Multiple sequence alignment - TraesCS7A01G450600

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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 TraesCS7A01G450600 chr7A 100.000 4175 0 0 1 4175 644115319 644119493 0.000000e+00 7710.0
1 TraesCS7A01G450600 chr7B 91.835 3662 186 39 1 3560 607588813 607592463 0.000000e+00 5001.0
2 TraesCS7A01G450600 chr7B 95.886 632 19 5 3551 4175 607613406 607614037 0.000000e+00 1016.0
3 TraesCS7A01G450600 chr7D 93.529 1700 76 11 1820 3503 559452887 559454568 0.000000e+00 2499.0
4 TraesCS7A01G450600 chr7D 84.743 1750 145 63 1 1678 559451179 559452878 0.000000e+00 1640.0
5 TraesCS7A01G450600 chr7D 78.277 534 92 18 2208 2736 602268472 602268986 5.210000e-84 322.0
6 TraesCS7A01G450600 chr7D 88.889 72 5 3 4072 4143 203048736 203048804 7.440000e-13 86.1
7 TraesCS7A01G450600 chr6B 77.929 367 47 17 3746 4079 198404534 198404899 9.160000e-47 198.0
8 TraesCS7A01G450600 chr6B 89.691 97 10 0 4079 4175 311552336 311552240 1.580000e-24 124.0
9 TraesCS7A01G450600 chr6B 85.263 95 13 1 4080 4173 421776684 421776590 3.440000e-16 97.1
10 TraesCS7A01G450600 chr3D 87.640 89 10 1 4088 4175 308056002 308055914 7.380000e-18 102.0
11 TraesCS7A01G450600 chr5D 93.182 44 3 0 4036 4079 489009130 489009087 9.690000e-07 65.8
12 TraesCS7A01G450600 chr5D 94.595 37 2 0 4036 4072 489165507 489165471 1.620000e-04 58.4


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 TraesCS7A01G450600 chr7A 644115319 644119493 4174 False 7710.0 7710 100.000 1 4175 1 chr7A.!!$F1 4174
1 TraesCS7A01G450600 chr7B 607588813 607592463 3650 False 5001.0 5001 91.835 1 3560 1 chr7B.!!$F1 3559
2 TraesCS7A01G450600 chr7B 607613406 607614037 631 False 1016.0 1016 95.886 3551 4175 1 chr7B.!!$F2 624
3 TraesCS7A01G450600 chr7D 559451179 559454568 3389 False 2069.5 2499 89.136 1 3503 2 chr7D.!!$F3 3502
4 TraesCS7A01G450600 chr7D 602268472 602268986 514 False 322.0 322 78.277 2208 2736 1 chr7D.!!$F2 528

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
384 408 0.108585 GGCATGGATAGGCTTCGGAA 59.891 55.0 0.00 0.00 33.3 4.30 F
1052 1127 0.172352 GAGCGAGTGAGTGAGGAAGG 59.828 60.0 0.00 0.00 0.0 3.46 F
1760 1893 0.103208 CTAACGGGCAGCTCGATTCT 59.897 55.0 24.82 5.09 0.0 2.40 F
3161 3306 0.110486 TCCAGCGAGAAGGCCTTTTT 59.890 50.0 21.54 11.53 0.0 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1244 1339 1.202582 TCTAGACTTGCAAGCCGAGAC 59.797 52.381 26.27 10.57 0.00 3.36 R
2415 2555 0.605589 GTTCCCACCGCTTAAGCTGT 60.606 55.000 24.33 21.00 39.06 4.40 R
3210 3355 0.604578 GGTGCTGCATTTCCACATGT 59.395 50.000 5.27 0.00 0.00 3.21 R
3968 4134 3.128764 TCGTAGCAGAATCTGACGACATT 59.871 43.478 18.96 0.00 36.37 2.71 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
38 41 4.083110 CCATACTCAGCAACTGTTTCAAGG 60.083 45.833 0.00 0.00 32.61 3.61
54 57 6.015350 TGTTTCAAGGCCCAACGAATTATAAA 60.015 34.615 0.00 0.00 0.00 1.40
72 76 8.916628 ATTATAAAGAAGAGAGGCAAGAATCC 57.083 34.615 0.00 0.00 0.00 3.01
166 170 0.109597 CTTGCACGGCAGGAACAATC 60.110 55.000 2.52 0.00 40.61 2.67
279 289 0.610687 GCTGGACTGACTAACTGCCT 59.389 55.000 0.00 0.00 0.00 4.75
280 290 1.674221 GCTGGACTGACTAACTGCCTG 60.674 57.143 0.00 0.00 0.00 4.85
287 297 1.985159 TGACTAACTGCCTGGGAATGT 59.015 47.619 0.00 0.00 0.00 2.71
288 298 3.178046 TGACTAACTGCCTGGGAATGTA 58.822 45.455 0.00 0.00 0.00 2.29
290 300 3.182152 ACTAACTGCCTGGGAATGTAGT 58.818 45.455 0.00 0.00 0.00 2.73
384 408 0.108585 GGCATGGATAGGCTTCGGAA 59.891 55.000 0.00 0.00 33.30 4.30
389 413 4.392940 CATGGATAGGCTTCGGAATCTTT 58.607 43.478 0.00 0.00 0.00 2.52
393 417 1.826385 AGGCTTCGGAATCTTTGGTG 58.174 50.000 0.00 0.00 0.00 4.17
396 420 1.740025 GCTTCGGAATCTTTGGTGGAG 59.260 52.381 0.00 0.00 0.00 3.86
442 466 4.446889 GCCATGATTGGGATTTAGGAGAGT 60.447 45.833 0.00 0.00 43.84 3.24
443 467 5.068636 CCATGATTGGGATTTAGGAGAGTG 58.931 45.833 0.00 0.00 39.56 3.51
445 469 4.370776 TGATTGGGATTTAGGAGAGTGGA 58.629 43.478 0.00 0.00 0.00 4.02
472 496 3.682292 GATGGCACGTCACCCTCCC 62.682 68.421 0.00 0.00 0.00 4.30
488 512 4.760047 CCCCCTCTCCGTGCGTTG 62.760 72.222 0.00 0.00 0.00 4.10
577 603 2.542766 CGGAAAAATCACCGTGGATG 57.457 50.000 0.00 0.00 43.53 3.51
587 633 0.978146 ACCGTGGATGAAGAGGGGAG 60.978 60.000 0.00 0.00 0.00 4.30
844 899 1.733399 GTGACGCCACGAGGAAGAC 60.733 63.158 1.86 0.00 36.89 3.01
907 977 2.879233 GCCCATAAGATCCGGCCGA 61.879 63.158 30.73 13.82 35.23 5.54
945 1017 3.437049 GCATCGAAGCCCATCTATAAACC 59.563 47.826 0.00 0.00 0.00 3.27
1036 1110 2.433838 TGCTGCTTCTCTGCGAGC 60.434 61.111 0.00 0.00 41.87 5.03
1052 1127 0.172352 GAGCGAGTGAGTGAGGAAGG 59.828 60.000 0.00 0.00 0.00 3.46
1054 1129 1.251527 GCGAGTGAGTGAGGAAGGGA 61.252 60.000 0.00 0.00 0.00 4.20
1192 1267 2.740904 GCCGTCTGGGGTAATCACTAAC 60.741 54.545 0.00 0.00 35.78 2.34
1244 1339 3.515286 CCTCTTGCCTGCCATGCG 61.515 66.667 0.00 0.00 0.00 4.73
1259 1354 3.044305 GCGTCTCGGCTTGCAAGT 61.044 61.111 26.55 0.00 0.00 3.16
1287 1382 3.118665 GCTTGGTGGAAATGGTAATGCAT 60.119 43.478 0.00 0.00 0.00 3.96
1390 1488 1.842562 AGGATGGATTGAGTGGGAGTG 59.157 52.381 0.00 0.00 0.00 3.51
1461 1573 3.947910 TGTTTTAGAGTAGGGTCACCG 57.052 47.619 0.00 0.00 43.47 4.94
1514 1637 1.067250 GTTGTGCCAAATGTGCCGT 59.933 52.632 0.00 0.00 0.00 5.68
1553 1676 2.949447 ACCTCCAGTTTGTTGCAATCT 58.051 42.857 0.59 0.00 0.00 2.40
1584 1707 9.783256 GCAGTAACATTTTTAGATTAAATCGGT 57.217 29.630 0.00 0.00 0.00 4.69
1608 1731 9.045223 GGTGATAAAATTTCCATGCTTATTTCC 57.955 33.333 0.00 0.00 0.00 3.13
1643 1766 5.304357 TCTCTTGTCACAACTAATGAGACCA 59.696 40.000 2.98 0.00 45.68 4.02
1686 1817 3.354948 TTCTGCTGGCACATATCAAGT 57.645 42.857 0.00 0.00 38.20 3.16
1724 1857 9.467258 AAACAAATGTTGTATTCATTCTGTCAG 57.533 29.630 0.00 0.00 44.59 3.51
1754 1887 0.321298 TGGAAACTAACGGGCAGCTC 60.321 55.000 0.00 0.00 0.00 4.09
1755 1888 1.359459 GGAAACTAACGGGCAGCTCG 61.359 60.000 14.82 14.82 0.00 5.03
1760 1893 0.103208 CTAACGGGCAGCTCGATTCT 59.897 55.000 24.82 5.09 0.00 2.40
1814 1947 2.752903 TGCTCGTAGTGTATCAGAAGCA 59.247 45.455 0.00 0.00 0.00 3.91
1894 2028 6.541278 TGCTTTCATTTCTATGTCCTCATCAG 59.459 38.462 0.00 0.00 35.70 2.90
1984 2119 4.651503 TGACTGATAGGAAAAGGAGGCTAG 59.348 45.833 0.00 0.00 0.00 3.42
2032 2167 0.823356 ATGGTGCACGGAAAACAGCT 60.823 50.000 11.45 0.00 33.12 4.24
2046 2181 6.535150 CGGAAAACAGCTGAGACAAGATAATA 59.465 38.462 23.35 0.00 0.00 0.98
2051 2186 5.599732 CAGCTGAGACAAGATAATAGCTGT 58.400 41.667 8.42 0.00 46.88 4.40
2112 2248 6.473455 GTGAGACACATTTTTGTGAAAAGGAG 59.527 38.462 12.69 0.00 42.02 3.69
2131 2267 4.522022 AGGAGAGGAAAAACTCATGCAAAG 59.478 41.667 0.00 0.00 39.97 2.77
2161 2297 3.582780 CACGACCCTACAGTTTCTTACC 58.417 50.000 0.00 0.00 0.00 2.85
2205 2341 8.877808 TGTGTGATTTTGCAACATAACATAAA 57.122 26.923 16.94 5.75 0.00 1.40
2206 2342 8.759641 TGTGTGATTTTGCAACATAACATAAAC 58.240 29.630 16.94 6.72 0.00 2.01
2239 2375 8.784043 TCTGTCCTTTTGTATTTTCTTAGAAGC 58.216 33.333 0.00 0.00 0.00 3.86
2281 2417 6.264832 TCATGTGAAACTTTAACAAGCTGTG 58.735 36.000 0.00 0.00 38.04 3.66
2286 2422 6.695278 GTGAAACTTTAACAAGCTGTGCATAA 59.305 34.615 0.00 0.00 32.57 1.90
2374 2514 9.566432 AATCTGGGTTTATCATCTCATACTTTC 57.434 33.333 0.00 0.00 0.00 2.62
2415 2555 7.496346 AAATGTCAGTAATCCTTCTCCACTA 57.504 36.000 0.00 0.00 0.00 2.74
2544 2685 6.542735 GTGAGAAAGGTAAAGTTGGAGAAGTT 59.457 38.462 0.00 0.00 0.00 2.66
2673 2814 9.582223 GTCAGTAGTATTTTTCTGAAAACTTCG 57.418 33.333 14.70 5.70 37.56 3.79
2738 2882 4.033358 GGCAAGAACATAGATTCAGTGTCG 59.967 45.833 0.00 0.00 0.00 4.35
2912 3056 2.408050 CTGAAGAAGACCGGTGAAGTG 58.592 52.381 14.63 0.00 0.00 3.16
3047 3191 2.266055 GCTTACTCGGCTGGTGCT 59.734 61.111 0.00 0.00 39.59 4.40
3058 3202 1.518056 GCTGGTGCTGCTGCTTGTAA 61.518 55.000 17.00 0.00 40.48 2.41
3059 3203 0.520404 CTGGTGCTGCTGCTTGTAAG 59.480 55.000 17.00 3.95 40.48 2.34
3069 3213 5.362556 TGCTGCTTGTAAGATCAGTTTTC 57.637 39.130 0.00 0.00 0.00 2.29
3135 3280 5.647225 ACAAAGTTGTCACCATTTTTGCAAT 59.353 32.000 0.00 0.00 36.50 3.56
3159 3304 1.003233 GTCCAGCGAGAAGGCCTTT 60.003 57.895 21.54 9.74 0.00 3.11
3160 3305 0.606673 GTCCAGCGAGAAGGCCTTTT 60.607 55.000 21.54 15.16 0.00 2.27
3161 3306 0.110486 TCCAGCGAGAAGGCCTTTTT 59.890 50.000 21.54 11.53 0.00 1.94
3205 3350 6.899393 TTGATGAATAGTAATGATTGCCCC 57.101 37.500 0.00 0.00 0.00 5.80
3210 3355 9.077885 GATGAATAGTAATGATTGCCCCTTTTA 57.922 33.333 0.00 0.00 0.00 1.52
3231 3390 1.206132 CATGTGGAAATGCAGCACCAT 59.794 47.619 6.50 0.00 34.87 3.55
3250 3409 2.869233 TTGCTCTGTTTTGGCAAGTC 57.131 45.000 0.00 0.00 40.38 3.01
3264 3423 5.932619 TGGCAAGTCTAGCAGAAATACTA 57.067 39.130 0.00 0.00 0.00 1.82
3302 3461 5.591877 GGCATATGAATGTGAGAAGAAACCT 59.408 40.000 6.97 0.00 35.38 3.50
3311 3470 3.058639 GTGAGAAGAAACCTGACACATGC 60.059 47.826 0.00 0.00 0.00 4.06
3415 3575 4.156556 CCATTTGTCCTGTAACATGGAGTG 59.843 45.833 0.00 0.00 33.10 3.51
3421 3581 2.079158 CTGTAACATGGAGTGTGCCAG 58.921 52.381 0.00 0.00 41.14 4.85
3506 3666 3.745975 CGTTCAGATTTAGCACAGTTCCA 59.254 43.478 0.00 0.00 0.00 3.53
3519 3679 2.509964 ACAGTTCCAAAGGGAGACAGTT 59.490 45.455 0.00 0.00 46.01 3.16
3532 3692 4.223032 GGGAGACAGTTGAGATAACTTCCA 59.777 45.833 9.80 0.00 30.16 3.53
3533 3693 5.172205 GGAGACAGTTGAGATAACTTCCAC 58.828 45.833 0.00 0.00 29.44 4.02
3560 3720 3.742369 CACGCTTTGATGGCTTTCATTTT 59.258 39.130 0.00 0.00 35.97 1.82
3660 3820 1.741770 GCAACTCCAACGCGGATCT 60.742 57.895 12.47 0.00 45.19 2.75
3668 3828 0.871722 CAACGCGGATCTCCAAAACA 59.128 50.000 12.47 0.00 35.14 2.83
3669 3829 1.135972 CAACGCGGATCTCCAAAACAG 60.136 52.381 12.47 0.00 35.14 3.16
3710 3870 2.113986 GGCCACCAAGTGCAGACT 59.886 61.111 0.00 0.00 31.34 3.24
3711 3871 2.263741 GGCCACCAAGTGCAGACTG 61.264 63.158 0.00 0.00 30.61 3.51
3712 3872 2.912624 GCCACCAAGTGCAGACTGC 61.913 63.158 20.86 20.86 45.29 4.40
3718 3883 2.277969 CCAAGTGCAGACTGCTCATAG 58.722 52.381 26.94 16.17 45.31 2.23
3733 3898 9.587772 GACTGCTCATAGTGTTTTCTTTCTATA 57.412 33.333 0.00 0.00 0.00 1.31
3755 3920 4.822026 ACCCGAAGTACTCAATCAAAGAG 58.178 43.478 0.00 0.00 39.04 2.85
3897 4063 5.587289 TCTATATGAAACGCCCAAAAATGC 58.413 37.500 0.00 0.00 0.00 3.56
3914 4080 3.947910 ATGCTCACCCAAATTGTTCTG 57.052 42.857 0.00 0.00 0.00 3.02
3962 4128 3.428045 CGGATCCTGCATTTGGAGAAAAC 60.428 47.826 10.75 0.00 36.99 2.43
3968 4134 3.303938 TGCATTTGGAGAAAACCCTCAA 58.696 40.909 0.00 0.00 34.94 3.02
3974 4140 3.146066 TGGAGAAAACCCTCAAATGTCG 58.854 45.455 0.00 0.00 34.94 4.35
3982 4148 3.600388 ACCCTCAAATGTCGTCAGATTC 58.400 45.455 0.00 0.00 0.00 2.52
4136 4302 8.947115 GTGCACACTCTAATTTATTTTCTACCT 58.053 33.333 13.17 0.00 0.00 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 41 6.017852 CCTCTCTTCTTTATAATTCGTTGGGC 60.018 42.308 0.00 0.00 0.00 5.36
54 57 7.682787 TTATTAGGATTCTTGCCTCTCTTCT 57.317 36.000 0.00 0.00 36.96 2.85
72 76 5.684704 TGTTGAGCCCCTGATCTTTATTAG 58.315 41.667 0.00 0.00 0.00 1.73
166 170 1.538075 AGTTGTTAAATCGTTGCCCGG 59.462 47.619 0.00 0.00 37.11 5.73
265 275 1.729586 TTCCCAGGCAGTTAGTCAGT 58.270 50.000 0.00 0.00 0.00 3.41
267 277 1.985159 ACATTCCCAGGCAGTTAGTCA 59.015 47.619 0.00 0.00 0.00 3.41
279 289 2.420547 GCTGATCTGCACTACATTCCCA 60.421 50.000 18.67 0.00 0.00 4.37
280 290 2.216898 GCTGATCTGCACTACATTCCC 58.783 52.381 18.67 0.00 0.00 3.97
290 300 1.065998 TGCTACATGTGCTGATCTGCA 60.066 47.619 21.87 21.87 41.05 4.41
364 387 1.669115 CCGAAGCCTATCCATGCCG 60.669 63.158 0.00 0.00 0.00 5.69
365 388 0.108585 TTCCGAAGCCTATCCATGCC 59.891 55.000 0.00 0.00 0.00 4.40
366 390 2.079925 GATTCCGAAGCCTATCCATGC 58.920 52.381 0.00 0.00 0.00 4.06
384 408 0.909610 TCGAGCCCTCCACCAAAGAT 60.910 55.000 0.00 0.00 0.00 2.40
389 413 3.706373 GCTTCGAGCCCTCCACCA 61.706 66.667 0.00 0.00 34.48 4.17
393 417 4.847444 GGCAGCTTCGAGCCCTCC 62.847 72.222 1.27 0.00 43.77 4.30
442 466 1.000843 CGTGCCATCTCCGATATTCCA 59.999 52.381 0.00 0.00 0.00 3.53
443 467 1.000955 ACGTGCCATCTCCGATATTCC 59.999 52.381 0.00 0.00 0.00 3.01
445 469 1.686587 TGACGTGCCATCTCCGATATT 59.313 47.619 0.00 0.00 0.00 1.28
472 496 4.760047 CCAACGCACGGAGAGGGG 62.760 72.222 0.00 0.00 35.05 4.79
484 508 2.190578 GATCTCAGGGCCCCAACG 59.809 66.667 21.43 4.73 0.00 4.10
485 509 2.190578 CGATCTCAGGGCCCCAAC 59.809 66.667 21.43 3.42 0.00 3.77
486 510 3.797353 GCGATCTCAGGGCCCCAA 61.797 66.667 21.43 5.70 0.00 4.12
488 512 2.837031 TTTTGCGATCTCAGGGCCCC 62.837 60.000 21.43 0.00 0.00 5.80
492 518 0.749454 CCCCTTTTGCGATCTCAGGG 60.749 60.000 2.21 2.21 43.66 4.45
514 540 1.137872 GACGTGGATGGATCAGCTTCT 59.862 52.381 0.00 0.00 0.00 2.85
516 542 0.179100 CGACGTGGATGGATCAGCTT 60.179 55.000 0.00 0.00 0.00 3.74
517 543 1.439228 CGACGTGGATGGATCAGCT 59.561 57.895 0.00 0.00 0.00 4.24
577 603 0.891373 GGCAAAAAGCTCCCCTCTTC 59.109 55.000 0.00 0.00 44.79 2.87
587 633 3.874873 GGATTGCCGGCAAAAAGC 58.125 55.556 42.74 29.66 39.55 3.51
624 670 1.694525 CCCCCTCCCCCTCTCTTTC 60.695 68.421 0.00 0.00 0.00 2.62
668 714 1.950630 GCAAGCCAAGCAACGGTTG 60.951 57.895 16.35 16.35 40.23 3.77
884 954 0.324943 CCGGATCTTATGGGCCGAAT 59.675 55.000 0.00 0.00 46.29 3.34
945 1017 1.086634 GGAAGCGCCTCTTGCTAGTG 61.087 60.000 2.29 0.00 43.14 2.74
1036 1110 1.067495 GTTCCCTTCCTCACTCACTCG 60.067 57.143 0.00 0.00 0.00 4.18
1244 1339 1.202582 TCTAGACTTGCAAGCCGAGAC 59.797 52.381 26.27 10.57 0.00 3.36
1259 1354 2.912956 ACCATTTCCACCAAGCTCTAGA 59.087 45.455 0.00 0.00 0.00 2.43
1287 1382 2.431771 CATTCACCGTCGCCGTCA 60.432 61.111 0.00 0.00 0.00 4.35
1300 1395 1.508088 CAAGGCAGAACCGGCATTC 59.492 57.895 0.00 0.00 46.52 2.67
1307 1402 2.359230 AGCGAGCAAGGCAGAACC 60.359 61.111 0.00 0.00 39.61 3.62
1309 1404 1.227943 AACAGCGAGCAAGGCAGAA 60.228 52.632 0.00 0.00 0.00 3.02
1390 1488 7.793927 AAATCTAGGAATTCGAACATTCTCC 57.206 36.000 0.00 2.02 34.12 3.71
1461 1573 7.134815 CAGCATAAACATAACTATTCTGTGGC 58.865 38.462 0.00 0.00 0.00 5.01
1514 1637 1.752358 TACACCGTTTACACCGCCCA 61.752 55.000 0.00 0.00 0.00 5.36
1519 1642 1.344114 TGGAGGTACACCGTTTACACC 59.656 52.381 0.00 1.59 43.90 4.16
1584 1707 7.437862 GCGGAAATAAGCATGGAAATTTTATCA 59.562 33.333 0.00 0.00 0.00 2.15
1608 1731 4.676546 TGTGACAAGAGAATAGATCAGCG 58.323 43.478 0.00 0.00 0.00 5.18
1686 1817 7.566760 ACAACATTTGTTTCTGACAGTCATA 57.433 32.000 2.97 0.00 42.22 2.15
1724 1857 6.677187 GCCCGTTAGTTTCCATCATCTTTTAC 60.677 42.308 0.00 0.00 0.00 2.01
1755 1888 7.119992 TGTCATAGCCTATCTTACGAGAGAATC 59.880 40.741 0.00 0.00 34.85 2.52
1760 1893 6.954487 TTTGTCATAGCCTATCTTACGAGA 57.046 37.500 0.00 0.00 36.09 4.04
1764 1897 9.277783 ACAATCATTTGTCATAGCCTATCTTAC 57.722 33.333 0.00 0.00 42.43 2.34
1894 2028 3.126000 GCTATGTTCAAGAGGCAAGACAC 59.874 47.826 0.00 0.00 0.00 3.67
1984 2119 7.552687 TGGGACAACTACATTCAGTATGATTTC 59.447 37.037 0.00 0.00 40.44 2.17
2103 2239 5.010012 GCATGAGTTTTTCCTCTCCTTTTCA 59.990 40.000 0.00 0.00 32.50 2.69
2112 2248 5.836347 ACTTCTTTGCATGAGTTTTTCCTC 58.164 37.500 0.00 0.00 0.00 3.71
2131 2267 3.631227 ACTGTAGGGTCGTGCTATACTTC 59.369 47.826 0.00 0.00 0.00 3.01
2161 2297 3.883744 GACGGCCACCACAGACCAG 62.884 68.421 2.24 0.00 0.00 4.00
2214 2350 7.746475 CGCTTCTAAGAAAATACAAAAGGACAG 59.254 37.037 0.00 0.00 0.00 3.51
2239 2375 9.558648 TTCACATGAAAAGAACATATTGATTCG 57.441 29.630 0.00 0.00 0.00 3.34
2281 2417 7.320443 TCTGACCTGTGTATCAAATTTATGC 57.680 36.000 0.00 0.00 0.00 3.14
2286 2422 7.067859 CCATGAATCTGACCTGTGTATCAAATT 59.932 37.037 0.00 0.00 0.00 1.82
2389 2529 7.560368 AGTGGAGAAGGATTACTGACATTTAG 58.440 38.462 0.00 0.00 0.00 1.85
2400 2540 6.407074 GCTTAAGCTGTAGTGGAGAAGGATTA 60.407 42.308 20.38 0.00 38.21 1.75
2415 2555 0.605589 GTTCCCACCGCTTAAGCTGT 60.606 55.000 24.33 21.00 39.06 4.40
2673 2814 1.836802 AGGCAAGAGGAATGGAGAGAC 59.163 52.381 0.00 0.00 0.00 3.36
2912 3056 2.535984 CCAGTTATCAACGCTGTCGATC 59.464 50.000 0.00 0.00 39.41 3.69
3047 3191 5.065914 AGAAAACTGATCTTACAAGCAGCA 58.934 37.500 0.00 0.00 31.74 4.41
3058 3202 7.238486 TCTGAAGCTAGAAGAAAACTGATCT 57.762 36.000 0.00 0.00 0.00 2.75
3059 3203 6.035975 GCTCTGAAGCTAGAAGAAAACTGATC 59.964 42.308 0.00 0.00 45.55 2.92
3135 3280 1.004560 CTTCTCGCTGGACCAAGCA 60.005 57.895 13.94 3.62 43.73 3.91
3183 3328 6.204852 AGGGGCAATCATTACTATTCATCA 57.795 37.500 0.00 0.00 0.00 3.07
3191 3336 5.957774 ACATGTAAAAGGGGCAATCATTACT 59.042 36.000 0.00 0.00 0.00 2.24
3200 3345 2.685106 TTCCACATGTAAAAGGGGCA 57.315 45.000 0.00 0.00 0.00 5.36
3205 3350 4.386652 GTGCTGCATTTCCACATGTAAAAG 59.613 41.667 5.27 0.00 0.00 2.27
3210 3355 0.604578 GGTGCTGCATTTCCACATGT 59.395 50.000 5.27 0.00 0.00 3.21
3231 3390 2.378038 AGACTTGCCAAAACAGAGCAA 58.622 42.857 0.00 0.00 43.83 3.91
3264 3423 5.675684 TCATATGCCGGATATACACATGT 57.324 39.130 5.05 0.00 0.00 3.21
3302 3461 2.495669 TCTAGTTCCGATGCATGTGTCA 59.504 45.455 2.46 0.00 0.00 3.58
3421 3581 1.607467 AACCCTGCTGCCCATGAAC 60.607 57.895 0.00 0.00 0.00 3.18
3506 3666 6.441088 AAGTTATCTCAACTGTCTCCCTTT 57.559 37.500 0.00 0.00 0.00 3.11
3519 3679 4.744570 CGTGCTTAGTGGAAGTTATCTCA 58.255 43.478 0.00 0.00 37.49 3.27
3532 3692 0.804989 GCCATCAAAGCGTGCTTAGT 59.195 50.000 7.64 0.00 34.84 2.24
3533 3693 1.089920 AGCCATCAAAGCGTGCTTAG 58.910 50.000 7.64 0.00 34.84 2.18
3574 3734 8.261522 AGCCAAATAACAGTTACCAAAAGAAAA 58.738 29.630 0.00 0.00 0.00 2.29
3660 3820 0.834612 ACGTCCAGGTCTGTTTTGGA 59.165 50.000 0.00 0.00 38.62 3.53
3690 3850 2.149383 TCTGCACTTGGTGGCCTCT 61.149 57.895 3.32 0.00 33.64 3.69
3710 3870 7.769044 GGGTATAGAAAGAAAACACTATGAGCA 59.231 37.037 0.00 0.00 0.00 4.26
3711 3871 7.042658 CGGGTATAGAAAGAAAACACTATGAGC 60.043 40.741 0.00 0.00 0.00 4.26
3712 3872 8.195436 TCGGGTATAGAAAGAAAACACTATGAG 58.805 37.037 0.00 0.00 0.00 2.90
3718 3883 7.816513 AGTACTTCGGGTATAGAAAGAAAACAC 59.183 37.037 0.00 0.00 32.56 3.32
3733 3898 4.527038 TCTCTTTGATTGAGTACTTCGGGT 59.473 41.667 0.00 0.00 33.59 5.28
3868 4034 7.639113 TTTGGGCGTTTCATATAGAGAATTT 57.361 32.000 0.00 0.00 0.00 1.82
3897 4063 2.229784 GCTCCAGAACAATTTGGGTGAG 59.770 50.000 0.78 1.33 35.13 3.51
3914 4080 2.278854 GAGAAACTCATGAGCAGCTCC 58.721 52.381 22.83 6.36 0.00 4.70
3962 4128 3.620374 CAGAATCTGACGACATTTGAGGG 59.380 47.826 3.77 0.00 32.44 4.30
3968 4134 3.128764 TCGTAGCAGAATCTGACGACATT 59.871 43.478 18.96 0.00 36.37 2.71
4000 4166 6.438186 AATTTTCAAAACATGGGTGATCCT 57.562 33.333 0.00 0.00 36.20 3.24
4094 4260 6.019779 GTGTGCACACCCTTCATTTTATTA 57.980 37.500 34.94 0.00 40.85 0.98


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

AutoCloner maintained by Alex Coulton.