Multiple sequence alignment - TraesCS5B01G087600

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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 TraesCS5B01G087600 chr5B 100.000 2709 0 0 1 2709 112196291 112193583 0.000000e+00 5003
1 TraesCS5B01G087600 chr5B 100.000 286 0 0 3006 3291 112193286 112193001 2.250000e-146 529
2 TraesCS5B01G087600 chr5D 91.914 2758 98 42 36 2708 103177557 103174840 0.000000e+00 3742
3 TraesCS5B01G087600 chr5D 95.652 161 3 3 3119 3276 103174617 103174458 4.210000e-64 255
4 TraesCS5B01G087600 chr5D 85.845 219 28 2 1531 1749 525957907 525958122 2.550000e-56 230
5 TraesCS5B01G087600 chr5D 95.200 125 6 0 3008 3132 103174784 103174660 7.200000e-47 198
6 TraesCS5B01G087600 chr5A 91.467 2543 116 52 33 2520 95867672 95870168 0.000000e+00 3400
7 TraesCS5B01G087600 chr5A 92.766 235 11 2 1 229 95866932 95867166 5.260000e-88 335
8 TraesCS5B01G087600 chr1B 87.719 228 25 2 1534 1761 24933086 24932862 2.520000e-66 263
9 TraesCS5B01G087600 chr1A 87.719 228 25 2 1534 1761 18461762 18461538 2.520000e-66 263
10 TraesCS5B01G087600 chr1D 86.404 228 28 2 1534 1761 17169108 17168884 2.540000e-61 246
11 TraesCS5B01G087600 chr3B 86.161 224 28 2 1534 1757 828111448 828111668 4.240000e-59 239
12 TraesCS5B01G087600 chr3D 85.714 224 29 2 1534 1757 610544048 610544268 1.970000e-57 233
13 TraesCS5B01G087600 chr3A 85.268 224 30 2 1534 1757 744879518 744879738 9.190000e-56 228


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 TraesCS5B01G087600 chr5B 112193001 112196291 3290 True 2766.000000 5003 100.000000 1 3291 2 chr5B.!!$R1 3290
1 TraesCS5B01G087600 chr5D 103174458 103177557 3099 True 1398.333333 3742 94.255333 36 3276 3 chr5D.!!$R1 3240
2 TraesCS5B01G087600 chr5A 95866932 95870168 3236 False 1867.500000 3400 92.116500 1 2520 2 chr5A.!!$F1 2519

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
350 1096 0.036306 GTCCCGTCTCACCACCAAAT 59.964 55.0 0.0 0.0 0.0 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2305 3114 0.61782 ATCCCCTACGGTCACAGCTT 60.618 55.0 0.0 0.0 0.0 3.74 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
34 39 6.092533 AGTGAACTTTTTCCGAAGTCGTTTTA 59.907 34.615 0.00 0.00 38.86 1.52
55 60 7.435068 TTTACAATCTACTCAAACCTCTTGC 57.565 36.000 0.00 0.00 0.00 4.01
184 191 6.535150 CCTCTTGATTCTAAATTACGAGTGCA 59.465 38.462 0.00 0.00 0.00 4.57
185 192 7.225538 CCTCTTGATTCTAAATTACGAGTGCAT 59.774 37.037 0.00 0.00 0.00 3.96
204 211 6.513806 TGCATTACATTAAGCACTGTGAAT 57.486 33.333 12.86 0.00 31.05 2.57
230 951 6.436027 TGTGATACCCTCTTGATTCTCTAGT 58.564 40.000 0.00 0.00 0.00 2.57
237 958 5.486526 CCTCTTGATTCTCTAGTGTGCTTT 58.513 41.667 0.00 0.00 0.00 3.51
349 1095 1.338890 TGTCCCGTCTCACCACCAAA 61.339 55.000 0.00 0.00 0.00 3.28
350 1096 0.036306 GTCCCGTCTCACCACCAAAT 59.964 55.000 0.00 0.00 0.00 2.32
351 1097 0.768622 TCCCGTCTCACCACCAAATT 59.231 50.000 0.00 0.00 0.00 1.82
355 1101 4.410883 TCCCGTCTCACCACCAAATTATAT 59.589 41.667 0.00 0.00 0.00 0.86
358 1104 6.463897 CCCGTCTCACCACCAAATTATATACT 60.464 42.308 0.00 0.00 0.00 2.12
359 1105 6.645415 CCGTCTCACCACCAAATTATATACTC 59.355 42.308 0.00 0.00 0.00 2.59
360 1106 6.645415 CGTCTCACCACCAAATTATATACTCC 59.355 42.308 0.00 0.00 0.00 3.85
361 1107 7.506114 GTCTCACCACCAAATTATATACTCCA 58.494 38.462 0.00 0.00 0.00 3.86
427 1183 1.596727 GAATCTGATTCGACCAGCAGC 59.403 52.381 14.08 0.00 0.00 5.25
428 1184 0.829333 ATCTGATTCGACCAGCAGCT 59.171 50.000 8.68 0.00 0.00 4.24
429 1185 0.174389 TCTGATTCGACCAGCAGCTC 59.826 55.000 8.68 0.00 0.00 4.09
430 1186 1.144565 CTGATTCGACCAGCAGCTCG 61.145 60.000 0.00 0.00 0.00 5.03
431 1187 1.880340 GATTCGACCAGCAGCTCGG 60.880 63.158 8.82 8.82 0.00 4.63
432 1188 2.284798 GATTCGACCAGCAGCTCGGA 62.285 60.000 15.48 2.22 0.00 4.55
433 1189 1.888436 ATTCGACCAGCAGCTCGGAA 61.888 55.000 15.48 7.04 0.00 4.30
448 1204 1.528309 GGAATACATGTGGGGCCCG 60.528 63.158 19.83 5.76 0.00 6.13
478 1234 0.474184 ACAAACACTAGGCCAGCAGT 59.526 50.000 5.01 1.47 0.00 4.40
481 1237 0.322975 AACACTAGGCCAGCAGTCAG 59.677 55.000 5.01 0.00 0.00 3.51
866 1624 4.471386 TCTCCCTTAGCTGCTAAGAAATGT 59.529 41.667 38.02 4.36 44.24 2.71
941 1699 1.280457 TTTGCCCCTCCTCTCTTCTC 58.720 55.000 0.00 0.00 0.00 2.87
959 1717 5.600484 TCTTCTCCTTTCACTTGTCTTCTCT 59.400 40.000 0.00 0.00 0.00 3.10
963 1721 3.745458 CCTTTCACTTGTCTTCTCTGCTC 59.255 47.826 0.00 0.00 0.00 4.26
971 1746 2.628178 TGTCTTCTCTGCTCGAAAGGAA 59.372 45.455 0.00 0.00 0.00 3.36
1083 1858 2.831526 GCTGACCCTCTCTCTCTTCTTT 59.168 50.000 0.00 0.00 0.00 2.52
1088 1863 6.019748 TGACCCTCTCTCTCTTCTTTAACAT 58.980 40.000 0.00 0.00 0.00 2.71
1678 2481 3.741476 CGCCACTTCTGCAAGGCC 61.741 66.667 0.00 0.00 44.18 5.19
1858 2667 2.123208 TCCACCTCGACCACCACA 60.123 61.111 0.00 0.00 0.00 4.17
2215 3024 4.162690 GAGCAGTACTGGCCCGGG 62.163 72.222 23.95 19.09 0.00 5.73
2305 3114 0.899019 TGTGATCGTCGGGGAATGAA 59.101 50.000 0.00 0.00 0.00 2.57
2377 3193 3.390311 GGTTATGAATTAGGTCTCCCCGT 59.610 47.826 0.00 0.00 38.74 5.28
2442 3263 5.163713 GCTCTTCAATTAGGATGGTGTTGTC 60.164 44.000 0.00 0.00 0.00 3.18
2456 3277 3.047093 GTGTTGTCGGTTTTAACATGCC 58.953 45.455 0.00 0.00 36.78 4.40
2529 3352 3.259876 TGCCTACTTGTTAGATCGGTGTT 59.740 43.478 0.00 0.00 0.00 3.32
2531 3354 4.619863 GCCTACTTGTTAGATCGGTGTTGA 60.620 45.833 0.00 0.00 0.00 3.18
2532 3355 4.863131 CCTACTTGTTAGATCGGTGTTGAC 59.137 45.833 0.00 0.00 0.00 3.18
2533 3356 3.314553 ACTTGTTAGATCGGTGTTGACG 58.685 45.455 0.00 0.00 0.00 4.35
2534 3357 3.243636 ACTTGTTAGATCGGTGTTGACGT 60.244 43.478 0.00 0.00 0.00 4.34
2535 3358 2.668250 TGTTAGATCGGTGTTGACGTG 58.332 47.619 0.00 0.00 0.00 4.49
2536 3359 2.034939 TGTTAGATCGGTGTTGACGTGT 59.965 45.455 0.00 0.00 0.00 4.49
2537 3360 3.252944 TGTTAGATCGGTGTTGACGTGTA 59.747 43.478 0.00 0.00 0.00 2.90
2538 3361 2.631418 AGATCGGTGTTGACGTGTAG 57.369 50.000 0.00 0.00 0.00 2.74
2539 3362 1.884579 AGATCGGTGTTGACGTGTAGT 59.115 47.619 0.00 0.00 0.00 2.73
2540 3363 1.983605 GATCGGTGTTGACGTGTAGTG 59.016 52.381 0.00 0.00 0.00 2.74
2541 3364 0.031043 TCGGTGTTGACGTGTAGTGG 59.969 55.000 0.00 0.00 0.00 4.00
2542 3365 1.554042 CGGTGTTGACGTGTAGTGGC 61.554 60.000 0.00 0.00 0.00 5.01
2543 3366 0.249741 GGTGTTGACGTGTAGTGGCT 60.250 55.000 0.00 0.00 0.00 4.75
2544 3367 0.859232 GTGTTGACGTGTAGTGGCTG 59.141 55.000 0.00 0.00 0.00 4.85
2545 3368 0.878523 TGTTGACGTGTAGTGGCTGC 60.879 55.000 0.00 0.00 0.00 5.25
2546 3369 0.878523 GTTGACGTGTAGTGGCTGCA 60.879 55.000 0.50 0.00 0.00 4.41
2547 3370 0.034756 TTGACGTGTAGTGGCTGCAT 59.965 50.000 0.50 0.00 0.00 3.96
2548 3371 0.670239 TGACGTGTAGTGGCTGCATG 60.670 55.000 0.50 5.18 38.66 4.06
2549 3372 1.970917 GACGTGTAGTGGCTGCATGC 61.971 60.000 11.82 11.82 36.75 4.06
2550 3373 2.034317 CGTGTAGTGGCTGCATGCA 61.034 57.895 21.29 21.29 45.15 3.96
2551 3374 1.576451 CGTGTAGTGGCTGCATGCAA 61.576 55.000 22.88 3.76 45.15 4.08
2552 3375 0.169672 GTGTAGTGGCTGCATGCAAG 59.830 55.000 22.88 16.24 45.15 4.01
2553 3376 0.250858 TGTAGTGGCTGCATGCAAGT 60.251 50.000 22.88 12.46 45.15 3.16
2554 3377 0.169672 GTAGTGGCTGCATGCAAGTG 59.830 55.000 22.88 11.54 45.15 3.16
2555 3378 0.250858 TAGTGGCTGCATGCAAGTGT 60.251 50.000 22.88 8.06 45.15 3.55
2556 3379 1.111116 AGTGGCTGCATGCAAGTGTT 61.111 50.000 22.88 4.84 45.15 3.32
2557 3380 0.942410 GTGGCTGCATGCAAGTGTTG 60.942 55.000 22.88 9.97 45.15 3.33
2558 3381 1.364901 GGCTGCATGCAAGTGTTGT 59.635 52.632 22.88 0.00 45.15 3.32
2561 3384 2.545532 GGCTGCATGCAAGTGTTGTTAA 60.546 45.455 22.88 0.00 45.15 2.01
2564 3387 4.362279 CTGCATGCAAGTGTTGTTAACTT 58.638 39.130 22.88 0.00 38.40 2.66
2584 3407 3.777106 TCATGCAAGGAGGGTGATATC 57.223 47.619 0.00 0.00 0.00 1.63
2594 3417 7.714377 GCAAGGAGGGTGATATCATATATTGAG 59.286 40.741 9.02 0.00 37.89 3.02
2701 3524 6.374053 TGCACCATCTTCTTCGAATTCAATTA 59.626 34.615 6.22 0.00 0.00 1.40
2708 3531 2.404923 TCGAATTCAATTACGGGCCA 57.595 45.000 4.39 0.00 0.00 5.36
3075 3898 4.467082 TGCTTCCATGTTTAGGCATGAAAT 59.533 37.500 0.00 0.00 46.65 2.17
3076 3899 5.046448 TGCTTCCATGTTTAGGCATGAAATT 60.046 36.000 0.00 0.00 46.65 1.82
3077 3900 5.292589 GCTTCCATGTTTAGGCATGAAATTG 59.707 40.000 0.00 0.00 46.65 2.32
3086 3909 6.482898 TTAGGCATGAAATTGGCAATACAT 57.517 33.333 14.05 17.71 44.16 2.29
3115 3938 8.082242 GTGGTTATTGATTAAGACTGCTTGTTT 58.918 33.333 0.00 0.00 35.56 2.83
3168 4047 7.759489 TTGCTTGTTTACCTTTGATAGTCAT 57.241 32.000 0.00 0.00 0.00 3.06
3188 4067 0.844661 TGGGGGCTAGGTTGATGTGT 60.845 55.000 0.00 0.00 0.00 3.72
3204 4083 6.075762 TGATGTGTTTCTGTTTGGAATGAG 57.924 37.500 0.00 0.00 0.00 2.90
3254 4136 5.706916 GCTATGCCATATTTGATGGAACTG 58.293 41.667 7.78 0.00 41.64 3.16
3276 4158 7.102346 ACTGAACTATATATGCTTGATCCTGC 58.898 38.462 0.00 0.00 0.00 4.85
3277 4159 7.008021 TGAACTATATATGCTTGATCCTGCA 57.992 36.000 11.29 11.29 43.67 4.41
3278 4160 7.101700 TGAACTATATATGCTTGATCCTGCAG 58.898 38.462 6.78 6.78 42.74 4.41
3279 4161 6.617782 ACTATATATGCTTGATCCTGCAGT 57.382 37.500 13.81 0.00 42.74 4.40
3280 4162 7.013823 ACTATATATGCTTGATCCTGCAGTT 57.986 36.000 13.81 0.00 42.74 3.16
3281 4163 8.138928 ACTATATATGCTTGATCCTGCAGTTA 57.861 34.615 13.81 0.00 42.74 2.24
3282 4164 8.256605 ACTATATATGCTTGATCCTGCAGTTAG 58.743 37.037 13.81 12.59 42.74 2.34
3283 4165 3.920231 ATGCTTGATCCTGCAGTTAGA 57.080 42.857 13.81 3.00 42.74 2.10
3284 4166 3.920231 TGCTTGATCCTGCAGTTAGAT 57.080 42.857 13.81 8.34 34.84 1.98
3285 4167 5.557576 ATGCTTGATCCTGCAGTTAGATA 57.442 39.130 13.81 0.00 42.74 1.98
3286 4168 4.953667 TGCTTGATCCTGCAGTTAGATAG 58.046 43.478 13.81 5.12 34.84 2.08
3287 4169 4.651045 TGCTTGATCCTGCAGTTAGATAGA 59.349 41.667 13.81 0.56 34.84 1.98
3288 4170 5.129320 TGCTTGATCCTGCAGTTAGATAGAA 59.871 40.000 13.81 4.52 34.84 2.10
3289 4171 6.183361 TGCTTGATCCTGCAGTTAGATAGAAT 60.183 38.462 13.81 0.00 34.84 2.40
3290 4172 7.015584 TGCTTGATCCTGCAGTTAGATAGAATA 59.984 37.037 13.81 0.00 34.84 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 5.860182 TGAGTAGATTGTAAAACGACTTCGG 59.140 40.000 3.30 0.00 44.95 4.30
34 39 5.234466 AGCAAGAGGTTTGAGTAGATTGT 57.766 39.130 0.00 0.00 0.00 2.71
73 78 1.672320 TGTTTGATACACCGCGGGA 59.328 52.632 31.76 15.07 0.00 5.14
184 191 8.575589 TCACAAATTCACAGTGCTTAATGTAAT 58.424 29.630 0.00 0.00 33.44 1.89
185 192 7.935520 TCACAAATTCACAGTGCTTAATGTAA 58.064 30.769 0.00 0.00 33.44 2.41
193 200 3.758554 GGGTATCACAAATTCACAGTGCT 59.241 43.478 0.00 0.00 33.44 4.40
197 204 5.939883 TCAAGAGGGTATCACAAATTCACAG 59.060 40.000 0.00 0.00 0.00 3.66
204 211 6.627087 AGAGAATCAAGAGGGTATCACAAA 57.373 37.500 0.00 0.00 37.82 2.83
230 951 4.249661 TGAGATGCGTAATGTAAAGCACA 58.750 39.130 0.00 0.00 42.73 4.57
237 958 4.202151 ACTGCAGATGAGATGCGTAATGTA 60.202 41.667 23.35 0.00 46.87 2.29
350 1096 9.052365 TGCACATGGGTATATTGGAGTATATAA 57.948 33.333 0.00 0.00 0.00 0.98
351 1097 8.482943 GTGCACATGGGTATATTGGAGTATATA 58.517 37.037 13.17 0.00 0.00 0.86
355 1101 4.410555 TGTGCACATGGGTATATTGGAGTA 59.589 41.667 17.42 0.00 0.00 2.59
358 1104 3.201930 ACTGTGCACATGGGTATATTGGA 59.798 43.478 22.00 0.00 0.00 3.53
359 1105 3.554934 ACTGTGCACATGGGTATATTGG 58.445 45.455 22.00 6.37 0.00 3.16
360 1106 5.122519 TGTACTGTGCACATGGGTATATTG 58.877 41.667 22.00 6.93 0.00 1.90
361 1107 5.366482 TGTACTGTGCACATGGGTATATT 57.634 39.130 22.00 0.00 0.00 1.28
418 1166 0.175760 TGTATTCCGAGCTGCTGGTC 59.824 55.000 7.01 12.31 37.35 4.02
426 1182 1.166531 GCCCCACATGTATTCCGAGC 61.167 60.000 0.00 0.00 0.00 5.03
427 1183 0.535102 GGCCCCACATGTATTCCGAG 60.535 60.000 0.00 0.00 0.00 4.63
428 1184 1.529796 GGCCCCACATGTATTCCGA 59.470 57.895 0.00 0.00 0.00 4.55
429 1185 1.528309 GGGCCCCACATGTATTCCG 60.528 63.158 12.23 0.00 0.00 4.30
430 1186 1.528309 CGGGCCCCACATGTATTCC 60.528 63.158 18.66 0.00 0.00 3.01
431 1187 2.193536 GCGGGCCCCACATGTATTC 61.194 63.158 18.66 0.00 0.00 1.75
432 1188 2.123897 GCGGGCCCCACATGTATT 60.124 61.111 18.66 0.00 0.00 1.89
433 1189 4.204028 GGCGGGCCCCACATGTAT 62.204 66.667 18.66 0.00 0.00 2.29
448 1204 2.491675 AGTGTTTGTTAGCTAGGGGC 57.508 50.000 0.00 0.00 42.19 5.80
478 1234 2.592993 CCGGTCTTCTTGGCCCTGA 61.593 63.158 0.00 0.00 37.05 3.86
866 1624 8.494433 AGTGCTCTCCCTTTATAATTTATGTGA 58.506 33.333 0.00 0.00 0.00 3.58
941 1699 3.737850 AGCAGAGAAGACAAGTGAAAGG 58.262 45.455 0.00 0.00 0.00 3.11
959 1717 0.250727 CCCCTTGTTCCTTTCGAGCA 60.251 55.000 0.00 0.00 0.00 4.26
963 1721 2.152016 GAGTTCCCCTTGTTCCTTTCG 58.848 52.381 0.00 0.00 0.00 3.46
971 1746 1.630878 GTGATGAGGAGTTCCCCTTGT 59.369 52.381 0.00 0.00 36.49 3.16
1045 1820 4.127907 GTCAGCTAGTTAATTACCTGGGC 58.872 47.826 0.00 0.00 0.00 5.36
1083 1858 5.918011 GTCGGCATGTTGAAAGAAAATGTTA 59.082 36.000 0.00 0.00 0.00 2.41
1088 1863 3.129462 TGTGTCGGCATGTTGAAAGAAAA 59.871 39.130 0.00 0.00 0.00 2.29
1102 1877 3.649986 GTGCTGGTGTGTGTCGGC 61.650 66.667 0.00 0.00 35.93 5.54
2305 3114 0.617820 ATCCCCTACGGTCACAGCTT 60.618 55.000 0.00 0.00 0.00 3.74
2346 3155 6.266103 AGACCTAATTCATAACCCAATGCATG 59.734 38.462 0.00 0.00 0.00 4.06
2348 3157 5.765510 AGACCTAATTCATAACCCAATGCA 58.234 37.500 0.00 0.00 0.00 3.96
2350 3159 6.884280 GGAGACCTAATTCATAACCCAATG 57.116 41.667 0.00 0.00 0.00 2.82
2419 3240 5.063944 CGACAACACCATCCTAATTGAAGAG 59.936 44.000 0.00 0.00 0.00 2.85
2442 3263 5.285651 TGAAGAAAAGGCATGTTAAAACCG 58.714 37.500 0.00 0.00 0.00 4.44
2529 3352 0.670239 CATGCAGCCACTACACGTCA 60.670 55.000 0.00 0.00 0.00 4.35
2531 3354 2.034879 GCATGCAGCCACTACACGT 61.035 57.895 14.21 0.00 37.23 4.49
2532 3355 1.576451 TTGCATGCAGCCACTACACG 61.576 55.000 21.50 0.00 44.83 4.49
2533 3356 0.169672 CTTGCATGCAGCCACTACAC 59.830 55.000 21.50 0.00 44.83 2.90
2534 3357 0.250858 ACTTGCATGCAGCCACTACA 60.251 50.000 21.50 2.04 44.83 2.74
2535 3358 0.169672 CACTTGCATGCAGCCACTAC 59.830 55.000 21.50 0.00 44.83 2.73
2536 3359 0.250858 ACACTTGCATGCAGCCACTA 60.251 50.000 21.50 3.67 44.83 2.74
2537 3360 1.111116 AACACTTGCATGCAGCCACT 61.111 50.000 21.50 4.16 44.83 4.00
2538 3361 0.942410 CAACACTTGCATGCAGCCAC 60.942 55.000 21.50 0.00 44.83 5.01
2539 3362 1.364536 CAACACTTGCATGCAGCCA 59.635 52.632 21.50 5.32 44.83 4.75
2540 3363 0.249573 AACAACACTTGCATGCAGCC 60.250 50.000 21.50 0.00 44.83 4.85
2541 3364 2.420628 TAACAACACTTGCATGCAGC 57.579 45.000 21.50 0.00 45.96 5.25
2542 3365 3.968649 AGTTAACAACACTTGCATGCAG 58.031 40.909 21.50 16.80 0.00 4.41
2543 3366 4.142293 TGAAGTTAACAACACTTGCATGCA 60.142 37.500 18.46 18.46 34.49 3.96
2544 3367 4.358851 TGAAGTTAACAACACTTGCATGC 58.641 39.130 11.82 11.82 34.49 4.06
2545 3368 5.107760 GCATGAAGTTAACAACACTTGCATG 60.108 40.000 8.61 7.52 39.56 4.06
2546 3369 4.984161 GCATGAAGTTAACAACACTTGCAT 59.016 37.500 8.61 0.00 38.97 3.96
2547 3370 4.142293 TGCATGAAGTTAACAACACTTGCA 60.142 37.500 19.45 19.45 42.33 4.08
2548 3371 4.358851 TGCATGAAGTTAACAACACTTGC 58.641 39.130 8.61 13.79 39.25 4.01
2549 3372 5.459762 CCTTGCATGAAGTTAACAACACTTG 59.540 40.000 8.61 5.13 34.49 3.16
2550 3373 5.359576 TCCTTGCATGAAGTTAACAACACTT 59.640 36.000 8.61 0.00 37.18 3.16
2551 3374 4.887071 TCCTTGCATGAAGTTAACAACACT 59.113 37.500 8.61 0.00 0.00 3.55
2552 3375 5.181690 TCCTTGCATGAAGTTAACAACAC 57.818 39.130 8.61 0.00 0.00 3.32
2553 3376 4.278170 CCTCCTTGCATGAAGTTAACAACA 59.722 41.667 8.61 7.72 0.00 3.33
2554 3377 4.321230 CCCTCCTTGCATGAAGTTAACAAC 60.321 45.833 8.61 1.85 0.00 3.32
2555 3378 3.826157 CCCTCCTTGCATGAAGTTAACAA 59.174 43.478 8.61 0.00 0.00 2.83
2556 3379 3.181434 ACCCTCCTTGCATGAAGTTAACA 60.181 43.478 8.61 0.00 0.00 2.41
2557 3380 3.191371 CACCCTCCTTGCATGAAGTTAAC 59.809 47.826 0.00 0.00 0.00 2.01
2558 3381 3.073798 TCACCCTCCTTGCATGAAGTTAA 59.926 43.478 0.00 0.00 0.00 2.01
2561 3384 1.067295 TCACCCTCCTTGCATGAAGT 58.933 50.000 0.00 0.00 0.00 3.01
2564 3387 3.047857 TGATATCACCCTCCTTGCATGA 58.952 45.455 0.00 0.00 0.00 3.07
2654 3477 7.761249 GTGCAAAGATACAAAGCTATGGATTTT 59.239 33.333 0.00 0.00 0.00 1.82
3005 3828 9.935241 CTATCCATATACATTAGCAACACTCTT 57.065 33.333 0.00 0.00 0.00 2.85
3006 3829 8.535335 CCTATCCATATACATTAGCAACACTCT 58.465 37.037 0.00 0.00 0.00 3.24
3030 3853 6.948309 AGCATACAAACAAGTTAATTCCTCCT 59.052 34.615 0.00 0.00 0.00 3.69
3075 3898 5.481824 TCAATAACCACCAATGTATTGCCAA 59.518 36.000 0.00 0.00 36.48 4.52
3076 3899 5.019470 TCAATAACCACCAATGTATTGCCA 58.981 37.500 0.00 0.00 36.48 4.92
3077 3900 5.590530 TCAATAACCACCAATGTATTGCC 57.409 39.130 0.00 0.00 36.48 4.52
3086 3909 6.245408 AGCAGTCTTAATCAATAACCACCAA 58.755 36.000 0.00 0.00 0.00 3.67
3115 3938 2.622942 CTCCCAGCAGCAACAAGTTAAA 59.377 45.455 0.00 0.00 0.00 1.52
3168 4047 0.331278 CACATCAACCTAGCCCCCAA 59.669 55.000 0.00 0.00 0.00 4.12
3188 4067 3.831323 TGGAGCTCATTCCAAACAGAAA 58.169 40.909 17.19 0.00 44.09 2.52
3204 4083 8.925161 TTGTAATTTAGTTATGCAATTGGAGC 57.075 30.769 7.72 0.00 0.00 4.70
3249 4131 9.149225 CAGGATCAAGCATATATAGTTCAGTTC 57.851 37.037 0.00 0.00 0.00 3.01
3254 4136 7.102346 ACTGCAGGATCAAGCATATATAGTTC 58.898 38.462 19.93 0.00 40.42 3.01


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

AutoCloner maintained by Alex Coulton.