Multiple sequence alignment - TraesCS3B01G340700

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 TraesCS3B01G340700 chr3B 100.000 2453 0 0 1 2453 547125760 547128212 0.000000e+00 4530.0
1 TraesCS3B01G340700 chr3A 93.248 1644 81 15 2 1631 531080239 531078612 0.000000e+00 2394.0
2 TraesCS3B01G340700 chr3A 89.333 675 59 10 1785 2453 530941813 530941146 0.000000e+00 835.0
3 TraesCS3B01G340700 chr3A 96.154 52 2 0 1661 1712 531078606 531078555 4.350000e-13 86.1
4 TraesCS3B01G340700 chr3A 100.000 30 0 0 2118 2147 534330903 534330932 3.410000e-04 56.5
5 TraesCS3B01G340700 chr3D 93.010 887 40 10 758 1639 419907174 419908043 0.000000e+00 1275.0
6 TraesCS3B01G340700 chr3D 91.699 783 42 16 1 774 419906392 419907160 0.000000e+00 1064.0
7 TraesCS3B01G340700 chr3D 90.223 808 61 14 1654 2453 419929158 419929955 0.000000e+00 1038.0
8 TraesCS3B01G340700 chr3D 86.184 152 18 2 1814 1963 611670342 611670492 7.020000e-36 161.0
9 TraesCS3B01G340700 chr6D 84.694 196 28 2 2259 2453 61019535 61019729 6.920000e-46 195.0
10 TraesCS3B01G340700 chr2A 83.500 200 31 2 2255 2453 4999367 4999169 4.170000e-43 185.0
11 TraesCS3B01G340700 chr4D 87.324 142 18 0 2258 2399 51987140 51986999 1.950000e-36 163.0
12 TraesCS3B01G340700 chr4D 80.667 150 24 3 1824 1971 392498185 392498039 7.170000e-21 111.0
13 TraesCS3B01G340700 chr4D 89.157 83 9 0 2254 2336 341527395 341527477 1.200000e-18 104.0
14 TraesCS3B01G340700 chr2D 84.967 153 21 2 1824 1974 58661067 58660915 1.170000e-33 154.0
15 TraesCS3B01G340700 chr6B 80.296 203 34 2 2257 2453 564311117 564311319 5.470000e-32 148.0
16 TraesCS3B01G340700 chr4A 81.921 177 30 2 2259 2434 24955320 24955145 5.470000e-32 148.0
17 TraesCS3B01G340700 chr7A 78.325 203 36 3 2259 2453 167526717 167526515 9.210000e-25 124.0
18 TraesCS3B01G340700 chr6A 90.741 54 5 0 2375 2428 30132150 30132203 3.380000e-09 73.1


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 TraesCS3B01G340700 chr3B 547125760 547128212 2452 False 4530.00 4530 100.0000 1 2453 1 chr3B.!!$F1 2452
1 TraesCS3B01G340700 chr3A 531078555 531080239 1684 True 1240.05 2394 94.7010 2 1712 2 chr3A.!!$R2 1710
2 TraesCS3B01G340700 chr3A 530941146 530941813 667 True 835.00 835 89.3330 1785 2453 1 chr3A.!!$R1 668
3 TraesCS3B01G340700 chr3D 419906392 419908043 1651 False 1169.50 1275 92.3545 1 1639 2 chr3D.!!$F3 1638
4 TraesCS3B01G340700 chr3D 419929158 419929955 797 False 1038.00 1038 90.2230 1654 2453 1 chr3D.!!$F1 799

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
664 676 1.142748 CACTGGGCGGCTAGAAGAG 59.857 63.158 28.95 11.26 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2152 2218 0.108615 GCGTGCACACATCCTAGACT 60.109 55.0 18.64 0.0 0.0 3.24 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
28 29 8.681486 TTTCTGATAAAGTATGCATGCTATGT 57.319 30.769 18.16 8.96 0.00 2.29
81 82 4.989168 ACTGAATAAAACACGACCAGACTC 59.011 41.667 0.00 0.00 0.00 3.36
161 162 9.626045 AATTCACTTTAAAAACATAGCAGCTAC 57.374 29.630 3.59 0.00 0.00 3.58
162 163 7.979444 TCACTTTAAAAACATAGCAGCTACT 57.021 32.000 3.59 0.00 0.00 2.57
163 164 8.391075 TCACTTTAAAAACATAGCAGCTACTT 57.609 30.769 3.59 0.00 0.00 2.24
164 165 9.496873 TCACTTTAAAAACATAGCAGCTACTTA 57.503 29.630 3.59 0.00 0.00 2.24
194 195 2.807676 ACCATGGGTCTTGGAATTGAC 58.192 47.619 18.09 0.00 37.69 3.18
205 206 6.038356 GTCTTGGAATTGACCATTTGCATAG 58.962 40.000 0.00 2.81 39.82 2.23
266 267 3.183574 CGGTCTATCGATAAAAATGCGCA 59.816 43.478 14.96 14.96 0.00 6.09
274 275 3.061928 CGATAAAAATGCGCATGGAAACG 60.062 43.478 26.09 20.09 0.00 3.60
576 585 2.592308 GGTAGCAGCAGAAGGGGG 59.408 66.667 0.00 0.00 0.00 5.40
624 633 3.428797 TCGGCGAGGACGATAAGG 58.571 61.111 4.99 0.00 38.55 2.69
626 635 2.191513 CGGCGAGGACGATAAGGGA 61.192 63.158 0.00 0.00 42.66 4.20
664 676 1.142748 CACTGGGCGGCTAGAAGAG 59.857 63.158 28.95 11.26 0.00 2.85
727 745 1.345741 TCTGAAAGCCTGTCCACAGAG 59.654 52.381 8.36 0.13 46.59 3.35
1158 1217 2.126424 GCGCTCCTCGTCGTCTTT 60.126 61.111 0.00 0.00 41.07 2.52
1461 1520 1.354040 CGTGCTGCTAGGTCTTCTTG 58.646 55.000 0.00 0.00 0.00 3.02
1547 1606 4.806330 TCTCACTATTCACAACCGTTCTC 58.194 43.478 0.00 0.00 0.00 2.87
1565 1624 0.313672 TCGTTTGGTTGCATCTTGCC 59.686 50.000 0.00 0.00 44.23 4.52
1583 1642 1.342174 GCCTATCGACCGGGATTAACA 59.658 52.381 6.32 0.00 0.00 2.41
1594 1653 7.030768 CGACCGGGATTAACATTTTTGTTATT 58.969 34.615 6.32 0.00 34.66 1.40
1595 1654 7.542824 CGACCGGGATTAACATTTTTGTTATTT 59.457 33.333 6.32 0.00 34.66 1.40
1596 1655 8.541133 ACCGGGATTAACATTTTTGTTATTTG 57.459 30.769 6.32 0.00 34.66 2.32
1597 1656 8.368668 ACCGGGATTAACATTTTTGTTATTTGA 58.631 29.630 6.32 0.00 34.66 2.69
1598 1657 9.377312 CCGGGATTAACATTTTTGTTATTTGAT 57.623 29.630 0.00 0.00 34.66 2.57
1631 1690 3.568007 TGCTGGATTTAGTTGTTGGTGTC 59.432 43.478 0.00 0.00 0.00 3.67
1639 1698 2.546778 AGTTGTTGGTGTCGTACTGTG 58.453 47.619 0.00 0.00 0.00 3.66
1640 1699 2.166870 AGTTGTTGGTGTCGTACTGTGA 59.833 45.455 0.00 0.00 0.00 3.58
1641 1700 3.128349 GTTGTTGGTGTCGTACTGTGAT 58.872 45.455 0.00 0.00 0.00 3.06
1642 1701 2.749776 TGTTGGTGTCGTACTGTGATG 58.250 47.619 0.00 0.00 0.00 3.07
1643 1702 2.066262 GTTGGTGTCGTACTGTGATGG 58.934 52.381 0.00 0.00 0.00 3.51
1644 1703 0.037697 TGGTGTCGTACTGTGATGGC 60.038 55.000 0.00 0.00 0.00 4.40
1645 1704 0.739813 GGTGTCGTACTGTGATGGCC 60.740 60.000 0.00 0.00 0.00 5.36
1646 1705 0.037697 GTGTCGTACTGTGATGGCCA 60.038 55.000 8.56 8.56 0.00 5.36
1647 1706 0.682292 TGTCGTACTGTGATGGCCAA 59.318 50.000 10.96 0.00 0.00 4.52
1648 1707 1.076332 GTCGTACTGTGATGGCCAAC 58.924 55.000 10.96 8.17 0.00 3.77
1649 1708 0.389296 TCGTACTGTGATGGCCAACG 60.389 55.000 10.96 14.13 0.00 4.10
1650 1709 0.669318 CGTACTGTGATGGCCAACGT 60.669 55.000 10.96 9.69 0.00 3.99
1651 1710 0.796312 GTACTGTGATGGCCAACGTG 59.204 55.000 10.96 4.13 0.00 4.49
1652 1711 0.394938 TACTGTGATGGCCAACGTGT 59.605 50.000 10.96 10.19 0.00 4.49
1657 1716 1.810151 GTGATGGCCAACGTGTATGTT 59.190 47.619 10.96 0.00 0.00 2.71
1659 1718 0.525761 ATGGCCAACGTGTATGTTGC 59.474 50.000 10.96 7.01 46.14 4.17
1705 1764 4.380867 CCTTGGTAAATGCTTTGGCTACTG 60.381 45.833 0.00 0.00 39.59 2.74
1727 1786 4.281941 TGGCCATCATCTATAGTCACTCAC 59.718 45.833 0.00 0.00 0.00 3.51
1728 1787 4.281941 GGCCATCATCTATAGTCACTCACA 59.718 45.833 0.00 0.00 0.00 3.58
1732 1791 8.090831 GCCATCATCTATAGTCACTCACAAATA 58.909 37.037 0.00 0.00 0.00 1.40
1746 1805 6.772716 CACTCACAAATATAGGGTTGGCTATT 59.227 38.462 0.00 0.00 0.00 1.73
1821 1880 4.534647 ATGTTATAGGGGGTTGCAATGA 57.465 40.909 0.59 0.00 0.00 2.57
1836 1895 6.019559 GGTTGCAATGAAAGAAACAAACTCTC 60.020 38.462 0.59 0.00 0.00 3.20
1837 1896 5.273170 TGCAATGAAAGAAACAAACTCTCG 58.727 37.500 0.00 0.00 0.00 4.04
1846 1907 1.053424 ACAAACTCTCGCACCCCTAA 58.947 50.000 0.00 0.00 0.00 2.69
1877 1938 5.774690 TGCCACTTTTCCTCTTTGTATCATT 59.225 36.000 0.00 0.00 0.00 2.57
1880 1941 7.661040 CCACTTTTCCTCTTTGTATCATTGTT 58.339 34.615 0.00 0.00 0.00 2.83
1899 1960 1.434188 TGATGGTGGTCACTTGTCCT 58.566 50.000 0.93 0.00 0.00 3.85
1908 1969 5.280317 GGTGGTCACTTGTCCTCCTATTTAA 60.280 44.000 6.41 0.00 35.17 1.52
1913 1974 6.814146 GTCACTTGTCCTCCTATTTAAGACAG 59.186 42.308 0.00 0.00 38.58 3.51
1915 1976 5.189934 ACTTGTCCTCCTATTTAAGACAGGG 59.810 44.000 0.00 0.00 38.46 4.45
1922 1983 6.014156 CCTCCTATTTAAGACAGGGGTGATAG 60.014 46.154 0.00 0.00 0.00 2.08
2006 2069 5.565592 TCCAATGAATAACACACATGCTC 57.434 39.130 0.00 0.00 0.00 4.26
2021 2084 3.006110 ACATGCTCACCAAAATCCAACTG 59.994 43.478 0.00 0.00 0.00 3.16
2027 2090 5.048083 GCTCACCAAAATCCAACTGTGATTA 60.048 40.000 0.00 0.00 32.83 1.75
2152 2218 7.841282 TTGGTTGGTCTAATTTATGGTTGAA 57.159 32.000 0.00 0.00 0.00 2.69
2163 2229 9.838339 CTAATTTATGGTTGAAGTCTAGGATGT 57.162 33.333 0.00 0.00 0.00 3.06
2181 2247 1.737236 TGTGTGCACGCCTTATTCATC 59.263 47.619 26.63 0.00 0.00 2.92
2182 2248 1.737236 GTGTGCACGCCTTATTCATCA 59.263 47.619 19.81 0.00 0.00 3.07
2235 2301 9.582223 GCTAAGCAAAACTATAACATCGTATTC 57.418 33.333 0.00 0.00 0.00 1.75
2236 2302 9.779237 CTAAGCAAAACTATAACATCGTATTCG 57.221 33.333 0.00 0.00 38.55 3.34
2317 2383 3.217017 CCCTTCGATCTCCGCCGA 61.217 66.667 0.00 0.00 38.37 5.54
2346 2412 1.484444 GGATTCGCCTCCCCTATGCT 61.484 60.000 0.00 0.00 0.00 3.79
2349 2415 1.271840 TTCGCCTCCCCTATGCTTGT 61.272 55.000 0.00 0.00 0.00 3.16
2357 2423 1.437573 CCTATGCTTGTCGCTCCGA 59.562 57.895 0.00 0.00 40.11 4.55
2368 2434 4.008933 GCTCCGACAGCTGGTGGT 62.009 66.667 19.93 0.00 45.83 4.16
2406 2472 4.158579 TGATGCCTCGGCTTAGATATGTAG 59.841 45.833 9.65 0.00 42.51 2.74
2416 2482 8.092687 TCGGCTTAGATATGTAGGGTTTTATTC 58.907 37.037 0.00 0.00 0.00 1.75
2426 2492 3.173151 AGGGTTTTATTCCTTGCAAGGG 58.827 45.455 38.60 23.32 46.47 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 7.330946 TGGTCGTGTTTTATTCAGTTCTCATAG 59.669 37.037 0.00 0.00 0.00 2.23
65 66 1.139058 AGCAGAGTCTGGTCGTGTTTT 59.861 47.619 19.05 0.00 37.71 2.43
81 82 4.433615 AGTGAATACGATACCACAAGCAG 58.566 43.478 0.00 0.00 32.35 4.24
152 153 8.125978 TGGTTAAGTTACTTAAGTAGCTGCTA 57.874 34.615 26.64 16.31 40.44 3.49
154 155 7.201617 CCATGGTTAAGTTACTTAAGTAGCTGC 60.202 40.741 26.64 19.85 40.44 5.25
160 161 7.325725 AGACCCATGGTTAAGTTACTTAAGT 57.674 36.000 16.74 13.68 36.73 2.24
161 162 7.120726 CCAAGACCCATGGTTAAGTTACTTAAG 59.879 40.741 16.74 7.67 36.73 1.85
162 163 6.943718 CCAAGACCCATGGTTAAGTTACTTAA 59.056 38.462 12.92 12.92 35.25 1.85
163 164 6.272792 TCCAAGACCCATGGTTAAGTTACTTA 59.727 38.462 11.73 0.03 39.09 2.24
164 165 5.073965 TCCAAGACCCATGGTTAAGTTACTT 59.926 40.000 11.73 2.32 39.09 2.24
165 166 4.600111 TCCAAGACCCATGGTTAAGTTACT 59.400 41.667 11.73 0.00 39.09 2.24
166 167 4.913784 TCCAAGACCCATGGTTAAGTTAC 58.086 43.478 11.73 0.00 39.09 2.50
167 168 5.586155 TTCCAAGACCCATGGTTAAGTTA 57.414 39.130 11.73 0.00 39.09 2.24
168 169 4.463050 TTCCAAGACCCATGGTTAAGTT 57.537 40.909 11.73 0.00 39.09 2.66
194 195 3.888930 ACCGAAATACCCTATGCAAATGG 59.111 43.478 0.00 0.00 0.00 3.16
205 206 1.029681 GGCCATTGACCGAAATACCC 58.970 55.000 0.00 0.00 0.00 3.69
266 267 1.448540 CTCTGGCGCTCGTTTCCAT 60.449 57.895 7.64 0.00 0.00 3.41
274 275 1.743958 TGAACTACTACTCTGGCGCTC 59.256 52.381 7.64 0.00 0.00 5.03
278 279 6.456501 TCTTTTTCTGAACTACTACTCTGGC 58.543 40.000 0.00 0.00 0.00 4.85
380 389 1.739562 GGTGCTCAAGGACTGCTCG 60.740 63.158 1.60 0.00 36.56 5.03
616 625 0.693049 GGCCCATCATCCCTTATCGT 59.307 55.000 0.00 0.00 0.00 3.73
664 676 1.686587 CTTGAAGGGGTTGGTGTTTCC 59.313 52.381 0.00 0.00 0.00 3.13
727 745 1.032794 GCGGATCCATTTTTCCCTCC 58.967 55.000 13.41 0.00 0.00 4.30
730 748 2.894858 TGGCGGATCCATTTTTCCC 58.105 52.632 13.41 0.56 40.72 3.97
974 1027 3.411517 CGTGCCCTCCCATTCCCT 61.412 66.667 0.00 0.00 0.00 4.20
1181 1240 4.704103 AGCGGCAGGTGGAGAGGA 62.704 66.667 1.45 0.00 0.00 3.71
1207 1266 3.474570 GCGGGAGGAGATGTGGCT 61.475 66.667 0.00 0.00 0.00 4.75
1208 1267 4.899239 CGCGGGAGGAGATGTGGC 62.899 72.222 0.00 0.00 0.00 5.01
1211 1270 3.148279 GGTCGCGGGAGGAGATGT 61.148 66.667 6.13 0.00 0.00 3.06
1287 1346 1.655654 CGCGAGCATGAGGACGTAG 60.656 63.158 0.00 0.00 0.00 3.51
1565 1624 6.037830 ACAAAAATGTTAATCCCGGTCGATAG 59.962 38.462 0.00 0.00 0.00 2.08
1594 1653 6.785337 AATCCAGCATCTCAATCAAATCAA 57.215 33.333 0.00 0.00 0.00 2.57
1595 1654 6.785337 AAATCCAGCATCTCAATCAAATCA 57.215 33.333 0.00 0.00 0.00 2.57
1596 1655 7.938715 ACTAAATCCAGCATCTCAATCAAATC 58.061 34.615 0.00 0.00 0.00 2.17
1597 1656 7.893124 ACTAAATCCAGCATCTCAATCAAAT 57.107 32.000 0.00 0.00 0.00 2.32
1598 1657 7.177216 ACAACTAAATCCAGCATCTCAATCAAA 59.823 33.333 0.00 0.00 0.00 2.69
1631 1690 0.669318 ACGTTGGCCATCACAGTACG 60.669 55.000 19.47 19.47 33.54 3.67
1639 1698 1.467374 GCAACATACACGTTGGCCATC 60.467 52.381 6.09 4.57 45.21 3.51
1640 1699 0.525761 GCAACATACACGTTGGCCAT 59.474 50.000 6.09 0.00 45.21 4.40
1641 1700 1.953017 GCAACATACACGTTGGCCA 59.047 52.632 0.00 0.00 45.21 5.36
1642 1701 4.859784 GCAACATACACGTTGGCC 57.140 55.556 0.00 0.00 45.21 5.36
1644 1703 1.154301 GCGGCAACATACACGTTGG 60.154 57.895 5.99 0.00 45.21 3.77
1646 1705 1.663643 CATAGCGGCAACATACACGTT 59.336 47.619 1.45 0.00 0.00 3.99
1647 1706 1.286501 CATAGCGGCAACATACACGT 58.713 50.000 1.45 0.00 0.00 4.49
1648 1707 1.286501 ACATAGCGGCAACATACACG 58.713 50.000 1.45 0.00 0.00 4.49
1649 1708 4.750098 AGATAACATAGCGGCAACATACAC 59.250 41.667 1.45 0.00 0.00 2.90
1650 1709 4.956085 AGATAACATAGCGGCAACATACA 58.044 39.130 1.45 0.00 0.00 2.29
1651 1710 4.988540 TGAGATAACATAGCGGCAACATAC 59.011 41.667 1.45 0.00 0.00 2.39
1652 1711 5.208463 TGAGATAACATAGCGGCAACATA 57.792 39.130 1.45 0.00 0.00 2.29
1657 1716 5.643348 CCATTAATGAGATAACATAGCGGCA 59.357 40.000 17.23 0.00 0.00 5.69
1659 1718 5.065218 GGCCATTAATGAGATAACATAGCGG 59.935 44.000 17.23 0.00 0.00 5.52
1705 1764 4.281941 TGTGAGTGACTATAGATGATGGCC 59.718 45.833 6.78 0.00 0.00 5.36
1756 1815 7.830201 ACGTAAAGAGAGAGGAGATAGAAGAAA 59.170 37.037 0.00 0.00 0.00 2.52
1759 1818 7.562454 AACGTAAAGAGAGAGGAGATAGAAG 57.438 40.000 0.00 0.00 0.00 2.85
1760 1819 7.941431 AAACGTAAAGAGAGAGGAGATAGAA 57.059 36.000 0.00 0.00 0.00 2.10
1799 1858 5.654901 TCATTGCAACCCCCTATAACATA 57.345 39.130 0.00 0.00 0.00 2.29
1805 1864 3.756082 TCTTTCATTGCAACCCCCTAT 57.244 42.857 0.00 0.00 0.00 2.57
1806 1865 3.534357 TTCTTTCATTGCAACCCCCTA 57.466 42.857 0.00 0.00 0.00 3.53
1807 1866 2.368548 GTTTCTTTCATTGCAACCCCCT 59.631 45.455 0.00 0.00 0.00 4.79
1808 1867 2.103941 TGTTTCTTTCATTGCAACCCCC 59.896 45.455 0.00 0.00 0.00 5.40
1809 1868 3.467374 TGTTTCTTTCATTGCAACCCC 57.533 42.857 0.00 0.00 0.00 4.95
1821 1880 2.357952 GGGTGCGAGAGTTTGTTTCTTT 59.642 45.455 0.00 0.00 0.00 2.52
1836 1895 0.663153 GCAAGCTTATTAGGGGTGCG 59.337 55.000 0.00 0.00 0.00 5.34
1837 1896 1.032794 GGCAAGCTTATTAGGGGTGC 58.967 55.000 0.00 0.00 0.00 5.01
1846 1907 4.039603 AGAGGAAAAGTGGCAAGCTTAT 57.960 40.909 0.00 0.00 0.00 1.73
1877 1938 2.571212 GACAAGTGACCACCATCAACA 58.429 47.619 0.00 0.00 0.00 3.33
1880 1941 1.347707 GAGGACAAGTGACCACCATCA 59.652 52.381 2.72 0.00 32.26 3.07
1899 1960 5.844516 CCTATCACCCCTGTCTTAAATAGGA 59.155 44.000 0.00 0.00 38.52 2.94
1908 1969 1.646447 TGAGACCTATCACCCCTGTCT 59.354 52.381 0.00 0.00 38.90 3.41
1913 1974 0.470341 GCCTTGAGACCTATCACCCC 59.530 60.000 0.00 0.00 0.00 4.95
1915 1976 1.112113 TCGCCTTGAGACCTATCACC 58.888 55.000 0.00 0.00 0.00 4.02
1922 1983 1.734465 CAAACTCATCGCCTTGAGACC 59.266 52.381 15.44 0.00 44.88 3.85
1976 2037 5.652014 GTGTGTTATTCATTGGAATGGAGGA 59.348 40.000 0.00 0.00 43.47 3.71
2006 2069 9.874205 ATTTATAATCACAGTTGGATTTTGGTG 57.126 29.630 0.00 0.00 36.45 4.17
2072 2138 9.086336 TGTTGATTCACATTGAAAAGAAGTTTC 57.914 29.630 0.00 0.00 45.13 2.78
2122 2188 9.707957 ACCATAAATTAGACCAACCAAATATGA 57.292 29.630 0.00 0.00 0.00 2.15
2129 2195 7.007723 ACTTCAACCATAAATTAGACCAACCA 58.992 34.615 0.00 0.00 0.00 3.67
2131 2197 8.336801 AGACTTCAACCATAAATTAGACCAAC 57.663 34.615 0.00 0.00 0.00 3.77
2132 2198 9.667107 CTAGACTTCAACCATAAATTAGACCAA 57.333 33.333 0.00 0.00 0.00 3.67
2133 2199 8.265055 CCTAGACTTCAACCATAAATTAGACCA 58.735 37.037 0.00 0.00 0.00 4.02
2152 2218 0.108615 GCGTGCACACATCCTAGACT 60.109 55.000 18.64 0.00 0.00 3.24
2163 2229 2.106477 TGATGAATAAGGCGTGCACA 57.894 45.000 18.64 0.00 0.00 4.57
2230 2296 8.995906 GTTGTGTATATTGTTGCTTTCGAATAC 58.004 33.333 0.00 0.00 0.00 1.89
2235 2301 7.851822 AAAGTTGTGTATATTGTTGCTTTCG 57.148 32.000 0.00 0.00 0.00 3.46
2317 2383 1.609555 GAGGCGAATCCATAGACTCGT 59.390 52.381 0.00 0.00 43.44 4.18
2357 2423 4.320456 CTCGCCACCACCAGCTGT 62.320 66.667 13.81 0.00 0.00 4.40
2368 2434 0.758734 CATCAGGAATACCCTCGCCA 59.241 55.000 0.00 0.00 45.60 5.69
2371 2437 1.001406 GAGGCATCAGGAATACCCTCG 59.999 57.143 0.00 0.00 45.60 4.63
2385 2451 3.449018 CCTACATATCTAAGCCGAGGCAT 59.551 47.826 17.18 7.02 44.88 4.40
2416 2482 2.753043 AGCATCGCCCTTGCAAGG 60.753 61.111 34.60 34.60 46.06 3.61


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

AutoCloner maintained by Alex Coulton.