Multiple sequence alignment - TraesCS2D01G352100

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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 TraesCS2D01G352100 chr2D 100.000 3842 0 0 1 3842 450369542 450373383 0.000000e+00 7095.0
1 TraesCS2D01G352100 chr2B 92.857 3892 201 41 1 3840 530410150 530414016 0.000000e+00 5576.0
2 TraesCS2D01G352100 chr2B 80.556 108 19 1 613 718 104897527 104897420 8.850000e-12 82.4
3 TraesCS2D01G352100 chr2A 94.247 2642 111 15 1222 3842 599167672 599165051 0.000000e+00 3999.0
4 TraesCS2D01G352100 chr2A 94.359 390 10 6 835 1216 599168369 599167984 4.280000e-164 588.0
5 TraesCS2D01G352100 chr1B 73.222 661 129 35 89 718 422549395 422548752 3.030000e-46 196.0
6 TraesCS2D01G352100 chr4D 72.714 667 138 37 94 738 698306 697662 2.360000e-42 183.0
7 TraesCS2D01G352100 chr4A 72.647 680 136 40 89 738 210956263 210955604 3.050000e-41 180.0
8 TraesCS2D01G352100 chr4A 72.621 683 128 46 89 738 945502 944846 1.840000e-38 171.0
9 TraesCS2D01G352100 chr7D 76.048 334 57 16 423 738 139186782 139187110 6.650000e-33 152.0
10 TraesCS2D01G352100 chr5B 78.916 166 28 6 581 741 493289659 493289822 5.250000e-19 106.0
11 TraesCS2D01G352100 chr3B 94.915 59 2 1 661 718 708361168 708361226 1.470000e-14 91.6
12 TraesCS2D01G352100 chr7A 88.732 71 7 1 668 738 731137273 731137342 6.840000e-13 86.1
13 TraesCS2D01G352100 chr7A 97.059 34 1 0 1069 1102 3411492 3411525 1.490000e-04 58.4
14 TraesCS2D01G352100 chr7A 96.774 31 1 0 212 242 718272984 718272954 7.000000e-03 52.8


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 TraesCS2D01G352100 chr2D 450369542 450373383 3841 False 7095.0 7095 100.000 1 3842 1 chr2D.!!$F1 3841
1 TraesCS2D01G352100 chr2B 530410150 530414016 3866 False 5576.0 5576 92.857 1 3840 1 chr2B.!!$F1 3839
2 TraesCS2D01G352100 chr2A 599165051 599168369 3318 True 2293.5 3999 94.303 835 3842 2 chr2A.!!$R1 3007

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
934 981 0.244721 CAGTCCATCTCGCACAGTGA 59.755 55.0 4.15 0.0 0.00 3.41 F
1743 2107 0.391661 ACGAGCTTGATGATGCCGTT 60.392 50.0 8.31 0.0 34.39 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 2464 0.178967 TCACAATCCTGCAAAGGCCA 60.179 50.0 5.01 0.00 40.13 5.36 R
2954 3329 0.539051 CCCTAGGGTCAGAACTGCAG 59.461 60.0 20.88 13.48 0.00 4.41 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
168 173 9.687210 CTCTTTGTGATCATTTTTCAAATCTGA 57.313 29.630 0.00 0.00 0.00 3.27
293 298 8.990163 ATCCTTGAACTCCTTTTAGTTTAACA 57.010 30.769 0.00 0.00 39.78 2.41
294 299 8.810990 TCCTTGAACTCCTTTTAGTTTAACAA 57.189 30.769 0.00 0.00 39.78 2.83
295 300 9.245481 TCCTTGAACTCCTTTTAGTTTAACAAA 57.755 29.630 0.00 0.00 39.78 2.83
335 340 5.086104 AGATAACCGCTTTTCTGAGCTAA 57.914 39.130 0.00 0.00 40.52 3.09
336 341 5.675538 AGATAACCGCTTTTCTGAGCTAAT 58.324 37.500 0.00 0.00 40.52 1.73
338 343 7.272978 AGATAACCGCTTTTCTGAGCTAATAA 58.727 34.615 0.00 0.00 40.52 1.40
340 345 6.759497 AACCGCTTTTCTGAGCTAATAATT 57.241 33.333 0.00 0.00 40.52 1.40
347 352 7.467947 GCTTTTCTGAGCTAATAATTGGGAGAC 60.468 40.741 0.00 0.00 39.57 3.36
348 353 6.814954 TTCTGAGCTAATAATTGGGAGACT 57.185 37.500 0.00 0.00 0.00 3.24
354 359 7.888021 TGAGCTAATAATTGGGAGACTGAAAAA 59.112 33.333 0.00 0.00 0.00 1.94
433 438 2.789893 CTCCTCTTGCGAGCGTTATAAC 59.210 50.000 5.47 5.47 35.90 1.89
445 450 6.237755 GCGAGCGTTATAACAACAATTCTACT 60.238 38.462 15.67 0.00 0.00 2.57
494 499 1.063567 AGGCTTAAACAACCACCACCA 60.064 47.619 0.00 0.00 0.00 4.17
496 501 2.223947 GGCTTAAACAACCACCACCAAG 60.224 50.000 0.00 0.00 0.00 3.61
497 502 2.223947 GCTTAAACAACCACCACCAAGG 60.224 50.000 0.00 0.00 45.67 3.61
510 525 1.876799 CACCAAGGTCGCAATGTGTAA 59.123 47.619 0.00 0.00 0.00 2.41
512 527 2.292292 ACCAAGGTCGCAATGTGTAAAC 59.708 45.455 0.00 0.00 0.00 2.01
533 548 0.804156 CACCACAAACGCACCAAACC 60.804 55.000 0.00 0.00 0.00 3.27
547 562 1.740025 CCAAACCGCTCCATTCTCTTC 59.260 52.381 0.00 0.00 0.00 2.87
549 564 2.675348 CAAACCGCTCCATTCTCTTCTC 59.325 50.000 0.00 0.00 0.00 2.87
559 574 6.237969 GCTCCATTCTCTTCTCGAACAAATAC 60.238 42.308 0.00 0.00 0.00 1.89
569 584 5.944013 TCTCGAACAAATACTGTCTCTGAG 58.056 41.667 0.00 0.00 37.23 3.35
582 597 2.125912 CTGAGAGCAACCCGGACG 60.126 66.667 0.73 0.00 0.00 4.79
629 644 8.602472 TCCATAACATAATTAAAACCCAAGCT 57.398 30.769 0.00 0.00 0.00 3.74
705 720 6.049955 AGAATTAATCCCACGAGTGAAGAA 57.950 37.500 4.59 0.00 0.00 2.52
711 726 2.733593 ACGAGTGAAGAACGGCGC 60.734 61.111 6.90 0.00 35.66 6.53
736 751 4.243270 CGAAACCAGTGTTACCCTTCTAG 58.757 47.826 0.00 0.00 33.30 2.43
737 752 4.262335 CGAAACCAGTGTTACCCTTCTAGT 60.262 45.833 0.00 0.00 33.30 2.57
738 753 4.886496 AACCAGTGTTACCCTTCTAGTC 57.114 45.455 0.00 0.00 31.36 2.59
774 821 7.861629 TGATCCATAGTTTTATCTTGTCCACT 58.138 34.615 0.00 0.00 0.00 4.00
779 826 7.010183 CCATAGTTTTATCTTGTCCACTGTACG 59.990 40.741 0.00 0.00 0.00 3.67
784 831 7.789273 TTTATCTTGTCCACTGTACGAAAAA 57.211 32.000 0.00 0.00 0.00 1.94
794 841 4.510340 CACTGTACGAAAAAGTAGCACCTT 59.490 41.667 0.00 0.00 0.00 3.50
795 842 5.007332 CACTGTACGAAAAAGTAGCACCTTT 59.993 40.000 0.00 0.00 36.23 3.11
796 843 5.007332 ACTGTACGAAAAAGTAGCACCTTTG 59.993 40.000 0.00 0.00 34.94 2.77
797 844 4.877251 TGTACGAAAAAGTAGCACCTTTGT 59.123 37.500 0.00 0.00 34.94 2.83
798 845 4.976224 ACGAAAAAGTAGCACCTTTGTT 57.024 36.364 0.00 0.41 34.94 2.83
799 846 5.319140 ACGAAAAAGTAGCACCTTTGTTT 57.681 34.783 0.00 0.00 34.94 2.83
800 847 5.716094 ACGAAAAAGTAGCACCTTTGTTTT 58.284 33.333 0.00 0.00 34.94 2.43
801 848 6.160684 ACGAAAAAGTAGCACCTTTGTTTTT 58.839 32.000 0.00 0.00 34.94 1.94
802 849 6.090223 ACGAAAAAGTAGCACCTTTGTTTTTG 59.910 34.615 0.00 0.00 34.94 2.44
803 850 6.090223 CGAAAAAGTAGCACCTTTGTTTTTGT 59.910 34.615 1.89 0.00 34.94 2.83
804 851 6.961359 AAAAGTAGCACCTTTGTTTTTGTC 57.039 33.333 1.89 0.00 34.94 3.18
805 852 5.914898 AAGTAGCACCTTTGTTTTTGTCT 57.085 34.783 0.00 0.00 0.00 3.41
806 853 5.500645 AGTAGCACCTTTGTTTTTGTCTC 57.499 39.130 0.00 0.00 0.00 3.36
807 854 4.947388 AGTAGCACCTTTGTTTTTGTCTCA 59.053 37.500 0.00 0.00 0.00 3.27
808 855 4.799564 AGCACCTTTGTTTTTGTCTCAA 57.200 36.364 0.00 0.00 0.00 3.02
809 856 5.146010 AGCACCTTTGTTTTTGTCTCAAA 57.854 34.783 0.00 0.00 0.00 2.69
810 857 5.546526 AGCACCTTTGTTTTTGTCTCAAAA 58.453 33.333 3.93 3.93 32.06 2.44
811 858 5.994668 AGCACCTTTGTTTTTGTCTCAAAAA 59.005 32.000 13.87 13.87 32.06 1.94
897 944 1.739338 CTTCGTGGGCTAGATCGGCT 61.739 60.000 12.11 0.00 0.00 5.52
934 981 0.244721 CAGTCCATCTCGCACAGTGA 59.755 55.000 4.15 0.00 0.00 3.41
1110 1165 2.043450 CTCCTCCTCGCCACCTCT 60.043 66.667 0.00 0.00 0.00 3.69
1132 1187 2.193248 CCTTCCGCCCAGATTCCC 59.807 66.667 0.00 0.00 0.00 3.97
1367 1731 2.125673 GCGCGAGGCTAAGTCCAA 60.126 61.111 12.10 0.00 39.11 3.53
1710 2074 4.003648 AGTTCGAGATGTCCAACCAATTC 58.996 43.478 0.00 0.00 0.00 2.17
1743 2107 0.391661 ACGAGCTTGATGATGCCGTT 60.392 50.000 8.31 0.00 34.39 4.44
1965 2329 3.641436 ACATCCTATATGTCAAGCGACCA 59.359 43.478 0.00 0.00 41.85 4.02
2100 2464 3.576982 TCATTCAGACGACCTACTTTGGT 59.423 43.478 0.00 0.00 44.10 3.67
2130 2494 1.508088 GATTGTGAAGGCAAGCCCG 59.492 57.895 7.62 0.00 39.21 6.13
2253 2617 0.763604 TCCACCCGTACACCAAGGAA 60.764 55.000 0.00 0.00 0.00 3.36
2406 2779 7.524717 TGATACTGAGGATGACGATTATGAA 57.475 36.000 0.00 0.00 0.00 2.57
2421 2794 5.694006 CGATTATGAAGATGAGGAAGTGGTC 59.306 44.000 0.00 0.00 0.00 4.02
2545 2918 6.434028 TGATAAAATGGAGAAACTGGTCAAGG 59.566 38.462 0.00 0.00 0.00 3.61
2565 2938 5.104259 AGGACAGGGTTGAGAAATCATAC 57.896 43.478 0.00 0.00 0.00 2.39
2617 2990 6.513884 GCAGAAAGATATGGAATCGCAAATGA 60.514 38.462 0.00 0.00 0.00 2.57
2619 2992 6.994496 AGAAAGATATGGAATCGCAAATGAGA 59.006 34.615 0.00 0.00 0.00 3.27
2901 3274 4.142381 GCACAAACAAGGTTCTGAAGAAGT 60.142 41.667 0.00 0.00 34.27 3.01
2932 3305 9.702253 TCCTTGGTTATTTACAATATTTAGCCA 57.298 29.630 0.00 0.00 0.00 4.75
2954 3329 6.234177 CCATATTTAGGGGTGTTGATCTCTC 58.766 44.000 0.00 0.00 0.00 3.20
2957 3332 0.908198 AGGGGTGTTGATCTCTCTGC 59.092 55.000 0.00 0.00 0.00 4.26
2966 3341 3.865011 TGATCTCTCTGCAGTTCTGAC 57.135 47.619 14.67 3.89 0.00 3.51
3067 3455 1.897560 GGTTCTCCCCAGTGAAGTTG 58.102 55.000 0.00 0.00 0.00 3.16
3077 3465 2.290260 CCAGTGAAGTTGGAGTATGGCA 60.290 50.000 0.00 0.00 37.96 4.92
3078 3466 2.744202 CAGTGAAGTTGGAGTATGGCAC 59.256 50.000 0.00 0.00 0.00 5.01
3079 3467 2.639839 AGTGAAGTTGGAGTATGGCACT 59.360 45.455 0.00 0.00 41.47 4.40
3080 3468 3.838317 AGTGAAGTTGGAGTATGGCACTA 59.162 43.478 0.00 0.00 37.72 2.74
3082 3470 4.572389 GTGAAGTTGGAGTATGGCACTATG 59.428 45.833 0.00 0.00 37.72 2.23
3083 3471 3.845781 AGTTGGAGTATGGCACTATGG 57.154 47.619 0.00 0.00 37.72 2.74
3084 3472 2.158755 AGTTGGAGTATGGCACTATGGC 60.159 50.000 0.00 0.00 44.03 4.40
3086 3474 2.126882 TGGAGTATGGCACTATGGCTT 58.873 47.619 3.90 0.21 44.10 4.35
3087 3475 3.313791 TGGAGTATGGCACTATGGCTTA 58.686 45.455 3.90 0.00 44.10 3.09
3088 3476 3.324846 TGGAGTATGGCACTATGGCTTAG 59.675 47.826 5.91 5.91 44.10 2.18
3089 3477 3.325135 GGAGTATGGCACTATGGCTTAGT 59.675 47.826 7.21 7.21 44.10 2.24
3090 3478 4.202367 GGAGTATGGCACTATGGCTTAGTT 60.202 45.833 10.11 0.00 44.10 2.24
3091 3479 4.962155 AGTATGGCACTATGGCTTAGTTC 58.038 43.478 10.11 6.05 44.10 3.01
3092 3480 4.656112 AGTATGGCACTATGGCTTAGTTCT 59.344 41.667 10.11 0.00 44.10 3.01
3093 3481 3.266510 TGGCACTATGGCTTAGTTCTG 57.733 47.619 10.11 1.99 44.10 3.02
3094 3482 2.837591 TGGCACTATGGCTTAGTTCTGA 59.162 45.455 10.11 0.00 44.10 3.27
3154 3547 8.462143 AACAACTGTTACTATCTAATGTGACG 57.538 34.615 0.00 0.00 36.32 4.35
3155 3548 7.823665 ACAACTGTTACTATCTAATGTGACGA 58.176 34.615 0.00 0.00 0.00 4.20
3229 3622 3.007182 CAGAATGCCCAACCAAAACTCAT 59.993 43.478 0.00 0.00 0.00 2.90
3261 3654 1.327303 CCACAAAGGCCTACAGCAAA 58.673 50.000 5.16 0.00 46.50 3.68
3303 3696 5.627040 GCTGCTAAACTATAGGGTGACTGTT 60.627 44.000 4.43 0.00 0.00 3.16
3319 3712 4.222810 TGACTGTTCTAGGCAATCTGCTTA 59.777 41.667 0.00 0.00 42.98 3.09
3320 3713 4.508662 ACTGTTCTAGGCAATCTGCTTAC 58.491 43.478 0.00 0.00 44.28 2.34
3324 3717 4.760530 TCTAGGCAATCTGCTTACACAT 57.239 40.909 0.00 0.00 44.28 3.21
3331 3724 7.879070 AGGCAATCTGCTTACACATATAAATG 58.121 34.615 0.00 0.00 44.28 2.32
3332 3725 6.583806 GGCAATCTGCTTACACATATAAATGC 59.416 38.462 0.00 0.00 44.28 3.56
3333 3726 7.140705 GCAATCTGCTTACACATATAAATGCA 58.859 34.615 0.00 0.00 40.96 3.96
3382 3781 6.325919 TGGCAATTAAGTGTTTAACTCAGG 57.674 37.500 4.65 0.00 38.56 3.86
3573 3975 9.487442 AATTAACATGATTTTTAGCTTCCCCTA 57.513 29.630 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
321 326 6.543831 TCTCCCAATTATTAGCTCAGAAAAGC 59.456 38.462 0.00 0.00 42.82 3.51
354 359 7.408756 TTGCTCCTCTTGTGCATTTAATATT 57.591 32.000 0.00 0.00 42.57 1.28
356 361 6.658816 TCTTTGCTCCTCTTGTGCATTTAATA 59.341 34.615 0.00 0.00 42.57 0.98
363 368 1.141657 ACTCTTTGCTCCTCTTGTGCA 59.858 47.619 0.00 0.00 41.44 4.57
365 370 3.117491 TGACTCTTTGCTCCTCTTGTG 57.883 47.619 0.00 0.00 0.00 3.33
368 373 2.371510 AGCTTGACTCTTTGCTCCTCTT 59.628 45.455 0.00 0.00 0.00 2.85
433 438 5.916883 CCAAGCTGAAACAGTAGAATTGTTG 59.083 40.000 0.00 0.00 38.67 3.33
445 450 3.436704 CGCTTCTATTCCAAGCTGAAACA 59.563 43.478 3.14 0.00 43.57 2.83
468 473 2.296190 GTGGTTGTTTAAGCCTCTTGGG 59.704 50.000 0.00 0.00 33.42 4.12
494 499 3.619233 GTGTTTACACATTGCGACCTT 57.381 42.857 8.09 0.00 45.75 3.50
510 525 1.244697 TGGTGCGTTTGTGGTGTGTT 61.245 50.000 0.00 0.00 0.00 3.32
512 527 0.109086 TTTGGTGCGTTTGTGGTGTG 60.109 50.000 0.00 0.00 0.00 3.82
533 548 2.189342 GTTCGAGAAGAGAATGGAGCG 58.811 52.381 0.00 0.00 0.00 5.03
547 562 5.944013 TCTCAGAGACAGTATTTGTTCGAG 58.056 41.667 0.00 0.00 41.05 4.04
549 564 4.560819 GCTCTCAGAGACAGTATTTGTTCG 59.439 45.833 5.62 0.00 41.05 3.95
559 574 0.108898 CGGGTTGCTCTCAGAGACAG 60.109 60.000 5.62 0.00 0.00 3.51
569 584 1.665161 CGTATATCGTCCGGGTTGCTC 60.665 57.143 0.00 0.00 34.52 4.26
582 597 5.522824 GGAGGTGTTTTTCTGTCCGTATATC 59.477 44.000 0.00 0.00 0.00 1.63
687 702 2.094390 CCGTTCTTCACTCGTGGGATTA 60.094 50.000 0.00 0.00 0.00 1.75
711 726 1.571215 GGGTAACACTGGTTTCGCCG 61.571 60.000 0.00 0.00 38.45 6.46
757 804 6.092955 TCGTACAGTGGACAAGATAAAACT 57.907 37.500 6.25 0.00 0.00 2.66
774 821 4.877251 ACAAAGGTGCTACTTTTTCGTACA 59.123 37.500 3.88 0.00 38.56 2.90
779 826 7.330946 AGACAAAAACAAAGGTGCTACTTTTTC 59.669 33.333 3.88 0.00 38.56 2.29
784 831 4.947388 TGAGACAAAAACAAAGGTGCTACT 59.053 37.500 0.00 0.00 0.00 2.57
820 867 2.641321 GGTAAGGTCCCTACACAAAGGT 59.359 50.000 0.05 0.00 34.56 3.50
821 868 2.910977 AGGTAAGGTCCCTACACAAAGG 59.089 50.000 0.05 0.00 36.30 3.11
822 869 3.868754 GCAGGTAAGGTCCCTACACAAAG 60.869 52.174 0.05 0.00 0.00 2.77
897 944 0.106268 TGGAAAGTTGGGCTTGAGCA 60.106 50.000 5.24 0.00 44.36 4.26
934 981 7.248976 AGATTTTCTTACCTTCATTTTCCCCT 58.751 34.615 0.00 0.00 0.00 4.79
1110 1165 3.962530 ATCTGGGCGGAAGGGGGAA 62.963 63.158 0.00 0.00 0.00 3.97
1296 1660 2.177778 GGCTTCTTCTTGCTGCGC 59.822 61.111 0.00 0.00 0.00 6.09
1359 1723 1.674322 GCGCTTGGCCTTGGACTTA 60.674 57.895 3.32 0.00 34.80 2.24
1548 1912 2.357760 GCGCCGAACCTGTACCAA 60.358 61.111 0.00 0.00 0.00 3.67
1743 2107 0.974010 CCCAGTAGTACCGGAAGCCA 60.974 60.000 9.46 0.00 0.00 4.75
2100 2464 0.178967 TCACAATCCTGCAAAGGCCA 60.179 50.000 5.01 0.00 40.13 5.36
2130 2494 6.992063 ACAACATCATCCACATAAGACTTC 57.008 37.500 0.00 0.00 0.00 3.01
2253 2617 4.357325 TCTCCTCTAGCTTCACTTTCCAT 58.643 43.478 0.00 0.00 0.00 3.41
2406 2779 0.811915 CGTCGACCACTTCCTCATCT 59.188 55.000 10.58 0.00 0.00 2.90
2421 2794 0.387367 CCACCTCTTCACTGACGTCG 60.387 60.000 11.62 8.41 0.00 5.12
2545 2918 4.755411 TCGTATGATTTCTCAACCCTGTC 58.245 43.478 0.00 0.00 34.37 3.51
2565 2938 4.084066 TGCATTTGCCGCTTATTATACTCG 60.084 41.667 0.00 0.00 41.18 4.18
2617 2990 7.660112 TGCATAATCATTGTGTTTGAAGTTCT 58.340 30.769 4.17 0.00 0.00 3.01
2619 2992 6.366877 GCTGCATAATCATTGTGTTTGAAGTT 59.633 34.615 0.00 0.00 0.00 2.66
2880 3253 7.283329 AGATACTTCTTCAGAACCTTGTTTGT 58.717 34.615 0.00 0.00 0.00 2.83
2924 3297 6.678547 TCAACACCCCTAAATATGGCTAAAT 58.321 36.000 0.00 0.00 0.00 1.40
2931 3304 6.933521 CAGAGAGATCAACACCCCTAAATATG 59.066 42.308 0.00 0.00 0.00 1.78
2932 3305 6.465035 GCAGAGAGATCAACACCCCTAAATAT 60.465 42.308 0.00 0.00 0.00 1.28
2954 3329 0.539051 CCCTAGGGTCAGAACTGCAG 59.461 60.000 20.88 13.48 0.00 4.41
2957 3332 4.030913 TGTATTCCCTAGGGTCAGAACTG 58.969 47.826 27.58 0.00 36.47 3.16
2966 3341 4.164221 ACATGACTTGTGTATTCCCTAGGG 59.836 45.833 23.22 23.22 37.11 3.53
3048 3436 1.545651 CCAACTTCACTGGGGAGAACC 60.546 57.143 0.00 0.00 39.11 3.62
3059 3447 3.059352 AGTGCCATACTCCAACTTCAC 57.941 47.619 0.00 0.00 33.17 3.18
3067 3455 2.938956 AAGCCATAGTGCCATACTCC 57.061 50.000 0.00 0.00 40.89 3.85
3078 3466 4.202202 CCCAGACTCAGAACTAAGCCATAG 60.202 50.000 0.00 0.00 37.66 2.23
3079 3467 3.706594 CCCAGACTCAGAACTAAGCCATA 59.293 47.826 0.00 0.00 0.00 2.74
3080 3468 2.503356 CCCAGACTCAGAACTAAGCCAT 59.497 50.000 0.00 0.00 0.00 4.40
3082 3470 1.208293 CCCCAGACTCAGAACTAAGCC 59.792 57.143 0.00 0.00 0.00 4.35
3083 3471 1.903183 ACCCCAGACTCAGAACTAAGC 59.097 52.381 0.00 0.00 0.00 3.09
3084 3472 3.578716 TCAACCCCAGACTCAGAACTAAG 59.421 47.826 0.00 0.00 0.00 2.18
3086 3474 3.254093 TCAACCCCAGACTCAGAACTA 57.746 47.619 0.00 0.00 0.00 2.24
3087 3475 2.103153 TCAACCCCAGACTCAGAACT 57.897 50.000 0.00 0.00 0.00 3.01
3088 3476 3.425162 AATCAACCCCAGACTCAGAAC 57.575 47.619 0.00 0.00 0.00 3.01
3089 3477 4.453480 AAAATCAACCCCAGACTCAGAA 57.547 40.909 0.00 0.00 0.00 3.02
3090 3478 4.104738 AGAAAAATCAACCCCAGACTCAGA 59.895 41.667 0.00 0.00 0.00 3.27
3091 3479 4.401925 AGAAAAATCAACCCCAGACTCAG 58.598 43.478 0.00 0.00 0.00 3.35
3092 3480 4.453480 AGAAAAATCAACCCCAGACTCA 57.547 40.909 0.00 0.00 0.00 3.41
3093 3481 4.021981 CCAAGAAAAATCAACCCCAGACTC 60.022 45.833 0.00 0.00 0.00 3.36
3094 3482 3.897505 CCAAGAAAAATCAACCCCAGACT 59.102 43.478 0.00 0.00 0.00 3.24
3174 3567 6.737720 TGATTATACAGAGGAGCAAGTGAT 57.262 37.500 0.00 0.00 0.00 3.06
3206 3599 2.365293 GAGTTTTGGTTGGGCATTCTGT 59.635 45.455 0.00 0.00 0.00 3.41
3211 3604 4.415596 TCTTATGAGTTTTGGTTGGGCAT 58.584 39.130 0.00 0.00 0.00 4.40
3215 3608 8.335532 TGTCTATTCTTATGAGTTTTGGTTGG 57.664 34.615 0.00 0.00 0.00 3.77
3221 3614 7.168219 TGTGGCTGTCTATTCTTATGAGTTTT 58.832 34.615 0.00 0.00 0.00 2.43
3261 3654 3.001514 ATCGCCTTGATGCCCAGT 58.998 55.556 0.00 0.00 35.45 4.00
3303 3696 4.760530 ATGTGTAAGCAGATTGCCTAGA 57.239 40.909 0.00 0.00 46.52 2.43
3359 3752 5.830991 ACCTGAGTTAAACACTTAATTGCCA 59.169 36.000 0.00 0.00 35.01 4.92
3360 3759 6.327279 ACCTGAGTTAAACACTTAATTGCC 57.673 37.500 0.00 0.00 35.01 4.52
3379 3778 7.664731 AGATCAGATCAGCCATTATTTTACCTG 59.335 37.037 13.14 0.00 0.00 4.00
3382 3781 8.613060 TGAGATCAGATCAGCCATTATTTTAC 57.387 34.615 13.14 0.00 0.00 2.01
3687 4089 7.882755 ACTTGAGGGGGATTTTTATATCTCAA 58.117 34.615 0.00 0.00 37.57 3.02


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

AutoCloner maintained by Alex Coulton.