Multiple sequence alignment - TraesCS2B01G133800

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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 TraesCS2B01G133800 chr2B 100.000 3108 0 0 1 3108 100075007 100078114 0.000000e+00 5740.0
1 TraesCS2B01G133800 chr2B 80.044 451 77 7 21 459 3278021 3278470 3.870000e-84 322.0
2 TraesCS2B01G133800 chr2D 92.290 2568 130 21 565 3108 64062888 64065411 0.000000e+00 3583.0
3 TraesCS2B01G133800 chr2D 88.136 177 13 4 97 266 64052349 64052524 1.460000e-48 204.0
4 TraesCS2B01G133800 chr2A 90.828 2682 151 33 477 3108 65516680 65519316 0.000000e+00 3502.0
5 TraesCS2B01G133800 chr2A 86.364 462 41 11 35 476 65516038 65516497 4.660000e-133 484.0
6 TraesCS2B01G133800 chr5B 86.069 524 53 11 1 504 416856668 416857191 2.110000e-151 545.0
7 TraesCS2B01G133800 chr1B 85.741 526 55 9 1 506 487024880 487024355 3.530000e-149 538.0
8 TraesCS2B01G133800 chr1B 84.892 417 52 1 15 420 487025635 487025219 8.020000e-111 411.0
9 TraesCS2B01G133800 chr5D 85.660 530 52 14 1 506 544626493 544625964 1.270000e-148 536.0
10 TraesCS2B01G133800 chr5D 86.235 494 47 8 1 473 80359164 80359657 1.650000e-142 516.0
11 TraesCS2B01G133800 chr5D 86.695 466 52 7 50 506 167764313 167763849 2.770000e-140 508.0
12 TraesCS2B01G133800 chr5D 92.063 63 3 2 1579 1640 525306778 525306839 1.540000e-13 87.9
13 TraesCS2B01G133800 chr3B 79.614 466 47 19 60 506 434978636 434979072 1.090000e-74 291.0
14 TraesCS2B01G133800 chr1A 84.142 309 38 6 13 310 538782142 538781834 3.920000e-74 289.0
15 TraesCS2B01G133800 chr1A 78.378 111 21 3 1532 1642 9697500 9697393 5.560000e-08 69.4
16 TraesCS2B01G133800 chr6B 82.875 327 45 6 1 316 679033003 679032677 1.820000e-72 283.0
17 TraesCS2B01G133800 chr7D 77.103 428 61 18 1791 2210 601366057 601366455 2.430000e-51 213.0
18 TraesCS2B01G133800 chr7A 76.402 428 64 18 1791 2210 693111110 693111508 2.450000e-46 196.0
19 TraesCS2B01G133800 chr7A 77.005 187 29 14 1564 1742 705473258 705473078 9.180000e-16 95.3
20 TraesCS2B01G133800 chr3D 81.739 115 16 5 1532 1643 547513512 547513400 1.190000e-14 91.6
21 TraesCS2B01G133800 chr1D 73.783 267 51 11 1507 1756 285050984 285051248 1.540000e-13 87.9
22 TraesCS2B01G133800 chr4A 73.828 256 44 15 1521 1758 122255113 122255363 2.570000e-11 80.5
23 TraesCS2B01G133800 chr6A 77.692 130 27 2 1505 1633 600769856 600769984 9.240000e-11 78.7
24 TraesCS2B01G133800 chr6D 88.710 62 7 0 1579 1640 59630791 59630852 3.320000e-10 76.8


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 TraesCS2B01G133800 chr2B 100075007 100078114 3107 False 5740.0 5740 100.0000 1 3108 1 chr2B.!!$F2 3107
1 TraesCS2B01G133800 chr2D 64062888 64065411 2523 False 3583.0 3583 92.2900 565 3108 1 chr2D.!!$F2 2543
2 TraesCS2B01G133800 chr2A 65516038 65519316 3278 False 1993.0 3502 88.5960 35 3108 2 chr2A.!!$F1 3073
3 TraesCS2B01G133800 chr5B 416856668 416857191 523 False 545.0 545 86.0690 1 504 1 chr5B.!!$F1 503
4 TraesCS2B01G133800 chr1B 487024355 487025635 1280 True 474.5 538 85.3165 1 506 2 chr1B.!!$R1 505
5 TraesCS2B01G133800 chr5D 544625964 544626493 529 True 536.0 536 85.6600 1 506 1 chr5D.!!$R2 505

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
519 1481 1.077805 GGGGGTTTTGGGTCCGAAT 59.922 57.895 0.00 0.0 0.00 3.34 F
1098 2080 0.166814 GCCGCTTGAGCAACAGTAAG 59.833 55.000 3.65 0.0 42.21 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1766 2761 0.037447 GCCTGGGAAAACAGAGAGCT 59.963 55.000 0.0 0.0 40.97 4.09 R
2741 3761 1.817740 GCAGGTCTGGTTTGGCTACAA 60.818 52.381 0.0 0.0 34.07 2.41 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
120 876 2.002977 CCCCATTCCAGAGCTCCCA 61.003 63.158 10.93 0.00 0.00 4.37
180 936 2.781258 TAGCAAGGGGAGGAGGCCAA 62.781 60.000 5.01 0.00 0.00 4.52
191 949 1.135094 GGAGGCCAAGATCCAGATCA 58.865 55.000 5.01 0.00 40.22 2.92
192 950 1.492176 GGAGGCCAAGATCCAGATCAA 59.508 52.381 5.01 0.00 40.22 2.57
383 1152 1.815003 CTCGCCGCCACATTCATCA 60.815 57.895 0.00 0.00 0.00 3.07
397 1166 1.376424 CATCAGAGGCCGCACAGTT 60.376 57.895 9.88 0.00 0.00 3.16
519 1481 1.077805 GGGGGTTTTGGGTCCGAAT 59.922 57.895 0.00 0.00 0.00 3.34
530 1492 1.287425 GGTCCGAATAGGTGCTTTCG 58.713 55.000 0.00 0.00 43.21 3.46
542 1504 2.823196 TGCTTTCGCATACCATTTCG 57.177 45.000 0.00 0.00 42.25 3.46
543 1505 2.351455 TGCTTTCGCATACCATTTCGA 58.649 42.857 0.00 0.00 42.25 3.71
544 1506 2.351418 TGCTTTCGCATACCATTTCGAG 59.649 45.455 0.00 0.00 42.25 4.04
572 1535 6.038603 CGAGTGACCATTATGTCCAATTTCAT 59.961 38.462 0.00 0.00 34.25 2.57
600 1563 1.411074 AGTCAAAGGGGGTGACAAACC 60.411 52.381 7.26 0.00 46.44 3.27
623 1586 5.454755 CCGGGAGATGGAAATGTGTACTTAT 60.455 44.000 0.00 0.00 0.00 1.73
682 1652 1.269831 ACGCTTGCTTCTCGTTCTCTT 60.270 47.619 0.00 0.00 31.89 2.85
703 1673 2.040278 TCAAGCCCAGATGCTACAAACT 59.960 45.455 0.00 0.00 41.80 2.66
731 1701 1.465689 CCGAACACGGTCATTTGCATC 60.466 52.381 0.00 0.00 41.61 3.91
736 1706 2.487762 ACACGGTCATTTGCATCGATTT 59.512 40.909 0.00 0.00 0.00 2.17
761 1734 1.153289 GAGCGGTGGATCACATGCT 60.153 57.895 13.95 13.95 45.41 3.79
762 1735 1.153289 AGCGGTGGATCACATGCTC 60.153 57.895 9.98 0.00 41.38 4.26
785 1764 4.401022 TGCACATTCTGGATCTGAAAAGT 58.599 39.130 5.96 5.65 0.00 2.66
791 1770 1.471684 CTGGATCTGAAAAGTGCTGGC 59.528 52.381 0.00 0.00 0.00 4.85
804 1783 1.267574 TGCTGGCGATCTCCTTCCTT 61.268 55.000 2.88 0.00 0.00 3.36
905 1884 5.452078 TTGAAACTAAATGCACCTTCAGG 57.548 39.130 0.00 0.00 42.17 3.86
1098 2080 0.166814 GCCGCTTGAGCAACAGTAAG 59.833 55.000 3.65 0.00 42.21 2.34
1101 2083 0.166814 GCTTGAGCAACAGTAAGCCG 59.833 55.000 0.00 0.00 39.57 5.52
1102 2084 1.512926 CTTGAGCAACAGTAAGCCGT 58.487 50.000 0.00 0.00 0.00 5.68
1135 2117 0.526524 CGACTCTGACCCATTCTCGC 60.527 60.000 0.00 0.00 0.00 5.03
1136 2118 0.820871 GACTCTGACCCATTCTCGCT 59.179 55.000 0.00 0.00 0.00 4.93
1137 2119 1.205893 GACTCTGACCCATTCTCGCTT 59.794 52.381 0.00 0.00 0.00 4.68
1149 2131 2.154854 TCTCGCTTGTTCCTGTTCTG 57.845 50.000 0.00 0.00 0.00 3.02
1172 2154 0.321346 TTGATCCGCAGAAGCTGTCA 59.679 50.000 0.00 0.00 39.10 3.58
1405 2388 1.277580 ATCCAAGGGCTCCTGTGAGG 61.278 60.000 0.00 0.00 39.14 3.86
1420 2403 4.446371 CTGTGAGGAGTTTGACTTTGACT 58.554 43.478 0.00 0.00 0.00 3.41
1424 2407 5.354234 GTGAGGAGTTTGACTTTGACTTTGA 59.646 40.000 0.00 0.00 0.00 2.69
1425 2408 5.354234 TGAGGAGTTTGACTTTGACTTTGAC 59.646 40.000 0.00 0.00 0.00 3.18
1426 2409 5.253330 AGGAGTTTGACTTTGACTTTGACA 58.747 37.500 0.00 0.00 0.00 3.58
1427 2410 5.888161 AGGAGTTTGACTTTGACTTTGACAT 59.112 36.000 0.00 0.00 0.00 3.06
1428 2411 6.378280 AGGAGTTTGACTTTGACTTTGACATT 59.622 34.615 0.00 0.00 0.00 2.71
1429 2412 6.473455 GGAGTTTGACTTTGACTTTGACATTG 59.527 38.462 0.00 0.00 0.00 2.82
1431 2414 6.152661 AGTTTGACTTTGACTTTGACATTGGA 59.847 34.615 0.00 0.00 0.00 3.53
1432 2415 5.499139 TGACTTTGACTTTGACATTGGAC 57.501 39.130 0.00 0.00 0.00 4.02
1433 2416 5.192927 TGACTTTGACTTTGACATTGGACT 58.807 37.500 0.00 0.00 0.00 3.85
1434 2417 5.296780 TGACTTTGACTTTGACATTGGACTC 59.703 40.000 0.00 0.00 0.00 3.36
1435 2418 4.580580 ACTTTGACTTTGACATTGGACTCC 59.419 41.667 0.00 0.00 0.00 3.85
1436 2419 2.766313 TGACTTTGACATTGGACTCCG 58.234 47.619 0.00 0.00 0.00 4.63
1437 2420 2.104111 TGACTTTGACATTGGACTCCGT 59.896 45.455 0.00 0.00 0.00 4.69
1503 2486 2.591715 ACCTGCCACAACGTGAGC 60.592 61.111 0.00 0.00 35.23 4.26
1506 2489 1.889105 CTGCCACAACGTGAGCACT 60.889 57.895 0.00 0.00 35.82 4.40
1515 2498 0.251209 ACGTGAGCACTACTCCTCCA 60.251 55.000 0.00 0.00 45.61 3.86
1555 2541 9.006215 CGCATATTAGGTTTGCTTTAAGTTAAC 57.994 33.333 0.00 0.00 34.23 2.01
1651 2639 8.638685 ATTCATTGTGAAATATTGTGCTTAGC 57.361 30.769 0.00 0.00 40.12 3.09
1663 2651 8.783833 ATATTGTGCTTAGCTGATATTGTAGG 57.216 34.615 5.60 0.00 0.00 3.18
1766 2761 2.304761 AGGGAGTAATTCAGTTTCCGCA 59.695 45.455 0.00 0.00 0.00 5.69
1810 2806 6.826668 TGGGATAAATATATATGCTGACGGG 58.173 40.000 0.00 0.00 0.00 5.28
1849 2845 1.539124 GTGGAGGTGAAGGAGGGGT 60.539 63.158 0.00 0.00 0.00 4.95
1872 2868 1.609061 GCTTCTGAAGTGCAGCACCTA 60.609 52.381 22.41 7.80 44.52 3.08
1881 2877 2.027561 AGTGCAGCACCTAAAATCCGTA 60.028 45.455 22.41 0.00 34.49 4.02
1893 2889 6.070424 ACCTAAAATCCGTATGTCCTCTTTCA 60.070 38.462 0.00 0.00 0.00 2.69
2225 3228 5.942977 TTAGATCAGGAGGGGTAGATACA 57.057 43.478 0.00 0.00 0.00 2.29
2248 3251 2.105006 ATGAACTCGCTTGCACATCT 57.895 45.000 0.00 0.00 0.00 2.90
2256 3259 1.225936 CTTGCACATCTCGCTTGCG 60.226 57.895 8.87 8.87 39.22 4.85
2329 3332 3.382048 ACCCTGTAAGAGTGAAACGTC 57.618 47.619 0.00 0.00 45.86 4.34
2330 3333 2.963782 ACCCTGTAAGAGTGAAACGTCT 59.036 45.455 0.00 0.00 45.86 4.18
2428 3444 9.838339 ATAAATACTCTGAATCAAATCCTTCGT 57.162 29.630 0.00 0.00 0.00 3.85
2429 3445 7.545362 AATACTCTGAATCAAATCCTTCGTG 57.455 36.000 0.00 0.00 0.00 4.35
2430 3446 4.256920 ACTCTGAATCAAATCCTTCGTGG 58.743 43.478 0.00 0.00 37.10 4.94
2431 3447 3.009723 TCTGAATCAAATCCTTCGTGGC 58.990 45.455 0.00 0.00 35.26 5.01
2588 3608 3.769844 AGAGCAGAACTTTTCGGATAGGA 59.230 43.478 0.00 0.00 34.02 2.94
2599 3619 8.350852 ACTTTTCGGATAGGATAGTGTATAGG 57.649 38.462 0.00 0.00 0.00 2.57
2602 3622 5.752650 TCGGATAGGATAGTGTATAGGGTG 58.247 45.833 0.00 0.00 0.00 4.61
2616 3636 5.372959 TGTATAGGGTGTAGACCAGATCTCT 59.627 44.000 11.75 0.00 45.25 3.10
2620 3640 2.763448 GGTGTAGACCAGATCTCTGCTT 59.237 50.000 3.70 0.00 42.59 3.91
2635 3655 1.959226 GCTTGTCGCCTCGTTTCCA 60.959 57.895 0.00 0.00 0.00 3.53
2696 3716 7.014711 TGGTGGTAGAACTTTAAATTGATTGCA 59.985 33.333 0.00 0.00 0.00 4.08
2741 3761 7.334421 ACGCAAATCTTTCAATACTGACTGTAT 59.666 33.333 0.00 0.00 43.19 2.29
2785 3805 4.596801 GCATGAAGCTGTAAAGTCAGAG 57.403 45.455 0.00 0.00 41.15 3.35
2824 3844 2.159156 TGTGTATCATAGACGTGCCACC 60.159 50.000 0.00 0.00 0.00 4.61
2843 3863 6.070881 TGCCACCATAAGCAAACAGAAATTAT 60.071 34.615 0.00 0.00 35.69 1.28
2870 3890 5.879237 TCGATTGCATGATTTAAGACAACC 58.121 37.500 0.00 0.00 0.00 3.77
2883 3903 3.581024 AGACAACCGATAGTTTACGCA 57.419 42.857 0.00 0.00 36.18 5.24
2907 3927 7.012327 GCATTGGCTAATACTAGTTCAATGTGA 59.988 37.037 19.92 0.00 42.66 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 764 2.215907 CGAGCTTCCAATCTCGTCAT 57.784 50.000 4.72 0.00 44.95 3.06
9 765 3.721625 CGAGCTTCCAATCTCGTCA 57.278 52.632 4.72 0.00 44.95 4.35
62 818 3.515286 TCGACCTCGACGCCATCC 61.515 66.667 0.00 0.00 44.22 3.51
151 907 2.673523 CCTTGCTACAGCCTGCCT 59.326 61.111 0.00 0.00 41.18 4.75
180 936 0.392336 GCTCCGCTTGATCTGGATCT 59.608 55.000 11.23 0.00 38.60 2.75
272 1041 0.824109 GATCTCACCGGTGGATGTCA 59.176 55.000 33.40 12.97 0.00 3.58
274 1043 2.212327 GGATCTCACCGGTGGATGT 58.788 57.895 33.40 17.37 0.00 3.06
376 1145 0.463295 CTGTGCGGCCTCTGATGAAT 60.463 55.000 0.00 0.00 0.00 2.57
383 1152 4.335647 CCCAACTGTGCGGCCTCT 62.336 66.667 0.00 0.00 0.00 3.69
420 1189 4.371231 CCTTCCCCCTCCCCCTGT 62.371 72.222 0.00 0.00 0.00 4.00
422 1191 3.711782 CTCCTTCCCCCTCCCCCT 61.712 72.222 0.00 0.00 0.00 4.79
426 1204 2.001838 GAACCCTCCTTCCCCCTCC 61.002 68.421 0.00 0.00 0.00 4.30
500 1462 1.440362 ATTCGGACCCAAAACCCCCT 61.440 55.000 0.00 0.00 0.00 4.79
530 1492 1.852942 TCGAGCTCGAAATGGTATGC 58.147 50.000 35.16 0.00 46.30 3.14
541 1503 2.223595 ACATAATGGTCACTCGAGCTCG 60.224 50.000 30.03 30.03 40.44 5.03
542 1504 3.376540 GACATAATGGTCACTCGAGCTC 58.623 50.000 13.61 2.73 40.44 4.09
543 1505 2.101582 GGACATAATGGTCACTCGAGCT 59.898 50.000 13.61 0.00 40.44 4.09
544 1506 2.159099 TGGACATAATGGTCACTCGAGC 60.159 50.000 13.61 0.00 39.59 5.03
572 1535 3.052793 TCACCCCCTTTGACTTTAACCAA 60.053 43.478 0.00 0.00 0.00 3.67
587 1550 3.562732 CTCCCGGTTTGTCACCCCC 62.563 68.421 0.00 0.00 43.83 5.40
600 1563 3.543680 AGTACACATTTCCATCTCCCG 57.456 47.619 0.00 0.00 0.00 5.14
647 1617 9.595823 AGAAGCAAGCGTAAAGATATAAAAGTA 57.404 29.630 0.00 0.00 0.00 2.24
648 1618 8.494016 AGAAGCAAGCGTAAAGATATAAAAGT 57.506 30.769 0.00 0.00 0.00 2.66
649 1619 7.789759 CGAGAAGCAAGCGTAAAGATATAAAAG 59.210 37.037 0.00 0.00 0.00 2.27
650 1620 7.277098 ACGAGAAGCAAGCGTAAAGATATAAAA 59.723 33.333 0.00 0.00 36.37 1.52
651 1621 6.755141 ACGAGAAGCAAGCGTAAAGATATAAA 59.245 34.615 0.00 0.00 36.37 1.40
652 1622 6.270815 ACGAGAAGCAAGCGTAAAGATATAA 58.729 36.000 0.00 0.00 36.37 0.98
653 1623 5.828747 ACGAGAAGCAAGCGTAAAGATATA 58.171 37.500 0.00 0.00 36.37 0.86
654 1624 4.683832 ACGAGAAGCAAGCGTAAAGATAT 58.316 39.130 0.00 0.00 36.37 1.63
682 1652 2.040278 AGTTTGTAGCATCTGGGCTTGA 59.960 45.455 0.00 0.00 42.71 3.02
731 1701 2.203070 CCGCTCCCCTGGAAATCG 60.203 66.667 0.00 0.00 0.00 3.34
736 1706 4.414956 ATCCACCGCTCCCCTGGA 62.415 66.667 0.00 0.00 38.47 3.86
761 1734 3.986996 TTCAGATCCAGAATGTGCAGA 57.013 42.857 0.00 0.00 0.00 4.26
762 1735 4.458295 ACTTTTCAGATCCAGAATGTGCAG 59.542 41.667 0.00 0.00 0.00 4.41
785 1764 1.267574 AAGGAAGGAGATCGCCAGCA 61.268 55.000 18.44 0.00 0.00 4.41
791 1770 2.668457 CGTGACAAAAGGAAGGAGATCG 59.332 50.000 0.00 0.00 0.00 3.69
905 1884 2.452767 GTACCTGGTGTACGCTTGC 58.547 57.895 10.23 0.00 40.44 4.01
1050 2032 4.403137 CGTGTTCGTACCGGGCGA 62.403 66.667 17.40 17.40 36.51 5.54
1098 2080 1.737008 GTCGTGGAAGGAAGACGGC 60.737 63.158 0.00 0.00 33.88 5.68
1102 2084 0.879765 GAGTCGTCGTGGAAGGAAGA 59.120 55.000 0.00 0.00 36.91 2.87
1135 2117 5.049129 GGATCAAGAACAGAACAGGAACAAG 60.049 44.000 0.00 0.00 0.00 3.16
1136 2118 4.821805 GGATCAAGAACAGAACAGGAACAA 59.178 41.667 0.00 0.00 0.00 2.83
1137 2119 4.389374 GGATCAAGAACAGAACAGGAACA 58.611 43.478 0.00 0.00 0.00 3.18
1149 2131 1.396301 CAGCTTCTGCGGATCAAGAAC 59.604 52.381 0.00 0.00 45.42 3.01
1240 2222 0.178987 TAAAACCCAGGCAAGCGGAA 60.179 50.000 0.00 0.00 0.00 4.30
1405 2388 6.473455 CCAATGTCAAAGTCAAAGTCAAACTC 59.527 38.462 0.00 0.00 0.00 3.01
1420 2403 2.882137 GGAAACGGAGTCCAATGTCAAA 59.118 45.455 10.49 0.00 45.00 2.69
1424 2407 1.271379 CCTGGAAACGGAGTCCAATGT 60.271 52.381 10.49 0.00 45.00 2.71
1425 2408 1.003118 TCCTGGAAACGGAGTCCAATG 59.997 52.381 10.49 0.00 45.00 2.82
1426 2409 1.003233 GTCCTGGAAACGGAGTCCAAT 59.997 52.381 10.49 0.00 45.00 3.16
1427 2410 0.395312 GTCCTGGAAACGGAGTCCAA 59.605 55.000 10.49 0.00 45.00 3.53
1428 2411 1.812686 CGTCCTGGAAACGGAGTCCA 61.813 60.000 10.49 4.22 45.00 4.02
1429 2412 1.080025 CGTCCTGGAAACGGAGTCC 60.080 63.158 0.00 0.00 45.00 3.85
1432 2415 2.027625 GCACGTCCTGGAAACGGAG 61.028 63.158 11.90 5.80 44.21 4.63
1433 2416 2.029964 GCACGTCCTGGAAACGGA 59.970 61.111 11.90 0.00 44.21 4.69
1434 2417 2.280524 TGCACGTCCTGGAAACGG 60.281 61.111 11.90 3.34 44.21 4.44
1435 2418 0.878523 TTCTGCACGTCCTGGAAACG 60.879 55.000 0.00 1.55 45.37 3.60
1436 2419 1.305201 TTTCTGCACGTCCTGGAAAC 58.695 50.000 0.00 0.00 0.00 2.78
1437 2420 1.879380 CATTTCTGCACGTCCTGGAAA 59.121 47.619 0.00 0.00 0.00 3.13
1503 2486 9.152595 GAACTAAAAAGTAATGGAGGAGTAGTG 57.847 37.037 0.00 0.00 0.00 2.74
1506 2489 6.815142 GCGAACTAAAAAGTAATGGAGGAGTA 59.185 38.462 0.00 0.00 0.00 2.59
1645 2633 6.049149 TGAACACCTACAATATCAGCTAAGC 58.951 40.000 0.00 0.00 0.00 3.09
1728 2723 6.248569 ACTCCCTCTGTTTCTTTTTACTCA 57.751 37.500 0.00 0.00 0.00 3.41
1743 2738 3.369576 GCGGAAACTGAATTACTCCCTCT 60.370 47.826 0.00 0.00 0.00 3.69
1766 2761 0.037447 GCCTGGGAAAACAGAGAGCT 59.963 55.000 0.00 0.00 40.97 4.09
1792 2787 9.649167 GTAACTTACCCGTCAGCATATATATTT 57.351 33.333 0.00 0.00 0.00 1.40
1797 2792 5.458041 GGTAACTTACCCGTCAGCATATA 57.542 43.478 6.71 0.00 43.18 0.86
1849 2845 0.532640 TGCTGCACTTCAGAAGCGAA 60.533 50.000 10.33 0.00 45.72 4.70
1872 2868 5.805728 ACTGAAAGAGGACATACGGATTTT 58.194 37.500 0.00 0.00 37.43 1.82
1881 2877 2.530701 AGGTCGACTGAAAGAGGACAT 58.469 47.619 16.46 0.00 39.94 3.06
1893 2889 3.071167 AGAAGGCAGTAAAAAGGTCGACT 59.929 43.478 16.46 0.00 0.00 4.18
1952 2949 3.044986 CCTTGAAGCAACAAATGACACG 58.955 45.455 0.00 0.00 0.00 4.49
2225 3228 5.545588 AGATGTGCAAGCGAGTTCATATAT 58.454 37.500 0.00 0.00 0.00 0.86
2426 3442 2.611974 GGTGTGTAAAATCAGCCACG 57.388 50.000 0.00 0.00 0.00 4.94
2430 3446 5.783111 AGAAAATGGGTGTGTAAAATCAGC 58.217 37.500 0.00 0.00 0.00 4.26
2431 3447 7.925483 TGAAAGAAAATGGGTGTGTAAAATCAG 59.075 33.333 0.00 0.00 0.00 2.90
2474 3491 8.566260 CCGTGAGCTACTTATGTTAGTAATACT 58.434 37.037 0.00 0.00 30.63 2.12
2491 3508 2.202878 GGATTGCGCCGTGAGCTA 60.203 61.111 4.18 0.00 40.39 3.32
2588 3608 6.526056 TCTGGTCTACACCCTATACACTAT 57.474 41.667 0.00 0.00 42.99 2.12
2599 3619 2.880963 GCAGAGATCTGGTCTACACC 57.119 55.000 11.63 0.00 43.94 4.16
2620 3640 2.029964 GGTGGAAACGAGGCGACA 59.970 61.111 0.00 0.00 0.00 4.35
2635 3655 5.222048 TGCAACTTTTACATAGAGAAGGGGT 60.222 40.000 0.00 0.00 0.00 4.95
2696 3716 3.550842 GCGTTCTCTGTTCTTGCCAAATT 60.551 43.478 0.00 0.00 0.00 1.82
2741 3761 1.817740 GCAGGTCTGGTTTGGCTACAA 60.818 52.381 0.00 0.00 34.07 2.41
2779 3799 2.872858 GTTTGAACCCTGTGACTCTGAC 59.127 50.000 0.00 0.00 0.00 3.51
2824 3844 9.720667 TCGATGAATAATTTCTGTTTGCTTATG 57.279 29.630 0.00 0.00 32.78 1.90
2843 3863 7.319142 TGTCTTAAATCATGCAATCGATGAA 57.681 32.000 0.00 0.00 33.59 2.57
2865 3885 3.372822 CCAATGCGTAAACTATCGGTTGT 59.627 43.478 0.00 0.00 38.29 3.32
2870 3890 5.591643 ATTAGCCAATGCGTAAACTATCG 57.408 39.130 0.00 0.00 44.33 2.92
2883 3903 9.632638 ATTCACATTGAACTAGTATTAGCCAAT 57.367 29.630 0.00 7.31 39.45 3.16
2907 3927 4.682320 GCTGCCATCATGAAATTGGTCATT 60.682 41.667 13.97 0.00 36.04 2.57
2993 4013 4.138290 TGAACTTTTGATCCACCGCTTTA 58.862 39.130 0.00 0.00 0.00 1.85
3025 4045 7.013274 CCAAACTATGAATTTATGTCACGGGAT 59.987 37.037 0.00 0.00 0.00 3.85
3074 4094 4.878397 GTGAACTTGATATGCTTAGTGGCT 59.122 41.667 0.00 0.00 0.00 4.75


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

AutoCloner maintained by Alex Coulton.