Multiple sequence alignment - TraesCS6B01G107800

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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 TraesCS6B01G107800 chr6B 100.000 2222 0 0 1 2222 88410509 88412730 0.000000e+00 4104.0
1 TraesCS6B01G107800 chr6B 98.238 1419 20 5 808 2222 88353002 88354419 0.000000e+00 2477.0
2 TraesCS6B01G107800 chr6B 99.608 255 1 0 1 255 88402343 88402597 1.200000e-127 466.0
3 TraesCS6B01G107800 chr6B 100.000 35 0 0 1358 1392 88353606 88353640 5.120000e-07 65.8
4 TraesCS6B01G107800 chr6A 89.697 825 62 13 1409 2215 49128738 49129557 0.000000e+00 1031.0
5 TraesCS6B01G107800 chr6A 98.927 559 5 1 249 807 44982353 44982910 0.000000e+00 998.0
6 TraesCS6B01G107800 chr6A 98.214 560 9 1 249 808 604313503 604312945 0.000000e+00 977.0
7 TraesCS6B01G107800 chr6A 89.661 619 26 9 808 1425 49128101 49128682 0.000000e+00 754.0
8 TraesCS6B01G107800 chr6A 99.608 255 1 0 1 255 398591828 398592082 1.200000e-127 466.0
9 TraesCS6B01G107800 chr6A 99.608 255 1 0 1 255 398600750 398601004 1.200000e-127 466.0
10 TraesCS6B01G107800 chrUn 99.091 550 5 0 258 807 264011691 264011142 0.000000e+00 989.0
11 TraesCS6B01G107800 chrUn 99.091 550 5 0 258 807 294198165 294197616 0.000000e+00 989.0
12 TraesCS6B01G107800 chrUn 99.608 255 1 0 1 255 376750983 376750729 1.200000e-127 466.0
13 TraesCS6B01G107800 chrUn 99.608 255 1 0 1 255 441182575 441182829 1.200000e-127 466.0
14 TraesCS6B01G107800 chrUn 99.608 255 1 0 1 255 466155395 466155141 1.200000e-127 466.0
15 TraesCS6B01G107800 chr1B 98.571 560 7 1 249 808 333603555 333602997 0.000000e+00 989.0
16 TraesCS6B01G107800 chr1B 84.151 265 35 5 1712 1971 635951200 635951462 1.320000e-62 250.0
17 TraesCS6B01G107800 chr7A 98.569 559 6 2 249 806 22019314 22018757 0.000000e+00 987.0
18 TraesCS6B01G107800 chr7A 99.609 256 1 0 1 256 42275144 42274889 3.340000e-128 468.0
19 TraesCS6B01G107800 chr2A 98.396 561 8 1 249 809 762150436 762150995 0.000000e+00 985.0
20 TraesCS6B01G107800 chr2A 98.214 560 9 1 249 808 736253033 736252475 0.000000e+00 977.0
21 TraesCS6B01G107800 chr7B 98.214 560 9 1 249 808 57199645 57199087 0.000000e+00 977.0
22 TraesCS6B01G107800 chr7B 88.095 252 27 2 1972 2222 707860834 707861083 1.670000e-76 296.0
23 TraesCS6B01G107800 chr7B 84.404 218 32 2 1712 1928 707860532 707860748 1.730000e-51 213.0
24 TraesCS6B01G107800 chr6D 94.271 576 20 7 1227 1794 37709633 37710203 0.000000e+00 869.0
25 TraesCS6B01G107800 chr6D 95.052 384 14 1 847 1230 37709102 37709480 1.140000e-167 599.0
26 TraesCS6B01G107800 chr6D 95.312 64 3 0 2095 2158 37712544 37712481 3.900000e-18 102.0
27 TraesCS6B01G107800 chr6D 96.875 32 1 0 2147 2178 37712804 37712835 1.000000e-03 54.7
28 TraesCS6B01G107800 chr4A 99.609 256 1 0 1 256 119188931 119188676 3.340000e-128 468.0
29 TraesCS6B01G107800 chr4A 99.608 255 1 0 1 255 119197008 119196754 1.200000e-127 466.0
30 TraesCS6B01G107800 chr4A 87.550 249 29 2 1974 2222 540022738 540022984 1.000000e-73 287.0
31 TraesCS6B01G107800 chr3D 88.755 249 26 2 1974 2222 103663458 103663704 9.970000e-79 303.0
32 TraesCS6B01G107800 chr5D 87.952 249 28 2 1974 2222 438686447 438686693 2.160000e-75 292.0
33 TraesCS6B01G107800 chr5D 83.774 265 37 4 1712 1971 438686142 438686405 1.700000e-61 246.0
34 TraesCS6B01G107800 chr2D 87.952 249 28 2 1974 2222 585121875 585121629 2.160000e-75 292.0
35 TraesCS6B01G107800 chr2D 87.952 249 28 2 1974 2222 598077720 598077474 2.160000e-75 292.0
36 TraesCS6B01G107800 chr2D 83.955 268 37 4 1712 1974 585122180 585121914 3.660000e-63 252.0
37 TraesCS6B01G107800 chr2D 83.955 268 37 4 1712 1974 598078025 598077759 3.660000e-63 252.0
38 TraesCS6B01G107800 chr4D 87.550 249 29 2 1974 2222 449045779 449045533 1.000000e-73 287.0
39 TraesCS6B01G107800 chr4D 83.955 268 37 4 1712 1974 449046084 449045818 3.660000e-63 252.0
40 TraesCS6B01G107800 chr7D 87.302 252 29 3 1972 2222 24343887 24343638 3.610000e-73 285.0
41 TraesCS6B01G107800 chr7D 83.955 268 37 4 1712 1974 24344189 24343923 3.660000e-63 252.0
42 TraesCS6B01G107800 chr7D 84.151 265 36 4 1712 1971 32054071 32054334 3.660000e-63 252.0
43 TraesCS6B01G107800 chr7D 87.019 208 27 0 1974 2181 32054376 32054583 3.690000e-58 235.0
44 TraesCS6B01G107800 chr3B 83.955 268 37 4 1712 1974 14933094 14932828 3.660000e-63 252.0
45 TraesCS6B01G107800 chr5B 83.582 268 38 4 1712 1974 386035214 386034948 1.700000e-61 246.0


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 TraesCS6B01G107800 chr6B 88410509 88412730 2221 False 4104.000000 4104 100.000000 1 2222 1 chr6B.!!$F2 2221
1 TraesCS6B01G107800 chr6B 88353002 88354419 1417 False 1271.400000 2477 99.119000 808 2222 2 chr6B.!!$F3 1414
2 TraesCS6B01G107800 chr6A 44982353 44982910 557 False 998.000000 998 98.927000 249 807 1 chr6A.!!$F1 558
3 TraesCS6B01G107800 chr6A 604312945 604313503 558 True 977.000000 977 98.214000 249 808 1 chr6A.!!$R1 559
4 TraesCS6B01G107800 chr6A 49128101 49129557 1456 False 892.500000 1031 89.679000 808 2215 2 chr6A.!!$F4 1407
5 TraesCS6B01G107800 chrUn 264011142 264011691 549 True 989.000000 989 99.091000 258 807 1 chrUn.!!$R1 549
6 TraesCS6B01G107800 chrUn 294197616 294198165 549 True 989.000000 989 99.091000 258 807 1 chrUn.!!$R2 549
7 TraesCS6B01G107800 chr1B 333602997 333603555 558 True 989.000000 989 98.571000 249 808 1 chr1B.!!$R1 559
8 TraesCS6B01G107800 chr7A 22018757 22019314 557 True 987.000000 987 98.569000 249 806 1 chr7A.!!$R1 557
9 TraesCS6B01G107800 chr2A 762150436 762150995 559 False 985.000000 985 98.396000 249 809 1 chr2A.!!$F1 560
10 TraesCS6B01G107800 chr2A 736252475 736253033 558 True 977.000000 977 98.214000 249 808 1 chr2A.!!$R1 559
11 TraesCS6B01G107800 chr7B 57199087 57199645 558 True 977.000000 977 98.214000 249 808 1 chr7B.!!$R1 559
12 TraesCS6B01G107800 chr7B 707860532 707861083 551 False 254.500000 296 86.249500 1712 2222 2 chr7B.!!$F1 510
13 TraesCS6B01G107800 chr6D 37709102 37712835 3733 False 507.566667 869 95.399333 847 2178 3 chr6D.!!$F1 1331
14 TraesCS6B01G107800 chr5D 438686142 438686693 551 False 269.000000 292 85.863000 1712 2222 2 chr5D.!!$F1 510
15 TraesCS6B01G107800 chr2D 585121629 585122180 551 True 272.000000 292 85.953500 1712 2222 2 chr2D.!!$R1 510
16 TraesCS6B01G107800 chr2D 598077474 598078025 551 True 272.000000 292 85.953500 1712 2222 2 chr2D.!!$R2 510
17 TraesCS6B01G107800 chr4D 449045533 449046084 551 True 269.500000 287 85.752500 1712 2222 2 chr4D.!!$R1 510
18 TraesCS6B01G107800 chr7D 24343638 24344189 551 True 268.500000 285 85.628500 1712 2222 2 chr7D.!!$R1 510
19 TraesCS6B01G107800 chr7D 32054071 32054583 512 False 243.500000 252 85.585000 1712 2181 2 chr7D.!!$F1 469

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
211 212 0.248012 TAATCGTGGTGACGTGGCAT 59.752 50.0 0.0 0.0 46.2 4.40 F
218 219 0.657840 GGTGACGTGGCATCATTAGC 59.342 55.0 0.0 0.0 0.0 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1195 1197 1.899437 ATGACAGGGACGGTTGCGAT 61.899 55.0 0.0 0.0 36.51 4.58 R
1843 2146 6.320434 TGAAGGACCACCAACATGAATATA 57.680 37.5 0.0 0.0 38.94 0.86 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
28 29 8.460831 ACCGACAGTTTTAATTAATTGAATGC 57.539 30.769 11.05 5.55 0.00 3.56
29 30 8.085296 ACCGACAGTTTTAATTAATTGAATGCA 58.915 29.630 11.05 0.00 0.00 3.96
30 31 9.086336 CCGACAGTTTTAATTAATTGAATGCAT 57.914 29.630 11.05 0.00 0.00 3.96
61 62 8.875168 ACATTTTATAAAAATGTGGTTCCTCCA 58.125 29.630 23.06 0.00 45.86 3.86
68 69 4.348684 TGGTTCCTCCACCACCAT 57.651 55.556 0.00 0.00 42.27 3.55
69 70 2.562953 TGGTTCCTCCACCACCATT 58.437 52.632 0.00 0.00 42.27 3.16
70 71 1.748732 TGGTTCCTCCACCACCATTA 58.251 50.000 0.00 0.00 42.27 1.90
71 72 1.353022 TGGTTCCTCCACCACCATTAC 59.647 52.381 0.00 0.00 42.27 1.89
72 73 1.633945 GGTTCCTCCACCACCATTACT 59.366 52.381 0.00 0.00 36.73 2.24
73 74 2.041216 GGTTCCTCCACCACCATTACTT 59.959 50.000 0.00 0.00 36.73 2.24
74 75 3.264964 GGTTCCTCCACCACCATTACTTA 59.735 47.826 0.00 0.00 36.73 2.24
75 76 4.079958 GGTTCCTCCACCACCATTACTTAT 60.080 45.833 0.00 0.00 36.73 1.73
76 77 4.771114 TCCTCCACCACCATTACTTATG 57.229 45.455 0.00 0.00 0.00 1.90
77 78 4.367166 TCCTCCACCACCATTACTTATGA 58.633 43.478 0.00 0.00 36.26 2.15
78 79 4.785914 TCCTCCACCACCATTACTTATGAA 59.214 41.667 0.00 0.00 36.26 2.57
79 80 5.431731 TCCTCCACCACCATTACTTATGAAT 59.568 40.000 0.00 0.00 36.26 2.57
80 81 6.069088 TCCTCCACCACCATTACTTATGAATT 60.069 38.462 0.00 0.00 36.26 2.17
81 82 7.128109 TCCTCCACCACCATTACTTATGAATTA 59.872 37.037 0.00 0.00 36.26 1.40
82 83 7.944554 CCTCCACCACCATTACTTATGAATTAT 59.055 37.037 0.00 0.00 36.26 1.28
83 84 9.354673 CTCCACCACCATTACTTATGAATTATT 57.645 33.333 0.00 0.00 36.26 1.40
84 85 9.707957 TCCACCACCATTACTTATGAATTATTT 57.292 29.630 0.00 0.00 36.26 1.40
85 86 9.748708 CCACCACCATTACTTATGAATTATTTG 57.251 33.333 0.00 0.00 36.26 2.32
135 136 9.751542 TGACTTTTGAAAACTTTAACTGTTTGA 57.248 25.926 0.00 0.00 37.64 2.69
137 138 9.758651 ACTTTTGAAAACTTTAACTGTTTGACT 57.241 25.926 0.00 0.00 37.64 3.41
167 168 9.928236 TTTTGAATTTGAATTTGAATCGGTTTC 57.072 25.926 0.00 0.00 34.72 2.78
168 169 7.332003 TGAATTTGAATTTGAATCGGTTTCG 57.668 32.000 0.00 0.00 37.13 3.46
186 187 4.742438 TTCGAACCAATGTGAGTTTAGC 57.258 40.909 0.00 0.00 0.00 3.09
187 188 3.734463 TCGAACCAATGTGAGTTTAGCA 58.266 40.909 0.00 0.00 0.00 3.49
188 189 4.130857 TCGAACCAATGTGAGTTTAGCAA 58.869 39.130 0.00 0.00 0.00 3.91
189 190 4.024387 TCGAACCAATGTGAGTTTAGCAAC 60.024 41.667 0.00 0.00 0.00 4.17
190 191 4.260990 CGAACCAATGTGAGTTTAGCAACA 60.261 41.667 0.00 0.00 35.05 3.33
191 192 4.836125 ACCAATGTGAGTTTAGCAACAG 57.164 40.909 0.00 0.00 35.05 3.16
192 193 4.207165 ACCAATGTGAGTTTAGCAACAGT 58.793 39.130 0.00 0.00 35.05 3.55
193 194 5.373222 ACCAATGTGAGTTTAGCAACAGTA 58.627 37.500 0.00 0.00 35.05 2.74
194 195 5.825679 ACCAATGTGAGTTTAGCAACAGTAA 59.174 36.000 0.00 0.00 35.05 2.24
195 196 6.490040 ACCAATGTGAGTTTAGCAACAGTAAT 59.510 34.615 0.00 0.00 35.05 1.89
196 197 7.023575 CCAATGTGAGTTTAGCAACAGTAATC 58.976 38.462 0.00 0.00 35.05 1.75
197 198 5.839262 TGTGAGTTTAGCAACAGTAATCG 57.161 39.130 0.00 0.00 35.05 3.34
198 199 5.294356 TGTGAGTTTAGCAACAGTAATCGT 58.706 37.500 0.00 0.00 35.05 3.73
199 200 5.176774 TGTGAGTTTAGCAACAGTAATCGTG 59.823 40.000 0.00 0.00 35.05 4.35
200 201 4.688879 TGAGTTTAGCAACAGTAATCGTGG 59.311 41.667 0.00 0.00 35.05 4.94
201 202 4.638304 AGTTTAGCAACAGTAATCGTGGT 58.362 39.130 0.00 0.00 35.05 4.16
202 203 4.451096 AGTTTAGCAACAGTAATCGTGGTG 59.549 41.667 0.00 0.00 35.58 4.17
203 204 2.831685 AGCAACAGTAATCGTGGTGA 57.168 45.000 0.00 0.00 34.25 4.02
204 205 2.413837 AGCAACAGTAATCGTGGTGAC 58.586 47.619 0.00 0.00 34.25 3.67
205 206 8.708205 GTTTAGCAACAGTAATCGTGGTGACG 62.708 46.154 0.00 0.00 38.68 4.35
206 207 2.400399 CAACAGTAATCGTGGTGACGT 58.600 47.619 0.00 0.00 46.20 4.34
207 208 2.060326 ACAGTAATCGTGGTGACGTG 57.940 50.000 0.00 0.00 46.20 4.49
208 209 1.336517 ACAGTAATCGTGGTGACGTGG 60.337 52.381 0.00 0.00 46.20 4.94
209 210 0.389426 AGTAATCGTGGTGACGTGGC 60.389 55.000 0.00 0.00 46.20 5.01
210 211 0.668096 GTAATCGTGGTGACGTGGCA 60.668 55.000 0.00 0.00 46.20 4.92
211 212 0.248012 TAATCGTGGTGACGTGGCAT 59.752 50.000 0.00 0.00 46.20 4.40
212 213 1.019278 AATCGTGGTGACGTGGCATC 61.019 55.000 0.00 0.00 46.20 3.91
213 214 2.166130 ATCGTGGTGACGTGGCATCA 62.166 55.000 0.00 0.00 46.20 3.07
214 215 1.741401 CGTGGTGACGTGGCATCAT 60.741 57.895 0.00 0.00 40.91 2.45
215 216 1.298157 CGTGGTGACGTGGCATCATT 61.298 55.000 0.00 0.00 40.91 2.57
216 217 1.732941 GTGGTGACGTGGCATCATTA 58.267 50.000 0.00 0.00 30.53 1.90
217 218 1.665679 GTGGTGACGTGGCATCATTAG 59.334 52.381 0.00 0.00 30.53 1.73
218 219 0.657840 GGTGACGTGGCATCATTAGC 59.342 55.000 0.00 0.00 0.00 3.09
219 220 1.368641 GTGACGTGGCATCATTAGCA 58.631 50.000 0.00 0.00 0.00 3.49
220 221 1.737236 GTGACGTGGCATCATTAGCAA 59.263 47.619 0.00 0.00 0.00 3.91
221 222 2.161410 GTGACGTGGCATCATTAGCAAA 59.839 45.455 0.00 0.00 0.00 3.68
222 223 2.419673 TGACGTGGCATCATTAGCAAAG 59.580 45.455 0.00 0.00 0.00 2.77
223 224 1.745087 ACGTGGCATCATTAGCAAAGG 59.255 47.619 0.00 0.00 0.00 3.11
224 225 1.745087 CGTGGCATCATTAGCAAAGGT 59.255 47.619 0.00 0.00 0.00 3.50
225 226 2.164219 CGTGGCATCATTAGCAAAGGTT 59.836 45.455 0.00 0.00 0.00 3.50
226 227 3.367292 CGTGGCATCATTAGCAAAGGTTT 60.367 43.478 0.00 0.00 0.00 3.27
227 228 4.142491 CGTGGCATCATTAGCAAAGGTTTA 60.142 41.667 0.00 0.00 0.00 2.01
228 229 5.102313 GTGGCATCATTAGCAAAGGTTTAC 58.898 41.667 0.00 0.00 0.00 2.01
229 230 5.016173 TGGCATCATTAGCAAAGGTTTACT 58.984 37.500 0.00 0.00 0.00 2.24
230 231 5.105797 TGGCATCATTAGCAAAGGTTTACTG 60.106 40.000 0.00 0.00 0.00 2.74
231 232 5.105756 GGCATCATTAGCAAAGGTTTACTGT 60.106 40.000 0.00 0.00 0.00 3.55
232 233 6.094881 GGCATCATTAGCAAAGGTTTACTGTA 59.905 38.462 0.00 0.00 0.00 2.74
233 234 7.189512 GCATCATTAGCAAAGGTTTACTGTAG 58.810 38.462 0.00 0.00 0.00 2.74
234 235 6.737254 TCATTAGCAAAGGTTTACTGTAGC 57.263 37.500 0.00 0.00 0.00 3.58
235 236 6.472887 TCATTAGCAAAGGTTTACTGTAGCT 58.527 36.000 0.00 0.00 36.05 3.32
236 237 6.940298 TCATTAGCAAAGGTTTACTGTAGCTT 59.060 34.615 0.00 0.00 34.52 3.74
237 238 6.554334 TTAGCAAAGGTTTACTGTAGCTTG 57.446 37.500 0.00 0.00 33.92 4.01
238 239 4.714632 AGCAAAGGTTTACTGTAGCTTGA 58.285 39.130 0.00 0.00 33.92 3.02
239 240 5.316987 AGCAAAGGTTTACTGTAGCTTGAT 58.683 37.500 0.00 0.00 33.92 2.57
240 241 5.770162 AGCAAAGGTTTACTGTAGCTTGATT 59.230 36.000 0.00 0.00 33.92 2.57
241 242 6.940298 AGCAAAGGTTTACTGTAGCTTGATTA 59.060 34.615 0.00 0.00 33.92 1.75
242 243 7.611855 AGCAAAGGTTTACTGTAGCTTGATTAT 59.388 33.333 0.00 0.00 33.92 1.28
243 244 7.910683 GCAAAGGTTTACTGTAGCTTGATTATC 59.089 37.037 0.00 0.00 33.92 1.75
244 245 8.398665 CAAAGGTTTACTGTAGCTTGATTATCC 58.601 37.037 0.00 0.00 33.92 2.59
245 246 6.281405 AGGTTTACTGTAGCTTGATTATCCG 58.719 40.000 0.00 0.00 0.00 4.18
246 247 5.465724 GGTTTACTGTAGCTTGATTATCCGG 59.534 44.000 0.00 0.00 0.00 5.14
247 248 6.278363 GTTTACTGTAGCTTGATTATCCGGA 58.722 40.000 6.61 6.61 0.00 5.14
248 249 4.323553 ACTGTAGCTTGATTATCCGGAC 57.676 45.455 6.12 0.00 0.00 4.79
249 250 3.243434 ACTGTAGCTTGATTATCCGGACG 60.243 47.826 6.12 0.00 0.00 4.79
250 251 2.691526 TGTAGCTTGATTATCCGGACGT 59.308 45.455 6.12 0.00 0.00 4.34
251 252 2.510768 AGCTTGATTATCCGGACGTC 57.489 50.000 6.12 7.13 0.00 4.34
252 253 1.754803 AGCTTGATTATCCGGACGTCA 59.245 47.619 18.91 8.88 0.00 4.35
253 254 1.859080 GCTTGATTATCCGGACGTCAC 59.141 52.381 18.91 5.92 0.00 3.67
254 255 2.737359 GCTTGATTATCCGGACGTCACA 60.737 50.000 18.91 0.63 0.00 3.58
437 438 2.280592 GGTGGTCGTCGTTTGGCT 60.281 61.111 0.00 0.00 0.00 4.75
750 752 9.273016 GGTCCTCGAGAATAATCAATAAAATGA 57.727 33.333 15.71 0.00 0.00 2.57
1332 1498 1.011968 TATCGCAAGTTCGCAACGCT 61.012 50.000 0.00 0.00 36.23 5.07
1843 2146 9.942850 AAAAGTGCAATAACCTAAAGCAATTAT 57.057 25.926 0.00 0.00 41.78 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.085296 TGCATTCAATTAATTAAAACTGTCGGT 58.915 29.630 1.21 0.00 0.00 4.69
4 5 8.459521 TGCATTCAATTAATTAAAACTGTCGG 57.540 30.769 1.21 0.00 0.00 4.79
34 35 9.366216 GGAGGAACCACATTTTTATAAAATGTC 57.634 33.333 21.34 13.31 45.87 3.06
52 53 1.633945 AGTAATGGTGGTGGAGGAACC 59.366 52.381 0.00 0.00 40.94 3.62
53 54 3.434940 AAGTAATGGTGGTGGAGGAAC 57.565 47.619 0.00 0.00 0.00 3.62
54 55 4.785914 TCATAAGTAATGGTGGTGGAGGAA 59.214 41.667 0.00 0.00 36.15 3.36
55 56 4.367166 TCATAAGTAATGGTGGTGGAGGA 58.633 43.478 0.00 0.00 36.15 3.71
56 57 4.771114 TCATAAGTAATGGTGGTGGAGG 57.229 45.455 0.00 0.00 36.15 4.30
57 58 8.924511 ATAATTCATAAGTAATGGTGGTGGAG 57.075 34.615 0.00 0.00 36.15 3.86
58 59 9.707957 AAATAATTCATAAGTAATGGTGGTGGA 57.292 29.630 0.00 0.00 36.15 4.02
59 60 9.748708 CAAATAATTCATAAGTAATGGTGGTGG 57.251 33.333 0.00 0.00 36.15 4.61
109 110 9.751542 TCAAACAGTTAAAGTTTTCAAAAGTCA 57.248 25.926 0.00 0.00 37.10 3.41
111 112 9.758651 AGTCAAACAGTTAAAGTTTTCAAAAGT 57.241 25.926 0.00 0.00 37.10 2.66
141 142 9.928236 GAAACCGATTCAAATTCAAATTCAAAA 57.072 25.926 0.00 0.00 37.99 2.44
142 143 8.272176 CGAAACCGATTCAAATTCAAATTCAAA 58.728 29.630 0.00 0.00 37.96 2.69
143 144 7.649705 TCGAAACCGATTCAAATTCAAATTCAA 59.350 29.630 0.00 0.00 37.96 2.69
144 145 7.142021 TCGAAACCGATTCAAATTCAAATTCA 58.858 30.769 0.00 0.00 37.96 2.57
145 146 7.561237 TCGAAACCGATTCAAATTCAAATTC 57.439 32.000 0.00 0.00 37.96 2.17
146 147 7.095816 GGTTCGAAACCGATTCAAATTCAAATT 60.096 33.333 0.32 0.00 42.62 1.82
147 148 6.364976 GGTTCGAAACCGATTCAAATTCAAAT 59.635 34.615 0.32 0.00 42.62 2.32
148 149 5.688176 GGTTCGAAACCGATTCAAATTCAAA 59.312 36.000 0.32 0.00 42.62 2.69
149 150 5.216648 GGTTCGAAACCGATTCAAATTCAA 58.783 37.500 0.32 0.00 42.62 2.69
150 151 4.789784 GGTTCGAAACCGATTCAAATTCA 58.210 39.130 0.32 0.00 42.62 2.57
163 164 4.909880 GCTAAACTCACATTGGTTCGAAAC 59.090 41.667 6.16 6.16 0.00 2.78
164 165 4.576873 TGCTAAACTCACATTGGTTCGAAA 59.423 37.500 0.00 0.00 0.00 3.46
165 166 4.130857 TGCTAAACTCACATTGGTTCGAA 58.869 39.130 0.00 0.00 0.00 3.71
166 167 3.734463 TGCTAAACTCACATTGGTTCGA 58.266 40.909 0.00 0.00 0.00 3.71
167 168 4.219033 GTTGCTAAACTCACATTGGTTCG 58.781 43.478 0.00 0.00 33.22 3.95
168 169 5.181690 TGTTGCTAAACTCACATTGGTTC 57.818 39.130 0.00 0.00 37.19 3.62
169 170 4.644685 ACTGTTGCTAAACTCACATTGGTT 59.355 37.500 0.00 0.00 37.19 3.67
170 171 4.207165 ACTGTTGCTAAACTCACATTGGT 58.793 39.130 0.00 0.00 37.19 3.67
171 172 4.836125 ACTGTTGCTAAACTCACATTGG 57.164 40.909 0.00 0.00 37.19 3.16
172 173 6.738200 CGATTACTGTTGCTAAACTCACATTG 59.262 38.462 0.00 0.00 37.19 2.82
173 174 6.426937 ACGATTACTGTTGCTAAACTCACATT 59.573 34.615 0.00 0.00 37.19 2.71
174 175 5.932303 ACGATTACTGTTGCTAAACTCACAT 59.068 36.000 0.00 0.00 37.19 3.21
175 176 5.176774 CACGATTACTGTTGCTAAACTCACA 59.823 40.000 0.00 0.00 37.19 3.58
176 177 5.389516 CCACGATTACTGTTGCTAAACTCAC 60.390 44.000 0.00 0.00 37.19 3.51
177 178 4.688879 CCACGATTACTGTTGCTAAACTCA 59.311 41.667 0.00 0.00 37.19 3.41
178 179 4.689345 ACCACGATTACTGTTGCTAAACTC 59.311 41.667 0.00 0.00 37.19 3.01
179 180 4.451096 CACCACGATTACTGTTGCTAAACT 59.549 41.667 0.00 0.00 37.19 2.66
180 181 4.449743 TCACCACGATTACTGTTGCTAAAC 59.550 41.667 0.00 0.00 36.78 2.01
181 182 4.449743 GTCACCACGATTACTGTTGCTAAA 59.550 41.667 0.00 0.00 0.00 1.85
182 183 3.991773 GTCACCACGATTACTGTTGCTAA 59.008 43.478 0.00 0.00 0.00 3.09
183 184 3.581755 GTCACCACGATTACTGTTGCTA 58.418 45.455 0.00 0.00 0.00 3.49
184 185 2.413837 GTCACCACGATTACTGTTGCT 58.586 47.619 0.00 0.00 0.00 3.91
185 186 2.875080 GTCACCACGATTACTGTTGC 57.125 50.000 0.00 0.00 0.00 4.17
197 198 1.665679 CTAATGATGCCACGTCACCAC 59.334 52.381 0.00 0.00 0.00 4.16
198 199 2.011548 GCTAATGATGCCACGTCACCA 61.012 52.381 0.00 0.00 0.00 4.17
199 200 0.657840 GCTAATGATGCCACGTCACC 59.342 55.000 0.00 0.00 0.00 4.02
200 201 1.368641 TGCTAATGATGCCACGTCAC 58.631 50.000 0.00 0.00 0.00 3.67
201 202 2.106477 TTGCTAATGATGCCACGTCA 57.894 45.000 0.00 0.00 0.00 4.35
202 203 2.223340 CCTTTGCTAATGATGCCACGTC 60.223 50.000 0.00 0.00 0.00 4.34
203 204 1.745087 CCTTTGCTAATGATGCCACGT 59.255 47.619 0.00 0.00 0.00 4.49
204 205 1.745087 ACCTTTGCTAATGATGCCACG 59.255 47.619 0.00 0.00 0.00 4.94
205 206 3.874392 AACCTTTGCTAATGATGCCAC 57.126 42.857 0.00 0.00 0.00 5.01
206 207 5.016173 AGTAAACCTTTGCTAATGATGCCA 58.984 37.500 0.00 0.00 31.18 4.92
207 208 5.105756 ACAGTAAACCTTTGCTAATGATGCC 60.106 40.000 0.00 0.00 31.75 4.40
208 209 5.954335 ACAGTAAACCTTTGCTAATGATGC 58.046 37.500 0.00 0.00 31.75 3.91
209 210 7.066284 AGCTACAGTAAACCTTTGCTAATGATG 59.934 37.037 0.00 0.00 31.75 3.07
210 211 7.112779 AGCTACAGTAAACCTTTGCTAATGAT 58.887 34.615 0.00 0.00 31.75 2.45
211 212 6.472887 AGCTACAGTAAACCTTTGCTAATGA 58.527 36.000 0.00 0.00 31.75 2.57
212 213 6.743575 AGCTACAGTAAACCTTTGCTAATG 57.256 37.500 0.00 0.00 31.75 1.90
213 214 6.940298 TCAAGCTACAGTAAACCTTTGCTAAT 59.060 34.615 0.00 0.00 31.75 1.73
214 215 6.292923 TCAAGCTACAGTAAACCTTTGCTAA 58.707 36.000 0.00 0.00 31.75 3.09
215 216 5.860611 TCAAGCTACAGTAAACCTTTGCTA 58.139 37.500 0.00 0.00 31.75 3.49
216 217 4.714632 TCAAGCTACAGTAAACCTTTGCT 58.285 39.130 0.00 0.00 33.23 3.91
217 218 5.629079 ATCAAGCTACAGTAAACCTTTGC 57.371 39.130 0.00 0.00 0.00 3.68
218 219 8.398665 GGATAATCAAGCTACAGTAAACCTTTG 58.601 37.037 0.00 0.00 0.00 2.77
219 220 7.280205 CGGATAATCAAGCTACAGTAAACCTTT 59.720 37.037 0.00 0.00 0.00 3.11
220 221 6.761714 CGGATAATCAAGCTACAGTAAACCTT 59.238 38.462 0.00 0.00 0.00 3.50
221 222 6.281405 CGGATAATCAAGCTACAGTAAACCT 58.719 40.000 0.00 0.00 0.00 3.50
222 223 5.465724 CCGGATAATCAAGCTACAGTAAACC 59.534 44.000 0.00 0.00 0.00 3.27
223 224 6.200475 GTCCGGATAATCAAGCTACAGTAAAC 59.800 42.308 7.81 0.00 0.00 2.01
224 225 6.278363 GTCCGGATAATCAAGCTACAGTAAA 58.722 40.000 7.81 0.00 0.00 2.01
225 226 5.506815 CGTCCGGATAATCAAGCTACAGTAA 60.507 44.000 7.81 0.00 0.00 2.24
226 227 4.023450 CGTCCGGATAATCAAGCTACAGTA 60.023 45.833 7.81 0.00 0.00 2.74
227 228 3.243434 CGTCCGGATAATCAAGCTACAGT 60.243 47.826 7.81 0.00 0.00 3.55
228 229 3.243434 ACGTCCGGATAATCAAGCTACAG 60.243 47.826 7.81 0.00 0.00 2.74
229 230 2.691526 ACGTCCGGATAATCAAGCTACA 59.308 45.455 7.81 0.00 0.00 2.74
230 231 3.243301 TGACGTCCGGATAATCAAGCTAC 60.243 47.826 14.12 0.00 0.00 3.58
231 232 2.953648 TGACGTCCGGATAATCAAGCTA 59.046 45.455 14.12 0.00 0.00 3.32
232 233 1.754803 TGACGTCCGGATAATCAAGCT 59.245 47.619 14.12 0.00 0.00 3.74
233 234 1.859080 GTGACGTCCGGATAATCAAGC 59.141 52.381 14.12 0.00 0.00 4.01
234 235 3.116300 CTGTGACGTCCGGATAATCAAG 58.884 50.000 14.12 8.47 0.00 3.02
235 236 2.737359 GCTGTGACGTCCGGATAATCAA 60.737 50.000 14.12 2.95 0.00 2.57
236 237 1.202371 GCTGTGACGTCCGGATAATCA 60.202 52.381 14.12 9.41 0.00 2.57
237 238 1.067212 AGCTGTGACGTCCGGATAATC 59.933 52.381 14.12 6.52 0.00 1.75
238 239 1.067212 GAGCTGTGACGTCCGGATAAT 59.933 52.381 14.12 0.00 0.00 1.28
239 240 0.454600 GAGCTGTGACGTCCGGATAA 59.545 55.000 14.12 0.00 0.00 1.75
240 241 1.381928 GGAGCTGTGACGTCCGGATA 61.382 60.000 14.12 0.00 0.00 2.59
241 242 2.711922 GGAGCTGTGACGTCCGGAT 61.712 63.158 14.12 8.22 0.00 4.18
242 243 3.371063 GGAGCTGTGACGTCCGGA 61.371 66.667 14.12 0.00 0.00 5.14
243 244 2.820767 GAAGGAGCTGTGACGTCCGG 62.821 65.000 14.12 10.56 35.33 5.14
244 245 1.444553 GAAGGAGCTGTGACGTCCG 60.445 63.158 14.12 2.56 35.33 4.79
245 246 0.318762 AAGAAGGAGCTGTGACGTCC 59.681 55.000 14.12 5.06 0.00 4.79
246 247 1.000163 TCAAGAAGGAGCTGTGACGTC 60.000 52.381 9.11 9.11 0.00 4.34
247 248 1.040646 TCAAGAAGGAGCTGTGACGT 58.959 50.000 0.00 0.00 0.00 4.34
248 249 2.064762 CTTCAAGAAGGAGCTGTGACG 58.935 52.381 0.00 0.00 34.87 4.35
437 438 1.143838 CCATCGACGCCATCAAGGA 59.856 57.895 0.00 0.00 41.22 3.36
750 752 1.345741 CATCTGGGAGATGCATACGGT 59.654 52.381 0.00 0.00 44.69 4.83
967 969 8.939929 CAGCTGAGTTAATTTCTACTTCAATCA 58.060 33.333 8.42 0.00 0.00 2.57
1195 1197 1.899437 ATGACAGGGACGGTTGCGAT 61.899 55.000 0.00 0.00 36.51 4.58
1843 2146 6.320434 TGAAGGACCACCAACATGAATATA 57.680 37.500 0.00 0.00 38.94 0.86


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

AutoCloner maintained by Alex Coulton.