Multiple sequence alignment - TraesCS7A01G217600

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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 TraesCS7A01G217600 chr7A 100.000 5135 0 0 1 5135 184168575 184173709 0.000000e+00 9483
1 TraesCS7A01G217600 chr7A 89.761 1885 146 27 2910 4782 184328415 184330264 0.000000e+00 2368
2 TraesCS7A01G217600 chr7A 83.912 2101 252 62 778 2860 184316010 184318042 0.000000e+00 1929
3 TraesCS7A01G217600 chr7A 86.709 1738 170 24 1120 2843 184326568 184328258 0.000000e+00 1873
4 TraesCS7A01G217600 chr7A 87.979 1306 129 21 2945 4227 184318094 184319394 0.000000e+00 1517
5 TraesCS7A01G217600 chr7A 75.532 940 199 28 2951 3873 184344688 184345613 2.840000e-117 433
6 TraesCS7A01G217600 chr7A 84.096 415 50 8 4367 4775 184319401 184319805 2.240000e-103 387
7 TraesCS7A01G217600 chr7A 78.345 725 65 40 1 657 184315178 184315878 8.070000e-103 385
8 TraesCS7A01G217600 chr7A 93.878 98 4 2 656 751 398918624 398918721 4.140000e-31 147
9 TraesCS7A01G217600 chr7A 91.919 99 6 2 656 752 398918721 398918623 2.490000e-28 137
10 TraesCS7A01G217600 chr7A 91.667 96 8 0 656 751 184169325 184169230 3.230000e-27 134
11 TraesCS7A01G217600 chr7B 95.825 4192 119 24 507 4685 145823468 145827616 0.000000e+00 6721
12 TraesCS7A01G217600 chr7B 89.291 1905 162 27 2893 4782 145933745 145935622 0.000000e+00 2350
13 TraesCS7A01G217600 chr7B 86.035 1869 192 41 991 2843 145964826 145966641 0.000000e+00 1941
14 TraesCS7A01G217600 chr7B 86.538 1300 128 31 2910 4189 145966798 145968070 0.000000e+00 1387
15 TraesCS7A01G217600 chr7B 85.546 1017 122 17 1832 2843 145932579 145933575 0.000000e+00 1040
16 TraesCS7A01G217600 chr7B 86.030 859 67 29 778 1588 145931437 145932290 0.000000e+00 872
17 TraesCS7A01G217600 chr7B 99.412 340 2 0 4796 5135 145827923 145828262 7.300000e-173 617
18 TraesCS7A01G217600 chr7B 76.080 949 193 27 2943 3873 145975382 145976314 1.010000e-126 464
19 TraesCS7A01G217600 chr7B 78.699 615 63 29 1 565 145930629 145931225 1.060000e-91 348
20 TraesCS7A01G217600 chr7B 82.725 411 47 9 4075 4475 145968073 145968469 1.370000e-90 344
21 TraesCS7A01G217600 chr7B 92.574 202 12 2 4936 5135 145972757 145972957 2.340000e-73 287
22 TraesCS7A01G217600 chr7B 87.432 183 14 2 2 176 145820869 145821050 8.720000e-48 202
23 TraesCS7A01G217600 chr7B 89.809 157 14 2 4779 4933 145972435 145972591 3.140000e-47 200
24 TraesCS7A01G217600 chr7B 89.404 151 8 6 345 495 145823094 145823236 3.160000e-42 183
25 TraesCS7A01G217600 chr7B 87.421 159 12 7 1 159 145963981 145964131 5.280000e-40 176
26 TraesCS7A01G217600 chr7D 88.682 1882 163 31 2910 4775 180072895 180074742 0.000000e+00 2250
27 TraesCS7A01G217600 chr7D 84.923 1751 199 48 1120 2860 180014239 180015934 0.000000e+00 1711
28 TraesCS7A01G217600 chr7D 88.558 1311 112 24 2945 4227 180015986 180017286 0.000000e+00 1555
29 TraesCS7A01G217600 chr7D 86.426 1024 109 21 1832 2843 180071717 180072722 0.000000e+00 1094
30 TraesCS7A01G217600 chr7D 87.694 707 68 11 896 1588 180070814 180071515 0.000000e+00 806
31 TraesCS7A01G217600 chr7D 91.039 491 27 11 174 657 180013362 180013842 0.000000e+00 647
32 TraesCS7A01G217600 chr7D 95.596 386 16 1 775 1160 180013856 180014240 7.300000e-173 617
33 TraesCS7A01G217600 chr7D 87.952 332 29 8 4807 5135 180084232 180084555 1.040000e-101 381
34 TraesCS7A01G217600 chr7D 92.857 98 5 1 656 751 433010929 433010832 1.930000e-29 141
35 TraesCS7A01G217600 chrUn 100.000 416 0 0 1772 2187 477165674 477165259 0.000000e+00 769
36 TraesCS7A01G217600 chr4A 86.207 638 73 13 2428 3059 726121065 726120437 0.000000e+00 676
37 TraesCS7A01G217600 chr4A 88.116 345 41 0 2490 2834 726120487 726120143 1.330000e-110 411
38 TraesCS7A01G217600 chr3D 93.878 98 6 0 655 752 590336434 590336337 1.150000e-31 148
39 TraesCS7A01G217600 chr3D 93.750 96 6 0 656 751 590336338 590336433 1.490000e-30 145
40 TraesCS7A01G217600 chr6A 91.667 108 5 2 656 759 35645564 35645457 4.140000e-31 147
41 TraesCS7A01G217600 chr6A 93.069 101 3 2 656 752 35645465 35645565 1.490000e-30 145
42 TraesCS7A01G217600 chr1B 86.087 115 13 3 638 751 610973155 610973267 2.510000e-23 121


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 TraesCS7A01G217600 chr7A 184168575 184173709 5134 False 9483.000000 9483 100.000000 1 5135 1 chr7A.!!$F1 5134
1 TraesCS7A01G217600 chr7A 184326568 184330264 3696 False 2120.500000 2368 88.235000 1120 4782 2 chr7A.!!$F5 3662
2 TraesCS7A01G217600 chr7A 184315178 184319805 4627 False 1054.500000 1929 83.583000 1 4775 4 chr7A.!!$F4 4774
3 TraesCS7A01G217600 chr7A 184344688 184345613 925 False 433.000000 433 75.532000 2951 3873 1 chr7A.!!$F2 922
4 TraesCS7A01G217600 chr7B 145820869 145828262 7393 False 1930.750000 6721 93.018250 2 5135 4 chr7B.!!$F1 5133
5 TraesCS7A01G217600 chr7B 145930629 145935622 4993 False 1152.500000 2350 84.891500 1 4782 4 chr7B.!!$F2 4781
6 TraesCS7A01G217600 chr7B 145963981 145976314 12333 False 685.571429 1941 85.883143 1 5135 7 chr7B.!!$F3 5134
7 TraesCS7A01G217600 chr7D 180070814 180074742 3928 False 1383.333333 2250 87.600667 896 4775 3 chr7D.!!$F3 3879
8 TraesCS7A01G217600 chr7D 180013362 180017286 3924 False 1132.500000 1711 90.029000 174 4227 4 chr7D.!!$F2 4053
9 TraesCS7A01G217600 chr4A 726120143 726121065 922 True 543.500000 676 87.161500 2428 3059 2 chr4A.!!$R1 631

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
654 2969 0.107214 TTCTGCCGCTCCCAATTAGG 60.107 55.0 0.0 0.0 37.03 2.69 F
2372 5256 0.037697 TTCATGACCCCGTCAGAACG 60.038 55.0 0.0 0.0 46.04 3.95 F
2628 5527 0.388907 ATTGCAACGCCACAGCATTC 60.389 50.0 0.0 0.0 39.83 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2381 5274 0.109597 GCTGTTGTTGGATTGAGGCG 60.110 55.0 0.00 0.0 0.00 5.52 R
3243 6358 1.216064 AAGCACCCATGAGGCTGATA 58.784 50.0 0.00 0.0 40.58 2.15 R
4513 8043 0.037697 AAATGCTAGTGACACCGCGA 60.038 50.0 8.23 0.0 0.00 5.87 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
68 70 0.392998 AGCCTGGTACTTGAATGGCG 60.393 55.000 0.00 0.00 44.42 5.69
197 266 4.278975 AGTCTTCAGGTCCAAGTCAATC 57.721 45.455 0.00 0.00 0.00 2.67
213 282 7.221452 CCAAGTCAATCAAAAGAACAAAGACAG 59.779 37.037 0.00 0.00 0.00 3.51
244 316 1.269206 CCACACATTTCACACACCTGC 60.269 52.381 0.00 0.00 0.00 4.85
269 341 2.568509 AGGCCTGAAATTGAAATGGTGG 59.431 45.455 3.11 0.00 0.00 4.61
288 361 4.395231 GGTGGTAGATAAACTTTCAGGCAC 59.605 45.833 0.00 0.00 0.00 5.01
303 376 2.165030 CAGGCACCACAATCCAAGAATC 59.835 50.000 0.00 0.00 0.00 2.52
311 384 4.549458 CACAATCCAAGAATCGCAAAACT 58.451 39.130 0.00 0.00 0.00 2.66
340 419 7.988737 TCGTATATTCTCGAGGTTCAGTTAAA 58.011 34.615 13.56 0.00 0.00 1.52
414 2357 7.001674 TGCTCCCTCAAAAAGAAACATAGTAA 58.998 34.615 0.00 0.00 0.00 2.24
465 2413 1.578206 GACCGGCTCTGGAAAACTGC 61.578 60.000 0.00 0.00 0.00 4.40
494 2455 5.507077 ACGTTTGTGCAAGTTGTGTTATAG 58.493 37.500 4.48 0.00 0.00 1.31
495 2456 5.065474 ACGTTTGTGCAAGTTGTGTTATAGT 59.935 36.000 4.48 0.00 0.00 2.12
496 2457 6.258287 ACGTTTGTGCAAGTTGTGTTATAGTA 59.742 34.615 4.48 0.00 0.00 1.82
565 2760 6.316390 GGTAGGCATGGATGTAGTAAATATGC 59.684 42.308 0.00 0.00 38.85 3.14
567 2762 6.176183 AGGCATGGATGTAGTAAATATGCTC 58.824 40.000 7.64 0.78 39.36 4.26
641 2954 1.544724 TGCCCACATAAGTTTCTGCC 58.455 50.000 0.00 0.00 0.00 4.85
647 2960 1.017387 CATAAGTTTCTGCCGCTCCC 58.983 55.000 0.00 0.00 0.00 4.30
654 2969 0.107214 TTCTGCCGCTCCCAATTAGG 60.107 55.000 0.00 0.00 37.03 2.69
655 2970 1.224592 CTGCCGCTCCCAATTAGGT 59.775 57.895 0.00 0.00 34.66 3.08
656 2971 0.468226 CTGCCGCTCCCAATTAGGTA 59.532 55.000 0.00 0.00 34.66 3.08
659 2974 1.540580 GCCGCTCCCAATTAGGTACTC 60.541 57.143 0.00 0.00 41.75 2.59
668 2983 3.199289 CCAATTAGGTACTCCCTCCGTTT 59.801 47.826 0.00 0.00 44.81 3.60
669 2984 4.439968 CAATTAGGTACTCCCTCCGTTTC 58.560 47.826 0.00 0.00 44.81 2.78
677 2992 2.830321 ACTCCCTCCGTTTCGAATTACT 59.170 45.455 0.00 0.00 0.00 2.24
678 2993 3.119209 ACTCCCTCCGTTTCGAATTACTC 60.119 47.826 0.00 0.00 0.00 2.59
691 3006 3.301835 CGAATTACTCGTCGCAGAAATGG 60.302 47.826 0.00 0.00 42.89 3.16
693 3008 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
694 3009 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
696 3011 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
697 3012 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
698 3013 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
699 3014 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
701 3016 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
702 3017 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
703 3018 6.393990 GTCGCAGAAATGGATGTATCTAGAT 58.606 40.000 10.73 10.73 39.69 1.98
704 3019 6.870965 GTCGCAGAAATGGATGTATCTAGATT 59.129 38.462 11.25 0.00 39.69 2.40
705 3020 7.386299 GTCGCAGAAATGGATGTATCTAGATTT 59.614 37.037 11.25 0.00 39.69 2.17
706 3021 8.585018 TCGCAGAAATGGATGTATCTAGATTTA 58.415 33.333 11.25 0.66 0.00 1.40
707 3022 8.867935 CGCAGAAATGGATGTATCTAGATTTAG 58.132 37.037 11.25 0.00 0.00 1.85
723 3038 9.935241 TCTAGATTTAGATACATCCATTTCTGC 57.065 33.333 0.00 0.00 30.96 4.26
724 3039 7.664082 AGATTTAGATACATCCATTTCTGCG 57.336 36.000 0.00 0.00 0.00 5.18
725 3040 7.445121 AGATTTAGATACATCCATTTCTGCGA 58.555 34.615 0.00 0.00 0.00 5.10
726 3041 6.844696 TTTAGATACATCCATTTCTGCGAC 57.155 37.500 0.00 0.00 0.00 5.19
727 3042 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
728 3043 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
729 3044 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
730 3045 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
731 3046 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
732 3047 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
733 3048 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
734 3049 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
735 3050 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
736 3051 4.092821 TCCATTTCTGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
737 3052 4.334443 CATTTCTGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
738 3053 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
739 3054 3.306917 TCTGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
740 3055 2.991190 TCTGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
741 3056 2.734606 CTGCGACGAGTAATTTGGAACA 59.265 45.455 0.00 0.00 0.00 3.18
781 3096 5.738909 AGTAAAGATGCTGTATGAAGCTGT 58.261 37.500 0.00 0.00 43.90 4.40
807 3125 0.549950 CTAGGACGGACTAGGGGTGA 59.450 60.000 7.54 0.00 37.41 4.02
1038 3694 2.937799 GAGAGAAGCCAGAGATTTGCAG 59.062 50.000 0.00 0.00 0.00 4.41
1206 3931 1.076485 GGTGCTGATGGCCATCCTT 60.076 57.895 36.97 10.14 40.92 3.36
1504 4232 4.106925 GCTGCAGGGAGGTGAGGG 62.107 72.222 17.12 0.00 0.00 4.30
1535 4263 2.290323 ACATCTGGGTGTTACTCCTTGC 60.290 50.000 3.39 0.00 0.00 4.01
1653 4381 1.970640 GGAACTCTGGGGCACATTTTT 59.029 47.619 0.00 0.00 0.00 1.94
1655 4383 3.576550 GGAACTCTGGGGCACATTTTTAA 59.423 43.478 0.00 0.00 0.00 1.52
1656 4384 4.222810 GGAACTCTGGGGCACATTTTTAAT 59.777 41.667 0.00 0.00 0.00 1.40
1659 4387 4.082245 ACTCTGGGGCACATTTTTAATTCG 60.082 41.667 0.00 0.00 0.00 3.34
1710 4528 1.626686 CAGAGAGGGTAGCCGATGAT 58.373 55.000 5.06 0.00 0.00 2.45
1725 4543 4.037208 GCCGATGATGGAGTGAATTCAATT 59.963 41.667 10.35 1.16 0.00 2.32
1728 4546 7.134815 CCGATGATGGAGTGAATTCAATTAAC 58.865 38.462 10.35 4.62 0.00 2.01
2269 5153 6.757897 TCATTAAGTTTATTGGACCTGCTG 57.242 37.500 0.00 0.00 0.00 4.41
2372 5256 0.037697 TTCATGACCCCGTCAGAACG 60.038 55.000 0.00 0.00 46.04 3.95
2391 5284 1.002624 TGACCAACCGCCTCAATCC 60.003 57.895 0.00 0.00 0.00 3.01
2406 5299 2.129607 CAATCCAACAACAGCAACAGC 58.870 47.619 0.00 0.00 0.00 4.40
2407 5300 1.696063 ATCCAACAACAGCAACAGCT 58.304 45.000 0.00 0.00 39.75 4.24
2420 5313 2.291465 GCAACAGCTCAAACACTGATGA 59.709 45.455 4.69 0.00 38.55 2.92
2422 5315 4.720090 CAACAGCTCAAACACTGATGATC 58.280 43.478 0.00 0.00 38.55 2.92
2423 5316 3.341823 ACAGCTCAAACACTGATGATCC 58.658 45.455 0.00 0.00 37.35 3.36
2426 5319 2.097142 GCTCAAACACTGATGATCCTGC 59.903 50.000 0.00 0.00 32.14 4.85
2450 5349 2.906389 AGGATGGTCTACAGAAGTTGCA 59.094 45.455 0.00 0.00 0.00 4.08
2540 5439 4.162509 AGGAGGCTTTTGGACAGATAGTAC 59.837 45.833 0.00 0.00 0.00 2.73
2546 5445 6.341316 GCTTTTGGACAGATAGTACTGATGA 58.659 40.000 5.39 0.00 40.63 2.92
2616 5515 5.064441 ACAAGGCATTCTTCTATTGCAAC 57.936 39.130 0.00 0.00 36.40 4.17
2628 5527 0.388907 ATTGCAACGCCACAGCATTC 60.389 50.000 0.00 0.00 39.83 2.67
2643 5542 2.084546 GCATTCGTAGCCTCTTTGGTT 58.915 47.619 0.00 0.00 38.35 3.67
2796 5695 8.352137 TCTCAACATCCATTTATGTGTTCATT 57.648 30.769 0.00 0.00 39.98 2.57
2802 5701 8.896744 ACATCCATTTATGTGTTCATTCTAGTG 58.103 33.333 0.00 0.00 38.65 2.74
2875 5894 1.490490 TCAAGGCACCAGTGAAGAAGT 59.510 47.619 0.99 0.00 0.00 3.01
3243 6358 3.753272 GCACATGTGTACTGGTTGATCTT 59.247 43.478 26.01 0.00 0.00 2.40
3950 7113 2.094026 GGGTGGGATGTCTGCAAAATTC 60.094 50.000 0.00 0.00 0.00 2.17
3991 7165 9.028097 GATTCAAGCAATCAACCATCTGATGGA 62.028 40.741 36.59 19.25 45.35 3.41
4143 7437 8.465999 TGTAGTATTATTTGGTGCATTCTTTGG 58.534 33.333 0.00 0.00 0.00 3.28
4438 7746 9.771534 ACAATACTGAAAGAGATAATTAGGAGC 57.228 33.333 0.00 0.00 37.43 4.70
4728 8262 6.380079 AAGATACTTGTTCAAGGATGGAGT 57.620 37.500 14.09 0.00 0.00 3.85
4764 8300 4.835284 ACCTTCCTTTCCTTTTTGCAAA 57.165 36.364 8.05 8.05 0.00 3.68
4775 8311 4.099419 TCCTTTTTGCAAAAGAGGAAGGAC 59.901 41.667 31.64 0.00 34.89 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 70 4.024048 ACGTGCATGGCAAGCTAATATAAC 60.024 41.667 16.31 2.81 41.40 1.89
101 108 6.750775 AGAATCGCGCTAGATTTACTTTAC 57.249 37.500 5.56 0.00 40.58 2.01
197 266 5.106157 ACACAGACCTGTCTTTGTTCTTTTG 60.106 40.000 12.15 0.00 45.28 2.44
224 296 1.269206 GCAGGTGTGTGAAATGTGTGG 60.269 52.381 0.00 0.00 0.00 4.17
231 303 2.254546 CCTACAGCAGGTGTGTGAAA 57.745 50.000 15.78 0.00 40.69 2.69
244 316 4.463891 ACCATTTCAATTTCAGGCCTACAG 59.536 41.667 3.98 0.00 0.00 2.74
250 322 3.683365 ACCACCATTTCAATTTCAGGC 57.317 42.857 0.00 0.00 0.00 4.85
269 341 5.001232 TGTGGTGCCTGAAAGTTTATCTAC 58.999 41.667 0.00 0.00 0.00 2.59
288 361 3.574284 TTTGCGATTCTTGGATTGTGG 57.426 42.857 0.00 0.00 0.00 4.17
303 376 6.951530 TCGAGAATATACGAAAAAGTTTTGCG 59.048 34.615 24.13 24.13 35.62 4.85
311 384 7.318141 ACTGAACCTCGAGAATATACGAAAAA 58.682 34.615 15.71 0.00 38.05 1.94
340 419 9.129532 CTGCCCTTTCTATCTATCTTTTTCATT 57.870 33.333 0.00 0.00 0.00 2.57
414 2357 7.382110 CCTCGTGTCTTTCCATCTGAATATAT 58.618 38.462 0.00 0.00 31.67 0.86
465 2413 0.738389 ACTTGCACAAACGTCCAAGG 59.262 50.000 13.55 0.00 39.09 3.61
494 2455 6.472808 GCAGTAGTACAGTATTGTCAAGCTAC 59.527 42.308 2.52 4.61 38.76 3.58
495 2456 6.152154 TGCAGTAGTACAGTATTGTCAAGCTA 59.848 38.462 2.52 0.00 38.76 3.32
496 2457 5.047306 TGCAGTAGTACAGTATTGTCAAGCT 60.047 40.000 2.52 0.00 38.76 3.74
641 2954 1.070289 GGGAGTACCTAATTGGGAGCG 59.930 57.143 15.76 0.00 41.11 5.03
654 2969 2.955477 ATTCGAAACGGAGGGAGTAC 57.045 50.000 0.00 0.00 0.00 2.73
655 2970 4.019174 AGTAATTCGAAACGGAGGGAGTA 58.981 43.478 0.00 0.00 0.00 2.59
656 2971 2.830321 AGTAATTCGAAACGGAGGGAGT 59.170 45.455 0.00 0.00 0.00 3.85
677 2992 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
678 2993 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
681 2996 7.664082 AAATCTAGATACATCCATTTCTGCG 57.336 36.000 5.46 0.00 0.00 5.18
682 2997 9.935241 TCTAAATCTAGATACATCCATTTCTGC 57.065 33.333 5.46 0.00 0.00 4.26
697 3012 9.935241 GCAGAAATGGATGTATCTAAATCTAGA 57.065 33.333 0.00 0.00 38.54 2.43
698 3013 8.867935 CGCAGAAATGGATGTATCTAAATCTAG 58.132 37.037 0.00 0.00 0.00 2.43
699 3014 8.585018 TCGCAGAAATGGATGTATCTAAATCTA 58.415 33.333 0.00 0.00 0.00 1.98
701 3016 7.513968 GTCGCAGAAATGGATGTATCTAAATC 58.486 38.462 0.00 0.00 39.69 2.17
702 3017 6.146184 CGTCGCAGAAATGGATGTATCTAAAT 59.854 38.462 0.00 0.00 39.69 1.40
703 3018 5.462068 CGTCGCAGAAATGGATGTATCTAAA 59.538 40.000 0.00 0.00 39.69 1.85
704 3019 4.982295 CGTCGCAGAAATGGATGTATCTAA 59.018 41.667 0.00 0.00 39.69 2.10
705 3020 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
706 3021 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
707 3022 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
709 3024 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
710 3025 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
711 3026 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
712 3027 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
713 3028 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
714 3029 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
715 3030 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
716 3031 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
717 3032 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
718 3033 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
719 3034 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
720 3035 2.734606 TGTTCCAAATTACTCGTCGCAG 59.265 45.455 0.00 0.00 0.00 5.18
721 3036 2.734606 CTGTTCCAAATTACTCGTCGCA 59.265 45.455 0.00 0.00 0.00 5.10
722 3037 2.991190 TCTGTTCCAAATTACTCGTCGC 59.009 45.455 0.00 0.00 0.00 5.19
723 3038 3.612860 CCTCTGTTCCAAATTACTCGTCG 59.387 47.826 0.00 0.00 0.00 5.12
724 3039 3.933332 CCCTCTGTTCCAAATTACTCGTC 59.067 47.826 0.00 0.00 0.00 4.20
725 3040 3.581332 TCCCTCTGTTCCAAATTACTCGT 59.419 43.478 0.00 0.00 0.00 4.18
726 3041 4.184629 CTCCCTCTGTTCCAAATTACTCG 58.815 47.826 0.00 0.00 0.00 4.18
727 3042 5.167303 ACTCCCTCTGTTCCAAATTACTC 57.833 43.478 0.00 0.00 0.00 2.59
728 3043 5.189934 CCTACTCCCTCTGTTCCAAATTACT 59.810 44.000 0.00 0.00 0.00 2.24
729 3044 5.189145 TCCTACTCCCTCTGTTCCAAATTAC 59.811 44.000 0.00 0.00 0.00 1.89
730 3045 5.347124 TCCTACTCCCTCTGTTCCAAATTA 58.653 41.667 0.00 0.00 0.00 1.40
731 3046 4.175962 TCCTACTCCCTCTGTTCCAAATT 58.824 43.478 0.00 0.00 0.00 1.82
732 3047 3.777522 CTCCTACTCCCTCTGTTCCAAAT 59.222 47.826 0.00 0.00 0.00 2.32
733 3048 3.173965 CTCCTACTCCCTCTGTTCCAAA 58.826 50.000 0.00 0.00 0.00 3.28
734 3049 2.111972 ACTCCTACTCCCTCTGTTCCAA 59.888 50.000 0.00 0.00 0.00 3.53
735 3050 1.717077 ACTCCTACTCCCTCTGTTCCA 59.283 52.381 0.00 0.00 0.00 3.53
736 3051 2.104170 CACTCCTACTCCCTCTGTTCC 58.896 57.143 0.00 0.00 0.00 3.62
737 3052 2.810164 ACACTCCTACTCCCTCTGTTC 58.190 52.381 0.00 0.00 0.00 3.18
738 3053 3.334280 ACTACACTCCTACTCCCTCTGTT 59.666 47.826 0.00 0.00 0.00 3.16
739 3054 2.920941 ACTACACTCCTACTCCCTCTGT 59.079 50.000 0.00 0.00 0.00 3.41
740 3055 3.655615 ACTACACTCCTACTCCCTCTG 57.344 52.381 0.00 0.00 0.00 3.35
741 3056 5.491800 TCTTTACTACACTCCTACTCCCTCT 59.508 44.000 0.00 0.00 0.00 3.69
781 3096 3.498121 CCCTAGTCCGTCCTAGCTTCATA 60.498 52.174 0.00 0.00 34.34 2.15
1038 3694 1.202746 GCCATGGGTCTGAGATTCCTC 60.203 57.143 15.13 0.00 39.86 3.71
1068 3724 3.056313 GCCATTGCCGTTCTGCTCC 62.056 63.158 0.00 0.00 0.00 4.70
1206 3931 4.634703 AACGTGATGGCCGCCACA 62.635 61.111 16.16 12.22 35.80 4.17
1504 4232 2.290323 ACACCCAGATGTAAACAGAGGC 60.290 50.000 0.00 0.00 0.00 4.70
1535 4263 2.159043 AGTGTGACATAGGCGAAGATGG 60.159 50.000 0.00 0.00 0.00 3.51
1591 4319 1.609072 GGATAGAAATTTCCGCAGCCC 59.391 52.381 14.61 4.58 0.00 5.19
1599 4327 6.737254 TTCTTGACACCGGATAGAAATTTC 57.263 37.500 9.46 10.33 0.00 2.17
1653 4381 7.441890 TTGCTTATCTGGTTTTGACGAATTA 57.558 32.000 0.00 0.00 0.00 1.40
1655 4383 5.957842 TTGCTTATCTGGTTTTGACGAAT 57.042 34.783 0.00 0.00 0.00 3.34
1656 4384 5.759506 TTTGCTTATCTGGTTTTGACGAA 57.240 34.783 0.00 0.00 0.00 3.85
1659 4387 4.686091 GCCTTTTGCTTATCTGGTTTTGAC 59.314 41.667 0.00 0.00 36.87 3.18
1710 4528 9.958180 TCTTCTATGTTAATTGAATTCACTCCA 57.042 29.630 7.89 1.53 29.09 3.86
1725 4543 9.231297 CCATTTCTTTCAGGTTCTTCTATGTTA 57.769 33.333 0.00 0.00 0.00 2.41
1728 4546 6.151648 TGCCATTTCTTTCAGGTTCTTCTATG 59.848 38.462 0.00 0.00 0.00 2.23
2289 5173 1.416401 AGACGTGTGATGGTGTTTCCT 59.584 47.619 0.00 0.00 37.07 3.36
2372 5256 1.305930 GGATTGAGGCGGTTGGTCAC 61.306 60.000 0.00 0.00 0.00 3.67
2377 5270 0.958091 TTGTTGGATTGAGGCGGTTG 59.042 50.000 0.00 0.00 0.00 3.77
2381 5274 0.109597 GCTGTTGTTGGATTGAGGCG 60.110 55.000 0.00 0.00 0.00 5.52
2406 5299 3.607741 AGCAGGATCATCAGTGTTTGAG 58.392 45.455 0.00 0.00 39.68 3.02
2407 5300 3.708403 AGCAGGATCATCAGTGTTTGA 57.292 42.857 0.00 1.90 40.85 2.69
2422 5315 3.300388 TCTGTAGACCATCCTTAGCAGG 58.700 50.000 0.00 0.00 42.50 4.85
2423 5316 4.404073 ACTTCTGTAGACCATCCTTAGCAG 59.596 45.833 0.00 0.00 0.00 4.24
2426 5319 5.112686 GCAACTTCTGTAGACCATCCTTAG 58.887 45.833 0.00 0.00 0.00 2.18
2450 5349 3.947834 GCCAAGCAATAGAAGGTATGTGT 59.052 43.478 0.00 0.00 0.00 3.72
2616 5515 2.703409 GCTACGAATGCTGTGGCG 59.297 61.111 0.00 0.00 42.25 5.69
2628 5527 4.693283 TGATGATAACCAAAGAGGCTACG 58.307 43.478 0.00 0.00 43.14 3.51
2643 5542 3.831333 GACTCTGGAGCAGGATGATGATA 59.169 47.826 0.00 0.00 39.69 2.15
2796 5695 1.337823 GCGAAAACCAGGAGCACTAGA 60.338 52.381 0.00 0.00 0.00 2.43
2802 5701 1.017387 CATAGGCGAAAACCAGGAGC 58.983 55.000 0.00 0.00 0.00 4.70
3222 6337 6.818142 TGATAAGATCAACCAGTACACATGTG 59.182 38.462 24.25 24.25 36.11 3.21
3223 6338 6.946340 TGATAAGATCAACCAGTACACATGT 58.054 36.000 0.00 0.00 36.11 3.21
3243 6358 1.216064 AAGCACCCATGAGGCTGATA 58.784 50.000 0.00 0.00 40.58 2.15
4438 7746 3.314553 ACATCCTCACTTTGTAACGTCG 58.685 45.455 0.00 0.00 0.00 5.12
4513 8043 0.037697 AAATGCTAGTGACACCGCGA 60.038 50.000 8.23 0.00 0.00 5.87
4700 8234 6.434028 CCATCCTTGAACAAGTATCTTCCAAA 59.566 38.462 12.54 0.00 36.72 3.28
4754 8290 5.268118 AGTCCTTCCTCTTTTGCAAAAAG 57.732 39.130 23.92 20.99 0.00 2.27
4764 8300 4.078336 TCCCATGATCTAGTCCTTCCTCTT 60.078 45.833 0.00 0.00 0.00 2.85
4775 8311 2.169144 TGTGCACACTCCCATGATCTAG 59.831 50.000 17.42 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.