Multiple sequence alignment - TraesCS7A01G230900

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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 TraesCS7A01G230900 chr7A 100.000 4517 0 0 1 4517 201538609 201543125 0.000000e+00 8342.0
1 TraesCS7A01G230900 chr7B 92.641 3941 182 42 1 3888 337635325 337639210 0.000000e+00 5572.0
2 TraesCS7A01G230900 chr7B 87.430 533 58 7 3989 4517 337639209 337639736 5.000000e-169 604.0
3 TraesCS7A01G230900 chr7B 93.478 46 1 2 793 838 337636144 337636187 2.920000e-07 67.6
4 TraesCS7A01G230900 chr7D 94.882 3009 133 7 839 3831 192154984 192157987 0.000000e+00 4684.0
5 TraesCS7A01G230900 chr7D 89.085 852 60 13 11 838 192154175 192155017 0.000000e+00 1027.0
6 TraesCS7A01G230900 chr7D 89.668 542 37 8 3989 4517 192158026 192158561 0.000000e+00 673.0
7 TraesCS7A01G230900 chr3B 79.854 2323 395 42 1101 3393 72483775 72481496 0.000000e+00 1629.0
8 TraesCS7A01G230900 chr3A 81.229 1204 186 18 2204 3393 57890842 57889665 0.000000e+00 935.0
9 TraesCS7A01G230900 chr3A 78.972 1089 199 20 1107 2171 57891915 57890833 0.000000e+00 715.0


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 TraesCS7A01G230900 chr7A 201538609 201543125 4516 False 8342.0 8342 100.000000 1 4517 1 chr7A.!!$F1 4516
1 TraesCS7A01G230900 chr7B 337635325 337639736 4411 False 2081.2 5572 91.183000 1 4517 3 chr7B.!!$F1 4516
2 TraesCS7A01G230900 chr7D 192154175 192158561 4386 False 2128.0 4684 91.211667 11 4517 3 chr7D.!!$F1 4506
3 TraesCS7A01G230900 chr3B 72481496 72483775 2279 True 1629.0 1629 79.854000 1101 3393 1 chr3B.!!$R1 2292
4 TraesCS7A01G230900 chr3A 57889665 57891915 2250 True 825.0 935 80.100500 1107 3393 2 chr3A.!!$R1 2286

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
22 23 1.077501 ATGTCCTCGTTGGCATGGG 60.078 57.895 0.00 0.00 33.47 4.00 F
1694 1751 1.227380 GGTCCGCACTGCAGGATAG 60.227 63.158 19.93 6.02 34.90 2.08 F
2032 2101 0.393077 AAACTGTGACCCTGGTCTCG 59.607 55.000 16.81 11.62 44.80 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2000 2069 0.107654 ACAGTTTGGATAGGAGCCGC 60.108 55.0 0.0 0.0 0.00 6.53 R
3141 3219 0.404040 AGCCTTCCACGGGATCAAAA 59.596 50.0 0.0 0.0 0.00 2.44 R
3917 4006 0.321671 GGTGCTGTCTGAACTGCCTA 59.678 55.0 5.2 0.0 46.51 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
22 23 1.077501 ATGTCCTCGTTGGCATGGG 60.078 57.895 0.00 0.00 33.47 4.00
63 64 2.358898 GCCGCAATGGAAATGTGTAGAT 59.641 45.455 0.00 0.00 42.00 1.98
117 132 4.813697 GCCTCACTCTGTTCCAGATTAATC 59.186 45.833 7.41 7.41 39.92 1.75
119 134 5.814705 CCTCACTCTGTTCCAGATTAATCAC 59.185 44.000 17.56 7.37 39.92 3.06
123 138 5.940470 ACTCTGTTCCAGATTAATCACAACC 59.060 40.000 17.56 3.37 39.92 3.77
160 181 7.872483 AGCAGACGAATACAAAAATGGAAAAAT 59.128 29.630 0.00 0.00 0.00 1.82
202 223 6.293004 ACCCTTTTTGTGTTCATTTTCAGA 57.707 33.333 0.00 0.00 0.00 3.27
225 248 3.062466 GCCGGCCTTTCTCCAACC 61.062 66.667 18.11 0.00 0.00 3.77
233 256 2.930950 CCTTTCTCCAACCTGTGTTCA 58.069 47.619 0.00 0.00 30.42 3.18
235 258 3.891366 CCTTTCTCCAACCTGTGTTCATT 59.109 43.478 0.00 0.00 30.42 2.57
237 260 5.163416 CCTTTCTCCAACCTGTGTTCATTTT 60.163 40.000 0.00 0.00 30.42 1.82
238 261 5.514274 TTCTCCAACCTGTGTTCATTTTC 57.486 39.130 0.00 0.00 30.42 2.29
239 262 4.531854 TCTCCAACCTGTGTTCATTTTCA 58.468 39.130 0.00 0.00 30.42 2.69
250 280 3.243367 TGTTCATTTTCAGTGCTTTCCCG 60.243 43.478 0.00 0.00 0.00 5.14
439 469 9.851686 TTGCTACCAGTATCATGATTTATTCTT 57.148 29.630 14.65 0.00 0.00 2.52
440 470 9.276590 TGCTACCAGTATCATGATTTATTCTTG 57.723 33.333 14.65 4.34 0.00 3.02
441 471 9.277783 GCTACCAGTATCATGATTTATTCTTGT 57.722 33.333 14.65 9.18 32.65 3.16
444 474 9.561069 ACCAGTATCATGATTTATTCTTGTACC 57.439 33.333 14.65 0.00 32.65 3.34
445 475 9.784531 CCAGTATCATGATTTATTCTTGTACCT 57.215 33.333 14.65 0.00 32.65 3.08
481 513 9.620259 AGTCCCTTAAATCATATTTTCAGAGTC 57.380 33.333 0.00 0.00 0.00 3.36
499 531 6.882072 CAGAGTCTGTAACACTGAATCAAAC 58.118 40.000 12.28 0.00 46.11 2.93
556 593 4.157656 GTGCAAAAGGCTATGGTGTGAATA 59.842 41.667 0.00 0.00 45.15 1.75
557 594 4.157656 TGCAAAAGGCTATGGTGTGAATAC 59.842 41.667 0.00 0.00 45.15 1.89
596 633 5.067153 TGTTGGAAGTCATGAAAACGATGTT 59.933 36.000 0.00 0.00 0.00 2.71
598 635 5.518812 TGGAAGTCATGAAAACGATGTTTG 58.481 37.500 0.00 0.00 0.00 2.93
804 846 7.337184 TGTTGTAACAAGACATTTTGTCACCTA 59.663 33.333 10.05 0.00 40.87 3.08
905 947 2.673523 GAGACTGCCCACCAGCAT 59.326 61.111 0.00 0.00 45.78 3.79
1016 1058 5.391629 GGACGTTAATGACTGGATGGTTTTC 60.392 44.000 0.58 0.00 0.00 2.29
1077 1119 3.018973 GCACGGAGCAAACGTCAA 58.981 55.556 0.00 0.00 43.58 3.18
1097 1139 4.637534 TCAAGGCTCTTCATTATGCTTCAC 59.362 41.667 0.00 0.00 0.00 3.18
1114 1156 2.910199 TCACTATGCTGTGGATGCTTC 58.090 47.619 5.53 0.00 38.40 3.86
1119 1161 1.527034 TGCTGTGGATGCTTCTGTTC 58.473 50.000 0.00 0.00 0.00 3.18
1162 1204 1.804151 GCGGCAGTATTCAGAAACACA 59.196 47.619 0.00 0.00 0.00 3.72
1230 1272 5.998454 ACAATGGAATATTTCTGCTCTCG 57.002 39.130 0.00 0.00 0.00 4.04
1353 1401 1.550524 ACTGCGAATGCTAACTCTCCA 59.449 47.619 0.00 0.00 43.34 3.86
1613 1661 1.535462 CCATTCCACCGAACAGAACAC 59.465 52.381 0.00 0.00 0.00 3.32
1638 1686 7.173218 ACGACACATACACTTCAAATCAAATCT 59.827 33.333 0.00 0.00 0.00 2.40
1662 1710 1.665679 GACATGATGTTGTACGCAGGG 59.334 52.381 0.00 0.00 0.00 4.45
1694 1751 1.227380 GGTCCGCACTGCAGGATAG 60.227 63.158 19.93 6.02 34.90 2.08
1719 1776 3.270877 GCTGATCGTTAACAAGGATGGT 58.729 45.455 6.39 0.00 36.24 3.55
1725 1782 4.580868 TCGTTAACAAGGATGGTGCAATA 58.419 39.130 6.39 0.00 0.00 1.90
1857 1914 4.034246 CTCGGTGAGGATGGGTCA 57.966 61.111 0.00 0.00 0.00 4.02
1997 2066 1.397390 GGATGCCAATGCCCTTCAGG 61.397 60.000 0.00 0.00 36.33 3.86
2032 2101 0.393077 AAACTGTGACCCTGGTCTCG 59.607 55.000 16.81 11.62 44.80 4.04
2057 2126 5.367945 TCACCTTGTAAGTCAAAAGAGGT 57.632 39.130 0.00 0.00 35.48 3.85
2321 2396 2.598394 GCAAGCTGGGAGTGGCAA 60.598 61.111 0.00 0.00 0.00 4.52
2327 2402 0.895100 GCTGGGAGTGGCAATGACAA 60.895 55.000 0.00 0.00 0.00 3.18
2382 2457 3.740115 AGTCGTAACTTTGGCTGTCATT 58.260 40.909 0.00 0.00 28.74 2.57
2781 2859 0.606401 ACATGGCGAAAGGGTCACTG 60.606 55.000 0.00 0.00 0.00 3.66
2810 2888 3.453353 TGGATTTTCCGTACTAAGGAGGG 59.547 47.826 0.00 0.00 40.17 4.30
3102 3180 4.066490 AGAAGAGCGACGTATACAGCTAT 58.934 43.478 14.80 10.62 40.39 2.97
3105 3183 1.068472 AGCGACGTATACAGCTATGGC 60.068 52.381 13.64 0.00 38.29 4.40
3141 3219 5.053978 AGATAATCAGCGGGAGGAAAAAT 57.946 39.130 0.00 0.00 0.00 1.82
3147 3225 3.831911 TCAGCGGGAGGAAAAATTTTGAT 59.168 39.130 3.73 0.00 0.00 2.57
3186 3264 1.304962 GGCCCATTTCCCGTCCTTT 60.305 57.895 0.00 0.00 0.00 3.11
3232 3310 1.464734 TCTTCGCGAGATCCTTGACT 58.535 50.000 9.59 0.00 41.60 3.41
3246 3324 2.503356 CCTTGACTCCAAGCTGAGGTAT 59.497 50.000 6.08 0.00 46.42 2.73
3621 3704 8.741841 TCATTTGTTCACATTGATGTCATGTAT 58.258 29.630 0.00 0.00 39.39 2.29
3647 3730 5.581126 TGTTGATCATTATTTCAGGTGGC 57.419 39.130 0.00 0.00 0.00 5.01
3652 3735 5.716228 TGATCATTATTTCAGGTGGCACTTT 59.284 36.000 18.45 3.33 0.00 2.66
3777 3866 4.038642 CAGAACTATCAGCTTAGGACTCCC 59.961 50.000 0.00 0.00 0.00 4.30
3786 3875 2.166664 GCTTAGGACTCCCTGTGTACTG 59.833 54.545 0.00 0.00 44.15 2.74
3802 3891 7.068103 CCTGTGTACTGAGATGTCTCTCTAAAT 59.932 40.741 11.03 0.00 46.84 1.40
3806 3895 6.463995 ACTGAGATGTCTCTCTAAATGGTC 57.536 41.667 11.03 0.00 46.84 4.02
3816 3905 7.016268 TGTCTCTCTAAATGGTCTTGGTAAACT 59.984 37.037 0.00 0.00 0.00 2.66
3838 3927 6.421485 ACTTGTGGCATATTCAGATCTTCTT 58.579 36.000 0.00 0.00 0.00 2.52
3840 3929 5.128205 TGTGGCATATTCAGATCTTCTTGG 58.872 41.667 0.00 0.00 0.00 3.61
3841 3930 5.128919 GTGGCATATTCAGATCTTCTTGGT 58.871 41.667 0.00 0.00 0.00 3.67
3842 3931 5.591877 GTGGCATATTCAGATCTTCTTGGTT 59.408 40.000 0.00 0.00 0.00 3.67
3843 3932 6.096001 GTGGCATATTCAGATCTTCTTGGTTT 59.904 38.462 0.00 0.00 0.00 3.27
3844 3933 6.664816 TGGCATATTCAGATCTTCTTGGTTTT 59.335 34.615 0.00 0.00 0.00 2.43
3845 3934 7.148018 TGGCATATTCAGATCTTCTTGGTTTTC 60.148 37.037 0.00 0.00 0.00 2.29
3890 3979 9.677567 TCAAAAGTTTGACAAATAATGCTACTC 57.322 29.630 3.49 0.00 41.88 2.59
3891 3980 8.915654 CAAAAGTTTGACAAATAATGCTACTCC 58.084 33.333 3.49 0.00 40.55 3.85
3892 3981 6.759497 AGTTTGACAAATAATGCTACTCCC 57.241 37.500 3.49 0.00 0.00 4.30
3893 3982 6.485171 AGTTTGACAAATAATGCTACTCCCT 58.515 36.000 3.49 0.00 0.00 4.20
3894 3983 6.599638 AGTTTGACAAATAATGCTACTCCCTC 59.400 38.462 3.49 0.00 0.00 4.30
3895 3984 5.957771 TGACAAATAATGCTACTCCCTCT 57.042 39.130 0.00 0.00 0.00 3.69
3896 3985 5.674525 TGACAAATAATGCTACTCCCTCTG 58.325 41.667 0.00 0.00 0.00 3.35
3897 3986 5.189736 TGACAAATAATGCTACTCCCTCTGT 59.810 40.000 0.00 0.00 0.00 3.41
3898 3987 6.067217 ACAAATAATGCTACTCCCTCTGTT 57.933 37.500 0.00 0.00 0.00 3.16
3899 3988 6.116126 ACAAATAATGCTACTCCCTCTGTTC 58.884 40.000 0.00 0.00 0.00 3.18
3900 3989 5.957771 AATAATGCTACTCCCTCTGTTCA 57.042 39.130 0.00 0.00 0.00 3.18
3901 3990 3.618690 AATGCTACTCCCTCTGTTCAC 57.381 47.619 0.00 0.00 0.00 3.18
3902 3991 2.310779 TGCTACTCCCTCTGTTCACT 57.689 50.000 0.00 0.00 0.00 3.41
3903 3992 2.609747 TGCTACTCCCTCTGTTCACTT 58.390 47.619 0.00 0.00 0.00 3.16
3904 3993 3.774734 TGCTACTCCCTCTGTTCACTTA 58.225 45.455 0.00 0.00 0.00 2.24
3905 3994 4.353777 TGCTACTCCCTCTGTTCACTTAT 58.646 43.478 0.00 0.00 0.00 1.73
3906 3995 4.160439 TGCTACTCCCTCTGTTCACTTATG 59.840 45.833 0.00 0.00 0.00 1.90
3907 3996 4.160626 GCTACTCCCTCTGTTCACTTATGT 59.839 45.833 0.00 0.00 0.00 2.29
3908 3997 5.360144 GCTACTCCCTCTGTTCACTTATGTA 59.640 44.000 0.00 0.00 0.00 2.29
3909 3998 6.127423 GCTACTCCCTCTGTTCACTTATGTAA 60.127 42.308 0.00 0.00 0.00 2.41
3910 3999 6.287589 ACTCCCTCTGTTCACTTATGTAAG 57.712 41.667 0.00 0.00 39.18 2.34
3911 4000 5.187967 ACTCCCTCTGTTCACTTATGTAAGG 59.812 44.000 4.92 0.00 37.62 2.69
3912 4001 4.081087 TCCCTCTGTTCACTTATGTAAGGC 60.081 45.833 4.92 0.00 37.62 4.35
3913 4002 3.865745 CCTCTGTTCACTTATGTAAGGCG 59.134 47.826 4.92 0.00 37.62 5.52
3914 4003 4.495422 CTCTGTTCACTTATGTAAGGCGT 58.505 43.478 4.92 0.00 37.62 5.68
3915 4004 4.890088 TCTGTTCACTTATGTAAGGCGTT 58.110 39.130 4.92 0.00 37.62 4.84
3916 4005 5.302360 TCTGTTCACTTATGTAAGGCGTTT 58.698 37.500 0.00 0.00 37.62 3.60
3917 4006 5.761234 TCTGTTCACTTATGTAAGGCGTTTT 59.239 36.000 0.00 0.00 37.62 2.43
3918 4007 6.930164 TCTGTTCACTTATGTAAGGCGTTTTA 59.070 34.615 0.00 0.00 37.62 1.52
3919 4008 7.117236 TCTGTTCACTTATGTAAGGCGTTTTAG 59.883 37.037 0.00 0.00 37.62 1.85
3920 4009 6.148150 TGTTCACTTATGTAAGGCGTTTTAGG 59.852 38.462 0.00 0.00 37.62 2.69
3921 4010 4.632688 TCACTTATGTAAGGCGTTTTAGGC 59.367 41.667 0.00 0.00 37.62 3.93
3922 4011 4.393680 CACTTATGTAAGGCGTTTTAGGCA 59.606 41.667 0.00 0.00 37.62 4.75
3923 4012 4.634443 ACTTATGTAAGGCGTTTTAGGCAG 59.366 41.667 0.00 0.00 37.62 4.85
3924 4013 2.554370 TGTAAGGCGTTTTAGGCAGT 57.446 45.000 0.00 0.00 39.37 4.40
3925 4014 2.853705 TGTAAGGCGTTTTAGGCAGTT 58.146 42.857 0.00 0.00 39.37 3.16
3926 4015 2.809696 TGTAAGGCGTTTTAGGCAGTTC 59.190 45.455 0.00 0.00 39.37 3.01
3927 4016 1.975660 AAGGCGTTTTAGGCAGTTCA 58.024 45.000 0.00 0.00 39.37 3.18
3928 4017 1.523758 AGGCGTTTTAGGCAGTTCAG 58.476 50.000 0.00 0.00 39.37 3.02
3929 4018 1.071699 AGGCGTTTTAGGCAGTTCAGA 59.928 47.619 0.00 0.00 39.37 3.27
3930 4019 1.197036 GGCGTTTTAGGCAGTTCAGAC 59.803 52.381 0.00 0.00 36.61 3.51
3931 4020 1.871039 GCGTTTTAGGCAGTTCAGACA 59.129 47.619 0.00 0.00 0.00 3.41
3932 4021 2.096218 GCGTTTTAGGCAGTTCAGACAG 60.096 50.000 0.00 0.00 0.00 3.51
3933 4022 2.096218 CGTTTTAGGCAGTTCAGACAGC 60.096 50.000 0.00 0.00 37.54 4.40
3934 4023 2.878406 GTTTTAGGCAGTTCAGACAGCA 59.122 45.455 0.00 0.00 39.79 4.41
3935 4024 2.169832 TTAGGCAGTTCAGACAGCAC 57.830 50.000 0.00 0.00 39.79 4.40
3936 4025 0.321671 TAGGCAGTTCAGACAGCACC 59.678 55.000 0.00 0.00 39.79 5.01
3937 4026 1.968540 GGCAGTTCAGACAGCACCC 60.969 63.158 0.00 0.00 39.79 4.61
3938 4027 1.227943 GCAGTTCAGACAGCACCCA 60.228 57.895 0.00 0.00 38.11 4.51
3939 4028 0.819259 GCAGTTCAGACAGCACCCAA 60.819 55.000 0.00 0.00 38.11 4.12
3940 4029 1.679139 CAGTTCAGACAGCACCCAAA 58.321 50.000 0.00 0.00 0.00 3.28
3941 4030 2.023673 CAGTTCAGACAGCACCCAAAA 58.976 47.619 0.00 0.00 0.00 2.44
3942 4031 2.624838 CAGTTCAGACAGCACCCAAAAT 59.375 45.455 0.00 0.00 0.00 1.82
3943 4032 3.820467 CAGTTCAGACAGCACCCAAAATA 59.180 43.478 0.00 0.00 0.00 1.40
3944 4033 4.074970 AGTTCAGACAGCACCCAAAATAG 58.925 43.478 0.00 0.00 0.00 1.73
3945 4034 3.788227 TCAGACAGCACCCAAAATAGT 57.212 42.857 0.00 0.00 0.00 2.12
3946 4035 4.098914 TCAGACAGCACCCAAAATAGTT 57.901 40.909 0.00 0.00 0.00 2.24
3947 4036 4.072131 TCAGACAGCACCCAAAATAGTTC 58.928 43.478 0.00 0.00 0.00 3.01
3948 4037 3.820467 CAGACAGCACCCAAAATAGTTCA 59.180 43.478 0.00 0.00 0.00 3.18
3949 4038 4.278170 CAGACAGCACCCAAAATAGTTCAA 59.722 41.667 0.00 0.00 0.00 2.69
3950 4039 4.278419 AGACAGCACCCAAAATAGTTCAAC 59.722 41.667 0.00 0.00 0.00 3.18
3951 4040 3.957497 ACAGCACCCAAAATAGTTCAACA 59.043 39.130 0.00 0.00 0.00 3.33
3952 4041 4.588528 ACAGCACCCAAAATAGTTCAACAT 59.411 37.500 0.00 0.00 0.00 2.71
3953 4042 5.163513 CAGCACCCAAAATAGTTCAACATC 58.836 41.667 0.00 0.00 0.00 3.06
3954 4043 4.832266 AGCACCCAAAATAGTTCAACATCA 59.168 37.500 0.00 0.00 0.00 3.07
3955 4044 5.047802 AGCACCCAAAATAGTTCAACATCAG 60.048 40.000 0.00 0.00 0.00 2.90
3956 4045 5.163513 CACCCAAAATAGTTCAACATCAGC 58.836 41.667 0.00 0.00 0.00 4.26
3957 4046 5.047802 CACCCAAAATAGTTCAACATCAGCT 60.048 40.000 0.00 0.00 0.00 4.24
3958 4047 5.047802 ACCCAAAATAGTTCAACATCAGCTG 60.048 40.000 7.63 7.63 0.00 4.24
3959 4048 5.047802 CCCAAAATAGTTCAACATCAGCTGT 60.048 40.000 14.67 0.00 40.84 4.40
3960 4049 6.088824 CCAAAATAGTTCAACATCAGCTGTC 58.911 40.000 14.67 0.00 36.98 3.51
3961 4050 6.072286 CCAAAATAGTTCAACATCAGCTGTCT 60.072 38.462 14.67 0.00 36.98 3.41
3962 4051 7.119699 CCAAAATAGTTCAACATCAGCTGTCTA 59.880 37.037 14.67 0.00 36.98 2.59
3963 4052 8.506437 CAAAATAGTTCAACATCAGCTGTCTAA 58.494 33.333 14.67 0.00 36.98 2.10
3964 4053 8.621532 AAATAGTTCAACATCAGCTGTCTAAA 57.378 30.769 14.67 0.00 36.98 1.85
3965 4054 8.621532 AATAGTTCAACATCAGCTGTCTAAAA 57.378 30.769 14.67 0.05 36.98 1.52
3966 4055 6.305693 AGTTCAACATCAGCTGTCTAAAAC 57.694 37.500 14.67 11.99 36.98 2.43
3967 4056 4.990543 TCAACATCAGCTGTCTAAAACG 57.009 40.909 14.67 0.00 36.98 3.60
3968 4057 4.377021 TCAACATCAGCTGTCTAAAACGT 58.623 39.130 14.67 0.00 36.98 3.99
3969 4058 4.447724 TCAACATCAGCTGTCTAAAACGTC 59.552 41.667 14.67 0.00 36.98 4.34
3970 4059 3.326747 ACATCAGCTGTCTAAAACGTCC 58.673 45.455 14.67 0.00 29.94 4.79
3971 4060 3.006967 ACATCAGCTGTCTAAAACGTCCT 59.993 43.478 14.67 0.00 29.94 3.85
3972 4061 4.219944 ACATCAGCTGTCTAAAACGTCCTA 59.780 41.667 14.67 0.00 29.94 2.94
3973 4062 4.170292 TCAGCTGTCTAAAACGTCCTAC 57.830 45.455 14.67 0.00 0.00 3.18
3974 4063 3.570975 TCAGCTGTCTAAAACGTCCTACA 59.429 43.478 14.67 0.00 0.00 2.74
3975 4064 4.038282 TCAGCTGTCTAAAACGTCCTACAA 59.962 41.667 14.67 0.00 0.00 2.41
3976 4065 4.748102 CAGCTGTCTAAAACGTCCTACAAA 59.252 41.667 5.25 0.00 0.00 2.83
3977 4066 5.235616 CAGCTGTCTAAAACGTCCTACAAAA 59.764 40.000 5.25 0.00 0.00 2.44
3978 4067 5.818857 AGCTGTCTAAAACGTCCTACAAAAA 59.181 36.000 0.00 0.00 0.00 1.94
4003 4092 5.764192 AGAACGGAGTAGTGTATATCCACTC 59.236 44.000 3.94 0.00 45.00 3.51
4008 4097 6.262496 CGGAGTAGTGTATATCCACTCTTTCA 59.738 42.308 3.94 0.00 44.36 2.69
4009 4098 7.040340 CGGAGTAGTGTATATCCACTCTTTCAT 60.040 40.741 3.94 0.00 44.36 2.57
4010 4099 8.301002 GGAGTAGTGTATATCCACTCTTTCATC 58.699 40.741 3.94 0.00 44.36 2.92
4011 4100 8.768501 AGTAGTGTATATCCACTCTTTCATCA 57.231 34.615 3.94 0.00 44.36 3.07
4012 4101 8.855110 AGTAGTGTATATCCACTCTTTCATCAG 58.145 37.037 3.94 0.00 44.36 2.90
4023 4113 7.720957 TCCACTCTTTCATCAGAGAAAAATCAA 59.279 33.333 4.72 0.00 42.81 2.57
4043 4133 6.834168 TCAAAAGAAACTGTCTTCCAAAGT 57.166 33.333 0.00 0.00 46.36 2.66
4044 4134 7.931578 TCAAAAGAAACTGTCTTCCAAAGTA 57.068 32.000 0.00 0.00 46.36 2.24
4096 4188 9.149225 GAGATCCATTACATACATCTGATCAAC 57.851 37.037 0.00 0.00 31.94 3.18
4106 4198 4.759782 ACATCTGATCAACGGAAACTAGG 58.240 43.478 0.00 0.00 37.44 3.02
4138 4230 4.756084 ATCAGCAAAACTGCAGAACTAC 57.244 40.909 23.35 6.71 46.76 2.73
4146 4238 2.393271 CTGCAGAACTACTGAAGGGG 57.607 55.000 8.42 0.00 45.93 4.79
4234 4329 3.277133 GCATCAACGCCATGGTGT 58.723 55.556 25.40 25.40 40.97 4.16
4235 4330 1.153978 GCATCAACGCCATGGTGTG 60.154 57.895 30.88 22.77 38.98 3.82
4243 4338 0.459411 CGCCATGGTGTGTATCGACA 60.459 55.000 17.59 0.00 0.00 4.35
4271 4366 6.827586 TTTTATGTCGCCTTTCTTACCAAT 57.172 33.333 0.00 0.00 0.00 3.16
4312 4410 2.143122 TGTTCGCAGCGAGAAAGAAAT 58.857 42.857 18.62 0.00 37.14 2.17
4317 4415 2.030823 CGCAGCGAGAAAGAAATATGCA 59.969 45.455 9.98 0.00 32.79 3.96
4320 4418 4.672542 GCAGCGAGAAAGAAATATGCAACA 60.673 41.667 0.00 0.00 32.79 3.33
4381 4479 2.515757 TGCGCCTGAAACACAGCA 60.516 55.556 4.18 0.00 44.52 4.41
4392 4490 0.107017 AACACAGCAGGAACAGCAGT 60.107 50.000 0.00 0.00 45.86 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.285578 GAGAATTCGAGGCAGCTGAC 58.714 55.000 20.43 17.00 0.00 3.51
63 64 5.001232 AGTAAAGAACTGCGCTCCATTAAA 58.999 37.500 9.73 0.00 36.93 1.52
90 105 2.811317 GAACAGAGTGAGGCGCGG 60.811 66.667 8.83 0.00 0.00 6.46
117 132 3.119531 TCTGCTTGAAACAAGTGGTTGTG 60.120 43.478 12.07 0.00 46.68 3.33
119 134 3.438360 GTCTGCTTGAAACAAGTGGTTG 58.562 45.455 12.07 0.00 40.35 3.77
123 138 3.673746 TTCGTCTGCTTGAAACAAGTG 57.326 42.857 12.07 6.77 0.00 3.16
160 181 7.451731 AAGGGTAAAATATCCATCACTCTCA 57.548 36.000 0.00 0.00 0.00 3.27
225 248 4.741676 GGAAAGCACTGAAAATGAACACAG 59.258 41.667 0.00 0.00 36.58 3.66
233 256 4.142038 AGTAACGGGAAAGCACTGAAAAT 58.858 39.130 0.00 0.00 0.00 1.82
235 258 3.202829 AGTAACGGGAAAGCACTGAAA 57.797 42.857 0.00 0.00 0.00 2.69
237 260 4.546829 ATTAGTAACGGGAAAGCACTGA 57.453 40.909 0.00 0.00 0.00 3.41
238 261 6.920569 ATAATTAGTAACGGGAAAGCACTG 57.079 37.500 0.00 0.00 0.00 3.66
239 262 9.269453 GATAATAATTAGTAACGGGAAAGCACT 57.731 33.333 0.00 0.00 0.00 4.40
439 469 5.786121 AGGGACTACTACTACAAGGTACA 57.214 43.478 0.00 0.00 36.02 2.90
440 470 8.581253 TTTAAGGGACTACTACTACAAGGTAC 57.419 38.462 0.00 0.00 38.49 3.34
441 471 9.413734 GATTTAAGGGACTACTACTACAAGGTA 57.586 37.037 0.00 0.00 38.49 3.08
442 472 7.897565 TGATTTAAGGGACTACTACTACAAGGT 59.102 37.037 0.00 0.00 38.49 3.50
443 473 8.302515 TGATTTAAGGGACTACTACTACAAGG 57.697 38.462 0.00 0.00 38.49 3.61
478 510 5.597806 TCGTTTGATTCAGTGTTACAGACT 58.402 37.500 0.00 0.00 0.00 3.24
481 513 5.670097 CACTCGTTTGATTCAGTGTTACAG 58.330 41.667 0.00 0.00 33.03 2.74
499 531 0.586319 ACAAACGTTGATGGCACTCG 59.414 50.000 0.00 0.00 0.00 4.18
556 593 4.269183 TCCAACATGAATTAGCCAATCGT 58.731 39.130 0.00 0.00 0.00 3.73
557 594 4.898829 TCCAACATGAATTAGCCAATCG 57.101 40.909 0.00 0.00 0.00 3.34
596 633 3.556999 TCACGGAAAAGGAACCAATCAA 58.443 40.909 0.00 0.00 0.00 2.57
598 635 3.316868 TGTTCACGGAAAAGGAACCAATC 59.683 43.478 0.00 0.00 40.04 2.67
804 846 5.483685 TCCACTAACAACTGTTCTAGCAT 57.516 39.130 0.00 0.00 39.31 3.79
1016 1058 2.417933 CTCTTCCAGTTGGCAATCTTCG 59.582 50.000 1.92 0.00 34.44 3.79
1077 1119 4.500499 AGTGAAGCATAATGAAGAGCCT 57.500 40.909 0.00 0.00 0.00 4.58
1097 1139 2.915349 ACAGAAGCATCCACAGCATAG 58.085 47.619 0.00 0.00 0.00 2.23
1162 1204 0.622665 CTGAACCCTGGCAGGAGAAT 59.377 55.000 34.84 16.77 37.67 2.40
1230 1272 1.463674 AGCCAAACACCGATCCATTC 58.536 50.000 0.00 0.00 0.00 2.67
1353 1401 2.604046 AGCTATCCGAATGCGAAACT 57.396 45.000 0.00 0.00 40.82 2.66
1453 1501 0.979709 TCCAGCAGCTGCATAGAGGT 60.980 55.000 38.24 15.14 45.16 3.85
1613 1661 7.479603 CAGATTTGATTTGAAGTGTATGTGTCG 59.520 37.037 0.00 0.00 0.00 4.35
1638 1686 1.677518 GCGTACAACATCATGTCCCCA 60.678 52.381 0.00 0.00 34.75 4.96
1694 1751 4.119442 TCCTTGTTAACGATCAGCCTAC 57.881 45.455 0.26 0.00 0.00 3.18
1719 1776 3.132111 TGAGGTTCGCAGAGTATATTGCA 59.868 43.478 7.36 0.00 40.28 4.08
1725 1782 3.512033 GAACTGAGGTTCGCAGAGTAT 57.488 47.619 5.71 0.00 41.70 2.12
1857 1914 4.722220 TCTGCAGCATATAGAAGGCAATT 58.278 39.130 9.47 0.00 0.00 2.32
1884 1941 3.700538 TGGCAGATTAGTCTTGCCATTT 58.299 40.909 19.96 0.00 45.38 2.32
1948 2017 6.238103 CCACTATTGCAAATAGAGTACGGTTG 60.238 42.308 17.40 7.11 0.00 3.77
1997 2066 3.750373 TTTGGATAGGAGCCGCGGC 62.750 63.158 42.34 42.34 42.33 6.53
2000 2069 0.107654 ACAGTTTGGATAGGAGCCGC 60.108 55.000 0.00 0.00 0.00 6.53
2009 2078 1.073923 GACCAGGGTCACAGTTTGGAT 59.926 52.381 13.49 0.00 44.02 3.41
2032 2101 6.935208 ACCTCTTTTGACTTACAAGGTGATAC 59.065 38.462 0.00 0.00 39.77 2.24
2057 2126 1.311859 CAGTTGAGCCAGCTGAAACA 58.688 50.000 17.39 8.89 43.65 2.83
2382 2457 1.408127 CCGACATAAATGAGGCCACCA 60.408 52.381 5.01 2.14 0.00 4.17
2469 2547 6.141560 GATATCGTCTGCAGATATCCATCA 57.858 41.667 21.47 2.10 45.44 3.07
2781 2859 3.682696 AGTACGGAAAATCCACCTTTCC 58.317 45.455 4.56 4.56 45.66 3.13
2810 2888 0.543749 CCAGTCCAGAAGGGGATCAC 59.456 60.000 0.00 0.00 39.62 3.06
3105 3183 4.625028 TGATTATCTCGAGCAGAACCATG 58.375 43.478 7.81 0.00 33.62 3.66
3141 3219 0.404040 AGCCTTCCACGGGATCAAAA 59.596 50.000 0.00 0.00 0.00 2.44
3147 3225 1.125093 TTTCTGAGCCTTCCACGGGA 61.125 55.000 0.00 0.00 0.00 5.14
3186 3264 1.421268 TCCTCCAGCTTCTTGAAAGCA 59.579 47.619 11.90 0.00 45.30 3.91
3232 3310 3.093814 TGTCGTTATACCTCAGCTTGGA 58.906 45.455 9.32 0.00 0.00 3.53
3246 3324 1.816835 AGTCGCTCATCCTTGTCGTTA 59.183 47.619 0.00 0.00 0.00 3.18
3621 3704 9.013229 GCCACCTGAAATAATGATCAACATATA 57.987 33.333 0.00 0.00 38.38 0.86
3702 3788 8.956533 AGCTTAAAAACTAAATCTGGCAAAAA 57.043 26.923 0.00 0.00 0.00 1.94
3742 3831 8.485976 AGCTGATAGTTCTGTATTCTCAAAAC 57.514 34.615 0.00 0.00 0.00 2.43
3747 3836 8.079809 GTCCTAAGCTGATAGTTCTGTATTCTC 58.920 40.741 0.00 0.00 0.00 2.87
3802 3891 2.303175 GCCACAAGTTTACCAAGACCA 58.697 47.619 0.00 0.00 0.00 4.02
3806 3895 6.150976 TCTGAATATGCCACAAGTTTACCAAG 59.849 38.462 0.00 0.00 0.00 3.61
3816 3905 5.591472 CCAAGAAGATCTGAATATGCCACAA 59.409 40.000 0.00 0.00 0.00 3.33
3838 3927 4.330944 AGTAGATCACACACGAAAACCA 57.669 40.909 0.00 0.00 0.00 3.67
3840 3929 9.297586 TGATATAAGTAGATCACACACGAAAAC 57.702 33.333 0.00 0.00 29.77 2.43
3841 3930 9.863845 TTGATATAAGTAGATCACACACGAAAA 57.136 29.630 0.00 0.00 34.05 2.29
3842 3931 9.863845 TTTGATATAAGTAGATCACACACGAAA 57.136 29.630 0.00 0.00 34.05 3.46
3843 3932 9.863845 TTTTGATATAAGTAGATCACACACGAA 57.136 29.630 0.00 0.00 34.05 3.85
3844 3933 9.516314 CTTTTGATATAAGTAGATCACACACGA 57.484 33.333 0.00 0.00 34.05 4.35
3845 3934 9.302345 ACTTTTGATATAAGTAGATCACACACG 57.698 33.333 0.00 0.00 34.05 4.49
3874 3963 5.675538 ACAGAGGGAGTAGCATTATTTGTC 58.324 41.667 0.00 0.00 0.00 3.18
3887 3976 5.187967 CCTTACATAAGTGAACAGAGGGAGT 59.812 44.000 0.00 0.00 0.00 3.85
3888 3977 5.665459 CCTTACATAAGTGAACAGAGGGAG 58.335 45.833 0.00 0.00 0.00 4.30
3889 3978 4.081087 GCCTTACATAAGTGAACAGAGGGA 60.081 45.833 0.00 0.00 0.00 4.20
3890 3979 4.192317 GCCTTACATAAGTGAACAGAGGG 58.808 47.826 0.00 0.00 0.00 4.30
3891 3980 3.865745 CGCCTTACATAAGTGAACAGAGG 59.134 47.826 0.00 0.00 0.00 3.69
3892 3981 4.495422 ACGCCTTACATAAGTGAACAGAG 58.505 43.478 0.00 0.00 0.00 3.35
3893 3982 4.530710 ACGCCTTACATAAGTGAACAGA 57.469 40.909 0.00 0.00 0.00 3.41
3894 3983 5.607119 AAACGCCTTACATAAGTGAACAG 57.393 39.130 0.00 0.00 0.00 3.16
3895 3984 6.148150 CCTAAAACGCCTTACATAAGTGAACA 59.852 38.462 0.00 0.00 0.00 3.18
3896 3985 6.540205 CCTAAAACGCCTTACATAAGTGAAC 58.460 40.000 0.00 0.00 0.00 3.18
3897 3986 5.122711 GCCTAAAACGCCTTACATAAGTGAA 59.877 40.000 0.00 0.00 0.00 3.18
3898 3987 4.632688 GCCTAAAACGCCTTACATAAGTGA 59.367 41.667 0.00 0.00 0.00 3.41
3899 3988 4.393680 TGCCTAAAACGCCTTACATAAGTG 59.606 41.667 0.00 0.00 0.00 3.16
3900 3989 4.581868 TGCCTAAAACGCCTTACATAAGT 58.418 39.130 0.00 0.00 0.00 2.24
3901 3990 4.634443 ACTGCCTAAAACGCCTTACATAAG 59.366 41.667 0.00 0.00 0.00 1.73
3902 3991 4.581868 ACTGCCTAAAACGCCTTACATAA 58.418 39.130 0.00 0.00 0.00 1.90
3903 3992 4.210724 ACTGCCTAAAACGCCTTACATA 57.789 40.909 0.00 0.00 0.00 2.29
3904 3993 3.067684 ACTGCCTAAAACGCCTTACAT 57.932 42.857 0.00 0.00 0.00 2.29
3905 3994 2.554370 ACTGCCTAAAACGCCTTACA 57.446 45.000 0.00 0.00 0.00 2.41
3906 3995 2.809696 TGAACTGCCTAAAACGCCTTAC 59.190 45.455 0.00 0.00 0.00 2.34
3907 3996 3.071479 CTGAACTGCCTAAAACGCCTTA 58.929 45.455 0.00 0.00 0.00 2.69
3908 3997 1.880027 CTGAACTGCCTAAAACGCCTT 59.120 47.619 0.00 0.00 0.00 4.35
3909 3998 1.071699 TCTGAACTGCCTAAAACGCCT 59.928 47.619 0.00 0.00 0.00 5.52
3910 3999 1.197036 GTCTGAACTGCCTAAAACGCC 59.803 52.381 0.00 0.00 0.00 5.68
3911 4000 1.871039 TGTCTGAACTGCCTAAAACGC 59.129 47.619 0.00 0.00 0.00 4.84
3912 4001 2.096218 GCTGTCTGAACTGCCTAAAACG 60.096 50.000 0.00 0.00 42.66 3.60
3913 4002 2.878406 TGCTGTCTGAACTGCCTAAAAC 59.122 45.455 5.20 0.00 46.51 2.43
3914 4003 2.878406 GTGCTGTCTGAACTGCCTAAAA 59.122 45.455 5.20 0.00 46.51 1.52
3915 4004 2.494059 GTGCTGTCTGAACTGCCTAAA 58.506 47.619 5.20 0.00 46.51 1.85
3916 4005 1.270839 GGTGCTGTCTGAACTGCCTAA 60.271 52.381 5.20 0.00 46.51 2.69
3917 4006 0.321671 GGTGCTGTCTGAACTGCCTA 59.678 55.000 5.20 0.00 46.51 3.93
3918 4007 1.072159 GGTGCTGTCTGAACTGCCT 59.928 57.895 5.20 0.00 46.51 4.75
3919 4008 1.968540 GGGTGCTGTCTGAACTGCC 60.969 63.158 5.20 0.00 46.51 4.85
3921 4010 1.679139 TTTGGGTGCTGTCTGAACTG 58.321 50.000 0.00 0.00 0.00 3.16
3922 4011 2.435372 TTTTGGGTGCTGTCTGAACT 57.565 45.000 0.00 0.00 0.00 3.01
3923 4012 3.821033 ACTATTTTGGGTGCTGTCTGAAC 59.179 43.478 0.00 0.00 0.00 3.18
3924 4013 4.098914 ACTATTTTGGGTGCTGTCTGAA 57.901 40.909 0.00 0.00 0.00 3.02
3925 4014 3.788227 ACTATTTTGGGTGCTGTCTGA 57.212 42.857 0.00 0.00 0.00 3.27
3926 4015 3.820467 TGAACTATTTTGGGTGCTGTCTG 59.180 43.478 0.00 0.00 0.00 3.51
3927 4016 4.098914 TGAACTATTTTGGGTGCTGTCT 57.901 40.909 0.00 0.00 0.00 3.41
3928 4017 4.037446 TGTTGAACTATTTTGGGTGCTGTC 59.963 41.667 0.00 0.00 0.00 3.51
3929 4018 3.957497 TGTTGAACTATTTTGGGTGCTGT 59.043 39.130 0.00 0.00 0.00 4.40
3930 4019 4.582701 TGTTGAACTATTTTGGGTGCTG 57.417 40.909 0.00 0.00 0.00 4.41
3931 4020 4.832266 TGATGTTGAACTATTTTGGGTGCT 59.168 37.500 0.00 0.00 0.00 4.40
3932 4021 5.132897 TGATGTTGAACTATTTTGGGTGC 57.867 39.130 0.00 0.00 0.00 5.01
3933 4022 5.047802 AGCTGATGTTGAACTATTTTGGGTG 60.048 40.000 0.00 0.00 0.00 4.61
3934 4023 5.047802 CAGCTGATGTTGAACTATTTTGGGT 60.048 40.000 8.42 0.00 0.00 4.51
3935 4024 5.047802 ACAGCTGATGTTGAACTATTTTGGG 60.048 40.000 23.35 0.00 39.96 4.12
3936 4025 6.017400 ACAGCTGATGTTGAACTATTTTGG 57.983 37.500 23.35 0.00 39.96 3.28
3937 4026 6.906659 AGACAGCTGATGTTGAACTATTTTG 58.093 36.000 23.35 0.00 44.17 2.44
3938 4027 8.621532 TTAGACAGCTGATGTTGAACTATTTT 57.378 30.769 23.35 0.00 44.17 1.82
3939 4028 8.621532 TTTAGACAGCTGATGTTGAACTATTT 57.378 30.769 23.35 0.00 44.17 1.40
3940 4029 8.507249 GTTTTAGACAGCTGATGTTGAACTATT 58.493 33.333 23.35 0.00 44.17 1.73
3941 4030 7.148573 CGTTTTAGACAGCTGATGTTGAACTAT 60.149 37.037 23.35 0.00 44.17 2.12
3942 4031 6.145534 CGTTTTAGACAGCTGATGTTGAACTA 59.854 38.462 23.35 7.47 44.17 2.24
3943 4032 5.050091 CGTTTTAGACAGCTGATGTTGAACT 60.050 40.000 23.35 8.36 44.17 3.01
3944 4033 5.140177 CGTTTTAGACAGCTGATGTTGAAC 58.860 41.667 23.35 15.30 44.17 3.18
3945 4034 4.814234 ACGTTTTAGACAGCTGATGTTGAA 59.186 37.500 23.35 4.96 44.17 2.69
3946 4035 4.377021 ACGTTTTAGACAGCTGATGTTGA 58.623 39.130 23.35 0.00 44.17 3.18
3947 4036 4.377431 GGACGTTTTAGACAGCTGATGTTG 60.377 45.833 23.35 4.64 44.17 3.33
3948 4037 3.746492 GGACGTTTTAGACAGCTGATGTT 59.254 43.478 23.35 0.00 44.17 2.71
3950 4039 3.589988 AGGACGTTTTAGACAGCTGATG 58.410 45.455 23.35 4.47 0.00 3.07
3951 4040 3.963428 AGGACGTTTTAGACAGCTGAT 57.037 42.857 23.35 11.17 0.00 2.90
3952 4041 3.570975 TGTAGGACGTTTTAGACAGCTGA 59.429 43.478 23.35 0.00 0.00 4.26
3953 4042 3.909430 TGTAGGACGTTTTAGACAGCTG 58.091 45.455 13.48 13.48 0.00 4.24
3954 4043 4.595762 TTGTAGGACGTTTTAGACAGCT 57.404 40.909 0.00 0.00 0.00 4.24
3955 4044 5.662211 TTTTGTAGGACGTTTTAGACAGC 57.338 39.130 0.00 0.00 0.00 4.40
3975 4064 7.763071 GTGGATATACACTACTCCGTTCTTTTT 59.237 37.037 11.08 0.00 38.32 1.94
3976 4065 7.263496 GTGGATATACACTACTCCGTTCTTTT 58.737 38.462 11.08 0.00 38.32 2.27
3977 4066 6.803642 GTGGATATACACTACTCCGTTCTTT 58.196 40.000 11.08 0.00 38.32 2.52
3978 4067 6.388435 GTGGATATACACTACTCCGTTCTT 57.612 41.667 11.08 0.00 38.32 2.52
4008 4097 9.741647 GACAGTTTCTTTTGATTTTTCTCTGAT 57.258 29.630 0.00 0.00 0.00 2.90
4009 4098 8.960591 AGACAGTTTCTTTTGATTTTTCTCTGA 58.039 29.630 0.00 0.00 0.00 3.27
4010 4099 9.578439 AAGACAGTTTCTTTTGATTTTTCTCTG 57.422 29.630 0.00 0.00 42.37 3.35
4011 4100 9.794685 GAAGACAGTTTCTTTTGATTTTTCTCT 57.205 29.630 0.00 0.00 45.24 3.10
4012 4101 9.025020 GGAAGACAGTTTCTTTTGATTTTTCTC 57.975 33.333 0.00 0.00 45.24 2.87
4023 4113 9.639601 CTTTTTACTTTGGAAGACAGTTTCTTT 57.360 29.630 0.00 0.00 45.24 2.52
4044 4134 9.512435 CATCATTCAGCGAAAATCTATCTTTTT 57.488 29.630 0.00 0.00 0.00 1.94
4052 4142 5.469421 GGATCTCATCATTCAGCGAAAATCT 59.531 40.000 0.00 0.00 0.00 2.40
4060 4150 7.605309 TGTATGTAATGGATCTCATCATTCAGC 59.395 37.037 0.00 0.00 34.44 4.26
4106 4198 4.936891 AGTTTTGCTGATTCAGGTGAAAC 58.063 39.130 15.28 10.25 37.61 2.78
4138 4230 3.015327 CAAGCATTCTCTTCCCCTTCAG 58.985 50.000 0.00 0.00 0.00 3.02
4146 4238 5.010012 TGGAAGAAAACCAAGCATTCTCTTC 59.990 40.000 0.00 0.00 37.60 2.87
4231 4326 7.303634 ACATAAAATTCCTGTCGATACACAC 57.696 36.000 0.00 0.00 0.00 3.82
4243 4338 6.095021 GGTAAGAAAGGCGACATAAAATTCCT 59.905 38.462 0.00 0.00 0.00 3.36
4271 4366 4.161565 ACAGCCATCGGTTATTGTAGAAGA 59.838 41.667 0.00 0.00 0.00 2.87
4312 4410 4.261994 GCCCTGAAAGAAGTTTGTTGCATA 60.262 41.667 0.00 0.00 34.07 3.14
4317 4415 2.745968 TGGCCCTGAAAGAAGTTTGTT 58.254 42.857 0.00 0.00 34.07 2.83
4320 4418 1.620323 GCATGGCCCTGAAAGAAGTTT 59.380 47.619 12.80 0.00 34.07 2.66
4343 4441 0.677098 CAAGCAGCACAGCTCCTCAT 60.677 55.000 0.00 0.00 45.89 2.90
4381 4479 1.065854 GGTCTGCATACTGCTGTTCCT 60.066 52.381 0.09 0.00 45.31 3.36
4383 4481 2.099141 TGGTCTGCATACTGCTGTTC 57.901 50.000 0.09 0.00 45.31 3.18
4392 4490 1.825090 CAGGTGCTTTGGTCTGCATA 58.175 50.000 0.00 0.00 41.45 3.14
4400 4498 1.304713 ATCCAGGCAGGTGCTTTGG 60.305 57.895 15.61 15.61 42.70 3.28


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

AutoCloner maintained by Alex Coulton.