Multiple sequence alignment - TraesCS4D01G240800

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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 TraesCS4D01G240800 chr4D 100.000 3587 0 0 1 3587 403181162 403184748 0.000000e+00 6625.0
1 TraesCS4D01G240800 chr4D 87.460 1882 180 36 804 2657 403199568 403201421 0.000000e+00 2117.0
2 TraesCS4D01G240800 chr4A 91.663 2423 143 31 308 2711 60729823 60732205 0.000000e+00 3301.0
3 TraesCS4D01G240800 chr4A 88.864 1805 149 27 868 2657 60879863 60881630 0.000000e+00 2172.0
4 TraesCS4D01G240800 chr4A 88.744 613 38 7 3002 3587 60737676 60738284 0.000000e+00 721.0
5 TraesCS4D01G240800 chr4A 91.139 316 17 5 1 310 60729334 60729644 5.540000e-113 418.0
6 TraesCS4D01G240800 chr4A 92.708 288 15 5 2718 3003 60737311 60737594 9.270000e-111 411.0
7 TraesCS4D01G240800 chr4A 94.000 50 1 2 827 874 60730310 60730359 1.380000e-09 75.0
8 TraesCS4D01G240800 chr4A 100.000 28 0 0 3560 3587 660699732 660699705 6.000000e-03 52.8
9 TraesCS4D01G240800 chr4B 93.799 1919 78 20 868 2772 500052699 500054590 0.000000e+00 2846.0
10 TraesCS4D01G240800 chr4B 89.678 1676 143 16 990 2657 500079136 500080789 0.000000e+00 2109.0
11 TraesCS4D01G240800 chr4B 87.370 578 32 16 2768 3334 500054641 500055188 3.040000e-175 625.0
12 TraesCS4D01G240800 chr4B 86.165 571 55 12 1 563 500048757 500049311 2.380000e-166 595.0
13 TraesCS4D01G240800 chr4B 91.346 208 17 1 578 784 500052427 500052634 2.110000e-72 283.0
14 TraesCS4D01G240800 chr4B 92.727 55 2 1 3334 3386 500055206 500055260 1.070000e-10 78.7
15 TraesCS4D01G240800 chr2D 88.630 1460 139 11 1132 2579 645838270 645839714 0.000000e+00 1751.0
16 TraesCS4D01G240800 chr2A 88.260 1448 146 13 1132 2573 771538750 771540179 0.000000e+00 1711.0
17 TraesCS4D01G240800 chr2A 100.000 28 0 0 382 409 559072832 559072859 6.000000e-03 52.8
18 TraesCS4D01G240800 chr2B 89.961 508 50 1 1132 1639 789672745 789673251 0.000000e+00 654.0
19 TraesCS4D01G240800 chr3A 74.460 556 117 20 1924 2473 576686723 576687259 2.170000e-52 217.0
20 TraesCS4D01G240800 chr5D 74.074 540 107 27 1959 2486 242848446 242848964 1.310000e-44 191.0
21 TraesCS4D01G240800 chr6D 100.000 41 0 0 1373 1413 267729391 267729351 3.840000e-10 76.8
22 TraesCS4D01G240800 chr6D 90.741 54 5 0 375 428 322843001 322843054 4.970000e-09 73.1
23 TraesCS4D01G240800 chr5B 89.583 48 5 0 382 429 41951746 41951793 1.080000e-05 62.1
24 TraesCS4D01G240800 chr6A 97.143 35 1 0 375 409 460303139 460303173 3.870000e-05 60.2
25 TraesCS4D01G240800 chr6B 94.595 37 2 0 375 411 500612078 500612042 1.390000e-04 58.4


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 TraesCS4D01G240800 chr4D 403181162 403184748 3586 False 6625.000000 6625 100.000000 1 3587 1 chr4D.!!$F1 3586
1 TraesCS4D01G240800 chr4D 403199568 403201421 1853 False 2117.000000 2117 87.460000 804 2657 1 chr4D.!!$F2 1853
2 TraesCS4D01G240800 chr4A 60879863 60881630 1767 False 2172.000000 2172 88.864000 868 2657 1 chr4A.!!$F1 1789
3 TraesCS4D01G240800 chr4A 60729334 60732205 2871 False 1264.666667 3301 92.267333 1 2711 3 chr4A.!!$F2 2710
4 TraesCS4D01G240800 chr4A 60737311 60738284 973 False 566.000000 721 90.726000 2718 3587 2 chr4A.!!$F3 869
5 TraesCS4D01G240800 chr4B 500079136 500080789 1653 False 2109.000000 2109 89.678000 990 2657 1 chr4B.!!$F1 1667
6 TraesCS4D01G240800 chr4B 500048757 500055260 6503 False 885.540000 2846 90.281400 1 3386 5 chr4B.!!$F2 3385
7 TraesCS4D01G240800 chr2D 645838270 645839714 1444 False 1751.000000 1751 88.630000 1132 2579 1 chr2D.!!$F1 1447
8 TraesCS4D01G240800 chr2A 771538750 771540179 1429 False 1711.000000 1711 88.260000 1132 2573 1 chr2A.!!$F2 1441
9 TraesCS4D01G240800 chr2B 789672745 789673251 506 False 654.000000 654 89.961000 1132 1639 1 chr2B.!!$F1 507
10 TraesCS4D01G240800 chr3A 576686723 576687259 536 False 217.000000 217 74.460000 1924 2473 1 chr3A.!!$F1 549

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
798 4092 0.320421 CACCCACTACCAGTCCAACG 60.320 60.0 0.0 0.0 0.0 4.10 F
799 4093 0.761702 ACCCACTACCAGTCCAACGT 60.762 55.0 0.0 0.0 0.0 3.99 F
2025 5384 0.036022 GGTTCTTCTGGCTGCTGTCT 59.964 55.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1996 5355 0.037882 CAGAAGAACCAGCTGAGCGA 60.038 55.0 17.39 0.0 0.00 4.93 R
2475 5843 0.391130 CCGCCAATTCGAACTCCTCA 60.391 55.0 0.00 0.0 0.00 3.86 R
3549 7099 0.391793 GGGAGTAGTTGGTGCTCTGC 60.392 60.0 0.00 0.0 37.98 4.26 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
93 94 2.370393 GCGCTTTGCTGCTCTTTGC 61.370 57.895 0.00 0.00 41.73 3.68
96 97 0.942884 GCTTTGCTGCTCTTTGCCAC 60.943 55.000 0.00 0.00 42.00 5.01
150 151 5.132502 TGGAGAAACACACATGAGTTCAAT 58.867 37.500 0.00 0.00 0.00 2.57
154 155 2.493035 ACACACATGAGTTCAATGCGA 58.507 42.857 0.00 0.00 0.00 5.10
156 157 3.503363 ACACACATGAGTTCAATGCGATT 59.497 39.130 0.00 0.00 0.00 3.34
255 262 5.234466 AGCCCGCTAAGAATATTTCATCT 57.766 39.130 0.00 0.00 0.00 2.90
259 266 6.205658 GCCCGCTAAGAATATTTCATCTCTTT 59.794 38.462 0.00 0.00 30.90 2.52
260 267 7.255277 GCCCGCTAAGAATATTTCATCTCTTTT 60.255 37.037 0.00 0.00 30.90 2.27
261 268 9.273016 CCCGCTAAGAATATTTCATCTCTTTTA 57.727 33.333 0.00 0.00 30.90 1.52
276 283 3.509442 TCTTTTAGTCTCCCCGGTTGTA 58.491 45.455 0.00 0.00 0.00 2.41
282 289 1.067071 GTCTCCCCGGTTGTAGTTCAG 60.067 57.143 0.00 0.00 0.00 3.02
304 311 2.936498 GTGCATGCGATTAGTACCAGTT 59.064 45.455 14.09 0.00 0.00 3.16
361 550 7.775561 ACTCTTTCAGTTCCAAAATAGTGTCTT 59.224 33.333 0.00 0.00 26.56 3.01
420 609 8.655970 CCATATTATTTGTCGCTCGAATGAATA 58.344 33.333 0.00 0.00 32.85 1.75
485 674 8.737168 TGACAAGTAATATGAATGGAAGGAAG 57.263 34.615 0.00 0.00 0.00 3.46
514 703 9.226345 CTAAATTGAAGACACTTGTTTTGAGAC 57.774 33.333 0.00 0.00 0.00 3.36
568 757 1.420138 TCCAAAGGAAAGAAGCGGTCT 59.580 47.619 0.00 0.00 38.69 3.85
575 764 2.096013 GGAAAGAAGCGGTCTGTTATGC 59.904 50.000 0.00 0.00 36.40 3.14
583 3873 2.688507 CGGTCTGTTATGCACTTCAGT 58.311 47.619 11.69 0.00 0.00 3.41
623 3916 0.584876 GTTGCGCTTGGAAGTACGTT 59.415 50.000 9.73 0.00 0.00 3.99
633 3926 6.028987 GCTTGGAAGTACGTTAACAAAAACA 58.971 36.000 6.39 0.00 0.00 2.83
723 4016 1.226773 GCAGTTCATGGCGAATGGC 60.227 57.895 0.00 0.00 42.51 4.40
729 4022 2.514592 ATGGCGAATGGCTGACGG 60.515 61.111 0.00 0.00 42.94 4.79
787 4081 2.262292 GTTACGCGGCACCCACTA 59.738 61.111 12.47 0.00 0.00 2.74
788 4082 2.096442 GTTACGCGGCACCCACTAC 61.096 63.158 12.47 0.00 0.00 2.73
789 4083 3.299524 TTACGCGGCACCCACTACC 62.300 63.158 12.47 0.00 0.00 3.18
794 4088 2.669240 GGCACCCACTACCAGTCC 59.331 66.667 0.00 0.00 0.00 3.85
795 4089 2.221299 GGCACCCACTACCAGTCCA 61.221 63.158 0.00 0.00 0.00 4.02
796 4090 1.758592 GCACCCACTACCAGTCCAA 59.241 57.895 0.00 0.00 0.00 3.53
797 4091 0.605589 GCACCCACTACCAGTCCAAC 60.606 60.000 0.00 0.00 0.00 3.77
798 4092 0.320421 CACCCACTACCAGTCCAACG 60.320 60.000 0.00 0.00 0.00 4.10
799 4093 0.761702 ACCCACTACCAGTCCAACGT 60.762 55.000 0.00 0.00 0.00 3.99
800 4094 1.259609 CCCACTACCAGTCCAACGTA 58.740 55.000 0.00 0.00 0.00 3.57
801 4095 1.829222 CCCACTACCAGTCCAACGTAT 59.171 52.381 0.00 0.00 0.00 3.06
802 4096 3.025978 CCCACTACCAGTCCAACGTATA 58.974 50.000 0.00 0.00 0.00 1.47
807 4101 3.637998 ACCAGTCCAACGTATATAGCG 57.362 47.619 0.00 4.01 0.00 4.26
867 4167 4.537433 GCGGAGGCGCTTCCAGAT 62.537 66.667 34.32 0.64 37.05 2.90
885 4210 2.028112 AGATCAGCGCCACACTCTTTTA 60.028 45.455 2.29 0.00 0.00 1.52
914 4239 2.673833 CCTTATCATCTTCCCGTACGC 58.326 52.381 10.49 0.00 0.00 4.42
983 4318 3.760035 CGGTAGGCGCAGTCCAGT 61.760 66.667 10.83 0.00 0.00 4.00
1066 4404 2.277628 GCGCTCTCTTCGTCCTCG 60.278 66.667 0.00 0.00 38.55 4.63
1067 4405 2.277628 CGCTCTCTTCGTCCTCGC 60.278 66.667 0.00 0.00 36.96 5.03
1996 5355 2.045143 GGGAGACGACGTCCTCCT 60.045 66.667 28.82 16.55 33.55 3.69
2025 5384 0.036022 GGTTCTTCTGGCTGCTGTCT 59.964 55.000 0.00 0.00 0.00 3.41
2203 5562 4.351938 CGGTGCCGGTGAACTCGA 62.352 66.667 1.90 0.00 35.56 4.04
2311 5670 1.537889 ATGGAGTCCGTGTGGGGAA 60.538 57.895 2.08 0.00 37.96 3.97
2535 5903 4.007644 CAGGTGGCCTCGCTGACA 62.008 66.667 3.32 0.00 0.00 3.58
2590 5958 6.014584 TGTGAAGGCTAGAGTGAATTGAGTAA 60.015 38.462 0.00 0.00 0.00 2.24
2593 5961 7.124901 TGAAGGCTAGAGTGAATTGAGTAAGAT 59.875 37.037 0.00 0.00 0.00 2.40
2612 5988 3.441572 AGATGACGGAAAATCTGCTTTGG 59.558 43.478 0.00 0.00 31.89 3.28
2694 6075 2.169769 TCATAGGGCGTTTCTACTTGGG 59.830 50.000 0.00 0.00 0.00 4.12
2726 6107 3.599730 TCATCAAGCTCGATCTTGTGT 57.400 42.857 24.02 13.95 42.90 3.72
2727 6108 3.256558 TCATCAAGCTCGATCTTGTGTG 58.743 45.455 24.02 22.07 42.90 3.82
2729 6110 1.344438 TCAAGCTCGATCTTGTGTGGT 59.656 47.619 24.02 0.00 42.90 4.16
2730 6111 2.560981 TCAAGCTCGATCTTGTGTGGTA 59.439 45.455 24.02 5.50 42.90 3.25
2731 6112 3.195610 TCAAGCTCGATCTTGTGTGGTAT 59.804 43.478 24.02 0.00 42.90 2.73
2810 6246 0.040058 TGGAGCCAGGATTTGCACAT 59.960 50.000 0.00 0.00 0.00 3.21
2811 6247 1.284491 TGGAGCCAGGATTTGCACATA 59.716 47.619 0.00 0.00 0.00 2.29
2908 6345 4.464069 TTTGCTTGGGCGCTATAAAAAT 57.536 36.364 7.64 0.00 42.25 1.82
3198 6720 0.311790 TTTGGCTGCGCTTTTCTCTG 59.688 50.000 9.73 0.00 0.00 3.35
3225 6747 2.614057 AGTTTGAACTGCGTCTCCAAAG 59.386 45.455 0.00 0.00 37.98 2.77
3270 6800 9.297037 TCAAATCTCTGCATCATTGATATGAAT 57.703 29.630 0.00 0.00 43.67 2.57
3320 6850 5.127194 TGATTCCTAGAGCACGTACAAGATT 59.873 40.000 0.00 0.00 0.00 2.40
3387 6937 2.289694 ACAGTCACCAGTTCACATAGCC 60.290 50.000 0.00 0.00 0.00 3.93
3388 6938 2.027745 CAGTCACCAGTTCACATAGCCT 60.028 50.000 0.00 0.00 0.00 4.58
3418 6968 3.733337 AGATAAAGCCATCTAGCAACGG 58.267 45.455 0.00 0.00 33.41 4.44
3446 6996 5.123227 CGGTTCACATAGATAAACACCCAT 58.877 41.667 0.00 0.00 0.00 4.00
3475 7025 5.107607 GCGGGATACATGAATAAAGTGTACG 60.108 44.000 0.00 0.00 39.74 3.67
3476 7026 5.404366 CGGGATACATGAATAAAGTGTACGG 59.596 44.000 0.00 0.00 39.74 4.02
3477 7027 5.178809 GGGATACATGAATAAAGTGTACGGC 59.821 44.000 0.00 0.00 39.74 5.68
3478 7028 5.989777 GGATACATGAATAAAGTGTACGGCT 59.010 40.000 0.00 0.00 31.79 5.52
3481 7031 3.328382 TGAATAAAGTGTACGGCTGCT 57.672 42.857 0.00 0.00 0.00 4.24
3505 7055 9.467258 GCTCATGCAACAATAACATACAAATAT 57.533 29.630 0.00 0.00 39.41 1.28
3525 7075 0.537143 GACACACCAGCCATCAACCA 60.537 55.000 0.00 0.00 0.00 3.67
3570 7120 1.205893 CAGAGCACCAACTACTCCCTC 59.794 57.143 0.00 0.00 0.00 4.30
3575 7125 3.707102 AGCACCAACTACTCCCTCTATTC 59.293 47.826 0.00 0.00 0.00 1.75
3576 7126 3.181464 GCACCAACTACTCCCTCTATTCC 60.181 52.174 0.00 0.00 0.00 3.01
3582 7132 7.016661 ACCAACTACTCCCTCTATTCCATAATG 59.983 40.741 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 176 2.508526 GACTTGGTTGCAACTCTCCAT 58.491 47.619 27.64 9.98 0.00 3.41
255 262 2.332117 ACAACCGGGGAGACTAAAAGA 58.668 47.619 6.32 0.00 0.00 2.52
259 266 2.610438 ACTACAACCGGGGAGACTAA 57.390 50.000 6.32 0.00 0.00 2.24
260 267 2.225091 TGAACTACAACCGGGGAGACTA 60.225 50.000 6.32 0.00 0.00 2.59
261 268 1.264295 GAACTACAACCGGGGAGACT 58.736 55.000 6.32 0.00 0.00 3.24
276 283 2.283298 CTAATCGCATGCACCTGAACT 58.717 47.619 19.57 1.50 0.00 3.01
282 289 1.867233 CTGGTACTAATCGCATGCACC 59.133 52.381 19.57 15.74 0.00 5.01
333 521 8.379457 ACACTATTTTGGAACTGAAAGAGTAC 57.621 34.615 0.00 0.00 35.64 2.73
340 528 9.403583 ACTTTAAGACACTATTTTGGAACTGAA 57.596 29.630 0.00 0.00 0.00 3.02
372 561 7.597288 TGGATCGGAGAGAGTATAATTTTGA 57.403 36.000 0.00 0.00 43.63 2.69
386 575 5.047306 AGCGACAAATAATATGGATCGGAGA 60.047 40.000 0.00 0.00 45.75 3.71
461 650 8.738645 ACTTCCTTCCATTCATATTACTTGTC 57.261 34.615 0.00 0.00 0.00 3.18
485 674 9.997482 TCAAAACAAGTGTCTTCAATTTAGTAC 57.003 29.630 0.00 0.00 29.11 2.73
493 682 4.094294 CCGTCTCAAAACAAGTGTCTTCAA 59.906 41.667 0.00 0.00 0.00 2.69
495 684 3.869246 TCCGTCTCAAAACAAGTGTCTTC 59.131 43.478 0.00 0.00 0.00 2.87
514 703 8.557029 AGAACAAGTTTTTAACTACTTCATCCG 58.443 33.333 0.00 0.00 41.91 4.18
583 3873 2.523740 TATGTCTGTCCCCCGGAGCA 62.524 60.000 0.73 0.00 29.39 4.26
623 3916 8.916654 CATAACCGTTTGCATATGTTTTTGTTA 58.083 29.630 4.29 6.48 0.00 2.41
633 3926 3.315191 GCTCCACATAACCGTTTGCATAT 59.685 43.478 0.00 0.00 0.00 1.78
661 3954 7.013846 GGAAGATATTCCTCTCGATATTCCGAT 59.986 40.741 12.00 0.00 36.75 4.18
713 4006 3.545124 AACCGTCAGCCATTCGCCA 62.545 57.895 0.00 0.00 38.78 5.69
714 4007 2.746277 AACCGTCAGCCATTCGCC 60.746 61.111 0.00 0.00 38.78 5.54
717 4010 1.717194 TAACGAACCGTCAGCCATTC 58.283 50.000 0.00 0.00 39.99 2.67
720 4013 1.001068 TCAATAACGAACCGTCAGCCA 59.999 47.619 0.00 0.00 39.99 4.75
743 4036 2.878406 ACCTGATGTGGACTTTTCGTTG 59.122 45.455 0.00 0.00 0.00 4.10
748 4042 3.425162 GGAGACCTGATGTGGACTTTT 57.575 47.619 0.00 0.00 32.64 2.27
784 4078 4.214971 CGCTATATACGTTGGACTGGTAGT 59.785 45.833 0.00 0.00 0.00 2.73
787 4081 2.295349 CCGCTATATACGTTGGACTGGT 59.705 50.000 0.00 0.00 0.00 4.00
788 4082 2.925306 GCCGCTATATACGTTGGACTGG 60.925 54.545 0.00 0.00 0.00 4.00
789 4083 2.325761 GCCGCTATATACGTTGGACTG 58.674 52.381 0.00 0.00 0.00 3.51
790 4084 1.068748 CGCCGCTATATACGTTGGACT 60.069 52.381 0.00 0.00 0.00 3.85
791 4085 1.334054 CGCCGCTATATACGTTGGAC 58.666 55.000 0.00 0.00 0.00 4.02
794 4088 0.665068 TGCCGCCGCTATATACGTTG 60.665 55.000 0.00 0.00 35.36 4.10
795 4089 0.388134 CTGCCGCCGCTATATACGTT 60.388 55.000 0.00 0.00 35.36 3.99
796 4090 1.211969 CTGCCGCCGCTATATACGT 59.788 57.895 0.00 0.00 35.36 3.57
797 4091 0.797249 GTCTGCCGCCGCTATATACG 60.797 60.000 0.00 0.00 35.36 3.06
798 4092 0.458025 GGTCTGCCGCCGCTATATAC 60.458 60.000 0.00 0.00 35.36 1.47
799 4093 1.888018 GGTCTGCCGCCGCTATATA 59.112 57.895 0.00 0.00 35.36 0.86
800 4094 2.657237 GGTCTGCCGCCGCTATAT 59.343 61.111 0.00 0.00 35.36 0.86
824 4118 0.881118 TGATTTCTTGTGCCGGAAGC 59.119 50.000 5.05 0.00 44.14 3.86
826 4120 1.202879 AGGTGATTTCTTGTGCCGGAA 60.203 47.619 5.05 0.00 0.00 4.30
828 4122 0.523072 CAGGTGATTTCTTGTGCCGG 59.477 55.000 0.00 0.00 0.00 6.13
829 4123 0.109597 GCAGGTGATTTCTTGTGCCG 60.110 55.000 0.00 0.00 0.00 5.69
867 4167 1.070134 AGTAAAAGAGTGTGGCGCTGA 59.930 47.619 7.64 0.00 0.00 4.26
885 4210 3.645687 GGAAGATGATAAGGCAGAGGAGT 59.354 47.826 0.00 0.00 0.00 3.85
914 4239 0.394352 GCCTGTGGAATGTAGGTGGG 60.394 60.000 0.00 0.00 34.06 4.61
994 4329 2.106074 GTGCGATTGCCATGGTCGA 61.106 57.895 23.23 12.00 41.78 4.20
1642 4989 1.078426 CGACCTCCGGGCAAGAATT 60.078 57.895 0.00 0.00 35.63 2.17
1643 4990 1.961180 CTCGACCTCCGGGCAAGAAT 61.961 60.000 0.00 0.00 39.14 2.40
1644 4991 2.602267 TCGACCTCCGGGCAAGAA 60.602 61.111 0.00 0.00 39.14 2.52
1645 4992 3.068691 CTCGACCTCCGGGCAAGA 61.069 66.667 0.00 0.00 39.14 3.02
1941 5300 3.338126 GATCACCACGTCGCGGAGT 62.338 63.158 6.13 3.50 0.00 3.85
1996 5355 0.037882 CAGAAGAACCAGCTGAGCGA 60.038 55.000 17.39 0.00 0.00 4.93
2433 5801 5.247110 AGACTTCATCTGGATATACGCCATT 59.753 40.000 0.00 0.00 35.81 3.16
2475 5843 0.391130 CCGCCAATTCGAACTCCTCA 60.391 55.000 0.00 0.00 0.00 3.86
2565 5933 4.284490 ACTCAATTCACTCTAGCCTTCACA 59.716 41.667 0.00 0.00 0.00 3.58
2590 5958 3.441572 CCAAAGCAGATTTTCCGTCATCT 59.558 43.478 0.00 0.00 0.00 2.90
2593 5961 2.857483 TCCAAAGCAGATTTTCCGTCA 58.143 42.857 0.00 0.00 0.00 4.35
2612 5988 5.177696 GGCATTCTTCTACACGGTTATCATC 59.822 44.000 0.00 0.00 0.00 2.92
2694 6075 1.133790 GCTTGATGATGGACCAACAGC 59.866 52.381 12.70 12.70 0.00 4.40
2726 6107 2.227865 GCCAAAGCGTGAAAAGATACCA 59.772 45.455 0.00 0.00 0.00 3.25
2727 6108 2.488153 AGCCAAAGCGTGAAAAGATACC 59.512 45.455 0.00 0.00 46.67 2.73
2729 6110 2.747446 GGAGCCAAAGCGTGAAAAGATA 59.253 45.455 0.00 0.00 46.67 1.98
2730 6111 1.541588 GGAGCCAAAGCGTGAAAAGAT 59.458 47.619 0.00 0.00 46.67 2.40
2731 6112 0.951558 GGAGCCAAAGCGTGAAAAGA 59.048 50.000 0.00 0.00 46.67 2.52
2810 6246 6.884472 TCAACTTGATTTGGTCTCCCTATA 57.116 37.500 0.00 0.00 0.00 1.31
2811 6247 5.779241 TCAACTTGATTTGGTCTCCCTAT 57.221 39.130 0.00 0.00 0.00 2.57
3251 6773 9.159364 GCTACTAATTCATATCAATGATGCAGA 57.841 33.333 5.91 0.00 41.73 4.26
3252 6774 9.163899 AGCTACTAATTCATATCAATGATGCAG 57.836 33.333 5.91 0.00 41.73 4.41
3364 6912 1.597742 ATGTGAACTGGTGACTGTGC 58.402 50.000 0.00 0.00 42.21 4.57
3405 6955 0.806102 CGGTGACCGTTGCTAGATGG 60.806 60.000 17.28 0.00 42.73 3.51
3418 6968 5.063060 GTGTTTATCTATGTGAACCGGTGAC 59.937 44.000 8.52 9.22 0.00 3.67
3424 6974 6.710744 CCTATGGGTGTTTATCTATGTGAACC 59.289 42.308 0.00 0.00 0.00 3.62
3446 6996 2.038863 ATTCATGTATCCCGCCCCTA 57.961 50.000 0.00 0.00 0.00 3.53
3452 7002 5.404366 CCGTACACTTTATTCATGTATCCCG 59.596 44.000 0.00 0.00 31.79 5.14
3499 7049 3.695556 TGATGGCTGGTGTGTCATATTTG 59.304 43.478 0.00 0.00 0.00 2.32
3505 7055 0.537143 GGTTGATGGCTGGTGTGTCA 60.537 55.000 0.00 0.00 0.00 3.58
3525 7075 1.088306 TGGTCGTTCTTTTGTGCGTT 58.912 45.000 0.00 0.00 0.00 4.84
3549 7099 0.391793 GGGAGTAGTTGGTGCTCTGC 60.392 60.000 0.00 0.00 37.98 4.26
3551 7101 1.077993 AGAGGGAGTAGTTGGTGCTCT 59.922 52.381 0.00 0.00 37.98 4.09


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

AutoCloner maintained by Alex Coulton.