Multiple sequence alignment - TraesCS1A01G116600

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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 TraesCS1A01G116600 chr1A 100.000 4331 0 0 1 4331 123551707 123556037 0.000000e+00 7998
1 TraesCS1A01G116600 chr1D 94.718 1969 88 9 1 1963 114007727 114009685 0.000000e+00 3046
2 TraesCS1A01G116600 chr1D 90.279 1831 119 26 1946 3752 114012990 114014785 0.000000e+00 2340
3 TraesCS1A01G116600 chr1D 84.000 500 39 14 3752 4213 10790021 10789525 3.970000e-120 442
4 TraesCS1A01G116600 chr1B 91.957 2064 107 27 1 2037 174600888 174602919 0.000000e+00 2837
5 TraesCS1A01G116600 chr1B 90.404 1782 115 24 2014 3752 174603090 174604858 0.000000e+00 2292
6 TraesCS1A01G116600 chr5B 82.588 626 58 20 3752 4329 254160848 254160226 5.000000e-139 505
7 TraesCS1A01G116600 chr5D 84.792 480 32 16 3773 4213 406326991 406326514 1.110000e-120 444
8 TraesCS1A01G116600 chr5D 93.750 208 11 2 4005 4212 463086397 463086192 1.170000e-80 311
9 TraesCS1A01G116600 chr5D 94.118 119 7 0 4211 4329 380848869 380848751 9.570000e-42 182
10 TraesCS1A01G116600 chr4D 83.669 496 41 15 3749 4205 304460459 304460953 8.600000e-117 431
11 TraesCS1A01G116600 chr4D 87.500 280 27 5 3750 4022 469508086 469507808 2.510000e-82 316
12 TraesCS1A01G116600 chr3A 89.790 333 26 5 4004 4329 40368829 40369160 1.860000e-113 420
13 TraesCS1A01G116600 chr2A 82.988 482 52 18 3752 4205 507363155 507363634 4.030000e-110 409
14 TraesCS1A01G116600 chr6D 93.810 210 11 2 4004 4213 43472663 43472870 9.040000e-82 315
15 TraesCS1A01G116600 chr6D 94.958 119 6 0 4211 4329 144466625 144466507 2.060000e-43 187
16 TraesCS1A01G116600 chr5A 93.810 210 11 2 4004 4213 559986920 559987127 9.040000e-82 315
17 TraesCS1A01G116600 chr5A 92.188 128 9 1 4203 4329 487767221 487767348 3.440000e-41 180
18 TraesCS1A01G116600 chr3D 93.810 210 11 2 4004 4213 598877925 598878132 9.040000e-82 315
19 TraesCS1A01G116600 chr3D 88.430 242 27 1 3749 3989 474844727 474844968 1.520000e-74 291
20 TraesCS1A01G116600 chr3D 94.262 122 7 0 4208 4329 577483887 577484008 2.060000e-43 187
21 TraesCS1A01G116600 chr3D 94.262 122 7 0 4208 4329 598878166 598878287 2.060000e-43 187
22 TraesCS1A01G116600 chr4A 93.810 210 10 3 4004 4213 728845572 728845366 3.250000e-81 313
23 TraesCS1A01G116600 chr7D 93.333 210 12 2 4004 4213 83426808 83427015 4.210000e-80 309
24 TraesCS1A01G116600 chr7D 85.765 281 28 3 3752 4022 10959655 10959377 1.970000e-73 287
25 TraesCS1A01G116600 chr7D 94.118 119 7 0 4211 4329 519978843 519978725 9.570000e-42 182
26 TraesCS1A01G116600 chr7D 92.188 128 9 1 4203 4329 442675448 442675575 3.440000e-41 180
27 TraesCS1A01G116600 chr6A 93.333 210 12 2 4004 4213 20488201 20487994 4.210000e-80 309
28 TraesCS1A01G116600 chr7A 87.179 273 24 3 3754 4015 17287317 17287589 2.530000e-77 300
29 TraesCS1A01G116600 chr7A 93.443 122 8 0 4208 4329 151001411 151001532 9.570000e-42 182


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 TraesCS1A01G116600 chr1A 123551707 123556037 4330 False 7998.0 7998 100.0000 1 4331 1 chr1A.!!$F1 4330
1 TraesCS1A01G116600 chr1D 114007727 114014785 7058 False 2693.0 3046 92.4985 1 3752 2 chr1D.!!$F1 3751
2 TraesCS1A01G116600 chr1B 174600888 174604858 3970 False 2564.5 2837 91.1805 1 3752 2 chr1B.!!$F1 3751
3 TraesCS1A01G116600 chr5B 254160226 254160848 622 True 505.0 505 82.5880 3752 4329 1 chr5B.!!$R1 577

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
935 951 0.110823 CGCAGCTGGAAAACGTACAC 60.111 55.0 17.12 0.0 0.00 2.90 F
1143 1164 1.117150 GTACCCGCATTCCCAGTCTA 58.883 55.0 0.00 0.0 0.00 2.59 F
1358 1382 1.149964 GCCGTAATTCCTCGTTCGGG 61.150 60.0 0.00 0.0 38.63 5.14 F
2322 5878 0.179100 ATCGGAACTCTCATGGCACG 60.179 55.0 0.00 0.0 0.00 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1900 1930 0.394192 TCTCACAAGCACCAGACAGG 59.606 55.000 0.00 0.0 45.67 4.00 R
2304 5860 1.215382 CGTGCCATGAGAGTTCCGA 59.785 57.895 0.00 0.0 0.00 4.55 R
2671 6239 2.065899 TGCTAATAACCATGGCCACC 57.934 50.000 8.16 0.0 0.00 4.61 R
3576 7163 0.041238 ACCCTGACGGAAGGATCAGA 59.959 55.000 7.20 0.0 44.32 3.27 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
110 111 1.399714 CCCATGACTACCGTCTAGCA 58.600 55.000 0.00 0.00 40.86 3.49
111 112 1.964223 CCCATGACTACCGTCTAGCAT 59.036 52.381 0.00 0.00 40.86 3.79
184 185 4.640771 AGCAAGATTAGGGAACTTCACA 57.359 40.909 0.00 0.00 43.67 3.58
262 263 4.946157 GTCACAATGTGAGGATCCAAATCT 59.054 41.667 17.28 0.00 43.57 2.40
276 277 2.620115 CCAAATCTCCCATCATCCAACG 59.380 50.000 0.00 0.00 0.00 4.10
527 531 1.304464 GCCTTACAGCCTGGCCTTT 60.304 57.895 16.57 1.94 40.71 3.11
586 590 0.741326 CTCCACGTCTGATCATCCGT 59.259 55.000 12.48 12.48 0.00 4.69
681 695 1.810030 GGCGTAGAGAGCAAACCGG 60.810 63.158 0.00 0.00 36.08 5.28
709 723 5.760131 CCTACCTTGAAGAAATCCAGGAAT 58.240 41.667 0.00 0.00 42.40 3.01
712 726 4.044571 ACCTTGAAGAAATCCAGGAATCCA 59.955 41.667 0.61 0.00 42.40 3.41
717 731 0.999712 AAATCCAGGAATCCACGGGT 59.000 50.000 0.61 0.00 0.00 5.28
859 873 2.393646 GATCTAAGCTGGTGAGGAGGT 58.606 52.381 0.00 0.00 0.00 3.85
910 924 2.146342 CTGTGCACGACCTCTTGAAAT 58.854 47.619 13.13 0.00 0.00 2.17
934 950 0.531090 ACGCAGCTGGAAAACGTACA 60.531 50.000 17.12 0.00 34.79 2.90
935 951 0.110823 CGCAGCTGGAAAACGTACAC 60.111 55.000 17.12 0.00 0.00 2.90
1112 1132 2.517402 CGTCCTCCTCCTCCTCGG 60.517 72.222 0.00 0.00 0.00 4.63
1132 1153 2.159198 GGAATTCGAGTAAGTACCCGCA 60.159 50.000 0.00 0.00 0.00 5.69
1143 1164 1.117150 GTACCCGCATTCCCAGTCTA 58.883 55.000 0.00 0.00 0.00 2.59
1156 1177 3.885901 TCCCAGTCTATGTCTCTTGATCG 59.114 47.826 0.00 0.00 0.00 3.69
1315 1339 1.762460 CCCCTCAGTACGCATCCCT 60.762 63.158 0.00 0.00 0.00 4.20
1317 1341 1.360551 CCTCAGTACGCATCCCTCG 59.639 63.158 0.00 0.00 0.00 4.63
1358 1382 1.149964 GCCGTAATTCCTCGTTCGGG 61.150 60.000 0.00 0.00 38.63 5.14
1364 1388 1.396653 ATTCCTCGTTCGGGTCGTAT 58.603 50.000 0.00 0.00 0.00 3.06
1365 1389 1.176527 TTCCTCGTTCGGGTCGTATT 58.823 50.000 0.00 0.00 0.00 1.89
1366 1390 1.176527 TCCTCGTTCGGGTCGTATTT 58.823 50.000 0.00 0.00 0.00 1.40
1514 1539 2.011947 CATGTACGTCCTCTGTCCGTA 58.988 52.381 0.00 0.00 36.12 4.02
1542 1567 5.738619 TTCACTTGTCCTAGCTGTGATTA 57.261 39.130 0.00 0.00 37.47 1.75
1620 1646 7.703621 TGGTTTTGTTAGCTACTCGATATGTAC 59.296 37.037 0.00 0.00 0.00 2.90
1621 1647 7.919621 GGTTTTGTTAGCTACTCGATATGTACT 59.080 37.037 0.00 0.00 0.00 2.73
1622 1648 9.941664 GTTTTGTTAGCTACTCGATATGTACTA 57.058 33.333 0.00 0.00 0.00 1.82
1710 1737 2.409948 AGGAGAGGCTGTAATGTTGC 57.590 50.000 0.00 0.00 0.00 4.17
1886 1916 4.681942 GCATCTGTCGGTTGTAGTATCATC 59.318 45.833 0.00 0.00 0.00 2.92
1924 1955 1.211703 TCTGGTGCTTGTGAGAAACCA 59.788 47.619 0.00 0.00 38.25 3.67
1979 5332 4.600012 ACTTTGACCGCGATTATTGAAG 57.400 40.909 8.23 4.88 0.00 3.02
1981 5334 4.693566 ACTTTGACCGCGATTATTGAAGAA 59.306 37.500 8.23 0.00 0.00 2.52
1982 5335 4.857871 TTGACCGCGATTATTGAAGAAG 57.142 40.909 8.23 0.00 0.00 2.85
1984 5337 4.112634 TGACCGCGATTATTGAAGAAGAG 58.887 43.478 8.23 0.00 0.00 2.85
1986 5339 4.755411 ACCGCGATTATTGAAGAAGAGAA 58.245 39.130 8.23 0.00 0.00 2.87
1988 5341 5.642063 ACCGCGATTATTGAAGAAGAGAAAA 59.358 36.000 8.23 0.00 0.00 2.29
1989 5342 6.148811 ACCGCGATTATTGAAGAAGAGAAAAA 59.851 34.615 8.23 0.00 0.00 1.94
2036 5584 9.973661 TCCTTGACCATGATTATAAGAGAAAAA 57.026 29.630 0.00 0.00 0.00 1.94
2227 5783 2.829741 TGGTTGGCTTTTGTTATGCC 57.170 45.000 0.00 0.00 45.12 4.40
2240 5796 7.589958 TTTTGTTATGCCTTCTTCCAAGTTA 57.410 32.000 0.00 0.00 0.00 2.24
2273 5829 9.108284 TGTATGATGTTATGTGTAGTTTCATGG 57.892 33.333 0.00 0.00 0.00 3.66
2275 5831 6.179756 TGATGTTATGTGTAGTTTCATGGCT 58.820 36.000 0.00 0.00 0.00 4.75
2280 5836 2.154462 GTGTAGTTTCATGGCTGCTGT 58.846 47.619 0.00 0.00 0.00 4.40
2288 5844 2.309613 TCATGGCTGCTGTTCAAAAGT 58.690 42.857 0.00 0.00 0.00 2.66
2322 5878 0.179100 ATCGGAACTCTCATGGCACG 60.179 55.000 0.00 0.00 0.00 5.34
2368 5924 6.071221 TCCTTGATTGCATGAAAGCTTAACAT 60.071 34.615 2.81 6.31 34.99 2.71
2378 5934 7.095523 GCATGAAAGCTTAACATTGTTTGATGT 60.096 33.333 7.45 0.00 41.83 3.06
2396 5964 6.032956 TGATGTGGTATTATAGGTTAGCCG 57.967 41.667 0.00 0.00 40.50 5.52
2414 5982 2.096174 GCCGTGTAATGTATTTGGCGAA 59.904 45.455 0.00 0.00 0.00 4.70
2505 6073 8.085720 TGTTACTTTTGATTTGATGCAAATGG 57.914 30.769 9.85 0.00 43.05 3.16
2676 6244 2.872858 GCTGTTAAGCTATAGTGGTGGC 59.127 50.000 0.84 0.00 46.60 5.01
2688 6256 3.297134 AGTGGTGGCCATGGTTATTAG 57.703 47.619 9.72 0.00 35.28 1.73
2721 6289 8.417780 TGTTTATTGAATTTGTTTGTGTCTGG 57.582 30.769 0.00 0.00 0.00 3.86
2773 6341 1.843992 CTTGTGCAAACTTGTCTGCC 58.156 50.000 0.00 0.00 37.79 4.85
2804 6372 2.427453 CTGGTAGTTACCTCGACTGCAT 59.573 50.000 9.58 0.00 46.58 3.96
2810 6378 0.981183 TACCTCGACTGCATTGGGTT 59.019 50.000 0.00 0.00 0.00 4.11
2858 6435 4.381612 CCTGATGTTTGCTGATGCTTTGAT 60.382 41.667 0.00 0.00 40.48 2.57
2859 6436 5.142061 TGATGTTTGCTGATGCTTTGATT 57.858 34.783 0.00 0.00 40.48 2.57
2918 6495 1.134037 AGTTGGCCACTTTAACGGACA 60.134 47.619 3.88 0.00 39.06 4.02
2928 6505 6.674760 GCCACTTTAACGGACATGTTAATCTC 60.675 42.308 0.00 0.00 42.21 2.75
2938 6515 8.701895 ACGGACATGTTAATCTCTTATTCCTTA 58.298 33.333 0.00 0.00 0.00 2.69
3046 6624 6.493116 TCGGAGATATAGTTTCTTCACGAAC 58.507 40.000 0.00 0.00 0.00 3.95
3116 6695 2.027745 ACGTGGAGAGCAAGTGAATCAT 60.028 45.455 0.00 0.00 0.00 2.45
3117 6696 3.195610 ACGTGGAGAGCAAGTGAATCATA 59.804 43.478 0.00 0.00 0.00 2.15
3120 6699 3.776969 TGGAGAGCAAGTGAATCATACCT 59.223 43.478 0.00 0.00 0.00 3.08
3175 6754 7.621832 CAATTTTTGACGATTGCAAGTCTAA 57.378 32.000 16.93 13.53 38.16 2.10
3176 6755 8.060020 CAATTTTTGACGATTGCAAGTCTAAA 57.940 30.769 17.89 17.89 39.15 1.85
3185 6764 7.765307 ACGATTGCAAGTCTAAAATTGATGAT 58.235 30.769 4.94 0.00 0.00 2.45
3187 6766 7.911727 CGATTGCAAGTCTAAAATTGATGATGA 59.088 33.333 4.94 0.00 0.00 2.92
3195 6776 8.316946 AGTCTAAAATTGATGATGAGTGACTGA 58.683 33.333 0.00 0.00 0.00 3.41
3233 6814 3.075148 GTTTGCCCTCTACCTGTTTCTC 58.925 50.000 0.00 0.00 0.00 2.87
3280 6861 7.986889 TGTTTGCTATACTGATAGAATGCTTGA 59.013 33.333 0.00 0.00 37.81 3.02
3285 6866 6.589523 CTATACTGATAGAATGCTTGAGCACC 59.410 42.308 8.00 3.65 44.66 5.01
3347 6928 6.779117 ACACTTGCAAATTCTCTATTCATCG 58.221 36.000 0.00 0.00 0.00 3.84
3355 6936 8.072567 GCAAATTCTCTATTCATCGCAGTTATT 58.927 33.333 0.00 0.00 0.00 1.40
3356 6937 9.378597 CAAATTCTCTATTCATCGCAGTTATTG 57.621 33.333 0.00 0.00 0.00 1.90
3369 6951 4.201822 CGCAGTTATTGTTCCTCCTTAAGC 60.202 45.833 0.00 0.00 0.00 3.09
3386 6968 5.298276 CCTTAAGCTGTTGGTCTGTTTGTTA 59.702 40.000 0.00 0.00 0.00 2.41
3397 6979 5.009510 TGGTCTGTTTGTTATCATGTGTTGG 59.990 40.000 0.00 0.00 0.00 3.77
3404 6986 5.465532 TGTTATCATGTGTTGGCATTTGT 57.534 34.783 0.00 0.00 0.00 2.83
3433 7015 4.938832 TCCGGATCAAAATTAGCGAAGAAA 59.061 37.500 0.00 0.00 0.00 2.52
3434 7016 5.588648 TCCGGATCAAAATTAGCGAAGAAAT 59.411 36.000 0.00 0.00 0.00 2.17
3438 7020 7.908082 CGGATCAAAATTAGCGAAGAAATGTAA 59.092 33.333 0.00 0.00 0.00 2.41
3442 7024 7.532546 TCAAAATTAGCGAAGAAATGTAACACG 59.467 33.333 0.00 0.00 0.00 4.49
3447 7029 2.724839 CGAAGAAATGTAACACGCCTGC 60.725 50.000 0.00 0.00 0.00 4.85
3451 7033 0.237235 AATGTAACACGCCTGCAACG 59.763 50.000 7.21 7.21 0.00 4.10
3454 7036 1.524165 TAACACGCCTGCAACGGTT 60.524 52.632 12.80 14.12 34.00 4.44
3455 7037 1.096386 TAACACGCCTGCAACGGTTT 61.096 50.000 12.80 7.73 34.00 3.27
3568 7155 8.312564 AGGAACAGTCTTATTGTCTTAGTTACC 58.687 37.037 0.00 0.00 0.00 2.85
3570 7157 9.141400 GAACAGTCTTATTGTCTTAGTTACCAG 57.859 37.037 0.00 0.00 0.00 4.00
3576 7163 4.924305 TTGTCTTAGTTACCAGTCGTGT 57.076 40.909 0.00 0.00 0.00 4.49
3577 7164 4.494350 TGTCTTAGTTACCAGTCGTGTC 57.506 45.455 0.00 0.00 0.00 3.67
3582 7169 3.851976 AGTTACCAGTCGTGTCTGATC 57.148 47.619 6.60 0.00 37.61 2.92
3585 7172 1.633774 ACCAGTCGTGTCTGATCCTT 58.366 50.000 0.00 0.00 37.61 3.36
3586 7173 1.546476 ACCAGTCGTGTCTGATCCTTC 59.454 52.381 0.00 0.00 37.61 3.46
3681 7287 2.615493 CCGTTCTAGCTGGTTGTTGGAT 60.615 50.000 0.00 0.00 0.00 3.41
3686 7292 4.985538 TCTAGCTGGTTGTTGGATCTTTT 58.014 39.130 0.00 0.00 0.00 2.27
3690 7296 4.051237 GCTGGTTGTTGGATCTTTTTGAC 58.949 43.478 0.00 0.00 0.00 3.18
3692 7298 5.514274 TGGTTGTTGGATCTTTTTGACTC 57.486 39.130 0.00 0.00 0.00 3.36
3719 7325 8.357402 TCTAGCTCGTGTATTTTATTATGCTGA 58.643 33.333 0.00 0.00 0.00 4.26
3744 7350 2.152016 GGCAAAACTTCTAGCCGTTCT 58.848 47.619 0.00 0.00 37.41 3.01
3776 7382 0.924823 TCTCTAGCCGTTAGACCCCT 59.075 55.000 0.00 0.00 34.67 4.79
3802 7408 0.380378 GCATAAAAATCGCCGCCTGA 59.620 50.000 0.00 0.00 0.00 3.86
3826 7432 2.125269 GCCAGCGGTACAATCGGT 60.125 61.111 0.00 0.00 38.98 4.69
3876 7483 0.892358 CCCATGCGCTGATATTGGCT 60.892 55.000 9.73 0.00 0.00 4.75
3878 7485 0.165295 CATGCGCTGATATTGGCTCG 59.835 55.000 9.73 0.00 0.00 5.03
3891 7498 2.750237 GCTCGGTTTTCGGCCCAT 60.750 61.111 0.00 0.00 39.77 4.00
3949 7556 1.593196 CCATATTCGGCATGGTTCGT 58.407 50.000 0.00 0.00 38.53 3.85
3955 7562 3.799755 GGCATGGTTCGTCGTGGC 61.800 66.667 0.00 0.00 40.96 5.01
3957 7564 2.740714 GCATGGTTCGTCGTGGCTC 61.741 63.158 0.00 0.00 0.00 4.70
3959 7566 2.632544 ATGGTTCGTCGTGGCTCGA 61.633 57.895 7.67 7.67 46.83 4.04
3974 7581 2.673368 GGCTCGACGTTGAATTCTCAAT 59.327 45.455 6.99 0.00 43.39 2.57
4070 7709 3.862402 CGTCGAGCTAGGCGTCGT 61.862 66.667 13.01 0.00 37.46 4.34
4072 7711 3.200593 TCGAGCTAGGCGTCGTCC 61.201 66.667 0.00 0.00 37.46 4.79
4094 7733 0.605589 GATCCTCCATAGGTGCTCCG 59.394 60.000 0.00 0.00 44.09 4.63
4095 7734 0.105453 ATCCTCCATAGGTGCTCCGT 60.105 55.000 0.00 0.00 44.09 4.69
4096 7735 0.755698 TCCTCCATAGGTGCTCCGTC 60.756 60.000 0.00 0.00 44.09 4.79
4108 7747 1.427592 GCTCCGTCAGATCTTGCTGC 61.428 60.000 0.00 0.00 35.86 5.25
4114 7753 1.467734 GTCAGATCTTGCTGCAGTTGG 59.532 52.381 16.64 5.63 35.86 3.77
4123 7762 1.798234 GCTGCAGTTGGTGATGCACA 61.798 55.000 16.64 0.00 46.97 4.57
4141 7780 1.342474 ACATGTGGGTCTCGGATCTCT 60.342 52.381 0.00 0.00 0.00 3.10
4143 7782 1.186200 TGTGGGTCTCGGATCTCTTG 58.814 55.000 0.00 0.00 0.00 3.02
4172 7811 0.250513 GAGGTAGGCAGTCCAGGTTG 59.749 60.000 0.00 0.00 33.74 3.77
4173 7812 1.377333 GGTAGGCAGTCCAGGTTGC 60.377 63.158 9.45 9.45 39.56 4.17
4177 7816 4.643387 GCAGTCCAGGTTGCCGGT 62.643 66.667 1.90 0.00 34.28 5.28
4178 7817 3.065306 CAGTCCAGGTTGCCGGTA 58.935 61.111 1.90 0.00 0.00 4.02
4179 7818 1.079127 CAGTCCAGGTTGCCGGTAG 60.079 63.158 1.90 0.00 0.00 3.18
4180 7819 2.436115 GTCCAGGTTGCCGGTAGC 60.436 66.667 1.90 0.00 44.14 3.58
4181 7820 2.606519 TCCAGGTTGCCGGTAGCT 60.607 61.111 1.90 3.71 44.23 3.32
4182 7821 2.436646 CCAGGTTGCCGGTAGCTG 60.437 66.667 22.92 22.92 44.23 4.24
4183 7822 2.436646 CAGGTTGCCGGTAGCTGG 60.437 66.667 22.43 6.71 44.23 4.85
4184 7823 2.928396 AGGTTGCCGGTAGCTGGT 60.928 61.111 1.90 0.00 44.23 4.00
4185 7824 2.746277 GGTTGCCGGTAGCTGGTG 60.746 66.667 1.90 0.00 44.23 4.17
4186 7825 2.345991 GTTGCCGGTAGCTGGTGA 59.654 61.111 1.90 0.00 44.23 4.02
4187 7826 1.078426 GTTGCCGGTAGCTGGTGAT 60.078 57.895 1.90 0.00 44.23 3.06
4189 7828 1.549243 TTGCCGGTAGCTGGTGATCA 61.549 55.000 1.90 0.00 44.23 2.92
4190 7829 1.220749 GCCGGTAGCTGGTGATCAA 59.779 57.895 1.90 0.00 38.99 2.57
4191 7830 1.090052 GCCGGTAGCTGGTGATCAAC 61.090 60.000 2.98 2.98 38.99 3.18
4193 7832 1.066143 CCGGTAGCTGGTGATCAACTT 60.066 52.381 12.94 0.28 0.00 2.66
4194 7833 2.271800 CGGTAGCTGGTGATCAACTTC 58.728 52.381 12.94 3.51 0.00 3.01
4195 7834 2.271800 GGTAGCTGGTGATCAACTTCG 58.728 52.381 12.94 1.68 0.00 3.79
4196 7835 2.271800 GTAGCTGGTGATCAACTTCGG 58.728 52.381 12.94 2.06 0.00 4.30
4197 7836 0.674895 AGCTGGTGATCAACTTCGGC 60.675 55.000 12.94 11.48 0.00 5.54
4198 7837 0.674895 GCTGGTGATCAACTTCGGCT 60.675 55.000 12.94 0.00 0.00 5.52
4199 7838 1.405526 GCTGGTGATCAACTTCGGCTA 60.406 52.381 12.94 0.00 0.00 3.93
4200 7839 2.544685 CTGGTGATCAACTTCGGCTAG 58.455 52.381 12.94 0.00 0.00 3.42
4201 7840 2.166459 CTGGTGATCAACTTCGGCTAGA 59.834 50.000 12.94 0.00 0.00 2.43
4202 7841 2.166459 TGGTGATCAACTTCGGCTAGAG 59.834 50.000 12.94 0.00 0.00 2.43
4203 7842 2.482142 GGTGATCAACTTCGGCTAGAGG 60.482 54.545 2.64 0.00 0.00 3.69
4204 7843 2.427453 GTGATCAACTTCGGCTAGAGGA 59.573 50.000 0.00 0.00 0.00 3.71
4206 7845 3.319405 TGATCAACTTCGGCTAGAGGATC 59.681 47.826 0.00 0.00 33.25 3.36
4220 7874 0.396974 AGGATCTCCTGCTCGCTCTT 60.397 55.000 0.00 0.00 46.55 2.85
4228 7882 1.202498 CCTGCTCGCTCTTGATGATCA 60.202 52.381 0.00 0.00 0.00 2.92
4236 7890 3.373130 CGCTCTTGATGATCATGTTGTGT 59.627 43.478 14.30 0.00 0.00 3.72
4246 7900 7.771826 TGATGATCATGTTGTGTAAGATGACAT 59.228 33.333 14.30 7.88 45.72 3.06
4248 7902 8.652810 TGATCATGTTGTGTAAGATGACATAG 57.347 34.615 0.00 0.00 45.72 2.23
4266 7920 6.013119 TGACATAGCAAGTCATGATATCCCAT 60.013 38.462 0.00 0.00 38.54 4.00
4289 7943 4.351874 TTTGATCTTTCGACCAGGTCTT 57.648 40.909 17.95 0.00 0.00 3.01
4299 7953 1.481363 GACCAGGTCTTAGCAGGGTAC 59.519 57.143 12.94 0.00 0.00 3.34
4316 7970 3.340034 GGTACCGGACAACATCAAATCA 58.660 45.455 9.46 0.00 0.00 2.57
4329 7983 4.142534 ACATCAAATCAAGATTGGAGCACG 60.143 41.667 6.11 0.00 34.48 5.34
4330 7984 3.411446 TCAAATCAAGATTGGAGCACGT 58.589 40.909 0.00 0.00 0.00 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
184 185 0.687757 TTATCCCAGAGGTCGCTGCT 60.688 55.000 0.00 0.00 34.56 4.24
262 263 0.251916 GGTGACGTTGGATGATGGGA 59.748 55.000 0.00 0.00 0.00 4.37
276 277 4.377897 AGTAAGCAGTAACTGTTGGTGAC 58.622 43.478 2.69 0.00 33.43 3.67
314 318 5.547465 TGGCATCTATAATTTGGTACTCCG 58.453 41.667 0.00 0.00 36.30 4.63
527 531 0.606401 CGGAGAAGAAGGCAAAGGCA 60.606 55.000 0.00 0.00 43.71 4.75
586 590 3.694043 TTCTCGTGATGTTGGGATGAA 57.306 42.857 0.00 0.00 0.00 2.57
681 695 2.094762 TTTCTTCAAGGTAGGCGCTC 57.905 50.000 7.64 0.00 0.00 5.03
717 731 4.717629 CCTCTCGCGCGGTGTTCA 62.718 66.667 31.69 8.41 0.00 3.18
859 873 1.156736 GCTTCGGTTTTGCAGCTAGA 58.843 50.000 0.00 0.00 0.00 2.43
910 924 1.003331 CGTTTTCCAGCTGCGTTTACA 60.003 47.619 8.66 0.00 0.00 2.41
934 950 2.322161 CATCGGTCACGTAAACGAAGT 58.678 47.619 1.36 0.00 42.67 3.01
935 951 1.058695 GCATCGGTCACGTAAACGAAG 59.941 52.381 1.36 0.00 43.02 3.79
966 982 2.572290 GGCCGTGGCATAGAGTTATTT 58.428 47.619 13.76 0.00 44.11 1.40
1112 1132 3.714391 ATGCGGGTACTTACTCGAATTC 58.286 45.455 12.86 0.00 45.93 2.17
1132 1153 5.010516 CGATCAAGAGACATAGACTGGGAAT 59.989 44.000 0.00 0.00 0.00 3.01
1143 1164 1.137872 GGACTGGCGATCAAGAGACAT 59.862 52.381 0.00 0.00 0.00 3.06
1294 1318 1.220749 GATGCGTACTGAGGGGCAA 59.779 57.895 0.00 0.00 39.09 4.52
1317 1341 2.124695 GAATGCAGGGACGGGGAC 60.125 66.667 0.00 0.00 0.00 4.46
1365 1389 4.277423 GCAGACAACCCTAGTTAGCAAAAA 59.723 41.667 0.00 0.00 33.27 1.94
1366 1390 3.818773 GCAGACAACCCTAGTTAGCAAAA 59.181 43.478 0.00 0.00 33.27 2.44
1391 1416 0.861837 CCTGACTGTTTCTCACGCAC 59.138 55.000 0.00 0.00 0.00 5.34
1447 1472 1.062206 CGAGGACGCCGTAGAAGAC 59.938 63.158 0.00 0.00 0.00 3.01
1514 1539 8.023021 TCACAGCTAGGACAAGTGAATAATAT 57.977 34.615 0.00 0.00 36.39 1.28
1583 1608 4.379918 GCTAACAAAACCAGCAAGAGATCC 60.380 45.833 0.00 0.00 35.35 3.36
1584 1609 4.457257 AGCTAACAAAACCAGCAAGAGATC 59.543 41.667 0.00 0.00 37.78 2.75
1585 1610 4.401925 AGCTAACAAAACCAGCAAGAGAT 58.598 39.130 0.00 0.00 37.78 2.75
1620 1646 3.632604 TCGAAGTGACAGCCTCCTAATAG 59.367 47.826 0.00 0.00 0.00 1.73
1621 1647 3.628008 TCGAAGTGACAGCCTCCTAATA 58.372 45.455 0.00 0.00 0.00 0.98
1622 1648 2.457598 TCGAAGTGACAGCCTCCTAAT 58.542 47.619 0.00 0.00 0.00 1.73
1673 1699 2.240414 TCCTAGTGGTCTCACCGATACA 59.760 50.000 0.00 0.00 42.58 2.29
1710 1737 3.244009 ACAGCTTCCATGTCATATCCTCG 60.244 47.826 0.00 0.00 0.00 4.63
1762 1789 8.700051 ACATTACATAGCTATCCTAGGCTTATG 58.300 37.037 2.96 9.48 39.65 1.90
1900 1930 0.394192 TCTCACAAGCACCAGACAGG 59.606 55.000 0.00 0.00 45.67 4.00
1924 1955 3.660970 TGTATATGGTGCCCACAATGT 57.339 42.857 0.40 0.00 35.80 2.71
1949 1980 6.431198 AATCGCGGTCAAAGTAATACAAAT 57.569 33.333 6.13 0.00 0.00 2.32
1955 1986 6.537301 TCTTCAATAATCGCGGTCAAAGTAAT 59.463 34.615 6.13 0.00 0.00 1.89
1958 1989 4.250464 TCTTCAATAATCGCGGTCAAAGT 58.750 39.130 6.13 0.00 0.00 2.66
2010 5363 9.973661 TTTTTCTCTTATAATCATGGTCAAGGA 57.026 29.630 0.00 0.00 0.00 3.36
2036 5584 7.230510 TGTGCACCATGTATCTTCTAAGTTTTT 59.769 33.333 15.69 0.00 0.00 1.94
2037 5585 6.714810 TGTGCACCATGTATCTTCTAAGTTTT 59.285 34.615 15.69 0.00 0.00 2.43
2038 5586 6.237901 TGTGCACCATGTATCTTCTAAGTTT 58.762 36.000 15.69 0.00 0.00 2.66
2227 5783 9.653287 TCATACACTAACATAACTTGGAAGAAG 57.347 33.333 0.00 0.00 0.00 2.85
2280 5836 7.466185 CGATGTGTACCACTGTTAACTTTTGAA 60.466 37.037 7.22 0.00 35.11 2.69
2288 5844 4.039488 AGTTCCGATGTGTACCACTGTTAA 59.961 41.667 0.00 0.00 35.11 2.01
2304 5860 1.215382 CGTGCCATGAGAGTTCCGA 59.785 57.895 0.00 0.00 0.00 4.55
2322 5878 7.373778 AGGATAACGGTTTATTTCACTTGAC 57.626 36.000 0.00 0.00 0.00 3.18
2368 5924 9.116067 GCTAACCTATAATACCACATCAAACAA 57.884 33.333 0.00 0.00 0.00 2.83
2378 5934 6.975196 TTACACGGCTAACCTATAATACCA 57.025 37.500 0.00 0.00 0.00 3.25
2396 5964 4.332819 AGCTCTTCGCCAAATACATTACAC 59.667 41.667 0.00 0.00 40.39 2.90
2414 5982 5.306394 CATGGATCATGTGAACATAGCTCT 58.694 41.667 0.00 0.00 37.12 4.09
2512 6080 7.387119 TCAGTAACATCACTCGTACTACAAT 57.613 36.000 0.00 0.00 0.00 2.71
2656 6224 3.118408 TGGCCACCACTATAGCTTAACAG 60.118 47.826 0.00 0.00 0.00 3.16
2667 6235 3.434453 GCTAATAACCATGGCCACCACTA 60.434 47.826 8.16 0.00 35.80 2.74
2671 6239 2.065899 TGCTAATAACCATGGCCACC 57.934 50.000 8.16 0.00 0.00 4.61
2721 6289 2.568612 GGCTGAAGGCGCCTTTTC 59.431 61.111 40.31 29.55 44.17 2.29
2773 6341 2.747446 GGTAACTACCAGCAACACCATG 59.253 50.000 0.80 0.00 45.73 3.66
2804 6372 5.735285 TTGTGCATGATCAAATAACCCAA 57.265 34.783 0.00 0.00 0.00 4.12
2810 6378 7.211573 GGATTGGATTTGTGCATGATCAAATA 58.788 34.615 20.41 11.25 42.05 1.40
2895 6472 3.754850 GTCCGTTAAAGTGGCCAACTATT 59.245 43.478 7.24 2.59 38.56 1.73
2896 6473 3.244630 TGTCCGTTAAAGTGGCCAACTAT 60.245 43.478 7.24 0.00 38.56 2.12
2928 6505 8.025445 GCACTGCATTTCCATATAAGGAATAAG 58.975 37.037 10.13 8.11 46.45 1.73
3029 6607 8.997621 AAGCTTATGTTCGTGAAGAAACTATA 57.002 30.769 0.00 0.00 41.10 1.31
3046 6624 7.558161 TCAATGAGAACCACATAAGCTTATG 57.442 36.000 34.60 34.60 44.66 1.90
3069 6647 5.613358 ACAGTTCCGATCTGAAAAACATC 57.387 39.130 12.51 0.00 36.81 3.06
3116 6695 3.957288 GCTGGAGCTTTGGAAGGTA 57.043 52.632 0.00 0.00 39.77 3.08
3117 6696 4.830573 GCTGGAGCTTTGGAAGGT 57.169 55.556 0.00 0.00 42.93 3.50
3157 6736 6.964908 TCAATTTTAGACTTGCAATCGTCAA 58.035 32.000 18.01 9.42 32.68 3.18
3175 6754 9.635520 GAAAAATCAGTCACTCATCATCAATTT 57.364 29.630 0.00 0.00 0.00 1.82
3176 6755 8.799367 TGAAAAATCAGTCACTCATCATCAATT 58.201 29.630 0.00 0.00 0.00 2.32
3185 6764 8.791327 TGCTAATATGAAAAATCAGTCACTCA 57.209 30.769 0.00 0.00 0.00 3.41
3187 6766 9.182214 ACATGCTAATATGAAAAATCAGTCACT 57.818 29.630 0.00 0.00 0.00 3.41
3195 6776 7.567458 AGGGCAAACATGCTAATATGAAAAAT 58.433 30.769 0.00 0.00 34.73 1.82
3233 6814 8.479280 CAAACACAAACCTTGAATCGAATTAAG 58.521 33.333 0.00 0.00 0.00 1.85
3280 6861 4.521146 CAGTCAAGATTATTCTGGGTGCT 58.479 43.478 0.00 0.00 30.72 4.40
3285 6866 4.774124 TCTGGCAGTCAAGATTATTCTGG 58.226 43.478 15.27 0.00 30.72 3.86
3288 6869 4.194640 TGCTCTGGCAGTCAAGATTATTC 58.805 43.478 15.27 0.00 44.28 1.75
3343 6924 3.535561 AGGAGGAACAATAACTGCGATG 58.464 45.455 0.00 0.00 0.00 3.84
3347 6928 4.944317 AGCTTAAGGAGGAACAATAACTGC 59.056 41.667 4.29 0.00 0.00 4.40
3355 6936 2.441750 ACCAACAGCTTAAGGAGGAACA 59.558 45.455 4.29 0.00 0.00 3.18
3356 6937 3.075148 GACCAACAGCTTAAGGAGGAAC 58.925 50.000 4.29 0.00 0.00 3.62
3369 6951 6.144854 CACATGATAACAAACAGACCAACAG 58.855 40.000 0.00 0.00 0.00 3.16
3409 6991 4.509616 TCTTCGCTAATTTTGATCCGGAA 58.490 39.130 9.01 0.00 0.00 4.30
3426 7008 2.724839 GCAGGCGTGTTACATTTCTTCG 60.725 50.000 8.40 0.00 0.00 3.79
3433 7015 1.573829 CCGTTGCAGGCGTGTTACAT 61.574 55.000 8.40 0.00 0.00 2.29
3434 7016 2.248135 CCGTTGCAGGCGTGTTACA 61.248 57.895 8.40 0.00 0.00 2.41
3438 7020 2.826738 AAACCGTTGCAGGCGTGT 60.827 55.556 8.40 6.55 33.69 4.49
3442 7024 0.597377 CCTTTCAAACCGTTGCAGGC 60.597 55.000 0.00 0.00 34.50 4.85
3447 7029 3.452474 TGCAAATCCTTTCAAACCGTTG 58.548 40.909 0.00 0.00 35.95 4.10
3451 7033 5.179929 CCTTCAATGCAAATCCTTTCAAACC 59.820 40.000 0.00 0.00 0.00 3.27
3454 7036 4.317488 GCCTTCAATGCAAATCCTTTCAA 58.683 39.130 0.00 0.00 0.00 2.69
3455 7037 3.306919 GGCCTTCAATGCAAATCCTTTCA 60.307 43.478 0.00 0.00 0.00 2.69
3540 7124 6.166982 ACTAAGACAATAAGACTGTTCCTGC 58.833 40.000 0.00 0.00 0.00 4.85
3546 7133 8.191534 ACTGGTAACTAAGACAATAAGACTGT 57.808 34.615 0.00 0.00 37.61 3.55
3553 7140 6.432162 AGACACGACTGGTAACTAAGACAATA 59.568 38.462 0.00 0.00 37.61 1.90
3568 7155 1.468224 CGGAAGGATCAGACACGACTG 60.468 57.143 0.00 0.00 39.02 3.51
3570 7157 0.526662 ACGGAAGGATCAGACACGAC 59.473 55.000 0.00 0.00 0.00 4.34
3576 7163 0.041238 ACCCTGACGGAAGGATCAGA 59.959 55.000 7.20 0.00 44.32 3.27
3577 7164 0.176680 CACCCTGACGGAAGGATCAG 59.823 60.000 7.20 0.00 40.02 2.90
3582 7169 0.251916 TAATGCACCCTGACGGAAGG 59.748 55.000 0.00 0.00 37.05 3.46
3585 7172 0.468226 GGATAATGCACCCTGACGGA 59.532 55.000 0.00 0.00 34.64 4.69
3586 7173 0.469917 AGGATAATGCACCCTGACGG 59.530 55.000 0.00 0.00 37.81 4.79
3652 7239 2.895404 ACCAGCTAGAACGGTTGAACTA 59.105 45.455 0.00 0.00 0.00 2.24
3675 7281 6.169800 AGCTAGAGAGTCAAAAAGATCCAAC 58.830 40.000 0.00 0.00 0.00 3.77
3681 7287 4.278669 ACACGAGCTAGAGAGTCAAAAAGA 59.721 41.667 0.00 0.00 0.00 2.52
3686 7292 5.899120 AAATACACGAGCTAGAGAGTCAA 57.101 39.130 0.00 0.00 0.00 3.18
3690 7296 8.855279 GCATAATAAAATACACGAGCTAGAGAG 58.145 37.037 0.00 0.00 0.00 3.20
3692 7298 8.642885 CAGCATAATAAAATACACGAGCTAGAG 58.357 37.037 0.00 0.00 0.00 2.43
3719 7325 2.152016 GGCTAGAAGTTTTGCCTTCGT 58.848 47.619 0.00 0.00 44.46 3.85
3744 7350 6.406692 ACGGCTAGAGATGCTCTAATTAAA 57.593 37.500 5.75 0.00 41.74 1.52
3761 7367 0.396695 CCTGAGGGGTCTAACGGCTA 60.397 60.000 0.00 0.00 0.00 3.93
3776 7382 2.297701 GGCGATTTTTATGCCTCCTGA 58.702 47.619 0.00 0.00 45.40 3.86
3812 7418 1.447838 CAGCACCGATTGTACCGCT 60.448 57.895 0.00 0.00 0.00 5.52
3861 7468 1.595109 CCGAGCCAATATCAGCGCA 60.595 57.895 11.47 0.00 0.00 6.09
3864 7471 2.286418 CGAAAACCGAGCCAATATCAGC 60.286 50.000 0.00 0.00 41.76 4.26
3866 7473 2.285083 CCGAAAACCGAGCCAATATCA 58.715 47.619 0.00 0.00 41.76 2.15
3876 7483 0.599060 GAAAATGGGCCGAAAACCGA 59.401 50.000 0.00 0.00 41.76 4.69
3878 7485 0.599060 TCGAAAATGGGCCGAAAACC 59.401 50.000 0.00 0.00 0.00 3.27
3891 7498 2.086094 GGGGCCTTTATTCGTCGAAAA 58.914 47.619 12.40 1.79 0.00 2.29
3941 7548 2.126071 CGAGCCACGACGAACCAT 60.126 61.111 0.00 0.00 45.77 3.55
3942 7549 3.289062 TCGAGCCACGACGAACCA 61.289 61.111 0.00 0.00 46.45 3.67
4050 7689 4.477975 ACGCCTAGCTCGACGTGC 62.478 66.667 13.74 13.74 37.37 5.34
4094 7733 1.467734 CCAACTGCAGCAAGATCTGAC 59.532 52.381 15.27 0.00 36.19 3.51
4095 7734 1.072806 ACCAACTGCAGCAAGATCTGA 59.927 47.619 15.27 0.00 36.19 3.27
4096 7735 1.199327 CACCAACTGCAGCAAGATCTG 59.801 52.381 15.27 0.00 37.15 2.90
4108 7747 1.068125 CCACATGTGCATCACCAACTG 60.068 52.381 20.81 0.00 32.73 3.16
4114 7753 1.089920 GAGACCCACATGTGCATCAC 58.910 55.000 20.81 13.52 34.56 3.06
4123 7762 1.759445 CAAGAGATCCGAGACCCACAT 59.241 52.381 0.00 0.00 0.00 3.21
4141 7780 1.136305 GCCTACCTCAGTATGCGTCAA 59.864 52.381 0.00 0.00 31.68 3.18
4143 7782 0.744874 TGCCTACCTCAGTATGCGTC 59.255 55.000 0.00 0.00 41.49 5.19
4172 7811 1.090052 GTTGATCACCAGCTACCGGC 61.090 60.000 0.00 0.00 42.19 6.13
4173 7812 0.537188 AGTTGATCACCAGCTACCGG 59.463 55.000 0.00 0.00 34.39 5.28
4174 7813 2.271800 GAAGTTGATCACCAGCTACCG 58.728 52.381 0.00 0.00 35.13 4.02
4175 7814 2.271800 CGAAGTTGATCACCAGCTACC 58.728 52.381 0.00 0.00 35.13 3.18
4177 7816 1.405526 GCCGAAGTTGATCACCAGCTA 60.406 52.381 0.00 0.00 35.13 3.32
4178 7817 0.674895 GCCGAAGTTGATCACCAGCT 60.675 55.000 0.00 0.00 37.99 4.24
4179 7818 0.674895 AGCCGAAGTTGATCACCAGC 60.675 55.000 0.00 0.00 0.00 4.85
4180 7819 2.166459 TCTAGCCGAAGTTGATCACCAG 59.834 50.000 0.00 0.00 0.00 4.00
4181 7820 2.166459 CTCTAGCCGAAGTTGATCACCA 59.834 50.000 0.00 0.00 0.00 4.17
4182 7821 2.482142 CCTCTAGCCGAAGTTGATCACC 60.482 54.545 0.00 0.00 0.00 4.02
4183 7822 2.427453 TCCTCTAGCCGAAGTTGATCAC 59.573 50.000 0.00 0.00 0.00 3.06
4184 7823 2.735151 TCCTCTAGCCGAAGTTGATCA 58.265 47.619 0.00 0.00 0.00 2.92
4185 7824 3.572255 AGATCCTCTAGCCGAAGTTGATC 59.428 47.826 0.00 0.00 0.00 2.92
4186 7825 3.571590 AGATCCTCTAGCCGAAGTTGAT 58.428 45.455 0.00 0.00 0.00 2.57
4187 7826 2.952978 GAGATCCTCTAGCCGAAGTTGA 59.047 50.000 0.00 0.00 0.00 3.18
4189 7828 2.091555 AGGAGATCCTCTAGCCGAAGTT 60.092 50.000 0.00 0.00 44.77 2.66
4190 7829 1.497286 AGGAGATCCTCTAGCCGAAGT 59.503 52.381 0.00 0.00 44.77 3.01
4191 7830 1.885887 CAGGAGATCCTCTAGCCGAAG 59.114 57.143 0.00 0.00 46.65 3.79
4193 7832 0.538516 GCAGGAGATCCTCTAGCCGA 60.539 60.000 0.00 0.00 46.65 5.54
4194 7833 0.539438 AGCAGGAGATCCTCTAGCCG 60.539 60.000 0.00 0.00 46.65 5.52
4195 7834 1.256812 GAGCAGGAGATCCTCTAGCC 58.743 60.000 0.00 0.00 46.65 3.93
4196 7835 0.881118 CGAGCAGGAGATCCTCTAGC 59.119 60.000 0.00 0.00 46.65 3.42
4197 7836 0.881118 GCGAGCAGGAGATCCTCTAG 59.119 60.000 0.00 2.01 46.65 2.43
4198 7837 0.476338 AGCGAGCAGGAGATCCTCTA 59.524 55.000 0.00 0.00 46.65 2.43
4199 7838 0.823356 GAGCGAGCAGGAGATCCTCT 60.823 60.000 0.00 0.00 46.65 3.69
4200 7839 0.823356 AGAGCGAGCAGGAGATCCTC 60.823 60.000 0.00 0.00 46.65 3.71
4202 7841 0.249405 CAAGAGCGAGCAGGAGATCC 60.249 60.000 0.00 0.00 0.00 3.36
4203 7842 0.743688 TCAAGAGCGAGCAGGAGATC 59.256 55.000 0.00 0.00 0.00 2.75
4204 7843 1.068895 CATCAAGAGCGAGCAGGAGAT 59.931 52.381 0.00 0.00 0.00 2.75
4206 7845 0.459078 TCATCAAGAGCGAGCAGGAG 59.541 55.000 0.00 0.00 0.00 3.69
4220 7874 7.104939 TGTCATCTTACACAACATGATCATCA 58.895 34.615 4.86 0.00 0.00 3.07
4228 7882 6.881065 ACTTGCTATGTCATCTTACACAACAT 59.119 34.615 0.00 0.00 35.00 2.71
4246 7900 8.605065 TCAAATATGGGATATCATGACTTGCTA 58.395 33.333 4.83 0.00 0.00 3.49
4248 7902 7.692460 TCAAATATGGGATATCATGACTTGC 57.308 36.000 4.83 0.00 0.00 4.01
4289 7943 0.542467 TGTTGTCCGGTACCCTGCTA 60.542 55.000 6.25 0.00 0.00 3.49
4299 7953 4.970662 ATCTTGATTTGATGTTGTCCGG 57.029 40.909 0.00 0.00 0.00 5.14
4309 7963 3.411446 ACGTGCTCCAATCTTGATTTGA 58.589 40.909 0.00 0.00 0.00 2.69
4310 7964 3.837213 ACGTGCTCCAATCTTGATTTG 57.163 42.857 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.