Multiple sequence alignment - TraesCS7B01G112200

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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 TraesCS7B01G112200 chr7B 100.000 2495 0 0 1 2495 128762720 128765214 0.000000e+00 4608.0
1 TraesCS7B01G112200 chr7B 92.157 51 2 2 1935 1985 14218133 14218181 1.240000e-08 71.3
2 TraesCS7B01G112200 chr7D 88.561 1661 94 42 1 1587 165482385 165484023 0.000000e+00 1927.0
3 TraesCS7B01G112200 chr7D 83.610 482 51 17 1989 2448 165487904 165488379 6.380000e-116 427.0
4 TraesCS7B01G112200 chr7D 86.364 220 20 6 1591 1808 165487519 165487730 5.370000e-57 231.0
5 TraesCS7B01G112200 chr7D 94.000 50 3 0 1936 1985 71635925 71635974 2.660000e-10 76.8
6 TraesCS7B01G112200 chr7D 93.333 45 3 0 1937 1981 213789629 213789673 1.600000e-07 67.6
7 TraesCS7B01G112200 chr7A 84.742 1337 126 35 644 1938 167163501 167164801 0.000000e+00 1267.0
8 TraesCS7B01G112200 chr7A 92.542 657 32 11 1 647 167162812 167163461 0.000000e+00 926.0
9 TraesCS7B01G112200 chr7A 84.821 448 42 9 1989 2413 167168004 167168448 6.380000e-116 427.0
10 TraesCS7B01G112200 chr7A 81.490 416 32 23 1535 1944 167167560 167167936 1.450000e-77 300.0
11 TraesCS7B01G112200 chr7A 97.101 69 2 0 510 578 167163270 167163338 1.570000e-22 117.0
12 TraesCS7B01G112200 chr6A 77.688 372 52 24 8 355 526121802 526121438 5.440000e-47 198.0
13 TraesCS7B01G112200 chr6A 77.159 359 52 24 8 342 528924023 528923671 5.480000e-42 182.0
14 TraesCS7B01G112200 chrUn 77.374 358 52 26 8 342 362046967 362047318 4.240000e-43 185.0
15 TraesCS7B01G112200 chr6D 77.457 346 51 24 8 331 384294465 384294125 5.480000e-42 182.0
16 TraesCS7B01G112200 chr6D 75.405 370 64 23 8 355 384228008 384227644 1.200000e-33 154.0
17 TraesCS7B01G112200 chr3B 91.379 58 2 2 1931 1985 143311499 143311442 2.660000e-10 76.8
18 TraesCS7B01G112200 chr1A 97.619 42 1 0 1948 1989 342750117 342750076 3.440000e-09 73.1
19 TraesCS7B01G112200 chr2D 97.561 41 1 0 1946 1986 10558078 10558038 1.240000e-08 71.3
20 TraesCS7B01G112200 chr1D 95.122 41 2 0 1945 1985 416877912 416877872 5.760000e-07 65.8
21 TraesCS7B01G112200 chr5B 85.484 62 4 5 1923 1980 403423025 403423085 2.680000e-05 60.2
22 TraesCS7B01G112200 chr4B 82.192 73 7 5 1913 1980 654835350 654835421 9.640000e-05 58.4


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 TraesCS7B01G112200 chr7B 128762720 128765214 2494 False 4608.000000 4608 100.000000 1 2495 1 chr7B.!!$F2 2494
1 TraesCS7B01G112200 chr7D 165482385 165488379 5994 False 861.666667 1927 86.178333 1 2448 3 chr7D.!!$F3 2447
2 TraesCS7B01G112200 chr7A 167162812 167168448 5636 False 607.400000 1267 88.139200 1 2413 5 chr7A.!!$F1 2412

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
151 170 0.250234 TCTTGCAGCGAGCTAATGGT 59.750 50.0 4.52 0.0 45.94 3.55 F
934 1020 0.333993 AGAGTACCGGCTTCCCTGTA 59.666 55.0 0.00 0.0 30.60 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1403 1511 0.460987 GGTCTGGCTCTTCATCCACG 60.461 60.0 0.00 0.0 0.00 4.94 R
2452 8773 0.029300 GTTGCATGCACACGAGTTGT 59.971 50.0 22.58 0.0 39.97 3.32 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
151 170 0.250234 TCTTGCAGCGAGCTAATGGT 59.750 50.000 4.52 0.00 45.94 3.55
317 341 2.676471 GCGGCCAACCAGGTCATT 60.676 61.111 2.24 0.00 44.49 2.57
569 593 3.281359 GAATGGCAACGGCACCACC 62.281 63.158 0.00 0.00 41.84 4.61
810 894 0.388778 TTGCGTCGGCTTTATCGTGA 60.389 50.000 0.00 0.00 40.82 4.35
813 897 0.921347 CGTCGGCTTTATCGTGAAGG 59.079 55.000 0.00 0.00 0.00 3.46
819 903 3.608506 CGGCTTTATCGTGAAGGATATCG 59.391 47.826 0.00 0.00 0.00 2.92
830 914 0.822532 AGGATATCGCGTTCCCGTCT 60.823 55.000 17.60 2.63 36.15 4.18
840 924 2.636830 CGTTCCCGTCTAGGTCTTCTA 58.363 52.381 0.00 0.00 38.74 2.10
860 944 1.939785 GAGACGGCGTATCAGCACG 60.940 63.158 27.71 0.00 44.71 5.34
882 966 3.863424 GCATCTCCGACTCGATTTACAAA 59.137 43.478 0.00 0.00 0.00 2.83
886 970 1.657094 CCGACTCGATTTACAAACGGG 59.343 52.381 0.00 0.00 36.27 5.28
887 971 2.331194 CGACTCGATTTACAAACGGGT 58.669 47.619 0.00 0.00 43.43 5.28
888 972 2.733026 CGACTCGATTTACAAACGGGTT 59.267 45.455 0.00 0.00 40.83 4.11
889 973 3.919804 CGACTCGATTTACAAACGGGTTA 59.080 43.478 0.00 0.00 40.83 2.85
890 974 4.385447 CGACTCGATTTACAAACGGGTTAA 59.615 41.667 0.00 0.00 40.83 2.01
893 977 4.640364 TCGATTTACAAACGGGTTAACCT 58.360 39.130 23.69 5.84 36.97 3.50
901 985 2.014335 ACGGGTTAACCTGAATACGC 57.986 50.000 35.20 11.29 45.36 4.42
902 986 1.292992 CGGGTTAACCTGAATACGCC 58.707 55.000 26.83 4.74 45.36 5.68
903 987 1.405797 CGGGTTAACCTGAATACGCCA 60.406 52.381 26.83 0.00 45.36 5.69
904 988 2.743838 CGGGTTAACCTGAATACGCCAT 60.744 50.000 26.83 0.00 45.36 4.40
909 995 6.315393 GGGTTAACCTGAATACGCCATATATG 59.685 42.308 23.69 5.68 35.85 1.78
934 1020 0.333993 AGAGTACCGGCTTCCCTGTA 59.666 55.000 0.00 0.00 30.60 2.74
944 1030 3.738281 CGGCTTCCCTGTAGTTGATACTG 60.738 52.174 0.00 0.00 35.78 2.74
950 1039 7.769044 GCTTCCCTGTAGTTGATACTGAAAATA 59.231 37.037 0.00 0.00 35.84 1.40
961 1060 6.216569 TGATACTGAAAATATCTGCGTCTCC 58.783 40.000 0.00 0.00 31.43 3.71
1007 1106 3.333189 CACCGGCGCGATGATGAG 61.333 66.667 12.10 0.00 0.00 2.90
1029 1128 3.006728 TTCTTCGGGCCGGTGGAT 61.007 61.111 27.98 0.00 0.00 3.41
1045 1144 1.186267 GGATGGGGTACTAGGCCTCG 61.186 65.000 9.68 5.28 0.00 4.63
1063 1162 0.739462 CGTAATGGCGTGGCTTCTGA 60.739 55.000 0.00 0.00 0.00 3.27
1069 1168 0.674895 GGCGTGGCTTCTGATCTTGT 60.675 55.000 0.00 0.00 0.00 3.16
1094 1193 0.696501 ATTGTGGGGTTCTTAGCGGT 59.303 50.000 0.00 0.00 0.00 5.68
1098 1197 2.306512 TGTGGGGTTCTTAGCGGTAATT 59.693 45.455 7.64 0.00 0.00 1.40
1104 1203 4.186159 GGTTCTTAGCGGTAATTGCAGTA 58.814 43.478 7.64 0.00 33.85 2.74
1333 1441 2.420890 CGATCTGCCTGGAGGAGC 59.579 66.667 0.00 0.00 37.39 4.70
1350 1458 3.007920 CTCCAGCAGGGACAGGCT 61.008 66.667 0.00 0.00 42.15 4.58
1417 1525 2.125512 ACGCGTGGATGAAGAGCC 60.126 61.111 12.93 0.00 0.00 4.70
1513 1621 1.421485 CTTAGCGCGCAAAGAGGTG 59.579 57.895 35.10 9.98 0.00 4.00
1548 1657 6.203723 GCTGATATGTTCTTTTAGCCGATCTT 59.796 38.462 0.00 0.00 0.00 2.40
1605 7849 7.099764 CAGGTACATAGATGGGTTCATATGTC 58.900 42.308 1.90 0.00 35.43 3.06
1646 7890 7.532199 TGGTTCCACCACTATAGATATACTCA 58.468 38.462 6.78 0.00 44.79 3.41
1647 7891 8.008332 TGGTTCCACCACTATAGATATACTCAA 58.992 37.037 6.78 0.00 44.79 3.02
1648 7892 8.305317 GGTTCCACCACTATAGATATACTCAAC 58.695 40.741 6.78 0.18 38.42 3.18
1650 7894 6.952358 TCCACCACTATAGATATACTCAACCC 59.048 42.308 6.78 0.00 0.00 4.11
1810 8079 7.627585 ATTGTGATTCGAACAACTTCAAATG 57.372 32.000 0.00 0.00 40.16 2.32
1813 8082 7.032580 TGTGATTCGAACAACTTCAAATGTTT 58.967 30.769 0.00 0.00 39.73 2.83
1814 8083 7.219917 TGTGATTCGAACAACTTCAAATGTTTC 59.780 33.333 0.00 0.00 39.73 2.78
1818 8087 6.616947 TCGAACAACTTCAAATGTTTCACTT 58.383 32.000 0.00 0.00 39.73 3.16
1820 8089 7.272515 TCGAACAACTTCAAATGTTTCACTTTC 59.727 33.333 0.00 0.00 39.73 2.62
1821 8090 7.462724 CGAACAACTTCAAATGTTTCACTTTCC 60.463 37.037 0.00 0.00 39.73 3.13
1822 8091 6.935167 ACAACTTCAAATGTTTCACTTTCCT 58.065 32.000 0.00 0.00 0.00 3.36
1823 8092 6.813152 ACAACTTCAAATGTTTCACTTTCCTG 59.187 34.615 0.00 0.00 0.00 3.86
1824 8093 6.530019 ACTTCAAATGTTTCACTTTCCTGT 57.470 33.333 0.00 0.00 0.00 4.00
1825 8094 6.935167 ACTTCAAATGTTTCACTTTCCTGTT 58.065 32.000 0.00 0.00 0.00 3.16
1826 8095 7.386059 ACTTCAAATGTTTCACTTTCCTGTTT 58.614 30.769 0.00 0.00 0.00 2.83
1827 8096 8.527810 ACTTCAAATGTTTCACTTTCCTGTTTA 58.472 29.630 0.00 0.00 0.00 2.01
1828 8097 9.364989 CTTCAAATGTTTCACTTTCCTGTTTAA 57.635 29.630 0.00 0.00 0.00 1.52
1829 8098 9.712305 TTCAAATGTTTCACTTTCCTGTTTAAA 57.288 25.926 0.00 0.00 0.00 1.52
1830 8099 9.712305 TCAAATGTTTCACTTTCCTGTTTAAAA 57.288 25.926 0.00 0.00 0.00 1.52
1888 8157 8.394121 GCAATGTTCCACAAAAGTTTGATTTAA 58.606 29.630 10.66 0.00 40.55 1.52
1955 8224 6.078202 TCAAAAAGTGATAATTGCGAACCA 57.922 33.333 0.00 0.00 0.00 3.67
1957 8226 6.419413 TCAAAAAGTGATAATTGCGAACCAAC 59.581 34.615 0.00 0.00 35.99 3.77
1958 8227 4.434713 AAGTGATAATTGCGAACCAACC 57.565 40.909 0.00 0.00 35.99 3.77
1959 8228 3.686016 AGTGATAATTGCGAACCAACCT 58.314 40.909 0.00 0.00 35.99 3.50
1960 8229 3.440173 AGTGATAATTGCGAACCAACCTG 59.560 43.478 0.00 0.00 35.99 4.00
1961 8230 3.190535 GTGATAATTGCGAACCAACCTGT 59.809 43.478 0.00 0.00 35.99 4.00
1975 8244 2.879103 ACCTGTGGTTGGATGGTTAG 57.121 50.000 0.00 0.00 27.29 2.34
1976 8245 1.354368 ACCTGTGGTTGGATGGTTAGG 59.646 52.381 0.00 0.00 27.29 2.69
1977 8246 1.633432 CCTGTGGTTGGATGGTTAGGA 59.367 52.381 0.00 0.00 0.00 2.94
1978 8247 2.356125 CCTGTGGTTGGATGGTTAGGAG 60.356 54.545 0.00 0.00 0.00 3.69
1979 8248 1.633432 TGTGGTTGGATGGTTAGGAGG 59.367 52.381 0.00 0.00 0.00 4.30
1980 8249 1.913419 GTGGTTGGATGGTTAGGAGGA 59.087 52.381 0.00 0.00 0.00 3.71
1983 8252 3.973973 TGGTTGGATGGTTAGGAGGATAG 59.026 47.826 0.00 0.00 0.00 2.08
1984 8253 3.974642 GGTTGGATGGTTAGGAGGATAGT 59.025 47.826 0.00 0.00 0.00 2.12
1985 8254 4.040584 GGTTGGATGGTTAGGAGGATAGTC 59.959 50.000 0.00 0.00 0.00 2.59
2004 8296 7.445707 GGATAGTCCTTGGGTTCAGATTATTTC 59.554 40.741 0.00 0.00 32.53 2.17
2018 8312 8.996024 TCAGATTATTTCAAATAGTGTGACGA 57.004 30.769 8.04 0.00 0.00 4.20
2352 8673 7.284716 AGGTTGGTCTTGTTTTAAAGGTCTTAG 59.715 37.037 0.00 0.00 0.00 2.18
2354 8675 6.123651 TGGTCTTGTTTTAAAGGTCTTAGCA 58.876 36.000 0.00 0.00 0.00 3.49
2355 8676 6.603997 TGGTCTTGTTTTAAAGGTCTTAGCAA 59.396 34.615 0.00 0.00 0.00 3.91
2415 8736 9.171877 AGTGAAATTTTGATTTAAAAGTTGCCA 57.828 25.926 4.38 0.00 43.99 4.92
2431 8752 2.333926 TGCCAGTCATTTAGAACGTCG 58.666 47.619 0.00 0.00 0.00 5.12
2432 8753 1.060698 GCCAGTCATTTAGAACGTCGC 59.939 52.381 0.00 0.00 0.00 5.19
2441 8762 7.532884 AGTCATTTAGAACGTCGCAATAAAAAC 59.467 33.333 0.00 0.00 0.00 2.43
2448 8769 7.334009 AGAACGTCGCAATAAAAACAAAAATG 58.666 30.769 0.00 0.00 0.00 2.32
2449 8770 5.968604 ACGTCGCAATAAAAACAAAAATGG 58.031 33.333 0.00 0.00 0.00 3.16
2450 8771 5.520649 ACGTCGCAATAAAAACAAAAATGGT 59.479 32.000 0.00 0.00 0.00 3.55
2451 8772 5.838214 CGTCGCAATAAAAACAAAAATGGTG 59.162 36.000 0.00 0.00 0.00 4.17
2452 8773 6.291849 CGTCGCAATAAAAACAAAAATGGTGA 60.292 34.615 0.00 0.00 0.00 4.02
2453 8774 6.843779 GTCGCAATAAAAACAAAAATGGTGAC 59.156 34.615 0.00 0.00 0.00 3.67
2464 8785 4.118480 TGGTGACAACTCGTGTGC 57.882 55.556 0.00 0.00 41.96 4.57
2465 8786 1.219393 TGGTGACAACTCGTGTGCA 59.781 52.632 0.00 0.00 41.96 4.57
2466 8787 0.179059 TGGTGACAACTCGTGTGCAT 60.179 50.000 0.00 0.00 41.96 3.96
2467 8788 0.235665 GGTGACAACTCGTGTGCATG 59.764 55.000 0.00 0.00 41.96 4.06
2468 8789 0.384725 GTGACAACTCGTGTGCATGC 60.385 55.000 11.82 11.82 41.96 4.06
2469 8790 0.813210 TGACAACTCGTGTGCATGCA 60.813 50.000 18.46 18.46 41.96 3.96
2470 8791 0.307453 GACAACTCGTGTGCATGCAA 59.693 50.000 24.58 10.26 41.96 4.08
2471 8792 0.029300 ACAACTCGTGTGCATGCAAC 59.971 50.000 24.58 20.22 39.72 4.17
2472 8793 0.308684 CAACTCGTGTGCATGCAACT 59.691 50.000 24.58 4.86 0.00 3.16
2473 8794 0.308684 AACTCGTGTGCATGCAACTG 59.691 50.000 24.58 14.72 0.00 3.16
2474 8795 0.815213 ACTCGTGTGCATGCAACTGT 60.815 50.000 24.58 18.26 0.00 3.55
2475 8796 1.147473 CTCGTGTGCATGCAACTGTA 58.853 50.000 24.58 6.39 0.00 2.74
2476 8797 1.733912 CTCGTGTGCATGCAACTGTAT 59.266 47.619 24.58 0.00 0.00 2.29
2477 8798 2.150390 TCGTGTGCATGCAACTGTATT 58.850 42.857 24.58 0.00 0.00 1.89
2478 8799 2.159430 TCGTGTGCATGCAACTGTATTC 59.841 45.455 24.58 7.90 0.00 1.75
2479 8800 2.508867 GTGTGCATGCAACTGTATTCG 58.491 47.619 24.58 0.00 0.00 3.34
2480 8801 2.095768 GTGTGCATGCAACTGTATTCGT 60.096 45.455 24.58 0.00 0.00 3.85
2481 8802 3.124466 GTGTGCATGCAACTGTATTCGTA 59.876 43.478 24.58 0.00 0.00 3.43
2482 8803 3.938334 TGTGCATGCAACTGTATTCGTAT 59.062 39.130 24.58 0.00 0.00 3.06
2483 8804 4.201802 TGTGCATGCAACTGTATTCGTATG 60.202 41.667 24.58 0.00 0.00 2.39
2484 8805 3.242706 TGCATGCAACTGTATTCGTATGC 60.243 43.478 20.30 12.26 39.89 3.14
2485 8806 3.849645 GCATGCAACTGTATTCGTATGCC 60.850 47.826 14.21 0.00 35.03 4.40
2486 8807 3.260475 TGCAACTGTATTCGTATGCCT 57.740 42.857 0.00 0.00 33.01 4.75
2487 8808 2.935849 TGCAACTGTATTCGTATGCCTG 59.064 45.455 0.00 0.00 33.01 4.85
2488 8809 2.936498 GCAACTGTATTCGTATGCCTGT 59.064 45.455 0.00 0.00 0.00 4.00
2489 8810 3.374058 GCAACTGTATTCGTATGCCTGTT 59.626 43.478 0.00 0.00 0.00 3.16
2490 8811 4.494199 GCAACTGTATTCGTATGCCTGTTC 60.494 45.833 0.00 0.00 0.00 3.18
2491 8812 4.465632 ACTGTATTCGTATGCCTGTTCA 57.534 40.909 0.00 0.00 0.00 3.18
2492 8813 4.827692 ACTGTATTCGTATGCCTGTTCAA 58.172 39.130 0.00 0.00 0.00 2.69
2493 8814 5.242434 ACTGTATTCGTATGCCTGTTCAAA 58.758 37.500 0.00 0.00 0.00 2.69
2494 8815 5.703592 ACTGTATTCGTATGCCTGTTCAAAA 59.296 36.000 0.00 0.00 0.00 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 82 5.063060 GTGCAGATCGTTACCGTATTTCTTT 59.937 40.000 0.00 0.00 35.01 2.52
101 102 1.750018 CGATCCCTTGGCATGTGCA 60.750 57.895 7.36 0.00 44.36 4.57
102 103 1.451927 TCGATCCCTTGGCATGTGC 60.452 57.895 0.00 0.00 41.14 4.57
103 104 1.431488 CGTCGATCCCTTGGCATGTG 61.431 60.000 0.00 0.00 0.00 3.21
106 107 2.203070 GCGTCGATCCCTTGGCAT 60.203 61.111 0.00 0.00 0.00 4.40
151 170 2.164663 GCACGCACGGATCGAATGA 61.165 57.895 0.00 0.00 0.00 2.57
363 387 2.668550 GACGGTGGTGTTGCCCTC 60.669 66.667 0.00 0.00 36.04 4.30
539 563 2.270205 CCATTCACAGGCCTCGCT 59.730 61.111 0.00 0.00 0.00 4.93
823 907 1.833630 TCGTAGAAGACCTAGACGGGA 59.166 52.381 0.00 0.00 36.97 5.14
830 914 1.661341 GCCGTCTCGTAGAAGACCTA 58.339 55.000 0.00 0.00 34.09 3.08
840 924 2.404186 TGCTGATACGCCGTCTCGT 61.404 57.895 0.00 0.00 45.49 4.18
860 944 3.079960 TGTAAATCGAGTCGGAGATGC 57.920 47.619 13.54 1.56 40.67 3.91
882 966 1.405933 GGCGTATTCAGGTTAACCCGT 60.406 52.381 21.30 7.39 38.74 5.28
886 970 7.303634 CCATATATGGCGTATTCAGGTTAAC 57.696 40.000 18.77 0.00 41.75 2.01
902 986 4.929808 GCCGGTACTCTGTTTCCATATATG 59.070 45.833 1.90 5.68 0.00 1.78
903 987 4.838986 AGCCGGTACTCTGTTTCCATATAT 59.161 41.667 1.90 0.00 0.00 0.86
904 988 4.220724 AGCCGGTACTCTGTTTCCATATA 58.779 43.478 1.90 0.00 0.00 0.86
909 995 1.675116 GGAAGCCGGTACTCTGTTTCC 60.675 57.143 1.90 8.69 0.00 3.13
916 1002 0.745468 CTACAGGGAAGCCGGTACTC 59.255 60.000 1.90 0.00 0.00 2.59
934 1020 7.268586 AGACGCAGATATTTTCAGTATCAACT 58.731 34.615 0.00 0.00 35.91 3.16
944 1030 3.531538 TGTGGGAGACGCAGATATTTTC 58.468 45.455 0.00 0.00 33.95 2.29
950 1039 0.977627 TGGATGTGGGAGACGCAGAT 60.978 55.000 0.00 0.00 43.91 2.90
961 1060 3.244976 GCTTGTCGATTTTTGGATGTGG 58.755 45.455 0.00 0.00 0.00 4.17
992 1091 4.957684 AGCTCATCATCGCGCCGG 62.958 66.667 0.00 0.00 0.00 6.13
1029 1128 0.630673 TTACGAGGCCTAGTACCCCA 59.369 55.000 23.68 8.03 0.00 4.96
1045 1144 1.599542 GATCAGAAGCCACGCCATTAC 59.400 52.381 0.00 0.00 0.00 1.89
1333 1441 2.600729 AAGCCTGTCCCTGCTGGAG 61.601 63.158 11.88 0.28 46.38 3.86
1390 1498 3.545481 CCACGCGTCGATGCAGTC 61.545 66.667 27.92 0.09 34.15 3.51
1403 1511 0.460987 GGTCTGGCTCTTCATCCACG 60.461 60.000 0.00 0.00 0.00 4.94
1417 1525 2.669569 CAACGGGCAGGTGGTCTG 60.670 66.667 0.00 0.00 46.03 3.51
1432 1540 2.689083 CGATATTCCGCCTGCACAA 58.311 52.632 0.00 0.00 0.00 3.33
1451 1559 4.796231 CTCGTTCTGACCCGGCCG 62.796 72.222 21.04 21.04 0.00 6.13
1513 1621 3.254657 AGAACATATCAGCGCCTCTAGAC 59.745 47.826 2.29 0.00 0.00 2.59
1568 1677 9.477484 CCATCTATGTACCTGTAAACACTATTC 57.523 37.037 0.00 0.00 0.00 1.75
1646 7890 8.877864 TTGTCTAATATGATTTGTGAAGGGTT 57.122 30.769 0.00 0.00 0.00 4.11
1647 7891 8.877864 TTTGTCTAATATGATTTGTGAAGGGT 57.122 30.769 0.00 0.00 0.00 4.34
1753 7998 9.931210 ATAATCGAATTCCGTTTTATGAAGAAC 57.069 29.630 0.00 0.00 39.75 3.01
1788 8033 6.130298 ACATTTGAAGTTGTTCGAATCACA 57.870 33.333 0.00 0.00 42.66 3.58
1794 8039 6.189677 AGTGAAACATTTGAAGTTGTTCGA 57.810 33.333 0.00 0.00 41.43 3.71
1802 8047 7.832503 AAACAGGAAAGTGAAACATTTGAAG 57.167 32.000 0.00 0.00 41.43 3.02
1844 8113 9.793252 GAACATTGCATCACTTATTTGTAATCT 57.207 29.630 0.00 0.00 0.00 2.40
1845 8114 9.023967 GGAACATTGCATCACTTATTTGTAATC 57.976 33.333 0.00 0.00 0.00 1.75
1846 8115 8.530311 TGGAACATTGCATCACTTATTTGTAAT 58.470 29.630 0.00 0.00 0.00 1.89
1847 8116 7.812191 GTGGAACATTGCATCACTTATTTGTAA 59.188 33.333 0.00 0.00 44.52 2.41
1848 8117 7.040132 TGTGGAACATTGCATCACTTATTTGTA 60.040 33.333 0.00 0.00 45.67 2.41
1849 8118 6.158598 GTGGAACATTGCATCACTTATTTGT 58.841 36.000 0.00 0.00 44.52 2.83
1850 8119 6.157904 TGTGGAACATTGCATCACTTATTTG 58.842 36.000 0.00 0.00 45.67 2.32
1944 8213 0.673437 CCACAGGTTGGTTCGCAATT 59.327 50.000 0.00 0.00 41.10 2.32
1945 8214 2.340427 CCACAGGTTGGTTCGCAAT 58.660 52.632 0.00 0.00 41.10 3.56
1946 8215 3.834726 CCACAGGTTGGTTCGCAA 58.165 55.556 0.00 0.00 41.10 4.85
1957 8226 1.633432 TCCTAACCATCCAACCACAGG 59.367 52.381 0.00 0.00 0.00 4.00
1958 8227 2.356125 CCTCCTAACCATCCAACCACAG 60.356 54.545 0.00 0.00 0.00 3.66
1959 8228 1.633432 CCTCCTAACCATCCAACCACA 59.367 52.381 0.00 0.00 0.00 4.17
1960 8229 1.913419 TCCTCCTAACCATCCAACCAC 59.087 52.381 0.00 0.00 0.00 4.16
1961 8230 2.352561 TCCTCCTAACCATCCAACCA 57.647 50.000 0.00 0.00 0.00 3.67
1963 8232 4.040584 GGACTATCCTCCTAACCATCCAAC 59.959 50.000 0.00 0.00 32.53 3.77
1965 8234 3.471306 AGGACTATCCTCCTAACCATCCA 59.529 47.826 0.00 0.00 45.66 3.41
1966 8235 4.134933 AGGACTATCCTCCTAACCATCC 57.865 50.000 0.00 0.00 45.66 3.51
1978 8247 4.779993 AATCTGAACCCAAGGACTATCC 57.220 45.455 0.00 0.00 36.58 2.59
1979 8248 7.993183 TGAAATAATCTGAACCCAAGGACTATC 59.007 37.037 0.00 0.00 0.00 2.08
1980 8249 7.872138 TGAAATAATCTGAACCCAAGGACTAT 58.128 34.615 0.00 0.00 0.00 2.12
1983 8252 6.834168 TTGAAATAATCTGAACCCAAGGAC 57.166 37.500 0.00 0.00 0.00 3.85
1984 8253 9.189156 CTATTTGAAATAATCTGAACCCAAGGA 57.811 33.333 0.00 0.00 0.00 3.36
1985 8254 8.971073 ACTATTTGAAATAATCTGAACCCAAGG 58.029 33.333 0.00 0.00 0.00 3.61
2004 8296 8.506140 AATGAAATTGTTCGTCACACTATTTG 57.494 30.769 5.46 0.00 33.44 2.32
2057 8352 6.650427 AAACCACCTTTTCCAGATAAGAAC 57.350 37.500 0.08 0.00 0.00 3.01
2089 8385 8.674263 TGGAAACATTGACATTGCTTATTTTT 57.326 26.923 0.00 0.00 33.40 1.94
2099 8395 7.555087 TCAAACTCTTTGGAAACATTGACATT 58.445 30.769 0.00 0.00 42.32 2.71
2137 8433 9.010029 ACGTTCCATGAAATAGTAAATCAGTTT 57.990 29.630 0.00 0.00 0.00 2.66
2147 8443 6.751514 TTGCAATACGTTCCATGAAATAGT 57.248 33.333 0.00 0.00 0.00 2.12
2148 8444 9.897744 ATAATTGCAATACGTTCCATGAAATAG 57.102 29.630 13.39 0.00 0.00 1.73
2156 8452 8.704234 GTTTTGAAATAATTGCAATACGTTCCA 58.296 29.630 13.39 5.61 0.00 3.53
2310 8631 5.010282 ACCAACCTCAGATACATTTTGACC 58.990 41.667 0.00 0.00 0.00 4.02
2415 8736 6.715344 TTTATTGCGACGTTCTAAATGACT 57.285 33.333 0.00 0.00 0.00 3.41
2431 8752 8.180920 AGTTGTCACCATTTTTGTTTTTATTGC 58.819 29.630 0.00 0.00 0.00 3.56
2432 8753 9.701355 GAGTTGTCACCATTTTTGTTTTTATTG 57.299 29.630 0.00 0.00 0.00 1.90
2441 8762 3.790820 CACACGAGTTGTCACCATTTTTG 59.209 43.478 0.00 0.00 35.67 2.44
2448 8769 0.235665 CATGCACACGAGTTGTCACC 59.764 55.000 0.00 0.00 35.67 4.02
2449 8770 0.384725 GCATGCACACGAGTTGTCAC 60.385 55.000 14.21 0.00 35.67 3.67
2450 8771 0.813210 TGCATGCACACGAGTTGTCA 60.813 50.000 18.46 0.00 35.67 3.58
2451 8772 0.307453 TTGCATGCACACGAGTTGTC 59.693 50.000 22.58 0.00 35.67 3.18
2452 8773 0.029300 GTTGCATGCACACGAGTTGT 59.971 50.000 22.58 0.00 39.97 3.32
2453 8774 0.308684 AGTTGCATGCACACGAGTTG 59.691 50.000 22.58 0.00 0.00 3.16
2454 8775 0.308684 CAGTTGCATGCACACGAGTT 59.691 50.000 22.58 3.55 0.00 3.01
2455 8776 0.815213 ACAGTTGCATGCACACGAGT 60.815 50.000 22.58 19.74 0.00 4.18
2456 8777 1.147473 TACAGTTGCATGCACACGAG 58.853 50.000 22.58 19.19 0.00 4.18
2457 8778 1.807139 ATACAGTTGCATGCACACGA 58.193 45.000 22.58 1.91 0.00 4.35
2458 8779 2.508867 GAATACAGTTGCATGCACACG 58.491 47.619 22.58 13.73 0.00 4.49
2459 8780 2.095768 ACGAATACAGTTGCATGCACAC 60.096 45.455 22.58 20.40 0.00 3.82
2460 8781 2.150390 ACGAATACAGTTGCATGCACA 58.850 42.857 22.58 9.24 0.00 4.57
2461 8782 2.900122 ACGAATACAGTTGCATGCAC 57.100 45.000 22.58 15.59 0.00 4.57
2462 8783 3.242706 GCATACGAATACAGTTGCATGCA 60.243 43.478 18.46 18.46 37.92 3.96
2463 8784 3.291585 GCATACGAATACAGTTGCATGC 58.708 45.455 11.82 11.82 0.00 4.06
2464 8785 3.561310 AGGCATACGAATACAGTTGCATG 59.439 43.478 0.00 0.00 31.87 4.06
2465 8786 3.561310 CAGGCATACGAATACAGTTGCAT 59.439 43.478 0.00 0.00 31.87 3.96
2466 8787 2.935849 CAGGCATACGAATACAGTTGCA 59.064 45.455 0.00 0.00 31.87 4.08
2467 8788 2.936498 ACAGGCATACGAATACAGTTGC 59.064 45.455 0.00 0.00 0.00 4.17
2468 8789 4.629634 TGAACAGGCATACGAATACAGTTG 59.370 41.667 0.00 0.00 0.00 3.16
2469 8790 4.827692 TGAACAGGCATACGAATACAGTT 58.172 39.130 0.00 0.00 0.00 3.16
2470 8791 4.465632 TGAACAGGCATACGAATACAGT 57.534 40.909 0.00 0.00 0.00 3.55
2471 8792 5.794687 TTTGAACAGGCATACGAATACAG 57.205 39.130 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.