Multiple sequence alignment - TraesCS3A01G280300

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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 TraesCS3A01G280300 chr3A 100.000 2532 0 0 1 2532 509445603 509443072 0.000000e+00 4676.0
1 TraesCS3A01G280300 chr3A 100.000 29 0 0 1719 1747 509443856 509443828 1.000000e-03 54.7
2 TraesCS3A01G280300 chr3A 100.000 29 0 0 1748 1776 509443885 509443857 1.000000e-03 54.7
3 TraesCS3A01G280300 chr3B 91.364 1158 48 24 927 2064 505016765 505015640 0.000000e+00 1537.0
4 TraesCS3A01G280300 chr3B 89.858 424 22 9 410 833 505017293 505016891 2.230000e-145 525.0
5 TraesCS3A01G280300 chr3B 83.051 413 36 14 1 403 505017847 505017459 6.710000e-91 344.0
6 TraesCS3A01G280300 chr3B 86.538 260 23 6 2282 2532 505015508 505015252 2.480000e-70 276.0
7 TraesCS3A01G280300 chr3B 90.299 134 11 2 2102 2233 505015641 505015508 9.310000e-40 174.0
8 TraesCS3A01G280300 chr3B 91.509 106 6 3 834 938 812340444 812340341 2.630000e-30 143.0
9 TraesCS3A01G280300 chr3D 95.030 845 23 9 920 1746 388381230 388380387 0.000000e+00 1310.0
10 TraesCS3A01G280300 chr3D 96.306 785 22 4 1748 2532 388380414 388379637 0.000000e+00 1282.0
11 TraesCS3A01G280300 chr3D 83.373 415 37 14 1 406 388382247 388381856 3.100000e-94 355.0
12 TraesCS3A01G280300 chr3D 97.000 100 3 0 410 509 388381693 388381594 4.330000e-38 169.0
13 TraesCS3A01G280300 chr3D 90.566 106 7 3 834 938 604669496 604669393 1.220000e-28 137.0
14 TraesCS3A01G280300 chr3D 90.000 60 3 3 2034 2092 501065021 501064964 9.710000e-10 75.0
15 TraesCS3A01G280300 chr1B 83.663 202 30 3 992 1192 591359703 591359504 1.200000e-43 187.0
16 TraesCS3A01G280300 chr1B 86.842 114 12 2 837 947 151093158 151093045 9.510000e-25 124.0
17 TraesCS3A01G280300 chr2D 92.929 99 6 1 834 932 388818776 388818873 2.630000e-30 143.0
18 TraesCS3A01G280300 chr2D 94.545 55 1 2 2038 2091 529016392 529016339 1.610000e-12 84.2
19 TraesCS3A01G280300 chr7D 94.444 90 5 0 834 923 333690885 333690974 3.400000e-29 139.0
20 TraesCS3A01G280300 chr7A 94.444 90 5 0 834 923 371770035 371769946 3.400000e-29 139.0
21 TraesCS3A01G280300 chr1A 88.596 114 10 2 837 947 104946142 104946029 4.390000e-28 135.0
22 TraesCS3A01G280300 chrUn 90.099 101 10 0 834 934 250028632 250028732 5.680000e-27 132.0
23 TraesCS3A01G280300 chr1D 87.179 117 12 2 834 947 100459004 100459120 2.040000e-26 130.0
24 TraesCS3A01G280300 chr2B 92.727 55 2 2 2038 2091 628212068 628212015 7.510000e-11 78.7
25 TraesCS3A01G280300 chr6D 97.619 42 1 0 2093 2134 413987557 413987598 3.490000e-09 73.1
26 TraesCS3A01G280300 chr6D 92.857 42 2 1 2093 2134 422196677 422196717 2.720000e-05 60.2
27 TraesCS3A01G280300 chr6A 97.619 42 1 0 2093 2134 558973297 558973338 3.490000e-09 73.1
28 TraesCS3A01G280300 chr6A 95.122 41 1 1 2094 2134 564896980 564897019 2.100000e-06 63.9


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 TraesCS3A01G280300 chr3A 509443072 509445603 2531 True 1595.133333 4676 100.00000 1 2532 3 chr3A.!!$R1 2531
1 TraesCS3A01G280300 chr3B 505015252 505017847 2595 True 571.200000 1537 88.22200 1 2532 5 chr3B.!!$R2 2531
2 TraesCS3A01G280300 chr3D 388379637 388382247 2610 True 779.000000 1310 92.92725 1 2532 4 chr3D.!!$R3 2531

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
917 1092 0.042131 ACTAACATGGGACGGAGGGA 59.958 55.0 0.0 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1931 2159 0.532862 AGACGTGCAACACTCCCTTG 60.533 55.0 0.0 0.0 35.74 3.61 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
52 53 6.580476 CACAATTTTTCTTATTGCCAACGAC 58.420 36.000 0.00 0.00 36.65 4.34
69 70 2.420466 GACCCCTTTTCCCTCCGCAA 62.420 60.000 0.00 0.00 0.00 4.85
121 129 4.632538 CCTAAAGGGCTAAAATTGTCCG 57.367 45.455 0.00 0.00 0.00 4.79
138 146 1.065491 TCCGGCTGCAGTTGATGTTAT 60.065 47.619 16.64 0.00 0.00 1.89
142 150 2.223340 GGCTGCAGTTGATGTTATTCCG 60.223 50.000 16.64 0.00 0.00 4.30
156 164 2.898729 ATTCCGCATCTGACGAGATT 57.101 45.000 0.00 0.00 36.75 2.40
157 165 5.220381 GTTATTCCGCATCTGACGAGATTA 58.780 41.667 0.00 0.00 36.75 1.75
161 177 1.789464 CGCATCTGACGAGATTAAGGC 59.211 52.381 0.00 0.00 36.75 4.35
223 239 0.462789 ATCCCGTAACCGAGCGAAAT 59.537 50.000 0.00 0.00 35.63 2.17
224 240 0.179129 TCCCGTAACCGAGCGAAATC 60.179 55.000 0.00 0.00 35.63 2.17
233 249 0.177141 CGAGCGAAATCACCCCCTTA 59.823 55.000 0.00 0.00 0.00 2.69
234 250 1.806623 CGAGCGAAATCACCCCCTTAG 60.807 57.143 0.00 0.00 0.00 2.18
235 251 1.209747 GAGCGAAATCACCCCCTTAGT 59.790 52.381 0.00 0.00 0.00 2.24
236 252 1.209747 AGCGAAATCACCCCCTTAGTC 59.790 52.381 0.00 0.00 0.00 2.59
237 253 1.065709 GCGAAATCACCCCCTTAGTCA 60.066 52.381 0.00 0.00 0.00 3.41
238 254 2.421529 GCGAAATCACCCCCTTAGTCAT 60.422 50.000 0.00 0.00 0.00 3.06
239 255 3.467803 CGAAATCACCCCCTTAGTCATC 58.532 50.000 0.00 0.00 0.00 2.92
240 256 3.134804 CGAAATCACCCCCTTAGTCATCT 59.865 47.826 0.00 0.00 0.00 2.90
241 257 4.384208 CGAAATCACCCCCTTAGTCATCTT 60.384 45.833 0.00 0.00 0.00 2.40
242 258 4.510167 AATCACCCCCTTAGTCATCTTG 57.490 45.455 0.00 0.00 0.00 3.02
243 259 2.915869 TCACCCCCTTAGTCATCTTGT 58.084 47.619 0.00 0.00 0.00 3.16
244 260 2.571653 TCACCCCCTTAGTCATCTTGTG 59.428 50.000 0.00 0.00 0.00 3.33
245 261 1.282157 ACCCCCTTAGTCATCTTGTGC 59.718 52.381 0.00 0.00 0.00 4.57
246 262 1.408822 CCCCCTTAGTCATCTTGTGCC 60.409 57.143 0.00 0.00 0.00 5.01
247 263 1.561542 CCCCTTAGTCATCTTGTGCCT 59.438 52.381 0.00 0.00 0.00 4.75
248 264 2.636830 CCCTTAGTCATCTTGTGCCTG 58.363 52.381 0.00 0.00 0.00 4.85
249 265 2.012673 CCTTAGTCATCTTGTGCCTGC 58.987 52.381 0.00 0.00 0.00 4.85
250 266 2.355513 CCTTAGTCATCTTGTGCCTGCT 60.356 50.000 0.00 0.00 0.00 4.24
251 267 3.341823 CTTAGTCATCTTGTGCCTGCTT 58.658 45.455 0.00 0.00 0.00 3.91
255 271 2.042831 ATCTTGTGCCTGCTTCGCC 61.043 57.895 0.00 0.00 0.00 5.54
263 279 2.887568 CTGCTTCGCCTGTAGCCG 60.888 66.667 0.00 0.00 37.68 5.52
276 292 3.531538 CTGTAGCCGTCCATGTATGTTT 58.468 45.455 0.00 0.00 0.00 2.83
277 293 3.527533 TGTAGCCGTCCATGTATGTTTC 58.472 45.455 0.00 0.00 0.00 2.78
278 294 1.651987 AGCCGTCCATGTATGTTTCG 58.348 50.000 0.00 0.00 0.00 3.46
323 339 7.151999 AGCAATGGTTAACATACGATTTCAA 57.848 32.000 8.10 0.00 39.40 2.69
368 384 9.657419 GGAATTGTGTGAATTATTGAATTTCCT 57.343 29.630 0.00 0.00 35.33 3.36
373 389 9.474920 TGTGTGAATTATTGAATTTCCTGAAAC 57.525 29.630 0.00 0.00 35.33 2.78
374 390 9.474920 GTGTGAATTATTGAATTTCCTGAAACA 57.525 29.630 0.00 0.00 35.33 2.83
380 396 9.671279 ATTATTGAATTTCCTGAAACATTTCCC 57.329 29.630 2.00 0.00 36.36 3.97
397 413 0.961753 CCCCCAGTTTCTTGAGTTGC 59.038 55.000 0.00 0.00 0.00 4.17
403 419 5.464168 CCCAGTTTCTTGAGTTGCTTTATG 58.536 41.667 0.00 0.00 0.00 1.90
406 422 7.255451 CCCAGTTTCTTGAGTTGCTTTATGTTA 60.255 37.037 0.00 0.00 0.00 2.41
408 424 8.128582 CAGTTTCTTGAGTTGCTTTATGTTACA 58.871 33.333 0.00 0.00 0.00 2.41
548 723 2.741145 ACAACTAAACAAGCCCCAACA 58.259 42.857 0.00 0.00 0.00 3.33
564 739 0.704664 AACAGGTCCCCATTCCCTTC 59.295 55.000 0.00 0.00 0.00 3.46
566 741 0.929244 CAGGTCCCCATTCCCTTCAT 59.071 55.000 0.00 0.00 0.00 2.57
584 759 5.513788 CCTTCATAGTGGTGGATAATGGAGG 60.514 48.000 0.00 0.00 37.07 4.30
592 767 1.280457 GGATAATGGAGGAGGGCGAT 58.720 55.000 0.00 0.00 0.00 4.58
593 768 1.065854 GGATAATGGAGGAGGGCGATG 60.066 57.143 0.00 0.00 0.00 3.84
598 773 1.369321 GGAGGAGGGCGATGACATC 59.631 63.158 5.28 5.28 0.00 3.06
600 775 1.383109 AGGAGGGCGATGACATCCA 60.383 57.895 9.87 0.00 32.21 3.41
602 777 1.070445 GAGGGCGATGACATCCAGG 59.930 63.158 9.87 0.00 0.00 4.45
603 778 2.111878 GGGCGATGACATCCAGGG 59.888 66.667 9.87 0.00 0.00 4.45
604 779 2.592861 GGCGATGACATCCAGGGC 60.593 66.667 9.87 7.12 0.00 5.19
605 780 2.969238 GCGATGACATCCAGGGCG 60.969 66.667 9.87 0.00 0.00 6.13
606 781 2.280389 CGATGACATCCAGGGCGG 60.280 66.667 9.87 0.00 0.00 6.13
607 782 2.111878 GATGACATCCAGGGCGGG 59.888 66.667 3.89 0.00 34.36 6.13
608 783 3.482232 GATGACATCCAGGGCGGGG 62.482 68.421 3.89 0.00 34.36 5.73
609 784 4.731853 TGACATCCAGGGCGGGGA 62.732 66.667 0.00 0.00 39.14 4.81
610 785 3.171388 GACATCCAGGGCGGGGAT 61.171 66.667 2.98 2.98 45.98 3.85
613 788 2.696125 ATCCAGGGCGGGGATGTT 60.696 61.111 7.66 0.00 43.44 2.71
614 789 2.757124 ATCCAGGGCGGGGATGTTC 61.757 63.158 7.66 0.00 43.44 3.18
615 790 3.411517 CCAGGGCGGGGATGTTCT 61.412 66.667 0.00 0.00 0.00 3.01
616 791 2.677228 CAGGGCGGGGATGTTCTT 59.323 61.111 0.00 0.00 0.00 2.52
646 821 2.026356 TCACCGGGATGTTCATGTTGAT 60.026 45.455 6.32 0.00 0.00 2.57
672 847 7.582667 AAAAGTTCAGGGCCATATATTGTAC 57.417 36.000 6.18 0.00 0.00 2.90
683 858 6.106673 GCCATATATTGTACGAATAGCCTGT 58.893 40.000 0.00 0.00 0.00 4.00
742 917 6.838239 GCATATGCTACTATTTGCAGAGCAAG 60.838 42.308 20.64 0.00 45.58 4.01
750 925 3.711937 TGCAGAGCAAGCAAAGAGA 57.288 47.368 0.00 0.00 39.39 3.10
773 948 4.419522 AATGTTCTGAATTTTCGGTCGG 57.580 40.909 0.00 0.00 35.11 4.79
779 954 2.060284 TGAATTTTCGGTCGGTACACG 58.940 47.619 0.00 0.00 46.11 4.49
813 988 2.813754 GGAGCTAACAGTGCACATGAAA 59.186 45.455 21.04 7.24 0.00 2.69
816 991 5.458041 AGCTAACAGTGCACATGAAATTT 57.542 34.783 21.04 7.23 0.00 1.82
818 993 5.009911 AGCTAACAGTGCACATGAAATTTCA 59.990 36.000 22.52 22.52 42.14 2.69
842 1017 7.648112 TCACTATCATATGTTTCTAGTTGTCGC 59.352 37.037 1.90 0.00 0.00 5.19
844 1019 7.863375 ACTATCATATGTTTCTAGTTGTCGCTC 59.137 37.037 1.90 0.00 0.00 5.03
845 1020 5.961272 TCATATGTTTCTAGTTGTCGCTCA 58.039 37.500 1.90 0.00 0.00 4.26
846 1021 6.394809 TCATATGTTTCTAGTTGTCGCTCAA 58.605 36.000 1.90 0.00 0.00 3.02
848 1023 4.789095 TGTTTCTAGTTGTCGCTCAAAC 57.211 40.909 0.00 0.00 37.81 2.93
849 1024 3.244345 TGTTTCTAGTTGTCGCTCAAACG 59.756 43.478 0.00 0.00 37.81 3.60
851 1026 1.610038 TCTAGTTGTCGCTCAAACGGA 59.390 47.619 0.00 0.00 37.81 4.69
852 1027 2.230508 TCTAGTTGTCGCTCAAACGGAT 59.769 45.455 0.00 0.00 37.81 4.18
855 1030 2.063266 GTTGTCGCTCAAACGGATGTA 58.937 47.619 0.00 0.00 37.81 2.29
856 1031 2.665649 TGTCGCTCAAACGGATGTAT 57.334 45.000 0.00 0.00 0.00 2.29
857 1032 2.536365 TGTCGCTCAAACGGATGTATC 58.464 47.619 0.00 0.00 0.00 2.24
858 1033 2.165641 TGTCGCTCAAACGGATGTATCT 59.834 45.455 0.00 0.00 0.00 1.98
859 1034 3.379057 TGTCGCTCAAACGGATGTATCTA 59.621 43.478 0.00 0.00 0.00 1.98
861 1036 2.726760 CGCTCAAACGGATGTATCTAGC 59.273 50.000 0.00 0.00 0.00 3.42
862 1037 3.717707 GCTCAAACGGATGTATCTAGCA 58.282 45.455 0.00 0.00 0.00 3.49
865 1040 4.682787 TCAAACGGATGTATCTAGCACTG 58.317 43.478 0.00 0.00 0.00 3.66
868 1043 5.339008 AACGGATGTATCTAGCACTGAAA 57.661 39.130 0.00 0.00 0.00 2.69
869 1044 5.537300 ACGGATGTATCTAGCACTGAAAT 57.463 39.130 0.00 0.00 0.00 2.17
870 1045 6.650427 ACGGATGTATCTAGCACTGAAATA 57.350 37.500 0.00 0.00 0.00 1.40
871 1046 7.233389 ACGGATGTATCTAGCACTGAAATAT 57.767 36.000 0.00 0.00 0.00 1.28
872 1047 7.093354 ACGGATGTATCTAGCACTGAAATATG 58.907 38.462 0.00 0.00 0.00 1.78
874 1049 7.274468 CGGATGTATCTAGCACTGAAATATGTC 59.726 40.741 0.00 0.00 0.00 3.06
875 1050 8.310382 GGATGTATCTAGCACTGAAATATGTCT 58.690 37.037 0.00 0.00 0.00 3.41
878 1053 9.574516 TGTATCTAGCACTGAAATATGTCTAGA 57.425 33.333 0.00 0.00 36.70 2.43
881 1056 7.374272 TCTAGCACTGAAATATGTCTAGATGC 58.626 38.462 0.00 0.00 32.01 3.91
882 1057 5.922053 AGCACTGAAATATGTCTAGATGCA 58.078 37.500 9.55 0.00 0.00 3.96
883 1058 6.531923 AGCACTGAAATATGTCTAGATGCAT 58.468 36.000 0.00 0.00 0.00 3.96
884 1059 6.649973 AGCACTGAAATATGTCTAGATGCATC 59.350 38.462 19.37 19.37 0.00 3.91
885 1060 6.128336 GCACTGAAATATGTCTAGATGCATCC 60.128 42.308 23.06 8.35 0.00 3.51
886 1061 6.932960 CACTGAAATATGTCTAGATGCATCCA 59.067 38.462 23.06 13.90 0.00 3.41
887 1062 7.606839 CACTGAAATATGTCTAGATGCATCCAT 59.393 37.037 23.06 19.44 0.00 3.41
890 1065 9.006839 TGAAATATGTCTAGATGCATCCATTTC 57.993 33.333 23.06 21.05 34.22 2.17
891 1066 8.929260 AAATATGTCTAGATGCATCCATTTCA 57.071 30.769 23.06 15.43 0.00 2.69
892 1067 8.563123 AATATGTCTAGATGCATCCATTTCAG 57.437 34.615 23.06 10.58 0.00 3.02
893 1068 4.132336 TGTCTAGATGCATCCATTTCAGC 58.868 43.478 23.06 6.44 0.00 4.26
894 1069 3.186001 GTCTAGATGCATCCATTTCAGCG 59.814 47.826 23.06 0.00 0.00 5.18
896 1071 1.945394 AGATGCATCCATTTCAGCGAC 59.055 47.619 23.06 0.00 0.00 5.19
897 1072 1.672363 GATGCATCCATTTCAGCGACA 59.328 47.619 16.23 0.00 0.00 4.35
898 1073 1.532523 TGCATCCATTTCAGCGACAA 58.467 45.000 0.00 0.00 0.00 3.18
899 1074 1.199789 TGCATCCATTTCAGCGACAAC 59.800 47.619 0.00 0.00 0.00 3.32
900 1075 1.470098 GCATCCATTTCAGCGACAACT 59.530 47.619 0.00 0.00 0.00 3.16
903 1078 4.651994 CATCCATTTCAGCGACAACTAAC 58.348 43.478 0.00 0.00 0.00 2.34
904 1079 3.734463 TCCATTTCAGCGACAACTAACA 58.266 40.909 0.00 0.00 0.00 2.41
905 1080 4.323417 TCCATTTCAGCGACAACTAACAT 58.677 39.130 0.00 0.00 0.00 2.71
906 1081 4.154015 TCCATTTCAGCGACAACTAACATG 59.846 41.667 0.00 0.00 0.00 3.21
907 1082 4.406069 CATTTCAGCGACAACTAACATGG 58.594 43.478 0.00 0.00 0.00 3.66
908 1083 2.093306 TCAGCGACAACTAACATGGG 57.907 50.000 0.00 0.00 0.00 4.00
909 1084 1.621317 TCAGCGACAACTAACATGGGA 59.379 47.619 0.00 0.00 0.00 4.37
910 1085 1.732259 CAGCGACAACTAACATGGGAC 59.268 52.381 0.00 0.00 0.00 4.46
912 1087 1.355971 CGACAACTAACATGGGACGG 58.644 55.000 0.00 0.00 0.00 4.79
914 1089 2.618053 GACAACTAACATGGGACGGAG 58.382 52.381 0.00 0.00 0.00 4.63
915 1090 1.278127 ACAACTAACATGGGACGGAGG 59.722 52.381 0.00 0.00 0.00 4.30
916 1091 0.909623 AACTAACATGGGACGGAGGG 59.090 55.000 0.00 0.00 0.00 4.30
917 1092 0.042131 ACTAACATGGGACGGAGGGA 59.958 55.000 0.00 0.00 0.00 4.20
918 1093 0.753262 CTAACATGGGACGGAGGGAG 59.247 60.000 0.00 0.00 0.00 4.30
929 1136 3.255395 GGACGGAGGGAGTATTAGCTAAC 59.745 52.174 8.70 0.00 0.00 2.34
931 1138 4.284178 ACGGAGGGAGTATTAGCTAACAA 58.716 43.478 8.70 0.00 0.00 2.83
932 1139 4.341520 ACGGAGGGAGTATTAGCTAACAAG 59.658 45.833 8.70 0.00 0.00 3.16
937 1144 8.262933 GGAGGGAGTATTAGCTAACAAGTTTTA 58.737 37.037 8.70 0.00 0.00 1.52
971 1179 3.199442 TCAGATTGTAGGAAGGGGTCA 57.801 47.619 0.00 0.00 0.00 4.02
982 1190 2.422093 GGAAGGGGTCAAAGCATCTAGG 60.422 54.545 0.00 0.00 0.00 3.02
986 1194 1.475930 GGGTCAAAGCATCTAGGAGCC 60.476 57.143 4.07 0.00 38.74 4.70
1113 1321 4.751028 GCCTTGCAATATTCCTACAGGGAT 60.751 45.833 0.00 0.00 44.66 3.85
1192 1400 1.138069 CACGACTGCATGGGGTATGTA 59.862 52.381 0.00 0.00 39.08 2.29
1197 1405 2.906389 ACTGCATGGGGTATGTATCGAT 59.094 45.455 2.16 2.16 39.08 3.59
1228 1436 7.386851 TGCTAGGAATGTCTAATAACCATAGC 58.613 38.462 0.00 0.00 0.00 2.97
1287 1502 9.948964 TCTTTTGAATGATTATCTCAAGACAGA 57.051 29.630 0.00 0.00 37.44 3.41
1345 1570 4.070716 ACTCTTTTCTTGCATCTGACTGG 58.929 43.478 0.00 0.00 0.00 4.00
1492 1717 0.322456 CTGCATTTCCGGGGAACAGA 60.322 55.000 0.00 0.00 31.51 3.41
1499 1724 1.611261 CCGGGGAACAGACCACCTA 60.611 63.158 0.00 0.00 0.00 3.08
1551 1776 6.047870 TGTGAAACAGCTTGTGCAATAAATT 58.952 32.000 0.00 0.00 45.67 1.82
1629 1856 5.072329 CCAGTCCACCAATATCTTGTATCCT 59.928 44.000 0.00 0.00 0.00 3.24
1747 1974 7.633193 TTCTGTTGGTCTTATAGAGAGAGTC 57.367 40.000 0.00 0.00 34.31 3.36
1749 1976 5.202004 TGTTGGTCTTATAGAGAGAGTCCC 58.798 45.833 0.00 0.00 34.31 4.46
1750 1977 4.456662 TGGTCTTATAGAGAGAGTCCCC 57.543 50.000 0.00 0.00 34.31 4.81
1751 1978 4.055820 TGGTCTTATAGAGAGAGTCCCCT 58.944 47.826 0.00 0.00 34.31 4.79
1752 1979 4.482772 TGGTCTTATAGAGAGAGTCCCCTT 59.517 45.833 0.00 0.00 34.31 3.95
1753 1980 5.043281 TGGTCTTATAGAGAGAGTCCCCTTT 60.043 44.000 0.00 0.00 34.31 3.11
1754 1981 5.537295 GGTCTTATAGAGAGAGTCCCCTTTC 59.463 48.000 0.00 0.00 34.31 2.62
1755 1982 6.370453 GTCTTATAGAGAGAGTCCCCTTTCT 58.630 44.000 0.00 0.00 34.99 2.52
1756 1983 6.264518 GTCTTATAGAGAGAGTCCCCTTTCTG 59.735 46.154 0.00 0.00 32.58 3.02
1757 1984 4.618378 ATAGAGAGAGTCCCCTTTCTGT 57.382 45.455 0.00 0.00 32.58 3.41
1758 1985 3.268034 AGAGAGAGTCCCCTTTCTGTT 57.732 47.619 0.00 0.00 32.58 3.16
1759 1986 2.903135 AGAGAGAGTCCCCTTTCTGTTG 59.097 50.000 0.00 0.00 32.58 3.33
1760 1987 1.981495 AGAGAGTCCCCTTTCTGTTGG 59.019 52.381 0.00 0.00 31.30 3.77
1761 1988 1.700186 GAGAGTCCCCTTTCTGTTGGT 59.300 52.381 0.00 0.00 0.00 3.67
1762 1989 1.700186 AGAGTCCCCTTTCTGTTGGTC 59.300 52.381 0.00 0.00 0.00 4.02
1763 1990 1.700186 GAGTCCCCTTTCTGTTGGTCT 59.300 52.381 0.00 0.00 0.00 3.85
1764 1991 2.106684 GAGTCCCCTTTCTGTTGGTCTT 59.893 50.000 0.00 0.00 0.00 3.01
1765 1992 3.323775 AGTCCCCTTTCTGTTGGTCTTA 58.676 45.455 0.00 0.00 0.00 2.10
1766 1993 3.916989 AGTCCCCTTTCTGTTGGTCTTAT 59.083 43.478 0.00 0.00 0.00 1.73
1767 1994 5.098663 AGTCCCCTTTCTGTTGGTCTTATA 58.901 41.667 0.00 0.00 0.00 0.98
1768 1995 5.189934 AGTCCCCTTTCTGTTGGTCTTATAG 59.810 44.000 0.00 0.00 0.00 1.31
1769 1996 5.189145 GTCCCCTTTCTGTTGGTCTTATAGA 59.811 44.000 0.00 0.00 0.00 1.98
1770 1997 5.425539 TCCCCTTTCTGTTGGTCTTATAGAG 59.574 44.000 0.00 0.00 0.00 2.43
1771 1998 5.425539 CCCCTTTCTGTTGGTCTTATAGAGA 59.574 44.000 0.00 0.00 0.00 3.10
1772 1999 6.407525 CCCCTTTCTGTTGGTCTTATAGAGAG 60.408 46.154 0.00 0.00 34.31 3.20
1773 2000 6.381420 CCCTTTCTGTTGGTCTTATAGAGAGA 59.619 42.308 0.00 0.00 34.31 3.10
1774 2001 7.417342 CCCTTTCTGTTGGTCTTATAGAGAGAG 60.417 44.444 0.00 0.00 34.31 3.20
1775 2002 7.123547 CCTTTCTGTTGGTCTTATAGAGAGAGT 59.876 40.741 0.00 0.00 34.31 3.24
1801 2028 8.534333 TCTCTGTGTTACAAGTTATCAATGTC 57.466 34.615 0.00 0.00 0.00 3.06
1896 2124 6.202954 CAGTAAATACCCCTCTTCTAAATGCG 59.797 42.308 0.00 0.00 0.00 4.73
1900 2128 2.169978 ACCCCTCTTCTAAATGCGTACC 59.830 50.000 0.00 0.00 0.00 3.34
1910 2138 3.824414 AAATGCGTACCTGTAAAGTGC 57.176 42.857 0.00 0.00 0.00 4.40
1926 2154 2.242926 AGTGCTTGTGTCTAGAGAGCA 58.757 47.619 13.16 13.16 40.70 4.26
1931 2159 3.187432 GCTTGTGTCTAGAGAGCAAAACC 59.813 47.826 10.72 0.00 33.68 3.27
1956 2184 2.408050 GAGTGTTGCACGTCTCTTCAT 58.592 47.619 0.00 0.00 39.64 2.57
2016 2244 9.282247 CAGAATTCTTTTGAAGTTATGGAATCG 57.718 33.333 4.86 0.00 42.30 3.34
2188 2418 3.678529 GCCCTGAAGCTGAAACAAACAAA 60.679 43.478 0.00 0.00 0.00 2.83
2351 2587 0.615331 TCAGATGGGGTGCTCAGAAC 59.385 55.000 0.00 0.00 0.00 3.01
2357 2593 1.484444 GGGGTGCTCAGAACCTCAGT 61.484 60.000 0.30 0.00 38.16 3.41
2367 2603 3.006672 AACCTCAGTTCACTTGGCG 57.993 52.632 0.00 0.00 0.00 5.69
2394 2630 6.538742 GGAGTAGTGCATATGCTAAAACAGAA 59.461 38.462 27.13 1.78 42.66 3.02
2471 2707 5.975693 TTACTTTGCTAATGTTCCCAAGG 57.024 39.130 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 6.099341 AGAAAAATTGTGCGAAATCATACCC 58.901 36.000 0.00 0.00 0.00 3.69
52 53 1.000359 ATTGCGGAGGGAAAAGGGG 60.000 57.895 0.00 0.00 0.00 4.79
69 70 8.561738 AACAGGAATTTATTACACTTCGTGAT 57.438 30.769 9.88 0.00 37.11 3.06
100 108 3.380320 CCGGACAATTTTAGCCCTTTAGG 59.620 47.826 0.00 0.00 39.47 2.69
101 109 3.181490 GCCGGACAATTTTAGCCCTTTAG 60.181 47.826 5.05 0.00 0.00 1.85
102 110 2.756207 GCCGGACAATTTTAGCCCTTTA 59.244 45.455 5.05 0.00 0.00 1.85
105 113 0.331616 AGCCGGACAATTTTAGCCCT 59.668 50.000 5.05 0.00 0.00 5.19
108 116 0.525761 TGCAGCCGGACAATTTTAGC 59.474 50.000 5.05 0.00 0.00 3.09
109 117 1.812571 ACTGCAGCCGGACAATTTTAG 59.187 47.619 15.27 0.00 0.00 1.85
110 118 1.904287 ACTGCAGCCGGACAATTTTA 58.096 45.000 15.27 0.00 0.00 1.52
121 129 2.223340 CGGAATAACATCAACTGCAGCC 60.223 50.000 15.27 0.72 0.00 4.85
138 146 3.490933 CCTTAATCTCGTCAGATGCGGAA 60.491 47.826 0.00 0.00 38.55 4.30
142 150 2.139118 GGCCTTAATCTCGTCAGATGC 58.861 52.381 0.00 0.00 38.55 3.91
187 203 1.972660 GATGGGTTCTACAGGCGGCT 61.973 60.000 5.25 5.25 0.00 5.52
193 209 2.159000 GGTTACGGGATGGGTTCTACAG 60.159 54.545 0.00 0.00 0.00 2.74
194 210 1.832998 GGTTACGGGATGGGTTCTACA 59.167 52.381 0.00 0.00 0.00 2.74
223 239 2.571653 CACAAGATGACTAAGGGGGTGA 59.428 50.000 0.00 0.00 0.00 4.02
224 240 2.941415 GCACAAGATGACTAAGGGGGTG 60.941 54.545 0.00 0.00 0.00 4.61
234 250 0.445436 CGAAGCAGGCACAAGATGAC 59.555 55.000 0.00 0.00 36.02 3.06
235 251 2.845019 CGAAGCAGGCACAAGATGA 58.155 52.632 0.00 0.00 0.00 2.92
255 271 2.890808 ACATACATGGACGGCTACAG 57.109 50.000 0.00 0.00 0.00 2.74
263 279 4.271049 CAGGACATCGAAACATACATGGAC 59.729 45.833 0.00 0.00 0.00 4.02
302 318 9.974980 AAAGTTTGAAATCGTATGTTAACCATT 57.025 25.926 2.48 0.00 34.86 3.16
368 384 3.922375 AGAAACTGGGGGAAATGTTTCA 58.078 40.909 16.29 0.00 46.03 2.69
369 385 4.343814 TCAAGAAACTGGGGGAAATGTTTC 59.656 41.667 8.76 8.76 44.80 2.78
370 386 4.294347 TCAAGAAACTGGGGGAAATGTTT 58.706 39.130 0.00 0.00 35.64 2.83
372 388 3.117131 ACTCAAGAAACTGGGGGAAATGT 60.117 43.478 0.00 0.00 0.00 2.71
373 389 3.500343 ACTCAAGAAACTGGGGGAAATG 58.500 45.455 0.00 0.00 0.00 2.32
374 390 3.897505 CAACTCAAGAAACTGGGGGAAAT 59.102 43.478 0.00 0.00 0.00 2.17
375 391 3.295973 CAACTCAAGAAACTGGGGGAAA 58.704 45.455 0.00 0.00 0.00 3.13
378 394 0.961753 GCAACTCAAGAAACTGGGGG 59.038 55.000 0.00 0.00 0.00 5.40
379 395 1.986882 AGCAACTCAAGAAACTGGGG 58.013 50.000 0.00 0.00 0.00 4.96
380 396 5.010012 ACATAAAGCAACTCAAGAAACTGGG 59.990 40.000 0.00 0.00 0.00 4.45
403 419 6.096846 ACTGGCAGGGATTTTCATATTGTAAC 59.903 38.462 20.34 0.00 0.00 2.50
406 422 4.613437 ACTGGCAGGGATTTTCATATTGT 58.387 39.130 20.34 0.00 0.00 2.71
408 424 4.218312 GGACTGGCAGGGATTTTCATATT 58.782 43.478 20.34 0.00 0.00 1.28
424 599 3.127548 CCATGAGAATTCGTTTGGACTGG 59.872 47.826 14.73 5.51 0.00 4.00
533 708 1.479757 GGACCTGTTGGGGCTTGTTTA 60.480 52.381 0.00 0.00 44.42 2.01
564 739 4.019860 CCTCCTCCATTATCCACCACTATG 60.020 50.000 0.00 0.00 0.00 2.23
566 741 3.587498 CCTCCTCCATTATCCACCACTA 58.413 50.000 0.00 0.00 0.00 2.74
584 759 1.070445 CCTGGATGTCATCGCCCTC 59.930 63.158 6.74 0.00 0.00 4.30
592 767 4.731853 TCCCCGCCCTGGATGTCA 62.732 66.667 0.00 0.00 42.00 3.58
593 768 3.171388 ATCCCCGCCCTGGATGTC 61.171 66.667 0.00 0.00 41.10 3.06
598 773 2.499303 AAAGAACATCCCCGCCCTGG 62.499 60.000 0.00 0.00 37.55 4.45
600 775 1.303282 GAAAGAACATCCCCGCCCT 59.697 57.895 0.00 0.00 0.00 5.19
602 777 0.526211 GTTGAAAGAACATCCCCGCC 59.474 55.000 0.00 0.00 0.00 6.13
603 778 1.468914 GAGTTGAAAGAACATCCCCGC 59.531 52.381 0.00 0.00 0.00 6.13
604 779 2.084546 GGAGTTGAAAGAACATCCCCG 58.915 52.381 0.00 0.00 0.00 5.73
605 780 3.244911 TGAGGAGTTGAAAGAACATCCCC 60.245 47.826 0.00 0.00 0.00 4.81
606 781 3.753797 GTGAGGAGTTGAAAGAACATCCC 59.246 47.826 0.00 0.00 0.00 3.85
607 782 3.753797 GGTGAGGAGTTGAAAGAACATCC 59.246 47.826 0.00 0.00 0.00 3.51
608 783 3.433615 CGGTGAGGAGTTGAAAGAACATC 59.566 47.826 0.00 0.00 0.00 3.06
609 784 3.403038 CGGTGAGGAGTTGAAAGAACAT 58.597 45.455 0.00 0.00 0.00 2.71
610 785 2.484770 CCGGTGAGGAGTTGAAAGAACA 60.485 50.000 0.00 0.00 45.00 3.18
611 786 2.143925 CCGGTGAGGAGTTGAAAGAAC 58.856 52.381 0.00 0.00 45.00 3.01
612 787 1.071699 CCCGGTGAGGAGTTGAAAGAA 59.928 52.381 0.00 0.00 45.00 2.52
613 788 0.685097 CCCGGTGAGGAGTTGAAAGA 59.315 55.000 0.00 0.00 45.00 2.52
614 789 0.685097 TCCCGGTGAGGAGTTGAAAG 59.315 55.000 0.00 0.00 45.00 2.62
615 790 1.003118 CATCCCGGTGAGGAGTTGAAA 59.997 52.381 0.00 0.00 45.00 2.69
616 791 0.613260 CATCCCGGTGAGGAGTTGAA 59.387 55.000 0.00 0.00 45.00 2.69
646 821 9.127277 GTACAATATATGGCCCTGAACTTTTAA 57.873 33.333 0.00 0.00 0.00 1.52
742 917 8.000435 CGAAAATTCAGAACATTTTCTCTTTGC 59.000 33.333 15.37 0.00 43.82 3.68
750 925 5.219633 CCGACCGAAAATTCAGAACATTTT 58.780 37.500 0.00 0.00 36.69 1.82
771 946 0.856641 CACAGAAACACCGTGTACCG 59.143 55.000 4.17 0.00 0.00 4.02
773 948 1.595794 CCACACAGAAACACCGTGTAC 59.404 52.381 4.17 2.79 41.79 2.90
779 954 2.543777 TAGCTCCACACAGAAACACC 57.456 50.000 0.00 0.00 0.00 4.16
816 991 7.648112 GCGACAACTAGAAACATATGATAGTGA 59.352 37.037 10.38 0.00 0.00 3.41
818 993 7.717568 AGCGACAACTAGAAACATATGATAGT 58.282 34.615 10.38 8.87 0.00 2.12
833 1008 2.288579 ACATCCGTTTGAGCGACAACTA 60.289 45.455 0.00 0.00 38.29 2.24
834 1009 1.148310 CATCCGTTTGAGCGACAACT 58.852 50.000 0.00 0.00 38.29 3.16
835 1010 0.865769 ACATCCGTTTGAGCGACAAC 59.134 50.000 0.00 0.00 38.29 3.32
837 1012 2.165641 AGATACATCCGTTTGAGCGACA 59.834 45.455 0.00 0.00 0.00 4.35
838 1013 2.810650 AGATACATCCGTTTGAGCGAC 58.189 47.619 0.00 0.00 0.00 5.19
839 1014 3.550233 GCTAGATACATCCGTTTGAGCGA 60.550 47.826 0.00 0.00 0.00 4.93
840 1015 2.726760 GCTAGATACATCCGTTTGAGCG 59.273 50.000 0.00 0.00 0.00 5.03
842 1017 4.742167 CAGTGCTAGATACATCCGTTTGAG 59.258 45.833 0.00 0.00 0.00 3.02
844 1019 4.682787 TCAGTGCTAGATACATCCGTTTG 58.317 43.478 0.00 0.00 0.00 2.93
845 1020 5.339008 TTCAGTGCTAGATACATCCGTTT 57.661 39.130 0.00 0.00 0.00 3.60
846 1021 5.339008 TTTCAGTGCTAGATACATCCGTT 57.661 39.130 0.00 0.00 0.00 4.44
848 1023 7.093354 ACATATTTCAGTGCTAGATACATCCG 58.907 38.462 0.00 0.00 0.00 4.18
849 1024 8.310382 AGACATATTTCAGTGCTAGATACATCC 58.690 37.037 0.00 0.00 0.00 3.51
852 1027 9.574516 TCTAGACATATTTCAGTGCTAGATACA 57.425 33.333 0.00 0.00 31.96 2.29
855 1030 8.034215 GCATCTAGACATATTTCAGTGCTAGAT 58.966 37.037 0.00 0.00 39.51 1.98
856 1031 7.014615 TGCATCTAGACATATTTCAGTGCTAGA 59.985 37.037 0.00 0.00 36.50 2.43
857 1032 7.150640 TGCATCTAGACATATTTCAGTGCTAG 58.849 38.462 0.00 0.00 0.00 3.42
858 1033 7.054491 TGCATCTAGACATATTTCAGTGCTA 57.946 36.000 0.00 0.00 0.00 3.49
859 1034 5.922053 TGCATCTAGACATATTTCAGTGCT 58.078 37.500 0.00 0.00 0.00 4.40
861 1036 6.932960 TGGATGCATCTAGACATATTTCAGTG 59.067 38.462 25.28 0.00 0.00 3.66
862 1037 7.071069 TGGATGCATCTAGACATATTTCAGT 57.929 36.000 25.28 0.00 0.00 3.41
865 1040 9.006839 TGAAATGGATGCATCTAGACATATTTC 57.993 33.333 25.28 21.83 34.63 2.17
868 1043 6.598457 GCTGAAATGGATGCATCTAGACATAT 59.402 38.462 25.28 1.05 0.00 1.78
869 1044 5.936372 GCTGAAATGGATGCATCTAGACATA 59.064 40.000 25.28 6.64 0.00 2.29
870 1045 4.760715 GCTGAAATGGATGCATCTAGACAT 59.239 41.667 25.28 16.78 0.00 3.06
871 1046 4.132336 GCTGAAATGGATGCATCTAGACA 58.868 43.478 25.28 17.98 0.00 3.41
872 1047 3.186001 CGCTGAAATGGATGCATCTAGAC 59.814 47.826 25.28 14.79 0.00 2.59
874 1049 3.186001 GTCGCTGAAATGGATGCATCTAG 59.814 47.826 25.28 14.42 0.00 2.43
875 1050 3.133691 GTCGCTGAAATGGATGCATCTA 58.866 45.455 25.28 20.79 0.00 1.98
877 1052 1.672363 TGTCGCTGAAATGGATGCATC 59.328 47.619 18.81 18.81 0.00 3.91
878 1053 1.753930 TGTCGCTGAAATGGATGCAT 58.246 45.000 0.00 0.00 0.00 3.96
881 1056 4.154015 TGTTAGTTGTCGCTGAAATGGATG 59.846 41.667 0.00 0.00 0.00 3.51
882 1057 4.323417 TGTTAGTTGTCGCTGAAATGGAT 58.677 39.130 0.00 0.00 0.00 3.41
883 1058 3.734463 TGTTAGTTGTCGCTGAAATGGA 58.266 40.909 0.00 0.00 0.00 3.41
884 1059 4.406069 CATGTTAGTTGTCGCTGAAATGG 58.594 43.478 0.00 0.00 0.00 3.16
885 1060 4.406069 CCATGTTAGTTGTCGCTGAAATG 58.594 43.478 0.00 0.00 0.00 2.32
886 1061 3.440173 CCCATGTTAGTTGTCGCTGAAAT 59.560 43.478 0.00 0.00 0.00 2.17
887 1062 2.811431 CCCATGTTAGTTGTCGCTGAAA 59.189 45.455 0.00 0.00 0.00 2.69
890 1065 1.732259 GTCCCATGTTAGTTGTCGCTG 59.268 52.381 0.00 0.00 0.00 5.18
891 1066 1.671850 CGTCCCATGTTAGTTGTCGCT 60.672 52.381 0.00 0.00 0.00 4.93
892 1067 0.719465 CGTCCCATGTTAGTTGTCGC 59.281 55.000 0.00 0.00 0.00 5.19
893 1068 1.067425 TCCGTCCCATGTTAGTTGTCG 60.067 52.381 0.00 0.00 0.00 4.35
894 1069 2.618053 CTCCGTCCCATGTTAGTTGTC 58.382 52.381 0.00 0.00 0.00 3.18
896 1071 1.406887 CCCTCCGTCCCATGTTAGTTG 60.407 57.143 0.00 0.00 0.00 3.16
897 1072 0.909623 CCCTCCGTCCCATGTTAGTT 59.090 55.000 0.00 0.00 0.00 2.24
898 1073 0.042131 TCCCTCCGTCCCATGTTAGT 59.958 55.000 0.00 0.00 0.00 2.24
899 1074 0.753262 CTCCCTCCGTCCCATGTTAG 59.247 60.000 0.00 0.00 0.00 2.34
900 1075 0.042131 ACTCCCTCCGTCCCATGTTA 59.958 55.000 0.00 0.00 0.00 2.41
903 1078 1.424638 AATACTCCCTCCGTCCCATG 58.575 55.000 0.00 0.00 0.00 3.66
904 1079 2.890814 CTAATACTCCCTCCGTCCCAT 58.109 52.381 0.00 0.00 0.00 4.00
905 1080 1.756690 GCTAATACTCCCTCCGTCCCA 60.757 57.143 0.00 0.00 0.00 4.37
906 1081 0.967662 GCTAATACTCCCTCCGTCCC 59.032 60.000 0.00 0.00 0.00 4.46
907 1082 1.998222 AGCTAATACTCCCTCCGTCC 58.002 55.000 0.00 0.00 0.00 4.79
908 1083 3.887716 TGTTAGCTAATACTCCCTCCGTC 59.112 47.826 9.88 0.00 0.00 4.79
909 1084 3.907221 TGTTAGCTAATACTCCCTCCGT 58.093 45.455 9.88 0.00 0.00 4.69
910 1085 4.341520 ACTTGTTAGCTAATACTCCCTCCG 59.658 45.833 9.88 0.00 0.00 4.63
912 1087 9.662947 TTAAAACTTGTTAGCTAATACTCCCTC 57.337 33.333 9.88 0.00 0.00 4.30
964 1171 2.122768 CTCCTAGATGCTTTGACCCCT 58.877 52.381 0.00 0.00 0.00 4.79
971 1179 3.432890 GCTAACAGGCTCCTAGATGCTTT 60.433 47.826 4.01 0.00 0.00 3.51
982 1190 5.181245 TGTTCATTTTGTAGCTAACAGGCTC 59.819 40.000 0.00 0.00 42.97 4.70
986 1194 6.381801 CCCTTGTTCATTTTGTAGCTAACAG 58.618 40.000 0.00 0.00 39.87 3.16
1113 1321 4.077108 TGTCTCTCTTCTTGTTACGCCTA 58.923 43.478 0.00 0.00 0.00 3.93
1192 1400 5.028549 ACATTCCTAGCAAACAGATCGAT 57.971 39.130 0.00 0.00 0.00 3.59
1197 1405 7.769044 GGTTATTAGACATTCCTAGCAAACAGA 59.231 37.037 0.00 0.00 0.00 3.41
1287 1502 6.565234 CAGAATGTAGTTTCTATCGACCTGT 58.435 40.000 0.00 0.00 34.21 4.00
1302 1517 9.490379 AAGAGTTAGTTAAACCACAGAATGTAG 57.510 33.333 0.00 0.00 43.70 2.74
1303 1518 9.841295 AAAGAGTTAGTTAAACCACAGAATGTA 57.159 29.630 0.00 0.00 43.70 2.29
1304 1519 8.747538 AAAGAGTTAGTTAAACCACAGAATGT 57.252 30.769 0.00 0.00 43.20 2.71
1320 1545 6.128336 CCAGTCAGATGCAAGAAAAGAGTTAG 60.128 42.308 0.00 0.00 0.00 2.34
1345 1570 3.193267 TGAAGTTGCCATAATTCACCTGC 59.807 43.478 0.00 0.00 0.00 4.85
1492 1717 1.427753 CCTTCCTTTTGGGTAGGTGGT 59.572 52.381 0.00 0.00 44.63 4.16
1499 1724 2.040412 CTGCTAGACCTTCCTTTTGGGT 59.960 50.000 0.00 0.00 40.87 4.51
1542 1767 5.678483 CGTCATGACAGCAGTAATTTATTGC 59.322 40.000 24.93 14.17 41.17 3.56
1551 1776 1.545841 AGACCGTCATGACAGCAGTA 58.454 50.000 24.93 0.00 0.00 2.74
1629 1856 3.706594 GGAGATTACATGAGTCACCTCCA 59.293 47.826 0.00 0.00 36.90 3.86
1651 1878 1.341080 ACCACAGGGAATGGCAAAAG 58.659 50.000 0.00 0.00 41.31 2.27
1747 1974 5.425539 TCTCTATAAGACCAACAGAAAGGGG 59.574 44.000 0.00 0.00 0.00 4.79
1749 1976 7.123547 ACTCTCTCTATAAGACCAACAGAAAGG 59.876 40.741 0.00 0.00 0.00 3.11
1750 1977 8.062065 ACTCTCTCTATAAGACCAACAGAAAG 57.938 38.462 0.00 0.00 0.00 2.62
1751 1978 8.423906 AACTCTCTCTATAAGACCAACAGAAA 57.576 34.615 0.00 0.00 0.00 2.52
1752 1979 7.891183 AGAACTCTCTCTATAAGACCAACAGAA 59.109 37.037 0.00 0.00 0.00 3.02
1753 1980 7.406916 AGAACTCTCTCTATAAGACCAACAGA 58.593 38.462 0.00 0.00 0.00 3.41
1754 1981 7.639113 AGAACTCTCTCTATAAGACCAACAG 57.361 40.000 0.00 0.00 0.00 3.16
1755 1982 7.633193 GAGAACTCTCTCTATAAGACCAACA 57.367 40.000 0.00 0.00 44.22 3.33
1770 1997 8.082852 TGATAACTTGTAACACAGAGAACTCTC 58.917 37.037 0.99 0.00 43.17 3.20
1771 1998 7.952671 TGATAACTTGTAACACAGAGAACTCT 58.047 34.615 0.00 0.00 41.37 3.24
1772 1999 8.589335 TTGATAACTTGTAACACAGAGAACTC 57.411 34.615 0.00 0.00 0.00 3.01
1773 2000 8.993121 CATTGATAACTTGTAACACAGAGAACT 58.007 33.333 0.00 0.00 0.00 3.01
1774 2001 8.774586 ACATTGATAACTTGTAACACAGAGAAC 58.225 33.333 0.00 0.00 0.00 3.01
1775 2002 8.902540 ACATTGATAACTTGTAACACAGAGAA 57.097 30.769 0.00 0.00 0.00 2.87
1794 2021 6.310467 GCTACAGAAGTAACAATCGACATTGA 59.690 38.462 5.78 0.00 41.97 2.57
1801 2028 8.352752 TCATATTGCTACAGAAGTAACAATCG 57.647 34.615 7.34 2.79 40.98 3.34
1810 2037 7.914871 CCGATCTCTATCATATTGCTACAGAAG 59.085 40.741 0.00 0.00 31.93 2.85
1896 2124 4.377897 AGACACAAGCACTTTACAGGTAC 58.622 43.478 0.00 0.00 0.00 3.34
1900 2128 5.773575 TCTCTAGACACAAGCACTTTACAG 58.226 41.667 0.00 0.00 0.00 2.74
1910 2138 4.380531 TGGTTTTGCTCTCTAGACACAAG 58.619 43.478 0.00 0.00 0.00 3.16
1926 2154 1.480545 GTGCAACACTCCCTTGGTTTT 59.519 47.619 0.00 0.00 36.32 2.43
1931 2159 0.532862 AGACGTGCAACACTCCCTTG 60.533 55.000 0.00 0.00 35.74 3.61
1956 2184 6.658831 CACTCTTAACTCTTGCGATGAAAAA 58.341 36.000 0.00 0.00 0.00 1.94
2016 2244 1.067821 CTTACTGGGATCGAGCCAGAC 59.932 57.143 23.22 4.61 35.74 3.51
2188 2418 2.644798 ACAAGGACATTGGACTTAGGCT 59.355 45.455 4.68 0.00 43.68 4.58
2351 2587 4.779475 ACGCCAAGTGAACTGAGG 57.221 55.556 0.00 0.00 0.00 3.86
2367 2603 5.584649 TGTTTTAGCATATGCACTACTCCAC 59.415 40.000 28.62 13.77 45.16 4.02
2394 2630 7.506938 TGTTCCTTCATTTTCAGGAGAAGAATT 59.493 33.333 0.00 0.00 40.43 2.17


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

AutoCloner maintained by Alex Coulton.