Multiple sequence alignment - TraesCS5B01G057000

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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 TraesCS5B01G057000 chr5B 100.000 5554 0 0 1 5554 63269332 63274885 0.000000e+00 10257.0
1 TraesCS5B01G057000 chr5B 96.768 1578 50 1 2164 3741 683345293 683346869 0.000000e+00 2630.0
2 TraesCS5B01G057000 chr5B 95.693 743 31 1 3740 4481 694580358 694581100 0.000000e+00 1194.0
3 TraesCS5B01G057000 chr5B 84.900 702 98 6 4496 5193 63297389 63298086 0.000000e+00 702.0
4 TraesCS5B01G057000 chr5B 92.857 252 18 0 2165 2416 683350267 683350518 3.160000e-97 366.0
5 TraesCS5B01G057000 chr5B 80.422 332 62 1 1001 1329 63289647 63289978 3.320000e-62 250.0
6 TraesCS5B01G057000 chr5B 100.000 70 0 0 5485 5554 362948304 362948373 4.520000e-26 130.0
7 TraesCS5B01G057000 chr5B 80.620 129 12 10 127 254 63284401 63284517 2.760000e-13 87.9
8 TraesCS5B01G057000 chr1B 98.288 1577 27 0 2165 3741 635846385 635847961 0.000000e+00 2763.0
9 TraesCS5B01G057000 chr1B 98.016 252 5 0 2165 2416 635851361 635851612 6.610000e-119 438.0
10 TraesCS5B01G057000 chr5D 92.899 1887 86 18 1 1851 58137994 58139868 0.000000e+00 2699.0
11 TraesCS5B01G057000 chr5D 95.620 936 34 3 4483 5413 58141629 58142562 0.000000e+00 1495.0
12 TraesCS5B01G057000 chr5D 86.730 942 93 19 4485 5416 58154835 58155754 0.000000e+00 1018.0
13 TraesCS5B01G057000 chr5D 87.385 761 88 4 4568 5320 58149059 58149819 0.000000e+00 867.0
14 TraesCS5B01G057000 chr5D 85.201 696 95 6 4496 5187 58229543 58230234 0.000000e+00 708.0
15 TraesCS5B01G057000 chr5D 85.424 295 13 12 1897 2165 58140510 58140800 4.240000e-71 279.0
16 TraesCS5B01G057000 chr5D 81.050 343 61 2 991 1329 58226903 58227245 2.550000e-68 270.0
17 TraesCS5B01G057000 chr5D 73.388 605 123 22 1217 1794 58147185 58147778 2.040000e-44 191.0
18 TraesCS5B01G057000 chrUn 96.891 1576 47 1 2165 3740 31476514 31474941 0.000000e+00 2638.0
19 TraesCS5B01G057000 chrUn 95.964 223 9 0 2194 2416 31457683 31457461 4.090000e-96 363.0
20 TraesCS5B01G057000 chrUn 100.000 43 0 0 5512 5554 2009608 2009566 4.610000e-11 80.5
21 TraesCS5B01G057000 chr6B 96.703 1577 52 0 2165 3741 171391926 171390350 0.000000e+00 2625.0
22 TraesCS5B01G057000 chr6B 95.828 743 30 1 3740 4481 11265132 11264390 0.000000e+00 1199.0
23 TraesCS5B01G057000 chr6B 95.565 744 31 2 3740 4482 671464723 671465465 0.000000e+00 1190.0
24 TraesCS5B01G057000 chr6B 95.321 748 33 2 3735 4481 62837609 62836863 0.000000e+00 1186.0
25 TraesCS5B01G057000 chr3B 94.047 1579 80 9 2165 3741 752249835 752251401 0.000000e+00 2383.0
26 TraesCS5B01G057000 chr3B 96.366 743 26 1 3741 4482 50424966 50424224 0.000000e+00 1221.0
27 TraesCS5B01G057000 chr3B 96.081 740 29 0 3742 4481 809382144 809382883 0.000000e+00 1206.0
28 TraesCS5B01G057000 chr3B 91.163 215 13 5 2165 2377 752254803 752255013 2.530000e-73 287.0
29 TraesCS5B01G057000 chr3B 100.000 59 0 0 5409 5467 411273279 411273221 5.880000e-20 110.0
30 TraesCS5B01G057000 chr7D 90.561 1568 129 14 2180 3741 58854622 58853068 0.000000e+00 2058.0
31 TraesCS5B01G057000 chr7D 90.404 198 17 2 2165 2360 58849650 58849453 5.520000e-65 259.0
32 TraesCS5B01G057000 chr7D 72.549 459 98 25 4598 5039 393105981 393105534 2.100000e-24 124.0
33 TraesCS5B01G057000 chr2D 90.259 1581 137 12 2165 3741 429738043 429736476 0.000000e+00 2050.0
34 TraesCS5B01G057000 chr4D 89.646 1584 143 13 2164 3741 388854495 388856063 0.000000e+00 1997.0
35 TraesCS5B01G057000 chr3A 88.868 1581 159 11 2165 3741 710622080 710623647 0.000000e+00 1929.0
36 TraesCS5B01G057000 chr3A 100.000 59 0 0 5409 5467 422331970 422331912 5.880000e-20 110.0
37 TraesCS5B01G057000 chr2A 89.560 1159 108 8 2159 3315 737747402 737748549 0.000000e+00 1458.0
38 TraesCS5B01G057000 chr2A 100.000 85 0 0 5470 5554 771611009 771611093 2.070000e-34 158.0
39 TraesCS5B01G057000 chr7B 95.828 743 30 1 3740 4481 66066893 66067635 0.000000e+00 1199.0
40 TraesCS5B01G057000 chr7B 95.693 743 30 2 3740 4481 677076836 677077577 0.000000e+00 1194.0
41 TraesCS5B01G057000 chr7B 100.000 43 0 0 5512 5554 748190683 748190641 4.610000e-11 80.5
42 TraesCS5B01G057000 chr1D 95.699 744 30 2 3740 4481 209775073 209775816 0.000000e+00 1195.0
43 TraesCS5B01G057000 chr1D 100.000 43 0 0 5512 5554 474291675 474291717 4.610000e-11 80.5
44 TraesCS5B01G057000 chr5A 83.886 875 131 6 4538 5406 46502685 46503555 0.000000e+00 826.0
45 TraesCS5B01G057000 chr5A 81.538 195 21 11 129 315 46500081 46500268 4.480000e-31 147.0
46 TraesCS5B01G057000 chr2B 100.000 85 0 0 5470 5554 199159727 199159811 2.070000e-34 158.0
47 TraesCS5B01G057000 chr2B 100.000 51 0 0 5504 5554 528837741 528837691 1.650000e-15 95.3
48 TraesCS5B01G057000 chr2B 100.000 43 0 0 5512 5554 727722929 727722971 4.610000e-11 80.5
49 TraesCS5B01G057000 chr4A 88.618 123 11 1 1664 1783 605575793 605575671 4.480000e-31 147.0
50 TraesCS5B01G057000 chr3D 98.305 59 1 0 5409 5467 309999568 309999626 2.740000e-18 104.0
51 TraesCS5B01G057000 chr6D 97.674 43 1 0 5512 5554 292814723 292814681 2.150000e-09 75.0
52 TraesCS5B01G057000 chr7A 95.122 41 2 0 596 636 469331149 469331109 1.290000e-06 65.8


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 TraesCS5B01G057000 chr5B 63269332 63274885 5553 False 10257.0 10257 100.000000 1 5554 1 chr5B.!!$F1 5553
1 TraesCS5B01G057000 chr5B 683345293 683350518 5225 False 1498.0 2630 94.812500 2164 3741 2 chr5B.!!$F7 1577
2 TraesCS5B01G057000 chr5B 694580358 694581100 742 False 1194.0 1194 95.693000 3740 4481 1 chr5B.!!$F6 741
3 TraesCS5B01G057000 chr5B 63297389 63298086 697 False 702.0 702 84.900000 4496 5193 1 chr5B.!!$F4 697
4 TraesCS5B01G057000 chr1B 635846385 635851612 5227 False 1600.5 2763 98.152000 2165 3741 2 chr1B.!!$F1 1576
5 TraesCS5B01G057000 chr5D 58137994 58142562 4568 False 1491.0 2699 91.314333 1 5413 3 chr5D.!!$F2 5412
6 TraesCS5B01G057000 chr5D 58154835 58155754 919 False 1018.0 1018 86.730000 4485 5416 1 chr5D.!!$F1 931
7 TraesCS5B01G057000 chr5D 58147185 58149819 2634 False 529.0 867 80.386500 1217 5320 2 chr5D.!!$F3 4103
8 TraesCS5B01G057000 chr5D 58226903 58230234 3331 False 489.0 708 83.125500 991 5187 2 chr5D.!!$F4 4196
9 TraesCS5B01G057000 chrUn 31474941 31476514 1573 True 2638.0 2638 96.891000 2165 3740 1 chrUn.!!$R3 1575
10 TraesCS5B01G057000 chr6B 171390350 171391926 1576 True 2625.0 2625 96.703000 2165 3741 1 chr6B.!!$R3 1576
11 TraesCS5B01G057000 chr6B 11264390 11265132 742 True 1199.0 1199 95.828000 3740 4481 1 chr6B.!!$R1 741
12 TraesCS5B01G057000 chr6B 671464723 671465465 742 False 1190.0 1190 95.565000 3740 4482 1 chr6B.!!$F1 742
13 TraesCS5B01G057000 chr6B 62836863 62837609 746 True 1186.0 1186 95.321000 3735 4481 1 chr6B.!!$R2 746
14 TraesCS5B01G057000 chr3B 752249835 752255013 5178 False 1335.0 2383 92.605000 2165 3741 2 chr3B.!!$F2 1576
15 TraesCS5B01G057000 chr3B 50424224 50424966 742 True 1221.0 1221 96.366000 3741 4482 1 chr3B.!!$R1 741
16 TraesCS5B01G057000 chr3B 809382144 809382883 739 False 1206.0 1206 96.081000 3742 4481 1 chr3B.!!$F1 739
17 TraesCS5B01G057000 chr7D 58849453 58854622 5169 True 1158.5 2058 90.482500 2165 3741 2 chr7D.!!$R2 1576
18 TraesCS5B01G057000 chr2D 429736476 429738043 1567 True 2050.0 2050 90.259000 2165 3741 1 chr2D.!!$R1 1576
19 TraesCS5B01G057000 chr4D 388854495 388856063 1568 False 1997.0 1997 89.646000 2164 3741 1 chr4D.!!$F1 1577
20 TraesCS5B01G057000 chr3A 710622080 710623647 1567 False 1929.0 1929 88.868000 2165 3741 1 chr3A.!!$F1 1576
21 TraesCS5B01G057000 chr2A 737747402 737748549 1147 False 1458.0 1458 89.560000 2159 3315 1 chr2A.!!$F1 1156
22 TraesCS5B01G057000 chr7B 66066893 66067635 742 False 1199.0 1199 95.828000 3740 4481 1 chr7B.!!$F1 741
23 TraesCS5B01G057000 chr7B 677076836 677077577 741 False 1194.0 1194 95.693000 3740 4481 1 chr7B.!!$F2 741
24 TraesCS5B01G057000 chr1D 209775073 209775816 743 False 1195.0 1195 95.699000 3740 4481 1 chr1D.!!$F1 741
25 TraesCS5B01G057000 chr5A 46500081 46503555 3474 False 486.5 826 82.712000 129 5406 2 chr5A.!!$F1 5277

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
58 59 0.175760 GATGCAGCTACTTGGGTCGA 59.824 55.000 0.00 0.0 0.00 4.20 F
190 198 0.179100 TCTATGTGCCAGCTCTTCGC 60.179 55.000 0.00 0.0 39.57 4.70 F
1536 1618 0.107800 GGGAAAACGTAGAGAGGGCC 60.108 60.000 0.00 0.0 0.00 5.80 F
1768 1868 1.002011 GGGTTCTTGGCTGGAGACC 60.002 63.158 0.00 0.0 0.00 3.85 F
2390 4043 0.676736 GGCTAGCTAGACTGCCGAAT 59.323 55.000 25.15 0.0 34.37 3.34 F
4162 8070 1.853963 CTCGAGGAAGAGAGGGGAAA 58.146 55.000 3.91 0.0 40.57 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1072 1111 0.534203 CACCAGCGGTTACACAAGGT 60.534 55.000 0.00 0.0 31.02 3.50 R
1972 3092 1.015085 TACGCAACGGATGTTTCGGG 61.015 55.000 5.33 0.0 46.71 5.14 R
2381 4034 2.760634 TGTGTACATGATTCGGCAGT 57.239 45.000 0.00 0.0 0.00 4.40 R
3664 5810 4.642445 TTCGCCTCGTATTGTCTATTGA 57.358 40.909 0.00 0.0 0.00 2.57 R
4186 8095 0.170116 CGAGCTCGCTCTGTTCTTCT 59.830 55.000 25.07 0.0 40.69 2.85 R
5421 10706 0.033405 TACCGCCCTGTTAGAGAGCT 60.033 55.000 0.00 0.0 0.00 4.09 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
58 59 0.175760 GATGCAGCTACTTGGGTCGA 59.824 55.000 0.00 0.00 0.00 4.20
65 66 0.314302 CTACTTGGGTCGATAGGGCG 59.686 60.000 0.00 0.00 0.00 6.13
102 110 1.141019 CATGGCTGGCTGTTGATGC 59.859 57.895 2.00 0.00 0.00 3.91
105 113 3.437795 GCTGGCTGTTGATGCGCT 61.438 61.111 9.73 0.00 0.00 5.92
106 114 2.483745 CTGGCTGTTGATGCGCTG 59.516 61.111 9.73 0.00 0.00 5.18
107 115 3.678717 CTGGCTGTTGATGCGCTGC 62.679 63.158 9.73 0.13 0.00 5.25
108 116 4.824166 GGCTGTTGATGCGCTGCG 62.824 66.667 19.17 19.17 0.00 5.18
109 117 4.093952 GCTGTTGATGCGCTGCGT 62.094 61.111 24.04 4.05 0.00 5.24
110 118 2.557805 CTGTTGATGCGCTGCGTT 59.442 55.556 24.04 11.62 0.00 4.84
111 119 1.081906 CTGTTGATGCGCTGCGTTT 60.082 52.632 24.04 11.23 0.00 3.60
113 121 1.370414 GTTGATGCGCTGCGTTTGT 60.370 52.632 24.04 7.10 0.00 2.83
117 125 0.660005 GATGCGCTGCGTTTGTTTGA 60.660 50.000 24.04 0.00 0.00 2.69
118 126 0.661187 ATGCGCTGCGTTTGTTTGAG 60.661 50.000 24.04 0.00 0.00 3.02
119 127 2.010817 GCGCTGCGTTTGTTTGAGG 61.011 57.895 24.04 0.00 0.00 3.86
120 128 2.010817 CGCTGCGTTTGTTTGAGGC 61.011 57.895 14.93 0.00 0.00 4.70
122 130 1.208642 GCTGCGTTTGTTTGAGGCAC 61.209 55.000 0.00 0.00 34.58 5.01
169 177 0.398318 AAGTCCAAGTCACTCCCTGC 59.602 55.000 0.00 0.00 0.00 4.85
176 184 1.786937 AGTCACTCCCTGCCTCTATG 58.213 55.000 0.00 0.00 0.00 2.23
190 198 0.179100 TCTATGTGCCAGCTCTTCGC 60.179 55.000 0.00 0.00 39.57 4.70
240 248 8.306761 GGGTGACTATTCATGAACTGAAAAATT 58.693 33.333 11.07 0.00 46.62 1.82
347 362 4.342378 CCCATCTCATTCTAGAACCGAGAA 59.658 45.833 27.66 17.34 36.44 2.87
359 374 0.872388 ACCGAGAAATTGGTTCGCAC 59.128 50.000 0.00 0.00 41.52 5.34
395 411 2.269023 TCCTCCTCATTCCTTGCTTCA 58.731 47.619 0.00 0.00 0.00 3.02
400 416 4.267536 TCCTCATTCCTTGCTTCATTCAG 58.732 43.478 0.00 0.00 0.00 3.02
420 436 4.587684 TCAGACCCGTTTCTCTTCTTAACT 59.412 41.667 0.00 0.00 0.00 2.24
424 440 4.814771 ACCCGTTTCTCTTCTTAACTGTTG 59.185 41.667 2.69 0.00 0.00 3.33
465 481 3.209410 CTGCTGGCTTATAGGTTCCAAG 58.791 50.000 0.00 0.00 0.00 3.61
467 483 3.459598 TGCTGGCTTATAGGTTCCAAGAT 59.540 43.478 0.00 0.00 0.00 2.40
471 487 4.473196 TGGCTTATAGGTTCCAAGATGTCA 59.527 41.667 0.00 0.00 0.00 3.58
472 488 5.132648 TGGCTTATAGGTTCCAAGATGTCAT 59.867 40.000 0.00 0.00 0.00 3.06
474 490 7.147391 TGGCTTATAGGTTCCAAGATGTCATTA 60.147 37.037 0.00 0.00 0.00 1.90
496 512 9.773328 CATTATAAATCTGGCACATATAAACCG 57.227 33.333 0.00 0.00 38.20 4.44
497 513 6.817765 ATAAATCTGGCACATATAAACCGG 57.182 37.500 0.00 0.00 38.20 5.28
499 515 3.188159 TCTGGCACATATAAACCGGTC 57.812 47.619 8.04 0.00 38.20 4.79
503 519 2.158871 GGCACATATAAACCGGTCTGGA 60.159 50.000 8.04 0.00 42.00 3.86
558 574 2.723273 CCTCGGCCTTTGAATACCTTT 58.277 47.619 0.00 0.00 0.00 3.11
561 577 4.515567 CCTCGGCCTTTGAATACCTTTATC 59.484 45.833 0.00 0.00 0.00 1.75
562 578 5.105567 TCGGCCTTTGAATACCTTTATCA 57.894 39.130 0.00 0.00 0.00 2.15
650 666 8.749841 TTGATTTAACACAATACCATTTTCGG 57.250 30.769 0.00 0.00 0.00 4.30
680 696 3.748568 GGTGCTAGAGGTTTTTGTCAGAG 59.251 47.826 0.00 0.00 0.00 3.35
681 697 4.503296 GGTGCTAGAGGTTTTTGTCAGAGA 60.503 45.833 0.00 0.00 0.00 3.10
686 702 2.154462 AGGTTTTTGTCAGAGATGGCG 58.846 47.619 0.00 0.00 0.00 5.69
745 761 3.325425 TGTTGTTCTCCTTAATGACCCGA 59.675 43.478 0.00 0.00 0.00 5.14
842 867 1.073722 CTGCCTGCCTTGGTCTGAA 59.926 57.895 0.00 0.00 0.00 3.02
855 880 5.693555 CCTTGGTCTGAAATTTCTCAAAAGC 59.306 40.000 18.64 9.50 0.00 3.51
864 889 2.727123 TTCTCAAAAGCACACAGGGA 57.273 45.000 0.00 0.00 0.00 4.20
897 922 4.347876 TGAACTGAAAGATCTCCTTCCACA 59.652 41.667 0.00 0.00 36.60 4.17
930 955 6.276847 AGAAAAATCGGTGTAAATTTGTGCA 58.723 32.000 0.00 0.00 0.00 4.57
956 982 3.119280 GGACTTGCCTAGAAGACTGACTC 60.119 52.174 0.00 0.00 0.00 3.36
1028 1055 2.107366 CTTCTTCCTCCTCCTCCTCAC 58.893 57.143 0.00 0.00 0.00 3.51
1032 1059 1.944177 TCCTCCTCCTCCTCACTTTG 58.056 55.000 0.00 0.00 0.00 2.77
1036 1063 2.634940 CTCCTCCTCCTCACTTTGTTGA 59.365 50.000 0.00 0.00 0.00 3.18
1051 1078 4.717233 TTGTTGATTCCCCATGAAATCG 57.283 40.909 0.00 0.00 36.33 3.34
1114 1153 1.909781 GACACCACCGTCCCCTACA 60.910 63.158 0.00 0.00 0.00 2.74
1527 1609 1.301874 CCTGCGGTGGGAAAACGTA 60.302 57.895 0.00 0.00 0.00 3.57
1532 1614 1.992170 CGGTGGGAAAACGTAGAGAG 58.008 55.000 0.00 0.00 0.00 3.20
1536 1618 0.107800 GGGAAAACGTAGAGAGGGCC 60.108 60.000 0.00 0.00 0.00 5.80
1768 1868 1.002011 GGGTTCTTGGCTGGAGACC 60.002 63.158 0.00 0.00 0.00 3.85
1794 1894 2.375766 CGTCGGTGAGCACTGCTTC 61.376 63.158 4.67 2.04 39.88 3.86
1804 1914 1.417890 AGCACTGCTTCCACTTACACT 59.582 47.619 0.00 0.00 33.89 3.55
1823 1933 3.640967 CACTTCCCCTGATTTTGTTTCCA 59.359 43.478 0.00 0.00 0.00 3.53
1832 1942 6.813152 CCCTGATTTTGTTTCCAATACATGTC 59.187 38.462 0.00 0.00 0.00 3.06
1885 2587 9.950680 CCGCATAATTTTTGTCAGATTTATAGT 57.049 29.630 0.00 0.00 0.00 2.12
1983 3103 2.435938 TGAGCGCCCGAAACATCC 60.436 61.111 2.29 0.00 0.00 3.51
2381 4034 1.381327 AAGGTGCCGGCTAGCTAGA 60.381 57.895 29.70 1.01 0.00 2.43
2390 4043 0.676736 GGCTAGCTAGACTGCCGAAT 59.323 55.000 25.15 0.00 34.37 3.34
3193 5336 3.009916 ACATCCTTGCAATCCAACTCTCT 59.990 43.478 0.00 0.00 0.00 3.10
3653 5799 2.228545 AGCTGTCTGAGACTCCATCA 57.771 50.000 14.42 0.00 33.15 3.07
3824 6086 5.534207 AAAACATTCATGAACAAGAGCCA 57.466 34.783 11.07 0.00 0.00 4.75
3846 6560 4.954970 ACAAGGTGGTGCCGGCAG 62.955 66.667 33.73 19.26 43.70 4.85
3917 6634 5.058490 GCACTAAGTAAACCACACCTACAA 58.942 41.667 0.00 0.00 0.00 2.41
3945 6662 8.254508 TGCAAACTAAGTGTTATTTTTGACCTT 58.745 29.630 0.00 0.00 38.03 3.50
4119 6836 2.833943 GGGGCCTTCAAATCTTGACAAT 59.166 45.455 0.84 0.00 39.87 2.71
4162 8070 1.853963 CTCGAGGAAGAGAGGGGAAA 58.146 55.000 3.91 0.00 40.57 3.13
4169 8077 3.722101 AGGAAGAGAGGGGAAAAACAGAA 59.278 43.478 0.00 0.00 0.00 3.02
4186 8095 2.639839 CAGAAGAAGTGAGGGGAAAGGA 59.360 50.000 0.00 0.00 0.00 3.36
4440 9705 0.960364 GCCGGCTCAGAATCAAACCA 60.960 55.000 22.15 0.00 0.00 3.67
4447 9712 3.944015 GCTCAGAATCAAACCAGCACTAT 59.056 43.478 0.00 0.00 0.00 2.12
4482 9747 5.899631 TTGACCCTTTTTCTACTAGTGGT 57.100 39.130 5.39 0.77 0.00 4.16
4483 9748 5.479124 TGACCCTTTTTCTACTAGTGGTC 57.521 43.478 14.70 14.70 41.06 4.02
4486 9751 6.783977 TGACCCTTTTTCTACTAGTGGTCTTA 59.216 38.462 19.65 4.34 41.21 2.10
4720 9987 2.746277 GGCCGGAAATCGCACACT 60.746 61.111 5.05 0.00 37.59 3.55
4726 9993 0.390735 GGAAATCGCACACTACCGGT 60.391 55.000 13.98 13.98 0.00 5.28
4808 10075 3.326747 GAGTCGGATGTGTACAGCTTTT 58.673 45.455 0.00 0.00 31.98 2.27
5177 10447 2.927856 TCAGTGGCCGGTGATGGT 60.928 61.111 1.90 0.00 0.00 3.55
5241 10513 7.444487 AGAATCTTAGTTCCTTGTGTTGGTTAC 59.556 37.037 0.00 0.00 0.00 2.50
5273 10552 3.119291 CGATCAGGAGACAAGTATGCAC 58.881 50.000 0.00 0.00 0.00 4.57
5289 10568 3.650070 TGCACGAATAAAATGTTGCCA 57.350 38.095 0.00 0.00 0.00 4.92
5295 10574 3.606346 CGAATAAAATGTTGCCACCGTTC 59.394 43.478 0.00 0.00 0.00 3.95
5345 10624 1.818060 TGCCGGATCATCTTTGTTTGG 59.182 47.619 5.05 0.00 0.00 3.28
5416 10701 3.012518 CCCTATGCACCACTTCTTTCTG 58.987 50.000 0.00 0.00 0.00 3.02
5417 10702 3.307691 CCCTATGCACCACTTCTTTCTGA 60.308 47.826 0.00 0.00 0.00 3.27
5418 10703 4.326826 CCTATGCACCACTTCTTTCTGAA 58.673 43.478 0.00 0.00 0.00 3.02
5419 10704 4.946157 CCTATGCACCACTTCTTTCTGAAT 59.054 41.667 0.00 0.00 33.71 2.57
5420 10705 4.778534 ATGCACCACTTCTTTCTGAATG 57.221 40.909 0.00 0.00 33.71 2.67
5421 10706 3.819368 TGCACCACTTCTTTCTGAATGA 58.181 40.909 2.19 2.19 33.71 2.57
5422 10707 3.817084 TGCACCACTTCTTTCTGAATGAG 59.183 43.478 6.17 4.45 33.71 2.90
5423 10708 3.365767 GCACCACTTCTTTCTGAATGAGC 60.366 47.826 6.17 2.73 33.71 4.26
5424 10709 4.070716 CACCACTTCTTTCTGAATGAGCT 58.929 43.478 6.17 0.00 33.71 4.09
5425 10710 4.153835 CACCACTTCTTTCTGAATGAGCTC 59.846 45.833 6.82 6.82 33.71 4.09
5426 10711 4.041444 ACCACTTCTTTCTGAATGAGCTCT 59.959 41.667 16.19 0.00 33.71 4.09
5427 10712 4.630940 CCACTTCTTTCTGAATGAGCTCTC 59.369 45.833 16.19 5.60 33.71 3.20
5428 10713 5.481105 CACTTCTTTCTGAATGAGCTCTCT 58.519 41.667 16.19 1.00 33.71 3.10
5429 10714 6.350864 CCACTTCTTTCTGAATGAGCTCTCTA 60.351 42.308 16.19 0.00 33.71 2.43
5430 10715 7.095910 CACTTCTTTCTGAATGAGCTCTCTAA 58.904 38.462 16.19 0.00 33.71 2.10
5431 10716 7.063308 CACTTCTTTCTGAATGAGCTCTCTAAC 59.937 40.741 16.19 2.96 33.71 2.34
5432 10717 6.596309 TCTTTCTGAATGAGCTCTCTAACA 57.404 37.500 16.19 7.28 0.00 2.41
5433 10718 6.629128 TCTTTCTGAATGAGCTCTCTAACAG 58.371 40.000 16.19 15.59 0.00 3.16
5434 10719 4.998671 TCTGAATGAGCTCTCTAACAGG 57.001 45.455 16.19 0.00 0.00 4.00
5435 10720 3.703556 TCTGAATGAGCTCTCTAACAGGG 59.296 47.826 16.19 0.00 0.00 4.45
5439 10724 3.300013 GCTCTCTAACAGGGCGGT 58.700 61.111 0.00 0.00 39.48 5.68
5440 10725 2.501492 GCTCTCTAACAGGGCGGTA 58.499 57.895 0.00 0.00 39.48 4.02
5441 10726 0.386113 GCTCTCTAACAGGGCGGTAG 59.614 60.000 0.00 0.00 39.48 3.18
5442 10727 1.033574 CTCTCTAACAGGGCGGTAGG 58.966 60.000 0.00 0.00 0.00 3.18
5443 10728 1.041447 TCTCTAACAGGGCGGTAGGC 61.041 60.000 0.00 0.00 42.96 3.93
5444 10729 1.305465 TCTAACAGGGCGGTAGGCA 60.305 57.895 0.00 0.00 46.16 4.75
5445 10730 1.144057 CTAACAGGGCGGTAGGCAG 59.856 63.158 0.00 0.00 46.16 4.85
5446 10731 2.925162 CTAACAGGGCGGTAGGCAGC 62.925 65.000 0.00 0.00 46.16 5.25
5453 10738 4.063967 CGGTAGGCAGCCGTCACA 62.064 66.667 5.55 0.00 43.84 3.58
5454 10739 2.434359 GGTAGGCAGCCGTCACAC 60.434 66.667 5.55 0.23 0.00 3.82
5455 10740 2.342279 GTAGGCAGCCGTCACACA 59.658 61.111 5.55 0.00 0.00 3.72
5456 10741 1.301401 GTAGGCAGCCGTCACACAA 60.301 57.895 5.55 0.00 0.00 3.33
5457 10742 0.882927 GTAGGCAGCCGTCACACAAA 60.883 55.000 5.55 0.00 0.00 2.83
5458 10743 0.602638 TAGGCAGCCGTCACACAAAG 60.603 55.000 5.55 0.00 0.00 2.77
5459 10744 1.891919 GGCAGCCGTCACACAAAGA 60.892 57.895 0.00 0.00 0.00 2.52
5460 10745 1.237285 GGCAGCCGTCACACAAAGAT 61.237 55.000 0.00 0.00 0.00 2.40
5461 10746 0.593128 GCAGCCGTCACACAAAGATT 59.407 50.000 0.00 0.00 0.00 2.40
5462 10747 1.400242 GCAGCCGTCACACAAAGATTC 60.400 52.381 0.00 0.00 0.00 2.52
5463 10748 2.146342 CAGCCGTCACACAAAGATTCT 58.854 47.619 0.00 0.00 0.00 2.40
5464 10749 2.096069 CAGCCGTCACACAAAGATTCTG 60.096 50.000 0.00 0.00 0.00 3.02
5465 10750 1.197721 GCCGTCACACAAAGATTCTGG 59.802 52.381 0.00 0.00 0.00 3.86
5466 10751 1.806542 CCGTCACACAAAGATTCTGGG 59.193 52.381 0.00 0.00 0.00 4.45
5467 10752 2.494059 CGTCACACAAAGATTCTGGGT 58.506 47.619 0.00 0.00 0.00 4.51
5472 10757 4.013267 ACACAAAGATTCTGGGTGAGAG 57.987 45.455 19.23 4.76 33.82 3.20
5473 10758 3.244700 ACACAAAGATTCTGGGTGAGAGG 60.245 47.826 19.23 0.15 33.82 3.69
5474 10759 2.307098 ACAAAGATTCTGGGTGAGAGGG 59.693 50.000 0.00 0.00 30.18 4.30
5475 10760 2.307098 CAAAGATTCTGGGTGAGAGGGT 59.693 50.000 0.00 0.00 30.18 4.34
5476 10761 3.491766 AAGATTCTGGGTGAGAGGGTA 57.508 47.619 0.00 0.00 30.18 3.69
5477 10762 3.715648 AGATTCTGGGTGAGAGGGTAT 57.284 47.619 0.00 0.00 30.18 2.73
5478 10763 3.312890 AGATTCTGGGTGAGAGGGTATG 58.687 50.000 0.00 0.00 30.18 2.39
5479 10764 1.204146 TTCTGGGTGAGAGGGTATGC 58.796 55.000 0.00 0.00 30.18 3.14
5480 10765 1.043116 TCTGGGTGAGAGGGTATGCG 61.043 60.000 0.00 0.00 0.00 4.73
5481 10766 2.109181 GGGTGAGAGGGTATGCGC 59.891 66.667 0.00 0.00 0.00 6.09
5482 10767 2.279517 GGTGAGAGGGTATGCGCG 60.280 66.667 0.00 0.00 0.00 6.86
5483 10768 2.782222 GGTGAGAGGGTATGCGCGA 61.782 63.158 12.10 0.00 0.00 5.87
5484 10769 1.141019 GTGAGAGGGTATGCGCGAA 59.859 57.895 12.10 0.00 0.00 4.70
5485 10770 1.141019 TGAGAGGGTATGCGCGAAC 59.859 57.895 12.10 3.87 0.00 3.95
5486 10771 1.141019 GAGAGGGTATGCGCGAACA 59.859 57.895 12.10 0.00 0.00 3.18
5487 10772 0.249489 GAGAGGGTATGCGCGAACAT 60.249 55.000 12.10 7.48 0.00 2.71
5488 10773 0.178068 AGAGGGTATGCGCGAACATT 59.822 50.000 12.10 0.00 0.00 2.71
5489 10774 1.411246 AGAGGGTATGCGCGAACATTA 59.589 47.619 12.10 0.00 0.00 1.90
5490 10775 1.792949 GAGGGTATGCGCGAACATTAG 59.207 52.381 12.10 0.00 0.00 1.73
5491 10776 0.234884 GGGTATGCGCGAACATTAGC 59.765 55.000 12.10 0.00 0.00 3.09
5492 10777 0.934496 GGTATGCGCGAACATTAGCA 59.066 50.000 12.10 0.00 44.13 3.49
5494 10779 2.411547 GGTATGCGCGAACATTAGCATC 60.412 50.000 12.10 0.00 45.97 3.91
5495 10780 1.586422 ATGCGCGAACATTAGCATCT 58.414 45.000 12.10 0.00 45.97 2.90
5496 10781 2.217429 TGCGCGAACATTAGCATCTA 57.783 45.000 12.10 0.00 34.39 1.98
5497 10782 2.545731 TGCGCGAACATTAGCATCTAA 58.454 42.857 12.10 0.00 34.39 2.10
5498 10783 3.130633 TGCGCGAACATTAGCATCTAAT 58.869 40.909 12.10 0.00 34.39 1.73
5499 10784 3.559655 TGCGCGAACATTAGCATCTAATT 59.440 39.130 12.10 0.00 34.39 1.40
5500 10785 4.144555 GCGCGAACATTAGCATCTAATTC 58.855 43.478 12.10 0.00 0.00 2.17
5501 10786 4.084328 GCGCGAACATTAGCATCTAATTCT 60.084 41.667 12.10 0.00 0.00 2.40
5502 10787 5.369187 CGCGAACATTAGCATCTAATTCTG 58.631 41.667 0.00 0.00 0.00 3.02
5503 10788 5.175673 CGCGAACATTAGCATCTAATTCTGA 59.824 40.000 0.00 0.00 0.00 3.27
5504 10789 6.292328 CGCGAACATTAGCATCTAATTCTGAA 60.292 38.462 0.00 0.00 0.00 3.02
5505 10790 7.068341 GCGAACATTAGCATCTAATTCTGAAG 58.932 38.462 0.00 0.00 0.00 3.02
5506 10791 7.042456 GCGAACATTAGCATCTAATTCTGAAGA 60.042 37.037 0.00 0.00 0.00 2.87
5507 10792 8.986847 CGAACATTAGCATCTAATTCTGAAGAT 58.013 33.333 0.00 0.00 32.63 2.40
5513 10798 5.686159 CATCTAATTCTGAAGATGCCACC 57.314 43.478 5.22 0.00 41.80 4.61
5514 10799 4.156455 TCTAATTCTGAAGATGCCACCC 57.844 45.455 0.00 0.00 0.00 4.61
5515 10800 2.149973 AATTCTGAAGATGCCACCCC 57.850 50.000 0.00 0.00 0.00 4.95
5516 10801 0.259938 ATTCTGAAGATGCCACCCCC 59.740 55.000 0.00 0.00 0.00 5.40
5517 10802 2.124570 CTGAAGATGCCACCCCCG 60.125 66.667 0.00 0.00 0.00 5.73
5518 10803 3.704231 CTGAAGATGCCACCCCCGG 62.704 68.421 0.00 0.00 0.00 5.73
5519 10804 3.407967 GAAGATGCCACCCCCGGA 61.408 66.667 0.73 0.00 0.00 5.14
5520 10805 3.406595 GAAGATGCCACCCCCGGAG 62.407 68.421 0.73 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 0.250209 CAGCAGCAGAATCGCCCTAT 60.250 55.000 0.00 0.00 0.00 2.57
95 103 0.934436 AACAAACGCAGCGCATCAAC 60.934 50.000 16.61 0.00 0.00 3.18
102 110 2.010817 GCCTCAAACAAACGCAGCG 61.011 57.895 14.82 14.82 0.00 5.18
105 113 0.380378 GAGTGCCTCAAACAAACGCA 59.620 50.000 0.00 0.00 0.00 5.24
106 114 0.317854 GGAGTGCCTCAAACAAACGC 60.318 55.000 4.85 0.00 31.08 4.84
107 115 0.310854 GGGAGTGCCTCAAACAAACG 59.689 55.000 0.00 0.00 31.08 3.60
108 116 1.609072 GAGGGAGTGCCTCAAACAAAC 59.391 52.381 24.71 0.00 34.72 2.93
109 117 1.494721 AGAGGGAGTGCCTCAAACAAA 59.505 47.619 30.04 0.00 36.83 2.83
110 118 1.140312 AGAGGGAGTGCCTCAAACAA 58.860 50.000 30.04 0.00 36.83 2.83
111 119 1.072331 GAAGAGGGAGTGCCTCAAACA 59.928 52.381 30.04 0.00 36.83 2.83
113 121 0.321671 CGAAGAGGGAGTGCCTCAAA 59.678 55.000 30.04 0.00 36.83 2.69
117 125 1.985116 GACCGAAGAGGGAGTGCCT 60.985 63.158 1.18 1.18 46.96 4.75
118 126 1.985116 AGACCGAAGAGGGAGTGCC 60.985 63.158 0.00 0.00 46.96 5.01
119 127 1.216710 CAGACCGAAGAGGGAGTGC 59.783 63.158 0.00 0.00 46.96 4.40
120 128 0.528470 GACAGACCGAAGAGGGAGTG 59.472 60.000 0.00 0.00 46.96 3.51
122 130 1.257743 TTGACAGACCGAAGAGGGAG 58.742 55.000 0.00 0.00 46.96 4.30
123 131 1.343465 GTTTGACAGACCGAAGAGGGA 59.657 52.381 0.00 0.00 46.96 4.20
124 132 1.344763 AGTTTGACAGACCGAAGAGGG 59.655 52.381 0.00 0.00 46.96 4.30
169 177 1.537776 CGAAGAGCTGGCACATAGAGG 60.538 57.143 0.00 0.00 38.20 3.69
190 198 6.293845 CCTGTGTCCTTTTCAGAAATTCAGAG 60.294 42.308 0.00 2.83 0.00 3.35
194 202 4.584743 ACCCTGTGTCCTTTTCAGAAATTC 59.415 41.667 0.00 0.00 0.00 2.17
240 248 7.482169 TTTTCTCATCTAGAAGTAGAAGGCA 57.518 36.000 0.00 0.00 44.95 4.75
355 370 0.605589 AGAGAAGAGGAAGTGGTGCG 59.394 55.000 0.00 0.00 0.00 5.34
359 374 2.499693 GGAGGAAGAGAAGAGGAAGTGG 59.500 54.545 0.00 0.00 0.00 4.00
366 381 4.289245 AGGAATGAGGAGGAAGAGAAGAG 58.711 47.826 0.00 0.00 0.00 2.85
367 382 4.344938 AGGAATGAGGAGGAAGAGAAGA 57.655 45.455 0.00 0.00 0.00 2.87
395 411 4.625607 AAGAAGAGAAACGGGTCTGAAT 57.374 40.909 0.00 0.00 0.00 2.57
400 416 4.629092 ACAGTTAAGAAGAGAAACGGGTC 58.371 43.478 0.00 0.00 0.00 4.46
420 436 6.430925 AGCTTTGCTGTGATCTTAATACAACA 59.569 34.615 0.00 0.00 37.57 3.33
471 487 8.956426 CCGGTTTATATGTGCCAGATTTATAAT 58.044 33.333 0.00 0.00 0.00 1.28
472 488 7.940137 ACCGGTTTATATGTGCCAGATTTATAA 59.060 33.333 0.00 0.00 0.00 0.98
474 490 6.303839 ACCGGTTTATATGTGCCAGATTTAT 58.696 36.000 0.00 0.00 0.00 1.40
495 511 3.319137 TGACTTCAAGAATCCAGACCG 57.681 47.619 0.00 0.00 0.00 4.79
558 574 2.637382 TCTTTGACTGGTGGCACTGATA 59.363 45.455 18.45 1.12 0.00 2.15
561 577 1.679139 TTCTTTGACTGGTGGCACTG 58.321 50.000 18.45 13.03 0.00 3.66
562 578 2.435372 TTTCTTTGACTGGTGGCACT 57.565 45.000 18.45 0.00 0.00 4.40
650 666 2.089600 ACCTCTAGCACCCAGGATAC 57.910 55.000 1.57 0.00 0.00 2.24
680 696 4.083110 CCATTCTGATCCATTTACGCCATC 60.083 45.833 0.00 0.00 0.00 3.51
681 697 3.822735 CCATTCTGATCCATTTACGCCAT 59.177 43.478 0.00 0.00 0.00 4.40
686 702 7.535139 TCGAAAAACCATTCTGATCCATTTAC 58.465 34.615 0.00 0.00 0.00 2.01
745 761 1.667830 CACATCGACGGGCAGTGTT 60.668 57.895 0.00 0.00 0.00 3.32
842 867 3.960102 TCCCTGTGTGCTTTTGAGAAATT 59.040 39.130 0.00 0.00 0.00 1.82
855 880 4.743057 TCATGAATAGTCTCCCTGTGTG 57.257 45.455 0.00 0.00 0.00 3.82
897 922 4.899502 ACACCGATTTTTCTCAGTCAGAT 58.100 39.130 0.00 0.00 0.00 2.90
930 955 1.275573 GTCTTCTAGGCAAGTCCCGTT 59.724 52.381 0.00 0.00 34.51 4.44
956 982 3.117491 AGATGAGCACGGTATTGATGG 57.883 47.619 0.00 0.00 0.00 3.51
1028 1055 5.104374 CGATTTCATGGGGAATCAACAAAG 58.896 41.667 13.80 0.00 34.91 2.77
1032 1059 3.947834 AGACGATTTCATGGGGAATCAAC 59.052 43.478 13.80 8.86 34.91 3.18
1036 1063 3.214696 GGAGACGATTTCATGGGGAAT 57.785 47.619 0.00 0.00 34.91 3.01
1051 1078 3.050275 GGCTGTTGTGCCGGAGAC 61.050 66.667 5.05 0.15 43.74 3.36
1072 1111 0.534203 CACCAGCGGTTACACAAGGT 60.534 55.000 0.00 0.00 31.02 3.50
1183 1222 2.970639 GCTGCCTCCTGTGTACGA 59.029 61.111 0.00 0.00 0.00 3.43
1185 1224 2.125512 CCGCTGCCTCCTGTGTAC 60.126 66.667 0.00 0.00 0.00 2.90
1527 1609 1.992277 ATCGCAGTTGGCCCTCTCT 60.992 57.895 0.00 0.00 40.31 3.10
1532 1614 3.499737 CGTCATCGCAGTTGGCCC 61.500 66.667 0.00 0.00 40.31 5.80
1536 1618 1.131218 CAGCACGTCATCGCAGTTG 59.869 57.895 0.00 0.00 41.18 3.16
1768 1868 1.939785 GCTCACCGACGTAGCATCG 60.940 63.158 2.41 0.00 39.33 3.84
1794 1894 3.721087 AATCAGGGGAAGTGTAAGTGG 57.279 47.619 0.00 0.00 0.00 4.00
1842 2055 5.537300 ATGCGGACTATTCATCACTACTT 57.463 39.130 0.00 0.00 0.00 2.24
1847 2060 7.915397 ACAAAAATTATGCGGACTATTCATCAC 59.085 33.333 0.00 0.00 0.00 3.06
1885 2587 6.507023 GTCGGGAATACTAAATCTACGGAAA 58.493 40.000 0.00 0.00 0.00 3.13
1918 3026 3.104512 ACAGACTTCCCCGATGATGTAA 58.895 45.455 0.00 0.00 0.00 2.41
1972 3092 1.015085 TACGCAACGGATGTTTCGGG 61.015 55.000 5.33 0.00 46.71 5.14
1998 3119 5.839606 AGACCTTCTACCAGTTCAGTAAGTT 59.160 40.000 0.00 0.00 0.00 2.66
2009 3130 8.919145 AGACTCATATAAAAGACCTTCTACCAG 58.081 37.037 0.00 0.00 0.00 4.00
2071 3253 7.541122 GCTTAATAGCAGCTTACTACAACTT 57.459 36.000 0.00 0.00 46.95 2.66
2133 3466 9.995003 CATCAGCTTAGATTAAGGAACTCTTAT 57.005 33.333 0.00 0.00 38.49 1.73
2134 3467 9.201989 TCATCAGCTTAGATTAAGGAACTCTTA 57.798 33.333 0.00 0.00 38.49 2.10
2381 4034 2.760634 TGTGTACATGATTCGGCAGT 57.239 45.000 0.00 0.00 0.00 4.40
3193 5336 7.147915 GGAAAAATATGCCACTGATCTGGTAAA 60.148 37.037 4.49 0.00 33.30 2.01
3653 5799 6.538742 CGTATTGTCTATTGATGTTTCCAGGT 59.461 38.462 0.00 0.00 0.00 4.00
3664 5810 4.642445 TTCGCCTCGTATTGTCTATTGA 57.358 40.909 0.00 0.00 0.00 2.57
3917 6634 9.040939 GGTCAAAAATAACACTTAGTTTGCATT 57.959 29.630 0.00 0.00 41.64 3.56
4119 6836 5.221009 GCTCATCACAAATTTTGCCCAAAAA 60.221 36.000 9.04 0.00 42.71 1.94
4162 8070 4.464947 CTTTCCCCTCACTTCTTCTGTTT 58.535 43.478 0.00 0.00 0.00 2.83
4169 8077 2.723530 TCTCCTTTCCCCTCACTTCT 57.276 50.000 0.00 0.00 0.00 2.85
4186 8095 0.170116 CGAGCTCGCTCTGTTCTTCT 59.830 55.000 25.07 0.00 40.69 2.85
4440 9705 5.641209 GTCAAATCTGAGACACAATAGTGCT 59.359 40.000 0.00 0.00 39.89 4.40
4447 9712 4.437682 AAGGGTCAAATCTGAGACACAA 57.562 40.909 0.00 0.00 40.60 3.33
4549 9816 2.615447 CGAACCTACACCGAGCACTATA 59.385 50.000 0.00 0.00 0.00 1.31
4726 9993 2.579657 CCCCATCGTGCCGGCTATA 61.580 63.158 29.70 13.02 0.00 1.31
4756 10023 2.032528 CCGGCCAACAAGCTCTCA 59.967 61.111 2.24 0.00 0.00 3.27
5235 10507 0.967662 TCGTGGACGATTGGTAACCA 59.032 50.000 0.00 0.00 44.22 3.67
5289 10568 1.134965 GCTCTGTAGATGCTGAACGGT 60.135 52.381 0.00 0.00 0.00 4.83
5295 10574 2.417933 GGTGTTTGCTCTGTAGATGCTG 59.582 50.000 0.00 0.00 0.00 4.41
5345 10624 6.530120 AGAAGGAAGAGGAAGAGTTTCTTTC 58.470 40.000 0.00 0.00 36.73 2.62
5416 10701 2.801342 CGCCCTGTTAGAGAGCTCATTC 60.801 54.545 17.77 5.60 0.00 2.67
5417 10702 1.137872 CGCCCTGTTAGAGAGCTCATT 59.862 52.381 17.77 5.83 0.00 2.57
5418 10703 0.749649 CGCCCTGTTAGAGAGCTCAT 59.250 55.000 17.77 6.59 0.00 2.90
5419 10704 1.323271 CCGCCCTGTTAGAGAGCTCA 61.323 60.000 17.77 0.00 0.00 4.26
5420 10705 1.324005 ACCGCCCTGTTAGAGAGCTC 61.324 60.000 5.27 5.27 0.00 4.09
5421 10706 0.033405 TACCGCCCTGTTAGAGAGCT 60.033 55.000 0.00 0.00 0.00 4.09
5422 10707 0.386113 CTACCGCCCTGTTAGAGAGC 59.614 60.000 0.00 0.00 0.00 4.09
5423 10708 1.033574 CCTACCGCCCTGTTAGAGAG 58.966 60.000 0.00 0.00 0.00 3.20
5424 10709 1.041447 GCCTACCGCCCTGTTAGAGA 61.041 60.000 0.00 0.00 0.00 3.10
5425 10710 1.327690 TGCCTACCGCCCTGTTAGAG 61.328 60.000 0.00 0.00 36.24 2.43
5426 10711 1.305465 TGCCTACCGCCCTGTTAGA 60.305 57.895 0.00 0.00 36.24 2.10
5427 10712 1.144057 CTGCCTACCGCCCTGTTAG 59.856 63.158 0.00 0.00 36.24 2.34
5428 10713 3.026431 GCTGCCTACCGCCCTGTTA 62.026 63.158 0.00 0.00 36.24 2.41
5429 10714 4.410400 GCTGCCTACCGCCCTGTT 62.410 66.667 0.00 0.00 36.24 3.16
5437 10722 2.434359 GTGTGACGGCTGCCTACC 60.434 66.667 17.92 6.02 0.00 3.18
5438 10723 0.882927 TTTGTGTGACGGCTGCCTAC 60.883 55.000 17.92 13.10 0.00 3.18
5439 10724 0.602638 CTTTGTGTGACGGCTGCCTA 60.603 55.000 17.92 0.00 0.00 3.93
5440 10725 1.893808 CTTTGTGTGACGGCTGCCT 60.894 57.895 17.92 3.54 0.00 4.75
5441 10726 1.237285 ATCTTTGTGTGACGGCTGCC 61.237 55.000 9.11 9.11 0.00 4.85
5442 10727 0.593128 AATCTTTGTGTGACGGCTGC 59.407 50.000 0.00 0.00 0.00 5.25
5443 10728 2.096069 CAGAATCTTTGTGTGACGGCTG 60.096 50.000 0.00 0.00 0.00 4.85
5444 10729 2.146342 CAGAATCTTTGTGTGACGGCT 58.854 47.619 0.00 0.00 0.00 5.52
5445 10730 1.197721 CCAGAATCTTTGTGTGACGGC 59.802 52.381 0.00 0.00 0.00 5.68
5446 10731 1.806542 CCCAGAATCTTTGTGTGACGG 59.193 52.381 0.00 0.00 0.00 4.79
5447 10732 2.224079 CACCCAGAATCTTTGTGTGACG 59.776 50.000 1.85 0.00 0.00 4.35
5448 10733 3.476552 TCACCCAGAATCTTTGTGTGAC 58.523 45.455 8.27 0.00 0.00 3.67
5449 10734 3.390967 TCTCACCCAGAATCTTTGTGTGA 59.609 43.478 8.27 8.47 0.00 3.58
5450 10735 3.743521 TCTCACCCAGAATCTTTGTGTG 58.256 45.455 8.27 6.70 0.00 3.82
5451 10736 3.244700 CCTCTCACCCAGAATCTTTGTGT 60.245 47.826 8.27 0.00 0.00 3.72
5452 10737 3.341823 CCTCTCACCCAGAATCTTTGTG 58.658 50.000 3.28 3.28 0.00 3.33
5453 10738 2.307098 CCCTCTCACCCAGAATCTTTGT 59.693 50.000 0.00 0.00 0.00 2.83
5454 10739 2.307098 ACCCTCTCACCCAGAATCTTTG 59.693 50.000 0.00 0.00 0.00 2.77
5455 10740 2.637165 ACCCTCTCACCCAGAATCTTT 58.363 47.619 0.00 0.00 0.00 2.52
5456 10741 2.350863 ACCCTCTCACCCAGAATCTT 57.649 50.000 0.00 0.00 0.00 2.40
5457 10742 3.312890 CATACCCTCTCACCCAGAATCT 58.687 50.000 0.00 0.00 0.00 2.40
5458 10743 2.224402 GCATACCCTCTCACCCAGAATC 60.224 54.545 0.00 0.00 0.00 2.52
5459 10744 1.771255 GCATACCCTCTCACCCAGAAT 59.229 52.381 0.00 0.00 0.00 2.40
5460 10745 1.204146 GCATACCCTCTCACCCAGAA 58.796 55.000 0.00 0.00 0.00 3.02
5461 10746 1.043116 CGCATACCCTCTCACCCAGA 61.043 60.000 0.00 0.00 0.00 3.86
5462 10747 1.443407 CGCATACCCTCTCACCCAG 59.557 63.158 0.00 0.00 0.00 4.45
5463 10748 2.731571 GCGCATACCCTCTCACCCA 61.732 63.158 0.30 0.00 0.00 4.51
5464 10749 2.109181 GCGCATACCCTCTCACCC 59.891 66.667 0.30 0.00 0.00 4.61
5465 10750 2.279517 CGCGCATACCCTCTCACC 60.280 66.667 8.75 0.00 0.00 4.02
5466 10751 1.141019 TTCGCGCATACCCTCTCAC 59.859 57.895 8.75 0.00 0.00 3.51
5467 10752 1.141019 GTTCGCGCATACCCTCTCA 59.859 57.895 8.75 0.00 0.00 3.27
5468 10753 0.249489 ATGTTCGCGCATACCCTCTC 60.249 55.000 8.75 0.00 0.00 3.20
5469 10754 0.178068 AATGTTCGCGCATACCCTCT 59.822 50.000 8.75 0.00 0.00 3.69
5470 10755 1.792949 CTAATGTTCGCGCATACCCTC 59.207 52.381 8.75 0.00 0.00 4.30
5471 10756 1.865865 CTAATGTTCGCGCATACCCT 58.134 50.000 8.75 0.00 0.00 4.34
5472 10757 0.234884 GCTAATGTTCGCGCATACCC 59.765 55.000 8.75 0.00 0.00 3.69
5473 10758 0.934496 TGCTAATGTTCGCGCATACC 59.066 50.000 8.75 0.00 0.00 2.73
5474 10759 2.476619 AGATGCTAATGTTCGCGCATAC 59.523 45.455 8.75 4.90 42.60 2.39
5475 10760 2.754472 AGATGCTAATGTTCGCGCATA 58.246 42.857 8.75 0.00 42.60 3.14
5476 10761 1.586422 AGATGCTAATGTTCGCGCAT 58.414 45.000 8.75 0.00 44.97 4.73
5477 10762 2.217429 TAGATGCTAATGTTCGCGCA 57.783 45.000 8.75 0.00 36.75 6.09
5478 10763 3.795561 ATTAGATGCTAATGTTCGCGC 57.204 42.857 0.00 0.00 0.00 6.86
5479 10764 5.175673 TCAGAATTAGATGCTAATGTTCGCG 59.824 40.000 0.00 0.00 0.00 5.87
5480 10765 6.530913 TCAGAATTAGATGCTAATGTTCGC 57.469 37.500 0.00 0.00 0.00 4.70
5481 10766 8.357796 TCTTCAGAATTAGATGCTAATGTTCG 57.642 34.615 0.00 0.00 0.00 3.95
5491 10776 4.518211 GGGTGGCATCTTCAGAATTAGATG 59.482 45.833 10.40 10.40 46.70 2.90
5492 10777 4.446889 GGGGTGGCATCTTCAGAATTAGAT 60.447 45.833 0.00 0.00 0.00 1.98
5493 10778 3.117888 GGGGTGGCATCTTCAGAATTAGA 60.118 47.826 0.00 0.00 0.00 2.10
5494 10779 3.217626 GGGGTGGCATCTTCAGAATTAG 58.782 50.000 0.00 0.00 0.00 1.73
5495 10780 2.091885 GGGGGTGGCATCTTCAGAATTA 60.092 50.000 0.00 0.00 0.00 1.40
5496 10781 1.342374 GGGGGTGGCATCTTCAGAATT 60.342 52.381 0.00 0.00 0.00 2.17
5497 10782 0.259938 GGGGGTGGCATCTTCAGAAT 59.740 55.000 0.00 0.00 0.00 2.40
5498 10783 1.691219 GGGGGTGGCATCTTCAGAA 59.309 57.895 0.00 0.00 0.00 3.02
5499 10784 2.669133 CGGGGGTGGCATCTTCAGA 61.669 63.158 0.00 0.00 0.00 3.27
5500 10785 2.124570 CGGGGGTGGCATCTTCAG 60.125 66.667 0.00 0.00 0.00 3.02
5501 10786 3.727258 CCGGGGGTGGCATCTTCA 61.727 66.667 0.00 0.00 0.00 3.02
5502 10787 3.406595 CTCCGGGGGTGGCATCTTC 62.407 68.421 0.00 0.00 0.00 2.87
5503 10788 3.411517 CTCCGGGGGTGGCATCTT 61.412 66.667 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.