Multiple sequence alignment - TraesCS3A01G194200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3A01G194200 chr3A 100.000 6425 0 0 1 6425 269390723 269397147 0.000000e+00 11865.0
1 TraesCS3A01G194200 chr3A 100.000 85 0 0 4143 4227 269394780 269394864 2.400000e-34 158.0
2 TraesCS3A01G194200 chr3A 100.000 85 0 0 4058 4142 269394865 269394949 2.400000e-34 158.0
3 TraesCS3A01G194200 chr3A 93.023 43 3 0 5819 5861 490339264 490339306 5.380000e-06 63.9
4 TraesCS3A01G194200 chr3D 97.000 3833 77 19 1 3821 248532877 248536683 0.000000e+00 6407.0
5 TraesCS3A01G194200 chr3D 94.003 2318 53 37 4143 6425 248536873 248539139 0.000000e+00 3432.0
6 TraesCS3A01G194200 chr3D 93.818 275 12 5 3873 4142 248536683 248536957 6.000000e-110 409.0
7 TraesCS3A01G194200 chr3D 87.879 99 9 3 6079 6175 248538697 248538794 5.260000e-21 113.0
8 TraesCS3A01G194200 chr3B 97.935 2809 40 11 773 3568 348104847 348107650 0.000000e+00 4850.0
9 TraesCS3A01G194200 chr3B 97.481 1469 31 2 4143 5605 348108147 348109615 0.000000e+00 2503.0
10 TraesCS3A01G194200 chr3B 90.193 673 59 5 103 771 348103889 348104558 0.000000e+00 870.0
11 TraesCS3A01G194200 chr3B 95.946 296 11 1 3848 4142 348107936 348108231 4.510000e-131 479.0
12 TraesCS3A01G194200 chr3B 92.157 306 19 4 6120 6425 348119036 348119336 1.660000e-115 427.0
13 TraesCS3A01G194200 chr3B 95.122 205 9 1 3648 3852 348107685 348107888 8.040000e-84 322.0
14 TraesCS3A01G194200 chr3B 91.503 153 7 2 5600 5746 348117630 348117782 8.440000e-49 206.0
15 TraesCS3A01G194200 chr3B 97.248 109 3 0 1 109 348102015 348102123 1.100000e-42 185.0
16 TraesCS3A01G194200 chr3B 96.970 99 3 0 5905 6003 348117797 348117895 3.980000e-37 167.0
17 TraesCS3A01G194200 chr5D 97.087 103 2 1 3589 3691 205794643 205794744 8.560000e-39 172.0
18 TraesCS3A01G194200 chr5D 95.238 105 5 0 3589 3693 125803561 125803457 3.980000e-37 167.0
19 TraesCS3A01G194200 chr6D 97.959 98 2 0 3593 3690 91559630 91559533 3.080000e-38 171.0
20 TraesCS3A01G194200 chr6D 92.857 42 3 0 5822 5863 67531430 67531389 1.930000e-05 62.1
21 TraesCS3A01G194200 chr2B 93.860 114 6 1 3580 3692 601206833 601206946 3.080000e-38 171.0
22 TraesCS3A01G194200 chr2B 85.185 135 15 3 6207 6341 257503668 257503797 4.040000e-27 134.0
23 TraesCS3A01G194200 chr2B 88.679 53 3 2 5827 5877 540991932 540991881 1.930000e-05 62.1
24 TraesCS3A01G194200 chr2B 89.362 47 5 0 5818 5864 458967015 458967061 6.960000e-05 60.2
25 TraesCS3A01G194200 chr7A 95.283 106 4 1 3587 3691 61815915 61816020 3.980000e-37 167.0
26 TraesCS3A01G194200 chr7A 97.368 38 1 0 5827 5864 437750634 437750671 1.500000e-06 65.8
27 TraesCS3A01G194200 chr4D 96.970 99 3 0 3593 3691 323929669 323929571 3.980000e-37 167.0
28 TraesCS3A01G194200 chr4D 95.238 105 4 1 3586 3689 50462607 50462503 1.430000e-36 165.0
29 TraesCS3A01G194200 chr5B 92.793 111 6 2 3593 3702 78734432 78734323 6.670000e-35 159.0
30 TraesCS3A01G194200 chr2D 83.088 136 16 4 6207 6341 203447553 203447682 4.070000e-22 117.0
31 TraesCS3A01G194200 chr2A 83.088 136 14 6 6207 6341 232367007 232367134 1.460000e-21 115.0
32 TraesCS3A01G194200 chr2A 91.111 45 4 0 5818 5862 724374669 724374713 1.930000e-05 62.1
33 TraesCS3A01G194200 chr4A 93.182 44 3 0 5818 5861 613683049 613683092 1.500000e-06 65.8
34 TraesCS3A01G194200 chr6B 89.583 48 5 0 5816 5863 262466203 262466250 1.930000e-05 62.1


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 TraesCS3A01G194200 chr3A 269390723 269397147 6424 False 4060.333333 11865 100.000000 1 6425 3 chr3A.!!$F2 6424
1 TraesCS3A01G194200 chr3D 248532877 248539139 6262 False 2590.250000 6407 93.175000 1 6425 4 chr3D.!!$F1 6424
2 TraesCS3A01G194200 chr3B 348102015 348109615 7600 False 1534.833333 4850 95.654167 1 5605 6 chr3B.!!$F1 5604
3 TraesCS3A01G194200 chr3B 348117630 348119336 1706 False 266.666667 427 93.543333 5600 6425 3 chr3B.!!$F2 825

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
502 2277 0.320421 CCTTCCACCACGTGTCGAAT 60.320 55.000 15.65 0.00 0.00 3.34 F
543 2318 1.947146 CTTGACACGCGACGTTCCA 60.947 57.895 15.93 1.72 38.32 3.53 F
1380 3453 0.839277 CTGCCACCATCATCCCTACA 59.161 55.000 0.00 0.00 0.00 2.74 F
2618 4696 2.918131 GCTCGCAACACAGATTTTGGAC 60.918 50.000 0.00 0.00 0.00 4.02 F
2686 4764 5.089970 AGTTTTCTTTGCCTTGCTTCTTT 57.910 34.783 0.00 0.00 0.00 2.52 F
3610 5702 0.824759 CTACTCCCTCCGTCCCAAAG 59.175 60.000 0.00 0.00 0.00 2.77 F
5178 7345 1.043116 TTGATCTGGATCGGTCGCCT 61.043 55.000 6.17 0.00 40.63 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1323 3396 0.318107 GGGACGACGACGACTTGAAA 60.318 55.000 15.32 0.0 42.66 2.69 R
2182 4258 1.106944 AAAGTGTGGAAACAGGGCGG 61.107 55.000 0.00 0.0 44.46 6.13 R
3192 5271 0.761187 AGCAACAGGAGCAGAAGACA 59.239 50.000 0.00 0.0 0.00 3.41 R
3452 5544 1.021390 GTGCCGCAACATCTGTAGCT 61.021 55.000 0.00 0.0 0.00 3.32 R
3874 6018 1.471287 GGTTTAAGCAAAGCCTACCCG 59.529 52.381 0.00 0.0 36.37 5.28 R
5300 7467 1.544093 CCCTCTTCTTGCTGCTCACAA 60.544 52.381 0.00 0.0 0.00 3.33 R
6059 9348 0.107654 ATGTACTTCTGCGCCCTTCC 60.108 55.000 4.18 0.0 0.00 3.46 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
293 2067 8.437360 AAAGAAATCAAACAAATTGGAGAACC 57.563 30.769 0.00 0.00 39.62 3.62
305 2079 3.374042 TGGAGAACCAACCAACAAGAA 57.626 42.857 0.00 0.00 43.91 2.52
308 2083 4.528596 TGGAGAACCAACCAACAAGAAAAA 59.471 37.500 0.00 0.00 43.91 1.94
350 2125 1.250154 CCCAATGAAAAGAGGCGGCA 61.250 55.000 13.08 0.00 0.00 5.69
356 2131 1.795170 GAAAAGAGGCGGCAGTGCAA 61.795 55.000 18.61 0.00 36.28 4.08
361 2136 4.704833 GGCGGCAGTGCAAGGAGA 62.705 66.667 18.61 0.00 36.28 3.71
370 2145 0.534203 GTGCAAGGAGAAACACGGGA 60.534 55.000 0.00 0.00 0.00 5.14
371 2146 0.534203 TGCAAGGAGAAACACGGGAC 60.534 55.000 0.00 0.00 0.00 4.46
444 2219 8.066612 AGTGAAAAGAGAAAAATCAGAAACCA 57.933 30.769 0.00 0.00 0.00 3.67
476 2251 7.065324 GTGATAACCGAAAAACCTGATGTGATA 59.935 37.037 0.00 0.00 0.00 2.15
501 2276 1.068417 CCTTCCACCACGTGTCGAA 59.932 57.895 15.65 11.29 0.00 3.71
502 2277 0.320421 CCTTCCACCACGTGTCGAAT 60.320 55.000 15.65 0.00 0.00 3.34
543 2318 1.947146 CTTGACACGCGACGTTCCA 60.947 57.895 15.93 1.72 38.32 3.53
572 2347 2.669569 GCTTGGAAGCCACGAGCA 60.670 61.111 0.00 0.00 46.20 4.26
615 2390 2.005971 AGTAGTGATTTCGGTTCCGC 57.994 50.000 6.35 0.00 0.00 5.54
971 3038 3.851128 GTGCCCTAGCCGGAGACC 61.851 72.222 5.05 0.00 38.69 3.85
1280 3347 4.612412 GCGTGAACACCGGGACCA 62.612 66.667 6.32 0.00 0.00 4.02
1281 3348 2.663852 CGTGAACACCGGGACCAC 60.664 66.667 6.32 7.42 0.00 4.16
1282 3349 2.663852 GTGAACACCGGGACCACG 60.664 66.667 6.32 0.00 0.00 4.94
1323 3396 1.959738 TCACGACGAGCACGACTCT 60.960 57.895 11.40 0.00 43.85 3.24
1380 3453 0.839277 CTGCCACCATCATCCCTACA 59.161 55.000 0.00 0.00 0.00 2.74
1484 3557 4.051237 TCGTGTTACATCTCATAGCATGC 58.949 43.478 10.51 10.51 0.00 4.06
2182 4258 6.759356 GGGATTCTGTTAGAGCTTTTCTACTC 59.241 42.308 0.00 0.00 38.12 2.59
2273 4349 8.519526 TGTTGATTCTTTGTTGTTTTCACTACT 58.480 29.630 0.00 0.00 30.67 2.57
2274 4350 9.997482 GTTGATTCTTTGTTGTTTTCACTACTA 57.003 29.630 0.00 0.00 30.67 1.82
2276 4352 9.607988 TGATTCTTTGTTGTTTTCACTACTAGA 57.392 29.630 0.00 0.00 30.67 2.43
2278 4354 9.614792 ATTCTTTGTTGTTTTCACTACTAGAGT 57.385 29.630 0.00 0.00 39.82 3.24
2282 4358 9.880157 TTTGTTGTTTTCACTACTAGAGTAACT 57.120 29.630 0.00 0.00 35.64 2.24
2465 4543 3.863142 ATTGCCTTGCTCAATCAAGAC 57.137 42.857 5.19 0.00 44.61 3.01
2618 4696 2.918131 GCTCGCAACACAGATTTTGGAC 60.918 50.000 0.00 0.00 0.00 4.02
2686 4764 5.089970 AGTTTTCTTTGCCTTGCTTCTTT 57.910 34.783 0.00 0.00 0.00 2.52
3193 5272 9.787532 TTTAATTTTCTGTTCTGTTCTGTTCTG 57.212 29.630 0.00 0.00 0.00 3.02
3194 5273 7.396540 AATTTTCTGTTCTGTTCTGTTCTGT 57.603 32.000 0.00 0.00 0.00 3.41
3452 5544 5.205821 TCTGGACGATCTCCTATTTTGGTA 58.794 41.667 11.12 0.00 40.26 3.25
3610 5702 0.824759 CTACTCCCTCCGTCCCAAAG 59.175 60.000 0.00 0.00 0.00 2.77
3690 5782 6.906901 ACTTATTTTGGGACAGAGGGAGTATA 59.093 38.462 0.00 0.00 42.39 1.47
3796 5888 5.816777 AGTAGTTAGCGTGTGTTTTTGGTTA 59.183 36.000 0.00 0.00 0.00 2.85
3867 6011 7.341769 AGTTCCTTAATATGTGCTGCCATTTTA 59.658 33.333 8.53 8.60 0.00 1.52
4110 6259 7.606858 TCAAATCTCAGAAATGATCTCACAC 57.393 36.000 0.00 0.00 35.73 3.82
4111 6260 7.392418 TCAAATCTCAGAAATGATCTCACACT 58.608 34.615 0.00 0.00 35.73 3.55
4112 6261 8.534496 TCAAATCTCAGAAATGATCTCACACTA 58.466 33.333 0.00 0.00 35.73 2.74
4113 6262 9.327628 CAAATCTCAGAAATGATCTCACACTAT 57.672 33.333 0.00 0.00 35.73 2.12
4114 6263 9.545105 AAATCTCAGAAATGATCTCACACTATC 57.455 33.333 0.00 0.00 35.73 2.08
4115 6264 7.048629 TCTCAGAAATGATCTCACACTATCC 57.951 40.000 0.00 0.00 35.73 2.59
4116 6265 6.838090 TCTCAGAAATGATCTCACACTATCCT 59.162 38.462 0.00 0.00 35.73 3.24
4117 6266 7.014134 TCTCAGAAATGATCTCACACTATCCTC 59.986 40.741 0.00 0.00 35.73 3.71
4118 6267 6.838090 TCAGAAATGATCTCACACTATCCTCT 59.162 38.462 0.00 0.00 35.73 3.69
4119 6268 7.344093 TCAGAAATGATCTCACACTATCCTCTT 59.656 37.037 0.00 0.00 35.73 2.85
4120 6269 7.438757 CAGAAATGATCTCACACTATCCTCTTG 59.561 40.741 0.00 0.00 35.73 3.02
4121 6270 4.662468 TGATCTCACACTATCCTCTTGC 57.338 45.455 0.00 0.00 0.00 4.01
4122 6271 4.285020 TGATCTCACACTATCCTCTTGCT 58.715 43.478 0.00 0.00 0.00 3.91
4123 6272 4.713814 TGATCTCACACTATCCTCTTGCTT 59.286 41.667 0.00 0.00 0.00 3.91
4124 6273 5.188555 TGATCTCACACTATCCTCTTGCTTT 59.811 40.000 0.00 0.00 0.00 3.51
4125 6274 5.078411 TCTCACACTATCCTCTTGCTTTC 57.922 43.478 0.00 0.00 0.00 2.62
4126 6275 4.774726 TCTCACACTATCCTCTTGCTTTCT 59.225 41.667 0.00 0.00 0.00 2.52
4127 6276 5.247110 TCTCACACTATCCTCTTGCTTTCTT 59.753 40.000 0.00 0.00 0.00 2.52
4128 6277 5.240891 TCACACTATCCTCTTGCTTTCTTG 58.759 41.667 0.00 0.00 0.00 3.02
4129 6278 5.012046 TCACACTATCCTCTTGCTTTCTTGA 59.988 40.000 0.00 0.00 0.00 3.02
4130 6279 5.121454 CACACTATCCTCTTGCTTTCTTGAC 59.879 44.000 0.00 0.00 0.00 3.18
4131 6280 5.221722 ACACTATCCTCTTGCTTTCTTGACA 60.222 40.000 0.00 0.00 0.00 3.58
4132 6281 5.879223 CACTATCCTCTTGCTTTCTTGACAT 59.121 40.000 0.00 0.00 0.00 3.06
4133 6282 7.044181 CACTATCCTCTTGCTTTCTTGACATA 58.956 38.462 0.00 0.00 0.00 2.29
4134 6283 7.224362 CACTATCCTCTTGCTTTCTTGACATAG 59.776 40.741 0.00 0.00 0.00 2.23
4135 6284 4.836825 TCCTCTTGCTTTCTTGACATAGG 58.163 43.478 0.00 0.00 0.00 2.57
4136 6285 3.944015 CCTCTTGCTTTCTTGACATAGGG 59.056 47.826 0.00 0.00 0.00 3.53
4137 6286 4.566488 CCTCTTGCTTTCTTGACATAGGGT 60.566 45.833 0.00 0.00 0.00 4.34
4138 6287 4.985538 TCTTGCTTTCTTGACATAGGGTT 58.014 39.130 0.00 0.00 0.00 4.11
4139 6288 4.761739 TCTTGCTTTCTTGACATAGGGTTG 59.238 41.667 0.00 0.00 0.00 3.77
4140 6289 4.098914 TGCTTTCTTGACATAGGGTTGT 57.901 40.909 0.00 0.00 0.00 3.32
4141 6290 3.820467 TGCTTTCTTGACATAGGGTTGTG 59.180 43.478 0.00 0.00 0.00 3.33
4142 6291 3.191371 GCTTTCTTGACATAGGGTTGTGG 59.809 47.826 0.00 0.00 0.00 4.17
4143 6292 4.398319 CTTTCTTGACATAGGGTTGTGGT 58.602 43.478 0.00 0.00 0.00 4.16
4144 6293 5.556915 CTTTCTTGACATAGGGTTGTGGTA 58.443 41.667 0.00 0.00 0.00 3.25
4145 6294 5.772393 TTCTTGACATAGGGTTGTGGTAT 57.228 39.130 0.00 0.00 0.00 2.73
4146 6295 5.772393 TCTTGACATAGGGTTGTGGTATT 57.228 39.130 0.00 0.00 0.00 1.89
4147 6296 5.496556 TCTTGACATAGGGTTGTGGTATTG 58.503 41.667 0.00 0.00 0.00 1.90
4148 6297 4.919774 TGACATAGGGTTGTGGTATTGT 57.080 40.909 0.00 0.00 0.00 2.71
4149 6298 5.249780 TGACATAGGGTTGTGGTATTGTT 57.750 39.130 0.00 0.00 0.00 2.83
4150 6299 5.250200 TGACATAGGGTTGTGGTATTGTTC 58.750 41.667 0.00 0.00 0.00 3.18
4151 6300 5.013704 TGACATAGGGTTGTGGTATTGTTCT 59.986 40.000 0.00 0.00 0.00 3.01
4152 6301 5.253330 ACATAGGGTTGTGGTATTGTTCTG 58.747 41.667 0.00 0.00 0.00 3.02
4153 6302 5.013704 ACATAGGGTTGTGGTATTGTTCTGA 59.986 40.000 0.00 0.00 0.00 3.27
4154 6303 4.657814 AGGGTTGTGGTATTGTTCTGAT 57.342 40.909 0.00 0.00 0.00 2.90
4155 6304 4.589908 AGGGTTGTGGTATTGTTCTGATC 58.410 43.478 0.00 0.00 0.00 2.92
4156 6305 4.289672 AGGGTTGTGGTATTGTTCTGATCT 59.710 41.667 0.00 0.00 0.00 2.75
4157 6306 5.010282 GGGTTGTGGTATTGTTCTGATCTT 58.990 41.667 0.00 0.00 0.00 2.40
4158 6307 5.476945 GGGTTGTGGTATTGTTCTGATCTTT 59.523 40.000 0.00 0.00 0.00 2.52
4159 6308 6.657541 GGGTTGTGGTATTGTTCTGATCTTTA 59.342 38.462 0.00 0.00 0.00 1.85
4160 6309 7.361799 GGGTTGTGGTATTGTTCTGATCTTTAC 60.362 40.741 0.00 0.00 0.00 2.01
4161 6310 7.361799 GGTTGTGGTATTGTTCTGATCTTTACC 60.362 40.741 0.00 9.11 0.00 2.85
4162 6311 6.774673 TGTGGTATTGTTCTGATCTTTACCA 58.225 36.000 12.39 12.39 36.25 3.25
4163 6312 7.073342 GTGGTATTGTTCTGATCTTTACCAC 57.927 40.000 21.37 21.37 46.14 4.16
4164 6313 6.093633 GTGGTATTGTTCTGATCTTTACCACC 59.906 42.308 23.16 14.27 46.31 4.61
4165 6314 6.177610 GGTATTGTTCTGATCTTTACCACCA 58.822 40.000 0.00 0.00 0.00 4.17
4166 6315 6.316390 GGTATTGTTCTGATCTTTACCACCAG 59.684 42.308 0.00 0.00 0.00 4.00
4167 6316 4.974645 TGTTCTGATCTTTACCACCAGT 57.025 40.909 0.00 0.00 0.00 4.00
4168 6317 4.641396 TGTTCTGATCTTTACCACCAGTG 58.359 43.478 0.00 0.00 0.00 3.66
4169 6318 3.334583 TCTGATCTTTACCACCAGTGC 57.665 47.619 0.00 0.00 0.00 4.40
4170 6319 2.906389 TCTGATCTTTACCACCAGTGCT 59.094 45.455 0.00 0.00 0.00 4.40
4171 6320 3.327757 TCTGATCTTTACCACCAGTGCTT 59.672 43.478 0.00 0.00 0.00 3.91
4172 6321 3.674997 TGATCTTTACCACCAGTGCTTC 58.325 45.455 0.00 0.00 0.00 3.86
4173 6322 3.072330 TGATCTTTACCACCAGTGCTTCA 59.928 43.478 0.00 0.00 0.00 3.02
4174 6323 3.569194 TCTTTACCACCAGTGCTTCAA 57.431 42.857 0.00 0.00 0.00 2.69
4175 6324 3.892284 TCTTTACCACCAGTGCTTCAAA 58.108 40.909 0.00 0.00 0.00 2.69
4176 6325 4.469657 TCTTTACCACCAGTGCTTCAAAT 58.530 39.130 0.00 0.00 0.00 2.32
4177 6326 4.518970 TCTTTACCACCAGTGCTTCAAATC 59.481 41.667 0.00 0.00 0.00 2.17
4178 6327 2.664402 ACCACCAGTGCTTCAAATCT 57.336 45.000 0.00 0.00 0.00 2.40
4179 6328 2.508526 ACCACCAGTGCTTCAAATCTC 58.491 47.619 0.00 0.00 0.00 2.75
4180 6329 2.158623 ACCACCAGTGCTTCAAATCTCA 60.159 45.455 0.00 0.00 0.00 3.27
4181 6330 2.486982 CCACCAGTGCTTCAAATCTCAG 59.513 50.000 0.00 0.00 0.00 3.35
4182 6331 3.405831 CACCAGTGCTTCAAATCTCAGA 58.594 45.455 0.00 0.00 0.00 3.27
4183 6332 3.817084 CACCAGTGCTTCAAATCTCAGAA 59.183 43.478 0.00 0.00 0.00 3.02
4184 6333 4.276678 CACCAGTGCTTCAAATCTCAGAAA 59.723 41.667 0.00 0.00 0.00 2.52
4185 6334 5.048224 CACCAGTGCTTCAAATCTCAGAAAT 60.048 40.000 0.00 0.00 0.00 2.17
4186 6335 5.048224 ACCAGTGCTTCAAATCTCAGAAATG 60.048 40.000 0.00 0.00 0.00 2.32
4187 6336 5.182570 CCAGTGCTTCAAATCTCAGAAATGA 59.817 40.000 0.00 0.00 0.00 2.57
4188 6337 6.127703 CCAGTGCTTCAAATCTCAGAAATGAT 60.128 38.462 0.00 0.00 0.00 2.45
4189 6338 6.967767 CAGTGCTTCAAATCTCAGAAATGATC 59.032 38.462 0.00 0.00 0.00 2.92
4190 6339 6.885376 AGTGCTTCAAATCTCAGAAATGATCT 59.115 34.615 0.00 0.00 39.68 2.75
4191 6340 7.066043 AGTGCTTCAAATCTCAGAAATGATCTC 59.934 37.037 0.00 0.00 35.73 2.75
4192 6341 6.882678 TGCTTCAAATCTCAGAAATGATCTCA 59.117 34.615 0.00 0.00 35.73 3.27
4193 6342 7.148289 TGCTTCAAATCTCAGAAATGATCTCAC 60.148 37.037 0.00 0.00 35.73 3.51
4194 6343 7.148289 GCTTCAAATCTCAGAAATGATCTCACA 60.148 37.037 0.00 0.00 35.73 3.58
4195 6344 7.606858 TCAAATCTCAGAAATGATCTCACAC 57.393 36.000 0.00 0.00 35.73 3.82
4560 6709 1.202806 AGGATGATTATGGTGGCCGTG 60.203 52.381 0.00 0.00 0.00 4.94
4680 6829 3.995412 TTTCTTTCGTCGTCGTTGTTT 57.005 38.095 1.33 0.00 38.33 2.83
5178 7345 1.043116 TTGATCTGGATCGGTCGCCT 61.043 55.000 6.17 0.00 40.63 5.52
5300 7467 3.857157 TGCTAAACCTGTGGAAGTCTT 57.143 42.857 0.00 0.00 0.00 3.01
5393 7560 0.882042 GATGATGACCCTCGCGCAAT 60.882 55.000 8.75 0.00 0.00 3.56
5457 7624 6.933130 TGAACGATGAATTTGCTATTCTACG 58.067 36.000 18.37 18.37 35.43 3.51
5752 7931 5.466393 GCATGCTTTTGGTTTGAAACACTAT 59.534 36.000 11.37 0.00 0.00 2.12
5755 7934 9.206870 CATGCTTTTGGTTTGAAACACTATTAT 57.793 29.630 10.53 0.00 0.00 1.28
5756 7935 9.777297 ATGCTTTTGGTTTGAAACACTATTATT 57.223 25.926 10.53 0.00 0.00 1.40
5763 7942 9.349713 TGGTTTGAAACACTATTATTTCTGTCT 57.650 29.630 10.53 0.00 36.09 3.41
5815 7994 9.657121 GCTAACATATTTTCTCATTGAGCTAAC 57.343 33.333 8.89 0.00 0.00 2.34
5829 8008 8.721478 TCATTGAGCTAACATAGTTTGAGAAAC 58.279 33.333 0.00 0.00 41.69 2.78
5830 8009 8.506437 CATTGAGCTAACATAGTTTGAGAAACA 58.494 33.333 0.00 0.00 43.79 2.83
5833 8012 9.719355 TGAGCTAACATAGTTTGAGAAACATTA 57.281 29.630 0.00 0.00 43.79 1.90
5947 8126 6.610075 ATGGACTTGAAATTATTGCCAACT 57.390 33.333 0.00 0.00 0.00 3.16
6004 8183 5.467063 GGGAAGAAGGCAGAATTATCGTAAG 59.533 44.000 0.00 0.00 0.00 2.34
6030 9319 1.398390 GCTACGGAATGCTTGTCCAAG 59.602 52.381 2.63 2.63 41.24 3.61
6033 9322 3.350219 ACGGAATGCTTGTCCAAGTAT 57.650 42.857 8.69 6.82 43.90 2.12
6034 9323 4.481368 ACGGAATGCTTGTCCAAGTATA 57.519 40.909 10.40 0.00 41.75 1.47
6035 9324 5.036117 ACGGAATGCTTGTCCAAGTATAT 57.964 39.130 10.40 2.89 41.75 0.86
6059 9348 1.352083 TCCAGAGGGAGTCTTGGTTG 58.648 55.000 0.00 0.00 38.64 3.77
6075 9380 0.321298 GTTGGAAGGGCGCAGAAGTA 60.321 55.000 10.83 0.00 0.00 2.24
6081 9386 1.776662 AGGGCGCAGAAGTACATCTA 58.223 50.000 10.83 0.00 0.00 1.98
6300 9605 9.627123 TTCTATAAAAAGTTGCAGGCATATACT 57.373 29.630 0.00 0.00 0.00 2.12
6412 9717 3.532542 GGAAACGCTATTTAGGAGCACT 58.467 45.455 0.00 0.00 40.09 4.40
6421 9726 4.725790 ATTTAGGAGCACTGGAATTTGC 57.274 40.909 0.00 0.00 39.16 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
129 1902 8.471609 TCGGTTCTTACATCAATCTATGTACAA 58.528 33.333 0.00 0.00 41.00 2.41
197 1970 3.501568 GGTAAATTGGGAGGGGTTCTTGT 60.502 47.826 0.00 0.00 0.00 3.16
267 2041 8.892723 GGTTCTCCAATTTGTTTGATTTCTTTT 58.107 29.630 0.00 0.00 37.53 2.27
268 2042 8.046107 TGGTTCTCCAATTTGTTTGATTTCTTT 58.954 29.630 0.00 0.00 41.25 2.52
269 2043 7.563906 TGGTTCTCCAATTTGTTTGATTTCTT 58.436 30.769 0.00 0.00 41.25 2.52
270 2044 7.123355 TGGTTCTCCAATTTGTTTGATTTCT 57.877 32.000 0.00 0.00 41.25 2.52
285 2059 3.374042 TTCTTGTTGGTTGGTTCTCCA 57.626 42.857 0.00 0.00 42.66 3.86
308 2083 4.091509 GCTCGTATGTCACTTTCATCGTTT 59.908 41.667 0.00 0.00 0.00 3.60
350 2125 0.535102 CCCGTGTTTCTCCTTGCACT 60.535 55.000 0.00 0.00 0.00 4.40
356 2131 1.532316 TCCGTCCCGTGTTTCTCCT 60.532 57.895 0.00 0.00 0.00 3.69
361 2136 1.070275 GTTCCTCCGTCCCGTGTTT 59.930 57.895 0.00 0.00 0.00 2.83
370 2145 7.527568 TTAACCAAAATTATTGTTCCTCCGT 57.472 32.000 0.00 0.00 0.00 4.69
371 2146 8.819643 TTTTAACCAAAATTATTGTTCCTCCG 57.180 30.769 0.00 0.00 0.00 4.63
406 2181 6.019748 TCTCTTTTCACTCTAGTCCCTGAAT 58.980 40.000 0.00 0.00 0.00 2.57
444 2219 4.818005 AGGTTTTTCGGTTATCACTTTCGT 59.182 37.500 0.00 0.00 0.00 3.85
476 2251 2.286523 CGTGGTGGAAGGAGAGGCT 61.287 63.158 0.00 0.00 0.00 4.58
501 2276 3.227276 CTCCGCTACGCTCCCCAT 61.227 66.667 0.00 0.00 0.00 4.00
502 2277 4.435970 TCTCCGCTACGCTCCCCA 62.436 66.667 0.00 0.00 0.00 4.96
520 2295 3.112709 GTCGCGTGTCAAGGAGGC 61.113 66.667 5.77 0.00 0.00 4.70
527 2302 2.656007 GTGGAACGTCGCGTGTCA 60.656 61.111 5.77 0.00 39.99 3.58
543 2318 0.107410 TTCCAAGCGTGACAAGTGGT 60.107 50.000 0.00 0.00 0.00 4.16
688 2465 5.221722 ACACGTGCATAATCATCCTATCCTT 60.222 40.000 17.22 0.00 0.00 3.36
814 2878 8.531622 TTTATTGTGATGTGAAATTTTGCGAT 57.468 26.923 0.00 0.00 0.00 4.58
971 3038 1.816961 GCAGATCTGGGCCAATACCTG 60.817 57.143 23.89 13.34 0.00 4.00
1323 3396 0.318107 GGGACGACGACGACTTGAAA 60.318 55.000 15.32 0.00 42.66 2.69
1404 3477 2.202690 CGACGGCGGTATGCTTCA 60.203 61.111 13.24 0.00 45.43 3.02
1530 3605 4.462508 TGCATCACAGACCAAACAAAAA 57.537 36.364 0.00 0.00 0.00 1.94
2182 4258 1.106944 AAAGTGTGGAAACAGGGCGG 61.107 55.000 0.00 0.00 44.46 6.13
2282 4358 1.131638 ACAGCTCCCACTGAAACTCA 58.868 50.000 0.00 0.00 40.25 3.41
2465 4543 3.000041 TGTCTTGGCAATAGCTACAACG 59.000 45.455 0.00 0.00 41.70 4.10
2618 4696 2.030893 TCTGCCAAATTTCACAGCTTCG 60.031 45.455 10.75 0.00 0.00 3.79
2707 4785 5.310409 AGAGACCAAGAACAAAGGATCAA 57.690 39.130 0.00 0.00 0.00 2.57
3190 5269 1.270518 GCAACAGGAGCAGAAGACAGA 60.271 52.381 0.00 0.00 0.00 3.41
3191 5270 1.155042 GCAACAGGAGCAGAAGACAG 58.845 55.000 0.00 0.00 0.00 3.51
3192 5271 0.761187 AGCAACAGGAGCAGAAGACA 59.239 50.000 0.00 0.00 0.00 3.41
3193 5272 1.001860 AGAGCAACAGGAGCAGAAGAC 59.998 52.381 0.00 0.00 0.00 3.01
3194 5273 1.001746 CAGAGCAACAGGAGCAGAAGA 59.998 52.381 0.00 0.00 0.00 2.87
3395 5487 5.046663 ACTCAGGACCTTCTCTCTTTCATTC 60.047 44.000 0.00 0.00 0.00 2.67
3452 5544 1.021390 GTGCCGCAACATCTGTAGCT 61.021 55.000 0.00 0.00 0.00 3.32
3610 5702 8.868635 AGTTAGTACAAAGTTGAGACACTTAC 57.131 34.615 0.00 1.04 35.87 2.34
3646 5738 8.535690 AATAAGTGTCTCAAGCTTAGTACAAC 57.464 34.615 0.00 0.00 0.00 3.32
3649 5741 8.443937 CCAAAATAAGTGTCTCAAGCTTAGTAC 58.556 37.037 0.00 0.00 0.00 2.73
3690 5782 6.672593 TCTTTAGCCCCATTTAGACATTCAT 58.327 36.000 0.00 0.00 0.00 2.57
3744 5836 4.835284 TTAGGTATCCTTGTCATGCACA 57.165 40.909 0.00 0.00 34.61 4.57
3796 5888 2.158534 TGGTAGCACAGGTTTTGGACAT 60.159 45.455 0.00 0.00 0.00 3.06
3838 5930 6.184068 TGGCAGCACATATTAAGGAACTAAA 58.816 36.000 0.00 0.00 38.49 1.85
3843 5935 6.543430 AAAATGGCAGCACATATTAAGGAA 57.457 33.333 0.00 0.00 0.00 3.36
3874 6018 1.471287 GGTTTAAGCAAAGCCTACCCG 59.529 52.381 0.00 0.00 36.37 5.28
3875 6019 2.521126 TGGTTTAAGCAAAGCCTACCC 58.479 47.619 0.00 0.00 40.65 3.69
4110 6259 6.705381 CCTATGTCAAGAAAGCAAGAGGATAG 59.295 42.308 0.00 0.00 0.00 2.08
4111 6260 6.408548 CCCTATGTCAAGAAAGCAAGAGGATA 60.409 42.308 0.00 0.00 0.00 2.59
4112 6261 5.435291 CCTATGTCAAGAAAGCAAGAGGAT 58.565 41.667 0.00 0.00 0.00 3.24
4113 6262 4.323792 CCCTATGTCAAGAAAGCAAGAGGA 60.324 45.833 0.00 0.00 0.00 3.71
4114 6263 3.944015 CCCTATGTCAAGAAAGCAAGAGG 59.056 47.826 0.00 0.00 0.00 3.69
4115 6264 4.583871 ACCCTATGTCAAGAAAGCAAGAG 58.416 43.478 0.00 0.00 0.00 2.85
4116 6265 4.640771 ACCCTATGTCAAGAAAGCAAGA 57.359 40.909 0.00 0.00 0.00 3.02
4117 6266 4.520492 ACAACCCTATGTCAAGAAAGCAAG 59.480 41.667 0.00 0.00 0.00 4.01
4118 6267 4.278170 CACAACCCTATGTCAAGAAAGCAA 59.722 41.667 0.00 0.00 0.00 3.91
4119 6268 3.820467 CACAACCCTATGTCAAGAAAGCA 59.180 43.478 0.00 0.00 0.00 3.91
4120 6269 3.191371 CCACAACCCTATGTCAAGAAAGC 59.809 47.826 0.00 0.00 0.00 3.51
4121 6270 4.398319 ACCACAACCCTATGTCAAGAAAG 58.602 43.478 0.00 0.00 0.00 2.62
4122 6271 4.447138 ACCACAACCCTATGTCAAGAAA 57.553 40.909 0.00 0.00 0.00 2.52
4123 6272 5.772393 ATACCACAACCCTATGTCAAGAA 57.228 39.130 0.00 0.00 0.00 2.52
4124 6273 5.013704 ACAATACCACAACCCTATGTCAAGA 59.986 40.000 0.00 0.00 0.00 3.02
4125 6274 5.253330 ACAATACCACAACCCTATGTCAAG 58.747 41.667 0.00 0.00 0.00 3.02
4126 6275 5.249780 ACAATACCACAACCCTATGTCAA 57.750 39.130 0.00 0.00 0.00 3.18
4127 6276 4.919774 ACAATACCACAACCCTATGTCA 57.080 40.909 0.00 0.00 0.00 3.58
4128 6277 5.354234 CAGAACAATACCACAACCCTATGTC 59.646 44.000 0.00 0.00 0.00 3.06
4129 6278 5.013704 TCAGAACAATACCACAACCCTATGT 59.986 40.000 0.00 0.00 0.00 2.29
4130 6279 5.496556 TCAGAACAATACCACAACCCTATG 58.503 41.667 0.00 0.00 0.00 2.23
4131 6280 5.772393 TCAGAACAATACCACAACCCTAT 57.228 39.130 0.00 0.00 0.00 2.57
4132 6281 5.487488 AGATCAGAACAATACCACAACCCTA 59.513 40.000 0.00 0.00 0.00 3.53
4133 6282 4.289672 AGATCAGAACAATACCACAACCCT 59.710 41.667 0.00 0.00 0.00 4.34
4134 6283 4.589908 AGATCAGAACAATACCACAACCC 58.410 43.478 0.00 0.00 0.00 4.11
4135 6284 6.575162 AAAGATCAGAACAATACCACAACC 57.425 37.500 0.00 0.00 0.00 3.77
4136 6285 7.174253 TGGTAAAGATCAGAACAATACCACAAC 59.826 37.037 9.33 0.00 37.11 3.32
4137 6286 7.227873 TGGTAAAGATCAGAACAATACCACAA 58.772 34.615 9.33 0.00 37.11 3.33
4138 6287 6.774673 TGGTAAAGATCAGAACAATACCACA 58.225 36.000 9.33 0.00 37.11 4.17
4140 6289 6.177610 GGTGGTAAAGATCAGAACAATACCA 58.822 40.000 9.33 9.33 39.06 3.25
4141 6290 6.177610 TGGTGGTAAAGATCAGAACAATACC 58.822 40.000 0.00 5.46 33.55 2.73
4142 6291 6.879458 ACTGGTGGTAAAGATCAGAACAATAC 59.121 38.462 0.00 0.00 0.00 1.89
4143 6292 6.878923 CACTGGTGGTAAAGATCAGAACAATA 59.121 38.462 0.00 0.00 0.00 1.90
4144 6293 5.707298 CACTGGTGGTAAAGATCAGAACAAT 59.293 40.000 0.00 0.00 0.00 2.71
4145 6294 5.063204 CACTGGTGGTAAAGATCAGAACAA 58.937 41.667 0.00 0.00 0.00 2.83
4146 6295 4.641396 CACTGGTGGTAAAGATCAGAACA 58.359 43.478 0.00 0.00 0.00 3.18
4147 6296 3.437049 GCACTGGTGGTAAAGATCAGAAC 59.563 47.826 0.00 0.00 0.00 3.01
4148 6297 3.327757 AGCACTGGTGGTAAAGATCAGAA 59.672 43.478 3.49 0.00 39.83 3.02
4149 6298 2.906389 AGCACTGGTGGTAAAGATCAGA 59.094 45.455 3.49 0.00 39.83 3.27
4150 6299 3.340814 AGCACTGGTGGTAAAGATCAG 57.659 47.619 3.49 0.00 39.83 2.90
4151 6300 3.072330 TGAAGCACTGGTGGTAAAGATCA 59.928 43.478 5.85 3.49 40.87 2.92
4152 6301 3.674997 TGAAGCACTGGTGGTAAAGATC 58.325 45.455 5.85 1.03 40.87 2.75
4153 6302 3.788227 TGAAGCACTGGTGGTAAAGAT 57.212 42.857 5.85 0.00 40.87 2.40
4154 6303 3.569194 TTGAAGCACTGGTGGTAAAGA 57.431 42.857 5.85 0.00 40.87 2.52
4155 6304 4.520492 AGATTTGAAGCACTGGTGGTAAAG 59.480 41.667 5.85 0.00 40.87 1.85
4156 6305 4.469657 AGATTTGAAGCACTGGTGGTAAA 58.530 39.130 5.85 4.90 40.87 2.01
4157 6306 4.072131 GAGATTTGAAGCACTGGTGGTAA 58.928 43.478 5.85 0.00 40.87 2.85
4158 6307 3.072330 TGAGATTTGAAGCACTGGTGGTA 59.928 43.478 5.85 0.00 40.87 3.25
4159 6308 2.158623 TGAGATTTGAAGCACTGGTGGT 60.159 45.455 0.00 0.00 44.00 4.16
4160 6309 2.486982 CTGAGATTTGAAGCACTGGTGG 59.513 50.000 2.84 0.00 0.00 4.61
4161 6310 3.405831 TCTGAGATTTGAAGCACTGGTG 58.594 45.455 0.00 0.00 0.00 4.17
4162 6311 3.777106 TCTGAGATTTGAAGCACTGGT 57.223 42.857 0.00 0.00 0.00 4.00
4163 6312 5.182570 TCATTTCTGAGATTTGAAGCACTGG 59.817 40.000 0.00 0.00 0.00 4.00
4164 6313 6.250344 TCATTTCTGAGATTTGAAGCACTG 57.750 37.500 0.00 0.00 0.00 3.66
4165 6314 6.885376 AGATCATTTCTGAGATTTGAAGCACT 59.115 34.615 0.00 0.00 34.12 4.40
4166 6315 7.086230 AGATCATTTCTGAGATTTGAAGCAC 57.914 36.000 0.00 0.00 34.12 4.40
4167 6316 6.882678 TGAGATCATTTCTGAGATTTGAAGCA 59.117 34.615 0.00 0.00 33.74 3.91
4168 6317 7.148289 TGTGAGATCATTTCTGAGATTTGAAGC 60.148 37.037 0.00 0.00 33.74 3.86
4169 6318 8.176365 GTGTGAGATCATTTCTGAGATTTGAAG 58.824 37.037 0.00 0.00 33.74 3.02
4170 6319 7.881751 AGTGTGAGATCATTTCTGAGATTTGAA 59.118 33.333 0.00 0.00 33.74 2.69
4171 6320 7.392418 AGTGTGAGATCATTTCTGAGATTTGA 58.608 34.615 0.00 0.00 33.74 2.69
4172 6321 7.612668 AGTGTGAGATCATTTCTGAGATTTG 57.387 36.000 0.00 0.00 33.74 2.32
4173 6322 9.545105 GATAGTGTGAGATCATTTCTGAGATTT 57.455 33.333 0.00 0.00 33.74 2.17
4174 6323 8.149647 GGATAGTGTGAGATCATTTCTGAGATT 58.850 37.037 0.00 0.00 33.74 2.40
4175 6324 7.510001 AGGATAGTGTGAGATCATTTCTGAGAT 59.490 37.037 0.00 0.00 33.74 2.75
4176 6325 6.838090 AGGATAGTGTGAGATCATTTCTGAGA 59.162 38.462 0.00 0.00 33.74 3.27
4177 6326 7.014518 AGAGGATAGTGTGAGATCATTTCTGAG 59.985 40.741 0.00 0.00 33.74 3.35
4178 6327 6.838090 AGAGGATAGTGTGAGATCATTTCTGA 59.162 38.462 0.00 0.00 33.74 3.27
4179 6328 7.053316 AGAGGATAGTGTGAGATCATTTCTG 57.947 40.000 0.00 0.00 33.74 3.02
4180 6329 7.499292 CAAGAGGATAGTGTGAGATCATTTCT 58.501 38.462 0.00 0.00 37.41 2.52
4181 6330 6.202570 GCAAGAGGATAGTGTGAGATCATTTC 59.797 42.308 0.00 0.00 0.00 2.17
4182 6331 6.054295 GCAAGAGGATAGTGTGAGATCATTT 58.946 40.000 0.00 0.00 0.00 2.32
4183 6332 5.366186 AGCAAGAGGATAGTGTGAGATCATT 59.634 40.000 0.00 0.00 0.00 2.57
4184 6333 4.900652 AGCAAGAGGATAGTGTGAGATCAT 59.099 41.667 0.00 0.00 0.00 2.45
4185 6334 4.285020 AGCAAGAGGATAGTGTGAGATCA 58.715 43.478 0.00 0.00 0.00 2.92
4186 6335 4.935352 AGCAAGAGGATAGTGTGAGATC 57.065 45.455 0.00 0.00 0.00 2.75
4187 6336 5.424895 AGAAAGCAAGAGGATAGTGTGAGAT 59.575 40.000 0.00 0.00 0.00 2.75
4188 6337 4.774726 AGAAAGCAAGAGGATAGTGTGAGA 59.225 41.667 0.00 0.00 0.00 3.27
4189 6338 5.083533 AGAAAGCAAGAGGATAGTGTGAG 57.916 43.478 0.00 0.00 0.00 3.51
4190 6339 5.012046 TCAAGAAAGCAAGAGGATAGTGTGA 59.988 40.000 0.00 0.00 0.00 3.58
4191 6340 5.121454 GTCAAGAAAGCAAGAGGATAGTGTG 59.879 44.000 0.00 0.00 0.00 3.82
4192 6341 5.221722 TGTCAAGAAAGCAAGAGGATAGTGT 60.222 40.000 0.00 0.00 0.00 3.55
4193 6342 5.240891 TGTCAAGAAAGCAAGAGGATAGTG 58.759 41.667 0.00 0.00 0.00 2.74
4194 6343 5.489792 TGTCAAGAAAGCAAGAGGATAGT 57.510 39.130 0.00 0.00 0.00 2.12
4195 6344 6.705381 CCTATGTCAAGAAAGCAAGAGGATAG 59.295 42.308 0.00 0.00 0.00 2.08
4560 6709 1.671379 GGGACAGAACGAACCTGCC 60.671 63.158 0.00 0.00 35.14 4.85
4680 6829 2.486548 GGCTCAGGAACACAAACTACCA 60.487 50.000 0.00 0.00 0.00 3.25
4998 7165 3.580458 AGCCAGCTCTTCTTTCAGTCTTA 59.420 43.478 0.00 0.00 0.00 2.10
5300 7467 1.544093 CCCTCTTCTTGCTGCTCACAA 60.544 52.381 0.00 0.00 0.00 3.33
5475 7642 8.715191 AACAAACAACAGCTCAATCATAAAAA 57.285 26.923 0.00 0.00 0.00 1.94
5633 7800 2.284625 AGGACCATCGAGCCCACA 60.285 61.111 0.00 0.00 0.00 4.17
5725 7900 2.529780 TCAAACCAAAAGCATGCCTG 57.470 45.000 15.66 9.55 0.00 4.85
5785 7964 8.400947 GCTCAATGAGAAAATATGTTAGCTCAA 58.599 33.333 15.38 0.00 33.87 3.02
5786 7965 7.772292 AGCTCAATGAGAAAATATGTTAGCTCA 59.228 33.333 15.38 8.61 34.34 4.26
5787 7966 8.152309 AGCTCAATGAGAAAATATGTTAGCTC 57.848 34.615 15.38 0.00 29.94 4.09
5788 7967 9.618890 TTAGCTCAATGAGAAAATATGTTAGCT 57.381 29.630 15.38 2.29 38.78 3.32
5789 7968 9.657121 GTTAGCTCAATGAGAAAATATGTTAGC 57.343 33.333 15.38 0.00 0.00 3.09
5798 7977 9.283768 TCAAACTATGTTAGCTCAATGAGAAAA 57.716 29.630 15.38 4.05 0.00 2.29
5799 7978 8.846943 TCAAACTATGTTAGCTCAATGAGAAA 57.153 30.769 15.38 4.43 0.00 2.52
5800 7979 8.314021 TCTCAAACTATGTTAGCTCAATGAGAA 58.686 33.333 15.38 0.00 37.29 2.87
5801 7980 7.840931 TCTCAAACTATGTTAGCTCAATGAGA 58.159 34.615 15.38 0.00 37.74 3.27
5802 7981 8.484641 TTCTCAAACTATGTTAGCTCAATGAG 57.515 34.615 5.78 5.78 33.61 2.90
5803 7982 8.721478 GTTTCTCAAACTATGTTAGCTCAATGA 58.279 33.333 0.00 0.00 38.35 2.57
5804 7983 8.506437 TGTTTCTCAAACTATGTTAGCTCAATG 58.494 33.333 0.00 0.00 41.90 2.82
5805 7984 8.621532 TGTTTCTCAAACTATGTTAGCTCAAT 57.378 30.769 0.00 0.00 41.90 2.57
5830 8009 9.805204 ACTCCCTCTGTCCCATAATATAATAAT 57.195 33.333 0.00 0.00 0.00 1.28
5833 8012 8.410623 ACTACTCCCTCTGTCCCATAATATAAT 58.589 37.037 0.00 0.00 0.00 1.28
5947 8126 2.556257 TCTGTCTGCGCACAAAAGTAA 58.444 42.857 5.66 0.00 0.00 2.24
6004 8183 4.096732 ACAAGCATTCCGTAGCAAAATC 57.903 40.909 0.00 0.00 0.00 2.17
6030 9319 6.335781 AGACTCCCTCTGGATCCTATATAC 57.664 45.833 14.23 0.00 40.80 1.47
6033 9322 4.202727 CCAAGACTCCCTCTGGATCCTATA 60.203 50.000 14.23 0.00 40.80 1.31
6034 9323 3.439260 CCAAGACTCCCTCTGGATCCTAT 60.439 52.174 14.23 0.00 40.80 2.57
6035 9324 2.091055 CCAAGACTCCCTCTGGATCCTA 60.091 54.545 14.23 0.00 40.80 2.94
6057 9346 0.321298 GTACTTCTGCGCCCTTCCAA 60.321 55.000 4.18 0.00 0.00 3.53
6059 9348 0.107654 ATGTACTTCTGCGCCCTTCC 60.108 55.000 4.18 0.00 0.00 3.46
6075 9380 5.428131 AGAATTCTGCCTTCTTCCTAGATGT 59.572 40.000 7.30 0.00 28.55 3.06
6081 9386 2.679349 GCGAGAATTCTGCCTTCTTCCT 60.679 50.000 14.00 0.00 33.18 3.36
6112 9417 3.177228 CCTCTGGATCCTATACTTGGGG 58.823 54.545 14.23 0.19 0.00 4.96
6113 9418 3.177228 CCCTCTGGATCCTATACTTGGG 58.823 54.545 14.23 10.59 0.00 4.12
6279 9584 7.938140 AGAAGTATATGCCTGCAACTTTTTA 57.062 32.000 8.59 0.00 30.83 1.52
6380 9685 2.681152 AGCGTTTCCGTGACATTTTC 57.319 45.000 0.00 0.00 36.15 2.29
6384 9689 3.869246 CCTAAATAGCGTTTCCGTGACAT 59.131 43.478 0.00 0.00 36.15 3.06
6385 9690 3.056678 TCCTAAATAGCGTTTCCGTGACA 60.057 43.478 0.00 0.00 36.15 3.58
6386 9691 3.514645 TCCTAAATAGCGTTTCCGTGAC 58.485 45.455 0.00 0.00 36.15 3.67
6387 9692 3.777478 CTCCTAAATAGCGTTTCCGTGA 58.223 45.455 0.00 0.00 36.15 4.35
6388 9693 2.284417 GCTCCTAAATAGCGTTTCCGTG 59.716 50.000 0.00 0.00 36.15 4.94
6389 9694 2.093869 TGCTCCTAAATAGCGTTTCCGT 60.094 45.455 0.00 0.00 43.11 4.69
6390 9695 2.284417 GTGCTCCTAAATAGCGTTTCCG 59.716 50.000 0.00 0.00 43.11 4.30
6392 9697 3.309954 CCAGTGCTCCTAAATAGCGTTTC 59.690 47.826 0.00 0.00 43.11 2.78
6393 9698 3.055385 TCCAGTGCTCCTAAATAGCGTTT 60.055 43.478 0.00 0.00 43.11 3.60


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

AutoCloner maintained by Alex Coulton.