Multiple sequence alignment - TraesCS2B01G471900

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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 TraesCS2B01G471900 chr2B 100.000 3257 0 0 1 3257 668379261 668376005 0.000000e+00 6015
1 TraesCS2B01G471900 chr2D 92.086 2502 108 38 569 3000 559312388 559309907 0.000000e+00 3441
2 TraesCS2B01G471900 chr2D 90.830 578 29 12 1 572 559313212 559312653 0.000000e+00 752
3 TraesCS2B01G471900 chr2A 90.248 2666 124 56 1 2598 699869909 699867312 0.000000e+00 3358
4 TraesCS2B01G471900 chr2A 90.295 237 19 4 3019 3254 699856352 699856119 1.140000e-79 307
5 TraesCS2B01G471900 chr2A 84.821 224 20 8 2740 2959 699856770 699856557 2.550000e-51 213
6 TraesCS2B01G471900 chr6D 78.208 982 184 19 1285 2257 354992211 354991251 4.650000e-168 601
7 TraesCS2B01G471900 chr6D 86.508 252 32 2 1001 1251 354992543 354992293 3.200000e-70 276
8 TraesCS2B01G471900 chr6B 78.112 964 181 19 1285 2239 523065128 523066070 4.680000e-163 584
9 TraesCS2B01G471900 chr6B 87.045 247 30 2 1001 1246 523064799 523065044 8.900000e-71 278
10 TraesCS2B01G471900 chr6A 77.801 964 184 19 1285 2239 486841118 486842060 4.720000e-158 568
11 TraesCS2B01G471900 chr6A 87.654 243 28 2 1001 1242 486840792 486841033 6.880000e-72 281


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 TraesCS2B01G471900 chr2B 668376005 668379261 3256 True 6015.0 6015 100.0000 1 3257 1 chr2B.!!$R1 3256
1 TraesCS2B01G471900 chr2D 559309907 559313212 3305 True 2096.5 3441 91.4580 1 3000 2 chr2D.!!$R1 2999
2 TraesCS2B01G471900 chr2A 699867312 699869909 2597 True 3358.0 3358 90.2480 1 2598 1 chr2A.!!$R1 2597
3 TraesCS2B01G471900 chr2A 699856119 699856770 651 True 260.0 307 87.5580 2740 3254 2 chr2A.!!$R2 514
4 TraesCS2B01G471900 chr6D 354991251 354992543 1292 True 438.5 601 82.3580 1001 2257 2 chr6D.!!$R1 1256
5 TraesCS2B01G471900 chr6B 523064799 523066070 1271 False 431.0 584 82.5785 1001 2239 2 chr6B.!!$F1 1238
6 TraesCS2B01G471900 chr6A 486840792 486842060 1268 False 424.5 568 82.7275 1001 2239 2 chr6A.!!$F1 1238

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
353 363 0.037975 TTCCGCTCTAACCAACCGAC 60.038 55.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2260 2671 0.734253 AACTGATCGAGCACGCAGAC 60.734 55.0 15.59 1.44 39.58 3.51 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
27 28 3.335579 GGTCATAGTCAAAGGAAACGCT 58.664 45.455 0.00 0.00 0.00 5.07
39 40 0.667792 GAAACGCTCAACCGCTCTCT 60.668 55.000 0.00 0.00 0.00 3.10
40 41 0.946221 AAACGCTCAACCGCTCTCTG 60.946 55.000 0.00 0.00 0.00 3.35
53 54 3.506810 CGCTCTCTGGACTGAACTTAAG 58.493 50.000 0.00 0.00 0.00 1.85
100 101 4.637387 AATGGAGCTGGATCAGGAATAG 57.363 45.455 0.00 0.00 31.21 1.73
111 112 7.769044 GCTGGATCAGGAATAGTTTAACACTAA 59.231 37.037 0.00 0.00 35.33 2.24
174 176 1.004044 ACTCCAACCTGCATCTCAAGG 59.996 52.381 0.00 0.00 0.00 3.61
183 185 3.558505 CTGCATCTCAAGGTTTTCAACG 58.441 45.455 0.00 0.00 0.00 4.10
217 219 3.703001 ATCAAGGCTCCTCGAAAAGAA 57.297 42.857 0.00 0.00 0.00 2.52
218 220 3.485463 TCAAGGCTCCTCGAAAAGAAA 57.515 42.857 0.00 0.00 0.00 2.52
221 223 4.275936 TCAAGGCTCCTCGAAAAGAAAAAG 59.724 41.667 0.00 0.00 0.00 2.27
230 232 9.384764 CTCCTCGAAAAGAAAAAGGATAAGTAT 57.615 33.333 0.00 0.00 35.65 2.12
280 290 9.399403 GTAAACATTTCATCTTCCTCTTGTTTC 57.601 33.333 0.00 0.00 37.30 2.78
308 318 0.392706 TGGTAAGCGGCATCGATCAT 59.607 50.000 1.45 0.00 39.00 2.45
313 323 4.154195 GGTAAGCGGCATCGATCATAATTT 59.846 41.667 1.45 0.00 39.00 1.82
314 324 3.818961 AGCGGCATCGATCATAATTTG 57.181 42.857 1.45 0.00 39.00 2.32
316 326 2.350676 GCGGCATCGATCATAATTTGCA 60.351 45.455 0.00 0.00 39.00 4.08
347 357 4.289238 TGGTAAATTTCCGCTCTAACCA 57.711 40.909 0.00 0.00 33.53 3.67
350 360 4.142534 GGTAAATTTCCGCTCTAACCAACC 60.143 45.833 0.00 0.00 0.00 3.77
351 361 1.734163 ATTTCCGCTCTAACCAACCG 58.266 50.000 0.00 0.00 0.00 4.44
352 362 0.680618 TTTCCGCTCTAACCAACCGA 59.319 50.000 0.00 0.00 0.00 4.69
353 363 0.037975 TTCCGCTCTAACCAACCGAC 60.038 55.000 0.00 0.00 0.00 4.79
354 364 1.804326 CCGCTCTAACCAACCGACG 60.804 63.158 0.00 0.00 0.00 5.12
355 365 1.804326 CGCTCTAACCAACCGACGG 60.804 63.158 13.61 13.61 0.00 4.79
356 366 1.447314 GCTCTAACCAACCGACGGG 60.447 63.158 20.00 2.60 40.11 5.28
357 367 1.447314 CTCTAACCAACCGACGGGC 60.447 63.158 20.00 0.00 36.48 6.13
358 368 2.162338 CTCTAACCAACCGACGGGCA 62.162 60.000 20.00 0.00 36.48 5.36
396 406 4.717629 TGCTTCAGTCGACGCCCG 62.718 66.667 10.46 1.80 35.60 6.13
614 896 1.225704 CCATTCTGGCCCTCTGACC 59.774 63.158 0.00 0.00 0.00 4.02
625 907 0.460987 CCTCTGACCATTGACTCCGC 60.461 60.000 0.00 0.00 0.00 5.54
643 925 2.599044 GCGGTATTATTATACGCGCG 57.401 50.000 30.96 30.96 41.91 6.86
665 947 4.387559 CGTACGATCCACAGAAATCAAACA 59.612 41.667 10.44 0.00 0.00 2.83
724 1006 7.996098 TCCTGTTTTTCTATAGGGTTTCAAG 57.004 36.000 0.00 0.00 0.00 3.02
856 1180 0.170561 GGCTTGCATGACTTCAGCAG 59.829 55.000 3.33 0.00 39.72 4.24
871 1195 2.787249 CAGTACGCATGCACAGGC 59.213 61.111 19.57 0.00 41.68 4.85
969 1316 2.897271 TTAGGCTCCTTTGATTGGCA 57.103 45.000 0.00 0.00 0.00 4.92
993 1344 6.261826 CACAAGGGTAGAAGATCCATTCATTC 59.738 42.308 0.00 0.00 0.00 2.67
994 1345 6.159398 ACAAGGGTAGAAGATCCATTCATTCT 59.841 38.462 0.00 0.00 36.11 2.40
999 1350 4.892433 AGAAGATCCATTCATTCTAGGCG 58.108 43.478 0.00 0.00 30.41 5.52
1017 1368 1.522092 GATGGCCATGGACGAGTCA 59.478 57.895 26.56 0.00 0.00 3.41
1554 1956 1.304713 GGAGTCGGTGGACCTGGTA 60.305 63.158 0.00 0.00 44.54 3.25
1686 2088 1.870055 GCAACTGGACCGAGGACGTA 61.870 60.000 0.00 0.00 37.88 3.57
1891 2302 3.547249 GAAGCCGACCGACACGTCA 62.547 63.158 0.00 0.00 32.74 4.35
2257 2668 5.602628 ACTACCTCAAGTTTCTCAAGTGAC 58.397 41.667 0.00 0.00 0.00 3.67
2260 2671 3.812053 CCTCAAGTTTCTCAAGTGACCTG 59.188 47.826 0.00 0.00 0.00 4.00
2271 2698 2.024319 GTGACCTGTCTGCGTGCTC 61.024 63.158 0.00 0.00 0.00 4.26
2272 2699 2.807045 GACCTGTCTGCGTGCTCG 60.807 66.667 3.31 3.31 40.37 5.03
2279 2709 0.734253 GTCTGCGTGCTCGATCAGTT 60.734 55.000 13.13 0.00 39.71 3.16
2302 2732 4.281941 TGATCTGCAAGTGTACAGAGAAGT 59.718 41.667 0.00 0.00 45.55 3.01
2304 2734 3.636764 TCTGCAAGTGTACAGAGAAGTGA 59.363 43.478 0.00 0.00 37.99 3.41
2306 2736 3.243873 TGCAAGTGTACAGAGAAGTGAGG 60.244 47.826 0.00 0.00 0.00 3.86
2330 2764 6.777580 GGGGATGGAGTGAATATATTGTTTGT 59.222 38.462 1.78 0.00 0.00 2.83
2348 2787 7.227049 TGTTTGTTAGGGAAGATTGAAATCC 57.773 36.000 0.00 0.00 36.04 3.01
2349 2788 6.072175 TGTTTGTTAGGGAAGATTGAAATCCG 60.072 38.462 0.00 0.00 36.04 4.18
2350 2789 5.429681 TGTTAGGGAAGATTGAAATCCGA 57.570 39.130 0.00 0.00 36.04 4.55
2351 2790 6.001449 TGTTAGGGAAGATTGAAATCCGAT 57.999 37.500 0.00 0.00 36.04 4.18
2352 2791 6.055588 TGTTAGGGAAGATTGAAATCCGATC 58.944 40.000 0.00 0.00 36.04 3.69
2394 2837 6.653320 GGATGTGTGTACAGATTAAAGGTTCA 59.347 38.462 0.00 0.00 40.79 3.18
2459 2902 4.984295 TCACTCATCAATTCCAGTTTGGA 58.016 39.130 0.00 0.00 46.61 3.53
2568 3018 2.862536 CAGCTCACATAGACATGGTTCG 59.137 50.000 0.00 0.00 36.39 3.95
2573 3023 3.513912 TCACATAGACATGGTTCGGTTCT 59.486 43.478 0.00 0.00 36.39 3.01
2581 3031 2.106683 GGTTCGGTTCTCCCATGCG 61.107 63.158 0.00 0.00 0.00 4.73
2598 3048 2.695359 TGCGATCTTTGTTAGGGTGAC 58.305 47.619 0.00 0.00 0.00 3.67
2621 3073 1.140312 TGGGTGCACTCTCCTCTTTT 58.860 50.000 19.48 0.00 0.00 2.27
2631 3083 5.473504 GCACTCTCCTCTTTTGGTAAAATCA 59.526 40.000 0.00 0.00 0.00 2.57
2637 3089 7.228706 TCTCCTCTTTTGGTAAAATCAGTGAAC 59.771 37.037 0.00 0.00 0.00 3.18
2638 3090 7.060421 TCCTCTTTTGGTAAAATCAGTGAACT 58.940 34.615 0.00 0.00 0.00 3.01
2711 3169 8.977505 ACAACATTTTACACAAGATGCATTTAC 58.022 29.630 0.00 0.00 31.06 2.01
2719 3177 5.419788 ACACAAGATGCATTTACCATGTCAT 59.580 36.000 0.00 0.00 0.00 3.06
2724 3182 9.537192 CAAGATGCATTTACCATGTCATAAAAT 57.463 29.630 0.00 0.00 0.00 1.82
2732 3190 8.715191 TTTACCATGTCATAAAATTTCATGCC 57.285 30.769 10.01 0.00 35.85 4.40
2735 3193 5.235616 CCATGTCATAAAATTTCATGCCTGC 59.764 40.000 10.01 0.00 35.85 4.85
2766 3224 8.964420 ATTTACCACTGTGAAATAAAATGACG 57.036 30.769 9.86 0.00 0.00 4.35
2767 3225 5.371115 ACCACTGTGAAATAAAATGACGG 57.629 39.130 9.86 0.00 0.00 4.79
2843 3303 2.248950 TCTGATGGGTGATGGTAGGGTA 59.751 50.000 0.00 0.00 0.00 3.69
2845 3305 3.045634 TGATGGGTGATGGTAGGGTAAG 58.954 50.000 0.00 0.00 0.00 2.34
2846 3306 2.953093 TGGGTGATGGTAGGGTAAGA 57.047 50.000 0.00 0.00 0.00 2.10
2854 3314 7.344134 GGTGATGGTAGGGTAAGATTTTTAGT 58.656 38.462 0.00 0.00 0.00 2.24
2877 3337 0.814812 TGTTTTGGTTCCCCGTCGTC 60.815 55.000 0.00 0.00 0.00 4.20
2913 3373 2.433491 CCATCGTCGGCGTGGAAA 60.433 61.111 21.32 0.00 39.73 3.13
2935 3395 2.269241 CCTCCCTGTTTCGCCCTC 59.731 66.667 0.00 0.00 0.00 4.30
2936 3396 2.125512 CTCCCTGTTTCGCCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
2937 3397 2.920912 TCCCTGTTTCGCCCTCGT 60.921 61.111 0.00 0.00 36.96 4.18
2938 3398 2.032071 CCCTGTTTCGCCCTCGTT 59.968 61.111 0.00 0.00 36.96 3.85
2939 3399 1.599797 CCCTGTTTCGCCCTCGTTT 60.600 57.895 0.00 0.00 36.96 3.60
2942 3402 0.661020 CTGTTTCGCCCTCGTTTTGT 59.339 50.000 0.00 0.00 36.96 2.83
2959 3419 5.500610 CGTTTTGTTTTGATGGTGCTTCTTG 60.501 40.000 0.00 0.00 0.00 3.02
2960 3420 4.998671 TTGTTTTGATGGTGCTTCTTGA 57.001 36.364 0.00 0.00 0.00 3.02
2964 3424 5.163426 TGTTTTGATGGTGCTTCTTGACATT 60.163 36.000 0.00 0.00 0.00 2.71
2972 3432 4.441356 GGTGCTTCTTGACATTGTTGGAAA 60.441 41.667 0.00 0.00 0.00 3.13
2975 3435 3.624326 TCTTGACATTGTTGGAAAGCG 57.376 42.857 0.00 0.00 0.00 4.68
2994 3455 1.473610 CGTGTTGAGGGTGGTGTGTTA 60.474 52.381 0.00 0.00 0.00 2.41
3000 3461 3.311091 TGAGGGTGGTGTGTTAGTTAGT 58.689 45.455 0.00 0.00 0.00 2.24
3001 3462 3.712733 TGAGGGTGGTGTGTTAGTTAGTT 59.287 43.478 0.00 0.00 0.00 2.24
3002 3463 4.202284 TGAGGGTGGTGTGTTAGTTAGTTC 60.202 45.833 0.00 0.00 0.00 3.01
3003 3464 3.971971 AGGGTGGTGTGTTAGTTAGTTCT 59.028 43.478 0.00 0.00 0.00 3.01
3004 3465 4.040095 AGGGTGGTGTGTTAGTTAGTTCTC 59.960 45.833 0.00 0.00 0.00 2.87
3005 3466 4.313282 GGTGGTGTGTTAGTTAGTTCTCC 58.687 47.826 0.00 0.00 0.00 3.71
3006 3467 3.985925 GTGGTGTGTTAGTTAGTTCTCCG 59.014 47.826 0.00 0.00 0.00 4.63
3007 3468 3.638160 TGGTGTGTTAGTTAGTTCTCCGT 59.362 43.478 0.00 0.00 0.00 4.69
3008 3469 3.985925 GGTGTGTTAGTTAGTTCTCCGTG 59.014 47.826 0.00 0.00 0.00 4.94
3009 3470 4.500375 GGTGTGTTAGTTAGTTCTCCGTGT 60.500 45.833 0.00 0.00 0.00 4.49
3010 3471 5.045872 GTGTGTTAGTTAGTTCTCCGTGTT 58.954 41.667 0.00 0.00 0.00 3.32
3011 3472 5.045215 TGTGTTAGTTAGTTCTCCGTGTTG 58.955 41.667 0.00 0.00 0.00 3.33
3012 3473 4.446719 GTGTTAGTTAGTTCTCCGTGTTGG 59.553 45.833 0.00 0.00 40.09 3.77
3013 3474 2.833631 AGTTAGTTCTCCGTGTTGGG 57.166 50.000 0.00 0.00 38.76 4.12
3014 3475 1.346722 AGTTAGTTCTCCGTGTTGGGG 59.653 52.381 0.00 0.00 40.98 4.96
3015 3476 0.688487 TTAGTTCTCCGTGTTGGGGG 59.312 55.000 0.00 0.00 39.51 5.40
3016 3477 0.178926 TAGTTCTCCGTGTTGGGGGA 60.179 55.000 0.00 0.00 39.51 4.81
3019 3480 3.717294 CTCCGTGTTGGGGGAGGG 61.717 72.222 0.00 0.00 44.94 4.30
3055 3659 2.814919 TGTCTCGGTGTTGTTGTTTTGT 59.185 40.909 0.00 0.00 0.00 2.83
3056 3660 3.168193 GTCTCGGTGTTGTTGTTTTGTG 58.832 45.455 0.00 0.00 0.00 3.33
3057 3661 3.075148 TCTCGGTGTTGTTGTTTTGTGA 58.925 40.909 0.00 0.00 0.00 3.58
3067 3671 4.367450 TGTTGTTTTGTGAAGCTAATGGC 58.633 39.130 0.00 0.00 42.19 4.40
3099 3703 0.391597 TCGGTGTGTCTTGGTCCTTC 59.608 55.000 0.00 0.00 0.00 3.46
3102 3706 1.070786 TGTGTCTTGGTCCTTCGGC 59.929 57.895 0.00 0.00 0.00 5.54
3119 3723 0.721718 GGCTCCAGTTTTGATCGACG 59.278 55.000 0.00 0.00 0.00 5.12
3185 3789 2.911143 CCCCCTCCATCTTGGTCG 59.089 66.667 0.00 0.00 39.03 4.79
3189 3793 0.464452 CCCTCCATCTTGGTCGTACC 59.536 60.000 0.00 0.00 39.03 3.34
3191 3795 1.137086 CCTCCATCTTGGTCGTACCTG 59.863 57.143 5.77 0.47 39.58 4.00
3204 3808 3.039743 TCGTACCTGGGGCATTATACAA 58.960 45.455 0.00 0.00 0.00 2.41
3214 3818 3.406764 GGCATTATACAAGCCCTCTCTG 58.593 50.000 0.00 0.00 42.58 3.35
3230 3834 2.037251 TCTCTGGTGTTTTCTTCTCCGG 59.963 50.000 0.00 0.00 0.00 5.14
3236 3840 1.074248 TTTTCTTCTCCGGGGTGGC 59.926 57.895 0.00 0.00 37.80 5.01
3254 3858 5.067283 GGGTGGCGATTTGTTACATAGAAAT 59.933 40.000 0.00 0.00 0.00 2.17
3255 3859 6.199393 GGTGGCGATTTGTTACATAGAAATC 58.801 40.000 0.00 0.00 34.22 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 0.539669 TCAGTCCAGAGAGCGGTTGA 60.540 55.000 0.00 0.00 0.00 3.18
39 40 4.994852 CCGTTCATTCTTAAGTTCAGTCCA 59.005 41.667 1.63 0.00 0.00 4.02
40 41 5.235516 TCCGTTCATTCTTAAGTTCAGTCC 58.764 41.667 1.63 0.00 0.00 3.85
53 54 5.545658 TCTTATGTTTGCTCCGTTCATTC 57.454 39.130 0.00 0.00 0.00 2.67
125 126 4.489771 GGAGGTGGCCGGTGATGG 62.490 72.222 1.90 0.00 0.00 3.51
183 185 7.776107 AGGAGCCTTGATTTTTATTTTCTAGC 58.224 34.615 0.00 0.00 0.00 3.42
230 232 8.582657 ACTTCTTCTTCTGCTAATACTACTGA 57.417 34.615 0.00 0.00 0.00 3.41
280 290 1.875963 CCGCTTACCAAGTTGCCAG 59.124 57.895 0.00 0.00 0.00 4.85
308 318 3.634568 CCAACGACTTGGTGCAAATTA 57.365 42.857 0.00 0.00 42.09 1.40
347 357 3.767630 AACAGCTTGCCCGTCGGTT 62.768 57.895 11.06 0.00 0.00 4.44
350 360 3.726517 CCAACAGCTTGCCCGTCG 61.727 66.667 0.00 0.00 0.00 5.12
351 361 4.043200 GCCAACAGCTTGCCCGTC 62.043 66.667 0.00 0.00 38.99 4.79
357 367 2.912025 AACCCGGCCAACAGCTTG 60.912 61.111 2.24 0.00 43.05 4.01
358 368 2.912025 CAACCCGGCCAACAGCTT 60.912 61.111 2.24 0.00 43.05 3.74
396 406 0.029834 GCCACATGCATGGATTCGAC 59.970 55.000 29.41 8.70 43.02 4.20
536 546 9.677567 GGTTGGCAAATATGTTTGTATATACAG 57.322 33.333 14.96 2.71 45.14 2.74
614 896 6.020916 CGTATAATAATACCGCGGAGTCAATG 60.021 42.308 35.90 9.05 35.49 2.82
625 907 3.173795 CGTACGCGCGTATAATAATACCG 59.826 47.826 40.91 30.82 35.49 4.02
643 925 5.637810 TCTGTTTGATTTCTGTGGATCGTAC 59.362 40.000 0.00 0.00 0.00 3.67
665 947 1.343465 CGCGGTATTCCCACCTTATCT 59.657 52.381 0.00 0.00 36.35 1.98
724 1006 9.543018 CGTCACAGACTTAAATTTAAAATCCTC 57.457 33.333 11.62 2.77 0.00 3.71
786 1086 2.433604 TGAATGAGGCATCCACTCTCTC 59.566 50.000 0.00 0.00 35.98 3.20
787 1087 2.435069 CTGAATGAGGCATCCACTCTCT 59.565 50.000 0.00 0.00 35.98 3.10
856 1180 2.787249 CAGCCTGTGCATGCGTAC 59.213 61.111 14.09 7.24 41.13 3.67
884 1208 8.383374 ACAGGGATGTTGGTTTTATACTACTA 57.617 34.615 0.00 0.00 0.00 1.82
885 1209 7.266905 ACAGGGATGTTGGTTTTATACTACT 57.733 36.000 0.00 0.00 0.00 2.57
886 1210 7.201582 CGAACAGGGATGTTGGTTTTATACTAC 60.202 40.741 0.00 0.00 31.35 2.73
969 1316 5.983333 ATGAATGGATCTTCTACCCTTGT 57.017 39.130 0.00 0.00 0.00 3.16
999 1350 0.811616 GTGACTCGTCCATGGCCATC 60.812 60.000 17.61 3.69 0.00 3.51
1011 1362 1.374758 GAACAGCTGGGGTGACTCG 60.375 63.158 19.93 0.00 34.87 4.18
1017 1368 2.839098 CACAGGAACAGCTGGGGT 59.161 61.111 19.93 2.10 0.00 4.95
1262 1616 4.520846 CCATCGGCTTGAACGCGC 62.521 66.667 5.73 0.00 0.00 6.86
1530 1932 2.360852 TCCACCGACTCCTCGTCC 60.361 66.667 0.00 0.00 39.56 4.79
1554 1956 3.005539 ATGCACTCGGGCCTCAGT 61.006 61.111 0.84 1.28 0.00 3.41
1686 2088 1.232621 TGACCATGTCGTCGACGTCT 61.233 55.000 34.40 18.77 40.80 4.18
1875 2280 4.338539 GTGACGTGTCGGTCGGCT 62.339 66.667 0.00 0.00 39.83 5.52
2193 2604 1.065854 CAAGGGTACTGCCTCCAGAAG 60.066 57.143 0.00 0.00 41.77 2.85
2257 2668 1.875813 GATCGAGCACGCAGACAGG 60.876 63.158 0.00 0.00 39.58 4.00
2260 2671 0.734253 AACTGATCGAGCACGCAGAC 60.734 55.000 15.59 1.44 39.58 3.51
2279 2709 4.281941 ACTTCTCTGTACACTTGCAGATCA 59.718 41.667 0.00 0.00 42.83 2.92
2302 2732 5.851693 ACAATATATTCACTCCATCCCCTCA 59.148 40.000 0.00 0.00 0.00 3.86
2304 2734 6.786843 AACAATATATTCACTCCATCCCCT 57.213 37.500 0.00 0.00 0.00 4.79
2306 2736 7.823745 ACAAACAATATATTCACTCCATCCC 57.176 36.000 0.00 0.00 0.00 3.85
2330 2764 5.131977 TGGATCGGATTTCAATCTTCCCTAA 59.868 40.000 0.00 0.00 35.73 2.69
2348 2787 3.798380 TGCTCAACGCATGGATCG 58.202 55.556 0.00 0.00 45.47 3.69
2374 2813 9.743057 CAATTTTGAACCTTTAATCTGTACACA 57.257 29.630 0.00 0.00 0.00 3.72
2539 2989 1.753649 TCTATGTGAGCTGCAGTCTCC 59.246 52.381 25.45 19.36 0.00 3.71
2568 3018 1.672881 CAAAGATCGCATGGGAGAACC 59.327 52.381 18.10 7.26 40.81 3.62
2573 3023 2.421388 CCCTAACAAAGATCGCATGGGA 60.421 50.000 15.52 15.52 34.34 4.37
2581 3031 4.455877 CCAAGTGTCACCCTAACAAAGATC 59.544 45.833 0.00 0.00 0.00 2.75
2621 3073 4.642437 TGCACAAGTTCACTGATTTTACCA 59.358 37.500 0.00 0.00 0.00 3.25
2631 3083 1.202639 TCCATCGTGCACAAGTTCACT 60.203 47.619 18.64 0.00 0.00 3.41
2637 3089 0.798776 GGACTTCCATCGTGCACAAG 59.201 55.000 18.64 14.39 35.64 3.16
2638 3090 0.107643 TGGACTTCCATCGTGCACAA 59.892 50.000 18.64 0.00 42.01 3.33
2687 3145 8.147058 TGGTAAATGCATCTTGTGTAAAATGTT 58.853 29.630 0.00 0.00 0.00 2.71
2688 3146 7.665690 TGGTAAATGCATCTTGTGTAAAATGT 58.334 30.769 0.00 0.00 0.00 2.71
2711 3169 5.235616 GCAGGCATGAAATTTTATGACATGG 59.764 40.000 25.70 17.00 38.76 3.66
2724 3182 5.655974 TGGTAAATCTAATGCAGGCATGAAA 59.344 36.000 7.64 0.00 36.68 2.69
2732 3190 6.741992 TTCACAGTGGTAAATCTAATGCAG 57.258 37.500 0.00 0.00 0.00 4.41
2760 3218 4.832248 TCTATTCAACTGCTTCCGTCATT 58.168 39.130 0.00 0.00 0.00 2.57
2762 3220 3.953712 TCTATTCAACTGCTTCCGTCA 57.046 42.857 0.00 0.00 0.00 4.35
2763 3221 4.495422 TCTTCTATTCAACTGCTTCCGTC 58.505 43.478 0.00 0.00 0.00 4.79
2764 3222 4.537135 TCTTCTATTCAACTGCTTCCGT 57.463 40.909 0.00 0.00 0.00 4.69
2765 3223 5.582269 TCATTCTTCTATTCAACTGCTTCCG 59.418 40.000 0.00 0.00 0.00 4.30
2766 3224 6.992063 TCATTCTTCTATTCAACTGCTTCC 57.008 37.500 0.00 0.00 0.00 3.46
2805 3265 3.681593 TCAGAAAACAATAAGGTCCCCG 58.318 45.455 0.00 0.00 0.00 5.73
2815 3275 4.419282 ACCATCACCCATCAGAAAACAAT 58.581 39.130 0.00 0.00 0.00 2.71
2816 3276 3.843422 ACCATCACCCATCAGAAAACAA 58.157 40.909 0.00 0.00 0.00 2.83
2819 3279 3.053693 CCCTACCATCACCCATCAGAAAA 60.054 47.826 0.00 0.00 0.00 2.29
2824 3284 2.879208 TACCCTACCATCACCCATCA 57.121 50.000 0.00 0.00 0.00 3.07
2827 3287 2.953093 TCTTACCCTACCATCACCCA 57.047 50.000 0.00 0.00 0.00 4.51
2828 3288 4.790718 AAATCTTACCCTACCATCACCC 57.209 45.455 0.00 0.00 0.00 4.61
2877 3337 1.600957 GGCATCATCACTTCACCATCG 59.399 52.381 0.00 0.00 0.00 3.84
2913 3373 0.250770 GGCGAAACAGGGAGGACTTT 60.251 55.000 0.00 0.00 0.00 2.66
2927 3387 1.743958 TCAAAACAAAACGAGGGCGAA 59.256 42.857 0.00 0.00 41.64 4.70
2935 3395 4.111916 AGAAGCACCATCAAAACAAAACG 58.888 39.130 0.00 0.00 0.00 3.60
2936 3396 5.580297 TCAAGAAGCACCATCAAAACAAAAC 59.420 36.000 0.00 0.00 0.00 2.43
2937 3397 5.580297 GTCAAGAAGCACCATCAAAACAAAA 59.420 36.000 0.00 0.00 0.00 2.44
2938 3398 5.108517 GTCAAGAAGCACCATCAAAACAAA 58.891 37.500 0.00 0.00 0.00 2.83
2939 3399 4.159321 TGTCAAGAAGCACCATCAAAACAA 59.841 37.500 0.00 0.00 0.00 2.83
2942 3402 5.163426 ACAATGTCAAGAAGCACCATCAAAA 60.163 36.000 0.00 0.00 0.00 2.44
2959 3419 2.774439 ACACGCTTTCCAACAATGTC 57.226 45.000 0.00 0.00 0.00 3.06
2960 3420 2.425312 TCAACACGCTTTCCAACAATGT 59.575 40.909 0.00 0.00 0.00 2.71
2964 3424 1.021202 CCTCAACACGCTTTCCAACA 58.979 50.000 0.00 0.00 0.00 3.33
2972 3432 2.111043 CACCACCCTCAACACGCT 59.889 61.111 0.00 0.00 0.00 5.07
2975 3435 2.218603 CTAACACACCACCCTCAACAC 58.781 52.381 0.00 0.00 0.00 3.32
2994 3455 1.346722 CCCCAACACGGAGAACTAACT 59.653 52.381 0.00 0.00 36.56 2.24
3002 3463 3.717294 CCCTCCCCCAACACGGAG 61.717 72.222 0.00 0.00 44.59 4.63
3005 3466 4.029809 GACCCCTCCCCCAACACG 62.030 72.222 0.00 0.00 0.00 4.49
3006 3467 0.843343 TAAGACCCCTCCCCCAACAC 60.843 60.000 0.00 0.00 0.00 3.32
3007 3468 0.122435 ATAAGACCCCTCCCCCAACA 59.878 55.000 0.00 0.00 0.00 3.33
3008 3469 0.551396 CATAAGACCCCTCCCCCAAC 59.449 60.000 0.00 0.00 0.00 3.77
3009 3470 1.286305 GCATAAGACCCCTCCCCCAA 61.286 60.000 0.00 0.00 0.00 4.12
3010 3471 1.696314 GCATAAGACCCCTCCCCCA 60.696 63.158 0.00 0.00 0.00 4.96
3011 3472 1.286305 TTGCATAAGACCCCTCCCCC 61.286 60.000 0.00 0.00 0.00 5.40
3012 3473 0.183731 CTTGCATAAGACCCCTCCCC 59.816 60.000 0.00 0.00 35.92 4.81
3013 3474 0.919710 ACTTGCATAAGACCCCTCCC 59.080 55.000 0.00 0.00 37.36 4.30
3014 3475 2.755103 CAAACTTGCATAAGACCCCTCC 59.245 50.000 0.00 0.00 37.36 4.30
3015 3476 3.421844 ACAAACTTGCATAAGACCCCTC 58.578 45.455 0.00 0.00 37.36 4.30
3016 3477 3.074538 AGACAAACTTGCATAAGACCCCT 59.925 43.478 0.00 0.00 37.36 4.79
3017 3478 3.421844 AGACAAACTTGCATAAGACCCC 58.578 45.455 0.00 0.00 37.36 4.95
3018 3479 3.125316 CGAGACAAACTTGCATAAGACCC 59.875 47.826 0.00 0.00 37.36 4.46
3019 3480 3.125316 CCGAGACAAACTTGCATAAGACC 59.875 47.826 0.00 0.00 37.36 3.85
3020 3481 3.746492 ACCGAGACAAACTTGCATAAGAC 59.254 43.478 0.00 0.00 37.36 3.01
3021 3482 3.745975 CACCGAGACAAACTTGCATAAGA 59.254 43.478 0.00 0.00 37.36 2.10
3055 3659 1.793581 CAACGCGCCATTAGCTTCA 59.206 52.632 5.73 0.00 40.39 3.02
3056 3660 1.583709 GCAACGCGCCATTAGCTTC 60.584 57.895 5.73 0.00 40.39 3.86
3057 3661 2.485122 GCAACGCGCCATTAGCTT 59.515 55.556 5.73 0.00 40.39 3.74
3099 3703 0.721718 GTCGATCAAAACTGGAGCCG 59.278 55.000 0.00 0.00 0.00 5.52
3102 3706 2.668457 CCTTCGTCGATCAAAACTGGAG 59.332 50.000 0.00 0.00 0.00 3.86
3119 3723 1.269778 GGCTGAAACCAAGCAACCTTC 60.270 52.381 0.00 0.00 42.69 3.46
3153 3757 2.836154 GGGGGCACAACTCTCACA 59.164 61.111 0.00 0.00 0.00 3.58
3171 3775 1.137086 CAGGTACGACCAAGATGGAGG 59.863 57.143 2.85 0.00 41.95 4.30
3172 3776 1.137086 CCAGGTACGACCAAGATGGAG 59.863 57.143 2.85 0.00 41.95 3.86
3173 3777 1.191535 CCAGGTACGACCAAGATGGA 58.808 55.000 2.85 0.00 41.95 3.41
3174 3778 0.178068 CCCAGGTACGACCAAGATGG 59.822 60.000 6.78 0.00 41.95 3.51
3176 3780 1.623542 GCCCCAGGTACGACCAAGAT 61.624 60.000 6.78 0.00 41.95 2.40
3177 3781 2.288025 GCCCCAGGTACGACCAAGA 61.288 63.158 6.78 0.00 41.95 3.02
3178 3782 1.910580 ATGCCCCAGGTACGACCAAG 61.911 60.000 6.78 0.00 41.95 3.61
3183 3787 2.680251 TGTATAATGCCCCAGGTACGA 58.320 47.619 0.00 0.00 0.00 3.43
3185 3789 3.146847 GCTTGTATAATGCCCCAGGTAC 58.853 50.000 0.00 0.00 0.00 3.34
3204 3808 1.439543 AGAAAACACCAGAGAGGGCT 58.560 50.000 0.00 0.00 43.89 5.19
3214 3818 0.109913 ACCCCGGAGAAGAAAACACC 59.890 55.000 0.73 0.00 0.00 4.16
3230 3834 3.537580 TCTATGTAACAAATCGCCACCC 58.462 45.455 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.