Multiple sequence alignment - TraesCS1A01G118700

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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 TraesCS1A01G118700 chr1A 100.000 4529 0 0 1 4529 127351997 127356525 0.000000e+00 8364.0
1 TraesCS1A01G118700 chr1A 96.352 603 19 3 3928 4529 469779073 469779673 0.000000e+00 989.0
2 TraesCS1A01G118700 chr1D 96.288 2775 74 11 877 3634 116453701 116456463 0.000000e+00 4527.0
3 TraesCS1A01G118700 chr1D 92.214 899 37 17 1 880 116452784 116453668 0.000000e+00 1242.0
4 TraesCS1A01G118700 chr1D 96.234 239 8 1 3690 3928 116480896 116481133 1.530000e-104 390.0
5 TraesCS1A01G118700 chr1B 97.103 2002 45 7 1927 3928 178097036 178099024 0.000000e+00 3363.0
6 TraesCS1A01G118700 chr1B 96.996 1032 16 6 877 1899 178096016 178097041 0.000000e+00 1720.0
7 TraesCS1A01G118700 chr1B 90.560 911 33 24 1 880 178095095 178095983 0.000000e+00 1157.0
8 TraesCS1A01G118700 chr1B 87.805 82 8 2 3919 3998 83944188 83944269 1.340000e-15 95.3
9 TraesCS1A01G118700 chr7A 97.315 596 16 0 3934 4529 138040820 138040225 0.000000e+00 1013.0
10 TraesCS1A01G118700 chr3D 82.060 602 94 14 3934 4529 345121829 345121236 6.760000e-138 501.0
11 TraesCS1A01G118700 chr7B 81.835 545 75 17 3935 4468 161322459 161322990 1.930000e-118 436.0
12 TraesCS1A01G118700 chr7B 89.219 269 21 8 3977 4245 658032433 658032693 3.380000e-86 329.0
13 TraesCS1A01G118700 chr6B 88.968 281 22 6 3933 4212 461335011 461335283 5.610000e-89 339.0
14 TraesCS1A01G118700 chr6B 98.473 131 2 0 4308 4438 461335280 461335410 9.800000e-57 231.0
15 TraesCS1A01G118700 chr6B 92.308 65 4 1 3931 3994 663561643 663561707 1.740000e-14 91.6
16 TraesCS1A01G118700 chr5A 94.634 205 9 2 3933 4136 54484839 54485042 2.630000e-82 316.0
17 TraesCS1A01G118700 chr7D 93.846 65 1 3 3928 3989 454076068 454076132 1.340000e-15 95.3


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 TraesCS1A01G118700 chr1A 127351997 127356525 4528 False 8364.0 8364 100.000000 1 4529 1 chr1A.!!$F1 4528
1 TraesCS1A01G118700 chr1A 469779073 469779673 600 False 989.0 989 96.352000 3928 4529 1 chr1A.!!$F2 601
2 TraesCS1A01G118700 chr1D 116452784 116456463 3679 False 2884.5 4527 94.251000 1 3634 2 chr1D.!!$F2 3633
3 TraesCS1A01G118700 chr1B 178095095 178099024 3929 False 2080.0 3363 94.886333 1 3928 3 chr1B.!!$F2 3927
4 TraesCS1A01G118700 chr7A 138040225 138040820 595 True 1013.0 1013 97.315000 3934 4529 1 chr7A.!!$R1 595
5 TraesCS1A01G118700 chr3D 345121236 345121829 593 True 501.0 501 82.060000 3934 4529 1 chr3D.!!$R1 595
6 TraesCS1A01G118700 chr7B 161322459 161322990 531 False 436.0 436 81.835000 3935 4468 1 chr7B.!!$F1 533

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
708 736 1.355066 CCGCTCTCGAGGTTTGCTTC 61.355 60.000 13.56 0.0 38.10 3.86 F
724 752 1.539827 GCTTCCGTGCCATTACTTGTT 59.460 47.619 0.00 0.0 0.00 2.83 F
729 764 1.876799 CGTGCCATTACTTGTTGGACA 59.123 47.619 0.00 0.0 34.81 4.02 F
2613 2701 2.368439 TCTCAATGGCCATAGCACAAC 58.632 47.619 21.15 0.0 42.56 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2613 2701 3.119388 AGGCGACACAATTCAATCCAATG 60.119 43.478 0.0 0.0 0.00 2.82 R
2652 2742 6.923012 ACATGCTTGTCAATATAAACTTGCA 58.077 32.000 0.0 0.0 0.00 4.08 R
2847 2937 4.021016 ACCGACAGAGAAGCTTTAACAGAT 60.021 41.667 0.0 0.0 0.00 2.90 R
3537 3687 0.247460 CCTTGATGACAGAGTCGGCA 59.753 55.000 0.0 0.0 34.95 5.69 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
101 104 4.179599 CTCCCCTCCCCTCCCCTC 62.180 77.778 0.00 0.00 0.00 4.30
121 124 2.341543 CCTCATCCATCTCCGGCG 59.658 66.667 0.00 0.00 0.00 6.46
128 131 3.147595 CATCTCCGGCGACCTCCA 61.148 66.667 9.30 0.00 0.00 3.86
155 158 1.571919 GACGAATCCCAACCATCTCG 58.428 55.000 0.00 0.00 0.00 4.04
299 312 2.017782 TCCTGCGTGTGAGTATCTCTC 58.982 52.381 0.00 0.00 43.03 3.20
352 366 5.690857 GCCAGTTATTAGTTAAGTAGAGGCG 59.309 44.000 0.00 0.00 0.00 5.52
398 415 6.598753 TTGCTATTAAAGTGCGGAATAGAC 57.401 37.500 5.31 0.00 35.90 2.59
407 424 2.789893 GTGCGGAATAGACGAGAATGTC 59.210 50.000 0.00 0.00 39.21 3.06
552 570 5.022787 AGTGTATGGTGGGTTGCATTTATT 58.977 37.500 0.00 0.00 0.00 1.40
588 616 4.385386 TGGAGGGATTAAGTTATTGGGGA 58.615 43.478 0.00 0.00 0.00 4.81
589 617 4.796816 TGGAGGGATTAAGTTATTGGGGAA 59.203 41.667 0.00 0.00 0.00 3.97
591 619 5.833667 GGAGGGATTAAGTTATTGGGGAAAG 59.166 44.000 0.00 0.00 0.00 2.62
621 649 4.123506 GCTAGATAGTGGAAAAGGCTCAC 58.876 47.826 0.00 0.00 0.00 3.51
665 693 4.223923 CAGTGGGGACTCTCTTAATTGAGT 59.776 45.833 9.39 9.39 45.06 3.41
666 694 4.846940 AGTGGGGACTCTCTTAATTGAGTT 59.153 41.667 10.53 0.00 42.79 3.01
667 695 6.023603 AGTGGGGACTCTCTTAATTGAGTTA 58.976 40.000 10.53 0.00 42.79 2.24
668 696 6.674419 AGTGGGGACTCTCTTAATTGAGTTAT 59.326 38.462 10.53 0.00 42.79 1.89
669 697 7.844779 AGTGGGGACTCTCTTAATTGAGTTATA 59.155 37.037 10.53 0.00 42.79 0.98
691 719 9.647797 TTATATACATGGTAAAACTATCAGCCG 57.352 33.333 0.00 0.00 0.00 5.52
708 736 1.355066 CCGCTCTCGAGGTTTGCTTC 61.355 60.000 13.56 0.00 38.10 3.86
724 752 1.539827 GCTTCCGTGCCATTACTTGTT 59.460 47.619 0.00 0.00 0.00 2.83
725 753 2.668279 GCTTCCGTGCCATTACTTGTTG 60.668 50.000 0.00 0.00 0.00 3.33
729 764 1.876799 CGTGCCATTACTTGTTGGACA 59.123 47.619 0.00 0.00 34.81 4.02
734 769 3.317993 GCCATTACTTGTTGGACACACTT 59.682 43.478 0.00 0.00 33.98 3.16
745 780 7.899178 TGTTGGACACACTTATAGTAACATG 57.101 36.000 0.00 0.00 0.00 3.21
789 824 3.776417 AGCTTAATTGGGCATTTCATGGT 59.224 39.130 0.00 0.00 0.00 3.55
844 879 8.777865 TTGAGGTAAAGACTGATCTACATTTG 57.222 34.615 0.00 0.00 33.57 2.32
866 901 3.999663 GTCTCAGGTGGCAATATATCTGC 59.000 47.826 9.90 9.90 39.16 4.26
874 909 7.972277 CAGGTGGCAATATATCTGCAAATATTC 59.028 37.037 16.51 0.00 41.78 1.75
1221 1292 4.281182 TGTCTCCTCTACAAGTTCTTCACC 59.719 45.833 0.00 0.00 0.00 4.02
1309 1380 8.089115 AGCTGTAAGTTTCTTTGACATAAGTC 57.911 34.615 0.00 0.00 40.11 3.01
1355 1426 5.204409 TGGTTGTTGTGTCTACTCGTTAT 57.796 39.130 0.00 0.00 0.00 1.89
1365 1436 7.735500 TGTGTCTACTCGTTATATTTGTTTGC 58.264 34.615 0.00 0.00 0.00 3.68
1452 1523 5.437060 AGTGACAAACTGGTGTTATCAACT 58.563 37.500 0.00 0.00 37.88 3.16
1737 1825 8.345565 GGATTTTTGTATCTTCGATATGTTGCT 58.654 33.333 0.00 0.00 0.00 3.91
2248 2336 4.819769 AGTGCACTTGTTTGTTTGACATT 58.180 34.783 15.25 0.00 0.00 2.71
2324 2412 3.118223 GGCTCACCTTCCTGTAGCTAATT 60.118 47.826 0.00 0.00 33.67 1.40
2479 2567 3.640967 TGCCAACTAGCTGGACAAATTTT 59.359 39.130 16.59 0.00 38.96 1.82
2516 2604 3.641437 TGGTTCAACAACATAGCTTGC 57.359 42.857 0.00 0.00 33.70 4.01
2607 2695 5.840243 TTTGTGATTCTCAATGGCCATAG 57.160 39.130 21.15 14.27 0.00 2.23
2613 2701 2.368439 TCTCAATGGCCATAGCACAAC 58.632 47.619 21.15 0.00 42.56 3.32
2632 2720 5.117440 CACAACATTGGATTGAATTGTGTCG 59.883 40.000 6.73 0.00 41.13 4.35
2644 2732 4.759693 TGAATTGTGTCGCCTAATTTGACT 59.240 37.500 0.00 0.00 33.81 3.41
2645 2733 5.240623 TGAATTGTGTCGCCTAATTTGACTT 59.759 36.000 0.00 0.00 33.81 3.01
2652 2742 7.081976 GTGTCGCCTAATTTGACTTTATGTTT 58.918 34.615 0.00 0.00 33.81 2.83
2888 2978 1.404035 GGTTTCTTTTGGACAGCGTGT 59.596 47.619 0.00 0.00 0.00 4.49
2892 2982 2.715864 CTTTTGGACAGCGTGTGCCG 62.716 60.000 7.06 0.00 44.31 5.69
3062 3212 0.393944 AGCCGTGACCGAGATACTGA 60.394 55.000 0.00 0.00 35.63 3.41
3074 3224 1.135083 AGATACTGACCGTTCAAGCCG 60.135 52.381 0.00 0.00 0.00 5.52
3075 3225 0.606604 ATACTGACCGTTCAAGCCGT 59.393 50.000 0.00 0.00 0.00 5.68
3076 3226 0.319211 TACTGACCGTTCAAGCCGTG 60.319 55.000 0.00 0.00 0.00 4.94
3077 3227 1.300620 CTGACCGTTCAAGCCGTGA 60.301 57.895 0.00 0.00 0.00 4.35
3078 3228 0.670546 CTGACCGTTCAAGCCGTGAT 60.671 55.000 0.00 0.00 35.70 3.06
3079 3229 0.669318 TGACCGTTCAAGCCGTGATC 60.669 55.000 0.00 0.00 35.70 2.92
3080 3230 1.683790 GACCGTTCAAGCCGTGATCG 61.684 60.000 10.15 10.15 45.20 3.69
3083 3233 3.418675 GTTCAAGCCGTGATCGAGA 57.581 52.632 0.00 0.00 39.71 4.04
3084 3234 1.927895 GTTCAAGCCGTGATCGAGAT 58.072 50.000 0.00 0.00 39.71 2.75
3085 3235 3.079960 GTTCAAGCCGTGATCGAGATA 57.920 47.619 0.00 0.00 39.71 1.98
3086 3236 2.776312 TCAAGCCGTGATCGAGATAC 57.224 50.000 0.00 0.00 39.71 2.24
3087 3237 2.298610 TCAAGCCGTGATCGAGATACT 58.701 47.619 0.00 0.00 39.71 2.12
3088 3238 2.033424 TCAAGCCGTGATCGAGATACTG 59.967 50.000 0.00 0.00 39.71 2.74
3089 3239 1.968704 AGCCGTGATCGAGATACTGA 58.031 50.000 0.00 0.00 39.71 3.41
3090 3240 1.604755 AGCCGTGATCGAGATACTGAC 59.395 52.381 0.00 0.00 39.71 3.51
3091 3241 1.335142 GCCGTGATCGAGATACTGACC 60.335 57.143 0.00 0.00 39.71 4.02
3092 3242 1.947456 CCGTGATCGAGATACTGACCA 59.053 52.381 0.00 0.00 39.71 4.02
3093 3243 2.554462 CCGTGATCGAGATACTGACCAT 59.446 50.000 0.00 0.00 39.71 3.55
3094 3244 3.004839 CCGTGATCGAGATACTGACCATT 59.995 47.826 0.00 0.00 39.71 3.16
3095 3245 4.222886 CGTGATCGAGATACTGACCATTC 58.777 47.826 0.00 0.00 39.71 2.67
3096 3246 4.261197 CGTGATCGAGATACTGACCATTCA 60.261 45.833 0.00 0.00 39.71 2.57
3097 3247 5.592054 GTGATCGAGATACTGACCATTCAA 58.408 41.667 0.00 0.00 0.00 2.69
3098 3248 5.689514 GTGATCGAGATACTGACCATTCAAG 59.310 44.000 0.00 0.00 0.00 3.02
3099 3249 4.046938 TCGAGATACTGACCATTCAAGC 57.953 45.455 0.00 0.00 0.00 4.01
3100 3250 3.126831 CGAGATACTGACCATTCAAGCC 58.873 50.000 0.00 0.00 0.00 4.35
3101 3251 3.126831 GAGATACTGACCATTCAAGCCG 58.873 50.000 0.00 0.00 0.00 5.52
3163 3313 2.542020 TCGTTCAAGCCATGACAGAA 57.458 45.000 0.00 0.00 37.92 3.02
3311 3461 1.214589 GAAGCCGGAGTCGTAGCAA 59.785 57.895 5.05 0.00 33.95 3.91
3368 3518 5.342017 TCGATCTAGTCCATTTGGGGATAT 58.658 41.667 0.00 0.00 39.62 1.63
3537 3687 6.663734 CCCTAGGTGGAGATAAATTTGAACT 58.336 40.000 8.29 0.00 38.35 3.01
3626 3776 4.149046 GTGAGAGCTCAGTCTTTGTAAACG 59.851 45.833 17.77 0.00 40.75 3.60
3843 3993 5.747197 TCTCTAACGCGTAAGATTGAAATCC 59.253 40.000 14.46 0.00 43.02 3.01
3846 3996 4.600012 ACGCGTAAGATTGAAATCCTTG 57.400 40.909 11.67 0.00 43.02 3.61
4504 4666 3.365666 CGCATCAGCAGTCAAAATTCTGT 60.366 43.478 0.00 0.00 42.27 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
101 104 2.219875 CCGGAGATGGATGAGGGGG 61.220 68.421 0.00 0.00 0.00 5.40
102 105 2.888447 GCCGGAGATGGATGAGGGG 61.888 68.421 5.05 0.00 0.00 4.79
121 124 1.139095 CGTCGGTAGCTTGGAGGTC 59.861 63.158 0.00 0.00 0.00 3.85
128 131 0.899720 TTGGGATTCGTCGGTAGCTT 59.100 50.000 0.00 0.00 0.00 3.74
245 258 1.219393 CCTCCTCGGCTTCCAAGAC 59.781 63.158 0.00 0.00 0.00 3.01
274 287 2.238847 TACTCACACGCAGGATGGCC 62.239 60.000 0.00 0.00 35.86 5.36
299 312 5.008118 TGAATCTATGTACGCAGAGACAGAG 59.992 44.000 3.05 0.00 44.50 3.35
376 390 4.743151 CGTCTATTCCGCACTTTAATAGCA 59.257 41.667 0.00 0.00 34.57 3.49
377 391 4.980434 TCGTCTATTCCGCACTTTAATAGC 59.020 41.667 0.00 0.00 34.57 2.97
378 392 6.436261 TCTCGTCTATTCCGCACTTTAATAG 58.564 40.000 0.00 0.00 35.46 1.73
379 393 6.381481 TCTCGTCTATTCCGCACTTTAATA 57.619 37.500 0.00 0.00 0.00 0.98
380 394 5.258456 TCTCGTCTATTCCGCACTTTAAT 57.742 39.130 0.00 0.00 0.00 1.40
382 396 4.707030 TTCTCGTCTATTCCGCACTTTA 57.293 40.909 0.00 0.00 0.00 1.85
383 397 3.587797 TTCTCGTCTATTCCGCACTTT 57.412 42.857 0.00 0.00 0.00 2.66
385 399 2.427453 ACATTCTCGTCTATTCCGCACT 59.573 45.455 0.00 0.00 0.00 4.40
398 415 2.921634 TTCGTCAGAGGACATTCTCG 57.078 50.000 0.00 0.00 44.54 4.04
588 616 5.778542 TCCACTATCTAGCCTAAGGACTTT 58.221 41.667 0.00 0.00 0.00 2.66
589 617 5.405063 TCCACTATCTAGCCTAAGGACTT 57.595 43.478 0.00 0.00 0.00 3.01
591 619 6.463190 CCTTTTCCACTATCTAGCCTAAGGAC 60.463 46.154 0.00 0.00 32.19 3.85
621 649 1.271001 TGATGTCCAGACAACCTGCAG 60.271 52.381 6.78 6.78 45.41 4.41
665 693 9.647797 CGGCTGATAGTTTTACCATGTATATAA 57.352 33.333 0.00 0.00 0.00 0.98
666 694 7.762615 GCGGCTGATAGTTTTACCATGTATATA 59.237 37.037 0.00 0.00 0.00 0.86
667 695 6.594159 GCGGCTGATAGTTTTACCATGTATAT 59.406 38.462 0.00 0.00 0.00 0.86
668 696 5.929992 GCGGCTGATAGTTTTACCATGTATA 59.070 40.000 0.00 0.00 0.00 1.47
669 697 4.755123 GCGGCTGATAGTTTTACCATGTAT 59.245 41.667 0.00 0.00 0.00 2.29
691 719 1.355066 CGGAAGCAAACCTCGAGAGC 61.355 60.000 15.71 12.15 0.00 4.09
708 736 1.199097 GTCCAACAAGTAATGGCACGG 59.801 52.381 0.00 0.00 36.62 4.94
724 752 6.614694 ACCATGTTACTATAAGTGTGTCCA 57.385 37.500 0.00 0.00 0.00 4.02
725 753 8.004087 TCTACCATGTTACTATAAGTGTGTCC 57.996 38.462 0.00 0.00 0.00 4.02
734 769 9.740239 GTCGACAAATTCTACCATGTTACTATA 57.260 33.333 11.55 0.00 0.00 1.31
745 780 4.817517 TCTCAAGGTCGACAAATTCTACC 58.182 43.478 18.91 0.00 39.89 3.18
789 824 7.094377 GCTGAAAATTCATGTGTCCCTTACTAA 60.094 37.037 0.00 0.00 36.46 2.24
844 879 3.999663 GCAGATATATTGCCACCTGAGAC 59.000 47.826 8.04 0.00 35.54 3.36
866 901 7.253950 CCTTTTCCCAAAATACGCGAATATTTG 60.254 37.037 15.93 17.16 35.42 2.32
874 909 3.239254 GAACCTTTTCCCAAAATACGCG 58.761 45.455 3.53 3.53 0.00 6.01
913 984 3.941483 GCTTATGTCACATGCAGGTAGTT 59.059 43.478 2.51 0.00 0.00 2.24
914 985 3.198635 AGCTTATGTCACATGCAGGTAGT 59.801 43.478 2.51 0.00 0.00 2.73
915 986 3.801698 AGCTTATGTCACATGCAGGTAG 58.198 45.455 2.51 0.00 0.00 3.18
919 990 4.438336 CCTCAAAGCTTATGTCACATGCAG 60.438 45.833 0.00 0.00 0.00 4.41
922 993 3.693085 AGCCTCAAAGCTTATGTCACATG 59.307 43.478 0.00 0.00 41.41 3.21
923 994 3.960571 AGCCTCAAAGCTTATGTCACAT 58.039 40.909 0.00 0.00 41.41 3.21
1221 1292 5.929697 TCTGTTTCACAGTAAGCTTCATG 57.070 39.130 0.00 5.69 46.03 3.07
1309 1380 5.211454 TGATGCGTGTATTTGTCAAAAGTG 58.789 37.500 1.31 0.00 0.00 3.16
1355 1426 5.809051 TGCATGCATTAATCGCAAACAAATA 59.191 32.000 18.46 0.00 43.84 1.40
1365 1436 4.035558 ACAACCTAGTGCATGCATTAATCG 59.964 41.667 25.64 15.27 0.00 3.34
1924 2012 4.141824 GCCATATAGCTCCTCTAATGGACC 60.142 50.000 11.09 0.00 37.71 4.46
1925 2013 4.141824 GGCCATATAGCTCCTCTAATGGAC 60.142 50.000 0.00 6.19 37.71 4.02
2098 2186 4.354893 TTCCTGCATCAAGCCAAAAATT 57.645 36.364 0.00 0.00 44.83 1.82
2479 2567 3.788227 ACCATGACTTGCCTGACTAAA 57.212 42.857 0.00 0.00 0.00 1.85
2516 2604 9.638239 GGAAAAGAGAAGAGCATATACTATGAG 57.362 37.037 0.00 0.00 0.00 2.90
2607 2695 4.751098 ACACAATTCAATCCAATGTTGTGC 59.249 37.500 13.94 0.00 46.13 4.57
2613 2701 3.119388 AGGCGACACAATTCAATCCAATG 60.119 43.478 0.00 0.00 0.00 2.82
2632 2720 7.384932 ACTTGCAAACATAAAGTCAAATTAGGC 59.615 33.333 0.00 0.00 27.92 3.93
2652 2742 6.923012 ACATGCTTGTCAATATAAACTTGCA 58.077 32.000 0.00 0.00 0.00 4.08
2847 2937 4.021016 ACCGACAGAGAAGCTTTAACAGAT 60.021 41.667 0.00 0.00 0.00 2.90
3062 3212 1.736645 CGATCACGGCTTGAACGGT 60.737 57.895 14.45 0.00 44.51 4.83
3074 3224 5.188327 TGAATGGTCAGTATCTCGATCAC 57.812 43.478 0.00 0.00 0.00 3.06
3075 3225 5.737349 GCTTGAATGGTCAGTATCTCGATCA 60.737 44.000 0.00 0.00 34.49 2.92
3076 3226 4.683781 GCTTGAATGGTCAGTATCTCGATC 59.316 45.833 0.00 0.00 34.49 3.69
3077 3227 4.502259 GGCTTGAATGGTCAGTATCTCGAT 60.502 45.833 0.00 0.00 34.49 3.59
3078 3228 3.181475 GGCTTGAATGGTCAGTATCTCGA 60.181 47.826 0.00 0.00 34.49 4.04
3079 3229 3.126831 GGCTTGAATGGTCAGTATCTCG 58.873 50.000 0.00 0.00 34.49 4.04
3080 3230 3.126831 CGGCTTGAATGGTCAGTATCTC 58.873 50.000 0.00 0.00 34.49 2.75
3081 3231 2.501723 ACGGCTTGAATGGTCAGTATCT 59.498 45.455 0.00 0.00 34.49 1.98
3082 3232 2.609459 CACGGCTTGAATGGTCAGTATC 59.391 50.000 0.00 0.00 34.49 2.24
3083 3233 2.236146 TCACGGCTTGAATGGTCAGTAT 59.764 45.455 0.00 0.00 34.49 2.12
3084 3234 1.621317 TCACGGCTTGAATGGTCAGTA 59.379 47.619 0.00 0.00 34.49 2.74
3085 3235 0.396435 TCACGGCTTGAATGGTCAGT 59.604 50.000 0.00 0.00 34.49 3.41
3086 3236 0.798776 GTCACGGCTTGAATGGTCAG 59.201 55.000 0.00 0.00 35.39 3.51
3087 3237 0.605319 GGTCACGGCTTGAATGGTCA 60.605 55.000 0.00 0.00 35.39 4.02
3088 3238 1.635663 CGGTCACGGCTTGAATGGTC 61.636 60.000 0.00 0.00 35.39 4.02
3089 3239 1.671054 CGGTCACGGCTTGAATGGT 60.671 57.895 0.00 0.00 35.39 3.55
3090 3240 1.361668 CTCGGTCACGGCTTGAATGG 61.362 60.000 0.00 0.00 41.39 3.16
3091 3241 0.389817 TCTCGGTCACGGCTTGAATG 60.390 55.000 0.00 0.00 41.39 2.67
3092 3242 0.537188 ATCTCGGTCACGGCTTGAAT 59.463 50.000 0.00 0.00 41.39 2.57
3093 3243 1.135199 GTATCTCGGTCACGGCTTGAA 60.135 52.381 0.00 0.00 41.39 2.69
3094 3244 0.454600 GTATCTCGGTCACGGCTTGA 59.545 55.000 0.00 0.00 41.39 3.02
3095 3245 0.456221 AGTATCTCGGTCACGGCTTG 59.544 55.000 0.00 0.00 41.39 4.01
3096 3246 0.456221 CAGTATCTCGGTCACGGCTT 59.544 55.000 0.00 0.00 41.39 4.35
3097 3247 1.384989 CCAGTATCTCGGTCACGGCT 61.385 60.000 0.00 0.00 41.39 5.52
3098 3248 1.065928 CCAGTATCTCGGTCACGGC 59.934 63.158 0.00 0.00 41.39 5.68
3099 3249 1.065928 GCCAGTATCTCGGTCACGG 59.934 63.158 0.00 0.00 41.39 4.94
3100 3250 1.065928 GGCCAGTATCTCGGTCACG 59.934 63.158 0.00 0.00 42.74 4.35
3101 3251 1.065928 CGGCCAGTATCTCGGTCAC 59.934 63.158 2.24 0.00 0.00 3.67
3163 3313 2.268298 GTCACGGTCATAATCACGCTT 58.732 47.619 0.00 0.00 0.00 4.68
3311 3461 2.757917 GACTCCGGCTCCTGCTCT 60.758 66.667 0.00 0.00 39.59 4.09
3335 3485 3.256879 TGGACTAGATCGATGCTCATTCC 59.743 47.826 0.54 7.33 0.00 3.01
3368 3518 2.430465 CAGCAGCCTTCTCTTTGCTTA 58.570 47.619 0.00 0.00 43.91 3.09
3537 3687 0.247460 CCTTGATGACAGAGTCGGCA 59.753 55.000 0.00 0.00 34.95 5.69
3626 3776 6.908825 TGATGAACCAACATAAAGTACAAGC 58.091 36.000 0.00 0.00 0.00 4.01
3813 3963 7.076362 TCAATCTTACGCGTTAGAGATGTATC 58.924 38.462 28.78 0.00 0.00 2.24
3824 3974 4.454504 ACAAGGATTTCAATCTTACGCGTT 59.545 37.500 20.78 0.80 35.73 4.84
3825 3975 4.000988 ACAAGGATTTCAATCTTACGCGT 58.999 39.130 19.17 19.17 35.73 6.01
3826 3976 4.092821 TGACAAGGATTTCAATCTTACGCG 59.907 41.667 3.53 3.53 35.73 6.01
3843 3993 4.873817 TGGCTTTCAAATGACATGACAAG 58.126 39.130 0.00 0.00 0.00 3.16
3846 3996 4.624024 CACATGGCTTTCAAATGACATGAC 59.376 41.667 23.72 0.00 46.80 3.06
3905 4055 7.530426 AAAGATTTAGCAAAACCACTCTGAT 57.470 32.000 0.00 0.00 0.00 2.90
4444 4606 6.041296 GGATGGGAAAATGATTACTTCTGCAT 59.959 38.462 0.00 0.00 0.00 3.96
4445 4607 5.360714 GGATGGGAAAATGATTACTTCTGCA 59.639 40.000 0.00 0.00 0.00 4.41
4504 4666 0.897621 ATGTGGACTGTCATGCTCGA 59.102 50.000 10.38 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.