Multiple sequence alignment - TraesCS3A01G001100

Loading Multiple Alignment...

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 TraesCS3A01G001100 chr3A 100.000 4719 0 0 1 4719 429147 433865 0.000000e+00 8715
1 TraesCS3A01G001100 chr3A 91.241 411 35 1 2438 2848 606305 606714 4.120000e-155 558
2 TraesCS3A01G001100 chr3A 94.684 301 14 2 3882 4181 610423 610722 2.570000e-127 466
3 TraesCS3A01G001100 chr3A 80.630 413 52 9 3243 3655 448918 449302 1.280000e-75 294
4 TraesCS3A01G001100 chr3A 89.005 191 12 1 3603 3784 562926 563116 1.320000e-55 228
5 TraesCS3A01G001100 chr3A 83.406 229 21 6 2909 3136 448693 448905 3.730000e-46 196
6 TraesCS3A01G001100 chr3A 84.574 188 17 8 3705 3889 449297 449475 4.850000e-40 176
7 TraesCS3A01G001100 chr3A 91.667 96 6 1 4378 4471 523731353 523731448 1.070000e-26 132
8 TraesCS3A01G001100 chr3A 89.524 105 6 4 4377 4477 557209408 557209511 1.380000e-25 128
9 TraesCS3A01G001100 chr3B 91.297 1896 106 19 2413 4256 266465 268353 0.000000e+00 2532
10 TraesCS3A01G001100 chr3B 89.168 1791 116 33 665 2417 264671 266421 0.000000e+00 2161
11 TraesCS3A01G001100 chr3B 91.628 645 50 3 1 644 264041 264682 0.000000e+00 889
12 TraesCS3A01G001100 chr3B 86.667 555 45 11 3846 4383 504522855 504522313 5.260000e-164 588
13 TraesCS3A01G001100 chr3D 92.525 883 41 13 3017 3889 3337578 3338445 0.000000e+00 1242
14 TraesCS3A01G001100 chr3D 93.913 575 20 3 1852 2417 3336394 3336962 0.000000e+00 854
15 TraesCS3A01G001100 chr3D 93.663 505 31 1 2413 2917 3337006 3337509 0.000000e+00 754
16 TraesCS3A01G001100 chr3D 85.234 684 30 21 665 1326 3335395 3336029 5.150000e-179 638
17 TraesCS3A01G001100 chr3D 89.195 435 37 1 1 435 3334863 3335287 6.950000e-148 534
18 TraesCS3A01G001100 chr3D 87.008 254 17 12 4461 4707 3338801 3339045 6.020000e-69 272
19 TraesCS3A01G001100 chr3D 89.941 169 12 3 4213 4380 3338637 3338801 3.700000e-51 213
20 TraesCS3A01G001100 chr3D 87.288 118 11 3 528 644 3335292 3335406 1.070000e-26 132
21 TraesCS3A01G001100 chr7B 87.748 555 39 11 3843 4380 694882792 694883334 5.190000e-174 621
22 TraesCS3A01G001100 chr7B 85.156 256 27 7 4459 4707 694883338 694883589 7.840000e-63 252
23 TraesCS3A01G001100 chr6B 87.568 555 40 12 3843 4380 160729386 160729928 2.410000e-172 616
24 TraesCS3A01G001100 chr6B 92.366 262 13 5 3846 4107 719484257 719484003 2.680000e-97 366
25 TraesCS3A01G001100 chr5B 87.568 555 40 14 3843 4380 171317589 171318131 2.410000e-172 616
26 TraesCS3A01G001100 chr4A 87.568 555 40 11 3843 4380 687368349 687368891 2.410000e-172 616
27 TraesCS3A01G001100 chr4A 86.842 114 11 3 4370 4479 729347505 729347392 1.780000e-24 124
28 TraesCS3A01G001100 chr2B 87.568 555 40 11 3843 4380 203466910 203467452 2.410000e-172 616
29 TraesCS3A01G001100 chr2B 86.607 112 11 1 4596 4707 87813819 87813926 2.310000e-23 121
30 TraesCS3A01G001100 chr6D 93.407 91 4 1 4377 4465 271233532 271233442 2.960000e-27 134
31 TraesCS3A01G001100 chr1D 92.473 93 5 2 4379 4469 265533228 265533136 1.070000e-26 132
32 TraesCS3A01G001100 chr7D 90.909 99 5 3 4368 4464 481573742 481573838 3.830000e-26 130
33 TraesCS3A01G001100 chr2D 91.489 94 8 0 4391 4484 42852742 42852649 3.830000e-26 130
34 TraesCS3A01G001100 chr5D 90.000 100 6 3 4377 4473 481728814 481728912 4.960000e-25 126
35 TraesCS3A01G001100 chrUn 87.963 108 9 3 4361 4465 238400583 238400689 1.780000e-24 124


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 TraesCS3A01G001100 chr3A 429147 433865 4718 False 8715.000000 8715 100.000000 1 4719 1 chr3A.!!$F1 4718
1 TraesCS3A01G001100 chr3A 606305 610722 4417 False 512.000000 558 92.962500 2438 4181 2 chr3A.!!$F6 1743
2 TraesCS3A01G001100 chr3A 448693 449475 782 False 222.000000 294 82.870000 2909 3889 3 chr3A.!!$F5 980
3 TraesCS3A01G001100 chr3B 264041 268353 4312 False 1860.666667 2532 90.697667 1 4256 3 chr3B.!!$F1 4255
4 TraesCS3A01G001100 chr3B 504522313 504522855 542 True 588.000000 588 86.667000 3846 4383 1 chr3B.!!$R1 537
5 TraesCS3A01G001100 chr3D 3334863 3339045 4182 False 579.875000 1242 89.845875 1 4707 8 chr3D.!!$F1 4706
6 TraesCS3A01G001100 chr7B 694882792 694883589 797 False 436.500000 621 86.452000 3843 4707 2 chr7B.!!$F1 864
7 TraesCS3A01G001100 chr6B 160729386 160729928 542 False 616.000000 616 87.568000 3843 4380 1 chr6B.!!$F1 537
8 TraesCS3A01G001100 chr5B 171317589 171318131 542 False 616.000000 616 87.568000 3843 4380 1 chr5B.!!$F1 537
9 TraesCS3A01G001100 chr4A 687368349 687368891 542 False 616.000000 616 87.568000 3843 4380 1 chr4A.!!$F1 537
10 TraesCS3A01G001100 chr2B 203466910 203467452 542 False 616.000000 616 87.568000 3843 4380 1 chr2B.!!$F2 537

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
846 862 0.032217 GGAGGATGGGAAATGGGCAA 60.032 55.0 0.00 0.0 0.00 4.52 F
880 897 0.252012 TGGGGGCAAATCCGTCAATT 60.252 50.0 0.00 0.0 34.94 2.32 F
1812 1891 0.319211 CTCCGCGTTGTCCAGTTACA 60.319 55.0 4.92 0.0 0.00 2.41 F
3538 6450 0.108585 TGGTGGTGGCAGAGAAAGAC 59.891 55.0 0.00 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1659 1734 0.097674 CAAAATTCTCTGCCGGCGAG 59.902 55.0 30.22 30.22 0.00 5.03 R
2873 3010 0.464373 ATACCCAGTCATGGCAAGCG 60.464 55.0 0.00 0.00 46.19 4.68 R
3695 6607 1.127567 TGCTCTACTTGGTGCACCCT 61.128 55.0 32.62 17.25 34.29 4.34 R
4474 7604 0.952497 AACCGTGCTGTGCTCAGATG 60.952 55.0 19.61 9.51 43.76 2.90 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
28 29 1.067212 GAGTCGGTAGCGTGGATGAAT 59.933 52.381 14.79 0.00 0.00 2.57
69 70 0.905357 CTTCTCCTCCATTGGACGGT 59.095 55.000 16.20 0.00 31.94 4.83
79 80 2.504367 CATTGGACGGTTTCTCCACTT 58.496 47.619 0.00 0.00 37.54 3.16
92 93 0.612174 TCCACTTCTGGACTCCCTCG 60.612 60.000 0.00 0.00 42.15 4.63
104 105 4.473520 CCCTCGGCACCGCTGATT 62.474 66.667 3.66 0.00 43.40 2.57
121 122 3.495331 TGATTGCTCCTAAACCTTTGCA 58.505 40.909 0.00 0.00 0.00 4.08
127 128 4.462483 TGCTCCTAAACCTTTGCAAATAGG 59.538 41.667 22.56 22.56 37.56 2.57
129 130 4.672899 TCCTAAACCTTTGCAAATAGGCT 58.327 39.130 23.30 8.96 34.79 4.58
132 133 0.527565 ACCTTTGCAAATAGGCTGCG 59.472 50.000 13.23 0.00 42.97 5.18
177 178 0.916086 TTGCGATTATCCCACCCACT 59.084 50.000 0.00 0.00 0.00 4.00
215 216 2.508716 TCCCTCACTACCACTATCGAGT 59.491 50.000 0.00 0.00 35.80 4.18
256 257 0.693622 TGTAAGCACCCCAAATCCGA 59.306 50.000 0.00 0.00 0.00 4.55
262 263 2.316586 ACCCCAAATCCGATGCCCT 61.317 57.895 0.00 0.00 0.00 5.19
401 402 3.945434 GCATGGACATGAGGCGCG 61.945 66.667 15.99 0.00 41.20 6.86
404 405 1.301244 ATGGACATGAGGCGCGATC 60.301 57.895 12.10 7.69 0.00 3.69
410 411 0.602106 CATGAGGCGCGATCCAAGAT 60.602 55.000 12.10 0.00 0.00 2.40
459 460 7.012138 GGGAGCATGAATATATAGTTGATGCAG 59.988 40.741 20.89 0.00 44.93 4.41
472 473 2.803155 GATGCAGGGCGGAACAGTGA 62.803 60.000 0.00 0.00 0.00 3.41
519 521 2.489329 CGATGGGAAAAAGCATCACACT 59.511 45.455 0.00 0.00 31.97 3.55
547 549 7.710676 AATAAATGCGCCCCATGTATAAATA 57.289 32.000 4.18 0.00 34.00 1.40
551 553 6.603940 ATGCGCCCCATGTATAAATAATTT 57.396 33.333 4.18 0.00 31.48 1.82
552 554 7.710676 ATGCGCCCCATGTATAAATAATTTA 57.289 32.000 4.18 0.00 31.48 1.40
554 556 6.717540 TGCGCCCCATGTATAAATAATTTACT 59.282 34.615 4.18 0.00 0.00 2.24
555 557 7.094549 TGCGCCCCATGTATAAATAATTTACTC 60.095 37.037 4.18 0.00 0.00 2.59
636 638 0.328258 GGGCGGGCTATCCATAATGT 59.672 55.000 0.26 0.00 34.36 2.71
644 646 5.707298 CGGGCTATCCATAATGTTGAAGATT 59.293 40.000 0.00 0.00 34.36 2.40
645 647 6.207417 CGGGCTATCCATAATGTTGAAGATTT 59.793 38.462 0.00 0.00 34.36 2.17
649 651 9.890352 GCTATCCATAATGTTGAAGATTTTCTC 57.110 33.333 0.00 0.00 34.31 2.87
677 679 5.649782 TTTTGAGGGAATGCTGAAGATTC 57.350 39.130 0.00 0.00 0.00 2.52
678 680 4.581309 TTGAGGGAATGCTGAAGATTCT 57.419 40.909 0.00 0.00 31.56 2.40
679 681 4.148128 TGAGGGAATGCTGAAGATTCTC 57.852 45.455 0.00 0.00 31.36 2.87
680 682 3.779183 TGAGGGAATGCTGAAGATTCTCT 59.221 43.478 0.00 0.00 42.31 3.10
681 683 4.964897 TGAGGGAATGCTGAAGATTCTCTA 59.035 41.667 0.00 0.00 40.16 2.43
682 684 5.426509 TGAGGGAATGCTGAAGATTCTCTAA 59.573 40.000 0.00 0.00 40.16 2.10
683 685 6.100859 TGAGGGAATGCTGAAGATTCTCTAAT 59.899 38.462 0.00 0.00 40.16 1.73
684 686 6.297582 AGGGAATGCTGAAGATTCTCTAATG 58.702 40.000 0.00 0.00 38.61 1.90
686 688 6.204495 GGGAATGCTGAAGATTCTCTAATGAC 59.796 42.308 0.00 0.00 31.56 3.06
691 694 8.571461 TGCTGAAGATTCTCTAATGACAAATT 57.429 30.769 0.00 0.00 0.00 1.82
835 851 2.795231 TTCTTGCAAGAGGAGGATGG 57.205 50.000 27.02 0.00 36.22 3.51
837 853 0.914644 CTTGCAAGAGGAGGATGGGA 59.085 55.000 22.31 0.00 0.00 4.37
846 862 0.032217 GGAGGATGGGAAATGGGCAA 60.032 55.000 0.00 0.00 0.00 4.52
847 863 1.413517 GGAGGATGGGAAATGGGCAAT 60.414 52.381 0.00 0.00 0.00 3.56
848 864 1.690352 GAGGATGGGAAATGGGCAATG 59.310 52.381 0.00 0.00 0.00 2.82
849 865 1.008693 AGGATGGGAAATGGGCAATGT 59.991 47.619 0.00 0.00 0.00 2.71
850 866 1.139455 GGATGGGAAATGGGCAATGTG 59.861 52.381 0.00 0.00 0.00 3.21
851 867 1.832998 GATGGGAAATGGGCAATGTGT 59.167 47.619 0.00 0.00 0.00 3.72
852 868 1.265236 TGGGAAATGGGCAATGTGTC 58.735 50.000 0.00 0.00 0.00 3.67
861 878 1.597742 GGCAATGTGTCAGTGTCACT 58.402 50.000 19.03 0.00 34.10 3.41
880 897 0.252012 TGGGGGCAAATCCGTCAATT 60.252 50.000 0.00 0.00 34.94 2.32
907 930 4.814294 CCGCTGCCGTGGACTACC 62.814 72.222 0.66 0.00 43.70 3.18
1292 1336 5.412640 TCCGTCGCAGAGATTAATTTTGTA 58.587 37.500 0.00 0.00 36.95 2.41
1343 1387 9.304731 GCAAAAAGCACATATCTGAAATTATGA 57.695 29.630 4.28 0.00 44.79 2.15
1348 1392 9.624373 AAGCACATATCTGAAATTATGACTTCT 57.376 29.630 4.28 0.00 31.64 2.85
1350 1394 8.219769 GCACATATCTGAAATTATGACTTCTCG 58.780 37.037 4.28 0.00 31.64 4.04
1352 1396 8.424918 ACATATCTGAAATTATGACTTCTCGGT 58.575 33.333 4.28 0.00 31.64 4.69
1353 1397 9.265901 CATATCTGAAATTATGACTTCTCGGTT 57.734 33.333 0.00 0.00 0.00 4.44
1354 1398 6.968131 TCTGAAATTATGACTTCTCGGTTG 57.032 37.500 0.00 0.00 0.00 3.77
1355 1399 6.697395 TCTGAAATTATGACTTCTCGGTTGA 58.303 36.000 0.00 0.00 0.00 3.18
1356 1400 7.158697 TCTGAAATTATGACTTCTCGGTTGAA 58.841 34.615 0.00 0.00 0.00 2.69
1357 1401 7.659799 TCTGAAATTATGACTTCTCGGTTGAAA 59.340 33.333 0.00 0.00 0.00 2.69
1363 1407 3.067106 GACTTCTCGGTTGAAATGCTGA 58.933 45.455 0.00 0.00 0.00 4.26
1410 1454 5.733620 ATTGAAATGCAGTCAAATCTGGT 57.266 34.783 16.91 0.53 38.44 4.00
1415 1459 7.092079 TGAAATGCAGTCAAATCTGGTTTATG 58.908 34.615 0.48 0.00 36.12 1.90
1448 1492 2.287188 ACTCTTGCTGAACATTTGTGCG 60.287 45.455 0.00 0.00 0.00 5.34
1449 1493 1.675483 TCTTGCTGAACATTTGTGCGT 59.325 42.857 0.00 0.00 0.00 5.24
1450 1494 2.098934 TCTTGCTGAACATTTGTGCGTT 59.901 40.909 0.00 0.00 0.00 4.84
1465 1517 9.935682 CATTTGTGCGTTCTAAACATATAATCT 57.064 29.630 0.00 0.00 0.00 2.40
1516 1568 1.962807 CAATGCTGGACTTTGGGTGAA 59.037 47.619 0.00 0.00 31.43 3.18
1557 1622 5.190726 TGTGGGATAGGTGAATGTGATACAA 59.809 40.000 0.00 0.00 0.00 2.41
1570 1642 8.439172 TGAATGTGATACAATTGGATGGATCTA 58.561 33.333 8.22 0.00 40.66 1.98
1573 1645 8.033178 TGTGATACAATTGGATGGATCTAAGA 57.967 34.615 8.22 0.00 40.66 2.10
1628 1703 5.324409 TGGTTTGCCATCTAAGATTTCACT 58.676 37.500 0.00 0.00 40.46 3.41
1634 1709 3.117738 CCATCTAAGATTTCACTGGCCCT 60.118 47.826 0.00 0.00 0.00 5.19
1653 1728 1.456196 TTTCCATGTTTTCGGCGCCA 61.456 50.000 28.98 11.20 0.00 5.69
1690 1765 5.450137 GCAGAGAATTTTGATGATGGGTCAG 60.450 44.000 0.00 0.00 37.87 3.51
1726 1801 5.248640 AGCATCCCGATATGAAGGTATTTG 58.751 41.667 1.62 0.00 0.00 2.32
1764 1843 7.886338 CAAACTTTTGCTTCTCTTATTAGGGT 58.114 34.615 0.00 0.00 0.00 4.34
1765 1844 9.010029 CAAACTTTTGCTTCTCTTATTAGGGTA 57.990 33.333 0.00 0.00 0.00 3.69
1766 1845 9.582648 AAACTTTTGCTTCTCTTATTAGGGTAA 57.417 29.630 0.00 0.00 0.00 2.85
1812 1891 0.319211 CTCCGCGTTGTCCAGTTACA 60.319 55.000 4.92 0.00 0.00 2.41
1815 1894 1.214367 CGCGTTGTCCAGTTACACTT 58.786 50.000 0.00 0.00 0.00 3.16
1830 1909 9.772973 CCAGTTACACTTATGCATAGGTTTATA 57.227 33.333 18.07 8.97 0.00 0.98
1835 1914 8.997621 ACACTTATGCATAGGTTTATATACCG 57.002 34.615 18.07 7.09 43.21 4.02
1842 1922 9.817809 ATGCATAGGTTTATATACCGTATTCTG 57.182 33.333 0.00 2.17 43.21 3.02
1880 1960 5.880332 TGCTGATGTACAATAGGAAGGTTTC 59.120 40.000 0.00 0.00 0.00 2.78
1931 2011 9.219497 GCGTAGAATATCCGTATGTCTTATTAC 57.781 37.037 0.00 0.00 0.00 1.89
2172 2253 1.208165 CCAAGGCCAGAGGTTAGGGT 61.208 60.000 5.01 0.00 0.00 4.34
2173 2254 0.698818 CAAGGCCAGAGGTTAGGGTT 59.301 55.000 5.01 0.00 0.00 4.11
2174 2255 1.913419 CAAGGCCAGAGGTTAGGGTTA 59.087 52.381 5.01 0.00 0.00 2.85
2175 2256 1.880941 AGGCCAGAGGTTAGGGTTAG 58.119 55.000 5.01 0.00 0.00 2.34
2176 2257 0.837940 GGCCAGAGGTTAGGGTTAGG 59.162 60.000 0.00 0.00 0.00 2.69
2177 2258 0.837940 GCCAGAGGTTAGGGTTAGGG 59.162 60.000 0.00 0.00 0.00 3.53
2194 2275 3.471354 GGATTTACCCCTCGTGTGG 57.529 57.895 0.00 0.00 0.00 4.17
2196 2277 1.832998 GGATTTACCCCTCGTGTGGTA 59.167 52.381 0.00 0.00 36.04 3.25
2292 2381 4.260170 ACAAAGGCAGATGAAGAGCTTAG 58.740 43.478 0.00 0.00 0.00 2.18
2510 2647 8.519799 TTTTCTTCAGTTCAGTAGATGGTTTT 57.480 30.769 0.00 0.00 0.00 2.43
2630 2767 3.795688 TCTCCAGAGTTGAAAGGCATT 57.204 42.857 0.00 0.00 0.00 3.56
2645 2782 1.507141 GCATTTATGCGTCCGAGGGG 61.507 60.000 0.00 0.00 44.67 4.79
2749 2886 3.264666 CTCGACAGCTGGAGCATAC 57.735 57.895 19.93 0.00 45.16 2.39
2774 2911 5.527214 TCTTTATGTGCCTGGATCAAATACG 59.473 40.000 0.00 0.00 0.00 3.06
2780 2917 2.868044 GCCTGGATCAAATACGCTCGAT 60.868 50.000 0.00 0.00 0.00 3.59
2786 2923 3.520290 TCAAATACGCTCGATCCACTT 57.480 42.857 0.00 0.00 0.00 3.16
2982 3135 9.915629 ACTGTGTTTTAGTCAATTGTTGTAAAA 57.084 25.926 5.13 10.69 0.00 1.52
2989 3265 8.795786 TTAGTCAATTGTTGTAAAACAGATGC 57.204 30.769 5.13 0.54 33.73 3.91
2992 3268 7.436080 AGTCAATTGTTGTAAAACAGATGCTTG 59.564 33.333 5.13 0.98 33.73 4.01
3013 3290 7.174080 TGCTTGCATACAAAACTGTATTCTGTA 59.826 33.333 0.00 0.00 34.74 2.74
3015 3292 9.891828 CTTGCATACAAAACTGTATTCTGTAAA 57.108 29.630 0.00 0.00 34.74 2.01
3281 4626 3.056328 GGCCCGTCCTTGTCAAGC 61.056 66.667 7.09 0.00 0.00 4.01
3538 6450 0.108585 TGGTGGTGGCAGAGAAAGAC 59.891 55.000 0.00 0.00 0.00 3.01
3541 6453 0.249868 TGGTGGCAGAGAAAGACGTG 60.250 55.000 0.00 0.00 0.00 4.49
3695 6607 1.444119 GCACTCGGTTTGGTTCAGCA 61.444 55.000 0.00 0.00 0.00 4.41
3747 6673 4.462508 GCACTAGCTATAGCCATCATCA 57.537 45.455 21.17 0.00 43.38 3.07
3748 6674 4.431809 GCACTAGCTATAGCCATCATCAG 58.568 47.826 21.17 9.29 43.38 2.90
3848 6860 9.609950 CGCTAGTAGTATTCTAATTGTAACCTC 57.390 37.037 0.00 0.00 0.00 3.85
3939 7046 2.754946 TGGGTCGAATCACCTAACAC 57.245 50.000 0.00 0.00 36.57 3.32
4151 7259 6.339730 TCTTGATTGCACATTTTGTTCTTGT 58.660 32.000 0.00 0.00 0.00 3.16
4168 7276 8.149973 TGTTCTTGTAAAATGGAAGTAGTGAC 57.850 34.615 0.00 0.00 0.00 3.67
4194 7317 4.622313 CACATTTTGGATGGATGTTCAACG 59.378 41.667 0.00 0.00 32.01 4.10
4207 7330 5.467735 GGATGTTCAACGGTTTGTTAGTAGT 59.532 40.000 0.00 0.00 39.29 2.73
4212 7335 6.740411 TCAACGGTTTGTTAGTAGTTTGTT 57.260 33.333 0.00 0.00 39.29 2.83
4260 7384 6.665992 TCTCTCCTTTTACTTGAAGCAGTA 57.334 37.500 0.00 0.00 0.00 2.74
4261 7385 6.692486 TCTCTCCTTTTACTTGAAGCAGTAG 58.308 40.000 0.00 0.00 30.77 2.57
4262 7386 6.493802 TCTCTCCTTTTACTTGAAGCAGTAGA 59.506 38.462 0.00 0.00 30.77 2.59
4299 7423 1.745087 CACAGTCCAGCACAACAACTT 59.255 47.619 0.00 0.00 0.00 2.66
4307 7431 4.111916 CCAGCACAACAACTTTAAACTGG 58.888 43.478 0.00 0.00 36.53 4.00
4355 7479 7.953005 TTGATTATCTTCATTTGGGCTAACA 57.047 32.000 0.00 0.00 0.00 2.41
4356 7480 8.537728 TTGATTATCTTCATTTGGGCTAACAT 57.462 30.769 0.00 0.00 0.00 2.71
4357 7481 8.537728 TGATTATCTTCATTTGGGCTAACATT 57.462 30.769 0.00 0.00 0.00 2.71
4358 7482 9.639563 TGATTATCTTCATTTGGGCTAACATTA 57.360 29.630 0.00 0.00 0.00 1.90
4407 7531 8.113173 ACTTCCTCTAAACTAATATAGGAGCG 57.887 38.462 0.00 0.00 31.90 5.03
4408 7532 7.724951 ACTTCCTCTAAACTAATATAGGAGCGT 59.275 37.037 0.00 0.00 31.90 5.07
4409 7533 8.474710 TTCCTCTAAACTAATATAGGAGCGTT 57.525 34.615 0.00 0.00 31.90 4.84
4410 7534 8.474710 TCCTCTAAACTAATATAGGAGCGTTT 57.525 34.615 0.00 0.00 0.00 3.60
4411 7535 9.578576 TCCTCTAAACTAATATAGGAGCGTTTA 57.421 33.333 0.00 0.00 0.00 2.01
4412 7536 9.843334 CCTCTAAACTAATATAGGAGCGTTTAG 57.157 37.037 11.45 11.45 42.15 1.85
4425 7549 7.829378 AGGAGCGTTTAGATTACTACTTTTG 57.171 36.000 0.00 0.00 0.00 2.44
4426 7550 7.384477 AGGAGCGTTTAGATTACTACTTTTGT 58.616 34.615 0.00 0.00 0.00 2.83
4427 7551 8.526147 AGGAGCGTTTAGATTACTACTTTTGTA 58.474 33.333 0.00 0.00 0.00 2.41
4428 7552 9.310716 GGAGCGTTTAGATTACTACTTTTGTAT 57.689 33.333 0.00 0.00 33.96 2.29
4440 7564 9.918630 TTACTACTTTTGTATTCTAAACGCTCT 57.081 29.630 0.00 0.00 33.96 4.09
4441 7565 8.828688 ACTACTTTTGTATTCTAAACGCTCTT 57.171 30.769 0.00 0.00 33.96 2.85
4442 7566 9.918630 ACTACTTTTGTATTCTAAACGCTCTTA 57.081 29.630 0.00 0.00 33.96 2.10
4455 7579 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
4456 7580 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
4457 7581 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
4458 7582 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
4459 7583 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
4460 7584 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
4474 7604 5.532664 ACGGAGGGAGTAGATTACAATTC 57.467 43.478 0.00 0.00 0.00 2.17
4538 7670 5.534654 TGTCCGTTTCTTTTGATTGGAGATT 59.465 36.000 0.00 0.00 0.00 2.40
4540 7672 6.582672 GTCCGTTTCTTTTGATTGGAGATTTC 59.417 38.462 0.00 0.00 0.00 2.17
4547 7679 8.482852 TCTTTTGATTGGAGATTTCTTTTCCT 57.517 30.769 0.00 0.00 32.12 3.36
4548 7680 8.362639 TCTTTTGATTGGAGATTTCTTTTCCTG 58.637 33.333 0.00 0.00 32.12 3.86
4576 7712 3.273434 GGACATGCTGTAGAAGAATGCA 58.727 45.455 0.00 0.00 45.08 3.96
4584 7720 7.628769 TGCTGTAGAAGAATGCATTTATCAA 57.371 32.000 14.33 4.79 0.00 2.57
4619 7756 3.633986 GGCCTCCCTTTTGATATGTTCTG 59.366 47.826 0.00 0.00 0.00 3.02
4636 7773 9.965824 ATATGTTCTGTAGTTTCTTTTGTTTGG 57.034 29.630 0.00 0.00 0.00 3.28
4716 7854 4.363991 AGGAACTGAGACTGCTTCATTT 57.636 40.909 0.00 0.00 37.18 2.32
4717 7855 4.070716 AGGAACTGAGACTGCTTCATTTG 58.929 43.478 0.00 0.00 37.18 2.32
4718 7856 3.817647 GGAACTGAGACTGCTTCATTTGT 59.182 43.478 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 6.309251 GCTCTAGAATTATTCATCCACGCTAC 59.691 42.308 7.74 0.00 0.00 3.58
28 29 6.222038 AGGAAATGACACGCTCTAGAATTA 57.778 37.500 0.00 0.00 0.00 1.40
79 80 2.680352 GTGCCGAGGGAGTCCAGA 60.680 66.667 12.30 0.00 34.83 3.86
100 101 3.495331 TGCAAAGGTTTAGGAGCAATCA 58.505 40.909 0.00 0.00 0.00 2.57
104 105 4.462483 CCTATTTGCAAAGGTTTAGGAGCA 59.538 41.667 23.57 0.00 0.00 4.26
121 122 2.481449 CGAAGAGGTACGCAGCCTATTT 60.481 50.000 2.66 0.00 37.64 1.40
127 128 2.886124 GCCGAAGAGGTACGCAGC 60.886 66.667 0.00 0.00 43.70 5.25
129 130 3.766691 GGGCCGAAGAGGTACGCA 61.767 66.667 0.00 0.00 43.70 5.24
132 133 2.433146 GGAGGGGCCGAAGAGGTAC 61.433 68.421 0.00 0.00 43.70 3.34
177 178 0.981277 GGAATGAGGGGGTCGGAGAA 60.981 60.000 0.00 0.00 39.69 2.87
215 216 0.827507 GGTTTGAGCCTTTGGGAGCA 60.828 55.000 0.00 0.00 33.58 4.26
216 217 0.540597 AGGTTTGAGCCTTTGGGAGC 60.541 55.000 0.00 0.00 34.71 4.70
242 243 2.785425 GGCATCGGATTTGGGGTGC 61.785 63.158 0.00 0.00 0.00 5.01
256 257 0.188587 TCTCGGGTATCAGAGGGCAT 59.811 55.000 3.16 0.00 35.34 4.40
262 263 1.412710 GTTGCCATCTCGGGTATCAGA 59.587 52.381 0.00 0.00 34.06 3.27
401 402 2.352960 GCAACGGAGTGAATCTTGGATC 59.647 50.000 0.00 0.00 45.00 3.36
404 405 1.813513 AGCAACGGAGTGAATCTTGG 58.186 50.000 0.00 0.00 45.00 3.61
410 411 1.275010 TGATGCTAGCAACGGAGTGAA 59.725 47.619 23.54 0.00 45.00 3.18
459 460 2.109126 GCTGATCACTGTTCCGCCC 61.109 63.158 0.00 0.00 0.00 6.13
472 473 0.800631 CATGTCGTGTTGCTGCTGAT 59.199 50.000 0.00 0.00 0.00 2.90
519 521 8.809468 TTATACATGGGGCGCATTTATTATTA 57.191 30.769 22.90 7.42 0.00 0.98
584 586 2.170166 CTAACTCTTGCAATGGCCCAA 58.830 47.619 0.00 0.00 40.13 4.12
654 656 5.776716 AGAATCTTCAGCATTCCCTCAAAAA 59.223 36.000 0.00 0.00 31.52 1.94
655 657 5.327732 AGAATCTTCAGCATTCCCTCAAAA 58.672 37.500 0.00 0.00 31.52 2.44
656 658 4.927049 AGAATCTTCAGCATTCCCTCAAA 58.073 39.130 0.00 0.00 31.52 2.69
657 659 4.521146 GAGAATCTTCAGCATTCCCTCAA 58.479 43.478 0.00 0.00 31.52 3.02
658 660 4.148128 GAGAATCTTCAGCATTCCCTCA 57.852 45.455 0.00 0.00 31.52 3.86
675 677 9.859427 CTGCCAATTTAATTTGTCATTAGAGAA 57.141 29.630 8.77 0.00 0.00 2.87
676 678 9.241919 TCTGCCAATTTAATTTGTCATTAGAGA 57.758 29.630 8.77 0.00 0.00 3.10
683 685 9.241919 TCTTAGATCTGCCAATTTAATTTGTCA 57.758 29.630 5.18 2.35 0.00 3.58
696 699 8.433249 AAGAGAATCATATCTTAGATCTGCCA 57.567 34.615 5.18 0.00 35.41 4.92
789 792 6.481434 TTACTGGTAGCTAAAGAATCCTCC 57.519 41.667 10.85 0.00 0.00 4.30
807 823 7.050377 TCCTCCTCTTGCAAGAATTATTACTG 58.950 38.462 28.16 13.88 34.03 2.74
835 851 1.895131 ACTGACACATTGCCCATTTCC 59.105 47.619 0.00 0.00 0.00 3.13
837 853 2.297033 GACACTGACACATTGCCCATTT 59.703 45.455 0.00 0.00 0.00 2.32
852 868 0.540365 ATTTGCCCCCAGTGACACTG 60.540 55.000 25.83 25.83 45.53 3.66
861 878 0.252012 AATTGACGGATTTGCCCCCA 60.252 50.000 0.00 0.00 0.00 4.96
907 930 2.114670 GGTGATGGTGATGCGTGGG 61.115 63.158 0.00 0.00 0.00 4.61
937 966 2.522193 GACTAGAGGCCTCCCGGG 60.522 72.222 29.54 16.85 35.76 5.73
939 968 0.684805 AGTTGACTAGAGGCCTCCCG 60.685 60.000 29.54 21.68 35.76 5.14
940 969 1.116308 GAGTTGACTAGAGGCCTCCC 58.884 60.000 29.54 15.99 0.00 4.30
942 971 0.741915 CGGAGTTGACTAGAGGCCTC 59.258 60.000 26.22 26.22 0.00 4.70
944 973 1.142097 GCGGAGTTGACTAGAGGCC 59.858 63.158 0.00 0.00 0.00 5.19
945 974 1.142097 GGCGGAGTTGACTAGAGGC 59.858 63.158 0.00 0.00 0.00 4.70
946 975 0.741915 GAGGCGGAGTTGACTAGAGG 59.258 60.000 0.00 0.00 0.00 3.69
947 976 0.741915 GGAGGCGGAGTTGACTAGAG 59.258 60.000 0.00 0.00 0.00 2.43
948 977 1.030488 CGGAGGCGGAGTTGACTAGA 61.030 60.000 0.00 0.00 0.00 2.43
949 978 1.433879 CGGAGGCGGAGTTGACTAG 59.566 63.158 0.00 0.00 0.00 2.57
950 979 2.707849 GCGGAGGCGGAGTTGACTA 61.708 63.158 0.00 0.00 0.00 2.59
951 980 4.070552 GCGGAGGCGGAGTTGACT 62.071 66.667 0.00 0.00 0.00 3.41
1292 1336 0.257039 GCATCATGGACTTGGGGAGT 59.743 55.000 0.00 0.00 42.70 3.85
1340 1384 3.438087 CAGCATTTCAACCGAGAAGTCAT 59.562 43.478 0.00 0.00 0.00 3.06
1341 1385 2.807967 CAGCATTTCAACCGAGAAGTCA 59.192 45.455 0.00 0.00 0.00 3.41
1342 1386 3.067106 TCAGCATTTCAACCGAGAAGTC 58.933 45.455 0.00 0.00 0.00 3.01
1343 1387 2.808543 GTCAGCATTTCAACCGAGAAGT 59.191 45.455 0.00 0.00 0.00 3.01
1344 1388 3.070018 AGTCAGCATTTCAACCGAGAAG 58.930 45.455 0.00 0.00 0.00 2.85
1345 1389 2.807967 CAGTCAGCATTTCAACCGAGAA 59.192 45.455 0.00 0.00 0.00 2.87
1346 1390 2.416747 CAGTCAGCATTTCAACCGAGA 58.583 47.619 0.00 0.00 0.00 4.04
1347 1391 1.135859 GCAGTCAGCATTTCAACCGAG 60.136 52.381 0.00 0.00 44.79 4.63
1348 1392 0.874390 GCAGTCAGCATTTCAACCGA 59.126 50.000 0.00 0.00 44.79 4.69
1363 1407 0.038526 CCGAGAACAGTAACGGCAGT 60.039 55.000 0.00 0.00 38.98 4.40
1410 1454 6.884295 AGCAAGAGTTATGCAGGTAACATAAA 59.116 34.615 11.71 0.00 46.22 1.40
1415 1459 4.253685 TCAGCAAGAGTTATGCAGGTAAC 58.746 43.478 2.54 2.54 46.22 2.50
1516 1568 9.730705 CTATCCCACATATATGTTCAGTTCAAT 57.269 33.333 15.85 4.59 39.39 2.57
1557 1622 2.369860 TGCGCTCTTAGATCCATCCAAT 59.630 45.455 9.73 0.00 0.00 3.16
1628 1703 0.965439 CGAAAACATGGAAAGGGCCA 59.035 50.000 6.18 0.00 43.23 5.36
1634 1709 1.287503 GGCGCCGAAAACATGGAAA 59.712 52.632 12.58 0.00 0.00 3.13
1659 1734 0.097674 CAAAATTCTCTGCCGGCGAG 59.902 55.000 30.22 30.22 0.00 5.03
1690 1765 1.522580 GATGCTCGGGTTCCTCTGC 60.523 63.158 0.00 0.00 0.00 4.26
1757 1836 3.130693 GCACTGTCTCGTCTTACCCTAAT 59.869 47.826 0.00 0.00 0.00 1.73
1758 1837 2.490903 GCACTGTCTCGTCTTACCCTAA 59.509 50.000 0.00 0.00 0.00 2.69
1759 1838 2.089980 GCACTGTCTCGTCTTACCCTA 58.910 52.381 0.00 0.00 0.00 3.53
1760 1839 0.889306 GCACTGTCTCGTCTTACCCT 59.111 55.000 0.00 0.00 0.00 4.34
1761 1840 0.889306 AGCACTGTCTCGTCTTACCC 59.111 55.000 0.00 0.00 0.00 3.69
1762 1841 1.402984 CCAGCACTGTCTCGTCTTACC 60.403 57.143 0.00 0.00 0.00 2.85
1763 1842 1.269998 ACCAGCACTGTCTCGTCTTAC 59.730 52.381 0.00 0.00 0.00 2.34
1764 1843 1.617322 ACCAGCACTGTCTCGTCTTA 58.383 50.000 0.00 0.00 0.00 2.10
1765 1844 0.753262 AACCAGCACTGTCTCGTCTT 59.247 50.000 0.00 0.00 0.00 3.01
1766 1845 0.753262 AAACCAGCACTGTCTCGTCT 59.247 50.000 0.00 0.00 0.00 4.18
1835 1914 9.875691 TCAGCATATGTATATCCAACAGAATAC 57.124 33.333 4.29 0.00 0.00 1.89
1842 1922 9.435688 TTGTACATCAGCATATGTATATCCAAC 57.564 33.333 12.58 3.86 42.63 3.77
1849 1929 9.881649 CTTCCTATTGTACATCAGCATATGTAT 57.118 33.333 12.58 3.48 42.63 2.29
1931 2011 8.738645 AATCAGTAACCTTTAATTAGAGGCTG 57.261 34.615 19.48 17.51 36.48 4.85
1946 2026 5.236695 GGATTTTCCTAGCGAATCAGTAACC 59.763 44.000 10.92 0.00 32.53 2.85
2065 2146 3.763360 CACTGGAAATGGGCTTCACAATA 59.237 43.478 0.00 0.00 0.00 1.90
2176 2257 0.616891 ACCACACGAGGGGTAAATCC 59.383 55.000 4.41 0.00 35.09 3.01
2177 2258 2.234414 TGTACCACACGAGGGGTAAATC 59.766 50.000 16.02 4.58 41.09 2.17
2194 2275 7.602644 TCCAGATGCCGAATATAGAAATTGTAC 59.397 37.037 0.00 0.00 0.00 2.90
2196 2277 6.533730 TCCAGATGCCGAATATAGAAATTGT 58.466 36.000 0.00 0.00 0.00 2.71
2292 2381 5.008019 TCGGCAATCTCTTTCTTTGCATATC 59.992 40.000 8.86 0.00 45.80 1.63
2428 2565 5.289675 CAGAACGAGAAAGTTGCCTACATAG 59.710 44.000 0.00 0.00 34.00 2.23
2630 2767 2.727392 CCACCCCTCGGACGCATAA 61.727 63.158 0.00 0.00 0.00 1.90
2645 2782 5.417580 TGCCTCCATAAGTTTCATAAACCAC 59.582 40.000 0.00 0.00 42.34 4.16
2749 2886 6.293081 CGTATTTGATCCAGGCACATAAAGAG 60.293 42.308 0.00 0.00 0.00 2.85
2774 2911 6.701841 TCACAAATATAGAAAGTGGATCGAGC 59.298 38.462 0.00 0.00 0.00 5.03
2873 3010 0.464373 ATACCCAGTCATGGCAAGCG 60.464 55.000 0.00 0.00 46.19 4.68
2931 3068 4.885413 ACAATTTGTGTCATGACCAATGG 58.115 39.130 22.85 16.56 34.38 3.16
2982 3135 4.279169 ACAGTTTTGTATGCAAGCATCTGT 59.721 37.500 11.32 13.62 37.82 3.41
3112 3586 3.074412 GCGGATGAAAACTCCTTCTGAA 58.926 45.455 0.00 0.00 0.00 3.02
3281 4626 2.352805 GTCCTTGCCTCCCCAGTG 59.647 66.667 0.00 0.00 0.00 3.66
3538 6450 3.965539 CTCCTTCAGCCTGGGCACG 62.966 68.421 14.39 4.66 44.88 5.34
3541 6453 1.148048 GATCTCCTTCAGCCTGGGC 59.852 63.158 3.00 3.00 42.33 5.36
3596 6508 2.815589 GCACCTTCTTCACATTGGACCT 60.816 50.000 0.00 0.00 0.00 3.85
3695 6607 1.127567 TGCTCTACTTGGTGCACCCT 61.128 55.000 32.62 17.25 34.29 4.34
3747 6673 3.698539 GAGACCGTACCTAAGTAAAGGCT 59.301 47.826 0.00 0.00 40.62 4.58
3748 6674 3.698539 AGAGACCGTACCTAAGTAAAGGC 59.301 47.826 0.00 0.00 40.62 4.35
3820 6832 9.392021 GGTTACAATTAGAATACTACTAGCGTC 57.608 37.037 0.00 0.00 0.00 5.19
3848 6860 7.878477 TTTTCTTTGCAAAGCAGAAGATATG 57.122 32.000 30.35 7.25 40.61 1.78
3874 6888 5.749462 CCACATTCAGTAATTTCCTCTCCT 58.251 41.667 0.00 0.00 0.00 3.69
3876 6890 4.034510 CGCCACATTCAGTAATTTCCTCTC 59.965 45.833 0.00 0.00 0.00 3.20
3877 6891 3.941483 CGCCACATTCAGTAATTTCCTCT 59.059 43.478 0.00 0.00 0.00 3.69
3878 6892 3.938963 TCGCCACATTCAGTAATTTCCTC 59.061 43.478 0.00 0.00 0.00 3.71
3879 6893 3.689649 GTCGCCACATTCAGTAATTTCCT 59.310 43.478 0.00 0.00 0.00 3.36
3881 6895 4.391830 TCTGTCGCCACATTCAGTAATTTC 59.608 41.667 0.00 0.00 0.00 2.17
3939 7046 5.105595 TGTCAAGGTCATATGTCTCTGTCTG 60.106 44.000 1.90 0.00 0.00 3.51
4151 7259 5.616270 TGTGCAGTCACTACTTCCATTTTA 58.384 37.500 0.00 0.00 43.49 1.52
4158 7266 4.515191 TCCAAAATGTGCAGTCACTACTTC 59.485 41.667 0.00 0.00 43.49 3.01
4164 7272 2.557924 TCCATCCAAAATGTGCAGTCAC 59.442 45.455 0.00 0.00 43.40 3.67
4168 7276 3.880047 ACATCCATCCAAAATGTGCAG 57.120 42.857 0.00 0.00 32.58 4.41
4194 7317 6.970613 CACTTCCAACAAACTACTAACAAACC 59.029 38.462 0.00 0.00 0.00 3.27
4207 7330 4.994852 CCTAGACGAATCACTTCCAACAAA 59.005 41.667 0.00 0.00 0.00 2.83
4212 7335 3.427573 TCACCTAGACGAATCACTTCCA 58.572 45.455 0.00 0.00 0.00 3.53
4260 7384 7.391833 GGACTGTGAAATTTAGTGGATCTTTCT 59.608 37.037 0.00 0.00 0.00 2.52
4261 7385 7.174946 TGGACTGTGAAATTTAGTGGATCTTTC 59.825 37.037 0.00 0.00 0.00 2.62
4262 7386 7.004086 TGGACTGTGAAATTTAGTGGATCTTT 58.996 34.615 0.00 0.00 0.00 2.52
4381 7505 9.228949 CGCTCCTATATTAGTTTAGAGGAAGTA 57.771 37.037 0.00 0.00 38.71 2.24
4382 7506 7.724951 ACGCTCCTATATTAGTTTAGAGGAAGT 59.275 37.037 0.00 0.00 38.71 3.01
4383 7507 8.113173 ACGCTCCTATATTAGTTTAGAGGAAG 57.887 38.462 0.00 0.00 38.71 3.46
4384 7508 8.474710 AACGCTCCTATATTAGTTTAGAGGAA 57.525 34.615 0.00 0.00 38.71 3.36
4385 7509 8.474710 AAACGCTCCTATATTAGTTTAGAGGA 57.525 34.615 0.00 0.00 37.27 3.71
4386 7510 9.843334 CTAAACGCTCCTATATTAGTTTAGAGG 57.157 37.037 16.35 0.00 46.56 3.69
4399 7523 9.530633 CAAAAGTAGTAATCTAAACGCTCCTAT 57.469 33.333 0.00 0.00 0.00 2.57
4400 7524 8.526147 ACAAAAGTAGTAATCTAAACGCTCCTA 58.474 33.333 0.00 0.00 0.00 2.94
4401 7525 7.384477 ACAAAAGTAGTAATCTAAACGCTCCT 58.616 34.615 0.00 0.00 0.00 3.69
4402 7526 7.592439 ACAAAAGTAGTAATCTAAACGCTCC 57.408 36.000 0.00 0.00 0.00 4.70
4414 7538 9.918630 AGAGCGTTTAGAATACAAAAGTAGTAA 57.081 29.630 0.00 0.00 0.00 2.24
4415 7539 9.918630 AAGAGCGTTTAGAATACAAAAGTAGTA 57.081 29.630 0.00 0.00 0.00 1.82
4416 7540 8.828688 AAGAGCGTTTAGAATACAAAAGTAGT 57.171 30.769 0.00 0.00 0.00 2.73
4429 7553 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
4430 7554 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
4431 7555 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
4432 7556 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
4433 7557 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
4434 7558 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
4435 7559 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
4436 7560 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
4437 7561 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
4438 7562 9.512588 CTACTCCCTCCGTAAACTAATATAAGA 57.487 37.037 0.00 0.00 0.00 2.10
4439 7563 9.512588 TCTACTCCCTCCGTAAACTAATATAAG 57.487 37.037 0.00 0.00 0.00 1.73
4442 7566 8.953223 AATCTACTCCCTCCGTAAACTAATAT 57.047 34.615 0.00 0.00 0.00 1.28
4443 7567 9.289782 GTAATCTACTCCCTCCGTAAACTAATA 57.710 37.037 0.00 0.00 0.00 0.98
4444 7568 7.781693 TGTAATCTACTCCCTCCGTAAACTAAT 59.218 37.037 0.00 0.00 0.00 1.73
4445 7569 7.118723 TGTAATCTACTCCCTCCGTAAACTAA 58.881 38.462 0.00 0.00 0.00 2.24
4446 7570 6.662755 TGTAATCTACTCCCTCCGTAAACTA 58.337 40.000 0.00 0.00 0.00 2.24
4447 7571 5.513233 TGTAATCTACTCCCTCCGTAAACT 58.487 41.667 0.00 0.00 0.00 2.66
4448 7572 5.841957 TGTAATCTACTCCCTCCGTAAAC 57.158 43.478 0.00 0.00 0.00 2.01
4449 7573 7.124599 TGAATTGTAATCTACTCCCTCCGTAAA 59.875 37.037 0.00 0.00 0.00 2.01
4450 7574 6.608405 TGAATTGTAATCTACTCCCTCCGTAA 59.392 38.462 0.00 0.00 0.00 3.18
4451 7575 6.131264 TGAATTGTAATCTACTCCCTCCGTA 58.869 40.000 0.00 0.00 0.00 4.02
4452 7576 4.960469 TGAATTGTAATCTACTCCCTCCGT 59.040 41.667 0.00 0.00 0.00 4.69
4453 7577 5.531122 TGAATTGTAATCTACTCCCTCCG 57.469 43.478 0.00 0.00 0.00 4.63
4454 7578 7.015682 TCAGATGAATTGTAATCTACTCCCTCC 59.984 40.741 0.00 0.00 31.87 4.30
4455 7579 7.957002 TCAGATGAATTGTAATCTACTCCCTC 58.043 38.462 0.00 0.00 31.87 4.30
4456 7580 7.472663 GCTCAGATGAATTGTAATCTACTCCCT 60.473 40.741 0.00 0.00 31.87 4.20
4457 7581 6.648725 GCTCAGATGAATTGTAATCTACTCCC 59.351 42.308 0.00 0.00 31.87 4.30
4458 7582 7.170658 GTGCTCAGATGAATTGTAATCTACTCC 59.829 40.741 0.00 0.00 31.87 3.85
4459 7583 7.708322 TGTGCTCAGATGAATTGTAATCTACTC 59.292 37.037 0.00 0.00 31.87 2.59
4460 7584 7.559486 TGTGCTCAGATGAATTGTAATCTACT 58.441 34.615 0.00 0.00 31.87 2.57
4474 7604 0.952497 AACCGTGCTGTGCTCAGATG 60.952 55.000 19.61 9.51 43.76 2.90
4518 7648 8.579682 AAAGAAATCTCCAATCAAAAGAAACG 57.420 30.769 0.00 0.00 0.00 3.60
4560 7696 7.628769 TTGATAAATGCATTCTTCTACAGCA 57.371 32.000 13.38 0.00 39.79 4.41
4561 7697 9.525409 AAATTGATAAATGCATTCTTCTACAGC 57.475 29.630 13.38 0.00 0.00 4.40
4563 7699 9.806203 CCAAATTGATAAATGCATTCTTCTACA 57.194 29.630 13.38 5.18 0.00 2.74
4597 7734 3.633986 CAGAACATATCAAAAGGGAGGCC 59.366 47.826 0.00 0.00 0.00 5.19
4619 7756 6.694877 ACTCCTCCAAACAAAAGAAACTAC 57.305 37.500 0.00 0.00 0.00 2.73
4660 7798 3.693578 TGTTTGCAAATGACAGTGTCTCA 59.306 39.130 23.29 5.96 33.15 3.27
4666 7804 9.762933 ATTTTAGTATTGTTTGCAAATGACAGT 57.237 25.926 16.21 8.94 38.21 3.55


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

AutoCloner maintained by Alex Coulton.