Multiple sequence alignment - TraesCS2B01G105500

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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 TraesCS2B01G105500 chr2B 100.000 3476 0 0 1 3476 66217015 66213540 0.000000e+00 6420.0
1 TraesCS2B01G105500 chr2B 88.525 61 6 1 1 61 689480449 689480508 4.810000e-09 73.1
2 TraesCS2B01G105500 chr2B 85.714 63 8 1 27 89 51501193 51501132 8.050000e-07 65.8
3 TraesCS2B01G105500 chr2B 79.518 83 14 3 27 107 38222354 38222273 4.850000e-04 56.5
4 TraesCS2B01G105500 chr2D 91.806 3173 176 44 353 3476 37830285 37827148 0.000000e+00 4342.0
5 TraesCS2B01G105500 chr2A 91.739 2639 143 36 867 3476 42721471 42718879 0.000000e+00 3596.0
6 TraesCS2B01G105500 chr2A 83.626 684 64 25 164 804 42722145 42721467 1.790000e-167 599.0
7 TraesCS2B01G105500 chr2A 91.144 271 15 1 1147 1408 724517091 724516821 3.300000e-95 359.0
8 TraesCS2B01G105500 chr1A 91.221 524 33 9 2708 3229 564326548 564326036 0.000000e+00 701.0
9 TraesCS2B01G105500 chr1A 89.591 269 21 2 1147 1408 10501279 10501011 5.560000e-88 335.0
10 TraesCS2B01G105500 chr6B 91.031 524 34 9 2708 3229 14720700 14720188 0.000000e+00 695.0
11 TraesCS2B01G105500 chr4D 86.860 586 69 6 1034 1618 177317681 177317103 0.000000e+00 649.0
12 TraesCS2B01G105500 chr1D 91.049 324 29 0 1295 1618 412282502 412282825 4.120000e-119 438.0
13 TraesCS2B01G105500 chr1D 91.603 262 22 0 1147 1408 486449310 486449049 2.550000e-96 363.0
14 TraesCS2B01G105500 chr7A 91.698 265 19 1 1147 1408 727763607 727763343 7.090000e-97 364.0
15 TraesCS2B01G105500 chr7A 88.213 263 29 2 1147 1408 5349059 5348798 2.600000e-81 313.0
16 TraesCS2B01G105500 chr5D 89.313 262 28 0 1147 1408 391158959 391159220 2.590000e-86 329.0
17 TraesCS2B01G105500 chr5B 86.667 60 8 0 3 62 685065730 685065671 2.240000e-07 67.6
18 TraesCS2B01G105500 chrUn 79.121 91 17 2 2 92 159043824 159043912 1.040000e-05 62.1
19 TraesCS2B01G105500 chr7B 79.121 91 17 2 2 92 739889353 739889265 1.040000e-05 62.1
20 TraesCS2B01G105500 chr7B 80.247 81 13 3 32 110 719074142 719074063 1.350000e-04 58.4
21 TraesCS2B01G105500 chr1B 80.233 86 13 4 27 110 397836287 397836204 1.040000e-05 62.1
22 TraesCS2B01G105500 chr5A 100.000 28 0 0 32 59 608419769 608419796 6.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G105500 chr2B 66213540 66217015 3475 True 6420.0 6420 100.0000 1 3476 1 chr2B.!!$R3 3475
1 TraesCS2B01G105500 chr2D 37827148 37830285 3137 True 4342.0 4342 91.8060 353 3476 1 chr2D.!!$R1 3123
2 TraesCS2B01G105500 chr2A 42718879 42722145 3266 True 2097.5 3596 87.6825 164 3476 2 chr2A.!!$R2 3312
3 TraesCS2B01G105500 chr1A 564326036 564326548 512 True 701.0 701 91.2210 2708 3229 1 chr1A.!!$R2 521
4 TraesCS2B01G105500 chr6B 14720188 14720700 512 True 695.0 695 91.0310 2708 3229 1 chr6B.!!$R1 521
5 TraesCS2B01G105500 chr4D 177317103 177317681 578 True 649.0 649 86.8600 1034 1618 1 chr4D.!!$R1 584

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
30 31 0.035152 TCGCTACAGACCCCTTCGTA 60.035 55.0 0.00 0.00 0.00 3.43 F
925 988 0.035820 CCGGAATTTTCCCCACGAGA 60.036 55.0 0.00 0.00 44.67 4.04 F
1689 1755 0.036952 TCTTCCAGAAGCTTCAGCCG 60.037 55.0 27.57 12.74 43.38 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1713 1779 0.239082 TGCAGTTGCTCGCTGAATTG 59.761 50.000 5.62 0.0 42.66 2.32 R
2313 2379 0.108615 CCTCGTCGACCAAGCAGATT 60.109 55.000 10.58 0.0 0.00 2.40 R
3260 3351 1.202533 ACCTGGATATACGTGTGCAGC 60.203 52.381 0.00 0.0 34.33 5.25 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
21 22 4.424476 GATTGACGAAATCGCTACAGAC 57.576 45.455 2.15 0.00 44.43 3.51
22 23 2.273370 TGACGAAATCGCTACAGACC 57.727 50.000 2.15 0.00 44.43 3.85
23 24 1.135199 TGACGAAATCGCTACAGACCC 60.135 52.381 2.15 0.00 44.43 4.46
24 25 0.175073 ACGAAATCGCTACAGACCCC 59.825 55.000 2.15 0.00 44.43 4.95
25 26 0.460311 CGAAATCGCTACAGACCCCT 59.540 55.000 0.00 0.00 0.00 4.79
26 27 1.134788 CGAAATCGCTACAGACCCCTT 60.135 52.381 0.00 0.00 0.00 3.95
27 28 2.552031 GAAATCGCTACAGACCCCTTC 58.448 52.381 0.00 0.00 0.00 3.46
28 29 0.460311 AATCGCTACAGACCCCTTCG 59.540 55.000 0.00 0.00 0.00 3.79
29 30 0.683504 ATCGCTACAGACCCCTTCGT 60.684 55.000 0.00 0.00 0.00 3.85
30 31 0.035152 TCGCTACAGACCCCTTCGTA 60.035 55.000 0.00 0.00 0.00 3.43
31 32 0.381089 CGCTACAGACCCCTTCGTAG 59.619 60.000 0.00 0.00 35.84 3.51
32 33 1.472188 GCTACAGACCCCTTCGTAGT 58.528 55.000 0.00 0.00 35.50 2.73
33 34 1.404748 GCTACAGACCCCTTCGTAGTC 59.595 57.143 0.00 0.00 35.50 2.59
34 35 1.669779 CTACAGACCCCTTCGTAGTCG 59.330 57.143 0.00 0.00 35.65 4.18
35 36 0.037303 ACAGACCCCTTCGTAGTCGA 59.963 55.000 0.00 0.00 44.66 4.20
36 37 0.450983 CAGACCCCTTCGTAGTCGAC 59.549 60.000 7.70 7.70 46.03 4.20
48 49 3.322230 GTAGTCGACGAGAACATCTCC 57.678 52.381 10.46 0.00 40.34 3.71
49 50 2.116827 AGTCGACGAGAACATCTCCT 57.883 50.000 10.46 0.00 40.34 3.69
50 51 2.011222 AGTCGACGAGAACATCTCCTC 58.989 52.381 10.46 0.08 40.34 3.71
51 52 1.064357 GTCGACGAGAACATCTCCTCC 59.936 57.143 0.00 0.00 40.34 4.30
52 53 0.382515 CGACGAGAACATCTCCTCCC 59.617 60.000 1.98 0.00 40.34 4.30
53 54 1.475403 GACGAGAACATCTCCTCCCA 58.525 55.000 1.98 0.00 40.34 4.37
54 55 1.135333 GACGAGAACATCTCCTCCCAC 59.865 57.143 1.98 0.00 40.34 4.61
55 56 1.272760 ACGAGAACATCTCCTCCCACT 60.273 52.381 1.98 0.00 40.34 4.00
56 57 1.135915 CGAGAACATCTCCTCCCACTG 59.864 57.143 1.98 0.00 40.34 3.66
57 58 2.461695 GAGAACATCTCCTCCCACTGA 58.538 52.381 0.00 0.00 37.55 3.41
58 59 2.834549 GAGAACATCTCCTCCCACTGAA 59.165 50.000 0.00 0.00 37.55 3.02
59 60 2.569404 AGAACATCTCCTCCCACTGAAC 59.431 50.000 0.00 0.00 0.00 3.18
60 61 0.898320 ACATCTCCTCCCACTGAACG 59.102 55.000 0.00 0.00 0.00 3.95
61 62 0.460987 CATCTCCTCCCACTGAACGC 60.461 60.000 0.00 0.00 0.00 4.84
62 63 1.617947 ATCTCCTCCCACTGAACGCC 61.618 60.000 0.00 0.00 0.00 5.68
63 64 2.525629 TCCTCCCACTGAACGCCA 60.526 61.111 0.00 0.00 0.00 5.69
64 65 2.358737 CCTCCCACTGAACGCCAC 60.359 66.667 0.00 0.00 0.00 5.01
65 66 2.425592 CTCCCACTGAACGCCACA 59.574 61.111 0.00 0.00 0.00 4.17
66 67 1.003355 CTCCCACTGAACGCCACAT 60.003 57.895 0.00 0.00 0.00 3.21
67 68 1.003839 TCCCACTGAACGCCACATC 60.004 57.895 0.00 0.00 0.00 3.06
68 69 1.302431 CCCACTGAACGCCACATCA 60.302 57.895 0.00 0.00 0.00 3.07
69 70 1.577328 CCCACTGAACGCCACATCAC 61.577 60.000 0.00 0.00 0.00 3.06
70 71 1.577328 CCACTGAACGCCACATCACC 61.577 60.000 0.00 0.00 0.00 4.02
71 72 1.667830 ACTGAACGCCACATCACCG 60.668 57.895 0.00 0.00 0.00 4.94
72 73 1.374125 CTGAACGCCACATCACCGA 60.374 57.895 0.00 0.00 0.00 4.69
73 74 0.948623 CTGAACGCCACATCACCGAA 60.949 55.000 0.00 0.00 0.00 4.30
74 75 1.225376 TGAACGCCACATCACCGAAC 61.225 55.000 0.00 0.00 0.00 3.95
75 76 2.222953 GAACGCCACATCACCGAACG 62.223 60.000 0.00 0.00 0.00 3.95
76 77 3.487202 CGCCACATCACCGAACGG 61.487 66.667 11.83 11.83 42.03 4.44
77 78 3.799755 GCCACATCACCGAACGGC 61.800 66.667 13.32 0.00 39.32 5.68
78 79 2.047274 CCACATCACCGAACGGCT 60.047 61.111 13.32 0.00 39.32 5.52
79 80 1.671054 CCACATCACCGAACGGCTT 60.671 57.895 13.32 0.00 39.32 4.35
80 81 1.497278 CACATCACCGAACGGCTTG 59.503 57.895 13.32 10.41 39.32 4.01
81 82 0.948623 CACATCACCGAACGGCTTGA 60.949 55.000 13.32 10.62 39.32 3.02
82 83 0.250124 ACATCACCGAACGGCTTGAA 60.250 50.000 13.32 0.00 39.32 2.69
83 84 0.871722 CATCACCGAACGGCTTGAAA 59.128 50.000 13.32 0.00 39.32 2.69
84 85 0.872388 ATCACCGAACGGCTTGAAAC 59.128 50.000 13.32 0.00 39.32 2.78
85 86 0.462225 TCACCGAACGGCTTGAAACA 60.462 50.000 13.32 0.00 39.32 2.83
86 87 0.378962 CACCGAACGGCTTGAAACAA 59.621 50.000 13.32 0.00 39.32 2.83
87 88 1.096416 ACCGAACGGCTTGAAACAAA 58.904 45.000 13.32 0.00 39.32 2.83
88 89 1.679153 ACCGAACGGCTTGAAACAAAT 59.321 42.857 13.32 0.00 39.32 2.32
89 90 2.287368 ACCGAACGGCTTGAAACAAATC 60.287 45.455 13.32 0.00 39.32 2.17
90 91 2.315901 CGAACGGCTTGAAACAAATCC 58.684 47.619 0.00 0.00 0.00 3.01
91 92 2.287308 CGAACGGCTTGAAACAAATCCA 60.287 45.455 0.00 0.00 0.00 3.41
92 93 3.712187 GAACGGCTTGAAACAAATCCAA 58.288 40.909 0.00 0.00 0.00 3.53
93 94 3.810310 ACGGCTTGAAACAAATCCAAA 57.190 38.095 0.00 0.00 0.00 3.28
94 95 4.130286 ACGGCTTGAAACAAATCCAAAA 57.870 36.364 0.00 0.00 0.00 2.44
95 96 4.508662 ACGGCTTGAAACAAATCCAAAAA 58.491 34.783 0.00 0.00 0.00 1.94
115 116 5.590530 AAAAATGCAACCACTAGTGTCAA 57.409 34.783 21.18 3.11 0.00 3.18
116 117 5.789643 AAAATGCAACCACTAGTGTCAAT 57.210 34.783 21.18 5.24 0.00 2.57
117 118 5.789643 AAATGCAACCACTAGTGTCAATT 57.210 34.783 21.18 10.46 0.00 2.32
118 119 5.789643 AATGCAACCACTAGTGTCAATTT 57.210 34.783 21.18 5.44 0.00 1.82
119 120 5.789643 ATGCAACCACTAGTGTCAATTTT 57.210 34.783 21.18 2.34 0.00 1.82
120 121 4.930963 TGCAACCACTAGTGTCAATTTTG 58.069 39.130 21.18 13.75 0.00 2.44
121 122 4.202101 TGCAACCACTAGTGTCAATTTTGG 60.202 41.667 21.18 5.46 0.00 3.28
122 123 4.037446 GCAACCACTAGTGTCAATTTTGGA 59.963 41.667 21.18 0.00 0.00 3.53
123 124 5.519722 CAACCACTAGTGTCAATTTTGGAC 58.480 41.667 21.18 0.00 35.83 4.02
124 125 5.048846 ACCACTAGTGTCAATTTTGGACT 57.951 39.130 21.18 0.00 36.26 3.85
125 126 5.445964 ACCACTAGTGTCAATTTTGGACTT 58.554 37.500 21.18 0.00 36.26 3.01
126 127 5.299279 ACCACTAGTGTCAATTTTGGACTTG 59.701 40.000 21.18 2.96 36.26 3.16
127 128 5.530915 CCACTAGTGTCAATTTTGGACTTGA 59.469 40.000 21.18 0.00 36.26 3.02
128 129 6.039270 CCACTAGTGTCAATTTTGGACTTGAA 59.961 38.462 21.18 0.00 36.26 2.69
129 130 6.912591 CACTAGTGTCAATTTTGGACTTGAAC 59.087 38.462 15.06 0.00 36.26 3.18
130 131 5.262588 AGTGTCAATTTTGGACTTGAACC 57.737 39.130 0.00 0.00 36.26 3.62
131 132 4.099419 AGTGTCAATTTTGGACTTGAACCC 59.901 41.667 0.00 0.00 36.26 4.11
132 133 4.099419 GTGTCAATTTTGGACTTGAACCCT 59.901 41.667 0.00 0.00 36.26 4.34
133 134 5.300792 GTGTCAATTTTGGACTTGAACCCTA 59.699 40.000 0.00 0.00 36.26 3.53
134 135 5.894393 TGTCAATTTTGGACTTGAACCCTAA 59.106 36.000 0.00 0.00 36.26 2.69
135 136 6.553100 TGTCAATTTTGGACTTGAACCCTAAT 59.447 34.615 0.00 0.00 36.26 1.73
136 137 7.070571 TGTCAATTTTGGACTTGAACCCTAATT 59.929 33.333 0.00 0.00 36.26 1.40
137 138 8.581578 GTCAATTTTGGACTTGAACCCTAATTA 58.418 33.333 0.00 0.00 33.45 1.40
138 139 8.802267 TCAATTTTGGACTTGAACCCTAATTAG 58.198 33.333 5.43 5.43 0.00 1.73
139 140 8.585018 CAATTTTGGACTTGAACCCTAATTAGT 58.415 33.333 11.50 0.00 0.00 2.24
140 141 8.721133 ATTTTGGACTTGAACCCTAATTAGTT 57.279 30.769 11.50 0.95 0.00 2.24
141 142 8.541899 TTTTGGACTTGAACCCTAATTAGTTT 57.458 30.769 11.50 4.25 0.00 2.66
142 143 8.541899 TTTGGACTTGAACCCTAATTAGTTTT 57.458 30.769 11.50 3.91 0.00 2.43
143 144 8.541899 TTGGACTTGAACCCTAATTAGTTTTT 57.458 30.769 11.50 1.54 0.00 1.94
179 180 2.131776 AAAACAGGTTGGTTCGTCCA 57.868 45.000 0.00 0.00 45.60 4.02
180 181 2.358322 AAACAGGTTGGTTCGTCCAT 57.642 45.000 3.33 0.00 46.60 3.41
181 182 1.604604 AACAGGTTGGTTCGTCCATG 58.395 50.000 3.33 0.00 46.60 3.66
183 184 1.303317 AGGTTGGTTCGTCCATGCC 60.303 57.895 3.33 8.43 46.60 4.40
184 185 1.602323 GGTTGGTTCGTCCATGCCA 60.602 57.895 13.55 0.00 46.60 4.92
185 186 1.586154 GGTTGGTTCGTCCATGCCAG 61.586 60.000 13.55 0.00 46.60 4.85
186 187 0.889186 GTTGGTTCGTCCATGCCAGT 60.889 55.000 3.33 0.00 46.60 4.00
187 188 0.179004 TTGGTTCGTCCATGCCAGTT 60.179 50.000 3.33 0.00 46.60 3.16
202 203 3.640967 TGCCAGTTTTAATGTTTGCTCCT 59.359 39.130 0.00 0.00 0.00 3.69
207 208 6.048509 CAGTTTTAATGTTTGCTCCTTTGGT 58.951 36.000 0.00 0.00 0.00 3.67
212 213 4.751767 ATGTTTGCTCCTTTGGTTTTCA 57.248 36.364 0.00 0.00 0.00 2.69
213 214 4.543590 TGTTTGCTCCTTTGGTTTTCAA 57.456 36.364 0.00 0.00 0.00 2.69
215 216 4.874966 TGTTTGCTCCTTTGGTTTTCAATG 59.125 37.500 0.00 0.00 34.98 2.82
218 219 3.454082 TGCTCCTTTGGTTTTCAATGGTT 59.546 39.130 9.46 0.00 45.60 3.67
227 228 8.655651 TTTGGTTTTCAATGGTTTTAGTCATC 57.344 30.769 0.00 0.00 34.98 2.92
232 233 9.750125 GTTTTCAATGGTTTTAGTCATCTTCTT 57.250 29.630 0.00 0.00 0.00 2.52
297 310 4.916041 TCTGACACTGGAATTGGAAGAT 57.084 40.909 0.00 0.00 0.00 2.40
345 359 9.787532 TTACATTAGCATTCATAGTTCTTTTGC 57.212 29.630 0.00 0.00 0.00 3.68
347 361 4.361451 AGCATTCATAGTTCTTTTGCGG 57.639 40.909 0.00 0.00 33.99 5.69
348 362 2.854185 GCATTCATAGTTCTTTTGCGGC 59.146 45.455 0.00 0.00 0.00 6.53
349 363 3.438360 CATTCATAGTTCTTTTGCGGCC 58.562 45.455 0.00 0.00 0.00 6.13
413 433 8.028938 ACCTCATCAATTGTTTACATTTACTGC 58.971 33.333 5.13 0.00 0.00 4.40
436 456 4.033358 CGTGAAAGACCAGATCATTGCTAC 59.967 45.833 0.00 0.00 0.00 3.58
438 458 5.293079 GTGAAAGACCAGATCATTGCTACTC 59.707 44.000 0.00 0.00 0.00 2.59
439 459 4.414337 AAGACCAGATCATTGCTACTCC 57.586 45.455 0.00 0.00 0.00 3.85
504 536 7.514747 CGCACATTTATTTTCTACGGAGTACTC 60.515 40.741 14.87 14.87 45.11 2.59
516 548 3.889520 GGAGTACTCCTTTTGGACGAT 57.110 47.619 31.12 0.00 45.19 3.73
537 569 3.592059 TCTTTATTTTCCACCGACTCCG 58.408 45.455 0.00 0.00 0.00 4.63
538 570 3.258872 TCTTTATTTTCCACCGACTCCGA 59.741 43.478 0.00 0.00 38.22 4.55
558 595 3.303229 CGATTTATTTTTGGAAGCACCGC 59.697 43.478 0.00 0.00 42.61 5.68
692 753 3.273886 TCCAACTCCTATACCTTCCTCCA 59.726 47.826 0.00 0.00 0.00 3.86
781 842 3.813724 CCATGGAGCCTCCCACCC 61.814 72.222 5.56 0.00 39.34 4.61
925 988 0.035820 CCGGAATTTTCCCCACGAGA 60.036 55.000 0.00 0.00 44.67 4.04
928 991 1.271707 GGAATTTTCCCCACGAGACCA 60.272 52.381 0.00 0.00 41.62 4.02
972 1038 2.584970 CGCTAGATTCGCGGGCAA 60.585 61.111 6.13 0.00 46.32 4.52
974 1040 2.247437 GCTAGATTCGCGGGCAAGG 61.247 63.158 6.13 0.00 0.00 3.61
987 1053 4.028490 CAAGGGGCGGCTGGTGTA 62.028 66.667 9.56 0.00 0.00 2.90
988 1054 3.717294 AAGGGGCGGCTGGTGTAG 61.717 66.667 9.56 0.00 0.00 2.74
1102 1168 4.382320 TGCTGTACGGGGCGTTCC 62.382 66.667 3.34 0.00 41.54 3.62
1606 1672 4.082523 TTCAGGCGCTCTTCCCGG 62.083 66.667 7.64 0.00 0.00 5.73
1689 1755 0.036952 TCTTCCAGAAGCTTCAGCCG 60.037 55.000 27.57 12.74 43.38 5.52
1694 1760 1.137872 CCAGAAGCTTCAGCCGACTAT 59.862 52.381 27.57 1.05 43.38 2.12
1710 1776 2.311688 CTATGGCGTCCACCTCCACC 62.312 65.000 0.50 0.00 35.80 4.61
1713 1779 4.736896 GCGTCCACCTCCACCGAC 62.737 72.222 0.00 0.00 0.00 4.79
1740 1806 1.005294 CGAGCAACTGCACAATTGGC 61.005 55.000 10.83 10.82 45.16 4.52
1752 1818 3.688272 CACAATTGGCGATCACAAGATC 58.312 45.455 10.83 0.00 45.81 2.75
1766 1832 2.279120 GATCCAGCTCCTGACGCG 60.279 66.667 3.53 3.53 32.44 6.01
1851 1917 4.932200 CAGAACATCAAGTACCTTCCAGAC 59.068 45.833 0.00 0.00 0.00 3.51
1902 1968 1.135489 GTGTACGTTGATCTCGGCTCA 60.135 52.381 13.39 7.74 0.00 4.26
2295 2361 2.897326 TGAGTTTGACTTGATCCCGAGA 59.103 45.455 0.00 0.00 0.00 4.04
2313 2379 4.717629 CTCTTCGACACGGGCGCA 62.718 66.667 10.83 0.00 0.00 6.09
2528 2594 5.995282 CAGATAGAGTTCGACTACAGAGGAT 59.005 44.000 0.00 0.00 0.00 3.24
2530 2596 7.117236 CAGATAGAGTTCGACTACAGAGGATAC 59.883 44.444 0.00 0.00 0.00 2.24
2533 2599 6.123651 AGAGTTCGACTACAGAGGATACAAT 58.876 40.000 0.00 0.00 41.41 2.71
2538 2604 5.067413 TCGACTACAGAGGATACAATGGTTC 59.933 44.000 0.00 0.00 41.41 3.62
2546 2612 6.484643 CAGAGGATACAATGGTTCCATACTTG 59.515 42.308 4.67 3.79 41.41 3.16
2549 2615 5.221048 GGATACAATGGTTCCATACTTGCAC 60.221 44.000 4.67 0.00 0.00 4.57
2555 2621 5.685520 TGGTTCCATACTTGCACTACATA 57.314 39.130 0.00 0.00 0.00 2.29
2557 2623 6.288294 TGGTTCCATACTTGCACTACATATC 58.712 40.000 0.00 0.00 0.00 1.63
2564 2630 9.060347 CCATACTTGCACTACATATCTGATTTT 57.940 33.333 0.00 0.00 0.00 1.82
2565 2631 9.874215 CATACTTGCACTACATATCTGATTTTG 57.126 33.333 0.00 0.00 0.00 2.44
2622 2692 3.809905 AGGGATTCGGTTTATTCTCTGC 58.190 45.455 0.00 0.00 0.00 4.26
2692 2769 2.414161 GCGTTTAACTGCATTCCCAGTC 60.414 50.000 6.95 0.00 44.86 3.51
2793 2878 2.859165 TGTTCACTTCCCCTGTGATC 57.141 50.000 0.00 0.00 42.95 2.92
2831 2916 3.316308 CCTGCAGCTCCATTTGTATTACC 59.684 47.826 8.66 0.00 0.00 2.85
2887 2972 8.091385 AGCAATCAAATTGTTTCAGGAATTTC 57.909 30.769 1.99 0.00 42.20 2.17
2888 2973 7.716123 AGCAATCAAATTGTTTCAGGAATTTCA 59.284 29.630 0.00 0.00 42.20 2.69
2892 2977 6.482973 TCAAATTGTTTCAGGAATTTCAAGGC 59.517 34.615 0.00 0.00 30.94 4.35
2893 2978 5.549742 ATTGTTTCAGGAATTTCAAGGCA 57.450 34.783 0.00 0.00 0.00 4.75
2970 3055 0.037975 GGTGCCTTTGTTCTGCCATG 60.038 55.000 0.00 0.00 0.00 3.66
2971 3056 0.668401 GTGCCTTTGTTCTGCCATGC 60.668 55.000 0.00 0.00 0.00 4.06
2972 3057 1.079612 GCCTTTGTTCTGCCATGCC 60.080 57.895 0.00 0.00 0.00 4.40
2973 3058 1.818959 GCCTTTGTTCTGCCATGCCA 61.819 55.000 0.00 0.00 0.00 4.92
2974 3059 0.899720 CCTTTGTTCTGCCATGCCAT 59.100 50.000 0.00 0.00 0.00 4.40
2981 3066 0.107361 TCTGCCATGCCATGACTCTG 60.107 55.000 6.18 0.00 0.00 3.35
3197 3288 5.592282 TCAGGTTCAAGTATTTTCAGTTGCA 59.408 36.000 0.00 0.00 0.00 4.08
3198 3289 6.265196 TCAGGTTCAAGTATTTTCAGTTGCAT 59.735 34.615 0.00 0.00 0.00 3.96
3199 3290 6.583806 CAGGTTCAAGTATTTTCAGTTGCATC 59.416 38.462 0.00 0.00 0.00 3.91
3241 3332 2.860628 GCCTGCGCTGTAATCGTCG 61.861 63.158 9.73 0.00 0.00 5.12
3260 3351 2.057316 CGAAGCATCTATTCTCCTGCG 58.943 52.381 0.00 0.00 39.57 5.18
3282 3373 3.123804 CTGCACACGTATATCCAGGTTC 58.876 50.000 0.00 0.00 0.00 3.62
3285 3376 3.430374 GCACACGTATATCCAGGTTCTGT 60.430 47.826 0.00 0.00 0.00 3.41
3318 3409 0.036199 TGAGGGCATGCCAAATTTGC 60.036 50.000 36.56 18.19 37.98 3.68
3361 3452 1.962807 TGCTTGTGGGGAATGTTTCTG 59.037 47.619 0.00 0.00 0.00 3.02
3383 3474 3.526931 ACATCGTGGAAGATACTGGTG 57.473 47.619 0.00 0.00 0.00 4.17
3436 3527 5.071250 ACTGGGGTGGTTTTATTTCCTTTTC 59.929 40.000 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.187700 GGTCTGTAGCGATTTCGTCAAT 58.812 45.455 1.55 0.00 42.22 2.57
2 3 2.602878 GGTCTGTAGCGATTTCGTCAA 58.397 47.619 1.55 0.00 42.22 3.18
4 5 1.557651 GGGTCTGTAGCGATTTCGTC 58.442 55.000 1.55 0.00 42.22 4.20
5 6 0.175073 GGGGTCTGTAGCGATTTCGT 59.825 55.000 1.55 0.00 42.22 3.85
6 7 0.460311 AGGGGTCTGTAGCGATTTCG 59.540 55.000 0.00 0.00 43.27 3.46
7 8 2.552031 GAAGGGGTCTGTAGCGATTTC 58.448 52.381 0.00 0.00 0.00 2.17
8 9 1.134788 CGAAGGGGTCTGTAGCGATTT 60.135 52.381 0.00 0.00 0.00 2.17
9 10 0.460311 CGAAGGGGTCTGTAGCGATT 59.540 55.000 0.00 0.00 0.00 3.34
10 11 0.683504 ACGAAGGGGTCTGTAGCGAT 60.684 55.000 0.00 0.00 0.00 4.58
11 12 0.035152 TACGAAGGGGTCTGTAGCGA 60.035 55.000 0.00 0.00 0.00 4.93
12 13 0.381089 CTACGAAGGGGTCTGTAGCG 59.619 60.000 0.00 0.00 31.40 4.26
13 14 1.404748 GACTACGAAGGGGTCTGTAGC 59.595 57.143 0.00 0.00 37.10 3.58
14 15 1.669779 CGACTACGAAGGGGTCTGTAG 59.330 57.143 0.00 0.00 42.66 2.74
15 16 1.278985 TCGACTACGAAGGGGTCTGTA 59.721 52.381 0.00 0.00 45.74 2.74
16 17 0.037303 TCGACTACGAAGGGGTCTGT 59.963 55.000 0.00 0.00 45.74 3.41
17 18 2.864114 TCGACTACGAAGGGGTCTG 58.136 57.895 0.00 0.00 45.74 3.51
28 29 2.937799 AGGAGATGTTCTCGTCGACTAC 59.062 50.000 14.70 6.97 44.28 2.73
29 30 3.196463 GAGGAGATGTTCTCGTCGACTA 58.804 50.000 14.70 0.95 44.90 2.59
30 31 2.011222 GAGGAGATGTTCTCGTCGACT 58.989 52.381 14.70 0.00 44.90 4.18
31 32 2.461897 GAGGAGATGTTCTCGTCGAC 57.538 55.000 5.18 5.18 44.90 4.20
35 36 1.187087 GTGGGAGGAGATGTTCTCGT 58.813 55.000 0.00 0.00 44.28 4.18
36 37 1.135915 CAGTGGGAGGAGATGTTCTCG 59.864 57.143 0.00 0.00 44.28 4.04
37 38 2.461695 TCAGTGGGAGGAGATGTTCTC 58.538 52.381 0.00 0.00 42.66 2.87
38 39 2.569404 GTTCAGTGGGAGGAGATGTTCT 59.431 50.000 0.00 0.00 0.00 3.01
39 40 2.675317 CGTTCAGTGGGAGGAGATGTTC 60.675 54.545 0.00 0.00 0.00 3.18
40 41 1.276421 CGTTCAGTGGGAGGAGATGTT 59.724 52.381 0.00 0.00 0.00 2.71
41 42 0.898320 CGTTCAGTGGGAGGAGATGT 59.102 55.000 0.00 0.00 0.00 3.06
42 43 0.460987 GCGTTCAGTGGGAGGAGATG 60.461 60.000 0.00 0.00 0.00 2.90
43 44 1.617947 GGCGTTCAGTGGGAGGAGAT 61.618 60.000 0.00 0.00 0.00 2.75
44 45 2.283529 GGCGTTCAGTGGGAGGAGA 61.284 63.158 0.00 0.00 0.00 3.71
45 46 2.266055 GGCGTTCAGTGGGAGGAG 59.734 66.667 0.00 0.00 0.00 3.69
46 47 2.525629 TGGCGTTCAGTGGGAGGA 60.526 61.111 0.00 0.00 0.00 3.71
47 48 2.358737 GTGGCGTTCAGTGGGAGG 60.359 66.667 0.00 0.00 0.00 4.30
48 49 1.003355 ATGTGGCGTTCAGTGGGAG 60.003 57.895 0.00 0.00 0.00 4.30
49 50 1.003839 GATGTGGCGTTCAGTGGGA 60.004 57.895 0.00 0.00 0.00 4.37
50 51 1.302431 TGATGTGGCGTTCAGTGGG 60.302 57.895 0.00 0.00 0.00 4.61
51 52 1.577328 GGTGATGTGGCGTTCAGTGG 61.577 60.000 0.00 0.00 0.00 4.00
52 53 1.868997 GGTGATGTGGCGTTCAGTG 59.131 57.895 0.00 0.00 0.00 3.66
53 54 1.667830 CGGTGATGTGGCGTTCAGT 60.668 57.895 0.00 0.00 0.00 3.41
54 55 0.948623 TTCGGTGATGTGGCGTTCAG 60.949 55.000 0.00 0.00 0.00 3.02
55 56 1.069935 TTCGGTGATGTGGCGTTCA 59.930 52.632 0.00 0.00 0.00 3.18
56 57 1.495951 GTTCGGTGATGTGGCGTTC 59.504 57.895 0.00 0.00 0.00 3.95
57 58 2.314647 CGTTCGGTGATGTGGCGTT 61.315 57.895 0.00 0.00 0.00 4.84
58 59 2.736995 CGTTCGGTGATGTGGCGT 60.737 61.111 0.00 0.00 0.00 5.68
59 60 3.487202 CCGTTCGGTGATGTGGCG 61.487 66.667 2.82 0.00 0.00 5.69
60 61 3.799755 GCCGTTCGGTGATGTGGC 61.800 66.667 12.81 0.00 35.04 5.01
61 62 1.671054 AAGCCGTTCGGTGATGTGG 60.671 57.895 12.81 0.00 0.00 4.17
62 63 0.948623 TCAAGCCGTTCGGTGATGTG 60.949 55.000 12.81 4.73 0.00 3.21
63 64 0.250124 TTCAAGCCGTTCGGTGATGT 60.250 50.000 12.81 0.00 0.00 3.06
64 65 0.871722 TTTCAAGCCGTTCGGTGATG 59.128 50.000 12.81 9.27 0.00 3.07
65 66 0.872388 GTTTCAAGCCGTTCGGTGAT 59.128 50.000 12.81 0.00 0.00 3.06
66 67 0.462225 TGTTTCAAGCCGTTCGGTGA 60.462 50.000 12.81 6.76 0.00 4.02
67 68 0.378962 TTGTTTCAAGCCGTTCGGTG 59.621 50.000 12.81 4.51 0.00 4.94
68 69 1.096416 TTTGTTTCAAGCCGTTCGGT 58.904 45.000 12.81 0.00 0.00 4.69
69 70 2.315901 GATTTGTTTCAAGCCGTTCGG 58.684 47.619 6.90 6.90 0.00 4.30
70 71 2.287308 TGGATTTGTTTCAAGCCGTTCG 60.287 45.455 0.00 0.00 0.00 3.95
71 72 3.363341 TGGATTTGTTTCAAGCCGTTC 57.637 42.857 0.00 0.00 0.00 3.95
72 73 3.810310 TTGGATTTGTTTCAAGCCGTT 57.190 38.095 0.00 0.00 0.00 4.44
73 74 3.810310 TTTGGATTTGTTTCAAGCCGT 57.190 38.095 0.00 0.00 0.00 5.68
93 94 5.590530 TTGACACTAGTGGTTGCATTTTT 57.409 34.783 26.12 1.29 34.19 1.94
94 95 5.789643 ATTGACACTAGTGGTTGCATTTT 57.210 34.783 26.12 2.07 34.19 1.82
95 96 5.789643 AATTGACACTAGTGGTTGCATTT 57.210 34.783 26.12 16.02 34.19 2.32
96 97 5.789643 AAATTGACACTAGTGGTTGCATT 57.210 34.783 26.12 13.31 34.19 3.56
97 98 5.509501 CCAAAATTGACACTAGTGGTTGCAT 60.510 40.000 26.12 4.40 34.19 3.96
98 99 4.202101 CCAAAATTGACACTAGTGGTTGCA 60.202 41.667 26.12 15.14 34.19 4.08
99 100 4.037446 TCCAAAATTGACACTAGTGGTTGC 59.963 41.667 26.12 12.89 34.19 4.17
100 101 5.299279 AGTCCAAAATTGACACTAGTGGTTG 59.701 40.000 26.12 17.31 34.19 3.77
101 102 5.445964 AGTCCAAAATTGACACTAGTGGTT 58.554 37.500 26.12 12.42 34.19 3.67
102 103 5.048846 AGTCCAAAATTGACACTAGTGGT 57.951 39.130 26.12 12.20 34.19 4.16
103 104 5.530915 TCAAGTCCAAAATTGACACTAGTGG 59.469 40.000 26.12 9.07 30.67 4.00
104 105 6.618287 TCAAGTCCAAAATTGACACTAGTG 57.382 37.500 21.44 21.44 30.67 2.74
105 106 6.039382 GGTTCAAGTCCAAAATTGACACTAGT 59.961 38.462 0.00 0.00 35.25 2.57
106 107 6.438763 GGTTCAAGTCCAAAATTGACACTAG 58.561 40.000 0.00 0.00 35.25 2.57
107 108 5.300792 GGGTTCAAGTCCAAAATTGACACTA 59.699 40.000 0.00 0.00 35.25 2.74
108 109 4.099419 GGGTTCAAGTCCAAAATTGACACT 59.901 41.667 0.00 0.00 35.25 3.55
109 110 4.099419 AGGGTTCAAGTCCAAAATTGACAC 59.901 41.667 0.00 0.00 35.25 3.67
110 111 4.285863 AGGGTTCAAGTCCAAAATTGACA 58.714 39.130 0.00 0.00 35.25 3.58
111 112 4.937201 AGGGTTCAAGTCCAAAATTGAC 57.063 40.909 0.00 0.00 35.25 3.18
112 113 7.610580 AATTAGGGTTCAAGTCCAAAATTGA 57.389 32.000 0.00 0.00 33.73 2.57
113 114 8.585018 ACTAATTAGGGTTCAAGTCCAAAATTG 58.415 33.333 16.73 0.00 0.00 2.32
114 115 8.721133 ACTAATTAGGGTTCAAGTCCAAAATT 57.279 30.769 16.73 0.00 0.00 1.82
115 116 8.721133 AACTAATTAGGGTTCAAGTCCAAAAT 57.279 30.769 16.73 0.00 0.00 1.82
116 117 8.541899 AAACTAATTAGGGTTCAAGTCCAAAA 57.458 30.769 16.73 0.00 0.00 2.44
117 118 8.541899 AAAACTAATTAGGGTTCAAGTCCAAA 57.458 30.769 16.73 0.00 0.00 3.28
118 119 8.541899 AAAAACTAATTAGGGTTCAAGTCCAA 57.458 30.769 16.73 0.00 0.00 3.53
159 160 2.448453 TGGACGAACCAACCTGTTTTT 58.552 42.857 3.90 0.00 46.75 1.94
160 161 2.131776 TGGACGAACCAACCTGTTTT 57.868 45.000 3.90 0.00 46.75 2.43
161 162 3.886324 TGGACGAACCAACCTGTTT 57.114 47.368 3.90 0.00 46.75 2.83
174 175 3.848272 ACATTAAAACTGGCATGGACG 57.152 42.857 0.00 0.00 0.00 4.79
178 179 4.389687 GGAGCAAACATTAAAACTGGCATG 59.610 41.667 0.00 0.00 0.00 4.06
179 180 4.284234 AGGAGCAAACATTAAAACTGGCAT 59.716 37.500 0.00 0.00 0.00 4.40
180 181 3.640967 AGGAGCAAACATTAAAACTGGCA 59.359 39.130 0.00 0.00 0.00 4.92
181 182 4.257267 AGGAGCAAACATTAAAACTGGC 57.743 40.909 0.00 0.00 0.00 4.85
183 184 6.048509 ACCAAAGGAGCAAACATTAAAACTG 58.951 36.000 0.00 0.00 0.00 3.16
184 185 6.233905 ACCAAAGGAGCAAACATTAAAACT 57.766 33.333 0.00 0.00 0.00 2.66
185 186 6.918892 AACCAAAGGAGCAAACATTAAAAC 57.081 33.333 0.00 0.00 0.00 2.43
186 187 7.607991 TGAAAACCAAAGGAGCAAACATTAAAA 59.392 29.630 0.00 0.00 0.00 1.52
187 188 7.106239 TGAAAACCAAAGGAGCAAACATTAAA 58.894 30.769 0.00 0.00 0.00 1.52
202 203 8.482128 AGATGACTAAAACCATTGAAAACCAAA 58.518 29.630 0.00 0.00 38.43 3.28
269 274 9.347240 CTTCCAATTCCAGTGTCAGAATAATAT 57.653 33.333 0.00 0.00 32.46 1.28
272 277 6.778821 TCTTCCAATTCCAGTGTCAGAATAA 58.221 36.000 0.00 0.00 32.46 1.40
274 279 5.246981 TCTTCCAATTCCAGTGTCAGAAT 57.753 39.130 0.00 0.00 34.18 2.40
275 280 4.705110 TCTTCCAATTCCAGTGTCAGAA 57.295 40.909 0.00 0.00 0.00 3.02
277 282 4.582869 TGATCTTCCAATTCCAGTGTCAG 58.417 43.478 0.00 0.00 0.00 3.51
283 296 2.626743 GGGCATGATCTTCCAATTCCAG 59.373 50.000 0.00 0.00 0.00 3.86
285 298 1.966354 GGGGCATGATCTTCCAATTCC 59.034 52.381 0.00 0.00 0.00 3.01
286 299 2.954792 AGGGGCATGATCTTCCAATTC 58.045 47.619 0.00 0.00 0.00 2.17
289 302 2.925966 AAAGGGGCATGATCTTCCAA 57.074 45.000 0.00 0.00 0.00 3.53
328 342 3.119531 TGGCCGCAAAAGAACTATGAATG 60.120 43.478 0.00 0.00 0.00 2.67
335 349 1.904287 TACATGGCCGCAAAAGAACT 58.096 45.000 0.00 0.00 0.00 3.01
336 350 2.939460 ATACATGGCCGCAAAAGAAC 57.061 45.000 0.00 0.00 0.00 3.01
339 353 1.132262 ACGAATACATGGCCGCAAAAG 59.868 47.619 0.00 0.00 0.00 2.27
341 355 1.135546 CAACGAATACATGGCCGCAAA 60.136 47.619 0.00 0.00 0.00 3.68
342 356 0.449786 CAACGAATACATGGCCGCAA 59.550 50.000 0.00 0.00 0.00 4.85
343 357 0.675208 ACAACGAATACATGGCCGCA 60.675 50.000 0.00 0.00 0.00 5.69
345 359 2.911819 AAACAACGAATACATGGCCG 57.088 45.000 0.00 0.00 0.00 6.13
387 402 8.028938 GCAGTAAATGTAAACAATTGATGAGGT 58.971 33.333 13.59 0.00 0.00 3.85
388 403 7.218773 CGCAGTAAATGTAAACAATTGATGAGG 59.781 37.037 13.59 0.00 0.00 3.86
391 411 7.536964 TCACGCAGTAAATGTAAACAATTGATG 59.463 33.333 13.59 0.00 41.61 3.07
410 430 2.084610 TGATCTGGTCTTTCACGCAG 57.915 50.000 0.00 0.00 0.00 5.18
412 432 2.476854 GCAATGATCTGGTCTTTCACGC 60.477 50.000 0.00 0.00 0.00 5.34
413 433 3.005554 AGCAATGATCTGGTCTTTCACG 58.994 45.455 0.00 0.00 0.00 4.35
436 456 8.744652 TCTCTCTCATTTACTCTTTTGTAGGAG 58.255 37.037 0.00 0.00 35.86 3.69
504 536 6.806739 GTGGAAAATAAAGATCGTCCAAAAGG 59.193 38.462 0.00 0.00 36.93 3.11
513 545 4.270325 GGAGTCGGTGGAAAATAAAGATCG 59.730 45.833 0.00 0.00 0.00 3.69
516 548 3.258872 TCGGAGTCGGTGGAAAATAAAGA 59.741 43.478 0.00 0.00 36.95 2.52
537 569 3.303229 CGCGGTGCTTCCAAAAATAAATC 59.697 43.478 0.00 0.00 35.57 2.17
538 570 3.057174 TCGCGGTGCTTCCAAAAATAAAT 60.057 39.130 6.13 0.00 35.57 1.40
558 595 4.225340 CGCTCGACCGGTCTCTCG 62.225 72.222 30.92 24.39 0.00 4.04
585 622 1.659622 CGGGGTTGCCCGGAATTTAC 61.660 60.000 0.73 0.00 46.66 2.01
587 624 2.678580 CGGGGTTGCCCGGAATTT 60.679 61.111 0.73 0.00 46.66 1.82
746 807 1.420514 TGGTTGGTTATTCGTGGTGGA 59.579 47.619 0.00 0.00 0.00 4.02
747 808 1.898902 TGGTTGGTTATTCGTGGTGG 58.101 50.000 0.00 0.00 0.00 4.61
781 842 2.194868 GGGCGGGTAATTGGGGAG 59.805 66.667 0.00 0.00 0.00 4.30
911 974 1.406887 CGATGGTCTCGTGGGGAAAAT 60.407 52.381 0.00 0.00 42.56 1.82
913 976 1.594833 CGATGGTCTCGTGGGGAAA 59.405 57.895 0.00 0.00 42.56 3.13
925 988 1.153369 CGGCCAATCAGACGATGGT 60.153 57.895 2.24 0.00 30.13 3.55
928 991 1.144057 GGTCGGCCAATCAGACGAT 59.856 57.895 0.00 0.00 40.21 3.73
931 994 2.511600 CCGGTCGGCCAATCAGAC 60.512 66.667 6.96 0.56 38.86 3.51
971 1037 3.717294 CTACACCAGCCGCCCCTT 61.717 66.667 0.00 0.00 0.00 3.95
1083 1149 3.291101 GAACGCCCCGTACAGCAGA 62.291 63.158 0.00 0.00 39.99 4.26
1689 1755 1.327690 TGGAGGTGGACGCCATAGTC 61.328 60.000 4.54 0.69 44.69 2.59
1710 1776 0.792640 AGTTGCTCGCTGAATTGTCG 59.207 50.000 0.00 0.00 0.00 4.35
1713 1779 0.239082 TGCAGTTGCTCGCTGAATTG 59.761 50.000 5.62 0.00 42.66 2.32
1775 1841 1.819229 GGCTCTTCCTCGATCAGCA 59.181 57.895 0.00 0.00 0.00 4.41
1902 1968 3.760035 CTGGACCCGTAGCTGCGT 61.760 66.667 22.73 5.14 0.00 5.24
2295 2361 4.719369 GCGCCCGTGTCGAAGAGT 62.719 66.667 0.00 0.00 36.95 3.24
2313 2379 0.108615 CCTCGTCGACCAAGCAGATT 60.109 55.000 10.58 0.00 0.00 2.40
2528 2594 4.917385 AGTGCAAGTATGGAACCATTGTA 58.083 39.130 11.68 2.45 37.82 2.41
2530 2596 4.699735 TGTAGTGCAAGTATGGAACCATTG 59.300 41.667 11.68 6.49 37.82 2.82
2533 2599 4.568072 ATGTAGTGCAAGTATGGAACCA 57.432 40.909 0.00 0.00 0.00 3.67
2538 2604 8.613060 AAATCAGATATGTAGTGCAAGTATGG 57.387 34.615 0.00 0.00 0.00 2.74
2692 2769 2.480224 ATCGCAATCCGCAGAATTTG 57.520 45.000 0.00 0.00 42.60 2.32
2887 2972 1.674441 CATACAGTCTGGCATGCCTTG 59.326 52.381 35.53 27.26 36.94 3.61
2888 2973 2.020694 GCATACAGTCTGGCATGCCTT 61.021 52.381 35.53 16.79 35.32 4.35
2892 2977 2.320745 TCAGCATACAGTCTGGCATG 57.679 50.000 4.53 8.35 0.00 4.06
2893 2978 3.211865 CATTCAGCATACAGTCTGGCAT 58.788 45.455 4.53 0.00 0.00 4.40
2970 3055 2.229792 TGGTTTGTTCAGAGTCATGGC 58.770 47.619 0.00 0.00 0.00 4.40
2971 3056 4.074259 TCATGGTTTGTTCAGAGTCATGG 58.926 43.478 0.00 0.00 33.49 3.66
2972 3057 4.083110 GGTCATGGTTTGTTCAGAGTCATG 60.083 45.833 0.00 0.00 33.83 3.07
2973 3058 4.074970 GGTCATGGTTTGTTCAGAGTCAT 58.925 43.478 0.00 0.00 0.00 3.06
2974 3059 3.136443 AGGTCATGGTTTGTTCAGAGTCA 59.864 43.478 0.00 0.00 0.00 3.41
2981 3066 2.162681 CCAGGAGGTCATGGTTTGTTC 58.837 52.381 2.38 0.00 42.43 3.18
3047 3132 1.544314 GCTTGGCTTGGAGAACAGAGT 60.544 52.381 0.00 0.00 0.00 3.24
3146 3233 6.471233 TCTGATCAGATCGGTAAACTTGAT 57.529 37.500 21.67 0.00 36.98 2.57
3147 3234 5.914898 TCTGATCAGATCGGTAAACTTGA 57.085 39.130 21.67 0.00 36.98 3.02
3218 3309 2.296692 GATTACAGCGCAGGCACACG 62.297 60.000 11.47 0.00 43.41 4.49
3241 3332 1.797635 GCGCAGGAGAATAGATGCTTC 59.202 52.381 0.30 0.00 36.52 3.86
3260 3351 1.202533 ACCTGGATATACGTGTGCAGC 60.203 52.381 0.00 0.00 34.33 5.25
3305 3396 2.095847 AGCGCGCAAATTTGGCATG 61.096 52.632 35.10 10.15 0.00 4.06
3361 3452 3.865745 CACCAGTATCTTCCACGATGTTC 59.134 47.826 0.00 0.00 0.00 3.18
3383 3474 2.890945 ACCAACAAATAAGGCCAGACAC 59.109 45.455 5.01 0.00 0.00 3.67
3436 3527 3.596214 ACACGTACTATCTTTGGCAAGG 58.404 45.455 2.45 2.45 0.00 3.61


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

AutoCloner maintained by Alex Coulton.