Multiple sequence alignment - TraesCS1D01G295900

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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 TraesCS1D01G295900 chr1D 100.000 5647 0 0 1 5647 394268088 394273734 0.000000e+00 10429.0
1 TraesCS1D01G295900 chr1D 91.743 109 3 5 3025 3129 318382791 318382897 4.560000e-31 147.0
2 TraesCS1D01G295900 chr1D 92.929 99 3 3 3017 3114 263868020 263867925 2.120000e-29 141.0
3 TraesCS1D01G295900 chr1B 93.876 3478 114 32 1839 5283 527835501 527832090 0.000000e+00 5151.0
4 TraesCS1D01G295900 chr1B 93.937 1534 42 12 249 1780 527837112 527835628 0.000000e+00 2270.0
5 TraesCS1D01G295900 chr1B 85.714 595 66 13 234 816 7322800 7322213 1.350000e-170 610.0
6 TraesCS1D01G295900 chr1B 90.351 342 14 8 531 867 637014665 637014992 1.120000e-116 431.0
7 TraesCS1D01G295900 chr1B 92.271 207 6 4 30 231 527837376 527837175 9.260000e-73 285.0
8 TraesCS1D01G295900 chr1B 82.072 251 22 13 720 969 7322216 7321988 5.770000e-45 193.0
9 TraesCS1D01G295900 chr1B 90.909 110 10 0 5520 5629 527832019 527831910 1.270000e-31 148.0
10 TraesCS1D01G295900 chr1B 87.500 128 15 1 5195 5321 204398494 204398367 4.560000e-31 147.0
11 TraesCS1D01G295900 chr1B 85.600 125 17 1 5095 5218 204398655 204398531 4.590000e-26 130.0
12 TraesCS1D01G295900 chr1B 95.918 49 2 0 5434 5482 527832067 527832019 4.690000e-11 80.5
13 TraesCS1D01G295900 chr1A 96.148 2025 38 14 1839 3849 491138327 491136329 0.000000e+00 3271.0
14 TraesCS1D01G295900 chr1A 92.514 1603 54 17 3848 5426 491136168 491134608 0.000000e+00 2235.0
15 TraesCS1D01G295900 chr1A 96.951 820 21 2 1021 1840 491139257 491138442 0.000000e+00 1373.0
16 TraesCS1D01G295900 chr2A 91.795 2011 95 36 3113 5071 55864910 55862918 0.000000e+00 2736.0
17 TraesCS1D01G295900 chr2A 89.928 556 46 3 231 776 480698267 480697712 0.000000e+00 708.0
18 TraesCS1D01G295900 chr2A 93.396 318 11 4 2715 3029 55865221 55864911 3.990000e-126 462.0
19 TraesCS1D01G295900 chr2A 83.000 200 14 10 770 969 480693441 480693262 4.530000e-36 163.0
20 TraesCS1D01G295900 chr2A 83.217 143 23 1 5196 5337 728750712 728750570 4.590000e-26 130.0
21 TraesCS1D01G295900 chr2A 85.526 76 11 0 5096 5171 729543561 729543486 4.690000e-11 80.5
22 TraesCS1D01G295900 chr2D 93.146 1853 84 20 3097 4913 55142118 55140273 0.000000e+00 2678.0
23 TraesCS1D01G295900 chr2D 93.893 524 32 0 1021 1544 55142939 55142416 0.000000e+00 791.0
24 TraesCS1D01G295900 chr2D 88.275 597 54 10 231 816 621360204 621360795 0.000000e+00 701.0
25 TraesCS1D01G295900 chr2D 91.461 527 16 11 373 884 567940905 567941417 0.000000e+00 697.0
26 TraesCS1D01G295900 chr2D 88.178 516 38 15 230 740 358182419 358181922 1.350000e-165 593.0
27 TraesCS1D01G295900 chr2D 91.358 324 13 6 2715 3029 55142421 55142104 4.040000e-116 429.0
28 TraesCS1D01G295900 chr2D 82.213 253 21 13 720 969 621360792 621361023 4.460000e-46 196.0
29 TraesCS1D01G295900 chr2D 96.703 91 1 1 3025 3115 382455937 382456025 3.520000e-32 150.0
30 TraesCS1D01G295900 chr2D 85.333 150 9 8 827 969 358181951 358181808 5.900000e-30 143.0
31 TraesCS1D01G295900 chr2B 93.224 1771 70 17 3113 4839 86688695 86690459 0.000000e+00 2560.0
32 TraesCS1D01G295900 chr2B 92.553 470 34 1 1076 1544 86687920 86688389 0.000000e+00 673.0
33 TraesCS1D01G295900 chr2B 93.082 318 12 4 2715 3029 86688384 86688694 1.850000e-124 457.0
34 TraesCS1D01G295900 chr2B 82.869 251 21 12 720 969 600079288 600079517 7.420000e-49 206.0
35 TraesCS1D01G295900 chr2B 93.069 101 5 1 3025 3125 354879212 354879114 4.560000e-31 147.0
36 TraesCS1D01G295900 chr2B 86.066 122 16 1 5201 5321 482701495 482701374 4.590000e-26 130.0
37 TraesCS1D01G295900 chr6D 89.715 632 26 14 291 898 10213238 10212622 0.000000e+00 771.0
38 TraesCS1D01G295900 chr6D 89.683 630 28 14 291 898 427840825 427840211 0.000000e+00 769.0
39 TraesCS1D01G295900 chr6D 83.019 106 15 2 5102 5205 315980478 315980374 6.020000e-15 93.5
40 TraesCS1D01G295900 chr7D 89.806 618 28 13 288 884 114196129 114196732 0.000000e+00 760.0
41 TraesCS1D01G295900 chr7D 88.994 318 34 1 3329 3645 382365404 382365087 5.300000e-105 392.0
42 TraesCS1D01G295900 chr7B 89.837 551 47 4 231 772 131903369 131902819 0.000000e+00 699.0
43 TraesCS1D01G295900 chr7B 91.563 403 28 4 231 627 152070376 152070778 8.270000e-153 551.0
44 TraesCS1D01G295900 chr7B 91.254 343 11 8 531 868 610307187 610307515 3.100000e-122 449.0
45 TraesCS1D01G295900 chr7A 90.503 537 37 5 231 753 683511534 683510998 0.000000e+00 697.0
46 TraesCS1D01G295900 chr7A 90.307 423 20 9 466 882 190647544 190647951 8.330000e-148 534.0
47 TraesCS1D01G295900 chr7A 87.435 191 24 0 3332 3522 121334423 121334233 2.650000e-53 220.0
48 TraesCS1D01G295900 chr7A 86.719 128 16 1 5195 5321 484524114 484523987 2.120000e-29 141.0
49 TraesCS1D01G295900 chr7A 80.114 176 29 5 5142 5312 635037784 635037958 5.940000e-25 126.0
50 TraesCS1D01G295900 chr7A 85.714 105 6 4 865 969 683510954 683510859 1.000000e-17 102.0
51 TraesCS1D01G295900 chr3D 87.772 597 56 11 231 816 49962555 49963145 0.000000e+00 682.0
52 TraesCS1D01G295900 chr3D 83.267 251 20 12 720 969 49963142 49963371 1.590000e-50 211.0
53 TraesCS1D01G295900 chr3D 77.011 348 68 11 1113 1454 455853455 455853796 7.470000e-44 189.0
54 TraesCS1D01G295900 chr5A 89.342 441 21 9 455 884 539438748 539439173 1.080000e-146 531.0
55 TraesCS1D01G295900 chr5A 89.474 114 4 6 3007 3115 533835215 533835105 2.740000e-28 137.0
56 TraesCS1D01G295900 chr5D 88.050 318 37 1 3329 3645 32410507 32410824 5.340000e-100 375.0
57 TraesCS1D01G295900 chr6B 82.072 251 22 13 720 969 127849286 127849058 5.770000e-45 193.0
58 TraesCS1D01G295900 chr6B 85.811 148 20 1 5192 5338 40517390 40517537 7.580000e-34 156.0
59 TraesCS1D01G295900 chr6B 93.750 96 4 1 3028 3123 233032498 233032405 5.900000e-30 143.0
60 TraesCS1D01G295900 chr6B 90.476 105 8 1 3019 3123 512256526 512256628 2.740000e-28 137.0
61 TraesCS1D01G295900 chr4B 80.952 252 25 13 720 969 411181323 411181093 1.620000e-40 178.0
62 TraesCS1D01G295900 chr3B 77.365 296 61 5 1162 1454 602295972 602296264 2.710000e-38 171.0
63 TraesCS1D01G295900 chr3A 77.027 296 62 5 1162 1454 598542892 598543184 1.260000e-36 165.0
64 TraesCS1D01G295900 chr5B 86.260 131 17 1 5192 5321 409580715 409580845 2.120000e-29 141.0
65 TraesCS1D01G295900 chr5B 92.857 70 4 1 3966 4035 577886636 577886704 3.600000e-17 100.0
66 TraesCS1D01G295900 chr5B 83.158 95 15 1 5092 5185 451177759 451177665 1.010000e-12 86.1


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 TraesCS1D01G295900 chr1D 394268088 394273734 5646 False 10429.000000 10429 100.000000 1 5647 1 chr1D.!!$F2 5646
1 TraesCS1D01G295900 chr1B 527831910 527837376 5466 True 1586.900000 5151 93.382200 30 5629 5 chr1B.!!$R3 5599
2 TraesCS1D01G295900 chr1B 7321988 7322800 812 True 401.500000 610 83.893000 234 969 2 chr1B.!!$R1 735
3 TraesCS1D01G295900 chr1A 491134608 491139257 4649 True 2293.000000 3271 95.204333 1021 5426 3 chr1A.!!$R1 4405
4 TraesCS1D01G295900 chr2A 55862918 55865221 2303 True 1599.000000 2736 92.595500 2715 5071 2 chr2A.!!$R5 2356
5 TraesCS1D01G295900 chr2A 480697712 480698267 555 True 708.000000 708 89.928000 231 776 1 chr2A.!!$R2 545
6 TraesCS1D01G295900 chr2D 55140273 55142939 2666 True 1299.333333 2678 92.799000 1021 4913 3 chr2D.!!$R1 3892
7 TraesCS1D01G295900 chr2D 567940905 567941417 512 False 697.000000 697 91.461000 373 884 1 chr2D.!!$F2 511
8 TraesCS1D01G295900 chr2D 621360204 621361023 819 False 448.500000 701 85.244000 231 969 2 chr2D.!!$F3 738
9 TraesCS1D01G295900 chr2D 358181808 358182419 611 True 368.000000 593 86.755500 230 969 2 chr2D.!!$R2 739
10 TraesCS1D01G295900 chr2B 86687920 86690459 2539 False 1230.000000 2560 92.953000 1076 4839 3 chr2B.!!$F2 3763
11 TraesCS1D01G295900 chr6D 10212622 10213238 616 True 771.000000 771 89.715000 291 898 1 chr6D.!!$R1 607
12 TraesCS1D01G295900 chr6D 427840211 427840825 614 True 769.000000 769 89.683000 291 898 1 chr6D.!!$R3 607
13 TraesCS1D01G295900 chr7D 114196129 114196732 603 False 760.000000 760 89.806000 288 884 1 chr7D.!!$F1 596
14 TraesCS1D01G295900 chr7B 131902819 131903369 550 True 699.000000 699 89.837000 231 772 1 chr7B.!!$R1 541
15 TraesCS1D01G295900 chr7A 683510859 683511534 675 True 399.500000 697 88.108500 231 969 2 chr7A.!!$R3 738
16 TraesCS1D01G295900 chr3D 49962555 49963371 816 False 446.500000 682 85.519500 231 969 2 chr3D.!!$F2 738

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
667 761 0.179097 GAAGGTCAGTGGATCGGAGC 60.179 60.0 0.00 0.00 38.61 4.70 F
1007 1355 0.614415 CAAACCCCAGCTATGGCCAA 60.614 55.0 10.96 0.00 46.19 4.52 F
1008 1356 0.614697 AAACCCCAGCTATGGCCAAC 60.615 55.0 10.96 1.77 46.19 3.77 F
1765 2114 2.484264 CCTGCAACTGTAAGCCTGTAAC 59.516 50.0 0.00 0.00 37.60 2.50 F
2336 2805 2.989840 CTCGTGAGCTCACCTACTTTTG 59.010 50.0 35.07 21.08 43.66 2.44 F
4024 4692 0.109412 GCTGCTCTCAATGTTGGTGC 60.109 55.0 0.00 0.00 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1499 1848 1.064825 AATCGAACCAAGTGGGGAGT 58.935 50.000 1.69 0.0 42.91 3.85 R
2795 3279 2.450609 AAACATCGGTAGAACGTGCT 57.549 45.000 0.00 0.0 34.94 4.40 R
2796 3280 2.477375 TGAAAACATCGGTAGAACGTGC 59.523 45.455 0.00 0.0 34.94 5.34 R
2882 3366 3.468770 TGCAGCTTTTTGTTCCGTACTA 58.531 40.909 0.00 0.0 0.00 1.82 R
4202 4870 1.541310 AACCATCTTCCGACTCGCCA 61.541 55.000 0.00 0.0 0.00 5.69 R
5508 6288 0.179089 CCAGGACGCTCCAGATCAAG 60.179 60.000 0.00 0.0 39.61 3.02 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
77 78 8.742125 AGGGAAAATAAGAAAAAGGAGGAATT 57.258 30.769 0.00 0.00 0.00 2.17
78 79 8.597167 AGGGAAAATAAGAAAAAGGAGGAATTG 58.403 33.333 0.00 0.00 0.00 2.32
79 80 8.593679 GGGAAAATAAGAAAAAGGAGGAATTGA 58.406 33.333 0.00 0.00 0.00 2.57
99 100 5.371115 TGAGGAAATAAAAGGAAAGCACG 57.629 39.130 0.00 0.00 0.00 5.34
132 138 7.696992 AGACTTGTAGAGTAAGAAGAAGGAG 57.303 40.000 0.00 0.00 39.19 3.69
136 142 7.672239 ACTTGTAGAGTAAGAAGAAGGAGACAT 59.328 37.037 0.00 0.00 36.65 3.06
154 160 6.424207 GGAGACATGGAAATAACCGAGAATAC 59.576 42.308 0.00 0.00 0.00 1.89
161 167 6.110707 GGAAATAACCGAGAATACAAGACCA 58.889 40.000 0.00 0.00 0.00 4.02
162 168 6.766467 GGAAATAACCGAGAATACAAGACCAT 59.234 38.462 0.00 0.00 0.00 3.55
163 169 7.929785 GGAAATAACCGAGAATACAAGACCATA 59.070 37.037 0.00 0.00 0.00 2.74
164 170 9.490379 GAAATAACCGAGAATACAAGACCATAT 57.510 33.333 0.00 0.00 0.00 1.78
667 761 0.179097 GAAGGTCAGTGGATCGGAGC 60.179 60.000 0.00 0.00 38.61 4.70
818 963 9.719355 AGACATGATTTGTTACATAGTTGTACA 57.281 29.630 0.00 0.00 39.18 2.90
819 964 9.973246 GACATGATTTGTTACATAGTTGTACAG 57.027 33.333 0.00 0.00 39.18 2.74
820 965 9.719355 ACATGATTTGTTACATAGTTGTACAGA 57.281 29.630 0.00 0.00 38.05 3.41
823 968 9.719355 TGATTTGTTACATAGTTGTACAGATGT 57.281 29.630 18.47 18.47 38.05 3.06
826 971 9.772973 TTTGTTACATAGTTGTACAGATGTTCT 57.227 29.630 19.23 6.69 38.05 3.01
827 972 8.757164 TGTTACATAGTTGTACAGATGTTCTG 57.243 34.615 19.23 3.03 42.41 3.02
891 1234 4.797471 TGATGCTTGCTTGAATGTGTAAC 58.203 39.130 0.00 0.00 37.35 2.50
977 1325 4.293494 TCCATAACATCAGAAGGCTCTCT 58.707 43.478 0.00 0.00 0.00 3.10
986 1334 1.645919 AGAAGGCTCTCTCCTCTTCCT 59.354 52.381 0.00 0.00 37.05 3.36
999 1347 0.772124 TCTTCCTCCAAACCCCAGCT 60.772 55.000 0.00 0.00 0.00 4.24
1004 1352 0.753111 CTCCAAACCCCAGCTATGGC 60.753 60.000 0.00 0.00 46.19 4.40
1005 1353 1.758122 CCAAACCCCAGCTATGGCC 60.758 63.158 0.00 0.00 46.19 5.36
1006 1354 1.000233 CAAACCCCAGCTATGGCCA 60.000 57.895 8.56 8.56 46.19 5.36
1007 1355 0.614415 CAAACCCCAGCTATGGCCAA 60.614 55.000 10.96 0.00 46.19 4.52
1008 1356 0.614697 AAACCCCAGCTATGGCCAAC 60.615 55.000 10.96 1.77 46.19 3.77
1009 1357 2.516930 CCCCAGCTATGGCCAACG 60.517 66.667 10.96 4.61 46.19 4.10
1010 1358 3.211963 CCCAGCTATGGCCAACGC 61.212 66.667 10.96 16.07 46.19 4.84
1105 1453 2.756283 AAGTCGCCGAGGAGGAGG 60.756 66.667 0.00 0.00 45.00 4.30
1176 1524 2.948720 GCGGGAGAAGGTGCAGTCT 61.949 63.158 0.00 0.00 0.00 3.24
1182 1530 2.565841 GAGAAGGTGCAGTCTGTGTTT 58.434 47.619 0.93 0.00 0.00 2.83
1499 1848 4.020617 CTCCAAGCCCGAGGTGCA 62.021 66.667 5.62 0.00 0.00 4.57
1606 1955 3.205056 ACCATTGGGCTTGGATTGAGATA 59.795 43.478 7.78 0.00 37.69 1.98
1634 1983 9.838339 AGATTCATAGTTAACCCATTGTTAGAG 57.162 33.333 0.88 0.00 40.42 2.43
1765 2114 2.484264 CCTGCAACTGTAAGCCTGTAAC 59.516 50.000 0.00 0.00 37.60 2.50
1816 2165 4.568359 CACAAGCAGCACCTACTGTATTAG 59.432 45.833 0.00 0.00 39.96 1.73
1946 2411 3.776969 TGTCCTTGGACATCATCTTAGCT 59.223 43.478 17.57 0.00 0.00 3.32
1947 2412 4.125703 GTCCTTGGACATCATCTTAGCTG 58.874 47.826 14.34 0.00 0.00 4.24
1948 2413 4.033009 TCCTTGGACATCATCTTAGCTGA 58.967 43.478 0.00 0.00 0.00 4.26
1949 2414 4.657504 TCCTTGGACATCATCTTAGCTGAT 59.342 41.667 0.00 0.00 33.65 2.90
1950 2415 5.840693 TCCTTGGACATCATCTTAGCTGATA 59.159 40.000 0.00 0.00 32.18 2.15
1951 2416 6.327365 TCCTTGGACATCATCTTAGCTGATAA 59.673 38.462 0.00 0.00 32.18 1.75
1952 2417 6.994496 CCTTGGACATCATCTTAGCTGATAAA 59.006 38.462 0.00 0.00 32.18 1.40
1953 2418 7.172875 CCTTGGACATCATCTTAGCTGATAAAG 59.827 40.741 0.00 0.00 32.18 1.85
2075 2540 8.052748 TCAGTGTGGGAATGCTAGTAAATTATT 58.947 33.333 0.00 0.00 0.00 1.40
2336 2805 2.989840 CTCGTGAGCTCACCTACTTTTG 59.010 50.000 35.07 21.08 43.66 2.44
2574 3051 8.749841 CTGATATACAGTGAGTATGTTTAGCC 57.250 38.462 0.00 0.00 43.20 3.93
2714 3191 4.762251 GTCTGATTAAGAGGGCAACTTTGT 59.238 41.667 1.21 0.00 34.84 2.83
2795 3279 8.912988 AGATTACCTTGTTTGTTTGATCTTCAA 58.087 29.630 0.00 0.00 34.03 2.69
2796 3280 9.185192 GATTACCTTGTTTGTTTGATCTTCAAG 57.815 33.333 0.00 0.00 37.70 3.02
2797 3281 5.351458 ACCTTGTTTGTTTGATCTTCAAGC 58.649 37.500 0.00 0.33 37.70 4.01
2798 3282 5.105392 ACCTTGTTTGTTTGATCTTCAAGCA 60.105 36.000 3.11 3.11 44.01 3.91
2799 3283 5.232838 CCTTGTTTGTTTGATCTTCAAGCAC 59.767 40.000 6.32 0.00 45.05 4.40
2800 3284 4.350346 TGTTTGTTTGATCTTCAAGCACG 58.650 39.130 6.32 0.00 45.05 5.34
2875 3359 9.879973 CTAATGTTTCAACGTTTTTAACAGTTG 57.120 29.630 18.62 14.80 42.09 3.16
3056 3543 4.604976 TCCGTAAAGAAGTATAAGAGCGC 58.395 43.478 0.00 0.00 0.00 5.92
3057 3544 3.421231 CCGTAAAGAAGTATAAGAGCGCG 59.579 47.826 0.00 0.00 0.00 6.86
3486 3988 2.068277 GATGGCTCGGGCTTCATTGC 62.068 60.000 7.48 0.00 38.73 3.56
3827 4330 2.899900 GCTTTTCTGTCCCCCTTTTCAT 59.100 45.455 0.00 0.00 0.00 2.57
3974 4642 4.276926 ACTTTGCTTCAGGAGTTTGATGTC 59.723 41.667 0.00 0.00 0.00 3.06
4024 4692 0.109412 GCTGCTCTCAATGTTGGTGC 60.109 55.000 0.00 0.00 0.00 5.01
4038 4706 2.345991 GTGCAGGAGCGGGTGTTA 59.654 61.111 0.00 0.00 46.23 2.41
4202 4870 3.322466 CCACGGAGGCTTGTCCCT 61.322 66.667 0.00 0.00 38.12 4.20
4295 4963 3.243535 CCTTTGCTGACCTTTCCTTTGAC 60.244 47.826 0.00 0.00 0.00 3.18
4337 5005 1.933853 GACGCTGGAATACATGGTCAC 59.066 52.381 0.00 0.00 33.69 3.67
4349 5017 0.949105 ATGGTCACGCGTTTCTCACC 60.949 55.000 10.22 11.46 0.00 4.02
4486 5180 1.138266 CCGGGTCGAGGTATGTTTCAT 59.862 52.381 0.00 0.00 0.00 2.57
4501 5195 4.836825 TGTTTCATTTTCCTTTGCACCAA 58.163 34.783 0.00 0.00 0.00 3.67
4517 5214 4.107622 GCACCAAATTACAGATCATGTGC 58.892 43.478 0.00 0.00 43.80 4.57
4595 5301 3.944015 ACTGCTACATTCTGAAGCAATCC 59.056 43.478 3.63 0.00 45.04 3.01
4739 5467 5.702670 TCTTTTCTTTCTCGACGAGTACCTA 59.297 40.000 23.41 1.77 0.00 3.08
4810 5540 3.804325 CCTGGAATATCTTACGTGCTGTG 59.196 47.826 0.00 0.00 0.00 3.66
4811 5541 3.194861 TGGAATATCTTACGTGCTGTGC 58.805 45.455 0.00 0.00 0.00 4.57
4812 5542 3.118775 TGGAATATCTTACGTGCTGTGCT 60.119 43.478 0.00 0.00 0.00 4.40
4813 5543 3.246226 GGAATATCTTACGTGCTGTGCTG 59.754 47.826 0.00 0.00 0.00 4.41
4814 5544 1.640428 TATCTTACGTGCTGTGCTGC 58.360 50.000 0.00 0.00 0.00 5.25
4885 5615 3.577649 ACACTAGTGATTGTCGTGGAG 57.422 47.619 29.30 0.00 0.00 3.86
4889 5619 4.017126 ACTAGTGATTGTCGTGGAGATGA 58.983 43.478 0.00 0.00 0.00 2.92
4894 5624 3.006859 TGATTGTCGTGGAGATGACTGTT 59.993 43.478 0.00 0.00 38.72 3.16
4946 5681 7.390718 GTGGATAGAACAATAATTTAGGCGGAT 59.609 37.037 0.00 0.00 0.00 4.18
4972 5707 2.293677 TATTGGCGCTACTGTGACTG 57.706 50.000 7.64 0.00 31.78 3.51
4987 5727 3.898741 TGTGACTGTGTATCACCCACTTA 59.101 43.478 2.87 0.00 44.91 2.24
4988 5728 4.530553 TGTGACTGTGTATCACCCACTTAT 59.469 41.667 2.87 0.00 44.91 1.73
4989 5729 5.109903 GTGACTGTGTATCACCCACTTATC 58.890 45.833 0.00 0.00 40.56 1.75
4990 5730 5.023452 TGACTGTGTATCACCCACTTATCT 58.977 41.667 0.00 0.00 32.73 1.98
4991 5731 5.483937 TGACTGTGTATCACCCACTTATCTT 59.516 40.000 0.00 0.00 32.73 2.40
5079 5839 2.494870 ACGCAGAAAATACCTCGGTACT 59.505 45.455 0.00 0.00 33.01 2.73
5119 5893 2.825836 GGCTGGGCCTGACATTCG 60.826 66.667 15.36 0.00 46.69 3.34
5148 5922 2.031012 GGCCTTGTTTTGCAGCCC 59.969 61.111 0.00 0.00 33.67 5.19
5173 5947 1.280998 GGTAGTTTAGGCCAGGCTTGA 59.719 52.381 12.43 0.00 0.00 3.02
5189 5964 2.095314 GCTTGAGCTCTCTTTTTCTGCC 60.095 50.000 16.19 0.00 38.21 4.85
5213 5988 2.659016 GCTGGGCTTTTGGGCTTC 59.341 61.111 0.00 0.00 40.65 3.86
5265 6040 4.753107 TGAAAACAGTGAGTATTTCGGACC 59.247 41.667 0.00 0.00 33.65 4.46
5297 6072 1.676014 CGGGCTCGAGAAATGAAGGTT 60.676 52.381 18.75 0.00 39.00 3.50
5330 6110 1.373590 CTTGGCCCGATGTTTACCCG 61.374 60.000 0.00 0.00 0.00 5.28
5376 6156 0.034337 AAACGAGGGCAGCGAACTAA 59.966 50.000 5.25 0.00 0.00 2.24
5377 6157 0.669625 AACGAGGGCAGCGAACTAAC 60.670 55.000 5.25 0.00 0.00 2.34
5429 6209 6.942532 CTCTAGAGCTCTGAAGACTATTGT 57.057 41.667 26.78 0.00 0.00 2.71
5430 6210 6.935741 TCTAGAGCTCTGAAGACTATTGTC 57.064 41.667 26.78 0.00 43.22 3.18
5431 6211 5.825679 TCTAGAGCTCTGAAGACTATTGTCC 59.174 44.000 26.78 0.00 43.91 4.02
5432 6212 4.609301 AGAGCTCTGAAGACTATTGTCCT 58.391 43.478 17.42 0.00 43.91 3.85
5433 6213 4.644685 AGAGCTCTGAAGACTATTGTCCTC 59.355 45.833 17.42 1.44 43.91 3.71
5434 6214 3.380004 AGCTCTGAAGACTATTGTCCTCG 59.620 47.826 3.54 0.00 43.91 4.63
5435 6215 3.490078 GCTCTGAAGACTATTGTCCTCGG 60.490 52.174 8.05 8.05 43.91 4.63
5436 6216 2.427453 TCTGAAGACTATTGTCCTCGGC 59.573 50.000 9.19 0.00 43.91 5.54
5437 6217 2.428890 CTGAAGACTATTGTCCTCGGCT 59.571 50.000 3.54 0.00 43.91 5.52
5438 6218 2.832129 TGAAGACTATTGTCCTCGGCTT 59.168 45.455 3.54 0.00 43.91 4.35
5439 6219 3.119101 TGAAGACTATTGTCCTCGGCTTC 60.119 47.826 3.54 0.00 43.91 3.86
5440 6220 2.741145 AGACTATTGTCCTCGGCTTCT 58.259 47.619 3.54 0.00 43.91 2.85
5441 6221 2.691011 AGACTATTGTCCTCGGCTTCTC 59.309 50.000 3.54 0.00 43.91 2.87
5442 6222 1.757699 ACTATTGTCCTCGGCTTCTCC 59.242 52.381 0.00 0.00 0.00 3.71
5453 6233 4.856607 CTTCTCCGGCGCGTCCTC 62.857 72.222 4.51 0.00 0.00 3.71
5482 6262 2.521708 GCAAGCTGTGGGGGTTGT 60.522 61.111 7.94 0.00 43.82 3.32
5483 6263 2.133641 GCAAGCTGTGGGGGTTGTT 61.134 57.895 7.94 0.00 43.82 2.83
5484 6264 1.685355 GCAAGCTGTGGGGGTTGTTT 61.685 55.000 7.94 0.00 43.82 2.83
5485 6265 0.829990 CAAGCTGTGGGGGTTGTTTT 59.170 50.000 0.00 0.00 39.12 2.43
5486 6266 1.119684 AAGCTGTGGGGGTTGTTTTC 58.880 50.000 0.00 0.00 0.00 2.29
5487 6267 0.759060 AGCTGTGGGGGTTGTTTTCC 60.759 55.000 0.00 0.00 0.00 3.13
5488 6268 0.759060 GCTGTGGGGGTTGTTTTCCT 60.759 55.000 0.00 0.00 0.00 3.36
5489 6269 1.788229 CTGTGGGGGTTGTTTTCCTT 58.212 50.000 0.00 0.00 0.00 3.36
5490 6270 1.686587 CTGTGGGGGTTGTTTTCCTTC 59.313 52.381 0.00 0.00 0.00 3.46
5491 6271 0.671796 GTGGGGGTTGTTTTCCTTCG 59.328 55.000 0.00 0.00 0.00 3.79
5492 6272 0.468400 TGGGGGTTGTTTTCCTTCGG 60.468 55.000 0.00 0.00 0.00 4.30
5493 6273 1.183030 GGGGGTTGTTTTCCTTCGGG 61.183 60.000 0.00 0.00 0.00 5.14
5494 6274 1.183030 GGGGTTGTTTTCCTTCGGGG 61.183 60.000 0.00 0.00 35.37 5.73
5495 6275 1.663739 GGTTGTTTTCCTTCGGGGC 59.336 57.895 0.00 0.00 35.37 5.80
5496 6276 1.110518 GGTTGTTTTCCTTCGGGGCA 61.111 55.000 0.00 0.00 35.37 5.36
5497 6277 0.966179 GTTGTTTTCCTTCGGGGCAT 59.034 50.000 0.00 0.00 35.37 4.40
5498 6278 1.067846 GTTGTTTTCCTTCGGGGCATC 60.068 52.381 0.00 0.00 35.37 3.91
5499 6279 0.958382 TGTTTTCCTTCGGGGCATCG 60.958 55.000 0.00 0.00 35.37 3.84
5500 6280 1.377987 TTTTCCTTCGGGGCATCGG 60.378 57.895 0.00 0.00 35.37 4.18
5501 6281 2.132089 TTTTCCTTCGGGGCATCGGT 62.132 55.000 0.00 0.00 35.37 4.69
5502 6282 2.132089 TTTCCTTCGGGGCATCGGTT 62.132 55.000 0.00 0.00 35.37 4.44
5503 6283 2.813226 TTCCTTCGGGGCATCGGTTG 62.813 60.000 0.00 0.00 35.37 3.77
5504 6284 2.046314 CTTCGGGGCATCGGTTGT 60.046 61.111 0.00 0.00 0.00 3.32
5505 6285 1.674322 CTTCGGGGCATCGGTTGTT 60.674 57.895 0.00 0.00 0.00 2.83
5506 6286 1.922135 CTTCGGGGCATCGGTTGTTG 61.922 60.000 0.00 0.00 0.00 3.33
5507 6287 3.439540 CGGGGCATCGGTTGTTGG 61.440 66.667 0.00 0.00 0.00 3.77
5508 6288 3.758931 GGGGCATCGGTTGTTGGC 61.759 66.667 0.00 0.00 39.08 4.52
5509 6289 2.676471 GGGCATCGGTTGTTGGCT 60.676 61.111 0.00 0.00 39.58 4.75
5510 6290 2.275380 GGGCATCGGTTGTTGGCTT 61.275 57.895 0.00 0.00 39.58 4.35
5511 6291 1.080569 GGCATCGGTTGTTGGCTTG 60.081 57.895 0.00 0.00 37.38 4.01
5512 6292 1.523154 GGCATCGGTTGTTGGCTTGA 61.523 55.000 0.00 0.00 37.38 3.02
5513 6293 0.527565 GCATCGGTTGTTGGCTTGAT 59.472 50.000 0.00 0.00 0.00 2.57
5514 6294 1.468054 GCATCGGTTGTTGGCTTGATC 60.468 52.381 0.00 0.00 0.00 2.92
5515 6295 2.086869 CATCGGTTGTTGGCTTGATCT 58.913 47.619 0.00 0.00 0.00 2.75
5516 6296 1.522668 TCGGTTGTTGGCTTGATCTG 58.477 50.000 0.00 0.00 0.00 2.90
5517 6297 0.523072 CGGTTGTTGGCTTGATCTGG 59.477 55.000 0.00 0.00 0.00 3.86
5518 6298 1.881925 CGGTTGTTGGCTTGATCTGGA 60.882 52.381 0.00 0.00 0.00 3.86
5519 6299 1.815003 GGTTGTTGGCTTGATCTGGAG 59.185 52.381 0.00 0.00 0.00 3.86
5526 6306 0.809241 GCTTGATCTGGAGCGTCCTG 60.809 60.000 0.00 5.42 37.46 3.86
5539 6319 3.074412 AGCGTCCTGGTGAAACATAAAG 58.926 45.455 0.00 0.00 39.98 1.85
5558 6338 0.475906 GGGTGATGGAGAAGATGGGG 59.524 60.000 0.00 0.00 0.00 4.96
5591 6371 1.528309 ACAGTGGCAAAAGGGGACG 60.528 57.895 0.00 0.00 0.00 4.79
5626 6406 2.040213 GACAATGGACTCGCATGCCG 62.040 60.000 13.15 7.68 38.61 5.69
5629 6409 2.329539 AATGGACTCGCATGCCGGAT 62.330 55.000 13.15 0.00 37.59 4.18
5630 6410 2.663188 GGACTCGCATGCCGGATC 60.663 66.667 13.15 4.75 37.59 3.36
5631 6411 3.032609 GACTCGCATGCCGGATCG 61.033 66.667 13.15 1.62 37.59 3.69
5632 6412 3.484742 GACTCGCATGCCGGATCGA 62.485 63.158 13.15 6.62 37.59 3.59
5633 6413 3.032609 CTCGCATGCCGGATCGAC 61.033 66.667 13.15 0.00 37.59 4.20
5634 6414 3.490793 CTCGCATGCCGGATCGACT 62.491 63.158 13.15 0.00 37.59 4.18
5635 6415 3.333189 CGCATGCCGGATCGACTG 61.333 66.667 13.15 0.00 0.00 3.51
5636 6416 2.106938 GCATGCCGGATCGACTGA 59.893 61.111 5.05 0.00 0.00 3.41
5637 6417 1.521457 GCATGCCGGATCGACTGAA 60.521 57.895 5.05 0.00 0.00 3.02
5638 6418 0.882042 GCATGCCGGATCGACTGAAT 60.882 55.000 5.05 0.00 0.00 2.57
5639 6419 1.605457 GCATGCCGGATCGACTGAATA 60.605 52.381 5.05 0.00 0.00 1.75
5640 6420 2.932622 GCATGCCGGATCGACTGAATAT 60.933 50.000 5.05 0.00 0.00 1.28
5641 6421 3.676049 GCATGCCGGATCGACTGAATATA 60.676 47.826 5.05 0.00 0.00 0.86
5642 6422 4.494484 CATGCCGGATCGACTGAATATAA 58.506 43.478 5.05 0.00 0.00 0.98
5643 6423 3.909430 TGCCGGATCGACTGAATATAAC 58.091 45.455 5.05 0.00 0.00 1.89
5644 6424 3.572682 TGCCGGATCGACTGAATATAACT 59.427 43.478 5.05 0.00 0.00 2.24
5645 6425 4.167268 GCCGGATCGACTGAATATAACTC 58.833 47.826 5.05 0.00 0.00 3.01
5646 6426 4.082679 GCCGGATCGACTGAATATAACTCT 60.083 45.833 5.05 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 3.610677 GGTGTAATTTACGTGCATTTGGC 59.389 43.478 0.00 0.00 45.13 4.52
15 16 4.799678 TGGTGTAATTTACGTGCATTTGG 58.200 39.130 0.00 0.00 0.00 3.28
16 17 6.942886 ATTGGTGTAATTTACGTGCATTTG 57.057 33.333 0.00 0.00 0.00 2.32
17 18 9.646427 ATTTATTGGTGTAATTTACGTGCATTT 57.354 25.926 0.00 0.00 0.00 2.32
20 21 9.776158 CTTATTTATTGGTGTAATTTACGTGCA 57.224 29.630 0.00 0.00 0.00 4.57
21 22 9.991388 TCTTATTTATTGGTGTAATTTACGTGC 57.009 29.630 0.00 0.00 0.00 5.34
29 30 9.408648 CCCTCTGTTCTTATTTATTGGTGTAAT 57.591 33.333 0.00 0.00 0.00 1.89
30 31 8.607713 TCCCTCTGTTCTTATTTATTGGTGTAA 58.392 33.333 0.00 0.00 0.00 2.41
31 32 8.153221 TCCCTCTGTTCTTATTTATTGGTGTA 57.847 34.615 0.00 0.00 0.00 2.90
32 33 7.027874 TCCCTCTGTTCTTATTTATTGGTGT 57.972 36.000 0.00 0.00 0.00 4.16
33 34 7.938140 TTCCCTCTGTTCTTATTTATTGGTG 57.062 36.000 0.00 0.00 0.00 4.17
77 78 4.320935 GCGTGCTTTCCTTTTATTTCCTCA 60.321 41.667 0.00 0.00 0.00 3.86
78 79 4.166523 GCGTGCTTTCCTTTTATTTCCTC 58.833 43.478 0.00 0.00 0.00 3.71
79 80 3.572255 TGCGTGCTTTCCTTTTATTTCCT 59.428 39.130 0.00 0.00 0.00 3.36
99 100 2.288273 ACTCTACAAGTCTTCACCGTGC 60.288 50.000 0.00 0.00 30.02 5.34
132 138 7.494625 TCTTGTATTCTCGGTTATTTCCATGTC 59.505 37.037 0.00 0.00 0.00 3.06
136 142 6.110707 GGTCTTGTATTCTCGGTTATTTCCA 58.889 40.000 0.00 0.00 0.00 3.53
161 167 6.216868 GGGCCGGAACCCCAATATATATATAT 59.783 42.308 5.05 9.12 45.00 0.86
162 168 5.548836 GGGCCGGAACCCCAATATATATATA 59.451 44.000 5.05 4.92 45.00 0.86
163 169 4.352893 GGGCCGGAACCCCAATATATATAT 59.647 45.833 5.05 0.00 45.00 0.86
164 170 3.717913 GGGCCGGAACCCCAATATATATA 59.282 47.826 5.05 0.00 45.00 0.86
227 233 1.614241 GCCCTGTTCGCCTCTTCCTA 61.614 60.000 0.00 0.00 0.00 2.94
349 412 2.060383 TGCGAGGCAGCAGGACTAT 61.060 57.895 3.54 0.00 42.92 2.12
667 761 2.928334 ACCTTTGATCTGGCTGCTATG 58.072 47.619 0.00 0.00 0.00 2.23
818 963 6.118170 CCATCCAAGTATCAACAGAACATCT 58.882 40.000 0.00 0.00 0.00 2.90
819 964 5.882557 ACCATCCAAGTATCAACAGAACATC 59.117 40.000 0.00 0.00 0.00 3.06
820 965 5.819991 ACCATCCAAGTATCAACAGAACAT 58.180 37.500 0.00 0.00 0.00 2.71
821 966 5.013079 AGACCATCCAAGTATCAACAGAACA 59.987 40.000 0.00 0.00 0.00 3.18
822 967 5.352569 CAGACCATCCAAGTATCAACAGAAC 59.647 44.000 0.00 0.00 0.00 3.01
823 968 5.248248 TCAGACCATCCAAGTATCAACAGAA 59.752 40.000 0.00 0.00 0.00 3.02
824 969 4.777366 TCAGACCATCCAAGTATCAACAGA 59.223 41.667 0.00 0.00 0.00 3.41
825 970 5.089970 TCAGACCATCCAAGTATCAACAG 57.910 43.478 0.00 0.00 0.00 3.16
826 971 5.698741 ATCAGACCATCCAAGTATCAACA 57.301 39.130 0.00 0.00 0.00 3.33
827 972 6.821388 ACTATCAGACCATCCAAGTATCAAC 58.179 40.000 0.00 0.00 0.00 3.18
828 973 7.092891 ACAACTATCAGACCATCCAAGTATCAA 60.093 37.037 0.00 0.00 0.00 2.57
829 974 6.384015 ACAACTATCAGACCATCCAAGTATCA 59.616 38.462 0.00 0.00 0.00 2.15
830 975 6.821388 ACAACTATCAGACCATCCAAGTATC 58.179 40.000 0.00 0.00 0.00 2.24
831 976 6.814954 ACAACTATCAGACCATCCAAGTAT 57.185 37.500 0.00 0.00 0.00 2.12
832 977 7.123383 TCTACAACTATCAGACCATCCAAGTA 58.877 38.462 0.00 0.00 0.00 2.24
833 978 5.958380 TCTACAACTATCAGACCATCCAAGT 59.042 40.000 0.00 0.00 0.00 3.16
834 979 6.322456 TCTCTACAACTATCAGACCATCCAAG 59.678 42.308 0.00 0.00 0.00 3.61
835 980 6.194967 TCTCTACAACTATCAGACCATCCAA 58.805 40.000 0.00 0.00 0.00 3.53
836 981 5.766590 TCTCTACAACTATCAGACCATCCA 58.233 41.667 0.00 0.00 0.00 3.41
837 982 6.266558 ACATCTCTACAACTATCAGACCATCC 59.733 42.308 0.00 0.00 0.00 3.51
977 1325 0.104144 TGGGGTTTGGAGGAAGAGGA 60.104 55.000 0.00 0.00 0.00 3.71
986 1334 1.306296 GCCATAGCTGGGGTTTGGA 59.694 57.895 0.00 0.00 43.36 3.53
1105 1453 0.459237 TCCTCGTCCTCGTACTCGTC 60.459 60.000 0.00 0.00 38.33 4.20
1157 1505 3.240134 GACTGCACCTTCTCCCGCA 62.240 63.158 0.00 0.00 0.00 5.69
1176 1524 1.671742 GGAGAGCCTCCGAAACACA 59.328 57.895 5.60 0.00 41.08 3.72
1499 1848 1.064825 AATCGAACCAAGTGGGGAGT 58.935 50.000 1.69 0.00 42.91 3.85
1634 1983 7.923414 AACATTAGGAAAGATGACCAACTAC 57.077 36.000 0.00 0.00 0.00 2.73
1688 2037 7.743749 ACTAGCAGGAACTCATGATGATTAAT 58.256 34.615 0.00 0.00 34.60 1.40
1816 2165 5.584649 TGTGGCTACATACTGATTGTAAAGC 59.415 40.000 0.00 0.00 36.03 3.51
1946 2411 9.684448 GAGTTGAGATCGATTATCACTTTATCA 57.316 33.333 12.33 0.00 37.03 2.15
1947 2412 9.684448 TGAGTTGAGATCGATTATCACTTTATC 57.316 33.333 12.33 8.00 37.03 1.75
1950 2415 8.954950 AATGAGTTGAGATCGATTATCACTTT 57.045 30.769 12.33 5.42 37.03 2.66
1951 2416 9.689976 CTAATGAGTTGAGATCGATTATCACTT 57.310 33.333 12.33 5.59 37.03 3.16
1952 2417 9.072375 TCTAATGAGTTGAGATCGATTATCACT 57.928 33.333 12.33 12.27 37.03 3.41
1953 2418 9.340695 CTCTAATGAGTTGAGATCGATTATCAC 57.659 37.037 12.33 8.85 34.98 3.06
2016 2481 5.726980 TTGCATACCTTTTGCTTCTTCAT 57.273 34.783 0.00 0.00 40.77 2.57
2219 2688 5.406780 CAGTCCAAGAAAGAGTGATGTGTAC 59.593 44.000 0.00 0.00 36.91 2.90
2266 2735 5.499004 TTGTCTATTCCTGCTGTTACCTT 57.501 39.130 0.00 0.00 0.00 3.50
2336 2805 3.347216 TCAGGCTTTGCTTGGAGAATAC 58.653 45.455 2.04 0.00 36.29 1.89
2574 3051 3.181487 CCAGGTCAATTTTCTTATGGGCG 60.181 47.826 0.00 0.00 0.00 6.13
2714 3191 5.474578 AACTGAACTCATAGCTTGACTCA 57.525 39.130 0.00 0.00 0.00 3.41
2795 3279 2.450609 AAACATCGGTAGAACGTGCT 57.549 45.000 0.00 0.00 34.94 4.40
2796 3280 2.477375 TGAAAACATCGGTAGAACGTGC 59.523 45.455 0.00 0.00 34.94 5.34
2797 3281 4.210537 ACTTGAAAACATCGGTAGAACGTG 59.789 41.667 0.00 0.00 34.94 4.49
2798 3282 4.374399 ACTTGAAAACATCGGTAGAACGT 58.626 39.130 0.00 0.00 34.94 3.99
2799 3283 4.985044 ACTTGAAAACATCGGTAGAACG 57.015 40.909 0.00 0.00 0.00 3.95
2800 3284 6.721321 TGAAACTTGAAAACATCGGTAGAAC 58.279 36.000 0.00 0.00 0.00 3.01
2882 3366 3.468770 TGCAGCTTTTTGTTCCGTACTA 58.531 40.909 0.00 0.00 0.00 1.82
3021 3508 4.015084 TCTTTACGGAGGGAGTACTTCTG 58.985 47.826 0.01 0.62 0.00 3.02
3486 3988 5.704515 AGAACTTCATCCAATCTTGTGACAG 59.295 40.000 0.00 0.00 0.00 3.51
3862 4527 4.584325 TGTGAGGAACCATGAAAAGGAAAG 59.416 41.667 0.00 0.00 0.00 2.62
3872 4537 5.439721 TCTCCATTATTGTGAGGAACCATG 58.560 41.667 0.00 0.00 0.00 3.66
4024 4692 2.681344 GGTAAAATAACACCCGCTCCTG 59.319 50.000 0.00 0.00 0.00 3.86
4038 4706 3.806949 TCCTCTTGCCAGTGGTAAAAT 57.193 42.857 14.06 0.00 35.45 1.82
4202 4870 1.541310 AACCATCTTCCGACTCGCCA 61.541 55.000 0.00 0.00 0.00 5.69
4486 5180 6.227298 TCTGTAATTTGGTGCAAAGGAAAA 57.773 33.333 0.00 0.00 36.76 2.29
4501 5195 3.379372 GGCACAGCACATGATCTGTAATT 59.621 43.478 18.87 0.00 41.19 1.40
4517 5214 1.260538 TAGTCAGGAGGCAGGCACAG 61.261 60.000 0.00 0.00 0.00 3.66
4595 5301 4.680237 TTCCCGCTGTCGTGCTGG 62.680 66.667 0.00 0.00 38.44 4.85
4739 5467 2.846193 ACACAAATACGCTTGTCCAGT 58.154 42.857 0.00 0.00 37.43 4.00
4810 5540 3.099574 GCAAAAACGCCGAGCAGC 61.100 61.111 0.00 0.00 0.00 5.25
4811 5541 2.010817 GTGCAAAAACGCCGAGCAG 61.011 57.895 0.00 0.00 35.66 4.24
4812 5542 2.025441 GTGCAAAAACGCCGAGCA 59.975 55.556 0.00 0.00 0.00 4.26
4813 5543 1.337110 GATGTGCAAAAACGCCGAGC 61.337 55.000 0.00 0.00 0.00 5.03
4814 5544 0.238289 AGATGTGCAAAAACGCCGAG 59.762 50.000 0.00 0.00 0.00 4.63
4885 5615 7.591006 TCGGTATTTCAGTTAAACAGTCATC 57.409 36.000 0.00 0.00 0.00 2.92
4889 5619 5.938125 AGCATCGGTATTTCAGTTAAACAGT 59.062 36.000 0.00 0.00 0.00 3.55
4894 5624 3.308595 CGCAGCATCGGTATTTCAGTTAA 59.691 43.478 0.00 0.00 0.00 2.01
4946 5681 3.871006 CACAGTAGCGCCAATATTTCTCA 59.129 43.478 2.29 0.00 0.00 3.27
4972 5707 5.730550 TCACAAGATAAGTGGGTGATACAC 58.269 41.667 0.00 0.00 37.58 2.90
4987 5727 2.119801 AGGCTCGCAAATCACAAGAT 57.880 45.000 0.00 0.00 35.53 2.40
4988 5728 2.760634 TAGGCTCGCAAATCACAAGA 57.239 45.000 0.00 0.00 0.00 3.02
4989 5729 4.100529 CAAATAGGCTCGCAAATCACAAG 58.899 43.478 0.00 0.00 0.00 3.16
4990 5730 3.119531 CCAAATAGGCTCGCAAATCACAA 60.120 43.478 0.00 0.00 0.00 3.33
4991 5731 2.423185 CCAAATAGGCTCGCAAATCACA 59.577 45.455 0.00 0.00 0.00 3.58
5148 5922 1.134491 CCTGGCCTAAACTACCTTCCG 60.134 57.143 3.32 0.00 0.00 4.30
5154 5928 2.633488 CTCAAGCCTGGCCTAAACTAC 58.367 52.381 16.57 0.00 0.00 2.73
5161 5935 2.610233 AGAGCTCAAGCCTGGCCT 60.610 61.111 17.77 4.34 43.38 5.19
5173 5947 3.320256 CCAAAAGGCAGAAAAAGAGAGCT 59.680 43.478 0.00 0.00 0.00 4.09
5189 5964 0.250424 CCAAAAGCCCAGCCCAAAAG 60.250 55.000 0.00 0.00 0.00 2.27
5213 5988 0.965439 TCAACCCAAAATCAAGCCCG 59.035 50.000 0.00 0.00 0.00 6.13
5278 6053 1.740025 CAACCTTCATTTCTCGAGCCC 59.260 52.381 7.81 0.00 0.00 5.19
5283 6058 1.826385 AGCCCAACCTTCATTTCTCG 58.174 50.000 0.00 0.00 0.00 4.04
5297 6072 0.678950 GCCAAGCTTGTAAAAGCCCA 59.321 50.000 24.35 0.00 46.61 5.36
5313 6088 2.269562 CGGGTAAACATCGGGCCA 59.730 61.111 4.39 0.00 0.00 5.36
5376 6156 2.260844 TGCAGTTTTCTAGCAGCAGT 57.739 45.000 0.00 0.00 32.99 4.40
5377 6157 4.952262 TTATGCAGTTTTCTAGCAGCAG 57.048 40.909 0.00 0.00 37.37 4.24
5436 6216 4.856607 GAGGACGCGCCGGAGAAG 62.857 72.222 10.31 4.25 43.43 2.85
5487 6267 1.674322 AACAACCGATGCCCCGAAG 60.674 57.895 0.00 0.00 0.00 3.79
5488 6268 1.969064 CAACAACCGATGCCCCGAA 60.969 57.895 0.00 0.00 0.00 4.30
5489 6269 2.359354 CAACAACCGATGCCCCGA 60.359 61.111 0.00 0.00 0.00 5.14
5490 6270 3.439540 CCAACAACCGATGCCCCG 61.440 66.667 0.00 0.00 0.00 5.73
5491 6271 3.758931 GCCAACAACCGATGCCCC 61.759 66.667 0.00 0.00 0.00 5.80
5492 6272 2.275380 AAGCCAACAACCGATGCCC 61.275 57.895 0.00 0.00 0.00 5.36
5493 6273 1.080569 CAAGCCAACAACCGATGCC 60.081 57.895 0.00 0.00 0.00 4.40
5494 6274 0.527565 ATCAAGCCAACAACCGATGC 59.472 50.000 0.00 0.00 0.00 3.91
5495 6275 2.086869 AGATCAAGCCAACAACCGATG 58.913 47.619 0.00 0.00 0.00 3.84
5496 6276 2.086869 CAGATCAAGCCAACAACCGAT 58.913 47.619 0.00 0.00 0.00 4.18
5497 6277 1.522668 CAGATCAAGCCAACAACCGA 58.477 50.000 0.00 0.00 0.00 4.69
5498 6278 0.523072 CCAGATCAAGCCAACAACCG 59.477 55.000 0.00 0.00 0.00 4.44
5499 6279 1.815003 CTCCAGATCAAGCCAACAACC 59.185 52.381 0.00 0.00 0.00 3.77
5500 6280 1.200948 GCTCCAGATCAAGCCAACAAC 59.799 52.381 0.00 0.00 32.22 3.32
5501 6281 1.538047 GCTCCAGATCAAGCCAACAA 58.462 50.000 0.00 0.00 32.22 2.83
5502 6282 0.674581 CGCTCCAGATCAAGCCAACA 60.675 55.000 8.60 0.00 35.00 3.33
5503 6283 0.674895 ACGCTCCAGATCAAGCCAAC 60.675 55.000 8.60 0.00 35.00 3.77
5504 6284 0.391661 GACGCTCCAGATCAAGCCAA 60.392 55.000 8.60 0.00 35.00 4.52
5505 6285 1.219124 GACGCTCCAGATCAAGCCA 59.781 57.895 8.60 0.00 35.00 4.75
5506 6286 1.522580 GGACGCTCCAGATCAAGCC 60.523 63.158 8.60 0.00 36.28 4.35
5507 6287 0.809241 CAGGACGCTCCAGATCAAGC 60.809 60.000 0.00 0.00 39.61 4.01
5508 6288 0.179089 CCAGGACGCTCCAGATCAAG 60.179 60.000 0.00 0.00 39.61 3.02
5509 6289 0.904865 ACCAGGACGCTCCAGATCAA 60.905 55.000 0.00 0.00 39.61 2.57
5510 6290 1.305297 ACCAGGACGCTCCAGATCA 60.305 57.895 0.00 0.00 39.61 2.92
5511 6291 1.142748 CACCAGGACGCTCCAGATC 59.857 63.158 0.00 0.00 39.61 2.75
5512 6292 0.904865 TTCACCAGGACGCTCCAGAT 60.905 55.000 0.00 0.00 39.61 2.90
5513 6293 1.118965 TTTCACCAGGACGCTCCAGA 61.119 55.000 0.00 0.00 39.61 3.86
5514 6294 0.951040 GTTTCACCAGGACGCTCCAG 60.951 60.000 0.00 0.00 39.61 3.86
5515 6295 1.070786 GTTTCACCAGGACGCTCCA 59.929 57.895 0.00 0.00 39.61 3.86
5516 6296 0.321653 ATGTTTCACCAGGACGCTCC 60.322 55.000 0.00 0.00 36.58 4.70
5517 6297 2.380084 TATGTTTCACCAGGACGCTC 57.620 50.000 0.00 0.00 0.00 5.03
5518 6298 2.851263 TTATGTTTCACCAGGACGCT 57.149 45.000 0.00 0.00 0.00 5.07
5519 6299 2.161609 CCTTTATGTTTCACCAGGACGC 59.838 50.000 0.00 0.00 0.00 5.19
5526 6306 4.340617 TCCATCACCCTTTATGTTTCACC 58.659 43.478 0.00 0.00 0.00 4.02
5539 6319 0.475906 CCCCATCTTCTCCATCACCC 59.524 60.000 0.00 0.00 0.00 4.61
5558 6338 1.803519 CTGTGAGCTTCGCCTCGAC 60.804 63.158 0.00 0.00 34.89 4.20
5594 6374 1.754234 ATTGTCGCCAATGAGCCCC 60.754 57.895 0.00 0.00 39.81 5.80
5611 6391 2.721971 GATCCGGCATGCGAGTCCAT 62.722 60.000 12.44 0.00 0.00 3.41
5616 6396 3.032609 GTCGATCCGGCATGCGAG 61.033 66.667 12.44 8.25 33.00 5.03
5622 6402 3.572682 AGTTATATTCAGTCGATCCGGCA 59.427 43.478 0.00 0.00 32.13 5.69


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

AutoCloner maintained by Alex Coulton.