Multiple sequence alignment - TraesCS1B01G047300

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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 TraesCS1B01G047300 chr1B 100.000 2120 0 0 1 2120 27151081 27148962 0.000000e+00 3916.0
1 TraesCS1B01G047300 chr1D 89.666 1258 74 25 888 2120 18396525 18395299 0.000000e+00 1552.0
2 TraesCS1B01G047300 chr1D 91.980 611 27 6 191 788 18397708 18397107 0.000000e+00 837.0
3 TraesCS1B01G047300 chr1D 96.316 190 5 1 1 188 18398428 18398239 5.680000e-81 311.0
4 TraesCS1B01G047300 chr1D 95.041 121 3 1 2000 2120 18391908 18391791 9.990000e-44 187.0
5 TraesCS1B01G047300 chr1A 92.109 773 37 12 873 1632 20372045 20371284 0.000000e+00 1068.0
6 TraesCS1B01G047300 chr1A 93.562 466 23 4 1658 2120 20371292 20370831 0.000000e+00 688.0
7 TraesCS1B01G047300 chr1A 94.136 324 19 0 302 625 20372802 20372479 5.260000e-136 494.0
8 TraesCS1B01G047300 chr1A 91.234 308 23 4 1 305 20399498 20399192 1.170000e-112 416.0
9 TraesCS1B01G047300 chr3A 90.323 62 3 1 2059 2120 494722177 494722235 6.270000e-11 78.7


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 TraesCS1B01G047300 chr1B 27148962 27151081 2119 True 3916.00 3916 100.00000 1 2120 1 chr1B.!!$R1 2119
1 TraesCS1B01G047300 chr1D 18391791 18398428 6637 True 721.75 1552 93.25075 1 2120 4 chr1D.!!$R1 2119
2 TraesCS1B01G047300 chr1A 20370831 20372802 1971 True 750.00 1068 93.26900 302 2120 3 chr1A.!!$R2 1818

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
619 1151 0.319641 GTCGACTCCACCTTGTCCAC 60.32 60.0 8.7 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2076 6638 1.541588 GCTTGTTAGTGGCTCCTTTGG 59.458 52.381 0.0 0.0 0.0 3.28 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
112 115 2.154798 CTTCTTGACGGCTCGGGTGA 62.155 60.000 0.00 0.00 0.00 4.02
143 146 1.132453 GAACCCTTTGCTTACGATGCC 59.868 52.381 0.00 0.00 0.00 4.40
152 155 0.861837 CTTACGATGCCGGAGAATGC 59.138 55.000 5.05 0.00 40.78 3.56
162 165 1.676916 CCGGAGAATGCTCTTGCTTGA 60.677 52.381 0.00 0.00 41.06 3.02
188 191 1.682854 CATCAATGTACCCATGCCCAC 59.317 52.381 0.00 0.00 0.00 4.61
189 192 0.393673 TCAATGTACCCATGCCCACG 60.394 55.000 0.00 0.00 0.00 4.94
201 732 3.057456 CCATGCCCACGTATCTCTACTAC 60.057 52.174 0.00 0.00 0.00 2.73
207 738 4.024218 CCCACGTATCTCTACTACGGAAAG 60.024 50.000 7.65 0.00 44.70 2.62
225 756 2.320745 AGCGAAGATCATGCATCACA 57.679 45.000 0.00 0.00 33.29 3.58
236 768 3.057386 TCATGCATCACAATTCACCACAC 60.057 43.478 0.00 0.00 0.00 3.82
250 782 2.520069 ACCACACTGTTTTGGTGTCAA 58.480 42.857 9.54 0.00 44.80 3.18
297 829 9.545105 AACAACTTGCATTTTTCAAATGAGATA 57.455 25.926 12.43 0.00 0.00 1.98
421 953 5.393461 GGAAGATTGTCATGGGCTTAACTTG 60.393 44.000 0.00 0.00 0.00 3.16
580 1112 4.546829 TGCATCTACCGTACCTTTTCTT 57.453 40.909 0.00 0.00 0.00 2.52
582 1114 3.869832 GCATCTACCGTACCTTTTCTTCC 59.130 47.826 0.00 0.00 0.00 3.46
608 1140 2.914777 GATGGCCAGCTGTCGACTCC 62.915 65.000 15.35 7.50 0.00 3.85
610 1142 2.433318 GCCAGCTGTCGACTCCAC 60.433 66.667 17.92 3.42 0.00 4.02
619 1151 0.319641 GTCGACTCCACCTTGTCCAC 60.320 60.000 8.70 0.00 0.00 4.02
620 1152 0.757561 TCGACTCCACCTTGTCCACA 60.758 55.000 0.00 0.00 0.00 4.17
639 1182 4.142026 CCACAATGTGTAATCCCGTCTCTA 60.142 45.833 12.79 0.00 0.00 2.43
645 1188 8.765219 CAATGTGTAATCCCGTCTCTAAATTAG 58.235 37.037 0.00 0.00 0.00 1.73
646 1189 7.649533 TGTGTAATCCCGTCTCTAAATTAGA 57.350 36.000 2.44 2.44 0.00 2.10
647 1190 8.246430 TGTGTAATCCCGTCTCTAAATTAGAT 57.754 34.615 2.87 0.00 33.66 1.98
648 1191 9.358406 TGTGTAATCCCGTCTCTAAATTAGATA 57.642 33.333 2.87 0.00 33.66 1.98
655 1198 9.090103 TCCCGTCTCTAAATTAGATAATCATGT 57.910 33.333 2.87 0.00 33.66 3.21
656 1199 9.144747 CCCGTCTCTAAATTAGATAATCATGTG 57.855 37.037 2.87 0.00 33.66 3.21
657 1200 9.698309 CCGTCTCTAAATTAGATAATCATGTGT 57.302 33.333 2.87 0.00 33.66 3.72
683 1226 0.737367 CGAAGAGCGTGCAATCTCCA 60.737 55.000 11.55 0.00 34.64 3.86
687 1230 1.065926 AGAGCGTGCAATCTCCAATGA 60.066 47.619 11.55 0.00 0.00 2.57
788 1331 2.774234 AGTGGGAGGTATGATGGTCTTG 59.226 50.000 0.00 0.00 0.00 3.02
789 1332 2.505819 GTGGGAGGTATGATGGTCTTGT 59.494 50.000 0.00 0.00 0.00 3.16
790 1333 2.505407 TGGGAGGTATGATGGTCTTGTG 59.495 50.000 0.00 0.00 0.00 3.33
791 1334 2.158755 GGGAGGTATGATGGTCTTGTGG 60.159 54.545 0.00 0.00 0.00 4.17
792 1335 2.505819 GGAGGTATGATGGTCTTGTGGT 59.494 50.000 0.00 0.00 0.00 4.16
793 1336 3.709653 GGAGGTATGATGGTCTTGTGGTA 59.290 47.826 0.00 0.00 0.00 3.25
794 1337 4.443034 GGAGGTATGATGGTCTTGTGGTAC 60.443 50.000 0.00 0.00 0.00 3.34
795 1338 4.101114 AGGTATGATGGTCTTGTGGTACA 58.899 43.478 0.00 0.00 0.00 2.90
796 1339 4.534500 AGGTATGATGGTCTTGTGGTACAA 59.466 41.667 0.00 0.00 44.16 2.41
797 1340 5.191722 AGGTATGATGGTCTTGTGGTACAAT 59.808 40.000 0.00 0.00 44.16 2.71
798 1341 6.385759 AGGTATGATGGTCTTGTGGTACAATA 59.614 38.462 0.00 0.00 44.16 1.90
799 1342 7.072454 AGGTATGATGGTCTTGTGGTACAATAT 59.928 37.037 0.00 0.00 44.16 1.28
800 1343 7.719633 GGTATGATGGTCTTGTGGTACAATATT 59.280 37.037 0.00 0.00 44.16 1.28
801 1344 9.120538 GTATGATGGTCTTGTGGTACAATATTT 57.879 33.333 0.00 0.00 44.16 1.40
802 1345 8.593945 ATGATGGTCTTGTGGTACAATATTTT 57.406 30.769 0.00 0.00 44.16 1.82
803 1346 7.825681 TGATGGTCTTGTGGTACAATATTTTG 58.174 34.615 0.00 0.00 44.16 2.44
805 1348 8.871629 ATGGTCTTGTGGTACAATATTTTGTA 57.128 30.769 4.82 4.82 44.22 2.41
816 1359 6.743575 ACAATATTTTGTACTCTCAGCACC 57.256 37.500 0.00 0.00 44.22 5.01
817 1360 5.648092 ACAATATTTTGTACTCTCAGCACCC 59.352 40.000 0.00 0.00 44.22 4.61
818 1361 2.561478 TTTTGTACTCTCAGCACCCC 57.439 50.000 0.00 0.00 0.00 4.95
819 1362 0.690762 TTTGTACTCTCAGCACCCCC 59.309 55.000 0.00 0.00 0.00 5.40
839 1382 2.285180 CCCCCTCCTCCTCCTCTG 59.715 72.222 0.00 0.00 0.00 3.35
840 1383 2.445654 CCCCTCCTCCTCCTCTGC 60.446 72.222 0.00 0.00 0.00 4.26
841 1384 2.366167 CCCTCCTCCTCCTCTGCA 59.634 66.667 0.00 0.00 0.00 4.41
842 1385 2.063378 CCCTCCTCCTCCTCTGCAC 61.063 68.421 0.00 0.00 0.00 4.57
843 1386 2.063378 CCTCCTCCTCCTCTGCACC 61.063 68.421 0.00 0.00 0.00 5.01
844 1387 1.001503 CTCCTCCTCCTCTGCACCT 59.998 63.158 0.00 0.00 0.00 4.00
845 1388 1.305633 TCCTCCTCCTCTGCACCTG 60.306 63.158 0.00 0.00 0.00 4.00
846 1389 2.583520 CTCCTCCTCTGCACCTGC 59.416 66.667 0.00 0.00 42.50 4.85
871 1414 7.264221 CACTGATGCATCTCTATATAAGACCC 58.736 42.308 26.32 0.00 0.00 4.46
895 1920 7.039784 CCCAGTATCTTTCACTTTCATTCCAAA 60.040 37.037 0.00 0.00 0.00 3.28
917 1942 0.400213 TTAGGGTCCTTGCACCAGTG 59.600 55.000 0.00 0.00 38.32 3.66
960 1985 4.767928 ACACCACACAAACCTTAGACAAAA 59.232 37.500 0.00 0.00 0.00 2.44
961 1986 5.105917 ACACCACACAAACCTTAGACAAAAG 60.106 40.000 0.00 0.00 0.00 2.27
965 1990 2.963101 ACAAACCTTAGACAAAAGCCCC 59.037 45.455 0.00 0.00 0.00 5.80
966 1991 3.230976 CAAACCTTAGACAAAAGCCCCT 58.769 45.455 0.00 0.00 0.00 4.79
1139 2164 1.470051 TCCATCCGTCGATCTGTTCA 58.530 50.000 0.00 0.00 0.00 3.18
1140 2165 2.031870 TCCATCCGTCGATCTGTTCAT 58.968 47.619 0.00 0.00 0.00 2.57
1161 2186 6.157211 TCATCACAGATCGATTGATGATCAG 58.843 40.000 26.39 13.50 46.81 2.90
1164 2189 5.068198 TCACAGATCGATTGATGATCAGTCA 59.932 40.000 16.54 2.75 43.73 3.41
1184 2209 5.047802 AGTCATTTGTTTCAGCCGATCAATT 60.048 36.000 0.00 0.00 0.00 2.32
1282 2315 0.818938 GTGGTGCATGCATGGATGAA 59.181 50.000 29.10 17.89 0.00 2.57
1283 2316 1.411246 GTGGTGCATGCATGGATGAAT 59.589 47.619 29.10 0.00 0.00 2.57
1284 2317 2.624364 GTGGTGCATGCATGGATGAATA 59.376 45.455 29.10 10.75 0.00 1.75
1314 2350 2.354305 GCATTGCGCTGCCTATGC 60.354 61.111 9.73 16.39 38.00 3.14
1326 2362 3.067180 GCTGCCTATGCTTGCATTTTAGA 59.933 43.478 13.52 0.00 36.79 2.10
1337 2381 5.981915 GCTTGCATTTTAGAAGGGATTGATC 59.018 40.000 0.00 0.00 0.00 2.92
1361 2405 5.815222 CGGTTGAAGTTTTCCTTTCCATTTT 59.185 36.000 0.00 0.00 32.03 1.82
1527 2579 1.986698 CAGTTGGCTACAAATGCTGC 58.013 50.000 1.24 0.00 44.33 5.25
1538 2590 1.108776 AAATGCTGCCGATGCTGATT 58.891 45.000 0.00 0.00 38.61 2.57
1562 2614 5.664457 ACACGCATGATTCTGAAGAAGATA 58.336 37.500 0.00 0.00 37.48 1.98
1563 2615 6.108687 ACACGCATGATTCTGAAGAAGATAA 58.891 36.000 0.00 0.00 37.48 1.75
1564 2616 6.257411 ACACGCATGATTCTGAAGAAGATAAG 59.743 38.462 0.00 0.00 37.48 1.73
1566 2618 7.010830 CACGCATGATTCTGAAGAAGATAAGAA 59.989 37.037 0.00 0.00 37.48 2.52
1567 2619 7.224362 ACGCATGATTCTGAAGAAGATAAGAAG 59.776 37.037 0.00 0.00 37.48 2.85
1568 2620 7.437565 CGCATGATTCTGAAGAAGATAAGAAGA 59.562 37.037 0.00 0.00 37.48 2.87
1569 2621 9.275398 GCATGATTCTGAAGAAGATAAGAAGAT 57.725 33.333 0.00 0.00 37.48 2.40
1594 2646 9.788960 ATCAAAAAGAAGATTAAATAAGACGCC 57.211 29.630 0.00 0.00 0.00 5.68
1601 2653 6.085555 AGATTAAATAAGACGCCGATCTCA 57.914 37.500 0.00 0.00 0.00 3.27
1602 2654 6.513180 AGATTAAATAAGACGCCGATCTCAA 58.487 36.000 0.00 0.00 0.00 3.02
1603 2655 5.961395 TTAAATAAGACGCCGATCTCAAC 57.039 39.130 0.00 0.00 0.00 3.18
1604 2656 3.802948 AATAAGACGCCGATCTCAACT 57.197 42.857 0.00 0.00 0.00 3.16
1605 2657 2.846039 TAAGACGCCGATCTCAACTC 57.154 50.000 0.00 0.00 0.00 3.01
1627 2679 3.513909 TGGATTATTCTGCTGGGATGG 57.486 47.619 0.00 0.00 0.00 3.51
1632 2684 0.106819 ATTCTGCTGGGATGGTGCTC 60.107 55.000 0.00 0.00 0.00 4.26
1633 2685 2.513204 CTGCTGGGATGGTGCTCG 60.513 66.667 0.00 0.00 0.00 5.03
1635 2687 2.045926 GCTGGGATGGTGCTCGTT 60.046 61.111 0.00 0.00 0.00 3.85
1641 2693 1.453155 GGATGGTGCTCGTTGACATT 58.547 50.000 0.00 0.00 0.00 2.71
1731 2783 5.945155 TGGTTTCTGTTCTTGTGTTTGTAC 58.055 37.500 0.00 0.00 0.00 2.90
1857 2909 5.012239 TGAAGTGCCTGCAAGAAGATTATT 58.988 37.500 0.00 0.00 34.07 1.40
1877 2929 5.766150 ATTTCACACGATTTTGACTTCCA 57.234 34.783 0.00 0.00 0.00 3.53
1881 2933 1.196808 CACGATTTTGACTTCCACCCG 59.803 52.381 0.00 0.00 0.00 5.28
1897 2949 3.872771 CCACCCGTTGTATTAAATAGCGT 59.127 43.478 0.00 0.00 0.00 5.07
1930 2984 1.896465 AGCAGCGACCTCTTCTAAACT 59.104 47.619 0.00 0.00 0.00 2.66
1931 2985 3.090037 AGCAGCGACCTCTTCTAAACTA 58.910 45.455 0.00 0.00 0.00 2.24
1978 3032 9.743057 ATTTATTCATGTGTTTGACGAAAAAGA 57.257 25.926 0.00 0.00 0.00 2.52
1985 3039 6.626302 TGTGTTTGACGAAAAAGAATTTCCT 58.374 32.000 0.00 0.00 37.28 3.36
1987 3041 6.972901 GTGTTTGACGAAAAAGAATTTCCTCT 59.027 34.615 0.00 0.00 37.28 3.69
2028 6590 5.789643 ACCACTGCATTACAAATTGAACT 57.210 34.783 0.00 0.00 0.00 3.01
2040 6602 8.641499 TTACAAATTGAACTAGCCAAAACAAG 57.359 30.769 0.00 0.00 0.00 3.16
2074 6636 8.216423 AGAGAAATGGCAAAGATACATGATACT 58.784 33.333 0.00 0.00 0.00 2.12
2075 6637 9.494271 GAGAAATGGCAAAGATACATGATACTA 57.506 33.333 0.00 0.00 0.00 1.82
2076 6638 9.277783 AGAAATGGCAAAGATACATGATACTAC 57.722 33.333 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
112 115 2.430694 GCAAAGGGTTCCTTCACAAGTT 59.569 45.455 0.00 0.00 43.92 2.66
143 146 1.730501 TCAAGCAAGAGCATTCTCCG 58.269 50.000 0.00 0.00 45.49 4.63
162 165 3.493334 CATGGGTACATTGATGGCTGAT 58.507 45.455 0.00 0.00 34.35 2.90
188 191 3.492383 TCGCTTTCCGTAGTAGAGATACG 59.508 47.826 0.00 0.00 44.29 3.06
189 192 5.236047 TCTTCGCTTTCCGTAGTAGAGATAC 59.764 44.000 0.00 0.00 36.01 2.24
201 732 1.009078 TGCATGATCTTCGCTTTCCG 58.991 50.000 0.00 0.00 38.61 4.30
207 738 3.620929 ATTGTGATGCATGATCTTCGC 57.379 42.857 2.46 0.00 31.55 4.70
263 795 7.517321 TGAAAAATGCAAGTTGTTTTCTTGAC 58.483 30.769 21.36 5.77 43.17 3.18
273 805 9.199982 ACTATCTCATTTGAAAAATGCAAGTTG 57.800 29.630 7.66 0.00 0.00 3.16
421 953 4.083003 TGTGCGATCTTGGGAAATTGTAAC 60.083 41.667 0.00 0.00 0.00 2.50
603 1135 2.154462 CATTGTGGACAAGGTGGAGTC 58.846 52.381 0.00 0.00 39.47 3.36
610 1142 3.443681 GGGATTACACATTGTGGACAAGG 59.556 47.826 20.33 2.74 42.66 3.61
619 1151 7.553881 AATTTAGAGACGGGATTACACATTG 57.446 36.000 0.00 0.00 0.00 2.82
620 1152 8.701895 TCTAATTTAGAGACGGGATTACACATT 58.298 33.333 1.90 0.00 0.00 2.71
671 1214 4.736793 GCTAATTTCATTGGAGATTGCACG 59.263 41.667 0.00 0.00 31.08 5.34
683 1226 9.950680 CATCGTACTTTATTGGCTAATTTCATT 57.049 29.630 0.00 0.00 0.00 2.57
687 1230 7.493320 TCGACATCGTACTTTATTGGCTAATTT 59.507 33.333 0.00 0.00 40.80 1.82
702 1245 2.572243 CGGAGCTTATCGACATCGTAC 58.428 52.381 0.54 0.00 40.80 3.67
767 1310 2.774234 CAAGACCATCATACCTCCCACT 59.226 50.000 0.00 0.00 0.00 4.00
794 1337 5.066505 GGGGTGCTGAGAGTACAAAATATTG 59.933 44.000 0.00 0.00 42.46 1.90
795 1338 5.193679 GGGGTGCTGAGAGTACAAAATATT 58.806 41.667 0.00 0.00 32.12 1.28
796 1339 4.385310 GGGGGTGCTGAGAGTACAAAATAT 60.385 45.833 0.00 0.00 32.12 1.28
797 1340 3.054655 GGGGGTGCTGAGAGTACAAAATA 60.055 47.826 0.00 0.00 32.12 1.40
798 1341 2.290960 GGGGGTGCTGAGAGTACAAAAT 60.291 50.000 0.00 0.00 32.12 1.82
799 1342 1.073284 GGGGGTGCTGAGAGTACAAAA 59.927 52.381 0.00 0.00 32.12 2.44
800 1343 0.690762 GGGGGTGCTGAGAGTACAAA 59.309 55.000 0.00 0.00 32.12 2.83
801 1344 2.372852 GGGGGTGCTGAGAGTACAA 58.627 57.895 0.00 0.00 32.12 2.41
802 1345 4.130255 GGGGGTGCTGAGAGTACA 57.870 61.111 0.00 0.00 32.12 2.90
822 1365 2.285180 CAGAGGAGGAGGAGGGGG 59.715 72.222 0.00 0.00 0.00 5.40
823 1366 2.445654 GCAGAGGAGGAGGAGGGG 60.446 72.222 0.00 0.00 0.00 4.79
824 1367 2.063378 GTGCAGAGGAGGAGGAGGG 61.063 68.421 0.00 0.00 0.00 4.30
825 1368 2.063378 GGTGCAGAGGAGGAGGAGG 61.063 68.421 0.00 0.00 0.00 4.30
826 1369 1.001503 AGGTGCAGAGGAGGAGGAG 59.998 63.158 0.00 0.00 0.00 3.69
827 1370 1.305633 CAGGTGCAGAGGAGGAGGA 60.306 63.158 0.00 0.00 0.00 3.71
828 1371 3.028921 GCAGGTGCAGAGGAGGAGG 62.029 68.421 0.00 0.00 41.59 4.30
829 1372 2.583520 GCAGGTGCAGAGGAGGAG 59.416 66.667 0.00 0.00 41.59 3.69
845 1388 6.756074 GGTCTTATATAGAGATGCATCAGTGC 59.244 42.308 27.81 13.88 41.94 4.40
846 1389 7.093596 TGGGTCTTATATAGAGATGCATCAGTG 60.094 40.741 27.81 7.78 32.23 3.66
847 1390 6.956435 TGGGTCTTATATAGAGATGCATCAGT 59.044 38.462 27.81 16.50 32.23 3.41
848 1391 7.123997 ACTGGGTCTTATATAGAGATGCATCAG 59.876 40.741 27.81 13.82 32.23 2.90
849 1392 6.956435 ACTGGGTCTTATATAGAGATGCATCA 59.044 38.462 27.81 8.60 32.23 3.07
850 1393 7.416964 ACTGGGTCTTATATAGAGATGCATC 57.583 40.000 19.37 19.37 32.23 3.91
851 1394 9.142014 GATACTGGGTCTTATATAGAGATGCAT 57.858 37.037 0.00 0.00 32.23 3.96
852 1395 8.340002 AGATACTGGGTCTTATATAGAGATGCA 58.660 37.037 0.00 0.00 32.23 3.96
853 1396 8.760980 AGATACTGGGTCTTATATAGAGATGC 57.239 38.462 0.00 0.00 32.23 3.91
862 1405 9.042450 TGAAAGTGAAAGATACTGGGTCTTATA 57.958 33.333 0.00 0.00 34.97 0.98
863 1406 7.918076 TGAAAGTGAAAGATACTGGGTCTTAT 58.082 34.615 0.00 0.00 34.97 1.73
864 1407 7.311092 TGAAAGTGAAAGATACTGGGTCTTA 57.689 36.000 0.00 0.00 34.97 2.10
865 1408 6.187727 TGAAAGTGAAAGATACTGGGTCTT 57.812 37.500 0.00 0.00 37.52 3.01
866 1409 5.825593 TGAAAGTGAAAGATACTGGGTCT 57.174 39.130 0.00 0.00 0.00 3.85
867 1410 6.094186 GGAATGAAAGTGAAAGATACTGGGTC 59.906 42.308 0.00 0.00 0.00 4.46
868 1411 5.946377 GGAATGAAAGTGAAAGATACTGGGT 59.054 40.000 0.00 0.00 0.00 4.51
869 1412 5.945784 TGGAATGAAAGTGAAAGATACTGGG 59.054 40.000 0.00 0.00 0.00 4.45
870 1413 7.452880 TTGGAATGAAAGTGAAAGATACTGG 57.547 36.000 0.00 0.00 0.00 4.00
871 1414 9.748708 TTTTTGGAATGAAAGTGAAAGATACTG 57.251 29.630 0.00 0.00 0.00 2.74
895 1920 2.110011 ACTGGTGCAAGGACCCTAATTT 59.890 45.455 8.33 0.00 34.79 1.82
917 1942 5.518847 GGTGTTCCTTTTACACAAAAGCTTC 59.481 40.000 0.00 0.00 46.23 3.86
1057 2082 0.835941 ATGTAGAGCTTGGCCCTCTG 59.164 55.000 17.54 0.00 39.83 3.35
1139 2164 6.099159 ACTGATCATCAATCGATCTGTGAT 57.901 37.500 15.16 15.16 45.07 3.06
1140 2165 5.068198 TGACTGATCATCAATCGATCTGTGA 59.932 40.000 14.76 0.00 46.07 3.58
1152 2177 5.106038 GGCTGAAACAAATGACTGATCATCA 60.106 40.000 0.00 3.08 45.26 3.07
1161 2186 3.829886 TGATCGGCTGAAACAAATGAC 57.170 42.857 0.00 0.00 0.00 3.06
1164 2189 4.463891 AGGAATTGATCGGCTGAAACAAAT 59.536 37.500 17.92 12.25 31.71 2.32
1265 2298 3.508402 TGATATTCATCCATGCATGCACC 59.492 43.478 25.37 0.00 0.00 5.01
1314 2350 6.204359 CGATCAATCCCTTCTAAAATGCAAG 58.796 40.000 0.00 0.00 0.00 4.01
1326 2362 3.721087 ACTTCAACCGATCAATCCCTT 57.279 42.857 0.00 0.00 0.00 3.95
1337 2381 4.584327 ATGGAAAGGAAAACTTCAACCG 57.416 40.909 0.00 0.00 38.85 4.44
1527 2579 2.676744 TGCGTGTAATCAGCATCGG 58.323 52.632 0.00 0.00 35.81 4.18
1538 2590 5.072040 TCTTCTTCAGAATCATGCGTGTA 57.928 39.130 5.68 0.00 33.01 2.90
1568 2620 9.788960 GGCGTCTTATTTAATCTTCTTTTTGAT 57.211 29.630 0.00 0.00 0.00 2.57
1569 2621 7.960738 CGGCGTCTTATTTAATCTTCTTTTTGA 59.039 33.333 0.00 0.00 0.00 2.69
1570 2622 7.960738 TCGGCGTCTTATTTAATCTTCTTTTTG 59.039 33.333 6.85 0.00 0.00 2.44
1573 2625 7.711339 AGATCGGCGTCTTATTTAATCTTCTTT 59.289 33.333 6.85 0.00 0.00 2.52
1594 2646 6.128607 GCAGAATAATCCATGAGTTGAGATCG 60.129 42.308 0.00 0.00 0.00 3.69
1601 2653 4.166725 TCCCAGCAGAATAATCCATGAGTT 59.833 41.667 0.00 0.00 0.00 3.01
1602 2654 3.718434 TCCCAGCAGAATAATCCATGAGT 59.282 43.478 0.00 0.00 0.00 3.41
1603 2655 4.362470 TCCCAGCAGAATAATCCATGAG 57.638 45.455 0.00 0.00 0.00 2.90
1604 2656 4.507869 CCATCCCAGCAGAATAATCCATGA 60.508 45.833 0.00 0.00 0.00 3.07
1605 2657 3.762288 CCATCCCAGCAGAATAATCCATG 59.238 47.826 0.00 0.00 0.00 3.66
1627 2679 4.928661 AGATTACAATGTCAACGAGCAC 57.071 40.909 0.00 0.00 0.00 4.40
1632 2684 9.087424 TCTTCAGATTAGATTACAATGTCAACG 57.913 33.333 0.00 0.00 0.00 4.10
1641 2693 9.453572 AAAGCAACATCTTCAGATTAGATTACA 57.546 29.630 0.00 0.00 30.05 2.41
1857 2909 3.314080 GGTGGAAGTCAAAATCGTGTGAA 59.686 43.478 0.00 0.00 0.00 3.18
1877 2929 3.310501 GCACGCTATTTAATACAACGGGT 59.689 43.478 0.00 0.00 0.00 5.28
1881 2933 6.073222 AGGCATAGCACGCTATTTAATACAAC 60.073 38.462 8.84 0.00 37.16 3.32
1913 2965 6.715718 TGCTATATAGTTTAGAAGAGGTCGCT 59.284 38.462 11.38 0.00 0.00 4.93
1952 3006 9.743057 TCTTTTTCGTCAAACACATGAATAAAT 57.257 25.926 0.00 0.00 0.00 1.40
2028 6590 6.119536 TCTCTCTTTTGTCTTGTTTTGGCTA 58.880 36.000 0.00 0.00 0.00 3.93
2040 6602 6.076981 TCTTTGCCATTTCTCTCTTTTGTC 57.923 37.500 0.00 0.00 0.00 3.18
2074 6636 3.809324 GCTTGTTAGTGGCTCCTTTGGTA 60.809 47.826 0.00 0.00 0.00 3.25
2075 6637 2.863809 CTTGTTAGTGGCTCCTTTGGT 58.136 47.619 0.00 0.00 0.00 3.67
2076 6638 1.541588 GCTTGTTAGTGGCTCCTTTGG 59.458 52.381 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.