Multiple sequence alignment - TraesCS4A01G071800

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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 TraesCS4A01G071800 chr4A 100.000 4820 0 0 1 4820 69321199 69316380 0.000000e+00 8901.0
1 TraesCS4A01G071800 chr4B 93.179 3636 157 36 691 4279 476361838 476358247 0.000000e+00 5256.0
2 TraesCS4A01G071800 chr4B 89.320 721 26 15 1 680 476362602 476361892 0.000000e+00 857.0
3 TraesCS4A01G071800 chr4B 83.088 408 33 13 4428 4820 476358120 476357734 5.980000e-89 339.0
4 TraesCS4A01G071800 chr4B 94.872 117 4 2 4275 4389 561643295 561643411 1.070000e-41 182.0
5 TraesCS4A01G071800 chr4D 94.131 1806 52 13 2501 4279 388122810 388121032 0.000000e+00 2699.0
6 TraesCS4A01G071800 chr4D 90.293 1844 100 34 688 2502 388124690 388122897 0.000000e+00 2340.0
7 TraesCS4A01G071800 chr4D 91.126 586 18 8 1 558 388125500 388124921 0.000000e+00 763.0
8 TraesCS4A01G071800 chr4D 91.333 450 32 6 4373 4820 388121033 388120589 4.120000e-170 608.0
9 TraesCS4A01G071800 chr4D 98.039 102 2 0 588 689 388124846 388124745 1.380000e-40 178.0
10 TraesCS4A01G071800 chr3D 98.113 106 2 0 4277 4382 23081174 23081279 8.240000e-43 185.0
11 TraesCS4A01G071800 chr3D 94.000 50 3 0 264 313 47677867 47677818 5.170000e-10 76.8
12 TraesCS4A01G071800 chr3D 94.000 50 2 1 264 313 66312002 66311954 1.860000e-09 75.0
13 TraesCS4A01G071800 chr5B 95.690 116 1 3 4277 4390 455737504 455737617 2.960000e-42 183.0
14 TraesCS4A01G071800 chr2A 96.429 112 3 1 4267 4378 92494532 92494422 2.960000e-42 183.0
15 TraesCS4A01G071800 chr7B 94.737 114 6 0 4262 4375 421056983 421056870 1.380000e-40 178.0
16 TraesCS4A01G071800 chr7B 92.623 122 8 1 4275 4396 489140335 489140215 1.780000e-39 174.0
17 TraesCS4A01G071800 chr3B 90.977 133 9 3 4253 4383 766128302 766128171 4.960000e-40 176.0
18 TraesCS4A01G071800 chr2B 94.017 117 6 1 4259 4375 397939356 397939471 4.960000e-40 176.0
19 TraesCS4A01G071800 chr1B 93.966 116 7 0 4267 4382 496885802 496885917 4.960000e-40 176.0
20 TraesCS4A01G071800 chr1B 95.833 48 2 0 1066 1113 369190571 369190618 1.440000e-10 78.7
21 TraesCS4A01G071800 chr3A 96.000 50 2 0 264 313 59953360 59953311 1.110000e-11 82.4
22 TraesCS4A01G071800 chr2D 95.833 48 2 0 266 313 20772824 20772871 1.440000e-10 78.7
23 TraesCS4A01G071800 chr1D 94.118 51 3 0 1066 1116 237334634 237334584 1.440000e-10 78.7
24 TraesCS4A01G071800 chr1D 95.652 46 2 0 268 313 85644515 85644470 1.860000e-09 75.0
25 TraesCS4A01G071800 chr1A 95.833 48 2 0 1066 1113 308202948 308202995 1.440000e-10 78.7
26 TraesCS4A01G071800 chr6D 92.157 51 4 0 264 314 78352724 78352774 6.690000e-09 73.1
27 TraesCS4A01G071800 chr5D 89.655 58 4 2 264 320 288588474 288588418 6.690000e-09 73.1


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 TraesCS4A01G071800 chr4A 69316380 69321199 4819 True 8901.000000 8901 100.0000 1 4820 1 chr4A.!!$R1 4819
1 TraesCS4A01G071800 chr4B 476357734 476362602 4868 True 2150.666667 5256 88.5290 1 4820 3 chr4B.!!$R1 4819
2 TraesCS4A01G071800 chr4D 388120589 388125500 4911 True 1317.600000 2699 92.9844 1 4820 5 chr4D.!!$R1 4819

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
101 102 0.323178 ATGCTTGGTGCTGAAGGGAG 60.323 55.0 0.00 0.0 43.37 4.30 F
898 1050 0.528684 GCCTGAGATTCCTTCCGTCG 60.529 60.0 0.00 0.0 0.00 5.12 F
1508 1688 0.541764 AAATCCTTTCCTTGGGCGCA 60.542 50.0 10.83 0.0 0.00 6.09 F
1849 2031 0.377203 CATTCGCCGCCCTTAGAAAC 59.623 55.0 0.00 0.0 0.00 2.78 F
1851 2033 0.952010 TTCGCCGCCCTTAGAAACAC 60.952 55.0 0.00 0.0 0.00 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1820 2002 0.380378 GCGGCGAATGCAATAAGGAA 59.620 50.000 12.98 0.0 45.35 3.36 R
1824 2006 1.034838 AAGGGCGGCGAATGCAATAA 61.035 50.000 12.98 0.0 45.35 1.40 R
3481 3761 2.131854 TCTTTGAGTGGGGGAGTTGAA 58.868 47.619 0.00 0.0 0.00 2.69 R
3780 4060 1.063174 CGGCTTGTTCTATTGCTGCTC 59.937 52.381 0.00 0.0 0.00 4.26 R
3925 4226 1.138247 GCTGCAAAGGAAGGCATCG 59.862 57.895 0.00 0.0 39.65 3.84 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
36 37 3.068590 CCCACAATGATATGGCCAGAAAC 59.931 47.826 13.05 6.27 34.37 2.78
46 47 1.228154 GCCAGAAACAACCCCTCGT 60.228 57.895 0.00 0.00 0.00 4.18
89 90 4.202182 CCCAAACTCCATTGATATGCTTGG 60.202 45.833 0.00 0.00 31.90 3.61
101 102 0.323178 ATGCTTGGTGCTGAAGGGAG 60.323 55.000 0.00 0.00 43.37 4.30
163 167 7.499232 GGTAAAAGTACAACCATGCTGATCTAT 59.501 37.037 0.00 0.00 33.28 1.98
341 360 5.050091 AGAGCAACATGTAAAACGTCAGAAG 60.050 40.000 0.00 0.00 0.00 2.85
443 465 1.373570 CTTCCATTTCCTCGGTCAGC 58.626 55.000 0.00 0.00 0.00 4.26
485 507 4.293626 GCCGTGCGTGTGTGTGAC 62.294 66.667 0.00 0.00 0.00 3.67
546 580 2.567985 TCCCGTGTCAAAGGAAAGAAC 58.432 47.619 0.00 0.00 0.00 3.01
558 592 2.838202 AGGAAAGAACAATCCCGAGCTA 59.162 45.455 0.00 0.00 36.31 3.32
559 593 3.118592 AGGAAAGAACAATCCCGAGCTAG 60.119 47.826 0.00 0.00 36.31 3.42
560 594 3.118738 GGAAAGAACAATCCCGAGCTAGA 60.119 47.826 0.00 0.00 0.00 2.43
561 595 4.443598 GGAAAGAACAATCCCGAGCTAGAT 60.444 45.833 0.00 0.00 0.00 1.98
562 596 4.329462 AAGAACAATCCCGAGCTAGATC 57.671 45.455 0.00 0.00 0.00 2.75
563 597 3.300388 AGAACAATCCCGAGCTAGATCA 58.700 45.455 8.99 0.00 0.00 2.92
564 598 3.900601 AGAACAATCCCGAGCTAGATCAT 59.099 43.478 8.99 0.00 0.00 2.45
565 599 3.674528 ACAATCCCGAGCTAGATCATG 57.325 47.619 8.99 0.00 0.00 3.07
566 600 2.289320 ACAATCCCGAGCTAGATCATGC 60.289 50.000 8.99 0.00 0.00 4.06
567 601 0.529833 ATCCCGAGCTAGATCATGCG 59.470 55.000 8.99 0.00 0.00 4.73
568 602 1.735920 CCCGAGCTAGATCATGCGC 60.736 63.158 8.99 0.00 0.00 6.09
575 609 0.602106 CTAGATCATGCGCCCCAGTG 60.602 60.000 4.18 0.00 0.00 3.66
784 934 2.170985 CGCCAAACGCAACTCTCG 59.829 61.111 0.00 0.00 37.30 4.04
785 935 2.594962 CGCCAAACGCAACTCTCGT 61.595 57.895 0.00 0.00 42.54 4.18
850 1002 1.547372 CCCCTGAAAACTGGAATGCTG 59.453 52.381 0.00 0.00 0.00 4.41
898 1050 0.528684 GCCTGAGATTCCTTCCGTCG 60.529 60.000 0.00 0.00 0.00 5.12
962 1114 1.944024 CTCTCGTGATCTAGCCTCGTT 59.056 52.381 0.00 0.00 0.00 3.85
1152 1313 1.606601 TCCCGTCTGTGACTCCCTG 60.607 63.158 0.00 0.00 0.00 4.45
1167 1328 1.679898 CCTGGAACCTCTGGTGGTC 59.320 63.158 0.00 0.00 39.83 4.02
1185 1346 3.324035 GGCGAATGGCGTGAGATC 58.676 61.111 0.00 0.00 44.92 2.75
1213 1374 6.817184 AGAACGTAGAATAGGCATGTGTTAT 58.183 36.000 0.00 0.00 0.00 1.89
1244 1415 3.314635 GTGAATTGCCTATTGAGAGCCTG 59.685 47.826 0.00 0.00 0.00 4.85
1329 1507 1.141053 AGGAGTGTTGTGAGTTGGGTC 59.859 52.381 0.00 0.00 0.00 4.46
1384 1563 0.625316 TGGATGTGGGTGATTGGGAG 59.375 55.000 0.00 0.00 0.00 4.30
1388 1567 2.204291 TGGGTGATTGGGAGGCCT 60.204 61.111 3.86 3.86 0.00 5.19
1426 1605 0.958876 CGTCCCTTTGCCCTTGTACC 60.959 60.000 0.00 0.00 0.00 3.34
1503 1683 9.948964 ATCAATTTTAGAAAATCCTTTCCTTGG 57.051 29.630 0.86 0.00 41.72 3.61
1508 1688 0.541764 AAATCCTTTCCTTGGGCGCA 60.542 50.000 10.83 0.00 0.00 6.09
1560 1740 3.119849 GCAACCTTCGTTTCACATATGCT 60.120 43.478 1.58 0.00 0.00 3.79
1674 1856 9.674068 GTGGTATAGAAGGATTTTCTCTCTTTT 57.326 33.333 0.00 0.00 0.00 2.27
1777 1959 5.243507 TGAAGCAATGCCAAGTAAAATCTGA 59.756 36.000 0.00 0.00 0.00 3.27
1784 1966 5.253330 TGCCAAGTAAAATCTGAACTAGGG 58.747 41.667 0.00 0.00 0.00 3.53
1838 2020 1.670811 AGTTCCTTATTGCATTCGCCG 59.329 47.619 0.00 0.00 37.32 6.46
1839 2021 0.380378 TTCCTTATTGCATTCGCCGC 59.620 50.000 0.00 0.00 37.32 6.53
1849 2031 0.377203 CATTCGCCGCCCTTAGAAAC 59.623 55.000 0.00 0.00 0.00 2.78
1851 2033 0.952010 TTCGCCGCCCTTAGAAACAC 60.952 55.000 0.00 0.00 0.00 3.32
1935 2119 7.095355 CCATACAAGTTACTCTGTTACACCAAC 60.095 40.741 5.75 0.00 37.67 3.77
2024 2209 6.036517 GCTGTTGTACTCTTCTGAATATGGTG 59.963 42.308 0.00 0.00 0.00 4.17
2025 2210 6.406370 TGTTGTACTCTTCTGAATATGGTGG 58.594 40.000 0.00 0.00 0.00 4.61
2026 2211 6.013725 TGTTGTACTCTTCTGAATATGGTGGT 60.014 38.462 0.00 0.00 0.00 4.16
2037 2222 5.630121 TGAATATGGTGGTTCTTCAGTTGT 58.370 37.500 0.00 0.00 0.00 3.32
2047 2232 9.758651 GGTGGTTCTTCAGTTGTATTAAATTTT 57.241 29.630 0.00 0.00 0.00 1.82
2075 2260 5.489792 TGCTCTTATTTCTCTCAGGTGTT 57.510 39.130 0.00 0.00 0.00 3.32
2111 2296 4.033009 TGGTGCATCTCATCTTAGAAGGA 58.967 43.478 0.00 0.00 0.00 3.36
2174 2359 3.010138 TGGGCATTAAAGTAGGTGCTCTT 59.990 43.478 0.00 0.00 38.83 2.85
2207 2392 1.067635 CCCAGCTTGTACCATTTGCAC 60.068 52.381 0.00 0.00 0.00 4.57
2433 2618 1.254026 ACCAGCGTGTTACTGCTCTA 58.746 50.000 0.08 0.00 40.03 2.43
2435 2620 3.021695 ACCAGCGTGTTACTGCTCTATA 58.978 45.455 0.08 0.00 40.03 1.31
2442 2627 5.174035 GCGTGTTACTGCTCTATACATCTTG 59.826 44.000 0.00 0.00 0.00 3.02
2520 2793 9.549078 TCTATTTTGTTATTTGACCCAAAAACC 57.451 29.630 0.00 0.00 39.42 3.27
2619 2892 4.150897 TGTTGTTCTTGCTCCACTTAGT 57.849 40.909 0.00 0.00 0.00 2.24
2620 2893 4.523083 TGTTGTTCTTGCTCCACTTAGTT 58.477 39.130 0.00 0.00 0.00 2.24
2621 2894 4.574828 TGTTGTTCTTGCTCCACTTAGTTC 59.425 41.667 0.00 0.00 0.00 3.01
2622 2895 4.415881 TGTTCTTGCTCCACTTAGTTCA 57.584 40.909 0.00 0.00 0.00 3.18
2623 2896 4.380531 TGTTCTTGCTCCACTTAGTTCAG 58.619 43.478 0.00 0.00 0.00 3.02
2624 2897 3.045601 TCTTGCTCCACTTAGTTCAGC 57.954 47.619 5.58 5.58 0.00 4.26
2625 2898 2.368548 TCTTGCTCCACTTAGTTCAGCA 59.631 45.455 10.09 10.09 38.32 4.41
2626 2899 2.462456 TGCTCCACTTAGTTCAGCAG 57.538 50.000 10.09 0.00 35.17 4.24
2627 2900 1.082690 GCTCCACTTAGTTCAGCAGC 58.917 55.000 7.28 0.00 0.00 5.25
2660 2933 5.667466 TGAAACCTCTTAGAAACACTCGTT 58.333 37.500 0.00 0.00 36.73 3.85
3013 3290 1.063806 CTCGCAGTGAAGAACTTCCG 58.936 55.000 11.30 7.96 36.83 4.30
3105 3382 7.201714 GCTCATCTCTTGCTCTACATTCAATTT 60.202 37.037 0.00 0.00 0.00 1.82
3107 3384 9.102757 TCATCTCTTGCTCTACATTCAATTTAC 57.897 33.333 0.00 0.00 0.00 2.01
3386 3664 1.840635 GCCAAGTCCCTGGTCTCTTAT 59.159 52.381 0.00 0.00 38.86 1.73
3420 3698 2.826488 AGCATCCTTCCTGTAGTGACT 58.174 47.619 0.00 0.00 0.00 3.41
3433 3711 4.176271 TGTAGTGACTCGCAAAGATGATG 58.824 43.478 0.00 0.00 0.00 3.07
3506 3786 2.716424 ACTCCCCCACTCAAAGAAATCA 59.284 45.455 0.00 0.00 0.00 2.57
3511 3791 3.304659 CCCCACTCAAAGAAATCACAACG 60.305 47.826 0.00 0.00 0.00 4.10
3531 3811 6.310224 ACAACGCATACAAATAAATGGAAAGC 59.690 34.615 0.00 0.00 0.00 3.51
3550 3830 7.724061 TGGAAAGCAAAGTATAAAGGAGAACTT 59.276 33.333 0.00 0.00 42.52 2.66
3925 4226 3.144506 CAGCTGGTATCATGAACCATCC 58.855 50.000 22.10 17.48 45.74 3.51
4024 4325 3.374367 GGCGACTCCTGTATTCTTTTTCC 59.626 47.826 0.00 0.00 0.00 3.13
4041 4342 6.659242 TCTTTTTCCTCCATACCTGTTCATTC 59.341 38.462 0.00 0.00 0.00 2.67
4096 4397 1.548719 GTAACTGGAAAATGGCACCCC 59.451 52.381 0.00 0.00 0.00 4.95
4213 4517 4.337264 AAATTAGGAATTGGAGTGGCCT 57.663 40.909 3.32 0.00 37.63 5.19
4216 4520 1.075601 AGGAATTGGAGTGGCCTGAA 58.924 50.000 3.32 0.00 37.63 3.02
4221 4525 2.452600 TTGGAGTGGCCTGAAACTTT 57.547 45.000 3.32 0.00 37.63 2.66
4229 4533 2.743636 GCCTGAAACTTTTTAGGGCC 57.256 50.000 12.96 0.00 42.42 5.80
4250 4554 4.327087 GCCGATGCAAGATTTTAAAAGGTG 59.673 41.667 6.79 5.54 37.47 4.00
4288 4592 9.765295 AACATAGTAATAATATACTCCCTCCGT 57.235 33.333 0.00 0.00 37.34 4.69
4289 4593 9.406113 ACATAGTAATAATATACTCCCTCCGTC 57.594 37.037 0.00 0.00 37.34 4.79
4290 4594 9.629878 CATAGTAATAATATACTCCCTCCGTCT 57.370 37.037 0.00 0.00 37.34 4.18
4291 4595 9.850198 ATAGTAATAATATACTCCCTCCGTCTC 57.150 37.037 0.00 0.00 37.34 3.36
4292 4596 7.696981 AGTAATAATATACTCCCTCCGTCTCA 58.303 38.462 0.00 0.00 30.26 3.27
4293 4597 8.168725 AGTAATAATATACTCCCTCCGTCTCAA 58.831 37.037 0.00 0.00 30.26 3.02
4294 4598 7.850935 AATAATATACTCCCTCCGTCTCAAA 57.149 36.000 0.00 0.00 0.00 2.69
4295 4599 7.850935 ATAATATACTCCCTCCGTCTCAAAA 57.149 36.000 0.00 0.00 0.00 2.44
4296 4600 6.749036 AATATACTCCCTCCGTCTCAAAAT 57.251 37.500 0.00 0.00 0.00 1.82
4297 4601 7.850935 AATATACTCCCTCCGTCTCAAAATA 57.149 36.000 0.00 0.00 0.00 1.40
4298 4602 7.850935 ATATACTCCCTCCGTCTCAAAATAA 57.149 36.000 0.00 0.00 0.00 1.40
4299 4603 4.473477 ACTCCCTCCGTCTCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
4300 4604 3.838903 ACTCCCTCCGTCTCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
4301 4605 4.184629 CTCCCTCCGTCTCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
4302 4606 3.581332 TCCCTCCGTCTCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
4303 4607 3.933332 CCCTCCGTCTCAAAATAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
4304 4608 4.322801 CCCTCCGTCTCAAAATAAGTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
4305 4609 5.238583 CCTCCGTCTCAAAATAAGTGTCTT 58.761 41.667 0.00 0.00 0.00 3.01
4306 4610 5.120830 CCTCCGTCTCAAAATAAGTGTCTTG 59.879 44.000 0.00 0.00 0.00 3.02
4307 4611 5.849510 TCCGTCTCAAAATAAGTGTCTTGA 58.150 37.500 0.00 0.00 0.00 3.02
4308 4612 5.926542 TCCGTCTCAAAATAAGTGTCTTGAG 59.073 40.000 4.63 4.63 43.97 3.02
4309 4613 5.389935 CCGTCTCAAAATAAGTGTCTTGAGC 60.390 44.000 5.91 1.95 42.87 4.26
4310 4614 5.406780 CGTCTCAAAATAAGTGTCTTGAGCT 59.593 40.000 5.91 0.00 42.87 4.09
4311 4615 6.073548 CGTCTCAAAATAAGTGTCTTGAGCTT 60.074 38.462 5.91 0.00 42.87 3.74
4312 4616 7.116376 CGTCTCAAAATAAGTGTCTTGAGCTTA 59.884 37.037 5.91 0.00 42.87 3.09
4313 4617 8.439286 GTCTCAAAATAAGTGTCTTGAGCTTAG 58.561 37.037 5.91 0.00 42.87 2.18
4314 4618 8.150945 TCTCAAAATAAGTGTCTTGAGCTTAGT 58.849 33.333 5.91 0.00 42.87 2.24
4315 4619 8.087982 TCAAAATAAGTGTCTTGAGCTTAGTG 57.912 34.615 0.00 0.00 0.00 2.74
4316 4620 6.487689 AAATAAGTGTCTTGAGCTTAGTGC 57.512 37.500 0.00 0.00 43.29 4.40
4317 4621 3.475566 AAGTGTCTTGAGCTTAGTGCA 57.524 42.857 0.00 0.00 45.94 4.57
4318 4622 3.475566 AGTGTCTTGAGCTTAGTGCAA 57.524 42.857 0.00 0.00 45.94 4.08
4319 4623 3.808728 AGTGTCTTGAGCTTAGTGCAAA 58.191 40.909 0.00 0.00 45.94 3.68
4320 4624 4.392940 AGTGTCTTGAGCTTAGTGCAAAT 58.607 39.130 0.00 0.00 45.94 2.32
4321 4625 4.823989 AGTGTCTTGAGCTTAGTGCAAATT 59.176 37.500 0.00 0.00 45.94 1.82
4322 4626 5.300286 AGTGTCTTGAGCTTAGTGCAAATTT 59.700 36.000 0.00 0.00 45.94 1.82
4323 4627 5.400485 GTGTCTTGAGCTTAGTGCAAATTTG 59.600 40.000 14.03 14.03 45.94 2.32
4324 4628 5.067674 TGTCTTGAGCTTAGTGCAAATTTGT 59.932 36.000 19.03 2.68 45.94 2.83
4325 4629 6.262049 TGTCTTGAGCTTAGTGCAAATTTGTA 59.738 34.615 19.03 12.46 45.94 2.41
4326 4630 6.578919 GTCTTGAGCTTAGTGCAAATTTGTAC 59.421 38.462 26.26 26.26 45.94 2.90
4349 4653 7.148355 ACTAGAGCTAGTACAAAGTTGAGAC 57.852 40.000 8.35 0.00 43.98 3.36
4350 4654 6.715718 ACTAGAGCTAGTACAAAGTTGAGACA 59.284 38.462 8.35 0.00 43.98 3.41
4351 4655 5.774630 AGAGCTAGTACAAAGTTGAGACAC 58.225 41.667 0.00 0.00 0.00 3.67
4352 4656 5.536916 AGAGCTAGTACAAAGTTGAGACACT 59.463 40.000 0.00 0.00 0.00 3.55
4353 4657 6.041069 AGAGCTAGTACAAAGTTGAGACACTT 59.959 38.462 0.00 0.00 38.74 3.16
4354 4658 7.230913 AGAGCTAGTACAAAGTTGAGACACTTA 59.769 37.037 0.00 0.00 35.87 2.24
4355 4659 7.897864 AGCTAGTACAAAGTTGAGACACTTAT 58.102 34.615 0.00 0.00 35.87 1.73
4356 4660 8.368668 AGCTAGTACAAAGTTGAGACACTTATT 58.631 33.333 0.00 0.00 35.87 1.40
4357 4661 8.989980 GCTAGTACAAAGTTGAGACACTTATTT 58.010 33.333 0.00 0.00 35.87 1.40
4360 4664 8.621286 AGTACAAAGTTGAGACACTTATTTTGG 58.379 33.333 0.00 0.00 35.87 3.28
4361 4665 6.805713 ACAAAGTTGAGACACTTATTTTGGG 58.194 36.000 0.00 0.00 35.87 4.12
4362 4666 6.605594 ACAAAGTTGAGACACTTATTTTGGGA 59.394 34.615 0.00 0.00 35.87 4.37
4363 4667 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
4364 4668 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
4365 4669 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
4366 4670 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
4367 4671 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
4368 4672 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
4369 4673 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
4370 4674 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
4371 4675 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
4372 4676 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
4373 4677 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
4374 4678 1.961133 TTTTGGGACGGAGGGAGTAT 58.039 50.000 0.00 0.00 0.00 2.12
4375 4679 1.492764 TTTGGGACGGAGGGAGTATC 58.507 55.000 0.00 0.00 0.00 2.24
4376 4680 0.337082 TTGGGACGGAGGGAGTATCA 59.663 55.000 0.00 0.00 36.25 2.15
4377 4681 0.561184 TGGGACGGAGGGAGTATCAT 59.439 55.000 0.00 0.00 36.25 2.45
4378 4682 1.062428 TGGGACGGAGGGAGTATCATT 60.062 52.381 0.00 0.00 36.25 2.57
4379 4683 2.047830 GGGACGGAGGGAGTATCATTT 58.952 52.381 0.00 0.00 36.25 2.32
4380 4684 3.236896 GGGACGGAGGGAGTATCATTTA 58.763 50.000 0.00 0.00 36.25 1.40
4441 4820 9.042008 TGCACCTTATAATACTCGATTTTTCTC 57.958 33.333 0.00 0.00 0.00 2.87
4442 4821 8.215132 GCACCTTATAATACTCGATTTTTCTCG 58.785 37.037 0.00 0.00 39.99 4.04
4443 4822 9.459640 CACCTTATAATACTCGATTTTTCTCGA 57.540 33.333 0.00 0.00 44.85 4.04
4483 4862 3.093814 TGTTGATTGCCTGATTGCATCT 58.906 40.909 0.00 0.00 41.70 2.90
4663 5049 4.806640 AATGCCCCTAAACACAAGAATG 57.193 40.909 0.00 0.00 0.00 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 4.308458 TCGTGGCACGAGGGGTTG 62.308 66.667 36.29 8.60 46.73 3.77
89 90 2.037251 TCACAGTTACTCCCTTCAGCAC 59.963 50.000 0.00 0.00 0.00 4.40
101 102 8.031864 TCTCATCTTCATCTTCTTCACAGTTAC 58.968 37.037 0.00 0.00 0.00 2.50
341 360 1.275573 GACCCAACCACTCAGAGGTAC 59.724 57.143 1.53 0.00 38.76 3.34
513 547 3.192230 CGGGATTTGCTGCGCGTA 61.192 61.111 8.43 0.71 35.99 4.42
546 580 2.344950 GCATGATCTAGCTCGGGATTG 58.655 52.381 0.00 0.00 0.00 2.67
558 592 2.191375 CACTGGGGCGCATGATCT 59.809 61.111 10.83 0.00 0.00 2.75
559 593 2.124570 ACACTGGGGCGCATGATC 60.125 61.111 10.83 0.00 0.00 2.92
560 594 2.124570 GACACTGGGGCGCATGAT 60.125 61.111 10.83 0.00 0.00 2.45
561 595 3.610619 CTGACACTGGGGCGCATGA 62.611 63.158 10.83 0.00 0.00 3.07
562 596 2.881539 ATCTGACACTGGGGCGCATG 62.882 60.000 10.83 8.40 0.00 4.06
563 597 2.599645 GATCTGACACTGGGGCGCAT 62.600 60.000 10.83 0.00 0.00 4.73
564 598 3.315142 GATCTGACACTGGGGCGCA 62.315 63.158 10.83 3.57 0.00 6.09
565 599 2.512515 GATCTGACACTGGGGCGC 60.513 66.667 0.00 0.00 0.00 6.53
566 600 1.153489 CTGATCTGACACTGGGGCG 60.153 63.158 0.00 0.00 0.00 6.13
567 601 0.835941 ATCTGATCTGACACTGGGGC 59.164 55.000 4.21 0.00 0.00 5.80
568 602 1.474677 GCATCTGATCTGACACTGGGG 60.475 57.143 4.21 0.00 0.00 4.96
575 609 3.575256 AGATCTCCTGCATCTGATCTGAC 59.425 47.826 18.46 0.00 42.52 3.51
630 720 1.450312 GGATCCTCTTGGCCGTGTG 60.450 63.158 3.84 0.00 0.00 3.82
728 874 5.011533 TGCTCTGCTCTTCTCTTTTCTTACT 59.988 40.000 0.00 0.00 0.00 2.24
730 876 5.474578 TGCTCTGCTCTTCTCTTTTCTTA 57.525 39.130 0.00 0.00 0.00 2.10
732 878 4.506758 GATGCTCTGCTCTTCTCTTTTCT 58.493 43.478 0.00 0.00 0.00 2.52
733 879 3.306703 CGATGCTCTGCTCTTCTCTTTTC 59.693 47.826 0.00 0.00 0.00 2.29
734 880 3.056250 TCGATGCTCTGCTCTTCTCTTTT 60.056 43.478 0.00 0.00 0.00 2.27
780 930 1.745864 GCTGACGGGAGAGACGAGA 60.746 63.158 0.00 0.00 34.93 4.04
782 932 3.125573 CGCTGACGGGAGAGACGA 61.126 66.667 0.00 0.00 34.97 4.20
783 933 3.384014 GACGCTGACGGGAGAGACG 62.384 68.421 0.00 0.00 46.04 4.18
784 934 2.259875 CTGACGCTGACGGGAGAGAC 62.260 65.000 0.00 0.00 46.04 3.36
785 935 2.033602 TGACGCTGACGGGAGAGA 59.966 61.111 0.00 0.00 46.04 3.10
1152 1313 2.663196 CCGACCACCAGAGGTTCC 59.337 66.667 0.00 0.00 43.38 3.62
1167 1328 2.586079 ATCTCACGCCATTCGCCG 60.586 61.111 0.00 0.00 43.23 6.46
1185 1346 1.679680 TGCCTATTCTACGTTCTCCCG 59.320 52.381 0.00 0.00 0.00 5.14
1213 1374 5.821995 TCAATAGGCAATTCACGATCATCAA 59.178 36.000 0.00 0.00 0.00 2.57
1244 1415 0.942884 GGAACCGGACACTGACGAAC 60.943 60.000 9.46 0.00 0.00 3.95
1346 1525 3.885297 TCCAAGCAGGAAAAGTTCAGAAG 59.115 43.478 0.00 0.00 45.65 2.85
1384 1563 0.470341 GTCTCCCACTCCATTAGGCC 59.530 60.000 0.00 0.00 33.74 5.19
1411 1590 2.224670 TGTAGTGGTACAAGGGCAAAGG 60.225 50.000 0.00 0.00 44.16 3.11
1412 1591 3.134574 TGTAGTGGTACAAGGGCAAAG 57.865 47.619 0.00 0.00 44.16 2.77
1522 1702 2.350772 GGTTGCACTTGGTGATCTTTCG 60.351 50.000 1.57 0.00 35.23 3.46
1560 1740 7.716799 AGACCCAAATATTAAGTGCATTGAA 57.283 32.000 0.00 0.00 0.00 2.69
1674 1856 6.601613 AGACACCACAATACTTGTTTCAGAAA 59.398 34.615 0.00 0.00 43.23 2.52
1777 1959 1.847798 TTCCACGCATGGCCCTAGTT 61.848 55.000 0.00 0.00 46.80 2.24
1784 1966 3.443045 CCAGGTTCCACGCATGGC 61.443 66.667 0.00 0.00 46.80 4.40
1820 2002 0.380378 GCGGCGAATGCAATAAGGAA 59.620 50.000 12.98 0.00 45.35 3.36
1824 2006 1.034838 AAGGGCGGCGAATGCAATAA 61.035 50.000 12.98 0.00 45.35 1.40
1935 2119 3.612479 GCATACAAAAGGTTCAGCCACTG 60.612 47.826 0.00 0.00 40.61 3.66
1947 2131 3.544834 CGATTCTCAGGCGCATACAAAAG 60.545 47.826 10.83 0.00 0.00 2.27
2047 2232 9.770097 CACCTGAGAGAAATAAGAGCAATATTA 57.230 33.333 0.00 0.00 0.00 0.98
2048 2233 8.270744 ACACCTGAGAGAAATAAGAGCAATATT 58.729 33.333 0.00 0.00 0.00 1.28
2049 2234 7.800092 ACACCTGAGAGAAATAAGAGCAATAT 58.200 34.615 0.00 0.00 0.00 1.28
2054 2239 4.633565 CCAACACCTGAGAGAAATAAGAGC 59.366 45.833 0.00 0.00 0.00 4.09
2056 2241 5.825593 ACCAACACCTGAGAGAAATAAGA 57.174 39.130 0.00 0.00 0.00 2.10
2057 2242 7.979444 TTTACCAACACCTGAGAGAAATAAG 57.021 36.000 0.00 0.00 0.00 1.73
2058 2243 8.383175 AGATTTACCAACACCTGAGAGAAATAA 58.617 33.333 0.00 0.00 0.00 1.40
2059 2244 7.918076 AGATTTACCAACACCTGAGAGAAATA 58.082 34.615 0.00 0.00 0.00 1.40
2060 2245 6.784031 AGATTTACCAACACCTGAGAGAAAT 58.216 36.000 0.00 0.00 0.00 2.17
2061 2246 6.187727 AGATTTACCAACACCTGAGAGAAA 57.812 37.500 0.00 0.00 0.00 2.52
2062 2247 5.825593 AGATTTACCAACACCTGAGAGAA 57.174 39.130 0.00 0.00 0.00 2.87
2075 2260 3.500448 TGCACCAGTGAAGATTTACCA 57.500 42.857 0.99 0.00 0.00 3.25
2111 2296 2.522836 CTGGTCGAGCAATAGCAGAT 57.477 50.000 19.16 0.00 45.49 2.90
2538 2811 7.339953 GCATTAGCAGCTGCAAATATAAAAAC 58.660 34.615 38.24 16.97 45.16 2.43
2626 2899 2.709213 AGAGGTTTCATCAGCTGAAGC 58.291 47.619 22.50 13.81 44.48 3.86
2627 2900 5.728471 TCTAAGAGGTTTCATCAGCTGAAG 58.272 41.667 22.50 17.35 44.48 3.02
2927 3204 6.948886 ACAATACTTCCACTTCTGACTCTAGA 59.051 38.462 0.00 0.00 0.00 2.43
2941 3218 4.631377 CGAGCAAGATCAACAATACTTCCA 59.369 41.667 0.00 0.00 0.00 3.53
3105 3382 4.643463 TGGCTGTTCCATAAAAGAACGTA 58.357 39.130 0.00 0.00 45.33 3.57
3386 3664 3.397527 AGGATGCTATCTTCCCTTGGAA 58.602 45.455 0.00 0.00 39.66 3.53
3420 3698 2.407090 CTATCGGCATCATCTTTGCGA 58.593 47.619 0.00 0.00 41.07 5.10
3433 3711 4.415735 CTTTTCCTTTGAAAGCTATCGGC 58.584 43.478 0.00 0.00 41.31 5.54
3481 3761 2.131854 TCTTTGAGTGGGGGAGTTGAA 58.868 47.619 0.00 0.00 0.00 2.69
3506 3786 6.310224 GCTTTCCATTTATTTGTATGCGTTGT 59.690 34.615 0.00 0.00 0.00 3.32
3511 3791 8.255394 ACTTTGCTTTCCATTTATTTGTATGC 57.745 30.769 0.00 0.00 0.00 3.14
3550 3830 3.964031 AGTTATGCTTGGGGTGACAAAAA 59.036 39.130 0.00 0.00 0.00 1.94
3562 3842 1.825090 TGGGCTCACAGTTATGCTTG 58.175 50.000 0.00 0.00 0.00 4.01
3780 4060 1.063174 CGGCTTGTTCTATTGCTGCTC 59.937 52.381 0.00 0.00 0.00 4.26
3925 4226 1.138247 GCTGCAAAGGAAGGCATCG 59.862 57.895 0.00 0.00 39.65 3.84
4024 4325 9.212641 CACTATATTGAATGAACAGGTATGGAG 57.787 37.037 0.00 0.00 0.00 3.86
4096 4397 5.712217 TTTGCTATGTATTTCTCGAACCG 57.288 39.130 0.00 0.00 0.00 4.44
4213 4517 2.230266 GCATCGGCCCTAAAAAGTTTCA 59.770 45.455 0.00 0.00 0.00 2.69
4216 4520 1.917872 TGCATCGGCCCTAAAAAGTT 58.082 45.000 0.00 0.00 40.13 2.66
4221 4525 2.435372 AATCTTGCATCGGCCCTAAA 57.565 45.000 0.00 0.00 40.13 1.85
4229 4533 4.864247 CCCACCTTTTAAAATCTTGCATCG 59.136 41.667 0.09 0.00 0.00 3.84
4279 4583 4.184629 CACTTATTTTGAGACGGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
4280 4584 3.581332 ACACTTATTTTGAGACGGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
4281 4585 3.933332 GACACTTATTTTGAGACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
4282 4586 4.822026 AGACACTTATTTTGAGACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
4283 4587 5.926542 TCAAGACACTTATTTTGAGACGGAG 59.073 40.000 0.00 0.00 0.00 4.63
4284 4588 5.849510 TCAAGACACTTATTTTGAGACGGA 58.150 37.500 0.00 0.00 0.00 4.69
4285 4589 5.389935 GCTCAAGACACTTATTTTGAGACGG 60.390 44.000 15.10 0.00 45.82 4.79
4286 4590 5.406780 AGCTCAAGACACTTATTTTGAGACG 59.593 40.000 15.10 0.00 45.82 4.18
4287 4591 6.793492 AGCTCAAGACACTTATTTTGAGAC 57.207 37.500 15.10 7.85 45.82 3.36
4288 4592 8.150945 ACTAAGCTCAAGACACTTATTTTGAGA 58.849 33.333 15.10 0.00 45.82 3.27
4289 4593 8.226448 CACTAAGCTCAAGACACTTATTTTGAG 58.774 37.037 8.33 8.33 45.75 3.02
4290 4594 7.307989 GCACTAAGCTCAAGACACTTATTTTGA 60.308 37.037 3.19 0.00 41.15 2.69
4291 4595 6.798959 GCACTAAGCTCAAGACACTTATTTTG 59.201 38.462 3.19 0.00 41.15 2.44
4292 4596 6.486657 TGCACTAAGCTCAAGACACTTATTTT 59.513 34.615 3.19 0.00 45.94 1.82
4293 4597 5.997746 TGCACTAAGCTCAAGACACTTATTT 59.002 36.000 3.19 0.00 45.94 1.40
4294 4598 5.551233 TGCACTAAGCTCAAGACACTTATT 58.449 37.500 3.19 0.00 45.94 1.40
4295 4599 5.152623 TGCACTAAGCTCAAGACACTTAT 57.847 39.130 3.19 0.00 45.94 1.73
4296 4600 4.600692 TGCACTAAGCTCAAGACACTTA 57.399 40.909 3.19 0.00 45.94 2.24
4297 4601 3.475566 TGCACTAAGCTCAAGACACTT 57.524 42.857 3.19 0.00 45.94 3.16
4298 4602 3.475566 TTGCACTAAGCTCAAGACACT 57.524 42.857 3.19 0.00 45.94 3.55
4299 4603 4.756084 ATTTGCACTAAGCTCAAGACAC 57.244 40.909 3.19 0.00 45.94 3.67
4300 4604 5.067674 ACAAATTTGCACTAAGCTCAAGACA 59.932 36.000 18.12 0.00 45.94 3.41
4301 4605 5.523369 ACAAATTTGCACTAAGCTCAAGAC 58.477 37.500 18.12 0.00 45.94 3.01
4302 4606 5.772825 ACAAATTTGCACTAAGCTCAAGA 57.227 34.783 18.12 0.00 45.94 3.02
4303 4607 6.672147 AGTACAAATTTGCACTAAGCTCAAG 58.328 36.000 20.24 0.00 45.94 3.02
4304 4608 6.633500 AGTACAAATTTGCACTAAGCTCAA 57.367 33.333 20.24 0.00 45.94 3.02
4305 4609 7.158697 TCTAGTACAAATTTGCACTAAGCTCA 58.841 34.615 24.64 9.88 45.94 4.26
4306 4610 7.596749 TCTAGTACAAATTTGCACTAAGCTC 57.403 36.000 24.64 0.09 45.94 4.09
4307 4611 6.092807 GCTCTAGTACAAATTTGCACTAAGCT 59.907 38.462 30.05 18.44 45.94 3.74
4308 4612 6.092807 AGCTCTAGTACAAATTTGCACTAAGC 59.907 38.462 30.12 30.12 36.79 3.09
4309 4613 7.602517 AGCTCTAGTACAAATTTGCACTAAG 57.397 36.000 24.64 22.86 36.79 2.18
4310 4614 8.311836 ACTAGCTCTAGTACAAATTTGCACTAA 58.688 33.333 24.64 16.89 43.98 2.24
4311 4615 7.837863 ACTAGCTCTAGTACAAATTTGCACTA 58.162 34.615 23.63 23.63 43.98 2.74
4312 4616 6.702329 ACTAGCTCTAGTACAAATTTGCACT 58.298 36.000 23.90 23.90 43.98 4.40
4313 4617 6.969828 ACTAGCTCTAGTACAAATTTGCAC 57.030 37.500 18.12 15.33 43.98 4.57
4324 4628 7.881751 TGTCTCAACTTTGTACTAGCTCTAGTA 59.118 37.037 11.59 11.59 43.98 1.82
4326 4630 7.024768 GTGTCTCAACTTTGTACTAGCTCTAG 58.975 42.308 0.00 2.55 39.04 2.43
4327 4631 6.715718 AGTGTCTCAACTTTGTACTAGCTCTA 59.284 38.462 0.00 0.00 0.00 2.43
4328 4632 5.536916 AGTGTCTCAACTTTGTACTAGCTCT 59.463 40.000 0.00 0.00 0.00 4.09
4329 4633 5.774630 AGTGTCTCAACTTTGTACTAGCTC 58.225 41.667 0.00 0.00 0.00 4.09
4330 4634 5.793030 AGTGTCTCAACTTTGTACTAGCT 57.207 39.130 0.00 0.00 0.00 3.32
4331 4635 8.535690 AATAAGTGTCTCAACTTTGTACTAGC 57.464 34.615 0.00 0.00 40.77 3.42
4334 4638 8.621286 CCAAAATAAGTGTCTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
4335 4639 7.860872 CCCAAAATAAGTGTCTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
4336 4640 7.776030 TCCCAAAATAAGTGTCTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
4337 4641 6.605594 TCCCAAAATAAGTGTCTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
4338 4642 6.918022 GTCCCAAAATAAGTGTCTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
4339 4643 6.238648 CGTCCCAAAATAAGTGTCTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
4340 4644 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
4341 4645 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
4342 4646 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
4343 4647 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
4344 4648 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
4345 4649 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
4346 4650 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
4347 4651 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
4348 4652 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
4349 4653 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
4350 4654 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
4351 4655 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
4352 4656 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
4353 4657 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
4354 4658 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
4355 4659 1.835531 GATACTCCCTCCGTCCCAAAA 59.164 52.381 0.00 0.00 0.00 2.44
4356 4660 1.273381 TGATACTCCCTCCGTCCCAAA 60.273 52.381 0.00 0.00 0.00 3.28
4357 4661 0.337082 TGATACTCCCTCCGTCCCAA 59.663 55.000 0.00 0.00 0.00 4.12
4358 4662 0.561184 ATGATACTCCCTCCGTCCCA 59.439 55.000 0.00 0.00 0.00 4.37
4359 4663 1.718280 AATGATACTCCCTCCGTCCC 58.282 55.000 0.00 0.00 0.00 4.46
4360 4664 5.485209 AATAAATGATACTCCCTCCGTCC 57.515 43.478 0.00 0.00 0.00 4.79
4361 4665 6.522054 TCAAATAAATGATACTCCCTCCGTC 58.478 40.000 0.00 0.00 0.00 4.79
4362 4666 6.494666 TCAAATAAATGATACTCCCTCCGT 57.505 37.500 0.00 0.00 0.00 4.69
4363 4667 7.445402 ACATTCAAATAAATGATACTCCCTCCG 59.555 37.037 3.78 0.00 38.64 4.63
4364 4668 8.697507 ACATTCAAATAAATGATACTCCCTCC 57.302 34.615 3.78 0.00 38.64 4.30
4367 4671 9.750125 GGAAACATTCAAATAAATGATACTCCC 57.250 33.333 3.78 0.00 38.64 4.30
4374 4678 9.642327 CATGTGAGGAAACATTCAAATAAATGA 57.358 29.630 3.78 0.00 38.75 2.57
4375 4679 9.426837 ACATGTGAGGAAACATTCAAATAAATG 57.573 29.630 0.00 0.00 38.75 2.32
4376 4680 9.426837 CACATGTGAGGAAACATTCAAATAAAT 57.573 29.630 21.64 0.00 38.75 1.40
4377 4681 7.871973 CCACATGTGAGGAAACATTCAAATAAA 59.128 33.333 27.46 0.00 38.75 1.40
4378 4682 7.015098 ACCACATGTGAGGAAACATTCAAATAA 59.985 33.333 27.46 0.00 38.75 1.40
4379 4683 6.493115 ACCACATGTGAGGAAACATTCAAATA 59.507 34.615 27.46 0.00 38.75 1.40
4380 4684 5.305128 ACCACATGTGAGGAAACATTCAAAT 59.695 36.000 27.46 0.00 38.75 2.32
4438 4817 7.390440 ACAAACAATGTCATATTTTCCTCGAGA 59.610 33.333 15.71 0.00 37.96 4.04
4439 4818 7.530010 ACAAACAATGTCATATTTTCCTCGAG 58.470 34.615 5.13 5.13 37.96 4.04
4441 4820 7.807433 TCAACAAACAATGTCATATTTTCCTCG 59.193 33.333 0.00 0.00 42.99 4.63
4442 4821 9.643693 ATCAACAAACAATGTCATATTTTCCTC 57.356 29.630 0.00 0.00 42.99 3.71
4445 4824 9.532697 GCAATCAACAAACAATGTCATATTTTC 57.467 29.630 0.00 0.00 42.99 2.29
4530 4910 0.320421 AGACACGCACACGCCTTTAT 60.320 50.000 0.00 0.00 45.53 1.40
4605 4985 3.304928 GGAGCACACACAGAAAATGAAGG 60.305 47.826 0.00 0.00 0.00 3.46
4606 4986 3.304928 GGGAGCACACACAGAAAATGAAG 60.305 47.826 0.00 0.00 0.00 3.02
4663 5049 1.275573 ACGGGCCTTCTCAGTTAAGAC 59.724 52.381 0.84 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.