Multiple sequence alignment - TraesCS7B01G281200

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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 TraesCS7B01G281200 chr7B 100.000 4568 0 0 1 4568 514055840 514060407 0.000000e+00 8436.0
1 TraesCS7B01G281200 chr7A 93.825 3255 163 19 905 4126 554851161 554854410 0.000000e+00 4863.0
2 TraesCS7B01G281200 chr7A 94.326 141 8 0 4170 4310 554854414 554854554 2.770000e-52 217.0
3 TraesCS7B01G281200 chr7A 92.982 57 3 1 4122 4177 409259615 409259559 1.050000e-11 82.4
4 TraesCS7B01G281200 chr7D 95.862 2731 96 5 905 3634 486221839 486224553 0.000000e+00 4401.0
5 TraesCS7B01G281200 chr1A 88.444 900 62 4 1 899 3925588 3926446 0.000000e+00 1048.0
6 TraesCS7B01G281200 chr1A 82.716 162 26 2 738 898 3925355 3925195 4.760000e-30 143.0
7 TraesCS7B01G281200 chrUn 84.457 920 84 30 1 898 162961682 162960800 0.000000e+00 852.0
8 TraesCS7B01G281200 chrUn 84.256 921 85 30 1 898 163048091 163047208 0.000000e+00 843.0
9 TraesCS7B01G281200 chrUn 84.130 920 87 30 1 898 364416472 364415590 0.000000e+00 835.0
10 TraesCS7B01G281200 chrUn 85.816 705 61 19 1 702 336303109 336302441 0.000000e+00 712.0
11 TraesCS7B01G281200 chrUn 85.897 702 60 19 1 699 372141003 372141668 0.000000e+00 712.0
12 TraesCS7B01G281200 chrUn 87.692 260 25 3 238 497 163000788 163000536 3.460000e-76 296.0
13 TraesCS7B01G281200 chr6D 85.520 808 81 14 61 854 390245866 390246651 0.000000e+00 811.0
14 TraesCS7B01G281200 chr6D 89.855 69 3 4 4110 4177 458993822 458993887 8.140000e-13 86.1
15 TraesCS7B01G281200 chr1D 87.695 512 52 6 206 715 248916038 248916540 1.830000e-163 586.0
16 TraesCS7B01G281200 chr1D 92.268 194 12 2 19 209 248842322 248842515 5.820000e-69 272.0
17 TraesCS7B01G281200 chr1D 80.220 182 24 5 725 896 248917575 248917754 4.800000e-25 126.0
18 TraesCS7B01G281200 chr1B 91.005 378 33 1 524 901 90195337 90194961 4.080000e-140 508.0
19 TraesCS7B01G281200 chr1B 90.057 352 24 6 2 353 90202376 90202036 3.240000e-121 446.0
20 TraesCS7B01G281200 chr1B 94.969 159 5 1 348 503 90196764 90196606 3.530000e-61 246.0
21 TraesCS7B01G281200 chr1B 82.738 168 19 6 732 899 90202627 90202784 1.710000e-29 141.0
22 TraesCS7B01G281200 chr2A 77.811 338 42 18 3 319 760132657 760132332 1.310000e-40 178.0
23 TraesCS7B01G281200 chr2A 89.552 67 3 4 4114 4177 69385943 69386008 1.050000e-11 82.4
24 TraesCS7B01G281200 chr2A 94.231 52 3 0 4121 4172 771514880 771514829 3.790000e-11 80.5
25 TraesCS7B01G281200 chr6A 90.769 65 5 1 4114 4177 452273935 452273999 8.140000e-13 86.1
26 TraesCS7B01G281200 chr3B 92.063 63 2 3 4117 4177 52751937 52751876 8.140000e-13 86.1
27 TraesCS7B01G281200 chr5D 93.220 59 0 4 4122 4177 458893934 458893877 2.930000e-12 84.2
28 TraesCS7B01G281200 chr5A 90.476 63 4 2 4117 4177 504574269 504574331 1.050000e-11 82.4
29 TraesCS7B01G281200 chr5A 86.765 68 9 0 3393 3460 39851819 39851752 4.900000e-10 76.8
30 TraesCS7B01G281200 chr3A 84.810 79 6 6 4102 4177 574453020 574452945 1.760000e-09 75.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G281200 chr7B 514055840 514060407 4567 False 8436 8436 100.0000 1 4568 1 chr7B.!!$F1 4567
1 TraesCS7B01G281200 chr7A 554851161 554854554 3393 False 2540 4863 94.0755 905 4310 2 chr7A.!!$F1 3405
2 TraesCS7B01G281200 chr7D 486221839 486224553 2714 False 4401 4401 95.8620 905 3634 1 chr7D.!!$F1 2729
3 TraesCS7B01G281200 chr1A 3925588 3926446 858 False 1048 1048 88.4440 1 899 1 chr1A.!!$F1 898
4 TraesCS7B01G281200 chrUn 162960800 162961682 882 True 852 852 84.4570 1 898 1 chrUn.!!$R1 897
5 TraesCS7B01G281200 chrUn 163047208 163048091 883 True 843 843 84.2560 1 898 1 chrUn.!!$R3 897
6 TraesCS7B01G281200 chrUn 364415590 364416472 882 True 835 835 84.1300 1 898 1 chrUn.!!$R5 897
7 TraesCS7B01G281200 chrUn 336302441 336303109 668 True 712 712 85.8160 1 702 1 chrUn.!!$R4 701
8 TraesCS7B01G281200 chrUn 372141003 372141668 665 False 712 712 85.8970 1 699 1 chrUn.!!$F1 698
9 TraesCS7B01G281200 chr6D 390245866 390246651 785 False 811 811 85.5200 61 854 1 chr6D.!!$F1 793
10 TraesCS7B01G281200 chr1D 248916038 248917754 1716 False 356 586 83.9575 206 896 2 chr1D.!!$F2 690
11 TraesCS7B01G281200 chr1B 90194961 90196764 1803 True 377 508 92.9870 348 901 2 chr1B.!!$R2 553

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
604 1906 0.606944 TTAAGCGTGCGGTTTCCCAT 60.607 50.0 14.05 0.0 37.08 4.00 F
971 3335 1.059913 CCTTCCCCACTCTGTCACTT 58.940 55.0 0.00 0.0 0.00 3.16 F
2535 4905 1.064003 TTGCCCTGAAAGCTGACCTA 58.936 50.0 0.00 0.0 0.00 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1644 4008 0.315886 ACTTGGCGTACATGTCGACA 59.684 50.0 22.48 22.48 44.8 4.35 R
2616 4986 0.250295 CTCTTGCCTTCAACCGGTCA 60.250 55.0 8.04 0.00 0.0 4.02 R
4313 6706 0.028637 GCTGCTTAGCTTGATTCGCC 59.971 55.0 5.60 0.00 0.0 5.54 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
23 24 3.188873 GCCATCTCATGCAAATAGAGAGC 59.811 47.826 14.16 10.46 41.27 4.09
57 58 3.821055 GCCTCGTCTCGCAGCTCT 61.821 66.667 0.00 0.00 0.00 4.09
80 81 3.306311 ATCCGCCGGCATCGATCT 61.306 61.111 28.98 1.13 39.00 2.75
84 85 2.016704 CGCCGGCATCGATCTGTAC 61.017 63.158 28.98 0.00 39.00 2.90
127 128 0.974010 GACCCAGTACCGGATGACCA 60.974 60.000 9.46 0.00 35.59 4.02
200 202 3.414700 GCTACTTGCTGTGCGCGT 61.415 61.111 8.43 0.00 43.27 6.01
235 237 0.887247 TGTGCTTGCTTGTGTGTGTT 59.113 45.000 0.00 0.00 0.00 3.32
244 246 2.849502 GCTTGTGTGTGTTCGTGTAAGC 60.850 50.000 0.00 0.00 33.51 3.09
259 261 4.679106 CGTGTAAGCTGAGAATGGTGAGAT 60.679 45.833 0.00 0.00 0.00 2.75
315 317 1.004440 GAACCAGACGCTGAAGGCT 60.004 57.895 8.20 0.00 39.13 4.58
331 333 1.748403 GCTCGGAGATACATGGCCA 59.252 57.895 8.56 8.56 33.89 5.36
337 339 1.153168 AGATACATGGCCACGGTGC 60.153 57.895 19.47 12.24 0.00 5.01
385 388 1.484038 GGACCTGAGAGACAGCAGAT 58.516 55.000 0.00 0.00 44.52 2.90
387 393 2.098614 GACCTGAGAGACAGCAGATGA 58.901 52.381 0.00 0.00 44.52 2.92
597 1899 0.673644 AGATTGCTTAAGCGTGCGGT 60.674 50.000 21.97 4.58 45.83 5.68
604 1906 0.606944 TTAAGCGTGCGGTTTCCCAT 60.607 50.000 14.05 0.00 37.08 4.00
613 1915 1.416401 GCGGTTTCCCATCCTGAGATA 59.584 52.381 0.00 0.00 0.00 1.98
695 2001 6.202331 TGGACCCACATAAAGATAGAGAGAA 58.798 40.000 0.00 0.00 0.00 2.87
761 3111 4.945246 TGACTGGTCAAAGTAGACAGAAC 58.055 43.478 0.51 0.00 40.29 3.01
788 3148 1.749063 CTATACAGCGACCAGTGACCA 59.251 52.381 0.00 0.00 0.00 4.02
805 3165 7.374272 CAGTGACCATATAATCATCTCGAGTT 58.626 38.462 13.13 0.15 0.00 3.01
866 3226 4.153117 GTGATCAAAGTGAGCTTTCGACAT 59.847 41.667 0.00 0.00 42.54 3.06
874 3234 5.162075 AGTGAGCTTTCGACATAAGTACAC 58.838 41.667 13.65 13.65 34.45 2.90
881 3241 3.076621 TCGACATAAGTACACTGACCGT 58.923 45.455 0.00 0.00 0.00 4.83
884 3244 4.614306 CGACATAAGTACACTGACCGTCAA 60.614 45.833 2.19 0.00 0.00 3.18
901 3261 7.094592 TGACCGTCAAATGCATTTTACTCAATA 60.095 33.333 25.94 11.64 0.00 1.90
902 3262 7.027161 ACCGTCAAATGCATTTTACTCAATAC 58.973 34.615 25.94 12.90 0.00 1.89
903 3263 6.194508 CCGTCAAATGCATTTTACTCAATACG 59.805 38.462 25.94 20.14 0.00 3.06
923 3283 4.296537 CGTAGAAATGTACGCGTGAAAA 57.703 40.909 24.59 4.59 39.40 2.29
924 3284 4.070224 CGTAGAAATGTACGCGTGAAAAC 58.930 43.478 24.59 12.91 39.40 2.43
952 3316 1.079750 GTGGTCGAGCTCACTTCCC 60.080 63.158 16.64 5.90 0.00 3.97
971 3335 1.059913 CCTTCCCCACTCTGTCACTT 58.940 55.000 0.00 0.00 0.00 3.16
1452 3816 3.160047 CTCATGGCGGCCCTCTCT 61.160 66.667 17.97 0.00 0.00 3.10
1482 3846 4.107051 CGCGGCCTGGAGCTTTTG 62.107 66.667 0.00 0.00 43.05 2.44
1950 4320 2.051345 GACAAGGTGCCAAACGCG 60.051 61.111 3.53 3.53 42.08 6.01
2053 4423 1.453155 GTGGAATGCACTCATCGGTT 58.547 50.000 0.00 0.00 31.27 4.44
2064 4434 4.690719 ATCGGTTCCCACGCGCAA 62.691 61.111 5.73 0.00 0.00 4.85
2196 4566 2.044252 CTGCTCCATGGCAAGGCT 60.044 61.111 6.96 0.00 41.94 4.58
2391 4761 2.682494 GGGCTACCCGGTGAGTCA 60.682 66.667 0.00 0.00 32.13 3.41
2440 4810 2.886913 TGGAAGGCCATTGTTCATCAA 58.113 42.857 5.01 0.00 39.92 2.57
2535 4905 1.064003 TTGCCCTGAAAGCTGACCTA 58.936 50.000 0.00 0.00 0.00 3.08
2562 4932 1.404391 GACCCGTTTCTATCGAGCTCA 59.596 52.381 15.40 1.08 0.00 4.26
2616 4986 2.040544 CGATGCCAGGGCGTTCTTT 61.041 57.895 6.46 0.00 45.51 2.52
2657 5027 0.889186 GCAAAGGTGTCATGGACGGT 60.889 55.000 0.00 0.00 34.95 4.83
2691 5061 2.261361 GCCGTCAATGGTTTGGGC 59.739 61.111 0.00 0.00 34.43 5.36
2718 5088 1.131883 GCTGTTGAGCTGTATGGCAAG 59.868 52.381 0.00 0.00 42.52 4.01
2971 5341 0.461548 CGCCAAGATACTGAGCTCCA 59.538 55.000 12.15 0.00 0.00 3.86
3042 5412 1.602311 CTGACAGGTTGCTTGAGCTT 58.398 50.000 4.44 0.00 42.66 3.74
3072 5442 2.572284 GCCGAGCACTACGTCCTT 59.428 61.111 0.00 0.00 0.00 3.36
3096 5466 1.079405 CAACATGTACGCCGGGTCT 60.079 57.895 2.18 0.00 0.00 3.85
3180 5550 2.110627 GGCAGCAGCTGGATCGAT 59.889 61.111 24.13 0.00 41.70 3.59
3183 5553 1.773054 GCAGCAGCTGGATCGATGTG 61.773 60.000 24.13 0.00 37.91 3.21
3239 5609 2.818132 GCTCCCTGAGATGGACGG 59.182 66.667 0.00 0.00 0.00 4.79
3257 5627 2.187946 GGTGAGGAGGATGTGGCG 59.812 66.667 0.00 0.00 0.00 5.69
3398 5768 2.586792 GTTCGGGCTGCTGAGGAT 59.413 61.111 0.00 0.00 0.00 3.24
3536 5906 3.192944 AGAGGTTCCATCATTTCAGGGA 58.807 45.455 0.00 0.00 0.00 4.20
3573 5943 6.183361 CCTGTGGGGATTACTGGTGAATATAA 60.183 42.308 0.00 0.00 37.23 0.98
3603 5973 2.919666 AATTCTTGAACGCCATTCCG 57.080 45.000 0.00 0.00 36.36 4.30
3628 5998 9.643652 CGTTTGTATTTTGCACATAAACATTTT 57.356 25.926 0.00 0.00 0.00 1.82
3662 6033 6.682861 GCCAAGTTACAGTTCAGGAACATTTT 60.683 38.462 14.06 0.00 43.47 1.82
3676 6047 9.284968 TCAGGAACATTTTAAGAAGAAAGGTAG 57.715 33.333 0.00 0.00 31.59 3.18
3682 6053 9.722184 ACATTTTAAGAAGAAAGGTAGGTAGAC 57.278 33.333 0.00 0.00 30.24 2.59
3705 6076 9.593134 AGACTAGAATTAGCATAAACAGAACTG 57.407 33.333 0.00 0.00 0.00 3.16
3731 6102 1.535462 GTTCACCCTACACATGCACAC 59.465 52.381 0.00 0.00 0.00 3.82
3735 6106 1.167851 CCCTACACATGCACACTTGG 58.832 55.000 0.00 0.00 0.00 3.61
3736 6107 0.523072 CCTACACATGCACACTTGGC 59.477 55.000 0.00 0.00 0.00 4.52
3738 6109 0.893270 TACACATGCACACTTGGCCC 60.893 55.000 0.00 0.00 0.00 5.80
3739 6110 1.904865 CACATGCACACTTGGCCCT 60.905 57.895 0.00 0.00 0.00 5.19
3740 6111 1.152483 ACATGCACACTTGGCCCTT 60.152 52.632 0.00 0.00 0.00 3.95
3758 6140 4.944317 GCCCTTAGCACAAATCTAAGAACT 59.056 41.667 10.38 0.00 43.38 3.01
3759 6141 6.113411 GCCCTTAGCACAAATCTAAGAACTA 58.887 40.000 10.38 0.00 43.38 2.24
3760 6142 6.037281 GCCCTTAGCACAAATCTAAGAACTAC 59.963 42.308 10.38 0.00 43.38 2.73
3761 6143 7.331791 CCCTTAGCACAAATCTAAGAACTACT 58.668 38.462 10.38 0.00 43.38 2.57
3812 6194 6.039717 ACTGTCAAGTTGAACTGTAAATGCAT 59.960 34.615 7.25 0.00 30.14 3.96
3813 6195 6.437928 TGTCAAGTTGAACTGTAAATGCATC 58.562 36.000 7.25 0.00 0.00 3.91
3821 6203 4.574674 ACTGTAAATGCATCCCTGAAGA 57.425 40.909 0.00 0.00 0.00 2.87
3835 6217 2.554032 CCTGAAGAAATGCAAAGGACGT 59.446 45.455 0.00 0.00 0.00 4.34
3836 6218 3.558505 CTGAAGAAATGCAAAGGACGTG 58.441 45.455 0.00 0.00 0.00 4.49
3840 6222 3.964909 AGAAATGCAAAGGACGTGTTTC 58.035 40.909 0.00 0.00 0.00 2.78
3863 6245 6.490492 TCTAGATATGAATATCACCGTCCCA 58.510 40.000 11.83 0.00 41.21 4.37
3878 6269 4.164221 ACCGTCCCAAGTTGAATATGAGAT 59.836 41.667 3.87 0.00 0.00 2.75
3903 6294 6.451393 ACATCTAACAGAGACTCAACACTTC 58.549 40.000 5.02 0.00 36.87 3.01
3912 6303 2.138320 ACTCAACACTTCATGTCGCAG 58.862 47.619 0.00 0.00 42.31 5.18
3929 6320 5.748630 TGTCGCAGCTTAATTCACTATACTG 59.251 40.000 0.00 0.00 0.00 2.74
3931 6322 5.977725 TCGCAGCTTAATTCACTATACTGTC 59.022 40.000 0.00 0.00 0.00 3.51
3945 6336 0.767375 ACTGTCTCATGGTTGGCAGT 59.233 50.000 13.10 13.10 33.05 4.40
3953 6344 1.068895 CATGGTTGGCAGTGCAAGAAA 59.931 47.619 18.61 2.52 0.00 2.52
3958 6349 2.429739 GCAGTGCAAGAAAGCGCC 60.430 61.111 11.09 0.00 45.81 6.53
4001 6394 5.649782 ATATGTTCTTGGGCTTTTCACAG 57.350 39.130 0.00 0.00 0.00 3.66
4002 6395 3.011566 TGTTCTTGGGCTTTTCACAGA 57.988 42.857 0.00 0.00 0.00 3.41
4003 6396 2.951642 TGTTCTTGGGCTTTTCACAGAG 59.048 45.455 0.00 0.00 0.00 3.35
4133 6526 8.774183 TGTCTATCTCTAAGATATACTCCCTCC 58.226 40.741 11.46 0.00 36.67 4.30
4134 6527 7.929785 GTCTATCTCTAAGATATACTCCCTCCG 59.070 44.444 5.65 0.00 36.67 4.63
4135 6528 6.645884 ATCTCTAAGATATACTCCCTCCGT 57.354 41.667 0.00 0.00 32.12 4.69
4136 6529 6.052405 TCTCTAAGATATACTCCCTCCGTC 57.948 45.833 0.00 0.00 0.00 4.79
4137 6530 5.045724 TCTCTAAGATATACTCCCTCCGTCC 60.046 48.000 0.00 0.00 0.00 4.79
4138 6531 2.903375 AGATATACTCCCTCCGTCCC 57.097 55.000 0.00 0.00 0.00 4.46
4139 6532 2.071372 AGATATACTCCCTCCGTCCCA 58.929 52.381 0.00 0.00 0.00 4.37
4140 6533 2.449730 AGATATACTCCCTCCGTCCCAA 59.550 50.000 0.00 0.00 0.00 4.12
4141 6534 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
4142 6535 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
4143 6536 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
4144 6537 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
4145 6538 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
4146 6539 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
4147 6540 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
4148 6541 4.102681 ACTCCCTCCGTCCCAAAATATAAG 59.897 45.833 0.00 0.00 0.00 1.73
4149 6542 4.300345 TCCCTCCGTCCCAAAATATAAGA 58.700 43.478 0.00 0.00 0.00 2.10
4150 6543 4.722781 TCCCTCCGTCCCAAAATATAAGAA 59.277 41.667 0.00 0.00 0.00 2.52
4151 6544 4.820173 CCCTCCGTCCCAAAATATAAGAAC 59.180 45.833 0.00 0.00 0.00 3.01
4152 6545 4.510340 CCTCCGTCCCAAAATATAAGAACG 59.490 45.833 0.00 0.00 0.00 3.95
4153 6546 5.088680 TCCGTCCCAAAATATAAGAACGT 57.911 39.130 0.00 0.00 0.00 3.99
4154 6547 5.490159 TCCGTCCCAAAATATAAGAACGTT 58.510 37.500 0.00 0.00 0.00 3.99
4155 6548 5.939296 TCCGTCCCAAAATATAAGAACGTTT 59.061 36.000 0.46 0.00 0.00 3.60
4156 6549 6.430616 TCCGTCCCAAAATATAAGAACGTTTT 59.569 34.615 0.46 0.00 0.00 2.43
4157 6550 7.040548 TCCGTCCCAAAATATAAGAACGTTTTT 60.041 33.333 9.22 9.22 0.00 1.94
4211 6604 2.741228 GCACATTTCCAACAAAGCCACA 60.741 45.455 0.00 0.00 0.00 4.17
4250 6643 4.924305 AAGATGAAAACAGCAGCAAGAA 57.076 36.364 0.00 0.00 0.00 2.52
4268 6661 4.574599 AGAAAGATTTGCACTGTGGTTC 57.425 40.909 10.21 0.00 0.00 3.62
4284 6677 1.446907 GTTCATGAGCCAGGTGACAG 58.553 55.000 0.00 0.00 0.00 3.51
4311 6704 4.568152 AAAACAATACACAGTGCCAGAC 57.432 40.909 0.00 0.00 0.00 3.51
4312 6705 2.928801 ACAATACACAGTGCCAGACA 57.071 45.000 0.00 0.00 0.00 3.41
4313 6706 2.771089 ACAATACACAGTGCCAGACAG 58.229 47.619 0.00 0.00 0.00 3.51
4314 6707 2.079158 CAATACACAGTGCCAGACAGG 58.921 52.381 0.00 0.00 41.84 4.00
4324 6717 2.093216 CCAGACAGGCGAATCAAGC 58.907 57.895 0.00 0.00 0.00 4.01
4325 6718 0.392193 CCAGACAGGCGAATCAAGCT 60.392 55.000 0.00 0.00 34.52 3.74
4326 6719 1.134699 CCAGACAGGCGAATCAAGCTA 60.135 52.381 0.00 0.00 34.52 3.32
4327 6720 2.621338 CAGACAGGCGAATCAAGCTAA 58.379 47.619 0.00 0.00 34.52 3.09
4328 6721 2.606725 CAGACAGGCGAATCAAGCTAAG 59.393 50.000 0.00 0.00 34.52 2.18
4329 6722 1.328986 GACAGGCGAATCAAGCTAAGC 59.671 52.381 0.00 0.00 34.52 3.09
4330 6723 1.339055 ACAGGCGAATCAAGCTAAGCA 60.339 47.619 0.00 0.00 34.52 3.91
4331 6724 1.329906 CAGGCGAATCAAGCTAAGCAG 59.670 52.381 0.00 0.00 34.52 4.24
4355 6748 6.545504 CGAAGCAATACTATTATTGTGCCT 57.454 37.500 12.76 1.67 44.57 4.75
4356 6749 6.365839 CGAAGCAATACTATTATTGTGCCTG 58.634 40.000 12.76 0.00 44.57 4.85
4357 6750 5.695851 AGCAATACTATTATTGTGCCTGC 57.304 39.130 12.76 0.79 44.57 4.85
4358 6751 5.132502 AGCAATACTATTATTGTGCCTGCA 58.867 37.500 12.76 0.00 44.57 4.41
4359 6752 5.240183 AGCAATACTATTATTGTGCCTGCAG 59.760 40.000 6.78 6.78 44.57 4.41
4360 6753 5.455392 CAATACTATTATTGTGCCTGCAGC 58.545 41.667 8.66 4.57 39.83 5.25
4361 6754 2.301346 ACTATTATTGTGCCTGCAGCC 58.699 47.619 8.66 0.00 42.71 4.85
4362 6755 1.265095 CTATTATTGTGCCTGCAGCCG 59.735 52.381 8.66 0.00 42.71 5.52
4363 6756 2.008268 ATTATTGTGCCTGCAGCCGC 62.008 55.000 8.66 4.31 42.71 6.53
4372 6765 4.146058 TGCAGCCGCATTATCAGG 57.854 55.556 0.00 0.00 45.36 3.86
4373 6766 1.526405 TGCAGCCGCATTATCAGGA 59.474 52.632 0.00 0.00 45.36 3.86
4374 6767 0.109153 TGCAGCCGCATTATCAGGAT 59.891 50.000 0.00 0.00 45.36 3.24
4375 6768 0.520404 GCAGCCGCATTATCAGGATG 59.480 55.000 0.00 0.00 43.63 3.51
4376 6769 0.520404 CAGCCGCATTATCAGGATGC 59.480 55.000 0.00 0.00 44.90 3.91
4416 6809 8.352201 TGCTATTATAACAACAAATGATCTGGC 58.648 33.333 0.00 0.00 0.00 4.85
4417 6810 8.571336 GCTATTATAACAACAAATGATCTGGCT 58.429 33.333 0.00 0.00 0.00 4.75
4418 6811 9.888878 CTATTATAACAACAAATGATCTGGCTG 57.111 33.333 0.00 0.00 0.00 4.85
4419 6812 3.308438 AACAACAAATGATCTGGCTGC 57.692 42.857 0.00 0.00 0.00 5.25
4420 6813 2.241160 ACAACAAATGATCTGGCTGCA 58.759 42.857 0.50 0.00 0.00 4.41
4421 6814 2.829720 ACAACAAATGATCTGGCTGCAT 59.170 40.909 0.50 0.00 0.00 3.96
4422 6815 4.018490 ACAACAAATGATCTGGCTGCATA 58.982 39.130 0.50 0.00 0.00 3.14
4423 6816 4.097437 ACAACAAATGATCTGGCTGCATAG 59.903 41.667 0.50 0.00 0.00 2.23
4424 6817 4.160642 ACAAATGATCTGGCTGCATAGA 57.839 40.909 0.50 5.10 0.00 1.98
4425 6818 4.726583 ACAAATGATCTGGCTGCATAGAT 58.273 39.130 15.58 15.58 36.41 1.98
4426 6819 4.519350 ACAAATGATCTGGCTGCATAGATG 59.481 41.667 19.13 10.95 33.97 2.90
4440 6833 2.988010 TAGATGCATCACCAGTCACC 57.012 50.000 27.81 0.00 0.00 4.02
4441 6834 0.254178 AGATGCATCACCAGTCACCC 59.746 55.000 27.81 0.00 0.00 4.61
4442 6835 0.749454 GATGCATCACCAGTCACCCC 60.749 60.000 21.92 0.00 0.00 4.95
4443 6836 2.044946 GCATCACCAGTCACCCCC 60.045 66.667 0.00 0.00 0.00 5.40
4444 6837 2.606587 GCATCACCAGTCACCCCCT 61.607 63.158 0.00 0.00 0.00 4.79
4445 6838 2.078452 CATCACCAGTCACCCCCTT 58.922 57.895 0.00 0.00 0.00 3.95
4446 6839 0.322816 CATCACCAGTCACCCCCTTG 60.323 60.000 0.00 0.00 0.00 3.61
4447 6840 0.772124 ATCACCAGTCACCCCCTTGT 60.772 55.000 0.00 0.00 0.00 3.16
4448 6841 0.104882 TCACCAGTCACCCCCTTGTA 60.105 55.000 0.00 0.00 0.00 2.41
4449 6842 0.768622 CACCAGTCACCCCCTTGTAA 59.231 55.000 0.00 0.00 0.00 2.41
4450 6843 1.144093 CACCAGTCACCCCCTTGTAAA 59.856 52.381 0.00 0.00 0.00 2.01
4451 6844 2.070573 ACCAGTCACCCCCTTGTAAAT 58.929 47.619 0.00 0.00 0.00 1.40
4452 6845 2.449345 ACCAGTCACCCCCTTGTAAATT 59.551 45.455 0.00 0.00 0.00 1.82
4453 6846 3.116900 ACCAGTCACCCCCTTGTAAATTT 60.117 43.478 0.00 0.00 0.00 1.82
4454 6847 3.901222 CCAGTCACCCCCTTGTAAATTTT 59.099 43.478 0.00 0.00 0.00 1.82
4455 6848 4.262420 CCAGTCACCCCCTTGTAAATTTTG 60.262 45.833 0.00 0.00 0.00 2.44
4456 6849 4.343814 CAGTCACCCCCTTGTAAATTTTGT 59.656 41.667 0.00 0.00 0.00 2.83
4457 6850 4.587262 AGTCACCCCCTTGTAAATTTTGTC 59.413 41.667 0.00 0.00 0.00 3.18
4458 6851 4.342665 GTCACCCCCTTGTAAATTTTGTCA 59.657 41.667 0.00 0.00 0.00 3.58
4459 6852 4.962995 TCACCCCCTTGTAAATTTTGTCAA 59.037 37.500 0.00 0.00 0.00 3.18
4460 6853 5.604650 TCACCCCCTTGTAAATTTTGTCAAT 59.395 36.000 0.00 0.00 0.00 2.57
4461 6854 6.782988 TCACCCCCTTGTAAATTTTGTCAATA 59.217 34.615 0.00 0.00 0.00 1.90
4462 6855 7.290248 TCACCCCCTTGTAAATTTTGTCAATAA 59.710 33.333 0.00 0.00 0.00 1.40
4463 6856 7.386573 CACCCCCTTGTAAATTTTGTCAATAAC 59.613 37.037 0.00 0.00 0.00 1.89
4464 6857 6.876789 CCCCCTTGTAAATTTTGTCAATAACC 59.123 38.462 0.00 0.00 0.00 2.85
4465 6858 7.445945 CCCCTTGTAAATTTTGTCAATAACCA 58.554 34.615 0.00 0.00 0.00 3.67
4466 6859 7.386573 CCCCTTGTAAATTTTGTCAATAACCAC 59.613 37.037 0.00 0.00 0.00 4.16
4467 6860 7.928706 CCCTTGTAAATTTTGTCAATAACCACA 59.071 33.333 0.00 0.00 0.00 4.17
4468 6861 9.487790 CCTTGTAAATTTTGTCAATAACCACAT 57.512 29.630 0.00 0.00 0.00 3.21
4476 6869 8.684386 TTTTGTCAATAACCACATAAGAGACA 57.316 30.769 0.00 0.00 0.00 3.41
4477 6870 8.684386 TTTGTCAATAACCACATAAGAGACAA 57.316 30.769 0.00 0.00 40.44 3.18
4478 6871 8.862325 TTGTCAATAACCACATAAGAGACAAT 57.138 30.769 0.00 0.00 38.21 2.71
4479 6872 8.267620 TGTCAATAACCACATAAGAGACAATG 57.732 34.615 0.00 0.00 31.36 2.82
4480 6873 7.882791 TGTCAATAACCACATAAGAGACAATGT 59.117 33.333 0.00 0.00 36.78 2.71
4484 6877 3.663464 CACATAAGAGACAATGTGCCG 57.337 47.619 0.00 0.00 44.52 5.69
4485 6878 2.009774 ACATAAGAGACAATGTGCCGC 58.990 47.619 0.00 0.00 35.06 6.53
4486 6879 2.009051 CATAAGAGACAATGTGCCGCA 58.991 47.619 0.00 0.00 0.00 5.69
4487 6880 2.401583 TAAGAGACAATGTGCCGCAT 57.598 45.000 0.00 0.00 40.03 4.73
4488 6881 1.089920 AAGAGACAATGTGCCGCATC 58.910 50.000 0.00 0.00 36.67 3.91
4489 6882 0.251354 AGAGACAATGTGCCGCATCT 59.749 50.000 0.00 0.00 36.67 2.90
4490 6883 1.089920 GAGACAATGTGCCGCATCTT 58.910 50.000 0.00 0.00 36.67 2.40
4491 6884 0.806868 AGACAATGTGCCGCATCTTG 59.193 50.000 13.43 13.43 36.67 3.02
4492 6885 0.804364 GACAATGTGCCGCATCTTGA 59.196 50.000 19.14 0.00 36.67 3.02
4493 6886 0.806868 ACAATGTGCCGCATCTTGAG 59.193 50.000 19.14 2.97 36.67 3.02
4494 6887 0.524816 CAATGTGCCGCATCTTGAGC 60.525 55.000 10.74 0.00 36.67 4.26
4495 6888 0.961857 AATGTGCCGCATCTTGAGCA 60.962 50.000 0.00 0.00 36.67 4.26
4496 6889 1.374343 ATGTGCCGCATCTTGAGCAG 61.374 55.000 0.00 0.00 35.56 4.24
4497 6890 3.129502 TGCCGCATCTTGAGCAGC 61.130 61.111 0.00 0.00 36.00 5.25
4498 6891 2.823147 GCCGCATCTTGAGCAGCT 60.823 61.111 0.00 0.00 32.82 4.24
4499 6892 3.099438 CCGCATCTTGAGCAGCTG 58.901 61.111 10.11 10.11 0.00 4.24
4500 6893 2.470362 CCGCATCTTGAGCAGCTGG 61.470 63.158 17.12 0.00 0.00 4.85
4501 6894 1.449070 CGCATCTTGAGCAGCTGGA 60.449 57.895 17.12 3.73 0.00 3.86
4502 6895 1.022982 CGCATCTTGAGCAGCTGGAA 61.023 55.000 17.12 0.00 0.00 3.53
4503 6896 0.450983 GCATCTTGAGCAGCTGGAAC 59.549 55.000 17.12 0.00 0.00 3.62
4504 6897 1.949547 GCATCTTGAGCAGCTGGAACT 60.950 52.381 17.12 3.60 0.00 3.01
4505 6898 2.434428 CATCTTGAGCAGCTGGAACTT 58.566 47.619 17.12 0.00 0.00 2.66
4506 6899 3.603532 CATCTTGAGCAGCTGGAACTTA 58.396 45.455 17.12 0.00 0.00 2.24
4507 6900 3.769739 TCTTGAGCAGCTGGAACTTAA 57.230 42.857 17.12 6.37 0.00 1.85
4508 6901 4.292186 TCTTGAGCAGCTGGAACTTAAT 57.708 40.909 17.12 0.00 0.00 1.40
4509 6902 4.655963 TCTTGAGCAGCTGGAACTTAATT 58.344 39.130 17.12 0.00 0.00 1.40
4510 6903 5.072741 TCTTGAGCAGCTGGAACTTAATTT 58.927 37.500 17.12 0.00 0.00 1.82
4511 6904 5.536161 TCTTGAGCAGCTGGAACTTAATTTT 59.464 36.000 17.12 0.00 0.00 1.82
4512 6905 5.789643 TGAGCAGCTGGAACTTAATTTTT 57.210 34.783 17.12 0.00 0.00 1.94
4560 6953 7.741554 AAATTACTCCCTCAGTATCAGAAGT 57.258 36.000 0.00 0.00 37.44 3.01
4561 6954 8.840200 AAATTACTCCCTCAGTATCAGAAGTA 57.160 34.615 0.00 0.00 37.44 2.24
4562 6955 9.440761 AAATTACTCCCTCAGTATCAGAAGTAT 57.559 33.333 0.00 0.00 37.44 2.12
4563 6956 8.644374 ATTACTCCCTCAGTATCAGAAGTATC 57.356 38.462 0.00 0.00 37.44 2.24
4564 6957 6.019656 ACTCCCTCAGTATCAGAAGTATCA 57.980 41.667 0.00 0.00 31.37 2.15
4565 6958 6.436027 ACTCCCTCAGTATCAGAAGTATCAA 58.564 40.000 0.00 0.00 31.37 2.57
4566 6959 6.897966 ACTCCCTCAGTATCAGAAGTATCAAA 59.102 38.462 0.00 0.00 31.37 2.69
4567 6960 7.400339 ACTCCCTCAGTATCAGAAGTATCAAAA 59.600 37.037 0.00 0.00 31.37 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 1.522806 GATGCCGGCGGATGTACAA 60.523 57.895 33.44 0.00 0.00 2.41
200 202 1.603802 GCACAAAGCAAGCTCAGTACA 59.396 47.619 0.00 0.00 44.79 2.90
235 237 2.560981 TCACCATTCTCAGCTTACACGA 59.439 45.455 0.00 0.00 0.00 4.35
244 246 3.263489 ACAGCATCTCACCATTCTCAG 57.737 47.619 0.00 0.00 0.00 3.35
259 261 3.468326 TTGGCGCACCTGTACAGCA 62.468 57.895 17.86 5.95 36.63 4.41
315 317 1.739667 CGTGGCCATGTATCTCCGA 59.260 57.895 17.42 0.00 0.00 4.55
337 339 3.027170 GCCATGTCTTCCACGTGCG 62.027 63.158 10.91 3.66 40.34 5.34
385 388 2.922503 TCCTGCCTCGCCAACTCA 60.923 61.111 0.00 0.00 0.00 3.41
387 393 2.925170 AGTCCTGCCTCGCCAACT 60.925 61.111 0.00 0.00 0.00 3.16
514 542 1.972660 ATACAGAAGCACGCTCCCCC 61.973 60.000 0.00 0.00 0.00 5.40
515 543 0.750850 TATACAGAAGCACGCTCCCC 59.249 55.000 0.00 0.00 0.00 4.81
516 544 2.596904 TTATACAGAAGCACGCTCCC 57.403 50.000 0.00 0.00 0.00 4.30
517 545 4.181578 TCTTTTATACAGAAGCACGCTCC 58.818 43.478 0.00 0.00 0.00 4.70
518 546 5.120208 TGTTCTTTTATACAGAAGCACGCTC 59.880 40.000 0.00 0.00 30.72 5.03
519 547 4.994852 TGTTCTTTTATACAGAAGCACGCT 59.005 37.500 0.00 0.00 30.72 5.07
613 1915 0.904649 TGCACCAGATCGAACCTGAT 59.095 50.000 16.76 0.00 33.65 2.90
664 1970 3.139397 TCTTTATGTGGGTCCAACCTGTT 59.861 43.478 0.00 0.00 38.64 3.16
695 2001 2.440409 CAGCCTAGTCAGCCAACAATT 58.560 47.619 0.00 0.00 0.00 2.32
776 3127 6.030548 AGATGATTATATGGTCACTGGTCG 57.969 41.667 0.00 0.00 0.00 4.79
805 3165 4.678574 CGGTCAATACGGTCCTTGAATACA 60.679 45.833 7.41 0.00 33.45 2.29
814 3174 6.258507 ACATAAAAATACGGTCAATACGGTCC 59.741 38.462 0.00 0.00 39.59 4.46
866 3226 3.991773 GCATTTGACGGTCAGTGTACTTA 59.008 43.478 19.82 0.41 0.00 2.24
874 3234 5.046910 AGTAAAATGCATTTGACGGTCAG 57.953 39.130 26.87 1.22 36.45 3.51
881 3241 9.157104 TCTACGTATTGAGTAAAATGCATTTGA 57.843 29.630 24.74 15.44 32.27 2.69
901 3261 2.617250 TCACGCGTACATTTCTACGT 57.383 45.000 13.44 0.00 41.34 3.57
902 3262 3.957747 TTTCACGCGTACATTTCTACG 57.042 42.857 13.44 0.00 42.04 3.51
903 3263 5.009048 TGTTTTCACGCGTACATTTCTAC 57.991 39.130 13.44 3.07 0.00 2.59
923 3283 1.289109 CTCGACCACGCCGATTTTGT 61.289 55.000 0.00 0.00 39.58 2.83
924 3284 1.419922 CTCGACCACGCCGATTTTG 59.580 57.895 0.00 0.00 39.58 2.44
952 3316 1.059913 AAGTGACAGAGTGGGGAAGG 58.940 55.000 0.00 0.00 0.00 3.46
971 3335 1.031571 CGGGCTTGCTTATCTTGCCA 61.032 55.000 0.00 0.00 44.85 4.92
1200 3564 2.915659 AGCGTGAACCTGTCGGGA 60.916 61.111 4.16 0.00 38.76 5.14
1479 3843 3.884774 ACCAGGCAGTCCCGCAAA 61.885 61.111 0.00 0.00 39.21 3.68
1644 4008 0.315886 ACTTGGCGTACATGTCGACA 59.684 50.000 22.48 22.48 44.80 4.35
1834 4204 4.827087 CGGCAGGACGCTCAGCAT 62.827 66.667 0.00 0.00 41.91 3.79
1872 4242 2.041508 TCCCTCAGCCTAGCCAGG 60.042 66.667 0.00 0.00 45.77 4.45
2053 4423 2.970324 GTTCTGTTGCGCGTGGGA 60.970 61.111 8.43 0.00 0.00 4.37
2391 4761 0.411452 TCTCCCTGAAGAGCTGGAGT 59.589 55.000 13.57 0.00 43.91 3.85
2535 4905 1.068741 GATAGAAACGGGTCCTCGCAT 59.931 52.381 0.25 0.00 0.00 4.73
2562 4932 3.690139 ACTTCGAGTACATGTCGATCACT 59.310 43.478 0.00 0.00 45.41 3.41
2616 4986 0.250295 CTCTTGCCTTCAACCGGTCA 60.250 55.000 8.04 0.00 0.00 4.02
2657 5027 1.440060 GCGTACCCGGTGATCATCA 59.560 57.895 6.80 0.00 33.68 3.07
2718 5088 1.768077 CACCCCCTCCCTCCTCATC 60.768 68.421 0.00 0.00 0.00 2.92
2794 5164 2.505364 AAATGCAGCCCCTCCTCCAC 62.505 60.000 0.00 0.00 0.00 4.02
2843 5213 4.888239 AGTGCTCTAGCTTCGGTTCTATTA 59.112 41.667 3.26 0.00 42.66 0.98
2949 5319 0.461961 AGCTCAGTATCTTGGCGTCC 59.538 55.000 0.00 0.00 0.00 4.79
2971 5341 1.923006 ATGTGGCAGGCTGAGAGCAT 61.923 55.000 20.86 12.85 44.75 3.79
2979 5349 0.182061 CTCCATGTATGTGGCAGGCT 59.818 55.000 0.00 0.00 39.19 4.58
3042 5412 3.234630 CTCGGCCTTGTCGGGTTCA 62.235 63.158 0.00 0.00 0.00 3.18
3072 5442 1.376683 GGCGTACATGTTGGAGGCA 60.377 57.895 2.30 0.00 43.48 4.75
3096 5466 0.253113 TCATCTCATCCCACCACCCA 60.253 55.000 0.00 0.00 0.00 4.51
3100 5470 2.121948 CTTCCTCATCTCATCCCACCA 58.878 52.381 0.00 0.00 0.00 4.17
3166 5536 1.145598 CCACATCGATCCAGCTGCT 59.854 57.895 8.66 0.00 0.00 4.24
3180 5550 3.561241 TACACCTTGCCCGCCACA 61.561 61.111 0.00 0.00 0.00 4.17
3183 5553 2.746277 CTGTACACCTTGCCCGCC 60.746 66.667 0.00 0.00 0.00 6.13
3239 5609 2.592308 GCCACATCCTCCTCACCC 59.408 66.667 0.00 0.00 0.00 4.61
3257 5627 0.465278 GATCCTTTCCTCCAGGCTGC 60.465 60.000 9.56 0.00 34.44 5.25
3536 5906 1.135094 CCCACAGGAGCAGATACCAT 58.865 55.000 0.00 0.00 33.47 3.55
3573 5943 6.545666 TGGCGTTCAAGAATTATGTATTCCAT 59.454 34.615 0.00 0.00 43.08 3.41
3580 5950 4.201910 CGGAATGGCGTTCAAGAATTATGT 60.202 41.667 20.29 0.00 38.64 2.29
3583 5953 3.340034 ACGGAATGGCGTTCAAGAATTA 58.660 40.909 20.29 0.00 38.64 1.40
3594 5964 2.344142 GCAAAATACAAACGGAATGGCG 59.656 45.455 0.00 0.00 0.00 5.69
3595 5965 3.122780 GTGCAAAATACAAACGGAATGGC 59.877 43.478 0.00 0.00 0.00 4.40
3628 5998 7.174253 CCTGAACTGTAACTTGGCTAATTTGTA 59.826 37.037 0.00 0.00 0.00 2.41
3629 5999 6.016276 CCTGAACTGTAACTTGGCTAATTTGT 60.016 38.462 0.00 0.00 0.00 2.83
3630 6000 6.206634 TCCTGAACTGTAACTTGGCTAATTTG 59.793 38.462 0.00 0.00 0.00 2.32
3631 6001 6.303839 TCCTGAACTGTAACTTGGCTAATTT 58.696 36.000 0.00 0.00 0.00 1.82
3634 6004 4.967084 TCCTGAACTGTAACTTGGCTAA 57.033 40.909 0.00 0.00 0.00 3.09
3681 6052 9.726438 AACAGTTCTGTTTATGCTAATTCTAGT 57.274 29.630 11.75 0.00 0.00 2.57
3690 6061 7.275560 GTGAACAAAAACAGTTCTGTTTATGCT 59.724 33.333 24.70 13.75 44.30 3.79
3703 6074 4.974368 TGTGTAGGGTGAACAAAAACAG 57.026 40.909 0.00 0.00 0.00 3.16
3705 6076 4.048504 GCATGTGTAGGGTGAACAAAAAC 58.951 43.478 0.00 0.00 0.00 2.43
3731 6102 2.450476 AGATTTGTGCTAAGGGCCAAG 58.550 47.619 6.18 3.54 40.92 3.61
3735 6106 4.944317 AGTTCTTAGATTTGTGCTAAGGGC 59.056 41.667 0.00 0.00 43.08 5.19
3736 6107 7.331791 AGTAGTTCTTAGATTTGTGCTAAGGG 58.668 38.462 0.00 0.00 43.08 3.95
3758 6140 8.330247 AGTTCCTGACTGAATACTCTTCTAGTA 58.670 37.037 0.00 0.00 40.10 1.82
3759 6141 7.179269 AGTTCCTGACTGAATACTCTTCTAGT 58.821 38.462 0.00 0.00 38.61 2.57
3760 6142 7.639113 AGTTCCTGACTGAATACTCTTCTAG 57.361 40.000 0.00 0.00 37.17 2.43
3761 6143 7.670140 TGAAGTTCCTGACTGAATACTCTTCTA 59.330 37.037 0.00 0.00 39.00 2.10
3812 6194 3.157087 GTCCTTTGCATTTCTTCAGGGA 58.843 45.455 0.00 0.00 0.00 4.20
3813 6195 2.095059 CGTCCTTTGCATTTCTTCAGGG 60.095 50.000 0.00 0.00 0.00 4.45
3821 6203 4.819630 TCTAGAAACACGTCCTTTGCATTT 59.180 37.500 0.00 0.00 0.00 2.32
3835 6217 8.304596 GGACGGTGATATTCATATCTAGAAACA 58.695 37.037 0.00 0.00 39.82 2.83
3836 6218 7.760340 GGGACGGTGATATTCATATCTAGAAAC 59.240 40.741 0.00 0.00 39.82 2.78
3840 6222 6.775594 TGGGACGGTGATATTCATATCTAG 57.224 41.667 8.05 0.00 39.82 2.43
3878 6269 7.230712 TGAAGTGTTGAGTCTCTGTTAGATGTA 59.769 37.037 0.65 0.00 36.36 2.29
3886 6277 4.626042 GACATGAAGTGTTGAGTCTCTGT 58.374 43.478 0.00 0.00 42.36 3.41
3887 6278 3.672397 CGACATGAAGTGTTGAGTCTCTG 59.328 47.826 0.00 0.00 43.76 3.35
3891 6282 2.135139 TGCGACATGAAGTGTTGAGTC 58.865 47.619 0.00 0.00 43.76 3.36
3896 6287 1.597742 AAGCTGCGACATGAAGTGTT 58.402 45.000 0.00 0.00 42.36 3.32
3903 6294 5.663795 ATAGTGAATTAAGCTGCGACATG 57.336 39.130 0.00 0.00 0.00 3.21
3912 6303 7.928706 ACCATGAGACAGTATAGTGAATTAAGC 59.071 37.037 14.61 0.00 0.00 3.09
3929 6320 0.890542 TGCACTGCCAACCATGAGAC 60.891 55.000 0.00 0.00 0.00 3.36
3931 6322 0.242825 CTTGCACTGCCAACCATGAG 59.757 55.000 0.00 0.00 0.00 2.90
3945 6336 2.014064 TTTGCAGGCGCTTTCTTGCA 62.014 50.000 7.64 13.10 39.64 4.08
3958 6349 0.169672 CATGGCCTTCGACTTTGCAG 59.830 55.000 3.32 0.00 0.00 4.41
4024 6417 1.596260 AGCTGTCGATTTGATCATGCG 59.404 47.619 0.00 0.89 0.00 4.73
4126 6519 4.347000 TCTTATATTTTGGGACGGAGGGAG 59.653 45.833 0.00 0.00 0.00 4.30
4127 6520 4.300345 TCTTATATTTTGGGACGGAGGGA 58.700 43.478 0.00 0.00 0.00 4.20
4129 6522 4.510340 CGTTCTTATATTTTGGGACGGAGG 59.490 45.833 0.00 0.00 0.00 4.30
4130 6523 5.114081 ACGTTCTTATATTTTGGGACGGAG 58.886 41.667 0.00 0.00 0.00 4.63
4131 6524 5.088680 ACGTTCTTATATTTTGGGACGGA 57.911 39.130 0.00 0.00 0.00 4.69
4132 6525 5.806366 AACGTTCTTATATTTTGGGACGG 57.194 39.130 0.00 0.00 0.00 4.79
4154 6547 6.151312 TGGTTTGAACTACTGCAGTGTAAAAA 59.849 34.615 29.57 21.00 37.63 1.94
4155 6548 5.648526 TGGTTTGAACTACTGCAGTGTAAAA 59.351 36.000 29.57 21.28 37.63 1.52
4156 6549 5.186942 TGGTTTGAACTACTGCAGTGTAAA 58.813 37.500 29.57 17.76 37.63 2.01
4157 6550 4.771903 TGGTTTGAACTACTGCAGTGTAA 58.228 39.130 29.57 13.47 37.63 2.41
4158 6551 4.409718 TGGTTTGAACTACTGCAGTGTA 57.590 40.909 29.57 9.56 37.63 2.90
4159 6552 3.275617 TGGTTTGAACTACTGCAGTGT 57.724 42.857 29.57 20.71 37.63 3.55
4160 6553 3.243068 GGTTGGTTTGAACTACTGCAGTG 60.243 47.826 29.57 20.07 37.63 3.66
4161 6554 2.949644 GGTTGGTTTGAACTACTGCAGT 59.050 45.455 25.12 25.12 40.05 4.40
4162 6555 2.948979 TGGTTGGTTTGAACTACTGCAG 59.051 45.455 13.48 13.48 0.00 4.41
4163 6556 3.006112 TGGTTGGTTTGAACTACTGCA 57.994 42.857 0.00 0.00 0.00 4.41
4164 6557 4.379339 TTTGGTTGGTTTGAACTACTGC 57.621 40.909 0.00 0.00 0.00 4.40
4165 6558 6.142818 TGATTTGGTTGGTTTGAACTACTG 57.857 37.500 0.00 0.00 0.00 2.74
4166 6559 6.682861 GCTTGATTTGGTTGGTTTGAACTACT 60.683 38.462 0.00 0.00 0.00 2.57
4167 6560 5.462068 GCTTGATTTGGTTGGTTTGAACTAC 59.538 40.000 0.00 0.00 0.00 2.73
4168 6561 5.127845 TGCTTGATTTGGTTGGTTTGAACTA 59.872 36.000 0.00 0.00 0.00 2.24
4211 6604 5.774690 TCATCTTTGGTTCTGTATTTTGGCT 59.225 36.000 0.00 0.00 0.00 4.75
4250 6643 3.890756 TCATGAACCACAGTGCAAATCTT 59.109 39.130 0.00 0.00 34.27 2.40
4268 6661 2.414994 AATCTGTCACCTGGCTCATG 57.585 50.000 0.00 0.00 0.00 3.07
4293 6686 2.550855 CCTGTCTGGCACTGTGTATTGT 60.551 50.000 9.86 0.00 0.00 2.71
4295 6688 2.479566 CCTGTCTGGCACTGTGTATT 57.520 50.000 9.86 0.00 0.00 1.89
4310 6703 1.339055 TGCTTAGCTTGATTCGCCTGT 60.339 47.619 5.60 0.00 0.00 4.00
4311 6704 1.329906 CTGCTTAGCTTGATTCGCCTG 59.670 52.381 5.60 0.00 0.00 4.85
4312 6705 1.661341 CTGCTTAGCTTGATTCGCCT 58.339 50.000 5.60 0.00 0.00 5.52
4313 6706 0.028637 GCTGCTTAGCTTGATTCGCC 59.971 55.000 5.60 0.00 0.00 5.54
4314 6707 0.315706 CGCTGCTTAGCTTGATTCGC 60.316 55.000 5.60 0.00 0.00 4.70
4315 6708 1.280982 TCGCTGCTTAGCTTGATTCG 58.719 50.000 5.60 0.43 0.00 3.34
4316 6709 2.538535 GCTTCGCTGCTTAGCTTGATTC 60.539 50.000 5.60 0.00 32.26 2.52
4317 6710 1.399791 GCTTCGCTGCTTAGCTTGATT 59.600 47.619 5.60 0.00 32.26 2.57
4318 6711 1.012841 GCTTCGCTGCTTAGCTTGAT 58.987 50.000 5.60 0.00 32.26 2.57
4319 6712 0.320683 TGCTTCGCTGCTTAGCTTGA 60.321 50.000 19.01 0.00 35.93 3.02
4320 6713 0.518636 TTGCTTCGCTGCTTAGCTTG 59.481 50.000 19.01 0.00 35.93 4.01
4321 6714 1.457346 ATTGCTTCGCTGCTTAGCTT 58.543 45.000 19.01 8.09 35.93 3.74
4322 6715 1.936547 GTATTGCTTCGCTGCTTAGCT 59.063 47.619 19.01 0.00 35.93 3.32
4323 6716 1.936547 AGTATTGCTTCGCTGCTTAGC 59.063 47.619 13.72 13.72 35.50 3.09
4324 6717 5.914085 AATAGTATTGCTTCGCTGCTTAG 57.086 39.130 0.00 0.00 0.00 2.18
4325 6718 7.796838 CAATAATAGTATTGCTTCGCTGCTTA 58.203 34.615 9.76 0.00 40.06 3.09
4326 6719 6.662616 CAATAATAGTATTGCTTCGCTGCTT 58.337 36.000 9.76 0.00 40.06 3.91
4327 6720 6.233430 CAATAATAGTATTGCTTCGCTGCT 57.767 37.500 9.76 0.00 40.06 4.24
4336 6729 8.920986 GGCTGCAGGCACAATAATAGTATTGC 62.921 46.154 33.31 9.96 42.56 3.56
4337 6730 5.563475 GGCTGCAGGCACAATAATAGTATTG 60.563 44.000 33.31 18.75 43.37 1.90
4338 6731 4.520492 GGCTGCAGGCACAATAATAGTATT 59.480 41.667 33.31 0.17 44.01 1.89
4339 6732 4.074970 GGCTGCAGGCACAATAATAGTAT 58.925 43.478 33.31 0.00 44.01 2.12
4340 6733 3.476552 GGCTGCAGGCACAATAATAGTA 58.523 45.455 33.31 0.00 44.01 1.82
4341 6734 2.301346 GGCTGCAGGCACAATAATAGT 58.699 47.619 33.31 0.00 44.01 2.12
4342 6735 1.265095 CGGCTGCAGGCACAATAATAG 59.735 52.381 35.84 15.33 44.01 1.73
4343 6736 1.308047 CGGCTGCAGGCACAATAATA 58.692 50.000 35.84 0.00 44.01 0.98
4344 6737 2.008268 GCGGCTGCAGGCACAATAAT 62.008 55.000 35.84 0.00 44.01 1.28
4345 6738 2.699768 GCGGCTGCAGGCACAATAA 61.700 57.895 35.84 0.00 44.01 1.40
4346 6739 3.133464 GCGGCTGCAGGCACAATA 61.133 61.111 35.84 0.00 44.01 1.90
4356 6749 0.520404 CATCCTGATAATGCGGCTGC 59.480 55.000 11.65 11.65 43.20 5.25
4357 6750 0.520404 GCATCCTGATAATGCGGCTG 59.480 55.000 0.00 0.00 40.05 4.85
4358 6751 2.938354 GCATCCTGATAATGCGGCT 58.062 52.632 0.00 0.00 40.05 5.52
4390 6783 8.352201 GCCAGATCATTTGTTGTTATAATAGCA 58.648 33.333 0.00 0.00 0.00 3.49
4391 6784 8.571336 AGCCAGATCATTTGTTGTTATAATAGC 58.429 33.333 0.00 0.00 0.00 2.97
4392 6785 9.888878 CAGCCAGATCATTTGTTGTTATAATAG 57.111 33.333 0.00 0.00 0.00 1.73
4393 6786 8.352201 GCAGCCAGATCATTTGTTGTTATAATA 58.648 33.333 0.00 0.00 0.00 0.98
4394 6787 7.147863 TGCAGCCAGATCATTTGTTGTTATAAT 60.148 33.333 0.00 0.00 0.00 1.28
4395 6788 6.152492 TGCAGCCAGATCATTTGTTGTTATAA 59.848 34.615 0.00 0.00 0.00 0.98
4396 6789 5.651576 TGCAGCCAGATCATTTGTTGTTATA 59.348 36.000 0.00 0.00 0.00 0.98
4397 6790 4.463539 TGCAGCCAGATCATTTGTTGTTAT 59.536 37.500 0.00 0.00 0.00 1.89
4398 6791 3.825585 TGCAGCCAGATCATTTGTTGTTA 59.174 39.130 0.00 0.00 0.00 2.41
4399 6792 2.629137 TGCAGCCAGATCATTTGTTGTT 59.371 40.909 0.00 0.00 0.00 2.83
4400 6793 2.241160 TGCAGCCAGATCATTTGTTGT 58.759 42.857 0.00 0.00 0.00 3.32
4401 6794 3.520290 ATGCAGCCAGATCATTTGTTG 57.480 42.857 0.00 0.00 0.00 3.33
4402 6795 4.529897 TCTATGCAGCCAGATCATTTGTT 58.470 39.130 0.00 0.00 0.00 2.83
4403 6796 4.160642 TCTATGCAGCCAGATCATTTGT 57.839 40.909 0.00 0.00 0.00 2.83
4404 6797 5.048153 CATCTATGCAGCCAGATCATTTG 57.952 43.478 4.04 0.00 28.88 2.32
4419 6812 3.136763 GGTGACTGGTGATGCATCTATG 58.863 50.000 26.32 15.75 0.00 2.23
4420 6813 2.105477 GGGTGACTGGTGATGCATCTAT 59.895 50.000 26.32 8.16 0.00 1.98
4421 6814 1.486310 GGGTGACTGGTGATGCATCTA 59.514 52.381 26.32 11.05 0.00 1.98
4422 6815 0.254178 GGGTGACTGGTGATGCATCT 59.746 55.000 26.32 6.68 0.00 2.90
4423 6816 0.749454 GGGGTGACTGGTGATGCATC 60.749 60.000 20.14 20.14 0.00 3.91
4424 6817 1.304282 GGGGTGACTGGTGATGCAT 59.696 57.895 0.00 0.00 0.00 3.96
4425 6818 2.756400 GGGGTGACTGGTGATGCA 59.244 61.111 0.00 0.00 0.00 3.96
4426 6819 2.044946 GGGGGTGACTGGTGATGC 60.045 66.667 0.00 0.00 0.00 3.91
4427 6820 0.322816 CAAGGGGGTGACTGGTGATG 60.323 60.000 0.00 0.00 0.00 3.07
4428 6821 0.772124 ACAAGGGGGTGACTGGTGAT 60.772 55.000 0.00 0.00 0.00 3.06
4429 6822 0.104882 TACAAGGGGGTGACTGGTGA 60.105 55.000 0.00 0.00 0.00 4.02
4430 6823 0.768622 TTACAAGGGGGTGACTGGTG 59.231 55.000 0.00 0.00 0.00 4.17
4431 6824 1.525175 TTTACAAGGGGGTGACTGGT 58.475 50.000 0.00 0.00 0.00 4.00
4432 6825 2.899303 ATTTACAAGGGGGTGACTGG 57.101 50.000 0.00 0.00 0.00 4.00
4433 6826 4.343814 ACAAAATTTACAAGGGGGTGACTG 59.656 41.667 0.00 0.00 0.00 3.51
4434 6827 4.552674 ACAAAATTTACAAGGGGGTGACT 58.447 39.130 0.00 0.00 0.00 3.41
4435 6828 4.342665 TGACAAAATTTACAAGGGGGTGAC 59.657 41.667 0.00 0.00 0.00 3.67
4436 6829 4.547671 TGACAAAATTTACAAGGGGGTGA 58.452 39.130 0.00 0.00 0.00 4.02
4437 6830 4.946478 TGACAAAATTTACAAGGGGGTG 57.054 40.909 0.00 0.00 0.00 4.61
4438 6831 7.446769 GTTATTGACAAAATTTACAAGGGGGT 58.553 34.615 0.00 0.00 0.00 4.95
4439 6832 6.876789 GGTTATTGACAAAATTTACAAGGGGG 59.123 38.462 0.00 0.00 0.00 5.40
4440 6833 7.386573 GTGGTTATTGACAAAATTTACAAGGGG 59.613 37.037 0.00 0.00 0.00 4.79
4441 6834 7.928706 TGTGGTTATTGACAAAATTTACAAGGG 59.071 33.333 0.00 0.00 0.00 3.95
4442 6835 8.879342 TGTGGTTATTGACAAAATTTACAAGG 57.121 30.769 0.00 0.00 0.00 3.61
4450 6843 9.295825 TGTCTCTTATGTGGTTATTGACAAAAT 57.704 29.630 0.00 0.00 0.00 1.82
4451 6844 8.684386 TGTCTCTTATGTGGTTATTGACAAAA 57.316 30.769 0.00 0.00 0.00 2.44
4452 6845 8.684386 TTGTCTCTTATGTGGTTATTGACAAA 57.316 30.769 0.00 0.00 38.43 2.83
4453 6846 8.729756 CATTGTCTCTTATGTGGTTATTGACAA 58.270 33.333 0.00 0.00 43.06 3.18
4454 6847 7.882791 ACATTGTCTCTTATGTGGTTATTGACA 59.117 33.333 0.00 0.00 33.90 3.58
4455 6848 8.177663 CACATTGTCTCTTATGTGGTTATTGAC 58.822 37.037 0.00 0.00 44.90 3.18
4456 6849 8.267620 CACATTGTCTCTTATGTGGTTATTGA 57.732 34.615 0.00 0.00 44.90 2.57
4465 6858 2.009774 GCGGCACATTGTCTCTTATGT 58.990 47.619 0.00 0.00 35.45 2.29
4466 6859 2.009051 TGCGGCACATTGTCTCTTATG 58.991 47.619 0.00 0.00 0.00 1.90
4467 6860 2.401583 TGCGGCACATTGTCTCTTAT 57.598 45.000 0.00 0.00 0.00 1.73
4468 6861 2.093500 AGATGCGGCACATTGTCTCTTA 60.093 45.455 4.03 0.00 39.84 2.10
4469 6862 1.089920 GATGCGGCACATTGTCTCTT 58.910 50.000 4.03 0.00 39.84 2.85
4470 6863 0.251354 AGATGCGGCACATTGTCTCT 59.749 50.000 4.03 0.00 39.84 3.10
4471 6864 1.089920 AAGATGCGGCACATTGTCTC 58.910 50.000 4.03 0.00 39.84 3.36
4472 6865 0.806868 CAAGATGCGGCACATTGTCT 59.193 50.000 4.03 0.08 39.84 3.41
4473 6866 0.804364 TCAAGATGCGGCACATTGTC 59.196 50.000 21.45 9.87 39.84 3.18
4474 6867 0.806868 CTCAAGATGCGGCACATTGT 59.193 50.000 21.45 1.23 39.84 2.71
4475 6868 0.524816 GCTCAAGATGCGGCACATTG 60.525 55.000 18.15 18.15 39.84 2.82
4476 6869 0.961857 TGCTCAAGATGCGGCACATT 60.962 50.000 4.03 0.00 39.84 2.71
4477 6870 1.374343 CTGCTCAAGATGCGGCACAT 61.374 55.000 4.03 0.00 43.54 3.21
4478 6871 2.032376 TGCTCAAGATGCGGCACA 59.968 55.556 4.03 0.00 0.00 4.57
4479 6872 2.789917 CTGCTCAAGATGCGGCAC 59.210 61.111 4.03 0.00 0.00 5.01
4482 6875 2.470362 CCAGCTGCTCAAGATGCGG 61.470 63.158 8.66 0.00 41.17 5.69
4483 6876 1.022982 TTCCAGCTGCTCAAGATGCG 61.023 55.000 8.66 0.00 41.17 4.73
4484 6877 0.450983 GTTCCAGCTGCTCAAGATGC 59.549 55.000 8.66 0.00 41.17 3.91
4485 6878 2.110901 AGTTCCAGCTGCTCAAGATG 57.889 50.000 8.66 0.00 42.21 2.90
4486 6879 2.875094 AAGTTCCAGCTGCTCAAGAT 57.125 45.000 8.66 0.00 0.00 2.40
4487 6880 3.769739 TTAAGTTCCAGCTGCTCAAGA 57.230 42.857 8.66 0.00 0.00 3.02
4488 6881 5.382618 AAATTAAGTTCCAGCTGCTCAAG 57.617 39.130 8.66 0.00 0.00 3.02
4489 6882 5.789643 AAAATTAAGTTCCAGCTGCTCAA 57.210 34.783 8.66 0.00 0.00 3.02
4490 6883 5.789643 AAAAATTAAGTTCCAGCTGCTCA 57.210 34.783 8.66 0.00 0.00 4.26
4534 6927 8.606830 ACTTCTGATACTGAGGGAGTAATTTTT 58.393 33.333 0.00 0.00 40.67 1.94
4535 6928 8.152023 ACTTCTGATACTGAGGGAGTAATTTT 57.848 34.615 0.00 0.00 40.67 1.82
4536 6929 7.741554 ACTTCTGATACTGAGGGAGTAATTT 57.258 36.000 0.00 0.00 40.67 1.82
4537 6930 9.084533 GATACTTCTGATACTGAGGGAGTAATT 57.915 37.037 0.00 0.00 40.67 1.40
4538 6931 8.228206 TGATACTTCTGATACTGAGGGAGTAAT 58.772 37.037 0.00 0.00 40.67 1.89
4539 6932 7.583625 TGATACTTCTGATACTGAGGGAGTAA 58.416 38.462 0.00 0.00 40.67 2.24
4540 6933 7.150447 TGATACTTCTGATACTGAGGGAGTA 57.850 40.000 0.00 0.00 41.57 2.59
4541 6934 6.019656 TGATACTTCTGATACTGAGGGAGT 57.980 41.667 0.00 0.00 38.88 3.85
4542 6935 6.968263 TTGATACTTCTGATACTGAGGGAG 57.032 41.667 0.00 0.00 0.00 4.30
4543 6936 7.733773 TTTTGATACTTCTGATACTGAGGGA 57.266 36.000 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.