Multiple sequence alignment - TraesCS7A01G165600

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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 TraesCS7A01G165600 chr7A 100.000 3164 0 0 1 3164 121055253 121058416 0.000000e+00 5843
1 TraesCS7A01G165600 chr7A 97.839 509 11 0 1 509 22970046 22970554 0.000000e+00 880
2 TraesCS7A01G165600 chr7A 97.250 509 14 0 1 509 333077230 333077738 0.000000e+00 863
3 TraesCS7A01G165600 chr7D 91.490 2550 74 43 510 3021 117132302 117134746 0.000000e+00 3374
4 TraesCS7A01G165600 chr7B 90.054 2574 86 61 510 3021 76903471 76905936 0.000000e+00 3179
5 TraesCS7A01G165600 chr1A 97.642 509 12 0 1 509 552383572 552384080 0.000000e+00 874
6 TraesCS7A01G165600 chr5A 97.456 511 13 0 1 511 403302577 403303087 0.000000e+00 872
7 TraesCS7A01G165600 chr2B 97.446 509 13 0 1 509 461110687 461111195 0.000000e+00 869
8 TraesCS7A01G165600 chr2B 97.260 511 14 0 1 511 689370035 689369525 0.000000e+00 867
9 TraesCS7A01G165600 chr2B 87.413 143 14 2 3022 3164 474441468 474441606 9.080000e-36 161
10 TraesCS7A01G165600 chr2B 87.970 133 16 0 1401 1533 653017848 653017980 1.170000e-34 158
11 TraesCS7A01G165600 chr4A 97.250 509 14 0 1 509 537225602 537225094 0.000000e+00 863
12 TraesCS7A01G165600 chr3A 97.255 510 13 1 1 510 128139250 128138742 0.000000e+00 863
13 TraesCS7A01G165600 chr2A 97.053 509 15 0 1 509 100136107 100136615 0.000000e+00 857
14 TraesCS7A01G165600 chr2A 87.970 133 16 0 1401 1533 687050274 687050406 1.170000e-34 158
15 TraesCS7A01G165600 chr6D 94.444 144 8 0 1390 1533 423816353 423816210 4.110000e-54 222
16 TraesCS7A01G165600 chr6B 93.750 144 9 0 1390 1533 639534393 639534250 1.910000e-52 217
17 TraesCS7A01G165600 chr6B 87.597 129 12 3 3021 3147 469854586 469854460 2.540000e-31 147
18 TraesCS7A01G165600 chr6B 79.126 206 30 9 1024 1227 639534725 639534531 2.560000e-26 130
19 TraesCS7A01G165600 chr6B 83.333 138 19 2 3027 3164 114225282 114225415 1.190000e-24 124
20 TraesCS7A01G165600 chr6A 93.056 144 10 0 1390 1533 568517412 568517269 8.890000e-51 211
21 TraesCS7A01G165600 chr6A 79.343 213 29 11 1018 1227 568517748 568517548 5.500000e-28 135
22 TraesCS7A01G165600 chr3D 90.476 126 12 0 3022 3147 505454493 505454368 1.950000e-37 167
23 TraesCS7A01G165600 chr3D 88.889 126 14 0 3022 3147 603527127 603527002 4.230000e-34 156
24 TraesCS7A01G165600 chr2D 87.970 133 16 0 1401 1533 546209815 546209947 1.170000e-34 158
25 TraesCS7A01G165600 chr3B 84.138 145 15 5 3022 3164 656068904 656068766 1.980000e-27 134
26 TraesCS7A01G165600 chr3B 86.842 114 15 0 3022 3135 554480020 554479907 9.210000e-26 128


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 TraesCS7A01G165600 chr7A 121055253 121058416 3163 False 5843 5843 100.000 1 3164 1 chr7A.!!$F2 3163
1 TraesCS7A01G165600 chr7A 22970046 22970554 508 False 880 880 97.839 1 509 1 chr7A.!!$F1 508
2 TraesCS7A01G165600 chr7A 333077230 333077738 508 False 863 863 97.250 1 509 1 chr7A.!!$F3 508
3 TraesCS7A01G165600 chr7D 117132302 117134746 2444 False 3374 3374 91.490 510 3021 1 chr7D.!!$F1 2511
4 TraesCS7A01G165600 chr7B 76903471 76905936 2465 False 3179 3179 90.054 510 3021 1 chr7B.!!$F1 2511
5 TraesCS7A01G165600 chr1A 552383572 552384080 508 False 874 874 97.642 1 509 1 chr1A.!!$F1 508
6 TraesCS7A01G165600 chr5A 403302577 403303087 510 False 872 872 97.456 1 511 1 chr5A.!!$F1 510
7 TraesCS7A01G165600 chr2B 461110687 461111195 508 False 869 869 97.446 1 509 1 chr2B.!!$F1 508
8 TraesCS7A01G165600 chr2B 689369525 689370035 510 True 867 867 97.260 1 511 1 chr2B.!!$R1 510
9 TraesCS7A01G165600 chr4A 537225094 537225602 508 True 863 863 97.250 1 509 1 chr4A.!!$R1 508
10 TraesCS7A01G165600 chr3A 128138742 128139250 508 True 863 863 97.255 1 510 1 chr3A.!!$R1 509
11 TraesCS7A01G165600 chr2A 100136107 100136615 508 False 857 857 97.053 1 509 1 chr2A.!!$F1 508

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
893 899 0.653114 GCTTAAAGCCTAGCACGAGC 59.347 55.0 0.0 0.0 37.35 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2388 2452 0.036952 ACCTTGAGCTCACATGGACG 60.037 55.0 26.75 10.14 38.12 4.79 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
836 842 1.472662 AACACCCCCTCACTCACTCG 61.473 60.000 0.00 0.00 0.00 4.18
837 843 2.997897 ACCCCCTCACTCACTCGC 60.998 66.667 0.00 0.00 0.00 5.03
838 844 2.681778 CCCCCTCACTCACTCGCT 60.682 66.667 0.00 0.00 0.00 4.93
839 845 2.716017 CCCCCTCACTCACTCGCTC 61.716 68.421 0.00 0.00 0.00 5.03
893 899 0.653114 GCTTAAAGCCTAGCACGAGC 59.347 55.000 0.00 0.00 37.35 5.03
906 912 2.811317 CGAGCCACGACTTGCCTC 60.811 66.667 0.00 0.00 45.77 4.70
947 953 2.263077 CTCTTGCTGTGGTAAGTAGCG 58.737 52.381 0.00 0.00 40.24 4.26
992 998 2.529643 TTGGGGTTGTAGGCCGGA 60.530 61.111 5.05 0.00 0.00 5.14
1241 1253 5.106791 CCCGTACGTATATATCCATCCGATC 60.107 48.000 15.21 0.00 31.92 3.69
1244 1256 7.148672 CCGTACGTATATATCCATCCGATCTAC 60.149 44.444 15.21 0.00 31.92 2.59
1245 1257 7.598118 CGTACGTATATATCCATCCGATCTACT 59.402 40.741 7.22 0.00 31.92 2.57
1246 1258 7.966246 ACGTATATATCCATCCGATCTACTC 57.034 40.000 0.00 0.00 31.92 2.59
1247 1259 6.935771 ACGTATATATCCATCCGATCTACTCC 59.064 42.308 0.00 0.00 31.92 3.85
1259 1271 4.093703 CCGATCTACTCCTAGTATCTTGCG 59.906 50.000 0.00 0.00 29.08 4.85
1297 1309 1.429463 GTCTGCCGTTCGTTTGATCT 58.571 50.000 0.00 0.00 0.00 2.75
1298 1310 2.602878 GTCTGCCGTTCGTTTGATCTA 58.397 47.619 0.00 0.00 0.00 1.98
1299 1311 2.599082 GTCTGCCGTTCGTTTGATCTAG 59.401 50.000 0.00 0.00 0.00 2.43
1331 1343 2.420043 GATGCATGCATGGGTGGC 59.580 61.111 36.73 17.72 36.70 5.01
1336 1348 1.153784 CATGCATGGGTGGCGTTTC 60.154 57.895 19.40 0.00 0.00 2.78
1584 1612 2.363795 CCTCCTACCGCCAGACCA 60.364 66.667 0.00 0.00 0.00 4.02
1790 1836 4.106925 CAGGTGCAGGAGGAGGCC 62.107 72.222 0.00 0.00 0.00 5.19
2074 2132 2.441023 CGTTCGCGTGAAAGATCCA 58.559 52.632 18.09 0.00 35.88 3.41
2075 2133 0.999406 CGTTCGCGTGAAAGATCCAT 59.001 50.000 18.09 0.00 35.88 3.41
2076 2134 1.005975 CGTTCGCGTGAAAGATCCATC 60.006 52.381 18.09 0.54 35.88 3.51
2077 2135 2.271800 GTTCGCGTGAAAGATCCATCT 58.728 47.619 13.92 0.00 39.22 2.90
2078 2136 3.444916 GTTCGCGTGAAAGATCCATCTA 58.555 45.455 13.92 0.00 35.76 1.98
2087 2145 5.348179 GTGAAAGATCCATCTATCGATGCAG 59.652 44.000 8.54 0.00 44.56 4.41
2101 2159 0.678395 ATGCAGCTCGATCCACCTAG 59.322 55.000 0.00 0.00 0.00 3.02
2213 2277 0.037790 GAACGCTGCTTCTCCAGTCT 60.038 55.000 0.00 0.00 35.28 3.24
2224 2288 1.993301 TCTCCAGTCTAGTCCAGTCCA 59.007 52.381 0.00 0.00 0.00 4.02
2225 2289 2.378886 TCTCCAGTCTAGTCCAGTCCAA 59.621 50.000 0.00 0.00 0.00 3.53
2226 2290 3.011821 TCTCCAGTCTAGTCCAGTCCAAT 59.988 47.826 0.00 0.00 0.00 3.16
2227 2291 3.366396 TCCAGTCTAGTCCAGTCCAATC 58.634 50.000 0.00 0.00 0.00 2.67
2228 2292 2.432510 CCAGTCTAGTCCAGTCCAATCC 59.567 54.545 0.00 0.00 0.00 3.01
2229 2293 3.099905 CAGTCTAGTCCAGTCCAATCCA 58.900 50.000 0.00 0.00 0.00 3.41
2232 2296 1.139853 CTAGTCCAGTCCAATCCAGCC 59.860 57.143 0.00 0.00 0.00 4.85
2234 2298 1.229951 TCCAGTCCAATCCAGCCCT 60.230 57.895 0.00 0.00 0.00 5.19
2235 2299 0.846427 TCCAGTCCAATCCAGCCCTT 60.846 55.000 0.00 0.00 0.00 3.95
2236 2300 0.394899 CCAGTCCAATCCAGCCCTTC 60.395 60.000 0.00 0.00 0.00 3.46
2237 2301 0.622665 CAGTCCAATCCAGCCCTTCT 59.377 55.000 0.00 0.00 0.00 2.85
2238 2302 0.622665 AGTCCAATCCAGCCCTTCTG 59.377 55.000 0.00 0.00 42.49 3.02
2239 2303 1.034292 GTCCAATCCAGCCCTTCTGC 61.034 60.000 0.00 0.00 41.50 4.26
2240 2304 2.117156 CCAATCCAGCCCTTCTGCG 61.117 63.158 0.00 0.00 41.50 5.18
2241 2305 2.439156 AATCCAGCCCTTCTGCGC 60.439 61.111 0.00 0.00 41.50 6.09
2242 2306 2.976490 AATCCAGCCCTTCTGCGCT 61.976 57.895 9.73 0.00 41.50 5.92
2254 2318 2.989253 TGCGCTCCGTCAGAGGAA 60.989 61.111 9.73 0.00 43.46 3.36
2256 2320 2.095252 GCGCTCCGTCAGAGGAAAC 61.095 63.158 0.00 0.00 43.46 2.78
2285 2349 2.816087 TCGACGAAAACCTAGTGCTAGT 59.184 45.455 0.00 0.00 0.00 2.57
2286 2350 4.002982 TCGACGAAAACCTAGTGCTAGTA 58.997 43.478 0.00 0.00 0.00 1.82
2287 2351 4.094212 CGACGAAAACCTAGTGCTAGTAC 58.906 47.826 2.24 2.24 0.00 2.73
2288 2352 4.419280 GACGAAAACCTAGTGCTAGTACC 58.581 47.826 7.41 0.00 0.00 3.34
2344 2408 1.846541 CCGTTTGTTTCCGTGCAATT 58.153 45.000 0.00 0.00 0.00 2.32
2356 2420 2.470999 CCGTGCAATTTTTCCGTTTGAG 59.529 45.455 0.00 0.00 0.00 3.02
2374 2438 2.432628 CGTCCAGAGCAACCCGAC 60.433 66.667 0.00 0.00 0.00 4.79
2381 2445 0.250513 AGAGCAACCCGACTTCATCC 59.749 55.000 0.00 0.00 0.00 3.51
2386 2450 1.827399 AACCCGACTTCATCCGTGCT 61.827 55.000 0.00 0.00 0.00 4.40
2387 2451 1.519455 CCCGACTTCATCCGTGCTC 60.519 63.158 0.00 0.00 0.00 4.26
2388 2452 1.519455 CCGACTTCATCCGTGCTCC 60.519 63.158 0.00 0.00 0.00 4.70
2389 2453 1.874019 CGACTTCATCCGTGCTCCG 60.874 63.158 0.00 0.00 0.00 4.63
2444 2508 7.281098 TCTAGAGTGTAATAGGAGTACTGGTG 58.719 42.308 0.00 0.00 0.00 4.17
2503 2572 1.807139 TATCTTGCTTGCACGCTTCA 58.193 45.000 16.80 0.00 0.00 3.02
2506 2575 3.198236 TTGCTTGCACGCTTCAGCC 62.198 57.895 16.80 0.00 37.91 4.85
2507 2576 3.360340 GCTTGCACGCTTCAGCCT 61.360 61.111 8.12 0.00 37.91 4.58
2508 2577 2.559840 CTTGCACGCTTCAGCCTG 59.440 61.111 0.00 0.00 37.91 4.85
2702 2781 1.604604 TGGAGAAAGAAACAAGGCGG 58.395 50.000 0.00 0.00 0.00 6.13
2886 2967 3.869272 GATGCTCAACCGGCAGCG 61.869 66.667 14.17 0.00 43.15 5.18
2939 3020 2.354403 GCCATCACCCTACGTACTTGTT 60.354 50.000 0.00 0.00 0.00 2.83
2972 3053 4.103103 TGTCTCGCTCTCGTGCCG 62.103 66.667 0.00 0.00 36.96 5.69
2982 3063 1.226435 CTCGTGCCGACTGTAGAGC 60.226 63.158 0.00 0.00 0.00 4.09
3022 3106 8.868522 TTGATATTTCTTGGGCAGAATATAGG 57.131 34.615 0.00 0.00 41.42 2.57
3023 3107 6.886459 TGATATTTCTTGGGCAGAATATAGGC 59.114 38.462 0.00 0.00 41.42 3.93
3032 3116 5.126396 GGCAGAATATAGGCCAAAATCAC 57.874 43.478 5.01 0.00 46.92 3.06
3033 3117 4.829492 GGCAGAATATAGGCCAAAATCACT 59.171 41.667 5.01 0.00 46.92 3.41
3034 3118 5.278660 GGCAGAATATAGGCCAAAATCACTG 60.279 44.000 5.01 7.42 46.92 3.66
3035 3119 5.300286 GCAGAATATAGGCCAAAATCACTGT 59.700 40.000 5.01 0.00 0.00 3.55
3036 3120 6.183360 GCAGAATATAGGCCAAAATCACTGTT 60.183 38.462 5.01 0.00 0.00 3.16
3037 3121 7.631377 GCAGAATATAGGCCAAAATCACTGTTT 60.631 37.037 5.01 0.00 0.00 2.83
3038 3122 8.253113 CAGAATATAGGCCAAAATCACTGTTTT 58.747 33.333 5.01 0.00 0.00 2.43
3039 3123 9.474313 AGAATATAGGCCAAAATCACTGTTTTA 57.526 29.630 5.01 0.00 30.56 1.52
3041 3125 9.869757 AATATAGGCCAAAATCACTGTTTTAAC 57.130 29.630 5.01 0.00 30.56 2.01
3042 3126 4.956085 AGGCCAAAATCACTGTTTTAACC 58.044 39.130 5.01 0.00 30.56 2.85
3043 3127 4.653801 AGGCCAAAATCACTGTTTTAACCT 59.346 37.500 5.01 0.00 33.84 3.50
3044 3128 5.130311 AGGCCAAAATCACTGTTTTAACCTT 59.870 36.000 5.01 0.00 34.47 3.50
3045 3129 5.820423 GGCCAAAATCACTGTTTTAACCTTT 59.180 36.000 0.00 0.00 30.56 3.11
3046 3130 6.317642 GGCCAAAATCACTGTTTTAACCTTTT 59.682 34.615 0.00 0.00 30.56 2.27
3047 3131 7.406553 GCCAAAATCACTGTTTTAACCTTTTC 58.593 34.615 0.00 0.00 30.56 2.29
3048 3132 7.065204 GCCAAAATCACTGTTTTAACCTTTTCA 59.935 33.333 0.00 0.00 30.56 2.69
3049 3133 8.940952 CCAAAATCACTGTTTTAACCTTTTCAA 58.059 29.630 0.00 0.00 30.56 2.69
3050 3134 9.753669 CAAAATCACTGTTTTAACCTTTTCAAC 57.246 29.630 0.00 0.00 30.56 3.18
3051 3135 9.495572 AAAATCACTGTTTTAACCTTTTCAACA 57.504 25.926 0.00 0.00 29.96 3.33
3052 3136 9.495572 AAATCACTGTTTTAACCTTTTCAACAA 57.504 25.926 0.00 0.00 0.00 2.83
3053 3137 9.665719 AATCACTGTTTTAACCTTTTCAACAAT 57.334 25.926 0.00 0.00 0.00 2.71
3054 3138 8.696410 TCACTGTTTTAACCTTTTCAACAATC 57.304 30.769 0.00 0.00 0.00 2.67
3055 3139 8.527810 TCACTGTTTTAACCTTTTCAACAATCT 58.472 29.630 0.00 0.00 0.00 2.40
3056 3140 9.150348 CACTGTTTTAACCTTTTCAACAATCTT 57.850 29.630 0.00 0.00 0.00 2.40
3057 3141 9.719355 ACTGTTTTAACCTTTTCAACAATCTTT 57.281 25.926 0.00 0.00 0.00 2.52
3058 3142 9.971744 CTGTTTTAACCTTTTCAACAATCTTTG 57.028 29.630 0.00 0.00 0.00 2.77
3059 3143 8.447053 TGTTTTAACCTTTTCAACAATCTTTGC 58.553 29.630 0.00 0.00 0.00 3.68
3060 3144 7.546778 TTTAACCTTTTCAACAATCTTTGCC 57.453 32.000 0.00 0.00 0.00 4.52
3061 3145 4.751767 ACCTTTTCAACAATCTTTGCCA 57.248 36.364 0.00 0.00 0.00 4.92
3062 3146 4.441792 ACCTTTTCAACAATCTTTGCCAC 58.558 39.130 0.00 0.00 0.00 5.01
3063 3147 4.081198 ACCTTTTCAACAATCTTTGCCACA 60.081 37.500 0.00 0.00 0.00 4.17
3064 3148 4.874966 CCTTTTCAACAATCTTTGCCACAA 59.125 37.500 0.00 0.00 0.00 3.33
3065 3149 5.353678 CCTTTTCAACAATCTTTGCCACAAA 59.646 36.000 0.00 0.00 0.00 2.83
3066 3150 6.419980 TTTTCAACAATCTTTGCCACAAAG 57.580 33.333 12.74 12.74 0.00 2.77
3067 3151 4.734398 TCAACAATCTTTGCCACAAAGT 57.266 36.364 17.10 5.09 0.00 2.66
3068 3152 4.431809 TCAACAATCTTTGCCACAAAGTG 58.568 39.130 17.10 12.46 0.00 3.16
3069 3153 4.159321 TCAACAATCTTTGCCACAAAGTGA 59.841 37.500 17.10 11.39 35.23 3.41
3070 3154 4.734398 ACAATCTTTGCCACAAAGTGAA 57.266 36.364 17.10 2.05 35.23 3.18
3071 3155 4.432712 ACAATCTTTGCCACAAAGTGAAC 58.567 39.130 17.10 0.00 35.23 3.18
3072 3156 4.160252 ACAATCTTTGCCACAAAGTGAACT 59.840 37.500 17.10 0.22 35.23 3.01
3073 3157 4.574599 ATCTTTGCCACAAAGTGAACTC 57.425 40.909 17.10 0.00 35.23 3.01
3074 3158 2.354510 TCTTTGCCACAAAGTGAACTCG 59.645 45.455 17.10 0.00 35.23 4.18
3075 3159 1.021202 TTGCCACAAAGTGAACTCGG 58.979 50.000 0.00 0.00 35.23 4.63
3076 3160 1.282875 GCCACAAAGTGAACTCGGC 59.717 57.895 0.00 0.00 35.23 5.54
3077 3161 1.444119 GCCACAAAGTGAACTCGGCA 61.444 55.000 0.00 0.00 37.98 5.69
3078 3162 1.238439 CCACAAAGTGAACTCGGCAT 58.762 50.000 0.00 0.00 35.23 4.40
3079 3163 1.069022 CCACAAAGTGAACTCGGCATG 60.069 52.381 0.00 0.00 35.23 4.06
3080 3164 1.872952 CACAAAGTGAACTCGGCATGA 59.127 47.619 0.00 0.00 35.23 3.07
3081 3165 2.290367 CACAAAGTGAACTCGGCATGAA 59.710 45.455 0.00 0.00 35.23 2.57
3082 3166 2.948979 ACAAAGTGAACTCGGCATGAAA 59.051 40.909 0.00 0.00 0.00 2.69
3083 3167 3.003689 ACAAAGTGAACTCGGCATGAAAG 59.996 43.478 0.00 0.00 0.00 2.62
3084 3168 2.550830 AGTGAACTCGGCATGAAAGT 57.449 45.000 0.00 0.00 0.00 2.66
3085 3169 3.678056 AGTGAACTCGGCATGAAAGTA 57.322 42.857 0.00 0.00 0.00 2.24
3086 3170 4.207891 AGTGAACTCGGCATGAAAGTAT 57.792 40.909 0.00 0.00 0.00 2.12
3087 3171 4.579869 AGTGAACTCGGCATGAAAGTATT 58.420 39.130 0.00 0.00 0.00 1.89
3088 3172 5.003804 AGTGAACTCGGCATGAAAGTATTT 58.996 37.500 0.00 0.00 43.98 1.40
3104 3188 7.530426 AAAGTATTTCACAATCTGAGCCTTT 57.470 32.000 0.00 0.00 27.08 3.11
3105 3189 7.530426 AAGTATTTCACAATCTGAGCCTTTT 57.470 32.000 0.00 0.00 0.00 2.27
3106 3190 8.635765 AAGTATTTCACAATCTGAGCCTTTTA 57.364 30.769 0.00 0.00 0.00 1.52
3107 3191 8.273780 AGTATTTCACAATCTGAGCCTTTTAG 57.726 34.615 0.00 0.00 0.00 1.85
3108 3192 5.376854 TTTCACAATCTGAGCCTTTTAGC 57.623 39.130 0.00 0.00 0.00 3.09
3109 3193 4.019792 TCACAATCTGAGCCTTTTAGCA 57.980 40.909 0.00 0.00 34.23 3.49
3110 3194 4.397420 TCACAATCTGAGCCTTTTAGCAA 58.603 39.130 0.00 0.00 34.23 3.91
3111 3195 4.216257 TCACAATCTGAGCCTTTTAGCAAC 59.784 41.667 0.00 0.00 34.23 4.17
3112 3196 3.189287 ACAATCTGAGCCTTTTAGCAACG 59.811 43.478 0.00 0.00 34.23 4.10
3113 3197 2.543777 TCTGAGCCTTTTAGCAACGT 57.456 45.000 0.00 0.00 34.23 3.99
3114 3198 2.413837 TCTGAGCCTTTTAGCAACGTC 58.586 47.619 0.00 0.00 34.23 4.34
3115 3199 2.143122 CTGAGCCTTTTAGCAACGTCA 58.857 47.619 0.00 0.00 34.23 4.35
3116 3200 1.871039 TGAGCCTTTTAGCAACGTCAC 59.129 47.619 0.00 0.00 34.23 3.67
3117 3201 1.871039 GAGCCTTTTAGCAACGTCACA 59.129 47.619 0.00 0.00 34.23 3.58
3118 3202 2.484264 GAGCCTTTTAGCAACGTCACAT 59.516 45.455 0.00 0.00 34.23 3.21
3119 3203 3.670625 AGCCTTTTAGCAACGTCACATA 58.329 40.909 0.00 0.00 34.23 2.29
3120 3204 3.435671 AGCCTTTTAGCAACGTCACATAC 59.564 43.478 0.00 0.00 34.23 2.39
3121 3205 3.425758 GCCTTTTAGCAACGTCACATACC 60.426 47.826 0.00 0.00 0.00 2.73
3122 3206 3.181524 CCTTTTAGCAACGTCACATACCG 60.182 47.826 0.00 0.00 0.00 4.02
3123 3207 2.728690 TTAGCAACGTCACATACCGT 57.271 45.000 0.00 0.00 39.32 4.83
3125 3209 0.669318 AGCAACGTCACATACCGTGG 60.669 55.000 0.00 0.00 46.36 4.94
3129 3213 4.272100 GTCACATACCGTGGCGTT 57.728 55.556 0.00 0.00 46.36 4.84
3130 3214 2.535588 GTCACATACCGTGGCGTTT 58.464 52.632 0.00 0.00 46.36 3.60
3131 3215 0.441145 GTCACATACCGTGGCGTTTC 59.559 55.000 0.00 0.00 46.36 2.78
3132 3216 0.319083 TCACATACCGTGGCGTTTCT 59.681 50.000 0.00 0.00 46.36 2.52
3133 3217 1.153353 CACATACCGTGGCGTTTCTT 58.847 50.000 0.00 0.00 42.34 2.52
3134 3218 1.127951 CACATACCGTGGCGTTTCTTC 59.872 52.381 0.00 0.00 42.34 2.87
3135 3219 1.001633 ACATACCGTGGCGTTTCTTCT 59.998 47.619 0.00 0.00 0.00 2.85
3136 3220 2.073816 CATACCGTGGCGTTTCTTCTT 58.926 47.619 0.00 0.00 0.00 2.52
3137 3221 1.787012 TACCGTGGCGTTTCTTCTTC 58.213 50.000 0.00 0.00 0.00 2.87
3138 3222 0.179067 ACCGTGGCGTTTCTTCTTCA 60.179 50.000 0.00 0.00 0.00 3.02
3139 3223 1.156736 CCGTGGCGTTTCTTCTTCAT 58.843 50.000 0.00 0.00 0.00 2.57
3140 3224 2.289195 ACCGTGGCGTTTCTTCTTCATA 60.289 45.455 0.00 0.00 0.00 2.15
3141 3225 2.936498 CCGTGGCGTTTCTTCTTCATAT 59.064 45.455 0.00 0.00 0.00 1.78
3142 3226 4.116961 CCGTGGCGTTTCTTCTTCATATA 58.883 43.478 0.00 0.00 0.00 0.86
3143 3227 4.209288 CCGTGGCGTTTCTTCTTCATATAG 59.791 45.833 0.00 0.00 0.00 1.31
3144 3228 5.041287 CGTGGCGTTTCTTCTTCATATAGA 58.959 41.667 0.00 0.00 0.00 1.98
3145 3229 5.518847 CGTGGCGTTTCTTCTTCATATAGAA 59.481 40.000 0.00 0.00 33.33 2.10
3146 3230 6.035650 CGTGGCGTTTCTTCTTCATATAGAAA 59.964 38.462 0.00 0.00 35.40 2.52
3147 3231 7.402640 GTGGCGTTTCTTCTTCATATAGAAAG 58.597 38.462 0.00 0.00 38.25 2.62
3148 3232 7.277981 GTGGCGTTTCTTCTTCATATAGAAAGA 59.722 37.037 0.00 0.00 38.25 2.52
3149 3233 7.822334 TGGCGTTTCTTCTTCATATAGAAAGAA 59.178 33.333 10.35 10.35 38.25 2.52
3150 3234 8.665685 GGCGTTTCTTCTTCATATAGAAAGAAA 58.334 33.333 11.42 4.87 38.25 2.52
3151 3235 9.479278 GCGTTTCTTCTTCATATAGAAAGAAAC 57.521 33.333 20.78 20.78 41.45 2.78
3153 3237 9.479278 GTTTCTTCTTCATATAGAAAGAAACGC 57.521 33.333 17.90 3.30 39.28 4.84
3154 3238 7.772332 TCTTCTTCATATAGAAAGAAACGCC 57.228 36.000 11.42 0.00 35.40 5.68
3155 3239 6.475727 TCTTCTTCATATAGAAAGAAACGCCG 59.524 38.462 11.42 0.00 35.40 6.46
3156 3240 5.047847 TCTTCATATAGAAAGAAACGCCGG 58.952 41.667 0.00 0.00 35.40 6.13
3157 3241 4.659111 TCATATAGAAAGAAACGCCGGA 57.341 40.909 5.05 0.00 0.00 5.14
3158 3242 4.617959 TCATATAGAAAGAAACGCCGGAG 58.382 43.478 5.05 3.72 0.00 4.63
3159 3243 4.098960 TCATATAGAAAGAAACGCCGGAGT 59.901 41.667 5.05 4.71 0.00 3.85
3160 3244 5.300034 TCATATAGAAAGAAACGCCGGAGTA 59.700 40.000 12.53 0.00 0.00 2.59
3161 3245 2.365408 AGAAAGAAACGCCGGAGTAG 57.635 50.000 12.53 0.00 0.00 2.57
3162 3246 0.720027 GAAAGAAACGCCGGAGTAGC 59.280 55.000 12.53 6.76 0.00 3.58
3163 3247 0.320697 AAAGAAACGCCGGAGTAGCT 59.679 50.000 12.53 9.21 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
204 205 4.423209 GGCCCCACCCTCTCTCCT 62.423 72.222 0.00 0.00 0.00 3.69
482 483 6.482641 GCAGAAATCACATATCTGACATCAGT 59.517 38.462 8.70 0.00 42.48 3.41
578 579 4.056125 TCGCAGTCGCAGTGGGAG 62.056 66.667 10.61 0.96 35.86 4.30
579 580 4.056125 CTCGCAGTCGCAGTGGGA 62.056 66.667 5.66 5.66 38.04 4.37
629 630 4.106925 GAGGTCAGGGCAGGCAGG 62.107 72.222 0.00 0.00 0.00 4.85
630 631 2.898933 TTGAGGTCAGGGCAGGCAG 61.899 63.158 0.00 0.00 0.00 4.85
631 632 2.853542 TTGAGGTCAGGGCAGGCA 60.854 61.111 0.00 0.00 0.00 4.75
632 633 2.360475 GTTGAGGTCAGGGCAGGC 60.360 66.667 0.00 0.00 0.00 4.85
633 634 1.302832 GTGTTGAGGTCAGGGCAGG 60.303 63.158 0.00 0.00 0.00 4.85
634 635 0.604780 CAGTGTTGAGGTCAGGGCAG 60.605 60.000 0.00 0.00 0.00 4.85
635 636 1.451504 CAGTGTTGAGGTCAGGGCA 59.548 57.895 0.00 0.00 0.00 5.36
836 842 0.534652 GAGCCATGATGGGAGTGAGC 60.535 60.000 14.26 0.00 38.19 4.26
837 843 1.129917 AGAGCCATGATGGGAGTGAG 58.870 55.000 14.26 0.00 38.19 3.51
838 844 0.835276 CAGAGCCATGATGGGAGTGA 59.165 55.000 14.26 0.00 38.19 3.41
839 845 0.818445 GCAGAGCCATGATGGGAGTG 60.818 60.000 14.26 0.00 38.19 3.51
866 872 2.815478 CTAGGCTTTAAGCTCGAGGTG 58.185 52.381 19.39 6.61 41.99 4.00
906 912 1.730902 CACTCACACTCACTCGGCG 60.731 63.158 0.00 0.00 0.00 6.46
955 961 3.964875 GCCACCAACCACAGCACG 61.965 66.667 0.00 0.00 0.00 5.34
992 998 2.600790 CTCCCAGCATCATCTCTCTCT 58.399 52.381 0.00 0.00 0.00 3.10
1189 1201 2.760385 AGGAGGGTAGCAGGCGAC 60.760 66.667 0.00 0.00 0.00 5.19
1215 1227 4.212847 CGGATGGATATATACGTACGGGAG 59.787 50.000 21.06 0.00 30.14 4.30
1241 1253 3.808726 ACGACGCAAGATACTAGGAGTAG 59.191 47.826 0.00 0.00 43.62 2.57
1244 1256 3.619729 GAACGACGCAAGATACTAGGAG 58.380 50.000 0.00 0.00 43.62 3.69
1245 1257 2.031314 CGAACGACGCAAGATACTAGGA 59.969 50.000 0.00 0.00 43.62 2.94
1246 1258 2.223203 ACGAACGACGCAAGATACTAGG 60.223 50.000 0.14 0.00 46.94 3.02
1247 1259 3.048942 ACGAACGACGCAAGATACTAG 57.951 47.619 0.14 0.00 46.94 2.57
1259 1271 0.501435 CGACCAGTCAAACGAACGAC 59.499 55.000 0.14 0.00 0.00 4.34
1297 1309 6.564328 CATGCATCACAGTCAGTTACTACTA 58.436 40.000 0.00 0.00 35.76 1.82
1298 1310 5.414360 CATGCATCACAGTCAGTTACTACT 58.586 41.667 0.00 0.00 35.76 2.57
1299 1311 4.033358 GCATGCATCACAGTCAGTTACTAC 59.967 45.833 14.21 0.00 35.76 2.73
1331 1343 1.202177 ACTGCACACAAGCAAGAAACG 60.202 47.619 0.00 0.00 45.13 3.60
1336 1348 1.361271 CCCACTGCACACAAGCAAG 59.639 57.895 0.00 0.00 45.13 4.01
1584 1612 3.083997 GGGCGACATGGAGAGGGT 61.084 66.667 0.00 0.00 0.00 4.34
1656 1696 3.034635 GAGGGTTTATCTGGCTCTGAGA 58.965 50.000 9.28 0.00 0.00 3.27
1657 1697 3.037549 AGAGGGTTTATCTGGCTCTGAG 58.962 50.000 0.00 0.00 0.00 3.35
1948 1994 1.843421 CCCATATTCCAGGGCCGAA 59.157 57.895 0.00 0.00 38.44 4.30
2059 2117 3.609409 CGATAGATGGATCTTTCACGCGA 60.609 47.826 15.93 0.00 38.32 5.87
2087 2145 1.394618 AGTGACTAGGTGGATCGAGC 58.605 55.000 0.00 0.00 0.00 5.03
2095 2153 6.163476 TGCATGTAGTAAAAGTGACTAGGTG 58.837 40.000 0.00 0.00 30.08 4.00
2101 2159 3.725010 GCGCTGCATGTAGTAAAAGTGAC 60.725 47.826 12.66 0.00 0.00 3.67
2213 2277 1.204146 GGCTGGATTGGACTGGACTA 58.796 55.000 0.00 0.00 0.00 2.59
2232 2296 2.507992 CTGACGGAGCGCAGAAGG 60.508 66.667 11.47 0.00 34.71 3.46
2234 2298 2.568612 CTCTGACGGAGCGCAGAA 59.431 61.111 11.47 0.00 38.61 3.02
2235 2299 3.443925 CCTCTGACGGAGCGCAGA 61.444 66.667 11.47 0.56 40.57 4.26
2236 2300 2.492449 TTTCCTCTGACGGAGCGCAG 62.492 60.000 11.47 2.53 40.57 5.18
2237 2301 2.570284 TTTCCTCTGACGGAGCGCA 61.570 57.895 11.47 0.00 40.57 6.09
2238 2302 2.095252 GTTTCCTCTGACGGAGCGC 61.095 63.158 5.70 0.00 40.57 5.92
2239 2303 1.801913 CGTTTCCTCTGACGGAGCG 60.802 63.158 5.70 0.40 40.57 5.03
2240 2304 0.038526 TTCGTTTCCTCTGACGGAGC 60.039 55.000 5.70 0.00 40.57 4.70
2241 2305 1.983972 CTTCGTTTCCTCTGACGGAG 58.016 55.000 4.11 4.11 38.40 4.63
2242 2306 1.000607 CACTTCGTTTCCTCTGACGGA 60.001 52.381 0.00 0.00 39.59 4.69
2287 2351 5.566826 CGGATACAATATCACACCAGGTAGG 60.567 48.000 0.00 0.00 45.67 3.18
2288 2352 5.470368 CGGATACAATATCACACCAGGTAG 58.530 45.833 0.00 0.00 0.00 3.18
2297 2361 4.806330 ACATCGACCGGATACAATATCAC 58.194 43.478 9.46 0.00 32.85 3.06
2344 2408 0.941542 CTGGACGCTCAAACGGAAAA 59.058 50.000 0.00 0.00 37.37 2.29
2356 2420 4.373116 TCGGGTTGCTCTGGACGC 62.373 66.667 0.00 0.00 0.00 5.19
2386 2450 0.247460 CTTGAGCTCACATGGACGGA 59.753 55.000 18.03 0.00 0.00 4.69
2387 2451 0.742281 CCTTGAGCTCACATGGACGG 60.742 60.000 18.03 4.66 37.29 4.79
2388 2452 0.036952 ACCTTGAGCTCACATGGACG 60.037 55.000 26.75 10.14 38.12 4.79
2389 2453 1.277557 AGACCTTGAGCTCACATGGAC 59.722 52.381 26.75 22.09 38.12 4.02
2444 2508 1.134965 CAGTGCCCTGACTACAGTAGC 60.135 57.143 7.57 1.65 41.50 3.58
2466 2535 7.855904 AGCAAGATATAACGAAATAAAAAGGCG 59.144 33.333 0.00 0.00 0.00 5.52
2513 2582 1.424493 GAGAAGATGAAGTGGCCGCG 61.424 60.000 11.42 0.00 0.00 6.46
2517 2586 1.065564 AGGCAGAGAAGATGAAGTGGC 60.066 52.381 0.00 0.00 0.00 5.01
2739 2818 3.572539 AGCGAGCGAGCGAGAGAG 61.573 66.667 1.41 0.00 43.00 3.20
2740 2819 3.870422 CAGCGAGCGAGCGAGAGA 61.870 66.667 1.41 0.00 43.00 3.10
2972 3053 3.190874 GCCTTGTGTATGCTCTACAGTC 58.809 50.000 0.67 0.00 0.00 3.51
2982 3063 7.765307 AGAAATATCAAACTGCCTTGTGTATG 58.235 34.615 0.00 0.00 0.00 2.39
3021 3105 4.956085 AGGTTAAAACAGTGATTTTGGCC 58.044 39.130 3.51 0.00 33.80 5.36
3022 3106 6.918892 AAAGGTTAAAACAGTGATTTTGGC 57.081 33.333 3.51 2.36 33.80 4.52
3023 3107 8.485976 TGAAAAGGTTAAAACAGTGATTTTGG 57.514 30.769 3.51 0.00 33.80 3.28
3024 3108 9.753669 GTTGAAAAGGTTAAAACAGTGATTTTG 57.246 29.630 3.51 0.00 33.80 2.44
3025 3109 9.495572 TGTTGAAAAGGTTAAAACAGTGATTTT 57.504 25.926 3.51 6.25 35.89 1.82
3026 3110 9.495572 TTGTTGAAAAGGTTAAAACAGTGATTT 57.504 25.926 0.00 0.00 32.75 2.17
3027 3111 9.665719 ATTGTTGAAAAGGTTAAAACAGTGATT 57.334 25.926 0.00 0.00 32.75 2.57
3028 3112 9.313118 GATTGTTGAAAAGGTTAAAACAGTGAT 57.687 29.630 0.00 0.00 32.75 3.06
3029 3113 8.527810 AGATTGTTGAAAAGGTTAAAACAGTGA 58.472 29.630 0.00 0.00 32.75 3.41
3030 3114 8.702163 AGATTGTTGAAAAGGTTAAAACAGTG 57.298 30.769 0.00 0.00 32.75 3.66
3031 3115 9.719355 AAAGATTGTTGAAAAGGTTAAAACAGT 57.281 25.926 0.00 0.00 32.75 3.55
3032 3116 9.971744 CAAAGATTGTTGAAAAGGTTAAAACAG 57.028 29.630 0.00 0.00 32.75 3.16
3033 3117 8.447053 GCAAAGATTGTTGAAAAGGTTAAAACA 58.553 29.630 0.00 0.00 0.00 2.83
3034 3118 7.908082 GGCAAAGATTGTTGAAAAGGTTAAAAC 59.092 33.333 0.00 0.00 0.00 2.43
3035 3119 7.607991 TGGCAAAGATTGTTGAAAAGGTTAAAA 59.392 29.630 0.00 0.00 0.00 1.52
3036 3120 7.065204 GTGGCAAAGATTGTTGAAAAGGTTAAA 59.935 33.333 0.00 0.00 0.00 1.52
3037 3121 6.536941 GTGGCAAAGATTGTTGAAAAGGTTAA 59.463 34.615 0.00 0.00 0.00 2.01
3038 3122 6.045955 GTGGCAAAGATTGTTGAAAAGGTTA 58.954 36.000 0.00 0.00 0.00 2.85
3039 3123 4.875536 GTGGCAAAGATTGTTGAAAAGGTT 59.124 37.500 0.00 0.00 0.00 3.50
3040 3124 4.081198 TGTGGCAAAGATTGTTGAAAAGGT 60.081 37.500 0.00 0.00 0.00 3.50
3041 3125 4.440880 TGTGGCAAAGATTGTTGAAAAGG 58.559 39.130 0.00 0.00 0.00 3.11
3042 3126 6.092533 ACTTTGTGGCAAAGATTGTTGAAAAG 59.907 34.615 23.23 0.00 0.00 2.27
3043 3127 5.936956 ACTTTGTGGCAAAGATTGTTGAAAA 59.063 32.000 23.23 0.00 0.00 2.29
3044 3128 5.350914 CACTTTGTGGCAAAGATTGTTGAAA 59.649 36.000 23.23 0.00 0.00 2.69
3045 3129 4.869297 CACTTTGTGGCAAAGATTGTTGAA 59.131 37.500 23.23 0.00 0.00 2.69
3046 3130 4.159321 TCACTTTGTGGCAAAGATTGTTGA 59.841 37.500 23.23 14.76 33.87 3.18
3047 3131 4.431809 TCACTTTGTGGCAAAGATTGTTG 58.568 39.130 23.23 13.12 33.87 3.33
3048 3132 4.734398 TCACTTTGTGGCAAAGATTGTT 57.266 36.364 23.23 3.03 33.87 2.83
3049 3133 4.160252 AGTTCACTTTGTGGCAAAGATTGT 59.840 37.500 23.23 4.08 33.87 2.71
3050 3134 4.685924 AGTTCACTTTGTGGCAAAGATTG 58.314 39.130 23.23 14.25 33.87 2.67
3051 3135 4.498009 CGAGTTCACTTTGTGGCAAAGATT 60.498 41.667 23.23 4.27 33.87 2.40
3052 3136 3.003689 CGAGTTCACTTTGTGGCAAAGAT 59.996 43.478 23.23 8.92 33.87 2.40
3053 3137 2.354510 CGAGTTCACTTTGTGGCAAAGA 59.645 45.455 23.23 4.50 33.87 2.52
3054 3138 2.541588 CCGAGTTCACTTTGTGGCAAAG 60.542 50.000 17.04 17.04 33.87 2.77
3055 3139 1.403679 CCGAGTTCACTTTGTGGCAAA 59.596 47.619 0.00 0.00 33.87 3.68
3056 3140 1.021202 CCGAGTTCACTTTGTGGCAA 58.979 50.000 0.00 0.00 33.87 4.52
3057 3141 1.444119 GCCGAGTTCACTTTGTGGCA 61.444 55.000 7.98 0.00 40.66 4.92
3058 3142 1.282875 GCCGAGTTCACTTTGTGGC 59.717 57.895 0.00 0.00 33.87 5.01
3059 3143 1.069022 CATGCCGAGTTCACTTTGTGG 60.069 52.381 0.00 0.00 33.87 4.17
3060 3144 1.872952 TCATGCCGAGTTCACTTTGTG 59.127 47.619 0.00 0.00 34.45 3.33
3061 3145 2.254546 TCATGCCGAGTTCACTTTGT 57.745 45.000 0.00 0.00 0.00 2.83
3062 3146 3.003689 ACTTTCATGCCGAGTTCACTTTG 59.996 43.478 0.00 0.00 0.00 2.77
3063 3147 3.214328 ACTTTCATGCCGAGTTCACTTT 58.786 40.909 0.00 0.00 0.00 2.66
3064 3148 2.851195 ACTTTCATGCCGAGTTCACTT 58.149 42.857 0.00 0.00 0.00 3.16
3065 3149 2.550830 ACTTTCATGCCGAGTTCACT 57.449 45.000 0.00 0.00 0.00 3.41
3066 3150 4.946784 AATACTTTCATGCCGAGTTCAC 57.053 40.909 0.00 0.00 0.00 3.18
3067 3151 5.000591 TGAAATACTTTCATGCCGAGTTCA 58.999 37.500 0.00 0.00 44.21 3.18
3068 3152 5.545658 TGAAATACTTTCATGCCGAGTTC 57.454 39.130 0.00 0.00 44.21 3.01
3078 3162 6.240894 AGGCTCAGATTGTGAAATACTTTCA 58.759 36.000 0.00 0.00 46.68 2.69
3079 3163 6.749923 AGGCTCAGATTGTGAAATACTTTC 57.250 37.500 0.00 0.00 40.08 2.62
3080 3164 7.530426 AAAGGCTCAGATTGTGAAATACTTT 57.470 32.000 0.00 0.00 33.60 2.66
3081 3165 7.530426 AAAAGGCTCAGATTGTGAAATACTT 57.470 32.000 0.00 0.00 33.60 2.24
3082 3166 7.148171 GCTAAAAGGCTCAGATTGTGAAATACT 60.148 37.037 0.00 0.00 33.60 2.12
3083 3167 6.969473 GCTAAAAGGCTCAGATTGTGAAATAC 59.031 38.462 0.00 0.00 33.60 1.89
3084 3168 6.658816 TGCTAAAAGGCTCAGATTGTGAAATA 59.341 34.615 0.00 0.00 33.60 1.40
3085 3169 5.477984 TGCTAAAAGGCTCAGATTGTGAAAT 59.522 36.000 0.00 0.00 33.60 2.17
3086 3170 4.826733 TGCTAAAAGGCTCAGATTGTGAAA 59.173 37.500 0.00 0.00 33.60 2.69
3087 3171 4.397420 TGCTAAAAGGCTCAGATTGTGAA 58.603 39.130 0.00 0.00 33.60 3.18
3088 3172 4.019792 TGCTAAAAGGCTCAGATTGTGA 57.980 40.909 0.00 0.00 0.00 3.58
3089 3173 4.479619 GTTGCTAAAAGGCTCAGATTGTG 58.520 43.478 0.00 0.00 0.00 3.33
3090 3174 3.189287 CGTTGCTAAAAGGCTCAGATTGT 59.811 43.478 0.00 0.00 0.00 2.71
3091 3175 3.189287 ACGTTGCTAAAAGGCTCAGATTG 59.811 43.478 0.00 0.00 0.00 2.67
3092 3176 3.412386 ACGTTGCTAAAAGGCTCAGATT 58.588 40.909 0.00 0.00 0.00 2.40
3093 3177 3.003480 GACGTTGCTAAAAGGCTCAGAT 58.997 45.455 0.00 0.00 0.00 2.90
3094 3178 2.224185 TGACGTTGCTAAAAGGCTCAGA 60.224 45.455 0.00 0.00 0.00 3.27
3095 3179 2.096218 GTGACGTTGCTAAAAGGCTCAG 60.096 50.000 0.00 0.00 0.00 3.35
3096 3180 1.871039 GTGACGTTGCTAAAAGGCTCA 59.129 47.619 0.00 0.00 0.00 4.26
3097 3181 1.871039 TGTGACGTTGCTAAAAGGCTC 59.129 47.619 0.00 0.00 0.00 4.70
3098 3182 1.961793 TGTGACGTTGCTAAAAGGCT 58.038 45.000 0.00 0.00 0.00 4.58
3099 3183 2.989422 ATGTGACGTTGCTAAAAGGC 57.011 45.000 0.00 0.00 0.00 4.35
3100 3184 3.181524 CGGTATGTGACGTTGCTAAAAGG 60.182 47.826 0.00 0.00 0.00 3.11
3101 3185 3.430895 ACGGTATGTGACGTTGCTAAAAG 59.569 43.478 0.00 0.00 40.99 2.27
3102 3186 3.391965 ACGGTATGTGACGTTGCTAAAA 58.608 40.909 0.00 0.00 40.99 1.52
3103 3187 3.029320 ACGGTATGTGACGTTGCTAAA 57.971 42.857 0.00 0.00 40.99 1.85
3104 3188 2.728690 ACGGTATGTGACGTTGCTAA 57.271 45.000 0.00 0.00 40.99 3.09
3115 3199 1.001633 AGAAGAAACGCCACGGTATGT 59.998 47.619 0.00 0.00 0.00 2.29
3116 3200 1.722011 AGAAGAAACGCCACGGTATG 58.278 50.000 0.00 0.00 0.00 2.39
3117 3201 2.289195 TGAAGAAGAAACGCCACGGTAT 60.289 45.455 0.00 0.00 0.00 2.73
3118 3202 1.068895 TGAAGAAGAAACGCCACGGTA 59.931 47.619 0.00 0.00 0.00 4.02
3119 3203 0.179067 TGAAGAAGAAACGCCACGGT 60.179 50.000 0.00 0.00 0.00 4.83
3120 3204 1.156736 ATGAAGAAGAAACGCCACGG 58.843 50.000 0.00 0.00 0.00 4.94
3121 3205 5.041287 TCTATATGAAGAAGAAACGCCACG 58.959 41.667 0.00 0.00 0.00 4.94
3122 3206 6.903883 TTCTATATGAAGAAGAAACGCCAC 57.096 37.500 0.00 0.00 31.85 5.01
3123 3207 7.327975 TCTTTCTATATGAAGAAGAAACGCCA 58.672 34.615 0.00 0.00 36.85 5.69
3124 3208 7.772332 TCTTTCTATATGAAGAAGAAACGCC 57.228 36.000 0.00 0.00 36.85 5.68
3125 3209 9.479278 GTTTCTTTCTATATGAAGAAGAAACGC 57.521 33.333 18.38 4.06 39.81 4.84
3127 3211 9.479278 GCGTTTCTTTCTATATGAAGAAGAAAC 57.521 33.333 21.19 21.19 41.97 2.78
3128 3212 8.665685 GGCGTTTCTTTCTATATGAAGAAGAAA 58.334 33.333 5.70 5.70 36.85 2.52
3129 3213 7.010183 CGGCGTTTCTTTCTATATGAAGAAGAA 59.990 37.037 0.00 0.00 36.85 2.52
3130 3214 6.475727 CGGCGTTTCTTTCTATATGAAGAAGA 59.524 38.462 0.00 0.00 36.85 2.87
3131 3215 6.292381 CCGGCGTTTCTTTCTATATGAAGAAG 60.292 42.308 6.01 3.53 36.85 2.85
3132 3216 5.522460 CCGGCGTTTCTTTCTATATGAAGAA 59.478 40.000 6.01 6.58 35.89 2.52
3133 3217 5.047847 CCGGCGTTTCTTTCTATATGAAGA 58.952 41.667 6.01 0.00 35.89 2.87
3134 3218 5.047847 TCCGGCGTTTCTTTCTATATGAAG 58.952 41.667 6.01 0.00 35.89 3.02
3135 3219 5.013568 TCCGGCGTTTCTTTCTATATGAA 57.986 39.130 6.01 0.00 0.00 2.57
3136 3220 4.098960 ACTCCGGCGTTTCTTTCTATATGA 59.901 41.667 6.01 0.00 0.00 2.15
3137 3221 4.369182 ACTCCGGCGTTTCTTTCTATATG 58.631 43.478 6.01 0.00 0.00 1.78
3138 3222 4.667519 ACTCCGGCGTTTCTTTCTATAT 57.332 40.909 6.01 0.00 0.00 0.86
3139 3223 4.498682 GCTACTCCGGCGTTTCTTTCTATA 60.499 45.833 0.59 0.00 0.00 1.31
3140 3224 3.737355 GCTACTCCGGCGTTTCTTTCTAT 60.737 47.826 0.59 0.00 0.00 1.98
3141 3225 2.416431 GCTACTCCGGCGTTTCTTTCTA 60.416 50.000 0.59 0.00 0.00 2.10
3142 3226 1.672145 GCTACTCCGGCGTTTCTTTCT 60.672 52.381 0.59 0.00 0.00 2.52
3143 3227 0.720027 GCTACTCCGGCGTTTCTTTC 59.280 55.000 0.59 0.00 0.00 2.62
3144 3228 0.320697 AGCTACTCCGGCGTTTCTTT 59.679 50.000 0.59 0.00 34.52 2.52
3145 3229 1.972978 AGCTACTCCGGCGTTTCTT 59.027 52.632 0.59 0.00 34.52 2.52
3146 3230 3.696084 AGCTACTCCGGCGTTTCT 58.304 55.556 0.59 0.00 34.52 2.52


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

AutoCloner maintained by Alex Coulton.