Multiple sequence alignment - TraesCS7B01G230300

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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 TraesCS7B01G230300 chr7B 100.000 8173 0 0 1 8173 432915236 432923408 0.000000e+00 15093.0
1 TraesCS7B01G230300 chr7B 97.468 158 4 0 2220 2377 432917377 432917534 3.760000e-68 270.0
2 TraesCS7B01G230300 chr7B 97.468 158 4 0 2142 2299 432917455 432917612 3.760000e-68 270.0
3 TraesCS7B01G230300 chr7B 97.500 80 2 0 2298 2377 432917377 432917456 3.980000e-28 137.0
4 TraesCS7B01G230300 chr7B 97.500 80 2 0 2142 2221 432917533 432917612 3.980000e-28 137.0
5 TraesCS7B01G230300 chr7A 96.138 5437 124 38 251 5639 481581793 481587191 0.000000e+00 8798.0
6 TraesCS7B01G230300 chr7A 92.507 1895 58 37 5729 7603 481587356 481589186 0.000000e+00 2636.0
7 TraesCS7B01G230300 chr7A 87.841 403 33 2 7769 8171 481589349 481589735 7.480000e-125 459.0
8 TraesCS7B01G230300 chr7A 92.193 269 9 3 1 264 481581512 481581773 3.600000e-98 370.0
9 TraesCS7B01G230300 chr7A 83.333 408 56 4 7778 8173 481590609 481591016 4.660000e-97 366.0
10 TraesCS7B01G230300 chr7A 83.042 401 54 6 7784 8173 481589773 481590170 1.310000e-92 351.0
11 TraesCS7B01G230300 chr7A 82.250 400 55 7 7774 8160 481589546 481589942 1.700000e-86 331.0
12 TraesCS7B01G230300 chr7A 97.468 158 4 0 2220 2377 481583687 481583844 3.760000e-68 270.0
13 TraesCS7B01G230300 chr7A 98.065 155 3 0 2142 2296 481583765 481583919 3.760000e-68 270.0
14 TraesCS7B01G230300 chr7A 78.973 409 64 10 7773 8171 481591438 481591834 8.140000e-65 259.0
15 TraesCS7B01G230300 chr7A 78.713 404 58 15 7772 8173 481591038 481591415 2.280000e-60 244.0
16 TraesCS7B01G230300 chr7A 97.938 97 2 0 5640 5736 481587153 481587249 1.410000e-37 169.0
17 TraesCS7B01G230300 chr7A 98.701 77 1 0 2142 2218 481583843 481583919 3.980000e-28 137.0
18 TraesCS7B01G230300 chr7A 96.250 80 3 0 2298 2377 481583687 481583766 1.850000e-26 132.0
19 TraesCS7B01G230300 chr7A 97.826 46 0 1 7621 7665 481589239 481589284 2.450000e-10 78.7
20 TraesCS7B01G230300 chr7D 96.407 2755 63 17 2911 5639 416962605 416965349 0.000000e+00 4506.0
21 TraesCS7B01G230300 chr7D 93.587 1996 70 27 5640 7612 416965311 416967271 0.000000e+00 2924.0
22 TraesCS7B01G230300 chr7D 95.121 1701 61 8 1181 2871 416960909 416962597 0.000000e+00 2662.0
23 TraesCS7B01G230300 chr7D 94.895 901 17 12 251 1128 416959607 416960501 0.000000e+00 1382.0
24 TraesCS7B01G230300 chr7D 83.964 555 53 13 7621 8160 416967417 416967950 4.400000e-137 499.0
25 TraesCS7B01G230300 chr7D 95.131 267 8 1 1 267 416959331 416959592 4.560000e-112 416.0
26 TraesCS7B01G230300 chr7D 82.850 414 55 8 7773 8173 416968699 416969109 2.810000e-94 357.0
27 TraesCS7B01G230300 chr7D 82.864 391 65 2 7784 8173 416971580 416971969 4.690000e-92 350.0
28 TraesCS7B01G230300 chr7D 82.482 411 59 5 7775 8173 416968917 416969326 1.690000e-91 348.0
29 TraesCS7B01G230300 chr7D 81.818 407 62 6 7779 8173 416969137 416969543 1.700000e-86 331.0
30 TraesCS7B01G230300 chr7D 81.343 402 62 4 7784 8172 416970414 416970815 1.710000e-81 315.0
31 TraesCS7B01G230300 chr7D 79.854 412 62 8 7773 8173 416969980 416970381 1.740000e-71 281.0
32 TraesCS7B01G230300 chr7D 95.570 158 7 0 2142 2299 416961946 416962103 3.790000e-63 254.0
33 TraesCS7B01G230300 chr7D 78.870 407 61 13 7778 8172 416971780 416972173 1.360000e-62 252.0
34 TraesCS7B01G230300 chr7D 84.351 262 29 5 7913 8173 416971297 416971547 6.340000e-61 246.0
35 TraesCS7B01G230300 chr7D 94.268 157 9 0 2220 2376 416961868 416962024 2.950000e-59 241.0
36 TraesCS7B01G230300 chr7D 97.436 78 2 0 2144 2221 416962026 416962103 5.150000e-27 134.0
37 TraesCS7B01G230300 chr7D 83.217 143 21 3 7774 7915 416967983 416968123 2.390000e-25 128.0
38 TraesCS7B01G230300 chr7D 95.000 80 4 0 2298 2377 416961868 416961947 8.610000e-25 126.0


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 TraesCS7B01G230300 chr7B 432915236 432923408 8172 False 15093.000000 15093 100.000000 1 8173 1 chr7B.!!$F1 8172
1 TraesCS7B01G230300 chr7A 481581512 481591834 10322 False 991.380000 8798 90.749200 1 8173 15 chr7A.!!$F1 8172
2 TraesCS7B01G230300 chr7D 416959331 416972173 12842 False 829.052632 4506 88.369895 1 8173 19 chr7D.!!$F1 8172

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
204 205 0.776176 GGAGGGGGCATTCAGATCAT 59.224 55.000 0.00 0.0 0.00 2.45 F
1041 1139 1.078656 ACAGAAAGAGAGAGGGCTCCT 59.921 52.381 0.00 0.0 42.30 3.69 F
1939 2408 0.685097 AACATGCTACCGTCACTGGT 59.315 50.000 0.00 0.0 46.26 4.00 F
3742 4213 0.538584 TGCAGCTCTAGTGATGGTGG 59.461 55.000 11.63 0.0 0.00 4.61 F
3743 4214 0.826715 GCAGCTCTAGTGATGGTGGA 59.173 55.000 11.63 0.0 0.00 4.02 F
4577 5074 1.168714 GGATGTGGTGCAACTCCTTC 58.831 55.000 2.04 1.4 36.74 3.46 F
5633 6130 0.250252 TGGTCGACATGCTTTGCTGA 60.250 50.000 18.91 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1289 1745 0.179073 GGAGATTTAGAGCTGGCGCA 60.179 55.000 10.83 0.0 39.10 6.09 R
2205 2675 1.476488 ACGGCAAAAATACCATCCAGC 59.524 47.619 0.00 0.0 0.00 4.85 R
3932 4403 1.142748 CCTAGAAGAGCGGCCAGTG 59.857 63.158 2.24 0.0 0.00 3.66 R
5617 6114 0.448990 GCATCAGCAAAGCATGTCGA 59.551 50.000 0.00 0.0 41.58 4.20 R
5618 6115 2.939782 GCATCAGCAAAGCATGTCG 58.060 52.632 0.00 0.0 41.58 4.35 R
6440 7053 1.165907 TTGGTCAGGCAGCAAGTTCG 61.166 55.000 0.00 0.0 37.58 3.95 R
7198 7829 0.682209 AGCGATGCCTTGCTTGGATT 60.682 50.000 0.00 0.0 39.17 3.01 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
26 27 2.792542 CGTGTCGATTCGGTTAGGGTAC 60.793 54.545 6.18 0.00 0.00 3.34
27 28 2.164219 GTGTCGATTCGGTTAGGGTACA 59.836 50.000 6.18 0.00 0.00 2.90
80 81 1.210478 GCAGGATGTGTGGAGGTGTAT 59.790 52.381 0.00 0.00 39.31 2.29
83 84 2.912956 AGGATGTGTGGAGGTGTATGTT 59.087 45.455 0.00 0.00 0.00 2.71
100 101 8.349983 GGTGTATGTTTATTCAGTGAAGTGTTT 58.650 33.333 11.91 0.00 0.00 2.83
101 102 9.169468 GTGTATGTTTATTCAGTGAAGTGTTTG 57.831 33.333 11.91 0.00 0.00 2.93
102 103 8.898761 TGTATGTTTATTCAGTGAAGTGTTTGT 58.101 29.630 11.91 0.00 0.00 2.83
140 141 1.067495 GGACAGTGACTGTAGAGCACC 60.067 57.143 19.46 10.59 45.44 5.01
188 189 5.607477 TGGGTAGTTAAATAGCGAATGGAG 58.393 41.667 6.10 0.00 0.00 3.86
204 205 0.776176 GGAGGGGGCATTCAGATCAT 59.224 55.000 0.00 0.00 0.00 2.45
297 367 3.410508 TGTGTTGAATGCATGCTCTGTA 58.589 40.909 20.33 0.00 0.00 2.74
392 462 1.592400 TGCTGCCGCAGATATCACG 60.592 57.895 24.80 8.25 42.25 4.35
578 648 6.875195 CAGAGAGAAGAAAAGAAGAGATTGCT 59.125 38.462 0.00 0.00 0.00 3.91
812 899 1.960763 CACCGTAGCAACAGCAGCA 60.961 57.895 0.00 0.00 0.00 4.41
813 900 1.669115 ACCGTAGCAACAGCAGCAG 60.669 57.895 0.00 0.00 0.00 4.24
866 953 3.495629 GGTTGGGTCCGGTATATTCCTTC 60.496 52.174 0.00 0.00 0.00 3.46
1026 1124 3.567585 CAGAGACAGACAGACAGACAGAA 59.432 47.826 0.00 0.00 0.00 3.02
1040 1138 1.480545 GACAGAAAGAGAGAGGGCTCC 59.519 57.143 0.00 0.00 42.30 4.70
1041 1139 1.078656 ACAGAAAGAGAGAGGGCTCCT 59.921 52.381 0.00 0.00 42.30 3.69
1153 1254 2.809601 CCGTGCGTGCTACTCCAC 60.810 66.667 0.00 0.00 0.00 4.02
1183 1639 2.378634 CCTCGCTTTCCCCTCCCAT 61.379 63.158 0.00 0.00 0.00 4.00
1209 1665 3.428862 CCGATTAATTTTCCGCCTGCTTT 60.429 43.478 0.00 0.00 0.00 3.51
1417 1873 1.198178 TGTTAGGCACGCCGATTTTTC 59.802 47.619 1.61 0.00 41.95 2.29
1418 1874 1.467342 GTTAGGCACGCCGATTTTTCT 59.533 47.619 1.61 0.00 41.95 2.52
1419 1875 1.816074 TAGGCACGCCGATTTTTCTT 58.184 45.000 1.61 0.00 41.95 2.52
1420 1876 0.958822 AGGCACGCCGATTTTTCTTT 59.041 45.000 1.61 0.00 41.95 2.52
1658 2124 1.339235 CTTTTGCTTGCCACATCGCG 61.339 55.000 0.00 0.00 0.00 5.87
1838 2307 6.238925 GGTTTTAATATTGGGAGTTGGGATCG 60.239 42.308 0.00 0.00 0.00 3.69
1936 2405 1.337823 GGTCAACATGCTACCGTCACT 60.338 52.381 0.00 0.00 0.00 3.41
1937 2406 1.726791 GTCAACATGCTACCGTCACTG 59.273 52.381 0.00 0.00 0.00 3.66
1939 2408 0.685097 AACATGCTACCGTCACTGGT 59.315 50.000 0.00 0.00 46.26 4.00
1999 2468 3.827876 TGTGTGAAATCATGCCTGATGTT 59.172 39.130 5.16 2.82 41.34 2.71
2006 2476 3.965379 TCATGCCTGATGTTTTGCAAT 57.035 38.095 0.00 0.00 37.27 3.56
2013 2483 5.047164 TGCCTGATGTTTTGCAATATCACTT 60.047 36.000 14.08 3.26 36.04 3.16
2016 2486 6.869913 CCTGATGTTTTGCAATATCACTTGTT 59.130 34.615 14.08 0.00 36.04 2.83
2278 2748 7.826744 TCCACAATACATGCTGTTTGACTTATA 59.173 33.333 0.00 0.00 0.00 0.98
2368 2838 6.186957 TGTTTGACTTATGTATGGCTGGATT 58.813 36.000 0.00 0.00 0.00 3.01
2592 3062 4.038642 ACCAATTTCCAATTTGTACGTGCT 59.961 37.500 4.97 0.00 0.00 4.40
2664 3134 9.893305 GCAGTAACATCTTTTTGTTTGTATACT 57.107 29.630 4.17 0.00 40.25 2.12
2807 3277 8.821686 TTCTGAATTGGCAAAATATCTTCCTA 57.178 30.769 3.01 0.00 0.00 2.94
2808 3278 8.821686 TCTGAATTGGCAAAATATCTTCCTAA 57.178 30.769 3.01 0.00 0.00 2.69
2809 3279 8.686334 TCTGAATTGGCAAAATATCTTCCTAAC 58.314 33.333 3.01 0.00 0.00 2.34
2847 3317 6.892658 TTACAAGTTCAATTACAGTGGCAT 57.107 33.333 0.00 0.00 0.00 4.40
2872 3342 5.482686 TTTTTGCAAGAATTTTGTCCTGC 57.517 34.783 0.00 0.00 0.00 4.85
2873 3343 3.815856 TTGCAAGAATTTTGTCCTGCA 57.184 38.095 0.00 0.00 0.00 4.41
2874 3344 4.339872 TTGCAAGAATTTTGTCCTGCAT 57.660 36.364 0.00 0.00 0.00 3.96
2875 3345 3.916761 TGCAAGAATTTTGTCCTGCATC 58.083 40.909 0.00 0.00 0.00 3.91
2876 3346 3.575256 TGCAAGAATTTTGTCCTGCATCT 59.425 39.130 0.00 0.00 0.00 2.90
2877 3347 3.924686 GCAAGAATTTTGTCCTGCATCTG 59.075 43.478 0.00 0.00 0.00 2.90
2878 3348 4.560108 GCAAGAATTTTGTCCTGCATCTGT 60.560 41.667 0.00 0.00 0.00 3.41
2879 3349 5.335897 GCAAGAATTTTGTCCTGCATCTGTA 60.336 40.000 0.00 0.00 0.00 2.74
2880 3350 6.680810 CAAGAATTTTGTCCTGCATCTGTAA 58.319 36.000 0.00 0.00 0.00 2.41
2881 3351 7.318141 CAAGAATTTTGTCCTGCATCTGTAAT 58.682 34.615 0.00 0.00 0.00 1.89
2922 3392 8.909671 CAGAAAAGAGTTATTGAATGTTGCTTC 58.090 33.333 0.00 0.00 0.00 3.86
2938 3408 7.724305 TGTTGCTTCTCGTAATTCTTTACTT 57.276 32.000 0.00 0.00 36.37 2.24
3257 3728 7.391148 AAACAAGAAGCAGAAGAAACACTTA 57.609 32.000 0.00 0.00 39.13 2.24
3267 3738 6.680378 GCAGAAGAAACACTTAAGAAAGCCAA 60.680 38.462 10.09 0.00 39.13 4.52
3636 4107 7.660617 TGGATTCATCTCAAGAGCTTCATTATC 59.339 37.037 0.00 0.00 0.00 1.75
3644 4115 3.044156 AGAGCTTCATTATCCCAGCAGA 58.956 45.455 0.00 0.00 34.49 4.26
3694 4165 5.240183 AGACACTGTTCAGAAATGATTGTGG 59.760 40.000 6.83 0.00 31.03 4.17
3740 4211 3.423539 TTTTGCAGCTCTAGTGATGGT 57.576 42.857 11.63 0.00 0.00 3.55
3742 4213 0.538584 TGCAGCTCTAGTGATGGTGG 59.461 55.000 11.63 0.00 0.00 4.61
3743 4214 0.826715 GCAGCTCTAGTGATGGTGGA 59.173 55.000 11.63 0.00 0.00 4.02
3744 4215 1.208052 GCAGCTCTAGTGATGGTGGAA 59.792 52.381 11.63 0.00 0.00 3.53
3830 4301 5.293814 CAGAGGCAGTGATTTTCATCTAGTG 59.706 44.000 0.00 0.00 0.00 2.74
3932 4403 9.353999 GTTACTCATGGTCCAAATGAAAAATAC 57.646 33.333 0.00 0.00 33.76 1.89
4076 4547 8.517323 AGAATTTCATCCATAGGAGGAGTAAT 57.483 34.615 0.47 0.00 43.48 1.89
4092 4563 7.310485 GGAGGAGTAATGAAGTTCCACTTAAGA 60.310 40.741 10.09 0.00 38.80 2.10
4118 4589 2.682856 TGAAACAGGAGCAAGTCACAAC 59.317 45.455 0.00 0.00 0.00 3.32
4136 4607 6.475402 GTCACAACCATTTTACAAGTCCAAAG 59.525 38.462 0.00 0.00 0.00 2.77
4400 4871 2.364632 CAAGCCAATGATGTTACCGGA 58.635 47.619 9.46 0.00 0.00 5.14
4444 4915 1.839354 TGGTATGGCTGAATCTGCAGA 59.161 47.619 20.79 20.79 38.14 4.26
4536 5033 5.189180 GGTCATTTTGCAGATCCTAAGTCT 58.811 41.667 0.00 0.00 0.00 3.24
4568 5065 4.398988 TGACTTAATGATTGGATGTGGTGC 59.601 41.667 0.00 0.00 0.00 5.01
4577 5074 1.168714 GGATGTGGTGCAACTCCTTC 58.831 55.000 2.04 1.40 36.74 3.46
4698 5195 1.590932 CAGATGCCTACATGTCTGCC 58.409 55.000 0.00 0.00 36.35 4.85
4930 5427 5.688814 TGATCTCAGTTCCTTGACATCAT 57.311 39.130 0.00 0.00 30.66 2.45
4935 5432 5.089970 TCAGTTCCTTGACATCATACCAG 57.910 43.478 0.00 0.00 0.00 4.00
5021 5518 8.304596 GTGGTCTACGAAGAATATGGATAATGA 58.695 37.037 0.00 0.00 32.16 2.57
5041 5538 7.636150 AATGATTTTGATGTACAAGAGGGAG 57.364 36.000 0.00 0.00 39.77 4.30
5078 5575 3.560481 TCGAATACCACAAGCGTTTTGAA 59.440 39.130 8.47 0.00 0.00 2.69
5100 5597 1.572085 CTCAACCTGTGCCTGCGAAG 61.572 60.000 0.00 0.00 0.00 3.79
5128 5625 6.183359 GCATAAACCATTTGAGCAAAGTAACG 60.183 38.462 1.92 0.00 33.32 3.18
5156 5653 6.013032 TCCTTTTCAGAATCATCTTCCTCTGT 60.013 38.462 0.00 0.00 37.25 3.41
5252 5749 9.010029 TGAAAAGTAAGTTGTCTTGAGTCTTTT 57.990 29.630 0.00 0.00 36.21 2.27
5276 5773 6.954944 TGTTGTGTTTACTGATTCTAAGCAC 58.045 36.000 6.00 6.00 36.42 4.40
5492 5989 9.448438 AGTTCTTATTATGAACAGTGTAATGCA 57.552 29.630 19.05 0.00 44.30 3.96
5616 6113 5.183140 AGACCGTTTTTCCTGTGAAATATGG 59.817 40.000 12.33 12.33 46.08 2.74
5617 6114 5.385509 CCGTTTTTCCTGTGAAATATGGT 57.614 39.130 7.95 0.00 40.69 3.55
5618 6115 5.399013 CCGTTTTTCCTGTGAAATATGGTC 58.601 41.667 7.95 0.00 40.69 4.02
5619 6116 5.086058 CGTTTTTCCTGTGAAATATGGTCG 58.914 41.667 0.00 0.00 40.08 4.79
5620 6117 5.106869 CGTTTTTCCTGTGAAATATGGTCGA 60.107 40.000 0.00 0.00 40.08 4.20
5621 6118 5.873179 TTTTCCTGTGAAATATGGTCGAC 57.127 39.130 7.13 7.13 40.08 4.20
5622 6119 4.545208 TTCCTGTGAAATATGGTCGACA 57.455 40.909 18.91 3.91 0.00 4.35
5623 6120 4.753516 TCCTGTGAAATATGGTCGACAT 57.246 40.909 18.91 11.34 43.68 3.06
5624 6121 4.441792 TCCTGTGAAATATGGTCGACATG 58.558 43.478 18.91 0.00 40.82 3.21
5625 6122 3.002656 CCTGTGAAATATGGTCGACATGC 59.997 47.826 18.91 0.00 40.82 4.06
5626 6123 3.872696 TGTGAAATATGGTCGACATGCT 58.127 40.909 18.91 0.73 40.82 3.79
5627 6124 4.260985 TGTGAAATATGGTCGACATGCTT 58.739 39.130 18.91 3.39 40.82 3.91
5628 6125 4.699735 TGTGAAATATGGTCGACATGCTTT 59.300 37.500 18.91 11.03 40.82 3.51
5629 6126 5.030295 GTGAAATATGGTCGACATGCTTTG 58.970 41.667 18.91 0.00 40.82 2.77
5630 6127 3.698029 AATATGGTCGACATGCTTTGC 57.302 42.857 18.91 0.00 40.82 3.68
5631 6128 2.401583 TATGGTCGACATGCTTTGCT 57.598 45.000 18.91 0.00 40.82 3.91
5632 6129 0.806868 ATGGTCGACATGCTTTGCTG 59.193 50.000 18.91 0.00 38.70 4.41
5633 6130 0.250252 TGGTCGACATGCTTTGCTGA 60.250 50.000 18.91 0.00 0.00 4.26
5634 6131 1.089920 GGTCGACATGCTTTGCTGAT 58.910 50.000 18.91 0.00 0.00 2.90
5635 6132 1.202110 GGTCGACATGCTTTGCTGATG 60.202 52.381 18.91 0.00 0.00 3.07
5636 6133 0.448990 TCGACATGCTTTGCTGATGC 59.551 50.000 0.00 0.00 40.20 3.91
5649 6146 3.581024 GCTGATGCAATTTCCTGTGAA 57.419 42.857 0.00 0.00 39.41 3.18
5650 6147 3.916761 GCTGATGCAATTTCCTGTGAAA 58.083 40.909 0.00 0.00 40.77 2.69
5652 6149 5.185442 TGCTGATGCAATTTCCTGTGAAATA 59.815 36.000 0.00 0.00 44.94 1.40
5653 6150 6.127281 TGCTGATGCAATTTCCTGTGAAATAT 60.127 34.615 0.00 0.00 44.94 1.28
5654 6151 8.108837 TGCTGATGCAATTTCCTGTGAAATATG 61.109 37.037 0.00 4.28 44.94 1.78
5730 6227 2.068519 GCAAGTTATTTGTGCCCAAGC 58.931 47.619 0.00 0.00 39.08 4.01
5781 6392 9.590451 AGGTTGCTAACAAATCAATCATAAATG 57.410 29.630 0.00 0.00 37.58 2.32
6017 6629 6.995686 TGGTGACTCTGAAAAGCTACAAAATA 59.004 34.615 0.00 0.00 0.00 1.40
6195 6807 1.244816 TATCGCGTACCTCATGGGAG 58.755 55.000 5.77 0.00 38.40 4.30
6440 7053 1.474077 CCAGAATGTAAGGTGCAAGCC 59.526 52.381 0.00 0.00 32.25 4.35
6455 7068 2.669569 GCCGAACTTGCTGCCTGA 60.670 61.111 0.00 0.00 0.00 3.86
6494 7107 4.033019 GTGCTTGGTTCGTTTTGAGTTAC 58.967 43.478 0.00 0.00 0.00 2.50
6496 7109 4.034742 TGCTTGGTTCGTTTTGAGTTACTC 59.965 41.667 5.27 5.27 0.00 2.59
6505 7118 6.978338 TCGTTTTGAGTTACTCAGTCAGTAT 58.022 36.000 14.99 0.00 41.75 2.12
6506 7119 6.861572 TCGTTTTGAGTTACTCAGTCAGTATG 59.138 38.462 14.99 4.77 41.75 2.39
6507 7120 6.861572 CGTTTTGAGTTACTCAGTCAGTATGA 59.138 38.462 14.99 0.00 42.04 2.15
6547 7166 4.148838 CAAGGTCCATTTTGTAGGGTGAA 58.851 43.478 0.00 0.00 0.00 3.18
6673 7292 2.334023 GCTGTCATTCCTAGGGGATCT 58.666 52.381 9.46 0.00 41.87 2.75
6739 7358 3.962421 CGGTCTACCTAGGCGGCG 61.962 72.222 9.30 0.51 35.61 6.46
6787 7411 4.998400 TTGCCTGCTAACGCGCCA 62.998 61.111 5.73 0.00 39.65 5.69
7113 7742 6.712095 TGTACAGACAGAAAAATGAGAGCAAT 59.288 34.615 0.00 0.00 0.00 3.56
7145 7774 5.229423 TGCTACTCAATGTTTTTCCAATGC 58.771 37.500 0.00 0.00 0.00 3.56
7198 7829 5.779771 ACCTGGCTTTTCCTTGATTAATCAA 59.220 36.000 25.44 25.44 43.94 2.57
7208 7839 7.479352 TCCTTGATTAATCAAATCCAAGCAA 57.521 32.000 26.57 5.81 45.26 3.91
7209 7840 7.549839 TCCTTGATTAATCAAATCCAAGCAAG 58.450 34.615 26.57 13.71 45.26 4.01
7210 7841 7.766219 CTTGATTAATCAAATCCAAGCAAGG 57.234 36.000 26.57 10.63 45.26 3.61
7211 7842 5.663456 TGATTAATCAAATCCAAGCAAGGC 58.337 37.500 15.82 0.00 42.97 4.35
7212 7843 5.187381 TGATTAATCAAATCCAAGCAAGGCA 59.813 36.000 15.82 0.00 42.97 4.75
7213 7844 5.680594 TTAATCAAATCCAAGCAAGGCAT 57.319 34.783 0.00 0.00 0.00 4.40
7214 7845 3.814005 ATCAAATCCAAGCAAGGCATC 57.186 42.857 0.00 0.00 0.00 3.91
7215 7846 1.473677 TCAAATCCAAGCAAGGCATCG 59.526 47.619 0.00 0.00 0.00 3.84
7216 7847 0.174162 AAATCCAAGCAAGGCATCGC 59.826 50.000 0.00 0.00 0.00 4.58
7217 7848 0.682209 AATCCAAGCAAGGCATCGCT 60.682 50.000 0.00 0.00 41.20 4.93
7218 7849 0.181114 ATCCAAGCAAGGCATCGCTA 59.819 50.000 0.00 0.00 37.54 4.26
7219 7850 0.462581 TCCAAGCAAGGCATCGCTAG 60.463 55.000 0.00 0.00 37.54 3.42
7225 7868 1.672881 GCAAGGCATCGCTAGACATTT 59.327 47.619 0.00 0.00 0.00 2.32
7419 8071 4.399978 CGAACGTGTTGTTTTGAAGAACT 58.600 39.130 0.00 0.00 42.09 3.01
7495 8152 1.827969 CTCTTCCGGTCTCCTGACATT 59.172 52.381 0.00 0.00 44.61 2.71
7516 8173 4.067972 TCACGTCCTGAAGCTTTAAAGT 57.932 40.909 16.38 0.00 0.00 2.66
7518 8175 4.058817 CACGTCCTGAAGCTTTAAAGTCT 58.941 43.478 16.38 10.93 0.00 3.24
7665 8464 9.769093 CGTAATCCGACTTGATTTTTCTTAAAT 57.231 29.630 0.00 0.00 39.56 1.40
7690 8503 7.834068 AAGACATAGACACACATACATTCAC 57.166 36.000 0.00 0.00 0.00 3.18
7699 8512 5.994668 ACACACATACATTCACACATACACA 59.005 36.000 0.00 0.00 0.00 3.72
7700 8513 6.073276 ACACACATACATTCACACATACACAC 60.073 38.462 0.00 0.00 0.00 3.82
7710 8523 4.469586 TCACACATACACACACCCTATGAT 59.530 41.667 0.00 0.00 0.00 2.45
7712 8525 4.051237 CACATACACACACCCTATGATCG 58.949 47.826 0.00 0.00 0.00 3.69
7713 8526 3.704566 ACATACACACACCCTATGATCGT 59.295 43.478 0.00 0.00 0.00 3.73
7716 8529 2.429610 ACACACACCCTATGATCGTACC 59.570 50.000 0.00 0.00 0.00 3.34
7725 8538 2.380084 ATGATCGTACCCACACACAC 57.620 50.000 0.00 0.00 0.00 3.82
7745 8558 4.852118 ACACCCTACCCATATTATGAGCAT 59.148 41.667 5.21 0.00 0.00 3.79
7748 8561 5.426833 ACCCTACCCATATTATGAGCATCTC 59.573 44.000 5.21 0.00 34.92 2.75
7752 8565 4.718774 ACCCATATTATGAGCATCTCCGAT 59.281 41.667 5.21 0.00 34.92 4.18
7761 8574 1.810853 CATCTCCGATGTGCGCACA 60.811 57.895 41.97 41.97 46.44 4.57
7776 8589 2.416547 GCGCACATACATTGTCTTGAGT 59.583 45.455 0.30 0.00 36.00 3.41
7834 8647 0.673644 GGTTAGACCAGCACGTGCAT 60.674 55.000 39.21 25.38 45.16 3.96
7847 8660 1.097547 CGTGCATCCTCATGTTCCCC 61.098 60.000 0.00 0.00 31.86 4.81
7848 8661 1.097547 GTGCATCCTCATGTTCCCCG 61.098 60.000 0.00 0.00 31.86 5.73
7854 8667 0.462759 CCTCATGTTCCCCGAGCTTC 60.463 60.000 0.00 0.00 0.00 3.86
7855 8668 0.807667 CTCATGTTCCCCGAGCTTCG 60.808 60.000 0.00 0.00 40.07 3.79
7915 8728 4.104383 ACACACATTCACCTCCATCTTT 57.896 40.909 0.00 0.00 0.00 2.52
7960 8773 1.280710 TGAACCGGATAAGGTGTGCAT 59.719 47.619 9.46 0.00 45.21 3.96
8023 8836 6.484288 ACAATTAATGATGAACCAGGTCAGA 58.516 36.000 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 6.721208 ACCACCAGGGCAATATATATTTCTTG 59.279 38.462 5.18 7.66 42.05 3.02
27 28 6.863322 ACCACCAGGGCAATATATATTTCTT 58.137 36.000 5.18 0.00 42.05 2.52
80 81 7.598278 ACAACAAACACTTCACTGAATAAACA 58.402 30.769 0.00 0.00 0.00 2.83
83 84 7.598278 ACAACAACAAACACTTCACTGAATAA 58.402 30.769 0.00 0.00 0.00 1.40
100 101 2.692557 CCCCATCTCAACAACAACAACA 59.307 45.455 0.00 0.00 0.00 3.33
101 102 2.955660 TCCCCATCTCAACAACAACAAC 59.044 45.455 0.00 0.00 0.00 3.32
102 103 2.955660 GTCCCCATCTCAACAACAACAA 59.044 45.455 0.00 0.00 0.00 2.83
164 165 6.182507 TCCATTCGCTATTTAACTACCCAT 57.817 37.500 0.00 0.00 0.00 4.00
188 189 2.348665 GCATGATCTGAATGCCCCC 58.651 57.895 0.00 0.00 43.78 5.40
204 205 7.101700 CAGCATGTAGATAGATTATTCAGGCA 58.898 38.462 0.00 0.00 34.40 4.75
297 367 4.335735 TCCTGAATGGGATTTGGTTGAT 57.664 40.909 0.00 0.00 36.20 2.57
392 462 0.819666 GGGATGGATGGTTCGGCTTC 60.820 60.000 0.00 0.00 0.00 3.86
605 682 2.038659 ACTCTATCTCTTGCCTCCTGC 58.961 52.381 0.00 0.00 41.77 4.85
765 849 3.504906 TGCTGCTGATTTTCTCCTCTTTG 59.495 43.478 0.00 0.00 0.00 2.77
766 850 3.757493 CTGCTGCTGATTTTCTCCTCTTT 59.243 43.478 0.00 0.00 0.00 2.52
812 899 2.361357 CCTGACCGGACCGACTCT 60.361 66.667 17.49 0.00 33.16 3.24
813 900 2.675772 ACCTGACCGGACCGACTC 60.676 66.667 17.49 9.99 36.31 3.36
866 953 0.458025 GGTAGGTGAGAGGAAACGCG 60.458 60.000 3.53 3.53 34.13 6.01
923 1013 2.778717 GAGGGAATGGGGAGGGGG 60.779 72.222 0.00 0.00 0.00 5.40
1183 1639 1.673920 GGCGGAAAATTAATCGGAGCA 59.326 47.619 0.00 0.00 0.00 4.26
1209 1665 1.078214 CGAAGCAGAGCAATCCCCA 60.078 57.895 0.00 0.00 0.00 4.96
1289 1745 0.179073 GGAGATTTAGAGCTGGCGCA 60.179 55.000 10.83 0.00 39.10 6.09
1638 2104 0.318955 GCGATGTGGCAAGCAAAAGT 60.319 50.000 0.00 0.00 0.00 2.66
1658 2124 1.404391 CAATCCAGCATCTGCCTGTTC 59.596 52.381 0.00 0.00 43.38 3.18
1838 2307 2.563179 TCCAGTCAAGGAGTGCTAGTTC 59.437 50.000 0.00 0.00 32.17 3.01
1936 2405 4.502431 CGGCACCACATATTGTATCTACCA 60.502 45.833 0.00 0.00 0.00 3.25
1937 2406 3.994392 CGGCACCACATATTGTATCTACC 59.006 47.826 0.00 0.00 0.00 3.18
1939 2408 4.948341 ACGGCACCACATATTGTATCTA 57.052 40.909 0.00 0.00 0.00 1.98
1941 2410 4.095782 ACAAACGGCACCACATATTGTATC 59.904 41.667 0.00 0.00 0.00 2.24
1942 2411 4.013728 ACAAACGGCACCACATATTGTAT 58.986 39.130 0.00 0.00 0.00 2.29
1999 2468 6.279123 TGCAGAAAACAAGTGATATTGCAAA 58.721 32.000 1.71 0.00 36.25 3.68
2006 2476 4.523943 AGGCAATGCAGAAAACAAGTGATA 59.476 37.500 7.79 0.00 0.00 2.15
2013 2483 3.225104 AGAGAAGGCAATGCAGAAAACA 58.775 40.909 7.79 0.00 0.00 2.83
2016 2486 3.759581 AGAAGAGAAGGCAATGCAGAAA 58.240 40.909 7.79 0.00 0.00 2.52
2200 2670 4.284234 GGCAAAAATACCATCCAGCCATAT 59.716 41.667 0.00 0.00 40.50 1.78
2205 2675 1.476488 ACGGCAAAAATACCATCCAGC 59.524 47.619 0.00 0.00 0.00 4.85
2278 2748 4.284234 GGCAAAAATACCATCCAGCCATAT 59.716 41.667 0.00 0.00 40.50 1.78
2377 2847 1.917568 AGGCCCTCGTTTTTATACCCA 59.082 47.619 0.00 0.00 0.00 4.51
2541 3011 6.592220 GGTTCTTCCTCTCTGATGAGTTAAAC 59.408 42.308 0.00 0.00 40.98 2.01
2713 3183 2.608546 CTGCTGCTGTCTAGATTCAAGC 59.391 50.000 0.00 11.44 0.00 4.01
2870 3340 5.005740 AGCAGTTCAGAAATTACAGATGCA 58.994 37.500 0.00 0.00 32.53 3.96
2871 3341 5.557891 AGCAGTTCAGAAATTACAGATGC 57.442 39.130 0.00 0.00 0.00 3.91
2872 3342 6.595326 TGGTAGCAGTTCAGAAATTACAGATG 59.405 38.462 0.00 0.00 0.00 2.90
2873 3343 6.711277 TGGTAGCAGTTCAGAAATTACAGAT 58.289 36.000 0.00 0.00 0.00 2.90
2874 3344 6.014584 TCTGGTAGCAGTTCAGAAATTACAGA 60.015 38.462 20.76 0.00 34.97 3.41
2875 3345 6.166279 TCTGGTAGCAGTTCAGAAATTACAG 58.834 40.000 20.76 0.00 34.97 2.74
2876 3346 6.109156 TCTGGTAGCAGTTCAGAAATTACA 57.891 37.500 20.76 0.00 34.97 2.41
2877 3347 7.435068 TTTCTGGTAGCAGTTCAGAAATTAC 57.565 36.000 20.76 0.00 46.26 1.89
2922 3392 8.436200 CCTGACAAAGAAGTAAAGAATTACGAG 58.564 37.037 0.00 0.00 44.97 4.18
2938 3408 1.899814 AGATACACCGCCTGACAAAGA 59.100 47.619 0.00 0.00 0.00 2.52
3257 3728 4.015084 CAGATCCATCAGTTGGCTTTCTT 58.985 43.478 0.00 0.00 46.01 2.52
3267 3738 5.237996 CGCATGTAATTTCAGATCCATCAGT 59.762 40.000 0.00 0.00 0.00 3.41
3644 4115 5.104900 GGTCATATCACTACAGTTCCCACTT 60.105 44.000 0.00 0.00 0.00 3.16
3740 4211 6.327365 TCTCTAGCCAACTATCATCAATTCCA 59.673 38.462 0.00 0.00 0.00 3.53
3742 4213 8.845413 ATTCTCTAGCCAACTATCATCAATTC 57.155 34.615 0.00 0.00 0.00 2.17
3743 4214 9.282569 GAATTCTCTAGCCAACTATCATCAATT 57.717 33.333 0.00 0.00 0.00 2.32
3744 4215 7.882271 GGAATTCTCTAGCCAACTATCATCAAT 59.118 37.037 5.23 0.00 0.00 2.57
3830 4301 7.757624 TCTTTTCTAGCTCTCTTTCTCGAAATC 59.242 37.037 0.00 0.00 0.00 2.17
3911 4382 7.377398 CAGTGTATTTTTCATTTGGACCATGA 58.623 34.615 0.00 0.00 0.00 3.07
3932 4403 1.142748 CCTAGAAGAGCGGCCAGTG 59.857 63.158 2.24 0.00 0.00 3.66
3986 4457 3.724478 ACCAACCTGATCTGGTCTATGA 58.276 45.455 23.03 0.00 42.44 2.15
4001 4472 1.209504 TGAGGCTGTATGCTACCAACC 59.790 52.381 0.00 0.00 42.39 3.77
4092 4563 4.016444 TGACTTGCTCCTGTTTCAAAGTT 58.984 39.130 0.00 0.00 0.00 2.66
4101 4572 0.546122 TGGTTGTGACTTGCTCCTGT 59.454 50.000 0.00 0.00 0.00 4.00
4118 4589 7.044798 TGTTTTCCTTTGGACTTGTAAAATGG 58.955 34.615 0.00 0.00 0.00 3.16
4136 4607 8.392612 CCATTTGATTTGCTATTGATGTTTTCC 58.607 33.333 0.00 0.00 0.00 3.13
4512 5009 4.922206 ACTTAGGATCTGCAAAATGACCA 58.078 39.130 0.00 0.00 0.00 4.02
4514 5011 7.044798 AGTAGACTTAGGATCTGCAAAATGAC 58.955 38.462 0.00 0.00 31.77 3.06
4536 5033 7.718334 TCCAATCATTAAGTCAGTCTGAGTA 57.282 36.000 10.66 0.17 28.24 2.59
4552 5049 2.756760 GAGTTGCACCACATCCAATCAT 59.243 45.455 0.00 0.00 0.00 2.45
4577 5074 5.587844 CCTAATCTGTGATTCCCTTCAACAG 59.412 44.000 0.00 0.00 0.00 3.16
4930 5427 5.010112 CACAGAACTCTGAACTCTTCTGGTA 59.990 44.000 13.61 0.00 46.59 3.25
4935 5432 3.722147 TGCACAGAACTCTGAACTCTTC 58.278 45.455 13.61 0.00 46.59 2.87
5021 5518 7.671398 ACAAATCTCCCTCTTGTACATCAAAAT 59.329 33.333 0.00 0.00 35.48 1.82
5041 5538 1.181786 TTCGATGCCCCCAACAAATC 58.818 50.000 0.00 0.00 0.00 2.17
5078 5575 0.957395 CGCAGGCACAGGTTGAGAAT 60.957 55.000 0.00 0.00 0.00 2.40
5100 5597 3.235157 TGCTCAAATGGTTTATGCAGC 57.765 42.857 0.00 0.00 0.00 5.25
5128 5625 5.593502 AGGAAGATGATTCTGAAAAGGATGC 59.406 40.000 0.00 0.00 30.72 3.91
5156 5653 1.279846 TGAGTTCTCCATGAGCATGCA 59.720 47.619 21.98 0.00 37.49 3.96
5252 5749 6.292649 CGTGCTTAGAATCAGTAAACACAACA 60.293 38.462 0.00 0.00 29.51 3.33
5276 5773 6.554419 TCAAATCAGACAATTTCAATAGCCG 58.446 36.000 0.00 0.00 0.00 5.52
5492 5989 5.189180 CAGAAGTATTAAGCTTCCTTGCCT 58.811 41.667 0.00 0.00 42.27 4.75
5575 6072 2.553028 GGTCTCTTGCACCCTTCATCAA 60.553 50.000 0.00 0.00 0.00 2.57
5616 6113 1.792993 GCATCAGCAAAGCATGTCGAC 60.793 52.381 9.11 9.11 41.58 4.20
5617 6114 0.448990 GCATCAGCAAAGCATGTCGA 59.551 50.000 0.00 0.00 41.58 4.20
5618 6115 2.939782 GCATCAGCAAAGCATGTCG 58.060 52.632 0.00 0.00 41.58 4.35
5628 6125 3.321396 TTTCACAGGAAATTGCATCAGCA 59.679 39.130 0.00 0.00 42.70 4.41
5629 6126 3.581024 TTCACAGGAAATTGCATCAGC 57.419 42.857 0.00 0.00 42.57 4.26
5639 6136 6.493115 ACATGTCAACCATATTTCACAGGAAA 59.507 34.615 0.00 0.00 46.36 3.13
5640 6137 6.009589 ACATGTCAACCATATTTCACAGGAA 58.990 36.000 0.00 0.00 30.71 3.36
5641 6138 5.569355 ACATGTCAACCATATTTCACAGGA 58.431 37.500 0.00 0.00 30.71 3.86
5642 6139 5.902613 ACATGTCAACCATATTTCACAGG 57.097 39.130 0.00 0.00 30.71 4.00
5643 6140 7.116662 CCAAAACATGTCAACCATATTTCACAG 59.883 37.037 0.00 0.00 28.91 3.66
5644 6141 6.927936 CCAAAACATGTCAACCATATTTCACA 59.072 34.615 0.00 0.00 28.91 3.58
5645 6142 6.928492 ACCAAAACATGTCAACCATATTTCAC 59.072 34.615 0.00 0.00 28.91 3.18
5646 6143 6.927936 CACCAAAACATGTCAACCATATTTCA 59.072 34.615 0.00 0.00 28.91 2.69
5647 6144 7.151308 TCACCAAAACATGTCAACCATATTTC 58.849 34.615 0.00 0.00 28.91 2.17
5648 6145 7.060383 TCACCAAAACATGTCAACCATATTT 57.940 32.000 0.00 0.00 31.53 1.40
5649 6146 6.662865 TCACCAAAACATGTCAACCATATT 57.337 33.333 0.00 0.00 30.71 1.28
5650 6147 6.632909 CATCACCAAAACATGTCAACCATAT 58.367 36.000 0.00 0.00 30.71 1.78
5651 6148 5.566429 GCATCACCAAAACATGTCAACCATA 60.566 40.000 0.00 0.00 30.71 2.74
5652 6149 4.800249 GCATCACCAAAACATGTCAACCAT 60.800 41.667 0.00 0.00 0.00 3.55
5653 6150 3.492309 GCATCACCAAAACATGTCAACCA 60.492 43.478 0.00 0.00 0.00 3.67
5654 6151 3.059166 GCATCACCAAAACATGTCAACC 58.941 45.455 0.00 0.00 0.00 3.77
5864 6475 7.920160 AATTTCCACACAAGTTTGACATTTT 57.080 28.000 0.00 0.00 0.00 1.82
6017 6629 3.243301 GGATGCAGATCACGCAATTTCAT 60.243 43.478 13.09 0.00 43.84 2.57
6080 6692 3.118261 ACAGAAGTTCAGAAAGCACTGGA 60.118 43.478 5.50 0.00 38.31 3.86
6195 6807 1.739466 TCAAGAATGATGCACGGAAGC 59.261 47.619 0.00 0.00 0.00 3.86
6370 6983 4.619863 GCTGGATACACTCGGTACTGAAAA 60.620 45.833 5.76 0.00 46.17 2.29
6371 6984 3.119245 GCTGGATACACTCGGTACTGAAA 60.119 47.826 5.76 0.00 46.17 2.69
6380 6993 2.398498 GCTACATGCTGGATACACTCG 58.602 52.381 0.00 0.00 46.17 4.18
6408 7021 8.792633 CACCTTACATTCTGGAATTTTCACTTA 58.207 33.333 0.00 0.00 0.00 2.24
6440 7053 1.165907 TTGGTCAGGCAGCAAGTTCG 61.166 55.000 0.00 0.00 37.58 3.95
6455 7068 5.394115 CCAAGCACTAGAAACAAACTTTGGT 60.394 40.000 6.47 0.00 34.12 3.67
6507 7120 6.115448 ACCTTGCATGTTAGACTTAGAAGT 57.885 37.500 0.00 0.00 43.16 3.01
6508 7121 5.582665 GGACCTTGCATGTTAGACTTAGAAG 59.417 44.000 0.00 0.00 0.00 2.85
6509 7122 5.012664 TGGACCTTGCATGTTAGACTTAGAA 59.987 40.000 0.00 0.00 0.00 2.10
6510 7123 4.530553 TGGACCTTGCATGTTAGACTTAGA 59.469 41.667 0.00 0.00 0.00 2.10
6511 7124 4.832248 TGGACCTTGCATGTTAGACTTAG 58.168 43.478 0.00 0.00 0.00 2.18
6512 7125 4.901197 TGGACCTTGCATGTTAGACTTA 57.099 40.909 0.00 0.00 0.00 2.24
6547 7166 3.755378 GACATCTCAGCTCAAACCATTGT 59.245 43.478 0.00 0.00 37.79 2.71
6739 7358 3.640967 AGTCTTCTCCAGGATGTAGCATC 59.359 47.826 0.00 0.80 0.00 3.91
6787 7411 8.421249 TGTAAATTTCTTCATGGGATTCTTGT 57.579 30.769 0.00 0.00 0.00 3.16
6938 7564 4.397420 TGTTTGCATCATCAGGTGTTAGT 58.603 39.130 0.00 0.00 0.00 2.24
6939 7565 4.142534 CCTGTTTGCATCATCAGGTGTTAG 60.143 45.833 14.62 0.00 41.51 2.34
6940 7566 3.758023 CCTGTTTGCATCATCAGGTGTTA 59.242 43.478 14.62 0.00 41.51 2.41
6941 7567 2.559668 CCTGTTTGCATCATCAGGTGTT 59.440 45.455 14.62 0.00 41.51 3.32
7133 7762 4.435917 GCATTTCATCGGCATTGGAAAAAC 60.436 41.667 0.00 0.00 33.47 2.43
7145 7774 2.550978 ACTAGTTCCGCATTTCATCGG 58.449 47.619 0.00 0.00 46.52 4.18
7198 7829 0.682209 AGCGATGCCTTGCTTGGATT 60.682 50.000 0.00 0.00 39.17 3.01
7208 7839 2.698855 ACAAATGTCTAGCGATGCCT 57.301 45.000 0.00 0.00 0.00 4.75
7209 7840 2.802816 CCTACAAATGTCTAGCGATGCC 59.197 50.000 0.00 0.00 0.00 4.40
7210 7841 2.221981 GCCTACAAATGTCTAGCGATGC 59.778 50.000 0.00 0.00 0.00 3.91
7211 7842 3.457234 TGCCTACAAATGTCTAGCGATG 58.543 45.455 0.00 0.00 0.00 3.84
7212 7843 3.819564 TGCCTACAAATGTCTAGCGAT 57.180 42.857 0.00 0.00 0.00 4.58
7213 7844 3.819564 ATGCCTACAAATGTCTAGCGA 57.180 42.857 0.00 0.00 0.00 4.93
7214 7845 4.591202 CAAATGCCTACAAATGTCTAGCG 58.409 43.478 0.00 0.00 0.00 4.26
7215 7846 4.142403 TGCAAATGCCTACAAATGTCTAGC 60.142 41.667 2.46 0.00 41.18 3.42
7216 7847 5.565592 TGCAAATGCCTACAAATGTCTAG 57.434 39.130 2.46 0.00 41.18 2.43
7217 7848 6.528537 AATGCAAATGCCTACAAATGTCTA 57.471 33.333 2.46 0.00 41.18 2.59
7218 7849 5.410355 AATGCAAATGCCTACAAATGTCT 57.590 34.783 2.46 0.00 41.18 3.41
7219 7850 5.671825 GCAAATGCAAATGCCTACAAATGTC 60.672 40.000 14.34 0.00 41.18 3.06
7225 7868 3.763360 ACTAGCAAATGCAAATGCCTACA 59.237 39.130 19.82 6.00 43.57 2.74
7334 7977 3.228188 TGTGATCTTGCTGACCCTTTT 57.772 42.857 0.00 0.00 0.00 2.27
7338 7981 2.191128 ACTTGTGATCTTGCTGACCC 57.809 50.000 0.00 0.00 0.00 4.46
7419 8071 4.571176 TGTTTTACACATTGTGAGCGTGTA 59.429 37.500 23.12 1.32 43.36 2.90
7495 8152 4.056050 GACTTTAAAGCTTCAGGACGTGA 58.944 43.478 15.24 0.00 0.00 4.35
7516 8173 2.030893 TCGACGCTACCGAAAAGAAAGA 60.031 45.455 0.00 0.00 38.29 2.52
7518 8175 2.053627 GTCGACGCTACCGAAAAGAAA 58.946 47.619 0.00 0.00 37.81 2.52
7613 8274 4.603989 TGGACGTGTAATTAAGACCACA 57.396 40.909 0.00 0.00 0.00 4.17
7614 8275 4.992951 AGTTGGACGTGTAATTAAGACCAC 59.007 41.667 0.00 2.09 0.00 4.16
7615 8276 5.217978 AGTTGGACGTGTAATTAAGACCA 57.782 39.130 0.00 0.00 0.00 4.02
7616 8277 5.164022 CGAAGTTGGACGTGTAATTAAGACC 60.164 44.000 0.00 0.00 0.00 3.85
7617 8278 5.403466 ACGAAGTTGGACGTGTAATTAAGAC 59.597 40.000 0.00 0.00 37.78 3.01
7618 8279 5.531634 ACGAAGTTGGACGTGTAATTAAGA 58.468 37.500 0.00 0.00 37.78 2.10
7619 8280 5.834239 ACGAAGTTGGACGTGTAATTAAG 57.166 39.130 0.00 0.00 37.78 1.85
7622 8283 5.349543 GGATTACGAAGTTGGACGTGTAATT 59.650 40.000 0.00 0.00 37.78 1.40
7623 8284 4.866486 GGATTACGAAGTTGGACGTGTAAT 59.134 41.667 0.00 0.00 37.78 1.89
7665 8464 8.527810 TGTGAATGTATGTGTGTCTATGTCTTA 58.472 33.333 0.00 0.00 0.00 2.10
7667 8466 6.813649 GTGTGAATGTATGTGTGTCTATGTCT 59.186 38.462 0.00 0.00 0.00 3.41
7668 8467 6.589907 TGTGTGAATGTATGTGTGTCTATGTC 59.410 38.462 0.00 0.00 0.00 3.06
7670 8469 6.966435 TGTGTGAATGTATGTGTGTCTATG 57.034 37.500 0.00 0.00 0.00 2.23
7678 8477 6.306397 GTGTGTGTATGTGTGAATGTATGTG 58.694 40.000 0.00 0.00 0.00 3.21
7687 8500 3.835395 TCATAGGGTGTGTGTATGTGTGA 59.165 43.478 0.00 0.00 0.00 3.58
7690 8503 4.051237 CGATCATAGGGTGTGTGTATGTG 58.949 47.826 0.00 0.00 0.00 3.21
7699 8512 2.037144 GTGGGTACGATCATAGGGTGT 58.963 52.381 0.00 0.00 0.00 4.16
7700 8513 2.036387 TGTGGGTACGATCATAGGGTG 58.964 52.381 0.00 0.00 0.00 4.61
7710 8523 0.178967 TAGGGTGTGTGTGGGTACGA 60.179 55.000 0.00 0.00 0.00 3.43
7712 8525 0.322648 GGTAGGGTGTGTGTGGGTAC 59.677 60.000 0.00 0.00 0.00 3.34
7713 8526 0.837260 GGGTAGGGTGTGTGTGGGTA 60.837 60.000 0.00 0.00 0.00 3.69
7716 8529 1.281419 TATGGGTAGGGTGTGTGTGG 58.719 55.000 0.00 0.00 0.00 4.17
7725 8538 5.163258 GGAGATGCTCATAATATGGGTAGGG 60.163 48.000 1.72 0.00 31.83 3.53
7752 8565 1.807139 AGACAATGTATGTGCGCACA 58.193 45.000 41.97 41.97 44.12 4.57
7761 8574 4.156008 GCCGGAAAACTCAAGACAATGTAT 59.844 41.667 5.05 0.00 0.00 2.29
7763 8576 2.293399 GCCGGAAAACTCAAGACAATGT 59.707 45.455 5.05 0.00 0.00 2.71
7766 8579 0.941542 CGCCGGAAAACTCAAGACAA 59.058 50.000 5.05 0.00 0.00 3.18
7776 8589 0.108207 TTACTTCCACCGCCGGAAAA 59.892 50.000 11.71 0.00 44.42 2.29
7834 8647 0.909610 AAGCTCGGGGAACATGAGGA 60.910 55.000 0.00 0.00 35.56 3.71
7854 8667 7.445900 TCATTAATTACTTGAACTCGCTACG 57.554 36.000 0.00 0.00 0.00 3.51
7915 8728 7.786046 TCATTAGTTACCTAAACTCACCAGA 57.214 36.000 0.00 0.00 45.64 3.86
7960 8773 1.148273 GGGAAGACAGTGGTGCACA 59.852 57.895 20.43 1.62 36.74 4.57
7991 8804 7.257003 TGGTTCATCATTAATTGTTTCCATCG 58.743 34.615 0.00 0.00 0.00 3.84
7993 8806 7.180766 ACCTGGTTCATCATTAATTGTTTCCAT 59.819 33.333 0.00 0.00 0.00 3.41
8023 8836 1.811266 GTGCACGTGCGGATCTGAT 60.811 57.895 33.22 0.00 45.83 2.90


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

AutoCloner maintained by Alex Coulton.