Multiple sequence alignment - TraesCS5D01G445200

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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 TraesCS5D01G445200 chr5D 100.000 2875 0 0 1 2875 495631890 495629016 0.000000e+00 5310.0
1 TraesCS5D01G445200 chr5D 89.021 337 34 3 997 1332 495785117 495784783 5.730000e-112 414.0
2 TraesCS5D01G445200 chr5D 86.580 231 24 3 1665 1891 495783244 495783017 6.150000e-62 248.0
3 TraesCS5D01G445200 chr5D 91.525 177 15 0 1 177 374305909 374306085 7.960000e-61 244.0
4 TraesCS5D01G445200 chr5D 97.436 117 3 0 692 808 444768422 444768538 1.750000e-47 200.0
5 TraesCS5D01G445200 chr5D 94.355 124 6 1 685 808 30459066 30459188 3.780000e-44 189.0
6 TraesCS5D01G445200 chr5B 93.846 1105 39 14 800 1899 612685097 612684017 0.000000e+00 1637.0
7 TraesCS5D01G445200 chr5B 89.356 357 37 1 1001 1356 613110766 613110410 5.650000e-122 448.0
8 TraesCS5D01G445200 chr5B 93.103 58 4 0 621 678 612685144 612685087 5.100000e-13 86.1
9 TraesCS5D01G445200 chr5A 89.469 1244 67 27 1653 2875 619693973 619692773 0.000000e+00 1513.0
10 TraesCS5D01G445200 chr5A 91.259 675 48 7 1 669 619696699 619696030 0.000000e+00 909.0
11 TraesCS5D01G445200 chr5A 90.555 667 46 10 824 1487 619694803 619694151 0.000000e+00 867.0
12 TraesCS5D01G445200 chr5A 87.339 387 44 5 997 1381 619754641 619754258 3.400000e-119 438.0
13 TraesCS5D01G445200 chr5A 87.560 209 26 0 1686 1894 619754021 619753813 2.860000e-60 243.0
14 TraesCS5D01G445200 chr5A 84.259 216 26 4 1665 1876 619720137 619719926 1.350000e-48 204.0
15 TraesCS5D01G445200 chr7A 93.182 176 12 0 2 177 207760149 207760324 2.840000e-65 259.0
16 TraesCS5D01G445200 chr6D 91.477 176 15 0 2 177 27074088 27074263 2.860000e-60 243.0
17 TraesCS5D01G445200 chr6D 91.477 176 15 0 2 177 351151723 351151548 2.860000e-60 243.0
18 TraesCS5D01G445200 chr6D 97.436 117 3 0 692 808 336183812 336183928 1.750000e-47 200.0
19 TraesCS5D01G445200 chr6D 96.610 118 4 0 691 808 471326717 471326600 2.260000e-46 196.0
20 TraesCS5D01G445200 chr6D 95.082 122 5 1 687 808 430998584 430998464 1.050000e-44 191.0
21 TraesCS5D01G445200 chr4D 91.477 176 15 0 2 177 9276963 9277138 2.860000e-60 243.0
22 TraesCS5D01G445200 chr4D 91.477 176 15 0 2 177 84945294 84945119 2.860000e-60 243.0
23 TraesCS5D01G445200 chr4D 91.477 176 15 0 2 177 296456939 296456764 2.860000e-60 243.0
24 TraesCS5D01G445200 chr2B 91.111 180 15 1 2 180 338779432 338779611 2.860000e-60 243.0
25 TraesCS5D01G445200 chr7D 96.639 119 4 0 691 809 380627582 380627700 6.280000e-47 198.0
26 TraesCS5D01G445200 chr7B 94.444 126 6 1 684 809 109935614 109935738 2.920000e-45 193.0
27 TraesCS5D01G445200 chr1A 96.552 116 4 0 692 807 28628445 28628560 2.920000e-45 193.0
28 TraesCS5D01G445200 chr2D 91.241 137 7 5 688 824 460869448 460869579 6.330000e-42 182.0


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 TraesCS5D01G445200 chr5D 495629016 495631890 2874 True 5310.000000 5310 100.000000 1 2875 1 chr5D.!!$R1 2874
1 TraesCS5D01G445200 chr5D 495783017 495785117 2100 True 331.000000 414 87.800500 997 1891 2 chr5D.!!$R2 894
2 TraesCS5D01G445200 chr5B 612684017 612685144 1127 True 861.550000 1637 93.474500 621 1899 2 chr5B.!!$R2 1278
3 TraesCS5D01G445200 chr5A 619692773 619696699 3926 True 1096.333333 1513 90.427667 1 2875 3 chr5A.!!$R2 2874
4 TraesCS5D01G445200 chr5A 619753813 619754641 828 True 340.500000 438 87.449500 997 1894 2 chr5A.!!$R3 897

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
795 1028 0.030369 CCTCCGACGAGTATTTCCGG 59.97 60.0 0.0 0.0 41.36 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2758 5213 0.1792 GTGGGTTGCTTGCGATTACG 60.179 55.0 0.0 0.0 42.93 3.18 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
40 41 2.887783 TGCCGGAAAGCTACATGAAAAA 59.112 40.909 5.05 0.00 0.00 1.94
75 76 5.298527 TGAAGACTATCATTACCACGACGAT 59.701 40.000 0.00 0.00 0.00 3.73
78 79 1.865865 ATCATTACCACGACGATGCC 58.134 50.000 0.00 0.00 0.00 4.40
133 134 4.533707 CCTCCATCTTATGATAGCTTGGGA 59.466 45.833 0.00 0.00 0.00 4.37
134 135 5.338219 CCTCCATCTTATGATAGCTTGGGAG 60.338 48.000 0.00 10.94 36.21 4.30
203 204 3.257561 CGGTGAGCGCCTTCATCG 61.258 66.667 16.44 16.44 44.20 3.84
233 234 0.111089 CTTTCTCGTGCGCTTGTCAC 60.111 55.000 9.73 0.00 0.00 3.67
238 239 4.059459 GTGCGCTTGTCACCGACG 62.059 66.667 9.73 0.00 34.95 5.12
246 247 2.432628 GTCACCGACGGGAGCAAG 60.433 66.667 20.00 0.72 36.97 4.01
256 257 2.440599 GGAGCAAGGGAAAGGCCA 59.559 61.111 5.01 0.00 38.95 5.36
257 258 1.680314 GGAGCAAGGGAAAGGCCAG 60.680 63.158 5.01 0.00 38.95 4.85
262 263 0.901580 CAAGGGAAAGGCCAGCATGT 60.902 55.000 5.01 0.00 38.95 3.21
264 265 2.409870 GGGAAAGGCCAGCATGTCG 61.410 63.158 5.01 0.00 38.95 4.35
265 266 2.486966 GAAAGGCCAGCATGTCGC 59.513 61.111 5.01 0.00 42.91 5.19
269 270 2.203195 GGCCAGCATGTCGCCATA 60.203 61.111 13.06 0.00 42.19 2.74
271 272 1.524621 GCCAGCATGTCGCCATAGT 60.525 57.895 0.00 0.00 44.04 2.12
273 274 0.179076 CCAGCATGTCGCCATAGTGA 60.179 55.000 0.00 0.00 44.04 3.41
356 357 9.594936 TTTATTTATTCCCAACCTCTTTCTTGA 57.405 29.630 0.00 0.00 0.00 3.02
359 360 2.043992 TCCCAACCTCTTTCTTGACGA 58.956 47.619 0.00 0.00 0.00 4.20
362 363 1.457303 CAACCTCTTTCTTGACGAGCG 59.543 52.381 0.00 0.00 0.00 5.03
363 364 0.038159 ACCTCTTTCTTGACGAGCGG 60.038 55.000 0.00 0.00 0.00 5.52
393 397 1.714899 GGTCCATTCCAATGCCGTCG 61.715 60.000 0.00 0.00 35.08 5.12
424 429 3.354472 TAGCGGAGGAGCCTTCGGA 62.354 63.158 18.26 0.00 44.66 4.55
436 441 1.609320 GCCTTCGGATCTATTCCAGCC 60.609 57.143 0.00 0.00 45.78 4.85
480 485 3.834799 GGGCGGTAGTGGAGACGG 61.835 72.222 0.00 0.00 0.00 4.79
501 506 3.003793 GGCCGAAAATTATCCTGAGAAGC 59.996 47.826 0.00 0.00 0.00 3.86
509 514 0.965866 ATCCTGAGAAGCGACACCGA 60.966 55.000 0.00 0.00 38.22 4.69
511 516 0.738975 CCTGAGAAGCGACACCGATA 59.261 55.000 0.00 0.00 38.22 2.92
514 519 2.089201 TGAGAAGCGACACCGATAGAA 58.911 47.619 0.00 0.00 38.22 2.10
531 536 9.521841 ACCGATAGAATATATTTGAGAGACTCA 57.478 33.333 5.02 0.00 37.12 3.41
552 557 1.466851 GCTGCTTTTGGAGGCCAACT 61.467 55.000 5.01 0.00 43.82 3.16
605 612 3.059352 AGAGATTGGCTAAGTGCGTTT 57.941 42.857 0.00 0.00 44.05 3.60
669 676 7.640597 TCGGTTAGAGATGAACTTATGAGAA 57.359 36.000 0.00 0.00 0.00 2.87
672 679 7.416890 CGGTTAGAGATGAACTTATGAGAAGGT 60.417 40.741 0.00 0.00 0.00 3.50
675 682 6.638610 AGAGATGAACTTATGAGAAGGTGTG 58.361 40.000 0.00 0.00 0.00 3.82
679 686 6.618287 TGAACTTATGAGAAGGTGTGTTTG 57.382 37.500 0.00 0.00 0.00 2.93
680 687 5.008613 TGAACTTATGAGAAGGTGTGTTTGC 59.991 40.000 0.00 0.00 0.00 3.68
681 688 4.460263 ACTTATGAGAAGGTGTGTTTGCA 58.540 39.130 0.00 0.00 0.00 4.08
683 690 3.928727 ATGAGAAGGTGTGTTTGCATG 57.071 42.857 0.00 0.00 0.00 4.06
684 691 2.653726 TGAGAAGGTGTGTTTGCATGT 58.346 42.857 0.00 0.00 0.00 3.21
685 692 3.023119 TGAGAAGGTGTGTTTGCATGTT 58.977 40.909 0.00 0.00 0.00 2.71
686 693 3.181488 TGAGAAGGTGTGTTTGCATGTTG 60.181 43.478 0.00 0.00 0.00 3.33
687 694 2.760092 AGAAGGTGTGTTTGCATGTTGT 59.240 40.909 0.00 0.00 0.00 3.32
688 695 3.951037 AGAAGGTGTGTTTGCATGTTGTA 59.049 39.130 0.00 0.00 0.00 2.41
690 697 4.241590 AGGTGTGTTTGCATGTTGTATG 57.758 40.909 0.00 0.00 0.00 2.39
691 698 3.636300 AGGTGTGTTTGCATGTTGTATGT 59.364 39.130 0.00 0.00 0.00 2.29
692 699 4.824537 AGGTGTGTTTGCATGTTGTATGTA 59.175 37.500 0.00 0.00 0.00 2.29
693 700 4.915085 GGTGTGTTTGCATGTTGTATGTAC 59.085 41.667 0.00 0.00 0.00 2.90
695 702 5.851177 GTGTGTTTGCATGTTGTATGTACTC 59.149 40.000 0.00 0.00 0.00 2.59
696 703 5.049060 TGTGTTTGCATGTTGTATGTACTCC 60.049 40.000 0.00 0.00 0.00 3.85
697 704 4.457603 TGTTTGCATGTTGTATGTACTCCC 59.542 41.667 0.00 0.00 0.00 4.30
698 705 4.568072 TTGCATGTTGTATGTACTCCCT 57.432 40.909 0.00 0.00 0.00 4.20
699 706 4.137116 TGCATGTTGTATGTACTCCCTC 57.863 45.455 0.00 0.00 0.00 4.30
700 707 3.118408 TGCATGTTGTATGTACTCCCTCC 60.118 47.826 0.00 0.00 0.00 4.30
701 708 3.717707 CATGTTGTATGTACTCCCTCCG 58.282 50.000 0.00 0.00 0.00 4.63
703 710 2.756760 TGTTGTATGTACTCCCTCCGTC 59.243 50.000 0.00 0.00 0.00 4.79
704 711 2.062971 TGTATGTACTCCCTCCGTCC 57.937 55.000 0.00 0.00 0.00 4.79
706 713 0.839277 TATGTACTCCCTCCGTCCGA 59.161 55.000 0.00 0.00 0.00 4.55
707 714 0.033796 ATGTACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
708 715 0.251297 TGTACTCCCTCCGTCCGAAA 60.251 55.000 0.00 0.00 0.00 3.46
709 716 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
710 717 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
711 718 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
712 719 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
714 721 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
715 722 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
716 723 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
717 724 3.332034 CCTCCGTCCGAAAATACTTGTT 58.668 45.455 0.00 0.00 0.00 2.83
718 725 3.124636 CCTCCGTCCGAAAATACTTGTTG 59.875 47.826 0.00 0.00 0.00 3.33
719 726 3.068560 TCCGTCCGAAAATACTTGTTGG 58.931 45.455 0.00 0.00 0.00 3.77
720 727 3.068560 CCGTCCGAAAATACTTGTTGGA 58.931 45.455 0.00 0.00 0.00 3.53
722 729 3.991773 CGTCCGAAAATACTTGTTGGAGA 59.008 43.478 0.00 0.00 0.00 3.71
725 732 6.348213 CGTCCGAAAATACTTGTTGGAGAAAT 60.348 38.462 0.00 0.00 0.00 2.17
726 733 6.801862 GTCCGAAAATACTTGTTGGAGAAATG 59.198 38.462 0.00 0.00 0.00 2.32
727 734 5.572896 CCGAAAATACTTGTTGGAGAAATGC 59.427 40.000 0.00 0.00 0.00 3.56
728 735 6.148948 CGAAAATACTTGTTGGAGAAATGCA 58.851 36.000 0.00 0.00 0.00 3.96
730 737 7.967854 CGAAAATACTTGTTGGAGAAATGCATA 59.032 33.333 0.00 0.00 0.00 3.14
731 738 9.638239 GAAAATACTTGTTGGAGAAATGCATAA 57.362 29.630 0.00 0.00 0.00 1.90
732 739 9.995003 AAAATACTTGTTGGAGAAATGCATAAA 57.005 25.926 0.00 0.00 0.00 1.40
733 740 9.995003 AAATACTTGTTGGAGAAATGCATAAAA 57.005 25.926 0.00 0.00 0.00 1.52
734 741 9.995003 AATACTTGTTGGAGAAATGCATAAAAA 57.005 25.926 0.00 0.00 0.00 1.94
737 744 9.995003 ACTTGTTGGAGAAATGCATAAAAATAA 57.005 25.926 0.00 0.00 0.00 1.40
779 1012 9.664332 AAATACATCTAGATACATGCATTCCTC 57.336 33.333 4.54 0.00 0.00 3.71
780 1013 6.047511 ACATCTAGATACATGCATTCCTCC 57.952 41.667 4.54 0.00 0.00 4.30
783 1016 3.393089 AGATACATGCATTCCTCCGAC 57.607 47.619 0.00 0.00 0.00 4.79
785 1018 1.107945 TACATGCATTCCTCCGACGA 58.892 50.000 0.00 0.00 0.00 4.20
786 1019 0.179100 ACATGCATTCCTCCGACGAG 60.179 55.000 0.00 0.00 35.72 4.18
790 1023 1.754803 TGCATTCCTCCGACGAGTATT 59.245 47.619 0.00 0.00 33.93 1.89
791 1024 2.167693 TGCATTCCTCCGACGAGTATTT 59.832 45.455 0.00 0.00 33.93 1.40
792 1025 2.795470 GCATTCCTCCGACGAGTATTTC 59.205 50.000 0.00 0.00 33.93 2.17
793 1026 3.381949 CATTCCTCCGACGAGTATTTCC 58.618 50.000 0.00 0.00 33.93 3.13
794 1027 1.019673 TCCTCCGACGAGTATTTCCG 58.980 55.000 0.00 0.00 33.93 4.30
795 1028 0.030369 CCTCCGACGAGTATTTCCGG 59.970 60.000 0.00 0.00 41.36 5.14
798 1031 0.590732 CCGACGAGTATTTCCGGACG 60.591 60.000 1.83 5.89 42.49 4.79
799 1032 0.590732 CGACGAGTATTTCCGGACGG 60.591 60.000 1.83 3.96 0.00 4.79
801 1034 0.737219 ACGAGTATTTCCGGACGGAG 59.263 55.000 13.64 3.15 46.06 4.63
802 1035 0.030369 CGAGTATTTCCGGACGGAGG 59.970 60.000 13.64 0.00 46.06 4.30
803 1036 0.388294 GAGTATTTCCGGACGGAGGG 59.612 60.000 13.64 0.00 46.06 4.30
804 1037 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
805 1038 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
806 1039 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
808 1041 0.251742 TTTCCGGACGGAGGGAGTAA 60.252 55.000 13.64 1.47 46.06 2.24
809 1042 0.682209 TTCCGGACGGAGGGAGTAAG 60.682 60.000 13.64 0.00 46.06 2.34
819 1052 4.401837 ACGGAGGGAGTAAGTGAGAATAAC 59.598 45.833 0.00 0.00 0.00 1.89
820 1053 4.645588 CGGAGGGAGTAAGTGAGAATAACT 59.354 45.833 0.00 0.00 0.00 2.24
822 1055 5.894964 GGAGGGAGTAAGTGAGAATAACTCT 59.105 44.000 0.00 0.00 45.13 3.24
879 1958 1.295423 GTTTCTGCCCAGGCTCGTA 59.705 57.895 10.58 0.00 42.51 3.43
889 1968 2.294979 CCAGGCTCGTAAAATAACCCC 58.705 52.381 0.00 0.00 0.00 4.95
893 1972 1.063027 GCTCGTAAAATAACCCCGCAC 59.937 52.381 0.00 0.00 0.00 5.34
940 2020 3.581770 TCAGATATTCAGATCCCAGCCAG 59.418 47.826 0.00 0.00 0.00 4.85
969 2049 3.920196 ACCCACGACCACGACCAC 61.920 66.667 0.00 0.00 42.66 4.16
971 2051 3.968568 CCACGACCACGACCACGA 61.969 66.667 0.00 0.00 42.66 4.35
972 2052 2.728383 CACGACCACGACCACGAC 60.728 66.667 0.00 0.00 42.66 4.34
974 2054 3.968568 CGACCACGACCACGACCA 61.969 66.667 0.00 0.00 42.66 4.02
975 2055 2.049433 GACCACGACCACGACCAG 60.049 66.667 0.00 0.00 42.66 4.00
976 2056 3.569049 GACCACGACCACGACCAGG 62.569 68.421 0.00 0.00 42.66 4.45
978 2058 4.293648 CACGACCACGACCAGGCA 62.294 66.667 0.00 0.00 42.66 4.75
979 2059 4.295119 ACGACCACGACCAGGCAC 62.295 66.667 0.00 0.00 42.66 5.01
1498 3733 6.346439 GCAGAGCATTTCTAGATGTATGTTCG 60.346 42.308 14.98 12.52 34.63 3.95
1502 3737 7.212976 AGCATTTCTAGATGTATGTTCGTGAT 58.787 34.615 0.00 0.00 0.00 3.06
1510 3745 9.613957 CTAGATGTATGTTCGTGATAAGTTAGG 57.386 37.037 0.00 0.00 0.00 2.69
1537 3772 2.733552 CGATGTGGATCTGCCTATTTCG 59.266 50.000 0.00 0.00 37.63 3.46
1544 3779 3.309954 GGATCTGCCTATTTCGTGTGAAC 59.690 47.826 0.00 0.00 32.71 3.18
1682 4114 7.745620 ATGGTTATTATCTTGATTCCGTTCC 57.254 36.000 0.00 0.00 0.00 3.62
1683 4115 6.895782 TGGTTATTATCTTGATTCCGTTCCT 58.104 36.000 0.00 0.00 0.00 3.36
1684 4116 8.025270 TGGTTATTATCTTGATTCCGTTCCTA 57.975 34.615 0.00 0.00 0.00 2.94
1751 4187 2.361737 GGCTCAGGGAAGGCAACC 60.362 66.667 0.00 0.00 41.28 3.77
1900 4336 6.693761 TTGATTTGCATTTCTGACATTTCG 57.306 33.333 0.00 0.00 0.00 3.46
1961 4397 4.955450 CCCAATCTATCATTCAACACCCAA 59.045 41.667 0.00 0.00 0.00 4.12
1984 4421 5.109500 TGGAATGTAATGTCCATACTGCA 57.891 39.130 0.00 0.00 39.04 4.41
1987 4424 6.095300 TGGAATGTAATGTCCATACTGCAAAG 59.905 38.462 0.00 0.00 39.04 2.77
1988 4425 6.095440 GGAATGTAATGTCCATACTGCAAAGT 59.905 38.462 0.00 0.00 33.79 2.66
1990 4427 8.574251 AATGTAATGTCCATACTGCAAAGTTA 57.426 30.769 0.00 0.00 0.00 2.24
1991 4428 8.752005 ATGTAATGTCCATACTGCAAAGTTAT 57.248 30.769 0.00 0.00 0.00 1.89
1993 4430 8.458052 TGTAATGTCCATACTGCAAAGTTATTG 58.542 33.333 0.00 0.00 0.00 1.90
1994 4431 5.309323 TGTCCATACTGCAAAGTTATTGC 57.691 39.130 6.23 6.23 45.11 3.56
1995 4432 4.157656 TGTCCATACTGCAAAGTTATTGCC 59.842 41.667 10.34 0.00 44.32 4.52
2007 4445 6.238593 GCAAAGTTATTGCCCACATTTTGAAA 60.239 34.615 1.80 0.00 39.38 2.69
2014 4452 6.616774 TTGCCCACATTTTGAAAAAGATTC 57.383 33.333 0.00 0.00 0.00 2.52
2036 4474 9.920133 GATTCTACTGCATCTGTTCTATGATAA 57.080 33.333 0.00 0.00 0.00 1.75
2039 4477 9.755804 TCTACTGCATCTGTTCTATGATAAAAG 57.244 33.333 0.00 0.00 0.00 2.27
2051 4489 7.841915 TCTATGATAAAAGCATGTTCAACGA 57.158 32.000 0.00 0.00 0.00 3.85
2057 4495 2.907910 AGCATGTTCAACGAAGCATC 57.092 45.000 0.00 0.00 0.00 3.91
2070 4508 2.033299 CGAAGCATCGGTTTGCCATATT 59.967 45.455 2.82 0.00 45.32 1.28
2125 4573 2.031012 TGGCGACTGGCTGTTGAG 59.969 61.111 15.22 4.00 42.94 3.02
2149 4597 9.569167 GAGTTTCAAGTAATATTTAGTTTGGCC 57.431 33.333 0.00 0.00 0.00 5.36
2150 4598 8.241367 AGTTTCAAGTAATATTTAGTTTGGCCG 58.759 33.333 0.00 0.00 0.00 6.13
2162 4610 6.474140 TTAGTTTGGCCGTATCAGAAGATA 57.526 37.500 0.00 0.00 35.67 1.98
2173 4621 6.530534 CCGTATCAGAAGATAAAACAACGAGT 59.469 38.462 0.00 0.00 38.41 4.18
2270 4721 6.775708 TGCAACCTAGTTTATGGAAGTAAGT 58.224 36.000 0.00 0.00 0.00 2.24
2271 4722 6.653320 TGCAACCTAGTTTATGGAAGTAAGTG 59.347 38.462 0.00 0.00 0.00 3.16
2280 4731 9.185680 AGTTTATGGAAGTAAGTGTTTTGTTCT 57.814 29.630 0.00 0.00 0.00 3.01
2334 4788 3.451141 TGCAATGTGGGAGAAAACAAC 57.549 42.857 0.00 0.00 0.00 3.32
2369 4824 6.570692 ACATACTCCGTGATAAACTTACAGG 58.429 40.000 0.00 0.00 0.00 4.00
2424 4879 7.882791 TCAGGAATTAATGCTGTTTACTTCTGA 59.117 33.333 0.00 0.00 46.73 3.27
2425 4880 8.680903 CAGGAATTAATGCTGTTTACTTCTGAT 58.319 33.333 0.00 0.00 42.16 2.90
2446 4901 9.605275 TCTGATATGAACTTTCTTAATGTGAGG 57.395 33.333 0.00 0.00 0.00 3.86
2502 4957 2.504175 GGATACAGTACAAAGCCTCCCA 59.496 50.000 0.00 0.00 0.00 4.37
2517 4972 2.310538 CTCCCAAAGGAAGCAACAAGT 58.689 47.619 0.00 0.00 43.40 3.16
2545 5000 4.917385 TGCCTAAAAGAAGATGGTAGCAA 58.083 39.130 0.00 0.00 0.00 3.91
2547 5002 4.944317 GCCTAAAAGAAGATGGTAGCAAGT 59.056 41.667 0.00 0.00 0.00 3.16
2561 5016 7.412853 TGGTAGCAAGTACATTACACATAGA 57.587 36.000 0.00 0.00 32.62 1.98
2566 5021 6.590292 AGCAAGTACATTACACATAGACACAC 59.410 38.462 0.00 0.00 0.00 3.82
2586 5041 6.379988 ACACACCATGATACTACTGTACATCA 59.620 38.462 0.00 8.86 0.00 3.07
2617 5072 5.993441 TCCAGATACAATCACTGCACATATG 59.007 40.000 0.00 0.00 0.00 1.78
2639 5094 3.613432 GCGTGCCATATACTGGGTACTAC 60.613 52.174 0.00 0.00 46.06 2.73
2640 5095 3.365666 CGTGCCATATACTGGGTACTACG 60.366 52.174 0.00 0.00 46.06 3.51
2641 5096 3.571401 GTGCCATATACTGGGTACTACGT 59.429 47.826 0.00 0.00 46.06 3.57
2642 5097 4.761739 GTGCCATATACTGGGTACTACGTA 59.238 45.833 0.00 0.00 46.06 3.57
2686 5141 7.342026 TGGATGACACTAGCTATCAGAAAACTA 59.658 37.037 0.00 0.00 0.00 2.24
2687 5142 7.865385 GGATGACACTAGCTATCAGAAAACTAG 59.135 40.741 0.00 0.00 37.07 2.57
2688 5143 7.939784 TGACACTAGCTATCAGAAAACTAGA 57.060 36.000 0.00 0.00 35.42 2.43
2689 5144 8.526667 TGACACTAGCTATCAGAAAACTAGAT 57.473 34.615 0.00 0.00 35.42 1.98
2690 5145 8.409371 TGACACTAGCTATCAGAAAACTAGATG 58.591 37.037 0.00 7.46 35.42 2.90
2691 5146 7.721402 ACACTAGCTATCAGAAAACTAGATGG 58.279 38.462 0.00 0.00 35.42 3.51
2692 5147 7.561722 ACACTAGCTATCAGAAAACTAGATGGA 59.438 37.037 0.00 0.00 35.42 3.41
2693 5148 8.584157 CACTAGCTATCAGAAAACTAGATGGAT 58.416 37.037 0.00 0.00 35.42 3.41
2694 5149 9.815306 ACTAGCTATCAGAAAACTAGATGGATA 57.185 33.333 0.00 0.00 35.42 2.59
2733 5188 4.637276 TCCGACTAAAATCTTTGCACAGA 58.363 39.130 4.77 4.77 0.00 3.41
2734 5189 4.690748 TCCGACTAAAATCTTTGCACAGAG 59.309 41.667 8.77 0.00 0.00 3.35
2735 5190 4.690748 CCGACTAAAATCTTTGCACAGAGA 59.309 41.667 8.77 2.51 0.00 3.10
2736 5191 5.389935 CCGACTAAAATCTTTGCACAGAGAC 60.390 44.000 8.77 0.00 0.00 3.36
2737 5192 5.177511 CGACTAAAATCTTTGCACAGAGACA 59.822 40.000 8.77 0.00 0.00 3.41
2738 5193 6.305693 ACTAAAATCTTTGCACAGAGACAC 57.694 37.500 8.77 0.00 0.00 3.67
2739 5194 6.058183 ACTAAAATCTTTGCACAGAGACACT 58.942 36.000 8.77 0.00 0.00 3.55
2751 5206 3.979948 CAGAGACACTGGCAGATAGATG 58.020 50.000 23.66 11.12 42.39 2.90
2752 5207 3.635836 CAGAGACACTGGCAGATAGATGA 59.364 47.826 23.66 0.00 42.39 2.92
2753 5208 4.281435 CAGAGACACTGGCAGATAGATGAT 59.719 45.833 23.66 3.05 42.39 2.45
2754 5209 4.523943 AGAGACACTGGCAGATAGATGATC 59.476 45.833 23.66 11.65 34.40 2.92
2755 5210 3.577848 AGACACTGGCAGATAGATGATCC 59.422 47.826 23.66 4.04 34.80 3.36
2756 5211 2.636893 ACACTGGCAGATAGATGATCCC 59.363 50.000 23.66 0.00 34.80 3.85
2757 5212 2.905085 CACTGGCAGATAGATGATCCCT 59.095 50.000 23.66 0.00 34.80 4.20
2758 5213 3.055963 CACTGGCAGATAGATGATCCCTC 60.056 52.174 23.66 0.00 34.80 4.30
2759 5214 2.166050 CTGGCAGATAGATGATCCCTCG 59.834 54.545 9.42 0.00 34.80 4.63
2760 5215 2.175202 GGCAGATAGATGATCCCTCGT 58.825 52.381 0.00 0.00 34.80 4.18
2761 5216 3.245264 TGGCAGATAGATGATCCCTCGTA 60.245 47.826 0.00 0.00 34.80 3.43
2762 5217 3.764434 GGCAGATAGATGATCCCTCGTAA 59.236 47.826 0.00 0.00 34.80 3.18
2763 5218 4.404073 GGCAGATAGATGATCCCTCGTAAT 59.596 45.833 0.00 0.00 34.80 1.89
2764 5219 5.451242 GGCAGATAGATGATCCCTCGTAATC 60.451 48.000 0.00 0.00 34.80 1.75
2801 5257 3.009584 AGAATCCTCCCAGAAGTTGAACC 59.990 47.826 0.00 0.00 0.00 3.62
2807 5263 3.891366 CTCCCAGAAGTTGAACCAAACAT 59.109 43.478 0.00 0.00 32.21 2.71
2827 5283 5.640732 ACATGGCATTGACGAAAATAAGAC 58.359 37.500 0.00 0.00 0.00 3.01
2832 5288 4.565229 CATTGACGAAAATAAGACCGACG 58.435 43.478 0.00 0.00 0.00 5.12
2833 5289 1.987770 TGACGAAAATAAGACCGACGC 59.012 47.619 0.00 0.00 0.00 5.19
2844 5300 9.924650 AAAATAAGACCGACGCTAAGATAATAT 57.075 29.630 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 1.847506 TGAAGGAGCTCAAGGGGCA 60.848 57.895 17.19 1.53 0.00 5.36
78 79 1.612726 CCAAGTGAAGGAGCTCAAGGG 60.613 57.143 17.19 1.23 0.00 3.95
204 205 2.202623 CGAGAAAGCCGACGGAGG 60.203 66.667 20.50 0.00 0.00 4.30
233 234 3.248446 TTTCCCTTGCTCCCGTCGG 62.248 63.158 3.60 3.60 0.00 4.79
238 239 2.363018 GGCCTTTCCCTTGCTCCC 60.363 66.667 0.00 0.00 0.00 4.30
246 247 2.409870 CGACATGCTGGCCTTTCCC 61.410 63.158 3.32 0.00 0.00 3.97
249 250 3.064324 GGCGACATGCTGGCCTTT 61.064 61.111 3.32 0.00 45.43 3.11
262 263 2.795973 CGACGGTCACTATGGCGA 59.204 61.111 9.10 0.00 0.00 5.54
264 265 2.954868 CGCGACGGTCACTATGGC 60.955 66.667 0.00 1.30 0.00 4.40
265 266 2.278596 CCGCGACGGTCACTATGG 60.279 66.667 8.23 0.00 42.73 2.74
311 312 0.182775 AAAACTTGCTCCAGACCGGT 59.817 50.000 6.92 6.92 35.57 5.28
339 340 2.037251 CTCGTCAAGAAAGAGGTTGGGA 59.963 50.000 0.00 0.00 0.00 4.37
402 406 3.318922 AAGGCTCCTCCGCTACCCT 62.319 63.158 0.00 0.00 40.77 4.34
436 441 4.856801 CCACAGCCCCCGATTCCG 62.857 72.222 0.00 0.00 0.00 4.30
448 453 4.704833 CCCGAGGCACCACCACAG 62.705 72.222 0.00 0.00 43.14 3.66
470 475 0.036306 AATTTTCGGCCGTCTCCACT 59.964 50.000 27.15 1.85 0.00 4.00
480 485 3.303395 CGCTTCTCAGGATAATTTTCGGC 60.303 47.826 0.00 0.00 0.00 5.54
501 506 8.451748 TCTCTCAAATATATTCTATCGGTGTCG 58.548 37.037 0.00 0.00 37.82 4.35
531 536 0.760189 TTGGCCTCCAAAAGCAGCTT 60.760 50.000 3.32 0.21 40.92 3.74
669 676 3.636300 ACATACAACATGCAAACACACCT 59.364 39.130 0.00 0.00 0.00 4.00
672 679 5.049060 GGAGTACATACAACATGCAAACACA 60.049 40.000 0.00 0.00 0.00 3.72
675 682 4.700213 AGGGAGTACATACAACATGCAAAC 59.300 41.667 0.00 0.00 0.00 2.93
679 686 3.467803 GGAGGGAGTACATACAACATGC 58.532 50.000 0.00 0.00 0.00 4.06
680 687 3.132289 ACGGAGGGAGTACATACAACATG 59.868 47.826 0.00 0.00 0.00 3.21
681 688 3.371965 ACGGAGGGAGTACATACAACAT 58.628 45.455 0.00 0.00 0.00 2.71
683 690 2.100418 GGACGGAGGGAGTACATACAAC 59.900 54.545 0.00 0.00 0.00 3.32
684 691 2.381911 GGACGGAGGGAGTACATACAA 58.618 52.381 0.00 0.00 0.00 2.41
685 692 1.748244 CGGACGGAGGGAGTACATACA 60.748 57.143 0.00 0.00 0.00 2.29
686 693 0.950116 CGGACGGAGGGAGTACATAC 59.050 60.000 0.00 0.00 0.00 2.39
687 694 0.839277 TCGGACGGAGGGAGTACATA 59.161 55.000 0.00 0.00 0.00 2.29
688 695 0.033796 TTCGGACGGAGGGAGTACAT 60.034 55.000 0.00 0.00 0.00 2.29
690 697 0.890683 TTTTCGGACGGAGGGAGTAC 59.109 55.000 0.00 0.00 0.00 2.73
691 698 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
692 699 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
693 700 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
695 702 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
696 703 2.968675 ACAAGTATTTTCGGACGGAGG 58.031 47.619 0.00 0.00 0.00 4.30
697 704 3.124636 CCAACAAGTATTTTCGGACGGAG 59.875 47.826 0.00 0.00 0.00 4.63
698 705 3.068560 CCAACAAGTATTTTCGGACGGA 58.931 45.455 0.00 0.00 0.00 4.69
699 706 3.068560 TCCAACAAGTATTTTCGGACGG 58.931 45.455 0.00 0.00 0.00 4.79
700 707 3.991773 TCTCCAACAAGTATTTTCGGACG 59.008 43.478 0.00 0.00 0.00 4.79
701 708 5.934935 TTCTCCAACAAGTATTTTCGGAC 57.065 39.130 0.00 0.00 0.00 4.79
703 710 5.572896 GCATTTCTCCAACAAGTATTTTCGG 59.427 40.000 0.00 0.00 0.00 4.30
704 711 6.148948 TGCATTTCTCCAACAAGTATTTTCG 58.851 36.000 0.00 0.00 0.00 3.46
706 713 9.995003 TTTATGCATTTCTCCAACAAGTATTTT 57.005 25.926 3.54 0.00 0.00 1.82
707 714 9.995003 TTTTATGCATTTCTCCAACAAGTATTT 57.005 25.926 3.54 0.00 0.00 1.40
708 715 9.995003 TTTTTATGCATTTCTCCAACAAGTATT 57.005 25.926 3.54 0.00 0.00 1.89
711 718 9.995003 TTATTTTTATGCATTTCTCCAACAAGT 57.005 25.926 3.54 0.00 0.00 3.16
757 990 5.337089 CGGAGGAATGCATGTATCTAGATGT 60.337 44.000 15.79 0.00 30.38 3.06
758 991 5.105595 TCGGAGGAATGCATGTATCTAGATG 60.106 44.000 15.79 0.83 0.00 2.90
759 992 5.019470 TCGGAGGAATGCATGTATCTAGAT 58.981 41.667 10.73 10.73 0.00 1.98
760 993 4.218635 GTCGGAGGAATGCATGTATCTAGA 59.781 45.833 0.00 0.00 0.00 2.43
762 995 3.057526 CGTCGGAGGAATGCATGTATCTA 60.058 47.826 0.00 0.00 0.00 1.98
763 996 2.288457 CGTCGGAGGAATGCATGTATCT 60.288 50.000 0.00 0.00 0.00 1.98
764 997 2.061773 CGTCGGAGGAATGCATGTATC 58.938 52.381 0.00 0.00 0.00 2.24
766 999 1.067060 CTCGTCGGAGGAATGCATGTA 59.933 52.381 0.00 0.00 36.61 2.29
767 1000 0.179100 CTCGTCGGAGGAATGCATGT 60.179 55.000 0.00 0.00 36.61 3.21
768 1001 0.179100 ACTCGTCGGAGGAATGCATG 60.179 55.000 0.00 0.00 44.93 4.06
769 1002 1.399714 TACTCGTCGGAGGAATGCAT 58.600 50.000 0.00 0.00 44.93 3.96
770 1003 1.399714 ATACTCGTCGGAGGAATGCA 58.600 50.000 1.73 0.00 44.93 3.96
771 1004 2.510768 AATACTCGTCGGAGGAATGC 57.489 50.000 1.73 0.00 44.93 3.56
773 1006 2.034305 CGGAAATACTCGTCGGAGGAAT 59.966 50.000 1.73 0.00 44.93 3.01
774 1007 1.402968 CGGAAATACTCGTCGGAGGAA 59.597 52.381 1.73 0.00 44.93 3.36
776 1009 0.030369 CCGGAAATACTCGTCGGAGG 59.970 60.000 0.00 0.00 44.93 4.30
777 1010 1.019673 TCCGGAAATACTCGTCGGAG 58.980 55.000 0.00 0.00 43.84 4.63
779 1012 0.590732 CGTCCGGAAATACTCGTCGG 60.591 60.000 5.23 0.00 41.80 4.79
780 1013 0.590732 CCGTCCGGAAATACTCGTCG 60.591 60.000 5.23 1.25 37.50 5.12
783 1016 0.030369 CCTCCGTCCGGAAATACTCG 59.970 60.000 5.23 3.90 44.66 4.18
785 1018 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
786 1019 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
790 1023 0.682209 CTTACTCCCTCCGTCCGGAA 60.682 60.000 5.23 0.00 44.66 4.30
791 1024 1.077212 CTTACTCCCTCCGTCCGGA 60.077 63.158 0.00 0.00 42.90 5.14
792 1025 1.379576 ACTTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
793 1026 0.679002 TCACTTACTCCCTCCGTCCG 60.679 60.000 0.00 0.00 0.00 4.79
794 1027 1.104630 CTCACTTACTCCCTCCGTCC 58.895 60.000 0.00 0.00 0.00 4.79
795 1028 2.125773 TCTCACTTACTCCCTCCGTC 57.874 55.000 0.00 0.00 0.00 4.79
798 1031 5.894964 AGAGTTATTCTCACTTACTCCCTCC 59.105 44.000 0.00 0.00 44.98 4.30
799 1032 6.603997 TCAGAGTTATTCTCACTTACTCCCTC 59.396 42.308 0.00 0.00 44.98 4.30
801 1034 6.183360 CCTCAGAGTTATTCTCACTTACTCCC 60.183 46.154 0.00 0.00 44.98 4.30
802 1035 6.681865 GCCTCAGAGTTATTCTCACTTACTCC 60.682 46.154 0.00 0.00 44.98 3.85
803 1036 6.096282 AGCCTCAGAGTTATTCTCACTTACTC 59.904 42.308 0.00 0.00 44.98 2.59
804 1037 5.955355 AGCCTCAGAGTTATTCTCACTTACT 59.045 40.000 0.00 0.00 44.98 2.24
805 1038 6.215495 AGCCTCAGAGTTATTCTCACTTAC 57.785 41.667 0.00 0.00 44.98 2.34
806 1039 6.859112 AAGCCTCAGAGTTATTCTCACTTA 57.141 37.500 0.00 0.00 44.98 2.24
808 1041 5.247110 TGAAAGCCTCAGAGTTATTCTCACT 59.753 40.000 0.00 0.00 44.98 3.41
809 1042 5.350091 GTGAAAGCCTCAGAGTTATTCTCAC 59.650 44.000 0.00 0.00 44.98 3.51
819 1052 2.008329 GAGCATGTGAAAGCCTCAGAG 58.992 52.381 0.00 0.00 33.60 3.35
820 1053 1.627329 AGAGCATGTGAAAGCCTCAGA 59.373 47.619 0.00 0.00 33.60 3.27
822 1055 2.039480 AGAAGAGCATGTGAAAGCCTCA 59.961 45.455 0.00 0.00 0.00 3.86
879 1958 1.235948 TTCGCGTGCGGGGTTATTTT 61.236 50.000 14.89 0.00 40.25 1.82
889 1968 0.635731 TTGTTTTTGTTTCGCGTGCG 59.364 45.000 5.77 8.14 41.35 5.34
893 1972 1.272781 TGGCTTGTTTTTGTTTCGCG 58.727 45.000 0.00 0.00 0.00 5.87
985 2065 3.869272 CATCGCTTCTGCCGTGCC 61.869 66.667 0.00 0.00 35.36 5.01
1328 2408 4.880426 GGGGGCGAGAGATGGGGA 62.880 72.222 0.00 0.00 0.00 4.81
1395 2477 2.969950 AGGATAGGCGGCACATTTAGTA 59.030 45.455 13.08 0.00 0.00 1.82
1397 2479 2.550830 AGGATAGGCGGCACATTTAG 57.449 50.000 13.08 0.00 0.00 1.85
1498 3733 5.291128 CACATCGTTGTCCCTAACTTATCAC 59.709 44.000 0.00 0.00 32.34 3.06
1502 3737 3.833650 TCCACATCGTTGTCCCTAACTTA 59.166 43.478 0.00 0.00 32.34 2.24
1510 3745 1.009829 GCAGATCCACATCGTTGTCC 58.990 55.000 0.00 0.00 32.34 4.02
1537 3772 3.243877 CGGATCAGATCATTCGTTCACAC 59.756 47.826 12.66 0.00 0.00 3.82
1544 3779 2.680577 TGCATCGGATCAGATCATTCG 58.319 47.619 12.66 6.94 0.00 3.34
1621 3935 0.829990 TGACTGAAGCTGGTGACACA 59.170 50.000 8.08 0.00 35.60 3.72
1684 4116 8.796475 ACTGAAACAATTGCAATCACTATTAGT 58.204 29.630 13.38 9.37 0.00 2.24
1751 4187 1.436600 ACATCTGAAGCAGCTTCGTG 58.563 50.000 26.58 24.64 42.78 4.35
1900 4336 9.528018 TTGAACAAAATTGAATACTTTCTCCAC 57.472 29.630 0.00 0.00 32.78 4.02
1984 4421 7.872113 TTTTCAAAATGTGGGCAATAACTTT 57.128 28.000 0.00 0.00 0.00 2.66
1987 4424 7.489574 TCTTTTTCAAAATGTGGGCAATAAC 57.510 32.000 0.00 0.00 0.00 1.89
1988 4425 8.688747 AATCTTTTTCAAAATGTGGGCAATAA 57.311 26.923 0.00 0.00 0.00 1.40
1990 4427 6.999871 AGAATCTTTTTCAAAATGTGGGCAAT 59.000 30.769 0.00 0.00 0.00 3.56
1991 4428 6.355747 AGAATCTTTTTCAAAATGTGGGCAA 58.644 32.000 0.00 0.00 0.00 4.52
1993 4430 7.116805 CAGTAGAATCTTTTTCAAAATGTGGGC 59.883 37.037 0.00 0.00 0.00 5.36
1994 4431 7.116805 GCAGTAGAATCTTTTTCAAAATGTGGG 59.883 37.037 0.00 0.00 0.00 4.61
1995 4432 7.652909 TGCAGTAGAATCTTTTTCAAAATGTGG 59.347 33.333 0.00 0.00 0.00 4.17
2007 4445 8.481314 TCATAGAACAGATGCAGTAGAATCTTT 58.519 33.333 0.00 0.00 38.12 2.52
2014 4452 8.494347 GCTTTTATCATAGAACAGATGCAGTAG 58.506 37.037 0.00 0.00 0.00 2.57
2036 4474 3.568538 GATGCTTCGTTGAACATGCTTT 58.431 40.909 0.00 0.00 0.00 3.51
2038 4476 1.129251 CGATGCTTCGTTGAACATGCT 59.871 47.619 13.46 0.00 40.53 3.79
2039 4477 1.527696 CGATGCTTCGTTGAACATGC 58.472 50.000 13.46 0.00 40.53 4.06
2051 4489 4.470334 AAAATATGGCAAACCGATGCTT 57.530 36.364 0.00 0.00 45.68 3.91
2095 4541 6.040504 CAGCCAGTCGCCAGGTATATATATAA 59.959 42.308 3.96 0.00 38.78 0.98
2125 4573 8.024865 ACGGCCAAACTAAATATTACTTGAAAC 58.975 33.333 2.24 0.00 0.00 2.78
2149 4597 7.507672 ACTCGTTGTTTTATCTTCTGATACG 57.492 36.000 0.00 0.00 35.14 3.06
2150 4598 9.350357 TGTACTCGTTGTTTTATCTTCTGATAC 57.650 33.333 0.00 0.00 35.14 2.24
2162 4610 9.871238 AGAGTTGATATATGTACTCGTTGTTTT 57.129 29.630 13.93 0.00 41.38 2.43
2270 4721 7.913674 ATTTGCTTGGTTTTAGAACAAAACA 57.086 28.000 12.99 0.00 40.78 2.83
2306 4757 3.760738 TCTCCCACATTGCATTTGTGTA 58.239 40.909 21.88 12.74 42.30 2.90
2307 4758 2.596346 TCTCCCACATTGCATTTGTGT 58.404 42.857 21.88 8.56 42.30 3.72
2314 4768 2.762887 TGTTGTTTTCTCCCACATTGCA 59.237 40.909 0.00 0.00 0.00 4.08
2323 4777 6.329496 TGTCACAATTTCTGTTGTTTTCTCC 58.671 36.000 0.00 0.00 40.17 3.71
2334 4788 4.929211 TCACGGAGTATGTCACAATTTCTG 59.071 41.667 0.00 0.00 41.61 3.02
2424 4879 9.965902 AGTTCCTCACATTAAGAAAGTTCATAT 57.034 29.630 0.00 0.00 0.00 1.78
2425 4880 9.793259 AAGTTCCTCACATTAAGAAAGTTCATA 57.207 29.630 0.00 0.00 0.00 2.15
2446 4901 9.886132 TCACTAAGGAATTGGTATCTAAAGTTC 57.114 33.333 0.00 0.00 0.00 3.01
2502 4957 5.248870 CAACTGTACTTGTTGCTTCCTTT 57.751 39.130 15.47 0.00 38.36 3.11
2545 5000 6.599356 TGGTGTGTCTATGTGTAATGTACT 57.401 37.500 0.00 0.00 0.00 2.73
2547 5002 7.176589 TCATGGTGTGTCTATGTGTAATGTA 57.823 36.000 0.00 0.00 36.58 2.29
2561 5016 6.379988 TGATGTACAGTAGTATCATGGTGTGT 59.620 38.462 0.33 0.00 31.84 3.72
2586 5041 7.389884 GTGCAGTGATTGTATCTGGATGATATT 59.610 37.037 0.00 0.00 39.56 1.28
2686 5141 3.692257 GCTGTATGCCTGTATCCATCT 57.308 47.619 0.00 0.00 35.15 2.90
2733 5188 3.577848 GGATCATCTATCTGCCAGTGTCT 59.422 47.826 0.00 0.00 34.75 3.41
2734 5189 3.306641 GGGATCATCTATCTGCCAGTGTC 60.307 52.174 0.00 0.00 34.75 3.67
2735 5190 2.636893 GGGATCATCTATCTGCCAGTGT 59.363 50.000 0.00 0.00 34.75 3.55
2736 5191 2.905085 AGGGATCATCTATCTGCCAGTG 59.095 50.000 0.00 0.00 34.75 3.66
2737 5192 3.172339 GAGGGATCATCTATCTGCCAGT 58.828 50.000 0.00 0.00 34.75 4.00
2738 5193 2.166050 CGAGGGATCATCTATCTGCCAG 59.834 54.545 0.00 0.00 34.75 4.85
2739 5194 2.174360 CGAGGGATCATCTATCTGCCA 58.826 52.381 0.00 0.00 34.75 4.92
2740 5195 2.175202 ACGAGGGATCATCTATCTGCC 58.825 52.381 0.00 0.00 34.75 4.85
2742 5197 5.731967 GCGATTACGAGGGATCATCTATCTG 60.732 48.000 0.00 0.00 42.66 2.90
2743 5198 4.336993 GCGATTACGAGGGATCATCTATCT 59.663 45.833 0.00 0.00 42.66 1.98
2744 5199 4.096532 TGCGATTACGAGGGATCATCTATC 59.903 45.833 0.00 0.00 42.66 2.08
2745 5200 4.017126 TGCGATTACGAGGGATCATCTAT 58.983 43.478 0.00 0.00 42.66 1.98
2746 5201 3.418047 TGCGATTACGAGGGATCATCTA 58.582 45.455 0.00 0.00 42.66 1.98
2747 5202 2.239400 TGCGATTACGAGGGATCATCT 58.761 47.619 0.00 0.00 42.66 2.90
2748 5203 2.724977 TGCGATTACGAGGGATCATC 57.275 50.000 0.00 0.00 42.66 2.92
2749 5204 2.868044 GCTTGCGATTACGAGGGATCAT 60.868 50.000 0.00 0.00 42.66 2.45
2750 5205 1.538204 GCTTGCGATTACGAGGGATCA 60.538 52.381 0.00 0.00 42.66 2.92
2751 5206 1.140816 GCTTGCGATTACGAGGGATC 58.859 55.000 0.00 0.00 42.66 3.36
2752 5207 0.464036 TGCTTGCGATTACGAGGGAT 59.536 50.000 0.00 0.00 42.66 3.85
2753 5208 0.248012 TTGCTTGCGATTACGAGGGA 59.752 50.000 0.00 0.00 42.66 4.20
2754 5209 0.373716 GTTGCTTGCGATTACGAGGG 59.626 55.000 0.00 0.00 42.66 4.30
2755 5210 0.373716 GGTTGCTTGCGATTACGAGG 59.626 55.000 0.00 0.00 42.66 4.63
2756 5211 0.373716 GGGTTGCTTGCGATTACGAG 59.626 55.000 0.00 0.00 42.66 4.18
2757 5212 0.320858 TGGGTTGCTTGCGATTACGA 60.321 50.000 0.00 0.00 42.66 3.43
2758 5213 0.179200 GTGGGTTGCTTGCGATTACG 60.179 55.000 0.00 0.00 42.93 3.18
2759 5214 1.165270 AGTGGGTTGCTTGCGATTAC 58.835 50.000 0.00 0.00 0.00 1.89
2760 5215 2.235155 TCTAGTGGGTTGCTTGCGATTA 59.765 45.455 0.00 0.00 0.00 1.75
2761 5216 1.003118 TCTAGTGGGTTGCTTGCGATT 59.997 47.619 0.00 0.00 0.00 3.34
2762 5217 0.613260 TCTAGTGGGTTGCTTGCGAT 59.387 50.000 0.00 0.00 0.00 4.58
2763 5218 0.394938 TTCTAGTGGGTTGCTTGCGA 59.605 50.000 0.00 0.00 0.00 5.10
2764 5219 1.398390 GATTCTAGTGGGTTGCTTGCG 59.602 52.381 0.00 0.00 0.00 4.85
2801 5257 6.585702 TCTTATTTTCGTCAATGCCATGTTTG 59.414 34.615 0.00 0.00 0.00 2.93
2807 5263 3.126171 CGGTCTTATTTTCGTCAATGCCA 59.874 43.478 0.00 0.00 0.00 4.92
2827 5283 4.174009 CCACCATATTATCTTAGCGTCGG 58.826 47.826 0.00 0.00 0.00 4.79
2832 5288 6.825213 TGATGATGCCACCATATTATCTTAGC 59.175 38.462 0.00 0.00 0.00 3.09
2833 5289 8.206325 GTGATGATGCCACCATATTATCTTAG 57.794 38.462 0.00 0.00 0.00 2.18


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

AutoCloner maintained by Alex Coulton.