Multiple sequence alignment - TraesCS4B01G179800

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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 TraesCS4B01G179800 chr4B 100.000 4749 0 0 1 4749 394377498 394382246 0.000000e+00 8770.0
1 TraesCS4B01G179800 chr4D 97.079 3321 81 6 702 4011 317184037 317187352 0.000000e+00 5581.0
2 TraesCS4B01G179800 chr4D 88.306 744 41 20 4011 4749 317187914 317188616 0.000000e+00 850.0
3 TraesCS4B01G179800 chr4D 93.558 326 19 2 14 338 317182888 317183212 7.150000e-133 484.0
4 TraesCS4B01G179800 chr4D 96.400 250 7 1 362 609 317183300 317183549 1.230000e-110 411.0
5 TraesCS4B01G179800 chr4D 96.721 61 2 0 630 690 317183996 317184056 8.410000e-18 102.0
6 TraesCS4B01G179800 chr4D 100.000 36 0 0 607 642 317183928 317183963 3.070000e-07 67.6
7 TraesCS4B01G179800 chr4A 97.071 3004 72 6 744 3746 157571707 157568719 0.000000e+00 5046.0
8 TraesCS4B01G179800 chr4A 92.597 824 27 14 3736 4547 157568690 157567889 0.000000e+00 1153.0
9 TraesCS4B01G179800 chr4A 89.408 321 26 4 20 338 157572732 157572418 9.580000e-107 398.0
10 TraesCS4B01G179800 chr4A 89.329 328 12 4 361 688 157572014 157571710 1.600000e-104 390.0
11 TraesCS4B01G179800 chr4A 95.722 187 7 1 4561 4747 157567904 157567719 2.780000e-77 300.0
12 TraesCS4B01G179800 chr7A 92.373 944 48 7 3626 4547 347283501 347284442 0.000000e+00 1323.0
13 TraesCS4B01G179800 chr7A 91.045 201 13 2 4549 4746 347284415 347284613 2.820000e-67 267.0
14 TraesCS4B01G179800 chr1A 81.418 409 70 4 998 1401 256708292 256708699 3.540000e-86 329.0
15 TraesCS4B01G179800 chr1A 86.286 175 22 2 3436 3609 256717033 256717206 6.270000e-44 189.0
16 TraesCS4B01G179800 chr1A 77.570 321 47 10 1944 2262 256711713 256712010 2.270000e-38 171.0
17 TraesCS4B01G179800 chr1A 95.349 86 4 0 1862 1947 256711331 256711416 2.300000e-28 137.0
18 TraesCS4B01G179800 chr1A 93.103 87 6 0 2897 2983 256712383 256712469 1.390000e-25 128.0
19 TraesCS4B01G179800 chr1A 84.483 116 18 0 1435 1550 256709078 256709193 1.080000e-21 115.0
20 TraesCS4B01G179800 chr1A 89.552 67 7 0 3049 3115 256713530 256713596 8.470000e-13 86.1
21 TraesCS4B01G179800 chr7B 80.182 439 76 8 971 1401 405068422 405067987 7.670000e-83 318.0
22 TraesCS4B01G179800 chr7B 84.545 220 28 1 3115 3328 405053548 405053329 3.720000e-51 213.0
23 TraesCS4B01G179800 chr7B 79.310 319 51 5 1944 2262 405064634 405064331 4.820000e-50 209.0
24 TraesCS4B01G179800 chr7B 95.699 93 4 0 2320 2412 405061840 405061748 2.960000e-32 150.0
25 TraesCS4B01G179800 chr7B 88.060 67 8 0 3049 3115 405054175 405054109 3.940000e-11 80.5
26 TraesCS4B01G179800 chr1D 83.945 218 27 3 3115 3325 202293174 202293390 8.060000e-48 202.0
27 TraesCS4B01G179800 chr1D 84.571 175 25 2 3436 3609 202296003 202296176 6.320000e-39 172.0
28 TraesCS4B01G179800 chr1D 93.684 95 6 0 2892 2986 202291357 202291451 4.950000e-30 143.0
29 TraesCS4B01G179800 chr1D 91.011 89 7 1 1314 1401 206044139 206044227 8.350000e-23 119.0
30 TraesCS4B01G179800 chr1D 84.483 116 18 0 1435 1550 206044606 206044721 1.080000e-21 115.0


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 TraesCS4B01G179800 chr4B 394377498 394382246 4748 False 8770.000000 8770 100.000000 1 4749 1 chr4B.!!$F1 4748
1 TraesCS4B01G179800 chr4D 317182888 317188616 5728 False 1249.266667 5581 95.344000 14 4749 6 chr4D.!!$F1 4735
2 TraesCS4B01G179800 chr4A 157567719 157572732 5013 True 1457.400000 5046 92.825400 20 4747 5 chr4A.!!$R1 4727
3 TraesCS4B01G179800 chr7A 347283501 347284613 1112 False 795.000000 1323 91.709000 3626 4746 2 chr7A.!!$F1 1120
4 TraesCS4B01G179800 chr7B 405061748 405068422 6674 True 225.666667 318 85.063667 971 2412 3 chr7B.!!$R2 1441

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
178 182 0.041535 AATTCCCATGCTCCAAGCCA 59.958 50.0 0.00 0.0 41.51 4.75 F
783 1601 0.179468 TAGGCGAATAACCACTGGCC 59.821 55.0 0.00 0.0 40.80 5.36 F
1737 4226 0.478072 TGCTGACCCACTTTGGTGAT 59.522 50.0 0.00 0.0 45.61 3.06 F
1771 4260 2.236395 TCTAGCTACTGGGGTTCTTTGC 59.764 50.0 0.00 0.0 0.00 3.68 F
2952 9020 2.364647 TGCTGTGCAGATAGATCCTGAG 59.635 50.0 3.02 0.0 33.32 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1616 4105 0.311790 GCACAACCACCATGACACAG 59.688 55.0 0.0 0.0 0.00 3.66 R
2655 8723 0.318120 GCCTTGGGTCATTTGGTGTG 59.682 55.0 0.0 0.0 0.00 3.82 R
2952 9020 0.599204 TGTTCCACGCTTCTCCGTTC 60.599 55.0 0.0 0.0 39.83 3.95 R
3438 9512 2.780010 CCATAATCCTGAACCCTGGAGT 59.220 50.0 0.0 0.0 42.55 3.85 R
4412 11113 1.243902 GTGCCGGTCAAGGAAAATGA 58.756 50.0 1.9 0.0 0.00 2.57 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
167 171 7.543359 TCATGAACTTTTCTCAAATTCCCAT 57.457 32.000 0.00 0.00 0.00 4.00
178 182 0.041535 AATTCCCATGCTCCAAGCCA 59.958 50.000 0.00 0.00 41.51 4.75
180 184 1.499913 TTCCCATGCTCCAAGCCAGA 61.500 55.000 0.00 0.00 41.51 3.86
309 313 0.899717 ATCCATGCAACAGCCCGTTT 60.900 50.000 0.00 0.00 34.86 3.60
328 332 4.530388 GTTTAGCGGTAAAACAACCTGTC 58.470 43.478 20.44 2.54 37.39 3.51
353 712 4.332683 TCACCCAACTAGAGTAGATGGT 57.667 45.455 0.00 0.59 44.60 3.55
387 772 7.309194 GCAGTTTATTGGTCAAATTAGGTGAGT 60.309 37.037 0.00 0.00 0.00 3.41
604 991 2.025699 TCTTAAAATCCCTTCCACCGGG 60.026 50.000 6.32 0.00 43.38 5.73
644 1412 2.046507 AGAAGAGGCAGCCGCAAG 60.047 61.111 18.51 0.00 41.24 4.01
685 1498 4.294232 CAACAACGAACATGCACCAAATA 58.706 39.130 0.00 0.00 0.00 1.40
686 1499 4.782019 ACAACGAACATGCACCAAATAT 57.218 36.364 0.00 0.00 0.00 1.28
687 1500 4.732784 ACAACGAACATGCACCAAATATC 58.267 39.130 0.00 0.00 0.00 1.63
688 1501 4.104776 CAACGAACATGCACCAAATATCC 58.895 43.478 0.00 0.00 0.00 2.59
689 1502 3.620488 ACGAACATGCACCAAATATCCT 58.380 40.909 0.00 0.00 0.00 3.24
690 1503 3.627577 ACGAACATGCACCAAATATCCTC 59.372 43.478 0.00 0.00 0.00 3.71
691 1504 3.879295 CGAACATGCACCAAATATCCTCT 59.121 43.478 0.00 0.00 0.00 3.69
692 1505 4.336433 CGAACATGCACCAAATATCCTCTT 59.664 41.667 0.00 0.00 0.00 2.85
693 1506 5.163622 CGAACATGCACCAAATATCCTCTTT 60.164 40.000 0.00 0.00 0.00 2.52
694 1507 6.610075 AACATGCACCAAATATCCTCTTTT 57.390 33.333 0.00 0.00 0.00 2.27
695 1508 6.610075 ACATGCACCAAATATCCTCTTTTT 57.390 33.333 0.00 0.00 0.00 1.94
783 1601 0.179468 TAGGCGAATAACCACTGGCC 59.821 55.000 0.00 0.00 40.80 5.36
984 1802 3.322191 AGGCAAAAACCCTAAACCTCA 57.678 42.857 0.00 0.00 0.00 3.86
1171 1989 2.043752 TCGATGCCGGGGACTACA 60.044 61.111 2.18 0.00 36.24 2.74
1214 2032 1.625228 CCCCCACATCTTCCACTCCTA 60.625 57.143 0.00 0.00 0.00 2.94
1254 2072 3.127533 GGCACCCTAGCGCAAGTG 61.128 66.667 11.47 12.36 41.68 3.16
1348 2169 4.629115 GCAGGTGCGCGCTTGTTT 62.629 61.111 33.29 10.45 0.00 2.83
1359 2180 2.617274 GCTTGTTTTCTCCGCGGCT 61.617 57.895 23.51 0.00 0.00 5.52
1477 2657 1.506493 GCATAGTGATCCTGGAAGCG 58.494 55.000 0.00 0.00 0.00 4.68
1616 4105 2.079925 GGACTCCTCTGATTGTTGCAC 58.920 52.381 0.00 0.00 0.00 4.57
1737 4226 0.478072 TGCTGACCCACTTTGGTGAT 59.522 50.000 0.00 0.00 45.61 3.06
1771 4260 2.236395 TCTAGCTACTGGGGTTCTTTGC 59.764 50.000 0.00 0.00 0.00 3.68
1982 5617 5.464168 CCAAATGGTTCTAGTTGCAAAGAG 58.536 41.667 0.00 1.02 0.00 2.85
1996 5631 3.315191 TGCAAAGAGTTCTAAACCAGCAC 59.685 43.478 0.00 0.00 0.00 4.40
2044 5679 2.739943 CAGGACCTCAGAGTGATGGTA 58.260 52.381 0.00 0.00 31.31 3.25
2601 8669 9.201989 TGGGATAATCTAATCTATTGCTATCGT 57.798 33.333 0.00 0.00 0.00 3.73
2655 8723 4.338379 AATAAATACCCGGCTCTCTGTC 57.662 45.455 0.00 0.00 0.00 3.51
2853 8921 6.098367 GCATTGGCATTGAATTCTTTGTAC 57.902 37.500 13.23 3.36 40.72 2.90
2952 9020 2.364647 TGCTGTGCAGATAGATCCTGAG 59.635 50.000 3.02 0.00 33.32 3.35
3250 9324 6.095440 TCAAGAAGCTAAATCCATAAGCAACC 59.905 38.462 0.00 0.00 38.75 3.77
3438 9512 4.847633 CTTTGTTGAAGCAAGTTCGATCA 58.152 39.130 0.00 0.00 38.09 2.92
3886 9999 1.171549 TTTCAGCGCACAATCCAGCA 61.172 50.000 11.47 0.00 0.00 4.41
3903 10016 2.810274 CAGCATGTAGTTGTGAGCACTT 59.190 45.455 1.99 0.00 0.00 3.16
3944 10057 6.823182 TCATGTGTAATCCCAGACTGTATTTG 59.177 38.462 0.93 0.00 0.00 2.32
3961 10075 9.849166 ACTGTATTTGGGAAAAATATTTGTACG 57.151 29.630 0.39 0.00 0.00 3.67
3983 10097 4.803088 CGGTTGCTTCTGTTTGAATGAAAA 59.197 37.500 0.00 0.00 33.71 2.29
4040 10716 5.749462 TCTTTCTCCCAATTCTCCTCATTC 58.251 41.667 0.00 0.00 0.00 2.67
4069 10745 3.676172 GGCACATGAACACAATGATGTTG 59.324 43.478 0.00 0.00 42.89 3.33
4081 10757 4.340666 ACAATGATGTTGTGCAGTACCAAA 59.659 37.500 0.00 0.00 35.91 3.28
4137 10817 8.094829 GAAGGATTTCACTGTCATCATTTGACG 61.095 40.741 1.71 0.00 43.71 4.35
4195 10877 5.164620 TCTTGCATGGACAATCTACTCAA 57.835 39.130 0.00 0.00 0.00 3.02
4196 10878 4.937620 TCTTGCATGGACAATCTACTCAAC 59.062 41.667 0.00 0.00 0.00 3.18
4197 10879 4.558226 TGCATGGACAATCTACTCAACT 57.442 40.909 0.00 0.00 0.00 3.16
4199 10881 6.048732 TGCATGGACAATCTACTCAACTTA 57.951 37.500 0.00 0.00 0.00 2.24
4200 10882 6.653020 TGCATGGACAATCTACTCAACTTAT 58.347 36.000 0.00 0.00 0.00 1.73
4201 10883 6.539826 TGCATGGACAATCTACTCAACTTATG 59.460 38.462 0.00 0.00 0.00 1.90
4202 10884 6.512415 GCATGGACAATCTACTCAACTTATGC 60.512 42.308 0.00 0.00 0.00 3.14
4203 10885 6.048732 TGGACAATCTACTCAACTTATGCA 57.951 37.500 0.00 0.00 0.00 3.96
4204 10886 6.653020 TGGACAATCTACTCAACTTATGCAT 58.347 36.000 3.79 3.79 0.00 3.96
4205 10887 6.539826 TGGACAATCTACTCAACTTATGCATG 59.460 38.462 10.16 0.00 0.00 4.06
4206 10888 6.017605 GGACAATCTACTCAACTTATGCATGG 60.018 42.308 10.16 4.66 0.00 3.66
4207 10889 6.653020 ACAATCTACTCAACTTATGCATGGA 58.347 36.000 10.16 0.00 0.00 3.41
4208 10890 7.285566 ACAATCTACTCAACTTATGCATGGAT 58.714 34.615 10.16 4.68 0.00 3.41
4209 10891 8.432013 ACAATCTACTCAACTTATGCATGGATA 58.568 33.333 10.16 2.31 0.00 2.59
4269 10962 2.931320 GCCCGCTGATAAGGCACTATAC 60.931 54.545 0.00 0.00 46.34 1.47
4300 10993 9.436957 TTTTCCTTAGATTAAGTGCTACTGAAG 57.563 33.333 0.00 0.00 33.96 3.02
4314 11007 4.213482 GCTACTGAAGTAAGTTTGTGGGTG 59.787 45.833 0.00 0.00 0.00 4.61
4315 11008 4.230745 ACTGAAGTAAGTTTGTGGGTGT 57.769 40.909 0.00 0.00 0.00 4.16
4317 11010 4.080526 ACTGAAGTAAGTTTGTGGGTGTCT 60.081 41.667 0.00 0.00 0.00 3.41
4412 11113 5.120054 TGTCATGTTCCATTCCATCTCAT 57.880 39.130 0.00 0.00 0.00 2.90
4506 11207 5.358160 ACATGCCTTTTTAGACTATTCAGCC 59.642 40.000 0.00 0.00 0.00 4.85
4547 11252 6.352516 TGCCTGTTTGGTTATTTGATTGTTT 58.647 32.000 0.00 0.00 38.35 2.83
4548 11253 6.825721 TGCCTGTTTGGTTATTTGATTGTTTT 59.174 30.769 0.00 0.00 38.35 2.43
4549 11254 7.337942 TGCCTGTTTGGTTATTTGATTGTTTTT 59.662 29.630 0.00 0.00 38.35 1.94
4573 11278 7.830940 TTTTTACAGCATGGCTATTTGATTG 57.169 32.000 0.00 0.00 43.62 2.67
4574 11279 6.528537 TTTACAGCATGGCTATTTGATTGT 57.471 33.333 0.00 0.00 43.62 2.71
4575 11280 6.528537 TTACAGCATGGCTATTTGATTGTT 57.471 33.333 0.00 0.00 43.62 2.83
4603 11308 9.136323 ACTGACAAACATTCTCTTTTTATCCTT 57.864 29.630 0.00 0.00 0.00 3.36
4662 11368 5.070580 GCCCATCTGGAGTAGTAATACTGTT 59.929 44.000 7.74 0.00 37.39 3.16
4710 11419 8.322091 ACTTATTAGTTACTGCAGAATCTTGGT 58.678 33.333 23.35 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
113 115 9.434420 TCAAAAGTGTTCACAAATTGAGAAATT 57.566 25.926 7.39 1.69 34.94 1.82
114 116 9.434420 TTCAAAAGTGTTCACAAATTGAGAAAT 57.566 25.926 7.39 0.00 34.94 2.17
125 129 8.034215 AGTTCATGAAATTCAAAAGTGTTCACA 58.966 29.630 10.35 0.00 31.45 3.58
132 136 9.874205 TGAGAAAAGTTCATGAAATTCAAAAGT 57.126 25.926 20.35 2.25 0.00 2.66
167 171 1.078918 CGTCATCTGGCTTGGAGCA 60.079 57.895 2.04 0.00 44.75 4.26
260 264 0.451783 CAAAGTGGCCGGAGCATTAC 59.548 55.000 5.05 0.00 42.56 1.89
309 313 3.181463 ACAGACAGGTTGTTTTACCGCTA 60.181 43.478 0.00 0.00 43.21 4.26
322 326 1.213296 AGTTGGGTGAACAGACAGGT 58.787 50.000 0.00 0.00 36.98 4.00
328 332 5.394663 CCATCTACTCTAGTTGGGTGAACAG 60.395 48.000 0.00 0.00 40.42 3.16
353 712 2.227865 GACCAATAAACTGCGAGCCAAA 59.772 45.455 0.00 0.00 0.00 3.28
387 772 0.324738 TTGGCACCACAAGGACCAAA 60.325 50.000 10.01 0.00 45.28 3.28
604 991 9.903682 TTCTGTACTGTACTGTACTGTTTTATC 57.096 33.333 30.96 16.52 42.22 1.75
653 1466 0.527385 TTCGTTGTTGCTGCCTTTGC 60.527 50.000 0.00 0.00 38.26 3.68
694 1507 8.980596 AGGATATTTGGTGCATATTCTCAAAAA 58.019 29.630 0.00 0.00 32.23 1.94
695 1508 8.537728 AGGATATTTGGTGCATATTCTCAAAA 57.462 30.769 0.00 0.00 32.23 2.44
696 1509 9.288576 CTAGGATATTTGGTGCATATTCTCAAA 57.711 33.333 0.00 0.00 0.00 2.69
697 1510 7.391554 GCTAGGATATTTGGTGCATATTCTCAA 59.608 37.037 0.00 0.00 0.00 3.02
698 1511 6.881065 GCTAGGATATTTGGTGCATATTCTCA 59.119 38.462 0.00 0.00 0.00 3.27
699 1512 6.881065 TGCTAGGATATTTGGTGCATATTCTC 59.119 38.462 0.00 0.00 0.00 2.87
700 1513 6.782986 TGCTAGGATATTTGGTGCATATTCT 58.217 36.000 0.00 0.00 0.00 2.40
701 1514 6.094603 CCTGCTAGGATATTTGGTGCATATTC 59.905 42.308 0.00 0.00 37.67 1.75
702 1515 5.948162 CCTGCTAGGATATTTGGTGCATATT 59.052 40.000 0.00 0.00 37.67 1.28
703 1516 5.503927 CCTGCTAGGATATTTGGTGCATAT 58.496 41.667 0.00 0.00 37.67 1.78
704 1517 4.807303 GCCTGCTAGGATATTTGGTGCATA 60.807 45.833 6.40 0.00 37.67 3.14
705 1518 3.759581 CCTGCTAGGATATTTGGTGCAT 58.240 45.455 0.00 0.00 37.67 3.96
706 1519 2.749466 GCCTGCTAGGATATTTGGTGCA 60.749 50.000 6.40 0.00 37.67 4.57
707 1520 1.882623 GCCTGCTAGGATATTTGGTGC 59.117 52.381 6.40 0.00 37.67 5.01
708 1521 3.144506 CTGCCTGCTAGGATATTTGGTG 58.855 50.000 6.40 0.00 37.67 4.17
709 1522 3.048600 TCTGCCTGCTAGGATATTTGGT 58.951 45.455 6.40 0.00 37.67 3.67
710 1523 3.777106 TCTGCCTGCTAGGATATTTGG 57.223 47.619 6.40 0.00 37.67 3.28
711 1524 4.454678 TGTTCTGCCTGCTAGGATATTTG 58.545 43.478 6.40 0.00 37.67 2.32
712 1525 4.712476 CTGTTCTGCCTGCTAGGATATTT 58.288 43.478 6.40 0.00 37.67 1.40
713 1526 3.495806 GCTGTTCTGCCTGCTAGGATATT 60.496 47.826 6.40 0.00 37.67 1.28
714 1527 2.038295 GCTGTTCTGCCTGCTAGGATAT 59.962 50.000 6.40 0.00 37.67 1.63
715 1528 1.414181 GCTGTTCTGCCTGCTAGGATA 59.586 52.381 6.40 0.00 37.67 2.59
783 1601 2.050350 TCTACGTTCGGGCCTCTGG 61.050 63.158 0.84 0.00 0.00 3.86
941 1759 1.699634 TCCTTTCTCTGGTCCCTGTTG 59.300 52.381 0.00 0.00 0.00 3.33
942 1760 2.118403 TCCTTTCTCTGGTCCCTGTT 57.882 50.000 0.00 0.00 0.00 3.16
1015 1833 1.082392 GGAGGAAGGTGGGGGTAGT 59.918 63.158 0.00 0.00 0.00 2.73
1240 2058 1.214589 CGTACACTTGCGCTAGGGT 59.785 57.895 28.71 28.71 35.53 4.34
1254 2072 2.506438 GCAGTGAGGTCGGCGTAC 60.506 66.667 6.85 3.71 0.00 3.67
1477 2657 1.134946 CGAAGCCCAATCAACCCATTC 59.865 52.381 0.00 0.00 0.00 2.67
1616 4105 0.311790 GCACAACCACCATGACACAG 59.688 55.000 0.00 0.00 0.00 3.66
1717 4206 0.465460 TCACCAAAGTGGGTCAGCAC 60.465 55.000 0.00 0.00 43.37 4.40
1737 4226 5.186021 CCAGTAGCTAGAGACCTTTTCAAGA 59.814 44.000 0.00 0.00 0.00 3.02
1771 4260 1.414181 ACGGCCTTCTCCATCACATAG 59.586 52.381 0.00 0.00 0.00 2.23
1982 5617 3.674997 TCATCAGGTGCTGGTTTAGAAC 58.325 45.455 0.00 0.00 33.79 3.01
1996 5631 2.380941 TGTTGATTGGCCATCATCAGG 58.619 47.619 17.48 0.00 41.82 3.86
2601 8669 4.095782 GCATCAGCAACTTTACCCGATAAA 59.904 41.667 0.00 0.00 41.58 1.40
2655 8723 0.318120 GCCTTGGGTCATTTGGTGTG 59.682 55.000 0.00 0.00 0.00 3.82
2952 9020 0.599204 TGTTCCACGCTTCTCCGTTC 60.599 55.000 0.00 0.00 39.83 3.95
3060 9128 7.562088 ACCTTACTGTAATTTTCCCAAACTTCA 59.438 33.333 0.00 0.00 0.00 3.02
3197 9265 4.330944 TGTGTACCTTGTTCTTCGACAT 57.669 40.909 0.00 0.00 0.00 3.06
3250 9324 5.182570 TCTCTTTGTTTGCATCATCTGAAGG 59.817 40.000 0.00 0.00 0.00 3.46
3438 9512 2.780010 CCATAATCCTGAACCCTGGAGT 59.220 50.000 0.00 0.00 42.55 3.85
3886 9999 6.935741 TTAACAAAGTGCTCACAACTACAT 57.064 33.333 2.63 0.00 0.00 2.29
3944 10057 5.716094 AGCAACCGTACAAATATTTTTCCC 58.284 37.500 0.00 0.00 0.00 3.97
3947 10060 7.430441 ACAGAAGCAACCGTACAAATATTTTT 58.570 30.769 0.00 0.00 0.00 1.94
3961 10075 6.258507 ACATTTTCATTCAAACAGAAGCAACC 59.741 34.615 0.00 0.00 40.15 3.77
4040 10716 2.989909 TGTGTTCATGTGCCATCCTAG 58.010 47.619 0.00 0.00 0.00 3.02
4069 10745 7.377766 TCTCAGAAATAATTTGGTACTGCAC 57.622 36.000 0.00 0.00 0.00 4.57
4137 10817 9.998106 ACCAGTTATATGATATTTGTAGTGGAC 57.002 33.333 12.97 0.00 0.00 4.02
4200 10882 9.311676 ACCACAATTTATCATATTATCCATGCA 57.688 29.630 0.00 0.00 0.00 3.96
4201 10883 9.793252 GACCACAATTTATCATATTATCCATGC 57.207 33.333 0.00 0.00 0.00 4.06
4204 10886 9.013229 GCTGACCACAATTTATCATATTATCCA 57.987 33.333 0.00 0.00 0.00 3.41
4205 10887 9.236006 AGCTGACCACAATTTATCATATTATCC 57.764 33.333 0.00 0.00 0.00 2.59
4207 10889 8.517878 GCAGCTGACCACAATTTATCATATTAT 58.482 33.333 20.43 0.00 0.00 1.28
4208 10890 7.720957 AGCAGCTGACCACAATTTATCATATTA 59.279 33.333 20.43 0.00 0.00 0.98
4209 10891 6.548622 AGCAGCTGACCACAATTTATCATATT 59.451 34.615 20.43 0.00 0.00 1.28
4300 10993 4.700700 AGTACAGACACCCACAAACTTAC 58.299 43.478 0.00 0.00 0.00 2.34
4362 11055 8.264347 TGGCAAACAGAACAGATCAATATACTA 58.736 33.333 0.00 0.00 0.00 1.82
4363 11056 7.112122 TGGCAAACAGAACAGATCAATATACT 58.888 34.615 0.00 0.00 0.00 2.12
4412 11113 1.243902 GTGCCGGTCAAGGAAAATGA 58.756 50.000 1.90 0.00 0.00 2.57
4506 11207 6.645700 ACAGGCAAAAACGCATAAATAATG 57.354 33.333 0.00 0.00 38.74 1.90
4517 11222 5.292101 TCAAATAACCAAACAGGCAAAAACG 59.708 36.000 0.00 0.00 43.14 3.60
4549 11254 7.385267 ACAATCAAATAGCCATGCTGTAAAAA 58.615 30.769 0.00 0.00 40.10 1.94
4550 11255 6.934056 ACAATCAAATAGCCATGCTGTAAAA 58.066 32.000 0.00 0.00 40.10 1.52
4551 11256 6.528537 ACAATCAAATAGCCATGCTGTAAA 57.471 33.333 0.00 0.00 40.10 2.01
4552 11257 6.528537 AACAATCAAATAGCCATGCTGTAA 57.471 33.333 0.00 0.00 40.10 2.41
4553 11258 7.339212 AGTTAACAATCAAATAGCCATGCTGTA 59.661 33.333 8.61 0.00 40.10 2.74
4554 11259 6.153340 AGTTAACAATCAAATAGCCATGCTGT 59.847 34.615 8.61 0.00 40.10 4.40
4555 11260 6.474427 CAGTTAACAATCAAATAGCCATGCTG 59.526 38.462 8.61 0.00 40.10 4.41
4556 11261 6.377996 TCAGTTAACAATCAAATAGCCATGCT 59.622 34.615 8.61 0.00 43.41 3.79
4557 11262 6.473455 GTCAGTTAACAATCAAATAGCCATGC 59.527 38.462 8.61 0.00 0.00 4.06
4558 11263 7.537715 TGTCAGTTAACAATCAAATAGCCATG 58.462 34.615 8.61 0.00 0.00 3.66
4559 11264 7.701539 TGTCAGTTAACAATCAAATAGCCAT 57.298 32.000 8.61 0.00 0.00 4.40
4560 11265 7.517614 TTGTCAGTTAACAATCAAATAGCCA 57.482 32.000 8.61 0.00 34.31 4.75
4561 11266 7.865385 TGTTTGTCAGTTAACAATCAAATAGCC 59.135 33.333 17.90 10.36 38.83 3.93
4562 11267 8.795786 TGTTTGTCAGTTAACAATCAAATAGC 57.204 30.769 17.90 10.58 38.83 2.97
4566 11271 9.515020 GAGAATGTTTGTCAGTTAACAATCAAA 57.485 29.630 8.61 11.94 40.39 2.69
4567 11272 8.902806 AGAGAATGTTTGTCAGTTAACAATCAA 58.097 29.630 8.61 6.79 40.39 2.57
4568 11273 8.450578 AGAGAATGTTTGTCAGTTAACAATCA 57.549 30.769 8.61 0.10 40.92 2.57
4569 11274 9.736023 AAAGAGAATGTTTGTCAGTTAACAATC 57.264 29.630 8.61 0.00 38.83 2.67
4571 11276 9.921637 AAAAAGAGAATGTTTGTCAGTTAACAA 57.078 25.926 8.61 0.00 37.75 2.83
4662 11368 7.238486 AGTAATAACCCATGATTTGCAAACA 57.762 32.000 15.41 14.59 0.00 2.83
4705 11414 4.073293 ACTGAACCAAGTAGTCACCAAG 57.927 45.455 0.00 0.00 0.00 3.61
4710 11419 5.881923 AGGTAAACTGAACCAAGTAGTCA 57.118 39.130 0.00 0.00 39.64 3.41


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

AutoCloner maintained by Alex Coulton.