Multiple sequence alignment - TraesCS1D01G126800

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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 TraesCS1D01G126800 chr1D 100.000 4544 0 0 1 4544 138344121 138348664 0.000000e+00 8392.0
1 TraesCS1D01G126800 chr1D 92.222 90 7 0 3084 3173 277362519 277362608 1.330000e-25 128.0
2 TraesCS1D01G126800 chr1A 93.374 4392 183 53 2 4335 154573694 154578035 0.000000e+00 6399.0
3 TraesCS1D01G126800 chr1A 93.333 90 6 0 3084 3173 350017095 350017184 2.850000e-27 134.0
4 TraesCS1D01G126800 chr1A 91.549 71 6 0 3192 3262 241997710 241997780 1.040000e-16 99.0
5 TraesCS1D01G126800 chr1B 95.185 2326 101 10 2014 4335 212750046 212747728 0.000000e+00 3664.0
6 TraesCS1D01G126800 chr1B 94.970 1153 35 13 799 1944 212751348 212750212 0.000000e+00 1786.0
7 TraesCS1D01G126800 chr1B 90.726 496 30 7 1 492 212797182 212796699 0.000000e+00 647.0
8 TraesCS1D01G126800 chr1B 95.556 45 1 1 486 530 605474184 605474141 2.270000e-08 71.3
9 TraesCS1D01G126800 chr4B 97.674 86 2 0 3087 3172 41531501 41531416 1.020000e-31 148.0
10 TraesCS1D01G126800 chr4B 97.727 44 1 0 490 533 508977282 508977325 4.870000e-10 76.8
11 TraesCS1D01G126800 chr7D 94.444 90 5 0 3084 3173 59711291 59711380 6.130000e-29 139.0
12 TraesCS1D01G126800 chr6D 94.382 89 5 0 3085 3173 88776583 88776495 2.200000e-28 137.0
13 TraesCS1D01G126800 chr6D 81.197 117 9 8 437 544 52814153 52814265 1.050000e-11 82.4
14 TraesCS1D01G126800 chr6D 80.702 114 12 6 437 544 267206187 267206078 3.770000e-11 80.5
15 TraesCS1D01G126800 chr6D 100.000 40 0 0 2726 2765 108490606 108490567 1.750000e-09 75.0
16 TraesCS1D01G126800 chr6D 100.000 40 0 0 2726 2765 113824774 113824735 1.750000e-09 75.0
17 TraesCS1D01G126800 chr6D 100.000 40 0 0 2726 2765 389247553 389247592 1.750000e-09 75.0
18 TraesCS1D01G126800 chr6D 100.000 40 0 0 2726 2765 389252306 389252345 1.750000e-09 75.0
19 TraesCS1D01G126800 chr6D 96.875 32 1 0 3225 3256 445729873 445729904 2.000000e-03 54.7
20 TraesCS1D01G126800 chr2B 95.294 85 4 0 3087 3171 139072831 139072915 7.930000e-28 135.0
21 TraesCS1D01G126800 chr2B 85.938 64 8 1 3193 3256 376498409 376498471 2.930000e-07 67.6
22 TraesCS1D01G126800 chr4A 93.182 88 6 0 3087 3174 27643610 27643523 3.690000e-26 130.0
23 TraesCS1D01G126800 chr4A 79.167 144 24 5 427 565 363081281 363081139 1.350000e-15 95.3
24 TraesCS1D01G126800 chrUn 79.856 139 17 6 428 558 74825613 74825478 1.740000e-14 91.6
25 TraesCS1D01G126800 chrUn 100.000 40 0 0 2726 2765 352979300 352979339 1.750000e-09 75.0
26 TraesCS1D01G126800 chrUn 100.000 40 0 0 2726 2765 354078560 354078599 1.750000e-09 75.0
27 TraesCS1D01G126800 chrUn 100.000 40 0 0 2726 2765 433294286 433294247 1.750000e-09 75.0
28 TraesCS1D01G126800 chr2A 88.732 71 8 0 3192 3262 593496706 593496776 2.250000e-13 87.9
29 TraesCS1D01G126800 chr2D 87.324 71 9 0 3192 3262 449516386 449516316 1.050000e-11 82.4
30 TraesCS1D01G126800 chr5B 92.157 51 3 1 3213 3262 392152343 392152293 2.270000e-08 71.3
31 TraesCS1D01G126800 chr7A 97.143 35 1 0 3228 3262 206928940 206928906 4.910000e-05 60.2


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 TraesCS1D01G126800 chr1D 138344121 138348664 4543 False 8392 8392 100.0000 1 4544 1 chr1D.!!$F1 4543
1 TraesCS1D01G126800 chr1A 154573694 154578035 4341 False 6399 6399 93.3740 2 4335 1 chr1A.!!$F1 4333
2 TraesCS1D01G126800 chr1B 212747728 212751348 3620 True 2725 3664 95.0775 799 4335 2 chr1B.!!$R3 3536

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
708 718 0.038343 TTGCATTTGGCTTTCTCGGC 60.038 50.0 0.00 0.0 45.15 5.54 F
923 938 0.613777 ACCGGAACCCTCTTGCTAAG 59.386 55.0 9.46 0.0 0.00 2.18 F
1861 1889 1.298953 ACCTGTACCATGCATTCCCT 58.701 50.0 0.00 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1976 2004 1.340017 TGTTAGTACTACTCCCGCGGT 60.340 52.381 26.12 8.42 0.00 5.68 R
2218 2344 1.625818 TCCTCCTCTTCCACAAGCTTC 59.374 52.381 0.00 0.00 0.00 3.86 R
3832 3970 1.067915 GCGGTGCATGTAACCAAACAT 60.068 47.619 16.82 0.00 40.75 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
146 149 4.546829 ACGAGTTCATGCCTAAACCTTA 57.453 40.909 0.00 0.00 0.00 2.69
147 150 5.099042 ACGAGTTCATGCCTAAACCTTAT 57.901 39.130 0.00 0.00 0.00 1.73
160 163 7.610305 TGCCTAAACCTTATAGTTTTGAGAAGG 59.390 37.037 0.00 0.00 40.38 3.46
166 169 6.603599 ACCTTATAGTTTTGAGAAGGGCATTC 59.396 38.462 3.21 3.21 40.88 2.67
191 194 3.252215 CGTACATTGAGCAAAGTTTGGGA 59.748 43.478 17.11 0.00 0.00 4.37
196 199 3.297134 TGAGCAAAGTTTGGGAGTTCT 57.703 42.857 17.11 4.46 0.00 3.01
208 211 2.175931 TGGGAGTTCTTGCCCTTTAACA 59.824 45.455 0.00 0.00 44.96 2.41
209 212 3.181423 TGGGAGTTCTTGCCCTTTAACAT 60.181 43.478 0.00 0.00 44.96 2.71
210 213 3.444034 GGGAGTTCTTGCCCTTTAACATC 59.556 47.826 0.00 0.00 41.31 3.06
211 214 3.127030 GGAGTTCTTGCCCTTTAACATCG 59.873 47.826 0.00 0.00 0.00 3.84
212 215 3.751518 AGTTCTTGCCCTTTAACATCGT 58.248 40.909 0.00 0.00 0.00 3.73
213 216 4.142038 AGTTCTTGCCCTTTAACATCGTT 58.858 39.130 0.00 0.00 0.00 3.85
214 217 4.023193 AGTTCTTGCCCTTTAACATCGTTG 60.023 41.667 0.00 0.00 0.00 4.10
215 218 2.227865 TCTTGCCCTTTAACATCGTTGC 59.772 45.455 0.00 0.00 0.00 4.17
218 221 2.625790 TGCCCTTTAACATCGTTGCTTT 59.374 40.909 0.00 0.00 0.00 3.51
220 223 3.305064 GCCCTTTAACATCGTTGCTTTGA 60.305 43.478 0.00 0.00 0.00 2.69
275 278 3.275143 CATGATGGCATGCAATGGTTTT 58.725 40.909 21.36 0.00 46.86 2.43
300 303 7.397221 TGCTGCTAGGCTAATACATTATCATT 58.603 34.615 0.00 0.00 0.00 2.57
435 438 1.535462 CCACTCCATCGGTTCACAAAC 59.465 52.381 0.00 0.00 34.46 2.93
517 522 8.906636 TCACTTATTTCAGTTCGTATGTAGTC 57.093 34.615 0.00 0.00 0.00 2.59
556 561 7.040062 TCCGAAGCATCTTAAAATTTTGAAGGA 60.040 33.333 13.76 1.03 0.00 3.36
558 563 9.143631 CGAAGCATCTTAAAATTTTGAAGGAAT 57.856 29.630 13.76 2.46 0.00 3.01
575 580 9.787435 TTGAAGGAATGAAGTAGTTAGCTAAAA 57.213 29.630 7.99 0.00 0.00 1.52
661 671 5.967088 CAGTTGGGTAGTTACAAAACGTTTC 59.033 40.000 15.01 0.94 40.73 2.78
662 672 5.066375 AGTTGGGTAGTTACAAAACGTTTCC 59.934 40.000 15.01 8.23 40.73 3.13
667 677 4.160642 AGTTACAAAACGTTTCCCTCCT 57.839 40.909 15.01 5.41 40.73 3.69
677 687 2.835389 GTTTCCCTCCTTACTCCTCCT 58.165 52.381 0.00 0.00 0.00 3.69
689 699 2.896039 ACTCCTCCTACAAGCAACTCT 58.104 47.619 0.00 0.00 0.00 3.24
708 718 0.038343 TTGCATTTGGCTTTCTCGGC 60.038 50.000 0.00 0.00 45.15 5.54
729 739 3.774528 CTCCTGCCGGCAGCTGTA 61.775 66.667 44.44 28.62 44.23 2.74
730 740 4.082523 TCCTGCCGGCAGCTGTAC 62.083 66.667 44.44 7.78 44.23 2.90
740 750 3.219052 GGCAGCTGTACCGATCTATAC 57.781 52.381 16.64 0.00 0.00 1.47
742 752 3.256136 GGCAGCTGTACCGATCTATACTT 59.744 47.826 16.64 0.00 0.00 2.24
743 753 4.262079 GGCAGCTGTACCGATCTATACTTT 60.262 45.833 16.64 0.00 0.00 2.66
744 754 5.048224 GGCAGCTGTACCGATCTATACTTTA 60.048 44.000 16.64 0.00 0.00 1.85
923 938 0.613777 ACCGGAACCCTCTTGCTAAG 59.386 55.000 9.46 0.00 0.00 2.18
998 1013 3.243907 ACAGAGTTGAGGAAGAAACGAGG 60.244 47.826 0.00 0.00 0.00 4.63
1835 1863 4.487714 TTTCAGATCCGGCAGATAAAGT 57.512 40.909 0.00 0.00 34.42 2.66
1861 1889 1.298953 ACCTGTACCATGCATTCCCT 58.701 50.000 0.00 0.00 0.00 4.20
1928 1956 2.744741 TCAGTTTGACTTGTTGTTGCGA 59.255 40.909 0.00 0.00 0.00 5.10
1958 1986 9.543018 GCATTTTATATAGTGATCTAAAACGCC 57.457 33.333 0.00 0.00 31.68 5.68
1967 1995 6.875076 AGTGATCTAAAACGCCTTATACAGT 58.125 36.000 0.00 0.00 0.00 3.55
1979 2007 7.141363 ACGCCTTATACAGTATTAGTTTACCG 58.859 38.462 0.00 0.35 0.00 4.02
1980 2008 6.088616 CGCCTTATACAGTATTAGTTTACCGC 59.911 42.308 0.00 0.00 0.00 5.68
1981 2009 6.088616 GCCTTATACAGTATTAGTTTACCGCG 59.911 42.308 0.00 0.00 0.00 6.46
1982 2010 6.583806 CCTTATACAGTATTAGTTTACCGCGG 59.416 42.308 26.86 26.86 0.00 6.46
1984 2012 2.760092 ACAGTATTAGTTTACCGCGGGA 59.240 45.455 31.76 21.43 0.00 5.14
1985 2013 3.181483 ACAGTATTAGTTTACCGCGGGAG 60.181 47.826 31.76 7.30 0.00 4.30
1986 2014 3.026694 AGTATTAGTTTACCGCGGGAGT 58.973 45.455 31.76 19.25 0.00 3.85
1988 2016 3.722728 ATTAGTTTACCGCGGGAGTAG 57.277 47.619 31.76 2.56 0.00 2.57
1989 2017 2.128771 TAGTTTACCGCGGGAGTAGT 57.871 50.000 31.76 17.89 0.00 2.73
2046 2172 8.205131 ACTGTAACTGTTTAACATTCTTTCGT 57.795 30.769 0.00 0.00 0.00 3.85
2047 2173 8.671028 ACTGTAACTGTTTAACATTCTTTCGTT 58.329 29.630 0.00 0.38 0.00 3.85
2931 3057 0.758734 TTCCCGCCCATCATGACTAG 59.241 55.000 0.00 0.00 0.00 2.57
2988 3114 5.279556 GCTAGGATATTTGACAGTAGGGACC 60.280 48.000 0.00 0.00 0.00 4.46
3457 3583 2.090524 GCTTTGATTGGTGCTGCGC 61.091 57.895 0.00 0.00 0.00 6.09
3819 3957 3.469008 TTATAGCTCACATCCGGTTGG 57.531 47.619 16.70 6.13 0.00 3.77
3831 3969 2.473070 TCCGGTTGGTTGATATGGAGA 58.527 47.619 0.00 0.00 36.30 3.71
3832 3970 2.841266 TCCGGTTGGTTGATATGGAGAA 59.159 45.455 0.00 0.00 36.30 2.87
3852 3991 0.312416 TGTTTGGTTACATGCACCGC 59.688 50.000 9.56 4.25 37.07 5.68
3874 4013 1.999648 TTTGCCTCCTTGCATCTGTT 58.000 45.000 0.00 0.00 41.70 3.16
3961 4100 4.334759 GCTGCATATAGGATGGCTGTATTG 59.665 45.833 0.00 0.00 0.00 1.90
4019 4159 1.812235 TAGCTGGTTGATGCACTGTG 58.188 50.000 2.76 2.76 0.00 3.66
4081 4221 6.691754 AACAATTACACATGACACACAGAA 57.308 33.333 0.00 0.00 0.00 3.02
4099 4239 5.009110 CACAGAATTATCCTAGAGCGTCTCA 59.991 44.000 9.09 0.00 32.06 3.27
4156 4296 4.266983 GTGATGAGCACGCAGTCA 57.733 55.556 0.00 0.00 41.61 3.41
4197 4337 3.561429 GCATCGAACCAGTTGCGA 58.439 55.556 0.00 0.00 38.51 5.10
4204 4344 1.295792 GAACCAGTTGCGAGTTGTCA 58.704 50.000 0.00 0.00 0.00 3.58
4256 4397 2.112190 GTAGAGGTTGGGGAGGAGAAG 58.888 57.143 0.00 0.00 0.00 2.85
4275 4416 3.729698 GCAGTGTGCGCATGCTGA 61.730 61.111 33.38 9.47 43.34 4.26
4279 4420 4.986645 TGTGCGCATGCTGACGGT 62.987 61.111 15.91 0.00 43.34 4.83
4302 4443 4.764771 TGTACTAGGCCGCGGGGT 62.765 66.667 29.38 3.37 34.97 4.95
4335 4476 4.250305 AAAGACGCGGGTGGCAGT 62.250 61.111 10.96 0.00 43.84 4.40
4336 4477 4.988598 AAGACGCGGGTGGCAGTG 62.989 66.667 10.96 0.00 43.84 3.66
4338 4479 4.980805 GACGCGGGTGGCAGTGAA 62.981 66.667 10.96 0.00 43.84 3.18
4339 4480 4.988598 ACGCGGGTGGCAGTGAAG 62.989 66.667 12.47 0.00 43.84 3.02
4340 4481 4.988598 CGCGGGTGGCAGTGAAGT 62.989 66.667 0.00 0.00 43.84 3.01
4341 4482 3.050275 GCGGGTGGCAGTGAAGTC 61.050 66.667 0.00 0.00 42.87 3.01
4342 4483 2.743718 CGGGTGGCAGTGAAGTCT 59.256 61.111 0.00 0.00 0.00 3.24
4343 4484 1.669115 CGGGTGGCAGTGAAGTCTG 60.669 63.158 0.00 0.00 38.35 3.51
4344 4485 1.754745 GGGTGGCAGTGAAGTCTGA 59.245 57.895 0.00 0.00 37.61 3.27
4345 4486 0.603975 GGGTGGCAGTGAAGTCTGAC 60.604 60.000 0.00 0.00 43.20 3.51
4346 4487 0.946221 GGTGGCAGTGAAGTCTGACG 60.946 60.000 1.52 0.00 45.60 4.35
4347 4488 0.032130 GTGGCAGTGAAGTCTGACGA 59.968 55.000 1.52 0.00 45.60 4.20
4348 4489 0.315251 TGGCAGTGAAGTCTGACGAG 59.685 55.000 1.52 0.00 45.60 4.18
4349 4490 0.389166 GGCAGTGAAGTCTGACGAGG 60.389 60.000 1.52 0.00 37.61 4.63
4350 4491 1.011451 GCAGTGAAGTCTGACGAGGC 61.011 60.000 1.52 0.00 37.61 4.70
4351 4492 0.315251 CAGTGAAGTCTGACGAGGCA 59.685 55.000 1.52 0.00 37.61 4.75
4352 4493 0.315568 AGTGAAGTCTGACGAGGCAC 59.684 55.000 1.52 9.17 0.00 5.01
4353 4494 0.032130 GTGAAGTCTGACGAGGCACA 59.968 55.000 15.27 4.84 0.00 4.57
4354 4495 0.315251 TGAAGTCTGACGAGGCACAG 59.685 55.000 1.52 0.00 35.72 3.66
4355 4496 0.598562 GAAGTCTGACGAGGCACAGA 59.401 55.000 1.52 0.00 40.22 3.41
4356 4497 0.600557 AAGTCTGACGAGGCACAGAG 59.399 55.000 1.52 0.00 42.56 3.35
4357 4498 1.214062 GTCTGACGAGGCACAGAGG 59.786 63.158 0.00 0.00 42.56 3.69
4358 4499 1.074951 TCTGACGAGGCACAGAGGA 59.925 57.895 0.00 0.00 38.08 3.71
4359 4500 0.539669 TCTGACGAGGCACAGAGGAA 60.540 55.000 0.00 0.00 38.08 3.36
4360 4501 0.108898 CTGACGAGGCACAGAGGAAG 60.109 60.000 0.00 0.00 36.38 3.46
4361 4502 1.446966 GACGAGGCACAGAGGAAGC 60.447 63.158 0.00 0.00 0.00 3.86
4362 4503 2.507992 CGAGGCACAGAGGAAGCG 60.508 66.667 0.00 0.00 0.00 4.68
4363 4504 2.125350 GAGGCACAGAGGAAGCGG 60.125 66.667 0.00 0.00 0.00 5.52
4364 4505 2.925170 AGGCACAGAGGAAGCGGT 60.925 61.111 0.00 0.00 0.00 5.68
4365 4506 2.743928 GGCACAGAGGAAGCGGTG 60.744 66.667 0.00 0.00 37.09 4.94
4367 4508 2.031012 CACAGAGGAAGCGGTGCA 59.969 61.111 0.00 0.00 0.00 4.57
4368 4509 1.597854 CACAGAGGAAGCGGTGCAA 60.598 57.895 0.00 0.00 0.00 4.08
4369 4510 0.957395 CACAGAGGAAGCGGTGCAAT 60.957 55.000 0.00 0.00 0.00 3.56
4370 4511 0.957395 ACAGAGGAAGCGGTGCAATG 60.957 55.000 0.00 0.00 0.00 2.82
4371 4512 2.042831 AGAGGAAGCGGTGCAATGC 61.043 57.895 0.00 0.00 0.00 3.56
4372 4513 3.386867 GAGGAAGCGGTGCAATGCG 62.387 63.158 0.00 0.00 35.87 4.73
4373 4514 3.430862 GGAAGCGGTGCAATGCGA 61.431 61.111 0.00 0.00 35.87 5.10
4374 4515 2.202349 GAAGCGGTGCAATGCGAC 60.202 61.111 0.00 0.00 35.87 5.19
4375 4516 3.982424 GAAGCGGTGCAATGCGACG 62.982 63.158 15.22 15.22 35.87 5.12
4378 4519 3.711842 CGGTGCAATGCGACGTGT 61.712 61.111 12.11 0.00 0.00 4.49
4379 4520 2.637025 GGTGCAATGCGACGTGTT 59.363 55.556 0.00 0.00 0.00 3.32
4380 4521 1.725625 GGTGCAATGCGACGTGTTG 60.726 57.895 0.00 9.15 0.00 3.33
4381 4522 1.725625 GTGCAATGCGACGTGTTGG 60.726 57.895 0.00 0.00 0.00 3.77
4382 4523 2.126888 GCAATGCGACGTGTTGGG 60.127 61.111 13.54 0.00 0.00 4.12
4383 4524 2.903547 GCAATGCGACGTGTTGGGT 61.904 57.895 13.54 0.00 0.00 4.51
4384 4525 1.082169 CAATGCGACGTGTTGGGTG 60.082 57.895 0.00 0.00 0.00 4.61
4385 4526 2.258013 AATGCGACGTGTTGGGTGG 61.258 57.895 0.00 0.00 0.00 4.61
4386 4527 2.951475 AATGCGACGTGTTGGGTGGT 62.951 55.000 0.00 0.00 0.00 4.16
4387 4528 3.645975 GCGACGTGTTGGGTGGTG 61.646 66.667 0.00 0.00 0.00 4.17
4388 4529 2.202960 CGACGTGTTGGGTGGTGT 60.203 61.111 0.00 0.00 0.00 4.16
4389 4530 1.816259 CGACGTGTTGGGTGGTGTT 60.816 57.895 0.00 0.00 0.00 3.32
4390 4531 1.768112 CGACGTGTTGGGTGGTGTTC 61.768 60.000 0.00 0.00 0.00 3.18
4391 4532 1.768112 GACGTGTTGGGTGGTGTTCG 61.768 60.000 0.00 0.00 0.00 3.95
4392 4533 1.816259 CGTGTTGGGTGGTGTTCGT 60.816 57.895 0.00 0.00 0.00 3.85
4393 4534 1.725066 GTGTTGGGTGGTGTTCGTG 59.275 57.895 0.00 0.00 0.00 4.35
4394 4535 0.745128 GTGTTGGGTGGTGTTCGTGA 60.745 55.000 0.00 0.00 0.00 4.35
4395 4536 0.035343 TGTTGGGTGGTGTTCGTGAA 60.035 50.000 0.00 0.00 0.00 3.18
4396 4537 0.661020 GTTGGGTGGTGTTCGTGAAG 59.339 55.000 0.00 0.00 0.00 3.02
4397 4538 0.253610 TTGGGTGGTGTTCGTGAAGT 59.746 50.000 0.00 0.00 0.00 3.01
4398 4539 0.179067 TGGGTGGTGTTCGTGAAGTC 60.179 55.000 0.00 0.00 0.00 3.01
4399 4540 0.106149 GGGTGGTGTTCGTGAAGTCT 59.894 55.000 0.00 0.00 0.00 3.24
4400 4541 1.217882 GGTGGTGTTCGTGAAGTCTG 58.782 55.000 0.00 0.00 0.00 3.51
4401 4542 1.202486 GGTGGTGTTCGTGAAGTCTGA 60.202 52.381 0.00 0.00 0.00 3.27
4402 4543 1.859080 GTGGTGTTCGTGAAGTCTGAC 59.141 52.381 0.00 0.00 0.00 3.51
4403 4544 1.129326 GGTGTTCGTGAAGTCTGACG 58.871 55.000 1.52 0.00 36.91 4.35
4404 4545 1.268896 GGTGTTCGTGAAGTCTGACGA 60.269 52.381 1.52 3.77 42.61 4.20
4405 4546 2.044860 GTGTTCGTGAAGTCTGACGAG 58.955 52.381 1.52 0.00 44.79 4.18
4406 4547 1.001706 TGTTCGTGAAGTCTGACGAGG 60.002 52.381 1.52 0.00 44.79 4.63
4407 4548 0.039437 TTCGTGAAGTCTGACGAGGC 60.039 55.000 1.52 0.00 44.79 4.70
4408 4549 1.797933 CGTGAAGTCTGACGAGGCG 60.798 63.158 1.52 3.19 37.81 5.52
4409 4550 2.089349 GTGAAGTCTGACGAGGCGC 61.089 63.158 0.00 0.00 0.00 6.53
4410 4551 2.507324 GAAGTCTGACGAGGCGCC 60.507 66.667 21.89 21.89 0.00 6.53
4411 4552 4.421479 AAGTCTGACGAGGCGCCG 62.421 66.667 23.20 13.22 0.00 6.46
4436 4577 2.365105 TCCTCACGGACCCCATCC 60.365 66.667 0.00 0.00 45.20 3.51
4437 4578 2.365635 CCTCACGGACCCCATCCT 60.366 66.667 0.00 0.00 46.69 3.24
4438 4579 2.435693 CCTCACGGACCCCATCCTC 61.436 68.421 0.00 0.00 46.69 3.71
4439 4580 2.758327 TCACGGACCCCATCCTCG 60.758 66.667 0.00 0.00 46.69 4.63
4440 4581 3.075005 CACGGACCCCATCCTCGT 61.075 66.667 0.00 0.00 46.69 4.18
4441 4582 3.075005 ACGGACCCCATCCTCGTG 61.075 66.667 0.00 0.00 46.69 4.35
4442 4583 3.849951 CGGACCCCATCCTCGTGG 61.850 72.222 0.00 0.00 46.69 4.94
4443 4584 2.365105 GGACCCCATCCTCGTGGA 60.365 66.667 8.96 8.96 45.22 4.02
4444 4585 2.435693 GGACCCCATCCTCGTGGAG 61.436 68.421 12.42 4.46 46.91 3.86
4464 4605 4.394712 CTGGGCCCACGACCTGTC 62.395 72.222 24.45 0.00 0.00 3.51
4481 4622 3.733960 CGGTGACCGTCGCAGAGA 61.734 66.667 17.28 0.00 42.73 3.10
4482 4623 2.126424 GGTGACCGTCGCAGAGAC 60.126 66.667 13.90 0.00 46.16 3.36
4518 4659 3.885814 TCGCCTTGACAGGGAGTT 58.114 55.556 7.99 0.00 41.21 3.01
4519 4660 1.671742 TCGCCTTGACAGGGAGTTC 59.328 57.895 7.99 0.00 41.21 3.01
4520 4661 1.738099 CGCCTTGACAGGGAGTTCG 60.738 63.158 7.99 0.00 41.21 3.95
4521 4662 2.035442 GCCTTGACAGGGAGTTCGC 61.035 63.158 7.99 0.00 41.21 4.70
4522 4663 1.376037 CCTTGACAGGGAGTTCGCC 60.376 63.158 0.00 0.00 36.36 5.54
4523 4664 1.371183 CTTGACAGGGAGTTCGCCA 59.629 57.895 0.00 0.00 0.00 5.69
4524 4665 0.250295 CTTGACAGGGAGTTCGCCAA 60.250 55.000 0.00 0.00 0.00 4.52
4525 4666 0.250295 TTGACAGGGAGTTCGCCAAG 60.250 55.000 0.00 0.00 0.00 3.61
4526 4667 1.118965 TGACAGGGAGTTCGCCAAGA 61.119 55.000 0.00 0.00 0.00 3.02
4527 4668 0.250513 GACAGGGAGTTCGCCAAGAT 59.749 55.000 0.00 0.00 0.00 2.40
4528 4669 0.693049 ACAGGGAGTTCGCCAAGATT 59.307 50.000 0.00 0.00 0.00 2.40
4529 4670 1.906574 ACAGGGAGTTCGCCAAGATTA 59.093 47.619 0.00 0.00 0.00 1.75
4530 4671 2.304761 ACAGGGAGTTCGCCAAGATTAA 59.695 45.455 0.00 0.00 0.00 1.40
4531 4672 2.939103 CAGGGAGTTCGCCAAGATTAAG 59.061 50.000 0.00 0.00 0.00 1.85
4532 4673 2.092914 AGGGAGTTCGCCAAGATTAAGG 60.093 50.000 0.00 0.00 0.00 2.69
4533 4674 2.093128 GGGAGTTCGCCAAGATTAAGGA 60.093 50.000 0.00 0.00 0.00 3.36
4534 4675 3.198872 GGAGTTCGCCAAGATTAAGGAG 58.801 50.000 0.00 0.00 0.00 3.69
4535 4676 3.198872 GAGTTCGCCAAGATTAAGGAGG 58.801 50.000 0.00 0.00 0.00 4.30
4536 4677 2.838202 AGTTCGCCAAGATTAAGGAGGA 59.162 45.455 0.00 0.00 0.00 3.71
4537 4678 3.118592 AGTTCGCCAAGATTAAGGAGGAG 60.119 47.826 0.00 0.00 0.00 3.69
4538 4679 2.467880 TCGCCAAGATTAAGGAGGAGT 58.532 47.619 0.00 0.00 0.00 3.85
4539 4680 2.168521 TCGCCAAGATTAAGGAGGAGTG 59.831 50.000 0.00 0.00 0.00 3.51
4540 4681 2.743183 CGCCAAGATTAAGGAGGAGTGG 60.743 54.545 0.00 0.00 0.00 4.00
4541 4682 2.239907 GCCAAGATTAAGGAGGAGTGGT 59.760 50.000 0.00 0.00 0.00 4.16
4542 4683 3.682999 GCCAAGATTAAGGAGGAGTGGTC 60.683 52.174 0.00 0.00 0.00 4.02
4543 4684 3.430929 CCAAGATTAAGGAGGAGTGGTCG 60.431 52.174 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 169 3.542712 AACTTTGCTCAATGTACGCAG 57.457 42.857 2.25 0.00 34.82 5.18
169 172 3.252215 TCCCAAACTTTGCTCAATGTACG 59.748 43.478 0.00 0.00 0.00 3.67
191 194 3.751518 ACGATGTTAAAGGGCAAGAACT 58.248 40.909 0.00 0.00 0.00 3.01
196 199 2.235016 AGCAACGATGTTAAAGGGCAA 58.765 42.857 0.00 0.00 0.00 4.52
208 211 9.294030 GAAATTGAGATAATTCAAAGCAACGAT 57.706 29.630 0.00 0.00 40.21 3.73
209 212 8.296000 TGAAATTGAGATAATTCAAAGCAACGA 58.704 29.630 0.00 0.00 40.21 3.85
210 213 8.451687 TGAAATTGAGATAATTCAAAGCAACG 57.548 30.769 0.00 0.00 40.21 4.10
212 215 9.985730 ACTTGAAATTGAGATAATTCAAAGCAA 57.014 25.926 0.00 0.00 40.21 3.91
213 216 9.985730 AACTTGAAATTGAGATAATTCAAAGCA 57.014 25.926 0.00 0.00 40.21 3.91
270 273 3.945285 TGTATTAGCCTAGCAGCAAAACC 59.055 43.478 0.00 0.00 34.23 3.27
275 278 6.358974 TGATAATGTATTAGCCTAGCAGCA 57.641 37.500 0.00 0.00 34.23 4.41
310 313 9.388506 ACCAAAATTGAAAATAAACATGTCACA 57.611 25.926 0.00 0.00 0.00 3.58
417 420 2.631160 TGTTTGTGAACCGATGGAGT 57.369 45.000 0.00 0.00 34.80 3.85
486 489 9.103048 CATACGAACTGAAATAAGTGAACAAAC 57.897 33.333 0.00 0.00 0.00 2.93
493 498 7.758076 TGGACTACATACGAACTGAAATAAGTG 59.242 37.037 0.00 0.00 0.00 3.16
638 648 5.066375 GGAAACGTTTTGTAACTACCCAACT 59.934 40.000 15.89 0.00 31.89 3.16
649 659 5.294734 AGTAAGGAGGGAAACGTTTTGTA 57.705 39.130 15.89 0.00 0.00 2.41
661 671 3.301274 CTTGTAGGAGGAGTAAGGAGGG 58.699 54.545 0.00 0.00 0.00 4.30
662 672 2.696187 GCTTGTAGGAGGAGTAAGGAGG 59.304 54.545 0.00 0.00 0.00 4.30
667 677 4.417437 AGAGTTGCTTGTAGGAGGAGTAA 58.583 43.478 0.00 0.00 0.00 2.24
689 699 0.038343 GCCGAGAAAGCCAAATGCAA 60.038 50.000 0.00 0.00 44.83 4.08
726 736 9.783081 TGACAGTATAAAGTATAGATCGGTACA 57.217 33.333 11.47 0.00 0.00 2.90
729 739 9.516546 TCATGACAGTATAAAGTATAGATCGGT 57.483 33.333 0.00 0.00 0.00 4.69
738 748 9.599866 CCTCAAACATCATGACAGTATAAAGTA 57.400 33.333 0.00 0.00 0.00 2.24
739 749 8.321353 TCCTCAAACATCATGACAGTATAAAGT 58.679 33.333 0.00 0.00 0.00 2.66
740 750 8.722480 TCCTCAAACATCATGACAGTATAAAG 57.278 34.615 0.00 0.00 0.00 1.85
743 753 9.987272 CTATTCCTCAAACATCATGACAGTATA 57.013 33.333 0.00 0.00 0.00 1.47
744 754 8.708378 TCTATTCCTCAAACATCATGACAGTAT 58.292 33.333 0.00 0.00 0.00 2.12
794 804 8.458843 CGTGGAAACATTCTGTCCTATTTTATT 58.541 33.333 0.00 0.00 46.14 1.40
795 805 7.827236 TCGTGGAAACATTCTGTCCTATTTTAT 59.173 33.333 0.00 0.00 46.14 1.40
796 806 7.162761 TCGTGGAAACATTCTGTCCTATTTTA 58.837 34.615 0.00 0.00 46.14 1.52
797 807 6.001460 TCGTGGAAACATTCTGTCCTATTTT 58.999 36.000 0.00 0.00 46.14 1.82
1784 1812 8.816640 AAGCAAAGGTAACAAATATCAACAAG 57.183 30.769 0.00 0.00 41.41 3.16
1793 1821 6.541641 TGAAATGCAAAGCAAAGGTAACAAAT 59.458 30.769 0.00 0.00 43.62 2.32
1861 1889 6.295249 TGATGTCACAAACTGATACCAAGAA 58.705 36.000 0.00 0.00 0.00 2.52
1941 1969 8.639761 ACTGTATAAGGCGTTTTAGATCACTAT 58.360 33.333 0.00 0.00 0.00 2.12
1942 1970 8.004087 ACTGTATAAGGCGTTTTAGATCACTA 57.996 34.615 0.00 0.00 0.00 2.74
1943 1971 6.875076 ACTGTATAAGGCGTTTTAGATCACT 58.125 36.000 0.00 0.00 0.00 3.41
1944 1972 8.813643 ATACTGTATAAGGCGTTTTAGATCAC 57.186 34.615 0.00 0.00 0.00 3.06
1955 1983 6.088616 GCGGTAAACTAATACTGTATAAGGCG 59.911 42.308 0.00 0.00 35.11 5.52
1956 1984 6.088616 CGCGGTAAACTAATACTGTATAAGGC 59.911 42.308 0.00 0.00 35.11 4.35
1957 1985 6.583806 CCGCGGTAAACTAATACTGTATAAGG 59.416 42.308 19.50 0.00 35.11 2.69
1958 1986 6.583806 CCCGCGGTAAACTAATACTGTATAAG 59.416 42.308 26.12 0.00 35.11 1.73
1961 1989 4.584325 TCCCGCGGTAAACTAATACTGTAT 59.416 41.667 26.12 0.00 35.11 2.29
1962 1990 3.951037 TCCCGCGGTAAACTAATACTGTA 59.049 43.478 26.12 0.00 35.11 2.74
1963 1991 2.760092 TCCCGCGGTAAACTAATACTGT 59.240 45.455 26.12 0.00 35.11 3.55
1964 1992 3.181483 ACTCCCGCGGTAAACTAATACTG 60.181 47.826 26.12 3.34 35.64 2.74
1965 1993 3.026694 ACTCCCGCGGTAAACTAATACT 58.973 45.455 26.12 0.00 0.00 2.12
1966 1994 3.443099 ACTCCCGCGGTAAACTAATAC 57.557 47.619 26.12 0.00 0.00 1.89
1967 1995 4.207165 ACTACTCCCGCGGTAAACTAATA 58.793 43.478 26.12 3.83 0.00 0.98
1971 1999 1.745653 GTACTACTCCCGCGGTAAACT 59.254 52.381 26.12 3.97 0.00 2.66
1972 2000 1.745653 AGTACTACTCCCGCGGTAAAC 59.254 52.381 26.12 11.70 0.00 2.01
1973 2001 2.128771 AGTACTACTCCCGCGGTAAA 57.871 50.000 26.12 8.25 0.00 2.01
1974 2002 2.943033 GTTAGTACTACTCCCGCGGTAA 59.057 50.000 26.12 11.11 0.00 2.85
1976 2004 1.340017 TGTTAGTACTACTCCCGCGGT 60.340 52.381 26.12 8.42 0.00 5.68
1979 2007 4.446994 AGTTTGTTAGTACTACTCCCGC 57.553 45.455 0.91 0.00 0.00 6.13
1980 2008 7.542025 ACAATAGTTTGTTAGTACTACTCCCG 58.458 38.462 0.91 0.00 43.57 5.14
1981 2009 9.794685 GTACAATAGTTTGTTAGTACTACTCCC 57.205 37.037 0.91 0.00 43.57 4.30
2028 2154 6.804534 TTGCAACGAAAGAATGTTAAACAG 57.195 33.333 0.00 0.00 0.00 3.16
2047 2173 9.791820 CTGAATGAGTGAAAATTATACATTGCA 57.208 29.630 0.00 0.00 0.00 4.08
2218 2344 1.625818 TCCTCCTCTTCCACAAGCTTC 59.374 52.381 0.00 0.00 0.00 3.86
2988 3114 8.593492 TGAACTTATAATCGATCATTCCTGTG 57.407 34.615 0.00 0.00 0.00 3.66
3217 3343 1.203038 TCATGGTCACAGGGCAACAAT 60.203 47.619 0.00 0.00 39.74 2.71
3316 3442 4.526650 TCAAGAGTGTCTGCTTGGTATACA 59.473 41.667 5.01 0.00 41.31 2.29
3457 3583 7.227512 GGGGATTCTGTTGATCACAAATACTAG 59.772 40.741 0.00 0.00 37.77 2.57
3549 3675 1.139654 TGTTAGCATGGCAGCTCTAGG 59.860 52.381 13.45 0.00 45.26 3.02
3557 3683 4.202212 ACGATATAGTGTGTTAGCATGGCA 60.202 41.667 0.00 0.00 0.00 4.92
3819 3957 8.050778 TGTAACCAAACATTCTCCATATCAAC 57.949 34.615 0.00 0.00 0.00 3.18
3831 3969 2.609244 GCGGTGCATGTAACCAAACATT 60.609 45.455 16.82 0.00 38.01 2.71
3832 3970 1.067915 GCGGTGCATGTAACCAAACAT 60.068 47.619 16.82 0.00 40.75 2.71
3874 4013 2.771943 CTCAGCCAGACCTAAATGGGTA 59.228 50.000 0.00 0.00 45.26 3.69
4019 4159 0.312416 TGTATGCAACCAAACACCGC 59.688 50.000 0.00 0.00 0.00 5.68
4081 4221 2.486203 CGCTGAGACGCTCTAGGATAAT 59.514 50.000 8.07 0.00 0.00 1.28
4182 4322 1.148310 CAACTCGCAACTGGTTCGAT 58.852 50.000 0.00 0.00 0.00 3.59
4197 4337 1.071471 CTTCCCTGCGGTGACAACT 59.929 57.895 0.00 0.00 0.00 3.16
4256 4397 4.034258 AGCATGCGCACACTGCAC 62.034 61.111 29.92 7.88 46.57 4.57
4269 4410 2.561419 AGTACACTAACACCGTCAGCAT 59.439 45.455 0.00 0.00 0.00 3.79
4272 4413 3.427233 GCCTAGTACACTAACACCGTCAG 60.427 52.174 0.00 0.00 0.00 3.51
4275 4416 1.821136 GGCCTAGTACACTAACACCGT 59.179 52.381 0.00 0.00 0.00 4.83
4279 4420 0.452987 CGCGGCCTAGTACACTAACA 59.547 55.000 0.00 0.00 0.00 2.41
4302 4443 0.972983 CTTTCCTCTCGGCCTCCTCA 60.973 60.000 0.00 0.00 0.00 3.86
4326 4467 0.603975 GTCAGACTTCACTGCCACCC 60.604 60.000 0.00 0.00 37.75 4.61
4335 4476 0.315251 CTGTGCCTCGTCAGACTTCA 59.685 55.000 0.00 0.00 34.02 3.02
4336 4477 0.598562 TCTGTGCCTCGTCAGACTTC 59.401 55.000 0.00 0.00 36.04 3.01
4337 4478 0.600557 CTCTGTGCCTCGTCAGACTT 59.399 55.000 0.00 0.00 36.04 3.01
4338 4479 1.247419 CCTCTGTGCCTCGTCAGACT 61.247 60.000 0.00 0.00 36.04 3.24
4339 4480 1.214062 CCTCTGTGCCTCGTCAGAC 59.786 63.158 0.00 0.00 36.04 3.51
4340 4481 0.539669 TTCCTCTGTGCCTCGTCAGA 60.540 55.000 0.00 0.00 38.20 3.27
4341 4482 0.108898 CTTCCTCTGTGCCTCGTCAG 60.109 60.000 0.00 0.00 0.00 3.51
4342 4483 1.967535 CTTCCTCTGTGCCTCGTCA 59.032 57.895 0.00 0.00 0.00 4.35
4343 4484 1.446966 GCTTCCTCTGTGCCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
4344 4485 2.659610 GCTTCCTCTGTGCCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
4345 4486 2.507992 CGCTTCCTCTGTGCCTCG 60.508 66.667 0.00 0.00 0.00 4.63
4346 4487 2.125350 CCGCTTCCTCTGTGCCTC 60.125 66.667 0.00 0.00 0.00 4.70
4347 4488 2.925170 ACCGCTTCCTCTGTGCCT 60.925 61.111 0.00 0.00 0.00 4.75
4348 4489 2.743928 CACCGCTTCCTCTGTGCC 60.744 66.667 0.00 0.00 0.00 5.01
4349 4490 3.426568 GCACCGCTTCCTCTGTGC 61.427 66.667 0.00 0.00 46.09 4.57
4350 4491 0.957395 ATTGCACCGCTTCCTCTGTG 60.957 55.000 0.00 0.00 0.00 3.66
4351 4492 0.957395 CATTGCACCGCTTCCTCTGT 60.957 55.000 0.00 0.00 0.00 3.41
4352 4493 1.798735 CATTGCACCGCTTCCTCTG 59.201 57.895 0.00 0.00 0.00 3.35
4353 4494 2.042831 GCATTGCACCGCTTCCTCT 61.043 57.895 3.15 0.00 0.00 3.69
4354 4495 2.486966 GCATTGCACCGCTTCCTC 59.513 61.111 3.15 0.00 0.00 3.71
4355 4496 3.434319 CGCATTGCACCGCTTCCT 61.434 61.111 9.69 0.00 0.00 3.36
4356 4497 3.430862 TCGCATTGCACCGCTTCC 61.431 61.111 9.69 0.00 0.00 3.46
4357 4498 2.202349 GTCGCATTGCACCGCTTC 60.202 61.111 9.69 0.00 0.00 3.86
4358 4499 4.088762 CGTCGCATTGCACCGCTT 62.089 61.111 9.69 0.00 0.00 4.68
4361 4502 3.235292 AACACGTCGCATTGCACCG 62.235 57.895 9.69 11.88 0.00 4.94
4362 4503 1.725625 CAACACGTCGCATTGCACC 60.726 57.895 9.69 0.00 0.00 5.01
4363 4504 1.725625 CCAACACGTCGCATTGCAC 60.726 57.895 9.69 5.43 0.00 4.57
4364 4505 2.636462 CCAACACGTCGCATTGCA 59.364 55.556 9.69 0.00 0.00 4.08
4365 4506 2.126888 CCCAACACGTCGCATTGC 60.127 61.111 0.00 0.00 0.00 3.56
4366 4507 1.082169 CACCCAACACGTCGCATTG 60.082 57.895 0.00 0.00 0.00 2.82
4367 4508 2.258013 CCACCCAACACGTCGCATT 61.258 57.895 0.00 0.00 0.00 3.56
4368 4509 2.668212 CCACCCAACACGTCGCAT 60.668 61.111 0.00 0.00 0.00 4.73
4369 4510 4.164087 ACCACCCAACACGTCGCA 62.164 61.111 0.00 0.00 0.00 5.10
4370 4511 3.645975 CACCACCCAACACGTCGC 61.646 66.667 0.00 0.00 0.00 5.19
4371 4512 1.768112 GAACACCACCCAACACGTCG 61.768 60.000 0.00 0.00 0.00 5.12
4372 4513 1.768112 CGAACACCACCCAACACGTC 61.768 60.000 0.00 0.00 0.00 4.34
4373 4514 1.816259 CGAACACCACCCAACACGT 60.816 57.895 0.00 0.00 0.00 4.49
4374 4515 1.816259 ACGAACACCACCCAACACG 60.816 57.895 0.00 0.00 0.00 4.49
4375 4516 0.745128 TCACGAACACCACCCAACAC 60.745 55.000 0.00 0.00 0.00 3.32
4376 4517 0.035343 TTCACGAACACCACCCAACA 60.035 50.000 0.00 0.00 0.00 3.33
4377 4518 0.661020 CTTCACGAACACCACCCAAC 59.339 55.000 0.00 0.00 0.00 3.77
4378 4519 0.253610 ACTTCACGAACACCACCCAA 59.746 50.000 0.00 0.00 0.00 4.12
4379 4520 0.179067 GACTTCACGAACACCACCCA 60.179 55.000 0.00 0.00 0.00 4.51
4380 4521 0.106149 AGACTTCACGAACACCACCC 59.894 55.000 0.00 0.00 0.00 4.61
4381 4522 1.202486 TCAGACTTCACGAACACCACC 60.202 52.381 0.00 0.00 0.00 4.61
4382 4523 1.859080 GTCAGACTTCACGAACACCAC 59.141 52.381 0.00 0.00 0.00 4.16
4383 4524 1.535226 CGTCAGACTTCACGAACACCA 60.535 52.381 0.00 0.00 38.32 4.17
4384 4525 1.129326 CGTCAGACTTCACGAACACC 58.871 55.000 0.00 0.00 38.32 4.16
4385 4526 2.044860 CTCGTCAGACTTCACGAACAC 58.955 52.381 7.61 0.00 44.08 3.32
4386 4527 1.001706 CCTCGTCAGACTTCACGAACA 60.002 52.381 7.61 0.00 44.08 3.18
4387 4528 1.687628 CCTCGTCAGACTTCACGAAC 58.312 55.000 7.61 0.00 44.08 3.95
4388 4529 0.039437 GCCTCGTCAGACTTCACGAA 60.039 55.000 7.61 0.00 44.08 3.85
4389 4530 1.579932 GCCTCGTCAGACTTCACGA 59.420 57.895 0.00 6.31 42.61 4.35
4390 4531 1.797933 CGCCTCGTCAGACTTCACG 60.798 63.158 0.00 0.00 37.36 4.35
4391 4532 2.089349 GCGCCTCGTCAGACTTCAC 61.089 63.158 0.00 0.00 0.00 3.18
4392 4533 2.258591 GCGCCTCGTCAGACTTCA 59.741 61.111 0.00 0.00 0.00 3.02
4393 4534 2.507324 GGCGCCTCGTCAGACTTC 60.507 66.667 22.15 0.00 0.00 3.01
4394 4535 4.421479 CGGCGCCTCGTCAGACTT 62.421 66.667 26.68 0.00 0.00 3.01
4426 4567 2.435693 CTCCACGAGGATGGGGTCC 61.436 68.421 0.78 0.00 44.70 4.46
4427 4568 3.221222 CTCCACGAGGATGGGGTC 58.779 66.667 0.78 0.00 44.70 4.46
4447 4588 4.394712 GACAGGTCGTGGGCCCAG 62.395 72.222 29.55 19.78 0.00 4.45
4465 4606 2.126424 GTCTCTGCGACGGTCACC 60.126 66.667 9.10 0.00 32.04 4.02
4500 4641 0.670854 GAACTCCCTGTCAAGGCGAC 60.671 60.000 0.00 0.00 42.96 5.19
4501 4642 1.671742 GAACTCCCTGTCAAGGCGA 59.328 57.895 0.00 0.00 42.96 5.54
4502 4643 1.738099 CGAACTCCCTGTCAAGGCG 60.738 63.158 0.00 0.00 42.96 5.52
4503 4644 2.035442 GCGAACTCCCTGTCAAGGC 61.035 63.158 0.00 0.00 42.96 4.35
4504 4645 1.376037 GGCGAACTCCCTGTCAAGG 60.376 63.158 0.00 0.00 44.06 3.61
4505 4646 0.250295 TTGGCGAACTCCCTGTCAAG 60.250 55.000 0.00 0.00 0.00 3.02
4506 4647 0.250295 CTTGGCGAACTCCCTGTCAA 60.250 55.000 0.00 0.00 0.00 3.18
4507 4648 1.118965 TCTTGGCGAACTCCCTGTCA 61.119 55.000 0.00 0.00 0.00 3.58
4508 4649 0.250513 ATCTTGGCGAACTCCCTGTC 59.749 55.000 0.00 0.00 0.00 3.51
4509 4650 0.693049 AATCTTGGCGAACTCCCTGT 59.307 50.000 0.00 0.00 0.00 4.00
4510 4651 2.691409 TAATCTTGGCGAACTCCCTG 57.309 50.000 0.00 0.00 0.00 4.45
4511 4652 2.092914 CCTTAATCTTGGCGAACTCCCT 60.093 50.000 0.00 0.00 0.00 4.20
4512 4653 2.093128 TCCTTAATCTTGGCGAACTCCC 60.093 50.000 0.00 0.00 0.00 4.30
4513 4654 3.198872 CTCCTTAATCTTGGCGAACTCC 58.801 50.000 0.00 0.00 0.00 3.85
4514 4655 3.118738 TCCTCCTTAATCTTGGCGAACTC 60.119 47.826 0.00 0.00 0.00 3.01
4515 4656 2.838202 TCCTCCTTAATCTTGGCGAACT 59.162 45.455 0.00 0.00 0.00 3.01
4516 4657 3.198872 CTCCTCCTTAATCTTGGCGAAC 58.801 50.000 0.00 0.00 0.00 3.95
4517 4658 2.838202 ACTCCTCCTTAATCTTGGCGAA 59.162 45.455 0.00 0.00 0.00 4.70
4518 4659 2.168521 CACTCCTCCTTAATCTTGGCGA 59.831 50.000 0.00 0.00 0.00 5.54
4519 4660 2.555199 CACTCCTCCTTAATCTTGGCG 58.445 52.381 0.00 0.00 0.00 5.69
4520 4661 2.239907 ACCACTCCTCCTTAATCTTGGC 59.760 50.000 0.00 0.00 0.00 4.52
4521 4662 3.430929 CGACCACTCCTCCTTAATCTTGG 60.431 52.174 0.00 0.00 0.00 3.61
4522 4663 3.786635 CGACCACTCCTCCTTAATCTTG 58.213 50.000 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.