Multiple sequence alignment - TraesCS4A01G358500

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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 TraesCS4A01G358500 chr4A 100.000 3465 0 0 1 3465 631899053 631902517 0.000000e+00 6399.0
1 TraesCS4A01G358500 chr5D 90.276 3517 177 54 24 3465 537655437 537658863 0.000000e+00 4447.0
2 TraesCS4A01G358500 chr5D 94.836 426 11 4 3047 3465 97579203 97578782 0.000000e+00 654.0
3 TraesCS4A01G358500 chr5D 93.902 164 9 1 2480 2643 97579930 97579768 2.670000e-61 246.0
4 TraesCS4A01G358500 chr5D 89.333 75 7 1 2964 3037 97579321 97579247 3.680000e-15 93.5
5 TraesCS4A01G358500 chr5D 97.368 38 0 1 1797 1833 45378160 45378123 2.890000e-06 63.9
6 TraesCS4A01G358500 chr5B 90.297 2659 139 32 24 2636 678312428 678315013 0.000000e+00 3371.0
7 TraesCS4A01G358500 chr5B 91.396 523 20 8 2964 3465 106953669 106953151 0.000000e+00 693.0
8 TraesCS4A01G358500 chr5B 92.000 450 15 8 3033 3465 105537702 105538147 2.290000e-171 612.0
9 TraesCS4A01G358500 chr5B 91.324 438 20 6 3033 3465 678315513 678315937 1.790000e-162 582.0
10 TraesCS4A01G358500 chr5B 83.838 396 25 10 2635 3029 678315117 678315474 1.190000e-89 340.0
11 TraesCS4A01G358500 chr5B 91.463 164 12 2 2480 2643 105537118 105537279 1.250000e-54 224.0
12 TraesCS4A01G358500 chr5B 85.202 223 18 7 340 556 678205762 678205975 7.530000e-52 215.0
13 TraesCS4A01G358500 chr5B 91.818 110 7 2 2483 2592 106954075 106953968 5.990000e-33 152.0
14 TraesCS4A01G358500 chr5B 92.308 65 3 2 2645 2709 106953866 106953804 1.320000e-14 91.6
15 TraesCS4A01G358500 chr5B 97.872 47 0 1 2992 3037 105537626 105537672 2.870000e-11 80.5
16 TraesCS4A01G358500 chr5A 92.694 438 21 6 3034 3464 106164286 106164719 3.800000e-174 621.0
17 TraesCS4A01G358500 chr5A 89.773 176 11 7 2461 2636 106149762 106149930 5.820000e-53 219.0
18 TraesCS4A01G358500 chr5A 86.667 75 8 2 2964 3037 106164180 106164253 7.970000e-12 82.4
19 TraesCS4A01G358500 chr5A 93.478 46 1 2 1790 1833 36331755 36331800 2.230000e-07 67.6
20 TraesCS4A01G358500 chr1A 91.667 48 2 2 370 415 556461026 556460979 8.030000e-07 65.8


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 TraesCS4A01G358500 chr4A 631899053 631902517 3464 False 6399.000000 6399 100.000000 1 3465 1 chr4A.!!$F1 3464
1 TraesCS4A01G358500 chr5D 537655437 537658863 3426 False 4447.000000 4447 90.276000 24 3465 1 chr5D.!!$F1 3441
2 TraesCS4A01G358500 chr5D 97578782 97579930 1148 True 331.166667 654 92.690333 2480 3465 3 chr5D.!!$R2 985
3 TraesCS4A01G358500 chr5B 678312428 678315937 3509 False 1431.000000 3371 88.486333 24 3465 3 chr5B.!!$F3 3441
4 TraesCS4A01G358500 chr5B 106953151 106954075 924 True 312.200000 693 91.840667 2483 3465 3 chr5B.!!$R1 982
5 TraesCS4A01G358500 chr5B 105537118 105538147 1029 False 305.500000 612 93.778333 2480 3465 3 chr5B.!!$F2 985
6 TraesCS4A01G358500 chr5A 106164180 106164719 539 False 351.700000 621 89.680500 2964 3464 2 chr5A.!!$F3 500

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
977 1049 0.107508 TCAGCAAGCATACTGCCCTC 60.108 55.0 0.0 0.0 46.52 4.30 F
1145 1217 0.036875 GAGAGGTTCTTGGGTGGTGG 59.963 60.0 0.0 0.0 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1894 1969 0.250770 GTGGGAGTGAGGGTTTGGTC 60.251 60.000 0.0 0.0 0.00 4.02 R
2905 3405 2.087646 GTCTCCTGAGAAAACATGGGC 58.912 52.381 0.0 0.0 39.48 5.36 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
67 68 4.866486 GGTGCAAATTAAGCAAGAATCCAG 59.134 41.667 7.03 0.00 44.64 3.86
138 139 1.188863 CCTTTTTGGAGCCCATCTGG 58.811 55.000 0.00 0.00 38.35 3.86
148 149 1.929745 CCCATCTGGTATGCCCCAA 59.070 57.895 0.00 0.00 33.07 4.12
192 193 3.674528 TCTTCTTCAGAGCCAAGTCTG 57.325 47.619 0.00 0.00 44.71 3.51
231 242 4.510167 AGTCTACTTGGATTGGATTGGG 57.490 45.455 0.00 0.00 0.00 4.12
237 263 2.530460 TGGATTGGATTGGGTTGGAG 57.470 50.000 0.00 0.00 0.00 3.86
277 303 2.279935 AGGCTACTAGATCAGGACCG 57.720 55.000 0.00 0.00 0.00 4.79
281 307 3.243468 GGCTACTAGATCAGGACCGTTTC 60.243 52.174 0.00 0.00 0.00 2.78
305 331 2.101415 TGTGTGAGAGACAGTCACCAAG 59.899 50.000 2.66 0.00 43.19 3.61
349 375 1.981256 TTGGACCTGAAAACCTCTGC 58.019 50.000 0.00 0.00 0.00 4.26
384 410 3.518634 TTTTCCCTTTTGTGTGACTGC 57.481 42.857 0.00 0.00 0.00 4.40
388 414 1.392589 CCTTTTGTGTGACTGCCTGT 58.607 50.000 0.00 0.00 0.00 4.00
511 554 1.686800 GATGCCATTGCCACCCCTT 60.687 57.895 0.00 0.00 36.33 3.95
527 570 2.692041 CCCCTTTCTGAATCAGCATTCC 59.308 50.000 5.18 0.00 38.14 3.01
528 571 3.359033 CCCTTTCTGAATCAGCATTCCA 58.641 45.455 5.18 0.00 38.14 3.53
532 575 5.184479 CCTTTCTGAATCAGCATTCCAAAGA 59.816 40.000 16.53 2.55 38.63 2.52
534 577 4.267536 TCTGAATCAGCATTCCAAAGAGG 58.732 43.478 5.18 0.00 38.14 3.69
539 582 2.494471 TCAGCATTCCAAAGAGGCAATG 59.506 45.455 0.00 0.00 37.29 2.82
540 583 1.648504 GCATTCCAAAGAGGCAATGC 58.351 50.000 0.00 0.00 43.10 3.56
541 584 1.066716 GCATTCCAAAGAGGCAATGCA 60.067 47.619 7.79 0.00 46.87 3.96
544 587 1.927487 TCCAAAGAGGCAATGCACAT 58.073 45.000 7.79 0.00 37.29 3.21
545 588 3.084536 TCCAAAGAGGCAATGCACATA 57.915 42.857 7.79 0.00 37.29 2.29
546 589 3.018856 TCCAAAGAGGCAATGCACATAG 58.981 45.455 7.79 0.00 37.29 2.23
547 590 3.018856 CCAAAGAGGCAATGCACATAGA 58.981 45.455 7.79 0.00 0.00 1.98
564 613 4.809426 ACATAGATTTCCTTTTCGCCGTAG 59.191 41.667 0.00 0.00 0.00 3.51
565 614 2.007608 AGATTTCCTTTTCGCCGTAGC 58.992 47.619 0.00 0.00 0.00 3.58
566 615 1.735571 GATTTCCTTTTCGCCGTAGCA 59.264 47.619 0.00 0.00 39.83 3.49
567 616 1.816074 TTTCCTTTTCGCCGTAGCAT 58.184 45.000 0.00 0.00 39.83 3.79
568 617 1.816074 TTCCTTTTCGCCGTAGCATT 58.184 45.000 0.00 0.00 39.83 3.56
570 619 1.735571 TCCTTTTCGCCGTAGCATTTC 59.264 47.619 0.00 0.00 39.83 2.17
571 620 1.529010 CCTTTTCGCCGTAGCATTTCG 60.529 52.381 0.00 0.00 39.83 3.46
572 621 0.179210 TTTTCGCCGTAGCATTTCGC 60.179 50.000 0.00 0.00 39.83 4.70
593 642 0.442699 GAATCGTCGGCACAAACTCC 59.557 55.000 0.00 0.00 0.00 3.85
622 685 6.184122 GCATCTTCTGCGACTGAAAGTGAG 62.184 50.000 0.00 0.00 45.47 3.51
638 701 8.690203 TGAAAGTGAGAAGATAACATGGAAAA 57.310 30.769 0.00 0.00 0.00 2.29
640 703 9.780413 GAAAGTGAGAAGATAACATGGAAAATC 57.220 33.333 0.00 0.00 0.00 2.17
659 729 9.989869 GGAAAATCTATCTTATTATTAAGCGCC 57.010 33.333 2.29 0.00 35.72 6.53
660 730 9.989869 GAAAATCTATCTTATTATTAAGCGCCC 57.010 33.333 2.29 0.00 35.72 6.13
661 731 7.772332 AATCTATCTTATTATTAAGCGCCCG 57.228 36.000 2.29 0.00 35.72 6.13
662 732 5.657474 TCTATCTTATTATTAAGCGCCCGG 58.343 41.667 2.29 0.00 35.72 5.73
663 733 2.419667 TCTTATTATTAAGCGCCCGGC 58.580 47.619 2.29 0.00 44.05 6.13
674 744 3.134127 GCCCGGCGCATCTTTTCT 61.134 61.111 10.83 0.00 37.47 2.52
678 748 1.336795 CCCGGCGCATCTTTTCTTTTT 60.337 47.619 10.83 0.00 0.00 1.94
722 792 6.158598 AGGATGTGCACATGTATTTGAAAAC 58.841 36.000 35.92 16.39 36.57 2.43
791 861 3.660356 GCGTTGCATTTTCAAATTGCAAG 59.340 39.130 25.52 20.41 40.04 4.01
832 903 3.134127 GATCCGCTTTGCCGCCTT 61.134 61.111 0.00 0.00 0.00 4.35
883 955 0.999406 CTTTGTATCACGCACCTCCG 59.001 55.000 0.00 0.00 0.00 4.63
968 1040 2.224475 CCATAGCCTAGTCAGCAAGCAT 60.224 50.000 0.00 0.00 0.00 3.79
969 1041 3.007290 CCATAGCCTAGTCAGCAAGCATA 59.993 47.826 0.00 0.00 0.00 3.14
970 1042 2.611225 AGCCTAGTCAGCAAGCATAC 57.389 50.000 0.00 0.00 0.00 2.39
971 1043 2.114616 AGCCTAGTCAGCAAGCATACT 58.885 47.619 0.00 0.00 0.00 2.12
972 1044 2.158986 AGCCTAGTCAGCAAGCATACTG 60.159 50.000 8.89 0.00 35.15 2.74
973 1045 2.208431 CCTAGTCAGCAAGCATACTGC 58.792 52.381 8.89 0.00 45.46 4.40
974 1046 2.208431 CTAGTCAGCAAGCATACTGCC 58.792 52.381 8.89 0.00 46.52 4.85
975 1047 0.393537 AGTCAGCAAGCATACTGCCC 60.394 55.000 0.00 0.00 46.52 5.36
976 1048 0.393537 GTCAGCAAGCATACTGCCCT 60.394 55.000 0.00 0.00 46.52 5.19
977 1049 0.107508 TCAGCAAGCATACTGCCCTC 60.108 55.000 0.00 0.00 46.52 4.30
978 1050 1.153289 AGCAAGCATACTGCCCTCG 60.153 57.895 0.00 0.00 46.52 4.63
994 1066 1.996786 CTCGCCATTGCCGATTGCTT 61.997 55.000 0.00 0.00 42.00 3.91
1011 1083 2.859273 CTTCGTCAATGGCGGCTCCT 62.859 60.000 7.59 0.00 35.26 3.69
1053 1125 3.753434 CTCCTGCTCTCGCACGGT 61.753 66.667 0.00 0.00 42.25 4.83
1145 1217 0.036875 GAGAGGTTCTTGGGTGGTGG 59.963 60.000 0.00 0.00 0.00 4.61
1149 1221 1.106944 GGTTCTTGGGTGGTGGTGTG 61.107 60.000 0.00 0.00 0.00 3.82
1152 1224 1.228793 CTTGGGTGGTGGTGTGGAA 59.771 57.895 0.00 0.00 0.00 3.53
1155 1227 2.763645 GGGTGGTGGTGTGGAAGGT 61.764 63.158 0.00 0.00 0.00 3.50
1372 1444 4.720902 TGTACCCGGAGCCGTCGA 62.721 66.667 0.73 0.00 37.81 4.20
1398 1470 3.823330 GACCCGACGACGATGCCT 61.823 66.667 9.28 0.00 42.66 4.75
1540 1612 3.454573 CGTACCCAGGCGGCAGTA 61.455 66.667 13.08 7.11 33.26 2.74
1659 1734 3.948719 GGGACGGGGCAGTCAACA 61.949 66.667 13.07 0.00 42.62 3.33
1671 1746 3.353029 TCAACATGGTGCGTGGCG 61.353 61.111 5.66 0.00 0.00 5.69
1788 1863 0.802494 GCTACAACCCCAACACGATG 59.198 55.000 0.00 0.00 0.00 3.84
1894 1969 2.203280 TCGCCACCAACCCAAGTG 60.203 61.111 0.00 0.00 0.00 3.16
1938 2013 4.333095 CCATCACTTGATCTTCTTCAGCTG 59.667 45.833 7.63 7.63 31.21 4.24
1939 2014 3.935315 TCACTTGATCTTCTTCAGCTGG 58.065 45.455 15.13 0.00 0.00 4.85
1963 2038 1.871039 TGAAACTGTTAGCAACGCCTC 59.129 47.619 0.00 0.00 0.00 4.70
2021 2096 2.086869 CAGGAACTTGCATGTACCAGG 58.913 52.381 5.56 0.00 34.60 4.45
2126 2202 9.520204 AATCAAACAGTCAAATTCTTACACTTG 57.480 29.630 0.00 0.00 0.00 3.16
2326 2410 0.104487 TGAACGCGAACAACTACCCA 59.896 50.000 15.93 0.00 0.00 4.51
2498 2582 2.485582 CTGCTGCTGCTGATGTGC 59.514 61.111 17.00 1.70 40.01 4.57
2608 2695 4.141914 TGTGTGTGTGTGTGTATTGGACTA 60.142 41.667 0.00 0.00 0.00 2.59
2735 3234 6.154445 TGCAAGCTTCATCTTCTTTTTCATC 58.846 36.000 0.00 0.00 0.00 2.92
2787 3287 0.594540 TAATGGCATGCGCGATTTGC 60.595 50.000 12.10 15.20 43.19 3.68
2796 3296 1.900585 GCGCGATTTGCAGTCACAGA 61.901 55.000 12.10 0.00 46.97 3.41
2821 3321 4.901849 TGCTAGATGTTCCAGGCTAGTAAT 59.098 41.667 0.00 0.00 34.32 1.89
2827 3327 8.184304 AGATGTTCCAGGCTAGTAATAAGTAG 57.816 38.462 0.00 0.00 0.00 2.57
2839 3339 9.813446 GCTAGTAATAAGTAGGAAGTAAAAGCA 57.187 33.333 0.00 0.00 0.00 3.91
2889 3389 6.599638 GCTAACACCAAATACCAGAAATCTCT 59.400 38.462 0.00 0.00 0.00 3.10
2894 3394 8.109634 ACACCAAATACCAGAAATCTCTATGTT 58.890 33.333 0.00 0.00 0.00 2.71
2905 3405 8.113062 CAGAAATCTCTATGTTAAAAGCTCACG 58.887 37.037 0.00 0.00 0.00 4.35
2923 3423 1.089920 CGCCCATGTTTTCTCAGGAG 58.910 55.000 0.00 0.00 0.00 3.69
2986 3486 8.721133 TTGAGGGTACTCTATAATATGCTCAA 57.279 34.615 0.00 0.00 44.29 3.02
3061 3598 1.068610 CGTGATGCGGTTCCAAAACAT 60.069 47.619 0.00 0.00 37.10 2.71
3238 3775 2.394708 GAAGTGATTCTATAGCGCGCA 58.605 47.619 35.10 19.76 0.00 6.09
3356 3902 7.445121 ACATCATGTGACTTAACAGAAGAAGA 58.555 34.615 0.00 0.00 32.52 2.87
3357 3903 7.933577 ACATCATGTGACTTAACAGAAGAAGAA 59.066 33.333 0.00 0.00 32.52 2.52
3358 3904 7.953158 TCATGTGACTTAACAGAAGAAGAAG 57.047 36.000 0.00 0.00 32.52 2.85
3378 3924 5.924825 AGAAGCATTTTGAAGCAAGATTCAC 59.075 36.000 0.00 0.00 38.87 3.18
3404 3960 3.220674 GCCATAGAAGGAAAGGCAGAT 57.779 47.619 0.00 0.00 44.59 2.90
3409 3972 6.746614 GCCATAGAAGGAAAGGCAGATAAGAT 60.747 42.308 0.00 0.00 44.59 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 5.047519 CCATTGCTCTCTGGAATCACTTTTT 60.048 40.000 0.00 0.00 34.39 1.94
22 23 4.461781 CCATTGCTCTCTGGAATCACTTTT 59.538 41.667 0.00 0.00 34.39 2.27
67 68 0.107945 CCAGCTAGCACCTCAAGGAC 60.108 60.000 18.83 0.00 38.94 3.85
148 149 4.956075 AGAAATTTCAGTGTTTGGACCAGT 59.044 37.500 19.99 0.00 0.00 4.00
192 193 1.160137 CTTGCTGTTCTGGTAGTGGC 58.840 55.000 0.00 0.00 0.00 5.01
231 242 3.930336 TGATGATCACTGTGTCTCCAAC 58.070 45.455 7.79 2.22 0.00 3.77
237 263 2.691927 TGCACTGATGATCACTGTGTC 58.308 47.619 23.05 18.51 38.69 3.67
260 286 3.633065 AGAAACGGTCCTGATCTAGTAGC 59.367 47.826 0.00 0.00 0.00 3.58
277 303 3.786635 ACTGTCTCTCACACACAGAAAC 58.213 45.455 5.34 0.00 40.07 2.78
281 307 2.544694 GGTGACTGTCTCTCACACACAG 60.545 54.545 9.51 0.00 42.80 3.66
305 331 1.801178 CGACAAAGGTGCTTTCTCTCC 59.199 52.381 0.00 0.00 30.60 3.71
349 375 2.599659 GGAAAAATGCTTTGCTCTCGG 58.400 47.619 0.00 0.00 0.00 4.63
388 414 3.865011 TTTGCTTGCTGTTCTTGTCAA 57.135 38.095 0.00 0.00 0.00 3.18
448 474 4.697514 CATACATGTAGAAGGTGGTGAGG 58.302 47.826 11.91 0.00 0.00 3.86
511 554 4.703575 CCTCTTTGGAATGCTGATTCAGAA 59.296 41.667 17.87 7.41 39.98 3.02
527 570 4.913335 ATCTATGTGCATTGCCTCTTTG 57.087 40.909 6.12 0.23 0.00 2.77
528 571 5.163478 GGAAATCTATGTGCATTGCCTCTTT 60.163 40.000 6.12 0.00 0.00 2.52
532 575 3.907221 AGGAAATCTATGTGCATTGCCT 58.093 40.909 6.12 0.00 33.59 4.75
534 577 5.230726 CGAAAAGGAAATCTATGTGCATTGC 59.769 40.000 0.46 0.46 0.00 3.56
539 582 3.695816 GGCGAAAAGGAAATCTATGTGC 58.304 45.455 0.00 0.00 0.00 4.57
540 583 3.374058 ACGGCGAAAAGGAAATCTATGTG 59.626 43.478 16.62 0.00 0.00 3.21
541 584 3.606687 ACGGCGAAAAGGAAATCTATGT 58.393 40.909 16.62 0.00 0.00 2.29
544 587 3.192466 GCTACGGCGAAAAGGAAATCTA 58.808 45.455 16.62 0.00 0.00 1.98
545 588 2.007608 GCTACGGCGAAAAGGAAATCT 58.992 47.619 16.62 0.00 0.00 2.40
546 589 1.735571 TGCTACGGCGAAAAGGAAATC 59.264 47.619 16.62 0.00 42.25 2.17
547 590 1.816074 TGCTACGGCGAAAAGGAAAT 58.184 45.000 16.62 0.00 42.25 2.17
564 613 4.571257 GACGATTCGGCGAAATGC 57.429 55.556 27.40 17.02 45.38 3.56
633 696 9.989869 GGCGCTTAATAATAAGATAGATTTTCC 57.010 33.333 7.64 0.00 40.90 3.13
638 701 6.281405 CCGGGCGCTTAATAATAAGATAGAT 58.719 40.000 7.64 0.00 40.90 1.98
640 703 4.270325 GCCGGGCGCTTAATAATAAGATAG 59.730 45.833 7.64 0.00 40.90 2.08
644 714 2.894307 GCCGGGCGCTTAATAATAAG 57.106 50.000 7.64 0.00 41.27 1.73
657 727 2.212900 AAAGAAAAGATGCGCCGGGC 62.213 55.000 9.54 9.54 43.96 6.13
658 728 0.243636 AAAAGAAAAGATGCGCCGGG 59.756 50.000 4.18 0.00 0.00 5.73
659 729 2.064573 AAAAAGAAAAGATGCGCCGG 57.935 45.000 4.18 0.00 0.00 6.13
681 751 2.239400 TCCTCTGCTGTCGAGAGAAAA 58.761 47.619 14.74 0.00 45.01 2.29
722 792 4.613944 TCTGCTTTGAAACAGCATTTCAG 58.386 39.130 13.79 7.11 46.19 3.02
883 955 3.000041 CCAAAGGCGAAATTTAAAGGCC 59.000 45.455 11.89 11.89 44.07 5.19
910 982 0.463620 ATGCGAGGAGAAAGGAGCTC 59.536 55.000 4.71 4.71 0.00 4.09
968 1040 2.124736 GCAATGGCGAGGGCAGTA 60.125 61.111 0.00 0.00 42.43 2.74
994 1066 3.390521 AGGAGCCGCCATTGACGA 61.391 61.111 0.00 0.00 40.02 4.20
996 1068 3.512516 GCAGGAGCCGCCATTGAC 61.513 66.667 0.00 0.00 40.02 3.18
1011 1083 1.677576 CACAAAACCAAGCTGAGAGCA 59.322 47.619 0.00 0.00 45.56 4.26
1101 1173 2.340443 GACGCTCCATCCCGATCC 59.660 66.667 0.00 0.00 0.00 3.36
1330 1402 2.671963 GAGGTTGGGGTTGGTCGC 60.672 66.667 0.00 0.00 0.00 5.19
1332 1404 2.439245 GGGAGGTTGGGGTTGGTC 59.561 66.667 0.00 0.00 0.00 4.02
1498 1570 4.114997 CGGGTTGGTGATTGGCGC 62.115 66.667 0.00 0.00 0.00 6.53
1647 1722 2.639327 GCACCATGTTGACTGCCCC 61.639 63.158 0.00 0.00 0.00 5.80
1656 1731 2.593148 TTCGCCACGCACCATGTT 60.593 55.556 0.00 0.00 0.00 2.71
1894 1969 0.250770 GTGGGAGTGAGGGTTTGGTC 60.251 60.000 0.00 0.00 0.00 4.02
1938 2013 2.096218 CGTTGCTAACAGTTTCAGAGCC 60.096 50.000 3.77 0.00 31.98 4.70
1939 2014 2.663063 GCGTTGCTAACAGTTTCAGAGC 60.663 50.000 0.00 0.00 0.00 4.09
1963 2038 3.379240 CAGCTCGTCAGTGATAATCAGG 58.621 50.000 0.00 0.00 0.00 3.86
2021 2096 3.118261 TCTTACCCTGAACCTGATGATGC 60.118 47.826 0.00 0.00 0.00 3.91
2126 2202 2.941064 TGCATGATCAGCTTAGCAGAAC 59.059 45.455 7.07 3.23 0.00 3.01
2498 2582 8.602328 GTGAATATCATGTCAACAAGAGAAGAG 58.398 37.037 0.00 0.00 0.00 2.85
2636 2723 7.182817 TGCTCACCTAACACATACTATTTCT 57.817 36.000 0.00 0.00 0.00 2.52
2702 3201 6.883217 AGAAGATGAAGCTTGCAAGAAGAATA 59.117 34.615 30.39 10.42 0.00 1.75
2703 3202 5.711036 AGAAGATGAAGCTTGCAAGAAGAAT 59.289 36.000 30.39 16.36 0.00 2.40
2704 3203 5.068636 AGAAGATGAAGCTTGCAAGAAGAA 58.931 37.500 30.39 12.28 0.00 2.52
2714 3213 6.492772 AGGTGATGAAAAAGAAGATGAAGCTT 59.507 34.615 0.00 0.00 0.00 3.74
2735 3234 6.816640 TGTCGAAAGGTCTATTATGAAAGGTG 59.183 38.462 0.00 0.00 0.00 4.00
2787 3287 4.569966 GGAACATCTAGCAATCTGTGACTG 59.430 45.833 0.00 0.00 0.00 3.51
2796 3296 3.713764 ACTAGCCTGGAACATCTAGCAAT 59.286 43.478 0.00 0.00 41.72 3.56
2821 3321 6.177310 TGGTGTGCTTTTACTTCCTACTTA 57.823 37.500 0.00 0.00 0.00 2.24
2827 3327 5.234116 CACATTTTGGTGTGCTTTTACTTCC 59.766 40.000 0.00 0.00 42.51 3.46
2839 3339 5.057281 TCAGCATGCACACATTTTGGTGT 62.057 43.478 21.98 0.00 44.04 4.16
2905 3405 2.087646 GTCTCCTGAGAAAACATGGGC 58.912 52.381 0.00 0.00 39.48 5.36
2923 3423 8.846211 AGATCTAATAGAGCAACTACTTCTGTC 58.154 37.037 8.33 0.00 31.99 3.51
3045 3582 3.467374 AACAATGTTTTGGAACCGCAT 57.533 38.095 0.00 0.00 37.15 4.73
3238 3775 2.737180 CGTGGGACAGCTGACACT 59.263 61.111 23.35 0.00 41.80 3.55
3282 3819 1.134075 GTTCATGCTGTGCGCTCTG 59.866 57.895 9.73 10.76 40.11 3.35
3356 3902 5.603596 TGTGAATCTTGCTTCAAAATGCTT 58.396 33.333 0.00 0.00 36.92 3.91
3357 3903 5.204409 TGTGAATCTTGCTTCAAAATGCT 57.796 34.783 0.00 0.00 36.92 3.79
3358 3904 5.910637 TTGTGAATCTTGCTTCAAAATGC 57.089 34.783 0.00 0.00 36.92 3.56
3378 3924 3.379688 GCCTTTCCTTCTATGGCTCTTTG 59.620 47.826 0.00 0.00 40.36 2.77
3409 3972 7.398618 TCCTTGGTTCATTTTGGCAAGATTATA 59.601 33.333 0.00 0.00 0.00 0.98
3412 3975 4.347583 TCCTTGGTTCATTTTGGCAAGATT 59.652 37.500 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.