Multiple sequence alignment - TraesCS2A01G334800

Loading Multiple Alignment...

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 TraesCS2A01G334800 chr2A 100.000 2693 0 0 1 2693 568482630 568485322 0.000000e+00 4974.0
1 TraesCS2A01G334800 chr2B 93.360 2485 105 31 225 2693 494859368 494861808 0.000000e+00 3620.0
2 TraesCS2A01G334800 chr2B 95.783 166 7 0 1 166 494859033 494859198 4.420000e-68 268.0
3 TraesCS2A01G334800 chr2B 98.182 55 0 1 178 232 494859274 494859327 7.940000e-16 95.3
4 TraesCS2A01G334800 chr2D 94.083 1521 66 9 1177 2693 422203114 422204614 0.000000e+00 2289.0
5 TraesCS2A01G334800 chr2D 89.195 944 53 24 299 1215 422202192 422203113 0.000000e+00 1133.0
6 TraesCS2A01G334800 chr2D 82.922 486 42 15 723 1188 422323934 422324398 1.500000e-107 399.0
7 TraesCS2A01G334800 chr2D 92.946 241 8 2 1 232 422201600 422201840 2.570000e-90 342.0
8 TraesCS2A01G334800 chr2D 88.679 53 6 0 225 277 422202135 422202187 6.220000e-07 65.8
9 TraesCS2A01G334800 chr6D 80.952 336 57 5 2365 2693 417900650 417900985 2.660000e-65 259.0
10 TraesCS2A01G334800 chr7B 84.404 218 23 6 2151 2366 202165028 202164820 1.260000e-48 204.0
11 TraesCS2A01G334800 chr5A 87.162 148 19 0 2462 2609 380830403 380830256 4.610000e-38 169.0
12 TraesCS2A01G334800 chr5B 78.092 283 45 8 2378 2650 402745297 402745022 2.150000e-36 163.0


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 TraesCS2A01G334800 chr2A 568482630 568485322 2692 False 4974.000000 4974 100.00000 1 2693 1 chr2A.!!$F1 2692
1 TraesCS2A01G334800 chr2B 494859033 494861808 2775 False 1327.766667 3620 95.77500 1 2693 3 chr2B.!!$F1 2692
2 TraesCS2A01G334800 chr2D 422201600 422204614 3014 False 957.450000 2289 91.22575 1 2693 4 chr2D.!!$F2 2692

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
727 1104 0.109458 CGCTTACACACGGCTCAGTA 60.109 55.0 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1911 2351 0.099436 GCTAAAATCCACGCAGCCAG 59.901 55.0 0.0 0.0 0.0 4.85 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
17 18 3.777556 CAAAAGCCACCCACCTCC 58.222 61.111 0.00 0.00 0.00 4.30
232 296 7.173218 TCAAATTTTGATCTCAGTCCTACACAC 59.827 37.037 7.74 0.00 34.08 3.82
233 297 4.537135 TTTGATCTCAGTCCTACACACC 57.463 45.455 0.00 0.00 0.00 4.16
234 298 3.169512 TGATCTCAGTCCTACACACCA 57.830 47.619 0.00 0.00 0.00 4.17
235 299 2.826128 TGATCTCAGTCCTACACACCAC 59.174 50.000 0.00 0.00 0.00 4.16
236 300 2.375014 TCTCAGTCCTACACACCACA 57.625 50.000 0.00 0.00 0.00 4.17
238 302 2.628178 TCTCAGTCCTACACACCACAAG 59.372 50.000 0.00 0.00 0.00 3.16
239 303 1.691976 TCAGTCCTACACACCACAAGG 59.308 52.381 0.00 0.00 42.21 3.61
240 304 1.056660 AGTCCTACACACCACAAGGG 58.943 55.000 0.00 0.00 44.81 3.95
277 643 3.868077 GGGACGACTTCAGAATTCAGATG 59.132 47.826 8.44 9.91 0.00 2.90
279 645 3.265791 ACGACTTCAGAATTCAGATGGC 58.734 45.455 15.27 12.29 0.00 4.40
287 653 8.216423 ACTTCAGAATTCAGATGGCTATGTAAT 58.784 33.333 15.27 0.00 0.00 1.89
297 663 4.572985 TGGCTATGTAATTTGCAGCATC 57.427 40.909 0.00 0.00 33.86 3.91
302 668 6.246449 GCTATGTAATTTGCAGCATCTATCG 58.754 40.000 0.00 0.00 32.46 2.92
307 673 5.762825 AATTTGCAGCATCTATCGTGAAT 57.237 34.783 0.00 0.00 0.00 2.57
341 707 2.645163 GATGATCGTGTACTCGAGCTG 58.355 52.381 28.67 0.00 44.77 4.24
345 711 2.701780 CGTGTACTCGAGCTGGCCT 61.702 63.158 13.61 0.00 0.00 5.19
348 714 2.759973 TACTCGAGCTGGCCTGGG 60.760 66.667 13.61 0.00 0.00 4.45
361 727 1.704641 GCCTGGGAAAAGAAAGGTGT 58.295 50.000 0.00 0.00 32.06 4.16
362 728 2.490168 GGCCTGGGAAAAGAAAGGTGTA 60.490 50.000 0.00 0.00 32.06 2.90
363 729 2.557056 GCCTGGGAAAAGAAAGGTGTAC 59.443 50.000 0.00 0.00 32.06 2.90
364 730 3.827722 CCTGGGAAAAGAAAGGTGTACA 58.172 45.455 0.00 0.00 0.00 2.90
365 731 4.407365 CCTGGGAAAAGAAAGGTGTACAT 58.593 43.478 0.00 0.00 0.00 2.29
456 822 1.721804 GCAGAAAAAGTACAGCGACGC 60.722 52.381 13.03 13.03 0.00 5.19
582 948 1.232621 TGCATGCGCATAGCTGGATC 61.233 55.000 30.73 13.67 45.36 3.36
604 970 5.904941 TCTGCAAGACATCAACACAAAAAT 58.095 33.333 0.00 0.00 38.67 1.82
611 977 5.833131 AGACATCAACACAAAAATGGGTAGT 59.167 36.000 0.00 0.00 0.00 2.73
612 978 7.001674 AGACATCAACACAAAAATGGGTAGTA 58.998 34.615 0.00 0.00 0.00 1.82
613 979 7.174946 AGACATCAACACAAAAATGGGTAGTAG 59.825 37.037 0.00 0.00 0.00 2.57
614 980 7.001674 ACATCAACACAAAAATGGGTAGTAGA 58.998 34.615 0.00 0.00 0.00 2.59
615 981 6.870971 TCAACACAAAAATGGGTAGTAGAC 57.129 37.500 0.00 0.00 0.00 2.59
616 982 6.597562 TCAACACAAAAATGGGTAGTAGACT 58.402 36.000 0.00 0.00 0.00 3.24
617 983 7.057894 TCAACACAAAAATGGGTAGTAGACTT 58.942 34.615 0.00 0.00 0.00 3.01
618 984 7.558444 TCAACACAAAAATGGGTAGTAGACTTT 59.442 33.333 0.00 0.00 0.00 2.66
619 985 7.891498 ACACAAAAATGGGTAGTAGACTTTT 57.109 32.000 0.00 0.00 0.00 2.27
620 986 8.301252 ACACAAAAATGGGTAGTAGACTTTTT 57.699 30.769 0.00 0.00 0.00 1.94
621 987 8.194769 ACACAAAAATGGGTAGTAGACTTTTTG 58.805 33.333 13.67 13.67 43.74 2.44
622 988 7.169140 CACAAAAATGGGTAGTAGACTTTTTGC 59.831 37.037 14.68 0.00 42.75 3.68
623 989 5.977489 AAATGGGTAGTAGACTTTTTGCC 57.023 39.130 0.00 0.00 0.00 4.52
624 990 3.428413 TGGGTAGTAGACTTTTTGCCC 57.572 47.619 0.00 0.00 35.59 5.36
694 1071 9.818796 TTCAAATACAAACTTTCAAACAAAAGC 57.181 25.926 0.00 0.00 39.39 3.51
726 1103 1.372997 CGCTTACACACGGCTCAGT 60.373 57.895 0.00 0.00 0.00 3.41
727 1104 0.109458 CGCTTACACACGGCTCAGTA 60.109 55.000 0.00 0.00 0.00 2.74
728 1105 1.347320 GCTTACACACGGCTCAGTAC 58.653 55.000 0.00 0.00 0.00 2.73
747 1124 8.824756 TCAGTACAGAGTGAGATTAATTAGGT 57.175 34.615 0.00 0.00 31.13 3.08
748 1125 8.904834 TCAGTACAGAGTGAGATTAATTAGGTC 58.095 37.037 0.00 0.00 31.13 3.85
749 1126 8.908903 CAGTACAGAGTGAGATTAATTAGGTCT 58.091 37.037 0.00 3.01 0.00 3.85
750 1127 9.482175 AGTACAGAGTGAGATTAATTAGGTCTT 57.518 33.333 0.00 0.00 0.00 3.01
751 1128 9.522804 GTACAGAGTGAGATTAATTAGGTCTTG 57.477 37.037 4.54 2.38 0.00 3.02
777 1156 4.016444 TCTTGGATGCTTTGGGTTGATAC 58.984 43.478 0.00 0.00 0.00 2.24
803 1187 3.895025 CAGGCACAACCAGGATCG 58.105 61.111 0.00 0.00 43.14 3.69
806 1190 0.537188 AGGCACAACCAGGATCGTAG 59.463 55.000 0.00 0.00 43.14 3.51
827 1211 3.084786 GCATTAAACAAGTCCTGCTCCT 58.915 45.455 0.00 0.00 0.00 3.69
828 1212 3.127721 GCATTAAACAAGTCCTGCTCCTC 59.872 47.826 0.00 0.00 0.00 3.71
829 1213 4.583871 CATTAAACAAGTCCTGCTCCTCT 58.416 43.478 0.00 0.00 0.00 3.69
1009 1408 2.637872 CCAACCCTGTACCTTCTCTTCA 59.362 50.000 0.00 0.00 0.00 3.02
1034 1433 5.376625 ACTCCTATTGACACACAAACACAT 58.623 37.500 0.00 0.00 42.03 3.21
1035 1434 6.530120 ACTCCTATTGACACACAAACACATA 58.470 36.000 0.00 0.00 42.03 2.29
1036 1435 6.426937 ACTCCTATTGACACACAAACACATAC 59.573 38.462 0.00 0.00 42.03 2.39
1037 1436 6.292150 TCCTATTGACACACAAACACATACA 58.708 36.000 0.00 0.00 42.03 2.29
1038 1437 6.203915 TCCTATTGACACACAAACACATACAC 59.796 38.462 0.00 0.00 42.03 2.90
1039 1438 5.826601 ATTGACACACAAACACATACACA 57.173 34.783 0.00 0.00 42.03 3.72
1040 1439 4.608073 TGACACACAAACACATACACAC 57.392 40.909 0.00 0.00 0.00 3.82
1041 1440 3.062774 TGACACACAAACACATACACACG 59.937 43.478 0.00 0.00 0.00 4.49
1045 1444 2.286563 CACAAACACATACACACGCAGA 59.713 45.455 0.00 0.00 0.00 4.26
1067 1466 3.340814 AAAGATCGAACACCATGAGCT 57.659 42.857 0.00 0.00 0.00 4.09
1070 1469 0.036105 ATCGAACACCATGAGCTGCA 60.036 50.000 1.02 0.00 0.00 4.41
1071 1470 0.671472 TCGAACACCATGAGCTGCAG 60.671 55.000 10.11 10.11 0.00 4.41
1072 1471 0.671472 CGAACACCATGAGCTGCAGA 60.671 55.000 20.43 0.00 0.00 4.26
1081 1480 2.687700 TGAGCTGCAGAAGAAGGATC 57.312 50.000 20.43 0.00 0.00 3.36
1104 1503 0.255890 AGTGCAGTCCTTGTGGTTGT 59.744 50.000 0.00 0.00 34.23 3.32
1215 1655 9.483916 CGATCGACCTATCTCTATCTGTATTAT 57.516 37.037 10.26 0.00 0.00 1.28
1502 1942 1.371558 GTATAGGGCGAGGGGCAAG 59.628 63.158 0.00 0.00 46.16 4.01
1601 2041 1.172180 AGCTAGCTAGAGCCGCTCTG 61.172 60.000 29.58 20.25 42.18 3.35
1613 2053 2.159085 AGCCGCTCTGTGATTTACTACC 60.159 50.000 0.00 0.00 0.00 3.18
1784 2224 5.277779 CGTTTAGTCCTGATTTGCAAGAACA 60.278 40.000 0.00 0.81 0.00 3.18
1796 2236 2.438021 TGCAAGAACAACTGGTAGGAGT 59.562 45.455 0.00 0.00 0.00 3.85
1901 2341 7.384660 CAGTGTTACATTTGGCAATTTACATGT 59.615 33.333 16.20 16.20 0.00 3.21
1902 2342 7.384660 AGTGTTACATTTGGCAATTTACATGTG 59.615 33.333 19.58 0.00 0.00 3.21
1903 2343 7.170658 GTGTTACATTTGGCAATTTACATGTGT 59.829 33.333 19.58 9.60 0.00 3.72
1904 2344 7.383572 TGTTACATTTGGCAATTTACATGTGTC 59.616 33.333 19.58 13.86 0.00 3.67
1905 2345 5.237048 ACATTTGGCAATTTACATGTGTCC 58.763 37.500 9.11 1.11 0.00 4.02
1906 2346 5.011943 ACATTTGGCAATTTACATGTGTCCT 59.988 36.000 9.11 0.00 0.00 3.85
1907 2347 4.517952 TTGGCAATTTACATGTGTCCTG 57.482 40.909 9.11 2.12 0.00 3.86
1908 2348 2.824936 TGGCAATTTACATGTGTCCTGG 59.175 45.455 9.11 0.00 0.00 4.45
1909 2349 2.825532 GGCAATTTACATGTGTCCTGGT 59.174 45.455 9.11 0.00 0.00 4.00
1910 2350 3.119495 GGCAATTTACATGTGTCCTGGTC 60.119 47.826 9.11 0.00 0.00 4.02
1911 2351 3.119495 GCAATTTACATGTGTCCTGGTCC 60.119 47.826 9.11 0.00 0.00 4.46
1918 2358 3.640407 TGTCCTGGTCCTGGCTGC 61.640 66.667 9.96 0.00 0.00 5.25
1933 2373 1.617740 GCTGCGTGGATTTTAGCAAC 58.382 50.000 0.00 0.00 39.26 4.17
1989 2429 2.747446 GCTTGTTGACATACGGGTCATT 59.253 45.455 7.50 0.00 46.37 2.57
2009 2449 6.697455 GTCATTGGAAAAAGAACCACTTTCTC 59.303 38.462 0.00 0.00 46.55 2.87
2028 2468 8.169268 ACTTTCTCGTGAATTTAATAGCTTTCG 58.831 33.333 0.02 0.00 31.56 3.46
2078 2518 1.107945 TGGGCAATGCTCACATCATG 58.892 50.000 2.46 0.00 32.27 3.07
2113 2555 1.951631 GAAGATGCTCGCCTACCGC 60.952 63.158 0.00 0.00 36.73 5.68
2167 2609 3.492829 CCTCGAGGTGGGCTAGATTTTAC 60.493 52.174 24.04 0.00 0.00 2.01
2304 2747 4.774726 AGAGCAACAAGAGGAAGATCTACA 59.225 41.667 0.00 0.00 0.00 2.74
2312 2755 6.043243 ACAAGAGGAAGATCTACACAAGGAAA 59.957 38.462 0.00 0.00 0.00 3.13
2367 2810 4.228237 TGATCCTAGGAATATGGGTGGT 57.772 45.455 17.30 0.00 0.00 4.16
2375 2818 3.071602 AGGAATATGGGTGGTCAATCGAG 59.928 47.826 0.00 0.00 0.00 4.04
2391 2834 5.238650 TCAATCGAGAAGTTTTTGGGAAGAC 59.761 40.000 0.00 0.00 0.00 3.01
2414 2859 3.653836 ACCTGGTTGGGTGACACTATTAA 59.346 43.478 5.39 0.00 41.11 1.40
2427 2872 7.012704 GGTGACACTATTAACTCTACGATACCA 59.987 40.741 5.39 0.00 0.00 3.25
2509 2956 2.445427 TGAACATCCAATTCCGCATGT 58.555 42.857 0.00 0.00 0.00 3.21
2601 3048 3.054213 TGATGCCAGATTCATTCCAGTGA 60.054 43.478 0.00 0.00 0.00 3.41
2640 3087 5.874810 TGGTGCATTTACTGTGAAGTCTATC 59.125 40.000 0.00 0.00 0.00 2.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
232 296 0.764271 AAATTGGCCAACCCTTGTGG 59.236 50.000 23.27 0.00 41.37 4.17
233 297 2.636647 AAAATTGGCCAACCCTTGTG 57.363 45.000 23.27 0.00 33.59 3.33
234 298 3.008923 CCATAAAATTGGCCAACCCTTGT 59.991 43.478 23.27 9.39 33.59 3.16
235 299 3.608796 CCATAAAATTGGCCAACCCTTG 58.391 45.455 23.27 14.47 33.59 3.61
236 300 2.575735 CCCATAAAATTGGCCAACCCTT 59.424 45.455 23.27 16.24 35.29 3.95
238 302 2.093181 GTCCCATAAAATTGGCCAACCC 60.093 50.000 23.27 0.00 35.29 4.11
239 303 2.418060 CGTCCCATAAAATTGGCCAACC 60.418 50.000 23.27 0.00 35.29 3.77
240 304 2.494073 TCGTCCCATAAAATTGGCCAAC 59.506 45.455 23.27 3.19 35.29 3.77
241 305 2.494073 GTCGTCCCATAAAATTGGCCAA 59.506 45.455 23.00 23.00 35.29 4.52
242 306 2.096248 GTCGTCCCATAAAATTGGCCA 58.904 47.619 0.00 0.00 35.29 5.36
277 643 4.843220 AGATGCTGCAAATTACATAGCC 57.157 40.909 6.36 0.00 33.60 3.93
279 645 7.116805 TCACGATAGATGCTGCAAATTACATAG 59.883 37.037 6.36 0.00 41.38 2.23
287 653 5.106197 ACAAATTCACGATAGATGCTGCAAA 60.106 36.000 6.36 0.00 41.38 3.68
297 663 5.444613 CGTCAGGAACACAAATTCACGATAG 60.445 44.000 0.00 0.00 46.19 2.08
302 668 4.213270 TCATCGTCAGGAACACAAATTCAC 59.787 41.667 0.00 0.00 0.00 3.18
307 673 2.993220 CGATCATCGTCAGGAACACAAA 59.007 45.455 0.00 0.00 34.72 2.83
334 700 2.469465 CTTTTCCCAGGCCAGCTCGA 62.469 60.000 5.01 0.00 0.00 4.04
341 707 0.969149 CACCTTTCTTTTCCCAGGCC 59.031 55.000 0.00 0.00 0.00 5.19
345 711 4.998672 CGTATGTACACCTTTCTTTTCCCA 59.001 41.667 0.00 0.00 0.00 4.37
348 714 5.121298 GGACCGTATGTACACCTTTCTTTTC 59.879 44.000 0.00 0.00 0.00 2.29
361 727 5.048504 GTCGATCTATTTGGGACCGTATGTA 60.049 44.000 0.00 0.00 0.00 2.29
362 728 3.893200 TCGATCTATTTGGGACCGTATGT 59.107 43.478 0.00 0.00 0.00 2.29
363 729 4.022242 AGTCGATCTATTTGGGACCGTATG 60.022 45.833 0.00 0.00 0.00 2.39
364 730 4.150359 AGTCGATCTATTTGGGACCGTAT 58.850 43.478 0.00 0.00 0.00 3.06
365 731 3.559069 AGTCGATCTATTTGGGACCGTA 58.441 45.455 0.00 0.00 0.00 4.02
481 847 7.376072 GGCGCAGTAAAATCATCAAGTAATAAC 59.624 37.037 10.83 0.00 0.00 1.89
491 857 0.307760 CCCGGCGCAGTAAAATCATC 59.692 55.000 10.83 0.00 0.00 2.92
582 948 5.050634 CCATTTTTGTGTTGATGTCTTGCAG 60.051 40.000 0.00 0.00 0.00 4.41
604 970 2.983898 AGGGCAAAAAGTCTACTACCCA 59.016 45.455 0.00 0.00 38.64 4.51
611 977 1.146982 AGGGCAAGGGCAAAAAGTCTA 59.853 47.619 0.00 0.00 43.71 2.59
612 978 0.105504 AGGGCAAGGGCAAAAAGTCT 60.106 50.000 0.00 0.00 43.71 3.24
613 979 1.546029 CTAGGGCAAGGGCAAAAAGTC 59.454 52.381 0.00 0.00 43.71 3.01
614 980 1.632589 CTAGGGCAAGGGCAAAAAGT 58.367 50.000 0.00 0.00 43.71 2.66
615 981 0.247460 GCTAGGGCAAGGGCAAAAAG 59.753 55.000 0.00 0.00 43.71 2.27
616 982 1.191489 GGCTAGGGCAAGGGCAAAAA 61.191 55.000 0.00 0.00 43.71 1.94
617 983 1.609210 GGCTAGGGCAAGGGCAAAA 60.609 57.895 0.00 0.00 43.71 2.44
618 984 2.037208 GGCTAGGGCAAGGGCAAA 59.963 61.111 0.00 0.00 43.71 3.68
619 985 2.547595 AAGGCTAGGGCAAGGGCAA 61.548 57.895 0.00 0.00 43.71 4.52
620 986 2.941025 AAGGCTAGGGCAAGGGCA 60.941 61.111 0.00 0.00 43.71 5.36
621 987 2.440980 CAAGGCTAGGGCAAGGGC 60.441 66.667 0.00 0.00 40.87 5.19
622 988 1.379044 CACAAGGCTAGGGCAAGGG 60.379 63.158 0.00 0.00 40.87 3.95
623 989 1.379044 CCACAAGGCTAGGGCAAGG 60.379 63.158 0.00 0.00 40.87 3.61
624 990 0.393537 CTCCACAAGGCTAGGGCAAG 60.394 60.000 0.00 0.00 40.87 4.01
693 1067 3.737266 TGTAAGCGCCGTATGTTAATAGC 59.263 43.478 2.29 0.00 0.00 2.97
694 1071 4.741185 TGTGTAAGCGCCGTATGTTAATAG 59.259 41.667 2.29 0.00 0.00 1.73
701 1078 1.628983 CGTGTGTAAGCGCCGTATG 59.371 57.895 2.29 0.00 0.00 2.39
726 1103 9.256228 ACAAGACCTAATTAATCTCACTCTGTA 57.744 33.333 0.00 0.00 0.00 2.74
727 1104 8.037758 CACAAGACCTAATTAATCTCACTCTGT 58.962 37.037 0.00 0.00 0.00 3.41
728 1105 7.010923 GCACAAGACCTAATTAATCTCACTCTG 59.989 40.741 0.00 0.00 0.00 3.35
741 1118 4.521146 CATCCAAGAGCACAAGACCTAAT 58.479 43.478 0.00 0.00 0.00 1.73
742 1119 3.869912 GCATCCAAGAGCACAAGACCTAA 60.870 47.826 0.00 0.00 0.00 2.69
744 1121 1.612726 GCATCCAAGAGCACAAGACCT 60.613 52.381 0.00 0.00 0.00 3.85
745 1122 0.807496 GCATCCAAGAGCACAAGACC 59.193 55.000 0.00 0.00 0.00 3.85
746 1123 1.818642 AGCATCCAAGAGCACAAGAC 58.181 50.000 0.00 0.00 0.00 3.01
747 1124 2.555325 CAAAGCATCCAAGAGCACAAGA 59.445 45.455 0.00 0.00 0.00 3.02
748 1125 2.352421 CCAAAGCATCCAAGAGCACAAG 60.352 50.000 0.00 0.00 0.00 3.16
749 1126 1.614903 CCAAAGCATCCAAGAGCACAA 59.385 47.619 0.00 0.00 0.00 3.33
750 1127 1.250328 CCAAAGCATCCAAGAGCACA 58.750 50.000 0.00 0.00 0.00 4.57
751 1128 0.529378 CCCAAAGCATCCAAGAGCAC 59.471 55.000 0.00 0.00 0.00 4.40
777 1156 0.951558 GGTTGTGCCTGGTAAGTGTG 59.048 55.000 0.00 0.00 0.00 3.82
803 1187 4.095036 GGAGCAGGACTTGTTTAATGCTAC 59.905 45.833 0.00 0.00 43.61 3.58
806 1190 3.084786 AGGAGCAGGACTTGTTTAATGC 58.915 45.455 0.00 0.00 0.00 3.56
827 1211 1.128809 TTAACGAACCCCCAGGCAGA 61.129 55.000 0.00 0.00 36.11 4.26
828 1212 0.250989 TTTAACGAACCCCCAGGCAG 60.251 55.000 0.00 0.00 36.11 4.85
829 1213 0.537828 GTTTAACGAACCCCCAGGCA 60.538 55.000 0.00 0.00 36.11 4.75
1009 1408 5.650266 TGTGTTTGTGTGTCAATAGGAGTTT 59.350 36.000 0.00 0.00 35.84 2.66
1034 1433 3.644823 TCGATCTTTTTCTGCGTGTGTA 58.355 40.909 0.00 0.00 0.00 2.90
1035 1434 2.479837 TCGATCTTTTTCTGCGTGTGT 58.520 42.857 0.00 0.00 0.00 3.72
1036 1435 3.218398 GTTCGATCTTTTTCTGCGTGTG 58.782 45.455 0.00 0.00 0.00 3.82
1037 1436 2.869801 TGTTCGATCTTTTTCTGCGTGT 59.130 40.909 0.00 0.00 0.00 4.49
1038 1437 3.218398 GTGTTCGATCTTTTTCTGCGTG 58.782 45.455 0.00 0.00 0.00 5.34
1039 1438 2.223377 GGTGTTCGATCTTTTTCTGCGT 59.777 45.455 0.00 0.00 0.00 5.24
1040 1439 2.223144 TGGTGTTCGATCTTTTTCTGCG 59.777 45.455 0.00 0.00 0.00 5.18
1041 1440 3.896648 TGGTGTTCGATCTTTTTCTGC 57.103 42.857 0.00 0.00 0.00 4.26
1045 1444 4.074970 AGCTCATGGTGTTCGATCTTTTT 58.925 39.130 0.00 0.00 0.00 1.94
1067 1466 1.627329 ACTGCTGATCCTTCTTCTGCA 59.373 47.619 0.00 5.37 43.13 4.41
1070 1469 1.627329 TGCACTGCTGATCCTTCTTCT 59.373 47.619 1.98 0.00 0.00 2.85
1071 1470 2.008329 CTGCACTGCTGATCCTTCTTC 58.992 52.381 1.98 0.00 0.00 2.87
1072 1471 1.350351 ACTGCACTGCTGATCCTTCTT 59.650 47.619 14.30 0.00 0.00 2.52
1081 1480 1.512996 CCACAAGGACTGCACTGCTG 61.513 60.000 6.37 6.37 36.89 4.41
1104 1503 4.785301 CAATAATGGGGAGAAGAGCAAGA 58.215 43.478 0.00 0.00 0.00 3.02
1236 1676 5.240121 GTGGATGCAAATCTCAAAACCAAT 58.760 37.500 0.00 0.00 0.00 3.16
1307 1747 0.942962 GATTCAGGCCATCTCTTGCG 59.057 55.000 5.01 0.00 0.00 4.85
1312 1752 1.000731 CTCCGAGATTCAGGCCATCTC 59.999 57.143 17.72 17.72 42.31 2.75
1345 1785 1.887854 CTGCATCATCACCAACCACAA 59.112 47.619 0.00 0.00 0.00 3.33
1502 1942 1.635663 CGTCGTTGTGGATGGGCTTC 61.636 60.000 0.00 0.00 0.00 3.86
1601 2041 6.476053 GCTAACTAGCAGTGGTAGTAAATCAC 59.524 42.308 29.88 15.42 44.55 3.06
1645 2085 8.566260 GGTACCTAAGCTATATGTATGTATCCG 58.434 40.741 4.06 0.00 0.00 4.18
1784 2224 3.119101 CGCATGAACTACTCCTACCAGTT 60.119 47.826 0.00 0.00 35.27 3.16
1796 2236 1.406887 GCCCCTTCTTCGCATGAACTA 60.407 52.381 0.00 0.00 0.00 2.24
1901 2341 3.640407 GCAGCCAGGACCAGGACA 61.640 66.667 7.20 0.00 0.00 4.02
1902 2342 4.767255 CGCAGCCAGGACCAGGAC 62.767 72.222 7.20 0.00 0.00 3.85
1907 2347 3.628646 AATCCACGCAGCCAGGACC 62.629 63.158 2.65 0.00 33.57 4.46
1908 2348 1.244019 AAAATCCACGCAGCCAGGAC 61.244 55.000 2.65 0.00 33.57 3.85
1909 2349 0.326595 TAAAATCCACGCAGCCAGGA 59.673 50.000 3.07 3.07 35.59 3.86
1910 2350 0.734889 CTAAAATCCACGCAGCCAGG 59.265 55.000 0.00 0.00 0.00 4.45
1911 2351 0.099436 GCTAAAATCCACGCAGCCAG 59.901 55.000 0.00 0.00 0.00 4.85
1918 2358 4.440758 CACACTTTGTTGCTAAAATCCACG 59.559 41.667 0.00 0.00 0.00 4.94
1933 2373 3.627123 TGAGGATGTTGACACACACTTTG 59.373 43.478 0.00 0.00 35.03 2.77
2028 2468 4.819088 AGAAGGAGAAAACAGAACAAGAGC 59.181 41.667 0.00 0.00 0.00 4.09
2078 2518 8.839310 AGCATCTTCTTATACATACATGAACC 57.161 34.615 0.00 0.00 0.00 3.62
2113 2555 3.920412 GCCCAAAAGAAATTAGCTTCACG 59.080 43.478 0.00 0.00 0.00 4.35
2304 2747 2.170397 CTGGCCAAAAAGGTTTCCTTGT 59.830 45.455 7.01 0.00 43.92 3.16
2312 2755 2.250924 CCATTCTCTGGCCAAAAAGGT 58.749 47.619 7.01 0.00 38.47 3.50
2367 2810 5.238650 GTCTTCCCAAAAACTTCTCGATTGA 59.761 40.000 0.00 0.00 0.00 2.57
2375 2818 3.068165 CCAGGTGTCTTCCCAAAAACTTC 59.932 47.826 0.00 0.00 0.00 3.01
2444 2889 5.112129 AGCCACCGACCTCTTTTATAAAT 57.888 39.130 0.00 0.00 0.00 1.40
2579 3026 3.054213 TCACTGGAATGAATCTGGCATCA 60.054 43.478 0.00 0.00 0.00 3.07
2640 3087 3.055602 TGGAATCCATCAGATCCGCATAG 60.056 47.826 0.00 0.00 32.47 2.23


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

AutoCloner maintained by Alex Coulton.