Multiple sequence alignment - TraesCS4B01G141500

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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 TraesCS4B01G141500 chr4B 100.000 4424 0 0 1 4424 186610380 186605957 0.000000e+00 8170.0
1 TraesCS4B01G141500 chr4D 94.227 3776 146 28 269 4013 122304404 122300670 0.000000e+00 5699.0
2 TraesCS4B01G141500 chr4D 74.131 1036 251 11 2347 3378 122286441 122285419 3.180000e-111 412.0
3 TraesCS4B01G141500 chr4D 90.558 233 22 0 3781 4013 247161255 247161487 4.300000e-80 309.0
4 TraesCS4B01G141500 chr4D 82.857 315 32 15 4020 4320 122300614 122300308 3.390000e-66 263.0
5 TraesCS4B01G141500 chr4D 81.879 298 34 14 4036 4320 247161566 247161856 2.660000e-57 233.0
6 TraesCS4B01G141500 chr4D 94.161 137 5 1 2 138 434098201 434098068 5.800000e-49 206.0
7 TraesCS4B01G141500 chr4D 85.849 106 5 4 4322 4424 122300254 122300156 2.180000e-18 104.0
8 TraesCS4B01G141500 chr4A 94.600 3685 124 16 361 4013 447776393 447780034 0.000000e+00 5633.0
9 TraesCS4B01G141500 chr4A 81.150 313 30 14 4036 4320 447780113 447780424 1.600000e-54 224.0
10 TraesCS4B01G141500 chr3B 94.591 832 31 7 3594 4424 810362193 810361375 0.000000e+00 1275.0
11 TraesCS4B01G141500 chr3B 89.379 499 52 1 1135 1633 71265542 71265045 1.040000e-175 627.0
12 TraesCS4B01G141500 chr3B 88.800 500 51 2 1135 1630 52169325 52169823 3.780000e-170 608.0
13 TraesCS4B01G141500 chr3B 88.028 284 34 0 1347 1630 245902265 245902548 1.970000e-88 337.0
14 TraesCS4B01G141500 chr3B 100.000 41 0 0 4384 4424 751193717 751193757 4.740000e-10 76.8
15 TraesCS4B01G141500 chr5B 90.524 496 46 1 1135 1630 466422526 466423020 0.000000e+00 654.0
16 TraesCS4B01G141500 chr5B 90.722 194 11 3 3997 4190 49007177 49006991 7.350000e-63 252.0
17 TraesCS4B01G141500 chr5B 92.969 128 2 1 4297 4424 49007000 49006880 3.520000e-41 180.0
18 TraesCS4B01G141500 chr5B 100.000 41 0 0 4384 4424 29490472 29490512 4.740000e-10 76.8
19 TraesCS4B01G141500 chr7B 90.852 317 16 6 4108 4424 85571410 85571107 3.180000e-111 412.0
20 TraesCS4B01G141500 chr7B 89.706 136 14 0 1132 1267 88245330 88245465 1.640000e-39 174.0
21 TraesCS4B01G141500 chrUn 89.787 235 24 0 3779 4013 1734651 1734885 7.190000e-78 302.0
22 TraesCS4B01G141500 chrUn 83.498 303 29 12 4036 4320 1734963 1735262 3.390000e-66 263.0
23 TraesCS4B01G141500 chr2B 94.054 185 6 3 3997 4181 618098440 618098619 4.360000e-70 276.0
24 TraesCS4B01G141500 chr2B 92.969 128 2 1 4297 4424 618098619 618098739 3.520000e-41 180.0
25 TraesCS4B01G141500 chr2D 89.809 157 12 2 2 157 469212283 469212436 9.710000e-47 198.0
26 TraesCS4B01G141500 chr7D 90.780 141 10 1 2 142 501529034 501529171 7.560000e-43 185.0
27 TraesCS4B01G141500 chr7D 87.500 152 16 1 1122 1270 126681746 126681897 5.880000e-39 172.0
28 TraesCS4B01G141500 chr7D 88.971 136 15 0 1135 1270 126507324 126507189 7.610000e-38 169.0
29 TraesCS4B01G141500 chr7D 92.562 121 4 2 2 122 495874522 495874637 7.610000e-38 169.0
30 TraesCS4B01G141500 chr7A 88.816 152 14 1 1122 1270 127607319 127607470 2.720000e-42 183.0
31 TraesCS4B01G141500 chr6B 89.147 129 14 0 3884 4012 17991723 17991595 1.270000e-35 161.0
32 TraesCS4B01G141500 chr6B 86.567 134 10 2 4009 4135 17991549 17991417 1.660000e-29 141.0
33 TraesCS4B01G141500 chr6B 97.826 46 1 0 97 142 668904392 668904437 3.670000e-11 80.5
34 TraesCS4B01G141500 chr6B 96.875 32 1 0 95 126 663118139 663118108 2.000000e-03 54.7
35 TraesCS4B01G141500 chr5A 89.231 130 12 2 3884 4013 149222223 149222350 1.270000e-35 161.0
36 TraesCS4B01G141500 chr3A 85.211 142 18 1 2 143 659990616 659990478 4.610000e-30 143.0
37 TraesCS4B01G141500 chr6D 91.000 100 9 0 3913 4012 9864290 9864389 7.720000e-28 135.0
38 TraesCS4B01G141500 chr1A 96.078 51 2 0 4270 4320 568949157 568949207 2.840000e-12 84.2
39 TraesCS4B01G141500 chr1B 100.000 41 0 0 4384 4424 681540321 681540361 4.740000e-10 76.8
40 TraesCS4B01G141500 chr1B 100.000 39 0 0 4384 4422 89403200 89403238 6.140000e-09 73.1
41 TraesCS4B01G141500 chr1B 100.000 39 0 0 4384 4422 594687575 594687537 6.140000e-09 73.1


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 TraesCS4B01G141500 chr4B 186605957 186610380 4423 True 8170.0 8170 100.000000 1 4424 1 chr4B.!!$R1 4423
1 TraesCS4B01G141500 chr4D 122300156 122304404 4248 True 2022.0 5699 87.644333 269 4424 3 chr4D.!!$R3 4155
2 TraesCS4B01G141500 chr4D 122285419 122286441 1022 True 412.0 412 74.131000 2347 3378 1 chr4D.!!$R1 1031
3 TraesCS4B01G141500 chr4D 247161255 247161856 601 False 271.0 309 86.218500 3781 4320 2 chr4D.!!$F1 539
4 TraesCS4B01G141500 chr4A 447776393 447780424 4031 False 2928.5 5633 87.875000 361 4320 2 chr4A.!!$F1 3959
5 TraesCS4B01G141500 chr3B 810361375 810362193 818 True 1275.0 1275 94.591000 3594 4424 1 chr3B.!!$R2 830
6 TraesCS4B01G141500 chrUn 1734651 1735262 611 False 282.5 302 86.642500 3779 4320 2 chrUn.!!$F1 541

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
87 88 0.030369 ACGTAATCGGATCTGACGGC 59.970 55.0 16.04 5.43 41.85 5.68 F
307 308 0.109873 ACGAACATGAGACGGACGTC 60.110 55.0 16.39 16.39 44.86 4.34 F
878 907 0.111253 CCAAGCTCAAACCACTCCCT 59.889 55.0 0.00 0.00 0.00 4.20 F
1274 1321 0.322546 GACTCCAACACCACCCCATC 60.323 60.0 0.00 0.00 0.00 3.51 F
1887 1952 0.899717 GCATGGAGGAGGCCAACAAA 60.900 55.0 5.01 0.00 42.16 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1825 1890 0.391661 ATGTCCATGTCACCGTCAGC 60.392 55.000 0.0 0.0 0.00 4.26 R
1887 1952 1.412343 GTGTTGTTGGTGGGCAAGAAT 59.588 47.619 0.0 0.0 0.00 2.40 R
2319 2384 0.523757 GCCTGAGTAGCTCGTTCGAC 60.524 60.000 0.0 0.0 32.35 4.20 R
3126 3191 0.108585 GGCCAAAGATATCCCGCTCA 59.891 55.000 0.0 0.0 0.00 4.26 R
3581 3646 1.271762 ACACTACTCTGCGTCCCTACA 60.272 52.381 0.0 0.0 0.00 2.74 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
17 18 3.298958 TAAGGGTGCTGCGAGAGG 58.701 61.111 0.00 0.00 0.00 3.69
18 19 1.304962 TAAGGGTGCTGCGAGAGGA 60.305 57.895 0.00 0.00 0.00 3.71
19 20 0.902984 TAAGGGTGCTGCGAGAGGAA 60.903 55.000 0.00 0.00 0.00 3.36
20 21 2.125350 GGGTGCTGCGAGAGGAAG 60.125 66.667 0.00 0.00 0.00 3.46
21 22 2.650116 GGGTGCTGCGAGAGGAAGA 61.650 63.158 0.00 0.00 0.00 2.87
22 23 1.293498 GGTGCTGCGAGAGGAAGAA 59.707 57.895 0.00 0.00 0.00 2.52
23 24 0.739112 GGTGCTGCGAGAGGAAGAAG 60.739 60.000 0.00 0.00 0.00 2.85
24 25 0.739112 GTGCTGCGAGAGGAAGAAGG 60.739 60.000 0.00 0.00 0.00 3.46
25 26 1.153469 GCTGCGAGAGGAAGAAGGG 60.153 63.158 0.00 0.00 0.00 3.95
26 27 1.608717 GCTGCGAGAGGAAGAAGGGA 61.609 60.000 0.00 0.00 0.00 4.20
27 28 0.459489 CTGCGAGAGGAAGAAGGGAG 59.541 60.000 0.00 0.00 0.00 4.30
28 29 1.142965 GCGAGAGGAAGAAGGGAGC 59.857 63.158 0.00 0.00 0.00 4.70
29 30 1.326951 GCGAGAGGAAGAAGGGAGCT 61.327 60.000 0.00 0.00 0.00 4.09
30 31 0.459489 CGAGAGGAAGAAGGGAGCTG 59.541 60.000 0.00 0.00 0.00 4.24
31 32 0.829990 GAGAGGAAGAAGGGAGCTGG 59.170 60.000 0.00 0.00 0.00 4.85
32 33 0.620121 AGAGGAAGAAGGGAGCTGGG 60.620 60.000 0.00 0.00 0.00 4.45
33 34 0.618968 GAGGAAGAAGGGAGCTGGGA 60.619 60.000 0.00 0.00 0.00 4.37
34 35 0.912006 AGGAAGAAGGGAGCTGGGAC 60.912 60.000 0.00 0.00 0.00 4.46
35 36 1.219393 GAAGAAGGGAGCTGGGACG 59.781 63.158 0.00 0.00 0.00 4.79
36 37 1.229209 AAGAAGGGAGCTGGGACGA 60.229 57.895 0.00 0.00 0.00 4.20
37 38 0.836400 AAGAAGGGAGCTGGGACGAA 60.836 55.000 0.00 0.00 0.00 3.85
38 39 1.079057 GAAGGGAGCTGGGACGAAC 60.079 63.158 0.00 0.00 0.00 3.95
39 40 2.523453 GAAGGGAGCTGGGACGAACC 62.523 65.000 0.00 0.00 38.08 3.62
40 41 4.452733 GGGAGCTGGGACGAACCG 62.453 72.222 0.00 0.00 40.11 4.44
41 42 3.692406 GGAGCTGGGACGAACCGT 61.692 66.667 0.00 0.00 45.10 4.83
42 43 2.432628 GAGCTGGGACGAACCGTG 60.433 66.667 0.00 0.00 41.37 4.94
43 44 3.222354 GAGCTGGGACGAACCGTGT 62.222 63.158 0.00 0.00 41.37 4.49
44 45 2.280592 GCTGGGACGAACCGTGTT 60.281 61.111 0.00 0.00 41.37 3.32
45 46 1.890510 GCTGGGACGAACCGTGTTT 60.891 57.895 0.00 0.00 41.37 2.83
46 47 0.600782 GCTGGGACGAACCGTGTTTA 60.601 55.000 0.00 0.00 41.37 2.01
47 48 1.142474 CTGGGACGAACCGTGTTTAC 58.858 55.000 0.00 0.00 41.37 2.01
48 49 0.249826 TGGGACGAACCGTGTTTACC 60.250 55.000 0.00 0.00 41.37 2.85
49 50 0.033920 GGGACGAACCGTGTTTACCT 59.966 55.000 0.00 0.00 41.37 3.08
50 51 1.142474 GGACGAACCGTGTTTACCTG 58.858 55.000 0.00 0.00 41.37 4.00
51 52 1.142474 GACGAACCGTGTTTACCTGG 58.858 55.000 0.00 0.00 41.37 4.45
52 53 0.752054 ACGAACCGTGTTTACCTGGA 59.248 50.000 0.00 0.00 39.18 3.86
53 54 1.345415 ACGAACCGTGTTTACCTGGAT 59.655 47.619 0.00 0.00 39.18 3.41
54 55 1.997606 CGAACCGTGTTTACCTGGATC 59.002 52.381 0.00 0.00 0.00 3.36
55 56 2.353406 CGAACCGTGTTTACCTGGATCT 60.353 50.000 0.00 0.00 0.00 2.75
56 57 2.762535 ACCGTGTTTACCTGGATCTG 57.237 50.000 0.00 0.00 0.00 2.90
57 58 2.253610 ACCGTGTTTACCTGGATCTGA 58.746 47.619 0.00 0.00 0.00 3.27
58 59 2.028385 ACCGTGTTTACCTGGATCTGAC 60.028 50.000 0.00 0.00 0.00 3.51
59 60 2.259618 CGTGTTTACCTGGATCTGACG 58.740 52.381 0.00 0.00 0.00 4.35
60 61 2.094906 CGTGTTTACCTGGATCTGACGA 60.095 50.000 0.00 0.00 0.00 4.20
61 62 3.428999 CGTGTTTACCTGGATCTGACGAT 60.429 47.826 0.00 0.00 0.00 3.73
62 63 3.865745 GTGTTTACCTGGATCTGACGATG 59.134 47.826 0.00 0.00 0.00 3.84
63 64 3.118775 TGTTTACCTGGATCTGACGATGG 60.119 47.826 0.00 0.00 0.00 3.51
64 65 2.454336 TACCTGGATCTGACGATGGT 57.546 50.000 0.00 0.00 30.91 3.55
65 66 1.115467 ACCTGGATCTGACGATGGTC 58.885 55.000 0.00 0.12 43.71 4.02
66 67 1.342474 ACCTGGATCTGACGATGGTCT 60.342 52.381 9.41 0.00 43.79 3.85
67 68 2.091830 ACCTGGATCTGACGATGGTCTA 60.092 50.000 9.41 0.00 43.79 2.59
68 69 2.959030 CCTGGATCTGACGATGGTCTAA 59.041 50.000 9.41 0.00 43.79 2.10
69 70 3.243569 CCTGGATCTGACGATGGTCTAAC 60.244 52.174 9.41 0.00 43.79 2.34
70 71 2.357952 TGGATCTGACGATGGTCTAACG 59.642 50.000 9.41 0.00 43.79 3.18
71 72 2.358267 GGATCTGACGATGGTCTAACGT 59.642 50.000 9.41 0.00 43.79 3.99
72 73 3.562973 GGATCTGACGATGGTCTAACGTA 59.437 47.826 9.41 0.00 43.79 3.57
73 74 4.036027 GGATCTGACGATGGTCTAACGTAA 59.964 45.833 9.41 0.00 43.79 3.18
74 75 5.278364 GGATCTGACGATGGTCTAACGTAAT 60.278 44.000 9.41 0.00 43.79 1.89
75 76 5.165911 TCTGACGATGGTCTAACGTAATC 57.834 43.478 9.41 0.00 43.79 1.75
76 77 3.943958 TGACGATGGTCTAACGTAATCG 58.056 45.455 9.41 0.32 43.79 3.34
77 78 3.242837 TGACGATGGTCTAACGTAATCGG 60.243 47.826 9.41 0.00 43.28 4.18
78 79 2.945008 ACGATGGTCTAACGTAATCGGA 59.055 45.455 14.05 0.00 43.28 4.55
79 80 3.567164 ACGATGGTCTAACGTAATCGGAT 59.433 43.478 14.05 0.00 43.28 4.18
80 81 4.156915 CGATGGTCTAACGTAATCGGATC 58.843 47.826 0.00 0.00 41.85 3.36
81 82 4.083431 CGATGGTCTAACGTAATCGGATCT 60.083 45.833 0.00 0.00 41.85 2.75
82 83 4.563337 TGGTCTAACGTAATCGGATCTG 57.437 45.455 0.00 0.00 41.85 2.90
83 84 4.201657 TGGTCTAACGTAATCGGATCTGA 58.798 43.478 6.72 6.72 41.85 3.27
84 85 4.036027 TGGTCTAACGTAATCGGATCTGAC 59.964 45.833 6.33 0.00 41.85 3.51
85 86 4.209870 GTCTAACGTAATCGGATCTGACG 58.790 47.826 6.33 9.49 41.85 4.35
86 87 2.486951 AACGTAATCGGATCTGACGG 57.513 50.000 16.04 5.60 41.85 4.79
87 88 0.030369 ACGTAATCGGATCTGACGGC 59.970 55.000 16.04 5.43 41.85 5.68
88 89 0.663568 CGTAATCGGATCTGACGGCC 60.664 60.000 6.33 0.00 0.00 6.13
89 90 0.674534 GTAATCGGATCTGACGGCCT 59.325 55.000 6.33 0.00 0.00 5.19
90 91 0.673985 TAATCGGATCTGACGGCCTG 59.326 55.000 6.33 0.00 0.00 4.85
91 92 2.650813 AATCGGATCTGACGGCCTGC 62.651 60.000 6.33 0.00 0.00 4.85
112 113 3.550992 CGACCGGCCGAATCGTTG 61.551 66.667 31.52 20.18 0.00 4.10
113 114 3.192922 GACCGGCCGAATCGTTGG 61.193 66.667 30.73 9.82 0.00 3.77
114 115 4.770874 ACCGGCCGAATCGTTGGG 62.771 66.667 30.73 8.96 0.00 4.12
138 139 2.887568 CGCCGGCACAGATCAGTC 60.888 66.667 28.98 0.00 0.00 3.51
139 140 2.512515 GCCGGCACAGATCAGTCC 60.513 66.667 24.80 0.00 0.00 3.85
140 141 2.187946 CCGGCACAGATCAGTCCC 59.812 66.667 0.00 0.00 0.00 4.46
141 142 2.187946 CGGCACAGATCAGTCCCC 59.812 66.667 0.00 0.00 0.00 4.81
142 143 2.362369 CGGCACAGATCAGTCCCCT 61.362 63.158 0.00 0.00 0.00 4.79
143 144 1.903877 CGGCACAGATCAGTCCCCTT 61.904 60.000 0.00 0.00 0.00 3.95
144 145 0.329596 GGCACAGATCAGTCCCCTTT 59.670 55.000 0.00 0.00 0.00 3.11
145 146 1.272147 GGCACAGATCAGTCCCCTTTT 60.272 52.381 0.00 0.00 0.00 2.27
146 147 2.519013 GCACAGATCAGTCCCCTTTTT 58.481 47.619 0.00 0.00 0.00 1.94
213 214 9.904198 TCTAATCAAGATTGTATGAAATGACCA 57.096 29.630 5.59 0.00 32.50 4.02
240 241 9.921637 AAATAATAAATTGATCACACAAACGGT 57.078 25.926 0.00 0.00 33.44 4.83
241 242 9.567848 AATAATAAATTGATCACACAAACGGTC 57.432 29.630 0.00 0.00 33.44 4.79
242 243 4.909696 AAATTGATCACACAAACGGTCA 57.090 36.364 0.00 0.00 33.44 4.02
243 244 4.488126 AATTGATCACACAAACGGTCAG 57.512 40.909 0.00 0.00 33.44 3.51
244 245 2.900716 TGATCACACAAACGGTCAGA 57.099 45.000 0.00 0.00 0.00 3.27
245 246 2.754472 TGATCACACAAACGGTCAGAG 58.246 47.619 0.00 0.00 0.00 3.35
246 247 1.461127 GATCACACAAACGGTCAGAGC 59.539 52.381 0.00 0.00 0.00 4.09
247 248 0.874175 TCACACAAACGGTCAGAGCG 60.874 55.000 20.32 20.32 45.69 5.03
248 249 1.594293 ACACAAACGGTCAGAGCGG 60.594 57.895 25.02 10.67 44.33 5.52
249 250 1.300620 CACAAACGGTCAGAGCGGA 60.301 57.895 25.02 0.00 44.33 5.54
250 251 1.300697 ACAAACGGTCAGAGCGGAC 60.301 57.895 25.02 0.00 44.33 4.79
257 258 3.532896 GTCAGAGCGGACCAAATGA 57.467 52.632 0.00 0.00 0.00 2.57
258 259 1.808411 GTCAGAGCGGACCAAATGAA 58.192 50.000 0.00 0.00 0.00 2.57
259 260 2.359900 GTCAGAGCGGACCAAATGAAT 58.640 47.619 0.00 0.00 0.00 2.57
260 261 2.352960 GTCAGAGCGGACCAAATGAATC 59.647 50.000 0.00 0.00 0.00 2.52
261 262 2.027285 TCAGAGCGGACCAAATGAATCA 60.027 45.455 0.00 0.00 0.00 2.57
262 263 2.096496 CAGAGCGGACCAAATGAATCAC 59.904 50.000 0.00 0.00 0.00 3.06
263 264 1.401905 GAGCGGACCAAATGAATCACC 59.598 52.381 0.00 0.00 0.00 4.02
264 265 0.455815 GCGGACCAAATGAATCACCC 59.544 55.000 0.00 0.00 0.00 4.61
265 266 1.102978 CGGACCAAATGAATCACCCC 58.897 55.000 0.00 0.00 0.00 4.95
266 267 1.102978 GGACCAAATGAATCACCCCG 58.897 55.000 0.00 0.00 0.00 5.73
267 268 1.615919 GGACCAAATGAATCACCCCGT 60.616 52.381 0.00 0.00 0.00 5.28
307 308 0.109873 ACGAACATGAGACGGACGTC 60.110 55.000 16.39 16.39 44.86 4.34
336 337 3.670625 TCACCCAACCAGATAAAAGACG 58.329 45.455 0.00 0.00 0.00 4.18
368 369 1.595929 TTCGTTTGGGTCGGTCAGC 60.596 57.895 0.00 0.00 0.00 4.26
372 373 0.321653 GTTTGGGTCGGTCAGCTGAT 60.322 55.000 21.47 0.00 31.86 2.90
449 450 6.476706 ACTCATTGCAAAGCTTTTTCAAGTAC 59.523 34.615 21.19 0.00 31.86 2.73
450 451 6.572519 TCATTGCAAAGCTTTTTCAAGTACT 58.427 32.000 21.19 8.46 31.86 2.73
451 452 7.711846 TCATTGCAAAGCTTTTTCAAGTACTA 58.288 30.769 21.19 5.57 31.86 1.82
452 453 8.359642 TCATTGCAAAGCTTTTTCAAGTACTAT 58.640 29.630 21.19 7.69 31.86 2.12
453 454 8.642020 CATTGCAAAGCTTTTTCAAGTACTATC 58.358 33.333 21.19 0.00 31.86 2.08
454 455 7.510549 TGCAAAGCTTTTTCAAGTACTATCT 57.489 32.000 9.53 0.00 31.86 1.98
508 510 2.237751 GCTAACATGGCGCGACGAT 61.238 57.895 12.10 0.00 0.00 3.73
632 641 1.678970 AACGGCCCAGATGAAAGCC 60.679 57.895 0.00 0.00 42.18 4.35
635 644 1.660560 CGGCCCAGATGAAAGCCAAG 61.661 60.000 0.00 0.00 46.08 3.61
715 732 3.126225 GAGCGTCGTCCTCGTCCT 61.126 66.667 0.00 0.00 38.33 3.85
716 733 3.098377 GAGCGTCGTCCTCGTCCTC 62.098 68.421 0.00 0.00 38.33 3.71
717 734 4.517703 GCGTCGTCCTCGTCCTCG 62.518 72.222 0.00 0.00 38.33 4.63
718 735 3.117171 CGTCGTCCTCGTCCTCGT 61.117 66.667 0.00 0.00 38.33 4.18
719 736 2.783935 GTCGTCCTCGTCCTCGTC 59.216 66.667 0.00 0.00 38.33 4.20
720 737 2.435586 TCGTCCTCGTCCTCGTCC 60.436 66.667 0.00 0.00 38.33 4.79
731 748 2.444256 CCTCGTCCCATCCCTTCCC 61.444 68.421 0.00 0.00 0.00 3.97
878 907 0.111253 CCAAGCTCAAACCACTCCCT 59.889 55.000 0.00 0.00 0.00 4.20
903 933 3.820557 TCCATTTTATAGCCCAGCTCAC 58.179 45.455 0.00 0.00 40.44 3.51
905 935 2.729028 TTTTATAGCCCAGCTCACCC 57.271 50.000 0.00 0.00 40.44 4.61
906 936 1.893315 TTTATAGCCCAGCTCACCCT 58.107 50.000 0.00 0.00 40.44 4.34
1050 1097 4.144703 GGGGACTTCCTCGCCGAC 62.145 72.222 0.00 0.00 41.89 4.79
1200 1247 5.391736 CGACGACAAGTTCTTCTACCAGTAT 60.392 44.000 0.00 0.00 0.00 2.12
1265 1312 2.428890 AGATCATCTCCGACTCCAACAC 59.571 50.000 0.00 0.00 0.00 3.32
1266 1313 0.895530 TCATCTCCGACTCCAACACC 59.104 55.000 0.00 0.00 0.00 4.16
1267 1314 0.608130 CATCTCCGACTCCAACACCA 59.392 55.000 0.00 0.00 0.00 4.17
1268 1315 0.608640 ATCTCCGACTCCAACACCAC 59.391 55.000 0.00 0.00 0.00 4.16
1269 1316 1.004918 CTCCGACTCCAACACCACC 60.005 63.158 0.00 0.00 0.00 4.61
1270 1317 2.032071 CCGACTCCAACACCACCC 59.968 66.667 0.00 0.00 0.00 4.61
1271 1318 2.032071 CGACTCCAACACCACCCC 59.968 66.667 0.00 0.00 0.00 4.95
1272 1319 2.813726 CGACTCCAACACCACCCCA 61.814 63.158 0.00 0.00 0.00 4.96
1273 1320 1.767692 GACTCCAACACCACCCCAT 59.232 57.895 0.00 0.00 0.00 4.00
1274 1321 0.322546 GACTCCAACACCACCCCATC 60.323 60.000 0.00 0.00 0.00 3.51
1275 1322 1.000896 CTCCAACACCACCCCATCC 60.001 63.158 0.00 0.00 0.00 3.51
1276 1323 1.776293 TCCAACACCACCCCATCCA 60.776 57.895 0.00 0.00 0.00 3.41
1297 1347 3.509137 GACGACTCCGCCAACACCA 62.509 63.158 0.00 0.00 39.95 4.17
1345 1395 4.147449 CTGCCACCGCCAGATCGA 62.147 66.667 0.00 0.00 0.00 3.59
1512 1565 2.618427 ATCTCTCCCAGCCCCTCCAG 62.618 65.000 0.00 0.00 0.00 3.86
1524 1577 1.843376 CCTCCAGTCCCGGCCATAT 60.843 63.158 2.24 0.00 0.00 1.78
1579 1632 1.592223 CTCCTCTTTTCCGGCGTCT 59.408 57.895 6.01 0.00 0.00 4.18
1609 1662 2.279252 CGGGATACTTCGGGCACG 60.279 66.667 0.00 0.00 42.74 5.34
1696 1749 1.138247 GGCATTCAGAGCTTTGCGG 59.862 57.895 0.00 0.00 35.95 5.69
1825 1890 1.676967 GCCTTCTTCAGTGGCCAGG 60.677 63.158 5.11 1.35 40.71 4.45
1887 1952 0.899717 GCATGGAGGAGGCCAACAAA 60.900 55.000 5.01 0.00 42.16 2.83
2016 2081 2.119029 GTTCAGTAATGGCCGGGGC 61.119 63.158 14.65 14.65 41.06 5.80
2118 2183 2.032860 CTGGGGTAGGCGAGATGGTG 62.033 65.000 0.00 0.00 0.00 4.17
2358 2423 3.691118 GGCAGATTAAGCAACACTCATCA 59.309 43.478 0.00 0.00 0.00 3.07
2817 2882 2.040012 TGGTATACCCGCAAAGTTGGAA 59.960 45.455 19.42 0.00 35.15 3.53
2957 3022 1.765314 CCCCAGAGACATGGTCCTTAG 59.235 57.143 0.00 0.00 38.81 2.18
3126 3191 2.125512 GACGACCGGCTGCTCATT 60.126 61.111 0.00 0.00 0.00 2.57
3141 3206 3.406764 GCTCATTGAGCGGGATATCTTT 58.593 45.455 21.99 0.00 45.85 2.52
3369 3434 4.295199 GGGTGGAAAGGGCGGGTT 62.295 66.667 0.00 0.00 0.00 4.11
3581 3646 6.489022 GGGCGGAACTTTTATGGTAGAAATAT 59.511 38.462 0.00 0.00 0.00 1.28
3881 3948 4.236935 CAATAAAGTTGCATTGGTCGCTT 58.763 39.130 0.00 0.00 0.00 4.68
3891 3958 3.987220 GCATTGGTCGCTTACATTGTTTT 59.013 39.130 0.00 0.00 0.00 2.43
4007 4074 8.114290 CAGCGTCACGATTTGTATATTTAAAGT 58.886 33.333 0.00 0.00 0.00 2.66
4137 4274 0.761187 AGCAAGAGAGTTGCACTCCA 59.239 50.000 12.00 0.00 46.18 3.86
4377 4583 1.104577 TCCTTGTGTTCCAAACGGCC 61.105 55.000 0.00 0.00 31.20 6.13
4378 4584 1.362355 CTTGTGTTCCAAACGGCCC 59.638 57.895 0.00 0.00 31.20 5.80
4379 4585 1.379977 TTGTGTTCCAAACGGCCCA 60.380 52.632 0.00 0.00 0.00 5.36
4380 4586 0.970937 TTGTGTTCCAAACGGCCCAA 60.971 50.000 0.00 0.00 0.00 4.12
4381 4587 0.757188 TGTGTTCCAAACGGCCCAAT 60.757 50.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.902984 TTCCTCTCGCAGCACCCTTA 60.903 55.000 0.00 0.00 0.00 2.69
1 2 2.177594 CTTCCTCTCGCAGCACCCTT 62.178 60.000 0.00 0.00 0.00 3.95
2 3 2.604686 TTCCTCTCGCAGCACCCT 60.605 61.111 0.00 0.00 0.00 4.34
3 4 2.125350 CTTCCTCTCGCAGCACCC 60.125 66.667 0.00 0.00 0.00 4.61
4 5 0.739112 CTTCTTCCTCTCGCAGCACC 60.739 60.000 0.00 0.00 0.00 5.01
5 6 0.739112 CCTTCTTCCTCTCGCAGCAC 60.739 60.000 0.00 0.00 0.00 4.40
6 7 1.593787 CCTTCTTCCTCTCGCAGCA 59.406 57.895 0.00 0.00 0.00 4.41
7 8 1.153469 CCCTTCTTCCTCTCGCAGC 60.153 63.158 0.00 0.00 0.00 5.25
8 9 0.459489 CTCCCTTCTTCCTCTCGCAG 59.541 60.000 0.00 0.00 0.00 5.18
9 10 1.608717 GCTCCCTTCTTCCTCTCGCA 61.609 60.000 0.00 0.00 0.00 5.10
10 11 1.142965 GCTCCCTTCTTCCTCTCGC 59.857 63.158 0.00 0.00 0.00 5.03
11 12 0.459489 CAGCTCCCTTCTTCCTCTCG 59.541 60.000 0.00 0.00 0.00 4.04
12 13 0.829990 CCAGCTCCCTTCTTCCTCTC 59.170 60.000 0.00 0.00 0.00 3.20
13 14 0.620121 CCCAGCTCCCTTCTTCCTCT 60.620 60.000 0.00 0.00 0.00 3.69
14 15 0.618968 TCCCAGCTCCCTTCTTCCTC 60.619 60.000 0.00 0.00 0.00 3.71
15 16 0.912006 GTCCCAGCTCCCTTCTTCCT 60.912 60.000 0.00 0.00 0.00 3.36
16 17 1.604915 GTCCCAGCTCCCTTCTTCC 59.395 63.158 0.00 0.00 0.00 3.46
17 18 1.219393 CGTCCCAGCTCCCTTCTTC 59.781 63.158 0.00 0.00 0.00 2.87
18 19 0.836400 TTCGTCCCAGCTCCCTTCTT 60.836 55.000 0.00 0.00 0.00 2.52
19 20 1.229209 TTCGTCCCAGCTCCCTTCT 60.229 57.895 0.00 0.00 0.00 2.85
20 21 1.079057 GTTCGTCCCAGCTCCCTTC 60.079 63.158 0.00 0.00 0.00 3.46
21 22 2.593956 GGTTCGTCCCAGCTCCCTT 61.594 63.158 0.00 0.00 0.00 3.95
22 23 3.003763 GGTTCGTCCCAGCTCCCT 61.004 66.667 0.00 0.00 0.00 4.20
23 24 4.452733 CGGTTCGTCCCAGCTCCC 62.453 72.222 0.00 0.00 0.00 4.30
24 25 3.692406 ACGGTTCGTCCCAGCTCC 61.692 66.667 0.00 0.00 33.69 4.70
25 26 2.432628 CACGGTTCGTCCCAGCTC 60.433 66.667 0.00 0.00 38.32 4.09
26 27 2.319890 AAACACGGTTCGTCCCAGCT 62.320 55.000 0.00 0.00 38.32 4.24
27 28 0.600782 TAAACACGGTTCGTCCCAGC 60.601 55.000 0.00 0.00 38.32 4.85
28 29 1.142474 GTAAACACGGTTCGTCCCAG 58.858 55.000 0.00 0.00 38.32 4.45
29 30 0.249826 GGTAAACACGGTTCGTCCCA 60.250 55.000 0.00 0.00 38.32 4.37
30 31 0.033920 AGGTAAACACGGTTCGTCCC 59.966 55.000 0.00 0.00 38.32 4.46
31 32 1.142474 CAGGTAAACACGGTTCGTCC 58.858 55.000 0.00 0.00 38.32 4.79
32 33 1.142474 CCAGGTAAACACGGTTCGTC 58.858 55.000 0.00 0.00 38.32 4.20
33 34 0.752054 TCCAGGTAAACACGGTTCGT 59.248 50.000 0.00 0.00 42.36 3.85
34 35 1.997606 GATCCAGGTAAACACGGTTCG 59.002 52.381 0.00 0.00 0.00 3.95
35 36 3.000727 CAGATCCAGGTAAACACGGTTC 58.999 50.000 0.00 0.00 0.00 3.62
36 37 2.635915 TCAGATCCAGGTAAACACGGTT 59.364 45.455 0.00 0.00 0.00 4.44
37 38 2.028385 GTCAGATCCAGGTAAACACGGT 60.028 50.000 0.00 0.00 0.00 4.83
38 39 2.618053 GTCAGATCCAGGTAAACACGG 58.382 52.381 0.00 0.00 0.00 4.94
39 40 2.094906 TCGTCAGATCCAGGTAAACACG 60.095 50.000 0.00 0.00 0.00 4.49
40 41 3.587797 TCGTCAGATCCAGGTAAACAC 57.412 47.619 0.00 0.00 0.00 3.32
41 42 3.118775 CCATCGTCAGATCCAGGTAAACA 60.119 47.826 0.00 0.00 34.23 2.83
42 43 3.118738 ACCATCGTCAGATCCAGGTAAAC 60.119 47.826 0.00 0.00 34.23 2.01
43 44 3.104512 ACCATCGTCAGATCCAGGTAAA 58.895 45.455 0.00 0.00 34.23 2.01
44 45 2.693591 GACCATCGTCAGATCCAGGTAA 59.306 50.000 0.00 0.00 38.99 2.85
45 46 2.091830 AGACCATCGTCAGATCCAGGTA 60.092 50.000 0.00 0.00 41.87 3.08
46 47 1.115467 GACCATCGTCAGATCCAGGT 58.885 55.000 0.00 0.00 38.99 4.00
47 48 1.407936 AGACCATCGTCAGATCCAGG 58.592 55.000 0.00 0.00 41.87 4.45
48 49 3.549019 CGTTAGACCATCGTCAGATCCAG 60.549 52.174 0.00 0.00 41.87 3.86
49 50 2.357952 CGTTAGACCATCGTCAGATCCA 59.642 50.000 0.00 0.00 41.87 3.41
50 51 2.358267 ACGTTAGACCATCGTCAGATCC 59.642 50.000 0.00 0.00 41.87 3.36
51 52 3.694535 ACGTTAGACCATCGTCAGATC 57.305 47.619 0.00 0.00 41.87 2.75
52 53 5.560375 CGATTACGTTAGACCATCGTCAGAT 60.560 44.000 0.00 0.00 38.69 2.90
53 54 4.260497 CGATTACGTTAGACCATCGTCAGA 60.260 45.833 0.00 0.00 38.69 3.27
54 55 3.966844 CGATTACGTTAGACCATCGTCAG 59.033 47.826 0.00 0.00 38.69 3.51
55 56 3.242837 CCGATTACGTTAGACCATCGTCA 60.243 47.826 0.00 0.00 38.47 4.35
56 57 3.002656 TCCGATTACGTTAGACCATCGTC 59.997 47.826 0.00 0.00 38.69 4.20
57 58 2.945008 TCCGATTACGTTAGACCATCGT 59.055 45.455 0.00 0.00 40.78 3.73
58 59 3.614159 TCCGATTACGTTAGACCATCG 57.386 47.619 0.00 0.00 37.16 3.84
59 60 5.048921 TCAGATCCGATTACGTTAGACCATC 60.049 44.000 0.00 0.00 37.88 3.51
60 61 4.825634 TCAGATCCGATTACGTTAGACCAT 59.174 41.667 0.00 0.00 37.88 3.55
61 62 4.036027 GTCAGATCCGATTACGTTAGACCA 59.964 45.833 0.00 0.00 37.88 4.02
62 63 4.535116 GTCAGATCCGATTACGTTAGACC 58.465 47.826 0.00 0.00 37.88 3.85
63 64 4.209870 CGTCAGATCCGATTACGTTAGAC 58.790 47.826 0.00 0.00 37.88 2.59
64 65 3.249320 CCGTCAGATCCGATTACGTTAGA 59.751 47.826 0.00 0.00 37.88 2.10
65 66 3.552541 CCGTCAGATCCGATTACGTTAG 58.447 50.000 0.00 0.00 37.88 2.34
66 67 2.287188 GCCGTCAGATCCGATTACGTTA 60.287 50.000 0.00 0.00 37.88 3.18
67 68 1.535437 GCCGTCAGATCCGATTACGTT 60.535 52.381 0.00 0.00 37.88 3.99
68 69 0.030369 GCCGTCAGATCCGATTACGT 59.970 55.000 0.00 0.00 37.88 3.57
69 70 0.663568 GGCCGTCAGATCCGATTACG 60.664 60.000 0.00 0.00 39.43 3.18
70 71 0.674534 AGGCCGTCAGATCCGATTAC 59.325 55.000 0.00 0.00 0.00 1.89
71 72 0.673985 CAGGCCGTCAGATCCGATTA 59.326 55.000 0.00 0.00 0.00 1.75
72 73 1.443407 CAGGCCGTCAGATCCGATT 59.557 57.895 0.00 0.00 0.00 3.34
73 74 3.133014 CAGGCCGTCAGATCCGAT 58.867 61.111 0.00 0.00 0.00 4.18
74 75 3.838271 GCAGGCCGTCAGATCCGA 61.838 66.667 0.00 0.00 0.00 4.55
95 96 3.550992 CAACGATTCGGCCGGTCG 61.551 66.667 35.46 35.46 40.91 4.79
96 97 3.192922 CCAACGATTCGGCCGGTC 61.193 66.667 27.83 21.93 0.00 4.79
97 98 4.770874 CCCAACGATTCGGCCGGT 62.771 66.667 27.83 15.14 0.00 5.28
121 122 2.887568 GACTGATCTGTGCCGGCG 60.888 66.667 23.90 7.87 0.00 6.46
122 123 2.512515 GGACTGATCTGTGCCGGC 60.513 66.667 22.73 22.73 0.00 6.13
123 124 2.187946 GGGACTGATCTGTGCCGG 59.812 66.667 23.86 0.00 38.60 6.13
125 126 0.329596 AAAGGGGACTGATCTGTGCC 59.670 55.000 28.16 28.16 45.95 5.01
126 127 2.206576 AAAAGGGGACTGATCTGTGC 57.793 50.000 14.65 14.65 42.68 4.57
187 188 9.904198 TGGTCATTTCATACAATCTTGATTAGA 57.096 29.630 0.00 0.00 37.28 2.10
214 215 9.921637 ACCGTTTGTGTGATCAATTTATTATTT 57.078 25.926 0.00 0.00 0.00 1.40
215 216 9.567848 GACCGTTTGTGTGATCAATTTATTATT 57.432 29.630 0.00 0.00 0.00 1.40
216 217 8.735315 TGACCGTTTGTGTGATCAATTTATTAT 58.265 29.630 0.00 0.00 0.00 1.28
217 218 8.100508 TGACCGTTTGTGTGATCAATTTATTA 57.899 30.769 0.00 0.00 0.00 0.98
218 219 6.976088 TGACCGTTTGTGTGATCAATTTATT 58.024 32.000 0.00 0.00 0.00 1.40
219 220 6.429692 TCTGACCGTTTGTGTGATCAATTTAT 59.570 34.615 0.00 0.00 0.00 1.40
220 221 5.760743 TCTGACCGTTTGTGTGATCAATTTA 59.239 36.000 0.00 0.00 0.00 1.40
221 222 4.578516 TCTGACCGTTTGTGTGATCAATTT 59.421 37.500 0.00 0.00 0.00 1.82
222 223 4.133820 TCTGACCGTTTGTGTGATCAATT 58.866 39.130 0.00 0.00 0.00 2.32
223 224 3.738982 TCTGACCGTTTGTGTGATCAAT 58.261 40.909 0.00 0.00 0.00 2.57
224 225 3.130633 CTCTGACCGTTTGTGTGATCAA 58.869 45.455 0.00 0.00 0.00 2.57
225 226 2.754472 CTCTGACCGTTTGTGTGATCA 58.246 47.619 0.00 0.00 0.00 2.92
226 227 1.461127 GCTCTGACCGTTTGTGTGATC 59.539 52.381 0.00 0.00 0.00 2.92
227 228 1.512926 GCTCTGACCGTTTGTGTGAT 58.487 50.000 0.00 0.00 0.00 3.06
228 229 0.874175 CGCTCTGACCGTTTGTGTGA 60.874 55.000 0.00 0.00 0.00 3.58
229 230 1.564622 CGCTCTGACCGTTTGTGTG 59.435 57.895 0.00 0.00 0.00 3.82
230 231 1.594293 CCGCTCTGACCGTTTGTGT 60.594 57.895 0.00 0.00 0.00 3.72
231 232 1.300620 TCCGCTCTGACCGTTTGTG 60.301 57.895 0.00 0.00 0.00 3.33
232 233 1.300697 GTCCGCTCTGACCGTTTGT 60.301 57.895 0.00 0.00 0.00 2.83
233 234 2.027625 GGTCCGCTCTGACCGTTTG 61.028 63.158 1.78 0.00 44.98 2.93
234 235 2.342648 GGTCCGCTCTGACCGTTT 59.657 61.111 1.78 0.00 44.98 3.60
239 240 1.808411 TTCATTTGGTCCGCTCTGAC 58.192 50.000 0.00 0.00 34.42 3.51
240 241 2.027285 TGATTCATTTGGTCCGCTCTGA 60.027 45.455 0.00 0.00 0.00 3.27
241 242 2.096496 GTGATTCATTTGGTCCGCTCTG 59.904 50.000 0.00 0.00 0.00 3.35
242 243 2.359900 GTGATTCATTTGGTCCGCTCT 58.640 47.619 0.00 0.00 0.00 4.09
243 244 1.401905 GGTGATTCATTTGGTCCGCTC 59.598 52.381 0.00 0.00 0.00 5.03
244 245 1.463674 GGTGATTCATTTGGTCCGCT 58.536 50.000 0.00 0.00 0.00 5.52
245 246 0.455815 GGGTGATTCATTTGGTCCGC 59.544 55.000 0.00 0.00 0.00 5.54
246 247 1.102978 GGGGTGATTCATTTGGTCCG 58.897 55.000 0.00 0.00 0.00 4.79
247 248 1.102978 CGGGGTGATTCATTTGGTCC 58.897 55.000 0.00 0.00 0.00 4.46
248 249 1.472480 CACGGGGTGATTCATTTGGTC 59.528 52.381 0.00 0.00 35.23 4.02
249 250 1.203001 ACACGGGGTGATTCATTTGGT 60.203 47.619 2.29 0.00 36.96 3.67
250 251 1.544724 ACACGGGGTGATTCATTTGG 58.455 50.000 2.29 0.00 36.96 3.28
251 252 3.944650 TGATACACGGGGTGATTCATTTG 59.055 43.478 2.29 0.00 36.96 2.32
252 253 4.229304 TGATACACGGGGTGATTCATTT 57.771 40.909 2.29 0.00 36.96 2.32
253 254 3.924114 TGATACACGGGGTGATTCATT 57.076 42.857 2.29 0.00 36.96 2.57
254 255 3.496692 CCATGATACACGGGGTGATTCAT 60.497 47.826 2.29 7.38 38.29 2.57
255 256 2.158827 CCATGATACACGGGGTGATTCA 60.159 50.000 2.29 5.50 36.96 2.57
256 257 2.104111 TCCATGATACACGGGGTGATTC 59.896 50.000 2.29 0.12 36.96 2.52
257 258 2.123589 TCCATGATACACGGGGTGATT 58.876 47.619 2.29 0.00 36.96 2.57
258 259 1.416401 GTCCATGATACACGGGGTGAT 59.584 52.381 2.29 0.00 36.96 3.06
259 260 0.828022 GTCCATGATACACGGGGTGA 59.172 55.000 2.29 0.00 36.96 4.02
260 261 0.179056 GGTCCATGATACACGGGGTG 60.179 60.000 0.00 0.00 39.75 4.61
261 262 0.619255 TGGTCCATGATACACGGGGT 60.619 55.000 0.00 0.00 0.00 4.95
262 263 0.764890 ATGGTCCATGATACACGGGG 59.235 55.000 2.68 0.00 0.00 5.73
263 264 1.416030 TCATGGTCCATGATACACGGG 59.584 52.381 27.61 2.27 44.60 5.28
264 265 2.908688 TCATGGTCCATGATACACGG 57.091 50.000 27.61 2.99 44.60 4.94
288 289 0.109873 GACGTCCGTCTCATGTTCGT 60.110 55.000 12.31 0.00 41.57 3.85
307 308 7.416964 TTTATCTGGTTGGGTGATTAAATGG 57.583 36.000 0.00 0.00 0.00 3.16
336 337 3.480668 CCAAACGAACGTGAAATGTGTTC 59.519 43.478 0.00 0.00 35.29 3.18
368 369 5.047448 ACCGAATCCAGTAGATCATCATCAG 60.047 44.000 0.00 0.00 32.47 2.90
372 373 5.185828 CCATACCGAATCCAGTAGATCATCA 59.814 44.000 0.00 0.00 32.47 3.07
449 450 0.039074 GGACATGGTCGGCGAGATAG 60.039 60.000 11.20 3.57 32.65 2.08
450 451 1.461091 GGGACATGGTCGGCGAGATA 61.461 60.000 11.20 0.00 32.65 1.98
451 452 2.797278 GGGACATGGTCGGCGAGAT 61.797 63.158 11.20 2.01 32.65 2.75
452 453 3.458163 GGGACATGGTCGGCGAGA 61.458 66.667 11.20 0.00 32.65 4.04
453 454 4.530857 GGGGACATGGTCGGCGAG 62.531 72.222 11.20 0.00 32.65 5.03
508 510 2.037251 GCTGTTGTCAACTGGGTCTCTA 59.963 50.000 20.28 0.00 0.00 2.43
715 732 2.366435 GGGGAAGGGATGGGACGA 60.366 66.667 0.00 0.00 0.00 4.20
716 733 3.489513 GGGGGAAGGGATGGGACG 61.490 72.222 0.00 0.00 0.00 4.79
717 734 2.044620 AGGGGGAAGGGATGGGAC 59.955 66.667 0.00 0.00 0.00 4.46
718 735 2.044450 CAGGGGGAAGGGATGGGA 59.956 66.667 0.00 0.00 0.00 4.37
719 736 2.287194 ACAGGGGGAAGGGATGGG 60.287 66.667 0.00 0.00 0.00 4.00
720 737 2.746375 CGACAGGGGGAAGGGATGG 61.746 68.421 0.00 0.00 0.00 3.51
842 871 2.094100 TGGGGTCCAAGCAAATCAAA 57.906 45.000 0.00 0.00 0.00 2.69
878 907 5.065613 AGCTGGGCTATAAAATGGAATGA 57.934 39.130 0.00 0.00 36.99 2.57
903 933 3.907130 GGGGGCATGGATGGAGGG 61.907 72.222 0.00 0.00 0.00 4.30
1047 1094 4.856607 GAGAAGGGCTCCGCGTCG 62.857 72.222 4.92 0.00 37.69 5.12
1265 1312 4.467084 CGTCGGTGGATGGGGTGG 62.467 72.222 0.00 0.00 0.00 4.61
1266 1313 3.387091 TCGTCGGTGGATGGGGTG 61.387 66.667 0.00 0.00 0.00 4.61
1267 1314 3.387947 GTCGTCGGTGGATGGGGT 61.388 66.667 0.00 0.00 0.00 4.95
1268 1315 3.075005 AGTCGTCGGTGGATGGGG 61.075 66.667 0.00 0.00 0.00 4.96
1269 1316 2.494918 GAGTCGTCGGTGGATGGG 59.505 66.667 0.00 0.00 0.00 4.00
1270 1317 2.494918 GGAGTCGTCGGTGGATGG 59.505 66.667 0.00 0.00 0.00 3.51
1271 1318 2.102357 CGGAGTCGTCGGTGGATG 59.898 66.667 0.00 0.00 0.00 3.51
1272 1319 3.823330 GCGGAGTCGTCGGTGGAT 61.823 66.667 0.00 0.00 38.89 3.41
1275 1322 4.351938 TTGGCGGAGTCGTCGGTG 62.352 66.667 0.00 0.00 45.11 4.94
1276 1323 4.353437 GTTGGCGGAGTCGTCGGT 62.353 66.667 0.00 0.00 45.11 4.69
1345 1395 2.363147 GTCGGAGCAGGAGGAGGT 60.363 66.667 0.00 0.00 0.00 3.85
1524 1577 2.915869 GGGAAGCCCAAGCCGATA 59.084 61.111 0.00 0.00 44.65 2.92
1550 1603 2.683211 AAAGAGGAGGTTGTTGGCAT 57.317 45.000 0.00 0.00 0.00 4.40
1591 1644 2.588034 GTGCCCGAAGTATCCCGC 60.588 66.667 0.00 0.00 0.00 6.13
1625 1678 0.958822 GAAATGGTCGTTGTTGCCCT 59.041 50.000 0.00 0.00 0.00 5.19
1672 1725 3.512516 GCTCTGAATGCCCGTGCC 61.513 66.667 0.00 0.00 36.33 5.01
1696 1749 1.410402 GCGCTACTATTCGAGAAGGC 58.590 55.000 0.00 0.00 0.00 4.35
1825 1890 0.391661 ATGTCCATGTCACCGTCAGC 60.392 55.000 0.00 0.00 0.00 4.26
1887 1952 1.412343 GTGTTGTTGGTGGGCAAGAAT 59.588 47.619 0.00 0.00 0.00 2.40
2016 2081 2.879907 CCATGCCTGTTCTTGCGG 59.120 61.111 0.00 0.00 0.00 5.69
2118 2183 2.033424 GCCGTGAAGCATTATTTCCTCC 59.967 50.000 0.00 0.00 0.00 4.30
2319 2384 0.523757 GCCTGAGTAGCTCGTTCGAC 60.524 60.000 0.00 0.00 32.35 4.20
2358 2423 1.230149 TGTGGCATCCCCCTTAGGT 60.230 57.895 0.00 0.00 0.00 3.08
3126 3191 0.108585 GGCCAAAGATATCCCGCTCA 59.891 55.000 0.00 0.00 0.00 4.26
3581 3646 1.271762 ACACTACTCTGCGTCCCTACA 60.272 52.381 0.00 0.00 0.00 2.74
3751 3817 6.486253 TCAACTGCTGTGATCTGTTAAATC 57.514 37.500 0.00 0.00 0.00 2.17
3877 3944 4.914504 TGCACACATAAAACAATGTAAGCG 59.085 37.500 0.00 0.00 39.65 4.68
3891 3958 6.017852 TCACAAACGTAAAAGATGCACACATA 60.018 34.615 0.00 0.00 36.35 2.29
4013 4080 8.752187 AGGCACACATCTTCAACAAATATATTT 58.248 29.630 4.81 4.81 0.00 1.40
4014 4081 8.297470 AGGCACACATCTTCAACAAATATATT 57.703 30.769 0.00 0.00 0.00 1.28
4154 4291 3.553917 CACAAATCAGACACACACACGTA 59.446 43.478 0.00 0.00 0.00 3.57
4155 4292 2.351418 CACAAATCAGACACACACACGT 59.649 45.455 0.00 0.00 0.00 4.49
4156 4293 2.351418 ACACAAATCAGACACACACACG 59.649 45.455 0.00 0.00 0.00 4.49
4377 4583 2.936919 TCTAGCTACATGGGCATTGG 57.063 50.000 13.84 0.00 0.00 3.16
4378 4584 4.022589 CCAATTCTAGCTACATGGGCATTG 60.023 45.833 13.84 13.01 0.00 2.82
4379 4585 4.147321 CCAATTCTAGCTACATGGGCATT 58.853 43.478 13.84 3.91 0.00 3.56
4380 4586 3.139025 ACCAATTCTAGCTACATGGGCAT 59.861 43.478 13.84 3.87 32.21 4.40
4381 4587 2.509548 ACCAATTCTAGCTACATGGGCA 59.490 45.455 13.84 1.85 32.21 5.36


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

AutoCloner maintained by Alex Coulton.