Multiple sequence alignment - TraesCS5B01G167500

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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 TraesCS5B01G167500 chr5B 100.000 3254 0 0 1 3254 309815958 309819211 0.000000e+00 6010.0
1 TraesCS5B01G167500 chr5B 86.181 1317 135 25 1065 2370 312261194 312262474 0.000000e+00 1380.0
2 TraesCS5B01G167500 chr5B 84.873 1223 125 34 1074 2285 310034951 310036124 0.000000e+00 1179.0
3 TraesCS5B01G167500 chr5B 79.887 1238 206 31 1074 2293 309665820 309664608 0.000000e+00 867.0
4 TraesCS5B01G167500 chr5B 80.357 112 17 5 2645 2753 467509112 467509221 2.690000e-11 80.5
5 TraesCS5B01G167500 chr5D 90.916 2521 166 20 524 3014 275146488 275148975 0.000000e+00 3328.0
6 TraesCS5B01G167500 chr5D 95.945 1159 39 7 479 1636 274775477 274776628 0.000000e+00 1873.0
7 TraesCS5B01G167500 chr5D 86.673 1028 109 18 1065 2081 275195267 275196277 0.000000e+00 1114.0
8 TraesCS5B01G167500 chr5D 93.687 697 38 4 1635 2330 274777896 274778587 0.000000e+00 1038.0
9 TraesCS5B01G167500 chr5D 79.628 1237 211 29 1074 2293 274572450 274571238 0.000000e+00 850.0
10 TraesCS5B01G167500 chr5D 96.914 486 8 4 1 485 274774890 274775369 0.000000e+00 808.0
11 TraesCS5B01G167500 chr5D 79.553 1164 207 23 1101 2255 245715649 245716790 0.000000e+00 802.0
12 TraesCS5B01G167500 chr5D 89.366 489 22 7 1 485 394199991 394199529 3.620000e-164 588.0
13 TraesCS5B01G167500 chr5D 87.333 300 19 7 2071 2370 275196825 275197105 3.130000e-85 326.0
14 TraesCS5B01G167500 chr5D 87.013 308 13 6 42 346 487671481 487671198 4.050000e-84 322.0
15 TraesCS5B01G167500 chr5A 91.022 2328 125 20 956 3250 363919686 363921962 0.000000e+00 3064.0
16 TraesCS5B01G167500 chr5A 92.559 1196 65 8 923 2113 363861818 363862994 0.000000e+00 1694.0
17 TraesCS5B01G167500 chr5A 86.204 1312 136 31 1074 2370 364198654 364199935 0.000000e+00 1378.0
18 TraesCS5B01G167500 chr5A 98.155 271 3 1 1 271 363855779 363856047 3.800000e-129 472.0
19 TraesCS5B01G167500 chr5A 89.381 339 33 3 524 861 363856389 363856725 1.080000e-114 424.0
20 TraesCS5B01G167500 chr5A 92.045 176 11 1 2155 2330 363862995 363863167 9.020000e-61 244.0
21 TraesCS5B01G167500 chr5A 86.047 172 11 6 308 479 363856048 363856206 4.320000e-39 172.0
22 TraesCS5B01G167500 chr5A 93.750 80 5 0 858 937 363858485 363858564 1.590000e-23 121.0
23 TraesCS5B01G167500 chr6D 91.935 62 4 1 2675 2735 446510691 446510752 5.780000e-13 86.1
24 TraesCS5B01G167500 chr3D 88.525 61 6 1 2676 2735 495318408 495318348 4.500000e-09 73.1


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 TraesCS5B01G167500 chr5B 309815958 309819211 3253 False 6010.000000 6010 100.000000 1 3254 1 chr5B.!!$F1 3253
1 TraesCS5B01G167500 chr5B 312261194 312262474 1280 False 1380.000000 1380 86.181000 1065 2370 1 chr5B.!!$F3 1305
2 TraesCS5B01G167500 chr5B 310034951 310036124 1173 False 1179.000000 1179 84.873000 1074 2285 1 chr5B.!!$F2 1211
3 TraesCS5B01G167500 chr5B 309664608 309665820 1212 True 867.000000 867 79.887000 1074 2293 1 chr5B.!!$R1 1219
4 TraesCS5B01G167500 chr5D 275146488 275148975 2487 False 3328.000000 3328 90.916000 524 3014 1 chr5D.!!$F2 2490
5 TraesCS5B01G167500 chr5D 274774890 274778587 3697 False 1239.666667 1873 95.515333 1 2330 3 chr5D.!!$F3 2329
6 TraesCS5B01G167500 chr5D 274571238 274572450 1212 True 850.000000 850 79.628000 1074 2293 1 chr5D.!!$R1 1219
7 TraesCS5B01G167500 chr5D 245715649 245716790 1141 False 802.000000 802 79.553000 1101 2255 1 chr5D.!!$F1 1154
8 TraesCS5B01G167500 chr5D 275195267 275197105 1838 False 720.000000 1114 87.003000 1065 2370 2 chr5D.!!$F4 1305
9 TraesCS5B01G167500 chr5A 363919686 363921962 2276 False 3064.000000 3064 91.022000 956 3250 1 chr5A.!!$F1 2294
10 TraesCS5B01G167500 chr5A 364198654 364199935 1281 False 1378.000000 1378 86.204000 1074 2370 1 chr5A.!!$F2 1296
11 TraesCS5B01G167500 chr5A 363855779 363863167 7388 False 521.166667 1694 91.989500 1 2330 6 chr5A.!!$F3 2329

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
948 6127 0.714439 GCTCTTTTCGTCGGTACAGC 59.286 55.000 0.0 0.0 0.0 4.40 F
1123 6303 1.153823 AACATTCTCCGTCGCCTCG 60.154 57.895 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2028 8494 1.228862 GTGGGCAAGGTCATTGGGT 60.229 57.895 0.0 0.0 39.47 4.51 R
3065 10136 0.994247 TGCACATGAATCCCACTCCT 59.006 50.000 0.0 0.0 0.00 3.69 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
229 230 9.702726 TTAGTAATAACATTCTGACGTACGTAC 57.297 33.333 22.87 15.90 0.00 3.67
271 272 1.569030 ATGTGCTGCATGGTCCTCCT 61.569 55.000 5.27 0.00 36.26 3.69
281 282 6.072452 GCTGCATGGTCCTCCTATAATAAAAC 60.072 42.308 0.00 0.00 34.23 2.43
288 289 6.711194 GGTCCTCCTATAATAAAACCAGAAGC 59.289 42.308 0.00 0.00 0.00 3.86
305 306 5.297278 CCAGAAGCGATTACTACTCTACTGT 59.703 44.000 0.00 0.00 0.00 3.55
306 307 6.195868 CAGAAGCGATTACTACTCTACTGTG 58.804 44.000 0.00 0.00 0.00 3.66
350 351 6.485313 TCAAATTGAGGTAGTGAAATTCGTGT 59.515 34.615 0.00 0.00 0.00 4.49
466 467 1.071542 TGATGGACACGGTGATGTTGT 59.928 47.619 16.29 0.00 31.24 3.32
517 636 2.224523 TGGGTCATTTCACTCCAGTCAC 60.225 50.000 0.00 0.00 0.00 3.67
725 873 5.303078 AGCGATATGGATGTGAACTAGAACT 59.697 40.000 0.00 0.00 0.00 3.01
785 933 4.034510 ACGCTATCACAAGAATTAAGCAGC 59.965 41.667 0.00 0.00 0.00 5.25
827 975 3.644738 TCGAAGAGAGTTTACCCAAGGTT 59.355 43.478 0.00 0.00 37.09 3.50
948 6127 0.714439 GCTCTTTTCGTCGGTACAGC 59.286 55.000 0.00 0.00 0.00 4.40
1020 6200 3.917760 GCCGGACCATCTCTCCCG 61.918 72.222 5.05 0.00 41.47 5.14
1123 6303 1.153823 AACATTCTCCGTCGCCTCG 60.154 57.895 0.00 0.00 0.00 4.63
1713 8176 1.559368 TCGATTTCGACCCCTGGTTA 58.441 50.000 0.00 0.00 44.22 2.85
2299 9335 1.208052 TCCTTCCCTCTTCAAGATGCG 59.792 52.381 0.00 0.00 0.00 4.73
2306 9342 3.529533 CCTCTTCAAGATGCGACTCATT 58.470 45.455 0.00 0.00 35.05 2.57
2317 9353 2.160219 TGCGACTCATTGATGTTGCTTC 59.840 45.455 19.94 3.38 42.39 3.86
2330 9366 5.358725 TGATGTTGCTTCATCATGTGCTTAT 59.641 36.000 16.24 0.64 45.89 1.73
2386 9425 2.766313 TGTTCGATATATGCTGGTGGC 58.234 47.619 0.00 0.00 42.22 5.01
2440 9479 9.778741 ACATGTCTGTTTTAGAATTTCTAGTCA 57.221 29.630 6.26 6.65 37.12 3.41
2442 9481 9.778741 ATGTCTGTTTTAGAATTTCTAGTCACA 57.221 29.630 6.26 9.23 37.12 3.58
2443 9482 9.607988 TGTCTGTTTTAGAATTTCTAGTCACAA 57.392 29.630 6.26 0.00 37.12 3.33
2453 9492 9.651913 AGAATTTCTAGTCACAATCTCTTTCTC 57.348 33.333 0.00 0.00 0.00 2.87
2480 9519 5.106712 CGATCTCTTTCTCGATTCCTCTAGG 60.107 48.000 0.00 0.00 37.05 3.02
2484 9523 6.095720 TCTCTTTCTCGATTCCTCTAGGTTTC 59.904 42.308 0.00 0.00 36.34 2.78
2492 9531 8.577048 TCGATTCCTCTAGGTTTCGATATATT 57.423 34.615 16.55 0.00 41.19 1.28
2494 9533 8.679100 CGATTCCTCTAGGTTTCGATATATTCT 58.321 37.037 14.17 0.00 40.44 2.40
2498 9537 7.393796 TCCTCTAGGTTTCGATATATTCTGGTC 59.606 40.741 0.00 0.00 36.34 4.02
2518 9557 5.538813 TGGTCGTAGAAGGTCTAATGCATAT 59.461 40.000 0.00 0.00 39.69 1.78
2524 9563 9.504710 CGTAGAAGGTCTAATGCATATGTATAC 57.495 37.037 6.73 2.03 29.58 1.47
2572 9611 4.371855 TCTAGCTACACTGTACACATGC 57.628 45.455 0.00 0.00 0.00 4.06
2600 9639 5.858381 TGCTATCCTGGTCTGTCATATTTC 58.142 41.667 0.00 0.00 0.00 2.17
2602 9641 5.509840 GCTATCCTGGTCTGTCATATTTCGT 60.510 44.000 0.00 0.00 0.00 3.85
2641 9681 6.034256 GCAATTCGATGGAGTTTGAAATCAAG 59.966 38.462 6.65 0.00 37.15 3.02
2645 9685 5.181245 TCGATGGAGTTTGAAATCAAGAACC 59.819 40.000 0.00 2.75 37.15 3.62
2652 9692 8.337532 GGAGTTTGAAATCAAGAACCAATTTTG 58.662 33.333 0.00 0.00 37.15 2.44
2673 9713 4.934515 TGTGGTACGTTTTGGGAAATTTC 58.065 39.130 9.83 9.83 0.00 2.17
2698 9738 5.228427 CAAAAAGTGGTAGTTTTTCGGAACG 59.772 40.000 4.59 0.00 41.14 3.95
2786 9829 4.406069 CCGCTTGTCATTGTTAGATGTTG 58.594 43.478 0.00 0.00 0.00 3.33
2795 9838 8.046708 TGTCATTGTTAGATGTTGGCTTATAGT 58.953 33.333 0.00 0.00 0.00 2.12
2811 9854 6.431852 GGCTTATAGTCGACCTCTAGAATTCT 59.568 42.308 13.01 13.56 0.00 2.40
2822 9865 6.963322 ACCTCTAGAATTCTAAAATGCAGGT 58.037 36.000 15.85 14.94 0.00 4.00
2853 9896 8.311109 TGCTTTATTATTTTGAAAAGAGGGGTC 58.689 33.333 0.00 0.00 31.96 4.46
2864 9930 8.713708 TTGAAAAGAGGGGTCATTAATTGTTA 57.286 30.769 0.00 0.00 0.00 2.41
2885 9951 9.757227 TTGTTAAGTGAATTGAAGGTAAAATGG 57.243 29.630 0.00 0.00 0.00 3.16
2938 10004 8.984891 TTATATGCTTTGTTGATTGTTTGGAG 57.015 30.769 0.00 0.00 0.00 3.86
2940 10006 5.083533 TGCTTTGTTGATTGTTTGGAGTT 57.916 34.783 0.00 0.00 0.00 3.01
2967 10033 7.763985 AGACCTTTTATTTGTGTTTTCCTTGTG 59.236 33.333 0.00 0.00 0.00 3.33
2981 10047 5.705609 TTCCTTGTGCCAAAAGAATAGAC 57.294 39.130 0.00 0.00 0.00 2.59
2996 10062 5.745227 AGAATAGACCTTGTGTGTTATGGG 58.255 41.667 0.00 0.00 0.00 4.00
3005 10071 5.064198 CCTTGTGTGTTATGGGTATTGTACG 59.936 44.000 0.00 0.00 0.00 3.67
3037 10108 2.509548 TCATTAATGGCCCTAGCACAGT 59.490 45.455 15.36 0.00 42.56 3.55
3038 10109 3.053693 TCATTAATGGCCCTAGCACAGTT 60.054 43.478 15.36 0.00 42.56 3.16
3039 10110 4.165180 TCATTAATGGCCCTAGCACAGTTA 59.835 41.667 15.36 0.00 42.56 2.24
3044 10115 1.271163 GGCCCTAGCACAGTTACAACA 60.271 52.381 0.00 0.00 42.56 3.33
3077 10148 7.091443 CGAATTAGTATGTAGGAGTGGGATTC 58.909 42.308 0.00 0.00 0.00 2.52
3080 10151 5.815233 AGTATGTAGGAGTGGGATTCATG 57.185 43.478 0.00 0.00 0.00 3.07
3081 10152 5.219739 AGTATGTAGGAGTGGGATTCATGT 58.780 41.667 0.00 0.00 0.00 3.21
3083 10154 2.092968 TGTAGGAGTGGGATTCATGTGC 60.093 50.000 0.00 0.00 0.00 4.57
3084 10155 0.994247 AGGAGTGGGATTCATGTGCA 59.006 50.000 0.00 0.00 0.00 4.57
3085 10156 1.567649 AGGAGTGGGATTCATGTGCAT 59.432 47.619 0.00 0.00 0.00 3.96
3086 10157 1.679680 GGAGTGGGATTCATGTGCATG 59.320 52.381 5.86 5.86 40.09 4.06
3087 10158 2.646930 GAGTGGGATTCATGTGCATGA 58.353 47.619 10.48 10.48 45.30 3.07
3096 10167 2.448453 TCATGTGCATGAAATCTGCCA 58.552 42.857 11.95 0.00 44.14 4.92
3097 10168 2.425668 TCATGTGCATGAAATCTGCCAG 59.574 45.455 11.95 0.00 44.14 4.85
3098 10169 1.913778 TGTGCATGAAATCTGCCAGT 58.086 45.000 0.00 0.00 38.89 4.00
3099 10170 1.814394 TGTGCATGAAATCTGCCAGTC 59.186 47.619 0.00 0.00 38.89 3.51
3100 10171 1.089112 TGCATGAAATCTGCCAGTCG 58.911 50.000 0.00 0.00 38.89 4.18
3101 10172 1.089920 GCATGAAATCTGCCAGTCGT 58.910 50.000 0.00 0.00 33.44 4.34
3102 10173 1.470098 GCATGAAATCTGCCAGTCGTT 59.530 47.619 0.00 0.00 33.44 3.85
3103 10174 2.730090 GCATGAAATCTGCCAGTCGTTG 60.730 50.000 0.00 0.00 33.44 4.10
3104 10175 2.542020 TGAAATCTGCCAGTCGTTGA 57.458 45.000 0.00 0.00 0.00 3.18
3105 10176 2.416747 TGAAATCTGCCAGTCGTTGAG 58.583 47.619 0.00 0.00 0.00 3.02
3106 10177 2.037121 TGAAATCTGCCAGTCGTTGAGA 59.963 45.455 0.00 0.00 0.00 3.27
3107 10178 2.376808 AATCTGCCAGTCGTTGAGAG 57.623 50.000 0.00 0.00 0.00 3.20
3108 10179 1.261480 ATCTGCCAGTCGTTGAGAGT 58.739 50.000 0.00 0.00 0.00 3.24
3109 10180 1.040646 TCTGCCAGTCGTTGAGAGTT 58.959 50.000 0.00 0.00 0.00 3.01
3110 10181 2.235891 TCTGCCAGTCGTTGAGAGTTA 58.764 47.619 0.00 0.00 0.00 2.24
3116 10187 4.326548 GCCAGTCGTTGAGAGTTATACAAC 59.673 45.833 0.00 0.00 39.96 3.32
3138 10209 2.495270 TCGGCATGTTTTATGGTTGCAT 59.505 40.909 0.00 0.00 35.04 3.96
3140 10211 3.675502 CGGCATGTTTTATGGTTGCATCA 60.676 43.478 0.00 0.00 35.04 3.07
3147 10218 5.581479 TGTTTTATGGTTGCATCATGATTGC 59.419 36.000 17.85 17.85 0.00 3.56
3181 10252 5.599732 TGAACAATACTTGTGCTTGCATTT 58.400 33.333 0.00 0.00 44.59 2.32
3182 10253 6.743110 TGAACAATACTTGTGCTTGCATTTA 58.257 32.000 0.00 0.00 44.59 1.40
3183 10254 7.377398 TGAACAATACTTGTGCTTGCATTTAT 58.623 30.769 0.00 0.00 44.59 1.40
3210 10281 8.328758 TCTTAATTTCTCATGATAGTTGTGGGT 58.671 33.333 0.00 0.00 0.00 4.51
3211 10282 8.877864 TTAATTTCTCATGATAGTTGTGGGTT 57.122 30.769 0.00 0.00 0.00 4.11
3220 10291 9.822727 TCATGATAGTTGTGGGTTAGATAGATA 57.177 33.333 0.00 0.00 0.00 1.98
3250 10321 6.267070 TGTAAAACATATGTGATGCATGCAG 58.733 36.000 26.69 11.97 38.47 4.41
3251 10322 4.316205 AAACATATGTGATGCATGCAGG 57.684 40.909 26.69 4.17 38.47 4.85
3252 10323 2.940158 ACATATGTGATGCATGCAGGT 58.060 42.857 26.69 10.42 38.47 4.00
3253 10324 3.293337 ACATATGTGATGCATGCAGGTT 58.707 40.909 26.69 9.56 38.47 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
281 282 5.297278 ACAGTAGAGTAGTAATCGCTTCTGG 59.703 44.000 13.84 1.84 35.67 3.86
288 289 8.497554 GTCCTATTCACAGTAGAGTAGTAATCG 58.502 40.741 0.00 0.00 0.00 3.34
305 306 6.373005 TTGACAATCTTCCTGTCCTATTCA 57.627 37.500 0.82 0.00 42.13 2.57
306 307 7.872113 ATTTGACAATCTTCCTGTCCTATTC 57.128 36.000 0.82 0.00 42.13 1.75
479 480 1.459450 CCAAATACCCCAGTCAACGG 58.541 55.000 0.00 0.00 0.00 4.44
758 906 9.144747 CTGCTTAATTCTTGTGATAGCGTATAT 57.855 33.333 0.00 0.00 0.00 0.86
762 910 4.034510 GCTGCTTAATTCTTGTGATAGCGT 59.965 41.667 0.00 0.00 0.00 5.07
785 933 8.797215 TCTTCGAAATATGAAATTTGAAATGCG 58.203 29.630 0.00 0.00 0.00 4.73
817 965 2.038033 GACACAGCACTAACCTTGGGTA 59.962 50.000 0.00 0.00 33.12 3.69
827 975 7.744087 ATATTTTGAACTTGACACAGCACTA 57.256 32.000 0.00 0.00 0.00 2.74
948 6127 0.605589 GGACGGAGGGAGGTGTTTTG 60.606 60.000 0.00 0.00 0.00 2.44
978 6158 1.138859 GTTTGGCTTTGCAAGGAAGGT 59.861 47.619 13.48 0.00 0.00 3.50
1123 6303 4.516195 GAGAAGGTCGGCGAGGGC 62.516 72.222 11.20 0.00 38.90 5.19
1266 6456 1.893137 GGGGTGTCAATTTCCTTGGAC 59.107 52.381 0.00 0.00 35.43 4.02
1743 8206 3.539604 GCAGATGTGCCAGTAGATCTTT 58.460 45.455 2.79 0.00 44.72 2.52
2028 8494 1.228862 GTGGGCAAGGTCATTGGGT 60.229 57.895 0.00 0.00 39.47 4.51
2317 9353 6.485648 TGATCTGAGGAAATAAGCACATGATG 59.514 38.462 0.00 0.00 0.00 3.07
2330 9366 6.359804 CCACATAGGAAATGATCTGAGGAAA 58.640 40.000 0.00 0.00 41.22 3.13
2391 9430 7.988737 TGTATTTGGAATGATTGCTCTACAAG 58.011 34.615 0.00 0.00 42.87 3.16
2396 9435 6.832384 AGACATGTATTTGGAATGATTGCTCT 59.168 34.615 0.00 0.00 0.00 4.09
2397 9436 6.916387 CAGACATGTATTTGGAATGATTGCTC 59.084 38.462 0.00 0.00 0.00 4.26
2439 9478 4.753233 AGATCGTGGAGAAAGAGATTGTG 58.247 43.478 0.00 0.00 0.00 3.33
2440 9479 4.709397 AGAGATCGTGGAGAAAGAGATTGT 59.291 41.667 0.00 0.00 0.00 2.71
2441 9480 5.261209 AGAGATCGTGGAGAAAGAGATTG 57.739 43.478 0.00 0.00 0.00 2.67
2442 9481 5.930837 AAGAGATCGTGGAGAAAGAGATT 57.069 39.130 0.00 0.00 0.00 2.40
2443 9482 5.656416 AGAAAGAGATCGTGGAGAAAGAGAT 59.344 40.000 0.00 0.00 0.00 2.75
2444 9483 5.013547 AGAAAGAGATCGTGGAGAAAGAGA 58.986 41.667 0.00 0.00 0.00 3.10
2445 9484 5.323371 AGAAAGAGATCGTGGAGAAAGAG 57.677 43.478 0.00 0.00 0.00 2.85
2446 9485 4.142578 CGAGAAAGAGATCGTGGAGAAAGA 60.143 45.833 0.00 0.00 34.30 2.52
2447 9486 4.101942 CGAGAAAGAGATCGTGGAGAAAG 58.898 47.826 0.00 0.00 34.30 2.62
2448 9487 3.756963 TCGAGAAAGAGATCGTGGAGAAA 59.243 43.478 0.00 0.00 39.86 2.52
2449 9488 3.344515 TCGAGAAAGAGATCGTGGAGAA 58.655 45.455 0.00 0.00 39.86 2.87
2450 9489 2.987232 TCGAGAAAGAGATCGTGGAGA 58.013 47.619 0.00 0.00 39.86 3.71
2451 9490 3.980646 ATCGAGAAAGAGATCGTGGAG 57.019 47.619 0.00 0.00 39.86 3.86
2452 9491 3.066900 GGAATCGAGAAAGAGATCGTGGA 59.933 47.826 0.00 0.00 39.86 4.02
2453 9492 3.067461 AGGAATCGAGAAAGAGATCGTGG 59.933 47.826 0.00 0.00 39.86 4.94
2480 9519 7.537991 CCTTCTACGACCAGAATATATCGAAAC 59.462 40.741 0.00 0.00 37.97 2.78
2484 9523 6.372103 AGACCTTCTACGACCAGAATATATCG 59.628 42.308 0.00 0.00 40.39 2.92
2492 9531 3.380637 GCATTAGACCTTCTACGACCAGA 59.619 47.826 0.00 0.00 0.00 3.86
2494 9533 3.093814 TGCATTAGACCTTCTACGACCA 58.906 45.455 0.00 0.00 0.00 4.02
2498 9537 9.504710 GTATACATATGCATTAGACCTTCTACG 57.495 37.037 3.54 0.00 0.00 3.51
2531 9570 8.777089 AGCTAGATACTATGATCCATACAGAGA 58.223 37.037 0.00 0.00 32.04 3.10
2534 9573 9.620259 TGTAGCTAGATACTATGATCCATACAG 57.380 37.037 18.38 0.00 0.00 2.74
2537 9576 9.620259 CAGTGTAGCTAGATACTATGATCCATA 57.380 37.037 18.38 0.00 0.00 2.74
2550 9589 4.646945 AGCATGTGTACAGTGTAGCTAGAT 59.353 41.667 11.18 0.00 0.00 1.98
2572 9611 3.133542 TGACAGACCAGGATAGCAATGAG 59.866 47.826 0.00 0.00 0.00 2.90
2645 9685 4.683832 TCCCAAAACGTACCACAAAATTG 58.316 39.130 0.00 0.00 0.00 2.32
2652 9692 4.300803 GGAAATTTCCCAAAACGTACCAC 58.699 43.478 24.44 0.00 41.62 4.16
2680 9720 1.869132 AGCGTTCCGAAAAACTACCAC 59.131 47.619 0.00 0.00 0.00 4.16
2786 9829 6.431852 AGAATTCTAGAGGTCGACTATAAGCC 59.568 42.308 16.46 0.00 0.00 4.35
2795 9838 6.873997 TGCATTTTAGAATTCTAGAGGTCGA 58.126 36.000 14.63 0.00 0.00 4.20
2811 9854 4.414337 AAAGCAACCAACCTGCATTTTA 57.586 36.364 0.00 0.00 42.48 1.52
2864 9930 6.994421 ACCCATTTTACCTTCAATTCACTT 57.006 33.333 0.00 0.00 0.00 3.16
2938 10004 9.811995 AAGGAAAACACAAATAAAAGGTCTAAC 57.188 29.630 0.00 0.00 0.00 2.34
2940 10006 8.973182 ACAAGGAAAACACAAATAAAAGGTCTA 58.027 29.630 0.00 0.00 0.00 2.59
2967 10033 4.278419 ACACACAAGGTCTATTCTTTTGGC 59.722 41.667 0.00 0.00 0.00 4.52
2981 10047 5.064198 CGTACAATACCCATAACACACAAGG 59.936 44.000 0.00 0.00 0.00 3.61
3005 10071 7.112452 AGGGCCATTAATGAAGTATTTGTTC 57.888 36.000 17.23 0.00 0.00 3.18
3017 10088 2.936202 ACTGTGCTAGGGCCATTAATG 58.064 47.619 6.18 8.58 37.74 1.90
3044 10115 9.463902 ACTCCTACATACTAATTCGCTATGTAT 57.536 33.333 8.92 0.00 34.41 2.29
3065 10136 0.994247 TGCACATGAATCCCACTCCT 59.006 50.000 0.00 0.00 0.00 3.69
3077 10148 2.165641 ACTGGCAGATTTCATGCACATG 59.834 45.455 23.66 4.18 45.68 3.21
3080 10151 1.202110 CGACTGGCAGATTTCATGCAC 60.202 52.381 23.66 0.00 45.68 4.57
3081 10152 1.089112 CGACTGGCAGATTTCATGCA 58.911 50.000 23.66 0.00 45.68 3.96
3083 10154 2.743664 TCAACGACTGGCAGATTTCATG 59.256 45.455 23.66 11.77 0.00 3.07
3084 10155 3.005554 CTCAACGACTGGCAGATTTCAT 58.994 45.455 23.66 0.00 0.00 2.57
3085 10156 2.037121 TCTCAACGACTGGCAGATTTCA 59.963 45.455 23.66 0.00 0.00 2.69
3086 10157 2.670414 CTCTCAACGACTGGCAGATTTC 59.330 50.000 23.66 7.57 0.00 2.17
3087 10158 2.037772 ACTCTCAACGACTGGCAGATTT 59.962 45.455 23.66 7.82 0.00 2.17
3088 10159 1.620819 ACTCTCAACGACTGGCAGATT 59.379 47.619 23.66 9.48 0.00 2.40
3089 10160 1.261480 ACTCTCAACGACTGGCAGAT 58.739 50.000 23.66 5.29 0.00 2.90
3090 10161 1.040646 AACTCTCAACGACTGGCAGA 58.959 50.000 23.66 0.00 0.00 4.26
3091 10162 2.724977 TAACTCTCAACGACTGGCAG 57.275 50.000 14.16 14.16 0.00 4.85
3092 10163 3.508402 TGTATAACTCTCAACGACTGGCA 59.492 43.478 0.00 0.00 0.00 4.92
3093 10164 4.106029 TGTATAACTCTCAACGACTGGC 57.894 45.455 0.00 0.00 0.00 4.85
3094 10165 5.710984 AGTTGTATAACTCTCAACGACTGG 58.289 41.667 0.00 0.00 43.53 4.00
3107 10178 6.910433 CCATAAAACATGCCGAGTTGTATAAC 59.090 38.462 0.00 0.00 30.28 1.89
3108 10179 6.600032 ACCATAAAACATGCCGAGTTGTATAA 59.400 34.615 0.00 0.00 30.28 0.98
3109 10180 6.116806 ACCATAAAACATGCCGAGTTGTATA 58.883 36.000 0.00 0.00 30.28 1.47
3110 10181 4.947388 ACCATAAAACATGCCGAGTTGTAT 59.053 37.500 0.00 0.00 31.23 2.29
3116 10187 2.094803 TGCAACCATAAAACATGCCGAG 60.095 45.455 0.00 0.00 36.20 4.63
3119 10190 3.859443 TGATGCAACCATAAAACATGCC 58.141 40.909 0.00 0.00 36.20 4.40
3183 10254 9.177608 CCCACAACTATCATGAGAAATTAAGAA 57.822 33.333 0.09 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.