Multiple sequence alignment - TraesCS1B01G379700

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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 TraesCS1B01G379700 chr1B 100.000 4127 0 0 1 4127 612892016 612896142 0.000000e+00 7622.0
1 TraesCS1B01G379700 chr1B 85.350 157 16 6 1738 1892 612900467 612900618 5.520000e-34 156.0
2 TraesCS1B01G379700 chr1A 88.843 2438 175 34 878 3240 543067228 543069643 0.000000e+00 2905.0
3 TraesCS1B01G379700 chr1A 88.990 881 73 10 3261 4120 543069626 543070503 0.000000e+00 1068.0
4 TraesCS1B01G379700 chr1A 90.469 703 30 13 207 881 543066245 543066938 0.000000e+00 893.0
5 TraesCS1B01G379700 chr1A 83.113 681 100 10 2370 3043 543187632 543188304 1.270000e-169 606.0
6 TraesCS1B01G379700 chr1A 85.018 554 76 5 3261 3809 543175280 543175831 1.300000e-154 556.0
7 TraesCS1B01G379700 chr1A 87.381 420 46 5 1943 2361 543187039 543187452 3.730000e-130 475.0
8 TraesCS1B01G379700 chr1A 84.058 345 51 3 2011 2354 543170390 543170731 3.080000e-86 329.0
9 TraesCS1B01G379700 chr1A 85.430 151 21 1 3038 3188 543193340 543193489 5.520000e-34 156.0
10 TraesCS1B01G379700 chr1A 90.654 107 9 1 1483 1589 543190605 543190710 1.550000e-29 141.0
11 TraesCS1B01G379700 chr1A 89.109 101 8 1 1359 1456 543190438 543190538 5.600000e-24 122.0
12 TraesCS1B01G379700 chr1D 91.286 1618 78 25 79 1658 447257975 447259567 0.000000e+00 2148.0
13 TraesCS1B01G379700 chr1D 87.053 1537 133 28 1758 3240 447259574 447261098 0.000000e+00 1676.0
14 TraesCS1B01G379700 chr1D 89.450 872 74 10 3261 4120 447261081 447261946 0.000000e+00 1085.0
15 TraesCS1B01G379700 chr1D 83.847 681 94 10 2370 3043 447365694 447366365 5.820000e-178 634.0
16 TraesCS1B01G379700 chr1D 89.676 339 31 4 3261 3596 447444013 447444350 2.950000e-116 429.0
17 TraesCS1B01G379700 chr1D 83.807 352 52 4 2011 2361 447282798 447283145 3.080000e-86 329.0
18 TraesCS1B01G379700 chr1D 80.172 464 52 10 1420 1874 447334878 447335310 1.110000e-80 311.0
19 TraesCS1B01G379700 chr1D 82.282 333 43 8 2029 2361 447337884 447338200 1.460000e-69 274.0
20 TraesCS1B01G379700 chr1D 82.828 198 30 4 3038 3234 447443831 447444025 1.520000e-39 174.0
21 TraesCS1B01G379700 chr1D 92.233 103 8 0 1483 1585 447368677 447368779 3.320000e-31 147.0
22 TraesCS1B01G379700 chr1D 86.408 103 11 1 1359 1458 447368510 447368612 4.360000e-20 110.0
23 TraesCS1B01G379700 chr4B 84.830 323 35 6 2000 2321 181451357 181451048 3.100000e-81 313.0
24 TraesCS1B01G379700 chr4B 81.633 98 16 2 1369 1465 516956809 516956713 3.420000e-11 80.5
25 TraesCS1B01G379700 chr7B 84.520 323 36 2 2000 2321 651157005 651156696 1.440000e-79 307.0
26 TraesCS1B01G379700 chr3B 83.901 323 38 3 2000 2321 261178581 261178272 3.120000e-76 296.0
27 TraesCS1B01G379700 chr6B 83.168 303 37 6 2000 2301 114458837 114458548 8.800000e-67 265.0
28 TraesCS1B01G379700 chr6A 83.224 304 36 7 2000 2301 531463098 531462808 8.800000e-67 265.0
29 TraesCS1B01G379700 chr6A 87.770 139 17 0 2183 2321 21157227 21157365 3.300000e-36 163.0
30 TraesCS1B01G379700 chr4D 81.633 98 16 2 1369 1465 419158889 419158793 3.420000e-11 80.5


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 TraesCS1B01G379700 chr1B 612892016 612896142 4126 False 7622.000000 7622 100.0000 1 4127 1 chr1B.!!$F1 4126
1 TraesCS1B01G379700 chr1A 543066245 543070503 4258 False 1622.000000 2905 89.4340 207 4120 3 chr1A.!!$F3 3913
2 TraesCS1B01G379700 chr1A 543175280 543175831 551 False 556.000000 556 85.0180 3261 3809 1 chr1A.!!$F2 548
3 TraesCS1B01G379700 chr1A 543187039 543193489 6450 False 300.000000 606 87.1374 1359 3188 5 chr1A.!!$F4 1829
4 TraesCS1B01G379700 chr1D 447257975 447261946 3971 False 1636.333333 2148 89.2630 79 4120 3 chr1D.!!$F2 4041
5 TraesCS1B01G379700 chr1D 447443831 447444350 519 False 301.500000 429 86.2520 3038 3596 2 chr1D.!!$F5 558
6 TraesCS1B01G379700 chr1D 447365694 447368779 3085 False 297.000000 634 87.4960 1359 3043 3 chr1D.!!$F4 1684
7 TraesCS1B01G379700 chr1D 447334878 447338200 3322 False 292.500000 311 81.2270 1420 2361 2 chr1D.!!$F3 941

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
759 782 0.107456 GATGATGGTCCATGCGAGGT 59.893 55.0 9.76 0.0 0.00 3.85 F
1054 1382 0.816018 CCGCCACGCCACCATAATAA 60.816 55.0 0.00 0.0 0.00 1.40 F
2310 5220 0.949105 AACCTGTAAGCAACCGAGCG 60.949 55.0 0.00 0.0 40.15 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2331 5241 0.031994 AACTGCGGCCAATTTGTCAC 59.968 50.0 2.24 0.0 0.00 3.67 R
2468 5550 0.462759 GGGTTGATGAAGCCCTCTCG 60.463 60.0 1.11 0.0 43.01 4.04 R
3585 6882 0.179045 GTGGAAGAGGCGGCATACAT 60.179 55.0 13.08 0.0 0.00 2.29 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
26 27 9.688592 AAACTGTGATTTCTCTGAATGAAAATC 57.311 29.630 0.00 0.00 37.05 2.17
27 28 7.524912 ACTGTGATTTCTCTGAATGAAAATCG 58.475 34.615 0.00 0.00 37.05 3.34
28 29 6.845302 TGTGATTTCTCTGAATGAAAATCGG 58.155 36.000 0.00 0.00 37.05 4.18
29 30 6.654582 TGTGATTTCTCTGAATGAAAATCGGA 59.345 34.615 0.00 0.00 37.05 4.55
30 31 7.148356 TGTGATTTCTCTGAATGAAAATCGGAG 60.148 37.037 6.11 6.11 46.95 4.63
34 35 4.142609 TCTGAATGAAAATCGGAGAGGG 57.857 45.455 0.00 0.00 43.63 4.30
35 36 3.774766 TCTGAATGAAAATCGGAGAGGGA 59.225 43.478 0.00 0.00 43.63 4.20
36 37 4.125703 CTGAATGAAAATCGGAGAGGGAG 58.874 47.826 0.00 0.00 43.63 4.30
37 38 2.629336 ATGAAAATCGGAGAGGGAGC 57.371 50.000 0.00 0.00 43.63 4.70
38 39 1.573108 TGAAAATCGGAGAGGGAGCT 58.427 50.000 0.00 0.00 43.63 4.09
39 40 1.909302 TGAAAATCGGAGAGGGAGCTT 59.091 47.619 0.00 0.00 43.63 3.74
40 41 2.305927 TGAAAATCGGAGAGGGAGCTTT 59.694 45.455 0.00 0.00 43.63 3.51
41 42 2.700722 AAATCGGAGAGGGAGCTTTC 57.299 50.000 0.00 0.00 43.63 2.62
42 43 1.872773 AATCGGAGAGGGAGCTTTCT 58.127 50.000 0.00 0.00 43.63 2.52
43 44 1.872773 ATCGGAGAGGGAGCTTTCTT 58.127 50.000 0.00 0.00 43.63 2.52
44 45 1.645710 TCGGAGAGGGAGCTTTCTTT 58.354 50.000 0.00 0.00 0.00 2.52
45 46 1.978580 TCGGAGAGGGAGCTTTCTTTT 59.021 47.619 0.00 0.00 0.00 2.27
46 47 2.079925 CGGAGAGGGAGCTTTCTTTTG 58.920 52.381 0.00 0.00 0.00 2.44
47 48 2.289694 CGGAGAGGGAGCTTTCTTTTGA 60.290 50.000 0.00 0.00 0.00 2.69
48 49 3.756117 GGAGAGGGAGCTTTCTTTTGAA 58.244 45.455 0.00 0.00 36.52 2.69
49 50 4.145052 GGAGAGGGAGCTTTCTTTTGAAA 58.855 43.478 0.00 0.00 45.20 2.69
50 51 4.584743 GGAGAGGGAGCTTTCTTTTGAAAA 59.415 41.667 0.00 0.00 46.42 2.29
51 52 5.278709 GGAGAGGGAGCTTTCTTTTGAAAAG 60.279 44.000 11.30 11.30 46.42 2.27
52 53 5.449553 AGAGGGAGCTTTCTTTTGAAAAGA 58.550 37.500 15.81 15.81 46.42 2.52
53 54 5.893824 AGAGGGAGCTTTCTTTTGAAAAGAA 59.106 36.000 24.62 24.62 46.42 2.52
54 55 6.381133 AGAGGGAGCTTTCTTTTGAAAAGAAA 59.619 34.615 31.85 31.85 46.42 2.52
55 56 6.946340 AGGGAGCTTTCTTTTGAAAAGAAAA 58.054 32.000 32.74 21.92 46.42 2.29
56 57 7.394016 AGGGAGCTTTCTTTTGAAAAGAAAAA 58.606 30.769 32.74 20.05 46.42 1.94
57 58 7.550551 AGGGAGCTTTCTTTTGAAAAGAAAAAG 59.449 33.333 32.74 26.37 46.42 2.27
58 59 7.201644 GGGAGCTTTCTTTTGAAAAGAAAAAGG 60.202 37.037 32.74 25.53 46.42 3.11
59 60 7.549134 GGAGCTTTCTTTTGAAAAGAAAAAGGA 59.451 33.333 32.74 18.94 46.42 3.36
60 61 8.846943 AGCTTTCTTTTGAAAAGAAAAAGGAA 57.153 26.923 32.74 18.40 46.42 3.36
61 62 9.283768 AGCTTTCTTTTGAAAAGAAAAAGGAAA 57.716 25.926 32.74 17.85 46.42 3.13
62 63 9.891828 GCTTTCTTTTGAAAAGAAAAAGGAAAA 57.108 25.926 32.74 17.30 46.42 2.29
97 98 5.221303 TGCTTGTAGTAGTACACCGAAAAGT 60.221 40.000 10.01 0.00 38.95 2.66
100 101 7.382218 GCTTGTAGTAGTACACCGAAAAGTTAA 59.618 37.037 10.01 0.00 38.95 2.01
101 102 8.801715 TTGTAGTAGTACACCGAAAAGTTAAG 57.198 34.615 10.01 0.00 38.95 1.85
103 104 8.292448 TGTAGTAGTACACCGAAAAGTTAAGAG 58.708 37.037 6.31 0.00 34.02 2.85
107 108 4.146745 ACACCGAAAAGTTAAGAGTGGT 57.853 40.909 0.00 0.00 0.00 4.16
117 118 5.871396 AGTTAAGAGTGGTTCTGAAGTGA 57.129 39.130 0.00 0.00 35.91 3.41
153 154 0.380378 TTGAGCTTGGTCACAAACGC 59.620 50.000 1.72 0.00 35.89 4.84
194 195 1.606668 GGACAATGAGAACGGTGCAAA 59.393 47.619 0.00 0.00 0.00 3.68
200 201 2.778299 TGAGAACGGTGCAAAGCTTAT 58.222 42.857 0.00 0.00 0.00 1.73
205 206 4.037446 AGAACGGTGCAAAGCTTATTTGAA 59.963 37.500 0.00 0.00 0.00 2.69
254 255 2.317609 GGCGTGCATGTCGTGTTCT 61.318 57.895 7.93 0.00 0.00 3.01
317 318 2.191802 CAGTCGCACAAACAAATTGCA 58.808 42.857 0.00 0.00 43.13 4.08
352 353 0.108329 GGCCGTCCCATATACGATGG 60.108 60.000 0.00 2.25 42.90 3.51
414 415 0.548031 ATCCATTCCATCCTGTGCGT 59.452 50.000 0.00 0.00 0.00 5.24
425 426 1.586042 CTGTGCGTGCTTGCGTTTT 60.586 52.632 0.00 0.00 37.81 2.43
472 473 3.612247 CTGCCCCTTGACCTGTCCG 62.612 68.421 0.00 0.00 0.00 4.79
491 492 0.788391 GTTCGGCCACGTTTGACTAG 59.212 55.000 2.24 0.00 41.85 2.57
586 595 4.689345 CCAAAAGTGTGCTAGTACAGTACC 59.311 45.833 19.95 6.48 38.99 3.34
692 708 2.429610 ACAAAGGAGGCATGCATGATTC 59.570 45.455 30.64 23.09 0.00 2.52
713 733 2.292267 GACGATCCAGATTTGCATGGT 58.708 47.619 4.04 0.00 37.84 3.55
715 735 1.268896 CGATCCAGATTTGCATGGTGC 60.269 52.381 4.04 0.00 45.29 5.01
755 778 0.179009 AAGGGATGATGGTCCATGCG 60.179 55.000 9.76 0.00 40.17 4.73
759 782 0.107456 GATGATGGTCCATGCGAGGT 59.893 55.000 9.76 0.00 0.00 3.85
902 1226 4.056050 GAGTTTACAGGCTTTCGTCAGAA 58.944 43.478 0.00 0.00 33.98 3.02
997 1321 1.673626 GCGACGGTGGAGTTAAATGGA 60.674 52.381 0.00 0.00 0.00 3.41
1052 1380 1.973816 TACCGCCACGCCACCATAAT 61.974 55.000 0.00 0.00 0.00 1.28
1053 1381 1.227704 CCGCCACGCCACCATAATA 60.228 57.895 0.00 0.00 0.00 0.98
1054 1382 0.816018 CCGCCACGCCACCATAATAA 60.816 55.000 0.00 0.00 0.00 1.40
1168 1507 4.176752 GATGGGGGACAGGGCGTC 62.177 72.222 0.00 0.00 44.57 5.19
1280 1619 1.826921 GGTAGGCGGATCGGACTGA 60.827 63.158 18.45 0.56 0.00 3.41
1291 1630 1.176619 TCGGACTGACTCGGCTTTGA 61.177 55.000 0.00 0.00 0.00 2.69
1303 1643 2.935955 CTTTGACACCGTGCGTCC 59.064 61.111 0.00 0.00 32.15 4.79
1356 1698 1.604593 GGTTGCTCATGCCACTGGT 60.605 57.895 0.00 0.00 38.71 4.00
1519 1881 1.302351 GTGCTCTGCTCTGCCTGTT 60.302 57.895 0.00 0.00 0.00 3.16
1535 1897 3.243367 GCCTGTTTAACACATGCACTGAA 60.243 43.478 0.00 0.00 44.29 3.02
1552 1914 5.762045 CACTGAATGTTTCTTCGTTCCATT 58.238 37.500 0.00 0.00 33.80 3.16
1646 2019 4.265556 CACGTAGCATTGTGTAAGTCTAGC 59.734 45.833 0.00 0.00 0.00 3.42
1660 2034 4.173290 AGTCTAGCCTACCAGAGTAAGG 57.827 50.000 0.00 0.00 0.00 2.69
1673 2047 3.195396 CAGAGTAAGGAAAGCTCTGCTCT 59.805 47.826 7.69 0.00 46.15 4.09
1682 2056 2.965572 AGCTCTGCTCTCATGTTCTC 57.034 50.000 0.00 0.00 30.62 2.87
1685 2059 3.125316 GCTCTGCTCTCATGTTCTCATC 58.875 50.000 0.00 0.00 31.15 2.92
1691 2065 3.744846 GCTCTCATGTTCTCATCCATGCT 60.745 47.826 0.00 0.00 38.63 3.79
1696 2070 4.102681 TCATGTTCTCATCCATGCTGAGAT 59.897 41.667 20.47 8.74 46.26 2.75
1749 2123 5.705441 CCTCTCTACTTCTCTAGGCATACAG 59.295 48.000 0.00 0.00 0.00 2.74
1844 2229 4.944962 TTGTCATCTGAATTTAGCCGTG 57.055 40.909 0.00 0.00 0.00 4.94
1963 2374 3.326747 GACGCAGGTCTGATTTTGTACT 58.673 45.455 1.65 0.00 40.15 2.73
1972 2389 9.214957 CAGGTCTGATTTTGTACTTACAACATA 57.785 33.333 1.18 0.00 45.01 2.29
1973 2390 9.959721 AGGTCTGATTTTGTACTTACAACATAT 57.040 29.630 1.18 0.00 45.01 1.78
2020 2437 8.909708 TGAAAGTTTCACTTCAATTTGTACTG 57.090 30.769 14.35 0.00 37.47 2.74
2060 4962 2.235891 GTGGGGGAAGTAAAGGTTGTG 58.764 52.381 0.00 0.00 0.00 3.33
2173 5075 2.296190 TCATTCTACCATCATCGACCGG 59.704 50.000 0.00 0.00 0.00 5.28
2174 5076 1.771565 TTCTACCATCATCGACCGGT 58.228 50.000 6.92 6.92 35.46 5.28
2175 5077 1.315690 TCTACCATCATCGACCGGTC 58.684 55.000 25.28 25.28 32.81 4.79
2202 5107 4.619336 GCGCTGATGAGTTAGTATAGCTTC 59.381 45.833 0.00 0.00 29.90 3.86
2222 5132 8.635765 AGCTTCCTTACAATTTTCTGTTCATA 57.364 30.769 0.00 0.00 0.00 2.15
2310 5220 0.949105 AACCTGTAAGCAACCGAGCG 60.949 55.000 0.00 0.00 40.15 5.03
2321 5231 2.734492 GCAACCGAGCGTAACAGATAGT 60.734 50.000 0.00 0.00 0.00 2.12
2331 5241 4.259292 GCGTAACAGATAGTTTGTACTGCG 60.259 45.833 0.00 0.00 41.64 5.18
2366 5277 3.541996 CAGTTTTTGCCCCAAAAGAGT 57.458 42.857 3.71 0.00 42.91 3.24
2368 5279 3.103742 AGTTTTTGCCCCAAAAGAGTCA 58.896 40.909 3.71 0.00 42.91 3.41
2377 5459 2.958355 CCCAAAAGAGTCAAGCTTTCCA 59.042 45.455 0.00 0.00 34.68 3.53
2386 5468 3.873952 AGTCAAGCTTTCCATCGCTAATC 59.126 43.478 0.00 0.00 34.96 1.75
2392 5474 6.212888 AGCTTTCCATCGCTAATCAAAATT 57.787 33.333 0.00 0.00 34.11 1.82
2449 5531 2.938956 ACTATGATACCCTGCTTGCC 57.061 50.000 0.00 0.00 0.00 4.52
2452 5534 1.819753 ATGATACCCTGCTTGCCCTA 58.180 50.000 0.00 0.00 0.00 3.53
2468 5550 0.523335 CCTATTTGACAAAGGCGCGC 60.523 55.000 25.94 25.94 0.00 6.86
2518 5600 0.458543 ACATACTTGTCTCAGCGCCG 60.459 55.000 2.29 0.00 0.00 6.46
2564 5646 9.525409 CAAAGATGGAGGTGATTTGATAATTTC 57.475 33.333 0.00 0.00 33.69 2.17
2595 5677 4.698201 TCCATCTTTATATTCCCGCACA 57.302 40.909 0.00 0.00 0.00 4.57
2632 5723 6.262273 TGTGTTTACATGTCCTTTTCTTCTCC 59.738 38.462 0.00 0.00 0.00 3.71
2643 5734 3.423539 TTTCTTCTCCATGTGTCCAGG 57.576 47.619 0.00 0.00 0.00 4.45
2652 5743 4.358214 TCCATGTGTCCAGGAATACACTA 58.642 43.478 9.44 0.00 34.51 2.74
2663 5754 2.093869 GGAATACACTAGGTCGCACCAA 60.094 50.000 7.86 0.00 41.95 3.67
2699 5790 2.955660 GACGAGTTGGGAGATCTCAGAT 59.044 50.000 23.85 5.08 0.00 2.90
2729 5820 2.193536 AAAAGCACCACCGGCTGAC 61.194 57.895 0.00 0.00 41.66 3.51
2821 5912 7.812669 CCTATTAGCCAAAAGAAATTCAACGTT 59.187 33.333 0.00 0.00 0.00 3.99
2871 5963 5.163642 TGTTTAATTGTACGGTGTGCTTGTT 60.164 36.000 0.00 0.00 0.00 2.83
2880 5972 1.339610 GGTGTGCTTGTTGTTGCCATA 59.660 47.619 0.00 0.00 0.00 2.74
2930 6025 8.514330 TTACCAAGTATGTTTGTTCTTCTTGT 57.486 30.769 0.00 0.00 31.97 3.16
2939 6034 5.870433 TGTTTGTTCTTCTTGTTGTCTACGA 59.130 36.000 0.00 0.00 0.00 3.43
2946 6041 6.925211 TCTTCTTGTTGTCTACGATGAATCT 58.075 36.000 0.00 0.00 0.00 2.40
2959 6054 3.556423 CGATGAATCTGATCAGGCCATCA 60.556 47.826 29.84 24.23 33.22 3.07
2978 6073 4.514781 TCATTGTACACGTAGAAGCAGT 57.485 40.909 0.00 0.00 0.00 4.40
2981 6076 3.720949 TGTACACGTAGAAGCAGTTGT 57.279 42.857 0.00 0.00 0.00 3.32
2992 6087 7.764443 ACGTAGAAGCAGTTGTGATATGTTATT 59.236 33.333 0.00 0.00 0.00 1.40
3099 6385 3.426615 AGTAATTGACCGGCCAAAATCA 58.573 40.909 7.45 0.00 0.00 2.57
3145 6431 8.964476 ACTCCATAGTGGTCATATTTTTACAG 57.036 34.615 0.00 0.00 39.03 2.74
3168 6454 7.923878 ACAGCCAAATTTACAGAAATACGTTTT 59.076 29.630 0.00 0.00 34.01 2.43
3193 6479 8.871629 TTATAGCTTCTCTAGAGGGATAGTTG 57.128 38.462 19.67 3.14 0.00 3.16
3197 6483 7.302184 AGCTTCTCTAGAGGGATAGTTGTATT 58.698 38.462 19.67 0.00 0.00 1.89
3202 6488 8.915036 TCTCTAGAGGGATAGTTGTATTGTTTC 58.085 37.037 19.67 0.00 0.00 2.78
3208 6494 7.287810 AGGGATAGTTGTATTGTTTCCCATAC 58.712 38.462 7.76 0.00 43.13 2.39
3221 6507 2.100197 TCCCATACCTGAGAAGACGTG 58.900 52.381 0.00 0.00 0.00 4.49
3222 6508 2.100197 CCCATACCTGAGAAGACGTGA 58.900 52.381 0.00 0.00 0.00 4.35
3223 6509 2.695666 CCCATACCTGAGAAGACGTGAT 59.304 50.000 0.00 0.00 0.00 3.06
3224 6510 3.889538 CCCATACCTGAGAAGACGTGATA 59.110 47.826 0.00 0.00 0.00 2.15
3225 6511 4.524714 CCCATACCTGAGAAGACGTGATAT 59.475 45.833 0.00 0.00 0.00 1.63
3226 6512 5.710567 CCCATACCTGAGAAGACGTGATATA 59.289 44.000 0.00 0.00 0.00 0.86
3227 6513 6.378564 CCCATACCTGAGAAGACGTGATATAT 59.621 42.308 0.00 0.00 0.00 0.86
3228 6514 7.093727 CCCATACCTGAGAAGACGTGATATATT 60.094 40.741 0.00 0.00 0.00 1.28
3229 6515 8.957466 CCATACCTGAGAAGACGTGATATATTA 58.043 37.037 0.00 0.00 0.00 0.98
3232 6518 8.871629 ACCTGAGAAGACGTGATATATTATCT 57.128 34.615 0.00 0.00 0.00 1.98
3233 6519 9.961264 ACCTGAGAAGACGTGATATATTATCTA 57.039 33.333 0.00 0.00 0.00 1.98
3302 6591 9.839817 TTATCCAATATAACGAGTGAATTCCAA 57.160 29.630 2.27 0.00 0.00 3.53
3326 6615 6.584185 TTTTTACTTCTTAGTTGGCCATCC 57.416 37.500 6.09 0.00 35.78 3.51
3444 6733 4.581824 ACAACAGCTCAAGATCACATGTTT 59.418 37.500 0.00 0.00 0.00 2.83
3503 6793 2.168313 CCCCCACAATACAATGAAAGCC 59.832 50.000 0.00 0.00 0.00 4.35
3585 6882 0.320858 TATGCTTTGTTGGCGACCGA 60.321 50.000 1.61 0.00 0.00 4.69
3682 9873 3.107402 TGAGTATCCCTTCAGCTCAGT 57.893 47.619 0.00 0.00 33.05 3.41
3694 9885 2.807045 CTCAGTGCGCACGTCCTC 60.807 66.667 32.94 10.28 36.20 3.71
3736 9933 1.553704 GGTTCCCGTGTTAGAGACCAT 59.446 52.381 0.00 0.00 0.00 3.55
3757 9954 2.237143 TCCACTTTATGCTGAGACCAGG 59.763 50.000 0.00 0.00 40.72 4.45
3813 10554 3.236896 GTCGGGGAGATATAGGAACCAA 58.763 50.000 0.00 0.00 0.00 3.67
3862 10603 1.504359 GGACGTTGTCGAAATGTGGA 58.496 50.000 9.08 0.00 40.62 4.02
3924 10684 8.328146 GTGCTAATTTCTTTCCAGTTTGTTTTC 58.672 33.333 0.00 0.00 0.00 2.29
3938 10699 7.393234 CCAGTTTGTTTTCCTCCTCATGTATTA 59.607 37.037 0.00 0.00 0.00 0.98
3940 10701 9.178758 AGTTTGTTTTCCTCCTCATGTATTATC 57.821 33.333 0.00 0.00 0.00 1.75
3970 11269 2.901192 TCAAGAACGATTAGGGGTCACA 59.099 45.455 0.00 0.00 0.00 3.58
4014 11321 3.352648 GCATACCAACAACCCTACACAT 58.647 45.455 0.00 0.00 0.00 3.21
4037 11344 1.549170 ACCATTCGTGTGTCTAGGACC 59.451 52.381 0.00 0.00 0.00 4.46
4046 11353 4.992319 CGTGTGTCTAGGACCAAATAACAA 59.008 41.667 0.00 0.00 0.00 2.83
4047 11354 5.107220 CGTGTGTCTAGGACCAAATAACAAC 60.107 44.000 0.00 0.00 0.00 3.32
4072 11379 7.134815 CACATAATGGTCCTCGAAATCAAATC 58.865 38.462 0.00 0.00 0.00 2.17
4073 11380 6.828273 ACATAATGGTCCTCGAAATCAAATCA 59.172 34.615 0.00 0.00 0.00 2.57
4074 11381 7.503566 ACATAATGGTCCTCGAAATCAAATCAT 59.496 33.333 0.00 0.00 0.00 2.45
4075 11382 6.382869 AATGGTCCTCGAAATCAAATCATC 57.617 37.500 0.00 0.00 0.00 2.92
4077 11384 4.199310 GGTCCTCGAAATCAAATCATCCA 58.801 43.478 0.00 0.00 0.00 3.41
4078 11385 4.823989 GGTCCTCGAAATCAAATCATCCAT 59.176 41.667 0.00 0.00 0.00 3.41
4079 11386 5.997746 GGTCCTCGAAATCAAATCATCCATA 59.002 40.000 0.00 0.00 0.00 2.74
4080 11387 6.656693 GGTCCTCGAAATCAAATCATCCATAT 59.343 38.462 0.00 0.00 0.00 1.78
4120 11429 7.339212 TCTTCTTCATTGTCCTTCAACAAAGAA 59.661 33.333 7.08 7.08 41.75 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 6.965500 CCGATTTTCATTCAGAGAAATCACAG 59.035 38.462 8.00 0.00 35.64 3.66
5 6 7.065085 TCTCCGATTTTCATTCAGAGAAATCAC 59.935 37.037 8.00 0.00 35.64 3.06
6 7 7.105588 TCTCCGATTTTCATTCAGAGAAATCA 58.894 34.615 8.00 0.00 35.64 2.57
7 8 7.254727 CCTCTCCGATTTTCATTCAGAGAAATC 60.255 40.741 0.00 0.00 35.17 2.17
8 9 6.541641 CCTCTCCGATTTTCATTCAGAGAAAT 59.458 38.462 0.00 0.00 35.17 2.17
9 10 5.877012 CCTCTCCGATTTTCATTCAGAGAAA 59.123 40.000 0.00 0.00 33.48 2.52
10 11 5.423015 CCTCTCCGATTTTCATTCAGAGAA 58.577 41.667 0.00 0.00 0.00 2.87
11 12 4.141846 CCCTCTCCGATTTTCATTCAGAGA 60.142 45.833 0.00 0.00 0.00 3.10
12 13 4.125703 CCCTCTCCGATTTTCATTCAGAG 58.874 47.826 0.00 0.00 0.00 3.35
13 14 3.774766 TCCCTCTCCGATTTTCATTCAGA 59.225 43.478 0.00 0.00 0.00 3.27
14 15 4.125703 CTCCCTCTCCGATTTTCATTCAG 58.874 47.826 0.00 0.00 0.00 3.02
15 16 3.682718 GCTCCCTCTCCGATTTTCATTCA 60.683 47.826 0.00 0.00 0.00 2.57
16 17 2.875317 GCTCCCTCTCCGATTTTCATTC 59.125 50.000 0.00 0.00 0.00 2.67
17 18 2.507471 AGCTCCCTCTCCGATTTTCATT 59.493 45.455 0.00 0.00 0.00 2.57
18 19 2.122768 AGCTCCCTCTCCGATTTTCAT 58.877 47.619 0.00 0.00 0.00 2.57
19 20 1.573108 AGCTCCCTCTCCGATTTTCA 58.427 50.000 0.00 0.00 0.00 2.69
20 21 2.700722 AAGCTCCCTCTCCGATTTTC 57.299 50.000 0.00 0.00 0.00 2.29
21 22 2.573915 AGAAAGCTCCCTCTCCGATTTT 59.426 45.455 0.00 0.00 0.00 1.82
22 23 2.192263 AGAAAGCTCCCTCTCCGATTT 58.808 47.619 0.00 0.00 0.00 2.17
23 24 1.872773 AGAAAGCTCCCTCTCCGATT 58.127 50.000 0.00 0.00 0.00 3.34
24 25 1.872773 AAGAAAGCTCCCTCTCCGAT 58.127 50.000 0.00 0.00 0.00 4.18
25 26 1.645710 AAAGAAAGCTCCCTCTCCGA 58.354 50.000 0.00 0.00 0.00 4.55
26 27 2.079925 CAAAAGAAAGCTCCCTCTCCG 58.920 52.381 0.00 0.00 0.00 4.63
27 28 3.425162 TCAAAAGAAAGCTCCCTCTCC 57.575 47.619 0.00 0.00 0.00 3.71
28 29 5.532779 TCTTTTCAAAAGAAAGCTCCCTCTC 59.467 40.000 10.29 0.00 34.80 3.20
29 30 5.449553 TCTTTTCAAAAGAAAGCTCCCTCT 58.550 37.500 10.29 0.00 34.80 3.69
30 31 5.774498 TCTTTTCAAAAGAAAGCTCCCTC 57.226 39.130 10.29 0.00 34.80 4.30
31 32 6.544928 TTTCTTTTCAAAAGAAAGCTCCCT 57.455 33.333 27.19 0.00 40.25 4.20
32 33 7.201644 CCTTTTTCTTTTCAAAAGAAAGCTCCC 60.202 37.037 28.45 0.00 44.22 4.30
33 34 7.549134 TCCTTTTTCTTTTCAAAAGAAAGCTCC 59.451 33.333 28.45 0.00 44.22 4.70
34 35 8.479313 TCCTTTTTCTTTTCAAAAGAAAGCTC 57.521 30.769 28.45 0.00 44.22 4.09
35 36 8.846943 TTCCTTTTTCTTTTCAAAAGAAAGCT 57.153 26.923 28.45 0.00 44.22 3.74
36 37 9.891828 TTTTCCTTTTTCTTTTCAAAAGAAAGC 57.108 25.926 28.45 0.00 44.22 3.51
68 69 4.201891 CGGTGTACTACTACAAGCAGGTAG 60.202 50.000 11.85 11.85 44.97 3.18
69 70 3.691118 CGGTGTACTACTACAAGCAGGTA 59.309 47.826 0.00 0.00 34.53 3.08
70 71 2.490903 CGGTGTACTACTACAAGCAGGT 59.509 50.000 0.00 0.00 34.53 4.00
71 72 2.751259 TCGGTGTACTACTACAAGCAGG 59.249 50.000 0.00 0.00 34.53 4.85
72 73 4.430137 TTCGGTGTACTACTACAAGCAG 57.570 45.455 0.00 0.00 34.53 4.24
73 74 4.852134 TTTCGGTGTACTACTACAAGCA 57.148 40.909 0.00 0.00 34.53 3.91
74 75 5.225642 ACTTTTCGGTGTACTACTACAAGC 58.774 41.667 0.00 0.00 34.53 4.01
75 76 8.801715 TTAACTTTTCGGTGTACTACTACAAG 57.198 34.615 0.00 0.00 34.53 3.16
76 77 8.629158 TCTTAACTTTTCGGTGTACTACTACAA 58.371 33.333 0.00 0.00 34.53 2.41
77 78 8.165239 TCTTAACTTTTCGGTGTACTACTACA 57.835 34.615 0.00 0.00 0.00 2.74
78 79 8.293157 ACTCTTAACTTTTCGGTGTACTACTAC 58.707 37.037 0.00 0.00 0.00 2.73
79 80 8.292448 CACTCTTAACTTTTCGGTGTACTACTA 58.708 37.037 0.00 0.00 0.00 1.82
80 81 7.144000 CACTCTTAACTTTTCGGTGTACTACT 58.856 38.462 0.00 0.00 0.00 2.57
81 82 6.364435 CCACTCTTAACTTTTCGGTGTACTAC 59.636 42.308 0.00 0.00 0.00 2.73
82 83 6.040842 ACCACTCTTAACTTTTCGGTGTACTA 59.959 38.462 0.00 0.00 0.00 1.82
83 84 5.163374 ACCACTCTTAACTTTTCGGTGTACT 60.163 40.000 0.00 0.00 0.00 2.73
84 85 5.052481 ACCACTCTTAACTTTTCGGTGTAC 58.948 41.667 0.00 0.00 0.00 2.90
97 98 4.899457 TCCTCACTTCAGAACCACTCTTAA 59.101 41.667 0.00 0.00 29.07 1.85
100 101 2.964209 TCCTCACTTCAGAACCACTCT 58.036 47.619 0.00 0.00 33.23 3.24
101 102 3.594134 CATCCTCACTTCAGAACCACTC 58.406 50.000 0.00 0.00 0.00 3.51
103 104 2.303022 TCCATCCTCACTTCAGAACCAC 59.697 50.000 0.00 0.00 0.00 4.16
107 108 3.510459 TGTCTCCATCCTCACTTCAGAA 58.490 45.455 0.00 0.00 0.00 3.02
117 118 3.808618 GCTCAAACAACTGTCTCCATCCT 60.809 47.826 0.00 0.00 0.00 3.24
133 134 1.202245 GCGTTTGTGACCAAGCTCAAA 60.202 47.619 0.00 0.00 30.34 2.69
153 154 5.016173 TCCCCCATATTTGTCAAGTTTCAG 58.984 41.667 0.00 0.00 0.00 3.02
200 201 6.913132 TCTCGCAACGATTTAAAATGTTCAAA 59.087 30.769 5.68 0.00 34.61 2.69
205 206 5.151389 GGTTCTCGCAACGATTTAAAATGT 58.849 37.500 0.00 0.00 34.61 2.71
254 255 2.488355 GCGTCACGGGATCTTCGA 59.512 61.111 14.02 0.00 0.00 3.71
286 287 1.530655 TGCGACTGGAGTCACTGGA 60.531 57.895 7.54 0.00 44.99 3.86
317 318 0.395724 GGCCAATCCGAATGAACCCT 60.396 55.000 0.00 0.00 0.00 4.34
352 353 3.666274 CTGGATTCTGATCTGATGAGGC 58.334 50.000 4.28 0.00 32.66 4.70
414 415 1.427592 GGCAAAGCAAAACGCAAGCA 61.428 50.000 0.00 0.00 46.13 3.91
472 473 0.788391 CTAGTCAAACGTGGCCGAAC 59.212 55.000 0.00 0.00 37.88 3.95
491 492 9.722056 AAGATCATTAACATTTAACAAGATCGC 57.278 29.630 0.00 0.00 35.69 4.58
586 595 2.680913 GCACCGGCAGTAACAGCTG 61.681 63.158 13.48 13.48 40.72 4.24
625 640 3.120923 GCGCATTTCACCACTGAAAATTG 60.121 43.478 0.30 0.00 46.99 2.32
628 643 1.406898 TGCGCATTTCACCACTGAAAA 59.593 42.857 5.66 0.00 46.99 2.29
692 708 1.262417 CCATGCAAATCTGGATCGTCG 59.738 52.381 0.00 0.00 34.24 5.12
720 740 0.320374 CCTTTCTGTCACCGGCACTA 59.680 55.000 0.00 0.00 0.00 2.74
721 741 1.071471 CCTTTCTGTCACCGGCACT 59.929 57.895 0.00 0.00 0.00 4.40
724 744 1.026718 CATCCCTTTCTGTCACCGGC 61.027 60.000 0.00 0.00 0.00 6.13
725 745 0.613260 TCATCCCTTTCTGTCACCGG 59.387 55.000 0.00 0.00 0.00 5.28
726 746 2.283298 CATCATCCCTTTCTGTCACCG 58.717 52.381 0.00 0.00 0.00 4.94
728 748 3.274288 GACCATCATCCCTTTCTGTCAC 58.726 50.000 0.00 0.00 0.00 3.67
729 749 2.239654 GGACCATCATCCCTTTCTGTCA 59.760 50.000 0.00 0.00 31.94 3.58
972 1296 1.174078 TAACTCCACCGTCGCTGTCA 61.174 55.000 0.00 0.00 0.00 3.58
997 1321 2.110627 GCTGGCTGATGATCGCCT 59.889 61.111 22.13 0.00 46.42 5.52
1215 1554 3.284449 GCCGAACACCCTGCGTTT 61.284 61.111 0.00 0.00 0.00 3.60
1270 1609 0.173708 AAAGCCGAGTCAGTCCGATC 59.826 55.000 0.00 0.00 0.00 3.69
1291 1630 2.029073 CAAGAGGACGCACGGTGT 59.971 61.111 10.24 0.00 0.00 4.16
1303 1643 6.464895 CTCAAGAGCTTAACTTGACAAGAG 57.535 41.667 21.95 9.81 45.44 2.85
1349 1691 2.666190 CGTCACCTGCACCAGTGG 60.666 66.667 7.91 7.91 0.00 4.00
1405 1747 3.512516 GCGACAAGGCCCATGAGC 61.513 66.667 12.82 12.67 0.00 4.26
1469 1811 3.447586 AGCAGAGGAAGCGTTGTATAGAA 59.552 43.478 0.00 0.00 37.01 2.10
1470 1812 3.024547 AGCAGAGGAAGCGTTGTATAGA 58.975 45.455 0.00 0.00 37.01 1.98
1471 1813 3.444703 AGCAGAGGAAGCGTTGTATAG 57.555 47.619 0.00 0.00 37.01 1.31
1519 1881 6.389830 AGAAACATTCAGTGCATGTGTTAA 57.610 33.333 9.23 0.00 34.97 2.01
1552 1914 3.670105 GGAATCACCCTGCCAAGAA 57.330 52.632 0.00 0.00 0.00 2.52
1639 2012 3.787013 TCCTTACTCTGGTAGGCTAGACT 59.213 47.826 2.16 2.16 0.00 3.24
1646 2019 4.027437 AGAGCTTTCCTTACTCTGGTAGG 58.973 47.826 0.00 0.00 39.29 3.18
1660 2034 3.598299 AGAACATGAGAGCAGAGCTTTC 58.402 45.455 0.00 2.89 39.88 2.62
1673 2047 3.918294 TCAGCATGGATGAGAACATGA 57.082 42.857 0.00 0.00 45.55 3.07
1682 2056 6.669278 CAATTTCACTATCTCAGCATGGATG 58.331 40.000 0.00 0.00 36.16 3.51
1685 2059 4.337274 TGCAATTTCACTATCTCAGCATGG 59.663 41.667 0.00 0.00 36.16 3.66
1711 2085 6.882768 AGTAGAGAGGATGGTTTCTTTCAT 57.117 37.500 0.00 0.00 0.00 2.57
1749 2123 0.968405 TGCAGGGAAATTGCAGAACC 59.032 50.000 0.00 0.00 45.89 3.62
1778 2153 9.051679 CCATATTCACATAAATTGTCGTCCTAA 57.948 33.333 0.00 0.00 36.00 2.69
1781 2156 7.011950 TGACCATATTCACATAAATTGTCGTCC 59.988 37.037 0.00 0.00 36.00 4.79
1782 2157 7.915508 TGACCATATTCACATAAATTGTCGTC 58.084 34.615 0.00 0.00 36.00 4.20
1801 2181 7.935520 ACAAAACAAAACAAAAACTTGACCAT 58.064 26.923 0.00 0.00 0.00 3.55
1844 2229 2.802247 GGCAAGTGAATTTTTCAGGTGC 59.198 45.455 13.04 13.04 44.17 5.01
1972 2389 7.971201 TCAGAGAAACATCAGCTGGATATAAT 58.029 34.615 15.13 0.00 33.95 1.28
1973 2390 7.365497 TCAGAGAAACATCAGCTGGATATAA 57.635 36.000 15.13 0.00 33.95 0.98
2020 2437 5.221342 CCCACACTCTCACCTAATATCTGTC 60.221 48.000 0.00 0.00 0.00 3.51
2060 4962 0.528017 TCCTCTCGTGCATGTCAGAC 59.472 55.000 5.68 0.00 0.00 3.51
2173 5075 0.522705 TAACTCATCAGCGCGACGAC 60.523 55.000 12.10 0.00 0.00 4.34
2174 5076 0.248094 CTAACTCATCAGCGCGACGA 60.248 55.000 12.10 5.04 0.00 4.20
2175 5077 0.523546 ACTAACTCATCAGCGCGACG 60.524 55.000 12.10 0.00 0.00 5.12
2176 5078 2.470196 TACTAACTCATCAGCGCGAC 57.530 50.000 12.10 0.04 0.00 5.19
2202 5107 7.363793 CCCCCTTATGAACAGAAAATTGTAAGG 60.364 40.741 0.00 0.00 34.81 2.69
2232 5142 0.842030 ACAGCTCCTCCATGGTTCCA 60.842 55.000 12.58 0.00 37.07 3.53
2310 5220 5.860182 TCACGCAGTACAAACTATCTGTTAC 59.140 40.000 0.00 0.00 41.61 2.50
2321 5231 3.793801 GCCAATTTGTCACGCAGTACAAA 60.794 43.478 9.17 9.17 41.61 2.83
2331 5241 0.031994 AACTGCGGCCAATTTGTCAC 59.968 50.000 2.24 0.00 0.00 3.67
2364 5275 3.334583 TTAGCGATGGAAAGCTTGACT 57.665 42.857 0.00 0.00 44.15 3.41
2365 5276 3.623060 TGATTAGCGATGGAAAGCTTGAC 59.377 43.478 0.00 0.00 44.15 3.18
2366 5277 3.872696 TGATTAGCGATGGAAAGCTTGA 58.127 40.909 0.00 0.00 44.15 3.02
2368 5279 5.643379 TTTTGATTAGCGATGGAAAGCTT 57.357 34.783 0.00 0.00 44.15 3.74
2392 5474 6.330514 TCAGCAACCCAACCTATATTGGTATA 59.669 38.462 9.36 0.00 46.72 1.47
2416 5498 6.879458 GGGTATCATAGTAACCATCCACATTC 59.121 42.308 0.00 0.00 34.83 2.67
2449 5531 0.523335 GCGCGCCTTTGTCAAATAGG 60.523 55.000 23.24 0.00 0.00 2.57
2452 5534 2.126888 CGCGCGCCTTTGTCAAAT 60.127 55.556 27.72 0.00 0.00 2.32
2468 5550 0.462759 GGGTTGATGAAGCCCTCTCG 60.463 60.000 1.11 0.00 43.01 4.04
2564 5646 7.307989 GGGAATATAAAGATGGATGTCACAACG 60.308 40.741 0.00 0.00 0.00 4.10
2632 5723 4.162320 ACCTAGTGTATTCCTGGACACATG 59.838 45.833 16.59 9.77 46.83 3.21
2643 5734 2.953466 TGGTGCGACCTAGTGTATTC 57.047 50.000 6.83 0.00 39.58 1.75
2663 5754 3.637273 GTCGTTGGGGCCACCTCT 61.637 66.667 0.20 0.00 41.11 3.69
2676 5767 1.096416 GAGATCTCCCAACTCGTCGT 58.904 55.000 12.00 0.00 0.00 4.34
2699 5790 1.953686 GGTGCTTTTGTGTAGCCAAGA 59.046 47.619 0.00 0.00 37.85 3.02
2729 5820 5.817296 TGGAATGAATGTTAGAGTTCATCCG 59.183 40.000 1.57 0.00 42.52 4.18
2880 5972 6.219473 TGCAATTCAAACGTGAAAACCATAT 58.781 32.000 0.00 0.00 46.66 1.78
2892 5985 6.806249 ACATACTTGGTAATGCAATTCAAACG 59.194 34.615 0.00 0.00 37.87 3.60
2930 6025 5.737349 GCCTGATCAGATTCATCGTAGACAA 60.737 44.000 24.62 0.00 42.51 3.18
2939 6034 4.659529 ATGATGGCCTGATCAGATTCAT 57.340 40.909 24.62 20.91 35.81 2.57
2946 6041 3.544684 GTGTACAATGATGGCCTGATCA 58.455 45.455 8.13 8.13 36.78 2.92
2959 6054 4.447724 CACAACTGCTTCTACGTGTACAAT 59.552 41.667 0.00 0.00 0.00 2.71
3088 6374 3.574284 TCACAAGATTGATTTTGGCCG 57.426 42.857 0.00 0.00 0.00 6.13
3163 6449 7.040473 TCCCTCTAGAGAAGCTATAAAAACG 57.960 40.000 21.76 0.00 0.00 3.60
3168 6454 8.449625 ACAACTATCCCTCTAGAGAAGCTATAA 58.550 37.037 21.76 0.00 0.00 0.98
3193 6479 6.539103 GTCTTCTCAGGTATGGGAAACAATAC 59.461 42.308 0.00 0.00 45.31 1.89
3197 6483 3.056107 CGTCTTCTCAGGTATGGGAAACA 60.056 47.826 0.00 0.00 45.31 2.83
3202 6488 2.100197 TCACGTCTTCTCAGGTATGGG 58.900 52.381 0.00 0.00 0.00 4.00
3238 6524 9.213777 AGATCCCTCACAGTATATAGTCAAAAA 57.786 33.333 0.00 0.00 0.00 1.94
3239 6525 8.783660 AGATCCCTCACAGTATATAGTCAAAA 57.216 34.615 0.00 0.00 0.00 2.44
3251 6537 8.964533 AACATAGATAATAGATCCCTCACAGT 57.035 34.615 0.00 0.00 0.00 3.55
3302 6591 6.127730 CGGATGGCCAACTAAGAAGTAAAAAT 60.128 38.462 10.96 0.00 33.75 1.82
3326 6615 9.181805 TCTCGTAAAATGAGATAATAGCTTTCG 57.818 33.333 0.00 0.00 35.47 3.46
3485 6775 3.727673 CGACGGCTTTCATTGTATTGTGG 60.728 47.826 0.00 0.00 0.00 4.17
3503 6793 3.311106 TGCTTTAAACTACTCCACGACG 58.689 45.455 0.00 0.00 0.00 5.12
3585 6882 0.179045 GTGGAAGAGGCGGCATACAT 60.179 55.000 13.08 0.00 0.00 2.29
3661 9152 3.387374 CACTGAGCTGAAGGGATACTCAT 59.613 47.826 0.00 0.00 36.82 2.90
3682 9873 1.444917 ATCTATCGAGGACGTGCGCA 61.445 55.000 5.66 5.66 40.69 6.09
3694 9885 1.665916 CGCCTGGGTGCATCTATCG 60.666 63.158 0.00 0.00 0.00 2.92
3736 9933 2.237143 CCTGGTCTCAGCATAAAGTGGA 59.763 50.000 0.00 0.00 39.61 4.02
3757 9954 1.817099 CCTCGAGCCATGGTTGAGC 60.817 63.158 14.67 0.00 39.46 4.26
3825 10566 1.227823 CCGAGCCTGTTGTTGTGGA 60.228 57.895 0.00 0.00 0.00 4.02
3855 10596 1.827344 TCATCGTCAGCTCTCCACATT 59.173 47.619 0.00 0.00 0.00 2.71
3862 10603 3.357203 TCTTAGGTTCATCGTCAGCTCT 58.643 45.455 0.00 0.00 0.00 4.09
3924 10684 5.139435 TCAAGCGATAATACATGAGGAGG 57.861 43.478 0.00 0.00 0.00 4.30
3956 11255 6.401047 TTTAGTCTATGTGACCCCTAATCG 57.599 41.667 0.00 0.00 46.46 3.34
4029 11336 9.173021 CATTATGTGTTGTTATTTGGTCCTAGA 57.827 33.333 0.00 0.00 0.00 2.43
4031 11338 7.891183 ACCATTATGTGTTGTTATTTGGTCCTA 59.109 33.333 0.00 0.00 0.00 2.94
4037 11344 6.966632 CGAGGACCATTATGTGTTGTTATTTG 59.033 38.462 0.00 0.00 0.00 2.32
4046 11353 5.097742 TGATTTCGAGGACCATTATGTGT 57.902 39.130 0.00 0.00 0.00 3.72
4047 11354 6.435430 TTTGATTTCGAGGACCATTATGTG 57.565 37.500 0.00 0.00 0.00 3.21
4072 11379 1.423541 TCGGGTTTGGGGATATGGATG 59.576 52.381 0.00 0.00 0.00 3.51
4073 11380 1.423921 GTCGGGTTTGGGGATATGGAT 59.576 52.381 0.00 0.00 0.00 3.41
4074 11381 0.841289 GTCGGGTTTGGGGATATGGA 59.159 55.000 0.00 0.00 0.00 3.41
4075 11382 0.843984 AGTCGGGTTTGGGGATATGG 59.156 55.000 0.00 0.00 0.00 2.74
4077 11384 2.191981 AGAGTCGGGTTTGGGGATAT 57.808 50.000 0.00 0.00 0.00 1.63
4078 11385 1.835531 GAAGAGTCGGGTTTGGGGATA 59.164 52.381 0.00 0.00 0.00 2.59
4079 11386 0.618981 GAAGAGTCGGGTTTGGGGAT 59.381 55.000 0.00 0.00 0.00 3.85
4080 11387 0.473117 AGAAGAGTCGGGTTTGGGGA 60.473 55.000 0.00 0.00 0.00 4.81


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

AutoCloner maintained by Alex Coulton.