Multiple sequence alignment - TraesCS2B01G414200

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 TraesCS2B01G414200 chr2B 100.000 6846 0 0 1 6846 591922223 591915378 0.000000e+00 12643.0
1 TraesCS2B01G414200 chr2B 95.789 95 2 2 602 695 133167552 133167645 1.190000e-32 152.0
2 TraesCS2B01G414200 chr2B 95.652 92 3 1 602 692 32162767 32162676 5.530000e-31 147.0
3 TraesCS2B01G414200 chr2D 96.254 3337 57 22 691 4005 503445747 503442457 0.000000e+00 5408.0
4 TraesCS2B01G414200 chr2D 97.664 1156 24 1 4033 5188 503442459 503441307 0.000000e+00 1982.0
5 TraesCS2B01G414200 chr2D 90.999 1411 71 27 5203 6578 503441171 503439782 0.000000e+00 1851.0
6 TraesCS2B01G414200 chr2D 93.432 609 29 4 1 605 503446335 503445734 0.000000e+00 893.0
7 TraesCS2B01G414200 chr2D 83.856 638 54 17 3 605 503447480 503446857 4.640000e-156 562.0
8 TraesCS2B01G414200 chr2D 85.479 303 16 11 6567 6846 503439587 503439290 2.420000e-74 291.0
9 TraesCS2B01G414200 chr2A 93.891 3372 137 27 691 4017 649494019 649490672 0.000000e+00 5022.0
10 TraesCS2B01G414200 chr2A 88.673 2260 126 55 4537 6719 649489436 649487230 0.000000e+00 2636.0
11 TraesCS2B01G414200 chr2A 88.998 609 33 15 3 605 649494585 649494005 0.000000e+00 723.0
12 TraesCS2B01G414200 chr2A 90.498 442 26 5 4103 4540 649490020 649489591 2.770000e-158 569.0
13 TraesCS2B01G414200 chr2A 86.076 79 9 1 6693 6771 37307764 37307840 4.400000e-12 84.2
14 TraesCS2B01G414200 chr4B 97.802 91 2 0 602 692 41838899 41838809 2.560000e-34 158.0
15 TraesCS2B01G414200 chr4B 96.667 90 3 0 602 691 97558750 97558839 4.280000e-32 150.0
16 TraesCS2B01G414200 chr1B 96.774 93 3 0 602 694 7400460 7400368 9.190000e-34 156.0
17 TraesCS2B01G414200 chr1B 95.745 94 2 2 602 694 231662130 231662038 4.280000e-32 150.0
18 TraesCS2B01G414200 chr1A 96.739 92 2 1 602 692 19702106 19702015 1.190000e-32 152.0
19 TraesCS2B01G414200 chr6B 95.652 92 3 1 602 692 690971328 690971237 5.530000e-31 147.0
20 TraesCS2B01G414200 chr4A 95.604 91 3 1 602 691 32061889 32061799 1.990000e-30 145.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G414200 chr2B 591915378 591922223 6845 True 12643.000000 12643 100.000000 1 6846 1 chr2B.!!$R2 6845
1 TraesCS2B01G414200 chr2D 503439290 503447480 8190 True 1831.166667 5408 91.280667 1 6846 6 chr2D.!!$R1 6845
2 TraesCS2B01G414200 chr2A 649487230 649494585 7355 True 2237.500000 5022 90.515000 3 6719 4 chr2A.!!$R1 6716

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
624 1782 0.027324 GCTTGTTATGCTGCTCGCTC 59.973 55.000 0.00 0.0 40.11 5.03 F
626 1784 0.036483 TTGTTATGCTGCTCGCTCCA 60.036 50.000 0.00 0.0 40.11 3.86 F
659 1817 0.179004 ATCGGTGTTGGTGCTTTGGA 60.179 50.000 0.00 0.0 0.00 3.53 F
1422 2583 0.322816 ATGCTCGCAACTCCACCATT 60.323 50.000 0.00 0.0 0.00 3.16 F
1656 2817 0.472471 TGGGGAACTCAGTCAACACC 59.528 55.000 0.00 0.0 0.00 4.16 F
2374 3559 1.702401 TGGGACTGATTGCACTTGGTA 59.298 47.619 0.00 0.0 0.00 3.25 F
3045 4244 3.269178 GCTTTTGCTGCTAGAGATGTCT 58.731 45.455 5.86 0.0 43.35 3.41 F
3663 4869 2.834549 ACTGTTAGATGTGTCCCTGAGG 59.165 50.000 0.00 0.0 0.00 3.86 F
5314 7406 1.066787 GGGTCAGTGGTCAAGAGTAGC 60.067 57.143 0.00 0.0 0.00 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2374 3559 1.849039 AGCCTCAGCAAGACCCATTAT 59.151 47.619 0.00 0.00 43.56 1.28 R
2534 3732 3.621715 AGCGCTTACTTTTACATGCTACC 59.378 43.478 2.64 0.00 0.00 3.18 R
2654 3852 2.102252 AGGAAACAAAATGCGGCTTTGA 59.898 40.909 18.11 0.00 37.25 2.69 R
3045 4244 0.387202 CCATTCAACACGTTGCCCAA 59.613 50.000 5.01 0.00 40.24 4.12 R
3196 4395 1.423541 ACATGCAGTCCCAGGTAAACA 59.576 47.619 0.00 0.00 0.00 2.83 R
3381 4580 3.418995 GCATGGATCAAGCACATATCCT 58.581 45.455 0.00 0.00 39.97 3.24 R
3889 5095 4.564782 AGCTTTTCTGGACTCATCATCA 57.435 40.909 0.00 0.00 0.00 3.07 R
5351 7443 0.103572 TATGCTAAAGGCGTCGACCC 59.896 55.000 10.58 12.26 45.43 4.46 R
6749 9115 0.109319 ACATTGGTCGCGCAAAATCC 60.109 50.000 8.75 2.14 0.00 3.01 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
77 1225 2.466870 TTTGTCATGTGCGTGTTGAC 57.533 45.000 0.00 0.00 40.10 3.18
110 1261 6.631971 TTTCATACACATTGTTTCTCTGCA 57.368 33.333 0.00 0.00 0.00 4.41
112 1263 5.308014 TCATACACATTGTTTCTCTGCAGT 58.692 37.500 14.67 0.00 0.00 4.40
178 1333 9.396022 TCCTTTTAGTCATCATTACCATTTCTC 57.604 33.333 0.00 0.00 0.00 2.87
211 1366 3.988379 TGTTTCCAGCTGTTTGATGTC 57.012 42.857 13.81 0.00 0.00 3.06
216 1371 2.880268 TCCAGCTGTTTGATGTCAACTG 59.120 45.455 13.81 0.36 35.28 3.16
238 1393 6.073003 ACTGTTATTTGTAACTGCTGCTCTTC 60.073 38.462 0.00 0.00 33.83 2.87
239 1394 5.181245 TGTTATTTGTAACTGCTGCTCTTCC 59.819 40.000 0.00 0.00 0.00 3.46
240 1395 1.795768 TTGTAACTGCTGCTCTTCCG 58.204 50.000 0.00 0.00 0.00 4.30
352 1510 8.553459 TGATTCTAACTTGAGACCTGAATTTC 57.447 34.615 0.00 0.00 0.00 2.17
413 1571 3.940209 TGTTGCTGTGATTGGGAAATC 57.060 42.857 0.00 0.00 0.00 2.17
421 1579 1.826720 TGATTGGGAAATCTGGCAAGC 59.173 47.619 0.00 0.00 0.00 4.01
455 1613 3.668656 GGTCGCTTTGCACTGTAATTTTC 59.331 43.478 0.00 0.00 0.00 2.29
554 1712 5.911752 ACAGCATGGATAACAGTTAGAGAG 58.088 41.667 0.00 0.00 43.62 3.20
562 1720 1.142748 CAGTTAGAGAGGCAGCCGG 59.857 63.158 5.55 0.00 0.00 6.13
606 1764 8.220755 TGATGTTTGAATACCTATAGTTTGGC 57.779 34.615 0.00 0.00 0.00 4.52
607 1765 8.052748 TGATGTTTGAATACCTATAGTTTGGCT 58.947 33.333 0.00 0.00 0.00 4.75
608 1766 8.823220 ATGTTTGAATACCTATAGTTTGGCTT 57.177 30.769 0.00 0.00 0.00 4.35
609 1767 8.050778 TGTTTGAATACCTATAGTTTGGCTTG 57.949 34.615 0.00 0.00 0.00 4.01
610 1768 7.668052 TGTTTGAATACCTATAGTTTGGCTTGT 59.332 33.333 0.00 0.00 0.00 3.16
611 1769 8.520351 GTTTGAATACCTATAGTTTGGCTTGTT 58.480 33.333 0.00 0.00 0.00 2.83
612 1770 9.742144 TTTGAATACCTATAGTTTGGCTTGTTA 57.258 29.630 0.00 0.00 0.00 2.41
613 1771 9.914834 TTGAATACCTATAGTTTGGCTTGTTAT 57.085 29.630 0.00 0.00 0.00 1.89
614 1772 9.337396 TGAATACCTATAGTTTGGCTTGTTATG 57.663 33.333 0.00 0.00 0.00 1.90
615 1773 7.745620 ATACCTATAGTTTGGCTTGTTATGC 57.254 36.000 0.00 0.00 0.00 3.14
616 1774 5.755849 ACCTATAGTTTGGCTTGTTATGCT 58.244 37.500 0.00 0.00 0.00 3.79
617 1775 5.590259 ACCTATAGTTTGGCTTGTTATGCTG 59.410 40.000 0.00 0.00 0.00 4.41
618 1776 2.730550 AGTTTGGCTTGTTATGCTGC 57.269 45.000 0.00 0.00 0.00 5.25
619 1777 2.242043 AGTTTGGCTTGTTATGCTGCT 58.758 42.857 0.00 0.00 0.00 4.24
620 1778 2.229784 AGTTTGGCTTGTTATGCTGCTC 59.770 45.455 0.00 0.00 0.00 4.26
621 1779 0.804364 TTGGCTTGTTATGCTGCTCG 59.196 50.000 0.00 0.00 0.00 5.03
622 1780 1.063166 GGCTTGTTATGCTGCTCGC 59.937 57.895 0.00 0.00 39.77 5.03
623 1781 1.372087 GGCTTGTTATGCTGCTCGCT 61.372 55.000 0.00 0.00 40.11 4.93
624 1782 0.027324 GCTTGTTATGCTGCTCGCTC 59.973 55.000 0.00 0.00 40.11 5.03
625 1783 0.654683 CTTGTTATGCTGCTCGCTCC 59.345 55.000 0.00 0.00 40.11 4.70
626 1784 0.036483 TTGTTATGCTGCTCGCTCCA 60.036 50.000 0.00 0.00 40.11 3.86
627 1785 0.460811 TGTTATGCTGCTCGCTCCAG 60.461 55.000 0.00 0.00 40.11 3.86
644 1802 4.310672 GCGTCTGCTCTGTATCGG 57.689 61.111 0.00 0.00 38.39 4.18
645 1803 1.433879 GCGTCTGCTCTGTATCGGT 59.566 57.895 0.00 0.00 38.39 4.69
646 1804 0.867753 GCGTCTGCTCTGTATCGGTG 60.868 60.000 0.00 0.00 38.39 4.94
647 1805 0.452184 CGTCTGCTCTGTATCGGTGT 59.548 55.000 0.00 0.00 0.00 4.16
648 1806 1.135373 CGTCTGCTCTGTATCGGTGTT 60.135 52.381 0.00 0.00 0.00 3.32
649 1807 2.263077 GTCTGCTCTGTATCGGTGTTG 58.737 52.381 0.00 0.00 0.00 3.33
650 1808 1.204704 TCTGCTCTGTATCGGTGTTGG 59.795 52.381 0.00 0.00 0.00 3.77
651 1809 0.973632 TGCTCTGTATCGGTGTTGGT 59.026 50.000 0.00 0.00 0.00 3.67
652 1810 1.337728 TGCTCTGTATCGGTGTTGGTG 60.338 52.381 0.00 0.00 0.00 4.17
653 1811 1.359848 CTCTGTATCGGTGTTGGTGC 58.640 55.000 0.00 0.00 0.00 5.01
654 1812 0.973632 TCTGTATCGGTGTTGGTGCT 59.026 50.000 0.00 0.00 0.00 4.40
655 1813 1.346395 TCTGTATCGGTGTTGGTGCTT 59.654 47.619 0.00 0.00 0.00 3.91
656 1814 2.151202 CTGTATCGGTGTTGGTGCTTT 58.849 47.619 0.00 0.00 0.00 3.51
657 1815 1.876799 TGTATCGGTGTTGGTGCTTTG 59.123 47.619 0.00 0.00 0.00 2.77
658 1816 1.199097 GTATCGGTGTTGGTGCTTTGG 59.801 52.381 0.00 0.00 0.00 3.28
659 1817 0.179004 ATCGGTGTTGGTGCTTTGGA 60.179 50.000 0.00 0.00 0.00 3.53
660 1818 0.394488 TCGGTGTTGGTGCTTTGGAA 60.394 50.000 0.00 0.00 0.00 3.53
661 1819 0.673437 CGGTGTTGGTGCTTTGGAAT 59.327 50.000 0.00 0.00 0.00 3.01
662 1820 1.883275 CGGTGTTGGTGCTTTGGAATA 59.117 47.619 0.00 0.00 0.00 1.75
663 1821 2.351350 CGGTGTTGGTGCTTTGGAATAC 60.351 50.000 0.00 0.00 0.00 1.89
664 1822 2.625790 GGTGTTGGTGCTTTGGAATACA 59.374 45.455 0.00 0.00 0.00 2.29
665 1823 3.068873 GGTGTTGGTGCTTTGGAATACAA 59.931 43.478 0.00 0.00 37.28 2.41
666 1824 4.442192 GGTGTTGGTGCTTTGGAATACAAA 60.442 41.667 0.00 0.00 46.34 2.83
673 1831 1.551452 TTTGGAATACAAAGCGGGGG 58.449 50.000 0.00 0.00 43.81 5.40
769 1928 5.973565 CAGAATTTTCGGATTTAGCATCCAC 59.026 40.000 2.76 0.00 38.08 4.02
781 1940 9.120538 GGATTTAGCATCCACAGTTATTTTCTA 57.879 33.333 0.00 0.00 38.09 2.10
922 2081 7.711339 AGAGTTTGGTAGTAGTCTTGTTTTCTG 59.289 37.037 0.00 0.00 0.00 3.02
926 2085 8.570068 TTGGTAGTAGTCTTGTTTTCTGTTTT 57.430 30.769 0.00 0.00 0.00 2.43
927 2086 9.669887 TTGGTAGTAGTCTTGTTTTCTGTTTTA 57.330 29.630 0.00 0.00 0.00 1.52
928 2087 9.321562 TGGTAGTAGTCTTGTTTTCTGTTTTAG 57.678 33.333 0.00 0.00 0.00 1.85
1008 2169 3.492102 AAGTAGTGCACAATGTCTGGT 57.508 42.857 21.04 0.00 0.00 4.00
1032 2193 2.395690 GCAATCTTGCGTCGGTCG 59.604 61.111 0.00 0.00 45.11 4.79
1422 2583 0.322816 ATGCTCGCAACTCCACCATT 60.323 50.000 0.00 0.00 0.00 3.16
1585 2746 1.942657 CCTGGTTTGTCATGCCTATCG 59.057 52.381 0.00 0.00 0.00 2.92
1656 2817 0.472471 TGGGGAACTCAGTCAACACC 59.528 55.000 0.00 0.00 0.00 4.16
2025 3196 5.787953 TCAAAATCAAGGATGCTTGTTGA 57.212 34.783 24.15 22.01 35.91 3.18
2027 3198 5.302568 TCAAAATCAAGGATGCTTGTTGACT 59.697 36.000 24.15 6.25 33.16 3.41
2063 3237 8.791327 AATGATACAACAGTACACATTCATGA 57.209 30.769 0.00 0.00 30.00 3.07
2064 3238 8.969260 ATGATACAACAGTACACATTCATGAT 57.031 30.769 0.00 0.00 0.00 2.45
2065 3239 8.791327 TGATACAACAGTACACATTCATGATT 57.209 30.769 0.00 0.00 0.00 2.57
2066 3240 8.882736 TGATACAACAGTACACATTCATGATTC 58.117 33.333 0.00 0.00 0.00 2.52
2067 3241 8.791327 ATACAACAGTACACATTCATGATTCA 57.209 30.769 0.00 0.00 0.00 2.57
2346 3531 6.819397 AGGTTATCAGCTTTTAACCAAGTC 57.181 37.500 25.71 8.21 46.45 3.01
2374 3559 1.702401 TGGGACTGATTGCACTTGGTA 59.298 47.619 0.00 0.00 0.00 3.25
2591 3789 4.284490 TGTTCTGTCCTGTGCTTCTTAGAT 59.716 41.667 0.00 0.00 0.00 1.98
2770 3969 4.394920 ACAATAAGGAATGTAGCCGTGTTG 59.605 41.667 0.00 0.00 40.13 3.33
2989 4188 8.631480 AATACTCCGAACAAAACTAAAATCCT 57.369 30.769 0.00 0.00 0.00 3.24
3045 4244 3.269178 GCTTTTGCTGCTAGAGATGTCT 58.731 45.455 5.86 0.00 43.35 3.41
3307 4506 7.883311 ACTAGTTGGTGCTAGTAAATTGTCAAT 59.117 33.333 4.18 0.00 46.84 2.57
3312 4511 6.095300 TGGTGCTAGTAAATTGTCAATCCATG 59.905 38.462 0.00 0.00 0.00 3.66
3419 4618 3.244491 CCATGCCCTGAGGAGAAATAGAG 60.244 52.174 0.00 0.00 33.47 2.43
3460 4659 7.981789 TGTTAAAGCATTGGATTACAAACAACA 59.018 29.630 0.00 0.00 43.46 3.33
3468 4667 5.630121 TGGATTACAAACAACATCTCCAGT 58.370 37.500 0.00 0.00 0.00 4.00
3487 4686 4.406003 CCAGTAAAGTGATACCAGCTACCT 59.594 45.833 0.00 0.00 0.00 3.08
3596 4799 7.757624 ACCGCGTTTGTTTTGATGAATAAATAT 59.242 29.630 4.92 0.00 0.00 1.28
3659 4865 5.483937 TCATGTTACTGTTAGATGTGTCCCT 59.516 40.000 4.24 0.00 0.00 4.20
3660 4866 5.147330 TGTTACTGTTAGATGTGTCCCTG 57.853 43.478 0.00 0.00 0.00 4.45
3661 4867 4.836175 TGTTACTGTTAGATGTGTCCCTGA 59.164 41.667 0.00 0.00 0.00 3.86
3662 4868 5.047306 TGTTACTGTTAGATGTGTCCCTGAG 60.047 44.000 0.00 0.00 0.00 3.35
3663 4869 2.834549 ACTGTTAGATGTGTCCCTGAGG 59.165 50.000 0.00 0.00 0.00 3.86
3664 4870 3.099905 CTGTTAGATGTGTCCCTGAGGA 58.900 50.000 0.00 0.00 41.08 3.71
3665 4871 3.099905 TGTTAGATGTGTCCCTGAGGAG 58.900 50.000 0.00 0.00 45.21 3.69
3704 4910 5.363101 TCATCTGTTTATCCTGATGTGAGC 58.637 41.667 0.00 0.00 40.03 4.26
3804 5010 9.949174 TGTATTGCTTTATAATTGTGTAGCATG 57.051 29.630 11.78 0.00 38.30 4.06
3889 5095 8.148999 ACTCGAAATAGGACTTACTTCAACTTT 58.851 33.333 0.00 0.00 0.00 2.66
3951 5157 5.602628 ACTCTTTGTTCTCAAGTCAGGTAC 58.397 41.667 0.00 0.00 34.88 3.34
4127 5907 4.943705 TCTTTCTTTATCACTGGATGGTGC 59.056 41.667 0.00 0.00 37.16 5.01
4160 5940 7.178628 ACTCGCTATTATAGGCTGAATTTCCTA 59.821 37.037 0.00 5.04 39.11 2.94
4337 6120 8.391106 GTTTACTCAATGCGACAATCTTTAGAT 58.609 33.333 0.00 0.00 36.07 1.98
4711 6661 7.232910 ACACATGAATTTTGGGGATTGAAATT 58.767 30.769 0.00 0.00 0.00 1.82
4739 6689 7.392673 ACTTTGAATGATGCACTTCTTCTGTAT 59.607 33.333 0.00 0.00 0.00 2.29
4939 6890 5.640357 TGGCATTCTTGAAAAATTGCAGATC 59.360 36.000 8.35 0.00 0.00 2.75
5101 7052 2.697751 AGATGCTCCTTACTGCTACCTG 59.302 50.000 0.00 0.00 0.00 4.00
5177 7128 7.721286 AAAATGGTGCGTTCAATTTATTTCA 57.279 28.000 0.00 0.00 0.00 2.69
5224 7313 4.872691 CAGTGGCTAATTCTCACAGTAAGG 59.127 45.833 7.98 0.00 34.17 2.69
5236 7325 6.698380 TCTCACAGTAAGGACCAGATAAAAC 58.302 40.000 0.00 0.00 0.00 2.43
5237 7326 6.497259 TCTCACAGTAAGGACCAGATAAAACT 59.503 38.462 0.00 0.00 0.00 2.66
5239 7328 8.197592 TCACAGTAAGGACCAGATAAAACTTA 57.802 34.615 0.00 0.00 0.00 2.24
5244 7333 9.516546 AGTAAGGACCAGATAAAACTTAAAAGG 57.483 33.333 0.00 0.00 0.00 3.11
5245 7334 9.293404 GTAAGGACCAGATAAAACTTAAAAGGT 57.707 33.333 0.00 0.00 0.00 3.50
5246 7335 7.997773 AGGACCAGATAAAACTTAAAAGGTC 57.002 36.000 0.00 0.00 41.63 3.85
5247 7336 7.523415 AGGACCAGATAAAACTTAAAAGGTCA 58.477 34.615 0.00 0.00 43.55 4.02
5248 7337 8.170730 AGGACCAGATAAAACTTAAAAGGTCAT 58.829 33.333 0.00 0.00 43.55 3.06
5249 7338 9.457436 GGACCAGATAAAACTTAAAAGGTCATA 57.543 33.333 0.00 0.00 43.55 2.15
5264 7353 8.723942 AAAAGGTCATATGATAGACACTTGTC 57.276 34.615 9.02 0.77 45.08 3.18
5283 7375 9.016623 CACTTGTCTATCATACATGCATTTTTG 57.983 33.333 0.00 0.00 0.00 2.44
5314 7406 1.066787 GGGTCAGTGGTCAAGAGTAGC 60.067 57.143 0.00 0.00 0.00 3.58
5327 7419 6.037610 GGTCAAGAGTAGCAGAAAACATATGG 59.962 42.308 7.80 0.00 0.00 2.74
5349 7441 7.732222 TGGCTTGAAATTTTATGTATCCCTT 57.268 32.000 0.00 0.00 0.00 3.95
5350 7442 8.144862 TGGCTTGAAATTTTATGTATCCCTTT 57.855 30.769 0.00 0.00 0.00 3.11
5351 7443 8.040132 TGGCTTGAAATTTTATGTATCCCTTTG 58.960 33.333 0.00 0.00 0.00 2.77
5352 7444 7.495606 GGCTTGAAATTTTATGTATCCCTTTGG 59.504 37.037 0.00 0.00 0.00 3.28
5353 7445 7.495606 GCTTGAAATTTTATGTATCCCTTTGGG 59.504 37.037 0.00 0.00 46.11 4.12
5354 7446 8.442660 TTGAAATTTTATGTATCCCTTTGGGT 57.557 30.769 2.25 0.00 44.74 4.51
5356 7448 6.709018 AATTTTATGTATCCCTTTGGGTCG 57.291 37.500 2.25 0.00 44.74 4.79
5357 7449 5.438698 TTTTATGTATCCCTTTGGGTCGA 57.561 39.130 2.25 0.00 44.74 4.20
5358 7450 4.411256 TTATGTATCCCTTTGGGTCGAC 57.589 45.455 7.13 7.13 44.74 4.20
5359 7451 0.533491 TGTATCCCTTTGGGTCGACG 59.467 55.000 9.92 0.00 44.74 5.12
5360 7452 0.808847 GTATCCCTTTGGGTCGACGC 60.809 60.000 24.41 24.41 44.74 5.19
5362 7454 4.016706 CCCTTTGGGTCGACGCCT 62.017 66.667 27.39 0.00 38.25 5.52
5414 7511 7.892609 ACTACATTGCATTGCATCATATCAAT 58.107 30.769 12.95 0.00 38.76 2.57
5417 7514 7.090808 ACATTGCATTGCATCATATCAATCTC 58.909 34.615 12.95 0.00 38.76 2.75
5561 7658 2.959465 TCTGTCAGAGTCTGTCCAGA 57.041 50.000 26.95 26.95 37.79 3.86
5566 7663 5.775195 TCTGTCAGAGTCTGTCCAGATTAAA 59.225 40.000 26.95 14.25 39.97 1.52
5594 7691 8.629158 AGTTTGATGTTCTACAGTAATGCAAAA 58.371 29.630 0.00 0.00 0.00 2.44
5595 7692 8.690840 GTTTGATGTTCTACAGTAATGCAAAAC 58.309 33.333 0.00 0.00 0.00 2.43
5596 7693 6.598525 TGATGTTCTACAGTAATGCAAAACG 58.401 36.000 0.00 0.00 0.00 3.60
5625 7722 9.832445 TCCCAGAGTTATTCATAGTTTGTAATC 57.168 33.333 0.00 0.00 0.00 1.75
5716 7840 8.512138 AGAATACTTATCGTCCTTTTTGTTTGG 58.488 33.333 0.00 0.00 0.00 3.28
5717 7841 4.866921 ACTTATCGTCCTTTTTGTTTGGC 58.133 39.130 0.00 0.00 0.00 4.52
5729 7853 6.073440 CCTTTTTGTTTGGCATGAATCTCTTG 60.073 38.462 0.00 0.00 0.00 3.02
5923 8053 3.276857 CCTGTAATGTGAGCTGCTCATT 58.723 45.455 32.45 25.08 42.73 2.57
6028 8163 5.858581 GGCTGCTTATTACAGTTTTGAACAG 59.141 40.000 0.00 0.00 37.47 3.16
6030 8165 5.768317 TGCTTATTACAGTTTTGAACAGGC 58.232 37.500 0.00 0.00 0.00 4.85
6041 8176 6.912591 CAGTTTTGAACAGGCTAGTTTTGTAG 59.087 38.462 4.29 0.00 0.00 2.74
6042 8177 6.039382 AGTTTTGAACAGGCTAGTTTTGTAGG 59.961 38.462 4.29 0.00 0.00 3.18
6043 8178 4.015872 TGAACAGGCTAGTTTTGTAGGG 57.984 45.455 4.29 0.00 0.00 3.53
6044 8179 3.244770 TGAACAGGCTAGTTTTGTAGGGG 60.245 47.826 4.29 0.00 0.00 4.79
6045 8180 1.633945 ACAGGCTAGTTTTGTAGGGGG 59.366 52.381 0.00 0.00 0.00 5.40
6072 8211 5.359194 AATGACAGAGGGAATTGTATCGT 57.641 39.130 0.00 0.00 0.00 3.73
6203 8342 4.202151 ACTTTTGTTGCCTGTCCTCAATTC 60.202 41.667 0.00 0.00 0.00 2.17
6250 8397 4.611782 CGGAGAATATAGTCTTGCGTTACG 59.388 45.833 3.88 0.00 0.00 3.18
6275 8428 3.770263 TTTGCTACGTACGCTGATACT 57.230 42.857 16.72 0.00 0.00 2.12
6276 8429 4.880886 TTTGCTACGTACGCTGATACTA 57.119 40.909 16.72 0.00 0.00 1.82
6277 8430 3.867055 TGCTACGTACGCTGATACTAC 57.133 47.619 16.72 0.00 0.00 2.73
6318 8471 2.794910 CACGATTCGTCAGTGTTCAGTT 59.205 45.455 9.11 0.00 38.32 3.16
6526 8679 0.314021 CGCGTCGTTCGGCTTTTATC 60.314 55.000 0.00 0.00 40.26 1.75
6557 8710 5.654209 TCTGGCTACTATAGTCCTATGCATG 59.346 44.000 9.12 0.00 0.00 4.06
6626 8982 1.548719 GGGTATGTTTGGTTCTTGCCC 59.451 52.381 0.00 0.00 0.00 5.36
6674 9038 2.892640 CGAGAGATTCCACCGCCA 59.107 61.111 0.00 0.00 0.00 5.69
6675 9039 1.227089 CGAGAGATTCCACCGCCAG 60.227 63.158 0.00 0.00 0.00 4.85
6677 9041 2.514824 GAGATTCCACCGCCAGGC 60.515 66.667 0.00 0.00 42.76 4.85
6718 9084 1.448985 GACTCGTTGGCAGCCAAATA 58.551 50.000 29.04 17.79 45.73 1.40
6719 9085 2.017049 GACTCGTTGGCAGCCAAATAT 58.983 47.619 29.04 14.31 45.73 1.28
6746 9112 3.243336 GCAACAAACCAAACAACGTACA 58.757 40.909 0.00 0.00 0.00 2.90
6748 9114 4.327627 GCAACAAACCAAACAACGTACAAT 59.672 37.500 0.00 0.00 0.00 2.71
6749 9115 5.722592 GCAACAAACCAAACAACGTACAATG 60.723 40.000 0.00 0.00 0.00 2.82
6755 9121 5.908341 ACCAAACAACGTACAATGGATTTT 58.092 33.333 14.90 0.00 0.00 1.82
6771 9137 1.203928 TTTTGCGCGACCAATGTTTG 58.796 45.000 12.10 0.00 0.00 2.93
6827 9206 6.469275 TCGCTCGATAAAAGAATATATCGCTG 59.531 38.462 9.61 6.87 46.42 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.435805 GCTCCCCATCACTATGTCTCAA 59.564 50.000 0.00 0.00 0.00 3.02
1 2 2.042464 GCTCCCCATCACTATGTCTCA 58.958 52.381 0.00 0.00 0.00 3.27
11 12 0.608035 GAAAACCACGCTCCCCATCA 60.608 55.000 0.00 0.00 0.00 3.07
17 18 2.737252 CTCTAACTGAAAACCACGCTCC 59.263 50.000 0.00 0.00 0.00 4.70
110 1261 5.352569 CACAACTCTCACTTGAACTTGAACT 59.647 40.000 0.00 0.00 0.00 3.01
112 1263 5.245531 ACACAACTCTCACTTGAACTTGAA 58.754 37.500 0.00 0.00 0.00 2.69
178 1333 7.092716 ACAGCTGGAAACATAATTAAAGCAAG 58.907 34.615 19.93 0.00 41.51 4.01
211 1366 5.762045 AGCAGCAGTTACAAATAACAGTTG 58.238 37.500 0.00 2.00 42.83 3.16
216 1371 5.631992 GGAAGAGCAGCAGTTACAAATAAC 58.368 41.667 0.00 0.00 41.00 1.89
238 1393 2.744709 ACCAAATCGAACCGGCGG 60.745 61.111 27.06 27.06 0.00 6.13
239 1394 1.847890 AACACCAAATCGAACCGGCG 61.848 55.000 0.00 0.00 0.00 6.46
240 1395 0.386731 CAACACCAAATCGAACCGGC 60.387 55.000 0.00 0.00 0.00 6.13
421 1579 1.016130 AAGCGACCACTCAAGCGATG 61.016 55.000 0.00 0.00 34.34 3.84
562 1720 5.122396 ACATCAAAAGATAAAGGACAGACGC 59.878 40.000 0.00 0.00 0.00 5.19
594 1752 5.506317 GCAGCATAACAAGCCAAACTATAGG 60.506 44.000 4.43 0.00 0.00 2.57
595 1753 5.297776 AGCAGCATAACAAGCCAAACTATAG 59.702 40.000 0.00 0.00 0.00 1.31
596 1754 5.192927 AGCAGCATAACAAGCCAAACTATA 58.807 37.500 0.00 0.00 0.00 1.31
597 1755 4.019174 AGCAGCATAACAAGCCAAACTAT 58.981 39.130 0.00 0.00 0.00 2.12
598 1756 3.420893 AGCAGCATAACAAGCCAAACTA 58.579 40.909 0.00 0.00 0.00 2.24
599 1757 2.229784 GAGCAGCATAACAAGCCAAACT 59.770 45.455 0.00 0.00 0.00 2.66
600 1758 2.599659 GAGCAGCATAACAAGCCAAAC 58.400 47.619 0.00 0.00 0.00 2.93
601 1759 1.199789 CGAGCAGCATAACAAGCCAAA 59.800 47.619 0.00 0.00 0.00 3.28
602 1760 0.804364 CGAGCAGCATAACAAGCCAA 59.196 50.000 0.00 0.00 0.00 4.52
603 1761 2.470156 CGAGCAGCATAACAAGCCA 58.530 52.632 0.00 0.00 0.00 4.75
627 1785 0.867753 CACCGATACAGAGCAGACGC 60.868 60.000 0.00 0.00 38.99 5.19
628 1786 0.452184 ACACCGATACAGAGCAGACG 59.548 55.000 0.00 0.00 0.00 4.18
629 1787 2.263077 CAACACCGATACAGAGCAGAC 58.737 52.381 0.00 0.00 0.00 3.51
630 1788 1.204704 CCAACACCGATACAGAGCAGA 59.795 52.381 0.00 0.00 0.00 4.26
631 1789 1.066858 ACCAACACCGATACAGAGCAG 60.067 52.381 0.00 0.00 0.00 4.24
632 1790 0.973632 ACCAACACCGATACAGAGCA 59.026 50.000 0.00 0.00 0.00 4.26
633 1791 1.359848 CACCAACACCGATACAGAGC 58.640 55.000 0.00 0.00 0.00 4.09
634 1792 1.066858 AGCACCAACACCGATACAGAG 60.067 52.381 0.00 0.00 0.00 3.35
635 1793 0.973632 AGCACCAACACCGATACAGA 59.026 50.000 0.00 0.00 0.00 3.41
636 1794 1.808411 AAGCACCAACACCGATACAG 58.192 50.000 0.00 0.00 0.00 2.74
637 1795 1.876799 CAAAGCACCAACACCGATACA 59.123 47.619 0.00 0.00 0.00 2.29
638 1796 1.199097 CCAAAGCACCAACACCGATAC 59.801 52.381 0.00 0.00 0.00 2.24
639 1797 1.072489 TCCAAAGCACCAACACCGATA 59.928 47.619 0.00 0.00 0.00 2.92
640 1798 0.179004 TCCAAAGCACCAACACCGAT 60.179 50.000 0.00 0.00 0.00 4.18
641 1799 0.394488 TTCCAAAGCACCAACACCGA 60.394 50.000 0.00 0.00 0.00 4.69
642 1800 0.673437 ATTCCAAAGCACCAACACCG 59.327 50.000 0.00 0.00 0.00 4.94
643 1801 2.625790 TGTATTCCAAAGCACCAACACC 59.374 45.455 0.00 0.00 0.00 4.16
644 1802 4.314740 TTGTATTCCAAAGCACCAACAC 57.685 40.909 0.00 0.00 0.00 3.32
654 1812 1.551452 CCCCCGCTTTGTATTCCAAA 58.449 50.000 0.00 0.00 40.71 3.28
655 1813 3.274601 CCCCCGCTTTGTATTCCAA 57.725 52.632 0.00 0.00 0.00 3.53
672 1830 4.158394 GGTATTACCGAAAAAGGGTTTCCC 59.842 45.833 0.00 0.00 45.90 3.97
673 1831 5.012239 AGGTATTACCGAAAAAGGGTTTCC 58.988 41.667 7.21 0.00 44.90 3.13
674 1832 7.870509 ATAGGTATTACCGAAAAAGGGTTTC 57.129 36.000 7.21 0.00 44.90 2.78
675 1833 8.551440 ACTATAGGTATTACCGAAAAAGGGTTT 58.449 33.333 7.21 0.00 44.90 3.27
676 1834 8.094284 ACTATAGGTATTACCGAAAAAGGGTT 57.906 34.615 7.21 0.00 44.90 4.11
677 1835 7.681259 ACTATAGGTATTACCGAAAAAGGGT 57.319 36.000 7.21 0.00 44.90 4.34
678 1836 8.833493 CAAACTATAGGTATTACCGAAAAAGGG 58.167 37.037 7.21 0.00 44.90 3.95
679 1837 8.340443 GCAAACTATAGGTATTACCGAAAAAGG 58.660 37.037 7.21 0.00 44.90 3.11
680 1838 8.340443 GGCAAACTATAGGTATTACCGAAAAAG 58.660 37.037 7.21 4.93 44.90 2.27
681 1839 7.011295 CGGCAAACTATAGGTATTACCGAAAAA 59.989 37.037 16.04 0.00 44.90 1.94
682 1840 6.479660 CGGCAAACTATAGGTATTACCGAAAA 59.520 38.462 16.04 0.00 44.90 2.29
683 1841 5.984926 CGGCAAACTATAGGTATTACCGAAA 59.015 40.000 16.04 0.00 44.90 3.46
684 1842 5.301551 TCGGCAAACTATAGGTATTACCGAA 59.698 40.000 19.11 0.67 44.90 4.30
685 1843 4.826733 TCGGCAAACTATAGGTATTACCGA 59.173 41.667 18.18 18.18 44.90 4.69
686 1844 5.125100 TCGGCAAACTATAGGTATTACCG 57.875 43.478 15.38 15.38 44.90 4.02
687 1845 4.928020 GCTCGGCAAACTATAGGTATTACC 59.072 45.833 4.57 4.57 38.99 2.85
688 1846 5.780984 AGCTCGGCAAACTATAGGTATTAC 58.219 41.667 4.43 0.00 0.00 1.89
689 1847 5.773680 AGAGCTCGGCAAACTATAGGTATTA 59.226 40.000 8.37 0.00 0.00 0.98
690 1848 4.589374 AGAGCTCGGCAAACTATAGGTATT 59.411 41.667 8.37 0.00 0.00 1.89
691 1849 4.153411 AGAGCTCGGCAAACTATAGGTAT 58.847 43.478 8.37 0.00 0.00 2.73
692 1850 3.563223 AGAGCTCGGCAAACTATAGGTA 58.437 45.455 8.37 0.00 0.00 3.08
693 1851 2.389715 AGAGCTCGGCAAACTATAGGT 58.610 47.619 8.37 0.00 0.00 3.08
694 1852 3.460857 AAGAGCTCGGCAAACTATAGG 57.539 47.619 8.37 0.00 0.00 2.57
769 1928 8.779354 AAGCTTGTAGGACTAGAAAATAACTG 57.221 34.615 0.00 0.00 0.00 3.16
781 1940 7.224297 TCAAACTTCATTAAGCTTGTAGGACT 58.776 34.615 9.86 0.00 39.04 3.85
840 1999 4.863152 AATTCAACAGCAAAGCAACAAC 57.137 36.364 0.00 0.00 0.00 3.32
1032 2193 7.877003 TCGATAACTCCATAAGATTCTGAGAC 58.123 38.462 5.92 0.00 0.00 3.36
1422 2583 1.202452 CCTGCATCAGTCGTAGCATCA 60.202 52.381 0.00 0.00 36.28 3.07
1585 2746 6.481644 CCATACTTATGAAGCCTCTTGAAGAC 59.518 42.308 0.00 0.00 35.75 3.01
2106 3280 6.884280 ATATGCCACTTTTTATCAGGCTAC 57.116 37.500 0.00 0.00 45.42 3.58
2346 3531 2.295885 GCAATCAGTCCCAATGAGGAG 58.704 52.381 0.00 0.00 41.22 3.69
2374 3559 1.849039 AGCCTCAGCAAGACCCATTAT 59.151 47.619 0.00 0.00 43.56 1.28
2516 3711 9.467258 CATGCTACCTTTGGTTATTAAATGATG 57.533 33.333 0.00 0.00 37.09 3.07
2534 3732 3.621715 AGCGCTTACTTTTACATGCTACC 59.378 43.478 2.64 0.00 0.00 3.18
2591 3789 6.798427 AAGGAAGATACTGAGCTATTCACA 57.202 37.500 0.00 0.00 0.00 3.58
2618 3816 8.582437 TGTAAGTAAAAGATTCTTTCCGAGAGA 58.418 33.333 11.92 0.00 35.37 3.10
2652 3850 3.120580 GGAAACAAAATGCGGCTTTGATG 60.121 43.478 18.11 14.27 37.25 3.07
2653 3851 3.066380 GGAAACAAAATGCGGCTTTGAT 58.934 40.909 18.11 6.66 37.25 2.57
2654 3852 2.102252 AGGAAACAAAATGCGGCTTTGA 59.898 40.909 18.11 0.00 37.25 2.69
2655 3853 2.482864 AGGAAACAAAATGCGGCTTTG 58.517 42.857 11.73 11.73 39.26 2.77
2656 3854 2.871633 CAAGGAAACAAAATGCGGCTTT 59.128 40.909 0.00 0.00 0.00 3.51
3045 4244 0.387202 CCATTCAACACGTTGCCCAA 59.613 50.000 5.01 0.00 40.24 4.12
3196 4395 1.423541 ACATGCAGTCCCAGGTAAACA 59.576 47.619 0.00 0.00 0.00 2.83
3307 4506 6.604171 AGCTCATATTACCAAATGTCATGGA 58.396 36.000 0.00 0.00 40.56 3.41
3312 4511 7.734924 TCATGAGCTCATATTACCAAATGTC 57.265 36.000 28.27 0.00 34.26 3.06
3381 4580 3.418995 GCATGGATCAAGCACATATCCT 58.581 45.455 0.00 0.00 39.97 3.24
3419 4618 5.639506 TGCTTTAACACTGTAAGAGATGAGC 59.360 40.000 0.00 0.00 37.43 4.26
3460 4659 4.965532 AGCTGGTATCACTTTACTGGAGAT 59.034 41.667 0.00 0.00 0.00 2.75
3468 4667 6.548622 ACGAATAGGTAGCTGGTATCACTTTA 59.451 38.462 4.27 0.00 0.00 1.85
3487 4686 5.353394 AAGCCTCTCAATTACCACGAATA 57.647 39.130 0.00 0.00 0.00 1.75
3659 4865 3.527507 ACACTTACTCCTCACTCCTCA 57.472 47.619 0.00 0.00 0.00 3.86
3660 4866 4.281182 TGAAACACTTACTCCTCACTCCTC 59.719 45.833 0.00 0.00 0.00 3.71
3661 4867 4.223953 TGAAACACTTACTCCTCACTCCT 58.776 43.478 0.00 0.00 0.00 3.69
3662 4868 4.602340 TGAAACACTTACTCCTCACTCC 57.398 45.455 0.00 0.00 0.00 3.85
3663 4869 5.866633 CAGATGAAACACTTACTCCTCACTC 59.133 44.000 0.00 0.00 0.00 3.51
3664 4870 5.305644 ACAGATGAAACACTTACTCCTCACT 59.694 40.000 0.00 0.00 0.00 3.41
3665 4871 5.542779 ACAGATGAAACACTTACTCCTCAC 58.457 41.667 0.00 0.00 0.00 3.51
3704 4910 6.889198 TCAGGAGAAATAAGGTAACATCTGG 58.111 40.000 0.00 0.00 41.41 3.86
3889 5095 4.564782 AGCTTTTCTGGACTCATCATCA 57.435 40.909 0.00 0.00 0.00 3.07
3951 5157 6.662865 AGTATCCAGTAGAAGATGTGATGG 57.337 41.667 0.00 0.00 0.00 3.51
4063 5269 5.895636 TGCACCAAGTAAAACAGGATATG 57.104 39.130 0.00 0.00 0.00 1.78
4100 5679 6.149474 ACCATCCAGTGATAAAGAAAGAAACG 59.851 38.462 0.00 0.00 0.00 3.60
4127 5907 6.017852 TCAGCCTATAATAGCGAGTGATATCG 60.018 42.308 0.00 0.00 45.48 2.92
4337 6120 7.147983 GGATGTTGTTTATGCCTTTATGGTGTA 60.148 37.037 0.00 0.00 38.35 2.90
4626 6568 5.009010 TCAACTCAAGCAAATCCTGAACTTC 59.991 40.000 0.00 0.00 0.00 3.01
4711 6661 7.229306 ACAGAAGAAGTGCATCATTCAAAGTTA 59.771 33.333 10.65 0.00 0.00 2.24
4739 6689 5.888982 AACTTCTCCTACTCCAAACTTCA 57.111 39.130 0.00 0.00 0.00 3.02
4869 6819 9.814899 CCTGATACTGATAATCCTATGATTGAC 57.185 37.037 3.72 0.00 41.31 3.18
5101 7052 7.554118 TCTCCATATGAACTTTCCAATCTTGAC 59.446 37.037 3.65 0.00 0.00 3.18
5239 7328 8.723942 GACAAGTGTCTATCATATGACCTTTT 57.276 34.615 7.78 0.00 41.65 2.27
5256 7345 7.870509 AAATGCATGTATGATAGACAAGTGT 57.129 32.000 0.00 0.00 0.00 3.55
5259 7348 9.229784 GACAAAAATGCATGTATGATAGACAAG 57.770 33.333 0.00 0.00 0.00 3.16
5260 7349 8.959548 AGACAAAAATGCATGTATGATAGACAA 58.040 29.630 0.00 0.00 0.00 3.18
5261 7350 8.510243 AGACAAAAATGCATGTATGATAGACA 57.490 30.769 0.00 0.00 0.00 3.41
5262 7351 9.793252 AAAGACAAAAATGCATGTATGATAGAC 57.207 29.630 0.00 0.00 0.00 2.59
5264 7353 9.791820 TCAAAGACAAAAATGCATGTATGATAG 57.208 29.630 0.00 0.00 0.00 2.08
5265 7354 9.571810 GTCAAAGACAAAAATGCATGTATGATA 57.428 29.630 0.00 0.00 32.09 2.15
5266 7355 8.089597 TGTCAAAGACAAAAATGCATGTATGAT 58.910 29.630 0.00 0.00 39.78 2.45
5327 7419 8.424274 CCAAAGGGATACATAAAATTTCAAGC 57.576 34.615 0.00 0.00 35.59 4.01
5349 7441 1.375013 GCTAAAGGCGTCGACCCAA 60.375 57.895 20.68 8.47 0.00 4.12
5350 7442 1.895020 ATGCTAAAGGCGTCGACCCA 61.895 55.000 20.68 4.11 45.43 4.51
5351 7443 0.103572 TATGCTAAAGGCGTCGACCC 59.896 55.000 10.58 12.26 45.43 4.46
5352 7444 1.930567 TTATGCTAAAGGCGTCGACC 58.069 50.000 10.58 2.55 45.43 4.79
5353 7445 4.271687 CAATTTATGCTAAAGGCGTCGAC 58.728 43.478 5.18 5.18 45.43 4.20
5354 7446 3.311322 CCAATTTATGCTAAAGGCGTCGA 59.689 43.478 0.00 0.00 45.43 4.20
5356 7448 4.095782 TCACCAATTTATGCTAAAGGCGTC 59.904 41.667 0.00 0.00 45.43 5.19
5357 7449 4.013728 TCACCAATTTATGCTAAAGGCGT 58.986 39.130 0.00 0.00 45.43 5.68
5358 7450 4.630894 TCACCAATTTATGCTAAAGGCG 57.369 40.909 0.00 0.00 45.43 5.52
5359 7451 6.147864 TGATCACCAATTTATGCTAAAGGC 57.852 37.500 0.00 0.00 42.22 4.35
5360 7452 6.692681 CGTTGATCACCAATTTATGCTAAAGG 59.307 38.462 0.00 0.00 37.08 3.11
5362 7454 6.033341 GCGTTGATCACCAATTTATGCTAAA 58.967 36.000 0.00 0.00 37.08 1.85
5506 7603 7.334171 TGTGTTATGTTCATTTCGATGAGACAT 59.666 33.333 15.03 15.03 36.82 3.06
5566 7663 6.710295 TGCATTACTGTAGAACATCAAACTGT 59.290 34.615 0.00 0.00 0.00 3.55
5594 7691 5.202004 ACTATGAATAACTCTGGGAGACGT 58.798 41.667 1.31 0.00 33.32 4.34
5595 7692 5.776173 ACTATGAATAACTCTGGGAGACG 57.224 43.478 1.31 0.00 33.32 4.18
5596 7693 7.331791 ACAAACTATGAATAACTCTGGGAGAC 58.668 38.462 1.31 0.00 33.32 3.36
5625 7722 1.820519 CCCTTGTGGTGATTGTGGATG 59.179 52.381 0.00 0.00 0.00 3.51
5666 7764 3.924144 ACTTGCAACAGAACAGCAAAAA 58.076 36.364 0.00 0.00 46.30 1.94
5716 7840 3.844577 AAGTGTGCAAGAGATTCATGC 57.155 42.857 0.00 0.00 41.06 4.06
5717 7841 5.180680 TCTGAAAGTGTGCAAGAGATTCATG 59.819 40.000 0.00 0.00 33.76 3.07
5729 7853 2.221981 CGTCCTTTCTCTGAAAGTGTGC 59.778 50.000 15.90 5.40 33.76 4.57
5923 8053 6.927416 TGCTTAGAATAGTACCGACTGAAAA 58.073 36.000 0.00 0.00 36.28 2.29
6028 8163 3.444792 TTTCCCCCTACAAAACTAGCC 57.555 47.619 0.00 0.00 0.00 3.93
6072 8211 0.104487 TAACGACGTTCACCTGCCAA 59.896 50.000 17.94 0.00 0.00 4.52
6203 8342 1.939934 ACGGATGATGTATGTTTGCCG 59.060 47.619 0.00 0.00 42.85 5.69
6235 8382 5.670341 GCAAAATGTCGTAACGCAAGACTAT 60.670 40.000 5.54 0.00 43.62 2.12
6236 8383 4.376615 GCAAAATGTCGTAACGCAAGACTA 60.377 41.667 5.54 0.00 43.62 2.59
6237 8384 3.606153 GCAAAATGTCGTAACGCAAGACT 60.606 43.478 5.54 0.00 43.62 3.24
6238 8385 2.650297 GCAAAATGTCGTAACGCAAGAC 59.350 45.455 0.00 0.00 43.62 3.01
6239 8386 2.546368 AGCAAAATGTCGTAACGCAAGA 59.454 40.909 0.00 0.00 43.62 3.02
6250 8397 2.664568 TCAGCGTACGTAGCAAAATGTC 59.335 45.455 17.90 0.00 37.01 3.06
6275 8428 4.701651 TGGTAAACTACTCGCTAAGCAGTA 59.298 41.667 0.00 0.00 29.78 2.74
6276 8429 3.508793 TGGTAAACTACTCGCTAAGCAGT 59.491 43.478 0.00 0.00 32.64 4.40
6277 8430 3.858238 GTGGTAAACTACTCGCTAAGCAG 59.142 47.826 0.00 0.00 0.00 4.24
6318 8471 3.634448 CCCATGTGTTTCAAGTTACCACA 59.366 43.478 0.00 0.00 40.02 4.17
6355 8508 2.673200 GCCCTGATGCAGACCTCCA 61.673 63.158 0.00 0.00 32.44 3.86
6526 8679 7.195374 AGGACTATAGTAGCCAGATCTAGAG 57.805 44.000 5.09 0.00 0.00 2.43
6557 8710 7.360361 AGTACTACAAGCAAATTAACAAGCAC 58.640 34.615 0.00 0.00 0.00 4.40
6600 8956 6.330278 GCAAGAACCAAACATACCCTTAATC 58.670 40.000 0.00 0.00 0.00 1.75
6661 9025 2.606587 AAGCCTGGCGGTGGAATCT 61.607 57.895 13.96 0.00 0.00 2.40
6677 9041 5.696270 GTCCTTTGTTAAATCTTTGGCCAAG 59.304 40.000 19.48 12.99 0.00 3.61
6746 9112 0.600557 TTGGTCGCGCAAAATCCATT 59.399 45.000 8.75 0.00 0.00 3.16
6748 9114 0.109365 CATTGGTCGCGCAAAATCCA 60.109 50.000 8.75 5.03 0.00 3.41
6749 9115 0.109319 ACATTGGTCGCGCAAAATCC 60.109 50.000 8.75 2.14 0.00 3.01
6755 9121 2.642129 CCAAACATTGGTCGCGCA 59.358 55.556 8.75 0.00 45.93 6.09
6773 9139 3.955524 TTAGGGTCTGTTTGGTTCCAA 57.044 42.857 0.00 0.00 0.00 3.53
6816 9192 8.883954 TCGTATACTAGTAGCAGCGATATATT 57.116 34.615 8.85 0.00 0.00 1.28
6817 9193 9.491675 AATCGTATACTAGTAGCAGCGATATAT 57.508 33.333 22.17 12.09 36.93 0.86


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

AutoCloner maintained by Alex Coulton.