Multiple sequence alignment - TraesCS1D01G426900

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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 TraesCS1D01G426900 chr1D 100.000 2367 0 0 1 2367 479751826 479749460 0.000000e+00 4372.0
1 TraesCS1D01G426900 chr1D 88.465 2436 185 44 6 2367 479760415 479758002 0.000000e+00 2854.0
2 TraesCS1D01G426900 chr1D 93.023 301 19 1 2069 2367 479722102 479721802 2.790000e-119 438.0
3 TraesCS1D01G426900 chr1D 86.220 254 29 1 1018 1271 479687741 479687988 1.080000e-68 270.0
4 TraesCS1D01G426900 chr1D 93.919 148 9 0 1894 2041 479722323 479722176 8.510000e-55 224.0
5 TraesCS1D01G426900 chr1D 80.296 203 37 3 602 802 479738287 479738086 1.470000e-32 150.0
6 TraesCS1D01G426900 chr1D 83.740 123 16 3 1538 1657 479737354 479737233 1.920000e-21 113.0
7 TraesCS1D01G426900 chr1D 84.158 101 5 5 1344 1442 479737493 479737402 1.170000e-13 87.9
8 TraesCS1D01G426900 chr1A 88.523 2431 172 48 1 2367 576204571 576202184 0.000000e+00 2844.0
9 TraesCS1D01G426900 chr1A 86.209 1675 148 41 52 1655 576140155 576138493 0.000000e+00 1736.0
10 TraesCS1D01G426900 chr1A 91.433 677 38 7 1691 2367 576138494 576137838 0.000000e+00 911.0
11 TraesCS1D01G426900 chr1A 82.670 427 52 14 1028 1442 576078221 576077805 2.240000e-95 359.0
12 TraesCS1D01G426900 chr1A 79.032 248 40 10 539 775 576078693 576078447 2.440000e-35 159.0
13 TraesCS1D01G426900 chr1A 83.740 123 16 3 1538 1657 576077757 576077636 1.920000e-21 113.0
14 TraesCS1D01G426900 chr1B 90.134 1419 98 16 970 2366 667975788 667974390 0.000000e+00 1807.0
15 TraesCS1D01G426900 chr1B 87.074 1261 118 30 582 1812 667930504 667931749 0.000000e+00 1384.0
16 TraesCS1D01G426900 chr1B 86.758 944 83 30 1 923 668032026 668031104 0.000000e+00 1013.0
17 TraesCS1D01G426900 chr1B 87.060 881 58 19 987 1814 667997259 667996382 0.000000e+00 944.0
18 TraesCS1D01G426900 chr1B 86.972 852 85 19 987 1820 668031092 668030249 0.000000e+00 935.0
19 TraesCS1D01G426900 chr1B 88.395 698 54 9 2 679 667976876 667976186 0.000000e+00 815.0
20 TraesCS1D01G426900 chr1B 92.435 542 40 1 1827 2367 668029994 668029453 0.000000e+00 773.0
21 TraesCS1D01G426900 chr1B 90.744 551 38 10 1823 2363 667932022 667932569 0.000000e+00 723.0
22 TraesCS1D01G426900 chr1B 92.644 435 27 2 1815 2249 667996255 667995826 2.580000e-174 621.0
23 TraesCS1D01G426900 chr1B 87.867 511 39 3 9 496 667929956 667930466 1.580000e-161 579.0
24 TraesCS1D01G426900 chr1B 92.857 350 23 2 3 352 667998715 667998368 7.550000e-140 507.0
25 TraesCS1D01G426900 chr1B 82.343 606 64 29 338 923 667997851 667997269 9.830000e-134 486.0
26 TraesCS1D01G426900 chr1B 76.651 878 127 48 610 1442 667965312 667966156 4.710000e-112 414.0
27 TraesCS1D01G426900 chr1B 88.710 248 22 1 1024 1271 667918573 667918332 4.950000e-77 298.0
28 TraesCS1D01G426900 chr1B 93.023 86 6 0 2282 2367 667995558 667995473 2.470000e-25 126.0
29 TraesCS1D01G426900 chr1B 86.000 100 7 5 816 908 667975888 667975789 1.500000e-17 100.0


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 TraesCS1D01G426900 chr1D 479749460 479751826 2366 True 4372.000000 4372 100.000000 1 2367 1 chr1D.!!$R1 2366
1 TraesCS1D01G426900 chr1D 479758002 479760415 2413 True 2854.000000 2854 88.465000 6 2367 1 chr1D.!!$R2 2361
2 TraesCS1D01G426900 chr1D 479721802 479722323 521 True 331.000000 438 93.471000 1894 2367 2 chr1D.!!$R3 473
3 TraesCS1D01G426900 chr1A 576202184 576204571 2387 True 2844.000000 2844 88.523000 1 2367 1 chr1A.!!$R1 2366
4 TraesCS1D01G426900 chr1A 576137838 576140155 2317 True 1323.500000 1736 88.821000 52 2367 2 chr1A.!!$R3 2315
5 TraesCS1D01G426900 chr1A 576077636 576078693 1057 True 210.333333 359 81.814000 539 1657 3 chr1A.!!$R2 1118
6 TraesCS1D01G426900 chr1B 667974390 667976876 2486 True 907.333333 1807 88.176333 2 2366 3 chr1B.!!$R2 2364
7 TraesCS1D01G426900 chr1B 668029453 668032026 2573 True 907.000000 1013 88.721667 1 2367 3 chr1B.!!$R4 2366
8 TraesCS1D01G426900 chr1B 667929956 667932569 2613 False 895.333333 1384 88.561667 9 2363 3 chr1B.!!$F2 2354
9 TraesCS1D01G426900 chr1B 667995473 667998715 3242 True 536.800000 944 89.585400 3 2367 5 chr1B.!!$R3 2364
10 TraesCS1D01G426900 chr1B 667965312 667966156 844 False 414.000000 414 76.651000 610 1442 1 chr1B.!!$F1 832

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
665 1300 0.034186 AGGATGCCAAGGCGATTCAA 60.034 50.0 6.6 0.0 45.51 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1821 3062 0.179067 TAAGCCGTAAATGCTCCCCG 60.179 55.0 0.0 0.0 38.34 5.73 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
53 56 6.094048 TGCACTAAATTGTTGGAGCTAGATTC 59.906 38.462 0.00 0.00 33.83 2.52
104 107 6.836007 AGTAAGATATATCCTGGATCGCATGA 59.164 38.462 13.54 0.00 0.00 3.07
118 121 1.865788 GCATGACCAACACGCACCAT 61.866 55.000 0.00 0.00 37.65 3.55
119 122 0.597568 CATGACCAACACGCACCATT 59.402 50.000 0.00 0.00 0.00 3.16
188 191 5.824904 AGCGACATGATGCTCTTAAAATT 57.175 34.783 10.03 0.00 36.53 1.82
276 332 7.159372 GGAGATTTGTAAGGTACACTCAAGAA 58.841 38.462 0.00 0.00 38.63 2.52
278 334 8.974060 AGATTTGTAAGGTACACTCAAGAAAA 57.026 30.769 0.00 0.00 38.63 2.29
285 341 7.404671 AAGGTACACTCAAGAAAACAACAAT 57.595 32.000 0.00 0.00 0.00 2.71
580 1183 5.241064 TGTCTCAACTTTAACTACGAGAGCT 59.759 40.000 0.00 0.00 30.57 4.09
582 1185 6.088350 GTCTCAACTTTAACTACGAGAGCTTG 59.912 42.308 0.00 0.00 30.57 4.01
665 1300 0.034186 AGGATGCCAAGGCGATTCAA 60.034 50.000 6.60 0.00 45.51 2.69
680 1315 0.467290 TTCAAGACGCAAAAGGGCCT 60.467 50.000 0.00 0.00 0.00 5.19
684 1319 1.534729 AGACGCAAAAGGGCCTAAAG 58.465 50.000 6.41 0.00 0.00 1.85
688 1323 1.824852 CGCAAAAGGGCCTAAAGGATT 59.175 47.619 6.41 0.00 37.39 3.01
783 1418 0.394938 TCGTGCTGGCCTTCTGTTTA 59.605 50.000 3.32 0.00 0.00 2.01
806 1441 9.442062 TTTAAAAATTCCTCTAGTTTTTCCCCT 57.558 29.630 4.54 0.00 36.67 4.79
807 1442 7.540474 AAAAATTCCTCTAGTTTTTCCCCTC 57.460 36.000 0.00 0.00 31.46 4.30
808 1443 4.864483 ATTCCTCTAGTTTTTCCCCTCC 57.136 45.455 0.00 0.00 0.00 4.30
809 1444 3.285290 TCCTCTAGTTTTTCCCCTCCA 57.715 47.619 0.00 0.00 0.00 3.86
810 1445 2.910977 TCCTCTAGTTTTTCCCCTCCAC 59.089 50.000 0.00 0.00 0.00 4.02
811 1446 2.913617 CCTCTAGTTTTTCCCCTCCACT 59.086 50.000 0.00 0.00 0.00 4.00
814 1610 1.137697 AGTTTTTCCCCTCCACTCGT 58.862 50.000 0.00 0.00 0.00 4.18
830 1630 5.047306 TCCACTCGTACATTATCATCCATCC 60.047 44.000 0.00 0.00 0.00 3.51
857 1666 1.065854 CCCAAAGCTGAATCGTCCTCT 60.066 52.381 0.00 0.00 0.00 3.69
886 1712 7.101652 CTATAAGTAGCACCTCTTCTCACAA 57.898 40.000 0.00 0.00 0.00 3.33
893 1723 3.879892 GCACCTCTTCTCACAACTTCTTT 59.120 43.478 0.00 0.00 0.00 2.52
894 1724 4.260948 GCACCTCTTCTCACAACTTCTTTG 60.261 45.833 0.00 0.00 41.49 2.77
908 1738 3.245016 ACTTCTTTGCCATCCATCTCACA 60.245 43.478 0.00 0.00 0.00 3.58
909 1739 3.438216 TCTTTGCCATCCATCTCACAA 57.562 42.857 0.00 0.00 0.00 3.33
910 1740 3.349927 TCTTTGCCATCCATCTCACAAG 58.650 45.455 0.00 0.00 0.00 3.16
911 1741 1.466856 TTGCCATCCATCTCACAAGC 58.533 50.000 0.00 0.00 0.00 4.01
912 1742 0.328926 TGCCATCCATCTCACAAGCA 59.671 50.000 0.00 0.00 0.00 3.91
913 1743 1.022735 GCCATCCATCTCACAAGCAG 58.977 55.000 0.00 0.00 0.00 4.24
914 1744 1.022735 CCATCCATCTCACAAGCAGC 58.977 55.000 0.00 0.00 0.00 5.25
915 1745 1.022735 CATCCATCTCACAAGCAGCC 58.977 55.000 0.00 0.00 0.00 4.85
916 1746 0.622136 ATCCATCTCACAAGCAGCCA 59.378 50.000 0.00 0.00 0.00 4.75
917 1747 0.401356 TCCATCTCACAAGCAGCCAA 59.599 50.000 0.00 0.00 0.00 4.52
918 1748 0.524862 CCATCTCACAAGCAGCCAAC 59.475 55.000 0.00 0.00 0.00 3.77
919 1749 1.241165 CATCTCACAAGCAGCCAACA 58.759 50.000 0.00 0.00 0.00 3.33
920 1750 1.816835 CATCTCACAAGCAGCCAACAT 59.183 47.619 0.00 0.00 0.00 2.71
921 1751 1.527034 TCTCACAAGCAGCCAACATC 58.473 50.000 0.00 0.00 0.00 3.06
922 1752 0.524862 CTCACAAGCAGCCAACATCC 59.475 55.000 0.00 0.00 0.00 3.51
923 1753 0.178995 TCACAAGCAGCCAACATCCA 60.179 50.000 0.00 0.00 0.00 3.41
924 1754 0.675083 CACAAGCAGCCAACATCCAA 59.325 50.000 0.00 0.00 0.00 3.53
925 1755 1.068895 CACAAGCAGCCAACATCCAAA 59.931 47.619 0.00 0.00 0.00 3.28
926 1756 1.069049 ACAAGCAGCCAACATCCAAAC 59.931 47.619 0.00 0.00 0.00 2.93
927 1757 0.314935 AAGCAGCCAACATCCAAACG 59.685 50.000 0.00 0.00 0.00 3.60
928 1758 0.823356 AGCAGCCAACATCCAAACGT 60.823 50.000 0.00 0.00 0.00 3.99
929 1759 0.878416 GCAGCCAACATCCAAACGTA 59.122 50.000 0.00 0.00 0.00 3.57
930 1760 1.135689 GCAGCCAACATCCAAACGTAG 60.136 52.381 0.00 0.00 0.00 3.51
950 1780 7.664758 ACGTAGTTCAGGTCATAAGTTAAAGT 58.335 34.615 0.00 0.00 37.78 2.66
951 1781 8.796475 ACGTAGTTCAGGTCATAAGTTAAAGTA 58.204 33.333 0.00 0.00 37.78 2.24
952 1782 9.798994 CGTAGTTCAGGTCATAAGTTAAAGTAT 57.201 33.333 0.00 0.00 0.00 2.12
960 1790 9.930693 AGGTCATAAGTTAAAGTATATAGCAGC 57.069 33.333 0.00 0.00 0.00 5.25
961 1791 9.930693 GGTCATAAGTTAAAGTATATAGCAGCT 57.069 33.333 0.00 0.00 0.00 4.24
985 1876 3.328382 TTGTCGATCGAGGAACCAATT 57.672 42.857 20.09 0.00 0.00 2.32
1022 1913 0.179150 GCTTCTCTGTCGATGAGCGT 60.179 55.000 11.91 0.00 41.80 5.07
1107 2010 2.616330 CGACCGCTGGCACAACATT 61.616 57.895 0.00 0.00 38.70 2.71
1287 2190 2.165301 GTACGACCGCCATCACTGC 61.165 63.158 0.00 0.00 0.00 4.40
1288 2191 2.641277 TACGACCGCCATCACTGCA 61.641 57.895 0.00 0.00 0.00 4.41
1310 2216 5.632347 GCATTTCTTATCAGTTATGCATGGC 59.368 40.000 10.16 1.52 37.60 4.40
1311 2217 6.516194 GCATTTCTTATCAGTTATGCATGGCT 60.516 38.462 10.16 4.13 37.60 4.75
1315 2224 7.734924 TCTTATCAGTTATGCATGGCTTTAG 57.265 36.000 10.16 0.00 0.00 1.85
1317 2226 3.554934 TCAGTTATGCATGGCTTTAGGG 58.445 45.455 10.16 0.00 0.00 3.53
1319 2228 3.701040 CAGTTATGCATGGCTTTAGGGTT 59.299 43.478 10.16 0.00 0.00 4.11
1322 2231 1.544724 TGCATGGCTTTAGGGTTGAC 58.455 50.000 0.00 0.00 0.00 3.18
1341 2253 6.371389 GTTGACTTAAGCTGGTATTTGTGAC 58.629 40.000 1.29 0.00 0.00 3.67
1377 2293 3.483421 TGAAGATCTAGGCGGTAATCGA 58.517 45.455 0.00 0.00 42.43 3.59
1425 2341 1.667724 CACAGATGGATTGAACGGAGC 59.332 52.381 0.00 0.00 0.00 4.70
1427 2343 2.092753 ACAGATGGATTGAACGGAGCAT 60.093 45.455 0.00 0.00 0.00 3.79
1429 2345 2.437281 AGATGGATTGAACGGAGCATCT 59.563 45.455 0.00 0.00 33.73 2.90
1471 2393 9.305925 GTACCTTGTAATACTTATAAGCGTGTT 57.694 33.333 12.54 2.71 34.26 3.32
1481 2403 2.831685 TAAGCGTGTTCATGGTGTCT 57.168 45.000 0.00 0.00 0.00 3.41
1572 2501 7.172190 GCATGCATGTTCATAATACTCTAGTGT 59.828 37.037 26.79 2.57 0.00 3.55
1586 2529 4.571580 ACTCTAGTGTCTAGATGTACGTGC 59.428 45.833 0.00 0.00 0.00 5.34
1621 2564 4.571919 TCCTTACTCACATGGGTTTAACG 58.428 43.478 0.00 0.00 0.00 3.18
1684 2633 8.382030 TCCTTATATTATTGTCTGCACATGTG 57.618 34.615 21.83 21.83 30.55 3.21
1705 2654 6.840527 TGTGACCATATGTCCATATCAATGT 58.159 36.000 1.24 0.00 43.78 2.71
1738 2695 7.754069 ATTGATGTTAACGCCAAATATGTTG 57.246 32.000 13.91 0.00 0.00 3.33
1740 2697 4.505313 TGTTAACGCCAAATATGTTGCA 57.495 36.364 0.26 0.00 0.00 4.08
1749 2706 3.735240 CCAAATATGTTGCACACACACAC 59.265 43.478 4.23 0.00 38.61 3.82
2117 3519 2.335712 CCCTTCTGCCCGTTGAAGC 61.336 63.158 0.00 0.00 38.55 3.86
2119 3521 2.282180 TTCTGCCCGTTGAAGCCC 60.282 61.111 0.00 0.00 0.00 5.19
2122 3524 1.077787 CTGCCCGTTGAAGCCCATA 60.078 57.895 0.00 0.00 0.00 2.74
2216 3618 0.918258 TGGATCATGCTAGGCAACCA 59.082 50.000 0.00 2.38 43.62 3.67
2259 3670 1.909986 GGTTTCCAGAGGTAAGCTCCT 59.090 52.381 0.00 0.00 40.97 3.69
2273 3686 3.413105 AGCTCCTCCCTAGTTGAGAAT 57.587 47.619 7.84 0.00 31.26 2.40
2280 3919 4.697352 CCTCCCTAGTTGAGAATTGTTGTG 59.303 45.833 7.84 0.00 31.26 3.33
2336 3975 4.403432 CCTATGTGGCAAAATGGTCAAGAT 59.597 41.667 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 107 1.754226 AGAAAAATGGTGCGTGTTGGT 59.246 42.857 0.00 0.00 0.00 3.67
118 121 4.125124 TGGGAATCCATCACCAGAAAAA 57.875 40.909 0.09 0.00 38.32 1.94
119 122 3.824001 TGGGAATCCATCACCAGAAAA 57.176 42.857 0.09 0.00 38.32 2.29
244 300 8.164070 AGTGTACCTTACAAATCTCCATTCTTT 58.836 33.333 0.00 0.00 40.93 2.52
259 315 7.311364 TGTTGTTTTCTTGAGTGTACCTTAC 57.689 36.000 0.00 0.00 0.00 2.34
276 332 4.202161 TGCGGTAATGTTGGATTGTTGTTT 60.202 37.500 0.00 0.00 0.00 2.83
278 334 2.887783 TGCGGTAATGTTGGATTGTTGT 59.112 40.909 0.00 0.00 0.00 3.32
285 341 5.592282 ACATATTTGATGCGGTAATGTTGGA 59.408 36.000 0.00 0.00 0.00 3.53
412 1014 7.523293 TTTGAAGTGTTCATGTACATCCATT 57.477 32.000 5.07 2.37 39.84 3.16
459 1061 7.547227 AGTGAATCAAAGCTTTTTGTTACACT 58.453 30.769 9.53 15.85 36.19 3.55
500 1103 7.344612 AGGTTTCCCTTCAGTCATTTAAAACTT 59.655 33.333 0.00 0.00 38.13 2.66
501 1104 6.839134 AGGTTTCCCTTCAGTCATTTAAAACT 59.161 34.615 0.00 0.00 38.13 2.66
502 1105 7.014326 AGAGGTTTCCCTTCAGTCATTTAAAAC 59.986 37.037 0.00 0.00 42.86 2.43
514 1117 2.443255 AGCTGAAAGAGGTTTCCCTTCA 59.557 45.455 0.00 0.00 42.86 3.02
665 1300 1.534729 CTTTAGGCCCTTTTGCGTCT 58.465 50.000 0.00 0.00 0.00 4.18
680 1315 5.133830 GGGGGATCTACCTTTCAATCCTTTA 59.866 44.000 6.89 0.00 38.20 1.85
684 1319 2.783510 TGGGGGATCTACCTTTCAATCC 59.216 50.000 7.55 0.00 37.53 3.01
688 1323 2.661176 AGTGGGGGATCTACCTTTCA 57.339 50.000 7.55 0.00 38.98 2.69
719 1354 7.229707 TCGATTGGAGAAAGGAACAAACATTTA 59.770 33.333 0.00 0.00 0.00 1.40
783 1418 6.497259 GGAGGGGAAAAACTAGAGGAATTTTT 59.503 38.462 0.00 0.00 38.03 1.94
806 1441 5.047306 GGATGGATGATAATGTACGAGTGGA 60.047 44.000 0.00 0.00 0.00 4.02
807 1442 5.171476 GGATGGATGATAATGTACGAGTGG 58.829 45.833 0.00 0.00 0.00 4.00
808 1443 5.171476 GGGATGGATGATAATGTACGAGTG 58.829 45.833 0.00 0.00 0.00 3.51
809 1444 4.223032 GGGGATGGATGATAATGTACGAGT 59.777 45.833 0.00 0.00 0.00 4.18
810 1445 4.383118 GGGGGATGGATGATAATGTACGAG 60.383 50.000 0.00 0.00 0.00 4.18
811 1446 3.517901 GGGGGATGGATGATAATGTACGA 59.482 47.826 0.00 0.00 0.00 3.43
838 1647 2.393271 AGAGGACGATTCAGCTTTGG 57.607 50.000 0.00 0.00 0.00 3.28
886 1712 3.245016 TGTGAGATGGATGGCAAAGAAGT 60.245 43.478 0.00 0.00 0.00 3.01
893 1723 0.328926 TGCTTGTGAGATGGATGGCA 59.671 50.000 0.00 0.00 0.00 4.92
894 1724 1.022735 CTGCTTGTGAGATGGATGGC 58.977 55.000 0.00 0.00 0.00 4.40
908 1738 0.314935 CGTTTGGATGTTGGCTGCTT 59.685 50.000 0.00 0.00 0.00 3.91
909 1739 0.823356 ACGTTTGGATGTTGGCTGCT 60.823 50.000 0.00 0.00 0.00 4.24
910 1740 0.878416 TACGTTTGGATGTTGGCTGC 59.122 50.000 0.00 0.00 0.00 5.25
911 1741 2.151202 ACTACGTTTGGATGTTGGCTG 58.849 47.619 0.00 0.00 0.00 4.85
912 1742 2.561478 ACTACGTTTGGATGTTGGCT 57.439 45.000 0.00 0.00 0.00 4.75
913 1743 2.550606 TGAACTACGTTTGGATGTTGGC 59.449 45.455 0.00 0.00 0.00 4.52
914 1744 3.188460 CCTGAACTACGTTTGGATGTTGG 59.812 47.826 0.00 0.00 0.00 3.77
915 1745 3.813166 ACCTGAACTACGTTTGGATGTTG 59.187 43.478 0.00 0.00 0.00 3.33
916 1746 4.062991 GACCTGAACTACGTTTGGATGTT 58.937 43.478 0.00 0.00 0.00 2.71
917 1747 3.070446 TGACCTGAACTACGTTTGGATGT 59.930 43.478 0.00 0.00 0.00 3.06
918 1748 3.659786 TGACCTGAACTACGTTTGGATG 58.340 45.455 0.00 0.00 0.00 3.51
919 1749 4.553330 ATGACCTGAACTACGTTTGGAT 57.447 40.909 0.00 0.00 0.00 3.41
920 1750 5.011329 ACTTATGACCTGAACTACGTTTGGA 59.989 40.000 0.00 0.00 0.00 3.53
921 1751 5.235516 ACTTATGACCTGAACTACGTTTGG 58.764 41.667 0.00 0.00 0.00 3.28
922 1752 6.780706 AACTTATGACCTGAACTACGTTTG 57.219 37.500 0.00 0.00 0.00 2.93
923 1753 8.891671 TTTAACTTATGACCTGAACTACGTTT 57.108 30.769 0.00 0.00 0.00 3.60
924 1754 8.146412 ACTTTAACTTATGACCTGAACTACGTT 58.854 33.333 0.00 0.00 0.00 3.99
925 1755 7.664758 ACTTTAACTTATGACCTGAACTACGT 58.335 34.615 0.00 0.00 0.00 3.57
926 1756 9.798994 ATACTTTAACTTATGACCTGAACTACG 57.201 33.333 0.00 0.00 0.00 3.51
934 1764 9.930693 GCTGCTATATACTTTAACTTATGACCT 57.069 33.333 0.00 0.00 0.00 3.85
935 1765 9.930693 AGCTGCTATATACTTTAACTTATGACC 57.069 33.333 0.00 0.00 0.00 4.02
946 1776 9.712305 ATCGACAATTAAGCTGCTATATACTTT 57.288 29.630 0.90 0.00 0.00 2.66
947 1777 9.360093 GATCGACAATTAAGCTGCTATATACTT 57.640 33.333 0.90 0.00 0.00 2.24
948 1778 7.698550 CGATCGACAATTAAGCTGCTATATACT 59.301 37.037 10.26 0.00 0.00 2.12
949 1779 7.696872 TCGATCGACAATTAAGCTGCTATATAC 59.303 37.037 15.15 0.00 0.00 1.47
950 1780 7.758495 TCGATCGACAATTAAGCTGCTATATA 58.242 34.615 15.15 0.00 0.00 0.86
951 1781 6.621613 TCGATCGACAATTAAGCTGCTATAT 58.378 36.000 15.15 0.00 0.00 0.86
952 1782 6.009115 TCGATCGACAATTAAGCTGCTATA 57.991 37.500 15.15 0.00 0.00 1.31
953 1783 4.871513 TCGATCGACAATTAAGCTGCTAT 58.128 39.130 15.15 0.00 0.00 2.97
954 1784 4.290969 CTCGATCGACAATTAAGCTGCTA 58.709 43.478 15.15 0.00 0.00 3.49
955 1785 3.119291 CTCGATCGACAATTAAGCTGCT 58.881 45.455 15.15 0.00 0.00 4.24
956 1786 2.219674 CCTCGATCGACAATTAAGCTGC 59.780 50.000 15.15 0.00 0.00 5.25
957 1787 3.706698 TCCTCGATCGACAATTAAGCTG 58.293 45.455 15.15 0.00 0.00 4.24
958 1788 4.113354 GTTCCTCGATCGACAATTAAGCT 58.887 43.478 15.15 0.00 0.00 3.74
959 1789 3.245519 GGTTCCTCGATCGACAATTAAGC 59.754 47.826 15.15 9.63 0.00 3.09
960 1790 4.430007 TGGTTCCTCGATCGACAATTAAG 58.570 43.478 15.15 2.24 0.00 1.85
961 1791 4.459390 TGGTTCCTCGATCGACAATTAA 57.541 40.909 15.15 1.42 0.00 1.40
962 1792 4.459390 TTGGTTCCTCGATCGACAATTA 57.541 40.909 15.15 1.09 0.00 1.40
963 1793 3.328382 TTGGTTCCTCGATCGACAATT 57.672 42.857 15.15 0.00 0.00 2.32
964 1794 3.543680 ATTGGTTCCTCGATCGACAAT 57.456 42.857 15.15 17.87 0.00 2.71
965 1795 3.000041 CAATTGGTTCCTCGATCGACAA 59.000 45.455 15.15 16.37 0.00 3.18
966 1796 2.028476 ACAATTGGTTCCTCGATCGACA 60.028 45.455 15.15 7.54 0.00 4.35
967 1797 2.603560 GACAATTGGTTCCTCGATCGAC 59.396 50.000 15.15 4.78 0.00 4.20
968 1798 2.734175 CGACAATTGGTTCCTCGATCGA 60.734 50.000 18.32 18.32 0.00 3.59
1176 2079 2.741092 GCCTCGATCCGGGCAATA 59.259 61.111 15.98 0.00 46.84 1.90
1242 2145 1.080772 CTCGTAGCTGCCGTTGTGA 60.081 57.895 0.00 0.00 0.00 3.58
1287 2190 6.978338 AGCCATGCATAACTGATAAGAAATG 58.022 36.000 0.00 0.00 0.00 2.32
1288 2191 7.592885 AAGCCATGCATAACTGATAAGAAAT 57.407 32.000 0.00 0.00 0.00 2.17
1310 2216 4.652822 ACCAGCTTAAGTCAACCCTAAAG 58.347 43.478 4.02 0.00 0.00 1.85
1311 2217 4.717279 ACCAGCTTAAGTCAACCCTAAA 57.283 40.909 4.02 0.00 0.00 1.85
1315 2224 4.765339 ACAAATACCAGCTTAAGTCAACCC 59.235 41.667 4.02 0.00 0.00 4.11
1317 2226 6.371389 GTCACAAATACCAGCTTAAGTCAAC 58.629 40.000 4.02 0.00 0.00 3.18
1319 2228 5.001232 GGTCACAAATACCAGCTTAAGTCA 58.999 41.667 4.02 0.00 36.96 3.41
1341 2253 2.575532 TCTTCAAGTGCTTCAACCTGG 58.424 47.619 0.00 0.00 0.00 4.45
1377 2293 6.823689 GTGTGTATCATTCCTTGTCCATTACT 59.176 38.462 0.00 0.00 0.00 2.24
1430 2346 2.127232 GTACCCCCATGCACCATGC 61.127 63.158 0.00 0.00 45.29 4.06
1431 2347 1.455587 GGTACCCCCATGCACCATG 60.456 63.158 0.00 0.00 41.10 3.66
1432 2348 1.221213 AAGGTACCCCCATGCACCAT 61.221 55.000 8.74 0.00 34.66 3.55
1433 2349 1.854979 AAGGTACCCCCATGCACCA 60.855 57.895 8.74 0.00 34.66 4.17
1434 2350 1.379843 CAAGGTACCCCCATGCACC 60.380 63.158 8.74 0.00 34.66 5.01
1503 2432 2.415843 GCCCGCTAGTCGTGCATA 59.584 61.111 8.57 0.00 41.27 3.14
1572 2501 2.220363 GTCGATCGCACGTACATCTAGA 59.780 50.000 11.09 0.00 34.70 2.43
1586 2529 3.374367 TGAGTAAGGAGACAAGTCGATCG 59.626 47.826 9.36 9.36 34.09 3.69
1684 2633 8.753133 TCTCTACATTGATATGGACATATGGTC 58.247 37.037 9.40 2.47 46.20 4.02
1705 2654 8.725405 TTGGCGTTAACATCAATTTATCTCTA 57.275 30.769 6.39 0.00 0.00 2.43
1738 2695 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
1740 2697 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
1749 2706 9.634163 TCTTTGTATTAGTAGTATGTGTGTGTG 57.366 33.333 0.00 0.00 0.00 3.82
1784 2763 1.654317 AAGCGTGAAACACACCGTAA 58.346 45.000 0.00 0.00 45.73 3.18
1786 2765 1.654317 TAAAGCGTGAAACACACCGT 58.346 45.000 0.00 0.00 45.73 4.83
1821 3062 0.179067 TAAGCCGTAAATGCTCCCCG 60.179 55.000 0.00 0.00 38.34 5.73
2117 3519 2.101582 CGAGTGGAAGAGGAACTATGGG 59.898 54.545 0.00 0.00 41.55 4.00
2119 3521 2.761208 ACCGAGTGGAAGAGGAACTATG 59.239 50.000 0.00 0.00 37.55 2.23
2122 3524 0.969894 CACCGAGTGGAAGAGGAACT 59.030 55.000 0.00 0.00 39.97 3.01
2216 3618 2.309613 TGCACTTGAGGAGCAACAAAT 58.690 42.857 0.00 0.00 34.97 2.32
2259 3670 4.506625 CCCACAACAATTCTCAACTAGGGA 60.507 45.833 0.00 0.00 33.23 4.20
2273 3686 8.798402 CAGGTAAATTAGTTATTCCCACAACAA 58.202 33.333 0.00 0.00 0.00 2.83
2280 3919 6.066690 GGACCCAGGTAAATTAGTTATTCCC 58.933 44.000 0.00 0.00 0.00 3.97


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

AutoCloner maintained by Alex Coulton.