Multiple sequence alignment - TraesCS5A01G069000

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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 TraesCS5A01G069000 chr5A 100.000 2560 0 0 1 2560 77367650 77365091 0.000000e+00 4728
1 TraesCS5A01G069000 chr5A 97.797 227 5 0 1 227 258038497 258038271 2.390000e-105 392
2 TraesCS5A01G069000 chr4A 87.465 2154 143 51 225 2331 407463380 407465453 0.000000e+00 2364
3 TraesCS5A01G069000 chr4A 98.253 229 4 0 1 229 441499054 441499282 3.970000e-108 401
4 TraesCS5A01G069000 chr4A 95.833 120 5 0 2439 2558 407465588 407465707 7.230000e-46 195
5 TraesCS5A01G069000 chr5D 90.773 1810 107 24 225 2016 81344517 81342750 0.000000e+00 2362
6 TraesCS5A01G069000 chr5D 94.318 88 5 0 2334 2421 81342044 81341957 4.440000e-28 135
7 TraesCS5A01G069000 chr5D 93.103 87 5 1 2247 2333 81342177 81342092 2.670000e-25 126
8 TraesCS5A01G069000 chr5D 94.521 73 4 0 2066 2138 81342536 81342464 2.080000e-21 113
9 TraesCS5A01G069000 chr6A 97.436 234 6 0 1 234 410575677 410575444 1.430000e-107 399
10 TraesCS5A01G069000 chr2A 97.021 235 7 0 1 235 771545848 771545614 1.850000e-106 396
11 TraesCS5A01G069000 chr2A 97.807 228 5 0 1 228 597848038 597847811 6.640000e-106 394
12 TraesCS5A01G069000 chr2A 96.581 234 7 1 1 234 747602666 747602898 1.110000e-103 387
13 TraesCS5A01G069000 chr2A 95.816 239 9 1 1 238 15845468 15845706 4.000000e-103 385
14 TraesCS5A01G069000 chr6B 98.222 225 4 0 1 225 547713873 547713649 6.640000e-106 394
15 TraesCS5A01G069000 chr3A 97.807 228 5 0 1 228 26583613 26583386 6.640000e-106 394


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 TraesCS5A01G069000 chr5A 77365091 77367650 2559 True 4728.0 4728 100.00000 1 2560 1 chr5A.!!$R1 2559
1 TraesCS5A01G069000 chr4A 407463380 407465707 2327 False 1279.5 2364 91.64900 225 2558 2 chr4A.!!$F2 2333
2 TraesCS5A01G069000 chr5D 81341957 81344517 2560 True 684.0 2362 93.17875 225 2421 4 chr5D.!!$R1 2196

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
235 236 0.321653 AAGAGGCCTTAGCGTGTTGG 60.322 55.0 6.77 0.00 38.74 3.77 F
1292 1304 0.108520 TCCGACGGTAAGCATGGTTC 60.109 55.0 14.50 6.02 0.00 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1351 1363 0.169009 GAGGGCTGCAATGAACGAAC 59.831 55.000 0.50 0.0 0.00 3.95 R
2257 2623 1.150536 TTTTCTGAAGCCACGGCCT 59.849 52.632 3.95 0.0 43.17 5.19 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
51 52 3.493767 GGATTGGTTCCTATCCTCCAC 57.506 52.381 19.71 0.00 41.78 4.02
52 53 2.777692 GGATTGGTTCCTATCCTCCACA 59.222 50.000 19.71 0.00 41.78 4.17
53 54 3.395941 GGATTGGTTCCTATCCTCCACAT 59.604 47.826 19.71 0.00 41.78 3.21
54 55 4.141158 GGATTGGTTCCTATCCTCCACATT 60.141 45.833 19.71 0.00 41.78 2.71
55 56 4.946160 TTGGTTCCTATCCTCCACATTT 57.054 40.909 0.00 0.00 0.00 2.32
56 57 4.503714 TGGTTCCTATCCTCCACATTTC 57.496 45.455 0.00 0.00 0.00 2.17
57 58 3.849574 TGGTTCCTATCCTCCACATTTCA 59.150 43.478 0.00 0.00 0.00 2.69
58 59 4.478317 TGGTTCCTATCCTCCACATTTCAT 59.522 41.667 0.00 0.00 0.00 2.57
59 60 5.669904 TGGTTCCTATCCTCCACATTTCATA 59.330 40.000 0.00 0.00 0.00 2.15
60 61 6.183361 TGGTTCCTATCCTCCACATTTCATAG 60.183 42.308 0.00 0.00 0.00 2.23
61 62 6.234177 GTTCCTATCCTCCACATTTCATAGG 58.766 44.000 0.00 0.00 35.93 2.57
62 63 5.726560 TCCTATCCTCCACATTTCATAGGA 58.273 41.667 2.01 2.01 39.61 2.94
63 64 6.150332 TCCTATCCTCCACATTTCATAGGAA 58.850 40.000 3.47 0.00 39.17 3.36
64 65 6.619437 TCCTATCCTCCACATTTCATAGGAAA 59.381 38.462 4.85 4.85 46.36 3.13
65 66 7.128728 TCCTATCCTCCACATTTCATAGGAAAA 59.871 37.037 6.65 0.00 45.52 2.29
66 67 7.946776 CCTATCCTCCACATTTCATAGGAAAAT 59.053 37.037 6.65 0.00 45.52 1.82
69 70 9.713684 ATCCTCCACATTTCATAGGAAAATAAA 57.286 29.630 6.65 0.00 45.52 1.40
70 71 9.540538 TCCTCCACATTTCATAGGAAAATAAAA 57.459 29.630 6.65 0.00 45.52 1.52
91 92 6.976934 AAAAAGAGCCTAAACTCAATGGAA 57.023 33.333 0.00 0.00 39.26 3.53
92 93 6.976934 AAAAGAGCCTAAACTCAATGGAAA 57.023 33.333 0.00 0.00 39.26 3.13
93 94 6.976934 AAAGAGCCTAAACTCAATGGAAAA 57.023 33.333 0.00 0.00 39.26 2.29
94 95 6.976934 AAGAGCCTAAACTCAATGGAAAAA 57.023 33.333 0.00 0.00 39.26 1.94
95 96 7.544804 AAGAGCCTAAACTCAATGGAAAAAT 57.455 32.000 0.00 0.00 39.26 1.82
96 97 7.544804 AGAGCCTAAACTCAATGGAAAAATT 57.455 32.000 0.00 0.00 39.26 1.82
97 98 7.606349 AGAGCCTAAACTCAATGGAAAAATTC 58.394 34.615 0.00 0.00 39.26 2.17
98 99 6.813649 GAGCCTAAACTCAATGGAAAAATTCC 59.186 38.462 2.12 2.12 42.14 3.01
99 100 7.310052 GAGCCTAAACTCAATGGAAAAATTCCT 60.310 37.037 10.28 0.00 42.21 3.36
111 112 6.785488 GGAAAAATTCCTTTGGTGTCAATC 57.215 37.500 1.86 0.00 46.57 2.67
112 113 6.287525 GGAAAAATTCCTTTGGTGTCAATCA 58.712 36.000 1.86 0.00 46.57 2.57
113 114 6.765512 GGAAAAATTCCTTTGGTGTCAATCAA 59.234 34.615 1.86 0.00 46.57 2.57
114 115 7.281999 GGAAAAATTCCTTTGGTGTCAATCAAA 59.718 33.333 1.86 3.54 46.57 2.69
115 116 8.750515 AAAAATTCCTTTGGTGTCAATCAAAT 57.249 26.923 3.89 0.00 33.19 2.32
116 117 7.733402 AAATTCCTTTGGTGTCAATCAAATG 57.267 32.000 3.89 2.57 33.19 2.32
117 118 6.669125 ATTCCTTTGGTGTCAATCAAATGA 57.331 33.333 3.89 4.37 33.19 2.57
130 131 7.528996 TCAATCAAATGACATCTTGTTTCCT 57.471 32.000 0.00 0.00 0.00 3.36
131 132 8.634335 TCAATCAAATGACATCTTGTTTCCTA 57.366 30.769 0.00 0.00 0.00 2.94
132 133 9.246670 TCAATCAAATGACATCTTGTTTCCTAT 57.753 29.630 0.00 0.00 0.00 2.57
133 134 9.865321 CAATCAAATGACATCTTGTTTCCTATT 57.135 29.630 0.00 0.00 0.00 1.73
135 136 8.055279 TCAAATGACATCTTGTTTCCTATTCC 57.945 34.615 0.00 0.00 0.00 3.01
136 137 7.890127 TCAAATGACATCTTGTTTCCTATTCCT 59.110 33.333 0.00 0.00 0.00 3.36
137 138 9.177608 CAAATGACATCTTGTTTCCTATTCCTA 57.822 33.333 0.00 0.00 0.00 2.94
138 139 8.738645 AATGACATCTTGTTTCCTATTCCTAC 57.261 34.615 0.00 0.00 0.00 3.18
139 140 7.496346 TGACATCTTGTTTCCTATTCCTACT 57.504 36.000 0.00 0.00 0.00 2.57
140 141 7.918076 TGACATCTTGTTTCCTATTCCTACTT 58.082 34.615 0.00 0.00 0.00 2.24
141 142 9.042450 TGACATCTTGTTTCCTATTCCTACTTA 57.958 33.333 0.00 0.00 0.00 2.24
175 176 8.755696 GAGATACATGTCATCTCATTTCCTAC 57.244 38.462 24.95 8.46 45.17 3.18
176 177 8.255111 AGATACATGTCATCTCATTTCCTACA 57.745 34.615 0.00 0.00 0.00 2.74
177 178 8.708378 AGATACATGTCATCTCATTTCCTACAA 58.292 33.333 0.00 0.00 0.00 2.41
178 179 8.899427 ATACATGTCATCTCATTTCCTACAAG 57.101 34.615 0.00 0.00 0.00 3.16
179 180 6.950842 ACATGTCATCTCATTTCCTACAAGA 58.049 36.000 0.00 0.00 0.00 3.02
180 181 7.571919 ACATGTCATCTCATTTCCTACAAGAT 58.428 34.615 0.00 0.00 0.00 2.40
181 182 8.051535 ACATGTCATCTCATTTCCTACAAGATT 58.948 33.333 0.00 0.00 0.00 2.40
182 183 8.557864 CATGTCATCTCATTTCCTACAAGATTC 58.442 37.037 0.00 0.00 0.00 2.52
183 184 7.050377 TGTCATCTCATTTCCTACAAGATTCC 58.950 38.462 0.00 0.00 0.00 3.01
184 185 7.092712 TGTCATCTCATTTCCTACAAGATTCCT 60.093 37.037 0.00 0.00 0.00 3.36
185 186 8.424918 GTCATCTCATTTCCTACAAGATTCCTA 58.575 37.037 0.00 0.00 0.00 2.94
186 187 9.163894 TCATCTCATTTCCTACAAGATTCCTAT 57.836 33.333 0.00 0.00 0.00 2.57
187 188 9.790344 CATCTCATTTCCTACAAGATTCCTATT 57.210 33.333 0.00 0.00 0.00 1.73
189 190 8.432805 TCTCATTTCCTACAAGATTCCTATTCC 58.567 37.037 0.00 0.00 0.00 3.01
190 191 8.337118 TCATTTCCTACAAGATTCCTATTCCT 57.663 34.615 0.00 0.00 0.00 3.36
191 192 9.447279 TCATTTCCTACAAGATTCCTATTCCTA 57.553 33.333 0.00 0.00 0.00 2.94
194 195 9.447279 TTTCCTACAAGATTCCTATTCCTATGA 57.553 33.333 0.00 0.00 0.00 2.15
195 196 9.621239 TTCCTACAAGATTCCTATTCCTATGAT 57.379 33.333 0.00 0.00 0.00 2.45
221 222 8.986929 AATTCTATCCTATGAACCAAAAGAGG 57.013 34.615 0.00 0.00 0.00 3.69
222 223 5.930135 TCTATCCTATGAACCAAAAGAGGC 58.070 41.667 0.00 0.00 0.00 4.70
223 224 3.366052 TCCTATGAACCAAAAGAGGCC 57.634 47.619 0.00 0.00 0.00 5.19
233 234 1.880027 CAAAAGAGGCCTTAGCGTGTT 59.120 47.619 6.77 0.00 41.58 3.32
234 235 1.523758 AAAGAGGCCTTAGCGTGTTG 58.476 50.000 6.77 0.00 39.20 3.33
235 236 0.321653 AAGAGGCCTTAGCGTGTTGG 60.322 55.000 6.77 0.00 38.74 3.77
331 332 2.961522 AATTAAATGCGCCGGTATCG 57.038 45.000 4.18 0.00 0.00 2.92
348 354 2.512485 TCGAGAAAACCTTGCGTGTA 57.488 45.000 0.00 0.00 0.00 2.90
453 460 1.368731 CAGATCGACGCGCTCTCTC 60.369 63.158 5.73 0.00 29.75 3.20
454 461 1.522806 AGATCGACGCGCTCTCTCT 60.523 57.895 5.73 0.00 25.23 3.10
455 462 1.368731 GATCGACGCGCTCTCTCTG 60.369 63.158 5.73 0.00 0.00 3.35
456 463 2.709629 GATCGACGCGCTCTCTCTGG 62.710 65.000 5.73 0.00 0.00 3.86
457 464 3.500642 CGACGCGCTCTCTCTGGA 61.501 66.667 5.73 0.00 0.00 3.86
458 465 2.407210 GACGCGCTCTCTCTGGAG 59.593 66.667 5.73 0.00 40.73 3.86
488 495 3.056328 GAAGACCAGCGCAACCCC 61.056 66.667 11.47 0.00 0.00 4.95
494 501 4.680237 CAGCGCAACCCCGTCTCA 62.680 66.667 11.47 0.00 0.00 3.27
553 563 0.963962 TATATTCCGTCCCCTCACGC 59.036 55.000 0.00 0.00 38.52 5.34
558 568 4.052229 CGTCCCCTCACGCTTCGT 62.052 66.667 0.00 0.00 42.36 3.85
562 572 2.434359 CCCTCACGCTTCGTTCCC 60.434 66.667 0.00 0.00 38.32 3.97
600 612 1.152839 CCGTCTCCTCCTCCTCCTC 60.153 68.421 0.00 0.00 0.00 3.71
605 617 3.039526 CCTCCTCCTCCTCCCCCT 61.040 72.222 0.00 0.00 0.00 4.79
606 618 2.612251 CTCCTCCTCCTCCCCCTC 59.388 72.222 0.00 0.00 0.00 4.30
607 619 3.036959 TCCTCCTCCTCCCCCTCC 61.037 72.222 0.00 0.00 0.00 4.30
608 620 3.039526 CCTCCTCCTCCCCCTCCT 61.040 72.222 0.00 0.00 0.00 3.69
609 621 2.612251 CTCCTCCTCCCCCTCCTC 59.388 72.222 0.00 0.00 0.00 3.71
610 622 2.018086 CTCCTCCTCCCCCTCCTCT 61.018 68.421 0.00 0.00 0.00 3.69
611 623 2.015726 TCCTCCTCCCCCTCCTCTC 61.016 68.421 0.00 0.00 0.00 3.20
639 651 2.141312 GGAGCCCAGATCTCCTTCC 58.859 63.158 0.00 0.00 45.13 3.46
856 868 3.488090 CGCGCCGGACCTTCTTTC 61.488 66.667 5.05 0.00 0.00 2.62
946 958 6.927294 TCAGAAAAGAAAAGAGAGGAACAC 57.073 37.500 0.00 0.00 0.00 3.32
947 959 5.523916 TCAGAAAAGAAAAGAGAGGAACACG 59.476 40.000 0.00 0.00 0.00 4.49
948 960 4.273724 AGAAAAGAAAAGAGAGGAACACGC 59.726 41.667 0.00 0.00 0.00 5.34
949 961 2.910688 AGAAAAGAGAGGAACACGCA 57.089 45.000 0.00 0.00 0.00 5.24
959 971 1.336755 AGGAACACGCAAGCGATTTTT 59.663 42.857 22.30 7.76 42.83 1.94
1052 1064 2.498644 AAGCTTAGGAAGGTTGAGCC 57.501 50.000 0.00 0.00 46.55 4.70
1164 1176 4.176851 GTCGACGAGGGCGAGTCC 62.177 72.222 0.00 0.00 41.64 3.85
1260 1272 1.066071 GCCAACTTCCTCCTCTACACC 60.066 57.143 0.00 0.00 0.00 4.16
1292 1304 0.108520 TCCGACGGTAAGCATGGTTC 60.109 55.000 14.50 6.02 0.00 3.62
1301 1313 4.024048 CGGTAAGCATGGTTCCATCATTAC 60.024 45.833 14.50 18.07 0.00 1.89
1306 1318 4.825634 AGCATGGTTCCATCATTACAGATG 59.174 41.667 0.86 0.00 43.90 2.90
1351 1363 0.734889 GCACGTCCCTGAATTCCATG 59.265 55.000 2.27 0.00 0.00 3.66
1367 1379 1.621107 CATGTTCGTTCATTGCAGCC 58.379 50.000 0.00 0.00 0.00 4.85
1459 1471 1.779061 AACAATGGGTCTGAGCCGGT 61.779 55.000 19.98 14.87 38.98 5.28
1483 1495 3.305361 GTGGCTACGACGGTTAATTCTTC 59.695 47.826 0.00 0.00 0.00 2.87
1575 1587 1.550072 TGTGAGCCATCGATGAGTTCA 59.450 47.619 26.86 23.24 0.00 3.18
1579 1591 4.811024 GTGAGCCATCGATGAGTTCAAATA 59.189 41.667 26.86 5.85 0.00 1.40
1580 1592 4.811024 TGAGCCATCGATGAGTTCAAATAC 59.189 41.667 26.86 6.37 0.00 1.89
1593 1605 6.072728 TGAGTTCAAATACAATAAGTGCGCTT 60.073 34.615 17.97 17.97 38.66 4.68
1786 1798 8.082242 GCATTGAAGTTACATTTACTCTGGTTT 58.918 33.333 0.00 0.00 0.00 3.27
1822 1834 6.541969 TGTGTTTGTGTGCATCGAATATAAG 58.458 36.000 0.00 0.00 0.00 1.73
1860 1905 3.308530 CGAAGGAATGAGTTGTTTTGGC 58.691 45.455 0.00 0.00 0.00 4.52
1861 1906 3.004734 CGAAGGAATGAGTTGTTTTGGCT 59.995 43.478 0.00 0.00 0.00 4.75
1862 1907 4.301628 GAAGGAATGAGTTGTTTTGGCTG 58.698 43.478 0.00 0.00 0.00 4.85
1863 1908 2.036346 AGGAATGAGTTGTTTTGGCTGC 59.964 45.455 0.00 0.00 0.00 5.25
1864 1909 2.224018 GGAATGAGTTGTTTTGGCTGCA 60.224 45.455 0.50 0.00 0.00 4.41
1865 1910 2.514205 ATGAGTTGTTTTGGCTGCAC 57.486 45.000 0.50 0.00 0.00 4.57
1866 1911 1.473258 TGAGTTGTTTTGGCTGCACT 58.527 45.000 0.50 0.00 0.00 4.40
1867 1912 1.824230 TGAGTTGTTTTGGCTGCACTT 59.176 42.857 0.50 0.00 0.00 3.16
1868 1913 2.159254 TGAGTTGTTTTGGCTGCACTTC 60.159 45.455 0.50 0.00 0.00 3.01
1869 1914 2.099756 GAGTTGTTTTGGCTGCACTTCT 59.900 45.455 0.50 0.00 0.00 2.85
1870 1915 3.287222 AGTTGTTTTGGCTGCACTTCTA 58.713 40.909 0.50 0.00 0.00 2.10
1871 1916 3.891366 AGTTGTTTTGGCTGCACTTCTAT 59.109 39.130 0.50 0.00 0.00 1.98
1962 2018 7.854557 TTGATACATCTAATATGCTGCCATC 57.145 36.000 0.00 0.00 32.85 3.51
1968 2024 4.891260 TCTAATATGCTGCCATCTGTGAG 58.109 43.478 0.00 0.00 32.85 3.51
1971 2027 1.747709 ATGCTGCCATCTGTGAGAAC 58.252 50.000 0.00 0.00 0.00 3.01
2008 2125 2.223900 TGCTGCCATCATCTAGTTCTCG 60.224 50.000 0.00 0.00 0.00 4.04
2020 2137 7.786030 TCATCTAGTTCTCGAATCATTCCTTT 58.214 34.615 0.00 0.00 0.00 3.11
2049 2166 1.066215 TGCCACGCATCACTTACTCAT 60.066 47.619 0.00 0.00 31.71 2.90
2050 2167 1.594862 GCCACGCATCACTTACTCATC 59.405 52.381 0.00 0.00 0.00 2.92
2064 2282 8.150296 TCACTTACTCATCAGTTCTCAAATCAA 58.850 33.333 0.00 0.00 33.62 2.57
2068 2286 6.963796 ACTCATCAGTTCTCAAATCAACAAC 58.036 36.000 0.00 0.00 0.00 3.32
2092 2310 4.813027 AGCAATGACATGTGAATTTCCAC 58.187 39.130 1.15 0.00 37.55 4.02
2138 2356 9.111519 ACATATTAGGGTTCCTTTGGAATTTTT 57.888 29.630 2.17 0.00 44.04 1.94
2139 2357 9.599866 CATATTAGGGTTCCTTTGGAATTTTTC 57.400 33.333 2.17 0.00 44.04 2.29
2143 2361 6.013812 TAGGGTTCCTTTGGAATTTTTCCATG 60.014 38.462 9.65 6.37 46.21 3.66
2163 2381 7.101700 TCCATGTAGATTGATATGAGCATGAC 58.898 38.462 0.00 0.00 35.76 3.06
2167 2385 8.543862 TGTAGATTGATATGAGCATGACATTC 57.456 34.615 10.23 8.70 0.00 2.67
2168 2386 7.605309 TGTAGATTGATATGAGCATGACATTCC 59.395 37.037 10.23 5.09 0.00 3.01
2173 2479 5.410439 TGATATGAGCATGACATTCCAATCG 59.590 40.000 10.23 0.00 0.00 3.34
2175 2481 4.135747 TGAGCATGACATTCCAATCGTA 57.864 40.909 0.00 0.00 0.00 3.43
2209 2515 9.807921 TTATTCCTCTGTTTTTAGAATCCTGTT 57.192 29.630 0.00 0.00 0.00 3.16
2210 2516 7.510549 TTCCTCTGTTTTTAGAATCCTGTTG 57.489 36.000 0.00 0.00 0.00 3.33
2212 2518 7.287061 TCCTCTGTTTTTAGAATCCTGTTGAA 58.713 34.615 0.00 0.00 0.00 2.69
2213 2519 7.445402 TCCTCTGTTTTTAGAATCCTGTTGAAG 59.555 37.037 0.00 0.00 0.00 3.02
2257 2623 5.457148 GTGAAATCATGTGTTGTGCGTTAAA 59.543 36.000 0.00 0.00 0.00 1.52
2260 2626 2.050691 CATGTGTTGTGCGTTAAAGGC 58.949 47.619 0.00 0.00 0.00 4.35
2280 2692 3.845625 GTGGCTTCAGAAAACCACG 57.154 52.632 15.87 0.00 40.71 4.94
2286 2698 3.253432 GGCTTCAGAAAACCACGAATTCT 59.747 43.478 3.52 0.00 33.83 2.40
2409 2875 0.185901 GCTGGATAATGGCCCCTTCA 59.814 55.000 0.00 0.00 0.00 3.02
2410 2876 1.203100 GCTGGATAATGGCCCCTTCAT 60.203 52.381 0.00 0.00 0.00 2.57
2413 2879 4.739793 CTGGATAATGGCCCCTTCATAAA 58.260 43.478 0.00 0.00 0.00 1.40
2414 2880 5.336102 CTGGATAATGGCCCCTTCATAAAT 58.664 41.667 0.00 0.00 0.00 1.40
2415 2881 5.085920 TGGATAATGGCCCCTTCATAAATG 58.914 41.667 0.00 0.00 0.00 2.32
2416 2882 5.086621 GGATAATGGCCCCTTCATAAATGT 58.913 41.667 0.00 0.00 0.00 2.71
2417 2883 5.047092 GGATAATGGCCCCTTCATAAATGTG 60.047 44.000 0.00 0.00 0.00 3.21
2418 2884 2.157640 TGGCCCCTTCATAAATGTGG 57.842 50.000 0.00 0.00 0.00 4.17
2419 2885 0.752658 GGCCCCTTCATAAATGTGGC 59.247 55.000 0.00 0.00 0.00 5.01
2420 2886 1.689258 GGCCCCTTCATAAATGTGGCT 60.689 52.381 0.00 0.00 0.00 4.75
2421 2887 2.110578 GCCCCTTCATAAATGTGGCTT 58.889 47.619 0.00 0.00 0.00 4.35
2422 2888 2.501316 GCCCCTTCATAAATGTGGCTTT 59.499 45.455 0.00 0.00 0.00 3.51
2423 2889 3.055167 GCCCCTTCATAAATGTGGCTTTT 60.055 43.478 0.00 0.00 0.00 2.27
2424 2890 4.565444 GCCCCTTCATAAATGTGGCTTTTT 60.565 41.667 0.00 0.00 0.00 1.94
2483 2949 1.724654 CGGCGAATGCATATAAACGGC 60.725 52.381 0.00 18.58 45.35 5.68
2540 3006 2.012673 GCTTGTGGGAGCTGATTGTAG 58.987 52.381 0.00 0.00 39.57 2.74
2543 3009 2.820178 TGTGGGAGCTGATTGTAGAGA 58.180 47.619 0.00 0.00 0.00 3.10
2558 3024 6.785337 TTGTAGAGAATTCGGTAATCCTGA 57.215 37.500 0.00 0.00 0.00 3.86
2559 3025 6.978674 TGTAGAGAATTCGGTAATCCTGAT 57.021 37.500 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 4.713792 ATGTGGAGGATAGGAACCAATC 57.286 45.455 0.00 0.00 34.11 2.67
33 34 5.044179 TGAAATGTGGAGGATAGGAACCAAT 60.044 40.000 0.00 0.00 34.11 3.16
34 35 4.290985 TGAAATGTGGAGGATAGGAACCAA 59.709 41.667 0.00 0.00 34.11 3.67
35 36 3.849574 TGAAATGTGGAGGATAGGAACCA 59.150 43.478 0.00 0.00 0.00 3.67
36 37 4.503714 TGAAATGTGGAGGATAGGAACC 57.496 45.455 0.00 0.00 0.00 3.62
37 38 6.043243 TCCTATGAAATGTGGAGGATAGGAAC 59.957 42.308 0.00 0.00 38.86 3.62
38 39 6.150332 TCCTATGAAATGTGGAGGATAGGAA 58.850 40.000 0.00 0.00 38.86 3.36
39 40 5.726560 TCCTATGAAATGTGGAGGATAGGA 58.273 41.667 0.00 0.00 39.29 2.94
40 41 6.439636 TTCCTATGAAATGTGGAGGATAGG 57.560 41.667 0.00 0.00 36.22 2.57
41 42 8.930846 ATTTTCCTATGAAATGTGGAGGATAG 57.069 34.615 0.00 0.00 40.08 2.08
43 44 9.713684 TTTATTTTCCTATGAAATGTGGAGGAT 57.286 29.630 0.00 0.00 40.08 3.24
44 45 9.540538 TTTTATTTTCCTATGAAATGTGGAGGA 57.459 29.630 0.00 0.00 40.08 3.71
68 69 6.976934 TTCCATTGAGTTTAGGCTCTTTTT 57.023 33.333 0.00 0.00 36.51 1.94
69 70 6.976934 TTTCCATTGAGTTTAGGCTCTTTT 57.023 33.333 0.00 0.00 36.51 2.27
70 71 6.976934 TTTTCCATTGAGTTTAGGCTCTTT 57.023 33.333 0.00 0.00 36.51 2.52
71 72 6.976934 TTTTTCCATTGAGTTTAGGCTCTT 57.023 33.333 0.00 0.00 36.51 2.85
72 73 7.544804 AATTTTTCCATTGAGTTTAGGCTCT 57.455 32.000 0.00 0.00 36.51 4.09
73 74 7.818493 GAATTTTTCCATTGAGTTTAGGCTC 57.182 36.000 0.00 0.00 36.12 4.70
85 86 7.289310 ATTGACACCAAAGGAATTTTTCCATT 58.711 30.769 8.87 0.31 42.19 3.16
86 87 6.840527 ATTGACACCAAAGGAATTTTTCCAT 58.159 32.000 8.87 0.00 42.19 3.41
87 88 6.126940 TGATTGACACCAAAGGAATTTTTCCA 60.127 34.615 8.87 0.00 42.19 3.53
88 89 6.287525 TGATTGACACCAAAGGAATTTTTCC 58.712 36.000 0.00 0.00 41.06 3.13
89 90 7.784633 TTGATTGACACCAAAGGAATTTTTC 57.215 32.000 0.00 0.00 35.67 2.29
90 91 8.623030 CATTTGATTGACACCAAAGGAATTTTT 58.377 29.630 7.86 0.00 36.51 1.94
91 92 7.992033 TCATTTGATTGACACCAAAGGAATTTT 59.008 29.630 11.90 0.00 39.22 1.82
92 93 7.442062 GTCATTTGATTGACACCAAAGGAATTT 59.558 33.333 14.50 0.00 42.24 1.82
93 94 6.930722 GTCATTTGATTGACACCAAAGGAATT 59.069 34.615 14.50 0.00 42.24 2.17
94 95 6.458210 GTCATTTGATTGACACCAAAGGAAT 58.542 36.000 14.50 0.00 42.24 3.01
95 96 5.841810 GTCATTTGATTGACACCAAAGGAA 58.158 37.500 14.50 2.50 42.24 3.36
96 97 5.452078 GTCATTTGATTGACACCAAAGGA 57.548 39.130 10.82 10.82 44.38 3.36
105 106 7.373493 AGGAAACAAGATGTCATTTGATTGAC 58.627 34.615 12.03 0.00 45.05 3.18
106 107 7.528996 AGGAAACAAGATGTCATTTGATTGA 57.471 32.000 12.03 0.00 0.00 2.57
107 108 9.865321 AATAGGAAACAAGATGTCATTTGATTG 57.135 29.630 12.03 6.95 0.00 2.67
109 110 8.689972 GGAATAGGAAACAAGATGTCATTTGAT 58.310 33.333 12.03 1.75 0.00 2.57
110 111 7.890127 AGGAATAGGAAACAAGATGTCATTTGA 59.110 33.333 12.03 0.00 0.00 2.69
111 112 8.059798 AGGAATAGGAAACAAGATGTCATTTG 57.940 34.615 0.00 0.00 0.00 2.32
112 113 9.178758 GTAGGAATAGGAAACAAGATGTCATTT 57.821 33.333 0.00 0.00 0.00 2.32
113 114 8.552296 AGTAGGAATAGGAAACAAGATGTCATT 58.448 33.333 0.00 0.00 0.00 2.57
114 115 8.095452 AGTAGGAATAGGAAACAAGATGTCAT 57.905 34.615 0.00 0.00 0.00 3.06
115 116 7.496346 AGTAGGAATAGGAAACAAGATGTCA 57.504 36.000 0.00 0.00 0.00 3.58
150 151 8.363390 TGTAGGAAATGAGATGACATGTATCTC 58.637 37.037 24.04 24.04 46.82 2.75
151 152 8.255111 TGTAGGAAATGAGATGACATGTATCT 57.745 34.615 14.05 14.05 37.59 1.98
152 153 8.893219 TTGTAGGAAATGAGATGACATGTATC 57.107 34.615 0.00 2.87 0.00 2.24
153 154 8.708378 TCTTGTAGGAAATGAGATGACATGTAT 58.292 33.333 0.00 0.00 0.00 2.29
154 155 8.078060 TCTTGTAGGAAATGAGATGACATGTA 57.922 34.615 0.00 0.00 0.00 2.29
155 156 6.950842 TCTTGTAGGAAATGAGATGACATGT 58.049 36.000 0.00 0.00 0.00 3.21
156 157 8.447924 AATCTTGTAGGAAATGAGATGACATG 57.552 34.615 0.00 0.00 0.00 3.21
157 158 7.718753 GGAATCTTGTAGGAAATGAGATGACAT 59.281 37.037 0.00 0.00 0.00 3.06
158 159 7.050377 GGAATCTTGTAGGAAATGAGATGACA 58.950 38.462 0.00 0.00 0.00 3.58
159 160 7.278875 AGGAATCTTGTAGGAAATGAGATGAC 58.721 38.462 0.00 0.00 0.00 3.06
160 161 7.443302 AGGAATCTTGTAGGAAATGAGATGA 57.557 36.000 0.00 0.00 0.00 2.92
161 162 9.790344 AATAGGAATCTTGTAGGAAATGAGATG 57.210 33.333 0.00 0.00 0.00 2.90
163 164 8.432805 GGAATAGGAATCTTGTAGGAAATGAGA 58.567 37.037 0.00 0.00 0.00 3.27
164 165 8.435982 AGGAATAGGAATCTTGTAGGAAATGAG 58.564 37.037 0.00 0.00 0.00 2.90
165 166 8.337118 AGGAATAGGAATCTTGTAGGAAATGA 57.663 34.615 0.00 0.00 0.00 2.57
168 169 9.447279 TCATAGGAATAGGAATCTTGTAGGAAA 57.553 33.333 0.00 0.00 0.00 3.13
169 170 9.621239 ATCATAGGAATAGGAATCTTGTAGGAA 57.379 33.333 0.00 0.00 0.00 3.36
196 197 7.503902 GCCTCTTTTGGTTCATAGGATAGAATT 59.496 37.037 0.00 0.00 0.00 2.17
197 198 7.001073 GCCTCTTTTGGTTCATAGGATAGAAT 58.999 38.462 0.00 0.00 0.00 2.40
198 199 6.357367 GCCTCTTTTGGTTCATAGGATAGAA 58.643 40.000 0.00 0.00 0.00 2.10
199 200 5.163195 GGCCTCTTTTGGTTCATAGGATAGA 60.163 44.000 0.00 0.00 0.00 1.98
200 201 5.066593 GGCCTCTTTTGGTTCATAGGATAG 58.933 45.833 0.00 0.00 0.00 2.08
201 202 4.726825 AGGCCTCTTTTGGTTCATAGGATA 59.273 41.667 0.00 0.00 0.00 2.59
202 203 3.529319 AGGCCTCTTTTGGTTCATAGGAT 59.471 43.478 0.00 0.00 0.00 3.24
203 204 2.919602 AGGCCTCTTTTGGTTCATAGGA 59.080 45.455 0.00 0.00 0.00 2.94
204 205 3.372440 AGGCCTCTTTTGGTTCATAGG 57.628 47.619 0.00 0.00 0.00 2.57
205 206 4.336713 GCTAAGGCCTCTTTTGGTTCATAG 59.663 45.833 5.23 0.00 34.59 2.23
206 207 4.270008 GCTAAGGCCTCTTTTGGTTCATA 58.730 43.478 5.23 0.00 34.59 2.15
207 208 3.092301 GCTAAGGCCTCTTTTGGTTCAT 58.908 45.455 5.23 0.00 34.59 2.57
208 209 2.514803 GCTAAGGCCTCTTTTGGTTCA 58.485 47.619 5.23 0.00 34.59 3.18
209 210 1.468914 CGCTAAGGCCTCTTTTGGTTC 59.531 52.381 5.23 0.00 34.59 3.62
210 211 1.202891 ACGCTAAGGCCTCTTTTGGTT 60.203 47.619 5.23 0.00 34.59 3.67
211 212 0.400594 ACGCTAAGGCCTCTTTTGGT 59.599 50.000 5.23 0.00 34.59 3.67
212 213 0.804989 CACGCTAAGGCCTCTTTTGG 59.195 55.000 5.23 0.00 34.59 3.28
213 214 1.523758 ACACGCTAAGGCCTCTTTTG 58.476 50.000 5.23 2.44 34.59 2.44
214 215 1.880027 CAACACGCTAAGGCCTCTTTT 59.120 47.619 5.23 0.00 34.59 2.27
215 216 1.523758 CAACACGCTAAGGCCTCTTT 58.476 50.000 5.23 0.00 34.59 2.52
216 217 0.321653 CCAACACGCTAAGGCCTCTT 60.322 55.000 5.23 0.00 37.03 2.85
217 218 1.296715 CCAACACGCTAAGGCCTCT 59.703 57.895 5.23 0.00 34.44 3.69
218 219 2.399356 GCCAACACGCTAAGGCCTC 61.399 63.158 5.23 0.00 41.25 4.70
219 220 2.359975 GCCAACACGCTAAGGCCT 60.360 61.111 0.00 0.00 41.25 5.19
221 222 3.799755 CGGCCAACACGCTAAGGC 61.800 66.667 2.24 0.00 46.28 4.35
222 223 2.358247 ACGGCCAACACGCTAAGG 60.358 61.111 2.24 0.00 34.00 2.69
223 224 1.225376 TTCACGGCCAACACGCTAAG 61.225 55.000 2.24 0.00 34.00 2.18
299 300 7.750458 CGGCGCATTTAATTAGATGTGATTATT 59.250 33.333 25.62 0.00 36.19 1.40
311 312 3.651206 TCGATACCGGCGCATTTAATTA 58.349 40.909 10.83 0.00 36.24 1.40
331 332 1.804748 CCCTACACGCAAGGTTTTCTC 59.195 52.381 0.00 0.00 46.39 2.87
396 403 2.818274 GACGGGTGGATGCCGTTC 60.818 66.667 0.00 0.00 40.33 3.95
453 460 0.979665 TCCTTGCTTCCAGACTCCAG 59.020 55.000 0.00 0.00 0.00 3.86
454 461 1.349026 CTTCCTTGCTTCCAGACTCCA 59.651 52.381 0.00 0.00 0.00 3.86
455 462 1.625818 TCTTCCTTGCTTCCAGACTCC 59.374 52.381 0.00 0.00 0.00 3.85
456 463 2.614229 GGTCTTCCTTGCTTCCAGACTC 60.614 54.545 0.00 0.00 35.25 3.36
457 464 1.349357 GGTCTTCCTTGCTTCCAGACT 59.651 52.381 0.00 0.00 35.25 3.24
458 465 1.072331 TGGTCTTCCTTGCTTCCAGAC 59.928 52.381 0.00 0.00 34.31 3.51
553 563 2.206750 TCGTTTGTGAAGGGAACGAAG 58.793 47.619 7.94 0.00 41.98 3.79
558 568 3.375922 GTCTGTTTCGTTTGTGAAGGGAA 59.624 43.478 0.00 0.00 0.00 3.97
562 572 2.032924 GGGGTCTGTTTCGTTTGTGAAG 59.967 50.000 0.00 0.00 0.00 3.02
652 664 4.790861 GGGGCGGAACTCGTCGTC 62.791 72.222 0.00 0.00 45.78 4.20
841 853 2.260434 TCGAAAGAAGGTCCGGCG 59.740 61.111 0.00 0.00 37.03 6.46
887 899 1.661112 GCAGGGAAAAACTCGAGATCG 59.339 52.381 21.68 0.00 41.45 3.69
946 958 5.510671 ACCTATCAATAAAAATCGCTTGCG 58.489 37.500 8.87 8.87 0.00 4.85
947 959 7.305418 CGAAACCTATCAATAAAAATCGCTTGC 60.305 37.037 0.00 0.00 0.00 4.01
948 960 7.696453 ACGAAACCTATCAATAAAAATCGCTTG 59.304 33.333 0.00 0.00 0.00 4.01
949 961 7.758495 ACGAAACCTATCAATAAAAATCGCTT 58.242 30.769 0.00 0.00 0.00 4.68
982 994 2.221749 CCATAGCGACGGTCAATCAATG 59.778 50.000 1.23 0.19 0.00 2.82
1144 1156 4.180946 CTCGCCCTCGTCGACCAG 62.181 72.222 10.58 6.59 36.96 4.00
1188 1200 4.976925 CGGGCATAGCAGCGGAGG 62.977 72.222 0.00 0.00 34.64 4.30
1306 1318 9.699703 CTAGCCAAGAACTAGAGTAAATTATCC 57.300 37.037 0.00 0.00 39.64 2.59
1351 1363 0.169009 GAGGGCTGCAATGAACGAAC 59.831 55.000 0.50 0.00 0.00 3.95
1367 1379 1.045350 TCCTCTCATCGGCCTTGAGG 61.045 60.000 24.42 19.98 44.00 3.86
1459 1471 0.896923 ATTAACCGTCGTAGCCACCA 59.103 50.000 0.00 0.00 0.00 4.17
1469 1481 2.640184 CCTGGGGAAGAATTAACCGTC 58.360 52.381 0.00 0.00 0.00 4.79
1575 1587 6.851609 TGAATCAAGCGCACTTATTGTATTT 58.148 32.000 11.47 1.35 33.74 1.40
1579 1591 3.426695 GCTGAATCAAGCGCACTTATTGT 60.427 43.478 11.47 0.00 33.74 2.71
1580 1592 3.103738 GCTGAATCAAGCGCACTTATTG 58.896 45.455 11.47 4.87 33.74 1.90
1668 1680 4.527509 TGAAACAGCAACTGAACCAAAA 57.472 36.364 0.78 0.00 35.18 2.44
1786 1798 3.569277 ACACAAACACAGCATAAGCATCA 59.431 39.130 0.00 0.00 45.49 3.07
1845 1890 2.431782 AGTGCAGCCAAAACAACTCATT 59.568 40.909 0.00 0.00 0.00 2.57
1846 1891 2.034124 AGTGCAGCCAAAACAACTCAT 58.966 42.857 0.00 0.00 0.00 2.90
1847 1892 1.473258 AGTGCAGCCAAAACAACTCA 58.527 45.000 0.00 0.00 0.00 3.41
1848 1893 2.099756 AGAAGTGCAGCCAAAACAACTC 59.900 45.455 0.00 0.00 0.00 3.01
1849 1894 2.102578 AGAAGTGCAGCCAAAACAACT 58.897 42.857 0.00 0.00 0.00 3.16
1850 1895 2.584492 AGAAGTGCAGCCAAAACAAC 57.416 45.000 0.00 0.00 0.00 3.32
1851 1896 6.212955 GTTTATAGAAGTGCAGCCAAAACAA 58.787 36.000 0.00 0.00 0.00 2.83
1852 1897 5.278758 GGTTTATAGAAGTGCAGCCAAAACA 60.279 40.000 0.00 0.00 0.00 2.83
1853 1898 5.161358 GGTTTATAGAAGTGCAGCCAAAAC 58.839 41.667 0.00 0.00 0.00 2.43
1854 1899 4.830046 TGGTTTATAGAAGTGCAGCCAAAA 59.170 37.500 0.00 0.00 0.00 2.44
1855 1900 4.402829 TGGTTTATAGAAGTGCAGCCAAA 58.597 39.130 0.00 0.00 0.00 3.28
1856 1901 4.027674 TGGTTTATAGAAGTGCAGCCAA 57.972 40.909 0.00 0.00 0.00 4.52
1857 1902 3.712016 TGGTTTATAGAAGTGCAGCCA 57.288 42.857 0.00 0.00 0.00 4.75
1858 1903 4.010349 ACTTGGTTTATAGAAGTGCAGCC 58.990 43.478 0.00 0.00 0.00 4.85
1859 1904 4.142600 CCACTTGGTTTATAGAAGTGCAGC 60.143 45.833 0.00 0.00 43.45 5.25
1860 1905 5.551760 CCACTTGGTTTATAGAAGTGCAG 57.448 43.478 0.00 0.00 43.45 4.41
1893 1938 5.733620 AGCACTGGATCATCACAATTTTT 57.266 34.783 0.00 0.00 0.00 1.94
1894 1939 6.839124 TTAGCACTGGATCATCACAATTTT 57.161 33.333 0.00 0.00 0.00 1.82
1895 1940 8.523915 TTATTAGCACTGGATCATCACAATTT 57.476 30.769 0.00 0.00 0.00 1.82
1896 1941 8.701908 ATTATTAGCACTGGATCATCACAATT 57.298 30.769 0.00 0.00 0.00 2.32
1897 1942 9.970553 ATATTATTAGCACTGGATCATCACAAT 57.029 29.630 0.00 0.00 0.00 2.71
1962 2018 9.295214 CATGTAATAAGTACTGAGTTCTCACAG 57.705 37.037 0.00 0.00 38.05 3.66
1968 2024 6.018669 GGCAGCATGTAATAAGTACTGAGTTC 60.019 42.308 0.00 0.00 39.31 3.01
1971 2027 5.359756 TGGCAGCATGTAATAAGTACTGAG 58.640 41.667 0.00 0.00 39.31 3.35
2008 2125 5.221322 GGCATTCTACCCAAAGGAATGATTC 60.221 44.000 15.97 0.00 45.09 2.52
2020 2137 3.073378 TGCGTGGCATTCTACCCA 58.927 55.556 0.00 0.00 31.71 4.51
2044 2161 6.543465 TGTTGTTGATTTGAGAACTGATGAGT 59.457 34.615 0.00 0.00 0.00 3.41
2045 2162 6.962686 TGTTGTTGATTTGAGAACTGATGAG 58.037 36.000 0.00 0.00 0.00 2.90
2049 2166 5.125257 TGCTTGTTGTTGATTTGAGAACTGA 59.875 36.000 0.00 0.00 0.00 3.41
2050 2167 5.342433 TGCTTGTTGTTGATTTGAGAACTG 58.658 37.500 0.00 0.00 0.00 3.16
2064 2282 4.652421 TTCACATGTCATTGCTTGTTGT 57.348 36.364 0.00 0.00 0.00 3.32
2068 2286 5.119588 GTGGAAATTCACATGTCATTGCTTG 59.880 40.000 0.00 0.00 37.57 4.01
2092 2310 3.255395 TGTATGCCAAACATTGAGGTGTG 59.745 43.478 0.00 0.00 40.38 3.82
2138 2356 7.101700 GTCATGCTCATATCAATCTACATGGA 58.898 38.462 0.00 0.00 35.51 3.41
2139 2357 6.877322 TGTCATGCTCATATCAATCTACATGG 59.123 38.462 0.00 0.00 35.51 3.66
2143 2361 7.605309 TGGAATGTCATGCTCATATCAATCTAC 59.395 37.037 4.20 0.00 0.00 2.59
2150 2368 5.410746 ACGATTGGAATGTCATGCTCATATC 59.589 40.000 0.00 3.71 0.00 1.63
2151 2369 5.311265 ACGATTGGAATGTCATGCTCATAT 58.689 37.500 0.00 0.00 0.00 1.78
2152 2370 4.707105 ACGATTGGAATGTCATGCTCATA 58.293 39.130 0.00 0.00 0.00 2.15
2155 2373 4.512944 ACATACGATTGGAATGTCATGCTC 59.487 41.667 0.00 0.00 0.00 4.26
2156 2374 4.454678 ACATACGATTGGAATGTCATGCT 58.545 39.130 0.00 0.00 0.00 3.79
2157 2375 4.818534 ACATACGATTGGAATGTCATGC 57.181 40.909 0.00 0.00 0.00 4.06
2183 2489 9.807921 AACAGGATTCTAAAAACAGAGGAATAA 57.192 29.630 0.00 0.00 0.00 1.40
2184 2490 9.231297 CAACAGGATTCTAAAAACAGAGGAATA 57.769 33.333 0.00 0.00 0.00 1.75
2185 2491 7.944554 TCAACAGGATTCTAAAAACAGAGGAAT 59.055 33.333 0.00 0.00 0.00 3.01
2186 2492 7.287061 TCAACAGGATTCTAAAAACAGAGGAA 58.713 34.615 0.00 0.00 0.00 3.36
2191 2497 8.405531 TGTTCTTCAACAGGATTCTAAAAACAG 58.594 33.333 0.00 0.00 37.61 3.16
2222 2544 8.658609 CAACACATGATTTCACAGTTTCTTTTT 58.341 29.630 0.00 0.00 0.00 1.94
2227 2549 5.051508 GCACAACACATGATTTCACAGTTTC 60.052 40.000 0.00 0.00 0.00 2.78
2230 2552 3.548616 CGCACAACACATGATTTCACAGT 60.549 43.478 0.00 0.00 0.00 3.55
2232 2554 2.357323 ACGCACAACACATGATTTCACA 59.643 40.909 0.00 0.00 0.00 3.58
2233 2555 2.998772 ACGCACAACACATGATTTCAC 58.001 42.857 0.00 0.00 0.00 3.18
2234 2556 3.706802 AACGCACAACACATGATTTCA 57.293 38.095 0.00 0.00 0.00 2.69
2235 2557 5.116983 CCTTTAACGCACAACACATGATTTC 59.883 40.000 0.00 0.00 0.00 2.17
2236 2558 4.981674 CCTTTAACGCACAACACATGATTT 59.018 37.500 0.00 0.00 0.00 2.17
2257 2623 1.150536 TTTTCTGAAGCCACGGCCT 59.849 52.632 3.95 0.00 43.17 5.19
2260 2626 2.714259 TGGTTTTCTGAAGCCACGG 58.286 52.632 10.43 0.00 40.68 4.94
2280 2692 5.119898 GCGATCCATGTCACTATCAGAATTC 59.880 44.000 0.00 0.00 0.00 2.17
2286 2698 2.036346 CTGGCGATCCATGTCACTATCA 59.964 50.000 0.00 0.00 42.51 2.15
2353 2819 2.833794 ACAGCTACACGTTGTTGTCAT 58.166 42.857 0.00 0.00 32.76 3.06
2425 2891 9.625747 TGACAGCCACATTTATGATCTAAAATA 57.374 29.630 0.00 0.00 0.00 1.40
2426 2892 8.523915 TGACAGCCACATTTATGATCTAAAAT 57.476 30.769 0.00 0.00 0.00 1.82
2427 2893 7.936496 TGACAGCCACATTTATGATCTAAAA 57.064 32.000 0.00 0.00 0.00 1.52
2428 2894 7.994911 AGATGACAGCCACATTTATGATCTAAA 59.005 33.333 0.00 0.00 0.00 1.85
2429 2895 7.443272 CAGATGACAGCCACATTTATGATCTAA 59.557 37.037 0.00 0.00 0.00 2.10
2430 2896 6.932960 CAGATGACAGCCACATTTATGATCTA 59.067 38.462 0.00 0.00 0.00 1.98
2431 2897 5.763698 CAGATGACAGCCACATTTATGATCT 59.236 40.000 0.00 0.00 0.00 2.75
2432 2898 5.530171 ACAGATGACAGCCACATTTATGATC 59.470 40.000 0.00 0.00 0.00 2.92
2433 2899 5.443283 ACAGATGACAGCCACATTTATGAT 58.557 37.500 0.00 0.00 0.00 2.45
2434 2900 4.847198 ACAGATGACAGCCACATTTATGA 58.153 39.130 0.00 0.00 0.00 2.15
2435 2901 6.682423 TTACAGATGACAGCCACATTTATG 57.318 37.500 0.00 0.00 0.00 1.90
2436 2902 7.173907 GCTATTACAGATGACAGCCACATTTAT 59.826 37.037 0.00 0.00 0.00 1.40
2437 2903 6.483307 GCTATTACAGATGACAGCCACATTTA 59.517 38.462 0.00 0.00 0.00 1.40
2438 2904 5.297776 GCTATTACAGATGACAGCCACATTT 59.702 40.000 0.00 0.00 0.00 2.32
2439 2905 4.818546 GCTATTACAGATGACAGCCACATT 59.181 41.667 0.00 0.00 0.00 2.71
2440 2906 4.384056 GCTATTACAGATGACAGCCACAT 58.616 43.478 0.00 0.00 0.00 3.21
2463 2929 1.724654 GCCGTTTATATGCATTCGCCG 60.725 52.381 3.54 1.43 37.32 6.46
2483 2949 4.864247 GCATGCCATAAACAAGGTGTTAAG 59.136 41.667 6.36 0.00 40.14 1.85


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

AutoCloner maintained by Alex Coulton.