Multiple sequence alignment - TraesCS5A01G431000

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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 TraesCS5A01G431000 chr5A 100.000 3119 0 0 1 3119 615158650 615155532 0.000000e+00 5760.0
1 TraesCS5A01G431000 chr5A 78.831 633 61 33 438 1049 614957715 614957135 2.960000e-95 359.0
2 TraesCS5A01G431000 chr5A 78.391 634 63 35 438 1049 614829792 614829211 8.280000e-91 344.0
3 TraesCS5A01G431000 chr5A 78.357 633 64 33 438 1049 614923839 614923259 2.980000e-90 342.0
4 TraesCS5A01G431000 chr5A 78.199 633 64 23 438 1049 614738828 614738249 1.390000e-88 337.0
5 TraesCS5A01G431000 chr5A 78.441 603 60 31 465 1049 614767856 614767306 2.320000e-86 329.0
6 TraesCS5A01G431000 chr5A 78.076 634 61 38 443 1049 614910593 614910011 2.320000e-86 329.0
7 TraesCS5A01G431000 chr5A 78.297 599 62 32 465 1046 614888083 614887536 1.080000e-84 324.0
8 TraesCS5A01G431000 chr5A 77.725 633 69 27 438 1049 614825870 614825289 3.880000e-84 322.0
9 TraesCS5A01G431000 chr5A 77.708 637 60 38 438 1049 614802938 614802359 6.490000e-82 315.0
10 TraesCS5A01G431000 chr5A 77.963 599 64 34 465 1046 614892245 614891698 2.340000e-81 313.0
11 TraesCS5A01G431000 chr5A 77.201 636 67 42 438 1049 614846293 614845712 1.820000e-77 300.0
12 TraesCS5A01G431000 chr5A 79.870 308 38 14 438 734 614772042 614771748 1.470000e-48 204.0
13 TraesCS5A01G431000 chr5D 90.026 2286 139 40 226 2461 492744541 492746787 0.000000e+00 2876.0
14 TraesCS5A01G431000 chr5D 85.113 927 111 17 1231 2144 492183315 492182403 0.000000e+00 922.0
15 TraesCS5A01G431000 chr5D 79.781 1276 176 43 883 2144 492293071 492291864 0.000000e+00 852.0
16 TraesCS5A01G431000 chr5D 89.121 671 56 12 2461 3119 492746871 492747536 0.000000e+00 819.0
17 TraesCS5A01G431000 chr5D 84.934 677 84 7 1514 2186 492155324 492154662 0.000000e+00 669.0
18 TraesCS5A01G431000 chr5D 84.370 691 90 8 1505 2191 492172765 492172089 0.000000e+00 662.0
19 TraesCS5A01G431000 chr5D 83.960 692 91 13 1505 2191 492149066 492148390 0.000000e+00 645.0
20 TraesCS5A01G431000 chr5D 83.333 678 98 9 1231 1900 492235212 492234542 2.060000e-171 612.0
21 TraesCS5A01G431000 chr5D 91.403 221 16 3 1 220 507914123 507914341 1.820000e-77 300.0
22 TraesCS5A01G431000 chr5D 81.044 364 48 13 1398 1754 492170572 492170223 1.430000e-68 270.0
23 TraesCS5A01G431000 chr5D 80.769 364 50 12 1398 1754 492153135 492152785 1.840000e-67 267.0
24 TraesCS5A01G431000 chr5D 85.417 96 11 3 2357 2451 492226315 492226222 2.560000e-16 97.1
25 TraesCS5A01G431000 chr5D 86.667 75 7 3 2366 2439 492137121 492137049 2.580000e-11 80.5
26 TraesCS5A01G431000 chr5D 81.373 102 10 6 438 532 492156679 492156580 1.200000e-09 75.0
27 TraesCS5A01G431000 chr5D 80.392 102 11 6 438 532 492147648 492147549 5.580000e-08 69.4
28 TraesCS5A01G431000 chr5B 91.176 1258 91 14 1220 2461 607468292 607467039 0.000000e+00 1690.0
29 TraesCS5A01G431000 chr5B 80.187 1282 169 42 883 2144 607059395 607058179 0.000000e+00 881.0
30 TraesCS5A01G431000 chr5B 80.094 1281 172 37 883 2144 607114600 607113384 0.000000e+00 876.0
31 TraesCS5A01G431000 chr5B 79.474 1330 178 46 883 2193 607136170 607134917 0.000000e+00 856.0
32 TraesCS5A01G431000 chr5B 79.967 1228 170 30 883 2095 607126080 607124914 0.000000e+00 835.0
33 TraesCS5A01G431000 chr5B 79.886 1228 171 31 883 2095 607070568 607069402 0.000000e+00 830.0
34 TraesCS5A01G431000 chr5B 89.307 664 63 7 2461 3119 607466957 607466297 0.000000e+00 826.0
35 TraesCS5A01G431000 chr5B 79.218 1227 181 31 883 2095 606986393 606985227 0.000000e+00 785.0
36 TraesCS5A01G431000 chr5B 92.308 494 27 9 733 1217 607470814 607470323 0.000000e+00 691.0
37 TraesCS5A01G431000 chr5B 87.959 490 32 8 227 716 607471344 607470882 1.260000e-153 553.0
38 TraesCS5A01G431000 chr5B 84.340 530 64 13 1594 2123 606927078 606926568 4.640000e-138 501.0
39 TraesCS5A01G431000 chr5B 81.759 614 81 17 1584 2193 607035182 607034596 4.680000e-133 484.0
40 TraesCS5A01G431000 chr5B 84.225 374 49 7 1774 2144 607207526 607207160 3.830000e-94 355.0
41 TraesCS5A01G431000 chr5B 80.123 488 64 20 1842 2322 607021452 607020991 1.790000e-87 333.0
42 TraesCS5A01G431000 chr5B 79.918 488 65 23 1842 2322 607079706 607079245 8.340000e-86 327.0
43 TraesCS5A01G431000 chr5B 89.231 130 9 3 2254 2381 606983914 606983788 1.160000e-34 158.0
44 TraesCS5A01G431000 chr5B 89.231 130 9 3 2254 2381 607034591 607034465 1.160000e-34 158.0
45 TraesCS5A01G431000 chr5B 89.231 130 9 3 2254 2381 607091272 607091146 1.160000e-34 158.0
46 TraesCS5A01G431000 chr5B 89.231 130 9 3 2254 2381 607134912 607134786 1.160000e-34 158.0
47 TraesCS5A01G431000 chr5B 88.462 130 10 3 2254 2381 607024857 607024731 5.390000e-33 152.0
48 TraesCS5A01G431000 chr6D 92.760 221 14 2 1 220 84663656 84663437 5.020000e-83 318.0
49 TraesCS5A01G431000 chr4D 92.627 217 14 2 1 216 438159523 438159738 8.400000e-81 311.0
50 TraesCS5A01G431000 chr3D 88.000 100 8 3 340 439 611880930 611880835 7.070000e-22 115.0


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 TraesCS5A01G431000 chr5A 615155532 615158650 3118 True 5760.00 5760 100.0000 1 3119 1 chr5A.!!$R7 3118
1 TraesCS5A01G431000 chr5A 614957135 614957715 580 True 359.00 359 78.8310 438 1049 1 chr5A.!!$R6 611
2 TraesCS5A01G431000 chr5A 614923259 614923839 580 True 342.00 342 78.3570 438 1049 1 chr5A.!!$R5 611
3 TraesCS5A01G431000 chr5A 614738249 614738828 579 True 337.00 337 78.1990 438 1049 1 chr5A.!!$R1 611
4 TraesCS5A01G431000 chr5A 614825289 614829792 4503 True 333.00 344 78.0580 438 1049 2 chr5A.!!$R9 611
5 TraesCS5A01G431000 chr5A 614910011 614910593 582 True 329.00 329 78.0760 443 1049 1 chr5A.!!$R4 606
6 TraesCS5A01G431000 chr5A 614887536 614892245 4709 True 318.50 324 78.1300 465 1046 2 chr5A.!!$R10 581
7 TraesCS5A01G431000 chr5A 614802359 614802938 579 True 315.00 315 77.7080 438 1049 1 chr5A.!!$R2 611
8 TraesCS5A01G431000 chr5A 614845712 614846293 581 True 300.00 300 77.2010 438 1049 1 chr5A.!!$R3 611
9 TraesCS5A01G431000 chr5A 614767306 614772042 4736 True 266.50 329 79.1555 438 1049 2 chr5A.!!$R8 611
10 TraesCS5A01G431000 chr5D 492744541 492747536 2995 False 1847.50 2876 89.5735 226 3119 2 chr5D.!!$F2 2893
11 TraesCS5A01G431000 chr5D 492182403 492183315 912 True 922.00 922 85.1130 1231 2144 1 chr5D.!!$R2 913
12 TraesCS5A01G431000 chr5D 492291864 492293071 1207 True 852.00 852 79.7810 883 2144 1 chr5D.!!$R5 1261
13 TraesCS5A01G431000 chr5D 492234542 492235212 670 True 612.00 612 83.3330 1231 1900 1 chr5D.!!$R4 669
14 TraesCS5A01G431000 chr5D 492170223 492172765 2542 True 466.00 662 82.7070 1398 2191 2 chr5D.!!$R7 793
15 TraesCS5A01G431000 chr5D 492147549 492156679 9130 True 345.08 669 82.2856 438 2191 5 chr5D.!!$R6 1753
16 TraesCS5A01G431000 chr5B 607466297 607471344 5047 True 940.00 1690 90.1875 227 3119 4 chr5B.!!$R13 2892
17 TraesCS5A01G431000 chr5B 607058179 607059395 1216 True 881.00 881 80.1870 883 2144 1 chr5B.!!$R2 1261
18 TraesCS5A01G431000 chr5B 607113384 607114600 1216 True 876.00 876 80.0940 883 2144 1 chr5B.!!$R6 1261
19 TraesCS5A01G431000 chr5B 607124914 607126080 1166 True 835.00 835 79.9670 883 2095 1 chr5B.!!$R7 1212
20 TraesCS5A01G431000 chr5B 607069402 607070568 1166 True 830.00 830 79.8860 883 2095 1 chr5B.!!$R3 1212
21 TraesCS5A01G431000 chr5B 607134786 607136170 1384 True 507.00 856 84.3525 883 2381 2 chr5B.!!$R12 1498
22 TraesCS5A01G431000 chr5B 606926568 606927078 510 True 501.00 501 84.3400 1594 2123 1 chr5B.!!$R1 529
23 TraesCS5A01G431000 chr5B 606983788 606986393 2605 True 471.50 785 84.2245 883 2381 2 chr5B.!!$R9 1498
24 TraesCS5A01G431000 chr5B 607034465 607035182 717 True 321.00 484 85.4950 1584 2381 2 chr5B.!!$R11 797
25 TraesCS5A01G431000 chr5B 607020991 607024857 3866 True 242.50 333 84.2925 1842 2381 2 chr5B.!!$R10 539

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
165 166 0.033228 CCGCTCCCTTATGCTCTCTG 59.967 60.0 0.00 0.0 0.00 3.35 F
177 178 0.107459 GCTCTCTGAATTTCGGCCCT 60.107 55.0 0.00 0.0 0.00 5.19 F
1638 4230 0.111061 AGCTCCAGCACAAACATGGA 59.889 50.0 0.48 0.0 45.16 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 4380 0.317770 CGTTTGTGTTGAAGCCGCAT 60.318 50.0 0.0 0.0 0.0 4.73 R
1800 10666 0.691904 TAATCGGGTTGGGGTCGTTT 59.308 50.0 0.0 0.0 0.0 3.60 R
2941 14248 2.731691 TTCGACTTGCCCACCAGCTC 62.732 60.0 0.0 0.0 0.0 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
22 23 2.760092 TGGACATAAAGAAAGCCATGGC 59.240 45.455 30.12 30.12 42.33 4.40
23 24 2.101415 GGACATAAAGAAAGCCATGGCC 59.899 50.000 33.14 18.09 39.32 5.36
26 27 1.750193 TAAAGAAAGCCATGGCCTCG 58.250 50.000 33.14 0.00 43.17 4.63
27 28 0.251341 AAAGAAAGCCATGGCCTCGT 60.251 50.000 33.14 23.48 43.17 4.18
29 30 0.678048 AGAAAGCCATGGCCTCGTTC 60.678 55.000 33.14 26.94 43.17 3.95
30 31 0.678048 GAAAGCCATGGCCTCGTTCT 60.678 55.000 33.14 10.12 43.17 3.01
31 32 0.678048 AAAGCCATGGCCTCGTTCTC 60.678 55.000 33.14 2.26 43.17 2.87
32 33 1.841302 AAGCCATGGCCTCGTTCTCA 61.841 55.000 33.14 0.00 43.17 3.27
33 34 1.817099 GCCATGGCCTCGTTCTCAG 60.817 63.158 27.24 0.00 34.56 3.35
34 35 1.817099 CCATGGCCTCGTTCTCAGC 60.817 63.158 3.32 0.00 0.00 4.26
38 39 2.394563 GGCCTCGTTCTCAGCTTGC 61.395 63.158 0.00 0.00 0.00 4.01
39 40 1.669115 GCCTCGTTCTCAGCTTGCA 60.669 57.895 0.00 0.00 0.00 4.08
41 42 0.320247 CCTCGTTCTCAGCTTGCAGT 60.320 55.000 0.00 0.00 0.00 4.40
42 43 0.788995 CTCGTTCTCAGCTTGCAGTG 59.211 55.000 0.00 0.00 0.00 3.66
43 44 0.104855 TCGTTCTCAGCTTGCAGTGT 59.895 50.000 0.00 0.00 0.00 3.55
44 45 0.510359 CGTTCTCAGCTTGCAGTGTC 59.490 55.000 0.00 0.00 0.00 3.67
45 46 1.586422 GTTCTCAGCTTGCAGTGTCA 58.414 50.000 0.00 0.00 0.00 3.58
46 47 1.942657 GTTCTCAGCTTGCAGTGTCAA 59.057 47.619 0.00 0.00 0.00 3.18
47 48 2.330440 TCTCAGCTTGCAGTGTCAAA 57.670 45.000 0.00 0.00 0.00 2.69
50 51 1.610038 TCAGCTTGCAGTGTCAAATGG 59.390 47.619 0.00 0.00 0.00 3.16
51 52 0.963962 AGCTTGCAGTGTCAAATGGG 59.036 50.000 0.00 0.00 0.00 4.00
53 54 1.603678 GCTTGCAGTGTCAAATGGGTG 60.604 52.381 0.00 0.00 0.00 4.61
54 55 1.955778 CTTGCAGTGTCAAATGGGTGA 59.044 47.619 0.00 0.00 0.00 4.02
55 56 1.608055 TGCAGTGTCAAATGGGTGAG 58.392 50.000 0.00 0.00 0.00 3.51
56 57 0.883833 GCAGTGTCAAATGGGTGAGG 59.116 55.000 0.00 0.00 0.00 3.86
57 58 1.545428 GCAGTGTCAAATGGGTGAGGA 60.545 52.381 0.00 0.00 0.00 3.71
58 59 2.430465 CAGTGTCAAATGGGTGAGGAG 58.570 52.381 0.00 0.00 0.00 3.69
61 62 2.061848 TGTCAAATGGGTGAGGAGGAA 58.938 47.619 0.00 0.00 0.00 3.36
65 66 2.040278 CAAATGGGTGAGGAGGAACAGA 59.960 50.000 0.00 0.00 0.00 3.41
66 67 2.044793 ATGGGTGAGGAGGAACAGAA 57.955 50.000 0.00 0.00 0.00 3.02
68 69 1.420138 TGGGTGAGGAGGAACAGAAAC 59.580 52.381 0.00 0.00 0.00 2.78
69 70 1.700186 GGGTGAGGAGGAACAGAAACT 59.300 52.381 0.00 0.00 0.00 2.66
70 71 2.289756 GGGTGAGGAGGAACAGAAACTC 60.290 54.545 0.00 0.00 0.00 3.01
71 72 2.368875 GGTGAGGAGGAACAGAAACTCA 59.631 50.000 0.00 0.00 32.98 3.41
74 75 4.453819 GTGAGGAGGAACAGAAACTCATTG 59.546 45.833 0.00 0.00 37.32 2.82
75 76 4.006319 GAGGAGGAACAGAAACTCATTGG 58.994 47.826 0.00 0.00 32.98 3.16
76 77 2.489722 GGAGGAACAGAAACTCATTGGC 59.510 50.000 0.00 0.00 32.98 4.52
77 78 2.489722 GAGGAACAGAAACTCATTGGCC 59.510 50.000 0.00 0.00 0.00 5.36
78 79 1.546029 GGAACAGAAACTCATTGGCCC 59.454 52.381 0.00 0.00 0.00 5.80
79 80 2.238521 GAACAGAAACTCATTGGCCCA 58.761 47.619 0.00 0.00 0.00 5.36
81 82 2.173519 ACAGAAACTCATTGGCCCATG 58.826 47.619 10.62 10.62 0.00 3.66
82 83 1.479323 CAGAAACTCATTGGCCCATGG 59.521 52.381 16.39 4.14 0.00 3.66
83 84 1.358787 AGAAACTCATTGGCCCATGGA 59.641 47.619 15.22 3.34 0.00 3.41
84 85 1.478105 GAAACTCATTGGCCCATGGAC 59.522 52.381 15.22 0.00 0.00 4.02
87 88 0.754217 CTCATTGGCCCATGGACTGG 60.754 60.000 15.22 0.00 45.51 4.00
88 89 2.042639 ATTGGCCCATGGACTGGC 60.043 61.111 15.22 9.87 44.46 4.85
99 100 4.373116 GACTGGCCGCGGAGACAA 62.373 66.667 33.48 3.12 0.00 3.18
100 101 3.876589 GACTGGCCGCGGAGACAAA 62.877 63.158 33.48 5.45 0.00 2.83
103 104 1.982073 CTGGCCGCGGAGACAAAATC 61.982 60.000 33.48 7.28 0.00 2.17
104 105 2.761195 GGCCGCGGAGACAAAATCC 61.761 63.158 33.48 13.71 0.00 3.01
105 106 2.038269 GCCGCGGAGACAAAATCCA 61.038 57.895 33.48 0.00 36.57 3.41
106 107 1.794222 CCGCGGAGACAAAATCCAC 59.206 57.895 24.07 0.00 36.57 4.02
108 109 0.443869 CGCGGAGACAAAATCCACAG 59.556 55.000 0.00 0.00 36.57 3.66
109 110 0.804989 GCGGAGACAAAATCCACAGG 59.195 55.000 0.00 0.00 36.57 4.00
110 111 1.610624 GCGGAGACAAAATCCACAGGA 60.611 52.381 0.00 0.00 36.57 3.86
111 112 2.350522 CGGAGACAAAATCCACAGGAG 58.649 52.381 0.00 0.00 36.57 3.69
113 114 3.604582 GGAGACAAAATCCACAGGAGAG 58.395 50.000 0.00 0.00 36.79 3.20
114 115 3.006247 GAGACAAAATCCACAGGAGAGC 58.994 50.000 0.00 0.00 34.05 4.09
115 116 2.373169 AGACAAAATCCACAGGAGAGCA 59.627 45.455 0.00 0.00 34.05 4.26
117 118 4.225942 AGACAAAATCCACAGGAGAGCATA 59.774 41.667 0.00 0.00 34.05 3.14
118 119 4.265073 ACAAAATCCACAGGAGAGCATAC 58.735 43.478 0.00 0.00 34.05 2.39
119 120 2.898729 AATCCACAGGAGAGCATACG 57.101 50.000 0.00 0.00 34.05 3.06
123 124 4.255695 ATCCACAGGAGAGCATACGCTAA 61.256 47.826 0.00 0.00 40.61 3.09
124 125 5.539204 ATCCACAGGAGAGCATACGCTAAT 61.539 45.833 0.00 0.00 40.61 1.73
125 126 7.296129 ATCCACAGGAGAGCATACGCTAATC 62.296 48.000 0.00 0.00 40.61 1.75
133 134 3.001395 GCATACGCTAATCTCTGACGT 57.999 47.619 0.00 0.00 40.53 4.34
134 135 4.143194 GCATACGCTAATCTCTGACGTA 57.857 45.455 0.00 0.00 42.62 3.57
135 136 3.907194 GCATACGCTAATCTCTGACGTAC 59.093 47.826 0.00 0.00 41.43 3.67
136 137 4.465016 CATACGCTAATCTCTGACGTACC 58.535 47.826 0.00 0.00 41.43 3.34
137 138 1.329906 ACGCTAATCTCTGACGTACCG 59.670 52.381 0.00 0.00 34.79 4.02
139 140 2.031314 CGCTAATCTCTGACGTACCGAA 59.969 50.000 0.00 0.00 0.00 4.30
141 142 4.084171 CGCTAATCTCTGACGTACCGAATA 60.084 45.833 0.00 0.00 0.00 1.75
143 144 3.900388 ATCTCTGACGTACCGAATAGC 57.100 47.619 0.00 0.00 0.00 2.97
144 145 1.945394 TCTCTGACGTACCGAATAGCC 59.055 52.381 0.00 0.00 0.00 3.93
145 146 1.948145 CTCTGACGTACCGAATAGCCT 59.052 52.381 0.00 0.00 0.00 4.58
146 147 1.945394 TCTGACGTACCGAATAGCCTC 59.055 52.381 0.00 0.00 0.00 4.70
147 148 1.001597 CTGACGTACCGAATAGCCTCC 60.002 57.143 0.00 0.00 0.00 4.30
149 150 1.371389 CGTACCGAATAGCCTCCGC 60.371 63.158 0.00 0.00 0.00 5.54
151 152 0.039346 GTACCGAATAGCCTCCGCTC 60.039 60.000 0.00 0.00 43.95 5.03
153 154 2.340443 CGAATAGCCTCCGCTCCC 59.660 66.667 0.00 0.00 43.95 4.30
154 155 2.203771 CGAATAGCCTCCGCTCCCT 61.204 63.158 0.00 0.00 43.95 4.20
155 156 1.749334 CGAATAGCCTCCGCTCCCTT 61.749 60.000 0.00 0.00 43.95 3.95
156 157 1.339097 GAATAGCCTCCGCTCCCTTA 58.661 55.000 0.00 0.00 43.95 2.69
158 159 1.270907 ATAGCCTCCGCTCCCTTATG 58.729 55.000 0.00 0.00 43.95 1.90
160 161 2.812619 GCCTCCGCTCCCTTATGCT 61.813 63.158 0.00 0.00 0.00 3.79
161 162 1.369321 CCTCCGCTCCCTTATGCTC 59.631 63.158 0.00 0.00 0.00 4.26
163 164 0.316841 CTCCGCTCCCTTATGCTCTC 59.683 60.000 0.00 0.00 0.00 3.20
165 166 0.033228 CCGCTCCCTTATGCTCTCTG 59.967 60.000 0.00 0.00 0.00 3.35
167 168 1.410517 CGCTCCCTTATGCTCTCTGAA 59.589 52.381 0.00 0.00 0.00 3.02
168 169 2.036992 CGCTCCCTTATGCTCTCTGAAT 59.963 50.000 0.00 0.00 0.00 2.57
169 170 3.494048 CGCTCCCTTATGCTCTCTGAATT 60.494 47.826 0.00 0.00 0.00 2.17
171 172 4.514816 GCTCCCTTATGCTCTCTGAATTTC 59.485 45.833 0.00 0.00 0.00 2.17
173 174 3.812053 CCCTTATGCTCTCTGAATTTCGG 59.188 47.826 0.00 0.00 0.00 4.30
174 175 3.249559 CCTTATGCTCTCTGAATTTCGGC 59.750 47.826 0.00 0.00 0.00 5.54
175 176 1.673168 ATGCTCTCTGAATTTCGGCC 58.327 50.000 0.00 0.00 0.00 6.13
177 178 0.107459 GCTCTCTGAATTTCGGCCCT 60.107 55.000 0.00 0.00 0.00 5.19
178 179 1.680249 GCTCTCTGAATTTCGGCCCTT 60.680 52.381 0.00 0.00 0.00 3.95
179 180 2.716217 CTCTCTGAATTTCGGCCCTTT 58.284 47.619 0.00 0.00 0.00 3.11
180 181 3.084786 CTCTCTGAATTTCGGCCCTTTT 58.915 45.455 0.00 0.00 0.00 2.27
181 182 3.081804 TCTCTGAATTTCGGCCCTTTTC 58.918 45.455 0.00 0.00 0.00 2.29
183 184 2.819608 TCTGAATTTCGGCCCTTTTCTG 59.180 45.455 0.00 0.26 0.00 3.02
184 185 2.819608 CTGAATTTCGGCCCTTTTCTGA 59.180 45.455 0.00 0.00 0.00 3.27
187 188 3.713826 ATTTCGGCCCTTTTCTGAGTA 57.286 42.857 0.00 0.00 0.00 2.59
188 189 2.762535 TTCGGCCCTTTTCTGAGTAG 57.237 50.000 0.00 0.00 0.00 2.57
191 192 0.744771 GGCCCTTTTCTGAGTAGGCG 60.745 60.000 0.00 0.00 41.41 5.52
193 194 2.007547 GCCCTTTTCTGAGTAGGCGTC 61.008 57.143 2.54 0.00 0.00 5.19
194 195 1.405661 CCCTTTTCTGAGTAGGCGTCC 60.406 57.143 2.54 0.00 0.00 4.79
196 197 2.758979 CCTTTTCTGAGTAGGCGTCCTA 59.241 50.000 1.99 1.99 34.61 2.94
206 207 1.465794 AGGCGTCCTACTCTGTTCTC 58.534 55.000 0.00 0.00 28.47 2.87
209 210 2.029290 GGCGTCCTACTCTGTTCTCAAA 60.029 50.000 0.00 0.00 0.00 2.69
211 212 4.056050 GCGTCCTACTCTGTTCTCAAAAA 58.944 43.478 0.00 0.00 0.00 1.94
276 277 2.414825 GCAGTCAAAGCTAGCTTCAGAC 59.585 50.000 33.91 33.91 39.31 3.51
282 283 5.180117 GTCAAAGCTAGCTTCAGACAATTGA 59.820 40.000 34.86 26.96 39.08 2.57
294 295 5.105063 TCAGACAATTGATTCAGAGCTACG 58.895 41.667 13.59 0.00 0.00 3.51
316 317 7.469537 ACGGAGGGAGTAATTCAGATATAAG 57.530 40.000 0.00 0.00 0.00 1.73
482 503 1.774254 TCCATTCAATCCACGGGCTAT 59.226 47.619 0.00 0.00 0.00 2.97
483 504 2.976185 TCCATTCAATCCACGGGCTATA 59.024 45.455 0.00 0.00 0.00 1.31
485 506 2.543777 TTCAATCCACGGGCTATAGC 57.456 50.000 16.78 16.78 41.14 2.97
486 507 1.717032 TCAATCCACGGGCTATAGCT 58.283 50.000 23.53 1.64 41.70 3.32
559 591 0.552367 AATGTGGTGGGGATGGAGGA 60.552 55.000 0.00 0.00 0.00 3.71
598 630 3.866582 GGGATGGACGGCTGGGAG 61.867 72.222 0.00 0.00 0.00 4.30
600 632 2.143419 GGATGGACGGCTGGGAGAT 61.143 63.158 0.00 0.00 0.00 2.75
601 633 1.070445 GATGGACGGCTGGGAGATG 59.930 63.158 0.00 0.00 0.00 2.90
602 634 2.388890 GATGGACGGCTGGGAGATGG 62.389 65.000 0.00 0.00 0.00 3.51
687 719 4.598894 CCCGGATCGCTGGAGCTG 62.599 72.222 0.73 0.00 43.76 4.24
688 720 3.531207 CCGGATCGCTGGAGCTGA 61.531 66.667 0.00 0.00 43.76 4.26
788 871 1.592131 CGTTCGGTTCGTGTGGGAA 60.592 57.895 0.00 0.00 0.00 3.97
1638 4230 0.111061 AGCTCCAGCACAAACATGGA 59.889 50.000 0.48 0.00 45.16 3.41
1644 4236 1.081242 GCACAAACATGGACTGCCG 60.081 57.895 0.00 0.00 36.79 5.69
1653 4245 3.462678 GGACTGCCGAGGGACCTC 61.463 72.222 8.33 8.33 39.55 3.85
1765 4360 3.077556 TCTGCCGAGCCTTCCTCC 61.078 66.667 0.00 0.00 37.27 4.30
1785 4380 4.207281 CCCTTCGAGATCGCCGCA 62.207 66.667 0.00 0.00 39.60 5.69
1800 10666 2.644418 GCATGCGGCTTCAACACA 59.356 55.556 0.00 0.00 40.25 3.72
1812 10678 1.096416 TCAACACAAACGACCCCAAC 58.904 50.000 0.00 0.00 0.00 3.77
1982 11174 0.611714 ATCAACGGTCAGGGGTACAC 59.388 55.000 0.00 0.00 0.00 2.90
2144 12578 2.725008 CGATCCTCTCGCTGGGAC 59.275 66.667 0.00 0.00 41.14 4.46
2167 12601 5.244851 ACCCTAGTATCTCATACTGCATGTG 59.755 44.000 6.46 0.00 45.24 3.21
2177 12611 0.466007 ACTGCATGTGAACTGTGCCA 60.466 50.000 0.00 0.00 38.06 4.92
2271 12746 4.711399 TGTATCGTAGTGAGCTAGCCTAA 58.289 43.478 12.13 0.00 0.00 2.69
2272 12747 4.755629 TGTATCGTAGTGAGCTAGCCTAAG 59.244 45.833 12.13 8.44 0.00 2.18
2339 12819 8.580720 CAGCTAGCTCTCCTTAATTATGTTCTA 58.419 37.037 16.15 0.00 0.00 2.10
2376 12860 8.128582 TCCGATTATGAATGCAATCTTTTGTAC 58.871 33.333 2.94 0.00 35.17 2.90
2432 12916 2.332654 GGGGCAGTTGCAAGGTACG 61.333 63.158 0.00 0.00 44.36 3.67
2439 13034 3.425193 GCAGTTGCAAGGTACGATTTTTG 59.575 43.478 0.00 0.00 41.59 2.44
2455 13050 4.737855 TTTTTGTGTGGGGAATTTCGAA 57.262 36.364 0.00 0.00 0.00 3.71
2567 13653 7.672983 ATGGCGGATGTATTATCTTGTTAAG 57.327 36.000 0.00 0.00 0.00 1.85
2582 13668 5.233476 TCTTGTTAAGCGCTTACCGAATATG 59.767 40.000 28.76 15.76 40.02 1.78
2728 13976 6.091034 GCACTACAGTTCCTAAGAAGTTTAGC 59.909 42.308 3.09 0.00 38.47 3.09
2794 14101 9.433153 TCTTGCTCAGATTTGCAGAATATATAG 57.567 33.333 0.00 0.00 40.46 1.31
2898 14205 8.579863 CCCTCCTTGAAATCATTACCATATTTC 58.420 37.037 0.00 0.00 39.16 2.17
2901 14208 9.135189 TCCTTGAAATCATTACCATATTTCCAG 57.865 33.333 0.00 0.00 38.34 3.86
2941 14248 1.293924 CTTAGATTGACTGGCAGCCG 58.706 55.000 15.89 4.22 0.00 5.52
2969 14278 3.063997 GTGGGCAAGTCGAATATGTTCAG 59.936 47.826 2.95 0.00 33.86 3.02
2971 14280 4.081365 TGGGCAAGTCGAATATGTTCAGTA 60.081 41.667 2.95 0.00 33.86 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.026694 AGGCCATGGCTTTCTTTATGTC 58.973 45.455 34.70 14.37 41.60 3.06
5 6 2.033801 CGAGGCCATGGCTTTCTTTATG 59.966 50.000 34.70 15.53 38.98 1.90
7 8 1.004277 ACGAGGCCATGGCTTTCTTTA 59.996 47.619 34.70 0.00 38.98 1.85
9 10 0.251341 AACGAGGCCATGGCTTTCTT 60.251 50.000 34.70 22.32 38.98 2.52
10 11 0.678048 GAACGAGGCCATGGCTTTCT 60.678 55.000 34.70 23.88 38.98 2.52
11 12 0.678048 AGAACGAGGCCATGGCTTTC 60.678 55.000 34.70 28.25 38.98 2.62
13 14 1.078143 GAGAACGAGGCCATGGCTT 60.078 57.895 34.70 29.53 38.98 4.35
14 15 2.249413 CTGAGAACGAGGCCATGGCT 62.249 60.000 34.70 21.29 42.48 4.75
18 19 0.392193 CAAGCTGAGAACGAGGCCAT 60.392 55.000 5.01 0.00 0.00 4.40
19 20 1.004560 CAAGCTGAGAACGAGGCCA 60.005 57.895 5.01 0.00 0.00 5.36
21 22 1.633852 CTGCAAGCTGAGAACGAGGC 61.634 60.000 0.00 0.00 0.00 4.70
22 23 0.320247 ACTGCAAGCTGAGAACGAGG 60.320 55.000 5.93 0.00 37.60 4.63
23 24 0.788995 CACTGCAAGCTGAGAACGAG 59.211 55.000 5.93 0.00 37.60 4.18
26 27 1.586422 TGACACTGCAAGCTGAGAAC 58.414 50.000 5.93 0.28 37.60 3.01
27 28 2.330440 TTGACACTGCAAGCTGAGAA 57.670 45.000 5.93 0.00 37.60 2.87
29 30 2.351447 CCATTTGACACTGCAAGCTGAG 60.351 50.000 5.93 0.56 37.60 3.35
30 31 1.610038 CCATTTGACACTGCAAGCTGA 59.390 47.619 5.93 0.00 37.60 4.26
31 32 1.336517 CCCATTTGACACTGCAAGCTG 60.337 52.381 0.00 0.00 37.60 4.24
32 33 0.963962 CCCATTTGACACTGCAAGCT 59.036 50.000 0.00 0.00 37.60 3.74
33 34 0.675633 ACCCATTTGACACTGCAAGC 59.324 50.000 0.00 0.00 37.60 4.01
34 35 1.955778 TCACCCATTTGACACTGCAAG 59.044 47.619 0.00 0.00 42.29 4.01
38 39 2.430465 CTCCTCACCCATTTGACACTG 58.570 52.381 0.00 0.00 0.00 3.66
39 40 1.352352 CCTCCTCACCCATTTGACACT 59.648 52.381 0.00 0.00 0.00 3.55
41 42 1.741028 TCCTCCTCACCCATTTGACA 58.259 50.000 0.00 0.00 0.00 3.58
42 43 2.224769 TGTTCCTCCTCACCCATTTGAC 60.225 50.000 0.00 0.00 0.00 3.18
43 44 2.040278 CTGTTCCTCCTCACCCATTTGA 59.960 50.000 0.00 0.00 0.00 2.69
44 45 2.040278 TCTGTTCCTCCTCACCCATTTG 59.960 50.000 0.00 0.00 0.00 2.32
45 46 2.348472 TCTGTTCCTCCTCACCCATTT 58.652 47.619 0.00 0.00 0.00 2.32
46 47 2.044793 TCTGTTCCTCCTCACCCATT 57.955 50.000 0.00 0.00 0.00 3.16
47 48 2.040412 GTTTCTGTTCCTCCTCACCCAT 59.960 50.000 0.00 0.00 0.00 4.00
50 51 2.368875 TGAGTTTCTGTTCCTCCTCACC 59.631 50.000 0.00 0.00 0.00 4.02
51 52 3.753294 TGAGTTTCTGTTCCTCCTCAC 57.247 47.619 0.00 0.00 0.00 3.51
53 54 4.006319 CCAATGAGTTTCTGTTCCTCCTC 58.994 47.826 0.00 0.00 0.00 3.71
54 55 3.812167 GCCAATGAGTTTCTGTTCCTCCT 60.812 47.826 0.00 0.00 0.00 3.69
55 56 2.489722 GCCAATGAGTTTCTGTTCCTCC 59.510 50.000 0.00 0.00 0.00 4.30
56 57 2.489722 GGCCAATGAGTTTCTGTTCCTC 59.510 50.000 0.00 0.00 0.00 3.71
57 58 2.519013 GGCCAATGAGTTTCTGTTCCT 58.481 47.619 0.00 0.00 0.00 3.36
58 59 1.546029 GGGCCAATGAGTTTCTGTTCC 59.454 52.381 4.39 0.00 0.00 3.62
61 62 2.173519 CATGGGCCAATGAGTTTCTGT 58.826 47.619 15.84 0.00 0.00 3.41
65 66 1.077663 AGTCCATGGGCCAATGAGTTT 59.922 47.619 22.71 1.13 0.00 2.66
66 67 0.706433 AGTCCATGGGCCAATGAGTT 59.294 50.000 22.71 3.02 0.00 3.01
68 69 0.754217 CCAGTCCATGGGCCAATGAG 60.754 60.000 22.71 11.69 46.36 2.90
69 70 1.307309 CCAGTCCATGGGCCAATGA 59.693 57.895 22.71 7.38 46.36 2.57
70 71 3.944123 CCAGTCCATGGGCCAATG 58.056 61.111 14.18 13.83 46.36 2.82
82 83 3.876589 TTTGTCTCCGCGGCCAGTC 62.877 63.158 23.51 12.27 0.00 3.51
83 84 2.748058 ATTTTGTCTCCGCGGCCAGT 62.748 55.000 23.51 4.42 0.00 4.00
84 85 1.982073 GATTTTGTCTCCGCGGCCAG 61.982 60.000 23.51 14.68 0.00 4.85
87 88 2.038269 TGGATTTTGTCTCCGCGGC 61.038 57.895 23.51 7.40 35.41 6.53
88 89 0.953471 TGTGGATTTTGTCTCCGCGG 60.953 55.000 22.12 22.12 44.58 6.46
89 90 0.443869 CTGTGGATTTTGTCTCCGCG 59.556 55.000 0.00 0.00 44.58 6.46
91 92 2.028112 TCTCCTGTGGATTTTGTCTCCG 60.028 50.000 0.00 0.00 35.41 4.63
92 93 3.604582 CTCTCCTGTGGATTTTGTCTCC 58.395 50.000 0.00 0.00 0.00 3.71
93 94 3.006247 GCTCTCCTGTGGATTTTGTCTC 58.994 50.000 0.00 0.00 0.00 3.36
95 96 2.783135 TGCTCTCCTGTGGATTTTGTC 58.217 47.619 0.00 0.00 0.00 3.18
96 97 2.957402 TGCTCTCCTGTGGATTTTGT 57.043 45.000 0.00 0.00 0.00 2.83
97 98 3.310774 CGTATGCTCTCCTGTGGATTTTG 59.689 47.826 0.00 0.00 0.00 2.44
98 99 3.535561 CGTATGCTCTCCTGTGGATTTT 58.464 45.455 0.00 0.00 0.00 1.82
99 100 2.743183 GCGTATGCTCTCCTGTGGATTT 60.743 50.000 0.00 0.00 38.39 2.17
100 101 1.202580 GCGTATGCTCTCCTGTGGATT 60.203 52.381 0.00 0.00 38.39 3.01
103 104 4.427394 GCGTATGCTCTCCTGTGG 57.573 61.111 0.00 0.00 38.39 4.17
113 114 3.001395 ACGTCAGAGATTAGCGTATGC 57.999 47.619 0.00 0.00 43.24 3.14
114 115 4.465016 GGTACGTCAGAGATTAGCGTATG 58.535 47.826 0.00 0.00 39.62 2.39
115 116 4.745837 GGTACGTCAGAGATTAGCGTAT 57.254 45.455 0.00 0.00 39.62 3.06
129 130 3.902001 GCGGAGGCTATTCGGTACGTC 62.902 61.905 0.00 0.00 45.26 4.34
130 131 2.068277 GCGGAGGCTATTCGGTACGT 62.068 60.000 0.00 0.00 45.26 3.57
131 132 1.371389 GCGGAGGCTATTCGGTACG 60.371 63.158 0.00 0.00 46.08 3.67
132 133 4.649618 GCGGAGGCTATTCGGTAC 57.350 61.111 0.00 0.00 35.83 3.34
143 144 1.118356 AGAGCATAAGGGAGCGGAGG 61.118 60.000 0.00 0.00 35.48 4.30
144 145 0.316841 GAGAGCATAAGGGAGCGGAG 59.683 60.000 0.00 0.00 35.48 4.63
145 146 0.105964 AGAGAGCATAAGGGAGCGGA 60.106 55.000 0.00 0.00 35.48 5.54
146 147 0.033228 CAGAGAGCATAAGGGAGCGG 59.967 60.000 0.00 0.00 35.48 5.52
147 148 1.035923 TCAGAGAGCATAAGGGAGCG 58.964 55.000 0.00 0.00 35.48 5.03
149 150 4.749099 CGAAATTCAGAGAGCATAAGGGAG 59.251 45.833 0.00 0.00 0.00 4.30
150 151 4.443457 CCGAAATTCAGAGAGCATAAGGGA 60.443 45.833 0.00 0.00 0.00 4.20
151 152 3.812053 CCGAAATTCAGAGAGCATAAGGG 59.188 47.826 0.00 0.00 0.00 3.95
153 154 3.249559 GGCCGAAATTCAGAGAGCATAAG 59.750 47.826 0.00 0.00 0.00 1.73
154 155 3.206150 GGCCGAAATTCAGAGAGCATAA 58.794 45.455 0.00 0.00 0.00 1.90
155 156 2.485479 GGGCCGAAATTCAGAGAGCATA 60.485 50.000 0.00 0.00 0.00 3.14
156 157 1.673168 GGCCGAAATTCAGAGAGCAT 58.327 50.000 0.00 0.00 0.00 3.79
158 159 0.107459 AGGGCCGAAATTCAGAGAGC 60.107 55.000 0.00 0.00 0.00 4.09
160 161 2.879103 AAAGGGCCGAAATTCAGAGA 57.121 45.000 0.00 0.00 0.00 3.10
161 162 3.084786 AGAAAAGGGCCGAAATTCAGAG 58.915 45.455 13.42 0.00 0.00 3.35
163 164 2.819608 TCAGAAAAGGGCCGAAATTCAG 59.180 45.455 13.42 7.64 0.00 3.02
165 166 2.820197 ACTCAGAAAAGGGCCGAAATTC 59.180 45.455 0.00 1.61 0.00 2.17
167 168 2.586648 ACTCAGAAAAGGGCCGAAAT 57.413 45.000 0.00 0.00 0.00 2.17
168 169 2.290071 CCTACTCAGAAAAGGGCCGAAA 60.290 50.000 0.00 0.00 0.00 3.46
169 170 1.278127 CCTACTCAGAAAAGGGCCGAA 59.722 52.381 0.00 0.00 0.00 4.30
171 172 0.744771 GCCTACTCAGAAAAGGGCCG 60.745 60.000 0.00 0.00 34.19 6.13
173 174 0.036294 ACGCCTACTCAGAAAAGGGC 60.036 55.000 0.00 0.00 36.60 5.19
174 175 1.405661 GGACGCCTACTCAGAAAAGGG 60.406 57.143 0.84 0.00 0.00 3.95
175 176 1.550976 AGGACGCCTACTCAGAAAAGG 59.449 52.381 0.00 0.00 28.47 3.11
187 188 1.271982 TGAGAACAGAGTAGGACGCCT 60.272 52.381 3.87 3.87 37.71 5.52
188 189 1.174783 TGAGAACAGAGTAGGACGCC 58.825 55.000 0.00 0.00 0.00 5.68
239 240 6.726258 TTGACTGCAACTACATACTCAATG 57.274 37.500 0.00 0.00 41.74 2.82
249 250 3.330267 AGCTAGCTTTGACTGCAACTAC 58.670 45.455 12.68 0.00 32.79 2.73
276 277 3.806521 CCTCCGTAGCTCTGAATCAATTG 59.193 47.826 0.00 0.00 0.00 2.32
282 283 1.063567 ACTCCCTCCGTAGCTCTGAAT 60.064 52.381 0.00 0.00 0.00 2.57
294 295 9.936759 CTTTCTTATATCTGAATTACTCCCTCC 57.063 37.037 0.00 0.00 0.00 4.30
316 317 2.566279 AGGTCTTCGAAGGGGTACTTTC 59.434 50.000 24.37 3.80 40.21 2.62
482 503 1.060729 TGTTGGGTGGCTTGTAGCTA 58.939 50.000 0.00 0.00 41.99 3.32
483 504 0.405585 ATGTTGGGTGGCTTGTAGCT 59.594 50.000 0.00 0.00 41.99 3.32
485 506 3.214328 GGATATGTTGGGTGGCTTGTAG 58.786 50.000 0.00 0.00 0.00 2.74
486 507 2.578480 TGGATATGTTGGGTGGCTTGTA 59.422 45.455 0.00 0.00 0.00 2.41
532 560 1.002659 TCCCCACCACATTTCTACACG 59.997 52.381 0.00 0.00 0.00 4.49
533 561 2.871096 TCCCCACCACATTTCTACAC 57.129 50.000 0.00 0.00 0.00 2.90
534 562 2.025416 CCATCCCCACCACATTTCTACA 60.025 50.000 0.00 0.00 0.00 2.74
535 563 2.241176 TCCATCCCCACCACATTTCTAC 59.759 50.000 0.00 0.00 0.00 2.59
538 570 1.686115 CCTCCATCCCCACCACATTTC 60.686 57.143 0.00 0.00 0.00 2.17
628 660 0.806868 ACATCGCTCGTTTCTCCGTA 59.193 50.000 0.00 0.00 0.00 4.02
868 960 2.093921 TCGAAATGACCTGGCAATACGA 60.094 45.455 0.00 3.77 0.00 3.43
973 1073 1.374343 CCTCGATCGACCTCCACGAA 61.374 60.000 15.15 0.00 42.80 3.85
1396 3974 3.361977 CGTGGCCAAAACCCCGAG 61.362 66.667 7.24 0.00 0.00 4.63
1498 4076 2.739784 CTGCAGGGGGAGATAGCG 59.260 66.667 5.57 0.00 33.71 4.26
1752 4347 3.787001 GGGTGGAGGAAGGCTCGG 61.787 72.222 0.00 0.00 0.00 4.63
1765 4360 2.107141 GGCGATCTCGAAGGGGTG 59.893 66.667 3.33 0.00 43.02 4.61
1785 4380 0.317770 CGTTTGTGTTGAAGCCGCAT 60.318 50.000 0.00 0.00 0.00 4.73
1800 10666 0.691904 TAATCGGGTTGGGGTCGTTT 59.308 50.000 0.00 0.00 0.00 3.60
1812 10678 3.388841 CCGGGGATCCTAATCGGG 58.611 66.667 20.52 11.43 37.35 5.14
1871 10737 3.241059 CGCTGCTGACGTAGACGC 61.241 66.667 1.14 0.00 44.43 5.19
1982 11174 1.364626 GCAGTCCACCATGAAGCTCG 61.365 60.000 0.00 0.00 0.00 5.03
2016 11208 4.039357 CACACCTCGACGCCGTCT 62.039 66.667 16.07 0.00 37.05 4.18
2056 11248 2.227089 ATCAGAAGGCACGGACGGAC 62.227 60.000 0.00 0.00 0.00 4.79
2144 12578 5.478332 TCACATGCAGTATGAGATACTAGGG 59.522 44.000 5.36 0.00 43.93 3.53
2244 12713 5.282510 GCTAGCTCACTACGATACAACAAT 58.717 41.667 7.70 0.00 0.00 2.71
2271 12746 0.544595 ACCTAAGACCAAGCGACCCT 60.545 55.000 0.00 0.00 0.00 4.34
2272 12747 0.323957 AACCTAAGACCAAGCGACCC 59.676 55.000 0.00 0.00 0.00 4.46
2339 12819 9.283768 TGCATTCATAATCGGAATTGTACTTAT 57.716 29.630 0.00 0.00 32.86 1.73
2432 12916 4.877282 TCGAAATTCCCCACACAAAAATC 58.123 39.130 0.00 0.00 0.00 2.17
2439 13034 4.295870 GAAGTTTTCGAAATTCCCCACAC 58.704 43.478 12.12 4.23 0.00 3.82
2455 13050 4.322385 GCGCGCCAACCGAAGTTT 62.322 61.111 23.24 0.00 40.02 2.66
2544 13630 5.468746 GCTTAACAAGATAATACATCCGCCA 59.531 40.000 0.00 0.00 0.00 5.69
2567 13653 3.800506 ACTAACACATATTCGGTAAGCGC 59.199 43.478 0.00 0.00 0.00 5.92
2662 13794 9.077885 TGGAATCTAGCTAACAAAAATCAGTTT 57.922 29.630 0.00 0.00 0.00 2.66
2678 13926 9.617975 GCAACATATTTATCTTTGGAATCTAGC 57.382 33.333 0.00 0.00 0.00 3.42
2681 13929 9.193806 AGTGCAACATATTTATCTTTGGAATCT 57.806 29.630 0.00 0.00 41.43 2.40
2794 14101 8.189460 ACAAGATCGTAACTAGAAGTTATGGAC 58.811 37.037 15.50 11.12 44.07 4.02
2869 14176 3.381590 GGTAATGATTTCAAGGAGGGCAC 59.618 47.826 0.00 0.00 0.00 5.01
2941 14248 2.731691 TTCGACTTGCCCACCAGCTC 62.732 60.000 0.00 0.00 0.00 4.09
2948 14255 3.270027 CTGAACATATTCGACTTGCCCA 58.730 45.455 0.00 0.00 37.69 5.36


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

AutoCloner maintained by Alex Coulton.