Multiple sequence alignment - TraesCS2D01G181500

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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 TraesCS2D01G181500 chr2D 100.000 3779 0 0 1 3779 126682368 126686146 0.000000e+00 6979.0
1 TraesCS2D01G181500 chr7B 91.918 3786 250 18 3 3779 692404188 692400450 0.000000e+00 5245.0
2 TraesCS2D01G181500 chr7B 93.176 3268 206 12 1 3262 664945081 664948337 0.000000e+00 4783.0
3 TraesCS2D01G181500 chr7B 93.137 3264 210 11 1 3262 379918737 379915486 0.000000e+00 4774.0
4 TraesCS2D01G181500 chr7B 92.800 3264 223 11 1 3262 666623278 666620025 0.000000e+00 4715.0
5 TraesCS2D01G181500 chr7B 91.890 1492 95 8 1 1474 535433756 535435239 0.000000e+00 2061.0
6 TraesCS2D01G181500 chr6B 91.040 3750 275 25 1 3726 715464520 715468232 0.000000e+00 5007.0
7 TraesCS2D01G181500 chr6B 91.013 1402 92 14 2189 3590 77323085 77324452 0.000000e+00 1860.0
8 TraesCS2D01G181500 chr4B 93.511 3267 194 13 2 3262 522411061 522407807 0.000000e+00 4843.0
9 TraesCS2D01G181500 chr4B 92.398 855 37 7 2923 3777 633308881 633308055 0.000000e+00 1194.0
10 TraesCS2D01G181500 chr4A 90.402 3709 280 43 1 3660 692369623 692373304 0.000000e+00 4807.0
11 TraesCS2D01G181500 chr5B 92.883 3274 211 10 1 3262 18191315 18188052 0.000000e+00 4735.0
12 TraesCS2D01G181500 chr5B 92.708 3264 225 10 1 3262 34300559 34297307 0.000000e+00 4697.0
13 TraesCS2D01G181500 chr5B 92.639 3274 209 14 1 3262 353923542 353926795 0.000000e+00 4682.0
14 TraesCS2D01G181500 chr5B 92.279 2137 118 26 1644 3779 677839108 677837018 0.000000e+00 2988.0
15 TraesCS2D01G181500 chr5B 92.663 368 18 5 3243 3608 514054813 514054453 4.330000e-144 521.0
16 TraesCS2D01G181500 chr5B 93.075 361 16 5 3250 3608 123791057 123790704 1.560000e-143 520.0
17 TraesCS2D01G181500 chr2B 88.927 876 82 15 1 870 799702429 799701563 0.000000e+00 1066.0
18 TraesCS2D01G181500 chr3D 92.125 546 42 1 3234 3779 581476668 581476124 0.000000e+00 769.0
19 TraesCS2D01G181500 chr5D 90.869 449 25 4 3332 3779 537241594 537241161 4.200000e-164 588.0
20 TraesCS2D01G181500 chr3A 97.059 34 0 1 3711 3744 518208139 518208107 5.270000e-04 56.5


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 TraesCS2D01G181500 chr2D 126682368 126686146 3778 False 6979 6979 100.000 1 3779 1 chr2D.!!$F1 3778
1 TraesCS2D01G181500 chr7B 692400450 692404188 3738 True 5245 5245 91.918 3 3779 1 chr7B.!!$R3 3776
2 TraesCS2D01G181500 chr7B 664945081 664948337 3256 False 4783 4783 93.176 1 3262 1 chr7B.!!$F2 3261
3 TraesCS2D01G181500 chr7B 379915486 379918737 3251 True 4774 4774 93.137 1 3262 1 chr7B.!!$R1 3261
4 TraesCS2D01G181500 chr7B 666620025 666623278 3253 True 4715 4715 92.800 1 3262 1 chr7B.!!$R2 3261
5 TraesCS2D01G181500 chr7B 535433756 535435239 1483 False 2061 2061 91.890 1 1474 1 chr7B.!!$F1 1473
6 TraesCS2D01G181500 chr6B 715464520 715468232 3712 False 5007 5007 91.040 1 3726 1 chr6B.!!$F2 3725
7 TraesCS2D01G181500 chr6B 77323085 77324452 1367 False 1860 1860 91.013 2189 3590 1 chr6B.!!$F1 1401
8 TraesCS2D01G181500 chr4B 522407807 522411061 3254 True 4843 4843 93.511 2 3262 1 chr4B.!!$R1 3260
9 TraesCS2D01G181500 chr4B 633308055 633308881 826 True 1194 1194 92.398 2923 3777 1 chr4B.!!$R2 854
10 TraesCS2D01G181500 chr4A 692369623 692373304 3681 False 4807 4807 90.402 1 3660 1 chr4A.!!$F1 3659
11 TraesCS2D01G181500 chr5B 18188052 18191315 3263 True 4735 4735 92.883 1 3262 1 chr5B.!!$R1 3261
12 TraesCS2D01G181500 chr5B 34297307 34300559 3252 True 4697 4697 92.708 1 3262 1 chr5B.!!$R2 3261
13 TraesCS2D01G181500 chr5B 353923542 353926795 3253 False 4682 4682 92.639 1 3262 1 chr5B.!!$F1 3261
14 TraesCS2D01G181500 chr5B 677837018 677839108 2090 True 2988 2988 92.279 1644 3779 1 chr5B.!!$R5 2135
15 TraesCS2D01G181500 chr2B 799701563 799702429 866 True 1066 1066 88.927 1 870 1 chr2B.!!$R1 869
16 TraesCS2D01G181500 chr3D 581476124 581476668 544 True 769 769 92.125 3234 3779 1 chr3D.!!$R1 545

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
121 122 0.179059 TGCTTTCACTGAAGACGCCA 60.179 50.0 7.09 0.0 0.00 5.69 F
128 138 0.179094 ACTGAAGACGCCACGAACAA 60.179 50.0 0.00 0.0 0.00 2.83 F
1201 1270 0.327480 TGAGGGGTCATAGTGCCCAT 60.327 55.0 0.00 0.0 46.59 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2026 2095 0.394216 CATTCGCCATCTCCCAACCA 60.394 55.0 0.0 0.0 0.00 3.67 R
2027 2096 0.394352 ACATTCGCCATCTCCCAACC 60.394 55.0 0.0 0.0 0.00 3.77 R
3109 3185 0.031449 CTAGTAGAAGCTCCAGCCGC 59.969 60.0 0.0 0.0 43.38 6.53 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 2.231478 TCTGACCCATGTCTCGAAGTTC 59.769 50.000 0.00 0.00 42.28 3.01
33 34 2.625737 CCATGTCTCGAAGTTCAGCAT 58.374 47.619 3.32 5.44 0.00 3.79
83 84 0.613777 ATCTGACCCAAACCGAGACC 59.386 55.000 0.00 0.00 0.00 3.85
107 108 4.980805 TCCGCGGCGTTCTGCTTT 62.981 61.111 23.51 0.00 45.43 3.51
121 122 0.179059 TGCTTTCACTGAAGACGCCA 60.179 50.000 7.09 0.00 0.00 5.69
127 137 0.874175 CACTGAAGACGCCACGAACA 60.874 55.000 0.00 0.00 0.00 3.18
128 138 0.179094 ACTGAAGACGCCACGAACAA 60.179 50.000 0.00 0.00 0.00 2.83
139 149 1.533731 CCACGAACAATGGCGTTTAGT 59.466 47.619 0.90 0.00 38.92 2.24
144 154 1.165270 ACAATGGCGTTTAGTCCTGC 58.835 50.000 0.00 0.00 0.00 4.85
235 245 1.376649 ACCCCTGGAGAGCAGAAAAT 58.623 50.000 0.00 0.00 0.00 1.82
394 411 1.815003 CAAAAGTGTGGATCTGAGCCC 59.185 52.381 9.83 1.52 0.00 5.19
452 472 5.955355 TCCTCCGATTATTTTGGGTTCAAAT 59.045 36.000 0.00 0.00 41.84 2.32
493 523 8.682710 GCATTAATTCATACTTGTTAGAACCCA 58.317 33.333 0.00 0.00 0.00 4.51
595 627 7.573710 AGAGAAGGCATGTGTTTATATGGTAA 58.426 34.615 0.00 0.00 0.00 2.85
635 667 1.373536 TGTGGTAGGGTTGGGCATTA 58.626 50.000 0.00 0.00 0.00 1.90
666 698 8.842358 TTAGTTGCTATGTATATGGGTTTAGC 57.158 34.615 0.00 0.00 34.17 3.09
873 937 9.533983 CGTGCATTGAGATTTTGTCATATATAC 57.466 33.333 0.00 0.00 0.00 1.47
1054 1119 7.118723 TCATAAAGGGTATGACAAAGAGCATT 58.881 34.615 0.00 0.00 0.00 3.56
1059 1124 3.428045 GGTATGACAAAGAGCATTGTGCC 60.428 47.826 7.20 2.20 46.52 5.01
1103 1168 8.148351 CCGGGTAAGACTCAATCTATTTGAATA 58.852 37.037 0.00 0.00 43.64 1.75
1201 1270 0.327480 TGAGGGGTCATAGTGCCCAT 60.327 55.000 0.00 0.00 46.59 4.00
1202 1271 1.061735 TGAGGGGTCATAGTGCCCATA 60.062 52.381 0.00 0.00 46.59 2.74
1216 1285 0.464373 CCCATAACTGGCTGTGCGAT 60.464 55.000 0.00 0.00 41.64 4.58
1419 1488 2.295885 GATCAGTGGCCTTCCAATCAG 58.704 52.381 3.32 0.00 45.53 2.90
1433 1502 3.844577 CAATCAGTGGAGAAGCTTTGG 57.155 47.619 0.00 0.00 0.00 3.28
1456 1525 1.743394 GGCACCACCATAACTGCTAAC 59.257 52.381 0.00 0.00 38.86 2.34
1459 1528 2.420022 CACCACCATAACTGCTAACTGC 59.580 50.000 0.00 0.00 43.25 4.40
1650 1719 4.715527 ATCTGTTAACGAGGGTAGTGTC 57.284 45.455 0.26 0.00 0.00 3.67
1677 1746 3.457610 TTCTACCGGTAATAAAGCCCG 57.542 47.619 16.65 0.30 41.37 6.13
1732 1801 2.331194 CGTAAGTACAGTTGGGGTTCG 58.669 52.381 0.00 0.00 0.00 3.95
1760 1829 5.513495 GCACTAGCATACTTATATCGTCAGC 59.487 44.000 0.00 0.00 41.58 4.26
1780 1849 8.875803 CGTCAGCTAATTAGTAACCAAATTGTA 58.124 33.333 13.91 0.00 0.00 2.41
1866 1935 1.291132 GCATGTCGTAGGAAGAAGGC 58.709 55.000 0.00 0.00 0.00 4.35
1869 1938 1.344065 TGTCGTAGGAAGAAGGCCAA 58.656 50.000 5.01 0.00 0.00 4.52
1883 1952 2.498441 AGGCCAAATCTGGTATGGGTA 58.502 47.619 5.01 0.00 45.53 3.69
1997 2066 2.471815 TGACGGGAGGTATGGAGAAT 57.528 50.000 0.00 0.00 0.00 2.40
2026 2095 1.140375 GTTTCCGACCGTCGCCTAT 59.860 57.895 15.64 0.00 38.82 2.57
2027 2096 1.140161 TTTCCGACCGTCGCCTATG 59.860 57.895 15.64 1.67 38.82 2.23
2093 2162 5.232202 CGATACAAATGCTACATCAACGAGT 59.768 40.000 0.00 0.00 0.00 4.18
2110 2179 4.495422 ACGAGTTGGATATGTTGACTCAC 58.505 43.478 0.00 0.00 37.24 3.51
2121 2190 3.202906 TGTTGACTCACAAGCAGGTAAC 58.797 45.455 0.00 0.00 39.30 2.50
2213 2282 4.471025 AGGTCGATTGGATGCCATATGATA 59.529 41.667 3.65 0.00 31.53 2.15
2256 2325 1.556591 GAGATGTGCACGCGTGACAA 61.557 55.000 41.19 24.74 0.00 3.18
2269 2338 1.798223 CGTGACAAGAAGATTTGGCGA 59.202 47.619 0.00 0.00 38.99 5.54
2316 2385 0.317479 GTTGTCGAGTGGCACTACCT 59.683 55.000 22.11 0.00 40.22 3.08
2374 2443 3.498661 GGACACCAAGGGATGAGAGTTTT 60.499 47.826 0.00 0.00 0.00 2.43
2432 2501 8.368668 GTTGTAGCTTTGGATATATAGTGGAGT 58.631 37.037 0.00 0.00 0.00 3.85
2466 2535 5.156355 ACGTTTCTTGCTAATGCTTTCATG 58.844 37.500 0.00 0.00 40.48 3.07
2548 2617 3.510531 AGCACTCCGAGTGGATAGATA 57.489 47.619 26.24 0.00 46.01 1.98
2574 2643 1.789523 ATCAAAGAGCGGCCCTAGTA 58.210 50.000 0.00 0.00 0.00 1.82
2687 2756 1.467342 GAACCGTTCGGAATTGGAAGG 59.533 52.381 18.28 6.44 0.00 3.46
3019 3095 8.475331 TTTGCACACTATTTACTTAGTCTAGC 57.525 34.615 0.00 0.00 29.93 3.42
3024 3100 9.035607 CACACTATTTACTTAGTCTAGCATTGG 57.964 37.037 0.00 0.00 29.93 3.16
3046 3122 5.105513 TGGATCTTCGTTATGTTGCAGAGTA 60.106 40.000 0.00 0.00 0.00 2.59
3109 3185 0.801067 CGGAAGTAAAGCCGTCCTCG 60.801 60.000 0.00 0.00 42.49 4.63
3172 3248 2.549754 CGTCTTGTCTTGCAACAGGAAT 59.450 45.455 5.05 0.00 37.06 3.01
3199 3291 1.133976 AGGAGCAACTGCAAGACAAGT 60.134 47.619 4.22 0.00 45.16 3.16
3200 3292 1.265365 GGAGCAACTGCAAGACAAGTC 59.735 52.381 4.22 0.00 45.16 3.01
3201 3293 1.942657 GAGCAACTGCAAGACAAGTCA 59.057 47.619 4.22 0.00 45.16 3.41
3255 3401 3.656496 AGAGGAGCAAGATCAAGAGGAT 58.344 45.455 0.00 0.00 39.53 3.24
3283 3429 4.767928 AGTACAATCAAGACGAAGAGGAGT 59.232 41.667 0.00 0.00 0.00 3.85
3284 3430 5.944599 AGTACAATCAAGACGAAGAGGAGTA 59.055 40.000 0.00 0.00 0.00 2.59
3285 3431 5.061920 ACAATCAAGACGAAGAGGAGTAC 57.938 43.478 0.00 0.00 0.00 2.73
3286 3432 4.523173 ACAATCAAGACGAAGAGGAGTACA 59.477 41.667 0.00 0.00 0.00 2.90
3287 3433 5.010719 ACAATCAAGACGAAGAGGAGTACAA 59.989 40.000 0.00 0.00 0.00 2.41
3288 3434 5.923733 ATCAAGACGAAGAGGAGTACAAT 57.076 39.130 0.00 0.00 0.00 2.71
3289 3435 5.312120 TCAAGACGAAGAGGAGTACAATC 57.688 43.478 0.00 0.00 0.00 2.67
3290 3436 4.765339 TCAAGACGAAGAGGAGTACAATCA 59.235 41.667 0.00 0.00 0.00 2.57
3291 3437 5.243060 TCAAGACGAAGAGGAGTACAATCAA 59.757 40.000 0.00 0.00 0.00 2.57
3292 3438 5.317733 AGACGAAGAGGAGTACAATCAAG 57.682 43.478 0.00 0.00 0.00 3.02
3293 3439 5.010933 AGACGAAGAGGAGTACAATCAAGA 58.989 41.667 0.00 0.00 0.00 3.02
3294 3440 5.654650 AGACGAAGAGGAGTACAATCAAGAT 59.345 40.000 0.00 0.00 0.00 2.40
3295 3441 5.655488 ACGAAGAGGAGTACAATCAAGATG 58.345 41.667 0.00 0.00 0.00 2.90
3296 3442 5.419155 ACGAAGAGGAGTACAATCAAGATGA 59.581 40.000 0.00 0.00 0.00 2.92
3297 3443 6.071334 ACGAAGAGGAGTACAATCAAGATGAA 60.071 38.462 0.00 0.00 0.00 2.57
3298 3444 6.475076 CGAAGAGGAGTACAATCAAGATGAAG 59.525 42.308 0.00 0.00 0.00 3.02
3299 3445 7.487822 AAGAGGAGTACAATCAAGATGAAGA 57.512 36.000 0.00 0.00 0.00 2.87
3300 3446 7.111247 AGAGGAGTACAATCAAGATGAAGAG 57.889 40.000 0.00 0.00 0.00 2.85
3301 3447 6.098124 AGAGGAGTACAATCAAGATGAAGAGG 59.902 42.308 0.00 0.00 0.00 3.69
3302 3448 5.960811 AGGAGTACAATCAAGATGAAGAGGA 59.039 40.000 0.00 0.00 0.00 3.71
3303 3449 6.098124 AGGAGTACAATCAAGATGAAGAGGAG 59.902 42.308 0.00 0.00 0.00 3.69
3309 3455 2.499289 TCAAGATGAAGAGGAGGTGCTC 59.501 50.000 0.00 0.00 0.00 4.26
3401 3549 7.164803 AGAGGAAGGAAGAAGTGAATTAGTTG 58.835 38.462 0.00 0.00 0.00 3.16
3606 3758 5.972107 ATTGCTTACTTTTGCTGTCATCT 57.028 34.783 0.00 0.00 0.00 2.90
3609 3761 4.821260 TGCTTACTTTTGCTGTCATCTTGA 59.179 37.500 0.00 0.00 0.00 3.02
3647 3811 5.977129 CACTTGTTGTCATCCTGGTTTTTAC 59.023 40.000 0.00 0.00 0.00 2.01
3660 3838 6.603997 TCCTGGTTTTTACTGCTTAGTTTTGA 59.396 34.615 0.00 0.00 0.00 2.69
3732 3910 2.820037 GCTAGACGCCAGCAACCC 60.820 66.667 0.00 0.00 38.93 4.11
3765 3943 1.655350 GCACGTGAGCAACAGCAAC 60.655 57.895 22.23 0.00 31.55 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.603707 ACACGGGTCAAGTCATGCTG 60.604 55.000 0.00 0.00 0.00 4.41
33 34 2.404923 TTCAAACACGGGTCAAGTCA 57.595 45.000 0.00 0.00 0.00 3.41
36 37 3.775661 AAGTTTCAAACACGGGTCAAG 57.224 42.857 2.41 0.00 0.00 3.02
107 108 0.596600 GTTCGTGGCGTCTTCAGTGA 60.597 55.000 0.00 0.00 0.00 3.41
121 122 1.802365 GGACTAAACGCCATTGTTCGT 59.198 47.619 0.00 0.00 41.06 3.85
127 137 0.679960 GGGCAGGACTAAACGCCATT 60.680 55.000 0.00 0.00 46.75 3.16
128 138 1.077716 GGGCAGGACTAAACGCCAT 60.078 57.895 0.00 0.00 46.75 4.40
171 181 1.890041 CCTTTGCCACGTCGGACAA 60.890 57.895 9.10 8.35 36.56 3.18
172 182 2.280524 CCTTTGCCACGTCGGACA 60.281 61.111 9.10 3.50 36.56 4.02
452 472 9.669887 ATGAATTAATGCTGCCAAAATAAAAGA 57.330 25.926 0.00 0.00 0.00 2.52
493 523 4.918810 AGTGCAAAGAAAACGAATCCTT 57.081 36.364 0.00 0.00 0.00 3.36
595 627 4.021916 CAAATGCCTTCTCTTCCCAATCT 58.978 43.478 0.00 0.00 0.00 2.40
987 1052 2.291282 ACCCGCCATCCTACAAATCAAA 60.291 45.455 0.00 0.00 0.00 2.69
1054 1119 1.773856 TTCTCAATGTCCCGGGCACA 61.774 55.000 18.49 21.16 0.00 4.57
1059 1124 1.668419 GGTGATTCTCAATGTCCCGG 58.332 55.000 0.00 0.00 0.00 5.73
1118 1183 6.801539 TGGTTAGTGACTAGCAAAAATGAG 57.198 37.500 8.70 0.00 0.00 2.90
1201 1270 0.740868 GCTCATCGCACAGCCAGTTA 60.741 55.000 0.00 0.00 38.92 2.24
1202 1271 2.037136 GCTCATCGCACAGCCAGTT 61.037 57.895 0.00 0.00 38.92 3.16
1216 1285 1.704641 AGTATGGCTCATACCGCTCA 58.295 50.000 16.87 0.00 45.37 4.26
1337 1406 2.093658 ACAAGTGGAACGAGTGTGTCTT 60.094 45.455 0.00 0.00 45.86 3.01
1375 1444 0.692476 CCATGTCCTCCAAGGTCACA 59.308 55.000 0.00 0.00 36.30 3.58
1419 1488 2.335712 CCGGCCAAAGCTTCTCCAC 61.336 63.158 2.24 0.00 39.73 4.02
1433 1502 2.045340 AGTTATGGTGGTGCCGGC 60.045 61.111 22.73 22.73 41.21 6.13
1456 1525 2.456119 GCCAACACGATCTCGGCAG 61.456 63.158 4.44 0.00 44.95 4.85
1459 1528 0.744414 ATTGGCCAACACGATCTCGG 60.744 55.000 23.27 0.00 44.95 4.63
1565 1634 1.813786 GGCGTCTAGAGGGCATACTAG 59.186 57.143 28.16 0.00 40.79 2.57
1578 1647 2.224426 ACAACAACCTCATTGGCGTCTA 60.224 45.455 0.00 0.00 43.20 2.59
1650 1719 5.548406 CTTTATTACCGGTAGAATCTGGGG 58.452 45.833 15.20 0.00 38.12 4.96
1677 1746 6.326843 ACTTAGTAGGTCCAAGAATATCCACC 59.673 42.308 0.00 0.00 0.00 4.61
1732 1801 5.125739 ACGATATAAGTATGCTAGTGCTCCC 59.874 44.000 0.00 0.00 40.48 4.30
1866 1935 6.098575 ACAAAGCTACCCATACCAGATTTGG 61.099 44.000 13.92 0.00 45.36 3.28
1869 1938 4.862641 ACAAAGCTACCCATACCAGATT 57.137 40.909 0.00 0.00 0.00 2.40
1883 1952 1.410153 CTGAAGGCACCAAACAAAGCT 59.590 47.619 0.00 0.00 0.00 3.74
1997 2066 4.946038 CGGAAACCGCCAAGGATA 57.054 55.556 0.00 0.00 45.00 2.59
2026 2095 0.394216 CATTCGCCATCTCCCAACCA 60.394 55.000 0.00 0.00 0.00 3.67
2027 2096 0.394352 ACATTCGCCATCTCCCAACC 60.394 55.000 0.00 0.00 0.00 3.77
2093 2162 4.650734 TGCTTGTGAGTCAACATATCCAA 58.349 39.130 0.00 0.00 32.18 3.53
2110 2179 5.371344 CGTAAGTTATCGTTACCTGCTTG 57.629 43.478 0.00 0.00 0.00 4.01
2213 2282 1.375523 GCCGGAAATCACACTCGGT 60.376 57.895 5.05 0.00 42.35 4.69
2256 2325 0.532573 TCTCGCTCGCCAAATCTTCT 59.467 50.000 0.00 0.00 0.00 2.85
2269 2338 1.001746 CATATCAGTGGGCATCTCGCT 59.998 52.381 0.00 0.00 41.91 4.93
2316 2385 2.605837 TTGTCTTGCAACACGGTCTA 57.394 45.000 0.00 0.00 31.07 2.59
2374 2443 2.585330 TGCAGAAATTGGCTTGTCTCA 58.415 42.857 0.00 0.00 0.00 3.27
2428 2497 7.064728 AGCAAGAAACGTCTTTGATAATACTCC 59.935 37.037 9.87 0.00 41.55 3.85
2445 2514 6.421801 ACAACATGAAAGCATTAGCAAGAAAC 59.578 34.615 0.00 0.00 45.49 2.78
2466 2535 9.210426 CGACTAATTCTGCAAATTATGTACAAC 57.790 33.333 0.00 0.00 0.00 3.32
2506 2575 1.886542 GATGGCCCAAGTCGAAGTTTT 59.113 47.619 0.00 0.00 0.00 2.43
2548 2617 1.098050 GCCGCTCTTTGATTCCACAT 58.902 50.000 0.00 0.00 0.00 3.21
2574 2643 6.154363 CACTATGGAGTCTTCTTTCCTTCTCT 59.846 42.308 0.00 0.00 31.73 3.10
2687 2756 0.533755 CCCGCTCTCATGATCCAACC 60.534 60.000 0.00 0.00 0.00 3.77
3019 3095 5.065090 TCTGCAACATAACGAAGATCCAATG 59.935 40.000 0.00 0.00 0.00 2.82
3024 3100 7.010552 ACAATACTCTGCAACATAACGAAGATC 59.989 37.037 0.00 0.00 0.00 2.75
3046 3122 2.104111 TCTTGTGGAACCGACTCACAAT 59.896 45.455 8.28 0.00 46.13 2.71
3109 3185 0.031449 CTAGTAGAAGCTCCAGCCGC 59.969 60.000 0.00 0.00 43.38 6.53
3172 3248 0.686789 TGCAGTTGCTCCTCTTGCTA 59.313 50.000 5.62 0.00 42.66 3.49
3199 3291 0.038310 TCCTCGTCCTCTTGCTCTGA 59.962 55.000 0.00 0.00 0.00 3.27
3200 3292 0.455410 CTCCTCGTCCTCTTGCTCTG 59.545 60.000 0.00 0.00 0.00 3.35
3201 3293 1.319614 GCTCCTCGTCCTCTTGCTCT 61.320 60.000 0.00 0.00 0.00 4.09
3255 3401 4.765339 TCTTCGTCTTGATTGTACTCCTCA 59.235 41.667 0.00 0.00 0.00 3.86
3283 3429 5.627735 GCACCTCCTCTTCATCTTGATTGTA 60.628 44.000 0.00 0.00 0.00 2.41
3284 3430 4.841422 CACCTCCTCTTCATCTTGATTGT 58.159 43.478 0.00 0.00 0.00 2.71
3285 3431 3.626670 GCACCTCCTCTTCATCTTGATTG 59.373 47.826 0.00 0.00 0.00 2.67
3286 3432 3.522750 AGCACCTCCTCTTCATCTTGATT 59.477 43.478 0.00 0.00 0.00 2.57
3287 3433 3.113824 AGCACCTCCTCTTCATCTTGAT 58.886 45.455 0.00 0.00 0.00 2.57
3288 3434 2.499289 GAGCACCTCCTCTTCATCTTGA 59.501 50.000 0.00 0.00 0.00 3.02
3289 3435 2.738000 CGAGCACCTCCTCTTCATCTTG 60.738 54.545 0.00 0.00 0.00 3.02
3290 3436 1.480137 CGAGCACCTCCTCTTCATCTT 59.520 52.381 0.00 0.00 0.00 2.40
3291 3437 1.110442 CGAGCACCTCCTCTTCATCT 58.890 55.000 0.00 0.00 0.00 2.90
3292 3438 0.103937 CCGAGCACCTCCTCTTCATC 59.896 60.000 0.00 0.00 0.00 2.92
3293 3439 1.333636 CCCGAGCACCTCCTCTTCAT 61.334 60.000 0.00 0.00 0.00 2.57
3294 3440 1.984570 CCCGAGCACCTCCTCTTCA 60.985 63.158 0.00 0.00 0.00 3.02
3295 3441 1.045911 ATCCCGAGCACCTCCTCTTC 61.046 60.000 0.00 0.00 0.00 2.87
3296 3442 1.002274 ATCCCGAGCACCTCCTCTT 59.998 57.895 0.00 0.00 0.00 2.85
3297 3443 1.760086 CATCCCGAGCACCTCCTCT 60.760 63.158 0.00 0.00 0.00 3.69
3298 3444 2.022240 GACATCCCGAGCACCTCCTC 62.022 65.000 0.00 0.00 0.00 3.71
3299 3445 2.039624 ACATCCCGAGCACCTCCT 59.960 61.111 0.00 0.00 0.00 3.69
3300 3446 2.501610 GACATCCCGAGCACCTCC 59.498 66.667 0.00 0.00 0.00 4.30
3301 3447 2.501610 GGACATCCCGAGCACCTC 59.498 66.667 0.00 0.00 0.00 3.85
3504 3652 2.489971 TGAAGGTAGCAAAGTTCACGG 58.510 47.619 0.00 0.00 0.00 4.94
3606 3758 7.174253 ACAACAAGTGTTCTACAAGAGTTTCAA 59.826 33.333 0.00 0.00 37.01 2.69
3609 3761 6.653320 TGACAACAAGTGTTCTACAAGAGTTT 59.347 34.615 0.00 0.00 41.96 2.66
3647 3811 7.693952 TGTACAGAAACTTCAAAACTAAGCAG 58.306 34.615 0.00 0.00 0.00 4.24
3660 3838 3.305881 GCGTCTACCCTGTACAGAAACTT 60.306 47.826 24.68 5.77 0.00 2.66
3732 3910 1.086067 CGTGCACACCTAGATGCCAG 61.086 60.000 18.64 0.00 41.33 4.85


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

AutoCloner maintained by Alex Coulton.