Multiple sequence alignment - TraesCS7B01G332900

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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 TraesCS7B01G332900 chr7B 100.000 3209 0 0 1 3209 588284947 588288155 0.000000e+00 5927.0
1 TraesCS7B01G332900 chr7B 90.723 1908 159 8 301 2202 588261310 588263205 0.000000e+00 2527.0
2 TraesCS7B01G332900 chr7B 90.568 1760 150 8 450 2202 588252299 588254049 0.000000e+00 2316.0
3 TraesCS7B01G332900 chr7B 91.097 1696 150 1 507 2202 588239004 588240698 0.000000e+00 2294.0
4 TraesCS7B01G332900 chr7B 88.290 1281 150 0 922 2202 588084221 588085501 0.000000e+00 1535.0
5 TraesCS7B01G332900 chr7B 88.653 1225 134 1 978 2202 514062907 514061688 0.000000e+00 1487.0
6 TraesCS7B01G332900 chr7B 94.167 240 14 0 1 240 557195083 557195322 1.820000e-97 366.0
7 TraesCS7B01G332900 chr7B 94.406 143 7 1 307 449 588248391 588248532 5.390000e-53 219.0
8 TraesCS7B01G332900 chr7A 93.103 1653 94 8 492 2138 626611924 626613562 0.000000e+00 2403.0
9 TraesCS7B01G332900 chr7A 88.000 550 23 6 2627 3160 626614287 626614809 7.610000e-171 610.0
10 TraesCS7B01G332900 chr7A 77.905 783 154 11 990 1758 581140542 581141319 1.350000e-128 470.0
11 TraesCS7B01G332900 chr7A 85.195 385 22 11 2274 2642 626613894 626614259 2.350000e-96 363.0
12 TraesCS7B01G332900 chr7A 97.872 47 1 0 3163 3209 626614848 626614894 7.380000e-12 82.4
13 TraesCS7B01G332900 chr7D 90.178 1629 157 3 654 2281 544849055 544850681 0.000000e+00 2119.0
14 TraesCS7B01G332900 chr7D 88.993 1281 137 3 923 2202 544778091 544779368 0.000000e+00 1581.0
15 TraesCS7B01G332900 chr7D 88.424 1218 135 1 985 2202 486241595 486240384 0.000000e+00 1463.0
16 TraesCS7B01G332900 chr7D 90.698 387 19 7 2311 2691 544850677 544851052 1.720000e-137 499.0
17 TraesCS7B01G332900 chr7D 88.194 144 5 5 421 564 544848632 544848763 9.210000e-36 161.0
18 TraesCS7B01G332900 chr7D 88.889 117 12 1 318 434 544845579 544845694 3.340000e-30 143.0
19 TraesCS7B01G332900 chr7D 95.455 44 2 0 248 291 544786593 544786636 1.600000e-08 71.3
20 TraesCS7B01G332900 chr2B 95.868 242 10 0 1 242 216469888 216470129 3.000000e-105 392.0
21 TraesCS7B01G332900 chr2B 94.583 240 13 0 1 240 790114838 790114599 3.910000e-99 372.0
22 TraesCS7B01G332900 chr6B 95.378 238 11 0 1 238 280999547 280999784 2.340000e-101 379.0
23 TraesCS7B01G332900 chr6B 94.191 241 14 0 1 241 75528931 75528691 5.060000e-98 368.0
24 TraesCS7B01G332900 chr5B 95.021 241 12 0 1 241 668593880 668593640 2.340000e-101 379.0
25 TraesCS7B01G332900 chr1B 95.021 241 12 0 1 241 397661828 397661588 2.340000e-101 379.0
26 TraesCS7B01G332900 chr1B 95.000 240 12 0 1 240 565953691 565953452 8.400000e-101 377.0
27 TraesCS7B01G332900 chr4B 94.583 240 13 0 1 240 517495264 517495025 3.910000e-99 372.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G332900 chr7B 588284947 588288155 3208 False 5927.0 5927 100.00000 1 3209 1 chr7B.!!$F5 3208
1 TraesCS7B01G332900 chr7B 588261310 588263205 1895 False 2527.0 2527 90.72300 301 2202 1 chr7B.!!$F4 1901
2 TraesCS7B01G332900 chr7B 588239004 588240698 1694 False 2294.0 2294 91.09700 507 2202 1 chr7B.!!$F3 1695
3 TraesCS7B01G332900 chr7B 588084221 588085501 1280 False 1535.0 1535 88.29000 922 2202 1 chr7B.!!$F2 1280
4 TraesCS7B01G332900 chr7B 514061688 514062907 1219 True 1487.0 1487 88.65300 978 2202 1 chr7B.!!$R1 1224
5 TraesCS7B01G332900 chr7B 588248391 588254049 5658 False 1267.5 2316 92.48700 307 2202 2 chr7B.!!$F6 1895
6 TraesCS7B01G332900 chr7A 626611924 626614894 2970 False 864.6 2403 91.04250 492 3209 4 chr7A.!!$F2 2717
7 TraesCS7B01G332900 chr7A 581140542 581141319 777 False 470.0 470 77.90500 990 1758 1 chr7A.!!$F1 768
8 TraesCS7B01G332900 chr7D 544778091 544779368 1277 False 1581.0 1581 88.99300 923 2202 1 chr7D.!!$F1 1279
9 TraesCS7B01G332900 chr7D 486240384 486241595 1211 True 1463.0 1463 88.42400 985 2202 1 chr7D.!!$R1 1217
10 TraesCS7B01G332900 chr7D 544845579 544851052 5473 False 730.5 2119 89.48975 318 2691 4 chr7D.!!$F3 2373

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
288 289 0.034960 TGCGCCCAACCTTAATGCTA 60.035 50.000 4.18 0.0 0.0 3.49 F
290 291 1.266989 GCGCCCAACCTTAATGCTATC 59.733 52.381 0.00 0.0 0.0 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2122 9211 1.90970 TCAGGATCAACCAACTTGGC 58.090 50.000 7.81 0.0 42.67 4.52 R
2265 9357 4.27942 ACTGAAATGAGAAAAGGTGCTTCC 59.721 41.667 0.00 0.0 0.00 3.46 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.261035 GTAGGATAAATAATGAGATGGAGGAGA 57.739 37.037 0.00 0.00 0.00 3.71
27 28 8.378115 AGGATAAATAATGAGATGGAGGAGAG 57.622 38.462 0.00 0.00 0.00 3.20
28 29 8.182885 AGGATAAATAATGAGATGGAGGAGAGA 58.817 37.037 0.00 0.00 0.00 3.10
29 30 8.477256 GGATAAATAATGAGATGGAGGAGAGAG 58.523 40.741 0.00 0.00 0.00 3.20
30 31 9.253832 GATAAATAATGAGATGGAGGAGAGAGA 57.746 37.037 0.00 0.00 0.00 3.10
31 32 7.927683 AAATAATGAGATGGAGGAGAGAGAA 57.072 36.000 0.00 0.00 0.00 2.87
32 33 7.927683 AATAATGAGATGGAGGAGAGAGAAA 57.072 36.000 0.00 0.00 0.00 2.52
33 34 8.508969 AATAATGAGATGGAGGAGAGAGAAAT 57.491 34.615 0.00 0.00 0.00 2.17
34 35 6.423776 AATGAGATGGAGGAGAGAGAAATC 57.576 41.667 0.00 0.00 0.00 2.17
35 36 4.876580 TGAGATGGAGGAGAGAGAAATCA 58.123 43.478 0.00 0.00 0.00 2.57
36 37 5.465901 TGAGATGGAGGAGAGAGAAATCAT 58.534 41.667 0.00 0.00 0.00 2.45
37 38 6.618501 TGAGATGGAGGAGAGAGAAATCATA 58.381 40.000 0.00 0.00 0.00 2.15
38 39 7.071917 TGAGATGGAGGAGAGAGAAATCATAA 58.928 38.462 0.00 0.00 0.00 1.90
39 40 7.233144 TGAGATGGAGGAGAGAGAAATCATAAG 59.767 40.741 0.00 0.00 0.00 1.73
40 41 7.304479 AGATGGAGGAGAGAGAAATCATAAGA 58.696 38.462 0.00 0.00 0.00 2.10
41 42 6.975196 TGGAGGAGAGAGAAATCATAAGAG 57.025 41.667 0.00 0.00 0.00 2.85
42 43 6.677552 TGGAGGAGAGAGAAATCATAAGAGA 58.322 40.000 0.00 0.00 0.00 3.10
43 44 7.128751 TGGAGGAGAGAGAAATCATAAGAGAA 58.871 38.462 0.00 0.00 0.00 2.87
44 45 7.287466 TGGAGGAGAGAGAAATCATAAGAGAAG 59.713 40.741 0.00 0.00 0.00 2.85
45 46 7.255942 GGAGGAGAGAGAAATCATAAGAGAAGG 60.256 44.444 0.00 0.00 0.00 3.46
46 47 6.041979 AGGAGAGAGAAATCATAAGAGAAGGC 59.958 42.308 0.00 0.00 0.00 4.35
47 48 6.041979 GGAGAGAGAAATCATAAGAGAAGGCT 59.958 42.308 0.00 0.00 0.00 4.58
48 49 7.418942 GGAGAGAGAAATCATAAGAGAAGGCTT 60.419 40.741 0.00 0.00 0.00 4.35
49 50 7.274447 AGAGAGAAATCATAAGAGAAGGCTTG 58.726 38.462 3.46 0.00 0.00 4.01
50 51 6.956497 AGAGAAATCATAAGAGAAGGCTTGT 58.044 36.000 3.46 0.00 0.00 3.16
51 52 7.047271 AGAGAAATCATAAGAGAAGGCTTGTC 58.953 38.462 16.04 16.04 0.00 3.18
52 53 6.956497 AGAAATCATAAGAGAAGGCTTGTCT 58.044 36.000 20.19 20.19 34.32 3.41
53 54 7.401246 AGAAATCATAAGAGAAGGCTTGTCTT 58.599 34.615 33.39 33.39 44.39 3.01
54 55 7.887495 AGAAATCATAAGAGAAGGCTTGTCTTT 59.113 33.333 35.21 23.05 39.96 2.52
55 56 7.622893 AATCATAAGAGAAGGCTTGTCTTTC 57.377 36.000 35.21 9.11 39.96 2.62
56 57 5.491982 TCATAAGAGAAGGCTTGTCTTTCC 58.508 41.667 35.21 8.27 39.96 3.13
57 58 5.249393 TCATAAGAGAAGGCTTGTCTTTCCT 59.751 40.000 35.21 21.51 39.96 3.36
58 59 4.445557 AAGAGAAGGCTTGTCTTTCCTT 57.554 40.909 28.21 11.09 39.96 3.36
59 60 5.568620 AAGAGAAGGCTTGTCTTTCCTTA 57.431 39.130 28.21 0.00 39.96 2.69
60 61 5.568620 AGAGAAGGCTTGTCTTTCCTTAA 57.431 39.130 20.19 0.00 40.07 1.85
61 62 6.133253 AGAGAAGGCTTGTCTTTCCTTAAT 57.867 37.500 20.19 0.00 40.07 1.40
62 63 6.547402 AGAGAAGGCTTGTCTTTCCTTAATT 58.453 36.000 20.19 0.00 40.07 1.40
63 64 7.690256 AGAGAAGGCTTGTCTTTCCTTAATTA 58.310 34.615 20.19 0.00 40.07 1.40
64 65 8.164070 AGAGAAGGCTTGTCTTTCCTTAATTAA 58.836 33.333 20.19 0.00 40.07 1.40
65 66 8.341892 AGAAGGCTTGTCTTTCCTTAATTAAG 57.658 34.615 16.90 16.90 40.07 1.85
66 67 8.164070 AGAAGGCTTGTCTTTCCTTAATTAAGA 58.836 33.333 23.95 9.42 40.07 2.10
67 68 7.929941 AGGCTTGTCTTTCCTTAATTAAGAG 57.070 36.000 23.95 14.48 35.33 2.85
68 69 7.690256 AGGCTTGTCTTTCCTTAATTAAGAGA 58.310 34.615 23.95 16.29 35.33 3.10
69 70 8.164070 AGGCTTGTCTTTCCTTAATTAAGAGAA 58.836 33.333 23.95 20.40 35.33 2.87
70 71 8.454894 GGCTTGTCTTTCCTTAATTAAGAGAAG 58.545 37.037 23.95 22.74 45.09 2.85
71 72 8.454894 GCTTGTCTTTCCTTAATTAAGAGAAGG 58.545 37.037 23.95 21.79 43.73 3.46
72 73 7.923414 TGTCTTTCCTTAATTAAGAGAAGGC 57.077 36.000 23.95 23.82 39.74 4.35
73 74 7.458397 TGTCTTTCCTTAATTAAGAGAAGGCA 58.542 34.615 26.50 26.50 39.74 4.75
74 75 7.942341 TGTCTTTCCTTAATTAAGAGAAGGCAA 59.058 33.333 27.27 18.38 39.74 4.52
75 76 8.793592 GTCTTTCCTTAATTAAGAGAAGGCAAA 58.206 33.333 23.95 11.77 39.74 3.68
76 77 9.362151 TCTTTCCTTAATTAAGAGAAGGCAAAA 57.638 29.630 23.95 8.22 39.74 2.44
77 78 9.631452 CTTTCCTTAATTAAGAGAAGGCAAAAG 57.369 33.333 23.95 12.90 39.74 2.27
78 79 8.934023 TTCCTTAATTAAGAGAAGGCAAAAGA 57.066 30.769 23.95 7.37 39.74 2.52
79 80 9.533831 TTCCTTAATTAAGAGAAGGCAAAAGAT 57.466 29.630 23.95 0.00 39.74 2.40
80 81 8.960591 TCCTTAATTAAGAGAAGGCAAAAGATG 58.039 33.333 23.95 4.21 39.74 2.90
81 82 8.960591 CCTTAATTAAGAGAAGGCAAAAGATGA 58.039 33.333 23.95 0.00 33.73 2.92
101 102 8.116651 AGATGATATCTTAGCACAATACGTCT 57.883 34.615 3.98 0.00 35.76 4.18
102 103 8.240682 AGATGATATCTTAGCACAATACGTCTC 58.759 37.037 3.98 0.00 35.76 3.36
103 104 7.272037 TGATATCTTAGCACAATACGTCTCA 57.728 36.000 3.98 0.00 0.00 3.27
104 105 7.139392 TGATATCTTAGCACAATACGTCTCAC 58.861 38.462 3.98 0.00 0.00 3.51
105 106 4.106029 TCTTAGCACAATACGTCTCACC 57.894 45.455 0.00 0.00 0.00 4.02
106 107 3.508402 TCTTAGCACAATACGTCTCACCA 59.492 43.478 0.00 0.00 0.00 4.17
107 108 4.159693 TCTTAGCACAATACGTCTCACCAT 59.840 41.667 0.00 0.00 0.00 3.55
108 109 2.621338 AGCACAATACGTCTCACCATG 58.379 47.619 0.00 0.00 0.00 3.66
109 110 2.028112 AGCACAATACGTCTCACCATGT 60.028 45.455 0.00 0.00 0.00 3.21
110 111 2.742053 GCACAATACGTCTCACCATGTT 59.258 45.455 0.00 0.00 0.00 2.71
111 112 3.188460 GCACAATACGTCTCACCATGTTT 59.812 43.478 0.00 0.00 0.00 2.83
112 113 4.320202 GCACAATACGTCTCACCATGTTTT 60.320 41.667 0.00 0.00 0.00 2.43
113 114 5.757886 CACAATACGTCTCACCATGTTTTT 58.242 37.500 0.00 0.00 0.00 1.94
114 115 6.566942 GCACAATACGTCTCACCATGTTTTTA 60.567 38.462 0.00 0.00 0.00 1.52
115 116 7.015289 CACAATACGTCTCACCATGTTTTTAG 58.985 38.462 0.00 0.00 0.00 1.85
116 117 6.148811 ACAATACGTCTCACCATGTTTTTAGG 59.851 38.462 0.00 0.00 0.00 2.69
117 118 4.345859 ACGTCTCACCATGTTTTTAGGA 57.654 40.909 0.00 0.00 0.00 2.94
118 119 4.710324 ACGTCTCACCATGTTTTTAGGAA 58.290 39.130 0.00 0.00 0.00 3.36
119 120 5.313712 ACGTCTCACCATGTTTTTAGGAAT 58.686 37.500 0.00 0.00 0.00 3.01
120 121 6.469410 ACGTCTCACCATGTTTTTAGGAATA 58.531 36.000 0.00 0.00 0.00 1.75
121 122 6.938030 ACGTCTCACCATGTTTTTAGGAATAA 59.062 34.615 0.00 0.00 0.00 1.40
122 123 7.094933 ACGTCTCACCATGTTTTTAGGAATAAC 60.095 37.037 0.00 0.00 0.00 1.89
123 124 7.119262 CGTCTCACCATGTTTTTAGGAATAACT 59.881 37.037 0.00 0.00 0.00 2.24
124 125 9.444600 GTCTCACCATGTTTTTAGGAATAACTA 57.555 33.333 0.00 0.00 0.00 2.24
125 126 9.667107 TCTCACCATGTTTTTAGGAATAACTAG 57.333 33.333 0.00 0.00 0.00 2.57
126 127 9.449719 CTCACCATGTTTTTAGGAATAACTAGT 57.550 33.333 0.00 0.00 0.00 2.57
127 128 9.802039 TCACCATGTTTTTAGGAATAACTAGTT 57.198 29.630 13.68 13.68 0.00 2.24
154 155 9.620259 ATTGAAGATAAAACTAAGAGATGACCC 57.380 33.333 0.00 0.00 0.00 4.46
155 156 8.146053 TGAAGATAAAACTAAGAGATGACCCA 57.854 34.615 0.00 0.00 0.00 4.51
156 157 8.772250 TGAAGATAAAACTAAGAGATGACCCAT 58.228 33.333 0.00 0.00 0.00 4.00
157 158 9.620259 GAAGATAAAACTAAGAGATGACCCATT 57.380 33.333 0.00 0.00 0.00 3.16
158 159 8.970859 AGATAAAACTAAGAGATGACCCATTG 57.029 34.615 0.00 0.00 0.00 2.82
159 160 8.552296 AGATAAAACTAAGAGATGACCCATTGT 58.448 33.333 0.00 0.00 0.00 2.71
160 161 9.832445 GATAAAACTAAGAGATGACCCATTGTA 57.168 33.333 0.00 0.00 0.00 2.41
161 162 9.838339 ATAAAACTAAGAGATGACCCATTGTAG 57.162 33.333 0.00 0.00 0.00 2.74
162 163 7.496346 AAACTAAGAGATGACCCATTGTAGA 57.504 36.000 0.00 0.00 0.00 2.59
163 164 6.472686 ACTAAGAGATGACCCATTGTAGAC 57.527 41.667 0.00 0.00 0.00 2.59
164 165 5.958380 ACTAAGAGATGACCCATTGTAGACA 59.042 40.000 0.00 0.00 0.00 3.41
165 166 5.965033 AAGAGATGACCCATTGTAGACAT 57.035 39.130 0.00 0.00 0.00 3.06
166 167 5.287674 AGAGATGACCCATTGTAGACATG 57.712 43.478 0.00 0.00 0.00 3.21
167 168 4.718774 AGAGATGACCCATTGTAGACATGT 59.281 41.667 0.00 0.00 0.00 3.21
168 169 5.190528 AGAGATGACCCATTGTAGACATGTT 59.809 40.000 0.00 0.00 0.00 2.71
169 170 5.819991 AGATGACCCATTGTAGACATGTTT 58.180 37.500 0.00 0.00 0.00 2.83
170 171 6.248433 AGATGACCCATTGTAGACATGTTTT 58.752 36.000 0.00 0.00 0.00 2.43
171 172 6.721208 AGATGACCCATTGTAGACATGTTTTT 59.279 34.615 0.00 0.00 0.00 1.94
196 197 9.844790 TTTTGTCATCTCTAAATTACATGCAAG 57.155 29.630 0.00 0.00 0.00 4.01
197 198 8.791327 TTGTCATCTCTAAATTACATGCAAGA 57.209 30.769 0.00 0.00 0.00 3.02
198 199 8.969260 TGTCATCTCTAAATTACATGCAAGAT 57.031 30.769 0.00 0.00 0.00 2.40
199 200 9.399797 TGTCATCTCTAAATTACATGCAAGATT 57.600 29.630 0.00 0.00 0.00 2.40
212 213 9.679661 TTACATGCAAGATTTAAGATAAGACCA 57.320 29.630 0.00 0.00 0.00 4.02
213 214 7.989826 ACATGCAAGATTTAAGATAAGACCAC 58.010 34.615 0.00 0.00 0.00 4.16
214 215 7.067494 ACATGCAAGATTTAAGATAAGACCACC 59.933 37.037 0.00 0.00 0.00 4.61
215 216 6.721318 TGCAAGATTTAAGATAAGACCACCT 58.279 36.000 0.00 0.00 0.00 4.00
216 217 7.175104 TGCAAGATTTAAGATAAGACCACCTT 58.825 34.615 0.00 0.00 38.87 3.50
217 218 8.325787 TGCAAGATTTAAGATAAGACCACCTTA 58.674 33.333 0.00 0.00 41.23 2.69
228 229 5.359194 AAGACCACCTTATCGATCATTGT 57.641 39.130 0.00 0.00 32.24 2.71
229 230 6.479972 AAGACCACCTTATCGATCATTGTA 57.520 37.500 0.00 0.00 32.24 2.41
230 231 5.844004 AGACCACCTTATCGATCATTGTAC 58.156 41.667 0.00 0.00 0.00 2.90
231 232 5.362717 AGACCACCTTATCGATCATTGTACA 59.637 40.000 0.00 0.00 0.00 2.90
232 233 6.042093 AGACCACCTTATCGATCATTGTACAT 59.958 38.462 0.00 0.00 0.00 2.29
233 234 5.991606 ACCACCTTATCGATCATTGTACATG 59.008 40.000 0.00 0.00 0.00 3.21
234 235 5.106948 CCACCTTATCGATCATTGTACATGC 60.107 44.000 0.00 0.00 0.00 4.06
235 236 4.997395 ACCTTATCGATCATTGTACATGCC 59.003 41.667 0.00 0.00 0.00 4.40
236 237 4.393062 CCTTATCGATCATTGTACATGCCC 59.607 45.833 0.00 0.00 0.00 5.36
237 238 3.777106 ATCGATCATTGTACATGCCCT 57.223 42.857 0.00 0.00 0.00 5.19
238 239 4.890158 ATCGATCATTGTACATGCCCTA 57.110 40.909 0.00 0.00 0.00 3.53
239 240 4.681074 TCGATCATTGTACATGCCCTAA 57.319 40.909 0.00 0.00 0.00 2.69
240 241 4.631131 TCGATCATTGTACATGCCCTAAG 58.369 43.478 0.00 0.00 0.00 2.18
241 242 3.187227 CGATCATTGTACATGCCCTAAGC 59.813 47.826 0.00 0.00 44.14 3.09
250 251 2.744709 GCCCTAAGCGACCGCAAA 60.745 61.111 16.97 3.05 44.88 3.68
251 252 2.329614 GCCCTAAGCGACCGCAAAA 61.330 57.895 16.97 0.57 44.88 2.44
252 253 1.654023 GCCCTAAGCGACCGCAAAAT 61.654 55.000 16.97 2.65 44.88 1.82
253 254 1.658994 CCCTAAGCGACCGCAAAATA 58.341 50.000 16.97 3.63 44.88 1.40
254 255 1.597663 CCCTAAGCGACCGCAAAATAG 59.402 52.381 16.97 11.83 44.88 1.73
255 256 1.597663 CCTAAGCGACCGCAAAATAGG 59.402 52.381 16.97 16.08 44.88 2.57
256 257 2.546778 CTAAGCGACCGCAAAATAGGA 58.453 47.619 16.97 0.00 44.88 2.94
257 258 1.816074 AAGCGACCGCAAAATAGGAA 58.184 45.000 16.97 0.00 44.88 3.36
258 259 2.038387 AGCGACCGCAAAATAGGAAT 57.962 45.000 16.97 0.00 44.88 3.01
259 260 1.940613 AGCGACCGCAAAATAGGAATC 59.059 47.619 16.97 0.00 44.88 2.52
260 261 1.332904 GCGACCGCAAAATAGGAATCG 60.333 52.381 9.73 0.00 41.49 3.34
261 262 1.332904 CGACCGCAAAATAGGAATCGC 60.333 52.381 0.00 0.00 0.00 4.58
262 263 1.002792 GACCGCAAAATAGGAATCGCC 60.003 52.381 0.00 0.00 0.00 5.54
263 264 0.310854 CCGCAAAATAGGAATCGCCC 59.689 55.000 0.00 0.00 37.37 6.13
264 265 1.021202 CGCAAAATAGGAATCGCCCA 58.979 50.000 0.00 0.00 37.37 5.36
265 266 1.608590 CGCAAAATAGGAATCGCCCAT 59.391 47.619 0.00 0.00 37.37 4.00
266 267 2.811431 CGCAAAATAGGAATCGCCCATA 59.189 45.455 0.00 0.00 37.37 2.74
267 268 3.120199 CGCAAAATAGGAATCGCCCATAG 60.120 47.826 0.00 0.00 37.37 2.23
268 269 3.821033 GCAAAATAGGAATCGCCCATAGT 59.179 43.478 0.00 0.00 37.37 2.12
269 270 4.278419 GCAAAATAGGAATCGCCCATAGTT 59.722 41.667 0.00 0.00 37.37 2.24
270 271 5.762045 CAAAATAGGAATCGCCCATAGTTG 58.238 41.667 0.00 0.00 37.37 3.16
271 272 2.543777 TAGGAATCGCCCATAGTTGC 57.456 50.000 0.00 0.00 37.37 4.17
277 278 2.753849 GCCCATAGTTGCGCCCAA 60.754 61.111 4.18 0.00 0.00 4.12
285 286 3.416955 GTTGCGCCCAACCTTAATG 57.583 52.632 4.18 0.00 44.37 1.90
286 287 0.735978 GTTGCGCCCAACCTTAATGC 60.736 55.000 4.18 0.00 44.37 3.56
287 288 0.897863 TTGCGCCCAACCTTAATGCT 60.898 50.000 4.18 0.00 0.00 3.79
288 289 0.034960 TGCGCCCAACCTTAATGCTA 60.035 50.000 4.18 0.00 0.00 3.49
289 290 1.318576 GCGCCCAACCTTAATGCTAT 58.681 50.000 0.00 0.00 0.00 2.97
290 291 1.266989 GCGCCCAACCTTAATGCTATC 59.733 52.381 0.00 0.00 0.00 2.08
291 292 1.531149 CGCCCAACCTTAATGCTATCG 59.469 52.381 0.00 0.00 0.00 2.92
292 293 1.266989 GCCCAACCTTAATGCTATCGC 59.733 52.381 0.00 0.00 0.00 4.58
293 294 1.880027 CCCAACCTTAATGCTATCGCC 59.120 52.381 0.00 0.00 34.43 5.54
294 295 1.880027 CCAACCTTAATGCTATCGCCC 59.120 52.381 0.00 0.00 34.43 6.13
295 296 2.571212 CAACCTTAATGCTATCGCCCA 58.429 47.619 0.00 0.00 34.43 5.36
296 297 3.149196 CAACCTTAATGCTATCGCCCAT 58.851 45.455 0.00 0.00 34.43 4.00
297 298 4.323417 CAACCTTAATGCTATCGCCCATA 58.677 43.478 0.00 0.00 34.43 2.74
298 299 4.207891 ACCTTAATGCTATCGCCCATAG 57.792 45.455 0.00 0.00 38.06 2.23
299 300 3.583086 ACCTTAATGCTATCGCCCATAGT 59.417 43.478 0.00 0.00 37.41 2.12
300 301 4.041691 ACCTTAATGCTATCGCCCATAGTT 59.958 41.667 0.00 0.00 37.41 2.24
301 302 5.003804 CCTTAATGCTATCGCCCATAGTTT 58.996 41.667 0.00 0.00 37.41 2.66
302 303 5.122396 CCTTAATGCTATCGCCCATAGTTTC 59.878 44.000 0.00 0.00 37.41 2.78
303 304 2.543777 TGCTATCGCCCATAGTTTCC 57.456 50.000 0.00 0.00 37.41 3.13
372 374 7.098074 AGTAAAGTACAGAGAAATCTACCGG 57.902 40.000 0.00 0.00 0.00 5.28
588 7317 3.839432 GAGAAGGGCGGAGGTCGG 61.839 72.222 0.00 0.00 39.69 4.79
781 7720 2.750237 GTGGCGGCGGATTCCTTT 60.750 61.111 9.78 0.00 0.00 3.11
935 7879 2.159599 GGTCTCTTTGATTTGCAGCTCG 60.160 50.000 0.00 0.00 0.00 5.03
1432 8385 1.337823 ACGATGACGGGGTTCTTGAAG 60.338 52.381 0.00 0.00 44.46 3.02
1532 8488 5.235516 CGGTGAAGTTGTCTACATAAAGGT 58.764 41.667 0.00 0.00 0.00 3.50
1983 8939 3.181495 TGTTTACTGGGAAAAGCACAACG 60.181 43.478 0.00 0.00 0.00 4.10
2122 9211 3.721087 ACTTGGAGAACAATACCAGGG 57.279 47.619 0.00 0.00 38.65 4.45
2265 9357 6.052840 ACTCGCTGTATATTTCATTTGCAG 57.947 37.500 0.00 0.00 0.00 4.41
2291 9383 6.225981 AGCACCTTTTCTCATTTCAGTTTT 57.774 33.333 0.00 0.00 0.00 2.43
2332 9491 9.624373 ATGCTTCTCACAGAATAAGATAAATGT 57.376 29.630 0.00 0.00 33.13 2.71
2348 9507 4.486125 AAATGTGCTTCCAAACCTTGTT 57.514 36.364 0.00 0.00 0.00 2.83
2352 9511 4.274147 TGTGCTTCCAAACCTTGTTCTTA 58.726 39.130 0.00 0.00 0.00 2.10
2399 9558 3.304928 GCTTGAGTGTGCTAATGTTTGCT 60.305 43.478 1.32 0.00 0.00 3.91
2400 9559 4.083324 GCTTGAGTGTGCTAATGTTTGCTA 60.083 41.667 1.32 0.00 0.00 3.49
2401 9560 5.562696 GCTTGAGTGTGCTAATGTTTGCTAA 60.563 40.000 1.32 0.00 0.00 3.09
2402 9561 6.573664 TTGAGTGTGCTAATGTTTGCTAAT 57.426 33.333 1.32 0.00 0.00 1.73
2433 9592 2.354259 CTCTTCACACTGGCAGGATTC 58.646 52.381 20.34 0.00 0.00 2.52
2514 9673 3.136763 CTGATATTCTGTCTTGCGGCAT 58.863 45.455 2.28 0.00 0.00 4.40
2550 9719 3.084039 GAGATGTTGCCAATGGACTTGA 58.916 45.455 2.05 0.00 36.97 3.02
2556 9725 3.431673 TGCCAATGGACTTGACATGTA 57.568 42.857 2.05 0.00 36.97 2.29
2557 9726 3.346315 TGCCAATGGACTTGACATGTAG 58.654 45.455 2.05 0.00 36.97 2.74
2558 9727 3.244875 TGCCAATGGACTTGACATGTAGT 60.245 43.478 2.05 0.00 36.97 2.73
2559 9728 4.019771 TGCCAATGGACTTGACATGTAGTA 60.020 41.667 2.05 0.00 36.97 1.82
2566 9735 6.243148 TGGACTTGACATGTAGTACTAGTCA 58.757 40.000 20.28 15.75 37.43 3.41
2709 9933 4.392138 CGTCTAGGGTCTTTGAAATTGACC 59.608 45.833 7.59 7.59 46.83 4.02
2721 9945 2.424842 AATTGACCGAAGCTGGGGCA 62.425 55.000 8.52 8.52 42.07 5.36
2744 9968 4.717280 ACCCCTTCTCTTCCTGTTACTATG 59.283 45.833 0.00 0.00 0.00 2.23
2846 10070 5.804692 TTTTACAGCTTCACAACTTTCGA 57.195 34.783 0.00 0.00 0.00 3.71
2847 10071 5.804692 TTTACAGCTTCACAACTTTCGAA 57.195 34.783 0.00 0.00 0.00 3.71
2848 10072 6.371809 TTTACAGCTTCACAACTTTCGAAT 57.628 33.333 0.00 0.00 0.00 3.34
2849 10073 4.900635 ACAGCTTCACAACTTTCGAATT 57.099 36.364 0.00 0.00 0.00 2.17
2850 10074 4.601019 ACAGCTTCACAACTTTCGAATTG 58.399 39.130 9.42 9.42 0.00 2.32
2851 10075 4.096382 ACAGCTTCACAACTTTCGAATTGT 59.904 37.500 10.60 10.60 39.63 2.71
2852 10076 5.295787 ACAGCTTCACAACTTTCGAATTGTA 59.704 36.000 14.91 2.80 36.92 2.41
2853 10077 6.017109 ACAGCTTCACAACTTTCGAATTGTAT 60.017 34.615 14.91 1.20 36.92 2.29
2854 10078 7.172532 ACAGCTTCACAACTTTCGAATTGTATA 59.827 33.333 14.91 5.98 36.92 1.47
2880 10104 4.545823 TTTTACAGCCTCACAACTTTCG 57.454 40.909 0.00 0.00 0.00 3.46
2976 10201 7.587757 GTGTATCAGCTGTTTTCTTTAACTGTG 59.412 37.037 14.67 0.00 31.79 3.66
2994 10219 7.492352 AACTGTGGTTCAGAACAAATACTAC 57.508 36.000 15.36 0.00 46.27 2.73
3020 10245 6.210584 CCCCATATAAGTTTTTGACAGTTGGT 59.789 38.462 0.00 0.00 0.00 3.67
3042 10269 3.561310 TCGTGACCACTATACCGTATGAC 59.439 47.826 0.98 0.00 0.00 3.06
3069 10296 2.906182 TAACGCAGCATCAGCCTCGG 62.906 60.000 0.00 0.00 43.56 4.63
3093 10320 2.843730 TGGTCACTGTTGGTATGGCTAT 59.156 45.455 0.00 0.00 0.00 2.97
3104 10331 5.152623 TGGTATGGCTATATTCTGCTGTC 57.847 43.478 0.00 0.00 0.00 3.51
3107 10334 3.117491 TGGCTATATTCTGCTGTCAGC 57.883 47.619 18.32 18.32 42.82 4.26
3127 10354 4.037208 CAGCAAATGTATGTCTTCCATCCC 59.963 45.833 0.00 0.00 34.86 3.85
3152 10379 3.003480 GGTGCTCAAGTGAACCTGATAC 58.997 50.000 0.00 0.00 0.00 2.24
3153 10380 3.307059 GGTGCTCAAGTGAACCTGATACT 60.307 47.826 0.00 0.00 0.00 2.12
3157 10384 5.239306 TGCTCAAGTGAACCTGATACTTTTG 59.761 40.000 0.00 0.00 32.69 2.44
3159 10386 5.690865 TCAAGTGAACCTGATACTTTTGGT 58.309 37.500 0.00 0.00 32.69 3.67
3160 10387 5.530915 TCAAGTGAACCTGATACTTTTGGTG 59.469 40.000 0.00 0.00 32.69 4.17
3161 10388 4.398319 AGTGAACCTGATACTTTTGGTGG 58.602 43.478 0.00 0.00 32.53 4.61
3195 10459 6.922957 TGGTGTGTCAAAAAGAAATCATTAGC 59.077 34.615 0.00 0.00 0.00 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 8.182885 TCTCTCCTCCATCTCATTATTTATCCT 58.817 37.037 0.00 0.00 0.00 3.24
3 4 8.372877 TCTCTCCTCCATCTCATTATTTATCC 57.627 38.462 0.00 0.00 0.00 2.59
4 5 9.253832 TCTCTCTCCTCCATCTCATTATTTATC 57.746 37.037 0.00 0.00 0.00 1.75
5 6 9.612879 TTCTCTCTCCTCCATCTCATTATTTAT 57.387 33.333 0.00 0.00 0.00 1.40
6 7 9.439461 TTTCTCTCTCCTCCATCTCATTATTTA 57.561 33.333 0.00 0.00 0.00 1.40
7 8 7.927683 TTCTCTCTCCTCCATCTCATTATTT 57.072 36.000 0.00 0.00 0.00 1.40
9 10 7.733955 TGATTTCTCTCTCCTCCATCTCATTAT 59.266 37.037 0.00 0.00 0.00 1.28
10 11 7.071917 TGATTTCTCTCTCCTCCATCTCATTA 58.928 38.462 0.00 0.00 0.00 1.90
11 12 5.904169 TGATTTCTCTCTCCTCCATCTCATT 59.096 40.000 0.00 0.00 0.00 2.57
12 13 5.465901 TGATTTCTCTCTCCTCCATCTCAT 58.534 41.667 0.00 0.00 0.00 2.90
13 14 4.876580 TGATTTCTCTCTCCTCCATCTCA 58.123 43.478 0.00 0.00 0.00 3.27
14 15 7.451255 TCTTATGATTTCTCTCTCCTCCATCTC 59.549 40.741 0.00 0.00 0.00 2.75
15 16 7.304479 TCTTATGATTTCTCTCTCCTCCATCT 58.696 38.462 0.00 0.00 0.00 2.90
16 17 7.451255 TCTCTTATGATTTCTCTCTCCTCCATC 59.549 40.741 0.00 0.00 0.00 3.51
17 18 7.304479 TCTCTTATGATTTCTCTCTCCTCCAT 58.696 38.462 0.00 0.00 0.00 3.41
18 19 6.677552 TCTCTTATGATTTCTCTCTCCTCCA 58.322 40.000 0.00 0.00 0.00 3.86
19 20 7.255942 CCTTCTCTTATGATTTCTCTCTCCTCC 60.256 44.444 0.00 0.00 0.00 4.30
20 21 7.661040 CCTTCTCTTATGATTTCTCTCTCCTC 58.339 42.308 0.00 0.00 0.00 3.71
21 22 6.041979 GCCTTCTCTTATGATTTCTCTCTCCT 59.958 42.308 0.00 0.00 0.00 3.69
22 23 6.041979 AGCCTTCTCTTATGATTTCTCTCTCC 59.958 42.308 0.00 0.00 0.00 3.71
23 24 7.054491 AGCCTTCTCTTATGATTTCTCTCTC 57.946 40.000 0.00 0.00 0.00 3.20
24 25 7.092935 ACAAGCCTTCTCTTATGATTTCTCTCT 60.093 37.037 0.00 0.00 0.00 3.10
25 26 7.047271 ACAAGCCTTCTCTTATGATTTCTCTC 58.953 38.462 0.00 0.00 0.00 3.20
26 27 6.956497 ACAAGCCTTCTCTTATGATTTCTCT 58.044 36.000 0.00 0.00 0.00 3.10
27 28 7.047271 AGACAAGCCTTCTCTTATGATTTCTC 58.953 38.462 0.00 0.00 0.00 2.87
28 29 6.956497 AGACAAGCCTTCTCTTATGATTTCT 58.044 36.000 0.00 0.00 0.00 2.52
29 30 7.622893 AAGACAAGCCTTCTCTTATGATTTC 57.377 36.000 0.00 0.00 0.00 2.17
30 31 7.121907 GGAAAGACAAGCCTTCTCTTATGATTT 59.878 37.037 0.00 0.00 0.00 2.17
31 32 6.601217 GGAAAGACAAGCCTTCTCTTATGATT 59.399 38.462 0.00 0.00 0.00 2.57
32 33 6.069731 AGGAAAGACAAGCCTTCTCTTATGAT 60.070 38.462 0.00 0.00 0.00 2.45
33 34 5.249393 AGGAAAGACAAGCCTTCTCTTATGA 59.751 40.000 0.00 0.00 0.00 2.15
34 35 5.495640 AGGAAAGACAAGCCTTCTCTTATG 58.504 41.667 0.00 0.00 0.00 1.90
35 36 5.770685 AGGAAAGACAAGCCTTCTCTTAT 57.229 39.130 0.00 0.00 0.00 1.73
36 37 5.568620 AAGGAAAGACAAGCCTTCTCTTA 57.431 39.130 0.00 0.00 37.46 2.10
37 38 4.445557 AAGGAAAGACAAGCCTTCTCTT 57.554 40.909 0.00 0.00 37.46 2.85
38 39 5.568620 TTAAGGAAAGACAAGCCTTCTCT 57.431 39.130 0.00 0.00 40.96 3.10
39 40 6.825944 AATTAAGGAAAGACAAGCCTTCTC 57.174 37.500 0.00 0.00 40.96 2.87
40 41 8.164070 TCTTAATTAAGGAAAGACAAGCCTTCT 58.836 33.333 22.11 0.00 40.96 2.85
41 42 8.336801 TCTTAATTAAGGAAAGACAAGCCTTC 57.663 34.615 22.11 0.00 40.96 3.46
42 43 8.164070 TCTCTTAATTAAGGAAAGACAAGCCTT 58.836 33.333 22.11 0.00 43.92 4.35
43 44 7.690256 TCTCTTAATTAAGGAAAGACAAGCCT 58.310 34.615 22.11 0.00 34.14 4.58
44 45 7.923414 TCTCTTAATTAAGGAAAGACAAGCC 57.077 36.000 22.11 0.00 34.14 4.35
45 46 8.454894 CCTTCTCTTAATTAAGGAAAGACAAGC 58.545 37.037 25.90 0.00 42.01 4.01
46 47 8.454894 GCCTTCTCTTAATTAAGGAAAGACAAG 58.545 37.037 25.90 16.80 42.01 3.16
47 48 7.942341 TGCCTTCTCTTAATTAAGGAAAGACAA 59.058 33.333 25.90 15.76 42.01 3.18
48 49 7.458397 TGCCTTCTCTTAATTAAGGAAAGACA 58.542 34.615 25.90 21.70 42.01 3.41
49 50 7.923414 TGCCTTCTCTTAATTAAGGAAAGAC 57.077 36.000 25.90 20.25 42.01 3.01
50 51 8.934023 TTTGCCTTCTCTTAATTAAGGAAAGA 57.066 30.769 25.90 19.02 42.01 2.52
51 52 9.631452 CTTTTGCCTTCTCTTAATTAAGGAAAG 57.369 33.333 22.11 21.75 42.01 2.62
52 53 9.362151 TCTTTTGCCTTCTCTTAATTAAGGAAA 57.638 29.630 22.11 15.67 42.01 3.13
53 54 8.934023 TCTTTTGCCTTCTCTTAATTAAGGAA 57.066 30.769 22.11 20.51 42.01 3.36
54 55 8.960591 CATCTTTTGCCTTCTCTTAATTAAGGA 58.039 33.333 22.11 15.83 42.01 3.36
55 56 8.960591 TCATCTTTTGCCTTCTCTTAATTAAGG 58.039 33.333 22.11 11.67 42.27 2.69
76 77 8.116651 AGACGTATTGTGCTAAGATATCATCT 57.883 34.615 5.32 0.00 42.61 2.90
77 78 8.023706 TGAGACGTATTGTGCTAAGATATCATC 58.976 37.037 5.32 0.00 0.00 2.92
78 79 7.810282 GTGAGACGTATTGTGCTAAGATATCAT 59.190 37.037 5.32 0.00 0.00 2.45
79 80 7.139392 GTGAGACGTATTGTGCTAAGATATCA 58.861 38.462 5.32 0.00 0.00 2.15
80 81 6.583050 GGTGAGACGTATTGTGCTAAGATATC 59.417 42.308 0.00 0.00 0.00 1.63
81 82 6.040504 TGGTGAGACGTATTGTGCTAAGATAT 59.959 38.462 0.00 0.00 0.00 1.63
82 83 5.358725 TGGTGAGACGTATTGTGCTAAGATA 59.641 40.000 0.00 0.00 0.00 1.98
83 84 4.159693 TGGTGAGACGTATTGTGCTAAGAT 59.840 41.667 0.00 0.00 0.00 2.40
84 85 3.508402 TGGTGAGACGTATTGTGCTAAGA 59.492 43.478 0.00 0.00 0.00 2.10
85 86 3.845178 TGGTGAGACGTATTGTGCTAAG 58.155 45.455 0.00 0.00 0.00 2.18
86 87 3.945981 TGGTGAGACGTATTGTGCTAA 57.054 42.857 0.00 0.00 0.00 3.09
87 88 3.194755 ACATGGTGAGACGTATTGTGCTA 59.805 43.478 0.00 0.00 0.00 3.49
88 89 2.028112 ACATGGTGAGACGTATTGTGCT 60.028 45.455 0.00 0.00 0.00 4.40
89 90 2.346803 ACATGGTGAGACGTATTGTGC 58.653 47.619 0.00 0.00 0.00 4.57
90 91 5.356882 AAAACATGGTGAGACGTATTGTG 57.643 39.130 0.00 0.00 0.00 3.33
91 92 6.148811 CCTAAAAACATGGTGAGACGTATTGT 59.851 38.462 0.00 0.00 0.00 2.71
92 93 6.370442 TCCTAAAAACATGGTGAGACGTATTG 59.630 38.462 0.00 0.00 0.00 1.90
93 94 6.469410 TCCTAAAAACATGGTGAGACGTATT 58.531 36.000 0.00 0.00 0.00 1.89
94 95 6.045072 TCCTAAAAACATGGTGAGACGTAT 57.955 37.500 0.00 0.00 0.00 3.06
95 96 5.471556 TCCTAAAAACATGGTGAGACGTA 57.528 39.130 0.00 0.00 0.00 3.57
96 97 4.345859 TCCTAAAAACATGGTGAGACGT 57.654 40.909 0.00 0.00 0.00 4.34
97 98 5.880054 ATTCCTAAAAACATGGTGAGACG 57.120 39.130 0.00 0.00 0.00 4.18
98 99 8.336801 AGTTATTCCTAAAAACATGGTGAGAC 57.663 34.615 0.00 0.00 0.00 3.36
99 100 9.667107 CTAGTTATTCCTAAAAACATGGTGAGA 57.333 33.333 0.00 0.00 0.00 3.27
100 101 9.449719 ACTAGTTATTCCTAAAAACATGGTGAG 57.550 33.333 0.00 0.00 0.00 3.51
101 102 9.802039 AACTAGTTATTCCTAAAAACATGGTGA 57.198 29.630 6.26 0.00 0.00 4.02
128 129 9.620259 GGGTCATCTCTTAGTTTTATCTTCAAT 57.380 33.333 0.00 0.00 0.00 2.57
129 130 8.602424 TGGGTCATCTCTTAGTTTTATCTTCAA 58.398 33.333 0.00 0.00 0.00 2.69
130 131 8.146053 TGGGTCATCTCTTAGTTTTATCTTCA 57.854 34.615 0.00 0.00 0.00 3.02
131 132 9.620259 AATGGGTCATCTCTTAGTTTTATCTTC 57.380 33.333 0.00 0.00 0.00 2.87
132 133 9.401058 CAATGGGTCATCTCTTAGTTTTATCTT 57.599 33.333 0.00 0.00 0.00 2.40
133 134 8.552296 ACAATGGGTCATCTCTTAGTTTTATCT 58.448 33.333 0.00 0.00 0.00 1.98
134 135 8.738645 ACAATGGGTCATCTCTTAGTTTTATC 57.261 34.615 0.00 0.00 0.00 1.75
135 136 9.838339 CTACAATGGGTCATCTCTTAGTTTTAT 57.162 33.333 0.00 0.00 0.00 1.40
136 137 9.042450 TCTACAATGGGTCATCTCTTAGTTTTA 57.958 33.333 0.00 0.00 0.00 1.52
137 138 7.824779 GTCTACAATGGGTCATCTCTTAGTTTT 59.175 37.037 0.00 0.00 0.00 2.43
138 139 7.038302 TGTCTACAATGGGTCATCTCTTAGTTT 60.038 37.037 0.00 0.00 0.00 2.66
139 140 6.440647 TGTCTACAATGGGTCATCTCTTAGTT 59.559 38.462 0.00 0.00 0.00 2.24
140 141 5.958380 TGTCTACAATGGGTCATCTCTTAGT 59.042 40.000 0.00 0.00 0.00 2.24
141 142 6.471233 TGTCTACAATGGGTCATCTCTTAG 57.529 41.667 0.00 0.00 0.00 2.18
142 143 6.384015 ACATGTCTACAATGGGTCATCTCTTA 59.616 38.462 0.00 0.00 0.00 2.10
143 144 5.190528 ACATGTCTACAATGGGTCATCTCTT 59.809 40.000 0.00 0.00 0.00 2.85
144 145 4.718774 ACATGTCTACAATGGGTCATCTCT 59.281 41.667 0.00 0.00 0.00 3.10
145 146 5.028549 ACATGTCTACAATGGGTCATCTC 57.971 43.478 0.00 0.00 0.00 2.75
146 147 5.441718 AACATGTCTACAATGGGTCATCT 57.558 39.130 0.00 0.00 0.00 2.90
147 148 6.515272 AAAACATGTCTACAATGGGTCATC 57.485 37.500 0.00 0.00 0.00 2.92
148 149 6.916360 AAAAACATGTCTACAATGGGTCAT 57.084 33.333 0.00 0.00 0.00 3.06
170 171 9.844790 CTTGCATGTAATTTAGAGATGACAAAA 57.155 29.630 0.00 0.00 0.00 2.44
171 172 9.230122 TCTTGCATGTAATTTAGAGATGACAAA 57.770 29.630 0.00 0.00 0.00 2.83
172 173 8.791327 TCTTGCATGTAATTTAGAGATGACAA 57.209 30.769 0.00 0.00 0.00 3.18
173 174 8.969260 ATCTTGCATGTAATTTAGAGATGACA 57.031 30.769 0.00 0.00 0.00 3.58
186 187 9.679661 TGGTCTTATCTTAAATCTTGCATGTAA 57.320 29.630 0.00 0.00 0.00 2.41
187 188 9.109393 GTGGTCTTATCTTAAATCTTGCATGTA 57.891 33.333 0.00 0.00 0.00 2.29
188 189 7.067494 GGTGGTCTTATCTTAAATCTTGCATGT 59.933 37.037 0.00 0.00 0.00 3.21
189 190 7.284034 AGGTGGTCTTATCTTAAATCTTGCATG 59.716 37.037 0.00 0.00 0.00 4.06
190 191 7.349598 AGGTGGTCTTATCTTAAATCTTGCAT 58.650 34.615 0.00 0.00 0.00 3.96
191 192 6.721318 AGGTGGTCTTATCTTAAATCTTGCA 58.279 36.000 0.00 0.00 0.00 4.08
192 193 7.631717 AAGGTGGTCTTATCTTAAATCTTGC 57.368 36.000 0.00 0.00 33.14 4.01
205 206 6.479972 ACAATGATCGATAAGGTGGTCTTA 57.520 37.500 0.00 0.00 41.66 2.10
206 207 5.359194 ACAATGATCGATAAGGTGGTCTT 57.641 39.130 0.00 0.00 39.40 3.01
207 208 5.362717 TGTACAATGATCGATAAGGTGGTCT 59.637 40.000 0.00 0.00 0.00 3.85
208 209 5.597806 TGTACAATGATCGATAAGGTGGTC 58.402 41.667 0.00 0.00 0.00 4.02
209 210 5.607939 TGTACAATGATCGATAAGGTGGT 57.392 39.130 0.00 0.00 0.00 4.16
210 211 5.106948 GCATGTACAATGATCGATAAGGTGG 60.107 44.000 0.00 0.00 0.00 4.61
211 212 5.106948 GGCATGTACAATGATCGATAAGGTG 60.107 44.000 0.00 0.00 0.00 4.00
212 213 4.997395 GGCATGTACAATGATCGATAAGGT 59.003 41.667 0.00 0.00 0.00 3.50
213 214 4.393062 GGGCATGTACAATGATCGATAAGG 59.607 45.833 0.00 0.00 0.00 2.69
214 215 5.240891 AGGGCATGTACAATGATCGATAAG 58.759 41.667 0.00 0.00 0.00 1.73
215 216 5.227569 AGGGCATGTACAATGATCGATAA 57.772 39.130 0.00 0.00 0.00 1.75
216 217 4.890158 AGGGCATGTACAATGATCGATA 57.110 40.909 0.00 0.00 0.00 2.92
217 218 3.777106 AGGGCATGTACAATGATCGAT 57.223 42.857 0.00 0.00 0.00 3.59
218 219 4.631131 CTTAGGGCATGTACAATGATCGA 58.369 43.478 0.00 0.00 0.00 3.59
219 220 3.187227 GCTTAGGGCATGTACAATGATCG 59.813 47.826 0.00 0.00 41.35 3.69
220 221 3.187227 CGCTTAGGGCATGTACAATGATC 59.813 47.826 0.00 0.00 41.91 2.92
221 222 3.141398 CGCTTAGGGCATGTACAATGAT 58.859 45.455 0.00 0.00 41.91 2.45
222 223 2.169561 TCGCTTAGGGCATGTACAATGA 59.830 45.455 0.00 0.00 41.91 2.57
223 224 2.287915 GTCGCTTAGGGCATGTACAATG 59.712 50.000 0.00 0.12 41.91 2.82
224 225 2.561569 GTCGCTTAGGGCATGTACAAT 58.438 47.619 0.00 0.00 41.91 2.71
225 226 1.406341 GGTCGCTTAGGGCATGTACAA 60.406 52.381 0.00 0.00 41.91 2.41
226 227 0.177141 GGTCGCTTAGGGCATGTACA 59.823 55.000 0.00 0.00 41.91 2.90
227 228 0.874607 CGGTCGCTTAGGGCATGTAC 60.875 60.000 0.00 0.00 41.91 2.90
228 229 1.440060 CGGTCGCTTAGGGCATGTA 59.560 57.895 0.00 0.00 41.91 2.29
229 230 2.186903 CGGTCGCTTAGGGCATGT 59.813 61.111 0.00 0.00 41.91 3.21
230 231 3.272334 GCGGTCGCTTAGGGCATG 61.272 66.667 8.20 0.00 41.91 4.06
231 232 2.813226 TTTGCGGTCGCTTAGGGCAT 62.813 55.000 16.36 0.00 42.51 4.40
232 233 3.538785 TTTGCGGTCGCTTAGGGCA 62.539 57.895 16.36 0.00 42.51 5.36
233 234 1.654023 ATTTTGCGGTCGCTTAGGGC 61.654 55.000 16.36 0.00 42.51 5.19
234 235 1.597663 CTATTTTGCGGTCGCTTAGGG 59.402 52.381 16.36 0.00 42.51 3.53
235 236 1.597663 CCTATTTTGCGGTCGCTTAGG 59.402 52.381 16.36 15.17 42.51 2.69
236 237 2.546778 TCCTATTTTGCGGTCGCTTAG 58.453 47.619 16.36 11.05 42.51 2.18
237 238 2.676632 TCCTATTTTGCGGTCGCTTA 57.323 45.000 16.36 2.07 42.51 3.09
238 239 1.816074 TTCCTATTTTGCGGTCGCTT 58.184 45.000 16.36 2.12 42.51 4.68
239 240 1.940613 GATTCCTATTTTGCGGTCGCT 59.059 47.619 16.36 0.00 42.51 4.93
240 241 1.332904 CGATTCCTATTTTGCGGTCGC 60.333 52.381 8.54 8.54 42.35 5.19
241 242 1.332904 GCGATTCCTATTTTGCGGTCG 60.333 52.381 0.00 0.00 0.00 4.79
242 243 1.002792 GGCGATTCCTATTTTGCGGTC 60.003 52.381 0.00 0.00 0.00 4.79
243 244 1.021968 GGCGATTCCTATTTTGCGGT 58.978 50.000 0.00 0.00 0.00 5.68
244 245 0.310854 GGGCGATTCCTATTTTGCGG 59.689 55.000 0.00 0.00 34.39 5.69
245 246 1.021202 TGGGCGATTCCTATTTTGCG 58.979 50.000 0.00 0.00 34.39 4.85
246 247 3.821033 ACTATGGGCGATTCCTATTTTGC 59.179 43.478 0.00 0.00 37.26 3.68
247 248 5.762045 CAACTATGGGCGATTCCTATTTTG 58.238 41.667 0.00 0.00 37.26 2.44
248 249 4.278419 GCAACTATGGGCGATTCCTATTTT 59.722 41.667 0.00 0.00 37.26 1.82
249 250 3.821033 GCAACTATGGGCGATTCCTATTT 59.179 43.478 0.00 0.00 37.26 1.40
250 251 3.412386 GCAACTATGGGCGATTCCTATT 58.588 45.455 0.00 0.00 37.26 1.73
251 252 3.059352 GCAACTATGGGCGATTCCTAT 57.941 47.619 0.00 0.00 39.59 2.57
252 253 2.543777 GCAACTATGGGCGATTCCTA 57.456 50.000 0.00 0.00 34.39 2.94
253 254 3.403936 GCAACTATGGGCGATTCCT 57.596 52.632 0.00 0.00 34.39 3.36
261 262 2.414785 GGTTGGGCGCAACTATGGG 61.415 63.158 36.03 0.00 42.11 4.00
262 263 0.965363 AAGGTTGGGCGCAACTATGG 60.965 55.000 36.03 0.00 35.54 2.74
263 264 1.745232 TAAGGTTGGGCGCAACTATG 58.255 50.000 36.03 0.00 35.54 2.23
264 265 2.500392 TTAAGGTTGGGCGCAACTAT 57.500 45.000 36.03 28.16 35.54 2.12
265 266 2.088423 CATTAAGGTTGGGCGCAACTA 58.912 47.619 36.03 23.53 35.54 2.24
266 267 0.887933 CATTAAGGTTGGGCGCAACT 59.112 50.000 36.03 24.44 35.54 3.16
267 268 0.735978 GCATTAAGGTTGGGCGCAAC 60.736 55.000 32.16 32.16 0.00 4.17
268 269 0.897863 AGCATTAAGGTTGGGCGCAA 60.898 50.000 12.81 12.81 0.00 4.85
269 270 0.034960 TAGCATTAAGGTTGGGCGCA 60.035 50.000 10.83 0.00 0.00 6.09
270 271 1.266989 GATAGCATTAAGGTTGGGCGC 59.733 52.381 0.00 0.00 0.00 6.53
271 272 1.531149 CGATAGCATTAAGGTTGGGCG 59.469 52.381 0.00 0.00 0.00 6.13
286 287 1.337823 CCCGGAAACTATGGGCGATAG 60.338 57.143 14.14 14.14 40.17 2.08
287 288 0.682852 CCCGGAAACTATGGGCGATA 59.317 55.000 0.73 0.00 35.82 2.92
288 289 1.450211 CCCGGAAACTATGGGCGAT 59.550 57.895 0.73 0.00 35.82 4.58
289 290 2.737881 CCCCGGAAACTATGGGCGA 61.738 63.158 0.73 0.00 41.88 5.54
290 291 2.203153 CCCCGGAAACTATGGGCG 60.203 66.667 0.73 0.00 41.88 6.13
292 293 1.933307 AAGGCCCCGGAAACTATGGG 61.933 60.000 0.73 0.00 42.92 4.00
293 294 0.033503 AAAGGCCCCGGAAACTATGG 60.034 55.000 0.73 0.00 0.00 2.74
294 295 1.476488 CAAAAGGCCCCGGAAACTATG 59.524 52.381 0.73 0.00 0.00 2.23
295 296 1.076513 ACAAAAGGCCCCGGAAACTAT 59.923 47.619 0.73 0.00 0.00 2.12
296 297 0.479378 ACAAAAGGCCCCGGAAACTA 59.521 50.000 0.73 0.00 0.00 2.24
297 298 0.397957 AACAAAAGGCCCCGGAAACT 60.398 50.000 0.73 0.00 0.00 2.66
298 299 0.466543 AAACAAAAGGCCCCGGAAAC 59.533 50.000 0.73 0.00 0.00 2.78
299 300 1.205055 AAAACAAAAGGCCCCGGAAA 58.795 45.000 0.73 0.00 0.00 3.13
300 301 1.205055 AAAAACAAAAGGCCCCGGAA 58.795 45.000 0.73 0.00 0.00 4.30
301 302 2.917804 AAAAACAAAAGGCCCCGGA 58.082 47.368 0.73 0.00 0.00 5.14
361 363 2.590859 GGCCGCCCGGTAGATTTC 60.591 66.667 8.66 0.00 37.65 2.17
456 7178 3.064324 GGGAGCCAGCGTGCATTT 61.064 61.111 0.00 0.00 0.00 2.32
457 7179 4.349503 TGGGAGCCAGCGTGCATT 62.350 61.111 0.00 0.00 0.00 3.56
458 7180 4.790962 CTGGGAGCCAGCGTGCAT 62.791 66.667 0.00 0.00 45.13 3.96
588 7317 2.422832 CCTTTTGATGCTCTCTCCTTGC 59.577 50.000 0.00 0.00 0.00 4.01
591 7320 2.504996 CCTCCTTTTGATGCTCTCTCCT 59.495 50.000 0.00 0.00 0.00 3.69
781 7720 2.424246 GGGAACGAAACAGTGAAAACCA 59.576 45.455 0.00 0.00 0.00 3.67
850 7794 1.212195 GTAGATCCTTCCCACCCCAAC 59.788 57.143 0.00 0.00 0.00 3.77
1432 8385 4.924462 GTGGTAGAAAGACAGCTTGTACTC 59.076 45.833 0.00 0.00 33.79 2.59
1532 8488 5.920840 GTCGATGGATCAGACGATAAAATCA 59.079 40.000 9.69 0.00 37.14 2.57
1956 8912 3.444388 TGCTTTTCCCAGTAAACAACGTT 59.556 39.130 0.00 0.00 0.00 3.99
1957 8913 3.018149 TGCTTTTCCCAGTAAACAACGT 58.982 40.909 0.00 0.00 0.00 3.99
1983 8939 2.413837 TCCTTCACGCTAAAGCAAGAC 58.586 47.619 2.44 0.00 42.21 3.01
2122 9211 1.909700 TCAGGATCAACCAACTTGGC 58.090 50.000 7.81 0.00 42.67 4.52
2265 9357 4.279420 ACTGAAATGAGAAAAGGTGCTTCC 59.721 41.667 0.00 0.00 0.00 3.46
2291 9383 7.446931 TGTGAGAAGCATATTTCCAAACACTAA 59.553 33.333 0.00 0.00 0.00 2.24
2300 9392 8.668510 TCTTATTCTGTGAGAAGCATATTTCC 57.331 34.615 0.00 0.00 37.69 3.13
2332 9491 4.532834 ACTAAGAACAAGGTTTGGAAGCA 58.467 39.130 0.00 0.00 34.12 3.91
2400 9559 7.761249 GCCAGTGTGAAGAGCAATTAATTAATT 59.239 33.333 16.15 16.15 36.39 1.40
2401 9560 7.093814 TGCCAGTGTGAAGAGCAATTAATTAAT 60.094 33.333 4.81 4.81 0.00 1.40
2402 9561 6.208402 TGCCAGTGTGAAGAGCAATTAATTAA 59.792 34.615 0.00 0.00 0.00 1.40
2433 9592 1.548582 GCCCCACCATTATCATCTGGG 60.549 57.143 0.00 0.00 41.31 4.45
2514 9673 2.309755 ACATCTCCCTCCATGCAAAGAA 59.690 45.455 0.00 0.00 0.00 2.52
2556 9725 5.104024 AGGCCACTACTACATGACTAGTACT 60.104 44.000 5.01 0.00 0.00 2.73
2557 9726 5.131784 AGGCCACTACTACATGACTAGTAC 58.868 45.833 5.01 0.00 0.00 2.73
2558 9727 5.384145 AGGCCACTACTACATGACTAGTA 57.616 43.478 5.01 1.20 0.00 1.82
2559 9728 4.252570 AGGCCACTACTACATGACTAGT 57.747 45.455 5.01 0.00 0.00 2.57
2587 9756 5.892119 AGAGGCAAACTTCATCATCATCAAT 59.108 36.000 0.00 0.00 0.00 2.57
2721 9945 3.277416 AGTAACAGGAAGAGAAGGGGT 57.723 47.619 0.00 0.00 0.00 4.95
2744 9968 7.227910 TGTCATGGTTTTAGTTCAAAGGAGTAC 59.772 37.037 0.00 0.00 0.00 2.73
2763 9987 3.740321 CGGTTCCAAAACATTTGTCATGG 59.260 43.478 7.90 7.90 37.10 3.66
2829 10053 4.601019 ACAATTCGAAAGTTGTGAAGCTG 58.399 39.130 14.65 0.00 37.19 4.24
2830 10054 4.900635 ACAATTCGAAAGTTGTGAAGCT 57.099 36.364 14.65 0.00 37.19 3.74
2868 10092 9.450807 AAAAATCTACAATTCGAAAGTTGTGAG 57.549 29.630 21.68 15.69 38.84 3.51
2880 10104 9.070149 GCACAGATTCAGAAAAATCTACAATTC 57.930 33.333 0.00 0.00 42.68 2.17
2966 10191 8.621286 AGTATTTGTTCTGAACCACAGTTAAAG 58.379 33.333 17.26 0.00 45.86 1.85
2976 10201 4.263594 TGGGGGTAGTATTTGTTCTGAACC 60.264 45.833 17.26 2.19 0.00 3.62
2994 10219 6.350949 CCAACTGTCAAAAACTTATATGGGGG 60.351 42.308 0.00 0.00 0.00 5.40
3020 10245 3.561310 GTCATACGGTATAGTGGTCACGA 59.439 47.826 0.00 0.00 36.20 4.35
3057 10284 1.648467 GACCAAACCGAGGCTGATGC 61.648 60.000 0.00 0.00 38.76 3.91
3069 10296 2.030274 GCCATACCAACAGTGACCAAAC 60.030 50.000 0.00 0.00 0.00 2.93
3104 10331 4.037208 GGGATGGAAGACATACATTTGCTG 59.963 45.833 0.00 0.00 42.62 4.41
3112 10339 3.947834 CACCAAAGGGATGGAAGACATAC 59.052 47.826 0.00 0.00 43.54 2.39
3127 10354 2.033801 CAGGTTCACTTGAGCACCAAAG 59.966 50.000 3.48 0.00 33.76 2.77
3152 10379 2.360801 ACCACGAAATGACCACCAAAAG 59.639 45.455 0.00 0.00 0.00 2.27
3153 10380 2.099921 CACCACGAAATGACCACCAAAA 59.900 45.455 0.00 0.00 0.00 2.44
3157 10384 0.591170 CACACCACGAAATGACCACC 59.409 55.000 0.00 0.00 0.00 4.61
3159 10386 1.134371 TGACACACCACGAAATGACCA 60.134 47.619 0.00 0.00 0.00 4.02
3160 10387 1.588674 TGACACACCACGAAATGACC 58.411 50.000 0.00 0.00 0.00 4.02
3161 10388 3.684103 TTTGACACACCACGAAATGAC 57.316 42.857 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.