Multiple sequence alignment - TraesCS5D01G486800

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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 TraesCS5D01G486800 chr5D 100.000 3362 0 0 1 3362 521864752 521868113 0.000000e+00 6209.0
1 TraesCS5D01G486800 chr5D 83.229 1920 264 34 639 2532 521843730 521845617 0.000000e+00 1709.0
2 TraesCS5D01G486800 chr5D 82.817 1711 241 30 993 2669 522156210 522154519 0.000000e+00 1482.0
3 TraesCS5D01G486800 chr5D 83.738 1482 215 11 985 2452 521836824 521838293 0.000000e+00 1378.0
4 TraesCS5D01G486800 chr5D 87.170 265 29 4 745 1008 522164802 522165062 2.540000e-76 296.0
5 TraesCS5D01G486800 chr5D 79.063 363 39 21 276 632 521828214 521828545 7.310000e-52 215.0
6 TraesCS5D01G486800 chr5D 94.595 37 2 0 12 48 443258163 443258199 1.300000e-04 58.4
7 TraesCS5D01G486800 chr5B 94.208 3073 129 13 204 3233 658171316 658174382 0.000000e+00 4643.0
8 TraesCS5D01G486800 chr5B 85.868 2045 231 26 736 2749 658368481 658370498 0.000000e+00 2122.0
9 TraesCS5D01G486800 chr5B 83.560 1837 259 27 639 2452 658152354 658154170 0.000000e+00 1679.0
10 TraesCS5D01G486800 chr5B 82.350 1711 252 33 993 2669 658460346 658458652 0.000000e+00 1441.0
11 TraesCS5D01G486800 chr5B 82.588 1654 179 66 178 1790 658371557 658373142 0.000000e+00 1358.0
12 TraesCS5D01G486800 chr5B 94.545 220 6 1 1 214 658163197 658163416 5.370000e-88 335.0
13 TraesCS5D01G486800 chr5B 78.133 375 36 23 276 632 658151818 658152164 2.650000e-46 196.0
14 TraesCS5D01G486800 chr5B 100.000 29 0 0 20 48 531149633 531149661 2.000000e-03 54.7
15 TraesCS5D01G486800 chr5A 86.832 2096 217 27 400 2476 650159281 650161336 0.000000e+00 2287.0
16 TraesCS5D01G486800 chr5A 82.050 2078 291 46 639 2669 650141536 650143578 0.000000e+00 1696.0
17 TraesCS5D01G486800 chr5A 90.879 614 29 10 2459 3047 650161576 650162187 0.000000e+00 798.0
18 TraesCS5D01G486800 chr5A 84.615 819 101 18 790 1595 650147079 650147885 0.000000e+00 791.0
19 TraesCS5D01G486800 chr5A 85.691 622 59 14 2211 2818 650245042 650245647 2.200000e-176 628.0
20 TraesCS5D01G486800 chr5A 82.759 696 71 22 2290 2951 650245766 650246446 2.910000e-160 575.0
21 TraesCS5D01G486800 chr5A 89.950 199 14 6 3040 3233 650171854 650172051 5.570000e-63 252.0
22 TraesCS5D01G486800 chr5A 89.950 199 14 6 3040 3233 650176957 650177154 5.570000e-63 252.0
23 TraesCS5D01G486800 chr5A 89.950 199 14 6 3040 3233 650178888 650179085 5.570000e-63 252.0
24 TraesCS5D01G486800 chr5A 78.392 199 29 10 418 614 650146594 650146780 2.120000e-22 117.0
25 TraesCS5D01G486800 chr5A 79.592 196 12 15 178 348 650159082 650159274 7.620000e-22 115.0
26 TraesCS5D01G486800 chr2D 95.420 131 4 1 3232 3360 476697540 476697670 1.220000e-49 207.0
27 TraesCS5D01G486800 chr2D 90.604 149 9 4 3214 3360 534482787 534482932 3.420000e-45 193.0
28 TraesCS5D01G486800 chr1D 95.385 130 6 0 3233 3362 238791288 238791159 1.220000e-49 207.0
29 TraesCS5D01G486800 chr1D 95.276 127 6 0 3236 3362 453019301 453019175 5.690000e-48 202.0
30 TraesCS5D01G486800 chr3D 94.615 130 7 0 3233 3362 576645427 576645298 5.690000e-48 202.0
31 TraesCS5D01G486800 chr3D 92.029 138 11 0 3223 3360 466682169 466682306 9.520000e-46 195.0
32 TraesCS5D01G486800 chr6D 93.382 136 6 2 3227 3360 68365833 68365967 7.360000e-47 198.0
33 TraesCS5D01G486800 chr2A 93.846 130 8 0 3233 3362 687562670 687562541 2.650000e-46 196.0
34 TraesCS5D01G486800 chr7A 92.086 139 10 1 3224 3362 678767752 678767889 9.520000e-46 195.0
35 TraesCS5D01G486800 chr7A 100.000 28 0 0 18 45 636710836 636710863 6.000000e-03 52.8
36 TraesCS5D01G486800 chr1B 97.143 35 1 0 13 47 168331268 168331234 3.620000e-05 60.2


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 TraesCS5D01G486800 chr5D 521864752 521868113 3361 False 6209.000000 6209 100.000000 1 3362 1 chr5D.!!$F5 3361
1 TraesCS5D01G486800 chr5D 521843730 521845617 1887 False 1709.000000 1709 83.229000 639 2532 1 chr5D.!!$F4 1893
2 TraesCS5D01G486800 chr5D 522154519 522156210 1691 True 1482.000000 1482 82.817000 993 2669 1 chr5D.!!$R1 1676
3 TraesCS5D01G486800 chr5D 521836824 521838293 1469 False 1378.000000 1378 83.738000 985 2452 1 chr5D.!!$F3 1467
4 TraesCS5D01G486800 chr5B 658171316 658174382 3066 False 4643.000000 4643 94.208000 204 3233 1 chr5B.!!$F3 3029
5 TraesCS5D01G486800 chr5B 658368481 658373142 4661 False 1740.000000 2122 84.228000 178 2749 2 chr5B.!!$F5 2571
6 TraesCS5D01G486800 chr5B 658458652 658460346 1694 True 1441.000000 1441 82.350000 993 2669 1 chr5B.!!$R1 1676
7 TraesCS5D01G486800 chr5B 658151818 658154170 2352 False 937.500000 1679 80.846500 276 2452 2 chr5B.!!$F4 2176
8 TraesCS5D01G486800 chr5A 650159082 650162187 3105 False 1066.666667 2287 85.767667 178 3047 3 chr5A.!!$F3 2869
9 TraesCS5D01G486800 chr5A 650141536 650147885 6349 False 868.000000 1696 81.685667 418 2669 3 chr5A.!!$F2 2251
10 TraesCS5D01G486800 chr5A 650245042 650246446 1404 False 601.500000 628 84.225000 2211 2951 2 chr5A.!!$F5 740
11 TraesCS5D01G486800 chr5A 650176957 650179085 2128 False 252.000000 252 89.950000 3040 3233 2 chr5A.!!$F4 193

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
158 159 0.250684 TGGCCTGTTGATTTCGCTCA 60.251 50.0 3.32 0.0 0.0 4.26 F
1618 1882 0.246635 ACGAATGTCCCAGTCCTTCG 59.753 55.0 0.00 0.0 43.1 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1763 2030 0.605319 GAGCCAACGGATGACACCAA 60.605 55.0 0.0 0.0 0.0 3.67 R
2663 3921 0.330604 AGACAGCCATTGAGCCATGT 59.669 50.0 0.0 0.0 0.0 3.21 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
26 27 9.522804 TTAATTTAAAGCAAAATCACGACACTT 57.477 25.926 0.00 0.00 0.00 3.16
29 30 9.691362 ATTTAAAGCAAAATCACGACACTTATT 57.309 25.926 0.00 0.00 0.00 1.40
30 31 9.522804 TTTAAAGCAAAATCACGACACTTATTT 57.477 25.926 0.00 0.00 0.00 1.40
32 33 6.991485 AGCAAAATCACGACACTTATTTTG 57.009 33.333 12.65 12.65 45.51 2.44
33 34 6.734137 AGCAAAATCACGACACTTATTTTGA 58.266 32.000 18.51 0.00 45.56 2.69
35 36 7.867403 AGCAAAATCACGACACTTATTTTGAAT 59.133 29.630 18.51 7.32 45.56 2.57
36 37 8.487176 GCAAAATCACGACACTTATTTTGAATT 58.513 29.630 18.51 0.00 45.56 2.17
37 38 9.782028 CAAAATCACGACACTTATTTTGAATTG 57.218 29.630 11.91 0.00 45.56 2.32
38 39 8.519492 AAATCACGACACTTATTTTGAATTGG 57.481 30.769 0.00 0.00 0.00 3.16
39 40 6.869315 TCACGACACTTATTTTGAATTGGA 57.131 33.333 0.00 0.00 0.00 3.53
40 41 6.898041 TCACGACACTTATTTTGAATTGGAG 58.102 36.000 0.00 0.00 0.00 3.86
41 42 6.072728 TCACGACACTTATTTTGAATTGGAGG 60.073 38.462 0.00 0.00 0.00 4.30
42 43 5.183140 ACGACACTTATTTTGAATTGGAGGG 59.817 40.000 0.00 0.00 0.00 4.30
43 44 5.414454 CGACACTTATTTTGAATTGGAGGGA 59.586 40.000 0.00 0.00 0.00 4.20
45 46 6.314917 ACACTTATTTTGAATTGGAGGGAGT 58.685 36.000 0.00 0.00 0.00 3.85
47 48 7.611855 ACACTTATTTTGAATTGGAGGGAGTAG 59.388 37.037 0.00 0.00 0.00 2.57
48 49 7.829211 CACTTATTTTGAATTGGAGGGAGTAGA 59.171 37.037 0.00 0.00 0.00 2.59
49 50 8.390921 ACTTATTTTGAATTGGAGGGAGTAGAA 58.609 33.333 0.00 0.00 0.00 2.10
50 51 8.575649 TTATTTTGAATTGGAGGGAGTAGAAC 57.424 34.615 0.00 0.00 0.00 3.01
51 52 5.576563 TTTGAATTGGAGGGAGTAGAACA 57.423 39.130 0.00 0.00 0.00 3.18
52 53 4.553330 TGAATTGGAGGGAGTAGAACAC 57.447 45.455 0.00 0.00 0.00 3.32
53 54 3.907474 TGAATTGGAGGGAGTAGAACACA 59.093 43.478 0.00 0.00 0.00 3.72
55 56 2.696526 TGGAGGGAGTAGAACACAGT 57.303 50.000 0.00 0.00 0.00 3.55
56 57 2.972348 TGGAGGGAGTAGAACACAGTT 58.028 47.619 0.00 0.00 0.00 3.16
57 58 3.314693 TGGAGGGAGTAGAACACAGTTT 58.685 45.455 0.00 0.00 0.00 2.66
58 59 3.323979 TGGAGGGAGTAGAACACAGTTTC 59.676 47.826 0.00 0.00 0.00 2.78
59 60 3.579151 GGAGGGAGTAGAACACAGTTTCT 59.421 47.826 4.19 4.19 39.28 2.52
60 61 4.771054 GGAGGGAGTAGAACACAGTTTCTA 59.229 45.833 0.00 0.00 37.09 2.10
61 62 5.245526 GGAGGGAGTAGAACACAGTTTCTAA 59.754 44.000 6.72 0.00 39.31 2.10
63 64 5.011840 AGGGAGTAGAACACAGTTTCTAACC 59.988 44.000 6.72 10.88 39.31 2.85
64 65 5.011840 GGGAGTAGAACACAGTTTCTAACCT 59.988 44.000 17.25 9.76 39.31 3.50
65 66 5.927115 GGAGTAGAACACAGTTTCTAACCTG 59.073 44.000 6.72 0.00 39.31 4.00
66 67 5.298347 AGTAGAACACAGTTTCTAACCTGC 58.702 41.667 6.72 0.00 39.31 4.85
67 68 4.423625 AGAACACAGTTTCTAACCTGCT 57.576 40.909 0.00 0.00 33.89 4.24
68 69 5.546621 AGAACACAGTTTCTAACCTGCTA 57.453 39.130 0.00 0.00 33.89 3.49
69 70 5.925509 AGAACACAGTTTCTAACCTGCTAA 58.074 37.500 0.00 0.00 33.89 3.09
72 73 5.865085 ACACAGTTTCTAACCTGCTAATCA 58.135 37.500 0.00 0.00 0.00 2.57
73 74 6.296026 ACACAGTTTCTAACCTGCTAATCAA 58.704 36.000 0.00 0.00 0.00 2.57
74 75 6.770785 ACACAGTTTCTAACCTGCTAATCAAA 59.229 34.615 0.00 0.00 0.00 2.69
75 76 7.284489 ACACAGTTTCTAACCTGCTAATCAAAA 59.716 33.333 0.00 0.00 0.00 2.44
76 77 8.134895 CACAGTTTCTAACCTGCTAATCAAAAA 58.865 33.333 0.00 0.00 0.00 1.94
77 78 8.860088 ACAGTTTCTAACCTGCTAATCAAAAAT 58.140 29.630 0.00 0.00 0.00 1.82
80 81 9.569167 GTTTCTAACCTGCTAATCAAAAATACC 57.431 33.333 0.00 0.00 0.00 2.73
81 82 7.875327 TCTAACCTGCTAATCAAAAATACCC 57.125 36.000 0.00 0.00 0.00 3.69
82 83 7.639378 TCTAACCTGCTAATCAAAAATACCCT 58.361 34.615 0.00 0.00 0.00 4.34
84 85 7.553504 AACCTGCTAATCAAAAATACCCTTT 57.446 32.000 0.00 0.00 0.00 3.11
86 87 7.611770 ACCTGCTAATCAAAAATACCCTTTTC 58.388 34.615 0.00 0.00 0.00 2.29
87 88 7.041721 CCTGCTAATCAAAAATACCCTTTTCC 58.958 38.462 0.00 0.00 0.00 3.13
88 89 7.310361 CCTGCTAATCAAAAATACCCTTTTCCA 60.310 37.037 0.00 0.00 0.00 3.53
89 90 7.610865 TGCTAATCAAAAATACCCTTTTCCAG 58.389 34.615 0.00 0.00 0.00 3.86
90 91 7.453126 TGCTAATCAAAAATACCCTTTTCCAGA 59.547 33.333 0.00 0.00 0.00 3.86
91 92 8.311109 GCTAATCAAAAATACCCTTTTCCAGAA 58.689 33.333 0.00 0.00 0.00 3.02
94 95 5.828859 TCAAAAATACCCTTTTCCAGAACGA 59.171 36.000 0.00 0.00 0.00 3.85
95 96 5.959618 AAAATACCCTTTTCCAGAACGAG 57.040 39.130 0.00 0.00 0.00 4.18
96 97 3.629142 ATACCCTTTTCCAGAACGAGG 57.371 47.619 0.00 3.16 0.00 4.63
97 98 1.430992 ACCCTTTTCCAGAACGAGGA 58.569 50.000 9.51 0.00 0.00 3.71
98 99 1.071857 ACCCTTTTCCAGAACGAGGAC 59.928 52.381 9.51 0.00 34.19 3.85
99 100 1.071699 CCCTTTTCCAGAACGAGGACA 59.928 52.381 9.51 0.00 34.19 4.02
102 103 4.564821 CCCTTTTCCAGAACGAGGACATAA 60.565 45.833 9.51 0.00 34.19 1.90
103 104 5.001232 CCTTTTCCAGAACGAGGACATAAA 58.999 41.667 0.00 0.00 34.19 1.40
105 106 6.403636 CCTTTTCCAGAACGAGGACATAAATG 60.404 42.308 0.00 0.00 34.19 2.32
107 108 3.118408 TCCAGAACGAGGACATAAATGGG 60.118 47.826 0.00 0.00 0.00 4.00
108 109 2.614057 CAGAACGAGGACATAAATGGGC 59.386 50.000 0.00 0.00 0.00 5.36
109 110 1.947456 GAACGAGGACATAAATGGGCC 59.053 52.381 0.00 0.00 0.00 5.80
113 114 0.751643 AGGACATAAATGGGCCGTGC 60.752 55.000 0.00 0.00 33.37 5.34
115 116 0.381801 GACATAAATGGGCCGTGCTG 59.618 55.000 0.00 0.00 0.00 4.41
116 117 0.323360 ACATAAATGGGCCGTGCTGT 60.323 50.000 0.00 0.26 0.00 4.40
117 118 1.065053 ACATAAATGGGCCGTGCTGTA 60.065 47.619 0.00 0.00 0.00 2.74
119 120 0.746563 TAAATGGGCCGTGCTGTAGC 60.747 55.000 0.00 0.00 42.50 3.58
120 121 3.995506 AATGGGCCGTGCTGTAGCC 62.996 63.158 0.00 0.00 46.37 3.93
123 124 4.752879 GGCCGTGCTGTAGCCGAA 62.753 66.667 13.68 0.00 41.18 4.30
124 125 2.740826 GCCGTGCTGTAGCCGAAA 60.741 61.111 13.68 0.00 41.18 3.46
126 127 1.495951 CCGTGCTGTAGCCGAAAAC 59.504 57.895 13.68 0.13 41.18 2.43
127 128 1.129809 CGTGCTGTAGCCGAAAACG 59.870 57.895 0.80 0.59 41.18 3.60
130 131 1.375013 GCTGTAGCCGAAAACGGGA 60.375 57.895 10.55 0.00 34.31 5.14
132 133 1.076332 CTGTAGCCGAAAACGGGAAG 58.924 55.000 10.55 0.00 0.00 3.46
133 134 0.680618 TGTAGCCGAAAACGGGAAGA 59.319 50.000 10.55 0.00 0.00 2.87
134 135 1.276989 TGTAGCCGAAAACGGGAAGAT 59.723 47.619 10.55 0.00 0.00 2.40
135 136 1.664151 GTAGCCGAAAACGGGAAGATG 59.336 52.381 10.55 0.00 0.00 2.90
137 138 1.065418 AGCCGAAAACGGGAAGATGAT 60.065 47.619 10.55 0.00 0.00 2.45
138 139 2.169769 AGCCGAAAACGGGAAGATGATA 59.830 45.455 10.55 0.00 0.00 2.15
140 141 3.058914 GCCGAAAACGGGAAGATGATATG 60.059 47.826 10.55 0.00 0.00 1.78
141 142 3.498397 CCGAAAACGGGAAGATGATATGG 59.502 47.826 0.00 0.00 0.00 2.74
142 143 3.058914 CGAAAACGGGAAGATGATATGGC 60.059 47.826 0.00 0.00 0.00 4.40
143 144 2.568623 AACGGGAAGATGATATGGCC 57.431 50.000 0.00 0.00 0.00 5.36
144 145 1.734655 ACGGGAAGATGATATGGCCT 58.265 50.000 3.32 0.00 0.00 5.19
145 146 1.349026 ACGGGAAGATGATATGGCCTG 59.651 52.381 3.32 0.00 0.00 4.85
148 149 3.152341 GGGAAGATGATATGGCCTGTTG 58.848 50.000 3.32 0.00 0.00 3.33
149 150 3.181440 GGGAAGATGATATGGCCTGTTGA 60.181 47.826 3.32 0.00 0.00 3.18
153 154 6.294397 GGAAGATGATATGGCCTGTTGATTTC 60.294 42.308 3.32 0.00 0.00 2.17
156 157 2.418368 TATGGCCTGTTGATTTCGCT 57.582 45.000 3.32 0.00 0.00 4.93
157 158 1.098050 ATGGCCTGTTGATTTCGCTC 58.902 50.000 3.32 0.00 0.00 5.03
158 159 0.250684 TGGCCTGTTGATTTCGCTCA 60.251 50.000 3.32 0.00 0.00 4.26
159 160 0.881118 GGCCTGTTGATTTCGCTCAA 59.119 50.000 0.00 0.00 32.84 3.02
187 188 4.329545 TGGCCTGTTGACCGAGCC 62.330 66.667 3.32 0.00 44.13 4.70
198 199 4.789075 CCGAGCCGTACACGTGGG 62.789 72.222 21.57 12.73 37.74 4.61
219 220 2.006772 CCTCTTGTATTGACGGCGC 58.993 57.895 6.90 0.00 0.00 6.53
319 334 3.749064 GCGGCGAGGTGTCTCTCA 61.749 66.667 12.98 0.00 37.86 3.27
351 374 3.682696 TCCACTTCGAAGCTAGACTACA 58.317 45.455 24.86 0.00 0.00 2.74
396 424 2.592102 ATATGTCATGGTGGATGCCC 57.408 50.000 0.00 0.00 31.32 5.36
443 474 0.636647 TATCCTCTGTCTGCTCCCCA 59.363 55.000 0.00 0.00 0.00 4.96
509 540 4.401519 TCGATCGAATGGTAGTTTCTCCTT 59.598 41.667 16.99 0.00 0.00 3.36
537 577 1.303317 GTGATTGGGGGTTGTCGCT 60.303 57.895 0.00 0.00 0.00 4.93
731 968 0.742635 TTGCTTCATGTATCGCCGCA 60.743 50.000 0.00 0.00 0.00 5.69
782 1036 7.917505 CCAAAATAACCATAGCTCTGTTGAATC 59.082 37.037 0.00 0.00 0.00 2.52
983 1243 1.617850 CACATGGTGCCTTGCCTTTTA 59.382 47.619 0.00 0.00 0.00 1.52
1015 1279 1.679680 GACCAATGGAGGACGACGATA 59.320 52.381 6.16 0.00 0.00 2.92
1019 1283 2.054232 ATGGAGGACGACGATACTGT 57.946 50.000 0.00 0.00 0.00 3.55
1072 1336 5.089434 AGATCCCAGCACACATATCTGATA 58.911 41.667 0.00 0.00 0.00 2.15
1134 1398 1.407299 CGCAATCTCATCAAGGACCCA 60.407 52.381 0.00 0.00 0.00 4.51
1440 1704 2.852075 TTCCTGGCCCTTCACCGT 60.852 61.111 0.00 0.00 0.00 4.83
1453 1717 3.751175 CCTTCACCGTCAATCAAAAGCTA 59.249 43.478 0.00 0.00 0.00 3.32
1497 1761 6.037391 GGGCCATCAATGATTTGTTATTTGTG 59.963 38.462 4.39 0.00 34.32 3.33
1576 1840 3.440173 CGACCATTATGCCTTGTTTGTCT 59.560 43.478 0.00 0.00 0.00 3.41
1596 1860 5.580691 TGTCTCCAATGATGTCGACATTAAC 59.419 40.000 30.46 19.73 36.57 2.01
1602 1866 2.162008 TGATGTCGACATTAACGGACGA 59.838 45.455 30.46 0.00 36.57 4.20
1618 1882 0.246635 ACGAATGTCCCAGTCCTTCG 59.753 55.000 0.00 0.00 43.10 3.79
1750 2017 4.651778 CCTTTACTTGGTGTCATCCTCAA 58.348 43.478 0.00 0.00 0.00 3.02
1763 2030 1.961277 CCTCAACCGCTGCTTCGTT 60.961 57.895 0.00 0.00 0.00 3.85
1806 2073 3.568007 GTGGTAGCTGGAAACAAATGTCA 59.432 43.478 0.00 0.00 42.06 3.58
1861 2128 1.676678 GGCGCTGTCATACCTGGAGA 61.677 60.000 7.64 0.00 0.00 3.71
1917 2184 1.903877 CGGGGAGTTCAGCAGATGGT 61.904 60.000 0.00 0.00 0.00 3.55
2079 2349 0.620556 GGATCAGGGCAAAGGTCAGA 59.379 55.000 0.00 0.00 0.00 3.27
2110 2380 1.301401 CGAGGCAAAAGTGGGACGA 60.301 57.895 0.00 0.00 0.00 4.20
2184 2454 1.141053 TCGATGAGGAGGATCGACAGA 59.859 52.381 0.00 0.00 45.11 3.41
2191 2461 0.662970 GAGGATCGACAGAGCGCATC 60.663 60.000 11.47 4.24 32.66 3.91
2370 3311 3.067180 ACGGAGCATCTTAATTGCCATTG 59.933 43.478 6.86 0.00 41.06 2.82
2396 3351 3.254657 CGGTTTGTTGGTGGTATGACAAT 59.745 43.478 0.00 0.00 32.64 2.71
2497 3714 1.393603 TGGCATTCACCGTGAAAACA 58.606 45.000 17.64 13.30 40.12 2.83
2500 3718 3.181471 TGGCATTCACCGTGAAAACATTT 60.181 39.130 17.64 0.00 40.12 2.32
2538 3761 1.007336 AACGCAAGACTTCCTACGCG 61.007 55.000 3.53 3.53 46.30 6.01
2540 3763 1.810030 GCAAGACTTCCTACGCGGG 60.810 63.158 12.47 2.26 0.00 6.13
2663 3921 0.325272 TGCAGGTAACGCCATGGTAA 59.675 50.000 14.67 0.00 46.39 2.85
2730 4035 7.615403 ACTATATTCAGAATCGCACCATATGT 58.385 34.615 0.00 0.00 0.00 2.29
2753 4084 6.929049 TGTTATCGTGACAATCTTCTTCAACT 59.071 34.615 0.00 0.00 0.00 3.16
2781 4115 8.839914 GTTGTTTTTCTTCAAAAATTTCAGTGC 58.160 29.630 0.00 0.00 42.22 4.40
2829 4193 6.777580 AGGAACATGTACAACTGAATTTTCCT 59.222 34.615 0.00 6.47 35.39 3.36
2897 4261 6.766944 TGTGGATGTTTTAAAGAACCGAGTTA 59.233 34.615 0.00 0.00 0.00 2.24
3001 4372 5.646577 ATCTGTCACCTACTTGTGTACTC 57.353 43.478 0.00 0.00 37.51 2.59
3077 6703 5.643379 TTTGAATTGTGATCCTAGGCAAC 57.357 39.130 2.96 2.57 0.00 4.17
3127 6754 9.143155 AGAACTGTCCTTTGGTAAAATTTATGT 57.857 29.630 0.00 0.00 0.00 2.29
3134 6761 6.310224 CCTTTGGTAAAATTTATGTTGCGGAG 59.690 38.462 0.00 0.00 0.00 4.63
3177 6808 9.973661 TGATCCTGAAAAGGAATGAAACTAATA 57.026 29.630 0.00 0.00 41.90 0.98
3221 6853 4.525912 ATGCATTGTTTCCTCAGTTTCC 57.474 40.909 0.00 0.00 0.00 3.13
3238 7156 8.477984 TCAGTTTCCTTTTGAAGAACAATTTG 57.522 30.769 0.00 0.00 38.36 2.32
3240 7158 8.382875 CAGTTTCCTTTTGAAGAACAATTTGTC 58.617 33.333 1.83 0.00 38.36 3.18
3251 7169 9.897744 TGAAGAACAATTTGTCTAATTCACATC 57.102 29.630 1.83 0.00 34.19 3.06
3284 7202 7.849804 TTTTAAGGATGTCACATCTAAGCTC 57.150 36.000 17.46 0.00 0.00 4.09
3286 7204 2.703007 AGGATGTCACATCTAAGCTCCC 59.297 50.000 17.46 0.00 0.00 4.30
3287 7205 2.435805 GGATGTCACATCTAAGCTCCCA 59.564 50.000 17.46 0.00 0.00 4.37
3288 7206 3.462021 GATGTCACATCTAAGCTCCCAC 58.538 50.000 10.81 0.00 0.00 4.61
3290 7208 2.637382 TGTCACATCTAAGCTCCCACAA 59.363 45.455 0.00 0.00 0.00 3.33
3291 7209 3.072330 TGTCACATCTAAGCTCCCACAAA 59.928 43.478 0.00 0.00 0.00 2.83
3293 7211 5.045942 TGTCACATCTAAGCTCCCACAAATA 60.046 40.000 0.00 0.00 0.00 1.40
3294 7212 6.058183 GTCACATCTAAGCTCCCACAAATAT 58.942 40.000 0.00 0.00 0.00 1.28
3295 7213 7.147567 TGTCACATCTAAGCTCCCACAAATATA 60.148 37.037 0.00 0.00 0.00 0.86
3296 7214 7.880195 GTCACATCTAAGCTCCCACAAATATAT 59.120 37.037 0.00 0.00 0.00 0.86
3301 7219 8.792830 TCTAAGCTCCCACAAATATATAATGC 57.207 34.615 0.00 0.00 0.00 3.56
3302 7220 8.382405 TCTAAGCTCCCACAAATATATAATGCA 58.618 33.333 0.00 0.00 0.00 3.96
3303 7221 7.458409 AAGCTCCCACAAATATATAATGCAG 57.542 36.000 0.00 0.00 0.00 4.41
3306 7224 6.294675 GCTCCCACAAATATATAATGCAGCAA 60.295 38.462 0.00 0.00 0.00 3.91
3307 7225 7.594351 TCCCACAAATATATAATGCAGCAAA 57.406 32.000 0.00 0.00 0.00 3.68
3309 7227 8.481314 TCCCACAAATATATAATGCAGCAAAAA 58.519 29.630 0.00 0.00 0.00 1.94
3310 7228 8.767085 CCCACAAATATATAATGCAGCAAAAAG 58.233 33.333 0.00 0.00 0.00 2.27
3311 7229 8.767085 CCACAAATATATAATGCAGCAAAAAGG 58.233 33.333 0.00 0.00 0.00 3.11
3312 7230 9.531942 CACAAATATATAATGCAGCAAAAAGGA 57.468 29.630 0.00 0.00 0.00 3.36
3360 8666 4.214310 ACCACAAACAGAATGGACATCAA 58.786 39.130 0.00 0.00 43.62 2.57
3361 8667 4.037923 ACCACAAACAGAATGGACATCAAC 59.962 41.667 0.00 0.00 43.62 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.704472 TCAAAATAAGTGTCGTGATTTTGCTTT 59.296 29.630 12.03 0.00 43.85 3.51
8 9 7.199766 TCAAAATAAGTGTCGTGATTTTGCTT 58.800 30.769 12.03 0.00 43.85 3.91
10 11 6.984740 TCAAAATAAGTGTCGTGATTTTGC 57.015 33.333 12.03 0.00 43.85 3.68
12 13 8.977505 CCAATTCAAAATAAGTGTCGTGATTTT 58.022 29.630 0.00 0.00 32.97 1.82
14 15 7.881142 TCCAATTCAAAATAAGTGTCGTGATT 58.119 30.769 0.00 0.00 0.00 2.57
17 18 6.086222 CCTCCAATTCAAAATAAGTGTCGTG 58.914 40.000 0.00 0.00 0.00 4.35
18 19 5.183140 CCCTCCAATTCAAAATAAGTGTCGT 59.817 40.000 0.00 0.00 0.00 4.34
19 20 5.414454 TCCCTCCAATTCAAAATAAGTGTCG 59.586 40.000 0.00 0.00 0.00 4.35
20 21 6.434340 ACTCCCTCCAATTCAAAATAAGTGTC 59.566 38.462 0.00 0.00 0.00 3.67
21 22 6.314917 ACTCCCTCCAATTCAAAATAAGTGT 58.685 36.000 0.00 0.00 0.00 3.55
22 23 6.840780 ACTCCCTCCAATTCAAAATAAGTG 57.159 37.500 0.00 0.00 0.00 3.16
23 24 7.928873 TCTACTCCCTCCAATTCAAAATAAGT 58.071 34.615 0.00 0.00 0.00 2.24
24 25 8.678199 GTTCTACTCCCTCCAATTCAAAATAAG 58.322 37.037 0.00 0.00 0.00 1.73
26 27 7.610305 GTGTTCTACTCCCTCCAATTCAAAATA 59.390 37.037 0.00 0.00 0.00 1.40
29 30 5.163141 TGTGTTCTACTCCCTCCAATTCAAA 60.163 40.000 0.00 0.00 0.00 2.69
30 31 4.349636 TGTGTTCTACTCCCTCCAATTCAA 59.650 41.667 0.00 0.00 0.00 2.69
32 33 4.020128 ACTGTGTTCTACTCCCTCCAATTC 60.020 45.833 0.00 0.00 0.00 2.17
33 34 3.910627 ACTGTGTTCTACTCCCTCCAATT 59.089 43.478 0.00 0.00 0.00 2.32
35 36 2.972348 ACTGTGTTCTACTCCCTCCAA 58.028 47.619 0.00 0.00 0.00 3.53
36 37 2.696526 ACTGTGTTCTACTCCCTCCA 57.303 50.000 0.00 0.00 0.00 3.86
37 38 3.579151 AGAAACTGTGTTCTACTCCCTCC 59.421 47.826 4.24 0.00 36.06 4.30
38 39 4.875561 AGAAACTGTGTTCTACTCCCTC 57.124 45.455 4.24 0.00 36.06 4.30
39 40 5.011840 GGTTAGAAACTGTGTTCTACTCCCT 59.988 44.000 10.11 0.00 39.31 4.20
40 41 5.011840 AGGTTAGAAACTGTGTTCTACTCCC 59.988 44.000 17.10 13.84 39.31 4.30
41 42 5.927115 CAGGTTAGAAACTGTGTTCTACTCC 59.073 44.000 0.00 13.13 39.31 3.85
42 43 5.405873 GCAGGTTAGAAACTGTGTTCTACTC 59.594 44.000 9.00 7.85 39.31 2.59
43 44 5.070580 AGCAGGTTAGAAACTGTGTTCTACT 59.929 40.000 9.00 0.00 39.31 2.57
45 46 5.546621 AGCAGGTTAGAAACTGTGTTCTA 57.453 39.130 9.00 7.76 38.75 2.10
47 48 6.426937 TGATTAGCAGGTTAGAAACTGTGTTC 59.573 38.462 9.00 2.97 37.07 3.18
48 49 6.296026 TGATTAGCAGGTTAGAAACTGTGTT 58.704 36.000 9.00 0.00 37.07 3.32
49 50 5.865085 TGATTAGCAGGTTAGAAACTGTGT 58.135 37.500 9.00 0.26 37.07 3.72
50 51 6.801539 TTGATTAGCAGGTTAGAAACTGTG 57.198 37.500 9.00 0.00 37.07 3.66
51 52 7.817418 TTTTGATTAGCAGGTTAGAAACTGT 57.183 32.000 9.00 0.00 37.07 3.55
55 56 8.745590 GGGTATTTTTGATTAGCAGGTTAGAAA 58.254 33.333 0.00 0.00 0.00 2.52
56 57 8.113462 AGGGTATTTTTGATTAGCAGGTTAGAA 58.887 33.333 0.00 0.00 0.00 2.10
57 58 7.639378 AGGGTATTTTTGATTAGCAGGTTAGA 58.361 34.615 0.00 0.00 0.00 2.10
58 59 7.881775 AGGGTATTTTTGATTAGCAGGTTAG 57.118 36.000 0.00 0.00 0.00 2.34
59 60 8.658840 AAAGGGTATTTTTGATTAGCAGGTTA 57.341 30.769 0.00 0.00 0.00 2.85
60 61 7.553504 AAAGGGTATTTTTGATTAGCAGGTT 57.446 32.000 0.00 0.00 0.00 3.50
61 62 7.310423 GGAAAAGGGTATTTTTGATTAGCAGGT 60.310 37.037 0.00 0.00 30.78 4.00
63 64 7.610865 TGGAAAAGGGTATTTTTGATTAGCAG 58.389 34.615 0.00 0.00 30.78 4.24
64 65 7.453126 TCTGGAAAAGGGTATTTTTGATTAGCA 59.547 33.333 0.00 0.00 30.78 3.49
65 66 7.836842 TCTGGAAAAGGGTATTTTTGATTAGC 58.163 34.615 0.00 0.00 30.78 3.09
66 67 9.639601 GTTCTGGAAAAGGGTATTTTTGATTAG 57.360 33.333 0.00 0.00 30.78 1.73
67 68 8.301002 CGTTCTGGAAAAGGGTATTTTTGATTA 58.699 33.333 0.00 0.00 30.78 1.75
68 69 7.014808 TCGTTCTGGAAAAGGGTATTTTTGATT 59.985 33.333 0.00 0.00 30.78 2.57
69 70 6.492087 TCGTTCTGGAAAAGGGTATTTTTGAT 59.508 34.615 0.00 0.00 30.78 2.57
72 73 5.243060 CCTCGTTCTGGAAAAGGGTATTTTT 59.757 40.000 5.57 0.00 33.19 1.94
73 74 4.765339 CCTCGTTCTGGAAAAGGGTATTTT 59.235 41.667 5.57 0.00 0.00 1.82
74 75 4.042435 TCCTCGTTCTGGAAAAGGGTATTT 59.958 41.667 10.94 0.00 0.00 1.40
75 76 3.585732 TCCTCGTTCTGGAAAAGGGTATT 59.414 43.478 10.94 0.00 0.00 1.89
76 77 3.055312 GTCCTCGTTCTGGAAAAGGGTAT 60.055 47.826 10.94 0.00 35.10 2.73
77 78 2.301009 GTCCTCGTTCTGGAAAAGGGTA 59.699 50.000 10.94 0.00 35.10 3.69
78 79 1.071857 GTCCTCGTTCTGGAAAAGGGT 59.928 52.381 10.94 0.00 35.10 4.34
79 80 1.071699 TGTCCTCGTTCTGGAAAAGGG 59.928 52.381 10.94 3.26 35.10 3.95
80 81 2.543777 TGTCCTCGTTCTGGAAAAGG 57.456 50.000 6.66 6.66 35.10 3.11
81 82 6.403636 CCATTTATGTCCTCGTTCTGGAAAAG 60.404 42.308 0.00 0.00 35.10 2.27
82 83 5.414454 CCATTTATGTCCTCGTTCTGGAAAA 59.586 40.000 0.00 0.00 35.10 2.29
84 85 4.513442 CCATTTATGTCCTCGTTCTGGAA 58.487 43.478 0.00 0.00 35.10 3.53
86 87 3.206150 CCCATTTATGTCCTCGTTCTGG 58.794 50.000 0.00 0.00 0.00 3.86
87 88 2.614057 GCCCATTTATGTCCTCGTTCTG 59.386 50.000 0.00 0.00 0.00 3.02
88 89 2.421529 GGCCCATTTATGTCCTCGTTCT 60.422 50.000 0.00 0.00 0.00 3.01
89 90 1.947456 GGCCCATTTATGTCCTCGTTC 59.053 52.381 0.00 0.00 0.00 3.95
90 91 1.745827 CGGCCCATTTATGTCCTCGTT 60.746 52.381 0.00 0.00 0.00 3.85
91 92 0.179056 CGGCCCATTTATGTCCTCGT 60.179 55.000 0.00 0.00 0.00 4.18
94 95 0.751643 GCACGGCCCATTTATGTCCT 60.752 55.000 0.00 0.00 0.00 3.85
95 96 0.751643 AGCACGGCCCATTTATGTCC 60.752 55.000 0.00 0.00 0.00 4.02
96 97 0.381801 CAGCACGGCCCATTTATGTC 59.618 55.000 0.00 0.00 0.00 3.06
97 98 0.323360 ACAGCACGGCCCATTTATGT 60.323 50.000 0.00 0.00 0.00 2.29
98 99 1.603802 CTACAGCACGGCCCATTTATG 59.396 52.381 0.00 0.00 0.00 1.90
99 100 1.967319 CTACAGCACGGCCCATTTAT 58.033 50.000 0.00 0.00 0.00 1.40
102 103 2.438434 GCTACAGCACGGCCCATT 60.438 61.111 0.00 0.00 41.59 3.16
103 104 4.489771 GGCTACAGCACGGCCCAT 62.490 66.667 0.00 0.00 44.36 4.00
107 108 2.322081 TTTTCGGCTACAGCACGGC 61.322 57.895 3.24 0.00 44.36 5.68
108 109 1.495951 GTTTTCGGCTACAGCACGG 59.504 57.895 3.24 0.00 44.36 4.94
109 110 1.129809 CGTTTTCGGCTACAGCACG 59.870 57.895 3.24 4.83 44.36 5.34
120 121 3.058914 GCCATATCATCTTCCCGTTTTCG 60.059 47.826 0.00 0.00 43.67 3.46
121 122 3.253432 GGCCATATCATCTTCCCGTTTTC 59.747 47.826 0.00 0.00 0.00 2.29
122 123 3.117512 AGGCCATATCATCTTCCCGTTTT 60.118 43.478 5.01 0.00 0.00 2.43
123 124 2.443255 AGGCCATATCATCTTCCCGTTT 59.557 45.455 5.01 0.00 0.00 3.60
124 125 2.057922 AGGCCATATCATCTTCCCGTT 58.942 47.619 5.01 0.00 0.00 4.44
126 127 1.349026 ACAGGCCATATCATCTTCCCG 59.651 52.381 5.01 0.00 0.00 5.14
127 128 3.152341 CAACAGGCCATATCATCTTCCC 58.848 50.000 5.01 0.00 0.00 3.97
130 131 5.240183 CGAAATCAACAGGCCATATCATCTT 59.760 40.000 5.01 0.00 0.00 2.40
132 133 4.614535 GCGAAATCAACAGGCCATATCATC 60.615 45.833 5.01 0.00 0.00 2.92
133 134 3.254166 GCGAAATCAACAGGCCATATCAT 59.746 43.478 5.01 0.00 0.00 2.45
134 135 2.618241 GCGAAATCAACAGGCCATATCA 59.382 45.455 5.01 0.00 0.00 2.15
135 136 2.880890 AGCGAAATCAACAGGCCATATC 59.119 45.455 5.01 0.00 0.00 1.63
137 138 2.288666 GAGCGAAATCAACAGGCCATA 58.711 47.619 5.01 0.00 0.00 2.74
138 139 1.098050 GAGCGAAATCAACAGGCCAT 58.902 50.000 5.01 0.00 0.00 4.40
140 141 0.881118 TTGAGCGAAATCAACAGGCC 59.119 50.000 0.00 0.00 34.31 5.19
141 142 2.704725 TTTGAGCGAAATCAACAGGC 57.295 45.000 0.00 0.00 38.87 4.85
163 164 1.068434 CGGTCAACAGGCCACATTTTT 59.932 47.619 5.01 0.00 0.00 1.94
164 165 0.673437 CGGTCAACAGGCCACATTTT 59.327 50.000 5.01 0.00 0.00 1.82
167 168 1.003355 CTCGGTCAACAGGCCACAT 60.003 57.895 5.01 0.00 0.00 3.21
168 169 2.425592 CTCGGTCAACAGGCCACA 59.574 61.111 5.01 0.00 0.00 4.17
169 170 3.050275 GCTCGGTCAACAGGCCAC 61.050 66.667 5.01 0.00 0.00 5.01
170 171 4.329545 GGCTCGGTCAACAGGCCA 62.330 66.667 5.01 0.00 42.08 5.36
172 173 3.291101 TACGGCTCGGTCAACAGGC 62.291 63.158 0.00 0.00 0.00 4.85
173 174 1.445582 GTACGGCTCGGTCAACAGG 60.446 63.158 0.00 0.00 0.00 4.00
174 175 1.007336 GTGTACGGCTCGGTCAACAG 61.007 60.000 0.00 0.00 0.00 3.16
176 177 2.084681 CGTGTACGGCTCGGTCAAC 61.085 63.158 0.00 0.00 35.37 3.18
187 188 2.430382 AAGAGGCACCCACGTGTACG 62.430 60.000 15.65 2.43 42.39 3.67
198 199 0.727398 GCCGTCAATACAAGAGGCAC 59.273 55.000 0.00 0.00 43.65 5.01
201 202 1.429148 GGCGCCGTCAATACAAGAGG 61.429 60.000 12.58 0.00 0.00 3.69
202 203 0.739462 TGGCGCCGTCAATACAAGAG 60.739 55.000 23.90 0.00 0.00 2.85
203 204 1.017177 GTGGCGCCGTCAATACAAGA 61.017 55.000 23.90 0.00 0.00 3.02
204 205 1.423845 GTGGCGCCGTCAATACAAG 59.576 57.895 23.90 0.00 0.00 3.16
205 206 2.036006 GGTGGCGCCGTCAATACAA 61.036 57.895 23.90 0.00 0.00 2.41
219 220 1.896465 AGAGGACGAGAGAAAAGGTGG 59.104 52.381 0.00 0.00 0.00 4.61
312 327 3.131400 GTGGAGACCTACCAATGAGAGAC 59.869 52.174 0.00 0.00 39.22 3.36
319 334 2.816411 TCGAAGTGGAGACCTACCAAT 58.184 47.619 0.00 0.00 39.22 3.16
351 374 0.327867 TCAGCCCCTCCCTCATGATT 60.328 55.000 0.00 0.00 0.00 2.57
396 424 3.566523 ACGAACAAAGACTCTAAGAGCG 58.433 45.455 0.00 0.00 32.04 5.03
443 474 0.961857 GTTAACGGCGGGGGATTTGT 60.962 55.000 13.24 0.00 0.00 2.83
537 577 9.206870 CCTACTACGGTCAAAATAAAACACTAA 57.793 33.333 0.00 0.00 0.00 2.24
709 946 1.599071 CGGCGATACATGAAGCAACAT 59.401 47.619 0.00 0.00 0.00 2.71
731 968 1.168407 CCGCGATGGAAGATGCCAAT 61.168 55.000 8.23 0.00 42.16 3.16
932 1189 6.014327 ACCTCATGATTTAAACAATTGGCACT 60.014 34.615 10.83 0.00 0.00 4.40
983 1243 2.654385 TCCATTGGTCCTTCCCTGAAAT 59.346 45.455 1.86 0.00 34.77 2.17
1015 1279 2.365617 CCATAGGAAGATGCGGTACAGT 59.634 50.000 0.00 0.00 0.00 3.55
1019 1283 2.673258 TGTCCATAGGAAGATGCGGTA 58.327 47.619 0.00 0.00 31.38 4.02
1134 1398 2.092914 CCTAAGGCGATCAAGGAAGGTT 60.093 50.000 0.00 0.00 0.00 3.50
1471 1735 5.954153 AATAACAAATCATTGATGGCCCA 57.046 34.783 0.00 0.00 38.94 5.36
1472 1736 6.037391 CACAAATAACAAATCATTGATGGCCC 59.963 38.462 0.00 0.00 38.94 5.80
1497 1761 1.002430 TCACCAGTGAGAGGATTGCAC 59.998 52.381 0.00 0.00 34.14 4.57
1576 1840 3.868661 CCGTTAATGTCGACATCATTGGA 59.131 43.478 30.06 10.67 36.92 3.53
1602 1866 1.978580 AGTTCGAAGGACTGGGACATT 59.021 47.619 0.00 0.00 38.20 2.71
1618 1882 5.643379 TTTATCCAAATGGCAGTCAGTTC 57.357 39.130 0.00 0.00 30.52 3.01
1750 2017 2.203153 ACCAAACGAAGCAGCGGT 60.203 55.556 0.00 0.00 35.12 5.68
1763 2030 0.605319 GAGCCAACGGATGACACCAA 60.605 55.000 0.00 0.00 0.00 3.67
1861 2128 1.678970 GCTTTGCTTCGGGTGGGAT 60.679 57.895 0.00 0.00 0.00 3.85
1898 2165 1.153289 CCATCTGCTGAACTCCCCG 60.153 63.158 0.00 0.00 0.00 5.73
1917 2184 1.628340 ACGATGACCAACAGAATCCCA 59.372 47.619 0.00 0.00 0.00 4.37
2079 2349 0.911769 TGCCTCGGAACATCTCCAAT 59.088 50.000 0.00 0.00 45.74 3.16
2110 2380 1.343789 CTCATCGATCCAGAGCACCAT 59.656 52.381 0.00 0.00 0.00 3.55
2184 2454 0.322975 ACTTCTTGGTCAGATGCGCT 59.677 50.000 9.73 0.00 31.03 5.92
2191 2461 4.815269 CAGAGGAAGTACTTCTTGGTCAG 58.185 47.826 29.66 16.40 39.45 3.51
2300 2570 1.225704 CTCCATCTGCCTTGGGTCC 59.774 63.158 0.00 0.00 34.85 4.46
2370 3311 0.179023 TACCACCAACAAACCGGGTC 60.179 55.000 6.32 0.00 31.03 4.46
2497 3714 4.623932 TCACTAGGACACAAGAGCAAAT 57.376 40.909 0.00 0.00 0.00 2.32
2500 3718 3.728845 GTTTCACTAGGACACAAGAGCA 58.271 45.455 0.00 0.00 0.00 4.26
2546 3791 6.936900 AGAAAGACACAGCTTAGCTCAATTAA 59.063 34.615 2.68 0.00 36.40 1.40
2566 3811 5.542779 ACCACAGCTTAGTTCACTAGAAAG 58.457 41.667 0.00 0.00 35.08 2.62
2663 3921 0.330604 AGACAGCCATTGAGCCATGT 59.669 50.000 0.00 0.00 0.00 3.21
2730 4035 7.441157 ACAAGTTGAAGAAGATTGTCACGATAA 59.559 33.333 10.54 0.00 28.22 1.75
2829 4193 4.513692 CAGTCCGGAGATTAAACACACAAA 59.486 41.667 3.06 0.00 0.00 2.83
2897 4261 6.014755 GTGGACTAACCCTAAACTCTACAACT 60.015 42.308 0.00 0.00 38.00 3.16
2944 4310 7.347508 TCAATAAAGAACGAGTGTTAGCTTC 57.652 36.000 0.00 0.00 38.78 3.86
2985 4356 7.011950 TCACAAAATTGAGTACACAAGTAGGTG 59.988 37.037 20.60 20.60 44.35 4.00
3001 4372 5.741510 TGCTGTCTAACGTTTCACAAAATTG 59.258 36.000 5.91 0.00 0.00 2.32
3077 6703 1.705186 TCTTCCAAGTCCTTTCCAGGG 59.295 52.381 0.00 0.00 41.25 4.45
3265 7183 2.703007 GGGAGCTTAGATGTGACATCCT 59.297 50.000 21.05 11.37 0.00 3.24
3267 7185 3.118629 TGTGGGAGCTTAGATGTGACATC 60.119 47.826 17.46 17.46 0.00 3.06
3269 7187 2.256306 TGTGGGAGCTTAGATGTGACA 58.744 47.619 0.00 0.00 0.00 3.58
3270 7188 3.334583 TTGTGGGAGCTTAGATGTGAC 57.665 47.619 0.00 0.00 0.00 3.67
3275 7193 9.401058 GCATTATATATTTGTGGGAGCTTAGAT 57.599 33.333 0.00 0.00 0.00 1.98
3277 7195 8.565896 TGCATTATATATTTGTGGGAGCTTAG 57.434 34.615 0.00 0.00 0.00 2.18
3278 7196 7.121168 GCTGCATTATATATTTGTGGGAGCTTA 59.879 37.037 0.00 0.00 0.00 3.09
3279 7197 6.071728 GCTGCATTATATATTTGTGGGAGCTT 60.072 38.462 0.00 0.00 0.00 3.74
3280 7198 5.416952 GCTGCATTATATATTTGTGGGAGCT 59.583 40.000 0.00 0.00 0.00 4.09
3282 7200 6.822667 TGCTGCATTATATATTTGTGGGAG 57.177 37.500 0.00 0.00 0.00 4.30
3284 7202 8.659925 TTTTTGCTGCATTATATATTTGTGGG 57.340 30.769 1.84 0.00 0.00 4.61
3286 7204 9.531942 TCCTTTTTGCTGCATTATATATTTGTG 57.468 29.630 1.84 0.00 0.00 3.33
3293 7211 8.845413 TTTTGTTCCTTTTTGCTGCATTATAT 57.155 26.923 1.84 0.00 0.00 0.86
3294 7212 8.668510 TTTTTGTTCCTTTTTGCTGCATTATA 57.331 26.923 1.84 0.00 0.00 0.98
3295 7213 7.565323 TTTTTGTTCCTTTTTGCTGCATTAT 57.435 28.000 1.84 0.00 0.00 1.28
3296 7214 6.992063 TTTTTGTTCCTTTTTGCTGCATTA 57.008 29.167 1.84 0.00 0.00 1.90
3331 7331 6.549364 TGTCCATTCTGTTTGTGGTCTATTTT 59.451 34.615 0.00 0.00 34.61 1.82
3336 7336 3.576078 TGTCCATTCTGTTTGTGGTCT 57.424 42.857 0.00 0.00 34.61 3.85
3338 7338 3.831323 TGATGTCCATTCTGTTTGTGGT 58.169 40.909 0.00 0.00 34.61 4.16


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

AutoCloner maintained by Alex Coulton.