Multiple sequence alignment - TraesCS6B01G147100

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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 TraesCS6B01G147100 chr6B 100.000 2576 0 0 1 2576 147953732 147951157 0.000000e+00 4758
1 TraesCS6B01G147100 chr3B 97.090 2440 64 2 137 2576 71796659 71794227 0.000000e+00 4106
2 TraesCS6B01G147100 chr2B 96.313 2441 89 1 137 2576 225328671 225326231 0.000000e+00 4008
3 TraesCS6B01G147100 chr4B 96.190 2441 91 2 137 2576 622506189 622503750 0.000000e+00 3991
4 TraesCS6B01G147100 chr5B 96.082 2450 92 4 128 2576 659533224 659535670 0.000000e+00 3989
5 TraesCS6B01G147100 chr5B 95.943 2440 95 3 137 2574 649871586 649874023 0.000000e+00 3954
6 TraesCS6B01G147100 chr1B 95.954 2447 96 3 131 2576 359223592 359221148 0.000000e+00 3967
7 TraesCS6B01G147100 chr4D 95.697 2440 104 1 137 2576 473974128 473971690 0.000000e+00 3923
8 TraesCS6B01G147100 chr7B 95.838 2427 97 4 151 2576 36430959 36428536 0.000000e+00 3919
9 TraesCS6B01G147100 chr5D 95.494 2441 108 2 137 2576 387238870 387241309 0.000000e+00 3897
10 TraesCS6B01G147100 chr6D 97.794 136 2 1 1 136 73525272 73525138 1.540000e-57 233


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 TraesCS6B01G147100 chr6B 147951157 147953732 2575 True 4758 4758 100.000 1 2576 1 chr6B.!!$R1 2575
1 TraesCS6B01G147100 chr3B 71794227 71796659 2432 True 4106 4106 97.090 137 2576 1 chr3B.!!$R1 2439
2 TraesCS6B01G147100 chr2B 225326231 225328671 2440 True 4008 4008 96.313 137 2576 1 chr2B.!!$R1 2439
3 TraesCS6B01G147100 chr4B 622503750 622506189 2439 True 3991 3991 96.190 137 2576 1 chr4B.!!$R1 2439
4 TraesCS6B01G147100 chr5B 659533224 659535670 2446 False 3989 3989 96.082 128 2576 1 chr5B.!!$F2 2448
5 TraesCS6B01G147100 chr5B 649871586 649874023 2437 False 3954 3954 95.943 137 2574 1 chr5B.!!$F1 2437
6 TraesCS6B01G147100 chr1B 359221148 359223592 2444 True 3967 3967 95.954 131 2576 1 chr1B.!!$R1 2445
7 TraesCS6B01G147100 chr4D 473971690 473974128 2438 True 3923 3923 95.697 137 2576 1 chr4D.!!$R1 2439
8 TraesCS6B01G147100 chr7B 36428536 36430959 2423 True 3919 3919 95.838 151 2576 1 chr7B.!!$R1 2425
9 TraesCS6B01G147100 chr5D 387238870 387241309 2439 False 3897 3897 95.494 137 2576 1 chr5D.!!$F1 2439

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
53 54 0.036732 CCTGGCTGTTTGTAGAGGCA 59.963 55.0 0.0 0.0 46.1 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1689 1697 0.034186 CCTTGCCATGCACCTCCTTA 60.034 55.0 0.0 0.0 38.71 2.69 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
30 31 4.974591 CAAAGATGCTTTTCTTACGGAGG 58.025 43.478 0.00 0.00 34.89 4.30
31 32 3.268023 AGATGCTTTTCTTACGGAGGG 57.732 47.619 0.00 0.00 0.00 4.30
32 33 2.838202 AGATGCTTTTCTTACGGAGGGA 59.162 45.455 0.00 0.00 0.00 4.20
33 34 2.762535 TGCTTTTCTTACGGAGGGAG 57.237 50.000 0.00 0.00 0.00 4.30
34 35 1.338769 TGCTTTTCTTACGGAGGGAGC 60.339 52.381 0.00 0.00 0.00 4.70
35 36 2.012554 GCTTTTCTTACGGAGGGAGCC 61.013 57.143 0.00 0.00 0.00 4.70
36 37 1.555533 CTTTTCTTACGGAGGGAGCCT 59.444 52.381 0.00 0.00 36.03 4.58
37 38 0.902531 TTTCTTACGGAGGGAGCCTG 59.097 55.000 0.00 0.00 31.76 4.85
38 39 0.976073 TTCTTACGGAGGGAGCCTGG 60.976 60.000 0.00 0.00 31.76 4.45
39 40 3.081409 TTACGGAGGGAGCCTGGC 61.081 66.667 11.65 11.65 31.76 4.85
40 41 3.618855 TTACGGAGGGAGCCTGGCT 62.619 63.158 23.64 23.64 43.88 4.75
43 44 3.334054 GGAGGGAGCCTGGCTGTT 61.334 66.667 28.82 11.06 39.88 3.16
44 45 2.759795 GAGGGAGCCTGGCTGTTT 59.240 61.111 28.82 10.66 39.88 2.83
45 46 1.676967 GAGGGAGCCTGGCTGTTTG 60.677 63.158 28.82 0.00 39.88 2.93
46 47 2.116125 GGGAGCCTGGCTGTTTGT 59.884 61.111 28.82 0.00 39.88 2.83
47 48 1.133809 AGGGAGCCTGGCTGTTTGTA 61.134 55.000 28.82 0.00 39.88 2.41
48 49 0.678048 GGGAGCCTGGCTGTTTGTAG 60.678 60.000 28.82 0.00 39.88 2.74
49 50 0.324943 GGAGCCTGGCTGTTTGTAGA 59.675 55.000 28.82 0.00 39.88 2.59
50 51 1.677217 GGAGCCTGGCTGTTTGTAGAG 60.677 57.143 28.82 0.00 39.88 2.43
51 52 0.326264 AGCCTGGCTGTTTGTAGAGG 59.674 55.000 22.71 0.00 37.57 3.69
52 53 1.308783 GCCTGGCTGTTTGTAGAGGC 61.309 60.000 12.43 0.00 40.25 4.70
53 54 0.036732 CCTGGCTGTTTGTAGAGGCA 59.963 55.000 0.00 0.00 46.10 4.75
55 56 2.356665 TGGCTGTTTGTAGAGGCAAA 57.643 45.000 0.00 0.00 45.45 3.68
56 57 2.875296 TGGCTGTTTGTAGAGGCAAAT 58.125 42.857 0.00 0.00 45.45 2.32
57 58 4.027674 TGGCTGTTTGTAGAGGCAAATA 57.972 40.909 0.00 0.00 45.45 1.40
58 59 3.756434 TGGCTGTTTGTAGAGGCAAATAC 59.244 43.478 0.00 0.00 45.45 1.89
59 60 4.010349 GGCTGTTTGTAGAGGCAAATACT 58.990 43.478 0.00 0.00 40.01 2.12
60 61 4.459337 GGCTGTTTGTAGAGGCAAATACTT 59.541 41.667 0.00 0.00 40.01 2.24
61 62 5.048013 GGCTGTTTGTAGAGGCAAATACTTT 60.048 40.000 0.00 0.00 40.01 2.66
62 63 5.858581 GCTGTTTGTAGAGGCAAATACTTTG 59.141 40.000 0.00 0.00 40.01 2.77
63 64 6.293955 GCTGTTTGTAGAGGCAAATACTTTGA 60.294 38.462 3.87 0.00 43.26 2.69
70 71 2.928694 GGCAAATACTTTGACCACACG 58.071 47.619 3.87 0.00 42.97 4.49
71 72 2.351350 GGCAAATACTTTGACCACACGG 60.351 50.000 3.87 0.00 42.97 4.94
88 89 1.540407 CGGTGTCGTTTGGTTGTTTG 58.460 50.000 0.00 0.00 0.00 2.93
89 90 1.130749 CGGTGTCGTTTGGTTGTTTGA 59.869 47.619 0.00 0.00 0.00 2.69
90 91 2.789779 CGGTGTCGTTTGGTTGTTTGAG 60.790 50.000 0.00 0.00 0.00 3.02
91 92 2.182014 GTGTCGTTTGGTTGTTTGAGC 58.818 47.619 0.00 0.00 0.00 4.26
92 93 1.133407 TGTCGTTTGGTTGTTTGAGCC 59.867 47.619 0.00 0.00 0.00 4.70
93 94 0.378962 TCGTTTGGTTGTTTGAGCCG 59.621 50.000 0.00 0.00 0.00 5.52
94 95 0.378962 CGTTTGGTTGTTTGAGCCGA 59.621 50.000 0.00 0.00 0.00 5.54
95 96 1.596954 CGTTTGGTTGTTTGAGCCGAG 60.597 52.381 0.00 0.00 0.00 4.63
96 97 1.673920 GTTTGGTTGTTTGAGCCGAGA 59.326 47.619 0.00 0.00 0.00 4.04
97 98 2.045561 TTGGTTGTTTGAGCCGAGAA 57.954 45.000 0.00 0.00 0.00 2.87
98 99 2.270352 TGGTTGTTTGAGCCGAGAAT 57.730 45.000 0.00 0.00 0.00 2.40
99 100 1.879380 TGGTTGTTTGAGCCGAGAATG 59.121 47.619 0.00 0.00 0.00 2.67
100 101 1.880027 GGTTGTTTGAGCCGAGAATGT 59.120 47.619 0.00 0.00 0.00 2.71
101 102 3.071479 GGTTGTTTGAGCCGAGAATGTA 58.929 45.455 0.00 0.00 0.00 2.29
102 103 3.500680 GGTTGTTTGAGCCGAGAATGTAA 59.499 43.478 0.00 0.00 0.00 2.41
103 104 4.023536 GGTTGTTTGAGCCGAGAATGTAAA 60.024 41.667 0.00 0.00 0.00 2.01
104 105 5.147162 GTTGTTTGAGCCGAGAATGTAAAG 58.853 41.667 0.00 0.00 0.00 1.85
105 106 3.751175 TGTTTGAGCCGAGAATGTAAAGG 59.249 43.478 0.00 0.00 0.00 3.11
106 107 3.695830 TTGAGCCGAGAATGTAAAGGT 57.304 42.857 0.00 0.00 0.00 3.50
107 108 2.972625 TGAGCCGAGAATGTAAAGGTG 58.027 47.619 0.00 0.00 0.00 4.00
108 109 2.565391 TGAGCCGAGAATGTAAAGGTGA 59.435 45.455 0.00 0.00 0.00 4.02
109 110 3.190874 GAGCCGAGAATGTAAAGGTGAG 58.809 50.000 0.00 0.00 0.00 3.51
110 111 2.832129 AGCCGAGAATGTAAAGGTGAGA 59.168 45.455 0.00 0.00 0.00 3.27
111 112 2.930682 GCCGAGAATGTAAAGGTGAGAC 59.069 50.000 0.00 0.00 0.00 3.36
112 113 3.179830 CCGAGAATGTAAAGGTGAGACG 58.820 50.000 0.00 0.00 0.00 4.18
113 114 2.599082 CGAGAATGTAAAGGTGAGACGC 59.401 50.000 0.00 0.00 0.00 5.19
114 115 3.673594 CGAGAATGTAAAGGTGAGACGCT 60.674 47.826 0.00 0.00 0.00 5.07
115 116 3.589988 AGAATGTAAAGGTGAGACGCTG 58.410 45.455 0.00 0.00 0.00 5.18
116 117 3.006967 AGAATGTAAAGGTGAGACGCTGT 59.993 43.478 0.00 0.00 0.00 4.40
117 118 2.148916 TGTAAAGGTGAGACGCTGTG 57.851 50.000 0.00 0.00 0.00 3.66
118 119 1.411246 TGTAAAGGTGAGACGCTGTGT 59.589 47.619 0.00 0.00 0.00 3.72
119 120 2.624364 TGTAAAGGTGAGACGCTGTGTA 59.376 45.455 0.00 0.00 0.00 2.90
120 121 2.440539 AAAGGTGAGACGCTGTGTAG 57.559 50.000 0.00 0.00 0.00 2.74
121 122 0.603569 AAGGTGAGACGCTGTGTAGG 59.396 55.000 0.00 0.00 0.00 3.18
122 123 1.446272 GGTGAGACGCTGTGTAGGC 60.446 63.158 0.00 0.00 0.00 3.93
123 124 1.289066 GTGAGACGCTGTGTAGGCA 59.711 57.895 0.00 0.00 0.00 4.75
124 125 0.108615 GTGAGACGCTGTGTAGGCAT 60.109 55.000 0.00 0.00 0.00 4.40
125 126 0.173481 TGAGACGCTGTGTAGGCATC 59.827 55.000 0.00 0.00 0.00 3.91
126 127 0.173481 GAGACGCTGTGTAGGCATCA 59.827 55.000 0.00 0.00 0.00 3.07
127 128 0.108615 AGACGCTGTGTAGGCATCAC 60.109 55.000 0.00 5.37 36.48 3.06
128 129 1.079127 ACGCTGTGTAGGCATCACC 60.079 57.895 8.99 0.00 35.25 4.02
147 148 2.094675 CCTTCTCGTGGCCAAATTCAT 58.905 47.619 7.24 0.00 0.00 2.57
175 176 2.356695 GACCCTTTTGTGCACGTTTAGT 59.643 45.455 13.13 5.14 0.00 2.24
216 219 4.072839 GGAAAGTTTTTCGGATCTGACCT 58.927 43.478 2.94 0.00 0.00 3.85
261 264 2.595238 CGGTAGGCTAGAACACCCTAT 58.405 52.381 0.00 0.00 34.05 2.57
298 302 1.533753 TAGGGACCGGGTCAACGTT 60.534 57.895 27.32 10.63 33.68 3.99
463 470 2.755469 CACCCATTCGCCCCCAAG 60.755 66.667 0.00 0.00 0.00 3.61
465 472 2.037208 CCCATTCGCCCCCAAGTT 59.963 61.111 0.00 0.00 0.00 2.66
1094 1102 8.827677 GGAAGAACACATGGTATTTGAGTATAC 58.172 37.037 0.00 0.00 0.00 1.47
1095 1103 9.378551 GAAGAACACATGGTATTTGAGTATACA 57.621 33.333 5.50 0.00 33.56 2.29
1322 1330 2.486796 GCAAGGTTGATGCTCCTCC 58.513 57.895 0.00 0.00 40.64 4.30
1344 1352 3.185594 CGCTACAAATTGACTTGAACCGA 59.814 43.478 0.00 0.00 0.00 4.69
1573 1581 5.266788 ACTTGGATGTCATTGTCCATCAAT 58.733 37.500 15.75 0.00 46.32 2.57
1590 1598 8.099537 GTCCATCAATAAGACATGGATCATAGT 58.900 37.037 3.27 0.00 46.17 2.12
1628 1636 0.180171 TGTGGTTATGGCTCGGATGG 59.820 55.000 0.00 0.00 0.00 3.51
1663 1671 3.623510 GGAAGATTTGGACGAAGATGGAC 59.376 47.826 0.00 0.00 0.00 4.02
1667 1675 3.981071 TTTGGACGAAGATGGACTCAT 57.019 42.857 0.00 0.00 36.09 2.90
1686 1694 5.929992 ACTCATGGTGCAAGAAAATCAATTG 59.070 36.000 0.00 0.00 0.00 2.32
1689 1697 6.766944 TCATGGTGCAAGAAAATCAATTGTTT 59.233 30.769 5.13 0.06 0.00 2.83
1724 1732 1.064389 CAAGGAAAGAGGACCCCCATC 60.064 57.143 0.00 0.00 33.88 3.51
1743 1751 4.499188 CCATCGTTTCGTGATCTTAGCCTA 60.499 45.833 0.00 0.00 0.00 3.93
1803 1811 1.731093 GGTTGAACCAACACCGTGG 59.269 57.895 9.98 0.00 45.11 4.94
2106 2114 2.032681 GCTGACCGAAGCAAGGGT 59.967 61.111 0.55 0.00 43.01 4.34
2111 2119 2.359975 CCGAAGCAAGGGTCACCC 60.360 66.667 3.85 3.85 45.90 4.61
2264 2273 2.825532 GGAAGGCCAAGTCAAATGCTAA 59.174 45.455 5.01 0.00 0.00 3.09
2373 2382 2.312741 ACATGGGGTTGAGGACATTGAT 59.687 45.455 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 4.406943 CTCCGTAAGAAAAGCATCTTTGC 58.593 43.478 4.99 0.00 45.87 3.68
8 9 4.142600 CCCTCCGTAAGAAAAGCATCTTTG 60.143 45.833 4.99 0.34 40.13 2.77
9 10 4.010349 CCCTCCGTAAGAAAAGCATCTTT 58.990 43.478 4.99 0.00 40.13 2.52
10 11 3.263425 TCCCTCCGTAAGAAAAGCATCTT 59.737 43.478 5.04 5.04 42.21 2.40
11 12 2.838202 TCCCTCCGTAAGAAAAGCATCT 59.162 45.455 0.00 0.00 43.02 2.90
12 13 3.198872 CTCCCTCCGTAAGAAAAGCATC 58.801 50.000 0.00 0.00 43.02 3.91
13 14 2.681097 GCTCCCTCCGTAAGAAAAGCAT 60.681 50.000 0.00 0.00 43.02 3.79
14 15 1.338769 GCTCCCTCCGTAAGAAAAGCA 60.339 52.381 0.00 0.00 43.02 3.91
15 16 1.370609 GCTCCCTCCGTAAGAAAAGC 58.629 55.000 0.00 0.00 43.02 3.51
16 17 1.555533 AGGCTCCCTCCGTAAGAAAAG 59.444 52.381 0.00 0.00 43.02 2.27
17 18 1.278127 CAGGCTCCCTCCGTAAGAAAA 59.722 52.381 0.00 0.00 43.02 2.29
18 19 0.902531 CAGGCTCCCTCCGTAAGAAA 59.097 55.000 0.00 0.00 43.02 2.52
19 20 0.976073 CCAGGCTCCCTCCGTAAGAA 60.976 60.000 0.00 0.00 43.02 2.52
20 21 1.381327 CCAGGCTCCCTCCGTAAGA 60.381 63.158 0.00 0.00 43.02 2.10
21 22 3.095347 GCCAGGCTCCCTCCGTAAG 62.095 68.421 3.29 0.00 0.00 2.34
22 23 3.081409 GCCAGGCTCCCTCCGTAA 61.081 66.667 3.29 0.00 0.00 3.18
23 24 4.075793 AGCCAGGCTCCCTCCGTA 62.076 66.667 8.70 0.00 30.62 4.02
26 27 2.911926 AAACAGCCAGGCTCCCTCC 61.912 63.158 12.53 0.00 36.40 4.30
27 28 1.676967 CAAACAGCCAGGCTCCCTC 60.677 63.158 12.53 0.00 36.40 4.30
28 29 1.133809 TACAAACAGCCAGGCTCCCT 61.134 55.000 12.53 0.00 36.40 4.20
29 30 0.678048 CTACAAACAGCCAGGCTCCC 60.678 60.000 12.53 0.00 36.40 4.30
30 31 0.324943 TCTACAAACAGCCAGGCTCC 59.675 55.000 12.53 0.00 36.40 4.70
31 32 1.677217 CCTCTACAAACAGCCAGGCTC 60.677 57.143 12.53 0.00 36.40 4.70
32 33 0.326264 CCTCTACAAACAGCCAGGCT 59.674 55.000 8.70 8.70 40.77 4.58
33 34 1.308783 GCCTCTACAAACAGCCAGGC 61.309 60.000 1.84 1.84 39.75 4.85
34 35 0.036732 TGCCTCTACAAACAGCCAGG 59.963 55.000 0.00 0.00 0.00 4.45
35 36 1.896220 TTGCCTCTACAAACAGCCAG 58.104 50.000 0.00 0.00 0.00 4.85
36 37 2.356665 TTTGCCTCTACAAACAGCCA 57.643 45.000 0.00 0.00 34.68 4.75
37 38 4.010349 AGTATTTGCCTCTACAAACAGCC 58.990 43.478 0.00 0.00 42.01 4.85
38 39 5.629079 AAGTATTTGCCTCTACAAACAGC 57.371 39.130 0.00 0.00 42.01 4.40
69 70 1.130749 TCAAACAACCAAACGACACCG 59.869 47.619 0.00 0.00 42.50 4.94
70 71 2.792749 CTCAAACAACCAAACGACACC 58.207 47.619 0.00 0.00 0.00 4.16
71 72 2.182014 GCTCAAACAACCAAACGACAC 58.818 47.619 0.00 0.00 0.00 3.67
72 73 1.133407 GGCTCAAACAACCAAACGACA 59.867 47.619 0.00 0.00 0.00 4.35
73 74 1.835121 GGCTCAAACAACCAAACGAC 58.165 50.000 0.00 0.00 0.00 4.34
74 75 0.378962 CGGCTCAAACAACCAAACGA 59.621 50.000 0.00 0.00 0.00 3.85
75 76 0.378962 TCGGCTCAAACAACCAAACG 59.621 50.000 0.00 0.00 0.00 3.60
76 77 1.673920 TCTCGGCTCAAACAACCAAAC 59.326 47.619 0.00 0.00 0.00 2.93
77 78 2.045561 TCTCGGCTCAAACAACCAAA 57.954 45.000 0.00 0.00 0.00 3.28
78 79 2.045561 TTCTCGGCTCAAACAACCAA 57.954 45.000 0.00 0.00 0.00 3.67
79 80 1.879380 CATTCTCGGCTCAAACAACCA 59.121 47.619 0.00 0.00 0.00 3.67
80 81 1.880027 ACATTCTCGGCTCAAACAACC 59.120 47.619 0.00 0.00 0.00 3.77
81 82 4.742438 TTACATTCTCGGCTCAAACAAC 57.258 40.909 0.00 0.00 0.00 3.32
82 83 4.215399 CCTTTACATTCTCGGCTCAAACAA 59.785 41.667 0.00 0.00 0.00 2.83
83 84 3.751175 CCTTTACATTCTCGGCTCAAACA 59.249 43.478 0.00 0.00 0.00 2.83
84 85 3.751698 ACCTTTACATTCTCGGCTCAAAC 59.248 43.478 0.00 0.00 0.00 2.93
85 86 3.751175 CACCTTTACATTCTCGGCTCAAA 59.249 43.478 0.00 0.00 0.00 2.69
86 87 3.007506 TCACCTTTACATTCTCGGCTCAA 59.992 43.478 0.00 0.00 0.00 3.02
87 88 2.565391 TCACCTTTACATTCTCGGCTCA 59.435 45.455 0.00 0.00 0.00 4.26
88 89 3.119101 TCTCACCTTTACATTCTCGGCTC 60.119 47.826 0.00 0.00 0.00 4.70
89 90 2.832129 TCTCACCTTTACATTCTCGGCT 59.168 45.455 0.00 0.00 0.00 5.52
90 91 2.930682 GTCTCACCTTTACATTCTCGGC 59.069 50.000 0.00 0.00 0.00 5.54
91 92 3.179830 CGTCTCACCTTTACATTCTCGG 58.820 50.000 0.00 0.00 0.00 4.63
92 93 2.599082 GCGTCTCACCTTTACATTCTCG 59.401 50.000 0.00 0.00 0.00 4.04
93 94 3.614616 CAGCGTCTCACCTTTACATTCTC 59.385 47.826 0.00 0.00 0.00 2.87
94 95 3.006967 ACAGCGTCTCACCTTTACATTCT 59.993 43.478 0.00 0.00 0.00 2.40
95 96 3.123621 CACAGCGTCTCACCTTTACATTC 59.876 47.826 0.00 0.00 0.00 2.67
96 97 3.067106 CACAGCGTCTCACCTTTACATT 58.933 45.455 0.00 0.00 0.00 2.71
97 98 2.037251 ACACAGCGTCTCACCTTTACAT 59.963 45.455 0.00 0.00 0.00 2.29
98 99 1.411246 ACACAGCGTCTCACCTTTACA 59.589 47.619 0.00 0.00 0.00 2.41
99 100 2.150397 ACACAGCGTCTCACCTTTAC 57.850 50.000 0.00 0.00 0.00 2.01
100 101 2.230508 CCTACACAGCGTCTCACCTTTA 59.769 50.000 0.00 0.00 0.00 1.85
101 102 1.000955 CCTACACAGCGTCTCACCTTT 59.999 52.381 0.00 0.00 0.00 3.11
102 103 0.603569 CCTACACAGCGTCTCACCTT 59.396 55.000 0.00 0.00 0.00 3.50
103 104 1.878656 GCCTACACAGCGTCTCACCT 61.879 60.000 0.00 0.00 0.00 4.00
104 105 1.446272 GCCTACACAGCGTCTCACC 60.446 63.158 0.00 0.00 0.00 4.02
105 106 0.108615 ATGCCTACACAGCGTCTCAC 60.109 55.000 0.00 0.00 0.00 3.51
106 107 0.173481 GATGCCTACACAGCGTCTCA 59.827 55.000 0.00 0.00 41.96 3.27
107 108 0.173481 TGATGCCTACACAGCGTCTC 59.827 55.000 6.53 0.00 44.83 3.36
108 109 0.108615 GTGATGCCTACACAGCGTCT 60.109 55.000 6.53 0.00 44.83 4.18
109 110 1.084370 GGTGATGCCTACACAGCGTC 61.084 60.000 0.00 0.00 44.81 5.19
110 111 1.079127 GGTGATGCCTACACAGCGT 60.079 57.895 0.00 0.00 39.65 5.07
111 112 3.799753 GGTGATGCCTACACAGCG 58.200 61.111 0.00 0.00 39.65 5.18
120 121 2.109126 GCCACGAGAAGGTGATGCC 61.109 63.158 0.00 0.00 40.38 4.40
121 122 2.109126 GGCCACGAGAAGGTGATGC 61.109 63.158 0.00 0.00 40.38 3.91
122 123 0.321564 TTGGCCACGAGAAGGTGATG 60.322 55.000 3.88 0.00 40.38 3.07
123 124 0.400213 TTTGGCCACGAGAAGGTGAT 59.600 50.000 3.88 0.00 40.38 3.06
124 125 0.400213 ATTTGGCCACGAGAAGGTGA 59.600 50.000 3.88 0.00 40.38 4.02
125 126 1.200020 GAATTTGGCCACGAGAAGGTG 59.800 52.381 3.88 0.00 37.66 4.00
126 127 1.202879 TGAATTTGGCCACGAGAAGGT 60.203 47.619 3.88 0.00 0.00 3.50
127 128 1.533625 TGAATTTGGCCACGAGAAGG 58.466 50.000 3.88 0.00 0.00 3.46
128 129 3.057315 ACAATGAATTTGGCCACGAGAAG 60.057 43.478 3.88 0.00 39.80 2.85
129 130 2.890311 ACAATGAATTTGGCCACGAGAA 59.110 40.909 3.88 0.00 39.80 2.87
147 148 3.330267 GTGCACAAAAGGGTCAAAACAA 58.670 40.909 13.17 0.00 0.00 2.83
175 176 0.250234 CAAAGAGGGGTCAGATGCGA 59.750 55.000 0.00 0.00 0.00 5.10
216 219 1.302671 CGGGTGGCGGTAGGAAAAA 60.303 57.895 0.00 0.00 0.00 1.94
347 351 1.452651 CCTAGACCTACCGCCACGA 60.453 63.158 0.00 0.00 0.00 4.35
375 379 0.034896 CTACCGCCACAGTCTTTGGT 59.965 55.000 6.89 0.00 36.40 3.67
379 383 1.535687 ACCCTACCGCCACAGTCTT 60.536 57.895 0.00 0.00 0.00 3.01
384 388 4.015406 CAGCACCCTACCGCCACA 62.015 66.667 0.00 0.00 0.00 4.17
463 470 1.002087 TCAGCTCGGGGAAGAAAGAAC 59.998 52.381 0.00 0.00 0.00 3.01
465 472 0.898320 CTCAGCTCGGGGAAGAAAGA 59.102 55.000 0.00 0.00 0.00 2.52
599 606 6.054860 TGATTCCAACCAACCAAAAAGAAA 57.945 33.333 0.00 0.00 0.00 2.52
852 859 9.927668 AACTAAAGAACAAAATATCATGGGTTG 57.072 29.630 0.00 0.00 0.00 3.77
1094 1102 5.118990 CAACTACATCCTCATAGGTTGGTG 58.881 45.833 8.49 3.98 38.97 4.17
1095 1103 4.783227 ACAACTACATCCTCATAGGTTGGT 59.217 41.667 8.49 1.96 38.97 3.67
1322 1330 3.185594 TCGGTTCAAGTCAATTTGTAGCG 59.814 43.478 9.15 9.15 44.85 4.26
1344 1352 0.846693 GTATTGGGGAGGAGGCATGT 59.153 55.000 0.00 0.00 0.00 3.21
1573 1581 5.970289 AGGGAGACTATGATCCATGTCTTA 58.030 41.667 11.22 0.00 37.33 2.10
1590 1598 4.342951 CCACACATACGGTTATAAGGGAGA 59.657 45.833 0.00 0.00 0.00 3.71
1628 1636 1.045911 ATCTTCCTCAGGACCCTCGC 61.046 60.000 0.00 0.00 0.00 5.03
1663 1671 5.929992 ACAATTGATTTTCTTGCACCATGAG 59.070 36.000 13.59 0.00 0.00 2.90
1667 1675 7.226325 CCTTAAACAATTGATTTTCTTGCACCA 59.774 33.333 13.59 0.00 0.00 4.17
1686 1694 1.544724 TGCCATGCACCTCCTTAAAC 58.455 50.000 0.00 0.00 31.71 2.01
1689 1697 0.034186 CCTTGCCATGCACCTCCTTA 60.034 55.000 0.00 0.00 38.71 2.69
1724 1732 2.789893 GCTAGGCTAAGATCACGAAACG 59.210 50.000 0.00 0.00 0.00 3.60
1743 1751 1.304381 AACAATGGCATGGTCGGCT 60.304 52.632 8.21 0.00 0.00 5.52
1987 1995 5.470777 CACGAACCTTCCATTTACAACCTTA 59.529 40.000 0.00 0.00 0.00 2.69
2106 2114 2.630098 CTCTGAAGTGAGTTGAGGGTGA 59.370 50.000 0.00 0.00 0.00 4.02
2264 2273 3.281727 AATCACCGTGCAACATCCTAT 57.718 42.857 0.00 0.00 35.74 2.57
2373 2382 0.396435 AGGCACGATGAAACACTCCA 59.604 50.000 0.00 0.00 0.00 3.86
2542 2551 3.260884 TCATGCTCGGAAGGAACTAAAGT 59.739 43.478 0.00 0.00 38.49 2.66


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

AutoCloner maintained by Alex Coulton.