Multiple sequence alignment - TraesCS7D01G055400

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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 TraesCS7D01G055400 chr7D 100.000 2465 0 0 1 2465 29780375 29782839 0.000000e+00 4553
1 TraesCS7D01G055400 chr7D 86.893 1770 188 22 138 1874 158731345 158733103 0.000000e+00 1943
2 TraesCS7D01G055400 chr7D 97.576 330 8 0 138 467 29787330 29787659 1.280000e-157 566
3 TraesCS7D01G055400 chr3B 94.048 2352 108 12 138 2463 104190265 104187920 0.000000e+00 3539
4 TraesCS7D01G055400 chr3B 91.265 332 24 5 138 469 104185139 104184813 4.840000e-122 448
5 TraesCS7D01G055400 chr3A 94.050 2353 107 10 137 2463 57814521 57816866 0.000000e+00 3539
6 TraesCS7D01G055400 chr3A 92.145 331 20 6 138 467 57819647 57819972 1.730000e-126 462
7 TraesCS7D01G055400 chr7A 94.224 1887 82 4 603 2463 668033187 668035072 0.000000e+00 2856
8 TraesCS7D01G055400 chr7A 93.506 385 20 5 136 520 668032367 668032746 3.560000e-158 568
9 TraesCS7D01G055400 chr7A 92.424 330 20 5 138 467 668037853 668038177 1.330000e-127 466
10 TraesCS7D01G055400 chrUn 95.619 388 17 0 1620 2007 480341444 480341057 7.490000e-175 623
11 TraesCS7D01G055400 chr4D 75.908 523 117 8 974 1491 88508393 88507875 2.430000e-65 259
12 TraesCS7D01G055400 chr7B 79.295 227 43 4 515 739 712512918 712512694 3.280000e-34 156
13 TraesCS7D01G055400 chr5B 77.778 225 48 2 516 739 475505509 475505286 1.190000e-28 137


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 TraesCS7D01G055400 chr7D 29780375 29782839 2464 False 4553.000000 4553 100.000000 1 2465 1 chr7D.!!$F1 2464
1 TraesCS7D01G055400 chr7D 158731345 158733103 1758 False 1943.000000 1943 86.893000 138 1874 1 chr7D.!!$F3 1736
2 TraesCS7D01G055400 chr3B 104184813 104190265 5452 True 1993.500000 3539 92.656500 138 2463 2 chr3B.!!$R1 2325
3 TraesCS7D01G055400 chr3A 57814521 57819972 5451 False 2000.500000 3539 93.097500 137 2463 2 chr3A.!!$F1 2326
4 TraesCS7D01G055400 chr7A 668032367 668038177 5810 False 1296.666667 2856 93.384667 136 2463 3 chr7A.!!$F1 2327
5 TraesCS7D01G055400 chr4D 88507875 88508393 518 True 259.000000 259 75.908000 974 1491 1 chr4D.!!$R1 517

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
124 125 0.036022 GGTCTGATCTGGGCCATAGC 59.964 60.0 6.72 2.59 38.76 2.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1591 1982 0.382158 CGCCTGTCGATCTTCAGCTA 59.618 55.0 8.03 0.0 41.67 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
23 24 3.766691 GGCATGGTGGCAGGCAAG 61.767 66.667 0.00 0.00 43.14 4.01
24 25 3.766691 GCATGGTGGCAGGCAAGG 61.767 66.667 0.00 0.00 0.00 3.61
25 26 2.036098 CATGGTGGCAGGCAAGGA 59.964 61.111 0.00 0.00 0.00 3.36
26 27 2.050350 CATGGTGGCAGGCAAGGAG 61.050 63.158 0.00 0.00 0.00 3.69
27 28 3.292481 ATGGTGGCAGGCAAGGAGG 62.292 63.158 0.00 0.00 0.00 4.30
35 36 2.590092 GGCAAGGAGGCACGGTAT 59.410 61.111 0.00 0.00 43.51 2.73
36 37 1.523938 GGCAAGGAGGCACGGTATC 60.524 63.158 0.00 0.00 43.51 2.24
37 38 1.883084 GCAAGGAGGCACGGTATCG 60.883 63.158 0.00 0.00 43.02 2.92
38 39 1.227263 CAAGGAGGCACGGTATCGG 60.227 63.158 0.00 0.00 41.39 4.18
39 40 3.090219 AAGGAGGCACGGTATCGGC 62.090 63.158 0.00 0.00 41.39 5.54
40 41 4.944372 GGAGGCACGGTATCGGCG 62.944 72.222 0.00 0.00 41.39 6.46
41 42 4.944372 GAGGCACGGTATCGGCGG 62.944 72.222 7.21 0.00 41.39 6.13
70 71 2.124695 GGATCCACCGTTCTGGCC 60.125 66.667 6.95 0.00 43.94 5.36
71 72 2.124695 GATCCACCGTTCTGGCCC 60.125 66.667 0.00 0.00 43.94 5.80
72 73 2.933287 ATCCACCGTTCTGGCCCA 60.933 61.111 0.00 0.00 43.94 5.36
73 74 2.478335 GATCCACCGTTCTGGCCCAA 62.478 60.000 0.00 0.00 43.94 4.12
74 75 2.764637 ATCCACCGTTCTGGCCCAAC 62.765 60.000 0.00 1.89 43.94 3.77
75 76 2.113139 CACCGTTCTGGCCCAACT 59.887 61.111 0.00 0.00 43.94 3.16
76 77 1.528309 CACCGTTCTGGCCCAACTT 60.528 57.895 0.00 0.00 43.94 2.66
77 78 1.528309 ACCGTTCTGGCCCAACTTG 60.528 57.895 0.00 0.13 43.94 3.16
78 79 2.268076 CCGTTCTGGCCCAACTTGG 61.268 63.158 0.00 0.12 37.25 3.61
85 86 4.025401 GCCCAACTTGGCGTGTCG 62.025 66.667 1.76 0.00 42.54 4.35
111 112 2.661537 CGTTGCACGCTGGTCTGA 60.662 61.111 0.00 0.00 33.65 3.27
112 113 2.029288 CGTTGCACGCTGGTCTGAT 61.029 57.895 0.00 0.00 33.65 2.90
113 114 1.790387 GTTGCACGCTGGTCTGATC 59.210 57.895 0.00 0.00 0.00 2.92
114 115 0.671781 GTTGCACGCTGGTCTGATCT 60.672 55.000 0.00 0.00 0.00 2.75
115 116 0.671472 TTGCACGCTGGTCTGATCTG 60.671 55.000 0.00 0.00 0.00 2.90
116 117 1.812922 GCACGCTGGTCTGATCTGG 60.813 63.158 0.00 0.00 0.00 3.86
117 118 1.153489 CACGCTGGTCTGATCTGGG 60.153 63.158 9.75 9.75 0.00 4.45
118 119 2.202987 CGCTGGTCTGATCTGGGC 60.203 66.667 0.00 0.05 0.00 5.36
119 120 2.191641 GCTGGTCTGATCTGGGCC 59.808 66.667 0.00 0.00 0.00 5.80
120 121 2.673200 GCTGGTCTGATCTGGGCCA 61.673 63.158 5.85 5.85 0.00 5.36
121 122 1.992519 GCTGGTCTGATCTGGGCCAT 61.993 60.000 6.72 0.00 0.00 4.40
122 123 1.427809 CTGGTCTGATCTGGGCCATA 58.572 55.000 6.72 0.00 0.00 2.74
123 124 1.347050 CTGGTCTGATCTGGGCCATAG 59.653 57.143 6.72 1.76 0.00 2.23
124 125 0.036022 GGTCTGATCTGGGCCATAGC 59.964 60.000 6.72 2.59 38.76 2.97
125 126 0.320247 GTCTGATCTGGGCCATAGCG 60.320 60.000 6.72 0.00 41.24 4.26
126 127 0.469892 TCTGATCTGGGCCATAGCGA 60.470 55.000 6.72 0.00 41.24 4.93
127 128 0.394192 CTGATCTGGGCCATAGCGAA 59.606 55.000 6.72 0.00 41.24 4.70
128 129 0.106708 TGATCTGGGCCATAGCGAAC 59.893 55.000 6.72 0.00 41.24 3.95
129 130 0.603975 GATCTGGGCCATAGCGAACC 60.604 60.000 6.72 0.00 41.24 3.62
130 131 1.344953 ATCTGGGCCATAGCGAACCA 61.345 55.000 6.72 0.00 41.24 3.67
131 132 1.524621 CTGGGCCATAGCGAACCAG 60.525 63.158 6.72 0.00 38.89 4.00
132 133 2.902343 GGGCCATAGCGAACCAGC 60.902 66.667 4.39 0.00 41.24 4.85
133 134 3.272334 GGCCATAGCGAACCAGCG 61.272 66.667 0.00 0.00 43.00 5.18
134 135 2.202878 GCCATAGCGAACCAGCGA 60.203 61.111 0.00 0.00 43.00 4.93
219 220 1.550327 TGCTGACTCGACAGAAGGAT 58.450 50.000 7.19 0.00 39.94 3.24
222 223 1.064803 CTGACTCGACAGAAGGATCGG 59.935 57.143 0.00 0.00 39.94 4.18
230 231 0.177141 CAGAAGGATCGGCCCGTTAA 59.823 55.000 1.63 0.00 37.37 2.01
321 325 2.113139 CTTGGCACCGTCAAGGGT 59.887 61.111 0.32 0.00 46.96 4.34
336 340 6.294342 CCGTCAAGGGTATCGAATTGTATCTA 60.294 42.308 0.00 0.00 35.97 1.98
382 388 3.783082 CTCTTCTCCTGGTTATCCCCTTT 59.217 47.826 0.00 0.00 0.00 3.11
426 432 2.370633 GCTCCCCTCCTCCTCCTT 59.629 66.667 0.00 0.00 0.00 3.36
427 433 1.764454 GCTCCCCTCCTCCTCCTTC 60.764 68.421 0.00 0.00 0.00 3.46
428 434 1.074850 CTCCCCTCCTCCTCCTTCC 60.075 68.421 0.00 0.00 0.00 3.46
429 435 1.550374 TCCCCTCCTCCTCCTTCCT 60.550 63.158 0.00 0.00 0.00 3.36
430 436 1.074850 CCCCTCCTCCTCCTTCCTC 60.075 68.421 0.00 0.00 0.00 3.71
441 448 3.051496 TCCTCCTTCCTCCAGATCTGATT 60.051 47.826 24.62 0.00 0.00 2.57
772 1137 2.439338 AACAAGTGGTGCACGGCA 60.439 55.556 11.45 0.49 39.64 5.69
927 1316 0.753262 GCGGTGATAGTGGTCCAGAT 59.247 55.000 0.00 0.00 0.00 2.90
1008 1397 2.419159 GGCTTTGCCCAAGATGGATTTC 60.419 50.000 0.00 0.00 44.06 2.17
1129 1518 1.001487 CGCTGAATTTCACAGGCACAA 60.001 47.619 9.08 0.00 36.09 3.33
1196 1585 2.574955 GGGCGTCACTCTGTGAGGT 61.575 63.158 17.67 0.00 46.15 3.85
1236 1625 2.188817 AGGGAACAGTATCAGTCCCAC 58.811 52.381 9.57 0.00 39.75 4.61
1344 1733 1.234615 ACAACCCAGCGTTTGATCCG 61.235 55.000 0.00 0.00 29.93 4.18
1432 1821 3.053991 TCAACCAAAAGACTTGGACTCCA 60.054 43.478 10.42 0.00 42.06 3.86
1606 1997 2.164422 CACCTGTAGCTGAAGATCGACA 59.836 50.000 0.00 0.00 0.00 4.35
1722 2113 3.316308 GCTCTGTTTCAAATGTGGTGAGT 59.684 43.478 0.00 0.00 0.00 3.41
1758 2149 0.037590 TCAATGCGGGCCTACAGTTT 59.962 50.000 0.84 0.00 0.00 2.66
1772 2163 6.152154 GGCCTACAGTTTAATTACATGTGGTT 59.848 38.462 9.11 5.71 0.00 3.67
1790 2181 5.069914 TGTGGTTGAAGAACTGCTAGAACTA 59.930 40.000 0.00 0.00 32.15 2.24
1800 2191 4.583871 ACTGCTAGAACTATTGCAAGCTT 58.416 39.130 4.94 0.00 34.90 3.74
1817 2208 1.656652 CTTATCAGGGCGTTCCAGTG 58.343 55.000 0.14 0.00 38.24 3.66
1889 2280 4.906537 ACCACGGGGCAAACCACC 62.907 66.667 1.73 0.00 42.91 4.61
2003 2394 2.551270 GTGGCGCGACTTCAACTG 59.449 61.111 15.80 0.00 0.00 3.16
2043 2434 2.621055 ACGGTTGCAGTCAAAATAGCAA 59.379 40.909 0.00 0.00 43.90 3.91
2077 2468 0.182299 TCATGTTCAGGTGTGGTGCA 59.818 50.000 0.00 0.00 0.00 4.57
2111 2502 4.761739 TGGAAGACACAAGGACATGAATTC 59.238 41.667 0.00 0.00 0.00 2.17
2120 2511 4.478206 AGGACATGAATTCGTCACTGAT 57.522 40.909 13.38 0.00 39.72 2.90
2135 2526 5.473931 GTCACTGATCTCAGAGTTTTAGCA 58.526 41.667 13.94 0.00 46.59 3.49
2159 2550 6.592994 CACTTGGGTGCTATGATATGATAGTG 59.407 42.308 10.41 0.00 36.61 2.74
2186 2577 1.130054 ACTGGCTGGAGTCATGTGGT 61.130 55.000 0.00 0.00 0.00 4.16
2231 2622 5.413499 GCAAAGCAACTGATATTCAACCAT 58.587 37.500 0.00 0.00 0.00 3.55
2234 2625 4.858850 AGCAACTGATATTCAACCATGGA 58.141 39.130 21.47 0.00 0.00 3.41
2253 2644 1.888512 GAGGGCAGCAAATTCAGTTGA 59.111 47.619 0.00 0.00 0.00 3.18
2258 2649 2.294233 GCAGCAAATTCAGTTGACAGGA 59.706 45.455 0.00 0.00 0.00 3.86
2266 2657 3.213206 TCAGTTGACAGGAGTGCAAAT 57.787 42.857 0.00 0.00 0.00 2.32
2330 2721 1.407989 GCACTGGAAGAGGCTAATGCT 60.408 52.381 0.00 0.00 36.98 3.79
2357 2748 4.617530 GCTCACATCATCTGTTTGCATGTT 60.618 41.667 0.00 0.00 35.29 2.71
2372 2763 1.752498 CATGTTGTGGGGGATGATGTG 59.248 52.381 0.00 0.00 0.00 3.21
2405 2796 1.340088 TACCGGTGGAAGTACAAGCA 58.660 50.000 19.93 0.00 0.00 3.91
2463 2854 0.613572 TGATCTACCTCCACACCGCA 60.614 55.000 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.766691 CTTGCCTGCCACCATGCC 61.767 66.667 0.00 0.00 32.39 4.40
7 8 3.766691 CCTTGCCTGCCACCATGC 61.767 66.667 0.00 0.00 33.78 4.06
8 9 2.036098 TCCTTGCCTGCCACCATG 59.964 61.111 0.00 0.00 0.00 3.66
9 10 2.357836 CTCCTTGCCTGCCACCAT 59.642 61.111 0.00 0.00 0.00 3.55
10 11 3.970410 CCTCCTTGCCTGCCACCA 61.970 66.667 0.00 0.00 0.00 4.17
12 13 4.666253 TGCCTCCTTGCCTGCCAC 62.666 66.667 0.00 0.00 0.00 5.01
13 14 4.666253 GTGCCTCCTTGCCTGCCA 62.666 66.667 0.00 0.00 0.00 4.92
16 17 2.257409 ATACCGTGCCTCCTTGCCTG 62.257 60.000 0.00 0.00 0.00 4.85
17 18 1.972660 GATACCGTGCCTCCTTGCCT 61.973 60.000 0.00 0.00 0.00 4.75
18 19 1.523938 GATACCGTGCCTCCTTGCC 60.524 63.158 0.00 0.00 0.00 4.52
19 20 1.883084 CGATACCGTGCCTCCTTGC 60.883 63.158 0.00 0.00 0.00 4.01
20 21 1.227263 CCGATACCGTGCCTCCTTG 60.227 63.158 0.00 0.00 0.00 3.61
21 22 3.090219 GCCGATACCGTGCCTCCTT 62.090 63.158 0.00 0.00 0.00 3.36
22 23 3.537874 GCCGATACCGTGCCTCCT 61.538 66.667 0.00 0.00 0.00 3.69
23 24 4.944372 CGCCGATACCGTGCCTCC 62.944 72.222 0.00 0.00 0.00 4.30
24 25 4.944372 CCGCCGATACCGTGCCTC 62.944 72.222 0.00 0.00 0.00 4.70
53 54 2.124695 GGCCAGAACGGTGGATCC 60.125 66.667 4.20 4.20 40.44 3.36
54 55 2.124695 GGGCCAGAACGGTGGATC 60.125 66.667 4.39 0.00 40.44 3.36
55 56 2.534396 TTGGGCCAGAACGGTGGAT 61.534 57.895 6.23 0.00 40.44 3.41
56 57 3.172106 TTGGGCCAGAACGGTGGA 61.172 61.111 6.23 0.00 40.44 4.02
57 58 2.976494 AAGTTGGGCCAGAACGGTGG 62.976 60.000 6.23 0.00 41.01 4.61
58 59 1.528309 AAGTTGGGCCAGAACGGTG 60.528 57.895 6.23 0.00 36.97 4.94
59 60 1.528309 CAAGTTGGGCCAGAACGGT 60.528 57.895 6.23 0.00 36.97 4.83
60 61 2.268076 CCAAGTTGGGCCAGAACGG 61.268 63.158 14.64 2.77 32.67 4.44
61 62 3.354678 CCAAGTTGGGCCAGAACG 58.645 61.111 14.64 0.00 32.67 3.95
95 96 0.671781 AGATCAGACCAGCGTGCAAC 60.672 55.000 0.00 0.00 0.00 4.17
96 97 0.671472 CAGATCAGACCAGCGTGCAA 60.671 55.000 0.00 0.00 0.00 4.08
97 98 1.079612 CAGATCAGACCAGCGTGCA 60.080 57.895 0.00 0.00 0.00 4.57
98 99 1.812922 CCAGATCAGACCAGCGTGC 60.813 63.158 0.00 0.00 0.00 5.34
99 100 1.153489 CCCAGATCAGACCAGCGTG 60.153 63.158 0.00 0.00 0.00 5.34
100 101 3.023949 GCCCAGATCAGACCAGCGT 62.024 63.158 0.00 0.00 0.00 5.07
101 102 2.202987 GCCCAGATCAGACCAGCG 60.203 66.667 0.00 0.00 0.00 5.18
102 103 1.992519 ATGGCCCAGATCAGACCAGC 61.993 60.000 0.00 0.00 33.03 4.85
103 104 1.347050 CTATGGCCCAGATCAGACCAG 59.653 57.143 0.00 0.00 33.03 4.00
104 105 1.427809 CTATGGCCCAGATCAGACCA 58.572 55.000 0.00 0.00 34.28 4.02
105 106 0.036022 GCTATGGCCCAGATCAGACC 59.964 60.000 0.00 0.00 0.00 3.85
106 107 0.320247 CGCTATGGCCCAGATCAGAC 60.320 60.000 0.00 0.00 34.44 3.51
107 108 0.469892 TCGCTATGGCCCAGATCAGA 60.470 55.000 0.00 0.00 34.44 3.27
108 109 0.394192 TTCGCTATGGCCCAGATCAG 59.606 55.000 0.00 0.00 34.44 2.90
109 110 0.106708 GTTCGCTATGGCCCAGATCA 59.893 55.000 0.00 0.00 34.44 2.92
110 111 0.603975 GGTTCGCTATGGCCCAGATC 60.604 60.000 0.00 0.00 34.44 2.75
111 112 1.344953 TGGTTCGCTATGGCCCAGAT 61.345 55.000 0.00 0.00 34.44 2.90
112 113 1.971505 CTGGTTCGCTATGGCCCAGA 61.972 60.000 16.55 0.00 43.42 3.86
113 114 1.524621 CTGGTTCGCTATGGCCCAG 60.525 63.158 9.77 9.77 38.41 4.45
114 115 2.589540 CTGGTTCGCTATGGCCCA 59.410 61.111 0.00 0.00 34.44 5.36
115 116 2.902343 GCTGGTTCGCTATGGCCC 60.902 66.667 0.00 0.00 34.44 5.80
116 117 3.272334 CGCTGGTTCGCTATGGCC 61.272 66.667 0.00 0.00 34.44 5.36
117 118 2.202878 TCGCTGGTTCGCTATGGC 60.203 61.111 0.00 0.00 0.00 4.40
118 119 1.883084 GGTCGCTGGTTCGCTATGG 60.883 63.158 0.00 0.00 0.00 2.74
119 120 1.141881 AGGTCGCTGGTTCGCTATG 59.858 57.895 0.00 0.00 0.00 2.23
120 121 1.141881 CAGGTCGCTGGTTCGCTAT 59.858 57.895 0.00 0.00 0.00 2.97
121 122 2.209064 GACAGGTCGCTGGTTCGCTA 62.209 60.000 0.00 0.00 0.00 4.26
122 123 3.575351 GACAGGTCGCTGGTTCGCT 62.575 63.158 0.00 0.00 0.00 4.93
123 124 3.112709 GACAGGTCGCTGGTTCGC 61.113 66.667 0.00 0.00 0.00 4.70
124 125 2.022129 GTGACAGGTCGCTGGTTCG 61.022 63.158 5.76 0.00 37.16 3.95
125 126 2.022129 CGTGACAGGTCGCTGGTTC 61.022 63.158 10.84 0.00 37.92 3.62
126 127 2.029073 CGTGACAGGTCGCTGGTT 59.971 61.111 10.84 0.00 37.92 3.67
127 128 2.910479 TCGTGACAGGTCGCTGGT 60.910 61.111 10.84 0.00 37.92 4.00
128 129 2.430921 GTCGTGACAGGTCGCTGG 60.431 66.667 10.84 0.00 37.92 4.85
129 130 1.730902 CAGTCGTGACAGGTCGCTG 60.731 63.158 10.84 5.27 37.92 5.18
130 131 2.131294 GACAGTCGTGACAGGTCGCT 62.131 60.000 10.84 0.00 37.92 4.93
131 132 1.729838 GACAGTCGTGACAGGTCGC 60.730 63.158 2.44 2.95 36.79 5.19
132 133 0.030235 TTGACAGTCGTGACAGGTCG 59.970 55.000 15.40 0.00 39.30 4.79
133 134 1.603172 CCTTGACAGTCGTGACAGGTC 60.603 57.143 14.26 14.26 37.95 3.85
134 135 0.389391 CCTTGACAGTCGTGACAGGT 59.611 55.000 2.44 0.03 29.85 4.00
169 170 2.269241 GTTCCTCTCCCCGCTTGG 59.731 66.667 0.00 0.00 0.00 3.61
178 179 0.390472 CGCCTTGACCAGTTCCTCTC 60.390 60.000 0.00 0.00 0.00 3.20
230 231 4.988598 CAAGACACCGCGGCCTGT 62.989 66.667 28.58 23.87 0.00 4.00
287 290 2.433436 CAAGCCACCTACTTAACACCC 58.567 52.381 0.00 0.00 0.00 4.61
289 292 1.810755 GCCAAGCCACCTACTTAACAC 59.189 52.381 0.00 0.00 0.00 3.32
336 340 5.411053 GCAGCTTCTCTTTGTCTATTCAGTT 59.589 40.000 0.00 0.00 0.00 3.16
382 388 2.510382 AGATCGAGGTAGGTGGAGAAGA 59.490 50.000 0.00 0.00 0.00 2.87
426 432 5.471424 ACCTAATCAATCAGATCTGGAGGA 58.529 41.667 22.42 16.24 35.39 3.71
427 433 5.822132 ACCTAATCAATCAGATCTGGAGG 57.178 43.478 22.42 17.22 35.39 4.30
428 434 7.773489 TCTACCTAATCAATCAGATCTGGAG 57.227 40.000 22.42 12.36 35.39 3.86
429 435 7.121907 CGATCTACCTAATCAATCAGATCTGGA 59.878 40.741 22.42 12.29 37.38 3.86
430 436 7.257003 CGATCTACCTAATCAATCAGATCTGG 58.743 42.308 22.42 6.99 37.38 3.86
441 448 2.248248 CAGGCCCGATCTACCTAATCA 58.752 52.381 0.00 0.00 30.84 2.57
887 1252 1.204941 GAGATGAGTACGCACCCTTGT 59.795 52.381 0.00 0.00 0.00 3.16
927 1316 2.282180 GTGCCCCTCTTTTCCGCA 60.282 61.111 0.00 0.00 0.00 5.69
1196 1585 7.841282 TCCCTACCAAATTTATGACACAAAA 57.159 32.000 0.00 0.00 0.00 2.44
1236 1625 1.346722 AGGGTGTTAAACTGACGGAGG 59.653 52.381 0.00 0.00 0.00 4.30
1344 1733 8.534496 TCTAGAAACTGGGTAGTAAAATACACC 58.466 37.037 0.00 0.00 35.69 4.16
1432 1821 3.230134 TGCAATGTAGCAAGGAAAAGGT 58.770 40.909 0.00 0.00 42.46 3.50
1507 1898 2.033448 CAGGTGGCCGCTGGTTAA 59.967 61.111 17.49 0.00 0.00 2.01
1591 1982 0.382158 CGCCTGTCGATCTTCAGCTA 59.618 55.000 8.03 0.00 41.67 3.32
1606 1997 4.529219 TTGCCGCATCGATCGCCT 62.529 61.111 11.09 0.00 0.00 5.52
1722 2113 1.213619 TGATGTCCTTGGCCCCATCA 61.214 55.000 0.00 7.62 40.87 3.07
1758 2149 6.714810 AGCAGTTCTTCAACCACATGTAATTA 59.285 34.615 0.00 0.00 32.22 1.40
1772 2163 5.793817 TGCAATAGTTCTAGCAGTTCTTCA 58.206 37.500 0.00 0.00 32.48 3.02
1790 2181 1.027357 CGCCCTGATAAGCTTGCAAT 58.973 50.000 9.86 0.00 0.00 3.56
1800 2191 0.907704 ACCACTGGAACGCCCTGATA 60.908 55.000 0.71 0.00 37.33 2.15
1817 2208 0.393537 CAGAATCAGGGTCTGGCACC 60.394 60.000 0.00 0.00 45.97 5.01
1889 2280 1.295423 CAACCTGACTGTACGGGGG 59.705 63.158 6.65 7.74 40.34 5.40
1919 2310 2.859165 TCAACATCTCTTGTCCACCC 57.141 50.000 0.00 0.00 37.68 4.61
2003 2394 0.896923 TGGACATGGCTTGAATTGGC 59.103 50.000 7.45 0.00 0.00 4.52
2051 2442 4.081420 ACCACACCTGAACATGATAGAGTC 60.081 45.833 0.00 0.00 0.00 3.36
2077 2468 2.369860 TGTGTCTTCCATCTGCACTCTT 59.630 45.455 0.00 0.00 0.00 2.85
2111 2502 4.560819 GCTAAAACTCTGAGATCAGTGACG 59.439 45.833 12.44 4.85 44.12 4.35
2120 2511 3.391296 ACCCAAGTGCTAAAACTCTGAGA 59.609 43.478 12.44 0.00 0.00 3.27
2135 2526 6.296087 CCACTATCATATCATAGCACCCAAGT 60.296 42.308 0.00 0.00 30.38 3.16
2159 2550 3.711059 CTCCAGCCAGTCCATGCCC 62.711 68.421 0.00 0.00 0.00 5.36
2231 2622 0.112995 ACTGAATTTGCTGCCCTCCA 59.887 50.000 0.00 0.00 0.00 3.86
2234 2625 1.615392 GTCAACTGAATTTGCTGCCCT 59.385 47.619 0.00 0.00 0.00 5.19
2275 2666 3.756117 GAGGAGATTGGTTGGACTTGTT 58.244 45.455 0.00 0.00 0.00 2.83
2357 2748 1.690616 CACCACATCATCCCCCACA 59.309 57.895 0.00 0.00 0.00 4.17
2372 2763 0.675522 CCGGTATGTGTTCCACCACC 60.676 60.000 0.00 5.58 36.05 4.61
2387 2778 0.034896 CTGCTTGTACTTCCACCGGT 59.965 55.000 0.00 0.00 0.00 5.28
2390 2781 0.875059 GCACTGCTTGTACTTCCACC 59.125 55.000 0.00 0.00 0.00 4.61
2405 2796 2.810274 CACACTGTATTCTTGCAGCACT 59.190 45.455 0.00 0.00 38.99 4.40


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

AutoCloner maintained by Alex Coulton.