Multiple sequence alignment - TraesCS7D01G330300

Loading Multiple Alignment...

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 TraesCS7D01G330300 chr7D 100.000 2249 0 0 1 2249 422110389 422108141 0.000000e+00 4154.0
1 TraesCS7D01G330300 chr7B 93.914 953 50 5 740 1687 438991000 438991949 0.000000e+00 1432.0
2 TraesCS7D01G330300 chr7B 90.019 521 33 7 215 734 438990447 438990949 0.000000e+00 656.0
3 TraesCS7D01G330300 chr7B 89.271 494 35 12 1686 2170 438992030 438992514 8.890000e-169 603.0
4 TraesCS7D01G330300 chr7B 90.526 95 9 0 2155 2249 438992532 438992626 2.340000e-25 126.0
5 TraesCS7D01G330300 chr7A 94.669 619 23 4 740 1349 511054473 511055090 0.000000e+00 952.0
6 TraesCS7D01G330300 chr7A 85.988 521 23 17 224 743 511053965 511054436 1.540000e-141 512.0
7 TraesCS7D01G330300 chr7A 82.768 354 25 11 1456 1807 511055093 511055412 1.310000e-72 283.0
8 TraesCS7D01G330300 chr7A 83.784 296 32 5 1954 2244 511055615 511055899 1.320000e-67 267.0
9 TraesCS7D01G330300 chr7A 94.118 51 3 0 1795 1845 511055463 511055513 6.660000e-11 78.7


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 TraesCS7D01G330300 chr7D 422108141 422110389 2248 True 4154.00 4154 100.0000 1 2249 1 chr7D.!!$R1 2248
1 TraesCS7D01G330300 chr7B 438990447 438992626 2179 False 704.25 1432 90.9325 215 2249 4 chr7B.!!$F1 2034
2 TraesCS7D01G330300 chr7A 511053965 511055899 1934 False 418.54 952 88.2654 224 2244 5 chr7A.!!$F1 2020

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
253 254 0.606604 TGCCTTGTCCTTCTCCGTAC 59.393 55.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2108 2368 2.883386 GGCCTTCAGCTCCTTTATCATG 59.117 50.0 0.0 0.0 43.05 3.07 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
22 23 5.903764 TTTGATGCAAAACATTGTGCTAC 57.096 34.783 8.21 3.33 39.84 3.58
23 24 4.581077 TGATGCAAAACATTGTGCTACA 57.419 36.364 8.21 5.59 39.84 2.74
24 25 4.297510 TGATGCAAAACATTGTGCTACAC 58.702 39.130 8.21 0.00 39.84 2.90
25 26 3.790152 TGCAAAACATTGTGCTACACA 57.210 38.095 8.21 0.00 43.02 3.72
26 27 4.319139 TGCAAAACATTGTGCTACACAT 57.681 36.364 8.21 0.00 44.16 3.21
27 28 5.444663 TGCAAAACATTGTGCTACACATA 57.555 34.783 8.21 0.00 44.16 2.29
28 29 5.836347 TGCAAAACATTGTGCTACACATAA 58.164 33.333 8.21 0.00 44.16 1.90
29 30 6.276091 TGCAAAACATTGTGCTACACATAAA 58.724 32.000 8.21 0.00 44.16 1.40
30 31 6.927936 TGCAAAACATTGTGCTACACATAAAT 59.072 30.769 8.21 0.00 44.16 1.40
31 32 7.095732 TGCAAAACATTGTGCTACACATAAATG 60.096 33.333 8.21 5.45 44.16 2.32
32 33 7.621841 GCAAAACATTGTGCTACACATAAATGG 60.622 37.037 12.83 0.85 44.16 3.16
33 34 6.588719 AACATTGTGCTACACATAAATGGT 57.411 33.333 12.83 5.93 44.16 3.55
34 35 5.953183 ACATTGTGCTACACATAAATGGTG 58.047 37.500 12.83 0.00 44.16 4.17
35 36 5.709631 ACATTGTGCTACACATAAATGGTGA 59.290 36.000 12.83 0.00 44.16 4.02
36 37 5.878332 TTGTGCTACACATAAATGGTGAG 57.122 39.130 0.57 0.00 44.16 3.51
37 38 3.689161 TGTGCTACACATAAATGGTGAGC 59.311 43.478 0.00 0.00 39.62 4.26
38 39 3.689161 GTGCTACACATAAATGGTGAGCA 59.311 43.478 12.33 12.33 42.00 4.26
39 40 3.689161 TGCTACACATAAATGGTGAGCAC 59.311 43.478 12.33 0.00 40.75 4.40
40 41 3.941483 GCTACACATAAATGGTGAGCACT 59.059 43.478 0.00 0.00 38.31 4.40
41 42 5.116180 GCTACACATAAATGGTGAGCACTA 58.884 41.667 0.00 0.00 38.31 2.74
42 43 5.584649 GCTACACATAAATGGTGAGCACTAA 59.415 40.000 0.00 0.00 38.31 2.24
43 44 6.260936 GCTACACATAAATGGTGAGCACTAAT 59.739 38.462 0.00 0.00 38.31 1.73
44 45 7.441157 GCTACACATAAATGGTGAGCACTAATA 59.559 37.037 0.00 0.00 38.31 0.98
45 46 7.553881 ACACATAAATGGTGAGCACTAATAC 57.446 36.000 0.00 0.00 39.53 1.89
46 47 7.338710 ACACATAAATGGTGAGCACTAATACT 58.661 34.615 0.00 0.00 39.53 2.12
47 48 8.482943 ACACATAAATGGTGAGCACTAATACTA 58.517 33.333 0.00 0.00 39.53 1.82
48 49 9.325198 CACATAAATGGTGAGCACTAATACTAA 57.675 33.333 0.16 0.00 38.54 2.24
96 97 7.551035 AAAGTACAAGATGAATGATGAGAGC 57.449 36.000 0.00 0.00 0.00 4.09
97 98 6.482898 AGTACAAGATGAATGATGAGAGCT 57.517 37.500 0.00 0.00 0.00 4.09
98 99 7.594351 AGTACAAGATGAATGATGAGAGCTA 57.406 36.000 0.00 0.00 0.00 3.32
99 100 7.660112 AGTACAAGATGAATGATGAGAGCTAG 58.340 38.462 0.00 0.00 0.00 3.42
100 101 6.728089 ACAAGATGAATGATGAGAGCTAGA 57.272 37.500 0.00 0.00 0.00 2.43
101 102 7.305813 ACAAGATGAATGATGAGAGCTAGAT 57.694 36.000 0.00 0.00 0.00 1.98
102 103 7.156000 ACAAGATGAATGATGAGAGCTAGATG 58.844 38.462 0.00 0.00 0.00 2.90
103 104 7.015389 ACAAGATGAATGATGAGAGCTAGATGA 59.985 37.037 0.00 0.00 0.00 2.92
104 105 7.727578 AGATGAATGATGAGAGCTAGATGAT 57.272 36.000 0.00 0.00 0.00 2.45
105 106 8.141298 AGATGAATGATGAGAGCTAGATGATT 57.859 34.615 0.00 0.00 0.00 2.57
106 107 8.598916 AGATGAATGATGAGAGCTAGATGATTT 58.401 33.333 0.00 0.00 0.00 2.17
107 108 8.780846 ATGAATGATGAGAGCTAGATGATTTC 57.219 34.615 0.00 0.00 0.00 2.17
108 109 7.964624 TGAATGATGAGAGCTAGATGATTTCT 58.035 34.615 0.00 0.00 38.57 2.52
109 110 8.089597 TGAATGATGAGAGCTAGATGATTTCTC 58.910 37.037 0.00 0.00 35.79 2.87
110 111 6.973460 TGATGAGAGCTAGATGATTTCTCA 57.027 37.500 5.12 5.12 45.70 3.27
111 112 7.357429 TGATGAGAGCTAGATGATTTCTCAA 57.643 36.000 6.59 0.00 45.04 3.02
112 113 7.789026 TGATGAGAGCTAGATGATTTCTCAAA 58.211 34.615 6.59 0.00 45.04 2.69
113 114 8.430431 TGATGAGAGCTAGATGATTTCTCAAAT 58.570 33.333 6.59 0.00 45.04 2.32
114 115 9.926158 GATGAGAGCTAGATGATTTCTCAAATA 57.074 33.333 6.59 0.00 45.04 1.40
139 140 7.920160 TTACAAGTATGAATGCACATCTTGA 57.080 32.000 22.01 11.88 37.96 3.02
140 141 6.432607 ACAAGTATGAATGCACATCTTGAG 57.567 37.500 22.01 8.94 37.96 3.02
141 142 6.175471 ACAAGTATGAATGCACATCTTGAGA 58.825 36.000 22.01 1.03 37.96 3.27
142 143 6.656270 ACAAGTATGAATGCACATCTTGAGAA 59.344 34.615 22.01 0.51 37.96 2.87
143 144 7.175467 ACAAGTATGAATGCACATCTTGAGAAA 59.825 33.333 22.01 0.00 37.96 2.52
144 145 7.692460 AGTATGAATGCACATCTTGAGAAAA 57.308 32.000 0.00 0.00 0.00 2.29
145 146 8.114331 AGTATGAATGCACATCTTGAGAAAAA 57.886 30.769 0.00 0.00 0.00 1.94
177 178 5.916661 ACGATCTACAATCCAAGTACTGT 57.083 39.130 0.00 0.00 0.00 3.55
178 179 5.892568 ACGATCTACAATCCAAGTACTGTC 58.107 41.667 0.00 0.00 0.00 3.51
179 180 5.652891 ACGATCTACAATCCAAGTACTGTCT 59.347 40.000 0.00 0.00 0.00 3.41
180 181 6.153000 ACGATCTACAATCCAAGTACTGTCTT 59.847 38.462 0.00 0.00 0.00 3.01
181 182 6.473778 CGATCTACAATCCAAGTACTGTCTTG 59.526 42.308 0.00 10.89 42.86 3.02
182 183 6.911250 TCTACAATCCAAGTACTGTCTTGA 57.089 37.500 16.40 7.52 45.11 3.02
183 184 7.297936 TCTACAATCCAAGTACTGTCTTGAA 57.702 36.000 16.40 2.71 45.11 2.69
184 185 7.732025 TCTACAATCCAAGTACTGTCTTGAAA 58.268 34.615 16.40 8.43 45.11 2.69
185 186 6.619801 ACAATCCAAGTACTGTCTTGAAAC 57.380 37.500 16.40 0.00 45.11 2.78
186 187 6.119536 ACAATCCAAGTACTGTCTTGAAACA 58.880 36.000 16.40 0.00 45.11 2.83
187 188 6.601613 ACAATCCAAGTACTGTCTTGAAACAA 59.398 34.615 16.40 0.00 45.11 2.83
188 189 7.285401 ACAATCCAAGTACTGTCTTGAAACAAT 59.715 33.333 16.40 4.92 45.11 2.71
189 190 8.783093 CAATCCAAGTACTGTCTTGAAACAATA 58.217 33.333 16.40 0.00 45.11 1.90
190 191 9.520515 AATCCAAGTACTGTCTTGAAACAATAT 57.479 29.630 16.40 0.00 45.11 1.28
219 220 5.755861 GCTTAGGAATACTTAACTGCCTCTG 59.244 44.000 0.00 0.00 0.00 3.35
249 250 1.301293 CCCTGCCTTGTCCTTCTCC 59.699 63.158 0.00 0.00 0.00 3.71
250 251 1.078848 CCTGCCTTGTCCTTCTCCG 60.079 63.158 0.00 0.00 0.00 4.63
251 252 1.674057 CTGCCTTGTCCTTCTCCGT 59.326 57.895 0.00 0.00 0.00 4.69
252 253 0.895530 CTGCCTTGTCCTTCTCCGTA 59.104 55.000 0.00 0.00 0.00 4.02
253 254 0.606604 TGCCTTGTCCTTCTCCGTAC 59.393 55.000 0.00 0.00 0.00 3.67
254 255 0.896226 GCCTTGTCCTTCTCCGTACT 59.104 55.000 0.00 0.00 0.00 2.73
255 256 2.097825 GCCTTGTCCTTCTCCGTACTA 58.902 52.381 0.00 0.00 0.00 1.82
256 257 2.159268 GCCTTGTCCTTCTCCGTACTAC 60.159 54.545 0.00 0.00 0.00 2.73
318 319 1.308998 AAAGGTGCCGACACTTGAAG 58.691 50.000 0.81 0.00 46.57 3.02
436 437 3.670627 GCGCGATGACTTGAAAAAGGATT 60.671 43.478 12.10 0.00 0.00 3.01
437 438 4.436852 GCGCGATGACTTGAAAAAGGATTA 60.437 41.667 12.10 0.00 0.00 1.75
444 445 7.149569 TGACTTGAAAAAGGATTATGCTGAG 57.850 36.000 0.00 0.00 0.00 3.35
510 512 1.813092 GCTGGATGCCTGGATGTGTAG 60.813 57.143 0.00 0.00 35.15 2.74
551 553 3.814625 TGTGTTGAGTTGACTTATGCCA 58.185 40.909 0.00 0.00 0.00 4.92
561 563 7.392953 TGAGTTGACTTATGCCACATCAATTAA 59.607 33.333 0.00 0.00 32.30 1.40
562 564 8.297470 AGTTGACTTATGCCACATCAATTAAT 57.703 30.769 0.00 0.00 32.30 1.40
563 565 8.752187 AGTTGACTTATGCCACATCAATTAATT 58.248 29.630 0.00 0.00 32.30 1.40
564 566 9.369904 GTTGACTTATGCCACATCAATTAATTT 57.630 29.630 0.00 0.00 32.30 1.82
565 567 9.585099 TTGACTTATGCCACATCAATTAATTTC 57.415 29.630 0.00 0.00 0.00 2.17
608 610 4.462834 ACTCCATCGTGAAGTCAACATCTA 59.537 41.667 0.00 0.00 0.00 1.98
609 611 5.047306 ACTCCATCGTGAAGTCAACATCTAA 60.047 40.000 0.00 0.00 0.00 2.10
610 612 5.789521 TCCATCGTGAAGTCAACATCTAAA 58.210 37.500 0.00 0.00 0.00 1.85
611 613 6.406370 TCCATCGTGAAGTCAACATCTAAAT 58.594 36.000 0.00 0.00 0.00 1.40
612 614 6.535150 TCCATCGTGAAGTCAACATCTAAATC 59.465 38.462 0.00 0.00 0.00 2.17
613 615 6.238211 CCATCGTGAAGTCAACATCTAAATCC 60.238 42.308 0.00 0.00 0.00 3.01
771 824 0.928908 CGTACGTCGGCTAGATGCAC 60.929 60.000 7.22 0.16 45.15 4.57
790 843 4.858140 TGCACATATTTTTGCAATGTCTCG 59.142 37.500 0.00 0.00 45.65 4.04
887 942 2.098934 TGCACGCTTGGCTTATAAATGG 59.901 45.455 0.00 0.00 0.00 3.16
901 959 1.165270 AAATGGACGTACAAGCAGGC 58.835 50.000 3.58 0.00 0.00 4.85
1048 1106 1.191944 CATCGTTCTCGTCATCACCG 58.808 55.000 0.00 0.00 38.33 4.94
1357 1419 0.889186 ACAACGGTGAATGCTGGTCC 60.889 55.000 7.88 0.00 0.00 4.46
1366 1428 2.503765 TGAATGCTGGTCCGGAGATTAA 59.496 45.455 3.06 0.00 0.00 1.40
1368 1430 3.864789 ATGCTGGTCCGGAGATTAATT 57.135 42.857 3.06 0.00 0.00 1.40
1369 1431 3.194005 TGCTGGTCCGGAGATTAATTC 57.806 47.619 3.06 0.00 0.00 2.17
1426 1488 0.813210 TGATGTTCTGCGTGTGTGCA 60.813 50.000 0.00 0.00 43.95 4.57
1478 1540 7.195646 GCGATGTGATCAATTTTTCTCCAATA 58.804 34.615 0.00 0.00 0.00 1.90
1602 1666 7.222805 CACACATACCATAATGAGTGAGTGTAC 59.777 40.741 8.20 0.00 45.62 2.90
1609 1673 9.216117 ACCATAATGAGTGAGTGTACTAAAAAC 57.784 33.333 0.00 0.00 0.00 2.43
1612 1676 7.730364 AATGAGTGAGTGTACTAAAAACAGG 57.270 36.000 0.00 0.00 0.00 4.00
1717 1863 5.710646 TCTCCTTCAGGTATGATCTTAGCT 58.289 41.667 13.07 13.07 34.73 3.32
1959 2193 2.094417 GCTTTCTGTGCCGTCATCTAAC 59.906 50.000 0.00 0.00 0.00 2.34
1966 2200 3.262420 GTGCCGTCATCTAACTTGACAT 58.738 45.455 4.86 0.00 42.90 3.06
2060 2320 4.201802 TGTGTTAACGAAAAAGGACCGTTC 60.202 41.667 0.00 0.00 44.10 3.95
2061 2321 3.312146 TGTTAACGAAAAAGGACCGTTCC 59.688 43.478 0.00 0.00 44.10 3.62
2062 2322 1.311859 AACGAAAAAGGACCGTTCCC 58.688 50.000 0.00 0.00 44.10 3.97
2063 2323 0.471191 ACGAAAAAGGACCGTTCCCT 59.529 50.000 0.00 0.00 44.10 4.20
2064 2324 0.872388 CGAAAAAGGACCGTTCCCTG 59.128 55.000 0.00 0.00 44.10 4.45
2065 2325 0.596577 GAAAAAGGACCGTTCCCTGC 59.403 55.000 0.00 0.00 44.10 4.85
2066 2326 0.826256 AAAAAGGACCGTTCCCTGCC 60.826 55.000 0.00 0.00 44.10 4.85
2067 2327 2.708593 AAAAGGACCGTTCCCTGCCC 62.709 60.000 0.00 0.00 44.10 5.36
2068 2328 4.974438 AGGACCGTTCCCTGCCCA 62.974 66.667 0.00 0.00 44.10 5.36
2069 2329 3.961414 GGACCGTTCCCTGCCCAA 61.961 66.667 0.00 0.00 35.57 4.12
2070 2330 2.114411 GACCGTTCCCTGCCCAAA 59.886 61.111 0.00 0.00 0.00 3.28
2071 2331 1.529713 GACCGTTCCCTGCCCAAAA 60.530 57.895 0.00 0.00 0.00 2.44
2072 2332 1.075896 ACCGTTCCCTGCCCAAAAA 60.076 52.632 0.00 0.00 0.00 1.94
2108 2368 6.203808 AGGACCGTTGAATTAATTTAAGGC 57.796 37.500 15.96 5.05 0.00 4.35
2150 2440 5.226396 GCCAAAATGCAACTACACATACAA 58.774 37.500 0.00 0.00 0.00 2.41
2182 2505 5.659440 AACATGTTGCCCTATTAACAAGG 57.341 39.130 11.07 0.00 39.89 3.61
2183 2506 4.672899 ACATGTTGCCCTATTAACAAGGT 58.327 39.130 0.00 0.00 39.89 3.50
2200 2523 6.160664 ACAAGGTATCGTTACAAAATGTCG 57.839 37.500 6.02 0.00 0.00 4.35
2244 2567 7.763985 ACTTGATTACACTTCCTTTTGTTTTGG 59.236 33.333 0.00 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.233902 GTGTAGCACAATGTTTTGCATCAAA 59.766 36.000 6.65 0.00 41.48 2.69
1 2 4.744137 GTGTAGCACAATGTTTTGCATCAA 59.256 37.500 6.65 0.00 41.48 2.57
2 3 4.202090 TGTGTAGCACAATGTTTTGCATCA 60.202 37.500 6.65 2.84 41.69 3.07
3 4 4.297510 TGTGTAGCACAATGTTTTGCATC 58.702 39.130 6.65 0.62 41.69 3.91
4 5 4.319139 TGTGTAGCACAATGTTTTGCAT 57.681 36.364 6.65 0.00 41.69 3.96
5 6 3.790152 TGTGTAGCACAATGTTTTGCA 57.210 38.095 6.65 0.00 41.69 4.08
16 17 3.689161 TGCTCACCATTTATGTGTAGCAC 59.311 43.478 11.00 0.00 34.05 4.40
17 18 3.689161 GTGCTCACCATTTATGTGTAGCA 59.311 43.478 11.00 11.00 36.45 3.49
18 19 3.941483 AGTGCTCACCATTTATGTGTAGC 59.059 43.478 0.00 0.00 0.00 3.58
19 20 7.792374 ATTAGTGCTCACCATTTATGTGTAG 57.208 36.000 0.00 0.00 0.00 2.74
20 21 8.482943 AGTATTAGTGCTCACCATTTATGTGTA 58.517 33.333 0.00 0.00 0.00 2.90
21 22 7.338710 AGTATTAGTGCTCACCATTTATGTGT 58.661 34.615 0.00 0.00 0.00 3.72
22 23 7.792374 AGTATTAGTGCTCACCATTTATGTG 57.208 36.000 0.00 0.00 0.00 3.21
70 71 9.102757 GCTCTCATCATTCATCTTGTACTTTTA 57.897 33.333 0.00 0.00 0.00 1.52
71 72 7.828223 AGCTCTCATCATTCATCTTGTACTTTT 59.172 33.333 0.00 0.00 0.00 2.27
72 73 7.337167 AGCTCTCATCATTCATCTTGTACTTT 58.663 34.615 0.00 0.00 0.00 2.66
73 74 6.887013 AGCTCTCATCATTCATCTTGTACTT 58.113 36.000 0.00 0.00 0.00 2.24
74 75 6.482898 AGCTCTCATCATTCATCTTGTACT 57.517 37.500 0.00 0.00 0.00 2.73
75 76 7.656412 TCTAGCTCTCATCATTCATCTTGTAC 58.344 38.462 0.00 0.00 0.00 2.90
76 77 7.830099 TCTAGCTCTCATCATTCATCTTGTA 57.170 36.000 0.00 0.00 0.00 2.41
77 78 6.728089 TCTAGCTCTCATCATTCATCTTGT 57.272 37.500 0.00 0.00 0.00 3.16
78 79 7.379750 TCATCTAGCTCTCATCATTCATCTTG 58.620 38.462 0.00 0.00 0.00 3.02
79 80 7.541916 TCATCTAGCTCTCATCATTCATCTT 57.458 36.000 0.00 0.00 0.00 2.40
80 81 7.727578 ATCATCTAGCTCTCATCATTCATCT 57.272 36.000 0.00 0.00 0.00 2.90
81 82 8.780846 AAATCATCTAGCTCTCATCATTCATC 57.219 34.615 0.00 0.00 0.00 2.92
82 83 8.598916 AGAAATCATCTAGCTCTCATCATTCAT 58.401 33.333 0.00 0.00 36.32 2.57
83 84 7.964624 AGAAATCATCTAGCTCTCATCATTCA 58.035 34.615 0.00 0.00 36.32 2.57
84 85 8.089597 TGAGAAATCATCTAGCTCTCATCATTC 58.910 37.037 0.00 0.00 38.96 2.67
85 86 7.964624 TGAGAAATCATCTAGCTCTCATCATT 58.035 34.615 0.00 0.00 38.96 2.57
86 87 7.541916 TGAGAAATCATCTAGCTCTCATCAT 57.458 36.000 0.00 0.00 38.96 2.45
87 88 6.973460 TGAGAAATCATCTAGCTCTCATCA 57.027 37.500 0.00 0.00 38.96 3.07
88 89 8.836268 ATTTGAGAAATCATCTAGCTCTCATC 57.164 34.615 0.00 0.00 41.48 2.92
113 114 9.612066 TCAAGATGTGCATTCATACTTGTAATA 57.388 29.630 18.19 6.79 36.13 0.98
114 115 8.510243 TCAAGATGTGCATTCATACTTGTAAT 57.490 30.769 18.19 0.00 36.13 1.89
115 116 7.823799 TCTCAAGATGTGCATTCATACTTGTAA 59.176 33.333 18.19 11.25 36.13 2.41
116 117 7.330262 TCTCAAGATGTGCATTCATACTTGTA 58.670 34.615 18.19 11.45 36.13 2.41
117 118 6.175471 TCTCAAGATGTGCATTCATACTTGT 58.825 36.000 18.19 0.00 36.13 3.16
118 119 6.673154 TCTCAAGATGTGCATTCATACTTG 57.327 37.500 15.53 15.53 36.09 3.16
119 120 7.692460 TTTCTCAAGATGTGCATTCATACTT 57.308 32.000 0.00 0.00 0.00 2.24
120 121 7.692460 TTTTCTCAAGATGTGCATTCATACT 57.308 32.000 0.00 0.00 0.00 2.12
151 152 9.298250 ACAGTACTTGGATTGTAGATCGTATAT 57.702 33.333 0.00 0.00 0.00 0.86
152 153 8.687292 ACAGTACTTGGATTGTAGATCGTATA 57.313 34.615 0.00 0.00 0.00 1.47
153 154 7.502895 AGACAGTACTTGGATTGTAGATCGTAT 59.497 37.037 0.00 0.00 0.00 3.06
154 155 6.827251 AGACAGTACTTGGATTGTAGATCGTA 59.173 38.462 0.00 0.00 0.00 3.43
155 156 5.652891 AGACAGTACTTGGATTGTAGATCGT 59.347 40.000 0.00 0.00 0.00 3.73
156 157 6.137794 AGACAGTACTTGGATTGTAGATCG 57.862 41.667 0.00 0.00 0.00 3.69
157 158 7.548097 TCAAGACAGTACTTGGATTGTAGATC 58.452 38.462 0.00 0.00 44.84 2.75
158 159 7.482169 TCAAGACAGTACTTGGATTGTAGAT 57.518 36.000 0.00 0.00 44.84 1.98
159 160 6.911250 TCAAGACAGTACTTGGATTGTAGA 57.089 37.500 0.00 0.00 44.84 2.59
160 161 7.441157 TGTTTCAAGACAGTACTTGGATTGTAG 59.559 37.037 0.00 0.00 44.84 2.74
161 162 7.276658 TGTTTCAAGACAGTACTTGGATTGTA 58.723 34.615 0.00 0.00 44.84 2.41
162 163 6.119536 TGTTTCAAGACAGTACTTGGATTGT 58.880 36.000 0.00 0.00 44.84 2.71
163 164 6.618287 TGTTTCAAGACAGTACTTGGATTG 57.382 37.500 0.00 0.00 44.84 2.67
164 165 7.823745 ATTGTTTCAAGACAGTACTTGGATT 57.176 32.000 0.00 0.00 44.84 3.01
189 190 9.892130 GGCAGTTAAGTATTCCTAAGCATATAT 57.108 33.333 0.00 0.00 0.00 0.86
190 191 9.101325 AGGCAGTTAAGTATTCCTAAGCATATA 57.899 33.333 0.00 0.00 0.00 0.86
191 192 7.978925 AGGCAGTTAAGTATTCCTAAGCATAT 58.021 34.615 0.00 0.00 0.00 1.78
192 193 7.290248 AGAGGCAGTTAAGTATTCCTAAGCATA 59.710 37.037 0.00 0.00 0.00 3.14
193 194 6.100424 AGAGGCAGTTAAGTATTCCTAAGCAT 59.900 38.462 0.00 0.00 0.00 3.79
194 195 5.425539 AGAGGCAGTTAAGTATTCCTAAGCA 59.574 40.000 0.00 0.00 0.00 3.91
195 196 5.755861 CAGAGGCAGTTAAGTATTCCTAAGC 59.244 44.000 0.00 0.00 0.00 3.09
196 197 6.284459 CCAGAGGCAGTTAAGTATTCCTAAG 58.716 44.000 0.00 0.00 0.00 2.18
197 198 6.235231 CCAGAGGCAGTTAAGTATTCCTAA 57.765 41.667 0.00 0.00 0.00 2.69
198 199 5.871396 CCAGAGGCAGTTAAGTATTCCTA 57.129 43.478 0.00 0.00 0.00 2.94
199 200 4.762289 CCAGAGGCAGTTAAGTATTCCT 57.238 45.455 0.00 0.00 0.00 3.36
221 222 1.271597 ACAAGGCAGGGCAGTTAAGAG 60.272 52.381 0.00 0.00 0.00 2.85
226 227 2.011617 AAGGACAAGGCAGGGCAGTT 62.012 55.000 0.00 0.00 0.00 3.16
230 231 1.377856 GAGAAGGACAAGGCAGGGC 60.378 63.158 0.00 0.00 0.00 5.19
249 250 6.821031 ATCCTCCTGCTTAATAGTAGTACG 57.179 41.667 0.00 0.00 32.75 3.67
318 319 2.096069 GCGTATGTCATCATCCATGTGC 60.096 50.000 0.00 0.00 35.70 4.57
359 360 2.076100 GACTCACATGGCATTTCGACA 58.924 47.619 0.00 0.00 36.70 4.35
436 437 7.696992 TCCGATATAATACACACTCAGCATA 57.303 36.000 0.00 0.00 0.00 3.14
437 438 6.590234 TCCGATATAATACACACTCAGCAT 57.410 37.500 0.00 0.00 0.00 3.79
510 512 4.815308 CACATGATCAAGGAGACAAGGATC 59.185 45.833 0.00 0.00 35.36 3.36
561 563 7.713942 AGTTTGTCGTAGTTGGAACTTAGAAAT 59.286 33.333 0.00 0.00 40.37 2.17
562 564 7.043565 AGTTTGTCGTAGTTGGAACTTAGAAA 58.956 34.615 0.00 0.00 40.37 2.52
563 565 6.576185 AGTTTGTCGTAGTTGGAACTTAGAA 58.424 36.000 0.00 0.00 40.37 2.10
564 566 6.152932 AGTTTGTCGTAGTTGGAACTTAGA 57.847 37.500 0.00 0.00 40.37 2.10
565 567 5.404667 GGAGTTTGTCGTAGTTGGAACTTAG 59.595 44.000 0.00 0.00 40.37 2.18
577 579 3.005050 ACTTCACGATGGAGTTTGTCGTA 59.995 43.478 0.00 0.00 45.72 3.43
657 659 4.157656 CCTTTGAAGTGTGTTTCTGGTTGA 59.842 41.667 0.00 0.00 0.00 3.18
658 660 4.157656 TCCTTTGAAGTGTGTTTCTGGTTG 59.842 41.667 0.00 0.00 0.00 3.77
660 662 3.963129 TCCTTTGAAGTGTGTTTCTGGT 58.037 40.909 0.00 0.00 0.00 4.00
771 824 7.565450 TGTTTCGAGACATTGCAAAAATATG 57.435 32.000 1.71 0.00 0.00 1.78
790 843 6.146021 CACTGATTTGGCCAGTTATTTGTTTC 59.854 38.462 5.11 0.00 42.44 2.78
887 942 1.630244 CTGCAGCCTGCTTGTACGTC 61.630 60.000 18.96 0.00 45.31 4.34
1140 1198 4.643387 GTGGTGCTCGCCCCTGTT 62.643 66.667 0.00 0.00 0.00 3.16
1289 1351 7.865707 AGTAGAGAAATGTTGACAAATGACAC 58.134 34.615 0.00 0.00 0.00 3.67
1366 1428 8.622572 AAAATAGGGAGAGAGAAAGAGAGAAT 57.377 34.615 0.00 0.00 0.00 2.40
1368 1430 7.456269 ACAAAAATAGGGAGAGAGAAAGAGAGA 59.544 37.037 0.00 0.00 0.00 3.10
1369 1431 7.619965 ACAAAAATAGGGAGAGAGAAAGAGAG 58.380 38.462 0.00 0.00 0.00 3.20
1426 1488 6.254522 AGGTGTATAGTGGTTAAGACACTCT 58.745 40.000 14.18 8.92 45.50 3.24
1478 1540 7.039714 GGGACTTAAACTCAAATCCACTTTCAT 60.040 37.037 0.00 0.00 0.00 2.57
1602 1666 5.935206 GGGAACTCTTCTCTCCTGTTTTTAG 59.065 44.000 0.00 0.00 0.00 1.85
1609 1673 3.169099 TCAAGGGAACTCTTCTCTCCTG 58.831 50.000 0.00 0.00 40.34 3.86
1611 1675 4.835284 ATTCAAGGGAACTCTTCTCTCC 57.165 45.455 0.00 0.00 40.34 3.71
1612 1676 8.264347 AGATAAATTCAAGGGAACTCTTCTCTC 58.736 37.037 0.00 0.00 40.34 3.20
1904 2138 5.105392 TGCTTCTCCAACTTGACAAACAATT 60.105 36.000 0.00 0.00 37.88 2.32
1908 2142 4.202050 ACATGCTTCTCCAACTTGACAAAC 60.202 41.667 0.00 0.00 0.00 2.93
1989 2223 6.252599 TGCATCTTTAGTGGTCCAATATCT 57.747 37.500 0.00 0.00 0.00 1.98
2074 2334 4.437772 TCAACGGTCCTTTTTCGTTTTT 57.562 36.364 0.00 0.00 43.88 1.94
2075 2335 4.437772 TTCAACGGTCCTTTTTCGTTTT 57.562 36.364 0.00 0.00 43.88 2.43
2076 2336 4.642445 ATTCAACGGTCCTTTTTCGTTT 57.358 36.364 0.00 0.00 43.88 3.60
2077 2337 4.642445 AATTCAACGGTCCTTTTTCGTT 57.358 36.364 0.00 0.00 46.14 3.85
2078 2338 5.754543 TTAATTCAACGGTCCTTTTTCGT 57.245 34.783 0.00 0.00 38.89 3.85
2079 2339 7.631915 AAATTAATTCAACGGTCCTTTTTCG 57.368 32.000 0.10 0.00 0.00 3.46
2081 2341 9.483916 CCTTAAATTAATTCAACGGTCCTTTTT 57.516 29.630 0.10 0.00 0.00 1.94
2082 2342 7.601130 GCCTTAAATTAATTCAACGGTCCTTTT 59.399 33.333 0.10 0.00 0.00 2.27
2083 2343 7.094631 GCCTTAAATTAATTCAACGGTCCTTT 58.905 34.615 0.10 0.00 0.00 3.11
2084 2344 6.209788 TGCCTTAAATTAATTCAACGGTCCTT 59.790 34.615 0.10 0.00 0.00 3.36
2085 2345 5.712917 TGCCTTAAATTAATTCAACGGTCCT 59.287 36.000 0.10 0.00 0.00 3.85
2086 2346 5.956642 TGCCTTAAATTAATTCAACGGTCC 58.043 37.500 0.10 0.00 0.00 4.46
2087 2347 7.254852 TCATGCCTTAAATTAATTCAACGGTC 58.745 34.615 0.10 0.00 0.00 4.79
2088 2348 7.164230 TCATGCCTTAAATTAATTCAACGGT 57.836 32.000 0.10 0.00 0.00 4.83
2089 2349 9.743057 TTATCATGCCTTAAATTAATTCAACGG 57.257 29.630 0.10 1.96 0.00 4.44
2108 2368 2.883386 GGCCTTCAGCTCCTTTATCATG 59.117 50.000 0.00 0.00 43.05 3.07
2182 2505 4.852609 AGCCGACATTTTGTAACGATAC 57.147 40.909 0.00 0.00 0.00 2.24
2183 2506 6.964741 TTAAGCCGACATTTTGTAACGATA 57.035 33.333 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.