Multiple sequence alignment - TraesCS3B01G386800

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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 TraesCS3B01G386800 chr3B 100.000 3161 0 0 1 3161 607409413 607406253 0 5838
1 TraesCS3B01G386800 chr3D 89.767 3225 176 71 1 3140 459480709 459477554 0 3986
2 TraesCS3B01G386800 chr3A 88.964 3235 196 50 1 3140 601542137 601545305 0 3847


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 TraesCS3B01G386800 chr3B 607406253 607409413 3160 True 5838 5838 100.000 1 3161 1 chr3B.!!$R1 3160
1 TraesCS3B01G386800 chr3D 459477554 459480709 3155 True 3986 3986 89.767 1 3140 1 chr3D.!!$R1 3139
2 TraesCS3B01G386800 chr3A 601542137 601545305 3168 False 3847 3847 88.964 1 3140 1 chr3A.!!$F1 3139

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
909 963 0.029300 CTCCCAGCAAAACACACACG 59.971 55.0 0.00 0.0 0.0 4.49 F
1477 1570 0.179116 CGATCAGGCTGTGTGGAGAG 60.179 60.0 15.27 0.0 0.0 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2154 2249 0.041488 CACCGATCGCCTACTACGAC 60.041 60.0 10.32 0.0 43.23 4.34 R
3091 3242 0.249398 CTAACCAACTCGGGGACTGG 59.751 60.0 0.00 0.0 40.22 4.00 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
68 69 3.326747 ACGAGTAGCACCTTTCATTCAC 58.673 45.455 0.00 0.00 0.00 3.18
74 75 7.438160 CGAGTAGCACCTTTCATTCACATATAA 59.562 37.037 0.00 0.00 0.00 0.98
75 76 9.277783 GAGTAGCACCTTTCATTCACATATAAT 57.722 33.333 0.00 0.00 0.00 1.28
76 77 9.060347 AGTAGCACCTTTCATTCACATATAATG 57.940 33.333 0.00 0.00 35.98 1.90
78 79 8.701908 AGCACCTTTCATTCACATATAATGAT 57.298 30.769 1.21 0.00 41.62 2.45
79 80 9.797642 AGCACCTTTCATTCACATATAATGATA 57.202 29.630 1.21 0.00 41.62 2.15
122 123 5.241728 CCTTTTTAGGGACTATTGGCTATGC 59.758 44.000 0.00 0.00 42.38 3.14
211 212 4.662278 GGCTTATATGGTAGAATGGGCAA 58.338 43.478 0.00 0.00 0.00 4.52
221 222 1.003464 AGAATGGGCAAAAATGGCACC 59.997 47.619 4.74 0.00 32.36 5.01
222 223 0.769873 AATGGGCAAAAATGGCACCA 59.230 45.000 4.74 0.00 36.50 4.17
304 327 6.561945 TTGTTCAAAAATACACTTTCGTGC 57.438 33.333 0.00 0.00 45.10 5.34
305 328 4.731000 TGTTCAAAAATACACTTTCGTGCG 59.269 37.500 0.00 0.00 45.10 5.34
364 387 4.880759 TCGACCATCAAAATTGTGCAATT 58.119 34.783 4.48 4.48 42.35 2.32
407 432 1.957877 GTCCGGTGAAAAATCAACCCA 59.042 47.619 0.00 0.00 0.00 4.51
438 463 3.611766 TTCTCATCGGAAAGAAGGGTC 57.388 47.619 2.98 0.00 0.00 4.46
442 467 3.173965 TCATCGGAAAGAAGGGTCTTCT 58.826 45.455 4.50 4.50 43.59 2.85
443 468 3.195825 TCATCGGAAAGAAGGGTCTTCTC 59.804 47.826 10.17 0.66 43.59 2.87
461 488 3.272334 CGGCCTCCGCATAGTTGC 61.272 66.667 0.00 0.00 45.78 4.17
486 513 1.757699 TGTTTTTGGAGAAAACGGGGG 59.242 47.619 9.11 0.00 41.62 5.40
505 532 3.893326 GGTTTCCCCTGATTTCCATTG 57.107 47.619 0.00 0.00 0.00 2.82
508 535 2.148446 TCCCCTGATTTCCATTGCTG 57.852 50.000 0.00 0.00 0.00 4.41
542 570 2.218603 AGTTCTTACAAACCACCAGCG 58.781 47.619 0.00 0.00 0.00 5.18
555 583 1.301716 CCAGCGTACAGTTGGTGCT 60.302 57.895 10.78 0.00 45.00 4.40
573 601 4.637534 GGTGCTTGTATTCACATCACTCAT 59.362 41.667 9.17 0.00 38.02 2.90
578 606 6.074623 GCTTGTATTCACATCACTCATAGTCG 60.075 42.308 0.00 0.00 33.76 4.18
584 612 4.031691 CACATCACTCATAGTCGTCTTCG 58.968 47.826 0.00 0.00 38.55 3.79
649 677 0.821517 TTCACGTACGCCATCCATCT 59.178 50.000 16.72 0.00 0.00 2.90
652 680 2.427812 TCACGTACGCCATCCATCTAAA 59.572 45.455 16.72 0.00 0.00 1.85
653 681 3.119065 TCACGTACGCCATCCATCTAAAA 60.119 43.478 16.72 0.00 0.00 1.52
654 682 3.245284 CACGTACGCCATCCATCTAAAAG 59.755 47.826 16.72 0.00 0.00 2.27
655 683 2.221055 CGTACGCCATCCATCTAAAAGC 59.779 50.000 0.52 0.00 0.00 3.51
700 737 2.885266 TGCCAAACATTAGCGGTAAACA 59.115 40.909 11.60 0.00 0.00 2.83
807 849 2.097954 TCTTTTCAGTGCACAACAGCAG 59.902 45.455 21.04 7.57 46.69 4.24
874 923 1.537562 CGACCCTTCTTATACCCACGC 60.538 57.143 0.00 0.00 0.00 5.34
909 963 0.029300 CTCCCAGCAAAACACACACG 59.971 55.000 0.00 0.00 0.00 4.49
967 1021 2.817258 CAGGGCTTTTCATTTCCACGTA 59.183 45.455 0.00 0.00 0.00 3.57
969 1023 2.554893 GGGCTTTTCATTTCCACGTACA 59.445 45.455 0.00 0.00 0.00 2.90
971 1025 3.365969 GGCTTTTCATTTCCACGTACAGG 60.366 47.826 0.00 0.00 0.00 4.00
982 1036 3.396260 CACGTACAGGGGAAGAAAGAA 57.604 47.619 0.00 0.00 0.00 2.52
983 1037 3.735591 CACGTACAGGGGAAGAAAGAAA 58.264 45.455 0.00 0.00 0.00 2.52
1130 1195 1.302511 GTGGCAATGTCGGTGGAGT 60.303 57.895 0.00 0.00 0.00 3.85
1198 1287 4.280461 CTCGTCGTACTACAACATCCATC 58.720 47.826 0.00 0.00 0.00 3.51
1200 1289 2.787680 GTCGTACTACAACATCCATCGC 59.212 50.000 0.00 0.00 0.00 4.58
1255 1344 2.650116 ATCCAGCTCGGCGACAACT 61.650 57.895 4.99 0.17 33.14 3.16
1320 1409 2.559840 CAGCAGCTGTCTTTGCCG 59.440 61.111 16.64 0.00 41.17 5.69
1362 1451 1.662608 CTCCTGCGGCGATCTGTAT 59.337 57.895 12.98 0.00 0.00 2.29
1424 1513 2.728817 CGGCGATCTCCAGGTACC 59.271 66.667 2.73 2.73 0.00 3.34
1425 1514 2.125326 CGGCGATCTCCAGGTACCA 61.125 63.158 15.94 0.00 0.00 3.25
1426 1515 1.442148 GGCGATCTCCAGGTACCAC 59.558 63.158 15.94 0.00 0.00 4.16
1427 1516 1.065928 GCGATCTCCAGGTACCACG 59.934 63.158 15.94 4.36 0.00 4.94
1470 1563 0.806868 ACAATTGCGATCAGGCTGTG 59.193 50.000 15.27 5.16 0.00 3.66
1477 1570 0.179116 CGATCAGGCTGTGTGGAGAG 60.179 60.000 15.27 0.00 0.00 3.20
1480 1573 0.469892 TCAGGCTGTGTGGAGAGTGA 60.470 55.000 15.27 0.00 0.00 3.41
1484 1577 2.079925 GGCTGTGTGGAGAGTGAAATC 58.920 52.381 0.00 0.00 0.00 2.17
1485 1578 2.550855 GGCTGTGTGGAGAGTGAAATCA 60.551 50.000 0.00 0.00 0.00 2.57
1491 1584 3.071457 TGTGGAGAGTGAAATCAAGCTGA 59.929 43.478 0.00 0.00 0.00 4.26
1492 1585 4.260170 GTGGAGAGTGAAATCAAGCTGAT 58.740 43.478 0.00 0.00 39.09 2.90
1493 1586 4.332268 GTGGAGAGTGAAATCAAGCTGATC 59.668 45.833 0.00 0.00 35.76 2.92
1495 1588 5.124645 GGAGAGTGAAATCAAGCTGATCAT 58.875 41.667 0.00 0.00 35.76 2.45
1503 1596 5.814764 AATCAAGCTGATCATCTGTTGTC 57.185 39.130 0.00 0.00 35.76 3.18
1510 1603 4.332268 GCTGATCATCTGTTGTCTTCCTTC 59.668 45.833 0.00 0.00 0.00 3.46
1514 1607 3.261897 TCATCTGTTGTCTTCCTTCCCTC 59.738 47.826 0.00 0.00 0.00 4.30
1515 1608 1.618837 TCTGTTGTCTTCCTTCCCTCG 59.381 52.381 0.00 0.00 0.00 4.63
1641 1734 2.211675 CGATACAGCGCTGAAGAGC 58.788 57.895 42.03 26.31 42.37 4.09
1659 1752 3.617368 GCAAGGAGCGGGTAGAGA 58.383 61.111 0.00 0.00 0.00 3.10
1670 1763 3.008330 GCGGGTAGAGAGATATCGCTTA 58.992 50.000 10.52 3.00 38.82 3.09
1732 1826 1.050988 ACCACCCCGATCTCCATCAG 61.051 60.000 0.00 0.00 0.00 2.90
1781 1876 3.063997 CCACTAACGTCTTGCCATCATTC 59.936 47.826 0.00 0.00 0.00 2.67
1911 2006 1.269998 GAGGCGTCCGATAACAGCTAT 59.730 52.381 0.00 0.00 0.00 2.97
1917 2012 4.379603 GCGTCCGATAACAGCTATGACTAT 60.380 45.833 0.00 0.00 0.00 2.12
1923 2018 1.871080 ACAGCTATGACTATTGCGGC 58.129 50.000 0.00 0.00 39.54 6.53
1995 2090 2.481969 GCAGCATATCAAGGACGACAGA 60.482 50.000 0.00 0.00 0.00 3.41
2007 2102 1.007271 CGACAGAGTCTGCAACGGT 60.007 57.895 20.31 0.00 34.37 4.83
2154 2249 2.738521 CTGTCCGTGAACCTGGCG 60.739 66.667 0.00 0.00 0.00 5.69
2171 2266 1.203563 CGTCGTAGTAGGCGATCGG 59.796 63.158 18.30 0.00 40.59 4.18
2172 2267 1.493950 CGTCGTAGTAGGCGATCGGT 61.494 60.000 18.30 0.00 40.59 4.69
2175 2270 1.162181 CGTAGTAGGCGATCGGTGGA 61.162 60.000 18.30 0.00 0.00 4.02
2176 2271 1.245732 GTAGTAGGCGATCGGTGGAT 58.754 55.000 18.30 0.00 34.96 3.41
2177 2272 1.199558 GTAGTAGGCGATCGGTGGATC 59.800 57.143 18.30 0.00 44.63 3.36
2189 2284 1.069765 GTGGATCGACGGCATGGAT 59.930 57.895 0.00 0.00 0.00 3.41
2438 2544 2.490217 CGATCGCCTTCCTCGTGT 59.510 61.111 0.26 0.00 0.00 4.49
2569 2675 1.149627 TCGTCCAAAACACCCCTGG 59.850 57.895 0.00 0.00 0.00 4.45
2640 2758 3.070878 TGTTTTGCCATTTTCCTTCTCCC 59.929 43.478 0.00 0.00 0.00 4.30
2644 2762 1.478631 CCATTTTCCTTCTCCCCTGC 58.521 55.000 0.00 0.00 0.00 4.85
2768 2898 1.423056 GACGCTTCTGCATGCAGTC 59.577 57.895 39.08 28.31 43.96 3.51
2792 2926 1.201965 GCGCATTTCAGCTCACACTAC 60.202 52.381 0.30 0.00 0.00 2.73
2939 3087 0.600557 GATGGATCGCCGTCTCATCT 59.399 55.000 0.00 0.00 45.15 2.90
2941 3089 0.751643 TGGATCGCCGTCTCATCTCA 60.752 55.000 0.00 0.00 36.79 3.27
2942 3090 0.600557 GGATCGCCGTCTCATCTCAT 59.399 55.000 0.00 0.00 0.00 2.90
2943 3091 1.402194 GGATCGCCGTCTCATCTCATC 60.402 57.143 0.00 0.00 0.00 2.92
2944 3092 0.239613 ATCGCCGTCTCATCTCATCG 59.760 55.000 0.00 0.00 0.00 3.84
2945 3093 2.013483 CGCCGTCTCATCTCATCGC 61.013 63.158 0.00 0.00 0.00 4.58
2946 3094 1.663074 GCCGTCTCATCTCATCGCC 60.663 63.158 0.00 0.00 0.00 5.54
2947 3095 1.735973 CCGTCTCATCTCATCGCCA 59.264 57.895 0.00 0.00 0.00 5.69
2948 3096 0.103026 CCGTCTCATCTCATCGCCAA 59.897 55.000 0.00 0.00 0.00 4.52
2949 3097 1.485397 CGTCTCATCTCATCGCCAAG 58.515 55.000 0.00 0.00 0.00 3.61
2950 3098 1.066152 CGTCTCATCTCATCGCCAAGA 59.934 52.381 0.00 0.00 0.00 3.02
3028 3179 1.230324 ACCTCAGCTTTTTCACGAGC 58.770 50.000 0.00 0.00 39.17 5.03
3068 3219 2.117156 CCTTCTCATTGGCCCTGCG 61.117 63.158 0.00 0.00 0.00 5.18
3070 3221 2.826777 CTTCTCATTGGCCCTGCGGT 62.827 60.000 0.00 0.00 0.00 5.68
3085 3236 2.782615 GGTACGCATGTGAACCGC 59.217 61.111 14.43 0.00 0.00 5.68
3086 3237 2.746803 GGTACGCATGTGAACCGCC 61.747 63.158 14.43 3.69 0.00 6.13
3087 3238 2.435234 TACGCATGTGAACCGCCC 60.435 61.111 14.43 0.00 0.00 6.13
3090 3241 3.499737 GCATGTGAACCGCCCGAG 61.500 66.667 0.00 0.00 0.00 4.63
3091 3242 3.499737 CATGTGAACCGCCCGAGC 61.500 66.667 0.00 0.00 0.00 5.03
3145 3300 4.687215 GGTCAGCTCAGCGGCACA 62.687 66.667 1.45 0.00 34.17 4.57
3146 3301 2.435586 GTCAGCTCAGCGGCACAT 60.436 61.111 1.45 0.00 34.17 3.21
3147 3302 2.435410 TCAGCTCAGCGGCACATG 60.435 61.111 1.45 0.00 34.17 3.21
3148 3303 2.435410 CAGCTCAGCGGCACATGA 60.435 61.111 0.00 0.00 34.17 3.07
3149 3304 2.036571 CAGCTCAGCGGCACATGAA 61.037 57.895 0.00 0.00 34.17 2.57
3150 3305 1.077930 AGCTCAGCGGCACATGAAT 60.078 52.632 0.00 0.00 34.17 2.57
3151 3306 0.679002 AGCTCAGCGGCACATGAATT 60.679 50.000 0.00 0.00 34.17 2.17
3152 3307 0.171903 GCTCAGCGGCACATGAATTT 59.828 50.000 0.00 0.00 0.00 1.82
3153 3308 1.796617 GCTCAGCGGCACATGAATTTC 60.797 52.381 0.00 0.00 0.00 2.17
3154 3309 1.469703 CTCAGCGGCACATGAATTTCA 59.530 47.619 0.00 0.75 0.00 2.69
3155 3310 1.199789 TCAGCGGCACATGAATTTCAC 59.800 47.619 0.00 0.00 0.00 3.18
3156 3311 0.527565 AGCGGCACATGAATTTCACC 59.472 50.000 0.00 0.00 0.00 4.02
3157 3312 0.527565 GCGGCACATGAATTTCACCT 59.472 50.000 0.00 0.00 0.00 4.00
3158 3313 1.733389 GCGGCACATGAATTTCACCTG 60.733 52.381 0.00 0.00 0.00 4.00
3159 3314 1.135315 CGGCACATGAATTTCACCTGG 60.135 52.381 0.00 0.00 0.00 4.45
3160 3315 2.170166 GGCACATGAATTTCACCTGGA 58.830 47.619 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 6.183360 GGTTGCCTGGCTTCTATTTTTATCAT 60.183 38.462 21.03 0.00 0.00 2.45
75 76 5.127031 GGTTGCCTGGCTTCTATTTTTATCA 59.873 40.000 21.03 0.00 0.00 2.15
76 77 5.360999 AGGTTGCCTGGCTTCTATTTTTATC 59.639 40.000 21.03 0.00 29.57 1.75
78 79 4.672899 AGGTTGCCTGGCTTCTATTTTTA 58.327 39.130 21.03 0.00 29.57 1.52
79 80 3.510459 AGGTTGCCTGGCTTCTATTTTT 58.490 40.909 21.03 0.00 29.57 1.94
80 81 3.175438 AGGTTGCCTGGCTTCTATTTT 57.825 42.857 21.03 0.00 29.57 1.82
88 89 1.632589 CCTAAAAAGGTTGCCTGGCT 58.367 50.000 21.03 0.00 32.13 4.75
94 95 4.381612 GCCAATAGTCCCTAAAAAGGTTGC 60.382 45.833 0.00 0.00 0.00 4.17
122 123 2.157668 GTCGTACTGCTGAATTGTGTGG 59.842 50.000 0.00 0.00 0.00 4.17
211 212 2.489329 CGTGAAGAGATGGTGCCATTTT 59.511 45.455 5.08 1.45 36.70 1.82
221 222 4.000331 AGCCATATTCCGTGAAGAGATG 58.000 45.455 0.00 0.00 0.00 2.90
222 223 4.696479 AAGCCATATTCCGTGAAGAGAT 57.304 40.909 0.00 0.00 0.00 2.75
304 327 5.193216 CACAAACTATTCAGATTGATCGCG 58.807 41.667 0.00 0.00 36.85 5.87
305 328 4.966366 GCACAAACTATTCAGATTGATCGC 59.034 41.667 2.19 0.00 36.85 4.58
312 335 6.127814 CCTTGATGTGCACAAACTATTCAGAT 60.128 38.462 25.72 1.57 0.00 2.90
364 387 4.278170 CCAACAAAGAACAGCCTACATGAA 59.722 41.667 0.00 0.00 0.00 2.57
418 443 3.173965 AGACCCTTCTTTCCGATGAGAA 58.826 45.455 0.00 0.00 0.00 2.87
419 444 2.821437 AGACCCTTCTTTCCGATGAGA 58.179 47.619 0.00 0.00 0.00 3.27
427 452 1.676314 GCCGGAGAAGACCCTTCTTTC 60.676 57.143 5.05 6.01 42.53 2.62
432 457 1.990614 GAGGCCGGAGAAGACCCTT 60.991 63.158 5.05 0.00 0.00 3.95
461 488 3.490526 CCGTTTTCTCCAAAAACATGCAG 59.509 43.478 12.34 0.00 39.42 4.41
486 513 2.833943 AGCAATGGAAATCAGGGGAAAC 59.166 45.455 0.00 0.00 0.00 2.78
508 535 5.313712 TGTAAGAACTTCCATCTGGTTTCC 58.686 41.667 0.00 0.00 36.34 3.13
512 539 5.070685 GGTTTGTAAGAACTTCCATCTGGT 58.929 41.667 0.00 0.00 36.34 4.00
519 546 3.004419 GCTGGTGGTTTGTAAGAACTTCC 59.996 47.826 0.00 0.00 0.00 3.46
542 570 4.513692 TGTGAATACAAGCACCAACTGTAC 59.486 41.667 0.00 0.00 32.88 2.90
555 583 6.863275 ACGACTATGAGTGATGTGAATACAA 58.137 36.000 0.00 0.00 40.84 2.41
573 601 3.189287 GTGGAAGGTTACGAAGACGACTA 59.811 47.826 0.00 0.00 42.66 2.59
578 606 3.938289 AGAGTGGAAGGTTACGAAGAC 57.062 47.619 0.00 0.00 0.00 3.01
649 677 3.334583 AGCAGTCGAATCAGGCTTTTA 57.665 42.857 0.00 0.00 0.00 1.52
652 680 2.419297 CCTAAGCAGTCGAATCAGGCTT 60.419 50.000 12.57 12.57 45.78 4.35
653 681 1.137872 CCTAAGCAGTCGAATCAGGCT 59.862 52.381 0.00 0.00 36.13 4.58
654 682 1.576356 CCTAAGCAGTCGAATCAGGC 58.424 55.000 0.00 0.00 0.00 4.85
655 683 1.576356 GCCTAAGCAGTCGAATCAGG 58.424 55.000 0.00 0.00 39.53 3.86
743 780 1.300233 CGCGCACTATTCTCTCCCC 60.300 63.158 8.75 0.00 0.00 4.81
749 786 1.153628 GGGTCACGCGCACTATTCT 60.154 57.895 5.73 0.00 0.00 2.40
874 923 1.685820 GAGGTTGAAGTGGAGGGGG 59.314 63.158 0.00 0.00 0.00 5.40
935 989 3.513750 AAGCCCTGTGGGTGCCTTC 62.514 63.158 4.42 0.00 46.51 3.46
967 1021 1.203063 GGGCTTTCTTTCTTCCCCTGT 60.203 52.381 0.00 0.00 0.00 4.00
969 1023 0.038310 CGGGCTTTCTTTCTTCCCCT 59.962 55.000 0.00 0.00 33.43 4.79
971 1025 1.166129 GACGGGCTTTCTTTCTTCCC 58.834 55.000 0.00 0.00 0.00 3.97
1065 1127 3.083997 GGGATCAGGGTCGGCACT 61.084 66.667 0.00 0.00 0.00 4.40
1130 1195 3.702048 CGGCGAAGGGAGGGAACA 61.702 66.667 0.00 0.00 0.00 3.18
1167 1241 3.386078 TGTAGTACGACGAGGAGTAGGAT 59.614 47.826 0.00 0.00 0.00 3.24
1200 1289 4.219846 GAGTGCGCGCTGATGCTG 62.220 66.667 30.98 0.00 36.97 4.41
1320 1409 3.493303 GGGGAGGAGGACATGGGC 61.493 72.222 0.00 0.00 0.00 5.36
1463 1552 1.131638 TTTCACTCTCCACACAGCCT 58.868 50.000 0.00 0.00 0.00 4.58
1470 1563 3.668447 TCAGCTTGATTTCACTCTCCAC 58.332 45.455 0.00 0.00 0.00 4.02
1477 1570 5.814764 ACAGATGATCAGCTTGATTTCAC 57.185 39.130 11.61 0.00 37.20 3.18
1480 1573 5.944599 AGACAACAGATGATCAGCTTGATTT 59.055 36.000 17.31 4.32 37.20 2.17
1484 1577 4.094590 GGAAGACAACAGATGATCAGCTTG 59.905 45.833 11.61 10.90 0.00 4.01
1485 1578 4.019501 AGGAAGACAACAGATGATCAGCTT 60.020 41.667 11.61 0.00 0.00 3.74
1491 1584 3.848975 AGGGAAGGAAGACAACAGATGAT 59.151 43.478 0.00 0.00 0.00 2.45
1492 1585 3.251484 AGGGAAGGAAGACAACAGATGA 58.749 45.455 0.00 0.00 0.00 2.92
1493 1586 3.604582 GAGGGAAGGAAGACAACAGATG 58.395 50.000 0.00 0.00 0.00 2.90
1495 1588 1.618837 CGAGGGAAGGAAGACAACAGA 59.381 52.381 0.00 0.00 0.00 3.41
1503 1596 0.390472 GTCAGCACGAGGGAAGGAAG 60.390 60.000 0.00 0.00 0.00 3.46
1510 1603 2.163818 TAGTTTTGTCAGCACGAGGG 57.836 50.000 0.00 0.00 0.00 4.30
1514 1607 3.908382 GCTTCATTAGTTTTGTCAGCACG 59.092 43.478 0.00 0.00 0.00 5.34
1515 1608 4.858935 TGCTTCATTAGTTTTGTCAGCAC 58.141 39.130 0.00 0.00 31.22 4.40
1601 1694 1.446272 GACCTTCTGCGAGAACGGG 60.446 63.158 13.42 9.20 40.15 5.28
1643 1736 1.698506 ATCTCTCTACCCGCTCCTTG 58.301 55.000 0.00 0.00 0.00 3.61
1655 1748 4.202121 TGGCGTTTTAAGCGATATCTCTCT 60.202 41.667 5.22 0.00 35.00 3.10
1659 1752 2.870411 GGTGGCGTTTTAAGCGATATCT 59.130 45.455 5.22 0.00 35.00 1.98
1670 1763 0.182775 AGTTCCTCTGGTGGCGTTTT 59.817 50.000 0.00 0.00 0.00 2.43
1717 1810 1.476007 GGGTCTGATGGAGATCGGGG 61.476 65.000 0.00 0.00 35.84 5.73
1902 1997 3.069586 AGCCGCAATAGTCATAGCTGTTA 59.930 43.478 0.00 0.00 0.00 2.41
1911 2006 0.527600 CGCTGTAGCCGCAATAGTCA 60.528 55.000 0.00 0.00 37.91 3.41
1923 2018 2.103042 GTTGCTGGGCTCGCTGTAG 61.103 63.158 2.27 0.00 0.00 2.74
2033 2128 1.737735 CAGTCGCCATTGTCGCTGA 60.738 57.895 5.89 0.00 35.05 4.26
2035 2130 2.434884 CCAGTCGCCATTGTCGCT 60.435 61.111 0.00 0.00 0.00 4.93
2154 2249 0.041488 CACCGATCGCCTACTACGAC 60.041 60.000 10.32 0.00 43.23 4.34
2171 2266 1.069765 ATCCATGCCGTCGATCCAC 59.930 57.895 0.00 0.00 0.00 4.02
2172 2267 1.069596 CATCCATGCCGTCGATCCA 59.930 57.895 0.00 0.00 0.00 3.41
2175 2270 2.383245 GACCCATCCATGCCGTCGAT 62.383 60.000 0.00 0.00 0.00 3.59
2176 2271 3.080765 ACCCATCCATGCCGTCGA 61.081 61.111 0.00 0.00 0.00 4.20
2177 2272 2.588877 GACCCATCCATGCCGTCG 60.589 66.667 0.00 0.00 0.00 5.12
2178 2273 2.588877 CGACCCATCCATGCCGTC 60.589 66.667 0.00 0.00 0.00 4.79
2362 2464 9.742144 TTCTGGCTAAAGGTTACAATAATACAA 57.258 29.630 0.00 0.00 0.00 2.41
2438 2544 6.653320 ACACACAAGTTGTTCTCAAAGTCTAA 59.347 34.615 5.57 0.00 35.67 2.10
2569 2675 1.818785 GCAGGCAGCACTGAGGATC 60.819 63.158 13.41 0.00 44.79 3.36
2768 2898 4.876081 GAGCTGAAATGCGCGCGG 62.876 66.667 33.06 14.04 38.13 6.46
2864 3002 1.508545 CGATCGATCCATCTCCCCG 59.491 63.158 19.51 1.36 0.00 5.73
2865 3003 1.216710 GCGATCGATCCATCTCCCC 59.783 63.158 21.57 0.00 0.00 4.81
3068 3219 2.746803 GGCGGTTCACATGCGTACC 61.747 63.158 0.00 0.00 0.00 3.34
3070 3221 2.435234 GGGCGGTTCACATGCGTA 60.435 61.111 0.00 0.00 0.00 4.42
3087 3238 3.382832 AACTCGGGGACTGGCTCG 61.383 66.667 0.00 0.00 33.92 5.03
3088 3239 2.266055 CAACTCGGGGACTGGCTC 59.734 66.667 0.00 0.00 33.92 4.70
3089 3240 3.322466 CCAACTCGGGGACTGGCT 61.322 66.667 0.00 0.00 33.92 4.75
3090 3241 1.833787 TAACCAACTCGGGGACTGGC 61.834 60.000 0.54 0.00 40.22 4.85
3091 3242 0.249398 CTAACCAACTCGGGGACTGG 59.751 60.000 0.00 0.00 40.22 4.00
3140 3295 2.170166 TCCAGGTGAAATTCATGTGCC 58.830 47.619 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.