Multiple sequence alignment - TraesCS7D01G268200

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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 TraesCS7D01G268200 chr7D 100.000 2523 0 0 1 2523 252063809 252061287 0.000000e+00 4660.0
1 TraesCS7D01G268200 chr7D 97.478 674 14 1 1853 2523 252056457 252055784 0.000000e+00 1147.0
2 TraesCS7D01G268200 chr7D 96.402 667 23 1 1854 2520 604363509 604364174 0.000000e+00 1098.0
3 TraesCS7D01G268200 chr7B 86.566 1459 108 38 435 1860 228827995 228826592 0.000000e+00 1528.0
4 TraesCS7D01G268200 chr7B 86.270 437 31 12 41 448 228828450 228828014 4.950000e-122 448.0
5 TraesCS7D01G268200 chr7B 96.667 120 4 0 41 160 228828807 228828688 1.530000e-47 200.0
6 TraesCS7D01G268200 chr3D 96.856 668 20 1 1853 2520 544590732 544591398 0.000000e+00 1116.0
7 TraesCS7D01G268200 chr3D 96.396 666 23 1 1855 2520 166931264 166931928 0.000000e+00 1096.0
8 TraesCS7D01G268200 chr1D 96.274 671 24 1 1853 2523 394706618 394705949 0.000000e+00 1099.0
9 TraesCS7D01G268200 chr1D 96.108 668 24 2 1853 2520 6686084 6686749 0.000000e+00 1088.0
10 TraesCS7D01G268200 chr1D 95.976 671 26 1 1853 2523 202400516 202399847 0.000000e+00 1088.0
11 TraesCS7D01G268200 chr2D 96.263 669 23 2 1855 2523 594382130 594381464 0.000000e+00 1096.0
12 TraesCS7D01G268200 chr4D 95.976 671 26 1 1853 2523 386986362 386985693 0.000000e+00 1088.0
13 TraesCS7D01G268200 chr7A 91.607 703 51 7 838 1536 269102498 269103196 0.000000e+00 965.0
14 TraesCS7D01G268200 chr7A 87.108 892 62 22 1 844 269101443 269102329 0.000000e+00 961.0
15 TraesCS7D01G268200 chr7A 92.400 250 12 5 1534 1781 269124758 269125002 1.440000e-92 350.0
16 TraesCS7D01G268200 chr6D 98.824 85 1 0 734 818 306137315 306137399 4.350000e-33 152.0
17 TraesCS7D01G268200 chr6B 98.824 85 1 0 734 818 473067442 473067526 4.350000e-33 152.0
18 TraesCS7D01G268200 chr5D 98.795 83 1 0 734 816 402976616 402976698 5.620000e-32 148.0
19 TraesCS7D01G268200 chr5D 97.701 87 1 1 734 819 402976880 402976794 5.620000e-32 148.0
20 TraesCS7D01G268200 chr5D 91.176 68 6 0 6 73 341197723 341197656 2.670000e-15 93.5
21 TraesCS7D01G268200 chr5A 97.701 87 1 1 734 819 510464179 510464093 5.620000e-32 148.0
22 TraesCS7D01G268200 chr5A 97.590 83 2 0 734 816 510463902 510463984 2.620000e-30 143.0
23 TraesCS7D01G268200 chr6A 100.000 79 0 0 734 812 441499327 441499405 2.020000e-31 147.0


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 TraesCS7D01G268200 chr7D 252061287 252063809 2522 True 4660.000000 4660 100.000000 1 2523 1 chr7D.!!$R2 2522
1 TraesCS7D01G268200 chr7D 252055784 252056457 673 True 1147.000000 1147 97.478000 1853 2523 1 chr7D.!!$R1 670
2 TraesCS7D01G268200 chr7D 604363509 604364174 665 False 1098.000000 1098 96.402000 1854 2520 1 chr7D.!!$F1 666
3 TraesCS7D01G268200 chr7B 228826592 228828807 2215 True 725.333333 1528 89.834333 41 1860 3 chr7B.!!$R1 1819
4 TraesCS7D01G268200 chr3D 544590732 544591398 666 False 1116.000000 1116 96.856000 1853 2520 1 chr3D.!!$F2 667
5 TraesCS7D01G268200 chr3D 166931264 166931928 664 False 1096.000000 1096 96.396000 1855 2520 1 chr3D.!!$F1 665
6 TraesCS7D01G268200 chr1D 394705949 394706618 669 True 1099.000000 1099 96.274000 1853 2523 1 chr1D.!!$R2 670
7 TraesCS7D01G268200 chr1D 6686084 6686749 665 False 1088.000000 1088 96.108000 1853 2520 1 chr1D.!!$F1 667
8 TraesCS7D01G268200 chr1D 202399847 202400516 669 True 1088.000000 1088 95.976000 1853 2523 1 chr1D.!!$R1 670
9 TraesCS7D01G268200 chr2D 594381464 594382130 666 True 1096.000000 1096 96.263000 1855 2523 1 chr2D.!!$R1 668
10 TraesCS7D01G268200 chr4D 386985693 386986362 669 True 1088.000000 1088 95.976000 1853 2523 1 chr4D.!!$R1 670
11 TraesCS7D01G268200 chr7A 269101443 269103196 1753 False 963.000000 965 89.357500 1 1536 2 chr7A.!!$F2 1535

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
878 1504 0.370273 CCTCGACGCGAAAATCCAAG 59.63 55.0 15.93 0.0 34.74 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 2762 0.316204 GAACGACGACTTCTTCCCCA 59.684 55.0 0.0 0.0 0.0 4.96 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
212 588 7.372714 TGCATGCTAATGTTGGATTAATCATC 58.627 34.615 20.33 7.19 36.08 2.92
250 634 0.701147 AAGGGGAGGAGCAAAGAAGG 59.299 55.000 0.00 0.00 0.00 3.46
261 645 3.416156 AGCAAAGAAGGCCTTCAAGTAG 58.584 45.455 39.84 26.39 41.84 2.57
302 692 4.755123 GCTGACACTATGTTTACACACCTT 59.245 41.667 0.00 0.00 35.03 3.50
421 827 2.724520 GTGATCCACCATGCATCCC 58.275 57.895 0.00 0.00 0.00 3.85
440 846 4.584874 TCCCTGTCAAATTCGCTCATTTA 58.415 39.130 0.00 0.00 0.00 1.40
509 949 1.593006 CAAGTATCGTGCGGATTGACC 59.407 52.381 0.00 0.00 36.55 4.02
511 951 1.412710 AGTATCGTGCGGATTGACCAT 59.587 47.619 0.00 0.00 38.90 3.55
526 966 2.158769 TGACCATGATTGGAAGATCGGG 60.159 50.000 0.00 0.00 46.92 5.14
536 976 1.139256 GGAAGATCGGGGAAGGAAGAC 59.861 57.143 0.00 0.00 0.00 3.01
537 977 1.139256 GAAGATCGGGGAAGGAAGACC 59.861 57.143 0.00 0.00 0.00 3.85
594 1037 2.202690 CATCCGCTTGCCGTACGA 60.203 61.111 18.76 0.00 34.38 3.43
607 1050 2.925306 GCCGTACGACATTCTTGACAGT 60.925 50.000 18.76 0.00 0.00 3.55
612 1055 3.822996 ACGACATTCTTGACAGTACTCG 58.177 45.455 0.00 0.00 0.00 4.18
618 1061 6.455647 ACATTCTTGACAGTACTCGAATTGA 58.544 36.000 0.00 0.00 0.00 2.57
638 1081 1.276421 AGCGGCAAACTAGTCAGACAT 59.724 47.619 1.45 0.00 0.00 3.06
641 1084 3.424962 GCGGCAAACTAGTCAGACATTTC 60.425 47.826 2.66 0.00 0.00 2.17
642 1085 3.125316 CGGCAAACTAGTCAGACATTTCC 59.875 47.826 2.66 4.14 0.00 3.13
644 1087 4.083271 GGCAAACTAGTCAGACATTTCCAC 60.083 45.833 2.66 0.00 0.00 4.02
645 1088 4.083271 GCAAACTAGTCAGACATTTCCACC 60.083 45.833 2.66 0.00 0.00 4.61
646 1089 5.308825 CAAACTAGTCAGACATTTCCACCT 58.691 41.667 2.66 0.00 0.00 4.00
647 1090 6.464222 CAAACTAGTCAGACATTTCCACCTA 58.536 40.000 2.66 0.00 0.00 3.08
648 1091 6.681729 AACTAGTCAGACATTTCCACCTAA 57.318 37.500 2.66 0.00 0.00 2.69
650 1093 3.926616 AGTCAGACATTTCCACCTAACG 58.073 45.455 2.66 0.00 0.00 3.18
651 1094 3.576982 AGTCAGACATTTCCACCTAACGA 59.423 43.478 2.66 0.00 0.00 3.85
652 1095 4.039973 AGTCAGACATTTCCACCTAACGAA 59.960 41.667 2.66 0.00 0.00 3.85
656 1105 2.418628 ACATTTCCACCTAACGAATGCG 59.581 45.455 0.00 0.00 44.79 4.73
671 1120 2.995466 ATGCGTCATTTGGAACACAG 57.005 45.000 0.00 0.00 39.29 3.66
683 1132 3.073678 TGGAACACAGATCGATTTGTGG 58.926 45.455 37.36 25.26 46.83 4.17
684 1133 3.244387 TGGAACACAGATCGATTTGTGGA 60.244 43.478 37.36 22.73 46.83 4.02
686 1135 4.396166 GGAACACAGATCGATTTGTGGATT 59.604 41.667 37.36 28.28 46.83 3.01
719 1168 3.184178 CACGAATTTGCGCCTCAAAAATT 59.816 39.130 13.34 13.34 46.60 1.82
720 1169 3.428534 ACGAATTTGCGCCTCAAAAATTC 59.571 39.130 22.99 22.99 46.60 2.17
723 1172 5.389725 CGAATTTGCGCCTCAAAAATTCAAT 60.390 36.000 27.93 7.41 46.60 2.57
724 1173 4.728917 TTTGCGCCTCAAAAATTCAATG 57.271 36.364 4.18 0.00 41.36 2.82
725 1174 3.657015 TGCGCCTCAAAAATTCAATGA 57.343 38.095 4.18 0.00 0.00 2.57
727 1176 4.375272 TGCGCCTCAAAAATTCAATGAAA 58.625 34.783 4.18 0.00 0.00 2.69
729 1178 5.139482 GCGCCTCAAAAATTCAATGAAAAC 58.861 37.500 0.00 0.00 0.00 2.43
730 1179 5.050159 GCGCCTCAAAAATTCAATGAAAACT 60.050 36.000 0.00 0.00 0.00 2.66
731 1180 6.511605 GCGCCTCAAAAATTCAATGAAAACTT 60.512 34.615 0.00 0.00 0.00 2.66
732 1181 7.408910 CGCCTCAAAAATTCAATGAAAACTTT 58.591 30.769 0.00 0.00 0.00 2.66
823 1272 5.045140 AGCTATAAGGGCTGTTTGTTCCTTA 60.045 40.000 0.00 0.00 43.42 2.69
824 1273 5.650703 GCTATAAGGGCTGTTTGTTCCTTAA 59.349 40.000 0.00 0.00 42.79 1.85
836 1286 8.870160 TGTTTGTTCCTTAAGTTGATTTCATG 57.130 30.769 0.97 0.00 0.00 3.07
878 1504 0.370273 CCTCGACGCGAAAATCCAAG 59.630 55.000 15.93 0.00 34.74 3.61
885 1511 1.648467 GCGAAAATCCAAGCCGAGCT 61.648 55.000 0.00 0.00 42.56 4.09
910 1536 1.079057 GAACTCGGAACTCCCAGCC 60.079 63.158 0.00 0.00 34.14 4.85
912 1538 3.003173 CTCGGAACTCCCAGCCCA 61.003 66.667 0.00 0.00 34.14 5.36
993 1619 3.402681 CACCCATGGCCTCTCCGT 61.403 66.667 6.09 0.00 37.80 4.69
1018 1644 1.005805 CCATCAATCCACCCAACTCCA 59.994 52.381 0.00 0.00 0.00 3.86
1040 1666 0.879400 CTCCTCACGATGGCATCTGC 60.879 60.000 23.97 0.04 41.14 4.26
1042 1668 1.227060 CTCACGATGGCATCTGCGA 60.227 57.895 23.97 15.74 43.26 5.10
1045 1671 2.202919 CGATGGCATCTGCGACCA 60.203 61.111 23.97 0.00 43.26 4.02
1048 1674 1.002257 ATGGCATCTGCGACCAACA 60.002 52.632 0.00 0.00 43.26 3.33
1052 1678 1.514678 GCATCTGCGACCAACACCAA 61.515 55.000 0.00 0.00 0.00 3.67
1058 1684 2.983592 GACCAACACCAAGCCCGG 60.984 66.667 0.00 0.00 0.00 5.73
1078 1704 1.290134 GGAGTTTGAGGAGGGGACAT 58.710 55.000 0.00 0.00 0.00 3.06
1140 1766 1.191535 TTGACGACCTCGGGATGATT 58.808 50.000 0.00 0.00 44.95 2.57
1146 1772 2.035632 GACCTCGGGATGATTCTCACT 58.964 52.381 0.00 0.00 0.00 3.41
1191 1817 2.888863 GAGGTGGTGCTCGAGGAG 59.111 66.667 15.58 0.00 0.00 3.69
1248 1874 2.802106 GAGAGCTTCCTCGACGGG 59.198 66.667 0.00 0.00 43.05 5.28
1250 1876 2.754658 GAGCTTCCTCGACGGGGA 60.755 66.667 13.86 13.86 0.00 4.81
1316 1942 4.436998 GCTGGTCGTGGAGGTCCG 62.437 72.222 0.00 0.00 39.43 4.79
1317 1943 4.436998 CTGGTCGTGGAGGTCCGC 62.437 72.222 0.00 0.00 42.91 5.54
1326 1952 4.194720 GAGGTCCGCGAGCGTGAT 62.195 66.667 8.23 0.00 37.81 3.06
1355 1981 1.880340 CCAGCGTGCGGAAGATCTC 60.880 63.158 0.00 0.00 0.00 2.75
1368 1994 4.303282 GGAAGATCTCCTGATTCGCTTAC 58.697 47.826 0.00 0.00 41.61 2.34
1551 2198 6.602803 TGTGTGCTGTCATTTGGTATGATTAT 59.397 34.615 0.00 0.00 0.00 1.28
1558 2205 6.262049 TGTCATTTGGTATGATTATTGGGACG 59.738 38.462 0.00 0.00 0.00 4.79
1576 2223 1.202177 ACGGCTCATAAAAGCAATGCG 60.202 47.619 0.00 0.00 44.35 4.73
1752 2402 3.515901 ACCATCCTCAACTCCAAGTACTC 59.484 47.826 0.00 0.00 0.00 2.59
1812 2462 1.904287 AAAGTTGCATACTTCCCGCA 58.096 45.000 12.60 0.00 46.34 5.69
1842 2493 8.937634 AAAGAGAGTAAAAGTTTCGTACTTCA 57.062 30.769 6.23 0.00 46.34 3.02
2094 2745 2.748647 TCGCCCATGTCGTCGAGA 60.749 61.111 0.00 0.00 0.00 4.04
2111 2762 0.693049 AGAATGAGGTTGCCGAGGTT 59.307 50.000 0.00 0.00 0.00 3.50
2176 2827 2.954611 GAGTGCGCTCCCCAAAAC 59.045 61.111 16.69 0.00 35.76 2.43
2193 2844 2.123077 CCCTGATCGCCCCTCTCT 60.123 66.667 0.00 0.00 0.00 3.10
2283 2934 2.026822 GGGATGGAGAAGACTTGCTTGA 60.027 50.000 0.00 0.00 36.83 3.02
2430 3084 4.941263 TCACGATCCAAAAGAATCGGAAAT 59.059 37.500 9.27 0.00 40.45 2.17
2520 3174 6.530913 AAATATAGACAACGTGCATAGCTG 57.469 37.500 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.251487 GCCGGAGCTGTAGTTAAAAACAA 59.749 43.478 5.05 0.00 35.50 2.83
6 7 3.466712 GCCGGAGCTGTAGTTAAAAAC 57.533 47.619 5.05 0.00 35.50 2.43
32 33 2.262915 CACACGACTCTGCTCCCC 59.737 66.667 0.00 0.00 0.00 4.81
153 527 1.090052 GGCGCCACTAAGATTTCGCT 61.090 55.000 24.80 0.00 41.91 4.93
183 557 4.579454 ATCCAACATTAGCATGCATGTC 57.421 40.909 26.79 18.66 32.21 3.06
212 588 2.004583 TTGAGCTTGGACCGTTATCG 57.995 50.000 0.00 0.00 0.00 2.92
261 645 1.379044 CACAATCCTCCCCTGTGCC 60.379 63.158 0.00 0.00 34.55 5.01
290 680 5.123936 AGAGGAACAAGAAGGTGTGTAAAC 58.876 41.667 0.00 0.00 0.00 2.01
302 692 2.991580 AGAAGGGGAAGAGGAACAAGA 58.008 47.619 0.00 0.00 0.00 3.02
352 744 8.402798 TCAGTCCAGATTCAGATATCTAGAAC 57.597 38.462 4.54 7.01 33.17 3.01
353 745 9.426534 TTTCAGTCCAGATTCAGATATCTAGAA 57.573 33.333 4.54 11.63 33.17 2.10
354 746 9.076781 CTTTCAGTCCAGATTCAGATATCTAGA 57.923 37.037 4.54 0.00 33.17 2.43
355 747 8.859090 ACTTTCAGTCCAGATTCAGATATCTAG 58.141 37.037 4.54 0.51 33.17 2.43
356 748 8.774546 ACTTTCAGTCCAGATTCAGATATCTA 57.225 34.615 4.54 0.00 33.17 1.98
358 750 7.593273 CGTACTTTCAGTCCAGATTCAGATATC 59.407 40.741 0.00 0.00 0.00 1.63
369 775 1.352156 GCGGCGTACTTTCAGTCCAG 61.352 60.000 9.37 0.00 0.00 3.86
421 827 9.003112 CATAAGTTAAATGAGCGAATTTGACAG 57.997 33.333 17.86 6.92 38.07 3.51
440 846 6.514947 TCAAAAGCATGCACTTTCATAAGTT 58.485 32.000 21.98 0.00 41.85 2.66
509 949 2.936919 TCCCCGATCTTCCAATCATG 57.063 50.000 0.00 0.00 0.00 3.07
511 951 1.490490 CCTTCCCCGATCTTCCAATCA 59.510 52.381 0.00 0.00 0.00 2.57
526 966 1.201429 TGCCCTCAGGTCTTCCTTCC 61.201 60.000 0.00 0.00 43.07 3.46
536 976 2.956987 CAACGCTTTGCCCTCAGG 59.043 61.111 0.00 0.00 0.00 3.86
580 1022 2.020836 GAATGTCGTACGGCAAGCGG 62.021 60.000 28.00 0.00 31.67 5.52
582 1024 1.076332 AAGAATGTCGTACGGCAAGC 58.924 50.000 28.00 20.49 31.67 4.01
594 1037 6.455647 TCAATTCGAGTACTGTCAAGAATGT 58.544 36.000 0.00 0.00 0.00 2.71
607 1050 1.730064 GTTTGCCGCTCAATTCGAGTA 59.270 47.619 0.00 0.00 44.33 2.59
612 1055 2.742053 TGACTAGTTTGCCGCTCAATTC 59.258 45.455 0.00 0.00 34.12 2.17
618 1061 0.679505 TGTCTGACTAGTTTGCCGCT 59.320 50.000 9.51 0.00 0.00 5.52
650 1093 3.058293 TCTGTGTTCCAAATGACGCATTC 60.058 43.478 5.70 0.00 35.91 2.67
651 1094 2.884012 TCTGTGTTCCAAATGACGCATT 59.116 40.909 0.09 0.09 35.91 3.56
652 1095 2.503331 TCTGTGTTCCAAATGACGCAT 58.497 42.857 0.00 0.00 35.91 4.73
656 1105 5.551760 AATCGATCTGTGTTCCAAATGAC 57.448 39.130 0.00 0.00 0.00 3.06
657 1106 5.473162 ACAAATCGATCTGTGTTCCAAATGA 59.527 36.000 2.95 0.00 0.00 2.57
662 1111 3.073678 CCACAAATCGATCTGTGTTCCA 58.926 45.455 25.87 0.00 41.13 3.53
664 1113 5.551760 AATCCACAAATCGATCTGTGTTC 57.448 39.130 25.87 0.00 41.13 3.18
695 1144 0.237235 TTGAGGCGCAAATTCGTGTC 59.763 50.000 10.83 0.00 32.46 3.67
719 1168 8.744568 AGGGCAATTTTTAAAGTTTTCATTGA 57.255 26.923 0.00 0.00 0.00 2.57
720 1169 8.619546 TGAGGGCAATTTTTAAAGTTTTCATTG 58.380 29.630 0.00 0.00 0.00 2.82
723 1172 6.256757 CGTGAGGGCAATTTTTAAAGTTTTCA 59.743 34.615 0.00 0.00 0.00 2.69
724 1173 6.645705 CGTGAGGGCAATTTTTAAAGTTTTC 58.354 36.000 0.00 0.00 0.00 2.29
725 1174 5.007234 GCGTGAGGGCAATTTTTAAAGTTTT 59.993 36.000 0.00 0.00 0.00 2.43
727 1176 4.055360 GCGTGAGGGCAATTTTTAAAGTT 58.945 39.130 0.00 0.00 0.00 2.66
729 1178 3.648009 TGCGTGAGGGCAATTTTTAAAG 58.352 40.909 0.00 0.00 40.59 1.85
730 1179 3.553922 CCTGCGTGAGGGCAATTTTTAAA 60.554 43.478 0.00 0.00 43.39 1.52
731 1180 2.029470 CCTGCGTGAGGGCAATTTTTAA 60.029 45.455 0.00 0.00 43.39 1.52
732 1181 1.543802 CCTGCGTGAGGGCAATTTTTA 59.456 47.619 0.00 0.00 43.39 1.52
738 1187 2.268920 GATCCTGCGTGAGGGCAA 59.731 61.111 3.14 0.00 43.39 4.52
836 1286 8.379457 AGGTCAGACTGACTTTGTATTAAAAC 57.621 34.615 29.70 12.16 46.19 2.43
845 1296 2.667137 GTCGAGGTCAGACTGACTTTG 58.333 52.381 29.70 26.24 46.19 2.77
849 1300 1.154188 GCGTCGAGGTCAGACTGAC 60.154 63.158 24.76 24.76 46.23 3.51
851 1477 2.183858 TTCGCGTCGAGGTCAGACTG 62.184 60.000 5.77 0.00 37.14 3.51
852 1478 1.512996 TTTCGCGTCGAGGTCAGACT 61.513 55.000 5.77 0.00 37.14 3.24
853 1479 0.662374 TTTTCGCGTCGAGGTCAGAC 60.662 55.000 5.77 0.00 37.14 3.51
885 1511 0.599204 GAGTTCCGAGTTCGTGCCAA 60.599 55.000 0.48 0.00 37.74 4.52
886 1512 1.006571 GAGTTCCGAGTTCGTGCCA 60.007 57.895 0.48 0.00 37.74 4.92
910 1536 3.931578 GGAGAAGTGGAATCCGATATGG 58.068 50.000 0.00 0.00 40.09 2.74
1018 1644 0.179062 GATGCCATCGTGAGGAGCTT 60.179 55.000 0.00 0.00 0.00 3.74
1040 1666 3.353836 CGGGCTTGGTGTTGGTCG 61.354 66.667 0.00 0.00 0.00 4.79
1042 1668 4.596585 CCCGGGCTTGGTGTTGGT 62.597 66.667 8.08 0.00 0.00 3.67
1045 1671 3.966543 CTCCCCGGGCTTGGTGTT 61.967 66.667 17.73 0.00 0.00 3.32
1048 1674 3.182996 AAACTCCCCGGGCTTGGT 61.183 61.111 17.73 7.55 0.00 3.67
1052 1678 3.330720 CCTCAAACTCCCCGGGCT 61.331 66.667 17.73 0.00 0.00 5.19
1058 1684 0.840722 TGTCCCCTCCTCAAACTCCC 60.841 60.000 0.00 0.00 0.00 4.30
1316 1942 4.819761 TGCTCCCATCACGCTCGC 62.820 66.667 0.00 0.00 0.00 5.03
1317 1943 1.522355 AATGCTCCCATCACGCTCG 60.522 57.895 0.00 0.00 0.00 5.03
1322 1948 2.012902 GCTGGCAATGCTCCCATCAC 62.013 60.000 4.82 0.00 0.00 3.06
1326 1952 4.349503 ACGCTGGCAATGCTCCCA 62.350 61.111 4.82 0.00 0.00 4.37
1355 1981 2.222508 CGTCAAACGTAAGCGAATCAGG 60.223 50.000 0.00 0.00 45.62 3.86
1532 2179 7.520453 CGTCCCAATAATCATACCAAATGACAG 60.520 40.741 0.00 0.00 0.00 3.51
1551 2198 1.271652 TGCTTTTATGAGCCGTCCCAA 60.272 47.619 0.00 0.00 42.01 4.12
1558 2205 2.849880 TCGCATTGCTTTTATGAGCC 57.150 45.000 7.12 0.00 42.01 4.70
1576 2223 4.981389 TTGGCGCAACATATTTTGTTTC 57.019 36.364 10.83 0.00 46.51 2.78
1593 2240 4.327087 GTGTTAATATTGCTGTGCTTTGGC 59.673 41.667 0.00 0.00 39.26 4.52
1708 2355 5.051574 GGTTGCACGTTGGTAAAAATGTAAC 60.052 40.000 0.00 0.00 32.14 2.50
1709 2356 5.041940 GGTTGCACGTTGGTAAAAATGTAA 58.958 37.500 0.00 0.00 0.00 2.41
1710 2357 4.097437 TGGTTGCACGTTGGTAAAAATGTA 59.903 37.500 0.00 0.00 0.00 2.29
1711 2358 3.119101 TGGTTGCACGTTGGTAAAAATGT 60.119 39.130 0.00 0.00 0.00 2.71
1776 2426 5.177696 GCAACTTTACTCGACTGATCAGTTT 59.822 40.000 28.46 13.06 42.66 2.66
1835 2485 7.653647 TCCAACAATTGTACCATTTGAAGTAC 58.346 34.615 12.39 0.00 39.44 2.73
1842 2493 9.874205 CTCATATTTCCAACAATTGTACCATTT 57.126 29.630 12.39 0.00 0.00 2.32
1916 2567 4.202245 AGTTTAATCTCTGCTGCCGTAA 57.798 40.909 0.00 0.00 0.00 3.18
1920 2571 6.261826 ACATGATTAGTTTAATCTCTGCTGCC 59.738 38.462 0.00 0.00 43.79 4.85
2094 2745 0.609131 CCAACCTCGGCAACCTCATT 60.609 55.000 0.00 0.00 0.00 2.57
2111 2762 0.316204 GAACGACGACTTCTTCCCCA 59.684 55.000 0.00 0.00 0.00 4.96
2176 2827 2.123077 AGAGAGGGGCGATCAGGG 60.123 66.667 0.00 0.00 0.00 4.45
2193 2844 1.664873 CCTCTCGTGATCCTGTACGA 58.335 55.000 5.95 5.95 45.87 3.43
2283 2934 1.078497 TTCCAGATCATTGCGCCGT 60.078 52.632 4.18 0.00 0.00 5.68
2430 3084 1.231221 ACGCGTTAATTGCTGAACCA 58.769 45.000 5.58 0.00 0.00 3.67
2485 3139 6.474427 CGTTGTCTATATTTTTGCTACTCGGA 59.526 38.462 0.00 0.00 0.00 4.55


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

AutoCloner maintained by Alex Coulton.