Multiple sequence alignment - TraesCS5D01G103200

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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 TraesCS5D01G103200 chr5D 100.000 2486 0 0 1 2486 116747178 116749663 0.000000e+00 4591.0
1 TraesCS5D01G103200 chr5D 93.987 632 32 6 1857 2486 442185874 442185247 0.000000e+00 952.0
2 TraesCS5D01G103200 chr5D 93.721 637 33 7 1854 2486 174315337 174314704 0.000000e+00 948.0
3 TraesCS5D01G103200 chr5A 92.916 1214 63 11 641 1837 125139400 125138193 0.000000e+00 1744.0
4 TraesCS5D01G103200 chr5A 96.350 274 8 1 221 494 125143513 125143242 1.360000e-122 449.0
5 TraesCS5D01G103200 chr5A 98.214 112 2 0 1 112 125143648 125143537 1.950000e-46 196.0
6 TraesCS5D01G103200 chr5A 91.406 128 4 3 520 640 125143251 125143124 4.250000e-38 169.0
7 TraesCS5D01G103200 chr5A 86.842 76 10 0 106 181 402656503 402656428 4.410000e-13 86.1
8 TraesCS5D01G103200 chr4D 96.703 637 17 2 1854 2486 77025507 77024871 0.000000e+00 1057.0
9 TraesCS5D01G103200 chr4D 85.317 504 57 11 996 1486 65172911 65172412 2.850000e-139 505.0
10 TraesCS5D01G103200 chr4D 100.000 45 0 0 111 155 164884136 164884092 1.580000e-12 84.2
11 TraesCS5D01G103200 chr2D 96.810 627 16 4 1853 2478 450946293 450946916 0.000000e+00 1044.0
12 TraesCS5D01G103200 chr2D 93.858 635 32 7 1854 2486 641016140 641016769 0.000000e+00 950.0
13 TraesCS5D01G103200 chr6D 94.795 634 31 2 1853 2484 58444216 58443583 0.000000e+00 987.0
14 TraesCS5D01G103200 chr6D 95.556 45 2 0 111 155 52822040 52821996 3.430000e-09 73.1
15 TraesCS5D01G103200 chr5B 94.163 651 17 8 685 1320 128471055 128471699 0.000000e+00 972.0
16 TraesCS5D01G103200 chr5B 93.640 456 16 8 180 628 128470607 128471056 0.000000e+00 669.0
17 TraesCS5D01G103200 chr5B 90.929 463 25 5 1322 1778 130454391 130453940 7.600000e-170 606.0
18 TraesCS5D01G103200 chr5B 99.107 112 1 0 1 112 128470497 128470608 4.190000e-48 202.0
19 TraesCS5D01G103200 chr5B 100.000 28 0 0 156 183 672676719 672676692 4.000000e-03 52.8
20 TraesCS5D01G103200 chr1D 93.858 635 34 4 1854 2486 387956369 387955738 0.000000e+00 952.0
21 TraesCS5D01G103200 chr4B 93.691 634 37 3 1855 2486 20752181 20751549 0.000000e+00 946.0
22 TraesCS5D01G103200 chr4B 100.000 46 0 0 110 155 55029675 55029630 4.410000e-13 86.1
23 TraesCS5D01G103200 chr4B 95.833 48 2 0 108 155 591904816 591904863 7.370000e-11 78.7
24 TraesCS5D01G103200 chr3D 93.553 636 38 3 1853 2486 608917426 608916792 0.000000e+00 944.0
25 TraesCS5D01G103200 chr4A 85.230 501 63 7 996 1486 530891514 530892013 2.850000e-139 505.0
26 TraesCS5D01G103200 chr4A 100.000 28 0 0 156 183 726441812 726441839 4.000000e-03 52.8
27 TraesCS5D01G103200 chr6B 100.000 48 0 0 108 155 570197935 570197982 3.410000e-14 89.8
28 TraesCS5D01G103200 chr6B 95.556 45 2 0 111 155 164810385 164810341 3.430000e-09 73.1
29 TraesCS5D01G103200 chr7B 86.047 86 6 5 110 190 20060706 20060790 1.220000e-13 87.9
30 TraesCS5D01G103200 chrUn 100.000 46 0 0 110 155 17270334 17270379 4.410000e-13 86.1
31 TraesCS5D01G103200 chr1B 97.917 48 1 0 108 155 569109487 569109534 1.580000e-12 84.2
32 TraesCS5D01G103200 chr1B 95.556 45 2 0 111 155 5749451 5749407 3.430000e-09 73.1
33 TraesCS5D01G103200 chr2B 93.750 48 3 0 108 155 655326029 655325982 3.430000e-09 73.1
34 TraesCS5D01G103200 chr3B 90.566 53 4 1 639 691 819559224 819559275 4.440000e-08 69.4
35 TraesCS5D01G103200 chr7A 100.000 29 0 0 156 184 236448184 236448156 1.000000e-03 54.7
36 TraesCS5D01G103200 chr2A 100.000 28 0 0 156 183 778925456 778925429 4.000000e-03 52.8


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 TraesCS5D01G103200 chr5D 116747178 116749663 2485 False 4591.000000 4591 100.000000 1 2486 1 chr5D.!!$F1 2485
1 TraesCS5D01G103200 chr5D 442185247 442185874 627 True 952.000000 952 93.987000 1857 2486 1 chr5D.!!$R2 629
2 TraesCS5D01G103200 chr5D 174314704 174315337 633 True 948.000000 948 93.721000 1854 2486 1 chr5D.!!$R1 632
3 TraesCS5D01G103200 chr5A 125138193 125143648 5455 True 639.500000 1744 94.721500 1 1837 4 chr5A.!!$R2 1836
4 TraesCS5D01G103200 chr4D 77024871 77025507 636 True 1057.000000 1057 96.703000 1854 2486 1 chr4D.!!$R2 632
5 TraesCS5D01G103200 chr2D 450946293 450946916 623 False 1044.000000 1044 96.810000 1853 2478 1 chr2D.!!$F1 625
6 TraesCS5D01G103200 chr2D 641016140 641016769 629 False 950.000000 950 93.858000 1854 2486 1 chr2D.!!$F2 632
7 TraesCS5D01G103200 chr6D 58443583 58444216 633 True 987.000000 987 94.795000 1853 2484 1 chr6D.!!$R2 631
8 TraesCS5D01G103200 chr5B 128470497 128471699 1202 False 614.333333 972 95.636667 1 1320 3 chr5B.!!$F1 1319
9 TraesCS5D01G103200 chr1D 387955738 387956369 631 True 952.000000 952 93.858000 1854 2486 1 chr1D.!!$R1 632
10 TraesCS5D01G103200 chr4B 20751549 20752181 632 True 946.000000 946 93.691000 1855 2486 1 chr4B.!!$R1 631
11 TraesCS5D01G103200 chr3D 608916792 608917426 634 True 944.000000 944 93.553000 1853 2486 1 chr3D.!!$R1 633

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
126 127 0.54995 ATCTACTCCCTCCGTTCCGA 59.45 55.0 0.0 0.0 0.0 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1725 5481 0.178068 ACATAGTGATCACGGGGTGC 59.822 55.0 19.85 0.0 36.2 5.01 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
104 105 4.241590 TGTTGCTTTTGGCTGTGAATAG 57.758 40.909 0.00 0.00 42.39 1.73
110 111 4.397417 GCTTTTGGCTGTGAATAGTCATCT 59.603 41.667 0.00 0.00 35.44 2.90
111 112 5.586243 GCTTTTGGCTGTGAATAGTCATCTA 59.414 40.000 0.00 0.00 35.44 1.98
112 113 6.457528 GCTTTTGGCTGTGAATAGTCATCTAC 60.458 42.308 0.00 0.00 35.44 2.59
113 114 5.939764 TTGGCTGTGAATAGTCATCTACT 57.060 39.130 0.00 0.00 42.62 2.57
114 115 5.521906 TGGCTGTGAATAGTCATCTACTC 57.478 43.478 0.00 0.00 39.80 2.59
115 116 4.342378 TGGCTGTGAATAGTCATCTACTCC 59.658 45.833 0.00 0.00 39.80 3.85
116 117 4.262249 GGCTGTGAATAGTCATCTACTCCC 60.262 50.000 0.00 0.00 39.80 4.30
117 118 4.586841 GCTGTGAATAGTCATCTACTCCCT 59.413 45.833 0.00 0.00 39.80 4.20
118 119 5.278758 GCTGTGAATAGTCATCTACTCCCTC 60.279 48.000 0.00 0.00 39.80 4.30
119 120 5.141182 TGTGAATAGTCATCTACTCCCTCC 58.859 45.833 0.00 0.00 39.80 4.30
120 121 4.216687 GTGAATAGTCATCTACTCCCTCCG 59.783 50.000 0.00 0.00 39.80 4.63
121 122 4.141228 TGAATAGTCATCTACTCCCTCCGT 60.141 45.833 0.00 0.00 39.80 4.69
122 123 2.830651 AGTCATCTACTCCCTCCGTT 57.169 50.000 0.00 0.00 30.33 4.44
123 124 2.657143 AGTCATCTACTCCCTCCGTTC 58.343 52.381 0.00 0.00 30.33 3.95
124 125 1.682323 GTCATCTACTCCCTCCGTTCC 59.318 57.143 0.00 0.00 0.00 3.62
125 126 0.669077 CATCTACTCCCTCCGTTCCG 59.331 60.000 0.00 0.00 0.00 4.30
126 127 0.549950 ATCTACTCCCTCCGTTCCGA 59.450 55.000 0.00 0.00 0.00 4.55
127 128 0.549950 TCTACTCCCTCCGTTCCGAT 59.450 55.000 0.00 0.00 0.00 4.18
128 129 1.064166 TCTACTCCCTCCGTTCCGATT 60.064 52.381 0.00 0.00 0.00 3.34
129 130 1.755380 CTACTCCCTCCGTTCCGATTT 59.245 52.381 0.00 0.00 0.00 2.17
130 131 1.856629 ACTCCCTCCGTTCCGATTTA 58.143 50.000 0.00 0.00 0.00 1.40
131 132 2.395619 ACTCCCTCCGTTCCGATTTAT 58.604 47.619 0.00 0.00 0.00 1.40
132 133 2.770232 ACTCCCTCCGTTCCGATTTATT 59.230 45.455 0.00 0.00 0.00 1.40
133 134 3.181468 ACTCCCTCCGTTCCGATTTATTC 60.181 47.826 0.00 0.00 0.00 1.75
135 136 2.482490 CCCTCCGTTCCGATTTATTCGT 60.482 50.000 0.00 0.00 46.65 3.85
136 137 2.793232 CCTCCGTTCCGATTTATTCGTC 59.207 50.000 0.00 0.00 46.65 4.20
137 138 2.453080 TCCGTTCCGATTTATTCGTCG 58.547 47.619 0.00 0.00 46.65 5.12
138 139 2.159393 TCCGTTCCGATTTATTCGTCGT 60.159 45.455 0.00 0.00 46.65 4.34
139 140 2.035176 CCGTTCCGATTTATTCGTCGTG 60.035 50.000 0.00 0.00 46.65 4.35
140 141 2.035176 CGTTCCGATTTATTCGTCGTGG 60.035 50.000 0.00 0.00 46.65 4.94
141 142 2.925563 GTTCCGATTTATTCGTCGTGGT 59.074 45.455 0.00 0.00 46.65 4.16
142 143 3.235157 TCCGATTTATTCGTCGTGGTT 57.765 42.857 0.00 0.00 46.65 3.67
143 144 3.587923 TCCGATTTATTCGTCGTGGTTT 58.412 40.909 0.00 0.00 46.65 3.27
144 145 3.995705 TCCGATTTATTCGTCGTGGTTTT 59.004 39.130 0.00 0.00 46.65 2.43
145 146 5.167121 TCCGATTTATTCGTCGTGGTTTTA 58.833 37.500 0.00 0.00 46.65 1.52
146 147 5.289193 TCCGATTTATTCGTCGTGGTTTTAG 59.711 40.000 0.00 0.00 46.65 1.85
147 148 5.062558 CCGATTTATTCGTCGTGGTTTTAGT 59.937 40.000 0.00 0.00 46.65 2.24
148 149 6.401367 CCGATTTATTCGTCGTGGTTTTAGTT 60.401 38.462 0.00 0.00 46.65 2.24
149 150 6.675747 CGATTTATTCGTCGTGGTTTTAGTTC 59.324 38.462 0.00 0.00 43.01 3.01
150 151 6.841443 TTTATTCGTCGTGGTTTTAGTTCA 57.159 33.333 0.00 0.00 0.00 3.18
151 152 6.841443 TTATTCGTCGTGGTTTTAGTTCAA 57.159 33.333 0.00 0.00 0.00 2.69
152 153 5.738118 ATTCGTCGTGGTTTTAGTTCAAA 57.262 34.783 0.00 0.00 0.00 2.69
153 154 5.738118 TTCGTCGTGGTTTTAGTTCAAAT 57.262 34.783 0.00 0.00 0.00 2.32
154 155 5.738118 TCGTCGTGGTTTTAGTTCAAATT 57.262 34.783 0.00 0.00 0.00 1.82
155 156 6.841443 TCGTCGTGGTTTTAGTTCAAATTA 57.159 33.333 0.00 0.00 0.00 1.40
156 157 6.648502 TCGTCGTGGTTTTAGTTCAAATTAC 58.351 36.000 0.00 0.00 0.00 1.89
157 158 5.557405 CGTCGTGGTTTTAGTTCAAATTACG 59.443 40.000 0.00 0.00 32.74 3.18
158 159 6.561902 CGTCGTGGTTTTAGTTCAAATTACGA 60.562 38.462 0.00 0.00 35.55 3.43
159 160 6.788930 GTCGTGGTTTTAGTTCAAATTACGAG 59.211 38.462 0.00 0.00 37.06 4.18
160 161 6.479660 TCGTGGTTTTAGTTCAAATTACGAGT 59.520 34.615 0.00 0.00 34.27 4.18
161 162 7.651304 TCGTGGTTTTAGTTCAAATTACGAGTA 59.349 33.333 0.00 0.00 34.27 2.59
162 163 8.274939 CGTGGTTTTAGTTCAAATTACGAGTAA 58.725 33.333 0.00 0.00 32.99 2.24
163 164 9.934190 GTGGTTTTAGTTCAAATTACGAGTAAA 57.066 29.630 0.00 0.00 0.00 2.01
171 172 8.433126 AGTTCAAATTACGAGTAAATCAGAACG 58.567 33.333 17.53 0.00 34.99 3.95
172 173 7.285783 TCAAATTACGAGTAAATCAGAACGG 57.714 36.000 0.00 0.00 0.00 4.44
173 174 7.092079 TCAAATTACGAGTAAATCAGAACGGA 58.908 34.615 0.00 0.00 0.00 4.69
174 175 7.274904 TCAAATTACGAGTAAATCAGAACGGAG 59.725 37.037 0.00 0.00 0.00 4.63
175 176 3.505464 ACGAGTAAATCAGAACGGAGG 57.495 47.619 0.00 0.00 0.00 4.30
176 177 2.165845 ACGAGTAAATCAGAACGGAGGG 59.834 50.000 0.00 0.00 0.00 4.30
177 178 2.426024 CGAGTAAATCAGAACGGAGGGA 59.574 50.000 0.00 0.00 0.00 4.20
178 179 3.489398 CGAGTAAATCAGAACGGAGGGAG 60.489 52.174 0.00 0.00 0.00 4.30
372 373 5.470098 TGCTTTCTTTAGCTCGATTTCTGTT 59.530 36.000 0.00 0.00 41.76 3.16
534 537 3.978610 ACCGTCCCTAGTTATCTCTTGT 58.021 45.455 0.00 0.00 0.00 3.16
632 645 4.877378 AAGTGTTATCTACCGTTGGACA 57.123 40.909 0.00 0.00 0.00 4.02
673 4412 4.200874 AGAGAGTATCATTCTTCGGACGT 58.799 43.478 0.00 0.00 37.82 4.34
720 4459 6.682746 AGTACTATCATTGAGCATTAGACGG 58.317 40.000 0.00 0.00 0.00 4.79
840 4581 8.713737 AGGAGATAATTTACTTACCGAACAAC 57.286 34.615 0.00 0.00 0.00 3.32
857 4598 5.277634 CGAACAACCTCACGACCTTAATTTT 60.278 40.000 0.00 0.00 0.00 1.82
1324 5080 1.810030 GAGGTGAACGCGGTGATCC 60.810 63.158 12.47 5.85 0.00 3.36
1350 5106 4.400961 ACCAAGCTCCGCCTGCTC 62.401 66.667 0.00 0.00 40.22 4.26
1401 5157 1.712977 GCGGCTGGCTGATCTTCAAG 61.713 60.000 5.51 0.00 39.11 3.02
1403 5159 0.254178 GGCTGGCTGATCTTCAAGGA 59.746 55.000 0.00 0.00 0.00 3.36
1415 5171 3.686016 TCTTCAAGGACAAGCCCATAAC 58.314 45.455 0.00 0.00 37.37 1.89
1518 5274 0.586748 TTACGCAAACACACGCAACG 60.587 50.000 0.00 0.00 0.00 4.10
1533 5289 3.120442 ACGCAACGTTATTACTTGGAAGC 60.120 43.478 0.00 0.00 36.35 3.86
1631 5387 4.116926 CCTTTGCAAGGCCATGGA 57.883 55.556 18.40 3.52 42.78 3.41
1697 5453 7.913674 ACTGTCAAAAGATGATTTCTACTCC 57.086 36.000 0.00 0.00 40.97 3.85
1698 5454 6.591834 ACTGTCAAAAGATGATTTCTACTCCG 59.408 38.462 0.00 0.00 40.97 4.63
1704 5460 4.636249 AGATGATTTCTACTCCGCAATCC 58.364 43.478 0.00 0.00 30.96 3.01
1725 5481 4.041321 TCCCTCTGATGATTGCTCCATAAG 59.959 45.833 0.00 0.00 0.00 1.73
1757 5513 6.700960 GTGATCACTATGTTCCTGAGATTCAG 59.299 42.308 18.83 0.00 43.91 3.02
1783 5539 1.087501 GCTAGTGAAAAGCCTTCCCG 58.912 55.000 0.00 0.00 33.73 5.14
1788 5544 0.181587 TGAAAAGCCTTCCCGACACA 59.818 50.000 0.00 0.00 0.00 3.72
1819 5575 1.302907 AAGCAAGATGGGTCCTGGAT 58.697 50.000 0.00 0.00 0.00 3.41
1837 5593 7.064728 GTCCTGGATATCTTTGACAACAACTAC 59.935 40.741 0.00 0.00 35.63 2.73
1838 5594 6.878923 CCTGGATATCTTTGACAACAACTACA 59.121 38.462 2.05 0.00 35.63 2.74
1839 5595 7.554118 CCTGGATATCTTTGACAACAACTACAT 59.446 37.037 2.05 0.00 35.63 2.29
1840 5596 9.599866 CTGGATATCTTTGACAACAACTACATA 57.400 33.333 2.05 0.00 35.63 2.29
1843 5599 9.869844 GATATCTTTGACAACAACTACATATGC 57.130 33.333 1.58 0.00 35.63 3.14
1844 5600 7.928307 ATCTTTGACAACAACTACATATGCT 57.072 32.000 1.58 0.00 35.63 3.79
1845 5601 7.364522 TCTTTGACAACAACTACATATGCTC 57.635 36.000 1.58 0.00 35.63 4.26
1846 5602 6.371548 TCTTTGACAACAACTACATATGCTCC 59.628 38.462 1.58 0.00 35.63 4.70
1847 5603 5.159273 TGACAACAACTACATATGCTCCA 57.841 39.130 1.58 0.00 0.00 3.86
1848 5604 5.178061 TGACAACAACTACATATGCTCCAG 58.822 41.667 1.58 0.00 0.00 3.86
1849 5605 5.165961 ACAACAACTACATATGCTCCAGT 57.834 39.130 1.58 0.00 0.00 4.00
1850 5606 6.071051 TGACAACAACTACATATGCTCCAGTA 60.071 38.462 1.58 0.00 0.00 2.74
1851 5607 6.707290 ACAACAACTACATATGCTCCAGTAA 58.293 36.000 1.58 0.00 0.00 2.24
1919 5675 0.838554 TTTCGTCCCACCTCCCATGA 60.839 55.000 0.00 0.00 0.00 3.07
1925 5682 2.497273 GTCCCACCTCCCATGATTTTTG 59.503 50.000 0.00 0.00 0.00 2.44
2200 5964 8.403606 GATTTTCAGAAAAATCGCTCAATCAT 57.596 30.769 12.38 0.00 46.40 2.45
2375 6140 4.643387 GGGCTGCGTCACTGGGTT 62.643 66.667 0.00 0.00 0.00 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 105 1.682323 GGAACGGAGGGAGTAGATGAC 59.318 57.143 0.00 0.00 0.00 3.06
125 126 7.512297 TGAACTAAAACCACGACGAATAAATC 58.488 34.615 0.00 0.00 0.00 2.17
126 127 7.424227 TGAACTAAAACCACGACGAATAAAT 57.576 32.000 0.00 0.00 0.00 1.40
127 128 6.841443 TGAACTAAAACCACGACGAATAAA 57.159 33.333 0.00 0.00 0.00 1.40
128 129 6.841443 TTGAACTAAAACCACGACGAATAA 57.159 33.333 0.00 0.00 0.00 1.40
129 130 6.841443 TTTGAACTAAAACCACGACGAATA 57.159 33.333 0.00 0.00 0.00 1.75
130 131 5.738118 TTTGAACTAAAACCACGACGAAT 57.262 34.783 0.00 0.00 0.00 3.34
131 132 5.738118 ATTTGAACTAAAACCACGACGAA 57.262 34.783 0.00 0.00 0.00 3.85
132 133 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
133 134 5.557405 CGTAATTTGAACTAAAACCACGACG 59.443 40.000 0.00 0.00 35.00 5.12
134 135 6.648502 TCGTAATTTGAACTAAAACCACGAC 58.351 36.000 0.00 0.00 36.13 4.34
135 136 6.479660 ACTCGTAATTTGAACTAAAACCACGA 59.520 34.615 0.00 0.00 37.40 4.35
136 137 6.652245 ACTCGTAATTTGAACTAAAACCACG 58.348 36.000 0.00 0.00 34.67 4.94
137 138 9.934190 TTTACTCGTAATTTGAACTAAAACCAC 57.066 29.630 0.00 0.00 0.00 4.16
145 146 8.433126 CGTTCTGATTTACTCGTAATTTGAACT 58.567 33.333 17.12 0.00 30.83 3.01
146 147 7.686938 CCGTTCTGATTTACTCGTAATTTGAAC 59.313 37.037 0.00 0.00 0.00 3.18
147 148 7.599621 TCCGTTCTGATTTACTCGTAATTTGAA 59.400 33.333 0.00 0.00 0.00 2.69
148 149 7.092079 TCCGTTCTGATTTACTCGTAATTTGA 58.908 34.615 0.00 0.00 0.00 2.69
149 150 7.285783 TCCGTTCTGATTTACTCGTAATTTG 57.714 36.000 0.00 0.00 0.00 2.32
150 151 6.534079 CCTCCGTTCTGATTTACTCGTAATTT 59.466 38.462 0.00 0.00 0.00 1.82
151 152 6.040878 CCTCCGTTCTGATTTACTCGTAATT 58.959 40.000 0.00 0.00 0.00 1.40
152 153 5.451520 CCCTCCGTTCTGATTTACTCGTAAT 60.452 44.000 0.00 0.00 0.00 1.89
153 154 4.142315 CCCTCCGTTCTGATTTACTCGTAA 60.142 45.833 0.00 0.00 0.00 3.18
154 155 3.379372 CCCTCCGTTCTGATTTACTCGTA 59.621 47.826 0.00 0.00 0.00 3.43
155 156 2.165845 CCCTCCGTTCTGATTTACTCGT 59.834 50.000 0.00 0.00 0.00 4.18
156 157 2.426024 TCCCTCCGTTCTGATTTACTCG 59.574 50.000 0.00 0.00 0.00 4.18
157 158 3.447944 ACTCCCTCCGTTCTGATTTACTC 59.552 47.826 0.00 0.00 0.00 2.59
158 159 3.442076 ACTCCCTCCGTTCTGATTTACT 58.558 45.455 0.00 0.00 0.00 2.24
159 160 3.889520 ACTCCCTCCGTTCTGATTTAC 57.110 47.619 0.00 0.00 0.00 2.01
160 161 6.837568 ACTTATACTCCCTCCGTTCTGATTTA 59.162 38.462 0.00 0.00 0.00 1.40
161 162 5.661759 ACTTATACTCCCTCCGTTCTGATTT 59.338 40.000 0.00 0.00 0.00 2.17
162 163 5.209659 ACTTATACTCCCTCCGTTCTGATT 58.790 41.667 0.00 0.00 0.00 2.57
163 164 4.805744 ACTTATACTCCCTCCGTTCTGAT 58.194 43.478 0.00 0.00 0.00 2.90
164 165 4.246712 ACTTATACTCCCTCCGTTCTGA 57.753 45.455 0.00 0.00 0.00 3.27
165 166 5.826737 TCTAACTTATACTCCCTCCGTTCTG 59.173 44.000 0.00 0.00 0.00 3.02
166 167 6.011122 TCTAACTTATACTCCCTCCGTTCT 57.989 41.667 0.00 0.00 0.00 3.01
167 168 6.897706 ATCTAACTTATACTCCCTCCGTTC 57.102 41.667 0.00 0.00 0.00 3.95
168 169 6.041751 CCAATCTAACTTATACTCCCTCCGTT 59.958 42.308 0.00 0.00 0.00 4.44
169 170 5.539193 CCAATCTAACTTATACTCCCTCCGT 59.461 44.000 0.00 0.00 0.00 4.69
170 171 5.567025 GCCAATCTAACTTATACTCCCTCCG 60.567 48.000 0.00 0.00 0.00 4.63
171 172 5.544562 AGCCAATCTAACTTATACTCCCTCC 59.455 44.000 0.00 0.00 0.00 4.30
172 173 6.673839 AGCCAATCTAACTTATACTCCCTC 57.326 41.667 0.00 0.00 0.00 4.30
212 213 5.469084 ACCTTCTGAACAAACGGTTAAGATC 59.531 40.000 0.00 0.00 44.73 2.75
411 412 5.876357 ACCACACAAAGCTTCTAAATAGGA 58.124 37.500 0.00 0.00 0.00 2.94
497 498 2.044555 GGTTCGCCTAAAGGGGTGC 61.045 63.158 12.32 6.94 46.93 5.01
511 512 4.401837 ACAAGAGATAACTAGGGACGGTTC 59.598 45.833 0.00 0.00 32.55 3.62
534 537 5.357742 TGCAAATGTAGGCAGAGATTAGA 57.642 39.130 0.00 0.00 34.58 2.10
632 645 8.927675 ACTCTCTATAATTAACGTGATCCTCT 57.072 34.615 0.00 0.00 0.00 3.69
691 4430 8.695456 TCTAATGCTCAATGATAGTACTTCACA 58.305 33.333 0.00 0.00 0.00 3.58
692 4431 8.973378 GTCTAATGCTCAATGATAGTACTTCAC 58.027 37.037 0.00 0.00 0.00 3.18
707 4446 1.964223 GATCCTCCCGTCTAATGCTCA 59.036 52.381 0.00 0.00 0.00 4.26
720 4459 7.911651 TCTCTCCATAATTAACATGATCCTCC 58.088 38.462 0.00 0.00 0.00 4.30
756 4496 4.559704 GCTATTAGTGATCCTCCCGTTCAG 60.560 50.000 0.00 0.00 0.00 3.02
840 4581 7.429636 TCTTAACAAAATTAAGGTCGTGAGG 57.570 36.000 6.59 0.00 33.88 3.86
1223 4979 1.090052 GCTGTACTCCGGCACATTCC 61.090 60.000 0.00 0.00 45.37 3.01
1277 5033 1.449601 CAGTACATCACCACGGCCC 60.450 63.158 0.00 0.00 0.00 5.80
1280 5036 0.796312 GTTGCAGTACATCACCACGG 59.204 55.000 0.00 0.00 0.00 4.94
1324 5080 2.432628 GAGCTTGGTCGTGTCCGG 60.433 66.667 0.00 0.00 33.95 5.14
1350 5106 2.985282 TGCCCTTGCTTTCGGCTG 60.985 61.111 0.00 0.00 43.42 4.85
1391 5147 1.704628 TGGGCTTGTCCTTGAAGATCA 59.295 47.619 0.00 0.00 34.39 2.92
1401 5157 1.467342 GTGAACGTTATGGGCTTGTCC 59.533 52.381 0.00 0.00 0.00 4.02
1403 5159 1.073284 AGGTGAACGTTATGGGCTTGT 59.927 47.619 0.00 0.00 0.00 3.16
1415 5171 4.728102 TGGCGGCGTAGGTGAACG 62.728 66.667 9.37 0.00 45.58 3.95
1498 5254 1.536149 GTTGCGTGTGTTTGCGTAAA 58.464 45.000 0.00 0.00 34.85 2.01
1503 5259 1.749153 ATAACGTTGCGTGTGTTTGC 58.251 45.000 11.99 0.00 39.99 3.68
1512 5268 3.120477 TGCTTCCAAGTAATAACGTTGCG 60.120 43.478 11.99 0.00 0.00 4.85
1593 5349 3.304659 GGACACGTCGTCTTTAGGTACAA 60.305 47.826 14.77 0.00 44.70 2.41
1626 5382 9.191995 GTACAAACTTTAATTTCAAGGTCCATG 57.808 33.333 0.00 0.00 0.00 3.66
1630 5386 7.136772 AGCGTACAAACTTTAATTTCAAGGTC 58.863 34.615 0.00 0.00 0.00 3.85
1631 5387 7.034685 AGCGTACAAACTTTAATTTCAAGGT 57.965 32.000 0.00 0.00 0.00 3.50
1668 5424 5.537674 AGAAATCATCTTTTGACAGTTGCCT 59.462 36.000 0.00 0.00 37.11 4.75
1671 5427 8.233190 GGAGTAGAAATCATCTTTTGACAGTTG 58.767 37.037 0.00 0.00 39.71 3.16
1691 5447 1.403814 TCAGAGGGATTGCGGAGTAG 58.596 55.000 0.00 0.00 0.00 2.57
1725 5481 0.178068 ACATAGTGATCACGGGGTGC 59.822 55.000 19.85 0.00 36.20 5.01
1733 5489 6.608808 TCTGAATCTCAGGAACATAGTGATCA 59.391 38.462 3.92 0.00 44.39 2.92
1757 5513 2.159028 AGGCTTTTCACTAGCGGAGATC 60.159 50.000 0.00 0.00 39.54 2.75
1807 5563 4.047166 TGTCAAAGATATCCAGGACCCAT 58.953 43.478 12.86 0.00 0.00 4.00
1814 5570 7.905604 TGTAGTTGTTGTCAAAGATATCCAG 57.094 36.000 0.00 0.00 35.20 3.86
1819 5575 9.098355 GAGCATATGTAGTTGTTGTCAAAGATA 57.902 33.333 4.29 0.00 35.20 1.98
1837 5593 8.629158 GGAGTAGAGATATTACTGGAGCATATG 58.371 40.741 0.00 0.00 31.74 1.78
1838 5594 8.565239 AGGAGTAGAGATATTACTGGAGCATAT 58.435 37.037 0.00 0.00 31.74 1.78
1839 5595 7.934313 AGGAGTAGAGATATTACTGGAGCATA 58.066 38.462 0.00 0.00 31.74 3.14
1840 5596 6.799827 AGGAGTAGAGATATTACTGGAGCAT 58.200 40.000 0.00 0.00 31.74 3.79
1841 5597 6.207509 AGGAGTAGAGATATTACTGGAGCA 57.792 41.667 0.00 0.00 31.74 4.26
1842 5598 8.682710 CATTAGGAGTAGAGATATTACTGGAGC 58.317 40.741 0.00 0.00 31.74 4.70
1843 5599 9.184523 CCATTAGGAGTAGAGATATTACTGGAG 57.815 40.741 0.00 0.00 36.89 3.86
1844 5600 8.901841 TCCATTAGGAGTAGAGATATTACTGGA 58.098 37.037 0.00 0.00 39.61 3.86
1919 5675 3.141272 TGGGAGGAGGTACCAACAAAAAT 59.859 43.478 15.94 0.00 42.04 1.82
1925 5682 1.880941 AGATGGGAGGAGGTACCAAC 58.119 55.000 15.94 6.18 42.04 3.77
2200 5964 4.501915 CCGTGAGTTAAGGTAAGGTCAACA 60.502 45.833 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.