Multiple sequence alignment - TraesCS6A01G061000

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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 TraesCS6A01G061000 chr6A 100.000 3952 0 0 1 3952 32797994 32794043 0.000000e+00 7299.0
1 TraesCS6A01G061000 chr6A 76.799 931 173 34 1308 2227 47140038 47140936 2.140000e-132 483.0
2 TraesCS6A01G061000 chr6A 86.292 445 57 3 1310 1752 32865356 32864914 7.680000e-132 481.0
3 TraesCS6A01G061000 chr6A 76.644 745 123 29 2308 3027 32821591 32820873 8.070000e-97 364.0
4 TraesCS6A01G061000 chr6A 79.310 551 80 20 3167 3702 47142291 47142822 4.860000e-94 355.0
5 TraesCS6A01G061000 chr6A 82.555 321 54 2 1861 2180 32328184 32328503 8.360000e-72 281.0
6 TraesCS6A01G061000 chr6A 77.255 510 65 28 3395 3891 46765813 46766284 6.560000e-63 252.0
7 TraesCS6A01G061000 chr6A 77.901 362 46 17 2358 2695 32328951 32329302 1.120000e-45 195.0
8 TraesCS6A01G061000 chr6A 75.403 248 49 8 1447 1688 34009725 34009966 4.180000e-20 110.0
9 TraesCS6A01G061000 chr6D 95.441 1360 47 7 1310 2666 29932720 29934067 0.000000e+00 2154.0
10 TraesCS6A01G061000 chr6D 91.818 660 43 2 3059 3707 29934654 29935313 0.000000e+00 909.0
11 TraesCS6A01G061000 chr6D 84.668 874 131 1 1310 2183 29875414 29876284 0.000000e+00 869.0
12 TraesCS6A01G061000 chr6D 94.398 357 19 1 2698 3054 29934070 29934425 7.470000e-152 547.0
13 TraesCS6A01G061000 chr6D 91.089 404 29 4 1 404 29931380 29931776 1.250000e-149 540.0
14 TraesCS6A01G061000 chr6D 79.375 640 119 9 1553 2184 31266543 31265909 4.690000e-119 438.0
15 TraesCS6A01G061000 chr6D 88.768 276 14 8 627 901 29932090 29932349 4.930000e-84 322.0
16 TraesCS6A01G061000 chr6D 94.536 183 10 0 447 629 29931779 29931961 2.320000e-72 283.0
17 TraesCS6A01G061000 chr6D 75.172 725 114 36 2306 2985 31265504 31264801 8.360000e-72 281.0
18 TraesCS6A01G061000 chr6D 81.847 314 51 5 2726 3034 30077268 30076956 3.920000e-65 259.0
19 TraesCS6A01G061000 chr6D 81.613 310 57 0 1874 2183 30078547 30078238 1.410000e-64 257.0
20 TraesCS6A01G061000 chr6D 92.800 125 5 1 910 1034 29932593 29932713 1.130000e-40 178.0
21 TraesCS6A01G061000 chr6D 95.238 42 2 0 2574 2615 27846734 27846775 2.550000e-07 67.6
22 TraesCS6A01G061000 chr6B 94.183 997 55 1 1301 2294 57726524 57725528 0.000000e+00 1517.0
23 TraesCS6A01G061000 chr6B 90.855 667 34 13 2408 3054 57725532 57724873 0.000000e+00 869.0
24 TraesCS6A01G061000 chr6B 91.496 635 47 2 1 629 57727758 57727125 0.000000e+00 867.0
25 TraesCS6A01G061000 chr6B 79.533 899 147 21 1305 2183 57452883 57453764 1.210000e-169 606.0
26 TraesCS6A01G061000 chr6B 90.869 449 29 9 3077 3523 57724646 57724208 3.400000e-165 592.0
27 TraesCS6A01G061000 chr6B 85.043 575 86 0 1310 1884 57910538 57909964 1.580000e-163 586.0
28 TraesCS6A01G061000 chr6B 76.857 929 179 28 1308 2227 81008265 81009166 3.550000e-135 492.0
29 TraesCS6A01G061000 chr6B 80.976 615 85 16 3292 3894 57902438 57901844 3.600000e-125 459.0
30 TraesCS6A01G061000 chr6B 78.243 717 113 27 3192 3891 80685415 80686105 1.700000e-113 420.0
31 TraesCS6A01G061000 chr6B 93.200 250 17 0 627 876 57727017 57726768 6.240000e-98 368.0
32 TraesCS6A01G061000 chr6B 78.519 540 88 17 2494 3025 57902973 57902454 2.940000e-86 329.0
33 TraesCS6A01G061000 chr6B 92.391 184 10 1 953 1136 57726742 57726563 3.920000e-65 259.0
34 TraesCS6A01G061000 chr6B 72.357 908 206 31 1311 2206 80207690 80208564 1.100000e-60 244.0
35 TraesCS6A01G061000 chr6B 72.357 908 206 31 1311 2206 80682826 80683700 1.100000e-60 244.0
36 TraesCS6A01G061000 chr6B 72.126 922 219 25 1311 2221 81667842 81666948 1.100000e-60 244.0
37 TraesCS6A01G061000 chr6B 77.088 419 56 22 2306 2695 56391387 56390980 5.180000e-49 206.0
38 TraesCS6A01G061000 chr6B 80.478 251 43 5 2776 3025 57453829 57454074 1.880000e-43 187.0
39 TraesCS6A01G061000 chr6B 90.123 81 8 0 3811 3891 56387855 56387775 5.400000e-19 106.0
40 TraesCS6A01G061000 chr6B 75.862 232 34 15 1447 1667 62119482 62119702 9.040000e-17 99.0
41 TraesCS6A01G061000 chr6B 91.228 57 4 1 2342 2397 56392750 56392694 4.230000e-10 76.8
42 TraesCS6A01G061000 chr6B 95.238 42 2 0 2574 2615 51733447 51733488 2.550000e-07 67.6
43 TraesCS6A01G061000 chrUn 82.282 333 52 5 2726 3053 27040717 27041047 8.360000e-72 281.0
44 TraesCS6A01G061000 chrUn 72.826 920 211 26 1311 2221 27284971 27284082 1.080000e-70 278.0
45 TraesCS6A01G061000 chrUn 87.288 118 11 2 2940 3053 27282769 27282652 8.910000e-27 132.0
46 TraesCS6A01G061000 chrUn 81.818 154 26 2 1529 1681 103309790 103309638 1.150000e-25 128.0
47 TraesCS6A01G061000 chrUn 77.246 167 27 8 1530 1686 102522186 102522021 1.960000e-13 87.9
48 TraesCS6A01G061000 chr1D 84.188 234 34 2 2804 3034 478062482 478062715 1.430000e-54 224.0


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 TraesCS6A01G061000 chr6A 32794043 32797994 3951 True 7299.000000 7299 100.000000 1 3952 1 chr6A.!!$R1 3951
1 TraesCS6A01G061000 chr6A 47140038 47142822 2784 False 419.000000 483 78.054500 1308 3702 2 chr6A.!!$F4 2394
2 TraesCS6A01G061000 chr6A 32820873 32821591 718 True 364.000000 364 76.644000 2308 3027 1 chr6A.!!$R2 719
3 TraesCS6A01G061000 chr6A 32328184 32329302 1118 False 238.000000 281 80.228000 1861 2695 2 chr6A.!!$F3 834
4 TraesCS6A01G061000 chr6D 29875414 29876284 870 False 869.000000 869 84.668000 1310 2183 1 chr6D.!!$F2 873
5 TraesCS6A01G061000 chr6D 29931380 29935313 3933 False 704.714286 2154 92.692857 1 3707 7 chr6D.!!$F3 3706
6 TraesCS6A01G061000 chr6D 31264801 31266543 1742 True 359.500000 438 77.273500 1553 2985 2 chr6D.!!$R2 1432
7 TraesCS6A01G061000 chr6D 30076956 30078547 1591 True 258.000000 259 81.730000 1874 3034 2 chr6D.!!$R1 1160
8 TraesCS6A01G061000 chr6B 57724208 57727758 3550 True 745.333333 1517 92.165667 1 3523 6 chr6B.!!$R4 3522
9 TraesCS6A01G061000 chr6B 57909964 57910538 574 True 586.000000 586 85.043000 1310 1884 1 chr6B.!!$R1 574
10 TraesCS6A01G061000 chr6B 81008265 81009166 901 False 492.000000 492 76.857000 1308 2227 1 chr6B.!!$F4 919
11 TraesCS6A01G061000 chr6B 57452883 57454074 1191 False 396.500000 606 80.005500 1305 3025 2 chr6B.!!$F5 1720
12 TraesCS6A01G061000 chr6B 57901844 57902973 1129 True 394.000000 459 79.747500 2494 3894 2 chr6B.!!$R5 1400
13 TraesCS6A01G061000 chr6B 80682826 80686105 3279 False 332.000000 420 75.300000 1311 3891 2 chr6B.!!$F6 2580
14 TraesCS6A01G061000 chr6B 80207690 80208564 874 False 244.000000 244 72.357000 1311 2206 1 chr6B.!!$F3 895
15 TraesCS6A01G061000 chr6B 81666948 81667842 894 True 244.000000 244 72.126000 1311 2221 1 chr6B.!!$R2 910
16 TraesCS6A01G061000 chrUn 27282652 27284971 2319 True 205.000000 278 80.057000 1311 3053 2 chrUn.!!$R3 1742

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
98 99 0.171231 GGTTTTCATTGCTCTCGGCC 59.829 55.0 0.0 0.0 40.92 6.13 F
1086 1460 0.394565 AAGATCCCCTCGTATGCAGC 59.605 55.0 0.0 0.0 0.00 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1296 1670 0.105593 AGGTGATGCTGTAGCCATCG 59.894 55.0 0.8 0.0 41.18 3.84 R
3070 5208 0.549902 TCATCCAGCCCAAGGAAGGA 60.550 55.0 0.0 0.0 38.93 3.36 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
32 33 0.395862 CTCGCCCCTTGAGGTCTAGA 60.396 60.000 0.00 0.00 0.00 2.43
98 99 0.171231 GGTTTTCATTGCTCTCGGCC 59.829 55.000 0.00 0.00 40.92 6.13
158 159 7.560262 TGAACTTGCACTGGTACTATCTACTAT 59.440 37.037 0.00 0.00 0.00 2.12
163 164 7.061054 TGCACTGGTACTATCTACTATCACTT 58.939 38.462 0.00 0.00 0.00 3.16
183 184 8.073467 TCACTTCAACAGTTCCCTTAAATTTT 57.927 30.769 0.00 0.00 30.92 1.82
185 186 8.603181 CACTTCAACAGTTCCCTTAAATTTTTG 58.397 33.333 0.00 0.00 30.92 2.44
194 195 9.290988 AGTTCCCTTAAATTTTTGTTTGTTTGT 57.709 25.926 0.00 0.00 0.00 2.83
306 307 1.321474 ACATGAACAGTGGTGCCTTG 58.679 50.000 0.00 0.00 0.00 3.61
313 314 1.344763 ACAGTGGTGCCTTGAGTAGTC 59.655 52.381 0.00 0.00 0.00 2.59
339 340 2.514803 GGTGACTTGTATTGCTGGGTT 58.485 47.619 0.00 0.00 0.00 4.11
395 396 8.255905 CAGCTCTCTTTCCCAAAATATTTCATT 58.744 33.333 0.10 0.00 0.00 2.57
404 405 6.822676 TCCCAAAATATTTCATTGTGCATTCC 59.177 34.615 0.10 0.00 0.00 3.01
437 438 6.386927 TGTCTCCCATTACCATCATTTCTAGT 59.613 38.462 0.00 0.00 0.00 2.57
441 442 8.742125 TCCCATTACCATCATTTCTAGTATCT 57.258 34.615 0.00 0.00 0.00 1.98
470 471 4.633175 TGTGCATTGTTCAAAGCATCATT 58.367 34.783 16.23 0.00 39.43 2.57
567 574 2.880890 GCGGCATGTATCTTCAATTCCT 59.119 45.455 0.00 0.00 0.00 3.36
585 592 1.208293 CCTGCACCTCTACCTCTTTCC 59.792 57.143 0.00 0.00 0.00 3.13
597 604 1.279271 CCTCTTTCCGTGAATCCACCT 59.721 52.381 0.00 0.00 40.12 4.00
600 607 4.564821 CCTCTTTCCGTGAATCCACCTAAA 60.565 45.833 0.00 0.00 40.12 1.85
640 778 1.480137 CACCTTCAGTTGCCACCAAAA 59.520 47.619 0.00 0.00 31.68 2.44
699 837 4.316025 TCTCTTCCCCTTTTGTAATGGG 57.684 45.455 3.93 3.93 43.68 4.00
720 858 9.628500 AATGGGTACAAACCTTATAATCTTCTC 57.372 33.333 0.00 0.00 45.95 2.87
771 909 5.627499 TTGATTTGGACCTCGAGAATTTG 57.373 39.130 15.71 0.00 0.00 2.32
829 967 4.760530 TTTCTCCCATGGATCTACACAG 57.239 45.455 15.22 0.00 0.00 3.66
831 969 1.764723 CTCCCATGGATCTACACAGCA 59.235 52.381 15.22 0.00 0.00 4.41
902 1041 3.808618 GCCCAGACTTGTCAAGAATCACT 60.809 47.826 19.53 7.23 0.00 3.41
903 1042 4.392940 CCCAGACTTGTCAAGAATCACTT 58.607 43.478 19.53 0.00 39.70 3.16
949 1323 4.961511 TCGGAGCACACGCGCTTT 62.962 61.111 5.73 0.00 44.01 3.51
986 1360 2.281070 ACCAACTGAGCACAGCCG 60.281 61.111 11.37 2.34 46.95 5.52
987 1361 3.052082 CCAACTGAGCACAGCCGG 61.052 66.667 11.37 7.98 46.95 6.13
988 1362 3.730761 CAACTGAGCACAGCCGGC 61.731 66.667 21.89 21.89 46.95 6.13
1006 1380 4.271816 CGGAGGGCGAGATGACGG 62.272 72.222 0.00 0.00 0.00 4.79
1086 1460 0.394565 AAGATCCCCTCGTATGCAGC 59.605 55.000 0.00 0.00 0.00 5.25
1121 1495 3.190849 CGACTCCGTGGCATGCAG 61.191 66.667 21.36 10.32 0.00 4.41
1142 1516 4.767255 CTTGCGCCGCCTCCTCTT 62.767 66.667 6.63 0.00 0.00 2.85
1143 1517 4.760047 TTGCGCCGCCTCCTCTTC 62.760 66.667 6.63 0.00 0.00 2.87
1146 1520 4.214327 CGCCGCCTCCTCTTCCTC 62.214 72.222 0.00 0.00 0.00 3.71
1147 1521 2.762043 GCCGCCTCCTCTTCCTCT 60.762 66.667 0.00 0.00 0.00 3.69
1148 1522 2.791868 GCCGCCTCCTCTTCCTCTC 61.792 68.421 0.00 0.00 0.00 3.20
1149 1523 2.131067 CCGCCTCCTCTTCCTCTCC 61.131 68.421 0.00 0.00 0.00 3.71
1150 1524 2.485795 CGCCTCCTCTTCCTCTCCG 61.486 68.421 0.00 0.00 0.00 4.63
1151 1525 1.076632 GCCTCCTCTTCCTCTCCGA 60.077 63.158 0.00 0.00 0.00 4.55
1152 1526 1.388837 GCCTCCTCTTCCTCTCCGAC 61.389 65.000 0.00 0.00 0.00 4.79
1153 1527 0.753848 CCTCCTCTTCCTCTCCGACC 60.754 65.000 0.00 0.00 0.00 4.79
1154 1528 0.753848 CTCCTCTTCCTCTCCGACCC 60.754 65.000 0.00 0.00 0.00 4.46
1155 1529 1.758906 CCTCTTCCTCTCCGACCCC 60.759 68.421 0.00 0.00 0.00 4.95
1156 1530 1.758906 CTCTTCCTCTCCGACCCCC 60.759 68.421 0.00 0.00 0.00 5.40
1157 1531 2.038975 CTTCCTCTCCGACCCCCA 59.961 66.667 0.00 0.00 0.00 4.96
1158 1532 1.612442 CTTCCTCTCCGACCCCCAA 60.612 63.158 0.00 0.00 0.00 4.12
1159 1533 0.983378 CTTCCTCTCCGACCCCCAAT 60.983 60.000 0.00 0.00 0.00 3.16
1160 1534 0.549169 TTCCTCTCCGACCCCCAATT 60.549 55.000 0.00 0.00 0.00 2.32
1161 1535 0.981277 TCCTCTCCGACCCCCAATTC 60.981 60.000 0.00 0.00 0.00 2.17
1162 1536 1.527370 CTCTCCGACCCCCAATTCC 59.473 63.158 0.00 0.00 0.00 3.01
1163 1537 2.189521 CTCCGACCCCCAATTCCG 59.810 66.667 0.00 0.00 0.00 4.30
1164 1538 2.284773 TCCGACCCCCAATTCCGA 60.285 61.111 0.00 0.00 0.00 4.55
1165 1539 2.124860 CCGACCCCCAATTCCGAC 60.125 66.667 0.00 0.00 0.00 4.79
1166 1540 2.510691 CGACCCCCAATTCCGACG 60.511 66.667 0.00 0.00 0.00 5.12
1167 1541 2.822701 GACCCCCAATTCCGACGC 60.823 66.667 0.00 0.00 0.00 5.19
1168 1542 3.325201 GACCCCCAATTCCGACGCT 62.325 63.158 0.00 0.00 0.00 5.07
1169 1543 2.824041 CCCCCAATTCCGACGCTG 60.824 66.667 0.00 0.00 0.00 5.18
1170 1544 3.508840 CCCCAATTCCGACGCTGC 61.509 66.667 0.00 0.00 0.00 5.25
1171 1545 2.436646 CCCAATTCCGACGCTGCT 60.437 61.111 0.00 0.00 0.00 4.24
1172 1546 2.464459 CCCAATTCCGACGCTGCTC 61.464 63.158 0.00 0.00 0.00 4.26
1173 1547 2.464459 CCAATTCCGACGCTGCTCC 61.464 63.158 0.00 0.00 0.00 4.70
1174 1548 2.125106 AATTCCGACGCTGCTCCC 60.125 61.111 0.00 0.00 0.00 4.30
1175 1549 4.514577 ATTCCGACGCTGCTCCCG 62.515 66.667 0.00 0.00 0.00 5.14
1226 1600 1.076332 GGTTTCTTCATCGACCACGG 58.924 55.000 0.00 0.00 40.21 4.94
1228 1602 1.011968 TTTCTTCATCGACCACGGCG 61.012 55.000 4.80 4.80 40.21 6.46
1229 1603 2.829043 TTCTTCATCGACCACGGCGG 62.829 60.000 13.24 0.00 40.21 6.13
1293 1667 3.456039 GACGACAACGACGACGGC 61.456 66.667 12.58 0.00 44.46 5.68
1296 1670 3.456039 GACAACGACGACGGCGAC 61.456 66.667 32.70 11.66 44.46 5.19
1323 1697 1.220206 CAGCATCACCTTCGAGCCT 59.780 57.895 0.00 0.00 0.00 4.58
1612 1995 0.460987 CAACGGGAAGCAGCCTAGAG 60.461 60.000 0.00 0.00 0.00 2.43
1983 2372 2.103941 GGAGCCAGGGAGAAGTATTGAG 59.896 54.545 0.00 0.00 0.00 3.02
2198 2607 5.428253 TCCAGGTAGCATTCATTTACACTC 58.572 41.667 0.00 0.00 0.00 3.51
2301 2726 8.820933 AGTTGTCATACTCATATCATGTTTTCG 58.179 33.333 0.00 0.00 0.00 3.46
2444 3197 5.005971 CAGTGCAGTTTTTGTTTCAAGATGG 59.994 40.000 0.00 0.00 0.00 3.51
2554 3322 6.716934 TTGGTACATTTGGAAGCTTAACAA 57.283 33.333 10.95 10.95 39.30 2.83
2716 3789 6.823689 AGTGAAAAGCTCATTTATACCGTGAT 59.176 34.615 0.00 0.00 36.14 3.06
2717 3790 7.336931 AGTGAAAAGCTCATTTATACCGTGATT 59.663 33.333 0.00 0.00 36.14 2.57
2718 3791 7.968405 GTGAAAAGCTCATTTATACCGTGATTT 59.032 33.333 0.00 0.00 36.14 2.17
2719 3792 8.519526 TGAAAAGCTCATTTATACCGTGATTTT 58.480 29.630 0.00 0.00 0.00 1.82
2720 3793 9.353999 GAAAAGCTCATTTATACCGTGATTTTT 57.646 29.630 0.00 0.00 0.00 1.94
2754 4265 4.085733 TGGGGTTCATTTCATCGTTTCAT 58.914 39.130 0.00 0.00 0.00 2.57
3040 4942 7.065324 TCTGAACTGTTTTACGAAAATGTGTCT 59.935 33.333 0.00 0.00 32.22 3.41
3054 4956 9.490663 CGAAAATGTGTCTCCTTCATTATTAAC 57.509 33.333 0.00 0.00 32.52 2.01
3070 5208 9.170890 TCATTATTAACATGACTAATCCCTCCT 57.829 33.333 0.00 0.00 0.00 3.69
3073 5211 3.715648 ACATGACTAATCCCTCCTCCT 57.284 47.619 0.00 0.00 0.00 3.69
3112 5250 5.659440 TCTCTTTTGCTTTTTGTCCTTGT 57.341 34.783 0.00 0.00 0.00 3.16
3147 5285 4.010349 ACTACCTTGCAGCCAGTTTATTC 58.990 43.478 0.00 0.00 0.00 1.75
3152 5290 1.077005 TGCAGCCAGTTTATTCCCCTT 59.923 47.619 0.00 0.00 0.00 3.95
3179 5317 2.094078 GCATATGCCTGTGCCTTTTCAA 60.094 45.455 17.26 0.00 33.71 2.69
3225 5365 5.423015 AGTGGTAGCAGAATGACATACTTG 58.577 41.667 0.00 0.00 39.69 3.16
3232 5372 5.709164 AGCAGAATGACATACTTGCTCTTTT 59.291 36.000 12.79 0.00 39.69 2.27
3314 5462 4.504858 CTGGTAGATGGTAAGGTTGTGAC 58.495 47.826 0.00 0.00 0.00 3.67
3369 5518 1.483415 GATCTGGTTACCGCCTTACCA 59.517 52.381 0.00 0.00 39.53 3.25
3384 5533 4.682050 GCCTTACCAGAGTGAAATCTCCTC 60.682 50.000 0.00 0.00 35.28 3.71
3470 5629 8.885494 TTGTACTGAAATTTCTTTTCCCATTG 57.115 30.769 18.64 0.54 42.63 2.82
3588 5760 4.943705 TCTGGCTTAACAAATCCTCATGAC 59.056 41.667 0.00 0.00 0.00 3.06
3621 5795 1.145531 TGGGCCATATATGCAGCTTGT 59.854 47.619 0.00 0.00 0.00 3.16
3643 5817 8.924511 TTGTCTGAAGATCTTAAAAAGGTCAT 57.075 30.769 8.25 0.00 41.21 3.06
3644 5818 8.553459 TGTCTGAAGATCTTAAAAAGGTCATC 57.447 34.615 8.25 1.18 41.21 2.92
3670 5844 1.672363 TGTCTGCTTGCAAACTGACTG 59.328 47.619 28.63 8.03 36.18 3.51
3702 5876 7.575414 TTGAAGTACAACAAAGGCAATTCTA 57.425 32.000 0.00 0.00 33.18 2.10
3707 5881 5.852282 ACAACAAAGGCAATTCTACACTT 57.148 34.783 0.00 0.00 0.00 3.16
3710 5888 5.186996 ACAAAGGCAATTCTACACTTGTG 57.813 39.130 0.00 0.00 0.00 3.33
3727 5905 7.158697 ACACTTGTGCTAATTCATGTACTACA 58.841 34.615 0.10 0.00 0.00 2.74
3728 5906 7.331934 ACACTTGTGCTAATTCATGTACTACAG 59.668 37.037 0.10 0.00 0.00 2.74
3729 5907 7.331934 CACTTGTGCTAATTCATGTACTACAGT 59.668 37.037 0.00 0.00 0.00 3.55
3730 5908 7.545965 ACTTGTGCTAATTCATGTACTACAGTC 59.454 37.037 0.00 0.00 0.00 3.51
3731 5909 7.170393 TGTGCTAATTCATGTACTACAGTCT 57.830 36.000 0.00 0.00 0.00 3.24
3732 5910 8.288689 TGTGCTAATTCATGTACTACAGTCTA 57.711 34.615 0.00 0.00 0.00 2.59
3733 5911 8.188799 TGTGCTAATTCATGTACTACAGTCTAC 58.811 37.037 0.00 0.00 0.00 2.59
3734 5912 7.648510 GTGCTAATTCATGTACTACAGTCTACC 59.351 40.741 0.00 0.00 0.00 3.18
3746 5924 1.604755 CAGTCTACCGCCTACTAGCAG 59.395 57.143 0.00 0.00 0.00 4.24
3768 5946 7.147976 GCAGTATTATGCTATTTTCCCCAAAG 58.852 38.462 0.00 0.00 43.07 2.77
3772 5950 7.732222 ATTATGCTATTTTCCCCAAAGTTGA 57.268 32.000 0.00 0.00 0.00 3.18
3792 5971 8.281212 AGTTGATCTGGTGATGGTAAATTTAC 57.719 34.615 18.30 18.30 32.19 2.01
3803 5982 9.931210 GTGATGGTAAATTTACTATAACTGCAC 57.069 33.333 24.75 21.62 34.72 4.57
3818 5997 9.542462 CTATAACTGCACCTAGCTAAACAAATA 57.458 33.333 0.00 0.00 45.94 1.40
3894 6074 4.362279 TGAAACTCAAACAGCTGATTTGC 58.638 39.130 23.35 13.08 37.05 3.68
3895 6075 3.375782 AACTCAAACAGCTGATTTGCC 57.624 42.857 23.35 0.00 37.05 4.52
3896 6076 1.615392 ACTCAAACAGCTGATTTGCCC 59.385 47.619 23.35 0.00 37.05 5.36
3897 6077 0.968405 TCAAACAGCTGATTTGCCCC 59.032 50.000 23.35 0.00 37.05 5.80
3898 6078 0.971386 CAAACAGCTGATTTGCCCCT 59.029 50.000 23.35 0.00 30.77 4.79
3899 6079 1.345415 CAAACAGCTGATTTGCCCCTT 59.655 47.619 23.35 0.00 30.77 3.95
3900 6080 0.971386 AACAGCTGATTTGCCCCTTG 59.029 50.000 23.35 0.00 0.00 3.61
3901 6081 0.901580 ACAGCTGATTTGCCCCTTGG 60.902 55.000 23.35 0.00 0.00 3.61
3915 6095 4.918810 CCCCTTGGCATTATCAGTAAAC 57.081 45.455 0.00 0.00 0.00 2.01
3916 6096 4.277476 CCCCTTGGCATTATCAGTAAACA 58.723 43.478 0.00 0.00 0.00 2.83
3917 6097 4.895297 CCCCTTGGCATTATCAGTAAACAT 59.105 41.667 0.00 0.00 0.00 2.71
3918 6098 5.010012 CCCCTTGGCATTATCAGTAAACATC 59.990 44.000 0.00 0.00 0.00 3.06
3919 6099 5.829924 CCCTTGGCATTATCAGTAAACATCT 59.170 40.000 0.00 0.00 0.00 2.90
3920 6100 6.238842 CCCTTGGCATTATCAGTAAACATCTG 60.239 42.308 0.00 0.00 0.00 2.90
3921 6101 6.319658 CCTTGGCATTATCAGTAAACATCTGT 59.680 38.462 0.00 0.00 34.86 3.41
3922 6102 6.682423 TGGCATTATCAGTAAACATCTGTG 57.318 37.500 0.00 0.00 34.86 3.66
3923 6103 5.589855 TGGCATTATCAGTAAACATCTGTGG 59.410 40.000 0.00 0.00 34.86 4.17
3924 6104 5.822519 GGCATTATCAGTAAACATCTGTGGA 59.177 40.000 0.00 0.00 34.86 4.02
3925 6105 6.238484 GGCATTATCAGTAAACATCTGTGGAC 60.238 42.308 0.00 0.00 34.86 4.02
3926 6106 6.510157 GCATTATCAGTAAACATCTGTGGACG 60.510 42.308 0.00 0.00 34.86 4.79
3927 6107 3.313012 TCAGTAAACATCTGTGGACGG 57.687 47.619 0.00 0.00 34.86 4.79
3928 6108 2.894765 TCAGTAAACATCTGTGGACGGA 59.105 45.455 0.00 0.00 34.86 4.69
3929 6109 2.993899 CAGTAAACATCTGTGGACGGAC 59.006 50.000 0.00 0.00 33.47 4.79
3930 6110 2.631062 AGTAAACATCTGTGGACGGACA 59.369 45.455 0.00 0.00 33.47 4.02
3931 6111 2.169832 AAACATCTGTGGACGGACAG 57.830 50.000 5.41 5.41 44.14 3.51
3932 6112 1.048601 AACATCTGTGGACGGACAGT 58.951 50.000 10.24 0.00 43.38 3.55
3933 6113 0.318441 ACATCTGTGGACGGACAGTG 59.682 55.000 10.24 10.09 43.38 3.66
3934 6114 1.016130 CATCTGTGGACGGACAGTGC 61.016 60.000 10.24 0.00 43.38 4.40
3935 6115 2.172483 ATCTGTGGACGGACAGTGCC 62.172 60.000 10.24 0.00 43.38 5.01
3936 6116 2.842462 TGTGGACGGACAGTGCCT 60.842 61.111 0.00 0.00 40.82 4.75
3937 6117 1.532078 TGTGGACGGACAGTGCCTA 60.532 57.895 0.00 0.00 40.82 3.93
3938 6118 1.215647 GTGGACGGACAGTGCCTAG 59.784 63.158 0.00 0.00 40.82 3.02
3939 6119 1.228769 TGGACGGACAGTGCCTAGT 60.229 57.895 0.00 0.00 40.82 2.57
3940 6120 1.248785 TGGACGGACAGTGCCTAGTC 61.249 60.000 0.00 0.00 40.82 2.59
3941 6121 0.966370 GGACGGACAGTGCCTAGTCT 60.966 60.000 0.00 0.00 34.89 3.24
3942 6122 0.889306 GACGGACAGTGCCTAGTCTT 59.111 55.000 0.00 0.00 35.18 3.01
3943 6123 0.889306 ACGGACAGTGCCTAGTCTTC 59.111 55.000 0.00 0.00 35.18 2.87
3944 6124 0.179161 CGGACAGTGCCTAGTCTTCG 60.179 60.000 0.00 0.00 35.18 3.79
3945 6125 0.173708 GGACAGTGCCTAGTCTTCGG 59.826 60.000 0.00 0.00 35.18 4.30
3946 6126 0.458716 GACAGTGCCTAGTCTTCGGC 60.459 60.000 6.03 6.03 46.46 5.54
3950 6130 2.413765 GCCTAGTCTTCGGCGGAG 59.586 66.667 9.46 9.46 36.45 4.63
3951 6131 2.119655 GCCTAGTCTTCGGCGGAGA 61.120 63.158 15.25 15.25 36.45 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.241530 AAGGGGCGAGTGAGTGCA 61.242 61.111 0.00 0.00 0.00 4.57
8 9 2.286523 CCTCAAGGGGCGAGTGAGT 61.287 63.158 8.52 0.00 37.64 3.41
32 33 2.232941 CACCATGGCAATTTGAGAGCTT 59.767 45.455 13.04 0.00 0.00 3.74
71 72 5.525012 CGAGAGCAATGAAAACCATGAGATA 59.475 40.000 0.00 0.00 35.24 1.98
158 159 7.654022 AAATTTAAGGGAACTGTTGAAGTGA 57.346 32.000 0.00 0.00 42.68 3.41
163 164 8.940952 CAAACAAAAATTTAAGGGAACTGTTGA 58.059 29.630 0.00 0.00 42.68 3.18
183 184 6.329496 CCTCTAGAAAAGCACAAACAAACAA 58.671 36.000 0.00 0.00 0.00 2.83
185 186 5.281727 CCCTCTAGAAAAGCACAAACAAAC 58.718 41.667 0.00 0.00 0.00 2.93
194 195 2.632537 AGGAACCCCTCTAGAAAAGCA 58.367 47.619 0.00 0.00 38.86 3.91
214 215 3.012959 AGAAGAAGGGGACATACCTCAGA 59.987 47.826 0.00 0.00 42.78 3.27
216 217 3.107601 CAGAAGAAGGGGACATACCTCA 58.892 50.000 0.00 0.00 42.78 3.86
306 307 1.836802 AGTCACCCTTCCGACTACTC 58.163 55.000 0.00 0.00 40.67 2.59
313 314 1.737793 GCAATACAAGTCACCCTTCCG 59.262 52.381 0.00 0.00 0.00 4.30
353 354 4.757594 AGAGCTGCTGAGAATTCTAGTTG 58.242 43.478 7.01 0.35 0.00 3.16
395 396 3.489355 AGACAAGATGTTGGAATGCACA 58.511 40.909 7.59 0.00 38.07 4.57
404 405 4.588899 TGGTAATGGGAGACAAGATGTTG 58.411 43.478 0.13 0.13 39.82 3.33
441 442 7.155655 TGCTTTGAACAATGCACATAATCTA 57.844 32.000 19.09 0.19 43.54 1.98
470 471 4.720046 TGGGCTGTTGCGGAATAATAATA 58.280 39.130 0.00 0.00 40.82 0.98
551 558 5.104193 AGAGGTGCAGGAATTGAAGATACAT 60.104 40.000 0.00 0.00 0.00 2.29
567 574 0.895530 CGGAAAGAGGTAGAGGTGCA 59.104 55.000 0.00 0.00 0.00 4.57
585 592 5.356751 TGATGGAAATTTAGGTGGATTCACG 59.643 40.000 0.00 0.00 44.50 4.35
597 604 8.956426 GGTGTACAAGATTCTGATGGAAATTTA 58.044 33.333 0.00 0.00 37.49 1.40
600 607 6.725364 AGGTGTACAAGATTCTGATGGAAAT 58.275 36.000 0.00 0.00 37.49 2.17
720 858 5.320723 TGCGAGCTAAAATGAATGTTAACG 58.679 37.500 0.26 0.00 0.00 3.18
771 909 9.240159 CCAACTAAAATTACCAACTGTGTTTAC 57.760 33.333 0.00 0.00 0.00 2.01
805 943 6.078456 TGTGTAGATCCATGGGAGAAATTT 57.922 37.500 13.02 0.00 34.05 1.82
902 1041 3.096092 GTGTGAATGGGGATTTAGCCAA 58.904 45.455 0.00 0.00 0.00 4.52
903 1042 2.733956 GTGTGAATGGGGATTTAGCCA 58.266 47.619 0.00 0.00 0.00 4.75
904 1043 1.676006 CGTGTGAATGGGGATTTAGCC 59.324 52.381 0.00 0.00 0.00 3.93
905 1044 1.676006 CCGTGTGAATGGGGATTTAGC 59.324 52.381 0.00 0.00 0.00 3.09
908 1047 2.302587 AACCGTGTGAATGGGGATTT 57.697 45.000 0.00 0.00 0.00 2.17
934 1308 4.389576 CCAAAGCGCGTGTGCTCC 62.390 66.667 8.43 0.00 46.60 4.70
949 1323 2.828868 GGGCTGTGAGTGTGACCA 59.171 61.111 0.00 0.00 0.00 4.02
988 1362 4.271816 CGTCATCTCGCCCTCCGG 62.272 72.222 0.00 0.00 37.59 5.14
989 1363 4.271816 CCGTCATCTCGCCCTCCG 62.272 72.222 0.00 0.00 38.61 4.63
1132 1506 2.485795 CGGAGAGGAAGAGGAGGCG 61.486 68.421 0.00 0.00 0.00 5.52
1133 1507 1.076632 TCGGAGAGGAAGAGGAGGC 60.077 63.158 0.00 0.00 0.00 4.70
1134 1508 0.753848 GGTCGGAGAGGAAGAGGAGG 60.754 65.000 0.00 0.00 36.95 4.30
1135 1509 0.753848 GGGTCGGAGAGGAAGAGGAG 60.754 65.000 0.00 0.00 36.95 3.69
1136 1510 1.306970 GGGTCGGAGAGGAAGAGGA 59.693 63.158 0.00 0.00 36.95 3.71
1137 1511 1.758906 GGGGTCGGAGAGGAAGAGG 60.759 68.421 0.00 0.00 36.95 3.69
1138 1512 1.758906 GGGGGTCGGAGAGGAAGAG 60.759 68.421 0.00 0.00 36.95 2.85
1139 1513 2.101801 TTGGGGGTCGGAGAGGAAGA 62.102 60.000 0.00 0.00 36.95 2.87
1140 1514 0.983378 ATTGGGGGTCGGAGAGGAAG 60.983 60.000 0.00 0.00 36.95 3.46
1141 1515 0.549169 AATTGGGGGTCGGAGAGGAA 60.549 55.000 0.00 0.00 36.95 3.36
1142 1516 0.981277 GAATTGGGGGTCGGAGAGGA 60.981 60.000 0.00 0.00 36.95 3.71
1143 1517 1.527370 GAATTGGGGGTCGGAGAGG 59.473 63.158 0.00 0.00 36.95 3.69
1144 1518 1.527370 GGAATTGGGGGTCGGAGAG 59.473 63.158 0.00 0.00 36.95 3.20
1145 1519 2.363975 CGGAATTGGGGGTCGGAGA 61.364 63.158 0.00 0.00 0.00 3.71
1146 1520 2.189521 CGGAATTGGGGGTCGGAG 59.810 66.667 0.00 0.00 0.00 4.63
1147 1521 2.284773 TCGGAATTGGGGGTCGGA 60.285 61.111 0.00 0.00 0.00 4.55
1148 1522 2.124860 GTCGGAATTGGGGGTCGG 60.125 66.667 0.00 0.00 0.00 4.79
1149 1523 2.510691 CGTCGGAATTGGGGGTCG 60.511 66.667 0.00 0.00 0.00 4.79
1150 1524 2.822701 GCGTCGGAATTGGGGGTC 60.823 66.667 0.00 0.00 0.00 4.46
1151 1525 3.327404 AGCGTCGGAATTGGGGGT 61.327 61.111 0.00 0.00 0.00 4.95
1152 1526 2.824041 CAGCGTCGGAATTGGGGG 60.824 66.667 0.00 0.00 0.00 5.40
1153 1527 3.508840 GCAGCGTCGGAATTGGGG 61.509 66.667 0.00 0.00 0.00 4.96
1154 1528 2.436646 AGCAGCGTCGGAATTGGG 60.437 61.111 0.00 0.00 0.00 4.12
1155 1529 2.464459 GGAGCAGCGTCGGAATTGG 61.464 63.158 0.00 0.00 0.00 3.16
1156 1530 2.464459 GGGAGCAGCGTCGGAATTG 61.464 63.158 0.00 0.00 0.00 2.32
1157 1531 2.125106 GGGAGCAGCGTCGGAATT 60.125 61.111 0.00 0.00 0.00 2.17
1158 1532 4.514577 CGGGAGCAGCGTCGGAAT 62.515 66.667 0.00 0.00 0.00 3.01
1201 1575 2.353406 GGTCGATGAAGAAACCGAGGAA 60.353 50.000 0.00 0.00 0.00 3.36
1230 1604 4.736631 TCGTCGCTGTCGCTGTCG 62.737 66.667 0.00 0.00 35.26 4.35
1231 1605 3.166630 GTCGTCGCTGTCGCTGTC 61.167 66.667 0.00 0.00 35.26 3.51
1233 1607 4.736631 TCGTCGTCGCTGTCGCTG 62.737 66.667 0.00 0.00 36.96 5.18
1234 1608 4.738345 GTCGTCGTCGCTGTCGCT 62.738 66.667 0.00 0.00 36.96 4.93
1270 1644 3.456039 GTCGTTGTCGTCGTCGCC 61.456 66.667 0.00 0.00 38.33 5.54
1271 1645 3.798776 CGTCGTTGTCGTCGTCGC 61.799 66.667 0.00 0.00 41.73 5.19
1272 1646 2.128017 TCGTCGTTGTCGTCGTCG 60.128 61.111 0.00 0.00 45.27 5.12
1273 1647 2.405212 CGTCGTCGTTGTCGTCGTC 61.405 63.158 7.05 2.04 45.27 4.20
1274 1648 2.424157 CGTCGTCGTTGTCGTCGT 60.424 61.111 7.05 0.00 45.27 4.34
1275 1649 3.154952 CCGTCGTCGTTGTCGTCG 61.155 66.667 0.71 1.62 46.06 5.12
1276 1650 3.456039 GCCGTCGTCGTTGTCGTC 61.456 66.667 0.71 0.00 38.33 4.20
1279 1653 3.456039 GTCGCCGTCGTCGTTGTC 61.456 66.667 0.71 0.00 36.96 3.18
1282 1656 4.093952 ATCGTCGCCGTCGTCGTT 62.094 61.111 5.34 0.00 44.86 3.85
1283 1657 4.806481 CATCGTCGCCGTCGTCGT 62.806 66.667 5.34 0.00 44.86 4.34
1287 1661 4.246206 TAGCCATCGTCGCCGTCG 62.246 66.667 0.00 0.00 35.01 5.12
1288 1662 2.654404 GTAGCCATCGTCGCCGTC 60.654 66.667 0.00 0.00 35.01 4.79
1289 1663 3.411418 CTGTAGCCATCGTCGCCGT 62.411 63.158 0.00 0.00 35.01 5.68
1290 1664 2.655364 CTGTAGCCATCGTCGCCG 60.655 66.667 0.00 0.00 0.00 6.46
1291 1665 2.962253 GCTGTAGCCATCGTCGCC 60.962 66.667 0.00 0.00 34.31 5.54
1292 1666 1.552348 GATGCTGTAGCCATCGTCGC 61.552 60.000 0.80 0.00 41.18 5.19
1293 1667 0.249031 TGATGCTGTAGCCATCGTCG 60.249 55.000 0.80 0.00 41.18 5.12
1294 1668 1.212616 GTGATGCTGTAGCCATCGTC 58.787 55.000 0.80 0.46 41.18 4.20
1295 1669 0.179073 GGTGATGCTGTAGCCATCGT 60.179 55.000 0.80 0.00 41.18 3.73
1296 1670 0.105593 AGGTGATGCTGTAGCCATCG 59.894 55.000 0.80 0.00 41.18 3.84
1297 1671 2.216898 GAAGGTGATGCTGTAGCCATC 58.783 52.381 0.80 5.59 41.18 3.51
1298 1672 1.473965 CGAAGGTGATGCTGTAGCCAT 60.474 52.381 0.80 0.00 41.18 4.40
1299 1673 0.108186 CGAAGGTGATGCTGTAGCCA 60.108 55.000 0.80 0.00 41.18 4.75
1303 1677 0.175760 GGCTCGAAGGTGATGCTGTA 59.824 55.000 0.00 0.00 0.00 2.74
1517 1891 0.886490 CCCGCTGATATCACCCTTGC 60.886 60.000 0.00 2.51 0.00 4.01
1983 2372 3.027974 AGTCGAAGTAACTTGTCCAGC 57.972 47.619 0.00 0.00 0.00 4.85
2198 2607 6.757897 TTAACTCTGTTTTGCCATATCCAG 57.242 37.500 0.00 0.00 0.00 3.86
2290 2715 5.920273 GTGTCCATTGAAACGAAAACATGAT 59.080 36.000 0.00 0.00 0.00 2.45
2293 2718 4.616953 GGTGTCCATTGAAACGAAAACAT 58.383 39.130 0.00 0.00 28.51 2.71
2295 2720 3.040099 CGGTGTCCATTGAAACGAAAAC 58.960 45.455 0.00 0.00 28.51 2.43
2300 2725 1.790755 TCTCGGTGTCCATTGAAACG 58.209 50.000 0.00 0.00 28.51 3.60
2301 2726 3.119849 CCAATCTCGGTGTCCATTGAAAC 60.120 47.826 0.00 0.00 0.00 2.78
2354 3083 3.058639 CAGTAGGCAAGCAAGAGTGAAAC 60.059 47.826 0.00 0.00 0.00 2.78
2444 3197 8.677300 TCTTCAACTTCAAAATGCTATGTATCC 58.323 33.333 0.00 0.00 0.00 2.59
2486 3245 6.127591 TGCAGTTGGTTCAAGCTAACTTTAAA 60.128 34.615 0.00 0.00 32.29 1.52
2628 3541 4.667573 TGTAAATTGCATACCAAGTCCCA 58.332 39.130 0.00 0.00 36.76 4.37
2686 3603 6.749118 GGTATAAATGAGCTTTTCACTTGCAG 59.251 38.462 0.00 0.00 38.99 4.41
3040 4942 9.793259 GGGATTAGTCATGTTAATAATGAAGGA 57.207 33.333 5.61 0.00 35.87 3.36
3054 4956 3.326297 GGAAGGAGGAGGGATTAGTCATG 59.674 52.174 0.00 0.00 0.00 3.07
3056 4958 2.592512 AGGAAGGAGGAGGGATTAGTCA 59.407 50.000 0.00 0.00 0.00 3.41
3057 4959 3.338110 AGGAAGGAGGAGGGATTAGTC 57.662 52.381 0.00 0.00 0.00 2.59
3070 5208 0.549902 TCATCCAGCCCAAGGAAGGA 60.550 55.000 0.00 0.00 38.93 3.36
3073 5211 1.492176 GAGATCATCCAGCCCAAGGAA 59.508 52.381 0.00 0.00 38.93 3.36
3112 5250 5.559770 TGCAAGGTAGTTGAATCTGAATGA 58.440 37.500 0.00 0.00 38.60 2.57
3147 5285 2.101917 CAGGCATATGCAAGAAAAGGGG 59.898 50.000 28.07 2.17 44.36 4.79
3152 5290 1.477700 GGCACAGGCATATGCAAGAAA 59.522 47.619 28.07 0.00 43.93 2.52
3179 5317 3.928005 ACATGACAGCATTCTCATCCT 57.072 42.857 0.00 0.00 30.68 3.24
3225 5365 2.869233 TCACAAAGCACCAAAAGAGC 57.131 45.000 0.00 0.00 0.00 4.09
3232 5372 4.527509 TCAAGTTTTTCACAAAGCACCA 57.472 36.364 0.00 0.00 0.00 4.17
3314 5462 5.648092 AGATCCTAATTTTCAGTCAAACCGG 59.352 40.000 0.00 0.00 0.00 5.28
3369 5518 7.504238 ACTCATTATACGAGGAGATTTCACTCT 59.496 37.037 0.00 0.00 37.13 3.24
3384 5533 6.645415 GGGAACATGAAGGTACTCATTATACG 59.355 42.308 0.00 0.00 38.49 3.06
3470 5629 6.894339 TTCCTTTTGGTCCATAGAAGTTTC 57.106 37.500 0.00 0.00 41.38 2.78
3621 5795 8.378565 ACAGATGACCTTTTTAAGATCTTCAGA 58.621 33.333 12.24 0.00 0.00 3.27
3643 5817 2.259266 TTGCAAGCAGACATGACAGA 57.741 45.000 0.00 0.00 0.00 3.41
3644 5818 2.292569 AGTTTGCAAGCAGACATGACAG 59.707 45.455 16.04 0.00 34.04 3.51
3670 5844 6.471198 GCCTTTGTTGTACTTCAAACAGTAAC 59.529 38.462 10.36 0.00 37.81 2.50
3702 5876 7.158697 TGTAGTACATGAATTAGCACAAGTGT 58.841 34.615 0.00 0.00 0.00 3.55
3707 5881 7.170393 AGACTGTAGTACATGAATTAGCACA 57.830 36.000 2.82 0.00 0.00 4.57
3710 5888 6.856938 CGGTAGACTGTAGTACATGAATTAGC 59.143 42.308 2.82 2.46 0.00 3.09
3727 5905 1.970092 CTGCTAGTAGGCGGTAGACT 58.030 55.000 0.00 0.00 40.27 3.24
3733 5911 3.512680 GCATAATACTGCTAGTAGGCGG 58.487 50.000 12.78 0.00 43.58 6.13
3746 5924 8.691797 TCAACTTTGGGGAAAATAGCATAATAC 58.308 33.333 0.00 0.00 0.00 1.89
3755 5933 5.480073 CACCAGATCAACTTTGGGGAAAATA 59.520 40.000 0.00 0.00 37.60 1.40
3768 5946 8.281212 AGTAAATTTACCATCACCAGATCAAC 57.719 34.615 21.92 0.00 34.19 3.18
3792 5971 7.843490 TTTGTTTAGCTAGGTGCAGTTATAG 57.157 36.000 4.27 0.00 45.94 1.31
3818 5997 9.359653 AGCTTATTAGGCATTTCATTACTCAAT 57.640 29.630 0.31 0.00 0.00 2.57
3859 6038 7.479980 TGTTTGAGTTTCAGTGTATTCAAAGG 58.520 34.615 14.21 0.00 35.83 3.11
3894 6074 4.277476 TGTTTACTGATAATGCCAAGGGG 58.723 43.478 0.00 0.00 37.18 4.79
3895 6075 5.829924 AGATGTTTACTGATAATGCCAAGGG 59.170 40.000 0.00 0.00 0.00 3.95
3896 6076 6.319658 ACAGATGTTTACTGATAATGCCAAGG 59.680 38.462 0.00 0.00 38.55 3.61
3897 6077 7.191551 CACAGATGTTTACTGATAATGCCAAG 58.808 38.462 0.00 0.00 38.55 3.61
3898 6078 6.095300 CCACAGATGTTTACTGATAATGCCAA 59.905 38.462 0.00 0.00 38.55 4.52
3899 6079 5.589855 CCACAGATGTTTACTGATAATGCCA 59.410 40.000 0.00 0.00 38.55 4.92
3900 6080 5.822519 TCCACAGATGTTTACTGATAATGCC 59.177 40.000 0.00 0.00 38.55 4.40
3901 6081 6.510157 CGTCCACAGATGTTTACTGATAATGC 60.510 42.308 0.00 0.00 38.55 3.56
3902 6082 6.018751 CCGTCCACAGATGTTTACTGATAATG 60.019 42.308 0.00 0.00 38.55 1.90
3903 6083 6.049149 CCGTCCACAGATGTTTACTGATAAT 58.951 40.000 0.00 0.00 38.55 1.28
3904 6084 5.186215 TCCGTCCACAGATGTTTACTGATAA 59.814 40.000 0.00 0.00 38.55 1.75
3905 6085 4.707934 TCCGTCCACAGATGTTTACTGATA 59.292 41.667 0.00 0.00 38.55 2.15
3906 6086 3.513912 TCCGTCCACAGATGTTTACTGAT 59.486 43.478 0.00 0.00 38.55 2.90
3907 6087 2.894765 TCCGTCCACAGATGTTTACTGA 59.105 45.455 0.00 0.00 38.55 3.41
3908 6088 2.993899 GTCCGTCCACAGATGTTTACTG 59.006 50.000 0.00 0.00 40.68 2.74
3909 6089 2.631062 TGTCCGTCCACAGATGTTTACT 59.369 45.455 0.00 0.00 0.00 2.24
3910 6090 2.993899 CTGTCCGTCCACAGATGTTTAC 59.006 50.000 1.13 0.00 45.92 2.01
3911 6091 2.631062 ACTGTCCGTCCACAGATGTTTA 59.369 45.455 12.06 0.00 45.92 2.01
3912 6092 1.416401 ACTGTCCGTCCACAGATGTTT 59.584 47.619 12.06 0.00 45.92 2.83
3913 6093 1.048601 ACTGTCCGTCCACAGATGTT 58.951 50.000 12.06 0.00 45.92 2.71
3914 6094 0.318441 CACTGTCCGTCCACAGATGT 59.682 55.000 12.06 0.00 45.92 3.06
3915 6095 1.016130 GCACTGTCCGTCCACAGATG 61.016 60.000 12.06 8.24 45.92 2.90
3916 6096 1.293498 GCACTGTCCGTCCACAGAT 59.707 57.895 12.06 0.00 45.92 2.90
3917 6097 2.734591 GCACTGTCCGTCCACAGA 59.265 61.111 12.06 0.00 45.92 3.41
3919 6099 1.532078 TAGGCACTGTCCGTCCACA 60.532 57.895 0.00 0.00 41.52 4.17
3920 6100 1.215647 CTAGGCACTGTCCGTCCAC 59.784 63.158 0.00 0.00 41.52 4.02
3921 6101 1.228769 ACTAGGCACTGTCCGTCCA 60.229 57.895 0.00 0.00 41.52 4.02
3922 6102 0.966370 AGACTAGGCACTGTCCGTCC 60.966 60.000 0.00 0.00 41.52 4.79
3923 6103 0.889306 AAGACTAGGCACTGTCCGTC 59.111 55.000 0.00 0.00 41.52 4.79
3924 6104 0.889306 GAAGACTAGGCACTGTCCGT 59.111 55.000 0.00 0.00 41.52 4.69
3925 6105 0.179161 CGAAGACTAGGCACTGTCCG 60.179 60.000 0.00 0.00 41.52 4.79
3926 6106 0.173708 CCGAAGACTAGGCACTGTCC 59.826 60.000 0.00 0.00 41.52 4.02
3927 6107 3.723554 CCGAAGACTAGGCACTGTC 57.276 57.895 0.00 0.00 41.52 3.51
3934 6114 4.237445 TCTCCGCCGAAGACTAGG 57.763 61.111 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.