Multiple sequence alignment - TraesCS5B01G292100

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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 TraesCS5B01G292100 chr5B 100.000 2834 0 0 950 3783 477611756 477608923 0.000000e+00 5234.0
1 TraesCS5B01G292100 chr5B 100.000 449 0 0 1 449 477612705 477612257 0.000000e+00 830.0
2 TraesCS5B01G292100 chr5A 90.944 1833 91 30 956 2740 502788131 502786326 0.000000e+00 2396.0
3 TraesCS5B01G292100 chr5A 94.676 432 15 4 2830 3256 502786288 502785860 0.000000e+00 664.0
4 TraesCS5B01G292100 chr5A 86.093 453 38 15 1 449 502788624 502788193 7.400000e-127 464.0
5 TraesCS5B01G292100 chr5A 90.572 297 23 3 3450 3743 502785071 502784777 4.580000e-104 388.0
6 TraesCS5B01G292100 chr5A 100.000 38 0 0 3746 3783 502784499 502784462 1.890000e-08 71.3
7 TraesCS5B01G292100 chr5D 94.278 1468 42 13 956 2402 397426593 397425147 0.000000e+00 2207.0
8 TraesCS5B01G292100 chr5D 96.166 913 19 7 2378 3275 397425131 397424220 0.000000e+00 1478.0
9 TraesCS5B01G292100 chr5D 89.181 342 26 7 3450 3783 397423707 397423369 2.100000e-112 416.0
10 TraesCS5B01G292100 chr5D 88.854 323 21 9 128 448 397426938 397426629 2.130000e-102 383.0
11 TraesCS5B01G292100 chr5D 92.045 88 7 0 1 88 397427035 397426948 1.430000e-24 124.0
12 TraesCS5B01G292100 chr6D 78.484 409 49 26 3278 3663 454493566 454493958 8.170000e-57 231.0
13 TraesCS5B01G292100 chr7D 76.534 277 39 21 1660 1927 245484799 245484540 1.100000e-25 128.0
14 TraesCS5B01G292100 chr7D 90.805 87 7 1 1480 1566 245484949 245484864 8.590000e-22 115.0
15 TraesCS5B01G292100 chr7B 76.491 285 37 23 1660 1933 221914528 221914263 1.100000e-25 128.0
16 TraesCS5B01G292100 chr7B 90.361 83 8 0 1480 1562 221914680 221914598 4.000000e-20 110.0
17 TraesCS5B01G292100 chr7B 84.536 97 12 2 2007 2103 221914131 221914038 4.020000e-15 93.5
18 TraesCS5B01G292100 chr7B 80.435 92 15 2 3449 3537 740531024 740531115 2.440000e-07 67.6
19 TraesCS5B01G292100 chr7B 94.286 35 1 1 3458 3492 531895049 531895082 7.000000e-03 52.8
20 TraesCS5B01G292100 chr7A 76.259 278 38 20 1660 1927 261880431 261880172 5.130000e-24 122.0
21 TraesCS5B01G292100 chr7A 91.566 83 7 0 1480 1562 261880583 261880501 8.590000e-22 115.0
22 TraesCS5B01G292100 chr7A 80.342 117 18 5 3449 3564 376627735 376627847 2.420000e-12 84.2
23 TraesCS5B01G292100 chr3D 84.000 75 9 3 3460 3532 12162951 12163024 6.780000e-08 69.4
24 TraesCS5B01G292100 chr3B 82.667 75 10 3 3460 3532 17401071 17401144 3.150000e-06 63.9


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 TraesCS5B01G292100 chr5B 477608923 477612705 3782 True 3032.00 5234 100.0000 1 3783 2 chr5B.!!$R1 3782
1 TraesCS5B01G292100 chr5A 502784462 502788624 4162 True 796.66 2396 92.4570 1 3783 5 chr5A.!!$R1 3782
2 TraesCS5B01G292100 chr5D 397423369 397427035 3666 True 921.60 2207 92.1048 1 3783 5 chr5D.!!$R1 3782

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
276 281 0.178964 ACAATCCCACACCCCACAAG 60.179 55.0 0.0 0.0 0.0 3.16 F
279 284 0.856982 ATCCCACACCCCACAAGAAA 59.143 50.0 0.0 0.0 0.0 2.52 F
1285 1304 0.110486 TGAAGCCCAAGGAAGACACC 59.890 55.0 0.0 0.0 0.0 4.16 F
1469 1498 0.319405 CAAAAAGCAGGGCAAGGAGG 59.681 55.0 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1266 1285 0.110486 GGTGTCTTCCTTGGGCTTCA 59.890 55.000 0.00 0.00 0.0 3.02 R
1804 1836 2.025699 TCCAAAGTTAGTACCCCATGCC 60.026 50.000 0.00 0.00 0.0 4.40 R
2442 2537 0.378257 CACGGCAGGCATGTACATTC 59.622 55.000 5.37 0.28 0.0 2.67 R
3400 3823 1.134907 TGGAACCGGTCGAAGCTATTC 60.135 52.381 8.04 0.00 0.0 1.75 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
27 28 7.944729 AGATTTAAAGGCAGATGCTTTTCTA 57.055 32.000 16.87 8.13 45.36 2.10
49 52 8.856153 TCTATGAGACAAGAGGATATCAGTAC 57.144 38.462 4.83 0.00 0.00 2.73
55 58 7.950512 AGACAAGAGGATATCAGTACTCAATG 58.049 38.462 4.83 7.70 32.52 2.82
85 88 6.961576 AGCTAATGCACGTACTTAAACAAAA 58.038 32.000 0.00 0.00 42.74 2.44
142 145 4.372656 AGCGTTTAGATGGAGTAATCTGC 58.627 43.478 0.00 0.00 37.48 4.26
143 146 3.495001 GCGTTTAGATGGAGTAATCTGCC 59.505 47.826 0.00 0.00 37.48 4.85
224 227 3.007831 AGCTTGGGAGACAGAAAAGAGAG 59.992 47.826 0.00 0.00 0.00 3.20
226 229 4.323409 GCTTGGGAGACAGAAAAGAGAGAT 60.323 45.833 0.00 0.00 0.00 2.75
246 249 4.873010 GATGGGCTCCTACCTATCAGATA 58.127 47.826 2.40 0.00 44.76 1.98
258 261 5.506708 ACCTATCAGATAAAAACACCCCAC 58.493 41.667 0.00 0.00 0.00 4.61
259 262 5.014755 ACCTATCAGATAAAAACACCCCACA 59.985 40.000 0.00 0.00 0.00 4.17
260 263 5.949354 CCTATCAGATAAAAACACCCCACAA 59.051 40.000 0.00 0.00 0.00 3.33
265 270 2.182516 AAAAACACCCCACAATCCCA 57.817 45.000 0.00 0.00 0.00 4.37
276 281 0.178964 ACAATCCCACACCCCACAAG 60.179 55.000 0.00 0.00 0.00 3.16
279 284 0.856982 ATCCCACACCCCACAAGAAA 59.143 50.000 0.00 0.00 0.00 2.52
284 289 2.315176 CACACCCCACAAGAAATTCCA 58.685 47.619 0.00 0.00 0.00 3.53
287 292 4.526262 CACACCCCACAAGAAATTCCAATA 59.474 41.667 0.00 0.00 0.00 1.90
290 295 5.931724 CACCCCACAAGAAATTCCAATAAAC 59.068 40.000 0.00 0.00 0.00 2.01
291 296 5.843969 ACCCCACAAGAAATTCCAATAAACT 59.156 36.000 0.00 0.00 0.00 2.66
294 299 8.371699 CCCCACAAGAAATTCCAATAAACTAAA 58.628 33.333 0.00 0.00 0.00 1.85
295 300 9.771534 CCCACAAGAAATTCCAATAAACTAAAA 57.228 29.630 0.00 0.00 0.00 1.52
303 308 9.435688 AAATTCCAATAAACTAAAATCACCAGC 57.564 29.630 0.00 0.00 0.00 4.85
304 309 7.775053 TTCCAATAAACTAAAATCACCAGCT 57.225 32.000 0.00 0.00 0.00 4.24
305 310 8.871629 TTCCAATAAACTAAAATCACCAGCTA 57.128 30.769 0.00 0.00 0.00 3.32
306 311 8.276252 TCCAATAAACTAAAATCACCAGCTAC 57.724 34.615 0.00 0.00 0.00 3.58
307 312 7.065324 TCCAATAAACTAAAATCACCAGCTACG 59.935 37.037 0.00 0.00 0.00 3.51
308 313 4.680171 AAACTAAAATCACCAGCTACGC 57.320 40.909 0.00 0.00 0.00 4.42
312 317 1.442769 AAATCACCAGCTACGCACTG 58.557 50.000 0.00 0.00 34.82 3.66
346 351 7.075148 TGGGCATCTCCTCCATTATTAATTTT 58.925 34.615 0.00 0.00 34.39 1.82
347 352 7.568366 TGGGCATCTCCTCCATTATTAATTTTT 59.432 33.333 0.00 0.00 34.39 1.94
440 445 4.639310 AGATGCAGTGATGATTTGGTCTTC 59.361 41.667 0.00 0.00 0.00 2.87
1246 1265 1.302832 CACTCCTCTTGTGGCCACC 60.303 63.158 32.62 15.42 0.00 4.61
1285 1304 0.110486 TGAAGCCCAAGGAAGACACC 59.890 55.000 0.00 0.00 0.00 4.16
1303 1322 2.033141 GCCAGCCTCAACTCTGCA 59.967 61.111 0.00 0.00 0.00 4.41
1398 1427 8.190784 GCTGTTGCTTATGGATAGTATTGTTTT 58.809 33.333 0.00 0.00 36.03 2.43
1401 1430 9.301153 GTTGCTTATGGATAGTATTGTTTTTGG 57.699 33.333 0.00 0.00 0.00 3.28
1469 1498 0.319405 CAAAAAGCAGGGCAAGGAGG 59.681 55.000 0.00 0.00 0.00 4.30
1483 1512 0.719015 AGGAGGTGGATGAGGAGGAA 59.281 55.000 0.00 0.00 0.00 3.36
1516 1545 0.532862 GGTACATCCATGTGAGGGCG 60.533 60.000 2.26 0.00 41.89 6.13
1628 1660 1.134128 AGCTTTTGTTTTTGGGGCCTG 60.134 47.619 0.84 0.00 0.00 4.85
1758 1790 8.380099 TGACAAGGTTATAAGTTAGTTGACCAT 58.620 33.333 8.55 0.00 0.00 3.55
1800 1832 6.531240 CACTGCACTTGAAATAACTTGTTGTT 59.469 34.615 0.00 0.00 42.31 2.83
1801 1833 6.751888 ACTGCACTTGAAATAACTTGTTGTTC 59.248 34.615 0.00 1.54 39.89 3.18
1802 1834 6.625362 TGCACTTGAAATAACTTGTTGTTCA 58.375 32.000 9.08 9.08 39.89 3.18
1803 1835 7.264221 TGCACTTGAAATAACTTGTTGTTCAT 58.736 30.769 12.12 1.40 39.89 2.57
1804 1836 7.222417 TGCACTTGAAATAACTTGTTGTTCATG 59.778 33.333 16.60 16.60 39.89 3.07
2120 2170 8.579006 ACAAGTATGCATGGGTTAATCAATATG 58.421 33.333 10.16 0.00 0.00 1.78
2121 2171 7.161773 AGTATGCATGGGTTAATCAATATGC 57.838 36.000 10.16 12.33 40.81 3.14
2123 2173 5.866159 TGCATGGGTTAATCAATATGCAA 57.134 34.783 17.05 6.19 45.28 4.08
2128 2178 5.199723 TGGGTTAATCAATATGCAAGCTCA 58.800 37.500 0.00 0.00 0.00 4.26
2131 2181 7.147689 TGGGTTAATCAATATGCAAGCTCAAAT 60.148 33.333 0.00 0.00 0.00 2.32
2133 2189 9.748708 GGTTAATCAATATGCAAGCTCAAATAA 57.251 29.630 0.00 0.00 0.00 1.40
2244 2300 3.952323 AGATTGAAGGCATGTTCCATGAG 59.048 43.478 8.34 0.00 0.00 2.90
2442 2537 2.102925 ACCCAATTCCAAAGCACTGTTG 59.897 45.455 0.00 0.00 0.00 3.33
2681 2777 8.951787 TGCACTTAAGTTTCAGTAAAAGTAGA 57.048 30.769 5.07 0.00 30.11 2.59
2821 2918 8.592809 ACCCAGATGATTAGTTCTAATCTGATC 58.407 37.037 23.93 19.98 44.53 2.92
3198 3304 6.378280 AGACAATTGACTCTTGGACAAAAACT 59.622 34.615 13.59 0.00 0.00 2.66
3201 3307 5.975693 TTGACTCTTGGACAAAAACTGTT 57.024 34.783 0.00 0.00 38.84 3.16
3232 3338 9.856488 TTAATCTCACTTCTGAACATACAGTAC 57.144 33.333 0.00 0.00 38.79 2.73
3233 3339 7.710676 ATCTCACTTCTGAACATACAGTACT 57.289 36.000 0.00 0.00 38.79 2.73
3234 3340 6.914259 TCTCACTTCTGAACATACAGTACTG 58.086 40.000 21.44 21.44 38.79 2.74
3236 3342 7.014326 TCTCACTTCTGAACATACAGTACTGTT 59.986 37.037 32.15 15.56 41.83 3.16
3237 3343 7.497595 TCACTTCTGAACATACAGTACTGTTT 58.502 34.615 32.15 22.24 41.83 2.83
3238 3344 7.652105 TCACTTCTGAACATACAGTACTGTTTC 59.348 37.037 32.15 26.94 41.83 2.78
3239 3345 7.438160 CACTTCTGAACATACAGTACTGTTTCA 59.562 37.037 32.15 29.43 41.83 2.69
3252 3620 9.726438 ACAGTACTGTTTCAGCTCTAATATTTT 57.274 29.630 22.95 0.00 41.83 1.82
3255 3623 9.974750 GTACTGTTTCAGCTCTAATATTTTCAC 57.025 33.333 0.00 0.00 34.37 3.18
3279 3700 5.480205 GCACCTAGCTACTTGTAAAACTCT 58.520 41.667 0.00 0.00 41.15 3.24
3300 3721 1.614711 TCCCAATGGACCTGGATGC 59.385 57.895 0.00 0.00 35.03 3.91
3351 3773 5.637387 GTGAAAAACTCCTGCAACTTTTTGA 59.363 36.000 7.42 0.00 34.24 2.69
3361 3783 6.313411 TCCTGCAACTTTTTGAAATCAAACAG 59.687 34.615 16.52 16.52 44.56 3.16
3362 3784 6.419980 TGCAACTTTTTGAAATCAAACAGG 57.580 33.333 20.24 11.31 43.92 4.00
3367 3789 6.524734 ACTTTTTGAAATCAAACAGGGATCC 58.475 36.000 20.24 1.92 43.92 3.36
3375 3797 5.640158 ATCAAACAGGGATCCGGTATTAA 57.360 39.130 5.45 0.00 30.50 1.40
3396 3819 2.639065 ACTCGTGGAAAAAGTTCTGCA 58.361 42.857 0.00 0.00 33.92 4.41
3398 3821 3.442273 ACTCGTGGAAAAAGTTCTGCAAA 59.558 39.130 0.00 0.00 33.92 3.68
3400 3823 3.115554 CGTGGAAAAAGTTCTGCAAAGG 58.884 45.455 0.00 0.00 33.92 3.11
3416 3839 1.192428 AAGGAATAGCTTCGACCGGT 58.808 50.000 6.92 6.92 31.75 5.28
3647 4373 0.394352 GGTGCATTGGAACCCGAGAT 60.394 55.000 0.00 0.00 36.63 2.75
3650 4376 1.160329 GCATTGGAACCCGAGATCCG 61.160 60.000 0.00 0.00 38.63 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 7.293828 TGAGTACTGATATCCTCTTGTCTCAT 58.706 38.462 0.00 0.00 0.00 2.90
49 52 3.018856 TGCATTAGCTTGGTCCATTGAG 58.981 45.455 0.00 0.00 42.74 3.02
55 58 1.664151 GTACGTGCATTAGCTTGGTCC 59.336 52.381 0.00 0.00 42.74 4.46
115 118 9.130312 CAGATTACTCCATCTAAACGCTAATAC 57.870 37.037 0.00 0.00 31.86 1.89
116 119 7.813148 GCAGATTACTCCATCTAAACGCTAATA 59.187 37.037 0.00 0.00 31.86 0.98
118 121 5.983720 GCAGATTACTCCATCTAAACGCTAA 59.016 40.000 0.00 0.00 31.86 3.09
119 122 5.509163 GGCAGATTACTCCATCTAAACGCTA 60.509 44.000 0.00 0.00 31.86 4.26
120 123 4.372656 GCAGATTACTCCATCTAAACGCT 58.627 43.478 0.00 0.00 31.86 5.07
121 124 3.495001 GGCAGATTACTCCATCTAAACGC 59.505 47.826 0.00 0.00 31.86 4.84
122 125 3.736252 CGGCAGATTACTCCATCTAAACG 59.264 47.826 0.00 0.00 31.86 3.60
123 126 4.058817 CCGGCAGATTACTCCATCTAAAC 58.941 47.826 0.00 0.00 31.86 2.01
126 129 2.158370 TCCCGGCAGATTACTCCATCTA 60.158 50.000 0.00 0.00 31.86 1.98
130 133 1.281419 TTTCCCGGCAGATTACTCCA 58.719 50.000 0.00 0.00 0.00 3.86
139 142 1.737793 GACTACACATTTTCCCGGCAG 59.262 52.381 0.00 0.00 0.00 4.85
142 145 3.053831 ACAGACTACACATTTTCCCGG 57.946 47.619 0.00 0.00 0.00 5.73
143 146 3.617263 GCTACAGACTACACATTTTCCCG 59.383 47.826 0.00 0.00 0.00 5.14
199 202 2.550830 TTTCTGTCTCCCAAGCTGAC 57.449 50.000 0.00 0.00 0.00 3.51
224 227 3.176924 TCTGATAGGTAGGAGCCCATC 57.823 52.381 0.00 0.00 0.00 3.51
226 229 4.759793 TTATCTGATAGGTAGGAGCCCA 57.240 45.455 0.00 0.00 0.00 5.36
246 249 1.765904 GTGGGATTGTGGGGTGTTTTT 59.234 47.619 0.00 0.00 0.00 1.94
258 261 0.112218 TCTTGTGGGGTGTGGGATTG 59.888 55.000 0.00 0.00 0.00 2.67
259 262 0.856982 TTCTTGTGGGGTGTGGGATT 59.143 50.000 0.00 0.00 0.00 3.01
260 263 0.856982 TTTCTTGTGGGGTGTGGGAT 59.143 50.000 0.00 0.00 0.00 3.85
265 270 2.765689 TGGAATTTCTTGTGGGGTGT 57.234 45.000 0.00 0.00 0.00 4.16
279 284 8.366359 AGCTGGTGATTTTAGTTTATTGGAAT 57.634 30.769 0.00 0.00 0.00 3.01
303 308 4.115516 GCCCATCATATATCAGTGCGTAG 58.884 47.826 0.00 0.00 0.00 3.51
304 309 3.513515 TGCCCATCATATATCAGTGCGTA 59.486 43.478 0.00 0.00 0.00 4.42
305 310 2.302733 TGCCCATCATATATCAGTGCGT 59.697 45.455 0.00 0.00 0.00 5.24
306 311 2.976589 TGCCCATCATATATCAGTGCG 58.023 47.619 0.00 0.00 0.00 5.34
307 312 4.778579 AGATGCCCATCATATATCAGTGC 58.221 43.478 10.58 0.00 40.22 4.40
308 313 5.130643 AGGAGATGCCCATCATATATCAGTG 59.869 44.000 10.58 0.00 40.22 3.66
312 317 4.657504 TGGAGGAGATGCCCATCATATATC 59.342 45.833 10.58 0.00 40.22 1.63
346 351 5.491070 CCATGTCTCTTGTTGTAGGATGAA 58.509 41.667 0.00 0.00 0.00 2.57
347 352 4.080919 CCCATGTCTCTTGTTGTAGGATGA 60.081 45.833 0.00 0.00 0.00 2.92
954 959 5.673130 TTATATAAAAGTTGGGGAGGGGG 57.327 43.478 0.00 0.00 0.00 5.40
1180 1187 2.124983 GCGGCTGCATCTTCAGGA 60.125 61.111 14.08 0.00 42.15 3.86
1266 1285 0.110486 GGTGTCTTCCTTGGGCTTCA 59.890 55.000 0.00 0.00 0.00 3.02
1285 1304 3.123620 GCAGAGTTGAGGCTGGCG 61.124 66.667 0.00 0.00 32.83 5.69
1398 1427 8.432805 TGGTTTCCTAAATTATTTTTCAGCCAA 58.567 29.630 0.00 0.00 0.00 4.52
1401 1430 8.935844 CCTTGGTTTCCTAAATTATTTTTCAGC 58.064 33.333 0.00 0.00 0.00 4.26
1469 1498 2.166907 TCCTCTTCCTCCTCATCCAC 57.833 55.000 0.00 0.00 0.00 4.02
1516 1545 2.270527 GTTGCCTGCCCTCTCCTC 59.729 66.667 0.00 0.00 0.00 3.71
1611 1643 3.441500 AAACAGGCCCCAAAAACAAAA 57.558 38.095 0.00 0.00 0.00 2.44
1614 1646 2.040412 ACAAAAACAGGCCCCAAAAACA 59.960 40.909 0.00 0.00 0.00 2.83
1628 1660 5.572896 GCCACAGCATATGAGTAACAAAAAC 59.427 40.000 6.97 0.00 39.53 2.43
1758 1790 5.880332 GTGCAGTGGTGATTCTAATTAGGAA 59.120 40.000 12.54 6.29 0.00 3.36
1800 1832 2.487775 AGTTAGTACCCCATGCCATGA 58.512 47.619 6.18 0.00 0.00 3.07
1801 1833 3.297134 AAGTTAGTACCCCATGCCATG 57.703 47.619 0.00 0.00 0.00 3.66
1802 1834 3.627237 CCAAAGTTAGTACCCCATGCCAT 60.627 47.826 0.00 0.00 0.00 4.40
1803 1835 2.291282 CCAAAGTTAGTACCCCATGCCA 60.291 50.000 0.00 0.00 0.00 4.92
1804 1836 2.025699 TCCAAAGTTAGTACCCCATGCC 60.026 50.000 0.00 0.00 0.00 4.40
2101 2151 5.739647 GCTTGCATATTGATTAACCCATGCA 60.740 40.000 10.22 10.22 44.98 3.96
2102 2152 4.687483 GCTTGCATATTGATTAACCCATGC 59.313 41.667 0.00 0.00 39.32 4.06
2103 2153 6.092955 AGCTTGCATATTGATTAACCCATG 57.907 37.500 0.00 0.00 0.00 3.66
2442 2537 0.378257 CACGGCAGGCATGTACATTC 59.622 55.000 5.37 0.28 0.00 2.67
2492 2588 4.641645 TGCTGCCGTTGTCCTGGG 62.642 66.667 0.00 0.00 0.00 4.45
2681 2777 8.635765 ATTTTAGTTTCACAGTGGTATGATGT 57.364 30.769 0.00 0.00 0.00 3.06
2786 2883 9.981460 AGAACTAATCATCTGGGTAAAAAGATT 57.019 29.630 0.00 0.00 30.62 2.40
2821 2918 6.746822 CGCAAAGAGAGAGAGCATATATACAG 59.253 42.308 0.00 0.00 0.00 2.74
2968 3074 6.540914 GCTAGTACTTCACTGATCTCTACTGT 59.459 42.308 0.00 0.00 38.24 3.55
3198 3304 7.768582 TGTTCAGAAGTGAGATTAACTGAAACA 59.231 33.333 0.00 0.00 42.89 2.83
3201 3307 9.424319 GTATGTTCAGAAGTGAGATTAACTGAA 57.576 33.333 0.00 0.00 40.44 3.02
3208 3314 8.031864 CAGTACTGTATGTTCAGAAGTGAGATT 58.968 37.037 15.06 0.00 38.63 2.40
3232 3338 6.684555 GCGTGAAAATATTAGAGCTGAAACAG 59.315 38.462 0.00 0.00 34.12 3.16
3233 3339 6.148645 TGCGTGAAAATATTAGAGCTGAAACA 59.851 34.615 0.00 0.00 0.00 2.83
3234 3340 6.466097 GTGCGTGAAAATATTAGAGCTGAAAC 59.534 38.462 0.00 0.00 0.00 2.78
3236 3342 5.064707 GGTGCGTGAAAATATTAGAGCTGAA 59.935 40.000 0.00 0.00 0.00 3.02
3237 3343 4.570772 GGTGCGTGAAAATATTAGAGCTGA 59.429 41.667 0.00 0.00 0.00 4.26
3238 3344 4.572389 AGGTGCGTGAAAATATTAGAGCTG 59.428 41.667 0.00 0.00 0.00 4.24
3239 3345 4.770795 AGGTGCGTGAAAATATTAGAGCT 58.229 39.130 0.00 0.00 0.00 4.09
3329 3751 6.720012 TTCAAAAAGTTGCAGGAGTTTTTC 57.280 33.333 11.89 0.00 39.10 2.29
3335 3757 6.313411 TGTTTGATTTCAAAAAGTTGCAGGAG 59.687 34.615 7.28 0.00 46.08 3.69
3345 3767 5.510520 CCGGATCCCTGTTTGATTTCAAAAA 60.511 40.000 6.06 1.81 46.08 1.94
3351 3773 2.899303 ACCGGATCCCTGTTTGATTT 57.101 45.000 9.46 0.00 0.00 2.17
3361 3783 3.387397 CACGAGTTTAATACCGGATCCC 58.613 50.000 9.46 0.00 0.00 3.85
3362 3784 3.068590 TCCACGAGTTTAATACCGGATCC 59.931 47.826 9.46 0.00 0.00 3.36
3367 3789 6.232139 ACTTTTTCCACGAGTTTAATACCG 57.768 37.500 0.00 0.00 0.00 4.02
3375 3797 3.013921 TGCAGAACTTTTTCCACGAGTT 58.986 40.909 0.00 0.00 36.40 3.01
3396 3819 1.553704 ACCGGTCGAAGCTATTCCTTT 59.446 47.619 0.00 0.00 31.21 3.11
3398 3821 1.136500 GAACCGGTCGAAGCTATTCCT 59.864 52.381 8.04 0.00 31.21 3.36
3400 3823 1.134907 TGGAACCGGTCGAAGCTATTC 60.135 52.381 8.04 0.00 0.00 1.75
3495 4216 0.950836 TTTCATGGTGTTCTGTGCGG 59.049 50.000 0.00 0.00 0.00 5.69
3499 4221 5.132502 TGAATGACTTTCATGGTGTTCTGT 58.867 37.500 0.00 0.00 39.44 3.41
3528 4250 4.142859 TGTTACACTCGCGTGAAAAGTTTT 60.143 37.500 13.36 0.00 43.97 2.43
3578 4304 6.676237 TTCAAAAGGACTTGCAAAAATTCC 57.324 33.333 0.00 4.33 0.00 3.01
3647 4373 0.172578 ATGCGACGTGAATCTTCGGA 59.827 50.000 0.00 0.00 41.44 4.55
3650 4376 4.781528 GTGTAAAATGCGACGTGAATCTTC 59.218 41.667 0.00 0.00 0.00 2.87
3743 4472 2.808933 CGAGAGCTAGCCTGCTACTAGT 60.809 54.545 12.13 0.00 44.17 2.57
3744 4473 1.804151 CGAGAGCTAGCCTGCTACTAG 59.196 57.143 12.13 4.47 44.17 2.57


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

AutoCloner maintained by Alex Coulton.