Multiple sequence alignment - TraesCS1B01G213600

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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 TraesCS1B01G213600 chr1B 100.000 3999 0 0 1 3999 388007684 388011682 0.000000e+00 7385.0
1 TraesCS1B01G213600 chr1A 93.224 3424 141 47 150 3531 357061686 357065060 0.000000e+00 4953.0
2 TraesCS1B01G213600 chr1A 95.550 382 13 2 3618 3999 357065266 357065643 3.420000e-170 608.0
3 TraesCS1B01G213600 chr1A 90.265 113 8 1 3530 3642 357065141 357065250 1.160000e-30 145.0
4 TraesCS1B01G213600 chr1D 94.901 2687 86 24 864 3531 285441773 285444427 0.000000e+00 4156.0
5 TraesCS1B01G213600 chr1D 90.505 653 36 14 178 819 285441123 285441760 0.000000e+00 839.0
6 TraesCS1B01G213600 chr1D 91.241 411 26 4 3592 3999 285444543 285444946 5.840000e-153 551.0
7 TraesCS1B01G213600 chr1D 88.889 45 5 0 3598 3642 285444464 285444508 5.580000e-04 56.5
8 TraesCS1B01G213600 chr5B 90.210 429 21 12 2249 2665 545197223 545197642 1.260000e-149 540.0
9 TraesCS1B01G213600 chr3B 89.352 432 25 11 2249 2668 61688217 61687795 1.270000e-144 523.0
10 TraesCS1B01G213600 chr4D 91.026 78 7 0 1697 1774 70119518 70119595 5.470000e-19 106.0
11 TraesCS1B01G213600 chr4B 91.026 78 7 0 1697 1774 103773378 103773455 5.470000e-19 106.0
12 TraesCS1B01G213600 chr4A 91.026 78 7 0 1697 1774 522294550 522294627 5.470000e-19 106.0
13 TraesCS1B01G213600 chr2D 77.564 156 30 4 1502 1656 509941945 509942096 5.500000e-14 89.8
14 TraesCS1B01G213600 chr2A 77.564 156 30 4 1502 1656 653678188 653678339 5.500000e-14 89.8
15 TraesCS1B01G213600 chr6B 79.000 100 17 3 1 98 279598613 279598516 9.280000e-07 65.8


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 TraesCS1B01G213600 chr1B 388007684 388011682 3998 False 7385.000 7385 100.000 1 3999 1 chr1B.!!$F1 3998
1 TraesCS1B01G213600 chr1A 357061686 357065643 3957 False 1902.000 4953 93.013 150 3999 3 chr1A.!!$F1 3849
2 TraesCS1B01G213600 chr1D 285441123 285444946 3823 False 1400.625 4156 91.384 178 3999 4 chr1D.!!$F1 3821

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
60 61 0.246635 ACATACGGAGCAAAGCGAGT 59.753 50.000 0.00 0.0 0.00 4.18 F
63 64 0.315886 TACGGAGCAAAGCGAGTGAA 59.684 50.000 0.00 0.0 0.00 3.18 F
64 65 0.320771 ACGGAGCAAAGCGAGTGAAT 60.321 50.000 0.00 0.0 0.00 2.57 F
65 66 0.371645 CGGAGCAAAGCGAGTGAATC 59.628 55.000 0.00 0.0 0.00 2.52 F
448 457 0.604073 TGCCTAACCGTCGTCAATGA 59.396 50.000 0.00 0.0 0.00 2.57 F
777 802 1.370064 CTCCCTGGTTCCGTTCGTT 59.630 57.895 0.00 0.0 0.00 3.85 F
2721 2769 0.815734 ATGTGCTGCAGAATCTTGCC 59.184 50.000 20.43 0.0 43.43 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1329 1365 0.246635 TGAAGCTGAGCCGGTAGTTC 59.753 55.000 1.90 0.0 0.00 3.01 R
1881 1917 1.070445 CACCCGCTGGATCTCCATC 59.930 63.158 0.00 0.0 46.46 3.51 R
2067 2103 1.003233 GAGGGACTTCTGCCACACC 60.003 63.158 0.00 0.0 41.55 4.16 R
2536 2572 3.788227 TGCAGTTGGAAGAGGTAATGT 57.212 42.857 0.00 0.0 0.00 2.71 R
2715 2763 0.254462 TGAATATGTGGGCGGCAAGA 59.746 50.000 12.47 0.0 0.00 3.02 R
2770 2819 0.464916 TCTCGCATCTGCAATGCCAT 60.465 50.000 20.70 0.0 41.71 4.40 R
3662 3881 0.035056 ATGAAGGGAAAGCCACTCCG 60.035 55.000 0.00 0.0 33.36 4.63 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
48 49 7.658179 AGATTTCACTATGCATTACATACGG 57.342 36.000 3.54 0.00 40.38 4.02
49 50 7.441836 AGATTTCACTATGCATTACATACGGA 58.558 34.615 3.54 0.00 40.38 4.69
50 51 7.600375 AGATTTCACTATGCATTACATACGGAG 59.400 37.037 3.54 0.00 40.38 4.63
51 52 4.556233 TCACTATGCATTACATACGGAGC 58.444 43.478 3.54 0.00 40.38 4.70
52 53 4.038642 TCACTATGCATTACATACGGAGCA 59.961 41.667 3.54 0.00 40.38 4.26
53 54 4.749598 CACTATGCATTACATACGGAGCAA 59.250 41.667 3.54 0.00 40.38 3.91
54 55 5.236263 CACTATGCATTACATACGGAGCAAA 59.764 40.000 3.54 0.00 40.38 3.68
55 56 4.818534 ATGCATTACATACGGAGCAAAG 57.181 40.909 0.00 0.00 37.17 2.77
56 57 2.354510 TGCATTACATACGGAGCAAAGC 59.645 45.455 0.00 0.00 0.00 3.51
57 58 2.599848 GCATTACATACGGAGCAAAGCG 60.600 50.000 0.00 0.00 0.00 4.68
58 59 2.658373 TTACATACGGAGCAAAGCGA 57.342 45.000 0.00 0.00 0.00 4.93
59 60 2.203800 TACATACGGAGCAAAGCGAG 57.796 50.000 0.00 0.00 0.00 5.03
60 61 0.246635 ACATACGGAGCAAAGCGAGT 59.753 50.000 0.00 0.00 0.00 4.18
61 62 0.647410 CATACGGAGCAAAGCGAGTG 59.353 55.000 0.00 0.00 0.00 3.51
62 63 0.530744 ATACGGAGCAAAGCGAGTGA 59.469 50.000 0.00 0.00 0.00 3.41
63 64 0.315886 TACGGAGCAAAGCGAGTGAA 59.684 50.000 0.00 0.00 0.00 3.18
64 65 0.320771 ACGGAGCAAAGCGAGTGAAT 60.321 50.000 0.00 0.00 0.00 2.57
65 66 0.371645 CGGAGCAAAGCGAGTGAATC 59.628 55.000 0.00 0.00 0.00 2.52
66 67 1.731720 GGAGCAAAGCGAGTGAATCT 58.268 50.000 0.00 0.00 0.00 2.40
67 68 2.735444 CGGAGCAAAGCGAGTGAATCTA 60.735 50.000 0.00 0.00 0.00 1.98
68 69 2.605366 GGAGCAAAGCGAGTGAATCTAC 59.395 50.000 0.00 0.00 0.00 2.59
69 70 3.516615 GAGCAAAGCGAGTGAATCTACT 58.483 45.455 0.00 0.00 0.00 2.57
70 71 4.440250 GGAGCAAAGCGAGTGAATCTACTA 60.440 45.833 0.00 0.00 0.00 1.82
71 72 5.073311 AGCAAAGCGAGTGAATCTACTAA 57.927 39.130 0.00 0.00 0.00 2.24
72 73 5.479306 AGCAAAGCGAGTGAATCTACTAAA 58.521 37.500 0.00 0.00 0.00 1.85
73 74 5.932303 AGCAAAGCGAGTGAATCTACTAAAA 59.068 36.000 0.00 0.00 0.00 1.52
74 75 6.595716 AGCAAAGCGAGTGAATCTACTAAAAT 59.404 34.615 0.00 0.00 0.00 1.82
75 76 7.764443 AGCAAAGCGAGTGAATCTACTAAAATA 59.236 33.333 0.00 0.00 0.00 1.40
76 77 7.846592 GCAAAGCGAGTGAATCTACTAAAATAC 59.153 37.037 0.00 0.00 0.00 1.89
77 78 8.869897 CAAAGCGAGTGAATCTACTAAAATACA 58.130 33.333 0.00 0.00 0.00 2.29
78 79 9.601217 AAAGCGAGTGAATCTACTAAAATACAT 57.399 29.630 0.00 0.00 0.00 2.29
101 102 8.890718 ACATATGTCTATATACATTCGTAGCGT 58.109 33.333 8.84 0.00 40.52 5.07
104 105 7.895975 TGTCTATATACATTCGTAGCGTAGT 57.104 36.000 0.00 0.00 0.00 2.73
105 106 7.957615 TGTCTATATACATTCGTAGCGTAGTC 58.042 38.462 0.00 0.00 0.00 2.59
106 107 7.063898 TGTCTATATACATTCGTAGCGTAGTCC 59.936 40.741 0.00 0.00 0.00 3.85
107 108 7.063898 GTCTATATACATTCGTAGCGTAGTCCA 59.936 40.741 0.00 0.00 0.00 4.02
108 109 6.754702 ATATACATTCGTAGCGTAGTCCAT 57.245 37.500 0.00 0.00 0.00 3.41
109 110 7.854557 ATATACATTCGTAGCGTAGTCCATA 57.145 36.000 0.00 0.00 0.00 2.74
110 111 4.906065 ACATTCGTAGCGTAGTCCATAA 57.094 40.909 0.00 0.00 0.00 1.90
111 112 5.449107 ACATTCGTAGCGTAGTCCATAAT 57.551 39.130 0.00 0.00 0.00 1.28
112 113 5.220381 ACATTCGTAGCGTAGTCCATAATG 58.780 41.667 0.00 0.00 0.00 1.90
113 114 5.009310 ACATTCGTAGCGTAGTCCATAATGA 59.991 40.000 0.00 0.00 0.00 2.57
114 115 5.503662 TTCGTAGCGTAGTCCATAATGAA 57.496 39.130 0.00 0.00 0.00 2.57
115 116 5.503662 TCGTAGCGTAGTCCATAATGAAA 57.496 39.130 0.00 0.00 0.00 2.69
116 117 6.080648 TCGTAGCGTAGTCCATAATGAAAT 57.919 37.500 0.00 0.00 0.00 2.17
117 118 6.147581 TCGTAGCGTAGTCCATAATGAAATC 58.852 40.000 0.00 0.00 0.00 2.17
118 119 6.016527 TCGTAGCGTAGTCCATAATGAAATCT 60.017 38.462 0.00 0.00 0.00 2.40
119 120 6.088217 CGTAGCGTAGTCCATAATGAAATCTG 59.912 42.308 0.00 0.00 0.00 2.90
120 121 5.300752 AGCGTAGTCCATAATGAAATCTGG 58.699 41.667 0.00 0.00 32.04 3.86
121 122 5.057149 GCGTAGTCCATAATGAAATCTGGT 58.943 41.667 0.00 0.00 32.50 4.00
122 123 5.527582 GCGTAGTCCATAATGAAATCTGGTT 59.472 40.000 0.00 0.00 32.50 3.67
123 124 6.038271 GCGTAGTCCATAATGAAATCTGGTTT 59.962 38.462 0.00 0.00 32.50 3.27
124 125 7.415206 GCGTAGTCCATAATGAAATCTGGTTTT 60.415 37.037 0.00 0.00 32.50 2.43
125 126 9.104965 CGTAGTCCATAATGAAATCTGGTTTTA 57.895 33.333 0.00 0.00 32.50 1.52
138 139 9.503427 GAAATCTGGTTTTATATCTTGAAACGG 57.497 33.333 0.00 0.00 34.85 4.44
139 140 8.801882 AATCTGGTTTTATATCTTGAAACGGA 57.198 30.769 0.00 0.00 34.85 4.69
140 141 7.843490 TCTGGTTTTATATCTTGAAACGGAG 57.157 36.000 0.00 0.00 34.85 4.63
141 142 6.821665 TCTGGTTTTATATCTTGAAACGGAGG 59.178 38.462 0.00 0.00 34.85 4.30
142 143 5.883673 TGGTTTTATATCTTGAAACGGAGGG 59.116 40.000 0.00 0.00 34.85 4.30
143 144 6.117488 GGTTTTATATCTTGAAACGGAGGGA 58.883 40.000 0.00 0.00 34.85 4.20
144 145 6.600427 GGTTTTATATCTTGAAACGGAGGGAA 59.400 38.462 0.00 0.00 34.85 3.97
145 146 7.284716 GGTTTTATATCTTGAAACGGAGGGAAT 59.715 37.037 0.00 0.00 34.85 3.01
146 147 9.333724 GTTTTATATCTTGAAACGGAGGGAATA 57.666 33.333 0.00 0.00 0.00 1.75
147 148 8.897872 TTTATATCTTGAAACGGAGGGAATAC 57.102 34.615 0.00 0.00 0.00 1.89
148 149 3.241067 TCTTGAAACGGAGGGAATACG 57.759 47.619 0.00 0.00 42.79 3.06
154 155 1.008079 CGGAGGGAATACGTACCGC 60.008 63.158 7.06 6.47 34.36 5.68
183 184 2.770447 TGGGCATCCACTATTCCACTA 58.230 47.619 0.00 0.00 38.32 2.74
184 185 2.705658 TGGGCATCCACTATTCCACTAG 59.294 50.000 0.00 0.00 38.32 2.57
187 188 3.244249 GGCATCCACTATTCCACTAGTCC 60.244 52.174 0.00 0.00 29.41 3.85
203 204 3.374220 AGTCCGTTGACGTTGAACATA 57.626 42.857 10.83 0.00 46.51 2.29
206 207 3.054166 TCCGTTGACGTTGAACATACAG 58.946 45.455 10.83 0.00 37.74 2.74
213 214 4.454161 TGACGTTGAACATACAGGGAAATG 59.546 41.667 0.00 0.00 0.00 2.32
224 225 6.825721 ACATACAGGGAAATGAGTCAATCTTC 59.174 38.462 0.00 0.73 0.00 2.87
275 277 4.989279 AAGCATGTGACTTGTTTTCACT 57.011 36.364 4.27 0.00 43.30 3.41
276 278 7.744087 ATAAGCATGTGACTTGTTTTCACTA 57.256 32.000 5.94 0.00 43.30 2.74
293 295 6.373186 TTCACTAGATGTACCTACATGACG 57.627 41.667 0.00 0.00 46.20 4.35
306 308 5.065988 ACCTACATGACGGTAAATCATTTGC 59.934 40.000 0.00 0.00 34.49 3.68
312 314 8.196771 ACATGACGGTAAATCATTTGCAATTAT 58.803 29.630 0.00 0.00 34.49 1.28
313 315 9.033481 CATGACGGTAAATCATTTGCAATTATT 57.967 29.630 0.00 0.00 34.49 1.40
314 316 8.404889 TGACGGTAAATCATTTGCAATTATTG 57.595 30.769 0.00 0.00 0.00 1.90
315 317 8.246871 TGACGGTAAATCATTTGCAATTATTGA 58.753 29.630 9.36 2.15 0.00 2.57
317 319 9.033481 ACGGTAAATCATTTGCAATTATTGATG 57.967 29.630 9.36 0.00 0.00 3.07
368 375 5.746721 GCGTTTCCAATTAACCCATGATAAC 59.253 40.000 0.00 0.00 0.00 1.89
448 457 0.604073 TGCCTAACCGTCGTCAATGA 59.396 50.000 0.00 0.00 0.00 2.57
540 552 2.036733 CCATAATTGCCTGCCCAATCAG 59.963 50.000 0.00 0.00 34.50 2.90
599 611 6.474140 TGTTTAGGCGTGATAATCCTTCTA 57.526 37.500 0.00 0.00 0.00 2.10
600 612 7.062749 TGTTTAGGCGTGATAATCCTTCTAT 57.937 36.000 0.00 0.00 0.00 1.98
678 699 4.292178 CCGAGAGCCGATCAGCCC 62.292 72.222 0.00 0.00 41.76 5.19
701 722 1.821332 GCATCTGCCTTCCTTCCCG 60.821 63.158 0.00 0.00 34.31 5.14
727 748 2.422479 GCAGCTATATATCGACCGACCA 59.578 50.000 0.00 0.00 0.00 4.02
774 799 1.376037 CTGCTCCCTGGTTCCGTTC 60.376 63.158 0.00 0.00 0.00 3.95
775 800 2.434359 GCTCCCTGGTTCCGTTCG 60.434 66.667 0.00 0.00 0.00 3.95
776 801 3.057337 CTCCCTGGTTCCGTTCGT 58.943 61.111 0.00 0.00 0.00 3.85
777 802 1.370064 CTCCCTGGTTCCGTTCGTT 59.630 57.895 0.00 0.00 0.00 3.85
799 824 4.935352 TGGTTCCAAACTTCCAATTCAG 57.065 40.909 0.00 0.00 0.00 3.02
820 846 3.140623 GCCCAAAGGTACGTCTTTTGTA 58.859 45.455 15.77 0.00 40.15 2.41
821 847 3.187842 GCCCAAAGGTACGTCTTTTGTAG 59.812 47.826 15.77 10.71 40.15 2.74
823 849 5.540911 CCCAAAGGTACGTCTTTTGTAGTA 58.459 41.667 15.77 0.00 40.15 1.82
824 850 5.636543 CCCAAAGGTACGTCTTTTGTAGTAG 59.363 44.000 15.77 5.84 40.15 2.57
826 852 7.370383 CCAAAGGTACGTCTTTTGTAGTAGTA 58.630 38.462 15.77 0.00 40.15 1.82
827 853 8.031277 CCAAAGGTACGTCTTTTGTAGTAGTAT 58.969 37.037 15.77 0.00 40.15 2.12
831 857 9.672673 AGGTACGTCTTTTGTAGTAGTATAAGA 57.327 33.333 0.00 0.00 0.00 2.10
832 858 9.928236 GGTACGTCTTTTGTAGTAGTATAAGAG 57.072 37.037 0.00 0.00 0.00 2.85
846 872 9.562408 AGTAGTATAAGAGAGATTTCATCGTCA 57.438 33.333 0.00 0.00 0.00 4.35
849 875 9.906660 AGTATAAGAGAGATTTCATCGTCAATC 57.093 33.333 0.00 0.00 0.00 2.67
850 876 9.906660 GTATAAGAGAGATTTCATCGTCAATCT 57.093 33.333 0.00 0.00 41.54 2.40
852 878 7.769272 AAGAGAGATTTCATCGTCAATCTTC 57.231 36.000 0.00 0.00 39.41 2.87
853 879 6.871844 AGAGAGATTTCATCGTCAATCTTCA 58.128 36.000 0.00 0.00 39.41 3.02
854 880 6.979817 AGAGAGATTTCATCGTCAATCTTCAG 59.020 38.462 0.00 0.00 39.41 3.02
855 881 6.047870 AGAGATTTCATCGTCAATCTTCAGG 58.952 40.000 0.00 0.00 39.41 3.86
856 882 5.738909 AGATTTCATCGTCAATCTTCAGGT 58.261 37.500 0.00 0.00 36.51 4.00
857 883 6.878317 AGATTTCATCGTCAATCTTCAGGTA 58.122 36.000 0.00 0.00 36.51 3.08
858 884 7.504403 AGATTTCATCGTCAATCTTCAGGTAT 58.496 34.615 0.00 0.00 36.51 2.73
859 885 7.655328 AGATTTCATCGTCAATCTTCAGGTATC 59.345 37.037 0.00 0.00 36.51 2.24
860 886 5.201713 TCATCGTCAATCTTCAGGTATCC 57.798 43.478 0.00 0.00 0.00 2.59
861 887 4.895889 TCATCGTCAATCTTCAGGTATCCT 59.104 41.667 0.00 0.00 0.00 3.24
862 888 4.920640 TCGTCAATCTTCAGGTATCCTC 57.079 45.455 0.00 0.00 0.00 3.71
1122 1158 1.592669 CTTCTACCTCGGCGGCATG 60.593 63.158 10.53 0.00 35.61 4.06
1278 1314 2.685017 TCAGAGTGCCCCGCTGAT 60.685 61.111 3.35 0.00 43.91 2.90
1329 1365 3.528370 CGCTGGAGGAGGTACGGG 61.528 72.222 0.00 0.00 0.00 5.28
1734 1770 3.637273 AGGGACAACCACGAGGCC 61.637 66.667 0.00 0.00 43.89 5.19
1929 1965 2.125350 GGCTTCTGGGTGCTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
1992 2028 3.936203 ACGGTGGAGGCGCAGAAA 61.936 61.111 10.83 0.00 0.00 2.52
2566 2605 2.110967 CCAACTGCATCCTGCTCGG 61.111 63.158 0.34 0.00 45.31 4.63
2568 2607 3.258228 AACTGCATCCTGCTCGGCA 62.258 57.895 0.34 0.00 45.31 5.69
2584 2632 1.609208 GGCACTCTGTTCCACATTGT 58.391 50.000 0.00 0.00 0.00 2.71
2599 2647 7.959658 TCCACATTGTCAGAATGGAATTAAT 57.040 32.000 0.00 0.00 36.07 1.40
2711 2759 3.009026 CACAGGTATGTAATGTGCTGCA 58.991 45.455 0.00 0.00 37.65 4.41
2712 2760 3.064408 CACAGGTATGTAATGTGCTGCAG 59.936 47.826 10.11 10.11 37.65 4.41
2713 2761 3.055167 ACAGGTATGTAATGTGCTGCAGA 60.055 43.478 20.43 0.69 38.09 4.26
2714 2762 3.940852 CAGGTATGTAATGTGCTGCAGAA 59.059 43.478 20.43 2.96 0.00 3.02
2715 2763 4.577693 CAGGTATGTAATGTGCTGCAGAAT 59.422 41.667 20.43 4.38 0.00 2.40
2716 2764 4.818546 AGGTATGTAATGTGCTGCAGAATC 59.181 41.667 20.43 7.09 0.00 2.52
2717 2765 4.818546 GGTATGTAATGTGCTGCAGAATCT 59.181 41.667 20.43 0.00 0.00 2.40
2718 2766 5.297776 GGTATGTAATGTGCTGCAGAATCTT 59.702 40.000 20.43 7.43 0.00 2.40
2719 2767 4.690184 TGTAATGTGCTGCAGAATCTTG 57.310 40.909 20.43 0.00 0.00 3.02
2720 2768 2.649331 AATGTGCTGCAGAATCTTGC 57.351 45.000 20.43 0.39 44.33 4.01
2721 2769 0.815734 ATGTGCTGCAGAATCTTGCC 59.184 50.000 20.43 0.00 43.43 4.52
2737 2785 2.555547 GCCGCCCACATATTCAGCC 61.556 63.158 0.00 0.00 0.00 4.85
2770 2819 2.811431 CAAGTTGCTAACCGATTGTCCA 59.189 45.455 0.00 0.00 0.00 4.02
2794 2843 2.223409 GCATTGCAGATGCGAGATGAAA 60.223 45.455 14.98 0.00 45.83 2.69
3043 3092 2.954318 CAGGAATTGACCATGATCCCAC 59.046 50.000 0.00 0.00 0.00 4.61
3114 3164 7.489160 GGGGGTTCATAGTCATCAAAATAAAC 58.511 38.462 0.00 0.00 0.00 2.01
3215 3267 5.979517 AGTTGATTCTTTTTCTTTGCGGAAG 59.020 36.000 0.00 0.00 36.67 3.46
3216 3268 5.766150 TGATTCTTTTTCTTTGCGGAAGA 57.234 34.783 0.00 0.00 42.56 2.87
3415 3467 1.088340 CCCAGAGCAGCGATGAGTTG 61.088 60.000 4.02 0.00 0.00 3.16
3432 3484 1.201181 GTTGGTTGTGTGTTGCTGTCA 59.799 47.619 0.00 0.00 0.00 3.58
3470 3522 1.064003 AGCCAATGTGTACCTCACCA 58.936 50.000 0.00 0.00 45.61 4.17
3471 3523 1.165270 GCCAATGTGTACCTCACCAC 58.835 55.000 0.00 0.00 45.61 4.16
3472 3524 1.544537 GCCAATGTGTACCTCACCACA 60.545 52.381 0.00 0.00 45.61 4.17
3473 3525 2.151202 CCAATGTGTACCTCACCACAC 58.849 52.381 0.00 0.00 43.75 3.82
3474 3526 2.151202 CAATGTGTACCTCACCACACC 58.849 52.381 2.69 0.00 43.75 4.16
3505 3558 6.704310 TCTTTGTTTTCTAGTTATACCGCCT 58.296 36.000 0.00 0.00 0.00 5.52
3509 3562 5.870978 TGTTTTCTAGTTATACCGCCTTGTC 59.129 40.000 0.00 0.00 0.00 3.18
3516 3569 5.416947 AGTTATACCGCCTTGTCTTTGTAG 58.583 41.667 0.00 0.00 0.00 2.74
3531 3584 0.033920 TGTAGCACTGACACTGCAGG 59.966 55.000 19.93 9.66 40.20 4.85
3572 3707 4.508971 CACATCACGCTCGATTTGATTAC 58.491 43.478 0.00 0.00 0.00 1.89
3573 3708 4.032786 CACATCACGCTCGATTTGATTACA 59.967 41.667 0.00 0.00 0.00 2.41
3574 3709 4.629634 ACATCACGCTCGATTTGATTACAA 59.370 37.500 0.00 0.00 0.00 2.41
3627 3846 4.876679 TGCATTGCATAATTGACCAAATGG 59.123 37.500 7.38 0.00 35.70 3.16
3630 3849 4.126208 TGCATAATTGACCAAATGGCTG 57.874 40.909 0.00 0.00 39.32 4.85
3673 3894 2.597510 GTTGGGCGGAGTGGCTTT 60.598 61.111 0.00 0.00 44.11 3.51
3674 3895 2.282180 TTGGGCGGAGTGGCTTTC 60.282 61.111 0.00 0.00 44.11 2.62
3725 3946 1.637402 GTCTACCGTCTCGCTCTCG 59.363 63.158 0.00 0.00 0.00 4.04
3828 4052 1.748122 GTCTCCCATGCTGCTGGTG 60.748 63.158 14.25 7.82 34.23 4.17
3963 4187 1.153628 GACCGGTGATTGACCCTCG 60.154 63.158 14.63 0.00 42.62 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 8.559536 CCGTATGTAATGCATAGTGAAATCTTT 58.440 33.333 0.00 0.00 40.42 2.52
23 24 7.931407 TCCGTATGTAATGCATAGTGAAATCTT 59.069 33.333 0.00 0.00 40.42 2.40
24 25 7.441836 TCCGTATGTAATGCATAGTGAAATCT 58.558 34.615 0.00 0.00 40.42 2.40
25 26 7.622256 GCTCCGTATGTAATGCATAGTGAAATC 60.622 40.741 0.00 0.00 40.42 2.17
26 27 6.147821 GCTCCGTATGTAATGCATAGTGAAAT 59.852 38.462 0.00 0.00 40.42 2.17
27 28 5.465390 GCTCCGTATGTAATGCATAGTGAAA 59.535 40.000 0.00 0.00 40.42 2.69
28 29 4.988540 GCTCCGTATGTAATGCATAGTGAA 59.011 41.667 0.00 0.00 40.42 3.18
29 30 4.038642 TGCTCCGTATGTAATGCATAGTGA 59.961 41.667 0.00 0.00 40.42 3.41
30 31 4.306600 TGCTCCGTATGTAATGCATAGTG 58.693 43.478 0.00 0.00 40.42 2.74
31 32 4.600692 TGCTCCGTATGTAATGCATAGT 57.399 40.909 0.00 0.00 40.42 2.12
32 33 5.615544 GCTTTGCTCCGTATGTAATGCATAG 60.616 44.000 0.00 0.00 40.42 2.23
33 34 4.213270 GCTTTGCTCCGTATGTAATGCATA 59.787 41.667 0.00 0.00 38.94 3.14
34 35 3.003689 GCTTTGCTCCGTATGTAATGCAT 59.996 43.478 0.00 0.00 41.42 3.96
35 36 2.354510 GCTTTGCTCCGTATGTAATGCA 59.645 45.455 0.00 0.00 33.13 3.96
36 37 2.599848 CGCTTTGCTCCGTATGTAATGC 60.600 50.000 0.00 0.00 0.00 3.56
37 38 2.863740 TCGCTTTGCTCCGTATGTAATG 59.136 45.455 0.00 0.00 0.00 1.90
38 39 3.123804 CTCGCTTTGCTCCGTATGTAAT 58.876 45.455 0.00 0.00 0.00 1.89
39 40 2.094390 ACTCGCTTTGCTCCGTATGTAA 60.094 45.455 0.00 0.00 0.00 2.41
40 41 1.475280 ACTCGCTTTGCTCCGTATGTA 59.525 47.619 0.00 0.00 0.00 2.29
41 42 0.246635 ACTCGCTTTGCTCCGTATGT 59.753 50.000 0.00 0.00 0.00 2.29
42 43 0.647410 CACTCGCTTTGCTCCGTATG 59.353 55.000 0.00 0.00 0.00 2.39
43 44 0.530744 TCACTCGCTTTGCTCCGTAT 59.469 50.000 0.00 0.00 0.00 3.06
44 45 0.315886 TTCACTCGCTTTGCTCCGTA 59.684 50.000 0.00 0.00 0.00 4.02
45 46 0.320771 ATTCACTCGCTTTGCTCCGT 60.321 50.000 0.00 0.00 0.00 4.69
46 47 0.371645 GATTCACTCGCTTTGCTCCG 59.628 55.000 0.00 0.00 0.00 4.63
47 48 1.731720 AGATTCACTCGCTTTGCTCC 58.268 50.000 0.00 0.00 0.00 4.70
48 49 3.516615 AGTAGATTCACTCGCTTTGCTC 58.483 45.455 0.00 0.00 0.00 4.26
49 50 3.601443 AGTAGATTCACTCGCTTTGCT 57.399 42.857 0.00 0.00 0.00 3.91
50 51 5.779806 TTTAGTAGATTCACTCGCTTTGC 57.220 39.130 0.00 0.00 0.00 3.68
51 52 8.869897 TGTATTTTAGTAGATTCACTCGCTTTG 58.130 33.333 0.00 0.00 0.00 2.77
52 53 8.997621 TGTATTTTAGTAGATTCACTCGCTTT 57.002 30.769 0.00 0.00 0.00 3.51
75 76 8.890718 ACGCTACGAATGTATATAGACATATGT 58.109 33.333 13.17 8.43 39.16 2.29
78 79 9.591792 ACTACGCTACGAATGTATATAGACATA 57.408 33.333 13.17 0.00 39.16 2.29
79 80 8.489990 ACTACGCTACGAATGTATATAGACAT 57.510 34.615 7.18 7.18 41.92 3.06
80 81 7.063898 GGACTACGCTACGAATGTATATAGACA 59.936 40.741 2.07 2.07 0.00 3.41
81 82 7.063898 TGGACTACGCTACGAATGTATATAGAC 59.936 40.741 0.00 0.00 0.00 2.59
82 83 7.099120 TGGACTACGCTACGAATGTATATAGA 58.901 38.462 0.00 0.00 0.00 1.98
83 84 7.299787 TGGACTACGCTACGAATGTATATAG 57.700 40.000 0.00 0.00 0.00 1.31
84 85 7.854557 ATGGACTACGCTACGAATGTATATA 57.145 36.000 0.00 0.00 0.00 0.86
85 86 6.754702 ATGGACTACGCTACGAATGTATAT 57.245 37.500 0.00 0.00 0.00 0.86
86 87 7.671495 TTATGGACTACGCTACGAATGTATA 57.329 36.000 0.00 0.00 0.00 1.47
87 88 6.564709 TTATGGACTACGCTACGAATGTAT 57.435 37.500 0.00 0.00 0.00 2.29
88 89 6.205270 TCATTATGGACTACGCTACGAATGTA 59.795 38.462 0.00 0.00 0.00 2.29
89 90 4.906065 TTATGGACTACGCTACGAATGT 57.094 40.909 0.00 0.00 0.00 2.71
90 91 5.458015 TCATTATGGACTACGCTACGAATG 58.542 41.667 0.00 0.00 0.00 2.67
91 92 5.700722 TCATTATGGACTACGCTACGAAT 57.299 39.130 0.00 0.00 0.00 3.34
92 93 5.503662 TTCATTATGGACTACGCTACGAA 57.496 39.130 0.00 0.00 0.00 3.85
93 94 5.503662 TTTCATTATGGACTACGCTACGA 57.496 39.130 0.00 0.00 0.00 3.43
94 95 6.088217 CAGATTTCATTATGGACTACGCTACG 59.912 42.308 0.00 0.00 0.00 3.51
95 96 6.366332 CCAGATTTCATTATGGACTACGCTAC 59.634 42.308 0.00 0.00 34.60 3.58
96 97 6.041637 ACCAGATTTCATTATGGACTACGCTA 59.958 38.462 0.00 0.00 36.62 4.26
97 98 5.163301 ACCAGATTTCATTATGGACTACGCT 60.163 40.000 0.00 0.00 36.62 5.07
98 99 5.057149 ACCAGATTTCATTATGGACTACGC 58.943 41.667 0.00 0.00 36.62 4.42
99 100 7.553881 AAACCAGATTTCATTATGGACTACG 57.446 36.000 0.00 0.00 36.62 3.51
112 113 9.503427 CCGTTTCAAGATATAAAACCAGATTTC 57.497 33.333 0.00 0.00 30.84 2.17
113 114 9.238368 TCCGTTTCAAGATATAAAACCAGATTT 57.762 29.630 0.00 0.00 30.84 2.17
114 115 8.801882 TCCGTTTCAAGATATAAAACCAGATT 57.198 30.769 0.00 0.00 30.84 2.40
115 116 7.499232 CCTCCGTTTCAAGATATAAAACCAGAT 59.501 37.037 0.00 0.00 30.84 2.90
116 117 6.821665 CCTCCGTTTCAAGATATAAAACCAGA 59.178 38.462 0.00 0.00 30.84 3.86
117 118 6.038271 CCCTCCGTTTCAAGATATAAAACCAG 59.962 42.308 0.00 0.00 30.84 4.00
118 119 5.883673 CCCTCCGTTTCAAGATATAAAACCA 59.116 40.000 0.00 0.00 30.84 3.67
119 120 6.117488 TCCCTCCGTTTCAAGATATAAAACC 58.883 40.000 0.00 0.00 30.84 3.27
120 121 7.619964 TTCCCTCCGTTTCAAGATATAAAAC 57.380 36.000 0.00 0.00 0.00 2.43
121 122 9.333724 GTATTCCCTCCGTTTCAAGATATAAAA 57.666 33.333 0.00 0.00 0.00 1.52
122 123 7.654520 CGTATTCCCTCCGTTTCAAGATATAAA 59.345 37.037 0.00 0.00 0.00 1.40
123 124 7.149973 CGTATTCCCTCCGTTTCAAGATATAA 58.850 38.462 0.00 0.00 0.00 0.98
124 125 6.266103 ACGTATTCCCTCCGTTTCAAGATATA 59.734 38.462 0.00 0.00 0.00 0.86
125 126 5.070047 ACGTATTCCCTCCGTTTCAAGATAT 59.930 40.000 0.00 0.00 0.00 1.63
126 127 4.403432 ACGTATTCCCTCCGTTTCAAGATA 59.597 41.667 0.00 0.00 0.00 1.98
127 128 3.197116 ACGTATTCCCTCCGTTTCAAGAT 59.803 43.478 0.00 0.00 0.00 2.40
128 129 2.564062 ACGTATTCCCTCCGTTTCAAGA 59.436 45.455 0.00 0.00 0.00 3.02
129 130 2.968675 ACGTATTCCCTCCGTTTCAAG 58.031 47.619 0.00 0.00 0.00 3.02
130 131 3.368323 GGTACGTATTCCCTCCGTTTCAA 60.368 47.826 0.00 0.00 36.12 2.69
131 132 2.166254 GGTACGTATTCCCTCCGTTTCA 59.834 50.000 0.00 0.00 36.12 2.69
132 133 2.814269 GGTACGTATTCCCTCCGTTTC 58.186 52.381 0.00 0.00 36.12 2.78
133 134 2.967599 GGTACGTATTCCCTCCGTTT 57.032 50.000 0.00 0.00 36.12 3.60
167 168 3.637229 ACGGACTAGTGGAATAGTGGATG 59.363 47.826 0.00 0.00 36.13 3.51
168 169 3.912248 ACGGACTAGTGGAATAGTGGAT 58.088 45.455 0.00 0.00 36.13 3.41
169 170 3.377253 ACGGACTAGTGGAATAGTGGA 57.623 47.619 0.00 0.00 36.13 4.02
170 171 3.446161 TCAACGGACTAGTGGAATAGTGG 59.554 47.826 0.00 0.00 36.13 4.00
171 172 4.421948 GTCAACGGACTAGTGGAATAGTG 58.578 47.826 0.00 0.00 40.99 2.74
172 173 3.128242 CGTCAACGGACTAGTGGAATAGT 59.872 47.826 0.00 0.00 42.05 2.12
173 174 3.128242 ACGTCAACGGACTAGTGGAATAG 59.872 47.826 0.00 0.00 44.95 1.73
175 176 1.891150 ACGTCAACGGACTAGTGGAAT 59.109 47.619 0.00 0.00 44.95 3.01
176 177 1.321474 ACGTCAACGGACTAGTGGAA 58.679 50.000 0.00 0.00 44.95 3.53
177 178 1.001048 CAACGTCAACGGACTAGTGGA 60.001 52.381 0.00 0.00 44.95 4.02
179 180 2.410785 TCAACGTCAACGGACTAGTG 57.589 50.000 0.00 0.00 44.95 2.74
180 181 2.099592 TGTTCAACGTCAACGGACTAGT 59.900 45.455 7.53 0.00 44.95 2.57
181 182 2.734670 TGTTCAACGTCAACGGACTAG 58.265 47.619 7.53 0.00 44.95 2.57
183 184 2.234300 ATGTTCAACGTCAACGGACT 57.766 45.000 7.53 0.00 44.95 3.85
184 185 2.796031 TGTATGTTCAACGTCAACGGAC 59.204 45.455 7.53 0.00 44.95 4.79
187 188 2.156891 CCCTGTATGTTCAACGTCAACG 59.843 50.000 0.12 0.12 46.33 4.10
203 204 4.256920 CGAAGATTGACTCATTTCCCTGT 58.743 43.478 0.00 0.00 0.00 4.00
206 207 3.009723 TGCGAAGATTGACTCATTTCCC 58.990 45.455 0.00 0.00 0.00 3.97
213 214 4.491602 CGTCTTGATTGCGAAGATTGACTC 60.492 45.833 0.00 0.00 32.18 3.36
224 225 2.718789 CGACTGTTTCGTCTTGATTGCG 60.719 50.000 0.00 0.00 43.24 4.85
253 254 6.989759 TCTAGTGAAAACAAGTCACATGCTTA 59.010 34.615 7.26 0.00 46.44 3.09
275 277 7.503230 TGATTTACCGTCATGTAGGTACATCTA 59.497 37.037 27.81 19.62 44.42 1.98
276 278 6.322969 TGATTTACCGTCATGTAGGTACATCT 59.677 38.462 27.81 14.48 44.42 2.90
306 308 7.437793 ACCCAAAGCAAAACATCAATAATTG 57.562 32.000 0.00 0.00 0.00 2.32
312 314 3.539604 CCAACCCAAAGCAAAACATCAA 58.460 40.909 0.00 0.00 0.00 2.57
313 315 2.744494 GCCAACCCAAAGCAAAACATCA 60.744 45.455 0.00 0.00 0.00 3.07
314 316 1.872952 GCCAACCCAAAGCAAAACATC 59.127 47.619 0.00 0.00 0.00 3.06
315 317 1.476652 GGCCAACCCAAAGCAAAACAT 60.477 47.619 0.00 0.00 0.00 2.71
317 319 1.157257 CGGCCAACCCAAAGCAAAAC 61.157 55.000 2.24 0.00 0.00 2.43
368 375 5.396484 CCTCAATAACAACTGAGTGCATTG 58.604 41.667 0.00 0.00 37.89 2.82
448 457 2.977580 ACTCGGGGAGTTTTAAAGACCT 59.022 45.455 0.00 0.00 40.28 3.85
540 552 0.598065 ACAAACGAGAATTGGCAGGC 59.402 50.000 0.00 0.00 32.02 4.85
623 641 9.890352 GATTTACGTTACTACTCCATTACTAGG 57.110 37.037 0.00 0.00 0.00 3.02
678 699 0.957395 AAGGAAGGCAGATGCGTGTG 60.957 55.000 0.11 0.00 43.26 3.82
701 722 3.304123 CGGTCGATATATAGCTGCTAGCC 60.304 52.174 13.29 0.00 43.77 3.93
727 748 3.512680 GAGGTCTTGAACACGATCGATT 58.487 45.455 24.34 15.41 0.00 3.34
736 757 0.468226 AGGTTGCGAGGTCTTGAACA 59.532 50.000 0.00 0.00 0.00 3.18
737 758 1.149148 GAGGTTGCGAGGTCTTGAAC 58.851 55.000 0.00 0.00 0.00 3.18
776 801 5.669477 CTGAATTGGAAGTTTGGAACCAAA 58.331 37.500 14.02 14.02 43.91 3.28
777 802 4.442753 GCTGAATTGGAAGTTTGGAACCAA 60.443 41.667 1.83 1.83 44.63 3.67
799 824 1.951602 ACAAAAGACGTACCTTTGGGC 59.048 47.619 16.41 0.00 36.57 5.36
820 846 9.562408 TGACGATGAAATCTCTCTTATACTACT 57.438 33.333 0.00 0.00 42.58 2.57
823 849 9.906660 GATTGACGATGAAATCTCTCTTATACT 57.093 33.333 0.00 0.00 42.58 2.12
824 850 9.906660 AGATTGACGATGAAATCTCTCTTATAC 57.093 33.333 0.00 0.00 42.58 1.47
826 852 9.474920 GAAGATTGACGATGAAATCTCTCTTAT 57.525 33.333 0.00 0.00 41.24 1.73
827 853 8.470002 TGAAGATTGACGATGAAATCTCTCTTA 58.530 33.333 0.00 0.00 41.24 2.10
830 856 6.200665 CCTGAAGATTGACGATGAAATCTCTC 59.799 42.308 0.00 0.87 41.24 3.20
831 857 6.047870 CCTGAAGATTGACGATGAAATCTCT 58.952 40.000 0.00 0.00 41.24 3.10
832 858 5.814705 ACCTGAAGATTGACGATGAAATCTC 59.185 40.000 0.00 0.00 41.24 2.75
833 859 5.738909 ACCTGAAGATTGACGATGAAATCT 58.261 37.500 0.00 0.00 43.37 2.40
834 860 7.095439 GGATACCTGAAGATTGACGATGAAATC 60.095 40.741 0.00 0.00 40.89 2.17
837 863 5.363868 AGGATACCTGAAGATTGACGATGAA 59.636 40.000 0.00 0.00 29.57 2.57
838 864 4.895889 AGGATACCTGAAGATTGACGATGA 59.104 41.667 0.00 0.00 29.57 2.92
839 865 5.207110 AGGATACCTGAAGATTGACGATG 57.793 43.478 0.00 0.00 29.57 3.84
840 866 4.022762 CGAGGATACCTGAAGATTGACGAT 60.023 45.833 0.00 0.00 31.76 3.73
841 867 3.315470 CGAGGATACCTGAAGATTGACGA 59.685 47.826 0.00 0.00 31.76 4.20
842 868 3.315470 TCGAGGATACCTGAAGATTGACG 59.685 47.826 0.00 0.00 31.76 4.35
843 869 4.920640 TCGAGGATACCTGAAGATTGAC 57.079 45.455 0.00 0.00 31.76 3.18
882 908 3.550992 CACGCGATTTCCGGACCG 61.551 66.667 15.93 6.99 39.04 4.79
1083 1119 3.080121 AAGCCGCAGAGGAGGAGG 61.080 66.667 0.00 0.00 45.00 4.30
1254 1290 1.291877 CGGGGCACTCTGAAAACTCG 61.292 60.000 0.00 0.00 0.00 4.18
1260 1296 1.841302 AATCAGCGGGGCACTCTGAA 61.841 55.000 14.17 0.00 39.88 3.02
1263 1299 1.522569 GTAATCAGCGGGGCACTCT 59.477 57.895 0.00 0.00 0.00 3.24
1278 1314 0.794934 AGGGGGTGTAGTCCTGGTAA 59.205 55.000 0.00 0.00 0.00 2.85
1314 1350 0.324460 AGTTCCCGTACCTCCTCCAG 60.324 60.000 0.00 0.00 0.00 3.86
1329 1365 0.246635 TGAAGCTGAGCCGGTAGTTC 59.753 55.000 1.90 0.00 0.00 3.01
1881 1917 1.070445 CACCCGCTGGATCTCCATC 59.930 63.158 0.00 0.00 46.46 3.51
2067 2103 1.003233 GAGGGACTTCTGCCACACC 60.003 63.158 0.00 0.00 41.55 4.16
2536 2572 3.788227 TGCAGTTGGAAGAGGTAATGT 57.212 42.857 0.00 0.00 0.00 2.71
2584 2632 7.997223 AGAATCAGCAGATTAATTCCATTCTGA 59.003 33.333 4.09 6.14 44.30 3.27
2599 2647 4.099419 TCGCACCTAATAAGAATCAGCAGA 59.901 41.667 0.00 0.00 0.00 4.26
2674 2722 1.195448 CTGTGTGATTCTGCGGTGAAC 59.805 52.381 0.00 0.00 0.00 3.18
2711 2759 0.546122 TATGTGGGCGGCAAGATTCT 59.454 50.000 12.47 0.00 0.00 2.40
2712 2760 1.609208 ATATGTGGGCGGCAAGATTC 58.391 50.000 12.47 0.00 0.00 2.52
2713 2761 1.956477 GAATATGTGGGCGGCAAGATT 59.044 47.619 12.47 4.68 0.00 2.40
2714 2762 1.133823 TGAATATGTGGGCGGCAAGAT 60.134 47.619 12.47 6.20 0.00 2.40
2715 2763 0.254462 TGAATATGTGGGCGGCAAGA 59.746 50.000 12.47 0.00 0.00 3.02
2716 2764 0.664761 CTGAATATGTGGGCGGCAAG 59.335 55.000 12.47 0.00 0.00 4.01
2717 2765 1.383456 GCTGAATATGTGGGCGGCAA 61.383 55.000 12.47 0.00 33.01 4.52
2718 2766 1.823470 GCTGAATATGTGGGCGGCA 60.823 57.895 12.47 0.00 33.01 5.69
2719 2767 2.555547 GGCTGAATATGTGGGCGGC 61.556 63.158 0.00 0.00 0.00 6.53
2720 2768 0.751277 TTGGCTGAATATGTGGGCGG 60.751 55.000 0.00 0.00 0.00 6.13
2721 2769 0.664761 CTTGGCTGAATATGTGGGCG 59.335 55.000 0.00 0.00 0.00 6.13
2737 2785 5.123027 GGTTAGCAACTTGAGATCTTCCTTG 59.877 44.000 0.00 0.00 0.00 3.61
2770 2819 0.464916 TCTCGCATCTGCAATGCCAT 60.465 50.000 20.70 0.00 41.71 4.40
2794 2843 3.256631 GGTCCATCTCAACAAGCACAAAT 59.743 43.478 0.00 0.00 0.00 2.32
3013 3062 2.972021 TGGTCAATTCCTGTCACTGAGA 59.028 45.455 0.00 0.00 0.00 3.27
3015 3064 3.327464 TCATGGTCAATTCCTGTCACTGA 59.673 43.478 0.00 0.00 0.00 3.41
3043 3092 4.530857 ATCGCCCTCGCCTTTCCG 62.531 66.667 0.00 0.00 35.26 4.30
3057 3107 7.132863 TCTATCAAAGTGTCGACTATGAATCG 58.867 38.462 17.92 8.28 41.00 3.34
3215 3267 3.154710 CAAACTTTACCTCCCCTGGTTC 58.845 50.000 0.00 0.00 41.22 3.62
3216 3268 2.158370 CCAAACTTTACCTCCCCTGGTT 60.158 50.000 0.00 0.00 41.22 3.67
3218 3270 1.427753 ACCAAACTTTACCTCCCCTGG 59.572 52.381 0.00 0.00 0.00 4.45
3415 3467 1.064060 GACTGACAGCAACACACAACC 59.936 52.381 1.25 0.00 0.00 3.77
3432 3484 4.320456 CACCGCACCAGGCTGACT 62.320 66.667 17.94 0.00 41.67 3.41
3470 3522 4.546674 AGAAAACAAAGAGATTGGGGTGT 58.453 39.130 0.00 0.00 43.66 4.16
3471 3523 5.770162 ACTAGAAAACAAAGAGATTGGGGTG 59.230 40.000 0.00 0.00 43.66 4.61
3472 3524 5.953571 ACTAGAAAACAAAGAGATTGGGGT 58.046 37.500 0.00 0.00 43.66 4.95
3473 3525 6.901081 AACTAGAAAACAAAGAGATTGGGG 57.099 37.500 0.00 0.00 43.66 4.96
3505 3558 3.871006 CAGTGTCAGTGCTACAAAGACAA 59.129 43.478 0.00 0.00 40.47 3.18
3509 3562 2.212652 TGCAGTGTCAGTGCTACAAAG 58.787 47.619 28.33 0.00 44.61 2.77
3516 3569 3.720193 CGCCTGCAGTGTCAGTGC 61.720 66.667 23.31 23.31 44.57 4.40
3547 3682 0.391661 AAATCGAGCGTGATGTGCCT 60.392 50.000 0.00 0.00 0.00 4.75
3554 3689 3.991121 TGTTGTAATCAAATCGAGCGTGA 59.009 39.130 0.00 0.00 35.20 4.35
3572 3707 1.160137 GCAACTGGCCTCTACTGTTG 58.840 55.000 3.32 10.49 45.08 3.33
3573 3708 1.059913 AGCAACTGGCCTCTACTGTT 58.940 50.000 3.32 0.00 46.50 3.16
3574 3709 0.322975 CAGCAACTGGCCTCTACTGT 59.677 55.000 3.32 0.00 46.50 3.55
3627 3846 1.661341 CCACCACTCTATTCAGCAGC 58.339 55.000 0.00 0.00 0.00 5.25
3630 3849 0.253044 TGGCCACCACTCTATTCAGC 59.747 55.000 0.00 0.00 0.00 4.26
3658 3877 4.344865 GGAAAGCCACTCCGCCCA 62.345 66.667 0.00 0.00 0.00 5.36
3660 3879 3.569200 AAGGGAAAGCCACTCCGCC 62.569 63.158 0.00 0.00 33.36 6.13
3661 3880 2.034221 AAGGGAAAGCCACTCCGC 59.966 61.111 0.00 0.00 33.36 5.54
3662 3881 0.035056 ATGAAGGGAAAGCCACTCCG 60.035 55.000 0.00 0.00 33.36 4.63
3735 3956 1.845809 GCAAGTCGTCAAGGCAGGTG 61.846 60.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.