Multiple sequence alignment - TraesCS2D01G445000

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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 TraesCS2D01G445000 chr2D 100.000 5236 0 0 1 5236 555934189 555928954 0.000000e+00 9670.0
1 TraesCS2D01G445000 chr2D 82.680 791 107 17 976 1740 555916847 555916061 0.000000e+00 675.0
2 TraesCS2D01G445000 chr2D 80.330 666 94 18 1098 1740 154608562 154609213 2.210000e-128 470.0
3 TraesCS2D01G445000 chr2D 85.606 132 12 3 246 377 556020403 556020279 1.180000e-26 132.0
4 TraesCS2D01G445000 chr2D 83.333 132 14 3 246 377 555959846 555959723 1.190000e-21 115.0
5 TraesCS2D01G445000 chr2D 95.556 45 2 0 800 844 558960532 558960488 7.270000e-09 73.1
6 TraesCS2D01G445000 chr2B 95.717 4996 128 30 4 4962 662798420 662793474 0.000000e+00 7962.0
7 TraesCS2D01G445000 chr2B 82.828 792 104 19 976 1740 662688397 662687611 0.000000e+00 680.0
8 TraesCS2D01G445000 chr2B 83.333 132 15 3 246 377 662906804 662906680 1.190000e-21 115.0
9 TraesCS2D01G445000 chr2B 90.000 90 7 2 289 377 727499446 727499534 1.190000e-21 115.0
10 TraesCS2D01G445000 chr2B 100.000 40 0 0 798 837 448906729 448906768 2.020000e-09 75.0
11 TraesCS2D01G445000 chr2A 91.583 2495 140 23 1 2464 695352387 695349932 0.000000e+00 3380.0
12 TraesCS2D01G445000 chr2A 94.779 2107 80 9 2440 4529 695349750 695347657 0.000000e+00 3254.0
13 TraesCS2D01G445000 chr2A 92.449 437 19 6 4529 4962 695344938 695344513 3.470000e-171 612.0
14 TraesCS2D01G445000 chr2A 83.628 452 73 1 1290 1740 695318360 695317909 1.740000e-114 424.0
15 TraesCS2D01G445000 chr2A 80.580 448 56 14 1098 1526 146350514 146350079 3.040000e-82 316.0
16 TraesCS2D01G445000 chr2A 79.511 327 55 6 1416 1740 146350050 146349734 6.820000e-54 222.0
17 TraesCS2D01G445000 chr2A 82.963 135 16 3 246 380 695468768 695468641 1.190000e-21 115.0
18 TraesCS2D01G445000 chrUn 100.000 406 0 0 2545 2950 478141517 478141922 0.000000e+00 750.0
19 TraesCS2D01G445000 chrUn 93.878 49 2 1 799 847 108299102 108299055 7.270000e-09 73.1
20 TraesCS2D01G445000 chr3D 80.321 249 38 5 1416 1663 449730236 449729998 1.500000e-40 178.0
21 TraesCS2D01G445000 chr6D 79.920 249 39 4 1416 1663 428453285 428453047 6.970000e-39 172.0
22 TraesCS2D01G445000 chr5A 89.888 89 9 0 289 377 41643578 41643666 1.190000e-21 115.0
23 TraesCS2D01G445000 chr5A 93.333 45 3 0 5000 5044 601706396 601706440 3.380000e-07 67.6
24 TraesCS2D01G445000 chr1B 96.226 53 1 1 325 376 284212547 284212495 9.340000e-13 86.1
25 TraesCS2D01G445000 chr1B 95.556 45 2 0 798 842 668127135 668127091 7.270000e-09 73.1
26 TraesCS2D01G445000 chr4D 96.078 51 2 0 4966 5016 463410988 463410938 3.360000e-12 84.2
27 TraesCS2D01G445000 chr7D 87.879 66 4 2 779 841 34443183 34443247 2.020000e-09 75.0
28 TraesCS2D01G445000 chr6B 97.619 42 1 0 798 839 501066299 501066258 7.270000e-09 73.1
29 TraesCS2D01G445000 chr6B 100.000 38 0 0 4963 5000 552507158 552507121 2.620000e-08 71.3
30 TraesCS2D01G445000 chr1A 97.619 42 1 0 798 839 49963201 49963242 7.270000e-09 73.1
31 TraesCS2D01G445000 chr1A 100.000 38 0 0 4963 5000 512640235 512640272 2.620000e-08 71.3
32 TraesCS2D01G445000 chr1A 100.000 38 0 0 4963 5000 534530292 534530255 2.620000e-08 71.3
33 TraesCS2D01G445000 chr1A 100.000 38 0 0 4963 5000 548544033 548544070 2.620000e-08 71.3
34 TraesCS2D01G445000 chr6A 100.000 38 0 0 4963 5000 147454498 147454461 2.620000e-08 71.3
35 TraesCS2D01G445000 chr5B 100.000 38 0 0 4963 5000 465867803 465867840 2.620000e-08 71.3
36 TraesCS2D01G445000 chr5B 100.000 30 0 0 4999 5028 387906757 387906786 7.320000e-04 56.5
37 TraesCS2D01G445000 chr4A 100.000 38 0 0 4963 5000 499955913 499955876 2.620000e-08 71.3
38 TraesCS2D01G445000 chr4A 100.000 38 0 0 4963 5000 645948959 645948922 2.620000e-08 71.3
39 TraesCS2D01G445000 chr1D 93.023 43 1 1 4999 5041 329677081 329677121 1.570000e-05 62.1


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 TraesCS2D01G445000 chr2D 555928954 555934189 5235 True 9670.000000 9670 100.0000 1 5236 1 chr2D.!!$R2 5235
1 TraesCS2D01G445000 chr2D 555916061 555916847 786 True 675.000000 675 82.6800 976 1740 1 chr2D.!!$R1 764
2 TraesCS2D01G445000 chr2D 154608562 154609213 651 False 470.000000 470 80.3300 1098 1740 1 chr2D.!!$F1 642
3 TraesCS2D01G445000 chr2B 662793474 662798420 4946 True 7962.000000 7962 95.7170 4 4962 1 chr2B.!!$R2 4958
4 TraesCS2D01G445000 chr2B 662687611 662688397 786 True 680.000000 680 82.8280 976 1740 1 chr2B.!!$R1 764
5 TraesCS2D01G445000 chr2A 695344513 695352387 7874 True 2415.333333 3380 92.9370 1 4962 3 chr2A.!!$R4 4961
6 TraesCS2D01G445000 chr2A 146349734 146350514 780 True 269.000000 316 80.0455 1098 1740 2 chr2A.!!$R3 642

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
392 413 0.106167 TCCCACTGCTACCTCGCTAT 60.106 55.0 0.00 0.00 0.00 2.97 F
526 548 0.391661 CCATGGACACCCGTTCTCTG 60.392 60.0 5.56 0.00 34.29 3.35 F
1925 2122 0.253160 TACTGGGGCTCCATGGAGTT 60.253 55.0 36.32 19.13 43.11 3.01 F
1930 2127 0.694444 GGGCTCCATGGAGTTAGGGA 60.694 60.0 36.32 4.47 43.70 4.20 F
3006 3421 1.039068 CACACCTGGTTTTGATGCCA 58.961 50.0 0.00 0.00 0.00 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1925 2122 3.513515 GCATTTGAAACCATGGTTCCCTA 59.486 43.478 29.91 17.89 37.35 3.53 R
1930 2127 3.834489 TGTGCATTTGAAACCATGGTT 57.166 38.095 24.86 24.86 40.45 3.67 R
3008 3423 1.135527 CCAGGTTCGCTCGGTACATAA 59.864 52.381 0.00 0.00 0.00 1.90 R
3010 3425 1.255667 ACCAGGTTCGCTCGGTACAT 61.256 55.000 0.00 0.00 0.00 2.29 R
4667 7815 0.823769 GGGGGTGCTAGCAATTAGGC 60.824 60.000 21.29 5.51 0.00 3.93 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
43 44 5.010314 TCCGACTATACACATGGTTCCATAC 59.990 44.000 3.88 0.00 0.00 2.39
44 45 5.010719 CCGACTATACACATGGTTCCATACT 59.989 44.000 3.88 0.00 0.00 2.12
45 46 6.150318 CGACTATACACATGGTTCCATACTC 58.850 44.000 3.88 0.00 0.00 2.59
46 47 6.420913 ACTATACACATGGTTCCATACTCC 57.579 41.667 3.88 0.00 0.00 3.85
47 48 5.903010 ACTATACACATGGTTCCATACTCCA 59.097 40.000 3.88 0.00 35.64 3.86
48 49 5.912149 ATACACATGGTTCCATACTCCAT 57.088 39.130 3.88 0.00 41.88 3.41
49 50 7.733047 ACTATACACATGGTTCCATACTCCATA 59.267 37.037 3.88 0.00 39.57 2.74
82 83 3.191669 TCCGTTGCGATTCGTATTCAAT 58.808 40.909 8.03 0.00 0.00 2.57
283 304 3.260483 CTGCACGAGATGGCGCTC 61.260 66.667 7.64 0.00 33.86 5.03
284 305 4.819761 TGCACGAGATGGCGCTCC 62.820 66.667 7.64 0.00 33.86 4.70
392 413 0.106167 TCCCACTGCTACCTCGCTAT 60.106 55.000 0.00 0.00 0.00 2.97
393 414 1.144298 TCCCACTGCTACCTCGCTATA 59.856 52.381 0.00 0.00 0.00 1.31
526 548 0.391661 CCATGGACACCCGTTCTCTG 60.392 60.000 5.56 0.00 34.29 3.35
730 752 6.705381 TCACCTTTAGAATGCAAAAACAATGG 59.295 34.615 0.00 0.00 0.00 3.16
848 870 2.303311 AGAGGGAGTACTTTGTTCTGCC 59.697 50.000 0.00 6.75 40.54 4.85
870 892 7.051623 TGCCAGACTTAAACTGAAGAAAGTTA 58.948 34.615 9.88 0.00 39.48 2.24
887 909 1.843753 GTTATATGCCAAAACACGCGC 59.156 47.619 5.73 0.00 0.00 6.86
923 946 4.789012 TGAATGCAGATTGGTTTTCTCC 57.211 40.909 0.00 0.00 0.00 3.71
938 961 7.004086 TGGTTTTCTCCAAACTAGATGAATGT 58.996 34.615 0.00 0.00 43.95 2.71
939 962 7.040478 TGGTTTTCTCCAAACTAGATGAATGTG 60.040 37.037 0.00 0.00 43.95 3.21
1296 1358 6.934083 GTGTTGATGATTACCCAACCAAATTT 59.066 34.615 0.00 0.00 39.36 1.82
1527 1589 6.624423 CGCTCTCTCATTTTGGTTTTGATGAT 60.624 38.462 0.00 0.00 0.00 2.45
1617 1809 5.047731 TCTGTCTGTAGAGGATGTTGTTCAG 60.048 44.000 0.00 0.00 0.00 3.02
1883 2080 6.784969 ACAGTAAGGGAGAGTGCTAATGATAT 59.215 38.462 0.00 0.00 0.00 1.63
1886 2083 9.554053 AGTAAGGGAGAGTGCTAATGATATTAT 57.446 33.333 0.00 0.00 0.00 1.28
1887 2084 9.810545 GTAAGGGAGAGTGCTAATGATATTATC 57.189 37.037 0.00 0.00 0.00 1.75
1925 2122 0.253160 TACTGGGGCTCCATGGAGTT 60.253 55.000 36.32 19.13 43.11 3.01
1930 2127 0.694444 GGGCTCCATGGAGTTAGGGA 60.694 60.000 36.32 4.47 43.70 4.20
1965 2162 6.715718 TCAAATGCACAAATCCAATCCAAAAT 59.284 30.769 0.00 0.00 0.00 1.82
1969 2166 6.060136 TGCACAAATCCAATCCAAAATTTGA 58.940 32.000 7.37 0.00 40.07 2.69
1999 2196 1.356398 TCAGAAAATTTAGCCCCGGGT 59.644 47.619 21.85 3.79 0.00 5.28
2008 2205 3.565617 TTAGCCCCGGGTTATATACCT 57.434 47.619 21.85 4.71 46.86 3.08
2543 2954 2.501723 ACTACCAGGCATCGACTTCATT 59.498 45.455 0.00 0.00 0.00 2.57
2974 3389 9.636789 TTGTAGTAAGTATCTACCAGCTCATTA 57.363 33.333 0.00 0.00 37.53 1.90
2991 3406 6.989169 AGCTCATTATCTATTCTTGACCACAC 59.011 38.462 0.00 0.00 0.00 3.82
2992 3407 6.203723 GCTCATTATCTATTCTTGACCACACC 59.796 42.308 0.00 0.00 0.00 4.16
3006 3421 1.039068 CACACCTGGTTTTGATGCCA 58.961 50.000 0.00 0.00 0.00 4.92
3008 3423 2.037511 CACACCTGGTTTTGATGCCATT 59.962 45.455 0.00 0.00 33.84 3.16
3010 3425 3.900601 ACACCTGGTTTTGATGCCATTTA 59.099 39.130 0.00 0.00 33.84 1.40
3019 3434 5.749596 TTTGATGCCATTTATGTACCGAG 57.250 39.130 0.00 0.00 0.00 4.63
3216 3631 0.324091 CAAAGATGCCCAGGCCTTCT 60.324 55.000 0.00 0.00 41.09 2.85
3219 3634 4.809496 ATGCCCAGGCCTTCTGCG 62.809 66.667 0.00 0.00 42.05 5.18
3361 3776 8.021396 GTGTTATTTCTAGAAAAATGGACGCTT 58.979 33.333 21.26 4.18 33.56 4.68
3457 3875 3.321968 AGATCACTGTGTTGAGTGTGCTA 59.678 43.478 7.79 0.00 43.38 3.49
3534 3959 6.184789 GGACCTAGTAAATTGGTGGATGAAA 58.815 40.000 0.00 0.00 37.13 2.69
3735 4160 7.918536 ATGTGATCTATCAAATATGCTGTCC 57.081 36.000 0.00 0.00 38.75 4.02
3839 4265 1.818674 GCGAAGGTGGATTTGGTTGAT 59.181 47.619 0.00 0.00 0.00 2.57
3843 4269 3.737559 AGGTGGATTTGGTTGATGCTA 57.262 42.857 0.00 0.00 0.00 3.49
3949 4375 5.699458 TGAAGTTTTGGTCTCTTCCGAATAC 59.301 40.000 0.00 0.00 37.39 1.89
4271 4699 1.002773 AGAATTGGTTTCGGCTACGGT 59.997 47.619 0.00 0.00 39.46 4.83
4309 4737 7.335924 TCATTTAGAAGAACAGGTTTATTCCCG 59.664 37.037 7.18 0.00 0.00 5.14
4310 4738 4.635699 AGAAGAACAGGTTTATTCCCGT 57.364 40.909 7.18 0.00 0.00 5.28
4311 4739 4.324267 AGAAGAACAGGTTTATTCCCGTG 58.676 43.478 7.18 0.00 0.00 4.94
4312 4740 2.433436 AGAACAGGTTTATTCCCGTGC 58.567 47.619 0.00 0.00 0.00 5.34
4313 4741 1.471287 GAACAGGTTTATTCCCGTGCC 59.529 52.381 0.00 0.00 0.00 5.01
4314 4742 0.675522 ACAGGTTTATTCCCGTGCCG 60.676 55.000 0.00 0.00 0.00 5.69
4315 4743 0.675522 CAGGTTTATTCCCGTGCCGT 60.676 55.000 0.00 0.00 0.00 5.68
4469 4897 3.217681 TCAGTTCCGTAAAAGGCCTTT 57.782 42.857 25.47 25.47 0.00 3.11
4673 7821 3.034635 ACAAGATCGTCCTCTGCCTAAT 58.965 45.455 0.00 0.00 0.00 1.73
4842 7992 2.203029 GGTAACCCTAGCTGCCGC 60.203 66.667 0.00 0.00 0.00 6.53
4873 8026 2.114506 TCTTCCCTCTCCTTTCCTCCTT 59.885 50.000 0.00 0.00 0.00 3.36
4874 8027 2.255770 TCCCTCTCCTTTCCTCCTTC 57.744 55.000 0.00 0.00 0.00 3.46
4875 8028 1.725182 TCCCTCTCCTTTCCTCCTTCT 59.275 52.381 0.00 0.00 0.00 2.85
4892 8045 3.068691 TCCCTCGCCTCCGTCAAG 61.069 66.667 0.00 0.00 35.54 3.02
4901 8054 3.081409 TCCGTCAAGGGGCTAGGC 61.081 66.667 8.00 8.00 41.52 3.93
4902 8055 4.530857 CCGTCAAGGGGCTAGGCG 62.531 72.222 10.58 0.00 35.97 5.52
4903 8056 3.458163 CGTCAAGGGGCTAGGCGA 61.458 66.667 10.58 0.00 0.00 5.54
4904 8057 2.501610 GTCAAGGGGCTAGGCGAG 59.498 66.667 10.58 0.03 0.00 5.03
4905 8058 2.764128 TCAAGGGGCTAGGCGAGG 60.764 66.667 10.58 0.00 0.00 4.63
4954 8107 1.414061 ATGGGATCTCTCGCCCCTTG 61.414 60.000 0.00 0.00 44.03 3.61
4967 8120 4.577152 CCTTGTTGGGTGAGCACA 57.423 55.556 2.75 0.00 0.00 4.57
4968 8121 3.040965 CCTTGTTGGGTGAGCACAT 57.959 52.632 2.75 0.00 0.00 3.21
4969 8122 0.883833 CCTTGTTGGGTGAGCACATC 59.116 55.000 2.75 0.00 0.00 3.06
4970 8123 1.546323 CCTTGTTGGGTGAGCACATCT 60.546 52.381 2.75 0.00 0.00 2.90
4971 8124 2.290260 CCTTGTTGGGTGAGCACATCTA 60.290 50.000 2.75 0.00 0.00 1.98
4972 8125 2.768253 TGTTGGGTGAGCACATCTAG 57.232 50.000 2.75 0.00 0.00 2.43
4973 8126 2.256306 TGTTGGGTGAGCACATCTAGA 58.744 47.619 0.00 0.00 0.00 2.43
4974 8127 2.840038 TGTTGGGTGAGCACATCTAGAT 59.160 45.455 0.00 0.00 0.00 1.98
4975 8128 3.201290 GTTGGGTGAGCACATCTAGATG 58.799 50.000 27.63 27.63 44.15 2.90
4991 8144 8.822652 CATCTAGATGTGTCATAAGTATTGCA 57.177 34.615 22.42 0.00 34.23 4.08
4992 8145 8.706936 CATCTAGATGTGTCATAAGTATTGCAC 58.293 37.037 22.42 0.00 34.23 4.57
4993 8146 7.781056 TCTAGATGTGTCATAAGTATTGCACA 58.219 34.615 0.00 0.00 40.42 4.57
4994 8147 8.424133 TCTAGATGTGTCATAAGTATTGCACAT 58.576 33.333 13.21 13.21 46.19 3.21
4998 8151 8.962884 ATGTGTCATAAGTATTGCACATCTAA 57.037 30.769 0.00 0.00 41.81 2.10
4999 8152 8.424274 TGTGTCATAAGTATTGCACATCTAAG 57.576 34.615 0.00 0.00 32.79 2.18
5000 8153 8.257306 TGTGTCATAAGTATTGCACATCTAAGA 58.743 33.333 0.00 0.00 32.79 2.10
5001 8154 8.759641 GTGTCATAAGTATTGCACATCTAAGAG 58.240 37.037 0.00 0.00 0.00 2.85
5002 8155 7.439356 TGTCATAAGTATTGCACATCTAAGAGC 59.561 37.037 0.00 0.00 0.00 4.09
5003 8156 7.439356 GTCATAAGTATTGCACATCTAAGAGCA 59.561 37.037 0.00 0.00 33.30 4.26
5004 8157 8.152898 TCATAAGTATTGCACATCTAAGAGCAT 58.847 33.333 0.00 0.00 35.12 3.79
5005 8158 6.857777 AAGTATTGCACATCTAAGAGCATC 57.142 37.500 0.00 0.00 35.12 3.91
5019 8172 2.998772 GAGCATCTCTAGCAGACTTCG 58.001 52.381 0.00 0.00 32.26 3.79
5020 8173 2.357637 GAGCATCTCTAGCAGACTTCGT 59.642 50.000 0.00 0.00 32.26 3.85
5021 8174 3.546724 AGCATCTCTAGCAGACTTCGTA 58.453 45.455 0.00 0.00 32.26 3.43
5022 8175 4.141287 AGCATCTCTAGCAGACTTCGTAT 58.859 43.478 0.00 0.00 32.26 3.06
5023 8176 5.309638 AGCATCTCTAGCAGACTTCGTATA 58.690 41.667 0.00 0.00 32.26 1.47
5024 8177 5.765677 AGCATCTCTAGCAGACTTCGTATAA 59.234 40.000 0.00 0.00 32.26 0.98
5025 8178 6.432783 AGCATCTCTAGCAGACTTCGTATAAT 59.567 38.462 0.00 0.00 32.26 1.28
5026 8179 6.526325 GCATCTCTAGCAGACTTCGTATAATG 59.474 42.308 0.00 0.00 32.26 1.90
5027 8180 6.003234 TCTCTAGCAGACTTCGTATAATGC 57.997 41.667 0.00 0.00 0.00 3.56
5028 8181 5.048643 TCTCTAGCAGACTTCGTATAATGCC 60.049 44.000 0.00 0.00 34.24 4.40
5029 8182 4.827835 TCTAGCAGACTTCGTATAATGCCT 59.172 41.667 0.00 0.00 34.24 4.75
5030 8183 3.983741 AGCAGACTTCGTATAATGCCTC 58.016 45.455 0.00 0.00 34.24 4.70
5031 8184 3.384789 AGCAGACTTCGTATAATGCCTCA 59.615 43.478 0.00 0.00 34.24 3.86
5032 8185 4.119862 GCAGACTTCGTATAATGCCTCAA 58.880 43.478 0.00 0.00 0.00 3.02
5033 8186 4.025647 GCAGACTTCGTATAATGCCTCAAC 60.026 45.833 0.00 0.00 0.00 3.18
5034 8187 4.508124 CAGACTTCGTATAATGCCTCAACC 59.492 45.833 0.00 0.00 0.00 3.77
5035 8188 3.805207 ACTTCGTATAATGCCTCAACCC 58.195 45.455 0.00 0.00 0.00 4.11
5036 8189 2.519377 TCGTATAATGCCTCAACCCG 57.481 50.000 0.00 0.00 0.00 5.28
5037 8190 1.758280 TCGTATAATGCCTCAACCCGT 59.242 47.619 0.00 0.00 0.00 5.28
5038 8191 2.957680 TCGTATAATGCCTCAACCCGTA 59.042 45.455 0.00 0.00 0.00 4.02
5039 8192 3.384146 TCGTATAATGCCTCAACCCGTAA 59.616 43.478 0.00 0.00 0.00 3.18
5040 8193 4.121317 CGTATAATGCCTCAACCCGTAAA 58.879 43.478 0.00 0.00 0.00 2.01
5041 8194 4.571580 CGTATAATGCCTCAACCCGTAAAA 59.428 41.667 0.00 0.00 0.00 1.52
5042 8195 5.237779 CGTATAATGCCTCAACCCGTAAAAT 59.762 40.000 0.00 0.00 0.00 1.82
5043 8196 6.424509 CGTATAATGCCTCAACCCGTAAAATA 59.575 38.462 0.00 0.00 0.00 1.40
5044 8197 7.118680 CGTATAATGCCTCAACCCGTAAAATAT 59.881 37.037 0.00 0.00 0.00 1.28
5045 8198 7.833285 ATAATGCCTCAACCCGTAAAATATT 57.167 32.000 0.00 0.00 0.00 1.28
5046 8199 6.538945 AATGCCTCAACCCGTAAAATATTT 57.461 33.333 0.00 0.00 0.00 1.40
5047 8200 5.570234 TGCCTCAACCCGTAAAATATTTC 57.430 39.130 0.10 0.00 0.00 2.17
5048 8201 5.010933 TGCCTCAACCCGTAAAATATTTCA 58.989 37.500 0.10 0.00 0.00 2.69
5049 8202 5.106078 TGCCTCAACCCGTAAAATATTTCAC 60.106 40.000 0.10 0.00 0.00 3.18
5050 8203 5.124936 GCCTCAACCCGTAAAATATTTCACT 59.875 40.000 0.10 0.00 0.00 3.41
5051 8204 6.551736 CCTCAACCCGTAAAATATTTCACTG 58.448 40.000 0.10 0.00 0.00 3.66
5052 8205 6.373216 CCTCAACCCGTAAAATATTTCACTGA 59.627 38.462 0.10 0.00 0.00 3.41
5053 8206 7.094549 CCTCAACCCGTAAAATATTTCACTGAA 60.095 37.037 0.10 0.00 0.00 3.02
5054 8207 8.167605 TCAACCCGTAAAATATTTCACTGAAA 57.832 30.769 6.67 6.67 35.94 2.69
5055 8208 8.077386 TCAACCCGTAAAATATTTCACTGAAAC 58.923 33.333 6.35 0.00 34.23 2.78
5056 8209 7.754851 ACCCGTAAAATATTTCACTGAAACT 57.245 32.000 6.35 0.19 34.23 2.66
5057 8210 8.173542 ACCCGTAAAATATTTCACTGAAACTT 57.826 30.769 6.35 1.57 34.23 2.66
5058 8211 8.294577 ACCCGTAAAATATTTCACTGAAACTTC 58.705 33.333 6.35 0.00 34.23 3.01
5059 8212 8.293867 CCCGTAAAATATTTCACTGAAACTTCA 58.706 33.333 6.35 0.00 34.23 3.02
5060 8213 9.840427 CCGTAAAATATTTCACTGAAACTTCAT 57.160 29.630 6.35 0.00 34.23 2.57
5090 8243 3.055719 CCATGGTGGTGCGTGGTC 61.056 66.667 2.57 0.00 31.35 4.02
5091 8244 3.422303 CATGGTGGTGCGTGGTCG 61.422 66.667 0.00 0.00 40.37 4.79
5092 8245 4.697756 ATGGTGGTGCGTGGTCGG 62.698 66.667 0.00 0.00 37.56 4.79
5117 8270 3.127533 GCGTCGGCTGGATTTGCT 61.128 61.111 0.00 0.00 35.83 3.91
5118 8271 3.093278 CGTCGGCTGGATTTGCTC 58.907 61.111 0.00 0.00 0.00 4.26
5119 8272 2.802667 CGTCGGCTGGATTTGCTCG 61.803 63.158 0.00 0.00 0.00 5.03
5120 8273 2.125147 TCGGCTGGATTTGCTCGG 60.125 61.111 0.00 0.00 0.00 4.63
5121 8274 3.204827 CGGCTGGATTTGCTCGGG 61.205 66.667 0.00 0.00 0.00 5.14
5122 8275 2.830370 GGCTGGATTTGCTCGGGG 60.830 66.667 0.00 0.00 0.00 5.73
5123 8276 2.830370 GCTGGATTTGCTCGGGGG 60.830 66.667 0.00 0.00 0.00 5.40
5140 8293 2.977914 GGGGGTAGAAAAGGTTACGAC 58.022 52.381 0.00 0.00 0.00 4.34
5141 8294 2.302733 GGGGGTAGAAAAGGTTACGACA 59.697 50.000 0.00 0.00 0.00 4.35
5142 8295 3.593096 GGGGTAGAAAAGGTTACGACAG 58.407 50.000 0.00 0.00 0.00 3.51
5143 8296 2.998670 GGGTAGAAAAGGTTACGACAGC 59.001 50.000 0.00 0.00 0.00 4.40
5144 8297 3.306571 GGGTAGAAAAGGTTACGACAGCT 60.307 47.826 0.00 0.00 0.00 4.24
5145 8298 4.313282 GGTAGAAAAGGTTACGACAGCTT 58.687 43.478 0.00 0.00 36.00 3.74
5146 8299 4.151867 GGTAGAAAAGGTTACGACAGCTTG 59.848 45.833 0.00 0.00 34.68 4.01
5147 8300 3.139077 AGAAAAGGTTACGACAGCTTGG 58.861 45.455 0.00 0.00 34.68 3.61
5148 8301 2.632987 AAAGGTTACGACAGCTTGGT 57.367 45.000 0.00 0.00 34.68 3.67
5149 8302 3.756933 AAAGGTTACGACAGCTTGGTA 57.243 42.857 0.00 0.00 34.68 3.25
5150 8303 3.975168 AAGGTTACGACAGCTTGGTAT 57.025 42.857 0.00 0.00 33.17 2.73
5151 8304 3.247006 AGGTTACGACAGCTTGGTATG 57.753 47.619 0.00 0.00 0.00 2.39
5152 8305 2.093658 AGGTTACGACAGCTTGGTATGG 60.094 50.000 0.00 0.00 0.00 2.74
5153 8306 2.277084 GTTACGACAGCTTGGTATGGG 58.723 52.381 0.00 0.00 0.00 4.00
5154 8307 0.828022 TACGACAGCTTGGTATGGGG 59.172 55.000 0.00 0.00 0.00 4.96
5155 8308 0.907704 ACGACAGCTTGGTATGGGGA 60.908 55.000 0.00 0.00 0.00 4.81
5156 8309 0.469917 CGACAGCTTGGTATGGGGAT 59.530 55.000 0.00 0.00 0.00 3.85
5157 8310 1.811558 CGACAGCTTGGTATGGGGATG 60.812 57.143 0.00 0.00 0.00 3.51
5158 8311 1.212935 GACAGCTTGGTATGGGGATGT 59.787 52.381 0.00 0.00 0.00 3.06
5159 8312 1.064463 ACAGCTTGGTATGGGGATGTG 60.064 52.381 0.00 0.00 0.00 3.21
5160 8313 0.106519 AGCTTGGTATGGGGATGTGC 60.107 55.000 0.00 0.00 0.00 4.57
5161 8314 0.106519 GCTTGGTATGGGGATGTGCT 60.107 55.000 0.00 0.00 0.00 4.40
5162 8315 1.686115 GCTTGGTATGGGGATGTGCTT 60.686 52.381 0.00 0.00 0.00 3.91
5163 8316 2.026641 CTTGGTATGGGGATGTGCTTG 58.973 52.381 0.00 0.00 0.00 4.01
5164 8317 0.258484 TGGTATGGGGATGTGCTTGG 59.742 55.000 0.00 0.00 0.00 3.61
5165 8318 1.109323 GGTATGGGGATGTGCTTGGC 61.109 60.000 0.00 0.00 0.00 4.52
5166 8319 1.152984 TATGGGGATGTGCTTGGCG 60.153 57.895 0.00 0.00 0.00 5.69
5167 8320 2.623094 TATGGGGATGTGCTTGGCGG 62.623 60.000 0.00 0.00 0.00 6.13
5171 8324 3.430862 GATGTGCTTGGCGGCGAA 61.431 61.111 12.98 0.00 34.52 4.70
5172 8325 2.751436 ATGTGCTTGGCGGCGAAT 60.751 55.556 12.98 0.00 34.52 3.34
5173 8326 2.924922 GATGTGCTTGGCGGCGAATG 62.925 60.000 12.98 0.87 34.52 2.67
5174 8327 3.737172 GTGCTTGGCGGCGAATGT 61.737 61.111 12.98 0.00 34.52 2.71
5175 8328 3.736100 TGCTTGGCGGCGAATGTG 61.736 61.111 12.98 0.00 34.52 3.21
5177 8330 4.817063 CTTGGCGGCGAATGTGCG 62.817 66.667 12.98 0.00 35.06 5.34
5183 8336 4.147322 GGCGAATGTGCGACGTGG 62.147 66.667 0.00 0.00 35.06 4.94
5184 8337 4.147322 GCGAATGTGCGACGTGGG 62.147 66.667 0.00 0.00 0.00 4.61
5185 8338 4.147322 CGAATGTGCGACGTGGGC 62.147 66.667 0.00 0.00 0.00 5.36
5186 8339 4.147322 GAATGTGCGACGTGGGCG 62.147 66.667 0.00 0.00 44.93 6.13
5203 8356 4.446413 GTAGGGGGCGTCGTGGTG 62.446 72.222 0.00 0.00 0.00 4.17
5217 8370 4.778143 GGTGGTGGTGCGGGCTAG 62.778 72.222 0.00 0.00 0.00 3.42
5218 8371 4.778143 GTGGTGGTGCGGGCTAGG 62.778 72.222 0.00 0.00 0.00 3.02
5220 8373 4.029809 GGTGGTGCGGGCTAGGTT 62.030 66.667 0.00 0.00 0.00 3.50
5221 8374 2.662070 GGTGGTGCGGGCTAGGTTA 61.662 63.158 0.00 0.00 0.00 2.85
5222 8375 1.525442 GTGGTGCGGGCTAGGTTAT 59.475 57.895 0.00 0.00 0.00 1.89
5223 8376 0.107361 GTGGTGCGGGCTAGGTTATT 60.107 55.000 0.00 0.00 0.00 1.40
5224 8377 1.139455 GTGGTGCGGGCTAGGTTATTA 59.861 52.381 0.00 0.00 0.00 0.98
5225 8378 1.414919 TGGTGCGGGCTAGGTTATTAG 59.585 52.381 0.00 0.00 0.00 1.73
5226 8379 1.690352 GGTGCGGGCTAGGTTATTAGA 59.310 52.381 0.00 0.00 0.00 2.10
5227 8380 2.103601 GGTGCGGGCTAGGTTATTAGAA 59.896 50.000 0.00 0.00 0.00 2.10
5228 8381 3.129109 GTGCGGGCTAGGTTATTAGAAC 58.871 50.000 0.00 0.00 0.00 3.01
5229 8382 3.036091 TGCGGGCTAGGTTATTAGAACT 58.964 45.455 0.00 0.00 0.00 3.01
5230 8383 3.453353 TGCGGGCTAGGTTATTAGAACTT 59.547 43.478 0.00 0.00 0.00 2.66
5231 8384 4.056740 GCGGGCTAGGTTATTAGAACTTC 58.943 47.826 0.00 0.00 0.00 3.01
5232 8385 4.629092 CGGGCTAGGTTATTAGAACTTCC 58.371 47.826 0.00 0.00 0.00 3.46
5233 8386 4.629092 GGGCTAGGTTATTAGAACTTCCG 58.371 47.826 0.00 0.00 0.00 4.30
5234 8387 4.502777 GGGCTAGGTTATTAGAACTTCCGG 60.503 50.000 0.00 0.00 0.00 5.14
5235 8388 4.343239 GGCTAGGTTATTAGAACTTCCGGA 59.657 45.833 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 4.761227 TGGTGTGTCTAGTAATGTACACGA 59.239 41.667 0.00 0.00 44.03 4.35
464 486 4.148891 GTTCGTAATTTCCAGTTTGCGAG 58.851 43.478 0.00 0.00 40.19 5.03
526 548 4.142138 ACTCCGAATCACAATCTACAGACC 60.142 45.833 0.00 0.00 0.00 3.85
730 752 4.025563 GCGGTTTTGTTTTACCAATTCCAC 60.026 41.667 0.00 0.00 33.94 4.02
870 892 1.138671 GGCGCGTGTTTTGGCATAT 59.861 52.632 8.43 0.00 0.00 1.78
923 946 4.152223 TGTCGTGCACATTCATCTAGTTTG 59.848 41.667 18.64 0.00 0.00 2.93
938 961 6.312399 AGATTTGAAATTTACTGTCGTGCA 57.688 33.333 0.00 0.00 0.00 4.57
939 962 5.795441 GGAGATTTGAAATTTACTGTCGTGC 59.205 40.000 0.00 0.00 0.00 5.34
1461 1523 4.892934 TGCACCCACTCAAAAATAACTTCT 59.107 37.500 0.00 0.00 0.00 2.85
1527 1589 7.606135 TTCAGAATCCCGTATTACTATTCCA 57.394 36.000 0.00 0.00 0.00 3.53
1802 1997 4.144297 AGAGCTGGAGTTGCAAAATAACA 58.856 39.130 0.00 0.00 0.00 2.41
1925 2122 3.513515 GCATTTGAAACCATGGTTCCCTA 59.486 43.478 29.91 17.89 37.35 3.53
1930 2127 3.834489 TGTGCATTTGAAACCATGGTT 57.166 38.095 24.86 24.86 40.45 3.67
1986 2183 4.849813 GGTATATAACCCGGGGCTAAAT 57.150 45.455 27.92 13.73 43.16 1.40
2543 2954 6.767524 AAATAATGACGGCATGGAAGTTTA 57.232 33.333 3.39 0.00 34.26 2.01
2974 3389 4.494091 CCAGGTGTGGTCAAGAATAGAT 57.506 45.455 0.00 0.00 39.30 1.98
2991 3406 5.088680 ACATAAATGGCATCAAAACCAGG 57.911 39.130 0.00 0.00 39.88 4.45
2992 3407 6.042143 GGTACATAAATGGCATCAAAACCAG 58.958 40.000 0.00 0.00 39.88 4.00
3006 3421 3.454375 CAGGTTCGCTCGGTACATAAAT 58.546 45.455 0.00 0.00 0.00 1.40
3008 3423 1.135527 CCAGGTTCGCTCGGTACATAA 59.864 52.381 0.00 0.00 0.00 1.90
3010 3425 1.255667 ACCAGGTTCGCTCGGTACAT 61.256 55.000 0.00 0.00 0.00 2.29
3019 3434 1.949257 CACTTTGGACCAGGTTCGC 59.051 57.895 0.00 0.00 0.00 4.70
3147 3562 6.238211 GCAGCAAATAGAGTGATCGTGTAATT 60.238 38.462 0.00 0.00 0.00 1.40
3154 3569 2.799412 GAGGCAGCAAATAGAGTGATCG 59.201 50.000 0.00 0.00 0.00 3.69
3216 3631 7.710907 AGAGTTATATTTGTTCTAGAATGCGCA 59.289 33.333 14.96 14.96 0.00 6.09
3335 3750 7.527457 AGCGTCCATTTTTCTAGAAATAACAC 58.473 34.615 18.37 10.60 0.00 3.32
3337 3752 8.234546 TCAAGCGTCCATTTTTCTAGAAATAAC 58.765 33.333 18.37 8.42 0.00 1.89
3361 3776 5.945784 CCCTAACAGAAATGATGGAACTTCA 59.054 40.000 0.00 0.00 0.00 3.02
3429 3844 5.928839 ACACTCAACACAGTGATCTCAATAC 59.071 40.000 7.81 0.00 45.92 1.89
3465 3890 4.050553 CGTACCTTTTCACGTTCCTGTAA 58.949 43.478 0.00 0.00 33.56 2.41
3735 4160 4.079970 TGGTATCCAGAGAATAGCTACCG 58.920 47.826 0.00 0.00 31.79 4.02
3821 4247 2.827921 AGCATCAACCAAATCCACCTTC 59.172 45.455 0.00 0.00 0.00 3.46
4124 4550 1.957177 CCATAGTGCTCCGAGCTCTTA 59.043 52.381 25.58 13.73 41.75 2.10
4271 4699 6.126863 TCTTCTAAATGAGGAAAGGCTTCA 57.873 37.500 0.00 0.00 36.99 3.02
4309 4737 8.807667 AACTGTATATATACTTGTAACGGCAC 57.192 34.615 20.80 0.00 34.41 5.01
4310 4738 9.467258 GAAACTGTATATATACTTGTAACGGCA 57.533 33.333 20.80 0.00 34.41 5.69
4311 4739 9.467258 TGAAACTGTATATATACTTGTAACGGC 57.533 33.333 20.80 10.08 34.41 5.68
4581 7729 6.127507 TGTCCAGAGATCAAGTACTTCAGATG 60.128 42.308 11.96 0.00 0.00 2.90
4586 7734 5.652994 ACTGTCCAGAGATCAAGTACTTC 57.347 43.478 4.77 0.00 0.00 3.01
4660 7808 2.158900 TGCTAGCAATTAGGCAGAGGAC 60.159 50.000 16.84 0.00 35.83 3.85
4661 7809 2.118679 TGCTAGCAATTAGGCAGAGGA 58.881 47.619 16.84 0.00 35.83 3.71
4662 7810 2.216898 GTGCTAGCAATTAGGCAGAGG 58.783 52.381 21.29 0.00 35.29 3.69
4667 7815 0.823769 GGGGGTGCTAGCAATTAGGC 60.824 60.000 21.29 5.51 0.00 3.93
4673 7821 3.256178 TGCTGGGGGTGCTAGCAA 61.256 61.111 21.29 1.80 43.77 3.91
4873 8026 3.578968 TTGACGGAGGCGAGGGAGA 62.579 63.158 0.00 0.00 0.00 3.71
4874 8027 3.068691 TTGACGGAGGCGAGGGAG 61.069 66.667 0.00 0.00 0.00 4.30
4875 8028 3.068691 CTTGACGGAGGCGAGGGA 61.069 66.667 0.00 0.00 0.00 4.20
4892 8045 3.307108 CTAGCCTCGCCTAGCCCC 61.307 72.222 0.00 0.00 0.00 5.80
4954 8107 3.201290 CATCTAGATGTGCTCACCCAAC 58.799 50.000 22.42 0.00 34.23 3.77
4966 8119 8.706936 GTGCAATACTTATGACACATCTAGATG 58.293 37.037 27.63 27.63 44.15 2.90
4967 8120 8.424133 TGTGCAATACTTATGACACATCTAGAT 58.576 33.333 0.00 0.00 33.26 1.98
4968 8121 7.781056 TGTGCAATACTTATGACACATCTAGA 58.219 34.615 0.00 0.00 33.26 2.43
4969 8122 8.599055 ATGTGCAATACTTATGACACATCTAG 57.401 34.615 9.84 0.00 39.26 2.43
4970 8123 8.593492 GATGTGCAATACTTATGACACATCTA 57.407 34.615 22.83 2.36 45.69 1.98
4971 8124 7.488187 GATGTGCAATACTTATGACACATCT 57.512 36.000 22.83 7.26 45.69 2.90
4973 8126 8.962884 TTAGATGTGCAATACTTATGACACAT 57.037 30.769 13.39 13.39 42.56 3.21
4974 8127 8.257306 TCTTAGATGTGCAATACTTATGACACA 58.743 33.333 0.00 0.00 38.34 3.72
4975 8128 8.648557 TCTTAGATGTGCAATACTTATGACAC 57.351 34.615 0.00 0.00 0.00 3.67
4976 8129 7.439356 GCTCTTAGATGTGCAATACTTATGACA 59.561 37.037 0.00 0.00 0.00 3.58
4977 8130 7.439356 TGCTCTTAGATGTGCAATACTTATGAC 59.561 37.037 0.00 0.00 34.19 3.06
4978 8131 7.500141 TGCTCTTAGATGTGCAATACTTATGA 58.500 34.615 0.00 0.00 34.19 2.15
4979 8132 7.719778 TGCTCTTAGATGTGCAATACTTATG 57.280 36.000 0.00 0.00 34.19 1.90
4980 8133 8.373981 AGATGCTCTTAGATGTGCAATACTTAT 58.626 33.333 0.00 0.00 39.39 1.73
4981 8134 7.730084 AGATGCTCTTAGATGTGCAATACTTA 58.270 34.615 0.00 0.00 39.39 2.24
4982 8135 6.590068 AGATGCTCTTAGATGTGCAATACTT 58.410 36.000 0.00 0.00 39.39 2.24
4983 8136 6.041865 AGAGATGCTCTTAGATGTGCAATACT 59.958 38.462 0.00 0.70 37.60 2.12
4984 8137 6.222389 AGAGATGCTCTTAGATGTGCAATAC 58.778 40.000 0.00 0.00 37.60 1.89
4985 8138 6.416631 AGAGATGCTCTTAGATGTGCAATA 57.583 37.500 0.00 0.00 37.60 1.90
4986 8139 5.293319 AGAGATGCTCTTAGATGTGCAAT 57.707 39.130 0.00 0.00 37.60 3.56
4987 8140 4.750021 AGAGATGCTCTTAGATGTGCAA 57.250 40.909 0.00 0.00 37.60 4.08
4988 8141 4.261952 GCTAGAGATGCTCTTAGATGTGCA 60.262 45.833 1.88 0.00 41.50 4.57
4989 8142 4.236935 GCTAGAGATGCTCTTAGATGTGC 58.763 47.826 1.88 0.00 41.50 4.57
4990 8143 5.241285 TCTGCTAGAGATGCTCTTAGATGTG 59.759 44.000 1.88 0.00 41.50 3.21
4991 8144 5.241506 GTCTGCTAGAGATGCTCTTAGATGT 59.758 44.000 1.88 0.00 41.50 3.06
4992 8145 5.474532 AGTCTGCTAGAGATGCTCTTAGATG 59.525 44.000 1.88 0.00 41.50 2.90
4993 8146 5.634118 AGTCTGCTAGAGATGCTCTTAGAT 58.366 41.667 1.88 0.00 41.50 1.98
4994 8147 5.047566 AGTCTGCTAGAGATGCTCTTAGA 57.952 43.478 1.88 2.76 41.50 2.10
4995 8148 5.560760 CGAAGTCTGCTAGAGATGCTCTTAG 60.561 48.000 1.88 0.61 41.50 2.18
4996 8149 4.274705 CGAAGTCTGCTAGAGATGCTCTTA 59.725 45.833 1.88 0.00 41.50 2.10
4997 8150 3.066621 CGAAGTCTGCTAGAGATGCTCTT 59.933 47.826 1.88 0.00 41.50 2.85
4998 8151 2.618241 CGAAGTCTGCTAGAGATGCTCT 59.382 50.000 0.00 2.22 43.83 4.09
4999 8152 2.357637 ACGAAGTCTGCTAGAGATGCTC 59.642 50.000 0.00 0.00 29.74 4.26
5000 8153 2.374184 ACGAAGTCTGCTAGAGATGCT 58.626 47.619 0.00 0.00 29.74 3.79
5001 8154 2.861462 ACGAAGTCTGCTAGAGATGC 57.139 50.000 0.00 0.00 29.74 3.91
5002 8155 6.526325 GCATTATACGAAGTCTGCTAGAGATG 59.474 42.308 0.00 0.00 43.93 2.90
5003 8156 6.349777 GGCATTATACGAAGTCTGCTAGAGAT 60.350 42.308 0.00 0.00 43.93 2.75
5004 8157 5.048643 GGCATTATACGAAGTCTGCTAGAGA 60.049 44.000 0.00 0.00 43.93 3.10
5005 8158 5.048364 AGGCATTATACGAAGTCTGCTAGAG 60.048 44.000 0.00 0.00 43.93 2.43
5006 8159 4.827835 AGGCATTATACGAAGTCTGCTAGA 59.172 41.667 0.00 0.00 43.93 2.43
5007 8160 5.127693 AGGCATTATACGAAGTCTGCTAG 57.872 43.478 0.00 0.00 43.93 3.42
5008 8161 4.583073 TGAGGCATTATACGAAGTCTGCTA 59.417 41.667 0.00 0.00 43.93 3.49
5009 8162 3.384789 TGAGGCATTATACGAAGTCTGCT 59.615 43.478 0.00 0.00 43.93 4.24
5010 8163 3.717707 TGAGGCATTATACGAAGTCTGC 58.282 45.455 0.00 0.00 43.93 4.26
5011 8164 4.508124 GGTTGAGGCATTATACGAAGTCTG 59.492 45.833 0.00 0.00 43.93 3.51
5012 8165 4.443034 GGGTTGAGGCATTATACGAAGTCT 60.443 45.833 0.00 0.00 43.93 3.24
5013 8166 3.808174 GGGTTGAGGCATTATACGAAGTC 59.192 47.826 0.00 0.00 43.93 3.01
5015 8168 2.800544 CGGGTTGAGGCATTATACGAAG 59.199 50.000 0.00 0.00 0.00 3.79
5016 8169 2.168936 ACGGGTTGAGGCATTATACGAA 59.831 45.455 0.00 0.00 0.00 3.85
5017 8170 1.758280 ACGGGTTGAGGCATTATACGA 59.242 47.619 0.00 0.00 0.00 3.43
5018 8171 2.234300 ACGGGTTGAGGCATTATACG 57.766 50.000 0.00 0.00 0.00 3.06
5019 8172 6.628919 ATTTTACGGGTTGAGGCATTATAC 57.371 37.500 0.00 0.00 0.00 1.47
5020 8173 8.927675 AATATTTTACGGGTTGAGGCATTATA 57.072 30.769 0.00 0.00 0.00 0.98
5021 8174 7.833285 AATATTTTACGGGTTGAGGCATTAT 57.167 32.000 0.00 0.00 0.00 1.28
5022 8175 7.339721 TGAAATATTTTACGGGTTGAGGCATTA 59.660 33.333 1.43 0.00 0.00 1.90
5023 8176 6.153680 TGAAATATTTTACGGGTTGAGGCATT 59.846 34.615 1.43 0.00 0.00 3.56
5024 8177 5.654650 TGAAATATTTTACGGGTTGAGGCAT 59.345 36.000 1.43 0.00 0.00 4.40
5025 8178 5.010933 TGAAATATTTTACGGGTTGAGGCA 58.989 37.500 1.43 0.00 0.00 4.75
5026 8179 5.124936 AGTGAAATATTTTACGGGTTGAGGC 59.875 40.000 15.15 0.00 32.57 4.70
5027 8180 6.373216 TCAGTGAAATATTTTACGGGTTGAGG 59.627 38.462 18.43 4.93 32.57 3.86
5028 8181 7.372451 TCAGTGAAATATTTTACGGGTTGAG 57.628 36.000 18.43 6.20 32.57 3.02
5029 8182 7.747155 TTCAGTGAAATATTTTACGGGTTGA 57.253 32.000 18.43 13.15 32.57 3.18
5030 8183 8.079809 AGTTTCAGTGAAATATTTTACGGGTTG 58.920 33.333 20.72 11.51 33.97 3.77
5031 8184 8.173542 AGTTTCAGTGAAATATTTTACGGGTT 57.826 30.769 20.72 1.38 33.97 4.11
5032 8185 7.754851 AGTTTCAGTGAAATATTTTACGGGT 57.245 32.000 20.72 1.67 33.97 5.28
5033 8186 8.293867 TGAAGTTTCAGTGAAATATTTTACGGG 58.706 33.333 20.72 14.02 33.97 5.28
5034 8187 9.840427 ATGAAGTTTCAGTGAAATATTTTACGG 57.160 29.630 20.72 14.76 41.08 4.02
5073 8226 3.055719 GACCACGCACCACCATGG 61.056 66.667 11.19 11.19 45.02 3.66
5074 8227 3.422303 CGACCACGCACCACCATG 61.422 66.667 0.00 0.00 0.00 3.66
5075 8228 4.697756 CCGACCACGCACCACCAT 62.698 66.667 0.00 0.00 38.29 3.55
5100 8253 3.100862 GAGCAAATCCAGCCGACGC 62.101 63.158 0.00 0.00 0.00 5.19
5101 8254 2.802667 CGAGCAAATCCAGCCGACG 61.803 63.158 0.00 0.00 0.00 5.12
5102 8255 2.464459 CCGAGCAAATCCAGCCGAC 61.464 63.158 0.00 0.00 0.00 4.79
5103 8256 2.125147 CCGAGCAAATCCAGCCGA 60.125 61.111 0.00 0.00 0.00 5.54
5104 8257 3.204827 CCCGAGCAAATCCAGCCG 61.205 66.667 0.00 0.00 0.00 5.52
5105 8258 2.830370 CCCCGAGCAAATCCAGCC 60.830 66.667 0.00 0.00 0.00 4.85
5106 8259 2.830370 CCCCCGAGCAAATCCAGC 60.830 66.667 0.00 0.00 0.00 4.85
5120 8273 2.302733 TGTCGTAACCTTTTCTACCCCC 59.697 50.000 0.00 0.00 0.00 5.40
5121 8274 3.593096 CTGTCGTAACCTTTTCTACCCC 58.407 50.000 0.00 0.00 0.00 4.95
5122 8275 2.998670 GCTGTCGTAACCTTTTCTACCC 59.001 50.000 0.00 0.00 0.00 3.69
5123 8276 3.922910 AGCTGTCGTAACCTTTTCTACC 58.077 45.455 0.00 0.00 0.00 3.18
5124 8277 4.151867 CCAAGCTGTCGTAACCTTTTCTAC 59.848 45.833 0.00 0.00 0.00 2.59
5125 8278 4.202284 ACCAAGCTGTCGTAACCTTTTCTA 60.202 41.667 0.00 0.00 0.00 2.10
5126 8279 3.139077 CCAAGCTGTCGTAACCTTTTCT 58.861 45.455 0.00 0.00 0.00 2.52
5127 8280 2.876550 ACCAAGCTGTCGTAACCTTTTC 59.123 45.455 0.00 0.00 0.00 2.29
5128 8281 2.927028 ACCAAGCTGTCGTAACCTTTT 58.073 42.857 0.00 0.00 0.00 2.27
5129 8282 2.632987 ACCAAGCTGTCGTAACCTTT 57.367 45.000 0.00 0.00 0.00 3.11
5130 8283 3.596214 CATACCAAGCTGTCGTAACCTT 58.404 45.455 0.00 0.00 0.00 3.50
5131 8284 2.093658 CCATACCAAGCTGTCGTAACCT 60.094 50.000 0.00 0.00 0.00 3.50
5132 8285 2.277084 CCATACCAAGCTGTCGTAACC 58.723 52.381 0.00 0.00 0.00 2.85
5133 8286 2.277084 CCCATACCAAGCTGTCGTAAC 58.723 52.381 0.00 0.00 0.00 2.50
5134 8287 1.208535 CCCCATACCAAGCTGTCGTAA 59.791 52.381 0.00 0.00 0.00 3.18
5135 8288 0.828022 CCCCATACCAAGCTGTCGTA 59.172 55.000 0.00 0.00 0.00 3.43
5136 8289 0.907704 TCCCCATACCAAGCTGTCGT 60.908 55.000 0.00 0.00 0.00 4.34
5137 8290 0.469917 ATCCCCATACCAAGCTGTCG 59.530 55.000 0.00 0.00 0.00 4.35
5138 8291 1.212935 ACATCCCCATACCAAGCTGTC 59.787 52.381 0.00 0.00 0.00 3.51
5139 8292 1.064463 CACATCCCCATACCAAGCTGT 60.064 52.381 0.00 0.00 0.00 4.40
5140 8293 1.683943 CACATCCCCATACCAAGCTG 58.316 55.000 0.00 0.00 0.00 4.24
5141 8294 0.106519 GCACATCCCCATACCAAGCT 60.107 55.000 0.00 0.00 0.00 3.74
5142 8295 0.106519 AGCACATCCCCATACCAAGC 60.107 55.000 0.00 0.00 0.00 4.01
5143 8296 2.026641 CAAGCACATCCCCATACCAAG 58.973 52.381 0.00 0.00 0.00 3.61
5144 8297 1.341877 CCAAGCACATCCCCATACCAA 60.342 52.381 0.00 0.00 0.00 3.67
5145 8298 0.258484 CCAAGCACATCCCCATACCA 59.742 55.000 0.00 0.00 0.00 3.25
5146 8299 1.109323 GCCAAGCACATCCCCATACC 61.109 60.000 0.00 0.00 0.00 2.73
5147 8300 1.447317 CGCCAAGCACATCCCCATAC 61.447 60.000 0.00 0.00 0.00 2.39
5148 8301 1.152984 CGCCAAGCACATCCCCATA 60.153 57.895 0.00 0.00 0.00 2.74
5149 8302 2.440796 CGCCAAGCACATCCCCAT 60.441 61.111 0.00 0.00 0.00 4.00
5150 8303 4.738998 CCGCCAAGCACATCCCCA 62.739 66.667 0.00 0.00 0.00 4.96
5154 8307 2.764314 ATTCGCCGCCAAGCACATC 61.764 57.895 0.00 0.00 0.00 3.06
5155 8308 2.751436 ATTCGCCGCCAAGCACAT 60.751 55.556 0.00 0.00 0.00 3.21
5156 8309 3.736100 CATTCGCCGCCAAGCACA 61.736 61.111 0.00 0.00 0.00 4.57
5157 8310 3.737172 ACATTCGCCGCCAAGCAC 61.737 61.111 0.00 0.00 0.00 4.40
5158 8311 3.736100 CACATTCGCCGCCAAGCA 61.736 61.111 0.00 0.00 0.00 3.91
5160 8313 4.817063 CGCACATTCGCCGCCAAG 62.817 66.667 0.00 0.00 0.00 3.61
5165 8318 4.483683 CACGTCGCACATTCGCCG 62.484 66.667 0.00 0.00 0.00 6.46
5166 8319 4.147322 CCACGTCGCACATTCGCC 62.147 66.667 0.00 0.00 0.00 5.54
5167 8320 4.147322 CCCACGTCGCACATTCGC 62.147 66.667 0.00 0.00 0.00 4.70
5168 8321 4.147322 GCCCACGTCGCACATTCG 62.147 66.667 0.00 0.00 0.00 3.34
5169 8322 4.147322 CGCCCACGTCGCACATTC 62.147 66.667 5.10 0.00 33.53 2.67
5186 8339 4.446413 CACCACGACGCCCCCTAC 62.446 72.222 0.00 0.00 0.00 3.18
5200 8353 4.778143 CTAGCCCGCACCACCACC 62.778 72.222 0.00 0.00 0.00 4.61
5201 8354 4.778143 CCTAGCCCGCACCACCAC 62.778 72.222 0.00 0.00 0.00 4.16
5203 8356 1.979619 ATAACCTAGCCCGCACCACC 61.980 60.000 0.00 0.00 0.00 4.61
5204 8357 0.107361 AATAACCTAGCCCGCACCAC 60.107 55.000 0.00 0.00 0.00 4.16
5205 8358 1.414919 CTAATAACCTAGCCCGCACCA 59.585 52.381 0.00 0.00 0.00 4.17
5206 8359 1.690352 TCTAATAACCTAGCCCGCACC 59.310 52.381 0.00 0.00 0.00 5.01
5207 8360 3.129109 GTTCTAATAACCTAGCCCGCAC 58.871 50.000 0.00 0.00 0.00 5.34
5208 8361 3.036091 AGTTCTAATAACCTAGCCCGCA 58.964 45.455 0.00 0.00 0.00 5.69
5209 8362 3.747854 AGTTCTAATAACCTAGCCCGC 57.252 47.619 0.00 0.00 0.00 6.13
5210 8363 4.629092 GGAAGTTCTAATAACCTAGCCCG 58.371 47.826 2.25 0.00 0.00 6.13
5211 8364 4.502777 CCGGAAGTTCTAATAACCTAGCCC 60.503 50.000 0.00 0.00 0.00 5.19
5212 8365 4.343239 TCCGGAAGTTCTAATAACCTAGCC 59.657 45.833 0.00 0.00 0.00 3.93
5213 8366 5.526506 TCCGGAAGTTCTAATAACCTAGC 57.473 43.478 0.00 0.00 0.00 3.42


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

AutoCloner maintained by Alex Coulton.