Multiple sequence alignment - TraesCS5B01G368300

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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 TraesCS5B01G368300 chr5B 100.000 3802 0 0 1 3802 546706877 546703076 0.000000e+00 7022.0
1 TraesCS5B01G368300 chr5B 84.615 91 10 4 242 330 256004392 256004304 1.880000e-13 87.9
2 TraesCS5B01G368300 chr5A 91.763 2173 138 16 902 3061 565684417 565682273 0.000000e+00 2983.0
3 TraesCS5B01G368300 chr5A 92.439 701 34 12 210 904 565685477 565684790 0.000000e+00 983.0
4 TraesCS5B01G368300 chr5A 88.793 232 14 4 1 226 565685816 565685591 1.350000e-69 274.0
5 TraesCS5B01G368300 chr5A 94.118 68 4 0 837 904 690786194 690786127 1.870000e-18 104.0
6 TraesCS5B01G368300 chr5D 95.542 987 29 8 904 1887 447778447 447777473 0.000000e+00 1565.0
7 TraesCS5B01G368300 chr5D 91.916 1101 78 9 1961 3060 447777416 447776326 0.000000e+00 1530.0
8 TraesCS5B01G368300 chr5D 89.060 649 61 8 3161 3802 447772923 447772278 0.000000e+00 797.0
9 TraesCS5B01G368300 chr5D 83.815 346 44 8 257 594 447819752 447819411 6.130000e-83 318.0
10 TraesCS5B01G368300 chr5D 83.230 161 21 5 1 158 310661539 310661382 3.960000e-30 143.0
11 TraesCS5B01G368300 chr5D 85.185 108 8 8 3700 3802 539846364 539846468 1.870000e-18 104.0
12 TraesCS5B01G368300 chr5D 97.436 39 1 0 3072 3110 447776289 447776251 2.450000e-07 67.6
13 TraesCS5B01G368300 chr7A 86.364 154 15 6 6 154 206705351 206705503 3.040000e-36 163.0
14 TraesCS5B01G368300 chr7A 84.146 164 18 3 1 158 650438903 650438742 6.580000e-33 152.0
15 TraesCS5B01G368300 chr7A 95.522 67 3 0 837 903 677870715 677870781 1.440000e-19 108.0
16 TraesCS5B01G368300 chr7A 94.118 68 4 0 837 904 659590349 659590282 1.870000e-18 104.0
17 TraesCS5B01G368300 chr7A 100.000 28 0 0 243 270 680956089 680956116 7.000000e-03 52.8
18 TraesCS5B01G368300 chr4A 85.000 160 20 4 1 158 651368288 651368445 3.930000e-35 159.0
19 TraesCS5B01G368300 chr4A 84.472 161 14 8 1 155 574350340 574350495 8.510000e-32 148.0
20 TraesCS5B01G368300 chr4A 90.385 104 8 2 146 248 241152929 241153031 6.620000e-28 135.0
21 TraesCS5B01G368300 chr4A 97.674 43 1 0 862 904 651344189 651344231 1.460000e-09 75.0
22 TraesCS5B01G368300 chr3A 84.472 161 20 4 1 158 77890797 77890955 1.830000e-33 154.0
23 TraesCS5B01G368300 chr3A 95.588 68 3 0 837 904 623194842 623194775 4.020000e-20 110.0
24 TraesCS5B01G368300 chr3A 94.030 67 4 0 837 903 724869736 724869670 6.720000e-18 102.0
25 TraesCS5B01G368300 chr3A 84.466 103 9 3 3700 3802 441842802 441842897 1.120000e-15 95.3
26 TraesCS5B01G368300 chr1D 84.568 162 16 6 5 160 89234456 89234614 6.580000e-33 152.0
27 TraesCS5B01G368300 chr1D 88.889 54 4 2 242 294 282130442 282130494 8.820000e-07 65.8
28 TraesCS5B01G368300 chr1A 84.615 156 17 4 9 158 85336645 85336799 8.510000e-32 148.0
29 TraesCS5B01G368300 chr7D 90.826 109 8 2 154 261 519264543 519264650 1.100000e-30 145.0
30 TraesCS5B01G368300 chr7D 92.708 96 6 1 153 247 22964253 22964348 1.840000e-28 137.0
31 TraesCS5B01G368300 chr7D 93.407 91 6 0 157 247 141292088 141292178 6.620000e-28 135.0
32 TraesCS5B01G368300 chr7D 85.714 98 11 3 3706 3802 591248278 591248183 2.420000e-17 100.0
33 TraesCS5B01G368300 chr7D 92.537 67 5 0 837 903 264985082 264985016 3.130000e-16 97.1
34 TraesCS5B01G368300 chr4D 84.615 156 13 8 1 150 29182650 29182500 1.100000e-30 145.0
35 TraesCS5B01G368300 chr4D 92.553 94 7 0 157 250 225215609 225215516 6.620000e-28 135.0
36 TraesCS5B01G368300 chr6B 93.548 93 6 0 157 249 8403550 8403642 5.120000e-29 139.0
37 TraesCS5B01G368300 chr6B 95.455 66 3 0 838 903 56071325 56071390 5.190000e-19 106.0
38 TraesCS5B01G368300 chr6B 81.176 85 10 6 240 322 686812439 686812519 3.170000e-06 63.9
39 TraesCS5B01G368300 chr3D 90.000 110 8 3 156 265 570848667 570848773 5.120000e-29 139.0
40 TraesCS5B01G368300 chr2B 92.708 96 6 1 153 247 95449804 95449709 1.840000e-28 137.0
41 TraesCS5B01G368300 chr3B 91.837 98 6 2 146 242 324235529 324235433 6.620000e-28 135.0
42 TraesCS5B01G368300 chr3B 95.522 67 3 0 837 903 690108610 690108676 1.440000e-19 108.0
43 TraesCS5B01G368300 chr3B 82.857 105 15 3 3700 3802 783103743 783103640 1.450000e-14 91.6
44 TraesCS5B01G368300 chr3B 82.857 105 9 5 3699 3802 422010778 422010682 6.770000e-13 86.1
45 TraesCS5B01G368300 chr3B 81.000 100 12 6 3706 3802 20019166 20019071 5.270000e-09 73.1
46 TraesCS5B01G368300 chr6A 94.118 68 3 1 837 904 612293706 612293772 6.720000e-18 102.0
47 TraesCS5B01G368300 chr7B 85.149 101 12 3 3703 3802 672549807 672549905 2.420000e-17 100.0
48 TraesCS5B01G368300 chr7B 85.075 67 9 1 242 307 561322188 561322254 2.450000e-07 67.6
49 TraesCS5B01G368300 chr4B 92.647 68 5 0 837 904 427519185 427519118 8.690000e-17 99.0
50 TraesCS5B01G368300 chr2D 92.647 68 5 0 837 904 648171055 648170988 8.690000e-17 99.0
51 TraesCS5B01G368300 chr6D 83.495 103 12 3 3700 3802 141632198 141632101 1.450000e-14 91.6
52 TraesCS5B01G368300 chr1B 83.951 81 10 3 242 320 383003034 383003113 1.460000e-09 75.0


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 TraesCS5B01G368300 chr5B 546703076 546706877 3801 True 7022.000000 7022 100.000000 1 3802 1 chr5B.!!$R2 3801
1 TraesCS5B01G368300 chr5A 565682273 565685816 3543 True 1413.333333 2983 90.998333 1 3061 3 chr5A.!!$R2 3060
2 TraesCS5B01G368300 chr5D 447772278 447778447 6169 True 989.900000 1565 93.488500 904 3802 4 chr5D.!!$R3 2898

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
171 178 0.928505 TATGTACTCCCTCCGTCCCA 59.071 55.0 0.0 0.0 0.0 4.37 F
1082 1601 0.251832 TCCTCCTTCTCCAGACGCTT 60.252 55.0 0.0 0.0 0.0 4.68 F
2253 2819 0.250513 AGCAGTGGTCGAAGGAATCC 59.749 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 2456 0.184933 TTCAAACCCTGGACCACCTG 59.815 55.0 0.0 0.0 37.04 4.00 R
2267 2833 0.035458 AGAGTGAGGCAAGTTTCCCG 59.965 55.0 0.0 0.0 0.00 5.14 R
3667 7551 0.171007 CATCATTGGTTGTCCCACGC 59.829 55.0 0.0 0.0 45.19 5.34 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
78 85 7.815068 CACCACAAATATTCAACCGGAAAAATA 59.185 33.333 9.46 8.97 39.39 1.40
165 172 6.493802 TGTAATGAGTCATATGTACTCCCTCC 59.506 42.308 22.02 13.48 42.24 4.30
171 178 0.928505 TATGTACTCCCTCCGTCCCA 59.071 55.000 0.00 0.00 0.00 4.37
248 385 5.795079 TGGGATGGAGGGAGTAGTATTTTA 58.205 41.667 0.00 0.00 0.00 1.52
277 414 9.695526 TTTTGATTCTCATGTTATCAACCAAAG 57.304 29.630 14.79 0.00 37.84 2.77
278 415 8.408043 TTGATTCTCATGTTATCAACCAAAGT 57.592 30.769 12.54 0.00 34.36 2.66
283 420 9.528018 TTCTCATGTTATCAACCAAAGTTTTTC 57.472 29.630 0.00 0.00 32.45 2.29
308 445 1.065031 CAATTACCACAGCAACGCGC 61.065 55.000 5.73 0.00 42.91 6.86
375 513 7.014808 CCATTCACCTTTTAACCTACAAGGAAA 59.985 37.037 9.40 4.62 39.73 3.13
376 514 6.947644 TCACCTTTTAACCTACAAGGAAAC 57.052 37.500 9.40 0.00 39.73 2.78
468 606 3.110358 CAGTGTGCACAAACATGACAAG 58.890 45.455 23.59 0.46 31.49 3.16
580 718 3.391049 GGGCGACTTATTCACCAGATAC 58.609 50.000 0.00 0.00 0.00 2.24
583 721 4.280174 GGCGACTTATTCACCAGATACCTA 59.720 45.833 0.00 0.00 0.00 3.08
597 735 8.674607 CACCAGATACCTAAAAACAAATACTCC 58.325 37.037 0.00 0.00 0.00 3.85
599 737 7.407337 CAGATACCTAAAAACAAATACTCCGC 58.593 38.462 0.00 0.00 0.00 5.54
609 747 4.254492 ACAAATACTCCGCTTCTTCTTCC 58.746 43.478 0.00 0.00 0.00 3.46
633 771 1.981254 CATGATGTTTTGCGTCCCAC 58.019 50.000 0.00 0.00 32.20 4.61
645 783 1.227556 GTCCCACGCTGCCGATTAT 60.228 57.895 0.00 0.00 38.29 1.28
657 795 2.022129 CGATTATCGCCAGCCGGAC 61.022 63.158 5.05 0.00 37.59 4.79
705 843 2.203266 GCTACAGGGGCCATGAGC 60.203 66.667 27.05 23.22 42.60 4.26
734 872 2.202878 GGCGTGGCTGCTCGATTA 60.203 61.111 17.95 0.00 34.52 1.75
735 873 1.595382 GGCGTGGCTGCTCGATTAT 60.595 57.895 17.95 0.00 34.52 1.28
737 875 1.497991 GCGTGGCTGCTCGATTATTA 58.502 50.000 17.95 0.00 0.00 0.98
741 879 3.060272 CGTGGCTGCTCGATTATTAGTTG 60.060 47.826 10.92 0.00 0.00 3.16
763 905 6.049955 TGGCTGTAGCTAGAAAACACTATT 57.950 37.500 3.63 0.00 41.70 1.73
787 929 5.585820 TGACACTGTTCAGTACTGTACAA 57.414 39.130 28.30 15.48 39.70 2.41
790 932 5.357257 ACACTGTTCAGTACTGTACAAAGG 58.643 41.667 28.30 22.67 39.70 3.11
791 933 5.105064 ACACTGTTCAGTACTGTACAAAGGT 60.105 40.000 28.30 23.15 39.70 3.50
826 968 1.943340 GTGTTCCCAAGCTAGCTATGC 59.057 52.381 19.70 6.22 0.00 3.14
834 976 3.264947 CAAGCTAGCTATGCAACTGACA 58.735 45.455 19.70 0.00 0.00 3.58
835 977 2.898705 AGCTAGCTATGCAACTGACAC 58.101 47.619 17.69 0.00 0.00 3.67
837 979 2.735444 GCTAGCTATGCAACTGACACGA 60.735 50.000 7.70 0.00 0.00 4.35
849 991 3.804036 ACTGACACGAGTGGATTTTTGA 58.196 40.909 8.19 0.00 34.19 2.69
855 997 2.292292 ACGAGTGGATTTTTGAAACCCG 59.708 45.455 0.00 0.00 0.00 5.28
857 999 1.343142 AGTGGATTTTTGAAACCCGGC 59.657 47.619 0.00 0.00 0.00 6.13
967 1484 3.885976 TCTTGTACCCACCCATCAAAA 57.114 42.857 0.00 0.00 0.00 2.44
972 1489 1.703411 ACCCACCCATCAAAACAGTG 58.297 50.000 0.00 0.00 0.00 3.66
977 1494 1.526575 CCCATCAAAACAGTGGCGCT 61.527 55.000 7.64 0.00 0.00 5.92
995 1514 5.069383 TGGCGCTGTTGTACCTCTATATAAA 59.931 40.000 7.64 0.00 0.00 1.40
1082 1601 0.251832 TCCTCCTTCTCCAGACGCTT 60.252 55.000 0.00 0.00 0.00 4.68
1095 1614 0.466124 GACGCTTCCTATGCCTCCTT 59.534 55.000 0.00 0.00 0.00 3.36
1174 1693 2.276116 ACTGACCCGATGACGCTGT 61.276 57.895 0.00 0.00 38.29 4.40
1227 1746 1.079336 GGAGCACAACCGGACCTAC 60.079 63.158 9.46 0.00 0.00 3.18
1228 1747 1.445582 GAGCACAACCGGACCTACG 60.446 63.158 9.46 0.00 0.00 3.51
1420 1939 1.509370 CTCTCCAACGACGACGACG 60.509 63.158 17.60 17.60 42.66 5.12
1421 1940 1.894223 CTCTCCAACGACGACGACGA 61.894 60.000 25.15 2.84 42.66 4.20
1422 1941 1.082561 CTCCAACGACGACGACGAA 60.083 57.895 25.15 7.51 42.66 3.85
1660 2184 5.373812 TCTTCCCTTGGTCTCCAATTATC 57.626 43.478 1.58 0.00 43.07 1.75
1764 2288 4.018484 AGCTGCTTCATCATTAGGGATC 57.982 45.455 0.00 0.00 0.00 3.36
1776 2300 5.371526 TCATTAGGGATCAGACAATTGCTC 58.628 41.667 5.05 2.73 0.00 4.26
1882 2407 6.372659 GGATGTATTCACACCTAATATGCAGG 59.627 42.308 0.00 2.68 37.54 4.85
1905 2459 2.845363 AAAAAGCATTTCCTGGCAGG 57.155 45.000 28.01 28.01 37.28 4.85
1927 2486 2.625790 TGGTCCAGGGTTTGAAATTTCG 59.374 45.455 13.34 0.00 0.00 3.46
1951 2511 8.305317 TCGAAAAGAAAAGTTTTTGGACCTTAA 58.695 29.630 1.64 0.00 33.29 1.85
1968 2528 3.059393 CCTTAACGAACTGACCGGTTTTC 60.059 47.826 9.42 11.36 0.00 2.29
2171 2736 9.905713 ATAAACACCTATCTAATTTCTCTTGCA 57.094 29.630 0.00 0.00 0.00 4.08
2172 2737 7.856145 AACACCTATCTAATTTCTCTTGCAG 57.144 36.000 0.00 0.00 0.00 4.41
2173 2738 6.951971 ACACCTATCTAATTTCTCTTGCAGT 58.048 36.000 0.00 0.00 0.00 4.40
2174 2739 7.044798 ACACCTATCTAATTTCTCTTGCAGTC 58.955 38.462 0.00 0.00 0.00 3.51
2231 2797 1.355381 TCATGTTGGGCATTCTCCACT 59.645 47.619 0.00 0.00 35.19 4.00
2237 2803 0.253044 GGGCATTCTCCACTGTAGCA 59.747 55.000 0.00 0.00 0.00 3.49
2253 2819 0.250513 AGCAGTGGTCGAAGGAATCC 59.749 55.000 0.00 0.00 0.00 3.01
2267 2833 2.024941 AGGAATCCACCAAATCCAGACC 60.025 50.000 0.61 0.00 34.30 3.85
2282 2848 1.072505 GACCGGGAAACTTGCCTCA 59.927 57.895 6.32 0.00 36.39 3.86
2297 2863 1.274728 GCCTCACTCTCAGAGCAAGAA 59.725 52.381 0.00 0.00 32.04 2.52
2309 2875 0.839946 AGCAAGAACTGGTGGACTGT 59.160 50.000 0.00 0.00 33.42 3.55
2312 2878 2.811873 GCAAGAACTGGTGGACTGTGAT 60.812 50.000 0.00 0.00 0.00 3.06
2333 2899 1.039856 AGTTGGACCATGGTTGCAAC 58.960 50.000 28.06 28.06 0.00 4.17
2336 2902 2.258286 GACCATGGTTGCAACGGC 59.742 61.111 20.85 10.93 41.68 5.68
2369 2935 2.435586 GCGCTGCAGTGGATCACT 60.436 61.111 27.56 0.00 46.51 3.41
2372 2938 1.690283 CGCTGCAGTGGATCACTTCG 61.690 60.000 19.78 4.01 42.59 3.79
2396 2962 2.501610 GGCATCACCTCCGAGGAC 59.498 66.667 21.89 4.78 37.67 3.85
2397 2963 2.359169 GGCATCACCTCCGAGGACA 61.359 63.158 21.89 6.98 37.67 4.02
2455 3021 2.101249 CCACAAAGCTTTCACACCATGT 59.899 45.455 9.23 0.00 0.00 3.21
2456 3022 3.430651 CCACAAAGCTTTCACACCATGTT 60.431 43.478 9.23 0.00 0.00 2.71
2504 3070 1.740380 GCAACAAGGAGCGAGCTATCA 60.740 52.381 0.00 0.00 0.00 2.15
2555 3121 2.711922 GGTGTCGATCGAGGCTGGT 61.712 63.158 20.09 0.00 0.00 4.00
2558 3124 3.147595 TCGATCGAGGCTGGTGGG 61.148 66.667 15.15 0.00 0.00 4.61
2577 3143 0.250727 GGCCAACTTCCAGCACTACA 60.251 55.000 0.00 0.00 0.00 2.74
2585 3151 1.656587 TCCAGCACTACAGGAATGGT 58.343 50.000 0.00 0.00 29.47 3.55
2597 3163 2.164219 CAGGAATGGTGTGTACAATGGC 59.836 50.000 0.00 0.00 0.00 4.40
2603 3169 0.173255 GTGTGTACAATGGCCCATGC 59.827 55.000 0.00 0.00 0.00 4.06
2621 3187 2.668550 GGGACACGGCTGAACCAC 60.669 66.667 0.00 0.00 39.03 4.16
2630 3196 2.279851 CTGAACCACGGCGTCACA 60.280 61.111 10.85 7.17 0.00 3.58
2636 3202 3.036084 CACGGCGTCACAGTGGTC 61.036 66.667 10.85 0.00 40.38 4.02
2651 3217 1.152096 GGTCGGGTATGGGGAGGAT 60.152 63.158 0.00 0.00 0.00 3.24
2848 3414 4.908601 TCATTGTTCTTTCCCTAGCAGA 57.091 40.909 0.00 0.00 0.00 4.26
2856 3424 0.036388 TTCCCTAGCAGACCAAAGCG 60.036 55.000 0.00 0.00 35.48 4.68
2870 3438 4.444536 ACCAAAGCGTAGTCAACTTGTTA 58.555 39.130 0.00 0.00 0.00 2.41
2987 3555 5.186215 TGAATTGTTCATGTGGATTCAGCAT 59.814 36.000 10.32 0.00 33.26 3.79
3028 3596 5.240844 TGAGCTTTTAGGCTTTTTAGTGGAC 59.759 40.000 0.00 0.00 43.20 4.02
3056 3651 4.452455 GTGTCCAATAGGTCAAGTCAACTG 59.548 45.833 0.00 0.00 34.73 3.16
3067 3662 5.519927 GGTCAAGTCAACTGTTTGGAATTTG 59.480 40.000 0.00 0.00 33.06 2.32
3068 3663 6.099341 GTCAAGTCAACTGTTTGGAATTTGT 58.901 36.000 0.00 0.00 33.06 2.83
3069 3664 6.589907 GTCAAGTCAACTGTTTGGAATTTGTT 59.410 34.615 0.00 0.00 33.06 2.83
3070 3665 6.589523 TCAAGTCAACTGTTTGGAATTTGTTG 59.410 34.615 0.00 0.00 36.93 3.33
3099 3694 5.330455 ACATGTCGTACAGTGAGATTGAT 57.670 39.130 0.00 0.00 0.00 2.57
3110 3705 9.781834 GTACAGTGAGATTGATATGACTATAGC 57.218 37.037 0.00 0.00 0.00 2.97
3111 3706 7.835822 ACAGTGAGATTGATATGACTATAGCC 58.164 38.462 0.00 0.00 0.00 3.93
3112 3707 7.093552 ACAGTGAGATTGATATGACTATAGCCC 60.094 40.741 0.00 0.00 0.00 5.19
3113 3708 6.956435 AGTGAGATTGATATGACTATAGCCCA 59.044 38.462 0.00 0.00 0.00 5.36
3114 3709 7.455953 AGTGAGATTGATATGACTATAGCCCAA 59.544 37.037 0.00 0.00 0.00 4.12
3115 3710 8.097038 GTGAGATTGATATGACTATAGCCCAAA 58.903 37.037 0.00 0.00 0.00 3.28
3116 3711 8.097038 TGAGATTGATATGACTATAGCCCAAAC 58.903 37.037 0.00 0.00 0.00 2.93
3130 7009 9.331282 CTATAGCCCAAACCTAATAGCAATATC 57.669 37.037 0.00 0.00 0.00 1.63
3131 7010 5.003804 AGCCCAAACCTAATAGCAATATCG 58.996 41.667 0.00 0.00 0.00 2.92
3132 7011 4.379499 GCCCAAACCTAATAGCAATATCGC 60.379 45.833 0.00 0.00 0.00 4.58
3134 7013 5.106555 CCCAAACCTAATAGCAATATCGCTG 60.107 44.000 0.00 0.00 43.68 5.18
3135 7014 5.700832 CCAAACCTAATAGCAATATCGCTGA 59.299 40.000 0.00 0.00 43.68 4.26
3136 7015 6.128445 CCAAACCTAATAGCAATATCGCTGAG 60.128 42.308 0.00 0.00 43.68 3.35
3137 7016 4.499183 ACCTAATAGCAATATCGCTGAGC 58.501 43.478 0.00 0.00 43.68 4.26
3138 7017 3.868077 CCTAATAGCAATATCGCTGAGCC 59.132 47.826 0.00 0.00 43.68 4.70
3139 7018 3.407424 AATAGCAATATCGCTGAGCCA 57.593 42.857 0.00 0.00 43.68 4.75
3140 7019 2.154854 TAGCAATATCGCTGAGCCAC 57.845 50.000 0.00 0.00 43.68 5.01
3142 7021 0.864455 GCAATATCGCTGAGCCACTC 59.136 55.000 0.00 0.00 0.00 3.51
3143 7022 1.506493 CAATATCGCTGAGCCACTCC 58.494 55.000 0.00 0.00 0.00 3.85
3145 7024 1.346062 ATATCGCTGAGCCACTCCAT 58.654 50.000 0.00 0.00 0.00 3.41
3146 7025 1.123077 TATCGCTGAGCCACTCCATT 58.877 50.000 0.00 0.00 0.00 3.16
3149 7028 2.758089 GCTGAGCCACTCCATTGCG 61.758 63.158 0.00 0.00 0.00 4.85
3150 7029 1.376424 CTGAGCCACTCCATTGCGT 60.376 57.895 0.00 0.00 0.00 5.24
3151 7030 1.364626 CTGAGCCACTCCATTGCGTC 61.365 60.000 0.00 0.00 0.00 5.19
3153 7032 0.745845 GAGCCACTCCATTGCGTCAT 60.746 55.000 0.00 0.00 0.00 3.06
3154 7033 1.028330 AGCCACTCCATTGCGTCATG 61.028 55.000 0.00 0.00 0.00 3.07
3155 7034 1.430632 CCACTCCATTGCGTCATGC 59.569 57.895 0.00 0.00 46.70 4.06
3165 7044 3.092081 GCGTCATGCAAACAAGGTC 57.908 52.632 0.00 0.00 45.45 3.85
3229 7108 8.265764 AGATAAACTACCTCCCAAACTTGATAC 58.734 37.037 0.00 0.00 0.00 2.24
3260 7139 8.845413 TGTTTTTAAAGGAAAATCCATCATGG 57.155 30.769 0.00 0.00 39.61 3.66
3261 7140 7.390162 TGTTTTTAAAGGAAAATCCATCATGGC 59.610 33.333 0.00 0.00 39.61 4.40
3267 7146 5.433526 AGGAAAATCCATCATGGCAATTTG 58.566 37.500 0.00 0.00 39.61 2.32
3277 7156 8.805175 TCCATCATGGCAATTTGTATTAATAGG 58.195 33.333 0.00 0.00 37.47 2.57
3286 7165 9.846248 GCAATTTGTATTAATAGGGAATAGCAG 57.154 33.333 0.00 0.00 0.00 4.24
3299 7178 4.335594 GGGAATAGCAGTTACAACATCCAC 59.664 45.833 0.00 0.00 0.00 4.02
3311 7190 9.436957 AGTTACAACATCCACAAGAATAGTAAG 57.563 33.333 0.00 0.00 0.00 2.34
3312 7191 6.743575 ACAACATCCACAAGAATAGTAAGC 57.256 37.500 0.00 0.00 0.00 3.09
3324 7203 7.067494 ACAAGAATAGTAAGCAAATAAGCTGGG 59.933 37.037 0.00 0.00 45.89 4.45
3346 7225 2.817844 GGTCACCCTACCAAACAACATC 59.182 50.000 0.00 0.00 39.50 3.06
3349 7228 5.250200 GTCACCCTACCAAACAACATCATA 58.750 41.667 0.00 0.00 0.00 2.15
3352 7231 6.213802 TCACCCTACCAAACAACATCATAGTA 59.786 38.462 0.00 0.00 0.00 1.82
3383 7265 4.565531 GCAAGTTCATGTGCTGCC 57.434 55.556 0.00 0.00 37.78 4.85
3384 7266 1.080298 GCAAGTTCATGTGCTGCCC 60.080 57.895 0.00 0.00 37.78 5.36
3390 7272 3.813443 AGTTCATGTGCTGCCCTATTAG 58.187 45.455 0.00 0.00 0.00 1.73
3463 7346 5.174943 GGAACGAACCTTGCTTTAATTGTTG 59.825 40.000 0.00 0.00 0.00 3.33
3531 7415 3.572255 GGTTTTAGTGGATTTGAGTGCCA 59.428 43.478 0.00 0.00 0.00 4.92
3540 7424 3.193267 GGATTTGAGTGCCAAGCATGTAA 59.807 43.478 0.00 0.00 41.91 2.41
3546 7430 1.885887 GTGCCAAGCATGTAAGGTCAA 59.114 47.619 0.00 0.00 41.91 3.18
3561 7445 3.175594 AGGTCAATTTTCATGTGGCCAT 58.824 40.909 9.72 0.00 39.61 4.40
3567 7451 5.125900 TCAATTTTCATGTGGCCATGTCTAG 59.874 40.000 9.72 0.00 46.99 2.43
3593 7477 5.025453 ACAAATGCCCATGTAATTCTCCTT 58.975 37.500 0.00 0.00 0.00 3.36
3597 7481 4.272489 TGCCCATGTAATTCTCCTTTCAG 58.728 43.478 0.00 0.00 0.00 3.02
3607 7491 8.521176 TGTAATTCTCCTTTCAGTACAGACTAC 58.479 37.037 0.00 0.00 33.32 2.73
3609 7493 5.961396 TCTCCTTTCAGTACAGACTACAC 57.039 43.478 0.00 0.00 33.32 2.90
3627 7511 8.204836 AGACTACACAAAATCTATTTATCGCCT 58.795 33.333 0.00 0.00 0.00 5.52
3629 7513 9.998106 ACTACACAAAATCTATTTATCGCCTAT 57.002 29.630 0.00 0.00 0.00 2.57
3645 7529 2.092914 GCCTATTGTGACTGCTAAGGGT 60.093 50.000 0.00 0.00 0.00 4.34
3650 7534 1.339055 TGTGACTGCTAAGGGTGCATC 60.339 52.381 0.00 0.00 39.86 3.91
3665 7549 1.221840 CATCACCTACAAGCGCCCT 59.778 57.895 2.29 0.00 0.00 5.19
3666 7550 0.392998 CATCACCTACAAGCGCCCTT 60.393 55.000 2.29 0.00 0.00 3.95
3702 7586 5.857268 CAATGATGGAATTATGGGGGAAAC 58.143 41.667 0.00 0.00 0.00 2.78
3723 7607 7.867403 GGAAACTGTTAATCAAGCATCTGAAAA 59.133 33.333 0.00 0.00 0.00 2.29
3735 7619 8.980610 TCAAGCATCTGAAAAATGTTAAATGTG 58.019 29.630 0.00 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.977427 CATGATTGCATGTTGAGATGGG 58.023 45.455 0.00 0.00 45.41 4.00
142 149 5.710567 CGGAGGGAGTACATATGACTCATTA 59.289 44.000 24.29 2.25 44.34 1.90
271 408 5.357742 AATTGGCTGAGAAAAACTTTGGT 57.642 34.783 0.00 0.00 0.00 3.67
277 414 5.195001 TGTGGTAATTGGCTGAGAAAAAC 57.805 39.130 0.00 0.00 0.00 2.43
278 415 4.261994 GCTGTGGTAATTGGCTGAGAAAAA 60.262 41.667 0.00 0.00 0.00 1.94
283 420 1.825090 TGCTGTGGTAATTGGCTGAG 58.175 50.000 0.00 0.00 0.00 3.35
375 513 3.580458 CCATAGAGGGCAACTATAGCAGT 59.420 47.826 0.00 0.00 40.05 4.40
376 514 3.580458 ACCATAGAGGGCAACTATAGCAG 59.420 47.826 0.00 0.00 43.89 4.24
446 584 2.090760 TGTCATGTTTGTGCACACTGT 58.909 42.857 21.56 3.00 0.00 3.55
451 589 3.698029 AGTCTTGTCATGTTTGTGCAC 57.302 42.857 10.75 10.75 0.00 4.57
468 606 7.602517 ACTCAATTGTCAATACTGCTAAGTC 57.397 36.000 5.13 0.00 37.88 3.01
489 627 4.870991 AGATTTTTGCCGAACTAGCTACTC 59.129 41.667 0.00 0.00 0.00 2.59
532 670 3.309961 TCACAAGTGAGATCAGTGAGC 57.690 47.619 0.00 0.00 34.59 4.26
580 718 6.496338 AGAAGCGGAGTATTTGTTTTTAGG 57.504 37.500 0.00 0.00 0.00 2.69
583 721 6.635030 AGAAGAAGCGGAGTATTTGTTTTT 57.365 33.333 0.00 0.00 0.00 1.94
592 730 1.204941 GCAGGAAGAAGAAGCGGAGTA 59.795 52.381 0.00 0.00 0.00 2.59
599 737 1.730501 TCATGCGCAGGAAGAAGAAG 58.269 50.000 24.12 0.00 0.00 2.85
711 849 4.666253 AGCAGCCACGCCCAATGT 62.666 61.111 0.00 0.00 0.00 2.71
733 871 7.548075 GTGTTTTCTAGCTACAGCCAACTAATA 59.452 37.037 0.00 0.00 43.38 0.98
734 872 6.371825 GTGTTTTCTAGCTACAGCCAACTAAT 59.628 38.462 0.00 0.00 43.38 1.73
735 873 5.699458 GTGTTTTCTAGCTACAGCCAACTAA 59.301 40.000 0.00 0.00 43.38 2.24
737 875 4.065789 GTGTTTTCTAGCTACAGCCAACT 58.934 43.478 0.00 0.00 43.38 3.16
741 879 6.986904 AAATAGTGTTTTCTAGCTACAGCC 57.013 37.500 0.00 0.00 43.38 4.85
763 905 5.968254 TGTACAGTACTGAACAGTGTCAAA 58.032 37.500 29.30 0.00 42.52 2.69
826 968 4.035091 TCAAAAATCCACTCGTGTCAGTTG 59.965 41.667 0.00 0.00 0.00 3.16
834 976 2.292292 CGGGTTTCAAAAATCCACTCGT 59.708 45.455 2.86 0.00 0.00 4.18
835 977 2.351350 CCGGGTTTCAAAAATCCACTCG 60.351 50.000 0.00 0.00 0.00 4.18
837 979 1.343142 GCCGGGTTTCAAAAATCCACT 59.657 47.619 2.18 0.00 0.00 4.00
849 991 0.034477 CCTCCAATACAGCCGGGTTT 60.034 55.000 1.64 0.00 0.00 3.27
855 997 8.691661 TTAAAATAAGATCCTCCAATACAGCC 57.308 34.615 0.00 0.00 0.00 4.85
917 1434 3.022287 CCAGTTGTGTGCGGTCAC 58.978 61.111 0.57 0.57 43.40 3.67
972 1489 3.662247 ATATAGAGGTACAACAGCGCC 57.338 47.619 2.29 0.00 0.00 6.53
977 1494 8.139350 CCATCACGTTTATATAGAGGTACAACA 58.861 37.037 0.00 0.00 0.00 3.33
995 1514 2.427095 TCTGATGAACGATCCATCACGT 59.573 45.455 8.53 0.00 43.67 4.49
1082 1601 1.133009 GGAGGAGAAGGAGGCATAGGA 60.133 57.143 0.00 0.00 0.00 2.94
1095 1614 2.363018 CAGACGGCCAGGAGGAGA 60.363 66.667 2.24 0.00 36.89 3.71
1154 1673 3.188786 GCGTCATCGGGTCAGTGC 61.189 66.667 0.00 0.00 37.56 4.40
1174 1693 0.471191 AATCGCTGCTCCATCATCCA 59.529 50.000 0.00 0.00 0.00 3.41
1228 1747 3.327404 TTCTTCCTCCGGGGTGGC 61.327 66.667 0.00 0.00 37.80 5.01
1271 1790 2.020016 CGATGTAGCGCACGTTGC 59.980 61.111 11.47 1.30 40.69 4.17
1407 1926 2.755095 GCTTCGTCGTCGTCGTTG 59.245 61.111 11.41 7.04 38.33 4.10
1408 1927 2.794166 CGCTTCGTCGTCGTCGTT 60.794 61.111 11.41 0.00 38.33 3.85
1420 1939 1.392853 GATCATCATCATCGGCGCTTC 59.607 52.381 7.64 0.00 0.00 3.86
1421 1940 1.270465 TGATCATCATCATCGGCGCTT 60.270 47.619 7.64 0.00 33.80 4.68
1422 1941 0.319405 TGATCATCATCATCGGCGCT 59.681 50.000 7.64 0.00 33.80 5.92
1569 2088 3.066692 CGTAACGTACCGCACTGC 58.933 61.111 0.00 0.00 0.00 4.40
1587 2111 0.248907 CCACCATCCACGTAGCGTAG 60.249 60.000 0.00 0.00 38.32 3.51
1660 2184 1.067071 GTTTACAGGGAGGAGGTGACG 60.067 57.143 0.00 0.00 0.00 4.35
1764 2288 5.237127 TGACAGTTAAGTGAGCAATTGTCTG 59.763 40.000 17.23 11.90 40.24 3.51
1776 2300 3.561310 ACAGTGTGCATGACAGTTAAGTG 59.439 43.478 8.81 8.81 35.93 3.16
1892 2446 0.967380 GGACCACCTGCCAGGAAATG 60.967 60.000 19.90 5.19 37.67 2.32
1894 2448 2.067932 CTGGACCACCTGCCAGGAAA 62.068 60.000 19.90 0.00 46.24 3.13
1895 2449 2.449518 TGGACCACCTGCCAGGAA 60.450 61.111 19.90 0.00 37.67 3.36
1896 2450 2.930019 CTGGACCACCTGCCAGGA 60.930 66.667 19.90 0.00 46.24 3.86
1900 2454 3.146828 AAACCCTGGACCACCTGCC 62.147 63.158 0.00 0.00 37.04 4.85
1901 2455 1.903404 CAAACCCTGGACCACCTGC 60.903 63.158 0.00 0.00 37.04 4.85
1902 2456 0.184933 TTCAAACCCTGGACCACCTG 59.815 55.000 0.00 0.00 37.04 4.00
1903 2457 0.930726 TTTCAAACCCTGGACCACCT 59.069 50.000 0.00 0.00 37.04 4.00
1905 2459 3.552068 CGAAATTTCAAACCCTGGACCAC 60.552 47.826 17.99 0.00 0.00 4.16
1927 2486 8.377681 CGTTAAGGTCCAAAAACTTTTCTTTTC 58.622 33.333 0.00 0.00 0.00 2.29
1943 2503 1.670967 CCGGTCAGTTCGTTAAGGTCC 60.671 57.143 0.00 0.00 0.00 4.46
1951 2511 2.249844 ATGAAAACCGGTCAGTTCGT 57.750 45.000 8.04 10.93 0.00 3.85
2151 2716 6.385467 AGGACTGCAAGAGAAATTAGATAGGT 59.615 38.462 0.00 0.00 37.43 3.08
2152 2717 6.825610 AGGACTGCAAGAGAAATTAGATAGG 58.174 40.000 0.00 0.00 37.43 2.57
2164 2729 6.344500 AGAACATACATAAGGACTGCAAGAG 58.656 40.000 0.00 0.00 37.43 2.85
2165 2730 6.299805 AGAACATACATAAGGACTGCAAGA 57.700 37.500 0.00 0.00 37.43 3.02
2166 2731 8.492673 TTTAGAACATACATAAGGACTGCAAG 57.507 34.615 0.00 0.00 42.29 4.01
2167 2732 9.461312 AATTTAGAACATACATAAGGACTGCAA 57.539 29.630 0.00 0.00 0.00 4.08
2169 2734 9.109393 TGAATTTAGAACATACATAAGGACTGC 57.891 33.333 0.00 0.00 0.00 4.40
2213 2779 1.076024 ACAGTGGAGAATGCCCAACAT 59.924 47.619 0.00 0.00 42.30 2.71
2231 2797 1.334160 TTCCTTCGACCACTGCTACA 58.666 50.000 0.00 0.00 0.00 2.74
2253 2819 0.037590 TTCCCGGTCTGGATTTGGTG 59.962 55.000 0.00 0.00 42.00 4.17
2267 2833 0.035458 AGAGTGAGGCAAGTTTCCCG 59.965 55.000 0.00 0.00 0.00 5.14
2282 2848 2.036992 CACCAGTTCTTGCTCTGAGAGT 59.963 50.000 11.64 0.00 34.02 3.24
2297 2863 3.244561 CCAACTTATCACAGTCCACCAGT 60.245 47.826 0.00 0.00 0.00 4.00
2309 2875 3.088532 GCAACCATGGTCCAACTTATCA 58.911 45.455 20.07 0.00 0.00 2.15
2312 2878 2.625790 GTTGCAACCATGGTCCAACTTA 59.374 45.455 33.02 14.75 34.51 2.24
2333 2899 2.050895 CGATAGCTCACTCCGCCG 60.051 66.667 0.00 0.00 0.00 6.46
2336 2902 1.655654 CGCACGATAGCTCACTCCG 60.656 63.158 0.00 0.00 42.67 4.63
2369 2935 3.115892 GTGATGCCGCCGTTCGAA 61.116 61.111 0.00 0.00 41.67 3.71
2391 2957 4.219944 TGCCGTATATGGATAGTTGTCCTC 59.780 45.833 15.58 0.00 39.12 3.71
2396 2962 5.408604 GTCCTTTGCCGTATATGGATAGTTG 59.591 44.000 15.58 0.00 0.00 3.16
2397 2963 5.548406 GTCCTTTGCCGTATATGGATAGTT 58.452 41.667 15.58 0.00 0.00 2.24
2447 3013 2.224843 TGAGATGGAAGCAACATGGTGT 60.225 45.455 13.35 0.00 0.00 4.16
2455 3021 1.340405 GGAAGCCTGAGATGGAAGCAA 60.340 52.381 0.00 0.00 0.00 3.91
2456 3022 0.254178 GGAAGCCTGAGATGGAAGCA 59.746 55.000 0.00 0.00 0.00 3.91
2489 3055 2.432146 TGTCAATGATAGCTCGCTCCTT 59.568 45.455 0.00 0.00 0.00 3.36
2504 3070 2.642700 GCCACCGCGTTTGTCAAT 59.357 55.556 4.92 0.00 0.00 2.57
2531 3097 3.336715 CTCGATCGACACCGCCACA 62.337 63.158 15.15 0.00 35.37 4.17
2555 3121 3.506743 TGCTGGAAGTTGGCCCCA 61.507 61.111 0.00 0.00 35.30 4.96
2558 3124 0.250727 TGTAGTGCTGGAAGTTGGCC 60.251 55.000 0.00 0.00 35.30 5.36
2577 3143 2.446435 GCCATTGTACACACCATTCCT 58.554 47.619 0.00 0.00 0.00 3.36
2585 3151 1.311651 CGCATGGGCCATTGTACACA 61.312 55.000 18.46 0.00 36.38 3.72
2603 3169 4.308458 TGGTTCAGCCGTGTCCCG 62.308 66.667 0.00 0.00 41.21 5.14
2630 3196 1.382695 CTCCCCATACCCGACCACT 60.383 63.158 0.00 0.00 0.00 4.00
2636 3202 1.194781 CCTCATCCTCCCCATACCCG 61.195 65.000 0.00 0.00 0.00 5.28
2651 3217 0.191064 AACTCTCCCCAGTCACCTCA 59.809 55.000 0.00 0.00 0.00 3.86
2737 3303 1.414181 CCTCGGGCTTGTCTATGATGT 59.586 52.381 0.00 0.00 0.00 3.06
2848 3414 2.914059 ACAAGTTGACTACGCTTTGGT 58.086 42.857 10.54 0.00 0.00 3.67
2904 3472 9.866655 TGAATATACTCCCATTTTTAGAAGCAT 57.133 29.630 0.00 0.00 0.00 3.79
2960 3528 6.028146 TGAATCCACATGAACAATTCAAGG 57.972 37.500 0.00 0.00 43.95 3.61
3056 3651 5.596845 TGTAGCTTCCAACAAATTCCAAAC 58.403 37.500 0.00 0.00 0.00 2.93
3067 3662 3.581755 TGTACGACATGTAGCTTCCAAC 58.418 45.455 5.81 0.00 32.51 3.77
3068 3663 3.257375 ACTGTACGACATGTAGCTTCCAA 59.743 43.478 5.81 0.00 32.51 3.53
3069 3664 2.823747 ACTGTACGACATGTAGCTTCCA 59.176 45.455 5.81 0.00 32.51 3.53
3070 3665 3.119602 TCACTGTACGACATGTAGCTTCC 60.120 47.826 5.81 0.00 32.51 3.46
3099 3694 7.456585 TGCTATTAGGTTTGGGCTATAGTCATA 59.543 37.037 6.69 0.00 0.00 2.15
3110 3705 5.003804 AGCGATATTGCTATTAGGTTTGGG 58.996 41.667 16.22 0.00 45.14 4.12
3111 3706 5.700832 TCAGCGATATTGCTATTAGGTTTGG 59.299 40.000 17.29 1.55 45.23 3.28
3112 3707 6.619446 GCTCAGCGATATTGCTATTAGGTTTG 60.619 42.308 17.29 3.17 45.23 2.93
3113 3708 5.409826 GCTCAGCGATATTGCTATTAGGTTT 59.590 40.000 17.29 0.00 45.23 3.27
3114 3709 4.932200 GCTCAGCGATATTGCTATTAGGTT 59.068 41.667 17.29 0.00 45.23 3.50
3115 3710 4.499183 GCTCAGCGATATTGCTATTAGGT 58.501 43.478 17.29 0.00 45.23 3.08
3116 3711 3.868077 GGCTCAGCGATATTGCTATTAGG 59.132 47.826 17.29 5.10 45.23 2.69
3130 7009 2.758089 GCAATGGAGTGGCTCAGCG 61.758 63.158 0.00 0.00 31.08 5.18
3131 7010 2.758089 CGCAATGGAGTGGCTCAGC 61.758 63.158 0.00 0.00 31.08 4.26
3132 7011 1.364626 GACGCAATGGAGTGGCTCAG 61.365 60.000 0.00 0.00 31.08 3.35
3134 7013 0.745845 ATGACGCAATGGAGTGGCTC 60.746 55.000 0.00 0.00 0.00 4.70
3135 7014 1.028330 CATGACGCAATGGAGTGGCT 61.028 55.000 0.00 0.00 0.00 4.75
3136 7015 1.430632 CATGACGCAATGGAGTGGC 59.569 57.895 0.00 0.00 0.00 5.01
3137 7016 1.430632 GCATGACGCAATGGAGTGG 59.569 57.895 0.00 0.00 41.79 4.00
3149 7028 1.234821 TCGGACCTTGTTTGCATGAC 58.765 50.000 0.00 0.00 0.00 3.06
3150 7029 1.974265 TTCGGACCTTGTTTGCATGA 58.026 45.000 0.00 0.00 0.00 3.07
3151 7030 2.030007 ACATTCGGACCTTGTTTGCATG 60.030 45.455 0.00 0.00 0.00 4.06
3153 7032 1.606668 GACATTCGGACCTTGTTTGCA 59.393 47.619 0.00 0.00 0.00 4.08
3154 7033 1.068541 GGACATTCGGACCTTGTTTGC 60.069 52.381 0.00 0.00 0.00 3.68
3155 7034 2.226330 TGGACATTCGGACCTTGTTTG 58.774 47.619 0.00 0.00 0.00 2.93
3156 7035 2.649531 TGGACATTCGGACCTTGTTT 57.350 45.000 0.00 0.00 0.00 2.83
3157 7036 2.879103 ATGGACATTCGGACCTTGTT 57.121 45.000 0.00 0.00 0.00 2.83
3158 7037 3.711704 AGATATGGACATTCGGACCTTGT 59.288 43.478 0.00 0.00 0.00 3.16
3159 7038 4.342862 AGATATGGACATTCGGACCTTG 57.657 45.455 0.00 0.00 0.00 3.61
3160 7039 4.899457 TGTAGATATGGACATTCGGACCTT 59.101 41.667 0.00 0.00 0.00 3.50
3161 7040 4.480115 TGTAGATATGGACATTCGGACCT 58.520 43.478 0.00 0.00 0.00 3.85
3162 7041 4.866508 TGTAGATATGGACATTCGGACC 57.133 45.455 0.00 0.00 0.00 4.46
3163 7042 8.827177 TTTTATGTAGATATGGACATTCGGAC 57.173 34.615 4.78 0.00 0.00 4.79
3164 7043 8.094548 CCTTTTATGTAGATATGGACATTCGGA 58.905 37.037 4.78 0.00 0.00 4.55
3165 7044 7.148407 GCCTTTTATGTAGATATGGACATTCGG 60.148 40.741 4.78 3.25 0.00 4.30
3210 7089 4.192317 GCAGTATCAAGTTTGGGAGGTAG 58.808 47.826 0.00 0.00 0.00 3.18
3213 7092 2.009774 CGCAGTATCAAGTTTGGGAGG 58.990 52.381 0.00 0.00 0.00 4.30
3229 7108 6.644592 TGGATTTTCCTTTAAAAACATCGCAG 59.355 34.615 0.00 0.00 40.37 5.18
3260 7139 9.846248 CTGCTATTCCCTATTAATACAAATTGC 57.154 33.333 13.35 13.35 0.00 3.56
3275 7154 4.227300 TGGATGTTGTAACTGCTATTCCCT 59.773 41.667 0.00 0.00 0.00 4.20
3277 7156 4.941263 TGTGGATGTTGTAACTGCTATTCC 59.059 41.667 0.00 0.00 0.00 3.01
3286 7165 8.175716 GCTTACTATTCTTGTGGATGTTGTAAC 58.824 37.037 0.00 0.00 0.00 2.50
3291 7170 7.759489 TTTGCTTACTATTCTTGTGGATGTT 57.241 32.000 0.00 0.00 0.00 2.71
3299 7178 7.420800 CCCAGCTTATTTGCTTACTATTCTTG 58.579 38.462 0.00 0.00 41.98 3.02
3311 7190 0.817654 GTGACCCCCAGCTTATTTGC 59.182 55.000 0.00 0.00 0.00 3.68
3312 7191 1.474330 GGTGACCCCCAGCTTATTTG 58.526 55.000 0.00 0.00 40.01 2.32
3340 7219 5.097742 TGTTGAGGGGTACTATGATGTTG 57.902 43.478 0.00 0.00 0.00 3.33
3346 7225 3.134623 TGCTCATGTTGAGGGGTACTATG 59.865 47.826 6.64 0.00 44.43 2.23
3349 7228 1.656587 TGCTCATGTTGAGGGGTACT 58.343 50.000 6.64 0.00 44.43 2.73
3352 7231 0.773644 ACTTGCTCATGTTGAGGGGT 59.226 50.000 6.64 0.00 44.43 4.95
3377 7259 0.474184 GGAAGGCTAATAGGGCAGCA 59.526 55.000 0.00 0.00 39.63 4.41
3383 7265 9.525826 AATCATTTTCATAGGAAGGCTAATAGG 57.474 33.333 0.00 0.00 33.82 2.57
3420 7303 2.604011 TCCGTTGTTGTAACTTCACACG 59.396 45.455 0.00 0.00 0.00 4.49
3510 7394 4.846779 TGGCACTCAAATCCACTAAAAC 57.153 40.909 0.00 0.00 0.00 2.43
3531 7415 6.869913 CACATGAAAATTGACCTTACATGCTT 59.130 34.615 0.00 0.00 37.66 3.91
3540 7424 2.607499 TGGCCACATGAAAATTGACCT 58.393 42.857 0.00 0.00 0.00 3.85
3561 7445 0.403655 TGGGCATTTGTGGCTAGACA 59.596 50.000 0.00 0.00 34.52 3.41
3567 7451 2.985957 ATTACATGGGCATTTGTGGC 57.014 45.000 0.00 0.00 0.00 5.01
3607 7491 9.385902 CACAATAGGCGATAAATAGATTTTGTG 57.614 33.333 0.00 0.00 0.00 3.33
3609 7493 9.599322 GTCACAATAGGCGATAAATAGATTTTG 57.401 33.333 0.00 0.00 0.00 2.44
3621 7505 3.493350 CCTTAGCAGTCACAATAGGCGAT 60.493 47.826 0.00 0.00 0.00 4.58
3627 7511 2.304470 TGCACCCTTAGCAGTCACAATA 59.696 45.455 0.00 0.00 37.02 1.90
3629 7513 0.472044 TGCACCCTTAGCAGTCACAA 59.528 50.000 0.00 0.00 37.02 3.33
3631 7515 1.339055 TGATGCACCCTTAGCAGTCAC 60.339 52.381 0.00 0.00 46.36 3.67
3645 7529 1.745115 GGCGCTTGTAGGTGATGCA 60.745 57.895 7.64 0.00 0.00 3.96
3650 7534 2.690778 GCAAGGGCGCTTGTAGGTG 61.691 63.158 35.16 17.33 36.74 4.00
3665 7549 0.466372 TCATTGGTTGTCCCACGCAA 60.466 50.000 0.00 0.00 45.19 4.85
3666 7550 0.251121 ATCATTGGTTGTCCCACGCA 60.251 50.000 0.00 0.00 45.19 5.24
3667 7551 0.171007 CATCATTGGTTGTCCCACGC 59.829 55.000 0.00 0.00 45.19 5.34
3677 7561 3.470538 TCCCCCATAATTCCATCATTGGT 59.529 43.478 0.00 0.00 44.06 3.67
3680 7564 5.603813 CAGTTTCCCCCATAATTCCATCATT 59.396 40.000 0.00 0.00 0.00 2.57
3682 7566 4.016666 ACAGTTTCCCCCATAATTCCATCA 60.017 41.667 0.00 0.00 0.00 3.07
3683 7567 4.546674 ACAGTTTCCCCCATAATTCCATC 58.453 43.478 0.00 0.00 0.00 3.51
3685 7569 4.412060 AACAGTTTCCCCCATAATTCCA 57.588 40.909 0.00 0.00 0.00 3.53
3686 7570 6.609616 TGATTAACAGTTTCCCCCATAATTCC 59.390 38.462 0.00 0.00 0.00 3.01
3687 7571 7.654022 TGATTAACAGTTTCCCCCATAATTC 57.346 36.000 0.00 0.00 0.00 2.17
3694 7578 3.161866 TGCTTGATTAACAGTTTCCCCC 58.838 45.455 0.00 0.00 0.00 5.40
3700 7584 9.199982 CATTTTTCAGATGCTTGATTAACAGTT 57.800 29.630 0.00 0.00 0.00 3.16
3701 7585 8.362639 ACATTTTTCAGATGCTTGATTAACAGT 58.637 29.630 0.00 0.00 0.00 3.55
3702 7586 8.752766 ACATTTTTCAGATGCTTGATTAACAG 57.247 30.769 0.00 0.00 0.00 3.16
3765 7649 8.635765 ACTTTTTCATACACATTGTAGACCAT 57.364 30.769 0.00 0.00 36.14 3.55
3766 7650 8.349245 CAACTTTTTCATACACATTGTAGACCA 58.651 33.333 0.00 0.00 36.14 4.02


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

AutoCloner maintained by Alex Coulton.