Multiple sequence alignment - TraesCS7A01G372700

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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 TraesCS7A01G372700 chr7A 100.000 3380 0 0 1 3380 546024321 546027700 0.000000e+00 6242.0
1 TraesCS7A01G372700 chr7A 94.045 2754 152 5 636 3380 38774584 38771834 0.000000e+00 4167.0
2 TraesCS7A01G372700 chr5A 85.118 1653 216 21 1743 3380 46229708 46231345 0.000000e+00 1663.0
3 TraesCS7A01G372700 chr5A 82.998 894 141 8 769 1657 46228693 46229580 0.000000e+00 798.0
4 TraesCS7A01G372700 chr7B 86.903 649 67 13 1 635 468849464 468848820 0.000000e+00 712.0
5 TraesCS7A01G372700 chr7D 86.965 514 52 10 136 635 451042515 451042003 6.330000e-157 564.0
6 TraesCS7A01G372700 chr7D 89.404 151 13 3 1 149 451042822 451042673 1.600000e-43 187.0
7 TraesCS7A01G372700 chr4B 87.013 77 8 2 2 77 93521230 93521155 6.010000e-13 86.1
8 TraesCS7A01G372700 chr4B 86.486 74 10 0 1 74 380649193 380649266 7.770000e-12 82.4


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 TraesCS7A01G372700 chr7A 546024321 546027700 3379 False 6242.0 6242 100.0000 1 3380 1 chr7A.!!$F1 3379
1 TraesCS7A01G372700 chr7A 38771834 38774584 2750 True 4167.0 4167 94.0450 636 3380 1 chr7A.!!$R1 2744
2 TraesCS7A01G372700 chr5A 46228693 46231345 2652 False 1230.5 1663 84.0580 769 3380 2 chr5A.!!$F1 2611
3 TraesCS7A01G372700 chr7B 468848820 468849464 644 True 712.0 712 86.9030 1 635 1 chr7B.!!$R1 634
4 TraesCS7A01G372700 chr7D 451042003 451042822 819 True 375.5 564 88.1845 1 635 2 chr7D.!!$R1 634

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
680 872 0.033228 CAGCTGATCCCGACATCTCC 59.967 60.0 8.42 0.0 0.0 3.71 F
798 990 0.244994 AGCTTCGCGTTCTCATGTCT 59.755 50.0 5.77 0.0 0.0 3.41 F
1115 1307 0.321298 GTAGCAAGAACCGGGAGCAA 60.321 55.0 6.32 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2132 2376 0.182775 GTGGGCGTAGGGGATGAAAT 59.817 55.000 0.00 0.0 0.00 2.17 R
2306 2552 1.137479 TCCGAGGACACAAACGAGTTT 59.863 47.619 0.00 0.0 0.00 2.66 R
2479 2725 1.222936 CCTGGCGCTGGAAGAAGAT 59.777 57.895 7.64 0.0 34.07 2.40 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
53 55 2.101582 GCACACTCCACTAGTCCATAGG 59.898 54.545 0.00 0.00 35.76 2.57
101 103 4.609947 GTTAACAACCAAAGTTAACGGGG 58.390 43.478 15.38 13.01 46.26 5.73
105 107 1.496001 AACCAAAGTTAACGGGGACCT 59.504 47.619 16.73 2.49 40.15 3.85
120 122 2.359355 GGGACCTTGATCTAGACCCTCA 60.359 54.545 21.81 0.00 32.61 3.86
122 124 3.970640 GGACCTTGATCTAGACCCTCAAT 59.029 47.826 5.68 0.00 0.00 2.57
200 375 9.155053 CGTCAAAGTTAACATAGTTGACTTTTC 57.845 33.333 22.21 17.92 43.71 2.29
204 379 7.203255 AGTTAACATAGTTGACTTTTCCAGC 57.797 36.000 8.61 0.00 0.00 4.85
212 387 0.875059 GACTTTTCCAGCCTTGACGG 59.125 55.000 0.00 0.00 0.00 4.79
230 405 2.032681 GTGGGCCCAGACTGTCAC 59.967 66.667 29.55 6.91 0.00 3.67
256 431 4.282195 ACGGGTTTAAATGAGCCAAATCAA 59.718 37.500 0.00 0.00 34.35 2.57
262 437 7.095649 GGTTTAAATGAGCCAAATCAAACACTC 60.096 37.037 0.00 0.00 31.76 3.51
264 439 5.382618 AATGAGCCAAATCAAACACTCTC 57.617 39.130 0.00 0.00 31.76 3.20
268 443 3.149196 GCCAAATCAAACACTCTCCTGA 58.851 45.455 0.00 0.00 0.00 3.86
280 456 5.602628 ACACTCTCCTGACTTGTTAGTTTC 58.397 41.667 0.00 0.00 33.84 2.78
281 457 4.991687 CACTCTCCTGACTTGTTAGTTTCC 59.008 45.833 0.00 0.00 33.84 3.13
289 467 4.892934 TGACTTGTTAGTTTCCTGCCAAAT 59.107 37.500 0.00 0.00 33.84 2.32
291 469 6.016610 TGACTTGTTAGTTTCCTGCCAAATAC 60.017 38.462 0.00 0.00 33.84 1.89
311 489 9.398170 CAAATACAGTCCAAAAGTGATAGTTTG 57.602 33.333 0.00 0.00 35.03 2.93
322 501 6.926630 AAGTGATAGTTTGGGGCATTTTTA 57.073 33.333 0.00 0.00 0.00 1.52
323 502 7.494922 AAGTGATAGTTTGGGGCATTTTTAT 57.505 32.000 0.00 0.00 0.00 1.40
357 536 1.305201 TTTCTGTCAAGGTTGGTCGC 58.695 50.000 0.00 0.00 0.00 5.19
371 550 3.404224 TGGTCGCAATGTGGTAGTTTA 57.596 42.857 0.00 0.00 0.00 2.01
372 551 3.331150 TGGTCGCAATGTGGTAGTTTAG 58.669 45.455 0.00 0.00 0.00 1.85
375 554 4.378046 GGTCGCAATGTGGTAGTTTAGTTG 60.378 45.833 0.00 0.00 0.00 3.16
393 577 8.553696 GTTTAGTTGGAAATACTCTGTTTTCGA 58.446 33.333 0.00 0.00 33.58 3.71
394 578 8.842358 TTAGTTGGAAATACTCTGTTTTCGAT 57.158 30.769 0.00 0.00 33.58 3.59
397 581 9.280174 AGTTGGAAATACTCTGTTTTCGATAAA 57.720 29.630 0.00 0.00 33.58 1.40
399 583 8.036273 TGGAAATACTCTGTTTTCGATAAACC 57.964 34.615 15.71 0.00 33.58 3.27
408 592 6.019779 TGTTTTCGATAAACCCATGGAAAG 57.980 37.500 15.22 0.00 35.12 2.62
414 598 4.440112 CGATAAACCCATGGAAAGAAAGCC 60.440 45.833 15.22 0.00 0.00 4.35
424 608 6.774656 CCATGGAAAGAAAGCCAACTATAGAT 59.225 38.462 5.56 0.00 37.78 1.98
492 677 7.148738 CCAAATGACGTATGGAGAGATAAATCG 60.149 40.741 3.72 0.00 36.27 3.34
564 754 1.824230 TCCCTGCATTTATGTTGTGGC 59.176 47.619 0.00 0.00 0.00 5.01
577 767 3.536570 TGTTGTGGCGCTATATTGCTAA 58.463 40.909 7.64 0.00 0.00 3.09
584 774 1.429463 GCTATATTGCTAACGCGCCT 58.571 50.000 5.73 0.00 39.65 5.52
586 776 2.344741 GCTATATTGCTAACGCGCCTAC 59.655 50.000 5.73 0.00 39.65 3.18
680 872 0.033228 CAGCTGATCCCGACATCTCC 59.967 60.000 8.42 0.00 0.00 3.71
713 905 2.935238 GCGTTTGGATCTGTGCCTTCTA 60.935 50.000 0.00 0.00 0.00 2.10
714 906 2.673368 CGTTTGGATCTGTGCCTTCTAC 59.327 50.000 0.00 0.00 0.00 2.59
725 917 5.011635 TCTGTGCCTTCTACTGTATTTCACA 59.988 40.000 0.00 0.00 35.30 3.58
727 919 5.468746 TGTGCCTTCTACTGTATTTCACAAC 59.531 40.000 0.00 0.00 36.48 3.32
728 920 5.468746 GTGCCTTCTACTGTATTTCACAACA 59.531 40.000 0.00 0.00 36.48 3.33
750 942 9.763465 CAACATATTTTTCCATTTTCATGCTTC 57.237 29.630 0.00 0.00 0.00 3.86
798 990 0.244994 AGCTTCGCGTTCTCATGTCT 59.755 50.000 5.77 0.00 0.00 3.41
809 1001 5.402398 CGTTCTCATGTCTGAACAGATACA 58.598 41.667 20.01 3.66 41.67 2.29
856 1048 1.525995 CCTTGCTGGTCCGTGTGTT 60.526 57.895 0.00 0.00 0.00 3.32
858 1050 1.507141 CTTGCTGGTCCGTGTGTTCC 61.507 60.000 0.00 0.00 0.00 3.62
949 1141 2.545946 GCCATCCGCACTCTAGAAAATC 59.454 50.000 0.00 0.00 37.47 2.17
962 1154 3.184382 AGAAAATCCCCCATTCGGTTT 57.816 42.857 0.00 0.00 0.00 3.27
969 1161 1.090052 CCCCATTCGGTTTCGCTCTC 61.090 60.000 0.00 0.00 36.13 3.20
985 1177 1.277557 CTCTCTGCTGCAAACCCTAGT 59.722 52.381 3.02 0.00 0.00 2.57
988 1180 2.497675 CTCTGCTGCAAACCCTAGTCTA 59.502 50.000 3.02 0.00 0.00 2.59
1005 1197 1.198713 CTACCTGAGCCACCATGTCT 58.801 55.000 0.00 0.00 0.00 3.41
1011 1203 2.821366 GCCACCATGTCTGCCTCG 60.821 66.667 0.00 0.00 0.00 4.63
1115 1307 0.321298 GTAGCAAGAACCGGGAGCAA 60.321 55.000 6.32 0.00 0.00 3.91
1178 1370 6.952773 AAGTTGCTCTGTTTTGTACCATAA 57.047 33.333 0.00 0.00 0.00 1.90
1184 1376 5.163982 GCTCTGTTTTGTACCATAACTCGAC 60.164 44.000 0.00 0.00 0.00 4.20
1186 1378 4.317488 TGTTTTGTACCATAACTCGACCC 58.683 43.478 0.00 0.00 0.00 4.46
1187 1379 4.202336 TGTTTTGTACCATAACTCGACCCA 60.202 41.667 0.00 0.00 0.00 4.51
1204 1396 4.071961 ACCCATTGGTTTTGCTTTCTTC 57.928 40.909 1.20 0.00 44.75 2.87
1216 1408 4.462508 TGCTTTCTTCGATCAGATCTGT 57.537 40.909 21.92 9.83 0.00 3.41
1268 1460 2.254546 TTCACAGGCTCACGAATGTT 57.745 45.000 0.00 0.00 0.00 2.71
1282 1474 6.568869 TCACGAATGTTGGTTCTTTGAATTT 58.431 32.000 0.00 0.00 0.00 1.82
1375 1567 2.703798 CCAGATGCAGGCAAACCCG 61.704 63.158 0.00 0.00 39.21 5.28
1448 1640 2.025155 GTCAGAATCACCCTCTAGCGA 58.975 52.381 0.00 0.00 0.00 4.93
1457 1649 2.895865 CTCTAGCGACGCCGGAGA 60.896 66.667 25.57 19.93 32.41 3.71
1463 1655 4.712425 CGACGCCGGAGACCGTTT 62.712 66.667 13.83 0.00 46.80 3.60
1487 1679 0.620556 GAACCAGATCTTCAGGCCCA 59.379 55.000 0.00 0.00 0.00 5.36
1571 1763 0.658368 CATCATGCTCACTCTGCTGC 59.342 55.000 0.00 0.00 0.00 5.25
1609 1801 1.101049 CCATCTATTTTGGCGGCGGT 61.101 55.000 9.78 0.00 0.00 5.68
1633 1825 6.545504 AACTAGTTCGTTCTTAGTACGACA 57.454 37.500 13.28 3.48 46.50 4.35
1665 1857 1.354101 TCGGGAAGGGTTCTTAGCAA 58.646 50.000 0.00 0.00 32.52 3.91
1773 2007 2.838813 GTGGCTCCCTTTACCTCTAAGT 59.161 50.000 0.00 0.00 0.00 2.24
1837 2071 6.317391 GCACTATCTGGAACTAATGAAGCTTT 59.683 38.462 0.00 0.00 0.00 3.51
1948 2192 3.780294 ACTCCATTATACAGCCCAACAGA 59.220 43.478 0.00 0.00 0.00 3.41
1977 2221 1.336887 ACTCGTCATCTCCACCGTTTG 60.337 52.381 0.00 0.00 0.00 2.93
2118 2362 1.002134 CCACCCACATCGCCTTTCT 60.002 57.895 0.00 0.00 0.00 2.52
2132 2376 3.211045 GCCTTTCTTTACACACCACTCA 58.789 45.455 0.00 0.00 0.00 3.41
2144 2388 3.054434 CACACCACTCATTTCATCCCCTA 60.054 47.826 0.00 0.00 0.00 3.53
2397 2643 9.246670 ACAGGATGAACAATATTCAAATTCTGA 57.753 29.630 10.26 0.00 39.69 3.27
2479 2725 2.046023 CACGCTGCCCTGGATGAA 60.046 61.111 0.00 0.00 0.00 2.57
2524 2776 4.060667 CCCCCGCCCCAACTTCAT 62.061 66.667 0.00 0.00 0.00 2.57
2545 2797 1.558741 CATCTCTCTGAAGCACGCTC 58.441 55.000 0.00 0.00 0.00 5.03
2619 2871 4.046286 TGGTTTTGGAGGTATGCTCAAT 57.954 40.909 0.00 0.00 0.00 2.57
2685 2937 7.842743 TGGATTATGAGTAGGGTTAGTGTTAGT 59.157 37.037 0.00 0.00 0.00 2.24
2703 2955 6.314896 GTGTTAGTCGTAGAGAGTTAAGGCTA 59.685 42.308 0.00 0.00 36.95 3.93
2779 3031 1.080093 CCTTGCGAGAACCGTAGCA 60.080 57.895 1.22 0.00 41.15 3.49
2894 3146 1.820519 GGCAGAACAATTCCTGATGCA 59.179 47.619 0.00 0.00 35.57 3.96
2901 3153 7.658261 CAGAACAATTCCTGATGCATGATATT 58.342 34.615 2.46 0.00 32.37 1.28
2933 3185 5.836821 TCTAGCAAGCTCGAGAAAGATTA 57.163 39.130 18.75 0.00 0.00 1.75
2967 3219 5.051816 GCATTTGTCATATTTGTCATGGGG 58.948 41.667 0.00 0.00 0.00 4.96
3048 3302 5.781210 TTGCCAACACTGAAATGATACAA 57.219 34.783 0.00 0.00 0.00 2.41
3079 3333 1.134670 GGTGTGAGTATGTCCTCCAGC 60.135 57.143 0.00 0.00 0.00 4.85
3118 3372 8.184848 CAGTACGAAAACTCAAGAGAGATATGA 58.815 37.037 3.73 0.00 44.98 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.319177 GAGTGTGCATCTAAGTTCCTTGT 58.681 43.478 0.00 0.00 0.00 3.16
22 23 3.931578 AGTGGAGTGTGCATCTAAGTTC 58.068 45.455 0.00 0.00 0.00 3.01
85 87 1.496001 AGGTCCCCGTTAACTTTGGTT 59.504 47.619 3.71 0.00 39.26 3.67
87 89 1.883926 CAAGGTCCCCGTTAACTTTGG 59.116 52.381 3.71 1.55 31.09 3.28
101 103 4.202305 CCATTGAGGGTCTAGATCAAGGTC 60.202 50.000 14.68 3.67 36.47 3.85
120 122 7.350921 TCATCTCCTACCTCTAAAATTCCCATT 59.649 37.037 0.00 0.00 0.00 3.16
122 124 6.209774 TCATCTCCTACCTCTAAAATTCCCA 58.790 40.000 0.00 0.00 0.00 4.37
139 313 3.012518 CCCACATGTCAGTTTCATCTCC 58.987 50.000 0.00 0.00 0.00 3.71
186 361 4.761739 TCAAGGCTGGAAAAGTCAACTATG 59.238 41.667 0.00 0.00 30.52 2.23
188 363 4.134563 GTCAAGGCTGGAAAAGTCAACTA 58.865 43.478 0.00 0.00 30.52 2.24
200 375 4.722700 CCCACCCGTCAAGGCTGG 62.723 72.222 0.00 0.00 39.21 4.85
212 387 3.249189 TGACAGTCTGGGCCCACC 61.249 66.667 24.45 15.09 40.81 4.61
230 405 3.651803 TGGCTCATTTAAACCCGTTTG 57.348 42.857 3.07 0.00 34.23 2.93
256 431 5.615925 AACTAACAAGTCAGGAGAGTGTT 57.384 39.130 0.00 0.00 37.15 3.32
262 437 3.748568 GCAGGAAACTAACAAGTCAGGAG 59.251 47.826 0.00 0.00 40.21 3.69
264 439 2.814336 GGCAGGAAACTAACAAGTCAGG 59.186 50.000 0.00 0.00 40.21 3.86
268 443 5.830991 TGTATTTGGCAGGAAACTAACAAGT 59.169 36.000 0.00 0.00 40.21 3.16
280 456 3.573967 ACTTTTGGACTGTATTTGGCAGG 59.426 43.478 0.00 0.00 38.22 4.85
281 457 4.278170 TCACTTTTGGACTGTATTTGGCAG 59.722 41.667 0.00 0.00 39.67 4.85
311 489 6.294361 ACCACTTTAAGATAAAAATGCCCC 57.706 37.500 0.00 0.00 0.00 5.80
322 501 8.974060 TTGACAGAAAACTACCACTTTAAGAT 57.026 30.769 0.00 0.00 0.00 2.40
323 502 7.497909 CCTTGACAGAAAACTACCACTTTAAGA 59.502 37.037 0.00 0.00 0.00 2.10
357 536 9.010029 AGTATTTCCAACTAAACTACCACATTG 57.990 33.333 0.00 0.00 0.00 2.82
371 550 8.842358 TTATCGAAAACAGAGTATTTCCAACT 57.158 30.769 0.00 0.00 33.07 3.16
372 551 9.326339 GTTTATCGAAAACAGAGTATTTCCAAC 57.674 33.333 14.35 0.00 33.07 3.77
375 554 7.120138 TGGGTTTATCGAAAACAGAGTATTTCC 59.880 37.037 18.39 10.95 33.56 3.13
393 577 4.424842 TGGCTTTCTTTCCATGGGTTTAT 58.575 39.130 13.02 0.00 0.00 1.40
394 578 3.850752 TGGCTTTCTTTCCATGGGTTTA 58.149 40.909 13.02 0.00 0.00 2.01
397 581 1.970640 GTTGGCTTTCTTTCCATGGGT 59.029 47.619 13.02 0.00 31.54 4.51
399 583 6.122277 TCTATAGTTGGCTTTCTTTCCATGG 58.878 40.000 4.97 4.97 31.54 3.66
408 592 8.894768 ATGACTTGTATCTATAGTTGGCTTTC 57.105 34.615 0.00 0.00 0.00 2.62
424 608 8.294954 TGAAAAGTTTGGGTTTATGACTTGTA 57.705 30.769 0.00 0.00 31.48 2.41
542 732 3.636300 GCCACAACATAAATGCAGGGATA 59.364 43.478 0.00 0.00 0.00 2.59
554 744 3.738982 AGCAATATAGCGCCACAACATA 58.261 40.909 2.29 0.00 40.15 2.29
584 774 8.984764 GTAAGATGGAATAAACACATATGCGTA 58.015 33.333 1.58 0.00 0.00 4.42
586 776 8.087982 AGTAAGATGGAATAAACACATATGCG 57.912 34.615 1.58 0.00 0.00 4.73
631 823 5.402568 GCGCTCAGAAATAGATATTCGACAA 59.597 40.000 0.00 0.00 32.04 3.18
644 836 2.512515 GGGCTCGCGCTCAGAAAT 60.513 61.111 5.56 0.00 36.36 2.17
694 886 3.686726 CAGTAGAAGGCACAGATCCAAAC 59.313 47.826 0.00 0.00 0.00 2.93
698 890 4.946478 ATACAGTAGAAGGCACAGATCC 57.054 45.455 0.00 0.00 0.00 3.36
725 917 9.729281 AGAAGCATGAAAATGGAAAAATATGTT 57.271 25.926 0.00 0.00 0.00 2.71
727 919 8.120465 GCAGAAGCATGAAAATGGAAAAATATG 58.880 33.333 0.00 0.00 41.58 1.78
728 920 7.281549 GGCAGAAGCATGAAAATGGAAAAATAT 59.718 33.333 0.00 0.00 44.61 1.28
734 926 2.898612 TGGCAGAAGCATGAAAATGGAA 59.101 40.909 0.00 0.00 44.61 3.53
735 927 2.494471 CTGGCAGAAGCATGAAAATGGA 59.506 45.455 9.42 0.00 44.61 3.41
798 990 2.430694 CCGTCCTCCATGTATCTGTTCA 59.569 50.000 0.00 0.00 0.00 3.18
908 1100 1.980772 GTGGCAGCTGGGAAGCAAT 60.981 57.895 17.12 0.00 37.25 3.56
942 1134 2.919772 AACCGAATGGGGGATTTTCT 57.080 45.000 0.00 0.00 41.60 2.52
949 1141 2.045340 AGCGAAACCGAATGGGGG 60.045 61.111 0.00 0.00 41.60 5.40
969 1161 2.622436 GTAGACTAGGGTTTGCAGCAG 58.378 52.381 0.00 0.00 0.00 4.24
985 1177 1.195115 GACATGGTGGCTCAGGTAGA 58.805 55.000 0.00 0.00 31.42 2.59
988 1180 1.681666 CAGACATGGTGGCTCAGGT 59.318 57.895 0.00 0.00 29.42 4.00
1005 1197 2.750637 GAGGAGGACGACGAGGCA 60.751 66.667 0.00 0.00 0.00 4.75
1011 1203 0.750182 CAGGGAGAGAGGAGGACGAC 60.750 65.000 0.00 0.00 0.00 4.34
1184 1376 3.059166 CGAAGAAAGCAAAACCAATGGG 58.941 45.455 3.55 0.00 41.29 4.00
1186 1378 5.221880 TGATCGAAGAAAGCAAAACCAATG 58.778 37.500 0.00 0.00 43.58 2.82
1187 1379 5.241506 TCTGATCGAAGAAAGCAAAACCAAT 59.758 36.000 0.00 0.00 43.58 3.16
1204 1396 6.016213 AGATTCATCTGACAGATCTGATCG 57.984 41.667 29.27 15.11 40.48 3.69
1216 1408 5.188434 AGGAAAAATGCGAGATTCATCTGA 58.812 37.500 0.00 0.00 37.25 3.27
1252 1444 0.108585 ACCAACATTCGTGAGCCTGT 59.891 50.000 0.00 0.00 0.00 4.00
1260 1452 6.568869 TGAAATTCAAAGAACCAACATTCGT 58.431 32.000 0.00 0.00 33.57 3.85
1264 1456 6.208644 CGTCTGAAATTCAAAGAACCAACAT 58.791 36.000 0.00 0.00 0.00 2.71
1268 1460 3.004315 GCCGTCTGAAATTCAAAGAACCA 59.996 43.478 0.00 0.00 0.00 3.67
1385 1577 2.617274 GGTTTGCAGGTGGAGCGAC 61.617 63.158 0.00 0.00 33.85 5.19
1440 1632 2.895865 TCTCCGGCGTCGCTAGAG 60.896 66.667 22.86 22.86 34.56 2.43
1463 1655 2.553028 GCCTGAAGATCTGGTTCACCAA 60.553 50.000 0.00 0.00 46.97 3.67
1526 1718 1.589716 GCGGCAAGGATGAAAGCTGT 61.590 55.000 0.00 0.00 35.83 4.40
1527 1719 1.138247 GCGGCAAGGATGAAAGCTG 59.862 57.895 0.00 0.00 36.47 4.24
1571 1763 1.268539 GGCCACAACGAACAACAGAAG 60.269 52.381 0.00 0.00 0.00 2.85
1633 1825 3.267483 CCTTCCCGAAATGTCAACGTAT 58.733 45.455 0.00 0.00 0.00 3.06
1665 1857 1.599071 CGAGCATCACACACACACTTT 59.401 47.619 0.00 0.00 33.17 2.66
1733 1954 4.620567 GCCACCCTTGAACACCATTAATTC 60.621 45.833 0.00 0.00 0.00 2.17
1773 2007 8.862325 ATGAATTACATGTTCTGGTAAACAGA 57.138 30.769 2.30 0.00 44.96 3.41
1797 2031 7.447545 TCCAGATAGTGCGTTACATTAGAGTAT 59.552 37.037 0.00 0.00 0.00 2.12
1837 2071 8.840833 TTGATAACTGATTAACTAACACAGCA 57.159 30.769 0.00 0.00 32.67 4.41
1948 2192 2.028130 GAGATGACGAGTGAGGTCCAT 58.972 52.381 0.00 0.00 33.46 3.41
1977 2221 1.112950 CCTTTCGGAGAGGAGGTACC 58.887 60.000 8.88 2.73 38.43 3.34
2118 2362 4.764823 GGGATGAAATGAGTGGTGTGTAAA 59.235 41.667 0.00 0.00 0.00 2.01
2132 2376 0.182775 GTGGGCGTAGGGGATGAAAT 59.817 55.000 0.00 0.00 0.00 2.17
2144 2388 3.953775 CCAGAGTTGGGTGGGCGT 61.954 66.667 0.00 0.00 41.05 5.68
2306 2552 1.137479 TCCGAGGACACAAACGAGTTT 59.863 47.619 0.00 0.00 0.00 2.66
2479 2725 1.222936 CCTGGCGCTGGAAGAAGAT 59.777 57.895 7.64 0.00 34.07 2.40
2619 2871 1.938585 ACTTCTGAATGTCGGGGAGA 58.061 50.000 0.00 0.00 0.00 3.71
2685 2937 5.926663 TCTGATAGCCTTAACTCTCTACGA 58.073 41.667 0.00 0.00 0.00 3.43
2703 2955 5.234466 ACTTGAGCACCTTACTTTCTGAT 57.766 39.130 0.00 0.00 0.00 2.90
2768 3020 1.906574 TCCCTTTCATGCTACGGTTCT 59.093 47.619 0.00 0.00 0.00 3.01
2779 3031 6.607970 TGATATTTGCATCTCTCCCTTTCAT 58.392 36.000 0.00 0.00 0.00 2.57
2873 3125 1.820519 GCATCAGGAATTGTTCTGCCA 59.179 47.619 0.00 0.00 0.00 4.92
2901 3153 6.039829 TCTCGAGCTTGCTAGAATTCTCATTA 59.960 38.462 12.24 0.00 0.00 1.90
2967 3219 1.589196 GGTCGGAGCGAGTACATGC 60.589 63.158 0.00 0.00 36.23 4.06
3048 3302 4.141711 ACATACTCACACCAGTTGAACTGT 60.142 41.667 22.40 9.19 44.50 3.55
3079 3333 2.324860 TCGTACTGTGTCGAGCAAATG 58.675 47.619 5.98 0.00 0.00 2.32
3091 3345 5.769484 TCTCTCTTGAGTTTTCGTACTGT 57.231 39.130 0.00 0.00 40.98 3.55


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

AutoCloner maintained by Alex Coulton.