Multiple sequence alignment - TraesCS2A01G570000

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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 TraesCS2A01G570000 chr2A 100.000 4635 0 0 1 4635 767568911 767573545 0.000000e+00 8560.0
1 TraesCS2A01G570000 chr2A 97.441 977 22 1 2774 3747 767789243 767788267 0.000000e+00 1663.0
2 TraesCS2A01G570000 chr2A 90.765 693 52 6 1853 2536 767791651 767790962 0.000000e+00 915.0
3 TraesCS2A01G570000 chr2A 76.307 1148 188 56 2326 3439 767561850 767562947 1.900000e-148 536.0
4 TraesCS2A01G570000 chr2A 79.342 547 93 9 1024 1560 767792231 767791695 2.640000e-97 366.0
5 TraesCS2A01G570000 chr2A 78.759 532 83 16 1787 2302 767560416 767560933 3.460000e-86 329.0
6 TraesCS2A01G570000 chr2A 78.245 547 89 16 1787 2317 767485836 767485304 1.610000e-84 324.0
7 TraesCS2A01G570000 chr2A 87.500 288 24 5 3757 4038 767783821 767784102 5.790000e-84 322.0
8 TraesCS2A01G570000 chr2A 78.049 533 91 20 2848 3370 767480341 767479825 3.480000e-81 313.0
9 TraesCS2A01G570000 chr2A 91.216 148 13 0 2438 2585 767790841 767790694 7.860000e-48 202.0
10 TraesCS2A01G570000 chr2A 92.135 89 7 0 3810 3898 767787938 767787850 4.870000e-25 126.0
11 TraesCS2A01G570000 chr2A 86.957 115 7 5 3703 3817 767567190 767567084 6.300000e-24 122.0
12 TraesCS2A01G570000 chr2B 95.782 2513 87 8 1703 4208 799252819 799250319 0.000000e+00 4036.0
13 TraesCS2A01G570000 chr2B 93.098 623 43 0 990 1612 799253475 799252853 0.000000e+00 913.0
14 TraesCS2A01G570000 chr2B 94.422 502 20 6 4 499 799258953 799258454 0.000000e+00 765.0
15 TraesCS2A01G570000 chr2B 95.139 432 15 5 4206 4635 799249563 799249136 0.000000e+00 676.0
16 TraesCS2A01G570000 chr2B 81.789 313 37 12 2 297 799254434 799254125 1.290000e-60 244.0
17 TraesCS2A01G570000 chr2B 85.656 244 20 5 3757 3992 799256252 799256488 4.630000e-60 243.0
18 TraesCS2A01G570000 chr2D 90.058 1901 139 21 876 2755 642499496 642501367 0.000000e+00 2418.0
19 TraesCS2A01G570000 chr2D 93.303 1299 70 9 923 2210 642442889 642444181 0.000000e+00 1901.0
20 TraesCS2A01G570000 chr2D 98.158 1086 16 2 2749 3831 642444889 642445973 0.000000e+00 1892.0
21 TraesCS2A01G570000 chr2D 94.714 700 24 7 1 690 642478684 642479380 0.000000e+00 1075.0
22 TraesCS2A01G570000 chr2D 98.020 505 9 1 2244 2747 642444178 642444682 0.000000e+00 876.0
23 TraesCS2A01G570000 chr2D 86.606 769 75 7 3879 4635 642507858 642508610 0.000000e+00 824.0
24 TraesCS2A01G570000 chr2D 87.312 733 76 7 3093 3820 642501943 642502663 0.000000e+00 822.0
25 TraesCS2A01G570000 chr2D 82.811 989 87 39 2208 3173 642941106 642942034 0.000000e+00 808.0
26 TraesCS2A01G570000 chr2D 91.800 561 34 2 3817 4377 642459438 642459986 0.000000e+00 771.0
27 TraesCS2A01G570000 chr2D 89.738 458 32 6 937 1382 642933002 642933456 5.200000e-159 571.0
28 TraesCS2A01G570000 chr2D 86.761 423 45 7 1787 2209 642940601 642941012 1.180000e-125 460.0
29 TraesCS2A01G570000 chr2D 88.889 288 20 5 3757 4038 642873202 642873483 1.230000e-90 344.0
30 TraesCS2A01G570000 chr2D 88.316 291 17 9 2761 3046 642501661 642501939 2.670000e-87 333.0
31 TraesCS2A01G570000 chr2D 81.527 406 62 12 1782 2184 642240882 642240487 5.790000e-84 322.0
32 TraesCS2A01G570000 chr2D 83.276 293 33 7 4 283 642441989 642442278 5.950000e-64 255.0
33 TraesCS2A01G570000 chr2D 90.741 162 12 3 1452 1612 642940431 642940590 3.630000e-51 213.0
34 TraesCS2A01G570000 chr2D 84.324 185 15 4 3767 3943 642440178 642440000 7.980000e-38 169.0
35 TraesCS2A01G570000 chr2D 85.276 163 23 1 1618 1780 338705657 338705818 2.870000e-37 167.0
36 TraesCS2A01G570000 chr2D 88.696 115 11 1 3703 3817 642873090 642873202 6.250000e-29 139.0
37 TraesCS2A01G570000 chr2D 85.470 117 7 6 3703 3817 642440293 642440185 3.790000e-21 113.0
38 TraesCS2A01G570000 chr2D 92.537 67 5 0 3813 3879 642502721 642502787 3.820000e-16 97.1
39 TraesCS2A01G570000 chrUn 93.292 1133 53 13 2774 3898 31527795 31526678 0.000000e+00 1650.0
40 TraesCS2A01G570000 chrUn 91.231 707 52 7 1834 2536 31530491 31529791 0.000000e+00 953.0
41 TraesCS2A01G570000 chrUn 86.800 750 86 9 2896 3633 31552345 31553093 0.000000e+00 824.0
42 TraesCS2A01G570000 chrUn 78.843 605 100 14 1024 1616 31531070 31530482 2.620000e-102 383.0
43 TraesCS2A01G570000 chrUn 91.608 143 12 0 2438 2580 31529670 31529528 1.020000e-46 198.0
44 TraesCS2A01G570000 chrUn 87.826 115 5 3 3703 3817 31520206 31520311 4.870000e-25 126.0
45 TraesCS2A01G570000 chrUn 89.899 99 9 1 2438 2536 31529779 31529682 4.870000e-25 126.0
46 TraesCS2A01G570000 chrUn 74.818 274 43 20 13 279 183018841 183019095 2.950000e-17 100.0
47 TraesCS2A01G570000 chr5A 84.663 163 25 0 1618 1780 317345577 317345415 3.710000e-36 163.0
48 TraesCS2A01G570000 chr5D 84.663 163 24 1 1614 1776 2310923 2311084 1.330000e-35 161.0
49 TraesCS2A01G570000 chr4D 83.721 172 22 4 1611 1778 25379681 25379850 1.730000e-34 158.0
50 TraesCS2A01G570000 chr1A 84.049 163 26 0 1618 1780 250306364 250306202 1.730000e-34 158.0
51 TraesCS2A01G570000 chr1A 83.333 168 25 3 1613 1780 351745579 351745415 8.030000e-33 152.0
52 TraesCS2A01G570000 chr3B 83.140 172 27 2 1618 1788 787998517 787998347 6.210000e-34 156.0
53 TraesCS2A01G570000 chr7A 100.000 30 0 0 743 772 636385 636414 6.480000e-04 56.5


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 TraesCS2A01G570000 chr2A 767568911 767573545 4634 False 8560.000000 8560 100.00000 1 4635 1 chr2A.!!$F1 4634
1 TraesCS2A01G570000 chr2A 767787850 767792231 4381 True 654.400000 1663 90.17980 1024 3898 5 chr2A.!!$R4 2874
2 TraesCS2A01G570000 chr2A 767560416 767562947 2531 False 432.500000 536 77.53300 1787 3439 2 chr2A.!!$F3 1652
3 TraesCS2A01G570000 chr2A 767485304 767485836 532 True 324.000000 324 78.24500 1787 2317 1 chr2A.!!$R2 530
4 TraesCS2A01G570000 chr2A 767479825 767480341 516 True 313.000000 313 78.04900 2848 3370 1 chr2A.!!$R1 522
5 TraesCS2A01G570000 chr2B 799249136 799254434 5298 True 1467.250000 4036 91.45200 2 4635 4 chr2B.!!$R2 4633
6 TraesCS2A01G570000 chr2D 642441989 642445973 3984 False 1231.000000 1901 93.18925 4 3831 4 chr2D.!!$F6 3827
7 TraesCS2A01G570000 chr2D 642478684 642479380 696 False 1075.000000 1075 94.71400 1 690 1 chr2D.!!$F3 689
8 TraesCS2A01G570000 chr2D 642499496 642502787 3291 False 917.525000 2418 89.55575 876 3879 4 chr2D.!!$F7 3003
9 TraesCS2A01G570000 chr2D 642507858 642508610 752 False 824.000000 824 86.60600 3879 4635 1 chr2D.!!$F4 756
10 TraesCS2A01G570000 chr2D 642459438 642459986 548 False 771.000000 771 91.80000 3817 4377 1 chr2D.!!$F2 560
11 TraesCS2A01G570000 chr2D 642940431 642942034 1603 False 493.666667 808 86.77100 1452 3173 3 chr2D.!!$F9 1721
12 TraesCS2A01G570000 chrUn 31552345 31553093 748 False 824.000000 824 86.80000 2896 3633 1 chrUn.!!$F2 737
13 TraesCS2A01G570000 chrUn 31526678 31531070 4392 True 662.000000 1650 88.97460 1024 3898 5 chrUn.!!$R1 2874

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
678 872 0.033504 TCCGGCTAGAATCAATCGGC 59.966 55.0 0.0 0.0 37.65 5.54 F
768 962 0.038166 CAGCTTAGGGCAGGAACCAA 59.962 55.0 0.0 0.0 44.79 3.67 F
770 964 0.038310 GCTTAGGGCAGGAACCAAGT 59.962 55.0 0.0 0.0 41.35 3.16 F
872 1066 0.099082 GAGTTAGTCCTGCTCGGTCG 59.901 60.0 0.0 0.0 0.00 4.79 F
1087 1323 0.965439 CCTGAGATGGGAGACGGATC 59.035 60.0 0.0 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2620 5248 0.095417 CGTCTCTTTTAAGCGCCAGC 59.905 55.000 2.29 0.00 45.58 4.85 R
2800 6355 2.497138 TCTGTCCTGCAAGACATGTTG 58.503 47.619 18.19 7.28 45.39 3.33 R
2856 6411 2.287188 ACACAAGCTCGCATTTTCAGTG 60.287 45.455 0.00 0.00 0.00 3.66 R
3097 6664 7.636359 CCAAATTTTATCTTTAGCTCGACTTCG 59.364 37.037 0.00 0.00 41.45 3.79 R
3822 7681 3.868369 GCACTAGATGTACCAAGCAACCA 60.868 47.826 0.00 0.00 0.00 3.67 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
74 75 4.469945 TCTTGGAGGGTGAAATCGAAGTAT 59.530 41.667 0.00 0.00 34.17 2.12
128 129 3.056250 GCAGTGAGTCCATCTTCTTCTGA 60.056 47.826 0.00 0.00 0.00 3.27
245 261 1.302033 CTCCAGCAAGTCTTGGCGT 60.302 57.895 14.40 0.00 34.54 5.68
282 340 6.101650 ACATGATATCGTTTATCAGCTCCA 57.898 37.500 0.00 0.00 37.37 3.86
381 483 2.508300 GGCTGGGAGTTGGGATACTTAA 59.492 50.000 0.00 0.00 0.00 1.85
426 595 9.095065 GCGGGGAACATTACTTATAATATACTG 57.905 37.037 0.00 0.00 29.44 2.74
530 724 2.786578 CGAGTAGGACTAGTACGTCGAC 59.213 54.545 17.76 5.18 34.75 4.20
532 726 2.423892 AGTAGGACTAGTACGTCGACGA 59.576 50.000 41.52 23.28 43.02 4.20
534 728 3.717400 AGGACTAGTACGTCGACGATA 57.283 47.619 41.52 27.19 43.02 2.92
536 730 5.378292 AGGACTAGTACGTCGACGATATA 57.622 43.478 41.52 26.56 43.02 0.86
563 757 3.756933 ACGACTAGGTTTGCCTGTAAA 57.243 42.857 0.00 0.00 46.47 2.01
567 761 4.319261 CGACTAGGTTTGCCTGTAAACAAC 60.319 45.833 11.92 0.00 46.47 3.32
581 775 1.563111 AACAACTGTACCGTGACGTG 58.437 50.000 3.64 0.00 0.00 4.49
677 871 2.135933 GTTCCGGCTAGAATCAATCGG 58.864 52.381 0.00 0.00 38.92 4.18
678 872 0.033504 TCCGGCTAGAATCAATCGGC 59.966 55.000 0.00 0.00 37.65 5.54
690 884 3.334583 TCAATCGGCTATATTGGAGGC 57.665 47.619 0.00 0.00 35.48 4.70
691 885 2.637382 TCAATCGGCTATATTGGAGGCA 59.363 45.455 0.00 0.00 39.38 4.75
692 886 3.072330 TCAATCGGCTATATTGGAGGCAA 59.928 43.478 0.00 0.00 39.38 4.52
693 887 2.839486 TCGGCTATATTGGAGGCAAG 57.161 50.000 0.00 0.00 39.38 4.01
694 888 1.160137 CGGCTATATTGGAGGCAAGC 58.840 55.000 0.00 0.00 39.38 4.01
695 889 1.271054 CGGCTATATTGGAGGCAAGCT 60.271 52.381 0.00 0.00 39.38 3.74
696 890 2.811873 CGGCTATATTGGAGGCAAGCTT 60.812 50.000 0.00 0.00 39.38 3.74
697 891 3.225940 GGCTATATTGGAGGCAAGCTTT 58.774 45.455 0.00 0.00 39.24 3.51
698 892 3.005155 GGCTATATTGGAGGCAAGCTTTG 59.995 47.826 0.00 0.00 39.24 2.77
699 893 3.633986 GCTATATTGGAGGCAAGCTTTGT 59.366 43.478 0.00 0.00 0.00 2.83
700 894 4.821805 GCTATATTGGAGGCAAGCTTTGTA 59.178 41.667 0.00 0.00 0.00 2.41
701 895 5.278022 GCTATATTGGAGGCAAGCTTTGTAC 60.278 44.000 0.00 0.00 0.00 2.90
702 896 1.616159 TTGGAGGCAAGCTTTGTACC 58.384 50.000 0.00 0.00 0.00 3.34
703 897 0.771127 TGGAGGCAAGCTTTGTACCT 59.229 50.000 0.00 0.93 0.00 3.08
704 898 1.168714 GGAGGCAAGCTTTGTACCTG 58.831 55.000 10.90 0.00 0.00 4.00
705 899 0.523519 GAGGCAAGCTTTGTACCTGC 59.476 55.000 10.90 4.01 0.00 4.85
706 900 0.178992 AGGCAAGCTTTGTACCTGCA 60.179 50.000 0.00 0.00 0.00 4.41
707 901 0.890683 GGCAAGCTTTGTACCTGCAT 59.109 50.000 0.00 0.00 0.00 3.96
708 902 2.091541 GGCAAGCTTTGTACCTGCATA 58.908 47.619 0.00 0.00 0.00 3.14
709 903 2.689983 GGCAAGCTTTGTACCTGCATAT 59.310 45.455 0.00 0.00 0.00 1.78
710 904 3.243201 GGCAAGCTTTGTACCTGCATATC 60.243 47.826 0.00 0.00 0.00 1.63
711 905 3.546815 GCAAGCTTTGTACCTGCATATCG 60.547 47.826 0.00 0.00 0.00 2.92
712 906 2.213499 AGCTTTGTACCTGCATATCGC 58.787 47.619 0.00 0.00 42.89 4.58
721 915 3.862124 GCATATCGCAGGCTACGG 58.138 61.111 7.37 0.00 41.79 4.02
722 916 1.006102 GCATATCGCAGGCTACGGT 60.006 57.895 7.37 2.00 41.79 4.83
723 917 1.284982 GCATATCGCAGGCTACGGTG 61.285 60.000 7.37 5.63 41.79 4.94
724 918 1.006102 ATATCGCAGGCTACGGTGC 60.006 57.895 7.37 0.00 36.27 5.01
725 919 1.464376 ATATCGCAGGCTACGGTGCT 61.464 55.000 7.37 0.00 37.55 4.40
726 920 0.820482 TATCGCAGGCTACGGTGCTA 60.820 55.000 7.37 0.00 37.55 3.49
727 921 1.672854 ATCGCAGGCTACGGTGCTAA 61.673 55.000 7.37 0.00 37.55 3.09
728 922 1.447140 CGCAGGCTACGGTGCTAAA 60.447 57.895 0.00 0.00 37.55 1.85
729 923 1.017177 CGCAGGCTACGGTGCTAAAA 61.017 55.000 0.00 0.00 37.55 1.52
730 924 1.161843 GCAGGCTACGGTGCTAAAAA 58.838 50.000 0.00 0.00 36.71 1.94
750 944 2.272923 TCGAAGGTCAATCGAGCCA 58.727 52.632 0.00 0.00 43.76 4.75
751 945 0.173481 TCGAAGGTCAATCGAGCCAG 59.827 55.000 0.00 0.00 43.76 4.85
752 946 1.424493 CGAAGGTCAATCGAGCCAGC 61.424 60.000 0.00 0.00 42.76 4.85
753 947 0.107945 GAAGGTCAATCGAGCCAGCT 60.108 55.000 0.00 0.00 40.69 4.24
754 948 0.326264 AAGGTCAATCGAGCCAGCTT 59.674 50.000 0.00 0.00 40.69 3.74
755 949 1.195115 AGGTCAATCGAGCCAGCTTA 58.805 50.000 0.00 0.00 40.69 3.09
756 950 1.137872 AGGTCAATCGAGCCAGCTTAG 59.862 52.381 0.00 0.00 40.69 2.18
757 951 1.576356 GTCAATCGAGCCAGCTTAGG 58.424 55.000 0.00 0.00 0.00 2.69
758 952 0.465705 TCAATCGAGCCAGCTTAGGG 59.534 55.000 0.00 0.00 0.00 3.53
766 960 4.645809 CAGCTTAGGGCAGGAACC 57.354 61.111 0.00 0.00 44.79 3.62
767 961 1.685224 CAGCTTAGGGCAGGAACCA 59.315 57.895 0.00 0.00 44.79 3.67
768 962 0.038166 CAGCTTAGGGCAGGAACCAA 59.962 55.000 0.00 0.00 44.79 3.67
769 963 0.329596 AGCTTAGGGCAGGAACCAAG 59.670 55.000 0.00 0.00 44.79 3.61
770 964 0.038310 GCTTAGGGCAGGAACCAAGT 59.962 55.000 0.00 0.00 41.35 3.16
771 965 1.950954 GCTTAGGGCAGGAACCAAGTC 60.951 57.143 0.00 0.00 41.35 3.01
772 966 0.323629 TTAGGGCAGGAACCAAGTCG 59.676 55.000 0.00 0.00 0.00 4.18
773 967 0.543410 TAGGGCAGGAACCAAGTCGA 60.543 55.000 0.00 0.00 0.00 4.20
774 968 1.201429 AGGGCAGGAACCAAGTCGAT 61.201 55.000 0.00 0.00 0.00 3.59
775 969 0.539986 GGGCAGGAACCAAGTCGATA 59.460 55.000 0.00 0.00 0.00 2.92
776 970 1.473434 GGGCAGGAACCAAGTCGATAG 60.473 57.143 0.00 0.00 0.00 2.08
793 987 2.180518 GAGCGAGCTCTGCTTCGT 59.819 61.111 26.17 10.80 44.18 3.85
794 988 1.871789 GAGCGAGCTCTGCTTCGTC 60.872 63.158 26.17 14.64 44.18 4.20
795 989 3.243892 GCGAGCTCTGCTTCGTCG 61.244 66.667 19.01 3.00 39.88 5.12
796 990 2.177038 CGAGCTCTGCTTCGTCGT 59.823 61.111 12.85 0.00 39.88 4.34
797 991 2.148982 CGAGCTCTGCTTCGTCGTG 61.149 63.158 12.85 0.00 39.88 4.35
798 992 1.803519 GAGCTCTGCTTCGTCGTGG 60.804 63.158 6.43 0.00 39.88 4.94
799 993 2.201436 GAGCTCTGCTTCGTCGTGGA 62.201 60.000 6.43 0.00 39.88 4.02
800 994 2.089349 GCTCTGCTTCGTCGTGGAC 61.089 63.158 0.00 0.00 0.00 4.02
801 995 1.581954 CTCTGCTTCGTCGTGGACT 59.418 57.895 0.00 0.00 0.00 3.85
802 996 0.455295 CTCTGCTTCGTCGTGGACTC 60.455 60.000 0.00 0.00 0.00 3.36
803 997 1.797933 CTGCTTCGTCGTGGACTCG 60.798 63.158 0.00 0.00 0.00 4.18
804 998 2.254651 GCTTCGTCGTGGACTCGT 59.745 61.111 0.00 0.00 0.00 4.18
805 999 2.081212 GCTTCGTCGTGGACTCGTG 61.081 63.158 0.00 0.00 0.00 4.35
806 1000 1.442184 CTTCGTCGTGGACTCGTGG 60.442 63.158 0.00 0.00 0.00 4.94
807 1001 2.126417 CTTCGTCGTGGACTCGTGGT 62.126 60.000 0.00 0.00 0.00 4.16
808 1002 2.396747 TTCGTCGTGGACTCGTGGTG 62.397 60.000 0.00 0.00 0.00 4.17
809 1003 2.733593 GTCGTGGACTCGTGGTGC 60.734 66.667 0.00 0.00 36.78 5.01
810 1004 3.986006 TCGTGGACTCGTGGTGCC 61.986 66.667 1.46 0.00 35.29 5.01
830 1024 3.889227 CCGTTCATCGTGGCATGT 58.111 55.556 6.60 0.00 37.94 3.21
831 1025 1.715585 CCGTTCATCGTGGCATGTC 59.284 57.895 6.60 0.00 37.94 3.06
832 1026 1.018752 CCGTTCATCGTGGCATGTCA 61.019 55.000 6.60 0.00 37.94 3.58
833 1027 1.009078 CGTTCATCGTGGCATGTCAT 58.991 50.000 1.89 0.00 34.52 3.06
834 1028 1.004610 CGTTCATCGTGGCATGTCATC 60.005 52.381 1.89 0.00 34.52 2.92
835 1029 2.009051 GTTCATCGTGGCATGTCATCA 58.991 47.619 1.89 0.00 0.00 3.07
836 1030 2.615447 GTTCATCGTGGCATGTCATCAT 59.385 45.455 1.89 0.00 34.21 2.45
837 1031 2.486918 TCATCGTGGCATGTCATCATC 58.513 47.619 1.89 0.00 31.15 2.92
838 1032 1.193874 CATCGTGGCATGTCATCATCG 59.806 52.381 1.89 1.91 31.15 3.84
839 1033 1.153597 TCGTGGCATGTCATCATCGC 61.154 55.000 1.89 0.00 31.15 4.58
840 1034 1.650912 GTGGCATGTCATCATCGCC 59.349 57.895 1.89 5.19 42.67 5.54
841 1035 1.096967 GTGGCATGTCATCATCGCCA 61.097 55.000 1.89 9.88 45.87 5.69
842 1036 0.816421 TGGCATGTCATCATCGCCAG 60.816 55.000 9.88 0.00 44.66 4.85
843 1037 0.816825 GGCATGTCATCATCGCCAGT 60.817 55.000 6.96 0.00 42.31 4.00
844 1038 1.541015 GGCATGTCATCATCGCCAGTA 60.541 52.381 6.96 0.00 42.31 2.74
845 1039 2.212652 GCATGTCATCATCGCCAGTAA 58.787 47.619 0.00 0.00 31.15 2.24
846 1040 2.222678 GCATGTCATCATCGCCAGTAAG 59.777 50.000 0.00 0.00 31.15 2.34
847 1041 3.461061 CATGTCATCATCGCCAGTAAGT 58.539 45.455 0.00 0.00 31.15 2.24
848 1042 4.620982 CATGTCATCATCGCCAGTAAGTA 58.379 43.478 0.00 0.00 31.15 2.24
849 1043 4.041740 TGTCATCATCGCCAGTAAGTAC 57.958 45.455 0.00 0.00 0.00 2.73
850 1044 3.699538 TGTCATCATCGCCAGTAAGTACT 59.300 43.478 0.00 0.00 36.90 2.73
851 1045 7.710161 CATGTCATCATCGCCAGTAAGTACTG 61.710 46.154 10.91 10.91 41.50 2.74
863 1057 5.533333 AGTAAGTACTGGGAGTTAGTCCT 57.467 43.478 6.02 0.00 46.06 3.85
864 1058 5.262804 AGTAAGTACTGGGAGTTAGTCCTG 58.737 45.833 6.02 2.53 46.06 3.86
866 1060 2.043252 AGTACTGGGAGTTAGTCCTGCT 59.957 50.000 6.02 0.00 46.06 4.24
872 1066 0.099082 GAGTTAGTCCTGCTCGGTCG 59.901 60.000 0.00 0.00 0.00 4.79
873 1067 1.516603 GTTAGTCCTGCTCGGTCGC 60.517 63.158 0.00 0.00 0.00 5.19
890 1084 2.743928 CCGTCCTCTGCTTGCACC 60.744 66.667 0.00 0.00 0.00 5.01
935 1150 2.551644 GGTTGAAACCTGGTAGGCG 58.448 57.895 0.00 0.00 45.75 5.52
936 1151 1.583495 GGTTGAAACCTGGTAGGCGC 61.583 60.000 0.00 0.00 45.75 6.53
937 1152 1.669760 TTGAAACCTGGTAGGCGCG 60.670 57.895 0.00 0.00 39.63 6.86
938 1153 3.497031 GAAACCTGGTAGGCGCGC 61.497 66.667 25.94 25.94 39.63 6.86
998 1234 2.642700 CGGGGACAAAAAGGTGCG 59.357 61.111 0.00 0.00 0.00 5.34
1074 1310 1.464734 GTCACCGTGAGATCCTGAGA 58.535 55.000 0.08 0.00 0.00 3.27
1083 1319 1.885887 GAGATCCTGAGATGGGAGACG 59.114 57.143 0.00 0.00 36.21 4.18
1087 1323 0.965439 CCTGAGATGGGAGACGGATC 59.035 60.000 0.00 0.00 0.00 3.36
1097 1333 2.286365 GAGACGGATCTCCTGAGGAT 57.714 55.000 0.00 0.00 45.06 3.24
1098 1334 1.885887 GAGACGGATCTCCTGAGGATG 59.114 57.143 0.00 0.00 45.06 3.51
1128 1364 2.355126 CGGGATCTGGCGACGATG 60.355 66.667 0.00 0.00 0.00 3.84
1159 1395 2.772287 AGGCTTATCTAAAGCGCCATC 58.228 47.619 2.29 0.00 43.89 3.51
1203 1439 4.405680 TCAATATCACCTCAGTTGGTCGAT 59.594 41.667 0.00 0.00 38.45 3.59
1270 1506 3.307762 GCCCTACCTGGTGGATAATCATC 60.308 52.174 12.27 0.00 37.04 2.92
1275 1511 5.715439 ACCTGGTGGATAATCATCAAGAA 57.285 39.130 0.00 0.00 37.04 2.52
1326 1564 1.149101 AATTGGCCTACCGGATCCAT 58.851 50.000 9.46 1.11 39.70 3.41
1612 1850 2.561478 AGTCCGCTTTGCTCCTTTTA 57.439 45.000 0.00 0.00 0.00 1.52
1613 1851 3.073274 AGTCCGCTTTGCTCCTTTTAT 57.927 42.857 0.00 0.00 0.00 1.40
1614 1852 4.216411 AGTCCGCTTTGCTCCTTTTATA 57.784 40.909 0.00 0.00 0.00 0.98
1615 1853 3.939592 AGTCCGCTTTGCTCCTTTTATAC 59.060 43.478 0.00 0.00 0.00 1.47
1616 1854 3.064958 GTCCGCTTTGCTCCTTTTATACC 59.935 47.826 0.00 0.00 0.00 2.73
1617 1855 3.013921 CCGCTTTGCTCCTTTTATACCA 58.986 45.455 0.00 0.00 0.00 3.25
1618 1856 3.181500 CCGCTTTGCTCCTTTTATACCAC 60.181 47.826 0.00 0.00 0.00 4.16
1619 1857 3.689649 CGCTTTGCTCCTTTTATACCACT 59.310 43.478 0.00 0.00 0.00 4.00
1620 1858 4.201822 CGCTTTGCTCCTTTTATACCACTC 60.202 45.833 0.00 0.00 0.00 3.51
1621 1859 4.096532 GCTTTGCTCCTTTTATACCACTCC 59.903 45.833 0.00 0.00 0.00 3.85
1622 1860 4.919774 TTGCTCCTTTTATACCACTCCA 57.080 40.909 0.00 0.00 0.00 3.86
1623 1861 5.450818 TTGCTCCTTTTATACCACTCCAT 57.549 39.130 0.00 0.00 0.00 3.41
1624 1862 5.036117 TGCTCCTTTTATACCACTCCATC 57.964 43.478 0.00 0.00 0.00 3.51
1625 1863 4.721776 TGCTCCTTTTATACCACTCCATCT 59.278 41.667 0.00 0.00 0.00 2.90
1626 1864 5.059833 GCTCCTTTTATACCACTCCATCTG 58.940 45.833 0.00 0.00 0.00 2.90
1627 1865 5.396884 GCTCCTTTTATACCACTCCATCTGT 60.397 44.000 0.00 0.00 0.00 3.41
1628 1866 6.636454 TCCTTTTATACCACTCCATCTGTT 57.364 37.500 0.00 0.00 0.00 3.16
1629 1867 6.650120 TCCTTTTATACCACTCCATCTGTTC 58.350 40.000 0.00 0.00 0.00 3.18
1630 1868 5.823045 CCTTTTATACCACTCCATCTGTTCC 59.177 44.000 0.00 0.00 0.00 3.62
1631 1869 6.353082 CCTTTTATACCACTCCATCTGTTCCT 60.353 42.308 0.00 0.00 0.00 3.36
1632 1870 7.147549 CCTTTTATACCACTCCATCTGTTCCTA 60.148 40.741 0.00 0.00 0.00 2.94
1633 1871 7.743116 TTTATACCACTCCATCTGTTCCTAA 57.257 36.000 0.00 0.00 0.00 2.69
1634 1872 5.878406 ATACCACTCCATCTGTTCCTAAG 57.122 43.478 0.00 0.00 0.00 2.18
1635 1873 3.521727 ACCACTCCATCTGTTCCTAAGT 58.478 45.455 0.00 0.00 0.00 2.24
1636 1874 4.684724 ACCACTCCATCTGTTCCTAAGTA 58.315 43.478 0.00 0.00 0.00 2.24
1637 1875 5.281314 ACCACTCCATCTGTTCCTAAGTAT 58.719 41.667 0.00 0.00 0.00 2.12
1638 1876 6.441222 ACCACTCCATCTGTTCCTAAGTATA 58.559 40.000 0.00 0.00 0.00 1.47
1639 1877 6.901300 ACCACTCCATCTGTTCCTAAGTATAA 59.099 38.462 0.00 0.00 0.00 0.98
1640 1878 7.402071 ACCACTCCATCTGTTCCTAAGTATAAA 59.598 37.037 0.00 0.00 0.00 1.40
1641 1879 8.265055 CCACTCCATCTGTTCCTAAGTATAAAA 58.735 37.037 0.00 0.00 0.00 1.52
1642 1880 9.099454 CACTCCATCTGTTCCTAAGTATAAAAC 57.901 37.037 0.00 0.00 0.00 2.43
1643 1881 9.047947 ACTCCATCTGTTCCTAAGTATAAAACT 57.952 33.333 0.00 0.00 41.49 2.66
1783 2057 4.779993 AGGAATGGAGGGAGTATTGTTC 57.220 45.455 0.00 0.00 0.00 3.18
1785 2059 4.164988 AGGAATGGAGGGAGTATTGTTCAG 59.835 45.833 0.00 0.00 0.00 3.02
1816 2090 2.161855 TGTCCCAATCAGTGCAATCAC 58.838 47.619 0.00 0.00 43.44 3.06
1939 2215 3.638860 CCACACTGTCCCCTATGTACTA 58.361 50.000 0.00 0.00 0.00 1.82
2030 2306 8.796475 TCCTTCAAAATCTTTGACCTAAATGAG 58.204 33.333 1.37 0.00 0.00 2.90
2430 3708 3.354948 CCTTCAGGTGATTGTCCATGA 57.645 47.619 0.00 0.00 0.00 3.07
2651 5292 2.223803 AAGAGACGTCCAGGACAGAT 57.776 50.000 20.13 4.00 32.09 2.90
2800 6355 3.883489 AGTTTGGCTAACTTTCCTGTGTC 59.117 43.478 8.55 0.00 44.73 3.67
3000 6561 6.781138 TCATTATATGTTTGTCCGTTTCAGC 58.219 36.000 0.00 0.00 0.00 4.26
3097 6664 1.527311 GCTGACGAACCTGTTGACTTC 59.473 52.381 0.00 0.00 0.00 3.01
3139 6706 3.423539 TTTGGAACAGATCAGTCCCAG 57.576 47.619 0.00 0.00 42.39 4.45
3836 7695 6.546403 TGTTATACTTTTGGTTGCTTGGTACA 59.454 34.615 0.00 0.00 0.00 2.90
4007 7867 1.263356 TTTAGAGGGTCCAGTGTCGG 58.737 55.000 0.00 0.00 0.00 4.79
4140 8001 3.120792 CCACGGACACGGTTATTCTATG 58.879 50.000 0.00 0.00 46.48 2.23
4170 8033 8.600625 CAAGCAGCTCGTACATAACTTATTTTA 58.399 33.333 0.00 0.00 0.00 1.52
4241 8862 5.306160 CCTCTAACCGATCCCCAATAAACTA 59.694 44.000 0.00 0.00 0.00 2.24
4270 8891 6.388814 AGGAGGATAAATCTGATTCTCCTCA 58.611 40.000 34.46 12.26 44.22 3.86
4320 8941 7.378728 CCAAAAACCATTAGTCGAGAAAAACTC 59.621 37.037 0.00 0.00 41.79 3.01
4359 8980 6.746120 ACGTGACTCTTAAATACACTTGACT 58.254 36.000 0.00 0.00 0.00 3.41
4414 9036 3.322466 CCTCACCTTCCACCGCCT 61.322 66.667 0.00 0.00 0.00 5.52
4580 9210 4.414956 ATCCCCGGTCTCCTGCCA 62.415 66.667 0.00 0.00 0.00 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 8.290325 AGGACTTGAAAAATACTTCGATTTCAC 58.710 33.333 8.68 0.17 40.40 3.18
74 75 3.685756 ACGACGACAAAGGACTTGAAAAA 59.314 39.130 0.00 0.00 38.50 1.94
128 129 2.267961 GAGAACCCATCGCCCGTT 59.732 61.111 0.00 0.00 0.00 4.44
282 340 3.245948 GGTAGGGAGATGGAGATGGAGAT 60.246 52.174 0.00 0.00 0.00 2.75
563 757 0.740149 TCACGTCACGGTACAGTTGT 59.260 50.000 0.35 0.00 0.00 3.32
567 761 8.564648 TTTTTATATATCACGTCACGGTACAG 57.435 34.615 0.35 0.00 0.00 2.74
616 810 1.148273 GCCGGTGGATTGATAGCCA 59.852 57.895 1.90 0.00 37.54 4.75
630 824 3.722295 ACGCACACAAATCGCCGG 61.722 61.111 0.00 0.00 0.00 6.13
677 871 3.633986 ACAAAGCTTGCCTCCAATATAGC 59.366 43.478 0.00 0.00 0.00 2.97
678 872 5.239525 GGTACAAAGCTTGCCTCCAATATAG 59.760 44.000 0.00 0.00 0.00 1.31
690 884 3.546815 GCGATATGCAGGTACAAAGCTTG 60.547 47.826 0.00 0.00 45.45 4.01
691 885 2.614057 GCGATATGCAGGTACAAAGCTT 59.386 45.455 0.00 0.00 45.45 3.74
692 886 2.213499 GCGATATGCAGGTACAAAGCT 58.787 47.619 0.00 0.00 45.45 3.74
693 887 2.670401 GCGATATGCAGGTACAAAGC 57.330 50.000 0.00 0.00 45.45 3.51
704 898 1.006102 ACCGTAGCCTGCGATATGC 60.006 57.895 3.01 0.00 46.70 3.14
705 899 1.284982 GCACCGTAGCCTGCGATATG 61.285 60.000 3.01 0.31 0.00 1.78
706 900 1.006102 GCACCGTAGCCTGCGATAT 60.006 57.895 3.01 0.00 0.00 1.63
707 901 0.820482 TAGCACCGTAGCCTGCGATA 60.820 55.000 3.01 0.00 38.51 2.92
708 902 1.672854 TTAGCACCGTAGCCTGCGAT 61.673 55.000 3.01 0.00 38.51 4.58
709 903 1.879737 TTTAGCACCGTAGCCTGCGA 61.880 55.000 3.01 0.00 38.51 5.10
710 904 1.017177 TTTTAGCACCGTAGCCTGCG 61.017 55.000 0.00 0.00 38.51 5.18
711 905 1.161843 TTTTTAGCACCGTAGCCTGC 58.838 50.000 0.00 0.00 34.23 4.85
727 921 3.127030 GGCTCGATTGACCTTCGATTTTT 59.873 43.478 0.00 0.00 43.93 1.94
728 922 2.678336 GGCTCGATTGACCTTCGATTTT 59.322 45.455 0.00 0.00 43.93 1.82
729 923 2.280628 GGCTCGATTGACCTTCGATTT 58.719 47.619 0.00 0.00 43.93 2.17
730 924 1.207089 TGGCTCGATTGACCTTCGATT 59.793 47.619 0.00 0.00 43.93 3.34
731 925 0.824109 TGGCTCGATTGACCTTCGAT 59.176 50.000 0.00 0.00 43.93 3.59
732 926 0.173481 CTGGCTCGATTGACCTTCGA 59.827 55.000 0.00 0.00 42.87 3.71
733 927 1.424493 GCTGGCTCGATTGACCTTCG 61.424 60.000 0.00 0.00 37.94 3.79
734 928 0.107945 AGCTGGCTCGATTGACCTTC 60.108 55.000 0.00 0.00 0.00 3.46
735 929 0.326264 AAGCTGGCTCGATTGACCTT 59.674 50.000 0.00 0.00 0.00 3.50
736 930 1.137872 CTAAGCTGGCTCGATTGACCT 59.862 52.381 0.00 0.00 0.00 3.85
737 931 1.576356 CTAAGCTGGCTCGATTGACC 58.424 55.000 0.00 0.00 0.00 4.02
738 932 1.576356 CCTAAGCTGGCTCGATTGAC 58.424 55.000 0.00 0.00 0.00 3.18
739 933 0.465705 CCCTAAGCTGGCTCGATTGA 59.534 55.000 0.00 0.00 0.00 2.57
740 934 1.162800 GCCCTAAGCTGGCTCGATTG 61.163 60.000 6.31 0.00 45.70 2.67
741 935 1.147153 GCCCTAAGCTGGCTCGATT 59.853 57.895 6.31 0.00 45.70 3.34
742 936 2.825264 GCCCTAAGCTGGCTCGAT 59.175 61.111 6.31 0.00 45.70 3.59
749 943 0.038166 TTGGTTCCTGCCCTAAGCTG 59.962 55.000 0.00 0.00 44.23 4.24
750 944 0.329596 CTTGGTTCCTGCCCTAAGCT 59.670 55.000 0.00 0.00 44.23 3.74
751 945 0.038310 ACTTGGTTCCTGCCCTAAGC 59.962 55.000 0.00 0.00 44.14 3.09
752 946 1.676014 CGACTTGGTTCCTGCCCTAAG 60.676 57.143 0.00 0.00 0.00 2.18
753 947 0.323629 CGACTTGGTTCCTGCCCTAA 59.676 55.000 0.00 0.00 0.00 2.69
754 948 0.543410 TCGACTTGGTTCCTGCCCTA 60.543 55.000 0.00 0.00 0.00 3.53
755 949 1.201429 ATCGACTTGGTTCCTGCCCT 61.201 55.000 0.00 0.00 0.00 5.19
756 950 0.539986 TATCGACTTGGTTCCTGCCC 59.460 55.000 0.00 0.00 0.00 5.36
757 951 1.480954 TCTATCGACTTGGTTCCTGCC 59.519 52.381 0.00 0.00 0.00 4.85
758 952 2.815478 CTCTATCGACTTGGTTCCTGC 58.185 52.381 0.00 0.00 0.00 4.85
759 953 2.796383 CGCTCTATCGACTTGGTTCCTG 60.796 54.545 0.00 0.00 0.00 3.86
760 954 1.405821 CGCTCTATCGACTTGGTTCCT 59.594 52.381 0.00 0.00 0.00 3.36
761 955 1.404391 TCGCTCTATCGACTTGGTTCC 59.596 52.381 0.00 0.00 33.02 3.62
762 956 2.722071 CTCGCTCTATCGACTTGGTTC 58.278 52.381 0.00 0.00 34.46 3.62
763 957 1.202313 GCTCGCTCTATCGACTTGGTT 60.202 52.381 0.00 0.00 34.46 3.67
764 958 0.382515 GCTCGCTCTATCGACTTGGT 59.617 55.000 0.00 0.00 34.46 3.67
765 959 0.665835 AGCTCGCTCTATCGACTTGG 59.334 55.000 0.00 0.00 34.46 3.61
766 960 2.031037 GAGCTCGCTCTATCGACTTG 57.969 55.000 11.49 0.00 39.80 3.16
776 970 1.871789 GACGAAGCAGAGCTCGCTC 60.872 63.158 25.80 19.15 38.25 5.03
777 971 2.180518 GACGAAGCAGAGCTCGCT 59.819 61.111 21.97 21.97 38.25 4.93
778 972 3.243892 CGACGAAGCAGAGCTCGC 61.244 66.667 18.76 18.76 38.25 5.03
779 973 2.148982 CACGACGAAGCAGAGCTCG 61.149 63.158 8.37 4.60 38.25 5.03
780 974 1.803519 CCACGACGAAGCAGAGCTC 60.804 63.158 5.27 5.27 38.25 4.09
781 975 2.259818 CCACGACGAAGCAGAGCT 59.740 61.111 0.00 0.00 42.56 4.09
782 976 2.089349 GTCCACGACGAAGCAGAGC 61.089 63.158 0.00 0.00 0.00 4.09
783 977 0.455295 GAGTCCACGACGAAGCAGAG 60.455 60.000 0.00 0.00 37.67 3.35
784 978 1.579932 GAGTCCACGACGAAGCAGA 59.420 57.895 0.00 0.00 37.67 4.26
785 979 1.797933 CGAGTCCACGACGAAGCAG 60.798 63.158 0.00 0.00 37.67 4.24
786 980 2.254350 CGAGTCCACGACGAAGCA 59.746 61.111 0.00 0.00 37.67 3.91
787 981 2.081212 CACGAGTCCACGACGAAGC 61.081 63.158 0.00 0.00 37.67 3.86
788 982 1.442184 CCACGAGTCCACGACGAAG 60.442 63.158 0.00 0.00 37.67 3.79
789 983 2.188829 ACCACGAGTCCACGACGAA 61.189 57.895 0.00 0.00 37.67 3.85
790 984 2.592574 ACCACGAGTCCACGACGA 60.593 61.111 0.00 0.00 37.67 4.20
791 985 2.428569 CACCACGAGTCCACGACG 60.429 66.667 0.00 0.00 37.67 5.12
792 986 2.733593 GCACCACGAGTCCACGAC 60.734 66.667 0.00 0.00 37.03 4.34
793 987 3.986006 GGCACCACGAGTCCACGA 61.986 66.667 0.00 0.00 37.03 4.35
814 1008 4.835304 ATGATGACATGCCACGATGAACG 61.835 47.826 0.00 0.00 40.54 3.95
815 1009 2.009051 TGATGACATGCCACGATGAAC 58.991 47.619 0.00 0.00 0.00 3.18
816 1010 2.399916 TGATGACATGCCACGATGAA 57.600 45.000 0.00 0.00 0.00 2.57
817 1011 2.486918 GATGATGACATGCCACGATGA 58.513 47.619 0.00 0.00 36.82 2.92
818 1012 1.193874 CGATGATGACATGCCACGATG 59.806 52.381 0.00 0.00 36.82 3.84
819 1013 1.505425 CGATGATGACATGCCACGAT 58.495 50.000 0.00 0.00 36.82 3.73
820 1014 1.153597 GCGATGATGACATGCCACGA 61.154 55.000 0.00 0.00 36.82 4.35
821 1015 1.277739 GCGATGATGACATGCCACG 59.722 57.895 0.00 0.00 36.82 4.94
822 1016 1.096967 TGGCGATGATGACATGCCAC 61.097 55.000 12.02 0.00 45.71 5.01
823 1017 0.816421 CTGGCGATGATGACATGCCA 60.816 55.000 14.56 14.56 46.92 4.92
824 1018 0.816825 ACTGGCGATGATGACATGCC 60.817 55.000 7.42 7.42 43.76 4.40
825 1019 1.869774 TACTGGCGATGATGACATGC 58.130 50.000 0.00 0.00 36.82 4.06
826 1020 3.461061 ACTTACTGGCGATGATGACATG 58.539 45.455 0.00 0.00 36.82 3.21
827 1021 3.827008 ACTTACTGGCGATGATGACAT 57.173 42.857 0.00 0.00 39.67 3.06
828 1022 3.699538 AGTACTTACTGGCGATGATGACA 59.300 43.478 0.00 0.00 34.72 3.58
829 1023 4.308899 AGTACTTACTGGCGATGATGAC 57.691 45.455 0.00 0.00 34.72 3.06
841 1035 5.262804 CAGGACTAACTCCCAGTACTTACT 58.737 45.833 0.00 0.00 40.53 2.24
842 1036 4.142204 GCAGGACTAACTCCCAGTACTTAC 60.142 50.000 0.00 0.00 40.53 2.34
843 1037 4.021916 GCAGGACTAACTCCCAGTACTTA 58.978 47.826 0.00 0.00 40.53 2.24
844 1038 2.832733 GCAGGACTAACTCCCAGTACTT 59.167 50.000 0.00 0.00 40.53 2.24
845 1039 2.043252 AGCAGGACTAACTCCCAGTACT 59.957 50.000 0.00 0.00 40.53 2.73
846 1040 2.427812 GAGCAGGACTAACTCCCAGTAC 59.572 54.545 0.00 0.00 40.53 2.73
847 1041 2.736347 GAGCAGGACTAACTCCCAGTA 58.264 52.381 0.00 0.00 40.53 2.74
848 1042 1.562783 GAGCAGGACTAACTCCCAGT 58.437 55.000 0.00 0.00 40.53 4.00
849 1043 0.457851 CGAGCAGGACTAACTCCCAG 59.542 60.000 0.00 0.00 40.53 4.45
850 1044 0.970937 CCGAGCAGGACTAACTCCCA 60.971 60.000 0.00 0.00 45.00 4.37
851 1045 0.971447 ACCGAGCAGGACTAACTCCC 60.971 60.000 5.19 0.00 45.00 4.30
852 1046 0.456628 GACCGAGCAGGACTAACTCC 59.543 60.000 5.19 0.00 45.00 3.85
853 1047 0.099082 CGACCGAGCAGGACTAACTC 59.901 60.000 5.19 0.00 45.00 3.01
854 1048 1.935327 GCGACCGAGCAGGACTAACT 61.935 60.000 5.19 0.00 45.00 2.24
855 1049 1.516603 GCGACCGAGCAGGACTAAC 60.517 63.158 5.19 0.00 45.00 2.34
856 1050 2.707849 GGCGACCGAGCAGGACTAA 61.708 63.158 5.19 0.00 45.00 2.24
857 1051 3.138798 GGCGACCGAGCAGGACTA 61.139 66.667 5.19 0.00 45.00 2.59
872 1066 3.426568 GTGCAAGCAGAGGACGGC 61.427 66.667 0.00 0.00 37.48 5.68
873 1067 2.743928 GGTGCAAGCAGAGGACGG 60.744 66.667 0.00 0.00 0.00 4.79
894 1088 0.179062 ATGATTGCACCTCGCCTCTC 60.179 55.000 0.00 0.00 41.33 3.20
899 1093 0.379669 CCAAGATGATTGCACCTCGC 59.620 55.000 0.00 0.00 42.89 5.03
934 1149 0.806884 TTGGGAATAACCTACGCGCG 60.807 55.000 30.96 30.96 38.98 6.86
935 1150 1.371595 TTTGGGAATAACCTACGCGC 58.628 50.000 5.73 0.00 38.98 6.86
988 1224 1.613437 CTTGTCCATCCGCACCTTTTT 59.387 47.619 0.00 0.00 0.00 1.94
998 1234 0.106894 GATCGACCCCTTGTCCATCC 59.893 60.000 0.00 0.00 41.18 3.51
1089 1325 1.339610 GACGTGATCTCCATCCTCAGG 59.660 57.143 0.00 0.00 0.00 3.86
1128 1364 3.545366 AGATAAGCCTTCTTTCCGGTC 57.455 47.619 0.00 0.00 33.85 4.79
1166 1402 3.055602 TGATATTGATCTCCCATCGCTGG 60.056 47.826 0.00 0.00 36.28 4.85
1167 1403 3.931468 GTGATATTGATCTCCCATCGCTG 59.069 47.826 0.00 0.00 32.79 5.18
1203 1439 0.178906 TCCTGTGGAGGGACATGTGA 60.179 55.000 1.15 0.00 40.25 3.58
1270 1506 0.255318 AGCAGATCCAGGGCTTCTTG 59.745 55.000 0.00 0.00 33.21 3.02
1275 1511 1.913722 CAAGAGCAGATCCAGGGCT 59.086 57.895 0.00 0.00 41.35 5.19
1326 1564 4.999950 GCACTGAATTCTTTCCTCAGAGAA 59.000 41.667 7.05 0.00 39.15 2.87
1612 1850 5.281314 ACTTAGGAACAGATGGAGTGGTAT 58.719 41.667 0.00 0.00 0.00 2.73
1613 1851 4.684724 ACTTAGGAACAGATGGAGTGGTA 58.315 43.478 0.00 0.00 0.00 3.25
1614 1852 3.521727 ACTTAGGAACAGATGGAGTGGT 58.478 45.455 0.00 0.00 0.00 4.16
1615 1853 5.878406 ATACTTAGGAACAGATGGAGTGG 57.122 43.478 0.00 0.00 0.00 4.00
1616 1854 9.099454 GTTTTATACTTAGGAACAGATGGAGTG 57.901 37.037 0.00 0.00 0.00 3.51
1617 1855 9.047947 AGTTTTATACTTAGGAACAGATGGAGT 57.952 33.333 0.00 0.00 31.29 3.85
1618 1856 9.892130 AAGTTTTATACTTAGGAACAGATGGAG 57.108 33.333 0.00 0.00 45.22 3.86
1668 1941 7.625395 GCACATTCACTCATTTTGTTCCGTATA 60.625 37.037 0.00 0.00 0.00 1.47
1783 2057 7.011763 CACTGATTGGGACATGTAGATTAACTG 59.988 40.741 0.00 0.00 39.30 3.16
1785 2059 6.238484 GCACTGATTGGGACATGTAGATTAAC 60.238 42.308 0.00 0.00 39.30 2.01
1816 2090 1.856597 GAAGCAAAGCAGCAAGTGTTG 59.143 47.619 0.00 0.00 36.85 3.33
2030 2306 2.262423 AGAGTGGCCACTTCAAGTTC 57.738 50.000 37.98 23.40 42.66 3.01
2370 3648 5.101529 AGGAGGAAGGAAGGAAATCTGTTA 58.898 41.667 0.00 0.00 0.00 2.41
2430 3708 6.971726 ATTGTCTGCATCCATATGAATGTT 57.028 33.333 3.65 0.00 34.84 2.71
2620 5248 0.095417 CGTCTCTTTTAAGCGCCAGC 59.905 55.000 2.29 0.00 45.58 4.85
2800 6355 2.497138 TCTGTCCTGCAAGACATGTTG 58.503 47.619 18.19 7.28 45.39 3.33
2856 6411 2.287188 ACACAAGCTCGCATTTTCAGTG 60.287 45.455 0.00 0.00 0.00 3.66
3097 6664 7.636359 CCAAATTTTATCTTTAGCTCGACTTCG 59.364 37.037 0.00 0.00 41.45 3.79
3822 7681 3.868369 GCACTAGATGTACCAAGCAACCA 60.868 47.826 0.00 0.00 0.00 3.67
3836 7695 6.322201 CAGGTGGGAAATTAAATGCACTAGAT 59.678 38.462 0.00 0.00 0.00 1.98
3882 7741 8.517878 GCCTGACTTATATTATGCAATGTTCAT 58.482 33.333 0.00 0.00 0.00 2.57
4140 8001 1.726853 ATGTACGAGCTGCTTGAACC 58.273 50.000 23.27 10.34 0.00 3.62
4204 8067 0.910566 TTAGAGGTGCCCGCCCTTAA 60.911 55.000 0.00 0.00 30.60 1.85
4241 8862 9.045745 GGAGAATCAGATTTATCCTCCTCTAAT 57.954 37.037 16.48 0.00 36.64 1.73
4270 8891 2.173519 TCGGTTGGTTCCTCGTTAGAT 58.826 47.619 0.00 0.00 0.00 1.98
4320 8941 1.269723 TCACGTCTGCTGTGGAGTAAG 59.730 52.381 0.00 0.00 37.91 2.34
4359 8980 6.713450 GGGAATTTTTACTCCACAAGTAGTCA 59.287 38.462 0.00 0.00 41.47 3.41
4414 9036 2.425592 CATGGATTAGGCGGGCGA 59.574 61.111 0.00 0.00 0.00 5.54
4541 9171 1.376466 GGAGGAAGAAGCACTGGCA 59.624 57.895 0.00 0.00 44.61 4.92


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

AutoCloner maintained by Alex Coulton.