Multiple sequence alignment - TraesCS1B01G356000

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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 TraesCS1B01G356000 chr1B 100.000 5226 0 0 1 5226 585244356 585239131 0.000000e+00 9651.0
1 TraesCS1B01G356000 chr1B 81.232 341 41 10 1137 1473 585302113 585301792 2.420000e-63 254.0
2 TraesCS1B01G356000 chr1B 85.398 226 27 6 266 487 526161273 526161050 4.070000e-56 230.0
3 TraesCS1B01G356000 chr1B 91.473 129 11 0 1491 1619 585301837 585301709 1.500000e-40 178.0
4 TraesCS1B01G356000 chr1B 79.474 190 27 7 35 223 657194514 657194336 1.980000e-24 124.0
5 TraesCS1B01G356000 chr1B 94.915 59 3 0 835 893 585302394 585302336 5.570000e-15 93.5
6 TraesCS1B01G356000 chr1B 97.368 38 1 0 1006 1043 585302213 585302176 1.210000e-06 65.8
7 TraesCS1B01G356000 chr1B 100.000 28 0 0 747 774 39624855 39624882 9.000000e-03 52.8
8 TraesCS1B01G356000 chr1D 95.673 2519 70 13 1858 4356 433268548 433266049 0.000000e+00 4012.0
9 TraesCS1B01G356000 chr1D 85.060 1245 72 45 1 1145 433270224 433268994 0.000000e+00 1164.0
10 TraesCS1B01G356000 chr1D 93.694 777 29 5 4356 5130 433264309 433263551 0.000000e+00 1146.0
11 TraesCS1B01G356000 chr1D 88.559 236 15 3 1501 1736 433268783 433268560 5.160000e-70 276.0
12 TraesCS1B01G356000 chr1D 90.952 210 12 3 1261 1464 433268995 433268787 5.160000e-70 276.0
13 TraesCS1B01G356000 chr1D 100.000 28 0 0 747 774 24008767 24008740 9.000000e-03 52.8
14 TraesCS1B01G356000 chr1D 100.000 28 0 0 747 774 24030072 24030045 9.000000e-03 52.8
15 TraesCS1B01G356000 chr1A 93.630 1931 65 22 2609 4499 531664369 531662457 0.000000e+00 2832.0
16 TraesCS1B01G356000 chr1A 84.453 804 92 10 2847 3634 531680143 531679357 0.000000e+00 761.0
17 TraesCS1B01G356000 chr1A 93.037 517 29 6 4619 5130 531658810 531658296 0.000000e+00 749.0
18 TraesCS1B01G356000 chr1A 91.372 452 24 5 2097 2547 531664795 531664358 5.790000e-169 604.0
19 TraesCS1B01G356000 chr1A 87.786 393 28 2 1344 1736 531665667 531665295 4.800000e-120 442.0
20 TraesCS1B01G356000 chr1A 94.000 250 15 0 2636 2885 531680396 531680147 3.820000e-101 379.0
21 TraesCS1B01G356000 chr1A 88.291 316 7 5 817 1112 531666205 531665900 8.330000e-93 351.0
22 TraesCS1B01G356000 chr1A 83.513 279 40 2 1345 1619 531680878 531680602 6.720000e-64 255.0
23 TraesCS1B01G356000 chr1A 91.209 182 9 3 1131 1312 531665840 531665666 1.880000e-59 241.0
24 TraesCS1B01G356000 chr1A 86.385 213 20 4 4108 4319 531678831 531678627 1.890000e-54 224.0
25 TraesCS1B01G356000 chr1A 75.551 544 75 26 172 666 554873236 554873770 1.140000e-51 215.0
26 TraesCS1B01G356000 chr1A 85.393 178 10 5 1934 2111 531665221 531665060 2.500000e-38 171.0
27 TraesCS1B01G356000 chr1A 90.291 103 9 1 5125 5226 531656724 531656622 3.280000e-27 134.0
28 TraesCS1B01G356000 chr1A 100.000 53 0 0 4578 4630 531658965 531658913 1.200000e-16 99.0
29 TraesCS1B01G356000 chr6D 83.230 322 32 17 152 463 387796977 387796668 5.160000e-70 276.0
30 TraesCS1B01G356000 chr4D 81.651 327 44 12 172 488 134664990 134665310 1.870000e-64 257.0
31 TraesCS1B01G356000 chr4D 83.158 190 22 8 27 212 468392862 468392679 1.160000e-36 165.0
32 TraesCS1B01G356000 chr2B 82.392 301 32 10 204 488 14614213 14614508 5.230000e-60 243.0
33 TraesCS1B01G356000 chr2B 83.448 145 21 3 27 169 358791382 358791525 1.180000e-26 132.0
34 TraesCS1B01G356000 chr2B 91.209 91 8 0 1726 1816 212378029 212377939 1.980000e-24 124.0
35 TraesCS1B01G356000 chr2B 90.110 91 9 0 1726 1816 582353735 582353825 9.190000e-23 119.0
36 TraesCS1B01G356000 chr2B 100.000 29 0 0 748 776 784667898 784667926 3.000000e-03 54.7
37 TraesCS1B01G356000 chr5A 86.607 224 23 6 266 488 322134134 322134351 1.880000e-59 241.0
38 TraesCS1B01G356000 chr5A 85.039 127 17 2 2716 2841 484439142 484439017 1.530000e-25 128.0
39 TraesCS1B01G356000 chr5A 91.209 91 8 0 1726 1816 38014613 38014703 1.980000e-24 124.0
40 TraesCS1B01G356000 chrUn 85.463 227 28 4 266 488 345775313 345775088 1.130000e-56 231.0
41 TraesCS1B01G356000 chr4B 85.463 227 28 3 266 488 578345895 578346120 1.130000e-56 231.0
42 TraesCS1B01G356000 chr4B 91.209 91 8 0 1726 1816 540037676 540037766 1.980000e-24 124.0
43 TraesCS1B01G356000 chr7B 85.398 226 28 4 266 488 578120146 578120369 4.070000e-56 230.0
44 TraesCS1B01G356000 chr7A 76.182 550 60 24 1 488 474820904 474821444 1.890000e-54 224.0
45 TraesCS1B01G356000 chr3D 75.043 585 64 30 1 525 111978953 111978391 4.130000e-46 196.0
46 TraesCS1B01G356000 chr5D 84.884 172 22 4 44 212 519094749 519094919 2.500000e-38 171.0
47 TraesCS1B01G356000 chr5D 84.000 150 19 5 2695 2841 384019608 384019461 7.060000e-29 139.0
48 TraesCS1B01G356000 chr5D 93.976 83 5 0 1734 1816 297738426 297738344 5.490000e-25 126.0
49 TraesCS1B01G356000 chr5D 90.000 50 4 1 2556 2605 355098508 355098556 4.370000e-06 63.9
50 TraesCS1B01G356000 chr5D 100.000 29 0 0 746 774 560456147 560456175 3.000000e-03 54.7
51 TraesCS1B01G356000 chr5B 84.000 150 19 5 2695 2841 460495367 460495220 7.060000e-29 139.0
52 TraesCS1B01G356000 chr5B 92.857 84 6 0 1733 1816 270325528 270325445 7.110000e-24 122.0
53 TraesCS1B01G356000 chr5B 90.110 91 9 0 1726 1816 370274997 370274907 9.190000e-23 119.0
54 TraesCS1B01G356000 chr5B 79.231 130 19 6 3227 3352 465591881 465591756 3.350000e-12 84.2
55 TraesCS1B01G356000 chr2A 79.330 179 31 6 35 211 80199665 80199839 2.560000e-23 121.0
56 TraesCS1B01G356000 chr6B 90.110 91 9 0 1726 1816 524839830 524839920 9.190000e-23 119.0
57 TraesCS1B01G356000 chr6B 78.977 176 20 8 44 217 34076090 34076250 2.570000e-18 104.0
58 TraesCS1B01G356000 chr6B 80.137 146 22 6 35 176 161347679 161347537 9.260000e-18 102.0
59 TraesCS1B01G356000 chr6B 94.595 37 1 1 747 782 143991426 143991390 7.310000e-04 56.5
60 TraesCS1B01G356000 chr3A 84.034 119 14 3 1719 1837 308700539 308700652 5.530000e-20 110.0
61 TraesCS1B01G356000 chr7D 94.872 39 0 2 747 784 508791085 508791048 5.650000e-05 60.2
62 TraesCS1B01G356000 chr6A 100.000 30 0 0 747 776 87240214 87240185 7.310000e-04 56.5
63 TraesCS1B01G356000 chr2D 100.000 28 0 0 747 774 564381948 564381975 9.000000e-03 52.8


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 TraesCS1B01G356000 chr1B 585239131 585244356 5225 True 9651.000000 9651 100.000000 1 5226 1 chr1B.!!$R2 5225
1 TraesCS1B01G356000 chr1D 433263551 433270224 6673 True 1374.800000 4012 90.787600 1 5130 5 chr1D.!!$R3 5129
2 TraesCS1B01G356000 chr1A 531656622 531666205 9583 True 624.777778 2832 91.223222 817 5226 9 chr1A.!!$R1 4409
3 TraesCS1B01G356000 chr1A 531678627 531680878 2251 True 404.750000 761 87.087750 1345 4319 4 chr1A.!!$R2 2974
4 TraesCS1B01G356000 chr1A 554873236 554873770 534 False 215.000000 215 75.551000 172 666 1 chr1A.!!$F1 494
5 TraesCS1B01G356000 chr7A 474820904 474821444 540 False 224.000000 224 76.182000 1 488 1 chr7A.!!$F1 487

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
887 992 0.032815 GCTGGTTCTATCTCCGCCTC 59.967 60.0 0.00 0.0 0.00 4.70 F
1216 1401 0.179034 CTGGATCAAGCCCACCTAGC 60.179 60.0 0.00 0.0 0.00 3.42 F
2560 3049 0.395586 TAGGGTTGGCCACATGCATC 60.396 55.0 3.88 0.0 43.89 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1807 2002 0.750546 TGATGTACTCCCTCCGTCCG 60.751 60.0 0.00 0.0 0.00 4.79 R
3119 3653 1.066114 GGTGAAGACGTCGAAGCGAG 61.066 60.0 10.46 0.0 36.23 5.03 R
4445 6804 0.107703 CCCTCTGTGTGTGTGTGTGT 60.108 55.0 0.00 0.0 0.00 3.72 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
33 34 6.005198 ACCGTTTTCACCATTAGACCATTAA 58.995 36.000 0.00 0.00 0.00 1.40
34 35 6.490721 ACCGTTTTCACCATTAGACCATTAAA 59.509 34.615 0.00 0.00 0.00 1.52
42 43 6.542370 CACCATTAGACCATTAAATTCCTCGT 59.458 38.462 0.00 0.00 0.00 4.18
163 166 1.609072 GAGCACGCTTTTTCCCTTTCT 59.391 47.619 0.00 0.00 0.00 2.52
408 471 1.079543 CTGTGCCTCTCGTGGAAGG 60.080 63.158 0.00 0.00 0.00 3.46
411 474 0.670854 GTGCCTCTCGTGGAAGGAAC 60.671 60.000 0.00 0.00 0.00 3.62
488 556 2.607892 GCAAAAGCGTGCCTCTCGT 61.608 57.895 0.00 0.00 38.66 4.18
490 558 1.961277 AAAAGCGTGCCTCTCGTGG 60.961 57.895 0.00 0.00 0.00 4.94
491 559 3.883744 AAAGCGTGCCTCTCGTGGG 62.884 63.158 0.00 0.00 0.00 4.61
493 561 4.148825 GCGTGCCTCTCGTGGGAT 62.149 66.667 0.00 0.00 0.00 3.85
494 562 2.202797 CGTGCCTCTCGTGGGATG 60.203 66.667 0.00 0.00 0.00 3.51
526 594 6.532365 TGTTTTTCGTGCAAAAAGAAAAGT 57.468 29.167 15.33 0.00 43.85 2.66
527 595 6.949449 TGTTTTTCGTGCAAAAAGAAAAGTT 58.051 28.000 15.33 0.00 43.85 2.66
612 707 0.249238 AAAAGCCGAAAATGCGTGCA 60.249 45.000 0.00 0.00 32.44 4.57
674 769 2.028484 GACACGTGGTGGCGAAGA 59.972 61.111 21.57 0.00 37.94 2.87
700 795 1.272490 TCACCAACTAGTTGCTCTCGG 59.728 52.381 27.05 16.27 39.16 4.63
714 811 1.479730 CTCTCGGTACACCCCCTAAAC 59.520 57.143 0.00 0.00 0.00 2.01
725 822 4.105057 ACACCCCCTAAACATGTTTGTCTA 59.895 41.667 29.72 12.00 34.06 2.59
760 857 1.957877 GAAGTGGCTAGGTCTCGCTAT 59.042 52.381 0.00 0.00 0.00 2.97
806 903 6.459573 CGTTAATGGTCCATTCCATACCTTTG 60.460 42.308 20.65 0.47 46.14 2.77
884 989 0.595310 GACGCTGGTTCTATCTCCGC 60.595 60.000 0.00 0.00 0.00 5.54
885 990 1.300233 CGCTGGTTCTATCTCCGCC 60.300 63.158 0.00 0.00 0.00 6.13
886 991 1.739338 CGCTGGTTCTATCTCCGCCT 61.739 60.000 0.00 0.00 0.00 5.52
887 992 0.032815 GCTGGTTCTATCTCCGCCTC 59.967 60.000 0.00 0.00 0.00 4.70
888 993 0.312416 CTGGTTCTATCTCCGCCTCG 59.688 60.000 0.00 0.00 0.00 4.63
1044 1188 0.321122 GAGCCAGTGGTGAGAACCAG 60.321 60.000 11.74 0.00 41.00 4.00
1210 1395 2.199208 TCTGAATCTGGATCAAGCCCA 58.801 47.619 0.00 0.00 0.00 5.36
1211 1396 2.092753 TCTGAATCTGGATCAAGCCCAC 60.093 50.000 0.00 0.00 0.00 4.61
1215 1400 1.500474 TCTGGATCAAGCCCACCTAG 58.500 55.000 0.00 0.00 0.00 3.02
1216 1401 0.179034 CTGGATCAAGCCCACCTAGC 60.179 60.000 0.00 0.00 0.00 3.42
1217 1402 0.621571 TGGATCAAGCCCACCTAGCT 60.622 55.000 0.00 0.00 44.19 3.32
1218 1403 1.343985 TGGATCAAGCCCACCTAGCTA 60.344 52.381 0.00 0.00 40.49 3.32
1219 1404 1.070914 GGATCAAGCCCACCTAGCTAC 59.929 57.143 0.00 0.00 40.49 3.58
1220 1405 0.753262 ATCAAGCCCACCTAGCTACG 59.247 55.000 0.00 0.00 40.49 3.51
1221 1406 1.144057 CAAGCCCACCTAGCTACGG 59.856 63.158 7.46 7.46 40.49 4.02
1252 1437 8.109705 TCTGCTTGCTTATAAACTGATGAAAA 57.890 30.769 0.00 0.00 0.00 2.29
1305 1490 9.567848 GTTAAAACTGAAACTGAAACAGATTGA 57.432 29.630 5.76 0.00 35.18 2.57
1313 1498 5.368256 ACTGAAACAGATTGAACTCATGC 57.632 39.130 5.76 0.00 35.18 4.06
1423 1618 1.196200 TTGCTTCGCGAAACAAAAGC 58.804 45.000 29.51 24.20 43.41 3.51
1486 1681 2.202892 GCTTCGCCGGGTAAGAGG 60.203 66.667 2.18 5.16 0.00 3.69
1491 1686 2.908796 GCCGGGTAAGAGGAAGGG 59.091 66.667 2.18 0.00 0.00 3.95
1495 1690 0.976073 CGGGTAAGAGGAAGGGCTCA 60.976 60.000 0.00 0.00 0.00 4.26
1559 1754 2.029244 CGGACTGACATAAATCGCACAC 59.971 50.000 0.00 0.00 0.00 3.82
1616 1811 2.369394 CAAAGGACTATTCAGGGCCAC 58.631 52.381 6.18 0.00 0.00 5.01
1617 1812 1.668826 AAGGACTATTCAGGGCCACA 58.331 50.000 6.18 0.00 0.00 4.17
1618 1813 0.912486 AGGACTATTCAGGGCCACAC 59.088 55.000 6.18 0.00 0.00 3.82
1619 1814 0.462047 GGACTATTCAGGGCCACACG 60.462 60.000 6.18 0.00 0.00 4.49
1620 1815 0.462047 GACTATTCAGGGCCACACGG 60.462 60.000 6.18 0.00 0.00 4.94
1723 1918 8.136165 ACAGTTATATGACACGATCTCTTAACC 58.864 37.037 0.00 0.00 0.00 2.85
1736 1931 4.279145 TCTCTTAACCGCAATCTCCTACT 58.721 43.478 0.00 0.00 0.00 2.57
1737 1932 4.338682 TCTCTTAACCGCAATCTCCTACTC 59.661 45.833 0.00 0.00 0.00 2.59
1739 1934 0.831307 AACCGCAATCTCCTACTCCC 59.169 55.000 0.00 0.00 0.00 4.30
1740 1935 1.049289 ACCGCAATCTCCTACTCCCC 61.049 60.000 0.00 0.00 0.00 4.81
1741 1936 1.749033 CGCAATCTCCTACTCCCCC 59.251 63.158 0.00 0.00 0.00 5.40
1759 1954 4.891992 CCCCCGTCTCATAATGTAAGAT 57.108 45.455 0.00 0.00 0.00 2.40
1760 1955 4.569943 CCCCCGTCTCATAATGTAAGATG 58.430 47.826 0.00 0.00 0.00 2.90
1761 1956 4.040461 CCCCCGTCTCATAATGTAAGATGT 59.960 45.833 0.00 0.00 0.00 3.06
1763 1958 6.055588 CCCCGTCTCATAATGTAAGATGTTT 58.944 40.000 0.00 0.00 0.00 2.83
1764 1959 6.542370 CCCCGTCTCATAATGTAAGATGTTTT 59.458 38.462 0.00 0.00 0.00 2.43
1765 1960 7.067008 CCCCGTCTCATAATGTAAGATGTTTTT 59.933 37.037 0.00 0.00 0.00 1.94
1812 2007 3.488310 CGTCTTAAATTATGGGACGGACG 59.512 47.826 12.35 0.00 43.69 4.79
1813 2008 3.805971 GTCTTAAATTATGGGACGGACGG 59.194 47.826 0.00 0.00 0.00 4.79
1814 2009 3.705579 TCTTAAATTATGGGACGGACGGA 59.294 43.478 0.00 0.00 0.00 4.69
1815 2010 2.614829 AAATTATGGGACGGACGGAG 57.385 50.000 0.00 0.00 0.00 4.63
1816 2011 0.756903 AATTATGGGACGGACGGAGG 59.243 55.000 0.00 0.00 0.00 4.30
1817 2012 1.119574 ATTATGGGACGGACGGAGGG 61.120 60.000 0.00 0.00 0.00 4.30
1818 2013 2.227494 TTATGGGACGGACGGAGGGA 62.227 60.000 0.00 0.00 0.00 4.20
1819 2014 2.635787 TATGGGACGGACGGAGGGAG 62.636 65.000 0.00 0.00 0.00 4.30
1820 2015 4.755507 GGGACGGACGGAGGGAGT 62.756 72.222 0.00 0.00 0.00 3.85
1821 2016 2.273449 GGACGGACGGAGGGAGTA 59.727 66.667 0.00 0.00 0.00 2.59
1822 2017 2.117779 GGACGGACGGAGGGAGTAC 61.118 68.421 0.00 0.00 0.00 2.73
1823 2018 1.377725 GACGGACGGAGGGAGTACA 60.378 63.158 0.00 0.00 0.00 2.90
1824 2019 0.750911 GACGGACGGAGGGAGTACAT 60.751 60.000 0.00 0.00 0.00 2.29
1825 2020 0.750911 ACGGACGGAGGGAGTACATC 60.751 60.000 0.00 0.00 0.00 3.06
1826 2021 0.750546 CGGACGGAGGGAGTACATCA 60.751 60.000 0.00 0.00 0.00 3.07
1827 2022 1.705873 GGACGGAGGGAGTACATCAT 58.294 55.000 0.00 0.00 0.00 2.45
1828 2023 2.040178 GGACGGAGGGAGTACATCATT 58.960 52.381 0.00 0.00 0.00 2.57
1829 2024 3.228453 GGACGGAGGGAGTACATCATTA 58.772 50.000 0.00 0.00 0.00 1.90
1830 2025 3.833070 GGACGGAGGGAGTACATCATTAT 59.167 47.826 0.00 0.00 0.00 1.28
1831 2026 5.014858 GGACGGAGGGAGTACATCATTATA 58.985 45.833 0.00 0.00 0.00 0.98
1832 2027 5.125739 GGACGGAGGGAGTACATCATTATAG 59.874 48.000 0.00 0.00 0.00 1.31
1833 2028 5.642165 ACGGAGGGAGTACATCATTATAGT 58.358 41.667 0.00 0.00 0.00 2.12
1834 2029 6.787170 ACGGAGGGAGTACATCATTATAGTA 58.213 40.000 0.00 0.00 0.00 1.82
1835 2030 6.885376 ACGGAGGGAGTACATCATTATAGTAG 59.115 42.308 0.00 0.00 0.00 2.57
1836 2031 6.885376 CGGAGGGAGTACATCATTATAGTAGT 59.115 42.308 0.00 0.00 0.00 2.73
1837 2032 7.148222 CGGAGGGAGTACATCATTATAGTAGTG 60.148 44.444 0.00 0.00 0.00 2.74
1838 2033 7.889073 GGAGGGAGTACATCATTATAGTAGTGA 59.111 40.741 0.00 0.00 0.00 3.41
1839 2034 9.469097 GAGGGAGTACATCATTATAGTAGTGAT 57.531 37.037 0.00 0.00 35.79 3.06
1865 2060 9.515226 TGTAAACACTCTTATATTCTTTGGCTT 57.485 29.630 0.00 0.00 0.00 4.35
1872 2067 7.337942 ACTCTTATATTCTTTGGCTTGTTCCAG 59.662 37.037 0.00 0.00 37.44 3.86
1906 2105 9.599322 CGCATATTTATCTCTCCAACAAATAAC 57.401 33.333 0.00 0.00 0.00 1.89
1911 2110 4.365514 TCTCTCCAACAAATAACTGCCA 57.634 40.909 0.00 0.00 0.00 4.92
1916 2115 5.716228 TCTCCAACAAATAACTGCCAATCAT 59.284 36.000 0.00 0.00 0.00 2.45
1922 2121 5.948162 ACAAATAACTGCCAATCATGACTCT 59.052 36.000 0.00 0.00 0.00 3.24
2018 2217 1.858458 TCTTGTCACGAAAAGTCTGCG 59.142 47.619 0.00 0.00 0.00 5.18
2105 2304 1.961394 TCGTGATGTCTATACCTGGCC 59.039 52.381 0.00 0.00 0.00 5.36
2169 2648 6.677913 ACAACCACACTATGCACTTATTTTC 58.322 36.000 0.00 0.00 0.00 2.29
2207 2693 9.352784 CTTCTTAGATTAATCAGCCTTCGATAG 57.647 37.037 17.56 0.71 0.00 2.08
2236 2722 6.014584 TGAGGTCATTCTTGCTACTGTTAGAA 60.015 38.462 0.00 0.00 0.00 2.10
2278 2764 7.718525 TGCCAGATATCAATAGTACGTACAAA 58.281 34.615 26.55 14.95 0.00 2.83
2280 2766 9.204570 GCCAGATATCAATAGTACGTACAAATT 57.795 33.333 26.55 20.75 0.00 1.82
2297 2783 8.687301 CGTACAAATTTTGGTTCTGTTTCATAC 58.313 33.333 13.42 2.19 34.12 2.39
2463 2952 1.580815 GCACACCCACAACCATTTTG 58.419 50.000 0.00 0.00 0.00 2.44
2552 3041 2.531685 AGCACCTAGGGTTGGCCA 60.532 61.111 14.81 0.00 31.02 5.36
2560 3049 0.395586 TAGGGTTGGCCACATGCATC 60.396 55.000 3.88 0.00 43.89 3.91
2561 3050 1.983481 GGGTTGGCCACATGCATCA 60.983 57.895 3.88 0.00 43.89 3.07
2565 3054 1.479323 GTTGGCCACATGCATCATTCT 59.521 47.619 3.88 0.00 43.89 2.40
2633 3122 1.003812 CGGGGGTGGAATGTTACTCAA 59.996 52.381 0.00 0.00 0.00 3.02
2634 3123 2.356741 CGGGGGTGGAATGTTACTCAAT 60.357 50.000 0.00 0.00 0.00 2.57
2673 3162 7.307219 CGTTGTTCTTTTCCCAGTAGAACTAAG 60.307 40.741 13.42 6.52 44.98 2.18
2995 3529 3.907894 TTACAATGCCAAAGACCGTTC 57.092 42.857 0.00 0.00 0.00 3.95
2996 3530 0.591170 ACAATGCCAAAGACCGTTCG 59.409 50.000 0.00 0.00 0.00 3.95
3096 3630 5.250200 ACAAGTACGAATTCCCATGCTTAA 58.750 37.500 0.00 0.00 0.00 1.85
3119 3653 1.884579 CTATCACATGGGAATGCAGCC 59.115 52.381 0.00 0.00 0.00 4.85
3309 3847 4.159377 TGCGAGAAAATAAGTTGCTTGG 57.841 40.909 0.00 0.00 0.00 3.61
3310 3848 2.917343 GCGAGAAAATAAGTTGCTTGGC 59.083 45.455 0.00 0.00 0.00 4.52
3966 4551 0.612732 ATGCCTGGACACAACCATGG 60.613 55.000 11.19 11.19 39.34 3.66
4051 4636 2.032894 CCATATCGTTCACATCGCAACC 60.033 50.000 0.00 0.00 0.00 3.77
4084 4669 3.306088 CGCTTATATTGGACACCCGAGAT 60.306 47.826 0.00 0.00 32.67 2.75
4116 4725 4.032558 GGAAATCTTCTACTTTGGTACGCG 59.967 45.833 3.53 3.53 0.00 6.01
4217 4826 3.117888 TCAGTTTCTTGTTCTGGAGCCTT 60.118 43.478 0.00 0.00 0.00 4.35
4218 4827 3.004106 CAGTTTCTTGTTCTGGAGCCTTG 59.996 47.826 0.00 0.00 0.00 3.61
4219 4828 2.952310 GTTTCTTGTTCTGGAGCCTTGT 59.048 45.455 0.00 0.00 0.00 3.16
4220 4829 4.134563 GTTTCTTGTTCTGGAGCCTTGTA 58.865 43.478 0.00 0.00 0.00 2.41
4221 4830 4.431416 TTCTTGTTCTGGAGCCTTGTAA 57.569 40.909 0.00 0.00 0.00 2.41
4222 4831 3.740115 TCTTGTTCTGGAGCCTTGTAAC 58.260 45.455 0.00 0.00 0.00 2.50
4255 4864 5.761165 TGCCATGTTGTAGATGATCATTG 57.239 39.130 10.14 1.21 0.00 2.82
4394 6753 1.296715 GAGCCGATGTGACCCAGTT 59.703 57.895 0.00 0.00 0.00 3.16
4442 6801 8.721478 AGATTCATAGATTTTACACACACACAC 58.279 33.333 0.00 0.00 0.00 3.82
4443 6802 7.793927 TTCATAGATTTTACACACACACACA 57.206 32.000 0.00 0.00 0.00 3.72
4444 6803 7.184800 TCATAGATTTTACACACACACACAC 57.815 36.000 0.00 0.00 0.00 3.82
4445 6804 6.763610 TCATAGATTTTACACACACACACACA 59.236 34.615 0.00 0.00 0.00 3.72
4446 6805 5.229921 AGATTTTACACACACACACACAC 57.770 39.130 0.00 0.00 0.00 3.82
4447 6806 4.697828 AGATTTTACACACACACACACACA 59.302 37.500 0.00 0.00 0.00 3.72
4448 6807 3.815337 TTTACACACACACACACACAC 57.185 42.857 0.00 0.00 0.00 3.82
4506 9862 8.699283 AGTAATAATTCTAGTCACGGTTGAAC 57.301 34.615 0.00 0.00 31.90 3.18
4539 10000 9.838339 CATTACTTTTCCCTAATAGTGTCAGAT 57.162 33.333 0.00 0.00 30.69 2.90
4576 10037 5.991933 TCAGACTTGCTAATTCTCAGTCT 57.008 39.130 0.00 0.00 35.81 3.24
4686 10571 9.791820 TTTTTAATAGCTGATGATTCATGTGTG 57.208 29.630 3.32 0.00 0.00 3.82
4762 10647 0.602562 TGGTTTTGTAGCAGCATGGC 59.397 50.000 0.00 0.00 35.86 4.40
4765 10650 0.240678 TTTTGTAGCAGCATGGCGTG 59.759 50.000 1.31 1.31 39.27 5.34
4974 10862 5.432645 TCCGTATTTCACTGCATGGATTTA 58.567 37.500 0.00 0.00 0.00 1.40
5152 12619 4.530710 TCTTAAAGTGTAGTCGCACCAT 57.469 40.909 0.00 0.00 40.04 3.55
5157 12624 3.438297 AGTGTAGTCGCACCATACATC 57.562 47.619 0.00 0.00 40.04 3.06
5161 12628 3.194755 TGTAGTCGCACCATACATCAAGT 59.805 43.478 0.00 0.00 0.00 3.16
5165 12632 1.935873 CGCACCATACATCAAGTCTGG 59.064 52.381 0.00 0.00 46.85 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 201 1.424493 CTTTCGCGAGAGACATGGCC 61.424 60.000 21.21 0.00 43.69 5.36
176 202 2.002127 CTTTCGCGAGAGACATGGC 58.998 57.895 21.21 0.00 43.69 4.40
325 387 4.910956 CGTGCCTCTCGGAAATGA 57.089 55.556 0.00 0.00 0.00 2.57
350 413 1.806542 ACAATTGTGCTTTCGCGAGAT 59.193 42.857 11.07 0.00 41.60 2.75
473 541 2.357517 CCACGAGAGGCACGCTTT 60.358 61.111 0.00 0.00 39.71 3.51
476 544 4.148825 ATCCCACGAGAGGCACGC 62.149 66.667 0.00 0.00 0.00 5.34
500 568 8.073167 ACTTTTCTTTTTGCACGAAAAACATTT 58.927 25.926 11.25 0.00 38.38 2.32
501 569 7.580600 ACTTTTCTTTTTGCACGAAAAACATT 58.419 26.923 11.25 0.00 38.38 2.71
502 570 7.127917 ACTTTTCTTTTTGCACGAAAAACAT 57.872 28.000 11.25 2.09 38.38 2.71
505 573 8.842942 AAAAACTTTTCTTTTTGCACGAAAAA 57.157 23.077 11.25 4.81 40.52 1.94
536 604 6.318900 GGTCTTTCATATCTTTTGGACCGATT 59.681 38.462 0.00 0.00 33.82 3.34
538 606 5.183228 GGTCTTTCATATCTTTTGGACCGA 58.817 41.667 0.00 0.00 33.82 4.69
539 607 5.485662 GGTCTTTCATATCTTTTGGACCG 57.514 43.478 0.00 0.00 33.82 4.79
590 685 2.666022 GCACGCATTTTCGGCTTTTTAT 59.334 40.909 0.00 0.00 0.00 1.40
656 751 2.279851 CTTCGCCACCACGTGTCA 60.280 61.111 15.65 0.00 0.00 3.58
674 769 1.602377 GCAACTAGTTGGTGAGCGTTT 59.398 47.619 31.42 0.00 40.74 3.60
700 795 4.146564 ACAAACATGTTTAGGGGGTGTAC 58.853 43.478 22.87 0.00 0.00 2.90
735 832 3.368116 GCGAGACCTAGCCACTTCTTTAA 60.368 47.826 0.00 0.00 0.00 1.52
760 857 1.136305 GGCCACACTATGTCTCGCTTA 59.864 52.381 0.00 0.00 0.00 3.09
884 989 3.868200 AACAAGGGCAAGGGCGAGG 62.868 63.158 0.00 0.00 42.47 4.63
885 990 2.282462 AACAAGGGCAAGGGCGAG 60.282 61.111 0.00 0.00 42.47 5.03
886 991 2.597217 CAACAAGGGCAAGGGCGA 60.597 61.111 0.00 0.00 42.47 5.54
887 992 2.498056 AACAACAAGGGCAAGGGCG 61.498 57.895 0.00 0.00 42.47 6.13
888 993 1.069596 CAACAACAAGGGCAAGGGC 59.930 57.895 0.00 0.00 40.13 5.19
1002 1140 2.257676 GGCTCTTGCTGTTGCTGC 59.742 61.111 0.00 0.00 40.48 5.25
1044 1188 2.747443 GGTTGGAGGGAGCTAGGGC 61.747 68.421 0.00 0.00 39.06 5.19
1200 1385 1.269831 CGTAGCTAGGTGGGCTTGATC 60.270 57.143 4.27 0.00 40.74 2.92
1210 1395 2.094130 GCAGAAAAGACCGTAGCTAGGT 60.094 50.000 12.21 12.57 46.16 3.08
1211 1396 2.166664 AGCAGAAAAGACCGTAGCTAGG 59.833 50.000 6.46 6.46 0.00 3.02
1215 1400 1.135944 GCAAGCAGAAAAGACCGTAGC 60.136 52.381 0.00 0.00 0.00 3.58
1216 1401 2.417719 AGCAAGCAGAAAAGACCGTAG 58.582 47.619 0.00 0.00 0.00 3.51
1217 1402 2.543777 AGCAAGCAGAAAAGACCGTA 57.456 45.000 0.00 0.00 0.00 4.02
1218 1403 1.680338 AAGCAAGCAGAAAAGACCGT 58.320 45.000 0.00 0.00 0.00 4.83
1219 1404 5.545658 TTATAAGCAAGCAGAAAAGACCG 57.454 39.130 0.00 0.00 0.00 4.79
1220 1405 6.803807 CAGTTTATAAGCAAGCAGAAAAGACC 59.196 38.462 1.97 0.00 0.00 3.85
1221 1406 7.584987 TCAGTTTATAAGCAAGCAGAAAAGAC 58.415 34.615 1.97 0.00 0.00 3.01
1252 1437 1.683385 GCAAGAAGGCCTGACAACTTT 59.317 47.619 5.69 0.00 0.00 2.66
1305 1490 0.030638 AAAACGCAAGCGCATGAGTT 59.969 45.000 25.37 25.37 43.74 3.01
1387 1576 3.270877 AGCAATCGATCCACCTGTAAAC 58.729 45.455 0.00 0.00 0.00 2.01
1491 1686 3.365265 CTTGTTGGCGGGGTGAGC 61.365 66.667 0.00 0.00 0.00 4.26
1495 1690 1.005450 ACATAATCTTGTTGGCGGGGT 59.995 47.619 0.00 0.00 0.00 4.95
1559 1754 1.098050 CTTTCATCTTCTTGGCGGGG 58.902 55.000 0.00 0.00 0.00 5.73
1616 1811 4.263572 TGGAAGGTGTGGGCCGTG 62.264 66.667 0.00 0.00 0.00 4.94
1617 1812 3.953775 CTGGAAGGTGTGGGCCGT 61.954 66.667 0.00 0.00 0.00 5.68
1618 1813 3.612247 CTCTGGAAGGTGTGGGCCG 62.612 68.421 0.00 0.00 0.00 6.13
1619 1814 2.352805 CTCTGGAAGGTGTGGGCC 59.647 66.667 0.00 0.00 0.00 5.80
1620 1815 2.352805 CCTCTGGAAGGTGTGGGC 59.647 66.667 0.00 0.00 40.67 5.36
1649 1844 9.417561 ACATAAGCACTCCATTAGTAGTAGTAA 57.582 33.333 0.00 0.00 35.76 2.24
1650 1845 8.991783 ACATAAGCACTCCATTAGTAGTAGTA 57.008 34.615 0.00 0.00 35.76 1.82
1651 1846 7.780745 AGACATAAGCACTCCATTAGTAGTAGT 59.219 37.037 0.00 0.00 35.76 2.73
1652 1847 8.172352 AGACATAAGCACTCCATTAGTAGTAG 57.828 38.462 0.00 0.00 35.76 2.57
1664 1859 6.654793 AATTTTCTCGAGACATAAGCACTC 57.345 37.500 16.36 0.00 0.00 3.51
1723 1918 1.749033 GGGGGAGTAGGAGATTGCG 59.251 63.158 0.00 0.00 0.00 4.85
1739 1934 5.215252 ACATCTTACATTATGAGACGGGG 57.785 43.478 0.00 0.00 0.00 5.73
1740 1935 7.553881 AAAACATCTTACATTATGAGACGGG 57.446 36.000 0.00 0.00 0.00 5.28
1786 1981 5.939296 TCCGTCCCATAATTTAAGACGTTTT 59.061 36.000 17.96 0.00 46.62 2.43
1787 1982 5.352293 GTCCGTCCCATAATTTAAGACGTTT 59.648 40.000 17.96 0.00 46.62 3.60
1788 1983 4.872124 GTCCGTCCCATAATTTAAGACGTT 59.128 41.667 17.96 0.00 46.62 3.99
1791 1986 3.805971 CCGTCCGTCCCATAATTTAAGAC 59.194 47.826 0.00 0.00 0.00 3.01
1792 1987 3.705579 TCCGTCCGTCCCATAATTTAAGA 59.294 43.478 0.00 0.00 0.00 2.10
1793 1988 4.056050 CTCCGTCCGTCCCATAATTTAAG 58.944 47.826 0.00 0.00 0.00 1.85
1796 1991 1.140252 CCTCCGTCCGTCCCATAATTT 59.860 52.381 0.00 0.00 0.00 1.82
1797 1992 0.756903 CCTCCGTCCGTCCCATAATT 59.243 55.000 0.00 0.00 0.00 1.40
1798 1993 1.119574 CCCTCCGTCCGTCCCATAAT 61.120 60.000 0.00 0.00 0.00 1.28
1799 1994 1.759299 CCCTCCGTCCGTCCCATAA 60.759 63.158 0.00 0.00 0.00 1.90
1800 1995 2.123597 CCCTCCGTCCGTCCCATA 60.124 66.667 0.00 0.00 0.00 2.74
1801 1996 4.070265 TCCCTCCGTCCGTCCCAT 62.070 66.667 0.00 0.00 0.00 4.00
1802 1997 4.753662 CTCCCTCCGTCCGTCCCA 62.754 72.222 0.00 0.00 0.00 4.37
1803 1998 3.350031 TACTCCCTCCGTCCGTCCC 62.350 68.421 0.00 0.00 0.00 4.46
1804 1999 2.117779 GTACTCCCTCCGTCCGTCC 61.118 68.421 0.00 0.00 0.00 4.79
1805 2000 0.750911 ATGTACTCCCTCCGTCCGTC 60.751 60.000 0.00 0.00 0.00 4.79
1806 2001 0.750911 GATGTACTCCCTCCGTCCGT 60.751 60.000 0.00 0.00 0.00 4.69
1807 2002 0.750546 TGATGTACTCCCTCCGTCCG 60.751 60.000 0.00 0.00 0.00 4.79
1808 2003 1.705873 ATGATGTACTCCCTCCGTCC 58.294 55.000 0.00 0.00 0.00 4.79
1809 2004 5.711036 ACTATAATGATGTACTCCCTCCGTC 59.289 44.000 0.00 0.00 0.00 4.79
1810 2005 5.642165 ACTATAATGATGTACTCCCTCCGT 58.358 41.667 0.00 0.00 0.00 4.69
1811 2006 6.885376 ACTACTATAATGATGTACTCCCTCCG 59.115 42.308 0.00 0.00 0.00 4.63
1812 2007 7.889073 TCACTACTATAATGATGTACTCCCTCC 59.111 40.741 0.00 0.00 0.00 4.30
1813 2008 8.865420 TCACTACTATAATGATGTACTCCCTC 57.135 38.462 0.00 0.00 0.00 4.30
1814 2009 9.249053 CATCACTACTATAATGATGTACTCCCT 57.751 37.037 5.48 0.00 43.08 4.20
1837 2032 9.937175 GCCAAAGAATATAAGAGTGTTTACATC 57.063 33.333 0.00 0.00 0.00 3.06
1838 2033 9.686683 AGCCAAAGAATATAAGAGTGTTTACAT 57.313 29.630 0.00 0.00 0.00 2.29
1839 2034 9.515226 AAGCCAAAGAATATAAGAGTGTTTACA 57.485 29.630 0.00 0.00 0.00 2.41
1840 2035 9.774742 CAAGCCAAAGAATATAAGAGTGTTTAC 57.225 33.333 0.00 0.00 0.00 2.01
1841 2036 9.515226 ACAAGCCAAAGAATATAAGAGTGTTTA 57.485 29.630 0.00 0.00 0.00 2.01
1842 2037 8.409358 ACAAGCCAAAGAATATAAGAGTGTTT 57.591 30.769 0.00 0.00 0.00 2.83
1843 2038 8.409358 AACAAGCCAAAGAATATAAGAGTGTT 57.591 30.769 0.00 0.00 0.00 3.32
1844 2039 7.121315 GGAACAAGCCAAAGAATATAAGAGTGT 59.879 37.037 0.00 0.00 0.00 3.55
1845 2040 7.121168 TGGAACAAGCCAAAGAATATAAGAGTG 59.879 37.037 0.00 0.00 34.31 3.51
1846 2041 7.175104 TGGAACAAGCCAAAGAATATAAGAGT 58.825 34.615 0.00 0.00 34.31 3.24
1847 2042 7.337942 ACTGGAACAAGCCAAAGAATATAAGAG 59.662 37.037 0.00 0.00 38.70 2.85
1848 2043 7.175104 ACTGGAACAAGCCAAAGAATATAAGA 58.825 34.615 0.00 0.00 38.70 2.10
1849 2044 7.396540 ACTGGAACAAGCCAAAGAATATAAG 57.603 36.000 0.00 0.00 38.70 1.73
1850 2045 7.601856 CAACTGGAACAAGCCAAAGAATATAA 58.398 34.615 0.00 0.00 38.70 0.98
1851 2046 6.350110 GCAACTGGAACAAGCCAAAGAATATA 60.350 38.462 0.00 0.00 38.70 0.86
1852 2047 5.567423 GCAACTGGAACAAGCCAAAGAATAT 60.567 40.000 0.00 0.00 38.70 1.28
1853 2048 4.261994 GCAACTGGAACAAGCCAAAGAATA 60.262 41.667 0.00 0.00 38.70 1.75
1854 2049 3.493176 GCAACTGGAACAAGCCAAAGAAT 60.493 43.478 0.00 0.00 38.70 2.40
1855 2050 2.159114 GCAACTGGAACAAGCCAAAGAA 60.159 45.455 0.00 0.00 38.70 2.52
1856 2051 1.408702 GCAACTGGAACAAGCCAAAGA 59.591 47.619 0.00 0.00 38.70 2.52
1884 2079 9.120538 GGCAGTTATTTGTTGGAGAGATAAATA 57.879 33.333 0.00 0.00 0.00 1.40
1906 2105 5.366460 AGATACAAGAGTCATGATTGGCAG 58.634 41.667 11.26 0.00 0.00 4.85
1911 2110 5.901853 TGGGAGAGATACAAGAGTCATGATT 59.098 40.000 1.66 0.00 0.00 2.57
1916 2115 5.627735 GCAATTGGGAGAGATACAAGAGTCA 60.628 44.000 7.72 0.00 0.00 3.41
1922 2121 5.532406 GCTTATGCAATTGGGAGAGATACAA 59.468 40.000 7.72 0.00 39.41 2.41
2018 2217 6.722129 TGGAAGATAGCTCTAGGAAATCTACC 59.278 42.308 0.00 0.00 0.00 3.18
2105 2304 2.880890 GGCATGTGCTAGATAGGGTTTG 59.119 50.000 4.84 0.00 41.70 2.93
2191 2670 6.892456 ACCTCATATCTATCGAAGGCTGATTA 59.108 38.462 0.00 0.00 0.00 1.75
2207 2693 6.520272 ACAGTAGCAAGAATGACCTCATATC 58.480 40.000 0.00 0.00 35.10 1.63
2208 2694 6.491714 ACAGTAGCAAGAATGACCTCATAT 57.508 37.500 0.00 0.00 35.10 1.78
2236 2722 6.839124 TCTGGCAGACATAAACATTCAAAT 57.161 33.333 14.43 0.00 0.00 2.32
2278 2764 7.920682 GTGAGTTGTATGAAACAGAACCAAAAT 59.079 33.333 0.00 0.00 39.87 1.82
2280 2766 6.601613 AGTGAGTTGTATGAAACAGAACCAAA 59.398 34.615 0.00 0.00 39.87 3.28
2463 2952 5.106118 GCATTTAGAAGTCTTTCCTTGTCCC 60.106 44.000 0.00 0.00 33.64 4.46
2560 3049 1.164662 CCGGGCTCTGCATCAGAATG 61.165 60.000 0.00 0.00 40.18 2.67
2561 3050 1.147824 CCGGGCTCTGCATCAGAAT 59.852 57.895 0.00 0.00 40.18 2.40
2575 3064 3.408853 GGAGGAAAGACCCCCGGG 61.409 72.222 15.80 15.80 40.05 5.73
2614 3103 2.891191 TTGAGTAACATTCCACCCCC 57.109 50.000 0.00 0.00 0.00 5.40
2615 3104 8.603304 ACTATATATTGAGTAACATTCCACCCC 58.397 37.037 0.95 0.00 0.00 4.95
2673 3162 8.438676 AACATTAGAACTATGAAGGCATACAC 57.561 34.615 0.00 0.00 35.94 2.90
2995 3529 4.944962 TGAAGCCATTTGTCAAGATACG 57.055 40.909 0.00 0.00 0.00 3.06
2996 3530 6.532657 CCATTTGAAGCCATTTGTCAAGATAC 59.467 38.462 0.00 0.00 33.10 2.24
3096 3630 3.825014 GCTGCATTCCCATGTGATAGAAT 59.175 43.478 0.00 0.00 32.28 2.40
3119 3653 1.066114 GGTGAAGACGTCGAAGCGAG 61.066 60.000 10.46 0.00 36.23 5.03
3309 3847 1.936547 CAGAAGAAGGCAAGGTATCGC 59.063 52.381 0.00 0.00 0.00 4.58
3310 3848 3.452474 CTCAGAAGAAGGCAAGGTATCG 58.548 50.000 0.00 0.00 0.00 2.92
3713 4293 2.959421 AGGTCCCTCTCCTGAGAATT 57.041 50.000 0.00 0.00 42.73 2.17
3966 4551 0.514691 CCTCACGTTCTTGAGCTTGC 59.485 55.000 0.00 0.00 41.61 4.01
4051 4636 2.884663 ATATAAGCGACTCGAGCGAG 57.115 50.000 26.02 17.46 46.91 5.03
4084 4669 4.371681 AGTAGAAGATTTCCCTTGGCCTA 58.628 43.478 3.32 0.00 0.00 3.93
4116 4725 8.234136 ACGGGATTTAAGAATATTTTCCCTTC 57.766 34.615 0.00 0.00 32.99 3.46
4217 4826 1.281577 TGGCATCAGGCATCAGTTACA 59.718 47.619 0.00 0.00 46.46 2.41
4218 4827 2.042686 TGGCATCAGGCATCAGTTAC 57.957 50.000 0.00 0.00 46.46 2.50
4255 4864 4.723309 AGAAAATGATGATGGCTACCTCC 58.277 43.478 0.00 0.00 0.00 4.30
4394 6753 8.836268 ATCTTTTATACAAGTTTCGGTACACA 57.164 30.769 0.00 0.00 0.00 3.72
4438 6797 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4440 6799 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
4442 6801 1.394572 CTCTGTGTGTGTGTGTGTGTG 59.605 52.381 0.00 0.00 0.00 3.82
4443 6802 1.675714 CCTCTGTGTGTGTGTGTGTGT 60.676 52.381 0.00 0.00 0.00 3.72
4444 6803 1.009078 CCTCTGTGTGTGTGTGTGTG 58.991 55.000 0.00 0.00 0.00 3.82
4445 6804 0.107703 CCCTCTGTGTGTGTGTGTGT 60.108 55.000 0.00 0.00 0.00 3.72
4446 6805 0.177836 TCCCTCTGTGTGTGTGTGTG 59.822 55.000 0.00 0.00 0.00 3.82
4447 6806 0.465705 CTCCCTCTGTGTGTGTGTGT 59.534 55.000 0.00 0.00 0.00 3.72
4448 6807 0.752658 TCTCCCTCTGTGTGTGTGTG 59.247 55.000 0.00 0.00 0.00 3.82
4499 9855 8.027189 GGGAAAAGTAATGAATACAGTTCAACC 58.973 37.037 0.00 0.00 36.94 3.77
4576 10037 8.967918 TGACTGAAGCTTAGCTAATTCTTAGTA 58.032 33.333 7.32 8.98 38.25 1.82
4686 10571 3.880846 CCATTGGCCTTCTCGCGC 61.881 66.667 3.32 0.00 0.00 6.86
5010 10898 6.822073 AAAAACATGACCGTTAAGAAAAGC 57.178 33.333 0.00 0.00 0.00 3.51
5043 10931 4.422840 TGATCATCGCGCATTTGAAAAAT 58.577 34.783 8.75 0.00 0.00 1.82
5048 10936 1.941975 ACATGATCATCGCGCATTTGA 59.058 42.857 8.75 7.34 0.00 2.69
5049 10937 2.394545 ACATGATCATCGCGCATTTG 57.605 45.000 8.75 0.90 0.00 2.32
5079 10968 7.874940 ACATGTTTCCATATGCACATACATAC 58.125 34.615 11.14 0.00 35.42 2.39
5152 12619 4.838423 TCTTTGAGGACCAGACTTGATGTA 59.162 41.667 0.00 0.00 0.00 2.29
5157 12624 6.396829 AAAAATCTTTGAGGACCAGACTTG 57.603 37.500 0.00 0.00 0.00 3.16
5183 12650 6.161381 TCGTCAAGATAAAACTTGGTACTCC 58.839 40.000 0.00 0.00 44.84 3.85
5184 12651 6.867293 ACTCGTCAAGATAAAACTTGGTACTC 59.133 38.462 0.00 0.00 44.84 2.59
5185 12652 6.645415 CACTCGTCAAGATAAAACTTGGTACT 59.355 38.462 0.00 0.00 44.84 2.73


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

AutoCloner maintained by Alex Coulton.