Multiple sequence alignment - TraesCS4B01G176700

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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 TraesCS4B01G176700 chr4B 100.000 2996 0 0 1 2996 386751980 386748985 0.000000e+00 5533.0
1 TraesCS4B01G176700 chr4B 100.000 29 0 0 2499 2527 386749449 386749421 2.000000e-03 54.7
2 TraesCS4B01G176700 chr4B 100.000 29 0 0 2532 2560 386749482 386749454 2.000000e-03 54.7
3 TraesCS4B01G176700 chr4D 93.272 3047 96 46 1 2996 309705233 309702245 0.000000e+00 4390.0
4 TraesCS4B01G176700 chr4A 93.237 1316 45 22 1098 2384 165354949 165356249 0.000000e+00 1897.0
5 TraesCS4B01G176700 chr4A 88.740 1119 35 27 1 1087 165353843 165354902 0.000000e+00 1284.0
6 TraesCS4B01G176700 chr4A 92.695 616 12 10 2382 2996 165356356 165356939 0.000000e+00 857.0
7 TraesCS4B01G176700 chr7D 79.225 284 34 14 2220 2499 609746277 609746015 1.100000e-39 174.0
8 TraesCS4B01G176700 chr7D 86.928 153 16 2 2343 2493 609974146 609974296 5.140000e-38 169.0
9 TraesCS4B01G176700 chr7D 85.625 160 17 4 2343 2499 607916712 607916556 2.390000e-36 163.0
10 TraesCS4B01G176700 chr7A 73.009 678 105 41 1493 2134 699911445 699910810 1.850000e-37 167.0
11 TraesCS4B01G176700 chr7B 86.755 151 16 2 2343 2491 694102864 694102716 6.640000e-37 165.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G176700 chr4B 386748985 386751980 2995 True 1880.8 5533 100.000000 1 2996 3 chr4B.!!$R1 2995
1 TraesCS4B01G176700 chr4D 309702245 309705233 2988 True 4390.0 4390 93.272000 1 2996 1 chr4D.!!$R1 2995
2 TraesCS4B01G176700 chr4A 165353843 165356939 3096 False 1346.0 1897 91.557333 1 2996 3 chr4A.!!$F1 2995

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
949 989 0.705253 TCCTCCTCCTTCGTCTTCCT 59.295 55.0 0.0 0.0 0.0 3.36 F
1112 1188 0.517316 GTGTGCGGTCAGTTCAATCC 59.483 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 1980 0.749818 TCTTTTGCTCCACAACGCCA 60.750 50.0 0.0 0.0 38.23 5.69 R
2654 2881 1.361204 TCCTCCAACTTCATCAGGCA 58.639 50.0 0.0 0.0 0.00 4.75 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
158 167 1.067295 ATCCAGTTGCAGTTGGGAGA 58.933 50.000 15.98 1.02 35.13 3.71
173 182 2.372172 TGGGAGAAGGAGAAAACCTCAC 59.628 50.000 0.00 0.00 43.76 3.51
214 226 1.346780 GGGGGTCCTAATTTAGGGGGA 60.347 57.143 20.00 1.22 46.24 4.81
274 287 2.942376 CGGCATGTGCAGGTCTTATAAA 59.058 45.455 7.36 0.00 44.36 1.40
315 328 2.224066 GGATGTGCGTTAGGTATCAGCT 60.224 50.000 0.00 0.00 0.00 4.24
316 329 2.579207 TGTGCGTTAGGTATCAGCTC 57.421 50.000 0.00 0.00 0.00 4.09
317 330 1.822371 TGTGCGTTAGGTATCAGCTCA 59.178 47.619 0.00 0.00 0.00 4.26
318 331 2.159240 TGTGCGTTAGGTATCAGCTCAG 60.159 50.000 0.00 0.00 0.00 3.35
319 332 1.202417 TGCGTTAGGTATCAGCTCAGC 60.202 52.381 0.00 0.00 0.00 4.26
320 333 1.067821 GCGTTAGGTATCAGCTCAGCT 59.932 52.381 0.00 0.00 40.77 4.24
321 334 2.482142 GCGTTAGGTATCAGCTCAGCTT 60.482 50.000 0.00 0.00 36.40 3.74
477 490 3.306225 GGTCCGGCCGAATACAATATACA 60.306 47.826 30.73 0.00 0.00 2.29
480 493 3.122278 CCGGCCGAATACAATATACAACG 59.878 47.826 30.73 0.00 0.00 4.10
612 628 3.628646 ATCACCCGAGGCCACTTGC 62.629 63.158 5.01 0.00 40.16 4.01
622 638 2.935740 GCCACTTGCAGGGCTTTCC 61.936 63.158 16.26 0.00 46.74 3.13
711 743 2.363172 GCTCCTCTGGGACTGGGAC 61.363 68.421 0.00 0.00 36.57 4.46
712 744 1.390125 CTCCTCTGGGACTGGGACT 59.610 63.158 0.00 0.00 36.57 3.85
738 770 3.017896 CGGGTAGGGAGGGAGGGAA 62.018 68.421 0.00 0.00 0.00 3.97
815 855 5.280317 GGGAGCGGGAGTTTTATAATCCATA 60.280 44.000 6.05 0.00 34.62 2.74
940 980 3.875571 TCCTTTCTTCTTCCTCCTCCTT 58.124 45.455 0.00 0.00 0.00 3.36
942 982 3.368948 CCTTTCTTCTTCCTCCTCCTTCG 60.369 52.174 0.00 0.00 0.00 3.79
945 985 2.041891 TCTTCTTCCTCCTCCTTCGTCT 59.958 50.000 0.00 0.00 0.00 4.18
948 988 1.478916 CTTCCTCCTCCTTCGTCTTCC 59.521 57.143 0.00 0.00 0.00 3.46
949 989 0.705253 TCCTCCTCCTTCGTCTTCCT 59.295 55.000 0.00 0.00 0.00 3.36
950 990 1.107945 CCTCCTCCTTCGTCTTCCTC 58.892 60.000 0.00 0.00 0.00 3.71
1014 1054 3.140073 AACAATGTCCCCCGTGCCA 62.140 57.895 0.00 0.00 0.00 4.92
1032 1072 0.527113 CAAGCCCGCATCAATCACAA 59.473 50.000 0.00 0.00 0.00 3.33
1046 1086 4.019411 TCAATCACAACTTCTAGGCCATGA 60.019 41.667 5.01 0.00 0.00 3.07
1073 1113 5.921962 AGGTCAGTTTTCTGCTTCTTTTT 57.078 34.783 0.00 0.00 46.59 1.94
1112 1188 0.517316 GTGTGCGGTCAGTTCAATCC 59.483 55.000 0.00 0.00 0.00 3.01
1134 1210 5.011738 TCCGAGTAACCTCTCTTGATTTGTT 59.988 40.000 0.00 0.00 35.43 2.83
1135 1211 5.701290 CCGAGTAACCTCTCTTGATTTGTTT 59.299 40.000 0.00 0.00 35.43 2.83
1136 1212 6.128526 CCGAGTAACCTCTCTTGATTTGTTTC 60.129 42.308 0.00 0.00 35.43 2.78
1250 1337 3.429135 GGAAGTACGGCGAGAAGAAGATT 60.429 47.826 16.62 0.00 0.00 2.40
1294 1381 1.455849 CAGCCCACCTTTGGTCTCA 59.544 57.895 0.00 0.00 42.10 3.27
1329 1419 9.373743 CTCATTTGGTGATCTGCATCTGCATAG 62.374 44.444 5.16 0.00 42.64 2.23
1365 1456 6.246919 ACCATTAGTAGTATCTAGCATCCGT 58.753 40.000 0.00 0.00 0.00 4.69
1368 1459 7.121463 CCATTAGTAGTATCTAGCATCCGTCTT 59.879 40.741 0.00 0.00 0.00 3.01
1369 1460 8.516234 CATTAGTAGTATCTAGCATCCGTCTTT 58.484 37.037 0.00 0.00 0.00 2.52
1372 1463 4.861210 AGTATCTAGCATCCGTCTTTTCG 58.139 43.478 0.00 0.00 0.00 3.46
1378 1469 1.086696 CATCCGTCTTTTCGTGGCAT 58.913 50.000 0.00 0.00 0.00 4.40
1386 1477 4.377943 CGTCTTTTCGTGGCATATCACAAA 60.378 41.667 0.00 0.00 37.50 2.83
1392 1484 5.484173 TCGTGGCATATCACAAATCTTTC 57.516 39.130 0.00 0.00 37.50 2.62
1394 1486 5.065090 TCGTGGCATATCACAAATCTTTCAG 59.935 40.000 0.00 0.00 37.50 3.02
1396 1488 4.098349 TGGCATATCACAAATCTTTCAGCC 59.902 41.667 0.00 0.00 37.75 4.85
1397 1489 4.500375 GGCATATCACAAATCTTTCAGCCC 60.500 45.833 0.00 0.00 0.00 5.19
1410 1502 1.235756 TCAGCCCCCTCTCTCTGATA 58.764 55.000 0.00 0.00 31.35 2.15
1414 1512 1.162505 CCCCCTCTCTCTGATAGGGA 58.837 60.000 16.60 0.00 45.52 4.20
1431 1529 2.379907 AGGGAGGGCTTTTCATTCTTCA 59.620 45.455 0.00 0.00 0.00 3.02
1457 1555 4.603171 TCCAAATCTACCATAGGGATGCAT 59.397 41.667 0.00 0.00 38.05 3.96
1477 1575 7.197071 TGCATAGTGTAACAAACTTACCAAG 57.803 36.000 0.00 0.00 41.43 3.61
1489 1587 8.045176 ACAAACTTACCAAGATATGAAGAAGC 57.955 34.615 0.00 0.00 0.00 3.86
1490 1588 7.121315 ACAAACTTACCAAGATATGAAGAAGCC 59.879 37.037 0.00 0.00 0.00 4.35
1569 1683 4.826733 TGCACCTACAAAGACAACATGAAT 59.173 37.500 0.00 0.00 0.00 2.57
1680 1794 2.121506 TTCCTTGCCCTCACCCCT 60.122 61.111 0.00 0.00 0.00 4.79
1866 1980 2.923910 GCTTTCTTCCTGGGCCCCT 61.924 63.158 22.27 0.00 0.00 4.79
1887 2001 0.380378 GCGTTGTGGAGCAAAAGACA 59.620 50.000 0.00 0.00 39.03 3.41
1941 2055 3.382546 AGTGCCAAGATGCATACATTTCC 59.617 43.478 0.00 0.00 44.30 3.13
2011 2125 6.588719 TTTTGTAAATGGATCAGTGGAAGG 57.411 37.500 0.00 0.00 0.00 3.46
2104 2218 4.444733 CCAGATACTTGCATGTGGGATGTA 60.445 45.833 15.08 0.00 36.05 2.29
2328 2445 3.991051 ACACGGTGACAGAGGGCG 61.991 66.667 16.29 0.00 0.00 6.13
2369 2486 8.474831 TCATAGTATAAATATATGCAGCACGGT 58.525 33.333 0.00 0.00 0.00 4.83
2431 2658 6.590292 CACAACATAGAAAAGACCACGAGTAT 59.410 38.462 0.00 0.00 0.00 2.12
2533 2760 2.978156 AGCAAAATCCAGTTCAGGGA 57.022 45.000 0.00 0.00 39.14 4.20
2534 2761 9.462955 GCAATAAGCAAAATCCAGTTCAGGGAT 62.463 40.741 0.00 0.00 44.52 3.85
2535 2762 3.094572 AGCAAAATCCAGTTCAGGGATG 58.905 45.455 0.00 0.00 44.30 3.51
2536 2763 2.417787 GCAAAATCCAGTTCAGGGATGC 60.418 50.000 0.00 0.00 44.30 3.91
2537 2764 2.149973 AAATCCAGTTCAGGGATGCC 57.850 50.000 0.00 0.00 44.30 4.40
2538 2765 1.002069 AATCCAGTTCAGGGATGCCA 58.998 50.000 5.86 0.00 44.30 4.92
2539 2766 1.002069 ATCCAGTTCAGGGATGCCAA 58.998 50.000 5.86 0.00 43.44 4.52
2541 2768 1.108776 CCAGTTCAGGGATGCCAATG 58.891 55.000 5.86 0.00 0.00 2.82
2542 2769 0.458669 CAGTTCAGGGATGCCAATGC 59.541 55.000 5.86 0.00 38.26 3.56
2651 2878 7.992754 ATTATGCAATATTTCAGGAGACCTC 57.007 36.000 0.00 0.00 0.00 3.85
2652 2879 5.643421 ATGCAATATTTCAGGAGACCTCT 57.357 39.130 0.00 0.00 0.00 3.69
2653 2880 5.441718 TGCAATATTTCAGGAGACCTCTT 57.558 39.130 0.00 0.00 0.00 2.85
2654 2881 5.819991 TGCAATATTTCAGGAGACCTCTTT 58.180 37.500 0.00 0.00 0.00 2.52
2655 2882 5.649395 TGCAATATTTCAGGAGACCTCTTTG 59.351 40.000 0.00 0.00 0.00 2.77
2667 2897 3.073650 AGACCTCTTTGCCTGATGAAGTT 59.926 43.478 0.00 0.00 0.00 2.66
2769 2999 2.163815 CTCTTTGCCTTCAAGCATCCTG 59.836 50.000 0.00 0.00 43.64 3.86
2930 3160 4.518970 ACACCCACATCATCTGTTAACAAC 59.481 41.667 10.03 0.00 35.29 3.32
2931 3161 3.751175 ACCCACATCATCTGTTAACAACG 59.249 43.478 10.03 0.00 35.29 4.10
2932 3162 3.751175 CCCACATCATCTGTTAACAACGT 59.249 43.478 10.03 0.00 35.29 3.99
2933 3163 4.932799 CCCACATCATCTGTTAACAACGTA 59.067 41.667 10.03 0.00 35.29 3.57
2937 3167 7.201410 CCACATCATCTGTTAACAACGTAGTAC 60.201 40.741 10.03 0.00 35.78 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 82 1.524165 GCCCTCTGCTCTGCATCAG 60.524 63.158 0.00 0.00 38.13 2.90
131 140 1.380246 TGCAACTGGATGGATGCCC 60.380 57.895 0.00 0.00 38.00 5.36
173 182 2.224606 CCCCAAACATGAGATCATCCG 58.775 52.381 0.00 0.00 33.61 4.18
214 226 3.386402 CGGGAAGGAATCTCTAAAGCTCT 59.614 47.826 0.00 0.00 0.00 4.09
319 332 3.418047 GAGGGGAGACTAGCTAGCTAAG 58.582 54.545 24.20 19.19 0.00 2.18
320 333 2.108601 GGAGGGGAGACTAGCTAGCTAA 59.891 54.545 24.20 9.41 0.00 3.09
321 334 1.706305 GGAGGGGAGACTAGCTAGCTA 59.294 57.143 22.85 22.85 0.00 3.32
399 412 1.484356 CCCGGCGATTAAACTAGTCG 58.516 55.000 9.30 0.00 40.34 4.18
477 490 1.177256 ACTCGCCCGGCTATATCGTT 61.177 55.000 8.05 0.00 0.00 3.85
480 493 1.511768 GGACTCGCCCGGCTATATC 59.488 63.158 8.05 0.00 0.00 1.63
514 530 7.603024 GGTCTAACAATAATAATCCTCCCTTCG 59.397 40.741 0.00 0.00 0.00 3.79
521 537 7.502561 GCAACTGGGTCTAACAATAATAATCCT 59.497 37.037 0.00 0.00 0.00 3.24
584 600 2.435938 CGGGTGATGTGTTCCGGG 60.436 66.667 0.00 0.00 38.93 5.73
711 743 3.480133 CCCTACCCGGCTCCCAAG 61.480 72.222 0.00 0.00 0.00 3.61
712 744 3.995809 CTCCCTACCCGGCTCCCAA 62.996 68.421 0.00 0.00 0.00 4.12
724 756 1.304936 CCTCCTTCCCTCCCTCCCTA 61.305 65.000 0.00 0.00 0.00 3.53
738 770 5.441718 TGCAAAGATAATCTTGTCCTCCT 57.558 39.130 0.00 0.00 36.71 3.69
789 828 1.134228 TATAAAACTCCCGCTCCCCC 58.866 55.000 0.00 0.00 0.00 5.40
796 836 5.120208 CAGCGTATGGATTATAAAACTCCCG 59.880 44.000 1.92 0.57 0.00 5.14
815 855 1.830587 TTGAGTCCCTGATGCAGCGT 61.831 55.000 0.00 0.00 0.00 5.07
874 914 4.977347 GCCTTAATCAGAAGCGTACTAGAC 59.023 45.833 0.00 0.00 0.00 2.59
940 980 1.210967 GAGGAGAGGAGAGGAAGACGA 59.789 57.143 0.00 0.00 0.00 4.20
942 982 2.422945 GGAGAGGAGAGGAGAGGAAGAC 60.423 59.091 0.00 0.00 0.00 3.01
945 985 1.850345 GAGGAGAGGAGAGGAGAGGAA 59.150 57.143 0.00 0.00 0.00 3.36
948 988 1.477558 GCAGAGGAGAGGAGAGGAGAG 60.478 61.905 0.00 0.00 0.00 3.20
949 989 0.550914 GCAGAGGAGAGGAGAGGAGA 59.449 60.000 0.00 0.00 0.00 3.71
950 990 0.819259 CGCAGAGGAGAGGAGAGGAG 60.819 65.000 0.00 0.00 0.00 3.69
1014 1054 0.527565 GTTGTGATTGATGCGGGCTT 59.472 50.000 0.00 0.00 0.00 4.35
1020 1060 3.065925 GGCCTAGAAGTTGTGATTGATGC 59.934 47.826 0.00 0.00 0.00 3.91
1021 1061 4.264253 TGGCCTAGAAGTTGTGATTGATG 58.736 43.478 3.32 0.00 0.00 3.07
1032 1072 3.525199 ACCTTGATTCATGGCCTAGAAGT 59.475 43.478 16.40 0.00 32.73 3.01
1046 1086 5.136105 AGAAGCAGAAAACTGACCTTGATT 58.864 37.500 0.00 0.00 0.00 2.57
1134 1210 9.487790 AGTTTTGTTTGTTTCATTTCAGAAGAA 57.512 25.926 0.00 0.00 0.00 2.52
1135 1211 9.487790 AAGTTTTGTTTGTTTCATTTCAGAAGA 57.512 25.926 0.00 0.00 0.00 2.87
1136 1212 9.532697 CAAGTTTTGTTTGTTTCATTTCAGAAG 57.467 29.630 0.00 0.00 0.00 2.85
1250 1337 2.955660 CCTGGGAAAGTTGCAGTTGTTA 59.044 45.455 0.00 0.00 0.00 2.41
1282 1369 2.507471 GGATGAGGATGAGACCAAAGGT 59.493 50.000 0.00 0.00 39.44 3.50
1294 1381 4.664064 AGATCACCAAATGAGGATGAGGAT 59.336 41.667 0.00 0.00 41.91 3.24
1351 1442 4.441415 CACGAAAAGACGGATGCTAGATAC 59.559 45.833 0.00 0.00 37.61 2.24
1352 1443 4.499188 CCACGAAAAGACGGATGCTAGATA 60.499 45.833 0.00 0.00 37.61 1.98
1353 1444 3.448686 CACGAAAAGACGGATGCTAGAT 58.551 45.455 0.00 0.00 37.61 1.98
1354 1445 2.416836 CCACGAAAAGACGGATGCTAGA 60.417 50.000 0.00 0.00 37.61 2.43
1355 1446 1.927174 CCACGAAAAGACGGATGCTAG 59.073 52.381 0.00 0.00 37.61 3.42
1356 1447 2.004583 CCACGAAAAGACGGATGCTA 57.995 50.000 0.00 0.00 37.61 3.49
1357 1448 1.298859 GCCACGAAAAGACGGATGCT 61.299 55.000 0.00 0.00 37.61 3.79
1358 1449 1.134694 GCCACGAAAAGACGGATGC 59.865 57.895 0.00 0.00 37.61 3.91
1359 1450 1.086696 ATGCCACGAAAAGACGGATG 58.913 50.000 0.00 0.00 37.61 3.51
1360 1451 2.684001 TATGCCACGAAAAGACGGAT 57.316 45.000 0.00 0.00 37.61 4.18
1361 1452 2.093921 TGATATGCCACGAAAAGACGGA 60.094 45.455 0.00 0.00 37.61 4.69
1362 1453 2.030457 GTGATATGCCACGAAAAGACGG 59.970 50.000 0.00 0.00 37.61 4.79
1365 1456 5.647658 AGATTTGTGATATGCCACGAAAAGA 59.352 36.000 0.00 0.00 41.99 2.52
1368 1459 5.895636 AAGATTTGTGATATGCCACGAAA 57.104 34.783 0.00 0.00 41.99 3.46
1369 1460 5.414144 TGAAAGATTTGTGATATGCCACGAA 59.586 36.000 0.00 0.00 42.63 3.85
1372 1463 5.039333 GCTGAAAGATTTGTGATATGCCAC 58.961 41.667 0.00 0.00 34.07 5.01
1378 1469 3.269381 AGGGGGCTGAAAGATTTGTGATA 59.731 43.478 0.00 0.00 34.07 2.15
1386 1477 1.009429 AGAGAGAGGGGGCTGAAAGAT 59.991 52.381 0.00 0.00 34.07 2.40
1392 1484 1.631405 CTATCAGAGAGAGGGGGCTG 58.369 60.000 0.00 0.00 0.00 4.85
1394 1486 3.065462 CCTATCAGAGAGAGGGGGC 57.935 63.158 0.00 0.00 37.39 5.80
1410 1502 2.379907 TGAAGAATGAAAAGCCCTCCCT 59.620 45.455 0.00 0.00 0.00 4.20
1414 1512 3.766051 GGATGTGAAGAATGAAAAGCCCT 59.234 43.478 0.00 0.00 0.00 5.19
1417 1515 7.095270 AGATTTGGATGTGAAGAATGAAAAGC 58.905 34.615 0.00 0.00 0.00 3.51
1431 1529 5.515534 GCATCCCTATGGTAGATTTGGATGT 60.516 44.000 14.92 0.00 46.01 3.06
1477 1575 7.712639 TCTGTGAGTAAATGGCTTCTTCATATC 59.287 37.037 0.00 0.00 0.00 1.63
1487 1585 4.081420 AGACGAATCTGTGAGTAAATGGCT 60.081 41.667 0.00 0.00 32.29 4.75
1488 1586 4.184629 AGACGAATCTGTGAGTAAATGGC 58.815 43.478 0.00 0.00 32.29 4.40
1489 1587 6.102663 AGAAGACGAATCTGTGAGTAAATGG 58.897 40.000 0.00 0.00 34.48 3.16
1490 1588 7.543868 AGAAGAAGACGAATCTGTGAGTAAATG 59.456 37.037 0.00 0.00 34.48 2.32
1680 1794 1.273606 GTCTGCAGCTGGAACTCTGTA 59.726 52.381 17.12 0.00 33.59 2.74
1809 1923 1.301677 GGGGCTTGTTCTTGCTCTCG 61.302 60.000 0.00 0.00 0.00 4.04
1866 1980 0.749818 TCTTTTGCTCCACAACGCCA 60.750 50.000 0.00 0.00 38.23 5.69
1941 2055 2.625314 TCTCCCTGCATCTATGTCTTCG 59.375 50.000 0.00 0.00 0.00 3.79
2011 2125 7.150783 AGTTCTTTGAGGTAAGATCAATTGC 57.849 36.000 0.00 0.00 36.60 3.56
2104 2218 8.181904 TCAATTGAACTAAGAAAATCTTGGCT 57.818 30.769 5.45 0.00 38.36 4.75
2162 2276 6.010294 ACATGAGAGTTTGCAGAAATGAAG 57.990 37.500 0.00 0.00 0.00 3.02
2328 2445 9.935241 TTTATACTATGATGATTTGAGAGCTCC 57.065 33.333 10.93 2.40 0.00 4.70
2366 2483 6.062434 TGTTTGGTAACTTGTTTATGACCG 57.938 37.500 0.00 0.00 35.24 4.79
2369 2486 8.356657 CCAAGATGTTTGGTAACTTGTTTATGA 58.643 33.333 0.00 0.00 37.02 2.15
2431 2658 3.633525 GCTGCCCATCTTTCATGTTCATA 59.366 43.478 0.00 0.00 0.00 2.15
2541 2768 9.185192 GATATTACACTGGATTTTGCTTATTGC 57.815 33.333 0.00 0.00 43.25 3.56
2555 2782 9.800433 TGCACAAATAAAATGATATTACACTGG 57.200 29.630 0.00 0.00 0.00 4.00
2559 2786 9.258826 GCCATGCACAAATAAAATGATATTACA 57.741 29.630 0.00 0.00 0.00 2.41
2560 2787 8.427012 CGCCATGCACAAATAAAATGATATTAC 58.573 33.333 0.00 0.00 0.00 1.89
2561 2788 8.140628 ACGCCATGCACAAATAAAATGATATTA 58.859 29.630 0.00 0.00 0.00 0.98
2562 2789 6.985645 ACGCCATGCACAAATAAAATGATATT 59.014 30.769 0.00 0.00 0.00 1.28
2563 2790 6.514947 ACGCCATGCACAAATAAAATGATAT 58.485 32.000 0.00 0.00 0.00 1.63
2564 2791 5.900425 ACGCCATGCACAAATAAAATGATA 58.100 33.333 0.00 0.00 0.00 2.15
2648 2875 2.490903 CCAACTTCATCAGGCAAAGAGG 59.509 50.000 0.00 0.00 0.00 3.69
2649 2876 3.415212 TCCAACTTCATCAGGCAAAGAG 58.585 45.455 0.00 0.00 0.00 2.85
2650 2877 3.415212 CTCCAACTTCATCAGGCAAAGA 58.585 45.455 0.00 0.00 0.00 2.52
2651 2878 2.490903 CCTCCAACTTCATCAGGCAAAG 59.509 50.000 0.00 0.00 0.00 2.77
2652 2879 2.108075 TCCTCCAACTTCATCAGGCAAA 59.892 45.455 0.00 0.00 0.00 3.68
2653 2880 1.704628 TCCTCCAACTTCATCAGGCAA 59.295 47.619 0.00 0.00 0.00 4.52
2654 2881 1.361204 TCCTCCAACTTCATCAGGCA 58.639 50.000 0.00 0.00 0.00 4.75
2655 2882 2.087646 GTTCCTCCAACTTCATCAGGC 58.912 52.381 0.00 0.00 31.50 4.85
2667 2897 9.720769 GGAATATAATCTATTTTCGTTCCTCCA 57.279 33.333 0.00 0.00 32.06 3.86
2708 2938 6.782298 TTCATGTGTAAATTTGCACCAATG 57.218 33.333 29.06 25.53 42.16 2.82
2930 3160 7.328737 GGCAAATTCTGTGGATATAGTACTACG 59.671 40.741 4.31 0.00 0.00 3.51
2931 3161 8.148351 TGGCAAATTCTGTGGATATAGTACTAC 58.852 37.037 4.31 0.00 0.00 2.73
2932 3162 8.257602 TGGCAAATTCTGTGGATATAGTACTA 57.742 34.615 4.77 4.77 0.00 1.82
2933 3163 7.136822 TGGCAAATTCTGTGGATATAGTACT 57.863 36.000 0.00 0.00 0.00 2.73
2937 3167 6.373774 GGAGATGGCAAATTCTGTGGATATAG 59.626 42.308 0.00 0.00 0.00 1.31


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

AutoCloner maintained by Alex Coulton.