Multiple sequence alignment - TraesCS7A01G372800

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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 TraesCS7A01G372800 chr7A 100.000 3442 0 0 1 3442 546045890 546042449 0.000000e+00 6357.0
1 TraesCS7A01G372800 chr7A 95.461 2930 125 3 514 3442 38755087 38758009 0.000000e+00 4667.0
2 TraesCS7A01G372800 chr7A 88.235 68 8 0 1831 1898 170885199 170885266 7.920000e-12 82.4
3 TraesCS7A01G372800 chr3B 89.547 1301 117 7 1794 3086 741379467 741380756 0.000000e+00 1631.0
4 TraesCS7A01G372800 chr3B 85.105 1289 185 7 511 1796 741369041 741370325 0.000000e+00 1310.0
5 TraesCS7A01G372800 chr3B 82.639 144 25 0 1810 1953 763196144 763196287 1.000000e-25 128.0
6 TraesCS7A01G372800 chr5A 87.464 1404 170 6 2042 3442 46248772 46247372 0.000000e+00 1613.0
7 TraesCS7A01G372800 chr5A 79.815 1080 183 26 889 1956 46250717 46249661 0.000000e+00 754.0
8 TraesCS7A01G372800 chr5A 83.165 297 46 4 514 808 46251294 46251000 5.660000e-68 268.0
9 TraesCS7A01G372800 chr7D 82.353 527 71 15 1 511 451041444 451041964 4.080000e-119 438.0
10 TraesCS7A01G372800 chr7D 77.885 208 40 6 174 377 22921459 22921664 1.300000e-24 124.0
11 TraesCS7A01G372800 chr7D 80.576 139 27 0 1813 1951 32337452 32337314 1.310000e-19 108.0
12 TraesCS7A01G372800 chr7D 86.364 66 7 1 1 64 449547774 449547709 1.710000e-08 71.3
13 TraesCS7A01G372800 chr7B 88.983 118 9 2 1 115 468828247 468828363 3.580000e-30 143.0
14 TraesCS7A01G372800 chr7B 87.324 71 9 0 1831 1901 60450535 60450465 7.920000e-12 82.4
15 TraesCS7A01G372800 chr7B 91.228 57 3 1 1 55 472784940 472784996 3.680000e-10 76.8
16 TraesCS7A01G372800 chr4A 81.395 129 22 2 1822 1949 137066793 137066666 1.690000e-18 104.0
17 TraesCS7A01G372800 chr1D 77.439 164 29 7 2918 3076 299885723 299885563 1.320000e-14 91.6


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 TraesCS7A01G372800 chr7A 546042449 546045890 3441 True 6357.000000 6357 100.000000 1 3442 1 chr7A.!!$R1 3441
1 TraesCS7A01G372800 chr7A 38755087 38758009 2922 False 4667.000000 4667 95.461000 514 3442 1 chr7A.!!$F1 2928
2 TraesCS7A01G372800 chr3B 741379467 741380756 1289 False 1631.000000 1631 89.547000 1794 3086 1 chr3B.!!$F2 1292
3 TraesCS7A01G372800 chr3B 741369041 741370325 1284 False 1310.000000 1310 85.105000 511 1796 1 chr3B.!!$F1 1285
4 TraesCS7A01G372800 chr5A 46247372 46251294 3922 True 878.333333 1613 83.481333 514 3442 3 chr5A.!!$R1 2928
5 TraesCS7A01G372800 chr7D 451041444 451041964 520 False 438.000000 438 82.353000 1 511 1 chr7D.!!$F2 510

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
343 355 0.960861 AAAAACGCCAGGGCTAGAGC 60.961 55.0 8.91 0.0 39.32 4.09 F
1342 1564 0.898320 ACATCTCCAACTCGGTCTGG 59.102 55.0 0.00 0.0 35.57 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1396 1619 0.324091 CAAAGGAGGGCCTCTGCAAT 60.324 55.0 31.39 12.04 46.28 3.56 R
3171 4205 0.104304 ACTCTCGCTCCGTTGTTTGT 59.896 50.0 0.00 0.00 0.00 2.83 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 4.793216 CAGCATAGAAAATTACGGTGTTGC 59.207 41.667 0.00 0.00 0.00 4.17
43 44 2.223226 TGTTGCATTGACGTGTTGACTG 60.223 45.455 0.00 0.00 0.00 3.51
48 49 2.102070 TTGACGTGTTGACTGTGGTT 57.898 45.000 0.00 0.00 0.00 3.67
63 64 2.106683 GGTTTCCAGATGACGGGCG 61.107 63.158 0.00 0.00 0.00 6.13
64 65 2.435938 TTTCCAGATGACGGGCGC 60.436 61.111 0.00 0.00 0.00 6.53
65 66 4.812476 TTCCAGATGACGGGCGCG 62.812 66.667 22.69 22.69 0.00 6.86
68 69 3.118454 CAGATGACGGGCGCGTTT 61.118 61.111 30.06 20.07 0.00 3.60
76 77 2.026879 GGGCGCGTTTGCTCAAAA 59.973 55.556 8.43 0.00 39.65 2.44
77 78 2.016165 GGGCGCGTTTGCTCAAAAG 61.016 57.895 8.43 4.34 39.65 2.27
88 89 6.791775 GCGTTTGCTCAAAAGAAAATATTTGG 59.208 34.615 11.42 0.00 37.19 3.28
89 90 6.791775 CGTTTGCTCAAAAGAAAATATTTGGC 59.208 34.615 0.39 0.00 37.19 4.52
136 137 3.488553 GCACGGCCCTTATACATGTTTTC 60.489 47.826 2.30 0.00 0.00 2.29
137 138 3.692101 CACGGCCCTTATACATGTTTTCA 59.308 43.478 2.30 0.00 0.00 2.69
140 141 5.099575 CGGCCCTTATACATGTTTTCAAAC 58.900 41.667 2.30 0.00 39.33 2.93
151 152 2.763448 TGTTTTCAAACTTGGACCCTGG 59.237 45.455 4.14 0.00 39.59 4.45
153 154 3.955524 TTTCAAACTTGGACCCTGGTA 57.044 42.857 0.00 0.00 0.00 3.25
163 164 5.073965 ACTTGGACCCTGGTAACTTGATAAA 59.926 40.000 0.00 0.00 37.61 1.40
164 165 5.789574 TGGACCCTGGTAACTTGATAAAT 57.210 39.130 0.00 0.00 37.61 1.40
165 166 5.505780 TGGACCCTGGTAACTTGATAAATG 58.494 41.667 0.00 0.00 37.61 2.32
172 173 5.073428 TGGTAACTTGATAAATGCCACACA 58.927 37.500 0.00 0.00 37.61 3.72
175 185 6.364976 GGTAACTTGATAAATGCCACACAAAC 59.635 38.462 0.00 0.00 0.00 2.93
177 187 5.288804 ACTTGATAAATGCCACACAAACAC 58.711 37.500 0.00 0.00 0.00 3.32
181 191 2.529780 AATGCCACACAAACACATGG 57.470 45.000 0.00 0.00 35.17 3.66
187 197 2.418471 CCACACAAACACATGGCAACTT 60.418 45.455 0.00 0.00 37.61 2.66
188 198 3.260740 CACACAAACACATGGCAACTTT 58.739 40.909 0.00 0.00 37.61 2.66
193 203 4.564769 ACAAACACATGGCAACTTTAAACG 59.435 37.500 0.00 0.00 37.61 3.60
225 235 5.116882 GCTAGTTTAGTAACACAGGGATGG 58.883 45.833 0.00 0.00 36.70 3.51
228 238 3.627395 TTAGTAACACAGGGATGGCAG 57.373 47.619 0.00 0.00 0.00 4.85
243 253 4.278419 GGATGGCAGTTTTAGTTGTCAAGT 59.722 41.667 0.00 0.00 31.98 3.16
247 257 7.667043 TGGCAGTTTTAGTTGTCAAGTATAG 57.333 36.000 0.91 0.00 0.00 1.31
260 270 9.170584 GTTGTCAAGTATAGCAACTTTCTTTTC 57.829 33.333 0.00 0.00 37.61 2.29
262 272 7.439955 TGTCAAGTATAGCAACTTTCTTTTCGA 59.560 33.333 0.00 0.00 37.61 3.71
268 278 5.262588 AGCAACTTTCTTTTCGAAATGGT 57.737 34.783 19.99 12.56 40.62 3.55
278 288 6.435428 TCTTTTCGAAATGGTAAGTTTCAGC 58.565 36.000 19.99 0.00 35.77 4.26
279 289 6.262273 TCTTTTCGAAATGGTAAGTTTCAGCT 59.738 34.615 19.99 0.00 35.77 4.24
287 297 4.282496 TGGTAAGTTTCAGCTTTTTGGGA 58.718 39.130 0.00 0.00 0.00 4.37
296 308 7.176515 AGTTTCAGCTTTTTGGGATTTGTTTTT 59.823 29.630 0.00 0.00 0.00 1.94
297 309 6.676237 TCAGCTTTTTGGGATTTGTTTTTC 57.324 33.333 0.00 0.00 0.00 2.29
304 316 6.670077 TTTGGGATTTGTTTTTCCTTTTCG 57.330 33.333 0.00 0.00 32.34 3.46
305 317 5.346181 TGGGATTTGTTTTTCCTTTTCGT 57.654 34.783 0.00 0.00 32.34 3.85
309 321 7.149307 GGGATTTGTTTTTCCTTTTCGTATGA 58.851 34.615 0.00 0.00 32.34 2.15
320 332 7.647907 TCCTTTTCGTATGACAACTTTAGTC 57.352 36.000 0.00 0.00 36.55 2.59
343 355 0.960861 AAAAACGCCAGGGCTAGAGC 60.961 55.000 8.91 0.00 39.32 4.09
352 364 2.182030 GGCTAGAGCGCTTCGTGT 59.818 61.111 13.26 0.00 43.26 4.49
353 365 1.874466 GGCTAGAGCGCTTCGTGTC 60.874 63.158 13.26 0.00 43.26 3.67
383 396 6.573664 TGACACTTATCATTTGGGTTCAAG 57.426 37.500 0.00 0.00 33.98 3.02
387 400 7.791029 ACACTTATCATTTGGGTTCAAGTTTT 58.209 30.769 0.00 0.00 33.98 2.43
392 405 6.067263 TCATTTGGGTTCAAGTTTTAGTCG 57.933 37.500 0.00 0.00 33.98 4.18
397 410 5.617252 TGGGTTCAAGTTTTAGTCGATTCT 58.383 37.500 0.00 0.00 0.00 2.40
398 411 6.761312 TGGGTTCAAGTTTTAGTCGATTCTA 58.239 36.000 0.00 0.00 0.00 2.10
412 425 4.153117 GTCGATTCTATGTGGCATCCAATC 59.847 45.833 0.00 0.00 34.18 2.67
414 427 4.758674 CGATTCTATGTGGCATCCAATCTT 59.241 41.667 0.00 0.00 34.18 2.40
416 429 6.238842 CGATTCTATGTGGCATCCAATCTTTT 60.239 38.462 0.00 0.00 34.18 2.27
421 435 8.250332 TCTATGTGGCATCCAATCTTTTTAAAC 58.750 33.333 0.00 0.00 34.18 2.01
427 441 6.934083 GGCATCCAATCTTTTTAAACCTTTCA 59.066 34.615 0.00 0.00 0.00 2.69
491 506 9.973661 TCTAATTTTCCAATCAAGTAAGATGGA 57.026 29.630 0.00 0.00 0.00 3.41
619 634 1.003331 GCTCGTCTGACAGGTATCGAG 60.003 57.143 22.62 22.62 44.60 4.04
810 825 3.138798 AGCCGTCGCTCCACGTAT 61.139 61.111 0.00 0.00 43.95 3.06
830 845 2.049433 CGTTCTGTCCTCCGCGTT 60.049 61.111 4.92 0.00 0.00 4.84
891 1108 8.629821 ACTAACCCCTATACCGTATCTATCTA 57.370 38.462 0.00 0.00 0.00 1.98
936 1155 2.123077 CCTCTCCCAGGGCGATCT 60.123 66.667 0.00 0.00 38.91 2.75
987 1207 1.078143 GGAGATTTCTGCAGCCGGT 60.078 57.895 9.47 0.00 34.20 5.28
1164 1386 1.999051 CTTGAGGAATTCGCCGACG 59.001 57.895 0.00 0.00 42.01 5.12
1233 1455 2.202837 CCAGTTACGCGGGTAGCC 60.203 66.667 20.20 11.85 44.76 3.93
1238 1460 1.379710 TTACGCGGGTAGCCCTGTA 60.380 57.895 12.47 5.63 42.67 2.74
1265 1487 2.825836 GATTCTGGGTGCGGCCAG 60.826 66.667 2.24 0.00 39.65 4.85
1342 1564 0.898320 ACATCTCCAACTCGGTCTGG 59.102 55.000 0.00 0.00 35.57 3.86
1343 1565 1.186200 CATCTCCAACTCGGTCTGGA 58.814 55.000 1.22 1.22 39.47 3.86
1364 1586 2.439507 ACAGTCAACTGACAGGGTGAAT 59.560 45.455 16.71 6.48 46.59 2.57
1396 1619 1.545582 CGGGTGGACTAAAAGGTACGA 59.454 52.381 0.00 0.00 0.00 3.43
1657 1880 7.268586 AGGATGTGCTACTTAACTGTAATCTG 58.731 38.462 0.00 0.00 0.00 2.90
1763 1986 0.179134 AGGAGTCGATGCGCAAGTAC 60.179 55.000 17.11 12.87 41.68 2.73
1796 2019 1.068753 CAAAAATGTGGTGCGGCCA 59.931 52.632 2.24 0.00 46.95 5.36
1892 2115 5.808366 TCGGCATTAGATATGGAAAGAGT 57.192 39.130 0.00 0.00 0.00 3.24
1912 2135 0.108615 CGGCTGAACGTTGAGAGGAT 60.109 55.000 19.40 0.00 0.00 3.24
1985 3017 3.616821 CGTCTGCTATCCATTTTGTTCGA 59.383 43.478 0.00 0.00 0.00 3.71
2090 3124 5.176590 GCCAGAAGCAGAAAATAGTAGATCG 59.823 44.000 0.00 0.00 42.97 3.69
2271 3305 4.649674 AGGATCTCATAAAACAGCTACGGA 59.350 41.667 0.00 0.00 0.00 4.69
2313 3347 5.308825 GCAAGGTGTACAGCATAATAGGAT 58.691 41.667 25.75 0.00 0.00 3.24
2357 3391 4.430441 AGGTTCCATTCACTAAGAGGACT 58.570 43.478 0.00 0.00 0.00 3.85
2439 3473 4.389992 CACTTGAAGTGTTCGCTGACATAT 59.610 41.667 16.84 0.00 41.19 1.78
2442 3476 5.324784 TGAAGTGTTCGCTGACATATAGT 57.675 39.130 0.00 0.00 0.00 2.12
2472 3506 3.338249 CCTGGTTTCACATACAGAGTGG 58.662 50.000 0.00 0.00 37.58 4.00
2579 3613 6.452242 TGTCACTTTCGACACAACATATAGT 58.548 36.000 0.00 0.00 40.94 2.12
2610 3644 4.393680 TGTACGACATGCCTTTTGGATTAC 59.606 41.667 0.00 0.00 44.07 1.89
2664 3698 3.320879 CTCGCTGGGGTGCTGATGT 62.321 63.158 0.00 0.00 0.00 3.06
2910 3944 5.198207 TCAAGAAGGTGTATCCAGATACGA 58.802 41.667 12.02 1.04 44.97 3.43
2960 3994 5.788450 CTGAAGAAAGCAAAGGAGAGTCTA 58.212 41.667 0.00 0.00 0.00 2.59
3082 4116 4.257731 TGCTGGATAAGTACAATTTGCGA 58.742 39.130 0.00 0.00 0.00 5.10
3169 4203 2.622942 TGTTTTCTGTGCCAAGATGACC 59.377 45.455 0.00 0.00 0.00 4.02
3171 4205 2.655090 TTCTGTGCCAAGATGACCAA 57.345 45.000 0.00 0.00 0.00 3.67
3174 4208 1.955778 CTGTGCCAAGATGACCAACAA 59.044 47.619 0.00 0.00 0.00 2.83
3247 4281 0.390209 GCCCCATGCATGTGTTTGTC 60.390 55.000 24.58 3.67 40.77 3.18
3401 4435 9.023962 TGGAACTTATTTGCTATTCTGTCAAAT 57.976 29.630 0.00 0.00 41.56 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 5.331902 CAACACCGTAATTTTCTATGCTGG 58.668 41.667 0.00 0.00 0.00 4.85
27 28 1.939934 ACCACAGTCAACACGTCAATG 59.060 47.619 0.00 0.00 0.00 2.82
43 44 1.305930 GCCCGTCATCTGGAAACCAC 61.306 60.000 0.00 0.00 0.00 4.16
48 49 4.812476 CGCGCCCGTCATCTGGAA 62.812 66.667 0.00 0.00 0.00 3.53
63 64 6.791775 CCAAATATTTTCTTTTGAGCAAACGC 59.208 34.615 0.00 0.00 35.34 4.84
64 65 6.791775 GCCAAATATTTTCTTTTGAGCAAACG 59.208 34.615 0.00 0.00 35.34 3.60
65 66 7.638134 TGCCAAATATTTTCTTTTGAGCAAAC 58.362 30.769 0.00 0.00 36.74 2.93
68 69 6.128227 GCATGCCAAATATTTTCTTTTGAGCA 60.128 34.615 6.36 11.24 40.19 4.26
76 77 3.189285 GTGCGCATGCCAAATATTTTCT 58.811 40.909 15.91 0.00 41.78 2.52
77 78 2.034675 CGTGCGCATGCCAAATATTTTC 60.035 45.455 18.03 0.00 41.78 2.29
124 125 7.007723 AGGGTCCAAGTTTGAAAACATGTATA 58.992 34.615 0.00 0.00 41.30 1.47
136 137 3.223674 AGTTACCAGGGTCCAAGTTTG 57.776 47.619 0.00 0.00 0.00 2.93
137 138 3.203487 TCAAGTTACCAGGGTCCAAGTTT 59.797 43.478 0.00 0.00 0.00 2.66
140 141 3.721087 ATCAAGTTACCAGGGTCCAAG 57.279 47.619 0.00 0.00 0.00 3.61
151 152 6.920758 TGTTTGTGTGGCATTTATCAAGTTAC 59.079 34.615 0.00 0.00 0.00 2.50
153 154 5.752955 GTGTTTGTGTGGCATTTATCAAGTT 59.247 36.000 0.00 0.00 0.00 2.66
172 173 4.749976 ACGTTTAAAGTTGCCATGTGTTT 58.250 34.783 0.00 0.00 0.00 2.83
175 185 5.710613 AAAACGTTTAAAGTTGCCATGTG 57.289 34.783 15.03 0.00 31.43 3.21
199 209 7.418597 CCATCCCTGTGTTACTAAACTAGCATA 60.419 40.741 0.00 0.00 36.51 3.14
200 210 6.349300 CATCCCTGTGTTACTAAACTAGCAT 58.651 40.000 0.00 0.00 36.51 3.79
201 211 5.338056 CCATCCCTGTGTTACTAAACTAGCA 60.338 44.000 0.00 0.00 36.51 3.49
202 212 5.116882 CCATCCCTGTGTTACTAAACTAGC 58.883 45.833 0.00 0.00 36.51 3.42
204 214 4.532916 TGCCATCCCTGTGTTACTAAACTA 59.467 41.667 0.00 0.00 36.51 2.24
213 223 2.086610 AAAACTGCCATCCCTGTGTT 57.913 45.000 0.00 0.00 0.00 3.32
215 225 2.795329 ACTAAAACTGCCATCCCTGTG 58.205 47.619 0.00 0.00 0.00 3.66
216 226 3.157087 CAACTAAAACTGCCATCCCTGT 58.843 45.455 0.00 0.00 0.00 4.00
217 227 3.157087 ACAACTAAAACTGCCATCCCTG 58.843 45.455 0.00 0.00 0.00 4.45
218 228 3.181434 TGACAACTAAAACTGCCATCCCT 60.181 43.478 0.00 0.00 0.00 4.20
219 229 3.153919 TGACAACTAAAACTGCCATCCC 58.846 45.455 0.00 0.00 0.00 3.85
225 235 7.129109 TGCTATACTTGACAACTAAAACTGC 57.871 36.000 0.00 0.00 0.00 4.40
255 265 6.438763 AGCTGAAACTTACCATTTCGAAAAG 58.561 36.000 15.66 10.61 38.64 2.27
260 270 6.074356 CCAAAAAGCTGAAACTTACCATTTCG 60.074 38.462 0.00 0.00 38.64 3.46
262 272 6.054941 CCCAAAAAGCTGAAACTTACCATTT 58.945 36.000 0.00 0.00 0.00 2.32
268 278 6.883744 ACAAATCCCAAAAAGCTGAAACTTA 58.116 32.000 0.00 0.00 0.00 2.24
278 288 7.696035 CGAAAAGGAAAAACAAATCCCAAAAAG 59.304 33.333 0.00 0.00 36.31 2.27
279 289 7.175119 ACGAAAAGGAAAAACAAATCCCAAAAA 59.825 29.630 0.00 0.00 36.31 1.94
287 297 8.813282 GTTGTCATACGAAAAGGAAAAACAAAT 58.187 29.630 0.00 0.00 0.00 2.32
296 308 6.364165 CGACTAAAGTTGTCATACGAAAAGGA 59.636 38.462 0.00 0.00 34.37 3.36
297 309 6.145048 ACGACTAAAGTTGTCATACGAAAAGG 59.855 38.462 0.00 0.00 38.19 3.11
330 342 4.168291 AAGCGCTCTAGCCCTGGC 62.168 66.667 12.06 0.00 42.33 4.85
331 343 2.107953 GAAGCGCTCTAGCCCTGG 59.892 66.667 12.06 0.00 37.91 4.45
332 344 2.279120 CGAAGCGCTCTAGCCCTG 60.279 66.667 12.06 0.00 37.91 4.45
334 346 2.583593 CACGAAGCGCTCTAGCCC 60.584 66.667 12.06 0.00 37.91 5.19
335 347 1.874466 GACACGAAGCGCTCTAGCC 60.874 63.158 12.06 0.00 37.91 3.93
337 349 0.798771 GGTGACACGAAGCGCTCTAG 60.799 60.000 12.06 7.88 0.00 2.43
338 350 1.211969 GGTGACACGAAGCGCTCTA 59.788 57.895 12.06 0.00 0.00 2.43
339 351 2.049063 GGTGACACGAAGCGCTCT 60.049 61.111 12.06 0.00 0.00 4.09
343 355 0.455464 TCATACGGTGACACGAAGCG 60.455 55.000 0.00 0.00 43.79 4.68
352 364 5.815222 CCAAATGATAAGTGTCATACGGTGA 59.185 40.000 0.00 0.00 37.85 4.02
353 365 5.007626 CCCAAATGATAAGTGTCATACGGTG 59.992 44.000 0.00 0.00 37.85 4.94
383 396 6.292919 GGATGCCACATAGAATCGACTAAAAC 60.293 42.308 0.00 0.00 0.00 2.43
387 400 3.895041 TGGATGCCACATAGAATCGACTA 59.105 43.478 0.00 0.00 0.00 2.59
392 405 6.645790 AAAGATTGGATGCCACATAGAATC 57.354 37.500 0.00 0.00 30.78 2.52
397 410 7.180051 AGGTTTAAAAAGATTGGATGCCACATA 59.820 33.333 0.00 0.00 30.78 2.29
398 411 6.013466 AGGTTTAAAAAGATTGGATGCCACAT 60.013 34.615 0.00 0.00 30.78 3.21
421 435 2.741612 TGCTTGCGAAAACATGAAAGG 58.258 42.857 0.00 0.00 0.00 3.11
427 441 6.158598 ACAAATATCTTGCTTGCGAAAACAT 58.841 32.000 0.00 0.00 0.00 2.71
474 489 9.492973 AAAACAAATTCCATCTTACTTGATTGG 57.507 29.630 0.00 0.00 0.00 3.16
574 589 3.221771 CGGCATTATTCCTCATCCCAAA 58.778 45.455 0.00 0.00 0.00 3.28
619 634 0.300789 CGCGGCGTAATCCTTTTCTC 59.699 55.000 15.36 0.00 0.00 2.87
810 825 4.373116 GCGGAGGACAGAACGCCA 62.373 66.667 0.00 0.00 45.70 5.69
891 1108 2.764547 GCGGTCCTAGCCCCTTCT 60.765 66.667 0.00 0.00 0.00 2.85
910 1127 3.596799 TGGGAGAGGACGGGGTCA 61.597 66.667 0.00 0.00 33.68 4.02
936 1155 1.069568 CACAAAAATGGCGTCGCAGTA 60.070 47.619 20.50 4.98 0.00 2.74
1164 1386 1.162800 GGATCTGGATGCTCAACGCC 61.163 60.000 0.00 0.00 38.05 5.68
1195 1417 4.520846 CGTTCGCTTGCATCCGCC 62.521 66.667 0.00 0.00 37.32 6.13
1233 1455 6.039047 CACCCAGAATCATCTTTTGATACAGG 59.961 42.308 0.00 0.00 44.51 4.00
1265 1487 0.449388 CCTCAACTTCGCCAATCTGC 59.551 55.000 0.00 0.00 0.00 4.26
1342 1564 1.412710 TCACCCTGTCAGTTGACTGTC 59.587 52.381 12.97 0.00 44.99 3.51
1343 1565 1.496060 TCACCCTGTCAGTTGACTGT 58.504 50.000 12.97 5.58 44.99 3.55
1364 1586 3.636231 CACCCGGGTGCTTCTGGA 61.636 66.667 39.44 0.00 39.39 3.86
1396 1619 0.324091 CAAAGGAGGGCCTCTGCAAT 60.324 55.000 31.39 12.04 46.28 3.56
1434 1657 1.071987 CCCTGAACTCAGCACAGCA 59.928 57.895 0.89 0.00 42.47 4.41
1435 1658 1.673665 CCCCTGAACTCAGCACAGC 60.674 63.158 0.89 0.00 42.47 4.40
1436 1659 0.397941 TTCCCCTGAACTCAGCACAG 59.602 55.000 0.89 0.00 42.47 3.66
1484 1707 6.492254 ACCAACGTACATTTTTCTGAAGTTC 58.508 36.000 0.00 0.00 0.00 3.01
1502 1725 3.461843 GCTTCTGCTGAAACCAACG 57.538 52.632 7.48 0.00 36.03 4.10
1657 1880 4.918810 ATTCCACCAGTCAAAGTTCAAC 57.081 40.909 0.00 0.00 0.00 3.18
1767 1990 2.224354 CCACATTTTTGCTGGGCTCTTT 60.224 45.455 0.00 0.00 0.00 2.52
1772 1995 1.229975 GCACCACATTTTTGCTGGGC 61.230 55.000 0.00 0.00 33.26 5.36
1796 2019 5.220854 CGAATCAAAAGTCAGACCAAGTGTT 60.221 40.000 0.00 0.00 0.00 3.32
1892 2115 1.176619 TCCTCTCAACGTTCAGCCGA 61.177 55.000 0.00 0.00 0.00 5.54
1912 2135 6.380995 CACACTATTTCTTGCATGCACTTTA 58.619 36.000 22.58 4.47 0.00 1.85
2090 3124 0.882042 CTGGACACTCACACCTGCAC 60.882 60.000 0.00 0.00 0.00 4.57
2271 3305 5.453198 CCTTGCCAAGGTTAACATTGTTCTT 60.453 40.000 26.12 9.01 43.95 2.52
2313 3347 0.464870 TCAACCGACCCGAAGAAACA 59.535 50.000 0.00 0.00 0.00 2.83
2357 3391 1.788229 TCCCGCATATGTTCCTCAGA 58.212 50.000 4.29 0.00 0.00 3.27
2439 3473 1.975680 GAAACCAGGGTCACCAGACTA 59.024 52.381 0.00 0.00 44.36 2.59
2442 3476 0.472471 GTGAAACCAGGGTCACCAGA 59.528 55.000 12.62 0.00 38.57 3.86
2472 3506 3.441572 ACTTTGCTTGTATCATCAGCCAC 59.558 43.478 0.00 0.00 0.00 5.01
2579 3613 5.395682 AAGGCATGTCGTACAAGTTAGTA 57.604 39.130 0.00 0.00 0.00 1.82
2779 3813 7.979444 TTCTACACTCCAAGGATTAACAAAG 57.021 36.000 0.00 0.00 0.00 2.77
2788 3822 2.334977 TGCCTTTCTACACTCCAAGGA 58.665 47.619 0.83 0.00 38.52 3.36
2844 3878 3.549471 CACTGATCTGCAACGAGTATGTC 59.451 47.826 0.00 0.00 0.00 3.06
2850 3884 0.720027 CTGCACTGATCTGCAACGAG 59.280 55.000 10.49 0.00 46.46 4.18
3082 4116 4.441792 TCTGTGTCATATATGCGTGCTTT 58.558 39.130 7.92 0.00 0.00 3.51
3169 4203 0.934496 TCTCGCTCCGTTGTTTGTTG 59.066 50.000 0.00 0.00 0.00 3.33
3171 4205 0.104304 ACTCTCGCTCCGTTGTTTGT 59.896 50.000 0.00 0.00 0.00 2.83
3174 4208 1.664965 GCACTCTCGCTCCGTTGTT 60.665 57.895 0.00 0.00 0.00 2.83
3390 4424 5.779529 AGAGCAACACAATTTGACAGAAT 57.220 34.783 2.79 0.00 0.00 2.40
3401 4435 1.136695 CCCTGCAAAAGAGCAACACAA 59.863 47.619 0.00 0.00 45.13 3.33


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

AutoCloner maintained by Alex Coulton.