Multiple sequence alignment - TraesCS1A01G384600

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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 TraesCS1A01G384600 chr1A 100.000 2195 0 0 1 2195 554457618 554459812 0.000000e+00 4054
1 TraesCS1A01G384600 chr1A 98.942 189 2 0 1 189 554455528 554455340 2.700000e-89 339
2 TraesCS1A01G384600 chr1D 98.210 2011 30 4 183 2192 254416398 254418403 0.000000e+00 3509
3 TraesCS1A01G384600 chr1D 99.471 189 1 0 1 189 254416388 254416200 5.800000e-91 344
4 TraesCS1A01G384600 chr5D 97.435 2027 30 11 183 2192 503286634 503288655 0.000000e+00 3435
5 TraesCS1A01G384600 chr5D 97.133 2023 34 13 183 2192 120799204 120801215 0.000000e+00 3393
6 TraesCS1A01G384600 chr5D 97.088 2026 30 14 183 2195 6181611 6179602 0.000000e+00 3387
7 TraesCS1A01G384600 chr5D 97.383 1108 14 5 1102 2195 512416234 512415128 0.000000e+00 1871
8 TraesCS1A01G384600 chr5D 97.290 1107 15 5 1102 2195 512409297 512408193 0.000000e+00 1864
9 TraesCS1A01G384600 chr5D 99.471 189 1 0 1 189 503286624 503286436 5.800000e-91 344
10 TraesCS1A01G384600 chr5D 98.947 190 2 0 1 190 120799194 120799005 7.510000e-90 340
11 TraesCS1A01G384600 chr5A 96.726 2016 50 11 183 2195 607200757 607198755 0.000000e+00 3343
12 TraesCS1A01G384600 chr5A 91.232 958 54 16 1097 2035 520661594 520662540 0.000000e+00 1277
13 TraesCS1A01G384600 chr7B 95.475 2011 75 12 183 2192 105257261 105255266 0.000000e+00 3195
14 TraesCS1A01G384600 chr2B 98.518 1552 15 6 645 2195 474900137 474901681 0.000000e+00 2732
15 TraesCS1A01G384600 chr2A 97.127 1462 23 8 183 1633 335831294 335829841 0.000000e+00 2449
16 TraesCS1A01G384600 chr2A 97.881 1180 18 7 1012 2188 334595896 334594721 0.000000e+00 2034
17 TraesCS1A01G384600 chr2A 98.942 189 2 0 1 189 335831304 335831492 2.700000e-89 339
18 TraesCS1A01G384600 chr3B 99.500 1201 6 0 183 1383 101919712 101918512 0.000000e+00 2185
19 TraesCS1A01G384600 chr3B 100.000 189 0 0 1 189 101919722 101919910 1.250000e-92 350
20 TraesCS1A01G384600 chr4D 93.578 1308 61 13 895 2192 207373081 207374375 0.000000e+00 1929
21 TraesCS1A01G384600 chr4B 95.898 1024 31 8 1172 2192 308683448 308682433 0.000000e+00 1648
22 TraesCS1A01G384600 chr7A 98.942 189 2 0 1 189 109219907 109220095 2.700000e-89 339
23 TraesCS1A01G384600 chr6B 98.942 189 2 0 1 189 450079918 450079730 2.700000e-89 339
24 TraesCS1A01G384600 chr6D 98.413 189 3 0 1 189 45512240 45512428 1.260000e-87 333


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 TraesCS1A01G384600 chr1A 554457618 554459812 2194 False 4054 4054 100.000 1 2195 1 chr1A.!!$F1 2194
1 TraesCS1A01G384600 chr1D 254416398 254418403 2005 False 3509 3509 98.210 183 2192 1 chr1D.!!$F1 2009
2 TraesCS1A01G384600 chr5D 503286634 503288655 2021 False 3435 3435 97.435 183 2192 1 chr5D.!!$F2 2009
3 TraesCS1A01G384600 chr5D 120799204 120801215 2011 False 3393 3393 97.133 183 2192 1 chr5D.!!$F1 2009
4 TraesCS1A01G384600 chr5D 6179602 6181611 2009 True 3387 3387 97.088 183 2195 1 chr5D.!!$R1 2012
5 TraesCS1A01G384600 chr5D 512415128 512416234 1106 True 1871 1871 97.383 1102 2195 1 chr5D.!!$R5 1093
6 TraesCS1A01G384600 chr5D 512408193 512409297 1104 True 1864 1864 97.290 1102 2195 1 chr5D.!!$R4 1093
7 TraesCS1A01G384600 chr5A 607198755 607200757 2002 True 3343 3343 96.726 183 2195 1 chr5A.!!$R1 2012
8 TraesCS1A01G384600 chr5A 520661594 520662540 946 False 1277 1277 91.232 1097 2035 1 chr5A.!!$F1 938
9 TraesCS1A01G384600 chr7B 105255266 105257261 1995 True 3195 3195 95.475 183 2192 1 chr7B.!!$R1 2009
10 TraesCS1A01G384600 chr2B 474900137 474901681 1544 False 2732 2732 98.518 645 2195 1 chr2B.!!$F1 1550
11 TraesCS1A01G384600 chr2A 335829841 335831294 1453 True 2449 2449 97.127 183 1633 1 chr2A.!!$R2 1450
12 TraesCS1A01G384600 chr2A 334594721 334595896 1175 True 2034 2034 97.881 1012 2188 1 chr2A.!!$R1 1176
13 TraesCS1A01G384600 chr3B 101918512 101919712 1200 True 2185 2185 99.500 183 1383 1 chr3B.!!$R1 1200
14 TraesCS1A01G384600 chr4D 207373081 207374375 1294 False 1929 1929 93.578 895 2192 1 chr4D.!!$F1 1297
15 TraesCS1A01G384600 chr4B 308682433 308683448 1015 True 1648 1648 95.898 1172 2192 1 chr4B.!!$R1 1020

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
50 51 0.103026 TCATCTCGAGCCATCCGTTG 59.897 55.0 7.81 0.0 0.0 4.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1246 1251 7.234661 TCTCGGCTTTTACCCATTTTAATTT 57.765 32.0 0.0 0.0 0.0 1.82 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 5.788450 GTCAATCCTTCTCTTCTCACTTCA 58.212 41.667 0.00 0.00 0.00 3.02
24 25 6.226787 GTCAATCCTTCTCTTCTCACTTCAA 58.773 40.000 0.00 0.00 0.00 2.69
25 26 6.368516 GTCAATCCTTCTCTTCTCACTTCAAG 59.631 42.308 0.00 0.00 0.00 3.02
26 27 6.268617 TCAATCCTTCTCTTCTCACTTCAAGA 59.731 38.462 0.00 0.00 0.00 3.02
27 28 6.872585 ATCCTTCTCTTCTCACTTCAAGAT 57.127 37.500 0.00 0.00 0.00 2.40
28 29 6.678568 TCCTTCTCTTCTCACTTCAAGATT 57.321 37.500 0.00 0.00 0.00 2.40
29 30 6.462500 TCCTTCTCTTCTCACTTCAAGATTG 58.538 40.000 0.00 0.00 0.00 2.67
30 31 6.268617 TCCTTCTCTTCTCACTTCAAGATTGA 59.731 38.462 0.00 0.00 34.92 2.57
31 32 7.038445 TCCTTCTCTTCTCACTTCAAGATTGAT 60.038 37.037 0.00 0.00 37.00 2.57
32 33 7.278424 CCTTCTCTTCTCACTTCAAGATTGATC 59.722 40.741 0.00 0.00 37.00 2.92
33 34 7.237209 TCTCTTCTCACTTCAAGATTGATCA 57.763 36.000 0.00 0.00 37.00 2.92
34 35 7.849160 TCTCTTCTCACTTCAAGATTGATCAT 58.151 34.615 0.00 0.00 37.00 2.45
35 36 7.980662 TCTCTTCTCACTTCAAGATTGATCATC 59.019 37.037 0.00 0.00 37.00 2.92
36 37 7.849160 TCTTCTCACTTCAAGATTGATCATCT 58.151 34.615 0.00 0.00 45.03 2.90
37 38 7.980662 TCTTCTCACTTCAAGATTGATCATCTC 59.019 37.037 0.00 0.00 41.93 2.75
38 39 6.271566 TCTCACTTCAAGATTGATCATCTCG 58.728 40.000 0.00 0.00 41.93 4.04
39 40 6.096001 TCTCACTTCAAGATTGATCATCTCGA 59.904 38.462 0.00 0.00 41.93 4.04
40 41 6.271566 TCACTTCAAGATTGATCATCTCGAG 58.728 40.000 5.93 5.93 41.93 4.04
41 42 5.049167 ACTTCAAGATTGATCATCTCGAGC 58.951 41.667 7.81 0.00 41.93 5.03
42 43 3.987547 TCAAGATTGATCATCTCGAGCC 58.012 45.455 7.81 0.00 41.93 4.70
43 44 3.385755 TCAAGATTGATCATCTCGAGCCA 59.614 43.478 7.81 0.00 41.93 4.75
44 45 4.040095 TCAAGATTGATCATCTCGAGCCAT 59.960 41.667 7.81 0.00 41.93 4.40
45 46 4.191033 AGATTGATCATCTCGAGCCATC 57.809 45.455 7.81 9.10 37.79 3.51
46 47 2.827800 TTGATCATCTCGAGCCATCC 57.172 50.000 7.81 0.00 0.00 3.51
47 48 0.600057 TGATCATCTCGAGCCATCCG 59.400 55.000 7.81 0.00 0.00 4.18
48 49 0.600557 GATCATCTCGAGCCATCCGT 59.399 55.000 7.81 0.00 0.00 4.69
49 50 1.000283 GATCATCTCGAGCCATCCGTT 60.000 52.381 7.81 0.00 0.00 4.44
50 51 0.103026 TCATCTCGAGCCATCCGTTG 59.897 55.000 7.81 0.00 0.00 4.10
51 52 0.103026 CATCTCGAGCCATCCGTTGA 59.897 55.000 7.81 0.00 0.00 3.18
52 53 0.387202 ATCTCGAGCCATCCGTTGAG 59.613 55.000 7.81 0.00 0.00 3.02
53 54 1.227089 CTCGAGCCATCCGTTGAGG 60.227 63.158 0.00 0.00 42.97 3.86
54 55 2.202932 CGAGCCATCCGTTGAGGG 60.203 66.667 0.00 0.00 45.38 4.30
55 56 2.990479 GAGCCATCCGTTGAGGGT 59.010 61.111 0.00 0.00 44.42 4.34
62 63 2.899303 ATCCGTTGAGGGTGGAAATT 57.101 45.000 0.00 0.00 41.52 1.82
63 64 2.668144 TCCGTTGAGGGTGGAAATTT 57.332 45.000 0.00 0.00 41.52 1.82
64 65 3.791953 TCCGTTGAGGGTGGAAATTTA 57.208 42.857 0.00 0.00 41.52 1.40
65 66 4.101645 TCCGTTGAGGGTGGAAATTTAA 57.898 40.909 0.00 0.00 41.52 1.52
66 67 4.076394 TCCGTTGAGGGTGGAAATTTAAG 58.924 43.478 0.00 0.00 41.52 1.85
67 68 4.076394 CCGTTGAGGGTGGAAATTTAAGA 58.924 43.478 0.00 0.00 35.97 2.10
68 69 4.521256 CCGTTGAGGGTGGAAATTTAAGAA 59.479 41.667 0.00 0.00 35.97 2.52
69 70 5.185056 CCGTTGAGGGTGGAAATTTAAGAAT 59.815 40.000 0.00 0.00 35.97 2.40
70 71 6.376018 CCGTTGAGGGTGGAAATTTAAGAATA 59.624 38.462 0.00 0.00 35.97 1.75
71 72 7.094118 CCGTTGAGGGTGGAAATTTAAGAATAA 60.094 37.037 0.00 0.00 35.97 1.40
72 73 8.301002 CGTTGAGGGTGGAAATTTAAGAATAAA 58.699 33.333 0.00 0.00 35.57 1.40
100 101 7.730067 GTTTTAAGCAAACTTGTTTAGTCGT 57.270 32.000 0.00 0.00 41.58 4.34
101 102 7.814913 GTTTTAAGCAAACTTGTTTAGTCGTC 58.185 34.615 0.00 0.00 41.58 4.20
102 103 6.913873 TTAAGCAAACTTGTTTAGTCGTCT 57.086 33.333 0.00 0.00 35.72 4.18
103 104 5.813080 AAGCAAACTTGTTTAGTCGTCTT 57.187 34.783 0.00 0.00 35.54 3.01
104 105 5.813080 AGCAAACTTGTTTAGTCGTCTTT 57.187 34.783 0.00 0.00 35.54 2.52
105 106 6.190954 AGCAAACTTGTTTAGTCGTCTTTT 57.809 33.333 0.00 0.00 35.54 2.27
106 107 6.617879 AGCAAACTTGTTTAGTCGTCTTTTT 58.382 32.000 0.00 0.00 35.54 1.94
107 108 6.745907 AGCAAACTTGTTTAGTCGTCTTTTTC 59.254 34.615 0.00 0.00 35.54 2.29
108 109 6.525280 GCAAACTTGTTTAGTCGTCTTTTTCA 59.475 34.615 0.00 0.00 35.54 2.69
109 110 7.061326 GCAAACTTGTTTAGTCGTCTTTTTCAA 59.939 33.333 0.00 0.00 35.54 2.69
110 111 8.907685 CAAACTTGTTTAGTCGTCTTTTTCAAA 58.092 29.630 0.00 0.00 35.54 2.69
111 112 8.443898 AACTTGTTTAGTCGTCTTTTTCAAAC 57.556 30.769 0.00 0.00 35.54 2.93
112 113 7.813645 ACTTGTTTAGTCGTCTTTTTCAAACT 58.186 30.769 6.57 0.00 28.23 2.66
113 114 8.938906 ACTTGTTTAGTCGTCTTTTTCAAACTA 58.061 29.630 6.57 0.34 28.23 2.24
114 115 9.931210 CTTGTTTAGTCGTCTTTTTCAAACTAT 57.069 29.630 6.57 0.00 0.00 2.12
115 116 9.710979 TTGTTTAGTCGTCTTTTTCAAACTATG 57.289 29.630 6.57 0.00 0.00 2.23
116 117 8.885722 TGTTTAGTCGTCTTTTTCAAACTATGT 58.114 29.630 6.57 0.00 0.00 2.29
117 118 9.712359 GTTTAGTCGTCTTTTTCAAACTATGTT 57.288 29.630 0.00 0.00 0.00 2.71
119 120 9.925268 TTAGTCGTCTTTTTCAAACTATGTTTC 57.075 29.630 0.00 0.00 0.00 2.78
120 121 7.981142 AGTCGTCTTTTTCAAACTATGTTTCA 58.019 30.769 0.00 0.00 0.00 2.69
121 122 8.621286 AGTCGTCTTTTTCAAACTATGTTTCAT 58.379 29.630 0.00 0.00 0.00 2.57
122 123 9.233232 GTCGTCTTTTTCAAACTATGTTTCATT 57.767 29.630 0.00 0.00 0.00 2.57
123 124 9.445786 TCGTCTTTTTCAAACTATGTTTCATTC 57.554 29.630 0.00 0.00 0.00 2.67
124 125 9.232082 CGTCTTTTTCAAACTATGTTTCATTCA 57.768 29.630 0.00 0.00 0.00 2.57
168 169 7.334858 TGGGTTTAAATAAATTGGATCTTGGC 58.665 34.615 0.00 0.00 0.00 4.52
169 170 6.478673 GGGTTTAAATAAATTGGATCTTGGCG 59.521 38.462 0.00 0.00 0.00 5.69
170 171 6.478673 GGTTTAAATAAATTGGATCTTGGCGG 59.521 38.462 0.00 0.00 0.00 6.13
171 172 7.262048 GTTTAAATAAATTGGATCTTGGCGGA 58.738 34.615 0.00 0.00 0.00 5.54
172 173 5.520376 AAATAAATTGGATCTTGGCGGAG 57.480 39.130 0.00 0.00 0.00 4.63
173 174 1.767759 AAATTGGATCTTGGCGGAGG 58.232 50.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.788450 TGAAGTGAGAAGAGAAGGATTGAC 58.212 41.667 0.00 0.00 0.00 3.18
1 2 6.268617 TCTTGAAGTGAGAAGAGAAGGATTGA 59.731 38.462 0.00 0.00 0.00 2.57
2 3 6.462500 TCTTGAAGTGAGAAGAGAAGGATTG 58.538 40.000 0.00 0.00 0.00 2.67
3 4 6.678568 TCTTGAAGTGAGAAGAGAAGGATT 57.321 37.500 0.00 0.00 0.00 3.01
4 5 6.872585 ATCTTGAAGTGAGAAGAGAAGGAT 57.127 37.500 0.00 0.00 31.83 3.24
5 6 6.268617 TCAATCTTGAAGTGAGAAGAGAAGGA 59.731 38.462 0.00 0.00 33.55 3.36
6 7 6.462500 TCAATCTTGAAGTGAGAAGAGAAGG 58.538 40.000 0.00 0.00 33.55 3.46
7 8 7.818446 TGATCAATCTTGAAGTGAGAAGAGAAG 59.182 37.037 0.00 0.00 41.13 2.85
8 9 7.674120 TGATCAATCTTGAAGTGAGAAGAGAA 58.326 34.615 0.00 0.00 41.13 2.87
9 10 7.237209 TGATCAATCTTGAAGTGAGAAGAGA 57.763 36.000 0.00 0.00 41.13 3.10
10 11 7.982919 AGATGATCAATCTTGAAGTGAGAAGAG 59.017 37.037 0.00 0.00 43.52 2.85
11 12 7.849160 AGATGATCAATCTTGAAGTGAGAAGA 58.151 34.615 0.00 0.00 43.52 2.87
12 13 7.043258 CGAGATGATCAATCTTGAAGTGAGAAG 60.043 40.741 0.00 0.00 46.34 2.85
13 14 6.755607 CGAGATGATCAATCTTGAAGTGAGAA 59.244 38.462 0.00 0.00 46.34 2.87
14 15 6.271566 CGAGATGATCAATCTTGAAGTGAGA 58.728 40.000 0.00 0.00 46.34 3.27
15 16 6.513609 CGAGATGATCAATCTTGAAGTGAG 57.486 41.667 0.00 0.00 46.34 3.51
22 23 3.725490 TGGCTCGAGATGATCAATCTTG 58.275 45.455 18.75 7.65 46.12 3.02
23 24 4.563168 GGATGGCTCGAGATGATCAATCTT 60.563 45.833 18.75 0.00 46.12 2.40
25 26 3.260740 GGATGGCTCGAGATGATCAATC 58.739 50.000 18.75 6.22 35.29 2.67
26 27 2.353505 CGGATGGCTCGAGATGATCAAT 60.354 50.000 18.75 0.00 0.00 2.57
27 28 1.000171 CGGATGGCTCGAGATGATCAA 60.000 52.381 18.75 0.00 0.00 2.57
28 29 0.600057 CGGATGGCTCGAGATGATCA 59.400 55.000 18.75 0.00 0.00 2.92
29 30 0.600557 ACGGATGGCTCGAGATGATC 59.399 55.000 18.75 12.79 0.00 2.92
30 31 1.043816 AACGGATGGCTCGAGATGAT 58.956 50.000 18.75 3.60 0.00 2.45
31 32 0.103026 CAACGGATGGCTCGAGATGA 59.897 55.000 18.75 0.00 0.00 2.92
32 33 0.103026 TCAACGGATGGCTCGAGATG 59.897 55.000 18.75 0.48 0.00 2.90
33 34 0.387202 CTCAACGGATGGCTCGAGAT 59.613 55.000 18.75 0.41 0.00 2.75
34 35 1.667154 CCTCAACGGATGGCTCGAGA 61.667 60.000 18.75 0.00 33.16 4.04
35 36 1.227089 CCTCAACGGATGGCTCGAG 60.227 63.158 8.45 8.45 33.16 4.04
36 37 2.721167 CCCTCAACGGATGGCTCGA 61.721 63.158 2.94 0.00 33.16 4.04
37 38 2.202932 CCCTCAACGGATGGCTCG 60.203 66.667 0.00 0.00 33.16 5.03
38 39 1.450312 CACCCTCAACGGATGGCTC 60.450 63.158 0.00 0.00 32.49 4.70
39 40 2.671070 CACCCTCAACGGATGGCT 59.329 61.111 0.00 0.00 32.49 4.75
40 41 2.438434 CCACCCTCAACGGATGGC 60.438 66.667 0.00 0.00 32.49 4.40
41 42 0.037590 TTTCCACCCTCAACGGATGG 59.962 55.000 0.00 0.00 35.17 3.51
42 43 2.128771 ATTTCCACCCTCAACGGATG 57.871 50.000 0.00 0.00 33.16 3.51
43 44 2.899303 AATTTCCACCCTCAACGGAT 57.101 45.000 0.00 0.00 33.16 4.18
44 45 2.668144 AAATTTCCACCCTCAACGGA 57.332 45.000 0.00 0.00 33.16 4.69
45 46 4.076394 TCTTAAATTTCCACCCTCAACGG 58.924 43.478 0.00 0.00 0.00 4.44
46 47 5.699097 TTCTTAAATTTCCACCCTCAACG 57.301 39.130 0.00 0.00 0.00 4.10
77 78 7.754625 AGACGACTAAACAAGTTTGCTTAAAA 58.245 30.769 8.37 0.00 39.07 1.52
78 79 7.311364 AGACGACTAAACAAGTTTGCTTAAA 57.689 32.000 8.37 0.00 39.07 1.52
79 80 6.913873 AGACGACTAAACAAGTTTGCTTAA 57.086 33.333 8.37 0.00 39.07 1.85
80 81 6.913873 AAGACGACTAAACAAGTTTGCTTA 57.086 33.333 8.37 0.00 39.07 3.09
81 82 5.813080 AAGACGACTAAACAAGTTTGCTT 57.187 34.783 8.37 0.00 39.07 3.91
82 83 5.813080 AAAGACGACTAAACAAGTTTGCT 57.187 34.783 8.37 0.00 39.07 3.91
83 84 6.525280 TGAAAAAGACGACTAAACAAGTTTGC 59.475 34.615 8.37 0.00 39.07 3.68
84 85 8.442605 TTGAAAAAGACGACTAAACAAGTTTG 57.557 30.769 8.37 1.94 39.07 2.93
85 86 8.908678 GTTTGAAAAAGACGACTAAACAAGTTT 58.091 29.630 3.47 3.47 39.07 2.66
86 87 8.294577 AGTTTGAAAAAGACGACTAAACAAGTT 58.705 29.630 11.05 0.00 39.07 2.66
87 88 7.813645 AGTTTGAAAAAGACGACTAAACAAGT 58.186 30.769 11.05 0.00 42.80 3.16
88 89 9.931210 ATAGTTTGAAAAAGACGACTAAACAAG 57.069 29.630 11.05 0.00 0.00 3.16
89 90 9.710979 CATAGTTTGAAAAAGACGACTAAACAA 57.289 29.630 11.05 3.90 0.00 2.83
90 91 8.885722 ACATAGTTTGAAAAAGACGACTAAACA 58.114 29.630 11.05 0.00 0.00 2.83
91 92 9.712359 AACATAGTTTGAAAAAGACGACTAAAC 57.288 29.630 0.00 0.00 0.00 2.01
93 94 9.925268 GAAACATAGTTTGAAAAAGACGACTAA 57.075 29.630 0.00 0.00 0.00 2.24
94 95 9.100554 TGAAACATAGTTTGAAAAAGACGACTA 57.899 29.630 0.00 0.00 0.00 2.59
95 96 7.981142 TGAAACATAGTTTGAAAAAGACGACT 58.019 30.769 0.00 0.00 0.00 4.18
96 97 8.782533 ATGAAACATAGTTTGAAAAAGACGAC 57.217 30.769 0.00 0.00 0.00 4.34
97 98 9.445786 GAATGAAACATAGTTTGAAAAAGACGA 57.554 29.630 0.00 0.00 0.00 4.20
98 99 9.232082 TGAATGAAACATAGTTTGAAAAAGACG 57.768 29.630 0.00 0.00 0.00 4.18
142 143 7.992608 GCCAAGATCCAATTTATTTAAACCCAT 59.007 33.333 0.00 0.00 0.00 4.00
143 144 7.334858 GCCAAGATCCAATTTATTTAAACCCA 58.665 34.615 0.00 0.00 0.00 4.51
144 145 6.478673 CGCCAAGATCCAATTTATTTAAACCC 59.521 38.462 0.00 0.00 0.00 4.11
145 146 6.478673 CCGCCAAGATCCAATTTATTTAAACC 59.521 38.462 0.00 0.00 0.00 3.27
146 147 7.262048 TCCGCCAAGATCCAATTTATTTAAAC 58.738 34.615 0.00 0.00 0.00 2.01
147 148 7.411486 TCCGCCAAGATCCAATTTATTTAAA 57.589 32.000 0.00 0.00 0.00 1.52
148 149 6.040391 CCTCCGCCAAGATCCAATTTATTTAA 59.960 38.462 0.00 0.00 0.00 1.52
149 150 5.534654 CCTCCGCCAAGATCCAATTTATTTA 59.465 40.000 0.00 0.00 0.00 1.40
150 151 4.342092 CCTCCGCCAAGATCCAATTTATTT 59.658 41.667 0.00 0.00 0.00 1.40
151 152 3.891366 CCTCCGCCAAGATCCAATTTATT 59.109 43.478 0.00 0.00 0.00 1.40
152 153 3.490348 CCTCCGCCAAGATCCAATTTAT 58.510 45.455 0.00 0.00 0.00 1.40
153 154 2.930950 CCTCCGCCAAGATCCAATTTA 58.069 47.619 0.00 0.00 0.00 1.40
154 155 1.767759 CCTCCGCCAAGATCCAATTT 58.232 50.000 0.00 0.00 0.00 1.82
155 156 0.753111 GCCTCCGCCAAGATCCAATT 60.753 55.000 0.00 0.00 0.00 2.32
156 157 1.152881 GCCTCCGCCAAGATCCAAT 60.153 57.895 0.00 0.00 0.00 3.16
157 158 1.852157 AAGCCTCCGCCAAGATCCAA 61.852 55.000 0.00 0.00 34.57 3.53
158 159 2.257409 GAAGCCTCCGCCAAGATCCA 62.257 60.000 0.00 0.00 34.57 3.41
159 160 1.524849 GAAGCCTCCGCCAAGATCC 60.525 63.158 0.00 0.00 34.57 3.36
160 161 1.524849 GGAAGCCTCCGCCAAGATC 60.525 63.158 0.00 0.00 34.57 2.75
161 162 2.592308 GGAAGCCTCCGCCAAGAT 59.408 61.111 0.00 0.00 34.57 2.40
162 163 3.717294 GGGAAGCCTCCGCCAAGA 61.717 66.667 0.00 0.00 43.51 3.02
167 168 2.319890 TTTATCCGGGAAGCCTCCGC 62.320 60.000 0.00 0.00 45.60 5.54
168 169 0.396811 ATTTATCCGGGAAGCCTCCG 59.603 55.000 0.00 0.00 43.51 4.63
169 170 3.782656 TTATTTATCCGGGAAGCCTCC 57.217 47.619 0.00 0.00 41.59 4.30
170 171 4.715713 AGTTTATTTATCCGGGAAGCCTC 58.284 43.478 0.00 0.00 0.00 4.70
171 172 4.790718 AGTTTATTTATCCGGGAAGCCT 57.209 40.909 0.00 0.00 0.00 4.58
172 173 6.235664 TGATAGTTTATTTATCCGGGAAGCC 58.764 40.000 0.00 0.00 0.00 4.35
173 174 7.308408 GGTTGATAGTTTATTTATCCGGGAAGC 60.308 40.741 0.00 0.00 0.00 3.86
174 175 7.937394 AGGTTGATAGTTTATTTATCCGGGAAG 59.063 37.037 0.00 0.00 0.00 3.46
175 176 7.808218 AGGTTGATAGTTTATTTATCCGGGAA 58.192 34.615 0.00 0.00 0.00 3.97
176 177 7.383156 AGGTTGATAGTTTATTTATCCGGGA 57.617 36.000 0.00 0.00 0.00 5.14
177 178 6.653740 GGAGGTTGATAGTTTATTTATCCGGG 59.346 42.308 0.00 0.00 0.00 5.73
178 179 7.221450 TGGAGGTTGATAGTTTATTTATCCGG 58.779 38.462 0.00 0.00 0.00 5.14
179 180 8.671384 TTGGAGGTTGATAGTTTATTTATCCG 57.329 34.615 0.00 0.00 0.00 4.18
757 759 2.980476 CCGCATGTGTAGAATACTAGCG 59.020 50.000 5.38 0.00 43.54 4.26
1245 1250 7.672240 TCTCGGCTTTTACCCATTTTAATTTT 58.328 30.769 0.00 0.00 0.00 1.82
1246 1251 7.234661 TCTCGGCTTTTACCCATTTTAATTT 57.765 32.000 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.