Multiple sequence alignment - TraesCS5A01G227100

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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 TraesCS5A01G227100 chr5A 100.000 3152 0 0 1 3152 443287947 443291098 0.000000e+00 5821.0
1 TraesCS5A01G227100 chr5A 80.702 513 39 25 2171 2663 666110267 666110739 8.370000e-91 344.0
2 TraesCS5A01G227100 chr5A 77.551 196 32 10 1676 1867 459775655 459775468 1.200000e-19 108.0
3 TraesCS5A01G227100 chr5B 90.815 3190 151 61 27 3151 401666171 401669283 0.000000e+00 4137.0
4 TraesCS5A01G227100 chr5D 89.729 3242 159 88 1 3152 342173653 342176810 0.000000e+00 3982.0
5 TraesCS5A01G227100 chr5D 81.287 513 37 24 2171 2663 557973622 557974095 8.310000e-96 361.0
6 TraesCS5A01G227100 chr7A 81.423 506 37 22 2176 2663 108870670 108870204 8.310000e-96 361.0
7 TraesCS5A01G227100 chr1D 81.028 506 37 24 2176 2663 451053048 451052584 6.470000e-92 348.0
8 TraesCS5A01G227100 chr1D 82.117 274 47 2 1622 1894 74928505 74928233 1.890000e-57 233.0
9 TraesCS5A01G227100 chr1D 78.873 284 57 1 1596 1879 44970449 44970169 4.150000e-44 189.0
10 TraesCS5A01G227100 chr1D 77.901 181 34 5 1677 1855 479540793 479540969 1.200000e-19 108.0
11 TraesCS5A01G227100 chr4D 79.348 184 34 4 1677 1858 61852297 61852478 3.300000e-25 126.0
12 TraesCS5A01G227100 chr4D 87.500 80 8 2 1108 1186 61851815 61851893 1.200000e-14 91.6
13 TraesCS5A01G227100 chr4A 79.348 184 34 4 1677 1858 535035687 535035868 3.300000e-25 126.0
14 TraesCS5A01G227100 chr4A 87.500 80 8 2 1108 1186 535035202 535035280 1.200000e-14 91.6
15 TraesCS5A01G227100 chr4A 97.143 35 1 0 1226 1260 576576321 576576287 3.400000e-05 60.2
16 TraesCS5A01G227100 chr4B 79.330 179 29 7 1684 1858 90892347 90892173 5.520000e-23 119.0
17 TraesCS5A01G227100 chr4B 90.141 71 5 2 1117 1186 90892824 90892755 1.200000e-14 91.6
18 TraesCS5A01G227100 chr4B 97.222 36 1 0 1226 1261 39289512 39289547 9.440000e-06 62.1
19 TraesCS5A01G227100 chrUn 97.222 36 1 0 1226 1261 61039929 61039894 9.440000e-06 62.1


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 TraesCS5A01G227100 chr5A 443287947 443291098 3151 False 5821 5821 100.000 1 3152 1 chr5A.!!$F1 3151
1 TraesCS5A01G227100 chr5B 401666171 401669283 3112 False 4137 4137 90.815 27 3151 1 chr5B.!!$F1 3124
2 TraesCS5A01G227100 chr5D 342173653 342176810 3157 False 3982 3982 89.729 1 3152 1 chr5D.!!$F1 3151

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
599 637 0.100861 GTCAAACAAAAACGGCCGGA 59.899 50.0 31.76 10.72 0.00 5.14 F
647 685 0.392863 TTGGATCAGCGGTCCATGTG 60.393 55.0 10.65 0.00 44.75 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2027 2110 0.387239 GTTCATGTTGAAGCCCGTGC 60.387 55.0 0.0 0.0 37.00 5.34 R
2447 2530 1.586422 TCTATTACGGACGGACGGAG 58.414 55.0 6.0 0.0 38.39 4.63 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
25 27 6.951062 TTGATGTTTTCTCACATAACCACA 57.049 33.333 0.00 0.00 37.52 4.17
28 30 6.770303 TGATGTTTTCTCACATAACCACAGAA 59.230 34.615 0.00 0.00 37.52 3.02
87 90 4.916983 TGGCTTGTGGCAAATATATCAC 57.083 40.909 0.00 0.00 46.03 3.06
88 91 4.276642 TGGCTTGTGGCAAATATATCACA 58.723 39.130 0.00 1.82 46.03 3.58
111 114 2.795175 ATACACGTATCCGCTTGAGG 57.205 50.000 0.00 0.00 37.70 3.86
112 115 0.742505 TACACGTATCCGCTTGAGGG 59.257 55.000 0.00 0.00 37.70 4.30
113 116 0.968901 ACACGTATCCGCTTGAGGGA 60.969 55.000 0.00 0.00 37.70 4.20
114 117 0.174845 CACGTATCCGCTTGAGGGAA 59.825 55.000 0.00 0.00 37.07 3.97
127 130 4.651778 CTTGAGGGAAACATAAGTGGTGA 58.348 43.478 0.00 0.00 0.00 4.02
129 132 5.255397 TGAGGGAAACATAAGTGGTGATT 57.745 39.130 0.00 0.00 0.00 2.57
196 199 8.877779 TGTTTTGAGATTTACATTTGTTGGTTG 58.122 29.630 0.00 0.00 0.00 3.77
197 200 8.334632 GTTTTGAGATTTACATTTGTTGGTTGG 58.665 33.333 0.00 0.00 0.00 3.77
264 270 9.710979 TTTGTAACTTTCGATAAGAACAGTTTG 57.289 29.630 12.35 0.00 39.08 2.93
289 295 6.955963 GCACGTTTTCTTACTTGATCACATAG 59.044 38.462 0.00 0.00 0.00 2.23
290 296 7.360101 GCACGTTTTCTTACTTGATCACATAGT 60.360 37.037 0.00 0.00 0.00 2.12
291 297 9.135843 CACGTTTTCTTACTTGATCACATAGTA 57.864 33.333 0.00 0.00 0.00 1.82
292 298 9.871238 ACGTTTTCTTACTTGATCACATAGTAT 57.129 29.630 6.58 0.00 0.00 2.12
441 461 2.426738 CTGTGGTTGGTCACAAATGTGT 59.573 45.455 12.87 0.00 45.60 3.72
474 494 6.540914 TGCATGCTTACTAATTTGTACTACCC 59.459 38.462 20.33 0.00 0.00 3.69
506 528 7.140705 TGAAAAACATACATTGACAGCTCAAG 58.859 34.615 0.00 0.00 39.83 3.02
509 531 7.744087 AAACATACATTGACAGCTCAAGTTA 57.256 32.000 0.00 0.00 39.83 2.24
554 577 4.933064 CGCGTCGCCTCCATCTCC 62.933 72.222 12.44 0.00 0.00 3.71
572 610 0.857311 CCGTGATGATGCGCGAAAAC 60.857 55.000 12.10 0.00 43.93 2.43
575 613 0.369931 TGATGATGCGCGAAAACGAG 59.630 50.000 12.10 0.00 34.06 4.18
599 637 0.100861 GTCAAACAAAAACGGCCGGA 59.899 50.000 31.76 10.72 0.00 5.14
630 668 1.672881 GCCCGTCTTGATTGATCCTTG 59.327 52.381 0.00 0.00 0.00 3.61
647 685 0.392863 TTGGATCAGCGGTCCATGTG 60.393 55.000 10.65 0.00 44.75 3.21
705 744 1.503542 GCACCTGCAACCGATTCAG 59.496 57.895 0.00 0.00 41.59 3.02
780 823 5.930837 TGGGAAATTTCTCTTTTGTGTGT 57.069 34.783 18.69 0.00 0.00 3.72
781 824 5.659463 TGGGAAATTTCTCTTTTGTGTGTG 58.341 37.500 18.69 0.00 0.00 3.82
783 826 5.519927 GGGAAATTTCTCTTTTGTGTGTGTG 59.480 40.000 17.42 0.00 0.00 3.82
786 829 5.643379 ATTTCTCTTTTGTGTGTGTGTGT 57.357 34.783 0.00 0.00 0.00 3.72
787 830 6.751514 ATTTCTCTTTTGTGTGTGTGTGTA 57.248 33.333 0.00 0.00 0.00 2.90
788 831 6.751514 TTTCTCTTTTGTGTGTGTGTGTAT 57.248 33.333 0.00 0.00 0.00 2.29
789 832 5.733226 TCTCTTTTGTGTGTGTGTGTATG 57.267 39.130 0.00 0.00 0.00 2.39
790 833 4.035091 TCTCTTTTGTGTGTGTGTGTATGC 59.965 41.667 0.00 0.00 0.00 3.14
791 834 3.944650 TCTTTTGTGTGTGTGTGTATGCT 59.055 39.130 0.00 0.00 0.00 3.79
792 835 3.961477 TTTGTGTGTGTGTGTATGCTC 57.039 42.857 0.00 0.00 0.00 4.26
793 836 2.611225 TGTGTGTGTGTGTATGCTCA 57.389 45.000 0.00 0.00 0.00 4.26
794 837 3.124578 TGTGTGTGTGTGTATGCTCAT 57.875 42.857 0.00 0.00 0.00 2.90
875 922 5.979288 TTTATACTCTTATCTCCTCGCCC 57.021 43.478 0.00 0.00 0.00 6.13
1278 1349 2.187946 CTCGTGATGGTGGAGGGC 59.812 66.667 0.00 0.00 0.00 5.19
1554 1634 1.591863 GCCGCCGTACATCTCTTCC 60.592 63.158 0.00 0.00 0.00 3.46
2352 2435 5.615289 CTTTATCTGTTCTTGGGATCCGAT 58.385 41.667 5.45 2.79 0.00 4.18
2353 2436 2.988010 TCTGTTCTTGGGATCCGATG 57.012 50.000 5.45 4.35 0.00 3.84
2354 2437 1.486310 TCTGTTCTTGGGATCCGATGG 59.514 52.381 5.45 0.00 0.00 3.51
2355 2438 1.486310 CTGTTCTTGGGATCCGATGGA 59.514 52.381 5.45 0.00 35.55 3.41
2364 2447 1.072965 GGATCCGATGGATGGAAGCTT 59.927 52.381 0.00 0.00 43.27 3.74
2439 2522 4.750598 GTCTGTTCTTGTCCCTGTAAGTTC 59.249 45.833 0.00 0.00 0.00 3.01
2441 2524 5.071788 TCTGTTCTTGTCCCTGTAAGTTCAT 59.928 40.000 0.00 0.00 0.00 2.57
2447 2530 2.170817 GTCCCTGTAAGTTCATCTCCCC 59.829 54.545 0.00 0.00 0.00 4.81
2469 2558 1.672881 CCGTCCGTCCGTAATAGAAGT 59.327 52.381 0.00 0.00 0.00 3.01
2470 2559 2.098117 CCGTCCGTCCGTAATAGAAGTT 59.902 50.000 0.00 0.00 0.00 2.66
2471 2560 3.428045 CCGTCCGTCCGTAATAGAAGTTT 60.428 47.826 0.00 0.00 0.00 2.66
2472 2561 4.201910 CCGTCCGTCCGTAATAGAAGTTTA 60.202 45.833 0.00 0.00 0.00 2.01
2475 2564 6.473455 CGTCCGTCCGTAATAGAAGTTTATTT 59.527 38.462 0.00 0.00 0.00 1.40
2476 2565 7.305648 CGTCCGTCCGTAATAGAAGTTTATTTC 60.306 40.741 0.00 0.00 0.00 2.17
2477 2566 6.980397 TCCGTCCGTAATAGAAGTTTATTTCC 59.020 38.462 0.00 0.00 0.00 3.13
2479 2568 8.137437 CCGTCCGTAATAGAAGTTTATTTCCTA 58.863 37.037 0.00 0.00 0.00 2.94
2480 2569 9.520204 CGTCCGTAATAGAAGTTTATTTCCTAA 57.480 33.333 0.00 0.00 0.00 2.69
2571 2662 4.737177 AGCCTCCCTGCTTGCAGC 62.737 66.667 16.37 6.40 38.85 5.25
2655 2752 4.204799 GCTTTCCCGGTAGAATAATGGTT 58.795 43.478 0.00 0.00 0.00 3.67
2720 2819 5.527951 CGCCATTTTTATAATGCTTGCCTA 58.472 37.500 0.00 0.00 0.00 3.93
2721 2820 5.630680 CGCCATTTTTATAATGCTTGCCTAG 59.369 40.000 0.00 0.00 0.00 3.02
2751 2850 4.758251 TGCATCCCCACGAGCACG 62.758 66.667 0.76 0.76 45.75 5.34
2752 2851 4.451150 GCATCCCCACGAGCACGA 62.451 66.667 11.40 0.00 42.66 4.35
2753 2852 2.202797 CATCCCCACGAGCACGAG 60.203 66.667 11.40 1.50 42.66 4.18
2754 2853 4.148825 ATCCCCACGAGCACGAGC 62.149 66.667 11.40 0.00 42.66 5.03
2798 2897 3.850122 CCTAAACAAAGGCCAAGCTAC 57.150 47.619 5.01 0.00 0.00 3.58
2799 2898 2.161609 CCTAAACAAAGGCCAAGCTACG 59.838 50.000 5.01 0.00 0.00 3.51
2820 2919 2.180017 CATCACCTTTGCTGCGCC 59.820 61.111 4.18 0.00 0.00 6.53
2872 2975 1.884926 GCCATCACCAGCTACTCGC 60.885 63.158 0.00 0.00 39.57 5.03
2907 3015 2.220313 AGGAGTAGAATAGTCGTCGCC 58.780 52.381 3.33 3.33 41.99 5.54
2910 3018 0.307146 GTAGAATAGTCGTCGCCGCT 59.693 55.000 0.00 0.00 0.00 5.52
2919 3035 3.894947 GTCGCCGCTCCTCTCTCC 61.895 72.222 0.00 0.00 0.00 3.71
3030 3146 2.262292 CATTTGGGCTTGGGCACG 59.738 61.111 0.00 0.00 46.54 5.34
3031 3147 3.694538 ATTTGGGCTTGGGCACGC 61.695 61.111 0.00 0.00 46.54 5.34
3104 3228 2.014018 CGGCGGAAACAAAAAGCGG 61.014 57.895 0.00 0.00 0.00 5.52
3116 3240 0.798776 AAAAGCGGACGCAGAAGATG 59.201 50.000 19.48 0.00 44.88 2.90
3120 3244 2.892425 GGACGCAGAAGATGGCCG 60.892 66.667 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 6.514870 GCAACATTCTGTGGTTATGTGAGAAA 60.515 38.462 0.00 0.00 33.10 2.52
19 21 4.831107 AGTTTTTGCAACATTCTGTGGTT 58.169 34.783 0.00 0.00 0.00 3.67
21 23 5.347342 TGTAGTTTTTGCAACATTCTGTGG 58.653 37.500 0.00 0.00 0.00 4.17
25 27 9.762933 AACATAATGTAGTTTTTGCAACATTCT 57.237 25.926 13.88 4.14 40.67 2.40
129 132 8.716779 GGGATATAACCCCCGTATTCAATTATA 58.283 37.037 6.82 0.00 43.81 0.98
167 170 8.877779 CCAACAAATGTAAATCTCAAAACACAA 58.122 29.630 0.00 0.00 0.00 3.33
186 189 7.646314 CAAATAATGCATTTCCAACCAACAAA 58.354 30.769 18.75 0.00 34.49 2.83
264 270 5.090652 TGTGATCAAGTAAGAAAACGTGC 57.909 39.130 0.00 0.00 0.00 5.34
289 295 7.145932 ACTTGGATTTGAAGTTGCTACATAC 57.854 36.000 0.13 0.00 28.94 2.39
290 296 7.759489 AACTTGGATTTGAAGTTGCTACATA 57.241 32.000 0.13 0.00 41.16 2.29
291 297 6.655078 AACTTGGATTTGAAGTTGCTACAT 57.345 33.333 0.13 0.00 41.16 2.29
292 298 7.255451 CCTTAACTTGGATTTGAAGTTGCTACA 60.255 37.037 0.00 0.00 42.35 2.74
462 482 9.705290 GTTTTTCATCAATTGGGTAGTACAAAT 57.295 29.630 5.42 0.00 0.00 2.32
464 484 8.239038 TGTTTTTCATCAATTGGGTAGTACAA 57.761 30.769 5.42 0.00 0.00 2.41
465 485 7.825331 TGTTTTTCATCAATTGGGTAGTACA 57.175 32.000 5.42 0.44 0.00 2.90
466 486 9.783256 GTATGTTTTTCATCAATTGGGTAGTAC 57.217 33.333 5.42 0.00 37.91 2.73
468 488 8.415950 TGTATGTTTTTCATCAATTGGGTAGT 57.584 30.769 5.42 0.00 37.91 2.73
506 528 3.317993 ACTGTTGCACATTTGTCCCTAAC 59.682 43.478 0.00 0.00 0.00 2.34
509 531 1.682854 CACTGTTGCACATTTGTCCCT 59.317 47.619 0.00 0.00 0.00 4.20
554 577 1.181514 CGTTTTCGCGCATCATCACG 61.182 55.000 8.75 3.69 36.22 4.35
572 610 2.286772 CGTTTTTGTTTGACCTCCCTCG 60.287 50.000 0.00 0.00 0.00 4.63
575 613 1.537348 GCCGTTTTTGTTTGACCTCCC 60.537 52.381 0.00 0.00 0.00 4.30
630 668 0.392998 AACACATGGACCGCTGATCC 60.393 55.000 0.00 0.00 36.70 3.36
647 685 1.079336 GTCACCGCCCAGGAGTAAC 60.079 63.158 0.00 0.00 45.00 2.50
705 744 1.391485 GATCATGACGACACACTGTGC 59.609 52.381 9.20 1.76 36.98 4.57
780 823 4.161001 AGTGATGAGATGAGCATACACACA 59.839 41.667 0.00 0.00 31.87 3.72
781 824 4.691175 AGTGATGAGATGAGCATACACAC 58.309 43.478 0.00 0.00 31.87 3.82
783 826 6.368243 CCATTAGTGATGAGATGAGCATACAC 59.632 42.308 0.00 0.00 38.03 2.90
786 829 5.012354 TGCCATTAGTGATGAGATGAGCATA 59.988 40.000 0.00 0.00 38.03 3.14
787 830 4.202430 TGCCATTAGTGATGAGATGAGCAT 60.202 41.667 0.00 0.00 38.03 3.79
788 831 3.135167 TGCCATTAGTGATGAGATGAGCA 59.865 43.478 0.00 0.00 38.03 4.26
789 832 3.736720 TGCCATTAGTGATGAGATGAGC 58.263 45.455 0.00 0.00 38.03 4.26
790 833 4.695928 CCATGCCATTAGTGATGAGATGAG 59.304 45.833 0.00 0.00 38.03 2.90
791 834 4.348754 TCCATGCCATTAGTGATGAGATGA 59.651 41.667 0.00 0.00 38.03 2.92
792 835 4.648651 TCCATGCCATTAGTGATGAGATG 58.351 43.478 0.00 0.00 38.03 2.90
793 836 4.987963 TCCATGCCATTAGTGATGAGAT 57.012 40.909 0.00 0.00 38.03 2.75
794 837 4.987963 ATCCATGCCATTAGTGATGAGA 57.012 40.909 0.00 0.00 38.03 3.27
875 922 1.817099 GGATGTGAAGCGAGGCCAG 60.817 63.158 5.01 0.00 0.00 4.85
1185 1256 3.642755 GTGTTGAGCTCCACCACG 58.357 61.111 14.87 0.00 28.56 4.94
2025 2108 2.676471 ATGTTGAAGCCCGTGCCC 60.676 61.111 0.00 0.00 38.69 5.36
2027 2110 0.387239 GTTCATGTTGAAGCCCGTGC 60.387 55.000 0.00 0.00 37.00 5.34
2303 2386 3.701542 AGATTTCTAGACATCAGACGGCA 59.298 43.478 18.72 0.00 0.00 5.69
2352 2435 1.838112 AAATCGCAAGCTTCCATCCA 58.162 45.000 0.00 0.00 37.18 3.41
2353 2436 2.291741 CCTAAATCGCAAGCTTCCATCC 59.708 50.000 0.00 0.00 37.18 3.51
2354 2437 3.206150 TCCTAAATCGCAAGCTTCCATC 58.794 45.455 0.00 0.00 37.18 3.51
2355 2438 3.281727 TCCTAAATCGCAAGCTTCCAT 57.718 42.857 0.00 0.00 37.18 3.41
2439 2522 2.442272 ACGGACGGAGGGGAGATG 60.442 66.667 0.00 0.00 0.00 2.90
2441 2524 4.437587 GGACGGACGGAGGGGAGA 62.438 72.222 0.00 0.00 0.00 3.71
2447 2530 1.586422 TCTATTACGGACGGACGGAG 58.414 55.000 6.00 0.00 38.39 4.63
2509 2598 4.025061 GCACAAGTGAGCATGAGATGATAC 60.025 45.833 4.04 0.00 0.00 2.24
2510 2599 4.124970 GCACAAGTGAGCATGAGATGATA 58.875 43.478 4.04 0.00 0.00 2.15
2511 2600 2.943690 GCACAAGTGAGCATGAGATGAT 59.056 45.455 4.04 0.00 0.00 2.45
2571 2662 6.867293 GGAACAACAGGAGTAAGTAAGTACTG 59.133 42.308 0.00 0.00 44.24 2.74
2572 2663 6.552350 TGGAACAACAGGAGTAAGTAAGTACT 59.448 38.462 0.00 0.00 33.73 2.73
2574 2665 6.982160 TGGAACAACAGGAGTAAGTAAGTA 57.018 37.500 0.00 0.00 31.92 2.24
2575 2666 5.881923 TGGAACAACAGGAGTAAGTAAGT 57.118 39.130 0.00 0.00 31.92 2.24
2640 2731 5.263185 CGCAAAAGAACCATTATTCTACCG 58.737 41.667 0.00 0.00 37.99 4.02
2655 2752 3.035727 GGGAAACCGCGCAAAAGA 58.964 55.556 8.75 0.00 43.64 2.52
2751 2850 3.666334 CGTTAATCTATCTGCTCGTGCTC 59.334 47.826 11.19 0.00 40.48 4.26
2752 2851 3.066900 ACGTTAATCTATCTGCTCGTGCT 59.933 43.478 11.19 0.00 40.48 4.40
2753 2852 3.180584 CACGTTAATCTATCTGCTCGTGC 59.819 47.826 1.71 1.71 40.14 5.34
2754 2853 3.180584 GCACGTTAATCTATCTGCTCGTG 59.819 47.826 9.45 9.45 46.16 4.35
2755 2854 3.372954 GCACGTTAATCTATCTGCTCGT 58.627 45.455 0.00 0.00 0.00 4.18
2756 2855 2.402049 CGCACGTTAATCTATCTGCTCG 59.598 50.000 0.00 0.00 0.00 5.03
2798 2897 0.445436 GCAGCAAAGGTGATGTCTCG 59.555 55.000 0.00 0.00 43.30 4.04
2799 2898 0.445436 CGCAGCAAAGGTGATGTCTC 59.555 55.000 0.00 0.00 43.30 3.36
2820 2919 5.011533 AGGAAGGTGCTAACTGCTATAGATG 59.988 44.000 3.21 0.00 43.37 2.90
2872 2975 7.841282 TTCTACTCCTCCTACATTTCCATAG 57.159 40.000 0.00 0.00 0.00 2.23
2881 2984 5.609423 GACGACTATTCTACTCCTCCTACA 58.391 45.833 0.00 0.00 0.00 2.74
2907 3015 1.456518 TGGATGGGAGAGAGGAGCG 60.457 63.158 0.00 0.00 0.00 5.03
2910 3018 1.758514 GCGTGGATGGGAGAGAGGA 60.759 63.158 0.00 0.00 0.00 3.71
2919 3035 0.597568 AATGTGTTGTGCGTGGATGG 59.402 50.000 0.00 0.00 0.00 3.51
3030 3146 2.123726 GATGGATGGTGGTGGGGC 60.124 66.667 0.00 0.00 0.00 5.80
3031 3147 2.603008 GGATGGATGGTGGTGGGG 59.397 66.667 0.00 0.00 0.00 4.96
3034 3150 1.076777 GTGGGGATGGATGGTGGTG 60.077 63.158 0.00 0.00 0.00 4.17
3035 3151 2.316586 GGTGGGGATGGATGGTGGT 61.317 63.158 0.00 0.00 0.00 4.16
3036 3152 1.658053 ATGGTGGGGATGGATGGTGG 61.658 60.000 0.00 0.00 0.00 4.61
3037 3153 0.178981 GATGGTGGGGATGGATGGTG 60.179 60.000 0.00 0.00 0.00 4.17
3038 3154 1.363530 GGATGGTGGGGATGGATGGT 61.364 60.000 0.00 0.00 0.00 3.55
3039 3155 1.462035 GGATGGTGGGGATGGATGG 59.538 63.158 0.00 0.00 0.00 3.51
3040 3156 1.362744 TGGGATGGTGGGGATGGATG 61.363 60.000 0.00 0.00 0.00 3.51
3041 3157 0.630175 TTGGGATGGTGGGGATGGAT 60.630 55.000 0.00 0.00 0.00 3.41
3042 3158 1.230448 TTGGGATGGTGGGGATGGA 60.230 57.895 0.00 0.00 0.00 3.41
3075 3192 0.388907 TTTCCGCCGTGTGTAGTAGC 60.389 55.000 0.00 0.00 0.00 3.58
3077 3194 0.672889 TGTTTCCGCCGTGTGTAGTA 59.327 50.000 0.00 0.00 0.00 1.82
3079 3196 0.938713 TTTGTTTCCGCCGTGTGTAG 59.061 50.000 0.00 0.00 0.00 2.74
3080 3197 1.376543 TTTTGTTTCCGCCGTGTGTA 58.623 45.000 0.00 0.00 0.00 2.90
3081 3198 0.526662 TTTTTGTTTCCGCCGTGTGT 59.473 45.000 0.00 0.00 0.00 3.72
3082 3199 1.196200 CTTTTTGTTTCCGCCGTGTG 58.804 50.000 0.00 0.00 0.00 3.82
3104 3228 2.125512 ACGGCCATCTTCTGCGTC 60.126 61.111 2.24 0.00 0.00 5.19
3120 3244 2.158959 CACGATCGCCCGACTTGAC 61.159 63.158 16.60 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.