Multiple sequence alignment - TraesCS2D01G224800

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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 TraesCS2D01G224800 chr2D 100.000 6058 0 0 1 6058 192308272 192314329 0.000000e+00 11188.0
1 TraesCS2D01G224800 chr2D 84.270 178 26 2 661 837 27454051 27453875 8.070000e-39 172.0
2 TraesCS2D01G224800 chr2D 89.655 116 10 2 4327 4442 207410654 207410767 4.890000e-31 147.0
3 TraesCS2D01G224800 chr2D 100.000 30 0 0 5179 5208 423293416 423293387 8.480000e-04 56.5
4 TraesCS2D01G224800 chr2B 93.071 2107 108 16 2067 4165 248102104 248100028 0.000000e+00 3048.0
5 TraesCS2D01G224800 chr2B 88.911 1488 109 25 4429 5910 248099761 248098324 0.000000e+00 1783.0
6 TraesCS2D01G224800 chr2B 94.863 837 26 4 842 1662 248103437 248102602 0.000000e+00 1291.0
7 TraesCS2D01G224800 chr2B 88.750 480 35 10 1 465 67325678 67326153 2.450000e-158 569.0
8 TraesCS2D01G224800 chr2B 96.386 332 11 1 1741 2072 248102589 248102259 4.130000e-151 545.0
9 TraesCS2D01G224800 chr2B 88.649 185 21 0 4163 4347 248099947 248099763 6.110000e-55 226.0
10 TraesCS2D01G224800 chr2B 84.058 207 31 2 644 850 93397718 93397514 1.330000e-46 198.0
11 TraesCS2D01G224800 chr2A 95.722 1870 59 5 2481 4350 205493181 205491333 0.000000e+00 2990.0
12 TraesCS2D01G224800 chr2A 94.061 1145 46 15 4923 6056 205490928 205489795 0.000000e+00 1718.0
13 TraesCS2D01G224800 chr2A 92.075 795 43 7 838 1615 205495258 205494467 0.000000e+00 1101.0
14 TraesCS2D01G224800 chr2A 91.080 426 16 9 2067 2491 205493733 205493329 1.910000e-154 556.0
15 TraesCS2D01G224800 chr2A 90.775 271 14 2 1807 2067 205494077 205493808 9.660000e-93 351.0
16 TraesCS2D01G224800 chr2A 95.694 209 9 0 4429 4637 205491337 205491129 2.710000e-88 337.0
17 TraesCS2D01G224800 chr2A 90.517 232 3 6 4666 4897 205491137 205490925 7.680000e-74 289.0
18 TraesCS2D01G224800 chr2A 95.050 101 4 1 4344 4444 686654620 686654521 2.260000e-34 158.0
19 TraesCS2D01G224800 chr2A 92.035 113 5 3 4339 4451 779584980 779584872 8.130000e-34 156.0
20 TraesCS2D01G224800 chr2A 91.150 113 6 3 4339 4451 779470181 779470073 3.780000e-32 150.0
21 TraesCS2D01G224800 chr2A 93.103 58 4 0 120 177 717250352 717250409 1.080000e-12 86.1
22 TraesCS2D01G224800 chr2A 100.000 31 0 0 5181 5211 379154316 379154346 2.360000e-04 58.4
23 TraesCS2D01G224800 chr7D 94.893 842 27 9 5 837 164754421 164753587 0.000000e+00 1303.0
24 TraesCS2D01G224800 chr7D 100.000 28 0 0 5181 5208 18888876 18888903 1.100000e-02 52.8
25 TraesCS2D01G224800 chr5D 93.236 547 25 4 1 536 435891739 435892284 0.000000e+00 795.0
26 TraesCS2D01G224800 chr5D 92.578 256 19 0 582 837 435892292 435892547 9.590000e-98 368.0
27 TraesCS2D01G224800 chr1B 86.538 468 45 9 11 465 169781817 169782279 3.260000e-137 499.0
28 TraesCS2D01G224800 chr4A 86.735 196 24 2 641 835 731423263 731423457 3.680000e-52 217.0
29 TraesCS2D01G224800 chr4A 84.358 179 26 2 661 838 676215312 676215489 2.240000e-39 174.0
30 TraesCS2D01G224800 chr6B 85.052 194 29 0 644 837 21085553 21085746 1.330000e-46 198.0
31 TraesCS2D01G224800 chr6B 91.150 113 8 1 4331 4443 280098722 280098612 1.050000e-32 152.0
32 TraesCS2D01G224800 chr6B 85.235 149 20 2 118 264 569041262 569041114 1.050000e-32 152.0
33 TraesCS2D01G224800 chr6B 81.046 153 22 5 118 264 75948326 75948477 1.380000e-21 115.0
34 TraesCS2D01G224800 chr6B 87.931 58 7 0 120 177 569371734 569371791 1.090000e-07 69.4
35 TraesCS2D01G224800 chr3B 83.938 193 31 0 645 837 817344159 817344351 1.040000e-42 185.0
36 TraesCS2D01G224800 chr3B 83.425 181 26 4 660 837 166712791 166712970 1.350000e-36 165.0
37 TraesCS2D01G224800 chr1A 95.876 97 4 0 4339 4435 542440405 542440309 2.260000e-34 158.0
38 TraesCS2D01G224800 chr3D 94.898 98 5 0 4343 4440 571378040 571377943 2.920000e-33 154.0
39 TraesCS2D01G224800 chr3D 100.000 29 0 0 5180 5208 538406552 538406580 3.000000e-03 54.7
40 TraesCS2D01G224800 chr6A 90.351 114 10 1 4336 4448 258133056 258133169 1.360000e-31 148.0
41 TraesCS2D01G224800 chr6D 90.909 110 7 3 4346 4454 428481647 428481540 1.760000e-30 145.0
42 TraesCS2D01G224800 chr5B 80.226 177 30 5 273 448 404182261 404182089 1.770000e-25 128.0
43 TraesCS2D01G224800 chr7A 100.000 29 0 0 5180 5208 172324010 172324038 3.000000e-03 54.7
44 TraesCS2D01G224800 chr3A 100.000 29 0 0 5180 5208 673906280 673906308 3.000000e-03 54.7


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 TraesCS2D01G224800 chr2D 192308272 192314329 6057 False 11188.000000 11188 100.000000 1 6058 1 chr2D.!!$F1 6057
1 TraesCS2D01G224800 chr2B 248098324 248103437 5113 True 1378.600000 3048 92.376000 842 5910 5 chr2B.!!$R2 5068
2 TraesCS2D01G224800 chr2A 205489795 205495258 5463 True 1048.857143 2990 92.846286 838 6056 7 chr2A.!!$R4 5218
3 TraesCS2D01G224800 chr7D 164753587 164754421 834 True 1303.000000 1303 94.893000 5 837 1 chr7D.!!$R1 832
4 TraesCS2D01G224800 chr5D 435891739 435892547 808 False 581.500000 795 92.907000 1 837 2 chr5D.!!$F1 836

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
868 883 1.796796 GCATCAGCCCGTTGTCTTC 59.203 57.895 0.0 0.0 33.58 2.87 F
1636 1675 0.478072 AGTGTGATGCCTGGTTTCCA 59.522 50.000 0.0 0.0 0.00 3.53 F
1637 1676 0.598065 GTGTGATGCCTGGTTTCCAC 59.402 55.000 0.0 0.0 0.00 4.02 F
2819 3472 0.770499 TTGGTGTTGCTCCATCTGGA 59.230 50.000 0.0 0.0 43.08 3.86 F
3522 4175 0.900421 AACAGTACCTTAGCCGACCC 59.100 55.000 0.0 0.0 0.00 4.46 F
3845 4504 0.801251 CCTCCTGAAAAAGCTCTGCG 59.199 55.000 0.0 0.0 0.00 5.18 F
4546 5289 1.004511 ACGAGACCAGCCAGTACTAGT 59.995 52.381 0.0 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2755 3408 0.389948 AGGACGAAGAACATCGGTGC 60.390 55.000 0.00 0.00 46.82 5.01 R
3504 4157 0.040794 AGGGTCGGCTAAGGTACTGT 59.959 55.000 0.00 0.00 40.86 3.55 R
3592 4245 7.220300 CGCTATACTGTGAACTCGTTATCTTTT 59.780 37.037 0.00 0.00 0.00 2.27 R
3845 4504 0.107654 GTCCCATGCACCCTGTCTAC 60.108 60.000 0.00 0.00 0.00 2.59 R
4636 5380 0.319900 CTCGTTGGCTAGCAGTGTGT 60.320 55.000 18.24 0.00 0.00 3.72 R
4653 5397 1.337071 TGTGAGAACCGAGTGTCACTC 59.663 52.381 21.13 21.13 41.71 3.51 R
5529 6286 2.046292 GGCAGAGAAGAGATTAGGCCT 58.954 52.381 11.78 11.78 37.22 5.19 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
91 92 5.048224 ACATCAGAACAGATTTTCAAGCCTG 60.048 40.000 0.00 0.00 0.00 4.85
96 97 6.199719 CAGAACAGATTTTCAAGCCTGTTTTC 59.800 38.462 0.00 0.00 46.21 2.29
179 188 6.425577 AATGCATGTATTTGGCAAAATGTC 57.574 33.333 17.70 12.04 41.43 3.06
546 559 7.835634 TTGAAAAATGTTGGAAGTTTACCAC 57.164 32.000 0.00 0.00 37.13 4.16
551 564 8.622948 AAAATGTTGGAAGTTTACCACAAAAA 57.377 26.923 0.00 0.00 37.13 1.94
552 565 8.800370 AAATGTTGGAAGTTTACCACAAAAAT 57.200 26.923 0.00 0.00 37.13 1.82
553 566 7.784633 ATGTTGGAAGTTTACCACAAAAATG 57.215 32.000 0.00 0.00 37.13 2.32
554 567 6.702329 TGTTGGAAGTTTACCACAAAAATGT 58.298 32.000 0.00 0.00 37.13 2.71
555 568 7.837863 TGTTGGAAGTTTACCACAAAAATGTA 58.162 30.769 0.00 0.00 37.13 2.29
556 569 8.478877 TGTTGGAAGTTTACCACAAAAATGTAT 58.521 29.630 0.00 0.00 37.13 2.29
557 570 9.968870 GTTGGAAGTTTACCACAAAAATGTATA 57.031 29.630 0.00 0.00 37.13 1.47
717 730 4.201589 CGTAAGCGAATACCAGTGAAACAG 60.202 45.833 0.00 0.00 39.23 3.16
741 754 7.764443 CAGTCTTAAGGTTCAAAATAGATCGGA 59.236 37.037 1.85 0.00 0.00 4.55
789 802 5.711698 TCAGGGATTGAAAGTTTAGGGTTT 58.288 37.500 0.00 0.00 31.34 3.27
802 815 9.991906 AAAGTTTAGGGTTTAATTTAGCTTTCC 57.008 29.630 0.00 0.00 0.00 3.13
840 853 7.273712 AGGTTTATTTTAAACTTTTTCCGGCA 58.726 30.769 0.00 0.00 0.00 5.69
868 883 1.796796 GCATCAGCCCGTTGTCTTC 59.203 57.895 0.00 0.00 33.58 2.87
1530 1569 2.985847 GCCACAAGCACCCACCTC 60.986 66.667 0.00 0.00 42.97 3.85
1591 1630 8.491152 CATCTATTACCTCAATTCGTGACATTC 58.509 37.037 0.00 0.00 31.13 2.67
1621 1660 4.363990 CGCGCTCCAGTCCAGTGT 62.364 66.667 5.56 0.00 0.00 3.55
1636 1675 0.478072 AGTGTGATGCCTGGTTTCCA 59.522 50.000 0.00 0.00 0.00 3.53
1637 1676 0.598065 GTGTGATGCCTGGTTTCCAC 59.402 55.000 0.00 0.00 0.00 4.02
1638 1677 0.888736 TGTGATGCCTGGTTTCCACG 60.889 55.000 0.00 0.00 0.00 4.94
1662 1701 2.808244 TGCTTTTGTGCTTTGCTACAC 58.192 42.857 0.00 0.00 37.31 2.90
1667 1706 5.762045 CTTTTGTGCTTTGCTACACACTAT 58.238 37.500 0.00 0.00 45.94 2.12
1676 1715 6.036735 GCTTTGCTACACACTATAAATTCGGA 59.963 38.462 0.00 0.00 0.00 4.55
1679 2001 7.709269 TGCTACACACTATAAATTCGGATTC 57.291 36.000 0.00 0.00 0.00 2.52
1684 2006 7.215085 ACACACTATAAATTCGGATTCCTACC 58.785 38.462 0.30 0.00 0.00 3.18
1687 2009 8.148999 ACACTATAAATTCGGATTCCTACCTTC 58.851 37.037 0.30 0.00 0.00 3.46
1690 2012 4.423625 AATTCGGATTCCTACCTTCCAG 57.576 45.455 0.30 0.00 0.00 3.86
1698 2020 5.537674 GGATTCCTACCTTCCAGTATAACGA 59.462 44.000 0.00 0.00 0.00 3.85
1706 2028 4.501058 CCTTCCAGTATAACGAGGGTAAGC 60.501 50.000 0.00 0.00 0.00 3.09
1717 2039 2.348666 CGAGGGTAAGCGTGAGAATTTG 59.651 50.000 0.00 0.00 0.00 2.32
1718 2040 3.335579 GAGGGTAAGCGTGAGAATTTGT 58.664 45.455 0.00 0.00 0.00 2.83
1720 2042 4.251268 AGGGTAAGCGTGAGAATTTGTAC 58.749 43.478 0.00 0.00 0.00 2.90
1724 2046 2.076863 AGCGTGAGAATTTGTACCAGC 58.923 47.619 0.00 0.00 0.00 4.85
1737 2059 5.528043 TTGTACCAGCAAATTTGTGTGAT 57.472 34.783 19.03 7.32 0.00 3.06
1738 2060 6.641169 TTGTACCAGCAAATTTGTGTGATA 57.359 33.333 19.03 6.38 0.00 2.15
1739 2061 6.007936 TGTACCAGCAAATTTGTGTGATAC 57.992 37.500 19.03 16.84 0.00 2.24
1763 2085 1.387084 GTCACTTCGCGATGACAACTC 59.613 52.381 28.88 9.10 43.89 3.01
1969 2301 2.763039 TCCCCTATGCAATGTCAGAGA 58.237 47.619 0.00 0.00 0.00 3.10
2042 2374 3.756082 ATTTCAGTGCTGGGGGATTAA 57.244 42.857 0.00 0.00 0.00 1.40
2094 2586 7.936950 TCGAGAATGAAAGCTACAATATCAG 57.063 36.000 0.00 0.00 0.00 2.90
2096 2588 7.981789 TCGAGAATGAAAGCTACAATATCAGTT 59.018 33.333 0.00 0.00 0.00 3.16
2108 2600 8.119226 GCTACAATATCAGTTTTACTCTGCAAG 58.881 37.037 0.00 0.00 33.48 4.01
2132 2624 5.518865 AGTTGGTATTGCCCATGAAATACT 58.481 37.500 17.77 5.24 38.66 2.12
2174 2668 4.090761 AGTCGCATATGTTCCAATGGAT 57.909 40.909 1.39 0.00 0.00 3.41
2175 2669 5.227569 AGTCGCATATGTTCCAATGGATA 57.772 39.130 1.39 0.00 0.00 2.59
2363 2858 2.390938 TGATATTCGCCGCTCTTTACG 58.609 47.619 0.00 0.00 0.00 3.18
2389 2884 4.723789 AGGTAGATGGGATGTTCTGACATT 59.276 41.667 0.00 0.00 46.27 2.71
2390 2885 4.818546 GGTAGATGGGATGTTCTGACATTG 59.181 45.833 0.00 0.00 46.27 2.82
2391 2886 4.849813 AGATGGGATGTTCTGACATTGA 57.150 40.909 0.00 0.00 46.27 2.57
2392 2887 4.521146 AGATGGGATGTTCTGACATTGAC 58.479 43.478 0.00 0.00 46.27 3.18
2393 2888 3.786368 TGGGATGTTCTGACATTGACA 57.214 42.857 0.00 0.00 46.27 3.58
2394 2889 4.305539 TGGGATGTTCTGACATTGACAT 57.694 40.909 0.00 0.00 46.27 3.06
2654 3307 7.275920 ACATGGACAACCTTATTGAGATAGTC 58.724 38.462 0.00 0.00 37.04 2.59
2755 3408 4.022603 TGTGATTTATGGGGTGTTCCATG 58.977 43.478 6.63 0.00 46.19 3.66
2819 3472 0.770499 TTGGTGTTGCTCCATCTGGA 59.230 50.000 0.00 0.00 43.08 3.86
2885 3538 2.163818 ACTTCCAACGAATCGAAGCA 57.836 45.000 10.55 0.00 37.17 3.91
2894 3547 5.003778 CCAACGAATCGAAGCAATTGATTTC 59.996 40.000 10.76 11.01 41.39 2.17
2972 3625 2.540157 GCTTGTTGGTGTTTCACGTACC 60.540 50.000 0.00 0.00 34.83 3.34
3137 3790 4.356405 TCTTCAGGCAATCAGAAAGACA 57.644 40.909 0.00 0.00 0.00 3.41
3146 3799 5.467705 GCAATCAGAAAGACAAGAGCAAAT 58.532 37.500 0.00 0.00 0.00 2.32
3352 4005 1.544314 GCAGAGGTCACTGGAAAAGCT 60.544 52.381 0.00 0.00 38.22 3.74
3388 4041 7.225538 ACAGCTGCTGTCATTGTTAGAATATAC 59.774 37.037 28.49 0.00 41.21 1.47
3504 4157 2.159393 GCTTTGATAAGCGCCATGTCAA 60.159 45.455 15.74 15.74 46.53 3.18
3522 4175 0.900421 AACAGTACCTTAGCCGACCC 59.100 55.000 0.00 0.00 0.00 4.46
3553 4206 6.690194 ATTAGCTCTTACCATCTTGCTTTG 57.310 37.500 0.00 0.00 32.72 2.77
3592 4245 5.141182 CCTTCTAGGTGGCTTCTGTATCTA 58.859 45.833 0.00 0.00 0.00 1.98
3802 4461 6.219417 TCTCCGTCGGTATAAAATGGTTAA 57.781 37.500 11.88 0.00 0.00 2.01
3803 4462 6.819284 TCTCCGTCGGTATAAAATGGTTAAT 58.181 36.000 11.88 0.00 0.00 1.40
3845 4504 0.801251 CCTCCTGAAAAAGCTCTGCG 59.199 55.000 0.00 0.00 0.00 5.18
3894 4553 4.762251 ACAATTTGTCCTCCTAAGCTTGAC 59.238 41.667 9.86 8.07 0.00 3.18
3901 4560 2.432510 CCTCCTAAGCTTGACCACTAGG 59.567 54.545 9.86 6.00 42.21 3.02
3936 4595 6.150140 GCAAGGATGTGTTCACTCTTAGATTT 59.850 38.462 4.59 0.00 0.00 2.17
3943 4602 7.331026 TGTGTTCACTCTTAGATTTGATAGGG 58.669 38.462 4.59 0.00 0.00 3.53
4026 4685 6.639632 TCTTGTGATCTTTCTTTCCTTTGG 57.360 37.500 0.00 0.00 0.00 3.28
4086 4745 6.370166 TGTTCAAATTTGACAACCCTTGTTTC 59.630 34.615 20.35 0.00 45.52 2.78
4214 4956 6.149474 GCTTCAACCAAAATGTAGCTTCTCTA 59.851 38.462 0.00 0.00 37.95 2.43
4351 5093 8.682936 ATCAGATAATCATTGTTTGGTACTCC 57.317 34.615 0.00 0.00 0.00 3.85
4352 5094 7.054124 TCAGATAATCATTGTTTGGTACTCCC 58.946 38.462 0.00 0.00 0.00 4.30
4353 5095 7.056635 CAGATAATCATTGTTTGGTACTCCCT 58.943 38.462 0.00 0.00 0.00 4.20
4354 5096 7.227512 CAGATAATCATTGTTTGGTACTCCCTC 59.772 40.741 0.00 0.00 0.00 4.30
4355 5097 3.713826 TCATTGTTTGGTACTCCCTCC 57.286 47.619 0.00 0.00 0.00 4.30
4356 5098 2.027561 TCATTGTTTGGTACTCCCTCCG 60.028 50.000 0.00 0.00 0.00 4.63
4357 5099 1.426751 TTGTTTGGTACTCCCTCCGT 58.573 50.000 0.00 0.00 0.00 4.69
4358 5100 2.307496 TGTTTGGTACTCCCTCCGTA 57.693 50.000 0.00 0.00 0.00 4.02
4359 5101 2.607499 TGTTTGGTACTCCCTCCGTAA 58.393 47.619 0.00 0.00 0.00 3.18
4360 5102 2.971330 TGTTTGGTACTCCCTCCGTAAA 59.029 45.455 0.00 0.00 0.00 2.01
4361 5103 3.244181 TGTTTGGTACTCCCTCCGTAAAC 60.244 47.826 0.00 0.00 0.00 2.01
4362 5104 2.610438 TGGTACTCCCTCCGTAAACT 57.390 50.000 0.00 0.00 0.00 2.66
4363 5105 3.737559 TGGTACTCCCTCCGTAAACTA 57.262 47.619 0.00 0.00 0.00 2.24
4364 5106 4.046286 TGGTACTCCCTCCGTAAACTAA 57.954 45.455 0.00 0.00 0.00 2.24
4365 5107 4.613437 TGGTACTCCCTCCGTAAACTAAT 58.387 43.478 0.00 0.00 0.00 1.73
4366 5108 5.765510 TGGTACTCCCTCCGTAAACTAATA 58.234 41.667 0.00 0.00 0.00 0.98
4367 5109 6.376248 TGGTACTCCCTCCGTAAACTAATAT 58.624 40.000 0.00 0.00 0.00 1.28
4368 5110 7.526041 TGGTACTCCCTCCGTAAACTAATATA 58.474 38.462 0.00 0.00 0.00 0.86
4369 5111 8.004215 TGGTACTCCCTCCGTAAACTAATATAA 58.996 37.037 0.00 0.00 0.00 0.98
4370 5112 8.518702 GGTACTCCCTCCGTAAACTAATATAAG 58.481 40.741 0.00 0.00 0.00 1.73
4371 5113 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
4372 5114 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
4373 5115 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
4374 5116 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
4375 5117 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
4376 5118 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
4377 5119 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
4378 5120 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
4379 5121 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
4380 5122 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
4392 5134 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
4393 5135 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
4394 5136 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
4395 5137 8.954350 AGAGCGTTTAGATCACTACTTTAGTAA 58.046 33.333 0.00 0.00 37.82 2.24
4396 5138 9.733219 GAGCGTTTAGATCACTACTTTAGTAAT 57.267 33.333 0.00 0.00 37.23 1.89
4397 5139 9.733219 AGCGTTTAGATCACTACTTTAGTAATC 57.267 33.333 0.00 0.00 37.23 1.75
4398 5140 9.733219 GCGTTTAGATCACTACTTTAGTAATCT 57.267 33.333 4.72 4.72 37.23 2.40
4426 5168 9.892130 AACACTCTTATATTAGTTTTCAGAGGG 57.108 33.333 0.00 0.00 36.55 4.30
4427 5169 9.268282 ACACTCTTATATTAGTTTTCAGAGGGA 57.732 33.333 2.59 0.00 34.50 4.20
4439 5181 8.152023 AGTTTTCAGAGGGAGTACTTGATATT 57.848 34.615 0.00 0.00 0.00 1.28
4546 5289 1.004511 ACGAGACCAGCCAGTACTAGT 59.995 52.381 0.00 0.00 0.00 2.57
4629 5373 4.320456 CACAGGTGGGCTGCGAGT 62.320 66.667 0.00 0.00 0.00 4.18
4653 5397 0.880278 ACACACACTGCTAGCCAACG 60.880 55.000 13.29 0.36 0.00 4.10
4654 5398 0.599991 CACACACTGCTAGCCAACGA 60.600 55.000 13.29 0.00 0.00 3.85
4655 5399 0.319900 ACACACTGCTAGCCAACGAG 60.320 55.000 13.29 4.75 0.00 4.18
4656 5400 0.319900 CACACTGCTAGCCAACGAGT 60.320 55.000 13.29 5.47 0.00 4.18
4657 5401 0.319900 ACACTGCTAGCCAACGAGTG 60.320 55.000 23.44 23.44 39.96 3.51
4658 5402 0.038251 CACTGCTAGCCAACGAGTGA 60.038 55.000 21.60 0.00 36.89 3.41
4659 5403 0.038159 ACTGCTAGCCAACGAGTGAC 60.038 55.000 13.29 0.00 0.00 3.67
4660 5404 0.038251 CTGCTAGCCAACGAGTGACA 60.038 55.000 13.29 0.00 0.00 3.58
4661 5405 0.319555 TGCTAGCCAACGAGTGACAC 60.320 55.000 13.29 0.00 0.00 3.67
4662 5406 0.038159 GCTAGCCAACGAGTGACACT 60.038 55.000 8.12 8.12 0.00 3.55
4663 5407 1.983972 CTAGCCAACGAGTGACACTC 58.016 55.000 23.28 23.28 41.71 3.51
4842 5588 2.952978 TGCCGTCCAACTACATGTTTTT 59.047 40.909 2.30 0.00 36.63 1.94
4866 5612 7.439157 TTTTCTGAAATATCCTGGATATGCG 57.561 36.000 25.82 15.56 35.67 4.73
4907 5653 4.655762 TCACGACTATGATGCTTAGCTT 57.344 40.909 5.60 0.00 0.00 3.74
4908 5654 5.767816 TCACGACTATGATGCTTAGCTTA 57.232 39.130 5.60 0.00 0.00 3.09
4997 5743 4.688413 GCTCCAATTCGAGTCTATGATTCC 59.312 45.833 1.92 0.00 32.11 3.01
5080 5832 4.318949 TTCTGCAGCAGCGAGGCA 62.319 61.111 18.43 8.78 46.23 4.75
5081 5833 3.830464 TTCTGCAGCAGCGAGGCAA 62.830 57.895 18.43 2.52 46.23 4.52
5082 5834 3.359523 CTGCAGCAGCGAGGCAAA 61.360 61.111 10.14 0.00 46.23 3.68
5083 5835 2.906388 TGCAGCAGCGAGGCAAAA 60.906 55.556 6.93 0.00 46.23 2.44
5084 5836 2.209064 CTGCAGCAGCGAGGCAAAAT 62.209 55.000 10.14 0.00 46.23 1.82
5085 5837 1.515736 GCAGCAGCGAGGCAAAATC 60.516 57.895 1.57 0.00 35.83 2.17
5086 5838 1.878070 CAGCAGCGAGGCAAAATCA 59.122 52.632 1.57 0.00 35.83 2.57
5087 5839 0.179171 CAGCAGCGAGGCAAAATCAG 60.179 55.000 1.57 0.00 35.83 2.90
5387 6140 6.128035 TGCTTATGTTTGCAGTATGTGTAAGG 60.128 38.462 0.00 0.00 39.31 2.69
5406 6159 3.127425 GGGAGAAAACCCTATCATCGG 57.873 52.381 0.00 0.00 45.90 4.18
5412 6165 1.966901 AACCCTATCATCGGCGCACA 61.967 55.000 10.83 0.00 0.00 4.57
5434 6191 5.519722 CAAAAGCGACTGGTATTCTTTTGT 58.480 37.500 14.18 0.00 43.85 2.83
5529 6286 2.325661 TCTCCATCAGGACCTCAACA 57.674 50.000 0.00 0.00 39.61 3.33
5568 6325 2.054363 CCGTCTGCTATGTATTCTGCG 58.946 52.381 0.00 0.00 0.00 5.18
5572 6329 2.138320 CTGCTATGTATTCTGCGGTGG 58.862 52.381 0.00 0.00 0.00 4.61
5762 6519 3.869272 CGGCGCTGTCCATCTTGC 61.869 66.667 8.45 0.00 0.00 4.01
5794 6551 3.935828 GGGTGAAGTAGAGCAGAATCAAC 59.064 47.826 0.00 0.00 0.00 3.18
5823 6580 1.474077 GCTGGACCTGCATAAACAAGG 59.526 52.381 17.78 0.00 0.00 3.61
5847 6604 4.829492 AGGAGGAAAAATCAGTTGGAGTTG 59.171 41.667 0.00 0.00 33.39 3.16
6011 6773 5.957771 AATTAGGCTACTCCAGATCAACA 57.042 39.130 0.00 0.00 37.29 3.33
6012 6774 4.737855 TTAGGCTACTCCAGATCAACAC 57.262 45.455 0.00 0.00 37.29 3.32
6034 6796 3.579742 ACCTTTTCTCCCCTTCTCCTA 57.420 47.619 0.00 0.00 0.00 2.94
6035 6797 3.182976 ACCTTTTCTCCCCTTCTCCTAC 58.817 50.000 0.00 0.00 0.00 3.18
6036 6798 2.168728 CCTTTTCTCCCCTTCTCCTACG 59.831 54.545 0.00 0.00 0.00 3.51
6037 6799 1.861982 TTTCTCCCCTTCTCCTACGG 58.138 55.000 0.00 0.00 0.00 4.02
6038 6800 0.686769 TTCTCCCCTTCTCCTACGGC 60.687 60.000 0.00 0.00 0.00 5.68
6039 6801 1.075896 CTCCCCTTCTCCTACGGCT 60.076 63.158 0.00 0.00 0.00 5.52
6056 6818 3.241530 TGCTGGGGCGAACACTCT 61.242 61.111 0.00 0.00 42.25 3.24
6057 6819 2.435059 GCTGGGGCGAACACTCTC 60.435 66.667 0.00 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
179 188 6.442952 TCCATTTTGTTAATTTGAGACCGTG 58.557 36.000 0.00 0.00 0.00 4.94
408 417 7.041635 TCAAATTGATTCTGTTCTCAAAGCA 57.958 32.000 0.00 0.00 35.20 3.91
555 568 9.554724 CACAAAGTACATTTTTAAGACGCATAT 57.445 29.630 0.00 0.00 0.00 1.78
556 569 8.561212 ACACAAAGTACATTTTTAAGACGCATA 58.439 29.630 0.00 0.00 0.00 3.14
557 570 7.422399 ACACAAAGTACATTTTTAAGACGCAT 58.578 30.769 0.00 0.00 0.00 4.73
717 730 8.488651 TTCCGATCTATTTTGAACCTTAAGAC 57.511 34.615 3.36 0.00 0.00 3.01
741 754 2.549754 CAGCACACCAAACTCTTCGATT 59.450 45.455 0.00 0.00 0.00 3.34
782 795 7.983484 CGTAGAGGAAAGCTAAATTAAACCCTA 59.017 37.037 0.00 0.00 0.00 3.53
868 883 2.613506 GGTTTGGTTCGGTCTGCGG 61.614 63.158 0.00 0.00 0.00 5.69
939 968 1.641577 CGAGAGGAATTGGGTTCGTC 58.358 55.000 3.11 3.11 46.85 4.20
1348 1384 3.735029 GTCGTCCTCCGTCGCTGT 61.735 66.667 0.00 0.00 37.94 4.40
1591 1630 2.105960 GAGCGCGGGGATCAAAATCG 62.106 60.000 8.83 0.00 32.24 3.34
1621 1660 0.109532 TTCGTGGAAACCAGGCATCA 59.890 50.000 5.73 0.00 39.03 3.07
1636 1675 2.284952 GCAAAGCACAAAAGCATTTCGT 59.715 40.909 0.00 0.00 37.28 3.85
1637 1676 2.540931 AGCAAAGCACAAAAGCATTTCG 59.459 40.909 0.00 0.00 37.28 3.46
1638 1677 4.507388 TGTAGCAAAGCACAAAAGCATTTC 59.493 37.500 0.00 0.00 37.28 2.17
1662 1701 7.603024 GGAAGGTAGGAATCCGAATTTATAGTG 59.397 40.741 0.00 0.00 0.00 2.74
1667 1706 5.427481 ACTGGAAGGTAGGAATCCGAATTTA 59.573 40.000 0.00 0.00 39.30 1.40
1676 1715 5.539193 CCTCGTTATACTGGAAGGTAGGAAT 59.461 44.000 0.00 0.00 39.30 3.01
1679 2001 3.573110 CCCTCGTTATACTGGAAGGTAGG 59.427 52.174 0.00 0.00 39.30 3.18
1684 2006 4.618965 GCTTACCCTCGTTATACTGGAAG 58.381 47.826 0.00 0.00 42.29 3.46
1687 2009 2.360165 ACGCTTACCCTCGTTATACTGG 59.640 50.000 0.00 0.00 35.09 4.00
1690 2012 3.313526 TCTCACGCTTACCCTCGTTATAC 59.686 47.826 0.00 0.00 36.73 1.47
1698 2020 3.418684 ACAAATTCTCACGCTTACCCT 57.581 42.857 0.00 0.00 0.00 4.34
1706 2028 4.481930 TTTGCTGGTACAAATTCTCACG 57.518 40.909 0.00 0.00 38.70 4.35
1717 2039 5.086058 CGTATCACACAAATTTGCTGGTAC 58.914 41.667 18.12 19.53 0.00 3.34
1718 2040 4.757657 ACGTATCACACAAATTTGCTGGTA 59.242 37.500 18.12 10.99 0.00 3.25
1720 2042 4.159377 ACGTATCACACAAATTTGCTGG 57.841 40.909 18.12 10.34 0.00 4.85
1790 2112 6.861065 TGAACTCTATTTATTTCGGGCATC 57.139 37.500 0.00 0.00 0.00 3.91
1831 2153 6.897966 TGCCCTGGTATTTCCATAAAATGTTA 59.102 34.615 0.00 0.00 46.12 2.41
1969 2301 5.910931 ACCAAAGTATCCCCAATTAAACCT 58.089 37.500 0.00 0.00 0.00 3.50
2042 2374 5.372343 TGATAGTGTCATGTTAGCCCAAT 57.628 39.130 0.00 0.00 0.00 3.16
2108 2600 5.594317 AGTATTTCATGGGCAATACCAACTC 59.406 40.000 14.65 0.00 45.13 3.01
2149 2641 5.184864 TCCATTGGAACATATGCGACTTTTT 59.815 36.000 1.94 0.00 39.30 1.94
2238 2732 4.804108 TGCATGGTCCGTTTTTATTTCTG 58.196 39.130 0.00 0.00 0.00 3.02
2240 2734 4.805219 ACTGCATGGTCCGTTTTTATTTC 58.195 39.130 0.00 0.00 0.00 2.17
2363 2858 1.771255 AGAACATCCCATCTACCTGGC 59.229 52.381 0.00 0.00 34.77 4.85
2389 2884 5.735285 TTGGCAATATTTTGACCATGTCA 57.265 34.783 0.00 0.00 40.43 3.58
2390 2885 6.037391 CCAATTGGCAATATTTTGACCATGTC 59.963 38.462 14.05 0.00 40.43 3.06
2391 2886 5.881443 CCAATTGGCAATATTTTGACCATGT 59.119 36.000 14.05 0.00 40.43 3.21
2392 2887 6.366315 CCAATTGGCAATATTTTGACCATG 57.634 37.500 14.05 3.80 40.43 3.66
2636 3289 5.674525 TGCCTGACTATCTCAATAAGGTTG 58.325 41.667 0.00 0.00 0.00 3.77
2654 3307 1.604693 CCTTCTTTTGCTGCTTGCCTG 60.605 52.381 0.00 0.00 42.00 4.85
2755 3408 0.389948 AGGACGAAGAACATCGGTGC 60.390 55.000 0.00 0.00 46.82 5.01
2879 3532 4.735985 TGATGGTGAAATCAATTGCTTCG 58.264 39.130 0.00 0.00 33.63 3.79
2885 3538 8.369424 TCATCTTGTTTGATGGTGAAATCAATT 58.631 29.630 0.80 0.00 44.04 2.32
2999 3652 3.118956 CCACTTTGTACCCTTTTTGTGCA 60.119 43.478 0.00 0.00 0.00 4.57
3137 3790 7.718753 CCATGAAATCCTAGAGTATTTGCTCTT 59.281 37.037 3.47 0.00 42.69 2.85
3146 3799 4.556697 TCTGCCCATGAAATCCTAGAGTA 58.443 43.478 0.00 0.00 0.00 2.59
3194 3847 3.443925 TCGAGCTCCTGCCTCACG 61.444 66.667 8.47 0.00 40.80 4.35
3318 3971 6.823689 AGTGACCTCTGCACGAAAAATATATT 59.176 34.615 0.00 0.00 41.04 1.28
3352 4005 1.694150 ACAGCAGCTGTTTCCTCTACA 59.306 47.619 23.11 0.00 42.59 2.74
3388 4041 2.227388 GCACTTCTGTTTCCTGTCATGG 59.773 50.000 0.00 0.00 0.00 3.66
3504 4157 0.040794 AGGGTCGGCTAAGGTACTGT 59.959 55.000 0.00 0.00 40.86 3.55
3592 4245 7.220300 CGCTATACTGTGAACTCGTTATCTTTT 59.780 37.037 0.00 0.00 0.00 2.27
3744 4403 9.534565 TCTATGCAAGAAATGTATTACTCTGAC 57.465 33.333 0.00 0.00 35.77 3.51
3845 4504 0.107654 GTCCCATGCACCCTGTCTAC 60.108 60.000 0.00 0.00 0.00 2.59
3873 4532 4.202567 TGGTCAAGCTTAGGAGGACAAATT 60.203 41.667 13.88 0.00 0.00 1.82
3894 4553 3.379372 CCTTGCACAAATGATCCTAGTGG 59.621 47.826 0.00 0.00 0.00 4.00
3901 4560 4.445452 ACACATCCTTGCACAAATGATC 57.555 40.909 8.04 0.00 0.00 2.92
3936 4595 6.884472 TGTTTTTAGATGGTCTCCCTATCA 57.116 37.500 0.00 0.00 0.00 2.15
3957 4616 6.642131 GTGCATGATGTTGTTACTGAAATTGT 59.358 34.615 0.00 0.00 0.00 2.71
3995 4654 7.859875 GGAAAGAAAGATCACAAGAAAAGAGTG 59.140 37.037 0.00 0.00 34.67 3.51
4086 4745 2.996631 AGAAGGCAGCATACTTCCAAG 58.003 47.619 9.70 0.00 43.10 3.61
4161 4903 8.579863 CATCTGACCAGATATGTATTGTCTACA 58.420 37.037 11.73 0.00 45.78 2.74
4172 4914 4.700700 TGAAGCACATCTGACCAGATATG 58.299 43.478 12.55 12.55 45.78 1.78
4214 4956 4.599500 AGGTGGCCCTGGTCTGGT 62.599 66.667 0.00 0.00 40.58 4.00
4350 5092 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
4351 5093 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
4352 5094 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
4353 5095 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
4354 5096 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
4366 5108 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
4367 5109 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
4368 5110 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
4369 5111 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
4370 5112 9.733219 ATTACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
4371 5113 9.733219 GATTACTAAAGTAGTGATCTAAACGCT 57.267 33.333 11.11 0.00 44.10 5.07
4400 5142 9.892130 CCCTCTGAAAACTAATATAAGAGTGTT 57.108 33.333 0.00 0.00 0.00 3.32
4401 5143 9.268282 TCCCTCTGAAAACTAATATAAGAGTGT 57.732 33.333 0.00 0.00 0.00 3.55
4402 5144 9.757227 CTCCCTCTGAAAACTAATATAAGAGTG 57.243 37.037 0.00 0.00 0.00 3.51
4403 5145 9.495382 ACTCCCTCTGAAAACTAATATAAGAGT 57.505 33.333 0.00 0.00 0.00 3.24
4409 5151 9.268282 TCAAGTACTCCCTCTGAAAACTAATAT 57.732 33.333 0.00 0.00 0.00 1.28
4410 5152 8.660295 TCAAGTACTCCCTCTGAAAACTAATA 57.340 34.615 0.00 0.00 0.00 0.98
4411 5153 7.554959 TCAAGTACTCCCTCTGAAAACTAAT 57.445 36.000 0.00 0.00 0.00 1.73
4412 5154 6.989155 TCAAGTACTCCCTCTGAAAACTAA 57.011 37.500 0.00 0.00 0.00 2.24
4413 5155 8.840200 ATATCAAGTACTCCCTCTGAAAACTA 57.160 34.615 0.00 0.00 0.00 2.24
4414 5156 7.741554 ATATCAAGTACTCCCTCTGAAAACT 57.258 36.000 0.00 0.00 0.00 2.66
4415 5157 8.261522 AGAATATCAAGTACTCCCTCTGAAAAC 58.738 37.037 0.00 0.00 0.00 2.43
4416 5158 8.260818 CAGAATATCAAGTACTCCCTCTGAAAA 58.739 37.037 0.00 0.00 31.49 2.29
4417 5159 7.400339 ACAGAATATCAAGTACTCCCTCTGAAA 59.600 37.037 17.30 0.00 33.60 2.69
4418 5160 6.897966 ACAGAATATCAAGTACTCCCTCTGAA 59.102 38.462 17.30 3.26 33.60 3.02
4419 5161 6.436027 ACAGAATATCAAGTACTCCCTCTGA 58.564 40.000 17.30 9.52 33.60 3.27
4420 5162 6.723298 ACAGAATATCAAGTACTCCCTCTG 57.277 41.667 0.00 5.93 35.12 3.35
4421 5163 7.621683 AGAAACAGAATATCAAGTACTCCCTCT 59.378 37.037 0.00 0.00 0.00 3.69
4422 5164 7.787028 AGAAACAGAATATCAAGTACTCCCTC 58.213 38.462 0.00 0.00 0.00 4.30
4423 5165 7.741554 AGAAACAGAATATCAAGTACTCCCT 57.258 36.000 0.00 0.00 0.00 4.20
4424 5166 8.794335 AAAGAAACAGAATATCAAGTACTCCC 57.206 34.615 0.00 0.00 0.00 4.30
4523 5265 2.522185 AGTACTGGCTGGTCTCGTTTA 58.478 47.619 0.00 0.00 0.00 2.01
4546 5289 2.136298 TCAAAATATGCCGCCAAGGA 57.864 45.000 0.00 0.00 45.00 3.36
4629 5373 1.159713 GCTAGCAGTGTGTGTGTGCA 61.160 55.000 10.63 0.00 39.80 4.57
4633 5377 0.588252 GTTGGCTAGCAGTGTGTGTG 59.412 55.000 18.24 0.00 0.00 3.82
4634 5378 0.880278 CGTTGGCTAGCAGTGTGTGT 60.880 55.000 18.24 0.00 0.00 3.72
4636 5380 0.319900 CTCGTTGGCTAGCAGTGTGT 60.320 55.000 18.24 0.00 0.00 3.72
4637 5381 0.319900 ACTCGTTGGCTAGCAGTGTG 60.320 55.000 18.24 6.54 0.00 3.82
4638 5382 0.319900 CACTCGTTGGCTAGCAGTGT 60.320 55.000 18.24 8.58 31.59 3.55
4653 5397 1.337071 TGTGAGAACCGAGTGTCACTC 59.663 52.381 21.13 21.13 41.71 3.51
4654 5398 1.399714 TGTGAGAACCGAGTGTCACT 58.600 50.000 4.81 4.81 40.06 3.41
4655 5399 2.440539 ATGTGAGAACCGAGTGTCAC 57.559 50.000 8.15 8.15 39.85 3.67
4656 5400 4.219725 TGATTATGTGAGAACCGAGTGTCA 59.780 41.667 0.00 0.00 0.00 3.58
4657 5401 4.744570 TGATTATGTGAGAACCGAGTGTC 58.255 43.478 0.00 0.00 0.00 3.67
4658 5402 4.801330 TGATTATGTGAGAACCGAGTGT 57.199 40.909 0.00 0.00 0.00 3.55
4659 5403 5.582269 ACAATGATTATGTGAGAACCGAGTG 59.418 40.000 0.00 0.00 0.00 3.51
4660 5404 5.734720 ACAATGATTATGTGAGAACCGAGT 58.265 37.500 0.00 0.00 0.00 4.18
4661 5405 6.668541 AACAATGATTATGTGAGAACCGAG 57.331 37.500 0.00 0.00 0.00 4.63
4662 5406 7.447374 AAAACAATGATTATGTGAGAACCGA 57.553 32.000 0.00 0.00 0.00 4.69
4663 5407 7.594758 ACAAAAACAATGATTATGTGAGAACCG 59.405 33.333 0.00 0.00 0.00 4.44
4664 5408 8.816640 ACAAAAACAATGATTATGTGAGAACC 57.183 30.769 0.00 0.00 0.00 3.62
4822 5568 3.636282 AAAAACATGTAGTTGGACGGC 57.364 42.857 0.00 0.00 41.19 5.68
4842 5588 6.072508 GCGCATATCCAGGATATTTCAGAAAA 60.073 38.462 18.31 0.00 33.52 2.29
4866 5612 5.039333 GTGATGCTATGAAAACATCTTGGC 58.961 41.667 0.00 0.00 40.66 4.52
4907 5653 6.774673 TCAACACATACAAATTCAGGACCTA 58.225 36.000 0.00 0.00 0.00 3.08
4908 5654 5.630121 TCAACACATACAAATTCAGGACCT 58.370 37.500 0.00 0.00 0.00 3.85
4997 5743 2.301296 AGTGTTGACCATCTCTGACAGG 59.699 50.000 1.81 0.00 0.00 4.00
5081 5833 9.336171 GCTCTATAGTTTCTGATTTCCTGATTT 57.664 33.333 0.00 0.00 0.00 2.17
5082 5834 7.936301 GGCTCTATAGTTTCTGATTTCCTGATT 59.064 37.037 0.00 0.00 0.00 2.57
5083 5835 7.292120 AGGCTCTATAGTTTCTGATTTCCTGAT 59.708 37.037 0.00 0.00 0.00 2.90
5084 5836 6.613271 AGGCTCTATAGTTTCTGATTTCCTGA 59.387 38.462 0.00 0.00 0.00 3.86
5085 5837 6.825610 AGGCTCTATAGTTTCTGATTTCCTG 58.174 40.000 0.00 0.00 0.00 3.86
5086 5838 7.787424 ACTAGGCTCTATAGTTTCTGATTTCCT 59.213 37.037 0.00 0.00 29.01 3.36
5087 5839 7.958088 ACTAGGCTCTATAGTTTCTGATTTCC 58.042 38.462 0.00 0.00 29.01 3.13
5387 6140 2.495084 GCCGATGATAGGGTTTTCTCC 58.505 52.381 0.00 0.00 0.00 3.71
5412 6165 5.519722 CACAAAAGAATACCAGTCGCTTTT 58.480 37.500 0.00 0.00 38.80 2.27
5422 6175 6.446318 TGTTCTCATTGCACAAAAGAATACC 58.554 36.000 12.10 4.26 32.53 2.73
5460 6217 8.268850 TCTATTCTGGTTTCTTCTGTTATTGC 57.731 34.615 0.00 0.00 0.00 3.56
5529 6286 2.046292 GGCAGAGAAGAGATTAGGCCT 58.954 52.381 11.78 11.78 37.22 5.19
5568 6325 2.092968 TGTGGTGATATGAGAAGCCACC 60.093 50.000 8.75 0.00 43.96 4.61
5572 6329 3.165058 TCGTGTGGTGATATGAGAAGC 57.835 47.619 0.00 0.00 0.00 3.86
5762 6519 4.764172 CTCTACTTCACCCTTTCCATGAG 58.236 47.826 0.00 0.00 0.00 2.90
5823 6580 4.657013 ACTCCAACTGATTTTTCCTCCTC 58.343 43.478 0.00 0.00 0.00 3.71
5826 6583 5.765182 TCTCAACTCCAACTGATTTTTCCTC 59.235 40.000 0.00 0.00 0.00 3.71
5847 6604 6.152661 CAGGTCCTCTCCAGTGATAATATCTC 59.847 46.154 1.66 0.00 0.00 2.75
5942 6701 5.925969 GGTTTTAATTCATCCACTTGTGGTG 59.074 40.000 18.05 15.01 44.96 4.17
5983 6745 8.410673 TGATCTGGAGTAGCCTAATTTAGTAG 57.589 38.462 2.88 0.00 37.63 2.57
5991 6753 4.093743 TGTGTTGATCTGGAGTAGCCTAA 58.906 43.478 0.00 0.00 37.63 2.69
6011 6773 2.108425 GGAGAAGGGGAGAAAAGGTTGT 59.892 50.000 0.00 0.00 0.00 3.32
6012 6774 2.376855 AGGAGAAGGGGAGAAAAGGTTG 59.623 50.000 0.00 0.00 0.00 3.77
6038 6800 2.743928 GAGTGTTCGCCCCAGCAG 60.744 66.667 0.00 0.00 39.83 4.24
6039 6801 3.240134 GAGAGTGTTCGCCCCAGCA 62.240 63.158 0.00 0.00 39.83 4.41


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

AutoCloner maintained by Alex Coulton.