Multiple sequence alignment - TraesCS3A01G048300

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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 TraesCS3A01G048300 chr3A 100.000 6594 0 0 1 6594 25871003 25877596 0.000000e+00 12177.0
1 TraesCS3A01G048300 chr3A 89.189 74 8 0 5769 5842 635331610 635331537 7.040000e-15 93.5
2 TraesCS3A01G048300 chr3A 86.792 53 7 0 1556 1608 485055974 485055922 7.140000e-05 60.2
3 TraesCS3A01G048300 chr3D 91.710 6031 384 64 1 5980 11450899 11444934 0.000000e+00 8261.0
4 TraesCS3A01G048300 chr3D 92.067 416 29 4 6181 6594 11444647 11444234 3.430000e-162 582.0
5 TraesCS3A01G048300 chr3D 93.839 211 12 1 5971 6181 11444913 11444704 3.840000e-82 316.0
6 TraesCS3A01G048300 chr3D 89.189 74 8 0 5769 5842 496099901 496099828 7.040000e-15 93.5
7 TraesCS3A01G048300 chr3B 92.017 5086 331 44 685 5743 25166854 25171891 0.000000e+00 7073.0
8 TraesCS3A01G048300 chr3B 91.917 5085 327 43 704 5758 16137742 16132712 0.000000e+00 7036.0
9 TraesCS3A01G048300 chr3B 91.563 403 29 5 1 399 16138651 16138250 9.660000e-153 551.0
10 TraesCS3A01G048300 chr3B 90.347 404 28 8 1 399 25166263 25166660 2.730000e-143 520.0
11 TraesCS3A01G048300 chr3B 97.674 43 0 1 3222 3263 16135279 16135237 9.170000e-09 73.1
12 TraesCS3A01G048300 chr3B 97.674 43 0 1 3222 3263 25169341 25169383 9.170000e-09 73.1
13 TraesCS3A01G048300 chr7B 88.496 113 9 3 6483 6594 165707681 165707790 4.150000e-27 134.0
14 TraesCS3A01G048300 chr7B 92.754 69 4 1 5775 5843 672525203 672525136 1.510000e-16 99.0
15 TraesCS3A01G048300 chr4A 84.416 77 11 1 5769 5845 636084674 636084749 2.550000e-09 75.0
16 TraesCS3A01G048300 chr4A 88.889 63 4 3 5784 5845 636101141 636101201 2.550000e-09 75.0
17 TraesCS3A01G048300 chr4A 97.619 42 1 0 5800 5841 137185707 137185666 9.170000e-09 73.1
18 TraesCS3A01G048300 chr1D 95.652 46 2 0 5800 5845 337898644 337898599 2.550000e-09 75.0
19 TraesCS3A01G048300 chr7D 84.416 77 8 4 5769 5842 207240940 207241015 9.170000e-09 73.1
20 TraesCS3A01G048300 chr2B 100.000 29 0 0 5767 5795 92517557 92517529 3.000000e-03 54.7
21 TraesCS3A01G048300 chr6A 96.774 31 1 0 5765 5795 566690430 566690460 1.200000e-02 52.8
22 TraesCS3A01G048300 chr4B 96.875 32 0 1 5765 5795 640979148 640979179 1.200000e-02 52.8


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 TraesCS3A01G048300 chr3A 25871003 25877596 6593 False 12177.000000 12177 100.000000 1 6594 1 chr3A.!!$F1 6593
1 TraesCS3A01G048300 chr3D 11444234 11450899 6665 True 3053.000000 8261 92.538667 1 6594 3 chr3D.!!$R2 6593
2 TraesCS3A01G048300 chr3B 25166263 25171891 5628 False 2555.366667 7073 93.346000 1 5743 3 chr3B.!!$F1 5742
3 TraesCS3A01G048300 chr3B 16132712 16138651 5939 True 2553.366667 7036 93.718000 1 5758 3 chr3B.!!$R1 5757

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
951 1397 0.678366 TCACTCTCTGTCTCTCCGCC 60.678 60.000 0.00 0.0 0.00 6.13 F
1114 1560 0.459489 CTCTAGAGGTGCTGGACTGC 59.541 60.000 12.27 0.0 30.22 4.40 F
1792 2242 1.077828 TCATTTTACCCCCACATGCCA 59.922 47.619 0.00 0.0 0.00 4.92 F
3478 3953 0.109132 CAACGAAAATCCCTGCCAGC 60.109 55.000 0.00 0.0 0.00 4.85 F
5069 5557 0.453793 CAAAGTTCACGTTGGTGCCA 59.546 50.000 0.00 0.0 44.03 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1772 2222 1.077828 TGGCATGTGGGGGTAAAATGA 59.922 47.619 0.00 0.0 0.00 2.57 R
2257 2712 1.134946 GCGGCACTTTAAATGGCTCAT 59.865 47.619 16.34 0.0 40.35 2.90 R
3745 4226 0.548031 GCCTGGTGGGATCATCTCAA 59.452 55.000 0.00 0.0 37.23 3.02 R
5264 5752 0.250553 TGTGCGGGTCGGAAGAAATT 60.251 50.000 0.00 0.0 45.01 1.82 R
6103 6627 0.035439 CCAACGCCCTAGTCCAACAT 60.035 55.000 0.00 0.0 0.00 2.71 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
154 161 4.046286 TCCTGGATGGCAAGTAAATGTT 57.954 40.909 0.00 0.00 35.26 2.71
249 256 3.497942 GGGCTCAAGTGAAAGGAAGGTTA 60.498 47.826 0.00 0.00 0.00 2.85
293 300 6.404734 GCAAACAGTCAACCTTTCATATAGGG 60.405 42.308 0.00 0.00 37.09 3.53
296 303 5.726793 ACAGTCAACCTTTCATATAGGGAGT 59.273 40.000 0.00 0.00 37.09 3.85
300 307 4.939052 ACCTTTCATATAGGGAGTGACG 57.061 45.455 0.00 0.00 37.09 4.35
305 312 4.987963 TCATATAGGGAGTGACGGACTA 57.012 45.455 0.00 0.00 33.83 2.59
316 323 0.759346 GACGGACTAGCCCCATCAAT 59.241 55.000 0.00 0.00 0.00 2.57
339 346 1.081242 CACAGGGCGCACATGTTTC 60.081 57.895 14.57 0.00 42.25 2.78
340 347 2.268076 ACAGGGCGCACATGTTTCC 61.268 57.895 14.57 0.00 42.25 3.13
341 348 1.973281 CAGGGCGCACATGTTTCCT 60.973 57.895 14.57 1.13 0.00 3.36
455 469 8.189709 AGTTTTCTGAACATCTTTTGAAAAGC 57.810 30.769 12.62 0.00 35.17 3.51
459 473 6.808829 TCTGAACATCTTTTGAAAAGCACAT 58.191 32.000 12.62 0.00 0.00 3.21
461 475 8.579006 TCTGAACATCTTTTGAAAAGCACATAT 58.421 29.630 12.62 0.00 0.00 1.78
765 1210 4.837972 CTTTCCAAAGGTTTCCAAAACCA 58.162 39.130 20.47 0.40 42.69 3.67
790 1235 2.009774 CTCCCTTGCACGTAAATCCAG 58.990 52.381 0.00 0.00 0.00 3.86
840 1285 2.734673 GCTCGCTCGCTCTTTGTGG 61.735 63.158 0.00 0.00 0.00 4.17
858 1303 1.768275 TGGGAAGCAGAGACAACTTGA 59.232 47.619 0.00 0.00 0.00 3.02
867 1312 2.362397 AGAGACAACTTGACGCAGAGAA 59.638 45.455 0.00 0.00 0.00 2.87
868 1313 2.728839 GAGACAACTTGACGCAGAGAAG 59.271 50.000 0.00 0.00 0.00 2.85
883 1329 2.206223 GAGAAGGGGGATAGGGTTTGT 58.794 52.381 0.00 0.00 0.00 2.83
889 1335 1.920351 GGGGATAGGGTTTGTCCAAGA 59.080 52.381 0.00 0.00 38.11 3.02
893 1339 4.219944 GGGATAGGGTTTGTCCAAGAAAAC 59.780 45.833 0.00 0.00 38.11 2.43
924 1370 3.790437 CCATGTGAGGAGCCCGCT 61.790 66.667 0.00 0.00 0.00 5.52
942 1388 3.866883 GCTAAGAAGCTCACTCTCTGT 57.133 47.619 0.00 0.00 45.85 3.41
951 1397 0.678366 TCACTCTCTGTCTCTCCGCC 60.678 60.000 0.00 0.00 0.00 6.13
1022 1468 4.183865 TCTTCATTGTAGGAACATGAGCG 58.816 43.478 0.00 0.00 34.97 5.03
1027 1473 1.002366 GTAGGAACATGAGCGCACAG 58.998 55.000 14.07 8.05 0.00 3.66
1114 1560 0.459489 CTCTAGAGGTGCTGGACTGC 59.541 60.000 12.27 0.00 30.22 4.40
1126 1572 1.968540 GGACTGCGCCTTCTGCTTT 60.969 57.895 4.18 0.00 38.05 3.51
1137 1583 2.291153 CCTTCTGCTTTGATCCCCTCAA 60.291 50.000 0.00 0.00 42.15 3.02
1156 1602 1.128188 AGCCTCCCGTCTTTCAGGTT 61.128 55.000 0.00 0.00 0.00 3.50
1163 1609 1.896465 CCGTCTTTCAGGTTCTCCTCT 59.104 52.381 0.00 0.00 43.07 3.69
1197 1643 3.421394 TTGACCCCATCTAGATCCACT 57.579 47.619 1.03 0.00 0.00 4.00
1212 1658 6.059787 AGATCCACTATTGCATAAGGGATC 57.940 41.667 22.52 22.52 46.08 3.36
1213 1659 6.059787 GATCCACTATTGCATAAGGGATCT 57.940 41.667 22.62 8.05 43.67 2.75
1406 1854 3.738830 AACTACCTCACTAAACGCACA 57.261 42.857 0.00 0.00 0.00 4.57
1410 1858 1.289109 CCTCACTAAACGCACACCGG 61.289 60.000 0.00 0.00 42.52 5.28
1493 1942 8.846943 AAGGAAAGTTCAGTTTTGTGATTTTT 57.153 26.923 0.00 0.00 0.00 1.94
1524 1973 5.277442 CCAAACATCTGTTCAAATTGGCAAC 60.277 40.000 0.00 0.00 37.25 4.17
1548 1997 8.746922 ACATAAACTTTGAATTATGTGCACTG 57.253 30.769 19.41 3.85 45.93 3.66
1575 2024 8.380867 TCATAGTCATCTTGCATCAGGAATATT 58.619 33.333 0.00 0.00 0.00 1.28
1608 2057 2.420628 ATTGCAACATGTTGACACCG 57.579 45.000 36.65 14.06 42.93 4.94
1646 2095 6.662663 TCTTCTAGTAGTCCTTCAACTAACCC 59.337 42.308 0.00 0.00 33.68 4.11
1688 2138 5.636965 CCATCTACATTGCTAGTACATCAGC 59.363 44.000 7.07 7.07 38.31 4.26
1772 2222 4.289245 AGTATGGGCCAATACAAGCATTT 58.711 39.130 28.55 6.59 35.79 2.32
1792 2242 1.077828 TCATTTTACCCCCACATGCCA 59.922 47.619 0.00 0.00 0.00 4.92
1861 2311 6.824305 ACCTTCCAGTTTCATGATTTGTAG 57.176 37.500 0.00 0.00 0.00 2.74
1994 2445 7.844779 AGTACCCCTTAAATAATGTCTCTCTCA 59.155 37.037 0.00 0.00 0.00 3.27
2033 2484 8.421784 GTCTGAATAAGGGTATGACATCACTAA 58.578 37.037 0.00 0.00 0.00 2.24
2100 2555 9.847224 AACTAACATTTCAGTTTTCCTCTTAGA 57.153 29.630 0.00 0.00 30.89 2.10
2126 2581 1.472480 GGAACATGGGTGATCAAACCG 59.528 52.381 11.80 3.12 41.52 4.44
2192 2647 8.542080 TCATCAAATAAGGCCTTGAAATCATTT 58.458 29.630 28.77 20.01 35.31 2.32
2257 2712 6.762571 TCCATTAGGGCCAGGAGATATATTA 58.237 40.000 6.18 0.00 36.21 0.98
2268 2723 8.213679 GCCAGGAGATATATTATGAGCCATTTA 58.786 37.037 0.00 0.00 0.00 1.40
2348 2803 8.140112 AGCCTCTATGGGTATAGTAAATGAAG 57.860 38.462 0.00 0.00 46.10 3.02
2527 2989 9.742144 CATGATAGTACCTAGTGTTACTATCCT 57.258 37.037 24.16 18.04 45.15 3.24
2630 3099 7.088589 AGTTCCAATTGTTCATGTACTATGC 57.911 36.000 4.43 0.00 0.00 3.14
2780 3252 1.347707 CTCAGTCTGGCCAACCACTTA 59.652 52.381 7.01 0.00 42.67 2.24
2818 3290 3.680490 TGATACTGCGGTTCATCCAAAA 58.320 40.909 1.99 0.00 35.57 2.44
2850 3322 6.948589 ACTAACTCATTTAGTCCTTCCTTCC 58.051 40.000 0.00 0.00 46.44 3.46
2851 3323 5.843019 AACTCATTTAGTCCTTCCTTCCA 57.157 39.130 0.00 0.00 37.50 3.53
2883 3355 6.765989 AGAGTTTTCAAACCTAAAAATTGGGC 59.234 34.615 0.00 0.00 39.71 5.36
2983 3457 3.823304 GGCATTTATCCTCCCAATCAGTC 59.177 47.826 0.00 0.00 0.00 3.51
3014 3488 8.517062 AGTCATCCTATCCAATTTCTCAAAAG 57.483 34.615 0.00 0.00 0.00 2.27
3073 3547 8.960591 TGTCTTCAATTCATCTTAATTTCTCCC 58.039 33.333 0.00 0.00 0.00 4.30
3075 3549 9.182214 TCTTCAATTCATCTTAATTTCTCCCAG 57.818 33.333 0.00 0.00 0.00 4.45
3086 3560 0.472925 TTCTCCCAGGCCAGTGTGTA 60.473 55.000 5.01 0.00 0.00 2.90
3093 3567 2.165845 CCAGGCCAGTGTGTACTAGTAC 59.834 54.545 23.58 23.58 34.74 2.73
3095 3569 3.257375 CAGGCCAGTGTGTACTAGTACAA 59.743 47.826 32.02 20.74 46.33 2.41
3117 3591 7.280356 ACAACACTAGATACAAAACTCCAGTT 58.720 34.615 0.00 0.00 40.50 3.16
3262 3737 5.385198 TGCAGAACCCTTGAAAGTTTAGAT 58.615 37.500 0.00 0.00 0.00 1.98
3314 3789 5.692654 GCTTCCGCTTAAACCAACATTAAAA 59.307 36.000 0.00 0.00 0.00 1.52
3473 3948 1.339610 TGTTGCCAACGAAAATCCCTG 59.660 47.619 2.68 0.00 0.00 4.45
3478 3953 0.109132 CAACGAAAATCCCTGCCAGC 60.109 55.000 0.00 0.00 0.00 4.85
3614 4090 2.716424 TCCTCCAAACCCTCTCATGTTT 59.284 45.455 0.00 0.00 35.15 2.83
3767 4248 1.213926 GAGATGATCCCACCAGGCTTT 59.786 52.381 0.00 0.00 34.51 3.51
3825 4306 2.463047 ACTCCTCTAGGTCCACATCC 57.537 55.000 0.00 0.00 36.34 3.51
3826 4307 1.933765 ACTCCTCTAGGTCCACATCCT 59.066 52.381 0.00 0.00 38.91 3.24
3829 4310 1.133761 CCTCTAGGTCCACATCCTCGA 60.134 57.143 0.00 0.00 36.60 4.04
3857 4338 8.824756 TCAATCTTACTAGGAGTGTGTATCTT 57.175 34.615 0.00 0.00 31.79 2.40
3860 4341 8.927675 ATCTTACTAGGAGTGTGTATCTTAGG 57.072 38.462 0.00 0.00 32.27 2.69
3887 4373 5.077564 GGGAGGAGATTGTTGGTTAGTTTT 58.922 41.667 0.00 0.00 0.00 2.43
3898 4384 7.867305 TGTTGGTTAGTTTTCTTGTGTCATA 57.133 32.000 0.00 0.00 0.00 2.15
3967 4453 9.764363 TTACGATTAACATATCAGAAGAGCAAT 57.236 29.630 0.00 0.00 0.00 3.56
3971 4457 8.985315 ATTAACATATCAGAAGAGCAATCCAA 57.015 30.769 0.00 0.00 0.00 3.53
3975 4461 7.713750 ACATATCAGAAGAGCAATCCAAATTG 58.286 34.615 0.00 0.00 44.31 2.32
3976 4462 5.593679 ATCAGAAGAGCAATCCAAATTGG 57.406 39.130 5.48 5.48 42.18 3.16
4040 4526 9.327731 ACTAGAAGAAACTATATTAGGGATGGG 57.672 37.037 0.00 0.00 0.00 4.00
4107 4593 4.850963 AGATATTCAATCATGAGCCCTCCT 59.149 41.667 0.09 0.00 36.78 3.69
4123 4609 3.262915 CCCTCCTGAGACTTCAATCTGTT 59.737 47.826 0.00 0.00 31.69 3.16
4221 4707 4.771114 AATGATACACCCGATTCTTGGA 57.229 40.909 0.00 0.00 0.00 3.53
4240 4726 8.089625 TCTTGGATAGGTTCATAGTCATTTGA 57.910 34.615 0.00 0.00 0.00 2.69
4328 4814 2.505819 ACCCTAGTGCCTCCATTAACTG 59.494 50.000 0.00 0.00 0.00 3.16
4333 4819 3.421844 AGTGCCTCCATTAACTGTTTCC 58.578 45.455 0.00 0.00 0.00 3.13
4334 4820 3.074538 AGTGCCTCCATTAACTGTTTCCT 59.925 43.478 0.00 0.00 0.00 3.36
4336 4822 4.395231 GTGCCTCCATTAACTGTTTCCTAC 59.605 45.833 0.00 0.00 0.00 3.18
4382 4868 5.815740 TGTTGTAGGAACTCTTGTTGTCTTC 59.184 40.000 0.00 0.00 41.75 2.87
4478 4966 1.697432 TCGAACTCCCACCAAGTCATT 59.303 47.619 0.00 0.00 0.00 2.57
4486 4974 2.692557 CCCACCAAGTCATTGTTCAACA 59.307 45.455 0.00 0.00 34.39 3.33
4489 4977 4.805192 CCACCAAGTCATTGTTCAACAAAG 59.195 41.667 7.14 2.67 41.96 2.77
4561 5049 5.642491 GGGAGTCTCCTTTGTTTATGTGTAC 59.358 44.000 18.58 0.00 36.57 2.90
4563 5051 5.235516 AGTCTCCTTTGTTTATGTGTACGG 58.764 41.667 0.00 0.00 0.00 4.02
4586 5074 7.081349 CGGAAATGTTTTTAGCAAGTGTATCA 58.919 34.615 0.00 0.00 0.00 2.15
4589 5077 8.801715 AAATGTTTTTAGCAAGTGTATCAGTG 57.198 30.769 0.00 0.00 0.00 3.66
4623 5111 3.036452 AGGCAAGCCCATGATTAATGT 57.964 42.857 7.62 0.00 36.58 2.71
4631 5119 6.225981 AGCCCATGATTAATGTTTTTCCTC 57.774 37.500 0.00 0.00 34.11 3.71
4673 5161 1.526887 GTCGGGCATGTGATATGTTCG 59.473 52.381 0.00 0.00 0.00 3.95
4691 5179 0.877071 CGTCTTGCCATCACAAGCTT 59.123 50.000 0.00 0.00 45.43 3.74
4844 5332 1.577736 ACTACCAGCAAGAGGAGCAT 58.422 50.000 0.00 0.00 0.00 3.79
4886 5374 3.249189 TGCTTCTGCCCCGAACCT 61.249 61.111 0.00 0.00 38.71 3.50
4911 5399 3.793144 GCTTCGCAGGCTCAACCG 61.793 66.667 0.00 0.00 46.52 4.44
4964 5452 3.136750 TTGCCCGCAACTGCATTT 58.863 50.000 0.00 0.00 42.21 2.32
5069 5557 0.453793 CAAAGTTCACGTTGGTGCCA 59.546 50.000 0.00 0.00 44.03 4.92
5085 5573 2.866872 CCACCTTTCGGCAATGCTA 58.133 52.632 4.82 0.00 0.00 3.49
5103 5591 4.132336 TGCTATCTCCATCTTGTGCATTC 58.868 43.478 0.00 0.00 0.00 2.67
5113 5601 3.959293 TCTTGTGCATTCATCCTCATGT 58.041 40.909 0.00 0.00 0.00 3.21
5120 5608 3.441222 GCATTCATCCTCATGTTGTGACA 59.559 43.478 0.00 0.00 40.71 3.58
5123 5611 4.622260 TCATCCTCATGTTGTGACAGAA 57.378 40.909 0.00 0.00 39.58 3.02
5132 5620 7.335171 CCTCATGTTGTGACAGAAAATCATAGA 59.665 37.037 0.00 0.00 39.58 1.98
5264 5752 5.925397 CAGCTATACATTTGTTGTGCCAAAA 59.075 36.000 0.00 0.00 39.48 2.44
5339 5827 4.031611 AGATAACCTGTCCCTAAGTGACC 58.968 47.826 0.00 0.00 31.60 4.02
5343 5831 0.976641 CTGTCCCTAAGTGACCAGCA 59.023 55.000 0.00 0.00 31.60 4.41
5369 5857 1.622312 GAAGTTCGTAGTCAGGGGGTT 59.378 52.381 0.00 0.00 0.00 4.11
5520 6008 7.037438 GTGATAATTTGGTCATGTGCATCTTT 58.963 34.615 0.00 0.00 0.00 2.52
5539 6027 6.207691 TCTTTGGAAGAAGGTTCACTTTTG 57.792 37.500 0.00 0.00 40.21 2.44
5598 6086 1.633432 ACTTGCATAGTGGTGGGCTTA 59.367 47.619 0.00 0.00 35.19 3.09
5609 6097 2.311542 TGGTGGGCTTATCACTCCAATT 59.688 45.455 0.00 0.00 35.61 2.32
5648 6138 3.297830 CACGTGGAGTATGTGTTGAGA 57.702 47.619 7.95 0.00 40.65 3.27
5727 6217 9.203421 CATATACGTTTAGCTATTGATGGTCAA 57.797 33.333 0.00 0.00 41.09 3.18
5732 6222 7.604927 ACGTTTAGCTATTGATGGTCAAGTAAA 59.395 33.333 0.00 0.00 40.05 2.01
5735 6225 5.500234 AGCTATTGATGGTCAAGTAAAGCA 58.500 37.500 15.25 0.00 40.05 3.91
5744 6234 7.333423 TGATGGTCAAGTAAAGCATACAAGTAC 59.667 37.037 2.99 0.00 35.13 2.73
5745 6235 5.636121 TGGTCAAGTAAAGCATACAAGTACG 59.364 40.000 2.99 0.00 0.00 3.67
5746 6236 5.865552 GGTCAAGTAAAGCATACAAGTACGA 59.134 40.000 0.00 0.00 0.00 3.43
5747 6237 6.183360 GGTCAAGTAAAGCATACAAGTACGAC 60.183 42.308 0.00 0.00 0.00 4.34
5758 6248 0.731514 AAGTACGACGATGTGCACCG 60.732 55.000 15.69 14.17 0.00 4.94
5781 6271 3.799432 AGGCATATACTCTCTCCGTCT 57.201 47.619 0.00 0.00 0.00 4.18
5798 6288 3.122948 CCGTCTCAAAATAAGTGTCGTGG 59.877 47.826 0.00 0.00 0.00 4.94
5827 6317 3.378911 AAACCACGGCACTTATTTTGG 57.621 42.857 0.00 0.00 0.00 3.28
5842 6332 0.178926 TTTGGGACCGAGGGAGTACA 60.179 55.000 0.00 0.00 0.00 2.90
5930 6424 2.562912 GTCCTTGTCGTCGGCGTA 59.437 61.111 10.18 0.00 39.49 4.42
5966 6460 2.629336 AAATCTTCATCGGAGCTCCC 57.371 50.000 27.20 9.59 0.00 4.30
5986 6510 3.562141 CCCATAAGACGAACAACAACACA 59.438 43.478 0.00 0.00 0.00 3.72
5987 6511 4.035792 CCCATAAGACGAACAACAACACAA 59.964 41.667 0.00 0.00 0.00 3.33
6083 6607 4.604976 CAATTTCTAGTACTACGGACCCG 58.395 47.826 6.94 6.94 46.03 5.28
6110 6634 5.330455 CTACTGTAGCTTCAGATGTTGGA 57.670 43.478 25.20 0.00 38.63 3.53
6112 6636 3.580458 ACTGTAGCTTCAGATGTTGGACT 59.420 43.478 25.20 0.00 38.63 3.85
6113 6637 4.772624 ACTGTAGCTTCAGATGTTGGACTA 59.227 41.667 25.20 0.00 38.63 2.59
6117 6641 2.911484 CTTCAGATGTTGGACTAGGGC 58.089 52.381 0.00 0.00 0.00 5.19
6120 6644 1.066143 CAGATGTTGGACTAGGGCGTT 60.066 52.381 0.00 0.00 0.00 4.84
6160 6684 4.160736 CGCTGAGAACACGGATATCATA 57.839 45.455 4.83 0.00 0.00 2.15
6190 6771 3.118112 AGACAAGCCCTTTCGATGATCAT 60.118 43.478 8.25 8.25 0.00 2.45
6201 6782 1.364626 GATGATCATCCGATGGCCGC 61.365 60.000 22.91 0.00 36.84 6.53
6214 6795 2.127383 GCCGCGGTTTCGAGTTTG 60.127 61.111 28.70 0.00 39.00 2.93
6217 6798 2.127383 GCGGTTTCGAGTTTGCCG 60.127 61.111 9.66 9.66 44.60 5.69
6223 6804 4.595538 TCGAGTTTGCCGTGCCGT 62.596 61.111 0.00 0.00 0.00 5.68
6233 6814 3.047877 CGTGCCGTTTCTCCACCC 61.048 66.667 0.00 0.00 0.00 4.61
6316 6898 0.036010 CATGAGACCACACCTGACCC 60.036 60.000 0.00 0.00 0.00 4.46
6330 6912 3.138283 ACCTGACCCAAGATCTGTCAAAA 59.862 43.478 13.57 0.00 38.45 2.44
6342 6924 2.751259 TCTGTCAAAATGCAGATGGAGC 59.249 45.455 0.00 0.00 36.89 4.70
6350 6932 3.554342 CAGATGGAGCGGGGAGGG 61.554 72.222 0.00 0.00 0.00 4.30
6403 6985 4.185467 AGCTTCATGACACACTAGACAG 57.815 45.455 0.00 0.00 0.00 3.51
6410 6992 1.469308 GACACACTAGACAGGAGACGG 59.531 57.143 0.00 0.00 0.00 4.79
6430 7012 2.558380 GATTCCACCTCCCTGCCCAC 62.558 65.000 0.00 0.00 0.00 4.61
6516 7098 2.476519 GCACTAAAGGAGTCGAGACGAG 60.477 54.545 0.00 0.00 35.64 4.18
6541 7123 1.891919 GCCGAAACCAGCAGTGACA 60.892 57.895 0.00 0.00 0.00 3.58
6547 7129 2.346766 AACCAGCAGTGACATGAACA 57.653 45.000 0.00 0.00 0.00 3.18
6554 7136 0.468226 AGTGACATGAACACGGTGGT 59.532 50.000 13.48 5.52 42.25 4.16
6569 7151 1.153524 TGGTGCAAACAGAGGCCAT 59.846 52.632 5.01 0.00 0.00 4.40
6572 7154 1.406539 GGTGCAAACAGAGGCCATATG 59.593 52.381 5.01 2.38 0.00 1.78
6573 7155 1.406539 GTGCAAACAGAGGCCATATGG 59.593 52.381 18.07 18.07 38.53 2.74
6576 7158 2.579873 CAAACAGAGGCCATATGGGAG 58.420 52.381 23.30 0.00 40.01 4.30
6577 7159 1.898863 AACAGAGGCCATATGGGAGT 58.101 50.000 23.30 0.00 40.01 3.85
6578 7160 1.428869 ACAGAGGCCATATGGGAGTC 58.571 55.000 23.30 6.22 40.01 3.36
6589 7171 0.462047 ATGGGAGTCGAAACCGATGC 60.462 55.000 6.00 0.00 38.43 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
117 123 9.077885 GCCATCCAGGAATTAGTATTGATTTAA 57.922 33.333 0.00 0.00 41.22 1.52
131 138 4.613437 ACATTTACTTGCCATCCAGGAAT 58.387 39.130 0.00 0.00 41.22 3.01
249 256 5.637006 TTGCCAAAGTTAGCGTCAAATAT 57.363 34.783 0.00 0.00 0.00 1.28
293 300 1.043673 ATGGGGCTAGTCCGTCACTC 61.044 60.000 7.43 0.00 36.43 3.51
296 303 0.616395 TTGATGGGGCTAGTCCGTCA 60.616 55.000 18.85 18.85 45.50 4.35
300 307 2.787994 CATCATTGATGGGGCTAGTCC 58.212 52.381 17.31 4.21 36.51 3.85
305 312 0.032912 TGTGCATCATTGATGGGGCT 60.033 50.000 24.29 0.00 40.10 5.19
369 380 9.891828 GGAATATGTTTTTGAAAAATGAAACCC 57.108 29.630 6.35 2.08 32.49 4.11
413 424 9.447157 TCAGAAAACTGGAACAAAATTTGAAAT 57.553 25.926 13.19 0.00 38.70 2.17
414 425 8.839310 TCAGAAAACTGGAACAAAATTTGAAA 57.161 26.923 13.19 0.00 38.70 2.69
415 426 8.716909 GTTCAGAAAACTGGAACAAAATTTGAA 58.283 29.630 13.19 0.00 38.70 2.69
416 427 7.875041 TGTTCAGAAAACTGGAACAAAATTTGA 59.125 29.630 13.19 0.00 38.70 2.69
417 428 8.027440 TGTTCAGAAAACTGGAACAAAATTTG 57.973 30.769 3.89 3.89 38.70 2.32
419 430 8.260114 AGATGTTCAGAAAACTGGAACAAAATT 58.740 29.630 10.06 0.00 38.70 1.82
421 435 7.169158 AGATGTTCAGAAAACTGGAACAAAA 57.831 32.000 10.06 0.00 38.70 2.44
429 443 8.112449 GCTTTTCAAAAGATGTTCAGAAAACTG 58.888 33.333 14.39 0.00 33.16 3.16
430 444 7.818930 TGCTTTTCAAAAGATGTTCAGAAAACT 59.181 29.630 14.39 0.00 33.16 2.66
431 445 7.899841 GTGCTTTTCAAAAGATGTTCAGAAAAC 59.100 33.333 14.39 8.32 33.16 2.43
432 446 7.601886 TGTGCTTTTCAAAAGATGTTCAGAAAA 59.398 29.630 14.39 11.85 34.81 2.29
434 448 6.629128 TGTGCTTTTCAAAAGATGTTCAGAA 58.371 32.000 14.39 0.00 0.00 3.02
614 629 8.466086 AGAAATGTCAAAACTTGTTTGAGTTC 57.534 30.769 1.86 6.70 38.86 3.01
748 1193 5.917462 AGATCTTGGTTTTGGAAACCTTTG 58.083 37.500 19.85 11.64 40.88 2.77
765 1210 3.695830 TTTACGTGCAAGGGAGATCTT 57.304 42.857 4.26 0.00 0.00 2.40
840 1285 1.795286 CGTCAAGTTGTCTCTGCTTCC 59.205 52.381 2.11 0.00 0.00 3.46
858 1303 0.760945 CCTATCCCCCTTCTCTGCGT 60.761 60.000 0.00 0.00 0.00 5.24
867 1312 0.122435 TGGACAAACCCTATCCCCCT 59.878 55.000 0.00 0.00 38.00 4.79
868 1313 1.004436 TTGGACAAACCCTATCCCCC 58.996 55.000 0.00 0.00 38.00 5.40
883 1329 4.740334 GCTTTCCAATGCAGTTTTCTTGGA 60.740 41.667 12.17 12.17 44.03 3.53
889 1335 1.767681 TGGGCTTTCCAATGCAGTTTT 59.232 42.857 0.00 0.00 43.84 2.43
924 1370 4.917385 AGAGACAGAGAGTGAGCTTCTTA 58.083 43.478 0.00 0.00 0.00 2.10
942 1388 1.840737 GCTGGATATAGGCGGAGAGA 58.159 55.000 0.00 0.00 0.00 3.10
951 1397 6.237942 CGCCTCAATTTTATCGCTGGATATAG 60.238 42.308 0.00 0.00 35.16 1.31
1022 1468 2.486191 CCATACTCTCAATCCCCTGTGC 60.486 54.545 0.00 0.00 0.00 4.57
1027 1473 1.349357 GCCTCCATACTCTCAATCCCC 59.651 57.143 0.00 0.00 0.00 4.81
1126 1572 1.694169 GGGAGGCTTGAGGGGATCA 60.694 63.158 0.00 0.00 35.62 2.92
1156 1602 2.642171 TAGGGCAAAGGAAGAGGAGA 57.358 50.000 0.00 0.00 0.00 3.71
1163 1609 2.558800 GGGGTCAATTAGGGCAAAGGAA 60.559 50.000 0.00 0.00 0.00 3.36
1197 1643 5.103728 TGGAAACCAGATCCCTTATGCAATA 60.104 40.000 0.00 0.00 36.04 1.90
1212 1658 6.187682 ACCCTAGAAATAACATGGAAACCAG 58.812 40.000 0.00 0.00 36.75 4.00
1213 1659 6.147437 ACCCTAGAAATAACATGGAAACCA 57.853 37.500 0.00 0.00 38.19 3.67
1275 1722 9.944376 TTTACTTCAGCTCCATGTATATAATCC 57.056 33.333 0.00 0.00 0.00 3.01
1406 1854 4.516321 GTGAAACAAAGTACCATAACCGGT 59.484 41.667 0.00 0.00 39.07 5.28
1410 1858 8.122306 GTTTTGGTGAAACAAAGTACCATAAC 57.878 34.615 11.00 11.00 45.57 1.89
1495 1944 7.628153 GCCAATTTGAACAGATGTTTGGTTTTT 60.628 33.333 12.57 0.00 38.56 1.94
1517 1966 8.986847 CACATAATTCAAAGTTTATGTTGCCAA 58.013 29.630 5.76 0.00 43.17 4.52
1524 1973 8.746922 ACAGTGCACATAATTCAAAGTTTATG 57.253 30.769 21.04 4.43 40.20 1.90
1530 1979 7.755591 ACTATGACAGTGCACATAATTCAAAG 58.244 34.615 21.04 7.45 35.62 2.77
1534 1983 6.908870 TGACTATGACAGTGCACATAATTC 57.091 37.500 21.04 7.83 37.72 2.17
1548 1997 4.953667 TCCTGATGCAAGATGACTATGAC 58.046 43.478 0.00 0.00 0.00 3.06
1608 2057 7.658167 GGACTACTAGAAGAATATTTTGAGGGC 59.342 40.741 0.00 0.00 0.00 5.19
1772 2222 1.077828 TGGCATGTGGGGGTAAAATGA 59.922 47.619 0.00 0.00 0.00 2.57
1839 2289 7.040478 TGTTCTACAAATCATGAAACTGGAAGG 60.040 37.037 0.00 0.00 39.30 3.46
1843 2293 8.870160 TTTTGTTCTACAAATCATGAAACTGG 57.130 30.769 0.00 0.00 46.17 4.00
1994 2445 9.143155 ACCCTTATTCAGACAACTTTTGTTAAT 57.857 29.630 0.00 0.00 45.52 1.40
2033 2484 8.378565 CCTTATGAGTAGGTTCAATATGGATGT 58.621 37.037 0.00 0.00 0.00 3.06
2074 2529 9.847224 TCTAAGAGGAAAACTGAAATGTTAGTT 57.153 29.630 0.00 0.00 38.70 2.24
2091 2546 6.447084 ACCCATGTTCCTAAAATCTAAGAGGA 59.553 38.462 0.00 0.00 36.28 3.71
2100 2555 6.070824 GGTTTGATCACCCATGTTCCTAAAAT 60.071 38.462 0.00 0.00 0.00 1.82
2108 2563 2.286365 ACGGTTTGATCACCCATGTT 57.714 45.000 10.43 0.00 32.48 2.71
2126 2581 8.182227 GGGCTTAACATTTCTACAATGAGTTAC 58.818 37.037 1.59 0.00 0.00 2.50
2209 2664 8.680903 GGATTCACTTCAACATTCTATCAACAT 58.319 33.333 0.00 0.00 0.00 2.71
2257 2712 1.134946 GCGGCACTTTAAATGGCTCAT 59.865 47.619 16.34 0.00 40.35 2.90
2268 2723 5.304778 AGGAAATTAAAATTGCGGCACTTT 58.695 33.333 11.92 11.92 0.00 2.66
2271 2726 4.201580 CGAAGGAAATTAAAATTGCGGCAC 60.202 41.667 0.05 0.00 0.00 5.01
2348 2803 7.712797 TCTACAATTTCCTTTGAGGTTGAAAC 58.287 34.615 3.65 0.00 36.53 2.78
2353 2808 7.839680 ACATTCTACAATTTCCTTTGAGGTT 57.160 32.000 0.00 0.00 36.53 3.50
2481 2943 4.659111 TGCTAAAGCTAATTGCATGCAT 57.341 36.364 23.37 10.46 45.94 3.96
2527 2989 9.260002 GAGCAACAAGAAATAAATTTTGGAAGA 57.740 29.630 0.00 0.00 0.00 2.87
2546 3008 4.265893 TGAAGTGGTTACAAAGAGCAACA 58.734 39.130 0.00 0.00 0.00 3.33
2600 3064 9.959721 AGTACATGAACAATTGGAACTTATAGT 57.040 29.630 10.83 0.00 0.00 2.12
2630 3099 3.209410 GAAATCCATGGGCTCACTACTG 58.791 50.000 13.02 0.00 0.00 2.74
2696 3167 9.725019 ATGAATGCCTCGTATAGAATTATGAAA 57.275 29.630 0.00 0.00 0.00 2.69
2780 3252 6.540189 GCAGTATCAATGGAACTAACACTGAT 59.460 38.462 0.00 0.00 34.24 2.90
2791 3263 3.342377 TGAACCGCAGTATCAATGGAA 57.658 42.857 0.00 0.00 0.00 3.53
2918 3392 3.548770 GGAGAAATCTGATCATGCACCA 58.451 45.455 0.00 0.00 0.00 4.17
2983 3457 6.320672 AGAAATTGGATAGGATGACTTGCAAG 59.679 38.462 24.84 24.84 0.00 4.01
3073 3547 2.823747 TGTACTAGTACACACTGGCCTG 59.176 50.000 27.99 8.29 40.77 4.85
3075 3549 3.006110 TGTTGTACTAGTACACACTGGCC 59.994 47.826 30.76 14.92 44.81 5.36
3093 3567 7.730364 AACTGGAGTTTTGTATCTAGTGTTG 57.270 36.000 0.00 0.00 37.34 3.33
3117 3591 8.990163 AAAGAATAAACCAGTAACTCTTGGAA 57.010 30.769 0.00 0.00 0.00 3.53
3203 3678 4.640201 TCTGAAACTTTCAAGGGTTCTGTG 59.360 41.667 5.72 0.00 39.58 3.66
3262 3737 5.941555 TGGAAAGGAAAGTTGGCTTTTTA 57.058 34.783 0.00 0.00 44.25 1.52
3405 3880 5.188948 GGGGGCTATTTCTTGGTGTTAATTT 59.811 40.000 0.00 0.00 0.00 1.82
3406 3881 4.714802 GGGGGCTATTTCTTGGTGTTAATT 59.285 41.667 0.00 0.00 0.00 1.40
3587 4063 0.906066 GAGGGTTTGGAGGAGAGGTC 59.094 60.000 0.00 0.00 0.00 3.85
3684 4163 1.133637 TGGTAATGGGTGTGTGCAACT 60.134 47.619 0.00 0.00 38.04 3.16
3741 4222 3.372349 CCTGGTGGGATCATCTCAAACAT 60.372 47.826 0.00 0.00 37.23 2.71
3745 4226 0.548031 GCCTGGTGGGATCATCTCAA 59.452 55.000 0.00 0.00 37.23 3.02
3825 4306 7.433719 CACACTCCTAGTAAGATTGAAATCGAG 59.566 40.741 0.00 0.38 40.35 4.04
3826 4307 7.093902 ACACACTCCTAGTAAGATTGAAATCGA 60.094 37.037 0.00 0.00 40.35 3.59
3898 4384 9.653516 TCTCTTCAGGAAGTTAGATATGATCTT 57.346 33.333 8.75 0.00 38.84 2.40
3944 4430 7.386025 TGGATTGCTCTTCTGATATGTTAATCG 59.614 37.037 0.00 0.00 0.00 3.34
3958 4444 2.419159 GGGCCAATTTGGATTGCTCTTC 60.419 50.000 19.76 0.00 40.96 2.87
3967 4453 0.337773 TATGCAGGGGCCAATTTGGA 59.662 50.000 19.76 0.00 40.96 3.53
3971 4457 0.186873 CTCCTATGCAGGGGCCAATT 59.813 55.000 4.39 0.00 42.87 2.32
3975 4461 4.277009 GCCTCCTATGCAGGGGCC 62.277 72.222 3.93 0.00 45.57 5.80
4040 4526 7.650104 GTGCCAAGAATGACTCTAGTAAGATAC 59.350 40.741 0.00 0.00 32.46 2.24
4107 4593 5.279506 GGAGGTGTAACAGATTGAAGTCTCA 60.280 44.000 0.00 0.00 39.98 3.27
4123 4609 3.711704 GGATGAGAATCCAAGGAGGTGTA 59.288 47.826 0.00 0.00 40.43 2.90
4328 4814 7.224522 TCTATTAAGATAGCGGGTAGGAAAC 57.775 40.000 0.00 0.00 36.09 2.78
4561 5049 7.081349 TGATACACTTGCTAAAAACATTTCCG 58.919 34.615 0.00 0.00 0.00 4.30
4563 5051 8.905702 CACTGATACACTTGCTAAAAACATTTC 58.094 33.333 0.00 0.00 0.00 2.17
4586 5074 5.819901 GCTTGCCTATGAGAAAGATAACACT 59.180 40.000 0.00 0.00 0.00 3.55
4589 5077 4.517075 GGGCTTGCCTATGAGAAAGATAAC 59.483 45.833 11.71 0.00 0.00 1.89
4623 5111 7.611467 ACACTGCATTATATCACAGAGGAAAAA 59.389 33.333 0.00 0.00 34.25 1.94
4631 5119 5.858381 ACCCTACACTGCATTATATCACAG 58.142 41.667 0.00 0.00 36.22 3.66
4673 5161 1.135859 CGAAGCTTGTGATGGCAAGAC 60.136 52.381 2.10 0.00 46.34 3.01
4691 5179 1.073125 TGGCAATTGTCCTTCTTCCGA 59.927 47.619 7.75 0.00 0.00 4.55
4812 5300 3.832490 TGCTGGTAGTAGTGTGTCTTGAT 59.168 43.478 0.00 0.00 0.00 2.57
4844 5332 1.358877 CATGCGGACACGATTTCTCA 58.641 50.000 0.00 0.00 44.60 3.27
4961 5449 6.016276 GGGTGAAAGAATATCCATACGCAAAT 60.016 38.462 0.00 0.00 0.00 2.32
4964 5452 4.102524 AGGGTGAAAGAATATCCATACGCA 59.897 41.667 0.00 0.00 0.00 5.24
5085 5573 4.141228 AGGATGAATGCACAAGATGGAGAT 60.141 41.667 0.00 0.00 28.84 2.75
5103 5591 5.694231 TTTTCTGTCACAACATGAGGATG 57.306 39.130 0.00 0.00 38.28 3.51
5113 5601 7.819415 ACTCGAATCTATGATTTTCTGTCACAA 59.181 33.333 0.00 0.00 0.00 3.33
5120 5608 5.592054 TCGCACTCGAATCTATGATTTTCT 58.408 37.500 0.00 0.00 42.44 2.52
5264 5752 0.250553 TGTGCGGGTCGGAAGAAATT 60.251 50.000 0.00 0.00 45.01 1.82
5322 5810 1.645710 CTGGTCACTTAGGGACAGGT 58.354 55.000 17.00 0.00 37.00 4.00
5339 5827 3.589988 ACTACGAACTTCTCCAATGCTG 58.410 45.455 0.00 0.00 0.00 4.41
5343 5831 3.195825 CCCTGACTACGAACTTCTCCAAT 59.804 47.826 0.00 0.00 0.00 3.16
5369 5857 1.804746 CGCCACACATATGCGGTAGAA 60.805 52.381 1.58 0.00 44.29 2.10
5459 5947 9.463443 GATTTATTTAATTGTAGCTTTGGCGAT 57.537 29.630 0.00 0.00 44.37 4.58
5460 5948 8.682710 AGATTTATTTAATTGTAGCTTTGGCGA 58.317 29.630 0.00 0.00 44.37 5.54
5520 6008 4.594970 TGACAAAAGTGAACCTTCTTCCA 58.405 39.130 0.00 0.00 31.27 3.53
5539 6027 3.119245 TCAACAACGACCCTAGCTATGAC 60.119 47.826 0.00 0.00 0.00 3.06
5609 6097 3.457234 GTGTGCTGACGATATCCATTCA 58.543 45.455 0.00 0.00 0.00 2.57
5622 6110 0.966179 ACATACTCCACGTGTGCTGA 59.034 50.000 15.65 3.32 38.19 4.26
5648 6138 9.915629 TGTAGCAAAACATTCCGTAATAAAAAT 57.084 25.926 0.00 0.00 0.00 1.82
5658 6148 7.406799 AAAGAAAATGTAGCAAAACATTCCG 57.593 32.000 11.13 0.00 46.72 4.30
5694 6184 9.758651 TCAATAGCTAAACGTATATGTGTGAAT 57.241 29.630 0.00 0.00 0.00 2.57
5695 6185 9.758651 ATCAATAGCTAAACGTATATGTGTGAA 57.241 29.630 0.00 0.00 0.00 3.18
5708 6198 7.910683 GCTTTACTTGACCATCAATAGCTAAAC 59.089 37.037 0.00 0.00 35.59 2.01
5709 6199 7.609918 TGCTTTACTTGACCATCAATAGCTAAA 59.390 33.333 0.00 0.00 35.59 1.85
5727 6217 5.300969 TCGTCGTACTTGTATGCTTTACT 57.699 39.130 0.00 0.00 0.00 2.24
5732 6222 3.435566 CACATCGTCGTACTTGTATGCT 58.564 45.455 0.00 0.00 0.00 3.79
5735 6225 3.176708 GTGCACATCGTCGTACTTGTAT 58.823 45.455 13.17 0.00 0.00 2.29
5744 6234 1.872234 CTACCGGTGCACATCGTCG 60.872 63.158 19.93 12.25 31.99 5.12
5745 6235 1.518572 CCTACCGGTGCACATCGTC 60.519 63.158 19.93 0.00 31.99 4.20
5746 6236 2.577059 CCTACCGGTGCACATCGT 59.423 61.111 19.93 13.10 31.99 3.73
5747 6237 2.890474 GCCTACCGGTGCACATCG 60.890 66.667 19.93 13.80 34.09 3.84
5758 6248 3.688235 ACGGAGAGAGTATATGCCTACC 58.312 50.000 0.00 0.00 0.00 3.18
5781 6271 5.587043 AGTTCAACCACGACACTTATTTTGA 59.413 36.000 0.00 0.00 0.00 2.69
5798 6288 2.356695 AGTGCCGTGGTTTTAGTTCAAC 59.643 45.455 0.00 0.00 0.00 3.18
5815 6305 1.743394 CCTCGGTCCCAAAATAAGTGC 59.257 52.381 0.00 0.00 0.00 4.40
5827 6317 2.381911 TGTATTGTACTCCCTCGGTCC 58.618 52.381 0.00 0.00 0.00 4.46
5842 6332 5.925969 GCTGCTTGTGGTTGTTTTATGTATT 59.074 36.000 0.00 0.00 0.00 1.89
5930 6424 7.918076 TGAAGATTTAGAAGGTCACCATAGTT 58.082 34.615 0.00 0.00 0.00 2.24
5966 6460 5.681105 CCTTTGTGTTGTTGTTCGTCTTATG 59.319 40.000 0.00 0.00 0.00 1.90
6072 6596 3.286694 TAGCCACCGGGTCCGTAGT 62.287 63.158 6.32 0.00 37.81 2.73
6103 6627 0.035439 CCAACGCCCTAGTCCAACAT 60.035 55.000 0.00 0.00 0.00 2.71
6160 6684 0.407139 AAGGGCTTGTCTGGCAGATT 59.593 50.000 21.84 5.93 0.00 2.40
6204 6785 3.027292 GGCACGGCAAACTCGAAA 58.973 55.556 0.00 0.00 0.00 3.46
6217 6798 1.671379 GAGGGTGGAGAAACGGCAC 60.671 63.158 0.00 0.00 0.00 5.01
6223 6804 0.472471 GTGTGGTGAGGGTGGAGAAA 59.528 55.000 0.00 0.00 0.00 2.52
6233 6814 2.549064 TGATGTTCTGGTGTGGTGAG 57.451 50.000 0.00 0.00 0.00 3.51
6330 6912 2.769621 TCCCCGCTCCATCTGCAT 60.770 61.111 0.00 0.00 0.00 3.96
6342 6924 3.324207 GCTAAATAAGCCCTCCCCG 57.676 57.895 0.00 0.00 46.25 5.73
6361 6943 0.106521 ATGTTTTTGGTGGTGGCAGC 59.893 50.000 10.30 10.30 0.00 5.25
6403 6985 1.687297 GGAGGTGGAATCCCGTCTCC 61.687 65.000 13.91 13.91 42.66 3.71
6410 6992 2.597903 GGCAGGGAGGTGGAATCC 59.402 66.667 0.00 0.00 35.99 3.01
6473 7055 0.396811 GTATGCAACCCTATCGCCCT 59.603 55.000 0.00 0.00 0.00 5.19
6516 7098 2.095252 GCTGGTTTCGGCTCGAGTC 61.095 63.158 15.13 11.34 41.88 3.36
6524 7106 0.518636 CATGTCACTGCTGGTTTCGG 59.481 55.000 0.00 0.00 0.00 4.30
6541 7123 0.383949 GTTTGCACCACCGTGTTCAT 59.616 50.000 0.00 0.00 42.39 2.57
6547 7129 1.525995 CCTCTGTTTGCACCACCGT 60.526 57.895 0.00 0.00 0.00 4.83
6554 7136 1.685803 CCCATATGGCCTCTGTTTGCA 60.686 52.381 16.97 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.