Multiple sequence alignment - TraesCS7A01G104200

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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 TraesCS7A01G104200 chr7A 100.000 2738 0 0 1 2738 63473691 63470954 0.000000e+00 5057.0
1 TraesCS7A01G104200 chr7A 90.625 96 6 2 786 878 148496247 148496342 1.030000e-24 124.0
2 TraesCS7A01G104200 chr7A 88.421 95 8 2 2644 2738 63711434 63711343 8.010000e-21 111.0
3 TraesCS7A01G104200 chr7D 91.851 1129 54 18 877 1974 58886427 58885306 0.000000e+00 1541.0
4 TraesCS7A01G104200 chr7D 93.195 676 29 9 1 673 58887277 58886616 0.000000e+00 977.0
5 TraesCS7A01G104200 chr7D 95.455 154 3 2 636 789 58886578 58886429 2.720000e-60 243.0
6 TraesCS7A01G104200 chr7D 94.737 38 1 1 636 673 58886615 58886579 1.060000e-04 58.4
7 TraesCS7A01G104200 chr4A 90.777 618 38 8 1427 2029 676363373 676362760 0.000000e+00 808.0
8 TraesCS7A01G104200 chr4A 92.963 540 27 6 877 1416 676363997 676363469 0.000000e+00 776.0
9 TraesCS7A01G104200 chr4A 93.474 521 20 7 1595 2102 676169090 676168571 0.000000e+00 761.0
10 TraesCS7A01G104200 chr4A 86.130 447 53 7 13 454 676172686 676172244 8.870000e-130 473.0
11 TraesCS7A01G104200 chr4A 96.727 275 8 1 980 1254 676170241 676169968 8.940000e-125 457.0
12 TraesCS7A01G104200 chr4A 91.250 320 18 4 1258 1573 676169775 676169462 7.010000e-116 427.0
13 TraesCS7A01G104200 chr4A 85.294 374 47 7 13 381 676416021 676415651 1.990000e-101 379.0
14 TraesCS7A01G104200 chr4A 92.996 257 15 2 2099 2352 676167007 676166751 3.330000e-99 372.0
15 TraesCS7A01G104200 chr4A 88.934 244 20 5 379 616 676364385 676364143 7.410000e-76 294.0
16 TraesCS7A01G104200 chr4A 81.967 305 50 5 14 316 153257987 153257686 1.260000e-63 254.0
17 TraesCS7A01G104200 chr4A 93.600 125 3 4 666 789 676171215 676171095 6.020000e-42 182.0
18 TraesCS7A01G104200 chr4A 92.661 109 4 2 877 983 676171093 676170987 1.310000e-33 154.0
19 TraesCS7A01G104200 chr4A 92.308 104 4 2 686 789 676364098 676363999 7.900000e-31 145.0
20 TraesCS7A01G104200 chr4A 100.000 59 0 0 2510 2568 676166455 676166397 2.880000e-20 110.0
21 TraesCS7A01G104200 chrUn 93.858 521 18 7 1595 2102 244963135 244962616 0.000000e+00 773.0
22 TraesCS7A01G104200 chrUn 86.577 447 51 7 13 454 244966704 244966262 4.100000e-133 484.0
23 TraesCS7A01G104200 chrUn 96.364 275 9 1 980 1254 244964258 244963985 4.160000e-123 451.0
24 TraesCS7A01G104200 chrUn 91.250 320 18 4 1258 1573 244963820 244963507 7.010000e-116 427.0
25 TraesCS7A01G104200 chrUn 93.385 257 14 2 2099 2352 244961351 244961095 7.160000e-101 377.0
26 TraesCS7A01G104200 chrUn 93.600 125 3 4 666 789 244965232 244965112 6.020000e-42 182.0
27 TraesCS7A01G104200 chrUn 92.661 109 4 2 877 983 244965110 244965004 1.310000e-33 154.0
28 TraesCS7A01G104200 chrUn 100.000 59 0 0 2510 2568 244960799 244960741 2.880000e-20 110.0
29 TraesCS7A01G104200 chr4B 84.665 313 42 5 14 321 400701676 400701365 9.520000e-80 307.0
30 TraesCS7A01G104200 chr2D 83.333 324 49 5 1 322 317878949 317879269 7.410000e-76 294.0
31 TraesCS7A01G104200 chr4D 82.623 305 49 4 14 316 320026554 320026856 1.620000e-67 267.0
32 TraesCS7A01G104200 chr2A 81.029 311 56 3 13 322 474808389 474808081 7.570000e-61 244.0
33 TraesCS7A01G104200 chr2A 91.489 94 8 0 787 880 746607964 746608057 2.210000e-26 130.0
34 TraesCS7A01G104200 chr5D 93.333 90 5 1 786 875 484700905 484700817 6.150000e-27 132.0
35 TraesCS7A01G104200 chr1D 90.196 102 9 1 778 878 181632809 181632910 6.150000e-27 132.0
36 TraesCS7A01G104200 chr6D 92.308 91 5 2 787 875 274918258 274918168 7.960000e-26 128.0
37 TraesCS7A01G104200 chr5B 91.304 92 6 2 786 875 81530911 81530820 1.030000e-24 124.0
38 TraesCS7A01G104200 chr3D 89.130 92 7 2 786 875 587473752 587473842 8.010000e-21 111.0
39 TraesCS7A01G104200 chr3D 89.130 92 7 2 786 875 587473844 587473754 8.010000e-21 111.0
40 TraesCS7A01G104200 chr1B 89.655 87 9 0 787 873 400292005 400292091 8.010000e-21 111.0
41 TraesCS7A01G104200 chr1B 100.000 29 0 0 2415 2443 635503180 635503208 1.000000e-03 54.7
42 TraesCS7A01G104200 chr6A 80.412 97 10 4 2349 2444 319773227 319773315 6.330000e-07 65.8
43 TraesCS7A01G104200 chr6A 100.000 28 0 0 2637 2664 73656302 73656329 5.000000e-03 52.8
44 TraesCS7A01G104200 chr5A 94.737 38 1 1 2416 2452 544765713 544765750 1.060000e-04 58.4
45 TraesCS7A01G104200 chr5A 94.595 37 1 1 2417 2452 544787919 544787955 3.810000e-04 56.5
46 TraesCS7A01G104200 chr5A 94.444 36 1 1 2418 2452 544722060 544722095 1.000000e-03 54.7
47 TraesCS7A01G104200 chr3B 100.000 29 0 0 2417 2445 154005772 154005744 1.000000e-03 54.7
48 TraesCS7A01G104200 chr1A 100.000 29 0 0 2346 2374 370108220 370108248 1.000000e-03 54.7
49 TraesCS7A01G104200 chr3A 100.000 28 0 0 2416 2443 412799352 412799325 5.000000e-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 TraesCS7A01G104200 chr7A 63470954 63473691 2737 True 5057.00 5057 100.000000 1 2738 1 chr7A.!!$R1 2737
1 TraesCS7A01G104200 chr7D 58885306 58887277 1971 True 704.85 1541 93.809500 1 1974 4 chr7D.!!$R1 1973
2 TraesCS7A01G104200 chr4A 676362760 676364385 1625 True 505.75 808 91.245500 379 2029 4 chr4A.!!$R4 1650
3 TraesCS7A01G104200 chr4A 676166397 676172686 6289 True 367.00 761 93.354750 13 2568 8 chr4A.!!$R3 2555
4 TraesCS7A01G104200 chrUn 244960741 244966704 5963 True 369.75 773 93.461875 13 2568 8 chrUn.!!$R1 2555

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
120 123 0.108585 ACTCAAGGAAGAAGCGCCAA 59.891 50.0 2.29 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 4429 0.609957 TTCGAGTCCGAGGTAGCCAA 60.61 55.0 0.0 0.0 46.39 4.52 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
46 47 1.405821 CAGGAATCTACGTCCGAGCTT 59.594 52.381 0.00 0.00 40.36 3.74
48 49 1.597445 GGAATCTACGTCCGAGCTTCG 60.597 57.143 0.00 0.00 40.07 3.79
51 52 1.296722 CTACGTCCGAGCTTCGTCG 60.297 63.158 0.00 11.94 38.40 5.12
73 76 0.659427 TACATCTAGCCGGACGAACG 59.341 55.000 5.05 0.00 0.00 3.95
120 123 0.108585 ACTCAAGGAAGAAGCGCCAA 59.891 50.000 2.29 0.00 0.00 4.52
133 136 2.435938 GCCAACATTCGCCCGAGA 60.436 61.111 0.00 0.00 0.00 4.04
137 140 1.153823 AACATTCGCCCGAGAGTCG 60.154 57.895 0.00 0.00 40.07 4.18
184 188 2.424956 ACCTAAACTACTAACCGGAGCG 59.575 50.000 9.46 0.00 0.00 5.03
375 379 9.642327 TTGCAAACTACAATACGAGACTATTTA 57.358 29.630 0.00 0.00 0.00 1.40
796 1743 6.712179 ACTTCTTAATTAGTACTCCCTCCG 57.288 41.667 0.00 0.00 0.00 4.63
797 1744 6.193504 ACTTCTTAATTAGTACTCCCTCCGT 58.806 40.000 0.00 0.00 0.00 4.69
798 1745 6.666980 ACTTCTTAATTAGTACTCCCTCCGTT 59.333 38.462 0.00 0.00 0.00 4.44
799 1746 6.705863 TCTTAATTAGTACTCCCTCCGTTC 57.294 41.667 0.00 0.00 0.00 3.95
800 1747 6.430007 TCTTAATTAGTACTCCCTCCGTTCT 58.570 40.000 0.00 0.00 0.00 3.01
801 1748 6.320672 TCTTAATTAGTACTCCCTCCGTTCTG 59.679 42.308 0.00 0.00 0.00 3.02
802 1749 3.726557 TTAGTACTCCCTCCGTTCTGA 57.273 47.619 0.00 0.00 0.00 3.27
803 1750 2.599408 AGTACTCCCTCCGTTCTGAA 57.401 50.000 0.00 0.00 0.00 3.02
804 1751 3.103080 AGTACTCCCTCCGTTCTGAAT 57.897 47.619 0.00 0.00 0.00 2.57
805 1752 3.442076 AGTACTCCCTCCGTTCTGAATT 58.558 45.455 0.00 0.00 0.00 2.17
806 1753 4.607239 AGTACTCCCTCCGTTCTGAATTA 58.393 43.478 0.00 0.00 0.00 1.40
807 1754 3.889520 ACTCCCTCCGTTCTGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
808 1755 3.442076 ACTCCCTCCGTTCTGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
809 1756 3.838903 ACTCCCTCCGTTCTGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
810 1757 4.184629 CTCCCTCCGTTCTGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
811 1758 3.581332 TCCCTCCGTTCTGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
812 1759 3.933332 CCCTCCGTTCTGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
813 1760 4.562757 CCCTCCGTTCTGAATTACTTGTCA 60.563 45.833 0.00 0.00 0.00 3.58
814 1761 4.389077 CCTCCGTTCTGAATTACTTGTCAC 59.611 45.833 0.00 0.00 0.00 3.67
815 1762 4.951254 TCCGTTCTGAATTACTTGTCACA 58.049 39.130 0.00 0.00 0.00 3.58
816 1763 4.988540 TCCGTTCTGAATTACTTGTCACAG 59.011 41.667 0.00 0.00 0.00 3.66
817 1764 4.988540 CCGTTCTGAATTACTTGTCACAGA 59.011 41.667 0.00 0.00 33.53 3.41
818 1765 5.639506 CCGTTCTGAATTACTTGTCACAGAT 59.360 40.000 0.00 0.00 35.00 2.90
819 1766 6.811665 CCGTTCTGAATTACTTGTCACAGATA 59.188 38.462 0.00 0.00 35.00 1.98
820 1767 7.492669 CCGTTCTGAATTACTTGTCACAGATAT 59.507 37.037 0.00 0.00 35.00 1.63
821 1768 8.323854 CGTTCTGAATTACTTGTCACAGATATG 58.676 37.037 0.00 0.00 35.00 1.78
822 1769 8.607459 GTTCTGAATTACTTGTCACAGATATGG 58.393 37.037 0.00 0.00 35.00 2.74
823 1770 8.078060 TCTGAATTACTTGTCACAGATATGGA 57.922 34.615 0.00 0.00 31.02 3.41
824 1771 8.708378 TCTGAATTACTTGTCACAGATATGGAT 58.292 33.333 0.00 0.00 31.02 3.41
825 1772 8.667076 TGAATTACTTGTCACAGATATGGATG 57.333 34.615 0.00 0.00 0.00 3.51
826 1773 8.267183 TGAATTACTTGTCACAGATATGGATGT 58.733 33.333 0.00 0.00 0.00 3.06
827 1774 9.764363 GAATTACTTGTCACAGATATGGATGTA 57.236 33.333 0.00 0.00 0.00 2.29
829 1776 9.935241 ATTACTTGTCACAGATATGGATGTATC 57.065 33.333 0.00 0.00 0.00 2.24
830 1777 7.609097 ACTTGTCACAGATATGGATGTATCT 57.391 36.000 0.00 0.00 41.03 1.98
831 1778 8.712228 ACTTGTCACAGATATGGATGTATCTA 57.288 34.615 0.00 0.00 38.93 1.98
832 1779 8.801299 ACTTGTCACAGATATGGATGTATCTAG 58.199 37.037 0.00 0.00 38.93 2.43
833 1780 8.940397 TTGTCACAGATATGGATGTATCTAGA 57.060 34.615 0.00 0.00 38.93 2.43
834 1781 9.539194 TTGTCACAGATATGGATGTATCTAGAT 57.461 33.333 10.73 10.73 38.93 1.98
849 1796 8.748380 TGTATCTAGATACATTCATTTCTGCG 57.252 34.615 32.50 0.00 46.11 5.18
850 1797 8.576442 TGTATCTAGATACATTCATTTCTGCGA 58.424 33.333 32.50 12.04 46.11 5.10
851 1798 7.881643 ATCTAGATACATTCATTTCTGCGAC 57.118 36.000 2.53 0.00 0.00 5.19
852 1799 5.915196 TCTAGATACATTCATTTCTGCGACG 59.085 40.000 0.00 0.00 0.00 5.12
853 1800 4.682787 AGATACATTCATTTCTGCGACGA 58.317 39.130 0.00 0.00 0.00 4.20
854 1801 4.742167 AGATACATTCATTTCTGCGACGAG 59.258 41.667 0.00 0.00 0.00 4.18
855 1802 2.688507 ACATTCATTTCTGCGACGAGT 58.311 42.857 0.00 0.00 0.00 4.18
856 1803 3.845178 ACATTCATTTCTGCGACGAGTA 58.155 40.909 0.00 0.00 0.00 2.59
857 1804 4.242475 ACATTCATTTCTGCGACGAGTAA 58.758 39.130 0.00 0.00 0.00 2.24
858 1805 4.870426 ACATTCATTTCTGCGACGAGTAAT 59.130 37.500 0.00 0.00 0.00 1.89
859 1806 5.351465 ACATTCATTTCTGCGACGAGTAATT 59.649 36.000 0.00 0.00 0.00 1.40
860 1807 5.856126 TTCATTTCTGCGACGAGTAATTT 57.144 34.783 0.00 0.00 0.00 1.82
861 1808 5.203358 TCATTTCTGCGACGAGTAATTTG 57.797 39.130 0.00 0.00 0.00 2.32
862 1809 4.092821 TCATTTCTGCGACGAGTAATTTGG 59.907 41.667 0.00 0.00 0.00 3.28
863 1810 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
864 1811 3.306917 TCTGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
865 1812 2.991190 TCTGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
866 1813 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
867 1814 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
868 1815 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
869 1816 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
870 1817 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
871 1818 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
872 1819 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
873 1820 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
874 1821 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
875 1822 2.200373 AATTTGGAACGGAGGGAGTG 57.800 50.000 0.00 0.00 0.00 3.51
904 1851 8.470040 AATTTCAAATATTGCATGAGTGACAC 57.530 30.769 0.00 0.00 0.00 3.67
965 1914 1.202580 CCCCACCAACGCAAATCAAAA 60.203 47.619 0.00 0.00 0.00 2.44
1028 2727 1.134461 AGGTAGAAGCATGAGCAGCAG 60.134 52.381 0.00 0.00 45.49 4.24
1119 2818 0.616679 TAGTCGGAGGTTGGAAGGGG 60.617 60.000 0.00 0.00 0.00 4.79
1184 2883 2.203139 TGGTGACGTGCTTGGTGG 60.203 61.111 0.00 0.00 0.00 4.61
1204 2903 6.209986 TGGTGGGTATGGTAGATAATCGTTAG 59.790 42.308 0.00 0.00 0.00 2.34
1207 2906 7.811713 GTGGGTATGGTAGATAATCGTTAGTTC 59.188 40.741 0.00 0.00 0.00 3.01
1285 3176 7.626446 TCACGTGATGGAAATAATTTGTATCG 58.374 34.615 15.76 0.00 0.00 2.92
1346 3237 7.097192 TCTTGTTCTAGATCACTGCGTAATTT 58.903 34.615 2.89 0.00 0.00 1.82
1358 3249 8.722342 TCACTGCGTAATTTGAAATTTTAGTC 57.278 30.769 8.60 0.00 0.00 2.59
1361 3252 7.322699 ACTGCGTAATTTGAAATTTTAGTCACG 59.677 33.333 8.60 11.77 0.00 4.35
1373 3264 5.934935 TTTTAGTCACGGGAGAAATTGTC 57.065 39.130 0.00 0.00 0.00 3.18
1387 3278 2.078849 ATTGTCAGACGAACGATGCA 57.921 45.000 0.14 0.00 0.00 3.96
1388 3279 2.078849 TTGTCAGACGAACGATGCAT 57.921 45.000 0.00 0.00 0.00 3.96
1441 3417 6.784031 AGGCCCTTGTTATAAGATCCATAAG 58.216 40.000 0.00 0.00 0.00 1.73
1505 3489 1.825474 AGGAGTGTATGGAACTGACCG 59.175 52.381 0.00 0.00 0.00 4.79
1510 3494 2.735134 GTGTATGGAACTGACCGTGTTC 59.265 50.000 0.00 0.00 42.00 3.18
1539 3523 5.822519 TGATGCAGTGTTCAAGTATAATCCC 59.177 40.000 0.00 0.00 0.00 3.85
1558 3542 1.401552 CCAAGATGCATAACGTGGTGG 59.598 52.381 0.00 0.00 32.63 4.61
1560 3544 1.737838 AGATGCATAACGTGGTGGTG 58.262 50.000 0.00 0.00 0.00 4.17
1582 3566 5.586643 GTGGTGAATAAAGATGAGGAGTTCC 59.413 44.000 0.00 0.00 0.00 3.62
1593 3927 2.270527 GAGTTCCTCTGCAGGGCC 59.729 66.667 15.13 0.00 40.80 5.80
1730 4064 1.260297 TGAAGTTCACATCACAACGCG 59.740 47.619 3.53 3.53 0.00 6.01
1850 4190 2.427812 TGCCGATCCGTTGTAAGACATA 59.572 45.455 0.00 0.00 0.00 2.29
2072 4429 4.292186 AGCGCCATAATGATATTCCACT 57.708 40.909 2.29 0.00 0.00 4.00
2124 6049 1.594331 GTGCATATTCCCTCCGTTCC 58.406 55.000 0.00 0.00 0.00 3.62
2174 6099 7.129109 TCTAAATCAAACTTGCTTAGGTTCG 57.871 36.000 9.44 0.00 28.88 3.95
2194 6119 6.402226 GGTTCGACCAACTCTATGATGAAAAC 60.402 42.308 0.00 0.00 38.42 2.43
2261 6186 6.817765 TGTTTCTATGGACTTGATCAAACC 57.182 37.500 18.71 18.71 0.00 3.27
2286 6212 8.388103 CCAATACAAGTTTGTAGGATAAACTCG 58.612 37.037 10.18 0.00 44.98 4.18
2344 6272 3.307762 GGATGACAGGACAAAGCCTAGTT 60.308 47.826 0.00 0.00 36.22 2.24
2350 6278 4.137543 CAGGACAAAGCCTAGTTTCAACT 58.862 43.478 0.00 0.00 42.91 3.16
2351 6279 5.163237 ACAGGACAAAGCCTAGTTTCAACTA 60.163 40.000 0.00 0.00 40.37 2.24
2352 6280 5.179555 CAGGACAAAGCCTAGTTTCAACTAC 59.820 44.000 0.00 0.00 40.37 2.73
2353 6281 5.071923 AGGACAAAGCCTAGTTTCAACTACT 59.928 40.000 0.00 0.00 40.37 2.57
2354 6282 5.763698 GGACAAAGCCTAGTTTCAACTACTT 59.236 40.000 0.00 0.00 40.37 2.24
2355 6283 6.073167 GGACAAAGCCTAGTTTCAACTACTTC 60.073 42.308 0.00 0.00 40.37 3.01
2356 6284 5.763698 ACAAAGCCTAGTTTCAACTACTTCC 59.236 40.000 0.00 0.00 40.37 3.46
2357 6285 5.827326 AAGCCTAGTTTCAACTACTTCCT 57.173 39.130 0.00 0.00 40.37 3.36
2358 6286 5.408880 AGCCTAGTTTCAACTACTTCCTC 57.591 43.478 0.00 0.00 40.37 3.71
2359 6287 5.088026 AGCCTAGTTTCAACTACTTCCTCT 58.912 41.667 0.00 0.00 40.37 3.69
2360 6288 5.046950 AGCCTAGTTTCAACTACTTCCTCTG 60.047 44.000 0.00 0.00 40.37 3.35
2361 6289 5.279556 GCCTAGTTTCAACTACTTCCTCTGT 60.280 44.000 0.00 0.00 40.37 3.41
2362 6290 6.391537 CCTAGTTTCAACTACTTCCTCTGTC 58.608 44.000 0.00 0.00 40.37 3.51
2363 6291 6.209788 CCTAGTTTCAACTACTTCCTCTGTCT 59.790 42.308 0.00 0.00 40.37 3.41
2364 6292 6.091718 AGTTTCAACTACTTCCTCTGTCTC 57.908 41.667 0.00 0.00 37.52 3.36
2365 6293 5.598830 AGTTTCAACTACTTCCTCTGTCTCA 59.401 40.000 0.00 0.00 37.52 3.27
2366 6294 6.098409 AGTTTCAACTACTTCCTCTGTCTCAA 59.902 38.462 0.00 0.00 37.52 3.02
2367 6295 6.479972 TTCAACTACTTCCTCTGTCTCAAA 57.520 37.500 0.00 0.00 0.00 2.69
2368 6296 6.479972 TCAACTACTTCCTCTGTCTCAAAA 57.520 37.500 0.00 0.00 0.00 2.44
2369 6297 7.067496 TCAACTACTTCCTCTGTCTCAAAAT 57.933 36.000 0.00 0.00 0.00 1.82
2370 6298 8.190326 TCAACTACTTCCTCTGTCTCAAAATA 57.810 34.615 0.00 0.00 0.00 1.40
2371 6299 8.816894 TCAACTACTTCCTCTGTCTCAAAATAT 58.183 33.333 0.00 0.00 0.00 1.28
2380 6308 9.151471 TCCTCTGTCTCAAAATATAAAAGAACG 57.849 33.333 0.00 0.00 0.00 3.95
2381 6309 8.936864 CCTCTGTCTCAAAATATAAAAGAACGT 58.063 33.333 0.00 0.00 0.00 3.99
2413 6341 8.459911 ACTATACTAGTGCCAAAAGTGTTTTT 57.540 30.769 5.39 0.00 37.69 1.94
2414 6342 9.563748 ACTATACTAGTGCCAAAAGTGTTTTTA 57.436 29.630 5.39 0.00 37.69 1.52
2437 6365 9.899661 TTTAATTATATTATGGGACGGATGGAG 57.100 33.333 0.00 0.00 0.00 3.86
2450 6378 6.014840 GGGACGGATGGAGTAGTAAATTCATA 60.015 42.308 0.00 0.00 0.00 2.15
2476 6458 5.054390 TCTTGACCCAATAAATTTCGTGC 57.946 39.130 0.00 0.00 0.00 5.34
2479 6461 3.823873 TGACCCAATAAATTTCGTGCACT 59.176 39.130 16.19 0.00 0.00 4.40
2495 6477 1.141657 GCACTCCCATCAATCAGGCTA 59.858 52.381 0.00 0.00 0.00 3.93
2506 6488 3.067320 TCAATCAGGCTATGTGACGAGAG 59.933 47.826 0.00 0.00 0.00 3.20
2571 6725 9.959721 ACTCTAATTTAGTTTACCATGTGATGT 57.040 29.630 3.45 0.00 0.00 3.06
2573 6727 8.673711 TCTAATTTAGTTTACCATGTGATGTGC 58.326 33.333 3.45 0.00 0.00 4.57
2574 6728 5.637006 TTTAGTTTACCATGTGATGTGCC 57.363 39.130 0.00 0.00 0.00 5.01
2575 6729 3.153369 AGTTTACCATGTGATGTGCCA 57.847 42.857 0.00 0.00 0.00 4.92
2576 6730 3.700538 AGTTTACCATGTGATGTGCCAT 58.299 40.909 0.00 0.00 0.00 4.40
2577 6731 4.088634 AGTTTACCATGTGATGTGCCATT 58.911 39.130 0.00 0.00 0.00 3.16
2578 6732 4.158394 AGTTTACCATGTGATGTGCCATTC 59.842 41.667 0.00 0.00 0.00 2.67
2579 6733 2.519771 ACCATGTGATGTGCCATTCT 57.480 45.000 0.00 0.00 0.00 2.40
2580 6734 2.097036 ACCATGTGATGTGCCATTCTG 58.903 47.619 0.00 0.00 0.00 3.02
2581 6735 2.097036 CCATGTGATGTGCCATTCTGT 58.903 47.619 0.00 0.00 0.00 3.41
2582 6736 2.098607 CCATGTGATGTGCCATTCTGTC 59.901 50.000 0.00 0.00 0.00 3.51
2583 6737 2.865119 TGTGATGTGCCATTCTGTCT 57.135 45.000 0.00 0.00 0.00 3.41
2584 6738 2.429478 TGTGATGTGCCATTCTGTCTG 58.571 47.619 0.00 0.00 0.00 3.51
2585 6739 2.224597 TGTGATGTGCCATTCTGTCTGT 60.225 45.455 0.00 0.00 0.00 3.41
2586 6740 2.417933 GTGATGTGCCATTCTGTCTGTC 59.582 50.000 0.00 0.00 0.00 3.51
2587 6741 1.662629 GATGTGCCATTCTGTCTGTCG 59.337 52.381 0.00 0.00 0.00 4.35
2588 6742 0.678950 TGTGCCATTCTGTCTGTCGA 59.321 50.000 0.00 0.00 0.00 4.20
2589 6743 1.337167 TGTGCCATTCTGTCTGTCGAG 60.337 52.381 0.00 0.00 0.00 4.04
2590 6744 1.067565 GTGCCATTCTGTCTGTCGAGA 60.068 52.381 0.00 0.00 0.00 4.04
2591 6745 1.827344 TGCCATTCTGTCTGTCGAGAT 59.173 47.619 0.00 0.00 0.00 2.75
2592 6746 2.159184 TGCCATTCTGTCTGTCGAGATC 60.159 50.000 0.00 0.00 0.00 2.75
2593 6747 2.801342 GCCATTCTGTCTGTCGAGATCC 60.801 54.545 0.00 0.00 0.00 3.36
2594 6748 2.542618 CCATTCTGTCTGTCGAGATCCG 60.543 54.545 0.00 0.00 40.25 4.18
2595 6749 1.822506 TTCTGTCTGTCGAGATCCGT 58.177 50.000 0.00 0.00 39.75 4.69
2596 6750 2.685850 TCTGTCTGTCGAGATCCGTA 57.314 50.000 0.00 0.00 39.75 4.02
2597 6751 2.277969 TCTGTCTGTCGAGATCCGTAC 58.722 52.381 0.00 0.00 39.75 3.67
2598 6752 2.093606 TCTGTCTGTCGAGATCCGTACT 60.094 50.000 0.00 0.00 39.75 2.73
2599 6753 2.277969 TGTCTGTCGAGATCCGTACTC 58.722 52.381 0.00 0.00 39.75 2.59
2616 6770 6.140896 CGTACTCGGCTTACATATCATTTG 57.859 41.667 0.00 0.00 0.00 2.32
2617 6771 5.388475 CGTACTCGGCTTACATATCATTTGC 60.388 44.000 0.00 0.00 0.00 3.68
2618 6772 3.815401 ACTCGGCTTACATATCATTTGCC 59.185 43.478 0.00 0.00 35.94 4.52
2620 6774 2.933769 GGCTTACATATCATTTGCCGC 58.066 47.619 0.00 0.00 0.00 6.53
2621 6775 2.574322 GCTTACATATCATTTGCCGCG 58.426 47.619 0.00 0.00 0.00 6.46
2622 6776 2.223144 GCTTACATATCATTTGCCGCGA 59.777 45.455 8.23 0.00 0.00 5.87
2623 6777 3.120199 GCTTACATATCATTTGCCGCGAT 60.120 43.478 8.23 0.00 0.00 4.58
2624 6778 4.641954 CTTACATATCATTTGCCGCGATC 58.358 43.478 8.23 0.00 0.00 3.69
2625 6779 1.806542 ACATATCATTTGCCGCGATCC 59.193 47.619 8.23 0.00 0.00 3.36
2626 6780 1.131126 CATATCATTTGCCGCGATCCC 59.869 52.381 8.23 0.00 0.00 3.85
2627 6781 0.948623 TATCATTTGCCGCGATCCCG 60.949 55.000 8.23 0.00 39.16 5.14
2637 6791 4.406173 CGATCCCGCCGAGATCCG 62.406 72.222 2.88 0.00 37.45 4.18
2638 6792 3.296054 GATCCCGCCGAGATCCGT 61.296 66.667 0.00 0.00 35.16 4.69
2639 6793 1.970114 GATCCCGCCGAGATCCGTA 60.970 63.158 0.00 0.00 35.16 4.02
2640 6794 2.197643 GATCCCGCCGAGATCCGTAC 62.198 65.000 0.00 0.00 35.16 3.67
2641 6795 2.693896 ATCCCGCCGAGATCCGTACT 62.694 60.000 0.00 0.00 36.31 2.73
2642 6796 2.638154 CCGCCGAGATCCGTACTC 59.362 66.667 0.00 0.00 36.31 2.59
2656 6810 3.529634 CGTACTCGGCAAACATGAAAA 57.470 42.857 0.00 0.00 0.00 2.29
2657 6811 3.879427 CGTACTCGGCAAACATGAAAAA 58.121 40.909 0.00 0.00 0.00 1.94
2674 6828 2.713863 AAAACTCGGTAACCACCACA 57.286 45.000 0.00 0.00 46.14 4.17
2675 6829 2.713863 AAACTCGGTAACCACCACAA 57.286 45.000 0.00 0.00 46.14 3.33
2676 6830 2.943036 AACTCGGTAACCACCACAAT 57.057 45.000 0.00 0.00 46.14 2.71
2677 6831 2.943036 ACTCGGTAACCACCACAATT 57.057 45.000 0.00 0.00 46.14 2.32
2678 6832 3.217681 ACTCGGTAACCACCACAATTT 57.782 42.857 0.00 0.00 46.14 1.82
2679 6833 3.143728 ACTCGGTAACCACCACAATTTC 58.856 45.455 0.00 0.00 46.14 2.17
2680 6834 3.181448 ACTCGGTAACCACCACAATTTCT 60.181 43.478 0.00 0.00 46.14 2.52
2681 6835 3.404899 TCGGTAACCACCACAATTTCTC 58.595 45.455 0.00 0.00 46.14 2.87
2682 6836 2.486592 CGGTAACCACCACAATTTCTCC 59.513 50.000 0.00 0.00 46.14 3.71
2683 6837 3.492337 GGTAACCACCACAATTTCTCCA 58.508 45.455 0.00 0.00 45.04 3.86
2684 6838 3.506067 GGTAACCACCACAATTTCTCCAG 59.494 47.826 0.00 0.00 45.04 3.86
2685 6839 3.312736 AACCACCACAATTTCTCCAGT 57.687 42.857 0.00 0.00 0.00 4.00
2686 6840 4.447138 AACCACCACAATTTCTCCAGTA 57.553 40.909 0.00 0.00 0.00 2.74
2687 6841 4.021102 ACCACCACAATTTCTCCAGTAG 57.979 45.455 0.00 0.00 0.00 2.57
2688 6842 3.394606 ACCACCACAATTTCTCCAGTAGT 59.605 43.478 0.00 0.00 0.00 2.73
2689 6843 3.753272 CCACCACAATTTCTCCAGTAGTG 59.247 47.826 0.00 0.00 0.00 2.74
2690 6844 4.389374 CACCACAATTTCTCCAGTAGTGT 58.611 43.478 0.00 0.00 0.00 3.55
2691 6845 4.214119 CACCACAATTTCTCCAGTAGTGTG 59.786 45.833 0.00 0.00 35.72 3.82
2692 6846 3.753272 CCACAATTTCTCCAGTAGTGTGG 59.247 47.826 12.94 12.94 46.03 4.17
2693 6847 4.389374 CACAATTTCTCCAGTAGTGTGGT 58.611 43.478 0.00 0.00 38.88 4.16
2694 6848 5.512404 CCACAATTTCTCCAGTAGTGTGGTA 60.512 44.000 16.19 0.00 46.08 3.25
2695 6849 5.995282 CACAATTTCTCCAGTAGTGTGGTAA 59.005 40.000 0.00 0.00 38.88 2.85
2696 6850 6.147821 CACAATTTCTCCAGTAGTGTGGTAAG 59.852 42.308 0.00 0.00 38.88 2.34
2697 6851 6.183361 ACAATTTCTCCAGTAGTGTGGTAAGT 60.183 38.462 0.00 0.00 38.88 2.24
2698 6852 5.881923 TTTCTCCAGTAGTGTGGTAAGTT 57.118 39.130 0.00 0.00 38.88 2.66
2699 6853 4.866508 TCTCCAGTAGTGTGGTAAGTTG 57.133 45.455 0.00 0.00 38.88 3.16
2700 6854 4.220724 TCTCCAGTAGTGTGGTAAGTTGT 58.779 43.478 0.00 0.00 38.88 3.32
2701 6855 4.038763 TCTCCAGTAGTGTGGTAAGTTGTG 59.961 45.833 0.00 0.00 38.88 3.33
2702 6856 3.707611 TCCAGTAGTGTGGTAAGTTGTGT 59.292 43.478 0.00 0.00 38.88 3.72
2703 6857 4.894705 TCCAGTAGTGTGGTAAGTTGTGTA 59.105 41.667 0.00 0.00 38.88 2.90
2704 6858 4.986659 CCAGTAGTGTGGTAAGTTGTGTAC 59.013 45.833 0.00 0.00 32.32 2.90
2705 6859 5.221382 CCAGTAGTGTGGTAAGTTGTGTACT 60.221 44.000 0.00 0.00 33.71 2.73
2706 6860 8.775172 TCCAGTAGTGTGGTAAGTTGTGTACTT 61.775 40.741 0.00 0.00 42.04 2.24
2707 6861 6.200286 CAGTAGTGTGGTAAGTTGTGTACTTG 59.800 42.308 0.00 0.00 46.46 3.16
2708 6862 3.875134 AGTGTGGTAAGTTGTGTACTTGC 59.125 43.478 0.00 0.00 46.46 4.01
2720 6874 8.677148 AGTTGTGTACTTGCCTATAATTATGG 57.323 34.615 8.28 5.02 31.29 2.74
2721 6875 7.228706 AGTTGTGTACTTGCCTATAATTATGGC 59.771 37.037 22.11 22.11 46.26 4.40
2722 6876 6.837312 TGTGTACTTGCCTATAATTATGGCT 58.163 36.000 25.82 15.85 46.23 4.75
2723 6877 7.969004 TGTGTACTTGCCTATAATTATGGCTA 58.031 34.615 25.82 21.00 46.23 3.93
2724 6878 8.433599 TGTGTACTTGCCTATAATTATGGCTAA 58.566 33.333 25.82 19.88 46.23 3.09
2725 6879 8.936864 GTGTACTTGCCTATAATTATGGCTAAG 58.063 37.037 25.82 25.29 46.23 2.18
2726 6880 8.656806 TGTACTTGCCTATAATTATGGCTAAGT 58.343 33.333 28.67 28.67 46.23 2.24
2727 6881 9.503399 GTACTTGCCTATAATTATGGCTAAGTT 57.497 33.333 29.51 22.53 46.23 2.66
2728 6882 8.396272 ACTTGCCTATAATTATGGCTAAGTTG 57.604 34.615 25.82 15.76 46.23 3.16
2729 6883 8.217799 ACTTGCCTATAATTATGGCTAAGTTGA 58.782 33.333 25.82 11.51 46.23 3.18
2730 6884 9.236006 CTTGCCTATAATTATGGCTAAGTTGAT 57.764 33.333 25.82 0.00 46.23 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.328069 AGATGTAGTCGACGAAGCTCG 59.672 52.381 10.46 4.36 46.93 5.03
51 52 1.590932 TCGTCCGGCTAGATGTAGTC 58.409 55.000 0.00 0.00 0.00 2.59
73 76 2.028337 GCCTTCGATCCTCCTCGC 59.972 66.667 0.00 0.00 38.52 5.03
107 110 0.179189 CGAATGTTGGCGCTTCTTCC 60.179 55.000 7.64 0.00 0.00 3.46
133 136 1.545841 TAGTCCTCACATGTGCGACT 58.454 50.000 32.73 32.73 40.51 4.18
184 188 4.191015 GGGAATCCCGGTGCCTCC 62.191 72.222 0.90 0.17 32.13 4.30
298 302 1.907255 CTCGTTTTCCTCCCCTAACCT 59.093 52.381 0.00 0.00 0.00 3.50
375 379 5.410355 TCCTTTTAACAGGCTACACGTAT 57.590 39.130 2.52 0.00 33.35 3.06
729 1676 7.476540 TTGTTCCAAGATACAAGAGCTAGTA 57.523 36.000 0.00 0.00 31.15 1.82
730 1677 6.360370 TTGTTCCAAGATACAAGAGCTAGT 57.640 37.500 0.00 0.00 31.15 2.57
731 1678 7.550551 TGATTTGTTCCAAGATACAAGAGCTAG 59.449 37.037 0.00 0.00 35.83 3.42
789 1736 3.581332 ACAAGTAATTCAGAACGGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
790 1737 3.933332 GACAAGTAATTCAGAACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
791 1738 4.389077 GTGACAAGTAATTCAGAACGGAGG 59.611 45.833 0.00 0.00 0.00 4.30
792 1739 4.988540 TGTGACAAGTAATTCAGAACGGAG 59.011 41.667 0.00 0.00 0.00 4.63
793 1740 4.951254 TGTGACAAGTAATTCAGAACGGA 58.049 39.130 0.00 0.00 0.00 4.69
794 1741 4.988540 TCTGTGACAAGTAATTCAGAACGG 59.011 41.667 0.00 0.00 0.00 4.44
795 1742 6.712241 ATCTGTGACAAGTAATTCAGAACG 57.288 37.500 0.00 0.00 35.94 3.95
796 1743 8.607459 CCATATCTGTGACAAGTAATTCAGAAC 58.393 37.037 0.00 0.00 35.94 3.01
797 1744 8.539544 TCCATATCTGTGACAAGTAATTCAGAA 58.460 33.333 0.00 0.00 35.94 3.02
798 1745 8.078060 TCCATATCTGTGACAAGTAATTCAGA 57.922 34.615 0.00 0.00 36.58 3.27
799 1746 8.771766 CATCCATATCTGTGACAAGTAATTCAG 58.228 37.037 0.00 0.00 0.00 3.02
800 1747 8.267183 ACATCCATATCTGTGACAAGTAATTCA 58.733 33.333 0.00 0.00 0.00 2.57
801 1748 8.668510 ACATCCATATCTGTGACAAGTAATTC 57.331 34.615 0.00 0.00 0.00 2.17
803 1750 9.935241 GATACATCCATATCTGTGACAAGTAAT 57.065 33.333 0.00 0.00 0.00 1.89
804 1751 9.147732 AGATACATCCATATCTGTGACAAGTAA 57.852 33.333 0.00 0.00 39.87 2.24
805 1752 8.712228 AGATACATCCATATCTGTGACAAGTA 57.288 34.615 0.00 0.00 39.87 2.24
806 1753 7.609097 AGATACATCCATATCTGTGACAAGT 57.391 36.000 0.00 0.00 39.87 3.16
807 1754 9.018582 TCTAGATACATCCATATCTGTGACAAG 57.981 37.037 5.70 0.00 41.17 3.16
808 1755 8.940397 TCTAGATACATCCATATCTGTGACAA 57.060 34.615 5.70 0.00 41.17 3.18
825 1772 8.855279 GTCGCAGAAATGAATGTATCTAGATAC 58.145 37.037 28.75 28.75 40.69 2.24
826 1773 7.750903 CGTCGCAGAAATGAATGTATCTAGATA 59.249 37.037 8.44 8.44 39.69 1.98
827 1774 6.584184 CGTCGCAGAAATGAATGTATCTAGAT 59.416 38.462 10.73 10.73 39.69 1.98
828 1775 5.915196 CGTCGCAGAAATGAATGTATCTAGA 59.085 40.000 0.00 0.00 39.69 2.43
829 1776 5.915196 TCGTCGCAGAAATGAATGTATCTAG 59.085 40.000 0.00 0.00 39.69 2.43
830 1777 5.827666 TCGTCGCAGAAATGAATGTATCTA 58.172 37.500 0.00 0.00 39.69 1.98
831 1778 4.682787 TCGTCGCAGAAATGAATGTATCT 58.317 39.130 0.00 0.00 39.69 1.98
832 1779 4.504461 ACTCGTCGCAGAAATGAATGTATC 59.496 41.667 0.00 0.00 39.69 2.24
833 1780 4.433615 ACTCGTCGCAGAAATGAATGTAT 58.566 39.130 0.00 0.00 39.69 2.29
834 1781 3.845178 ACTCGTCGCAGAAATGAATGTA 58.155 40.909 0.00 0.00 39.69 2.29
835 1782 2.688507 ACTCGTCGCAGAAATGAATGT 58.311 42.857 0.00 0.00 39.69 2.71
836 1783 4.840401 TTACTCGTCGCAGAAATGAATG 57.160 40.909 0.00 0.00 39.69 2.67
837 1784 6.250819 CAAATTACTCGTCGCAGAAATGAAT 58.749 36.000 0.00 0.00 39.69 2.57
838 1785 5.390461 CCAAATTACTCGTCGCAGAAATGAA 60.390 40.000 0.00 0.00 39.69 2.57
839 1786 4.092821 CCAAATTACTCGTCGCAGAAATGA 59.907 41.667 0.00 0.00 39.69 2.57
840 1787 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
841 1788 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
842 1789 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
843 1790 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
844 1791 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
845 1792 2.222508 CGTTCCAAATTACTCGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
846 1793 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
847 1794 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
848 1795 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
849 1796 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
850 1797 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
851 1798 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
852 1799 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
853 1800 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
854 1801 3.007635 CACTCCCTCCGTTCCAAATTAC 58.992 50.000 0.00 0.00 0.00 1.89
855 1802 2.026636 CCACTCCCTCCGTTCCAAATTA 60.027 50.000 0.00 0.00 0.00 1.40
856 1803 1.271926 CCACTCCCTCCGTTCCAAATT 60.272 52.381 0.00 0.00 0.00 1.82
857 1804 0.328258 CCACTCCCTCCGTTCCAAAT 59.672 55.000 0.00 0.00 0.00 2.32
858 1805 1.057851 ACCACTCCCTCCGTTCCAAA 61.058 55.000 0.00 0.00 0.00 3.28
859 1806 1.057851 AACCACTCCCTCCGTTCCAA 61.058 55.000 0.00 0.00 0.00 3.53
860 1807 0.178926 TAACCACTCCCTCCGTTCCA 60.179 55.000 0.00 0.00 0.00 3.53
861 1808 0.978907 TTAACCACTCCCTCCGTTCC 59.021 55.000 0.00 0.00 0.00 3.62
862 1809 3.345508 AATTAACCACTCCCTCCGTTC 57.654 47.619 0.00 0.00 0.00 3.95
863 1810 3.073356 TGAAATTAACCACTCCCTCCGTT 59.927 43.478 0.00 0.00 0.00 4.44
864 1811 2.640826 TGAAATTAACCACTCCCTCCGT 59.359 45.455 0.00 0.00 0.00 4.69
865 1812 3.343941 TGAAATTAACCACTCCCTCCG 57.656 47.619 0.00 0.00 0.00 4.63
866 1813 7.898014 ATATTTGAAATTAACCACTCCCTCC 57.102 36.000 0.00 0.00 0.00 4.30
867 1814 7.706607 GCAATATTTGAAATTAACCACTCCCTC 59.293 37.037 0.00 0.00 0.00 4.30
868 1815 7.180051 TGCAATATTTGAAATTAACCACTCCCT 59.820 33.333 0.00 0.00 0.00 4.20
869 1816 7.327214 TGCAATATTTGAAATTAACCACTCCC 58.673 34.615 0.00 0.00 0.00 4.30
870 1817 8.819974 CATGCAATATTTGAAATTAACCACTCC 58.180 33.333 0.00 0.00 0.00 3.85
871 1818 9.585099 TCATGCAATATTTGAAATTAACCACTC 57.415 29.630 0.00 0.00 0.00 3.51
872 1819 9.590451 CTCATGCAATATTTGAAATTAACCACT 57.410 29.630 0.00 0.00 0.00 4.00
873 1820 9.369904 ACTCATGCAATATTTGAAATTAACCAC 57.630 29.630 0.00 0.00 0.00 4.16
874 1821 9.368674 CACTCATGCAATATTTGAAATTAACCA 57.631 29.630 0.00 0.00 0.00 3.67
875 1822 9.585099 TCACTCATGCAATATTTGAAATTAACC 57.415 29.630 0.00 0.00 0.00 2.85
965 1914 6.346477 TCACTACTAAAGCTCACAACTGAT 57.654 37.500 0.00 0.00 0.00 2.90
1119 2818 1.613437 CCATGAACACCAAAGGTCCAC 59.387 52.381 0.00 0.00 31.02 4.02
1184 2883 8.790718 TCAGAACTAACGATTATCTACCATACC 58.209 37.037 0.00 0.00 0.00 2.73
1204 2903 5.224888 ACAAACATTCATGTGCATCAGAAC 58.775 37.500 0.00 0.00 41.61 3.01
1207 2906 5.692654 TGAAACAAACATTCATGTGCATCAG 59.307 36.000 0.00 0.00 41.61 2.90
1285 3176 1.055040 AGGACTCCAGATGCTATGGC 58.945 55.000 0.00 0.00 37.76 4.40
1336 3227 7.201232 CCGTGACTAAAATTTCAAATTACGCAG 60.201 37.037 7.71 1.51 0.00 5.18
1346 3237 7.013846 ACAATTTCTCCCGTGACTAAAATTTCA 59.986 33.333 0.00 0.00 0.00 2.69
1358 3249 1.726791 CGTCTGACAATTTCTCCCGTG 59.273 52.381 8.73 0.00 0.00 4.94
1361 3252 2.412089 CGTTCGTCTGACAATTTCTCCC 59.588 50.000 8.73 0.00 0.00 4.30
1373 3264 5.387855 GCTCTAATAATGCATCGTTCGTCTG 60.388 44.000 0.00 0.00 0.00 3.51
1387 3278 9.265901 GATTAGTGTGTCATGTGCTCTAATAAT 57.734 33.333 14.57 5.96 32.52 1.28
1388 3279 8.257306 TGATTAGTGTGTCATGTGCTCTAATAA 58.743 33.333 14.57 9.33 32.52 1.40
1441 3417 5.886474 AGGGCCTAGTAATTAAAGAACAAGC 59.114 40.000 2.82 0.00 0.00 4.01
1457 3433 2.736670 AGCATTAAACCAGGGCCTAG 57.263 50.000 5.28 0.00 0.00 3.02
1510 3494 2.559668 ACTTGAACACTGCATCAATGGG 59.440 45.455 1.13 0.00 35.20 4.00
1539 3523 2.083774 ACCACCACGTTATGCATCTTG 58.916 47.619 0.19 0.00 0.00 3.02
1558 3542 5.586643 GGAACTCCTCATCTTTATTCACCAC 59.413 44.000 0.00 0.00 0.00 4.16
1560 3544 5.995446 AGGAACTCCTCATCTTTATTCACC 58.005 41.667 0.00 0.00 44.77 4.02
1645 3979 1.692173 TACATCGGGCCTTGGCTACC 61.692 60.000 11.71 4.35 0.00 3.18
1788 4128 9.671279 AATTTGGATTTCCTTCCATTATTTGAC 57.329 29.630 0.00 0.00 45.08 3.18
1850 4190 1.098050 GTGCCGCCTCATTTTCAGAT 58.902 50.000 0.00 0.00 0.00 2.90
1871 4217 3.120321 AGAAATACACGCACAACCTGA 57.880 42.857 0.00 0.00 0.00 3.86
2072 4429 0.609957 TTCGAGTCCGAGGTAGCCAA 60.610 55.000 0.00 0.00 46.39 4.52
2233 6158 9.605275 TTTGATCAAGTCCATAGAAACATCTAG 57.395 33.333 8.41 0.00 0.00 2.43
2261 6186 9.146984 TCGAGTTTATCCTACAAACTTGTATTG 57.853 33.333 12.57 0.00 44.24 1.90
2280 6206 8.515414 CCTCTCTTCCAAATTAATTTCGAGTTT 58.485 33.333 10.53 0.00 0.00 2.66
2286 6212 5.125578 ACGGCCTCTCTTCCAAATTAATTTC 59.874 40.000 10.53 0.00 0.00 2.17
2292 6218 2.304761 TGTACGGCCTCTCTTCCAAATT 59.695 45.455 0.00 0.00 0.00 1.82
2293 6219 1.906574 TGTACGGCCTCTCTTCCAAAT 59.093 47.619 0.00 0.00 0.00 2.32
2344 6272 6.479972 TTTGAGACAGAGGAAGTAGTTGAA 57.520 37.500 0.00 0.00 0.00 2.69
2354 6282 9.151471 CGTTCTTTTATATTTTGAGACAGAGGA 57.849 33.333 0.00 0.00 0.00 3.71
2355 6283 8.936864 ACGTTCTTTTATATTTTGAGACAGAGG 58.063 33.333 0.00 0.00 0.00 3.69
2388 6316 8.459911 AAAAACACTTTTGGCACTAGTATAGT 57.540 30.769 0.00 0.00 42.15 2.12
2411 6339 9.899661 CTCCATCCGTCCCATAATATAATTAAA 57.100 33.333 0.00 0.00 0.00 1.52
2412 6340 9.053472 ACTCCATCCGTCCCATAATATAATTAA 57.947 33.333 0.00 0.00 0.00 1.40
2413 6341 8.618240 ACTCCATCCGTCCCATAATATAATTA 57.382 34.615 0.00 0.00 0.00 1.40
2414 6342 7.510675 ACTCCATCCGTCCCATAATATAATT 57.489 36.000 0.00 0.00 0.00 1.40
2415 6343 7.844779 ACTACTCCATCCGTCCCATAATATAAT 59.155 37.037 0.00 0.00 0.00 1.28
2416 6344 7.186972 ACTACTCCATCCGTCCCATAATATAA 58.813 38.462 0.00 0.00 0.00 0.98
2417 6345 6.738635 ACTACTCCATCCGTCCCATAATATA 58.261 40.000 0.00 0.00 0.00 0.86
2418 6346 5.590818 ACTACTCCATCCGTCCCATAATAT 58.409 41.667 0.00 0.00 0.00 1.28
2419 6347 5.006896 ACTACTCCATCCGTCCCATAATA 57.993 43.478 0.00 0.00 0.00 0.98
2420 6348 3.858135 ACTACTCCATCCGTCCCATAAT 58.142 45.455 0.00 0.00 0.00 1.28
2421 6349 3.323774 ACTACTCCATCCGTCCCATAA 57.676 47.619 0.00 0.00 0.00 1.90
2422 6350 4.458256 TTACTACTCCATCCGTCCCATA 57.542 45.455 0.00 0.00 0.00 2.74
2423 6351 3.323774 TTACTACTCCATCCGTCCCAT 57.676 47.619 0.00 0.00 0.00 4.00
2424 6352 2.832643 TTACTACTCCATCCGTCCCA 57.167 50.000 0.00 0.00 0.00 4.37
2425 6353 4.100498 TGAATTTACTACTCCATCCGTCCC 59.900 45.833 0.00 0.00 0.00 4.46
2426 6354 5.272283 TGAATTTACTACTCCATCCGTCC 57.728 43.478 0.00 0.00 0.00 4.79
2427 6355 8.762426 GTTTATGAATTTACTACTCCATCCGTC 58.238 37.037 0.00 0.00 0.00 4.79
2428 6356 8.483758 AGTTTATGAATTTACTACTCCATCCGT 58.516 33.333 0.00 0.00 0.00 4.69
2429 6357 8.888579 AGTTTATGAATTTACTACTCCATCCG 57.111 34.615 0.00 0.00 0.00 4.18
2436 6364 9.668497 GGGTCAAGAGTTTATGAATTTACTACT 57.332 33.333 0.00 0.00 0.00 2.57
2437 6365 9.444600 TGGGTCAAGAGTTTATGAATTTACTAC 57.555 33.333 0.00 0.00 0.00 2.73
2450 6378 7.145323 CACGAAATTTATTGGGTCAAGAGTTT 58.855 34.615 0.00 0.00 0.00 2.66
2476 6458 3.181447 ACATAGCCTGATTGATGGGAGTG 60.181 47.826 0.00 0.00 0.00 3.51
2479 6461 3.047857 TCACATAGCCTGATTGATGGGA 58.952 45.455 0.00 0.00 29.28 4.37
2506 6488 3.326747 AGAATGTTGAGTGCCGAGTTAC 58.673 45.455 0.00 0.00 0.00 2.50
2573 6727 2.542618 CGGATCTCGACAGACAGAATGG 60.543 54.545 0.00 0.00 40.76 3.16
2574 6728 2.098280 ACGGATCTCGACAGACAGAATG 59.902 50.000 10.05 0.00 42.43 2.67
2575 6729 2.370349 ACGGATCTCGACAGACAGAAT 58.630 47.619 10.05 0.00 42.43 2.40
2576 6730 1.822506 ACGGATCTCGACAGACAGAA 58.177 50.000 10.05 0.00 42.43 3.02
2577 6731 2.093606 AGTACGGATCTCGACAGACAGA 60.094 50.000 10.05 0.00 42.43 3.41
2578 6732 2.281517 AGTACGGATCTCGACAGACAG 58.718 52.381 10.05 0.00 42.43 3.51
2579 6733 2.277969 GAGTACGGATCTCGACAGACA 58.722 52.381 10.05 0.00 42.43 3.41
2593 6747 5.388475 GCAAATGATATGTAAGCCGAGTACG 60.388 44.000 0.00 0.00 39.43 3.67
2594 6748 5.107065 GGCAAATGATATGTAAGCCGAGTAC 60.107 44.000 0.00 0.00 0.00 2.73
2595 6749 4.994852 GGCAAATGATATGTAAGCCGAGTA 59.005 41.667 0.00 0.00 0.00 2.59
2596 6750 3.815401 GGCAAATGATATGTAAGCCGAGT 59.185 43.478 0.00 0.00 0.00 4.18
2597 6751 4.410492 GGCAAATGATATGTAAGCCGAG 57.590 45.455 0.00 0.00 0.00 4.63
2600 6754 2.665519 CGCGGCAAATGATATGTAAGCC 60.666 50.000 0.00 0.00 37.32 4.35
2601 6755 2.223144 TCGCGGCAAATGATATGTAAGC 59.777 45.455 6.13 0.00 0.00 3.09
2602 6756 4.436050 GGATCGCGGCAAATGATATGTAAG 60.436 45.833 6.13 0.00 0.00 2.34
2603 6757 3.435327 GGATCGCGGCAAATGATATGTAA 59.565 43.478 6.13 0.00 0.00 2.41
2604 6758 3.000041 GGATCGCGGCAAATGATATGTA 59.000 45.455 6.13 0.00 0.00 2.29
2605 6759 1.806542 GGATCGCGGCAAATGATATGT 59.193 47.619 6.13 0.00 0.00 2.29
2606 6760 1.131126 GGGATCGCGGCAAATGATATG 59.869 52.381 6.13 0.00 0.00 1.78
2607 6761 1.453155 GGGATCGCGGCAAATGATAT 58.547 50.000 6.13 0.00 0.00 1.63
2608 6762 0.948623 CGGGATCGCGGCAAATGATA 60.949 55.000 23.27 0.00 0.00 2.15
2609 6763 2.253758 CGGGATCGCGGCAAATGAT 61.254 57.895 23.27 0.00 0.00 2.45
2610 6764 2.894879 CGGGATCGCGGCAAATGA 60.895 61.111 23.27 0.00 0.00 2.57
2620 6774 4.406173 CGGATCTCGGCGGGATCG 62.406 72.222 35.52 27.74 40.11 3.69
2621 6775 1.970114 TACGGATCTCGGCGGGATC 60.970 63.158 35.60 35.60 44.45 3.36
2622 6776 2.114625 TACGGATCTCGGCGGGAT 59.885 61.111 24.41 24.41 44.45 3.85
2623 6777 2.903855 GTACGGATCTCGGCGGGA 60.904 66.667 13.85 13.85 44.45 5.14
2624 6778 2.905807 GAGTACGGATCTCGGCGGG 61.906 68.421 7.21 2.41 44.45 6.13
2625 6779 2.638154 GAGTACGGATCTCGGCGG 59.362 66.667 7.21 0.00 44.45 6.13
2636 6790 3.529634 TTTTCATGTTTGCCGAGTACG 57.470 42.857 0.00 0.00 39.43 3.67
2663 6817 4.142038 ACTGGAGAAATTGTGGTGGTTAC 58.858 43.478 0.00 0.00 0.00 2.50
2664 6818 4.447138 ACTGGAGAAATTGTGGTGGTTA 57.553 40.909 0.00 0.00 0.00 2.85
2665 6819 3.312736 ACTGGAGAAATTGTGGTGGTT 57.687 42.857 0.00 0.00 0.00 3.67
2666 6820 3.394606 ACTACTGGAGAAATTGTGGTGGT 59.605 43.478 0.00 0.00 0.00 4.16
2667 6821 3.753272 CACTACTGGAGAAATTGTGGTGG 59.247 47.826 0.00 0.00 37.94 4.61
2668 6822 4.214119 CACACTACTGGAGAAATTGTGGTG 59.786 45.833 0.00 0.00 43.97 4.17
2669 6823 4.389374 CACACTACTGGAGAAATTGTGGT 58.611 43.478 0.00 0.00 31.29 4.16
2670 6824 3.753272 CCACACTACTGGAGAAATTGTGG 59.247 47.826 11.64 11.64 44.75 4.17
2671 6825 4.389374 ACCACACTACTGGAGAAATTGTG 58.611 43.478 0.00 0.00 35.04 3.33
2672 6826 4.706842 ACCACACTACTGGAGAAATTGT 57.293 40.909 0.00 0.00 35.04 2.71
2673 6827 6.231211 ACTTACCACACTACTGGAGAAATTG 58.769 40.000 0.00 0.00 35.04 2.32
2674 6828 6.435292 ACTTACCACACTACTGGAGAAATT 57.565 37.500 0.00 0.00 35.04 1.82
2675 6829 6.183361 ACAACTTACCACACTACTGGAGAAAT 60.183 38.462 0.00 0.00 35.04 2.17
2676 6830 5.129815 ACAACTTACCACACTACTGGAGAAA 59.870 40.000 0.00 0.00 35.04 2.52
2677 6831 4.652421 ACAACTTACCACACTACTGGAGAA 59.348 41.667 0.00 0.00 35.04 2.87
2678 6832 4.038763 CACAACTTACCACACTACTGGAGA 59.961 45.833 0.00 0.00 35.04 3.71
2679 6833 4.202223 ACACAACTTACCACACTACTGGAG 60.202 45.833 0.00 0.00 35.04 3.86
2680 6834 3.707611 ACACAACTTACCACACTACTGGA 59.292 43.478 0.00 0.00 35.04 3.86
2681 6835 4.067972 ACACAACTTACCACACTACTGG 57.932 45.455 0.00 0.00 37.33 4.00
2682 6836 5.839621 AGTACACAACTTACCACACTACTG 58.160 41.667 0.00 0.00 33.35 2.74
2683 6837 6.475596 AAGTACACAACTTACCACACTACT 57.524 37.500 0.00 0.00 46.85 2.57
2695 6849 8.677148 CCATAATTATAGGCAAGTACACAACT 57.323 34.615 0.00 0.00 41.49 3.16


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

AutoCloner maintained by Alex Coulton.