Multiple sequence alignment - TraesCS3D01G465400

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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 TraesCS3D01G465400 chr3D 100.000 2690 0 0 1 2690 569131844 569134533 0.000000e+00 4968.0
1 TraesCS3D01G465400 chr3D 94.626 2047 75 14 666 2689 566628631 566630665 0.000000e+00 3138.0
2 TraesCS3D01G465400 chr3D 80.057 1404 212 35 591 1959 569467249 569465879 0.000000e+00 979.0
3 TraesCS3D01G465400 chr3D 80.788 1218 181 32 776 1959 567906256 567907454 0.000000e+00 904.0
4 TraesCS3D01G465400 chr3D 75.028 893 166 38 1297 2167 567371630 567372487 7.080000e-96 361.0
5 TraesCS3D01G465400 chr3D 79.870 462 61 20 2232 2685 569463774 569463337 2.600000e-80 309.0
6 TraesCS3D01G465400 chr3D 82.789 337 49 2 535 868 568181120 568181450 2.620000e-75 292.0
7 TraesCS3D01G465400 chr3D 86.500 200 13 6 2499 2690 567160653 567160460 9.760000e-50 207.0
8 TraesCS3D01G465400 chr3D 79.208 101 15 5 1161 1258 520097109 520097012 6.220000e-07 65.8
9 TraesCS3D01G465400 chr3B 92.129 2236 115 22 467 2661 754850319 754848104 0.000000e+00 3097.0
10 TraesCS3D01G465400 chr3B 80.982 957 153 19 1014 1959 756376900 756375962 0.000000e+00 732.0
11 TraesCS3D01G465400 chr3B 80.374 321 42 12 2370 2688 756438198 756437897 9.690000e-55 224.0
12 TraesCS3D01G465400 chr3B 92.079 101 7 1 275 374 754850547 754850447 1.000000e-29 141.0
13 TraesCS3D01G465400 chr3B 93.671 79 5 0 360 438 754850397 754850319 4.700000e-23 119.0
14 TraesCS3D01G465400 chr3B 78.846 104 16 5 1158 1258 685394170 685394270 6.220000e-07 65.8
15 TraesCS3D01G465400 chrUn 91.549 2260 115 23 467 2690 284163371 284161152 0.000000e+00 3046.0
16 TraesCS3D01G465400 chrUn 80.290 1446 222 39 542 1959 319040975 319039565 0.000000e+00 1033.0
17 TraesCS3D01G465400 chrUn 80.329 1398 213 37 590 1959 217837311 217838674 0.000000e+00 1002.0
18 TraesCS3D01G465400 chrUn 80.329 1398 213 37 590 1959 227101579 227102942 0.000000e+00 1002.0
19 TraesCS3D01G465400 chrUn 80.114 1403 216 39 585 1959 357987055 357985688 0.000000e+00 987.0
20 TraesCS3D01G465400 chrUn 83.208 399 49 11 458 849 41059926 41059539 1.530000e-92 350.0
21 TraesCS3D01G465400 chrUn 80.745 322 39 14 2370 2688 217830253 217830554 2.080000e-56 230.0
22 TraesCS3D01G465400 chrUn 78.693 352 55 10 2230 2567 340247278 340246933 1.620000e-52 217.0
23 TraesCS3D01G465400 chrUn 82.996 247 23 8 2232 2461 40929205 40928961 3.510000e-49 206.0
24 TraesCS3D01G465400 chrUn 92.079 101 7 1 275 374 284163599 284163499 1.000000e-29 141.0
25 TraesCS3D01G465400 chrUn 92.079 101 7 1 275 374 336142594 336142494 1.000000e-29 141.0
26 TraesCS3D01G465400 chrUn 93.671 79 5 0 360 438 284163449 284163371 4.700000e-23 119.0
27 TraesCS3D01G465400 chrUn 93.671 79 5 0 360 438 336142444 336142366 4.700000e-23 119.0
28 TraesCS3D01G465400 chr3A 92.547 805 44 9 1550 2346 701305623 701306419 0.000000e+00 1140.0
29 TraesCS3D01G465400 chr3A 92.163 319 18 2 2375 2690 701306412 701306726 6.830000e-121 444.0
30 TraesCS3D01G465400 chr3A 80.000 460 61 19 2238 2689 702411712 702411276 7.230000e-81 311.0
31 TraesCS3D01G465400 chr3A 82.789 337 49 4 535 868 700423441 700423111 2.620000e-75 292.0
32 TraesCS3D01G465400 chr3A 85.926 270 31 6 549 817 157045066 157044803 5.670000e-72 281.0
33 TraesCS3D01G465400 chr3A 79.592 343 49 13 2230 2558 701361387 701361722 2.690000e-55 226.0
34 TraesCS3D01G465400 chr3A 74.545 275 51 12 1001 1258 157044576 157044304 4.740000e-18 102.0
35 TraesCS3D01G465400 chr7D 82.222 315 40 9 555 864 41601840 41601537 9.560000e-65 257.0
36 TraesCS3D01G465400 chr1D 81.703 317 44 6 549 861 26270200 26269894 4.450000e-63 252.0
37 TraesCS3D01G465400 chr6A 85.915 142 16 4 2096 2235 596773816 596773677 6.000000e-32 148.0
38 TraesCS3D01G465400 chr6B 85.211 142 17 4 2096 2235 685204847 685204708 2.790000e-30 143.0


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 TraesCS3D01G465400 chr3D 569131844 569134533 2689 False 4968 4968 100.000000 1 2690 1 chr3D.!!$F5 2689
1 TraesCS3D01G465400 chr3D 566628631 566630665 2034 False 3138 3138 94.626000 666 2689 1 chr3D.!!$F1 2023
2 TraesCS3D01G465400 chr3D 567906256 567907454 1198 False 904 904 80.788000 776 1959 1 chr3D.!!$F3 1183
3 TraesCS3D01G465400 chr3D 569463337 569467249 3912 True 644 979 79.963500 591 2685 2 chr3D.!!$R3 2094
4 TraesCS3D01G465400 chr3D 567371630 567372487 857 False 361 361 75.028000 1297 2167 1 chr3D.!!$F2 870
5 TraesCS3D01G465400 chr3B 754848104 754850547 2443 True 1119 3097 92.626333 275 2661 3 chr3B.!!$R3 2386
6 TraesCS3D01G465400 chr3B 756375962 756376900 938 True 732 732 80.982000 1014 1959 1 chr3B.!!$R1 945
7 TraesCS3D01G465400 chrUn 284161152 284163599 2447 True 1102 3046 92.433000 275 2690 3 chrUn.!!$R6 2415
8 TraesCS3D01G465400 chrUn 319039565 319040975 1410 True 1033 1033 80.290000 542 1959 1 chrUn.!!$R3 1417
9 TraesCS3D01G465400 chrUn 217837311 217838674 1363 False 1002 1002 80.329000 590 1959 1 chrUn.!!$F2 1369
10 TraesCS3D01G465400 chrUn 227101579 227102942 1363 False 1002 1002 80.329000 590 1959 1 chrUn.!!$F3 1369
11 TraesCS3D01G465400 chrUn 357985688 357987055 1367 True 987 987 80.114000 585 1959 1 chrUn.!!$R5 1374
12 TraesCS3D01G465400 chr3A 701305623 701306726 1103 False 792 1140 92.355000 1550 2690 2 chr3A.!!$F2 1140

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
30 31 0.107654 GGGCCTGTTTAGCGAGACAT 60.108 55.0 0.84 0.0 0.0 3.06 F
234 235 0.109723 AAGCCTACAAAGTTCCGCCA 59.890 50.0 0.00 0.0 0.0 5.69 F
461 527 0.315869 CGAAGACAACACAACCGCAC 60.316 55.0 0.00 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1126 1236 1.073923 GGGTGACAAGTCCTCCACATT 59.926 52.381 11.57 0.0 0.0 2.71 R
1154 1264 1.139058 GGCTACCACGGAACATGAGAT 59.861 52.381 0.00 0.0 0.0 2.75 R
2330 4313 0.325203 AAAGGCACAAACACCACCCT 60.325 50.000 0.00 0.0 0.0 4.34 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
17 18 3.244616 CCTACTGATGGGGGCCTG 58.755 66.667 0.84 0.00 0.00 4.85
18 19 1.694169 CCTACTGATGGGGGCCTGT 60.694 63.158 0.84 0.00 0.00 4.00
19 20 1.281925 CCTACTGATGGGGGCCTGTT 61.282 60.000 0.84 0.00 0.00 3.16
20 21 0.625849 CTACTGATGGGGGCCTGTTT 59.374 55.000 0.84 0.00 0.00 2.83
21 22 1.843851 CTACTGATGGGGGCCTGTTTA 59.156 52.381 0.84 0.00 0.00 2.01
22 23 0.625849 ACTGATGGGGGCCTGTTTAG 59.374 55.000 0.84 0.00 0.00 1.85
23 24 0.753111 CTGATGGGGGCCTGTTTAGC 60.753 60.000 0.84 0.00 0.00 3.09
24 25 1.823899 GATGGGGGCCTGTTTAGCG 60.824 63.158 0.84 0.00 0.00 4.26
25 26 2.265467 GATGGGGGCCTGTTTAGCGA 62.265 60.000 0.84 0.00 0.00 4.93
26 27 2.124695 GGGGGCCTGTTTAGCGAG 60.125 66.667 0.84 0.00 0.00 5.03
27 28 2.666098 GGGGGCCTGTTTAGCGAGA 61.666 63.158 0.84 0.00 0.00 4.04
28 29 1.449778 GGGGCCTGTTTAGCGAGAC 60.450 63.158 0.84 0.00 0.00 3.36
29 30 1.295423 GGGCCTGTTTAGCGAGACA 59.705 57.895 0.84 0.00 0.00 3.41
30 31 0.107654 GGGCCTGTTTAGCGAGACAT 60.108 55.000 0.84 0.00 0.00 3.06
31 32 1.138266 GGGCCTGTTTAGCGAGACATA 59.862 52.381 0.84 0.00 0.00 2.29
32 33 2.202566 GGCCTGTTTAGCGAGACATAC 58.797 52.381 0.00 0.00 0.00 2.39
33 34 2.202566 GCCTGTTTAGCGAGACATACC 58.797 52.381 0.00 0.00 0.00 2.73
34 35 2.418197 GCCTGTTTAGCGAGACATACCA 60.418 50.000 0.00 0.00 0.00 3.25
35 36 3.741388 GCCTGTTTAGCGAGACATACCAT 60.741 47.826 0.00 0.00 0.00 3.55
36 37 4.442706 CCTGTTTAGCGAGACATACCATT 58.557 43.478 0.00 0.00 0.00 3.16
37 38 4.508124 CCTGTTTAGCGAGACATACCATTC 59.492 45.833 0.00 0.00 0.00 2.67
38 39 5.339008 TGTTTAGCGAGACATACCATTCT 57.661 39.130 0.00 0.00 0.00 2.40
39 40 6.459670 TGTTTAGCGAGACATACCATTCTA 57.540 37.500 0.00 0.00 0.00 2.10
40 41 6.504398 TGTTTAGCGAGACATACCATTCTAG 58.496 40.000 0.00 0.00 0.00 2.43
41 42 5.707242 TTAGCGAGACATACCATTCTAGG 57.293 43.478 0.00 0.00 0.00 3.02
42 43 3.833732 AGCGAGACATACCATTCTAGGA 58.166 45.455 0.00 0.00 0.00 2.94
43 44 4.215908 AGCGAGACATACCATTCTAGGAA 58.784 43.478 0.00 0.00 0.00 3.36
44 45 4.038162 AGCGAGACATACCATTCTAGGAAC 59.962 45.833 0.00 0.00 0.00 3.62
45 46 4.038162 GCGAGACATACCATTCTAGGAACT 59.962 45.833 0.00 0.00 46.37 3.01
46 47 5.764131 CGAGACATACCATTCTAGGAACTC 58.236 45.833 0.00 0.00 41.75 3.01
47 48 5.278561 CGAGACATACCATTCTAGGAACTCC 60.279 48.000 0.00 0.00 41.75 3.85
48 49 4.902448 AGACATACCATTCTAGGAACTCCC 59.098 45.833 0.00 0.00 41.75 4.30
49 50 3.974642 ACATACCATTCTAGGAACTCCCC 59.025 47.826 0.00 0.00 41.75 4.81
50 51 2.972153 ACCATTCTAGGAACTCCCCT 57.028 50.000 0.00 0.00 41.75 4.79
51 52 3.222394 ACCATTCTAGGAACTCCCCTT 57.778 47.619 0.00 0.00 41.75 3.95
52 53 3.116174 ACCATTCTAGGAACTCCCCTTC 58.884 50.000 0.00 0.00 41.75 3.46
53 54 3.115390 CCATTCTAGGAACTCCCCTTCA 58.885 50.000 0.00 0.00 41.75 3.02
54 55 3.523564 CCATTCTAGGAACTCCCCTTCAA 59.476 47.826 0.00 0.00 41.75 2.69
55 56 4.166919 CCATTCTAGGAACTCCCCTTCAAT 59.833 45.833 0.00 0.00 41.75 2.57
56 57 5.369699 CCATTCTAGGAACTCCCCTTCAATA 59.630 44.000 0.00 0.00 41.75 1.90
57 58 6.465035 CCATTCTAGGAACTCCCCTTCAATAG 60.465 46.154 0.00 0.00 41.75 1.73
58 59 3.967987 TCTAGGAACTCCCCTTCAATAGC 59.032 47.826 0.00 0.00 41.75 2.97
59 60 2.562296 AGGAACTCCCCTTCAATAGCA 58.438 47.619 0.00 0.00 36.42 3.49
60 61 2.919602 AGGAACTCCCCTTCAATAGCAA 59.080 45.455 0.00 0.00 36.42 3.91
61 62 3.333680 AGGAACTCCCCTTCAATAGCAAA 59.666 43.478 0.00 0.00 36.42 3.68
62 63 3.696548 GGAACTCCCCTTCAATAGCAAAG 59.303 47.826 0.00 0.00 0.00 2.77
63 64 4.567747 GGAACTCCCCTTCAATAGCAAAGA 60.568 45.833 0.00 0.00 0.00 2.52
64 65 4.657814 ACTCCCCTTCAATAGCAAAGAA 57.342 40.909 0.00 0.00 0.00 2.52
65 66 4.593956 ACTCCCCTTCAATAGCAAAGAAG 58.406 43.478 0.00 0.00 38.72 2.85
66 67 4.289672 ACTCCCCTTCAATAGCAAAGAAGA 59.710 41.667 0.00 0.00 40.85 2.87
67 68 5.044550 ACTCCCCTTCAATAGCAAAGAAGAT 60.045 40.000 0.00 0.00 40.85 2.40
68 69 6.158695 ACTCCCCTTCAATAGCAAAGAAGATA 59.841 38.462 0.00 0.00 40.85 1.98
69 70 6.357367 TCCCCTTCAATAGCAAAGAAGATAC 58.643 40.000 0.00 0.00 40.85 2.24
70 71 6.158695 TCCCCTTCAATAGCAAAGAAGATACT 59.841 38.462 0.00 0.00 40.85 2.12
71 72 7.347222 TCCCCTTCAATAGCAAAGAAGATACTA 59.653 37.037 0.00 0.00 40.85 1.82
72 73 7.442666 CCCCTTCAATAGCAAAGAAGATACTAC 59.557 40.741 0.00 0.00 40.85 2.73
73 74 8.207545 CCCTTCAATAGCAAAGAAGATACTACT 58.792 37.037 0.00 0.00 40.85 2.57
74 75 9.606631 CCTTCAATAGCAAAGAAGATACTACTT 57.393 33.333 0.00 0.00 40.85 2.24
93 94 7.437748 ACTACTTACATCAATCATAGTGAGCC 58.562 38.462 0.00 0.00 0.00 4.70
94 95 6.239217 ACTTACATCAATCATAGTGAGCCA 57.761 37.500 0.00 0.00 0.00 4.75
95 96 6.835174 ACTTACATCAATCATAGTGAGCCAT 58.165 36.000 0.00 0.00 0.00 4.40
96 97 7.285566 ACTTACATCAATCATAGTGAGCCATT 58.714 34.615 0.00 0.00 0.00 3.16
97 98 7.776969 ACTTACATCAATCATAGTGAGCCATTT 59.223 33.333 0.00 0.00 0.00 2.32
98 99 6.387041 ACATCAATCATAGTGAGCCATTTG 57.613 37.500 0.00 0.00 0.00 2.32
99 100 5.301045 ACATCAATCATAGTGAGCCATTTGG 59.699 40.000 0.00 0.00 38.53 3.28
100 101 4.209538 TCAATCATAGTGAGCCATTTGGG 58.790 43.478 0.00 0.00 40.85 4.12
101 102 4.079844 TCAATCATAGTGAGCCATTTGGGA 60.080 41.667 0.00 0.00 40.01 4.37
102 103 3.565764 TCATAGTGAGCCATTTGGGAG 57.434 47.619 0.00 0.00 40.01 4.30
103 104 2.173356 TCATAGTGAGCCATTTGGGAGG 59.827 50.000 0.00 0.00 40.01 4.30
104 105 1.668826 TAGTGAGCCATTTGGGAGGT 58.331 50.000 0.00 0.00 40.01 3.85
105 106 0.779997 AGTGAGCCATTTGGGAGGTT 59.220 50.000 0.00 0.00 40.01 3.50
106 107 0.890683 GTGAGCCATTTGGGAGGTTG 59.109 55.000 0.00 0.00 40.01 3.77
107 108 0.251742 TGAGCCATTTGGGAGGTTGG 60.252 55.000 0.00 0.00 40.01 3.77
108 109 0.972471 GAGCCATTTGGGAGGTTGGG 60.972 60.000 0.00 0.00 40.01 4.12
109 110 2.659063 GCCATTTGGGAGGTTGGGC 61.659 63.158 0.00 0.00 40.01 5.36
110 111 1.079073 CCATTTGGGAGGTTGGGCT 59.921 57.895 0.00 0.00 40.01 5.19
111 112 0.972471 CCATTTGGGAGGTTGGGCTC 60.972 60.000 0.00 0.00 40.01 4.70
112 113 0.972471 CATTTGGGAGGTTGGGCTCC 60.972 60.000 0.00 0.00 38.96 4.70
113 114 1.442886 ATTTGGGAGGTTGGGCTCCA 61.443 55.000 0.00 0.00 41.34 3.86
114 115 1.442886 TTTGGGAGGTTGGGCTCCAT 61.443 55.000 0.00 0.00 41.34 3.41
115 116 2.153898 TTGGGAGGTTGGGCTCCATG 62.154 60.000 0.00 0.00 41.34 3.66
116 117 2.276740 GGAGGTTGGGCTCCATGG 59.723 66.667 4.97 4.97 39.45 3.66
117 118 2.308722 GGAGGTTGGGCTCCATGGA 61.309 63.158 15.27 15.27 39.45 3.41
118 119 1.225704 GAGGTTGGGCTCCATGGAG 59.774 63.158 33.73 33.73 44.56 3.86
131 132 5.452078 CTCCATGGAGCTTGTTTTTGTAA 57.548 39.130 28.45 0.00 35.31 2.41
132 133 5.841810 CTCCATGGAGCTTGTTTTTGTAAA 58.158 37.500 28.45 0.00 35.31 2.01
133 134 6.227298 TCCATGGAGCTTGTTTTTGTAAAA 57.773 33.333 11.44 0.00 0.00 1.52
134 135 6.644347 TCCATGGAGCTTGTTTTTGTAAAAA 58.356 32.000 11.44 0.00 35.67 1.94
232 233 4.690122 TCTATAAGCCTACAAAGTTCCGC 58.310 43.478 0.00 0.00 0.00 5.54
233 234 2.103537 TAAGCCTACAAAGTTCCGCC 57.896 50.000 0.00 0.00 0.00 6.13
234 235 0.109723 AAGCCTACAAAGTTCCGCCA 59.890 50.000 0.00 0.00 0.00 5.69
235 236 0.328258 AGCCTACAAAGTTCCGCCAT 59.672 50.000 0.00 0.00 0.00 4.40
236 237 0.451783 GCCTACAAAGTTCCGCCATG 59.548 55.000 0.00 0.00 0.00 3.66
237 238 1.948611 GCCTACAAAGTTCCGCCATGA 60.949 52.381 0.00 0.00 0.00 3.07
238 239 2.432444 CCTACAAAGTTCCGCCATGAA 58.568 47.619 0.00 0.00 0.00 2.57
239 240 2.817258 CCTACAAAGTTCCGCCATGAAA 59.183 45.455 0.00 0.00 0.00 2.69
240 241 3.443681 CCTACAAAGTTCCGCCATGAAAT 59.556 43.478 0.00 0.00 0.00 2.17
241 242 4.638421 CCTACAAAGTTCCGCCATGAAATA 59.362 41.667 0.00 0.00 0.00 1.40
242 243 4.434713 ACAAAGTTCCGCCATGAAATAC 57.565 40.909 0.00 0.00 0.00 1.89
243 244 3.823873 ACAAAGTTCCGCCATGAAATACA 59.176 39.130 0.00 0.00 0.00 2.29
244 245 4.462483 ACAAAGTTCCGCCATGAAATACAT 59.538 37.500 0.00 0.00 40.17 2.29
245 246 5.650266 ACAAAGTTCCGCCATGAAATACATA 59.350 36.000 0.00 0.00 37.46 2.29
246 247 5.751243 AAGTTCCGCCATGAAATACATAC 57.249 39.130 0.00 0.00 37.46 2.39
247 248 4.776349 AGTTCCGCCATGAAATACATACA 58.224 39.130 0.00 0.00 37.46 2.29
248 249 4.574828 AGTTCCGCCATGAAATACATACAC 59.425 41.667 0.00 0.00 37.46 2.90
249 250 4.143986 TCCGCCATGAAATACATACACA 57.856 40.909 0.00 0.00 37.46 3.72
250 251 4.713553 TCCGCCATGAAATACATACACAT 58.286 39.130 0.00 0.00 37.46 3.21
251 252 4.514816 TCCGCCATGAAATACATACACATG 59.485 41.667 0.00 0.00 37.46 3.21
253 254 5.207033 CGCCATGAAATACATACACATGTG 58.793 41.667 24.25 24.25 45.17 3.21
254 255 4.977963 GCCATGAAATACATACACATGTGC 59.022 41.667 25.68 6.56 45.17 4.57
255 256 5.522456 CCATGAAATACATACACATGTGCC 58.478 41.667 25.68 4.65 45.17 5.01
256 257 5.300034 CCATGAAATACATACACATGTGCCT 59.700 40.000 25.68 10.30 45.17 4.75
257 258 6.183360 CCATGAAATACATACACATGTGCCTT 60.183 38.462 25.68 9.21 45.17 4.35
258 259 6.832520 TGAAATACATACACATGTGCCTTT 57.167 33.333 25.68 14.70 45.17 3.11
259 260 7.225784 TGAAATACATACACATGTGCCTTTT 57.774 32.000 25.68 15.48 45.17 2.27
260 261 7.665690 TGAAATACATACACATGTGCCTTTTT 58.334 30.769 25.68 16.43 45.17 1.94
336 337 8.310406 TCCATCATCGTTTCATATACATGTTC 57.690 34.615 2.30 0.00 33.57 3.18
357 358 5.720371 TCGATTCCATTCCAAACATTTGT 57.280 34.783 3.79 0.00 36.45 2.83
358 359 6.825944 TCGATTCCATTCCAAACATTTGTA 57.174 33.333 3.79 0.00 36.45 2.41
388 454 6.105397 ACATGATTCCAAAGATTTGTTGCT 57.895 33.333 0.00 0.00 36.45 3.91
435 501 2.348998 CCAGCCCGTTTGAGAGCT 59.651 61.111 0.00 0.00 35.52 4.09
437 503 2.097038 CAGCCCGTTTGAGAGCTCG 61.097 63.158 8.37 0.00 31.93 5.03
438 504 2.815647 GCCCGTTTGAGAGCTCGG 60.816 66.667 8.37 5.08 42.22 4.63
439 505 2.657237 CCCGTTTGAGAGCTCGGT 59.343 61.111 8.37 0.00 41.17 4.69
440 506 1.446272 CCCGTTTGAGAGCTCGGTC 60.446 63.158 8.37 1.63 41.17 4.79
441 507 1.446272 CCGTTTGAGAGCTCGGTCC 60.446 63.158 8.37 0.00 38.45 4.46
442 508 1.446272 CGTTTGAGAGCTCGGTCCC 60.446 63.158 8.37 0.00 0.00 4.46
443 509 1.446272 GTTTGAGAGCTCGGTCCCG 60.446 63.158 8.37 0.00 41.35 5.14
444 510 1.605451 TTTGAGAGCTCGGTCCCGA 60.605 57.895 8.37 8.34 46.87 5.14
457 523 0.942252 GTCCCGAAGACAACACAACC 59.058 55.000 1.19 0.00 45.55 3.77
458 524 0.531090 TCCCGAAGACAACACAACCG 60.531 55.000 0.00 0.00 0.00 4.44
459 525 1.278637 CCGAAGACAACACAACCGC 59.721 57.895 0.00 0.00 0.00 5.68
460 526 1.433053 CCGAAGACAACACAACCGCA 61.433 55.000 0.00 0.00 0.00 5.69
461 527 0.315869 CGAAGACAACACAACCGCAC 60.316 55.000 0.00 0.00 0.00 5.34
462 528 0.315869 GAAGACAACACAACCGCACG 60.316 55.000 0.00 0.00 0.00 5.34
463 529 0.741574 AAGACAACACAACCGCACGA 60.742 50.000 0.00 0.00 0.00 4.35
464 530 1.151777 AGACAACACAACCGCACGAG 61.152 55.000 0.00 0.00 0.00 4.18
465 531 1.149361 GACAACACAACCGCACGAGA 61.149 55.000 0.00 0.00 0.00 4.04
489 555 2.004589 AGGAAGACCTACCCACTCTCT 58.995 52.381 0.00 0.00 45.83 3.10
490 556 2.024751 AGGAAGACCTACCCACTCTCTC 60.025 54.545 0.00 0.00 45.83 3.20
491 557 2.024751 GGAAGACCTACCCACTCTCTCT 60.025 54.545 0.00 0.00 0.00 3.10
492 558 2.818751 AGACCTACCCACTCTCTCTG 57.181 55.000 0.00 0.00 0.00 3.35
493 559 1.107945 GACCTACCCACTCTCTCTGC 58.892 60.000 0.00 0.00 0.00 4.26
494 560 0.324830 ACCTACCCACTCTCTCTGCC 60.325 60.000 0.00 0.00 0.00 4.85
495 561 1.388065 CCTACCCACTCTCTCTGCCG 61.388 65.000 0.00 0.00 0.00 5.69
496 562 2.010582 CTACCCACTCTCTCTGCCGC 62.011 65.000 0.00 0.00 0.00 6.53
544 619 1.305297 ACCATCAGTGAGCTCCCGA 60.305 57.895 12.15 5.23 0.00 5.14
546 621 1.142748 CATCAGTGAGCTCCCGACC 59.857 63.158 12.15 0.00 0.00 4.79
547 622 1.305297 ATCAGTGAGCTCCCGACCA 60.305 57.895 12.15 0.00 0.00 4.02
1012 1122 2.888534 CCGGAATGTACCCGCACG 60.889 66.667 0.00 0.00 45.24 5.34
1087 1197 0.824759 CCAGGTCTACACACTAGGCC 59.175 60.000 0.00 0.00 39.54 5.19
1126 1236 1.223077 ACATAGACATAGAGGGCCCCA 59.777 52.381 21.43 4.01 0.00 4.96
1154 1264 1.414919 GGACTTGTCACCCAGTACACA 59.585 52.381 0.00 0.00 0.00 3.72
1326 1436 4.346730 TGTTTGAGATGGATGGAATGCTT 58.653 39.130 0.00 0.00 34.76 3.91
1390 1500 3.808728 TGGGCTATGCAAGACTATGAAC 58.191 45.455 0.00 0.00 31.67 3.18
1469 1579 5.104735 TGCAGTTTGGAAAGTTTAACCCATT 60.105 36.000 0.00 0.00 0.00 3.16
1885 2005 2.948979 TCGGATTATTCCATGGTTGTGC 59.051 45.455 12.58 0.00 42.74 4.57
1888 2008 4.761739 CGGATTATTCCATGGTTGTGCTAT 59.238 41.667 12.58 0.00 42.74 2.97
1889 2009 5.937540 CGGATTATTCCATGGTTGTGCTATA 59.062 40.000 12.58 0.00 42.74 1.31
1890 2010 6.128282 CGGATTATTCCATGGTTGTGCTATAC 60.128 42.308 12.58 0.00 42.74 1.47
1990 2149 5.351465 GTGTCTCTGTTTTCTTGAACTCACA 59.649 40.000 0.00 0.00 0.00 3.58
1998 2157 4.753516 TTCTTGAACTCACAAGTGGAGA 57.246 40.909 0.00 0.00 44.96 3.71
2021 2190 6.625700 AGATCCTTTTCCCCTTTATATGGTCT 59.374 38.462 0.00 0.00 0.00 3.85
2443 4430 5.534278 TGTATTCAAGAAACCATTGCACTCA 59.466 36.000 0.00 0.00 0.00 3.41
2517 4510 2.176273 GCTAGTGCATGCAGTCGGG 61.176 63.158 30.66 21.21 39.41 5.14
2551 4544 3.187432 GGAAAAAGTAGCTCACTGTCAGC 59.813 47.826 0.00 0.00 37.63 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.625849 CTAAACAGGCCCCCATCAGT 59.374 55.000 0.00 0.00 0.00 3.41
5 6 1.306296 GCTAAACAGGCCCCCATCA 59.694 57.895 0.00 0.00 0.00 3.07
6 7 1.823899 CGCTAAACAGGCCCCCATC 60.824 63.158 0.00 0.00 0.00 3.51
7 8 2.270874 CTCGCTAAACAGGCCCCCAT 62.271 60.000 0.00 0.00 0.00 4.00
8 9 2.931105 TCGCTAAACAGGCCCCCA 60.931 61.111 0.00 0.00 0.00 4.96
9 10 2.124695 CTCGCTAAACAGGCCCCC 60.125 66.667 0.00 0.00 0.00 5.40
10 11 1.449778 GTCTCGCTAAACAGGCCCC 60.450 63.158 0.00 0.00 0.00 5.80
11 12 0.107654 ATGTCTCGCTAAACAGGCCC 60.108 55.000 0.00 0.00 0.00 5.80
12 13 2.202566 GTATGTCTCGCTAAACAGGCC 58.797 52.381 0.00 0.00 0.00 5.19
13 14 2.202566 GGTATGTCTCGCTAAACAGGC 58.797 52.381 0.00 0.00 0.00 4.85
14 15 3.520290 TGGTATGTCTCGCTAAACAGG 57.480 47.619 0.00 0.00 0.00 4.00
15 16 5.352284 AGAATGGTATGTCTCGCTAAACAG 58.648 41.667 0.00 0.00 0.00 3.16
16 17 5.339008 AGAATGGTATGTCTCGCTAAACA 57.661 39.130 0.00 0.00 0.00 2.83
17 18 5.921408 CCTAGAATGGTATGTCTCGCTAAAC 59.079 44.000 0.00 0.00 0.00 2.01
18 19 5.831525 TCCTAGAATGGTATGTCTCGCTAAA 59.168 40.000 0.00 0.00 0.00 1.85
19 20 5.382616 TCCTAGAATGGTATGTCTCGCTAA 58.617 41.667 0.00 0.00 0.00 3.09
20 21 4.981812 TCCTAGAATGGTATGTCTCGCTA 58.018 43.478 0.00 0.00 0.00 4.26
21 22 3.833732 TCCTAGAATGGTATGTCTCGCT 58.166 45.455 0.00 0.00 0.00 4.93
22 23 4.038162 AGTTCCTAGAATGGTATGTCTCGC 59.962 45.833 0.00 0.00 0.00 5.03
23 24 5.278561 GGAGTTCCTAGAATGGTATGTCTCG 60.279 48.000 0.00 0.00 0.00 4.04
24 25 5.011227 GGGAGTTCCTAGAATGGTATGTCTC 59.989 48.000 0.00 0.00 35.95 3.36
25 26 4.902448 GGGAGTTCCTAGAATGGTATGTCT 59.098 45.833 0.00 0.00 35.95 3.41
26 27 4.040584 GGGGAGTTCCTAGAATGGTATGTC 59.959 50.000 0.00 0.00 35.95 3.06
27 28 3.974642 GGGGAGTTCCTAGAATGGTATGT 59.025 47.826 0.00 0.00 35.95 2.29
28 29 4.235372 AGGGGAGTTCCTAGAATGGTATG 58.765 47.826 0.00 0.00 34.92 2.39
29 30 4.578149 AGGGGAGTTCCTAGAATGGTAT 57.422 45.455 0.00 0.00 34.92 2.73
30 31 4.265124 TGAAGGGGAGTTCCTAGAATGGTA 60.265 45.833 0.00 0.00 35.80 3.25
31 32 2.972153 AGGGGAGTTCCTAGAATGGT 57.028 50.000 0.00 0.00 34.92 3.55
32 33 3.115390 TGAAGGGGAGTTCCTAGAATGG 58.885 50.000 0.00 0.00 35.80 3.16
33 34 4.844349 TTGAAGGGGAGTTCCTAGAATG 57.156 45.455 0.00 0.00 35.80 2.67
34 35 5.072464 GCTATTGAAGGGGAGTTCCTAGAAT 59.928 44.000 0.00 0.00 35.80 2.40
35 36 4.409247 GCTATTGAAGGGGAGTTCCTAGAA 59.591 45.833 0.00 0.00 35.80 2.10
36 37 3.967987 GCTATTGAAGGGGAGTTCCTAGA 59.032 47.826 0.00 0.00 35.80 2.43
37 38 3.711704 TGCTATTGAAGGGGAGTTCCTAG 59.288 47.826 0.00 0.00 35.80 3.02
38 39 3.731431 TGCTATTGAAGGGGAGTTCCTA 58.269 45.455 0.00 0.00 35.80 2.94
39 40 2.562296 TGCTATTGAAGGGGAGTTCCT 58.438 47.619 0.00 0.00 39.17 3.36
40 41 3.366052 TTGCTATTGAAGGGGAGTTCC 57.634 47.619 0.00 0.00 0.00 3.62
41 42 4.589908 TCTTTGCTATTGAAGGGGAGTTC 58.410 43.478 0.00 0.00 0.00 3.01
42 43 4.657814 TCTTTGCTATTGAAGGGGAGTT 57.342 40.909 0.00 0.00 0.00 3.01
43 44 4.289672 TCTTCTTTGCTATTGAAGGGGAGT 59.710 41.667 9.94 0.00 38.10 3.85
44 45 4.848357 TCTTCTTTGCTATTGAAGGGGAG 58.152 43.478 9.94 0.00 38.10 4.30
45 46 4.927267 TCTTCTTTGCTATTGAAGGGGA 57.073 40.909 9.94 0.00 38.10 4.81
46 47 6.360618 AGTATCTTCTTTGCTATTGAAGGGG 58.639 40.000 9.94 0.00 38.10 4.79
47 48 8.207545 AGTAGTATCTTCTTTGCTATTGAAGGG 58.792 37.037 9.94 0.00 38.10 3.95
48 49 9.606631 AAGTAGTATCTTCTTTGCTATTGAAGG 57.393 33.333 9.94 0.00 38.10 3.46
67 68 8.577296 GGCTCACTATGATTGATGTAAGTAGTA 58.423 37.037 0.00 0.00 0.00 1.82
68 69 7.069950 TGGCTCACTATGATTGATGTAAGTAGT 59.930 37.037 0.00 0.00 0.00 2.73
69 70 7.436933 TGGCTCACTATGATTGATGTAAGTAG 58.563 38.462 0.00 0.00 0.00 2.57
70 71 7.360113 TGGCTCACTATGATTGATGTAAGTA 57.640 36.000 0.00 0.00 0.00 2.24
71 72 6.239217 TGGCTCACTATGATTGATGTAAGT 57.761 37.500 0.00 0.00 0.00 2.24
72 73 7.741027 AATGGCTCACTATGATTGATGTAAG 57.259 36.000 0.00 0.00 0.00 2.34
73 74 7.013559 CCAAATGGCTCACTATGATTGATGTAA 59.986 37.037 0.00 0.00 0.00 2.41
74 75 6.487668 CCAAATGGCTCACTATGATTGATGTA 59.512 38.462 0.00 0.00 0.00 2.29
75 76 5.301045 CCAAATGGCTCACTATGATTGATGT 59.699 40.000 0.00 0.00 0.00 3.06
76 77 5.278808 CCCAAATGGCTCACTATGATTGATG 60.279 44.000 0.00 0.00 0.00 3.07
77 78 4.831155 CCCAAATGGCTCACTATGATTGAT 59.169 41.667 0.00 0.00 0.00 2.57
78 79 4.079844 TCCCAAATGGCTCACTATGATTGA 60.080 41.667 0.00 0.00 0.00 2.57
79 80 4.209538 TCCCAAATGGCTCACTATGATTG 58.790 43.478 0.00 0.00 0.00 2.67
80 81 4.467769 CTCCCAAATGGCTCACTATGATT 58.532 43.478 0.00 0.00 0.00 2.57
81 82 3.181436 CCTCCCAAATGGCTCACTATGAT 60.181 47.826 0.00 0.00 0.00 2.45
82 83 2.173356 CCTCCCAAATGGCTCACTATGA 59.827 50.000 0.00 0.00 0.00 2.15
83 84 2.092212 ACCTCCCAAATGGCTCACTATG 60.092 50.000 0.00 0.00 0.00 2.23
84 85 2.208872 ACCTCCCAAATGGCTCACTAT 58.791 47.619 0.00 0.00 0.00 2.12
85 86 1.668826 ACCTCCCAAATGGCTCACTA 58.331 50.000 0.00 0.00 0.00 2.74
86 87 0.779997 AACCTCCCAAATGGCTCACT 59.220 50.000 0.00 0.00 0.00 3.41
87 88 0.890683 CAACCTCCCAAATGGCTCAC 59.109 55.000 0.00 0.00 0.00 3.51
88 89 0.251742 CCAACCTCCCAAATGGCTCA 60.252 55.000 0.00 0.00 0.00 4.26
89 90 0.972471 CCCAACCTCCCAAATGGCTC 60.972 60.000 0.00 0.00 0.00 4.70
90 91 1.079073 CCCAACCTCCCAAATGGCT 59.921 57.895 0.00 0.00 0.00 4.75
91 92 2.659063 GCCCAACCTCCCAAATGGC 61.659 63.158 0.00 0.00 0.00 4.40
92 93 0.972471 GAGCCCAACCTCCCAAATGG 60.972 60.000 0.00 0.00 0.00 3.16
93 94 0.972471 GGAGCCCAACCTCCCAAATG 60.972 60.000 0.00 0.00 44.60 2.32
94 95 1.388133 GGAGCCCAACCTCCCAAAT 59.612 57.895 0.00 0.00 44.60 2.32
95 96 2.851045 GGAGCCCAACCTCCCAAA 59.149 61.111 0.00 0.00 44.60 3.28
100 101 1.225704 CTCCATGGAGCCCAACCTC 59.774 63.158 28.45 0.00 36.95 3.85
101 102 3.419858 CTCCATGGAGCCCAACCT 58.580 61.111 28.45 0.00 36.95 3.50
109 110 5.452078 TTACAAAAACAAGCTCCATGGAG 57.548 39.130 33.73 33.73 44.56 3.86
110 111 5.860941 TTTACAAAAACAAGCTCCATGGA 57.139 34.783 15.27 15.27 0.00 3.41
111 112 6.917217 TTTTTACAAAAACAAGCTCCATGG 57.083 33.333 4.97 4.97 33.29 3.66
206 207 7.603024 GCGGAACTTTGTAGGCTTATAGAATAT 59.397 37.037 0.00 0.00 0.00 1.28
207 208 6.927381 GCGGAACTTTGTAGGCTTATAGAATA 59.073 38.462 0.00 0.00 0.00 1.75
208 209 5.758784 GCGGAACTTTGTAGGCTTATAGAAT 59.241 40.000 0.00 0.00 0.00 2.40
209 210 5.114081 GCGGAACTTTGTAGGCTTATAGAA 58.886 41.667 0.00 0.00 0.00 2.10
210 211 4.442472 GGCGGAACTTTGTAGGCTTATAGA 60.442 45.833 0.00 0.00 0.00 1.98
211 212 3.808174 GGCGGAACTTTGTAGGCTTATAG 59.192 47.826 0.00 0.00 0.00 1.31
212 213 3.198200 TGGCGGAACTTTGTAGGCTTATA 59.802 43.478 0.00 0.00 0.00 0.98
213 214 2.026636 TGGCGGAACTTTGTAGGCTTAT 60.027 45.455 0.00 0.00 0.00 1.73
214 215 1.348366 TGGCGGAACTTTGTAGGCTTA 59.652 47.619 0.00 0.00 0.00 3.09
215 216 0.109723 TGGCGGAACTTTGTAGGCTT 59.890 50.000 0.00 0.00 0.00 4.35
216 217 0.328258 ATGGCGGAACTTTGTAGGCT 59.672 50.000 0.00 0.00 0.00 4.58
217 218 0.451783 CATGGCGGAACTTTGTAGGC 59.548 55.000 0.00 0.00 0.00 3.93
218 219 2.107950 TCATGGCGGAACTTTGTAGG 57.892 50.000 0.00 0.00 0.00 3.18
219 220 4.701956 ATTTCATGGCGGAACTTTGTAG 57.298 40.909 0.00 0.00 0.00 2.74
220 221 5.004448 TGTATTTCATGGCGGAACTTTGTA 58.996 37.500 0.00 0.00 0.00 2.41
221 222 3.823873 TGTATTTCATGGCGGAACTTTGT 59.176 39.130 0.00 0.00 0.00 2.83
222 223 4.433186 TGTATTTCATGGCGGAACTTTG 57.567 40.909 0.00 0.00 0.00 2.77
223 224 5.650266 TGTATGTATTTCATGGCGGAACTTT 59.350 36.000 0.00 0.00 37.91 2.66
224 225 5.065988 GTGTATGTATTTCATGGCGGAACTT 59.934 40.000 0.00 0.00 37.91 2.66
225 226 4.574828 GTGTATGTATTTCATGGCGGAACT 59.425 41.667 0.00 0.00 37.91 3.01
226 227 4.334203 TGTGTATGTATTTCATGGCGGAAC 59.666 41.667 0.00 0.00 37.91 3.62
227 228 4.518249 TGTGTATGTATTTCATGGCGGAA 58.482 39.130 0.00 0.00 37.91 4.30
228 229 4.143986 TGTGTATGTATTTCATGGCGGA 57.856 40.909 0.00 0.00 37.91 5.54
229 230 4.275689 ACATGTGTATGTATTTCATGGCGG 59.724 41.667 0.00 0.00 45.45 6.13
230 231 5.207033 CACATGTGTATGTATTTCATGGCG 58.793 41.667 18.03 0.00 45.53 5.69
231 232 4.977963 GCACATGTGTATGTATTTCATGGC 59.022 41.667 26.01 2.88 45.53 4.40
232 233 5.300034 AGGCACATGTGTATGTATTTCATGG 59.700 40.000 26.01 0.00 45.53 3.66
233 234 6.381481 AGGCACATGTGTATGTATTTCATG 57.619 37.500 26.01 0.00 45.53 3.07
234 235 7.408756 AAAGGCACATGTGTATGTATTTCAT 57.591 32.000 26.01 1.80 45.53 2.57
235 236 6.832520 AAAGGCACATGTGTATGTATTTCA 57.167 33.333 26.01 0.00 45.53 2.69
276 277 8.220755 ACATTAAAGTGAGAGCTACACAAAAA 57.779 30.769 20.50 13.10 40.25 1.94
277 278 7.801716 ACATTAAAGTGAGAGCTACACAAAA 57.198 32.000 20.50 13.35 40.25 2.44
336 337 8.477984 AAATACAAATGTTTGGAATGGAATCG 57.522 30.769 9.98 0.00 42.34 3.34
374 440 6.050454 TCATTTGCAAGCAACAAATCTTTG 57.950 33.333 7.03 1.19 43.94 2.77
378 444 5.905181 CAGTTTCATTTGCAAGCAACAAATC 59.095 36.000 7.03 2.40 43.94 2.17
386 452 1.150827 GCCCAGTTTCATTTGCAAGC 58.849 50.000 0.00 0.00 0.00 4.01
388 454 1.035923 TCGCCCAGTTTCATTTGCAA 58.964 45.000 0.00 0.00 0.00 4.08
437 503 0.942252 GTTGTGTTGTCTTCGGGACC 59.058 55.000 6.91 0.00 43.89 4.46
438 504 0.942252 GGTTGTGTTGTCTTCGGGAC 59.058 55.000 3.18 3.18 44.70 4.46
439 505 0.531090 CGGTTGTGTTGTCTTCGGGA 60.531 55.000 0.00 0.00 0.00 5.14
440 506 1.938861 CGGTTGTGTTGTCTTCGGG 59.061 57.895 0.00 0.00 0.00 5.14
441 507 1.278637 GCGGTTGTGTTGTCTTCGG 59.721 57.895 0.00 0.00 0.00 4.30
442 508 0.315869 GTGCGGTTGTGTTGTCTTCG 60.316 55.000 0.00 0.00 0.00 3.79
443 509 0.315869 CGTGCGGTTGTGTTGTCTTC 60.316 55.000 0.00 0.00 0.00 2.87
444 510 0.741574 TCGTGCGGTTGTGTTGTCTT 60.742 50.000 0.00 0.00 0.00 3.01
445 511 1.151777 CTCGTGCGGTTGTGTTGTCT 61.152 55.000 0.00 0.00 0.00 3.41
446 512 1.149361 TCTCGTGCGGTTGTGTTGTC 61.149 55.000 0.00 0.00 0.00 3.18
447 513 1.151777 CTCTCGTGCGGTTGTGTTGT 61.152 55.000 0.00 0.00 0.00 3.32
448 514 0.874175 TCTCTCGTGCGGTTGTGTTG 60.874 55.000 0.00 0.00 0.00 3.33
449 515 0.597637 CTCTCTCGTGCGGTTGTGTT 60.598 55.000 0.00 0.00 0.00 3.32
450 516 1.007271 CTCTCTCGTGCGGTTGTGT 60.007 57.895 0.00 0.00 0.00 3.72
451 517 0.730834 CTCTCTCTCGTGCGGTTGTG 60.731 60.000 0.00 0.00 0.00 3.33
452 518 1.581954 CTCTCTCTCGTGCGGTTGT 59.418 57.895 0.00 0.00 0.00 3.32
453 519 1.153939 CCTCTCTCTCGTGCGGTTG 60.154 63.158 0.00 0.00 0.00 3.77
454 520 0.894184 TTCCTCTCTCTCGTGCGGTT 60.894 55.000 0.00 0.00 0.00 4.44
455 521 1.303398 TTCCTCTCTCTCGTGCGGT 60.303 57.895 0.00 0.00 0.00 5.68
456 522 1.027255 TCTTCCTCTCTCTCGTGCGG 61.027 60.000 0.00 0.00 0.00 5.69
457 523 0.098025 GTCTTCCTCTCTCTCGTGCG 59.902 60.000 0.00 0.00 0.00 5.34
458 524 0.454196 GGTCTTCCTCTCTCTCGTGC 59.546 60.000 0.00 0.00 0.00 5.34
459 525 2.122783 AGGTCTTCCTCTCTCTCGTG 57.877 55.000 0.00 0.00 40.58 4.35
460 526 2.092807 GGTAGGTCTTCCTCTCTCTCGT 60.093 54.545 0.00 0.00 43.94 4.18
461 527 2.567985 GGTAGGTCTTCCTCTCTCTCG 58.432 57.143 0.00 0.00 43.94 4.04
462 528 2.242708 TGGGTAGGTCTTCCTCTCTCTC 59.757 54.545 0.00 0.00 43.94 3.20
463 529 2.024751 GTGGGTAGGTCTTCCTCTCTCT 60.025 54.545 0.00 0.00 43.94 3.10
464 530 2.024751 AGTGGGTAGGTCTTCCTCTCTC 60.025 54.545 0.00 0.00 43.94 3.20
465 531 2.004589 AGTGGGTAGGTCTTCCTCTCT 58.995 52.381 0.00 0.00 43.94 3.10
506 572 2.112190 TGGTGTGGAGTTGTAGTGACA 58.888 47.619 0.00 0.00 0.00 3.58
507 573 2.480845 GTGGTGTGGAGTTGTAGTGAC 58.519 52.381 0.00 0.00 0.00 3.67
570 645 2.680352 GTGGAGAGGAGGCGGTGA 60.680 66.667 0.00 0.00 0.00 4.02
600 675 1.043116 TCCCAGATGGCGATCTCGTT 61.043 55.000 8.44 0.00 36.75 3.85
682 757 4.966787 GGGTGGAGGTGGCGCAAA 62.967 66.667 10.83 0.00 0.00 3.68
704 779 1.299976 GTGGTGGGCGAGGAGAAAT 59.700 57.895 0.00 0.00 0.00 2.17
999 1109 4.789123 GGGCCGTGCGGGTACATT 62.789 66.667 12.82 0.00 38.44 2.71
1126 1236 1.073923 GGGTGACAAGTCCTCCACATT 59.926 52.381 11.57 0.00 0.00 2.71
1154 1264 1.139058 GGCTACCACGGAACATGAGAT 59.861 52.381 0.00 0.00 0.00 2.75
1326 1436 4.102996 TCATCAGTAAGAATGGGCATGCTA 59.897 41.667 18.92 7.69 0.00 3.49
1889 2009 8.424133 GCCCAAAAGGATATTCAATGAAATAGT 58.576 33.333 0.00 0.00 38.24 2.12
1890 2010 8.423349 TGCCCAAAAGGATATTCAATGAAATAG 58.577 33.333 0.00 0.00 38.24 1.73
1990 2149 2.648838 AGGGGAAAAGGATCTCCACTT 58.351 47.619 0.00 0.00 43.25 3.16
1998 2157 6.183361 GGAGACCATATAAAGGGGAAAAGGAT 60.183 42.308 0.00 0.00 0.00 3.24
2021 2190 4.391216 GCTAACTATCGCATACTACGAGGA 59.609 45.833 0.00 0.00 43.74 3.71
2330 4313 0.325203 AAAGGCACAAACACCACCCT 60.325 50.000 0.00 0.00 0.00 4.34
2443 4430 5.779771 ACAGTATTGTGTGGGGATTGAAATT 59.220 36.000 0.00 0.00 35.83 1.82
2517 4510 5.358160 AGCTACTTTTTCCTTATGATGGCAC 59.642 40.000 0.00 0.00 0.00 5.01
2551 4544 5.599732 ACATAGTTTGAGCTGAGAGCATAG 58.400 41.667 0.00 0.00 45.56 2.23
2595 4588 8.436200 GTGAACTATTCTTACAAACTAGCAGTG 58.564 37.037 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.