Multiple sequence alignment - TraesCS4A01G359100

Loading Multiple Alignment...

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 TraesCS4A01G359100 chr4A 100.000 3366 0 0 1 3366 631963516 631966881 0.000000e+00 6216.0
1 TraesCS4A01G359100 chr4A 80.705 539 61 23 2862 3364 632022481 632023012 2.450000e-101 379.0
2 TraesCS4A01G359100 chr4A 80.585 479 57 12 2915 3364 631232991 631233462 1.500000e-88 337.0
3 TraesCS4A01G359100 chr4A 88.764 89 9 1 752 839 470097329 470097417 1.280000e-19 108.0
4 TraesCS4A01G359100 chr4A 95.652 46 2 0 2784 2829 340657745 340657700 1.300000e-09 75.0
5 TraesCS4A01G359100 chr5B 89.166 1726 134 32 861 2547 678514040 678515751 0.000000e+00 2102.0
6 TraesCS4A01G359100 chr5B 86.891 862 69 14 1 839 678512955 678513795 0.000000e+00 926.0
7 TraesCS4A01G359100 chr5B 91.667 528 36 4 1851 2371 678521696 678522222 0.000000e+00 725.0
8 TraesCS4A01G359100 chr5B 86.847 517 53 8 2856 3364 678516293 678516802 6.300000e-157 564.0
9 TraesCS4A01G359100 chr5B 80.935 535 61 15 2862 3364 678536368 678536893 5.270000e-103 385.0
10 TraesCS4A01G359100 chr5B 84.726 347 41 6 3023 3363 679044384 679044724 1.500000e-88 337.0
11 TraesCS4A01G359100 chr5B 86.486 259 11 1 2545 2779 678515864 678516122 2.580000e-66 263.0
12 TraesCS4A01G359100 chr5B 86.900 229 21 7 1483 1704 678518680 678518906 7.210000e-62 248.0
13 TraesCS4A01G359100 chr5B 89.796 147 12 2 1709 1855 678518949 678519092 5.740000e-43 185.0
14 TraesCS4A01G359100 chr5D 89.487 1636 118 25 837 2431 537762863 537764485 0.000000e+00 2019.0
15 TraesCS4A01G359100 chr5D 92.226 849 36 6 1 839 537761889 537762717 0.000000e+00 1175.0
16 TraesCS4A01G359100 chr5D 86.417 508 55 5 2862 3364 537765440 537765938 8.210000e-151 544.0
17 TraesCS4A01G359100 chr5D 82.213 461 50 10 2929 3364 538561966 538561513 5.310000e-98 368.0
18 TraesCS4A01G359100 chr5D 84.659 352 42 5 3019 3364 538152124 538152469 1.160000e-89 340.0
19 TraesCS4A01G359100 chr5D 85.153 229 25 3 3139 3364 537877282 537877504 3.380000e-55 226.0
20 TraesCS4A01G359100 chr5D 79.614 363 28 15 2469 2786 537764957 537765318 5.650000e-53 219.0
21 TraesCS4A01G359100 chr5D 84.677 124 11 5 3019 3135 537877088 537877210 2.120000e-22 117.0
22 TraesCS4A01G359100 chr5D 83.077 130 15 4 2862 2984 538151915 538152044 9.870000e-21 111.0
23 TraesCS4A01G359100 chr5D 94.444 54 3 0 2572 2625 537891957 537892010 2.150000e-12 84.2
24 TraesCS4A01G359100 chr5D 87.671 73 2 6 2917 2984 537892380 537892450 1.000000e-10 78.7
25 TraesCS4A01G359100 chr6B 95.155 805 29 7 165 964 59405899 59406698 0.000000e+00 1262.0
26 TraesCS4A01G359100 chrUn 80.694 461 57 9 2929 3364 67389718 67390171 2.500000e-86 329.0
27 TraesCS4A01G359100 chr4D 89.773 88 9 0 752 839 105932918 105932831 2.740000e-21 113.0
28 TraesCS4A01G359100 chr4D 97.619 42 1 0 2788 2829 47343910 47343869 4.660000e-09 73.1
29 TraesCS4A01G359100 chr4D 97.561 41 1 0 2789 2829 11120044 11120004 1.680000e-08 71.3
30 TraesCS4A01G359100 chr4D 97.561 41 1 0 2789 2829 11136596 11136556 1.680000e-08 71.3
31 TraesCS4A01G359100 chr7B 77.889 199 29 11 1431 1627 13776734 13776919 3.550000e-20 110.0
32 TraesCS4A01G359100 chr7B 79.042 167 27 7 1463 1627 501962336 501962496 1.280000e-19 108.0
33 TraesCS4A01G359100 chr7B 100.000 42 0 0 2788 2829 22900922 22900881 1.000000e-10 78.7
34 TraesCS4A01G359100 chr2B 94.366 71 4 0 752 822 431577126 431577196 3.550000e-20 110.0
35 TraesCS4A01G359100 chr2B 79.870 154 24 6 1463 1614 543312011 543311863 4.590000e-19 106.0
36 TraesCS4A01G359100 chr5A 79.042 167 27 7 1463 1627 348175803 348175963 1.280000e-19 108.0
37 TraesCS4A01G359100 chr1B 79.042 167 26 8 1463 1627 570176838 570176997 4.590000e-19 106.0
38 TraesCS4A01G359100 chr7D 78.698 169 24 9 1463 1627 416529444 416529604 5.940000e-18 102.0
39 TraesCS4A01G359100 chr4B 87.500 88 11 0 752 839 149725145 149725058 5.940000e-18 102.0
40 TraesCS4A01G359100 chr3B 97.826 46 1 0 2784 2829 481548765 481548720 2.780000e-11 80.5
41 TraesCS4A01G359100 chr7A 95.652 46 2 0 2784 2829 12748983 12749028 1.300000e-09 75.0
42 TraesCS4A01G359100 chr3D 100.000 39 0 0 2788 2826 135589997 135590035 4.660000e-09 73.1
43 TraesCS4A01G359100 chr3D 93.478 46 3 0 2784 2829 127344084 127344129 6.030000e-08 69.4


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 TraesCS4A01G359100 chr4A 631963516 631966881 3365 False 6216.000000 6216 100.000000 1 3366 1 chr4A.!!$F3 3365
1 TraesCS4A01G359100 chr4A 632022481 632023012 531 False 379.000000 379 80.705000 2862 3364 1 chr4A.!!$F4 502
2 TraesCS4A01G359100 chr5B 678512955 678522222 9267 False 716.142857 2102 88.250429 1 3364 7 chr5B.!!$F3 3363
3 TraesCS4A01G359100 chr5B 678536368 678536893 525 False 385.000000 385 80.935000 2862 3364 1 chr5B.!!$F1 502
4 TraesCS4A01G359100 chr5D 537761889 537765938 4049 False 989.250000 2019 86.936000 1 3364 4 chr5D.!!$F1 3363
5 TraesCS4A01G359100 chr5D 538151915 538152469 554 False 225.500000 340 83.868000 2862 3364 2 chr5D.!!$F4 502
6 TraesCS4A01G359100 chr6B 59405899 59406698 799 False 1262.000000 1262 95.155000 165 964 1 chr6B.!!$F1 799

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
855 1038 1.669604 TGTCTGCCGTGCTTGTTTTA 58.33 45.0 0.0 0.0 0.0 1.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2700 3582 0.029681 AGATGGCCACTATGACCCCT 60.03 55.0 8.16 0.0 0.0 4.79 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
30 31 6.941436 TGCCACATGATATGCTCAAATATGTA 59.059 34.615 0.00 0.00 37.44 2.29
60 61 3.371380 GGAGCCTTGGAGATGTCTGATTT 60.371 47.826 0.00 0.00 0.00 2.17
85 86 9.851686 TTGCCATATCTTATATTCTTGTTCTGT 57.148 29.630 0.00 0.00 0.00 3.41
86 87 9.494271 TGCCATATCTTATATTCTTGTTCTGTC 57.506 33.333 0.00 0.00 0.00 3.51
87 88 8.940952 GCCATATCTTATATTCTTGTTCTGTCC 58.059 37.037 0.00 0.00 0.00 4.02
88 89 9.442047 CCATATCTTATATTCTTGTTCTGTCCC 57.558 37.037 0.00 0.00 0.00 4.46
92 93 8.964476 TCTTATATTCTTGTTCTGTCCCATTC 57.036 34.615 0.00 0.00 0.00 2.67
93 94 8.772250 TCTTATATTCTTGTTCTGTCCCATTCT 58.228 33.333 0.00 0.00 0.00 2.40
109 110 7.047891 GTCCCATTCTGTATGACTTCAACATA 58.952 38.462 0.00 0.00 36.26 2.29
127 128 1.774894 TAGGCGGCTGGGAAACAACT 61.775 55.000 23.55 0.00 0.00 3.16
245 247 5.410439 GGTTCTTCCAACTCGTGCTAAATAA 59.590 40.000 0.00 0.00 35.97 1.40
319 332 5.869579 AGAGCCTTGAGATTTGAACACTAA 58.130 37.500 0.00 0.00 0.00 2.24
442 457 4.383444 CCATCAGTCTACCAAAGCATCTGA 60.383 45.833 0.00 0.00 34.37 3.27
466 481 6.701340 AGCATCTGTTCTGTTCTGTATGTTA 58.299 36.000 0.00 0.00 0.00 2.41
535 550 3.880047 ACACCATTCATTGCCTCATTG 57.120 42.857 0.00 0.00 0.00 2.82
536 551 3.433343 ACACCATTCATTGCCTCATTGA 58.567 40.909 0.00 0.00 0.00 2.57
547 562 2.105766 GCCTCATTGAAAGCCTTCCAT 58.894 47.619 0.00 0.00 0.00 3.41
552 567 5.511888 CCTCATTGAAAGCCTTCCATTGTTT 60.512 40.000 0.00 0.00 0.00 2.83
822 857 9.768662 AATATTTTTGCTGAGTTGTCTGATTTT 57.231 25.926 0.00 0.00 0.00 1.82
828 863 4.692625 GCTGAGTTGTCTGATTTTAGAGCA 59.307 41.667 0.00 0.00 0.00 4.26
855 1038 1.669604 TGTCTGCCGTGCTTGTTTTA 58.330 45.000 0.00 0.00 0.00 1.52
1019 1308 3.960571 AGATGGCTGCTATTGTTGAAGT 58.039 40.909 0.00 0.00 0.00 3.01
1330 1619 7.178274 TGAAATTTTGGCTACCAGATTACATGT 59.822 33.333 2.69 2.69 33.81 3.21
1343 1632 3.415457 TTACATGTGTGACCATCTGCA 57.585 42.857 9.11 0.00 0.00 4.41
1359 1648 4.247267 TCTGCAAATTGAAGAAAGCCAG 57.753 40.909 0.15 0.00 26.47 4.85
1378 1667 1.558294 AGATTGCAGAGATGTGCCTGA 59.442 47.619 0.00 0.00 43.28 3.86
1386 1675 4.378874 GCAGAGATGTGCCTGAAACTTTAC 60.379 45.833 0.00 0.00 37.49 2.01
1400 1689 5.652014 TGAAACTTTACAGGGAATATGGCAG 59.348 40.000 0.00 0.00 0.00 4.85
1433 1722 7.122204 GGCTGGTCTTAAGGTACAATTTGTATT 59.878 37.037 12.16 6.59 35.05 1.89
1436 1725 9.747898 TGGTCTTAAGGTACAATTTGTATTCAT 57.252 29.630 12.16 4.72 35.05 2.57
1468 1757 4.000988 TCCACGGAAGAGCTTATGTTTTC 58.999 43.478 0.00 0.00 0.00 2.29
1469 1758 3.127030 CCACGGAAGAGCTTATGTTTTCC 59.873 47.826 0.00 0.00 35.16 3.13
1470 1759 4.003648 CACGGAAGAGCTTATGTTTTCCT 58.996 43.478 0.00 0.00 36.11 3.36
1483 1775 7.441458 GCTTATGTTTTCCTCCTAATCATACGT 59.559 37.037 0.00 0.00 0.00 3.57
1484 1776 8.882415 TTATGTTTTCCTCCTAATCATACGTC 57.118 34.615 0.00 0.00 0.00 4.34
1504 1796 3.126000 GTCTGTTAATTCTCTGCAGGCAC 59.874 47.826 15.13 1.28 32.65 5.01
1537 1829 6.031729 CGAGTTTGACAACGATGAATTTCATG 59.968 38.462 16.41 10.87 37.20 3.07
1566 1858 5.072193 TGTTCATGGTAGACTGCCATATGAT 59.928 40.000 22.91 0.72 44.25 2.45
1582 1874 5.426504 CATATGATAATCTGAGGCCTGACC 58.573 45.833 12.00 0.00 39.61 4.02
1614 1906 3.532542 GACCCTTCTACTTTCCATTCCG 58.467 50.000 0.00 0.00 0.00 4.30
1616 1908 1.933853 CCTTCTACTTTCCATTCCGCG 59.066 52.381 0.00 0.00 0.00 6.46
1617 1909 1.933853 CTTCTACTTTCCATTCCGCGG 59.066 52.381 22.12 22.12 0.00 6.46
1639 1931 7.404203 GCGGAGAAAAATAGTAAGCGAATTTA 58.596 34.615 0.00 0.00 0.00 1.40
1659 1951 8.816640 AATTTACCACAGTTTATTTGCTCTTG 57.183 30.769 0.00 0.00 0.00 3.02
1661 1953 8.453238 TTTACCACAGTTTATTTGCTCTTGTA 57.547 30.769 0.00 0.00 0.00 2.41
1662 1954 6.952773 ACCACAGTTTATTTGCTCTTGTAA 57.047 33.333 0.00 0.00 0.00 2.41
1663 1955 7.524717 ACCACAGTTTATTTGCTCTTGTAAT 57.475 32.000 0.00 0.00 0.00 1.89
1664 1956 7.951591 ACCACAGTTTATTTGCTCTTGTAATT 58.048 30.769 0.00 0.00 0.00 1.40
1665 1957 8.421002 ACCACAGTTTATTTGCTCTTGTAATTT 58.579 29.630 0.00 0.00 0.00 1.82
1666 1958 9.906660 CCACAGTTTATTTGCTCTTGTAATTTA 57.093 29.630 0.00 0.00 0.00 1.40
1716 2010 6.816134 AATTTGGAAAAACTTGCTTGTTGT 57.184 29.167 0.00 0.00 0.00 3.32
1751 2045 0.870307 CGGATAAGGTTCACGCGGAG 60.870 60.000 12.47 1.99 0.00 4.63
1767 2061 2.925170 AGGAGGTTCTGCGCAGGT 60.925 61.111 35.36 18.60 0.00 4.00
1781 2075 1.187567 GCAGGTTGGGTTTGCAGGAT 61.188 55.000 0.00 0.00 37.75 3.24
1793 2087 1.514553 GCAGGATTGCTTTGAGGGC 59.485 57.895 0.00 0.00 46.95 5.19
1805 2099 2.418368 TTGAGGGCGTGATATGCTTT 57.582 45.000 0.00 0.00 0.00 3.51
1812 2106 2.030946 GGCGTGATATGCTTTGAGACAC 59.969 50.000 0.00 0.00 0.00 3.67
1817 2111 5.445142 CGTGATATGCTTTGAGACACTGAAC 60.445 44.000 0.00 0.00 0.00 3.18
1824 2118 0.468226 TGAGACACTGAACCCACCAC 59.532 55.000 0.00 0.00 0.00 4.16
1826 2120 0.986019 AGACACTGAACCCACCACCA 60.986 55.000 0.00 0.00 0.00 4.17
1828 2122 1.898574 CACTGAACCCACCACCAGC 60.899 63.158 0.00 0.00 0.00 4.85
1829 2123 2.282462 CTGAACCCACCACCAGCC 60.282 66.667 0.00 0.00 0.00 4.85
1831 2125 2.430704 CTGAACCCACCACCAGCCAT 62.431 60.000 0.00 0.00 0.00 4.40
1833 2127 4.684134 ACCCACCACCAGCCATGC 62.684 66.667 0.00 0.00 0.00 4.06
1865 2180 2.811317 GCGCTCTCTGGTGAACCG 60.811 66.667 0.00 0.00 39.43 4.44
1934 2249 1.535204 CCATCCTGTGCAAACCCACC 61.535 60.000 0.00 0.00 34.85 4.61
1960 2275 1.064621 CCATGGAAGCCGCAATTCG 59.935 57.895 5.56 0.00 38.08 3.34
1988 2303 4.229096 CAAATGTCAATCCCAACAAGACG 58.771 43.478 0.00 0.00 32.08 4.18
1995 2310 3.992943 ATCCCAACAAGACGGTATGAA 57.007 42.857 0.91 0.00 0.00 2.57
1996 2311 3.773418 TCCCAACAAGACGGTATGAAA 57.227 42.857 0.91 0.00 0.00 2.69
1997 2312 3.404899 TCCCAACAAGACGGTATGAAAC 58.595 45.455 0.91 0.00 0.00 2.78
1999 2314 3.566322 CCCAACAAGACGGTATGAAACAA 59.434 43.478 0.91 0.00 0.00 2.83
2003 2318 2.484742 AGACGGTATGAAACAACCCC 57.515 50.000 0.00 0.00 31.68 4.95
2004 2319 1.982958 AGACGGTATGAAACAACCCCT 59.017 47.619 0.00 0.00 31.68 4.79
2005 2320 3.175594 AGACGGTATGAAACAACCCCTA 58.824 45.455 0.00 0.00 31.68 3.53
2008 2323 5.426185 AGACGGTATGAAACAACCCCTATTA 59.574 40.000 0.00 0.00 31.68 0.98
2009 2324 5.677567 ACGGTATGAAACAACCCCTATTAG 58.322 41.667 0.00 0.00 31.68 1.73
2016 2331 6.419791 TGAAACAACCCCTATTAGTACATGG 58.580 40.000 0.00 0.00 0.00 3.66
2017 2332 4.432980 ACAACCCCTATTAGTACATGGC 57.567 45.455 0.00 0.00 0.00 4.40
2023 2338 4.505039 CCCCTATTAGTACATGGCCAAGAC 60.505 50.000 16.33 10.90 0.00 3.01
2027 2342 0.328258 AGTACATGGCCAAGACCACC 59.672 55.000 16.33 0.00 44.17 4.61
2031 2346 4.938756 TGGCCAAGACCACCCCCT 62.939 66.667 0.61 0.00 33.75 4.79
2033 2348 2.235761 GGCCAAGACCACCCCCTAA 61.236 63.158 0.00 0.00 0.00 2.69
2035 2350 1.785353 GCCAAGACCACCCCCTAACA 61.785 60.000 0.00 0.00 0.00 2.41
2036 2351 0.774908 CCAAGACCACCCCCTAACAA 59.225 55.000 0.00 0.00 0.00 2.83
2041 2356 3.261962 AGACCACCCCCTAACAACAATA 58.738 45.455 0.00 0.00 0.00 1.90
2043 2358 3.760151 GACCACCCCCTAACAACAATAAC 59.240 47.826 0.00 0.00 0.00 1.89
2108 2431 0.464036 TAGCATCCGGAACATCGCTT 59.536 50.000 9.01 0.07 0.00 4.68
2122 2445 2.873288 GCTTCAGGAAAGGCTGCG 59.127 61.111 0.00 0.00 35.37 5.18
2148 2471 5.232414 GCTTCTACACCGTGATTGTAAGATC 59.768 44.000 5.28 0.00 0.00 2.75
2173 2496 4.565166 CGTCACGCATAATTCCAAACTAGA 59.435 41.667 0.00 0.00 0.00 2.43
2175 2498 4.565166 TCACGCATAATTCCAAACTAGACG 59.435 41.667 0.00 0.00 0.00 4.18
2184 2507 1.798813 CCAAACTAGACGTGCTTCCAC 59.201 52.381 0.00 0.00 38.62 4.02
2193 2516 2.525629 TGCTTCCACGTCCAGGGA 60.526 61.111 0.00 0.00 0.00 4.20
2194 2517 2.144078 TGCTTCCACGTCCAGGGAA 61.144 57.895 5.12 5.12 40.75 3.97
2340 2664 2.167281 CCACGACTGGTCAGAATCTGAT 59.833 50.000 16.68 0.00 42.73 2.90
2358 2682 0.037877 ATGCTGTTCCTGCTTCTGCT 59.962 50.000 0.00 0.00 40.48 4.24
2373 2697 1.275010 TCTGCTGCGGTAGAAACATCA 59.725 47.619 11.29 0.00 31.49 3.07
2384 2708 6.036735 GCGGTAGAAACATCAGTTATTGCTTA 59.963 38.462 0.00 0.00 36.84 3.09
2386 2710 8.612619 CGGTAGAAACATCAGTTATTGCTTAAT 58.387 33.333 0.00 0.00 36.84 1.40
2432 2760 2.033801 CCATCGGAGAATGGAATGTTGC 59.966 50.000 0.00 0.00 43.58 4.17
2442 3080 1.887854 TGGAATGTTGCATCACAGGTG 59.112 47.619 0.00 0.00 0.00 4.00
2467 3105 4.853924 AGCATGGACCTGTTTAACAAAG 57.146 40.909 0.00 0.00 0.00 2.77
2494 3132 6.161855 AGCATTGTATTCTCGACCTTCATA 57.838 37.500 0.00 0.00 0.00 2.15
2517 3354 2.615912 GCTGATACACCTCAGAAATGCC 59.384 50.000 5.31 0.00 44.48 4.40
2526 3363 2.176273 CAGAAATGCCGCCTCTCCG 61.176 63.158 0.00 0.00 0.00 4.63
2549 3386 3.568430 GTGAAGGGTGAAAAAGGTACCAG 59.432 47.826 15.94 0.00 36.19 4.00
2700 3582 4.581868 CCTCAACGGTTAAAGGGAACATA 58.418 43.478 11.73 0.00 0.00 2.29
2727 3610 2.550277 TAGTGGCCATCTTCTCTCCA 57.450 50.000 9.72 0.00 0.00 3.86
2779 3662 4.693566 TGGTAAATCAACAGTTCGATGACC 59.306 41.667 15.03 15.03 32.66 4.02
2785 3668 3.073678 CAACAGTTCGATGACCATCCAA 58.926 45.455 4.58 0.00 34.40 3.53
2788 3671 3.273434 CAGTTCGATGACCATCCAACAT 58.727 45.455 18.03 5.47 40.06 2.71
2789 3672 4.081142 ACAGTTCGATGACCATCCAACATA 60.081 41.667 18.03 0.00 40.06 2.29
2790 3673 4.271049 CAGTTCGATGACCATCCAACATAC 59.729 45.833 18.03 4.14 40.06 2.39
2791 3674 4.162320 AGTTCGATGACCATCCAACATACT 59.838 41.667 18.03 5.78 40.06 2.12
2793 3676 3.069586 TCGATGACCATCCAACATACTCC 59.930 47.826 4.58 0.00 34.40 3.85
2794 3677 3.744660 GATGACCATCCAACATACTCCC 58.255 50.000 0.00 0.00 31.76 4.30
2795 3678 2.845659 TGACCATCCAACATACTCCCT 58.154 47.619 0.00 0.00 0.00 4.20
2798 3681 2.774234 ACCATCCAACATACTCCCTCTG 59.226 50.000 0.00 0.00 0.00 3.35
2799 3682 2.774234 CCATCCAACATACTCCCTCTGT 59.226 50.000 0.00 0.00 0.00 3.41
2801 3684 4.408921 CCATCCAACATACTCCCTCTGTAA 59.591 45.833 0.00 0.00 0.00 2.41
2803 3686 5.416271 TCCAACATACTCCCTCTGTAAAC 57.584 43.478 0.00 0.00 0.00 2.01
2805 3688 6.258354 TCCAACATACTCCCTCTGTAAACTA 58.742 40.000 0.00 0.00 0.00 2.24
2806 3689 6.727231 TCCAACATACTCCCTCTGTAAACTAA 59.273 38.462 0.00 0.00 0.00 2.24
2807 3690 7.402071 TCCAACATACTCCCTCTGTAAACTAAT 59.598 37.037 0.00 0.00 0.00 1.73
2808 3691 8.701895 CCAACATACTCCCTCTGTAAACTAATA 58.298 37.037 0.00 0.00 0.00 0.98
2815 3698 8.808092 ACTCCCTCTGTAAACTAATATATGAGC 58.192 37.037 0.00 0.00 0.00 4.26
2816 3699 7.827701 TCCCTCTGTAAACTAATATATGAGCG 58.172 38.462 0.00 0.00 0.00 5.03
2817 3700 7.450634 TCCCTCTGTAAACTAATATATGAGCGT 59.549 37.037 0.00 0.00 0.00 5.07
2818 3701 8.088981 CCCTCTGTAAACTAATATATGAGCGTT 58.911 37.037 0.00 0.00 0.00 4.84
2833 3716 5.236655 TGAGCGTTTAGATCACTAGTGAG 57.763 43.478 28.29 15.13 40.80 3.51
2834 3717 4.941873 TGAGCGTTTAGATCACTAGTGAGA 59.058 41.667 28.29 14.83 40.80 3.27
2835 3718 5.414765 TGAGCGTTTAGATCACTAGTGAGAA 59.585 40.000 28.29 19.21 40.80 2.87
2888 3884 6.019961 CGTTAAGCATGAGATGAGAAAGAGTC 60.020 42.308 0.00 0.00 0.00 3.36
2945 3948 3.084039 CTGCACCAAGGAGCATTTCTTA 58.916 45.455 11.56 0.00 40.57 2.10
2966 3973 3.243359 TCTGGAAGAAACAAAGCCCAT 57.757 42.857 0.00 0.00 42.31 4.00
2999 4032 3.636231 CCCGGCAACCACTCTGGA 61.636 66.667 0.00 0.00 40.96 3.86
3046 4106 2.095263 CGCCAAACCAGTTCACCATAAG 60.095 50.000 0.00 0.00 0.00 1.73
3047 4107 2.890945 GCCAAACCAGTTCACCATAAGT 59.109 45.455 0.00 0.00 0.00 2.24
3099 4162 8.796475 GGATACACCAAACATATATTGCTGATT 58.204 33.333 3.84 0.00 38.79 2.57
3108 4171 7.552458 ACATATATTGCTGATTTTCGTGACA 57.448 32.000 0.00 0.00 0.00 3.58
3112 4175 4.566545 TTGCTGATTTTCGTGACACAAT 57.433 36.364 6.37 0.00 0.00 2.71
3121 4184 3.811722 TCGTGACACAATCTTCAATGC 57.188 42.857 6.37 0.00 0.00 3.56
3131 4194 5.050634 CACAATCTTCAATGCCACTTTGTTG 60.051 40.000 0.00 0.00 0.00 3.33
3142 4205 3.305950 GCCACTTTGTTGAATGCCATACA 60.306 43.478 0.00 0.00 0.00 2.29
3171 4234 5.643379 TGATGGTCATTCTTTTAAGCACC 57.357 39.130 0.00 0.00 0.00 5.01
3189 4252 0.249120 CCGGCGCCCATCTGAATATA 59.751 55.000 23.46 0.00 0.00 0.86
3190 4253 1.645034 CGGCGCCCATCTGAATATAG 58.355 55.000 23.46 0.00 0.00 1.31
3191 4254 1.740380 CGGCGCCCATCTGAATATAGG 60.740 57.143 23.46 0.00 0.00 2.57
3192 4255 1.555075 GGCGCCCATCTGAATATAGGA 59.445 52.381 18.11 0.00 0.00 2.94
3193 4256 2.419297 GGCGCCCATCTGAATATAGGAG 60.419 54.545 18.11 0.00 0.00 3.69
3194 4257 2.234908 GCGCCCATCTGAATATAGGAGT 59.765 50.000 0.00 0.00 0.00 3.85
3195 4258 3.447586 GCGCCCATCTGAATATAGGAGTA 59.552 47.826 0.00 0.00 0.00 2.59
3196 4259 4.100189 GCGCCCATCTGAATATAGGAGTAT 59.900 45.833 0.00 0.00 0.00 2.12
3207 4270 9.650539 CTGAATATAGGAGTATTTGTGATGGAG 57.349 37.037 0.00 0.00 0.00 3.86
3223 4289 4.529769 TGATGGAGTCAATCTCAGTGTCTT 59.470 41.667 8.99 0.00 44.40 3.01
3319 4385 7.383029 GCTCATCACAAAGACAATTTTCATGAA 59.617 33.333 3.38 3.38 0.00 2.57
3337 4403 8.945481 TTCATGAAATTTTGATGTTTGTGACT 57.055 26.923 5.45 0.00 0.00 3.41
3364 4432 8.227791 TCTAGAACATGAAAAACGTTAGAATGC 58.772 33.333 0.00 0.00 0.00 3.56
3365 4433 6.734137 AGAACATGAAAAACGTTAGAATGCA 58.266 32.000 0.00 0.00 0.00 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 4.018050 ACATCTCCAAGGCTCCAACTTAAT 60.018 41.667 0.00 0.00 0.00 1.40
60 61 9.494271 GACAGAACAAGAATATAAGATATGGCA 57.506 33.333 0.00 0.00 0.00 4.92
84 85 5.245531 TGTTGAAGTCATACAGAATGGGAC 58.754 41.667 0.00 0.00 43.62 4.46
85 86 5.497464 TGTTGAAGTCATACAGAATGGGA 57.503 39.130 0.00 0.00 43.62 4.37
86 87 6.484643 CCTATGTTGAAGTCATACAGAATGGG 59.515 42.308 0.00 0.00 43.62 4.00
87 88 6.017605 GCCTATGTTGAAGTCATACAGAATGG 60.018 42.308 0.00 0.00 43.62 3.16
88 89 6.292542 CGCCTATGTTGAAGTCATACAGAATG 60.293 42.308 0.00 0.00 46.00 2.67
89 90 5.755375 CGCCTATGTTGAAGTCATACAGAAT 59.245 40.000 0.00 0.00 0.00 2.40
90 91 5.109210 CGCCTATGTTGAAGTCATACAGAA 58.891 41.667 0.00 0.00 0.00 3.02
91 92 4.441495 CCGCCTATGTTGAAGTCATACAGA 60.441 45.833 0.00 0.00 0.00 3.41
92 93 3.804325 CCGCCTATGTTGAAGTCATACAG 59.196 47.826 0.00 0.00 0.00 2.74
93 94 3.792401 CCGCCTATGTTGAAGTCATACA 58.208 45.455 0.00 0.00 0.00 2.29
109 110 1.774894 TAGTTGTTTCCCAGCCGCCT 61.775 55.000 0.00 0.00 0.00 5.52
127 128 3.911260 TGATTGGTACCCTTCCAAGTGTA 59.089 43.478 10.07 0.00 46.14 2.90
245 247 4.574674 TCCTACAAAAGTGGCATGAGAT 57.425 40.909 0.00 0.00 0.00 2.75
319 332 5.823045 CACTTTCCTACAGAAGAAAACAGGT 59.177 40.000 0.00 0.00 35.40 4.00
442 457 5.157940 ACATACAGAACAGAACAGATGCT 57.842 39.130 0.00 0.00 0.00 3.79
466 481 2.067932 TAGCAGCAGGCCAAGTTGGT 62.068 55.000 22.85 17.83 46.50 3.67
535 550 5.572896 CGACAATAAACAATGGAAGGCTTTC 59.427 40.000 0.00 0.00 0.00 2.62
536 551 5.469479 CGACAATAAACAATGGAAGGCTTT 58.531 37.500 0.00 0.00 0.00 3.51
547 562 4.319622 CGGTTACCTTGCGACAATAAACAA 60.320 41.667 0.00 0.00 0.00 2.83
552 567 2.231964 AGTCGGTTACCTTGCGACAATA 59.768 45.455 12.65 0.00 32.70 1.90
822 857 3.677148 CGGCAGACATTCTCTTTGCTCTA 60.677 47.826 0.00 0.00 35.23 2.43
828 863 1.160137 GCACGGCAGACATTCTCTTT 58.840 50.000 0.00 0.00 0.00 2.52
855 1038 9.640952 AAATAAATTATGTAGTGTGCCAGGTAT 57.359 29.630 0.00 0.00 0.00 2.73
892 1180 6.672593 AGAAAGCAATAACATATTCCCCAGA 58.327 36.000 0.00 0.00 0.00 3.86
1103 1392 9.616156 TTACTGGAGTGTACAAAACAATAAGAA 57.384 29.630 0.00 0.00 40.63 2.52
1104 1393 9.616156 TTTACTGGAGTGTACAAAACAATAAGA 57.384 29.630 0.00 0.00 40.63 2.10
1297 1586 8.012957 TCTGGTAGCCAAAATTTCAAAGTTAA 57.987 30.769 0.00 0.00 30.80 2.01
1330 1619 4.143543 TCTTCAATTTGCAGATGGTCACA 58.856 39.130 0.00 0.00 0.00 3.58
1343 1632 5.011329 TCTGCAATCTGGCTTTCTTCAATTT 59.989 36.000 0.00 0.00 34.04 1.82
1359 1648 2.034104 TCAGGCACATCTCTGCAATC 57.966 50.000 0.00 0.00 39.08 2.67
1378 1667 4.402474 GCTGCCATATTCCCTGTAAAGTTT 59.598 41.667 0.00 0.00 0.00 2.66
1386 1675 1.766494 TTGTGCTGCCATATTCCCTG 58.234 50.000 0.00 0.00 0.00 4.45
1400 1689 1.474077 CCTTAAGACCAGCCATTGTGC 59.526 52.381 3.36 0.00 0.00 4.57
1433 1722 6.569610 GCTCTTCCGTGGAAAACAATAAATGA 60.570 38.462 2.50 0.00 33.34 2.57
1436 1725 4.825085 AGCTCTTCCGTGGAAAACAATAAA 59.175 37.500 2.50 0.00 33.34 1.40
1442 1731 3.751698 ACATAAGCTCTTCCGTGGAAAAC 59.248 43.478 2.50 0.00 33.34 2.43
1447 1736 3.127030 GGAAAACATAAGCTCTTCCGTGG 59.873 47.826 0.00 0.00 0.00 4.94
1448 1737 4.003648 AGGAAAACATAAGCTCTTCCGTG 58.996 43.478 0.00 0.00 40.44 4.94
1449 1738 4.254492 GAGGAAAACATAAGCTCTTCCGT 58.746 43.478 0.00 0.00 40.44 4.69
1451 1740 4.849518 AGGAGGAAAACATAAGCTCTTCC 58.150 43.478 0.00 0.00 34.99 3.46
1468 1757 8.361139 AGAATTAACAGACGTATGATTAGGAGG 58.639 37.037 18.55 0.00 0.00 4.30
1469 1758 9.400638 GAGAATTAACAGACGTATGATTAGGAG 57.599 37.037 18.55 0.00 0.00 3.69
1470 1759 9.132923 AGAGAATTAACAGACGTATGATTAGGA 57.867 33.333 18.55 0.00 0.00 2.94
1483 1775 3.008375 AGTGCCTGCAGAGAATTAACAGA 59.992 43.478 17.39 0.00 0.00 3.41
1484 1776 3.341823 AGTGCCTGCAGAGAATTAACAG 58.658 45.455 17.39 0.00 0.00 3.16
1504 1796 4.539870 TCGTTGTCAAACTCGTAACCTAG 58.460 43.478 0.00 0.00 33.87 3.02
1537 1829 3.428045 GGCAGTCTACCATGAACATTTGC 60.428 47.826 0.00 0.00 0.00 3.68
1566 1858 1.273838 ACAGGGTCAGGCCTCAGATTA 60.274 52.381 0.00 0.00 37.43 1.75
1582 1874 2.959465 AGAAGGGTCCTCAAAACAGG 57.041 50.000 0.00 0.00 34.40 4.00
1614 1906 4.852609 TTCGCTTACTATTTTTCTCCGC 57.147 40.909 0.00 0.00 0.00 5.54
1616 1908 8.671028 TGGTAAATTCGCTTACTATTTTTCTCC 58.329 33.333 0.00 0.00 33.17 3.71
1617 1909 9.486857 GTGGTAAATTCGCTTACTATTTTTCTC 57.513 33.333 0.00 0.00 33.17 2.87
1639 1931 6.952773 TTACAAGAGCAAATAAACTGTGGT 57.047 33.333 0.00 0.00 0.00 4.16
1662 1954 9.150348 GCTAATGCAAGGTGTTATGTTTTAAAT 57.850 29.630 0.00 0.00 39.41 1.40
1663 1955 8.527567 GCTAATGCAAGGTGTTATGTTTTAAA 57.472 30.769 0.00 0.00 39.41 1.52
1694 1986 7.327214 TCTACAACAAGCAAGTTTTTCCAAAT 58.673 30.769 0.00 0.00 0.00 2.32
1696 1988 6.274157 TCTACAACAAGCAAGTTTTTCCAA 57.726 33.333 0.00 0.00 0.00 3.53
1697 1989 5.906113 TCTACAACAAGCAAGTTTTTCCA 57.094 34.783 0.00 0.00 0.00 3.53
1698 1990 9.476202 AAATATCTACAACAAGCAAGTTTTTCC 57.524 29.630 0.00 0.00 0.00 3.13
1730 2024 0.458889 CCGCGTGAACCTTATCCGAA 60.459 55.000 4.92 0.00 0.00 4.30
1736 2030 1.601419 CCTCCTCCGCGTGAACCTTA 61.601 60.000 4.92 0.00 0.00 2.69
1751 2045 2.032681 AACCTGCGCAGAACCTCC 59.967 61.111 38.06 0.00 0.00 4.30
1781 2075 2.016318 CATATCACGCCCTCAAAGCAA 58.984 47.619 0.00 0.00 0.00 3.91
1793 2087 4.176271 TCAGTGTCTCAAAGCATATCACG 58.824 43.478 0.00 0.00 0.00 4.35
1805 2099 0.468226 GTGGTGGGTTCAGTGTCTCA 59.532 55.000 0.00 0.00 0.00 3.27
1812 2106 2.282462 GGCTGGTGGTGGGTTCAG 60.282 66.667 0.00 0.00 0.00 3.02
1826 2120 2.679619 TAGGATCCTCCGGCATGGCT 62.680 60.000 20.22 0.00 42.75 4.75
1828 2122 0.251354 CATAGGATCCTCCGGCATGG 59.749 60.000 20.22 0.00 42.75 3.66
1829 2123 0.251354 CCATAGGATCCTCCGGCATG 59.749 60.000 20.22 15.63 42.75 4.06
1831 2125 2.217038 GCCATAGGATCCTCCGGCA 61.217 63.158 34.24 15.06 42.75 5.69
1833 2127 2.973899 CGCCATAGGATCCTCCGG 59.026 66.667 20.22 20.44 42.75 5.14
1834 2128 2.219325 GAGCGCCATAGGATCCTCCG 62.219 65.000 20.22 17.23 42.75 4.63
1875 2190 2.162608 CCGATCCGTAGAGATCATCCAC 59.837 54.545 0.00 0.00 42.40 4.02
1880 2195 2.437413 CCATCCGATCCGTAGAGATCA 58.563 52.381 0.00 0.00 42.40 2.92
1934 2249 1.269413 GCGGCTTCCATGGATTCAATG 60.269 52.381 17.06 5.12 0.00 2.82
1964 2279 3.640498 TCTTGTTGGGATTGACATTTGCA 59.360 39.130 0.00 0.00 0.00 4.08
1973 2288 3.605634 TCATACCGTCTTGTTGGGATTG 58.394 45.455 0.00 0.00 0.00 2.67
1974 2289 3.992943 TCATACCGTCTTGTTGGGATT 57.007 42.857 0.00 0.00 0.00 3.01
1979 2294 4.533222 GGTTGTTTCATACCGTCTTGTTG 58.467 43.478 0.00 0.00 0.00 3.33
1982 2297 2.486592 GGGGTTGTTTCATACCGTCTTG 59.513 50.000 0.00 0.00 35.19 3.02
1988 2303 7.567458 TGTACTAATAGGGGTTGTTTCATACC 58.433 38.462 0.00 0.00 0.00 2.73
1995 2310 4.385977 GGCCATGTACTAATAGGGGTTGTT 60.386 45.833 0.00 0.00 0.00 2.83
1996 2311 3.137728 GGCCATGTACTAATAGGGGTTGT 59.862 47.826 0.00 0.00 0.00 3.32
1997 2312 3.137544 TGGCCATGTACTAATAGGGGTTG 59.862 47.826 0.00 0.00 0.00 3.77
1999 2314 3.069084 TGGCCATGTACTAATAGGGGT 57.931 47.619 0.00 0.00 0.00 4.95
2003 2318 5.057149 GTGGTCTTGGCCATGTACTAATAG 58.943 45.833 17.54 3.77 41.08 1.73
2004 2319 4.141574 GGTGGTCTTGGCCATGTACTAATA 60.142 45.833 17.54 0.00 41.08 0.98
2005 2320 3.371595 GGTGGTCTTGGCCATGTACTAAT 60.372 47.826 17.54 0.00 41.08 1.73
2008 2323 0.328258 GGTGGTCTTGGCCATGTACT 59.672 55.000 17.54 0.00 41.08 2.73
2009 2324 0.679960 GGGTGGTCTTGGCCATGTAC 60.680 60.000 17.54 13.61 41.08 2.90
2016 2331 1.001269 GTTAGGGGGTGGTCTTGGC 60.001 63.158 0.00 0.00 0.00 4.52
2017 2332 0.774908 TTGTTAGGGGGTGGTCTTGG 59.225 55.000 0.00 0.00 0.00 3.61
2023 2338 3.768878 TGTTATTGTTGTTAGGGGGTGG 58.231 45.455 0.00 0.00 0.00 4.61
2027 2342 5.074115 TCAGGTTGTTATTGTTGTTAGGGG 58.926 41.667 0.00 0.00 0.00 4.79
2069 2384 9.221933 GATGCTATCATTGAAGAAGATCTGATT 57.778 33.333 0.00 0.00 31.96 2.57
2070 2385 7.825270 GGATGCTATCATTGAAGAAGATCTGAT 59.175 37.037 0.00 0.00 31.96 2.90
2083 2406 3.124128 CGATGTTCCGGATGCTATCATTG 59.876 47.826 4.15 4.34 31.96 2.82
2084 2407 3.329386 CGATGTTCCGGATGCTATCATT 58.671 45.455 4.15 0.00 31.96 2.57
2089 2412 0.464036 AAGCGATGTTCCGGATGCTA 59.536 50.000 4.15 0.00 31.41 3.49
2094 2417 1.218047 CCTGAAGCGATGTTCCGGA 59.782 57.895 0.00 0.00 33.74 5.14
2108 2431 4.722700 GCCCGCAGCCTTTCCTGA 62.723 66.667 0.00 0.00 34.77 3.86
2122 2445 1.338769 ACAATCACGGTGTAGAAGCCC 60.339 52.381 8.17 0.00 0.00 5.19
2129 2452 3.441163 GCGATCTTACAATCACGGTGTA 58.559 45.455 8.17 0.00 0.00 2.90
2175 2498 2.358737 CCCTGGACGTGGAAGCAC 60.359 66.667 0.00 0.00 0.00 4.40
2184 2507 2.486592 GGTGTAACATTTTCCCTGGACG 59.513 50.000 0.00 0.00 39.98 4.79
2340 2664 0.887836 CAGCAGAAGCAGGAACAGCA 60.888 55.000 0.00 0.00 45.86 4.41
2358 2682 4.094294 GCAATAACTGATGTTTCTACCGCA 59.906 41.667 0.00 0.00 37.59 5.69
2373 2697 6.266558 TGGGAACACAACATTAAGCAATAACT 59.733 34.615 0.00 0.00 33.40 2.24
2432 2760 0.172578 CATGCTTGGCACCTGTGATG 59.827 55.000 0.51 0.00 43.04 3.07
2442 3080 1.544724 TAAACAGGTCCATGCTTGGC 58.455 50.000 13.75 8.80 43.29 4.52
2462 3100 6.531948 GTCGAGAATACAATGCTACTCTTTGT 59.468 38.462 0.00 0.00 43.07 2.83
2463 3101 6.019479 GGTCGAGAATACAATGCTACTCTTTG 60.019 42.308 0.00 0.00 36.31 2.77
2467 3105 5.189659 AGGTCGAGAATACAATGCTACTC 57.810 43.478 0.00 0.00 0.00 2.59
2494 3132 3.525537 CATTTCTGAGGTGTATCAGCGT 58.474 45.455 0.00 0.00 45.25 5.07
2517 3354 4.148825 CCCTTCACCGGAGAGGCG 62.149 72.222 9.46 0.00 46.52 5.52
2526 3363 2.889045 GGTACCTTTTTCACCCTTCACC 59.111 50.000 4.06 0.00 0.00 4.02
2529 3366 4.072839 CTCTGGTACCTTTTTCACCCTTC 58.927 47.826 14.36 0.00 0.00 3.46
2530 3367 3.462205 ACTCTGGTACCTTTTTCACCCTT 59.538 43.478 14.36 0.00 0.00 3.95
2549 3386 6.473758 ACTCTTGTACTTTTTGGGGATACTC 58.526 40.000 0.00 0.00 37.88 2.59
2585 3422 7.062322 ACATTCAAGTCTATTGCCCATATGAA 58.938 34.615 3.65 0.00 0.00 2.57
2700 3582 0.029681 AGATGGCCACTATGACCCCT 60.030 55.000 8.16 0.00 0.00 4.79
2779 3662 5.614324 TTACAGAGGGAGTATGTTGGATG 57.386 43.478 0.00 0.00 31.40 3.51
2789 3672 8.808092 GCTCATATATTAGTTTACAGAGGGAGT 58.192 37.037 0.00 0.00 0.00 3.85
2790 3673 7.971168 CGCTCATATATTAGTTTACAGAGGGAG 59.029 40.741 0.00 0.00 36.14 4.30
2791 3674 7.450634 ACGCTCATATATTAGTTTACAGAGGGA 59.549 37.037 0.00 0.00 37.11 4.20
2793 3676 9.477484 AAACGCTCATATATTAGTTTACAGAGG 57.523 33.333 0.00 0.00 31.14 3.69
2805 3688 9.847706 CACTAGTGATCTAAACGCTCATATATT 57.152 33.333 18.45 0.00 0.00 1.28
2806 3689 9.232473 TCACTAGTGATCTAAACGCTCATATAT 57.768 33.333 21.74 0.00 34.14 0.86
2807 3690 8.617290 TCACTAGTGATCTAAACGCTCATATA 57.383 34.615 21.74 0.00 34.14 0.86
2808 3691 7.445707 TCTCACTAGTGATCTAAACGCTCATAT 59.554 37.037 25.35 0.00 39.13 1.78
2809 3692 6.766467 TCTCACTAGTGATCTAAACGCTCATA 59.234 38.462 25.35 0.00 39.13 2.15
2811 3694 4.941873 TCTCACTAGTGATCTAAACGCTCA 59.058 41.667 25.35 0.00 39.13 4.26
2812 3695 5.487153 TCTCACTAGTGATCTAAACGCTC 57.513 43.478 25.35 0.00 39.13 5.03
2813 3696 5.899120 TTCTCACTAGTGATCTAAACGCT 57.101 39.130 25.35 0.00 39.13 5.07
2814 3697 6.858993 CCTATTCTCACTAGTGATCTAAACGC 59.141 42.308 25.35 0.00 39.13 4.84
2815 3698 7.228906 TCCCTATTCTCACTAGTGATCTAAACG 59.771 40.741 25.35 12.25 39.13 3.60
2816 3699 8.466617 TCCCTATTCTCACTAGTGATCTAAAC 57.533 38.462 25.35 0.00 39.13 2.01
2817 3700 9.661954 ATTCCCTATTCTCACTAGTGATCTAAA 57.338 33.333 25.35 16.66 39.13 1.85
2821 3704 7.672239 ACCTATTCCCTATTCTCACTAGTGATC 59.328 40.741 25.35 0.00 39.13 2.92
2824 3707 7.604657 AACCTATTCCCTATTCTCACTAGTG 57.395 40.000 17.17 17.17 0.00 2.74
2825 3708 7.842887 GAACCTATTCCCTATTCTCACTAGT 57.157 40.000 0.00 0.00 0.00 2.57
2854 3846 2.076100 TCATGCTTAACGTGCTGGAAG 58.924 47.619 0.00 0.00 35.07 3.46
2888 3884 1.483827 TGGAGAGGATGCAAGCTGTAG 59.516 52.381 0.00 0.00 0.00 2.74
2945 3948 3.243359 TGGGCTTTGTTTCTTCCAGAT 57.757 42.857 0.00 0.00 0.00 2.90
2986 4019 2.617274 GCCGTTCCAGAGTGGTTGC 61.617 63.158 0.00 0.00 39.03 4.17
2987 4020 1.966451 GGCCGTTCCAGAGTGGTTG 60.966 63.158 0.00 0.00 39.03 3.77
2999 4032 0.392998 CTAGATGCAAGGTGGCCGTT 60.393 55.000 0.00 0.00 0.00 4.44
3046 4106 9.562583 TTCGGTTGATTGCTTTATTTATAACAC 57.437 29.630 0.00 0.00 0.00 3.32
3047 4107 9.781834 CTTCGGTTGATTGCTTTATTTATAACA 57.218 29.630 0.00 0.00 0.00 2.41
3048 4108 9.233232 CCTTCGGTTGATTGCTTTATTTATAAC 57.767 33.333 0.00 0.00 0.00 1.89
3099 4162 4.536065 GCATTGAAGATTGTGTCACGAAA 58.464 39.130 0.00 0.00 0.00 3.46
3108 4171 4.942761 ACAAAGTGGCATTGAAGATTGT 57.057 36.364 7.77 0.00 0.00 2.71
3112 4175 4.998671 TTCAACAAAGTGGCATTGAAGA 57.001 36.364 7.77 2.72 36.42 2.87
3121 4184 4.236935 GTGTATGGCATTCAACAAAGTGG 58.763 43.478 4.78 0.00 0.00 4.00
3131 4194 2.368439 TCAAGCTGGTGTATGGCATTC 58.632 47.619 4.78 0.00 0.00 2.67
3171 4234 1.645034 CTATATTCAGATGGGCGCCG 58.355 55.000 22.54 6.07 0.00 6.46
3189 4252 5.762179 TTGACTCCATCACAAATACTCCT 57.238 39.130 0.00 0.00 36.92 3.69
3190 4253 6.352516 AGATTGACTCCATCACAAATACTCC 58.647 40.000 0.00 0.00 36.92 3.85
3191 4254 7.044181 TGAGATTGACTCCATCACAAATACTC 58.956 38.462 0.00 0.00 44.34 2.59
3192 4255 6.950842 TGAGATTGACTCCATCACAAATACT 58.049 36.000 0.00 0.00 44.34 2.12
3193 4256 6.820656 ACTGAGATTGACTCCATCACAAATAC 59.179 38.462 0.00 0.00 44.34 1.89
3194 4257 6.820152 CACTGAGATTGACTCCATCACAAATA 59.180 38.462 0.00 0.00 44.34 1.40
3195 4258 5.646793 CACTGAGATTGACTCCATCACAAAT 59.353 40.000 0.00 0.00 44.34 2.32
3196 4259 4.999311 CACTGAGATTGACTCCATCACAAA 59.001 41.667 0.00 0.00 44.34 2.83
3205 4268 5.182950 TCAGAGAAGACACTGAGATTGACTC 59.817 44.000 0.00 0.00 45.11 3.36
3207 4270 5.384063 TCAGAGAAGACACTGAGATTGAC 57.616 43.478 0.00 0.00 38.43 3.18
3223 4289 8.424918 AGAAGTAGAAATCAACAACTTCAGAGA 58.575 33.333 14.02 0.00 45.38 3.10
3319 4385 9.736023 GTTCTAGAAGTCACAAACATCAAAATT 57.264 29.630 5.12 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.