Multiple sequence alignment - TraesCS1B01G115400

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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 TraesCS1B01G115400 chr1B 100.000 5027 0 0 579 5605 135937341 135932315 0.000000e+00 9284.0
1 TraesCS1B01G115400 chr1B 100.000 262 0 0 1 262 135937919 135937658 8.440000e-133 484.0
2 TraesCS1B01G115400 chr1B 97.000 200 5 1 2048 2246 664059134 664059333 9.000000e-88 335.0
3 TraesCS1B01G115400 chr4A 94.296 2910 87 24 2243 5121 141111856 141108995 0.000000e+00 4381.0
4 TraesCS1B01G115400 chr4A 89.510 1144 40 21 846 1961 141113091 141112000 0.000000e+00 1375.0
5 TraesCS1B01G115400 chr4A 93.623 345 11 6 5219 5558 141108798 141108460 6.480000e-139 505.0
6 TraesCS1B01G115400 chr4A 97.044 203 3 2 2052 2253 31161794 31161994 6.960000e-89 339.0
7 TraesCS1B01G115400 chr4A 97.015 201 3 3 2043 2242 541363788 541363590 9.000000e-88 335.0
8 TraesCS1B01G115400 chr4A 92.063 63 4 1 1 63 671960085 671960146 2.780000e-13 87.9
9 TraesCS1B01G115400 chr4D 97.070 1638 18 6 2243 3873 329015426 329017040 0.000000e+00 2732.0
10 TraesCS1B01G115400 chr4D 97.159 1408 28 4 647 2053 329014048 329015444 0.000000e+00 2368.0
11 TraesCS1B01G115400 chr4D 93.947 1140 38 14 4108 5222 329017039 329018172 0.000000e+00 1694.0
12 TraesCS1B01G115400 chr4D 97.406 347 7 2 5219 5565 329018269 329018613 1.740000e-164 590.0
13 TraesCS1B01G115400 chr4D 98.611 216 3 0 1 216 329013712 329013927 3.170000e-102 383.0
14 TraesCS1B01G115400 chr4D 96.078 51 2 0 5555 5605 329019453 329019503 3.600000e-12 84.2
15 TraesCS1B01G115400 chr2D 96.825 1638 22 6 2243 3873 407206164 407204550 0.000000e+00 2710.0
16 TraesCS1B01G115400 chr2D 97.372 1408 25 4 647 2053 407207542 407206146 0.000000e+00 2385.0
17 TraesCS1B01G115400 chr2D 94.035 1140 39 13 4108 5222 407204551 407203416 0.000000e+00 1701.0
18 TraesCS1B01G115400 chr2D 96.542 347 8 4 5219 5565 407203319 407202977 6.300000e-159 571.0
19 TraesCS1B01G115400 chr2D 98.611 216 3 0 1 216 407208908 407209123 3.170000e-102 383.0
20 TraesCS1B01G115400 chr2D 98.500 200 3 0 17 216 407208105 407207906 2.480000e-93 353.0
21 TraesCS1B01G115400 chr2D 100.000 45 0 0 5561 5605 407202170 407202126 3.600000e-12 84.2
22 TraesCS1B01G115400 chr4B 95.431 1576 49 9 2243 3802 408961830 408963398 0.000000e+00 2490.0
23 TraesCS1B01G115400 chr4B 92.978 1424 77 12 647 2053 408960431 408961848 0.000000e+00 2054.0
24 TraesCS1B01G115400 chr4B 93.937 1072 35 9 4172 5222 408963647 408964709 0.000000e+00 1592.0
25 TraesCS1B01G115400 chr4B 93.503 354 14 4 5219 5565 408964806 408965157 8.320000e-143 518.0
26 TraesCS1B01G115400 chr4B 95.547 247 10 1 3867 4112 408963398 408963644 1.460000e-105 394.0
27 TraesCS1B01G115400 chr4B 93.534 232 13 2 2036 2265 545867999 545868230 1.500000e-90 344.0
28 TraesCS1B01G115400 chr4B 93.789 161 9 1 57 216 408960156 408960316 2.020000e-59 241.0
29 TraesCS1B01G115400 chr4B 96.825 63 2 0 1 63 408960060 408960122 7.680000e-19 106.0
30 TraesCS1B01G115400 chr7B 94.124 936 50 4 1088 2022 412539789 412540720 0.000000e+00 1419.0
31 TraesCS1B01G115400 chr7B 93.910 936 52 3 1088 2022 658771411 658772342 0.000000e+00 1408.0
32 TraesCS1B01G115400 chr7B 93.803 936 53 3 1088 2022 658519445 658520376 0.000000e+00 1402.0
33 TraesCS1B01G115400 chr7B 93.803 936 53 3 1088 2022 658644960 658645891 0.000000e+00 1402.0
34 TraesCS1B01G115400 chr7B 98.469 196 2 1 2050 2245 440006191 440005997 1.500000e-90 344.0
35 TraesCS1B01G115400 chr7B 96.552 203 3 2 2051 2253 246011366 246011564 3.240000e-87 333.0
36 TraesCS1B01G115400 chrUn 93.483 936 55 4 1088 2022 228136413 228135483 0.000000e+00 1386.0
37 TraesCS1B01G115400 chrUn 93.287 864 52 4 1160 2022 404788125 404788983 0.000000e+00 1269.0
38 TraesCS1B01G115400 chr3A 97.970 197 3 1 2048 2244 529616339 529616144 1.930000e-89 340.0
39 TraesCS1B01G115400 chr7A 97.030 202 0 3 2044 2243 82161228 82161425 9.000000e-88 335.0
40 TraesCS1B01G115400 chr1A 95.261 211 4 3 2034 2242 203808795 203809001 4.190000e-86 329.0
41 TraesCS1B01G115400 chr5A 93.651 63 3 1 1 63 549015566 549015505 5.980000e-15 93.5
42 TraesCS1B01G115400 chr2A 93.651 63 3 1 1 63 591660574 591660635 5.980000e-15 93.5
43 TraesCS1B01G115400 chr3B 92.063 63 4 1 1 63 730552862 730552923 2.780000e-13 87.9


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 TraesCS1B01G115400 chr1B 135932315 135937919 5604 True 4884.000000 9284 100.000000 1 5605 2 chr1B.!!$R1 5604
1 TraesCS1B01G115400 chr4A 141108460 141113091 4631 True 2087.000000 4381 92.476333 846 5558 3 chr4A.!!$R2 4712
2 TraesCS1B01G115400 chr4D 329013712 329019503 5791 False 1308.533333 2732 96.711833 1 5605 6 chr4D.!!$F1 5604
3 TraesCS1B01G115400 chr2D 407202126 407208105 5979 True 1300.700000 2710 97.212333 17 5605 6 chr2D.!!$R1 5588
4 TraesCS1B01G115400 chr4B 408960060 408965157 5097 False 1056.428571 2490 94.572857 1 5565 7 chr4B.!!$F2 5564
5 TraesCS1B01G115400 chr7B 412539789 412540720 931 False 1419.000000 1419 94.124000 1088 2022 1 chr7B.!!$F2 934
6 TraesCS1B01G115400 chr7B 658771411 658772342 931 False 1408.000000 1408 93.910000 1088 2022 1 chr7B.!!$F5 934
7 TraesCS1B01G115400 chr7B 658519445 658520376 931 False 1402.000000 1402 93.803000 1088 2022 1 chr7B.!!$F3 934
8 TraesCS1B01G115400 chr7B 658644960 658645891 931 False 1402.000000 1402 93.803000 1088 2022 1 chr7B.!!$F4 934
9 TraesCS1B01G115400 chrUn 228135483 228136413 930 True 1386.000000 1386 93.483000 1088 2022 1 chrUn.!!$R1 934
10 TraesCS1B01G115400 chrUn 404788125 404788983 858 False 1269.000000 1269 93.287000 1160 2022 1 chrUn.!!$F1 862

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
731 1062 0.179234 TCCACCTTGCAACTTGACGA 59.821 50.0 0.0 0.0 0.00 4.20 F
2153 2607 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.0 0.0 0.0 0.00 2.74 F
2210 2664 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.0 0.0 0.0 44.78 4.85 F
2223 2677 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.0 0.0 0.0 38.40 4.00 F
4338 4819 0.459237 GTGTCTCAGTGATGCCTCCG 60.459 60.0 0.0 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2204 2658 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35 R
4106 4587 2.124151 CATACCCTGCCACAGCCC 60.124 66.667 0.00 0.00 38.69 5.19 R
4338 4819 7.694388 TGTAACGATTACTGATAAGCATGTC 57.306 36.000 0.00 0.00 37.06 3.06 R
4420 4901 7.715249 GTGGCATTATCTGGAGATACAGTAAAA 59.285 37.037 0.00 0.00 39.48 1.52 R
5142 5661 1.501582 ACTAGGACTCCCTTGCATCC 58.498 55.000 0.00 0.00 40.78 3.51 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
209 251 4.899239 GCGGAGGATGGGCGTCAG 62.899 72.222 0.00 0.00 33.11 3.51
210 252 3.147595 CGGAGGATGGGCGTCAGA 61.148 66.667 0.00 0.00 33.11 3.27
211 253 2.502492 CGGAGGATGGGCGTCAGAT 61.502 63.158 0.00 0.00 33.11 2.90
212 254 1.369321 GGAGGATGGGCGTCAGATC 59.631 63.158 0.00 0.00 33.11 2.75
213 255 1.006805 GAGGATGGGCGTCAGATCG 60.007 63.158 0.00 0.00 0.00 3.69
214 256 2.029666 GGATGGGCGTCAGATCGG 59.970 66.667 0.00 0.00 0.00 4.18
215 257 2.498941 GGATGGGCGTCAGATCGGA 61.499 63.158 0.00 0.00 0.00 4.55
216 258 1.300233 GATGGGCGTCAGATCGGAC 60.300 63.158 15.18 15.18 34.42 4.79
223 265 3.822192 TCAGATCGGACGTGGCGG 61.822 66.667 0.00 0.00 0.00 6.13
240 282 4.475135 GCAGGTCGGAGGAAGGGC 62.475 72.222 0.00 0.00 0.00 5.19
725 1056 1.779061 ATCCCGTCCACCTTGCAACT 61.779 55.000 0.00 0.00 0.00 3.16
731 1062 0.179234 TCCACCTTGCAACTTGACGA 59.821 50.000 0.00 0.00 0.00 4.20
805 1138 4.452455 GCTGCTGAATTGTAAGTACAGTGT 59.548 41.667 0.00 0.00 37.52 3.55
806 1139 5.637810 GCTGCTGAATTGTAAGTACAGTGTA 59.362 40.000 0.00 0.00 37.52 2.90
988 1349 1.767681 GCCTCATCCATCTCTTCCACT 59.232 52.381 0.00 0.00 0.00 4.00
1152 1527 4.141981 GGCTATGATGATGATGACGAGGAT 60.142 45.833 0.00 0.00 0.00 3.24
1258 1633 2.765807 CTGGAGGCATCCCGGTCT 60.766 66.667 16.13 0.00 46.04 3.85
1554 1931 5.840693 TGGATCTCTGTAGATTTATGCTCCA 59.159 40.000 0.00 0.00 42.73 3.86
1656 2033 0.531974 ACGAACAGTGGACACGCAAT 60.532 50.000 0.00 0.00 36.20 3.56
1690 2067 2.028930 CGTAGAAGGTGAAGCAAGTCCT 60.029 50.000 0.00 0.00 0.00 3.85
2082 2536 4.413928 GGCAACCTGGTGCATGTA 57.586 55.556 18.44 0.00 46.81 2.29
2083 2537 2.183409 GGCAACCTGGTGCATGTAG 58.817 57.895 18.44 0.00 46.81 2.74
2084 2538 1.508088 GCAACCTGGTGCATGTAGC 59.492 57.895 6.00 6.00 44.29 3.58
2085 2539 0.962356 GCAACCTGGTGCATGTAGCT 60.962 55.000 14.15 0.00 44.29 3.32
2086 2540 1.089920 CAACCTGGTGCATGTAGCTC 58.910 55.000 14.15 0.00 45.94 4.09
2092 2546 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
2093 2547 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
2094 2548 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
2095 2549 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
2098 2552 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
2110 2564 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
2111 2565 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
2112 2566 3.732849 GCAGGGTCCAGGGAAGGG 61.733 72.222 0.00 0.00 0.00 3.95
2113 2567 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
2114 2568 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
2115 2569 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
2116 2570 3.400054 GGTCCAGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
2117 2571 2.284405 GTCCAGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
2118 2572 2.284405 TCCAGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
2119 2573 3.400054 CCAGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
2120 2574 2.606519 CAGGGAAGGGTCCGACCA 60.607 66.667 19.43 0.00 46.04 4.02
2121 2575 2.606826 AGGGAAGGGTCCGACCAC 60.607 66.667 19.43 8.70 46.04 4.16
2122 2576 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
2123 2577 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
2124 2578 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
2125 2579 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
2126 2580 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
2127 2581 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
2128 2582 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
2138 2592 4.996788 ACCACTTTGGGTCTATAGTACG 57.003 45.455 0.00 0.00 43.37 3.67
2139 2593 3.131755 ACCACTTTGGGTCTATAGTACGC 59.868 47.826 0.00 6.13 43.37 4.42
2140 2594 3.131577 CCACTTTGGGTCTATAGTACGCA 59.868 47.826 13.98 13.98 37.94 5.24
2141 2595 4.360563 CACTTTGGGTCTATAGTACGCAG 58.639 47.826 16.00 11.29 40.36 5.18
2142 2596 3.181478 ACTTTGGGTCTATAGTACGCAGC 60.181 47.826 16.00 2.07 40.36 5.25
2143 2597 1.325355 TGGGTCTATAGTACGCAGCC 58.675 55.000 13.98 8.23 35.18 4.85
2144 2598 1.133575 TGGGTCTATAGTACGCAGCCT 60.134 52.381 13.98 0.00 35.18 4.58
2145 2599 1.962100 GGGTCTATAGTACGCAGCCTT 59.038 52.381 0.00 0.00 0.00 4.35
2146 2600 2.364647 GGGTCTATAGTACGCAGCCTTT 59.635 50.000 0.00 0.00 0.00 3.11
2147 2601 3.552478 GGGTCTATAGTACGCAGCCTTTC 60.552 52.174 0.00 0.00 0.00 2.62
2148 2602 3.552478 GGTCTATAGTACGCAGCCTTTCC 60.552 52.174 0.00 0.00 0.00 3.13
2149 2603 2.626743 TCTATAGTACGCAGCCTTTCCC 59.373 50.000 0.00 0.00 0.00 3.97
2150 2604 1.497161 ATAGTACGCAGCCTTTCCCT 58.503 50.000 0.00 0.00 0.00 4.20
2151 2605 2.148446 TAGTACGCAGCCTTTCCCTA 57.852 50.000 0.00 0.00 0.00 3.53
2152 2606 0.535797 AGTACGCAGCCTTTCCCTAC 59.464 55.000 0.00 0.00 0.00 3.18
2153 2607 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
2154 2608 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
2155 2609 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
2156 2610 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
2157 2611 1.401905 CGCAGCCTTTCCCTACATTTC 59.598 52.381 0.00 0.00 0.00 2.17
2158 2612 2.728007 GCAGCCTTTCCCTACATTTCT 58.272 47.619 0.00 0.00 0.00 2.52
2159 2613 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
2160 2614 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
2161 2615 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
2162 2616 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
2163 2617 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
2164 2618 5.250774 AGCCTTTCCCTACATTTCTGTAAGA 59.749 40.000 0.00 0.00 44.68 2.10
2176 2630 3.685139 TCTGTAAGAGGCTGTTTCCAG 57.315 47.619 0.90 9.48 38.67 3.86
2177 2631 2.303022 TCTGTAAGAGGCTGTTTCCAGG 59.697 50.000 17.71 5.83 38.67 4.45
2178 2632 2.303022 CTGTAAGAGGCTGTTTCCAGGA 59.697 50.000 0.90 0.00 35.89 3.86
2179 2633 2.038557 TGTAAGAGGCTGTTTCCAGGAC 59.961 50.000 0.90 0.00 39.22 3.85
2180 2634 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
2181 2635 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
2182 2636 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
2183 2637 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
2184 2638 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
2185 2639 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
2186 2640 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
2187 2641 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
2188 2642 1.566703 TGTTTCCAGGACTTGAACCCA 59.433 47.619 0.00 0.00 0.00 4.51
2189 2643 2.176798 TGTTTCCAGGACTTGAACCCAT 59.823 45.455 0.00 0.00 0.00 4.00
2190 2644 2.558359 GTTTCCAGGACTTGAACCCATG 59.442 50.000 0.00 0.00 0.00 3.66
2191 2645 1.741028 TCCAGGACTTGAACCCATGA 58.259 50.000 0.00 0.00 0.00 3.07
2192 2646 1.351017 TCCAGGACTTGAACCCATGAC 59.649 52.381 0.00 0.00 0.00 3.06
2193 2647 1.614317 CCAGGACTTGAACCCATGACC 60.614 57.143 0.00 0.00 34.29 4.02
2194 2648 1.352352 CAGGACTTGAACCCATGACCT 59.648 52.381 0.00 0.00 40.96 3.85
2195 2649 1.630878 AGGACTTGAACCCATGACCTC 59.369 52.381 0.00 0.00 37.82 3.85
2196 2650 1.351017 GGACTTGAACCCATGACCTCA 59.649 52.381 0.00 0.00 32.45 3.86
2197 2651 2.025887 GGACTTGAACCCATGACCTCAT 60.026 50.000 0.00 0.00 36.96 2.90
2209 2663 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
2210 2664 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
2211 2665 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
2212 2666 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
2213 2667 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
2214 2668 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
2215 2669 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
2216 2670 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
2217 2671 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
2218 2672 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
2219 2673 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
2220 2674 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
2221 2675 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
2222 2676 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
2223 2677 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
2224 2678 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
2228 2682 2.870372 CAGCTTTACCACTGCGCC 59.130 61.111 4.18 0.00 0.00 6.53
2229 2683 1.965930 CAGCTTTACCACTGCGCCA 60.966 57.895 4.18 0.00 0.00 5.69
2230 2684 1.228124 AGCTTTACCACTGCGCCAA 60.228 52.632 4.18 0.00 0.00 4.52
2231 2685 1.210155 GCTTTACCACTGCGCCAAG 59.790 57.895 4.18 0.00 0.00 3.61
2232 2686 1.875963 CTTTACCACTGCGCCAAGG 59.124 57.895 4.18 6.21 0.00 3.61
2233 2687 2.200170 CTTTACCACTGCGCCAAGGC 62.200 60.000 4.18 0.00 37.85 4.35
2234 2688 2.690653 TTTACCACTGCGCCAAGGCT 62.691 55.000 4.18 0.00 39.32 4.58
2235 2689 3.605749 TACCACTGCGCCAAGGCTC 62.606 63.158 4.18 1.20 39.32 4.70
2347 2806 1.586422 CTGGTTGCTCCACATATCGG 58.414 55.000 0.00 0.00 41.93 4.18
2568 3040 6.434028 TGTTAATAGATGGCCATATTCCAAGC 59.566 38.462 20.84 3.08 37.13 4.01
2749 3221 3.382278 AGAGATCTCTTGGGCATCTCAA 58.618 45.455 19.92 0.00 43.47 3.02
2841 3313 4.285775 TGGACACACTCATGATCCTTTGTA 59.714 41.667 12.41 0.00 36.29 2.41
2850 3322 3.981071 TGATCCTTTGTACACCTCCAG 57.019 47.619 0.00 0.00 0.00 3.86
2931 3406 3.054655 GCAACCAGGTCCTACTTTGGATA 60.055 47.826 0.00 0.00 38.52 2.59
3347 3822 2.869101 TGCCAACATAGCAACCACTA 57.131 45.000 0.00 0.00 37.28 2.74
3486 3961 2.996621 CTCTCCTTGTTCGGTGATGTTC 59.003 50.000 0.00 0.00 0.00 3.18
3876 4356 4.881850 CCCCTTGTAGCAGTAATAGGTTTG 59.118 45.833 0.00 0.00 0.00 2.93
4068 4549 7.437565 ACATGATTCAGAAGTTATCGATCACTG 59.562 37.037 12.82 10.76 33.05 3.66
4073 4554 2.604046 AGTTATCGATCACTGGCACC 57.396 50.000 11.39 0.00 0.00 5.01
4075 4556 1.933853 GTTATCGATCACTGGCACCAC 59.066 52.381 0.00 0.00 0.00 4.16
4106 4587 3.944055 ATCAGTTATGCTACTAGGCCG 57.056 47.619 0.00 0.00 0.00 6.13
4271 4752 1.747355 CCCATGAGAGCAATGTCCAAC 59.253 52.381 0.00 0.00 0.00 3.77
4338 4819 0.459237 GTGTCTCAGTGATGCCTCCG 60.459 60.000 0.00 0.00 0.00 4.63
4420 4901 6.707290 TGTGCTTACATATCCTTACACTGTT 58.293 36.000 0.00 0.00 0.00 3.16
4804 5289 9.546428 TCCACTGTCAAATGTGTATTATGATAG 57.454 33.333 0.00 0.00 33.78 2.08
4808 5293 8.607441 TGTCAAATGTGTATTATGATAGGAGC 57.393 34.615 0.00 0.00 0.00 4.70
4810 5295 8.499162 GTCAAATGTGTATTATGATAGGAGCAC 58.501 37.037 0.00 0.00 0.00 4.40
4811 5296 7.384932 TCAAATGTGTATTATGATAGGAGCACG 59.615 37.037 0.00 0.00 0.00 5.34
4899 5402 1.832883 TGCTTGAACAAGTGTGGTGT 58.167 45.000 14.62 0.00 40.45 4.16
4984 5487 7.716560 TCTGAAGCTATGCTAATTGCTAATCAA 59.283 33.333 0.00 0.00 42.95 2.57
5004 5507 4.443725 TCAACATTTTGTTTGCTGTATGCG 59.556 37.500 0.00 0.00 40.97 4.73
5052 5561 7.234661 TGTTCCTTTGGAAAACAAGTTAGTT 57.765 32.000 0.12 0.00 43.86 2.24
5268 5894 2.047061 TGGTCCCAATTAGCTCGCTAT 58.953 47.619 0.00 0.00 0.00 2.97
5420 6048 1.341187 TGGACACCTTGGACGGTTTTT 60.341 47.619 0.00 0.00 34.29 1.94
5472 6100 4.398358 TCTCGTTGGTCTGTTATTCGAGAT 59.602 41.667 9.68 0.00 44.15 2.75
5533 6166 0.908198 GAGAGTCTCCACATTGCCCT 59.092 55.000 9.15 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
205 247 2.579787 CGCCACGTCCGATCTGAC 60.580 66.667 7.18 7.18 0.00 3.51
206 248 3.822192 CCGCCACGTCCGATCTGA 61.822 66.667 6.70 0.00 0.00 3.27
223 265 4.475135 GCCCTTCCTCCGACCTGC 62.475 72.222 0.00 0.00 0.00 4.85
240 282 1.107538 TACTCTCTTCCGATGGGGCG 61.108 60.000 0.00 0.00 34.94 6.13
625 667 2.627699 GTCACCCCATGCTTCTCAAAAA 59.372 45.455 0.00 0.00 0.00 1.94
626 668 2.238521 GTCACCCCATGCTTCTCAAAA 58.761 47.619 0.00 0.00 0.00 2.44
627 669 1.881925 CGTCACCCCATGCTTCTCAAA 60.882 52.381 0.00 0.00 0.00 2.69
725 1056 4.673580 GCCGTGAAGAATACTACTCGTCAA 60.674 45.833 0.00 0.00 33.92 3.18
731 1062 1.202382 GCCGCCGTGAAGAATACTACT 60.202 52.381 0.00 0.00 0.00 2.57
805 1138 4.082190 GGCATATACACTCGCCTCTTCATA 60.082 45.833 0.00 0.00 41.50 2.15
806 1139 3.306364 GGCATATACACTCGCCTCTTCAT 60.306 47.826 0.00 0.00 41.50 2.57
988 1349 0.462581 GGCTCCATCGATCAACTGCA 60.463 55.000 0.00 0.00 0.00 4.41
1014 1377 1.335597 CGAAGACCACGTAGCTTGTCA 60.336 52.381 0.00 0.00 0.00 3.58
1135 1498 5.131594 TCTTCATCCTCGTCATCATCATC 57.868 43.478 0.00 0.00 0.00 2.92
1136 1499 5.245526 TCATCTTCATCCTCGTCATCATCAT 59.754 40.000 0.00 0.00 0.00 2.45
1137 1500 4.586001 TCATCTTCATCCTCGTCATCATCA 59.414 41.667 0.00 0.00 0.00 3.07
1138 1501 5.131594 TCATCTTCATCCTCGTCATCATC 57.868 43.478 0.00 0.00 0.00 2.92
1139 1502 5.303845 TCTTCATCTTCATCCTCGTCATCAT 59.696 40.000 0.00 0.00 0.00 2.45
1140 1503 4.646492 TCTTCATCTTCATCCTCGTCATCA 59.354 41.667 0.00 0.00 0.00 3.07
1152 1527 5.219343 TGACTTCTGCTTCTTCATCTTCA 57.781 39.130 0.00 0.00 0.00 3.02
1511 1888 8.130671 AGATCCAAACACAATTTGAGATGAAT 57.869 30.769 2.79 0.00 0.00 2.57
1554 1931 3.349927 TGCTGCTGTATTGCTCTCAATT 58.650 40.909 0.00 0.00 42.51 2.32
1567 1944 3.058160 GCGGTGGAATGCTGCTGT 61.058 61.111 0.00 0.00 35.49 4.40
1690 2067 2.787473 AAGCCAACACAGCAGCTATA 57.213 45.000 0.00 0.00 34.49 1.31
2062 2516 4.702274 ATGCACCAGGTTGCCCCC 62.702 66.667 10.46 0.00 42.25 5.40
2063 2517 2.779742 TACATGCACCAGGTTGCCCC 62.780 60.000 10.46 0.00 42.25 5.80
2064 2518 1.304052 TACATGCACCAGGTTGCCC 60.304 57.895 10.46 0.00 42.25 5.36
2065 2519 1.937546 GCTACATGCACCAGGTTGCC 61.938 60.000 10.46 0.00 39.88 4.52
2066 2520 0.962356 AGCTACATGCACCAGGTTGC 60.962 55.000 8.03 8.03 44.17 4.17
2067 2521 1.089920 GAGCTACATGCACCAGGTTG 58.910 55.000 0.00 0.00 45.94 3.77
2068 2522 3.558674 GAGCTACATGCACCAGGTT 57.441 52.632 0.00 0.00 45.94 3.50
2093 2547 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
2094 2548 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
2095 2549 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
2096 2550 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
2097 2551 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
2098 2552 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
2099 2553 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
2100 2554 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
2101 2555 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
2102 2556 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
2103 2557 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
2104 2558 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
2105 2559 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
2106 2560 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
2107 2561 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
2108 2562 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
2109 2563 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
2110 2564 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
2111 2565 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
2112 2566 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
2117 2571 3.131755 GCGTACTATAGACCCAAAGTGGT 59.868 47.826 6.78 0.00 42.79 4.16
2118 2572 3.131577 TGCGTACTATAGACCCAAAGTGG 59.868 47.826 6.78 0.00 37.25 4.00
2119 2573 4.360563 CTGCGTACTATAGACCCAAAGTG 58.639 47.826 6.78 0.00 0.00 3.16
2120 2574 3.181478 GCTGCGTACTATAGACCCAAAGT 60.181 47.826 6.78 0.00 0.00 2.66
2121 2575 3.381949 GCTGCGTACTATAGACCCAAAG 58.618 50.000 6.78 0.00 0.00 2.77
2122 2576 2.101917 GGCTGCGTACTATAGACCCAAA 59.898 50.000 6.78 0.00 0.00 3.28
2123 2577 1.684983 GGCTGCGTACTATAGACCCAA 59.315 52.381 6.78 0.00 0.00 4.12
2124 2578 1.133575 AGGCTGCGTACTATAGACCCA 60.134 52.381 6.78 0.00 0.00 4.51
2125 2579 1.618487 AGGCTGCGTACTATAGACCC 58.382 55.000 6.78 0.00 0.00 4.46
2126 2580 3.552478 GGAAAGGCTGCGTACTATAGACC 60.552 52.174 6.78 0.00 0.00 3.85
2127 2581 3.552478 GGGAAAGGCTGCGTACTATAGAC 60.552 52.174 6.78 0.00 0.00 2.59
2128 2582 2.626743 GGGAAAGGCTGCGTACTATAGA 59.373 50.000 6.78 0.00 0.00 1.98
2129 2583 2.628657 AGGGAAAGGCTGCGTACTATAG 59.371 50.000 0.00 0.00 0.00 1.31
2130 2584 2.674420 AGGGAAAGGCTGCGTACTATA 58.326 47.619 0.00 0.00 0.00 1.31
2131 2585 1.497161 AGGGAAAGGCTGCGTACTAT 58.503 50.000 0.00 0.00 0.00 2.12
2132 2586 1.753073 GTAGGGAAAGGCTGCGTACTA 59.247 52.381 0.00 0.00 34.81 1.82
2133 2587 0.535797 GTAGGGAAAGGCTGCGTACT 59.464 55.000 0.00 0.00 34.81 2.73
2134 2588 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
2135 2589 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
2136 2590 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
2137 2591 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
2138 2592 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
2139 2593 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
2140 2594 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
2141 2595 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
2142 2596 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
2143 2597 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
2144 2598 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
2145 2599 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
2146 2600 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
2147 2601 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
2148 2602 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
2149 2603 6.092807 GGAAACAGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 0.00 2.74
2150 2604 5.938125 GGAAACAGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 0.00 2.29
2151 2605 4.762251 GGAAACAGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 0.00 2.71
2152 2606 4.761739 TGGAAACAGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 35.01 2.32
2153 2607 4.985538 TGGAAACAGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 35.01 2.17
2154 2608 4.431416 TGGAAACAGCCTCTTACAGAAA 57.569 40.909 0.00 0.00 35.01 2.52
2168 2622 1.566703 TGGGTTCAAGTCCTGGAAACA 59.433 47.619 0.00 0.00 32.36 2.83
2169 2623 2.358322 TGGGTTCAAGTCCTGGAAAC 57.642 50.000 0.00 0.00 0.00 2.78
2170 2624 2.445145 TCATGGGTTCAAGTCCTGGAAA 59.555 45.455 0.00 0.00 0.00 3.13
2171 2625 2.061848 TCATGGGTTCAAGTCCTGGAA 58.938 47.619 0.00 0.00 0.00 3.53
2172 2626 1.351017 GTCATGGGTTCAAGTCCTGGA 59.649 52.381 0.00 0.00 0.00 3.86
2173 2627 1.614317 GGTCATGGGTTCAAGTCCTGG 60.614 57.143 0.00 0.00 0.00 4.45
2174 2628 1.352352 AGGTCATGGGTTCAAGTCCTG 59.648 52.381 0.00 0.00 0.00 3.86
2175 2629 1.630878 GAGGTCATGGGTTCAAGTCCT 59.369 52.381 0.00 0.00 0.00 3.85
2176 2630 1.351017 TGAGGTCATGGGTTCAAGTCC 59.649 52.381 0.00 0.00 0.00 3.85
2177 2631 2.859165 TGAGGTCATGGGTTCAAGTC 57.141 50.000 0.00 0.00 0.00 3.01
2192 2646 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
2193 2647 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
2194 2648 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
2195 2649 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
2196 2650 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
2197 2651 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
2198 2652 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
2199 2653 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
2200 2654 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
2201 2655 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
2202 2656 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
2203 2657 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
2204 2658 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
2205 2659 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
2206 2660 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
2211 2665 1.514678 TTGGCGCAGTGGTAAAGCTG 61.515 55.000 10.83 0.00 35.93 4.24
2212 2666 1.228124 TTGGCGCAGTGGTAAAGCT 60.228 52.632 10.83 0.00 0.00 3.74
2213 2667 1.210155 CTTGGCGCAGTGGTAAAGC 59.790 57.895 10.83 0.00 0.00 3.51
2214 2668 1.875963 CCTTGGCGCAGTGGTAAAG 59.124 57.895 10.83 0.71 0.00 1.85
2215 2669 2.265182 GCCTTGGCGCAGTGGTAAA 61.265 57.895 10.83 0.00 0.00 2.01
2216 2670 2.671619 GCCTTGGCGCAGTGGTAA 60.672 61.111 10.83 0.00 0.00 2.85
2217 2671 3.605749 GAGCCTTGGCGCAGTGGTA 62.606 63.158 10.83 0.00 0.00 3.25
2225 2679 1.910580 TTAGAAGGGGAGCCTTGGCG 61.911 60.000 5.95 0.00 0.00 5.69
2226 2680 0.331616 TTTAGAAGGGGAGCCTTGGC 59.668 55.000 2.97 2.97 0.00 4.52
2227 2681 4.141158 ACATATTTAGAAGGGGAGCCTTGG 60.141 45.833 0.00 0.00 0.00 3.61
2228 2682 5.053978 ACATATTTAGAAGGGGAGCCTTG 57.946 43.478 0.00 0.00 0.00 3.61
2229 2683 5.433381 AGAACATATTTAGAAGGGGAGCCTT 59.567 40.000 0.00 0.00 0.00 4.35
2230 2684 4.978388 AGAACATATTTAGAAGGGGAGCCT 59.022 41.667 0.00 0.00 0.00 4.58
2231 2685 5.311844 AGAACATATTTAGAAGGGGAGCC 57.688 43.478 0.00 0.00 0.00 4.70
2232 2686 6.357367 TGAAGAACATATTTAGAAGGGGAGC 58.643 40.000 0.00 0.00 0.00 4.70
2233 2687 8.986929 AATGAAGAACATATTTAGAAGGGGAG 57.013 34.615 0.00 0.00 38.38 4.30
2248 2702 8.218441 CGAATTCGTAAGTGTAAATGAAGAACA 58.782 33.333 19.67 0.00 39.48 3.18
2347 2806 4.333926 CCTAAGACATTAGAAGCAAGGTGC 59.666 45.833 0.00 0.00 41.37 5.01
2510 2974 1.404391 CTGACAGAAGATGGCCATTGC 59.596 52.381 21.84 12.28 35.23 3.56
2749 3221 6.837048 ACAAAGGGGTAGATTTAACACAAACT 59.163 34.615 0.00 0.00 0.00 2.66
2841 3313 7.822822 GTCAATACTTTATTGTACTGGAGGTGT 59.177 37.037 5.95 0.00 44.49 4.16
2850 3322 7.335924 TCCAAGCCAGTCAATACTTTATTGTAC 59.664 37.037 5.95 0.00 44.49 2.90
3486 3961 5.922544 CCTGAACAGGCAAAAGTAAATTGAG 59.077 40.000 7.95 0.00 42.44 3.02
3944 4424 3.939740 AGAGAGCAGATGGGCATTAAA 57.060 42.857 0.00 0.00 35.83 1.52
4041 4522 7.984050 AGTGATCGATAACTTCTGAATCATGTT 59.016 33.333 9.84 0.00 0.00 2.71
4106 4587 2.124151 CATACCCTGCCACAGCCC 60.124 66.667 0.00 0.00 38.69 5.19
4338 4819 7.694388 TGTAACGATTACTGATAAGCATGTC 57.306 36.000 0.00 0.00 37.06 3.06
4420 4901 7.715249 GTGGCATTATCTGGAGATACAGTAAAA 59.285 37.037 0.00 0.00 39.48 1.52
4507 4988 7.008440 CATGATCCTTTACATGTGTACACAG 57.992 40.000 30.65 23.67 45.48 3.66
4563 5044 5.836898 ACGTAGGATATAACTGAACCCATGA 59.163 40.000 0.00 0.00 0.00 3.07
4804 5289 2.663826 AATCTCTCAGAACGTGCTCC 57.336 50.000 0.00 0.00 0.00 4.70
4844 5347 3.017442 GGGCATAGGAAAGTTCTCAACC 58.983 50.000 0.00 0.00 0.00 3.77
4846 5349 4.591321 ATGGGCATAGGAAAGTTCTCAA 57.409 40.909 0.00 0.00 0.00 3.02
4984 5487 2.730928 GCGCATACAGCAAACAAAATGT 59.269 40.909 0.30 0.00 46.13 2.71
5142 5661 1.501582 ACTAGGACTCCCTTGCATCC 58.498 55.000 0.00 0.00 40.78 3.51
5268 5894 6.465321 GGCTAAATAGTAGACCAAGCCCAATA 60.465 42.308 0.00 0.00 41.73 1.90
5307 5933 7.811236 CACAACTATTTCACATCAAATGCTCTT 59.189 33.333 0.00 0.00 0.00 2.85
5420 6048 4.081309 CAGAACCCTAACGAGTAATCCCAA 60.081 45.833 0.00 0.00 0.00 4.12
5421 6049 3.449737 CAGAACCCTAACGAGTAATCCCA 59.550 47.826 0.00 0.00 0.00 4.37
5472 6100 3.049206 CCGAAAGCGAAAATGCAAGAAA 58.951 40.909 0.00 0.00 40.82 2.52
5539 6172 5.397142 AGCCATCAAAATTTCAACTCCTC 57.603 39.130 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.