Multiple sequence alignment - TraesCS7D01G184100

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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 TraesCS7D01G184100 chr7D 100.000 2474 0 0 1 2474 137573963 137571490 0.000000e+00 4569.0
1 TraesCS7D01G184100 chr7D 92.644 2080 123 12 339 2401 137612325 137610259 0.000000e+00 2966.0
2 TraesCS7D01G184100 chr7D 90.923 1300 74 10 233 1503 277448938 277447654 0.000000e+00 1707.0
3 TraesCS7D01G184100 chr7D 83.615 946 92 27 1501 2401 137768341 137767414 0.000000e+00 830.0
4 TraesCS7D01G184100 chr7D 96.121 232 9 0 2 233 617696705 617696474 1.800000e-101 379.0
5 TraesCS7D01G184100 chr7D 84.889 225 30 3 2176 2399 68932298 68932077 8.900000e-55 224.0
6 TraesCS7D01G184100 chr7D 97.638 127 1 2 233 358 137594960 137594835 1.490000e-52 217.0
7 TraesCS7D01G184100 chr7D 91.935 62 5 0 2398 2459 137610011 137609950 1.220000e-13 87.9
8 TraesCS7D01G184100 chrUn 92.411 2082 121 14 338 2401 91678521 91676459 0.000000e+00 2935.0
9 TraesCS7D01G184100 chrUn 79.595 1284 224 21 230 1480 200779864 200781142 0.000000e+00 885.0
10 TraesCS7D01G184100 chrUn 95.745 235 10 0 2167 2401 441249512 441249746 1.800000e-101 379.0
11 TraesCS7D01G184100 chrUn 79.241 448 75 7 1931 2360 414493530 414493083 1.860000e-76 296.0
12 TraesCS7D01G184100 chrUn 87.013 77 10 0 2398 2474 91676211 91676135 1.220000e-13 87.9
13 TraesCS7D01G184100 chrUn 91.935 62 5 0 2398 2459 441249994 441250055 1.220000e-13 87.9
14 TraesCS7D01G184100 chr5D 91.462 1300 80 3 234 1503 193141464 193142762 0.000000e+00 1757.0
15 TraesCS7D01G184100 chr7B 90.930 1301 87 12 233 1503 15584204 15582905 0.000000e+00 1720.0
16 TraesCS7D01G184100 chr7B 83.191 934 104 21 1510 2401 102669487 102668565 0.000000e+00 806.0
17 TraesCS7D01G184100 chr7B 85.573 707 57 14 1501 2169 102269598 102268899 0.000000e+00 699.0
18 TraesCS7D01G184100 chr7B 85.714 77 11 0 2398 2474 102267445 102267369 5.670000e-12 82.4
19 TraesCS7D01G184100 chr5A 93.074 1155 73 3 346 1493 631966863 631965709 0.000000e+00 1683.0
20 TraesCS7D01G184100 chr2A 89.107 1221 102 6 245 1434 751523891 751525111 0.000000e+00 1489.0
21 TraesCS7D01G184100 chr2A 93.663 789 43 4 719 1501 771491918 771491131 0.000000e+00 1173.0
22 TraesCS7D01G184100 chr2A 88.295 991 88 2 233 1196 291310886 291309897 0.000000e+00 1162.0
23 TraesCS7D01G184100 chr3A 80.684 1170 213 10 340 1503 567981018 567979856 0.000000e+00 896.0
24 TraesCS7D01G184100 chr1A 78.073 1318 249 22 233 1514 550447969 550446656 0.000000e+00 797.0
25 TraesCS7D01G184100 chr7A 86.321 636 65 11 1771 2389 137781982 137781352 0.000000e+00 673.0
26 TraesCS7D01G184100 chr7A 80.429 373 58 8 2041 2401 71111116 71111485 1.130000e-68 270.0
27 TraesCS7D01G184100 chr3D 96.154 234 8 1 1 234 313951085 313951317 4.990000e-102 381.0
28 TraesCS7D01G184100 chr3D 96.137 233 9 0 1 233 396426015 396425783 4.990000e-102 381.0
29 TraesCS7D01G184100 chr3D 95.021 241 11 1 1 240 526291545 526291305 6.460000e-101 377.0
30 TraesCS7D01G184100 chr3D 94.286 105 5 1 233 337 92269461 92269564 2.550000e-35 159.0
31 TraesCS7D01G184100 chr2D 96.137 233 9 0 1 233 65652820 65652588 4.990000e-102 381.0
32 TraesCS7D01G184100 chr2D 96.137 233 9 0 1 233 580378734 580378502 4.990000e-102 381.0
33 TraesCS7D01G184100 chr2D 80.579 484 71 11 1931 2400 558746310 558746784 3.910000e-93 351.0
34 TraesCS7D01G184100 chr1D 95.359 237 11 0 1 237 429796757 429796993 6.460000e-101 377.0
35 TraesCS7D01G184100 chr1D 94.239 243 12 2 1 243 178283528 178283288 1.080000e-98 370.0
36 TraesCS7D01G184100 chr4D 95.359 237 9 2 1 236 488054423 488054188 2.320000e-100 375.0
37 TraesCS7D01G184100 chr4D 81.720 465 69 7 1951 2399 502028990 502028526 8.350000e-100 374.0
38 TraesCS7D01G184100 chr4A 78.893 488 81 16 1931 2399 246717095 246716611 6.640000e-81 311.0
39 TraesCS7D01G184100 chr6A 79.365 315 49 7 1932 2230 15451740 15452054 8.970000e-50 207.0


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 TraesCS7D01G184100 chr7D 137571490 137573963 2473 True 4569.00 4569 100.0000 1 2474 1 chr7D.!!$R2 2473
1 TraesCS7D01G184100 chr7D 277447654 277448938 1284 True 1707.00 1707 90.9230 233 1503 1 chr7D.!!$R5 1270
2 TraesCS7D01G184100 chr7D 137609950 137612325 2375 True 1526.95 2966 92.2895 339 2459 2 chr7D.!!$R7 2120
3 TraesCS7D01G184100 chr7D 137767414 137768341 927 True 830.00 830 83.6150 1501 2401 1 chr7D.!!$R4 900
4 TraesCS7D01G184100 chrUn 91676135 91678521 2386 True 1511.45 2935 89.7120 338 2474 2 chrUn.!!$R2 2136
5 TraesCS7D01G184100 chrUn 200779864 200781142 1278 False 885.00 885 79.5950 230 1480 1 chrUn.!!$F1 1250
6 TraesCS7D01G184100 chrUn 441249512 441250055 543 False 233.45 379 93.8400 2167 2459 2 chrUn.!!$F2 292
7 TraesCS7D01G184100 chr5D 193141464 193142762 1298 False 1757.00 1757 91.4620 234 1503 1 chr5D.!!$F1 1269
8 TraesCS7D01G184100 chr7B 15582905 15584204 1299 True 1720.00 1720 90.9300 233 1503 1 chr7B.!!$R1 1270
9 TraesCS7D01G184100 chr7B 102668565 102669487 922 True 806.00 806 83.1910 1510 2401 1 chr7B.!!$R2 891
10 TraesCS7D01G184100 chr7B 102267369 102269598 2229 True 390.70 699 85.6435 1501 2474 2 chr7B.!!$R3 973
11 TraesCS7D01G184100 chr5A 631965709 631966863 1154 True 1683.00 1683 93.0740 346 1493 1 chr5A.!!$R1 1147
12 TraesCS7D01G184100 chr2A 751523891 751525111 1220 False 1489.00 1489 89.1070 245 1434 1 chr2A.!!$F1 1189
13 TraesCS7D01G184100 chr2A 771491131 771491918 787 True 1173.00 1173 93.6630 719 1501 1 chr2A.!!$R2 782
14 TraesCS7D01G184100 chr2A 291309897 291310886 989 True 1162.00 1162 88.2950 233 1196 1 chr2A.!!$R1 963
15 TraesCS7D01G184100 chr3A 567979856 567981018 1162 True 896.00 896 80.6840 340 1503 1 chr3A.!!$R1 1163
16 TraesCS7D01G184100 chr1A 550446656 550447969 1313 True 797.00 797 78.0730 233 1514 1 chr1A.!!$R1 1281
17 TraesCS7D01G184100 chr7A 137781352 137781982 630 True 673.00 673 86.3210 1771 2389 1 chr7A.!!$R1 618

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
19 20 0.032403 CCGGGTTGTACGTCTGTTGA 59.968 55.0 0.0 0.0 0.0 3.18 F
162 163 0.033601 ATGCACTCCCTCTCTCTCGT 60.034 55.0 0.0 0.0 0.0 4.18 F
166 167 0.039035 ACTCCCTCTCTCTCGTTGCT 59.961 55.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1180 1231 0.107410 TTGCAACCCGTCTTCTGTGT 60.107 50.000 0.00 0.0 0.0 3.72 R
1341 1395 0.108138 CTACCTTGTTCGCCTCCCTG 60.108 60.000 0.00 0.0 0.0 4.45 R
1653 1731 1.839747 TGGCCTGGGTACACGAGTT 60.840 57.895 3.32 0.0 0.0 3.01 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
18 19 2.524300 CCGGGTTGTACGTCTGTTG 58.476 57.895 0.00 0.00 0.00 3.33
19 20 0.032403 CCGGGTTGTACGTCTGTTGA 59.968 55.000 0.00 0.00 0.00 3.18
20 21 1.415374 CGGGTTGTACGTCTGTTGAG 58.585 55.000 0.00 0.00 0.00 3.02
21 22 1.145803 GGGTTGTACGTCTGTTGAGC 58.854 55.000 0.00 0.00 0.00 4.26
22 23 0.782384 GGTTGTACGTCTGTTGAGCG 59.218 55.000 0.00 0.00 0.00 5.03
23 24 0.161024 GTTGTACGTCTGTTGAGCGC 59.839 55.000 0.00 0.00 0.00 5.92
24 25 1.272784 TTGTACGTCTGTTGAGCGCG 61.273 55.000 0.00 0.00 0.00 6.86
25 26 2.126618 TACGTCTGTTGAGCGCGG 60.127 61.111 8.83 0.00 0.00 6.46
26 27 2.619165 TACGTCTGTTGAGCGCGGA 61.619 57.895 8.83 0.00 0.00 5.54
27 28 2.523184 TACGTCTGTTGAGCGCGGAG 62.523 60.000 8.83 0.00 0.00 4.63
28 29 2.811317 GTCTGTTGAGCGCGGAGG 60.811 66.667 8.83 0.00 0.00 4.30
29 30 4.742201 TCTGTTGAGCGCGGAGGC 62.742 66.667 8.83 0.00 0.00 4.70
51 52 4.077184 TCCGTTCGGCGCTTGGAT 62.077 61.111 7.64 0.00 39.71 3.41
52 53 3.564027 CCGTTCGGCGCTTGGATC 61.564 66.667 7.64 1.16 39.71 3.36
53 54 3.913573 CGTTCGGCGCTTGGATCG 61.914 66.667 7.64 9.74 0.00 3.69
54 55 3.564027 GTTCGGCGCTTGGATCGG 61.564 66.667 7.64 0.00 0.00 4.18
55 56 3.765578 TTCGGCGCTTGGATCGGA 61.766 61.111 7.64 0.00 0.00 4.55
56 57 3.088941 TTCGGCGCTTGGATCGGAT 62.089 57.895 7.64 0.00 0.00 4.18
57 58 2.971428 TTCGGCGCTTGGATCGGATC 62.971 60.000 7.64 9.54 0.00 3.36
58 59 2.423446 GGCGCTTGGATCGGATCT 59.577 61.111 16.96 0.00 0.00 2.75
59 60 1.227674 GGCGCTTGGATCGGATCTT 60.228 57.895 16.96 0.00 0.00 2.40
60 61 1.224722 GGCGCTTGGATCGGATCTTC 61.225 60.000 16.96 2.94 0.00 2.87
61 62 0.249657 GCGCTTGGATCGGATCTTCT 60.250 55.000 16.96 0.00 0.00 2.85
62 63 1.495878 CGCTTGGATCGGATCTTCTG 58.504 55.000 16.96 7.08 0.00 3.02
63 64 1.224965 GCTTGGATCGGATCTTCTGC 58.775 55.000 16.96 12.24 0.00 4.26
64 65 1.495878 CTTGGATCGGATCTTCTGCG 58.504 55.000 16.96 0.00 40.52 5.18
70 71 2.959507 TCGGATCTTCTGCGATTTGA 57.040 45.000 0.00 0.00 43.27 2.69
71 72 3.245518 TCGGATCTTCTGCGATTTGAA 57.754 42.857 0.00 0.00 43.27 2.69
72 73 3.797039 TCGGATCTTCTGCGATTTGAAT 58.203 40.909 0.00 0.00 43.27 2.57
73 74 3.804325 TCGGATCTTCTGCGATTTGAATC 59.196 43.478 0.00 0.00 43.27 2.52
81 82 4.880748 GATTTGAATCGCCGCGAG 57.119 55.556 21.61 0.24 39.91 5.03
82 83 2.006772 GATTTGAATCGCCGCGAGT 58.993 52.632 21.61 19.26 39.91 4.18
83 84 1.205657 GATTTGAATCGCCGCGAGTA 58.794 50.000 21.61 4.01 39.91 2.59
84 85 0.928229 ATTTGAATCGCCGCGAGTAC 59.072 50.000 21.61 14.26 39.91 2.73
85 86 1.407721 TTTGAATCGCCGCGAGTACG 61.408 55.000 21.61 6.02 39.91 3.67
86 87 2.023741 GAATCGCCGCGAGTACGA 59.976 61.111 21.61 12.00 39.91 3.43
87 88 2.277756 AATCGCCGCGAGTACGAC 60.278 61.111 21.61 0.00 39.91 4.34
88 89 2.643764 GAATCGCCGCGAGTACGACT 62.644 60.000 21.61 0.18 39.91 4.18
89 90 2.643764 AATCGCCGCGAGTACGACTC 62.644 60.000 21.61 0.00 39.91 3.36
90 91 4.883300 CGCCGCGAGTACGACTCC 62.883 72.222 8.23 3.02 42.12 3.85
91 92 3.807538 GCCGCGAGTACGACTCCA 61.808 66.667 8.23 0.00 42.12 3.86
92 93 3.108343 CCGCGAGTACGACTCCAT 58.892 61.111 8.23 0.00 42.12 3.41
93 94 1.009900 CCGCGAGTACGACTCCATC 60.010 63.158 8.23 0.62 42.12 3.51
94 95 1.712018 CCGCGAGTACGACTCCATCA 61.712 60.000 8.23 0.00 42.12 3.07
95 96 0.098200 CGCGAGTACGACTCCATCAA 59.902 55.000 0.00 0.00 42.12 2.57
96 97 1.546834 GCGAGTACGACTCCATCAAC 58.453 55.000 8.73 0.00 42.12 3.18
97 98 1.798079 GCGAGTACGACTCCATCAACC 60.798 57.143 8.73 0.00 42.12 3.77
98 99 1.531264 CGAGTACGACTCCATCAACCG 60.531 57.143 8.73 0.00 42.12 4.44
99 100 0.172803 AGTACGACTCCATCAACCGC 59.827 55.000 0.00 0.00 0.00 5.68
100 101 1.138036 TACGACTCCATCAACCGCG 59.862 57.895 0.00 0.00 0.00 6.46
101 102 1.588824 TACGACTCCATCAACCGCGT 61.589 55.000 4.92 0.00 0.00 6.01
102 103 1.736645 CGACTCCATCAACCGCGTT 60.737 57.895 4.92 0.00 0.00 4.84
103 104 1.683790 CGACTCCATCAACCGCGTTC 61.684 60.000 4.92 0.00 0.00 3.95
104 105 0.389948 GACTCCATCAACCGCGTTCT 60.390 55.000 4.92 0.00 0.00 3.01
105 106 0.034896 ACTCCATCAACCGCGTTCTT 59.965 50.000 4.92 0.00 0.00 2.52
106 107 0.443869 CTCCATCAACCGCGTTCTTG 59.556 55.000 4.92 3.62 0.00 3.02
107 108 0.250124 TCCATCAACCGCGTTCTTGT 60.250 50.000 4.92 0.00 0.00 3.16
108 109 1.001068 TCCATCAACCGCGTTCTTGTA 59.999 47.619 4.92 0.00 0.00 2.41
109 110 1.801771 CCATCAACCGCGTTCTTGTAA 59.198 47.619 4.92 0.00 0.00 2.41
110 111 2.412325 CCATCAACCGCGTTCTTGTAAC 60.412 50.000 4.92 0.00 0.00 2.50
111 112 0.854062 TCAACCGCGTTCTTGTAACG 59.146 50.000 4.92 5.94 45.56 3.18
117 118 3.921081 CGTTCTTGTAACGCTTCCG 57.079 52.632 0.00 0.00 36.82 4.30
118 119 0.179258 CGTTCTTGTAACGCTTCCGC 60.179 55.000 0.00 0.00 36.82 5.54
119 120 1.145803 GTTCTTGTAACGCTTCCGCT 58.854 50.000 0.00 0.00 38.22 5.52
120 121 1.529865 GTTCTTGTAACGCTTCCGCTT 59.470 47.619 0.00 0.00 38.22 4.68
121 122 2.728690 TCTTGTAACGCTTCCGCTTA 57.271 45.000 0.00 0.00 38.22 3.09
122 123 2.602878 TCTTGTAACGCTTCCGCTTAG 58.397 47.619 0.00 0.00 38.22 2.18
123 124 1.060698 CTTGTAACGCTTCCGCTTAGC 59.939 52.381 0.00 0.00 38.22 3.09
136 137 2.317530 GCTTAGCGATCTTCAAGGGT 57.682 50.000 0.00 0.00 0.00 4.34
137 138 3.454371 GCTTAGCGATCTTCAAGGGTA 57.546 47.619 0.00 0.00 0.00 3.69
138 139 3.996480 GCTTAGCGATCTTCAAGGGTAT 58.004 45.455 0.00 0.00 0.00 2.73
139 140 5.135508 GCTTAGCGATCTTCAAGGGTATA 57.864 43.478 0.00 0.00 0.00 1.47
140 141 5.539048 GCTTAGCGATCTTCAAGGGTATAA 58.461 41.667 0.00 0.00 0.00 0.98
141 142 5.989777 GCTTAGCGATCTTCAAGGGTATAAA 59.010 40.000 0.00 0.00 0.00 1.40
142 143 6.146347 GCTTAGCGATCTTCAAGGGTATAAAG 59.854 42.308 0.00 0.00 0.00 1.85
143 144 5.871396 AGCGATCTTCAAGGGTATAAAGA 57.129 39.130 0.00 0.00 32.69 2.52
144 145 6.426646 AGCGATCTTCAAGGGTATAAAGAT 57.573 37.500 0.00 0.00 40.29 2.40
145 146 6.226787 AGCGATCTTCAAGGGTATAAAGATG 58.773 40.000 1.47 0.00 38.30 2.90
146 147 5.106908 GCGATCTTCAAGGGTATAAAGATGC 60.107 44.000 1.47 3.05 38.30 3.91
147 148 5.991606 CGATCTTCAAGGGTATAAAGATGCA 59.008 40.000 1.47 0.00 38.30 3.96
148 149 6.073548 CGATCTTCAAGGGTATAAAGATGCAC 60.074 42.308 0.00 0.00 38.30 4.57
149 150 6.313519 TCTTCAAGGGTATAAAGATGCACT 57.686 37.500 0.00 0.00 31.86 4.40
150 151 6.349300 TCTTCAAGGGTATAAAGATGCACTC 58.651 40.000 0.00 0.00 28.68 3.51
151 152 5.036117 TCAAGGGTATAAAGATGCACTCC 57.964 43.478 0.00 0.00 28.68 3.85
152 153 4.137543 CAAGGGTATAAAGATGCACTCCC 58.862 47.826 0.00 0.00 28.68 4.30
153 154 3.669949 AGGGTATAAAGATGCACTCCCT 58.330 45.455 0.00 0.00 39.11 4.20
154 155 3.648545 AGGGTATAAAGATGCACTCCCTC 59.351 47.826 0.00 0.00 39.68 4.30
155 156 3.648545 GGGTATAAAGATGCACTCCCTCT 59.351 47.826 0.00 0.00 0.00 3.69
156 157 4.262678 GGGTATAAAGATGCACTCCCTCTC 60.263 50.000 0.00 0.00 0.00 3.20
157 158 4.591072 GGTATAAAGATGCACTCCCTCTCT 59.409 45.833 0.00 0.00 0.00 3.10
158 159 4.953940 ATAAAGATGCACTCCCTCTCTC 57.046 45.455 0.00 0.00 0.00 3.20
159 160 2.548464 AAGATGCACTCCCTCTCTCT 57.452 50.000 0.00 0.00 0.00 3.10
160 161 2.071778 AGATGCACTCCCTCTCTCTC 57.928 55.000 0.00 0.00 0.00 3.20
161 162 0.667993 GATGCACTCCCTCTCTCTCG 59.332 60.000 0.00 0.00 0.00 4.04
162 163 0.033601 ATGCACTCCCTCTCTCTCGT 60.034 55.000 0.00 0.00 0.00 4.18
163 164 0.251386 TGCACTCCCTCTCTCTCGTT 60.251 55.000 0.00 0.00 0.00 3.85
164 165 0.172352 GCACTCCCTCTCTCTCGTTG 59.828 60.000 0.00 0.00 0.00 4.10
165 166 0.172352 CACTCCCTCTCTCTCGTTGC 59.828 60.000 0.00 0.00 0.00 4.17
166 167 0.039035 ACTCCCTCTCTCTCGTTGCT 59.961 55.000 0.00 0.00 0.00 3.91
167 168 1.282447 ACTCCCTCTCTCTCGTTGCTA 59.718 52.381 0.00 0.00 0.00 3.49
168 169 1.946768 CTCCCTCTCTCTCGTTGCTAG 59.053 57.143 0.00 0.00 0.00 3.42
169 170 1.282447 TCCCTCTCTCTCGTTGCTAGT 59.718 52.381 0.00 0.00 0.00 2.57
170 171 2.504585 TCCCTCTCTCTCGTTGCTAGTA 59.495 50.000 0.00 0.00 0.00 1.82
171 172 3.136809 TCCCTCTCTCTCGTTGCTAGTAT 59.863 47.826 0.00 0.00 0.00 2.12
172 173 3.500680 CCCTCTCTCTCGTTGCTAGTATC 59.499 52.174 0.00 0.00 0.00 2.24
173 174 4.385825 CCTCTCTCTCGTTGCTAGTATCT 58.614 47.826 0.00 0.00 0.00 1.98
174 175 4.451096 CCTCTCTCTCGTTGCTAGTATCTC 59.549 50.000 0.00 0.00 0.00 2.75
175 176 4.382291 TCTCTCTCGTTGCTAGTATCTCC 58.618 47.826 0.00 0.00 0.00 3.71
176 177 4.101898 TCTCTCTCGTTGCTAGTATCTCCT 59.898 45.833 0.00 0.00 0.00 3.69
177 178 5.304871 TCTCTCTCGTTGCTAGTATCTCCTA 59.695 44.000 0.00 0.00 0.00 2.94
178 179 5.543714 TCTCTCGTTGCTAGTATCTCCTAG 58.456 45.833 0.00 0.00 37.96 3.02
179 180 5.304871 TCTCTCGTTGCTAGTATCTCCTAGA 59.695 44.000 0.00 0.00 37.24 2.43
180 181 6.014070 TCTCTCGTTGCTAGTATCTCCTAGAT 60.014 42.308 0.00 0.00 37.24 1.98
181 182 6.535540 TCTCGTTGCTAGTATCTCCTAGATT 58.464 40.000 0.00 0.00 37.24 2.40
182 183 6.428465 TCTCGTTGCTAGTATCTCCTAGATTG 59.572 42.308 0.00 0.00 37.24 2.67
183 184 6.296803 TCGTTGCTAGTATCTCCTAGATTGA 58.703 40.000 0.00 0.00 37.24 2.57
184 185 6.943146 TCGTTGCTAGTATCTCCTAGATTGAT 59.057 38.462 0.00 0.00 37.24 2.57
185 186 7.119992 TCGTTGCTAGTATCTCCTAGATTGATC 59.880 40.741 0.00 0.00 37.24 2.92
186 187 7.120579 CGTTGCTAGTATCTCCTAGATTGATCT 59.879 40.741 0.00 0.00 37.24 2.75
187 188 8.802267 GTTGCTAGTATCTCCTAGATTGATCTT 58.198 37.037 0.00 0.00 37.24 2.40
188 189 8.347004 TGCTAGTATCTCCTAGATTGATCTTG 57.653 38.462 0.00 0.00 37.24 3.02
189 190 7.395772 TGCTAGTATCTCCTAGATTGATCTTGG 59.604 40.741 13.24 13.24 46.71 3.61
190 191 7.396055 GCTAGTATCTCCTAGATTGATCTTGGT 59.604 40.741 17.17 5.32 45.88 3.67
191 192 7.537596 AGTATCTCCTAGATTGATCTTGGTG 57.462 40.000 17.17 15.36 45.88 4.17
193 194 5.860941 TCTCCTAGATTGATCTTGGTGAC 57.139 43.478 17.17 0.00 45.88 3.67
194 195 5.272402 TCTCCTAGATTGATCTTGGTGACA 58.728 41.667 17.17 2.34 45.88 3.58
195 196 5.127845 TCTCCTAGATTGATCTTGGTGACAC 59.872 44.000 17.17 0.00 45.88 3.67
196 197 4.115516 CCTAGATTGATCTTGGTGACACG 58.884 47.826 11.74 0.00 42.44 4.49
197 198 3.685139 AGATTGATCTTGGTGACACGT 57.315 42.857 0.00 0.00 42.67 4.49
198 199 4.801330 AGATTGATCTTGGTGACACGTA 57.199 40.909 0.00 0.00 42.67 3.57
199 200 4.748892 AGATTGATCTTGGTGACACGTAG 58.251 43.478 0.00 0.00 42.67 3.51
200 201 3.313012 TTGATCTTGGTGACACGTAGG 57.687 47.619 0.00 0.00 42.67 3.18
201 202 2.521126 TGATCTTGGTGACACGTAGGA 58.479 47.619 0.00 0.00 42.67 2.94
202 203 2.894765 TGATCTTGGTGACACGTAGGAA 59.105 45.455 0.00 0.00 42.67 3.36
203 204 3.322541 TGATCTTGGTGACACGTAGGAAA 59.677 43.478 0.00 0.00 42.67 3.13
204 205 3.823281 TCTTGGTGACACGTAGGAAAA 57.177 42.857 0.00 0.00 42.67 2.29
205 206 4.345859 TCTTGGTGACACGTAGGAAAAT 57.654 40.909 0.00 0.00 42.67 1.82
206 207 4.710324 TCTTGGTGACACGTAGGAAAATT 58.290 39.130 0.00 0.00 42.67 1.82
207 208 5.127491 TCTTGGTGACACGTAGGAAAATTT 58.873 37.500 0.00 0.00 42.67 1.82
208 209 5.591067 TCTTGGTGACACGTAGGAAAATTTT 59.409 36.000 2.28 2.28 42.67 1.82
209 210 5.176407 TGGTGACACGTAGGAAAATTTTG 57.824 39.130 8.47 0.00 33.40 2.44
210 211 4.882427 TGGTGACACGTAGGAAAATTTTGA 59.118 37.500 8.47 0.00 33.40 2.69
211 212 5.357314 TGGTGACACGTAGGAAAATTTTGAA 59.643 36.000 8.47 0.00 33.40 2.69
212 213 6.039941 TGGTGACACGTAGGAAAATTTTGAAT 59.960 34.615 8.47 0.00 33.40 2.57
213 214 6.921307 GGTGACACGTAGGAAAATTTTGAATT 59.079 34.615 8.47 0.00 0.00 2.17
214 215 8.077386 GGTGACACGTAGGAAAATTTTGAATTA 58.923 33.333 8.47 0.00 0.00 1.40
215 216 9.620660 GTGACACGTAGGAAAATTTTGAATTAT 57.379 29.630 8.47 0.00 0.00 1.28
373 401 2.057137 TATGCAGGACTTCATTGCCC 57.943 50.000 0.00 0.00 37.03 5.36
397 426 5.566623 GGAGCTATACTAAAAACGGTTTGC 58.433 41.667 6.92 3.72 0.00 3.68
446 479 6.256053 AGGAGTGGAATAAACAACATGGAAT 58.744 36.000 0.00 0.00 0.00 3.01
462 508 4.649267 TGGAATGAAACTGGGATACACA 57.351 40.909 0.00 0.00 39.74 3.72
463 509 4.991776 TGGAATGAAACTGGGATACACAA 58.008 39.130 0.00 0.00 39.74 3.33
464 510 5.389520 TGGAATGAAACTGGGATACACAAA 58.610 37.500 0.00 0.00 39.74 2.83
465 511 6.015918 TGGAATGAAACTGGGATACACAAAT 58.984 36.000 0.00 0.00 39.74 2.32
466 512 6.071447 TGGAATGAAACTGGGATACACAAATG 60.071 38.462 0.00 0.00 39.74 2.32
510 556 6.323739 TCAATCCTATTTGGGGTAAGATTTGC 59.676 38.462 0.00 0.00 36.20 3.68
524 570 7.315890 GGTAAGATTTGCAAATTAGCTTGTCT 58.684 34.615 24.81 13.15 34.99 3.41
595 641 2.104111 TCTCGTATTACCCTGGCCAATG 59.896 50.000 7.01 2.72 0.00 2.82
661 707 2.569059 CAGAGGATACCAAGCATGTGG 58.431 52.381 0.85 0.85 44.92 4.17
691 737 4.229876 GTGTCAGAAGGCAAAATAAGTGC 58.770 43.478 0.00 0.00 41.45 4.40
748 794 3.501828 AGCTTGTGTTATTGATCGTGCAA 59.498 39.130 0.00 0.00 0.00 4.08
757 803 1.377202 GATCGTGCAAGGGAGGCAA 60.377 57.895 0.00 0.00 43.91 4.52
793 839 3.181440 ACTCCTCATGCCAGAACAAGAAA 60.181 43.478 0.00 0.00 0.00 2.52
819 865 1.517276 GTATCGGATTCACAGAACGCG 59.483 52.381 3.53 3.53 0.00 6.01
895 941 4.821805 TGGTTCATGAGGAAAAGTCTCAAC 59.178 41.667 0.00 0.00 43.43 3.18
1061 1112 4.716784 TCATGATCTACTAAAGGGCACAGT 59.283 41.667 0.00 0.00 0.00 3.55
1063 1114 4.093743 TGATCTACTAAAGGGCACAGTGA 58.906 43.478 4.15 0.00 0.00 3.41
1090 1141 4.887748 TGTTCTCAGAGATGACAAAGGAC 58.112 43.478 0.00 0.00 0.00 3.85
1137 1188 3.940852 AGATTGATTGTTGCGCTGATGTA 59.059 39.130 9.73 0.00 0.00 2.29
1180 1231 4.873827 CACTTAGGTTTGGCTTATCGCTAA 59.126 41.667 0.00 0.00 37.32 3.09
1538 1594 1.470890 CAACTTCAACACACAACCCGT 59.529 47.619 0.00 0.00 0.00 5.28
1604 1661 3.581755 TGTTTTGGAGTAAGGTCGATCG 58.418 45.455 9.36 9.36 0.00 3.69
1635 1692 3.740044 ACAACTTTGAATATGACGCCG 57.260 42.857 0.00 0.00 0.00 6.46
1653 1731 2.047061 CCGAGGATGAGGGACCAAATA 58.953 52.381 0.00 0.00 0.00 1.40
1668 1746 3.267483 CCAAATAACTCGTGTACCCAGG 58.733 50.000 0.00 0.00 0.00 4.45
1697 1775 4.035017 CGTCATAAAACGATTCCCAATGC 58.965 43.478 0.00 0.00 45.37 3.56
1985 2088 7.317722 AGAAATAGTACAAAGTCCTTGACCT 57.682 36.000 0.00 0.00 38.50 3.85
2073 2177 5.426689 AAACATGAAGATCACTGGAGCTA 57.573 39.130 0.00 0.00 39.26 3.32
2129 2233 3.156293 TGCCACACAAGAATATGCAACT 58.844 40.909 0.00 0.00 0.00 3.16
2201 2316 2.126502 CGCTTCGCCGCCAAAAAT 60.127 55.556 0.00 0.00 0.00 1.82
2435 3805 1.692411 GCACAACTTTGAGGTTCCCT 58.308 50.000 0.00 0.00 36.03 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.032403 TCAACAGACGTACAACCCGG 59.968 55.000 0.00 0.00 0.00 5.73
1 2 1.415374 CTCAACAGACGTACAACCCG 58.585 55.000 0.00 0.00 0.00 5.28
2 3 1.145803 GCTCAACAGACGTACAACCC 58.854 55.000 0.00 0.00 0.00 4.11
3 4 0.782384 CGCTCAACAGACGTACAACC 59.218 55.000 0.00 0.00 0.00 3.77
4 5 0.161024 GCGCTCAACAGACGTACAAC 59.839 55.000 0.00 0.00 0.00 3.32
5 6 1.272784 CGCGCTCAACAGACGTACAA 61.273 55.000 5.56 0.00 0.00 2.41
6 7 1.728074 CGCGCTCAACAGACGTACA 60.728 57.895 5.56 0.00 0.00 2.90
7 8 2.434134 CCGCGCTCAACAGACGTAC 61.434 63.158 5.56 0.00 0.00 3.67
8 9 2.126618 CCGCGCTCAACAGACGTA 60.127 61.111 5.56 0.00 0.00 3.57
9 10 3.898627 CTCCGCGCTCAACAGACGT 62.899 63.158 5.56 0.00 0.00 4.34
10 11 3.175240 CTCCGCGCTCAACAGACG 61.175 66.667 5.56 0.00 0.00 4.18
11 12 2.811317 CCTCCGCGCTCAACAGAC 60.811 66.667 5.56 0.00 0.00 3.51
12 13 4.742201 GCCTCCGCGCTCAACAGA 62.742 66.667 5.56 0.00 0.00 3.41
34 35 4.077184 ATCCAAGCGCCGAACGGA 62.077 61.111 17.63 3.20 43.93 4.69
35 36 3.564027 GATCCAAGCGCCGAACGG 61.564 66.667 2.29 9.00 43.93 4.44
37 38 3.564027 CCGATCCAAGCGCCGAAC 61.564 66.667 2.29 0.00 0.00 3.95
38 39 2.971428 GATCCGATCCAAGCGCCGAA 62.971 60.000 2.29 0.00 0.00 4.30
39 40 3.499929 GATCCGATCCAAGCGCCGA 62.500 63.158 2.29 0.00 0.00 5.54
40 41 2.978452 AAGATCCGATCCAAGCGCCG 62.978 60.000 2.29 0.00 0.00 6.46
41 42 1.224722 GAAGATCCGATCCAAGCGCC 61.225 60.000 2.29 0.00 0.00 6.53
42 43 0.249657 AGAAGATCCGATCCAAGCGC 60.250 55.000 0.00 0.00 0.00 5.92
43 44 1.495878 CAGAAGATCCGATCCAAGCG 58.504 55.000 4.67 0.00 0.00 4.68
44 45 1.224965 GCAGAAGATCCGATCCAAGC 58.775 55.000 4.67 1.51 0.00 4.01
45 46 1.067669 TCGCAGAAGATCCGATCCAAG 59.932 52.381 4.67 0.00 0.00 3.61
46 47 1.111277 TCGCAGAAGATCCGATCCAA 58.889 50.000 4.67 0.00 0.00 3.53
47 48 1.332195 ATCGCAGAAGATCCGATCCA 58.668 50.000 4.67 0.00 43.58 3.41
48 49 2.447244 AATCGCAGAAGATCCGATCC 57.553 50.000 4.67 0.00 43.58 3.36
49 50 3.384668 TCAAATCGCAGAAGATCCGATC 58.615 45.455 0.00 0.00 43.58 3.69
50 51 3.459232 TCAAATCGCAGAAGATCCGAT 57.541 42.857 0.00 0.00 43.58 4.18
51 52 2.959507 TCAAATCGCAGAAGATCCGA 57.040 45.000 0.00 0.00 43.58 4.55
52 53 4.125912 GATTCAAATCGCAGAAGATCCG 57.874 45.455 0.00 0.00 43.58 4.18
64 65 1.071436 GTACTCGCGGCGATTCAAATC 60.071 52.381 26.60 8.52 34.61 2.17
65 66 0.928229 GTACTCGCGGCGATTCAAAT 59.072 50.000 26.60 9.68 34.61 2.32
66 67 1.407721 CGTACTCGCGGCGATTCAAA 61.408 55.000 26.60 2.28 34.61 2.69
67 68 1.870458 CGTACTCGCGGCGATTCAA 60.870 57.895 26.60 8.68 34.61 2.69
68 69 2.277692 CGTACTCGCGGCGATTCA 60.278 61.111 26.60 10.93 34.61 2.57
69 70 2.023741 TCGTACTCGCGGCGATTC 59.976 61.111 26.60 16.73 34.61 2.52
70 71 2.277756 GTCGTACTCGCGGCGATT 60.278 61.111 26.60 22.48 37.00 3.34
71 72 3.165670 GAGTCGTACTCGCGGCGAT 62.166 63.158 26.60 17.43 41.85 4.58
72 73 3.857854 GAGTCGTACTCGCGGCGA 61.858 66.667 24.84 24.84 41.85 5.54
73 74 4.883300 GGAGTCGTACTCGCGGCG 62.883 72.222 17.70 17.70 45.96 6.46
74 75 2.985486 GATGGAGTCGTACTCGCGGC 62.985 65.000 6.13 0.00 45.96 6.53
75 76 1.009900 GATGGAGTCGTACTCGCGG 60.010 63.158 6.13 0.00 45.96 6.46
76 77 0.098200 TTGATGGAGTCGTACTCGCG 59.902 55.000 0.00 0.00 45.96 5.87
77 78 1.546834 GTTGATGGAGTCGTACTCGC 58.453 55.000 8.33 3.96 45.96 5.03
78 79 1.531264 CGGTTGATGGAGTCGTACTCG 60.531 57.143 8.33 0.00 45.96 4.18
79 80 1.798079 GCGGTTGATGGAGTCGTACTC 60.798 57.143 6.50 6.50 44.32 2.59
80 81 0.172803 GCGGTTGATGGAGTCGTACT 59.827 55.000 0.00 0.00 0.00 2.73
81 82 1.138047 CGCGGTTGATGGAGTCGTAC 61.138 60.000 0.00 0.00 0.00 3.67
82 83 1.138036 CGCGGTTGATGGAGTCGTA 59.862 57.895 0.00 0.00 0.00 3.43
83 84 2.126071 CGCGGTTGATGGAGTCGT 60.126 61.111 0.00 0.00 0.00 4.34
84 85 1.683790 GAACGCGGTTGATGGAGTCG 61.684 60.000 12.47 0.00 0.00 4.18
85 86 0.389948 AGAACGCGGTTGATGGAGTC 60.390 55.000 12.47 0.00 0.00 3.36
86 87 0.034896 AAGAACGCGGTTGATGGAGT 59.965 50.000 12.47 0.00 0.00 3.85
87 88 0.443869 CAAGAACGCGGTTGATGGAG 59.556 55.000 12.47 0.00 0.00 3.86
88 89 0.250124 ACAAGAACGCGGTTGATGGA 60.250 50.000 20.59 0.00 0.00 3.41
89 90 1.434555 TACAAGAACGCGGTTGATGG 58.565 50.000 20.59 1.93 0.00 3.51
90 91 2.720590 CGTTACAAGAACGCGGTTGATG 60.721 50.000 20.59 12.77 36.82 3.07
91 92 1.458064 CGTTACAAGAACGCGGTTGAT 59.542 47.619 20.59 10.19 36.82 2.57
92 93 0.854062 CGTTACAAGAACGCGGTTGA 59.146 50.000 20.59 5.90 36.82 3.18
93 94 3.338603 CGTTACAAGAACGCGGTTG 57.661 52.632 12.47 13.64 36.82 3.77
99 100 3.921081 CGGAAGCGTTACAAGAACG 57.079 52.632 5.50 5.50 45.56 3.95
117 118 2.317530 ACCCTTGAAGATCGCTAAGC 57.682 50.000 0.00 0.00 0.00 3.09
118 119 7.434492 TCTTTATACCCTTGAAGATCGCTAAG 58.566 38.462 0.00 0.00 0.00 2.18
119 120 7.356089 TCTTTATACCCTTGAAGATCGCTAA 57.644 36.000 0.00 0.00 0.00 3.09
120 121 6.971726 TCTTTATACCCTTGAAGATCGCTA 57.028 37.500 0.00 0.00 0.00 4.26
121 122 5.871396 TCTTTATACCCTTGAAGATCGCT 57.129 39.130 0.00 0.00 0.00 4.93
122 123 5.106908 GCATCTTTATACCCTTGAAGATCGC 60.107 44.000 0.00 0.00 36.88 4.58
123 124 5.991606 TGCATCTTTATACCCTTGAAGATCG 59.008 40.000 0.00 0.00 36.88 3.69
124 125 6.995091 AGTGCATCTTTATACCCTTGAAGATC 59.005 38.462 0.00 0.00 36.88 2.75
125 126 6.904626 AGTGCATCTTTATACCCTTGAAGAT 58.095 36.000 0.00 0.00 38.90 2.40
126 127 6.313519 AGTGCATCTTTATACCCTTGAAGA 57.686 37.500 0.00 0.00 33.17 2.87
127 128 5.529060 GGAGTGCATCTTTATACCCTTGAAG 59.471 44.000 0.00 0.00 0.00 3.02
128 129 5.437060 GGAGTGCATCTTTATACCCTTGAA 58.563 41.667 0.00 0.00 0.00 2.69
129 130 4.141482 GGGAGTGCATCTTTATACCCTTGA 60.141 45.833 0.00 0.00 33.99 3.02
130 131 4.137543 GGGAGTGCATCTTTATACCCTTG 58.862 47.826 0.00 0.00 33.99 3.61
131 132 4.047883 AGGGAGTGCATCTTTATACCCTT 58.952 43.478 0.00 0.00 43.06 3.95
132 133 3.669949 AGGGAGTGCATCTTTATACCCT 58.330 45.455 0.00 0.00 41.17 4.34
133 134 3.648545 AGAGGGAGTGCATCTTTATACCC 59.351 47.826 0.00 0.00 36.67 3.69
134 135 4.591072 AGAGAGGGAGTGCATCTTTATACC 59.409 45.833 0.00 0.00 0.00 2.73
135 136 5.538433 AGAGAGAGGGAGTGCATCTTTATAC 59.462 44.000 0.00 0.00 0.00 1.47
136 137 5.710646 AGAGAGAGGGAGTGCATCTTTATA 58.289 41.667 0.00 0.00 0.00 0.98
137 138 4.555689 AGAGAGAGGGAGTGCATCTTTAT 58.444 43.478 0.00 0.00 0.00 1.40
138 139 3.957497 GAGAGAGAGGGAGTGCATCTTTA 59.043 47.826 0.00 0.00 0.00 1.85
139 140 2.765699 GAGAGAGAGGGAGTGCATCTTT 59.234 50.000 0.00 0.00 0.00 2.52
140 141 2.387757 GAGAGAGAGGGAGTGCATCTT 58.612 52.381 0.00 0.00 0.00 2.40
141 142 1.750332 CGAGAGAGAGGGAGTGCATCT 60.750 57.143 0.00 0.00 0.00 2.90
142 143 0.667993 CGAGAGAGAGGGAGTGCATC 59.332 60.000 0.00 0.00 0.00 3.91
143 144 0.033601 ACGAGAGAGAGGGAGTGCAT 60.034 55.000 0.00 0.00 0.00 3.96
144 145 0.251386 AACGAGAGAGAGGGAGTGCA 60.251 55.000 0.00 0.00 0.00 4.57
145 146 0.172352 CAACGAGAGAGAGGGAGTGC 59.828 60.000 0.00 0.00 0.00 4.40
146 147 0.172352 GCAACGAGAGAGAGGGAGTG 59.828 60.000 0.00 0.00 0.00 3.51
147 148 0.039035 AGCAACGAGAGAGAGGGAGT 59.961 55.000 0.00 0.00 0.00 3.85
148 149 1.946768 CTAGCAACGAGAGAGAGGGAG 59.053 57.143 0.00 0.00 0.00 4.30
149 150 1.282447 ACTAGCAACGAGAGAGAGGGA 59.718 52.381 0.00 0.00 0.00 4.20
150 151 1.757682 ACTAGCAACGAGAGAGAGGG 58.242 55.000 0.00 0.00 0.00 4.30
151 152 4.385825 AGATACTAGCAACGAGAGAGAGG 58.614 47.826 0.00 0.00 0.00 3.69
152 153 4.451096 GGAGATACTAGCAACGAGAGAGAG 59.549 50.000 0.00 0.00 0.00 3.20
153 154 4.101898 AGGAGATACTAGCAACGAGAGAGA 59.898 45.833 0.00 0.00 0.00 3.10
154 155 4.385825 AGGAGATACTAGCAACGAGAGAG 58.614 47.826 0.00 0.00 0.00 3.20
155 156 4.425180 AGGAGATACTAGCAACGAGAGA 57.575 45.455 0.00 0.00 0.00 3.10
156 157 5.543714 TCTAGGAGATACTAGCAACGAGAG 58.456 45.833 0.00 0.00 40.18 3.20
157 158 5.548181 TCTAGGAGATACTAGCAACGAGA 57.452 43.478 0.00 0.00 40.18 4.04
158 159 6.428465 TCAATCTAGGAGATACTAGCAACGAG 59.572 42.308 0.00 0.00 40.18 4.18
159 160 6.296803 TCAATCTAGGAGATACTAGCAACGA 58.703 40.000 0.00 0.00 40.18 3.85
160 161 6.561737 TCAATCTAGGAGATACTAGCAACG 57.438 41.667 0.00 0.00 40.18 4.10
161 162 8.348285 AGATCAATCTAGGAGATACTAGCAAC 57.652 38.462 0.00 0.00 40.18 4.17
162 163 8.801299 CAAGATCAATCTAGGAGATACTAGCAA 58.199 37.037 0.00 0.00 40.18 3.91
163 164 7.395772 CCAAGATCAATCTAGGAGATACTAGCA 59.604 40.741 0.00 0.00 40.18 3.49
164 165 7.396055 ACCAAGATCAATCTAGGAGATACTAGC 59.604 40.741 0.00 0.00 40.18 3.42
165 166 8.739039 CACCAAGATCAATCTAGGAGATACTAG 58.261 40.741 0.00 0.00 41.41 2.57
166 167 8.448816 TCACCAAGATCAATCTAGGAGATACTA 58.551 37.037 0.00 0.00 32.89 1.82
167 168 7.232534 GTCACCAAGATCAATCTAGGAGATACT 59.767 40.741 0.00 0.00 32.89 2.12
168 169 7.014711 TGTCACCAAGATCAATCTAGGAGATAC 59.985 40.741 0.00 0.00 32.89 2.24
169 170 7.014711 GTGTCACCAAGATCAATCTAGGAGATA 59.985 40.741 0.00 0.00 32.89 1.98
170 171 5.901853 TGTCACCAAGATCAATCTAGGAGAT 59.098 40.000 0.00 0.00 36.28 2.75
171 172 5.127845 GTGTCACCAAGATCAATCTAGGAGA 59.872 44.000 0.00 0.00 35.76 3.71
172 173 5.355596 GTGTCACCAAGATCAATCTAGGAG 58.644 45.833 0.00 0.00 35.76 3.69
173 174 4.142160 CGTGTCACCAAGATCAATCTAGGA 60.142 45.833 0.00 0.00 35.76 2.94
174 175 4.115516 CGTGTCACCAAGATCAATCTAGG 58.884 47.826 0.00 0.00 35.76 3.02
175 176 4.748892 ACGTGTCACCAAGATCAATCTAG 58.251 43.478 0.00 0.00 35.76 2.43
176 177 4.801330 ACGTGTCACCAAGATCAATCTA 57.199 40.909 0.00 0.00 35.76 1.98
177 178 3.685139 ACGTGTCACCAAGATCAATCT 57.315 42.857 0.00 0.00 39.22 2.40
178 179 3.865745 CCTACGTGTCACCAAGATCAATC 59.134 47.826 0.00 0.00 0.00 2.67
179 180 3.513912 TCCTACGTGTCACCAAGATCAAT 59.486 43.478 0.00 0.00 0.00 2.57
180 181 2.894765 TCCTACGTGTCACCAAGATCAA 59.105 45.455 0.00 0.00 0.00 2.57
181 182 2.521126 TCCTACGTGTCACCAAGATCA 58.479 47.619 0.00 0.00 0.00 2.92
182 183 3.587797 TTCCTACGTGTCACCAAGATC 57.412 47.619 0.00 0.00 0.00 2.75
183 184 4.345859 TTTTCCTACGTGTCACCAAGAT 57.654 40.909 0.00 0.00 0.00 2.40
184 185 3.823281 TTTTCCTACGTGTCACCAAGA 57.177 42.857 0.00 0.00 0.00 3.02
185 186 5.432885 AAATTTTCCTACGTGTCACCAAG 57.567 39.130 0.00 0.00 0.00 3.61
186 187 5.357314 TCAAAATTTTCCTACGTGTCACCAA 59.643 36.000 0.00 0.00 0.00 3.67
187 188 4.882427 TCAAAATTTTCCTACGTGTCACCA 59.118 37.500 0.00 0.00 0.00 4.17
188 189 5.427036 TCAAAATTTTCCTACGTGTCACC 57.573 39.130 0.00 0.00 0.00 4.02
189 190 7.924103 AATTCAAAATTTTCCTACGTGTCAC 57.076 32.000 0.00 0.00 0.00 3.67
206 207 9.535170 TGTTGGGGAACATAGTAATAATTCAAA 57.465 29.630 0.00 0.00 0.00 2.69
207 208 9.707957 ATGTTGGGGAACATAGTAATAATTCAA 57.292 29.630 0.00 0.00 41.25 2.69
208 209 9.707957 AATGTTGGGGAACATAGTAATAATTCA 57.292 29.630 0.00 0.00 42.13 2.57
215 216 9.841295 GAGTAATAATGTTGGGGAACATAGTAA 57.159 33.333 0.00 0.00 42.13 2.24
216 217 8.434392 GGAGTAATAATGTTGGGGAACATAGTA 58.566 37.037 0.00 0.00 42.13 1.82
217 218 7.287810 GGAGTAATAATGTTGGGGAACATAGT 58.712 38.462 0.00 0.00 42.13 2.12
218 219 6.426937 CGGAGTAATAATGTTGGGGAACATAG 59.573 42.308 0.00 0.00 42.13 2.23
219 220 6.099990 TCGGAGTAATAATGTTGGGGAACATA 59.900 38.462 0.00 0.00 42.13 2.29
220 221 5.104277 TCGGAGTAATAATGTTGGGGAACAT 60.104 40.000 0.00 0.00 44.63 2.71
221 222 4.225492 TCGGAGTAATAATGTTGGGGAACA 59.775 41.667 0.00 0.00 37.05 3.18
222 223 4.773013 TCGGAGTAATAATGTTGGGGAAC 58.227 43.478 0.00 0.00 0.00 3.62
223 224 4.717778 TCTCGGAGTAATAATGTTGGGGAA 59.282 41.667 4.69 0.00 0.00 3.97
224 225 4.100498 GTCTCGGAGTAATAATGTTGGGGA 59.900 45.833 4.69 0.00 0.00 4.81
225 226 4.377897 GTCTCGGAGTAATAATGTTGGGG 58.622 47.826 4.69 0.00 0.00 4.96
226 227 4.049186 CGTCTCGGAGTAATAATGTTGGG 58.951 47.826 4.69 0.00 0.00 4.12
227 228 4.928601 TCGTCTCGGAGTAATAATGTTGG 58.071 43.478 4.69 0.00 0.00 3.77
228 229 4.976731 CCTCGTCTCGGAGTAATAATGTTG 59.023 45.833 4.69 0.00 31.98 3.33
231 232 3.819337 TCCCTCGTCTCGGAGTAATAATG 59.181 47.826 4.69 0.00 31.98 1.90
373 401 5.725864 GCAAACCGTTTTTAGTATAGCTCCG 60.726 44.000 0.00 0.00 0.00 4.63
397 426 5.233050 CCAAATAAGCAGATCGTACAGTGAG 59.767 44.000 0.00 0.00 0.00 3.51
446 479 4.735369 ACCATTTGTGTATCCCAGTTTCA 58.265 39.130 0.00 0.00 0.00 2.69
454 500 6.182507 TCTACCCATACCATTTGTGTATCC 57.817 41.667 0.00 0.00 0.00 2.59
455 501 7.280356 ACTTCTACCCATACCATTTGTGTATC 58.720 38.462 0.00 0.00 0.00 2.24
456 502 7.208064 ACTTCTACCCATACCATTTGTGTAT 57.792 36.000 0.00 0.00 0.00 2.29
457 503 6.630203 ACTTCTACCCATACCATTTGTGTA 57.370 37.500 0.00 0.00 0.00 2.90
458 504 5.514500 ACTTCTACCCATACCATTTGTGT 57.486 39.130 0.00 0.00 0.00 3.72
459 505 6.055588 CCTACTTCTACCCATACCATTTGTG 58.944 44.000 0.00 0.00 0.00 3.33
460 506 5.132144 CCCTACTTCTACCCATACCATTTGT 59.868 44.000 0.00 0.00 0.00 2.83
461 507 5.132144 ACCCTACTTCTACCCATACCATTTG 59.868 44.000 0.00 0.00 0.00 2.32
462 508 5.294473 ACCCTACTTCTACCCATACCATTT 58.706 41.667 0.00 0.00 0.00 2.32
463 509 4.904373 ACCCTACTTCTACCCATACCATT 58.096 43.478 0.00 0.00 0.00 3.16
464 510 4.078219 TGACCCTACTTCTACCCATACCAT 60.078 45.833 0.00 0.00 0.00 3.55
465 511 3.272818 TGACCCTACTTCTACCCATACCA 59.727 47.826 0.00 0.00 0.00 3.25
466 512 3.919834 TGACCCTACTTCTACCCATACC 58.080 50.000 0.00 0.00 0.00 2.73
510 556 3.426695 CCTTCGCCAGACAAGCTAATTTG 60.427 47.826 0.00 0.00 0.00 2.32
575 621 2.494059 CATTGGCCAGGGTAATACGAG 58.506 52.381 5.11 0.00 0.00 4.18
595 641 7.572910 GCAATTGGGTGAAATTTTTATGTGTCC 60.573 37.037 7.72 0.00 0.00 4.02
685 731 1.611519 CCCAACTTTTCCCGCACTTA 58.388 50.000 0.00 0.00 0.00 2.24
691 737 2.500392 TACATCCCCAACTTTTCCCG 57.500 50.000 0.00 0.00 0.00 5.14
757 803 5.568423 GCATGAGGAGTAATGATTCGAGGAT 60.568 44.000 0.00 0.00 0.00 3.24
819 865 2.092323 GTTACAGCAATCAACTCCCCC 58.908 52.381 0.00 0.00 0.00 5.40
895 941 3.198068 CCATCGAGGTTTGACATACCTG 58.802 50.000 20.76 13.17 45.88 4.00
1061 1112 1.829849 CATCTCTGAGAACAGCCCTCA 59.170 52.381 12.00 0.00 43.17 3.86
1063 1114 1.830477 GTCATCTCTGAGAACAGCCCT 59.170 52.381 12.00 0.00 43.17 5.19
1090 1141 7.395190 TCCAATTTCCATCTACAATGAAGTG 57.605 36.000 0.00 0.00 0.00 3.16
1137 1188 2.009042 GCTAATGCTTCCGCTGTCAGT 61.009 52.381 0.93 0.00 36.97 3.41
1180 1231 0.107410 TTGCAACCCGTCTTCTGTGT 60.107 50.000 0.00 0.00 0.00 3.72
1341 1395 0.108138 CTACCTTGTTCGCCTCCCTG 60.108 60.000 0.00 0.00 0.00 4.45
1538 1594 5.253330 GGATTTTCATATAATCCAGCCCGA 58.747 41.667 9.87 0.00 46.72 5.14
1635 1692 4.709250 GAGTTATTTGGTCCCTCATCCTC 58.291 47.826 0.00 0.00 0.00 3.71
1653 1731 1.839747 TGGCCTGGGTACACGAGTT 60.840 57.895 3.32 0.00 0.00 3.01
1697 1775 7.556275 TGAATTAGTTGTATAGGCTTGAAAGGG 59.444 37.037 0.00 0.00 0.00 3.95
1775 1871 2.643304 AGGTCCCCTTTGAACCTCTTAC 59.357 50.000 0.00 0.00 39.17 2.34
1810 1906 5.070823 ACATCATCCTGGAAATAATGCCT 57.929 39.130 0.00 0.00 0.00 4.75
1824 1920 4.789012 ACCACACAATGAAACATCATCC 57.211 40.909 0.00 0.00 0.00 3.51
1961 2064 7.162082 CAGGTCAAGGACTTTGTACTATTTCT 58.838 38.462 0.00 0.00 38.01 2.52
1985 2088 2.170817 TGTGTTAGGGTGTGCTTGTACA 59.829 45.455 0.00 0.00 0.00 2.90
2064 2168 3.070734 GGATGATGACACATAGCTCCAGT 59.929 47.826 0.00 0.00 0.00 4.00
2073 2177 2.848694 AGGTTCAGGGATGATGACACAT 59.151 45.455 0.00 0.00 0.00 3.21
2129 2233 5.163109 TGCCATGGTTGAATATGATGACCTA 60.163 40.000 14.67 0.00 0.00 3.08
2188 2303 0.523966 CCTTGTATTTTTGGCGGCGA 59.476 50.000 12.98 0.00 0.00 5.54
2435 3805 3.443925 CCGGCAGCGAGAGAGTGA 61.444 66.667 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.