Multiple sequence alignment - TraesCS2A01G371500

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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 TraesCS2A01G371500 chr2A 100.000 2561 0 0 1 2561 613881676 613879116 0.000000e+00 4730.0
1 TraesCS2A01G371500 chr2A 100.000 2308 0 0 2765 5072 613878912 613876605 0.000000e+00 4263.0
2 TraesCS2A01G371500 chr2A 89.096 697 61 7 3612 4301 613703427 613702739 0.000000e+00 852.0
3 TraesCS2A01G371500 chr2A 81.801 1066 127 39 1019 2061 613720763 613719742 0.000000e+00 832.0
4 TraesCS2A01G371500 chr2A 82.615 673 73 27 4364 5023 613701060 613700419 5.740000e-154 555.0
5 TraesCS2A01G371500 chr2A 94.737 247 12 1 3143 3388 613714112 613713866 2.870000e-102 383.0
6 TraesCS2A01G371500 chr2A 83.019 265 41 3 4752 5015 613689773 613689512 2.360000e-58 237.0
7 TraesCS2A01G371500 chr2A 94.845 97 5 0 2050 2146 98882826 98882730 8.800000e-33 152.0
8 TraesCS2A01G371500 chr2A 95.946 74 1 2 2170 2242 71546650 71546578 8.920000e-23 119.0
9 TraesCS2A01G371500 chr2A 95.946 74 1 2 2170 2242 71560815 71560743 8.920000e-23 119.0
10 TraesCS2A01G371500 chr2A 93.590 78 4 1 2170 2247 17919877 17919801 1.150000e-21 115.0
11 TraesCS2A01G371500 chr2A 95.714 70 2 1 4312 4380 613702760 613702691 1.490000e-20 111.0
12 TraesCS2A01G371500 chr2D 92.384 1510 88 21 559 2061 472448290 472446801 0.000000e+00 2126.0
13 TraesCS2A01G371500 chr2D 93.741 1422 64 12 2775 4192 472446090 472444690 0.000000e+00 2109.0
14 TraesCS2A01G371500 chr2D 87.514 897 42 26 4182 5023 472444135 472443254 0.000000e+00 972.0
15 TraesCS2A01G371500 chr2D 82.936 1090 113 40 1003 2061 472233945 472232898 0.000000e+00 915.0
16 TraesCS2A01G371500 chr2D 86.846 631 47 24 1 604 472449014 472448393 0.000000e+00 673.0
17 TraesCS2A01G371500 chr2D 88.933 506 43 4 3613 4117 472230925 472230432 3.360000e-171 612.0
18 TraesCS2A01G371500 chr2D 82.107 693 50 31 4388 5023 472230435 472229760 4.500000e-145 525.0
19 TraesCS2A01G371500 chr2D 87.007 431 45 7 3143 3572 472231650 472231230 4.590000e-130 475.0
20 TraesCS2A01G371500 chr2D 91.250 240 14 3 2234 2469 472446776 472446540 2.280000e-83 320.0
21 TraesCS2A01G371500 chr2D 75.676 333 54 11 2233 2561 472232885 472232576 1.900000e-29 141.0
22 TraesCS2A01G371500 chr2D 95.122 82 4 0 2480 2561 472446172 472446091 4.120000e-26 130.0
23 TraesCS2A01G371500 chr2B 91.690 1456 71 25 3609 5021 551566806 551565358 0.000000e+00 1973.0
24 TraesCS2A01G371500 chr2B 90.258 1201 83 27 559 1743 551570032 551568850 0.000000e+00 1539.0
25 TraesCS2A01G371500 chr2B 87.214 829 72 27 2765 3573 551567839 551567025 0.000000e+00 913.0
26 TraesCS2A01G371500 chr2B 88.904 748 53 11 3609 4344 551534621 551533892 0.000000e+00 894.0
27 TraesCS2A01G371500 chr2B 91.405 477 33 5 995 1469 551538519 551538049 0.000000e+00 647.0
28 TraesCS2A01G371500 chr2B 83.516 637 45 28 1 604 551570747 551570138 1.610000e-149 540.0
29 TraesCS2A01G371500 chr2B 87.239 431 44 7 3143 3572 551535257 551534837 9.880000e-132 481.0
30 TraesCS2A01G371500 chr2B 87.643 437 25 16 1739 2172 551568739 551568329 9.880000e-132 481.0
31 TraesCS2A01G371500 chr2B 89.189 333 28 4 2234 2561 551568331 551568002 4.730000e-110 409.0
32 TraesCS2A01G371500 chr2B 93.939 99 6 0 2051 2149 544770211 544770309 3.160000e-32 150.0
33 TraesCS2A01G371500 chr2B 97.183 71 2 0 2170 2240 709839392 709839322 2.480000e-23 121.0
34 TraesCS2A01G371500 chr2B 87.654 81 3 6 1489 1567 551537878 551537803 2.520000e-13 87.9
35 TraesCS2A01G371500 chr4A 94.979 478 18 6 1589 2061 395804892 395805368 0.000000e+00 745.0
36 TraesCS2A01G371500 chr4A 95.639 321 10 2 2234 2550 395805401 395805721 3.500000e-141 512.0
37 TraesCS2A01G371500 chr4A 100.000 29 0 0 2144 2172 395805367 395805395 3.000000e-03 54.7
38 TraesCS2A01G371500 chr7A 83.516 273 36 4 4737 5000 68211422 68211694 3.920000e-61 246.0
39 TraesCS2A01G371500 chr7A 89.286 84 6 3 2939 3021 654781574 654781655 8.980000e-18 102.0
40 TraesCS2A01G371500 chr7B 81.455 275 38 11 4737 5000 5942802 5943074 3.980000e-51 213.0
41 TraesCS2A01G371500 chr7B 94.681 94 5 0 2056 2149 201496472 201496565 4.090000e-31 147.0
42 TraesCS2A01G371500 chr7B 100.000 28 0 0 592 619 482936798 482936771 9.000000e-03 52.8
43 TraesCS2A01G371500 chr6B 94.059 101 6 0 2052 2152 72175740 72175640 2.450000e-33 154.0
44 TraesCS2A01G371500 chr6B 89.720 107 10 1 2054 2160 86494336 86494441 8.860000e-28 135.0
45 TraesCS2A01G371500 chr5B 95.699 93 4 0 2059 2151 82872433 82872341 3.160000e-32 150.0
46 TraesCS2A01G371500 chr5B 93.590 78 4 1 2170 2247 706389134 706389210 1.150000e-21 115.0
47 TraesCS2A01G371500 chr5B 94.737 38 2 0 2957 2994 516832310 516832273 5.480000e-05 60.2
48 TraesCS2A01G371500 chr7D 94.737 95 4 1 2054 2148 514661129 514661036 4.090000e-31 147.0
49 TraesCS2A01G371500 chr7D 95.946 74 1 2 2170 2242 463109109 463109037 8.920000e-23 119.0
50 TraesCS2A01G371500 chr4B 93.000 100 5 2 2055 2152 140924548 140924647 1.470000e-30 145.0
51 TraesCS2A01G371500 chr4B 91.837 49 3 1 2950 2997 643665514 643665466 3.280000e-07 67.6
52 TraesCS2A01G371500 chr4B 88.235 51 6 0 5017 5067 618414959 618414909 1.520000e-05 62.1
53 TraesCS2A01G371500 chr1D 87.395 119 11 4 2027 2145 73677238 73677352 3.190000e-27 134.0
54 TraesCS2A01G371500 chr1D 95.122 41 2 0 2958 2998 462461923 462461963 1.180000e-06 65.8
55 TraesCS2A01G371500 chr6A 98.551 69 1 0 2170 2238 472360668 472360736 6.900000e-24 122.0
56 TraesCS2A01G371500 chr6A 89.362 47 3 2 2933 2978 22203286 22203331 1.970000e-04 58.4
57 TraesCS2A01G371500 chr1A 96.000 75 3 0 2170 2244 9547028 9546954 6.900000e-24 122.0
58 TraesCS2A01G371500 chr1A 100.000 30 0 0 2949 2978 475458706 475458735 7.090000e-04 56.5
59 TraesCS2A01G371500 chr1A 96.970 33 1 0 2949 2981 475483799 475483767 7.090000e-04 56.5
60 TraesCS2A01G371500 chr1A 100.000 29 0 0 2950 2978 19300087 19300059 3.000000e-03 54.7
61 TraesCS2A01G371500 chr1A 100.000 29 0 0 2950 2978 19410345 19410317 3.000000e-03 54.7
62 TraesCS2A01G371500 chr1A 96.774 31 1 0 2950 2980 516780641 516780611 9.000000e-03 52.8
63 TraesCS2A01G371500 chr5A 95.890 73 3 0 2170 2242 706441088 706441160 8.920000e-23 119.0
64 TraesCS2A01G371500 chr5A 88.710 62 4 3 2938 2998 552064830 552064889 7.040000e-09 73.1
65 TraesCS2A01G371500 chr5A 97.674 43 0 1 2950 2991 681084536 681084494 7.040000e-09 73.1
66 TraesCS2A01G371500 chr5A 87.097 62 5 3 2938 2998 536890399 536890458 3.280000e-07 67.6
67 TraesCS2A01G371500 chr5A 91.837 49 3 1 2950 2997 681205383 681205335 3.280000e-07 67.6
68 TraesCS2A01G371500 chr3B 97.959 49 0 1 2950 2998 440404786 440404833 3.250000e-12 84.2
69 TraesCS2A01G371500 chr3B 91.489 47 2 1 2939 2985 752800477 752800521 4.240000e-06 63.9
70 TraesCS2A01G371500 chr3B 87.500 48 6 0 2947 2994 613804080 613804033 7.090000e-04 56.5
71 TraesCS2A01G371500 chr3A 95.000 40 2 0 2954 2993 552633416 552633455 4.240000e-06 63.9
72 TraesCS2A01G371500 chr6D 89.362 47 3 2 2940 2985 448683253 448683298 1.970000e-04 58.4
73 TraesCS2A01G371500 chrUn 100.000 29 0 0 2950 2978 252717066 252717038 3.000000e-03 54.7
74 TraesCS2A01G371500 chr1B 96.875 32 1 0 2949 2980 36260857 36260826 3.000000e-03 54.7
75 TraesCS2A01G371500 chr1B 96.875 32 1 0 2949 2980 36263599 36263568 3.000000e-03 54.7


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 TraesCS2A01G371500 chr2A 613876605 613881676 5071 True 4496.500000 4730 100.000000 1 5072 2 chr2A.!!$R9 5071
1 TraesCS2A01G371500 chr2A 613719742 613720763 1021 True 832.000000 832 81.801000 1019 2061 1 chr2A.!!$R7 1042
2 TraesCS2A01G371500 chr2A 613700419 613703427 3008 True 506.000000 852 89.141667 3612 5023 3 chr2A.!!$R8 1411
3 TraesCS2A01G371500 chr2D 472443254 472449014 5760 True 1055.000000 2126 91.142833 1 5023 6 chr2D.!!$R2 5022
4 TraesCS2A01G371500 chr2D 472229760 472233945 4185 True 533.600000 915 83.331800 1003 5023 5 chr2D.!!$R1 4020
5 TraesCS2A01G371500 chr2B 551565358 551570747 5389 True 975.833333 1973 88.251667 1 5021 6 chr2B.!!$R3 5020
6 TraesCS2A01G371500 chr2B 551533892 551538519 4627 True 527.475000 894 88.800500 995 4344 4 chr2B.!!$R2 3349
7 TraesCS2A01G371500 chr4A 395804892 395805721 829 False 437.233333 745 96.872667 1589 2550 3 chr4A.!!$F1 961

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
873 1072 0.319211 CGACTAACAACAGGCCGTCA 60.319 55.0 0.00 0.0 0.00 4.35 F
988 1193 0.586802 GCGCCGTTTGAGAAGAAAGT 59.413 50.0 0.00 0.0 0.00 2.66 F
1495 1862 0.588252 TGTCTCTGCTTTGCGCTTTC 59.412 50.0 9.73 0.0 40.11 2.62 F
2237 4197 0.861155 ATGGGACGGAGGGAGTATCT 59.139 55.0 0.00 0.0 33.73 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2218 4178 0.861155 AGATACTCCCTCCGTCCCAT 59.139 55.0 0.0 0.0 0.00 4.00 R
2219 4179 1.526315 TAGATACTCCCTCCGTCCCA 58.474 55.0 0.0 0.0 0.00 4.37 R
3127 6081 0.476338 TGCAGGTGTTTAGGAGCCAA 59.524 50.0 0.0 0.0 0.00 4.52 R
4176 7429 0.523072 ACACGCATGTCCATTTGAGC 59.477 50.0 0.0 0.0 31.55 4.26 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
71 72 7.393515 GGAGCTCTAAAATCTCAGGGTTTAAAA 59.606 37.037 14.64 0.00 0.00 1.52
120 121 1.338337 CCCATCGATCTAGTTCGTGCT 59.662 52.381 19.74 6.51 40.03 4.40
140 141 1.228003 ATTCGGCCCAAACGTCACA 60.228 52.632 0.00 0.00 0.00 3.58
235 236 4.280019 AAACGCACCCCCTCCCAC 62.280 66.667 0.00 0.00 0.00 4.61
863 1062 2.228138 ACGCAGAAACCGACTAACAA 57.772 45.000 0.00 0.00 0.00 2.83
864 1063 1.862827 ACGCAGAAACCGACTAACAAC 59.137 47.619 0.00 0.00 0.00 3.32
865 1064 1.862201 CGCAGAAACCGACTAACAACA 59.138 47.619 0.00 0.00 0.00 3.33
871 1070 1.005394 CCGACTAACAACAGGCCGT 60.005 57.895 0.00 0.00 0.00 5.68
873 1072 0.319211 CGACTAACAACAGGCCGTCA 60.319 55.000 0.00 0.00 0.00 4.35
988 1193 0.586802 GCGCCGTTTGAGAAGAAAGT 59.413 50.000 0.00 0.00 0.00 2.66
990 1195 1.069906 CGCCGTTTGAGAAGAAAGTGG 60.070 52.381 0.00 0.00 0.00 4.00
1014 1219 5.149973 AGTGCAGGATGTATCATCATCTC 57.850 43.478 11.08 0.87 42.45 2.75
1055 1260 2.313172 GCTCACACAGTGCTGGACG 61.313 63.158 0.00 0.00 34.02 4.79
1184 1389 3.438781 TCGCAGCAAATTTACTTACTGGG 59.561 43.478 11.68 11.68 36.35 4.45
1192 1397 7.451566 AGCAAATTTACTTACTGGGATTTCTGT 59.548 33.333 0.00 0.00 0.00 3.41
1304 1511 2.656069 GGGGCTCAAGGTCGTGCTA 61.656 63.158 0.00 0.00 0.00 3.49
1345 1552 3.706373 GCTGGAGGCGGTGGAAGA 61.706 66.667 0.00 0.00 0.00 2.87
1373 1580 3.865929 CTCCGGTGCTGACGCTGTT 62.866 63.158 0.00 0.00 36.97 3.16
1401 1608 0.899720 GTTGGATGTCACCGACCCTA 59.100 55.000 0.00 0.00 38.13 3.53
1471 1678 5.717178 AGCTCGATATCCTGGTATGTGTTAT 59.283 40.000 0.00 0.00 0.00 1.89
1474 1681 7.297936 TCGATATCCTGGTATGTGTTATTGT 57.702 36.000 0.00 0.00 0.00 2.71
1477 1684 7.095649 CGATATCCTGGTATGTGTTATTGTGTG 60.096 40.741 0.00 0.00 0.00 3.82
1478 1685 5.235850 TCCTGGTATGTGTTATTGTGTGT 57.764 39.130 0.00 0.00 0.00 3.72
1495 1862 0.588252 TGTCTCTGCTTTGCGCTTTC 59.412 50.000 9.73 0.00 40.11 2.62
1531 1898 2.037208 ATTTGGGGTCGGGCAAGG 59.963 61.111 0.00 0.00 0.00 3.61
1543 1910 1.544759 CGGGCAAGGGGGTATTCATAC 60.545 57.143 0.00 0.00 0.00 2.39
1544 1911 1.780919 GGGCAAGGGGGTATTCATACT 59.219 52.381 0.00 0.00 33.81 2.12
1545 1912 2.489073 GGGCAAGGGGGTATTCATACTG 60.489 54.545 0.00 0.00 33.81 2.74
1546 1913 2.441750 GGCAAGGGGGTATTCATACTGA 59.558 50.000 0.00 0.00 33.81 3.41
1674 3504 8.111836 GCACATTGTTGCATTGAATAATTACAG 58.888 33.333 0.00 0.00 42.49 2.74
1711 3546 4.660789 TCCGTTTAGAAGTATAGGTGCC 57.339 45.455 0.00 0.00 0.00 5.01
1804 3754 5.448360 GCTTGACTTGGCTGTTCAGATTATC 60.448 44.000 3.84 0.00 0.00 1.75
2068 4020 7.110155 TGAGTCAACAAAATAATACTCCCTCC 58.890 38.462 0.00 0.00 33.94 4.30
2069 4021 6.113411 AGTCAACAAAATAATACTCCCTCCG 58.887 40.000 0.00 0.00 0.00 4.63
2071 4023 6.373495 GTCAACAAAATAATACTCCCTCCGTT 59.627 38.462 0.00 0.00 0.00 4.44
2072 4024 6.596497 TCAACAAAATAATACTCCCTCCGTTC 59.404 38.462 0.00 0.00 0.00 3.95
2074 4026 4.701651 AAATAATACTCCCTCCGTTCCC 57.298 45.455 0.00 0.00 0.00 3.97
2079 4031 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
2080 4032 1.838077 ACTCCCTCCGTTCCCAAATAG 59.162 52.381 0.00 0.00 0.00 1.73
2082 4034 2.706190 CTCCCTCCGTTCCCAAATAGAT 59.294 50.000 0.00 0.00 0.00 1.98
2086 4038 3.134804 CCTCCGTTCCCAAATAGATGACT 59.865 47.826 0.00 0.00 0.00 3.41
2087 4039 4.372656 CTCCGTTCCCAAATAGATGACTC 58.627 47.826 0.00 0.00 0.00 3.36
2088 4040 3.772572 TCCGTTCCCAAATAGATGACTCA 59.227 43.478 0.00 0.00 0.00 3.41
2089 4041 4.224147 TCCGTTCCCAAATAGATGACTCAA 59.776 41.667 0.00 0.00 0.00 3.02
2090 4042 4.332819 CCGTTCCCAAATAGATGACTCAAC 59.667 45.833 0.00 0.00 0.00 3.18
2092 4044 5.643777 CGTTCCCAAATAGATGACTCAACTT 59.356 40.000 0.00 0.00 0.00 2.66
2096 4048 7.685481 TCCCAAATAGATGACTCAACTTTGTA 58.315 34.615 0.00 0.00 0.00 2.41
2097 4049 7.606456 TCCCAAATAGATGACTCAACTTTGTAC 59.394 37.037 0.00 0.00 0.00 2.90
2098 4050 7.607991 CCCAAATAGATGACTCAACTTTGTACT 59.392 37.037 0.00 0.00 0.00 2.73
2132 4084 9.739276 ATACAAAGTTGAGTCATCTATTTTGGA 57.261 29.630 14.35 9.09 40.00 3.53
2135 4087 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
2163 4123 6.018180 GGGAGTAGTTGTTTCTGTAGTTGTTG 60.018 42.308 0.00 0.00 0.00 3.33
2172 4132 6.320164 TGTTTCTGTAGTTGTTGGTTGCTATT 59.680 34.615 0.00 0.00 0.00 1.73
2173 4133 7.499563 TGTTTCTGTAGTTGTTGGTTGCTATTA 59.500 33.333 0.00 0.00 0.00 0.98
2174 4134 7.667043 TTCTGTAGTTGTTGGTTGCTATTAG 57.333 36.000 0.00 0.00 0.00 1.73
2175 4135 6.999950 TCTGTAGTTGTTGGTTGCTATTAGA 58.000 36.000 0.00 0.00 0.00 2.10
2176 4136 7.446769 TCTGTAGTTGTTGGTTGCTATTAGAA 58.553 34.615 0.00 0.00 0.00 2.10
2177 4137 7.386848 TCTGTAGTTGTTGGTTGCTATTAGAAC 59.613 37.037 0.00 0.00 0.00 3.01
2178 4138 5.607119 AGTTGTTGGTTGCTATTAGAACG 57.393 39.130 0.00 0.00 0.00 3.95
2179 4139 5.061179 AGTTGTTGGTTGCTATTAGAACGT 58.939 37.500 0.00 0.00 0.00 3.99
2180 4140 5.529800 AGTTGTTGGTTGCTATTAGAACGTT 59.470 36.000 0.00 0.00 0.00 3.99
2181 4141 6.038936 AGTTGTTGGTTGCTATTAGAACGTTT 59.961 34.615 0.46 0.00 0.00 3.60
2182 4142 6.380095 TGTTGGTTGCTATTAGAACGTTTT 57.620 33.333 0.46 0.00 0.00 2.43
2183 4143 6.797454 TGTTGGTTGCTATTAGAACGTTTTT 58.203 32.000 0.46 0.00 0.00 1.94
2184 4144 7.928103 TGTTGGTTGCTATTAGAACGTTTTTA 58.072 30.769 0.46 0.00 0.00 1.52
2185 4145 8.404000 TGTTGGTTGCTATTAGAACGTTTTTAA 58.596 29.630 0.46 5.48 0.00 1.52
2186 4146 8.684655 GTTGGTTGCTATTAGAACGTTTTTAAC 58.315 33.333 0.46 0.60 0.00 2.01
2187 4147 7.928103 TGGTTGCTATTAGAACGTTTTTAACA 58.072 30.769 0.46 0.00 0.00 2.41
2188 4148 7.856894 TGGTTGCTATTAGAACGTTTTTAACAC 59.143 33.333 0.46 0.00 0.00 3.32
2189 4149 8.071967 GGTTGCTATTAGAACGTTTTTAACACT 58.928 33.333 0.46 0.00 0.00 3.55
2192 4152 9.258826 TGCTATTAGAACGTTTTTAACACTACA 57.741 29.630 0.46 0.00 0.00 2.74
2193 4153 9.521179 GCTATTAGAACGTTTTTAACACTACAC 57.479 33.333 0.46 0.00 0.00 2.90
2197 4157 9.801873 TTAGAACGTTTTTAACACTACACTAGT 57.198 29.630 0.46 0.00 40.28 2.57
2210 4170 6.579491 ACTACACTAGTGTCAAAAACGTTC 57.421 37.500 31.11 0.00 43.74 3.95
2211 4171 6.335777 ACTACACTAGTGTCAAAAACGTTCT 58.664 36.000 31.11 5.44 43.74 3.01
2212 4172 6.815142 ACTACACTAGTGTCAAAAACGTTCTT 59.185 34.615 31.11 4.99 43.74 2.52
2213 4173 7.975616 ACTACACTAGTGTCAAAAACGTTCTTA 59.024 33.333 31.11 8.36 43.74 2.10
2214 4174 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
2215 4175 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
2216 4176 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
2222 4182 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
2223 4183 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
2224 4184 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
2225 4185 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
2226 4186 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
2227 4187 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
2228 4188 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
2229 4189 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
2230 4190 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
2231 4191 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
2232 4192 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
2237 4197 0.861155 ATGGGACGGAGGGAGTATCT 59.139 55.000 0.00 0.00 33.73 1.98
2239 4199 2.071372 TGGGACGGAGGGAGTATCTAT 58.929 52.381 0.00 0.00 33.73 1.98
2242 4202 3.499926 GGGACGGAGGGAGTATCTATCAA 60.500 52.174 0.00 0.00 33.73 2.57
2243 4203 3.506844 GGACGGAGGGAGTATCTATCAAC 59.493 52.174 0.00 0.00 33.73 3.18
2273 4236 9.988350 GACATAAACGTCATCATTTCTTGTAAT 57.012 29.630 0.00 0.00 35.88 1.89
2554 4876 7.589954 GTGACAGCGTGTTTATTTAGTGAATTT 59.410 33.333 0.00 0.00 0.00 1.82
2846 5769 7.741554 ACAGAATTCCTCAGGAACTAATACT 57.258 36.000 8.82 0.00 45.07 2.12
2918 5844 9.314321 CAAGATTATATTTGTACCGAACAGAGT 57.686 33.333 0.00 0.00 39.87 3.24
2978 5924 6.070881 CCCTCCAATCCAAATTAATTGACACA 60.071 38.462 0.39 0.00 41.85 3.72
2979 5925 7.385267 CCTCCAATCCAAATTAATTGACACAA 58.615 34.615 0.39 0.00 41.85 3.33
2980 5926 7.331687 CCTCCAATCCAAATTAATTGACACAAC 59.668 37.037 0.39 0.00 41.85 3.32
2982 5928 8.428063 TCCAATCCAAATTAATTGACACAACTT 58.572 29.630 0.39 0.00 41.85 2.66
2999 5945 9.999883 GACACAACTTTAGTATAACTTTGTACG 57.000 33.333 0.00 0.00 27.94 3.67
3123 6077 1.207488 TGGGCATGCCTTACCAGACT 61.207 55.000 34.70 0.00 36.10 3.24
3127 6081 1.065854 GCATGCCTTACCAGACTCACT 60.066 52.381 6.36 0.00 0.00 3.41
3132 6086 1.625818 CCTTACCAGACTCACTTGGCT 59.374 52.381 0.00 0.00 0.00 4.75
3310 6265 3.854856 GGGGCAAAGCTTGTCACA 58.145 55.556 0.00 0.00 38.89 3.58
3373 6328 5.813383 AGAATTGTCAATGTCTCATCAGGT 58.187 37.500 0.00 0.00 0.00 4.00
3472 6427 8.121305 AGATTTAAACATTATCTGTGCCACAA 57.879 30.769 0.00 0.00 38.39 3.33
3486 6441 4.457603 TGTGCCACAATATATATTTCCGCC 59.542 41.667 5.18 3.33 0.00 6.13
3640 6889 7.994425 TTTTCCTGTCAGAAAGCATATGTTA 57.006 32.000 4.29 0.00 37.09 2.41
4133 7386 7.482169 TTCAGAATATGAGACACCTGTAACT 57.518 36.000 0.00 0.00 39.68 2.24
4176 7429 0.944386 AGTTTAACCTGTGCTGTGCG 59.056 50.000 0.00 0.00 0.00 5.34
4259 8077 3.754850 GGGTATGTGTAGGGTCAAACAAC 59.245 47.826 0.00 0.00 0.00 3.32
4261 8079 1.956297 TGTGTAGGGTCAAACAACGG 58.044 50.000 0.00 0.00 0.00 4.44
4408 9887 4.744631 GTGAATGTTTCGAACTTGCCAAAT 59.255 37.500 0.00 0.00 0.00 2.32
4458 9940 1.374125 CTCGATGTTGTGCCGGACA 60.374 57.895 5.05 3.75 0.00 4.02
4512 10001 3.505293 ACCGGAGCCGTTATAAGTATCTC 59.495 47.826 9.46 0.00 37.81 2.75
4513 10002 3.757493 CCGGAGCCGTTATAAGTATCTCT 59.243 47.826 8.25 0.00 37.81 3.10
4515 10004 4.142643 CGGAGCCGTTATAAGTATCTCTCC 60.143 50.000 0.00 0.00 35.48 3.71
4516 10005 5.011586 GGAGCCGTTATAAGTATCTCTCCT 58.988 45.833 0.00 0.00 35.82 3.69
4517 10006 6.179040 GGAGCCGTTATAAGTATCTCTCCTA 58.821 44.000 0.00 0.00 35.82 2.94
4518 10007 6.658391 GGAGCCGTTATAAGTATCTCTCCTAA 59.342 42.308 0.00 0.00 35.82 2.69
4521 10010 7.391275 AGCCGTTATAAGTATCTCTCCTAACTC 59.609 40.741 0.00 0.00 0.00 3.01
4524 10035 7.148440 CGTTATAAGTATCTCTCCTAACTCCCG 60.148 44.444 0.00 0.00 0.00 5.14
4625 10138 1.078848 GCTGTTGGAGCTCGTGGAT 60.079 57.895 7.83 0.00 45.21 3.41
4734 10299 4.201891 GCAACTTGCAGAAATCTCATCGAT 60.202 41.667 8.97 0.00 44.26 3.59
4759 10326 4.125695 GCTAGGGTCGCCGTCGTT 62.126 66.667 0.00 0.00 36.96 3.85
4820 10387 1.222936 CTTGCCAGCGGAGGAATCT 59.777 57.895 0.00 0.00 0.00 2.40
4964 10531 1.609208 GCTGGCTGGTTTTCTCAAGA 58.391 50.000 0.00 0.00 0.00 3.02
4978 10545 0.753479 TCAAGACCCGCTTTGGCAAA 60.753 50.000 12.79 12.79 38.60 3.68
5032 10599 8.638685 TCATTTTAGTATACTAGAACAACGCC 57.361 34.615 15.90 0.00 0.00 5.68
5033 10600 7.433131 TCATTTTAGTATACTAGAACAACGCCG 59.567 37.037 15.90 0.00 0.00 6.46
5034 10601 3.705043 AGTATACTAGAACAACGCCGG 57.295 47.619 2.75 0.00 0.00 6.13
5035 10602 3.019564 AGTATACTAGAACAACGCCGGT 58.980 45.455 2.75 0.00 0.00 5.28
5036 10603 2.288961 ATACTAGAACAACGCCGGTG 57.711 50.000 14.93 14.93 0.00 4.94
5037 10604 0.388907 TACTAGAACAACGCCGGTGC 60.389 55.000 16.69 0.00 0.00 5.01
5067 10634 9.947897 GCAACGGAATATAAATATTGTAGTACG 57.052 33.333 10.07 10.07 33.37 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 6.508030 AATAAACCCCCAAGTTCAAATTGT 57.492 33.333 0.00 0.00 0.00 2.71
71 72 4.323569 TTCTGTGGAGAGTGGAGTCTAT 57.676 45.455 0.00 0.00 0.00 1.98
108 109 1.469251 GCCGAATCAGCACGAACTAGA 60.469 52.381 0.00 0.00 0.00 2.43
120 121 1.071642 TGACGTTTGGGCCGAATCA 59.928 52.632 9.98 7.60 0.00 2.57
140 141 4.023291 ACACATGTTTCTTGGGTCAAACT 58.977 39.130 0.00 0.00 34.22 2.66
325 335 6.414732 TGATATTTGTTCGAAATCCCTGACT 58.585 36.000 0.00 0.00 0.00 3.41
689 883 6.552859 TCGTGAGCACTTTAAAATTCATGA 57.447 33.333 0.00 0.00 0.00 3.07
690 884 7.801547 AATCGTGAGCACTTTAAAATTCATG 57.198 32.000 0.00 0.00 0.00 3.07
691 885 8.816640 AAAATCGTGAGCACTTTAAAATTCAT 57.183 26.923 0.00 0.00 0.00 2.57
692 886 9.393249 CTAAAATCGTGAGCACTTTAAAATTCA 57.607 29.630 0.00 0.00 0.00 2.57
693 887 9.607285 TCTAAAATCGTGAGCACTTTAAAATTC 57.393 29.630 0.00 0.00 0.00 2.17
694 888 9.959749 TTCTAAAATCGTGAGCACTTTAAAATT 57.040 25.926 0.00 0.00 0.00 1.82
699 895 8.149973 AGTTTTCTAAAATCGTGAGCACTTTA 57.850 30.769 0.00 0.00 0.00 1.85
741 937 6.702716 TTCCTAAAATCCGCCGATTATTTT 57.297 33.333 0.54 8.87 37.76 1.82
742 938 6.544564 TCTTTCCTAAAATCCGCCGATTATTT 59.455 34.615 0.54 0.00 37.76 1.40
743 939 6.059484 TCTTTCCTAAAATCCGCCGATTATT 58.941 36.000 0.54 1.89 37.76 1.40
745 941 5.026038 TCTTTCCTAAAATCCGCCGATTA 57.974 39.130 0.54 0.00 37.76 1.75
748 944 3.337694 TTCTTTCCTAAAATCCGCCGA 57.662 42.857 0.00 0.00 0.00 5.54
749 945 4.428615 TTTTCTTTCCTAAAATCCGCCG 57.571 40.909 0.00 0.00 0.00 6.46
782 981 6.988622 TTTCTGGTTCTTCTGTTTCGTTTA 57.011 33.333 0.00 0.00 0.00 2.01
863 1062 1.079405 CGGTAATGTGACGGCCTGT 60.079 57.895 0.00 0.00 0.00 4.00
864 1063 2.461110 GCGGTAATGTGACGGCCTG 61.461 63.158 0.00 0.00 39.15 4.85
865 1064 2.125269 GCGGTAATGTGACGGCCT 60.125 61.111 0.00 0.00 39.15 5.19
871 1070 3.483665 GTGCGCGCGGTAATGTGA 61.484 61.111 33.06 1.38 0.00 3.58
873 1072 2.608825 TTTGTGCGCGCGGTAATGT 61.609 52.632 33.06 0.00 0.00 2.71
946 1151 2.642807 TCTGCTGGGCCTTAGTTAGTTT 59.357 45.455 4.53 0.00 0.00 2.66
948 1153 1.834263 CTCTGCTGGGCCTTAGTTAGT 59.166 52.381 4.53 0.00 0.00 2.24
949 1154 1.139853 CCTCTGCTGGGCCTTAGTTAG 59.860 57.143 4.53 5.34 0.00 2.34
950 1155 1.204146 CCTCTGCTGGGCCTTAGTTA 58.796 55.000 4.53 0.00 0.00 2.24
952 1157 2.674220 GCCTCTGCTGGGCCTTAGT 61.674 63.158 4.53 0.00 43.49 2.24
953 1158 2.191641 GCCTCTGCTGGGCCTTAG 59.808 66.667 4.53 2.51 43.49 2.18
954 1159 3.785859 CGCCTCTGCTGGGCCTTA 61.786 66.667 4.53 0.00 46.24 2.69
988 1193 3.455543 TGATGATACATCCTGCACTTCCA 59.544 43.478 8.87 0.00 0.00 3.53
990 1195 5.549347 AGATGATGATACATCCTGCACTTC 58.451 41.667 8.87 0.00 45.20 3.01
1184 1389 3.188786 AGCGGCGCGACAGAAATC 61.189 61.111 27.59 0.00 0.00 2.17
1238 1445 2.035155 CCGACCCCTTTGTTCCCC 59.965 66.667 0.00 0.00 0.00 4.81
1340 1547 2.507324 GAGCGCCTGACGTCTTCC 60.507 66.667 17.92 3.59 46.11 3.46
1421 1628 3.429547 CGAACTGATCCCTGACGAAATCT 60.430 47.826 0.00 0.00 0.00 2.40
1471 1678 0.657312 CGCAAAGCAGAGACACACAA 59.343 50.000 0.00 0.00 0.00 3.33
1531 1898 5.915123 GTGGAACAGTCAGTATGAATACCCC 60.915 48.000 0.00 0.00 44.30 4.95
1543 1910 1.617850 AGCTCTCAGTGGAACAGTCAG 59.382 52.381 0.00 0.00 41.96 3.51
1544 1911 1.615883 GAGCTCTCAGTGGAACAGTCA 59.384 52.381 6.43 0.00 41.96 3.41
1545 1912 1.402194 CGAGCTCTCAGTGGAACAGTC 60.402 57.143 12.85 0.00 41.96 3.51
1546 1913 0.600557 CGAGCTCTCAGTGGAACAGT 59.399 55.000 12.85 0.00 46.79 3.55
1640 3470 4.852134 ATGCAACAATGTGCTGAGTAAA 57.148 36.364 0.00 0.00 45.17 2.01
1711 3546 6.371825 AGCCAGGTAAAAGAAAGAAATCTACG 59.628 38.462 0.00 0.00 0.00 3.51
1804 3754 6.420903 TCTGAATAATCGCCAATAAGAAGTCG 59.579 38.462 0.00 0.00 0.00 4.18
2068 4020 5.178797 AGTTGAGTCATCTATTTGGGAACG 58.821 41.667 1.70 0.00 0.00 3.95
2069 4021 7.040409 ACAAAGTTGAGTCATCTATTTGGGAAC 60.040 37.037 15.32 0.00 32.17 3.62
2071 4023 6.542821 ACAAAGTTGAGTCATCTATTTGGGA 58.457 36.000 15.32 0.00 32.17 4.37
2072 4024 6.824305 ACAAAGTTGAGTCATCTATTTGGG 57.176 37.500 15.32 3.18 32.17 4.12
2106 4058 9.739276 TCCAAAATAGATGACTCAACTTTGTAT 57.261 29.630 0.00 0.00 0.00 2.29
2108 4060 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
2109 4061 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
2110 4062 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
2112 4064 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
2113 4065 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
2119 4071 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2120 4072 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2121 4073 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2122 4074 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2123 4075 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2124 4076 4.098894 ACTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
2125 4077 2.910977 ACTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
2126 4078 2.332117 ACTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
2127 4079 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
2128 4080 1.621814 CAACTACTCCCTCCGTTCCAA 59.378 52.381 0.00 0.00 0.00 3.53
2129 4081 1.263356 CAACTACTCCCTCCGTTCCA 58.737 55.000 0.00 0.00 0.00 3.53
2130 4082 1.264295 ACAACTACTCCCTCCGTTCC 58.736 55.000 0.00 0.00 0.00 3.62
2131 4083 3.006644 AGAAACAACTACTCCCTCCGTTC 59.993 47.826 0.00 0.00 0.00 3.95
2132 4084 2.970640 AGAAACAACTACTCCCTCCGTT 59.029 45.455 0.00 0.00 0.00 4.44
2135 4087 4.527427 ACTACAGAAACAACTACTCCCTCC 59.473 45.833 0.00 0.00 0.00 4.30
2163 4123 8.071967 AGTGTTAAAAACGTTCTAATAGCAACC 58.928 33.333 0.00 0.00 0.00 3.77
2187 4147 6.335777 AGAACGTTTTTGACACTAGTGTAGT 58.664 36.000 27.98 15.35 45.05 2.73
2188 4148 6.823678 AGAACGTTTTTGACACTAGTGTAG 57.176 37.500 27.98 14.79 45.05 2.74
2189 4149 8.876275 ATAAGAACGTTTTTGACACTAGTGTA 57.124 30.769 27.98 11.50 45.05 2.90
2196 4156 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
2197 4157 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
2198 4158 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
2199 4159 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
2200 4160 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
2201 4161 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
2202 4162 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
2203 4163 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
2204 4164 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
2205 4165 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
2206 4166 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
2207 4167 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
2208 4168 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
2209 4169 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
2210 4170 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
2211 4171 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
2212 4172 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
2213 4173 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
2214 4174 4.294168 AGATACTCCCTCCGTCCCATAATA 59.706 45.833 0.00 0.00 0.00 0.98
2215 4175 3.077695 AGATACTCCCTCCGTCCCATAAT 59.922 47.826 0.00 0.00 0.00 1.28
2216 4176 2.449730 AGATACTCCCTCCGTCCCATAA 59.550 50.000 0.00 0.00 0.00 1.90
2217 4177 2.071372 AGATACTCCCTCCGTCCCATA 58.929 52.381 0.00 0.00 0.00 2.74
2218 4178 0.861155 AGATACTCCCTCCGTCCCAT 59.139 55.000 0.00 0.00 0.00 4.00
2219 4179 1.526315 TAGATACTCCCTCCGTCCCA 58.474 55.000 0.00 0.00 0.00 4.37
2220 4180 2.041350 TGATAGATACTCCCTCCGTCCC 59.959 54.545 0.00 0.00 0.00 4.46
2221 4181 3.436577 TGATAGATACTCCCTCCGTCC 57.563 52.381 0.00 0.00 0.00 4.79
2222 4182 3.188873 CGTTGATAGATACTCCCTCCGTC 59.811 52.174 0.00 0.00 0.00 4.79
2223 4183 3.147629 CGTTGATAGATACTCCCTCCGT 58.852 50.000 0.00 0.00 0.00 4.69
2224 4184 2.095161 GCGTTGATAGATACTCCCTCCG 60.095 54.545 0.00 0.00 0.00 4.63
2225 4185 2.891580 TGCGTTGATAGATACTCCCTCC 59.108 50.000 0.00 0.00 0.00 4.30
2226 4186 3.821600 TCTGCGTTGATAGATACTCCCTC 59.178 47.826 0.00 0.00 0.00 4.30
2227 4187 3.570550 GTCTGCGTTGATAGATACTCCCT 59.429 47.826 0.00 0.00 0.00 4.20
2228 4188 3.318275 TGTCTGCGTTGATAGATACTCCC 59.682 47.826 0.00 0.00 0.00 4.30
2229 4189 4.569761 TGTCTGCGTTGATAGATACTCC 57.430 45.455 0.00 0.00 0.00 3.85
2230 4190 7.149112 CGTTTATGTCTGCGTTGATAGATACTC 60.149 40.741 0.00 0.00 0.00 2.59
2231 4191 6.637254 CGTTTATGTCTGCGTTGATAGATACT 59.363 38.462 0.00 0.00 0.00 2.12
2232 4192 6.417044 ACGTTTATGTCTGCGTTGATAGATAC 59.583 38.462 0.00 0.00 33.54 2.24
2237 4197 4.487019 TGACGTTTATGTCTGCGTTGATA 58.513 39.130 0.00 0.00 39.64 2.15
2239 4199 2.745102 TGACGTTTATGTCTGCGTTGA 58.255 42.857 0.00 0.00 39.64 3.18
2242 4202 2.954316 TGATGACGTTTATGTCTGCGT 58.046 42.857 0.00 0.00 39.64 5.24
2243 4203 4.520743 AATGATGACGTTTATGTCTGCG 57.479 40.909 0.00 0.00 39.64 5.18
2273 4236 8.159447 TCAAAGTAGAGTACACTCCAGTAGTTA 58.841 37.037 5.76 0.00 43.88 2.24
2274 4237 7.002879 TCAAAGTAGAGTACACTCCAGTAGTT 58.997 38.462 5.76 0.00 43.88 2.24
2275 4238 6.540995 TCAAAGTAGAGTACACTCCAGTAGT 58.459 40.000 5.76 0.00 43.88 2.73
2984 5930 9.971922 AGTACAACTTTCGTACAAAGTTATACT 57.028 29.630 27.15 27.15 46.82 2.12
2991 5937 7.792508 CAGCTTTAGTACAACTTTCGTACAAAG 59.207 37.037 13.08 13.08 41.40 2.77
2992 5938 7.623770 CAGCTTTAGTACAACTTTCGTACAAA 58.376 34.615 0.00 0.00 41.40 2.83
2993 5939 6.292488 GCAGCTTTAGTACAACTTTCGTACAA 60.292 38.462 0.00 0.00 41.40 2.41
2994 5940 5.176223 GCAGCTTTAGTACAACTTTCGTACA 59.824 40.000 0.00 0.00 41.40 2.90
2995 5941 5.176223 TGCAGCTTTAGTACAACTTTCGTAC 59.824 40.000 0.00 0.00 39.64 3.67
2996 5942 5.291178 TGCAGCTTTAGTACAACTTTCGTA 58.709 37.500 0.00 0.00 0.00 3.43
2997 5943 4.124238 TGCAGCTTTAGTACAACTTTCGT 58.876 39.130 0.00 0.00 0.00 3.85
2998 5944 4.725556 TGCAGCTTTAGTACAACTTTCG 57.274 40.909 0.00 0.00 0.00 3.46
2999 5945 6.363357 CCAAATGCAGCTTTAGTACAACTTTC 59.637 38.462 0.00 0.00 0.00 2.62
3082 6036 6.547141 CCCATCTAAGATTGATTTGCTTGGTA 59.453 38.462 0.00 0.00 0.00 3.25
3094 6048 2.872732 AGGCATGCCCATCTAAGATTG 58.127 47.619 33.14 0.00 36.58 2.67
3123 6077 2.054799 AGGTGTTTAGGAGCCAAGTGA 58.945 47.619 0.00 0.00 0.00 3.41
3127 6081 0.476338 TGCAGGTGTTTAGGAGCCAA 59.524 50.000 0.00 0.00 0.00 4.52
3132 6086 6.547880 TCTTGTTAAAATGCAGGTGTTTAGGA 59.452 34.615 0.00 0.00 0.00 2.94
3373 6328 9.555727 ACAATACTTACTCTTAGCAGTGAAAAA 57.444 29.630 0.00 0.00 0.00 1.94
3483 6438 5.551760 AAGTGATTGAGAAAGTTATGGCG 57.448 39.130 0.00 0.00 0.00 5.69
3498 6453 7.883229 AAACTCGAAACAAAACAAAGTGATT 57.117 28.000 0.00 0.00 0.00 2.57
3586 6543 6.897413 ACACTGCAATAAGGGATAAGGAATTT 59.103 34.615 0.00 0.00 0.00 1.82
4133 7386 7.032377 TGCACAATGTTTATTGACAACTACA 57.968 32.000 6.98 0.00 45.21 2.74
4176 7429 0.523072 ACACGCATGTCCATTTGAGC 59.477 50.000 0.00 0.00 31.55 4.26
4233 8051 2.840511 TGACCCTACACATACCCACAT 58.159 47.619 0.00 0.00 0.00 3.21
4259 8077 1.719117 GTGTGTGTGTGTTGTCCCG 59.281 57.895 0.00 0.00 0.00 5.14
4261 8079 1.003972 CATCGTGTGTGTGTGTTGTCC 60.004 52.381 0.00 0.00 0.00 4.02
4408 9887 3.068024 GCAACCTCACAAAAGGATCAACA 59.932 43.478 0.00 0.00 38.87 3.33
4458 9940 0.179094 TTGTGGTGCTCGTCGTCTTT 60.179 50.000 0.00 0.00 0.00 2.52
4512 10001 1.403323 GACGGTTACGGGAGTTAGGAG 59.597 57.143 0.00 0.00 46.48 3.69
4513 10002 1.004745 AGACGGTTACGGGAGTTAGGA 59.995 52.381 0.00 0.00 46.48 2.94
4515 10004 2.086869 TGAGACGGTTACGGGAGTTAG 58.913 52.381 0.00 0.00 46.48 2.34
4516 10005 2.086869 CTGAGACGGTTACGGGAGTTA 58.913 52.381 0.00 0.00 46.48 2.24
4517 10006 0.886563 CTGAGACGGTTACGGGAGTT 59.113 55.000 0.00 0.00 46.48 3.01
4518 10007 0.037303 TCTGAGACGGTTACGGGAGT 59.963 55.000 0.00 0.00 46.48 3.85
4521 10010 2.686915 AGTTATCTGAGACGGTTACGGG 59.313 50.000 0.00 0.00 46.48 5.28
4524 10035 6.690194 TCCTAAGTTATCTGAGACGGTTAC 57.310 41.667 0.00 0.00 0.00 2.50
4734 10299 2.047655 CGACCCTAGCAACCGCAA 60.048 61.111 0.00 0.00 42.27 4.85
4759 10326 0.943479 TCCCCTTATTCCCTCCGGTA 59.057 55.000 0.00 0.00 0.00 4.02
4771 10338 1.113517 CCTCGAAGCCGATCCCCTTA 61.114 60.000 0.00 0.00 44.62 2.69
4813 10380 0.034380 TCAGGACGACGGAGATTCCT 60.034 55.000 0.00 0.00 39.17 3.36
4964 10531 0.109723 TCTAGTTTGCCAAAGCGGGT 59.890 50.000 0.00 0.00 44.31 5.28
5034 10601 7.357206 CAATATTTATATTCCGTTGCAACGCAC 60.357 37.037 39.42 11.40 39.59 5.34
5035 10602 6.634837 CAATATTTATATTCCGTTGCAACGCA 59.365 34.615 39.42 28.39 39.59 5.24
5036 10603 6.635239 ACAATATTTATATTCCGTTGCAACGC 59.365 34.615 39.42 11.68 39.59 4.84
5037 10604 9.313323 CTACAATATTTATATTCCGTTGCAACG 57.687 33.333 38.24 38.24 40.07 4.10
5041 10608 9.947897 CGTACTACAATATTTATATTCCGTTGC 57.052 33.333 0.00 0.00 30.91 4.17


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

AutoCloner maintained by Alex Coulton.