Multiple sequence alignment - TraesCS6D01G298000

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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 TraesCS6D01G298000 chr6D 100.000 6908 0 0 1 6908 408905423 408898516 0.000000e+00 12757.0
1 TraesCS6D01G298000 chr6D 100.000 2493 0 0 7361 9853 408898063 408895571 0.000000e+00 4604.0
2 TraesCS6D01G298000 chr6A 95.391 5815 199 34 11 5785 554701879 554696094 0.000000e+00 9190.0
3 TraesCS6D01G298000 chr6A 92.251 1368 57 13 7558 8904 554695049 554693710 0.000000e+00 1893.0
4 TraesCS6D01G298000 chr6A 96.285 942 32 2 5810 6748 554696096 554695155 0.000000e+00 1543.0
5 TraesCS6D01G298000 chr6A 87.320 970 51 26 8901 9853 554693680 554692766 0.000000e+00 1044.0
6 TraesCS6D01G298000 chr6A 92.805 681 36 13 11 687 554703097 554702426 0.000000e+00 974.0
7 TraesCS6D01G298000 chr6B 93.384 2902 122 24 11 2892 613589285 613586434 0.000000e+00 4231.0
8 TraesCS6D01G298000 chr6B 96.068 2162 58 7 4725 6883 613584794 613582657 0.000000e+00 3496.0
9 TraesCS6D01G298000 chr6B 97.444 1526 27 5 3208 4728 613586434 613584916 0.000000e+00 2591.0
10 TraesCS6D01G298000 chr6B 91.710 965 56 7 8901 9853 613575276 613574324 0.000000e+00 1317.0
11 TraesCS6D01G298000 chr6B 92.902 803 33 5 7362 8147 613582453 613581658 0.000000e+00 1146.0
12 TraesCS6D01G298000 chr6B 92.051 780 28 12 8135 8904 613576061 613575306 0.000000e+00 1066.0
13 TraesCS6D01G298000 chr6B 96.226 53 2 0 6856 6908 613582652 613582600 4.900000e-13 87.9
14 TraesCS6D01G298000 chr1D 87.500 408 32 9 9458 9853 491685282 491685682 4.200000e-123 453.0
15 TraesCS6D01G298000 chr1D 93.293 164 9 2 4968 5130 30100585 30100423 3.560000e-59 241.0
16 TraesCS6D01G298000 chr1D 87.079 178 20 3 2234 2410 111003359 111003534 2.170000e-46 198.0
17 TraesCS6D01G298000 chr3D 94.904 157 7 1 4975 5130 449740287 449740443 2.750000e-60 244.0
18 TraesCS6D01G298000 chr3D 92.683 164 9 3 4968 5130 104025905 104026066 5.950000e-57 233.0
19 TraesCS6D01G298000 chr3D 89.157 166 15 3 2237 2402 73853077 73853239 4.670000e-48 204.0
20 TraesCS6D01G298000 chr3D 89.157 166 14 4 2242 2406 576529671 576529509 4.670000e-48 204.0
21 TraesCS6D01G298000 chr3D 88.485 165 16 3 2237 2401 76231155 76230994 7.810000e-46 196.0
22 TraesCS6D01G298000 chr5D 94.304 158 7 2 4975 5130 475153114 475152957 3.560000e-59 241.0
23 TraesCS6D01G298000 chr5D 93.671 158 9 1 4975 5131 487413554 487413711 1.650000e-57 235.0
24 TraesCS6D01G298000 chr5D 89.759 166 16 1 2237 2402 175300068 175299904 2.790000e-50 211.0
25 TraesCS6D01G298000 chr3B 93.293 164 10 1 4968 5130 154663042 154663205 3.560000e-59 241.0
26 TraesCS6D01G298000 chr5A 94.268 157 8 1 4975 5130 605231148 605231304 1.280000e-58 239.0
27 TraesCS6D01G298000 chr4A 87.019 208 24 2 7362 7566 60031194 60030987 2.140000e-56 231.0
28 TraesCS6D01G298000 chr4A 85.590 229 18 7 597 823 457240820 457241035 9.960000e-55 226.0
29 TraesCS6D01G298000 chr4A 85.153 229 19 7 597 823 574154172 574153957 4.630000e-53 220.0
30 TraesCS6D01G298000 chr4A 85.153 229 19 7 597 823 586861801 586862016 4.630000e-53 220.0
31 TraesCS6D01G298000 chr4A 85.153 229 19 7 597 823 586916090 586915875 4.630000e-53 220.0
32 TraesCS6D01G298000 chr4B 85.096 208 28 2 7362 7566 498387644 498387437 1.000000e-49 209.0
33 TraesCS6D01G298000 chr7A 89.157 166 14 4 2242 2406 572176741 572176579 4.670000e-48 204.0
34 TraesCS6D01G298000 chr7A 83.981 206 25 6 7361 7561 571740795 571740593 3.630000e-44 191.0
35 TraesCS6D01G298000 chr4D 89.157 166 14 4 2242 2406 14438062 14438224 4.670000e-48 204.0
36 TraesCS6D01G298000 chr4D 84.135 208 30 2 7362 7566 402542519 402542312 2.170000e-46 198.0
37 TraesCS6D01G298000 chr4D 81.910 199 32 3 7362 7559 48696090 48696285 2.200000e-36 165.0
38 TraesCS6D01G298000 chr2A 83.085 201 32 2 7362 7560 561851930 561852130 2.190000e-41 182.0
39 TraesCS6D01G298000 chr2D 83.505 194 30 2 7362 7554 20427990 20427798 7.860000e-41 180.0
40 TraesCS6D01G298000 chr1A 82.090 201 35 1 7361 7560 22556370 22556170 4.730000e-38 171.0


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 TraesCS6D01G298000 chr6D 408895571 408905423 9852 True 8680.50 12757 100.0000 1 9853 2 chr6D.!!$R1 9852
1 TraesCS6D01G298000 chr6A 554692766 554703097 10331 True 2928.80 9190 92.8104 11 9853 5 chr6A.!!$R1 9842
2 TraesCS6D01G298000 chr6B 613581658 613589285 7627 True 2310.38 4231 95.2048 11 8147 5 chr6B.!!$R2 8136
3 TraesCS6D01G298000 chr6B 613574324 613576061 1737 True 1191.50 1317 91.8805 8135 9853 2 chr6B.!!$R1 1718

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
181 182 0.316204 CGACCGGTTTAGAGTGTGGT 59.684 55.000 9.42 0.0 0.00 4.16 F
992 2228 0.690762 TTTCTTCTTCCCCACTCCGG 59.309 55.000 0.00 0.0 0.00 5.14 F
1387 2633 1.022451 GCGGGTTTTCTGCCGTGATA 61.022 55.000 0.00 0.0 41.83 2.15 F
1908 3156 1.423584 TGTGTCTTGAGGAGGAAGCA 58.576 50.000 0.00 0.0 0.00 3.91 F
2689 3939 0.106708 TCCGCTGTTGCAGTTTCTCT 59.893 50.000 0.00 0.0 39.64 3.10 F
2976 4226 0.400594 GCCCCAGTCACTAACCTTGT 59.599 55.000 0.00 0.0 0.00 3.16 F
3057 4307 1.643310 TGATTGGCTTGGGGGAAAAG 58.357 50.000 0.00 0.0 0.00 2.27 F
4215 5476 2.162681 GTTCAGCCACCTAAGCACATT 58.837 47.619 0.00 0.0 0.00 2.71 F
5692 7091 1.135083 CACTACTAGTTCCTGGTGGCG 60.135 57.143 0.00 0.0 27.41 5.69 F
6668 8095 0.172578 CTCATCAGTAACCGACGGCA 59.827 55.000 15.39 0.0 0.00 5.69 F
7425 8886 1.106285 GAATTGGGCTTGCGGATTCT 58.894 50.000 0.00 0.0 0.00 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1633 2881 0.251916 TGTAAGAATCAGGCCACCCG 59.748 55.000 5.01 0.00 35.76 5.28 R
2688 3938 0.385223 GCAAACTCGACAAGCTGCAG 60.385 55.000 10.11 10.11 37.19 4.41 R
2689 3939 0.815213 AGCAAACTCGACAAGCTGCA 60.815 50.000 1.02 0.00 38.84 4.41 R
3442 4700 2.191400 AGAGATTCAGGGCTTACAGCA 58.809 47.619 0.00 0.00 44.75 4.41 R
3957 5217 0.325933 TAAGTCCACATGCAGCAGCT 59.674 50.000 0.00 0.00 42.74 4.24 R
4873 6269 0.040067 CGCCAAGAACAGGTTTGCTC 60.040 55.000 0.00 0.00 0.00 4.26 R
4891 6287 1.735920 GCAGACAGACCACTCAGCG 60.736 63.158 0.00 0.00 0.00 5.18 R
5786 7210 0.175989 GTCACTAGGTAGCAGGGTGC 59.824 60.000 0.00 0.00 45.46 5.01 R
7449 8911 0.111253 GATCCTCCAAATCCGGCCAT 59.889 55.000 2.24 0.00 0.00 4.40 R
8386 9883 1.512926 CAGTTACGCTGGCTTCAACT 58.487 50.000 0.00 0.00 41.42 3.16 R
8972 10516 0.317854 GCAAGGTGTTGAGAAACCGC 60.318 55.000 0.00 0.00 41.61 5.68 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
48 49 1.489230 AGGCAACCCCGGTATTAGAAG 59.511 52.381 0.00 0.00 39.21 2.85
179 180 1.978542 CTCGACCGGTTTAGAGTGTG 58.021 55.000 9.42 0.00 0.00 3.82
181 182 0.316204 CGACCGGTTTAGAGTGTGGT 59.684 55.000 9.42 0.00 0.00 4.16
286 293 8.655092 GTGATTTGAAAATGTTCACAAACTCAA 58.345 29.630 0.00 0.00 43.52 3.02
327 334 9.449719 TTTACAAAAAGGGTGCAAATAGAAAAA 57.550 25.926 0.00 0.00 0.00 1.94
370 1596 6.636454 ATTTGTAGACTGTCCCAGGATTTA 57.364 37.500 3.76 0.00 35.51 1.40
462 1688 9.145865 TGTTTCCAGAATTTAAAAAGTGTTCAC 57.854 29.630 0.00 0.00 0.00 3.18
600 1826 5.694006 GTCAGAGGAATTGATACAAGATCGG 59.306 44.000 0.00 0.00 0.00 4.18
607 1833 5.623956 ATTGATACAAGATCGGGTGGTAA 57.376 39.130 2.98 0.00 0.00 2.85
793 2019 4.759183 GCCATATGATCCCTGTTCTTTCTC 59.241 45.833 3.65 0.00 0.00 2.87
797 2023 2.233922 TGATCCCTGTTCTTTCTCGTCC 59.766 50.000 0.00 0.00 0.00 4.79
901 2136 3.676291 ACAAGCAGAAGACTCTTCCTC 57.324 47.619 14.19 7.31 0.00 3.71
917 2152 1.373497 CTCTCCGTGCCACTGACAC 60.373 63.158 0.00 0.00 34.62 3.67
929 2164 3.850098 CTGACACAGGGCCCCACAC 62.850 68.421 21.43 7.43 0.00 3.82
992 2228 0.690762 TTTCTTCTTCCCCACTCCGG 59.309 55.000 0.00 0.00 0.00 5.14
1378 2623 2.125269 CGGGATCGCGGGTTTTCT 60.125 61.111 23.27 0.00 0.00 2.52
1385 2630 2.975799 GCGGGTTTTCTGCCGTGA 60.976 61.111 0.00 0.00 41.83 4.35
1387 2633 1.022451 GCGGGTTTTCTGCCGTGATA 61.022 55.000 0.00 0.00 41.83 2.15
1406 2652 6.629068 CGTGATATTGATCCCCTATTCTCTGG 60.629 46.154 0.00 0.00 0.00 3.86
1407 2653 6.214412 GTGATATTGATCCCCTATTCTCTGGT 59.786 42.308 0.00 0.00 0.00 4.00
1445 2691 3.196473 CGAGATCGAGGGCTATGTAGCT 61.196 54.545 11.45 0.00 44.65 3.32
1591 2837 5.288472 GCTTTGGGTTCGTAATTGCTATTTG 59.712 40.000 0.00 0.00 0.00 2.32
1614 2860 9.577110 TTTGCTCTAATTGAATTGATTGCTTAG 57.423 29.630 0.00 0.00 0.00 2.18
1633 2881 8.475331 TGCTTAGTACTACAACTTTAGCATTC 57.525 34.615 15.78 0.00 39.23 2.67
1646 2894 1.754234 GCATTCGGGTGGCCTGATT 60.754 57.895 3.32 0.00 38.86 2.57
1851 3099 6.605594 TCCTTTATTTTTCACTTGAGGTGTGT 59.394 34.615 0.00 0.00 45.50 3.72
1906 3154 5.641209 CAGTAAATGTGTCTTGAGGAGGAAG 59.359 44.000 0.00 0.00 0.00 3.46
1908 3156 1.423584 TGTGTCTTGAGGAGGAAGCA 58.576 50.000 0.00 0.00 0.00 3.91
1965 3213 3.855950 GCTATTGATTGAAGTGTTGCAGC 59.144 43.478 0.00 0.00 0.00 5.25
2142 3390 3.895704 ACTGTTGGGGGTCTTGTAAAT 57.104 42.857 0.00 0.00 0.00 1.40
2216 3464 6.810911 TGCTAAGTTTTGCATTCACCTTTAA 58.189 32.000 0.00 0.00 34.17 1.52
2250 3498 9.778741 TGGAACTCCAATATGCTAAATAACTAG 57.221 33.333 0.00 0.00 44.35 2.57
2264 3512 7.009357 GCTAAATAACTAGTTCCTCTGTTCACG 59.991 40.741 12.39 0.00 0.00 4.35
2333 3581 7.015226 TGAAATGAGTGAACAAACACAGTAG 57.985 36.000 0.00 0.00 42.45 2.57
2688 3938 0.514691 CTCCGCTGTTGCAGTTTCTC 59.485 55.000 0.00 0.00 39.64 2.87
2689 3939 0.106708 TCCGCTGTTGCAGTTTCTCT 59.893 50.000 0.00 0.00 39.64 3.10
2705 3955 1.069204 TCTCTGCAGCTTGTCGAGTTT 59.931 47.619 9.47 0.00 0.00 2.66
2787 4037 4.251268 GTGGTAACTTGGCGTCTATTCTT 58.749 43.478 0.00 0.00 37.61 2.52
2788 4038 5.047164 TGTGGTAACTTGGCGTCTATTCTTA 60.047 40.000 0.00 0.00 37.61 2.10
2975 4225 0.693049 AGCCCCAGTCACTAACCTTG 59.307 55.000 0.00 0.00 0.00 3.61
2976 4226 0.400594 GCCCCAGTCACTAACCTTGT 59.599 55.000 0.00 0.00 0.00 3.16
3029 4279 5.476950 TCCTTGTGTCCTACCCTATAAGA 57.523 43.478 0.00 0.00 0.00 2.10
3057 4307 1.643310 TGATTGGCTTGGGGGAAAAG 58.357 50.000 0.00 0.00 0.00 2.27
3120 4370 3.278574 TGAGTTCCTGAATAATTGGCCG 58.721 45.455 0.00 0.00 0.00 6.13
3180 4430 8.846211 GCACTCTTATATCTATGATACTCCCTC 58.154 40.741 0.00 0.00 0.00 4.30
3183 4433 8.660681 TCTTATATCTATGATACTCCCTCCCT 57.339 38.462 0.00 0.00 0.00 4.20
3309 4559 5.973565 GCCTTGTGATACTTTTATCATGCAC 59.026 40.000 0.00 0.00 44.77 4.57
3442 4700 6.567050 GTTCATATTCCACATGCAAACTGAT 58.433 36.000 0.00 0.00 0.00 2.90
3736 4996 6.718454 ACATCTGAAGGCCTTATGATTAATGG 59.282 38.462 26.51 17.61 0.00 3.16
3760 5020 7.451255 TGGCCCATCTTTACAAAATATCATAGG 59.549 37.037 0.00 0.00 0.00 2.57
3856 5116 7.725251 TGCTTTGTTTTTCTCAGTTGGATATT 58.275 30.769 0.00 0.00 0.00 1.28
3957 5217 2.637382 TGTTGGAGATGCTCTGTTACCA 59.363 45.455 0.00 0.00 0.00 3.25
4130 5391 9.725019 TCTATATTTCTTAAATGCATCGGTGAT 57.275 29.630 0.00 0.00 32.38 3.06
4133 5394 6.757897 TTTCTTAAATGCATCGGTGATTCT 57.242 33.333 0.00 0.00 0.00 2.40
4134 5395 5.991328 TCTTAAATGCATCGGTGATTCTC 57.009 39.130 0.00 0.00 0.00 2.87
4215 5476 2.162681 GTTCAGCCACCTAAGCACATT 58.837 47.619 0.00 0.00 0.00 2.71
4389 5650 6.295462 CCTGGTGAAATCAAATGATGAAACCT 60.295 38.462 16.35 0.00 42.54 3.50
4582 5844 9.291664 CTGAATTAACGAGTAAAGAAGTCCTAG 57.708 37.037 0.00 0.00 0.00 3.02
4746 6135 8.943909 ATTGTACCTTACACATTCTAGTTAGC 57.056 34.615 0.00 0.00 38.63 3.09
4873 6269 9.081204 TGTGATAATTGATTCCATGGGATTAAG 57.919 33.333 15.06 0.00 0.00 1.85
4886 6282 4.079253 TGGGATTAAGAGCAAACCTGTTC 58.921 43.478 0.00 0.00 33.20 3.18
4891 6287 1.322442 AGAGCAAACCTGTTCTTGGC 58.678 50.000 0.00 0.00 39.90 4.52
4972 6368 7.391148 TTTTCCAGCAATCAGTTAGATTACC 57.609 36.000 0.00 0.00 45.06 2.85
5501 6900 5.472137 TGGTTTGACTACTGTTTTGGCTATC 59.528 40.000 0.00 0.00 0.00 2.08
5575 6974 2.391879 GTCCGTTATAAGCAGCTACCG 58.608 52.381 0.00 0.00 0.00 4.02
5631 7030 5.048083 TGACCATCAGAGTTATTTGTTTGGC 60.048 40.000 0.00 0.00 0.00 4.52
5692 7091 1.135083 CACTACTAGTTCCTGGTGGCG 60.135 57.143 0.00 0.00 27.41 5.69
5800 7224 3.467226 GGCGCACCCTGCTACCTA 61.467 66.667 10.83 0.00 42.25 3.08
5801 7225 2.107141 GCGCACCCTGCTACCTAG 59.893 66.667 0.30 0.00 42.25 3.02
5802 7226 2.722201 GCGCACCCTGCTACCTAGT 61.722 63.158 0.30 0.00 42.25 2.57
5803 7227 1.141881 CGCACCCTGCTACCTAGTG 59.858 63.158 0.00 0.00 42.25 2.74
5804 7228 1.320344 CGCACCCTGCTACCTAGTGA 61.320 60.000 0.00 0.00 42.25 3.41
5805 7229 0.175989 GCACCCTGCTACCTAGTGAC 59.824 60.000 0.00 0.00 40.96 3.67
5806 7230 1.853963 CACCCTGCTACCTAGTGACT 58.146 55.000 0.00 0.00 0.00 3.41
5807 7231 1.751924 CACCCTGCTACCTAGTGACTC 59.248 57.143 0.00 0.00 0.00 3.36
5808 7232 1.641714 ACCCTGCTACCTAGTGACTCT 59.358 52.381 0.00 0.00 0.00 3.24
5809 7233 2.043252 ACCCTGCTACCTAGTGACTCTT 59.957 50.000 0.00 0.00 0.00 2.85
5810 7234 2.428890 CCCTGCTACCTAGTGACTCTTG 59.571 54.545 0.00 0.00 0.00 3.02
5811 7235 2.428890 CCTGCTACCTAGTGACTCTTGG 59.571 54.545 0.00 3.82 43.06 3.61
5855 7279 6.595682 ACATGGACTGGATTATGTTAAGGAG 58.404 40.000 0.00 0.00 30.05 3.69
6029 7453 2.483877 ACACATTGTGTCACCATAAGCG 59.516 45.455 16.62 0.00 43.92 4.68
6052 7476 9.685828 AGCGTTCATGCTAAATTTAAAAGTTTA 57.314 25.926 0.00 0.00 45.14 2.01
6438 7863 4.560128 TCTTCGTGCTATCTTGGATATGC 58.440 43.478 0.00 0.00 0.00 3.14
6488 7913 0.523072 CATCCAAGTTGGCACTTCCG 59.477 55.000 17.68 0.00 41.69 4.30
6664 8091 1.135489 TCGCACTCATCAGTAACCGAC 60.135 52.381 0.00 0.00 0.00 4.79
6668 8095 0.172578 CTCATCAGTAACCGACGGCA 59.827 55.000 15.39 0.00 0.00 5.69
6822 8250 2.662596 GGCTGTCCATGGTGACGA 59.337 61.111 12.58 0.00 38.11 4.20
7385 8846 2.200337 GGAGCCTGCAAAAACGGGT 61.200 57.895 0.00 0.00 38.45 5.28
7399 8860 3.905249 GGGTGAAATCCCGCAGAC 58.095 61.111 0.00 0.00 37.93 3.51
7416 8877 1.642762 AGACATGGAGGAATTGGGCTT 59.357 47.619 0.00 0.00 0.00 4.35
7425 8886 1.106285 GAATTGGGCTTGCGGATTCT 58.894 50.000 0.00 0.00 0.00 2.40
7426 8887 2.297701 GAATTGGGCTTGCGGATTCTA 58.702 47.619 0.00 0.00 0.00 2.10
7434 8895 2.485479 GCTTGCGGATTCTAGATCCCAA 60.485 50.000 12.76 14.43 34.76 4.12
7522 8984 2.450609 ACCGGCGGTTATTATAGCAG 57.549 50.000 28.83 0.00 27.29 4.24
7525 8987 1.983605 CGGCGGTTATTATAGCAGACG 59.016 52.381 0.00 0.20 0.00 4.18
7781 9272 7.321908 TGTATTCAATCATGTTCATGGTTTGG 58.678 34.615 18.98 8.56 0.00 3.28
7855 9346 3.391506 AGAAAACAATGGAGCAAAGCC 57.608 42.857 0.00 0.00 0.00 4.35
7959 9450 2.294074 TGGCCGGTATGCTTTCAATAC 58.706 47.619 1.90 0.00 0.00 1.89
7976 9467 5.389520 TCAATACCATTCCCTTTGAACACA 58.610 37.500 0.00 0.00 35.31 3.72
7980 9471 4.959723 ACCATTCCCTTTGAACACAATTG 58.040 39.130 3.24 3.24 35.31 2.32
7996 9487 4.081406 ACAATTGCCTGAAATCAGCACTA 58.919 39.130 5.05 0.00 42.47 2.74
8399 9896 1.464997 GGTAAAGAGTTGAAGCCAGCG 59.535 52.381 0.00 0.00 0.00 5.18
8470 9967 8.446599 TTTCACTTTCTTTTCGAGGAAATAGT 57.553 30.769 9.53 4.54 31.34 2.12
8476 9973 6.354794 TCTTTTCGAGGAAATAGTCAGGAA 57.645 37.500 0.00 0.00 31.34 3.36
8481 9978 7.655521 TTCGAGGAAATAGTCAGGAATAGAA 57.344 36.000 0.00 0.00 0.00 2.10
8486 9983 9.651913 GAGGAAATAGTCAGGAATAGAATGATC 57.348 37.037 0.00 0.00 0.00 2.92
8587 10085 4.012374 TCAATCTCATTGGTCTTGCCTTC 58.988 43.478 0.00 0.00 40.61 3.46
8707 10205 2.330254 CGGAGCTGGAAAACTGCAA 58.670 52.632 0.00 0.00 45.49 4.08
8708 10206 0.040067 CGGAGCTGGAAAACTGCAAC 60.040 55.000 0.00 0.00 45.49 4.17
8709 10207 0.315251 GGAGCTGGAAAACTGCAACC 59.685 55.000 0.00 0.00 45.49 3.77
8710 10208 1.322442 GAGCTGGAAAACTGCAACCT 58.678 50.000 0.00 0.00 45.49 3.50
8721 10219 6.128035 GGAAAACTGCAACCTTCAAATTTTGT 60.128 34.615 8.89 0.00 0.00 2.83
8808 10311 1.884235 ACACTTGGCTTCTGTAGTGC 58.116 50.000 0.00 0.00 41.22 4.40
8809 10312 1.160137 CACTTGGCTTCTGTAGTGCC 58.840 55.000 10.19 10.19 46.26 5.01
8812 10315 4.303257 GGCTTCTGTAGTGCCACC 57.697 61.111 11.56 0.00 45.46 4.61
8813 10316 1.741770 GGCTTCTGTAGTGCCACCG 60.742 63.158 11.56 0.00 45.46 4.94
8814 10317 1.741770 GCTTCTGTAGTGCCACCGG 60.742 63.158 0.00 0.00 0.00 5.28
8815 10318 1.079127 CTTCTGTAGTGCCACCGGG 60.079 63.158 6.32 0.00 37.18 5.73
8816 10319 1.827399 CTTCTGTAGTGCCACCGGGT 61.827 60.000 6.32 0.00 36.17 5.28
8817 10320 2.047274 CTGTAGTGCCACCGGGTG 60.047 66.667 20.41 20.41 36.17 4.61
8826 10329 2.248835 CCACCGGGTGTCGTTGTTC 61.249 63.158 24.70 0.00 37.11 3.18
8827 10330 1.227438 CACCGGGTGTCGTTGTTCT 60.227 57.895 19.15 0.00 37.11 3.01
8889 10392 2.502142 TTGGCATCTTCTGAGTGCAT 57.498 45.000 11.87 0.00 40.53 3.96
8891 10394 1.558294 TGGCATCTTCTGAGTGCATCT 59.442 47.619 11.87 0.00 40.53 2.90
8918 10454 3.733443 ACTGGCAAGAAACATTCCAAC 57.267 42.857 0.00 0.00 0.00 3.77
8925 10461 4.869861 GCAAGAAACATTCCAACTGTGTTT 59.130 37.500 2.71 2.71 45.66 2.83
8985 10529 3.064207 GTGTGATAGCGGTTTCTCAACA 58.936 45.455 10.57 2.76 34.15 3.33
8990 10534 1.308998 AGCGGTTTCTCAACACCTTG 58.691 50.000 0.00 0.00 34.15 3.61
8991 10535 0.317854 GCGGTTTCTCAACACCTTGC 60.318 55.000 0.00 0.00 34.15 4.01
8992 10536 1.021202 CGGTTTCTCAACACCTTGCA 58.979 50.000 0.00 0.00 34.15 4.08
8993 10537 1.608590 CGGTTTCTCAACACCTTGCAT 59.391 47.619 0.00 0.00 34.15 3.96
8994 10538 2.605338 CGGTTTCTCAACACCTTGCATG 60.605 50.000 0.00 0.00 34.15 4.06
8995 10539 2.622942 GGTTTCTCAACACCTTGCATGA 59.377 45.455 0.00 0.00 34.15 3.07
8996 10540 3.068024 GGTTTCTCAACACCTTGCATGAA 59.932 43.478 0.00 0.00 34.15 2.57
8997 10541 3.988379 TTCTCAACACCTTGCATGAAC 57.012 42.857 0.00 0.00 0.00 3.18
8998 10542 3.213206 TCTCAACACCTTGCATGAACT 57.787 42.857 0.00 0.00 0.00 3.01
8999 10543 4.350368 TCTCAACACCTTGCATGAACTA 57.650 40.909 0.00 0.00 0.00 2.24
9000 10544 4.065088 TCTCAACACCTTGCATGAACTAC 58.935 43.478 0.00 0.00 0.00 2.73
9001 10545 3.814625 TCAACACCTTGCATGAACTACA 58.185 40.909 0.00 0.00 0.00 2.74
9078 10634 3.865477 TGGAAACGTGACCACAAGT 57.135 47.368 9.45 0.00 40.10 3.16
9130 10686 2.032987 ACGGTTCGGCGGGAAAAT 59.967 55.556 7.21 0.00 36.14 1.82
9145 10702 2.560105 GGAAAATCAGCCAGAAAGCACT 59.440 45.455 0.00 0.00 34.23 4.40
9146 10703 3.572584 GAAAATCAGCCAGAAAGCACTG 58.427 45.455 0.00 0.00 37.61 3.66
9147 10704 2.574006 AATCAGCCAGAAAGCACTGA 57.426 45.000 7.06 0.00 42.89 3.41
9148 10705 2.574006 ATCAGCCAGAAAGCACTGAA 57.426 45.000 7.06 0.00 42.08 3.02
9149 10706 1.597742 TCAGCCAGAAAGCACTGAAC 58.402 50.000 7.06 0.69 39.94 3.18
9181 10740 1.664874 CGAACGACTGAACCACGATCA 60.665 52.381 0.00 0.00 0.00 2.92
9188 10747 4.404098 AACCACGATCACCCCCGC 62.404 66.667 0.00 0.00 0.00 6.13
9195 10754 2.768344 ATCACCCCCGCGGAGAAT 60.768 61.111 30.73 13.43 34.60 2.40
9210 10769 0.598065 AGAATGCAAGGGACAAACGC 59.402 50.000 0.00 0.00 0.00 4.84
9211 10770 0.388520 GAATGCAAGGGACAAACGCC 60.389 55.000 0.00 0.00 0.00 5.68
9292 10851 1.614824 CTCCAGCTTGTCCCCTCCT 60.615 63.158 0.00 0.00 0.00 3.69
9309 10868 3.047718 CTTCCTCTGCGCGTCCGTA 62.048 63.158 8.43 0.00 36.67 4.02
9405 10973 4.442612 CCATAGATCACTTGGTCTGGAGTG 60.443 50.000 2.03 0.00 43.54 3.51
9817 11394 4.643387 GGGCACGTGCTCTGGGTT 62.643 66.667 36.84 0.00 38.82 4.11
9823 11400 3.414700 GTGCTCTGGGTTGCGTCG 61.415 66.667 0.00 0.00 0.00 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.280258 TCATCAAGAATTTATACTCCCTCCAT 57.720 34.615 0.00 0.00 0.00 3.41
1 2 7.690454 TCATCAAGAATTTATACTCCCTCCA 57.310 36.000 0.00 0.00 0.00 3.86
2 3 8.378565 TGATCATCAAGAATTTATACTCCCTCC 58.621 37.037 0.00 0.00 0.00 4.30
3 4 9.434420 CTGATCATCAAGAATTTATACTCCCTC 57.566 37.037 0.00 0.00 0.00 4.30
4 5 8.381636 CCTGATCATCAAGAATTTATACTCCCT 58.618 37.037 0.00 0.00 0.00 4.20
5 6 7.120432 GCCTGATCATCAAGAATTTATACTCCC 59.880 40.741 0.00 0.00 0.00 4.30
6 7 7.663081 TGCCTGATCATCAAGAATTTATACTCC 59.337 37.037 0.00 0.00 0.00 3.85
7 8 8.613060 TGCCTGATCATCAAGAATTTATACTC 57.387 34.615 0.00 0.00 0.00 2.59
8 9 8.844244 GTTGCCTGATCATCAAGAATTTATACT 58.156 33.333 9.88 0.00 0.00 2.12
9 10 8.078596 GGTTGCCTGATCATCAAGAATTTATAC 58.921 37.037 9.88 0.00 0.00 1.47
260 261 8.183830 TGAGTTTGTGAACATTTTCAAATCAC 57.816 30.769 0.00 0.00 43.52 3.06
305 312 7.929159 ACATTTTTCTATTTGCACCCTTTTTG 58.071 30.769 0.00 0.00 0.00 2.44
455 1681 7.136119 TCTGGATTTTACAAATTCGTGAACAC 58.864 34.615 0.00 0.00 0.00 3.32
558 1784 3.979948 TGACCACTGTCGTCGAATAAAA 58.020 40.909 0.00 0.00 44.86 1.52
607 1833 3.244875 TGGTAGACATGTGTGGCTTGATT 60.245 43.478 1.15 0.00 42.57 2.57
765 1991 2.933364 ACAGGGATCATATGGCCCATA 58.067 47.619 26.44 5.78 44.55 2.74
777 2003 2.735762 CGGACGAGAAAGAACAGGGATC 60.736 54.545 0.00 0.00 0.00 3.36
833 2060 0.741915 GACACGGGCCTTGTTTTCAA 59.258 50.000 17.53 0.00 38.21 2.69
887 2122 2.442413 CACGGAGAGGAAGAGTCTTCT 58.558 52.381 27.68 16.21 42.60 2.85
901 2136 1.665916 CTGTGTCAGTGGCACGGAG 60.666 63.158 29.07 15.14 43.78 4.63
992 2228 1.407258 AGTACTGCTCGAGAATCAGCC 59.593 52.381 18.75 8.40 38.10 4.85
1378 2623 1.434188 AGGGGATCAATATCACGGCA 58.566 50.000 0.00 0.00 36.27 5.69
1385 2630 6.070538 CGAACCAGAGAATAGGGGATCAATAT 60.071 42.308 0.00 0.00 0.00 1.28
1387 2633 4.040952 CGAACCAGAGAATAGGGGATCAAT 59.959 45.833 0.00 0.00 0.00 2.57
1535 2781 2.680352 ACTGTCCTCCCGACGCAT 60.680 61.111 0.00 0.00 45.23 4.73
1591 2837 9.657121 GTACTAAGCAATCAATTCAATTAGAGC 57.343 33.333 0.00 0.00 0.00 4.09
1614 2860 5.063060 CACCCGAATGCTAAAGTTGTAGTAC 59.937 44.000 0.00 0.00 0.00 2.73
1633 2881 0.251916 TGTAAGAATCAGGCCACCCG 59.748 55.000 5.01 0.00 35.76 5.28
1698 2946 7.600752 AGACAACAGATCTTCTAAAACAGCTAC 59.399 37.037 0.00 0.00 0.00 3.58
1906 3154 3.928375 CCCAATTTGAGCAAGTTATGTGC 59.072 43.478 0.00 0.00 42.55 4.57
1908 3156 4.021192 CCACCCAATTTGAGCAAGTTATGT 60.021 41.667 0.00 0.00 0.00 2.29
1965 3213 5.508489 CCATTTTACTGCAATCATAGGCCTG 60.508 44.000 17.99 0.00 0.00 4.85
2250 3498 7.707035 ACATCTTATATTCGTGAACAGAGGAAC 59.293 37.037 0.00 0.00 0.00 3.62
2299 3547 6.475504 TGTTCACTCATTTCAGTCCATATGT 58.524 36.000 1.24 0.00 0.00 2.29
2333 3581 6.923508 TGAATCGGATGTACATAGACATGTTC 59.076 38.462 8.71 11.60 42.98 3.18
2600 3850 5.508200 TTGGTGTTCCACAGTGTAAATTC 57.492 39.130 0.00 0.00 44.22 2.17
2688 3938 0.385223 GCAAACTCGACAAGCTGCAG 60.385 55.000 10.11 10.11 37.19 4.41
2689 3939 0.815213 AGCAAACTCGACAAGCTGCA 60.815 50.000 1.02 0.00 38.84 4.41
2705 3955 9.131791 AGTCTTTTTAGAAAAATACCAAGAGCA 57.868 29.630 10.62 0.00 36.32 4.26
2959 4209 2.930826 ACACAAGGTTAGTGACTGGG 57.069 50.000 0.00 0.00 40.16 4.45
2975 4225 5.432885 AAACACAACCATGCTAACTACAC 57.567 39.130 0.00 0.00 0.00 2.90
2976 4226 6.203915 CAGTAAACACAACCATGCTAACTACA 59.796 38.462 0.00 0.00 0.00 2.74
3120 4370 4.038642 TGGTAAAAACAAATGCAGGGAGAC 59.961 41.667 0.00 0.00 0.00 3.36
3309 4559 9.901724 GTGATTGAACACATACTAAGATAAACG 57.098 33.333 0.00 0.00 40.11 3.60
3442 4700 2.191400 AGAGATTCAGGGCTTACAGCA 58.809 47.619 0.00 0.00 44.75 4.41
3736 4996 8.635765 TCCTATGATATTTTGTAAAGATGGGC 57.364 34.615 0.00 0.00 0.00 5.36
3760 5020 9.515226 AGACTGGTCTTCTAATCTATAGTCATC 57.485 37.037 0.00 0.00 36.31 2.92
3957 5217 0.325933 TAAGTCCACATGCAGCAGCT 59.674 50.000 0.00 0.00 42.74 4.24
4425 5686 4.959596 TCAAGGTCGTGACTCAGTATAC 57.040 45.455 0.00 0.00 0.00 1.47
4582 5844 4.630111 TGGCATGTCAAAGAATTCAAACC 58.370 39.130 8.44 0.00 0.00 3.27
4662 5924 1.855295 TAACACCGATGGCTGGACTA 58.145 50.000 0.00 0.00 0.00 2.59
4746 6135 8.458573 ACACTATTCTTACTAGGATCTCACAG 57.541 38.462 0.00 0.00 0.00 3.66
4873 6269 0.040067 CGCCAAGAACAGGTTTGCTC 60.040 55.000 0.00 0.00 0.00 4.26
4886 6282 2.031516 CAGACCACTCAGCGCCAAG 61.032 63.158 2.29 4.06 0.00 3.61
4891 6287 1.735920 GCAGACAGACCACTCAGCG 60.736 63.158 0.00 0.00 0.00 5.18
4972 6368 7.052142 AGACTTATATTTAGGAACGGAGGTG 57.948 40.000 0.00 0.00 0.00 4.00
5049 6448 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
5114 6513 0.969409 AAGGTACTCCCTCCGTTCCG 60.969 60.000 0.00 0.00 45.47 4.30
5154 6553 4.589908 ACATCAACCCCTTGAATACTGTC 58.410 43.478 0.00 0.00 39.90 3.51
5501 6900 2.959516 TGCAACTGTGAGGAATAGTCG 58.040 47.619 0.00 0.00 28.50 4.18
5631 7030 4.142403 ACACAGATTGTTGTTGTCCAAGTG 60.142 41.667 0.00 0.00 33.09 3.16
5657 7056 0.902531 TAGTGCCTGGTTGGTCTAGC 59.097 55.000 0.00 0.00 38.35 3.42
5692 7091 5.295045 TCTGGGTCGTTCTTCTTTAAACAAC 59.705 40.000 0.00 0.00 0.00 3.32
5786 7210 0.175989 GTCACTAGGTAGCAGGGTGC 59.824 60.000 0.00 0.00 45.46 5.01
5787 7211 1.751924 GAGTCACTAGGTAGCAGGGTG 59.248 57.143 0.00 0.35 0.00 4.61
5788 7212 1.641714 AGAGTCACTAGGTAGCAGGGT 59.358 52.381 0.00 0.00 0.00 4.34
5789 7213 2.428890 CAAGAGTCACTAGGTAGCAGGG 59.571 54.545 0.00 0.00 0.00 4.45
5790 7214 2.428890 CCAAGAGTCACTAGGTAGCAGG 59.571 54.545 0.00 0.00 0.00 4.85
5791 7215 3.093057 ACCAAGAGTCACTAGGTAGCAG 58.907 50.000 0.00 0.00 0.00 4.24
5792 7216 3.170991 ACCAAGAGTCACTAGGTAGCA 57.829 47.619 0.00 0.00 0.00 3.49
5793 7217 3.510360 TGAACCAAGAGTCACTAGGTAGC 59.490 47.826 0.00 0.00 31.10 3.58
5794 7218 4.523173 TGTGAACCAAGAGTCACTAGGTAG 59.477 45.833 5.49 0.00 34.51 3.18
5795 7219 4.476297 TGTGAACCAAGAGTCACTAGGTA 58.524 43.478 5.49 0.00 34.51 3.08
5796 7220 3.305720 TGTGAACCAAGAGTCACTAGGT 58.694 45.455 5.49 0.00 34.51 3.08
5797 7221 4.058817 GTTGTGAACCAAGAGTCACTAGG 58.941 47.826 5.49 0.00 32.51 3.02
5798 7222 4.693283 TGTTGTGAACCAAGAGTCACTAG 58.307 43.478 5.49 0.00 32.51 2.57
5799 7223 4.746535 TGTTGTGAACCAAGAGTCACTA 57.253 40.909 5.49 0.00 32.51 2.74
5800 7224 3.627395 TGTTGTGAACCAAGAGTCACT 57.373 42.857 5.49 0.00 32.51 3.41
5801 7225 3.181500 GGTTGTTGTGAACCAAGAGTCAC 60.181 47.826 0.00 0.00 44.34 3.67
5802 7226 3.013921 GGTTGTTGTGAACCAAGAGTCA 58.986 45.455 0.00 0.00 44.34 3.41
5803 7227 3.279434 AGGTTGTTGTGAACCAAGAGTC 58.721 45.455 0.00 0.00 46.94 3.36
5804 7228 3.366052 AGGTTGTTGTGAACCAAGAGT 57.634 42.857 0.00 0.00 46.94 3.24
5805 7229 5.765182 AGAATAGGTTGTTGTGAACCAAGAG 59.235 40.000 0.00 0.00 46.94 2.85
5806 7230 5.690865 AGAATAGGTTGTTGTGAACCAAGA 58.309 37.500 0.00 0.00 46.94 3.02
5807 7231 6.391227 AAGAATAGGTTGTTGTGAACCAAG 57.609 37.500 0.00 0.00 46.94 3.61
5808 7232 6.829298 TGTAAGAATAGGTTGTTGTGAACCAA 59.171 34.615 0.00 0.00 46.94 3.67
5809 7233 6.358178 TGTAAGAATAGGTTGTTGTGAACCA 58.642 36.000 0.00 0.00 46.94 3.67
5810 7234 6.870971 TGTAAGAATAGGTTGTTGTGAACC 57.129 37.500 0.00 0.00 45.16 3.62
5811 7235 7.174253 TCCATGTAAGAATAGGTTGTTGTGAAC 59.826 37.037 0.00 0.00 0.00 3.18
5855 7279 5.545588 TGCATAGAAAGATCCACTATCAGC 58.454 41.667 0.00 0.00 37.03 4.26
6052 7476 3.790126 ACCCTTAATTCAAGCCAATGGT 58.210 40.909 0.00 0.00 32.41 3.55
6438 7863 4.524316 TTTGTTCTTGGATGGCTGAATG 57.476 40.909 0.00 0.00 0.00 2.67
6488 7913 4.332543 TCAACATCACGATCAATTACTGGC 59.667 41.667 0.00 0.00 0.00 4.85
6664 8091 3.427528 GCTATGATGCATCAAAATTGCCG 59.572 43.478 31.79 14.66 40.69 5.69
6668 8095 9.656040 TTTAAACAGCTATGATGCATCAAAATT 57.344 25.926 31.79 18.40 40.69 1.82
6708 8135 8.079203 AGCAACAAAATGTCAACATATCGTTAA 58.921 29.630 0.00 0.00 35.52 2.01
6865 8293 4.888325 CGAGCCCATCCCCTCCCT 62.888 72.222 0.00 0.00 0.00 4.20
7360 8821 0.831711 TTTTGCAGGCTCCCCTTTCC 60.832 55.000 0.00 0.00 40.33 3.13
7385 8846 0.617935 TCCATGTCTGCGGGATTTCA 59.382 50.000 0.00 0.00 0.00 2.69
7394 8855 1.396653 CCCAATTCCTCCATGTCTGC 58.603 55.000 0.00 0.00 0.00 4.26
7399 8860 0.462789 GCAAGCCCAATTCCTCCATG 59.537 55.000 0.00 0.00 0.00 3.66
7416 8877 3.924114 TTTTGGGATCTAGAATCCGCA 57.076 42.857 0.00 1.23 39.07 5.69
7449 8911 0.111253 GATCCTCCAAATCCGGCCAT 59.889 55.000 2.24 0.00 0.00 4.40
7450 8912 0.988145 AGATCCTCCAAATCCGGCCA 60.988 55.000 2.24 0.00 0.00 5.36
7755 9246 7.982919 CCAAACCATGAACATGATTGAATACAT 59.017 33.333 22.21 0.00 41.20 2.29
7855 9346 3.221771 TGCCCCGGAATAGAATTCAATG 58.778 45.455 0.73 0.00 0.00 2.82
7959 9450 3.747529 GCAATTGTGTTCAAAGGGAATGG 59.252 43.478 7.40 0.00 37.93 3.16
7976 9467 4.951715 TGATAGTGCTGATTTCAGGCAATT 59.048 37.500 9.49 3.72 43.94 2.32
7980 9471 3.243002 GCTTGATAGTGCTGATTTCAGGC 60.243 47.826 9.49 3.04 43.94 4.85
7996 9487 6.222038 AGATTCAAAATGCATGAGCTTGAT 57.778 33.333 0.00 0.00 42.74 2.57
8057 9548 3.259123 CCTTTTTATCCAACAGCAAGGCT 59.741 43.478 0.00 0.00 40.77 4.58
8063 9554 5.709966 CCACTTACCTTTTTATCCAACAGC 58.290 41.667 0.00 0.00 0.00 4.40
8161 9653 6.260493 AGCAGCATAGAGAAGAAATGTGAATC 59.740 38.462 0.00 0.00 0.00 2.52
8374 9871 3.149981 GGCTTCAACTCTTTACCAGCTT 58.850 45.455 0.00 0.00 0.00 3.74
8375 9872 2.106511 TGGCTTCAACTCTTTACCAGCT 59.893 45.455 0.00 0.00 0.00 4.24
8386 9883 1.512926 CAGTTACGCTGGCTTCAACT 58.487 50.000 0.00 0.00 41.42 3.16
8587 10085 2.093306 TGCCTGAAATCTGTACACGG 57.907 50.000 0.00 0.00 0.00 4.94
8700 10198 5.486526 TCACAAAATTTGAAGGTTGCAGTT 58.513 33.333 13.19 0.00 0.00 3.16
8701 10199 5.083533 TCACAAAATTTGAAGGTTGCAGT 57.916 34.783 13.19 0.00 0.00 4.40
8703 10201 5.668471 TGATCACAAAATTTGAAGGTTGCA 58.332 33.333 13.19 0.00 0.00 4.08
8704 10202 6.601741 TTGATCACAAAATTTGAAGGTTGC 57.398 33.333 13.19 0.00 32.73 4.17
8705 10203 8.200364 AGTTTGATCACAAAATTTGAAGGTTG 57.800 30.769 13.19 0.00 45.65 3.77
8707 10205 8.695456 ACTAGTTTGATCACAAAATTTGAAGGT 58.305 29.630 13.19 0.58 45.65 3.50
8708 10206 9.185192 GACTAGTTTGATCACAAAATTTGAAGG 57.815 33.333 13.19 1.97 45.65 3.46
8709 10207 9.956720 AGACTAGTTTGATCACAAAATTTGAAG 57.043 29.630 13.19 4.80 45.65 3.02
8710 10208 9.734620 CAGACTAGTTTGATCACAAAATTTGAA 57.265 29.630 13.19 0.49 45.65 2.69
8721 10219 8.647796 TCTTTCCTTTACAGACTAGTTTGATCA 58.352 33.333 19.53 0.00 0.00 2.92
8766 10268 2.158449 CAGTGTCTTGCGACCAATTCTC 59.842 50.000 0.00 0.00 39.47 2.87
8810 10313 1.068585 GAGAACAACGACACCCGGT 59.931 57.895 0.00 0.00 43.93 5.28
8811 10314 2.019951 CGAGAACAACGACACCCGG 61.020 63.158 0.00 0.00 43.93 5.73
8812 10315 0.872881 AACGAGAACAACGACACCCG 60.873 55.000 0.00 0.00 45.44 5.28
8813 10316 1.259770 GAAACGAGAACAACGACACCC 59.740 52.381 0.00 0.00 34.70 4.61
8814 10317 1.928503 TGAAACGAGAACAACGACACC 59.071 47.619 0.00 0.00 34.70 4.16
8815 10318 3.854286 ATGAAACGAGAACAACGACAC 57.146 42.857 0.00 0.00 34.70 3.67
8816 10319 5.970140 TTTATGAAACGAGAACAACGACA 57.030 34.783 0.00 0.00 34.70 4.35
8817 10320 7.067116 TCAATTTATGAAACGAGAACAACGAC 58.933 34.615 0.00 0.00 34.30 4.34
8857 10360 5.741388 AAGATGCCAATATCTTCACGAAC 57.259 39.130 0.00 0.00 42.22 3.95
8889 10392 3.761218 TGTTTCTTGCCAGTTGTTTCAGA 59.239 39.130 0.00 0.00 0.00 3.27
8891 10394 4.734398 ATGTTTCTTGCCAGTTGTTTCA 57.266 36.364 0.00 0.00 0.00 2.69
8918 10454 1.392589 ACAGCCTCAACCAAACACAG 58.607 50.000 0.00 0.00 0.00 3.66
8925 10461 5.652891 TGTAAAAGTTTTACAGCCTCAACCA 59.347 36.000 28.98 9.60 31.86 3.67
8972 10516 0.317854 GCAAGGTGTTGAGAAACCGC 60.318 55.000 0.00 0.00 41.61 5.68
8985 10529 5.165961 ACATACTGTAGTTCATGCAAGGT 57.834 39.130 0.00 0.00 0.00 3.50
8990 10534 6.338146 TCTTGGTACATACTGTAGTTCATGC 58.662 40.000 0.00 0.00 39.30 4.06
8991 10535 8.771920 TTTCTTGGTACATACTGTAGTTCATG 57.228 34.615 0.00 0.00 39.30 3.07
8992 10536 9.959721 AATTTCTTGGTACATACTGTAGTTCAT 57.040 29.630 0.00 0.00 39.30 2.57
8993 10537 9.431887 GAATTTCTTGGTACATACTGTAGTTCA 57.568 33.333 0.00 0.00 39.30 3.18
8994 10538 9.654663 AGAATTTCTTGGTACATACTGTAGTTC 57.345 33.333 0.00 0.00 39.30 3.01
9000 10544 9.755064 CGTTTTAGAATTTCTTGGTACATACTG 57.245 33.333 3.86 0.00 39.30 2.74
9001 10545 9.715121 TCGTTTTAGAATTTCTTGGTACATACT 57.285 29.630 3.86 0.00 39.30 2.12
9061 10617 1.658994 TCACTTGTGGTCACGTTTCC 58.341 50.000 0.64 0.00 0.00 3.13
9078 10634 4.346709 TGGTGTTCAGTGACTTATCCTTCA 59.653 41.667 0.00 0.00 0.00 3.02
9130 10686 1.134128 TGTTCAGTGCTTTCTGGCTGA 60.134 47.619 0.00 0.00 36.35 4.26
9145 10702 2.126618 CGCGGCTCTACGTGTTCA 60.127 61.111 0.00 0.00 39.35 3.18
9146 10703 1.443194 TTCGCGGCTCTACGTGTTC 60.443 57.895 6.13 0.00 44.13 3.18
9147 10704 1.731969 GTTCGCGGCTCTACGTGTT 60.732 57.895 6.13 0.00 44.13 3.32
9148 10705 2.126580 GTTCGCGGCTCTACGTGT 60.127 61.111 6.13 0.00 44.13 4.49
9149 10706 3.238241 CGTTCGCGGCTCTACGTG 61.238 66.667 6.13 0.00 45.04 4.49
9188 10747 1.200020 GTTTGTCCCTTGCATTCTCCG 59.800 52.381 0.00 0.00 0.00 4.63
9195 10754 2.909965 GGGCGTTTGTCCCTTGCA 60.910 61.111 0.00 0.00 40.66 4.08
9236 10795 2.250939 TCGGTGCAGTTTGCTTCGG 61.251 57.895 13.25 7.13 45.31 4.30
9280 10839 0.908198 CAGAGGAAGGAGGGGACAAG 59.092 60.000 0.00 0.00 0.00 3.16
9292 10851 2.412323 ATACGGACGCGCAGAGGAA 61.412 57.895 5.73 0.00 0.00 3.36
9334 10893 1.741706 CTTATCCAAGCCACTGCACAG 59.258 52.381 0.00 0.00 41.13 3.66
9377 10945 1.846439 ACCAAGTGATCTATGGGGTGG 59.154 52.381 13.97 6.00 38.58 4.61
9405 10973 0.681243 GATCACCCAGGGAAACAGCC 60.681 60.000 14.54 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.