Multiple sequence alignment - TraesCS5A01G272400

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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 TraesCS5A01G272400 chr5A 100.000 3249 0 0 1 3249 482117487 482120735 0.000000e+00 6000
1 TraesCS5A01G272400 chr5B 91.526 2490 95 58 422 2834 458144138 458146588 0.000000e+00 3323
2 TraesCS5A01G272400 chr5B 84.382 429 60 4 1 429 458143473 458143894 6.490000e-112 414
3 TraesCS5A01G272400 chr5B 90.272 257 20 3 2995 3249 458146590 458146843 6.720000e-87 331
4 TraesCS5A01G272400 chr5D 92.712 1180 34 26 561 1726 381909758 381910899 0.000000e+00 1655
5 TraesCS5A01G272400 chr5D 95.623 1028 30 7 1804 2819 381911007 381912031 0.000000e+00 1635
6 TraesCS5A01G272400 chr5D 91.474 563 44 2 1 562 381909117 381909676 0.000000e+00 771
7 TraesCS5A01G272400 chr5D 86.000 250 24 7 3001 3249 381912052 381912291 1.160000e-64 257
8 TraesCS5A01G272400 chrUn 99.237 393 3 0 988 1380 479539515 479539907 0.000000e+00 710
9 TraesCS5A01G272400 chr7D 84.000 275 42 2 1133 1406 220507332 220507605 2.490000e-66 263
10 TraesCS5A01G272400 chr7B 86.127 173 20 4 2823 2994 428829366 428829535 1.990000e-42 183
11 TraesCS5A01G272400 chr2B 87.037 162 20 1 2834 2994 585712494 585712655 7.160000e-42 182
12 TraesCS5A01G272400 chr1A 88.158 152 18 0 2833 2984 394850981 394851132 7.160000e-42 182
13 TraesCS5A01G272400 chr1A 86.667 165 19 3 2833 2995 59114496 59114659 2.580000e-41 180
14 TraesCS5A01G272400 chr4D 86.503 163 20 2 2834 2994 378279920 378280082 9.260000e-41 178
15 TraesCS5A01G272400 chr7A 85.629 167 20 3 2829 2994 253801674 253801837 4.310000e-39 172
16 TraesCS5A01G272400 chr7A 85.057 174 21 5 2823 2994 476915641 476915811 4.310000e-39 172
17 TraesCS5A01G272400 chr4A 85.294 170 22 3 2828 2995 37307033 37306865 4.310000e-39 172
18 TraesCS5A01G272400 chr6D 84.483 174 24 3 2834 3005 467802432 467802260 5.570000e-38 169


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 TraesCS5A01G272400 chr5A 482117487 482120735 3248 False 6000.0 6000 100.000000 1 3249 1 chr5A.!!$F1 3248
1 TraesCS5A01G272400 chr5B 458143473 458146843 3370 False 1356.0 3323 88.726667 1 3249 3 chr5B.!!$F1 3248
2 TraesCS5A01G272400 chr5D 381909117 381912291 3174 False 1079.5 1655 91.452250 1 3249 4 chr5D.!!$F1 3248

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
134 135 0.387878 CGCTGGAGGCTAAGCTATCG 60.388 60.0 16.89 1.30 37.27 2.92 F
388 389 0.604073 TTGCAGACCGGATAACGTCA 59.396 50.0 9.46 0.00 42.24 4.35 F
1489 1869 0.249073 CTCGATTCCGACGGATTGCT 60.249 55.0 19.12 2.83 40.30 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1101 1462 0.033504 TGAGCTTCACCTTCCACGTC 59.966 55.0 0.0 0.0 0.00 4.34 R
1540 1925 0.250513 AGAAGACCCAATCAGTCGGC 59.749 55.0 0.0 0.0 39.31 5.54 R
2931 3396 0.035317 ACAGACTGCATTCGGAGCAA 59.965 50.0 11.0 0.0 42.17 3.91 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
28 29 0.756294 TGCGGGTCTTTCTGTGAAGA 59.244 50.000 0.00 0.00 33.44 2.87
30 31 2.218603 GCGGGTCTTTCTGTGAAGAAA 58.781 47.619 1.32 1.32 37.40 2.52
33 34 4.454504 GCGGGTCTTTCTGTGAAGAAATAA 59.545 41.667 1.63 0.00 37.40 1.40
64 65 1.500474 ATGGTCCTCCGTGATCACAT 58.500 50.000 24.93 6.04 36.30 3.21
114 115 2.668457 CACATGTTCTCTTGTAGCGACC 59.332 50.000 0.00 0.00 32.05 4.79
134 135 0.387878 CGCTGGAGGCTAAGCTATCG 60.388 60.000 16.89 1.30 37.27 2.92
143 144 3.574396 AGGCTAAGCTATCGACTATTGCA 59.426 43.478 0.00 0.00 38.61 4.08
183 184 3.367932 CCGATTCCATATCGAAACCGATG 59.632 47.826 10.18 0.00 45.33 3.84
184 185 4.234574 CGATTCCATATCGAAACCGATGA 58.765 43.478 10.18 0.00 45.33 2.92
185 186 4.864806 CGATTCCATATCGAAACCGATGAT 59.135 41.667 10.18 0.00 45.33 2.45
192 193 1.737236 TCGAAACCGATGATTGCTTGG 59.263 47.619 0.00 0.00 0.00 3.61
199 200 1.402968 CGATGATTGCTTGGAGGTTGG 59.597 52.381 0.00 0.00 0.00 3.77
210 211 4.599041 CTTGGAGGTTGGGAATATGACAA 58.401 43.478 0.00 0.00 0.00 3.18
222 223 5.297776 GGGAATATGACAATGAGTGTTGAGG 59.702 44.000 0.00 0.00 41.96 3.86
292 293 5.751243 ACAAAGGTTAGTTGTGCTTGTAG 57.249 39.130 0.00 0.00 37.80 2.74
302 303 5.248640 AGTTGTGCTTGTAGTGCTCATATT 58.751 37.500 0.00 0.00 34.58 1.28
307 308 4.112634 GCTTGTAGTGCTCATATTCGACA 58.887 43.478 0.00 0.00 0.00 4.35
350 351 9.492973 CCATTTTATGTCAAACTTTGGAAGAAT 57.507 29.630 1.62 0.00 0.00 2.40
388 389 0.604073 TTGCAGACCGGATAACGTCA 59.396 50.000 9.46 0.00 42.24 4.35
393 394 2.015587 AGACCGGATAACGTCAGAGAC 58.984 52.381 9.46 0.00 42.24 3.36
414 415 2.356665 TATGCCGCCATGGTTGTAAT 57.643 45.000 14.67 4.12 41.21 1.89
444 696 9.973246 CATGTGTTGAGTAATAGTACAAATGTC 57.027 33.333 2.81 0.00 32.38 3.06
539 798 1.528161 GTAAACCGTCGGTGGAACTTG 59.472 52.381 19.67 0.00 35.34 3.16
564 823 8.417106 TGCTGAATTTCCACTTGTTTGTTATTA 58.583 29.630 0.00 0.00 0.00 0.98
700 1050 1.203013 TCTTCCTCCCTCGTCTTGACA 60.203 52.381 1.59 0.00 0.00 3.58
702 1052 1.216710 CCTCCCTCGTCTTGACAGC 59.783 63.158 1.59 0.00 0.00 4.40
705 1055 2.636412 CCCTCGTCTTGACAGCCGA 61.636 63.158 1.59 0.00 0.00 5.54
849 1205 3.276857 CCAAAGATCCAGATCACACCAG 58.723 50.000 10.17 0.00 40.22 4.00
1101 1462 4.227134 CTGATCCTGACGGCGGGG 62.227 72.222 18.46 4.74 41.20 5.73
1236 1597 0.959553 AGTTCGAGAACCTCTTCGCA 59.040 50.000 11.87 0.00 42.06 5.10
1410 1771 3.246226 GCGCAAAGACCTCATGTATGTAG 59.754 47.826 0.30 0.00 0.00 2.74
1422 1783 6.036517 CCTCATGTATGTAGTGCTTGTTCTTC 59.963 42.308 0.00 0.00 0.00 2.87
1432 1812 4.819088 AGTGCTTGTTCTTCTTCTTCTTCC 59.181 41.667 0.00 0.00 0.00 3.46
1435 1815 5.059833 GCTTGTTCTTCTTCTTCTTCCTCA 58.940 41.667 0.00 0.00 0.00 3.86
1447 1827 6.293004 TCTTCTTCCTCATCTTCTTCTTCC 57.707 41.667 0.00 0.00 0.00 3.46
1450 1830 4.714308 TCTTCCTCATCTTCTTCTTCCTCC 59.286 45.833 0.00 0.00 0.00 4.30
1453 1833 3.387699 CCTCATCTTCTTCTTCCTCCTCC 59.612 52.174 0.00 0.00 0.00 4.30
1464 1844 3.151022 CTCCTCCTCTCCGGTGGC 61.151 72.222 0.00 0.00 44.51 5.01
1481 1861 2.582498 CGGTGGCTCGATTCCGAC 60.582 66.667 10.64 5.39 44.86 4.79
1482 1862 2.582498 GGTGGCTCGATTCCGACG 60.582 66.667 0.00 0.00 40.30 5.12
1483 1863 2.582498 GTGGCTCGATTCCGACGG 60.582 66.667 7.84 7.84 40.30 4.79
1484 1864 2.752640 TGGCTCGATTCCGACGGA 60.753 61.111 13.88 13.88 40.30 4.69
1485 1865 2.125326 TGGCTCGATTCCGACGGAT 61.125 57.895 19.12 7.99 40.30 4.18
1486 1866 1.067582 GGCTCGATTCCGACGGATT 59.932 57.895 19.12 14.71 40.30 3.01
1487 1867 1.215655 GGCTCGATTCCGACGGATTG 61.216 60.000 19.12 10.65 40.30 2.67
1488 1868 1.822250 GCTCGATTCCGACGGATTGC 61.822 60.000 19.12 13.37 40.30 3.56
1489 1869 0.249073 CTCGATTCCGACGGATTGCT 60.249 55.000 19.12 2.83 40.30 3.91
1490 1870 0.527600 TCGATTCCGACGGATTGCTG 60.528 55.000 19.12 6.60 40.30 4.41
1493 1873 0.392998 ATTCCGACGGATTGCTGCTT 60.393 50.000 19.12 0.00 0.00 3.91
1540 1925 2.630098 TGCTTCGATTAGATCCAGGAGG 59.370 50.000 0.00 0.00 0.00 4.30
1552 1937 1.153289 CAGGAGGCCGACTGATTGG 60.153 63.158 20.95 0.00 36.86 3.16
1732 2117 2.232941 CCGGTCTACTGGTAAGCTCAAA 59.767 50.000 0.00 0.00 37.62 2.69
1750 2135 5.803967 GCTCAAACCATTCAGTTCATCAATC 59.196 40.000 0.00 0.00 0.00 2.67
1755 2140 3.360533 CATTCAGTTCATCAATCGCAGC 58.639 45.455 0.00 0.00 0.00 5.25
1758 2143 1.674441 CAGTTCATCAATCGCAGCCAT 59.326 47.619 0.00 0.00 0.00 4.40
1799 2188 6.149474 CGAACCATACCTTAATTGATCCATCC 59.851 42.308 0.00 0.00 0.00 3.51
2267 2704 1.199789 AGCACGCACCATGTTTGTATG 59.800 47.619 0.00 0.00 0.00 2.39
2396 2854 4.522405 TGTATGTGAATTGGGGAAACTGTG 59.478 41.667 0.00 0.00 0.00 3.66
2495 2953 3.865745 AGAATTCGAACTGAACATAGGCG 59.134 43.478 0.00 0.00 40.00 5.52
2594 3052 0.326264 AATGCCAGTCTGACCTGACC 59.674 55.000 3.76 0.00 37.66 4.02
2635 3093 2.181975 CATTTGTGAGGGGCCATCTTT 58.818 47.619 20.14 0.00 0.00 2.52
2674 3132 3.533487 AGGAAGGAAAGGGCCAATCTATT 59.467 43.478 6.18 3.00 0.00 1.73
2743 3201 6.309494 CAGAATCATTGTGTTTTACATGCCTG 59.691 38.462 0.00 0.00 39.48 4.85
2777 3236 6.150140 AGAGAAGCTTGACGAAATTTTGCTAT 59.850 34.615 2.10 0.00 0.00 2.97
2778 3237 7.334421 AGAGAAGCTTGACGAAATTTTGCTATA 59.666 33.333 2.10 0.00 0.00 1.31
2807 3271 8.704668 TGATACTGGTGTTGTTCATGTATAGAT 58.295 33.333 0.00 0.00 0.00 1.98
2815 3280 9.464714 GTGTTGTTCATGTATAGATATCGAAGT 57.535 33.333 0.00 0.00 0.00 3.01
2834 3299 8.529424 TCGAAGTTCTAGGGTTTAGAATCATA 57.471 34.615 0.56 0.00 36.16 2.15
2835 3300 8.411683 TCGAAGTTCTAGGGTTTAGAATCATAC 58.588 37.037 0.56 0.00 36.16 2.39
2836 3301 8.414778 CGAAGTTCTAGGGTTTAGAATCATACT 58.585 37.037 0.56 0.00 36.16 2.12
2837 3302 9.752961 GAAGTTCTAGGGTTTAGAATCATACTC 57.247 37.037 0.00 0.00 36.16 2.59
2838 3303 8.252624 AGTTCTAGGGTTTAGAATCATACTCC 57.747 38.462 0.51 0.00 36.16 3.85
2839 3304 7.290481 AGTTCTAGGGTTTAGAATCATACTCCC 59.710 40.741 0.51 0.00 36.16 4.30
2840 3305 6.935036 TCTAGGGTTTAGAATCATACTCCCT 58.065 40.000 0.00 0.00 44.91 4.20
2841 3306 7.371043 TCTAGGGTTTAGAATCATACTCCCTT 58.629 38.462 4.74 0.00 43.05 3.95
2842 3307 6.502074 AGGGTTTAGAATCATACTCCCTTC 57.498 41.667 0.00 0.00 40.79 3.46
2843 3308 5.970640 AGGGTTTAGAATCATACTCCCTTCA 59.029 40.000 0.00 0.00 40.79 3.02
2844 3309 6.621514 AGGGTTTAGAATCATACTCCCTTCAT 59.378 38.462 0.00 0.00 40.79 2.57
2845 3310 7.129504 AGGGTTTAGAATCATACTCCCTTCATT 59.870 37.037 0.00 0.00 40.79 2.57
2846 3311 7.780271 GGGTTTAGAATCATACTCCCTTCATTT 59.220 37.037 0.00 0.00 0.00 2.32
2847 3312 8.841300 GGTTTAGAATCATACTCCCTTCATTTC 58.159 37.037 0.00 0.00 0.00 2.17
2848 3313 9.620259 GTTTAGAATCATACTCCCTTCATTTCT 57.380 33.333 0.00 0.00 0.00 2.52
2859 3324 8.794335 ACTCCCTTCATTTCTAAATACAAGAC 57.206 34.615 7.44 0.00 0.00 3.01
2860 3325 7.829706 ACTCCCTTCATTTCTAAATACAAGACC 59.170 37.037 7.44 0.00 0.00 3.85
2861 3326 7.928873 TCCCTTCATTTCTAAATACAAGACCT 58.071 34.615 7.44 0.00 0.00 3.85
2862 3327 8.390921 TCCCTTCATTTCTAAATACAAGACCTT 58.609 33.333 7.44 0.00 0.00 3.50
2863 3328 9.025041 CCCTTCATTTCTAAATACAAGACCTTT 57.975 33.333 7.44 0.00 0.00 3.11
2890 3355 8.928270 AGAGATTTTACTATGGACTACAAACG 57.072 34.615 0.00 0.00 0.00 3.60
2891 3356 7.980099 AGAGATTTTACTATGGACTACAAACGG 59.020 37.037 0.00 0.00 0.00 4.44
2892 3357 7.844009 AGATTTTACTATGGACTACAAACGGA 58.156 34.615 0.00 0.00 0.00 4.69
2893 3358 8.483758 AGATTTTACTATGGACTACAAACGGAT 58.516 33.333 0.00 0.00 0.00 4.18
2894 3359 7.837202 TTTTACTATGGACTACAAACGGATG 57.163 36.000 0.00 0.00 0.00 3.51
2895 3360 6.534475 TTACTATGGACTACAAACGGATGT 57.466 37.500 0.96 0.96 37.32 3.06
2896 3361 7.643569 TTACTATGGACTACAAACGGATGTA 57.356 36.000 3.08 3.08 34.75 2.29
2897 3362 6.726490 ACTATGGACTACAAACGGATGTAT 57.274 37.500 3.45 0.00 35.37 2.29
2898 3363 7.828508 ACTATGGACTACAAACGGATGTATA 57.171 36.000 3.45 0.00 35.37 1.47
2899 3364 8.418597 ACTATGGACTACAAACGGATGTATAT 57.581 34.615 3.45 0.00 35.37 0.86
2900 3365 9.524496 ACTATGGACTACAAACGGATGTATATA 57.476 33.333 3.45 0.00 35.37 0.86
2902 3367 8.645814 ATGGACTACAAACGGATGTATATAGA 57.354 34.615 3.45 0.00 35.37 1.98
2903 3368 7.879070 TGGACTACAAACGGATGTATATAGAC 58.121 38.462 3.45 0.00 35.37 2.59
2904 3369 7.020010 GGACTACAAACGGATGTATATAGACG 58.980 42.308 3.45 0.00 35.37 4.18
2905 3370 7.308229 GGACTACAAACGGATGTATATAGACGT 60.308 40.741 0.00 0.00 35.37 4.34
2906 3371 8.607441 ACTACAAACGGATGTATATAGACGTA 57.393 34.615 3.45 0.00 35.37 3.57
2907 3372 9.224267 ACTACAAACGGATGTATATAGACGTAT 57.776 33.333 3.45 0.00 35.37 3.06
2910 3375 9.754382 ACAAACGGATGTATATAGACGTATTTT 57.246 29.630 0.00 0.00 33.85 1.82
2936 3401 8.885494 AGAGTATAGATTCACTCATTTTGCTC 57.115 34.615 4.70 0.00 42.99 4.26
2937 3402 7.930865 AGAGTATAGATTCACTCATTTTGCTCC 59.069 37.037 4.70 0.00 42.99 4.70
2938 3403 5.998454 ATAGATTCACTCATTTTGCTCCG 57.002 39.130 0.00 0.00 0.00 4.63
2939 3404 3.942829 AGATTCACTCATTTTGCTCCGA 58.057 40.909 0.00 0.00 0.00 4.55
2940 3405 4.326826 AGATTCACTCATTTTGCTCCGAA 58.673 39.130 0.00 0.00 0.00 4.30
2941 3406 4.946157 AGATTCACTCATTTTGCTCCGAAT 59.054 37.500 0.00 0.00 0.00 3.34
2942 3407 4.424061 TTCACTCATTTTGCTCCGAATG 57.576 40.909 0.00 0.00 35.18 2.67
2943 3408 2.162208 TCACTCATTTTGCTCCGAATGC 59.838 45.455 0.00 0.00 34.15 3.56
2944 3409 2.095110 CACTCATTTTGCTCCGAATGCA 60.095 45.455 0.00 0.00 38.80 3.96
2945 3410 2.163010 ACTCATTTTGCTCCGAATGCAG 59.837 45.455 0.00 0.00 41.71 4.41
2946 3411 2.161855 TCATTTTGCTCCGAATGCAGT 58.838 42.857 0.00 0.00 41.71 4.40
2947 3412 2.162208 TCATTTTGCTCCGAATGCAGTC 59.838 45.455 3.54 3.54 41.71 3.51
2948 3413 1.896220 TTTTGCTCCGAATGCAGTCT 58.104 45.000 12.92 0.00 41.71 3.24
2949 3414 1.159285 TTTGCTCCGAATGCAGTCTG 58.841 50.000 12.92 5.86 41.71 3.51
2950 3415 0.035317 TTGCTCCGAATGCAGTCTGT 59.965 50.000 12.92 0.00 41.71 3.41
2951 3416 0.894835 TGCTCCGAATGCAGTCTGTA 59.105 50.000 12.92 0.00 35.31 2.74
2952 3417 1.482182 TGCTCCGAATGCAGTCTGTAT 59.518 47.619 12.92 0.00 35.31 2.29
2953 3418 2.093500 TGCTCCGAATGCAGTCTGTATT 60.093 45.455 15.15 15.15 35.40 1.89
2954 3419 2.286294 GCTCCGAATGCAGTCTGTATTG 59.714 50.000 19.42 11.80 32.86 1.90
2955 3420 2.868583 CTCCGAATGCAGTCTGTATTGG 59.131 50.000 19.42 17.35 32.86 3.16
2956 3421 2.499693 TCCGAATGCAGTCTGTATTGGA 59.500 45.455 21.62 20.95 32.86 3.53
2957 3422 3.055458 TCCGAATGCAGTCTGTATTGGAA 60.055 43.478 21.62 4.19 32.86 3.53
2958 3423 3.879295 CCGAATGCAGTCTGTATTGGAAT 59.121 43.478 21.62 0.27 32.86 3.01
2959 3424 4.024556 CCGAATGCAGTCTGTATTGGAATC 60.025 45.833 21.62 7.97 32.86 2.52
2960 3425 4.813161 CGAATGCAGTCTGTATTGGAATCT 59.187 41.667 19.42 0.00 32.86 2.40
2961 3426 5.985530 CGAATGCAGTCTGTATTGGAATCTA 59.014 40.000 19.42 0.00 32.86 1.98
2962 3427 6.648310 CGAATGCAGTCTGTATTGGAATCTAT 59.352 38.462 19.42 0.00 32.86 1.98
2963 3428 7.814587 CGAATGCAGTCTGTATTGGAATCTATA 59.185 37.037 19.42 0.00 32.86 1.31
2964 3429 9.494271 GAATGCAGTCTGTATTGGAATCTATAA 57.506 33.333 19.42 0.00 32.86 0.98
2965 3430 9.499479 AATGCAGTCTGTATTGGAATCTATAAG 57.501 33.333 14.56 0.00 31.51 1.73
2966 3431 8.250143 TGCAGTCTGTATTGGAATCTATAAGA 57.750 34.615 0.93 0.00 0.00 2.10
2967 3432 8.704668 TGCAGTCTGTATTGGAATCTATAAGAA 58.295 33.333 0.93 0.00 0.00 2.52
2968 3433 9.202273 GCAGTCTGTATTGGAATCTATAAGAAG 57.798 37.037 0.93 0.00 0.00 2.85
2969 3434 9.703892 CAGTCTGTATTGGAATCTATAAGAAGG 57.296 37.037 0.00 0.00 0.00 3.46
2970 3435 8.371699 AGTCTGTATTGGAATCTATAAGAAGGC 58.628 37.037 0.00 0.00 0.00 4.35
2971 3436 8.371699 GTCTGTATTGGAATCTATAAGAAGGCT 58.628 37.037 0.00 0.00 0.00 4.58
2972 3437 8.589338 TCTGTATTGGAATCTATAAGAAGGCTC 58.411 37.037 0.00 0.00 0.00 4.70
2973 3438 8.262601 TGTATTGGAATCTATAAGAAGGCTCA 57.737 34.615 0.00 0.00 0.00 4.26
2974 3439 8.370940 TGTATTGGAATCTATAAGAAGGCTCAG 58.629 37.037 0.00 0.00 0.00 3.35
2975 3440 7.623999 ATTGGAATCTATAAGAAGGCTCAGA 57.376 36.000 0.00 0.00 0.00 3.27
2976 3441 7.623999 TTGGAATCTATAAGAAGGCTCAGAT 57.376 36.000 0.00 0.00 0.00 2.90
2977 3442 7.623999 TGGAATCTATAAGAAGGCTCAGATT 57.376 36.000 0.00 0.00 35.89 2.40
2978 3443 8.038862 TGGAATCTATAAGAAGGCTCAGATTT 57.961 34.615 0.00 0.00 33.93 2.17
2979 3444 9.159254 TGGAATCTATAAGAAGGCTCAGATTTA 57.841 33.333 0.00 0.00 33.93 1.40
2980 3445 9.651913 GGAATCTATAAGAAGGCTCAGATTTAG 57.348 37.037 0.00 0.00 33.93 1.85
2981 3446 9.651913 GAATCTATAAGAAGGCTCAGATTTAGG 57.348 37.037 0.00 0.00 33.93 2.69
2982 3447 8.964533 ATCTATAAGAAGGCTCAGATTTAGGA 57.035 34.615 0.00 0.00 0.00 2.94
2983 3448 8.783660 TCTATAAGAAGGCTCAGATTTAGGAA 57.216 34.615 0.00 0.00 0.00 3.36
2984 3449 9.386122 TCTATAAGAAGGCTCAGATTTAGGAAT 57.614 33.333 0.00 0.00 0.00 3.01
2985 3450 9.434420 CTATAAGAAGGCTCAGATTTAGGAATG 57.566 37.037 0.00 0.00 0.00 2.67
2986 3451 5.046288 AGAAGGCTCAGATTTAGGAATGG 57.954 43.478 0.00 0.00 0.00 3.16
2987 3452 3.872459 AGGCTCAGATTTAGGAATGGG 57.128 47.619 0.00 0.00 0.00 4.00
2988 3453 2.444766 AGGCTCAGATTTAGGAATGGGG 59.555 50.000 0.00 0.00 0.00 4.96
2989 3454 2.489802 GGCTCAGATTTAGGAATGGGGG 60.490 54.545 0.00 0.00 0.00 5.40
2990 3455 2.443255 GCTCAGATTTAGGAATGGGGGA 59.557 50.000 0.00 0.00 0.00 4.81
2991 3456 3.497584 GCTCAGATTTAGGAATGGGGGAG 60.498 52.174 0.00 0.00 0.00 4.30
3016 3481 6.915544 ACTAGTGTTGTTCATGCATAGATG 57.084 37.500 0.00 0.00 0.00 2.90
3026 3491 7.259882 TGTTCATGCATAGATGTGGAAATTTC 58.740 34.615 9.83 9.83 0.00 2.17
3064 3531 3.026630 CATGGATCATGCAGGCAAATC 57.973 47.619 0.00 4.89 35.02 2.17
3065 3532 1.405872 TGGATCATGCAGGCAAATCC 58.594 50.000 22.43 22.43 40.14 3.01
3066 3533 4.568236 CATGGATCATGCAGGCAAATCCT 61.568 47.826 26.16 16.00 40.26 3.24
3067 3534 2.175284 TGGATCATGCAGGCAAATCCTA 59.825 45.455 26.16 16.51 45.52 2.94
3068 3535 3.181426 TGGATCATGCAGGCAAATCCTAT 60.181 43.478 26.16 6.77 45.52 2.57
3070 3537 5.198965 GGATCATGCAGGCAAATCCTATAT 58.801 41.667 22.14 1.69 45.52 0.86
3071 3538 5.067413 GGATCATGCAGGCAAATCCTATATG 59.933 44.000 22.14 5.83 45.52 1.78
3072 3539 4.338012 TCATGCAGGCAAATCCTATATGG 58.662 43.478 0.00 0.00 45.52 2.74
3129 3597 1.301716 CCGCCACTGCTACAACTGT 60.302 57.895 0.00 0.00 34.43 3.55
3182 3650 2.483877 CCGACATACAGCACAACACAAT 59.516 45.455 0.00 0.00 0.00 2.71
3186 3654 5.444613 CGACATACAGCACAACACAATAGTC 60.445 44.000 0.00 0.00 0.00 2.59
3244 3712 8.931385 AAAATAAAACGCATCTAATCTTGCAT 57.069 26.923 0.00 0.00 38.80 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 0.756294 TCTTCACAGAAAGACCCGCA 59.244 50.000 0.00 0.00 30.38 5.69
28 29 6.306987 AGGACCATGTCTGTTCTTGTTATTT 58.693 36.000 0.00 0.00 32.47 1.40
30 31 5.491982 GAGGACCATGTCTGTTCTTGTTAT 58.508 41.667 0.00 0.00 32.47 1.89
33 34 2.039084 GGAGGACCATGTCTGTTCTTGT 59.961 50.000 0.00 0.00 35.97 3.16
82 83 1.303561 AACATGTGGCGGCATGAGT 60.304 52.632 17.19 11.16 46.65 3.41
126 127 3.006323 CCCTCTGCAATAGTCGATAGCTT 59.994 47.826 0.00 0.00 0.00 3.74
134 135 5.675538 AGTGTTTATCCCTCTGCAATAGTC 58.324 41.667 0.00 0.00 0.00 2.59
183 184 1.923356 TTCCCAACCTCCAAGCAATC 58.077 50.000 0.00 0.00 0.00 2.67
184 185 2.629017 ATTCCCAACCTCCAAGCAAT 57.371 45.000 0.00 0.00 0.00 3.56
185 186 3.011144 TCATATTCCCAACCTCCAAGCAA 59.989 43.478 0.00 0.00 0.00 3.91
192 193 5.297776 CACTCATTGTCATATTCCCAACCTC 59.702 44.000 0.00 0.00 0.00 3.85
199 200 6.037610 GTCCTCAACACTCATTGTCATATTCC 59.962 42.308 0.00 0.00 37.51 3.01
210 211 1.935300 GCGAACGTCCTCAACACTCAT 60.935 52.381 0.00 0.00 0.00 2.90
222 223 0.247695 GCATAAGGCAAGCGAACGTC 60.248 55.000 0.00 0.00 43.97 4.34
271 272 5.510671 CACTACAAGCACAACTAACCTTTG 58.489 41.667 0.00 0.00 0.00 2.77
272 273 4.036380 GCACTACAAGCACAACTAACCTTT 59.964 41.667 0.00 0.00 0.00 3.11
292 293 6.546395 AGTTTTGATTGTCGAATATGAGCAC 58.454 36.000 0.00 0.00 0.00 4.40
302 303 5.992829 TGGCTTACTTAGTTTTGATTGTCGA 59.007 36.000 0.00 0.00 0.00 4.20
350 351 3.708890 CAAACCGCAGTCCGTATATGTA 58.291 45.455 0.00 0.00 34.38 2.29
378 379 4.299978 GGCATAAGTCTCTGACGTTATCC 58.700 47.826 0.00 0.00 37.67 2.59
388 389 0.107456 CCATGGCGGCATAAGTCTCT 59.893 55.000 25.33 0.00 0.00 3.10
393 394 1.674359 TACAACCATGGCGGCATAAG 58.326 50.000 25.33 20.31 39.03 1.73
414 415 9.990360 TTTGTACTATTACTCAACACATGAAGA 57.010 29.630 0.00 0.00 37.67 2.87
460 712 7.093112 CCCAAATACATCCCCATTTGTCTTAAA 60.093 37.037 6.36 0.00 39.45 1.52
477 731 3.784178 TCCATGAAAAGCCCCAAATACA 58.216 40.909 0.00 0.00 0.00 2.29
479 733 5.743117 CATTTCCATGAAAAGCCCCAAATA 58.257 37.500 0.00 0.00 35.11 1.40
539 798 7.713764 AATAACAAACAAGTGGAAATTCAGC 57.286 32.000 0.00 0.00 0.00 4.26
643 989 1.274447 ACAGCTGGTTCGGTAGGTAAC 59.726 52.381 19.93 0.00 0.00 2.50
674 1020 2.416432 CGAGGGAGGAAGACGGGAC 61.416 68.421 0.00 0.00 0.00 4.46
870 1226 2.895426 CTTCTCGGGAGCTCGGGAGA 62.895 65.000 23.74 23.74 40.97 3.71
978 1334 2.758736 TCTTGCTCTTCTTGCTCTCC 57.241 50.000 0.00 0.00 0.00 3.71
979 1335 3.924144 TCTTCTTGCTCTTCTTGCTCTC 58.076 45.455 0.00 0.00 0.00 3.20
980 1336 4.020396 TCATCTTCTTGCTCTTCTTGCTCT 60.020 41.667 0.00 0.00 0.00 4.09
981 1337 4.252073 TCATCTTCTTGCTCTTCTTGCTC 58.748 43.478 0.00 0.00 0.00 4.26
984 1340 4.435784 CGCTTCATCTTCTTGCTCTTCTTG 60.436 45.833 0.00 0.00 0.00 3.02
1101 1462 0.033504 TGAGCTTCACCTTCCACGTC 59.966 55.000 0.00 0.00 0.00 4.34
1104 1465 1.072331 TCCTTGAGCTTCACCTTCCAC 59.928 52.381 0.00 0.00 0.00 4.02
1236 1597 2.203294 ACGGGGAAGTTGCGCTTT 60.203 55.556 9.73 0.00 37.59 3.51
1410 1771 4.819088 AGGAAGAAGAAGAAGAACAAGCAC 59.181 41.667 0.00 0.00 0.00 4.40
1422 1783 6.818142 GGAAGAAGAAGATGAGGAAGAAGAAG 59.182 42.308 0.00 0.00 0.00 2.85
1432 1812 4.289245 AGGAGGAGGAAGAAGAAGATGAG 58.711 47.826 0.00 0.00 0.00 2.90
1435 1815 4.546674 GAGAGGAGGAGGAAGAAGAAGAT 58.453 47.826 0.00 0.00 0.00 2.40
1464 1844 2.582498 GTCGGAATCGAGCCACCG 60.582 66.667 13.46 13.46 46.91 4.94
1481 1861 0.524862 AGAGCAAAAGCAGCAATCCG 59.475 50.000 0.00 0.00 0.00 4.18
1482 1862 1.992170 CAGAGCAAAAGCAGCAATCC 58.008 50.000 0.00 0.00 0.00 3.01
1483 1863 1.067776 AGCAGAGCAAAAGCAGCAATC 60.068 47.619 0.00 0.00 0.00 2.67
1484 1864 0.966920 AGCAGAGCAAAAGCAGCAAT 59.033 45.000 0.00 0.00 0.00 3.56
1485 1865 0.748450 AAGCAGAGCAAAAGCAGCAA 59.252 45.000 0.00 0.00 0.00 3.91
1486 1866 0.313043 GAAGCAGAGCAAAAGCAGCA 59.687 50.000 0.00 0.00 0.00 4.41
1487 1867 0.388263 GGAAGCAGAGCAAAAGCAGC 60.388 55.000 0.00 0.00 0.00 5.25
1488 1868 1.068472 CAGGAAGCAGAGCAAAAGCAG 60.068 52.381 0.00 0.00 0.00 4.24
1489 1869 0.956633 CAGGAAGCAGAGCAAAAGCA 59.043 50.000 0.00 0.00 0.00 3.91
1490 1870 0.957362 ACAGGAAGCAGAGCAAAAGC 59.043 50.000 0.00 0.00 0.00 3.51
1493 1873 0.670162 GCAACAGGAAGCAGAGCAAA 59.330 50.000 0.00 0.00 0.00 3.68
1540 1925 0.250513 AGAAGACCCAATCAGTCGGC 59.749 55.000 0.00 0.00 39.31 5.54
1552 1937 2.633488 GTATCCACCTGCAAGAAGACC 58.367 52.381 0.00 0.00 34.07 3.85
1732 2117 3.346315 TGCGATTGATGAACTGAATGGT 58.654 40.909 0.00 0.00 0.00 3.55
1777 2164 5.309543 TCGGATGGATCAATTAAGGTATGGT 59.690 40.000 0.00 0.00 0.00 3.55
1778 2165 5.804639 TCGGATGGATCAATTAAGGTATGG 58.195 41.667 0.00 0.00 0.00 2.74
1779 2166 6.369890 CACTCGGATGGATCAATTAAGGTATG 59.630 42.308 0.00 0.00 0.00 2.39
1780 2167 6.467677 CACTCGGATGGATCAATTAAGGTAT 58.532 40.000 0.00 0.00 0.00 2.73
1781 2168 5.221641 CCACTCGGATGGATCAATTAAGGTA 60.222 44.000 0.00 0.00 43.02 3.08
1782 2169 4.444876 CCACTCGGATGGATCAATTAAGGT 60.445 45.833 0.00 0.00 43.02 3.50
1799 2188 2.135933 GTTGAAGTTCCTGTCCACTCG 58.864 52.381 0.00 0.00 0.00 4.18
1806 2238 1.604693 CGCCGTAGTTGAAGTTCCTGT 60.605 52.381 0.00 0.00 0.00 4.00
2267 2704 4.604976 GTGGCAAGAATATCTGAACATGC 58.395 43.478 0.00 0.00 0.00 4.06
2495 2953 4.526262 AGCAGAGTCATGGTAGGATATGTC 59.474 45.833 0.00 0.00 0.00 3.06
2578 3036 0.321122 CTTGGTCAGGTCAGACTGGC 60.321 60.000 1.81 0.00 42.24 4.85
2594 3052 2.608752 GGCTCAATCAAGCAACACCTTG 60.609 50.000 0.00 0.00 44.35 3.61
2635 3093 3.410631 TCCTTGGATCACGTTTGCTAA 57.589 42.857 0.00 0.00 0.00 3.09
2716 3174 5.062558 GCATGTAAAACACAATGATTCTGCC 59.937 40.000 0.00 0.00 41.55 4.85
2777 3236 7.994425 ACATGAACAACACCAGTATCATTTA 57.006 32.000 0.00 0.00 0.00 1.40
2778 3237 6.899393 ACATGAACAACACCAGTATCATTT 57.101 33.333 0.00 0.00 0.00 2.32
2788 3252 8.812147 TTCGATATCTATACATGAACAACACC 57.188 34.615 0.00 0.00 0.00 4.16
2807 3271 8.529424 TGATTCTAAACCCTAGAACTTCGATA 57.471 34.615 0.00 0.00 36.51 2.92
2815 3280 7.371043 AGGGAGTATGATTCTAAACCCTAGAA 58.629 38.462 0.00 0.00 43.67 2.10
2834 3299 7.829706 GGTCTTGTATTTAGAAATGAAGGGAGT 59.170 37.037 0.00 0.00 0.00 3.85
2835 3300 8.049721 AGGTCTTGTATTTAGAAATGAAGGGAG 58.950 37.037 0.00 0.00 0.00 4.30
2836 3301 7.928873 AGGTCTTGTATTTAGAAATGAAGGGA 58.071 34.615 0.00 0.00 0.00 4.20
2837 3302 8.581253 AAGGTCTTGTATTTAGAAATGAAGGG 57.419 34.615 0.00 0.00 0.00 3.95
2865 3330 7.980099 CCGTTTGTAGTCCATAGTAAAATCTCT 59.020 37.037 0.00 0.00 0.00 3.10
2866 3331 7.977853 TCCGTTTGTAGTCCATAGTAAAATCTC 59.022 37.037 0.00 0.00 0.00 2.75
2867 3332 7.844009 TCCGTTTGTAGTCCATAGTAAAATCT 58.156 34.615 0.00 0.00 0.00 2.40
2868 3333 8.548721 CATCCGTTTGTAGTCCATAGTAAAATC 58.451 37.037 0.00 0.00 0.00 2.17
2869 3334 8.044908 ACATCCGTTTGTAGTCCATAGTAAAAT 58.955 33.333 0.00 0.00 0.00 1.82
2870 3335 7.388437 ACATCCGTTTGTAGTCCATAGTAAAA 58.612 34.615 0.00 0.00 0.00 1.52
2871 3336 6.938507 ACATCCGTTTGTAGTCCATAGTAAA 58.061 36.000 0.00 0.00 0.00 2.01
2872 3337 6.534475 ACATCCGTTTGTAGTCCATAGTAA 57.466 37.500 0.00 0.00 0.00 2.24
2873 3338 7.828508 ATACATCCGTTTGTAGTCCATAGTA 57.171 36.000 1.87 0.00 35.65 1.82
2874 3339 6.726490 ATACATCCGTTTGTAGTCCATAGT 57.274 37.500 1.87 0.00 35.65 2.12
2876 3341 9.743581 TCTATATACATCCGTTTGTAGTCCATA 57.256 33.333 1.87 0.00 35.65 2.74
2877 3342 8.521176 GTCTATATACATCCGTTTGTAGTCCAT 58.479 37.037 1.87 0.00 35.65 3.41
2878 3343 7.308169 CGTCTATATACATCCGTTTGTAGTCCA 60.308 40.741 1.87 0.00 35.65 4.02
2879 3344 7.020010 CGTCTATATACATCCGTTTGTAGTCC 58.980 42.308 1.87 0.00 35.65 3.85
2880 3345 7.579726 ACGTCTATATACATCCGTTTGTAGTC 58.420 38.462 1.87 0.00 35.65 2.59
2881 3346 7.502120 ACGTCTATATACATCCGTTTGTAGT 57.498 36.000 1.87 0.00 35.65 2.73
2884 3349 9.754382 AAAATACGTCTATATACATCCGTTTGT 57.246 29.630 0.00 0.00 0.00 2.83
2910 3375 9.973450 GAGCAAAATGAGTGAATCTATACTCTA 57.027 33.333 0.00 0.00 42.86 2.43
2911 3376 7.930865 GGAGCAAAATGAGTGAATCTATACTCT 59.069 37.037 0.00 0.00 42.86 3.24
2912 3377 7.095857 CGGAGCAAAATGAGTGAATCTATACTC 60.096 40.741 0.00 0.00 42.77 2.59
2913 3378 6.703607 CGGAGCAAAATGAGTGAATCTATACT 59.296 38.462 0.00 0.00 0.00 2.12
2914 3379 6.701841 TCGGAGCAAAATGAGTGAATCTATAC 59.298 38.462 0.00 0.00 0.00 1.47
2915 3380 6.816136 TCGGAGCAAAATGAGTGAATCTATA 58.184 36.000 0.00 0.00 0.00 1.31
2916 3381 5.674525 TCGGAGCAAAATGAGTGAATCTAT 58.325 37.500 0.00 0.00 0.00 1.98
2917 3382 5.084818 TCGGAGCAAAATGAGTGAATCTA 57.915 39.130 0.00 0.00 0.00 1.98
2918 3383 3.942829 TCGGAGCAAAATGAGTGAATCT 58.057 40.909 0.00 0.00 0.00 2.40
2919 3384 4.685169 TTCGGAGCAAAATGAGTGAATC 57.315 40.909 0.00 0.00 0.00 2.52
2920 3385 4.676196 GCATTCGGAGCAAAATGAGTGAAT 60.676 41.667 0.00 0.00 35.35 2.57
2921 3386 3.366273 GCATTCGGAGCAAAATGAGTGAA 60.366 43.478 0.00 0.00 35.35 3.18
2922 3387 2.162208 GCATTCGGAGCAAAATGAGTGA 59.838 45.455 0.00 0.00 35.35 3.41
2923 3388 2.095110 TGCATTCGGAGCAAAATGAGTG 60.095 45.455 0.00 0.00 39.39 3.51
2924 3389 2.161855 TGCATTCGGAGCAAAATGAGT 58.838 42.857 0.00 0.00 39.39 3.41
2925 3390 2.163010 ACTGCATTCGGAGCAAAATGAG 59.837 45.455 0.00 0.00 42.17 2.90
2926 3391 2.161855 ACTGCATTCGGAGCAAAATGA 58.838 42.857 0.00 0.00 42.17 2.57
2927 3392 2.163010 AGACTGCATTCGGAGCAAAATG 59.837 45.455 0.00 0.00 42.17 2.32
2928 3393 2.163010 CAGACTGCATTCGGAGCAAAAT 59.837 45.455 0.00 0.00 42.17 1.82
2929 3394 1.536766 CAGACTGCATTCGGAGCAAAA 59.463 47.619 0.00 0.00 42.17 2.44
2930 3395 1.159285 CAGACTGCATTCGGAGCAAA 58.841 50.000 0.00 0.00 42.17 3.68
2931 3396 0.035317 ACAGACTGCATTCGGAGCAA 59.965 50.000 11.00 0.00 42.17 3.91
2932 3397 0.894835 TACAGACTGCATTCGGAGCA 59.105 50.000 11.00 0.00 40.19 4.26
2933 3398 2.231215 ATACAGACTGCATTCGGAGC 57.769 50.000 11.00 0.00 32.91 4.70
2934 3399 2.868583 CCAATACAGACTGCATTCGGAG 59.131 50.000 11.00 2.48 36.48 4.63
2935 3400 2.499693 TCCAATACAGACTGCATTCGGA 59.500 45.455 11.00 8.55 0.00 4.55
2936 3401 2.905075 TCCAATACAGACTGCATTCGG 58.095 47.619 1.25 2.71 0.00 4.30
2937 3402 4.813161 AGATTCCAATACAGACTGCATTCG 59.187 41.667 1.25 0.00 0.00 3.34
2938 3403 7.976135 ATAGATTCCAATACAGACTGCATTC 57.024 36.000 1.25 0.00 0.00 2.67
2939 3404 9.499479 CTTATAGATTCCAATACAGACTGCATT 57.501 33.333 1.25 0.00 0.00 3.56
2940 3405 8.874156 TCTTATAGATTCCAATACAGACTGCAT 58.126 33.333 1.25 0.00 0.00 3.96
2941 3406 8.250143 TCTTATAGATTCCAATACAGACTGCA 57.750 34.615 1.25 0.00 0.00 4.41
2942 3407 9.202273 CTTCTTATAGATTCCAATACAGACTGC 57.798 37.037 1.25 0.00 0.00 4.40
2943 3408 9.703892 CCTTCTTATAGATTCCAATACAGACTG 57.296 37.037 0.00 0.00 0.00 3.51
2944 3409 8.371699 GCCTTCTTATAGATTCCAATACAGACT 58.628 37.037 0.00 0.00 0.00 3.24
2945 3410 8.371699 AGCCTTCTTATAGATTCCAATACAGAC 58.628 37.037 0.00 0.00 0.00 3.51
2946 3411 8.497910 AGCCTTCTTATAGATTCCAATACAGA 57.502 34.615 0.00 0.00 0.00 3.41
2947 3412 8.370940 TGAGCCTTCTTATAGATTCCAATACAG 58.629 37.037 0.00 0.00 0.00 2.74
2948 3413 8.262601 TGAGCCTTCTTATAGATTCCAATACA 57.737 34.615 0.00 0.00 0.00 2.29
2949 3414 8.589338 TCTGAGCCTTCTTATAGATTCCAATAC 58.411 37.037 0.00 0.00 0.00 1.89
2950 3415 8.727100 TCTGAGCCTTCTTATAGATTCCAATA 57.273 34.615 0.00 0.00 0.00 1.90
2951 3416 7.623999 TCTGAGCCTTCTTATAGATTCCAAT 57.376 36.000 0.00 0.00 0.00 3.16
2952 3417 7.623999 ATCTGAGCCTTCTTATAGATTCCAA 57.376 36.000 0.00 0.00 0.00 3.53
2953 3418 7.623999 AATCTGAGCCTTCTTATAGATTCCA 57.376 36.000 0.00 0.00 31.30 3.53
2954 3419 9.651913 CTAAATCTGAGCCTTCTTATAGATTCC 57.348 37.037 0.00 0.00 34.74 3.01
2955 3420 9.651913 CCTAAATCTGAGCCTTCTTATAGATTC 57.348 37.037 0.00 0.00 34.74 2.52
2956 3421 9.386122 TCCTAAATCTGAGCCTTCTTATAGATT 57.614 33.333 0.00 0.00 36.69 2.40
2957 3422 8.964533 TCCTAAATCTGAGCCTTCTTATAGAT 57.035 34.615 0.00 0.00 0.00 1.98
2958 3423 8.783660 TTCCTAAATCTGAGCCTTCTTATAGA 57.216 34.615 0.00 0.00 0.00 1.98
2959 3424 9.434420 CATTCCTAAATCTGAGCCTTCTTATAG 57.566 37.037 0.00 0.00 0.00 1.31
2960 3425 8.378565 CCATTCCTAAATCTGAGCCTTCTTATA 58.621 37.037 0.00 0.00 0.00 0.98
2961 3426 7.230027 CCATTCCTAAATCTGAGCCTTCTTAT 58.770 38.462 0.00 0.00 0.00 1.73
2962 3427 6.409695 CCCATTCCTAAATCTGAGCCTTCTTA 60.410 42.308 0.00 0.00 0.00 2.10
2963 3428 5.444176 CCATTCCTAAATCTGAGCCTTCTT 58.556 41.667 0.00 0.00 0.00 2.52
2964 3429 4.141298 CCCATTCCTAAATCTGAGCCTTCT 60.141 45.833 0.00 0.00 0.00 2.85
2965 3430 4.140536 CCCATTCCTAAATCTGAGCCTTC 58.859 47.826 0.00 0.00 0.00 3.46
2966 3431 3.117360 CCCCATTCCTAAATCTGAGCCTT 60.117 47.826 0.00 0.00 0.00 4.35
2967 3432 2.444766 CCCCATTCCTAAATCTGAGCCT 59.555 50.000 0.00 0.00 0.00 4.58
2968 3433 2.489802 CCCCCATTCCTAAATCTGAGCC 60.490 54.545 0.00 0.00 0.00 4.70
2969 3434 2.443255 TCCCCCATTCCTAAATCTGAGC 59.557 50.000 0.00 0.00 0.00 4.26
2970 3435 3.718956 ACTCCCCCATTCCTAAATCTGAG 59.281 47.826 0.00 0.00 0.00 3.35
2971 3436 3.747852 ACTCCCCCATTCCTAAATCTGA 58.252 45.455 0.00 0.00 0.00 3.27
2972 3437 4.660771 AGTACTCCCCCATTCCTAAATCTG 59.339 45.833 0.00 0.00 0.00 2.90
2973 3438 4.909284 AGTACTCCCCCATTCCTAAATCT 58.091 43.478 0.00 0.00 0.00 2.40
2974 3439 5.845065 ACTAGTACTCCCCCATTCCTAAATC 59.155 44.000 0.00 0.00 0.00 2.17
2975 3440 5.607171 CACTAGTACTCCCCCATTCCTAAAT 59.393 44.000 0.00 0.00 0.00 1.40
2976 3441 4.966805 CACTAGTACTCCCCCATTCCTAAA 59.033 45.833 0.00 0.00 0.00 1.85
2977 3442 4.015918 ACACTAGTACTCCCCCATTCCTAA 60.016 45.833 0.00 0.00 0.00 2.69
2978 3443 3.534747 ACACTAGTACTCCCCCATTCCTA 59.465 47.826 0.00 0.00 0.00 2.94
2979 3444 2.318207 ACACTAGTACTCCCCCATTCCT 59.682 50.000 0.00 0.00 0.00 3.36
2980 3445 2.760581 ACACTAGTACTCCCCCATTCC 58.239 52.381 0.00 0.00 0.00 3.01
2981 3446 3.518303 ACAACACTAGTACTCCCCCATTC 59.482 47.826 0.00 0.00 0.00 2.67
2982 3447 3.527937 ACAACACTAGTACTCCCCCATT 58.472 45.455 0.00 0.00 0.00 3.16
2983 3448 3.200958 ACAACACTAGTACTCCCCCAT 57.799 47.619 0.00 0.00 0.00 4.00
2984 3449 2.708037 ACAACACTAGTACTCCCCCA 57.292 50.000 0.00 0.00 0.00 4.96
2985 3450 2.901839 TGAACAACACTAGTACTCCCCC 59.098 50.000 0.00 0.00 0.00 5.40
2986 3451 4.504858 CATGAACAACACTAGTACTCCCC 58.495 47.826 0.00 0.00 0.00 4.81
2987 3452 3.933332 GCATGAACAACACTAGTACTCCC 59.067 47.826 0.00 0.00 0.00 4.30
2988 3453 4.566004 TGCATGAACAACACTAGTACTCC 58.434 43.478 0.00 0.00 0.00 3.85
2989 3454 7.258441 TCTATGCATGAACAACACTAGTACTC 58.742 38.462 10.16 0.00 0.00 2.59
2990 3455 7.170393 TCTATGCATGAACAACACTAGTACT 57.830 36.000 10.16 0.00 0.00 2.73
2991 3456 7.492669 ACATCTATGCATGAACAACACTAGTAC 59.507 37.037 10.16 0.00 0.00 2.73
3089 3556 1.744374 CGTTATTCTCCGAGCTCGTC 58.256 55.000 32.41 12.04 37.74 4.20
3096 3563 1.517694 GCGGTGCGTTATTCTCCGA 60.518 57.895 6.09 0.00 43.22 4.55
3098 3565 1.448893 TGGCGGTGCGTTATTCTCC 60.449 57.895 0.00 0.00 0.00 3.71
3129 3597 9.898152 ACTCATCTATTATCTATCGAGACATGA 57.102 33.333 0.00 0.00 33.41 3.07
3182 3650 3.028850 CAGAAATGTCGGTAGGGGACTA 58.971 50.000 0.00 0.00 43.67 2.59
3186 3654 3.641906 AGATACAGAAATGTCGGTAGGGG 59.358 47.826 2.29 0.00 37.76 4.79


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

AutoCloner maintained by Alex Coulton.