Multiple sequence alignment - TraesCS5D01G022100

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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 TraesCS5D01G022100 chr5D 100.000 4153 0 0 1 4153 14972680 14968528 0.000000e+00 7670
1 TraesCS5D01G022100 chr5B 92.601 2176 115 21 1994 4153 13704383 13702238 0.000000e+00 3085
2 TraesCS5D01G022100 chr5B 86.102 885 59 18 781 1651 13705797 13704963 0.000000e+00 894
3 TraesCS5D01G022100 chr5B 78.092 566 66 31 189 745 13706438 13705922 5.220000e-79 305
4 TraesCS5D01G022100 chr5B 92.135 178 11 2 1825 1999 13704666 13704489 8.920000e-62 248
5 TraesCS5D01G022100 chr5B 90.323 186 13 3 1641 1822 13704886 13704702 5.370000e-59 239
6 TraesCS5D01G022100 chr5A 96.784 1617 29 6 2548 4153 11519774 11518170 0.000000e+00 2676
7 TraesCS5D01G022100 chr5A 90.093 1827 105 32 190 1998 11522263 11520495 0.000000e+00 2302
8 TraesCS5D01G022100 chr5A 97.838 555 12 0 1994 2548 11520388 11519834 0.000000e+00 959
9 TraesCS5D01G022100 chr7A 76.619 556 82 24 2630 3177 694881109 694881624 3.180000e-66 263
10 TraesCS5D01G022100 chr7A 76.439 556 83 22 2630 3177 695149285 695149800 1.480000e-64 257
11 TraesCS5D01G022100 chr7A 76.079 556 85 26 2630 3177 695034531 695035046 3.210000e-61 246
12 TraesCS5D01G022100 chrUn 75.719 556 87 23 2630 3177 83176785 83176270 6.940000e-58 235
13 TraesCS5D01G022100 chrUn 77.855 289 35 8 2892 3177 444448779 444449041 7.190000e-33 152
14 TraesCS5D01G022100 chr7B 80.066 301 52 5 2878 3177 424533327 424533620 2.510000e-52 217
15 TraesCS5D01G022100 chr7D 80.000 265 49 2 2890 3153 411021315 411021054 4.240000e-45 193


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 TraesCS5D01G022100 chr5D 14968528 14972680 4152 True 7670.0 7670 100.0000 1 4153 1 chr5D.!!$R1 4152
1 TraesCS5D01G022100 chr5B 13702238 13706438 4200 True 954.2 3085 87.8506 189 4153 5 chr5B.!!$R1 3964
2 TraesCS5D01G022100 chr5A 11518170 11522263 4093 True 1979.0 2676 94.9050 190 4153 3 chr5A.!!$R1 3963
3 TraesCS5D01G022100 chr7A 694881109 694881624 515 False 263.0 263 76.6190 2630 3177 1 chr7A.!!$F1 547
4 TraesCS5D01G022100 chr7A 695149285 695149800 515 False 257.0 257 76.4390 2630 3177 1 chr7A.!!$F3 547
5 TraesCS5D01G022100 chr7A 695034531 695035046 515 False 246.0 246 76.0790 2630 3177 1 chr7A.!!$F2 547
6 TraesCS5D01G022100 chrUn 83176270 83176785 515 True 235.0 235 75.7190 2630 3177 1 chrUn.!!$R1 547

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
342 343 0.034616 GCAATCCATCCTCCTCTCCG 59.965 60.000 0.00 0.0 0.00 4.63 F
529 536 0.538057 TCCCCTTGCTTGCTTGTCTG 60.538 55.000 0.00 0.0 0.00 3.51 F
531 538 1.081641 CCTTGCTTGCTTGTCTGCG 60.082 57.895 0.00 0.0 35.36 5.18 F
554 561 1.168714 GCACTCTTTCTTTGCCGGAT 58.831 50.000 5.05 0.0 0.00 4.18 F
569 576 1.482593 CCGGATTCTGTTCTAGCTGGT 59.517 52.381 0.00 0.0 0.00 4.00 F
881 1006 1.609072 TCCTCTGTTATGCGATCTCCG 59.391 52.381 0.00 0.0 42.21 4.63 F
2853 3305 0.173481 TTGTTCTCATCGGAGCGGAG 59.827 55.000 0.00 0.0 41.13 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 2170 1.556911 ACAGAGGAGCGAAATCACCAT 59.443 47.619 0.00 0.0 0.00 3.55 R
2195 2577 3.122278 CCTACACAAACCGTAACACATCG 59.878 47.826 0.00 0.0 0.00 3.84 R
2260 2642 3.332034 TGCTTTAGTAGAAACTTCCCGC 58.668 45.455 0.00 0.0 37.15 6.13 R
2509 2891 3.582714 AAAGTTACGAGGTAGAACCGG 57.417 47.619 0.00 0.0 44.90 5.28 R
2566 3008 2.009051 TGAACGCAAGCATCATAGTGG 58.991 47.619 0.00 0.0 45.62 4.00 R
2857 3309 2.489938 TAAGCAATCCAAGTCGGCTT 57.510 45.000 0.00 0.0 45.78 4.35 R
4118 4601 2.202703 GCGGCGGACTCGTACATT 60.203 61.111 9.78 0.0 38.89 2.71 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
25 26 8.786937 CACATAGCCAACACATTCATTATTAC 57.213 34.615 0.00 0.00 0.00 1.89
26 27 8.404765 CACATAGCCAACACATTCATTATTACA 58.595 33.333 0.00 0.00 0.00 2.41
27 28 8.965819 ACATAGCCAACACATTCATTATTACAA 58.034 29.630 0.00 0.00 0.00 2.41
28 29 9.800433 CATAGCCAACACATTCATTATTACAAA 57.200 29.630 0.00 0.00 0.00 2.83
30 31 8.121305 AGCCAACACATTCATTATTACAAAGA 57.879 30.769 0.00 0.00 0.00 2.52
31 32 8.752187 AGCCAACACATTCATTATTACAAAGAT 58.248 29.630 0.00 0.00 0.00 2.40
32 33 9.023967 GCCAACACATTCATTATTACAAAGATC 57.976 33.333 0.00 0.00 0.00 2.75
52 53 3.088259 TGGAACAAACACCGACAGG 57.912 52.632 0.00 0.00 38.78 4.00
53 54 0.253610 TGGAACAAACACCGACAGGT 59.746 50.000 0.00 0.00 45.75 4.00
63 64 3.117589 CCGACAGGTGTTACTTCCG 57.882 57.895 0.00 0.00 0.00 4.30
64 65 0.389426 CCGACAGGTGTTACTTCCGG 60.389 60.000 0.00 0.00 0.00 5.14
65 66 0.316204 CGACAGGTGTTACTTCCGGT 59.684 55.000 0.00 3.50 35.09 5.28
66 67 1.792006 GACAGGTGTTACTTCCGGTG 58.208 55.000 0.00 0.00 32.80 4.94
67 68 1.342174 GACAGGTGTTACTTCCGGTGA 59.658 52.381 0.00 0.00 32.80 4.02
68 69 1.764134 ACAGGTGTTACTTCCGGTGAA 59.236 47.619 0.00 0.00 31.58 3.18
69 70 2.370849 ACAGGTGTTACTTCCGGTGAAT 59.629 45.455 0.00 0.00 31.58 2.57
70 71 3.181448 ACAGGTGTTACTTCCGGTGAATT 60.181 43.478 0.00 0.00 31.58 2.17
71 72 3.818773 CAGGTGTTACTTCCGGTGAATTT 59.181 43.478 0.00 0.00 0.00 1.82
72 73 3.818773 AGGTGTTACTTCCGGTGAATTTG 59.181 43.478 0.00 0.00 0.00 2.32
73 74 3.566742 GGTGTTACTTCCGGTGAATTTGT 59.433 43.478 0.00 0.00 0.00 2.83
74 75 4.756135 GGTGTTACTTCCGGTGAATTTGTA 59.244 41.667 0.00 0.00 0.00 2.41
75 76 5.334337 GGTGTTACTTCCGGTGAATTTGTAC 60.334 44.000 0.00 0.00 0.00 2.90
76 77 5.467735 GTGTTACTTCCGGTGAATTTGTACT 59.532 40.000 0.00 0.00 0.00 2.73
77 78 6.017687 GTGTTACTTCCGGTGAATTTGTACTT 60.018 38.462 0.00 0.00 0.00 2.24
78 79 6.203338 TGTTACTTCCGGTGAATTTGTACTTC 59.797 38.462 0.00 0.00 0.00 3.01
79 80 4.070009 ACTTCCGGTGAATTTGTACTTCC 58.930 43.478 0.00 0.00 0.00 3.46
80 81 2.690786 TCCGGTGAATTTGTACTTCCG 58.309 47.619 0.00 0.00 36.85 4.30
82 83 2.419667 CGGTGAATTTGTACTTCCGGT 58.580 47.619 0.00 0.00 34.05 5.28
83 84 2.158841 CGGTGAATTTGTACTTCCGGTG 59.841 50.000 0.00 0.00 34.05 4.94
84 85 3.404899 GGTGAATTTGTACTTCCGGTGA 58.595 45.455 0.00 0.00 0.00 4.02
85 86 3.816523 GGTGAATTTGTACTTCCGGTGAA 59.183 43.478 0.00 0.00 0.00 3.18
86 87 4.457949 GGTGAATTTGTACTTCCGGTGAAT 59.542 41.667 0.00 0.00 0.00 2.57
87 88 5.048294 GGTGAATTTGTACTTCCGGTGAATT 60.048 40.000 0.00 0.00 0.00 2.17
88 89 6.443792 GTGAATTTGTACTTCCGGTGAATTT 58.556 36.000 0.00 0.00 0.00 1.82
89 90 6.921307 GTGAATTTGTACTTCCGGTGAATTTT 59.079 34.615 0.00 0.00 0.00 1.82
90 91 6.920758 TGAATTTGTACTTCCGGTGAATTTTG 59.079 34.615 0.00 0.00 0.00 2.44
91 92 6.642707 ATTTGTACTTCCGGTGAATTTTGA 57.357 33.333 0.00 0.00 0.00 2.69
92 93 6.642707 TTTGTACTTCCGGTGAATTTTGAT 57.357 33.333 0.00 0.00 0.00 2.57
93 94 7.747155 TTTGTACTTCCGGTGAATTTTGATA 57.253 32.000 0.00 0.00 0.00 2.15
94 95 7.747155 TTGTACTTCCGGTGAATTTTGATAA 57.253 32.000 0.00 0.00 0.00 1.75
95 96 7.931578 TGTACTTCCGGTGAATTTTGATAAT 57.068 32.000 0.00 0.00 0.00 1.28
96 97 7.981142 TGTACTTCCGGTGAATTTTGATAATC 58.019 34.615 0.00 0.00 0.00 1.75
97 98 7.827236 TGTACTTCCGGTGAATTTTGATAATCT 59.173 33.333 0.00 0.00 0.00 2.40
98 99 7.088589 ACTTCCGGTGAATTTTGATAATCTG 57.911 36.000 0.00 0.00 0.00 2.90
99 100 6.095440 ACTTCCGGTGAATTTTGATAATCTGG 59.905 38.462 0.00 0.00 0.00 3.86
100 101 4.887071 TCCGGTGAATTTTGATAATCTGGG 59.113 41.667 0.00 0.00 0.00 4.45
101 102 4.644685 CCGGTGAATTTTGATAATCTGGGT 59.355 41.667 0.00 0.00 0.00 4.51
102 103 5.221048 CCGGTGAATTTTGATAATCTGGGTC 60.221 44.000 0.00 0.00 0.00 4.46
103 104 5.356751 CGGTGAATTTTGATAATCTGGGTCA 59.643 40.000 0.00 0.00 0.00 4.02
104 105 6.039717 CGGTGAATTTTGATAATCTGGGTCAT 59.960 38.462 0.00 0.00 0.00 3.06
105 106 7.416664 CGGTGAATTTTGATAATCTGGGTCATT 60.417 37.037 0.00 0.00 0.00 2.57
106 107 8.260114 GGTGAATTTTGATAATCTGGGTCATTT 58.740 33.333 0.00 0.00 0.00 2.32
107 108 9.657419 GTGAATTTTGATAATCTGGGTCATTTT 57.343 29.630 0.00 0.00 0.00 1.82
108 109 9.874205 TGAATTTTGATAATCTGGGTCATTTTC 57.126 29.630 0.00 0.00 0.00 2.29
109 110 8.931385 AATTTTGATAATCTGGGTCATTTTCG 57.069 30.769 0.00 0.00 0.00 3.46
110 111 7.695480 TTTTGATAATCTGGGTCATTTTCGA 57.305 32.000 0.00 0.00 0.00 3.71
111 112 7.695480 TTTGATAATCTGGGTCATTTTCGAA 57.305 32.000 0.00 0.00 0.00 3.71
112 113 7.695480 TTGATAATCTGGGTCATTTTCGAAA 57.305 32.000 6.47 6.47 0.00 3.46
113 114 7.695480 TGATAATCTGGGTCATTTTCGAAAA 57.305 32.000 24.43 24.43 0.00 2.29
114 115 7.761409 TGATAATCTGGGTCATTTTCGAAAAG 58.239 34.615 25.87 17.96 0.00 2.27
115 116 7.609918 TGATAATCTGGGTCATTTTCGAAAAGA 59.390 33.333 25.87 19.62 0.00 2.52
116 117 6.648879 AATCTGGGTCATTTTCGAAAAGAA 57.351 33.333 25.87 14.85 37.01 2.52
117 118 6.648879 ATCTGGGTCATTTTCGAAAAGAAA 57.351 33.333 25.87 12.59 46.22 2.52
145 146 9.588096 AAAAAGAACCTAATCATAGTCCTGTTT 57.412 29.630 0.00 0.00 0.00 2.83
152 153 9.838339 ACCTAATCATAGTCCTGTTTAATTCTG 57.162 33.333 0.00 0.00 0.00 3.02
153 154 9.838339 CCTAATCATAGTCCTGTTTAATTCTGT 57.162 33.333 0.00 0.00 0.00 3.41
158 159 8.792633 TCATAGTCCTGTTTAATTCTGTTTTGG 58.207 33.333 0.00 0.00 0.00 3.28
159 160 6.405278 AGTCCTGTTTAATTCTGTTTTGGG 57.595 37.500 0.00 0.00 0.00 4.12
160 161 5.304357 AGTCCTGTTTAATTCTGTTTTGGGG 59.696 40.000 0.00 0.00 0.00 4.96
161 162 5.069914 GTCCTGTTTAATTCTGTTTTGGGGT 59.930 40.000 0.00 0.00 0.00 4.95
162 163 5.663556 TCCTGTTTAATTCTGTTTTGGGGTT 59.336 36.000 0.00 0.00 0.00 4.11
163 164 6.157123 TCCTGTTTAATTCTGTTTTGGGGTTT 59.843 34.615 0.00 0.00 0.00 3.27
164 165 6.259829 CCTGTTTAATTCTGTTTTGGGGTTTG 59.740 38.462 0.00 0.00 0.00 2.93
165 166 5.586643 TGTTTAATTCTGTTTTGGGGTTTGC 59.413 36.000 0.00 0.00 0.00 3.68
166 167 2.928801 ATTCTGTTTTGGGGTTTGCC 57.071 45.000 0.00 0.00 0.00 4.52
185 186 4.521062 GCAGACGGGCTCTCGCAT 62.521 66.667 0.00 0.00 38.10 4.73
186 187 3.120105 CAGACGGGCTCTCGCATA 58.880 61.111 0.00 0.00 38.10 3.14
187 188 1.437573 CAGACGGGCTCTCGCATAA 59.562 57.895 0.00 0.00 38.10 1.90
223 224 3.381983 GGCCGGAAAAGCCCAAGG 61.382 66.667 5.05 0.00 45.16 3.61
240 241 4.105553 GGTAACCGAGGTGGGGCC 62.106 72.222 0.00 0.00 44.64 5.80
241 242 4.105553 GTAACCGAGGTGGGGCCC 62.106 72.222 18.17 18.17 44.64 5.80
242 243 4.660611 TAACCGAGGTGGGGCCCA 62.661 66.667 24.76 24.76 44.64 5.36
273 274 2.757917 GCGGCCAGGTCTCTCTCT 60.758 66.667 2.24 0.00 0.00 3.10
317 318 2.718731 CTTGTCCGCAACCGCAAA 59.281 55.556 0.00 0.00 38.40 3.68
339 340 1.433121 GAGGCAATCCATCCTCCTCT 58.567 55.000 0.00 0.00 42.30 3.69
340 341 1.347378 GAGGCAATCCATCCTCCTCTC 59.653 57.143 0.00 0.00 42.30 3.20
342 343 0.034616 GCAATCCATCCTCCTCTCCG 59.965 60.000 0.00 0.00 0.00 4.63
343 344 0.683973 CAATCCATCCTCCTCTCCGG 59.316 60.000 0.00 0.00 0.00 5.14
345 346 3.610669 CCATCCTCCTCTCCGGCG 61.611 72.222 0.00 0.00 0.00 6.46
346 347 3.610669 CATCCTCCTCTCCGGCGG 61.611 72.222 22.51 22.51 39.13 6.13
428 435 2.668212 CACCAAAGCCGCGGAGAA 60.668 61.111 33.48 0.00 0.00 2.87
454 461 1.591863 GGACGCCTTGTATCTCCGC 60.592 63.158 0.00 0.00 0.00 5.54
458 465 1.451936 GCCTTGTATCTCCGCCCAT 59.548 57.895 0.00 0.00 0.00 4.00
473 480 2.354704 CGCCCATCTTCTCAAAGGTACA 60.355 50.000 0.00 0.00 33.03 2.90
486 493 4.081642 TCAAAGGTACACAGTAGCAGATCC 60.082 45.833 8.80 0.00 0.00 3.36
517 524 4.785453 GCCTGAGGCGTCCCCTTG 62.785 72.222 8.16 0.00 46.60 3.61
518 525 4.785453 CCTGAGGCGTCCCCTTGC 62.785 72.222 3.56 0.00 46.60 4.01
519 526 3.710722 CTGAGGCGTCCCCTTGCT 61.711 66.667 3.56 0.00 46.60 3.91
520 527 3.249189 TGAGGCGTCCCCTTGCTT 61.249 61.111 3.56 0.00 46.60 3.91
521 528 2.747855 GAGGCGTCCCCTTGCTTG 60.748 66.667 0.00 0.00 46.60 4.01
524 531 2.985847 GCGTCCCCTTGCTTGCTT 60.986 61.111 0.00 0.00 0.00 3.91
525 532 2.956987 CGTCCCCTTGCTTGCTTG 59.043 61.111 0.00 0.00 0.00 4.01
526 533 1.898574 CGTCCCCTTGCTTGCTTGT 60.899 57.895 0.00 0.00 0.00 3.16
527 534 1.856265 CGTCCCCTTGCTTGCTTGTC 61.856 60.000 0.00 0.00 0.00 3.18
528 535 0.538287 GTCCCCTTGCTTGCTTGTCT 60.538 55.000 0.00 0.00 0.00 3.41
529 536 0.538057 TCCCCTTGCTTGCTTGTCTG 60.538 55.000 0.00 0.00 0.00 3.51
530 537 1.288127 CCCTTGCTTGCTTGTCTGC 59.712 57.895 0.00 0.00 0.00 4.26
531 538 1.081641 CCTTGCTTGCTTGTCTGCG 60.082 57.895 0.00 0.00 35.36 5.18
532 539 1.728426 CTTGCTTGCTTGTCTGCGC 60.728 57.895 0.00 0.00 35.36 6.09
533 540 3.525844 TTGCTTGCTTGTCTGCGCG 62.526 57.895 0.00 0.00 35.36 6.86
554 561 1.168714 GCACTCTTTCTTTGCCGGAT 58.831 50.000 5.05 0.00 0.00 4.18
563 570 3.973206 TCTTTGCCGGATTCTGTTCTA 57.027 42.857 5.05 0.00 0.00 2.10
569 576 1.482593 CCGGATTCTGTTCTAGCTGGT 59.517 52.381 0.00 0.00 0.00 4.00
584 603 2.012051 GCTGGTACTAATTGTGGCGCT 61.012 52.381 7.64 0.00 0.00 5.92
707 738 3.793559 AGACGTCACATTTATGCCCTAC 58.206 45.455 19.50 0.00 0.00 3.18
779 900 5.373854 AGAAAGCCTGTAGGATGGGAAATAT 59.626 40.000 1.17 0.00 37.39 1.28
783 904 4.579869 CCTGTAGGATGGGAAATATTCCG 58.420 47.826 3.21 0.00 44.02 4.30
847 972 8.472413 CCTCCAGACAAATTTGATAAACATCAT 58.528 33.333 24.64 0.00 0.00 2.45
848 973 9.297586 CTCCAGACAAATTTGATAAACATCATG 57.702 33.333 24.64 9.23 0.00 3.07
849 974 7.760794 TCCAGACAAATTTGATAAACATCATGC 59.239 33.333 24.64 0.00 0.00 4.06
850 975 7.010738 CCAGACAAATTTGATAAACATCATGCC 59.989 37.037 24.64 0.00 0.00 4.40
881 1006 1.609072 TCCTCTGTTATGCGATCTCCG 59.391 52.381 0.00 0.00 42.21 4.63
885 1010 3.444916 TCTGTTATGCGATCTCCGTTTC 58.555 45.455 0.00 0.00 41.15 2.78
923 1048 3.127425 AGGTTACACTTCTGTTGAGGC 57.873 47.619 0.00 0.00 0.00 4.70
924 1049 2.438021 AGGTTACACTTCTGTTGAGGCA 59.562 45.455 0.00 0.00 0.00 4.75
925 1050 2.808543 GGTTACACTTCTGTTGAGGCAG 59.191 50.000 0.00 0.00 37.81 4.85
926 1051 3.494398 GGTTACACTTCTGTTGAGGCAGA 60.494 47.826 0.00 0.00 43.03 4.26
962 1100 2.093869 TCCGCCTTACTTCGTTGCTAAT 60.094 45.455 0.00 0.00 0.00 1.73
1127 1265 7.553881 TTAGGTTGTTTATTGCTCTCTATGC 57.446 36.000 0.00 0.00 0.00 3.14
1160 1298 5.458891 GGTTGCGTACTCATATCTATCGTT 58.541 41.667 0.00 0.00 0.00 3.85
1217 1355 7.772332 TCTTTCAGTTCTAAGCCGATTATTC 57.228 36.000 0.00 0.00 0.00 1.75
1251 1389 7.284716 TGAATCTTATGAGACACGTACATACCT 59.715 37.037 0.00 0.00 33.99 3.08
1315 1453 6.657541 ACTGAAGAAACTTTGTGTCACCTTAA 59.342 34.615 0.00 0.00 0.00 1.85
1343 1481 5.106712 TGCTTAGCTCATTTGTTACTTTCCG 60.107 40.000 5.60 0.00 0.00 4.30
1398 1537 3.074687 TGGGGGTTCAGCTTATGTTGTTA 59.925 43.478 0.00 0.00 0.00 2.41
1444 1583 5.541845 TCATCGTCATCCAGTATGAAATCC 58.458 41.667 0.00 0.00 46.17 3.01
1612 1755 3.126001 TGTAGCCTTGACCTTGAGTTG 57.874 47.619 0.00 0.00 0.00 3.16
1629 1773 6.922247 TGAGTTGTTTTGTAAATGGTACGA 57.078 33.333 0.00 0.00 0.00 3.43
1745 1980 7.166970 GCACACAGATGCATTTTGTGATTATAG 59.833 37.037 33.68 21.81 45.39 1.31
1782 2017 2.992543 GTTGTTCAACTGCAGCACAAAA 59.007 40.909 15.27 0.00 0.00 2.44
1786 2021 4.093115 TGTTCAACTGCAGCACAAAATTTG 59.907 37.500 15.27 8.35 0.00 2.32
1902 2170 8.548025 TCTCCTTTAATCATTGTCCTGTATTGA 58.452 33.333 0.00 0.00 0.00 2.57
1951 2221 4.839668 TTCTTTGGTTACCACATTTCGG 57.160 40.909 2.39 0.00 30.78 4.30
2218 2600 2.211806 TGTGTTACGGTTTGTGTAGGC 58.788 47.619 0.00 0.00 0.00 3.93
2232 2614 4.065088 TGTGTAGGCTCACAATTTCAGAC 58.935 43.478 14.58 0.00 43.92 3.51
2260 2642 5.122239 TCAAGTTAACCGCATCTCATTTGAG 59.878 40.000 0.88 0.97 43.36 3.02
2312 2694 8.106462 TGAGGGTAAGTCACAAATATTCAATGA 58.894 33.333 0.00 0.00 0.00 2.57
2378 2760 8.229811 TGTTCAATGTTGAGAGTTTATCATTCG 58.770 33.333 0.00 0.00 38.61 3.34
2509 2891 9.155975 ACATGATTCATAACTTGTACACTTCTC 57.844 33.333 0.00 0.00 0.00 2.87
2853 3305 0.173481 TTGTTCTCATCGGAGCGGAG 59.827 55.000 0.00 0.00 41.13 4.63
2857 3309 2.271944 TCTCATCGGAGCGGAGAATA 57.728 50.000 4.84 0.00 41.13 1.75
3116 3585 2.335369 GACGATGACGCGGGCTAT 59.665 61.111 12.47 0.00 43.96 2.97
3177 3646 3.190953 AGTCTTGTTAGCAGTAGTCGTCC 59.809 47.826 0.00 0.00 0.00 4.79
3221 3690 5.104562 GTCAGTTAACTGGCTTTGGTTAC 57.895 43.478 28.75 15.57 44.71 2.50
3230 3699 5.307204 ACTGGCTTTGGTTACGTTACATAA 58.693 37.500 7.05 0.00 0.00 1.90
3490 3962 1.311859 TGGCATTGCGATGGATTCTC 58.688 50.000 15.85 0.00 33.72 2.87
3634 4106 1.989706 TGGGGTTGCTTTTGTCTACC 58.010 50.000 0.00 0.00 0.00 3.18
3635 4107 1.497286 TGGGGTTGCTTTTGTCTACCT 59.503 47.619 0.00 0.00 0.00 3.08
3636 4108 1.886542 GGGGTTGCTTTTGTCTACCTG 59.113 52.381 0.00 0.00 0.00 4.00
3637 4109 1.886542 GGGTTGCTTTTGTCTACCTGG 59.113 52.381 0.00 0.00 0.00 4.45
3850 4332 5.102020 ACAGCCAAACAAAACAAACAAAC 57.898 34.783 0.00 0.00 0.00 2.93
3890 4372 9.137459 TGGAAGTATCATTTTGTTTTTCCAGTA 57.863 29.630 0.00 0.00 38.24 2.74
4070 4553 3.361174 TCGCTCATCACCGACACA 58.639 55.556 0.00 0.00 0.00 3.72
4118 4601 0.320374 GGTCCTTCATGGTGTCGACA 59.680 55.000 15.76 15.76 37.07 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.404765 TGTAATAATGAATGTGTTGGCTATGTG 58.595 33.333 0.00 0.00 0.00 3.21
1 2 8.518430 TGTAATAATGAATGTGTTGGCTATGT 57.482 30.769 0.00 0.00 0.00 2.29
2 3 9.800433 TTTGTAATAATGAATGTGTTGGCTATG 57.200 29.630 0.00 0.00 0.00 2.23
4 5 9.237187 TCTTTGTAATAATGAATGTGTTGGCTA 57.763 29.630 0.00 0.00 0.00 3.93
5 6 8.121305 TCTTTGTAATAATGAATGTGTTGGCT 57.879 30.769 0.00 0.00 0.00 4.75
6 7 8.931385 ATCTTTGTAATAATGAATGTGTTGGC 57.069 30.769 0.00 0.00 0.00 4.52
19 20 9.906660 GTGTTTGTTCCATGATCTTTGTAATAA 57.093 29.630 0.00 0.00 0.00 1.40
20 21 8.519526 GGTGTTTGTTCCATGATCTTTGTAATA 58.480 33.333 0.00 0.00 0.00 0.98
21 22 7.378181 GGTGTTTGTTCCATGATCTTTGTAAT 58.622 34.615 0.00 0.00 0.00 1.89
22 23 6.514212 CGGTGTTTGTTCCATGATCTTTGTAA 60.514 38.462 0.00 0.00 0.00 2.41
23 24 5.049060 CGGTGTTTGTTCCATGATCTTTGTA 60.049 40.000 0.00 0.00 0.00 2.41
24 25 4.261572 CGGTGTTTGTTCCATGATCTTTGT 60.262 41.667 0.00 0.00 0.00 2.83
25 26 4.023279 TCGGTGTTTGTTCCATGATCTTTG 60.023 41.667 0.00 0.00 0.00 2.77
26 27 4.023193 GTCGGTGTTTGTTCCATGATCTTT 60.023 41.667 0.00 0.00 0.00 2.52
27 28 3.502211 GTCGGTGTTTGTTCCATGATCTT 59.498 43.478 0.00 0.00 0.00 2.40
28 29 3.074412 GTCGGTGTTTGTTCCATGATCT 58.926 45.455 0.00 0.00 0.00 2.75
29 30 2.811431 TGTCGGTGTTTGTTCCATGATC 59.189 45.455 0.00 0.00 0.00 2.92
30 31 2.813754 CTGTCGGTGTTTGTTCCATGAT 59.186 45.455 0.00 0.00 0.00 2.45
31 32 2.217750 CTGTCGGTGTTTGTTCCATGA 58.782 47.619 0.00 0.00 0.00 3.07
32 33 1.266718 CCTGTCGGTGTTTGTTCCATG 59.733 52.381 0.00 0.00 0.00 3.66
33 34 1.133915 ACCTGTCGGTGTTTGTTCCAT 60.134 47.619 0.00 0.00 43.51 3.41
34 35 0.253610 ACCTGTCGGTGTTTGTTCCA 59.746 50.000 0.00 0.00 43.51 3.53
35 36 3.089788 ACCTGTCGGTGTTTGTTCC 57.910 52.632 0.00 0.00 43.51 3.62
45 46 0.389426 CCGGAAGTAACACCTGTCGG 60.389 60.000 0.00 0.00 0.00 4.79
46 47 0.316204 ACCGGAAGTAACACCTGTCG 59.684 55.000 9.46 0.00 0.00 4.35
47 48 1.342174 TCACCGGAAGTAACACCTGTC 59.658 52.381 9.46 0.00 0.00 3.51
48 49 1.416243 TCACCGGAAGTAACACCTGT 58.584 50.000 9.46 0.00 0.00 4.00
49 50 2.536761 TTCACCGGAAGTAACACCTG 57.463 50.000 9.46 0.00 0.00 4.00
50 51 3.782656 AATTCACCGGAAGTAACACCT 57.217 42.857 9.46 0.00 36.25 4.00
51 52 3.566742 ACAAATTCACCGGAAGTAACACC 59.433 43.478 9.46 0.00 36.25 4.16
52 53 4.823790 ACAAATTCACCGGAAGTAACAC 57.176 40.909 9.46 0.00 36.25 3.32
53 54 5.613329 AGTACAAATTCACCGGAAGTAACA 58.387 37.500 9.46 0.00 36.25 2.41
54 55 6.347969 GGAAGTACAAATTCACCGGAAGTAAC 60.348 42.308 9.46 0.00 36.25 2.50
55 56 5.702209 GGAAGTACAAATTCACCGGAAGTAA 59.298 40.000 9.46 0.00 36.25 2.24
56 57 5.240121 GGAAGTACAAATTCACCGGAAGTA 58.760 41.667 9.46 0.00 36.25 2.24
57 58 4.070009 GGAAGTACAAATTCACCGGAAGT 58.930 43.478 9.46 0.00 36.25 3.01
58 59 3.124636 CGGAAGTACAAATTCACCGGAAG 59.875 47.826 9.46 0.00 36.25 3.46
59 60 3.068560 CGGAAGTACAAATTCACCGGAA 58.931 45.455 9.46 0.00 37.45 4.30
60 61 2.690786 CGGAAGTACAAATTCACCGGA 58.309 47.619 9.46 0.00 36.08 5.14
62 63 2.158841 CACCGGAAGTACAAATTCACCG 59.841 50.000 9.46 0.00 38.83 4.94
63 64 3.404899 TCACCGGAAGTACAAATTCACC 58.595 45.455 9.46 0.00 0.00 4.02
64 65 5.622770 ATTCACCGGAAGTACAAATTCAC 57.377 39.130 9.46 0.00 36.25 3.18
65 66 6.642707 AAATTCACCGGAAGTACAAATTCA 57.357 33.333 9.46 0.00 36.25 2.57
66 67 7.142680 TCAAAATTCACCGGAAGTACAAATTC 58.857 34.615 9.46 0.00 36.25 2.17
67 68 7.045126 TCAAAATTCACCGGAAGTACAAATT 57.955 32.000 9.46 0.00 36.25 1.82
68 69 6.642707 TCAAAATTCACCGGAAGTACAAAT 57.357 33.333 9.46 0.00 36.25 2.32
69 70 6.642707 ATCAAAATTCACCGGAAGTACAAA 57.357 33.333 9.46 0.00 36.25 2.83
70 71 7.747155 TTATCAAAATTCACCGGAAGTACAA 57.253 32.000 9.46 0.00 36.25 2.41
71 72 7.827236 AGATTATCAAAATTCACCGGAAGTACA 59.173 33.333 9.46 0.00 36.25 2.90
72 73 8.122952 CAGATTATCAAAATTCACCGGAAGTAC 58.877 37.037 9.46 0.00 36.25 2.73
73 74 7.282224 CCAGATTATCAAAATTCACCGGAAGTA 59.718 37.037 9.46 0.00 36.25 2.24
74 75 6.095440 CCAGATTATCAAAATTCACCGGAAGT 59.905 38.462 9.46 0.00 36.25 3.01
75 76 6.460123 CCCAGATTATCAAAATTCACCGGAAG 60.460 42.308 9.46 0.00 36.25 3.46
76 77 5.359576 CCCAGATTATCAAAATTCACCGGAA 59.640 40.000 9.46 0.00 37.45 4.30
77 78 4.887071 CCCAGATTATCAAAATTCACCGGA 59.113 41.667 9.46 0.00 0.00 5.14
78 79 4.644685 ACCCAGATTATCAAAATTCACCGG 59.355 41.667 0.00 0.00 0.00 5.28
79 80 5.356751 TGACCCAGATTATCAAAATTCACCG 59.643 40.000 0.00 0.00 0.00 4.94
80 81 6.773976 TGACCCAGATTATCAAAATTCACC 57.226 37.500 0.00 0.00 0.00 4.02
81 82 9.657419 AAAATGACCCAGATTATCAAAATTCAC 57.343 29.630 0.00 0.00 0.00 3.18
82 83 9.874205 GAAAATGACCCAGATTATCAAAATTCA 57.126 29.630 0.00 0.00 0.00 2.57
83 84 9.023967 CGAAAATGACCCAGATTATCAAAATTC 57.976 33.333 0.00 0.00 0.00 2.17
84 85 8.748412 TCGAAAATGACCCAGATTATCAAAATT 58.252 29.630 0.00 0.00 0.00 1.82
85 86 8.292444 TCGAAAATGACCCAGATTATCAAAAT 57.708 30.769 0.00 0.00 0.00 1.82
86 87 7.695480 TCGAAAATGACCCAGATTATCAAAA 57.305 32.000 0.00 0.00 0.00 2.44
87 88 7.695480 TTCGAAAATGACCCAGATTATCAAA 57.305 32.000 0.00 0.00 0.00 2.69
88 89 7.695480 TTTCGAAAATGACCCAGATTATCAA 57.305 32.000 8.44 0.00 0.00 2.57
89 90 7.609918 TCTTTTCGAAAATGACCCAGATTATCA 59.390 33.333 22.73 0.00 0.00 2.15
90 91 7.985476 TCTTTTCGAAAATGACCCAGATTATC 58.015 34.615 22.73 0.00 0.00 1.75
91 92 7.938140 TCTTTTCGAAAATGACCCAGATTAT 57.062 32.000 22.73 0.00 0.00 1.28
92 93 7.753309 TTCTTTTCGAAAATGACCCAGATTA 57.247 32.000 22.73 0.00 0.00 1.75
93 94 6.648879 TTCTTTTCGAAAATGACCCAGATT 57.351 33.333 22.73 0.00 0.00 2.40
94 95 6.648879 TTTCTTTTCGAAAATGACCCAGAT 57.351 33.333 22.73 0.00 38.62 2.90
95 96 6.458232 TTTTCTTTTCGAAAATGACCCAGA 57.542 33.333 22.73 12.24 44.42 3.86
119 120 9.588096 AAACAGGACTATGATTAGGTTCTTTTT 57.412 29.630 0.00 0.00 0.00 1.94
126 127 9.838339 CAGAATTAAACAGGACTATGATTAGGT 57.162 33.333 0.00 0.00 0.00 3.08
127 128 9.838339 ACAGAATTAAACAGGACTATGATTAGG 57.162 33.333 0.00 0.00 0.00 2.69
132 133 8.792633 CCAAAACAGAATTAAACAGGACTATGA 58.207 33.333 0.00 0.00 0.00 2.15
133 134 8.028938 CCCAAAACAGAATTAAACAGGACTATG 58.971 37.037 0.00 0.00 0.00 2.23
134 135 7.178451 CCCCAAAACAGAATTAAACAGGACTAT 59.822 37.037 0.00 0.00 0.00 2.12
135 136 6.492087 CCCCAAAACAGAATTAAACAGGACTA 59.508 38.462 0.00 0.00 0.00 2.59
136 137 5.304357 CCCCAAAACAGAATTAAACAGGACT 59.696 40.000 0.00 0.00 0.00 3.85
137 138 5.069914 ACCCCAAAACAGAATTAAACAGGAC 59.930 40.000 0.00 0.00 0.00 3.85
138 139 5.212745 ACCCCAAAACAGAATTAAACAGGA 58.787 37.500 0.00 0.00 0.00 3.86
139 140 5.545063 ACCCCAAAACAGAATTAAACAGG 57.455 39.130 0.00 0.00 0.00 4.00
140 141 6.238347 GCAAACCCCAAAACAGAATTAAACAG 60.238 38.462 0.00 0.00 0.00 3.16
141 142 5.586643 GCAAACCCCAAAACAGAATTAAACA 59.413 36.000 0.00 0.00 0.00 2.83
142 143 5.008217 GGCAAACCCCAAAACAGAATTAAAC 59.992 40.000 0.00 0.00 0.00 2.01
143 144 5.126779 GGCAAACCCCAAAACAGAATTAAA 58.873 37.500 0.00 0.00 0.00 1.52
144 145 4.709250 GGCAAACCCCAAAACAGAATTAA 58.291 39.130 0.00 0.00 0.00 1.40
145 146 4.344359 GGCAAACCCCAAAACAGAATTA 57.656 40.909 0.00 0.00 0.00 1.40
146 147 3.207265 GGCAAACCCCAAAACAGAATT 57.793 42.857 0.00 0.00 0.00 2.17
147 148 2.928801 GGCAAACCCCAAAACAGAAT 57.071 45.000 0.00 0.00 0.00 2.40
177 178 2.037772 AGGCCCAACTATTATGCGAGAG 59.962 50.000 0.00 0.00 0.00 3.20
178 179 2.037251 GAGGCCCAACTATTATGCGAGA 59.963 50.000 0.00 0.00 0.00 4.04
179 180 2.417719 GAGGCCCAACTATTATGCGAG 58.582 52.381 0.00 0.00 0.00 5.03
180 181 1.270094 CGAGGCCCAACTATTATGCGA 60.270 52.381 0.00 0.00 0.00 5.10
181 182 1.148310 CGAGGCCCAACTATTATGCG 58.852 55.000 0.00 0.00 0.00 4.73
182 183 2.543777 TCGAGGCCCAACTATTATGC 57.456 50.000 0.00 0.00 0.00 3.14
183 184 3.403038 CCTTCGAGGCCCAACTATTATG 58.597 50.000 0.00 0.00 0.00 1.90
184 185 3.771577 CCTTCGAGGCCCAACTATTAT 57.228 47.619 0.00 0.00 0.00 1.28
223 224 4.105553 GGCCCCACCTCGGTTACC 62.106 72.222 0.00 0.00 34.51 2.85
239 240 3.766691 CCGTCGTAGGTGGGTGGG 61.767 72.222 0.00 0.00 0.00 4.61
240 241 4.446413 GCCGTCGTAGGTGGGTGG 62.446 72.222 0.00 0.00 0.00 4.61
241 242 4.789075 CGCCGTCGTAGGTGGGTG 62.789 72.222 4.90 0.00 38.09 4.61
262 263 3.964031 GAGAGAGAGAGAGAGAGAGACCT 59.036 52.174 0.00 0.00 0.00 3.85
273 274 1.145156 CGGCCGAGAGAGAGAGAGA 59.855 63.158 24.07 0.00 0.00 3.10
317 318 1.449353 GAGGATGGATTGCCTCGCT 59.551 57.895 0.00 0.00 41.10 4.93
322 323 0.399833 GGAGAGGAGGATGGATTGCC 59.600 60.000 0.00 0.00 0.00 4.52
352 353 1.565156 CCGGAGATCGCTCTCTCTCG 61.565 65.000 15.37 10.53 46.11 4.04
353 354 1.852067 GCCGGAGATCGCTCTCTCTC 61.852 65.000 15.37 3.78 46.11 3.20
354 355 1.896660 GCCGGAGATCGCTCTCTCT 60.897 63.158 15.37 0.00 46.11 3.10
444 451 1.964223 GAGAAGATGGGCGGAGATACA 59.036 52.381 0.00 0.00 0.00 2.29
454 461 4.256920 CTGTGTACCTTTGAGAAGATGGG 58.743 47.826 0.00 0.00 34.71 4.00
458 465 4.587262 TGCTACTGTGTACCTTTGAGAAGA 59.413 41.667 0.00 0.00 34.71 2.87
473 480 0.399233 GGAGGGGGATCTGCTACTGT 60.399 60.000 0.00 0.00 0.00 3.55
502 509 3.259633 AAGCAAGGGGACGCCTCAG 62.260 63.158 12.13 8.89 0.00 3.35
512 519 1.288127 GCAGACAAGCAAGCAAGGG 59.712 57.895 0.00 0.00 0.00 3.95
513 520 1.081641 CGCAGACAAGCAAGCAAGG 60.082 57.895 0.00 0.00 0.00 3.61
514 521 1.728426 GCGCAGACAAGCAAGCAAG 60.728 57.895 0.30 0.00 0.00 4.01
515 522 2.332514 GCGCAGACAAGCAAGCAA 59.667 55.556 0.30 0.00 0.00 3.91
516 523 4.016629 CGCGCAGACAAGCAAGCA 62.017 61.111 8.75 0.00 0.00 3.91
529 536 3.579626 AAAGAAAGAGTGCGCGCGC 62.580 57.895 45.02 45.02 42.35 6.86
530 537 1.789739 CAAAGAAAGAGTGCGCGCG 60.790 57.895 28.44 28.44 0.00 6.86
531 538 2.077198 GCAAAGAAAGAGTGCGCGC 61.077 57.895 27.26 27.26 0.00 6.86
532 539 1.441016 GGCAAAGAAAGAGTGCGCG 60.441 57.895 0.00 0.00 39.22 6.86
533 540 1.441016 CGGCAAAGAAAGAGTGCGC 60.441 57.895 0.00 0.00 39.22 6.09
534 541 1.207593 CCGGCAAAGAAAGAGTGCG 59.792 57.895 0.00 0.00 39.22 5.34
535 542 1.168714 ATCCGGCAAAGAAAGAGTGC 58.831 50.000 0.00 0.00 37.55 4.40
554 561 7.097192 CACAATTAGTACCAGCTAGAACAGAA 58.903 38.462 0.00 0.00 0.00 3.02
563 570 2.012051 GCGCCACAATTAGTACCAGCT 61.012 52.381 0.00 0.00 0.00 4.24
569 576 2.027561 ACAAGGAGCGCCACAATTAGTA 60.028 45.455 9.88 0.00 36.29 1.82
584 603 1.444933 ACCATGGACCAGAACAAGGA 58.555 50.000 21.47 0.00 0.00 3.36
639 663 2.971660 TCCTCCGCATCGATTTACAA 57.028 45.000 0.00 0.00 0.00 2.41
684 715 3.009723 AGGGCATAAATGTGACGTCTTG 58.990 45.455 17.92 4.41 0.00 3.02
690 721 3.498397 CCATCGTAGGGCATAAATGTGAC 59.502 47.826 0.00 0.00 0.00 3.67
707 738 1.154301 CGTTTTGGGAACGCCATCG 60.154 57.895 0.00 0.00 42.43 3.84
803 924 3.489738 GGAGGAAATGATGATTTGGCACG 60.490 47.826 0.00 0.00 31.58 5.34
848 973 3.140814 GAGGATTTGGCGGTGGGC 61.141 66.667 0.00 0.00 42.51 5.36
849 974 1.750399 CAGAGGATTTGGCGGTGGG 60.750 63.158 0.00 0.00 0.00 4.61
850 975 0.609131 AACAGAGGATTTGGCGGTGG 60.609 55.000 0.00 0.00 0.00 4.61
881 1006 6.016860 ACCTAAACACAATAGAAACGGGAAAC 60.017 38.462 0.00 0.00 0.00 2.78
885 1010 5.952526 AACCTAAACACAATAGAAACGGG 57.047 39.130 0.00 0.00 0.00 5.28
923 1048 2.008329 GGAGCTCATGTTCTGCTTCTG 58.992 52.381 17.19 0.00 37.16 3.02
924 1049 1.405256 CGGAGCTCATGTTCTGCTTCT 60.405 52.381 17.19 0.00 37.16 2.85
925 1050 1.005340 CGGAGCTCATGTTCTGCTTC 58.995 55.000 17.19 0.00 37.16 3.86
926 1051 3.149899 CGGAGCTCATGTTCTGCTT 57.850 52.632 17.19 0.00 37.16 3.91
927 1052 4.928398 CGGAGCTCATGTTCTGCT 57.072 55.556 17.19 0.00 40.02 4.24
962 1100 1.039068 CCCAGCACATGAAAACACCA 58.961 50.000 0.00 0.00 0.00 4.17
1217 1355 2.103094 TCTCATAAGATTCAGTGGCCGG 59.897 50.000 0.00 0.00 0.00 6.13
1251 1389 3.669536 TCAACATTCGAACTGTATGGCA 58.330 40.909 0.00 0.00 30.21 4.92
1315 1453 9.196552 GAAAGTAACAAATGAGCTAAGCATTTT 57.803 29.630 8.68 0.62 42.33 1.82
1398 1537 6.071616 TGAGCCAAGTCAAAACTTTTACACTT 60.072 34.615 5.48 5.48 43.28 3.16
1500 1639 2.751806 CCTTGCCAGATTCAGGAACTTC 59.248 50.000 0.00 0.00 34.60 3.01
1529 1668 8.971321 CCAGAAAACATAAACTTCACAGAAATG 58.029 33.333 0.00 0.00 0.00 2.32
1612 1755 4.453136 TCAGCCTCGTACCATTTACAAAAC 59.547 41.667 0.00 0.00 0.00 2.43
1629 1773 5.489792 TTAAGTGAACTCATTCTCAGCCT 57.510 39.130 0.00 0.00 35.69 4.58
1676 1909 2.028020 ACAAGGAGTCCCGAAGAATGAC 60.028 50.000 5.25 0.00 37.58 3.06
1768 2003 4.805192 CACTACAAATTTTGTGCTGCAGTT 59.195 37.500 22.04 0.00 45.03 3.16
1782 2017 5.772672 TGTTTTCCATACCAGCACTACAAAT 59.227 36.000 0.00 0.00 0.00 2.32
1786 2021 5.897377 ATTGTTTTCCATACCAGCACTAC 57.103 39.130 0.00 0.00 0.00 2.73
1902 2170 1.556911 ACAGAGGAGCGAAATCACCAT 59.443 47.619 0.00 0.00 0.00 3.55
1951 2221 3.946558 AGGAGCAGATCATGAAAAGCTTC 59.053 43.478 16.88 15.42 31.61 3.86
2195 2577 3.122278 CCTACACAAACCGTAACACATCG 59.878 47.826 0.00 0.00 0.00 3.84
2218 2600 6.369059 ACTTGAGTTGTCTGAAATTGTGAG 57.631 37.500 0.00 0.00 0.00 3.51
2232 2614 3.745975 TGAGATGCGGTTAACTTGAGTTG 59.254 43.478 5.42 0.00 38.90 3.16
2260 2642 3.332034 TGCTTTAGTAGAAACTTCCCGC 58.668 45.455 0.00 0.00 37.15 6.13
2509 2891 3.582714 AAAGTTACGAGGTAGAACCGG 57.417 47.619 0.00 0.00 44.90 5.28
2566 3008 2.009051 TGAACGCAAGCATCATAGTGG 58.991 47.619 0.00 0.00 45.62 4.00
2791 3236 5.582269 TGTGAGAACAGAACAGAACAGAAAG 59.418 40.000 0.00 0.00 0.00 2.62
2853 3305 2.945668 AGCAATCCAAGTCGGCTTATTC 59.054 45.455 0.00 0.00 32.87 1.75
2857 3309 2.489938 TAAGCAATCCAAGTCGGCTT 57.510 45.000 0.00 0.00 45.78 4.35
3116 3585 2.994995 ATCCCACCGCTCGTGTCA 60.995 61.111 0.80 0.00 41.26 3.58
3177 3646 4.582656 ACTGATGCACTTCTAGTAGCTAGG 59.417 45.833 0.00 0.00 35.03 3.02
3230 3699 5.960202 AGGCATGAATTTTCCAAGATAAGGT 59.040 36.000 0.00 0.00 0.00 3.50
3361 3833 7.602753 ACATGGAAATTTCTAGTAGCAAAACC 58.397 34.615 17.42 0.00 0.00 3.27
3393 3865 3.392616 AGTAATATCCAGACTTGGCCCTG 59.607 47.826 0.00 0.00 44.63 4.45
3490 3962 8.943002 ACTAAAATAGGAACAAACAGGATTACG 58.057 33.333 0.00 0.00 0.00 3.18
3637 4109 6.620678 TGATGTGAAAAGTAAGGCATAAAGC 58.379 36.000 0.00 0.00 44.65 3.51
3850 4332 6.568869 TGATACTTCCACCTTTGTTTGTTTG 58.431 36.000 0.00 0.00 0.00 2.93
3890 4372 3.255642 CACCCTGTCGAAAATTGGTTGAT 59.744 43.478 0.00 0.00 0.00 2.57
4118 4601 2.202703 GCGGCGGACTCGTACATT 60.203 61.111 9.78 0.00 38.89 2.71


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

AutoCloner maintained by Alex Coulton.