Multiple sequence alignment - TraesCS7D01G422600

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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 TraesCS7D01G422600 chr7D 100.000 3953 0 0 1 3953 543060615 543056663 0.000000e+00 7300.0
1 TraesCS7D01G422600 chr7D 92.567 2314 101 22 656 2919 543601905 543604197 0.000000e+00 3254.0
2 TraesCS7D01G422600 chr7D 77.955 440 79 10 166 600 254320941 254321367 3.920000e-65 259.0
3 TraesCS7D01G422600 chr7B 93.503 2278 107 11 666 2919 586659295 586661555 0.000000e+00 3349.0
4 TraesCS7D01G422600 chr7B 93.494 2198 100 15 752 2919 586266033 586263849 0.000000e+00 3227.0
5 TraesCS7D01G422600 chr7B 93.067 476 32 1 2445 2919 586668643 586669118 0.000000e+00 695.0
6 TraesCS7D01G422600 chr7B 90.876 274 25 0 482 755 586266338 586266065 6.240000e-98 368.0
7 TraesCS7D01G422600 chr7B 83.934 305 30 8 3635 3932 586263854 586263562 1.400000e-69 274.0
8 TraesCS7D01G422600 chr7B 100.000 34 0 0 3635 3668 586661550 586661583 3.300000e-06 63.9
9 TraesCS7D01G422600 chr7B 100.000 34 0 0 3635 3668 586669113 586669146 3.300000e-06 63.9
10 TraesCS7D01G422600 chr7A 92.224 2302 130 28 656 2919 624967466 624965176 0.000000e+00 3214.0
11 TraesCS7D01G422600 chr7A 90.095 737 53 7 1 717 624980728 624979992 0.000000e+00 939.0
12 TraesCS7D01G422600 chr5A 92.645 1917 132 4 1001 2917 505628018 505626111 0.000000e+00 2750.0
13 TraesCS7D01G422600 chr5D 92.544 1918 132 6 1001 2917 400297237 400295330 0.000000e+00 2739.0
14 TraesCS7D01G422600 chr5D 82.218 478 66 9 160 624 510907428 510906957 1.030000e-105 394.0
15 TraesCS7D01G422600 chr5B 92.225 1942 137 10 977 2917 480303689 480301761 0.000000e+00 2737.0
16 TraesCS7D01G422600 chr5B 93.434 731 35 6 2917 3634 690271666 690272396 0.000000e+00 1072.0
17 TraesCS7D01G422600 chr5B 82.511 446 67 5 160 604 504777059 504777494 8.020000e-102 381.0
18 TraesCS7D01G422600 chr2D 82.276 1828 294 21 1095 2910 651417405 651419214 0.000000e+00 1554.0
19 TraesCS7D01G422600 chr2D 94.918 728 25 6 2917 3635 81474064 81473340 0.000000e+00 1129.0
20 TraesCS7D01G422600 chr2D 94.565 736 25 8 2914 3634 82877129 82876394 0.000000e+00 1123.0
21 TraesCS7D01G422600 chr2D 94.550 734 23 7 2917 3634 550275882 550275150 0.000000e+00 1118.0
22 TraesCS7D01G422600 chr2D 93.767 738 31 8 2911 3634 496664596 496665332 0.000000e+00 1094.0
23 TraesCS7D01G422600 chr2A 81.813 1820 298 20 1104 2910 776218355 776216556 0.000000e+00 1496.0
24 TraesCS7D01G422600 chr2A 78.079 479 80 17 157 629 758681854 758682313 3.010000e-71 279.0
25 TraesCS7D01G422600 chr2B 81.137 1829 300 31 1104 2910 780667733 780665928 0.000000e+00 1424.0
26 TraesCS7D01G422600 chr2B 82.422 256 30 10 161 413 476403433 476403190 4.000000e-50 209.0
27 TraesCS7D01G422600 chr1D 94.309 738 27 6 2913 3635 475251942 475252679 0.000000e+00 1116.0
28 TraesCS7D01G422600 chr3D 93.902 738 31 7 2914 3637 406909855 406910592 0.000000e+00 1101.0
29 TraesCS7D01G422600 chr3D 93.750 736 31 9 2912 3634 133545108 133544375 0.000000e+00 1090.0
30 TraesCS7D01G422600 chr3D 84.043 94 12 3 308 399 374688992 374689084 1.960000e-13 87.9
31 TraesCS7D01G422600 chr6B 93.434 731 35 6 2917 3634 579210303 579209573 0.000000e+00 1072.0
32 TraesCS7D01G422600 chr1A 76.458 480 77 23 157 630 95047471 95047920 1.110000e-55 228.0
33 TraesCS7D01G422600 chr1A 75.625 480 81 23 157 630 95530009 95529560 5.180000e-49 206.0
34 TraesCS7D01G422600 chr4D 82.222 270 39 3 157 425 386983166 386983427 1.430000e-54 224.0
35 TraesCS7D01G422600 chrUn 83.721 215 30 3 166 380 12522682 12522473 8.660000e-47 198.0


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 TraesCS7D01G422600 chr7D 543056663 543060615 3952 True 7300.000000 7300 100.000000 1 3953 1 chr7D.!!$R1 3952
1 TraesCS7D01G422600 chr7D 543601905 543604197 2292 False 3254.000000 3254 92.567000 656 2919 1 chr7D.!!$F2 2263
2 TraesCS7D01G422600 chr7B 586659295 586661583 2288 False 1706.450000 3349 96.751500 666 3668 2 chr7B.!!$F1 3002
3 TraesCS7D01G422600 chr7B 586263562 586266338 2776 True 1289.666667 3227 89.434667 482 3932 3 chr7B.!!$R1 3450
4 TraesCS7D01G422600 chr7B 586668643 586669146 503 False 379.450000 695 96.533500 2445 3668 2 chr7B.!!$F2 1223
5 TraesCS7D01G422600 chr7A 624965176 624967466 2290 True 3214.000000 3214 92.224000 656 2919 1 chr7A.!!$R1 2263
6 TraesCS7D01G422600 chr7A 624979992 624980728 736 True 939.000000 939 90.095000 1 717 1 chr7A.!!$R2 716
7 TraesCS7D01G422600 chr5A 505626111 505628018 1907 True 2750.000000 2750 92.645000 1001 2917 1 chr5A.!!$R1 1916
8 TraesCS7D01G422600 chr5D 400295330 400297237 1907 True 2739.000000 2739 92.544000 1001 2917 1 chr5D.!!$R1 1916
9 TraesCS7D01G422600 chr5B 480301761 480303689 1928 True 2737.000000 2737 92.225000 977 2917 1 chr5B.!!$R1 1940
10 TraesCS7D01G422600 chr5B 690271666 690272396 730 False 1072.000000 1072 93.434000 2917 3634 1 chr5B.!!$F2 717
11 TraesCS7D01G422600 chr2D 651417405 651419214 1809 False 1554.000000 1554 82.276000 1095 2910 1 chr2D.!!$F2 1815
12 TraesCS7D01G422600 chr2D 81473340 81474064 724 True 1129.000000 1129 94.918000 2917 3635 1 chr2D.!!$R1 718
13 TraesCS7D01G422600 chr2D 82876394 82877129 735 True 1123.000000 1123 94.565000 2914 3634 1 chr2D.!!$R2 720
14 TraesCS7D01G422600 chr2D 550275150 550275882 732 True 1118.000000 1118 94.550000 2917 3634 1 chr2D.!!$R3 717
15 TraesCS7D01G422600 chr2D 496664596 496665332 736 False 1094.000000 1094 93.767000 2911 3634 1 chr2D.!!$F1 723
16 TraesCS7D01G422600 chr2A 776216556 776218355 1799 True 1496.000000 1496 81.813000 1104 2910 1 chr2A.!!$R1 1806
17 TraesCS7D01G422600 chr2B 780665928 780667733 1805 True 1424.000000 1424 81.137000 1104 2910 1 chr2B.!!$R2 1806
18 TraesCS7D01G422600 chr1D 475251942 475252679 737 False 1116.000000 1116 94.309000 2913 3635 1 chr1D.!!$F1 722
19 TraesCS7D01G422600 chr3D 406909855 406910592 737 False 1101.000000 1101 93.902000 2914 3637 1 chr3D.!!$F2 723
20 TraesCS7D01G422600 chr3D 133544375 133545108 733 True 1090.000000 1090 93.750000 2912 3634 1 chr3D.!!$R1 722
21 TraesCS7D01G422600 chr6B 579209573 579210303 730 True 1072.000000 1072 93.434000 2917 3634 1 chr6B.!!$R1 717

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
855 930 0.103208 GAACTCACGGCGGAGATCAT 59.897 55.0 25.17 12.24 36.87 2.45 F
946 1062 0.882927 CGACGGCCTCTCTCCTCTAG 60.883 65.0 0.00 0.00 0.00 2.43 F
2175 2330 0.182775 ACTTCAACGGCAAGGAACCT 59.817 50.0 0.00 0.00 0.00 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 2233 0.109086 CTCGTCGATGTCAGCCTTGT 60.109 55.0 4.21 0.0 0.0 3.16 R
2848 3004 0.411452 TCCTCCTTCTCTGCCTCTGT 59.589 55.0 0.00 0.0 0.0 3.41 R
3682 3860 0.033228 GATCGCCATCCTCCTCAGTG 59.967 60.0 0.00 0.0 0.0 3.66 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 26 4.759693 TGTACGCATCCTTGAAACAGATTT 59.240 37.500 0.00 0.00 0.00 2.17
76 77 0.512952 CTACTGAAGCACCGTGTTGC 59.487 55.000 0.00 0.00 43.34 4.17
94 95 0.811281 GCACACCCTTAATCAGTGGC 59.189 55.000 0.00 0.00 35.79 5.01
105 106 5.450412 CCTTAATCAGTGGCGTGCATATTTT 60.450 40.000 0.00 0.00 0.00 1.82
120 121 2.869233 ATTTTGCACGAACAAGCACT 57.131 40.000 0.00 0.00 41.05 4.40
213 234 3.305471 GCACCCGTTAGATCTAGTCCATC 60.305 52.174 2.02 0.00 0.00 3.51
266 287 1.299541 AAGTCAGTGTTGCAGAACCG 58.700 50.000 0.00 0.00 0.00 4.44
281 302 0.663153 AACCGTTTGCAACAGAGCTC 59.337 50.000 5.27 5.27 34.99 4.09
371 392 1.003580 ACATGATGTTGCGGAAGGACT 59.996 47.619 0.00 0.00 0.00 3.85
382 403 1.868498 CGGAAGGACTTTTGCAACGTA 59.132 47.619 0.00 0.00 0.00 3.57
386 407 5.334260 CGGAAGGACTTTTGCAACGTAAATA 60.334 40.000 0.00 0.00 0.00 1.40
416 437 5.386627 GCACAAATTAAAGGTAAAACGTCGC 60.387 40.000 0.00 0.00 0.00 5.19
450 471 3.319198 GGAGGAACACGGGAGGCA 61.319 66.667 0.00 0.00 0.00 4.75
457 478 2.190578 CACGGGAGGCAAGGGATC 59.809 66.667 0.00 0.00 0.00 3.36
460 481 2.679342 CGGGAGGCAAGGGATCCAA 61.679 63.158 15.23 0.00 34.62 3.53
476 497 3.675348 TCCAAATCCAGATCCTGCAAT 57.325 42.857 0.00 0.00 0.00 3.56
480 501 7.036154 TCCAAATCCAGATCCTGCAATATAT 57.964 36.000 0.00 0.00 0.00 0.86
496 517 5.049474 GCAATATATGAGTTGTTGCGATGGA 60.049 40.000 0.00 0.00 36.27 3.41
499 520 1.960417 TGAGTTGTTGCGATGGACAA 58.040 45.000 0.00 0.00 33.67 3.18
511 532 2.290367 CGATGGACAAACTGCAACAAGA 59.710 45.455 0.00 0.00 0.00 3.02
517 538 4.531332 GACAAACTGCAACAAGAGCTTAG 58.469 43.478 0.00 0.00 0.00 2.18
552 573 2.292016 AGAGATAATGCGAGGTGAGTCG 59.708 50.000 0.00 0.00 43.08 4.18
586 607 2.833582 ATGGACGAGGCGACGGAT 60.834 61.111 11.12 0.00 37.61 4.18
700 721 3.751698 ACTTGAATAAACAGAAGGCCGTC 59.248 43.478 11.15 11.15 0.00 4.79
701 723 2.343101 TGAATAAACAGAAGGCCGTCG 58.657 47.619 13.29 10.54 0.00 5.12
728 750 4.303282 CCCATAAACAAAGTGAAAACCGG 58.697 43.478 0.00 0.00 0.00 5.28
732 754 6.535508 CCATAAACAAAGTGAAAACCGGAAAA 59.464 34.615 9.46 0.00 0.00 2.29
734 756 6.415798 AAACAAAGTGAAAACCGGAAAATG 57.584 33.333 9.46 0.00 0.00 2.32
816 891 2.436539 CGACACGTCACGGCATCTG 61.437 63.158 0.35 0.00 0.00 2.90
831 906 3.270877 GCATCTGGTTAACCGTCAGATT 58.729 45.455 19.65 5.22 43.32 2.40
855 930 0.103208 GAACTCACGGCGGAGATCAT 59.897 55.000 25.17 12.24 36.87 2.45
940 1056 4.838486 CGTGCGACGGCCTCTCTC 62.838 72.222 0.00 0.00 38.08 3.20
941 1057 4.500116 GTGCGACGGCCTCTCTCC 62.500 72.222 0.00 0.00 38.85 3.71
942 1058 4.742649 TGCGACGGCCTCTCTCCT 62.743 66.667 0.00 0.00 38.85 3.69
943 1059 3.894947 GCGACGGCCTCTCTCCTC 61.895 72.222 0.00 0.00 0.00 3.71
944 1060 2.124487 CGACGGCCTCTCTCCTCT 60.124 66.667 0.00 0.00 0.00 3.69
945 1061 1.146485 CGACGGCCTCTCTCCTCTA 59.854 63.158 0.00 0.00 0.00 2.43
946 1062 0.882927 CGACGGCCTCTCTCCTCTAG 60.883 65.000 0.00 0.00 0.00 2.43
958 1078 4.080015 TCTCTCCTCTAGTCCTCTCCAAAG 60.080 50.000 0.00 0.00 0.00 2.77
962 1082 3.368948 CCTCTAGTCCTCTCCAAAGCAAC 60.369 52.174 0.00 0.00 0.00 4.17
1065 1204 2.202743 TTGCTTCTCGCGATCCCG 60.203 61.111 10.36 0.00 43.27 5.14
1392 1534 2.747460 TCCGTCGTCGACCGGAAT 60.747 61.111 26.90 0.00 39.71 3.01
2067 2222 1.152881 GAAGAAGGCCATGGCGGAT 60.153 57.895 29.90 18.31 43.06 4.18
2175 2330 0.182775 ACTTCAACGGCAAGGAACCT 59.817 50.000 0.00 0.00 0.00 3.50
2408 2563 1.279271 GTACCAGGACAAGCAGACCAT 59.721 52.381 0.00 0.00 34.24 3.55
2469 2624 2.584391 GGACAACAGGCTCCTCGGT 61.584 63.158 0.00 0.00 0.00 4.69
2535 2690 0.318784 AGCTTGAGGTGACGTTCGAC 60.319 55.000 0.00 0.00 0.00 4.20
2826 2982 2.134287 GGATGCGCTGAGGGAGGTA 61.134 63.158 9.73 0.00 0.00 3.08
2848 3004 3.514777 GAGTGGCTCGATGACAACA 57.485 52.632 0.00 0.00 34.07 3.33
2883 3039 2.691011 GGAGGACTACGATGAGAAGCTT 59.309 50.000 0.00 0.00 0.00 3.74
2890 3046 0.741326 CGATGAGAAGCTTCGGGAGA 59.259 55.000 20.43 4.78 39.64 3.71
3189 3353 5.116882 GCATACGACTAGAAACCCAATCTT 58.883 41.667 0.00 0.00 0.00 2.40
3291 3455 3.892122 GAGAGGAGCTCGACACGA 58.108 61.111 7.83 0.00 35.36 4.35
3356 3521 2.835764 AGCGAGGTGGGACTAAACATTA 59.164 45.455 0.00 0.00 0.00 1.90
3361 3526 5.129368 AGGTGGGACTAAACATTATGCAT 57.871 39.130 3.79 3.79 0.00 3.96
3520 3698 2.733301 TTCGCCACGAACCGGTAA 59.267 55.556 8.00 0.00 41.05 2.85
3637 3815 5.735766 AGACCCTTTTTCTACTAGTGCATC 58.264 41.667 5.39 0.00 0.00 3.91
3638 3816 5.248477 AGACCCTTTTTCTACTAGTGCATCA 59.752 40.000 5.39 0.00 0.00 3.07
3639 3817 5.246307 ACCCTTTTTCTACTAGTGCATCAC 58.754 41.667 5.39 0.00 34.10 3.06
3668 3846 2.294890 CAGAGGTCTGGAGGTGCAT 58.705 57.895 0.00 0.00 40.20 3.96
3670 3848 1.142748 GAGGTCTGGAGGTGCATCG 59.857 63.158 0.00 0.00 0.00 3.84
3671 3849 2.187946 GGTCTGGAGGTGCATCGG 59.812 66.667 0.00 0.00 0.00 4.18
3672 3850 2.187946 GTCTGGAGGTGCATCGGG 59.812 66.667 0.00 0.00 0.00 5.14
3691 3869 0.034059 GTGACCACACCACTGAGGAG 59.966 60.000 0.00 0.00 41.22 3.69
3694 3872 0.178891 ACCACACCACTGAGGAGGAT 60.179 55.000 0.00 0.00 41.22 3.24
3696 3874 0.251354 CACACCACTGAGGAGGATGG 59.749 60.000 0.00 0.00 41.22 3.51
3726 3904 3.354948 TGAACTCTAGGCACATGCAAT 57.645 42.857 6.15 0.00 44.36 3.56
3737 3915 4.708421 AGGCACATGCAATTTGTTAGATCT 59.292 37.500 6.15 0.00 44.36 2.75
3804 3985 3.367992 TGCACGTTTGAATTGCATTCT 57.632 38.095 9.34 0.00 41.29 2.40
3842 4026 8.922058 AAAGTTGTGATGCAATGATATTTCTC 57.078 30.769 0.00 0.00 39.55 2.87
3843 4027 7.634671 AGTTGTGATGCAATGATATTTCTCA 57.365 32.000 0.00 0.00 39.55 3.27
3899 4088 9.995003 TTTGTTTATGAGTTATTGCTGGAATTT 57.005 25.926 0.00 0.00 0.00 1.82
3952 4141 6.528537 TCAACATTTGATTGGATGGTTAGG 57.471 37.500 0.00 0.00 34.08 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 1.086696 CGCCACTGATTAAGGGTGTG 58.913 55.000 0.00 0.00 0.00 3.82
105 106 1.090728 TTTCAGTGCTTGTTCGTGCA 58.909 45.000 0.00 0.00 36.79 4.57
134 135 1.367102 CCCACCGCAAATTGCAACT 59.633 52.632 18.65 0.00 45.36 3.16
152 153 1.571919 AGATTATTCACCGACGCTGC 58.428 50.000 0.00 0.00 0.00 5.25
153 154 5.712217 TTTTAGATTATTCACCGACGCTG 57.288 39.130 0.00 0.00 0.00 5.18
154 155 6.103997 TCTTTTTAGATTATTCACCGACGCT 58.896 36.000 0.00 0.00 0.00 5.07
157 158 8.336080 GTGGATCTTTTTAGATTATTCACCGAC 58.664 37.037 0.00 0.00 0.00 4.79
159 160 7.282224 TGGTGGATCTTTTTAGATTATTCACCG 59.718 37.037 0.00 0.00 37.72 4.94
218 239 1.587066 AATAAGGACGGGGCTAACCA 58.413 50.000 0.00 0.00 42.91 3.67
358 379 0.383949 TGCAAAAGTCCTTCCGCAAC 59.616 50.000 0.00 0.00 30.13 4.17
402 423 2.704725 TCTACGCGACGTTTTACCTT 57.295 45.000 15.93 0.00 41.54 3.50
408 429 1.730547 CCCGTTCTACGCGACGTTT 60.731 57.895 15.93 0.00 40.91 3.60
416 437 1.153628 CCCAAGCTCCCGTTCTACG 60.154 63.158 0.00 0.00 42.11 3.51
426 447 1.376037 CCGTGTTCCTCCCAAGCTC 60.376 63.158 0.00 0.00 0.00 4.09
457 478 6.888088 TCATATATTGCAGGATCTGGATTTGG 59.112 38.462 0.00 0.00 30.73 3.28
460 481 7.268212 ACTCATATATTGCAGGATCTGGATT 57.732 36.000 0.00 0.00 30.73 3.01
469 490 4.273235 TCGCAACAACTCATATATTGCAGG 59.727 41.667 7.89 0.00 44.65 4.85
476 497 5.017294 TGTCCATCGCAACAACTCATATA 57.983 39.130 0.00 0.00 0.00 0.86
480 501 1.960417 TTGTCCATCGCAACAACTCA 58.040 45.000 0.00 0.00 30.73 3.41
496 517 3.947834 ACTAAGCTCTTGTTGCAGTTTGT 59.052 39.130 0.00 0.00 0.00 2.83
499 520 4.558538 CAACTAAGCTCTTGTTGCAGTT 57.441 40.909 11.60 2.26 35.39 3.16
511 532 1.028905 TGCGGTTTTGCAACTAAGCT 58.971 45.000 0.00 0.00 43.02 3.74
534 555 1.772182 CCGACTCACCTCGCATTATC 58.228 55.000 0.00 0.00 31.98 1.75
536 557 1.141019 GCCGACTCACCTCGCATTA 59.859 57.895 0.00 0.00 31.98 1.90
567 588 4.129737 CCGTCGCCTCGTCCATGT 62.130 66.667 0.00 0.00 0.00 3.21
570 591 3.822192 CATCCGTCGCCTCGTCCA 61.822 66.667 0.00 0.00 0.00 4.02
617 638 9.566432 ACTAACTGATTCTGAAAAGAGAAATGT 57.434 29.630 9.62 0.00 35.60 2.71
700 721 2.817258 TCACTTTGTTTATGGGCCTTCG 59.183 45.455 4.53 0.00 0.00 3.79
701 723 4.864704 TTCACTTTGTTTATGGGCCTTC 57.135 40.909 4.53 0.00 0.00 3.46
728 750 4.084013 AGGAACGTCGATGTGTTCATTTTC 60.084 41.667 21.71 10.48 44.85 2.29
732 754 2.743636 AGGAACGTCGATGTGTTCAT 57.256 45.000 21.71 15.79 44.85 2.57
734 756 3.766151 TGATAGGAACGTCGATGTGTTC 58.234 45.455 11.82 14.22 42.87 3.18
816 891 1.737793 CTGCCAATCTGACGGTTAACC 59.262 52.381 15.13 15.13 0.00 2.85
831 906 4.680237 CCGCCGTGAGTTCTGCCA 62.680 66.667 0.00 0.00 0.00 4.92
926 1042 2.944409 TAGAGGAGAGAGGCCGTCGC 62.944 65.000 0.00 0.00 0.00 5.19
937 1053 3.626222 GCTTTGGAGAGGACTAGAGGAGA 60.626 52.174 0.00 0.00 0.00 3.71
938 1054 2.693074 GCTTTGGAGAGGACTAGAGGAG 59.307 54.545 0.00 0.00 0.00 3.69
939 1055 2.043115 TGCTTTGGAGAGGACTAGAGGA 59.957 50.000 0.00 0.00 0.00 3.71
940 1056 2.461695 TGCTTTGGAGAGGACTAGAGG 58.538 52.381 0.00 0.00 0.00 3.69
941 1057 3.259374 TGTTGCTTTGGAGAGGACTAGAG 59.741 47.826 0.00 0.00 0.00 2.43
942 1058 3.239449 TGTTGCTTTGGAGAGGACTAGA 58.761 45.455 0.00 0.00 0.00 2.43
943 1059 3.594134 CTGTTGCTTTGGAGAGGACTAG 58.406 50.000 0.00 0.00 0.00 2.57
944 1060 2.289694 GCTGTTGCTTTGGAGAGGACTA 60.290 50.000 0.00 0.00 36.03 2.59
945 1061 1.544314 GCTGTTGCTTTGGAGAGGACT 60.544 52.381 0.00 0.00 36.03 3.85
946 1062 0.877743 GCTGTTGCTTTGGAGAGGAC 59.122 55.000 0.00 0.00 36.03 3.85
958 1078 0.937304 TTCGTCTCTGTTGCTGTTGC 59.063 50.000 0.00 0.00 40.20 4.17
962 1082 1.220529 TTGCTTCGTCTCTGTTGCTG 58.779 50.000 0.00 0.00 0.00 4.41
1287 1429 1.939785 GTCGTAGATGGTGCGCTCG 60.940 63.158 9.73 1.02 40.67 5.03
1542 1684 2.774951 CGCGTCGTTGAAGTAGGCG 61.775 63.158 0.00 0.00 36.05 5.52
1566 1708 4.643387 GCGTCCTTGGTGGCCTGT 62.643 66.667 3.32 0.00 35.26 4.00
1601 1743 2.321060 CGATGCGGATGACGTTGC 59.679 61.111 0.00 0.00 46.52 4.17
1930 2085 4.111016 CTCGACGCGCACCTGGTA 62.111 66.667 5.73 0.00 0.00 3.25
2078 2233 0.109086 CTCGTCGATGTCAGCCTTGT 60.109 55.000 4.21 0.00 0.00 3.16
2145 2300 2.029290 GCCGTTGAAGTAGTCCTTGAGA 60.029 50.000 0.00 0.00 32.03 3.27
2408 2563 1.471287 CGTAGACCTTGATGGACACGA 59.529 52.381 0.00 0.00 37.28 4.35
2469 2624 2.314071 TCCCGGAGAGGTCAAACTTA 57.686 50.000 0.73 0.00 38.74 2.24
2518 2673 2.421131 CGTCGAACGTCACCTCAAG 58.579 57.895 0.00 0.00 36.74 3.02
2535 2690 2.726691 GATGCCGTTGACGTCCACG 61.727 63.158 29.29 29.29 46.33 4.94
2589 2744 2.366916 GGTGATGGTGATCTTCTCCGAT 59.633 50.000 0.00 0.00 32.93 4.18
2848 3004 0.411452 TCCTCCTTCTCTGCCTCTGT 59.589 55.000 0.00 0.00 0.00 3.41
2883 3039 0.611062 ACACGTCTTCCATCTCCCGA 60.611 55.000 0.00 0.00 0.00 5.14
2890 3046 0.889186 GGGTTGCACACGTCTTCCAT 60.889 55.000 0.00 0.00 0.00 3.41
3189 3353 1.281867 CCTGCATCCTGACCCAACTAA 59.718 52.381 0.00 0.00 0.00 2.24
3198 3362 2.364973 TACGGGCCTGCATCCTGA 60.365 61.111 12.89 2.70 34.13 3.86
3637 3815 2.126071 CTCTGGTACACCGCCGTG 60.126 66.667 3.49 3.49 46.11 4.94
3638 3816 3.379445 CCTCTGGTACACCGCCGT 61.379 66.667 0.00 0.00 39.43 5.68
3639 3817 3.352338 GACCTCTGGTACACCGCCG 62.352 68.421 0.00 0.00 35.25 6.46
3672 3850 0.034059 CTCCTCAGTGGTGTGGTCAC 59.966 60.000 0.00 0.00 43.19 3.67
3682 3860 0.033228 GATCGCCATCCTCCTCAGTG 59.967 60.000 0.00 0.00 0.00 3.66
3691 3869 2.740981 GAGTTCATCATGATCGCCATCC 59.259 50.000 4.86 0.00 31.94 3.51
3694 3872 3.006217 CCTAGAGTTCATCATGATCGCCA 59.994 47.826 4.86 0.00 0.00 5.69
3696 3874 2.992543 GCCTAGAGTTCATCATGATCGC 59.007 50.000 4.86 0.00 0.00 4.58
3761 3939 7.833682 TGCATATGTACATATATTTCAAGGGGG 59.166 37.037 24.50 11.19 33.01 5.40
3762 3940 8.677300 GTGCATATGTACATATATTTCAAGGGG 58.323 37.037 24.50 11.62 33.01 4.79
3763 3941 8.390354 CGTGCATATGTACATATATTTCAAGGG 58.610 37.037 24.50 12.23 33.01 3.95
3764 3942 8.935844 ACGTGCATATGTACATATATTTCAAGG 58.064 33.333 24.50 12.83 33.01 3.61


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

AutoCloner maintained by Alex Coulton.