Multiple sequence alignment - TraesCS4B01G243400

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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 TraesCS4B01G243400 chr4B 100.000 3743 0 0 1 3743 504933572 504937314 0.000000e+00 6913.0
1 TraesCS4B01G243400 chr4B 94.231 52 3 0 848 899 504934101 504934152 3.100000e-11 80.5
2 TraesCS4B01G243400 chr4B 94.231 52 3 0 530 581 504934419 504934470 3.100000e-11 80.5
3 TraesCS4B01G243400 chr4A 92.855 3037 175 19 1 3003 63528020 63531048 0.000000e+00 4368.0
4 TraesCS4B01G243400 chr4A 84.229 558 57 17 3105 3650 63536036 63536574 7.170000e-142 514.0
5 TraesCS4B01G243400 chr4A 89.157 83 8 1 827 909 63528805 63528886 6.610000e-18 102.0
6 TraesCS4B01G243400 chr4A 88.506 87 5 1 2997 3078 63531404 63531490 2.380000e-17 100.0
7 TraesCS4B01G243400 chr4A 91.379 58 5 0 524 581 63528820 63528877 3.100000e-11 80.5
8 TraesCS4B01G243400 chr4D 95.445 2371 92 5 769 3134 405765737 405768096 0.000000e+00 3766.0
9 TraesCS4B01G243400 chr4D 88.997 927 60 6 1 909 405764914 405765816 0.000000e+00 1109.0
10 TraesCS4B01G243400 chr4D 88.801 634 39 19 3128 3738 405768266 405768890 0.000000e+00 749.0
11 TraesCS4B01G243400 chr4D 96.364 55 2 0 527 581 405765813 405765867 1.430000e-14 91.6
12 TraesCS4B01G243400 chr4D 96.296 54 2 0 848 901 405765434 405765487 5.150000e-14 89.8
13 TraesCS4B01G243400 chr4D 94.545 55 3 0 527 581 405765753 405765807 6.660000e-13 86.1
14 TraesCS4B01G243400 chr2D 78.603 229 36 7 174 390 486335151 486334924 5.040000e-29 139.0
15 TraesCS4B01G243400 chr2D 86.869 99 9 4 174 271 138176685 138176780 1.420000e-19 108.0
16 TraesCS4B01G243400 chr5A 76.995 213 40 7 175 381 684696941 684697150 3.060000e-21 113.0
17 TraesCS4B01G243400 chr6B 76.818 220 25 14 164 363 687531834 687532047 2.380000e-17 100.0
18 TraesCS4B01G243400 chr2A 84.848 99 10 4 174 271 163852093 163851999 1.110000e-15 95.3
19 TraesCS4B01G243400 chr2A 80.189 106 19 2 166 271 503443445 503443548 1.110000e-10 78.7
20 TraesCS4B01G243400 chr6D 84.536 97 12 3 175 270 429658067 429657973 3.980000e-15 93.5
21 TraesCS4B01G243400 chr6D 92.857 42 3 0 335 376 107929956 107929997 1.120000e-05 62.1
22 TraesCS4B01G243400 chr5B 94.444 54 2 1 290 342 538400316 538400369 8.620000e-12 82.4
23 TraesCS4B01G243400 chr1D 88.636 44 5 0 336 379 70538184 70538141 2.000000e-03 54.7


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 TraesCS4B01G243400 chr4B 504933572 504937314 3742 False 2358.000000 6913 96.15400 1 3743 3 chr4B.!!$F1 3742
1 TraesCS4B01G243400 chr4A 63528020 63531490 3470 False 1162.625000 4368 90.47425 1 3078 4 chr4A.!!$F2 3077
2 TraesCS4B01G243400 chr4A 63536036 63536574 538 False 514.000000 514 84.22900 3105 3650 1 chr4A.!!$F1 545
3 TraesCS4B01G243400 chr4D 405764914 405768890 3976 False 981.916667 3766 93.40800 1 3738 6 chr4D.!!$F1 3737

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
311 336 0.332293 TGCCATGATTGCTGAAGGGA 59.668 50.0 0.0 0.0 0.00 4.20 F
1164 1260 0.308993 AGCTGCTGAAAAACACTCGC 59.691 50.0 0.0 0.0 0.00 5.03 F
1563 1659 0.034670 GCTTCCAGCAGACCAGGATT 60.035 55.0 0.0 0.0 41.89 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1218 1314 0.320374 TTGCTCCTCCAGTAACACCG 59.680 55.0 0.00 0.0 0.00 4.94 R
2151 2247 0.326238 ATCCCGGGACAAGGCTTCTA 60.326 55.0 29.69 0.0 0.00 2.10 R
3389 4046 0.032130 TGTCACTGACAAGCGGAGAC 59.968 55.0 9.54 0.0 39.78 3.36 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
46 53 8.440833 TCAATGTATCATAGATACACGTAGTCG 58.559 37.037 18.86 6.16 41.61 4.18
248 273 4.980805 TTGTGTGTCGCGAGCCCC 62.981 66.667 10.24 0.00 0.00 5.80
311 336 0.332293 TGCCATGATTGCTGAAGGGA 59.668 50.000 0.00 0.00 0.00 4.20
412 438 8.873215 TTTGCTTTTCCGTTAAATTATGACAA 57.127 26.923 0.00 0.00 0.00 3.18
471 497 9.065871 GTTTAAATTATGCAGTGAGTGTTCATC 57.934 33.333 0.00 0.00 35.39 2.92
520 546 7.093858 TGCATCATGTCAAAATTGGATTGTAGA 60.094 33.333 0.00 0.00 0.00 2.59
543 569 4.377021 TGTAGATGTTCAGACGTTTTGCT 58.623 39.130 0.00 0.00 0.00 3.91
634 666 3.455327 GCTTAGTTCGTAGTGGGGATTC 58.545 50.000 0.00 0.00 0.00 2.52
635 667 3.703420 CTTAGTTCGTAGTGGGGATTCG 58.297 50.000 0.00 0.00 0.00 3.34
648 680 4.036380 GTGGGGATTCGGCTTAAATTGTAG 59.964 45.833 0.00 0.00 0.00 2.74
653 685 5.585047 GGATTCGGCTTAAATTGTAGTCTGT 59.415 40.000 0.00 0.00 0.00 3.41
664 696 9.793259 TTAAATTGTAGTCTGTCCTTCATTTCT 57.207 29.630 0.00 0.00 0.00 2.52
714 749 5.971763 TGTAAGCACCAAAAACTCATTTGT 58.028 33.333 0.00 0.00 38.37 2.83
735 770 8.665643 TTTGTTTTCGTTCTAAGTAATGGAGA 57.334 30.769 0.00 0.00 0.00 3.71
794 829 1.407618 AGCGGCGTACATATTCAGACA 59.592 47.619 9.37 0.00 0.00 3.41
807 902 2.118228 TCAGACATTTTGCGTGCAAC 57.882 45.000 6.80 0.00 35.46 4.17
829 924 9.118236 GCAACTATTAGTTTTGAATGTCTGAAC 57.882 33.333 6.34 0.00 36.03 3.18
844 939 3.549471 GTCTGAACACTCATCAGCATACG 59.451 47.826 0.00 0.00 43.19 3.06
901 996 1.561076 TGTCTGAATACCCAGCAGCAT 59.439 47.619 0.00 0.00 34.28 3.79
929 1024 8.383619 CAGTATAATTTACTGCTGTCACTGTTC 58.616 37.037 0.00 0.00 38.51 3.18
969 1064 8.161699 TGGACAACACTTAAAAGAATCTAACC 57.838 34.615 0.00 0.00 0.00 2.85
1164 1260 0.308993 AGCTGCTGAAAAACACTCGC 59.691 50.000 0.00 0.00 0.00 5.03
1174 1270 1.609208 AAACACTCGCAGCCAGAAAT 58.391 45.000 0.00 0.00 0.00 2.17
1218 1314 2.206576 AAGATGACACCCTTTCAGCC 57.793 50.000 0.00 0.00 29.21 4.85
1389 1485 2.301870 GACACTGGGTATTGGTGTGAGA 59.698 50.000 2.66 0.00 43.08 3.27
1563 1659 0.034670 GCTTCCAGCAGACCAGGATT 60.035 55.000 0.00 0.00 41.89 3.01
1656 1752 3.362797 GCTCAGCAGCAGCAGCAA 61.363 61.111 12.92 0.00 46.06 3.91
1695 1791 3.903090 TGGGAAGTGGCATTGAGAAAATT 59.097 39.130 0.00 0.00 0.00 1.82
1698 1794 4.562143 GGAAGTGGCATTGAGAAAATTGCT 60.562 41.667 0.00 0.00 0.00 3.91
1737 1833 1.401018 GCTGGTTATTGTGACGTTGCC 60.401 52.381 0.00 0.00 0.00 4.52
1767 1863 1.490490 ACTGCTGGAGGTGTTTCTCAA 59.510 47.619 0.14 0.00 35.58 3.02
1818 1914 4.080638 GGTGGAGAGGACATTCTTCAGAAT 60.081 45.833 0.00 0.00 44.93 2.40
1941 2037 1.199789 GATGCGATTCACAAACTGGCA 59.800 47.619 0.00 0.00 0.00 4.92
1964 2060 2.950309 CCCAGGAAAGCATTGAGATCAG 59.050 50.000 0.00 0.00 0.00 2.90
2045 2141 2.026822 AGGTGAATCAGGCGATCTTTGT 60.027 45.455 0.00 0.00 0.00 2.83
2067 2163 6.240145 TGTGAAATGTGAGAGGATCATCAAA 58.760 36.000 10.44 0.00 40.92 2.69
2085 2181 2.624316 AACAATGCTTGTCAGATGCG 57.376 45.000 2.65 0.00 44.59 4.73
2130 2226 2.912295 TGATGTGATCTTGGTTGGAGGA 59.088 45.455 0.00 0.00 0.00 3.71
2151 2247 4.958581 GGATGTTCCAGAATTCCCAAGATT 59.041 41.667 0.65 0.00 36.28 2.40
2165 2261 3.282885 CCAAGATTAGAAGCCTTGTCCC 58.717 50.000 0.00 0.00 36.47 4.46
2198 2294 5.888161 GCAAGAAGGAAGAATCTTATGGGAA 59.112 40.000 0.00 0.00 34.24 3.97
2274 2370 0.101399 CAGGAGTCACCGATCCTTCG 59.899 60.000 0.00 0.00 43.62 3.79
2283 2379 1.530891 CGATCCTTCGGGGAGCCTA 60.531 63.158 7.73 0.00 47.00 3.93
2319 2415 2.267961 GCGACCCCGATGAACCTT 59.732 61.111 0.00 0.00 38.22 3.50
2409 2505 2.098934 GGACATGCTGTTCACAACAACA 59.901 45.455 0.00 0.00 41.23 3.33
2458 2554 2.822215 GTCTATGAAGGCGAGGGGA 58.178 57.895 0.00 0.00 0.00 4.81
2692 2788 4.496336 AGGCCCTGGCGAAGATGC 62.496 66.667 0.00 0.00 43.06 3.91
2765 2861 8.977505 GTAAGTGCTTTGCTTATCAATTTTTCA 58.022 29.630 0.00 0.00 34.12 2.69
2962 3067 9.627395 ATGTTGCTAGTAGTATAAATAAGAGCG 57.373 33.333 0.00 0.00 0.00 5.03
2987 3092 5.048713 GTCTAATTTGGACACCTTTGGTCTG 60.049 44.000 7.92 0.00 35.61 3.51
3047 3519 1.305802 ACTCCTGTCCCATACCGCA 60.306 57.895 0.00 0.00 0.00 5.69
3124 3599 0.250038 CTATGGCCGGTGACTGGATG 60.250 60.000 16.12 0.00 0.00 3.51
3126 3601 0.980754 ATGGCCGGTGACTGGATGTA 60.981 55.000 16.12 0.00 0.00 2.29
3209 3860 0.251253 TGTCATGGGCAAGCACATCA 60.251 50.000 6.86 0.49 38.11 3.07
3299 3951 1.465689 GCATGCACGCGTGTAAAGATT 60.466 47.619 36.80 17.30 35.52 2.40
3312 3964 1.696063 AAAGATTGGATCATGGGCGG 58.304 50.000 0.00 0.00 0.00 6.13
3365 4022 1.511305 GATCGGTGCTGACTCGGAA 59.489 57.895 0.00 0.00 0.00 4.30
3366 4023 0.108804 GATCGGTGCTGACTCGGAAA 60.109 55.000 0.00 0.00 0.00 3.13
3382 4039 2.928116 CGGAAAAATCTAGTGGACGACC 59.072 50.000 0.00 0.00 0.00 4.79
3384 4041 3.933332 GGAAAAATCTAGTGGACGACCTG 59.067 47.826 5.33 0.00 37.04 4.00
3389 4046 0.731417 CTAGTGGACGACCTGTACGG 59.269 60.000 5.33 0.00 32.19 4.02
3440 4104 4.192000 CGTGAATCGCCTGCTTCT 57.808 55.556 0.00 0.00 0.00 2.85
3441 4105 3.345737 CGTGAATCGCCTGCTTCTA 57.654 52.632 0.00 0.00 0.00 2.10
3442 4106 0.924090 CGTGAATCGCCTGCTTCTAC 59.076 55.000 0.00 0.00 0.00 2.59
3443 4107 0.924090 GTGAATCGCCTGCTTCTACG 59.076 55.000 0.00 0.00 0.00 3.51
3483 4147 0.604243 TTTGAAAAGCTAGCCGCCGA 60.604 50.000 12.13 0.00 40.39 5.54
3500 4164 2.223479 GCCGAAGCAAACAAGACTGAAA 60.223 45.455 0.00 0.00 39.53 2.69
3501 4165 3.733684 GCCGAAGCAAACAAGACTGAAAA 60.734 43.478 0.00 0.00 39.53 2.29
3534 4198 4.557942 GCCGTGGCACAGAAATTG 57.442 55.556 19.09 0.00 41.80 2.32
3555 4219 2.753966 CCATCCGCCGCTTGACTTG 61.754 63.158 0.00 0.00 0.00 3.16
3556 4220 2.436646 ATCCGCCGCTTGACTTGG 60.437 61.111 0.00 0.00 0.00 3.61
3635 4299 2.151202 TGAACTCCGAAACAATGGCTC 58.849 47.619 0.00 0.00 0.00 4.70
3662 4343 1.796459 CAGTACAGGTGTGCCGTAAAC 59.204 52.381 0.00 0.00 40.50 2.01
3663 4344 1.690352 AGTACAGGTGTGCCGTAAACT 59.310 47.619 0.00 0.00 40.50 2.66
3665 4346 2.450609 ACAGGTGTGCCGTAAACTAG 57.549 50.000 0.00 0.00 40.50 2.57
3667 4348 2.892852 ACAGGTGTGCCGTAAACTAGTA 59.107 45.455 0.00 0.00 40.50 1.82
3670 4351 2.351738 GGTGTGCCGTAAACTAGTACGT 60.352 50.000 15.16 0.00 44.24 3.57
3671 4352 3.119990 GGTGTGCCGTAAACTAGTACGTA 60.120 47.826 15.16 0.00 44.24 3.57
3672 4353 4.438744 GGTGTGCCGTAAACTAGTACGTAT 60.439 45.833 15.16 0.00 44.24 3.06
3673 4354 5.095490 GTGTGCCGTAAACTAGTACGTATT 58.905 41.667 15.16 0.00 44.24 1.89
3676 4357 6.644592 TGTGCCGTAAACTAGTACGTATTTTT 59.355 34.615 15.16 0.00 44.24 1.94
3711 4392 0.178992 CAGTTTGCCTGTGAGGGGAA 60.179 55.000 0.00 0.00 35.37 3.97
3742 4423 7.197486 CGTGTTTACGTTATCAGTTAGTACC 57.803 40.000 0.00 0.00 44.99 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.082125 ACATTGAAACCTGGCTCCTAAAG 58.918 43.478 0.00 0.00 0.00 1.85
46 53 3.471680 CTTGCCTAGCTAATCCTTCCAC 58.528 50.000 0.00 0.00 0.00 4.02
133 154 6.624352 TTAGATTCTGCAATATTCACCTGC 57.376 37.500 0.00 0.00 36.60 4.85
248 273 0.457337 GCTTGCTGAAGGGAATTGCG 60.457 55.000 0.00 0.00 0.00 4.85
311 336 2.039974 TGTCGCGAGCATGGCAATT 61.040 52.632 10.24 0.00 41.24 2.32
348 373 2.818130 AAGCGTGGCAAATCAAACAT 57.182 40.000 0.00 0.00 0.00 2.71
363 388 8.742554 AAAACCTGATGTTAGATTTTTAAGCG 57.257 30.769 0.00 0.00 35.67 4.68
412 438 7.707624 TTGATTTCCTTCTGCAATATTCACT 57.292 32.000 0.00 0.00 0.00 3.41
471 497 2.303022 ACCACACAGGGTAGAGTGAATG 59.697 50.000 0.00 0.00 43.89 2.67
520 546 4.997395 AGCAAAACGTCTGAACATCTACAT 59.003 37.500 1.95 0.00 0.00 2.29
634 666 4.504858 AGGACAGACTACAATTTAAGCCG 58.495 43.478 0.00 0.00 0.00 5.52
635 667 5.938125 TGAAGGACAGACTACAATTTAAGCC 59.062 40.000 0.00 0.00 0.00 4.35
648 680 5.924475 TCGAAAAGAAATGAAGGACAGAC 57.076 39.130 0.00 0.00 0.00 3.51
714 749 6.872020 CCAGTCTCCATTACTTAGAACGAAAA 59.128 38.462 0.00 0.00 0.00 2.29
767 802 4.456566 TGAATATGTACGCCGCTGAGTATA 59.543 41.667 0.00 0.00 0.00 1.47
777 812 4.970003 GCAAAATGTCTGAATATGTACGCC 59.030 41.667 0.00 0.00 0.00 5.68
780 815 5.452302 GCACGCAAAATGTCTGAATATGTAC 59.548 40.000 0.00 0.00 0.00 2.90
794 829 6.920758 TCAAAACTAATAGTTGCACGCAAAAT 59.079 30.769 6.41 0.70 38.66 1.82
829 924 5.400782 GTCTGAATACGTATGCTGATGAGTG 59.599 44.000 21.90 1.84 0.00 3.51
859 954 7.754924 AGACATTCAAAACTAATAATTGCACGG 59.245 33.333 0.00 0.00 0.00 4.94
892 987 7.571983 GCAGTAAATTATACTGTATGCTGCTGG 60.572 40.741 16.21 2.15 44.89 4.85
901 996 8.528643 ACAGTGACAGCAGTAAATTATACTGTA 58.471 33.333 19.74 0.00 44.89 2.74
929 1024 5.519927 GTGTTGTCCAAAACCAGATTCTTTG 59.480 40.000 0.00 0.00 0.00 2.77
969 1064 1.531149 CAGTCAAACCAGTTAGGCGTG 59.469 52.381 0.00 0.00 43.14 5.34
1058 1154 3.433343 ACATCAGGGAATGATTGTTGCA 58.567 40.909 0.00 0.00 46.97 4.08
1059 1155 4.178540 CAACATCAGGGAATGATTGTTGC 58.821 43.478 14.34 0.00 46.97 4.17
1164 1260 2.295885 GACCTCATCCATTTCTGGCTG 58.704 52.381 0.00 0.00 42.80 4.85
1174 1270 5.130809 TGAACATGACATATGACCTCATCCA 59.869 40.000 10.38 3.95 37.76 3.41
1218 1314 0.320374 TTGCTCCTCCAGTAACACCG 59.680 55.000 0.00 0.00 0.00 4.94
1389 1485 3.019564 GACCAGAGCTGCAATAAATGGT 58.980 45.455 1.02 9.33 42.08 3.55
1563 1659 1.746470 CCATTGCACATGCTCTCTCA 58.254 50.000 5.31 0.00 42.66 3.27
1617 1713 4.498241 CATACAGAAGAGCAACAGCAGTA 58.502 43.478 0.00 0.00 0.00 2.74
1695 1791 6.707608 CAGCACCTATGTTAAATATCAGAGCA 59.292 38.462 0.00 0.00 0.00 4.26
1698 1794 7.136822 ACCAGCACCTATGTTAAATATCAGA 57.863 36.000 0.00 0.00 0.00 3.27
1713 1809 1.071699 ACGTCACAATAACCAGCACCT 59.928 47.619 0.00 0.00 0.00 4.00
1737 1833 0.529337 CTCCAGCAGTGGCAGATACG 60.529 60.000 0.00 0.00 44.60 3.06
1740 1836 1.922369 ACCTCCAGCAGTGGCAGAT 60.922 57.895 0.00 0.00 44.60 2.90
1767 1863 2.350522 CAACCTGCGAGTGCTCTTATT 58.649 47.619 0.00 0.00 43.34 1.40
1818 1914 1.406341 GGTAGAAGGTGGCGCATTACA 60.406 52.381 10.83 0.00 0.00 2.41
1941 2037 3.203710 TGATCTCAATGCTTTCCTGGGAT 59.796 43.478 0.00 0.00 32.88 3.85
1964 2060 0.811281 GCCATTACCCAAGTCTGCAC 59.189 55.000 0.00 0.00 0.00 4.57
2045 2141 6.240145 TGTTTGATGATCCTCTCACATTTCA 58.760 36.000 0.00 0.00 36.48 2.69
2085 2181 3.994392 TGATGTCTTCTGGCGTTAACTTC 59.006 43.478 3.71 0.00 0.00 3.01
2130 2226 6.973642 TCTAATCTTGGGAATTCTGGAACAT 58.026 36.000 5.23 0.00 38.20 2.71
2151 2247 0.326238 ATCCCGGGACAAGGCTTCTA 60.326 55.000 29.69 0.00 0.00 2.10
2165 2261 3.808728 TCTTCCTTCTTGCATAATCCCG 58.191 45.455 0.00 0.00 0.00 5.14
2198 2294 2.799917 GCGGCTTCAAGATCGTCTATGT 60.800 50.000 0.00 0.00 0.00 2.29
2202 2298 0.459237 CAGCGGCTTCAAGATCGTCT 60.459 55.000 0.00 0.00 0.00 4.18
2274 2370 0.470833 TCAGCAGATCTAGGCTCCCC 60.471 60.000 4.62 0.00 38.56 4.81
2349 2445 1.062587 GTGTTCCTTGGAATGATCGCG 59.937 52.381 0.00 0.00 0.00 5.87
2352 2448 1.401905 GCGGTGTTCCTTGGAATGATC 59.598 52.381 5.32 0.00 0.00 2.92
2409 2505 2.847234 TCGGCCTGGTTGTCCTGT 60.847 61.111 0.00 0.00 34.23 4.00
2445 2541 2.927856 TGCTTCCCCTCGCCTTCA 60.928 61.111 0.00 0.00 0.00 3.02
2458 2554 1.003233 GGTTCTCTTCCGCCTGCTT 60.003 57.895 0.00 0.00 0.00 3.91
2574 2670 2.594592 ACGCCAGCAAACACCCTC 60.595 61.111 0.00 0.00 0.00 4.30
2612 2708 2.225791 CTCCATGAACGGCGGAGTGA 62.226 60.000 13.24 0.00 41.26 3.41
2616 2712 3.000819 ACCTCCATGAACGGCGGA 61.001 61.111 13.24 0.00 34.30 5.54
2692 2788 3.782244 GTCGAGCTTGCTGCCGTG 61.782 66.667 0.00 0.00 44.23 4.94
2773 2870 4.934602 AGTCTCATAAGCAAAGCACTTCTC 59.065 41.667 0.00 0.00 0.00 2.87
2775 2872 4.142730 CCAGTCTCATAAGCAAAGCACTTC 60.143 45.833 0.00 0.00 0.00 3.01
2962 3067 4.149598 ACCAAAGGTGTCCAAATTAGACC 58.850 43.478 6.18 0.00 32.98 3.85
2972 3077 3.764237 TTCTACAGACCAAAGGTGTCC 57.236 47.619 0.00 0.00 35.25 4.02
2987 3092 6.128254 CGGGAAGAAACTTGAGGAAATTCTAC 60.128 42.308 0.00 0.00 30.56 2.59
3047 3519 1.420138 ACGATGGGCCGAAAAGGATAT 59.580 47.619 0.00 0.00 45.00 1.63
3124 3599 2.285083 TGATTGTTGCAGCCGGTATAC 58.715 47.619 1.90 0.00 0.00 1.47
3126 3601 1.065491 TCTGATTGTTGCAGCCGGTAT 60.065 47.619 1.90 0.00 33.45 2.73
3299 3951 1.634865 ATGTGTCCGCCCATGATCCA 61.635 55.000 0.00 0.00 0.00 3.41
3312 3964 1.868997 CAACCAGCACCGATGTGTC 59.131 57.895 0.00 0.00 44.65 3.67
3336 3993 4.492160 ACCGATCGATGCACGCGT 62.492 61.111 18.66 5.58 42.26 6.01
3337 3994 3.976375 CACCGATCGATGCACGCG 61.976 66.667 18.66 3.53 42.26 6.01
3365 4022 4.380233 CGTACAGGTCGTCCACTAGATTTT 60.380 45.833 0.51 0.00 35.89 1.82
3366 4023 3.128242 CGTACAGGTCGTCCACTAGATTT 59.872 47.826 0.51 0.00 35.89 2.17
3389 4046 0.032130 TGTCACTGACAAGCGGAGAC 59.968 55.000 9.54 0.00 39.78 3.36
3483 4147 4.098501 CCCTCTTTTCAGTCTTGTTTGCTT 59.901 41.667 0.00 0.00 0.00 3.91
3539 4203 2.436646 CCAAGTCAAGCGGCGGAT 60.437 61.111 9.78 0.00 0.00 4.18
3560 4224 4.760047 CCTCTGAACCACGCGGGG 62.760 72.222 29.60 29.60 42.91 5.73
3562 4226 2.432628 GACCTCTGAACCACGCGG 60.433 66.667 12.47 0.00 38.77 6.46
3567 4231 0.684535 TGCGATTGACCTCTGAACCA 59.315 50.000 0.00 0.00 0.00 3.67
3576 4240 2.278142 GCGGCATTGCGATTGACC 60.278 61.111 1.91 0.00 0.00 4.02
3635 4299 2.196749 GCACACCTGTACTGATCGATG 58.803 52.381 0.54 0.00 0.00 3.84
3701 4382 1.299648 CGCCATCTTTCCCCTCACA 59.700 57.895 0.00 0.00 0.00 3.58
3711 4392 4.247258 TGATAACGTAAACACGCCATCTT 58.753 39.130 0.00 0.00 36.44 2.40


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

AutoCloner maintained by Alex Coulton.