Multiple sequence alignment - TraesCS2B01G154000

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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 TraesCS2B01G154000 chr2B 100.000 4205 0 0 1 4205 122006750 122010954 0.000000e+00 7766.0
1 TraesCS2B01G154000 chr2B 82.129 526 75 8 126 635 87617689 87618211 2.320000e-117 433.0
2 TraesCS2B01G154000 chr2D 93.079 3121 150 17 919 4023 78709406 78712476 0.000000e+00 4506.0
3 TraesCS2B01G154000 chr2D 84.178 651 67 21 1 633 459806404 459807036 2.160000e-167 599.0
4 TraesCS2B01G154000 chr2D 93.525 139 8 1 646 783 78704443 78704581 5.510000e-49 206.0
5 TraesCS2B01G154000 chr2D 90.210 143 13 1 4062 4203 284551491 284551349 7.180000e-43 185.0
6 TraesCS2B01G154000 chr2D 84.694 98 13 2 541 636 215826866 215826769 3.460000e-16 97.1
7 TraesCS2B01G154000 chr2A 92.999 2928 146 21 857 3737 79167021 79169936 0.000000e+00 4217.0
8 TraesCS2B01G154000 chr2A 87.582 459 31 11 3762 4199 79170003 79170456 3.750000e-140 508.0
9 TraesCS2B01G154000 chr2A 86.364 154 18 3 4050 4200 763401264 763401417 9.350000e-37 165.0
10 TraesCS2B01G154000 chr2A 95.876 97 4 0 690 786 79166900 79166996 1.570000e-34 158.0
11 TraesCS2B01G154000 chrUn 83.967 605 73 16 47 633 110543500 110542902 3.670000e-155 558.0
12 TraesCS2B01G154000 chrUn 82.857 175 24 4 4031 4203 476990015 476989845 7.280000e-33 152.0
13 TraesCS2B01G154000 chr7D 82.923 609 76 18 47 636 587304605 587304006 1.340000e-144 523.0
14 TraesCS2B01G154000 chr7D 78.839 534 74 28 47 556 171318821 171319339 1.460000e-84 324.0
15 TraesCS2B01G154000 chr3B 83.223 602 69 15 1 578 530558030 530558623 1.340000e-144 523.0
16 TraesCS2B01G154000 chr3B 81.915 658 82 23 1 635 687750066 687749423 4.820000e-144 521.0
17 TraesCS2B01G154000 chr3B 86.458 96 11 2 653 747 20025022 20024928 2.070000e-18 104.0
18 TraesCS2B01G154000 chr7A 82.609 621 75 21 47 640 726462598 726463212 6.230000e-143 518.0
19 TraesCS2B01G154000 chr1B 81.487 659 77 22 1 635 589502051 589501414 2.260000e-137 499.0
20 TraesCS2B01G154000 chr1B 86.928 153 17 2 4051 4200 467193941 467194093 7.230000e-38 169.0
21 TraesCS2B01G154000 chr1B 87.162 148 15 4 4054 4200 393960062 393960206 9.350000e-37 165.0
22 TraesCS2B01G154000 chr1B 82.258 124 18 4 513 633 474421256 474421378 2.070000e-18 104.0
23 TraesCS2B01G154000 chr5D 80.207 677 77 24 1 639 532337389 532336732 4.960000e-124 455.0
24 TraesCS2B01G154000 chr5B 79.483 658 96 25 1 635 222749795 222750436 8.350000e-117 431.0
25 TraesCS2B01G154000 chr4D 79.520 625 86 25 47 635 91079861 91079243 1.410000e-109 407.0
26 TraesCS2B01G154000 chr4D 78.539 657 88 41 1 636 494481192 494481816 2.370000e-102 383.0
27 TraesCS2B01G154000 chr3A 76.377 690 103 36 1 635 737538985 737539669 2.440000e-82 316.0
28 TraesCS2B01G154000 chr3D 75.647 657 111 39 4 633 175646788 175646154 8.900000e-72 281.0
29 TraesCS2B01G154000 chr3D 91.566 83 7 0 1 83 39991570 39991652 9.550000e-22 115.0
30 TraesCS2B01G154000 chr6B 78.151 357 38 23 1 318 516873105 516873460 1.540000e-44 191.0
31 TraesCS2B01G154000 chr1A 88.158 152 18 0 4052 4203 548410234 548410385 9.290000e-42 182.0
32 TraesCS2B01G154000 chr1A 85.276 163 21 2 4044 4203 529327109 529326947 9.350000e-37 165.0
33 TraesCS2B01G154000 chr5A 86.364 154 19 2 4054 4205 609247717 609247870 2.600000e-37 167.0
34 TraesCS2B01G154000 chr1D 85.039 127 15 4 513 636 445329827 445329952 4.410000e-25 126.0
35 TraesCS2B01G154000 chr4A 90.110 91 9 0 1 91 600061271 600061181 7.390000e-23 119.0


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 TraesCS2B01G154000 chr2B 122006750 122010954 4204 False 7766.000000 7766 100.000000 1 4205 1 chr2B.!!$F2 4204
1 TraesCS2B01G154000 chr2B 87617689 87618211 522 False 433.000000 433 82.129000 126 635 1 chr2B.!!$F1 509
2 TraesCS2B01G154000 chr2D 78709406 78712476 3070 False 4506.000000 4506 93.079000 919 4023 1 chr2D.!!$F2 3104
3 TraesCS2B01G154000 chr2D 459806404 459807036 632 False 599.000000 599 84.178000 1 633 1 chr2D.!!$F3 632
4 TraesCS2B01G154000 chr2A 79166900 79170456 3556 False 1627.666667 4217 92.152333 690 4199 3 chr2A.!!$F2 3509
5 TraesCS2B01G154000 chrUn 110542902 110543500 598 True 558.000000 558 83.967000 47 633 1 chrUn.!!$R1 586
6 TraesCS2B01G154000 chr7D 587304006 587304605 599 True 523.000000 523 82.923000 47 636 1 chr7D.!!$R1 589
7 TraesCS2B01G154000 chr7D 171318821 171319339 518 False 324.000000 324 78.839000 47 556 1 chr7D.!!$F1 509
8 TraesCS2B01G154000 chr3B 530558030 530558623 593 False 523.000000 523 83.223000 1 578 1 chr3B.!!$F1 577
9 TraesCS2B01G154000 chr3B 687749423 687750066 643 True 521.000000 521 81.915000 1 635 1 chr3B.!!$R2 634
10 TraesCS2B01G154000 chr7A 726462598 726463212 614 False 518.000000 518 82.609000 47 640 1 chr7A.!!$F1 593
11 TraesCS2B01G154000 chr1B 589501414 589502051 637 True 499.000000 499 81.487000 1 635 1 chr1B.!!$R1 634
12 TraesCS2B01G154000 chr5D 532336732 532337389 657 True 455.000000 455 80.207000 1 639 1 chr5D.!!$R1 638
13 TraesCS2B01G154000 chr5B 222749795 222750436 641 False 431.000000 431 79.483000 1 635 1 chr5B.!!$F1 634
14 TraesCS2B01G154000 chr4D 91079243 91079861 618 True 407.000000 407 79.520000 47 635 1 chr4D.!!$R1 588
15 TraesCS2B01G154000 chr4D 494481192 494481816 624 False 383.000000 383 78.539000 1 636 1 chr4D.!!$F1 635
16 TraesCS2B01G154000 chr3A 737538985 737539669 684 False 316.000000 316 76.377000 1 635 1 chr3A.!!$F1 634
17 TraesCS2B01G154000 chr3D 175646154 175646788 634 True 281.000000 281 75.647000 4 633 1 chr3D.!!$R1 629

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
306 372 0.039074 CTGCGTGAAGGAGTCGAAGT 60.039 55.0 0.0 0.0 33.2 3.01 F
1791 1971 0.454600 ACTACACATACTCCACGGCG 59.545 55.0 4.8 4.8 0.0 6.46 F
2142 2322 0.038744 CAGGGATGGTTGAGCAAGGT 59.961 55.0 0.0 0.0 0.0 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 2109 0.109597 CAAAGATCAACACGGCAGCC 60.110 55.0 0.0 0.0 0.00 4.85 R
2973 3153 0.324275 ACCTCAGAGCTGTCTCCCTC 60.324 60.0 0.0 0.0 40.22 4.30 R
3838 4134 0.178975 TCCCAATGGACACCAACACC 60.179 55.0 0.0 0.0 36.95 4.16 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
29 30 2.042435 CCTCCTCTCCGGCTCCTT 60.042 66.667 0.00 0.00 0.00 3.36
99 127 4.148825 GCCAGGGCTCGACGATGT 62.149 66.667 2.30 0.00 38.26 3.06
300 366 2.049063 GCGTCTGCGTGAAGGAGT 60.049 61.111 0.00 0.00 39.54 3.85
301 367 2.089349 GCGTCTGCGTGAAGGAGTC 61.089 63.158 0.00 0.00 39.54 3.36
306 372 0.039074 CTGCGTGAAGGAGTCGAAGT 60.039 55.000 0.00 0.00 33.20 3.01
369 455 1.855360 CCTCTCTCAGCGCGTTATTTC 59.145 52.381 8.43 0.00 0.00 2.17
477 635 2.352388 CCCCGTTCGCTGAATTTTAGA 58.648 47.619 0.00 0.00 0.00 2.10
601 772 0.816018 TCAGGCGGCAACTTTTCGAA 60.816 50.000 13.08 0.00 0.00 3.71
639 814 1.138661 GCTGGAGATGCTCTTAGCTGT 59.861 52.381 0.00 0.00 42.97 4.40
640 815 2.363680 GCTGGAGATGCTCTTAGCTGTA 59.636 50.000 0.00 0.00 42.97 2.74
641 816 3.006752 GCTGGAGATGCTCTTAGCTGTAT 59.993 47.826 0.00 0.00 42.97 2.29
642 817 4.558178 CTGGAGATGCTCTTAGCTGTATG 58.442 47.826 0.00 0.00 42.97 2.39
643 818 3.963374 TGGAGATGCTCTTAGCTGTATGT 59.037 43.478 0.00 0.00 42.97 2.29
644 819 4.406972 TGGAGATGCTCTTAGCTGTATGTT 59.593 41.667 0.00 0.00 42.97 2.71
645 820 5.598417 TGGAGATGCTCTTAGCTGTATGTTA 59.402 40.000 0.00 0.00 42.97 2.41
646 821 6.268617 TGGAGATGCTCTTAGCTGTATGTTAT 59.731 38.462 0.00 0.00 42.97 1.89
647 822 6.589523 GGAGATGCTCTTAGCTGTATGTTATG 59.410 42.308 0.00 0.00 42.97 1.90
648 823 5.931146 AGATGCTCTTAGCTGTATGTTATGC 59.069 40.000 0.00 0.00 42.97 3.14
649 824 5.022282 TGCTCTTAGCTGTATGTTATGCA 57.978 39.130 0.00 0.00 42.97 3.96
650 825 5.614308 TGCTCTTAGCTGTATGTTATGCAT 58.386 37.500 3.79 3.79 42.97 3.96
651 826 5.698089 TGCTCTTAGCTGTATGTTATGCATC 59.302 40.000 0.19 0.00 42.97 3.91
652 827 5.121454 GCTCTTAGCTGTATGTTATGCATCC 59.879 44.000 0.19 0.00 38.45 3.51
653 828 6.173427 TCTTAGCTGTATGTTATGCATCCA 57.827 37.500 0.19 1.23 38.94 3.41
654 829 6.772605 TCTTAGCTGTATGTTATGCATCCAT 58.227 36.000 0.19 9.72 38.94 3.41
655 830 6.875726 TCTTAGCTGTATGTTATGCATCCATC 59.124 38.462 0.19 2.74 38.94 3.51
656 831 5.238624 AGCTGTATGTTATGCATCCATCT 57.761 39.130 0.19 0.00 38.94 2.90
657 832 5.628130 AGCTGTATGTTATGCATCCATCTT 58.372 37.500 0.19 0.00 38.94 2.40
658 833 6.066690 AGCTGTATGTTATGCATCCATCTTT 58.933 36.000 0.19 0.00 38.94 2.52
659 834 6.206243 AGCTGTATGTTATGCATCCATCTTTC 59.794 38.462 0.19 0.75 38.94 2.62
660 835 6.206243 GCTGTATGTTATGCATCCATCTTTCT 59.794 38.462 0.19 0.00 38.94 2.52
661 836 7.255381 GCTGTATGTTATGCATCCATCTTTCTT 60.255 37.037 0.19 0.00 38.94 2.52
662 837 7.933396 TGTATGTTATGCATCCATCTTTCTTG 58.067 34.615 0.19 0.00 38.94 3.02
663 838 7.557358 TGTATGTTATGCATCCATCTTTCTTGT 59.443 33.333 0.19 0.00 38.94 3.16
664 839 9.056005 GTATGTTATGCATCCATCTTTCTTGTA 57.944 33.333 0.19 0.00 38.94 2.41
665 840 7.320443 TGTTATGCATCCATCTTTCTTGTAC 57.680 36.000 0.19 0.00 32.85 2.90
666 841 7.112122 TGTTATGCATCCATCTTTCTTGTACT 58.888 34.615 0.19 0.00 32.85 2.73
667 842 8.264347 TGTTATGCATCCATCTTTCTTGTACTA 58.736 33.333 0.19 0.00 32.85 1.82
668 843 8.552034 GTTATGCATCCATCTTTCTTGTACTAC 58.448 37.037 0.19 0.00 32.85 2.73
669 844 5.428253 TGCATCCATCTTTCTTGTACTACC 58.572 41.667 0.00 0.00 0.00 3.18
670 845 5.045942 TGCATCCATCTTTCTTGTACTACCA 60.046 40.000 0.00 0.00 0.00 3.25
671 846 6.058183 GCATCCATCTTTCTTGTACTACCAT 58.942 40.000 0.00 0.00 0.00 3.55
672 847 6.017605 GCATCCATCTTTCTTGTACTACCATG 60.018 42.308 0.00 0.00 0.00 3.66
673 848 5.989477 TCCATCTTTCTTGTACTACCATGG 58.011 41.667 11.19 11.19 0.00 3.66
674 849 5.104527 TCCATCTTTCTTGTACTACCATGGG 60.105 44.000 18.09 0.85 30.99 4.00
675 850 5.104527 CCATCTTTCTTGTACTACCATGGGA 60.105 44.000 18.09 6.59 0.00 4.37
676 851 6.414732 CATCTTTCTTGTACTACCATGGGAA 58.585 40.000 18.09 4.15 0.00 3.97
677 852 6.442541 TCTTTCTTGTACTACCATGGGAAA 57.557 37.500 18.09 11.84 0.00 3.13
678 853 6.472887 TCTTTCTTGTACTACCATGGGAAAG 58.527 40.000 18.09 19.88 39.45 2.62
679 854 4.216411 TCTTGTACTACCATGGGAAAGC 57.784 45.455 18.09 3.82 0.00 3.51
680 855 3.585289 TCTTGTACTACCATGGGAAAGCA 59.415 43.478 18.09 6.59 0.00 3.91
681 856 3.343941 TGTACTACCATGGGAAAGCAC 57.656 47.619 18.09 11.45 0.00 4.40
682 857 2.910319 TGTACTACCATGGGAAAGCACT 59.090 45.455 18.09 0.00 0.00 4.40
683 858 2.496899 ACTACCATGGGAAAGCACTG 57.503 50.000 18.09 0.00 0.00 3.66
684 859 1.004745 ACTACCATGGGAAAGCACTGG 59.995 52.381 18.09 0.00 0.00 4.00
685 860 1.004745 CTACCATGGGAAAGCACTGGT 59.995 52.381 18.09 0.00 42.62 4.00
686 861 1.072266 ACCATGGGAAAGCACTGGTA 58.928 50.000 18.09 0.00 38.41 3.25
687 862 1.640670 ACCATGGGAAAGCACTGGTAT 59.359 47.619 18.09 0.00 38.41 2.73
688 863 2.042979 ACCATGGGAAAGCACTGGTATT 59.957 45.455 18.09 0.00 38.41 1.89
696 871 5.343249 GGAAAGCACTGGTATTTAGCATTG 58.657 41.667 3.56 3.56 37.40 2.82
698 873 2.689983 AGCACTGGTATTTAGCATTGGC 59.310 45.455 8.56 4.96 35.66 4.52
704 879 5.104109 ACTGGTATTTAGCATTGGCCTCTTA 60.104 40.000 3.32 0.00 42.56 2.10
710 885 7.607615 ATTTAGCATTGGCCTCTTATTGAAT 57.392 32.000 3.32 0.00 42.56 2.57
786 961 7.692291 CACTTGTGTTTACGTAAATGATGATCC 59.308 37.037 22.65 8.72 0.00 3.36
787 962 6.671614 TGTGTTTACGTAAATGATGATCCC 57.328 37.500 22.65 8.06 0.00 3.85
788 963 6.411376 TGTGTTTACGTAAATGATGATCCCT 58.589 36.000 22.65 0.00 0.00 4.20
789 964 7.557724 TGTGTTTACGTAAATGATGATCCCTA 58.442 34.615 22.65 0.00 0.00 3.53
790 965 8.208224 TGTGTTTACGTAAATGATGATCCCTAT 58.792 33.333 22.65 0.00 0.00 2.57
791 966 8.495949 GTGTTTACGTAAATGATGATCCCTATG 58.504 37.037 22.65 0.00 0.00 2.23
792 967 8.425703 TGTTTACGTAAATGATGATCCCTATGA 58.574 33.333 22.65 0.00 0.00 2.15
793 968 8.926710 GTTTACGTAAATGATGATCCCTATGAG 58.073 37.037 22.65 0.00 0.00 2.90
794 969 6.672266 ACGTAAATGATGATCCCTATGAGT 57.328 37.500 0.00 0.00 0.00 3.41
795 970 6.459066 ACGTAAATGATGATCCCTATGAGTG 58.541 40.000 0.00 0.00 0.00 3.51
796 971 6.042093 ACGTAAATGATGATCCCTATGAGTGT 59.958 38.462 0.00 0.00 0.00 3.55
797 972 6.367149 CGTAAATGATGATCCCTATGAGTGTG 59.633 42.308 0.00 0.00 0.00 3.82
798 973 3.758755 TGATGATCCCTATGAGTGTGC 57.241 47.619 0.00 0.00 0.00 4.57
799 974 3.311990 TGATGATCCCTATGAGTGTGCT 58.688 45.455 0.00 0.00 0.00 4.40
800 975 3.713248 TGATGATCCCTATGAGTGTGCTT 59.287 43.478 0.00 0.00 0.00 3.91
801 976 4.164796 TGATGATCCCTATGAGTGTGCTTT 59.835 41.667 0.00 0.00 0.00 3.51
802 977 3.877559 TGATCCCTATGAGTGTGCTTTG 58.122 45.455 0.00 0.00 0.00 2.77
811 986 6.925165 CCTATGAGTGTGCTTTGTTTGATTTT 59.075 34.615 0.00 0.00 0.00 1.82
813 988 6.406093 TGAGTGTGCTTTGTTTGATTTTTG 57.594 33.333 0.00 0.00 0.00 2.44
821 996 5.390779 GCTTTGTTTGATTTTTGTGCACTGT 60.391 36.000 19.41 0.00 0.00 3.55
824 999 7.840342 TTGTTTGATTTTTGTGCACTGTATT 57.160 28.000 19.41 0.00 0.00 1.89
826 1001 7.682824 TGTTTGATTTTTGTGCACTGTATTTG 58.317 30.769 19.41 0.00 0.00 2.32
827 1002 7.547019 TGTTTGATTTTTGTGCACTGTATTTGA 59.453 29.630 19.41 0.00 0.00 2.69
828 1003 8.386606 GTTTGATTTTTGTGCACTGTATTTGAA 58.613 29.630 19.41 0.00 0.00 2.69
829 1004 8.659925 TTGATTTTTGTGCACTGTATTTGAAT 57.340 26.923 19.41 6.88 0.00 2.57
830 1005 9.755804 TTGATTTTTGTGCACTGTATTTGAATA 57.244 25.926 19.41 0.00 0.00 1.75
831 1006 9.926158 TGATTTTTGTGCACTGTATTTGAATAT 57.074 25.926 19.41 0.00 0.00 1.28
836 1011 9.838975 TTTGTGCACTGTATTTGAATATTACAG 57.161 29.630 19.41 11.94 42.58 2.74
842 1017 8.560355 ACTGTATTTGAATATTACAGTGTGCA 57.440 30.769 16.53 0.00 46.40 4.57
843 1018 9.177608 ACTGTATTTGAATATTACAGTGTGCAT 57.822 29.630 16.53 0.33 46.40 3.96
851 1026 9.171877 TGAATATTACAGTGTGCATACAAATCA 57.828 29.630 16.44 5.49 38.82 2.57
854 1029 9.787532 ATATTACAGTGTGCATACAAATCAAAC 57.212 29.630 16.44 0.00 38.82 2.93
855 1030 5.512753 ACAGTGTGCATACAAATCAAACA 57.487 34.783 16.44 0.00 38.82 2.83
864 1039 8.977505 GTGCATACAAATCAAACAAAGTAACAT 58.022 29.630 0.00 0.00 0.00 2.71
872 1047 6.687081 TCAAACAAAGTAACATCCGTCTTT 57.313 33.333 0.00 0.00 0.00 2.52
992 1172 1.141881 CTACTACACCAGCGGCCAG 59.858 63.158 2.24 0.00 0.00 4.85
1005 1185 2.896854 GCCAGCCGATTCATGCGA 60.897 61.111 0.00 0.00 0.00 5.10
1056 1236 2.515290 TCGCCGCCGACTATCTCA 60.515 61.111 0.00 0.00 38.82 3.27
1061 1241 1.280142 CGCCGACTATCTCACCTCG 59.720 63.158 0.00 0.00 0.00 4.63
1066 1246 1.681538 GACTATCTCACCTCGCTCCA 58.318 55.000 0.00 0.00 0.00 3.86
1108 1288 2.123640 CCTCGTCTCCCTCCTCCC 60.124 72.222 0.00 0.00 0.00 4.30
1139 1319 2.579738 GCGTCTCCAGTCCCTTCC 59.420 66.667 0.00 0.00 0.00 3.46
1143 1323 4.148825 CTCCAGTCCCTTCCCGCG 62.149 72.222 0.00 0.00 0.00 6.46
1146 1326 4.821589 CAGTCCCTTCCCGCGAGC 62.822 72.222 8.23 0.00 0.00 5.03
1449 1629 2.829914 GGCAAGCGCATCCATGGA 60.830 61.111 18.88 18.88 41.24 3.41
1491 1671 3.941188 CTGGACCGGGTGCTGTGT 61.941 66.667 19.81 0.00 0.00 3.72
1506 1686 0.661187 TGTGTAACGCCGTTCTCGAC 60.661 55.000 5.42 0.00 42.39 4.20
1569 1749 3.011517 AGAGCCATGGCCGAGGTT 61.012 61.111 33.14 13.92 43.17 3.50
1574 1754 2.047274 CATGGCCGAGGTTGACGT 60.047 61.111 0.00 0.00 0.00 4.34
1587 1767 1.067776 GTTGACGTCGTCTCCTGGAAT 60.068 52.381 24.75 0.00 33.15 3.01
1657 1837 1.014044 GCTGTTTGATGAGTCGCCGA 61.014 55.000 0.00 0.00 0.00 5.54
1671 1851 1.446099 GCCGATGCGAGACACTTCA 60.446 57.895 0.00 0.00 0.00 3.02
1708 1888 2.182842 AGCGGCTTGATGCGGAATC 61.183 57.895 0.00 0.00 43.58 2.52
1791 1971 0.454600 ACTACACATACTCCACGGCG 59.545 55.000 4.80 4.80 0.00 6.46
1821 2001 1.203052 GCTGGCATGCTTTCTTTGCTA 59.797 47.619 18.92 0.00 36.62 3.49
1927 2107 2.180017 GCAAGTGCGGCTCAATGG 59.820 61.111 0.00 0.00 0.00 3.16
1929 2109 1.798735 CAAGTGCGGCTCAATGGAG 59.201 57.895 0.00 0.00 44.33 3.86
2142 2322 0.038744 CAGGGATGGTTGAGCAAGGT 59.961 55.000 0.00 0.00 0.00 3.50
2154 2334 0.038744 AGCAAGGTAGGCAAGTGCAT 59.961 50.000 5.52 0.00 44.36 3.96
2160 2340 1.683011 GGTAGGCAAGTGCATGGATGT 60.683 52.381 5.52 0.00 44.36 3.06
2196 2376 3.305950 GGCACAGTTTTGATGCACCATTA 60.306 43.478 0.00 0.00 41.27 1.90
2264 2444 1.400629 CGCTTGCAGGATGTTTGACAG 60.401 52.381 0.00 0.00 39.31 3.51
2273 2453 2.356535 GGATGTTTGACAGAGCTCCCAT 60.357 50.000 10.93 0.00 0.00 4.00
2358 2538 3.274288 GGCCATAGAACTCTTCAACAGG 58.726 50.000 0.00 0.00 0.00 4.00
2625 2805 3.386768 ACATTACTGTCAGCTTGTCGT 57.613 42.857 0.00 0.00 0.00 4.34
2646 2826 2.224843 TGTTCACAAGGACATGGAGCAT 60.225 45.455 0.00 0.00 0.00 3.79
2808 2988 0.526211 GAAAGCAACCCGGACAATCC 59.474 55.000 0.73 0.00 0.00 3.01
2900 3080 5.582689 ATTTATACCTGCTTGGCAAAGTC 57.417 39.130 2.03 0.00 38.41 3.01
2973 3153 2.502947 TCATGATGTGGAGGAGGAACAG 59.497 50.000 0.00 0.00 0.00 3.16
3084 3264 4.633175 TCAAGAACCTGCGTATTTGTGTA 58.367 39.130 0.00 0.00 0.00 2.90
3241 3421 5.576895 ACAATTTTGGTGGCAAATTTTTCG 58.423 33.333 0.00 0.00 32.57 3.46
3246 3426 0.111310 GTGGCAAATTTTTCGCACGC 60.111 50.000 0.00 0.00 0.00 5.34
3247 3427 0.249238 TGGCAAATTTTTCGCACGCT 60.249 45.000 1.93 0.00 0.00 5.07
3252 3432 0.665835 AATTTTTCGCACGCTGGTCA 59.334 45.000 0.00 0.00 0.00 4.02
3346 3540 1.453015 ACCTTTCAACAGCGCACCA 60.453 52.632 11.47 0.00 0.00 4.17
3361 3555 4.351054 CCACCGCCTTTGAGCCCT 62.351 66.667 0.00 0.00 0.00 5.19
3481 3677 2.635714 CTACAGTGATGGCAGCATTGA 58.364 47.619 30.72 15.32 0.00 2.57
3703 3933 2.504032 GGACCATGGCGATCGGAA 59.496 61.111 18.30 0.00 0.00 4.30
3758 4005 1.948104 CCGAATGCGATTGGTAGGAA 58.052 50.000 0.00 0.00 40.82 3.36
3759 4006 1.867233 CCGAATGCGATTGGTAGGAAG 59.133 52.381 0.00 0.00 40.82 3.46
3782 4058 3.560025 CCAGTGTCAGCCCTTGTTCTAAT 60.560 47.826 0.00 0.00 0.00 1.73
3836 4132 1.995626 CACTCCCGGGGAAGGATGT 60.996 63.158 23.50 8.20 31.48 3.06
3837 4133 1.229853 ACTCCCGGGGAAGGATGTT 60.230 57.895 23.50 0.00 31.48 2.71
3838 4134 1.224592 CTCCCGGGGAAGGATGTTG 59.775 63.158 23.50 0.00 31.48 3.33
3839 4135 2.270874 CTCCCGGGGAAGGATGTTGG 62.271 65.000 23.50 0.00 31.48 3.77
3840 4136 2.612493 CCCGGGGAAGGATGTTGGT 61.612 63.158 14.71 0.00 0.00 3.67
3841 4137 1.378514 CCGGGGAAGGATGTTGGTG 60.379 63.158 0.00 0.00 0.00 4.17
3886 4182 1.136305 TGAGGCGACCTTTAAGATCGG 59.864 52.381 10.97 0.00 30.16 4.18
3887 4183 1.407979 GAGGCGACCTTTAAGATCGGA 59.592 52.381 10.97 0.00 30.16 4.55
3919 4215 3.093057 ACTAAACGGCCCATGCAAATAA 58.907 40.909 0.00 0.00 40.13 1.40
4014 4310 5.523916 CCTACGTAAATGCTGTGCTCTTTAT 59.476 40.000 0.00 0.00 0.00 1.40
4057 4354 7.286087 TGCTCTTTACGTAATATTCCTACTCCA 59.714 37.037 9.18 0.00 0.00 3.86
4096 4394 3.917985 GCCTAATGCGTTTTTCGAAATGT 59.082 39.130 12.12 0.00 42.86 2.71
4114 4412 9.098355 TCGAAATGTCTTTGACTATTGATAAGG 57.902 33.333 0.00 0.00 33.15 2.69
4115 4413 8.883731 CGAAATGTCTTTGACTATTGATAAGGT 58.116 33.333 0.00 0.00 33.15 3.50
4117 4415 9.739276 AAATGTCTTTGACTATTGATAAGGTGA 57.261 29.630 0.00 0.00 33.15 4.02
4184 4482 5.995282 ACTCCTTTCACATACGAATTTGACA 59.005 36.000 0.00 0.00 0.00 3.58
4190 4488 8.541133 TTTCACATACGAATTTGACAGTATGA 57.459 30.769 17.78 0.00 45.38 2.15
4199 4497 8.779303 ACGAATTTGACAGTATGATTTGTGTAA 58.221 29.630 0.00 0.00 39.69 2.41
4200 4498 9.773328 CGAATTTGACAGTATGATTTGTGTAAT 57.227 29.630 0.00 0.00 39.69 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.840005 GAAGCGGGAAGGAGCCGG 62.840 72.222 0.00 0.00 0.00 6.13
99 127 4.659172 CCCACTTCAAGGCCGCCA 62.659 66.667 13.15 0.00 0.00 5.69
288 354 1.068748 GTACTTCGACTCCTTCACGCA 60.069 52.381 0.00 0.00 0.00 5.24
300 366 0.110688 CCGTTGTCGTCGTACTTCGA 60.111 55.000 5.41 5.41 46.83 3.71
301 367 1.659262 GCCGTTGTCGTCGTACTTCG 61.659 60.000 0.00 0.00 41.41 3.79
523 684 3.164269 CTAGCCGATGCCCCCAGT 61.164 66.667 0.00 0.00 38.69 4.00
591 760 1.170290 CCCAGGCGGTTCGAAAAGTT 61.170 55.000 0.00 0.00 0.00 2.66
593 762 2.332654 CCCCAGGCGGTTCGAAAAG 61.333 63.158 0.00 0.00 0.00 2.27
639 814 9.056005 GTACAAGAAAGATGGATGCATAACATA 57.944 33.333 14.36 0.00 39.84 2.29
640 815 7.776969 AGTACAAGAAAGATGGATGCATAACAT 59.223 33.333 14.30 14.30 43.54 2.71
641 816 7.112122 AGTACAAGAAAGATGGATGCATAACA 58.888 34.615 0.00 2.01 0.00 2.41
642 817 7.559590 AGTACAAGAAAGATGGATGCATAAC 57.440 36.000 0.00 0.00 0.00 1.89
643 818 7.715249 GGTAGTACAAGAAAGATGGATGCATAA 59.285 37.037 0.00 0.00 0.00 1.90
644 819 7.147567 TGGTAGTACAAGAAAGATGGATGCATA 60.148 37.037 0.00 0.00 0.00 3.14
645 820 6.058183 GGTAGTACAAGAAAGATGGATGCAT 58.942 40.000 0.00 0.00 0.00 3.96
646 821 5.045942 TGGTAGTACAAGAAAGATGGATGCA 60.046 40.000 2.06 0.00 0.00 3.96
647 822 5.428253 TGGTAGTACAAGAAAGATGGATGC 58.572 41.667 2.06 0.00 0.00 3.91
648 823 6.484643 CCATGGTAGTACAAGAAAGATGGATG 59.515 42.308 2.57 0.00 31.26 3.51
649 824 6.409695 CCCATGGTAGTACAAGAAAGATGGAT 60.410 42.308 11.73 0.00 31.26 3.41
650 825 5.104527 CCCATGGTAGTACAAGAAAGATGGA 60.105 44.000 11.73 0.00 31.26 3.41
651 826 5.104527 TCCCATGGTAGTACAAGAAAGATGG 60.105 44.000 11.73 0.00 0.00 3.51
652 827 5.989477 TCCCATGGTAGTACAAGAAAGATG 58.011 41.667 11.73 0.00 0.00 2.90
653 828 6.636454 TTCCCATGGTAGTACAAGAAAGAT 57.364 37.500 11.73 0.00 0.00 2.40
654 829 6.442541 TTTCCCATGGTAGTACAAGAAAGA 57.557 37.500 11.73 0.00 0.00 2.52
655 830 5.123979 GCTTTCCCATGGTAGTACAAGAAAG 59.876 44.000 21.83 21.83 38.14 2.62
656 831 5.007682 GCTTTCCCATGGTAGTACAAGAAA 58.992 41.667 11.73 9.35 0.00 2.52
657 832 4.042311 TGCTTTCCCATGGTAGTACAAGAA 59.958 41.667 11.73 1.18 0.00 2.52
658 833 3.585289 TGCTTTCCCATGGTAGTACAAGA 59.415 43.478 11.73 0.00 0.00 3.02
659 834 3.689649 GTGCTTTCCCATGGTAGTACAAG 59.310 47.826 11.73 4.47 0.00 3.16
660 835 3.329520 AGTGCTTTCCCATGGTAGTACAA 59.670 43.478 20.83 0.00 0.00 2.41
661 836 2.910319 AGTGCTTTCCCATGGTAGTACA 59.090 45.455 20.83 9.02 0.00 2.90
662 837 3.270877 CAGTGCTTTCCCATGGTAGTAC 58.729 50.000 11.73 13.71 0.00 2.73
663 838 2.238646 CCAGTGCTTTCCCATGGTAGTA 59.761 50.000 11.73 1.74 0.00 1.82
664 839 1.004745 CCAGTGCTTTCCCATGGTAGT 59.995 52.381 11.73 0.00 0.00 2.73
665 840 1.004745 ACCAGTGCTTTCCCATGGTAG 59.995 52.381 11.73 6.21 42.37 3.18
666 841 1.072266 ACCAGTGCTTTCCCATGGTA 58.928 50.000 11.73 0.00 42.37 3.25
667 842 1.072266 TACCAGTGCTTTCCCATGGT 58.928 50.000 11.73 0.35 45.87 3.55
668 843 2.442236 ATACCAGTGCTTTCCCATGG 57.558 50.000 4.14 4.14 37.07 3.66
669 844 4.202050 GCTAAATACCAGTGCTTTCCCATG 60.202 45.833 0.00 0.00 0.00 3.66
670 845 3.954258 GCTAAATACCAGTGCTTTCCCAT 59.046 43.478 0.00 0.00 0.00 4.00
671 846 3.245087 TGCTAAATACCAGTGCTTTCCCA 60.245 43.478 0.00 0.00 0.00 4.37
672 847 3.352648 TGCTAAATACCAGTGCTTTCCC 58.647 45.455 0.00 0.00 0.00 3.97
673 848 5.343249 CAATGCTAAATACCAGTGCTTTCC 58.657 41.667 0.00 0.00 0.00 3.13
674 849 5.343249 CCAATGCTAAATACCAGTGCTTTC 58.657 41.667 0.00 0.00 0.00 2.62
675 850 4.381932 GCCAATGCTAAATACCAGTGCTTT 60.382 41.667 0.00 0.00 33.53 3.51
676 851 3.131046 GCCAATGCTAAATACCAGTGCTT 59.869 43.478 0.00 0.00 33.53 3.91
677 852 2.689983 GCCAATGCTAAATACCAGTGCT 59.310 45.455 0.00 0.00 33.53 4.40
678 853 2.223805 GGCCAATGCTAAATACCAGTGC 60.224 50.000 0.00 0.00 37.74 4.40
679 854 3.290710 AGGCCAATGCTAAATACCAGTG 58.709 45.455 5.01 0.00 37.74 3.66
680 855 3.203040 AGAGGCCAATGCTAAATACCAGT 59.797 43.478 5.01 0.00 37.74 4.00
681 856 3.825328 AGAGGCCAATGCTAAATACCAG 58.175 45.455 5.01 0.00 37.74 4.00
682 857 3.951563 AGAGGCCAATGCTAAATACCA 57.048 42.857 5.01 0.00 37.74 3.25
683 858 6.490040 TCAATAAGAGGCCAATGCTAAATACC 59.510 38.462 5.01 0.00 37.74 2.73
684 859 7.510549 TCAATAAGAGGCCAATGCTAAATAC 57.489 36.000 5.01 0.00 37.74 1.89
685 860 8.579006 CATTCAATAAGAGGCCAATGCTAAATA 58.421 33.333 5.01 0.00 37.74 1.40
686 861 7.288389 TCATTCAATAAGAGGCCAATGCTAAAT 59.712 33.333 5.01 0.00 37.74 1.40
687 862 6.606796 TCATTCAATAAGAGGCCAATGCTAAA 59.393 34.615 5.01 0.00 37.74 1.85
688 863 6.128486 TCATTCAATAAGAGGCCAATGCTAA 58.872 36.000 5.01 0.00 37.74 3.09
696 871 6.705863 AGTCATTTCATTCAATAAGAGGCC 57.294 37.500 0.00 0.00 0.00 5.19
698 873 9.829507 ACTCTAGTCATTTCATTCAATAAGAGG 57.170 33.333 0.00 0.00 31.95 3.69
710 885 9.607988 TTACAAGAAACAACTCTAGTCATTTCA 57.392 29.630 15.76 0.53 35.73 2.69
786 961 5.633830 ATCAAACAAAGCACACTCATAGG 57.366 39.130 0.00 0.00 0.00 2.57
787 962 7.935338 AAAATCAAACAAAGCACACTCATAG 57.065 32.000 0.00 0.00 0.00 2.23
788 963 7.763528 ACAAAAATCAAACAAAGCACACTCATA 59.236 29.630 0.00 0.00 0.00 2.15
789 964 6.594937 ACAAAAATCAAACAAAGCACACTCAT 59.405 30.769 0.00 0.00 0.00 2.90
790 965 5.931146 ACAAAAATCAAACAAAGCACACTCA 59.069 32.000 0.00 0.00 0.00 3.41
791 966 6.242829 CACAAAAATCAAACAAAGCACACTC 58.757 36.000 0.00 0.00 0.00 3.51
792 967 5.390779 GCACAAAAATCAAACAAAGCACACT 60.391 36.000 0.00 0.00 0.00 3.55
793 968 4.787591 GCACAAAAATCAAACAAAGCACAC 59.212 37.500 0.00 0.00 0.00 3.82
794 969 4.453478 TGCACAAAAATCAAACAAAGCACA 59.547 33.333 0.00 0.00 0.00 4.57
795 970 4.787591 GTGCACAAAAATCAAACAAAGCAC 59.212 37.500 13.17 0.00 41.22 4.40
796 971 4.694509 AGTGCACAAAAATCAAACAAAGCA 59.305 33.333 21.04 0.00 0.00 3.91
797 972 5.023286 CAGTGCACAAAAATCAAACAAAGC 58.977 37.500 21.04 0.00 0.00 3.51
798 973 6.168164 ACAGTGCACAAAAATCAAACAAAG 57.832 33.333 21.04 0.00 0.00 2.77
799 974 7.840342 ATACAGTGCACAAAAATCAAACAAA 57.160 28.000 21.04 0.00 0.00 2.83
800 975 7.840342 AATACAGTGCACAAAAATCAAACAA 57.160 28.000 21.04 0.00 0.00 2.83
801 976 7.547019 TCAAATACAGTGCACAAAAATCAAACA 59.453 29.630 21.04 0.00 0.00 2.83
802 977 7.904094 TCAAATACAGTGCACAAAAATCAAAC 58.096 30.769 21.04 0.00 0.00 2.93
828 1003 9.787532 GTTTGATTTGTATGCACACTGTAATAT 57.212 29.630 0.00 0.00 33.30 1.28
829 1004 8.787852 TGTTTGATTTGTATGCACACTGTAATA 58.212 29.630 0.00 0.00 33.30 0.98
830 1005 7.656412 TGTTTGATTTGTATGCACACTGTAAT 58.344 30.769 0.00 0.00 33.30 1.89
831 1006 7.032377 TGTTTGATTTGTATGCACACTGTAA 57.968 32.000 0.00 0.00 33.30 2.41
832 1007 6.625873 TGTTTGATTTGTATGCACACTGTA 57.374 33.333 0.00 0.00 33.30 2.74
833 1008 5.512753 TGTTTGATTTGTATGCACACTGT 57.487 34.783 0.00 0.00 33.30 3.55
834 1009 6.476380 ACTTTGTTTGATTTGTATGCACACTG 59.524 34.615 0.00 0.00 33.30 3.66
835 1010 6.572519 ACTTTGTTTGATTTGTATGCACACT 58.427 32.000 0.00 0.00 33.30 3.55
836 1011 6.826893 ACTTTGTTTGATTTGTATGCACAC 57.173 33.333 0.00 0.00 33.30 3.82
837 1012 7.976175 TGTTACTTTGTTTGATTTGTATGCACA 59.024 29.630 0.00 0.00 0.00 4.57
838 1013 8.346476 TGTTACTTTGTTTGATTTGTATGCAC 57.654 30.769 0.00 0.00 0.00 4.57
839 1014 9.190858 GATGTTACTTTGTTTGATTTGTATGCA 57.809 29.630 0.00 0.00 0.00 3.96
840 1015 8.647226 GGATGTTACTTTGTTTGATTTGTATGC 58.353 33.333 0.00 0.00 0.00 3.14
841 1016 8.849490 CGGATGTTACTTTGTTTGATTTGTATG 58.151 33.333 0.00 0.00 0.00 2.39
842 1017 8.573035 ACGGATGTTACTTTGTTTGATTTGTAT 58.427 29.630 0.00 0.00 0.00 2.29
843 1018 7.932335 ACGGATGTTACTTTGTTTGATTTGTA 58.068 30.769 0.00 0.00 0.00 2.41
844 1019 6.801575 ACGGATGTTACTTTGTTTGATTTGT 58.198 32.000 0.00 0.00 0.00 2.83
845 1020 7.138736 AGACGGATGTTACTTTGTTTGATTTG 58.861 34.615 0.00 0.00 0.00 2.32
846 1021 7.272037 AGACGGATGTTACTTTGTTTGATTT 57.728 32.000 0.00 0.00 0.00 2.17
847 1022 6.877611 AGACGGATGTTACTTTGTTTGATT 57.122 33.333 0.00 0.00 0.00 2.57
848 1023 6.877611 AAGACGGATGTTACTTTGTTTGAT 57.122 33.333 0.00 0.00 0.00 2.57
849 1024 6.510478 CGAAAGACGGATGTTACTTTGTTTGA 60.510 38.462 0.00 0.00 38.46 2.69
850 1025 5.619607 CGAAAGACGGATGTTACTTTGTTTG 59.380 40.000 0.00 0.00 38.46 2.93
851 1026 5.744490 CGAAAGACGGATGTTACTTTGTTT 58.256 37.500 0.00 0.00 38.46 2.83
852 1027 4.319261 GCGAAAGACGGATGTTACTTTGTT 60.319 41.667 0.00 0.00 42.83 2.83
853 1028 3.185797 GCGAAAGACGGATGTTACTTTGT 59.814 43.478 0.00 0.00 42.83 2.83
854 1029 3.424433 GGCGAAAGACGGATGTTACTTTG 60.424 47.826 0.00 0.00 42.83 2.77
855 1030 2.740447 GGCGAAAGACGGATGTTACTTT 59.260 45.455 0.00 0.00 42.83 2.66
881 1056 2.309504 GGGTTGGAGGGAGGAAGGG 61.310 68.421 0.00 0.00 0.00 3.95
884 1059 2.609610 CCGGGTTGGAGGGAGGAA 60.610 66.667 0.00 0.00 42.00 3.36
992 1172 2.321060 CGTGTCGCATGAATCGGC 59.679 61.111 0.00 0.00 0.00 5.54
1005 1185 3.827898 GCTCTCCTAGCCGCGTGT 61.828 66.667 4.92 0.00 46.25 4.49
1051 1231 2.418910 CGGTGGAGCGAGGTGAGAT 61.419 63.158 0.00 0.00 0.00 2.75
1076 1256 4.514577 AGGAAGTCGGCGGCGATG 62.515 66.667 36.75 6.69 0.00 3.84
1087 1267 0.033894 GAGGAGGGAGACGAGGAAGT 60.034 60.000 0.00 0.00 0.00 3.01
1088 1268 0.753848 GGAGGAGGGAGACGAGGAAG 60.754 65.000 0.00 0.00 0.00 3.46
1090 1270 2.691779 GGGAGGAGGGAGACGAGGA 61.692 68.421 0.00 0.00 0.00 3.71
1127 1307 4.689549 TCGCGGGAAGGGACTGGA 62.690 66.667 6.13 0.00 40.86 3.86
1449 1629 2.270205 CCGTTCCTCAGCAGCCAT 59.730 61.111 0.00 0.00 0.00 4.40
1534 1714 0.815615 CTGAATGCCCGCTTAGTCCC 60.816 60.000 0.00 0.00 0.00 4.46
1537 1717 0.462759 GCTCTGAATGCCCGCTTAGT 60.463 55.000 0.00 0.00 0.00 2.24
1569 1749 2.118313 TATTCCAGGAGACGACGTCA 57.882 50.000 28.31 7.55 34.60 4.35
1574 1754 2.927028 TCACGATATTCCAGGAGACGA 58.073 47.619 11.63 0.00 0.00 4.20
1587 1767 0.591488 GACACGCGCTGATCACGATA 60.591 55.000 17.91 0.00 0.00 2.92
1657 1837 1.436600 CAGCTTGAAGTGTCTCGCAT 58.563 50.000 0.00 0.00 0.00 4.73
1671 1851 2.490903 GCTGATGATTGTGTTCCAGCTT 59.509 45.455 0.00 0.00 42.46 3.74
1737 1917 2.632512 TCCAGCTCGTGCCATATGATAA 59.367 45.455 3.65 0.00 40.80 1.75
1927 2107 0.674895 AAGATCAACACGGCAGCCTC 60.675 55.000 10.54 0.00 0.00 4.70
1929 2109 0.109597 CAAAGATCAACACGGCAGCC 60.110 55.000 0.00 0.00 0.00 4.85
1935 2115 5.051441 CGACCATCTATCAAAGATCAACACG 60.051 44.000 0.00 0.00 43.42 4.49
2142 2322 1.004628 ACACATCCATGCACTTGCCTA 59.995 47.619 0.00 0.00 41.18 3.93
2154 2334 1.751351 CCTAGCTTCTCGACACATCCA 59.249 52.381 0.00 0.00 0.00 3.41
2160 2340 0.898326 TGTGCCCTAGCTTCTCGACA 60.898 55.000 0.00 0.00 40.80 4.35
2196 2376 1.460504 TGTCGACGAAGGTAGATGCT 58.539 50.000 11.62 0.00 30.33 3.79
2206 2386 4.102649 CACTTAGCATACATGTCGACGAA 58.897 43.478 11.62 0.00 0.00 3.85
2264 2444 1.734465 CAACGTTCTTCATGGGAGCTC 59.266 52.381 4.71 4.71 0.00 4.09
2273 2453 1.686587 TCCAGAGAGCAACGTTCTTCA 59.313 47.619 0.00 0.00 0.00 3.02
2358 2538 6.392354 TGGTTTGATCTTTTCTGCAATCATC 58.608 36.000 0.00 0.00 0.00 2.92
2397 2577 0.456221 AGGCAGATAGAACACCGACG 59.544 55.000 0.00 0.00 0.00 5.12
2544 2724 7.167302 TCGTTGATGAAGTTATTTGCTTTGTTG 59.833 33.333 0.00 0.00 0.00 3.33
2545 2725 7.199766 TCGTTGATGAAGTTATTTGCTTTGTT 58.800 30.769 0.00 0.00 0.00 2.83
2559 2739 7.591057 TGCTTAATCTTGTTTTCGTTGATGAAG 59.409 33.333 0.00 0.00 31.86 3.02
2598 2778 4.199432 AGCTGACAGTAATGTCTTCCAG 57.801 45.455 22.54 13.74 39.41 3.86
2625 2805 1.142667 TGCTCCATGTCCTTGTGAACA 59.857 47.619 0.00 0.00 0.00 3.18
2697 2877 7.475015 ACATGTTTGACAGCATAACATATGAC 58.525 34.615 10.38 0.00 39.70 3.06
2808 2988 5.066117 CACAATGTTCTTCAGATGGATCCAG 59.934 44.000 21.33 6.88 0.00 3.86
2900 3080 5.053145 CCAGTTCCTTTATTCTCTCCATCG 58.947 45.833 0.00 0.00 0.00 3.84
2973 3153 0.324275 ACCTCAGAGCTGTCTCCCTC 60.324 60.000 0.00 0.00 40.22 4.30
3084 3264 2.502142 TGATTGCTTCATGGCAGTCT 57.498 45.000 16.43 0.24 45.19 3.24
3153 3333 4.142403 GCATCCTTGAAATGATGAAACCGA 60.142 41.667 11.17 0.00 40.64 4.69
3241 3421 1.921243 AAAAACTTTGACCAGCGTGC 58.079 45.000 0.00 0.00 0.00 5.34
3270 3450 2.754375 GGGTGCGGGAGGAAGAAA 59.246 61.111 0.00 0.00 0.00 2.52
3271 3451 3.702048 CGGGTGCGGGAGGAAGAA 61.702 66.667 0.00 0.00 0.00 2.52
3302 3482 2.530497 GCAACAACCGAGTGTGCGA 61.530 57.895 0.00 0.00 0.00 5.10
3361 3555 2.819608 GCACCATTACAAAGAAGAGGCA 59.180 45.455 0.00 0.00 0.00 4.75
3412 3607 2.113807 TCAGATCATGATGCCCTCCT 57.886 50.000 14.30 0.00 31.12 3.69
3465 3661 1.171308 GTGTCAATGCTGCCATCACT 58.829 50.000 0.00 0.00 0.00 3.41
3481 3677 1.687123 ACAAAGTAGTCGGAGCAGTGT 59.313 47.619 0.00 0.00 0.00 3.55
3627 3838 3.720106 CTTCGACCTCCTCGCGACG 62.720 68.421 3.71 6.44 42.62 5.12
3629 3840 3.132139 CCTTCGACCTCCTCGCGA 61.132 66.667 9.26 9.26 42.62 5.87
3630 3841 3.114647 CTCCTTCGACCTCCTCGCG 62.115 68.421 0.00 0.00 42.62 5.87
3631 3842 2.047443 ACTCCTTCGACCTCCTCGC 61.047 63.158 0.00 0.00 42.62 5.03
3632 3843 1.803943 CACTCCTTCGACCTCCTCG 59.196 63.158 0.00 0.00 44.44 4.63
3633 3844 1.513622 GCACTCCTTCGACCTCCTC 59.486 63.158 0.00 0.00 0.00 3.71
3634 3845 2.344203 CGCACTCCTTCGACCTCCT 61.344 63.158 0.00 0.00 0.00 3.69
3635 3846 2.182030 CGCACTCCTTCGACCTCC 59.818 66.667 0.00 0.00 0.00 4.30
3636 3847 1.137825 CTCGCACTCCTTCGACCTC 59.862 63.158 0.00 0.00 0.00 3.85
3637 3848 2.344203 CCTCGCACTCCTTCGACCT 61.344 63.158 0.00 0.00 0.00 3.85
3676 3906 1.543065 GCCATGGTCCCAATTGCACA 61.543 55.000 14.67 0.00 0.00 4.57
3737 3967 0.813610 CCTACCAATCGCATTCGGCA 60.814 55.000 0.00 0.00 45.17 5.69
3738 3968 0.531974 TCCTACCAATCGCATTCGGC 60.532 55.000 0.00 0.00 39.90 5.54
3758 4005 1.999634 AACAAGGGCTGACACTGGCT 62.000 55.000 0.00 0.00 0.00 4.75
3759 4006 1.518903 GAACAAGGGCTGACACTGGC 61.519 60.000 0.00 0.00 0.00 4.85
3836 4132 1.407936 CCAATGGACACCAACACCAA 58.592 50.000 0.00 0.00 36.95 3.67
3837 4133 0.468958 CCCAATGGACACCAACACCA 60.469 55.000 0.00 0.00 36.95 4.17
3838 4134 0.178975 TCCCAATGGACACCAACACC 60.179 55.000 0.00 0.00 36.95 4.16
3839 4135 1.545582 CATCCCAATGGACACCAACAC 59.454 52.381 0.00 0.00 45.58 3.32
3840 4136 1.921982 CATCCCAATGGACACCAACA 58.078 50.000 0.00 0.00 45.58 3.33
3886 4182 2.541762 GCCGTTTAGTCATGCATCTCTC 59.458 50.000 0.00 0.00 0.00 3.20
3887 4183 2.555199 GCCGTTTAGTCATGCATCTCT 58.445 47.619 0.00 0.38 0.00 3.10
3919 4215 1.834263 GAGCTACTTGTGTCCCTCCAT 59.166 52.381 0.00 0.00 0.00 3.41
4024 4320 7.444487 GGAATATTACGTAAAGAGCAATTCCCT 59.556 37.037 12.81 0.00 35.76 4.20
4025 4321 7.444487 AGGAATATTACGTAAAGAGCAATTCCC 59.556 37.037 24.01 15.37 40.34 3.97
4026 4322 8.379457 AGGAATATTACGTAAAGAGCAATTCC 57.621 34.615 22.30 22.30 39.96 3.01
4057 4354 8.928448 CGCATTAGGCCCTATATATATATGGAT 58.072 37.037 21.83 13.99 40.31 3.41
4070 4367 2.011222 CGAAAAACGCATTAGGCCCTA 58.989 47.619 0.00 0.00 40.31 3.53
4071 4368 0.808755 CGAAAAACGCATTAGGCCCT 59.191 50.000 0.00 0.00 40.31 5.19
4072 4369 0.806241 TCGAAAAACGCATTAGGCCC 59.194 50.000 0.00 0.00 42.26 5.80
4082 4379 8.409690 CAATAGTCAAAGACATTTCGAAAAACG 58.590 33.333 15.66 9.05 37.97 3.60
4088 4385 9.098355 CCTTATCAATAGTCAAAGACATTTCGA 57.902 33.333 0.00 0.00 34.60 3.71
4157 4455 7.534239 GTCAAATTCGTATGTGAAAGGAGTTTC 59.466 37.037 0.00 0.00 42.27 2.78


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

AutoCloner maintained by Alex Coulton.