Multiple sequence alignment - TraesCS2B01G120100

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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 TraesCS2B01G120100 chr2B 100.000 3441 0 0 1 3441 87840228 87843668 0.000000e+00 6355.0
1 TraesCS2B01G120100 chr2A 88.074 1677 112 40 1814 3441 56917415 56919052 0.000000e+00 1908.0
2 TraesCS2B01G120100 chr2A 92.027 878 60 7 905 1775 56916535 56917409 0.000000e+00 1225.0
3 TraesCS2B01G120100 chr2A 76.615 650 132 18 1080 1719 619238314 619238953 1.180000e-89 340.0
4 TraesCS2B01G120100 chr2A 72.267 494 109 26 1948 2431 115786852 115786377 1.000000e-25 128.0
5 TraesCS2B01G120100 chr2D 92.000 1100 81 3 1349 2448 55357766 55356674 0.000000e+00 1537.0
6 TraesCS2B01G120100 chr2D 92.199 923 57 8 863 1775 39832242 39831325 0.000000e+00 1291.0
7 TraesCS2B01G120100 chr2D 91.631 932 55 11 855 1775 55315208 55316127 0.000000e+00 1267.0
8 TraesCS2B01G120100 chr2D 94.840 814 20 6 2629 3439 39830550 39829756 0.000000e+00 1251.0
9 TraesCS2B01G120100 chr2D 89.189 777 54 17 1814 2570 39831319 39830553 0.000000e+00 942.0
10 TraesCS2B01G120100 chr2D 87.360 712 61 17 1814 2508 55316133 55316832 0.000000e+00 789.0
11 TraesCS2B01G120100 chr2D 86.177 586 32 23 2873 3439 55369405 55369960 3.830000e-164 588.0
12 TraesCS2B01G120100 chr2D 86.957 391 35 8 909 1298 55360407 55360032 3.170000e-115 425.0
13 TraesCS2B01G120100 chr2D 77.280 647 129 16 1080 1719 476912944 476913579 7.020000e-97 364.0
14 TraesCS2B01G120100 chr1B 94.444 648 30 2 159 802 269218258 269218903 0.000000e+00 992.0
15 TraesCS2B01G120100 chr1B 93.465 658 34 5 154 807 25227105 25227757 0.000000e+00 968.0
16 TraesCS2B01G120100 chr5B 94.028 653 33 2 159 807 699778362 699779012 0.000000e+00 985.0
17 TraesCS2B01G120100 chr5B 93.694 111 5 1 1 109 595021161 595021051 7.640000e-37 165.0
18 TraesCS2B01G120100 chr5B 72.477 545 124 21 1129 1666 508351809 508351284 5.950000e-33 152.0
19 TraesCS2B01G120100 chr4B 94.028 653 33 2 159 807 629957935 629957285 0.000000e+00 985.0
20 TraesCS2B01G120100 chr4B 93.343 661 34 5 159 812 671101309 671101966 0.000000e+00 968.0
21 TraesCS2B01G120100 chr4B 88.525 671 75 2 1076 1745 96630534 96631203 0.000000e+00 811.0
22 TraesCS2B01G120100 chr4B 81.481 513 84 11 1939 2446 96631439 96631945 8.890000e-111 411.0
23 TraesCS2B01G120100 chr6B 93.865 652 34 2 160 807 195274520 195275169 0.000000e+00 977.0
24 TraesCS2B01G120100 chr3D 93.588 655 36 2 155 805 559109490 559108838 0.000000e+00 972.0
25 TraesCS2B01G120100 chr3A 93.712 652 35 2 160 807 735599533 735598884 0.000000e+00 972.0
26 TraesCS2B01G120100 chr3A 86.486 111 7 3 1 109 19505030 19504926 7.800000e-22 115.0
27 TraesCS2B01G120100 chr7B 93.223 664 33 6 160 816 74092673 74093331 0.000000e+00 966.0
28 TraesCS2B01G120100 chr7B 86.131 858 72 22 2609 3440 620580444 620579608 0.000000e+00 881.0
29 TraesCS2B01G120100 chr7D 87.427 851 74 11 2609 3435 559667660 559668501 0.000000e+00 948.0
30 TraesCS2B01G120100 chr4A 85.531 857 86 15 2608 3441 520190188 520189347 0.000000e+00 861.0
31 TraesCS2B01G120100 chr4A 86.900 687 87 3 1060 1744 529635037 529634352 0.000000e+00 767.0
32 TraesCS2B01G120100 chr4A 82.812 512 79 9 1939 2446 529634142 529633636 1.880000e-122 449.0
33 TraesCS2B01G120100 chr4A 89.474 114 7 5 1 109 598662966 598662853 4.630000e-29 139.0
34 TraesCS2B01G120100 chr4D 85.648 857 69 19 2609 3440 191271165 191270338 0.000000e+00 852.0
35 TraesCS2B01G120100 chr4D 87.463 670 82 2 1076 1744 65860524 65861192 0.000000e+00 771.0
36 TraesCS2B01G120100 chr4D 82.530 498 80 7 1939 2433 65861390 65861883 6.820000e-117 431.0
37 TraesCS2B01G120100 chr5D 74.359 351 79 8 1130 1479 421887160 421886820 4.630000e-29 139.0
38 TraesCS2B01G120100 chr3B 89.130 46 3 2 1954 1998 111673895 111673851 4.800000e-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 TraesCS2B01G120100 chr2B 87840228 87843668 3440 False 6355.000000 6355 100.0000 1 3441 1 chr2B.!!$F1 3440
1 TraesCS2B01G120100 chr2A 56916535 56919052 2517 False 1566.500000 1908 90.0505 905 3441 2 chr2A.!!$F2 2536
2 TraesCS2B01G120100 chr2A 619238314 619238953 639 False 340.000000 340 76.6150 1080 1719 1 chr2A.!!$F1 639
3 TraesCS2B01G120100 chr2D 39829756 39832242 2486 True 1161.333333 1291 92.0760 863 3439 3 chr2D.!!$R1 2576
4 TraesCS2B01G120100 chr2D 55315208 55316832 1624 False 1028.000000 1267 89.4955 855 2508 2 chr2D.!!$F3 1653
5 TraesCS2B01G120100 chr2D 55356674 55360407 3733 True 981.000000 1537 89.4785 909 2448 2 chr2D.!!$R2 1539
6 TraesCS2B01G120100 chr2D 55369405 55369960 555 False 588.000000 588 86.1770 2873 3439 1 chr2D.!!$F1 566
7 TraesCS2B01G120100 chr2D 476912944 476913579 635 False 364.000000 364 77.2800 1080 1719 1 chr2D.!!$F2 639
8 TraesCS2B01G120100 chr1B 269218258 269218903 645 False 992.000000 992 94.4440 159 802 1 chr1B.!!$F2 643
9 TraesCS2B01G120100 chr1B 25227105 25227757 652 False 968.000000 968 93.4650 154 807 1 chr1B.!!$F1 653
10 TraesCS2B01G120100 chr5B 699778362 699779012 650 False 985.000000 985 94.0280 159 807 1 chr5B.!!$F1 648
11 TraesCS2B01G120100 chr4B 629957285 629957935 650 True 985.000000 985 94.0280 159 807 1 chr4B.!!$R1 648
12 TraesCS2B01G120100 chr4B 671101309 671101966 657 False 968.000000 968 93.3430 159 812 1 chr4B.!!$F1 653
13 TraesCS2B01G120100 chr4B 96630534 96631945 1411 False 611.000000 811 85.0030 1076 2446 2 chr4B.!!$F2 1370
14 TraesCS2B01G120100 chr6B 195274520 195275169 649 False 977.000000 977 93.8650 160 807 1 chr6B.!!$F1 647
15 TraesCS2B01G120100 chr3D 559108838 559109490 652 True 972.000000 972 93.5880 155 805 1 chr3D.!!$R1 650
16 TraesCS2B01G120100 chr3A 735598884 735599533 649 True 972.000000 972 93.7120 160 807 1 chr3A.!!$R2 647
17 TraesCS2B01G120100 chr7B 74092673 74093331 658 False 966.000000 966 93.2230 160 816 1 chr7B.!!$F1 656
18 TraesCS2B01G120100 chr7B 620579608 620580444 836 True 881.000000 881 86.1310 2609 3440 1 chr7B.!!$R1 831
19 TraesCS2B01G120100 chr7D 559667660 559668501 841 False 948.000000 948 87.4270 2609 3435 1 chr7D.!!$F1 826
20 TraesCS2B01G120100 chr4A 520189347 520190188 841 True 861.000000 861 85.5310 2608 3441 1 chr4A.!!$R1 833
21 TraesCS2B01G120100 chr4A 529633636 529635037 1401 True 608.000000 767 84.8560 1060 2446 2 chr4A.!!$R3 1386
22 TraesCS2B01G120100 chr4D 191270338 191271165 827 True 852.000000 852 85.6480 2609 3440 1 chr4D.!!$R1 831
23 TraesCS2B01G120100 chr4D 65860524 65861883 1359 False 601.000000 771 84.9965 1076 2433 2 chr4D.!!$F1 1357

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
101 102 0.03467 AGAGAAAGAGGGGCATGCAC 60.035 55.0 21.36 17.47 0.0 4.57 F
824 829 0.10412 AGCGCCTGATACGTATGCAA 59.896 50.0 13.97 0.00 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1805 4053 0.676782 GGTGGGATCACGGTGAAAGG 60.677 60.0 15.72 0.0 44.50 3.11 R
2627 5033 1.021968 GCGTGGAACTGAAACTTGGT 58.978 50.0 0.00 0.0 31.75 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
43 44 8.834749 ATAAAGTTTGTAGAGAGAAAGGACAC 57.165 34.615 0.00 0.00 0.00 3.67
44 45 6.487299 AAGTTTGTAGAGAGAAAGGACACT 57.513 37.500 0.00 0.00 0.00 3.55
45 46 5.848406 AGTTTGTAGAGAGAAAGGACACTG 58.152 41.667 0.00 0.00 0.00 3.66
46 47 5.364157 AGTTTGTAGAGAGAAAGGACACTGT 59.636 40.000 0.00 0.00 0.00 3.55
47 48 6.550108 AGTTTGTAGAGAGAAAGGACACTGTA 59.450 38.462 0.00 0.00 0.00 2.74
48 49 6.576662 TTGTAGAGAGAAAGGACACTGTAG 57.423 41.667 0.00 0.00 0.00 2.74
49 50 5.010933 TGTAGAGAGAAAGGACACTGTAGG 58.989 45.833 0.00 0.00 0.00 3.18
50 51 2.829120 AGAGAGAAAGGACACTGTAGGC 59.171 50.000 0.00 0.00 0.00 3.93
51 52 2.563179 GAGAGAAAGGACACTGTAGGCA 59.437 50.000 0.00 0.00 0.00 4.75
52 53 3.177228 AGAGAAAGGACACTGTAGGCAT 58.823 45.455 0.00 0.00 0.00 4.40
53 54 3.055530 AGAGAAAGGACACTGTAGGCATG 60.056 47.826 0.00 0.00 0.00 4.06
54 55 1.740025 GAAAGGACACTGTAGGCATGC 59.260 52.381 9.90 9.90 0.00 4.06
55 56 0.692476 AAGGACACTGTAGGCATGCA 59.308 50.000 21.36 0.00 0.00 3.96
56 57 0.914644 AGGACACTGTAGGCATGCAT 59.085 50.000 21.36 16.31 0.00 3.96
57 58 1.019673 GGACACTGTAGGCATGCATG 58.980 55.000 22.70 22.70 0.00 4.06
58 59 1.679944 GGACACTGTAGGCATGCATGT 60.680 52.381 26.79 11.59 0.00 3.21
59 60 1.399440 GACACTGTAGGCATGCATGTG 59.601 52.381 26.79 18.68 0.00 3.21
60 61 1.271543 ACACTGTAGGCATGCATGTGT 60.272 47.619 26.79 19.34 32.72 3.72
61 62 2.027285 ACACTGTAGGCATGCATGTGTA 60.027 45.455 26.79 15.78 34.36 2.90
62 63 3.009026 CACTGTAGGCATGCATGTGTAA 58.991 45.455 26.79 8.59 0.00 2.41
63 64 3.064408 CACTGTAGGCATGCATGTGTAAG 59.936 47.826 26.79 19.01 0.00 2.34
64 65 3.055167 ACTGTAGGCATGCATGTGTAAGA 60.055 43.478 26.79 8.91 0.00 2.10
65 66 3.270027 TGTAGGCATGCATGTGTAAGAC 58.730 45.455 26.79 16.11 0.00 3.01
66 67 2.795231 AGGCATGCATGTGTAAGACT 57.205 45.000 26.79 5.21 0.00 3.24
67 68 2.362736 AGGCATGCATGTGTAAGACTG 58.637 47.619 26.79 0.05 0.00 3.51
68 69 2.086869 GGCATGCATGTGTAAGACTGT 58.913 47.619 26.79 0.00 0.00 3.55
69 70 2.159476 GGCATGCATGTGTAAGACTGTG 60.159 50.000 26.79 0.00 0.00 3.66
70 71 2.159476 GCATGCATGTGTAAGACTGTGG 60.159 50.000 26.79 0.00 0.00 4.17
71 72 2.928801 TGCATGTGTAAGACTGTGGT 57.071 45.000 0.00 0.00 0.00 4.16
72 73 2.493035 TGCATGTGTAAGACTGTGGTG 58.507 47.619 0.00 0.00 0.00 4.17
73 74 2.103941 TGCATGTGTAAGACTGTGGTGA 59.896 45.455 0.00 0.00 0.00 4.02
74 75 3.244526 TGCATGTGTAAGACTGTGGTGAT 60.245 43.478 0.00 0.00 0.00 3.06
75 76 3.125829 GCATGTGTAAGACTGTGGTGATG 59.874 47.826 0.00 0.00 0.00 3.07
76 77 4.568956 CATGTGTAAGACTGTGGTGATGA 58.431 43.478 0.00 0.00 0.00 2.92
77 78 4.681074 TGTGTAAGACTGTGGTGATGAA 57.319 40.909 0.00 0.00 0.00 2.57
78 79 5.029807 TGTGTAAGACTGTGGTGATGAAA 57.970 39.130 0.00 0.00 0.00 2.69
79 80 5.432645 TGTGTAAGACTGTGGTGATGAAAA 58.567 37.500 0.00 0.00 0.00 2.29
80 81 5.527214 TGTGTAAGACTGTGGTGATGAAAAG 59.473 40.000 0.00 0.00 0.00 2.27
81 82 5.049405 GTGTAAGACTGTGGTGATGAAAAGG 60.049 44.000 0.00 0.00 0.00 3.11
82 83 4.437682 AAGACTGTGGTGATGAAAAGGA 57.562 40.909 0.00 0.00 0.00 3.36
83 84 4.013267 AGACTGTGGTGATGAAAAGGAG 57.987 45.455 0.00 0.00 0.00 3.69
84 85 3.648067 AGACTGTGGTGATGAAAAGGAGA 59.352 43.478 0.00 0.00 0.00 3.71
85 86 3.999663 GACTGTGGTGATGAAAAGGAGAG 59.000 47.826 0.00 0.00 0.00 3.20
86 87 3.648067 ACTGTGGTGATGAAAAGGAGAGA 59.352 43.478 0.00 0.00 0.00 3.10
87 88 4.103153 ACTGTGGTGATGAAAAGGAGAGAA 59.897 41.667 0.00 0.00 0.00 2.87
88 89 5.047566 TGTGGTGATGAAAAGGAGAGAAA 57.952 39.130 0.00 0.00 0.00 2.52
89 90 5.065914 TGTGGTGATGAAAAGGAGAGAAAG 58.934 41.667 0.00 0.00 0.00 2.62
90 91 5.163205 TGTGGTGATGAAAAGGAGAGAAAGA 60.163 40.000 0.00 0.00 0.00 2.52
91 92 5.411053 GTGGTGATGAAAAGGAGAGAAAGAG 59.589 44.000 0.00 0.00 0.00 2.85
92 93 4.940654 GGTGATGAAAAGGAGAGAAAGAGG 59.059 45.833 0.00 0.00 0.00 3.69
93 94 4.940654 GTGATGAAAAGGAGAGAAAGAGGG 59.059 45.833 0.00 0.00 0.00 4.30
94 95 4.018960 TGATGAAAAGGAGAGAAAGAGGGG 60.019 45.833 0.00 0.00 0.00 4.79
95 96 2.040412 TGAAAAGGAGAGAAAGAGGGGC 59.960 50.000 0.00 0.00 0.00 5.80
96 97 1.747444 AAAGGAGAGAAAGAGGGGCA 58.253 50.000 0.00 0.00 0.00 5.36
97 98 1.978361 AAGGAGAGAAAGAGGGGCAT 58.022 50.000 0.00 0.00 0.00 4.40
98 99 1.211456 AGGAGAGAAAGAGGGGCATG 58.789 55.000 0.00 0.00 0.00 4.06
99 100 0.465278 GGAGAGAAAGAGGGGCATGC 60.465 60.000 9.90 9.90 0.00 4.06
100 101 0.254178 GAGAGAAAGAGGGGCATGCA 59.746 55.000 21.36 0.00 0.00 3.96
101 102 0.034670 AGAGAAAGAGGGGCATGCAC 60.035 55.000 21.36 17.47 0.00 4.57
102 103 0.322816 GAGAAAGAGGGGCATGCACA 60.323 55.000 23.88 0.00 0.00 4.57
103 104 0.333993 AGAAAGAGGGGCATGCACAT 59.666 50.000 23.88 16.64 0.00 3.21
104 105 0.458669 GAAAGAGGGGCATGCACATG 59.541 55.000 23.88 6.25 41.60 3.21
126 127 5.485662 GCGAAGTGCAAATAGTTAGGATT 57.514 39.130 0.00 0.00 45.45 3.01
127 128 6.598753 GCGAAGTGCAAATAGTTAGGATTA 57.401 37.500 0.00 0.00 45.45 1.75
128 129 6.650372 GCGAAGTGCAAATAGTTAGGATTAG 58.350 40.000 0.00 0.00 45.45 1.73
129 130 6.650372 CGAAGTGCAAATAGTTAGGATTAGC 58.350 40.000 0.00 0.00 0.00 3.09
130 131 6.292919 CGAAGTGCAAATAGTTAGGATTAGCC 60.293 42.308 0.00 0.00 0.00 3.93
144 145 4.952460 GGATTAGCCTTATTGGTACGTGA 58.048 43.478 0.00 0.00 38.35 4.35
145 146 4.989168 GGATTAGCCTTATTGGTACGTGAG 59.011 45.833 0.00 0.00 38.35 3.51
146 147 2.311124 AGCCTTATTGGTACGTGAGC 57.689 50.000 0.00 0.00 38.35 4.26
147 148 1.553248 AGCCTTATTGGTACGTGAGCA 59.447 47.619 0.00 0.00 38.35 4.26
148 149 1.664151 GCCTTATTGGTACGTGAGCAC 59.336 52.381 0.00 0.00 38.35 4.40
153 154 3.066198 GGTACGTGAGCACCCCTT 58.934 61.111 0.00 0.00 41.89 3.95
154 155 2.279842 GGTACGTGAGCACCCCTTA 58.720 57.895 0.00 0.00 41.89 2.69
155 156 0.828677 GGTACGTGAGCACCCCTTAT 59.171 55.000 0.00 0.00 41.89 1.73
156 157 1.208776 GGTACGTGAGCACCCCTTATT 59.791 52.381 0.00 0.00 41.89 1.40
157 158 2.547826 GTACGTGAGCACCCCTTATTC 58.452 52.381 0.00 0.00 0.00 1.75
219 220 4.465632 TCATGGCAGTACAACGAATACT 57.534 40.909 0.00 0.00 32.98 2.12
257 258 3.972133 TCCAGATTCGTAGACCACCTAA 58.028 45.455 0.00 0.00 34.32 2.69
282 283 1.060698 GATTACAAGCACCGAAGCGAC 59.939 52.381 0.00 0.00 40.15 5.19
398 399 1.150536 GACCAGCACCCCAGAACAA 59.849 57.895 0.00 0.00 0.00 2.83
510 511 3.114606 TCCACCAAAGATAGATCTGCCA 58.885 45.455 5.18 0.00 37.19 4.92
788 793 5.529800 CGAACCCTAACTTTCTTTCTTGGAA 59.470 40.000 0.00 0.00 0.00 3.53
798 803 5.646692 TTCTTTCTTGGAAAAGGAGGAGA 57.353 39.130 0.00 0.00 36.97 3.71
802 807 2.040412 TCTTGGAAAAGGAGGAGAAGGC 59.960 50.000 0.00 0.00 0.00 4.35
819 824 3.028130 CGGAGCGCCTGATACGTA 58.972 61.111 2.29 0.00 0.00 3.57
820 825 1.579932 CGGAGCGCCTGATACGTAT 59.420 57.895 8.05 8.05 0.00 3.06
821 826 0.729478 CGGAGCGCCTGATACGTATG 60.729 60.000 13.97 0.00 0.00 2.39
822 827 1.009389 GGAGCGCCTGATACGTATGC 61.009 60.000 13.97 9.71 0.00 3.14
823 828 0.318699 GAGCGCCTGATACGTATGCA 60.319 55.000 13.97 9.77 0.00 3.96
824 829 0.104120 AGCGCCTGATACGTATGCAA 59.896 50.000 13.97 0.00 0.00 4.08
825 830 0.232303 GCGCCTGATACGTATGCAAC 59.768 55.000 13.97 0.00 0.00 4.17
826 831 0.859232 CGCCTGATACGTATGCAACC 59.141 55.000 13.97 0.00 0.00 3.77
827 832 1.226746 GCCTGATACGTATGCAACCC 58.773 55.000 13.97 0.00 0.00 4.11
828 833 1.202651 GCCTGATACGTATGCAACCCT 60.203 52.381 13.97 0.00 0.00 4.34
829 834 2.745152 GCCTGATACGTATGCAACCCTT 60.745 50.000 13.97 0.00 0.00 3.95
830 835 3.541632 CCTGATACGTATGCAACCCTTT 58.458 45.455 13.97 0.00 0.00 3.11
831 836 3.312421 CCTGATACGTATGCAACCCTTTG 59.688 47.826 13.97 0.00 35.62 2.77
832 837 3.938963 CTGATACGTATGCAACCCTTTGT 59.061 43.478 13.97 0.00 34.90 2.83
833 838 5.087391 TGATACGTATGCAACCCTTTGTA 57.913 39.130 13.97 0.00 34.90 2.41
834 839 5.489249 TGATACGTATGCAACCCTTTGTAA 58.511 37.500 13.97 0.00 34.90 2.41
835 840 6.116806 TGATACGTATGCAACCCTTTGTAAT 58.883 36.000 13.97 0.00 34.90 1.89
836 841 6.600032 TGATACGTATGCAACCCTTTGTAATT 59.400 34.615 13.97 0.00 34.90 1.40
837 842 5.305139 ACGTATGCAACCCTTTGTAATTC 57.695 39.130 0.00 0.00 34.90 2.17
838 843 4.142773 ACGTATGCAACCCTTTGTAATTCG 60.143 41.667 0.00 0.00 34.90 3.34
839 844 4.142773 CGTATGCAACCCTTTGTAATTCGT 60.143 41.667 0.00 0.00 34.90 3.85
840 845 3.634568 TGCAACCCTTTGTAATTCGTG 57.365 42.857 0.00 0.00 34.90 4.35
841 846 3.215151 TGCAACCCTTTGTAATTCGTGA 58.785 40.909 0.00 0.00 34.90 4.35
842 847 3.252215 TGCAACCCTTTGTAATTCGTGAG 59.748 43.478 0.00 0.00 34.90 3.51
843 848 3.821841 CAACCCTTTGTAATTCGTGAGC 58.178 45.455 0.00 0.00 0.00 4.26
844 849 3.134574 ACCCTTTGTAATTCGTGAGCA 57.865 42.857 0.00 0.00 0.00 4.26
845 850 2.812011 ACCCTTTGTAATTCGTGAGCAC 59.188 45.455 0.00 0.00 0.00 4.40
846 851 2.161609 CCCTTTGTAATTCGTGAGCACC 59.838 50.000 0.00 0.00 0.00 5.01
847 852 3.074412 CCTTTGTAATTCGTGAGCACCT 58.926 45.455 0.00 0.00 0.00 4.00
848 853 3.502211 CCTTTGTAATTCGTGAGCACCTT 59.498 43.478 0.00 0.00 0.00 3.50
849 854 4.693566 CCTTTGTAATTCGTGAGCACCTTA 59.306 41.667 0.00 0.00 0.00 2.69
850 855 5.354234 CCTTTGTAATTCGTGAGCACCTTAT 59.646 40.000 0.00 0.00 0.00 1.73
851 856 6.128007 CCTTTGTAATTCGTGAGCACCTTATT 60.128 38.462 0.00 0.00 0.00 1.40
852 857 6.417191 TTGTAATTCGTGAGCACCTTATTC 57.583 37.500 0.00 0.00 0.00 1.75
853 858 4.565166 TGTAATTCGTGAGCACCTTATTCG 59.435 41.667 0.00 0.00 0.00 3.34
861 866 5.039333 GTGAGCACCTTATTCGTACGTAAT 58.961 41.667 16.05 15.01 0.00 1.89
873 878 4.106909 TCGTACGTAATGATCACGCATTT 58.893 39.130 16.05 0.00 43.10 2.32
875 880 4.027214 CGTACGTAATGATCACGCATTTGA 60.027 41.667 7.22 0.00 43.10 2.69
924 937 3.326747 GAACCTTAGCAACTCGTGACAT 58.673 45.455 0.00 0.00 0.00 3.06
947 960 4.451096 TCAACCGAAGCAAAGTAATCAGAC 59.549 41.667 0.00 0.00 0.00 3.51
994 1014 5.046290 TCGATTCGATACGATACGATACG 57.954 43.478 4.29 0.00 38.19 3.06
995 1015 4.793216 TCGATTCGATACGATACGATACGA 59.207 41.667 4.29 17.47 40.51 3.43
996 1016 5.052764 TCGATTCGATACGATACGATACGAG 60.053 44.000 4.29 0.00 39.30 4.18
1005 1025 3.241709 CGATACGATACGAGACGATGGAG 60.242 52.174 0.00 0.00 0.00 3.86
1078 1098 4.974438 TCTCCGGTGCCCAAGGGT 62.974 66.667 7.05 0.00 37.65 4.34
1149 1175 1.346068 GACAGCAACCTGGTCTTCTCT 59.654 52.381 0.00 0.00 43.53 3.10
1805 4053 0.232303 CAAGACAGACGCACCGAAAC 59.768 55.000 0.00 0.00 0.00 2.78
1824 4072 0.676782 CCTTTCACCGTGATCCCACC 60.677 60.000 1.09 0.00 40.12 4.61
1830 4078 2.350895 CGTGATCCCACCAAGCCA 59.649 61.111 0.00 0.00 40.12 4.75
1876 4124 1.006805 CTCGGCCATCCTGATCGAC 60.007 63.158 2.24 0.00 0.00 4.20
1910 4212 2.639327 GCCAGCCCAACGCATCTTT 61.639 57.895 0.00 0.00 41.38 2.52
2001 4351 4.702081 GACGACGGTCTGCGCAGT 62.702 66.667 34.70 18.61 40.15 4.40
2010 4360 2.879933 CTGCGCAGTCTGCTCGAG 60.880 66.667 29.24 8.45 42.25 4.04
2066 4416 0.539051 CTGCCTACTCAGAAGGTGGG 59.461 60.000 0.00 0.00 38.18 4.61
2246 4597 0.517316 GTCATCCACAAAGCGGTCAC 59.483 55.000 0.00 0.00 0.00 3.67
2267 4618 2.232298 GAGGTGAACGAGGAGGGCAG 62.232 65.000 0.00 0.00 0.00 4.85
2268 4619 2.283529 GGTGAACGAGGAGGGCAGA 61.284 63.158 0.00 0.00 0.00 4.26
2299 4659 2.676750 GCCGTCACCATGTGTCTTATGA 60.677 50.000 0.00 0.00 34.79 2.15
2312 4672 0.830648 CTTATGAAGGAGGGGTGCGA 59.169 55.000 0.00 0.00 0.00 5.10
2448 4818 3.187700 CCTCGACACAATAGTAGCAACC 58.812 50.000 0.00 0.00 0.00 3.77
2462 4832 3.073274 AGCAACCTAGGATGTTGGAAC 57.927 47.619 17.98 0.00 42.58 3.62
2481 4851 5.163385 TGGAACTCCCGTATTTCGAATACAT 60.163 40.000 0.00 0.00 42.86 2.29
2582 4988 4.991153 AGTTGATCTGCTCGAGTGATTA 57.009 40.909 15.13 11.76 0.00 1.75
2598 5004 1.084370 ATTACTCGCTGGCTCGTTGC 61.084 55.000 0.33 0.00 41.94 4.17
2603 5009 2.666190 GCTGGCTCGTTGCTGTCA 60.666 61.111 3.58 0.00 42.39 3.58
2604 5010 2.959357 GCTGGCTCGTTGCTGTCAC 61.959 63.158 3.58 0.00 42.39 3.67
2605 5011 1.301244 CTGGCTCGTTGCTGTCACT 60.301 57.895 3.58 0.00 42.39 3.41
2606 5012 0.038251 CTGGCTCGTTGCTGTCACTA 60.038 55.000 3.58 0.00 42.39 2.74
2623 5029 6.826668 TGTCACTAAAGTTTCAGATTCCTCA 58.173 36.000 0.00 0.00 0.00 3.86
2624 5030 6.931281 TGTCACTAAAGTTTCAGATTCCTCAG 59.069 38.462 0.00 0.00 0.00 3.35
2625 5031 7.155328 GTCACTAAAGTTTCAGATTCCTCAGA 58.845 38.462 0.00 0.00 0.00 3.27
2627 5033 8.210946 TCACTAAAGTTTCAGATTCCTCAGAAA 58.789 33.333 0.00 0.00 35.33 2.52
2688 5096 0.921896 AGCATGGCCATTAGAGGTGT 59.078 50.000 17.92 0.00 0.00 4.16
2717 5125 3.940852 TGCCTTTAGTGCACTGATACATG 59.059 43.478 29.57 11.62 32.85 3.21
2718 5126 4.191544 GCCTTTAGTGCACTGATACATGA 58.808 43.478 29.57 3.27 0.00 3.07
2719 5127 4.818546 GCCTTTAGTGCACTGATACATGAT 59.181 41.667 29.57 0.97 0.00 2.45
2843 5272 1.136147 GCATTCCAGCGAGCAAGTG 59.864 57.895 0.00 0.00 0.00 3.16
3009 5443 4.631377 TGAATCTTTGCATCGACGATCTTT 59.369 37.500 7.54 0.00 0.00 2.52
3017 5451 3.484229 GCATCGACGATCTTTCCAAACAG 60.484 47.826 7.54 0.00 0.00 3.16
3184 5639 0.880278 TCCTGTTCAACTGCTGCGTC 60.880 55.000 0.00 0.00 0.00 5.19
3220 5675 1.089920 GTAGCCAATGACAGTGCAGG 58.910 55.000 0.00 0.00 0.00 4.85
3251 5707 1.944177 ACAGGCATCCAGTAGACAGT 58.056 50.000 0.00 0.00 0.00 3.55
3253 5709 1.134580 CAGGCATCCAGTAGACAGTGG 60.135 57.143 0.00 0.00 45.49 4.00
3298 5755 0.927537 TGTCGCAAACTGTTGTCGAG 59.072 50.000 14.71 1.28 40.98 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 9.274206 GTGTCCTTTCTCTCTACAAACTTTATT 57.726 33.333 0.00 0.00 0.00 1.40
18 19 8.652290 AGTGTCCTTTCTCTCTACAAACTTTAT 58.348 33.333 0.00 0.00 0.00 1.40
19 20 7.926555 CAGTGTCCTTTCTCTCTACAAACTTTA 59.073 37.037 0.00 0.00 0.00 1.85
20 21 6.763610 CAGTGTCCTTTCTCTCTACAAACTTT 59.236 38.462 0.00 0.00 0.00 2.66
21 22 6.127026 ACAGTGTCCTTTCTCTCTACAAACTT 60.127 38.462 0.00 0.00 0.00 2.66
22 23 5.364157 ACAGTGTCCTTTCTCTCTACAAACT 59.636 40.000 0.00 0.00 0.00 2.66
23 24 5.602628 ACAGTGTCCTTTCTCTCTACAAAC 58.397 41.667 0.00 0.00 0.00 2.93
24 25 5.871396 ACAGTGTCCTTTCTCTCTACAAA 57.129 39.130 0.00 0.00 0.00 2.83
25 26 5.477291 CCTACAGTGTCCTTTCTCTCTACAA 59.523 44.000 0.00 0.00 0.00 2.41
26 27 5.010933 CCTACAGTGTCCTTTCTCTCTACA 58.989 45.833 0.00 0.00 0.00 2.74
27 28 4.142337 GCCTACAGTGTCCTTTCTCTCTAC 60.142 50.000 0.00 0.00 0.00 2.59
28 29 4.017808 GCCTACAGTGTCCTTTCTCTCTA 58.982 47.826 0.00 0.00 0.00 2.43
29 30 2.829120 GCCTACAGTGTCCTTTCTCTCT 59.171 50.000 0.00 0.00 0.00 3.10
30 31 2.563179 TGCCTACAGTGTCCTTTCTCTC 59.437 50.000 0.00 0.00 0.00 3.20
31 32 2.609747 TGCCTACAGTGTCCTTTCTCT 58.390 47.619 0.00 0.00 0.00 3.10
32 33 3.265791 CATGCCTACAGTGTCCTTTCTC 58.734 50.000 0.00 0.00 0.00 2.87
33 34 2.616510 GCATGCCTACAGTGTCCTTTCT 60.617 50.000 6.36 0.00 0.00 2.52
34 35 1.740025 GCATGCCTACAGTGTCCTTTC 59.260 52.381 6.36 0.00 0.00 2.62
35 36 1.073763 TGCATGCCTACAGTGTCCTTT 59.926 47.619 16.68 0.00 0.00 3.11
36 37 0.692476 TGCATGCCTACAGTGTCCTT 59.308 50.000 16.68 0.00 0.00 3.36
37 38 0.914644 ATGCATGCCTACAGTGTCCT 59.085 50.000 16.68 0.00 0.00 3.85
38 39 1.019673 CATGCATGCCTACAGTGTCC 58.980 55.000 14.93 0.00 0.00 4.02
39 40 1.399440 CACATGCATGCCTACAGTGTC 59.601 52.381 26.53 0.00 0.00 3.67
40 41 1.271543 ACACATGCATGCCTACAGTGT 60.272 47.619 26.53 17.48 34.26 3.55
41 42 1.456296 ACACATGCATGCCTACAGTG 58.544 50.000 26.53 16.84 0.00 3.66
42 43 3.055167 TCTTACACATGCATGCCTACAGT 60.055 43.478 26.53 16.29 0.00 3.55
43 44 3.310774 GTCTTACACATGCATGCCTACAG 59.689 47.826 26.53 15.33 0.00 2.74
44 45 3.055167 AGTCTTACACATGCATGCCTACA 60.055 43.478 26.53 6.32 0.00 2.74
45 46 3.310774 CAGTCTTACACATGCATGCCTAC 59.689 47.826 26.53 15.07 0.00 3.18
46 47 3.055167 ACAGTCTTACACATGCATGCCTA 60.055 43.478 26.53 12.73 0.00 3.93
47 48 2.290514 ACAGTCTTACACATGCATGCCT 60.291 45.455 26.53 13.77 0.00 4.75
48 49 2.086869 ACAGTCTTACACATGCATGCC 58.913 47.619 26.53 5.96 0.00 4.40
49 50 2.159476 CCACAGTCTTACACATGCATGC 60.159 50.000 26.53 11.82 0.00 4.06
50 51 3.076621 ACCACAGTCTTACACATGCATG 58.923 45.455 25.09 25.09 0.00 4.06
51 52 3.076621 CACCACAGTCTTACACATGCAT 58.923 45.455 0.00 0.00 0.00 3.96
52 53 2.103941 TCACCACAGTCTTACACATGCA 59.896 45.455 0.00 0.00 0.00 3.96
53 54 2.766313 TCACCACAGTCTTACACATGC 58.234 47.619 0.00 0.00 0.00 4.06
54 55 4.568956 TCATCACCACAGTCTTACACATG 58.431 43.478 0.00 0.00 0.00 3.21
55 56 4.890158 TCATCACCACAGTCTTACACAT 57.110 40.909 0.00 0.00 0.00 3.21
56 57 4.681074 TTCATCACCACAGTCTTACACA 57.319 40.909 0.00 0.00 0.00 3.72
57 58 5.049405 CCTTTTCATCACCACAGTCTTACAC 60.049 44.000 0.00 0.00 0.00 2.90
58 59 5.063204 CCTTTTCATCACCACAGTCTTACA 58.937 41.667 0.00 0.00 0.00 2.41
59 60 5.305585 TCCTTTTCATCACCACAGTCTTAC 58.694 41.667 0.00 0.00 0.00 2.34
60 61 5.306937 TCTCCTTTTCATCACCACAGTCTTA 59.693 40.000 0.00 0.00 0.00 2.10
61 62 4.103153 TCTCCTTTTCATCACCACAGTCTT 59.897 41.667 0.00 0.00 0.00 3.01
62 63 3.648067 TCTCCTTTTCATCACCACAGTCT 59.352 43.478 0.00 0.00 0.00 3.24
63 64 3.999663 CTCTCCTTTTCATCACCACAGTC 59.000 47.826 0.00 0.00 0.00 3.51
64 65 3.648067 TCTCTCCTTTTCATCACCACAGT 59.352 43.478 0.00 0.00 0.00 3.55
65 66 4.277515 TCTCTCCTTTTCATCACCACAG 57.722 45.455 0.00 0.00 0.00 3.66
66 67 4.705110 TTCTCTCCTTTTCATCACCACA 57.295 40.909 0.00 0.00 0.00 4.17
67 68 5.308825 TCTTTCTCTCCTTTTCATCACCAC 58.691 41.667 0.00 0.00 0.00 4.16
68 69 5.513788 CCTCTTTCTCTCCTTTTCATCACCA 60.514 44.000 0.00 0.00 0.00 4.17
69 70 4.940654 CCTCTTTCTCTCCTTTTCATCACC 59.059 45.833 0.00 0.00 0.00 4.02
70 71 4.940654 CCCTCTTTCTCTCCTTTTCATCAC 59.059 45.833 0.00 0.00 0.00 3.06
71 72 4.018960 CCCCTCTTTCTCTCCTTTTCATCA 60.019 45.833 0.00 0.00 0.00 3.07
72 73 4.522114 CCCCTCTTTCTCTCCTTTTCATC 58.478 47.826 0.00 0.00 0.00 2.92
73 74 3.308760 GCCCCTCTTTCTCTCCTTTTCAT 60.309 47.826 0.00 0.00 0.00 2.57
74 75 2.040412 GCCCCTCTTTCTCTCCTTTTCA 59.960 50.000 0.00 0.00 0.00 2.69
75 76 2.040412 TGCCCCTCTTTCTCTCCTTTTC 59.960 50.000 0.00 0.00 0.00 2.29
76 77 2.065799 TGCCCCTCTTTCTCTCCTTTT 58.934 47.619 0.00 0.00 0.00 2.27
77 78 1.747444 TGCCCCTCTTTCTCTCCTTT 58.253 50.000 0.00 0.00 0.00 3.11
78 79 1.563410 CATGCCCCTCTTTCTCTCCTT 59.437 52.381 0.00 0.00 0.00 3.36
79 80 1.211456 CATGCCCCTCTTTCTCTCCT 58.789 55.000 0.00 0.00 0.00 3.69
80 81 0.465278 GCATGCCCCTCTTTCTCTCC 60.465 60.000 6.36 0.00 0.00 3.71
81 82 0.254178 TGCATGCCCCTCTTTCTCTC 59.746 55.000 16.68 0.00 0.00 3.20
82 83 0.034670 GTGCATGCCCCTCTTTCTCT 60.035 55.000 16.68 0.00 0.00 3.10
83 84 0.322816 TGTGCATGCCCCTCTTTCTC 60.323 55.000 16.68 0.00 0.00 2.87
84 85 0.333993 ATGTGCATGCCCCTCTTTCT 59.666 50.000 16.68 0.00 0.00 2.52
85 86 0.458669 CATGTGCATGCCCCTCTTTC 59.541 55.000 16.68 0.00 31.39 2.62
86 87 2.587080 CATGTGCATGCCCCTCTTT 58.413 52.632 16.68 0.00 31.39 2.52
87 88 4.349682 CATGTGCATGCCCCTCTT 57.650 55.556 16.68 0.00 31.39 2.85
104 105 5.485662 AATCCTAACTATTTGCACTTCGC 57.514 39.130 0.00 0.00 42.89 4.70
105 106 6.292919 GGCTAATCCTAACTATTTGCACTTCG 60.293 42.308 0.00 0.00 36.98 3.79
106 107 6.768381 AGGCTAATCCTAACTATTTGCACTTC 59.232 38.462 0.00 0.00 45.41 3.01
107 108 6.663734 AGGCTAATCCTAACTATTTGCACTT 58.336 36.000 0.00 0.00 45.41 3.16
108 109 6.253946 AGGCTAATCCTAACTATTTGCACT 57.746 37.500 0.00 0.00 45.41 4.40
109 110 6.944234 AAGGCTAATCCTAACTATTTGCAC 57.056 37.500 0.00 0.00 46.94 4.57
110 111 9.066892 CAATAAGGCTAATCCTAACTATTTGCA 57.933 33.333 0.00 0.00 46.94 4.08
111 112 8.515414 CCAATAAGGCTAATCCTAACTATTTGC 58.485 37.037 0.00 0.00 46.94 3.68
112 113 9.574516 ACCAATAAGGCTAATCCTAACTATTTG 57.425 33.333 0.00 0.00 46.94 2.32
115 116 8.529476 CGTACCAATAAGGCTAATCCTAACTAT 58.471 37.037 0.00 0.00 46.94 2.12
116 117 7.506938 ACGTACCAATAAGGCTAATCCTAACTA 59.493 37.037 0.00 0.00 46.94 2.24
117 118 6.325804 ACGTACCAATAAGGCTAATCCTAACT 59.674 38.462 0.00 0.00 46.94 2.24
118 119 6.423001 CACGTACCAATAAGGCTAATCCTAAC 59.577 42.308 0.00 0.00 46.94 2.34
119 120 6.324512 TCACGTACCAATAAGGCTAATCCTAA 59.675 38.462 0.00 0.00 46.94 2.69
120 121 5.834742 TCACGTACCAATAAGGCTAATCCTA 59.165 40.000 0.00 0.00 46.94 2.94
122 123 4.952460 TCACGTACCAATAAGGCTAATCC 58.048 43.478 0.00 0.00 43.14 3.01
123 124 4.448060 GCTCACGTACCAATAAGGCTAATC 59.552 45.833 0.00 0.00 43.14 1.75
124 125 4.141801 TGCTCACGTACCAATAAGGCTAAT 60.142 41.667 0.00 0.00 43.14 1.73
125 126 3.196039 TGCTCACGTACCAATAAGGCTAA 59.804 43.478 0.00 0.00 43.14 3.09
126 127 2.761767 TGCTCACGTACCAATAAGGCTA 59.238 45.455 0.00 0.00 43.14 3.93
127 128 1.553248 TGCTCACGTACCAATAAGGCT 59.447 47.619 0.00 0.00 43.14 4.58
128 129 1.664151 GTGCTCACGTACCAATAAGGC 59.336 52.381 0.00 0.00 43.14 4.35
129 130 2.277084 GGTGCTCACGTACCAATAAGG 58.723 52.381 0.20 0.00 44.40 2.69
130 131 2.277084 GGGTGCTCACGTACCAATAAG 58.723 52.381 7.50 0.00 46.53 1.73
131 132 1.065998 GGGGTGCTCACGTACCAATAA 60.066 52.381 7.50 0.00 46.53 1.40
132 133 0.538118 GGGGTGCTCACGTACCAATA 59.462 55.000 7.50 0.00 46.53 1.90
133 134 1.198759 AGGGGTGCTCACGTACCAAT 61.199 55.000 7.50 0.00 46.53 3.16
134 135 1.412453 AAGGGGTGCTCACGTACCAA 61.412 55.000 7.50 0.00 46.53 3.67
135 136 0.542467 TAAGGGGTGCTCACGTACCA 60.542 55.000 7.50 0.00 46.53 3.25
136 137 0.828677 ATAAGGGGTGCTCACGTACC 59.171 55.000 0.00 0.00 44.29 3.34
137 138 2.167900 AGAATAAGGGGTGCTCACGTAC 59.832 50.000 0.00 0.00 0.00 3.67
138 139 2.463752 AGAATAAGGGGTGCTCACGTA 58.536 47.619 0.00 0.00 0.00 3.57
139 140 1.276622 AGAATAAGGGGTGCTCACGT 58.723 50.000 0.00 0.00 0.00 4.49
140 141 2.403252 AAGAATAAGGGGTGCTCACG 57.597 50.000 0.00 0.00 0.00 4.35
193 194 3.261580 TCGTTGTACTGCCATGATTGAG 58.738 45.455 0.00 0.00 0.00 3.02
257 258 0.241749 TCGGTGCTTGTAATCGTCGT 59.758 50.000 0.00 0.00 0.00 4.34
376 377 1.198759 TTCTGGGGTGCTGGTCCTAC 61.199 60.000 0.00 0.00 0.00 3.18
398 399 4.690719 TTCATCGGCGGCGGTTGT 62.691 61.111 31.73 12.34 0.00 3.32
439 440 2.048498 CGTTCGTGTGTCTTCGATTCA 58.952 47.619 0.00 0.00 36.01 2.57
440 441 2.049228 ACGTTCGTGTGTCTTCGATTC 58.951 47.619 0.00 0.00 36.01 2.52
443 444 1.866601 TCTACGTTCGTGTGTCTTCGA 59.133 47.619 8.14 0.00 0.00 3.71
510 511 2.041976 CGTGTGGAGGTGTGTCTCT 58.958 57.895 0.00 0.00 34.39 3.10
574 575 3.718956 CTCCCCATGGAATAAAGGTCTCT 59.281 47.826 15.22 0.00 41.17 3.10
653 658 1.553704 AGGGCTCCGTTTCTAATCGTT 59.446 47.619 0.00 0.00 0.00 3.85
654 659 1.136500 GAGGGCTCCGTTTCTAATCGT 59.864 52.381 0.00 0.00 0.00 3.73
714 719 0.465097 CTCGTCTCCGGTAGCCCTAA 60.465 60.000 0.00 0.00 33.95 2.69
721 726 4.100084 TCCGCCTCGTCTCCGGTA 62.100 66.667 0.00 0.00 42.48 4.02
788 793 1.904990 GCTCCGCCTTCTCCTCCTTT 61.905 60.000 0.00 0.00 0.00 3.11
802 807 0.729478 CATACGTATCAGGCGCTCCG 60.729 60.000 7.64 3.38 37.47 4.63
807 812 0.859232 GGTTGCATACGTATCAGGCG 59.141 55.000 4.74 0.00 0.00 5.52
808 813 1.202651 AGGGTTGCATACGTATCAGGC 60.203 52.381 4.74 7.25 0.00 4.85
809 814 2.910688 AGGGTTGCATACGTATCAGG 57.089 50.000 4.74 0.00 0.00 3.86
811 816 3.945346 ACAAAGGGTTGCATACGTATCA 58.055 40.909 4.74 4.47 38.39 2.15
812 817 6.613755 ATTACAAAGGGTTGCATACGTATC 57.386 37.500 4.74 1.78 38.39 2.24
813 818 6.238266 CGAATTACAAAGGGTTGCATACGTAT 60.238 38.462 1.14 1.14 38.39 3.06
814 819 5.063691 CGAATTACAAAGGGTTGCATACGTA 59.936 40.000 0.00 0.00 38.39 3.57
815 820 4.142773 CGAATTACAAAGGGTTGCATACGT 60.143 41.667 0.00 0.00 38.39 3.57
816 821 4.142773 ACGAATTACAAAGGGTTGCATACG 60.143 41.667 0.00 0.00 38.39 3.06
817 822 5.092781 CACGAATTACAAAGGGTTGCATAC 58.907 41.667 0.00 0.00 38.39 2.39
818 823 5.004448 TCACGAATTACAAAGGGTTGCATA 58.996 37.500 0.00 0.00 38.39 3.14
819 824 3.823873 TCACGAATTACAAAGGGTTGCAT 59.176 39.130 0.00 0.00 38.39 3.96
820 825 3.215151 TCACGAATTACAAAGGGTTGCA 58.785 40.909 0.00 0.00 38.39 4.08
821 826 3.821841 CTCACGAATTACAAAGGGTTGC 58.178 45.455 0.00 0.00 38.39 4.17
822 827 3.252215 TGCTCACGAATTACAAAGGGTTG 59.748 43.478 0.00 0.00 40.84 3.77
823 828 3.252458 GTGCTCACGAATTACAAAGGGTT 59.748 43.478 0.00 0.00 0.00 4.11
824 829 2.812011 GTGCTCACGAATTACAAAGGGT 59.188 45.455 0.00 0.00 0.00 4.34
825 830 2.161609 GGTGCTCACGAATTACAAAGGG 59.838 50.000 0.00 0.00 0.00 3.95
826 831 3.074412 AGGTGCTCACGAATTACAAAGG 58.926 45.455 0.00 0.00 0.00 3.11
827 832 4.749245 AAGGTGCTCACGAATTACAAAG 57.251 40.909 0.00 0.00 0.00 2.77
828 833 6.401688 CGAATAAGGTGCTCACGAATTACAAA 60.402 38.462 0.00 0.00 0.00 2.83
829 834 5.062934 CGAATAAGGTGCTCACGAATTACAA 59.937 40.000 0.00 0.00 0.00 2.41
830 835 4.565166 CGAATAAGGTGCTCACGAATTACA 59.435 41.667 0.00 0.00 0.00 2.41
831 836 4.565564 ACGAATAAGGTGCTCACGAATTAC 59.434 41.667 0.00 0.00 0.00 1.89
832 837 4.751060 ACGAATAAGGTGCTCACGAATTA 58.249 39.130 0.00 0.00 0.00 1.40
833 838 3.596214 ACGAATAAGGTGCTCACGAATT 58.404 40.909 0.00 0.00 0.00 2.17
834 839 3.247006 ACGAATAAGGTGCTCACGAAT 57.753 42.857 0.00 0.00 0.00 3.34
835 840 2.736144 ACGAATAAGGTGCTCACGAA 57.264 45.000 0.00 0.00 0.00 3.85
836 841 2.476686 CGTACGAATAAGGTGCTCACGA 60.477 50.000 10.44 0.00 0.00 4.35
837 842 1.844357 CGTACGAATAAGGTGCTCACG 59.156 52.381 10.44 0.00 0.00 4.35
838 843 2.872370 ACGTACGAATAAGGTGCTCAC 58.128 47.619 24.41 0.00 0.00 3.51
839 844 4.700268 TTACGTACGAATAAGGTGCTCA 57.300 40.909 24.41 0.00 0.00 4.26
840 845 5.276270 TCATTACGTACGAATAAGGTGCTC 58.724 41.667 24.41 0.00 0.00 4.26
841 846 5.252969 TCATTACGTACGAATAAGGTGCT 57.747 39.130 24.41 0.00 0.00 4.40
842 847 5.688621 TGATCATTACGTACGAATAAGGTGC 59.311 40.000 24.41 9.48 0.00 5.01
843 848 6.129535 CGTGATCATTACGTACGAATAAGGTG 60.130 42.308 24.41 7.48 36.94 4.00
844 849 5.911280 CGTGATCATTACGTACGAATAAGGT 59.089 40.000 24.41 3.54 36.94 3.50
845 850 5.164215 GCGTGATCATTACGTACGAATAAGG 60.164 44.000 24.41 12.73 43.09 2.69
846 851 5.397240 TGCGTGATCATTACGTACGAATAAG 59.603 40.000 24.41 7.66 43.09 1.73
847 852 5.272397 TGCGTGATCATTACGTACGAATAA 58.728 37.500 24.41 11.55 43.09 1.40
848 853 4.846509 TGCGTGATCATTACGTACGAATA 58.153 39.130 24.41 6.73 43.09 1.75
849 854 3.697982 TGCGTGATCATTACGTACGAAT 58.302 40.909 24.41 13.97 43.09 3.34
850 855 3.134021 TGCGTGATCATTACGTACGAA 57.866 42.857 24.41 12.20 43.09 3.85
851 856 2.828874 TGCGTGATCATTACGTACGA 57.171 45.000 24.41 0.00 43.09 3.43
852 857 4.027214 TCAAATGCGTGATCATTACGTACG 60.027 41.667 15.01 15.01 43.09 3.67
853 858 5.005394 AGTCAAATGCGTGATCATTACGTAC 59.995 40.000 3.67 0.00 43.09 3.67
861 866 3.402110 AGTTGAGTCAAATGCGTGATCA 58.598 40.909 7.25 0.00 0.00 2.92
873 878 4.960938 AGTTGTATTGCAGAGTTGAGTCA 58.039 39.130 0.00 0.00 0.00 3.41
875 880 4.202357 TGGAGTTGTATTGCAGAGTTGAGT 60.202 41.667 0.00 0.00 0.00 3.41
924 937 4.451096 GTCTGATTACTTTGCTTCGGTTGA 59.549 41.667 0.00 0.00 0.00 3.18
947 960 1.287425 GGTTTAGAATCGCTGACGGG 58.713 55.000 0.00 0.00 40.63 5.28
993 1013 0.028242 CTCGGAACTCCATCGTCTCG 59.972 60.000 0.00 0.00 35.14 4.04
994 1014 0.382515 CCTCGGAACTCCATCGTCTC 59.617 60.000 0.00 0.00 35.14 3.36
995 1015 0.034380 TCCTCGGAACTCCATCGTCT 60.034 55.000 0.00 0.00 35.14 4.18
996 1016 0.382515 CTCCTCGGAACTCCATCGTC 59.617 60.000 0.00 0.00 35.14 4.20
1005 1025 4.516195 GGCTCGGCTCCTCGGAAC 62.516 72.222 0.00 0.00 0.00 3.62
1149 1175 2.199117 GGTGTAGATGGACAGCGGA 58.801 57.895 0.00 0.00 38.01 5.54
1449 3688 2.176273 GTTGATCAGCTGGCGCGAT 61.176 57.895 12.10 0.00 42.32 4.58
1805 4053 0.676782 GGTGGGATCACGGTGAAAGG 60.677 60.000 15.72 0.00 44.50 3.11
1824 4072 2.282462 AAGAACGGGGCTGGCTTG 60.282 61.111 0.00 0.00 0.00 4.01
1830 4078 1.559965 GGTTAGGGAAGAACGGGGCT 61.560 60.000 0.00 0.00 0.00 5.19
2001 4351 2.124983 GCAATGGCCTCGAGCAGA 60.125 61.111 6.99 0.00 46.50 4.26
2120 4470 4.090057 GCTTGTTGAGGACGCCGC 62.090 66.667 0.00 0.00 0.00 6.53
2246 4597 2.711922 CCCTCCTCGTTCACCTCGG 61.712 68.421 0.00 0.00 0.00 4.63
2401 4764 1.971167 GACATGGCCGGCAAAGACA 60.971 57.895 30.85 17.34 0.00 3.41
2448 4818 1.831736 ACGGGAGTTCCAACATCCTAG 59.168 52.381 0.00 0.00 43.33 3.02
2462 4832 5.007234 TGCAAATGTATTCGAAATACGGGAG 59.993 40.000 0.00 0.31 42.82 4.30
2481 4851 5.572511 GTCATCTATTTCAAACGCATGCAAA 59.427 36.000 19.57 10.50 0.00 3.68
2538 4913 5.468540 AAGCCTGAAGGAACAAATTAACC 57.531 39.130 0.00 0.00 37.39 2.85
2598 5004 6.931281 TGAGGAATCTGAAACTTTAGTGACAG 59.069 38.462 9.03 9.03 35.17 3.51
2603 5009 8.384607 GTTTCTGAGGAATCTGAAACTTTAGT 57.615 34.615 22.74 0.00 46.05 2.24
2625 5031 2.159296 GCGTGGAACTGAAACTTGGTTT 60.159 45.455 0.00 0.00 34.41 3.27
2627 5033 1.021968 GCGTGGAACTGAAACTTGGT 58.978 50.000 0.00 0.00 31.75 3.67
2688 5096 5.252547 TCAGTGCACTAAAGGCATGATTAA 58.747 37.500 21.20 0.00 44.11 1.40
2717 5125 3.514645 GTGTGTCCATGATTTGGCAATC 58.485 45.455 0.00 1.75 46.01 2.67
2718 5126 2.234414 GGTGTGTCCATGATTTGGCAAT 59.766 45.455 0.00 0.00 46.01 3.56
2719 5127 1.617850 GGTGTGTCCATGATTTGGCAA 59.382 47.619 0.00 0.00 46.01 4.52
2838 5267 7.377766 ACCTGTATATTGTTTGCTACACTTG 57.622 36.000 0.00 0.00 36.21 3.16
2843 5272 8.557029 GTGGATAACCTGTATATTGTTTGCTAC 58.443 37.037 0.00 0.00 37.04 3.58
2946 5376 1.614996 CCAATAAGGGCACACACACA 58.385 50.000 0.00 0.00 0.00 3.72
3009 5443 1.483004 TCGTTGTCCAGACTGTTTGGA 59.517 47.619 15.44 15.44 42.30 3.53
3017 5451 2.724977 TGATGTCTCGTTGTCCAGAC 57.275 50.000 0.00 0.00 39.70 3.51
3184 5639 3.689649 GGCTACCATCCACAACAAACTAG 59.310 47.826 0.00 0.00 0.00 2.57
3220 5675 0.543749 ATGCCTGTAGCTCCCAAGAC 59.456 55.000 0.00 0.00 44.23 3.01
3251 5707 0.254747 CCTCCACCTAAAATCCGCCA 59.745 55.000 0.00 0.00 0.00 5.69
3253 5709 1.101635 GGCCTCCACCTAAAATCCGC 61.102 60.000 0.00 0.00 0.00 5.54
3298 5755 2.191128 AGCACACTTGATCAGAACCC 57.809 50.000 0.00 0.00 0.00 4.11


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

AutoCloner maintained by Alex Coulton.