.58 3.62
3905 4689 1.206849 GAGGGACTGAGCTTTCTCCAG 59.793 57.143 6.78 2.90 41.55 3.86
3944 4730 6.303839 TGCCTTCTAGAACACCAGTTTTTAT 58.696 36.000 0.00 0.00 38.30 1.40
4010 4796 6.201425 TGTTTAACACGAGTTAGGAATGTGTC 59.799 38.462 5.60 0.00 42.50 3.67
4043 4831 7.532682 TTTTTAGACAACAGATTTTTGTGGC 57.467 32.000 0.00 0.00 37.31 5.01
4330 5128 1.103398 GCACACTCCTGCAGGTTTGT 61.103 55.000 31.58 28.72 37.11 2.83
4469 5270 1.470996 GCTTGCCATGTTCAACCCCA 61.471 55.000 0.00 0.00 0.00 4.96
4483 5284 4.722700 TGCTCGAAGGGGGCTTGC 62.723 66.667 0.00 0.00 0.00 4.01
4537 5338 1.954146 CGTTGCAGTAGTGGCGTGT 60.954 57.895 0.00 0.00 0.00 4.49
4564 5365 2.690881 TGTAGCTTCCCCCGGCAT 60.691 61.111 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.