Multiple sequence alignment - TraesCS7A01G135400

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 TraesCS7A01G135400 chr7A 100.000 5054 0 0 1 5054 88324091 88319038 0.000000e+00 9334.0
1 TraesCS7A01G135400 chr7A 95.371 2549 85 10 1 2521 88442293 88439750 0.000000e+00 4023.0
2 TraesCS7A01G135400 chr7A 91.857 2542 165 11 1 2521 88128040 88125520 0.000000e+00 3509.0
3 TraesCS7A01G135400 chr7A 91.403 2559 167 15 1 2521 88014783 88012240 0.000000e+00 3458.0
4 TraesCS7A01G135400 chr7A 90.216 2545 185 14 1 2521 88178791 88176287 0.000000e+00 3262.0
5 TraesCS7A01G135400 chr7A 95.017 1445 59 8 3496 4937 88439740 88438306 0.000000e+00 2257.0
6 TraesCS7A01G135400 chr7A 93.910 1445 74 10 3496 4937 88012230 88010797 0.000000e+00 2169.0
7 TraesCS7A01G135400 chr7A 93.283 1444 84 9 3496 4937 88176277 88174845 0.000000e+00 2117.0
8 TraesCS7A01G135400 chr7A 93.223 1446 82 12 3496 4937 88125510 88124077 0.000000e+00 2113.0
9 TraesCS7A01G135400 chr7A 95.181 249 7 5 3253 3497 286994377 286994624 6.140000e-104 388.0
10 TraesCS7A01G135400 chr7A 97.656 128 2 1 4927 5054 88438247 88438121 8.520000e-53 219.0
11 TraesCS7A01G135400 chr7A 93.798 129 7 1 4927 5054 88174786 88174658 5.160000e-45 193.0
12 TraesCS7A01G135400 chr7A 93.023 129 8 1 4927 5054 88010738 88010610 2.400000e-43 187.0
13 TraesCS7A01G135400 chr7A 91.473 129 10 1 4927 5054 88124018 88123890 5.200000e-40 176.0
14 TraesCS7A01G135400 chr7D 94.941 2550 97 18 1 2521 87212862 87210316 0.000000e+00 3965.0
15 TraesCS7A01G135400 chr7D 92.332 2543 157 13 1 2522 86768916 86766391 0.000000e+00 3581.0
16 TraesCS7A01G135400 chr7D 91.867 2410 160 13 1 2393 86927687 86925297 0.000000e+00 3332.0
17 TraesCS7A01G135400 chr7D 92.151 2115 125 13 431 2521 86924515 86922418 0.000000e+00 2948.0
18 TraesCS7A01G135400 chr7D 89.057 2175 199 26 365 2521 86801001 86798848 0.000000e+00 2662.0
19 TraesCS7A01G135400 chr7D 87.038 2245 235 24 122 2329 86298583 86296358 0.000000e+00 2483.0
20 TraesCS7A01G135400 chr7D 95.851 1446 47 9 3496 4937 87210306 87208870 0.000000e+00 2326.0
21 TraesCS7A01G135400 chr7D 91.901 1457 97 11 3496 4937 86922408 86920958 0.000000e+00 2017.0
22 TraesCS7A01G135400 chr7D 91.742 1429 100 9 3496 4913 86766382 86764961 0.000000e+00 1969.0
23 TraesCS7A01G135400 chr7D 91.334 1454 96 12 3496 4937 86798838 86797403 0.000000e+00 1960.0
24 TraesCS7A01G135400 chr7D 92.250 800 52 8 3498 4291 86925301 86924506 0.000000e+00 1125.0
25 TraesCS7A01G135400 chr7D 98.438 128 2 0 4927 5054 87208811 87208684 5.090000e-55 226.0
26 TraesCS7A01G135400 chr7D 89.922 129 11 2 4927 5054 86294617 86294490 1.130000e-36 165.0
27 TraesCS7A01G135400 chr7D 95.122 41 1 1 83 122 86298641 86298601 4.220000e-06 63.9
28 TraesCS7A01G135400 chr7B 88.898 2567 190 35 1 2521 35513676 35511159 0.000000e+00 3073.0
29 TraesCS7A01G135400 chr7B 88.781 2362 209 26 201 2521 35313792 35311446 0.000000e+00 2843.0
30 TraesCS7A01G135400 chr7B 92.165 1455 90 12 3496 4937 35311436 35309993 0.000000e+00 2034.0
31 TraesCS7A01G135400 chr7B 99.103 223 2 0 3279 3501 669827076 669827298 7.880000e-108 401.0
32 TraesCS7A01G135400 chr7B 92.188 128 8 1 4927 5054 35509603 35509478 4.020000e-41 180.0
33 TraesCS7A01G135400 chr7B 87.597 129 6 7 4927 5054 35309934 35309815 1.900000e-29 141.0
34 TraesCS7A01G135400 chr3D 96.242 745 19 6 2522 3265 604788240 604787504 0.000000e+00 1212.0
35 TraesCS7A01G135400 chr1B 99.107 224 2 0 3274 3497 561755678 561755455 2.190000e-108 403.0
36 TraesCS7A01G135400 chr6A 99.103 223 2 0 3275 3497 552834756 552834534 7.880000e-108 401.0
37 TraesCS7A01G135400 chr6B 98.667 225 3 0 3275 3499 26081588 26081812 2.830000e-107 399.0
38 TraesCS7A01G135400 chr1A 99.099 222 2 0 3276 3497 532321283 532321504 2.830000e-107 399.0
39 TraesCS7A01G135400 chr2A 98.238 227 4 0 3279 3505 672953213 672953439 1.020000e-106 398.0
40 TraesCS7A01G135400 chr3A 97.425 233 5 1 3274 3505 728446533 728446765 3.670000e-106 396.0
41 TraesCS7A01G135400 chr3A 96.596 235 7 1 3263 3497 224325423 224325190 6.140000e-104 388.0


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 TraesCS7A01G135400 chr7A 88319038 88324091 5053 True 9334.000000 9334 100.000000 1 5054 1 chr7A.!!$R1 5053
1 TraesCS7A01G135400 chr7A 88438121 88442293 4172 True 2166.333333 4023 96.014667 1 5054 3 chr7A.!!$R5 5053
2 TraesCS7A01G135400 chr7A 88010610 88014783 4173 True 1938.000000 3458 92.778667 1 5054 3 chr7A.!!$R2 5053
3 TraesCS7A01G135400 chr7A 88123890 88128040 4150 True 1932.666667 3509 92.184333 1 5054 3 chr7A.!!$R3 5053
4 TraesCS7A01G135400 chr7A 88174658 88178791 4133 True 1857.333333 3262 92.432333 1 5054 3 chr7A.!!$R4 5053
5 TraesCS7A01G135400 chr7D 86764961 86768916 3955 True 2775.000000 3581 92.037000 1 4913 2 chr7D.!!$R2 4912
6 TraesCS7A01G135400 chr7D 86920958 86927687 6729 True 2355.500000 3332 92.042250 1 4937 4 chr7D.!!$R4 4936
7 TraesCS7A01G135400 chr7D 86797403 86801001 3598 True 2311.000000 2662 90.195500 365 4937 2 chr7D.!!$R3 4572
8 TraesCS7A01G135400 chr7D 87208684 87212862 4178 True 2172.333333 3965 96.410000 1 5054 3 chr7D.!!$R5 5053
9 TraesCS7A01G135400 chr7D 86294490 86298641 4151 True 903.966667 2483 90.694000 83 5054 3 chr7D.!!$R1 4971
10 TraesCS7A01G135400 chr7B 35309815 35313792 3977 True 1672.666667 2843 89.514333 201 5054 3 chr7B.!!$R1 4853
11 TraesCS7A01G135400 chr7B 35509478 35513676 4198 True 1626.500000 3073 90.543000 1 5054 2 chr7B.!!$R2 5053
12 TraesCS7A01G135400 chr3D 604787504 604788240 736 True 1212.000000 1212 96.242000 2522 3265 1 chr3D.!!$R1 743

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
939 3788 1.139853 CAGTCTCCATCCCCAAGCTAC 59.860 57.143 0.00 0.00 0.00 3.58 F
2751 5690 0.532640 CGGCCACTAGCATGCATGTA 60.533 55.000 26.79 16.32 46.50 2.29 F
3294 6234 0.178981 TATTACTCCCTCCGTCCGGG 60.179 60.000 0.00 0.00 43.38 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2887 5826 0.409484 ATACTTGCCCAAGGGTTGCT 59.591 50.000 12.22 0.0 42.53 3.91 R
3940 6880 0.461516 ATCATCTGCTGCTCACACCG 60.462 55.000 0.00 0.0 0.00 4.94 R
4403 7506 1.073125 TCCTGTGCTTTTTCATCGGGA 59.927 47.619 0.00 0.0 0.00 5.14 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
572 665 7.164122 AGTCTTGCATTCTAAGATGAGAACAA 58.836 34.615 0.00 0.00 38.25 2.83
598 693 2.091852 TGCATGCACACAAGATACGA 57.908 45.000 18.46 0.00 0.00 3.43
760 858 2.878406 CCACAATGTCGAGGTCAACTTT 59.122 45.455 0.00 0.00 0.00 2.66
828 926 9.909644 TGTCTTAACTATTGTTCAGTCTACTTC 57.090 33.333 0.00 0.00 37.59 3.01
908 1006 6.823689 CACACAAGAGGGCTATAAATACACTT 59.176 38.462 0.00 0.00 0.00 3.16
939 3788 1.139853 CAGTCTCCATCCCCAAGCTAC 59.860 57.143 0.00 0.00 0.00 3.58
1164 4013 5.246656 TCTCCATGCATTGTTTCCTTCAAAT 59.753 36.000 0.00 0.00 0.00 2.32
1278 4127 2.543430 CCCGCAAAACATTTTCACCTTG 59.457 45.455 0.00 0.00 0.00 3.61
1449 4308 2.040947 TGGTTGTGCAATGGAGGATACA 59.959 45.455 0.00 0.00 41.41 2.29
1583 4445 1.182667 TGGATCGACGAGGAACACAT 58.817 50.000 3.01 0.00 0.00 3.21
1649 4512 5.814314 TTGTTGTTTGTTTTCAGTGAACG 57.186 34.783 4.68 0.00 0.00 3.95
1770 4636 5.954752 TCAATTTCCATTTACAGCATGGGTA 59.045 36.000 0.00 0.00 43.62 3.69
1851 4717 2.923020 GGATTTTCATTTCGTTGCGCAT 59.077 40.909 12.75 0.00 0.00 4.73
1911 4813 4.568359 CGATGATGGTAGACAAGAACAAGG 59.432 45.833 0.00 0.00 0.00 3.61
2079 4984 6.573434 TCGACACATGATAATTAAGCTCTGT 58.427 36.000 0.00 0.00 0.00 3.41
2331 5265 9.726232 CAAACAGATCAATAACCTGTAATGATG 57.274 33.333 0.00 0.00 39.93 3.07
2463 5398 9.798994 CATATATTCTATCCAGTACCCGTAAAC 57.201 37.037 0.00 0.00 0.00 2.01
2486 5425 6.162777 ACAAAAGTAAGCATGTGTTGTTGTT 58.837 32.000 0.00 0.00 0.00 2.83
2534 5473 7.329471 GGAACTTTGCTTCTGTTGGATATTTTC 59.671 37.037 0.00 0.00 0.00 2.29
2644 5583 8.170730 CCTAATTATCTTGGGCTAATTAAGGGT 58.829 37.037 0.00 0.00 32.35 4.34
2744 5683 3.849951 CCGGTCGGCCACTAGCAT 61.850 66.667 6.96 0.00 46.50 3.79
2745 5684 2.586079 CGGTCGGCCACTAGCATG 60.586 66.667 6.96 0.00 46.50 4.06
2746 5685 2.897350 GGTCGGCCACTAGCATGC 60.897 66.667 10.51 10.51 46.50 4.06
2748 5687 1.524621 GTCGGCCACTAGCATGCAT 60.525 57.895 21.98 7.68 46.50 3.96
2749 5688 1.524393 TCGGCCACTAGCATGCATG 60.524 57.895 22.70 22.70 46.50 4.06
2751 5690 0.532640 CGGCCACTAGCATGCATGTA 60.533 55.000 26.79 16.32 46.50 2.29
2752 5691 1.879372 CGGCCACTAGCATGCATGTAT 60.879 52.381 26.79 18.18 46.50 2.29
2753 5692 1.538512 GGCCACTAGCATGCATGTATG 59.461 52.381 26.79 18.42 46.50 2.39
2754 5693 2.224606 GCCACTAGCATGCATGTATGT 58.775 47.619 26.79 18.71 42.97 2.29
2755 5694 2.031420 GCCACTAGCATGCATGTATGTG 60.031 50.000 26.79 26.41 42.97 3.21
2756 5695 3.469739 CCACTAGCATGCATGTATGTGA 58.530 45.455 30.57 11.43 0.00 3.58
2757 5696 3.878699 CCACTAGCATGCATGTATGTGAA 59.121 43.478 30.57 9.42 0.00 3.18
2758 5697 4.517832 CCACTAGCATGCATGTATGTGAAT 59.482 41.667 30.57 10.69 0.00 2.57
2759 5698 5.334646 CCACTAGCATGCATGTATGTGAATC 60.335 44.000 30.57 14.83 0.00 2.52
2760 5699 3.891056 AGCATGCATGTATGTGAATCG 57.109 42.857 26.79 0.00 0.00 3.34
2761 5700 2.551032 AGCATGCATGTATGTGAATCGG 59.449 45.455 26.79 0.00 0.00 4.18
2762 5701 2.291465 GCATGCATGTATGTGAATCGGT 59.709 45.455 26.79 0.00 0.00 4.69
2763 5702 3.850740 GCATGCATGTATGTGAATCGGTG 60.851 47.826 26.79 0.00 0.00 4.94
2764 5703 2.287769 TGCATGTATGTGAATCGGTGG 58.712 47.619 0.00 0.00 0.00 4.61
2800 5739 0.601311 AGACGTCTGTTGGCTGAAGC 60.601 55.000 19.30 0.00 41.14 3.86
2885 5824 2.607750 TGGGCAGGTGTCTCCTCC 60.608 66.667 0.00 0.00 46.24 4.30
2887 5826 2.224159 GGGCAGGTGTCTCCTCCAA 61.224 63.158 9.98 0.00 46.24 3.53
2935 5874 6.012745 ACTGGAGGATGCTTTTAGTTCATTT 58.987 36.000 0.00 0.00 0.00 2.32
2951 5890 6.038356 AGTTCATTTGCACAAGAAAGAAGTG 58.962 36.000 0.00 0.00 36.39 3.16
3152 6092 2.355310 CGAGGCTATTGTTGGTAACCCA 60.355 50.000 0.00 0.00 39.65 4.51
3177 6117 2.640473 ACCTTCTGGTGGGGACAAA 58.360 52.632 0.00 0.00 46.51 2.83
3257 6197 6.198216 CGAAACATCTCCGTCAACAAATTTTT 59.802 34.615 0.00 0.00 0.00 1.94
3258 6198 7.463469 AAACATCTCCGTCAACAAATTTTTC 57.537 32.000 0.00 0.00 0.00 2.29
3259 6199 6.391227 ACATCTCCGTCAACAAATTTTTCT 57.609 33.333 0.00 0.00 0.00 2.52
3261 6201 7.936584 ACATCTCCGTCAACAAATTTTTCTAA 58.063 30.769 0.00 0.00 0.00 2.10
3262 6202 7.860872 ACATCTCCGTCAACAAATTTTTCTAAC 59.139 33.333 0.00 0.00 0.00 2.34
3263 6203 7.323049 TCTCCGTCAACAAATTTTTCTAACA 57.677 32.000 0.00 0.00 0.00 2.41
3264 6204 7.414436 TCTCCGTCAACAAATTTTTCTAACAG 58.586 34.615 0.00 0.00 0.00 3.16
3265 6205 5.974751 TCCGTCAACAAATTTTTCTAACAGC 59.025 36.000 0.00 0.00 0.00 4.40
3266 6206 5.977129 CCGTCAACAAATTTTTCTAACAGCT 59.023 36.000 0.00 0.00 0.00 4.24
3267 6207 6.475402 CCGTCAACAAATTTTTCTAACAGCTT 59.525 34.615 0.00 0.00 0.00 3.74
3268 6208 7.305993 CCGTCAACAAATTTTTCTAACAGCTTC 60.306 37.037 0.00 0.00 0.00 3.86
3269 6209 7.219917 CGTCAACAAATTTTTCTAACAGCTTCA 59.780 33.333 0.00 0.00 0.00 3.02
3270 6210 8.868916 GTCAACAAATTTTTCTAACAGCTTCAA 58.131 29.630 0.00 0.00 0.00 2.69
3271 6211 9.598517 TCAACAAATTTTTCTAACAGCTTCAAT 57.401 25.926 0.00 0.00 0.00 2.57
3272 6212 9.853921 CAACAAATTTTTCTAACAGCTTCAATC 57.146 29.630 0.00 0.00 0.00 2.67
3273 6213 9.822185 AACAAATTTTTCTAACAGCTTCAATCT 57.178 25.926 0.00 0.00 0.00 2.40
3284 6224 9.646427 CTAACAGCTTCAATCTATATTACTCCC 57.354 37.037 0.00 0.00 0.00 4.30
3285 6225 7.863901 ACAGCTTCAATCTATATTACTCCCT 57.136 36.000 0.00 0.00 0.00 4.20
3286 6226 7.902087 ACAGCTTCAATCTATATTACTCCCTC 58.098 38.462 0.00 0.00 0.00 4.30
3287 6227 7.038658 ACAGCTTCAATCTATATTACTCCCTCC 60.039 40.741 0.00 0.00 0.00 4.30
3288 6228 6.153680 AGCTTCAATCTATATTACTCCCTCCG 59.846 42.308 0.00 0.00 0.00 4.63
3289 6229 6.071278 GCTTCAATCTATATTACTCCCTCCGT 60.071 42.308 0.00 0.00 0.00 4.69
3290 6230 7.463961 TTCAATCTATATTACTCCCTCCGTC 57.536 40.000 0.00 0.00 0.00 4.79
3291 6231 5.950549 TCAATCTATATTACTCCCTCCGTCC 59.049 44.000 0.00 0.00 0.00 4.79
3292 6232 3.947868 TCTATATTACTCCCTCCGTCCG 58.052 50.000 0.00 0.00 0.00 4.79
3293 6233 1.920610 ATATTACTCCCTCCGTCCGG 58.079 55.000 0.00 0.00 0.00 5.14
3294 6234 0.178981 TATTACTCCCTCCGTCCGGG 60.179 60.000 0.00 0.00 43.38 5.73
3295 6235 2.234246 ATTACTCCCTCCGTCCGGGT 62.234 60.000 0.00 0.00 42.56 5.28
3296 6236 3.650298 TACTCCCTCCGTCCGGGTG 62.650 68.421 0.00 0.00 42.56 4.61
3298 6238 3.650298 CTCCCTCCGTCCGGGTGTA 62.650 68.421 0.00 0.00 42.56 2.90
3299 6239 2.443390 CCCTCCGTCCGGGTGTAT 60.443 66.667 0.00 0.00 36.91 2.29
3300 6240 1.152694 CCCTCCGTCCGGGTGTATA 60.153 63.158 0.00 0.00 36.91 1.47
3301 6241 0.756442 CCCTCCGTCCGGGTGTATAA 60.756 60.000 0.00 0.00 36.91 0.98
3302 6242 0.672342 CCTCCGTCCGGGTGTATAAG 59.328 60.000 0.00 0.00 37.00 1.73
3303 6243 1.396653 CTCCGTCCGGGTGTATAAGT 58.603 55.000 0.00 0.00 37.00 2.24
3304 6244 1.336125 CTCCGTCCGGGTGTATAAGTC 59.664 57.143 0.00 0.00 37.00 3.01
3305 6245 1.105457 CCGTCCGGGTGTATAAGTCA 58.895 55.000 0.00 0.00 0.00 3.41
3306 6246 1.684983 CCGTCCGGGTGTATAAGTCAT 59.315 52.381 0.00 0.00 0.00 3.06
3307 6247 2.101917 CCGTCCGGGTGTATAAGTCATT 59.898 50.000 0.00 0.00 0.00 2.57
3308 6248 3.378339 CGTCCGGGTGTATAAGTCATTC 58.622 50.000 0.00 0.00 0.00 2.67
3309 6249 3.378339 GTCCGGGTGTATAAGTCATTCG 58.622 50.000 0.00 0.00 0.00 3.34
3310 6250 2.132762 CCGGGTGTATAAGTCATTCGC 58.867 52.381 0.00 0.00 0.00 4.70
3311 6251 1.784856 CGGGTGTATAAGTCATTCGCG 59.215 52.381 0.00 0.00 0.00 5.87
3312 6252 2.797087 CGGGTGTATAAGTCATTCGCGT 60.797 50.000 5.77 0.00 0.00 6.01
3313 6253 3.548616 CGGGTGTATAAGTCATTCGCGTA 60.549 47.826 5.77 0.00 0.00 4.42
3314 6254 3.979495 GGGTGTATAAGTCATTCGCGTAG 59.021 47.826 5.77 0.00 0.00 3.51
3315 6255 4.498682 GGGTGTATAAGTCATTCGCGTAGT 60.499 45.833 5.77 0.00 0.00 2.73
3316 6256 5.039333 GGTGTATAAGTCATTCGCGTAGTT 58.961 41.667 5.77 2.59 0.00 2.24
3317 6257 5.172771 GGTGTATAAGTCATTCGCGTAGTTC 59.827 44.000 5.77 0.00 0.00 3.01
3318 6258 5.970023 GTGTATAAGTCATTCGCGTAGTTCT 59.030 40.000 5.77 0.00 0.00 3.01
3319 6259 7.128331 GTGTATAAGTCATTCGCGTAGTTCTA 58.872 38.462 5.77 0.00 0.00 2.10
3320 6260 7.320797 GTGTATAAGTCATTCGCGTAGTTCTAG 59.679 40.741 5.77 0.00 0.00 2.43
3321 6261 3.694535 AGTCATTCGCGTAGTTCTAGG 57.305 47.619 5.77 0.00 0.00 3.02
3322 6262 3.015327 AGTCATTCGCGTAGTTCTAGGT 58.985 45.455 5.77 0.00 0.00 3.08
3323 6263 3.065095 AGTCATTCGCGTAGTTCTAGGTC 59.935 47.826 5.77 0.00 0.00 3.85
3324 6264 3.011818 TCATTCGCGTAGTTCTAGGTCA 58.988 45.455 5.77 0.00 0.00 4.02
3325 6265 3.630769 TCATTCGCGTAGTTCTAGGTCAT 59.369 43.478 5.77 0.00 0.00 3.06
3326 6266 3.687572 TTCGCGTAGTTCTAGGTCATC 57.312 47.619 5.77 0.00 0.00 2.92
3327 6267 1.596260 TCGCGTAGTTCTAGGTCATCG 59.404 52.381 5.77 0.00 0.00 3.84
3328 6268 1.596260 CGCGTAGTTCTAGGTCATCGA 59.404 52.381 0.00 0.00 0.00 3.59
3329 6269 2.223611 CGCGTAGTTCTAGGTCATCGAT 59.776 50.000 0.00 0.00 0.00 3.59
3330 6270 3.303857 CGCGTAGTTCTAGGTCATCGATT 60.304 47.826 0.00 0.00 0.00 3.34
3331 6271 4.608951 GCGTAGTTCTAGGTCATCGATTT 58.391 43.478 0.00 0.00 0.00 2.17
3332 6272 4.441415 GCGTAGTTCTAGGTCATCGATTTG 59.559 45.833 0.00 0.00 0.00 2.32
3333 6273 5.732528 GCGTAGTTCTAGGTCATCGATTTGA 60.733 44.000 0.00 0.00 0.00 2.69
3334 6274 5.910166 CGTAGTTCTAGGTCATCGATTTGAG 59.090 44.000 0.00 0.00 0.00 3.02
3335 6275 5.269505 AGTTCTAGGTCATCGATTTGAGG 57.730 43.478 0.00 0.00 0.00 3.86
3336 6276 4.956700 AGTTCTAGGTCATCGATTTGAGGA 59.043 41.667 0.00 0.00 34.44 3.71
3337 6277 5.422331 AGTTCTAGGTCATCGATTTGAGGAA 59.578 40.000 0.00 0.00 39.46 3.36
3338 6278 6.098982 AGTTCTAGGTCATCGATTTGAGGAAT 59.901 38.462 0.00 0.00 39.46 3.01
3339 6279 6.485830 TCTAGGTCATCGATTTGAGGAATT 57.514 37.500 0.00 0.00 39.46 2.17
3340 6280 7.597288 TCTAGGTCATCGATTTGAGGAATTA 57.403 36.000 0.00 0.00 39.46 1.40
3341 6281 8.018537 TCTAGGTCATCGATTTGAGGAATTAA 57.981 34.615 0.00 0.00 39.46 1.40
3342 6282 8.482943 TCTAGGTCATCGATTTGAGGAATTAAA 58.517 33.333 0.00 0.00 39.46 1.52
3343 6283 9.277783 CTAGGTCATCGATTTGAGGAATTAAAT 57.722 33.333 0.00 0.00 39.46 1.40
3345 6285 9.799106 AGGTCATCGATTTGAGGAATTAAATAT 57.201 29.630 0.00 0.00 39.46 1.28
3346 6286 9.831737 GGTCATCGATTTGAGGAATTAAATATG 57.168 33.333 0.00 0.00 39.46 1.78
3382 6322 9.832445 TCATGAAAAGTATACCACTAGATTTCC 57.168 33.333 0.00 0.00 36.04 3.13
3383 6323 9.613428 CATGAAAAGTATACCACTAGATTTCCA 57.387 33.333 0.00 0.00 36.04 3.53
3384 6324 9.614792 ATGAAAAGTATACCACTAGATTTCCAC 57.385 33.333 0.00 0.00 36.04 4.02
3385 6325 8.598916 TGAAAAGTATACCACTAGATTTCCACA 58.401 33.333 0.00 0.00 36.04 4.17
3386 6326 8.788325 AAAAGTATACCACTAGATTTCCACAC 57.212 34.615 0.00 0.00 36.04 3.82
3387 6327 6.145338 AGTATACCACTAGATTTCCACACG 57.855 41.667 0.00 0.00 34.98 4.49
3388 6328 2.762535 ACCACTAGATTTCCACACGG 57.237 50.000 0.00 0.00 0.00 4.94
3389 6329 2.253610 ACCACTAGATTTCCACACGGA 58.746 47.619 0.00 0.00 40.60 4.69
3390 6330 2.838202 ACCACTAGATTTCCACACGGAT 59.162 45.455 0.00 0.00 42.41 4.18
3391 6331 3.198068 CCACTAGATTTCCACACGGATG 58.802 50.000 0.00 0.00 42.41 3.51
3392 6332 3.369471 CCACTAGATTTCCACACGGATGT 60.369 47.826 0.00 0.00 42.41 3.06
3393 6333 4.142026 CCACTAGATTTCCACACGGATGTA 60.142 45.833 0.00 0.00 42.41 2.29
3394 6334 5.043903 CACTAGATTTCCACACGGATGTAG 58.956 45.833 0.00 0.00 42.41 2.74
3395 6335 4.710375 ACTAGATTTCCACACGGATGTAGT 59.290 41.667 0.00 0.00 42.41 2.73
3396 6336 4.553330 AGATTTCCACACGGATGTAGTT 57.447 40.909 0.00 0.00 42.41 2.24
3397 6337 4.906618 AGATTTCCACACGGATGTAGTTT 58.093 39.130 0.00 0.00 42.41 2.66
3398 6338 4.935808 AGATTTCCACACGGATGTAGTTTC 59.064 41.667 0.00 0.00 42.41 2.78
3399 6339 4.345859 TTTCCACACGGATGTAGTTTCT 57.654 40.909 0.00 0.00 42.41 2.52
3400 6340 5.471556 TTTCCACACGGATGTAGTTTCTA 57.528 39.130 0.00 0.00 42.41 2.10
3401 6341 5.471556 TTCCACACGGATGTAGTTTCTAA 57.528 39.130 0.00 0.00 42.41 2.10
3402 6342 5.471556 TCCACACGGATGTAGTTTCTAAA 57.528 39.130 0.00 0.00 36.72 1.85
3403 6343 6.045072 TCCACACGGATGTAGTTTCTAAAT 57.955 37.500 0.00 0.00 36.72 1.40
3404 6344 7.172868 TCCACACGGATGTAGTTTCTAAATA 57.827 36.000 0.00 0.00 36.72 1.40
3405 6345 7.788026 TCCACACGGATGTAGTTTCTAAATAT 58.212 34.615 0.00 0.00 36.72 1.28
3406 6346 8.916062 TCCACACGGATGTAGTTTCTAAATATA 58.084 33.333 0.00 0.00 36.72 0.86
3407 6347 9.706691 CCACACGGATGTAGTTTCTAAATATAT 57.293 33.333 0.00 0.00 36.72 0.86
3465 6405 9.230932 AGTTAAATTATCGACTTAGAACTACGC 57.769 33.333 0.00 0.00 0.00 4.42
3466 6406 6.729104 AAATTATCGACTTAGAACTACGCG 57.271 37.500 3.53 3.53 0.00 6.01
3467 6407 5.663795 ATTATCGACTTAGAACTACGCGA 57.336 39.130 15.93 0.00 0.00 5.87
3468 6408 5.469373 TTATCGACTTAGAACTACGCGAA 57.531 39.130 15.93 0.00 0.00 4.70
3469 6409 4.548991 ATCGACTTAGAACTACGCGAAT 57.451 40.909 15.93 0.00 0.00 3.34
3470 6410 3.677601 TCGACTTAGAACTACGCGAATG 58.322 45.455 15.93 4.47 0.00 2.67
3471 6411 3.371898 TCGACTTAGAACTACGCGAATGA 59.628 43.478 15.93 0.00 0.00 2.57
3472 6412 3.477802 CGACTTAGAACTACGCGAATGAC 59.522 47.826 15.93 0.66 0.00 3.06
3473 6413 4.660105 GACTTAGAACTACGCGAATGACT 58.340 43.478 15.93 9.07 0.00 3.41
3474 6414 5.056894 ACTTAGAACTACGCGAATGACTT 57.943 39.130 15.93 0.00 0.00 3.01
3475 6415 6.187125 ACTTAGAACTACGCGAATGACTTA 57.813 37.500 15.93 0.00 0.00 2.24
3476 6416 6.793349 ACTTAGAACTACGCGAATGACTTAT 58.207 36.000 15.93 0.00 0.00 1.73
3477 6417 7.923888 ACTTAGAACTACGCGAATGACTTATA 58.076 34.615 15.93 0.00 0.00 0.98
3478 6418 7.854916 ACTTAGAACTACGCGAATGACTTATAC 59.145 37.037 15.93 0.00 0.00 1.47
3479 6419 6.127810 AGAACTACGCGAATGACTTATACA 57.872 37.500 15.93 0.00 0.00 2.29
3480 6420 5.970023 AGAACTACGCGAATGACTTATACAC 59.030 40.000 15.93 0.00 0.00 2.90
3481 6421 4.604976 ACTACGCGAATGACTTATACACC 58.395 43.478 15.93 0.00 0.00 4.16
3482 6422 2.456989 ACGCGAATGACTTATACACCG 58.543 47.619 15.93 0.00 0.00 4.94
3483 6423 1.784856 CGCGAATGACTTATACACCGG 59.215 52.381 0.00 0.00 0.00 5.28
3484 6424 2.132762 GCGAATGACTTATACACCGGG 58.867 52.381 6.32 0.00 0.00 5.73
3485 6425 2.223876 GCGAATGACTTATACACCGGGA 60.224 50.000 6.32 0.00 0.00 5.14
3486 6426 3.378339 CGAATGACTTATACACCGGGAC 58.622 50.000 6.32 0.00 0.00 4.46
3522 6462 5.042593 TGCTTCAATAAAACAACTGCACAG 58.957 37.500 0.00 0.00 0.00 3.66
3620 6560 2.279517 CTATGGCCGTGGCGACTC 60.280 66.667 8.05 0.00 43.06 3.36
3633 6573 3.617263 GTGGCGACTCGAAAAACATATCT 59.383 43.478 1.63 0.00 0.00 1.98
3663 6603 1.697982 GTCACCACTAAGACCCCTGTT 59.302 52.381 0.00 0.00 0.00 3.16
3961 6901 1.406477 GGTGTGAGCAGCAGATGATGA 60.406 52.381 1.56 0.00 42.26 2.92
3990 6930 0.035439 CAGCTGTAATGGACGGGGTT 60.035 55.000 5.25 0.00 34.66 4.11
4007 6947 2.636768 GTTGGAAACTATGTGCCAGC 57.363 50.000 0.00 0.00 45.32 4.85
4008 6948 2.162681 GTTGGAAACTATGTGCCAGCT 58.837 47.619 0.00 0.00 45.32 4.24
4009 6949 1.825090 TGGAAACTATGTGCCAGCTG 58.175 50.000 6.78 6.78 0.00 4.24
4079 7020 6.016943 ACAAGATGTAGTAGATCGTAGGCTTC 60.017 42.308 0.00 0.00 0.00 3.86
4113 7056 1.153086 CTAGCCAGGCATGTGTCCC 60.153 63.158 15.80 0.00 0.00 4.46
4269 7271 5.695851 AGTGTTTGTCATGCTAAAGAAGG 57.304 39.130 0.00 0.00 0.00 3.46
4275 7278 7.067615 TGTTTGTCATGCTAAAGAAGGTGTTTA 59.932 33.333 0.00 0.00 0.00 2.01
4276 7279 6.801539 TGTCATGCTAAAGAAGGTGTTTAG 57.198 37.500 1.59 1.59 39.52 1.85
4295 7298 8.903820 GTGTTTAGCATCTCCCTTATTTTGTAT 58.096 33.333 0.00 0.00 0.00 2.29
4368 7372 2.684881 CAATATGTGGCCCTGACTGTTC 59.315 50.000 0.00 0.00 0.00 3.18
4571 7676 1.475034 GCATGATGGCTCTTCCCGTTA 60.475 52.381 0.00 0.00 0.00 3.18
4608 7714 6.072119 GCCCCTAGTAATTAATATTGTGTGGC 60.072 42.308 0.00 0.00 0.00 5.01
4799 7918 8.917088 CATTTTAAATCCCAACACTCTCCATAT 58.083 33.333 0.00 0.00 0.00 1.78
4847 7966 1.704070 GGATGAAGAGATCAGGGGCAT 59.296 52.381 0.00 0.00 42.53 4.40
4900 8022 3.821600 ACGTTCTTCTTGCTCTAGAGTCA 59.178 43.478 20.75 15.61 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 6.016555 TGTCTAGCTATTATATGGGACTGCA 58.983 40.000 0.00 0.00 0.00 4.41
21 22 5.624344 GCATGATGCATTGTCTAGCTATT 57.376 39.130 13.36 0.00 44.26 1.73
230 299 7.516198 AGATTCAATACATAGGCCAATCAAC 57.484 36.000 5.01 0.00 0.00 3.18
359 428 2.434336 ACCAGCGAAGGTAAGCATATCA 59.566 45.455 0.00 0.00 40.98 2.15
508 599 3.427909 CCGCTCTCAAATATGCAAAGCAA 60.428 43.478 0.00 0.00 43.62 3.91
572 665 2.559231 TCTTGTGTGCATGCATGACATT 59.441 40.909 30.64 0.00 36.64 2.71
598 693 9.132923 TCAATTTCGGTGTAGATAGATAGAACT 57.867 33.333 0.00 0.00 0.00 3.01
760 858 6.480763 TCTCAGGAACATGCCAAACTATTTA 58.519 36.000 0.00 0.00 0.00 1.40
814 912 5.185249 GGTCCATACTGAAGTAGACTGAACA 59.815 44.000 8.79 0.00 33.52 3.18
828 926 2.684001 TAGTTTGCCGGTCCATACTG 57.316 50.000 12.99 0.00 31.14 2.74
908 1006 3.375699 GATGGAGACTGGGGAGTAAGAA 58.624 50.000 0.00 0.00 0.00 2.52
939 3788 6.708054 GGAGTATGAACTATGAAGATGGGTTG 59.292 42.308 0.00 0.00 35.56 3.77
975 3824 2.738013 AGTGGGTAGTTGAACGCTAC 57.262 50.000 0.00 0.00 38.38 3.58
1164 4013 6.620877 AGATCTGTTACCTGTTTCATGGTA 57.379 37.500 0.00 0.00 37.74 3.25
1278 4127 0.390124 TACCGTTGACAGGGTCACAC 59.610 55.000 3.74 1.11 42.60 3.82
1449 4308 1.229209 ACCCGTCACTGTGATCCCT 60.229 57.895 14.37 0.00 0.00 4.20
1770 4636 6.098266 ACCTCAAAGTTTTCATTAACAAGGCT 59.902 34.615 0.00 0.00 0.00 4.58
1851 4717 5.726308 TCTTCCTGATTCTTGTATCCTCCAA 59.274 40.000 0.00 0.00 0.00 3.53
1911 4813 2.341846 TTGTTCTCCAAGACCACCAC 57.658 50.000 0.00 0.00 0.00 4.16
2079 4984 7.178274 ACACACCTGCCTCATAAAATTAATTCA 59.822 33.333 0.10 0.00 0.00 2.57
2176 5087 8.757982 AGTTCATCAATATCTAATTTGCAGGT 57.242 30.769 0.00 0.00 0.00 4.00
2249 5174 8.806146 CAATGGCCTAATTTACTGCCTTTATAT 58.194 33.333 3.32 0.00 44.32 0.86
2252 5177 6.191315 TCAATGGCCTAATTTACTGCCTTTA 58.809 36.000 3.32 0.00 44.32 1.85
2275 5200 6.537301 TGACAAGACGTACCATATTGGAATTC 59.463 38.462 0.00 0.00 40.96 2.17
2331 5265 8.196103 ACCTCTATTTTCTATAGTGAAACGACC 58.804 37.037 0.00 0.00 45.86 4.79
2463 5398 6.090628 ACAACAACAACACATGCTTACTTTTG 59.909 34.615 0.00 0.00 0.00 2.44
2597 5536 6.594788 AGGCAAAGCATATTTTCTTTCTCA 57.405 33.333 0.00 0.00 30.79 3.27
2644 5583 0.476338 ATAATGCACCCACGGCCATA 59.524 50.000 2.24 0.00 0.00 2.74
2744 5683 2.287769 CCACCGATTCACATACATGCA 58.712 47.619 0.00 0.00 0.00 3.96
2745 5684 1.002468 GCCACCGATTCACATACATGC 60.002 52.381 0.00 0.00 0.00 4.06
2746 5685 1.261354 CGCCACCGATTCACATACATG 59.739 52.381 0.00 0.00 36.29 3.21
2748 5687 0.461163 CCGCCACCGATTCACATACA 60.461 55.000 0.00 0.00 36.29 2.29
2749 5688 0.461339 ACCGCCACCGATTCACATAC 60.461 55.000 0.00 0.00 36.29 2.39
2751 5690 1.002624 AACCGCCACCGATTCACAT 60.003 52.632 0.00 0.00 36.29 3.21
2752 5691 1.963855 CAACCGCCACCGATTCACA 60.964 57.895 0.00 0.00 36.29 3.58
2753 5692 2.686816 CCAACCGCCACCGATTCAC 61.687 63.158 0.00 0.00 36.29 3.18
2754 5693 2.191786 ATCCAACCGCCACCGATTCA 62.192 55.000 0.00 0.00 36.29 2.57
2755 5694 1.451387 ATCCAACCGCCACCGATTC 60.451 57.895 0.00 0.00 36.29 2.52
2756 5695 1.748879 CATCCAACCGCCACCGATT 60.749 57.895 0.00 0.00 36.29 3.34
2757 5696 2.124736 CATCCAACCGCCACCGAT 60.125 61.111 0.00 0.00 36.29 4.18
2800 5739 6.292542 CCATCAGTATAAAGCAACAGATGTCG 60.293 42.308 0.00 0.00 37.71 4.35
2817 5756 1.447140 GAACGTGCGGCCATCAGTA 60.447 57.895 2.24 0.00 0.00 2.74
2857 5796 1.743252 CCTGCCCAGAAAGACGCTC 60.743 63.158 0.00 0.00 0.00 5.03
2885 5824 1.368579 CTTGCCCAAGGGTTGCTTG 59.631 57.895 7.05 0.00 37.65 4.01
2887 5826 0.409484 ATACTTGCCCAAGGGTTGCT 59.591 50.000 12.22 0.00 42.53 3.91
2935 5874 5.184864 TCCTTTTTCACTTCTTTCTTGTGCA 59.815 36.000 0.00 0.00 0.00 4.57
2951 5890 3.195396 TGGTATGCCATGCTTCCTTTTTC 59.805 43.478 0.00 0.00 40.46 2.29
3115 6055 3.961408 AGCCTCGTAGGATACAATGAAGT 59.039 43.478 5.24 0.00 43.24 3.01
3121 6061 5.452776 CCAACAATAGCCTCGTAGGATACAA 60.453 44.000 5.24 0.00 39.34 2.41
3177 6117 3.939592 GTGTCGCTTTCCTTAAGGCTTAT 59.060 43.478 17.32 0.00 35.64 1.73
3258 6198 9.646427 GGGAGTAATATAGATTGAAGCTGTTAG 57.354 37.037 0.00 0.00 0.00 2.34
3259 6199 9.381038 AGGGAGTAATATAGATTGAAGCTGTTA 57.619 33.333 0.00 0.00 0.00 2.41
3261 6201 7.038658 GGAGGGAGTAATATAGATTGAAGCTGT 60.039 40.741 0.00 0.00 0.00 4.40
3262 6202 7.327214 GGAGGGAGTAATATAGATTGAAGCTG 58.673 42.308 0.00 0.00 0.00 4.24
3263 6203 6.153680 CGGAGGGAGTAATATAGATTGAAGCT 59.846 42.308 0.00 0.00 0.00 3.74
3264 6204 6.071278 ACGGAGGGAGTAATATAGATTGAAGC 60.071 42.308 0.00 0.00 0.00 3.86
3265 6205 7.363094 GGACGGAGGGAGTAATATAGATTGAAG 60.363 44.444 0.00 0.00 0.00 3.02
3266 6206 6.436532 GGACGGAGGGAGTAATATAGATTGAA 59.563 42.308 0.00 0.00 0.00 2.69
3267 6207 5.950549 GGACGGAGGGAGTAATATAGATTGA 59.049 44.000 0.00 0.00 0.00 2.57
3268 6208 5.163642 CGGACGGAGGGAGTAATATAGATTG 60.164 48.000 0.00 0.00 0.00 2.67
3269 6209 4.948621 CGGACGGAGGGAGTAATATAGATT 59.051 45.833 0.00 0.00 0.00 2.40
3270 6210 4.525024 CGGACGGAGGGAGTAATATAGAT 58.475 47.826 0.00 0.00 0.00 1.98
3271 6211 3.307975 CCGGACGGAGGGAGTAATATAGA 60.308 52.174 4.40 0.00 37.50 1.98
3272 6212 3.015327 CCGGACGGAGGGAGTAATATAG 58.985 54.545 4.40 0.00 37.50 1.31
3273 6213 3.077484 CCGGACGGAGGGAGTAATATA 57.923 52.381 4.40 0.00 37.50 0.86
3274 6214 1.920610 CCGGACGGAGGGAGTAATAT 58.079 55.000 4.40 0.00 37.50 1.28
3275 6215 3.426903 CCGGACGGAGGGAGTAATA 57.573 57.895 4.40 0.00 37.50 0.98
3276 6216 4.272245 CCGGACGGAGGGAGTAAT 57.728 61.111 4.40 0.00 37.50 1.89
3283 6223 0.672342 CTTATACACCCGGACGGAGG 59.328 60.000 13.13 6.21 37.50 4.30
3284 6224 1.336125 GACTTATACACCCGGACGGAG 59.664 57.143 13.13 6.96 37.50 4.63
3285 6225 1.340893 TGACTTATACACCCGGACGGA 60.341 52.381 13.13 0.00 37.50 4.69
3286 6226 1.105457 TGACTTATACACCCGGACGG 58.895 55.000 0.73 3.25 37.81 4.79
3287 6227 3.378339 GAATGACTTATACACCCGGACG 58.622 50.000 0.73 0.00 0.00 4.79
3288 6228 3.378339 CGAATGACTTATACACCCGGAC 58.622 50.000 0.73 0.00 0.00 4.79
3289 6229 2.223876 GCGAATGACTTATACACCCGGA 60.224 50.000 0.73 0.00 0.00 5.14
3290 6230 2.132762 GCGAATGACTTATACACCCGG 58.867 52.381 0.00 0.00 0.00 5.73
3291 6231 1.784856 CGCGAATGACTTATACACCCG 59.215 52.381 0.00 0.00 0.00 5.28
3292 6232 2.817901 ACGCGAATGACTTATACACCC 58.182 47.619 15.93 0.00 0.00 4.61
3293 6233 4.604976 ACTACGCGAATGACTTATACACC 58.395 43.478 15.93 0.00 0.00 4.16
3294 6234 5.970023 AGAACTACGCGAATGACTTATACAC 59.030 40.000 15.93 0.00 0.00 2.90
3295 6235 6.127810 AGAACTACGCGAATGACTTATACA 57.872 37.500 15.93 0.00 0.00 2.29
3296 6236 6.796072 CCTAGAACTACGCGAATGACTTATAC 59.204 42.308 15.93 0.00 0.00 1.47
3297 6237 6.484643 ACCTAGAACTACGCGAATGACTTATA 59.515 38.462 15.93 0.00 0.00 0.98
3298 6238 5.298777 ACCTAGAACTACGCGAATGACTTAT 59.701 40.000 15.93 0.00 0.00 1.73
3299 6239 4.637534 ACCTAGAACTACGCGAATGACTTA 59.362 41.667 15.93 0.00 0.00 2.24
3300 6240 3.442977 ACCTAGAACTACGCGAATGACTT 59.557 43.478 15.93 0.00 0.00 3.01
3301 6241 3.015327 ACCTAGAACTACGCGAATGACT 58.985 45.455 15.93 9.07 0.00 3.41
3302 6242 3.181503 TGACCTAGAACTACGCGAATGAC 60.182 47.826 15.93 0.66 0.00 3.06
3303 6243 3.011818 TGACCTAGAACTACGCGAATGA 58.988 45.455 15.93 0.00 0.00 2.57
3304 6244 3.416119 TGACCTAGAACTACGCGAATG 57.584 47.619 15.93 4.47 0.00 2.67
3305 6245 3.303857 CGATGACCTAGAACTACGCGAAT 60.304 47.826 15.93 0.00 0.00 3.34
3306 6246 2.031314 CGATGACCTAGAACTACGCGAA 59.969 50.000 15.93 0.00 0.00 4.70
3307 6247 1.596260 CGATGACCTAGAACTACGCGA 59.404 52.381 15.93 0.00 0.00 5.87
3308 6248 1.596260 TCGATGACCTAGAACTACGCG 59.404 52.381 3.53 3.53 0.00 6.01
3309 6249 3.900388 ATCGATGACCTAGAACTACGC 57.100 47.619 0.00 0.00 0.00 4.42
3310 6250 5.817988 TCAAATCGATGACCTAGAACTACG 58.182 41.667 0.00 0.00 0.00 3.51
3311 6251 6.039493 TCCTCAAATCGATGACCTAGAACTAC 59.961 42.308 0.00 0.00 0.00 2.73
3312 6252 6.127101 TCCTCAAATCGATGACCTAGAACTA 58.873 40.000 0.00 0.00 0.00 2.24
3313 6253 4.956700 TCCTCAAATCGATGACCTAGAACT 59.043 41.667 0.00 0.00 0.00 3.01
3314 6254 5.263968 TCCTCAAATCGATGACCTAGAAC 57.736 43.478 0.00 0.00 0.00 3.01
3315 6255 5.932619 TTCCTCAAATCGATGACCTAGAA 57.067 39.130 0.00 0.00 0.00 2.10
3316 6256 6.485830 AATTCCTCAAATCGATGACCTAGA 57.514 37.500 0.00 0.00 0.00 2.43
3317 6257 8.662781 TTTAATTCCTCAAATCGATGACCTAG 57.337 34.615 0.00 0.00 0.00 3.02
3319 6259 9.799106 ATATTTAATTCCTCAAATCGATGACCT 57.201 29.630 0.00 0.00 0.00 3.85
3320 6260 9.831737 CATATTTAATTCCTCAAATCGATGACC 57.168 33.333 0.00 0.00 0.00 4.02
3356 6296 9.832445 GGAAATCTAGTGGTATACTTTTCATGA 57.168 33.333 2.25 0.00 40.89 3.07
3357 6297 9.613428 TGGAAATCTAGTGGTATACTTTTCATG 57.387 33.333 2.25 0.00 40.89 3.07
3358 6298 9.614792 GTGGAAATCTAGTGGTATACTTTTCAT 57.385 33.333 2.25 0.00 40.89 2.57
3359 6299 8.598916 TGTGGAAATCTAGTGGTATACTTTTCA 58.401 33.333 2.25 0.00 40.89 2.69
3360 6300 8.880750 GTGTGGAAATCTAGTGGTATACTTTTC 58.119 37.037 2.25 0.00 40.89 2.29
3361 6301 7.548075 CGTGTGGAAATCTAGTGGTATACTTTT 59.452 37.037 2.25 0.00 40.89 2.27
3362 6302 7.039882 CGTGTGGAAATCTAGTGGTATACTTT 58.960 38.462 2.25 0.00 40.89 2.66
3363 6303 6.406624 CCGTGTGGAAATCTAGTGGTATACTT 60.407 42.308 2.25 0.00 37.99 2.24
3364 6304 5.068723 CCGTGTGGAAATCTAGTGGTATACT 59.931 44.000 2.25 0.00 39.66 2.12
3365 6305 5.068198 TCCGTGTGGAAATCTAGTGGTATAC 59.932 44.000 0.00 0.00 42.85 1.47
3366 6306 5.202765 TCCGTGTGGAAATCTAGTGGTATA 58.797 41.667 0.00 0.00 42.85 1.47
3367 6307 4.028131 TCCGTGTGGAAATCTAGTGGTAT 58.972 43.478 0.00 0.00 42.85 2.73
3368 6308 3.433343 TCCGTGTGGAAATCTAGTGGTA 58.567 45.455 0.00 0.00 42.85 3.25
3369 6309 2.253610 TCCGTGTGGAAATCTAGTGGT 58.746 47.619 0.00 0.00 42.85 4.16
3381 6321 9.706691 ATATATTTAGAAACTACATCCGTGTGG 57.293 33.333 0.00 0.00 42.04 4.17
3439 6379 9.230932 GCGTAGTTCTAAGTCGATAATTTAACT 57.769 33.333 0.00 0.00 0.00 2.24
3440 6380 8.197528 CGCGTAGTTCTAAGTCGATAATTTAAC 58.802 37.037 0.00 0.00 0.00 2.01
3441 6381 8.122330 TCGCGTAGTTCTAAGTCGATAATTTAA 58.878 33.333 5.77 0.00 0.00 1.52
3442 6382 7.630026 TCGCGTAGTTCTAAGTCGATAATTTA 58.370 34.615 5.77 0.00 0.00 1.40
3443 6383 6.489675 TCGCGTAGTTCTAAGTCGATAATTT 58.510 36.000 5.77 0.00 0.00 1.82
3444 6384 6.052840 TCGCGTAGTTCTAAGTCGATAATT 57.947 37.500 5.77 0.00 0.00 1.40
3445 6385 5.663795 TCGCGTAGTTCTAAGTCGATAAT 57.336 39.130 5.77 0.00 0.00 1.28
3446 6386 5.469373 TTCGCGTAGTTCTAAGTCGATAA 57.531 39.130 5.77 0.00 0.00 1.75
3447 6387 5.234972 TCATTCGCGTAGTTCTAAGTCGATA 59.765 40.000 5.77 0.00 0.00 2.92
3448 6388 4.034858 TCATTCGCGTAGTTCTAAGTCGAT 59.965 41.667 5.77 0.00 0.00 3.59
3449 6389 3.371898 TCATTCGCGTAGTTCTAAGTCGA 59.628 43.478 5.77 7.60 0.00 4.20
3450 6390 3.477802 GTCATTCGCGTAGTTCTAAGTCG 59.522 47.826 5.77 0.00 0.00 4.18
3451 6391 4.660105 AGTCATTCGCGTAGTTCTAAGTC 58.340 43.478 5.77 0.00 0.00 3.01
3452 6392 4.698583 AGTCATTCGCGTAGTTCTAAGT 57.301 40.909 5.77 0.00 0.00 2.24
3453 6393 7.854422 TGTATAAGTCATTCGCGTAGTTCTAAG 59.146 37.037 5.77 0.00 0.00 2.18
3454 6394 7.641411 GTGTATAAGTCATTCGCGTAGTTCTAA 59.359 37.037 5.77 0.00 0.00 2.10
3455 6395 7.128331 GTGTATAAGTCATTCGCGTAGTTCTA 58.872 38.462 5.77 0.00 0.00 2.10
3456 6396 5.970023 GTGTATAAGTCATTCGCGTAGTTCT 59.030 40.000 5.77 0.00 0.00 3.01
3457 6397 5.172771 GGTGTATAAGTCATTCGCGTAGTTC 59.827 44.000 5.77 0.00 0.00 3.01
3458 6398 5.039333 GGTGTATAAGTCATTCGCGTAGTT 58.961 41.667 5.77 2.59 0.00 2.24
3459 6399 4.604976 GGTGTATAAGTCATTCGCGTAGT 58.395 43.478 5.77 0.00 0.00 2.73
3460 6400 3.662645 CGGTGTATAAGTCATTCGCGTAG 59.337 47.826 5.77 0.00 0.00 3.51
3461 6401 3.548616 CCGGTGTATAAGTCATTCGCGTA 60.549 47.826 5.77 0.00 0.00 4.42
3462 6402 2.456989 CGGTGTATAAGTCATTCGCGT 58.543 47.619 5.77 0.00 0.00 6.01
3463 6403 1.784856 CCGGTGTATAAGTCATTCGCG 59.215 52.381 0.00 0.00 0.00 5.87
3464 6404 2.132762 CCCGGTGTATAAGTCATTCGC 58.867 52.381 0.00 0.00 0.00 4.70
3465 6405 3.378339 GTCCCGGTGTATAAGTCATTCG 58.622 50.000 0.00 0.00 0.00 3.34
3466 6406 3.378339 CGTCCCGGTGTATAAGTCATTC 58.622 50.000 0.00 0.00 0.00 2.67
3467 6407 2.101917 CCGTCCCGGTGTATAAGTCATT 59.898 50.000 0.00 0.00 42.73 2.57
3468 6408 1.684983 CCGTCCCGGTGTATAAGTCAT 59.315 52.381 0.00 0.00 42.73 3.06
3469 6409 1.105457 CCGTCCCGGTGTATAAGTCA 58.895 55.000 0.00 0.00 42.73 3.41
3470 6410 3.953201 CCGTCCCGGTGTATAAGTC 57.047 57.895 0.00 0.00 42.73 3.01
3481 6421 0.737219 CAACTACTACCTCCGTCCCG 59.263 60.000 0.00 0.00 0.00 5.14
3482 6422 0.459078 GCAACTACTACCTCCGTCCC 59.541 60.000 0.00 0.00 0.00 4.46
3483 6423 1.472188 AGCAACTACTACCTCCGTCC 58.528 55.000 0.00 0.00 0.00 4.79
3484 6424 2.490903 TGAAGCAACTACTACCTCCGTC 59.509 50.000 0.00 0.00 0.00 4.79
3485 6425 2.522185 TGAAGCAACTACTACCTCCGT 58.478 47.619 0.00 0.00 0.00 4.69
3486 6426 3.587797 TTGAAGCAACTACTACCTCCG 57.412 47.619 0.00 0.00 0.00 4.63
3487 6427 7.389607 TGTTTTATTGAAGCAACTACTACCTCC 59.610 37.037 0.00 0.00 0.00 4.30
3488 6428 8.319143 TGTTTTATTGAAGCAACTACTACCTC 57.681 34.615 0.00 0.00 0.00 3.85
3489 6429 8.685838 TTGTTTTATTGAAGCAACTACTACCT 57.314 30.769 0.00 0.00 34.13 3.08
3620 6560 6.762108 ACGAAGTGCTTAGATATGTTTTTCG 58.238 36.000 0.00 0.00 42.51 3.46
3663 6603 2.030371 TGTGCATGGCTTGAAACTTGA 58.970 42.857 4.32 0.00 0.00 3.02
3693 6633 6.819146 ACGATCCCTTTTTCTGTATTCTCTTC 59.181 38.462 0.00 0.00 0.00 2.87
3940 6880 0.461516 ATCATCTGCTGCTCACACCG 60.462 55.000 0.00 0.00 0.00 4.94
3943 6883 1.553704 ACTCATCATCTGCTGCTCACA 59.446 47.619 0.00 0.00 0.00 3.58
3961 6901 2.816087 CCATTACAGCTGCAACAGAACT 59.184 45.455 15.27 0.00 32.44 3.01
3990 6930 1.350684 TCAGCTGGCACATAGTTTCCA 59.649 47.619 15.13 0.00 38.20 3.53
4007 6947 1.751927 GACCCTTGCTGGCCATCAG 60.752 63.158 5.51 1.94 46.03 2.90
4008 6948 2.356278 GACCCTTGCTGGCCATCA 59.644 61.111 5.51 5.14 0.00 3.07
4009 6949 1.751927 CTGACCCTTGCTGGCCATC 60.752 63.158 5.51 1.26 0.00 3.51
4017 6957 6.456795 AGATAAAAATAAGCTGACCCTTGC 57.543 37.500 0.00 0.00 0.00 4.01
4079 7020 0.664761 CTAGCATCCAAACATGGCCG 59.335 55.000 0.00 0.00 0.00 6.13
4113 7056 3.871594 GGAGGACAGTCCGTTTATTCATG 59.128 47.826 14.32 0.00 42.75 3.07
4136 7079 5.577945 CCATAATGTCTTGTTGCCATGTTTC 59.422 40.000 0.00 0.00 0.00 2.78
4140 7083 3.450578 GCCATAATGTCTTGTTGCCATG 58.549 45.455 0.00 0.00 0.00 3.66
4265 7267 3.636153 AGGGAGATGCTAAACACCTTC 57.364 47.619 0.00 0.00 0.00 3.46
4268 7270 6.152831 ACAAAATAAGGGAGATGCTAAACACC 59.847 38.462 0.00 0.00 0.00 4.16
4269 7271 7.158099 ACAAAATAAGGGAGATGCTAAACAC 57.842 36.000 0.00 0.00 0.00 3.32
4275 7278 6.904626 AGTCATACAAAATAAGGGAGATGCT 58.095 36.000 0.00 0.00 0.00 3.79
4276 7279 8.854614 ATAGTCATACAAAATAAGGGAGATGC 57.145 34.615 0.00 0.00 0.00 3.91
4326 7329 2.666508 GAGACATCATGTACGCGTTGTT 59.333 45.455 20.78 1.43 0.00 2.83
4327 7330 2.259618 GAGACATCATGTACGCGTTGT 58.740 47.619 20.78 15.32 0.00 3.32
4328 7331 2.258755 TGAGACATCATGTACGCGTTG 58.741 47.619 20.78 10.64 0.00 4.10
4403 7506 1.073125 TCCTGTGCTTTTTCATCGGGA 59.927 47.619 0.00 0.00 0.00 5.14
4571 7676 1.123928 CTAGGGGCTCTTGGACGAAT 58.876 55.000 0.00 0.00 0.00 3.34
4608 7714 1.208870 TTGCCGCAATGTAGCAACG 59.791 52.632 0.38 0.00 41.35 4.10
4847 7966 8.756927 TGAAAATACCTCAATAAATGCCAATCA 58.243 29.630 0.00 0.00 0.00 2.57
4900 8022 1.485066 CAAGCCTACGTCCCAACCTAT 59.515 52.381 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.