Multiple sequence alignment - TraesCS3A01G017000

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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 TraesCS3A01G017000 chr3A 100.000 3458 0 0 1 3458 10939389 10942846 0.000000e+00 6386
1 TraesCS3A01G017000 chr3A 83.170 1634 252 16 1109 2730 11400410 11402032 0.000000e+00 1472
2 TraesCS3A01G017000 chr3A 81.421 1717 267 29 1152 2846 11126758 11128444 0.000000e+00 1356
3 TraesCS3A01G017000 chr3A 81.421 1717 267 29 1152 2846 11135409 11137095 0.000000e+00 1356
4 TraesCS3A01G017000 chr3A 82.242 1436 224 19 1152 2567 11142281 11143705 0.000000e+00 1210
5 TraesCS3A01G017000 chr3A 85.448 268 32 7 602 864 11126005 11126270 4.400000e-69 272
6 TraesCS3A01G017000 chr3A 85.448 268 32 7 602 864 11134656 11134921 4.400000e-69 272
7 TraesCS3A01G017000 chr3A 85.448 268 32 7 602 864 11141528 11141793 4.400000e-69 272
8 TraesCS3A01G017000 chr3A 89.241 158 14 2 2792 2949 11402043 11402197 9.790000e-46 195
9 TraesCS3A01G017000 chrUn 86.136 2301 275 20 1176 3458 265027234 265024960 0.000000e+00 2442
10 TraesCS3A01G017000 chrUn 85.972 2324 278 23 1153 3458 287937806 287940099 0.000000e+00 2442
11 TraesCS3A01G017000 chrUn 86.087 2300 266 27 1180 3458 260317540 260319806 0.000000e+00 2425
12 TraesCS3A01G017000 chrUn 95.359 1530 54 5 1419 2933 36351837 36350310 0.000000e+00 2416
13 TraesCS3A01G017000 chrUn 95.359 1530 54 5 1419 2933 214883168 214884695 0.000000e+00 2416
14 TraesCS3A01G017000 chrUn 85.535 2309 286 23 1165 3458 213716680 213718955 0.000000e+00 2370
15 TraesCS3A01G017000 chrUn 84.010 2289 297 26 1189 3458 34704255 34706493 0.000000e+00 2135
16 TraesCS3A01G017000 chrUn 83.412 1917 213 54 1204 3070 197241982 197240121 0.000000e+00 1681
17 TraesCS3A01G017000 chrUn 82.242 1436 224 19 1152 2567 299358391 299359815 0.000000e+00 1210
18 TraesCS3A01G017000 chrUn 95.385 325 11 2 2930 3252 36350249 36349927 6.620000e-142 514
19 TraesCS3A01G017000 chrUn 95.385 325 11 2 2930 3252 214884756 214885078 6.620000e-142 514
20 TraesCS3A01G017000 chrUn 85.448 268 32 7 602 864 299357638 299357903 4.400000e-69 272
21 TraesCS3A01G017000 chrUn 88.489 139 13 3 710 846 309800866 309801003 7.680000e-37 165
22 TraesCS3A01G017000 chrUn 88.489 139 13 3 710 846 315209613 315209750 7.680000e-37 165
23 TraesCS3A01G017000 chrUn 98.810 84 1 0 3314 3397 36349926 36349843 2.150000e-32 150
24 TraesCS3A01G017000 chrUn 98.810 84 1 0 3314 3397 214885079 214885162 2.150000e-32 150
25 TraesCS3A01G017000 chr3B 85.199 804 57 21 158 909 13823059 13822266 0.000000e+00 769
26 TraesCS3A01G017000 chr3B 85.736 652 63 17 2745 3377 13970359 13969719 0.000000e+00 662
27 TraesCS3A01G017000 chr3D 88.358 335 24 9 605 935 4993952 4994275 4.190000e-104 388
28 TraesCS3A01G017000 chr3D 80.702 342 58 7 2425 2760 9628519 9628180 3.420000e-65 259


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 TraesCS3A01G017000 chr3A 10939389 10942846 3457 False 6386.000000 6386 100.0000 1 3458 1 chr3A.!!$F1 3457
1 TraesCS3A01G017000 chr3A 11400410 11402197 1787 False 833.500000 1472 86.2055 1109 2949 2 chr3A.!!$F5 1840
2 TraesCS3A01G017000 chr3A 11126005 11128444 2439 False 814.000000 1356 83.4345 602 2846 2 chr3A.!!$F2 2244
3 TraesCS3A01G017000 chr3A 11134656 11137095 2439 False 814.000000 1356 83.4345 602 2846 2 chr3A.!!$F3 2244
4 TraesCS3A01G017000 chr3A 11141528 11143705 2177 False 741.000000 1210 83.8450 602 2567 2 chr3A.!!$F4 1965
5 TraesCS3A01G017000 chrUn 265024960 265027234 2274 True 2442.000000 2442 86.1360 1176 3458 1 chrUn.!!$R2 2282
6 TraesCS3A01G017000 chrUn 287937806 287940099 2293 False 2442.000000 2442 85.9720 1153 3458 1 chrUn.!!$F4 2305
7 TraesCS3A01G017000 chrUn 260317540 260319806 2266 False 2425.000000 2425 86.0870 1180 3458 1 chrUn.!!$F3 2278
8 TraesCS3A01G017000 chrUn 213716680 213718955 2275 False 2370.000000 2370 85.5350 1165 3458 1 chrUn.!!$F2 2293
9 TraesCS3A01G017000 chrUn 34704255 34706493 2238 False 2135.000000 2135 84.0100 1189 3458 1 chrUn.!!$F1 2269
10 TraesCS3A01G017000 chrUn 197240121 197241982 1861 True 1681.000000 1681 83.4120 1204 3070 1 chrUn.!!$R1 1866
11 TraesCS3A01G017000 chrUn 36349843 36351837 1994 True 1026.666667 2416 96.5180 1419 3397 3 chrUn.!!$R3 1978
12 TraesCS3A01G017000 chrUn 214883168 214885162 1994 False 1026.666667 2416 96.5180 1419 3397 3 chrUn.!!$F7 1978
13 TraesCS3A01G017000 chrUn 299357638 299359815 2177 False 741.000000 1210 83.8450 602 2567 2 chrUn.!!$F8 1965
14 TraesCS3A01G017000 chr3B 13822266 13823059 793 True 769.000000 769 85.1990 158 909 1 chr3B.!!$R1 751
15 TraesCS3A01G017000 chr3B 13969719 13970359 640 True 662.000000 662 85.7360 2745 3377 1 chr3B.!!$R2 632

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
649 680 0.106335 TTTGCTGGTGCCCAACATTG 59.894 50.0 0.0 0.0 38.71 2.82 F
1402 1698 0.248417 CGAGCAGAGAGTCGATGGTG 60.248 60.0 7.0 0.0 38.50 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1986 2316 1.134995 GCGCCATCCATGATCTCGATA 60.135 52.381 0.0 0.0 0.0 2.92 R
3300 3773 0.537188 AACCATAGTGTCCGCCAGAG 59.463 55.000 0.0 0.0 0.0 3.35 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
99 100 5.824429 TGAAACTCATTCAGAAGCAAAGTG 58.176 37.500 0.00 0.00 43.08 3.16
100 101 3.911661 ACTCATTCAGAAGCAAAGTGC 57.088 42.857 0.00 0.00 45.46 4.40
101 102 2.555757 ACTCATTCAGAAGCAAAGTGCC 59.444 45.455 0.00 0.00 46.52 5.01
102 103 2.818432 CTCATTCAGAAGCAAAGTGCCT 59.182 45.455 0.00 0.00 46.52 4.75
103 104 2.816087 TCATTCAGAAGCAAAGTGCCTC 59.184 45.455 0.00 0.00 46.52 4.70
104 105 2.346766 TTCAGAAGCAAAGTGCCTCA 57.653 45.000 1.97 0.00 46.52 3.86
105 106 2.574006 TCAGAAGCAAAGTGCCTCAT 57.426 45.000 1.97 0.00 46.52 2.90
106 107 2.867624 TCAGAAGCAAAGTGCCTCATT 58.132 42.857 1.97 0.00 46.52 2.57
107 108 4.019792 TCAGAAGCAAAGTGCCTCATTA 57.980 40.909 1.97 0.00 46.52 1.90
108 109 4.397420 TCAGAAGCAAAGTGCCTCATTAA 58.603 39.130 1.97 0.00 46.52 1.40
109 110 4.456911 TCAGAAGCAAAGTGCCTCATTAAG 59.543 41.667 1.97 0.00 46.52 1.85
110 111 4.456911 CAGAAGCAAAGTGCCTCATTAAGA 59.543 41.667 1.97 0.00 46.52 2.10
111 112 5.048504 CAGAAGCAAAGTGCCTCATTAAGAA 60.049 40.000 1.97 0.00 46.52 2.52
112 113 5.536161 AGAAGCAAAGTGCCTCATTAAGAAA 59.464 36.000 1.97 0.00 46.52 2.52
113 114 5.126396 AGCAAAGTGCCTCATTAAGAAAC 57.874 39.130 0.00 0.00 46.52 2.78
114 115 4.584325 AGCAAAGTGCCTCATTAAGAAACA 59.416 37.500 0.00 0.00 46.52 2.83
115 116 4.681483 GCAAAGTGCCTCATTAAGAAACAC 59.319 41.667 0.00 0.00 37.42 3.32
116 117 5.222631 CAAAGTGCCTCATTAAGAAACACC 58.777 41.667 0.00 0.00 34.34 4.16
117 118 4.373156 AGTGCCTCATTAAGAAACACCT 57.627 40.909 0.00 0.00 34.34 4.00
118 119 4.074970 AGTGCCTCATTAAGAAACACCTG 58.925 43.478 0.00 0.00 34.34 4.00
119 120 3.191371 GTGCCTCATTAAGAAACACCTGG 59.809 47.826 0.00 0.00 0.00 4.45
120 121 3.181434 TGCCTCATTAAGAAACACCTGGT 60.181 43.478 0.00 0.00 0.00 4.00
121 122 4.042311 TGCCTCATTAAGAAACACCTGGTA 59.958 41.667 0.00 0.00 0.00 3.25
122 123 4.636206 GCCTCATTAAGAAACACCTGGTAG 59.364 45.833 0.00 0.00 0.00 3.18
123 124 4.636206 CCTCATTAAGAAACACCTGGTAGC 59.364 45.833 0.00 0.00 0.00 3.58
124 125 5.491982 CTCATTAAGAAACACCTGGTAGCT 58.508 41.667 0.00 0.00 0.00 3.32
125 126 5.876357 TCATTAAGAAACACCTGGTAGCTT 58.124 37.500 0.00 3.65 0.00 3.74
126 127 5.705441 TCATTAAGAAACACCTGGTAGCTTG 59.295 40.000 0.00 0.00 0.00 4.01
127 128 3.577805 AAGAAACACCTGGTAGCTTGT 57.422 42.857 0.00 0.00 0.00 3.16
128 129 4.699925 AAGAAACACCTGGTAGCTTGTA 57.300 40.909 0.00 0.00 0.00 2.41
129 130 4.273148 AGAAACACCTGGTAGCTTGTAG 57.727 45.455 0.00 0.00 0.00 2.74
130 131 3.646637 AGAAACACCTGGTAGCTTGTAGT 59.353 43.478 0.00 0.00 0.00 2.73
131 132 4.102681 AGAAACACCTGGTAGCTTGTAGTT 59.897 41.667 0.00 0.00 0.00 2.24
132 133 4.432980 AACACCTGGTAGCTTGTAGTTT 57.567 40.909 0.00 0.00 0.00 2.66
133 134 4.004196 ACACCTGGTAGCTTGTAGTTTC 57.996 45.455 0.00 0.00 0.00 2.78
134 135 3.389983 ACACCTGGTAGCTTGTAGTTTCA 59.610 43.478 0.00 0.00 0.00 2.69
135 136 4.141574 ACACCTGGTAGCTTGTAGTTTCAA 60.142 41.667 0.00 0.00 0.00 2.69
136 137 4.819630 CACCTGGTAGCTTGTAGTTTCAAA 59.180 41.667 0.00 0.00 0.00 2.69
137 138 5.298276 CACCTGGTAGCTTGTAGTTTCAAAA 59.702 40.000 0.00 0.00 0.00 2.44
138 139 5.298527 ACCTGGTAGCTTGTAGTTTCAAAAC 59.701 40.000 0.00 0.00 39.17 2.43
139 140 5.278315 CCTGGTAGCTTGTAGTTTCAAAACC 60.278 44.000 0.00 0.00 39.71 3.27
140 141 5.442391 TGGTAGCTTGTAGTTTCAAAACCT 58.558 37.500 0.00 0.00 39.71 3.50
141 142 6.593807 TGGTAGCTTGTAGTTTCAAAACCTA 58.406 36.000 0.00 0.00 39.71 3.08
142 143 7.228590 TGGTAGCTTGTAGTTTCAAAACCTAT 58.771 34.615 0.00 0.00 39.71 2.57
143 144 7.389607 TGGTAGCTTGTAGTTTCAAAACCTATC 59.610 37.037 0.00 0.00 39.71 2.08
144 145 7.389607 GGTAGCTTGTAGTTTCAAAACCTATCA 59.610 37.037 0.00 0.00 39.71 2.15
145 146 7.817418 AGCTTGTAGTTTCAAAACCTATCAA 57.183 32.000 2.08 3.28 39.71 2.57
146 147 7.649057 AGCTTGTAGTTTCAAAACCTATCAAC 58.351 34.615 2.08 0.00 39.71 3.18
147 148 6.861572 GCTTGTAGTTTCAAAACCTATCAACC 59.138 38.462 2.08 0.00 39.71 3.77
148 149 7.469456 GCTTGTAGTTTCAAAACCTATCAACCA 60.469 37.037 2.08 0.00 39.71 3.67
149 150 8.472007 TTGTAGTTTCAAAACCTATCAACCAT 57.528 30.769 2.08 0.00 39.71 3.55
150 151 8.472007 TGTAGTTTCAAAACCTATCAACCATT 57.528 30.769 2.08 0.00 39.71 3.16
151 152 8.356657 TGTAGTTTCAAAACCTATCAACCATTG 58.643 33.333 2.08 0.00 39.71 2.82
152 153 6.223120 AGTTTCAAAACCTATCAACCATTGC 58.777 36.000 2.08 0.00 39.71 3.56
153 154 5.798125 TTCAAAACCTATCAACCATTGCA 57.202 34.783 0.00 0.00 0.00 4.08
154 155 5.389859 TCAAAACCTATCAACCATTGCAG 57.610 39.130 0.00 0.00 0.00 4.41
155 156 5.076182 TCAAAACCTATCAACCATTGCAGA 58.924 37.500 0.00 0.00 0.00 4.26
156 157 5.538053 TCAAAACCTATCAACCATTGCAGAA 59.462 36.000 0.00 0.00 0.00 3.02
167 168 3.638160 ACCATTGCAGAAAACAGTGTCAT 59.362 39.130 0.00 0.00 0.00 3.06
168 169 3.985279 CCATTGCAGAAAACAGTGTCATG 59.015 43.478 0.00 0.00 0.00 3.07
170 171 4.717233 TTGCAGAAAACAGTGTCATGTT 57.283 36.364 0.00 0.00 45.18 2.71
183 184 5.582269 CAGTGTCATGTTTATTCAGTCGGAT 59.418 40.000 0.00 0.00 0.00 4.18
222 223 9.814899 ATATCTTGCCAGATATAAAGAGAATCG 57.185 33.333 16.62 0.00 46.83 3.34
295 298 4.891260 TGATCATATGGAGATGCACTGAC 58.109 43.478 2.13 0.00 0.00 3.51
301 304 0.792640 GGAGATGCACTGACAACGTG 59.207 55.000 0.00 0.00 35.53 4.49
305 308 1.459592 GATGCACTGACAACGTGGTAC 59.540 52.381 0.00 0.00 33.10 3.34
340 343 6.925165 GTGAGTTTGATTCACATTGTTGGATT 59.075 34.615 0.82 0.00 43.41 3.01
341 344 8.081633 GTGAGTTTGATTCACATTGTTGGATTA 58.918 33.333 0.82 0.00 43.41 1.75
385 388 2.297701 ACGCACTGACTGGAAACAATT 58.702 42.857 0.00 0.00 42.06 2.32
389 392 4.681744 GCACTGACTGGAAACAATTTGAA 58.318 39.130 2.79 0.00 42.06 2.69
412 415 9.362151 TGAAAGGAACCATATCCATATTTTACC 57.638 33.333 0.00 0.00 42.27 2.85
414 417 8.940397 AAGGAACCATATCCATATTTTACCAG 57.060 34.615 0.00 0.00 42.27 4.00
439 470 3.982576 AGCTTTGGTGTTAGGAAAACG 57.017 42.857 0.00 0.00 0.00 3.60
440 471 3.547746 AGCTTTGGTGTTAGGAAAACGA 58.452 40.909 0.00 0.00 0.00 3.85
443 474 4.201980 GCTTTGGTGTTAGGAAAACGAACT 60.202 41.667 0.00 0.00 35.92 3.01
444 475 5.488645 TTTGGTGTTAGGAAAACGAACTC 57.511 39.130 0.00 0.00 35.92 3.01
445 476 4.411256 TGGTGTTAGGAAAACGAACTCT 57.589 40.909 0.00 0.00 35.92 3.24
446 477 4.374399 TGGTGTTAGGAAAACGAACTCTC 58.626 43.478 0.00 0.00 35.92 3.20
447 478 3.744942 GGTGTTAGGAAAACGAACTCTCC 59.255 47.826 0.00 0.00 35.92 3.71
448 479 4.374399 GTGTTAGGAAAACGAACTCTCCA 58.626 43.478 0.00 0.00 35.92 3.86
513 544 0.393448 GAGAGGAGAATAACCCCGGC 59.607 60.000 0.00 0.00 0.00 6.13
523 554 1.271840 TAACCCCGGCTTCTGCATCT 61.272 55.000 0.00 0.00 41.91 2.90
526 557 1.402896 CCCCGGCTTCTGCATCTAGA 61.403 60.000 0.00 0.00 41.91 2.43
534 565 0.457443 TCTGCATCTAGAGGTGCACG 59.543 55.000 13.44 9.93 45.60 5.34
550 581 1.125748 GCACGCATCGAGCTCATAATC 59.874 52.381 15.40 0.00 40.03 1.75
555 586 5.175673 CACGCATCGAGCTCATAATCTTTAA 59.824 40.000 15.40 0.00 42.61 1.52
578 609 2.805671 CAGTGGCATGTTTCGTCAGTTA 59.194 45.455 0.00 0.00 0.00 2.24
597 628 3.403936 GGTATGCACCACCAGATCC 57.596 57.895 13.28 0.00 45.04 3.36
603 634 1.702401 TGCACCACCAGATCCTTGTAA 59.298 47.619 0.00 0.00 0.00 2.41
624 655 1.995376 AAGTTCGGTTCCTTTGGCAT 58.005 45.000 0.00 0.00 0.00 4.40
637 668 0.248012 TTGGCATCTGCATTTGCTGG 59.752 50.000 17.45 0.69 44.36 4.85
649 680 0.106335 TTTGCTGGTGCCCAACATTG 59.894 50.000 0.00 0.00 38.71 2.82
664 698 5.711506 CCCAACATTGCATTCCTATATAGCA 59.288 40.000 4.04 0.00 0.00 3.49
690 724 7.807977 AACTATACATATTGCCTGAAACCAG 57.192 36.000 0.00 0.00 0.00 4.00
711 753 2.497419 CGCGCACACACAATCACG 60.497 61.111 8.75 0.00 0.00 4.35
719 766 1.063912 ACACACAATCACGCACACTTG 59.936 47.619 0.00 0.00 0.00 3.16
768 816 3.813166 TGAAAACCATTTCTCCGTCAGAC 59.187 43.478 3.31 0.00 44.32 3.51
798 846 3.278574 TCATGTGGGATCGGAAAATGAC 58.721 45.455 0.00 0.00 0.00 3.06
799 847 2.122783 TGTGGGATCGGAAAATGACC 57.877 50.000 0.00 0.00 0.00 4.02
913 971 9.672086 ATTGAAATTGAAATTGAAATTGCAGTG 57.328 25.926 6.79 0.00 35.44 3.66
914 972 8.434733 TGAAATTGAAATTGAAATTGCAGTGA 57.565 26.923 0.00 0.00 35.44 3.41
915 973 8.552865 TGAAATTGAAATTGAAATTGCAGTGAG 58.447 29.630 0.00 0.00 35.44 3.51
916 974 7.429636 AATTGAAATTGAAATTGCAGTGAGG 57.570 32.000 0.00 0.00 35.44 3.86
917 975 4.309099 TGAAATTGAAATTGCAGTGAGGC 58.691 39.130 0.00 0.00 30.49 4.70
918 976 3.323751 AATTGAAATTGCAGTGAGGCC 57.676 42.857 0.00 0.00 0.00 5.19
919 977 1.702182 TTGAAATTGCAGTGAGGCCA 58.298 45.000 5.01 0.00 0.00 5.36
920 978 1.250328 TGAAATTGCAGTGAGGCCAG 58.750 50.000 5.01 0.00 0.00 4.85
921 979 1.202915 TGAAATTGCAGTGAGGCCAGA 60.203 47.619 5.01 0.00 0.00 3.86
922 980 1.888512 GAAATTGCAGTGAGGCCAGAA 59.111 47.619 5.01 0.00 0.00 3.02
923 981 1.542492 AATTGCAGTGAGGCCAGAAG 58.458 50.000 5.01 0.00 0.00 2.85
924 982 0.323178 ATTGCAGTGAGGCCAGAAGG 60.323 55.000 5.01 0.00 38.23 3.46
958 1016 3.879038 TGGGGGCCCAATACCATT 58.121 55.556 26.86 0.00 44.12 3.16
960 1018 1.319947 TGGGGGCCCAATACCATTTA 58.680 50.000 26.86 0.00 44.12 1.40
961 1019 1.062810 TGGGGGCCCAATACCATTTAC 60.063 52.381 26.86 2.05 44.12 2.01
962 1020 1.219469 GGGGGCCCAATACCATTTACT 59.781 52.381 26.86 0.00 35.81 2.24
963 1021 2.594131 GGGGCCCAATACCATTTACTC 58.406 52.381 26.86 0.00 0.00 2.59
964 1022 2.177016 GGGGCCCAATACCATTTACTCT 59.823 50.000 26.86 0.00 0.00 3.24
965 1023 3.373767 GGGGCCCAATACCATTTACTCTT 60.374 47.826 26.86 0.00 0.00 2.85
966 1024 4.141111 GGGGCCCAATACCATTTACTCTTA 60.141 45.833 26.86 0.00 0.00 2.10
967 1025 4.825634 GGGCCCAATACCATTTACTCTTAC 59.174 45.833 19.95 0.00 0.00 2.34
968 1026 4.514066 GGCCCAATACCATTTACTCTTACG 59.486 45.833 0.00 0.00 0.00 3.18
972 1080 6.426937 CCCAATACCATTTACTCTTACGATGG 59.573 42.308 0.00 0.00 42.28 3.51
977 1085 3.431922 TTTACTCTTACGATGGAGCCG 57.568 47.619 0.00 0.00 33.29 5.52
984 1092 1.381928 TACGATGGAGCCGACCACTC 61.382 60.000 0.00 0.00 43.03 3.51
992 1100 2.047844 CCGACCACTCCACTGCTG 60.048 66.667 0.00 0.00 0.00 4.41
993 1101 2.740055 CGACCACTCCACTGCTGC 60.740 66.667 0.00 0.00 0.00 5.25
994 1102 2.746359 GACCACTCCACTGCTGCT 59.254 61.111 0.00 0.00 0.00 4.24
995 1103 1.877576 CGACCACTCCACTGCTGCTA 61.878 60.000 0.00 0.00 0.00 3.49
996 1104 0.390472 GACCACTCCACTGCTGCTAC 60.390 60.000 0.00 0.00 0.00 3.58
997 1105 1.446792 CCACTCCACTGCTGCTACG 60.447 63.158 0.00 0.00 0.00 3.51
998 1106 1.446792 CACTCCACTGCTGCTACGG 60.447 63.158 0.00 0.00 0.00 4.02
999 1107 1.908793 ACTCCACTGCTGCTACGGT 60.909 57.895 0.00 0.00 0.00 4.83
1005 1113 1.251527 ACTGCTGCTACGGTGCTACT 61.252 55.000 0.00 0.00 0.00 2.57
1013 1121 2.412112 CGGTGCTACTACTCCGCC 59.588 66.667 0.00 0.00 39.53 6.13
1014 1122 2.813200 GGTGCTACTACTCCGCCC 59.187 66.667 0.00 0.00 0.00 6.13
1038 1146 4.642429 GTCTTCCTCTGCCTCACTAAAAA 58.358 43.478 0.00 0.00 0.00 1.94
1039 1147 4.693095 GTCTTCCTCTGCCTCACTAAAAAG 59.307 45.833 0.00 0.00 0.00 2.27
1349 1642 2.668550 GTTCCACCGCCGCTTCTT 60.669 61.111 0.00 0.00 0.00 2.52
1392 1688 1.200252 CTCGGTTTCTTCGAGCAGAGA 59.800 52.381 0.58 0.00 45.67 3.10
1402 1698 0.248417 CGAGCAGAGAGTCGATGGTG 60.248 60.000 7.00 0.00 38.50 4.17
1445 1741 2.682136 TCCCGACCGCATCCTTCA 60.682 61.111 0.00 0.00 0.00 3.02
1509 1814 2.113139 ACGGGGGTCAAACTGCTG 59.887 61.111 0.00 0.00 0.00 4.41
1986 2316 0.593128 GCTTTGACATGCGTGAGGTT 59.407 50.000 14.17 0.00 0.00 3.50
2183 2517 7.175816 GCCAGAGTTATGTAGACTGAGATATGA 59.824 40.741 0.00 0.00 0.00 2.15
2595 2949 7.012799 GGCAACTCAGCTAGCTATATTCTTTTT 59.987 37.037 18.86 0.00 34.17 1.94
2699 3055 5.738619 TCCTTGTCACTTGCTCAATACTA 57.261 39.130 0.00 0.00 0.00 1.82
2849 3216 9.255304 GCACCTTTTTATTTTGTATTCTTGACA 57.745 29.630 0.00 0.00 0.00 3.58
3013 3464 5.506708 TGTTGGCAGTATGAGTAGAGTAGA 58.493 41.667 0.00 0.00 39.69 2.59
3103 3557 2.999355 GACTCACTGTTGCCTTCTCATC 59.001 50.000 0.00 0.00 0.00 2.92
3340 3817 2.648059 AGCATGCATCCTCAAACTACC 58.352 47.619 21.98 0.00 0.00 3.18
3431 3909 5.105351 CCAAGAAAAGTGACTCCTTTTTGGT 60.105 40.000 15.72 0.00 42.98 3.67
3438 3916 6.884280 AGTGACTCCTTTTTGGTCATTAAG 57.116 37.500 0.00 0.00 41.14 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 8.412456 TCTGAATGAGTTTCACTAATGCAAAAA 58.588 29.630 0.00 0.00 39.44 1.94
65 66 7.939782 TCTGAATGAGTTTCACTAATGCAAAA 58.060 30.769 0.00 0.00 39.44 2.44
66 67 7.509141 TCTGAATGAGTTTCACTAATGCAAA 57.491 32.000 0.00 0.00 39.44 3.68
67 68 7.509141 TTCTGAATGAGTTTCACTAATGCAA 57.491 32.000 0.00 0.00 39.44 4.08
68 69 6.348786 GCTTCTGAATGAGTTTCACTAATGCA 60.349 38.462 0.00 0.00 39.44 3.96
69 70 6.026513 GCTTCTGAATGAGTTTCACTAATGC 58.973 40.000 0.00 0.00 39.44 3.56
70 71 7.137490 TGCTTCTGAATGAGTTTCACTAATG 57.863 36.000 0.00 0.00 39.44 1.90
71 72 7.750229 TTGCTTCTGAATGAGTTTCACTAAT 57.250 32.000 0.00 0.00 39.44 1.73
72 73 7.283127 ACTTTGCTTCTGAATGAGTTTCACTAA 59.717 33.333 0.00 0.00 39.44 2.24
73 74 6.767902 ACTTTGCTTCTGAATGAGTTTCACTA 59.232 34.615 0.00 0.00 39.44 2.74
74 75 5.591877 ACTTTGCTTCTGAATGAGTTTCACT 59.408 36.000 0.00 0.00 39.44 3.41
75 76 5.684626 CACTTTGCTTCTGAATGAGTTTCAC 59.315 40.000 0.00 0.00 39.44 3.18
76 77 5.734220 GCACTTTGCTTCTGAATGAGTTTCA 60.734 40.000 0.00 0.00 40.14 2.69
77 78 4.678742 GCACTTTGCTTCTGAATGAGTTTC 59.321 41.667 0.00 0.00 40.96 2.78
78 79 4.500375 GGCACTTTGCTTCTGAATGAGTTT 60.500 41.667 0.00 0.00 44.28 2.66
79 80 3.005155 GGCACTTTGCTTCTGAATGAGTT 59.995 43.478 0.00 0.00 44.28 3.01
80 81 2.555757 GGCACTTTGCTTCTGAATGAGT 59.444 45.455 0.00 0.00 44.28 3.41
81 82 2.818432 AGGCACTTTGCTTCTGAATGAG 59.182 45.455 0.00 0.00 44.28 2.90
82 83 2.816087 GAGGCACTTTGCTTCTGAATGA 59.184 45.455 3.20 0.00 44.80 2.57
83 84 3.213249 GAGGCACTTTGCTTCTGAATG 57.787 47.619 3.20 0.00 44.80 2.67
90 91 5.068987 TGTTTCTTAATGAGGCACTTTGCTT 59.931 36.000 0.00 0.00 44.28 3.91
91 92 4.584325 TGTTTCTTAATGAGGCACTTTGCT 59.416 37.500 0.00 0.00 44.28 3.91
92 93 4.681483 GTGTTTCTTAATGAGGCACTTTGC 59.319 41.667 0.00 0.00 41.55 3.68
93 94 5.010012 AGGTGTTTCTTAATGAGGCACTTTG 59.990 40.000 0.00 0.00 41.55 2.77
94 95 5.010012 CAGGTGTTTCTTAATGAGGCACTTT 59.990 40.000 0.00 0.00 41.55 2.66
95 96 4.520492 CAGGTGTTTCTTAATGAGGCACTT 59.480 41.667 0.00 0.00 41.55 3.16
97 98 3.191371 CCAGGTGTTTCTTAATGAGGCAC 59.809 47.826 0.00 0.00 33.50 5.01
98 99 3.181434 ACCAGGTGTTTCTTAATGAGGCA 60.181 43.478 0.00 0.00 0.00 4.75
99 100 3.421844 ACCAGGTGTTTCTTAATGAGGC 58.578 45.455 0.00 0.00 0.00 4.70
100 101 4.636206 GCTACCAGGTGTTTCTTAATGAGG 59.364 45.833 0.76 0.00 0.00 3.86
101 102 5.491982 AGCTACCAGGTGTTTCTTAATGAG 58.508 41.667 0.76 0.00 0.00 2.90
102 103 5.499004 AGCTACCAGGTGTTTCTTAATGA 57.501 39.130 0.76 0.00 0.00 2.57
103 104 5.473504 ACAAGCTACCAGGTGTTTCTTAATG 59.526 40.000 0.76 0.00 0.00 1.90
104 105 5.631119 ACAAGCTACCAGGTGTTTCTTAAT 58.369 37.500 0.76 0.00 0.00 1.40
105 106 5.043737 ACAAGCTACCAGGTGTTTCTTAA 57.956 39.130 0.76 0.00 0.00 1.85
106 107 4.699925 ACAAGCTACCAGGTGTTTCTTA 57.300 40.909 0.76 0.00 0.00 2.10
107 108 3.577805 ACAAGCTACCAGGTGTTTCTT 57.422 42.857 0.76 0.00 0.00 2.52
108 109 3.646637 ACTACAAGCTACCAGGTGTTTCT 59.353 43.478 0.76 0.00 0.00 2.52
109 110 4.004196 ACTACAAGCTACCAGGTGTTTC 57.996 45.455 0.76 0.00 0.00 2.78
110 111 4.432980 AACTACAAGCTACCAGGTGTTT 57.567 40.909 0.76 0.00 0.00 2.83
111 112 4.141574 TGAAACTACAAGCTACCAGGTGTT 60.142 41.667 0.76 0.00 0.00 3.32
112 113 3.389983 TGAAACTACAAGCTACCAGGTGT 59.610 43.478 0.76 0.00 0.00 4.16
113 114 4.002906 TGAAACTACAAGCTACCAGGTG 57.997 45.455 0.76 0.00 0.00 4.00
114 115 4.699925 TTGAAACTACAAGCTACCAGGT 57.300 40.909 0.00 0.00 0.00 4.00
115 116 5.278315 GGTTTTGAAACTACAAGCTACCAGG 60.278 44.000 6.57 0.00 38.89 4.45
116 117 5.531287 AGGTTTTGAAACTACAAGCTACCAG 59.469 40.000 6.57 0.00 38.89 4.00
117 118 5.442391 AGGTTTTGAAACTACAAGCTACCA 58.558 37.500 6.57 0.00 38.89 3.25
118 119 7.389607 TGATAGGTTTTGAAACTACAAGCTACC 59.610 37.037 6.57 0.00 38.89 3.18
119 120 8.319143 TGATAGGTTTTGAAACTACAAGCTAC 57.681 34.615 6.57 0.00 38.89 3.58
120 121 8.780249 GTTGATAGGTTTTGAAACTACAAGCTA 58.220 33.333 6.57 0.00 38.89 3.32
121 122 7.255486 GGTTGATAGGTTTTGAAACTACAAGCT 60.255 37.037 15.11 0.00 38.89 3.74
122 123 6.861572 GGTTGATAGGTTTTGAAACTACAAGC 59.138 38.462 6.57 11.55 38.89 4.01
123 124 7.936584 TGGTTGATAGGTTTTGAAACTACAAG 58.063 34.615 6.57 0.00 38.89 3.16
124 125 7.883391 TGGTTGATAGGTTTTGAAACTACAA 57.117 32.000 6.57 5.75 38.89 2.41
125 126 8.356657 CAATGGTTGATAGGTTTTGAAACTACA 58.643 33.333 6.57 0.86 38.89 2.74
126 127 7.328493 GCAATGGTTGATAGGTTTTGAAACTAC 59.672 37.037 6.57 0.00 38.89 2.73
127 128 7.014711 TGCAATGGTTGATAGGTTTTGAAACTA 59.985 33.333 6.57 0.00 38.89 2.24
128 129 6.183360 TGCAATGGTTGATAGGTTTTGAAACT 60.183 34.615 6.57 0.00 38.89 2.66
129 130 5.988561 TGCAATGGTTGATAGGTTTTGAAAC 59.011 36.000 0.00 0.00 38.17 2.78
130 131 6.041409 TCTGCAATGGTTGATAGGTTTTGAAA 59.959 34.615 0.00 0.00 0.00 2.69
131 132 5.538053 TCTGCAATGGTTGATAGGTTTTGAA 59.462 36.000 0.00 0.00 0.00 2.69
132 133 5.076182 TCTGCAATGGTTGATAGGTTTTGA 58.924 37.500 0.00 0.00 0.00 2.69
133 134 5.389859 TCTGCAATGGTTGATAGGTTTTG 57.610 39.130 0.00 0.00 0.00 2.44
134 135 6.418057 TTTCTGCAATGGTTGATAGGTTTT 57.582 33.333 0.00 0.00 0.00 2.43
135 136 6.183360 TGTTTTCTGCAATGGTTGATAGGTTT 60.183 34.615 0.00 0.00 0.00 3.27
136 137 5.304101 TGTTTTCTGCAATGGTTGATAGGTT 59.696 36.000 0.00 0.00 0.00 3.50
137 138 4.832266 TGTTTTCTGCAATGGTTGATAGGT 59.168 37.500 0.00 0.00 0.00 3.08
138 139 5.047802 ACTGTTTTCTGCAATGGTTGATAGG 60.048 40.000 0.00 0.00 0.00 2.57
139 140 5.860182 CACTGTTTTCTGCAATGGTTGATAG 59.140 40.000 0.00 0.00 0.00 2.08
140 141 5.301551 ACACTGTTTTCTGCAATGGTTGATA 59.698 36.000 0.00 0.00 0.00 2.15
141 142 4.099881 ACACTGTTTTCTGCAATGGTTGAT 59.900 37.500 0.00 0.00 0.00 2.57
142 143 3.446873 ACACTGTTTTCTGCAATGGTTGA 59.553 39.130 0.00 0.00 0.00 3.18
143 144 3.784338 ACACTGTTTTCTGCAATGGTTG 58.216 40.909 0.00 0.00 0.00 3.77
144 145 3.446873 TGACACTGTTTTCTGCAATGGTT 59.553 39.130 0.00 0.00 0.00 3.67
145 146 3.023119 TGACACTGTTTTCTGCAATGGT 58.977 40.909 0.00 0.00 0.00 3.55
146 147 3.713858 TGACACTGTTTTCTGCAATGG 57.286 42.857 0.00 0.00 0.00 3.16
147 148 4.613944 ACATGACACTGTTTTCTGCAATG 58.386 39.130 0.00 0.00 0.00 2.82
148 149 4.924305 ACATGACACTGTTTTCTGCAAT 57.076 36.364 0.00 0.00 0.00 3.56
149 150 4.717233 AACATGACACTGTTTTCTGCAA 57.283 36.364 0.00 0.00 35.90 4.08
150 151 4.717233 AAACATGACACTGTTTTCTGCA 57.283 36.364 0.00 0.00 44.76 4.41
151 152 6.917477 TGAATAAACATGACACTGTTTTCTGC 59.083 34.615 16.08 8.05 44.76 4.26
152 153 8.131100 ACTGAATAAACATGACACTGTTTTCTG 58.869 33.333 16.08 14.42 44.76 3.02
153 154 8.225603 ACTGAATAAACATGACACTGTTTTCT 57.774 30.769 16.08 8.09 44.76 2.52
154 155 7.321271 CGACTGAATAAACATGACACTGTTTTC 59.679 37.037 16.08 11.46 44.76 2.29
155 156 7.132213 CGACTGAATAAACATGACACTGTTTT 58.868 34.615 16.08 5.10 44.76 2.43
222 223 7.968405 GGACATGTGTGTTTAGAATAATGGTTC 59.032 37.037 1.15 0.00 39.09 3.62
238 239 6.748333 ATGACTTTATGAAGGACATGTGTG 57.252 37.500 1.15 0.00 39.77 3.82
274 277 4.891260 TGTCAGTGCATCTCCATATGATC 58.109 43.478 3.65 0.00 0.00 2.92
286 289 1.070134 AGTACCACGTTGTCAGTGCAT 59.930 47.619 0.00 0.00 38.22 3.96
288 291 0.859232 CAGTACCACGTTGTCAGTGC 59.141 55.000 0.00 0.00 38.22 4.40
295 298 1.788308 CGTGTTACCAGTACCACGTTG 59.212 52.381 16.77 0.00 43.72 4.10
301 304 3.375782 AACTCACGTGTTACCAGTACC 57.624 47.619 16.51 0.00 0.00 3.34
305 308 4.509970 TGAATCAAACTCACGTGTTACCAG 59.490 41.667 16.51 7.58 0.00 4.00
341 344 8.191446 CGTATGGATGATAAGGTTCGATCTTAT 58.809 37.037 16.52 16.52 39.36 1.73
363 366 2.831685 TGTTTCCAGTCAGTGCGTAT 57.168 45.000 0.00 0.00 0.00 3.06
366 369 3.044986 CAAATTGTTTCCAGTCAGTGCG 58.955 45.455 0.00 0.00 0.00 5.34
389 392 8.732854 TCTGGTAAAATATGGATATGGTTCCTT 58.267 33.333 0.00 0.00 36.68 3.36
407 410 4.532834 ACACCAAAGCTTCTTCTGGTAAA 58.467 39.130 17.99 0.00 40.23 2.01
409 412 3.857157 ACACCAAAGCTTCTTCTGGTA 57.143 42.857 17.99 0.00 40.23 3.25
410 413 2.736670 ACACCAAAGCTTCTTCTGGT 57.263 45.000 13.69 13.69 43.01 4.00
411 414 3.503748 CCTAACACCAAAGCTTCTTCTGG 59.496 47.826 12.45 12.45 34.95 3.86
412 415 4.389374 TCCTAACACCAAAGCTTCTTCTG 58.611 43.478 0.00 0.00 0.00 3.02
414 417 5.767816 TTTCCTAACACCAAAGCTTCTTC 57.232 39.130 0.00 0.00 0.00 2.87
439 470 4.336713 AGCACTTTGTTTCTTGGAGAGTTC 59.663 41.667 0.00 0.00 0.00 3.01
440 471 4.273318 AGCACTTTGTTTCTTGGAGAGTT 58.727 39.130 0.00 0.00 0.00 3.01
443 474 6.205464 CAGATAAGCACTTTGTTTCTTGGAGA 59.795 38.462 0.00 0.00 0.00 3.71
444 475 6.376978 CAGATAAGCACTTTGTTTCTTGGAG 58.623 40.000 0.00 0.00 0.00 3.86
445 476 5.278463 GCAGATAAGCACTTTGTTTCTTGGA 60.278 40.000 0.00 0.00 0.00 3.53
446 477 4.919754 GCAGATAAGCACTTTGTTTCTTGG 59.080 41.667 0.00 0.00 0.00 3.61
447 478 5.766222 AGCAGATAAGCACTTTGTTTCTTG 58.234 37.500 0.00 0.00 36.85 3.02
448 479 7.693969 ATAGCAGATAAGCACTTTGTTTCTT 57.306 32.000 0.00 0.00 36.85 2.52
484 515 8.205512 GGGGTTATTCTCCTCTCTTTTACTAAG 58.794 40.741 0.00 0.00 32.92 2.18
486 517 6.323225 CGGGGTTATTCTCCTCTCTTTTACTA 59.677 42.308 0.00 0.00 33.68 1.82
488 519 5.358090 CGGGGTTATTCTCCTCTCTTTTAC 58.642 45.833 0.00 0.00 33.68 2.01
489 520 4.407945 CCGGGGTTATTCTCCTCTCTTTTA 59.592 45.833 0.00 0.00 33.68 1.52
494 525 0.393448 GCCGGGGTTATTCTCCTCTC 59.607 60.000 2.18 0.00 33.68 3.20
496 527 0.837940 AAGCCGGGGTTATTCTCCTC 59.162 55.000 10.24 0.00 33.68 3.71
513 544 2.975732 TGCACCTCTAGATGCAGAAG 57.024 50.000 15.46 0.00 46.63 2.85
523 554 1.433471 CTCGATGCGTGCACCTCTA 59.567 57.895 12.15 0.00 0.00 2.43
526 557 3.997064 GAGCTCGATGCGTGCACCT 62.997 63.158 12.15 0.00 46.56 4.00
534 565 6.948353 TGTTTAAAGATTATGAGCTCGATGC 58.052 36.000 9.64 0.00 43.29 3.91
550 581 4.606961 ACGAAACATGCCACTGTTTAAAG 58.393 39.130 8.56 6.81 46.50 1.85
555 586 1.603802 CTGACGAAACATGCCACTGTT 59.396 47.619 0.00 0.00 41.01 3.16
597 628 6.608610 CCAAAGGAACCGAACTTATTACAAG 58.391 40.000 0.00 0.00 0.00 3.16
603 634 3.149005 TGCCAAAGGAACCGAACTTAT 57.851 42.857 0.00 0.00 0.00 1.73
624 655 3.368822 GGCACCAGCAAATGCAGA 58.631 55.556 8.28 0.00 43.93 4.26
637 668 0.609662 AGGAATGCAATGTTGGGCAC 59.390 50.000 0.00 0.00 43.75 5.01
664 698 9.507329 CTGGTTTCAGGCAATATGTATAGTTAT 57.493 33.333 0.00 0.00 37.36 1.89
719 766 2.072298 TGCATAAACCGCAAATTTGGC 58.928 42.857 19.47 11.67 36.17 4.52
768 816 2.032054 CGATCCCACATGATTTTCACCG 59.968 50.000 0.00 0.00 0.00 4.94
798 846 5.313520 TGCACTTCATGATTAATGTGTGG 57.686 39.130 0.00 0.00 39.67 4.17
799 847 6.237728 GCAATGCACTTCATGATTAATGTGTG 60.238 38.462 0.00 0.00 40.89 3.82
917 975 0.251916 TGTTACCATCGGCCTTCTGG 59.748 55.000 12.21 12.21 36.09 3.86
918 976 2.009774 CTTGTTACCATCGGCCTTCTG 58.990 52.381 0.00 0.00 0.00 3.02
919 977 1.906574 TCTTGTTACCATCGGCCTTCT 59.093 47.619 0.00 0.00 0.00 2.85
920 978 2.396590 TCTTGTTACCATCGGCCTTC 57.603 50.000 0.00 0.00 0.00 3.46
921 979 2.871096 TTCTTGTTACCATCGGCCTT 57.129 45.000 0.00 0.00 0.00 4.35
922 980 2.643551 CATTCTTGTTACCATCGGCCT 58.356 47.619 0.00 0.00 0.00 5.19
923 981 1.676006 CCATTCTTGTTACCATCGGCC 59.324 52.381 0.00 0.00 0.00 6.13
924 982 1.676006 CCCATTCTTGTTACCATCGGC 59.324 52.381 0.00 0.00 0.00 5.54
925 983 2.297701 CCCCATTCTTGTTACCATCGG 58.702 52.381 0.00 0.00 0.00 4.18
926 984 2.297701 CCCCCATTCTTGTTACCATCG 58.702 52.381 0.00 0.00 0.00 3.84
927 985 2.031870 GCCCCCATTCTTGTTACCATC 58.968 52.381 0.00 0.00 0.00 3.51
928 986 1.342975 GGCCCCCATTCTTGTTACCAT 60.343 52.381 0.00 0.00 0.00 3.55
932 990 0.787084 TTGGGCCCCCATTCTTGTTA 59.213 50.000 22.27 0.00 46.64 2.41
963 1021 0.527817 GTGGTCGGCTCCATCGTAAG 60.528 60.000 1.92 0.00 39.81 2.34
964 1022 0.968901 AGTGGTCGGCTCCATCGTAA 60.969 55.000 1.92 0.00 39.81 3.18
965 1023 1.379443 AGTGGTCGGCTCCATCGTA 60.379 57.895 1.92 0.00 39.81 3.43
966 1024 2.680352 AGTGGTCGGCTCCATCGT 60.680 61.111 1.92 0.00 39.81 3.73
967 1025 2.105128 GAGTGGTCGGCTCCATCG 59.895 66.667 1.92 0.00 39.81 3.84
972 1080 2.262915 CAGTGGAGTGGTCGGCTC 59.737 66.667 0.00 0.00 0.00 4.70
977 1085 0.390472 GTAGCAGCAGTGGAGTGGTC 60.390 60.000 0.00 0.00 0.00 4.02
984 1092 2.225791 TAGCACCGTAGCAGCAGTGG 62.226 60.000 0.00 0.00 36.85 4.00
992 1100 0.307146 CGGAGTAGTAGCACCGTAGC 59.693 60.000 0.00 0.00 40.42 3.58
993 1101 0.307146 GCGGAGTAGTAGCACCGTAG 59.693 60.000 0.00 0.00 45.91 3.51
994 1102 1.097547 GGCGGAGTAGTAGCACCGTA 61.098 60.000 0.00 0.00 45.91 4.02
995 1103 2.413142 GGCGGAGTAGTAGCACCGT 61.413 63.158 0.00 0.00 45.91 4.83
996 1104 2.412112 GGCGGAGTAGTAGCACCG 59.588 66.667 0.00 0.00 46.74 4.94
997 1105 2.813200 GGGCGGAGTAGTAGCACC 59.187 66.667 0.00 0.00 0.00 5.01
998 1106 2.813200 GGGGCGGAGTAGTAGCAC 59.187 66.667 0.00 0.00 0.00 4.40
999 1107 2.831742 CGGGGCGGAGTAGTAGCA 60.832 66.667 0.00 0.00 0.00 3.49
1005 1113 2.757099 GGAAGACGGGGCGGAGTA 60.757 66.667 0.00 0.00 0.00 2.59
1013 1121 1.984570 TGAGGCAGAGGAAGACGGG 60.985 63.158 0.00 0.00 0.00 5.28
1014 1122 1.216710 GTGAGGCAGAGGAAGACGG 59.783 63.158 0.00 0.00 0.00 4.79
1349 1642 1.527380 GGCTTCCGGTGGTGTTGAA 60.527 57.895 0.00 0.00 0.00 2.69
1402 1698 2.135933 CAGGACAGGTTTGAAGACGAC 58.864 52.381 0.00 0.00 0.00 4.34
1442 1738 1.080772 ACGTCGAAGCGCTGATGAA 60.081 52.632 20.33 0.00 34.88 2.57
1445 1741 3.181967 GCACGTCGAAGCGCTGAT 61.182 61.111 12.58 0.00 34.88 2.90
1465 1761 2.627791 CACTGTCAATGCCGTGGAA 58.372 52.632 0.00 0.00 0.00 3.53
1596 1901 1.302033 CTCAGGCGGAACTTGCACT 60.302 57.895 0.00 0.00 0.00 4.40
1659 1964 2.668212 ACATGGTTGTGGTCGGCG 60.668 61.111 0.00 0.00 33.85 6.46
1683 1988 4.828925 GGGCTCGAGTGGCAGCTC 62.829 72.222 15.13 0.00 35.82 4.09
1767 2079 1.747709 TGCCAGTCTCCGAGTAGTAC 58.252 55.000 0.00 0.00 0.00 2.73
1986 2316 1.134995 GCGCCATCCATGATCTCGATA 60.135 52.381 0.00 0.00 0.00 2.92
2060 2390 4.447138 ACACCCTGACAATTAACCTTCA 57.553 40.909 0.00 0.00 0.00 3.02
2699 3055 4.959210 AGATGTACTAGTCACTTGCAGGAT 59.041 41.667 1.40 0.00 0.00 3.24
2800 3166 6.016192 TGCCAAAACTCATAAACATTACCGAA 60.016 34.615 0.00 0.00 0.00 4.30
3287 3760 3.019564 CCGCCAGAGATTTTCCAAAGAT 58.980 45.455 0.00 0.00 0.00 2.40
3300 3773 0.537188 AACCATAGTGTCCGCCAGAG 59.463 55.000 0.00 0.00 0.00 3.35
3340 3817 8.818406 TGTGAATCACTATAGCCGAAAGGACG 62.818 46.154 14.97 0.00 44.58 4.79
3399 3877 4.210331 AGTCACTTTTCTTGGCATCACTT 58.790 39.130 0.00 0.00 0.00 3.16
3400 3878 3.817647 GAGTCACTTTTCTTGGCATCACT 59.182 43.478 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.