Multiple sequence alignment - TraesCS3D01G274800

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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 TraesCS3D01G274800 chr3D 100.000 1826 0 0 853 2678 380979197 380981022 0.000000e+00 3373
1 TraesCS3D01G274800 chr3D 89.601 1279 89 21 961 2203 83764045 83762775 0.000000e+00 1585
2 TraesCS3D01G274800 chr3D 100.000 583 0 0 1 583 380978345 380978927 0.000000e+00 1077
3 TraesCS3D01G274800 chr3D 90.223 583 38 11 4 567 83825485 83824903 0.000000e+00 743
4 TraesCS3D01G274800 chr3D 83.003 606 67 24 4 577 607462943 607463544 1.420000e-142 516
5 TraesCS3D01G274800 chr3D 86.813 455 56 4 2227 2678 480145091 480144638 3.080000e-139 505
6 TraesCS3D01G274800 chr3D 95.890 73 2 1 853 924 83764120 83764048 1.680000e-22 117
7 TraesCS3D01G274800 chr2D 90.952 1282 58 8 936 2205 21786450 21787685 0.000000e+00 1672
8 TraesCS3D01G274800 chr2D 89.272 1277 79 21 960 2203 43109975 43111226 0.000000e+00 1546
9 TraesCS3D01G274800 chr2D 93.392 454 27 3 2227 2678 43111679 43112131 0.000000e+00 669
10 TraesCS3D01G274800 chr2D 91.076 437 26 4 4 428 43108968 43109403 1.790000e-161 579
11 TraesCS3D01G274800 chr5D 86.988 1368 105 47 853 2203 108352773 108351462 0.000000e+00 1472
12 TraesCS3D01G274800 chr5D 83.109 1113 138 29 853 1936 84282070 84280979 0.000000e+00 968
13 TraesCS3D01G274800 chr5D 82.950 739 102 14 1001 1722 389929705 389928974 0.000000e+00 645
14 TraesCS3D01G274800 chr5D 89.552 469 32 4 4 455 108353643 108353175 1.790000e-161 579
15 TraesCS3D01G274800 chr5D 83.418 591 62 20 4 577 15078469 15079040 1.420000e-142 516
16 TraesCS3D01G274800 chr5D 90.296 371 31 4 4 371 535573442 535573074 5.190000e-132 481
17 TraesCS3D01G274800 chr1D 87.940 1136 97 17 960 2059 453488901 453487770 0.000000e+00 1303
18 TraesCS3D01G274800 chr1D 90.995 422 35 2 4 422 453500699 453500278 1.390000e-157 566
19 TraesCS3D01G274800 chr1D 87.500 456 51 6 2227 2678 453487714 453487261 3.060000e-144 521
20 TraesCS3D01G274800 chr1D 92.105 76 5 1 853 927 453488975 453488900 3.650000e-19 106
21 TraesCS3D01G274800 chr6A 86.176 1237 127 23 853 2059 156191808 156190586 0.000000e+00 1297
22 TraesCS3D01G274800 chr6A 88.561 813 65 13 1417 2203 74856987 74856177 0.000000e+00 961
23 TraesCS3D01G274800 chr6A 87.253 557 55 14 853 1406 74886869 74886326 2.930000e-174 621
24 TraesCS3D01G274800 chr3A 90.095 949 70 10 975 1902 56811415 56812360 0.000000e+00 1210
25 TraesCS3D01G274800 chr3A 84.386 570 59 16 4 544 434042836 434042268 1.410000e-147 532
26 TraesCS3D01G274800 chr3A 87.045 440 39 11 4 428 30144360 30143924 5.190000e-132 481
27 TraesCS3D01G274800 chr3A 84.835 455 66 3 2227 2678 434040842 434040388 3.140000e-124 455
28 TraesCS3D01G274800 chrUn 84.029 1221 159 27 853 2059 65899632 65900830 0.000000e+00 1142
29 TraesCS3D01G274800 chrUn 87.527 457 52 5 2227 2678 65901528 65901984 8.490000e-145 523
30 TraesCS3D01G274800 chrUn 86.652 457 53 7 2227 2678 65901211 65901664 1.430000e-137 499
31 TraesCS3D01G274800 chr4B 83.958 1228 160 20 853 2059 25697445 25696234 0.000000e+00 1142
32 TraesCS3D01G274800 chr2B 86.026 458 57 7 2227 2678 767476209 767476665 4.010000e-133 484
33 TraesCS3D01G274800 chr6D 85.996 457 57 7 2227 2678 469983757 469983303 1.440000e-132 483
34 TraesCS3D01G274800 chr6D 90.441 136 11 1 2060 2193 469984040 469983905 7.620000e-41 178
35 TraesCS3D01G274800 chr7D 85.965 456 57 6 2227 2678 36625758 36626210 5.190000e-132 481


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 TraesCS3D01G274800 chr3D 380978345 380981022 2677 False 2225.000000 3373 100.000000 1 2678 2 chr3D.!!$F2 2677
1 TraesCS3D01G274800 chr3D 83762775 83764120 1345 True 851.000000 1585 92.745500 853 2203 2 chr3D.!!$R3 1350
2 TraesCS3D01G274800 chr3D 83824903 83825485 582 True 743.000000 743 90.223000 4 567 1 chr3D.!!$R1 563
3 TraesCS3D01G274800 chr3D 607462943 607463544 601 False 516.000000 516 83.003000 4 577 1 chr3D.!!$F1 573
4 TraesCS3D01G274800 chr2D 21786450 21787685 1235 False 1672.000000 1672 90.952000 936 2205 1 chr2D.!!$F1 1269
5 TraesCS3D01G274800 chr2D 43108968 43112131 3163 False 931.333333 1546 91.246667 4 2678 3 chr2D.!!$F2 2674
6 TraesCS3D01G274800 chr5D 108351462 108353643 2181 True 1025.500000 1472 88.270000 4 2203 2 chr5D.!!$R4 2199
7 TraesCS3D01G274800 chr5D 84280979 84282070 1091 True 968.000000 968 83.109000 853 1936 1 chr5D.!!$R1 1083
8 TraesCS3D01G274800 chr5D 389928974 389929705 731 True 645.000000 645 82.950000 1001 1722 1 chr5D.!!$R2 721
9 TraesCS3D01G274800 chr5D 15078469 15079040 571 False 516.000000 516 83.418000 4 577 1 chr5D.!!$F1 573
10 TraesCS3D01G274800 chr1D 453487261 453488975 1714 True 643.333333 1303 89.181667 853 2678 3 chr1D.!!$R2 1825
11 TraesCS3D01G274800 chr6A 156190586 156191808 1222 True 1297.000000 1297 86.176000 853 2059 1 chr6A.!!$R3 1206
12 TraesCS3D01G274800 chr6A 74856177 74856987 810 True 961.000000 961 88.561000 1417 2203 1 chr6A.!!$R1 786
13 TraesCS3D01G274800 chr6A 74886326 74886869 543 True 621.000000 621 87.253000 853 1406 1 chr6A.!!$R2 553
14 TraesCS3D01G274800 chr3A 56811415 56812360 945 False 1210.000000 1210 90.095000 975 1902 1 chr3A.!!$F1 927
15 TraesCS3D01G274800 chr3A 434040388 434042836 2448 True 493.500000 532 84.610500 4 2678 2 chr3A.!!$R2 2674
16 TraesCS3D01G274800 chrUn 65899632 65901984 2352 False 721.333333 1142 86.069333 853 2678 3 chrUn.!!$F1 1825
17 TraesCS3D01G274800 chr4B 25696234 25697445 1211 True 1142.000000 1142 83.958000 853 2059 1 chr4B.!!$R1 1206
18 TraesCS3D01G274800 chr6D 469983303 469984040 737 True 330.500000 483 88.218500 2060 2678 2 chr6D.!!$R1 618

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
924 1661 0.172352 CTCTCTTCTCCACTCCACGC 59.828 60.0 0.0 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2240 3298 0.112218 TTGGATTGAGTGTGGGGGTG 59.888 55.0 0.0 0.0 0.0 4.61 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
143 146 1.579140 TTAGCATCCATGGGCCCACA 61.579 55.000 31.51 15.35 0.00 4.17
159 162 1.615116 CCACAATGTCAGATGCAGGGT 60.615 52.381 0.00 0.00 0.00 4.34
166 169 1.267806 GTCAGATGCAGGGTGTGTTTG 59.732 52.381 0.00 0.00 0.00 2.93
208 212 2.446227 TGGGGGTGTACGTGTGGT 60.446 61.111 0.00 0.00 0.00 4.16
300 305 2.978565 CTCGCGGCCGATCTCCTA 60.979 66.667 33.48 0.78 43.47 2.94
311 316 4.772231 TCTCCTACCGCCCGCCTT 62.772 66.667 0.00 0.00 0.00 4.35
450 475 2.109799 CCATCGATGCCTCGCCTT 59.890 61.111 20.25 0.00 44.65 4.35
924 1661 0.172352 CTCTCTTCTCCACTCCACGC 59.828 60.000 0.00 0.00 0.00 5.34
925 1662 1.216710 CTCTTCTCCACTCCACGCC 59.783 63.158 0.00 0.00 0.00 5.68
926 1663 1.533033 TCTTCTCCACTCCACGCCA 60.533 57.895 0.00 0.00 0.00 5.69
927 1664 1.374758 CTTCTCCACTCCACGCCAC 60.375 63.158 0.00 0.00 0.00 5.01
928 1665 2.788191 CTTCTCCACTCCACGCCACC 62.788 65.000 0.00 0.00 0.00 4.61
929 1666 4.742201 CTCCACTCCACGCCACCG 62.742 72.222 0.00 0.00 41.14 4.94
932 1669 4.293648 CACTCCACGCCACCGACA 62.294 66.667 0.00 0.00 38.29 4.35
933 1670 4.295119 ACTCCACGCCACCGACAC 62.295 66.667 0.00 0.00 38.29 3.67
1382 2125 1.897615 CTCCCGGCCCTAGTACTCG 60.898 68.421 0.00 0.00 0.00 4.18
1540 2304 2.892914 CGCGCGAGGAGAGAGAGA 60.893 66.667 28.94 0.00 0.00 3.10
1654 2460 2.805353 CTGGCGTTGTCGACCTCG 60.805 66.667 14.12 17.69 45.66 4.63
1910 2779 1.060698 GTTCGCTCATAACAGAACGGC 59.939 52.381 0.00 0.00 34.54 5.68
1940 2809 7.653783 GGTAAACGATGTGAATTTTTCGAATG 58.346 34.615 0.00 0.00 35.64 2.67
1942 2811 6.911484 AACGATGTGAATTTTTCGAATGAC 57.089 33.333 0.00 0.00 35.64 3.06
1943 2812 5.390613 ACGATGTGAATTTTTCGAATGACC 58.609 37.500 0.00 0.00 35.64 4.02
1944 2813 5.181245 ACGATGTGAATTTTTCGAATGACCT 59.819 36.000 0.00 0.00 35.64 3.85
1947 2816 6.384258 TGTGAATTTTTCGAATGACCTCAA 57.616 33.333 0.00 0.00 0.00 3.02
1948 2817 6.205784 TGTGAATTTTTCGAATGACCTCAAC 58.794 36.000 0.00 0.00 0.00 3.18
1949 2818 5.339611 GTGAATTTTTCGAATGACCTCAACG 59.660 40.000 0.00 0.00 0.00 4.10
1950 2819 3.889196 TTTTTCGAATGACCTCAACGG 57.111 42.857 0.00 0.00 39.35 4.44
2020 2922 9.453572 TGAAACTTTTCATAGATGCTAGTCATT 57.546 29.630 0.07 0.00 41.88 2.57
2102 3160 1.968017 AAGTAGCGTCACGTCCGGA 60.968 57.895 0.00 0.00 0.00 5.14
2136 3194 4.591998 GTGTTTTCACCGCAAAAATTGT 57.408 36.364 0.00 0.00 44.31 2.71
2137 3195 5.704217 GTGTTTTCACCGCAAAAATTGTA 57.296 34.783 0.00 0.00 44.31 2.41
2138 3196 5.723237 GTGTTTTCACCGCAAAAATTGTAG 58.277 37.500 0.00 0.00 44.31 2.74
2139 3197 5.517054 GTGTTTTCACCGCAAAAATTGTAGA 59.483 36.000 0.00 0.00 44.31 2.59
2140 3198 6.035112 GTGTTTTCACCGCAAAAATTGTAGAA 59.965 34.615 0.00 0.00 44.31 2.10
2141 3199 6.590292 TGTTTTCACCGCAAAAATTGTAGAAA 59.410 30.769 0.00 0.00 0.00 2.52
2142 3200 7.117812 TGTTTTCACCGCAAAAATTGTAGAAAA 59.882 29.630 0.00 0.00 32.02 2.29
2143 3201 7.778470 TTTCACCGCAAAAATTGTAGAAAAT 57.222 28.000 0.00 0.00 0.00 1.82
2144 3202 8.873215 TTTCACCGCAAAAATTGTAGAAAATA 57.127 26.923 0.00 0.00 0.00 1.40
2145 3203 7.861176 TCACCGCAAAAATTGTAGAAAATAC 57.139 32.000 0.00 0.00 0.00 1.89
2146 3204 7.426410 TCACCGCAAAAATTGTAGAAAATACA 58.574 30.769 0.00 0.00 0.00 2.29
2147 3205 8.085296 TCACCGCAAAAATTGTAGAAAATACAT 58.915 29.630 0.00 0.00 0.00 2.29
2148 3206 9.347934 CACCGCAAAAATTGTAGAAAATACATA 57.652 29.630 0.00 0.00 0.00 2.29
2149 3207 9.567848 ACCGCAAAAATTGTAGAAAATACATAG 57.432 29.630 0.00 0.00 0.00 2.23
2150 3208 9.567848 CCGCAAAAATTGTAGAAAATACATAGT 57.432 29.630 0.00 0.00 0.00 2.12
2159 3217 9.906660 TTGTAGAAAATACATAGTGGCAAAAAG 57.093 29.630 0.00 0.00 0.00 2.27
2160 3218 8.026607 TGTAGAAAATACATAGTGGCAAAAAGC 58.973 33.333 0.00 0.00 44.65 3.51
2174 3232 4.902964 GCAAAAAGCCACGAAATTTTTCA 58.097 34.783 4.12 0.00 34.73 2.69
2175 3233 5.509771 GCAAAAAGCCACGAAATTTTTCAT 58.490 33.333 4.12 0.00 34.73 2.57
2176 3234 5.396070 GCAAAAAGCCACGAAATTTTTCATG 59.604 36.000 4.12 0.00 34.73 3.07
2177 3235 4.730600 AAAGCCACGAAATTTTTCATGC 57.269 36.364 4.12 3.01 37.01 4.06
2178 3236 3.383620 AGCCACGAAATTTTTCATGCA 57.616 38.095 0.00 0.00 37.01 3.96
2179 3237 3.059166 AGCCACGAAATTTTTCATGCAC 58.941 40.909 0.00 0.00 37.01 4.57
2180 3238 2.799412 GCCACGAAATTTTTCATGCACA 59.201 40.909 0.00 0.00 37.01 4.57
2181 3239 3.362888 GCCACGAAATTTTTCATGCACAC 60.363 43.478 0.00 0.00 37.01 3.82
2182 3240 4.050553 CCACGAAATTTTTCATGCACACT 58.949 39.130 0.00 0.00 37.01 3.55
2183 3241 5.218885 CCACGAAATTTTTCATGCACACTA 58.781 37.500 0.00 0.00 37.01 2.74
2184 3242 5.343058 CCACGAAATTTTTCATGCACACTAG 59.657 40.000 0.00 0.00 37.01 2.57
2185 3243 5.914635 CACGAAATTTTTCATGCACACTAGT 59.085 36.000 0.00 0.00 37.01 2.57
2186 3244 6.086765 CACGAAATTTTTCATGCACACTAGTC 59.913 38.462 0.00 0.00 37.01 2.59
2187 3245 6.142139 CGAAATTTTTCATGCACACTAGTCA 58.858 36.000 0.00 0.00 37.01 3.41
2188 3246 6.803320 CGAAATTTTTCATGCACACTAGTCAT 59.197 34.615 0.00 0.00 37.01 3.06
2189 3247 7.201291 CGAAATTTTTCATGCACACTAGTCATG 60.201 37.037 14.09 14.09 37.01 3.07
2190 3248 6.822667 ATTTTTCATGCACACTAGTCATGA 57.177 33.333 17.41 17.41 38.90 3.07
2191 3249 6.822667 TTTTTCATGCACACTAGTCATGAT 57.177 33.333 20.41 5.25 39.60 2.45
2192 3250 5.806366 TTTCATGCACACTAGTCATGATG 57.194 39.130 20.41 13.81 39.60 3.07
2193 3251 4.741321 TCATGCACACTAGTCATGATGA 57.259 40.909 17.41 13.84 37.37 2.92
2194 3252 5.286267 TCATGCACACTAGTCATGATGAT 57.714 39.130 17.41 0.00 37.37 2.45
2195 3253 6.409524 TCATGCACACTAGTCATGATGATA 57.590 37.500 17.41 1.16 37.37 2.15
2196 3254 6.218746 TCATGCACACTAGTCATGATGATAC 58.781 40.000 17.41 0.00 37.37 2.24
2197 3255 5.596836 TGCACACTAGTCATGATGATACA 57.403 39.130 0.00 0.00 0.00 2.29
2198 3256 5.976458 TGCACACTAGTCATGATGATACAA 58.024 37.500 0.00 0.00 0.00 2.41
2199 3257 5.812127 TGCACACTAGTCATGATGATACAAC 59.188 40.000 0.00 0.00 0.00 3.32
2200 3258 5.812127 GCACACTAGTCATGATGATACAACA 59.188 40.000 0.00 0.00 0.00 3.33
2201 3259 6.019237 GCACACTAGTCATGATGATACAACAG 60.019 42.308 0.00 0.00 0.00 3.16
2202 3260 7.038048 CACACTAGTCATGATGATACAACAGT 58.962 38.462 0.00 0.00 0.00 3.55
2203 3261 7.221645 CACACTAGTCATGATGATACAACAGTC 59.778 40.741 0.00 0.00 0.00 3.51
2204 3262 7.093771 ACACTAGTCATGATGATACAACAGTCA 60.094 37.037 0.00 0.00 0.00 3.41
2205 3263 7.434602 CACTAGTCATGATGATACAACAGTCAG 59.565 40.741 0.00 0.00 0.00 3.51
2206 3264 6.535963 AGTCATGATGATACAACAGTCAGA 57.464 37.500 0.00 0.00 0.00 3.27
2207 3265 6.939622 AGTCATGATGATACAACAGTCAGAA 58.060 36.000 0.00 0.00 0.00 3.02
2208 3266 7.563020 AGTCATGATGATACAACAGTCAGAAT 58.437 34.615 0.00 0.00 0.00 2.40
2209 3267 8.045507 AGTCATGATGATACAACAGTCAGAATT 58.954 33.333 0.00 0.00 0.00 2.17
2210 3268 8.671921 GTCATGATGATACAACAGTCAGAATTT 58.328 33.333 0.00 0.00 0.00 1.82
2211 3269 9.234827 TCATGATGATACAACAGTCAGAATTTT 57.765 29.630 0.00 0.00 0.00 1.82
2212 3270 9.850628 CATGATGATACAACAGTCAGAATTTTT 57.149 29.630 0.00 0.00 0.00 1.94
2237 3295 8.894768 TTTTTGGGTTTATTTGAGTTGGTATG 57.105 30.769 0.00 0.00 0.00 2.39
2238 3296 5.652994 TGGGTTTATTTGAGTTGGTATGC 57.347 39.130 0.00 0.00 0.00 3.14
2239 3297 4.464597 TGGGTTTATTTGAGTTGGTATGCC 59.535 41.667 0.00 0.00 0.00 4.40
2240 3298 4.142026 GGGTTTATTTGAGTTGGTATGCCC 60.142 45.833 0.00 0.00 0.00 5.36
2241 3299 4.464597 GGTTTATTTGAGTTGGTATGCCCA 59.535 41.667 0.00 0.00 43.27 5.36
2242 3300 5.407502 GTTTATTTGAGTTGGTATGCCCAC 58.592 41.667 0.00 0.00 45.19 4.61
2243 3301 1.917872 TTTGAGTTGGTATGCCCACC 58.082 50.000 0.08 0.00 45.19 4.61
2244 3302 0.039035 TTGAGTTGGTATGCCCACCC 59.961 55.000 0.08 0.00 45.19 4.61
2245 3303 1.076995 GAGTTGGTATGCCCACCCC 60.077 63.158 0.08 0.00 45.19 4.95
2246 3304 2.043349 GTTGGTATGCCCACCCCC 60.043 66.667 0.00 0.00 45.19 5.40
2247 3305 2.535580 TTGGTATGCCCACCCCCA 60.536 61.111 0.00 0.00 45.19 4.96
2248 3306 2.925117 TTGGTATGCCCACCCCCAC 61.925 63.158 0.00 0.00 45.19 4.61
2249 3307 3.343326 GGTATGCCCACCCCCACA 61.343 66.667 0.00 0.00 31.91 4.17
2250 3308 2.044352 GTATGCCCACCCCCACAC 60.044 66.667 0.00 0.00 0.00 3.82
2251 3309 2.204228 TATGCCCACCCCCACACT 60.204 61.111 0.00 0.00 0.00 3.55
2252 3310 2.305607 TATGCCCACCCCCACACTC 61.306 63.158 0.00 0.00 0.00 3.51
2254 3312 3.897122 GCCCACCCCCACACTCAA 61.897 66.667 0.00 0.00 0.00 3.02
2255 3313 3.180282 CCCACCCCCACACTCAAT 58.820 61.111 0.00 0.00 0.00 2.57
2256 3314 1.000896 CCCACCCCCACACTCAATC 60.001 63.158 0.00 0.00 0.00 2.67
2257 3315 1.000896 CCACCCCCACACTCAATCC 60.001 63.158 0.00 0.00 0.00 3.01
2258 3316 1.767036 CACCCCCACACTCAATCCA 59.233 57.895 0.00 0.00 0.00 3.41
2259 3317 0.112218 CACCCCCACACTCAATCCAA 59.888 55.000 0.00 0.00 0.00 3.53
2260 3318 0.405585 ACCCCCACACTCAATCCAAG 59.594 55.000 0.00 0.00 0.00 3.61
2261 3319 0.698238 CCCCCACACTCAATCCAAGA 59.302 55.000 0.00 0.00 0.00 3.02
2262 3320 1.075374 CCCCCACACTCAATCCAAGAA 59.925 52.381 0.00 0.00 0.00 2.52
2263 3321 2.291800 CCCCCACACTCAATCCAAGAAT 60.292 50.000 0.00 0.00 0.00 2.40
2264 3322 3.434309 CCCCACACTCAATCCAAGAATT 58.566 45.455 0.00 0.00 0.00 2.17
2281 3339 6.877611 AAGAATTGAACGTATTTGGACACT 57.122 33.333 0.00 0.00 0.00 3.55
2282 3340 7.972832 AAGAATTGAACGTATTTGGACACTA 57.027 32.000 0.00 0.00 0.00 2.74
2283 3341 7.972832 AGAATTGAACGTATTTGGACACTAA 57.027 32.000 0.00 0.00 0.00 2.24
2284 3342 8.385898 AGAATTGAACGTATTTGGACACTAAA 57.614 30.769 0.00 0.00 0.00 1.85
2285 3343 8.842280 AGAATTGAACGTATTTGGACACTAAAA 58.158 29.630 0.00 0.00 0.00 1.52
2286 3344 9.453325 GAATTGAACGTATTTGGACACTAAAAA 57.547 29.630 0.00 0.00 0.00 1.94
2287 3345 8.791355 ATTGAACGTATTTGGACACTAAAAAC 57.209 30.769 0.00 0.00 0.00 2.43
2288 3346 7.317842 TGAACGTATTTGGACACTAAAAACA 57.682 32.000 0.00 0.00 0.00 2.83
2289 3347 7.932335 TGAACGTATTTGGACACTAAAAACAT 58.068 30.769 0.00 0.00 0.00 2.71
2290 3348 7.858382 TGAACGTATTTGGACACTAAAAACATG 59.142 33.333 0.00 0.00 0.00 3.21
2291 3349 7.266922 ACGTATTTGGACACTAAAAACATGT 57.733 32.000 0.00 0.00 0.00 3.21
2292 3350 7.708998 ACGTATTTGGACACTAAAAACATGTT 58.291 30.769 4.92 4.92 0.00 2.71
2293 3351 7.646130 ACGTATTTGGACACTAAAAACATGTTG 59.354 33.333 12.82 1.17 0.00 3.33
2294 3352 6.843069 ATTTGGACACTAAAAACATGTTGC 57.157 33.333 12.82 0.00 0.00 4.17
2295 3353 3.958704 TGGACACTAAAAACATGTTGCG 58.041 40.909 12.82 3.67 0.00 4.85
2296 3354 3.378742 TGGACACTAAAAACATGTTGCGT 59.621 39.130 12.82 4.31 0.00 5.24
2297 3355 3.972502 GGACACTAAAAACATGTTGCGTC 59.027 43.478 12.82 8.81 0.00 5.19
2298 3356 4.496673 GGACACTAAAAACATGTTGCGTCA 60.497 41.667 12.82 0.00 0.00 4.35
2299 3357 4.347813 ACACTAAAAACATGTTGCGTCAC 58.652 39.130 12.82 0.00 0.00 3.67
2300 3358 3.417321 CACTAAAAACATGTTGCGTCACG 59.583 43.478 12.82 0.00 0.00 4.35
2301 3359 2.553079 AAAAACATGTTGCGTCACGT 57.447 40.000 12.82 0.00 0.00 4.49
2302 3360 2.099633 AAAACATGTTGCGTCACGTC 57.900 45.000 12.82 0.00 0.00 4.34
2303 3361 1.295792 AAACATGTTGCGTCACGTCT 58.704 45.000 12.82 0.00 0.00 4.18
2304 3362 0.581529 AACATGTTGCGTCACGTCTG 59.418 50.000 11.07 0.00 0.00 3.51
2305 3363 1.221466 ACATGTTGCGTCACGTCTGG 61.221 55.000 0.00 0.00 0.00 3.86
2306 3364 1.069090 ATGTTGCGTCACGTCTGGT 59.931 52.632 0.00 0.00 0.00 4.00
2307 3365 0.944311 ATGTTGCGTCACGTCTGGTC 60.944 55.000 0.00 0.00 0.00 4.02
2308 3366 1.590525 GTTGCGTCACGTCTGGTCA 60.591 57.895 0.00 0.00 0.00 4.02
2309 3367 1.299850 TTGCGTCACGTCTGGTCAG 60.300 57.895 0.00 0.00 0.00 3.51
2310 3368 2.011741 TTGCGTCACGTCTGGTCAGT 62.012 55.000 0.00 0.00 0.00 3.41
2311 3369 2.016704 GCGTCACGTCTGGTCAGTG 61.017 63.158 0.00 0.00 37.24 3.66
2312 3370 1.359117 CGTCACGTCTGGTCAGTGT 59.641 57.895 0.00 0.00 37.20 3.55
2313 3371 0.248907 CGTCACGTCTGGTCAGTGTT 60.249 55.000 0.00 0.00 37.20 3.32
2314 3372 1.801395 CGTCACGTCTGGTCAGTGTTT 60.801 52.381 0.00 0.00 37.20 2.83
2315 3373 2.277084 GTCACGTCTGGTCAGTGTTTT 58.723 47.619 0.00 0.00 37.20 2.43
2316 3374 3.450578 GTCACGTCTGGTCAGTGTTTTA 58.549 45.455 0.00 0.00 37.20 1.52
2317 3375 3.489785 GTCACGTCTGGTCAGTGTTTTAG 59.510 47.826 0.00 0.00 37.20 1.85
2318 3376 2.800544 CACGTCTGGTCAGTGTTTTAGG 59.199 50.000 0.00 0.00 0.00 2.69
2319 3377 2.433239 ACGTCTGGTCAGTGTTTTAGGT 59.567 45.455 0.00 0.00 0.00 3.08
2320 3378 2.800544 CGTCTGGTCAGTGTTTTAGGTG 59.199 50.000 0.00 0.00 0.00 4.00
2321 3379 3.740141 CGTCTGGTCAGTGTTTTAGGTGT 60.740 47.826 0.00 0.00 0.00 4.16
2322 3380 4.196971 GTCTGGTCAGTGTTTTAGGTGTT 58.803 43.478 0.00 0.00 0.00 3.32
2323 3381 4.638865 GTCTGGTCAGTGTTTTAGGTGTTT 59.361 41.667 0.00 0.00 0.00 2.83
2324 3382 5.124936 GTCTGGTCAGTGTTTTAGGTGTTTT 59.875 40.000 0.00 0.00 0.00 2.43
2325 3383 5.355910 TCTGGTCAGTGTTTTAGGTGTTTTC 59.644 40.000 0.00 0.00 0.00 2.29
2326 3384 5.010933 TGGTCAGTGTTTTAGGTGTTTTCA 58.989 37.500 0.00 0.00 0.00 2.69
2327 3385 5.654650 TGGTCAGTGTTTTAGGTGTTTTCAT 59.345 36.000 0.00 0.00 0.00 2.57
2328 3386 6.183360 TGGTCAGTGTTTTAGGTGTTTTCATC 60.183 38.462 0.00 0.00 0.00 2.92
2329 3387 6.183360 GGTCAGTGTTTTAGGTGTTTTCATCA 60.183 38.462 0.00 0.00 32.48 3.07
2330 3388 7.254852 GTCAGTGTTTTAGGTGTTTTCATCAA 58.745 34.615 0.00 0.00 32.48 2.57
2331 3389 7.757624 GTCAGTGTTTTAGGTGTTTTCATCAAA 59.242 33.333 0.00 0.00 32.48 2.69
2332 3390 8.307483 TCAGTGTTTTAGGTGTTTTCATCAAAA 58.693 29.630 0.00 0.00 32.48 2.44
2333 3391 8.930760 CAGTGTTTTAGGTGTTTTCATCAAAAA 58.069 29.630 0.00 0.00 33.17 1.94
2364 3422 8.382030 AGAAAATTCATAAAGTGGCAAAAAGG 57.618 30.769 0.00 0.00 0.00 3.11
2365 3423 7.992608 AGAAAATTCATAAAGTGGCAAAAAGGT 59.007 29.630 0.00 0.00 0.00 3.50
2385 3763 4.870426 AGGTACGAAACTTGTCATGCATAG 59.130 41.667 0.00 0.00 0.00 2.23
2413 4427 9.823647 AGTCATGATGGTAGAACACTATAAAAG 57.176 33.333 0.00 0.00 0.00 2.27
2537 4553 9.184523 ACATATTCGGAATGACCTCAAATTTTA 57.815 29.630 13.37 0.00 36.31 1.52
2570 4587 2.285442 GCCTACCCCCACACTCCT 60.285 66.667 0.00 0.00 0.00 3.69
2577 4594 1.303643 CCCCACACTCCTTCCAAGC 60.304 63.158 0.00 0.00 0.00 4.01
2600 4934 2.773487 TGAACGTATTTGGACACCAGG 58.227 47.619 0.00 0.00 33.81 4.45
2611 4945 1.317613 GACACCAGGAACATGTTGCA 58.682 50.000 28.72 0.00 33.04 4.08
2616 4950 1.887854 CCAGGAACATGTTGCATCACA 59.112 47.619 28.72 0.00 33.04 3.58
2635 4969 2.044806 ATCCGAGGGGTGCTATGTGC 62.045 60.000 0.00 0.00 43.25 4.57
2647 4981 1.729149 GCTATGTGCTGTTTTCACCGC 60.729 52.381 0.00 0.00 38.95 5.68
2671 5006 9.464248 CGCAAAATTGTAGAAAATTCATAAAGC 57.536 29.630 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 117 2.202878 GATGCTAACGGCTCGGCA 60.203 61.111 0.00 0.00 42.39 5.69
143 146 1.074405 ACACACCCTGCATCTGACATT 59.926 47.619 0.00 0.00 0.00 2.71
159 162 3.748568 GCCCACTTTTGAAAACAAACACA 59.251 39.130 0.00 0.00 0.00 3.72
166 169 2.601314 GTCAACGCCCACTTTTGAAAAC 59.399 45.455 0.00 0.00 31.21 2.43
197 201 2.027897 GCCACGACCACACGTACA 59.972 61.111 0.00 0.00 44.76 2.90
1245 1985 2.218603 ACGACATCGAAGTTTTTGCCT 58.781 42.857 8.54 0.00 43.02 4.75
1464 2222 3.857521 AAGTAGCCCCGGGGTGTCA 62.858 63.158 39.80 19.99 37.65 3.58
1943 2812 3.496884 TGATTTTTCCGAAGACCGTTGAG 59.503 43.478 0.00 0.00 36.31 3.02
1944 2813 3.468770 TGATTTTTCCGAAGACCGTTGA 58.531 40.909 0.00 0.00 36.31 3.18
1947 2816 2.747446 CCATGATTTTTCCGAAGACCGT 59.253 45.455 0.00 0.00 36.31 4.83
1948 2817 3.006940 TCCATGATTTTTCCGAAGACCG 58.993 45.455 0.00 0.00 38.18 4.79
1949 2818 6.884280 ATATCCATGATTTTTCCGAAGACC 57.116 37.500 0.00 0.00 0.00 3.85
1950 2819 7.930217 TGAATATCCATGATTTTTCCGAAGAC 58.070 34.615 0.00 0.00 0.00 3.01
1951 2820 8.696043 ATGAATATCCATGATTTTTCCGAAGA 57.304 30.769 0.00 0.00 0.00 2.87
1953 2822 9.791801 TCTATGAATATCCATGATTTTTCCGAA 57.208 29.630 0.00 0.00 0.00 4.30
2102 3160 5.920273 CGGTGAAAACACATTAAAGCATTCT 59.080 36.000 0.00 0.00 0.00 2.40
2133 3191 9.906660 CTTTTTGCCACTATGTATTTTCTACAA 57.093 29.630 0.00 0.00 0.00 2.41
2134 3192 8.026607 GCTTTTTGCCACTATGTATTTTCTACA 58.973 33.333 0.00 0.00 35.15 2.74
2135 3193 8.394667 GCTTTTTGCCACTATGTATTTTCTAC 57.605 34.615 0.00 0.00 35.15 2.59
2152 3210 4.902964 TGAAAAATTTCGTGGCTTTTTGC 58.097 34.783 0.00 0.00 40.01 3.68
2153 3211 6.956393 CATGAAAAATTTCGTGGCTTTTTG 57.044 33.333 16.72 0.00 45.76 2.44
2162 3220 6.072112 ACTAGTGTGCATGAAAAATTTCGT 57.928 33.333 0.00 0.00 40.01 3.85
2163 3221 6.142139 TGACTAGTGTGCATGAAAAATTTCG 58.858 36.000 0.00 0.00 40.01 3.46
2164 3222 7.809331 TCATGACTAGTGTGCATGAAAAATTTC 59.191 33.333 18.51 0.00 43.70 2.17
2165 3223 7.660112 TCATGACTAGTGTGCATGAAAAATTT 58.340 30.769 18.51 0.00 43.70 1.82
2166 3224 7.218228 TCATGACTAGTGTGCATGAAAAATT 57.782 32.000 18.51 0.00 43.70 1.82
2167 3225 6.822667 TCATGACTAGTGTGCATGAAAAAT 57.177 33.333 18.51 0.00 43.70 1.82
2173 3231 5.987347 TGTATCATCATGACTAGTGTGCATG 59.013 40.000 14.09 14.09 40.46 4.06
2174 3232 6.165700 TGTATCATCATGACTAGTGTGCAT 57.834 37.500 0.00 0.00 0.00 3.96
2175 3233 5.596836 TGTATCATCATGACTAGTGTGCA 57.403 39.130 0.00 0.00 0.00 4.57
2176 3234 5.812127 TGTTGTATCATCATGACTAGTGTGC 59.188 40.000 0.00 0.00 0.00 4.57
2177 3235 7.038048 ACTGTTGTATCATCATGACTAGTGTG 58.962 38.462 0.00 0.00 0.00 3.82
2178 3236 7.093771 TGACTGTTGTATCATCATGACTAGTGT 60.094 37.037 0.00 0.00 0.00 3.55
2179 3237 7.260603 TGACTGTTGTATCATCATGACTAGTG 58.739 38.462 0.00 0.00 0.00 2.74
2180 3238 7.340487 TCTGACTGTTGTATCATCATGACTAGT 59.660 37.037 0.00 0.00 0.00 2.57
2181 3239 7.710896 TCTGACTGTTGTATCATCATGACTAG 58.289 38.462 0.00 0.00 0.00 2.57
2182 3240 7.645058 TCTGACTGTTGTATCATCATGACTA 57.355 36.000 0.00 0.00 0.00 2.59
2183 3241 6.535963 TCTGACTGTTGTATCATCATGACT 57.464 37.500 0.00 0.00 0.00 3.41
2184 3242 7.783090 ATTCTGACTGTTGTATCATCATGAC 57.217 36.000 0.00 0.00 0.00 3.06
2185 3243 8.797350 AAATTCTGACTGTTGTATCATCATGA 57.203 30.769 0.00 0.00 0.00 3.07
2186 3244 9.850628 AAAAATTCTGACTGTTGTATCATCATG 57.149 29.630 0.00 0.00 0.00 3.07
2212 3270 7.442666 GCATACCAACTCAAATAAACCCAAAAA 59.557 33.333 0.00 0.00 0.00 1.94
2213 3271 6.931840 GCATACCAACTCAAATAAACCCAAAA 59.068 34.615 0.00 0.00 0.00 2.44
2214 3272 6.459923 GCATACCAACTCAAATAAACCCAAA 58.540 36.000 0.00 0.00 0.00 3.28
2215 3273 5.046950 GGCATACCAACTCAAATAAACCCAA 60.047 40.000 0.00 0.00 35.26 4.12
2216 3274 4.464597 GGCATACCAACTCAAATAAACCCA 59.535 41.667 0.00 0.00 35.26 4.51
2217 3275 4.142026 GGGCATACCAACTCAAATAAACCC 60.142 45.833 0.00 0.00 39.85 4.11
2218 3276 5.006153 GGGCATACCAACTCAAATAAACC 57.994 43.478 0.00 0.00 39.85 3.27
2232 3290 3.343326 TGTGGGGGTGGGCATACC 61.343 66.667 1.85 1.85 40.10 2.73
2233 3291 2.044352 GTGTGGGGGTGGGCATAC 60.044 66.667 0.00 0.00 0.00 2.39
2234 3292 2.204228 AGTGTGGGGGTGGGCATA 60.204 61.111 0.00 0.00 0.00 3.14
2235 3293 3.661648 GAGTGTGGGGGTGGGCAT 61.662 66.667 0.00 0.00 0.00 4.40
2237 3295 3.224007 ATTGAGTGTGGGGGTGGGC 62.224 63.158 0.00 0.00 0.00 5.36
2238 3296 1.000896 GATTGAGTGTGGGGGTGGG 60.001 63.158 0.00 0.00 0.00 4.61
2239 3297 1.000896 GGATTGAGTGTGGGGGTGG 60.001 63.158 0.00 0.00 0.00 4.61
2240 3298 0.112218 TTGGATTGAGTGTGGGGGTG 59.888 55.000 0.00 0.00 0.00 4.61
2241 3299 0.405585 CTTGGATTGAGTGTGGGGGT 59.594 55.000 0.00 0.00 0.00 4.95
2242 3300 0.698238 TCTTGGATTGAGTGTGGGGG 59.302 55.000 0.00 0.00 0.00 5.40
2243 3301 2.584835 TTCTTGGATTGAGTGTGGGG 57.415 50.000 0.00 0.00 0.00 4.96
2244 3302 4.081406 TCAATTCTTGGATTGAGTGTGGG 58.919 43.478 0.48 0.00 40.20 4.61
2245 3303 5.464168 GTTCAATTCTTGGATTGAGTGTGG 58.536 41.667 4.73 0.00 44.33 4.17
2246 3304 5.149273 CGTTCAATTCTTGGATTGAGTGTG 58.851 41.667 4.73 0.00 44.33 3.82
2247 3305 4.821805 ACGTTCAATTCTTGGATTGAGTGT 59.178 37.500 4.73 5.18 44.33 3.55
2248 3306 5.362556 ACGTTCAATTCTTGGATTGAGTG 57.637 39.130 4.73 4.67 44.33 3.51
2249 3307 7.687941 AATACGTTCAATTCTTGGATTGAGT 57.312 32.000 0.00 3.89 44.33 3.41
2250 3308 7.485913 CCAAATACGTTCAATTCTTGGATTGAG 59.514 37.037 0.00 0.00 44.33 3.02
2251 3309 7.175816 TCCAAATACGTTCAATTCTTGGATTGA 59.824 33.333 0.00 0.48 42.58 2.57
2252 3310 7.273381 GTCCAAATACGTTCAATTCTTGGATTG 59.727 37.037 0.00 0.00 38.20 2.67
2253 3311 7.040062 TGTCCAAATACGTTCAATTCTTGGATT 60.040 33.333 0.00 0.00 38.20 3.01
2254 3312 6.432783 TGTCCAAATACGTTCAATTCTTGGAT 59.567 34.615 0.00 0.00 38.20 3.41
2255 3313 5.765677 TGTCCAAATACGTTCAATTCTTGGA 59.234 36.000 0.00 0.00 34.11 3.53
2256 3314 5.856455 GTGTCCAAATACGTTCAATTCTTGG 59.144 40.000 0.00 0.00 0.00 3.61
2257 3315 6.668323 AGTGTCCAAATACGTTCAATTCTTG 58.332 36.000 0.00 0.00 0.00 3.02
2258 3316 6.877611 AGTGTCCAAATACGTTCAATTCTT 57.122 33.333 0.00 0.00 0.00 2.52
2259 3317 7.972832 TTAGTGTCCAAATACGTTCAATTCT 57.027 32.000 0.00 0.00 0.00 2.40
2260 3318 9.453325 TTTTTAGTGTCCAAATACGTTCAATTC 57.547 29.630 0.00 0.00 0.00 2.17
2261 3319 9.240159 GTTTTTAGTGTCCAAATACGTTCAATT 57.760 29.630 0.00 0.00 0.00 2.32
2262 3320 8.407064 TGTTTTTAGTGTCCAAATACGTTCAAT 58.593 29.630 0.00 0.00 0.00 2.57
2263 3321 7.759465 TGTTTTTAGTGTCCAAATACGTTCAA 58.241 30.769 0.00 0.00 0.00 2.69
2264 3322 7.317842 TGTTTTTAGTGTCCAAATACGTTCA 57.682 32.000 0.00 0.00 0.00 3.18
2265 3323 7.858879 ACATGTTTTTAGTGTCCAAATACGTTC 59.141 33.333 0.00 0.00 0.00 3.95
2266 3324 7.708998 ACATGTTTTTAGTGTCCAAATACGTT 58.291 30.769 0.00 0.00 0.00 3.99
2267 3325 7.266922 ACATGTTTTTAGTGTCCAAATACGT 57.733 32.000 0.00 0.00 0.00 3.57
2268 3326 7.358023 GCAACATGTTTTTAGTGTCCAAATACG 60.358 37.037 8.77 0.00 0.00 3.06
2269 3327 7.358023 CGCAACATGTTTTTAGTGTCCAAATAC 60.358 37.037 8.77 0.00 0.00 1.89
2270 3328 6.638873 CGCAACATGTTTTTAGTGTCCAAATA 59.361 34.615 8.77 0.00 0.00 1.40
2271 3329 5.461737 CGCAACATGTTTTTAGTGTCCAAAT 59.538 36.000 8.77 0.00 0.00 2.32
2272 3330 4.800993 CGCAACATGTTTTTAGTGTCCAAA 59.199 37.500 8.77 0.00 0.00 3.28
2273 3331 4.142359 ACGCAACATGTTTTTAGTGTCCAA 60.142 37.500 8.77 0.00 0.00 3.53
2274 3332 3.378742 ACGCAACATGTTTTTAGTGTCCA 59.621 39.130 8.77 0.00 0.00 4.02
2275 3333 3.959943 ACGCAACATGTTTTTAGTGTCC 58.040 40.909 8.77 0.00 0.00 4.02
2276 3334 4.436523 GTGACGCAACATGTTTTTAGTGTC 59.563 41.667 23.31 23.31 37.11 3.67
2277 3335 4.347813 GTGACGCAACATGTTTTTAGTGT 58.652 39.130 8.77 10.35 0.00 3.55
2278 3336 3.417321 CGTGACGCAACATGTTTTTAGTG 59.583 43.478 8.77 6.99 0.00 2.74
2279 3337 3.064271 ACGTGACGCAACATGTTTTTAGT 59.936 39.130 8.77 6.53 36.76 2.24
2280 3338 3.613563 ACGTGACGCAACATGTTTTTAG 58.386 40.909 8.77 3.23 36.76 1.85
2281 3339 3.310227 AGACGTGACGCAACATGTTTTTA 59.690 39.130 8.77 0.00 39.65 1.52
2282 3340 2.096819 AGACGTGACGCAACATGTTTTT 59.903 40.909 8.77 0.00 39.65 1.94
2283 3341 1.668751 AGACGTGACGCAACATGTTTT 59.331 42.857 8.77 0.00 39.65 2.43
2284 3342 1.003972 CAGACGTGACGCAACATGTTT 60.004 47.619 8.77 0.00 39.65 2.83
2285 3343 0.581529 CAGACGTGACGCAACATGTT 59.418 50.000 4.92 4.92 39.65 2.71
2286 3344 1.221466 CCAGACGTGACGCAACATGT 61.221 55.000 4.25 0.00 41.81 3.21
2287 3345 1.221466 ACCAGACGTGACGCAACATG 61.221 55.000 4.25 0.00 0.00 3.21
2288 3346 0.944311 GACCAGACGTGACGCAACAT 60.944 55.000 4.25 0.00 0.00 2.71
2289 3347 1.590525 GACCAGACGTGACGCAACA 60.591 57.895 4.25 0.00 0.00 3.33
2290 3348 1.548973 CTGACCAGACGTGACGCAAC 61.549 60.000 4.25 0.00 0.00 4.17
2291 3349 1.299850 CTGACCAGACGTGACGCAA 60.300 57.895 4.25 0.00 0.00 4.85
2292 3350 2.335011 CTGACCAGACGTGACGCA 59.665 61.111 4.25 0.00 0.00 5.24
2293 3351 2.016704 CACTGACCAGACGTGACGC 61.017 63.158 4.25 0.00 0.00 5.19
2294 3352 0.248907 AACACTGACCAGACGTGACG 60.249 55.000 2.24 2.24 33.13 4.35
2295 3353 1.935933 AAACACTGACCAGACGTGAC 58.064 50.000 0.00 0.00 33.13 3.67
2296 3354 2.684001 AAAACACTGACCAGACGTGA 57.316 45.000 0.00 0.00 33.13 4.35
2297 3355 2.800544 CCTAAAACACTGACCAGACGTG 59.199 50.000 0.00 0.00 34.92 4.49
2298 3356 2.433239 ACCTAAAACACTGACCAGACGT 59.567 45.455 3.76 0.00 0.00 4.34
2299 3357 2.800544 CACCTAAAACACTGACCAGACG 59.199 50.000 3.76 0.00 0.00 4.18
2300 3358 3.805207 ACACCTAAAACACTGACCAGAC 58.195 45.455 3.76 0.00 0.00 3.51
2301 3359 4.497291 AACACCTAAAACACTGACCAGA 57.503 40.909 3.76 0.00 0.00 3.86
2302 3360 5.124776 TGAAAACACCTAAAACACTGACCAG 59.875 40.000 0.00 0.00 0.00 4.00
2303 3361 5.010933 TGAAAACACCTAAAACACTGACCA 58.989 37.500 0.00 0.00 0.00 4.02
2304 3362 5.570234 TGAAAACACCTAAAACACTGACC 57.430 39.130 0.00 0.00 0.00 4.02
2305 3363 6.791303 TGATGAAAACACCTAAAACACTGAC 58.209 36.000 0.00 0.00 0.00 3.51
2306 3364 7.397892 TTGATGAAAACACCTAAAACACTGA 57.602 32.000 0.00 0.00 0.00 3.41
2307 3365 8.472683 TTTTGATGAAAACACCTAAAACACTG 57.527 30.769 0.00 0.00 0.00 3.66
2332 3390 9.995003 TGCCACTTTATGAATTTTCTACAATTT 57.005 25.926 0.00 0.00 0.00 1.82
2333 3391 9.995003 TTGCCACTTTATGAATTTTCTACAATT 57.005 25.926 0.00 0.00 0.00 2.32
2334 3392 9.995003 TTTGCCACTTTATGAATTTTCTACAAT 57.005 25.926 0.00 0.00 0.00 2.71
2364 3422 5.779806 ACTATGCATGACAAGTTTCGTAC 57.220 39.130 10.16 0.00 0.00 3.67
2365 3423 6.627243 ACTACTATGCATGACAAGTTTCGTA 58.373 36.000 10.16 0.00 0.00 3.43
2413 4427 7.221452 CGACATCCTTCAAATGAATCCAAATTC 59.779 37.037 0.00 0.00 41.48 2.17
2446 4460 0.702316 AGGCCCCGTCCAAAATAAGT 59.298 50.000 0.00 0.00 0.00 2.24
2537 4553 4.324267 GGTAGGCATAACAACTCACTTGT 58.676 43.478 0.00 0.00 45.68 3.16
2549 4565 1.209621 GAGTGTGGGGGTAGGCATAA 58.790 55.000 0.00 0.00 0.00 1.90
2570 4587 4.520874 TCCAAATACGTTCAATGCTTGGAA 59.479 37.500 0.00 0.00 38.26 3.53
2577 4594 4.379394 CCTGGTGTCCAAATACGTTCAATG 60.379 45.833 0.00 0.00 30.80 2.82
2600 4934 2.419673 TCGGATGTGATGCAACATGTTC 59.580 45.455 8.48 4.68 40.87 3.18
2611 4945 0.398522 TAGCACCCCTCGGATGTGAT 60.399 55.000 8.99 5.90 32.72 3.06
2616 4950 2.044806 GCACATAGCACCCCTCGGAT 62.045 60.000 0.00 0.00 44.79 4.18
2635 4969 5.277825 TCTACAATTTTGCGGTGAAAACAG 58.722 37.500 0.00 0.00 0.00 3.16
2647 4981 9.956797 CCGCTTTATGAATTTTCTACAATTTTG 57.043 29.630 0.00 0.00 0.00 2.44


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

AutoCloner maintained by Alex Coulton.