Multiple sequence alignment - TraesCS2B01G318600

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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 TraesCS2B01G318600 chr2B 100.000 4213 0 0 1 4213 454345854 454341642 0.000000e+00 7781.0
1 TraesCS2B01G318600 chr2B 94.388 588 27 4 117 702 699177196 699176613 0.000000e+00 898.0
2 TraesCS2B01G318600 chr2B 92.437 595 38 5 110 701 11408666 11408076 0.000000e+00 843.0
3 TraesCS2B01G318600 chr2B 81.707 164 28 2 3787 3949 664309394 664309556 7.350000e-28 135.0
4 TraesCS2B01G318600 chr2A 91.068 1433 62 26 1930 3329 519530604 519529205 0.000000e+00 1877.0
5 TraesCS2B01G318600 chr2A 89.097 1229 74 20 701 1888 519532183 519530974 0.000000e+00 1472.0
6 TraesCS2B01G318600 chr2A 83.850 613 65 12 3347 3950 519529219 519528632 1.710000e-153 553.0
7 TraesCS2B01G318600 chr2A 79.245 159 30 3 2295 2452 768121463 768121619 1.600000e-19 108.0
8 TraesCS2B01G318600 chr2A 77.844 167 29 7 2281 2443 133354172 133354010 3.470000e-16 97.1
9 TraesCS2B01G318600 chr2A 87.342 79 10 0 1948 2026 768121092 768121170 1.610000e-14 91.6
10 TraesCS2B01G318600 chr2A 86.792 53 7 0 63 115 519532222 519532170 4.550000e-05 60.2
11 TraesCS2B01G318600 chr2D 88.190 1287 61 36 1547 2760 384252272 384251004 0.000000e+00 1450.0
12 TraesCS2B01G318600 chr2D 90.981 887 60 6 3347 4213 384250393 384249507 0.000000e+00 1177.0
13 TraesCS2B01G318600 chr2D 91.513 813 50 12 727 1537 384253132 384252337 0.000000e+00 1101.0
14 TraesCS2B01G318600 chr2D 92.586 553 26 8 2785 3329 384250924 384250379 0.000000e+00 780.0
15 TraesCS2B01G318600 chr2D 82.927 164 27 1 3787 3949 556956487 556956650 3.390000e-31 147.0
16 TraesCS2B01G318600 chr2D 78.616 159 31 3 2295 2452 643231010 643231166 7.450000e-18 102.0
17 TraesCS2B01G318600 chr2D 83.333 108 14 2 1948 2053 643230623 643230728 3.470000e-16 97.1
18 TraesCS2B01G318600 chr2D 77.381 168 28 9 2281 2443 126891213 126891051 1.610000e-14 91.6
19 TraesCS2B01G318600 chr2D 100.000 30 0 0 2769 2798 384250970 384250941 5.880000e-04 56.5
20 TraesCS2B01G318600 chr3B 95.939 591 16 3 112 701 498460156 498459573 0.000000e+00 952.0
21 TraesCS2B01G318600 chr3B 92.632 570 40 2 117 684 303289858 303290427 0.000000e+00 819.0
22 TraesCS2B01G318600 chr6B 94.991 579 26 3 107 684 498854127 498853551 0.000000e+00 905.0
23 TraesCS2B01G318600 chr6B 93.697 587 31 4 118 702 578004150 578004732 0.000000e+00 874.0
24 TraesCS2B01G318600 chr6B 86.154 65 9 0 2 66 719307454 719307518 2.100000e-08 71.3
25 TraesCS2B01G318600 chr7B 94.378 587 27 4 117 701 110111889 110111307 0.000000e+00 896.0
26 TraesCS2B01G318600 chr7B 89.855 69 7 0 1 69 329851581 329851513 5.800000e-14 89.8
27 TraesCS2B01G318600 chr5B 93.707 588 31 4 117 702 44469650 44469067 0.000000e+00 876.0
28 TraesCS2B01G318600 chr5B 93.333 45 3 0 24 68 337925097 337925141 2.720000e-07 67.6
29 TraesCS2B01G318600 chr4A 93.423 593 32 5 112 701 666192289 666191701 0.000000e+00 872.0
30 TraesCS2B01G318600 chr4A 92.593 54 4 0 13 66 516579011 516578958 1.260000e-10 78.7
31 TraesCS2B01G318600 chr6D 78.140 215 35 7 3990 4193 109273124 109272911 4.420000e-25 126.0
32 TraesCS2B01G318600 chr1B 77.404 208 29 7 4004 4193 282127055 282127262 1.600000e-19 108.0
33 TraesCS2B01G318600 chr1B 95.652 46 2 0 23 68 674916868 674916913 1.620000e-09 75.0
34 TraesCS2B01G318600 chrUn 88.608 79 9 0 1948 2026 31713091 31713169 3.470000e-16 97.1
35 TraesCS2B01G318600 chrUn 77.987 159 32 3 2296 2452 31713581 31713738 3.470000e-16 97.1
36 TraesCS2B01G318600 chr5A 94.444 54 3 0 13 66 11034578 11034631 2.700000e-12 84.2
37 TraesCS2B01G318600 chr1A 89.231 65 7 0 2 66 13798617 13798681 9.710000e-12 82.4
38 TraesCS2B01G318600 chr5D 89.655 58 6 0 3874 3931 280773962 280774019 1.620000e-09 75.0
39 TraesCS2B01G318600 chr4B 95.556 45 2 0 23 67 416252876 416252832 5.840000e-09 73.1
40 TraesCS2B01G318600 chr7D 89.286 56 2 4 13 66 26496066 26496119 2.720000e-07 67.6


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 TraesCS2B01G318600 chr2B 454341642 454345854 4212 True 7781.00 7781 100.00000 1 4213 1 chr2B.!!$R2 4212
1 TraesCS2B01G318600 chr2B 699176613 699177196 583 True 898.00 898 94.38800 117 702 1 chr2B.!!$R3 585
2 TraesCS2B01G318600 chr2B 11408076 11408666 590 True 843.00 843 92.43700 110 701 1 chr2B.!!$R1 591
3 TraesCS2B01G318600 chr2A 519528632 519532222 3590 True 990.55 1877 87.70175 63 3950 4 chr2A.!!$R2 3887
4 TraesCS2B01G318600 chr2D 384249507 384253132 3625 True 912.90 1450 92.65400 727 4213 5 chr2D.!!$R2 3486
5 TraesCS2B01G318600 chr3B 498459573 498460156 583 True 952.00 952 95.93900 112 701 1 chr3B.!!$R1 589
6 TraesCS2B01G318600 chr3B 303289858 303290427 569 False 819.00 819 92.63200 117 684 1 chr3B.!!$F1 567
7 TraesCS2B01G318600 chr6B 498853551 498854127 576 True 905.00 905 94.99100 107 684 1 chr6B.!!$R1 577
8 TraesCS2B01G318600 chr6B 578004150 578004732 582 False 874.00 874 93.69700 118 702 1 chr6B.!!$F1 584
9 TraesCS2B01G318600 chr7B 110111307 110111889 582 True 896.00 896 94.37800 117 701 1 chr7B.!!$R1 584
10 TraesCS2B01G318600 chr5B 44469067 44469650 583 True 876.00 876 93.70700 117 702 1 chr5B.!!$R1 585
11 TraesCS2B01G318600 chr4A 666191701 666192289 588 True 872.00 872 93.42300 112 701 1 chr4A.!!$R2 589

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
68 69 0.337082 TTGGGACGGAGGGAGTATCA 59.663 55.0 0.0 0.0 36.25 2.15 F
733 738 0.383231 CGTACCCGTACCATCACTCC 59.617 60.0 0.0 0.0 32.61 3.85 F
1813 1926 0.389948 GGATGAGACGTGTGGTGTCC 60.390 60.0 0.0 0.0 38.12 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 1994 0.037232 ACCTTCGAAGTAGCCACAGC 60.037 55.0 23.03 0.0 40.32 4.40 R
2501 2971 1.179152 CCATCTGCAGCACATGGAAA 58.821 50.0 22.08 0.0 39.73 3.13 R
3484 4022 0.256464 TTACGGGGGATTTGGCGATT 59.744 50.0 0.00 0.0 0.00 3.34 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
59 60 9.869757 ATTTAAAATAAGAATTTTGGGACGGAG 57.130 29.630 6.39 0.00 43.52 4.63
60 61 5.914898 AAATAAGAATTTTGGGACGGAGG 57.085 39.130 0.00 0.00 30.98 4.30
61 62 2.215942 AAGAATTTTGGGACGGAGGG 57.784 50.000 0.00 0.00 0.00 4.30
62 63 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
63 64 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
64 65 1.004394 GAATTTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
65 66 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
66 67 1.961133 TTTTGGGACGGAGGGAGTAT 58.039 50.000 0.00 0.00 0.00 2.12
67 68 1.492764 TTTGGGACGGAGGGAGTATC 58.507 55.000 0.00 0.00 0.00 2.24
68 69 0.337082 TTGGGACGGAGGGAGTATCA 59.663 55.000 0.00 0.00 36.25 2.15
69 70 0.396695 TGGGACGGAGGGAGTATCAC 60.397 60.000 0.00 0.00 40.51 3.06
303 306 1.962306 GCGTTGCGGACCAGGTAAA 60.962 57.895 0.00 0.00 0.00 2.01
495 499 3.044305 AGCAACGTCAGCGCCTTC 61.044 61.111 2.29 0.00 42.83 3.46
601 606 1.373748 GCAGAAACACCGCGGTCTA 60.374 57.895 31.80 0.00 0.00 2.59
684 689 5.520376 AGTTTGTTGAAAGGGTCAGAATG 57.480 39.130 0.00 0.00 37.61 2.67
702 707 7.780064 TCAGAATGAATTGTGAAAAAGTCCAA 58.220 30.769 0.70 0.00 45.97 3.53
703 708 7.706179 TCAGAATGAATTGTGAAAAAGTCCAAC 59.294 33.333 0.70 0.00 45.97 3.77
704 709 6.986231 AGAATGAATTGTGAAAAAGTCCAACC 59.014 34.615 0.00 0.00 0.00 3.77
705 710 4.677584 TGAATTGTGAAAAAGTCCAACCG 58.322 39.130 0.00 0.00 0.00 4.44
706 711 3.726291 ATTGTGAAAAAGTCCAACCGG 57.274 42.857 0.00 0.00 0.00 5.28
707 712 2.421751 TGTGAAAAAGTCCAACCGGA 57.578 45.000 9.46 0.00 39.79 5.14
708 713 2.294074 TGTGAAAAAGTCCAACCGGAG 58.706 47.619 9.46 0.00 43.99 4.63
733 738 0.383231 CGTACCCGTACCATCACTCC 59.617 60.000 0.00 0.00 32.61 3.85
799 808 0.749649 AGCGAGCTACCAAGATCAGG 59.250 55.000 0.00 0.00 38.06 3.86
800 809 0.878086 GCGAGCTACCAAGATCAGGC 60.878 60.000 4.28 0.00 38.06 4.85
801 810 0.596083 CGAGCTACCAAGATCAGGCG 60.596 60.000 4.28 0.00 38.06 5.52
802 811 0.747255 GAGCTACCAAGATCAGGCGA 59.253 55.000 4.28 0.00 38.07 5.54
803 812 0.461961 AGCTACCAAGATCAGGCGAC 59.538 55.000 4.28 0.00 0.00 5.19
804 813 0.872021 GCTACCAAGATCAGGCGACG 60.872 60.000 4.28 0.00 0.00 5.12
805 814 0.872021 CTACCAAGATCAGGCGACGC 60.872 60.000 12.43 12.43 0.00 5.19
807 816 2.202610 CAAGATCAGGCGACGCGA 60.203 61.111 15.93 6.83 0.00 5.87
811 820 1.078759 AGATCAGGCGACGCGAAAAG 61.079 55.000 15.93 1.28 0.00 2.27
819 828 1.275471 CGACGCGAAAAGACAGAGCA 61.275 55.000 15.93 0.00 0.00 4.26
828 837 4.666655 CGAAAAGACAGAGCATAAACCACG 60.667 45.833 0.00 0.00 0.00 4.94
860 869 1.939838 GCGACGAAACCTGGAATGTCT 60.940 52.381 0.00 0.00 0.00 3.41
872 881 2.375174 TGGAATGTCTGGCCTTACAAGT 59.625 45.455 13.65 6.17 0.00 3.16
908 917 2.433446 CAGGCTTGCTCCACCACT 59.567 61.111 0.00 0.00 0.00 4.00
934 943 2.342279 CTGTCCGCCGTTCCAAGA 59.658 61.111 0.00 0.00 0.00 3.02
935 944 1.301401 CTGTCCGCCGTTCCAAGAA 60.301 57.895 0.00 0.00 0.00 2.52
936 945 1.566018 CTGTCCGCCGTTCCAAGAAC 61.566 60.000 0.00 0.00 0.00 3.01
937 946 2.356553 TCCGCCGTTCCAAGAACG 60.357 61.111 19.99 19.99 42.74 3.95
938 947 2.663852 CCGCCGTTCCAAGAACGT 60.664 61.111 23.56 0.00 41.64 3.99
941 950 1.785951 GCCGTTCCAAGAACGTAGC 59.214 57.895 23.56 18.04 41.64 3.58
999 1013 0.734889 CCGCGGCAAGAAGAATTGAT 59.265 50.000 14.67 0.00 31.55 2.57
1020 1034 2.032681 GCCAAGGAGACGGTGCTT 59.967 61.111 0.00 0.00 37.29 3.91
1029 1043 1.289380 GACGGTGCTTCTCGTCCTT 59.711 57.895 4.75 0.00 46.79 3.36
1097 1111 2.579787 CGCTCGGAAGGTACGCTG 60.580 66.667 0.00 0.00 0.00 5.18
1100 1114 2.678934 TCGGAAGGTACGCTGGCT 60.679 61.111 0.00 0.00 0.00 4.75
1104 1118 1.610554 GGAAGGTACGCTGGCTGGTA 61.611 60.000 0.00 0.00 0.00 3.25
1144 1158 2.352960 GTGACATTGATCTTTCTCGGCC 59.647 50.000 0.00 0.00 0.00 6.13
1154 1168 3.583276 TTCTCGGCCGCGATTGTGT 62.583 57.895 23.51 0.00 0.00 3.72
1511 1541 2.605030 CTCTGCTCTCTCTTCCGTTTG 58.395 52.381 0.00 0.00 0.00 2.93
1540 1570 2.351336 CTGTGGGACCGGCGAGTATC 62.351 65.000 9.30 0.00 0.00 2.24
1541 1571 2.836360 TGGGACCGGCGAGTATCC 60.836 66.667 9.30 9.71 0.00 2.59
1738 1850 1.717791 CCATACCGCACACATGGCAG 61.718 60.000 0.00 0.00 33.29 4.85
1742 1854 4.720902 CGCACACATGGCAGGGGA 62.721 66.667 9.06 0.00 0.00 4.81
1743 1855 2.753043 GCACACATGGCAGGGGAG 60.753 66.667 9.06 0.00 0.00 4.30
1744 1856 2.044650 CACACATGGCAGGGGAGG 60.045 66.667 9.06 0.00 0.00 4.30
1745 1857 2.204136 ACACATGGCAGGGGAGGA 60.204 61.111 9.06 0.00 0.00 3.71
1760 1872 4.101448 GGAGCAGCCACCCGTGAT 62.101 66.667 0.00 0.00 36.34 3.06
1777 1889 1.383803 ATGGGCACTCCTCTCCTCC 60.384 63.158 0.00 0.00 36.20 4.30
1778 1890 2.766229 GGGCACTCCTCTCCTCCC 60.766 72.222 0.00 0.00 0.00 4.30
1813 1926 0.389948 GGATGAGACGTGTGGTGTCC 60.390 60.000 0.00 0.00 38.12 4.02
1845 1958 1.090052 GTAGCACGTCCATTCCTGGC 61.090 60.000 0.00 0.00 42.80 4.85
1858 1971 2.908940 CTGGCCGCATTCCATCCC 60.909 66.667 0.00 0.00 32.37 3.85
1875 1988 1.161843 CCCCGCTGAAATAAACACGT 58.838 50.000 0.00 0.00 0.00 4.49
1881 1994 3.900116 CGCTGAAATAAACACGTTGTGAG 59.100 43.478 3.61 0.00 36.96 3.51
1911 2052 6.315393 GGCTACTTCGAAGGTAAAATTGATGA 59.685 38.462 27.86 0.00 0.00 2.92
1913 2054 6.165659 ACTTCGAAGGTAAAATTGATGACG 57.834 37.500 27.86 0.00 0.00 4.35
1928 2069 2.890808 TGACGTTCTCAAGCTCAAGT 57.109 45.000 0.00 0.00 0.00 3.16
1929 2070 4.022329 TGATGACGTTCTCAAGCTCAAGTA 60.022 41.667 0.00 0.00 30.60 2.24
1930 2071 4.316205 TGACGTTCTCAAGCTCAAGTAA 57.684 40.909 0.00 0.00 0.00 2.24
2010 2454 2.604046 GGAACGACATATGGCTCTGT 57.396 50.000 7.06 0.00 0.00 3.41
2067 2515 0.938713 TCGTAAGCACCAACCAAACG 59.061 50.000 0.00 0.00 37.18 3.60
2080 2528 6.869913 CACCAACCAAACGATACTTTACTAGA 59.130 38.462 0.00 0.00 0.00 2.43
2088 2536 9.146984 CAAACGATACTTTACTAGAACCAATCA 57.853 33.333 0.00 0.00 0.00 2.57
2094 2542 7.540474 ACTTTACTAGAACCAATCACTCTCA 57.460 36.000 0.00 0.00 0.00 3.27
2112 2560 1.596260 TCATCGACGACTAACTAGCGG 59.404 52.381 0.00 0.00 0.00 5.52
2114 2562 1.442769 TCGACGACTAACTAGCGGTT 58.557 50.000 0.00 3.83 41.54 4.44
2115 2563 2.616960 TCGACGACTAACTAGCGGTTA 58.383 47.619 0.00 5.49 39.17 2.85
2433 2881 1.722636 GGGGCTACGTCGTCGAGAAT 61.723 60.000 9.47 0.00 40.62 2.40
2449 2897 3.318017 GAGAATCAGTGTAAGTGCACGT 58.682 45.455 12.01 11.40 43.61 4.49
2451 2899 3.005897 AGAATCAGTGTAAGTGCACGTCT 59.994 43.478 9.05 1.11 43.61 4.18
2465 2913 2.843063 GCACGTCTATCATCATCGATCG 59.157 50.000 9.36 9.36 0.00 3.69
2466 2914 3.424962 GCACGTCTATCATCATCGATCGA 60.425 47.826 21.86 21.86 0.00 3.59
2468 2916 5.502544 GCACGTCTATCATCATCGATCGATA 60.503 44.000 28.94 15.05 32.93 2.92
2469 2917 6.126079 CACGTCTATCATCATCGATCGATAG 58.874 44.000 28.94 20.86 39.02 2.08
2501 2971 5.141182 ACCTGACGATGTTGTATCTATCCT 58.859 41.667 0.00 0.00 0.00 3.24
2711 3181 4.530857 CGTCCGGGGACAGATGGC 62.531 72.222 17.43 0.00 44.77 4.40
2744 3214 2.477525 GCCGTCGACTTCTACAAGGTAG 60.478 54.545 14.70 0.00 33.37 3.18
2745 3215 2.477525 CCGTCGACTTCTACAAGGTAGC 60.478 54.545 14.70 0.00 33.37 3.58
2746 3216 2.161012 CGTCGACTTCTACAAGGTAGCA 59.839 50.000 14.70 0.00 33.37 3.49
2760 3230 5.367937 ACAAGGTAGCATCACATCCTTATCT 59.632 40.000 0.00 0.00 36.84 1.98
2762 3232 3.999663 GGTAGCATCACATCCTTATCTGC 59.000 47.826 0.00 0.00 0.00 4.26
2763 3233 3.137446 AGCATCACATCCTTATCTGCC 57.863 47.619 0.00 0.00 0.00 4.85
2764 3234 1.802960 GCATCACATCCTTATCTGCCG 59.197 52.381 0.00 0.00 0.00 5.69
2766 3236 1.788229 TCACATCCTTATCTGCCGGA 58.212 50.000 5.05 0.00 0.00 5.14
2767 3237 1.688735 TCACATCCTTATCTGCCGGAG 59.311 52.381 5.05 0.00 0.00 4.63
2838 3363 6.304356 TGATGATGTCGATTAATTTCTGCC 57.696 37.500 0.00 0.00 0.00 4.85
2942 3467 1.586422 CATAGCTGCCTGCAACGTAT 58.414 50.000 0.00 0.00 45.94 3.06
2943 3468 1.262417 CATAGCTGCCTGCAACGTATG 59.738 52.381 0.00 0.00 45.94 2.39
2946 3471 1.083489 GCTGCCTGCAACGTATGTAA 58.917 50.000 0.00 0.00 42.31 2.41
2948 3473 2.097466 GCTGCCTGCAACGTATGTAAAT 59.903 45.455 0.00 0.00 42.31 1.40
2949 3474 3.683989 CTGCCTGCAACGTATGTAAATG 58.316 45.455 0.00 0.00 0.00 2.32
2950 3475 3.339141 TGCCTGCAACGTATGTAAATGA 58.661 40.909 0.00 0.00 0.00 2.57
2951 3476 3.373748 TGCCTGCAACGTATGTAAATGAG 59.626 43.478 0.00 0.00 0.00 2.90
2952 3477 3.788797 GCCTGCAACGTATGTAAATGAGC 60.789 47.826 0.00 0.00 0.00 4.26
2953 3478 3.373748 CCTGCAACGTATGTAAATGAGCA 59.626 43.478 0.00 0.00 0.00 4.26
2997 3523 3.365868 GCCATGTTTACTGCATGTTTCGA 60.366 43.478 0.00 0.00 41.38 3.71
3011 3537 5.503357 GCATGTTTCGACAAAGTGTTCTACA 60.503 40.000 0.00 0.00 0.00 2.74
3012 3538 5.712217 TGTTTCGACAAAGTGTTCTACAG 57.288 39.130 0.00 0.00 0.00 2.74
3035 3561 8.982723 ACAGTATTATAGAGGAACTGACACAAT 58.017 33.333 7.70 0.00 41.55 2.71
3125 3655 4.260170 GCATCTTCAACAAGACCTCAGAT 58.740 43.478 0.00 0.00 41.64 2.90
3189 3719 3.628646 ATGCTGCCGACCACCTTCC 62.629 63.158 0.00 0.00 0.00 3.46
3285 3819 9.890629 ACTGTAAATCATAGATGCAAACTAGAA 57.109 29.630 0.00 0.00 0.00 2.10
3309 3843 1.199615 TATGTGCCGGGTTCTCATCA 58.800 50.000 2.18 0.00 0.00 3.07
3316 3850 1.354337 CGGGTTCTCATCACACGCTG 61.354 60.000 0.00 0.00 33.55 5.18
3317 3851 1.639298 GGGTTCTCATCACACGCTGC 61.639 60.000 0.00 0.00 0.00 5.25
3318 3852 0.950555 GGTTCTCATCACACGCTGCA 60.951 55.000 0.00 0.00 0.00 4.41
3319 3853 0.867746 GTTCTCATCACACGCTGCAA 59.132 50.000 0.00 0.00 0.00 4.08
3320 3854 1.136141 GTTCTCATCACACGCTGCAAG 60.136 52.381 0.00 0.00 0.00 4.01
3321 3855 0.033920 TCTCATCACACGCTGCAAGT 59.966 50.000 0.00 0.00 35.30 3.16
3322 3856 1.272212 TCTCATCACACGCTGCAAGTA 59.728 47.619 0.00 0.00 35.30 2.24
3323 3857 1.391485 CTCATCACACGCTGCAAGTAC 59.609 52.381 0.00 0.00 35.30 2.73
3324 3858 1.147473 CATCACACGCTGCAAGTACA 58.853 50.000 0.00 0.00 35.30 2.90
3325 3859 1.136252 CATCACACGCTGCAAGTACAC 60.136 52.381 0.00 0.00 35.30 2.90
3326 3860 0.104120 TCACACGCTGCAAGTACACT 59.896 50.000 0.00 0.00 35.30 3.55
3327 3861 0.937304 CACACGCTGCAAGTACACTT 59.063 50.000 0.00 0.00 35.30 3.16
3328 3862 1.330521 CACACGCTGCAAGTACACTTT 59.669 47.619 0.00 0.00 35.30 2.66
3329 3863 2.014128 ACACGCTGCAAGTACACTTTT 58.986 42.857 0.00 0.00 35.30 2.27
3330 3864 2.422127 ACACGCTGCAAGTACACTTTTT 59.578 40.909 0.00 0.00 35.30 1.94
3404 3938 4.381398 CCAAAATTCGGCCATTGTATGACA 60.381 41.667 2.24 0.00 0.00 3.58
3482 4020 0.605589 GCTAAGGGCAACTCCAACGT 60.606 55.000 0.00 0.00 41.35 3.99
3484 4022 0.759959 TAAGGGCAACTCCAACGTGA 59.240 50.000 0.00 0.00 36.21 4.35
3488 4026 0.165944 GGCAACTCCAACGTGAATCG 59.834 55.000 0.00 0.00 39.14 3.34
3501 4039 1.453197 GAATCGCCAAATCCCCCGT 60.453 57.895 0.00 0.00 0.00 5.28
3509 4047 2.948600 GCCAAATCCCCCGTAAATGTCT 60.949 50.000 0.00 0.00 0.00 3.41
3565 4108 4.279169 CACACATCAAAATTGTCTGGACCT 59.721 41.667 0.00 0.00 0.00 3.85
3585 4128 5.755849 ACCTATCCGAATGTTCAAAATCCT 58.244 37.500 0.00 0.00 0.00 3.24
3591 4134 7.461182 TCCGAATGTTCAAAATCCTACAAAT 57.539 32.000 0.00 0.00 0.00 2.32
3633 4176 3.073209 GGTTTCTCCAACTCCTTCCTTCT 59.927 47.826 0.00 0.00 35.46 2.85
3649 4192 6.600822 CCTTCCTTCTTCATGTGATGTGTATT 59.399 38.462 0.00 0.00 0.00 1.89
3650 4193 7.121759 CCTTCCTTCTTCATGTGATGTGTATTT 59.878 37.037 0.00 0.00 0.00 1.40
3724 4267 1.307355 TATCGGACCTTCGTCGCACA 61.307 55.000 0.00 0.00 40.17 4.57
3730 4273 1.163420 ACCTTCGTCGCACAATGCAA 61.163 50.000 0.00 0.00 45.36 4.08
3740 4283 0.038892 CACAATGCAAGCGCTTTCCT 60.039 50.000 22.51 5.71 39.64 3.36
3749 4292 2.048603 GCGCTTTCCTGCCTTGGAT 61.049 57.895 0.00 0.00 35.83 3.41
3872 4415 4.563140 AATGCCATTGCCAAGAAATCTT 57.437 36.364 0.00 0.00 36.33 2.40
3874 4417 5.881923 ATGCCATTGCCAAGAAATCTTAT 57.118 34.783 0.00 0.00 36.33 1.73
3913 4456 1.606668 GAAGCAAACACGGTGGATTCA 59.393 47.619 13.48 0.00 0.00 2.57
3934 4477 7.776618 TTCAGATGAGGAGTACTTCTACAAA 57.223 36.000 2.82 0.00 0.00 2.83
3963 4521 2.432146 TGGAGTCGGATGAGGATGAAAG 59.568 50.000 0.00 0.00 0.00 2.62
3967 4525 3.066900 AGTCGGATGAGGATGAAAGTACG 59.933 47.826 0.00 0.00 0.00 3.67
3986 4544 1.067060 CGATGATGAAGGCGGTAGACA 59.933 52.381 0.00 0.00 0.00 3.41
3987 4545 2.288457 CGATGATGAAGGCGGTAGACAT 60.288 50.000 0.00 0.00 0.00 3.06
4002 4560 3.648982 CATGGTGCGTGCGTGTGT 61.649 61.111 0.00 0.00 0.00 3.72
4046 4604 5.011738 GGGATCAATAAAGGGACATCGAGTA 59.988 44.000 0.00 0.00 0.00 2.59
4065 4623 6.150641 TCGAGTATTGAATCGGAATAGGGTAG 59.849 42.308 0.00 0.00 39.38 3.18
4067 4625 6.082707 AGTATTGAATCGGAATAGGGTAGGT 58.917 40.000 0.00 0.00 0.00 3.08
4074 4632 1.351350 GGAATAGGGTAGGTGGCATCC 59.649 57.143 0.00 0.00 0.00 3.51
4102 4660 2.285977 GTCGTCGAATAATTTGCCCCT 58.714 47.619 0.00 0.00 0.00 4.79
4103 4661 3.460103 GTCGTCGAATAATTTGCCCCTA 58.540 45.455 0.00 0.00 0.00 3.53
4108 4666 2.811431 CGAATAATTTGCCCCTATGCGA 59.189 45.455 0.00 0.00 0.00 5.10
4139 4697 1.131504 GTTGTTATTTCGGATGCGGCA 59.868 47.619 4.58 4.58 0.00 5.69
4162 4720 3.124636 ACAAGTGTTCGATCGCATTTACC 59.875 43.478 11.09 0.00 0.00 2.85
4208 4766 2.826128 ACTTCATACTGAGGAAGCGTGA 59.174 45.455 0.00 0.00 45.41 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 9.869757 CTCCGTCCCAAAATTCTTATTTTAAAT 57.130 29.630 0.00 0.00 40.97 1.40
34 35 8.308207 CCTCCGTCCCAAAATTCTTATTTTAAA 58.692 33.333 0.00 0.00 40.97 1.52
35 36 7.093684 CCCTCCGTCCCAAAATTCTTATTTTAA 60.094 37.037 0.00 0.00 40.97 1.52
36 37 6.378848 CCCTCCGTCCCAAAATTCTTATTTTA 59.621 38.462 0.00 0.00 40.97 1.52
37 38 5.186992 CCCTCCGTCCCAAAATTCTTATTTT 59.813 40.000 0.00 0.00 43.09 1.82
38 39 4.709886 CCCTCCGTCCCAAAATTCTTATTT 59.290 41.667 0.00 0.00 35.49 1.40
39 40 4.017867 TCCCTCCGTCCCAAAATTCTTATT 60.018 41.667 0.00 0.00 0.00 1.40
40 41 3.526019 TCCCTCCGTCCCAAAATTCTTAT 59.474 43.478 0.00 0.00 0.00 1.73
41 42 2.914278 TCCCTCCGTCCCAAAATTCTTA 59.086 45.455 0.00 0.00 0.00 2.10
42 43 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
43 44 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
44 45 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
45 46 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
46 47 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
47 48 1.835531 GATACTCCCTCCGTCCCAAAA 59.164 52.381 0.00 0.00 0.00 2.44
48 49 1.273381 TGATACTCCCTCCGTCCCAAA 60.273 52.381 0.00 0.00 0.00 3.28
49 50 0.337082 TGATACTCCCTCCGTCCCAA 59.663 55.000 0.00 0.00 0.00 4.12
50 51 0.396695 GTGATACTCCCTCCGTCCCA 60.397 60.000 0.00 0.00 0.00 4.37
51 52 0.106116 AGTGATACTCCCTCCGTCCC 60.106 60.000 0.00 0.00 0.00 4.46
52 53 1.320507 GAGTGATACTCCCTCCGTCC 58.679 60.000 0.00 0.00 39.28 4.79
61 62 3.064271 GTCAGACAGTCGGAGTGATACTC 59.936 52.174 19.25 6.46 44.32 2.59
62 63 3.011119 GTCAGACAGTCGGAGTGATACT 58.989 50.000 19.25 11.62 0.00 2.12
63 64 2.747989 TGTCAGACAGTCGGAGTGATAC 59.252 50.000 19.25 10.93 0.00 2.24
64 65 3.067684 TGTCAGACAGTCGGAGTGATA 57.932 47.619 19.25 0.00 0.00 2.15
65 66 1.911057 TGTCAGACAGTCGGAGTGAT 58.089 50.000 19.25 4.84 0.00 3.06
66 67 1.911057 ATGTCAGACAGTCGGAGTGA 58.089 50.000 19.25 0.00 0.00 3.41
67 68 2.332104 CAATGTCAGACAGTCGGAGTG 58.668 52.381 9.64 11.22 0.00 3.51
68 69 1.337260 GCAATGTCAGACAGTCGGAGT 60.337 52.381 9.64 0.00 0.00 3.85
69 70 1.337167 TGCAATGTCAGACAGTCGGAG 60.337 52.381 9.64 0.00 0.00 4.63
70 71 0.678950 TGCAATGTCAGACAGTCGGA 59.321 50.000 9.64 0.00 0.00 4.55
71 72 0.792640 GTGCAATGTCAGACAGTCGG 59.207 55.000 9.64 0.00 0.00 4.79
77 78 1.160137 GGTCAGGTGCAATGTCAGAC 58.840 55.000 0.00 0.00 0.00 3.51
79 80 0.877071 GTGGTCAGGTGCAATGTCAG 59.123 55.000 0.00 0.00 0.00 3.51
495 499 1.017701 GGACCAGGTAAGAAACGCCG 61.018 60.000 0.00 0.00 0.00 6.46
601 606 1.173913 GACCCTTTTAGCAACGCCAT 58.826 50.000 0.00 0.00 0.00 4.40
655 660 5.186797 TGACCCTTTCAACAAACTTTGTCAT 59.813 36.000 7.62 0.00 44.59 3.06
684 689 4.048504 CCGGTTGGACTTTTTCACAATTC 58.951 43.478 0.00 0.00 37.49 2.17
685 690 3.702045 TCCGGTTGGACTTTTTCACAATT 59.298 39.130 0.00 0.00 40.17 2.32
686 691 3.292460 TCCGGTTGGACTTTTTCACAAT 58.708 40.909 0.00 0.00 40.17 2.71
687 692 2.685897 CTCCGGTTGGACTTTTTCACAA 59.314 45.455 0.00 0.00 40.17 3.33
705 710 3.721370 TACGGGTACGGGCTCCTCC 62.721 68.421 0.00 0.00 46.48 4.30
706 711 2.124151 TACGGGTACGGGCTCCTC 60.124 66.667 0.00 0.00 46.48 3.71
707 712 2.440980 GTACGGGTACGGGCTCCT 60.441 66.667 0.00 0.00 46.48 3.69
708 713 3.531207 GGTACGGGTACGGGCTCC 61.531 72.222 3.13 0.00 46.48 4.70
716 721 0.034186 ACGGAGTGATGGTACGGGTA 60.034 55.000 0.00 0.00 42.51 3.69
787 796 1.141019 GCGTCGCCTGATCTTGGTA 59.859 57.895 5.75 0.00 0.00 3.25
799 808 1.412606 CTCTGTCTTTTCGCGTCGC 59.587 57.895 7.29 7.29 0.00 5.19
800 809 1.275471 TGCTCTGTCTTTTCGCGTCG 61.275 55.000 5.77 0.00 0.00 5.12
801 810 1.071605 ATGCTCTGTCTTTTCGCGTC 58.928 50.000 5.77 0.00 0.00 5.19
802 811 2.363788 TATGCTCTGTCTTTTCGCGT 57.636 45.000 5.77 0.00 0.00 6.01
803 812 3.408150 GTTTATGCTCTGTCTTTTCGCG 58.592 45.455 0.00 0.00 0.00 5.87
804 813 3.188460 TGGTTTATGCTCTGTCTTTTCGC 59.812 43.478 0.00 0.00 0.00 4.70
805 814 4.666655 CGTGGTTTATGCTCTGTCTTTTCG 60.667 45.833 0.00 0.00 0.00 3.46
807 816 3.058224 GCGTGGTTTATGCTCTGTCTTTT 60.058 43.478 0.00 0.00 38.31 2.27
811 820 1.128692 GTGCGTGGTTTATGCTCTGTC 59.871 52.381 0.00 0.00 41.99 3.51
819 828 3.427503 GCTTGCTTATGTGCGTGGTTTAT 60.428 43.478 0.00 0.00 35.36 1.40
828 837 0.442310 TTCGTCGCTTGCTTATGTGC 59.558 50.000 0.00 0.00 0.00 4.57
860 869 2.294074 GTTGTGTGACTTGTAAGGCCA 58.706 47.619 5.01 0.00 31.13 5.36
872 881 2.358582 CTGCAATCCTTGTGTTGTGTGA 59.641 45.455 0.00 0.00 0.00 3.58
928 937 0.320421 GCTGGTGCTACGTTCTTGGA 60.320 55.000 0.00 0.00 36.03 3.53
929 938 1.298859 GGCTGGTGCTACGTTCTTGG 61.299 60.000 0.00 0.00 39.59 3.61
931 940 1.374252 CGGCTGGTGCTACGTTCTT 60.374 57.895 0.00 0.00 39.59 2.52
932 941 2.261671 CGGCTGGTGCTACGTTCT 59.738 61.111 0.00 0.00 39.59 3.01
977 991 3.918253 ATTCTTCTTGCCGCGGCCA 62.918 57.895 44.42 34.56 41.09 5.36
999 1013 1.904771 CACCGTCTCCTTGGCCATA 59.095 57.895 6.09 0.00 0.00 2.74
1076 1090 2.806237 GTACCTTCCGAGCGGAGG 59.194 66.667 19.12 19.12 46.06 4.30
1097 1111 1.279271 ACATGTCCTCAACTACCAGCC 59.721 52.381 0.00 0.00 0.00 4.85
1100 1114 2.301870 GGTGACATGTCCTCAACTACCA 59.698 50.000 22.85 0.00 0.00 3.25
1104 1118 2.050144 ACTGGTGACATGTCCTCAACT 58.950 47.619 22.85 6.50 41.51 3.16
1511 1541 3.640407 TCCCACAGGTCAGCAGGC 61.640 66.667 0.00 0.00 0.00 4.85
1540 1570 1.137086 CAGGGTCTAACATGGACTCGG 59.863 57.143 0.00 0.00 39.02 4.63
1541 1571 1.825474 ACAGGGTCTAACATGGACTCG 59.175 52.381 0.00 0.00 39.02 4.18
1716 1828 1.375853 CCATGTGTGCGGTATGGGTG 61.376 60.000 0.00 0.00 38.12 4.61
1741 1853 4.767255 CACGGGTGGCTGCTCCTC 62.767 72.222 0.00 0.00 35.26 3.71
1743 1855 4.101448 ATCACGGGTGGCTGCTCC 62.101 66.667 0.00 2.69 0.00 4.70
1744 1856 2.821366 CATCACGGGTGGCTGCTC 60.821 66.667 0.00 0.00 0.00 4.26
1745 1857 4.415150 CCATCACGGGTGGCTGCT 62.415 66.667 0.00 0.00 0.00 4.24
1760 1872 2.039624 GGAGGAGAGGAGTGCCCA 59.960 66.667 0.00 0.00 37.41 5.36
1777 1889 3.055167 TCATCCACACAAGGATACACAGG 60.055 47.826 0.00 0.00 46.54 4.00
1778 1890 4.081476 TCTCATCCACACAAGGATACACAG 60.081 45.833 0.00 0.00 46.54 3.66
1813 1926 1.153449 TGCTACCCGAATTGGAGCG 60.153 57.895 0.00 0.00 42.00 5.03
1845 1958 4.569180 AGCGGGGATGGAATGCGG 62.569 66.667 0.00 0.00 34.31 5.69
1858 1971 2.970609 CACAACGTGTTTATTTCAGCGG 59.029 45.455 0.00 0.00 0.00 5.52
1881 1994 0.037232 ACCTTCGAAGTAGCCACAGC 60.037 55.000 23.03 0.00 40.32 4.40
1911 2052 5.297547 TCAATTACTTGAGCTTGAGAACGT 58.702 37.500 4.50 0.00 36.46 3.99
1913 2054 9.122613 GAAATTCAATTACTTGAGCTTGAGAAC 57.877 33.333 4.50 0.00 42.19 3.01
1928 2069 6.552859 TCTGCGACACAAGAAATTCAATTA 57.447 33.333 0.00 0.00 0.00 1.40
1929 2070 5.437289 TCTGCGACACAAGAAATTCAATT 57.563 34.783 0.00 0.00 0.00 2.32
1930 2071 5.215160 GTTCTGCGACACAAGAAATTCAAT 58.785 37.500 0.00 0.00 0.00 2.57
2067 2515 9.738832 GAGAGTGATTGGTTCTAGTAAAGTATC 57.261 37.037 0.00 0.00 0.00 2.24
2080 2528 2.492088 TCGTCGATGAGAGTGATTGGTT 59.508 45.455 2.39 0.00 0.00 3.67
2088 2536 3.556775 GCTAGTTAGTCGTCGATGAGAGT 59.443 47.826 7.79 4.45 0.00 3.24
2094 2542 1.661341 ACCGCTAGTTAGTCGTCGAT 58.339 50.000 0.00 0.00 0.00 3.59
2142 2590 4.351938 TCCCGGAGCACGTTCACG 62.352 66.667 0.73 0.00 46.33 4.35
2274 2722 1.302511 CCACACCGGGAACAGGAAG 60.303 63.158 6.32 0.00 0.00 3.46
2433 2881 3.504520 TGATAGACGTGCACTTACACTGA 59.495 43.478 16.19 0.00 38.45 3.41
2451 2899 8.589338 TCTCCTATCTATCGATCGATGATGATA 58.411 37.037 34.92 30.60 36.17 2.15
2465 2913 5.708230 ACATCGTCAGGTTCTCCTATCTATC 59.292 44.000 0.00 0.00 43.07 2.08
2466 2914 5.636123 ACATCGTCAGGTTCTCCTATCTAT 58.364 41.667 0.00 0.00 43.07 1.98
2468 2916 3.904717 ACATCGTCAGGTTCTCCTATCT 58.095 45.455 0.00 0.00 43.07 1.98
2469 2917 4.142138 ACAACATCGTCAGGTTCTCCTATC 60.142 45.833 0.00 0.00 43.07 2.08
2470 2918 3.769844 ACAACATCGTCAGGTTCTCCTAT 59.230 43.478 0.00 0.00 43.07 2.57
2471 2919 3.162666 ACAACATCGTCAGGTTCTCCTA 58.837 45.455 0.00 0.00 43.07 2.94
2501 2971 1.179152 CCATCTGCAGCACATGGAAA 58.821 50.000 22.08 0.00 39.73 3.13
2711 3181 2.452813 CGACGGCGATGAAGTTGGG 61.453 63.158 16.62 0.00 40.82 4.12
2744 3214 1.802960 CGGCAGATAAGGATGTGATGC 59.197 52.381 0.00 0.00 0.00 3.91
2745 3215 2.037641 TCCGGCAGATAAGGATGTGATG 59.962 50.000 0.00 0.00 0.00 3.07
2746 3216 2.301296 CTCCGGCAGATAAGGATGTGAT 59.699 50.000 0.00 0.00 33.04 3.06
2952 3477 0.306840 CAAGCAGCGAGGCATGTATG 59.693 55.000 0.00 0.00 35.83 2.39
2953 3478 1.442526 GCAAGCAGCGAGGCATGTAT 61.443 55.000 0.00 0.00 35.10 2.29
3035 3561 3.446365 CGCAACACACGCACAAATA 57.554 47.368 0.00 0.00 0.00 1.40
3043 3569 0.790207 ATTACTCTGCGCAACACACG 59.210 50.000 13.05 0.00 0.00 4.49
3048 3578 2.343101 TGTACCATTACTCTGCGCAAC 58.657 47.619 13.05 2.65 0.00 4.17
3098 3628 3.823304 AGGTCTTGTTGAAGATGCCTTTC 59.177 43.478 0.00 0.00 40.40 2.62
3167 3697 2.046892 GTGGTCGGCAGCATCAGT 60.047 61.111 0.00 0.00 31.14 3.41
3179 3709 1.903183 AGTAGAGCAAGGAAGGTGGTC 59.097 52.381 0.00 0.00 42.52 4.02
3180 3710 2.031495 AGTAGAGCAAGGAAGGTGGT 57.969 50.000 0.00 0.00 0.00 4.16
3189 3719 9.190858 CTTCTACAAGCATAATAGTAGAGCAAG 57.809 37.037 0.00 0.00 42.52 4.01
3285 3819 3.426615 TGAGAACCCGGCACATAAAATT 58.573 40.909 0.00 0.00 0.00 1.82
3309 3843 1.663695 AAAGTGTACTTGCAGCGTGT 58.336 45.000 0.00 0.00 36.12 4.49
3331 3865 5.261209 ACTTGCAGTGTCATTAGCAAAAA 57.739 34.783 9.73 0.00 45.18 1.94
3332 3866 4.916983 ACTTGCAGTGTCATTAGCAAAA 57.083 36.364 9.73 0.00 45.18 2.44
3333 3867 4.819088 TGTACTTGCAGTGTCATTAGCAAA 59.181 37.500 9.73 0.00 45.18 3.68
3334 3868 4.213270 GTGTACTTGCAGTGTCATTAGCAA 59.787 41.667 0.00 0.00 43.90 3.91
3335 3869 3.745975 GTGTACTTGCAGTGTCATTAGCA 59.254 43.478 0.00 0.00 34.79 3.49
3336 3870 3.997021 AGTGTACTTGCAGTGTCATTAGC 59.003 43.478 0.00 0.00 0.00 3.09
3337 3871 6.365839 CAAAGTGTACTTGCAGTGTCATTAG 58.634 40.000 0.00 0.00 36.12 1.73
3338 3872 5.277779 GCAAAGTGTACTTGCAGTGTCATTA 60.278 40.000 12.11 0.00 36.12 1.90
3339 3873 4.498009 GCAAAGTGTACTTGCAGTGTCATT 60.498 41.667 12.11 0.00 36.12 2.57
3340 3874 3.003689 GCAAAGTGTACTTGCAGTGTCAT 59.996 43.478 12.11 0.00 36.12 3.06
3341 3875 2.354510 GCAAAGTGTACTTGCAGTGTCA 59.645 45.455 12.11 0.00 36.12 3.58
3342 3876 2.614057 AGCAAAGTGTACTTGCAGTGTC 59.386 45.455 17.53 3.14 36.12 3.67
3343 3877 2.355756 CAGCAAAGTGTACTTGCAGTGT 59.644 45.455 17.53 0.00 36.12 3.55
3344 3878 2.355756 ACAGCAAAGTGTACTTGCAGTG 59.644 45.455 17.53 11.57 36.12 3.66
3345 3879 2.643551 ACAGCAAAGTGTACTTGCAGT 58.356 42.857 17.53 13.58 36.12 4.40
3346 3880 3.065233 TCAACAGCAAAGTGTACTTGCAG 59.935 43.478 17.53 13.04 36.12 4.41
3347 3881 3.013219 TCAACAGCAAAGTGTACTTGCA 58.987 40.909 17.53 0.00 36.12 4.08
3355 3889 4.365723 AGCAGAAATTCAACAGCAAAGTG 58.634 39.130 0.00 0.00 0.00 3.16
3482 4020 1.453015 CGGGGGATTTGGCGATTCA 60.453 57.895 0.00 0.00 0.00 2.57
3484 4022 0.256464 TTACGGGGGATTTGGCGATT 59.744 50.000 0.00 0.00 0.00 3.34
3488 4026 1.407618 GACATTTACGGGGGATTTGGC 59.592 52.381 0.00 0.00 0.00 4.52
3545 4083 5.888161 GGATAGGTCCAGACAATTTTGATGT 59.112 40.000 0.00 0.00 44.42 3.06
3565 4108 8.568676 TTTGTAGGATTTTGAACATTCGGATA 57.431 30.769 0.00 0.00 0.00 2.59
3571 4114 7.173047 GTGCCAATTTGTAGGATTTTGAACATT 59.827 33.333 0.00 0.00 0.00 2.71
3585 4128 3.260380 CCCTCATTTGGTGCCAATTTGTA 59.740 43.478 4.32 0.00 35.70 2.41
3591 4134 0.776810 TCTCCCTCATTTGGTGCCAA 59.223 50.000 0.00 0.00 0.00 4.52
3626 4169 7.575532 GCAAATACACATCACATGAAGAAGGAA 60.576 37.037 0.00 0.00 0.00 3.36
3633 4176 4.082300 GGGTGCAAATACACATCACATGAA 60.082 41.667 0.00 0.00 42.55 2.57
3706 4249 2.149803 TTGTGCGACGAAGGTCCGAT 62.150 55.000 0.00 0.00 40.17 4.18
3724 4267 1.080298 GCAGGAAAGCGCTTGCATT 60.080 52.632 28.93 14.12 42.66 3.56
3730 4273 2.490270 ATCCAAGGCAGGAAAGCGCT 62.490 55.000 2.64 2.64 41.92 5.92
3740 4283 3.372730 GCGGTGCAATCCAAGGCA 61.373 61.111 0.00 0.00 37.77 4.75
3749 4292 2.357760 GGTAGAACGGCGGTGCAA 60.358 61.111 13.24 0.00 0.00 4.08
3810 4353 3.444916 CGTAGTGTTTGCTATGGACGAT 58.555 45.455 0.00 0.00 0.00 3.73
3872 4415 9.332502 TGCTTCAAAGTAAACAACTAGAACATA 57.667 29.630 0.00 0.00 37.50 2.29
3874 4417 7.618502 TGCTTCAAAGTAAACAACTAGAACA 57.381 32.000 0.00 0.00 37.50 3.18
3913 4456 7.179269 ACTCTTTGTAGAAGTACTCCTCATCT 58.821 38.462 0.00 0.00 0.00 2.90
3934 4477 2.692557 CTCATCCGACTCCATGAACTCT 59.307 50.000 0.00 0.00 0.00 3.24
3963 4521 2.292569 TCTACCGCCTTCATCATCGTAC 59.707 50.000 0.00 0.00 0.00 3.67
3967 4525 2.890808 TGTCTACCGCCTTCATCATC 57.109 50.000 0.00 0.00 0.00 2.92
3986 4544 2.027073 CTACACACGCACGCACCAT 61.027 57.895 0.00 0.00 0.00 3.55
3987 4545 2.660224 CTACACACGCACGCACCA 60.660 61.111 0.00 0.00 0.00 4.17
4002 4560 3.130516 CCCTTGTAGTCGAGAACATGCTA 59.869 47.826 0.00 0.00 0.00 3.49
4046 4604 4.041691 CCACCTACCCTATTCCGATTCAAT 59.958 45.833 0.00 0.00 0.00 2.57
4065 4623 1.305213 ACCAACATGGGATGCCACC 60.305 57.895 8.67 0.00 43.37 4.61
4067 4625 1.378382 CGACCAACATGGGATGCCA 60.378 57.895 9.00 9.00 43.37 4.92
4074 4632 4.875544 AATTATTCGACGACCAACATGG 57.124 40.909 0.00 0.00 45.02 3.66
4139 4697 3.896648 AAATGCGATCGAACACTTGTT 57.103 38.095 21.57 0.00 41.64 2.83
4162 4720 1.227943 CATAGGCCCGGACACCATG 60.228 63.158 0.73 4.80 0.00 3.66


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

AutoCloner maintained by Alex Coulton.