Multiple sequence alignment - TraesCS7A01G428800

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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 TraesCS7A01G428800 chr7A 100.000 3439 0 0 1 3439 622374487 622371049 0.000000e+00 6351.0
1 TraesCS7A01G428800 chr7A 86.999 1823 131 44 984 2747 624807336 624809111 0.000000e+00 1956.0
2 TraesCS7A01G428800 chr7A 86.048 1240 113 33 992 2195 623323357 623322142 0.000000e+00 1277.0
3 TraesCS7A01G428800 chr7A 86.318 402 32 15 2747 3143 624809163 624809546 1.910000e-112 416.0
4 TraesCS7A01G428800 chr7A 89.735 302 25 4 2191 2490 623322071 623321774 6.960000e-102 381.0
5 TraesCS7A01G428800 chr7A 90.419 167 10 2 2517 2677 623321606 623321440 7.480000e-52 215.0
6 TraesCS7A01G428800 chr7A 83.200 250 21 4 2833 3061 623297967 623297718 3.480000e-50 209.0
7 TraesCS7A01G428800 chr7A 96.000 50 1 1 3089 3137 623297723 623297674 2.850000e-11 80.5
8 TraesCS7A01G428800 chr7A 97.143 35 0 1 2812 2846 623320849 623320816 1.330000e-04 58.4
9 TraesCS7A01G428800 chr7D 89.849 2453 132 48 747 3137 540716705 540714308 0.000000e+00 3042.0
10 TraesCS7A01G428800 chr7D 86.816 1828 152 36 984 2747 541494724 541496526 0.000000e+00 1958.0
11 TraesCS7A01G428800 chr7D 86.140 1241 113 33 992 2195 540793519 540792301 0.000000e+00 1284.0
12 TraesCS7A01G428800 chr7D 87.248 596 48 4 48 620 540720743 540720153 0.000000e+00 654.0
13 TraesCS7A01G428800 chr7D 86.508 504 40 23 2191 2677 540792230 540791738 2.350000e-146 529.0
14 TraesCS7A01G428800 chr7D 85.894 397 48 8 2747 3141 541496579 541496969 1.910000e-112 416.0
15 TraesCS7A01G428800 chr7D 96.708 243 6 1 3187 3427 540714210 540713968 1.490000e-108 403.0
16 TraesCS7A01G428800 chr7D 91.429 140 8 2 612 748 540716878 540716740 4.530000e-44 189.0
17 TraesCS7A01G428800 chr7D 78.571 140 22 7 2220 2352 421790100 421789962 6.120000e-13 86.1
18 TraesCS7A01G428800 chr7D 100.000 30 0 0 3145 3174 540714221 540714192 4.790000e-04 56.5
19 TraesCS7A01G428800 chr7B 89.381 1808 121 37 747 2519 584037216 584035445 0.000000e+00 2209.0
20 TraesCS7A01G428800 chr7B 84.668 1474 123 45 1346 2747 585487200 585488642 0.000000e+00 1375.0
21 TraesCS7A01G428800 chr7B 94.543 843 33 3 2610 3439 584035377 584034535 0.000000e+00 1290.0
22 TraesCS7A01G428800 chr7B 81.695 1180 123 57 1082 2195 584270300 584269148 0.000000e+00 896.0
23 TraesCS7A01G428800 chr7B 85.988 521 35 7 2191 2677 584269077 584268561 1.090000e-144 523.0
24 TraesCS7A01G428800 chr7B 91.875 320 20 4 984 1300 585486876 585487192 3.150000e-120 442.0
25 TraesCS7A01G428800 chr7B 90.789 304 20 6 2834 3137 584262750 584262455 1.920000e-107 399.0
26 TraesCS7A01G428800 chr7B 85.938 384 38 6 2747 3128 585488696 585489065 2.490000e-106 396.0
27 TraesCS7A01G428800 chr7B 91.005 189 15 2 561 748 584037438 584037251 1.580000e-63 254.0
28 TraesCS7A01G428800 chr7B 86.667 90 10 2 3192 3279 585489084 585489173 7.850000e-17 99.0
29 TraesCS7A01G428800 chr2B 81.203 133 19 1 3285 3417 1917644 1917518 6.070000e-18 102.0
30 TraesCS7A01G428800 chr1D 71.783 443 98 21 1919 2343 342491381 342490948 2.180000e-17 100.0
31 TraesCS7A01G428800 chr3D 98.077 52 1 0 1 52 602478185 602478236 1.310000e-14 91.6
32 TraesCS7A01G428800 chr3D 96.154 52 2 0 1 52 452985285 452985336 6.120000e-13 86.1
33 TraesCS7A01G428800 chr3D 96.154 52 2 0 1 52 519959050 519959101 6.120000e-13 86.1
34 TraesCS7A01G428800 chr3B 96.154 52 2 0 1 52 595277496 595277547 6.120000e-13 86.1
35 TraesCS7A01G428800 chr1B 100.000 43 0 0 1 43 622939044 622939086 2.850000e-11 80.5
36 TraesCS7A01G428800 chr1A 80.612 98 17 2 1374 1470 442157307 442157211 1.320000e-09 75.0


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 TraesCS7A01G428800 chr7A 622371049 622374487 3438 True 6351.00 6351 100.00000 1 3439 1 chr7A.!!$R1 3438
1 TraesCS7A01G428800 chr7A 624807336 624809546 2210 False 1186.00 1956 86.65850 984 3143 2 chr7A.!!$F1 2159
2 TraesCS7A01G428800 chr7A 623320816 623323357 2541 True 482.85 1277 90.83625 992 2846 4 chr7A.!!$R3 1854
3 TraesCS7A01G428800 chr7D 541494724 541496969 2245 False 1187.00 1958 86.35500 984 3141 2 chr7D.!!$F1 2157
4 TraesCS7A01G428800 chr7D 540791738 540793519 1781 True 906.50 1284 86.32400 992 2677 2 chr7D.!!$R3 1685
5 TraesCS7A01G428800 chr7D 540713968 540720743 6775 True 868.90 3042 93.04680 48 3427 5 chr7D.!!$R2 3379
6 TraesCS7A01G428800 chr7B 584034535 584037438 2903 True 1251.00 2209 91.64300 561 3439 3 chr7B.!!$R2 2878
7 TraesCS7A01G428800 chr7B 584268561 584270300 1739 True 709.50 896 83.84150 1082 2677 2 chr7B.!!$R3 1595
8 TraesCS7A01G428800 chr7B 585486876 585489173 2297 False 578.00 1375 87.28700 984 3279 4 chr7B.!!$F1 2295

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
745 4055 0.036306 GGAAAGCAGAAACCCGAGGA 59.964 55.0 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2483 6178 0.796312 GAAGGCTCAAAATGTCGCGA 59.204 50.0 3.71 3.71 0.0 5.87 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
21 22 2.503869 AATGGACCTCTAGCCATCCT 57.496 50.000 0.00 0.00 43.85 3.24
22 23 2.503869 ATGGACCTCTAGCCATCCTT 57.496 50.000 0.00 0.04 40.83 3.36
23 24 1.500474 TGGACCTCTAGCCATCCTTG 58.500 55.000 0.00 0.00 32.06 3.61
24 25 0.107643 GGACCTCTAGCCATCCTTGC 59.892 60.000 0.00 0.00 0.00 4.01
25 26 1.127343 GACCTCTAGCCATCCTTGCT 58.873 55.000 0.00 0.00 42.81 3.91
26 27 2.320781 GACCTCTAGCCATCCTTGCTA 58.679 52.381 0.00 0.00 40.23 3.49
31 32 1.793414 TAGCCATCCTTGCTAGCTCA 58.207 50.000 17.23 1.34 40.23 4.26
32 33 1.138568 AGCCATCCTTGCTAGCTCAT 58.861 50.000 17.23 0.00 37.28 2.90
33 34 1.202782 AGCCATCCTTGCTAGCTCATG 60.203 52.381 17.23 11.64 37.28 3.07
34 35 1.893544 CCATCCTTGCTAGCTCATGG 58.106 55.000 17.23 16.29 33.84 3.66
35 36 1.544982 CCATCCTTGCTAGCTCATGGG 60.545 57.143 17.23 10.40 33.49 4.00
36 37 0.110104 ATCCTTGCTAGCTCATGGGC 59.890 55.000 17.23 10.42 33.49 5.36
37 38 0.984961 TCCTTGCTAGCTCATGGGCT 60.985 55.000 26.16 26.16 45.29 5.19
38 39 0.818445 CCTTGCTAGCTCATGGGCTG 60.818 60.000 30.64 19.79 43.01 4.85
39 40 1.445716 CTTGCTAGCTCATGGGCTGC 61.446 60.000 30.64 27.73 43.01 5.25
40 41 1.918467 TTGCTAGCTCATGGGCTGCT 61.918 55.000 30.64 17.46 43.01 4.24
41 42 1.597578 GCTAGCTCATGGGCTGCTC 60.598 63.158 30.64 14.44 43.01 4.26
42 43 2.042404 GCTAGCTCATGGGCTGCTCT 62.042 60.000 30.64 5.84 43.01 4.09
43 44 1.336131 CTAGCTCATGGGCTGCTCTA 58.664 55.000 30.64 8.72 43.01 2.43
44 45 1.901159 CTAGCTCATGGGCTGCTCTAT 59.099 52.381 30.64 4.17 43.01 1.98
45 46 1.138568 AGCTCATGGGCTGCTCTATT 58.861 50.000 22.11 0.00 41.43 1.73
46 47 2.333069 AGCTCATGGGCTGCTCTATTA 58.667 47.619 22.11 0.00 41.43 0.98
53 54 5.191124 TCATGGGCTGCTCTATTATCATCAT 59.809 40.000 0.00 0.00 0.00 2.45
61 62 7.652909 GCTGCTCTATTATCATCATAGTCATCC 59.347 40.741 0.00 0.00 0.00 3.51
71 72 7.024345 TCATCATAGTCATCCTTATTGGCAT 57.976 36.000 0.00 0.00 35.26 4.40
74 75 5.310331 TCATAGTCATCCTTATTGGCATCCA 59.690 40.000 0.00 0.00 35.26 3.41
89 90 3.056179 GGCATCCATCTCCTTAGCTAGAC 60.056 52.174 0.00 0.00 0.00 2.59
159 160 4.290711 TCATCTCAGATCCTTTGTTGCA 57.709 40.909 0.00 0.00 0.00 4.08
167 168 4.746611 CAGATCCTTTGTTGCAACCTTTTC 59.253 41.667 26.14 14.74 0.00 2.29
168 169 3.535280 TCCTTTGTTGCAACCTTTTCC 57.465 42.857 26.14 0.22 0.00 3.13
172 173 4.332543 CCTTTGTTGCAACCTTTTCCTTTC 59.667 41.667 26.14 0.00 0.00 2.62
177 178 5.641636 TGTTGCAACCTTTTCCTTTCTTTTC 59.358 36.000 26.14 0.00 0.00 2.29
181 182 3.296854 ACCTTTTCCTTTCTTTTCGGCT 58.703 40.909 0.00 0.00 0.00 5.52
182 183 3.704566 ACCTTTTCCTTTCTTTTCGGCTT 59.295 39.130 0.00 0.00 0.00 4.35
183 184 4.161565 ACCTTTTCCTTTCTTTTCGGCTTT 59.838 37.500 0.00 0.00 0.00 3.51
215 216 4.721776 TCATAGTACCAAAGGAATCCTGCT 59.278 41.667 0.90 0.00 32.13 4.24
219 220 4.783227 AGTACCAAAGGAATCCTGCTCTTA 59.217 41.667 0.90 0.00 32.13 2.10
264 265 3.964031 TCTAGATCCTCCTGCTCCTTTTC 59.036 47.826 0.00 0.00 0.00 2.29
291 292 0.981277 TCGGGGGTCCTCAATTCTCC 60.981 60.000 0.00 0.00 0.00 3.71
301 302 5.189180 GTCCTCAATTCTCCTGTTAGCATT 58.811 41.667 0.00 0.00 0.00 3.56
302 303 5.649831 GTCCTCAATTCTCCTGTTAGCATTT 59.350 40.000 0.00 0.00 0.00 2.32
303 304 5.649395 TCCTCAATTCTCCTGTTAGCATTTG 59.351 40.000 0.00 0.00 0.00 2.32
317 318 3.899726 AGCATTTGCATCCTTCATCTCT 58.100 40.909 5.20 0.00 45.16 3.10
331 332 6.012157 TCCTTCATCTCTTTTTCCTCTTCCAT 60.012 38.462 0.00 0.00 0.00 3.41
334 335 6.546484 TCATCTCTTTTTCCTCTTCCATGTT 58.454 36.000 0.00 0.00 0.00 2.71
345 346 6.487828 TCCTCTTCCATGTTCTCATCAAATT 58.512 36.000 0.00 0.00 31.15 1.82
373 374 6.166279 TGTCTAGAGTCTTATTGCCAGTTTG 58.834 40.000 0.00 0.00 0.00 2.93
381 382 4.943705 TCTTATTGCCAGTTTGAGATCCAC 59.056 41.667 0.00 0.00 0.00 4.02
392 393 1.087501 GAGATCCACCGGTTTTCAGC 58.912 55.000 2.97 0.00 0.00 4.26
417 437 8.430063 GCTTCTCAAATTTTGTTGTGACATATG 58.570 33.333 8.89 0.00 35.29 1.78
424 444 3.134021 TGTTGTGACATATGCAATGCG 57.866 42.857 1.58 0.00 0.00 4.73
429 449 4.352887 TGTGACATATGCAATGCGAATTG 58.647 39.130 12.11 12.11 34.79 2.32
439 459 2.765150 GCGAATTGCAAAGCACGC 59.235 55.556 20.11 20.11 42.23 5.34
447 467 0.316607 TGCAAAGCACGCAACTTACG 60.317 50.000 0.00 0.00 36.17 3.18
449 469 1.658968 CAAAGCACGCAACTTACGTC 58.341 50.000 0.00 0.00 42.96 4.34
459 479 3.302480 CGCAACTTACGTCAGAATATGCC 60.302 47.826 3.23 0.00 0.00 4.40
475 495 1.540267 TGCCCGGATGATTTCGTTTT 58.460 45.000 0.73 0.00 0.00 2.43
479 499 3.730963 GCCCGGATGATTTCGTTTTCTTC 60.731 47.826 0.73 0.00 0.00 2.87
483 503 4.671766 CGGATGATTTCGTTTTCTTCCCAC 60.672 45.833 0.00 0.00 34.35 4.61
534 554 0.886563 GCAAGGCTGTTGCTCATCTT 59.113 50.000 14.71 0.00 41.87 2.40
536 556 2.925306 GCAAGGCTGTTGCTCATCTTTG 60.925 50.000 14.71 0.00 41.87 2.77
540 560 2.555757 GGCTGTTGCTCATCTTTGTTCT 59.444 45.455 0.00 0.00 39.59 3.01
621 3928 1.132643 CAGAGAAACGTACTCCCTCCG 59.867 57.143 15.76 0.00 35.27 4.63
622 3929 1.004044 AGAGAAACGTACTCCCTCCGA 59.996 52.381 15.76 0.00 35.27 4.55
648 3955 7.763172 AAGAGATAGTGATTTAAACGCTCTG 57.237 36.000 0.00 0.00 30.96 3.35
660 3967 1.456296 ACGCTCTGGTACATACGTGA 58.544 50.000 0.00 0.00 39.01 4.35
705 4015 2.630098 GCTTTTCCTTCTTTTCCCTGCT 59.370 45.455 0.00 0.00 0.00 4.24
737 4047 5.163195 ACTCTAGTCCAAAGGAAAGCAGAAA 60.163 40.000 0.00 0.00 31.38 2.52
741 4051 1.000274 CCAAAGGAAAGCAGAAACCCG 60.000 52.381 0.00 0.00 0.00 5.28
742 4052 1.953686 CAAAGGAAAGCAGAAACCCGA 59.046 47.619 0.00 0.00 0.00 5.14
744 4054 0.036875 AGGAAAGCAGAAACCCGAGG 59.963 55.000 0.00 0.00 0.00 4.63
745 4055 0.036306 GGAAAGCAGAAACCCGAGGA 59.964 55.000 0.00 0.00 0.00 3.71
836 4200 3.785122 AACCACCACCCCACGCTTC 62.785 63.158 0.00 0.00 0.00 3.86
857 4221 3.072468 CTAGAACACCCGGCCGGA 61.072 66.667 45.44 22.72 37.50 5.14
893 4257 0.250640 CTCACTGTTTCTGCCCTGCT 60.251 55.000 0.00 0.00 0.00 4.24
982 4346 3.111838 CTCGATCGACTCCTGTCATTTG 58.888 50.000 15.15 0.00 43.06 2.32
986 4350 4.500837 CGATCGACTCCTGTCATTTGTTAG 59.499 45.833 10.26 0.00 43.06 2.34
1131 4509 4.077184 TCCATCACGGACACGGGC 62.077 66.667 0.00 0.00 44.98 6.13
1619 5077 9.922477 TCCTATTACTTTCTCTCAGTCTCAATA 57.078 33.333 0.00 0.00 0.00 1.90
1621 5079 9.658475 CTATTACTTTCTCTCAGTCTCAATACG 57.342 37.037 0.00 0.00 0.00 3.06
1657 5119 8.988064 TCTTTCAACAGTCAGACATACTAATC 57.012 34.615 2.66 0.00 0.00 1.75
1810 5288 0.916086 TAATCCCAGCCGTGGTTCAT 59.084 50.000 0.00 0.00 43.23 2.57
1837 5315 1.736645 CGACGCCACCAAGGTACTG 60.737 63.158 0.00 0.00 40.86 2.74
1848 5333 2.228822 CCAAGGTACTGCCATCAAACAC 59.771 50.000 0.00 0.00 40.86 3.32
1851 5336 2.084546 GGTACTGCCATCAAACACCTC 58.915 52.381 0.00 0.00 37.17 3.85
1861 5347 3.764237 TCAAACACCTCCTCTTACACC 57.236 47.619 0.00 0.00 0.00 4.16
1864 5353 4.903049 TCAAACACCTCCTCTTACACCTAA 59.097 41.667 0.00 0.00 0.00 2.69
2054 5555 2.032681 GGCTGCCTCAACGACCTT 59.967 61.111 12.43 0.00 0.00 3.50
2166 5667 3.426426 CGACTACTTCAACTCCTTCCTCG 60.426 52.174 0.00 0.00 0.00 4.63
2180 5681 2.685380 CTCGGCCTCCTCAAGGGT 60.685 66.667 0.00 0.00 46.32 4.34
2184 5685 3.650950 GCCTCCTCAAGGGTGCCA 61.651 66.667 0.00 0.00 46.32 4.92
2441 6018 5.009410 GGAGAAAAATGGGCAGACATGATAG 59.991 44.000 0.00 0.00 0.00 2.08
2560 6284 7.039882 CCAGATTAAACTACTCCGAGCTAAAA 58.960 38.462 0.00 0.00 0.00 1.52
2650 6382 8.718734 AGTAAATTGAGAGGATTTTACGTGTTC 58.281 33.333 0.00 0.00 0.00 3.18
2751 7007 6.040278 CCTCAGTTCATGTATCTAGCTGAGAA 59.960 42.308 20.03 0.74 46.53 2.87
2795 7105 1.989706 AAACCACGGGCAAATACACT 58.010 45.000 0.00 0.00 0.00 3.55
2846 7156 7.105241 AGATTTAACAGCCTTGATTTGATCC 57.895 36.000 0.00 0.00 0.00 3.36
2891 7201 6.464222 TCGAGAATACCAGTTGAACTCAAAT 58.536 36.000 0.00 0.00 37.63 2.32
2892 7202 7.608153 TCGAGAATACCAGTTGAACTCAAATA 58.392 34.615 0.00 0.00 37.63 1.40
3023 7333 7.404671 TGCATCTACAAGAGTACATCTTACA 57.595 36.000 0.00 0.00 46.91 2.41
3174 7563 2.153366 AAGGCAACAGCAATTTTCCG 57.847 45.000 0.00 0.00 41.41 4.30
3178 7567 2.611751 GGCAACAGCAATTTTCCGTTTT 59.388 40.909 0.00 0.00 0.00 2.43
3314 7707 7.661437 TGCTGCGATGAAATAATAGAAGGTTAT 59.339 33.333 0.00 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.637821 AGGATGGCTAGAGGTCCATTA 57.362 47.619 0.00 0.00 42.74 1.90
4 5 1.500474 CAAGGATGGCTAGAGGTCCA 58.500 55.000 0.00 0.00 36.70 4.02
5 6 0.107643 GCAAGGATGGCTAGAGGTCC 59.892 60.000 0.00 0.00 26.77 4.46
6 7 3.696306 GCAAGGATGGCTAGAGGTC 57.304 57.895 0.00 0.00 26.77 3.85
14 15 1.236628 CATGAGCTAGCAAGGATGGC 58.763 55.000 18.83 0.00 32.57 4.40
15 16 1.544982 CCCATGAGCTAGCAAGGATGG 60.545 57.143 18.83 19.41 0.00 3.51
16 17 1.893544 CCCATGAGCTAGCAAGGATG 58.106 55.000 18.83 12.09 0.00 3.51
17 18 0.110104 GCCCATGAGCTAGCAAGGAT 59.890 55.000 18.83 0.00 0.00 3.24
18 19 0.984961 AGCCCATGAGCTAGCAAGGA 60.985 55.000 18.83 0.00 42.70 3.36
19 20 0.818445 CAGCCCATGAGCTAGCAAGG 60.818 60.000 18.83 12.19 42.61 3.61
20 21 1.445716 GCAGCCCATGAGCTAGCAAG 61.446 60.000 18.83 3.10 42.61 4.01
21 22 1.452651 GCAGCCCATGAGCTAGCAA 60.453 57.895 18.83 4.87 42.61 3.91
22 23 2.191375 GCAGCCCATGAGCTAGCA 59.809 61.111 18.83 0.00 42.61 3.49
23 24 1.597578 GAGCAGCCCATGAGCTAGC 60.598 63.158 6.62 6.62 42.61 3.42
24 25 1.336131 TAGAGCAGCCCATGAGCTAG 58.664 55.000 0.00 0.00 42.61 3.42
25 26 2.021262 ATAGAGCAGCCCATGAGCTA 57.979 50.000 0.00 0.00 42.61 3.32
26 27 1.138568 AATAGAGCAGCCCATGAGCT 58.861 50.000 0.00 0.00 46.45 4.09
27 28 2.847327 TAATAGAGCAGCCCATGAGC 57.153 50.000 0.00 0.00 0.00 4.26
28 29 4.548451 TGATAATAGAGCAGCCCATGAG 57.452 45.455 0.00 0.00 0.00 2.90
29 30 4.533311 TGATGATAATAGAGCAGCCCATGA 59.467 41.667 0.00 0.00 0.00 3.07
30 31 4.840271 TGATGATAATAGAGCAGCCCATG 58.160 43.478 0.00 0.00 0.00 3.66
31 32 5.712084 ATGATGATAATAGAGCAGCCCAT 57.288 39.130 0.00 0.00 0.00 4.00
32 33 5.723405 ACTATGATGATAATAGAGCAGCCCA 59.277 40.000 3.79 0.00 32.85 5.36
33 34 6.127225 TGACTATGATGATAATAGAGCAGCCC 60.127 42.308 3.79 0.00 32.85 5.19
34 35 6.871844 TGACTATGATGATAATAGAGCAGCC 58.128 40.000 3.79 0.00 32.85 4.85
35 36 7.652909 GGATGACTATGATGATAATAGAGCAGC 59.347 40.741 3.79 4.52 32.85 5.25
36 37 8.916062 AGGATGACTATGATGATAATAGAGCAG 58.084 37.037 3.79 0.00 32.85 4.24
37 38 8.835550 AGGATGACTATGATGATAATAGAGCA 57.164 34.615 3.79 2.51 32.85 4.26
43 44 9.624373 GCCAATAAGGATGACTATGATGATAAT 57.376 33.333 0.00 0.00 41.22 1.28
44 45 8.605065 TGCCAATAAGGATGACTATGATGATAA 58.395 33.333 0.00 0.00 41.22 1.75
45 46 8.149631 TGCCAATAAGGATGACTATGATGATA 57.850 34.615 0.00 0.00 41.22 2.15
46 47 7.024345 TGCCAATAAGGATGACTATGATGAT 57.976 36.000 0.00 0.00 41.22 2.45
53 54 5.549228 AGATGGATGCCAATAAGGATGACTA 59.451 40.000 0.00 0.00 41.22 2.59
61 62 4.699257 GCTAAGGAGATGGATGCCAATAAG 59.301 45.833 0.00 0.00 36.95 1.73
71 72 3.838565 CAGGTCTAGCTAAGGAGATGGA 58.161 50.000 0.00 0.00 0.00 3.41
74 75 3.320610 TGCAGGTCTAGCTAAGGAGAT 57.679 47.619 0.00 0.00 0.00 2.75
147 148 3.711190 AGGAAAAGGTTGCAACAAAGGAT 59.289 39.130 29.55 11.20 0.00 3.24
148 149 3.103742 AGGAAAAGGTTGCAACAAAGGA 58.896 40.909 29.55 0.00 0.00 3.36
151 152 5.159273 AGAAAGGAAAAGGTTGCAACAAA 57.841 34.783 29.55 0.00 0.00 2.83
159 160 3.704566 AGCCGAAAAGAAAGGAAAAGGTT 59.295 39.130 0.00 0.00 0.00 3.50
215 216 8.902806 CCTGGTTGATTATAATGCAAGTTAAGA 58.097 33.333 1.78 0.00 0.00 2.10
219 220 6.891908 AGACCTGGTTGATTATAATGCAAGTT 59.108 34.615 1.78 0.00 0.00 2.66
264 265 1.889530 GAGGACCCCCGACTCAACTG 61.890 65.000 0.00 0.00 37.58 3.16
291 292 4.707030 TGAAGGATGCAAATGCTAACAG 57.293 40.909 6.97 0.00 42.66 3.16
301 302 5.327732 AGGAAAAAGAGATGAAGGATGCAA 58.672 37.500 0.00 0.00 0.00 4.08
302 303 4.927049 AGGAAAAAGAGATGAAGGATGCA 58.073 39.130 0.00 0.00 0.00 3.96
303 304 5.192176 AGAGGAAAAAGAGATGAAGGATGC 58.808 41.667 0.00 0.00 0.00 3.91
317 318 6.306199 TGATGAGAACATGGAAGAGGAAAAA 58.694 36.000 0.00 0.00 36.82 1.94
331 332 8.127150 TCTAGACAGAGAATTTGATGAGAACA 57.873 34.615 0.00 0.00 0.00 3.18
373 374 1.087501 GCTGAAAACCGGTGGATCTC 58.912 55.000 8.52 0.91 0.00 2.75
381 382 3.923017 ATTTGAGAAGCTGAAAACCGG 57.077 42.857 0.00 0.00 0.00 5.28
392 393 8.430063 GCATATGTCACAACAAAATTTGAGAAG 58.570 33.333 13.19 1.90 39.30 2.85
429 449 2.409835 CGTAAGTTGCGTGCTTTGC 58.590 52.632 5.08 0.00 0.00 3.68
443 463 2.033372 TCCGGGCATATTCTGACGTAA 58.967 47.619 0.00 0.00 31.38 3.18
447 467 2.839486 TCATCCGGGCATATTCTGAC 57.161 50.000 0.00 0.00 0.00 3.51
449 469 3.125829 CGAAATCATCCGGGCATATTCTG 59.874 47.826 0.00 0.00 0.00 3.02
459 479 3.181500 GGGAAGAAAACGAAATCATCCGG 60.181 47.826 0.00 0.00 34.93 5.14
483 503 4.125097 GCGCACGTACGTTTCCCG 62.125 66.667 20.23 18.62 44.03 5.14
526 546 4.808364 AGCGAAGATAGAACAAAGATGAGC 59.192 41.667 0.00 0.00 0.00 4.26
534 554 3.262420 GCCTTGAGCGAAGATAGAACAA 58.738 45.455 0.44 0.00 32.82 2.83
564 588 6.889019 ATCTTACGAGAAAGAACGGAATTC 57.111 37.500 0.00 0.00 38.90 2.17
579 603 8.975410 TCTGAAAAGATAACGAAATCTTACGA 57.025 30.769 14.41 11.12 43.75 3.43
621 3928 8.874816 AGAGCGTTTAAATCACTATCTCTTTTC 58.125 33.333 0.00 0.00 0.00 2.29
622 3929 8.660373 CAGAGCGTTTAAATCACTATCTCTTTT 58.340 33.333 0.00 0.00 0.00 2.27
648 3955 3.734231 CCGTTGATCATCACGTATGTACC 59.266 47.826 16.47 0.00 36.89 3.34
660 3967 0.533755 GCTAGCCTGCCGTTGATCAT 60.534 55.000 2.29 0.00 0.00 2.45
705 4015 3.196469 CCTTTGGACTAGAGTCATCAGCA 59.804 47.826 11.64 0.00 46.47 4.41
737 4047 1.841302 TTTGCTGCTGATCCTCGGGT 61.841 55.000 0.00 0.00 0.00 5.28
741 4051 0.098376 CGCTTTTGCTGCTGATCCTC 59.902 55.000 0.00 0.00 44.80 3.71
742 4052 0.321919 TCGCTTTTGCTGCTGATCCT 60.322 50.000 0.00 0.00 44.80 3.24
744 4054 0.518636 TGTCGCTTTTGCTGCTGATC 59.481 50.000 0.00 0.00 44.80 2.92
745 4055 0.520404 CTGTCGCTTTTGCTGCTGAT 59.480 50.000 0.00 0.00 44.80 2.90
836 4200 1.817209 GGCCGGGTGTTCTAGAGAG 59.183 63.158 2.18 0.00 0.00 3.20
874 4238 0.250640 AGCAGGGCAGAAACAGTGAG 60.251 55.000 0.00 0.00 0.00 3.51
875 4239 0.535780 CAGCAGGGCAGAAACAGTGA 60.536 55.000 0.00 0.00 0.00 3.41
876 4240 1.954528 CAGCAGGGCAGAAACAGTG 59.045 57.895 0.00 0.00 0.00 3.66
934 4298 1.753649 AGTGATGATGAGGACTCCGTG 59.246 52.381 0.00 0.00 0.00 4.94
935 4299 2.028130 GAGTGATGATGAGGACTCCGT 58.972 52.381 0.00 0.00 30.55 4.69
982 4346 3.821841 CCATGCAGAAAACGGTTCTAAC 58.178 45.455 3.59 1.24 0.00 2.34
986 4350 0.598065 AGCCATGCAGAAAACGGTTC 59.402 50.000 0.00 0.00 0.00 3.62
1086 4464 2.279517 CTGTAGATCGCCGCCACC 60.280 66.667 0.00 0.00 0.00 4.61
1323 4734 4.272261 TGAGTGTCACGTACGTTTACTACA 59.728 41.667 20.23 17.17 0.00 2.74
1483 4910 2.522436 TCCGGTTGGACTGGTCGT 60.522 61.111 0.00 0.00 45.01 4.34
1584 5032 8.836735 TGAGAGAAAGTAATAGGAGGGAATTTT 58.163 33.333 0.00 0.00 0.00 1.82
1585 5033 8.393959 TGAGAGAAAGTAATAGGAGGGAATTT 57.606 34.615 0.00 0.00 0.00 1.82
1586 5034 7.625682 ACTGAGAGAAAGTAATAGGAGGGAATT 59.374 37.037 0.00 0.00 0.00 2.17
1595 5043 9.658475 CGTATTGAGACTGAGAGAAAGTAATAG 57.342 37.037 0.00 0.00 0.00 1.73
1619 5077 3.438781 TGTTGAAAGAAAACAGAGTGCGT 59.561 39.130 0.00 0.00 32.71 5.24
1657 5119 4.793216 GCACGCACAAATTTTACATAGAGG 59.207 41.667 0.00 0.00 0.00 3.69
1810 5288 1.324005 TGGTGGCGTCGATGATGGTA 61.324 55.000 9.31 0.00 0.00 3.25
1837 5315 2.206576 AAGAGGAGGTGTTTGATGGC 57.793 50.000 0.00 0.00 0.00 4.40
1848 5333 2.753247 AGCCTTAGGTGTAAGAGGAGG 58.247 52.381 0.00 0.00 38.39 4.30
1851 5336 7.784470 ATCTATTAGCCTTAGGTGTAAGAGG 57.216 40.000 13.41 0.00 38.39 3.69
2054 5555 1.079405 CTTGGCGGCGAAGAGGTTA 60.079 57.895 18.45 0.00 0.00 2.85
2166 5667 4.432741 GGCACCCTTGAGGAGGCC 62.433 72.222 13.65 13.65 46.94 5.19
2362 5939 1.043116 CCCGTGGTAGATGAGCCTGA 61.043 60.000 0.00 0.00 0.00 3.86
2441 6018 5.046231 AGTCTAGGGGAGAATCAAAACAGTC 60.046 44.000 0.00 0.00 35.37 3.51
2483 6178 0.796312 GAAGGCTCAAAATGTCGCGA 59.204 50.000 3.71 3.71 0.00 5.87
2591 6318 4.081322 ACTTTGTAACTGTGTACCCTGG 57.919 45.455 0.00 0.00 0.00 4.45
2650 6382 9.263538 TGTAGGTTTGTAACTGTGTACTAAATG 57.736 33.333 0.00 0.00 0.00 2.32
2751 7007 5.339008 TCCTGTAAGATTTGCACTCGTAT 57.661 39.130 0.00 0.00 34.07 3.06
2795 7105 1.021202 CAGTGTTTGAACTTGGGCGA 58.979 50.000 0.00 0.00 0.00 5.54
2846 7156 9.516314 TCTCGATGTAGATAGTTGTTTAACATG 57.484 33.333 0.00 0.00 39.30 3.21
2891 7201 4.499865 GCACTGAAGATGGTTCGCTAGATA 60.500 45.833 0.00 0.00 0.00 1.98
2892 7202 3.739519 GCACTGAAGATGGTTCGCTAGAT 60.740 47.826 0.00 0.00 0.00 1.98
2896 7206 0.035317 TGCACTGAAGATGGTTCGCT 59.965 50.000 0.00 0.00 0.00 4.93
3023 7333 9.029368 TGAGATCTATCATTCGGTATTCTCATT 57.971 33.333 0.00 0.00 33.95 2.57
3031 7341 6.128138 TCCTCTGAGATCTATCATTCGGTA 57.872 41.667 6.17 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.