Multiple sequence alignment - TraesCS1A01G210800

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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 TraesCS1A01G210800 chr1A 100.000 8050 0 0 1 8050 373312646 373320695 0.000000e+00 14866.0
1 TraesCS1A01G210800 chr1A 88.430 121 10 4 4909 5027 584675567 584675685 8.420000e-30 143.0
2 TraesCS1A01G210800 chr1A 97.727 44 1 0 7686 7729 373320275 373320318 8.660000e-10 76.8
3 TraesCS1A01G210800 chr1A 97.727 44 1 0 7630 7673 373320331 373320374 8.660000e-10 76.8
4 TraesCS1A01G210800 chr1B 94.140 3481 146 27 1486 4940 403412574 403416022 0.000000e+00 5245.0
5 TraesCS1A01G210800 chr1B 94.059 2525 104 17 5021 7541 403416020 403418502 0.000000e+00 3790.0
6 TraesCS1A01G210800 chr1B 88.108 1337 54 35 123 1421 403411296 403412565 0.000000e+00 1491.0
7 TraesCS1A01G210800 chr1B 90.789 152 10 3 7750 7897 403418565 403418716 4.930000e-47 200.0
8 TraesCS1A01G210800 chr1B 91.935 62 1 2 25 82 403411251 403411312 5.180000e-12 84.2
9 TraesCS1A01G210800 chr1D 96.668 2641 45 13 5011 7647 299268536 299271137 0.000000e+00 4349.0
10 TraesCS1A01G210800 chr1D 92.881 2964 119 28 123 3051 299263627 299266533 0.000000e+00 4220.0
11 TraesCS1A01G210800 chr1D 96.679 1656 45 8 3292 4946 299266782 299268428 0.000000e+00 2745.0
12 TraesCS1A01G210800 chr1D 94.620 316 15 2 7737 8050 299271168 299271483 9.390000e-134 488.0
13 TraesCS1A01G210800 chr1D 85.870 92 3 5 1 82 299263552 299263643 1.110000e-13 89.8
14 TraesCS1A01G210800 chr4B 96.078 102 2 2 4925 5024 600126319 600126420 1.800000e-36 165.0
15 TraesCS1A01G210800 chr6B 100.000 88 0 0 4938 5025 459601723 459601636 6.460000e-36 163.0
16 TraesCS1A01G210800 chr6A 97.895 95 1 1 4929 5022 287115459 287115365 6.460000e-36 163.0
17 TraesCS1A01G210800 chr7A 96.000 100 2 2 4925 5024 111835332 111835235 2.320000e-35 161.0
18 TraesCS1A01G210800 chr3B 97.849 93 2 0 4931 5023 243091298 243091206 2.320000e-35 161.0
19 TraesCS1A01G210800 chr3B 95.876 97 4 0 4930 5026 22211116 22211212 3.010000e-34 158.0
20 TraesCS1A01G210800 chr3B 95.876 97 4 0 4926 5022 820469682 820469778 3.010000e-34 158.0
21 TraesCS1A01G210800 chr2A 95.876 97 2 2 4937 5033 773293455 773293361 1.080000e-33 156.0
22 TraesCS1A01G210800 chr6D 96.970 33 1 0 3712 3744 22994498 22994466 1.000000e-03 56.5


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 TraesCS1A01G210800 chr1A 373312646 373320695 8049 False 5006.533333 14866 98.484667 1 8050 3 chr1A.!!$F2 8049
1 TraesCS1A01G210800 chr1B 403411251 403418716 7465 False 2162.040000 5245 91.806200 25 7897 5 chr1B.!!$F1 7872
2 TraesCS1A01G210800 chr1D 299263552 299271483 7931 False 2378.360000 4349 93.343600 1 8050 5 chr1D.!!$F1 8049

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
825 859 0.185175 GAGTCTCCTCCCTCCCTCTC 59.815 65.000 0.0 0.0 0.00 3.20 F
827 861 0.185175 GTCTCCTCCCTCCCTCTCTC 59.815 65.000 0.0 0.0 0.00 3.20 F
2251 2321 0.179034 GCATTACAGAGCTGGGAGGG 60.179 60.000 0.0 0.0 34.19 4.30 F
3387 3536 0.833287 TTCCTCATAGGCACTGGAGC 59.167 55.000 0.0 0.0 41.52 4.70 F
3488 3639 1.072965 AGTCTGGCCCAGAACTCAAAG 59.927 52.381 16.7 0.0 42.46 2.77 F
4424 4584 0.109086 CAGTGTGGCTAGTCCTGACG 60.109 60.000 0.0 0.0 36.20 4.35 F
5347 5550 1.048601 ATGATAGCCAGGTGGTACGG 58.951 55.000 0.0 0.0 37.57 4.02 F
6398 6602 1.050988 GCCTCCAGCAGATCCCACTA 61.051 60.000 0.0 0.0 42.97 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2241 2311 0.117340 ACTACTGAACCCTCCCAGCT 59.883 55.000 0.00 0.0 33.90 4.24 R
2611 2683 0.470766 AAGCCACACGGTCCTTAACA 59.529 50.000 0.00 0.0 33.28 2.41 R
3948 4107 0.178981 ACACCAGCCATGAAGCAGTT 60.179 50.000 0.00 0.0 34.23 3.16 R
4406 4566 0.539901 ACGTCAGGACTAGCCACACT 60.540 55.000 6.07 0.0 40.02 3.55 R
5008 5168 3.053395 ACCACTATGTACTCCCTCCGTAA 60.053 47.826 0.00 0.0 0.00 3.18 R
6157 6361 1.534729 AAGGGACATGGCGAAGTTTC 58.465 50.000 0.00 0.0 0.00 2.78 R
6959 7169 2.299867 GTCACTGCATCCAACCCATTTT 59.700 45.455 0.00 0.0 0.00 1.82 R
7997 8215 0.036671 CGGTGTCTGGTTAGGGTTCC 60.037 60.000 0.00 0.0 0.00 3.62 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
58 65 0.802607 GCGGCCTATTCGATCGATCC 60.803 60.000 20.18 13.43 0.00 3.36
60 67 1.468224 CGGCCTATTCGATCGATCCTG 60.468 57.143 20.18 9.52 0.00 3.86
63 70 1.468914 CCTATTCGATCGATCCTGCGA 59.531 52.381 20.18 11.11 45.22 5.10
71 78 1.809684 TCGATCCTGCGATATCTCGT 58.190 50.000 8.94 0.00 46.71 4.18
72 79 2.152016 TCGATCCTGCGATATCTCGTT 58.848 47.619 8.94 0.00 46.71 3.85
73 80 2.095718 TCGATCCTGCGATATCTCGTTG 60.096 50.000 8.94 0.00 46.71 4.10
74 81 2.095718 CGATCCTGCGATATCTCGTTGA 60.096 50.000 0.34 0.00 46.71 3.18
75 82 3.426829 CGATCCTGCGATATCTCGTTGAT 60.427 47.826 0.34 2.58 46.71 2.57
76 83 4.201822 CGATCCTGCGATATCTCGTTGATA 60.202 45.833 0.34 4.07 46.71 2.15
77 84 4.421033 TCCTGCGATATCTCGTTGATAC 57.579 45.455 0.34 0.00 46.71 2.24
78 85 3.818773 TCCTGCGATATCTCGTTGATACA 59.181 43.478 0.34 0.00 46.71 2.29
79 86 4.083271 TCCTGCGATATCTCGTTGATACAG 60.083 45.833 0.34 0.44 46.71 2.74
80 87 4.160736 TGCGATATCTCGTTGATACAGG 57.839 45.455 0.34 0.00 46.71 4.00
81 88 3.568430 TGCGATATCTCGTTGATACAGGT 59.432 43.478 0.34 0.00 46.71 4.00
82 89 4.037565 TGCGATATCTCGTTGATACAGGTT 59.962 41.667 0.34 0.00 46.71 3.50
83 90 4.982916 GCGATATCTCGTTGATACAGGTTT 59.017 41.667 0.34 0.00 46.71 3.27
84 91 5.462398 GCGATATCTCGTTGATACAGGTTTT 59.538 40.000 0.34 0.00 46.71 2.43
85 92 6.018994 GCGATATCTCGTTGATACAGGTTTTT 60.019 38.462 0.34 0.00 46.71 1.94
112 119 6.870971 TTTGCGAATAATACAGGGTTATCC 57.129 37.500 0.00 0.00 0.00 2.59
113 120 5.554437 TGCGAATAATACAGGGTTATCCA 57.446 39.130 0.00 0.00 38.24 3.41
114 121 5.931294 TGCGAATAATACAGGGTTATCCAA 58.069 37.500 0.00 0.00 38.24 3.53
115 122 6.358178 TGCGAATAATACAGGGTTATCCAAA 58.642 36.000 0.00 0.00 38.24 3.28
116 123 6.829298 TGCGAATAATACAGGGTTATCCAAAA 59.171 34.615 0.00 0.00 38.24 2.44
117 124 7.339721 TGCGAATAATACAGGGTTATCCAAAAA 59.660 33.333 0.00 0.00 38.24 1.94
176 183 2.158928 CGGATGTATTGGGTTTCCGGTA 60.159 50.000 0.00 0.00 44.24 4.02
177 184 3.473625 GGATGTATTGGGTTTCCGGTAG 58.526 50.000 0.00 0.00 35.24 3.18
183 190 2.295602 GGGTTTCCGGTAGGGCTGA 61.296 63.158 0.00 0.00 38.33 4.26
221 229 4.232905 TCCACCAGGTTGGAGAGG 57.767 61.111 1.40 1.45 41.00 3.69
222 230 1.238938 TCCACCAGGTTGGAGAGGT 59.761 57.895 1.40 0.00 41.00 3.85
223 231 0.490017 TCCACCAGGTTGGAGAGGTA 59.510 55.000 1.40 0.00 41.00 3.08
224 232 0.905357 CCACCAGGTTGGAGAGGTAG 59.095 60.000 1.40 0.00 40.96 3.18
225 233 0.250513 CACCAGGTTGGAGAGGTAGC 59.749 60.000 1.40 0.00 40.96 3.58
228 236 2.022918 ACCAGGTTGGAGAGGTAGCTAT 60.023 50.000 0.00 0.00 40.96 2.97
229 237 3.206866 ACCAGGTTGGAGAGGTAGCTATA 59.793 47.826 0.00 0.00 40.96 1.31
230 238 3.829601 CCAGGTTGGAGAGGTAGCTATAG 59.170 52.174 0.00 0.00 40.96 1.31
231 239 3.257127 CAGGTTGGAGAGGTAGCTATAGC 59.743 52.174 17.33 17.33 42.49 2.97
233 241 8.672189 CCAGGTTGGAGAGGTAGCTATAGCTA 62.672 50.000 27.09 27.09 45.33 3.32
244 252 3.833545 GCTATAGCTAGCTACTCGCAA 57.166 47.619 26.41 4.97 45.78 4.85
245 253 4.162096 GCTATAGCTAGCTACTCGCAAA 57.838 45.455 26.41 4.14 45.78 3.68
246 254 4.547532 GCTATAGCTAGCTACTCGCAAAA 58.452 43.478 26.41 3.34 45.78 2.44
247 255 4.982916 GCTATAGCTAGCTACTCGCAAAAA 59.017 41.667 26.41 2.52 45.78 1.94
286 294 4.143333 ATGGGGTCCGAACGCTCG 62.143 66.667 0.15 0.15 45.02 5.03
346 354 1.956170 CCGTCATCGTAGCCATGGC 60.956 63.158 30.12 30.12 37.03 4.40
383 391 0.321387 GGTCCAAGGAAGGTTCGACC 60.321 60.000 0.00 0.00 38.99 4.79
384 392 0.669625 GTCCAAGGAAGGTTCGACCG 60.670 60.000 0.00 0.00 44.90 4.79
385 393 0.828762 TCCAAGGAAGGTTCGACCGA 60.829 55.000 0.00 0.00 44.90 4.69
386 394 0.249398 CCAAGGAAGGTTCGACCGAT 59.751 55.000 0.00 0.00 44.90 4.18
424 444 3.187700 CGAAGCATGGACCACTACTAAC 58.812 50.000 0.00 0.00 0.00 2.34
447 469 3.099905 AGCAACAGGAGTATGTAGCTGA 58.900 45.455 0.00 0.00 31.70 4.26
461 483 3.503363 TGTAGCTGAAGTTGCCAAAGATG 59.497 43.478 0.00 0.00 0.00 2.90
549 571 0.669077 CAAGCGAGCCTACCGTAGAT 59.331 55.000 7.16 0.00 0.00 1.98
555 577 1.082235 GCCTACCGTAGATCGCGAC 60.082 63.158 12.93 5.67 38.35 5.19
664 686 1.080705 GACCAGACTCGACCAACCG 60.081 63.158 0.00 0.00 0.00 4.44
824 858 0.254107 AGAGTCTCCTCCCTCCCTCT 60.254 60.000 0.00 0.00 38.58 3.69
825 859 0.185175 GAGTCTCCTCCCTCCCTCTC 59.815 65.000 0.00 0.00 0.00 3.20
826 860 0.254107 AGTCTCCTCCCTCCCTCTCT 60.254 60.000 0.00 0.00 0.00 3.10
827 861 0.185175 GTCTCCTCCCTCCCTCTCTC 59.815 65.000 0.00 0.00 0.00 3.20
830 864 2.197324 CTCCCTCCCTCTCTCCCG 59.803 72.222 0.00 0.00 0.00 5.14
842 876 0.749649 CTCTCCCGTTCCCATCTCAG 59.250 60.000 0.00 0.00 0.00 3.35
846 880 2.202932 CGTTCCCATCTCAGCCCG 60.203 66.667 0.00 0.00 0.00 6.13
896 930 1.312371 CCGCAACCCAACGAATCCAT 61.312 55.000 0.00 0.00 0.00 3.41
899 933 1.135112 GCAACCCAACGAATCCATTCC 60.135 52.381 0.00 0.00 33.28 3.01
900 934 2.166829 CAACCCAACGAATCCATTCCA 58.833 47.619 0.00 0.00 33.28 3.53
901 935 2.560542 CAACCCAACGAATCCATTCCAA 59.439 45.455 0.00 0.00 33.28 3.53
902 936 3.100207 ACCCAACGAATCCATTCCAAT 57.900 42.857 0.00 0.00 33.28 3.16
903 937 3.023832 ACCCAACGAATCCATTCCAATC 58.976 45.455 0.00 0.00 33.28 2.67
955 989 0.802494 AGCGGCCAATAAACAAGTCG 59.198 50.000 2.24 0.00 0.00 4.18
1356 1405 3.578716 TCAAGGTCTCGTCTCATTTCCTT 59.421 43.478 0.00 0.00 34.69 3.36
1366 1415 0.909623 TCATTTCCTTCCCCTCCGTC 59.090 55.000 0.00 0.00 0.00 4.79
1424 1473 6.791867 ACATAGATAGCTTCCACACAACTA 57.208 37.500 0.00 0.00 0.00 2.24
1426 1475 6.381420 ACATAGATAGCTTCCACACAACTAGT 59.619 38.462 0.00 0.00 0.00 2.57
1438 1487 3.190118 ACACAACTAGTACCAGTAGCGAC 59.810 47.826 0.00 0.00 0.00 5.19
1458 1507 2.754658 ATCGAGCGGTCCGTTCCT 60.755 61.111 20.82 6.07 33.76 3.36
1459 1508 2.772691 ATCGAGCGGTCCGTTCCTC 61.773 63.158 20.82 13.69 33.76 3.71
1492 1541 1.375853 TTTCATCTGGCGGGCGATTG 61.376 55.000 6.25 0.00 0.00 2.67
1497 1546 2.745884 TGGCGGGCGATTGAACTG 60.746 61.111 0.00 0.00 0.00 3.16
1514 1563 5.511363 TGAACTGTTTTTAGTTTCCCCAGA 58.489 37.500 0.00 0.00 40.78 3.86
1515 1564 6.133356 TGAACTGTTTTTAGTTTCCCCAGAT 58.867 36.000 0.00 0.00 40.78 2.90
1573 1623 2.101835 TTGGTATTTCCGCGTCGCC 61.102 57.895 12.44 0.00 39.52 5.54
1971 2031 1.308998 CACCGGCCCATCTGTATTTC 58.691 55.000 0.00 0.00 0.00 2.17
1983 2052 6.117911 CATCTGTATTTCGTACAAATGGCA 57.882 37.500 11.29 0.00 42.50 4.92
1984 2053 5.539582 TCTGTATTTCGTACAAATGGCAC 57.460 39.130 11.29 5.17 42.50 5.01
2062 2132 2.573083 GGAACGTGGGGTGGTACGA 61.573 63.158 3.64 0.00 42.54 3.43
2161 2231 0.514691 GCTTGAGTCAGCGTCCTTTG 59.485 55.000 0.00 0.00 0.00 2.77
2178 2248 3.004734 CCTTTGTGTTAGCCTGTCCTTTG 59.995 47.826 0.00 0.00 0.00 2.77
2184 2254 3.010420 GTTAGCCTGTCCTTTGGATGAC 58.990 50.000 0.00 0.00 32.73 3.06
2241 2311 7.012610 CAGTGTGAAATGATATGGCATTACAGA 59.987 37.037 4.78 0.00 37.50 3.41
2251 2321 0.179034 GCATTACAGAGCTGGGAGGG 60.179 60.000 0.00 0.00 34.19 4.30
2320 2390 5.888982 TGGATTTTACATCCTAGGAGACC 57.111 43.478 18.34 10.96 38.95 3.85
2363 2433 6.262273 GGAAGGAACTGAAGTATTTGTTGTCA 59.738 38.462 0.00 0.00 40.86 3.58
2407 2477 5.262588 TCGCCGCATGAATATGTAGATAT 57.737 39.130 0.00 0.00 36.65 1.63
2505 2577 6.210078 CGGTCTGGTTGCTAATTTTTGTAAA 58.790 36.000 0.00 0.00 0.00 2.01
2507 2579 7.383843 CGGTCTGGTTGCTAATTTTTGTAAATT 59.616 33.333 0.00 0.00 44.16 1.82
2597 2669 1.133792 CCCCAACCAAGACACTTCAGT 60.134 52.381 0.00 0.00 0.00 3.41
2611 2683 2.505819 ACTTCAGTTGAGGACAGGTTGT 59.494 45.455 0.00 0.00 0.00 3.32
2899 2971 3.017442 GGTAATGCTTCTTGGAACCCTC 58.983 50.000 0.00 0.00 0.00 4.30
2905 2977 2.751806 GCTTCTTGGAACCCTCTGATTG 59.248 50.000 0.00 0.00 0.00 2.67
3021 3093 4.919754 AGTGACGAATGTACGTTAAGAACC 59.080 41.667 0.00 0.00 46.52 3.62
3025 3097 3.676172 CGAATGTACGTTAAGAACCTGCA 59.324 43.478 0.00 0.00 0.00 4.41
3129 3244 3.338249 TGTCTTCCTTGTATTCAGCAGC 58.662 45.455 0.00 0.00 0.00 5.25
3153 3268 7.934120 AGCCAACCTTTATCAGTAGCTAAATAG 59.066 37.037 0.00 0.00 0.00 1.73
3223 3338 3.949754 CCATCTCAGCCTTTTGCAATAGA 59.050 43.478 17.31 5.00 44.83 1.98
3319 3468 8.850007 ACCCTTTTAGAAGTAAAGATGAAGAC 57.150 34.615 0.00 0.00 35.16 3.01
3367 3516 2.038659 ACCCAATTGTGGTCCAAACAG 58.961 47.619 11.54 0.00 44.30 3.16
3387 3536 0.833287 TTCCTCATAGGCACTGGAGC 59.167 55.000 0.00 0.00 41.52 4.70
3488 3639 1.072965 AGTCTGGCCCAGAACTCAAAG 59.927 52.381 16.70 0.00 42.46 2.77
3502 3653 8.742777 CCAGAACTCAAAGAATAAATTGATGGA 58.257 33.333 0.00 0.00 35.47 3.41
3503 3654 9.565213 CAGAACTCAAAGAATAAATTGATGGAC 57.435 33.333 0.00 0.00 35.20 4.02
3520 3671 8.956446 TTGATGGACTGATATCTGGTATTCTA 57.044 34.615 13.48 1.51 0.00 2.10
3666 3817 7.781548 TGTAGTGGTACTTGTTCTTCTTTTC 57.218 36.000 0.00 0.00 0.00 2.29
3773 3924 9.801873 CATGGTATAAACCTTTACTTTGGATTG 57.198 33.333 0.00 0.00 46.91 2.67
3791 3942 8.519799 TTGGATTGTTTTCTGTTAGTTTCTCT 57.480 30.769 0.00 0.00 0.00 3.10
3842 3993 4.885426 ACAGGTGTGAAGGTGCTG 57.115 55.556 0.00 0.00 0.00 4.41
3863 4022 5.391950 GCTGATTCGCATTTTTCTTGGACTA 60.392 40.000 0.00 0.00 0.00 2.59
3948 4107 3.485394 TCTTGCACTGCATTTTACCTGA 58.515 40.909 4.10 0.00 38.76 3.86
4406 4566 2.685897 ACAAGGCAAAGTTTTAGCGACA 59.314 40.909 0.00 0.00 0.00 4.35
4424 4584 0.109086 CAGTGTGGCTAGTCCTGACG 60.109 60.000 0.00 0.00 36.20 4.35
4660 4820 2.333014 GAGCCTTTGTCGTCTCTTCAG 58.667 52.381 0.00 0.00 0.00 3.02
4873 5033 3.328382 AACCGAGTAGCATGCACTTTA 57.672 42.857 21.98 0.00 0.00 1.85
4879 5039 3.265791 AGTAGCATGCACTTTAGCTGTC 58.734 45.455 21.98 0.00 37.94 3.51
4953 5113 9.765295 TCTAAAATACTACTCCCTCTGTAAACT 57.235 33.333 0.00 0.00 0.00 2.66
4966 5126 9.710818 TCCCTCTGTAAACTAATATAAGAGTGT 57.289 33.333 0.00 0.00 0.00 3.55
5097 5300 1.818060 TGCACATATGTTCAGGGCAAC 59.182 47.619 13.64 0.00 0.00 4.17
5347 5550 1.048601 ATGATAGCCAGGTGGTACGG 58.951 55.000 0.00 0.00 37.57 4.02
5440 5643 4.078363 AGTTTCGTTGCGTTTGATATGG 57.922 40.909 0.00 0.00 0.00 2.74
5667 5870 4.225942 TGGAGCAAGGTACAGATTCTTCAT 59.774 41.667 0.00 0.00 0.00 2.57
5687 5890 7.712639 TCTTCATCAAAGGCACTCATACTATTC 59.287 37.037 0.00 0.00 38.49 1.75
5755 5959 2.851824 CGATTGCCCGTGCTTTTTAATC 59.148 45.455 0.00 0.00 38.71 1.75
5793 5997 8.973182 CATACCTATCCTATTCTTCTAGGGAAC 58.027 40.741 0.00 0.00 39.08 3.62
5913 6117 6.552445 ATTTCTAGAGAACACTGCCACTAT 57.448 37.500 0.00 0.00 33.13 2.12
5934 6138 2.995283 TCACATGAAGCTTGGAGATGG 58.005 47.619 2.10 0.00 0.00 3.51
6157 6361 5.449041 CCAGGTATGACGAACAATTTCCATG 60.449 44.000 0.00 0.00 0.00 3.66
6168 6372 3.320541 ACAATTTCCATGAAACTTCGCCA 59.679 39.130 0.00 0.00 34.23 5.69
6280 6484 1.616921 CCTGATGGGCAAGTGGGAT 59.383 57.895 0.00 0.00 0.00 3.85
6398 6602 1.050988 GCCTCCAGCAGATCCCACTA 61.051 60.000 0.00 0.00 42.97 2.74
6688 6894 8.066247 ACCCTAGTTCTTTATACTGTCCTACAT 58.934 37.037 0.00 0.00 0.00 2.29
6707 6914 9.226606 TCCTACATTTTCCTTTAACACTACATG 57.773 33.333 0.00 0.00 0.00 3.21
6959 7169 1.761174 GGAGGCAAGGGAACAGACA 59.239 57.895 0.00 0.00 0.00 3.41
7070 7280 0.531200 GAGGCAGTAGTAGGCGTTGT 59.469 55.000 0.00 0.00 36.55 3.32
7114 7324 6.365520 AGGTACATAATTGATTGGTTCCTCC 58.634 40.000 0.00 0.00 27.93 4.30
7115 7325 6.160459 AGGTACATAATTGATTGGTTCCTCCT 59.840 38.462 0.00 0.00 37.07 3.69
7116 7326 6.833933 GGTACATAATTGATTGGTTCCTCCTT 59.166 38.462 0.00 0.00 37.07 3.36
7117 7327 6.780457 ACATAATTGATTGGTTCCTCCTTG 57.220 37.500 0.00 0.00 37.07 3.61
7118 7328 6.256053 ACATAATTGATTGGTTCCTCCTTGT 58.744 36.000 0.00 0.00 37.07 3.16
7119 7329 6.725834 ACATAATTGATTGGTTCCTCCTTGTT 59.274 34.615 0.00 0.00 37.07 2.83
7120 7330 5.473066 AATTGATTGGTTCCTCCTTGTTG 57.527 39.130 0.00 0.00 37.07 3.33
7121 7331 3.593442 TGATTGGTTCCTCCTTGTTGT 57.407 42.857 0.00 0.00 37.07 3.32
7122 7332 3.486383 TGATTGGTTCCTCCTTGTTGTC 58.514 45.455 0.00 0.00 37.07 3.18
7123 7333 2.358322 TTGGTTCCTCCTTGTTGTCC 57.642 50.000 0.00 0.00 37.07 4.02
7124 7334 1.518367 TGGTTCCTCCTTGTTGTCCT 58.482 50.000 0.00 0.00 37.07 3.85
7125 7335 1.850345 TGGTTCCTCCTTGTTGTCCTT 59.150 47.619 0.00 0.00 37.07 3.36
7126 7336 2.230660 GGTTCCTCCTTGTTGTCCTTG 58.769 52.381 0.00 0.00 0.00 3.61
7127 7337 2.422945 GGTTCCTCCTTGTTGTCCTTGT 60.423 50.000 0.00 0.00 0.00 3.16
7128 7338 3.288092 GTTCCTCCTTGTTGTCCTTGTT 58.712 45.455 0.00 0.00 0.00 2.83
7129 7339 2.930950 TCCTCCTTGTTGTCCTTGTTG 58.069 47.619 0.00 0.00 0.00 3.33
7130 7340 2.241176 TCCTCCTTGTTGTCCTTGTTGT 59.759 45.455 0.00 0.00 0.00 3.32
7131 7341 2.618709 CCTCCTTGTTGTCCTTGTTGTC 59.381 50.000 0.00 0.00 0.00 3.18
7132 7342 2.618709 CTCCTTGTTGTCCTTGTTGTCC 59.381 50.000 0.00 0.00 0.00 4.02
7133 7343 2.241176 TCCTTGTTGTCCTTGTTGTCCT 59.759 45.455 0.00 0.00 0.00 3.85
7134 7344 3.456644 TCCTTGTTGTCCTTGTTGTCCTA 59.543 43.478 0.00 0.00 0.00 2.94
7135 7345 4.104102 TCCTTGTTGTCCTTGTTGTCCTAT 59.896 41.667 0.00 0.00 0.00 2.57
7136 7346 5.308497 TCCTTGTTGTCCTTGTTGTCCTATA 59.692 40.000 0.00 0.00 0.00 1.31
7441 7653 4.062293 GTGACATAGTTAAGTGTGTGGCA 58.938 43.478 16.43 7.31 0.00 4.92
7488 7701 3.591196 TGGCAGTAATTGGATTGTTGC 57.409 42.857 0.00 0.00 34.35 4.17
7500 7713 2.231235 GGATTGTTGCTGTAACCCCAAG 59.769 50.000 6.17 0.00 38.55 3.61
7522 7735 7.065085 CCAAGTTGAACTAACCATCATGAGTAG 59.935 40.741 3.87 3.07 40.24 2.57
7523 7736 7.246171 AGTTGAACTAACCATCATGAGTAGT 57.754 36.000 0.09 3.69 40.24 2.73
7541 7754 7.704271 TGAGTAGTAACTGATATGGTTTCTCG 58.296 38.462 0.00 0.00 35.56 4.04
7548 7761 6.732896 ACTGATATGGTTTCTCGGTAGAAT 57.267 37.500 0.00 0.00 41.36 2.40
7607 7820 1.039068 CTCTGATGCTCCTGGATCGT 58.961 55.000 0.00 0.00 42.88 3.73
7608 7821 2.234143 CTCTGATGCTCCTGGATCGTA 58.766 52.381 0.00 0.00 42.88 3.43
7652 7865 7.130681 CCTTTAGGGTCTCTTTGATCATACT 57.869 40.000 0.00 0.00 0.00 2.12
7653 7866 8.251383 CCTTTAGGGTCTCTTTGATCATACTA 57.749 38.462 0.00 0.00 0.00 1.82
7654 7867 8.145122 CCTTTAGGGTCTCTTTGATCATACTAC 58.855 40.741 0.00 0.00 0.00 2.73
7655 7868 8.603898 TTTAGGGTCTCTTTGATCATACTACA 57.396 34.615 0.00 0.00 0.00 2.74
7656 7869 8.783660 TTAGGGTCTCTTTGATCATACTACAT 57.216 34.615 0.00 0.00 0.00 2.29
7657 7870 7.682787 AGGGTCTCTTTGATCATACTACATT 57.317 36.000 0.00 0.00 0.00 2.71
7658 7871 7.731054 AGGGTCTCTTTGATCATACTACATTC 58.269 38.462 0.00 0.00 0.00 2.67
7659 7872 7.566879 AGGGTCTCTTTGATCATACTACATTCT 59.433 37.037 0.00 0.00 0.00 2.40
7660 7873 8.861086 GGGTCTCTTTGATCATACTACATTCTA 58.139 37.037 0.00 0.00 0.00 2.10
7735 7948 9.833917 ACATTCTATAGGTACCTAAAAAGCTTC 57.166 33.333 25.25 0.00 31.73 3.86
7997 8215 1.127951 CGACGATGGGGTTCGAAAAAG 59.872 52.381 0.00 0.00 41.62 2.27
8011 8229 3.391955 TCGAAAAAGGAACCCTAACCAGA 59.608 43.478 0.00 0.00 31.13 3.86
8025 8243 2.052690 CCAGACACCGGGACTCGAT 61.053 63.158 6.32 0.00 42.43 3.59
8034 8252 1.648504 CGGGACTCGATAAACCAACC 58.351 55.000 0.00 0.00 42.43 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 65 4.162072 CCTGTATCAACGAGATATCGCAG 58.838 47.826 10.14 7.65 41.10 5.18
60 67 4.162096 ACCTGTATCAACGAGATATCGC 57.838 45.455 10.14 0.00 41.10 4.58
87 94 7.339721 TGGATAACCCTGTATTATTCGCAAAAA 59.660 33.333 0.00 0.00 35.38 1.94
88 95 6.829298 TGGATAACCCTGTATTATTCGCAAAA 59.171 34.615 0.00 0.00 35.38 2.44
89 96 6.358178 TGGATAACCCTGTATTATTCGCAAA 58.642 36.000 0.00 0.00 35.38 3.68
90 97 5.931294 TGGATAACCCTGTATTATTCGCAA 58.069 37.500 0.00 0.00 35.38 4.85
91 98 5.554437 TGGATAACCCTGTATTATTCGCA 57.446 39.130 0.00 0.00 35.38 5.10
92 99 6.870971 TTTGGATAACCCTGTATTATTCGC 57.129 37.500 0.00 0.00 35.38 4.70
118 125 5.422214 AGACCTGTATCCACGAGATTTTT 57.578 39.130 0.00 0.00 36.33 1.94
119 126 5.178797 CAAGACCTGTATCCACGAGATTTT 58.821 41.667 0.00 0.00 36.33 1.82
120 127 4.223032 ACAAGACCTGTATCCACGAGATTT 59.777 41.667 0.00 0.00 36.10 2.17
121 128 3.769844 ACAAGACCTGTATCCACGAGATT 59.230 43.478 0.00 0.00 36.10 2.40
176 183 4.349503 TGCAACCGCATCAGCCCT 62.350 61.111 0.00 0.00 45.36 5.19
197 205 0.253044 CCAACCTGGTGGATCGACAT 59.747 55.000 10.22 0.00 41.65 3.06
248 256 5.408604 CCATGTCTTGTACGAGTAGCTTTTT 59.591 40.000 10.00 0.00 0.00 1.94
249 257 4.929808 CCATGTCTTGTACGAGTAGCTTTT 59.070 41.667 10.00 0.00 0.00 2.27
250 258 4.495422 CCATGTCTTGTACGAGTAGCTTT 58.505 43.478 10.00 0.00 0.00 3.51
251 259 3.119101 CCCATGTCTTGTACGAGTAGCTT 60.119 47.826 10.00 0.00 0.00 3.74
252 260 2.427453 CCCATGTCTTGTACGAGTAGCT 59.573 50.000 10.00 0.00 0.00 3.32
253 261 2.481449 CCCCATGTCTTGTACGAGTAGC 60.481 54.545 10.00 3.19 0.00 3.58
254 262 2.758979 ACCCCATGTCTTGTACGAGTAG 59.241 50.000 10.00 0.00 0.00 2.57
255 263 2.756760 GACCCCATGTCTTGTACGAGTA 59.243 50.000 10.00 1.60 41.03 2.59
256 264 1.549170 GACCCCATGTCTTGTACGAGT 59.451 52.381 10.00 0.00 41.03 4.18
257 265 1.134788 GGACCCCATGTCTTGTACGAG 60.135 57.143 3.44 3.44 43.89 4.18
258 266 0.899720 GGACCCCATGTCTTGTACGA 59.100 55.000 0.00 0.00 43.89 3.43
259 267 0.459585 CGGACCCCATGTCTTGTACG 60.460 60.000 0.00 0.00 43.89 3.67
356 364 3.234630 TTCCTTGGACCAGCCGTCG 62.235 63.158 0.00 0.00 42.99 5.12
384 392 1.822250 GCTGGTTTCCGCGATCGATC 61.822 60.000 21.57 15.68 38.10 3.69
385 393 1.883084 GCTGGTTTCCGCGATCGAT 60.883 57.895 21.57 0.00 38.10 3.59
386 394 2.508439 GCTGGTTTCCGCGATCGA 60.508 61.111 21.57 0.00 38.10 3.59
404 412 4.473477 AGTTAGTAGTGGTCCATGCTTC 57.527 45.455 0.00 0.00 0.00 3.86
447 469 2.034124 ACTGTGCATCTTTGGCAACTT 58.966 42.857 0.00 0.00 43.91 2.66
504 526 5.976534 CAGTACTCTAGATGTCAATGTGCTC 59.023 44.000 0.00 0.00 0.00 4.26
649 671 2.805353 CGCGGTTGGTCGAGTCTG 60.805 66.667 0.00 0.00 0.00 3.51
650 672 4.719369 GCGCGGTTGGTCGAGTCT 62.719 66.667 8.83 0.00 32.71 3.24
696 728 0.106419 GATCCTCCCTCCTCGTGTCT 60.106 60.000 0.00 0.00 0.00 3.41
824 858 1.330655 GCTGAGATGGGAACGGGAGA 61.331 60.000 0.00 0.00 0.00 3.71
825 859 1.144936 GCTGAGATGGGAACGGGAG 59.855 63.158 0.00 0.00 0.00 4.30
826 860 2.367202 GGCTGAGATGGGAACGGGA 61.367 63.158 0.00 0.00 0.00 5.14
827 861 2.190578 GGCTGAGATGGGAACGGG 59.809 66.667 0.00 0.00 0.00 5.28
830 864 2.514824 GCGGGCTGAGATGGGAAC 60.515 66.667 0.00 0.00 0.00 3.62
885 919 3.242739 GGTCGATTGGAATGGATTCGTTG 60.243 47.826 0.00 0.00 37.67 4.10
896 930 2.046700 GCGGTGGGTCGATTGGAA 60.047 61.111 0.00 0.00 0.00 3.53
899 933 3.487202 CACGCGGTGGGTCGATTG 61.487 66.667 12.47 0.00 0.00 2.67
955 989 4.899239 CGCTGGCGTCCCCATCTC 62.899 72.222 6.83 0.00 44.33 2.75
1077 1111 3.063084 GAGCAGTCCCCGTCGTCT 61.063 66.667 0.00 0.00 0.00 4.18
1366 1415 1.286260 GTAGCATAGCGGACGGGAG 59.714 63.158 0.00 0.00 0.00 4.30
1424 1473 1.400846 CGATGTGTCGCTACTGGTACT 59.599 52.381 0.00 0.00 41.49 2.73
1438 1487 2.126071 AACGGACCGCTCGATGTG 60.126 61.111 15.39 0.00 0.00 3.21
1484 1533 4.499037 ACTAAAAACAGTTCAATCGCCC 57.501 40.909 0.00 0.00 0.00 6.13
1492 1541 6.650427 ATCTGGGGAAACTAAAAACAGTTC 57.350 37.500 0.00 0.00 37.78 3.01
1497 1546 7.823665 ACGAAATATCTGGGGAAACTAAAAAC 58.176 34.615 0.00 0.00 0.00 2.43
1534 1583 3.403038 ACTCGTTTTGGTGATGAGAAGG 58.597 45.455 0.73 0.00 34.86 3.46
1573 1623 3.498137 CAGTTCAACTGTTCCGATCCGG 61.498 54.545 9.61 0.00 43.78 5.14
2062 2132 5.589367 AATGGGTATATGGACAGATGCTT 57.411 39.130 0.00 0.00 0.00 3.91
2161 2231 2.561478 TCCAAAGGACAGGCTAACAC 57.439 50.000 0.00 0.00 0.00 3.32
2178 2248 9.553064 AGATAATAACTTGATCAGTTGTCATCC 57.447 33.333 16.19 5.88 45.98 3.51
2241 2311 0.117340 ACTACTGAACCCTCCCAGCT 59.883 55.000 0.00 0.00 33.90 4.24
2251 2321 9.988815 ATCCATATACTCAAATGACTACTGAAC 57.011 33.333 0.00 0.00 0.00 3.18
2320 2390 6.851609 TCCTTCCAACACAATATTTTGATCG 58.148 36.000 8.57 0.00 36.64 3.69
2363 2433 5.911280 CGATTACACGTTCGTATAGACCAAT 59.089 40.000 0.00 0.00 0.00 3.16
2407 2477 2.307496 AAAACAGTGATGCCCCATGA 57.693 45.000 0.00 0.00 0.00 3.07
2457 2528 6.013842 GCACTTTAAGCCAAAAGTATGAGT 57.986 37.500 12.29 0.00 45.59 3.41
2507 2579 9.119418 TGATGAGATCTACAAACAGTTCAAAAA 57.881 29.630 0.00 0.00 0.00 1.94
2597 2669 3.456644 TCCTTAACACAACCTGTCCTCAA 59.543 43.478 0.00 0.00 30.29 3.02
2611 2683 0.470766 AAGCCACACGGTCCTTAACA 59.529 50.000 0.00 0.00 33.28 2.41
2731 2803 2.338015 ACCTTCAGCATGCAAGCGG 61.338 57.895 21.98 16.45 40.15 5.52
2812 2884 2.068519 CAACGCTGCTTCATCTGTACA 58.931 47.619 0.00 0.00 0.00 2.90
2899 2971 5.587443 TGCATGATTTGTCTAGTCCAATCAG 59.413 40.000 17.14 12.09 0.00 2.90
2905 2977 5.886960 AAAGTGCATGATTTGTCTAGTCC 57.113 39.130 0.00 0.00 0.00 3.85
3021 3093 2.235898 AGTTCTAAAGAGGGCTCTGCAG 59.764 50.000 7.63 7.63 40.36 4.41
3072 3187 6.438425 AGCAAAATATCCAGTCATCTTTTGGT 59.562 34.615 0.00 0.00 36.50 3.67
3129 3244 9.046296 CACTATTTAGCTACTGATAAAGGTTGG 57.954 37.037 0.00 0.00 37.44 3.77
3153 3268 5.335191 GGGATAATATTGCTAGCAAGTGCAC 60.335 44.000 31.88 20.54 45.16 4.57
3223 3338 8.182227 GTCGCCTTCTAGCAAAAACTATTAAAT 58.818 33.333 0.00 0.00 0.00 1.40
3280 3395 8.528044 TTCTAAAAGGGTCTCTTTGCTAAAAA 57.472 30.769 0.00 0.00 44.30 1.94
3281 3396 7.778382 ACTTCTAAAAGGGTCTCTTTGCTAAAA 59.222 33.333 0.00 0.00 44.30 1.52
3282 3397 7.287810 ACTTCTAAAAGGGTCTCTTTGCTAAA 58.712 34.615 0.00 0.00 44.30 1.85
3283 3398 6.838382 ACTTCTAAAAGGGTCTCTTTGCTAA 58.162 36.000 0.00 0.00 44.30 3.09
3284 3399 6.435292 ACTTCTAAAAGGGTCTCTTTGCTA 57.565 37.500 0.00 0.00 44.30 3.49
3285 3400 5.311844 ACTTCTAAAAGGGTCTCTTTGCT 57.688 39.130 0.00 0.00 44.30 3.91
3286 3401 7.444487 TCTTTACTTCTAAAAGGGTCTCTTTGC 59.556 37.037 0.00 0.00 44.30 3.68
3287 3402 8.904099 TCTTTACTTCTAAAAGGGTCTCTTTG 57.096 34.615 0.00 0.00 44.30 2.77
3288 3403 9.508642 CATCTTTACTTCTAAAAGGGTCTCTTT 57.491 33.333 0.00 0.00 46.82 2.52
3289 3404 8.881262 TCATCTTTACTTCTAAAAGGGTCTCTT 58.119 33.333 0.00 0.00 36.78 2.85
3290 3405 8.437274 TCATCTTTACTTCTAAAAGGGTCTCT 57.563 34.615 0.00 0.00 36.78 3.10
3319 3468 6.036083 CCTTGTCATTTATAACAGGTCGAGTG 59.964 42.308 0.00 0.00 0.00 3.51
3367 3516 1.474143 GCTCCAGTGCCTATGAGGAAC 60.474 57.143 0.00 0.00 44.82 3.62
3488 3639 9.512588 ACCAGATATCAGTCCATCAATTTATTC 57.487 33.333 5.32 0.00 0.00 1.75
3502 3653 9.168451 CACGATACTAGAATACCAGATATCAGT 57.832 37.037 5.32 4.63 0.00 3.41
3503 3654 9.384764 TCACGATACTAGAATACCAGATATCAG 57.615 37.037 5.32 0.00 0.00 2.90
3520 3671 5.046529 GTCAGCAGATGATTTCACGATACT 58.953 41.667 0.00 0.00 40.92 2.12
3666 3817 9.450807 CATAACTGTTAGAGAAAACCAAAACTG 57.549 33.333 6.40 0.00 0.00 3.16
3773 3924 9.761504 AGGTACTTAGAGAAACTAACAGAAAAC 57.238 33.333 0.00 0.00 36.33 2.43
3842 3993 6.024049 CAGTAGTCCAAGAAAAATGCGAATC 58.976 40.000 0.00 0.00 0.00 2.52
3863 4022 8.147058 CCATAATAGAAGCAGTCTAACATCAGT 58.853 37.037 1.69 0.00 42.24 3.41
3896 4055 5.188434 CAGGTGCTTGGAGAAATGAATAGA 58.812 41.667 0.00 0.00 0.00 1.98
3948 4107 0.178981 ACACCAGCCATGAAGCAGTT 60.179 50.000 0.00 0.00 34.23 3.16
4053 4213 4.360563 CGCTGGTAATCGTTCTCAACTAT 58.639 43.478 0.00 0.00 0.00 2.12
4194 4354 9.770097 CAGATAAAGATGTAGTGATGTATGGTT 57.230 33.333 0.00 0.00 0.00 3.67
4406 4566 0.539901 ACGTCAGGACTAGCCACACT 60.540 55.000 6.07 0.00 40.02 3.55
4491 4651 9.307121 CAGACGATAATAGATATTCATTGGTCC 57.693 37.037 0.00 0.00 0.00 4.46
4660 4820 3.879892 ACTCCAACTCTTCAAAGCACTTC 59.120 43.478 0.00 0.00 0.00 3.01
4873 5033 6.927416 TCATTATCTGCAAAATTTGACAGCT 58.073 32.000 18.51 14.17 35.89 4.24
4988 5148 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
4989 5149 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
4990 5150 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
4991 5151 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
4993 5153 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
4994 5154 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
4995 5155 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
4996 5156 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
5001 5161 8.220559 ACTATGTACTCCCTCCGTAAACTAATA 58.779 37.037 0.00 0.00 0.00 0.98
5003 5163 6.319658 CACTATGTACTCCCTCCGTAAACTAA 59.680 42.308 0.00 0.00 0.00 2.24
5004 5164 5.824624 CACTATGTACTCCCTCCGTAAACTA 59.175 44.000 0.00 0.00 0.00 2.24
5005 5165 4.643784 CACTATGTACTCCCTCCGTAAACT 59.356 45.833 0.00 0.00 0.00 2.66
5008 5168 3.053395 ACCACTATGTACTCCCTCCGTAA 60.053 47.826 0.00 0.00 0.00 3.18
5097 5300 7.404985 CAACATAAAGAATTCTCATCAGACCG 58.595 38.462 8.78 0.00 0.00 4.79
5290 5493 7.443879 TGAATTTGATCTTGTTACTGTGCACTA 59.556 33.333 19.41 0.00 0.00 2.74
5347 5550 7.992180 AATCAAACAACATTTCAAGACACTC 57.008 32.000 0.00 0.00 0.00 3.51
5667 5870 6.325028 AGCTAGAATAGTATGAGTGCCTTTGA 59.675 38.462 0.00 0.00 41.93 2.69
5687 5890 6.146837 CGAGAATGGTAATCATGGAAAGCTAG 59.853 42.308 0.00 0.00 35.99 3.42
5755 5959 8.988546 ATAGGATAGGTATGCTATACTCACAG 57.011 38.462 8.77 0.00 42.93 3.66
5807 6011 7.727181 TGGAGAATAGGAACAGTAATAAGCTC 58.273 38.462 0.00 0.00 0.00 4.09
5899 6103 4.002982 TCATGTGAATAGTGGCAGTGTTC 58.997 43.478 20.94 20.94 0.00 3.18
5913 6117 3.349927 CCATCTCCAAGCTTCATGTGAA 58.650 45.455 0.00 0.00 0.00 3.18
5934 6138 9.643693 TCAAAAAGATATTCAATTCTTCTTGCC 57.356 29.630 4.65 0.00 32.47 4.52
6157 6361 1.534729 AAGGGACATGGCGAAGTTTC 58.465 50.000 0.00 0.00 0.00 2.78
6168 6372 5.163301 ACGATCTACATAAGCAAAGGGACAT 60.163 40.000 0.00 0.00 0.00 3.06
6203 6407 5.358160 AGCCTTGAACCTTGCATAGAATTAC 59.642 40.000 0.00 0.00 0.00 1.89
6398 6602 8.613060 ATCGCAAATGATGACAAGTTATATCT 57.387 30.769 0.00 0.00 0.00 1.98
6524 6729 7.530426 AGCTTCTCCTAAACAAATGACAAAT 57.470 32.000 0.00 0.00 0.00 2.32
6699 6906 7.962918 GTGAATAAAGGTAAGCAACATGTAGTG 59.037 37.037 0.00 0.00 0.00 2.74
6707 6914 6.389906 AGCAATGTGAATAAAGGTAAGCAAC 58.610 36.000 0.00 0.00 0.00 4.17
6959 7169 2.299867 GTCACTGCATCCAACCCATTTT 59.700 45.455 0.00 0.00 0.00 1.82
7114 7324 5.995282 TGTATAGGACAACAAGGACAACAAG 59.005 40.000 0.00 0.00 34.15 3.16
7115 7325 5.761234 GTGTATAGGACAACAAGGACAACAA 59.239 40.000 0.00 0.00 40.66 2.83
7116 7326 5.163290 TGTGTATAGGACAACAAGGACAACA 60.163 40.000 0.00 0.00 40.66 3.33
7117 7327 5.302360 TGTGTATAGGACAACAAGGACAAC 58.698 41.667 0.00 0.00 40.66 3.32
7118 7328 5.554437 TGTGTATAGGACAACAAGGACAA 57.446 39.130 0.00 0.00 40.66 3.18
7119 7329 5.483937 AGATGTGTATAGGACAACAAGGACA 59.516 40.000 0.00 0.00 40.66 4.02
7120 7330 5.978814 AGATGTGTATAGGACAACAAGGAC 58.021 41.667 0.00 0.00 40.66 3.85
7121 7331 7.202001 CCATAGATGTGTATAGGACAACAAGGA 60.202 40.741 0.00 0.00 40.66 3.36
7122 7332 6.931281 CCATAGATGTGTATAGGACAACAAGG 59.069 42.308 0.00 0.00 40.66 3.61
7123 7333 7.500992 ACCATAGATGTGTATAGGACAACAAG 58.499 38.462 0.00 0.00 40.66 3.16
7124 7334 7.432148 ACCATAGATGTGTATAGGACAACAA 57.568 36.000 0.00 0.00 40.66 2.83
7125 7335 7.562088 TGTACCATAGATGTGTATAGGACAACA 59.438 37.037 0.00 0.00 40.66 3.33
7126 7336 7.948357 TGTACCATAGATGTGTATAGGACAAC 58.052 38.462 0.00 0.00 40.66 3.32
7127 7337 8.541899 TTGTACCATAGATGTGTATAGGACAA 57.458 34.615 0.00 0.00 40.66 3.18
7128 7338 8.541899 TTTGTACCATAGATGTGTATAGGACA 57.458 34.615 0.00 0.00 34.94 4.02
7129 7339 8.857098 TCTTTGTACCATAGATGTGTATAGGAC 58.143 37.037 0.00 0.00 0.00 3.85
7130 7340 9.429109 TTCTTTGTACCATAGATGTGTATAGGA 57.571 33.333 0.00 0.00 0.00 2.94
7131 7341 9.698309 CTTCTTTGTACCATAGATGTGTATAGG 57.302 37.037 0.00 0.00 0.00 2.57
7134 7344 7.928706 GCTCTTCTTTGTACCATAGATGTGTAT 59.071 37.037 0.00 0.00 0.00 2.29
7135 7345 7.124298 AGCTCTTCTTTGTACCATAGATGTGTA 59.876 37.037 0.00 0.00 0.00 2.90
7136 7346 6.070538 AGCTCTTCTTTGTACCATAGATGTGT 60.071 38.462 0.00 0.00 0.00 3.72
7421 7633 4.994852 TCTTGCCACACACTTAACTATGTC 59.005 41.667 0.00 0.00 0.00 3.06
7488 7701 4.517832 GGTTAGTTCAACTTGGGGTTACAG 59.482 45.833 0.00 0.00 37.30 2.74
7500 7713 8.870879 GTTACTACTCATGATGGTTAGTTCAAC 58.129 37.037 10.69 7.66 36.32 3.18
7522 7735 7.035840 TCTACCGAGAAACCATATCAGTTAC 57.964 40.000 0.00 0.00 0.00 2.50
7523 7736 7.649533 TTCTACCGAGAAACCATATCAGTTA 57.350 36.000 0.00 0.00 38.80 2.24
7541 7754 6.547510 ACCAGCCAAATATCTTCAATTCTACC 59.452 38.462 0.00 0.00 0.00 3.18
7548 7761 3.696051 GCTCACCAGCCAAATATCTTCAA 59.304 43.478 0.00 0.00 40.14 2.69
7678 7891 9.828691 TGATCAAAGAGACCCTATAGAATATCA 57.171 33.333 0.00 0.00 0.00 2.15
7682 7895 9.836179 AGTATGATCAAAGAGACCCTATAGAAT 57.164 33.333 0.00 0.00 0.00 2.40
7684 7897 9.742144 GTAGTATGATCAAAGAGACCCTATAGA 57.258 37.037 0.00 0.00 0.00 1.98
7685 7898 9.521841 TGTAGTATGATCAAAGAGACCCTATAG 57.478 37.037 0.00 0.00 0.00 1.31
7687 7900 8.964533 ATGTAGTATGATCAAAGAGACCCTAT 57.035 34.615 0.00 0.00 0.00 2.57
7688 7901 8.783660 AATGTAGTATGATCAAAGAGACCCTA 57.216 34.615 0.00 0.00 0.00 3.53
7689 7902 7.566879 AGAATGTAGTATGATCAAAGAGACCCT 59.433 37.037 0.00 0.00 0.00 4.34
7690 7903 7.731054 AGAATGTAGTATGATCAAAGAGACCC 58.269 38.462 0.00 0.00 0.00 4.46
7721 7934 7.633789 AGGATGATTGAGAAGCTTTTTAGGTA 58.366 34.615 0.00 0.00 0.00 3.08
7723 7936 6.827762 AGAGGATGATTGAGAAGCTTTTTAGG 59.172 38.462 0.00 0.00 0.00 2.69
7724 7937 7.862512 AGAGGATGATTGAGAAGCTTTTTAG 57.137 36.000 0.00 0.00 0.00 1.85
7725 7938 7.884877 TGAAGAGGATGATTGAGAAGCTTTTTA 59.115 33.333 0.00 0.00 0.00 1.52
7726 7939 6.718454 TGAAGAGGATGATTGAGAAGCTTTTT 59.282 34.615 0.00 0.00 0.00 1.94
7727 7940 6.243900 TGAAGAGGATGATTGAGAAGCTTTT 58.756 36.000 0.00 0.00 0.00 2.27
7728 7941 5.813383 TGAAGAGGATGATTGAGAAGCTTT 58.187 37.500 0.00 0.00 0.00 3.51
7729 7942 5.432680 TGAAGAGGATGATTGAGAAGCTT 57.567 39.130 0.00 0.00 0.00 3.74
7730 7943 5.184711 GTTGAAGAGGATGATTGAGAAGCT 58.815 41.667 0.00 0.00 0.00 3.74
7731 7944 4.335037 GGTTGAAGAGGATGATTGAGAAGC 59.665 45.833 0.00 0.00 0.00 3.86
7732 7945 5.743117 AGGTTGAAGAGGATGATTGAGAAG 58.257 41.667 0.00 0.00 0.00 2.85
7733 7946 5.486775 AGAGGTTGAAGAGGATGATTGAGAA 59.513 40.000 0.00 0.00 0.00 2.87
7734 7947 5.028802 AGAGGTTGAAGAGGATGATTGAGA 58.971 41.667 0.00 0.00 0.00 3.27
7735 7948 5.356291 AGAGGTTGAAGAGGATGATTGAG 57.644 43.478 0.00 0.00 0.00 3.02
7944 8162 3.511540 GCCAGGGGATGCCTTATAAAATC 59.488 47.826 2.19 0.00 0.00 2.17
7951 8169 1.214305 AACTGCCAGGGGATGCCTTA 61.214 55.000 2.19 0.00 0.00 2.69
7997 8215 0.036671 CGGTGTCTGGTTAGGGTTCC 60.037 60.000 0.00 0.00 0.00 3.62
8007 8225 0.750546 TATCGAGTCCCGGTGTCTGG 60.751 60.000 0.00 0.00 39.14 3.86
8011 8229 0.533951 GGTTTATCGAGTCCCGGTGT 59.466 55.000 0.00 0.00 39.14 4.16
8025 8243 1.819903 GGCCAATTAGCGGTTGGTTTA 59.180 47.619 15.85 0.00 46.21 2.01


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

AutoCloner maintained by Alex Coulton.