Multiple sequence alignment - TraesCS6B01G279600

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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 TraesCS6B01G279600 chr6B 100.000 3623 0 0 1 3623 505797423 505801045 0.000000e+00 6691.0
1 TraesCS6B01G279600 chr6B 94.118 68 3 1 109 176 120822162 120822096 6.400000e-18 102.0
2 TraesCS6B01G279600 chr6B 95.161 62 3 0 2780 2841 537553839 537553900 8.280000e-17 99.0
3 TraesCS6B01G279600 chr6A 94.441 3472 139 23 167 3623 455942953 455939521 0.000000e+00 5293.0
4 TraesCS6B01G279600 chr6D 95.779 3009 104 12 624 3623 318351243 318348249 0.000000e+00 4831.0
5 TraesCS6B01G279600 chr6D 93.590 234 4 7 356 588 318351466 318351243 4.480000e-89 339.0
6 TraesCS6B01G279600 chr6D 88.079 151 12 4 222 371 318351628 318351483 1.340000e-39 174.0
7 TraesCS6B01G279600 chr7A 84.040 1416 214 11 1199 2608 437609362 437610771 0.000000e+00 1352.0
8 TraesCS6B01G279600 chr7A 76.546 776 105 39 981 1725 42011964 42012693 1.600000e-93 353.0
9 TraesCS6B01G279600 chr7A 100.000 30 0 0 2861 2890 33452517 33452546 5.050000e-04 56.5
10 TraesCS6B01G279600 chr7D 83.675 1415 221 9 1199 2608 387494734 387496143 0.000000e+00 1325.0
11 TraesCS6B01G279600 chr7D 95.161 62 3 0 2779 2840 56643805 56643744 8.280000e-17 99.0
12 TraesCS6B01G279600 chr7D 95.161 62 3 0 2779 2840 573963466 573963527 8.280000e-17 99.0
13 TraesCS6B01G279600 chr7B 83.322 1415 226 9 1199 2608 382519653 382521062 0.000000e+00 1297.0
14 TraesCS6B01G279600 chr7B 96.825 63 1 1 109 171 24414556 24414617 1.780000e-18 104.0
15 TraesCS6B01G279600 chr7B 94.030 67 4 0 109 175 237483224 237483158 6.400000e-18 102.0
16 TraesCS6B01G279600 chr4B 98.387 62 1 0 109 170 619776412 619776473 3.820000e-20 110.0
17 TraesCS6B01G279600 chr2B 96.875 64 1 1 109 172 210267644 210267706 4.950000e-19 106.0
18 TraesCS6B01G279600 chr2B 94.030 67 4 0 109 175 300252792 300252726 6.400000e-18 102.0
19 TraesCS6B01G279600 chr2B 94.030 67 4 0 109 175 627063167 627063233 6.400000e-18 102.0
20 TraesCS6B01G279600 chr1D 96.825 63 2 0 109 171 492402385 492402447 4.950000e-19 106.0
21 TraesCS6B01G279600 chr4D 95.161 62 3 0 2780 2841 296729548 296729487 8.280000e-17 99.0
22 TraesCS6B01G279600 chr3D 95.161 62 3 0 2779 2840 610340198 610340259 8.280000e-17 99.0
23 TraesCS6B01G279600 chr2A 93.939 66 3 1 2776 2841 628670186 628670122 8.280000e-17 99.0
24 TraesCS6B01G279600 chr2A 85.185 54 6 2 2861 2912 181007204 181007151 2.000000e-03 54.7
25 TraesCS6B01G279600 chr5B 89.610 77 5 3 109 185 339909453 339909526 1.070000e-15 95.3
26 TraesCS6B01G279600 chrUn 91.176 68 6 0 2774 2841 126680638 126680571 3.850000e-15 93.5
27 TraesCS6B01G279600 chr2D 100.000 32 0 0 2861 2892 421794715 421794684 3.910000e-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 TraesCS6B01G279600 chr6B 505797423 505801045 3622 False 6691.000000 6691 100.000000 1 3623 1 chr6B.!!$F1 3622
1 TraesCS6B01G279600 chr6A 455939521 455942953 3432 True 5293.000000 5293 94.441000 167 3623 1 chr6A.!!$R1 3456
2 TraesCS6B01G279600 chr6D 318348249 318351628 3379 True 1781.333333 4831 92.482667 222 3623 3 chr6D.!!$R1 3401
3 TraesCS6B01G279600 chr7A 437609362 437610771 1409 False 1352.000000 1352 84.040000 1199 2608 1 chr7A.!!$F3 1409
4 TraesCS6B01G279600 chr7A 42011964 42012693 729 False 353.000000 353 76.546000 981 1725 1 chr7A.!!$F2 744
5 TraesCS6B01G279600 chr7D 387494734 387496143 1409 False 1325.000000 1325 83.675000 1199 2608 1 chr7D.!!$F1 1409
6 TraesCS6B01G279600 chr7B 382519653 382521062 1409 False 1297.000000 1297 83.322000 1199 2608 1 chr7B.!!$F2 1409

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
84 85 0.179040 AAACCCGAAGCTTCACCGAA 60.179 50.0 25.47 0.00 0.00 4.30 F
98 99 0.316204 ACCGAACACCTCTAACACCG 59.684 55.0 0.00 0.00 0.00 4.94 F
99 100 0.599558 CCGAACACCTCTAACACCGA 59.400 55.0 0.00 0.00 0.00 4.69 F
1206 1260 1.140407 GAAGCGAATCGGACCTGTCG 61.140 60.0 4.35 4.47 36.59 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1563 1630 1.153823 CGGCTGGTACGTCTTGAGG 60.154 63.158 0.00 0.00 0.0 3.86 R
1872 1949 1.436195 CCGGTATGTTGATGGCCACG 61.436 60.000 8.16 3.05 0.0 4.94 R
2100 2177 2.047655 TTGGTCGTGATGGTCGCC 60.048 61.111 0.00 0.00 0.0 5.54 R
2681 2759 0.109597 CAGCGTGCCATTCAGAAACC 60.110 55.000 0.00 0.00 0.0 3.27 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 3.201494 CCCGATCTCTGTCGCTGT 58.799 61.111 0.00 0.00 40.17 4.40
18 19 1.513158 CCCGATCTCTGTCGCTGTT 59.487 57.895 0.00 0.00 40.17 3.16
19 20 0.738975 CCCGATCTCTGTCGCTGTTA 59.261 55.000 0.00 0.00 40.17 2.41
20 21 1.338337 CCCGATCTCTGTCGCTGTTAT 59.662 52.381 0.00 0.00 40.17 1.89
21 22 2.605823 CCCGATCTCTGTCGCTGTTATC 60.606 54.545 0.00 0.00 40.17 1.75
22 23 2.605823 CCGATCTCTGTCGCTGTTATCC 60.606 54.545 0.00 0.00 40.17 2.59
23 24 2.605823 CGATCTCTGTCGCTGTTATCCC 60.606 54.545 0.00 0.00 34.56 3.85
24 25 1.112113 TCTCTGTCGCTGTTATCCCC 58.888 55.000 0.00 0.00 0.00 4.81
25 26 0.824109 CTCTGTCGCTGTTATCCCCA 59.176 55.000 0.00 0.00 0.00 4.96
26 27 1.414181 CTCTGTCGCTGTTATCCCCAT 59.586 52.381 0.00 0.00 0.00 4.00
27 28 1.138859 TCTGTCGCTGTTATCCCCATG 59.861 52.381 0.00 0.00 0.00 3.66
28 29 0.180171 TGTCGCTGTTATCCCCATGG 59.820 55.000 4.14 4.14 0.00 3.66
40 41 1.918262 TCCCCATGGATCATGATAGCC 59.082 52.381 15.22 7.34 43.81 3.93
41 42 1.637035 CCCCATGGATCATGATAGCCA 59.363 52.381 15.22 16.25 43.81 4.75
42 43 2.243994 CCCCATGGATCATGATAGCCAT 59.756 50.000 18.77 18.77 43.81 4.40
43 44 3.552875 CCCATGGATCATGATAGCCATC 58.447 50.000 20.76 4.83 43.81 3.51
44 45 3.203716 CCATGGATCATGATAGCCATCG 58.796 50.000 20.76 13.76 43.81 3.84
45 46 3.118519 CCATGGATCATGATAGCCATCGA 60.119 47.826 20.76 2.99 43.81 3.59
46 47 3.599730 TGGATCATGATAGCCATCGAC 57.400 47.619 8.54 0.00 33.51 4.20
47 48 3.168292 TGGATCATGATAGCCATCGACT 58.832 45.455 8.54 0.00 33.51 4.18
48 49 3.580022 TGGATCATGATAGCCATCGACTT 59.420 43.478 8.54 0.00 33.51 3.01
49 50 4.040829 TGGATCATGATAGCCATCGACTTT 59.959 41.667 8.54 0.00 33.51 2.66
50 51 4.999950 GGATCATGATAGCCATCGACTTTT 59.000 41.667 8.54 0.00 33.51 2.27
51 52 5.106791 GGATCATGATAGCCATCGACTTTTG 60.107 44.000 8.54 0.00 33.51 2.44
52 53 4.129380 TCATGATAGCCATCGACTTTTGG 58.871 43.478 0.00 0.00 33.51 3.28
53 54 3.627395 TGATAGCCATCGACTTTTGGT 57.373 42.857 4.77 0.00 35.34 3.67
54 55 4.746535 TGATAGCCATCGACTTTTGGTA 57.253 40.909 4.77 0.00 35.34 3.25
55 56 5.092554 TGATAGCCATCGACTTTTGGTAA 57.907 39.130 4.77 0.00 35.34 2.85
56 57 5.680619 TGATAGCCATCGACTTTTGGTAAT 58.319 37.500 4.77 0.00 35.34 1.89
57 58 6.119536 TGATAGCCATCGACTTTTGGTAATT 58.880 36.000 4.77 0.00 35.34 1.40
58 59 4.701956 AGCCATCGACTTTTGGTAATTG 57.298 40.909 4.77 0.00 35.34 2.32
59 60 4.331968 AGCCATCGACTTTTGGTAATTGA 58.668 39.130 4.77 0.00 35.34 2.57
60 61 4.949856 AGCCATCGACTTTTGGTAATTGAT 59.050 37.500 4.77 0.00 35.34 2.57
61 62 5.066505 AGCCATCGACTTTTGGTAATTGATC 59.933 40.000 4.77 0.00 35.34 2.92
62 63 5.163663 GCCATCGACTTTTGGTAATTGATCA 60.164 40.000 4.77 0.00 35.34 2.92
63 64 6.460123 GCCATCGACTTTTGGTAATTGATCAT 60.460 38.462 0.00 0.00 35.34 2.45
64 65 7.483307 CCATCGACTTTTGGTAATTGATCATT 58.517 34.615 0.00 0.00 0.00 2.57
65 66 8.620416 CCATCGACTTTTGGTAATTGATCATTA 58.380 33.333 0.00 0.00 0.00 1.90
68 69 9.834628 TCGACTTTTGGTAATTGATCATTAAAC 57.165 29.630 0.00 0.00 0.00 2.01
69 70 9.072294 CGACTTTTGGTAATTGATCATTAAACC 57.928 33.333 0.00 5.75 0.00 3.27
70 71 9.366216 GACTTTTGGTAATTGATCATTAAACCC 57.634 33.333 14.70 5.22 0.00 4.11
71 72 8.032451 ACTTTTGGTAATTGATCATTAAACCCG 58.968 33.333 14.70 7.35 0.00 5.28
72 73 7.704578 TTTGGTAATTGATCATTAAACCCGA 57.295 32.000 14.70 2.64 0.00 5.14
73 74 7.704578 TTGGTAATTGATCATTAAACCCGAA 57.295 32.000 14.70 5.70 0.00 4.30
74 75 7.328277 TGGTAATTGATCATTAAACCCGAAG 57.672 36.000 14.70 0.00 0.00 3.79
75 76 6.183360 TGGTAATTGATCATTAAACCCGAAGC 60.183 38.462 14.70 0.00 0.00 3.86
76 77 6.039382 GGTAATTGATCATTAAACCCGAAGCT 59.961 38.462 0.00 0.00 0.00 3.74
77 78 6.530019 AATTGATCATTAAACCCGAAGCTT 57.470 33.333 0.00 0.00 0.00 3.74
78 79 5.560966 TTGATCATTAAACCCGAAGCTTC 57.439 39.130 16.84 16.84 0.00 3.86
79 80 4.584874 TGATCATTAAACCCGAAGCTTCA 58.415 39.130 25.47 5.07 0.00 3.02
80 81 4.394920 TGATCATTAAACCCGAAGCTTCAC 59.605 41.667 25.47 0.84 0.00 3.18
81 82 3.078837 TCATTAAACCCGAAGCTTCACC 58.921 45.455 25.47 0.05 0.00 4.02
82 83 1.515081 TTAAACCCGAAGCTTCACCG 58.485 50.000 25.47 12.76 0.00 4.94
83 84 0.680618 TAAACCCGAAGCTTCACCGA 59.319 50.000 25.47 3.20 0.00 4.69
84 85 0.179040 AAACCCGAAGCTTCACCGAA 60.179 50.000 25.47 0.00 0.00 4.30
85 86 0.883370 AACCCGAAGCTTCACCGAAC 60.883 55.000 25.47 0.00 0.00 3.95
86 87 1.301401 CCCGAAGCTTCACCGAACA 60.301 57.895 25.47 0.00 0.00 3.18
87 88 1.566018 CCCGAAGCTTCACCGAACAC 61.566 60.000 25.47 0.00 0.00 3.32
88 89 1.566018 CCGAAGCTTCACCGAACACC 61.566 60.000 25.47 0.00 0.00 4.16
89 90 0.600255 CGAAGCTTCACCGAACACCT 60.600 55.000 25.47 0.00 0.00 4.00
90 91 1.149148 GAAGCTTCACCGAACACCTC 58.851 55.000 21.67 0.00 0.00 3.85
91 92 0.759346 AAGCTTCACCGAACACCTCT 59.241 50.000 0.00 0.00 0.00 3.69
92 93 1.629043 AGCTTCACCGAACACCTCTA 58.371 50.000 0.00 0.00 0.00 2.43
93 94 1.968493 AGCTTCACCGAACACCTCTAA 59.032 47.619 0.00 0.00 0.00 2.10
94 95 2.067013 GCTTCACCGAACACCTCTAAC 58.933 52.381 0.00 0.00 0.00 2.34
95 96 2.547218 GCTTCACCGAACACCTCTAACA 60.547 50.000 0.00 0.00 0.00 2.41
96 97 2.806608 TCACCGAACACCTCTAACAC 57.193 50.000 0.00 0.00 0.00 3.32
97 98 1.342174 TCACCGAACACCTCTAACACC 59.658 52.381 0.00 0.00 0.00 4.16
98 99 0.316204 ACCGAACACCTCTAACACCG 59.684 55.000 0.00 0.00 0.00 4.94
99 100 0.599558 CCGAACACCTCTAACACCGA 59.400 55.000 0.00 0.00 0.00 4.69
100 101 1.203994 CCGAACACCTCTAACACCGAT 59.796 52.381 0.00 0.00 0.00 4.18
101 102 2.527100 CGAACACCTCTAACACCGATC 58.473 52.381 0.00 0.00 0.00 3.69
102 103 2.163815 CGAACACCTCTAACACCGATCT 59.836 50.000 0.00 0.00 0.00 2.75
103 104 3.376234 CGAACACCTCTAACACCGATCTA 59.624 47.826 0.00 0.00 0.00 1.98
104 105 4.142534 CGAACACCTCTAACACCGATCTAA 60.143 45.833 0.00 0.00 0.00 2.10
105 106 4.715527 ACACCTCTAACACCGATCTAAC 57.284 45.455 0.00 0.00 0.00 2.34
106 107 4.084287 ACACCTCTAACACCGATCTAACA 58.916 43.478 0.00 0.00 0.00 2.41
107 108 4.525487 ACACCTCTAACACCGATCTAACAA 59.475 41.667 0.00 0.00 0.00 2.83
108 109 5.011329 ACACCTCTAACACCGATCTAACAAA 59.989 40.000 0.00 0.00 0.00 2.83
109 110 5.347907 CACCTCTAACACCGATCTAACAAAC 59.652 44.000 0.00 0.00 0.00 2.93
110 111 4.561606 CCTCTAACACCGATCTAACAAACG 59.438 45.833 0.00 0.00 0.00 3.60
111 112 5.125100 TCTAACACCGATCTAACAAACGT 57.875 39.130 0.00 0.00 0.00 3.99
112 113 4.919168 TCTAACACCGATCTAACAAACGTG 59.081 41.667 0.00 0.00 0.00 4.49
113 114 3.374220 ACACCGATCTAACAAACGTGA 57.626 42.857 0.00 0.00 0.00 4.35
114 115 3.054878 ACACCGATCTAACAAACGTGAC 58.945 45.455 0.00 0.00 0.00 3.67
115 116 3.243636 ACACCGATCTAACAAACGTGACT 60.244 43.478 0.00 0.00 0.00 3.41
116 117 3.739300 CACCGATCTAACAAACGTGACTT 59.261 43.478 0.00 0.00 0.00 3.01
117 118 3.739300 ACCGATCTAACAAACGTGACTTG 59.261 43.478 0.00 0.00 0.00 3.16
118 119 3.739300 CCGATCTAACAAACGTGACTTGT 59.261 43.478 0.00 0.00 38.65 3.16
119 120 4.919168 CCGATCTAACAAACGTGACTTGTA 59.081 41.667 4.62 0.00 35.98 2.41
120 121 5.060569 CCGATCTAACAAACGTGACTTGTAG 59.939 44.000 4.62 4.01 35.98 2.74
121 122 5.628193 CGATCTAACAAACGTGACTTGTAGT 59.372 40.000 4.62 0.00 35.98 2.73
122 123 6.143438 CGATCTAACAAACGTGACTTGTAGTT 59.857 38.462 4.62 0.00 35.98 2.24
123 124 7.306399 CGATCTAACAAACGTGACTTGTAGTTT 60.306 37.037 4.62 0.00 35.98 2.66
129 130 6.920569 AAACGTGACTTGTAGTTTGATCTT 57.079 33.333 0.00 0.00 35.74 2.40
130 131 6.920569 AACGTGACTTGTAGTTTGATCTTT 57.079 33.333 0.00 0.00 0.00 2.52
131 132 8.428186 AAACGTGACTTGTAGTTTGATCTTTA 57.572 30.769 0.00 0.00 35.74 1.85
132 133 8.603242 AACGTGACTTGTAGTTTGATCTTTAT 57.397 30.769 0.00 0.00 0.00 1.40
133 134 8.018677 ACGTGACTTGTAGTTTGATCTTTATG 57.981 34.615 0.00 0.00 0.00 1.90
134 135 7.870954 ACGTGACTTGTAGTTTGATCTTTATGA 59.129 33.333 0.00 0.00 0.00 2.15
135 136 8.873830 CGTGACTTGTAGTTTGATCTTTATGAT 58.126 33.333 0.00 0.00 38.27 2.45
149 150 9.415544 TGATCTTTATGATATGAATGAGACACG 57.584 33.333 0.00 0.00 35.14 4.49
150 151 9.416794 GATCTTTATGATATGAATGAGACACGT 57.583 33.333 0.00 0.00 35.14 4.49
156 157 8.988064 ATGATATGAATGAGACACGTATTACC 57.012 34.615 0.00 0.00 0.00 2.85
157 158 7.947282 TGATATGAATGAGACACGTATTACCA 58.053 34.615 0.00 0.00 0.00 3.25
158 159 8.585018 TGATATGAATGAGACACGTATTACCAT 58.415 33.333 0.00 0.00 0.00 3.55
159 160 8.763049 ATATGAATGAGACACGTATTACCATG 57.237 34.615 0.00 0.00 0.00 3.66
160 161 4.808895 TGAATGAGACACGTATTACCATGC 59.191 41.667 0.00 0.00 0.00 4.06
161 162 3.173668 TGAGACACGTATTACCATGCC 57.826 47.619 0.00 0.00 0.00 4.40
162 163 2.498078 TGAGACACGTATTACCATGCCA 59.502 45.455 0.00 0.00 0.00 4.92
163 164 3.055747 TGAGACACGTATTACCATGCCAA 60.056 43.478 0.00 0.00 0.00 4.52
164 165 3.936453 GAGACACGTATTACCATGCCAAA 59.064 43.478 0.00 0.00 0.00 3.28
165 166 4.328536 AGACACGTATTACCATGCCAAAA 58.671 39.130 0.00 0.00 0.00 2.44
239 242 1.235724 AGCCTACGTGTTGGAAAAGC 58.764 50.000 0.00 0.00 0.00 3.51
244 247 4.261280 GCCTACGTGTTGGAAAAGCTTTTA 60.261 41.667 23.90 7.36 0.00 1.52
250 253 3.181470 TGTTGGAAAAGCTTTTACTGCCC 60.181 43.478 29.61 22.56 32.16 5.36
251 254 1.967779 TGGAAAAGCTTTTACTGCCCC 59.032 47.619 29.61 21.96 32.16 5.80
252 255 2.248248 GGAAAAGCTTTTACTGCCCCT 58.752 47.619 24.28 0.29 0.00 4.79
253 256 3.181427 TGGAAAAGCTTTTACTGCCCCTA 60.181 43.478 29.61 9.46 32.16 3.53
254 257 3.192844 GGAAAAGCTTTTACTGCCCCTAC 59.807 47.826 24.28 8.76 0.00 3.18
255 258 2.109425 AAGCTTTTACTGCCCCTACG 57.891 50.000 0.00 0.00 0.00 3.51
256 259 1.272807 AGCTTTTACTGCCCCTACGA 58.727 50.000 0.00 0.00 0.00 3.43
257 260 1.626825 AGCTTTTACTGCCCCTACGAA 59.373 47.619 0.00 0.00 0.00 3.85
408 444 4.153475 CGTGGTTAACTGGTTATGGACTTG 59.847 45.833 5.42 0.00 0.00 3.16
410 446 3.126343 GGTTAACTGGTTATGGACTTGCG 59.874 47.826 5.42 0.00 0.00 4.85
411 447 2.561478 AACTGGTTATGGACTTGCGT 57.439 45.000 0.00 0.00 0.00 5.24
412 448 3.688694 AACTGGTTATGGACTTGCGTA 57.311 42.857 0.00 0.00 0.00 4.42
413 449 2.968675 ACTGGTTATGGACTTGCGTAC 58.031 47.619 0.00 0.00 0.00 3.67
415 451 3.187700 CTGGTTATGGACTTGCGTACTC 58.812 50.000 0.00 0.00 0.00 2.59
421 457 3.452755 TGGACTTGCGTACTCATATGG 57.547 47.619 2.13 0.00 0.00 2.74
496 532 1.818642 ATGCTCAAGTTGAGTGCTCC 58.181 50.000 28.95 15.41 45.94 4.70
554 590 3.440522 CAGCTCCTAAACTAAAACTGGCC 59.559 47.826 0.00 0.00 0.00 5.36
555 591 3.330998 AGCTCCTAAACTAAAACTGGCCT 59.669 43.478 3.32 0.00 0.00 5.19
556 592 3.440522 GCTCCTAAACTAAAACTGGCCTG 59.559 47.826 8.29 8.29 0.00 4.85
557 593 4.010349 CTCCTAAACTAAAACTGGCCTGG 58.990 47.826 14.82 4.64 0.00 4.45
558 594 2.492088 CCTAAACTAAAACTGGCCTGGC 59.508 50.000 11.05 11.05 0.00 4.85
597 633 2.586258 ACATGCTGTAGATGACGGAC 57.414 50.000 0.00 0.00 36.40 4.79
598 634 2.103373 ACATGCTGTAGATGACGGACT 58.897 47.619 0.00 0.00 36.40 3.85
622 659 4.272261 GCAGAGTTCTGGCTTTCTTATAGC 59.728 45.833 10.88 0.00 43.94 2.97
658 695 5.299148 ACAAATCACCATCACACCAAATTG 58.701 37.500 0.00 0.00 0.00 2.32
659 696 5.163322 ACAAATCACCATCACACCAAATTGT 60.163 36.000 0.00 0.00 0.00 2.71
672 709 3.756434 ACCAAATTGTATCTCCCAACACG 59.244 43.478 0.00 0.00 0.00 4.49
682 719 2.438434 CCAACACGCCAGATCCCC 60.438 66.667 0.00 0.00 0.00 4.81
798 835 1.346068 GGTTCAGCTCACTCTTGGACT 59.654 52.381 0.00 0.00 0.00 3.85
1206 1260 1.140407 GAAGCGAATCGGACCTGTCG 61.140 60.000 4.35 4.47 36.59 4.35
1317 1371 4.803426 GGCAGCCTCGTCGACCTG 62.803 72.222 10.58 12.23 0.00 4.00
1329 1383 4.101448 GACCTGGGCATGTCCGCT 62.101 66.667 12.67 0.00 34.94 5.52
1365 1428 2.263540 GTCGCCTTCGCCAACCTA 59.736 61.111 0.00 0.00 35.26 3.08
1563 1630 2.125350 CTTCTCCTGCCGTCAGCC 60.125 66.667 0.00 0.00 42.71 4.85
1698 1770 2.203126 GAGGGCATCCGGAAGCTG 60.203 66.667 28.90 15.08 38.33 4.24
2046 2123 4.844420 GACCCAATCGAGCTCCTG 57.156 61.111 8.47 3.12 0.00 3.86
2214 2291 2.780643 CTCATCACCGCGTTGCTG 59.219 61.111 4.92 2.54 0.00 4.41
2301 2378 2.441348 TACTCGGCGCTCATGGGA 60.441 61.111 7.64 0.00 0.00 4.37
2307 2384 2.818169 GGCGCTCATGGGACCCATA 61.818 63.158 26.09 13.08 43.15 2.74
2625 2702 7.145932 AGTGAAATACCAAAGCAGTTGATAC 57.854 36.000 1.93 0.00 39.87 2.24
2743 2821 4.151883 ACACATTTACAGTTCTTGCCCAT 58.848 39.130 0.00 0.00 0.00 4.00
2747 2825 6.753279 CACATTTACAGTTCTTGCCCATAATG 59.247 38.462 0.00 0.00 0.00 1.90
2751 2829 7.716799 TTACAGTTCTTGCCCATAATGAAAT 57.283 32.000 0.00 0.00 0.00 2.17
2763 2841 5.866633 CCCATAATGAAATCGAGTAGAGCTC 59.133 44.000 5.27 5.27 40.77 4.09
2775 2853 3.107601 AGTAGAGCTCCCATGCAACTTA 58.892 45.455 10.93 0.00 34.99 2.24
2776 2854 2.409948 AGAGCTCCCATGCAACTTAC 57.590 50.000 10.93 0.00 34.99 2.34
2852 2931 7.136772 TCGGATGTATGTAGTTCGTATTGAAG 58.863 38.462 0.00 0.00 37.23 3.02
2861 2940 9.661563 ATGTAGTTCGTATTGAAGTATCCAAAA 57.338 29.630 0.00 0.00 42.82 2.44
2862 2941 8.928733 TGTAGTTCGTATTGAAGTATCCAAAAC 58.071 33.333 0.00 0.00 42.82 2.43
2863 2942 7.972832 AGTTCGTATTGAAGTATCCAAAACA 57.027 32.000 0.00 0.00 38.49 2.83
2864 2943 8.561738 AGTTCGTATTGAAGTATCCAAAACAT 57.438 30.769 0.00 0.00 38.49 2.71
2865 2944 8.665685 AGTTCGTATTGAAGTATCCAAAACATC 58.334 33.333 0.00 0.00 38.49 3.06
2866 2945 7.548196 TCGTATTGAAGTATCCAAAACATCC 57.452 36.000 0.00 0.00 0.00 3.51
2892 2971 7.973048 ATATTTGTGAACAGAGGGAGTAGTA 57.027 36.000 0.00 0.00 0.00 1.82
2893 2972 6.875972 ATTTGTGAACAGAGGGAGTAGTAT 57.124 37.500 0.00 0.00 0.00 2.12
3000 3082 4.399303 AGAAGTTGTGTTTCCACTCCTTTG 59.601 41.667 0.00 0.00 42.34 2.77
3123 3206 4.405116 AGATGCTCTAGCCAAGAAGAAG 57.595 45.455 0.00 0.00 41.18 2.85
3126 3209 4.623932 TGCTCTAGCCAAGAAGAAGAAA 57.376 40.909 0.00 0.00 41.18 2.52
3129 3212 5.471456 TGCTCTAGCCAAGAAGAAGAAAAAG 59.529 40.000 0.00 0.00 41.18 2.27
3357 3443 7.507277 ACTCTAGTTGGACAGCTATGATATGAA 59.493 37.037 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.288518 GGGGATAACAGCGACAGAGATC 60.289 54.545 0.00 0.00 0.00 2.75
4 5 1.689273 GGGGATAACAGCGACAGAGAT 59.311 52.381 0.00 0.00 0.00 2.75
5 6 1.112113 GGGGATAACAGCGACAGAGA 58.888 55.000 0.00 0.00 0.00 3.10
6 7 0.824109 TGGGGATAACAGCGACAGAG 59.176 55.000 0.00 0.00 0.00 3.35
7 8 1.138859 CATGGGGATAACAGCGACAGA 59.861 52.381 0.00 0.00 0.00 3.41
8 9 1.586422 CATGGGGATAACAGCGACAG 58.414 55.000 0.00 0.00 0.00 3.51
9 10 0.180171 CCATGGGGATAACAGCGACA 59.820 55.000 2.85 0.00 35.59 4.35
10 11 0.468226 TCCATGGGGATAACAGCGAC 59.532 55.000 13.02 0.00 38.64 5.19
11 12 2.923619 TCCATGGGGATAACAGCGA 58.076 52.632 13.02 0.00 38.64 4.93
17 18 9.282877 GATGGCTATCATGATCCATGGGGATAA 62.283 44.444 25.93 0.80 44.44 1.75
18 19 7.890137 GATGGCTATCATGATCCATGGGGATA 61.890 46.154 25.93 10.49 44.44 2.59
19 20 7.172753 GATGGCTATCATGATCCATGGGGAT 62.173 48.000 25.93 8.59 45.89 3.85
20 21 4.090898 ATGGCTATCATGATCCATGGGGA 61.091 47.826 22.13 2.75 41.66 4.81
21 22 1.637035 TGGCTATCATGATCCATGGGG 59.363 52.381 12.53 0.00 41.66 4.96
22 23 3.552875 GATGGCTATCATGATCCATGGG 58.447 50.000 25.93 8.35 41.66 4.00
23 24 3.118519 TCGATGGCTATCATGATCCATGG 60.119 47.826 25.93 24.05 41.66 3.66
24 25 3.869832 GTCGATGGCTATCATGATCCATG 59.130 47.826 25.93 19.04 42.60 3.66
25 26 3.773667 AGTCGATGGCTATCATGATCCAT 59.226 43.478 22.69 22.69 41.63 3.41
26 27 3.168292 AGTCGATGGCTATCATGATCCA 58.832 45.455 12.53 14.77 35.97 3.41
27 28 3.883830 AGTCGATGGCTATCATGATCC 57.116 47.619 12.53 9.01 35.97 3.36
28 29 5.106791 CCAAAAGTCGATGGCTATCATGATC 60.107 44.000 12.53 0.00 35.97 2.92
29 30 4.758674 CCAAAAGTCGATGGCTATCATGAT 59.241 41.667 13.81 13.81 35.97 2.45
30 31 4.129380 CCAAAAGTCGATGGCTATCATGA 58.871 43.478 10.94 0.00 35.97 3.07
31 32 3.879295 ACCAAAAGTCGATGGCTATCATG 59.121 43.478 10.94 0.00 40.51 3.07
32 33 4.156455 ACCAAAAGTCGATGGCTATCAT 57.844 40.909 10.94 0.00 40.51 2.45
33 34 3.627395 ACCAAAAGTCGATGGCTATCA 57.373 42.857 10.94 0.00 40.51 2.15
34 35 6.260050 TCAATTACCAAAAGTCGATGGCTATC 59.740 38.462 2.63 0.00 40.51 2.08
35 36 6.119536 TCAATTACCAAAAGTCGATGGCTAT 58.880 36.000 2.63 0.00 40.51 2.97
36 37 5.492895 TCAATTACCAAAAGTCGATGGCTA 58.507 37.500 2.63 0.00 40.51 3.93
37 38 4.331968 TCAATTACCAAAAGTCGATGGCT 58.668 39.130 2.63 0.00 40.51 4.75
38 39 4.695217 TCAATTACCAAAAGTCGATGGC 57.305 40.909 2.63 0.00 40.51 4.40
39 40 6.435430 TGATCAATTACCAAAAGTCGATGG 57.565 37.500 1.14 1.14 42.60 3.51
42 43 9.834628 GTTTAATGATCAATTACCAAAAGTCGA 57.165 29.630 0.00 0.00 30.21 4.20
43 44 9.072294 GGTTTAATGATCAATTACCAAAAGTCG 57.928 33.333 0.00 0.00 30.14 4.18
44 45 9.366216 GGGTTTAATGATCAATTACCAAAAGTC 57.634 33.333 16.59 1.31 30.99 3.01
45 46 8.032451 CGGGTTTAATGATCAATTACCAAAAGT 58.968 33.333 16.59 0.00 30.99 2.66
46 47 8.247562 TCGGGTTTAATGATCAATTACCAAAAG 58.752 33.333 16.59 8.46 30.99 2.27
47 48 8.123639 TCGGGTTTAATGATCAATTACCAAAA 57.876 30.769 16.59 0.00 30.99 2.44
48 49 7.704578 TCGGGTTTAATGATCAATTACCAAA 57.295 32.000 16.59 0.00 30.99 3.28
49 50 7.629652 GCTTCGGGTTTAATGATCAATTACCAA 60.630 37.037 16.59 6.93 30.99 3.67
50 51 6.183360 GCTTCGGGTTTAATGATCAATTACCA 60.183 38.462 16.59 1.06 30.99 3.25
51 52 6.039382 AGCTTCGGGTTTAATGATCAATTACC 59.961 38.462 0.00 5.35 30.21 2.85
52 53 7.027778 AGCTTCGGGTTTAATGATCAATTAC 57.972 36.000 0.00 0.00 30.21 1.89
53 54 7.338196 TGAAGCTTCGGGTTTAATGATCAATTA 59.662 33.333 21.11 0.00 35.65 1.40
54 55 6.152661 TGAAGCTTCGGGTTTAATGATCAATT 59.847 34.615 21.11 0.00 35.65 2.32
55 56 5.652014 TGAAGCTTCGGGTTTAATGATCAAT 59.348 36.000 21.11 0.00 35.65 2.57
56 57 5.007034 TGAAGCTTCGGGTTTAATGATCAA 58.993 37.500 21.11 0.00 35.65 2.57
57 58 4.394920 GTGAAGCTTCGGGTTTAATGATCA 59.605 41.667 21.11 0.00 35.65 2.92
58 59 4.201920 GGTGAAGCTTCGGGTTTAATGATC 60.202 45.833 21.11 0.00 35.65 2.92
59 60 3.694566 GGTGAAGCTTCGGGTTTAATGAT 59.305 43.478 21.11 0.00 35.65 2.45
60 61 3.078837 GGTGAAGCTTCGGGTTTAATGA 58.921 45.455 21.11 0.00 35.65 2.57
61 62 2.159572 CGGTGAAGCTTCGGGTTTAATG 60.160 50.000 21.11 0.48 35.65 1.90
62 63 2.081462 CGGTGAAGCTTCGGGTTTAAT 58.919 47.619 21.11 0.00 35.65 1.40
63 64 1.070445 TCGGTGAAGCTTCGGGTTTAA 59.930 47.619 21.11 0.00 35.65 1.52
64 65 0.680618 TCGGTGAAGCTTCGGGTTTA 59.319 50.000 21.11 0.00 35.65 2.01
65 66 0.179040 TTCGGTGAAGCTTCGGGTTT 60.179 50.000 21.11 0.00 35.65 3.27
66 67 0.883370 GTTCGGTGAAGCTTCGGGTT 60.883 55.000 21.11 0.00 38.47 4.11
67 68 1.301479 GTTCGGTGAAGCTTCGGGT 60.301 57.895 21.11 0.00 0.00 5.28
68 69 1.301401 TGTTCGGTGAAGCTTCGGG 60.301 57.895 21.11 12.57 0.00 5.14
69 70 1.566018 GGTGTTCGGTGAAGCTTCGG 61.566 60.000 21.11 12.91 0.00 4.30
70 71 0.600255 AGGTGTTCGGTGAAGCTTCG 60.600 55.000 21.11 10.67 0.00 3.79
71 72 1.149148 GAGGTGTTCGGTGAAGCTTC 58.851 55.000 19.89 19.89 0.00 3.86
72 73 0.759346 AGAGGTGTTCGGTGAAGCTT 59.241 50.000 0.00 0.00 0.00 3.74
73 74 1.629043 TAGAGGTGTTCGGTGAAGCT 58.371 50.000 0.00 0.00 0.00 3.74
74 75 2.067013 GTTAGAGGTGTTCGGTGAAGC 58.933 52.381 0.00 0.00 0.00 3.86
75 76 3.057734 GTGTTAGAGGTGTTCGGTGAAG 58.942 50.000 0.00 0.00 0.00 3.02
76 77 2.224113 GGTGTTAGAGGTGTTCGGTGAA 60.224 50.000 0.00 0.00 0.00 3.18
77 78 1.342174 GGTGTTAGAGGTGTTCGGTGA 59.658 52.381 0.00 0.00 0.00 4.02
78 79 1.792006 GGTGTTAGAGGTGTTCGGTG 58.208 55.000 0.00 0.00 0.00 4.94
79 80 0.316204 CGGTGTTAGAGGTGTTCGGT 59.684 55.000 0.00 0.00 0.00 4.69
80 81 0.599558 TCGGTGTTAGAGGTGTTCGG 59.400 55.000 0.00 0.00 0.00 4.30
81 82 2.163815 AGATCGGTGTTAGAGGTGTTCG 59.836 50.000 0.00 0.00 0.00 3.95
82 83 3.870633 AGATCGGTGTTAGAGGTGTTC 57.129 47.619 0.00 0.00 0.00 3.18
83 84 4.525487 TGTTAGATCGGTGTTAGAGGTGTT 59.475 41.667 0.00 0.00 0.00 3.32
84 85 4.084287 TGTTAGATCGGTGTTAGAGGTGT 58.916 43.478 0.00 0.00 0.00 4.16
85 86 4.713824 TGTTAGATCGGTGTTAGAGGTG 57.286 45.455 0.00 0.00 0.00 4.00
86 87 5.476614 GTTTGTTAGATCGGTGTTAGAGGT 58.523 41.667 0.00 0.00 0.00 3.85
87 88 4.561606 CGTTTGTTAGATCGGTGTTAGAGG 59.438 45.833 0.00 0.00 0.00 3.69
88 89 5.060569 CACGTTTGTTAGATCGGTGTTAGAG 59.939 44.000 0.00 0.00 0.00 2.43
89 90 4.919168 CACGTTTGTTAGATCGGTGTTAGA 59.081 41.667 0.00 0.00 0.00 2.10
90 91 4.919168 TCACGTTTGTTAGATCGGTGTTAG 59.081 41.667 0.00 0.00 0.00 2.34
91 92 4.681025 GTCACGTTTGTTAGATCGGTGTTA 59.319 41.667 0.00 0.00 0.00 2.41
92 93 3.492011 GTCACGTTTGTTAGATCGGTGTT 59.508 43.478 0.00 0.00 0.00 3.32
93 94 3.054878 GTCACGTTTGTTAGATCGGTGT 58.945 45.455 0.00 0.00 0.00 4.16
94 95 3.314553 AGTCACGTTTGTTAGATCGGTG 58.685 45.455 0.00 0.00 0.00 4.94
95 96 3.655276 AGTCACGTTTGTTAGATCGGT 57.345 42.857 0.00 0.00 0.00 4.69
96 97 3.739300 ACAAGTCACGTTTGTTAGATCGG 59.261 43.478 0.00 0.00 35.32 4.18
97 98 4.966850 ACAAGTCACGTTTGTTAGATCG 57.033 40.909 0.00 0.00 35.32 3.69
98 99 7.404139 AACTACAAGTCACGTTTGTTAGATC 57.596 36.000 9.22 0.00 39.36 2.75
99 100 7.493320 TCAAACTACAAGTCACGTTTGTTAGAT 59.507 33.333 9.22 0.00 43.87 1.98
100 101 6.812656 TCAAACTACAAGTCACGTTTGTTAGA 59.187 34.615 9.22 0.12 43.87 2.10
101 102 6.996106 TCAAACTACAAGTCACGTTTGTTAG 58.004 36.000 9.22 7.60 43.87 2.34
102 103 6.964741 TCAAACTACAAGTCACGTTTGTTA 57.035 33.333 9.22 0.00 43.87 2.41
103 104 5.866335 TCAAACTACAAGTCACGTTTGTT 57.134 34.783 9.22 0.00 43.87 2.83
104 105 5.815740 AGATCAAACTACAAGTCACGTTTGT 59.184 36.000 8.96 8.96 43.87 2.83
105 106 6.287107 AGATCAAACTACAAGTCACGTTTG 57.713 37.500 7.25 7.25 44.47 2.93
106 107 6.920569 AAGATCAAACTACAAGTCACGTTT 57.079 33.333 0.00 0.00 0.00 3.60
107 108 6.920569 AAAGATCAAACTACAAGTCACGTT 57.079 33.333 0.00 0.00 0.00 3.99
108 109 7.870954 TCATAAAGATCAAACTACAAGTCACGT 59.129 33.333 0.00 0.00 0.00 4.49
109 110 8.239681 TCATAAAGATCAAACTACAAGTCACG 57.760 34.615 0.00 0.00 0.00 4.35
123 124 9.415544 CGTGTCTCATTCATATCATAAAGATCA 57.584 33.333 0.00 0.00 38.19 2.92
124 125 9.416794 ACGTGTCTCATTCATATCATAAAGATC 57.583 33.333 0.00 0.00 38.19 2.75
131 132 8.585018 TGGTAATACGTGTCTCATTCATATCAT 58.415 33.333 0.00 0.00 0.00 2.45
132 133 7.947282 TGGTAATACGTGTCTCATTCATATCA 58.053 34.615 0.00 0.00 0.00 2.15
133 134 8.864024 CATGGTAATACGTGTCTCATTCATATC 58.136 37.037 0.00 0.00 0.00 1.63
134 135 7.331934 GCATGGTAATACGTGTCTCATTCATAT 59.668 37.037 0.00 0.00 0.00 1.78
135 136 6.645003 GCATGGTAATACGTGTCTCATTCATA 59.355 38.462 0.00 0.00 0.00 2.15
136 137 5.466728 GCATGGTAATACGTGTCTCATTCAT 59.533 40.000 0.00 0.00 0.00 2.57
137 138 4.808895 GCATGGTAATACGTGTCTCATTCA 59.191 41.667 0.00 0.00 0.00 2.57
138 139 4.211374 GGCATGGTAATACGTGTCTCATTC 59.789 45.833 0.00 0.00 0.00 2.67
139 140 4.127171 GGCATGGTAATACGTGTCTCATT 58.873 43.478 0.00 0.00 0.00 2.57
140 141 3.133901 TGGCATGGTAATACGTGTCTCAT 59.866 43.478 0.00 0.00 33.27 2.90
141 142 2.498078 TGGCATGGTAATACGTGTCTCA 59.502 45.455 0.00 0.00 33.27 3.27
142 143 3.173668 TGGCATGGTAATACGTGTCTC 57.826 47.619 0.00 0.00 33.27 3.36
143 144 3.620427 TTGGCATGGTAATACGTGTCT 57.380 42.857 0.00 0.00 33.27 3.41
144 145 4.688511 TTTTGGCATGGTAATACGTGTC 57.311 40.909 0.00 0.00 32.72 3.67
204 207 5.127194 ACGTAGGCTAATCAGTCAATCAGAA 59.873 40.000 0.00 0.00 0.00 3.02
220 223 1.202770 AGCTTTTCCAACACGTAGGCT 60.203 47.619 0.00 0.00 0.00 4.58
257 260 2.325583 TGCGGTGTGAGAGAGTTTTT 57.674 45.000 0.00 0.00 0.00 1.94
269 272 1.301716 GTGACCACTGATGCGGTGT 60.302 57.895 5.74 0.00 38.92 4.16
338 341 7.382218 ACAAACGAATGATTAGCTTTTCTTTGG 59.618 33.333 0.00 0.00 0.00 3.28
342 346 8.946085 TGATACAAACGAATGATTAGCTTTTCT 58.054 29.630 0.00 0.00 0.00 2.52
408 444 4.563337 TGAGTGTACCATATGAGTACGC 57.437 45.455 25.11 25.11 46.65 4.42
410 446 7.172875 ACGACTATGAGTGTACCATATGAGTAC 59.827 40.741 19.50 19.50 40.43 2.73
411 447 7.222161 ACGACTATGAGTGTACCATATGAGTA 58.778 38.462 3.65 2.21 0.00 2.59
412 448 6.062749 ACGACTATGAGTGTACCATATGAGT 58.937 40.000 3.65 3.22 0.00 3.41
413 449 6.561737 ACGACTATGAGTGTACCATATGAG 57.438 41.667 3.65 0.00 0.00 2.90
415 451 5.920840 CCAACGACTATGAGTGTACCATATG 59.079 44.000 0.00 0.00 0.00 1.78
421 457 4.430137 TGACCAACGACTATGAGTGTAC 57.570 45.455 0.00 0.00 0.00 2.90
496 532 1.192312 CCATCGACGCATAATTGGACG 59.808 52.381 0.00 0.00 0.00 4.79
554 590 1.531423 GCCATGTGATGATAGGCCAG 58.469 55.000 5.01 0.00 39.42 4.85
555 591 3.731716 GCCATGTGATGATAGGCCA 57.268 52.632 5.01 0.00 39.42 5.36
557 593 0.403271 AGGGCCATGTGATGATAGGC 59.597 55.000 6.18 0.00 44.48 3.93
558 594 3.072915 TGTTAGGGCCATGTGATGATAGG 59.927 47.826 6.18 0.00 0.00 2.57
597 633 2.181954 AGAAAGCCAGAACTCTGCAG 57.818 50.000 7.63 7.63 42.47 4.41
598 634 2.645838 AAGAAAGCCAGAACTCTGCA 57.354 45.000 0.89 0.00 42.47 4.41
622 659 4.021280 TGGTGATTTGTTGGGTTGATGATG 60.021 41.667 0.00 0.00 0.00 3.07
658 695 0.535335 TCTGGCGTGTTGGGAGATAC 59.465 55.000 0.00 0.00 0.00 2.24
659 696 1.412710 GATCTGGCGTGTTGGGAGATA 59.587 52.381 0.00 0.00 0.00 1.98
798 835 2.046023 CTGCCATGGTTCCTCGCA 60.046 61.111 14.67 1.75 0.00 5.10
828 866 2.293170 TCGACAGCGAGATCAGATTCT 58.707 47.619 0.00 0.00 42.51 2.40
1317 1371 3.746949 CTGGAGAGCGGACATGCCC 62.747 68.421 0.00 0.00 34.65 5.36
1365 1428 2.034376 AGGCAGACGAGGACGACT 59.966 61.111 0.00 0.00 43.96 4.18
1563 1630 1.153823 CGGCTGGTACGTCTTGAGG 60.154 63.158 0.00 0.00 0.00 3.86
1698 1770 3.902086 GGCGCCGAGTACCTCTCC 61.902 72.222 12.58 0.00 39.84 3.71
1872 1949 1.436195 CCGGTATGTTGATGGCCACG 61.436 60.000 8.16 3.05 0.00 4.94
2100 2177 2.047655 TTGGTCGTGATGGTCGCC 60.048 61.111 0.00 0.00 0.00 5.54
2160 2237 0.616395 TGAACCTCCGTGGGCTCATA 60.616 55.000 0.00 0.00 41.11 2.15
2169 2246 1.285023 CGAGAACGTGAACCTCCGT 59.715 57.895 0.00 0.00 39.32 4.69
2400 2477 1.448922 CGTTGAAACCGCCCTGGAAA 61.449 55.000 0.00 0.00 42.00 3.13
2625 2702 1.321474 TTTCTGCAAGCCCACTTCAG 58.679 50.000 0.00 0.00 32.29 3.02
2627 2704 1.269778 GGTTTTCTGCAAGCCCACTTC 60.270 52.381 0.00 0.00 32.29 3.01
2681 2759 0.109597 CAGCGTGCCATTCAGAAACC 60.110 55.000 0.00 0.00 0.00 3.27
2728 2806 6.038161 CGATTTCATTATGGGCAAGAACTGTA 59.962 38.462 0.00 0.00 0.00 2.74
2763 2841 5.394115 GGGAATACTTTGTAAGTTGCATGGG 60.394 44.000 0.00 0.00 42.81 4.00
2775 2853 3.071892 TGTGAACGGAGGGAATACTTTGT 59.928 43.478 0.00 0.00 0.00 2.83
2776 2854 3.670625 TGTGAACGGAGGGAATACTTTG 58.329 45.455 0.00 0.00 0.00 2.77
2860 2939 7.056635 CCCTCTGTTCACAAATATAGGATGTT 58.943 38.462 0.00 0.00 0.00 2.71
2861 2940 6.386927 TCCCTCTGTTCACAAATATAGGATGT 59.613 38.462 0.00 0.00 0.00 3.06
2862 2941 6.830912 TCCCTCTGTTCACAAATATAGGATG 58.169 40.000 0.00 0.00 0.00 3.51
2863 2942 6.617371 ACTCCCTCTGTTCACAAATATAGGAT 59.383 38.462 0.00 0.00 0.00 3.24
2864 2943 5.964477 ACTCCCTCTGTTCACAAATATAGGA 59.036 40.000 0.00 0.00 0.00 2.94
2865 2944 6.240549 ACTCCCTCTGTTCACAAATATAGG 57.759 41.667 0.00 0.00 0.00 2.57
2866 2945 8.012957 ACTACTCCCTCTGTTCACAAATATAG 57.987 38.462 0.00 0.00 0.00 1.31
2923 3005 6.351711 AGATACATTGCAGCACAGATAAGAA 58.648 36.000 0.00 0.00 0.00 2.52
2934 3016 5.055144 TGATTCTCAGAGATACATTGCAGC 58.945 41.667 0.00 0.00 0.00 5.25
3000 3082 1.401552 TGCTTCGCTTCCATTGCATAC 59.598 47.619 0.00 0.00 0.00 2.39
3123 3206 9.305925 ACACATTTGAGACTGATTTTCTTTTTC 57.694 29.630 0.00 0.00 0.00 2.29
3126 3209 7.917505 GTGACACATTTGAGACTGATTTTCTTT 59.082 33.333 0.00 0.00 0.00 2.52
3129 3212 6.963796 AGTGACACATTTGAGACTGATTTTC 58.036 36.000 8.59 0.00 0.00 2.29
3198 3281 9.976776 TGGTATTTGTATATTTTGTGACCCTTA 57.023 29.630 0.00 0.00 0.00 2.69
3357 3443 4.470602 CCTTGGAAGAGTAGGTTGGTTTT 58.529 43.478 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.