Multiple sequence alignment - TraesCS7D01G433600

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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 TraesCS7D01G433600 chr7D 100.000 2234 0 0 1 2234 553813107 553815340 0.000000e+00 4126.0
1 TraesCS7D01G433600 chr7D 88.889 783 34 30 526 1286 555188455 555189206 0.000000e+00 915.0
2 TraesCS7D01G433600 chr7D 86.891 595 41 13 23 592 553807186 553807768 1.130000e-177 632.0
3 TraesCS7D01G433600 chr7D 90.129 233 11 7 1008 1240 555192265 555192485 2.170000e-75 292.0
4 TraesCS7D01G433600 chr7D 86.301 146 8 6 379 522 555188283 555188418 4.970000e-32 148.0
5 TraesCS7D01G433600 chr7D 92.308 65 1 4 672 734 555191533 555191595 3.060000e-14 89.8
6 TraesCS7D01G433600 chr7B 86.672 1253 65 55 23 1240 600996454 600995269 0.000000e+00 1295.0
7 TraesCS7D01G433600 chr7B 91.136 440 36 3 1795 2234 600993139 600992703 5.310000e-166 593.0
8 TraesCS7D01G433600 chr7B 82.548 361 34 16 1411 1746 600993506 600993150 7.800000e-75 291.0
9 TraesCS7D01G433600 chr7B 88.841 233 11 8 1008 1240 601119004 601118787 2.830000e-69 272.0
10 TraesCS7D01G433600 chr7A 83.740 1353 76 58 26 1318 640582720 640581452 0.000000e+00 1147.0
11 TraesCS7D01G433600 chr7A 92.135 534 25 5 988 1521 640598146 640597630 0.000000e+00 737.0
12 TraesCS7D01G433600 chr7A 88.380 611 43 15 1472 2060 640581043 640580439 0.000000e+00 710.0
13 TraesCS7D01G433600 chr7A 88.100 521 20 8 226 731 640599233 640598740 4.140000e-162 580.0
14 TraesCS7D01G433600 chr7A 88.546 227 11 8 1008 1234 640666769 640666558 6.120000e-66 261.0
15 TraesCS7D01G433600 chr7A 90.152 132 10 3 2103 2234 640580441 640580313 3.820000e-38 169.0
16 TraesCS7D01G433600 chr7A 82.946 129 13 3 593 721 640583171 640583052 8.440000e-20 108.0


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 TraesCS7D01G433600 chr7D 553813107 553815340 2233 False 4126.000000 4126 100.000000 1 2234 1 chr7D.!!$F2 2233
1 TraesCS7D01G433600 chr7D 553807186 553807768 582 False 632.000000 632 86.891000 23 592 1 chr7D.!!$F1 569
2 TraesCS7D01G433600 chr7D 555188283 555192485 4202 False 361.200000 915 89.406750 379 1286 4 chr7D.!!$F3 907
3 TraesCS7D01G433600 chr7B 600992703 600996454 3751 True 726.333333 1295 86.785333 23 2234 3 chr7B.!!$R2 2211
4 TraesCS7D01G433600 chr7A 640597630 640599233 1603 True 658.500000 737 90.117500 226 1521 2 chr7A.!!$R3 1295
5 TraesCS7D01G433600 chr7A 640580313 640583171 2858 True 533.500000 1147 86.304500 26 2234 4 chr7A.!!$R2 2208

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
340 787 0.178767 CAGTCAATCGATCCAGGGCA 59.821 55.0 0.0 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2088 7123 0.458889 CATGGAGCCCAAACGCAATG 60.459 55.0 0.0 0.0 36.95 2.82 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
21 22 4.040445 CTTGTGGGCGTTATTATTTGGG 57.960 45.455 0.00 0.00 0.00 4.12
65 492 0.383949 TTTTGTTCCTTGCGTGCTCC 59.616 50.000 0.00 0.00 0.00 4.70
66 493 0.749818 TTTGTTCCTTGCGTGCTCCA 60.750 50.000 0.00 0.00 0.00 3.86
127 559 4.142988 TGTCCGTACGCAGATTTTCATTTC 60.143 41.667 10.49 0.00 0.00 2.17
132 564 6.362283 CCGTACGCAGATTTTCATTTCTTTTT 59.638 34.615 10.49 0.00 0.00 1.94
178 612 5.890424 TTTCTTTTGTGTTCTTTCGAGGT 57.110 34.783 0.00 0.00 0.00 3.85
206 641 0.890996 CCCTGAGCGACTGCCTTTTT 60.891 55.000 0.00 0.00 44.31 1.94
207 642 0.519077 CCTGAGCGACTGCCTTTTTC 59.481 55.000 0.00 0.00 44.31 2.29
208 643 1.229428 CTGAGCGACTGCCTTTTTCA 58.771 50.000 0.00 0.00 44.31 2.69
210 645 0.238553 GAGCGACTGCCTTTTTCACC 59.761 55.000 0.00 0.00 44.31 4.02
212 647 0.668535 GCGACTGCCTTTTTCACCTT 59.331 50.000 0.00 0.00 33.98 3.50
213 648 1.067060 GCGACTGCCTTTTTCACCTTT 59.933 47.619 0.00 0.00 33.98 3.11
214 649 2.481276 GCGACTGCCTTTTTCACCTTTT 60.481 45.455 0.00 0.00 33.98 2.27
215 650 3.243267 GCGACTGCCTTTTTCACCTTTTA 60.243 43.478 0.00 0.00 33.98 1.52
257 692 0.865769 CGCTGGTCGCTAAACTGTTT 59.134 50.000 10.98 10.98 36.13 2.83
340 787 0.178767 CAGTCAATCGATCCAGGGCA 59.821 55.000 0.00 0.00 0.00 5.36
385 857 3.196469 TGATCATGTGTCCCAACTCTCTC 59.804 47.826 0.00 0.00 0.00 3.20
462 940 0.684535 TCGACAGGTGCTCCATCAAA 59.315 50.000 7.70 0.00 35.89 2.69
463 941 1.071542 TCGACAGGTGCTCCATCAAAA 59.928 47.619 7.70 0.00 35.89 2.44
464 942 1.879380 CGACAGGTGCTCCATCAAAAA 59.121 47.619 7.70 0.00 35.89 1.94
465 943 2.095567 CGACAGGTGCTCCATCAAAAAG 60.096 50.000 7.70 0.00 35.89 2.27
466 944 2.229784 GACAGGTGCTCCATCAAAAAGG 59.770 50.000 7.70 0.00 35.89 3.11
660 1230 0.769247 TCTGGATCCCATGCCTCATG 59.231 55.000 9.90 0.06 41.10 3.07
661 1231 0.894184 CTGGATCCCATGCCTCATGC 60.894 60.000 9.90 0.00 40.20 4.06
741 1312 0.911769 TCTCCATCCAAGGTCGCAAT 59.088 50.000 0.00 0.00 0.00 3.56
742 1313 1.134401 TCTCCATCCAAGGTCGCAATC 60.134 52.381 0.00 0.00 0.00 2.67
743 1314 0.461870 TCCATCCAAGGTCGCAATCG 60.462 55.000 0.00 0.00 0.00 3.34
744 1315 1.353103 CATCCAAGGTCGCAATCGC 59.647 57.895 0.00 0.00 35.26 4.58
745 1316 1.078497 ATCCAAGGTCGCAATCGCA 60.078 52.632 0.00 0.00 38.40 5.10
775 1346 2.870372 GCAACCACGCCAGTCATC 59.130 61.111 0.00 0.00 0.00 2.92
776 1347 3.027170 GCAACCACGCCAGTCATCG 62.027 63.158 0.00 0.00 0.00 3.84
779 1350 4.758251 CCACGCCAGTCATCGCCA 62.758 66.667 0.00 0.00 0.00 5.69
780 1351 2.512286 CACGCCAGTCATCGCCAT 60.512 61.111 0.00 0.00 0.00 4.40
781 1352 2.108514 CACGCCAGTCATCGCCATT 61.109 57.895 0.00 0.00 0.00 3.16
782 1353 2.108514 ACGCCAGTCATCGCCATTG 61.109 57.895 0.00 0.00 0.00 2.82
783 1354 2.410469 GCCAGTCATCGCCATTGC 59.590 61.111 0.00 0.00 0.00 3.56
784 1355 2.117156 GCCAGTCATCGCCATTGCT 61.117 57.895 0.00 0.00 34.43 3.91
785 1356 2.020131 CCAGTCATCGCCATTGCTC 58.980 57.895 0.00 0.00 34.43 4.26
786 1357 1.442526 CCAGTCATCGCCATTGCTCC 61.443 60.000 0.00 0.00 34.43 4.70
806 1377 2.117156 GCCAGTCATCGCCATTGCT 61.117 57.895 0.00 0.00 34.43 3.91
851 1427 3.918220 GCCGTCGCATCGAGCAAG 61.918 66.667 7.47 0.00 46.13 4.01
899 1481 3.369471 CCTGACAATCCAATGGTACGTCT 60.369 47.826 14.91 0.00 0.00 4.18
900 1482 4.253685 CTGACAATCCAATGGTACGTCTT 58.746 43.478 14.91 0.00 0.00 3.01
916 1503 0.815734 TCTTGCGTCAGGCTAGTACC 59.184 55.000 0.74 0.00 43.72 3.34
935 1526 1.638133 CCGCTGATCTTCTGTCTGTG 58.362 55.000 0.00 0.00 0.00 3.66
936 1527 0.997932 CGCTGATCTTCTGTCTGTGC 59.002 55.000 0.00 0.00 0.00 4.57
942 1541 0.598562 TCTTCTGTCTGTGCCTCGTC 59.401 55.000 0.00 0.00 0.00 4.20
949 1548 3.647649 CTGTGCCTCGTCCGATGCA 62.648 63.158 14.23 14.23 41.96 3.96
950 1549 2.202932 GTGCCTCGTCCGATGCAT 60.203 61.111 19.63 0.00 44.80 3.96
975 1957 4.634703 TCATTGCGTGGCCGTGGT 62.635 61.111 0.00 0.00 36.15 4.16
978 1960 1.601197 ATTGCGTGGCCGTGGTTTA 60.601 52.632 0.00 0.00 36.15 2.01
979 1961 1.858372 ATTGCGTGGCCGTGGTTTAC 61.858 55.000 0.00 0.00 36.15 2.01
980 1962 2.973600 GCGTGGCCGTGGTTTACA 60.974 61.111 0.00 0.00 36.15 2.41
981 1963 2.329614 GCGTGGCCGTGGTTTACAT 61.330 57.895 0.00 0.00 36.15 2.29
982 1964 1.020333 GCGTGGCCGTGGTTTACATA 61.020 55.000 0.00 0.00 36.15 2.29
983 1965 1.003851 CGTGGCCGTGGTTTACATAG 58.996 55.000 0.00 0.00 0.00 2.23
984 1966 1.673626 CGTGGCCGTGGTTTACATAGT 60.674 52.381 0.00 0.00 0.00 2.12
985 1967 2.417107 CGTGGCCGTGGTTTACATAGTA 60.417 50.000 0.00 0.00 0.00 1.82
986 1968 3.192466 GTGGCCGTGGTTTACATAGTAG 58.808 50.000 0.00 0.00 0.00 2.57
1004 1986 7.280876 ACATAGTAGTACAATTCTTGGCATGTG 59.719 37.037 2.52 0.00 34.12 3.21
1286 2284 0.172803 CCGGTTCGTAGGTTCTCAGG 59.827 60.000 0.00 0.00 0.00 3.86
1327 2334 4.160626 AGCTGATCAAAGTACTGTAGGTCC 59.839 45.833 0.00 0.00 0.00 4.46
1423 5591 3.055963 TGGCCAAAATGTTCACATGATCC 60.056 43.478 0.61 0.00 36.56 3.36
1468 5636 7.065085 ACAAACTCATCATAATCTGGAGAAACG 59.935 37.037 0.00 0.00 0.00 3.60
1544 6538 6.992063 ATTTTCTGAAGCACTAGTACATGG 57.008 37.500 0.00 0.00 0.00 3.66
1553 6547 3.868369 GCACTAGTACATGGTGGAGCAAA 60.868 47.826 0.00 0.00 40.58 3.68
1554 6548 4.517285 CACTAGTACATGGTGGAGCAAAT 58.483 43.478 0.00 0.00 36.77 2.32
1555 6549 4.333649 CACTAGTACATGGTGGAGCAAATG 59.666 45.833 0.00 0.00 36.77 2.32
1559 6553 5.018809 AGTACATGGTGGAGCAAATGAAAT 58.981 37.500 0.00 0.00 0.00 2.17
1560 6554 4.895668 ACATGGTGGAGCAAATGAAATT 57.104 36.364 0.00 0.00 38.98 1.82
1564 6558 7.396418 ACATGGTGGAGCAAATGAAATTAATT 58.604 30.769 0.00 0.00 33.67 1.40
1582 6576 3.777106 ATTTCTGGAACTGCAGTCTGA 57.223 42.857 21.95 14.79 0.00 3.27
1610 6605 8.620416 GTGTATCTGTATGCATCAAAACCAATA 58.380 33.333 0.19 0.00 29.97 1.90
1654 6662 4.620723 TCCTATCACCTGTATCCTGTTGT 58.379 43.478 0.00 0.00 0.00 3.32
1667 6676 2.039746 TCCTGTTGTCCCTGTACCAATG 59.960 50.000 0.00 0.00 0.00 2.82
1671 6683 1.136961 TGTCCCTGTACCAATGCCCA 61.137 55.000 0.00 0.00 0.00 5.36
1683 6695 3.266772 ACCAATGCCCAATCTAGACAAGA 59.733 43.478 0.00 0.00 39.02 3.02
1685 6697 4.706476 CCAATGCCCAATCTAGACAAGAAA 59.294 41.667 0.00 0.00 37.89 2.52
1711 6724 2.906389 ACTCCAGCAGTGATAACCTCAA 59.094 45.455 0.00 0.00 35.07 3.02
1712 6725 3.055530 ACTCCAGCAGTGATAACCTCAAG 60.056 47.826 0.00 0.00 35.07 3.02
1713 6726 2.012673 CCAGCAGTGATAACCTCAAGC 58.987 52.381 0.00 0.00 37.41 4.01
1714 6727 2.355513 CCAGCAGTGATAACCTCAAGCT 60.356 50.000 0.00 0.00 44.11 3.74
1716 6729 2.012673 GCAGTGATAACCTCAAGCTGG 58.987 52.381 0.00 0.00 35.07 4.85
1765 6782 2.754552 AGGCGAAAACACATGCACATAT 59.245 40.909 0.00 0.00 0.00 1.78
1770 6787 5.731406 GCGAAAACACATGCACATATCATCT 60.731 40.000 0.00 0.00 0.00 2.90
1826 6861 1.222115 ACTCACGGCGAAGAAACTGC 61.222 55.000 16.62 0.00 0.00 4.40
1833 6868 2.037941 GCGAAGAAACTGCCAGAAAC 57.962 50.000 0.00 0.00 0.00 2.78
1882 6917 7.828223 AGGCCAAATATATTCAATTTTTGTGCA 59.172 29.630 5.01 0.00 31.24 4.57
2062 7097 3.279183 CGAGACCGCTCTTCCTGT 58.721 61.111 0.00 0.00 39.06 4.00
2068 7103 1.272769 GACCGCTCTTCCTGTAGTGTT 59.727 52.381 0.00 0.00 0.00 3.32
2071 7106 2.288825 CCGCTCTTCCTGTAGTGTTCAA 60.289 50.000 0.00 0.00 0.00 2.69
2088 7123 3.414549 TCAAAGAACCGTTTTGCTGAC 57.585 42.857 0.00 0.00 35.90 3.51
2093 7128 1.786579 GAACCGTTTTGCTGACATTGC 59.213 47.619 0.00 0.00 0.00 3.56
2109 7144 0.611618 TTGCGTTTGGGCTCCATGAT 60.612 50.000 0.00 0.00 31.53 2.45
2114 7149 3.016736 CGTTTGGGCTCCATGATAGTTT 58.983 45.455 0.00 0.00 31.53 2.66
2140 7175 2.494059 TCTGCTGGTTTCTACTGTTGC 58.506 47.619 0.00 0.00 0.00 4.17
2142 7177 2.221169 TGCTGGTTTCTACTGTTGCTG 58.779 47.619 0.00 0.00 0.00 4.41
2145 7180 3.066760 GCTGGTTTCTACTGTTGCTGTTT 59.933 43.478 0.00 0.00 0.00 2.83
2146 7181 4.601019 CTGGTTTCTACTGTTGCTGTTTG 58.399 43.478 0.00 0.00 0.00 2.93
2156 7191 2.223688 TGTTGCTGTTTGGGTTTCATCG 60.224 45.455 0.00 0.00 0.00 3.84
2189 7224 5.533903 ACCTTTCTTGCTATAATGCATCAGG 59.466 40.000 0.00 0.00 42.96 3.86
2192 7227 5.557576 TCTTGCTATAATGCATCAGGAGT 57.442 39.130 0.00 0.00 42.96 3.85
2227 7262 1.075374 CTCCTCCTCATCGGGATCTCT 59.925 57.143 0.00 0.00 34.56 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.697045 TCCCAAATAATAACGCCCACAAG 59.303 43.478 0.00 0.00 0.00 3.16
1 2 3.698289 TCCCAAATAATAACGCCCACAA 58.302 40.909 0.00 0.00 0.00 3.33
2 3 3.367646 TCCCAAATAATAACGCCCACA 57.632 42.857 0.00 0.00 0.00 4.17
4 5 7.419711 TTTTATTCCCAAATAATAACGCCCA 57.580 32.000 0.00 0.00 37.23 5.36
6 7 9.135843 GCTATTTTATTCCCAAATAATAACGCC 57.864 33.333 0.00 0.00 37.23 5.68
17 18 9.883142 CAAACCTTTATGCTATTTTATTCCCAA 57.117 29.630 0.00 0.00 0.00 4.12
18 19 9.261035 TCAAACCTTTATGCTATTTTATTCCCA 57.739 29.630 0.00 0.00 0.00 4.37
34 461 6.256757 CGCAAGGAACAAAATTCAAACCTTTA 59.743 34.615 0.00 0.00 34.63 1.85
65 492 4.738124 CATACCAGGATACGCACTATCTG 58.262 47.826 0.00 0.00 46.39 2.90
66 493 3.193691 GCATACCAGGATACGCACTATCT 59.806 47.826 0.00 0.00 46.39 1.98
178 612 1.537889 TCGCTCAGGGGGAGGAAAA 60.538 57.895 0.00 0.00 44.22 2.29
206 641 7.639378 AGCAAGGGATAAGTAATAAAAGGTGA 58.361 34.615 0.00 0.00 0.00 4.02
207 642 7.881775 AGCAAGGGATAAGTAATAAAAGGTG 57.118 36.000 0.00 0.00 0.00 4.00
208 643 7.147897 GCAAGCAAGGGATAAGTAATAAAAGGT 60.148 37.037 0.00 0.00 0.00 3.50
210 645 7.203218 GGCAAGCAAGGGATAAGTAATAAAAG 58.797 38.462 0.00 0.00 0.00 2.27
212 647 5.298276 CGGCAAGCAAGGGATAAGTAATAAA 59.702 40.000 0.00 0.00 0.00 1.40
213 648 4.819630 CGGCAAGCAAGGGATAAGTAATAA 59.180 41.667 0.00 0.00 0.00 1.40
214 649 4.385825 CGGCAAGCAAGGGATAAGTAATA 58.614 43.478 0.00 0.00 0.00 0.98
215 650 3.214328 CGGCAAGCAAGGGATAAGTAAT 58.786 45.455 0.00 0.00 0.00 1.89
246 681 8.800972 GTTGTTTTAAGTGGTAAACAGTTTAGC 58.199 33.333 23.02 23.02 42.98 3.09
257 692 3.242804 GCAGCGTGTTGTTTTAAGTGGTA 60.243 43.478 0.00 0.00 0.00 3.25
323 759 1.401905 GTTTGCCCTGGATCGATTGAC 59.598 52.381 0.00 0.00 0.00 3.18
385 857 2.388232 GCCGTCACCAAAGCTACCG 61.388 63.158 0.00 0.00 0.00 4.02
462 940 1.143684 TCTCTGCAGTGCCTTTCCTTT 59.856 47.619 14.67 0.00 0.00 3.11
463 941 0.767375 TCTCTGCAGTGCCTTTCCTT 59.233 50.000 14.67 0.00 0.00 3.36
464 942 0.324285 CTCTCTGCAGTGCCTTTCCT 59.676 55.000 14.67 0.00 0.00 3.36
465 943 1.304509 GCTCTCTGCAGTGCCTTTCC 61.305 60.000 14.67 0.00 42.31 3.13
466 944 1.633852 CGCTCTCTGCAGTGCCTTTC 61.634 60.000 14.67 0.00 43.06 2.62
765 1336 2.711311 CAATGGCGATGACTGGCG 59.289 61.111 0.00 0.00 34.03 5.69
766 1337 2.410469 GCAATGGCGATGACTGGC 59.590 61.111 0.00 0.00 0.00 4.85
783 1354 4.899239 GGCGATGACTGGCGGGAG 62.899 72.222 0.00 0.00 0.00 4.30
785 1356 4.552365 ATGGCGATGACTGGCGGG 62.552 66.667 0.00 0.00 34.03 6.13
786 1357 2.514592 AATGGCGATGACTGGCGG 60.515 61.111 0.00 0.00 34.03 6.13
806 1377 0.614812 TCAGCTGGCAGTAGCAATCA 59.385 50.000 17.16 0.00 46.07 2.57
884 1466 1.651987 CGCAAGACGTACCATTGGAT 58.348 50.000 10.37 0.00 43.02 3.41
885 1467 3.131326 CGCAAGACGTACCATTGGA 57.869 52.632 10.37 0.00 43.02 3.53
899 1481 1.895238 GGGTACTAGCCTGACGCAA 59.105 57.895 0.00 0.00 41.38 4.85
900 1482 2.412323 CGGGTACTAGCCTGACGCA 61.412 63.158 2.83 0.00 41.38 5.24
910 1497 2.950309 GACAGAAGATCAGCGGGTACTA 59.050 50.000 0.00 0.00 0.00 1.82
916 1503 1.638133 CACAGACAGAAGATCAGCGG 58.362 55.000 0.00 0.00 0.00 5.52
936 1527 1.016130 GGCATATGCATCGGACGAGG 61.016 60.000 28.07 1.60 44.36 4.63
942 1541 1.022982 ATGAGCGGCATATGCATCGG 61.023 55.000 28.07 14.93 44.36 4.18
975 1957 9.899661 ATGCCAAGAATTGTACTACTATGTAAA 57.100 29.630 0.00 0.00 46.99 2.01
978 1960 7.280876 CACATGCCAAGAATTGTACTACTATGT 59.719 37.037 0.00 0.00 46.99 2.29
979 1961 7.280876 ACACATGCCAAGAATTGTACTACTATG 59.719 37.037 0.00 0.00 46.99 2.23
980 1962 7.338710 ACACATGCCAAGAATTGTACTACTAT 58.661 34.615 0.00 0.00 46.99 2.12
981 1963 6.707290 ACACATGCCAAGAATTGTACTACTA 58.293 36.000 0.00 0.00 46.99 1.82
982 1964 5.560724 ACACATGCCAAGAATTGTACTACT 58.439 37.500 0.00 0.00 46.99 2.57
983 1965 5.880054 ACACATGCCAAGAATTGTACTAC 57.120 39.130 0.00 0.00 46.99 2.73
984 1966 6.676950 CAAACACATGCCAAGAATTGTACTA 58.323 36.000 0.00 0.00 46.99 1.82
985 1967 5.531634 CAAACACATGCCAAGAATTGTACT 58.468 37.500 0.00 0.00 46.99 2.73
986 1968 4.150451 GCAAACACATGCCAAGAATTGTAC 59.850 41.667 0.00 0.00 46.99 2.90
1327 2334 3.056821 TCACTTCAGTTCTACCCACATCG 60.057 47.826 0.00 0.00 0.00 3.84
1468 5636 4.391523 GCCACACAGATTCTCTTCTTTCTC 59.608 45.833 0.00 0.00 0.00 2.87
1522 6065 5.700832 CACCATGTACTAGTGCTTCAGAAAA 59.299 40.000 12.42 0.00 0.00 2.29
1523 6066 5.237815 CACCATGTACTAGTGCTTCAGAAA 58.762 41.667 12.42 0.00 0.00 2.52
1532 6526 3.610040 TTGCTCCACCATGTACTAGTG 57.390 47.619 5.39 0.00 0.00 2.74
1544 6538 7.818930 TCCAGAAATTAATTTCATTTGCTCCAC 59.181 33.333 32.22 10.49 46.50 4.02
1553 6547 7.899973 ACTGCAGTTCCAGAAATTAATTTCAT 58.100 30.769 32.22 19.53 46.50 2.57
1554 6548 7.231317 AGACTGCAGTTCCAGAAATTAATTTCA 59.769 33.333 32.22 16.37 46.50 2.69
1555 6549 7.540055 CAGACTGCAGTTCCAGAAATTAATTTC 59.460 37.037 26.64 26.64 44.91 2.17
1559 6553 5.620206 TCAGACTGCAGTTCCAGAAATTAA 58.380 37.500 22.65 0.00 36.67 1.40
1560 6554 5.227569 TCAGACTGCAGTTCCAGAAATTA 57.772 39.130 22.65 0.00 36.67 1.40
1564 6558 2.435805 ACTTCAGACTGCAGTTCCAGAA 59.564 45.455 22.65 19.26 36.67 3.02
1582 6576 6.658816 TGGTTTTGATGCATACAGATACACTT 59.341 34.615 0.00 0.00 0.00 3.16
1610 6605 5.465724 GGATTTCGGTTTCGTTCTATAGCAT 59.534 40.000 0.00 0.00 37.69 3.79
1654 6662 1.006813 ATTGGGCATTGGTACAGGGA 58.993 50.000 0.00 0.00 42.39 4.20
1667 6676 3.440522 GGTGTTTCTTGTCTAGATTGGGC 59.559 47.826 0.00 0.00 31.54 5.36
1671 6683 5.071788 TGGAGTGGTGTTTCTTGTCTAGATT 59.928 40.000 0.00 0.00 31.54 2.40
1707 6720 5.452078 TTGGTGTATTTTTCCAGCTTGAG 57.548 39.130 0.00 0.00 32.63 3.02
1708 6721 5.304101 ACATTGGTGTATTTTTCCAGCTTGA 59.696 36.000 0.00 0.00 36.63 3.02
1709 6722 5.540911 ACATTGGTGTATTTTTCCAGCTTG 58.459 37.500 0.00 0.00 36.63 4.01
1711 6724 5.511202 CCAACATTGGTGTATTTTTCCAGCT 60.511 40.000 0.20 0.00 43.43 4.24
1712 6725 4.690280 CCAACATTGGTGTATTTTTCCAGC 59.310 41.667 0.20 0.00 43.43 4.85
1765 6782 6.662663 TCTGAATTCTGAGACTGAAGAGATGA 59.337 38.462 10.68 0.00 0.00 2.92
1770 6787 6.462500 CCTTTCTGAATTCTGAGACTGAAGA 58.538 40.000 18.16 4.46 0.00 2.87
1826 6861 4.829492 ACTTTCAGAATTGGAGGTTTCTGG 59.171 41.667 11.51 0.99 45.69 3.86
1833 6868 6.540189 CCTGTGTATACTTTCAGAATTGGAGG 59.460 42.308 17.93 0.00 0.00 4.30
1874 6909 1.888512 GCTTGAGGAGGATGCACAAAA 59.111 47.619 0.00 0.00 36.51 2.44
1882 6917 2.438763 CTGAGGAATGCTTGAGGAGGAT 59.561 50.000 0.00 0.00 38.16 3.24
1961 6996 1.674057 GTCAGACTGTCCTGGGGTG 59.326 63.158 3.76 0.00 34.99 4.61
1962 6997 1.536662 GGTCAGACTGTCCTGGGGT 60.537 63.158 11.07 0.00 34.99 4.95
2062 7097 4.396790 AGCAAAACGGTTCTTTGAACACTA 59.603 37.500 11.75 0.00 36.12 2.74
2068 7103 2.750166 TGTCAGCAAAACGGTTCTTTGA 59.250 40.909 8.98 2.43 36.12 2.69
2071 7106 3.705604 CAATGTCAGCAAAACGGTTCTT 58.294 40.909 0.00 0.00 0.00 2.52
2088 7123 0.458889 CATGGAGCCCAAACGCAATG 60.459 55.000 0.00 0.00 36.95 2.82
2093 7128 2.332063 ACTATCATGGAGCCCAAACG 57.668 50.000 0.00 0.00 36.95 3.60
2140 7175 2.486592 GGTACCGATGAAACCCAAACAG 59.513 50.000 0.00 0.00 0.00 3.16
2142 7177 2.486592 CAGGTACCGATGAAACCCAAAC 59.513 50.000 6.18 0.00 33.53 2.93
2145 7180 1.646912 TCAGGTACCGATGAAACCCA 58.353 50.000 6.18 0.00 33.53 4.51
2146 7181 2.353323 GTTCAGGTACCGATGAAACCC 58.647 52.381 15.99 3.49 37.19 4.11
2156 7191 3.141767 AGCAAGAAAGGTTCAGGTACC 57.858 47.619 2.73 2.73 38.53 3.34
2189 7224 3.454082 AGGAGAGGATGATGGACAAACTC 59.546 47.826 0.00 0.00 36.36 3.01
2192 7227 2.774234 GGAGGAGAGGATGATGGACAAA 59.226 50.000 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.