Multiple sequence alignment - TraesCS3B01G045300

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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 TraesCS3B01G045300 chr3B 100.000 4191 0 0 1 4191 22836079 22840269 0.000000e+00 7740.0
1 TraesCS3B01G045300 chr3B 84.580 1978 280 12 956 2928 22699278 22701235 0.000000e+00 1940.0
2 TraesCS3B01G045300 chr3B 84.264 1773 265 12 1163 2928 22788351 22790116 0.000000e+00 1716.0
3 TraesCS3B01G045300 chr3B 83.296 1772 257 24 1010 2770 22804745 22806488 0.000000e+00 1596.0
4 TraesCS3B01G045300 chr3B 72.622 1819 416 63 1157 2939 22203362 22205134 3.710000e-145 525.0
5 TraesCS3B01G045300 chr3D 91.144 1976 163 10 956 2928 15920778 15922744 0.000000e+00 2669.0
6 TraesCS3B01G045300 chr3D 73.254 1847 411 63 1169 2980 15328640 15330438 7.760000e-167 597.0
7 TraesCS3B01G045300 chr3D 87.349 166 18 2 3089 3254 15922853 15923015 1.990000e-43 187.0
8 TraesCS3B01G045300 chr3D 88.462 104 6 6 876 977 608805117 608805018 2.050000e-23 121.0
9 TraesCS3B01G045300 chr3A 93.956 1638 61 14 10 1640 20740815 20739209 0.000000e+00 2442.0
10 TraesCS3B01G045300 chr3A 84.349 2249 296 39 1014 3254 20720209 20718009 0.000000e+00 2152.0
11 TraesCS3B01G045300 chr3A 94.181 1392 67 7 1615 3002 20739032 20737651 0.000000e+00 2109.0
12 TraesCS3B01G045300 chr3A 80.163 1472 225 43 1804 3255 20735114 20733690 0.000000e+00 1038.0
13 TraesCS3B01G045300 chr3A 82.582 821 131 12 948 1763 20735929 20735116 0.000000e+00 713.0
14 TraesCS3B01G045300 chr3A 93.632 424 22 5 3284 3704 336514347 336514768 2.750000e-176 628.0
15 TraesCS3B01G045300 chr3A 78.840 586 122 2 2384 2968 20955163 20954579 1.090000e-105 394.0
16 TraesCS3B01G045300 chr3A 92.166 217 12 3 3069 3283 20737654 20737441 6.810000e-78 302.0
17 TraesCS3B01G045300 chr1B 93.531 912 51 8 3284 4191 488541882 488542789 0.000000e+00 1351.0
18 TraesCS3B01G045300 chr1B 90.782 933 59 8 3283 4191 488546441 488547370 0.000000e+00 1221.0
19 TraesCS3B01G045300 chr1B 85.345 116 13 4 844 957 26636570 26636683 2.650000e-22 117.0
20 TraesCS3B01G045300 chr1B 97.500 40 1 0 4152 4191 184217478 184217517 7.520000e-08 69.4
21 TraesCS3B01G045300 chr1B 92.308 39 3 0 4153 4191 134307433 134307395 5.850000e-04 56.5
22 TraesCS3B01G045300 chr2A 94.272 419 18 6 3284 3697 17228247 17228664 1.640000e-178 636.0
23 TraesCS3B01G045300 chr7D 93.039 431 22 8 3281 3705 80068576 80069004 1.280000e-174 623.0
24 TraesCS3B01G045300 chr7D 90.476 105 5 4 857 957 519264527 519264630 2.630000e-27 134.0
25 TraesCS3B01G045300 chr6B 93.365 422 22 6 3280 3695 511492300 511491879 1.660000e-173 619.0
26 TraesCS3B01G045300 chr2B 92.757 428 23 8 3283 3704 385755482 385755907 2.770000e-171 612.0
27 TraesCS3B01G045300 chr2B 93.023 43 3 0 4149 4191 385756347 385756389 3.500000e-06 63.9
28 TraesCS3B01G045300 chr7A 92.706 425 26 5 3284 3705 495187228 495186806 3.580000e-170 608.0
29 TraesCS3B01G045300 chr4B 87.475 503 54 9 3283 3782 381642711 381643207 4.700000e-159 571.0
30 TraesCS3B01G045300 chr4B 85.593 118 10 6 869 984 653488539 653488427 2.650000e-22 117.0
31 TraesCS3B01G045300 chr5D 93.407 91 2 3 876 965 382868492 382868405 9.450000e-27 132.0
32 TraesCS3B01G045300 chr5D 91.579 95 6 2 872 965 30547826 30547733 3.400000e-26 130.0
33 TraesCS3B01G045300 chr5D 92.391 92 5 2 868 958 240428037 240428127 3.400000e-26 130.0
34 TraesCS3B01G045300 chr4A 88.182 110 10 3 867 975 83770817 83770924 1.220000e-25 128.0


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 TraesCS3B01G045300 chr3B 22836079 22840269 4190 False 7740.00 7740 100.0000 1 4191 1 chr3B.!!$F5 4190
1 TraesCS3B01G045300 chr3B 22699278 22701235 1957 False 1940.00 1940 84.5800 956 2928 1 chr3B.!!$F2 1972
2 TraesCS3B01G045300 chr3B 22788351 22790116 1765 False 1716.00 1716 84.2640 1163 2928 1 chr3B.!!$F3 1765
3 TraesCS3B01G045300 chr3B 22804745 22806488 1743 False 1596.00 1596 83.2960 1010 2770 1 chr3B.!!$F4 1760
4 TraesCS3B01G045300 chr3B 22203362 22205134 1772 False 525.00 525 72.6220 1157 2939 1 chr3B.!!$F1 1782
5 TraesCS3B01G045300 chr3D 15920778 15923015 2237 False 1428.00 2669 89.2465 956 3254 2 chr3D.!!$F2 2298
6 TraesCS3B01G045300 chr3D 15328640 15330438 1798 False 597.00 597 73.2540 1169 2980 1 chr3D.!!$F1 1811
7 TraesCS3B01G045300 chr3A 20718009 20720209 2200 True 2152.00 2152 84.3490 1014 3254 1 chr3A.!!$R1 2240
8 TraesCS3B01G045300 chr3A 20733690 20740815 7125 True 1320.80 2442 88.6096 10 3283 5 chr3A.!!$R3 3273
9 TraesCS3B01G045300 chr3A 20954579 20955163 584 True 394.00 394 78.8400 2384 2968 1 chr3A.!!$R2 584
10 TraesCS3B01G045300 chr1B 488541882 488547370 5488 False 1286.00 1351 92.1565 3283 4191 2 chr1B.!!$F3 908
11 TraesCS3B01G045300 chr2B 385755482 385756389 907 False 337.95 612 92.8900 3283 4191 2 chr2B.!!$F1 908

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
532 537 0.107848 CTCGGTGGGGGTGTTACATC 60.108 60.000 0.0 0.0 0.00 3.06 F
535 540 0.392060 GGTGGGGGTGTTACATCGAC 60.392 60.000 0.0 0.0 0.00 4.20 F
703 708 1.007964 CGAGCTCATAGCCTCACCG 60.008 63.158 15.4 0.0 43.77 4.94 F
2308 2551 1.615392 AGTGCTTTCAATGGAACTGGC 59.385 47.619 0.0 0.0 31.35 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2446 2689 1.807814 ATAAGCCTCCCAACCGATCT 58.192 50.000 0.0 0.0 0.00 2.75 R
2496 2739 2.128035 GGAATATCACTCGTGAAGGCG 58.872 52.381 3.6 0.0 43.58 5.52 R
2643 2886 1.138266 CGAGGTATCGTTCCCACCAAT 59.862 52.381 0.0 0.0 44.09 3.16 R
3405 7457 0.169009 GGAGTTGGTTCAGCGATTGC 59.831 55.000 0.0 0.0 43.24 3.56 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 5.818678 AAAACCCAGAATAAAAAGGGGAC 57.181 39.130 1.34 0.00 45.83 4.46
96 98 7.624360 AAGATGTGTTTTAGTTCACTTGACA 57.376 32.000 0.00 0.00 35.82 3.58
105 107 2.874701 AGTTCACTTGACATGCTCACAC 59.125 45.455 0.00 0.00 0.00 3.82
150 152 9.474313 TGTCTAATAAATATTGGGCTTGACTTT 57.526 29.630 3.36 0.00 31.15 2.66
161 163 3.181480 GGGCTTGACTTTGCAGTTAACAA 60.181 43.478 8.61 0.00 31.22 2.83
168 170 5.526111 TGACTTTGCAGTTAACAACCTCTAC 59.474 40.000 8.61 0.00 31.22 2.59
177 179 6.145696 CAGTTAACAACCTCTACTGCACTTAC 59.854 42.308 8.61 0.00 31.01 2.34
178 180 3.679824 ACAACCTCTACTGCACTTACC 57.320 47.619 0.00 0.00 0.00 2.85
179 181 3.240302 ACAACCTCTACTGCACTTACCT 58.760 45.455 0.00 0.00 0.00 3.08
180 182 3.646637 ACAACCTCTACTGCACTTACCTT 59.353 43.478 0.00 0.00 0.00 3.50
181 183 4.102681 ACAACCTCTACTGCACTTACCTTT 59.897 41.667 0.00 0.00 0.00 3.11
182 184 4.976540 ACCTCTACTGCACTTACCTTTT 57.023 40.909 0.00 0.00 0.00 2.27
183 185 5.306114 ACCTCTACTGCACTTACCTTTTT 57.694 39.130 0.00 0.00 0.00 1.94
184 186 5.306394 ACCTCTACTGCACTTACCTTTTTC 58.694 41.667 0.00 0.00 0.00 2.29
185 187 5.071923 ACCTCTACTGCACTTACCTTTTTCT 59.928 40.000 0.00 0.00 0.00 2.52
186 188 6.269307 ACCTCTACTGCACTTACCTTTTTCTA 59.731 38.462 0.00 0.00 0.00 2.10
187 189 7.038231 ACCTCTACTGCACTTACCTTTTTCTAT 60.038 37.037 0.00 0.00 0.00 1.98
188 190 7.824779 CCTCTACTGCACTTACCTTTTTCTATT 59.175 37.037 0.00 0.00 0.00 1.73
189 191 9.220767 CTCTACTGCACTTACCTTTTTCTATTT 57.779 33.333 0.00 0.00 0.00 1.40
190 192 9.216117 TCTACTGCACTTACCTTTTTCTATTTC 57.784 33.333 0.00 0.00 0.00 2.17
191 193 7.817418 ACTGCACTTACCTTTTTCTATTTCA 57.183 32.000 0.00 0.00 0.00 2.69
192 194 7.649057 ACTGCACTTACCTTTTTCTATTTCAC 58.351 34.615 0.00 0.00 0.00 3.18
193 195 7.502561 ACTGCACTTACCTTTTTCTATTTCACT 59.497 33.333 0.00 0.00 0.00 3.41
194 196 8.232913 TGCACTTACCTTTTTCTATTTCACTT 57.767 30.769 0.00 0.00 0.00 3.16
195 197 9.344772 TGCACTTACCTTTTTCTATTTCACTTA 57.655 29.630 0.00 0.00 0.00 2.24
223 225 8.677148 TTCTTTCTACTGCACTTTTTCATACT 57.323 30.769 0.00 0.00 0.00 2.12
253 255 7.650104 GTGTTAGATTCTACTGCATCTACCTTC 59.350 40.741 0.00 0.00 32.73 3.46
301 304 5.431765 AGTAGAAAGATGCAATACAGTGGG 58.568 41.667 0.00 0.00 0.00 4.61
307 310 5.587388 AGATGCAATACAGTGGGAAAATG 57.413 39.130 0.00 0.00 0.00 2.32
323 326 5.700373 GGGAAAATGCAATGCAGTAGAAAAA 59.300 36.000 14.98 0.00 43.65 1.94
324 327 6.347644 GGGAAAATGCAATGCAGTAGAAAAAC 60.348 38.462 14.98 0.00 43.65 2.43
326 329 7.598493 GGAAAATGCAATGCAGTAGAAAAACTA 59.402 33.333 14.98 0.00 43.65 2.24
327 330 9.143631 GAAAATGCAATGCAGTAGAAAAACTAT 57.856 29.630 14.98 0.00 43.65 2.12
443 446 2.773993 TAAGGACGGATGGTTCAACC 57.226 50.000 0.00 0.00 39.22 3.77
447 450 2.158519 AGGACGGATGGTTCAACCTTTT 60.159 45.455 8.40 0.00 39.58 2.27
482 487 1.365028 AGGAGTGGAGGCCCTTAACTA 59.635 52.381 0.00 0.00 0.00 2.24
491 496 5.193728 TGGAGGCCCTTAACTAGATTTTCAT 59.806 40.000 0.00 0.00 0.00 2.57
532 537 0.107848 CTCGGTGGGGGTGTTACATC 60.108 60.000 0.00 0.00 0.00 3.06
535 540 0.392060 GGTGGGGGTGTTACATCGAC 60.392 60.000 0.00 0.00 0.00 4.20
540 545 2.234414 GGGGGTGTTACATCGACTTACA 59.766 50.000 0.00 0.00 0.00 2.41
552 557 2.495669 TCGACTTACATGCACCATCTCA 59.504 45.455 0.00 0.00 0.00 3.27
610 615 3.931707 GGGGGTGGAAGAAAGGGA 58.068 61.111 0.00 0.00 0.00 4.20
622 627 4.287326 GGAAGAAAGGGAGAAGAAGAGGAA 59.713 45.833 0.00 0.00 0.00 3.36
633 638 4.959839 AGAAGAAGAGGAAACTAGCTAGGG 59.040 45.833 24.35 1.84 44.43 3.53
660 665 7.121759 CACTCTTCCATCCAACATTTAACAGAT 59.878 37.037 0.00 0.00 0.00 2.90
684 689 6.919775 ACAAGTCCTTCTTTCTTAGCTCTA 57.080 37.500 0.00 0.00 33.63 2.43
703 708 1.007964 CGAGCTCATAGCCTCACCG 60.008 63.158 15.40 0.00 43.77 4.94
708 713 2.700897 AGCTCATAGCCTCACCGTAAAT 59.299 45.455 0.00 0.00 43.77 1.40
784 789 6.061022 TCCTATTTGTCATTCAGCCACTTA 57.939 37.500 0.00 0.00 0.00 2.24
786 791 7.801104 TCCTATTTGTCATTCAGCCACTTATA 58.199 34.615 0.00 0.00 0.00 0.98
905 912 5.737290 CGTCCCATAATAAAGAGCGTTTTTG 59.263 40.000 0.00 0.00 0.00 2.44
930 937 5.986004 ACTAGTGTAGTGTCAAAAAGTGC 57.014 39.130 0.00 0.00 37.69 4.40
943 950 9.226345 GTGTCAAAAAGTGCTCTTATATTATGC 57.774 33.333 0.66 0.00 33.09 3.14
944 951 8.955388 TGTCAAAAAGTGCTCTTATATTATGCA 58.045 29.630 0.66 0.00 33.09 3.96
948 955 6.545504 AAGTGCTCTTATATTATGCAACGG 57.454 37.500 0.00 0.00 35.34 4.44
949 956 5.853936 AGTGCTCTTATATTATGCAACGGA 58.146 37.500 0.00 0.00 35.34 4.69
1062 1069 7.315247 TCCAACATATGTTTTCACTATTCCG 57.685 36.000 18.50 3.11 35.83 4.30
1083 1090 5.753438 TCCGACATTGCAACACTTAGATATC 59.247 40.000 0.00 0.00 0.00 1.63
1420 1430 5.045872 GCTGCAATTTAATGAGATTCCCAC 58.954 41.667 0.00 0.00 0.00 4.61
1594 1604 6.595682 ACATCATATGTTCTCCCTTTCGATT 58.404 36.000 1.90 0.00 41.63 3.34
1732 1951 3.840666 ACTTCACTCTCTATCTTGGCCAA 59.159 43.478 19.25 19.25 0.00 4.52
1792 2017 4.696479 ACCTGAGTCAGTTTGTGATTCT 57.304 40.909 18.74 0.00 41.45 2.40
1896 2121 3.367025 GTGTTGAGTTTACGGGAGAATCG 59.633 47.826 0.00 0.00 34.37 3.34
2308 2551 1.615392 AGTGCTTTCAATGGAACTGGC 59.385 47.619 0.00 0.00 31.35 4.85
2311 2554 2.224018 TGCTTTCAATGGAACTGGCAAC 60.224 45.455 2.86 0.00 33.43 4.17
2326 2569 2.290641 TGGCAACGTTGAACATCCCTAT 60.291 45.455 31.62 0.00 42.51 2.57
2327 2570 2.354821 GGCAACGTTGAACATCCCTATC 59.645 50.000 31.62 8.87 0.00 2.08
2328 2571 3.006940 GCAACGTTGAACATCCCTATCA 58.993 45.455 31.62 0.00 0.00 2.15
2329 2572 3.063997 GCAACGTTGAACATCCCTATCAG 59.936 47.826 31.62 0.00 0.00 2.90
2330 2573 3.543680 ACGTTGAACATCCCTATCAGG 57.456 47.619 0.00 0.00 34.30 3.86
2331 2574 3.104512 ACGTTGAACATCCCTATCAGGA 58.895 45.455 0.00 0.00 37.67 3.86
2332 2575 3.517901 ACGTTGAACATCCCTATCAGGAA 59.482 43.478 0.00 0.00 40.04 3.36
2333 2576 4.164221 ACGTTGAACATCCCTATCAGGAAT 59.836 41.667 0.00 0.00 40.04 3.01
2446 2689 4.248174 TCATTTGATGGCACCATTCCTA 57.752 40.909 3.16 0.00 36.70 2.94
2576 2819 2.173569 ACCTGTCTCAGAACCAGCTTTT 59.826 45.455 0.00 0.00 32.44 2.27
2643 2886 4.082845 TCTTGAACTTGTCCAACAACCAA 58.917 39.130 0.00 0.00 33.96 3.67
2679 2925 1.611673 CCTCGGTCAGGTCAATTTGCT 60.612 52.381 0.00 0.00 37.53 3.91
2931 6914 4.699257 GCTTTGAGGACTTGATCTGATTGT 59.301 41.667 0.00 0.00 0.00 2.71
2932 6915 5.877012 GCTTTGAGGACTTGATCTGATTGTA 59.123 40.000 0.00 0.00 0.00 2.41
2939 6922 5.452636 GGACTTGATCTGATTGTAGGAGACC 60.453 48.000 0.00 0.00 0.00 3.85
2947 6930 1.344065 TTGTAGGAGACCGCTTCCAA 58.656 50.000 1.71 0.00 0.00 3.53
2953 6936 1.294659 GAGACCGCTTCCAAGTGCAG 61.295 60.000 0.00 0.00 35.25 4.41
2954 6937 1.598130 GACCGCTTCCAAGTGCAGT 60.598 57.895 0.00 0.00 35.25 4.40
2971 6954 1.134367 CAGTCATGCTTTGCTGGATGG 59.866 52.381 6.59 0.00 36.60 3.51
2976 6959 2.421399 GCTTTGCTGGATGGGAGCC 61.421 63.158 0.00 0.00 35.43 4.70
2980 6963 2.116869 TTGCTGGATGGGAGCCTATA 57.883 50.000 0.00 0.00 35.43 1.31
2981 6964 1.352083 TGCTGGATGGGAGCCTATAC 58.648 55.000 0.00 0.00 35.43 1.47
2982 6965 0.247736 GCTGGATGGGAGCCTATACG 59.752 60.000 0.00 0.00 0.00 3.06
2983 6966 1.633774 CTGGATGGGAGCCTATACGT 58.366 55.000 0.00 0.00 0.00 3.57
2984 6967 1.546476 CTGGATGGGAGCCTATACGTC 59.454 57.143 0.00 0.00 0.00 4.34
2985 6968 1.147191 TGGATGGGAGCCTATACGTCT 59.853 52.381 0.00 0.00 0.00 4.18
2986 6969 2.249139 GGATGGGAGCCTATACGTCTT 58.751 52.381 0.00 0.00 0.00 3.01
2987 6970 2.028930 GGATGGGAGCCTATACGTCTTG 60.029 54.545 0.00 0.00 0.00 3.02
2988 6971 2.154567 TGGGAGCCTATACGTCTTGT 57.845 50.000 0.00 0.00 0.00 3.16
2989 6972 1.754803 TGGGAGCCTATACGTCTTGTG 59.245 52.381 0.00 0.00 0.00 3.33
2993 6976 2.860735 GAGCCTATACGTCTTGTGCAAG 59.139 50.000 5.63 5.63 39.71 4.01
2994 6977 2.233922 AGCCTATACGTCTTGTGCAAGT 59.766 45.455 11.17 0.00 39.38 3.16
2996 6979 2.348666 CCTATACGTCTTGTGCAAGTGC 59.651 50.000 11.17 0.00 39.38 4.40
3019 7002 2.408050 CTTCTAGTGAGGTGTGTGCAC 58.592 52.381 10.75 10.75 44.53 4.57
3043 7056 4.975502 CGCTCTCATGTCTTATCTTCTGTC 59.024 45.833 0.00 0.00 0.00 3.51
3046 7059 6.125327 TCTCATGTCTTATCTTCTGTCGTC 57.875 41.667 0.00 0.00 0.00 4.20
3077 7125 5.887214 TCTGTAAGATATAGCTTGGCCAA 57.113 39.130 19.25 19.25 38.67 4.52
3078 7126 6.247229 TCTGTAAGATATAGCTTGGCCAAA 57.753 37.500 20.91 5.01 38.67 3.28
3079 7127 6.841601 TCTGTAAGATATAGCTTGGCCAAAT 58.158 36.000 20.91 12.93 38.67 2.32
3080 7128 6.712095 TCTGTAAGATATAGCTTGGCCAAATG 59.288 38.462 20.91 10.17 38.67 2.32
3081 7129 5.769662 TGTAAGATATAGCTTGGCCAAATGG 59.230 40.000 20.91 9.36 38.53 3.16
3082 7130 4.459852 AGATATAGCTTGGCCAAATGGT 57.540 40.909 20.91 16.56 37.57 3.55
3083 7131 4.808042 AGATATAGCTTGGCCAAATGGTT 58.192 39.130 20.91 8.71 37.57 3.67
3084 7132 5.952387 AGATATAGCTTGGCCAAATGGTTA 58.048 37.500 20.91 10.76 37.57 2.85
3085 7133 6.372931 AGATATAGCTTGGCCAAATGGTTAA 58.627 36.000 20.91 6.51 37.57 2.01
3086 7134 6.838612 AGATATAGCTTGGCCAAATGGTTAAA 59.161 34.615 20.91 0.00 37.57 1.52
3087 7135 3.401033 AGCTTGGCCAAATGGTTAAAC 57.599 42.857 20.91 0.75 37.57 2.01
3112 7160 9.147732 ACATCTTGTAATGTATCTCCTGTCATA 57.852 33.333 0.00 0.00 38.09 2.15
3116 7164 7.482169 TGTAATGTATCTCCTGTCATATCCC 57.518 40.000 0.00 0.00 0.00 3.85
3122 7170 2.434336 TCTCCTGTCATATCCCGGTTTG 59.566 50.000 0.00 0.00 0.00 2.93
3125 7173 3.458118 TCCTGTCATATCCCGGTTTGAAT 59.542 43.478 0.00 0.00 0.00 2.57
3129 7177 4.080582 TGTCATATCCCGGTTTGAATGTCT 60.081 41.667 0.00 0.00 0.00 3.41
3141 7189 6.206498 GGTTTGAATGTCTTGTGTAGGTTTC 58.794 40.000 0.00 0.00 0.00 2.78
3142 7190 5.666969 TTGAATGTCTTGTGTAGGTTTCG 57.333 39.130 0.00 0.00 0.00 3.46
3212 7263 2.102109 TAAACTCCACGCGGCCTGAA 62.102 55.000 12.47 0.00 0.00 3.02
3237 7289 2.222729 GGTTATACGCTTCAGCAACACG 60.223 50.000 0.00 0.00 42.21 4.49
3255 7307 6.092259 GCAACACGTCTGATTTCCTTTATACT 59.908 38.462 0.00 0.00 0.00 2.12
3256 7308 7.360946 GCAACACGTCTGATTTCCTTTATACTT 60.361 37.037 0.00 0.00 0.00 2.24
3257 7309 7.596749 ACACGTCTGATTTCCTTTATACTTG 57.403 36.000 0.00 0.00 0.00 3.16
3258 7310 7.159372 ACACGTCTGATTTCCTTTATACTTGT 58.841 34.615 0.00 0.00 0.00 3.16
3259 7311 7.117812 ACACGTCTGATTTCCTTTATACTTGTG 59.882 37.037 0.00 0.00 0.00 3.33
3260 7312 6.594159 ACGTCTGATTTCCTTTATACTTGTGG 59.406 38.462 0.00 0.00 0.00 4.17
3261 7313 6.456988 CGTCTGATTTCCTTTATACTTGTGGC 60.457 42.308 0.00 0.00 0.00 5.01
3262 7314 6.374333 GTCTGATTTCCTTTATACTTGTGGCA 59.626 38.462 0.00 0.00 0.00 4.92
3263 7315 6.945435 TCTGATTTCCTTTATACTTGTGGCAA 59.055 34.615 0.00 0.00 0.00 4.52
3264 7316 6.919721 TGATTTCCTTTATACTTGTGGCAAC 58.080 36.000 0.00 0.00 0.00 4.17
3265 7317 5.365403 TTTCCTTTATACTTGTGGCAACG 57.635 39.130 0.00 0.00 42.51 4.10
3266 7318 4.010667 TCCTTTATACTTGTGGCAACGT 57.989 40.909 0.00 0.00 42.51 3.99
3267 7319 3.749088 TCCTTTATACTTGTGGCAACGTG 59.251 43.478 0.00 0.00 42.51 4.49
3268 7320 3.488489 CTTTATACTTGTGGCAACGTGC 58.512 45.455 0.00 0.00 44.08 5.34
3269 7321 2.465860 TATACTTGTGGCAACGTGCT 57.534 45.000 9.31 0.00 44.28 4.40
3270 7322 1.604604 ATACTTGTGGCAACGTGCTT 58.395 45.000 9.31 0.00 44.28 3.91
3271 7323 0.941542 TACTTGTGGCAACGTGCTTC 59.058 50.000 9.31 4.72 44.28 3.86
3272 7324 1.369209 CTTGTGGCAACGTGCTTCG 60.369 57.895 9.31 0.84 44.28 3.79
3297 7349 4.931002 GTGAAACATTGATGTGAAATGGGG 59.069 41.667 0.00 0.00 41.61 4.96
3380 7432 0.609662 GCTACCAACCGTACAGGGAA 59.390 55.000 8.31 0.00 46.96 3.97
3381 7433 1.405121 GCTACCAACCGTACAGGGAAG 60.405 57.143 8.31 1.56 46.96 3.46
3405 7457 2.601504 CGTACACGACTGATATCCACGG 60.602 54.545 14.37 8.26 43.02 4.94
3468 7520 0.660595 GTGCGATCGACCTATCCACG 60.661 60.000 21.57 0.00 0.00 4.94
3472 7524 1.871676 CGATCGACCTATCCACGAAGA 59.128 52.381 10.26 0.00 39.38 2.87
3528 7580 7.493645 GCAAGAAAATAATAGCCAAGCAATCTT 59.506 33.333 0.00 0.00 0.00 2.40
3538 7590 6.100404 AGCCAAGCAATCTTAAAATTGTGA 57.900 33.333 3.56 0.00 38.60 3.58
3567 7619 7.921041 ACTAGATGGGATTAATCTCACAAGA 57.079 36.000 20.26 5.65 40.68 3.02
3570 7622 6.540995 AGATGGGATTAATCTCACAAGATGG 58.459 40.000 20.26 0.00 40.68 3.51
3576 7629 5.512942 TTAATCTCACAAGATGGGTTCCA 57.487 39.130 0.00 0.00 41.54 3.53
3613 7666 2.799371 GCACTAGCCGCTACGAGT 59.201 61.111 0.00 0.00 33.58 4.18
3614 7667 1.139095 GCACTAGCCGCTACGAGTT 59.861 57.895 0.00 0.00 33.58 3.01
3620 7673 1.171308 AGCCGCTACGAGTTAAGACA 58.829 50.000 0.00 0.00 0.00 3.41
3624 7677 4.107622 GCCGCTACGAGTTAAGACAAATA 58.892 43.478 0.00 0.00 0.00 1.40
3662 7715 4.563337 AACTTCTCTAAACAAAACCCGC 57.437 40.909 0.00 0.00 0.00 6.13
3670 7723 2.761392 AACAAAACCCGCGTCTAAAC 57.239 45.000 4.92 0.00 0.00 2.01
3707 7760 7.255491 AGCTATTTATTAAAAGTGTACGGCC 57.745 36.000 0.00 0.00 0.00 6.13
3711 7764 2.237393 TTAAAAGTGTACGGCCGTGT 57.763 45.000 40.02 18.06 0.00 4.49
3752 7805 0.172578 TTGGACAGGACGTAGATGCG 59.827 55.000 0.00 0.00 37.94 4.73
3782 7835 2.861935 CGTCTAACTTGTTGGTGTTCGT 59.138 45.455 0.00 0.00 0.00 3.85
3822 7875 1.595929 CCCGCACGGTAACAACACT 60.596 57.895 8.49 0.00 0.00 3.55
3954 8009 2.202236 GAGCCCCATTGCCTGACTGA 62.202 60.000 0.00 0.00 0.00 3.41
3957 8012 0.393537 CCCCATTGCCTGACTGACTC 60.394 60.000 0.00 0.00 0.00 3.36
4093 8148 6.834168 AAGGTGTAGTATTTTTGTCCATGG 57.166 37.500 4.97 4.97 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 3.817931 GCTGTCCCCTTTTTATTCTGGGT 60.818 47.826 0.00 0.00 38.03 4.51
46 47 5.390567 CCTTCAAAATGTACTAACCGCTGTC 60.391 44.000 0.00 0.00 0.00 3.51
47 48 4.454504 CCTTCAAAATGTACTAACCGCTGT 59.545 41.667 0.00 0.00 0.00 4.40
48 49 4.693566 TCCTTCAAAATGTACTAACCGCTG 59.306 41.667 0.00 0.00 0.00 5.18
96 98 2.165167 CAAAGACATGGGTGTGAGCAT 58.835 47.619 0.00 0.00 39.09 3.79
161 163 4.976540 AAAAGGTAAGTGCAGTAGAGGT 57.023 40.909 0.00 0.00 0.00 3.85
168 170 7.875971 AGTGAAATAGAAAAAGGTAAGTGCAG 58.124 34.615 0.00 0.00 0.00 4.41
184 186 8.874816 GCAGTAGAAAGAAGGTAAGTGAAATAG 58.125 37.037 0.00 0.00 0.00 1.73
185 187 8.372459 TGCAGTAGAAAGAAGGTAAGTGAAATA 58.628 33.333 0.00 0.00 0.00 1.40
186 188 7.173390 GTGCAGTAGAAAGAAGGTAAGTGAAAT 59.827 37.037 0.00 0.00 0.00 2.17
187 189 6.482308 GTGCAGTAGAAAGAAGGTAAGTGAAA 59.518 38.462 0.00 0.00 0.00 2.69
188 190 5.989777 GTGCAGTAGAAAGAAGGTAAGTGAA 59.010 40.000 0.00 0.00 0.00 3.18
189 191 5.304614 AGTGCAGTAGAAAGAAGGTAAGTGA 59.695 40.000 0.00 0.00 0.00 3.41
190 192 5.542779 AGTGCAGTAGAAAGAAGGTAAGTG 58.457 41.667 0.00 0.00 0.00 3.16
191 193 5.810080 AGTGCAGTAGAAAGAAGGTAAGT 57.190 39.130 0.00 0.00 0.00 2.24
192 194 7.497925 AAAAGTGCAGTAGAAAGAAGGTAAG 57.502 36.000 0.00 0.00 0.00 2.34
193 195 7.554835 TGAAAAAGTGCAGTAGAAAGAAGGTAA 59.445 33.333 0.00 0.00 0.00 2.85
194 196 7.051623 TGAAAAAGTGCAGTAGAAAGAAGGTA 58.948 34.615 0.00 0.00 0.00 3.08
195 197 5.885912 TGAAAAAGTGCAGTAGAAAGAAGGT 59.114 36.000 0.00 0.00 0.00 3.50
223 225 6.631016 AGATGCAGTAGAATCTAACACGAAA 58.369 36.000 0.00 0.00 38.43 3.46
253 255 8.140677 TCATTGCATTTTTGTCCTGTAAAAAG 57.859 30.769 0.00 0.00 39.51 2.27
301 304 7.412137 AGTTTTTCTACTGCATTGCATTTTC 57.588 32.000 12.53 0.00 38.13 2.29
307 310 9.237846 GGATAAATAGTTTTTCTACTGCATTGC 57.762 33.333 0.46 0.46 0.00 3.56
351 354 3.618594 AGTGTATTGCTAACGAGTGCATG 59.381 43.478 0.00 0.00 39.07 4.06
462 467 0.119358 AGTTAAGGGCCTCCACTCCT 59.881 55.000 6.46 0.00 34.83 3.69
532 537 2.862536 CTGAGATGGTGCATGTAAGTCG 59.137 50.000 0.00 0.00 0.00 4.18
535 540 4.689812 GCTATCTGAGATGGTGCATGTAAG 59.310 45.833 4.96 0.00 0.00 2.34
540 545 5.306419 TCTTTAGCTATCTGAGATGGTGCAT 59.694 40.000 4.96 1.10 0.00 3.96
552 557 6.045459 TCCTCTCTGATCCTCTTTAGCTATCT 59.955 42.308 0.00 0.00 0.00 1.98
598 603 3.584848 CCTCTTCTTCTCCCTTTCTTCCA 59.415 47.826 0.00 0.00 0.00 3.53
599 604 3.841255 TCCTCTTCTTCTCCCTTTCTTCC 59.159 47.826 0.00 0.00 0.00 3.46
601 606 5.371176 AGTTTCCTCTTCTTCTCCCTTTCTT 59.629 40.000 0.00 0.00 0.00 2.52
602 607 4.910913 AGTTTCCTCTTCTTCTCCCTTTCT 59.089 41.667 0.00 0.00 0.00 2.52
603 608 5.235850 AGTTTCCTCTTCTTCTCCCTTTC 57.764 43.478 0.00 0.00 0.00 2.62
604 609 5.280266 GCTAGTTTCCTCTTCTTCTCCCTTT 60.280 44.000 0.00 0.00 0.00 3.11
605 610 4.224147 GCTAGTTTCCTCTTCTTCTCCCTT 59.776 45.833 0.00 0.00 0.00 3.95
606 611 3.772572 GCTAGTTTCCTCTTCTTCTCCCT 59.227 47.826 0.00 0.00 0.00 4.20
607 612 3.772572 AGCTAGTTTCCTCTTCTTCTCCC 59.227 47.826 0.00 0.00 0.00 4.30
608 613 5.068591 CCTAGCTAGTTTCCTCTTCTTCTCC 59.931 48.000 19.31 0.00 0.00 3.71
609 614 5.068591 CCCTAGCTAGTTTCCTCTTCTTCTC 59.931 48.000 19.31 0.00 0.00 2.87
610 615 4.959839 CCCTAGCTAGTTTCCTCTTCTTCT 59.040 45.833 19.31 0.00 0.00 2.85
622 627 2.112190 GGAAGAGTGCCCTAGCTAGTT 58.888 52.381 19.31 5.18 40.80 2.24
633 638 5.048083 TGTTAAATGTTGGATGGAAGAGTGC 60.048 40.000 0.00 0.00 0.00 4.40
660 665 6.919775 AGAGCTAAGAAAGAAGGACTTGTA 57.080 37.500 0.00 0.00 38.98 2.41
684 689 1.729470 CGGTGAGGCTATGAGCTCGT 61.729 60.000 14.07 14.07 41.99 4.18
703 708 7.209471 TGGTGGAAAGTCAATGTGTATTTAC 57.791 36.000 0.00 0.00 0.00 2.01
708 713 4.022416 GCAATGGTGGAAAGTCAATGTGTA 60.022 41.667 0.00 0.00 0.00 2.90
746 751 6.469410 ACAAATAGGAAGGTGTTCGACAATA 58.531 36.000 0.00 0.00 32.92 1.90
821 827 6.484643 AGTTTAGGAGCATGCATACATACAAG 59.515 38.462 21.98 0.00 33.67 3.16
927 934 5.120830 CCTCCGTTGCATAATATAAGAGCAC 59.879 44.000 0.00 0.00 34.56 4.40
928 935 5.237815 CCTCCGTTGCATAATATAAGAGCA 58.762 41.667 0.00 0.00 0.00 4.26
930 937 6.037786 TCCCTCCGTTGCATAATATAAGAG 57.962 41.667 0.00 0.00 0.00 2.85
943 950 7.442656 ACTTATATGAAATACTCCCTCCGTTG 58.557 38.462 0.00 0.00 0.00 4.10
944 951 7.613551 ACTTATATGAAATACTCCCTCCGTT 57.386 36.000 0.00 0.00 0.00 4.44
1062 1069 5.523916 ACGGATATCTAAGTGTTGCAATGTC 59.476 40.000 0.59 0.00 0.00 3.06
1083 1090 1.151668 CAGAGAGCTGGTTGAAACGG 58.848 55.000 0.00 0.00 38.51 4.44
1420 1430 2.351350 GGTTAAGGTGTGCCAATGAACG 60.351 50.000 0.00 0.00 37.19 3.95
1594 1604 6.472887 ACTAAGATCAAGAATTTCCAACCGA 58.527 36.000 0.00 0.00 0.00 4.69
1732 1951 8.980481 TCTTGTTTTTAGAAATCCTGAACTCT 57.020 30.769 0.00 0.00 0.00 3.24
1792 2017 3.272574 AGGTCGAGGACACGAATAGTA 57.727 47.619 0.00 0.00 43.75 1.82
1896 2121 4.947388 TGGTAGGCAACATACCTTCAAATC 59.053 41.667 9.57 0.00 42.73 2.17
2308 2551 3.623060 CCTGATAGGGATGTTCAACGTTG 59.377 47.826 22.35 22.35 0.00 4.10
2311 2554 3.819564 TCCTGATAGGGATGTTCAACG 57.180 47.619 0.00 0.00 35.59 4.10
2326 2569 8.783660 ATAGTAACAGTATCCTGAATTCCTGA 57.216 34.615 12.34 5.53 41.50 3.86
2382 2625 7.919690 TGACTGTTAAAGTTGTCAAGATCTTG 58.080 34.615 26.56 26.56 40.07 3.02
2446 2689 1.807814 ATAAGCCTCCCAACCGATCT 58.192 50.000 0.00 0.00 0.00 2.75
2496 2739 2.128035 GGAATATCACTCGTGAAGGCG 58.872 52.381 3.60 0.00 43.58 5.52
2576 2819 2.846206 AGTGCCTCTGGAATATCACCAA 59.154 45.455 3.72 0.00 36.95 3.67
2643 2886 1.138266 CGAGGTATCGTTCCCACCAAT 59.862 52.381 0.00 0.00 44.09 3.16
2679 2925 7.486551 CCTTTGAATGAACTGTTTTCAAACGTA 59.513 33.333 20.75 8.39 41.75 3.57
2931 6914 0.895530 CACTTGGAAGCGGTCTCCTA 59.104 55.000 14.14 8.02 0.00 2.94
2932 6915 1.674057 CACTTGGAAGCGGTCTCCT 59.326 57.895 14.14 0.00 0.00 3.69
2939 6922 0.167470 CATGACTGCACTTGGAAGCG 59.833 55.000 0.00 0.00 0.00 4.68
2953 6936 0.458669 CCCATCCAGCAAAGCATGAC 59.541 55.000 0.00 0.00 0.00 3.06
2954 6937 0.332293 TCCCATCCAGCAAAGCATGA 59.668 50.000 0.00 0.00 0.00 3.07
2961 6944 1.699634 GTATAGGCTCCCATCCAGCAA 59.300 52.381 0.00 0.00 38.77 3.91
2963 6946 0.247736 CGTATAGGCTCCCATCCAGC 59.752 60.000 0.00 0.00 36.02 4.85
2969 6952 1.754803 CACAAGACGTATAGGCTCCCA 59.245 52.381 0.00 0.00 37.06 4.37
2971 6954 1.136305 TGCACAAGACGTATAGGCTCC 59.864 52.381 0.00 0.00 37.06 4.70
2976 6959 3.061295 CAGCACTTGCACAAGACGTATAG 59.939 47.826 16.95 0.08 45.16 1.31
2980 6963 2.016961 CAGCACTTGCACAAGACGT 58.983 52.632 16.95 0.00 45.16 4.34
2981 6964 4.907946 CAGCACTTGCACAAGACG 57.092 55.556 16.95 8.46 45.16 4.18
2993 6976 1.001406 ACACCTCACTAGAAGCAGCAC 59.999 52.381 0.00 0.00 0.00 4.40
2994 6977 1.001293 CACACCTCACTAGAAGCAGCA 59.999 52.381 0.00 0.00 0.00 4.41
2996 6979 2.681706 CACACACCTCACTAGAAGCAG 58.318 52.381 0.00 0.00 0.00 4.24
3019 7002 4.202101 ACAGAAGATAAGACATGAGAGCGG 60.202 45.833 0.00 0.00 0.00 5.52
3021 7005 4.975502 CGACAGAAGATAAGACATGAGAGC 59.024 45.833 0.00 0.00 0.00 4.09
3022 7006 6.038161 AGACGACAGAAGATAAGACATGAGAG 59.962 42.308 0.00 0.00 0.00 3.20
3024 7008 5.970612 CAGACGACAGAAGATAAGACATGAG 59.029 44.000 0.00 0.00 0.00 2.90
3026 7010 5.645624 ACAGACGACAGAAGATAAGACATG 58.354 41.667 0.00 0.00 0.00 3.21
3043 7056 9.976255 GCTATATCTTACAGATAAGTACAGACG 57.024 37.037 0.00 0.00 40.28 4.18
3067 7115 2.703007 TGTTTAACCATTTGGCCAAGCT 59.297 40.909 19.48 7.58 39.32 3.74
3068 7116 3.118905 TGTTTAACCATTTGGCCAAGC 57.881 42.857 19.48 0.00 39.32 4.01
3069 7117 5.151297 AGATGTTTAACCATTTGGCCAAG 57.849 39.130 19.48 10.09 39.32 3.61
3070 7118 5.163258 ACAAGATGTTTAACCATTTGGCCAA 60.163 36.000 16.05 16.05 39.32 4.52
3071 7119 4.346418 ACAAGATGTTTAACCATTTGGCCA 59.654 37.500 0.00 0.00 39.32 5.36
3072 7120 4.893608 ACAAGATGTTTAACCATTTGGCC 58.106 39.130 0.00 0.00 39.32 5.36
3073 7121 7.602265 ACATTACAAGATGTTTAACCATTTGGC 59.398 33.333 0.00 0.00 36.92 4.52
3079 7127 9.391006 GGAGATACATTACAAGATGTTTAACCA 57.609 33.333 0.00 0.00 40.54 3.67
3080 7128 9.614792 AGGAGATACATTACAAGATGTTTAACC 57.385 33.333 0.00 0.00 40.54 2.85
3083 7131 9.817809 GACAGGAGATACATTACAAGATGTTTA 57.182 33.333 0.00 0.00 40.54 2.01
3084 7132 8.321353 TGACAGGAGATACATTACAAGATGTTT 58.679 33.333 0.00 0.00 40.54 2.83
3085 7133 7.851228 TGACAGGAGATACATTACAAGATGTT 58.149 34.615 0.00 0.00 40.54 2.71
3086 7134 7.423844 TGACAGGAGATACATTACAAGATGT 57.576 36.000 0.00 0.00 42.57 3.06
3101 7149 2.434336 CAAACCGGGATATGACAGGAGA 59.566 50.000 6.32 0.00 0.00 3.71
3112 7160 2.819608 CACAAGACATTCAAACCGGGAT 59.180 45.455 6.32 0.00 0.00 3.85
3116 7164 3.813166 ACCTACACAAGACATTCAAACCG 59.187 43.478 0.00 0.00 0.00 4.44
3122 7170 3.746492 AGCGAAACCTACACAAGACATTC 59.254 43.478 0.00 0.00 0.00 2.67
3125 7173 2.869801 CAAGCGAAACCTACACAAGACA 59.130 45.455 0.00 0.00 0.00 3.41
3129 7177 2.103432 TCTCCAAGCGAAACCTACACAA 59.897 45.455 0.00 0.00 0.00 3.33
3141 7189 4.378459 GGTTACAAGATTTGTCTCCAAGCG 60.378 45.833 0.00 0.00 44.12 4.68
3142 7190 4.518970 TGGTTACAAGATTTGTCTCCAAGC 59.481 41.667 12.34 6.53 44.12 4.01
3181 7232 6.864685 CCGCGTGGAGTTTATATTTATAGTCA 59.135 38.462 10.20 0.00 37.49 3.41
3190 7241 0.756903 AGGCCGCGTGGAGTTTATAT 59.243 50.000 21.76 0.00 37.49 0.86
3191 7242 0.179094 CAGGCCGCGTGGAGTTTATA 60.179 55.000 21.76 0.00 37.49 0.98
3194 7245 2.951475 TTTCAGGCCGCGTGGAGTTT 62.951 55.000 21.76 0.00 37.49 2.66
3212 7263 3.343941 TGCTGAAGCGTATAACCCTTT 57.656 42.857 0.00 0.00 45.83 3.11
3230 7281 3.626028 AAAGGAAATCAGACGTGTTGC 57.374 42.857 0.00 0.00 0.00 4.17
3237 7289 6.374333 TGCCACAAGTATAAAGGAAATCAGAC 59.626 38.462 0.00 0.00 0.00 3.51
3255 7307 2.712539 CGAAGCACGTTGCCACAA 59.287 55.556 6.39 0.00 46.52 3.33
3264 7316 2.036217 CAATGTTTCACACGAAGCACG 58.964 47.619 0.00 1.99 43.93 5.34
3265 7317 3.332761 TCAATGTTTCACACGAAGCAC 57.667 42.857 0.00 0.00 43.93 4.40
3266 7318 3.314913 ACATCAATGTTTCACACGAAGCA 59.685 39.130 0.00 0.00 45.01 3.91
3267 7319 3.665409 CACATCAATGTTTCACACGAAGC 59.335 43.478 0.00 0.00 39.39 3.86
3268 7320 5.094429 TCACATCAATGTTTCACACGAAG 57.906 39.130 0.00 0.00 39.39 3.79
3269 7321 5.491635 TTCACATCAATGTTTCACACGAA 57.508 34.783 0.00 0.00 39.39 3.85
3270 7322 5.491635 TTTCACATCAATGTTTCACACGA 57.508 34.783 0.00 0.00 39.39 4.35
3271 7323 5.117440 CCATTTCACATCAATGTTTCACACG 59.883 40.000 0.00 0.00 39.39 4.49
3272 7324 5.406175 CCCATTTCACATCAATGTTTCACAC 59.594 40.000 0.00 0.00 39.39 3.82
3273 7325 5.511031 CCCCATTTCACATCAATGTTTCACA 60.511 40.000 0.00 0.00 39.39 3.58
3274 7326 4.931002 CCCCATTTCACATCAATGTTTCAC 59.069 41.667 0.00 0.00 39.39 3.18
3275 7327 4.563168 GCCCCATTTCACATCAATGTTTCA 60.563 41.667 0.00 0.00 39.39 2.69
3276 7328 3.934579 GCCCCATTTCACATCAATGTTTC 59.065 43.478 0.00 0.00 39.39 2.78
3277 7329 3.307621 GGCCCCATTTCACATCAATGTTT 60.308 43.478 0.00 0.00 39.39 2.83
3278 7330 2.236893 GGCCCCATTTCACATCAATGTT 59.763 45.455 0.00 0.00 39.39 2.71
3279 7331 1.832998 GGCCCCATTTCACATCAATGT 59.167 47.619 0.00 0.00 42.84 2.71
3280 7332 1.139455 GGGCCCCATTTCACATCAATG 59.861 52.381 12.23 0.00 0.00 2.82
3281 7333 1.499368 GGGCCCCATTTCACATCAAT 58.501 50.000 12.23 0.00 0.00 2.57
3282 7334 0.969917 CGGGCCCCATTTCACATCAA 60.970 55.000 18.66 0.00 0.00 2.57
3283 7335 1.379710 CGGGCCCCATTTCACATCA 60.380 57.895 18.66 0.00 0.00 3.07
3284 7336 0.468029 ATCGGGCCCCATTTCACATC 60.468 55.000 18.66 0.00 0.00 3.06
3285 7337 0.468029 GATCGGGCCCCATTTCACAT 60.468 55.000 18.66 0.00 0.00 3.21
3286 7338 1.077068 GATCGGGCCCCATTTCACA 60.077 57.895 18.66 0.00 0.00 3.58
3287 7339 0.395724 AAGATCGGGCCCCATTTCAC 60.396 55.000 18.66 0.00 0.00 3.18
3288 7340 0.334676 AAAGATCGGGCCCCATTTCA 59.665 50.000 18.66 0.00 0.00 2.69
3289 7341 1.032794 GAAAGATCGGGCCCCATTTC 58.967 55.000 18.66 16.81 0.00 2.17
3290 7342 0.751643 CGAAAGATCGGGCCCCATTT 60.752 55.000 18.66 12.02 45.32 2.32
3291 7343 1.152963 CGAAAGATCGGGCCCCATT 60.153 57.895 18.66 0.52 45.32 3.16
3292 7344 2.510906 CGAAAGATCGGGCCCCAT 59.489 61.111 18.66 9.68 45.32 4.00
3380 7432 2.877168 GGATATCAGTCGTGTACGGTCT 59.123 50.000 4.83 1.48 40.29 3.85
3381 7433 2.615447 TGGATATCAGTCGTGTACGGTC 59.385 50.000 4.83 0.00 40.29 4.79
3405 7457 0.169009 GGAGTTGGTTCAGCGATTGC 59.831 55.000 0.00 0.00 43.24 3.56
3450 7502 0.816421 TCGTGGATAGGTCGATCGCA 60.816 55.000 11.09 0.00 0.00 5.10
3479 7531 2.877786 TGTTCTTCGAATTGCTTGCAGA 59.122 40.909 0.00 0.00 0.00 4.26
3490 7542 9.773328 CTATTATTTTCTTGCATGTTCTTCGAA 57.227 29.630 0.00 0.00 0.00 3.71
3543 7595 7.921041 TCTTGTGAGATTAATCCCATCTAGT 57.079 36.000 11.92 0.00 30.70 2.57
3551 7603 5.532779 GGAACCCATCTTGTGAGATTAATCC 59.467 44.000 11.92 4.63 40.67 3.01
3552 7604 6.122277 TGGAACCCATCTTGTGAGATTAATC 58.878 40.000 7.41 7.41 40.67 1.75
3555 7607 5.512942 TTGGAACCCATCTTGTGAGATTA 57.487 39.130 0.00 0.00 40.67 1.75
3566 7618 4.713792 AGACATCCTATTGGAACCCATC 57.286 45.455 0.00 0.00 46.80 3.51
3567 7619 4.478317 TCAAGACATCCTATTGGAACCCAT 59.522 41.667 0.00 0.00 46.80 4.00
3570 7622 3.871594 CGTCAAGACATCCTATTGGAACC 59.128 47.826 0.00 0.00 46.80 3.62
3576 7629 2.481449 GCGACCGTCAAGACATCCTATT 60.481 50.000 0.00 0.00 0.00 1.73
3662 7715 5.821995 AGCTAGTCTAGGTTAGGTTTAGACG 59.178 44.000 5.73 0.00 44.95 4.18
3694 7747 1.161563 CCACACGGCCGTACACTTTT 61.162 55.000 33.70 1.55 0.00 2.27
3711 7764 0.386476 GATCCACGCGTGTATACCCA 59.614 55.000 34.81 11.87 0.00 4.51
3752 7805 0.804933 CAAGTTAGACGGCCGGCTAC 60.805 60.000 40.00 30.93 35.10 3.58
3762 7815 4.093850 ACAACGAACACCAACAAGTTAGAC 59.906 41.667 0.00 0.00 0.00 2.59
3765 7818 3.374678 GGACAACGAACACCAACAAGTTA 59.625 43.478 0.00 0.00 0.00 2.24
3767 7820 1.741145 GGACAACGAACACCAACAAGT 59.259 47.619 0.00 0.00 0.00 3.16
3909 7963 1.082117 GCATGCAATCAAGGTGCTGC 61.082 55.000 14.21 0.00 42.69 5.25
3910 7964 0.245266 TGCATGCAATCAAGGTGCTG 59.755 50.000 20.30 0.00 42.69 4.41
3954 8009 1.089920 GAAGGTGCATGCAATCGAGT 58.910 50.000 24.58 8.67 0.00 4.18
3957 8012 1.600957 CCTAGAAGGTGCATGCAATCG 59.399 52.381 24.58 9.20 0.00 3.34


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

AutoCloner maintained by Alex Coulton.