Multiple sequence alignment - TraesCS6D01G312900

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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 TraesCS6D01G312900 chr6D 100.000 2736 0 0 1 2736 421889345 421886610 0.000000e+00 5053.0
1 TraesCS6D01G312900 chr6B 88.204 2043 95 72 660 2620 635176860 635174882 0.000000e+00 2303.0
2 TraesCS6D01G312900 chr6B 83.745 486 39 12 75 535 635177601 635177131 9.060000e-115 424.0
3 TraesCS6D01G312900 chr6B 88.281 128 8 3 526 652 635177076 635176955 2.200000e-31 147.0
4 TraesCS6D01G312900 chr6A 91.525 885 30 19 646 1496 564725223 564724350 0.000000e+00 1177.0
5 TraesCS6D01G312900 chr6A 87.834 1011 51 28 1603 2571 564724242 564723262 0.000000e+00 1120.0
6 TraesCS6D01G312900 chr6A 85.630 682 54 20 10 652 564725927 564725251 0.000000e+00 676.0
7 TraesCS6D01G312900 chr6A 93.382 136 8 1 2602 2736 564723259 564723124 1.660000e-47 200.0
8 TraesCS6D01G312900 chr5D 88.434 562 37 9 919 1470 319327027 319327570 0.000000e+00 652.0
9 TraesCS6D01G312900 chr5D 97.403 77 2 0 1646 1722 319327570 319327646 6.150000e-27 132.0
10 TraesCS6D01G312900 chr5D 96.429 56 0 2 997 1051 319326961 319327015 1.040000e-14 91.6
11 TraesCS6D01G312900 chr4B 93.051 331 22 1 1038 1368 629748574 629748903 1.470000e-132 483.0


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 TraesCS6D01G312900 chr6D 421886610 421889345 2735 True 5053.000000 5053 100.000000 1 2736 1 chr6D.!!$R1 2735
1 TraesCS6D01G312900 chr6B 635174882 635177601 2719 True 958.000000 2303 86.743333 75 2620 3 chr6B.!!$R1 2545
2 TraesCS6D01G312900 chr6A 564723124 564725927 2803 True 793.250000 1177 89.592750 10 2736 4 chr6A.!!$R1 2726
3 TraesCS6D01G312900 chr5D 319326961 319327646 685 False 291.866667 652 94.088667 919 1722 3 chr5D.!!$F1 803

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
237 250 0.179076 TGGATCGATCAGCGCACATT 60.179 50.0 25.93 0.0 40.61 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2029 2346 0.313043 ACGCGGATTACGGAGTATGG 59.687 55.0 12.47 0.0 45.21 2.74 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
23 24 4.171005 GACCGTATCGTCAATCAAACTGA 58.829 43.478 0.00 0.00 32.74 3.41
27 28 6.015504 CCGTATCGTCAATCAAACTGAAAAG 58.984 40.000 0.00 0.00 0.00 2.27
29 30 6.950428 CGTATCGTCAATCAAACTGAAAAGAG 59.050 38.462 0.00 0.00 0.00 2.85
30 31 5.095691 TCGTCAATCAAACTGAAAAGAGC 57.904 39.130 0.00 0.00 0.00 4.09
34 35 4.648762 TCAATCAAACTGAAAAGAGCCCAA 59.351 37.500 0.00 0.00 0.00 4.12
58 59 1.640917 AAAGGCCCTGACGAACTAGA 58.359 50.000 0.00 0.00 0.00 2.43
59 60 0.896226 AAGGCCCTGACGAACTAGAC 59.104 55.000 0.00 0.00 0.00 2.59
64 68 1.263356 CCTGACGAACTAGACCCCAA 58.737 55.000 0.00 0.00 0.00 4.12
100 110 4.256920 ACAGAATCTGAATTCGAGTTGGG 58.743 43.478 18.20 0.00 45.01 4.12
116 127 5.701290 CGAGTTGGGTCTCACTATTTTCTTT 59.299 40.000 0.00 0.00 34.46 2.52
118 129 6.842676 AGTTGGGTCTCACTATTTTCTTTCT 58.157 36.000 0.00 0.00 0.00 2.52
149 160 1.018910 CATGCATGTCAAGGATCGCA 58.981 50.000 18.91 0.00 0.00 5.10
157 168 2.224523 TGTCAAGGATCGCAAGGAGTTT 60.225 45.455 0.00 0.00 38.47 2.66
161 172 1.351017 AGGATCGCAAGGAGTTTTCCA 59.649 47.619 0.00 0.00 46.64 3.53
179 190 5.635278 TTCCAGAAGATTCTCCATGCATA 57.365 39.130 0.00 0.00 34.74 3.14
184 195 5.577554 CAGAAGATTCTCCATGCATATCGAG 59.422 44.000 0.00 5.07 34.74 4.04
188 199 4.462508 TTCTCCATGCATATCGAGGATC 57.537 45.455 14.37 0.00 0.00 3.36
208 221 1.641577 GCAGAACCGCGATACTCTTT 58.358 50.000 8.23 0.00 0.00 2.52
212 225 3.060895 CAGAACCGCGATACTCTTTTGAC 59.939 47.826 8.23 0.00 0.00 3.18
227 240 1.904144 TTGACGAACGTGGATCGATC 58.096 50.000 17.36 17.36 42.76 3.69
228 241 0.806241 TGACGAACGTGGATCGATCA 59.194 50.000 25.93 10.23 42.76 2.92
231 244 1.532343 CGAACGTGGATCGATCAGCG 61.532 60.000 27.51 27.51 42.76 5.18
234 247 2.580470 CGTGGATCGATCAGCGCAC 61.580 63.158 25.93 21.16 42.86 5.34
235 248 1.519234 GTGGATCGATCAGCGCACA 60.519 57.895 25.93 11.26 40.61 4.57
236 249 0.877649 GTGGATCGATCAGCGCACAT 60.878 55.000 25.93 0.00 40.61 3.21
237 250 0.179076 TGGATCGATCAGCGCACATT 60.179 50.000 25.93 0.00 40.61 2.71
238 251 0.234106 GGATCGATCAGCGCACATTG 59.766 55.000 25.93 4.71 40.61 2.82
239 252 0.933097 GATCGATCAGCGCACATTGT 59.067 50.000 20.52 0.00 40.61 2.71
347 360 2.972819 GCCCTTCACCCTCTCCACC 61.973 68.421 0.00 0.00 0.00 4.61
404 424 2.433145 CCGTGTGATGCACTCGCT 60.433 61.111 14.33 0.00 45.75 4.93
424 449 4.151867 CGCTAACTAAATTATTCCCGAGGC 59.848 45.833 0.00 0.00 0.00 4.70
490 533 4.553429 CGCATTTTCGACGAAATTTTAGCT 59.447 37.500 22.62 0.00 31.34 3.32
500 543 6.089016 CGACGAAATTTTAGCTAACTGACTGA 59.911 38.462 5.45 0.00 0.00 3.41
528 635 2.550978 ACAAGACACAGAAGAACCGTG 58.449 47.619 0.00 0.00 36.70 4.94
568 677 2.956964 GGATTCAGCGCGTCCGAG 60.957 66.667 8.43 0.00 36.29 4.63
612 724 2.100216 CAAATGCCGCACCGTAGC 59.900 61.111 0.00 0.00 0.00 3.58
657 829 9.442047 TTCTTTGAGCAAAAGTTAAAATTTGGA 57.558 25.926 13.24 2.44 44.83 3.53
878 1117 3.310860 GAAGAAGGCGGCGGAAGGA 62.311 63.158 9.78 0.00 0.00 3.36
967 1219 2.695597 GCCCCCATCCAAATCCCA 59.304 61.111 0.00 0.00 0.00 4.37
973 1225 1.748879 CATCCAAATCCCACGCCGT 60.749 57.895 0.00 0.00 0.00 5.68
1537 1832 9.471702 AGATGAACAACCTCTGAATTATGAAAT 57.528 29.630 0.00 0.00 0.00 2.17
1571 1870 5.272167 TGTTTCTTACCAAACGCGAATAG 57.728 39.130 15.93 0.47 38.85 1.73
1576 1875 6.730960 TCTTACCAAACGCGAATAGATTTT 57.269 33.333 15.93 0.00 0.00 1.82
1587 1886 5.562998 CGCGAATAGATTTTGATTGCTGATC 59.437 40.000 0.00 0.00 35.21 2.92
1628 1928 7.141363 CGATTGGAGTTTTGATCTGACTTTTT 58.859 34.615 0.00 0.00 0.00 1.94
1642 1942 3.532155 TTTTTGGCGGCGGTGCTT 61.532 55.556 9.78 0.00 34.52 3.91
1643 1943 3.492311 TTTTTGGCGGCGGTGCTTC 62.492 57.895 9.78 0.00 34.52 3.86
1741 2046 2.032681 AGCCGCTCCTGAACCAAC 59.967 61.111 0.00 0.00 0.00 3.77
1743 2048 2.429930 CCGCTCCTGAACCAACCA 59.570 61.111 0.00 0.00 0.00 3.67
1744 2049 1.672356 CCGCTCCTGAACCAACCAG 60.672 63.158 0.00 0.00 0.00 4.00
1747 2052 1.455849 CTCCTGAACCAACCAGCCA 59.544 57.895 0.00 0.00 0.00 4.75
1748 2053 0.038744 CTCCTGAACCAACCAGCCAT 59.961 55.000 0.00 0.00 0.00 4.40
1749 2054 0.038166 TCCTGAACCAACCAGCCATC 59.962 55.000 0.00 0.00 0.00 3.51
1750 2055 0.251297 CCTGAACCAACCAGCCATCA 60.251 55.000 0.00 0.00 0.00 3.07
1751 2056 1.619654 CTGAACCAACCAGCCATCAA 58.380 50.000 0.00 0.00 0.00 2.57
1752 2057 1.270550 CTGAACCAACCAGCCATCAAC 59.729 52.381 0.00 0.00 0.00 3.18
1753 2058 1.327303 GAACCAACCAGCCATCAACA 58.673 50.000 0.00 0.00 0.00 3.33
1754 2059 1.686052 GAACCAACCAGCCATCAACAA 59.314 47.619 0.00 0.00 0.00 2.83
1755 2060 1.039856 ACCAACCAGCCATCAACAAC 58.960 50.000 0.00 0.00 0.00 3.32
1756 2061 1.331214 CCAACCAGCCATCAACAACT 58.669 50.000 0.00 0.00 0.00 3.16
1757 2062 1.270550 CCAACCAGCCATCAACAACTC 59.729 52.381 0.00 0.00 0.00 3.01
1758 2063 1.270550 CAACCAGCCATCAACAACTCC 59.729 52.381 0.00 0.00 0.00 3.85
1759 2064 0.606401 ACCAGCCATCAACAACTCCG 60.606 55.000 0.00 0.00 0.00 4.63
1760 2065 0.606401 CCAGCCATCAACAACTCCGT 60.606 55.000 0.00 0.00 0.00 4.69
1761 2066 0.518636 CAGCCATCAACAACTCCGTG 59.481 55.000 0.00 0.00 0.00 4.94
1762 2067 0.606401 AGCCATCAACAACTCCGTGG 60.606 55.000 0.00 0.00 0.00 4.94
1763 2068 0.889186 GCCATCAACAACTCCGTGGT 60.889 55.000 0.00 0.00 0.00 4.16
1840 2153 3.203934 AGAAAAGAATCATCCCTCCCTGG 59.796 47.826 0.00 0.00 0.00 4.45
1943 2259 1.088340 CGCCTTCCACATCTGCTCTG 61.088 60.000 0.00 0.00 0.00 3.35
2029 2346 6.358558 TGTTTATCGTTGAGCAATTCGAAAAC 59.641 34.615 0.00 0.00 35.97 2.43
2122 2444 3.007635 GGCATTGCTTCCGTTAGTAGTT 58.992 45.455 8.82 0.00 0.00 2.24
2140 2462 2.500504 AGTTACCTCCCCTGATTTCGTC 59.499 50.000 0.00 0.00 0.00 4.20
2266 2597 0.182537 TGTTGGCTGGTAGCAGTTGT 59.817 50.000 22.21 0.00 44.75 3.32
2299 2630 5.756195 TCCTCTTGCAAAATAATCGATGG 57.244 39.130 0.00 0.00 0.00 3.51
2331 2663 1.470996 GCCATTGGGTTTGCTCACCA 61.471 55.000 4.53 0.00 38.79 4.17
2375 2708 1.523154 GCCACCCGATCAAGCAACAA 61.523 55.000 0.00 0.00 0.00 2.83
2392 2725 1.802960 ACAACAATCTGAAGCAGCTCG 59.197 47.619 0.00 0.00 0.00 5.03
2428 2787 2.280524 TGACGACCAAGCAACGGG 60.281 61.111 0.00 0.00 0.00 5.28
2470 2840 4.453478 GTGTGTGTGTGTGAATCATGATCT 59.547 41.667 9.06 0.00 0.00 2.75
2476 2846 6.372659 GTGTGTGTGAATCATGATCTAGGTTT 59.627 38.462 9.06 0.00 0.00 3.27
2477 2847 6.942005 TGTGTGTGAATCATGATCTAGGTTTT 59.058 34.615 9.06 0.00 0.00 2.43
2479 2849 8.946085 GTGTGTGAATCATGATCTAGGTTTTTA 58.054 33.333 9.06 0.00 0.00 1.52
2480 2850 9.685276 TGTGTGAATCATGATCTAGGTTTTTAT 57.315 29.630 9.06 0.00 0.00 1.40
2481 2851 9.941664 GTGTGAATCATGATCTAGGTTTTTATG 57.058 33.333 9.06 0.00 0.00 1.90
2482 2852 9.904198 TGTGAATCATGATCTAGGTTTTTATGA 57.096 29.630 9.06 0.00 0.00 2.15
2484 2854 9.342308 TGAATCATGATCTAGGTTTTTATGACC 57.658 33.333 9.06 0.00 37.44 4.02
2485 2855 9.342308 GAATCATGATCTAGGTTTTTATGACCA 57.658 33.333 9.06 0.00 39.71 4.02
2486 2856 8.915057 ATCATGATCTAGGTTTTTATGACCAG 57.085 34.615 1.18 0.00 39.71 4.00
2487 2857 7.282585 TCATGATCTAGGTTTTTATGACCAGG 58.717 38.462 0.00 0.00 39.71 4.45
2502 2872 4.379243 AGGCGACAGGGTTCTGCG 62.379 66.667 0.00 0.00 44.59 5.18
2592 2963 5.180492 TGAAGAGAATTATTTGTTCGGCGTT 59.820 36.000 6.85 0.00 0.00 4.84
2620 2991 5.256474 CCTCTGCAGAGAAAATTCCCTTTA 58.744 41.667 39.34 2.82 44.74 1.85
2631 3002 6.263168 AGAAAATTCCCTTTATCGCGAATGAT 59.737 34.615 15.24 0.00 0.00 2.45
2683 3055 0.538118 CGTATGGGAACGGGAGGAAA 59.462 55.000 0.00 0.00 39.19 3.13
2725 3097 2.183046 GCTGTCCCTCTCTGTCGC 59.817 66.667 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.924073 CAGTTTGATTGACGATACGGTCA 59.076 43.478 0.00 0.00 44.74 4.02
2 3 4.182693 TCAGTTTGATTGACGATACGGT 57.817 40.909 0.00 0.00 0.00 4.83
4 5 6.817396 TCTTTTCAGTTTGATTGACGATACG 58.183 36.000 0.00 0.00 0.00 3.06
6 7 6.128282 GGCTCTTTTCAGTTTGATTGACGATA 60.128 38.462 0.00 0.00 0.00 2.92
7 8 5.335191 GGCTCTTTTCAGTTTGATTGACGAT 60.335 40.000 0.00 0.00 0.00 3.73
8 9 4.024048 GGCTCTTTTCAGTTTGATTGACGA 60.024 41.667 0.00 0.00 0.00 4.20
20 21 5.052481 CCTTTTTCTTTGGGCTCTTTTCAG 58.948 41.667 0.00 0.00 0.00 3.02
23 24 3.433598 GGCCTTTTTCTTTGGGCTCTTTT 60.434 43.478 0.00 0.00 43.62 2.27
27 28 0.321671 GGGCCTTTTTCTTTGGGCTC 59.678 55.000 0.84 0.00 44.54 4.70
29 30 0.035317 CAGGGCCTTTTTCTTTGGGC 59.965 55.000 1.32 0.00 44.43 5.36
30 31 1.344438 GTCAGGGCCTTTTTCTTTGGG 59.656 52.381 1.32 0.00 0.00 4.12
34 35 1.954382 GTTCGTCAGGGCCTTTTTCTT 59.046 47.619 1.32 0.00 0.00 2.52
58 59 2.282783 GCCCGCTGAATTTTGGGGT 61.283 57.895 11.69 0.00 42.19 4.95
59 60 1.825281 TTGCCCGCTGAATTTTGGGG 61.825 55.000 0.00 7.32 42.19 4.96
64 68 1.327303 TTCTGTTGCCCGCTGAATTT 58.673 45.000 0.00 0.00 0.00 1.82
100 110 8.785329 ATCTTCCAGAAAGAAAATAGTGAGAC 57.215 34.615 0.00 0.00 46.85 3.36
149 160 5.073691 TGGAGAATCTTCTGGAAAACTCCTT 59.926 40.000 0.00 0.00 39.65 3.36
157 168 4.515028 ATGCATGGAGAATCTTCTGGAA 57.485 40.909 0.00 0.00 37.73 3.53
161 172 5.337410 CCTCGATATGCATGGAGAATCTTCT 60.337 44.000 19.70 0.00 38.84 2.85
179 190 1.360551 CGGTTCTGCGATCCTCGAT 59.639 57.895 0.00 0.00 43.74 3.59
192 205 2.027688 CGTCAAAAGAGTATCGCGGTTC 59.972 50.000 6.13 0.00 42.67 3.62
196 209 2.283727 CGTTCGTCAAAAGAGTATCGCG 60.284 50.000 0.00 0.00 42.67 5.87
208 221 1.200484 TGATCGATCCACGTTCGTCAA 59.800 47.619 22.31 0.00 41.74 3.18
212 225 1.532343 CGCTGATCGATCCACGTTCG 61.532 60.000 22.31 11.99 41.74 3.95
227 240 4.433283 GCAAAGATTTTACAATGTGCGCTG 60.433 41.667 9.73 0.00 0.00 5.18
228 241 3.674753 GCAAAGATTTTACAATGTGCGCT 59.325 39.130 9.73 0.00 0.00 5.92
231 244 3.480185 CGCGCAAAGATTTTACAATGTGC 60.480 43.478 8.75 0.00 40.01 4.57
234 247 2.660715 TGCGCGCAAAGATTTTACAATG 59.339 40.909 34.66 0.00 0.00 2.82
235 248 2.940147 TGCGCGCAAAGATTTTACAAT 58.060 38.095 34.66 0.00 0.00 2.71
236 249 2.407521 TGCGCGCAAAGATTTTACAA 57.592 40.000 34.66 2.25 0.00 2.41
237 250 2.315011 CTTGCGCGCAAAGATTTTACA 58.685 42.857 41.53 20.13 35.33 2.41
238 251 1.057706 GCTTGCGCGCAAAGATTTTAC 59.942 47.619 41.53 21.52 35.33 2.01
239 252 1.335415 TGCTTGCGCGCAAAGATTTTA 60.335 42.857 41.53 21.61 39.65 1.52
347 360 2.167219 CGGCTAGTGGTGCATCACG 61.167 63.158 23.84 12.25 42.10 4.35
404 424 7.662669 GGTAATGCCTCGGGAATAATTTAGTTA 59.337 37.037 0.00 0.00 0.00 2.24
424 449 7.257722 GTGGATGGACAAATTAGTTGGTAATG 58.742 38.462 0.00 0.00 41.97 1.90
490 533 5.290158 GTCTTGTTTTCACGTCAGTCAGTTA 59.710 40.000 0.00 0.00 0.00 2.24
500 543 4.250464 TCTTCTGTGTCTTGTTTTCACGT 58.750 39.130 0.00 0.00 35.20 4.49
568 677 1.009335 GTTTGAACCGCGGTTGGAC 60.009 57.895 45.58 32.73 38.60 4.02
579 688 2.869233 TTTGAGCTGGCTGTTTGAAC 57.131 45.000 0.00 0.00 0.00 3.18
648 820 3.584834 GCCGTATGCAACTCCAAATTTT 58.415 40.909 0.00 0.00 40.77 1.82
652 824 1.302383 CGGCCGTATGCAACTCCAAA 61.302 55.000 19.50 0.00 43.89 3.28
653 825 1.743623 CGGCCGTATGCAACTCCAA 60.744 57.895 19.50 0.00 43.89 3.53
654 826 2.125310 CGGCCGTATGCAACTCCA 60.125 61.111 19.50 0.00 43.89 3.86
655 827 1.702491 GAACGGCCGTATGCAACTCC 61.702 60.000 34.44 8.38 43.89 3.85
656 828 1.702491 GGAACGGCCGTATGCAACTC 61.702 60.000 34.44 22.87 43.89 3.01
657 829 1.743995 GGAACGGCCGTATGCAACT 60.744 57.895 34.44 14.81 43.89 3.16
878 1117 3.721706 CTCCCTCGGCCTGCCTTT 61.722 66.667 6.60 0.00 0.00 3.11
1538 1833 8.013378 CGTTTGGTAAGAAACAATCGATTACTT 58.987 33.333 10.97 14.90 40.36 2.24
1539 1834 7.515643 CGTTTGGTAAGAAACAATCGATTACT 58.484 34.615 10.97 5.53 40.36 2.24
1540 1835 6.247791 GCGTTTGGTAAGAAACAATCGATTAC 59.752 38.462 10.97 3.36 40.36 1.89
1545 1840 2.900046 CGCGTTTGGTAAGAAACAATCG 59.100 45.455 0.00 0.00 40.68 3.34
1547 1842 4.555348 TTCGCGTTTGGTAAGAAACAAT 57.445 36.364 5.77 0.00 35.86 2.71
1556 1851 6.671614 ATCAAAATCTATTCGCGTTTGGTA 57.328 33.333 5.77 0.00 31.57 3.25
1571 1870 3.611517 CGACGGATCAGCAATCAAAATC 58.388 45.455 0.00 0.00 35.96 2.17
1576 1875 1.878069 CGCGACGGATCAGCAATCA 60.878 57.895 0.00 0.00 35.96 2.57
1599 1898 0.451783 ATCAAAACTCCAATCGCGCC 59.548 50.000 0.00 0.00 0.00 6.53
1640 1940 2.354259 GTCATCTGCAGGGAAGTGAAG 58.646 52.381 15.13 0.00 0.00 3.02
1641 1941 1.003580 GGTCATCTGCAGGGAAGTGAA 59.996 52.381 15.13 0.00 0.00 3.18
1642 1942 0.615331 GGTCATCTGCAGGGAAGTGA 59.385 55.000 15.13 8.06 0.00 3.41
1643 1943 0.393537 GGGTCATCTGCAGGGAAGTG 60.394 60.000 15.13 5.82 0.00 3.16
1644 1944 1.903877 CGGGTCATCTGCAGGGAAGT 61.904 60.000 15.13 0.00 0.00 3.01
1741 2046 0.606401 ACGGAGTTGTTGATGGCTGG 60.606 55.000 0.00 0.00 37.78 4.85
1743 2048 0.606401 CCACGGAGTTGTTGATGGCT 60.606 55.000 0.00 0.00 41.61 4.75
1744 2049 0.889186 ACCACGGAGTTGTTGATGGC 60.889 55.000 0.00 0.00 41.61 4.40
1747 2052 1.938016 GCGTACCACGGAGTTGTTGAT 60.938 52.381 0.44 0.00 41.61 2.57
1748 2053 0.598158 GCGTACCACGGAGTTGTTGA 60.598 55.000 0.44 0.00 41.61 3.18
1749 2054 1.562575 GGCGTACCACGGAGTTGTTG 61.563 60.000 0.44 0.00 41.61 3.33
1750 2055 1.301165 GGCGTACCACGGAGTTGTT 60.301 57.895 0.44 0.00 41.61 2.83
1751 2056 2.341176 GGCGTACCACGGAGTTGT 59.659 61.111 0.44 0.00 41.61 3.32
1752 2057 2.340809 TGGCGTACCACGGAGTTG 59.659 61.111 0.44 0.00 41.61 3.16
1897 2213 4.377370 TCGTCCGACGACACCTAA 57.623 55.556 19.51 0.00 46.73 2.69
1943 2259 1.506493 CTAGTCCAAGATGCGATGCC 58.494 55.000 0.00 0.00 0.00 4.40
2029 2346 0.313043 ACGCGGATTACGGAGTATGG 59.687 55.000 12.47 0.00 45.21 2.74
2122 2444 1.108776 CGACGAAATCAGGGGAGGTA 58.891 55.000 0.00 0.00 0.00 3.08
2140 2462 6.921857 ACAGGGATGTCGAAATTATTACTACG 59.078 38.462 0.00 0.00 0.00 3.51
2217 2544 3.601435 TCAATTCCAGGAACGCGAATTA 58.399 40.909 15.93 0.00 38.32 1.40
2266 2597 2.653726 TGCAAGAGGAAGAAGCAACAA 58.346 42.857 0.00 0.00 31.42 2.83
2299 2630 2.198287 AATGGCAGCATCCATCGCC 61.198 57.895 9.76 0.00 45.64 5.54
2375 2708 1.023513 GGCGAGCTGCTTCAGATTGT 61.024 55.000 2.53 0.00 45.43 2.71
2392 2725 0.179034 AGATGAGGCAAAGGATCGGC 60.179 55.000 0.00 0.00 0.00 5.54
2442 2801 5.126396 TGATTCACACACACACACAAAAA 57.874 34.783 0.00 0.00 0.00 1.94
2461 2831 7.941238 CCTGGTCATAAAAACCTAGATCATGAT 59.059 37.037 8.25 8.25 37.69 2.45
2470 2840 3.008157 TGTCGCCTGGTCATAAAAACCTA 59.992 43.478 0.00 0.00 37.69 3.08
2476 2846 0.251916 CCCTGTCGCCTGGTCATAAA 59.748 55.000 0.00 0.00 0.00 1.40
2477 2847 0.907704 ACCCTGTCGCCTGGTCATAA 60.908 55.000 0.00 0.00 0.00 1.90
2479 2849 2.185310 GAACCCTGTCGCCTGGTCAT 62.185 60.000 0.00 0.00 0.00 3.06
2480 2850 2.847234 AACCCTGTCGCCTGGTCA 60.847 61.111 0.00 0.00 0.00 4.02
2481 2851 2.047179 GAACCCTGTCGCCTGGTC 60.047 66.667 0.00 0.00 0.00 4.02
2482 2852 2.526873 AGAACCCTGTCGCCTGGT 60.527 61.111 0.00 0.00 0.00 4.00
2483 2853 2.046892 CAGAACCCTGTCGCCTGG 60.047 66.667 0.00 0.00 35.70 4.45
2484 2854 2.743928 GCAGAACCCTGTCGCCTG 60.744 66.667 0.00 0.00 42.35 4.85
2485 2855 4.379243 CGCAGAACCCTGTCGCCT 62.379 66.667 0.00 0.00 42.35 5.52
2486 2856 4.681978 ACGCAGAACCCTGTCGCC 62.682 66.667 0.00 0.00 42.35 5.54
2487 2857 3.112709 GACGCAGAACCCTGTCGC 61.113 66.667 0.00 0.00 42.35 5.19
2502 2872 2.683867 TCCTCCTTTCTCGAATCTCGAC 59.316 50.000 0.00 0.00 44.82 4.20
2515 2886 0.246635 CCGTGTCGTCATCCTCCTTT 59.753 55.000 0.00 0.00 0.00 3.11
2592 2963 1.434188 TTTTCTCTGCAGAGGGGTGA 58.566 50.000 36.92 19.51 42.30 4.02
2620 2991 0.250038 CCTGTCCCATCATTCGCGAT 60.250 55.000 10.88 0.00 0.00 4.58
2631 3002 3.249189 GGACCACAGCCTGTCCCA 61.249 66.667 0.00 0.00 44.32 4.37
2683 3055 1.205893 GAAACCTGCTCTCCATCTCGT 59.794 52.381 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.