Multiple sequence alignment - TraesCS1D01G303500

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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 TraesCS1D01G303500 chr1D 100.000 3467 0 0 1 3467 401356606 401360072 0.000000e+00 6403
1 TraesCS1D01G303500 chr1D 97.471 1819 40 2 1458 3270 401435512 401437330 0.000000e+00 3099
2 TraesCS1D01G303500 chr1D 97.895 190 4 0 3278 3467 83913412 83913223 2.580000e-86 329
3 TraesCS1D01G303500 chr1D 97.368 190 5 0 3278 3467 468393580 468393391 1.200000e-84 324
4 TraesCS1D01G303500 chr1B 91.430 2462 123 38 168 2605 539459130 539461527 0.000000e+00 3297
5 TraesCS1D01G303500 chr1B 95.238 147 7 0 2998 3144 182184848 182184994 2.080000e-57 233
6 TraesCS1D01G303500 chr1B 86.175 217 19 8 2623 2838 539461514 539461720 1.250000e-54 224
7 TraesCS1D01G303500 chr1B 92.357 157 4 4 1 156 539458918 539459067 2.100000e-52 217
8 TraesCS1D01G303500 chr1B 94.656 131 6 1 3141 3270 539466264 539466394 5.870000e-48 202
9 TraesCS1D01G303500 chr1B 91.406 128 10 1 2875 3002 539466141 539466267 1.280000e-39 174
10 TraesCS1D01G303500 chr1A 94.071 1636 80 8 987 2605 497345464 497347099 0.000000e+00 2468
11 TraesCS1D01G303500 chr1A 94.059 909 38 6 6 914 497344536 497345428 0.000000e+00 1365
12 TraesCS1D01G303500 chr1A 93.846 130 8 0 3141 3270 497347457 497347586 2.730000e-46 196
13 TraesCS1D01G303500 chr7B 97.895 190 4 0 3278 3467 606783557 606783746 2.580000e-86 329
14 TraesCS1D01G303500 chr6A 97.895 190 4 0 3278 3467 573040515 573040326 2.580000e-86 329
15 TraesCS1D01G303500 chr6A 95.890 146 6 0 2999 3144 542327138 542327283 1.610000e-58 237
16 TraesCS1D01G303500 chr4A 97.895 190 4 0 3278 3467 605038132 605037943 2.580000e-86 329
17 TraesCS1D01G303500 chr4A 94.231 156 8 1 2991 3146 696375027 696374873 1.610000e-58 237
18 TraesCS1D01G303500 chrUn 97.368 190 5 0 3278 3467 45364115 45363926 1.200000e-84 324
19 TraesCS1D01G303500 chr7D 97.368 190 5 0 3278 3467 38194320 38194131 1.200000e-84 324
20 TraesCS1D01G303500 chr6D 97.368 190 5 0 3278 3467 28468 28657 1.200000e-84 324
21 TraesCS1D01G303500 chr6D 94.118 153 8 1 3000 3151 319698146 319697994 7.480000e-57 231
22 TraesCS1D01G303500 chr2D 97.368 190 5 0 3278 3467 13935320 13935131 1.200000e-84 324
23 TraesCS1D01G303500 chr7A 96.552 145 5 0 3000 3144 55363509 55363653 1.240000e-59 241
24 TraesCS1D01G303500 chr2B 94.304 158 6 3 2990 3144 250888669 250888826 4.470000e-59 239
25 TraesCS1D01G303500 chr3A 95.302 149 7 0 2998 3146 23651165 23651017 1.610000e-58 237
26 TraesCS1D01G303500 chr5B 95.238 147 7 0 2996 3142 704507492 704507638 2.080000e-57 233


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 TraesCS1D01G303500 chr1D 401356606 401360072 3466 False 6403 6403 100.000000 1 3467 1 chr1D.!!$F1 3466
1 TraesCS1D01G303500 chr1D 401435512 401437330 1818 False 3099 3099 97.471000 1458 3270 1 chr1D.!!$F2 1812
2 TraesCS1D01G303500 chr1B 539458918 539461720 2802 False 1246 3297 89.987333 1 2838 3 chr1B.!!$F2 2837
3 TraesCS1D01G303500 chr1A 497344536 497347586 3050 False 1343 2468 93.992000 6 3270 3 chr1A.!!$F1 3264

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
234 287 1.355971 GTGTCGATACGTTGGCACAT 58.644 50.0 12.97 0.0 39.3 3.21 F
1233 1289 0.900647 CTGAGGAGGTGGAGTTCGGT 60.901 60.0 0.00 0.0 0.0 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1236 1292 0.108424 CGTCTTCTCCCTCCTTGCAG 60.108 60.000 0.00 0.0 0.00 4.41 R
2538 2611 2.536066 TGCCAAGTGGAGCTAACTCTA 58.464 47.619 0.18 0.0 42.98 2.43 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
74 75 1.740025 CTCGGAGGCAATTTCAAGTCC 59.260 52.381 0.00 0.00 0.00 3.85
179 232 8.810990 TTGTTTCTGGTCCGGTTTATATATTT 57.189 30.769 0.00 0.00 0.00 1.40
210 263 5.882557 CCTATGCCTTGATACATATTGACCC 59.117 44.000 0.00 0.00 0.00 4.46
234 287 1.355971 GTGTCGATACGTTGGCACAT 58.644 50.000 12.97 0.00 39.30 3.21
413 467 3.118261 TGTCCTCTCTTGTTCAGCTGTTT 60.118 43.478 14.67 0.00 0.00 2.83
452 506 3.379452 ACTCTGGCTAGCCTGTAGAATT 58.621 45.455 33.07 14.71 36.57 2.17
510 564 5.404946 AGCACATAGATACAAACGTACGTT 58.595 37.500 27.15 27.15 40.45 3.99
542 596 5.399604 AGCACGTACAAAACACTCTAAAC 57.600 39.130 0.00 0.00 0.00 2.01
567 621 9.661563 ACGTTATATAAGTGATGAGGAAAAACA 57.338 29.630 0.00 0.00 0.00 2.83
720 776 7.040409 GCTCCTTTGATTTTCCAGAGAAACTTA 60.040 37.037 0.00 0.00 41.69 2.24
721 777 8.760980 TCCTTTGATTTTCCAGAGAAACTTAA 57.239 30.769 0.00 0.00 41.69 1.85
722 778 9.367160 TCCTTTGATTTTCCAGAGAAACTTAAT 57.633 29.630 0.00 0.00 41.69 1.40
868 924 5.724854 AGCTTCCAGGTTGACCTAGTAATAA 59.275 40.000 1.66 0.00 46.65 1.40
869 925 6.387220 AGCTTCCAGGTTGACCTAGTAATAAT 59.613 38.462 1.66 0.00 46.65 1.28
879 935 7.278461 TGACCTAGTAATAATGCTCTGACTC 57.722 40.000 0.00 0.00 0.00 3.36
889 945 8.663209 AATAATGCTCTGACTCCTAGTATCAT 57.337 34.615 0.00 0.00 0.00 2.45
899 955 5.848004 ACTCCTAGTATCATATCAGGCCAT 58.152 41.667 5.01 0.00 0.00 4.40
900 956 5.660417 ACTCCTAGTATCATATCAGGCCATG 59.340 44.000 5.01 0.00 0.00 3.66
919 975 8.013072 AGGCCATGCTTGACTCCTATATATATA 58.987 37.037 5.01 2.49 0.00 0.86
920 976 8.091449 GGCCATGCTTGACTCCTATATATATAC 58.909 40.741 0.00 0.00 0.00 1.47
943 999 7.270757 ACATCTCTCATCTCTGTACATACAC 57.729 40.000 0.00 0.00 31.93 2.90
958 1014 4.861196 ACATACACTTCTCTCCTGAGCTA 58.139 43.478 0.00 0.00 40.03 3.32
972 1028 3.539604 CTGAGCTAAGCTATGCAAAGGT 58.460 45.455 12.44 0.00 39.88 3.50
977 1033 6.432783 TGAGCTAAGCTATGCAAAGGTAAAAA 59.567 34.615 12.44 0.00 39.88 1.94
1056 1112 1.324736 GTCGACATGCACGATTCTTCC 59.675 52.381 11.55 2.24 41.62 3.46
1104 1160 1.067142 CACCAGTACATGTACGGCAGT 60.067 52.381 30.15 22.50 40.80 4.40
1140 1196 2.193536 GCCTCAACACCACGGCTTT 61.194 57.895 0.00 0.00 39.42 3.51
1165 1221 4.933064 CCGAGGACGATCGCTGCC 62.933 72.222 16.60 14.31 41.37 4.85
1232 1288 1.893786 CTGAGGAGGTGGAGTTCGG 59.106 63.158 0.00 0.00 0.00 4.30
1233 1289 0.900647 CTGAGGAGGTGGAGTTCGGT 60.901 60.000 0.00 0.00 0.00 4.69
1236 1292 2.047179 GAGGTGGAGTTCGGTGCC 60.047 66.667 0.00 0.00 0.00 5.01
1259 1318 0.251253 AAGGAGGGAGAAGACGTCGT 60.251 55.000 10.46 6.85 0.00 4.34
1266 1325 2.804090 GAAGACGTCGTGGCGGTC 60.804 66.667 9.23 0.00 35.98 4.79
1586 1654 2.045926 CTTCCGGGCCTTCCACAG 60.046 66.667 0.84 0.00 34.36 3.66
1649 1717 3.727258 CATCCTGGGGGCGTTCCA 61.727 66.667 0.00 0.00 37.22 3.53
1845 1913 3.455469 GCCACCAAGCTGGGCATC 61.455 66.667 7.20 0.00 46.92 3.91
2538 2611 1.680522 ATTGCGAGACGGGCTCTCAT 61.681 55.000 9.58 0.00 45.43 2.90
2698 2784 1.091771 CATCTAACCCTGCACGCTGG 61.092 60.000 7.91 7.91 35.20 4.85
2842 2946 6.093495 ACAAATTATCTGTTGTGTACCGGATG 59.907 38.462 9.46 0.00 36.62 3.51
2964 3068 0.823356 ATTTTGCCAGCTGACGGTGT 60.823 50.000 17.39 0.00 36.93 4.16
3257 3361 8.146053 TGTAATCAAAGAGGATGTTAAGGAGA 57.854 34.615 0.00 0.00 0.00 3.71
3270 3374 5.809001 TGTTAAGGAGAAACTCATGCTGAT 58.191 37.500 0.00 0.00 31.08 2.90
3271 3375 6.240894 TGTTAAGGAGAAACTCATGCTGATT 58.759 36.000 0.00 0.00 31.08 2.57
3272 3376 6.149973 TGTTAAGGAGAAACTCATGCTGATTG 59.850 38.462 0.00 0.00 31.08 2.67
3273 3377 4.298103 AGGAGAAACTCATGCTGATTGT 57.702 40.909 0.00 0.00 31.08 2.71
3274 3378 4.660168 AGGAGAAACTCATGCTGATTGTT 58.340 39.130 0.00 0.00 31.08 2.83
3275 3379 5.075493 AGGAGAAACTCATGCTGATTGTTT 58.925 37.500 0.00 0.00 30.56 2.83
3276 3380 5.537674 AGGAGAAACTCATGCTGATTGTTTT 59.462 36.000 0.00 0.00 28.84 2.43
3277 3381 5.632347 GGAGAAACTCATGCTGATTGTTTTG 59.368 40.000 0.00 0.00 28.84 2.44
3278 3382 5.535333 AGAAACTCATGCTGATTGTTTTGG 58.465 37.500 0.00 0.00 28.84 3.28
3279 3383 5.302568 AGAAACTCATGCTGATTGTTTTGGA 59.697 36.000 0.00 0.00 28.84 3.53
3280 3384 4.510038 ACTCATGCTGATTGTTTTGGAC 57.490 40.909 0.00 0.00 0.00 4.02
3281 3385 4.147321 ACTCATGCTGATTGTTTTGGACT 58.853 39.130 0.00 0.00 0.00 3.85
3282 3386 4.217118 ACTCATGCTGATTGTTTTGGACTC 59.783 41.667 0.00 0.00 0.00 3.36
3283 3387 3.189080 TCATGCTGATTGTTTTGGACTCG 59.811 43.478 0.00 0.00 0.00 4.18
3284 3388 1.266718 TGCTGATTGTTTTGGACTCGC 59.733 47.619 0.00 0.00 0.00 5.03
3285 3389 1.725931 GCTGATTGTTTTGGACTCGCG 60.726 52.381 0.00 0.00 0.00 5.87
3286 3390 0.871722 TGATTGTTTTGGACTCGCGG 59.128 50.000 6.13 0.00 0.00 6.46
3287 3391 0.454452 GATTGTTTTGGACTCGCGGC 60.454 55.000 6.13 0.00 0.00 6.53
3288 3392 1.862602 ATTGTTTTGGACTCGCGGCC 61.863 55.000 6.13 6.44 0.00 6.13
3289 3393 2.668550 GTTTTGGACTCGCGGCCT 60.669 61.111 6.13 0.00 0.00 5.19
3290 3394 1.375013 GTTTTGGACTCGCGGCCTA 60.375 57.895 6.13 0.00 0.00 3.93
3291 3395 0.743345 GTTTTGGACTCGCGGCCTAT 60.743 55.000 6.13 0.00 0.00 2.57
3292 3396 0.742990 TTTTGGACTCGCGGCCTATG 60.743 55.000 6.13 0.00 0.00 2.23
3293 3397 3.733344 TTGGACTCGCGGCCTATGC 62.733 63.158 6.13 0.00 0.00 3.14
3324 3428 3.217231 CCGTCGGCATAGGTCCTT 58.783 61.111 0.00 0.00 0.00 3.36
3325 3429 1.520666 CCGTCGGCATAGGTCCTTT 59.479 57.895 0.00 0.00 0.00 3.11
3326 3430 0.810031 CCGTCGGCATAGGTCCTTTG 60.810 60.000 0.00 0.00 0.00 2.77
3327 3431 1.429148 CGTCGGCATAGGTCCTTTGC 61.429 60.000 22.29 22.29 37.63 3.68
3329 3433 3.827634 GGCATAGGTCCTTTGCCG 58.172 61.111 30.38 3.46 45.36 5.69
3330 3434 1.077716 GGCATAGGTCCTTTGCCGT 60.078 57.895 30.38 0.00 45.36 5.68
3331 3435 1.095807 GGCATAGGTCCTTTGCCGTC 61.096 60.000 30.38 13.61 45.36 4.79
3332 3436 1.429148 GCATAGGTCCTTTGCCGTCG 61.429 60.000 20.40 0.00 33.51 5.12
3333 3437 0.810031 CATAGGTCCTTTGCCGTCGG 60.810 60.000 6.99 6.99 0.00 4.79
3386 3490 4.655527 CCCATCGGCGTAGATCAC 57.344 61.111 6.85 0.00 0.00 3.06
3404 3508 3.767287 CGTCAGCGTAGTCTTGTCA 57.233 52.632 0.00 0.00 0.00 3.58
3405 3509 1.607713 CGTCAGCGTAGTCTTGTCAG 58.392 55.000 0.00 0.00 0.00 3.51
3406 3510 1.197036 CGTCAGCGTAGTCTTGTCAGA 59.803 52.381 0.00 0.00 0.00 3.27
3413 3517 4.554163 GTCTTGTCAGACCGTCGG 57.446 61.111 10.48 10.48 43.50 4.79
3414 3518 1.733399 GTCTTGTCAGACCGTCGGC 60.733 63.158 12.28 4.24 43.50 5.54
3415 3519 2.805353 CTTGTCAGACCGTCGGCG 60.805 66.667 12.28 0.29 37.95 6.46
3416 3520 3.553437 CTTGTCAGACCGTCGGCGT 62.553 63.158 12.28 0.00 36.15 5.68
3417 3521 2.191354 CTTGTCAGACCGTCGGCGTA 62.191 60.000 12.28 0.00 36.15 4.42
3418 3522 2.099831 GTCAGACCGTCGGCGTAG 59.900 66.667 12.28 0.00 36.15 3.51
3419 3523 2.359107 TCAGACCGTCGGCGTAGT 60.359 61.111 12.28 0.00 36.15 2.73
3420 3524 1.079197 TCAGACCGTCGGCGTAGTA 60.079 57.895 12.28 0.00 36.15 1.82
3421 3525 0.462581 TCAGACCGTCGGCGTAGTAT 60.463 55.000 12.28 0.00 36.15 2.12
3422 3526 1.202521 TCAGACCGTCGGCGTAGTATA 60.203 52.381 12.28 0.00 36.15 1.47
3423 3527 1.194098 CAGACCGTCGGCGTAGTATAG 59.806 57.143 12.28 0.00 36.15 1.31
3424 3528 0.110464 GACCGTCGGCGTAGTATAGC 60.110 60.000 12.28 0.00 36.15 2.97
3429 3533 4.834828 GGCGTAGTATAGCCGTCG 57.165 61.111 4.21 0.00 44.22 5.12
3430 3534 1.208614 GGCGTAGTATAGCCGTCGG 59.791 63.158 6.99 6.99 44.22 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
193 246 3.748048 CCGCTGGGTCAATATGTATCAAG 59.252 47.826 0.00 0.00 0.00 3.02
210 263 1.410737 CCAACGTATCGACACCGCTG 61.411 60.000 0.00 0.00 35.37 5.18
234 287 9.841295 ACTTTACCTTTGTTACTGTCATTTCTA 57.159 29.630 0.00 0.00 0.00 2.10
324 377 2.431057 TCCGGCTTCTAGTGGAGAATTC 59.569 50.000 0.00 0.00 43.39 2.17
413 467 1.082766 TCCTGAGCCCCAAGGATGA 59.917 57.895 0.00 0.00 33.47 2.92
452 506 6.534793 GGAAAACCGAAACCGACTGTATATTA 59.465 38.462 0.00 0.00 0.00 0.98
567 621 9.908152 GTGTAGTTTTTGCTAGGAAAATGTTAT 57.092 29.630 20.96 9.39 0.00 1.89
626 680 3.732943 CCGACGCAGACACTAAAAATTC 58.267 45.455 0.00 0.00 0.00 2.17
688 744 4.897140 TGGAAAATCAAAGGAGCAATTGG 58.103 39.130 7.72 0.00 0.00 3.16
868 924 7.409358 TGATATGATACTAGGAGTCAGAGCAT 58.591 38.462 0.00 0.00 26.33 3.79
869 925 6.784031 TGATATGATACTAGGAGTCAGAGCA 58.216 40.000 0.00 0.00 28.49 4.26
879 935 4.408270 AGCATGGCCTGATATGATACTAGG 59.592 45.833 3.32 0.73 0.00 3.02
889 945 1.141657 GGAGTCAAGCATGGCCTGATA 59.858 52.381 3.32 0.00 31.46 2.15
919 975 7.059788 AGTGTATGTACAGAGATGAGAGATGT 58.940 38.462 0.33 0.00 36.78 3.06
920 976 7.509141 AGTGTATGTACAGAGATGAGAGATG 57.491 40.000 0.33 0.00 36.78 2.90
925 981 7.255104 GGAGAGAAGTGTATGTACAGAGATGAG 60.255 44.444 0.33 0.00 36.78 2.90
929 985 5.883115 CAGGAGAGAAGTGTATGTACAGAGA 59.117 44.000 0.33 0.00 36.78 3.10
932 988 5.449862 GCTCAGGAGAGAAGTGTATGTACAG 60.450 48.000 0.33 0.00 44.98 2.74
933 989 4.399618 GCTCAGGAGAGAAGTGTATGTACA 59.600 45.833 0.00 0.00 44.98 2.90
934 990 4.642885 AGCTCAGGAGAGAAGTGTATGTAC 59.357 45.833 0.00 0.00 44.98 2.90
936 992 3.707316 AGCTCAGGAGAGAAGTGTATGT 58.293 45.455 0.00 0.00 44.98 2.29
937 993 5.735922 GCTTAGCTCAGGAGAGAAGTGTATG 60.736 48.000 0.00 0.00 44.98 2.39
938 994 4.340950 GCTTAGCTCAGGAGAGAAGTGTAT 59.659 45.833 0.00 0.00 44.98 2.29
939 995 3.697045 GCTTAGCTCAGGAGAGAAGTGTA 59.303 47.826 0.00 0.00 44.98 2.90
940 996 2.495669 GCTTAGCTCAGGAGAGAAGTGT 59.504 50.000 0.00 0.00 44.98 3.55
941 997 2.760092 AGCTTAGCTCAGGAGAGAAGTG 59.240 50.000 0.00 0.00 44.98 3.16
942 998 3.100207 AGCTTAGCTCAGGAGAGAAGT 57.900 47.619 0.00 0.00 44.98 3.01
943 999 4.559300 GCATAGCTTAGCTCAGGAGAGAAG 60.559 50.000 11.09 3.75 44.98 2.85
958 1014 5.538433 TGAGGTTTTTACCTTTGCATAGCTT 59.462 36.000 0.00 0.00 40.86 3.74
972 1028 8.646900 AGCCAAAACTAATCAATGAGGTTTTTA 58.353 29.630 16.00 0.00 37.80 1.52
977 1033 5.324409 TGAGCCAAAACTAATCAATGAGGT 58.676 37.500 0.00 0.00 0.00 3.85
1056 1112 2.715046 TGGAACTGCATCAAGCCTAAG 58.285 47.619 0.00 0.00 44.83 2.18
1104 1160 1.002624 CAAGAAAGGGCCGGTGCTA 60.003 57.895 1.90 0.00 37.74 3.49
1140 1196 0.538977 GATCGTCCTCGGGGTGGATA 60.539 60.000 0.00 0.00 35.87 2.59
1180 1236 4.595538 TTGCTCGACCAACGCCGT 62.596 61.111 0.00 0.00 42.26 5.68
1215 1271 1.155390 ACCGAACTCCACCTCCTCA 59.845 57.895 0.00 0.00 0.00 3.86
1232 1288 2.045536 CTCCCTCCTTGCAGGCAC 60.046 66.667 0.00 0.00 34.61 5.01
1233 1289 1.845627 CTTCTCCCTCCTTGCAGGCA 61.846 60.000 0.00 0.00 34.61 4.75
1236 1292 0.108424 CGTCTTCTCCCTCCTTGCAG 60.108 60.000 0.00 0.00 0.00 4.41
1250 1306 4.695231 CGACCGCCACGACGTCTT 62.695 66.667 14.70 0.03 0.00 3.01
1259 1318 2.599281 TCTCTTGTCCGACCGCCA 60.599 61.111 0.00 0.00 0.00 5.69
1266 1325 1.447489 CTGCTGCCTCTCTTGTCCG 60.447 63.158 0.00 0.00 0.00 4.79
1269 1328 1.551908 CCTCCTGCTGCCTCTCTTGT 61.552 60.000 0.00 0.00 0.00 3.16
1344 1412 4.457496 ACCGCGCACTCCATGAGG 62.457 66.667 8.75 0.00 33.35 3.86
1416 1484 2.445845 TAGGGGGACGCCATCTGG 60.446 66.667 11.16 0.00 44.92 3.86
1569 1637 2.045926 CTGTGGAAGGCCCGGAAG 60.046 66.667 0.73 0.00 37.93 3.46
1845 1913 1.515736 GGCGTAGAACTCGAACGGG 60.516 63.158 8.50 0.00 37.12 5.28
2014 2082 2.669569 CGTCACCACCTTGGGCTG 60.670 66.667 0.00 0.00 43.37 4.85
2538 2611 2.536066 TGCCAAGTGGAGCTAACTCTA 58.464 47.619 0.18 0.00 42.98 2.43
2615 2696 2.813754 GCATGCAGAAACAACCTCTGTA 59.186 45.455 14.21 0.00 42.01 2.74
2698 2784 4.152045 CACTTTCAGAGAACTCATCAGTGC 59.848 45.833 4.64 0.00 31.06 4.40
2842 2946 6.968335 ACGCCGAATATAACCAATAAACAAAC 59.032 34.615 0.00 0.00 0.00 2.93
2964 3068 7.151308 GTGGTTGATGTGGATTTGTGAAATAA 58.849 34.615 0.00 0.00 0.00 1.40
3270 3374 2.548295 GGCCGCGAGTCCAAAACAA 61.548 57.895 8.23 0.00 0.00 2.83
3271 3375 2.102109 TAGGCCGCGAGTCCAAAACA 62.102 55.000 8.23 0.00 0.00 2.83
3272 3376 0.743345 ATAGGCCGCGAGTCCAAAAC 60.743 55.000 8.23 0.00 0.00 2.43
3273 3377 0.742990 CATAGGCCGCGAGTCCAAAA 60.743 55.000 8.23 0.00 0.00 2.44
3274 3378 1.153449 CATAGGCCGCGAGTCCAAA 60.153 57.895 8.23 0.00 0.00 3.28
3275 3379 2.499205 CATAGGCCGCGAGTCCAA 59.501 61.111 8.23 0.00 0.00 3.53
3276 3380 4.221422 GCATAGGCCGCGAGTCCA 62.221 66.667 8.23 0.00 0.00 4.02
3307 3411 0.810031 CAAAGGACCTATGCCGACGG 60.810 60.000 10.29 10.29 0.00 4.79
3308 3412 1.429148 GCAAAGGACCTATGCCGACG 61.429 60.000 0.00 0.00 34.03 5.12
3309 3413 2.394604 GCAAAGGACCTATGCCGAC 58.605 57.895 0.00 0.00 34.03 4.79
3310 3414 4.954933 GCAAAGGACCTATGCCGA 57.045 55.556 0.00 0.00 34.03 5.54
3313 3417 1.429148 CGACGGCAAAGGACCTATGC 61.429 60.000 0.00 0.00 39.33 3.14
3314 3418 0.810031 CCGACGGCAAAGGACCTATG 60.810 60.000 0.00 0.00 0.00 2.23
3315 3419 1.520666 CCGACGGCAAAGGACCTAT 59.479 57.895 0.00 0.00 0.00 2.57
3316 3420 2.975536 CCGACGGCAAAGGACCTA 59.024 61.111 0.00 0.00 0.00 3.08
3369 3473 1.371758 CGTGATCTACGCCGATGGG 60.372 63.158 0.00 0.00 46.92 4.00
3370 3474 4.228451 CGTGATCTACGCCGATGG 57.772 61.111 0.00 0.00 46.92 3.51
3387 3491 2.991434 TCTGACAAGACTACGCTGAC 57.009 50.000 0.00 0.00 0.00 3.51
3397 3501 2.649034 GCCGACGGTCTGACAAGA 59.351 61.111 16.73 0.00 0.00 3.02
3398 3502 2.191354 TACGCCGACGGTCTGACAAG 62.191 60.000 16.73 5.60 46.04 3.16
3399 3503 2.191354 CTACGCCGACGGTCTGACAA 62.191 60.000 16.73 0.00 46.04 3.18
3400 3504 2.669229 TACGCCGACGGTCTGACA 60.669 61.111 16.73 0.00 46.04 3.58
3401 3505 1.361668 TACTACGCCGACGGTCTGAC 61.362 60.000 16.73 0.00 46.04 3.51
3402 3506 0.462581 ATACTACGCCGACGGTCTGA 60.463 55.000 16.73 0.00 46.04 3.27
3403 3507 1.194098 CTATACTACGCCGACGGTCTG 59.806 57.143 16.73 8.51 46.04 3.51
3404 3508 1.506493 CTATACTACGCCGACGGTCT 58.494 55.000 16.73 3.10 46.04 3.85
3405 3509 0.110464 GCTATACTACGCCGACGGTC 60.110 60.000 16.73 7.00 46.04 4.79
3406 3510 1.510480 GGCTATACTACGCCGACGGT 61.510 60.000 16.73 0.00 46.04 4.83
3407 3511 1.208614 GGCTATACTACGCCGACGG 59.791 63.158 10.29 10.29 46.04 4.79
3412 3516 1.208614 CCGACGGCTATACTACGCC 59.791 63.158 0.00 0.00 42.86 5.68
3413 3517 1.441682 GCCGACGGCTATACTACGC 60.442 63.158 31.30 0.14 46.69 4.42
3414 3518 4.834828 GCCGACGGCTATACTACG 57.165 61.111 31.30 0.00 46.69 3.51


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

AutoCloner maintained by Alex Coulton.