Multiple sequence alignment - TraesCS1B01G365300

Loading Multiple Alignment...

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 TraesCS1B01G365300 chr1B 100.000 3079 0 0 1 3079 596249590 596246512 0.000000e+00 5686.0
1 TraesCS1B01G365300 chr1B 83.206 131 12 8 2900 3023 659727054 659726927 9.030000e-21 111.0
2 TraesCS1B01G365300 chr1D 92.652 1810 68 25 317 2097 439415964 439414191 0.000000e+00 2545.0
3 TraesCS1B01G365300 chr1D 94.551 312 15 2 1 312 439416324 439416015 5.970000e-132 481.0
4 TraesCS1B01G365300 chr1A 91.419 1818 97 25 318 2095 539322499 539324297 0.000000e+00 2438.0
5 TraesCS1B01G365300 chr1A 95.253 316 13 2 1 316 539322137 539322450 1.650000e-137 499.0
6 TraesCS1B01G365300 chr1A 92.188 64 4 1 2165 2227 11205814 11205751 4.230000e-14 89.8
7 TraesCS1B01G365300 chr1A 90.909 66 4 1 2163 2226 98517609 98517544 1.520000e-13 87.9
8 TraesCS1B01G365300 chrUn 84.452 1788 192 50 347 2098 235703232 235701495 0.000000e+00 1683.0
9 TraesCS1B01G365300 chrUn 84.340 1788 194 50 347 2098 85700450 85702187 0.000000e+00 1672.0
10 TraesCS1B01G365300 chrUn 83.399 1783 195 53 348 2079 185556473 185554741 0.000000e+00 1559.0
11 TraesCS1B01G365300 chrUn 82.866 1640 180 53 348 1936 85623816 85625405 0.000000e+00 1378.0
12 TraesCS1B01G365300 chrUn 71.563 851 170 53 2222 3054 299784925 299784129 6.830000e-37 165.0
13 TraesCS1B01G365300 chrUn 71.563 851 170 53 2222 3054 321633611 321632815 6.830000e-37 165.0
14 TraesCS1B01G365300 chrUn 78.756 193 30 8 2715 2903 11749710 11749525 5.390000e-23 119.0
15 TraesCS1B01G365300 chrUn 83.206 131 12 8 2900 3023 136330367 136330240 9.030000e-21 111.0
16 TraesCS1B01G365300 chr7A 84.109 1762 168 45 348 2079 152506528 152508207 0.000000e+00 1600.0
17 TraesCS1B01G365300 chr7A 85.275 1073 131 14 1029 2091 151874318 151875373 0.000000e+00 1081.0
18 TraesCS1B01G365300 chr7A 91.045 67 3 2 2165 2228 47699118 47699184 1.520000e-13 87.9
19 TraesCS1B01G365300 chr7D 83.695 1797 177 52 347 2095 152086351 152088079 0.000000e+00 1589.0
20 TraesCS1B01G365300 chr7D 83.011 1807 188 59 337 2094 151917603 151915867 0.000000e+00 1526.0
21 TraesCS1B01G365300 chr7D 83.026 1679 191 53 441 2094 151791977 151790368 0.000000e+00 1435.0
22 TraesCS1B01G365300 chr7D 87.892 1115 102 12 1007 2101 151770166 151769065 0.000000e+00 1280.0
23 TraesCS1B01G365300 chr7D 86.546 773 99 3 1311 2079 184574310 184573539 0.000000e+00 846.0
24 TraesCS1B01G365300 chr7D 80.105 759 76 40 410 1144 152116212 152116919 2.130000e-136 496.0
25 TraesCS1B01G365300 chr7D 94.915 59 3 0 2165 2223 579338593 579338535 3.270000e-15 93.5
26 TraesCS1B01G365300 chr7B 83.399 1783 195 53 348 2079 113627621 113625889 0.000000e+00 1559.0
27 TraesCS1B01G365300 chr7B 85.873 1260 121 33 869 2094 113922416 113923652 0.000000e+00 1288.0
28 TraesCS1B01G365300 chr7B 87.792 1114 101 14 1007 2098 113802829 113801729 0.000000e+00 1271.0
29 TraesCS1B01G365300 chr7B 87.444 1123 101 21 1007 2098 113528484 113527371 0.000000e+00 1256.0
30 TraesCS1B01G365300 chr7B 85.899 773 104 4 1311 2079 154161637 154160866 0.000000e+00 819.0
31 TraesCS1B01G365300 chr4A 89.381 565 38 8 2526 3079 674432945 674432392 0.000000e+00 691.0
32 TraesCS1B01G365300 chr4A 88.615 325 21 10 2221 2530 674433388 674433065 6.230000e-102 381.0
33 TraesCS1B01G365300 chr5B 78.667 225 31 13 2679 2899 655006545 655006334 1.930000e-27 134.0
34 TraesCS1B01G365300 chr5B 89.796 49 3 2 2098 2145 525425631 525425584 9.220000e-06 62.1
35 TraesCS1B01G365300 chr6A 78.680 197 33 9 2880 3067 531714659 531714463 4.170000e-24 122.0
36 TraesCS1B01G365300 chr6A 72.802 489 82 37 2609 3068 356111765 356112231 5.390000e-23 119.0
37 TraesCS1B01G365300 chr6A 78.351 194 31 8 2715 2903 608276296 608276109 6.980000e-22 115.0
38 TraesCS1B01G365300 chr3A 79.144 187 27 7 2719 2903 645627846 645627670 5.390000e-23 119.0
39 TraesCS1B01G365300 chr6D 78.238 193 31 8 2715 2903 305137265 305137080 2.510000e-21 113.0
40 TraesCS1B01G365300 chr6D 90.000 70 3 3 2164 2231 225939750 225939683 1.520000e-13 87.9
41 TraesCS1B01G365300 chr2B 83.206 131 12 8 2900 3023 153906308 153906435 9.030000e-21 111.0
42 TraesCS1B01G365300 chr2B 78.333 180 27 11 2885 3054 16767546 16767723 4.200000e-19 106.0
43 TraesCS1B01G365300 chr2B 93.651 63 2 1 2164 2224 49220927 49220989 3.270000e-15 93.5
44 TraesCS1B01G365300 chr3B 87.952 83 8 2 2822 2903 78551941 78551860 2.530000e-16 97.1
45 TraesCS1B01G365300 chr2D 95.082 61 3 0 2164 2224 11817908 11817848 2.530000e-16 97.1
46 TraesCS1B01G365300 chr3D 93.651 63 2 1 2157 2217 26287653 26287715 3.270000e-15 93.5
47 TraesCS1B01G365300 chr4B 92.308 65 3 1 2164 2226 340684680 340684616 1.180000e-14 91.6


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 TraesCS1B01G365300 chr1B 596246512 596249590 3078 True 5686.0 5686 100.0000 1 3079 1 chr1B.!!$R1 3078
1 TraesCS1B01G365300 chr1D 439414191 439416324 2133 True 1513.0 2545 93.6015 1 2097 2 chr1D.!!$R1 2096
2 TraesCS1B01G365300 chr1A 539322137 539324297 2160 False 1468.5 2438 93.3360 1 2095 2 chr1A.!!$F1 2094
3 TraesCS1B01G365300 chrUn 235701495 235703232 1737 True 1683.0 1683 84.4520 347 2098 1 chrUn.!!$R4 1751
4 TraesCS1B01G365300 chrUn 85700450 85702187 1737 False 1672.0 1672 84.3400 347 2098 1 chrUn.!!$F2 1751
5 TraesCS1B01G365300 chrUn 185554741 185556473 1732 True 1559.0 1559 83.3990 348 2079 1 chrUn.!!$R3 1731
6 TraesCS1B01G365300 chrUn 85623816 85625405 1589 False 1378.0 1378 82.8660 348 1936 1 chrUn.!!$F1 1588
7 TraesCS1B01G365300 chr7A 152506528 152508207 1679 False 1600.0 1600 84.1090 348 2079 1 chr7A.!!$F3 1731
8 TraesCS1B01G365300 chr7A 151874318 151875373 1055 False 1081.0 1081 85.2750 1029 2091 1 chr7A.!!$F2 1062
9 TraesCS1B01G365300 chr7D 152086351 152088079 1728 False 1589.0 1589 83.6950 347 2095 1 chr7D.!!$F1 1748
10 TraesCS1B01G365300 chr7D 151915867 151917603 1736 True 1526.0 1526 83.0110 337 2094 1 chr7D.!!$R3 1757
11 TraesCS1B01G365300 chr7D 151790368 151791977 1609 True 1435.0 1435 83.0260 441 2094 1 chr7D.!!$R2 1653
12 TraesCS1B01G365300 chr7D 151769065 151770166 1101 True 1280.0 1280 87.8920 1007 2101 1 chr7D.!!$R1 1094
13 TraesCS1B01G365300 chr7D 184573539 184574310 771 True 846.0 846 86.5460 1311 2079 1 chr7D.!!$R4 768
14 TraesCS1B01G365300 chr7D 152116212 152116919 707 False 496.0 496 80.1050 410 1144 1 chr7D.!!$F2 734
15 TraesCS1B01G365300 chr7B 113625889 113627621 1732 True 1559.0 1559 83.3990 348 2079 1 chr7B.!!$R2 1731
16 TraesCS1B01G365300 chr7B 113922416 113923652 1236 False 1288.0 1288 85.8730 869 2094 1 chr7B.!!$F1 1225
17 TraesCS1B01G365300 chr7B 113801729 113802829 1100 True 1271.0 1271 87.7920 1007 2098 1 chr7B.!!$R3 1091
18 TraesCS1B01G365300 chr7B 113527371 113528484 1113 True 1256.0 1256 87.4440 1007 2098 1 chr7B.!!$R1 1091
19 TraesCS1B01G365300 chr7B 154160866 154161637 771 True 819.0 819 85.8990 1311 2079 1 chr7B.!!$R4 768
20 TraesCS1B01G365300 chr4A 674432392 674433388 996 True 536.0 691 88.9980 2221 3079 2 chr4A.!!$R1 858

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
103 104 0.846693 GGGGCCACCTATCATTGACT 59.153 55.000 4.39 0.00 36.80 3.41 F
104 105 1.215423 GGGGCCACCTATCATTGACTT 59.785 52.381 4.39 0.00 36.80 3.01 F
1004 1168 0.685458 AATTGGCTGAGGTCCATGGC 60.685 55.000 6.96 1.78 32.92 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1005 1169 0.659957 GCAAAGACCTGATCGCCATC 59.340 55.000 0.00 0.00 0.00 3.51 R
1275 1472 1.132436 CGCACGGCACATGTAAGTG 59.868 57.895 17.81 17.81 42.37 3.16 R
2540 2919 0.391597 AACAGAACGTGATCGGTGGT 59.608 50.000 0.00 0.00 41.85 4.16 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
51 52 3.108376 AGCGGATTTAGAGAAGAAGGGT 58.892 45.455 0.00 0.00 0.00 4.34
52 53 3.519913 AGCGGATTTAGAGAAGAAGGGTT 59.480 43.478 0.00 0.00 0.00 4.11
103 104 0.846693 GGGGCCACCTATCATTGACT 59.153 55.000 4.39 0.00 36.80 3.41
104 105 1.215423 GGGGCCACCTATCATTGACTT 59.785 52.381 4.39 0.00 36.80 3.01
137 138 3.593442 AATGGGATAAAATCGGCTGGA 57.407 42.857 0.00 0.00 0.00 3.86
221 222 4.318332 TCATCGCTATGACCATCCAATTC 58.682 43.478 0.00 0.00 37.20 2.17
312 314 3.706600 AACTACCCCATCGTTTTAGCA 57.293 42.857 0.00 0.00 0.00 3.49
313 315 2.981898 ACTACCCCATCGTTTTAGCAC 58.018 47.619 0.00 0.00 0.00 4.40
315 317 2.279935 ACCCCATCGTTTTAGCACAA 57.720 45.000 0.00 0.00 0.00 3.33
316 318 2.588620 ACCCCATCGTTTTAGCACAAA 58.411 42.857 0.00 0.00 0.00 2.83
434 490 2.079925 GGAGCTTTCGACTTGAAGCAT 58.920 47.619 18.90 6.74 37.99 3.79
443 504 2.271800 GACTTGAAGCATAGTCACCCG 58.728 52.381 0.00 0.00 40.35 5.28
526 598 1.933853 CATGGCGCTACAGAAGGTTAC 59.066 52.381 7.64 0.00 0.00 2.50
614 701 3.450817 TGAAACCAGTTCAGAGACAGACA 59.549 43.478 0.00 0.00 41.47 3.41
643 738 4.707105 AGATTCATGGCATGTTACGATGA 58.293 39.130 25.62 3.10 0.00 2.92
651 753 2.769376 CATGTTACGATGAACGCCAAC 58.231 47.619 0.00 0.00 46.94 3.77
670 772 1.348250 CATGGACGATTGAACGGCG 59.652 57.895 4.80 4.80 42.77 6.46
744 857 2.537529 CGCGGTTTGCATCAGTTGATAG 60.538 50.000 0.00 0.00 46.97 2.08
761 874 2.596904 TAGCTGAGGCGGTTGTATTC 57.403 50.000 0.00 0.00 44.37 1.75
817 946 7.532571 AGAAAACAGGTTGTAACTTGTAACAC 58.467 34.615 12.06 5.90 46.75 3.32
818 947 5.473796 AACAGGTTGTAACTTGTAACACG 57.526 39.130 12.06 0.00 46.75 4.49
885 1021 5.123227 CCGGCATATGTATAAATACAGGGG 58.877 45.833 4.29 2.36 45.46 4.79
900 1037 1.523938 GGGGAGTTGCGAGGCATAC 60.524 63.158 0.00 0.00 38.76 2.39
903 1040 1.421410 GGAGTTGCGAGGCATACACG 61.421 60.000 0.00 0.00 38.76 4.49
999 1163 3.686016 TCAAAGTAATTGGCTGAGGTCC 58.314 45.455 0.00 0.00 39.62 4.46
1000 1164 3.073798 TCAAAGTAATTGGCTGAGGTCCA 59.926 43.478 0.00 0.00 39.62 4.02
1001 1165 4.019174 CAAAGTAATTGGCTGAGGTCCAT 58.981 43.478 0.00 0.00 35.27 3.41
1002 1166 3.287867 AGTAATTGGCTGAGGTCCATG 57.712 47.619 0.00 0.00 32.92 3.66
1003 1167 2.092212 AGTAATTGGCTGAGGTCCATGG 60.092 50.000 4.97 4.97 32.92 3.66
1004 1168 0.685458 AATTGGCTGAGGTCCATGGC 60.685 55.000 6.96 1.78 32.92 4.40
1005 1169 2.898920 ATTGGCTGAGGTCCATGGCG 62.899 60.000 6.96 0.00 32.92 5.69
1223 1393 0.806868 TGCTTCGTCAGGGTACGTAG 59.193 55.000 0.00 0.00 43.31 3.51
1238 1408 3.505464 ACGTAGTAACTTGCCTAGCAG 57.495 47.619 0.00 0.00 41.94 4.24
1239 1409 3.087031 ACGTAGTAACTTGCCTAGCAGA 58.913 45.455 0.00 0.00 41.94 4.26
1241 1411 4.045104 CGTAGTAACTTGCCTAGCAGATG 58.955 47.826 0.00 0.00 40.61 2.90
1242 1412 2.911484 AGTAACTTGCCTAGCAGATGC 58.089 47.619 0.00 0.00 40.61 3.91
1273 1470 5.106830 TGCTATCGATCATGTCATGAAATGC 60.107 40.000 19.55 16.05 46.21 3.56
1274 1471 5.106830 GCTATCGATCATGTCATGAAATGCA 60.107 40.000 19.55 10.02 46.21 3.96
1275 1472 4.541085 TCGATCATGTCATGAAATGCAC 57.459 40.909 19.55 14.18 46.21 4.57
1655 1871 2.581354 CTCGGCCTCAAGGACCTG 59.419 66.667 0.00 0.00 41.34 4.00
1657 1873 4.785453 CGGCCTCAAGGACCTGGC 62.785 72.222 12.07 12.07 41.34 4.85
1757 1994 3.450115 GTCGACCCGTCCCTGGAG 61.450 72.222 3.51 0.00 0.00 3.86
2065 2302 3.181476 GGAGAGATCAGGAAGAAGTGCTC 60.181 52.174 0.00 0.00 0.00 4.26
2113 2354 9.884465 GATTATTATTGAGTCAATTACACTGGC 57.116 33.333 22.90 4.12 35.54 4.85
2114 2355 5.794687 TTATTGAGTCAATTACACTGGCG 57.205 39.130 22.90 0.00 35.54 5.69
2115 2356 2.093306 TGAGTCAATTACACTGGCGG 57.907 50.000 0.00 0.00 0.00 6.13
2116 2357 1.346395 TGAGTCAATTACACTGGCGGT 59.654 47.619 0.00 0.00 0.00 5.68
2117 2358 5.631172 ATTGAGTCAATTACACTGGCGGTG 61.631 45.833 24.47 24.47 40.18 4.94
2125 2366 2.629002 CACTGGCGGTGCTAAAACT 58.371 52.632 14.46 0.00 39.22 2.66
2126 2367 0.951558 CACTGGCGGTGCTAAAACTT 59.048 50.000 14.46 0.00 39.22 2.66
2127 2368 0.951558 ACTGGCGGTGCTAAAACTTG 59.048 50.000 0.00 0.00 0.00 3.16
2128 2369 1.234821 CTGGCGGTGCTAAAACTTGA 58.765 50.000 0.00 0.00 0.00 3.02
2129 2370 1.606668 CTGGCGGTGCTAAAACTTGAA 59.393 47.619 0.00 0.00 0.00 2.69
2130 2371 1.335496 TGGCGGTGCTAAAACTTGAAC 59.665 47.619 0.00 0.00 0.00 3.18
2131 2372 1.662026 GGCGGTGCTAAAACTTGAACG 60.662 52.381 0.00 0.00 0.00 3.95
2132 2373 1.262151 GCGGTGCTAAAACTTGAACGA 59.738 47.619 0.00 0.00 0.00 3.85
2133 2374 2.661979 GCGGTGCTAAAACTTGAACGAG 60.662 50.000 0.00 0.00 0.00 4.18
2134 2375 2.798283 CGGTGCTAAAACTTGAACGAGA 59.202 45.455 0.00 0.00 0.00 4.04
2135 2376 3.362693 CGGTGCTAAAACTTGAACGAGAC 60.363 47.826 0.00 0.00 0.00 3.36
2136 2377 3.362693 GGTGCTAAAACTTGAACGAGACG 60.363 47.826 0.00 0.00 0.00 4.18
2137 2378 3.488310 GTGCTAAAACTTGAACGAGACGA 59.512 43.478 0.00 0.00 0.00 4.20
2138 2379 4.150098 GTGCTAAAACTTGAACGAGACGAT 59.850 41.667 0.00 0.00 0.00 3.73
2139 2380 4.384846 TGCTAAAACTTGAACGAGACGATC 59.615 41.667 0.00 0.00 0.00 3.69
2140 2381 4.384846 GCTAAAACTTGAACGAGACGATCA 59.615 41.667 0.00 0.00 36.92 2.92
2141 2382 4.710528 AAAACTTGAACGAGACGATCAC 57.289 40.909 3.86 0.00 38.29 3.06
2142 2383 3.644884 AACTTGAACGAGACGATCACT 57.355 42.857 3.86 0.00 38.29 3.41
2143 2384 3.644884 ACTTGAACGAGACGATCACTT 57.355 42.857 3.86 0.00 38.29 3.16
2144 2385 3.978687 ACTTGAACGAGACGATCACTTT 58.021 40.909 3.86 0.00 38.29 2.66
2145 2386 3.736252 ACTTGAACGAGACGATCACTTTG 59.264 43.478 3.86 0.00 38.29 2.77
2146 2387 3.636282 TGAACGAGACGATCACTTTGA 57.364 42.857 0.00 0.00 34.04 2.69
2147 2388 4.174411 TGAACGAGACGATCACTTTGAT 57.826 40.909 0.00 0.00 40.34 2.57
2148 2389 3.920412 TGAACGAGACGATCACTTTGATG 59.080 43.478 0.00 0.00 37.20 3.07
2149 2390 2.263077 ACGAGACGATCACTTTGATGC 58.737 47.619 0.00 0.00 37.20 3.91
2150 2391 2.094494 ACGAGACGATCACTTTGATGCT 60.094 45.455 0.00 0.00 37.20 3.79
2151 2392 3.128764 ACGAGACGATCACTTTGATGCTA 59.871 43.478 0.00 0.00 37.20 3.49
2152 2393 4.202060 ACGAGACGATCACTTTGATGCTAT 60.202 41.667 0.00 0.00 37.20 2.97
2153 2394 5.008712 ACGAGACGATCACTTTGATGCTATA 59.991 40.000 0.00 0.00 37.20 1.31
2154 2395 5.915196 CGAGACGATCACTTTGATGCTATAA 59.085 40.000 0.00 0.00 37.20 0.98
2155 2396 6.087423 CGAGACGATCACTTTGATGCTATAAG 59.913 42.308 0.00 0.00 37.20 1.73
2156 2397 6.810911 AGACGATCACTTTGATGCTATAAGT 58.189 36.000 0.00 0.00 37.20 2.24
2157 2398 7.268586 AGACGATCACTTTGATGCTATAAGTT 58.731 34.615 0.00 0.00 37.20 2.66
2158 2399 7.223582 AGACGATCACTTTGATGCTATAAGTTG 59.776 37.037 0.00 0.00 37.20 3.16
2159 2400 6.818644 ACGATCACTTTGATGCTATAAGTTGT 59.181 34.615 0.00 0.00 37.20 3.32
2160 2401 7.121911 CGATCACTTTGATGCTATAAGTTGTG 58.878 38.462 0.00 0.00 37.20 3.33
2161 2402 7.010460 CGATCACTTTGATGCTATAAGTTGTGA 59.990 37.037 0.00 0.00 37.20 3.58
2162 2403 8.743085 ATCACTTTGATGCTATAAGTTGTGAT 57.257 30.769 0.00 0.00 35.43 3.06
2163 2404 7.977904 TCACTTTGATGCTATAAGTTGTGATG 58.022 34.615 0.00 0.00 30.08 3.07
2164 2405 7.607607 TCACTTTGATGCTATAAGTTGTGATGT 59.392 33.333 0.00 0.00 30.08 3.06
2165 2406 8.882736 CACTTTGATGCTATAAGTTGTGATGTA 58.117 33.333 0.00 0.00 30.08 2.29
2166 2407 8.883731 ACTTTGATGCTATAAGTTGTGATGTAC 58.116 33.333 0.00 0.00 0.00 2.90
2167 2408 9.102757 CTTTGATGCTATAAGTTGTGATGTACT 57.897 33.333 0.00 0.00 0.00 2.73
2168 2409 8.648557 TTGATGCTATAAGTTGTGATGTACTC 57.351 34.615 0.00 0.00 0.00 2.59
2169 2410 7.210174 TGATGCTATAAGTTGTGATGTACTCC 58.790 38.462 0.00 0.00 0.00 3.85
2170 2411 5.914033 TGCTATAAGTTGTGATGTACTCCC 58.086 41.667 0.00 0.00 0.00 4.30
2171 2412 5.661312 TGCTATAAGTTGTGATGTACTCCCT 59.339 40.000 0.00 0.00 0.00 4.20
2172 2413 6.183360 TGCTATAAGTTGTGATGTACTCCCTC 60.183 42.308 0.00 0.00 0.00 4.30
2173 2414 3.983044 AAGTTGTGATGTACTCCCTCC 57.017 47.619 0.00 0.00 0.00 4.30
2174 2415 1.825474 AGTTGTGATGTACTCCCTCCG 59.175 52.381 0.00 0.00 0.00 4.63
2175 2416 1.549170 GTTGTGATGTACTCCCTCCGT 59.451 52.381 0.00 0.00 0.00 4.69
2176 2417 1.933021 TGTGATGTACTCCCTCCGTT 58.067 50.000 0.00 0.00 0.00 4.44
2177 2418 1.822990 TGTGATGTACTCCCTCCGTTC 59.177 52.381 0.00 0.00 0.00 3.95
2178 2419 1.136500 GTGATGTACTCCCTCCGTTCC 59.864 57.143 0.00 0.00 0.00 3.62
2179 2420 1.272816 TGATGTACTCCCTCCGTTCCA 60.273 52.381 0.00 0.00 0.00 3.53
2180 2421 1.829222 GATGTACTCCCTCCGTTCCAA 59.171 52.381 0.00 0.00 0.00 3.53
2181 2422 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
2182 2423 2.262637 TGTACTCCCTCCGTTCCAAAT 58.737 47.619 0.00 0.00 0.00 2.32
2183 2424 2.640826 TGTACTCCCTCCGTTCCAAATT 59.359 45.455 0.00 0.00 0.00 1.82
2184 2425 3.839490 TGTACTCCCTCCGTTCCAAATTA 59.161 43.478 0.00 0.00 0.00 1.40
2185 2426 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2186 2427 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2187 2428 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2188 2429 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2189 2430 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2190 2431 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
2191 2432 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2192 2433 2.030007 TCCGTTCCAAATTACTCGTCGT 60.030 45.455 0.00 0.00 0.00 4.34
2193 2434 2.091588 CCGTTCCAAATTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
2194 2435 2.091588 CGTTCCAAATTACTCGTCGTGG 59.908 50.000 0.00 0.00 0.00 4.94
2195 2436 3.062042 GTTCCAAATTACTCGTCGTGGT 58.938 45.455 0.00 0.00 0.00 4.16
2196 2437 3.389925 TCCAAATTACTCGTCGTGGTT 57.610 42.857 0.00 0.00 0.00 3.67
2197 2438 3.731089 TCCAAATTACTCGTCGTGGTTT 58.269 40.909 0.00 0.00 0.00 3.27
2198 2439 4.128643 TCCAAATTACTCGTCGTGGTTTT 58.871 39.130 0.00 0.00 0.00 2.43
2199 2440 5.295950 TCCAAATTACTCGTCGTGGTTTTA 58.704 37.500 0.00 0.00 0.00 1.52
2200 2441 5.406175 TCCAAATTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
2201 2442 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
2202 2443 6.293027 CCAAATTACTCGTCGTGGTTTTAGTT 60.293 38.462 0.00 0.00 0.00 2.24
2203 2444 6.457851 AATTACTCGTCGTGGTTTTAGTTC 57.542 37.500 0.00 0.00 0.00 3.01
2204 2445 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
2205 2446 3.986277 ACTCGTCGTGGTTTTAGTTCAT 58.014 40.909 0.00 0.00 0.00 2.57
2206 2447 4.374399 ACTCGTCGTGGTTTTAGTTCATT 58.626 39.130 0.00 0.00 0.00 2.57
2207 2448 4.812626 ACTCGTCGTGGTTTTAGTTCATTT 59.187 37.500 0.00 0.00 0.00 2.32
2208 2449 5.085636 TCGTCGTGGTTTTAGTTCATTTG 57.914 39.130 0.00 0.00 0.00 2.32
2209 2450 4.024725 TCGTCGTGGTTTTAGTTCATTTGG 60.025 41.667 0.00 0.00 0.00 3.28
2210 2451 4.024725 CGTCGTGGTTTTAGTTCATTTGGA 60.025 41.667 0.00 0.00 0.00 3.53
2211 2452 5.504337 CGTCGTGGTTTTAGTTCATTTGGAA 60.504 40.000 0.00 0.00 0.00 3.53
2226 2467 6.001460 TCATTTGGAACGGAGAAAGTACATT 58.999 36.000 0.00 0.00 0.00 2.71
2230 2471 7.429636 TTGGAACGGAGAAAGTACATTAAAG 57.570 36.000 0.00 0.00 0.00 1.85
2250 2491 3.356290 AGTGGTGCAGAAACTTGACTTT 58.644 40.909 0.00 0.00 0.00 2.66
2257 2498 3.181510 GCAGAAACTTGACTTTGACGTGT 60.182 43.478 0.00 0.00 0.00 4.49
2265 2506 7.173863 ACTTGACTTTGACGTGTAAATACAG 57.826 36.000 0.00 0.00 36.78 2.74
2269 2510 4.084745 ACTTTGACGTGTAAATACAGTGCG 60.085 41.667 0.00 0.00 36.78 5.34
2275 2516 5.404946 ACGTGTAAATACAGTGCGTATCTT 58.595 37.500 6.08 0.00 40.04 2.40
2276 2517 6.554419 ACGTGTAAATACAGTGCGTATCTTA 58.446 36.000 6.08 0.00 40.04 2.10
2311 2553 2.501128 GCTGACTAGGCGCATGGA 59.499 61.111 13.72 0.00 0.00 3.41
2315 2557 1.300542 GACTAGGCGCATGGAGCTC 60.301 63.158 13.72 4.71 42.61 4.09
2371 2613 6.166984 TGTGGCCTGATTTTTATGAAAACA 57.833 33.333 3.32 0.00 37.56 2.83
2377 2619 6.518200 GCCTGATTTTTATGAAAACACCCTCA 60.518 38.462 0.00 0.00 37.56 3.86
2454 2699 1.926108 GACTAGTGAGTCCCACCTGT 58.074 55.000 0.00 0.00 45.61 4.00
2456 2701 1.147191 ACTAGTGAGTCCCACCTGTCA 59.853 52.381 0.00 0.00 46.87 3.58
2469 2723 2.028294 CACCTGTCAGAAGAGAGTGCAT 60.028 50.000 0.00 0.00 33.49 3.96
2482 2736 5.978814 AGAGAGTGCATACTAAACGGAAAT 58.021 37.500 0.00 0.00 37.25 2.17
2508 2762 0.723414 CGCTACGTCTCTAACCACGA 59.277 55.000 0.00 0.00 39.38 4.35
2511 2765 1.399791 CTACGTCTCTAACCACGACCC 59.600 57.143 0.00 0.00 39.38 4.46
2529 2908 2.706190 ACCCACACCTAGCAAGATATCC 59.294 50.000 0.00 0.00 0.00 2.59
2556 2935 1.374252 GCACCACCGATCACGTTCT 60.374 57.895 0.00 0.00 37.88 3.01
2560 2939 1.202604 ACCACCGATCACGTTCTGTTT 60.203 47.619 0.00 0.00 37.88 2.83
2561 2940 2.036217 ACCACCGATCACGTTCTGTTTA 59.964 45.455 0.00 0.00 37.88 2.01
2562 2941 3.259064 CCACCGATCACGTTCTGTTTAT 58.741 45.455 0.00 0.00 37.88 1.40
2563 2942 4.082081 ACCACCGATCACGTTCTGTTTATA 60.082 41.667 0.00 0.00 37.88 0.98
2564 2943 4.865925 CCACCGATCACGTTCTGTTTATAA 59.134 41.667 0.00 0.00 37.88 0.98
2606 2985 8.554490 ACATTTTATGTATCTGACCTAGGAGT 57.446 34.615 17.98 0.00 42.78 3.85
2607 2986 9.656323 ACATTTTATGTATCTGACCTAGGAGTA 57.344 33.333 17.98 0.00 42.78 2.59
2627 3006 5.186198 AGTACATGTGGAGCTTAAATGGAC 58.814 41.667 9.11 8.66 33.12 4.02
2649 3028 2.143925 GTAGATAGTGCGGCCCATTTC 58.856 52.381 0.00 0.00 0.00 2.17
2660 3039 1.501741 CCCATTTCGCACCTGTTCG 59.498 57.895 0.00 0.00 0.00 3.95
2668 3047 2.129607 TCGCACCTGTTCGTTTTCTAC 58.870 47.619 0.00 0.00 0.00 2.59
2676 3055 7.593644 GCACCTGTTCGTTTTCTACATTTATTT 59.406 33.333 0.00 0.00 0.00 1.40
2763 3142 9.478019 CAGACGATTATGAGTAAACAAAACATC 57.522 33.333 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 2.524306 CCCCACATGCCTTTCACTTAA 58.476 47.619 0.00 0.00 0.00 1.85
52 53 1.890573 GCCCCACATGCCTTTCACTTA 60.891 52.381 0.00 0.00 0.00 2.24
76 77 0.033109 ATAGGTGGCCCCTCTTTTGC 60.033 55.000 15.32 0.00 44.81 3.68
103 104 2.956132 TCCCATTTCCAAGCAAGTCAA 58.044 42.857 0.00 0.00 0.00 3.18
104 105 2.673775 TCCCATTTCCAAGCAAGTCA 57.326 45.000 0.00 0.00 0.00 3.41
137 138 0.038599 TGCCATCAACTGCACTGGAT 59.961 50.000 0.00 0.00 31.31 3.41
267 269 4.743151 TGATCCTAAATAAACTAGTGCGCG 59.257 41.667 0.00 0.00 0.00 6.86
312 314 4.665212 CGAGCAATGCTGTTCATATTTGT 58.335 39.130 14.48 0.00 39.88 2.83
313 315 3.484649 GCGAGCAATGCTGTTCATATTTG 59.515 43.478 14.48 0.00 39.88 2.32
315 317 2.286595 CGCGAGCAATGCTGTTCATATT 60.287 45.455 14.48 0.00 39.88 1.28
316 318 1.262417 CGCGAGCAATGCTGTTCATAT 59.738 47.619 14.48 0.00 39.88 1.78
434 490 2.614481 GCAGAATTTCCACGGGTGACTA 60.614 50.000 0.00 0.00 0.00 2.59
443 504 9.202273 CTAATACTATCTCTGCAGAATTTCCAC 57.798 37.037 18.85 0.00 30.24 4.02
526 598 9.911788 AAGATATAATATGCACCAAGGGAATAG 57.088 33.333 0.00 0.00 0.00 1.73
570 650 4.943705 CAGCGGATTGTAGGGCAATTATAT 59.056 41.667 0.00 0.00 46.90 0.86
583 663 1.880027 GAACTGGTTTCAGCGGATTGT 59.120 47.619 0.00 0.00 44.59 2.71
614 701 7.445096 TCGTAACATGCCATGAATCTATCATTT 59.555 33.333 12.53 0.00 46.85 2.32
643 738 0.608035 AATCGTCCATGGTTGGCGTT 60.608 50.000 12.58 5.27 43.29 4.84
651 753 1.721487 GCCGTTCAATCGTCCATGG 59.279 57.895 4.97 4.97 0.00 3.66
670 772 3.245519 GGAAGAAAATAGATGTCGCCGAC 59.754 47.826 10.96 10.96 0.00 4.79
703 812 2.346803 GGCTGAGCGAACAAGTCAATA 58.653 47.619 0.00 0.00 0.00 1.90
717 826 3.386867 GATGCAAACCGCGGCTGAG 62.387 63.158 28.58 14.30 46.97 3.35
744 857 1.009829 CTGAATACAACCGCCTCAGC 58.990 55.000 0.00 0.00 0.00 4.26
761 874 3.534554 TGCATGTGCTAACTACCATCTG 58.465 45.455 6.55 0.00 42.66 2.90
817 946 0.583811 CATGCATGTCAACGTACGCG 60.584 55.000 18.91 3.53 44.93 6.01
818 947 0.857311 GCATGCATGTCAACGTACGC 60.857 55.000 26.79 5.57 0.00 4.42
885 1021 1.999051 CGTGTATGCCTCGCAACTC 59.001 57.895 0.00 0.00 43.62 3.01
900 1037 0.459411 TATGTCGATGGTGGTGCGTG 60.459 55.000 0.00 0.00 0.00 5.34
903 1040 2.533266 ATCTATGTCGATGGTGGTGC 57.467 50.000 0.00 0.00 0.00 5.01
970 1133 6.554419 TCAGCCAATTACTTTGATCGAATTG 58.446 36.000 0.00 3.48 37.53 2.32
980 1143 3.806949 TGGACCTCAGCCAATTACTTT 57.193 42.857 0.00 0.00 31.13 2.66
981 1144 3.624777 CATGGACCTCAGCCAATTACTT 58.375 45.455 0.00 0.00 39.21 2.24
982 1145 2.092212 CCATGGACCTCAGCCAATTACT 60.092 50.000 5.56 0.00 39.21 2.24
999 1163 2.322830 CCTGATCGCCATCGCCATG 61.323 63.158 0.00 0.00 35.26 3.66
1000 1164 2.031616 CCTGATCGCCATCGCCAT 59.968 61.111 0.00 0.00 35.26 4.40
1001 1165 3.445518 GACCTGATCGCCATCGCCA 62.446 63.158 0.00 0.00 35.26 5.69
1002 1166 2.650813 AAGACCTGATCGCCATCGCC 62.651 60.000 0.00 0.00 35.26 5.54
1003 1167 0.811616 AAAGACCTGATCGCCATCGC 60.812 55.000 0.00 0.00 35.26 4.58
1004 1168 0.933097 CAAAGACCTGATCGCCATCG 59.067 55.000 0.00 0.00 0.00 3.84
1005 1169 0.659957 GCAAAGACCTGATCGCCATC 59.340 55.000 0.00 0.00 0.00 3.51
1237 1407 3.949842 TCGATAGCATTAGCAGCATCT 57.050 42.857 0.00 0.00 45.49 2.90
1238 1408 4.179298 TGATCGATAGCATTAGCAGCATC 58.821 43.478 0.00 0.00 45.49 3.91
1239 1409 4.198028 TGATCGATAGCATTAGCAGCAT 57.802 40.909 0.00 0.00 45.49 3.79
1241 1411 3.931468 ACATGATCGATAGCATTAGCAGC 59.069 43.478 0.00 0.00 45.49 5.25
1242 1412 5.166398 TGACATGATCGATAGCATTAGCAG 58.834 41.667 0.00 0.00 45.49 4.24
1244 1441 5.809051 TCATGACATGATCGATAGCATTAGC 59.191 40.000 14.24 0.00 36.09 3.09
1247 1444 7.527457 CATTTCATGACATGATCGATAGCATT 58.473 34.615 18.62 0.00 39.39 3.56
1248 1445 6.403309 GCATTTCATGACATGATCGATAGCAT 60.403 38.462 23.00 0.00 39.39 3.79
1274 1471 1.565156 CGCACGGCACATGTAAGTGT 61.565 55.000 20.95 7.56 41.52 3.55
1275 1472 1.132436 CGCACGGCACATGTAAGTG 59.868 57.895 17.81 17.81 42.37 3.16
1418 1634 3.066814 GCCTCCAGCTTGGCCTTG 61.067 66.667 3.32 0.00 43.11 3.61
1936 2173 3.323136 CGATGCGCTGGACGTAGC 61.323 66.667 9.73 0.00 46.11 3.58
2065 2302 2.159382 ACAAACACTAATTGAGGGCGG 58.841 47.619 0.00 0.00 27.73 6.13
2097 2338 1.732259 CACCGCCAGTGTAATTGACTC 59.268 52.381 0.00 0.00 41.93 3.36
2108 2349 0.951558 CAAGTTTTAGCACCGCCAGT 59.048 50.000 0.00 0.00 0.00 4.00
2109 2350 1.234821 TCAAGTTTTAGCACCGCCAG 58.765 50.000 0.00 0.00 0.00 4.85
2110 2351 1.335496 GTTCAAGTTTTAGCACCGCCA 59.665 47.619 0.00 0.00 0.00 5.69
2111 2352 1.662026 CGTTCAAGTTTTAGCACCGCC 60.662 52.381 0.00 0.00 0.00 6.13
2112 2353 1.262151 TCGTTCAAGTTTTAGCACCGC 59.738 47.619 0.00 0.00 0.00 5.68
2113 2354 2.798283 TCTCGTTCAAGTTTTAGCACCG 59.202 45.455 0.00 0.00 0.00 4.94
2114 2355 3.362693 CGTCTCGTTCAAGTTTTAGCACC 60.363 47.826 0.00 0.00 0.00 5.01
2115 2356 3.488310 TCGTCTCGTTCAAGTTTTAGCAC 59.512 43.478 0.00 0.00 0.00 4.40
2116 2357 3.708890 TCGTCTCGTTCAAGTTTTAGCA 58.291 40.909 0.00 0.00 0.00 3.49
2117 2358 4.384846 TGATCGTCTCGTTCAAGTTTTAGC 59.615 41.667 1.33 0.00 33.56 3.09
2118 2359 5.629849 AGTGATCGTCTCGTTCAAGTTTTAG 59.370 40.000 4.83 0.00 37.33 1.85
2119 2360 5.526115 AGTGATCGTCTCGTTCAAGTTTTA 58.474 37.500 4.83 0.00 37.33 1.52
2120 2361 4.369182 AGTGATCGTCTCGTTCAAGTTTT 58.631 39.130 4.83 0.00 37.33 2.43
2121 2362 3.978687 AGTGATCGTCTCGTTCAAGTTT 58.021 40.909 4.83 0.00 37.33 2.66
2122 2363 3.644884 AGTGATCGTCTCGTTCAAGTT 57.355 42.857 4.83 0.00 37.33 2.66
2123 2364 3.644884 AAGTGATCGTCTCGTTCAAGT 57.355 42.857 4.83 0.00 37.33 3.16
2124 2365 3.981416 TCAAAGTGATCGTCTCGTTCAAG 59.019 43.478 4.83 0.00 37.33 3.02
2125 2366 3.972403 TCAAAGTGATCGTCTCGTTCAA 58.028 40.909 4.83 0.00 37.33 2.69
2126 2367 3.636282 TCAAAGTGATCGTCTCGTTCA 57.364 42.857 0.00 0.00 33.98 3.18
2127 2368 3.241804 GCATCAAAGTGATCGTCTCGTTC 60.242 47.826 0.00 0.00 34.28 3.95
2128 2369 2.668457 GCATCAAAGTGATCGTCTCGTT 59.332 45.455 0.00 0.00 34.28 3.85
2129 2370 2.094494 AGCATCAAAGTGATCGTCTCGT 60.094 45.455 0.00 0.00 34.28 4.18
2130 2371 2.534298 AGCATCAAAGTGATCGTCTCG 58.466 47.619 0.00 0.00 34.28 4.04
2131 2372 6.920758 ACTTATAGCATCAAAGTGATCGTCTC 59.079 38.462 0.00 0.00 34.28 3.36
2132 2373 6.810911 ACTTATAGCATCAAAGTGATCGTCT 58.189 36.000 0.00 0.00 34.28 4.18
2133 2374 7.010552 ACAACTTATAGCATCAAAGTGATCGTC 59.989 37.037 0.00 0.00 34.28 4.20
2134 2375 6.818644 ACAACTTATAGCATCAAAGTGATCGT 59.181 34.615 0.00 0.00 34.28 3.73
2135 2376 7.010460 TCACAACTTATAGCATCAAAGTGATCG 59.990 37.037 0.00 0.00 34.28 3.69
2136 2377 8.201554 TCACAACTTATAGCATCAAAGTGATC 57.798 34.615 0.00 0.00 34.28 2.92
2137 2378 8.618677 CATCACAACTTATAGCATCAAAGTGAT 58.381 33.333 0.00 0.00 41.92 3.06
2138 2379 7.607607 ACATCACAACTTATAGCATCAAAGTGA 59.392 33.333 0.00 0.00 36.80 3.41
2139 2380 7.755591 ACATCACAACTTATAGCATCAAAGTG 58.244 34.615 0.00 0.00 33.85 3.16
2140 2381 7.928307 ACATCACAACTTATAGCATCAAAGT 57.072 32.000 0.00 0.00 35.01 2.66
2141 2382 9.102757 AGTACATCACAACTTATAGCATCAAAG 57.897 33.333 0.00 0.00 0.00 2.77
2142 2383 9.098355 GAGTACATCACAACTTATAGCATCAAA 57.902 33.333 0.00 0.00 0.00 2.69
2143 2384 7.710907 GGAGTACATCACAACTTATAGCATCAA 59.289 37.037 0.00 0.00 0.00 2.57
2144 2385 7.210174 GGAGTACATCACAACTTATAGCATCA 58.790 38.462 0.00 0.00 0.00 3.07
2145 2386 6.647067 GGGAGTACATCACAACTTATAGCATC 59.353 42.308 0.00 0.00 0.00 3.91
2146 2387 6.327626 AGGGAGTACATCACAACTTATAGCAT 59.672 38.462 0.00 0.00 31.63 3.79
2147 2388 5.661312 AGGGAGTACATCACAACTTATAGCA 59.339 40.000 0.00 0.00 31.63 3.49
2148 2389 6.163135 AGGGAGTACATCACAACTTATAGC 57.837 41.667 0.00 0.00 31.63 2.97
2149 2390 6.515200 CGGAGGGAGTACATCACAACTTATAG 60.515 46.154 0.00 0.00 31.63 1.31
2150 2391 5.301045 CGGAGGGAGTACATCACAACTTATA 59.699 44.000 0.00 0.00 31.63 0.98
2151 2392 4.099573 CGGAGGGAGTACATCACAACTTAT 59.900 45.833 0.00 0.00 31.63 1.73
2152 2393 3.446161 CGGAGGGAGTACATCACAACTTA 59.554 47.826 0.00 0.00 31.63 2.24
2153 2394 2.233922 CGGAGGGAGTACATCACAACTT 59.766 50.000 0.00 0.00 31.63 2.66
2154 2395 1.825474 CGGAGGGAGTACATCACAACT 59.175 52.381 0.00 0.00 31.63 3.16
2155 2396 1.549170 ACGGAGGGAGTACATCACAAC 59.451 52.381 0.00 0.00 31.63 3.32
2156 2397 1.933021 ACGGAGGGAGTACATCACAA 58.067 50.000 0.00 0.00 31.63 3.33
2157 2398 1.822990 GAACGGAGGGAGTACATCACA 59.177 52.381 0.00 0.00 31.63 3.58
2158 2399 1.136500 GGAACGGAGGGAGTACATCAC 59.864 57.143 0.00 0.00 0.00 3.06
2159 2400 1.272816 TGGAACGGAGGGAGTACATCA 60.273 52.381 0.00 0.00 0.00 3.07
2160 2401 1.481871 TGGAACGGAGGGAGTACATC 58.518 55.000 0.00 0.00 0.00 3.06
2161 2402 1.946984 TTGGAACGGAGGGAGTACAT 58.053 50.000 0.00 0.00 0.00 2.29
2162 2403 1.719529 TTTGGAACGGAGGGAGTACA 58.280 50.000 0.00 0.00 0.00 2.90
2163 2404 3.345508 AATTTGGAACGGAGGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
2164 2405 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
2165 2406 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
2166 2407 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
2167 2408 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
2168 2409 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2169 2410 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2170 2411 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
2171 2412 2.030007 ACGACGAGTAATTTGGAACGGA 60.030 45.455 0.00 0.00 0.00 4.69
2172 2413 2.091588 CACGACGAGTAATTTGGAACGG 59.908 50.000 0.00 0.00 0.00 4.44
2173 2414 2.091588 CCACGACGAGTAATTTGGAACG 59.908 50.000 0.00 0.00 0.00 3.95
2174 2415 3.062042 ACCACGACGAGTAATTTGGAAC 58.938 45.455 0.00 0.00 0.00 3.62
2175 2416 3.389925 ACCACGACGAGTAATTTGGAA 57.610 42.857 0.00 0.00 0.00 3.53
2176 2417 3.389925 AACCACGACGAGTAATTTGGA 57.610 42.857 0.00 0.00 0.00 3.53
2177 2418 4.477302 AAAACCACGACGAGTAATTTGG 57.523 40.909 0.00 0.00 0.00 3.28
2178 2419 6.219302 ACTAAAACCACGACGAGTAATTTG 57.781 37.500 0.00 2.39 0.00 2.32
2179 2420 6.479660 TGAACTAAAACCACGACGAGTAATTT 59.520 34.615 0.00 0.34 0.00 1.82
2180 2421 5.984926 TGAACTAAAACCACGACGAGTAATT 59.015 36.000 0.00 1.08 0.00 1.40
2181 2422 5.531634 TGAACTAAAACCACGACGAGTAAT 58.468 37.500 0.00 0.00 0.00 1.89
2182 2423 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
2183 2424 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
2184 2425 3.441496 TGAACTAAAACCACGACGAGT 57.559 42.857 0.00 0.00 0.00 4.18
2185 2426 4.985044 AATGAACTAAAACCACGACGAG 57.015 40.909 0.00 0.00 0.00 4.18
2186 2427 4.024725 CCAAATGAACTAAAACCACGACGA 60.025 41.667 0.00 0.00 0.00 4.20
2187 2428 4.024725 TCCAAATGAACTAAAACCACGACG 60.025 41.667 0.00 0.00 0.00 5.12
2188 2429 5.427036 TCCAAATGAACTAAAACCACGAC 57.573 39.130 0.00 0.00 0.00 4.34
2201 2442 5.369833 TGTACTTTCTCCGTTCCAAATGAA 58.630 37.500 0.00 0.00 0.00 2.57
2202 2443 4.963373 TGTACTTTCTCCGTTCCAAATGA 58.037 39.130 0.00 0.00 0.00 2.57
2203 2444 5.880054 ATGTACTTTCTCCGTTCCAAATG 57.120 39.130 0.00 0.00 0.00 2.32
2204 2445 7.989416 TTAATGTACTTTCTCCGTTCCAAAT 57.011 32.000 0.00 0.00 0.00 2.32
2205 2446 7.499895 ACTTTAATGTACTTTCTCCGTTCCAAA 59.500 33.333 0.00 0.00 0.00 3.28
2206 2447 6.993902 ACTTTAATGTACTTTCTCCGTTCCAA 59.006 34.615 0.00 0.00 0.00 3.53
2207 2448 6.425721 CACTTTAATGTACTTTCTCCGTTCCA 59.574 38.462 0.00 0.00 0.00 3.53
2208 2449 6.128363 CCACTTTAATGTACTTTCTCCGTTCC 60.128 42.308 0.00 0.00 0.00 3.62
2209 2450 6.426025 ACCACTTTAATGTACTTTCTCCGTTC 59.574 38.462 0.00 0.00 0.00 3.95
2210 2451 6.204108 CACCACTTTAATGTACTTTCTCCGTT 59.796 38.462 0.00 0.00 0.00 4.44
2211 2452 5.699458 CACCACTTTAATGTACTTTCTCCGT 59.301 40.000 0.00 0.00 0.00 4.69
2212 2453 5.390567 GCACCACTTTAATGTACTTTCTCCG 60.391 44.000 0.00 0.00 0.00 4.63
2213 2454 5.472137 TGCACCACTTTAATGTACTTTCTCC 59.528 40.000 0.00 0.00 0.00 3.71
2214 2455 6.426937 TCTGCACCACTTTAATGTACTTTCTC 59.573 38.462 0.00 0.00 0.00 2.87
2215 2456 6.296026 TCTGCACCACTTTAATGTACTTTCT 58.704 36.000 0.00 0.00 0.00 2.52
2216 2457 6.554334 TCTGCACCACTTTAATGTACTTTC 57.446 37.500 0.00 0.00 0.00 2.62
2217 2458 6.952773 TTCTGCACCACTTTAATGTACTTT 57.047 33.333 0.00 0.00 0.00 2.66
2218 2459 6.546034 AGTTTCTGCACCACTTTAATGTACTT 59.454 34.615 0.00 0.00 0.00 2.24
2219 2460 6.062095 AGTTTCTGCACCACTTTAATGTACT 58.938 36.000 0.00 0.00 0.00 2.73
2226 2467 4.523083 AGTCAAGTTTCTGCACCACTTTA 58.477 39.130 0.00 0.00 0.00 1.85
2230 2471 3.128589 TCAAAGTCAAGTTTCTGCACCAC 59.871 43.478 0.00 0.00 0.00 4.16
2250 2491 3.015934 ACGCACTGTATTTACACGTCA 57.984 42.857 0.00 0.00 33.15 4.35
2265 2506 8.111836 TGATTTCGTAACAAATAAGATACGCAC 58.888 33.333 0.00 0.00 39.26 5.34
2269 2510 7.318205 GCGCTGATTTCGTAACAAATAAGATAC 59.682 37.037 0.00 0.00 28.51 2.24
2275 2516 4.627900 TCAGCGCTGATTTCGTAACAAATA 59.372 37.500 35.30 8.15 34.14 1.40
2276 2517 3.435327 TCAGCGCTGATTTCGTAACAAAT 59.565 39.130 35.30 0.00 34.14 2.32
2307 2549 2.186384 GCTGACAGCGAGCTCCAT 59.814 61.111 12.53 0.00 33.37 3.41
2311 2553 3.309506 AGTGGCTGACAGCGAGCT 61.310 61.111 20.82 14.81 43.62 4.09
2315 2557 2.740055 GTCCAGTGGCTGACAGCG 60.740 66.667 20.82 7.13 43.62 5.18
2401 2643 3.691049 AAAATGTCACCACGTCAACAG 57.309 42.857 0.00 0.00 0.00 3.16
2438 2683 1.427753 TCTGACAGGTGGGACTCACTA 59.572 52.381 5.23 0.00 45.38 2.74
2453 2698 5.513495 CGTTTAGTATGCACTCTCTTCTGAC 59.487 44.000 0.00 0.00 36.14 3.51
2454 2699 5.393135 CCGTTTAGTATGCACTCTCTTCTGA 60.393 44.000 0.00 0.00 36.14 3.27
2456 2701 4.705507 TCCGTTTAGTATGCACTCTCTTCT 59.294 41.667 0.00 0.00 36.14 2.85
2469 2723 5.723295 AGCGGTCTTAATTTCCGTTTAGTA 58.277 37.500 12.34 0.00 45.11 1.82
2482 2736 3.375299 GGTTAGAGACGTAGCGGTCTTAA 59.625 47.826 9.05 7.44 46.85 1.85
2508 2762 2.706190 GGATATCTTGCTAGGTGTGGGT 59.294 50.000 2.05 0.00 0.00 4.51
2511 2765 2.868044 GCCGGATATCTTGCTAGGTGTG 60.868 54.545 5.05 0.00 0.00 3.82
2538 2917 1.374252 AGAACGTGATCGGTGGTGC 60.374 57.895 0.00 0.00 41.85 5.01
2540 2919 0.391597 AACAGAACGTGATCGGTGGT 59.608 50.000 0.00 0.00 41.85 4.16
2602 2981 4.576463 CCATTTAAGCTCCACATGTACTCC 59.424 45.833 0.00 0.00 0.00 3.85
2603 2982 5.294552 GTCCATTTAAGCTCCACATGTACTC 59.705 44.000 0.00 0.00 0.00 2.59
2604 2983 5.045578 AGTCCATTTAAGCTCCACATGTACT 60.046 40.000 0.00 0.00 0.00 2.73
2605 2984 5.065218 CAGTCCATTTAAGCTCCACATGTAC 59.935 44.000 0.00 0.00 0.00 2.90
2606 2985 5.185454 CAGTCCATTTAAGCTCCACATGTA 58.815 41.667 0.00 0.00 0.00 2.29
2607 2986 4.012374 CAGTCCATTTAAGCTCCACATGT 58.988 43.478 0.00 0.00 0.00 3.21
2627 3006 0.681733 ATGGGCCGCACTATCTACAG 59.318 55.000 0.00 0.00 0.00 2.74
2649 3028 1.862201 TGTAGAAAACGAACAGGTGCG 59.138 47.619 0.00 0.00 0.00 5.34
2652 3031 8.626526 ACAAATAAATGTAGAAAACGAACAGGT 58.373 29.630 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.