Multiple sequence alignment - TraesCS7B01G245100

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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 TraesCS7B01G245100 chr7B 100.000 4805 0 0 941 5745 453446620 453451424 0.000000e+00 8874.0
1 TraesCS7B01G245100 chr7B 100.000 268 0 0 1 268 453445680 453445947 4.000000e-136 496.0
2 TraesCS7B01G245100 chr7B 96.642 268 9 0 1 268 493992338 493992605 4.080000e-121 446.0
3 TraesCS7B01G245100 chr7A 95.280 4661 164 26 1077 5722 485608319 485603700 0.000000e+00 7337.0
4 TraesCS7B01G245100 chr7A 95.833 144 6 0 941 1084 485609414 485609271 3.460000e-57 233.0
5 TraesCS7B01G245100 chr7D 97.268 3331 89 1 941 4271 436951237 436954565 0.000000e+00 5646.0
6 TraesCS7B01G245100 chr7D 94.193 1481 43 10 4270 5745 436954689 436956131 0.000000e+00 2218.0
7 TraesCS7B01G245100 chr2B 98.134 268 5 0 1 268 77288153 77288420 8.720000e-128 468.0
8 TraesCS7B01G245100 chr2B 96.269 268 10 0 1 268 88527225 88526958 1.900000e-119 440.0
9 TraesCS7B01G245100 chr3B 97.388 268 7 0 1 268 740141496 740141229 1.890000e-124 457.0
10 TraesCS7B01G245100 chr3B 97.015 268 8 0 1 268 740124549 740124282 8.780000e-123 451.0
11 TraesCS7B01G245100 chr3A 97.015 268 8 0 1 268 63841591 63841324 8.780000e-123 451.0
12 TraesCS7B01G245100 chrUn 96.642 268 9 0 1 268 341637833 341637566 4.080000e-121 446.0
13 TraesCS7B01G245100 chr1B 96.283 269 9 1 1 268 17585447 17585179 1.900000e-119 440.0
14 TraesCS7B01G245100 chr1B 96.269 268 10 0 1 268 377925959 377926226 1.900000e-119 440.0
15 TraesCS7B01G245100 chr5D 78.986 138 29 0 3836 3973 553064379 553064516 1.700000e-15 95.3
16 TraesCS7B01G245100 chr5D 78.358 134 29 0 3836 3969 553472412 553472545 2.850000e-13 87.9
17 TraesCS7B01G245100 chr5D 78.030 132 29 0 3842 3973 553458680 553458549 3.690000e-12 84.2
18 TraesCS7B01G245100 chr5B 78.358 134 29 0 3836 3969 697344566 697344433 2.850000e-13 87.9


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 TraesCS7B01G245100 chr7B 453445680 453451424 5744 False 4685 8874 100.0000 1 5745 2 chr7B.!!$F2 5744
1 TraesCS7B01G245100 chr7A 485603700 485609414 5714 True 3785 7337 95.5565 941 5722 2 chr7A.!!$R1 4781
2 TraesCS7B01G245100 chr7D 436951237 436956131 4894 False 3932 5646 95.7305 941 5745 2 chr7D.!!$F1 4804

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
38 39 1.216710 CGCTCTTCCTCCTCACCAC 59.783 63.158 0.00 0.00 0.00 4.16 F
1177 2137 0.036952 CAATCTCACCACTGGAGCGT 60.037 55.000 0.71 0.00 32.38 5.07 F
1443 2403 0.886490 GCATCAACTCCATAGGCGGG 60.886 60.000 0.00 0.00 0.00 6.13 F
2497 3457 1.253100 TGGCAATCTTCCGGAAAACC 58.747 50.000 19.39 14.72 0.00 3.27 F
2575 3535 2.563179 GGAAACCTCAGCAGTCTCACTA 59.437 50.000 0.00 0.00 0.00 2.74 F
3355 4315 3.004862 GTGGTGGTTCCTATTGTTACCG 58.995 50.000 0.00 0.00 37.07 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1459 2419 0.179004 AGGCGGGAACACATTGACAA 60.179 50.000 0.00 0.0 0.00 3.18 R
2472 3432 1.215173 TCCGGAAGATTGCCAATGGAT 59.785 47.619 0.00 0.0 0.00 3.41 R
2979 3939 3.460648 GCACTGGCCGAGACTATTT 57.539 52.632 8.91 0.0 0.00 1.40 R
3504 4464 1.081092 CCCTCCCTCTCCAACCAGA 59.919 63.158 0.00 0.0 0.00 3.86 R
4095 5055 2.031870 GGCAGGGGGTAAACATGATTC 58.968 52.381 0.00 0.0 0.00 2.52 R
5347 6447 1.079888 GCGGTTGCTTCCAAATGGG 60.080 57.895 0.00 0.0 38.39 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
24 25 4.918201 CCCCAATCCGAGCCGCTC 62.918 72.222 10.59 10.59 0.00 5.03
25 26 3.854669 CCCAATCCGAGCCGCTCT 61.855 66.667 18.14 0.00 0.00 4.09
26 27 2.187946 CCAATCCGAGCCGCTCTT 59.812 61.111 18.14 3.27 0.00 2.85
27 28 1.884926 CCAATCCGAGCCGCTCTTC 60.885 63.158 18.14 0.00 0.00 2.87
28 29 1.884926 CAATCCGAGCCGCTCTTCC 60.885 63.158 18.14 0.00 0.00 3.46
29 30 2.060980 AATCCGAGCCGCTCTTCCT 61.061 57.895 18.14 0.00 0.00 3.36
30 31 2.022240 AATCCGAGCCGCTCTTCCTC 62.022 60.000 18.14 0.00 0.00 3.71
31 32 4.214327 CCGAGCCGCTCTTCCTCC 62.214 72.222 18.14 0.00 0.00 4.30
32 33 3.144193 CGAGCCGCTCTTCCTCCT 61.144 66.667 18.14 0.00 0.00 3.69
33 34 2.811799 GAGCCGCTCTTCCTCCTC 59.188 66.667 13.42 0.00 0.00 3.71
34 35 2.038007 AGCCGCTCTTCCTCCTCA 59.962 61.111 0.00 0.00 0.00 3.86
35 36 2.185608 GCCGCTCTTCCTCCTCAC 59.814 66.667 0.00 0.00 0.00 3.51
36 37 2.896443 CCGCTCTTCCTCCTCACC 59.104 66.667 0.00 0.00 0.00 4.02
37 38 1.984570 CCGCTCTTCCTCCTCACCA 60.985 63.158 0.00 0.00 0.00 4.17
38 39 1.216710 CGCTCTTCCTCCTCACCAC 59.783 63.158 0.00 0.00 0.00 4.16
39 40 1.216710 GCTCTTCCTCCTCACCACG 59.783 63.158 0.00 0.00 0.00 4.94
40 41 1.216710 CTCTTCCTCCTCACCACGC 59.783 63.158 0.00 0.00 0.00 5.34
41 42 2.232298 CTCTTCCTCCTCACCACGCC 62.232 65.000 0.00 0.00 0.00 5.68
42 43 3.649277 CTTCCTCCTCACCACGCCG 62.649 68.421 0.00 0.00 0.00 6.46
48 49 4.662961 CTCACCACGCCGCAGACA 62.663 66.667 0.00 0.00 0.00 3.41
49 50 4.228567 TCACCACGCCGCAGACAA 62.229 61.111 0.00 0.00 0.00 3.18
50 51 4.012895 CACCACGCCGCAGACAAC 62.013 66.667 0.00 0.00 0.00 3.32
53 54 3.767230 CACGCCGCAGACAACGAG 61.767 66.667 0.00 0.00 0.00 4.18
57 58 2.571757 CCGCAGACAACGAGGCTA 59.428 61.111 0.00 0.00 29.36 3.93
58 59 1.805945 CCGCAGACAACGAGGCTAC 60.806 63.158 0.00 0.00 29.36 3.58
59 60 2.152699 CGCAGACAACGAGGCTACG 61.153 63.158 0.00 0.00 35.43 3.51
60 61 2.445438 GCAGACAACGAGGCTACGC 61.445 63.158 6.32 0.00 29.36 4.42
70 71 4.301027 GGCTACGCCCAGGGATCG 62.301 72.222 10.89 6.85 44.06 3.69
71 72 4.301027 GCTACGCCCAGGGATCGG 62.301 72.222 10.89 0.00 0.00 4.18
72 73 4.301027 CTACGCCCAGGGATCGGC 62.301 72.222 10.89 0.00 42.05 5.54
82 83 3.992317 GGATCGGCCCGCTAGGAC 61.992 72.222 0.00 0.00 42.38 3.85
83 84 3.992317 GATCGGCCCGCTAGGACC 61.992 72.222 0.00 0.00 43.25 4.46
88 89 2.844839 GCCCGCTAGGACCCAGAT 60.845 66.667 0.00 0.00 41.02 2.90
89 90 3.142393 CCCGCTAGGACCCAGATG 58.858 66.667 0.00 0.00 41.02 2.90
90 91 2.511452 CCCGCTAGGACCCAGATGG 61.511 68.421 0.00 0.00 41.02 3.51
100 101 3.255032 CCAGATGGGGCCCTAAGG 58.745 66.667 25.93 15.89 0.00 2.69
110 111 4.758982 CCCTAAGGGCCCAGATCT 57.241 61.111 27.56 0.00 35.35 2.75
111 112 2.149530 CCCTAAGGGCCCAGATCTG 58.850 63.158 27.56 16.24 35.35 2.90
112 113 1.422161 CCCTAAGGGCCCAGATCTGG 61.422 65.000 31.69 31.69 41.54 3.86
120 121 2.444706 CCAGATCTGGGCCGAGGA 60.445 66.667 31.14 4.10 46.81 3.71
121 122 2.801631 CCAGATCTGGGCCGAGGAC 61.802 68.421 31.14 9.21 46.81 3.85
122 123 2.835431 AGATCTGGGCCGAGGACG 60.835 66.667 15.52 0.00 39.43 4.79
123 124 4.593864 GATCTGGGCCGAGGACGC 62.594 72.222 15.52 0.00 38.29 5.19
973 974 8.574196 AATTAATCAAGCTAAAACACACACAC 57.426 30.769 0.00 0.00 0.00 3.82
977 978 3.668596 AGCTAAAACACACACACGAAC 57.331 42.857 0.00 0.00 0.00 3.95
1121 2081 2.805353 CAACTCTGACGCCGACCG 60.805 66.667 0.00 0.00 44.21 4.79
1143 2103 1.188219 AGACGCTCCTCTGCCTCAAA 61.188 55.000 0.00 0.00 0.00 2.69
1177 2137 0.036952 CAATCTCACCACTGGAGCGT 60.037 55.000 0.71 0.00 32.38 5.07
1230 2190 1.958715 TCAATGGCGTGGTGTGACG 60.959 57.895 0.00 0.00 42.42 4.35
1236 2196 3.337889 CGTGGTGTGACGTGCAGG 61.338 66.667 4.53 4.53 34.56 4.85
1361 2321 4.024048 CAGGATAAACATGCCGGACAATAC 60.024 45.833 5.05 0.00 0.00 1.89
1443 2403 0.886490 GCATCAACTCCATAGGCGGG 60.886 60.000 0.00 0.00 0.00 6.13
1674 2634 1.425066 TCAGGCACCATTCCTCAGTTT 59.575 47.619 0.00 0.00 0.00 2.66
1710 2670 2.224305 ACGTCTTACCAAGCTTGCTCTT 60.224 45.455 21.43 7.09 0.00 2.85
1722 2682 2.544277 GCTTGCTCTTGACAACAATGCA 60.544 45.455 0.00 0.00 40.55 3.96
1727 2687 4.021807 TGCTCTTGACAACAATGCATTCAT 60.022 37.500 9.53 0.00 38.94 2.57
1791 2751 4.082026 GCTTACCTCAACCTTGCATCAAAT 60.082 41.667 0.00 0.00 0.00 2.32
1977 2937 5.489278 ACCTAGCTCATTAGGGAACTTTTCT 59.511 40.000 5.27 0.00 43.76 2.52
2124 3084 6.662755 TCCAACTATATATGCAATCCCATCC 58.337 40.000 0.00 0.00 0.00 3.51
2207 3167 6.273825 GCTATACACTTCCGAGAATTCAGAA 58.726 40.000 8.44 6.80 0.00 3.02
2472 3432 8.840200 ATAATCTTCAAGGAGAGTTACCTACA 57.160 34.615 0.00 0.00 36.67 2.74
2491 3451 1.338973 CATCCATTGGCAATCTTCCGG 59.661 52.381 10.36 8.45 0.00 5.14
2497 3457 1.253100 TGGCAATCTTCCGGAAAACC 58.747 50.000 19.39 14.72 0.00 3.27
2559 3519 7.384387 GGTTTCGTACATCCAGATATAGGAAAC 59.616 40.741 23.36 23.36 45.32 2.78
2575 3535 2.563179 GGAAACCTCAGCAGTCTCACTA 59.437 50.000 0.00 0.00 0.00 2.74
2638 3598 5.882557 CCTGCTACACTTGGAAATATTCAGT 59.117 40.000 0.00 0.00 0.00 3.41
2941 3901 5.530543 GGCAGCTTAAATAATCTTGAGCTCT 59.469 40.000 16.19 0.00 44.03 4.09
3043 4003 7.953005 TTGGATGCAAATTATCTTGAAGGTA 57.047 32.000 0.00 0.00 0.00 3.08
3144 4104 3.951775 AGCTTCTTCGAGTCATTCAGT 57.048 42.857 0.00 0.00 0.00 3.41
3297 4257 7.221450 TGCAACTACAACCTTGTATTAAGTCT 58.779 34.615 0.00 0.00 42.26 3.24
3355 4315 3.004862 GTGGTGGTTCCTATTGTTACCG 58.995 50.000 0.00 0.00 37.07 4.02
3369 4329 4.510038 TGTTACCGTTGTTCTAGTCTCC 57.490 45.455 0.00 0.00 0.00 3.71
3504 4464 7.121315 GCAACAGGTGGTTTCTCTTCTATTAAT 59.879 37.037 0.00 0.00 37.72 1.40
4120 5080 0.178947 TGTTTACCCCCTGCCCTTTG 60.179 55.000 0.00 0.00 0.00 2.77
4152 5112 7.476540 AAGGAAATCATGTTTACCTTTACCC 57.523 36.000 9.73 0.00 34.66 3.69
4154 5114 7.013834 AGGAAATCATGTTTACCTTTACCCAA 58.986 34.615 0.00 0.00 0.00 4.12
4399 5484 8.235905 GGAATTATTCTGCTAGAAATGCTGATC 58.764 37.037 4.87 0.00 37.82 2.92
4523 5608 3.525609 TCTTATTCCACAATACCAGGGCA 59.474 43.478 0.00 0.00 0.00 5.36
4529 5614 1.959985 CACAATACCAGGGCAAACACA 59.040 47.619 0.00 0.00 0.00 3.72
4530 5615 1.960689 ACAATACCAGGGCAAACACAC 59.039 47.619 0.00 0.00 0.00 3.82
4720 5807 6.913170 ACTACATGAGCGAACAAATGAAATT 58.087 32.000 0.00 0.00 38.98 1.82
4736 5823 9.305110 CAAATGAAATTTCTGTAATTCGTTTGC 57.695 29.630 18.64 0.00 44.81 3.68
4752 5839 5.568482 TCGTTTGCTCGAATAAAATCCATG 58.432 37.500 0.00 0.00 36.89 3.66
4760 5847 7.706179 TGCTCGAATAAAATCCATGGAAATTTC 59.294 33.333 24.37 18.19 0.00 2.17
5011 6098 3.542712 TCATTTGCTTTCTTCGCTGTC 57.457 42.857 0.00 0.00 0.00 3.51
5055 6142 4.904895 AGAACTTTACCCAGTAACCTCC 57.095 45.455 0.00 0.00 0.00 4.30
5058 6145 2.305052 ACTTTACCCAGTAACCTCCAGC 59.695 50.000 0.00 0.00 0.00 4.85
5116 6203 8.579863 GTTTTGATAGCCTGCCTGATAAATAAT 58.420 33.333 0.00 0.00 0.00 1.28
5117 6204 9.806448 TTTTGATAGCCTGCCTGATAAATAATA 57.194 29.630 0.00 0.00 0.00 0.98
5118 6205 9.453572 TTTGATAGCCTGCCTGATAAATAATAG 57.546 33.333 0.00 0.00 0.00 1.73
5185 6273 8.788806 TGAAATTTTCAACATAGTACATTCGGT 58.211 29.630 9.36 0.00 36.59 4.69
5197 6285 3.334583 ACATTCGGTGAGTAACATGCT 57.665 42.857 0.00 0.00 0.00 3.79
5198 6286 4.465632 ACATTCGGTGAGTAACATGCTA 57.534 40.909 0.00 0.00 0.00 3.49
5199 6287 4.433615 ACATTCGGTGAGTAACATGCTAG 58.566 43.478 0.00 0.00 0.00 3.42
5243 6343 9.492730 AACAGAATTATCAAAATATGAACCCCT 57.507 29.630 0.00 0.00 42.54 4.79
5244 6344 8.917088 ACAGAATTATCAAAATATGAACCCCTG 58.083 33.333 0.00 0.00 42.54 4.45
5245 6345 8.917088 CAGAATTATCAAAATATGAACCCCTGT 58.083 33.333 0.00 0.00 42.54 4.00
5246 6346 9.492730 AGAATTATCAAAATATGAACCCCTGTT 57.507 29.630 0.00 0.00 42.54 3.16
5248 6348 9.889128 AATTATCAAAATATGAACCCCTGTTTG 57.111 29.630 0.00 0.00 42.54 2.93
5347 6447 0.737715 ATCAGAGGAAACTGCGCGAC 60.738 55.000 12.10 0.88 44.43 5.19
5349 6449 3.119096 GAGGAAACTGCGCGACCC 61.119 66.667 12.10 0.00 44.43 4.46
5393 6493 1.609555 CCCCAACGAATTTCACGGAAA 59.390 47.619 0.00 2.25 35.94 3.13
5394 6494 2.034812 CCCCAACGAATTTCACGGAAAA 59.965 45.455 0.00 0.00 35.11 2.29
5471 6573 3.119245 GGATACAGTCGTTGCTTGTCCTA 60.119 47.826 0.00 0.00 0.00 2.94
5580 6682 2.348998 CGCTGCCTCTGGGTCTTT 59.651 61.111 0.00 0.00 34.45 2.52
5582 6684 0.890996 CGCTGCCTCTGGGTCTTTTT 60.891 55.000 0.00 0.00 34.45 1.94
5674 6786 2.322161 GGAACGAAGATGACGAACGAA 58.678 47.619 0.14 0.00 34.70 3.85
5675 6787 2.090195 GGAACGAAGATGACGAACGAAC 59.910 50.000 0.14 0.00 34.70 3.95
5676 6788 1.324718 ACGAAGATGACGAACGAACG 58.675 50.000 0.14 0.00 39.31 3.95
5677 6789 1.069703 ACGAAGATGACGAACGAACGA 60.070 47.619 11.97 0.00 37.03 3.85
5678 6790 1.974000 CGAAGATGACGAACGAACGAA 59.026 47.619 11.97 2.08 37.03 3.85
5679 6791 2.222007 CGAAGATGACGAACGAACGAAC 60.222 50.000 11.97 6.89 37.03 3.95
5680 6792 2.701073 AGATGACGAACGAACGAACT 57.299 45.000 11.97 4.15 37.03 3.01
5681 6793 3.818961 AGATGACGAACGAACGAACTA 57.181 42.857 11.97 0.00 37.03 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 4.918201 GAGCGGCTCGGATTGGGG 62.918 72.222 15.09 0.00 0.00 4.96
8 9 3.391665 AAGAGCGGCTCGGATTGGG 62.392 63.158 23.15 0.00 35.36 4.12
9 10 1.884926 GAAGAGCGGCTCGGATTGG 60.885 63.158 23.15 0.00 35.36 3.16
10 11 1.884926 GGAAGAGCGGCTCGGATTG 60.885 63.158 23.15 0.00 35.36 2.67
11 12 2.022240 GAGGAAGAGCGGCTCGGATT 62.022 60.000 23.15 13.02 35.36 3.01
12 13 2.443016 AGGAAGAGCGGCTCGGAT 60.443 61.111 23.15 14.10 35.36 4.18
13 14 3.141488 GAGGAAGAGCGGCTCGGA 61.141 66.667 23.15 0.00 35.36 4.55
14 15 4.214327 GGAGGAAGAGCGGCTCGG 62.214 72.222 23.15 0.00 35.36 4.63
15 16 3.132481 GAGGAGGAAGAGCGGCTCG 62.132 68.421 23.15 0.00 35.36 5.03
16 17 2.055042 TGAGGAGGAAGAGCGGCTC 61.055 63.158 22.13 22.13 0.00 4.70
17 18 2.038007 TGAGGAGGAAGAGCGGCT 59.962 61.111 0.00 0.00 0.00 5.52
18 19 2.185608 GTGAGGAGGAAGAGCGGC 59.814 66.667 0.00 0.00 0.00 6.53
19 20 1.984570 TGGTGAGGAGGAAGAGCGG 60.985 63.158 0.00 0.00 0.00 5.52
20 21 1.216710 GTGGTGAGGAGGAAGAGCG 59.783 63.158 0.00 0.00 0.00 5.03
21 22 1.216710 CGTGGTGAGGAGGAAGAGC 59.783 63.158 0.00 0.00 0.00 4.09
22 23 1.216710 GCGTGGTGAGGAGGAAGAG 59.783 63.158 0.00 0.00 0.00 2.85
23 24 2.283529 GGCGTGGTGAGGAGGAAGA 61.284 63.158 0.00 0.00 0.00 2.87
24 25 2.266055 GGCGTGGTGAGGAGGAAG 59.734 66.667 0.00 0.00 0.00 3.46
25 26 3.691342 CGGCGTGGTGAGGAGGAA 61.691 66.667 0.00 0.00 0.00 3.36
31 32 4.662961 TGTCTGCGGCGTGGTGAG 62.663 66.667 9.37 0.00 0.00 3.51
32 33 4.228567 TTGTCTGCGGCGTGGTGA 62.229 61.111 9.37 0.00 0.00 4.02
33 34 4.012895 GTTGTCTGCGGCGTGGTG 62.013 66.667 9.37 0.00 0.00 4.17
36 37 3.767230 CTCGTTGTCTGCGGCGTG 61.767 66.667 9.37 1.75 0.00 5.34
39 40 3.642778 TAGCCTCGTTGTCTGCGGC 62.643 63.158 0.00 0.00 40.99 6.53
40 41 1.805945 GTAGCCTCGTTGTCTGCGG 60.806 63.158 0.00 0.00 0.00 5.69
41 42 2.152699 CGTAGCCTCGTTGTCTGCG 61.153 63.158 0.00 0.00 0.00 5.18
42 43 3.768632 CGTAGCCTCGTTGTCTGC 58.231 61.111 0.00 0.00 0.00 4.26
55 56 4.301027 GCCGATCCCTGGGCGTAG 62.301 72.222 8.22 0.00 39.93 3.51
65 66 3.992317 GTCCTAGCGGGCCGATCC 61.992 72.222 33.44 12.71 34.39 3.36
71 72 2.844839 ATCTGGGTCCTAGCGGGC 60.845 66.667 0.00 0.00 34.39 6.13
72 73 2.511452 CCATCTGGGTCCTAGCGGG 61.511 68.421 0.00 0.00 0.00 6.13
73 74 3.142393 CCATCTGGGTCCTAGCGG 58.858 66.667 0.00 0.00 0.00 5.52
83 84 2.464403 CCCTTAGGGCCCCATCTGG 61.464 68.421 21.43 13.90 35.35 3.86
84 85 3.255032 CCCTTAGGGCCCCATCTG 58.745 66.667 21.43 3.19 35.35 2.90
93 94 1.422161 CCAGATCTGGGCCCTTAGGG 61.422 65.000 31.14 14.11 46.81 3.53
94 95 2.149530 CCAGATCTGGGCCCTTAGG 58.850 63.158 31.14 12.37 46.81 2.69
104 105 2.818132 GTCCTCGGCCCAGATCTG 59.182 66.667 16.24 16.24 0.00 2.90
105 106 2.835431 CGTCCTCGGCCCAGATCT 60.835 66.667 0.00 0.00 0.00 2.75
106 107 4.593864 GCGTCCTCGGCCCAGATC 62.594 72.222 0.00 0.00 37.56 2.75
973 974 6.535150 TGAGTAGCTAGATGAAAATTGGTTCG 59.465 38.462 0.00 0.00 0.00 3.95
977 978 7.255035 CCATGTGAGTAGCTAGATGAAAATTGG 60.255 40.741 0.00 0.00 0.00 3.16
1121 2081 2.183046 GGCAGAGGAGCGTCTGTC 59.817 66.667 18.10 13.81 45.07 3.51
1161 2121 1.367471 CAACGCTCCAGTGGTGAGA 59.633 57.895 20.00 0.00 45.53 3.27
1177 2137 2.902419 CGTGTCGCCATGTTGCCAA 61.902 57.895 0.00 0.00 0.00 4.52
1230 2190 2.740055 CTCTGCACCGTCCTGCAC 60.740 66.667 0.00 0.00 42.36 4.57
1361 2321 1.442526 GGGAATGCTGCCACTGATCG 61.443 60.000 0.00 0.00 32.01 3.69
1443 2403 0.466189 ACAATGCATCGGGGATCACC 60.466 55.000 2.96 2.96 39.11 4.02
1459 2419 0.179004 AGGCGGGAACACATTGACAA 60.179 50.000 0.00 0.00 0.00 3.18
1603 2563 0.890996 AGGTTCCGAAGCAAGGCAAG 60.891 55.000 12.65 0.00 0.00 4.01
1674 2634 3.358554 ACGTGAGTTGCCTCCTAGA 57.641 52.632 0.00 0.00 46.40 2.43
1710 2670 5.499313 TCTCCTATGAATGCATTGTTGTCA 58.501 37.500 18.59 8.70 35.94 3.58
1722 2682 4.137543 GGCGTGGAATTTCTCCTATGAAT 58.862 43.478 0.00 0.00 45.64 2.57
1727 2687 1.485066 GGAGGCGTGGAATTTCTCCTA 59.515 52.381 0.00 0.00 45.64 2.94
1744 2704 1.268352 CGAGGAGGAATTCGCTAGGAG 59.732 57.143 0.00 0.00 0.00 3.69
1791 2751 1.693627 GGATCTCTCCACGGAGCTTA 58.306 55.000 8.31 0.00 41.64 3.09
1977 2937 2.467880 AGCAAGAGGAACGATAGGGAA 58.532 47.619 0.00 0.00 43.77 3.97
2088 3048 1.429930 TAGTTGGAGGAACTGTGCCA 58.570 50.000 7.75 0.00 45.05 4.92
2124 3084 4.455606 CTCCAAGGCCAAGATAAGTTAGG 58.544 47.826 5.01 0.00 0.00 2.69
2207 3167 4.079253 CTGGTTACCTTGCATTACCAACT 58.921 43.478 2.07 0.00 38.33 3.16
2472 3432 1.215173 TCCGGAAGATTGCCAATGGAT 59.785 47.619 0.00 0.00 0.00 3.41
2497 3457 4.318332 TCATTCAGAAGCAACCACTGTAG 58.682 43.478 0.00 0.00 33.93 2.74
2539 3499 7.540474 TGAGGTTTCCTATATCTGGATGTAC 57.460 40.000 0.00 0.00 31.76 2.90
2559 3519 6.154203 TGAATAATAGTGAGACTGCTGAGG 57.846 41.667 0.00 0.00 0.00 3.86
2638 3598 5.620206 TGCTAAATTCAGGACAAACAGAGA 58.380 37.500 0.00 0.00 0.00 3.10
2917 3877 5.530543 AGAGCTCAAGATTATTTAAGCTGCC 59.469 40.000 17.77 0.00 40.01 4.85
2941 3901 4.985538 AGCTGGTTGTTGGAGAGATTAAA 58.014 39.130 0.00 0.00 0.00 1.52
2979 3939 3.460648 GCACTGGCCGAGACTATTT 57.539 52.632 8.91 0.00 0.00 1.40
3043 4003 5.595952 GGTTCATAAAAGATCCAGGAATGCT 59.404 40.000 0.00 0.00 0.00 3.79
3144 4104 4.761235 CAGATTCAGAAGCTGCAAAGAA 57.239 40.909 15.31 0.00 38.17 2.52
3355 4315 6.276847 CACATATGAGGGAGACTAGAACAAC 58.723 44.000 10.38 0.00 0.00 3.32
3504 4464 1.081092 CCCTCCCTCTCCAACCAGA 59.919 63.158 0.00 0.00 0.00 3.86
3736 4696 5.246307 ACTTTCTAGGCTACCATTTGACAC 58.754 41.667 0.00 0.00 0.00 3.67
4095 5055 2.031870 GGCAGGGGGTAAACATGATTC 58.968 52.381 0.00 0.00 0.00 2.52
4399 5484 2.744202 CTCATCTGTTGGGTTCTTTCCG 59.256 50.000 0.00 0.00 0.00 4.30
4523 5608 4.142249 GCCTGAAGGTTTACTTGTGTGTTT 60.142 41.667 0.00 0.00 40.21 2.83
4529 5614 3.157087 CATGGCCTGAAGGTTTACTTGT 58.843 45.455 3.32 0.00 40.21 3.16
4530 5615 2.493278 CCATGGCCTGAAGGTTTACTTG 59.507 50.000 3.32 0.00 40.21 3.16
4736 5823 8.579682 GGAAATTTCCATGGATTTTATTCGAG 57.420 34.615 28.76 0.00 46.76 4.04
4752 5839 8.956426 TGAATGTACTTACAGATGGAAATTTCC 58.044 33.333 27.39 27.39 42.70 3.13
4760 5847 5.423015 ACTGCTGAATGTACTTACAGATGG 58.577 41.667 14.38 7.90 39.92 3.51
5011 6098 3.616821 TCGCTCAAATATTGTGAAGGTCG 59.383 43.478 0.00 0.00 0.00 4.79
5055 6142 8.251750 TGCTAGTTACAGTTTTACTAATGCTG 57.748 34.615 0.00 0.00 0.00 4.41
5169 6257 6.927416 TGTTACTCACCGAATGTACTATGTT 58.073 36.000 0.00 0.00 0.00 2.71
5197 6285 6.320418 TCTGTTAGAAATGTCGGATGCTACTA 59.680 38.462 0.00 0.00 0.00 1.82
5198 6286 5.127194 TCTGTTAGAAATGTCGGATGCTACT 59.873 40.000 0.00 0.00 0.00 2.57
5199 6287 5.348986 TCTGTTAGAAATGTCGGATGCTAC 58.651 41.667 0.00 0.00 0.00 3.58
5243 6343 3.691609 TGTTGCATGTGTCTGTACAAACA 59.308 39.130 0.00 0.00 37.36 2.83
5244 6344 4.285807 TGTTGCATGTGTCTGTACAAAC 57.714 40.909 0.00 0.00 37.36 2.93
5245 6345 4.972514 TTGTTGCATGTGTCTGTACAAA 57.027 36.364 0.00 0.00 37.36 2.83
5246 6346 4.972514 TTTGTTGCATGTGTCTGTACAA 57.027 36.364 0.00 0.00 37.36 2.41
5247 6347 4.972514 TTTTGTTGCATGTGTCTGTACA 57.027 36.364 0.00 0.00 34.63 2.90
5248 6348 6.344936 CGAAATTTTGTTGCATGTGTCTGTAC 60.345 38.462 0.00 0.00 0.00 2.90
5347 6447 1.079888 GCGGTTGCTTCCAAATGGG 60.080 57.895 0.00 0.00 38.39 4.00
5393 6493 5.451242 GGTCTGAGCATACGATCTTCTTCTT 60.451 44.000 1.28 0.00 0.00 2.52
5394 6494 4.037446 GGTCTGAGCATACGATCTTCTTCT 59.963 45.833 1.28 0.00 0.00 2.85
5517 6619 1.590147 CGCCGTCTAGGGTTCAAGT 59.410 57.895 0.00 0.00 41.48 3.16
5582 6684 4.646492 AGAGGCAGCTTTCTCAAAGAAAAA 59.354 37.500 13.62 0.00 42.95 1.94
5584 6686 3.825328 AGAGGCAGCTTTCTCAAAGAAA 58.175 40.909 13.62 2.44 41.51 2.52
5586 6688 3.181451 TGAAGAGGCAGCTTTCTCAAAGA 60.181 43.478 13.62 0.00 41.02 2.52
5587 6689 3.058363 GTGAAGAGGCAGCTTTCTCAAAG 60.058 47.826 13.62 0.00 41.46 2.77
5674 6786 1.632046 CCATTGCGCCGTTAGTTCGT 61.632 55.000 4.18 0.00 0.00 3.85
5675 6787 1.060308 CCATTGCGCCGTTAGTTCG 59.940 57.895 4.18 0.00 0.00 3.95
5676 6788 1.427819 CCCATTGCGCCGTTAGTTC 59.572 57.895 4.18 0.00 0.00 3.01
5677 6789 2.696759 GCCCATTGCGCCGTTAGTT 61.697 57.895 4.18 0.00 0.00 2.24
5678 6790 3.131478 GCCCATTGCGCCGTTAGT 61.131 61.111 4.18 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.