Multiple sequence alignment - TraesCS7B01G379100

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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 TraesCS7B01G379100 chr7B 100.000 3197 0 0 1 3197 643461228 643464424 0.000000e+00 5904.0
1 TraesCS7B01G379100 chr7B 96.878 1185 29 4 366 1545 643297111 643295930 0.000000e+00 1977.0
2 TraesCS7B01G379100 chr7B 97.286 958 21 2 1543 2495 643295825 643294868 0.000000e+00 1620.0
3 TraesCS7B01G379100 chr7B 88.499 1226 87 27 1305 2493 643292502 643291294 0.000000e+00 1434.0
4 TraesCS7B01G379100 chr7B 92.000 200 16 0 1009 1208 643292746 643292547 6.750000e-72 281.0
5 TraesCS7B01G379100 chr7B 81.046 153 29 0 1387 1539 504439720 504439872 4.330000e-24 122.0
6 TraesCS7B01G379100 chr7B 81.046 153 29 0 1387 1539 504456385 504456537 4.330000e-24 122.0
7 TraesCS7B01G379100 chr7D 91.975 2268 138 20 258 2493 579101124 579098869 0.000000e+00 3140.0
8 TraesCS7B01G379100 chr7D 93.530 711 39 6 2492 3197 623570815 623571523 0.000000e+00 1051.0
9 TraesCS7B01G379100 chr7D 92.948 709 39 5 2496 3197 63995390 63996094 0.000000e+00 1022.0
10 TraesCS7B01G379100 chr7D 88.235 204 19 2 2297 2495 579097545 579097342 4.120000e-59 239.0
11 TraesCS7B01G379100 chr7D 82.432 148 26 0 1392 1539 478576073 478576220 2.590000e-26 130.0
12 TraesCS7B01G379100 chr7D 89.041 73 8 0 1475 1547 478892112 478892040 1.220000e-14 91.6
13 TraesCS7B01G379100 chr7A 90.848 1191 69 21 1310 2493 670946949 670945792 0.000000e+00 1559.0
14 TraesCS7B01G379100 chr7A 94.369 959 44 4 258 1208 670947985 670947029 0.000000e+00 1463.0
15 TraesCS7B01G379100 chr7A 90.000 200 19 1 2297 2495 670945106 670944907 1.140000e-64 257.0
16 TraesCS7B01G379100 chr7A 75.263 570 116 15 1636 2195 516152386 516152940 6.850000e-62 248.0
17 TraesCS7B01G379100 chr7A 80.132 151 28 2 1390 1539 516514701 516514552 9.370000e-21 111.0
18 TraesCS7B01G379100 chr7A 83.838 99 15 1 314 412 52001807 52001904 3.400000e-15 93.5
19 TraesCS7B01G379100 chr1D 93.846 715 39 4 2488 3197 464037584 464038298 0.000000e+00 1072.0
20 TraesCS7B01G379100 chr1D 93.007 715 40 5 2491 3197 347252969 347252257 0.000000e+00 1035.0
21 TraesCS7B01G379100 chr1D 82.178 101 16 2 1427 1526 62858305 62858404 5.680000e-13 86.1
22 TraesCS7B01G379100 chr1D 95.556 45 2 0 1474 1518 467611680 467611636 4.420000e-09 73.1
23 TraesCS7B01G379100 chr1D 95.349 43 2 0 1474 1516 81726354 81726396 5.720000e-08 69.4
24 TraesCS7B01G379100 chr1D 97.059 34 1 0 1474 1507 302879212 302879179 1.240000e-04 58.4
25 TraesCS7B01G379100 chr3D 93.390 711 38 4 2496 3197 527509677 527510387 0.000000e+00 1044.0
26 TraesCS7B01G379100 chr3D 79.412 136 23 4 1392 1526 177778987 177779118 1.220000e-14 91.6
27 TraesCS7B01G379100 chr5D 92.897 718 36 6 2491 3197 539819774 539819061 0.000000e+00 1029.0
28 TraesCS7B01G379100 chr5D 96.226 53 2 0 1474 1526 393801777 393801725 1.580000e-13 87.9
29 TraesCS7B01G379100 chr5D 82.796 93 12 4 1428 1518 124857578 124857488 2.640000e-11 80.5
30 TraesCS7B01G379100 chr6D 93.040 704 47 2 2496 3197 323166697 323167400 0.000000e+00 1027.0
31 TraesCS7B01G379100 chr6D 81.892 983 123 38 1344 2312 25804725 25803784 0.000000e+00 778.0
32 TraesCS7B01G379100 chr6D 81.797 879 135 19 1344 2199 25915337 25916213 0.000000e+00 713.0
33 TraesCS7B01G379100 chr6D 85.185 243 28 6 1004 1241 25880087 25879848 3.190000e-60 243.0
34 TraesCS7B01G379100 chr6D 81.185 287 43 9 956 1235 25805120 25804838 1.490000e-53 220.0
35 TraesCS7B01G379100 chr6D 81.116 233 40 3 1010 1240 25827580 25827350 1.960000e-42 183.0
36 TraesCS7B01G379100 chr6D 90.566 53 5 0 1474 1526 89308603 89308551 1.590000e-08 71.3
37 TraesCS7B01G379100 chr6B 92.898 704 47 3 2496 3197 457214526 457213824 0.000000e+00 1020.0
38 TraesCS7B01G379100 chr6B 83.641 868 103 25 1344 2199 42005395 42004555 0.000000e+00 780.0
39 TraesCS7B01G379100 chr6B 81.128 922 144 23 1291 2199 42318490 42317586 0.000000e+00 712.0
40 TraesCS7B01G379100 chr6B 84.232 241 32 6 1004 1241 42318854 42318617 2.480000e-56 230.0
41 TraesCS7B01G379100 chr6B 83.475 236 35 3 1010 1241 42393066 42393301 1.930000e-52 217.0
42 TraesCS7B01G379100 chr6A 92.635 706 48 3 2496 3197 76046189 76046894 0.000000e+00 1013.0
43 TraesCS7B01G379100 chr6A 80.528 1212 175 42 1004 2197 24031427 24030259 0.000000e+00 874.0
44 TraesCS7B01G379100 chr6A 83.628 904 104 26 1315 2199 23896405 23895527 0.000000e+00 809.0
45 TraesCS7B01G379100 chr6A 82.488 868 129 19 1344 2199 24048995 24049851 0.000000e+00 739.0
46 TraesCS7B01G379100 chr6A 82.627 236 35 5 1010 1241 23952356 23952123 1.500000e-48 204.0
47 TraesCS7B01G379100 chr6A 100.000 35 0 0 2283 2317 24030186 24030152 7.400000e-07 65.8
48 TraesCS7B01G379100 chr6A 91.489 47 1 2 2272 2318 24049925 24049968 9.580000e-06 62.1
49 TraesCS7B01G379100 chr2A 87.591 137 14 3 309 443 748543478 748543343 4.270000e-34 156.0
50 TraesCS7B01G379100 chr4B 94.444 72 2 2 373 443 171652584 171652654 3.370000e-20 110.0
51 TraesCS7B01G379100 chr1A 85.149 101 13 2 1427 1526 60955834 60955735 5.640000e-18 102.0
52 TraesCS7B01G379100 chr3A 80.147 136 22 4 1392 1526 218729399 218729530 2.630000e-16 97.1
53 TraesCS7B01G379100 chr1B 83.168 101 15 2 1427 1526 100308924 100309023 1.220000e-14 91.6
54 TraesCS7B01G379100 chr4D 97.727 44 1 0 1475 1518 394378970 394378927 3.420000e-10 76.8
55 TraesCS7B01G379100 chr4D 93.333 45 3 0 1474 1518 394362020 394362064 2.060000e-07 67.6


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 TraesCS7B01G379100 chr7B 643461228 643464424 3196 False 5904.00 5904 100.00000 1 3197 1 chr7B.!!$F3 3196
1 TraesCS7B01G379100 chr7B 643291294 643297111 5817 True 1328.00 1977 93.66575 366 2495 4 chr7B.!!$R1 2129
2 TraesCS7B01G379100 chr7D 579097342 579101124 3782 True 1689.50 3140 90.10500 258 2495 2 chr7D.!!$R2 2237
3 TraesCS7B01G379100 chr7D 623570815 623571523 708 False 1051.00 1051 93.53000 2492 3197 1 chr7D.!!$F3 705
4 TraesCS7B01G379100 chr7D 63995390 63996094 704 False 1022.00 1022 92.94800 2496 3197 1 chr7D.!!$F1 701
5 TraesCS7B01G379100 chr7A 670944907 670947985 3078 True 1093.00 1559 91.73900 258 2495 3 chr7A.!!$R2 2237
6 TraesCS7B01G379100 chr7A 516152386 516152940 554 False 248.00 248 75.26300 1636 2195 1 chr7A.!!$F2 559
7 TraesCS7B01G379100 chr1D 464037584 464038298 714 False 1072.00 1072 93.84600 2488 3197 1 chr1D.!!$F3 709
8 TraesCS7B01G379100 chr1D 347252257 347252969 712 True 1035.00 1035 93.00700 2491 3197 1 chr1D.!!$R2 706
9 TraesCS7B01G379100 chr3D 527509677 527510387 710 False 1044.00 1044 93.39000 2496 3197 1 chr3D.!!$F2 701
10 TraesCS7B01G379100 chr5D 539819061 539819774 713 True 1029.00 1029 92.89700 2491 3197 1 chr5D.!!$R3 706
11 TraesCS7B01G379100 chr6D 323166697 323167400 703 False 1027.00 1027 93.04000 2496 3197 1 chr6D.!!$F2 701
12 TraesCS7B01G379100 chr6D 25915337 25916213 876 False 713.00 713 81.79700 1344 2199 1 chr6D.!!$F1 855
13 TraesCS7B01G379100 chr6D 25803784 25805120 1336 True 499.00 778 81.53850 956 2312 2 chr6D.!!$R4 1356
14 TraesCS7B01G379100 chr6B 457213824 457214526 702 True 1020.00 1020 92.89800 2496 3197 1 chr6B.!!$R2 701
15 TraesCS7B01G379100 chr6B 42004555 42005395 840 True 780.00 780 83.64100 1344 2199 1 chr6B.!!$R1 855
16 TraesCS7B01G379100 chr6B 42317586 42318854 1268 True 471.00 712 82.68000 1004 2199 2 chr6B.!!$R3 1195
17 TraesCS7B01G379100 chr6A 76046189 76046894 705 False 1013.00 1013 92.63500 2496 3197 1 chr6A.!!$F1 701
18 TraesCS7B01G379100 chr6A 23895527 23896405 878 True 809.00 809 83.62800 1315 2199 1 chr6A.!!$R1 884
19 TraesCS7B01G379100 chr6A 24030152 24031427 1275 True 469.90 874 90.26400 1004 2317 2 chr6A.!!$R3 1313
20 TraesCS7B01G379100 chr6A 24048995 24049968 973 False 400.55 739 86.98850 1344 2318 2 chr6A.!!$F2 974

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
180 181 0.034574 TGCCAATATTGTGCCTCCGT 60.035 50.0 19.7 0.0 0.00 4.69 F
192 193 0.679960 GCCTCCGTATGGTGCCTTTT 60.680 55.0 0.0 0.0 36.30 2.27 F
1261 1348 0.900182 TCGGGCTTTCTCTCTCAGCA 60.900 55.0 0.0 0.0 35.05 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1237 1287 2.289072 TGAGAGAGAAAGCCCGAAACAG 60.289 50.0 0.00 0.00 0.00 3.16 R
2184 6096 2.349886 GACGATTGATCAGCTGTTGACC 59.650 50.0 14.67 0.43 38.99 4.02 R
2364 6299 0.253044 ATACTGCACGGACCAGCAAT 59.747 50.0 9.61 2.94 40.73 3.56 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
78 79 4.946784 AATTTACTGTTCATCCGAGTGC 57.053 40.909 0.00 0.00 0.00 4.40
79 80 3.394674 TTTACTGTTCATCCGAGTGCA 57.605 42.857 0.00 0.00 0.00 4.57
80 81 3.610040 TTACTGTTCATCCGAGTGCAT 57.390 42.857 0.00 0.00 0.00 3.96
81 82 1.730501 ACTGTTCATCCGAGTGCATG 58.269 50.000 0.00 0.00 0.00 4.06
82 83 1.002430 ACTGTTCATCCGAGTGCATGT 59.998 47.619 0.00 0.00 0.00 3.21
83 84 1.395954 CTGTTCATCCGAGTGCATGTG 59.604 52.381 0.00 0.00 0.00 3.21
84 85 0.097674 GTTCATCCGAGTGCATGTGC 59.902 55.000 0.00 0.00 42.50 4.57
95 96 4.720902 CATGTGCACCCGGGAGCA 62.721 66.667 37.76 37.76 39.24 4.26
96 97 4.415150 ATGTGCACCCGGGAGCAG 62.415 66.667 41.09 21.80 41.89 4.24
98 99 4.329545 GTGCACCCGGGAGCAGAA 62.330 66.667 41.09 20.93 41.89 3.02
99 100 3.329889 TGCACCCGGGAGCAGAAT 61.330 61.111 37.76 6.60 36.84 2.40
100 101 2.514824 GCACCCGGGAGCAGAATC 60.515 66.667 34.66 6.62 0.00 2.52
101 102 3.036429 GCACCCGGGAGCAGAATCT 62.036 63.158 34.66 2.90 0.00 2.40
102 103 1.144936 CACCCGGGAGCAGAATCTC 59.855 63.158 32.02 0.00 0.00 2.75
110 111 2.252976 GAGCAGAATCTCCATGTCCC 57.747 55.000 0.00 0.00 0.00 4.46
111 112 0.467384 AGCAGAATCTCCATGTCCCG 59.533 55.000 0.00 0.00 0.00 5.14
112 113 0.533755 GCAGAATCTCCATGTCCCGG 60.534 60.000 0.00 0.00 0.00 5.73
113 114 0.833287 CAGAATCTCCATGTCCCGGT 59.167 55.000 0.00 0.00 0.00 5.28
114 115 2.039418 CAGAATCTCCATGTCCCGGTA 58.961 52.381 0.00 0.00 0.00 4.02
115 116 2.036475 CAGAATCTCCATGTCCCGGTAG 59.964 54.545 0.00 0.00 0.00 3.18
116 117 1.344763 GAATCTCCATGTCCCGGTAGG 59.655 57.143 0.00 0.00 37.24 3.18
128 129 1.817357 CCGGTAGGGTCCTTTTCAAC 58.183 55.000 0.00 0.00 0.00 3.18
129 130 1.350019 CCGGTAGGGTCCTTTTCAACT 59.650 52.381 0.00 0.00 0.00 3.16
130 131 2.224695 CCGGTAGGGTCCTTTTCAACTT 60.225 50.000 0.00 0.00 0.00 2.66
131 132 3.483421 CGGTAGGGTCCTTTTCAACTTT 58.517 45.455 0.00 0.00 0.00 2.66
132 133 3.887110 CGGTAGGGTCCTTTTCAACTTTT 59.113 43.478 0.00 0.00 0.00 2.27
133 134 5.065235 CGGTAGGGTCCTTTTCAACTTTTA 58.935 41.667 0.00 0.00 0.00 1.52
134 135 5.708697 CGGTAGGGTCCTTTTCAACTTTTAT 59.291 40.000 0.00 0.00 0.00 1.40
135 136 6.128090 CGGTAGGGTCCTTTTCAACTTTTATC 60.128 42.308 0.00 0.00 0.00 1.75
136 137 6.717997 GGTAGGGTCCTTTTCAACTTTTATCA 59.282 38.462 0.00 0.00 0.00 2.15
137 138 7.396339 GGTAGGGTCCTTTTCAACTTTTATCAT 59.604 37.037 0.00 0.00 0.00 2.45
138 139 7.232118 AGGGTCCTTTTCAACTTTTATCATG 57.768 36.000 0.00 0.00 0.00 3.07
139 140 6.782494 AGGGTCCTTTTCAACTTTTATCATGT 59.218 34.615 0.00 0.00 0.00 3.21
140 141 6.868339 GGGTCCTTTTCAACTTTTATCATGTG 59.132 38.462 0.00 0.00 0.00 3.21
141 142 7.255801 GGGTCCTTTTCAACTTTTATCATGTGA 60.256 37.037 0.00 0.00 0.00 3.58
142 143 8.306761 GGTCCTTTTCAACTTTTATCATGTGAT 58.693 33.333 0.68 0.68 38.51 3.06
160 161 9.971922 TCATGTGATATTGTGTACTCATCTTAG 57.028 33.333 0.00 0.00 0.00 2.18
161 162 9.755804 CATGTGATATTGTGTACTCATCTTAGT 57.244 33.333 0.00 0.00 0.00 2.24
162 163 9.755804 ATGTGATATTGTGTACTCATCTTAGTG 57.244 33.333 0.00 0.00 0.00 2.74
163 164 7.706607 TGTGATATTGTGTACTCATCTTAGTGC 59.293 37.037 0.00 0.00 33.21 4.40
164 165 7.169982 GTGATATTGTGTACTCATCTTAGTGCC 59.830 40.741 0.00 0.00 31.75 5.01
165 166 4.882842 TTGTGTACTCATCTTAGTGCCA 57.117 40.909 0.00 0.00 31.75 4.92
166 167 4.882842 TGTGTACTCATCTTAGTGCCAA 57.117 40.909 0.00 0.00 31.75 4.52
167 168 5.420725 TGTGTACTCATCTTAGTGCCAAT 57.579 39.130 0.00 0.00 31.75 3.16
168 169 6.538945 TGTGTACTCATCTTAGTGCCAATA 57.461 37.500 0.00 0.00 31.75 1.90
169 170 7.124573 TGTGTACTCATCTTAGTGCCAATAT 57.875 36.000 0.00 0.00 31.75 1.28
170 171 7.564793 TGTGTACTCATCTTAGTGCCAATATT 58.435 34.615 0.00 0.00 31.75 1.28
171 172 7.495606 TGTGTACTCATCTTAGTGCCAATATTG 59.504 37.037 8.58 8.58 31.75 1.90
172 173 7.495934 GTGTACTCATCTTAGTGCCAATATTGT 59.504 37.037 14.25 0.00 31.75 2.71
173 174 6.932356 ACTCATCTTAGTGCCAATATTGTG 57.068 37.500 14.25 7.06 0.00 3.33
174 175 5.297776 ACTCATCTTAGTGCCAATATTGTGC 59.702 40.000 14.25 15.94 0.00 4.57
175 176 4.580167 TCATCTTAGTGCCAATATTGTGCC 59.420 41.667 19.70 13.60 0.00 5.01
176 177 4.235079 TCTTAGTGCCAATATTGTGCCT 57.765 40.909 19.70 17.80 0.00 4.75
177 178 4.199310 TCTTAGTGCCAATATTGTGCCTC 58.801 43.478 19.70 14.62 0.00 4.70
178 179 1.767759 AGTGCCAATATTGTGCCTCC 58.232 50.000 19.70 11.45 0.00 4.30
179 180 0.381801 GTGCCAATATTGTGCCTCCG 59.618 55.000 19.70 4.47 0.00 4.63
180 181 0.034574 TGCCAATATTGTGCCTCCGT 60.035 50.000 19.70 0.00 0.00 4.69
181 182 1.210722 TGCCAATATTGTGCCTCCGTA 59.789 47.619 19.70 4.32 0.00 4.02
182 183 2.158682 TGCCAATATTGTGCCTCCGTAT 60.159 45.455 19.70 0.00 0.00 3.06
183 184 2.226437 GCCAATATTGTGCCTCCGTATG 59.774 50.000 14.25 0.00 0.00 2.39
184 185 2.813754 CCAATATTGTGCCTCCGTATGG 59.186 50.000 14.25 0.00 0.00 2.74
185 186 3.476552 CAATATTGTGCCTCCGTATGGT 58.523 45.455 7.32 0.00 36.30 3.55
186 187 2.613026 TATTGTGCCTCCGTATGGTG 57.387 50.000 0.00 0.00 36.30 4.17
187 188 0.748005 ATTGTGCCTCCGTATGGTGC 60.748 55.000 0.00 6.12 36.30 5.01
188 189 2.513897 GTGCCTCCGTATGGTGCC 60.514 66.667 13.36 0.00 34.53 5.01
189 190 2.687200 TGCCTCCGTATGGTGCCT 60.687 61.111 13.36 0.00 34.53 4.75
190 191 2.297895 TGCCTCCGTATGGTGCCTT 61.298 57.895 13.36 0.00 34.53 4.35
191 192 1.077716 GCCTCCGTATGGTGCCTTT 60.078 57.895 0.00 0.00 36.30 3.11
192 193 0.679960 GCCTCCGTATGGTGCCTTTT 60.680 55.000 0.00 0.00 36.30 2.27
193 194 1.834188 CCTCCGTATGGTGCCTTTTT 58.166 50.000 0.00 0.00 36.30 1.94
194 195 1.743394 CCTCCGTATGGTGCCTTTTTC 59.257 52.381 0.00 0.00 36.30 2.29
195 196 2.618045 CCTCCGTATGGTGCCTTTTTCT 60.618 50.000 0.00 0.00 36.30 2.52
196 197 3.370103 CCTCCGTATGGTGCCTTTTTCTA 60.370 47.826 0.00 0.00 36.30 2.10
197 198 3.869065 TCCGTATGGTGCCTTTTTCTAG 58.131 45.455 0.00 0.00 36.30 2.43
198 199 2.943033 CCGTATGGTGCCTTTTTCTAGG 59.057 50.000 0.00 0.00 38.40 3.02
199 200 3.606687 CGTATGGTGCCTTTTTCTAGGT 58.393 45.455 0.00 0.00 37.63 3.08
200 201 4.007659 CGTATGGTGCCTTTTTCTAGGTT 58.992 43.478 0.00 0.00 37.63 3.50
201 202 4.457949 CGTATGGTGCCTTTTTCTAGGTTT 59.542 41.667 0.00 0.00 37.63 3.27
202 203 5.644636 CGTATGGTGCCTTTTTCTAGGTTTA 59.355 40.000 0.00 0.00 37.63 2.01
203 204 6.317893 CGTATGGTGCCTTTTTCTAGGTTTAT 59.682 38.462 0.00 0.00 37.63 1.40
204 205 5.975693 TGGTGCCTTTTTCTAGGTTTATG 57.024 39.130 0.00 0.00 37.63 1.90
205 206 5.390387 TGGTGCCTTTTTCTAGGTTTATGT 58.610 37.500 0.00 0.00 37.63 2.29
206 207 5.836358 TGGTGCCTTTTTCTAGGTTTATGTT 59.164 36.000 0.00 0.00 37.63 2.71
207 208 6.156519 GGTGCCTTTTTCTAGGTTTATGTTG 58.843 40.000 0.00 0.00 37.63 3.33
208 209 6.239204 GGTGCCTTTTTCTAGGTTTATGTTGT 60.239 38.462 0.00 0.00 37.63 3.32
209 210 7.207383 GTGCCTTTTTCTAGGTTTATGTTGTT 58.793 34.615 0.00 0.00 37.63 2.83
210 211 7.381408 GTGCCTTTTTCTAGGTTTATGTTGTTC 59.619 37.037 0.00 0.00 37.63 3.18
211 212 7.068839 TGCCTTTTTCTAGGTTTATGTTGTTCA 59.931 33.333 0.00 0.00 37.63 3.18
212 213 7.381408 GCCTTTTTCTAGGTTTATGTTGTTCAC 59.619 37.037 0.00 0.00 37.63 3.18
213 214 8.630037 CCTTTTTCTAGGTTTATGTTGTTCACT 58.370 33.333 0.00 0.00 0.00 3.41
222 223 9.357161 AGGTTTATGTTGTTCACTAAAATACCA 57.643 29.630 0.00 0.00 0.00 3.25
223 224 9.968870 GGTTTATGTTGTTCACTAAAATACCAA 57.031 29.630 0.00 0.00 0.00 3.67
225 226 9.968870 TTTATGTTGTTCACTAAAATACCAACC 57.031 29.630 0.00 0.00 0.00 3.77
226 227 6.062434 TGTTGTTCACTAAAATACCAACCG 57.938 37.500 0.00 0.00 0.00 4.44
227 228 5.821470 TGTTGTTCACTAAAATACCAACCGA 59.179 36.000 0.00 0.00 0.00 4.69
228 229 6.487331 TGTTGTTCACTAAAATACCAACCGAT 59.513 34.615 0.00 0.00 0.00 4.18
229 230 6.489127 TGTTCACTAAAATACCAACCGATG 57.511 37.500 0.00 0.00 0.00 3.84
240 241 2.912771 CCAACCGATGGTACTAATGCA 58.087 47.619 0.00 0.00 44.85 3.96
241 242 2.612212 CCAACCGATGGTACTAATGCAC 59.388 50.000 0.00 0.00 44.85 4.57
242 243 3.531538 CAACCGATGGTACTAATGCACT 58.468 45.455 0.00 0.00 33.12 4.40
243 244 4.442332 CCAACCGATGGTACTAATGCACTA 60.442 45.833 0.00 0.00 44.85 2.74
244 245 5.297547 CAACCGATGGTACTAATGCACTAT 58.702 41.667 0.00 0.00 33.12 2.12
245 246 5.135508 ACCGATGGTACTAATGCACTATC 57.864 43.478 0.00 0.00 32.11 2.08
246 247 4.587262 ACCGATGGTACTAATGCACTATCA 59.413 41.667 0.00 0.00 33.58 2.15
247 248 5.069914 ACCGATGGTACTAATGCACTATCAA 59.930 40.000 0.00 0.00 33.58 2.57
248 249 5.635280 CCGATGGTACTAATGCACTATCAAG 59.365 44.000 0.00 0.00 33.58 3.02
249 250 6.447162 CGATGGTACTAATGCACTATCAAGA 58.553 40.000 0.00 0.00 33.58 3.02
250 251 7.093354 CGATGGTACTAATGCACTATCAAGAT 58.907 38.462 0.00 0.00 33.58 2.40
251 252 8.244113 CGATGGTACTAATGCACTATCAAGATA 58.756 37.037 0.00 0.00 33.58 1.98
252 253 9.579768 GATGGTACTAATGCACTATCAAGATAG 57.420 37.037 14.02 14.02 44.79 2.08
288 289 4.400251 TGGTACTCTTACGGTGACCAATAG 59.600 45.833 1.11 0.00 34.10 1.73
301 302 6.625740 CGGTGACCAATAGAGATGCAAATTTT 60.626 38.462 1.11 0.00 0.00 1.82
305 306 8.366401 TGACCAATAGAGATGCAAATTTTGAAA 58.634 29.630 13.26 0.71 0.00 2.69
306 307 8.767478 ACCAATAGAGATGCAAATTTTGAAAG 57.233 30.769 13.26 0.00 0.00 2.62
335 336 2.339769 ACCCTCTGACCTTGCTTAGTT 58.660 47.619 0.00 0.00 0.00 2.24
347 348 5.010012 ACCTTGCTTAGTTCAACCAAATGAG 59.990 40.000 0.00 0.00 0.00 2.90
350 351 5.312895 TGCTTAGTTCAACCAAATGAGCTA 58.687 37.500 0.00 0.00 41.12 3.32
357 358 8.232913 AGTTCAACCAAATGAGCTAAAGTTTA 57.767 30.769 0.00 0.00 38.85 2.01
415 420 3.324117 GTTGAACTAAAGAGGGTCGGAC 58.676 50.000 0.00 0.00 0.00 4.79
841 860 3.119602 TGGCATCTACGTAGAGTTGTGTC 60.120 47.826 27.81 22.28 35.50 3.67
1085 1116 1.367599 CTCTCGCCGTCCTTCTACGT 61.368 60.000 0.00 0.00 41.27 3.57
1119 1150 4.363990 CTGGAGCTCACCGTGCGT 62.364 66.667 17.19 0.00 35.28 5.24
1135 1166 2.438254 GTGCCACCATGATCGCCA 60.438 61.111 0.00 0.00 0.00 5.69
1261 1348 0.900182 TCGGGCTTTCTCTCTCAGCA 60.900 55.000 0.00 0.00 35.05 4.41
1780 2121 2.217038 AAGAAGCAGCTGACCCCGA 61.217 57.895 20.43 0.00 0.00 5.14
2212 6131 2.868583 AGCTGATCAATCGTCGAAATGG 59.131 45.455 0.00 0.00 0.00 3.16
2228 6147 4.738252 CGAAATGGTCAATTGATCATGCTG 59.262 41.667 30.10 19.57 44.55 4.41
2253 6188 5.049167 GTGATGATGGAGATGTCTCAAGTC 58.951 45.833 11.78 6.89 44.60 3.01
2261 6196 2.304180 AGATGTCTCAAGTCTGGTTGGG 59.696 50.000 0.00 0.00 0.00 4.12
2278 6213 0.397564 GGGTACGAAGGAACCAACCA 59.602 55.000 0.00 0.00 39.10 3.67
2279 6214 1.609841 GGGTACGAAGGAACCAACCAG 60.610 57.143 0.00 0.00 39.10 4.00
2335 6270 8.573035 GTTTGGTTCAGGTTTAGATGATTGTTA 58.427 33.333 0.00 0.00 0.00 2.41
2344 6279 8.164070 AGGTTTAGATGATTGTTACCTTTGTCT 58.836 33.333 0.00 0.00 30.68 3.41
2355 6290 2.146342 ACCTTTGTCTGTGCTTCATCG 58.854 47.619 0.00 0.00 0.00 3.84
2356 6291 2.146342 CCTTTGTCTGTGCTTCATCGT 58.854 47.619 0.00 0.00 0.00 3.73
2357 6292 2.158449 CCTTTGTCTGTGCTTCATCGTC 59.842 50.000 0.00 0.00 0.00 4.20
2364 6299 4.388773 GTCTGTGCTTCATCGTCATGTAAA 59.611 41.667 0.00 0.00 0.00 2.01
2369 6304 4.395854 TGCTTCATCGTCATGTAAATTGCT 59.604 37.500 0.00 0.00 0.00 3.91
2374 6309 3.006940 TCGTCATGTAAATTGCTGGTCC 58.993 45.455 0.00 0.00 0.00 4.46
2375 6310 2.223021 CGTCATGTAAATTGCTGGTCCG 60.223 50.000 0.00 0.00 0.00 4.79
2383 6318 0.253044 ATTGCTGGTCCGTGCAGTAT 59.747 50.000 8.97 0.21 40.46 2.12
2386 6321 1.484653 TGCTGGTCCGTGCAGTATTAT 59.515 47.619 5.39 0.00 34.84 1.28
2387 6322 1.867233 GCTGGTCCGTGCAGTATTATG 59.133 52.381 0.00 0.00 0.00 1.90
2391 6326 3.067106 GGTCCGTGCAGTATTATGATGG 58.933 50.000 0.00 0.00 0.00 3.51
2392 6327 2.480419 GTCCGTGCAGTATTATGATGGC 59.520 50.000 0.00 0.00 0.00 4.40
2437 8178 4.739046 ATTTGCGACAAAACTGAGAGAG 57.261 40.909 8.65 0.00 0.00 3.20
2442 8183 4.051922 GCGACAAAACTGAGAGAGAGAAA 58.948 43.478 0.00 0.00 0.00 2.52
2480 8221 7.144722 TGAAGTGTATTTCTGTAGCAAATGG 57.855 36.000 0.00 0.00 0.00 3.16
2513 8254 9.907229 TTGTTTTTGGGTTAATTATCCTTTTGT 57.093 25.926 11.51 0.00 0.00 2.83
2565 8306 0.867329 TCAGATGCGAATCGTGCTCG 60.867 55.000 4.07 0.81 39.33 5.03
2582 8323 1.128809 TCGGTTTTGCCCCTAGTCCA 61.129 55.000 0.00 0.00 0.00 4.02
2672 8413 3.386237 GACCAGGCGGCAGAGACT 61.386 66.667 13.08 0.00 34.57 3.24
2857 8615 1.268283 GGAAGCTAGCTGTGGAGGGT 61.268 60.000 20.16 0.00 0.00 4.34
2904 8662 1.063942 TCCGAGCTCCATGTCTTCCTA 60.064 52.381 8.47 0.00 0.00 2.94
2907 8665 3.181461 CCGAGCTCCATGTCTTCCTAAAT 60.181 47.826 8.47 0.00 0.00 1.40
3019 8777 2.550208 GGTTTCTCACACACCGAGGAAT 60.550 50.000 0.00 0.00 30.73 3.01
3088 8848 1.460359 CAATTGCACCATTTTCGTGGC 59.540 47.619 0.00 0.00 43.27 5.01
3122 8882 3.008266 AGCAATGGGTTGATCTTTTTGGG 59.992 43.478 0.00 0.00 37.53 4.12
3144 8904 3.555586 GGTTCATGCAGGTGAAATGCTTT 60.556 43.478 4.34 0.00 44.17 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 8.609176 GCACTCGGATGAACAGTAAATTATTAA 58.391 33.333 0.00 0.00 0.00 1.40
53 54 7.766738 TGCACTCGGATGAACAGTAAATTATTA 59.233 33.333 0.00 0.00 0.00 0.98
54 55 6.597672 TGCACTCGGATGAACAGTAAATTATT 59.402 34.615 0.00 0.00 0.00 1.40
55 56 6.112734 TGCACTCGGATGAACAGTAAATTAT 58.887 36.000 0.00 0.00 0.00 1.28
56 57 5.483811 TGCACTCGGATGAACAGTAAATTA 58.516 37.500 0.00 0.00 0.00 1.40
57 58 4.323417 TGCACTCGGATGAACAGTAAATT 58.677 39.130 0.00 0.00 0.00 1.82
58 59 3.937814 TGCACTCGGATGAACAGTAAAT 58.062 40.909 0.00 0.00 0.00 1.40
59 60 3.394674 TGCACTCGGATGAACAGTAAA 57.605 42.857 0.00 0.00 0.00 2.01
60 61 3.261580 CATGCACTCGGATGAACAGTAA 58.738 45.455 0.00 0.00 43.27 2.24
61 62 2.233676 ACATGCACTCGGATGAACAGTA 59.766 45.455 0.71 0.00 43.27 2.74
62 63 1.002430 ACATGCACTCGGATGAACAGT 59.998 47.619 0.71 0.00 43.27 3.55
63 64 1.395954 CACATGCACTCGGATGAACAG 59.604 52.381 0.71 0.00 43.27 3.16
64 65 1.441738 CACATGCACTCGGATGAACA 58.558 50.000 0.71 0.00 43.27 3.18
65 66 0.097674 GCACATGCACTCGGATGAAC 59.902 55.000 0.00 0.00 43.27 3.18
66 67 2.470156 GCACATGCACTCGGATGAA 58.530 52.632 0.00 0.00 43.27 2.57
67 68 4.206958 GCACATGCACTCGGATGA 57.793 55.556 0.00 0.00 43.27 2.92
78 79 4.720902 TGCTCCCGGGTGCACATG 62.721 66.667 39.37 15.13 39.30 3.21
79 80 4.415150 CTGCTCCCGGGTGCACAT 62.415 66.667 39.37 0.00 39.30 3.21
81 82 3.628646 ATTCTGCTCCCGGGTGCAC 62.629 63.158 39.37 19.71 39.30 4.57
82 83 3.329542 GATTCTGCTCCCGGGTGCA 62.330 63.158 39.61 39.61 41.45 4.57
83 84 2.514824 GATTCTGCTCCCGGGTGC 60.515 66.667 35.31 35.31 35.46 5.01
84 85 1.144936 GAGATTCTGCTCCCGGGTG 59.855 63.158 22.86 20.53 0.00 4.61
85 86 3.635510 GAGATTCTGCTCCCGGGT 58.364 61.111 22.86 0.00 0.00 5.28
91 92 1.539929 CGGGACATGGAGATTCTGCTC 60.540 57.143 6.74 0.00 0.00 4.26
92 93 0.467384 CGGGACATGGAGATTCTGCT 59.533 55.000 6.74 0.00 0.00 4.24
93 94 0.533755 CCGGGACATGGAGATTCTGC 60.534 60.000 0.00 0.00 0.00 4.26
94 95 0.833287 ACCGGGACATGGAGATTCTG 59.167 55.000 6.32 0.00 0.00 3.02
95 96 2.320781 CTACCGGGACATGGAGATTCT 58.679 52.381 6.32 0.00 0.00 2.40
96 97 1.344763 CCTACCGGGACATGGAGATTC 59.655 57.143 6.32 0.00 37.23 2.52
97 98 1.424638 CCTACCGGGACATGGAGATT 58.575 55.000 6.32 0.00 37.23 2.40
98 99 3.149436 CCTACCGGGACATGGAGAT 57.851 57.895 6.32 0.00 37.23 2.75
99 100 4.699192 CCTACCGGGACATGGAGA 57.301 61.111 6.32 0.00 37.23 3.71
109 110 1.350019 AGTTGAAAAGGACCCTACCGG 59.650 52.381 0.00 0.00 37.81 5.28
110 111 2.853235 AGTTGAAAAGGACCCTACCG 57.147 50.000 0.00 0.00 34.73 4.02
111 112 6.717997 TGATAAAAGTTGAAAAGGACCCTACC 59.282 38.462 0.00 0.00 0.00 3.18
112 113 7.754851 TGATAAAAGTTGAAAAGGACCCTAC 57.245 36.000 0.00 0.00 0.00 3.18
113 114 7.947890 ACATGATAAAAGTTGAAAAGGACCCTA 59.052 33.333 0.00 0.00 0.00 3.53
114 115 6.782494 ACATGATAAAAGTTGAAAAGGACCCT 59.218 34.615 0.00 0.00 0.00 4.34
115 116 6.868339 CACATGATAAAAGTTGAAAAGGACCC 59.132 38.462 0.00 0.00 0.00 4.46
116 117 7.657336 TCACATGATAAAAGTTGAAAAGGACC 58.343 34.615 0.00 0.00 0.00 4.46
134 135 9.971922 CTAAGATGAGTACACAATATCACATGA 57.028 33.333 0.00 0.00 0.00 3.07
135 136 9.755804 ACTAAGATGAGTACACAATATCACATG 57.244 33.333 0.00 0.00 0.00 3.21
136 137 9.755804 CACTAAGATGAGTACACAATATCACAT 57.244 33.333 0.00 0.00 0.00 3.21
137 138 7.706607 GCACTAAGATGAGTACACAATATCACA 59.293 37.037 0.00 0.00 0.00 3.58
138 139 7.169982 GGCACTAAGATGAGTACACAATATCAC 59.830 40.741 0.00 0.00 0.00 3.06
139 140 7.147742 TGGCACTAAGATGAGTACACAATATCA 60.148 37.037 0.00 0.00 0.00 2.15
140 141 7.210174 TGGCACTAAGATGAGTACACAATATC 58.790 38.462 0.00 0.00 0.00 1.63
141 142 7.124573 TGGCACTAAGATGAGTACACAATAT 57.875 36.000 0.00 0.00 0.00 1.28
142 143 6.538945 TGGCACTAAGATGAGTACACAATA 57.461 37.500 0.00 0.00 0.00 1.90
143 144 5.420725 TGGCACTAAGATGAGTACACAAT 57.579 39.130 0.00 0.00 0.00 2.71
144 145 4.882842 TGGCACTAAGATGAGTACACAA 57.117 40.909 0.00 0.00 0.00 3.33
145 146 4.882842 TTGGCACTAAGATGAGTACACA 57.117 40.909 0.00 0.00 0.00 3.72
146 147 7.495934 ACAATATTGGCACTAAGATGAGTACAC 59.504 37.037 19.37 0.00 0.00 2.90
147 148 7.495606 CACAATATTGGCACTAAGATGAGTACA 59.504 37.037 19.37 0.00 0.00 2.90
148 149 7.519008 GCACAATATTGGCACTAAGATGAGTAC 60.519 40.741 19.37 0.00 0.00 2.73
149 150 6.483307 GCACAATATTGGCACTAAGATGAGTA 59.517 38.462 19.37 0.00 0.00 2.59
150 151 5.297776 GCACAATATTGGCACTAAGATGAGT 59.702 40.000 19.37 0.00 0.00 3.41
151 152 5.278169 GGCACAATATTGGCACTAAGATGAG 60.278 44.000 19.37 0.00 41.65 2.90
152 153 4.580167 GGCACAATATTGGCACTAAGATGA 59.420 41.667 19.37 0.00 41.65 2.92
153 154 4.581824 AGGCACAATATTGGCACTAAGATG 59.418 41.667 19.37 6.49 44.44 2.90
154 155 4.796606 AGGCACAATATTGGCACTAAGAT 58.203 39.130 19.37 0.00 44.44 2.40
155 156 4.199310 GAGGCACAATATTGGCACTAAGA 58.801 43.478 19.37 0.00 44.44 2.10
156 157 3.316308 GGAGGCACAATATTGGCACTAAG 59.684 47.826 19.37 2.17 44.44 2.18
157 158 3.287222 GGAGGCACAATATTGGCACTAA 58.713 45.455 19.37 0.00 44.44 2.24
158 159 2.744823 CGGAGGCACAATATTGGCACTA 60.745 50.000 19.37 0.00 44.44 2.74
159 160 1.767759 GGAGGCACAATATTGGCACT 58.232 50.000 19.37 16.05 44.44 4.40
160 161 0.381801 CGGAGGCACAATATTGGCAC 59.618 55.000 19.37 14.93 44.44 5.01
161 162 0.034574 ACGGAGGCACAATATTGGCA 60.035 50.000 19.37 0.00 44.44 4.92
162 163 1.961793 TACGGAGGCACAATATTGGC 58.038 50.000 19.37 17.59 42.35 4.52
163 164 2.813754 CCATACGGAGGCACAATATTGG 59.186 50.000 19.37 9.51 0.00 3.16
164 165 3.250762 CACCATACGGAGGCACAATATTG 59.749 47.826 14.01 14.01 35.59 1.90
165 166 3.476552 CACCATACGGAGGCACAATATT 58.523 45.455 0.00 0.00 35.59 1.28
166 167 2.810400 GCACCATACGGAGGCACAATAT 60.810 50.000 0.00 0.00 36.53 1.28
167 168 1.474320 GCACCATACGGAGGCACAATA 60.474 52.381 0.00 0.00 36.53 1.90
168 169 0.748005 GCACCATACGGAGGCACAAT 60.748 55.000 0.00 0.00 36.53 2.71
169 170 1.376683 GCACCATACGGAGGCACAA 60.377 57.895 0.00 0.00 36.53 3.33
170 171 2.267642 GCACCATACGGAGGCACA 59.732 61.111 0.00 0.00 36.53 4.57
171 172 2.513897 GGCACCATACGGAGGCAC 60.514 66.667 0.00 0.00 46.09 5.01
174 175 1.743394 GAAAAAGGCACCATACGGAGG 59.257 52.381 0.00 0.00 35.59 4.30
175 176 2.711542 AGAAAAAGGCACCATACGGAG 58.288 47.619 0.00 0.00 35.59 4.63
176 177 2.871096 AGAAAAAGGCACCATACGGA 57.129 45.000 0.00 0.00 35.59 4.69
177 178 2.943033 CCTAGAAAAAGGCACCATACGG 59.057 50.000 0.00 0.00 38.77 4.02
178 179 3.606687 ACCTAGAAAAAGGCACCATACG 58.393 45.455 0.00 0.00 40.62 3.06
179 180 5.977489 AAACCTAGAAAAAGGCACCATAC 57.023 39.130 0.00 0.00 40.62 2.39
180 181 7.179269 ACATAAACCTAGAAAAAGGCACCATA 58.821 34.615 0.00 0.00 40.62 2.74
181 182 6.016555 ACATAAACCTAGAAAAAGGCACCAT 58.983 36.000 0.00 0.00 40.62 3.55
182 183 5.390387 ACATAAACCTAGAAAAAGGCACCA 58.610 37.500 0.00 0.00 40.62 4.17
183 184 5.977489 ACATAAACCTAGAAAAAGGCACC 57.023 39.130 0.00 0.00 40.62 5.01
184 185 6.745116 ACAACATAAACCTAGAAAAAGGCAC 58.255 36.000 0.00 0.00 40.62 5.01
185 186 6.969993 ACAACATAAACCTAGAAAAAGGCA 57.030 33.333 0.00 0.00 40.62 4.75
186 187 7.381408 GTGAACAACATAAACCTAGAAAAAGGC 59.619 37.037 0.00 0.00 40.62 4.35
187 188 8.630037 AGTGAACAACATAAACCTAGAAAAAGG 58.370 33.333 0.00 0.00 42.82 3.11
196 197 9.357161 TGGTATTTTAGTGAACAACATAAACCT 57.643 29.630 0.00 0.00 0.00 3.50
197 198 9.968870 TTGGTATTTTAGTGAACAACATAAACC 57.031 29.630 0.00 0.00 0.00 3.27
199 200 9.968870 GGTTGGTATTTTAGTGAACAACATAAA 57.031 29.630 0.00 0.00 38.66 1.40
200 201 8.291032 CGGTTGGTATTTTAGTGAACAACATAA 58.709 33.333 0.00 0.00 38.66 1.90
201 202 7.660617 TCGGTTGGTATTTTAGTGAACAACATA 59.339 33.333 0.00 0.00 38.66 2.29
202 203 6.487331 TCGGTTGGTATTTTAGTGAACAACAT 59.513 34.615 0.00 0.00 38.66 2.71
203 204 5.821470 TCGGTTGGTATTTTAGTGAACAACA 59.179 36.000 0.00 0.00 38.66 3.33
204 205 6.303021 TCGGTTGGTATTTTAGTGAACAAC 57.697 37.500 0.00 0.00 36.82 3.32
205 206 6.072397 CCATCGGTTGGTATTTTAGTGAACAA 60.072 38.462 0.00 0.00 40.99 2.83
206 207 5.413213 CCATCGGTTGGTATTTTAGTGAACA 59.587 40.000 0.00 0.00 40.99 3.18
207 208 5.875930 CCATCGGTTGGTATTTTAGTGAAC 58.124 41.667 0.00 0.00 40.99 3.18
221 222 3.531538 AGTGCATTAGTACCATCGGTTG 58.468 45.455 0.00 0.00 37.09 3.77
222 223 3.906720 AGTGCATTAGTACCATCGGTT 57.093 42.857 0.00 0.00 37.09 4.44
223 224 4.587262 TGATAGTGCATTAGTACCATCGGT 59.413 41.667 0.00 0.00 40.16 4.69
224 225 5.134202 TGATAGTGCATTAGTACCATCGG 57.866 43.478 0.00 0.00 32.78 4.18
225 226 6.447162 TCTTGATAGTGCATTAGTACCATCG 58.553 40.000 0.00 0.00 32.78 3.84
226 227 9.579768 CTATCTTGATAGTGCATTAGTACCATC 57.420 37.037 8.96 0.00 31.28 3.51
227 228 9.094578 ACTATCTTGATAGTGCATTAGTACCAT 57.905 33.333 19.00 0.00 36.13 3.55
228 229 8.478775 ACTATCTTGATAGTGCATTAGTACCA 57.521 34.615 19.00 0.00 36.13 3.25
229 230 9.843334 GTACTATCTTGATAGTGCATTAGTACC 57.157 37.037 25.17 4.83 38.87 3.34
230 231 9.843334 GGTACTATCTTGATAGTGCATTAGTAC 57.157 37.037 27.37 17.50 40.17 2.73
231 232 9.582648 TGGTACTATCTTGATAGTGCATTAGTA 57.417 33.333 27.37 9.88 40.17 1.82
232 233 8.478775 TGGTACTATCTTGATAGTGCATTAGT 57.521 34.615 27.37 10.63 40.17 2.24
236 237 9.881649 CATTATGGTACTATCTTGATAGTGCAT 57.118 33.333 27.37 22.03 40.17 3.96
237 238 8.870116 ACATTATGGTACTATCTTGATAGTGCA 58.130 33.333 27.37 18.75 40.17 4.57
256 257 7.594015 GTCACCGTAAGAGTACCATACATTATG 59.406 40.741 0.00 0.00 43.02 1.90
266 267 3.881937 ATTGGTCACCGTAAGAGTACC 57.118 47.619 0.00 0.00 43.02 3.34
273 274 3.449377 TGCATCTCTATTGGTCACCGTAA 59.551 43.478 0.00 0.00 0.00 3.18
276 277 2.602257 TGCATCTCTATTGGTCACCG 57.398 50.000 0.00 0.00 0.00 4.94
288 289 6.293571 CCCCAAACTTTCAAAATTTGCATCTC 60.294 38.462 0.00 0.00 32.98 2.75
328 329 4.773323 AGCTCATTTGGTTGAACTAAGC 57.227 40.909 0.00 0.00 37.30 3.09
335 336 9.877178 TTTTTAAACTTTAGCTCATTTGGTTGA 57.123 25.926 0.00 0.00 0.00 3.18
415 420 5.400066 AATTTGGAAATTTGAGGGTACCG 57.600 39.130 5.65 0.00 44.95 4.02
841 860 1.205064 CTCTGGTTGACAAAGCGCG 59.795 57.895 0.00 0.00 36.55 6.86
1085 1116 3.695606 GCAGGGGACAGCTCGTGA 61.696 66.667 0.00 0.00 40.17 4.35
1119 1150 2.438254 GTGGCGATCATGGTGGCA 60.438 61.111 15.28 9.76 35.66 4.92
1237 1287 2.289072 TGAGAGAGAAAGCCCGAAACAG 60.289 50.000 0.00 0.00 0.00 3.16
1261 1348 4.828939 TCAATTGTGACCTGATTGAGCTTT 59.171 37.500 5.13 0.00 35.51 3.51
1568 1883 3.565482 ACACTAGCATTTTGACACAGTGG 59.435 43.478 5.31 0.00 36.97 4.00
1780 2121 3.386237 GAGCGCTGTGAGGTCCCT 61.386 66.667 18.48 0.00 0.00 4.20
2184 6096 2.349886 GACGATTGATCAGCTGTTGACC 59.650 50.000 14.67 0.43 38.99 4.02
2212 6131 2.096335 TCACGCAGCATGATCAATTGAC 59.904 45.455 11.07 5.73 39.69 3.18
2228 6147 2.223900 TGAGACATCTCCATCATCACGC 60.224 50.000 6.44 0.00 42.20 5.34
2253 6188 1.609841 GGTTCCTTCGTACCCAACCAG 60.610 57.143 0.00 0.00 37.13 4.00
2261 6196 1.154197 GCTGGTTGGTTCCTTCGTAC 58.846 55.000 0.00 0.00 0.00 3.67
2335 6270 2.146342 CGATGAAGCACAGACAAAGGT 58.854 47.619 0.00 0.00 0.00 3.50
2344 6279 5.630061 CAATTTACATGACGATGAAGCACA 58.370 37.500 0.00 0.00 33.36 4.57
2355 6290 2.747446 ACGGACCAGCAATTTACATGAC 59.253 45.455 0.00 0.00 0.00 3.06
2356 6291 2.746904 CACGGACCAGCAATTTACATGA 59.253 45.455 0.00 0.00 0.00 3.07
2357 6292 2.731968 GCACGGACCAGCAATTTACATG 60.732 50.000 1.21 0.00 0.00 3.21
2364 6299 0.253044 ATACTGCACGGACCAGCAAT 59.747 50.000 9.61 2.94 40.73 3.56
2369 6304 3.494223 CCATCATAATACTGCACGGACCA 60.494 47.826 0.00 0.00 0.00 4.02
2374 6309 4.213906 TGATTGCCATCATAATACTGCACG 59.786 41.667 0.00 0.00 34.22 5.34
2375 6310 5.694231 TGATTGCCATCATAATACTGCAC 57.306 39.130 0.00 0.00 34.22 4.57
2383 6318 4.951715 AGAGTTGCTTGATTGCCATCATAA 59.048 37.500 0.64 0.00 39.28 1.90
2386 6321 2.751259 GAGAGTTGCTTGATTGCCATCA 59.249 45.455 0.00 0.00 37.67 3.07
2387 6322 2.223203 CGAGAGTTGCTTGATTGCCATC 60.223 50.000 0.00 0.00 0.00 3.51
2391 6326 3.120060 ACATTCGAGAGTTGCTTGATTGC 60.120 43.478 0.00 0.00 40.02 3.56
2392 6327 4.083643 ACACATTCGAGAGTTGCTTGATTG 60.084 41.667 0.00 0.00 41.23 2.67
2513 8254 1.003118 GCACATGGACACCACTAAGGA 59.997 52.381 0.00 0.00 41.22 3.36
2565 8306 1.474330 CATGGACTAGGGGCAAAACC 58.526 55.000 0.00 0.00 37.93 3.27
2582 8323 2.325082 GGAACGAGTTGGTGCGCAT 61.325 57.895 15.91 0.00 0.00 4.73
2672 8413 0.545171 ACGGTCTGATCGTCTAGGGA 59.455 55.000 10.68 0.00 35.87 4.20
2904 8662 3.682292 GAGGTGGCGCGGGAGATTT 62.682 63.158 8.83 0.00 0.00 2.17
2960 8718 2.951745 GCATCGCGGACAGACGAG 60.952 66.667 6.13 0.00 42.31 4.18
2983 8741 1.003233 GAAACCCTCCGATCAACACCT 59.997 52.381 0.00 0.00 0.00 4.00
2986 8744 1.974957 TGAGAAACCCTCCGATCAACA 59.025 47.619 0.00 0.00 41.25 3.33
3019 8777 5.351458 CACACATAGAACGGATGATTCTGA 58.649 41.667 0.00 0.00 37.03 3.27
3088 8848 1.027357 CCATTGCTCAAAGATCCCGG 58.973 55.000 0.00 0.00 0.00 5.73
3116 8876 1.047002 CACCTGCATGAACCCCAAAA 58.953 50.000 0.00 0.00 0.00 2.44
3122 8882 1.547372 AGCATTTCACCTGCATGAACC 59.453 47.619 2.20 0.00 42.15 3.62
3144 8904 2.736721 CCAGAGCATCGACGAAAGAAAA 59.263 45.455 0.00 0.00 42.67 2.29
3152 8912 2.125552 TTGGCCAGAGCATCGACG 60.126 61.111 5.11 0.00 42.67 5.12


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

AutoCloner maintained by Alex Coulton.