Multiple sequence alignment - TraesCS6D01G075100

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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 TraesCS6D01G075100 chr6D 100.000 3392 0 0 1 3392 38815288 38818679 0.000000e+00 6264.0
1 TraesCS6D01G075100 chr6D 92.222 1800 102 24 955 2737 38635717 38637495 0.000000e+00 2514.0
2 TraesCS6D01G075100 chr6D 96.856 827 21 4 130 952 19380603 19381428 0.000000e+00 1378.0
3 TraesCS6D01G075100 chr6D 80.737 841 132 22 1048 1888 38839168 38839978 2.220000e-176 628.0
4 TraesCS6D01G075100 chr6D 81.151 817 119 18 1088 1891 38875617 38876411 1.030000e-174 623.0
5 TraesCS6D01G075100 chr6D 80.101 789 132 15 1238 2026 38752551 38753314 6.350000e-157 564.0
6 TraesCS6D01G075100 chr6D 75.623 1124 209 43 1079 2171 1997998 1996909 6.540000e-137 497.0
7 TraesCS6D01G075100 chr6D 76.207 290 53 11 2983 3267 336518435 336518157 4.560000e-29 139.0
8 TraesCS6D01G075100 chrUn 88.139 2445 204 53 959 3351 76982421 76980011 0.000000e+00 2830.0
9 TraesCS6D01G075100 chrUn 88.139 2445 204 53 959 3351 261142560 261140150 0.000000e+00 2830.0
10 TraesCS6D01G075100 chrUn 97.816 824 16 2 130 951 30247416 30248239 0.000000e+00 1421.0
11 TraesCS6D01G075100 chr6B 93.356 1159 66 7 955 2113 89903775 89904922 0.000000e+00 1703.0
12 TraesCS6D01G075100 chr6B 78.299 1152 201 31 1088 2221 90100350 90101470 0.000000e+00 697.0
13 TraesCS6D01G075100 chr6B 95.533 291 10 2 2334 2624 89905312 89905599 2.380000e-126 462.0
14 TraesCS6D01G075100 chr6B 80.208 384 58 14 2604 2976 90101909 90102285 4.310000e-69 272.0
15 TraesCS6D01G075100 chr2D 97.445 822 18 3 130 950 118032880 118032061 0.000000e+00 1399.0
16 TraesCS6D01G075100 chr2D 96.852 826 23 3 130 952 33253854 33253029 0.000000e+00 1378.0
17 TraesCS6D01G075100 chr2D 79.381 97 19 1 3057 3153 196463492 196463397 2.180000e-07 67.6
18 TraesCS6D01G075100 chr5D 97.094 826 22 2 130 953 469436175 469435350 0.000000e+00 1391.0
19 TraesCS6D01G075100 chr5D 96.739 828 22 3 130 953 550610108 550610934 0.000000e+00 1375.0
20 TraesCS6D01G075100 chr1D 97.087 824 20 4 131 952 62366351 62367172 0.000000e+00 1386.0
21 TraesCS6D01G075100 chr3D 96.867 830 20 4 130 954 582573749 582574577 0.000000e+00 1384.0
22 TraesCS6D01G075100 chr3D 84.545 110 17 0 3039 3148 176584667 176584776 3.580000e-20 110.0
23 TraesCS6D01G075100 chr7D 96.735 827 23 3 130 952 64982147 64981321 0.000000e+00 1375.0
24 TraesCS6D01G075100 chr6A 79.364 1163 181 38 1088 2221 51397151 51398283 0.000000e+00 763.0
25 TraesCS6D01G075100 chr6A 80.924 996 148 27 1061 2052 51373660 51374617 0.000000e+00 749.0
26 TraesCS6D01G075100 chr6A 76.996 739 132 32 1086 1799 846647 847372 4.100000e-104 388.0
27 TraesCS6D01G075100 chr6A 90.000 60 6 0 3085 3144 475002865 475002924 1.010000e-10 78.7
28 TraesCS6D01G075100 chr4A 77.778 171 31 6 2983 3148 680053832 680054000 7.750000e-17 99.0
29 TraesCS6D01G075100 chr7A 87.931 58 7 0 3091 3148 222927884 222927827 6.070000e-08 69.4
30 TraesCS6D01G075100 chr3B 74.011 177 37 9 2985 3156 574721601 574721429 2.830000e-06 63.9


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 TraesCS6D01G075100 chr6D 38815288 38818679 3391 False 6264.0 6264 100.0000 1 3392 1 chr6D.!!$F4 3391
1 TraesCS6D01G075100 chr6D 38635717 38637495 1778 False 2514.0 2514 92.2220 955 2737 1 chr6D.!!$F2 1782
2 TraesCS6D01G075100 chr6D 19380603 19381428 825 False 1378.0 1378 96.8560 130 952 1 chr6D.!!$F1 822
3 TraesCS6D01G075100 chr6D 38839168 38839978 810 False 628.0 628 80.7370 1048 1888 1 chr6D.!!$F5 840
4 TraesCS6D01G075100 chr6D 38875617 38876411 794 False 623.0 623 81.1510 1088 1891 1 chr6D.!!$F6 803
5 TraesCS6D01G075100 chr6D 38752551 38753314 763 False 564.0 564 80.1010 1238 2026 1 chr6D.!!$F3 788
6 TraesCS6D01G075100 chr6D 1996909 1997998 1089 True 497.0 497 75.6230 1079 2171 1 chr6D.!!$R1 1092
7 TraesCS6D01G075100 chrUn 76980011 76982421 2410 True 2830.0 2830 88.1390 959 3351 1 chrUn.!!$R1 2392
8 TraesCS6D01G075100 chrUn 261140150 261142560 2410 True 2830.0 2830 88.1390 959 3351 1 chrUn.!!$R2 2392
9 TraesCS6D01G075100 chrUn 30247416 30248239 823 False 1421.0 1421 97.8160 130 951 1 chrUn.!!$F1 821
10 TraesCS6D01G075100 chr6B 89903775 89905599 1824 False 1082.5 1703 94.4445 955 2624 2 chr6B.!!$F1 1669
11 TraesCS6D01G075100 chr6B 90100350 90102285 1935 False 484.5 697 79.2535 1088 2976 2 chr6B.!!$F2 1888
12 TraesCS6D01G075100 chr2D 118032061 118032880 819 True 1399.0 1399 97.4450 130 950 1 chr2D.!!$R2 820
13 TraesCS6D01G075100 chr2D 33253029 33253854 825 True 1378.0 1378 96.8520 130 952 1 chr2D.!!$R1 822
14 TraesCS6D01G075100 chr5D 469435350 469436175 825 True 1391.0 1391 97.0940 130 953 1 chr5D.!!$R1 823
15 TraesCS6D01G075100 chr5D 550610108 550610934 826 False 1375.0 1375 96.7390 130 953 1 chr5D.!!$F1 823
16 TraesCS6D01G075100 chr1D 62366351 62367172 821 False 1386.0 1386 97.0870 131 952 1 chr1D.!!$F1 821
17 TraesCS6D01G075100 chr3D 582573749 582574577 828 False 1384.0 1384 96.8670 130 954 1 chr3D.!!$F2 824
18 TraesCS6D01G075100 chr7D 64981321 64982147 826 True 1375.0 1375 96.7350 130 952 1 chr7D.!!$R1 822
19 TraesCS6D01G075100 chr6A 51397151 51398283 1132 False 763.0 763 79.3640 1088 2221 1 chr6A.!!$F3 1133
20 TraesCS6D01G075100 chr6A 51373660 51374617 957 False 749.0 749 80.9240 1061 2052 1 chr6A.!!$F2 991
21 TraesCS6D01G075100 chr6A 846647 847372 725 False 388.0 388 76.9960 1086 1799 1 chr6A.!!$F1 713

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
668 671 0.031716 TGGTCTATCCTGCAGAGGCT 60.032 55.0 17.39 0.0 39.57 4.58 F
1608 1673 1.562672 AATACCAAGGAGCAGGGCGT 61.563 55.0 0.00 0.0 0.00 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1840 1917 1.188219 TCAGCAAGCTCCCGAAGACT 61.188 55.0 0.0 0.0 0.0 3.24 R
3274 3686 0.106708 ACAATGACGGCACAGACAGT 59.893 50.0 0.0 0.0 0.0 3.55 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
27 28 8.845413 ATACTAGTACTATCCAAGTTAGTCCG 57.155 38.462 4.31 0.00 39.80 4.79
28 29 6.657875 ACTAGTACTATCCAAGTTAGTCCGT 58.342 40.000 2.33 0.00 39.80 4.69
29 30 7.796054 ACTAGTACTATCCAAGTTAGTCCGTA 58.204 38.462 2.33 0.00 39.80 4.02
30 31 8.435982 ACTAGTACTATCCAAGTTAGTCCGTAT 58.564 37.037 2.33 0.00 39.80 3.06
31 32 9.282569 CTAGTACTATCCAAGTTAGTCCGTATT 57.717 37.037 2.33 0.00 39.80 1.89
32 33 7.938715 AGTACTATCCAAGTTAGTCCGTATTG 58.061 38.462 0.00 0.00 39.80 1.90
33 34 6.158023 ACTATCCAAGTTAGTCCGTATTGG 57.842 41.667 0.00 0.00 41.45 3.16
34 35 5.659971 ACTATCCAAGTTAGTCCGTATTGGT 59.340 40.000 2.49 0.00 40.99 3.67
35 36 4.895668 TCCAAGTTAGTCCGTATTGGTT 57.104 40.909 2.49 0.00 40.99 3.67
36 37 5.231702 TCCAAGTTAGTCCGTATTGGTTT 57.768 39.130 2.49 0.00 40.99 3.27
37 38 4.998672 TCCAAGTTAGTCCGTATTGGTTTG 59.001 41.667 2.49 0.00 40.99 2.93
38 39 4.758165 CCAAGTTAGTCCGTATTGGTTTGT 59.242 41.667 0.00 0.00 39.52 2.83
39 40 5.239963 CCAAGTTAGTCCGTATTGGTTTGTT 59.760 40.000 0.00 0.00 39.52 2.83
40 41 6.427547 CCAAGTTAGTCCGTATTGGTTTGTTA 59.572 38.462 0.00 0.00 39.52 2.41
41 42 7.120138 CCAAGTTAGTCCGTATTGGTTTGTTAT 59.880 37.037 0.00 0.00 39.52 1.89
42 43 7.605410 AGTTAGTCCGTATTGGTTTGTTATG 57.395 36.000 0.00 0.00 39.52 1.90
43 44 7.388437 AGTTAGTCCGTATTGGTTTGTTATGA 58.612 34.615 0.00 0.00 39.52 2.15
44 45 8.044908 AGTTAGTCCGTATTGGTTTGTTATGAT 58.955 33.333 0.00 0.00 39.52 2.45
45 46 6.920569 AGTCCGTATTGGTTTGTTATGATC 57.079 37.500 0.00 0.00 39.52 2.92
46 47 5.522460 AGTCCGTATTGGTTTGTTATGATCG 59.478 40.000 0.00 0.00 39.52 3.69
47 48 4.812091 TCCGTATTGGTTTGTTATGATCGG 59.188 41.667 0.00 0.00 39.52 4.18
48 49 4.024387 CCGTATTGGTTTGTTATGATCGGG 60.024 45.833 0.00 0.00 0.00 5.14
49 50 4.573201 CGTATTGGTTTGTTATGATCGGGT 59.427 41.667 0.00 0.00 0.00 5.28
50 51 5.277154 CGTATTGGTTTGTTATGATCGGGTC 60.277 44.000 0.00 0.00 0.00 4.46
51 52 2.993937 TGGTTTGTTATGATCGGGTCC 58.006 47.619 0.00 0.00 0.00 4.46
52 53 2.574369 TGGTTTGTTATGATCGGGTCCT 59.426 45.455 0.00 0.00 0.00 3.85
53 54 3.775866 TGGTTTGTTATGATCGGGTCCTA 59.224 43.478 0.00 0.00 0.00 2.94
54 55 4.141801 TGGTTTGTTATGATCGGGTCCTAG 60.142 45.833 0.00 0.00 0.00 3.02
55 56 4.141779 GGTTTGTTATGATCGGGTCCTAGT 60.142 45.833 0.00 0.00 0.00 2.57
56 57 4.931661 TTGTTATGATCGGGTCCTAGTC 57.068 45.455 0.00 0.00 0.00 2.59
57 58 4.180377 TGTTATGATCGGGTCCTAGTCT 57.820 45.455 0.00 0.00 0.00 3.24
58 59 3.889538 TGTTATGATCGGGTCCTAGTCTG 59.110 47.826 0.00 0.00 0.00 3.51
59 60 2.757894 ATGATCGGGTCCTAGTCTGT 57.242 50.000 0.00 0.00 0.00 3.41
60 61 2.526888 TGATCGGGTCCTAGTCTGTT 57.473 50.000 0.00 0.00 0.00 3.16
61 62 2.816411 TGATCGGGTCCTAGTCTGTTT 58.184 47.619 0.00 0.00 0.00 2.83
62 63 3.170717 TGATCGGGTCCTAGTCTGTTTT 58.829 45.455 0.00 0.00 0.00 2.43
63 64 3.056107 TGATCGGGTCCTAGTCTGTTTTG 60.056 47.826 0.00 0.00 0.00 2.44
64 65 2.600790 TCGGGTCCTAGTCTGTTTTGA 58.399 47.619 0.00 0.00 0.00 2.69
65 66 3.170717 TCGGGTCCTAGTCTGTTTTGAT 58.829 45.455 0.00 0.00 0.00 2.57
66 67 3.194968 TCGGGTCCTAGTCTGTTTTGATC 59.805 47.826 0.00 0.00 0.00 2.92
67 68 3.522553 GGGTCCTAGTCTGTTTTGATCG 58.477 50.000 0.00 0.00 0.00 3.69
68 69 2.930682 GGTCCTAGTCTGTTTTGATCGC 59.069 50.000 0.00 0.00 0.00 4.58
69 70 3.585862 GTCCTAGTCTGTTTTGATCGCA 58.414 45.455 0.00 0.00 0.00 5.10
70 71 3.994392 GTCCTAGTCTGTTTTGATCGCAA 59.006 43.478 0.00 0.00 0.00 4.85
71 72 4.451096 GTCCTAGTCTGTTTTGATCGCAAA 59.549 41.667 0.00 0.00 41.97 3.68
95 96 3.790089 AAGGGTCCTAGTCTGTTTTGG 57.210 47.619 0.00 0.00 0.00 3.28
96 97 2.702748 AGGGTCCTAGTCTGTTTTGGT 58.297 47.619 0.00 0.00 0.00 3.67
97 98 3.053826 AGGGTCCTAGTCTGTTTTGGTT 58.946 45.455 0.00 0.00 0.00 3.67
98 99 4.237018 AGGGTCCTAGTCTGTTTTGGTTA 58.763 43.478 0.00 0.00 0.00 2.85
99 100 4.041321 AGGGTCCTAGTCTGTTTTGGTTAC 59.959 45.833 0.00 0.00 0.00 2.50
100 101 3.992427 GGTCCTAGTCTGTTTTGGTTACG 59.008 47.826 0.00 0.00 0.00 3.18
101 102 4.502087 GGTCCTAGTCTGTTTTGGTTACGT 60.502 45.833 0.00 0.00 0.00 3.57
102 103 5.278957 GGTCCTAGTCTGTTTTGGTTACGTA 60.279 44.000 0.00 0.00 0.00 3.57
103 104 5.631096 GTCCTAGTCTGTTTTGGTTACGTAC 59.369 44.000 0.00 0.00 0.00 3.67
104 105 5.536161 TCCTAGTCTGTTTTGGTTACGTACT 59.464 40.000 0.00 0.00 0.00 2.73
105 106 6.040842 TCCTAGTCTGTTTTGGTTACGTACTT 59.959 38.462 0.00 0.00 0.00 2.24
106 107 7.230510 TCCTAGTCTGTTTTGGTTACGTACTTA 59.769 37.037 0.00 0.00 0.00 2.24
107 108 7.540055 CCTAGTCTGTTTTGGTTACGTACTTAG 59.460 40.741 0.00 0.00 0.00 2.18
108 109 6.809869 AGTCTGTTTTGGTTACGTACTTAGT 58.190 36.000 0.00 0.00 0.00 2.24
109 110 7.267857 AGTCTGTTTTGGTTACGTACTTAGTT 58.732 34.615 0.00 0.00 0.00 2.24
110 111 7.223387 AGTCTGTTTTGGTTACGTACTTAGTTG 59.777 37.037 0.00 0.00 0.00 3.16
111 112 7.010460 GTCTGTTTTGGTTACGTACTTAGTTGT 59.990 37.037 0.00 0.00 0.00 3.32
112 113 7.222611 TCTGTTTTGGTTACGTACTTAGTTGTC 59.777 37.037 0.00 0.00 0.00 3.18
113 114 6.257630 TGTTTTGGTTACGTACTTAGTTGTCC 59.742 38.462 0.00 0.00 0.00 4.02
114 115 4.159377 TGGTTACGTACTTAGTTGTCCG 57.841 45.455 0.00 0.00 0.00 4.79
115 116 3.057596 TGGTTACGTACTTAGTTGTCCGG 60.058 47.826 0.00 0.00 0.00 5.14
116 117 2.917343 GTTACGTACTTAGTTGTCCGGC 59.083 50.000 0.00 0.00 0.00 6.13
117 118 1.251251 ACGTACTTAGTTGTCCGGCT 58.749 50.000 0.00 0.00 0.00 5.52
118 119 1.200948 ACGTACTTAGTTGTCCGGCTC 59.799 52.381 0.00 0.00 0.00 4.70
119 120 1.792993 CGTACTTAGTTGTCCGGCTCG 60.793 57.143 0.00 0.00 0.00 5.03
166 168 5.389859 TTTTTCGATGGAACTTGCATCAT 57.610 34.783 19.74 0.00 44.18 2.45
171 173 5.367302 TCGATGGAACTTGCATCATAATGA 58.633 37.500 19.74 8.33 44.18 2.57
282 284 7.343316 CCCTCTAAGAGTGAAGATTTTCCTCTA 59.657 40.741 13.65 3.21 38.70 2.43
373 375 4.039488 ACATGTGTCTTTTGCCAACATGAT 59.961 37.500 18.11 3.22 37.50 2.45
668 671 0.031716 TGGTCTATCCTGCAGAGGCT 60.032 55.000 17.39 0.00 39.57 4.58
694 697 6.352222 GGAGGACAGAGACCTTTTTATGATGA 60.352 42.308 0.00 0.00 37.93 2.92
747 751 4.503714 GGTTTTCTACCTCCATGGATGA 57.496 45.455 22.35 12.25 44.10 2.92
846 853 6.987403 TTTTGCTTTTAGGGTACTTTGGAT 57.013 33.333 0.00 0.00 0.00 3.41
922 929 7.148069 TGCGATTGTATCACCTCGATATATCTT 60.148 37.037 10.93 0.00 38.85 2.40
975 982 4.097437 CAGGGTCCGTGCGTGTATATATAT 59.903 45.833 0.00 0.00 0.00 0.86
976 983 5.297527 CAGGGTCCGTGCGTGTATATATATA 59.702 44.000 0.00 0.00 0.00 0.86
989 996 8.297426 CGTGTATATATATACCTGCACTATGGG 58.703 40.741 23.94 5.19 38.17 4.00
998 1005 2.689983 CCTGCACTATGGGGTGAAATTC 59.310 50.000 0.00 0.00 39.34 2.17
1013 1020 5.227908 GTGAAATTCTACCGTGAGTCTGAA 58.772 41.667 0.00 0.00 0.00 3.02
1014 1021 5.118817 GTGAAATTCTACCGTGAGTCTGAAC 59.881 44.000 0.00 0.00 0.00 3.18
1046 1060 3.756963 ACGAAAGAAATAGAGGGCCAAAC 59.243 43.478 6.18 0.00 0.00 2.93
1264 1278 2.083774 TCTCGTCCATTCATTGTTGGC 58.916 47.619 4.22 0.00 32.80 4.52
1360 1380 4.649088 TGTCCTTGACGACGATATCAAT 57.351 40.909 0.00 0.00 34.43 2.57
1449 1469 2.331265 GCCAAAGCGAACCTGTCTT 58.669 52.632 0.00 0.00 0.00 3.01
1455 1481 2.734276 AGCGAACCTGTCTTCTTCTC 57.266 50.000 0.00 0.00 0.00 2.87
1463 1495 2.333014 CTGTCTTCTTCTCTGAACGCC 58.667 52.381 0.00 0.00 0.00 5.68
1538 1582 5.306532 TGAAAGATCAAAGCATCTCAAGC 57.693 39.130 0.00 0.00 31.44 4.01
1608 1673 1.562672 AATACCAAGGAGCAGGGCGT 61.563 55.000 0.00 0.00 0.00 5.68
1788 1853 2.093288 CCATCTTCAAGGCACAGCTCTA 60.093 50.000 0.00 0.00 0.00 2.43
1840 1917 5.957842 AGATAACCGACATGAAAGCAAAA 57.042 34.783 0.00 0.00 0.00 2.44
2325 2619 3.631686 TGGCCATGCATAGTATTGTGTTC 59.368 43.478 0.00 0.00 0.00 3.18
2326 2620 3.885297 GGCCATGCATAGTATTGTGTTCT 59.115 43.478 0.00 0.00 0.00 3.01
2327 2621 5.063204 GGCCATGCATAGTATTGTGTTCTA 58.937 41.667 0.00 0.00 0.00 2.10
2328 2622 5.530915 GGCCATGCATAGTATTGTGTTCTAA 59.469 40.000 0.00 0.00 0.00 2.10
2330 2638 7.255590 GGCCATGCATAGTATTGTGTTCTAAAT 60.256 37.037 0.00 0.00 0.00 1.40
2343 2651 7.962964 TGTGTTCTAAATTTGTCTACTCCTG 57.037 36.000 0.00 0.00 0.00 3.86
2570 2923 4.122046 TGCATGAAGATACGAACATCCTG 58.878 43.478 0.00 0.00 0.00 3.86
2782 3181 3.305897 TGCTCAATAACGTAACATCTGCG 59.694 43.478 0.00 0.00 39.33 5.18
2789 3188 1.000506 ACGTAACATCTGCGGACAGTT 59.999 47.619 16.67 16.67 44.77 3.16
2801 3200 2.550978 CGGACAGTTAGGTGGCTAATG 58.449 52.381 0.00 0.00 0.00 1.90
2840 3239 1.268234 GCTCGCATGCTGGTTTACATC 60.268 52.381 17.13 0.00 0.00 3.06
2889 3288 7.108194 ACAAAGAGCATCATCAGTAATTCAGA 58.892 34.615 0.00 0.00 37.82 3.27
2904 3303 9.398170 CAGTAATTCAGAATTGACGACAAAAAT 57.602 29.630 17.38 0.00 39.54 1.82
2985 3390 1.299541 CACTATGTGCGCCTTTAGGG 58.700 55.000 4.18 0.00 35.18 3.53
2997 3402 1.278127 CCTTTAGGGCTTCTCCAACGA 59.722 52.381 0.00 0.00 36.21 3.85
3007 3412 1.811266 CTCCAACGATGACCCGCAG 60.811 63.158 0.00 0.00 0.00 5.18
3011 3416 0.374758 CAACGATGACCCGCAGATTG 59.625 55.000 0.00 0.00 0.00 2.67
3013 3418 1.522355 CGATGACCCGCAGATTGCT 60.522 57.895 0.00 0.00 42.25 3.91
3014 3419 1.091771 CGATGACCCGCAGATTGCTT 61.092 55.000 0.00 0.00 42.25 3.91
3016 3421 1.091771 ATGACCCGCAGATTGCTTCG 61.092 55.000 0.00 0.00 42.25 3.79
3032 3437 2.569059 CTTCGGCATCTGTTCATGGAT 58.431 47.619 0.00 0.00 0.00 3.41
3035 3440 2.965147 TCGGCATCTGTTCATGGATAGA 59.035 45.455 2.51 2.51 0.00 1.98
3041 3448 5.539979 CATCTGTTCATGGATAGAGACCAG 58.460 45.833 6.60 0.00 40.89 4.00
3042 3449 4.614475 TCTGTTCATGGATAGAGACCAGT 58.386 43.478 0.00 0.00 40.89 4.00
3097 3504 1.745087 ACTGCCCGCATACATTTCAAG 59.255 47.619 0.00 0.00 0.00 3.02
3102 3509 3.731867 GCCCGCATACATTTCAAGAACTG 60.732 47.826 0.00 0.00 0.00 3.16
3103 3510 3.689161 CCCGCATACATTTCAAGAACTGA 59.311 43.478 7.09 0.00 0.00 3.41
3129 3536 6.321717 TGAACTAAACGGATGAAATTCATGC 58.678 36.000 13.82 15.08 41.12 4.06
3138 3545 2.402305 TGAAATTCATGCAAACACGGC 58.598 42.857 0.00 0.00 0.00 5.68
3152 3559 0.808125 CACGGCGGATTCCATTCAAA 59.192 50.000 13.24 0.00 0.00 2.69
3155 3562 2.495669 ACGGCGGATTCCATTCAAATTT 59.504 40.909 13.24 0.00 0.00 1.82
3200 3607 9.939802 AAGGTCGATATTTAGACTGTTTAACTT 57.060 29.630 0.00 0.00 37.52 2.66
3274 3686 4.028490 CCCTGCCCTGCCACGTTA 62.028 66.667 0.00 0.00 0.00 3.18
3275 3687 2.746277 CCTGCCCTGCCACGTTAC 60.746 66.667 0.00 0.00 0.00 2.50
3276 3688 2.347490 CTGCCCTGCCACGTTACT 59.653 61.111 0.00 0.00 0.00 2.24
3280 3692 1.671742 CCCTGCCACGTTACTGTCT 59.328 57.895 0.00 0.00 0.00 3.41
3281 3693 0.670546 CCCTGCCACGTTACTGTCTG 60.671 60.000 0.00 0.00 0.00 3.51
3291 3706 2.413837 GTTACTGTCTGTGCCGTCATT 58.586 47.619 0.00 0.00 0.00 2.57
3292 3707 2.078849 TACTGTCTGTGCCGTCATTG 57.921 50.000 0.00 0.00 0.00 2.82
3298 3713 1.944699 CTGTGCCGTCATTGTCGTCG 61.945 60.000 2.82 0.00 0.00 5.12
3300 3715 1.300311 TGCCGTCATTGTCGTCGTT 60.300 52.632 2.82 0.00 0.00 3.85
3308 3723 0.966920 ATTGTCGTCGTTCCTCCAGT 59.033 50.000 0.00 0.00 0.00 4.00
3323 3738 1.875963 CAGTGGTGGAAACGATGCC 59.124 57.895 0.00 0.00 0.00 4.40
3352 3767 2.972505 ACTGCCTTGTCGCGGTTG 60.973 61.111 6.13 0.00 46.27 3.77
3353 3768 4.389576 CTGCCTTGTCGCGGTTGC 62.390 66.667 6.13 3.01 37.91 4.17
3354 3769 4.927782 TGCCTTGTCGCGGTTGCT 62.928 61.111 6.13 0.00 39.65 3.91
3355 3770 3.660111 GCCTTGTCGCGGTTGCTT 61.660 61.111 6.13 0.00 39.65 3.91
3356 3771 2.252260 CCTTGTCGCGGTTGCTTG 59.748 61.111 6.13 0.00 39.65 4.01
3357 3772 2.542907 CCTTGTCGCGGTTGCTTGT 61.543 57.895 6.13 0.00 39.65 3.16
3358 3773 1.082756 CTTGTCGCGGTTGCTTGTC 60.083 57.895 6.13 0.00 39.65 3.18
3359 3774 2.443957 CTTGTCGCGGTTGCTTGTCC 62.444 60.000 6.13 0.00 39.65 4.02
3360 3775 2.665185 GTCGCGGTTGCTTGTCCT 60.665 61.111 6.13 0.00 39.65 3.85
3361 3776 2.110213 TCGCGGTTGCTTGTCCTT 59.890 55.556 6.13 0.00 39.65 3.36
3362 3777 2.250939 TCGCGGTTGCTTGTCCTTG 61.251 57.895 6.13 0.00 39.65 3.61
3363 3778 2.250939 CGCGGTTGCTTGTCCTTGA 61.251 57.895 0.00 0.00 39.65 3.02
3364 3779 1.282875 GCGGTTGCTTGTCCTTGAC 59.717 57.895 0.00 0.00 38.39 3.18
3365 3780 1.949257 CGGTTGCTTGTCCTTGACC 59.051 57.895 0.00 0.00 0.00 4.02
3366 3781 1.515521 CGGTTGCTTGTCCTTGACCC 61.516 60.000 0.00 0.00 0.00 4.46
3367 3782 1.515521 GGTTGCTTGTCCTTGACCCG 61.516 60.000 0.00 0.00 0.00 5.28
3368 3783 1.896660 TTGCTTGTCCTTGACCCGC 60.897 57.895 0.00 0.00 0.00 6.13
3369 3784 2.281484 GCTTGTCCTTGACCCGCA 60.281 61.111 0.00 0.00 30.76 5.69
3370 3785 1.896660 GCTTGTCCTTGACCCGCAA 60.897 57.895 0.00 0.00 34.73 4.85
3391 3806 4.767255 CACTGCCAGGGCTCCGTC 62.767 72.222 12.19 0.00 42.51 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 8.435982 ACGGACTAACTTGGATAGTACTAGTAT 58.564 37.037 5.75 0.00 32.88 2.12
3 4 7.796054 ACGGACTAACTTGGATAGTACTAGTA 58.204 38.462 8.85 0.00 32.88 1.82
4 5 6.657875 ACGGACTAACTTGGATAGTACTAGT 58.342 40.000 8.85 0.00 34.56 2.57
6 7 9.060347 CAATACGGACTAACTTGGATAGTACTA 57.940 37.037 4.77 4.77 35.54 1.82
7 8 7.014038 CCAATACGGACTAACTTGGATAGTACT 59.986 40.741 0.00 0.00 38.92 2.73
8 9 7.144000 CCAATACGGACTAACTTGGATAGTAC 58.856 42.308 0.00 0.00 38.92 2.73
9 10 6.835488 ACCAATACGGACTAACTTGGATAGTA 59.165 38.462 3.93 0.00 38.92 1.82
10 11 5.659971 ACCAATACGGACTAACTTGGATAGT 59.340 40.000 3.93 0.00 38.92 2.12
11 12 6.158023 ACCAATACGGACTAACTTGGATAG 57.842 41.667 3.93 0.00 38.92 2.08
12 13 6.549433 AACCAATACGGACTAACTTGGATA 57.451 37.500 3.93 0.00 38.92 2.59
13 14 5.431179 AACCAATACGGACTAACTTGGAT 57.569 39.130 3.93 0.00 38.92 3.41
14 15 4.895668 AACCAATACGGACTAACTTGGA 57.104 40.909 3.93 0.00 38.92 3.53
15 16 4.758165 ACAAACCAATACGGACTAACTTGG 59.242 41.667 0.00 0.00 41.67 3.61
16 17 5.934935 ACAAACCAATACGGACTAACTTG 57.065 39.130 0.00 0.00 38.63 3.16
17 18 7.879160 TCATAACAAACCAATACGGACTAACTT 59.121 33.333 0.00 0.00 38.63 2.66
18 19 7.388437 TCATAACAAACCAATACGGACTAACT 58.612 34.615 0.00 0.00 38.63 2.24
19 20 7.599630 TCATAACAAACCAATACGGACTAAC 57.400 36.000 0.00 0.00 38.63 2.34
20 21 7.223193 CGATCATAACAAACCAATACGGACTAA 59.777 37.037 0.00 0.00 38.63 2.24
21 22 6.698329 CGATCATAACAAACCAATACGGACTA 59.302 38.462 0.00 0.00 38.63 2.59
22 23 5.522460 CGATCATAACAAACCAATACGGACT 59.478 40.000 0.00 0.00 38.63 3.85
23 24 5.277154 CCGATCATAACAAACCAATACGGAC 60.277 44.000 0.00 0.00 38.09 4.79
24 25 4.812091 CCGATCATAACAAACCAATACGGA 59.188 41.667 0.00 0.00 38.09 4.69
25 26 4.024387 CCCGATCATAACAAACCAATACGG 60.024 45.833 0.00 0.00 42.50 4.02
26 27 4.573201 ACCCGATCATAACAAACCAATACG 59.427 41.667 0.00 0.00 0.00 3.06
27 28 5.008316 GGACCCGATCATAACAAACCAATAC 59.992 44.000 0.00 0.00 0.00 1.89
28 29 5.104277 AGGACCCGATCATAACAAACCAATA 60.104 40.000 0.00 0.00 0.00 1.90
29 30 3.951680 GGACCCGATCATAACAAACCAAT 59.048 43.478 0.00 0.00 0.00 3.16
30 31 3.009695 AGGACCCGATCATAACAAACCAA 59.990 43.478 0.00 0.00 0.00 3.67
31 32 2.574369 AGGACCCGATCATAACAAACCA 59.426 45.455 0.00 0.00 0.00 3.67
32 33 3.277142 AGGACCCGATCATAACAAACC 57.723 47.619 0.00 0.00 0.00 3.27
33 34 5.019785 ACTAGGACCCGATCATAACAAAC 57.980 43.478 0.00 0.00 0.00 2.93
34 35 4.960469 AGACTAGGACCCGATCATAACAAA 59.040 41.667 0.00 0.00 0.00 2.83
35 36 4.341235 CAGACTAGGACCCGATCATAACAA 59.659 45.833 0.00 0.00 0.00 2.83
36 37 3.889538 CAGACTAGGACCCGATCATAACA 59.110 47.826 0.00 0.00 0.00 2.41
37 38 3.890147 ACAGACTAGGACCCGATCATAAC 59.110 47.826 0.00 0.00 0.00 1.89
38 39 4.180377 ACAGACTAGGACCCGATCATAA 57.820 45.455 0.00 0.00 0.00 1.90
39 40 3.878237 ACAGACTAGGACCCGATCATA 57.122 47.619 0.00 0.00 0.00 2.15
40 41 2.757894 ACAGACTAGGACCCGATCAT 57.242 50.000 0.00 0.00 0.00 2.45
41 42 2.526888 AACAGACTAGGACCCGATCA 57.473 50.000 0.00 0.00 0.00 2.92
42 43 3.194968 TCAAAACAGACTAGGACCCGATC 59.805 47.826 0.00 0.00 0.00 3.69
43 44 3.170717 TCAAAACAGACTAGGACCCGAT 58.829 45.455 0.00 0.00 0.00 4.18
44 45 2.600790 TCAAAACAGACTAGGACCCGA 58.399 47.619 0.00 0.00 0.00 5.14
45 46 3.522553 GATCAAAACAGACTAGGACCCG 58.477 50.000 0.00 0.00 0.00 5.28
46 47 3.522553 CGATCAAAACAGACTAGGACCC 58.477 50.000 0.00 0.00 0.00 4.46
47 48 2.930682 GCGATCAAAACAGACTAGGACC 59.069 50.000 0.00 0.00 0.00 4.46
48 49 3.585862 TGCGATCAAAACAGACTAGGAC 58.414 45.455 0.00 0.00 0.00 3.85
49 50 3.953712 TGCGATCAAAACAGACTAGGA 57.046 42.857 0.00 0.00 0.00 2.94
50 51 5.356882 TTTTGCGATCAAAACAGACTAGG 57.643 39.130 0.00 0.00 44.58 3.02
72 73 4.893524 CCAAAACAGACTAGGACCCTTTTT 59.106 41.667 0.00 0.00 0.00 1.94
73 74 4.079385 ACCAAAACAGACTAGGACCCTTTT 60.079 41.667 0.00 0.00 0.00 2.27
74 75 3.462205 ACCAAAACAGACTAGGACCCTTT 59.538 43.478 0.00 0.00 0.00 3.11
75 76 3.053826 ACCAAAACAGACTAGGACCCTT 58.946 45.455 0.00 0.00 0.00 3.95
76 77 2.702748 ACCAAAACAGACTAGGACCCT 58.297 47.619 0.00 0.00 0.00 4.34
77 78 3.503800 AACCAAAACAGACTAGGACCC 57.496 47.619 0.00 0.00 0.00 4.46
78 79 3.992427 CGTAACCAAAACAGACTAGGACC 59.008 47.826 0.00 0.00 0.00 4.46
79 80 4.625028 ACGTAACCAAAACAGACTAGGAC 58.375 43.478 0.00 0.00 0.00 3.85
80 81 4.942761 ACGTAACCAAAACAGACTAGGA 57.057 40.909 0.00 0.00 0.00 2.94
81 82 5.776744 AGTACGTAACCAAAACAGACTAGG 58.223 41.667 0.00 0.00 0.00 3.02
82 83 8.078596 ACTAAGTACGTAACCAAAACAGACTAG 58.921 37.037 0.00 0.00 0.00 2.57
83 84 7.940850 ACTAAGTACGTAACCAAAACAGACTA 58.059 34.615 0.00 0.00 0.00 2.59
84 85 6.809869 ACTAAGTACGTAACCAAAACAGACT 58.190 36.000 0.00 0.00 0.00 3.24
85 86 7.010460 ACAACTAAGTACGTAACCAAAACAGAC 59.990 37.037 0.00 0.00 0.00 3.51
86 87 7.041107 ACAACTAAGTACGTAACCAAAACAGA 58.959 34.615 0.00 0.00 0.00 3.41
87 88 7.237920 ACAACTAAGTACGTAACCAAAACAG 57.762 36.000 0.00 0.00 0.00 3.16
88 89 6.257630 GGACAACTAAGTACGTAACCAAAACA 59.742 38.462 0.00 0.00 0.00 2.83
89 90 6.562086 CGGACAACTAAGTACGTAACCAAAAC 60.562 42.308 0.00 0.00 40.88 2.43
90 91 5.461737 CGGACAACTAAGTACGTAACCAAAA 59.538 40.000 0.00 0.00 40.88 2.44
91 92 4.981674 CGGACAACTAAGTACGTAACCAAA 59.018 41.667 0.00 0.00 40.88 3.28
92 93 4.545610 CGGACAACTAAGTACGTAACCAA 58.454 43.478 0.00 0.00 40.88 3.67
93 94 3.057596 CCGGACAACTAAGTACGTAACCA 60.058 47.826 0.00 0.00 44.22 3.67
94 95 3.501950 CCGGACAACTAAGTACGTAACC 58.498 50.000 0.00 0.00 44.22 2.85
95 96 2.917343 GCCGGACAACTAAGTACGTAAC 59.083 50.000 5.05 0.00 44.22 2.50
96 97 2.819608 AGCCGGACAACTAAGTACGTAA 59.180 45.455 5.05 0.00 44.22 3.18
97 98 2.420022 GAGCCGGACAACTAAGTACGTA 59.580 50.000 5.05 0.00 44.22 3.57
98 99 1.200948 GAGCCGGACAACTAAGTACGT 59.799 52.381 5.05 0.00 44.22 3.57
99 100 1.792993 CGAGCCGGACAACTAAGTACG 60.793 57.143 5.05 0.00 45.28 3.67
100 101 1.905449 CGAGCCGGACAACTAAGTAC 58.095 55.000 5.05 0.00 0.00 2.73
113 114 3.432051 CTGGTTAGGAGCCGAGCCG 62.432 68.421 0.00 0.00 0.00 5.52
114 115 2.501610 CTGGTTAGGAGCCGAGCC 59.498 66.667 0.00 0.00 0.00 4.70
124 125 1.218316 GTCCGGCTCACCTGGTTAG 59.782 63.158 3.60 3.60 33.11 2.34
125 126 0.907704 ATGTCCGGCTCACCTGGTTA 60.908 55.000 0.00 0.00 33.11 2.85
126 127 1.779061 AATGTCCGGCTCACCTGGTT 61.779 55.000 0.00 0.00 33.11 3.67
127 128 1.779061 AAATGTCCGGCTCACCTGGT 61.779 55.000 0.00 0.00 33.11 4.00
128 129 0.609131 AAAATGTCCGGCTCACCTGG 60.609 55.000 0.00 0.00 0.00 4.45
282 284 6.043854 GGATGACTCCTCTGTTAAGAAACT 57.956 41.667 0.00 0.00 38.65 2.66
668 671 4.844085 TCATAAAAAGGTCTCTGTCCTCCA 59.156 41.667 0.00 0.00 33.76 3.86
694 697 2.991076 GCTCCAGCCGTGTAGACGT 61.991 63.158 11.79 0.00 44.54 4.34
737 741 0.249120 GTCACACCGTCATCCATGGA 59.751 55.000 18.88 18.88 34.76 3.41
975 982 1.959710 TTCACCCCATAGTGCAGGTA 58.040 50.000 0.00 0.00 37.68 3.08
976 983 1.072266 TTTCACCCCATAGTGCAGGT 58.928 50.000 0.00 0.00 37.68 4.00
989 996 3.927142 CAGACTCACGGTAGAATTTCACC 59.073 47.826 0.00 3.98 0.00 4.02
998 1005 3.917329 TCAAGTTCAGACTCACGGTAG 57.083 47.619 0.00 0.00 34.21 3.18
1013 1020 9.372369 CCTCTATTTCTTTCGTTTCTATCAAGT 57.628 33.333 0.00 0.00 0.00 3.16
1014 1021 8.821894 CCCTCTATTTCTTTCGTTTCTATCAAG 58.178 37.037 0.00 0.00 0.00 3.02
1046 1060 2.126228 TAGACGCCCGCGACAAAG 60.126 61.111 17.16 0.00 42.83 2.77
1189 1203 2.789203 GCGCGAGTAGCCTTCAACG 61.789 63.158 12.10 0.00 44.76 4.10
1360 1380 0.464036 ACTGAACCTTCACGCTGTGA 59.536 50.000 7.20 7.20 41.09 3.58
1449 1469 2.234661 ACATCATGGCGTTCAGAGAAGA 59.765 45.455 0.00 0.00 0.00 2.87
1480 1521 5.351948 TCATGAATCTAAACCGACCATGA 57.648 39.130 0.00 0.00 35.66 3.07
1481 1522 6.435430 TTTCATGAATCTAAACCGACCATG 57.565 37.500 9.40 0.00 32.83 3.66
1482 1523 6.095440 CCTTTTCATGAATCTAAACCGACCAT 59.905 38.462 9.40 0.00 0.00 3.55
1483 1524 5.414454 CCTTTTCATGAATCTAAACCGACCA 59.586 40.000 9.40 0.00 0.00 4.02
1484 1525 5.163652 CCCTTTTCATGAATCTAAACCGACC 60.164 44.000 9.40 0.00 0.00 4.79
1485 1526 5.646360 TCCCTTTTCATGAATCTAAACCGAC 59.354 40.000 9.40 0.00 0.00 4.79
1486 1527 5.811190 TCCCTTTTCATGAATCTAAACCGA 58.189 37.500 9.40 0.00 0.00 4.69
1487 1528 5.066505 CCTCCCTTTTCATGAATCTAAACCG 59.933 44.000 9.40 0.00 0.00 4.44
1488 1529 5.952347 ACCTCCCTTTTCATGAATCTAAACC 59.048 40.000 9.40 0.00 0.00 3.27
1608 1673 4.742201 GAAGAGCGCTGGTGCCGA 62.742 66.667 18.48 0.00 35.36 5.54
1788 1853 2.882761 CTCGATTCATTCATGGCACCAT 59.117 45.455 0.00 0.00 37.08 3.55
1840 1917 1.188219 TCAGCAAGCTCCCGAAGACT 61.188 55.000 0.00 0.00 0.00 3.24
2325 2619 7.324178 ACAGTAGCAGGAGTAGACAAATTTAG 58.676 38.462 0.00 0.00 0.00 1.85
2326 2620 7.241042 ACAGTAGCAGGAGTAGACAAATTTA 57.759 36.000 0.00 0.00 0.00 1.40
2327 2621 6.115448 ACAGTAGCAGGAGTAGACAAATTT 57.885 37.500 0.00 0.00 0.00 1.82
2328 2622 5.746990 ACAGTAGCAGGAGTAGACAAATT 57.253 39.130 0.00 0.00 0.00 1.82
2330 2638 4.833380 AGAACAGTAGCAGGAGTAGACAAA 59.167 41.667 0.00 0.00 0.00 2.83
2332 2640 4.035612 AGAACAGTAGCAGGAGTAGACA 57.964 45.455 0.00 0.00 0.00 3.41
2340 2648 6.650807 TCAGACAAATTTAGAACAGTAGCAGG 59.349 38.462 0.00 0.00 0.00 4.85
2528 2873 2.026522 CCTGAGTCGGATCGGAGAC 58.973 63.158 2.75 4.98 42.51 3.36
2570 2923 6.385649 TTTGGTAGTCCACAAGATTTGTTC 57.614 37.500 0.00 0.00 43.23 3.18
2598 2951 3.756434 CTGGAATAAAATGTGTGGACGGT 59.244 43.478 0.00 0.00 0.00 4.83
2599 2952 4.006989 TCTGGAATAAAATGTGTGGACGG 58.993 43.478 0.00 0.00 0.00 4.79
2758 3156 5.200454 GCAGATGTTACGTTATTGAGCATG 58.800 41.667 0.00 0.00 0.00 4.06
2782 3181 2.289565 GCATTAGCCACCTAACTGTCC 58.710 52.381 0.00 0.00 36.43 4.02
2789 3188 0.397957 TCCTCCGCATTAGCCACCTA 60.398 55.000 0.00 0.00 37.52 3.08
2801 3200 2.143925 GCTGTATATTGGTTCCTCCGC 58.856 52.381 0.00 0.00 39.52 5.54
2867 3266 8.622157 CAATTCTGAATTACTGATGATGCTCTT 58.378 33.333 14.78 0.00 0.00 2.85
2904 3303 7.361885 GCGAGCTAGGCTGTAGTTAAGAATATA 60.362 40.741 0.00 0.00 39.88 0.86
2913 3314 2.889200 AGCGAGCTAGGCTGTAGTT 58.111 52.632 10.72 0.00 39.88 2.24
2914 3315 4.668151 AGCGAGCTAGGCTGTAGT 57.332 55.556 10.72 0.00 39.88 2.73
2985 3390 1.084370 CGGGTCATCGTTGGAGAAGC 61.084 60.000 0.00 0.00 0.00 3.86
2987 3392 1.079405 GCGGGTCATCGTTGGAGAA 60.079 57.895 0.00 0.00 0.00 2.87
3011 3416 0.379669 CCATGAACAGATGCCGAAGC 59.620 55.000 0.00 0.00 40.48 3.86
3013 3418 2.715749 ATCCATGAACAGATGCCGAA 57.284 45.000 0.00 0.00 0.00 4.30
3014 3419 2.965147 TCTATCCATGAACAGATGCCGA 59.035 45.455 0.00 0.00 0.00 5.54
3016 3421 4.314121 GTCTCTATCCATGAACAGATGCC 58.686 47.826 0.00 0.00 0.00 4.40
3022 3427 3.706594 GGACTGGTCTCTATCCATGAACA 59.293 47.826 0.00 0.00 34.26 3.18
3025 3430 2.091830 ACGGACTGGTCTCTATCCATGA 60.092 50.000 0.00 0.00 34.26 3.07
3026 3431 2.035193 CACGGACTGGTCTCTATCCATG 59.965 54.545 0.67 0.00 34.26 3.66
3027 3432 2.311463 CACGGACTGGTCTCTATCCAT 58.689 52.381 0.67 0.00 34.26 3.41
3028 3433 1.685180 CCACGGACTGGTCTCTATCCA 60.685 57.143 0.67 0.00 34.90 3.41
3032 3437 0.402887 TGTCCACGGACTGGTCTCTA 59.597 55.000 16.88 0.00 44.80 2.43
3035 3440 3.456317 GTGTCCACGGACTGGTCT 58.544 61.111 16.88 0.00 44.80 3.85
3070 3477 2.431454 TATGCGGGCAGTGTCGGAT 61.431 57.895 6.46 12.33 40.34 4.18
3072 3479 2.890474 GTATGCGGGCAGTGTCGG 60.890 66.667 0.00 0.00 0.00 4.79
3073 3480 1.089481 AATGTATGCGGGCAGTGTCG 61.089 55.000 0.00 4.12 0.00 4.35
3074 3481 1.064060 GAAATGTATGCGGGCAGTGTC 59.936 52.381 0.00 0.00 0.00 3.67
3077 3484 1.745087 CTTGAAATGTATGCGGGCAGT 59.255 47.619 0.00 0.00 0.00 4.40
3097 3504 6.721571 TCATCCGTTTAGTTCAATCAGTTC 57.278 37.500 0.00 0.00 0.00 3.01
3102 3509 9.013490 CATGAATTTCATCCGTTTAGTTCAATC 57.987 33.333 8.95 0.00 34.28 2.67
3103 3510 7.489113 GCATGAATTTCATCCGTTTAGTTCAAT 59.511 33.333 8.95 0.00 34.28 2.57
3129 3536 0.525761 AATGGAATCCGCCGTGTTTG 59.474 50.000 0.00 0.00 0.00 2.93
3138 3545 5.070770 TGACCAAATTTGAATGGAATCCG 57.929 39.130 19.86 1.28 39.12 4.18
3200 3607 9.683870 TGTGGTTTAGGTTTTCTCTAGTTTTTA 57.316 29.630 0.00 0.00 0.00 1.52
3223 3630 2.677836 CAAGGTGGTCGTCCATTATGTG 59.322 50.000 4.29 0.00 46.20 3.21
3267 3679 1.282248 CGGCACAGACAGTAACGTGG 61.282 60.000 0.00 0.00 0.00 4.94
3268 3680 0.596600 ACGGCACAGACAGTAACGTG 60.597 55.000 0.00 0.00 39.34 4.49
3269 3681 0.318445 GACGGCACAGACAGTAACGT 60.318 55.000 0.00 0.00 42.14 3.99
3271 3683 2.080286 ATGACGGCACAGACAGTAAC 57.920 50.000 0.00 0.00 0.00 2.50
3272 3684 2.224185 ACAATGACGGCACAGACAGTAA 60.224 45.455 0.00 0.00 0.00 2.24
3274 3686 0.106708 ACAATGACGGCACAGACAGT 59.893 50.000 0.00 0.00 0.00 3.55
3275 3687 0.792640 GACAATGACGGCACAGACAG 59.207 55.000 0.00 0.00 0.00 3.51
3276 3688 0.943835 CGACAATGACGGCACAGACA 60.944 55.000 0.00 0.00 0.00 3.41
3280 3692 2.019408 CGACGACAATGACGGCACA 61.019 57.895 11.77 0.00 38.84 4.57
3281 3693 1.554042 AACGACGACAATGACGGCAC 61.554 55.000 11.77 1.21 38.84 5.01
3291 3706 1.658114 CACTGGAGGAACGACGACA 59.342 57.895 0.00 0.00 0.00 4.35
3292 3707 1.080705 CCACTGGAGGAACGACGAC 60.081 63.158 0.00 0.00 0.00 4.34
3308 3723 2.359354 CCGGCATCGTTTCCACCA 60.359 61.111 0.00 0.00 33.95 4.17
3334 3749 2.665185 AACCGCGACAAGGCAGTC 60.665 61.111 8.23 0.56 35.19 3.51
3335 3750 2.972505 CAACCGCGACAAGGCAGT 60.973 61.111 8.23 0.00 0.00 4.40
3337 3752 4.927782 AGCAACCGCGACAAGGCA 62.928 61.111 8.23 0.00 45.49 4.75
3346 3761 1.282875 GTCAAGGACAAGCAACCGC 59.717 57.895 0.00 0.00 33.30 5.68
3347 3762 1.515521 GGGTCAAGGACAAGCAACCG 61.516 60.000 0.00 0.00 33.68 4.44
3349 3764 1.949257 CGGGTCAAGGACAAGCAAC 59.051 57.895 0.00 0.00 33.68 4.17
3350 3765 1.896660 GCGGGTCAAGGACAAGCAA 60.897 57.895 9.38 0.00 36.82 3.91
3351 3766 2.281484 GCGGGTCAAGGACAAGCA 60.281 61.111 9.38 0.00 36.82 3.91
3352 3767 1.856265 CTTGCGGGTCAAGGACAAGC 61.856 60.000 7.90 7.90 46.50 4.01
3353 3768 2.247790 CTTGCGGGTCAAGGACAAG 58.752 57.895 0.00 0.00 46.50 3.16
3354 3769 4.473643 CTTGCGGGTCAAGGACAA 57.526 55.556 0.00 0.00 46.50 3.18
3374 3789 4.767255 GACGGAGCCCTGGCAGTG 62.767 72.222 14.43 2.47 44.88 3.66


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

AutoCloner maintained by Alex Coulton.