Multiple sequence alignment - TraesCS6A01G265300

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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 TraesCS6A01G265300 chr6A 100.000 3085 0 0 1 3085 490300789 490303873 0.000000e+00 5698.0
1 TraesCS6A01G265300 chr6A 82.879 257 42 2 1013 1268 421226071 421226326 2.390000e-56 230.0
2 TraesCS6A01G265300 chr6A 82.239 259 46 0 1010 1268 421102769 421103027 1.110000e-54 224.0
3 TraesCS6A01G265300 chr6D 92.906 1903 80 19 405 2263 352834912 352836803 0.000000e+00 2715.0
4 TraesCS6A01G265300 chr6D 88.945 796 56 17 2314 3085 352836820 352837607 0.000000e+00 953.0
5 TraesCS6A01G265300 chr6D 92.547 322 17 5 1 320 352833482 352833798 3.630000e-124 455.0
6 TraesCS6A01G265300 chr6D 83.984 256 41 0 1013 1268 298207274 298207019 2.380000e-61 246.0
7 TraesCS6A01G265300 chr6D 83.267 251 40 2 1019 1268 296993543 296993294 2.390000e-56 230.0
8 TraesCS6A01G265300 chr6B 91.227 1345 55 20 1 1297 526102330 526101001 0.000000e+00 1772.0
9 TraesCS6A01G265300 chr6B 92.009 876 41 11 1325 2187 526100943 526100084 0.000000e+00 1203.0
10 TraesCS6A01G265300 chr6B 89.525 716 52 12 2306 3002 526099971 526099260 0.000000e+00 885.0
11 TraesCS6A01G265300 chr6B 83.594 256 42 0 1013 1268 461961858 461961603 1.110000e-59 241.0
12 TraesCS6A01G265300 chr6B 83.071 254 43 0 1013 1266 461903664 461903411 6.650000e-57 231.0
13 TraesCS6A01G265300 chr6B 82.812 256 44 0 1013 1268 461848254 461847999 2.390000e-56 230.0
14 TraesCS6A01G265300 chr2A 96.512 86 3 0 1349 1434 695150630 695150715 3.210000e-30 143.0
15 TraesCS6A01G265300 chr2A 94.000 50 3 0 2258 2307 49426184 49426233 3.300000e-10 76.8
16 TraesCS6A01G265300 chr2D 94.444 90 4 1 1346 1434 555395715 555395804 1.490000e-28 137.0
17 TraesCS6A01G265300 chr2D 96.341 82 3 0 1353 1434 555577008 555577089 5.370000e-28 135.0
18 TraesCS6A01G265300 chr2B 95.349 86 4 0 1349 1434 662373640 662373725 1.490000e-28 137.0
19 TraesCS6A01G265300 chr2B 93.333 90 5 1 1346 1434 661851750 661851839 6.940000e-27 132.0
20 TraesCS6A01G265300 chr7D 90.588 85 8 0 1353 1437 165635180 165635264 2.510000e-21 113.0
21 TraesCS6A01G265300 chr7B 90.588 85 8 0 1353 1437 128822544 128822628 2.510000e-21 113.0
22 TraesCS6A01G265300 chr5D 92.593 54 3 1 2258 2310 222428086 222428139 3.300000e-10 76.8
23 TraesCS6A01G265300 chr3B 88.889 54 0 5 2976 3026 336845265 336845215 9.240000e-06 62.1


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 TraesCS6A01G265300 chr6A 490300789 490303873 3084 False 5698.000000 5698 100.000000 1 3085 1 chr6A.!!$F3 3084
1 TraesCS6A01G265300 chr6D 352833482 352837607 4125 False 1374.333333 2715 91.466000 1 3085 3 chr6D.!!$F1 3084
2 TraesCS6A01G265300 chr6B 526099260 526102330 3070 True 1286.666667 1772 90.920333 1 3002 3 chr6B.!!$R4 3001

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
558 1625 0.522915 GTGTACGTGTAGGCTCGCTC 60.523 60.0 0.0 0.0 35.3 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2357 3526 0.106708 ACTTCTCGCTGGCTGTTGAA 59.893 50.0 0.0 0.0 0.0 2.69 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
25 26 3.814842 TGAGCTTACACACACAAATCAGG 59.185 43.478 0.00 0.00 0.00 3.86
28 29 3.057315 GCTTACACACACAAATCAGGCAT 60.057 43.478 0.00 0.00 0.00 4.40
118 124 2.282180 GCCGCAGACCCAGGAAAA 60.282 61.111 0.00 0.00 0.00 2.29
119 125 1.901464 GCCGCAGACCCAGGAAAAA 60.901 57.895 0.00 0.00 0.00 1.94
125 131 3.674138 CGCAGACCCAGGAAAAATCATTG 60.674 47.826 0.00 0.00 0.00 2.82
145 151 4.454728 TGCCAAAAGTATGAATTCAGCC 57.545 40.909 14.54 6.66 0.00 4.85
151 157 5.649782 AAAGTATGAATTCAGCCACCTTG 57.350 39.130 14.54 0.00 0.00 3.61
220 227 4.403432 TGTACTTAGATAGGTTGAACCCCG 59.597 45.833 11.41 0.00 39.75 5.73
243 250 5.521544 GTTTCACGCACTAAATTTAACCCA 58.478 37.500 0.00 0.00 0.00 4.51
314 327 6.574350 ACAGATTAATTAACGGAGACAGAGG 58.426 40.000 0.00 0.00 0.00 3.69
344 548 3.100671 TCTCCCACTAAGAGAAAGAGGC 58.899 50.000 0.00 0.00 37.44 4.70
345 549 2.834549 CTCCCACTAAGAGAAAGAGGCA 59.165 50.000 0.00 0.00 32.86 4.75
346 550 2.834549 TCCCACTAAGAGAAAGAGGCAG 59.165 50.000 0.00 0.00 0.00 4.85
351 555 5.652891 CCACTAAGAGAAAGAGGCAGTACTA 59.347 44.000 0.00 0.00 0.00 1.82
362 566 7.407393 AAGAGGCAGTACTACTAAGTTAAGG 57.593 40.000 0.00 0.00 37.15 2.69
364 568 6.952938 AGAGGCAGTACTACTAAGTTAAGGTT 59.047 38.462 0.00 0.00 37.15 3.50
367 571 8.747471 AGGCAGTACTACTAAGTTAAGGTTTAG 58.253 37.037 0.00 0.00 37.15 1.85
369 573 9.566530 GCAGTACTACTAAGTTAAGGTTTAGAC 57.433 37.037 0.00 0.00 37.15 2.59
371 575 8.951243 AGTACTACTAAGTTAAGGTTTAGACCG 58.049 37.037 0.00 0.00 42.93 4.79
459 1504 7.276438 GGAAAAGCGCAATCATCTCTAATTTTT 59.724 33.333 11.47 1.69 0.00 1.94
460 1505 7.746526 AAAGCGCAATCATCTCTAATTTTTC 57.253 32.000 11.47 0.00 0.00 2.29
473 1519 2.024176 ATTTTTCCCCCAACCACTCC 57.976 50.000 0.00 0.00 0.00 3.85
550 1613 7.529519 GTGATTTTTAAGCAAGTGTACGTGTAG 59.470 37.037 0.00 0.00 0.00 2.74
558 1625 0.522915 GTGTACGTGTAGGCTCGCTC 60.523 60.000 0.00 0.00 35.30 5.03
673 1744 2.936032 AAGGAGACCTGGGCCACC 60.936 66.667 0.00 0.97 32.13 4.61
943 2026 2.603776 GTCCCACCACCTCCTCGT 60.604 66.667 0.00 0.00 0.00 4.18
958 2041 4.925576 CGTCCCGGGCGAATCGAG 62.926 72.222 26.75 4.54 0.00 4.04
966 2049 0.594284 GGGCGAATCGAGGTAGAACG 60.594 60.000 6.91 0.00 0.00 3.95
999 2082 1.918293 TCTGGTGAGGTGGCCGATT 60.918 57.895 0.00 0.00 0.00 3.34
1278 2367 2.094417 GCTCGGCAACAAGTAAGCTTAG 59.906 50.000 6.38 0.00 32.87 2.18
1279 2368 2.073816 TCGGCAACAAGTAAGCTTAGC 58.926 47.619 6.38 5.51 32.87 3.09
1307 2396 2.614057 GCATTCGGTTCCGAGATTGATT 59.386 45.455 13.56 0.00 39.68 2.57
1460 2579 2.817396 GAGCAGAAGCCAGGCGTC 60.817 66.667 19.04 19.04 43.56 5.19
1660 2779 1.146930 CGGTCATGGACATCCTGGG 59.853 63.158 0.00 0.00 36.82 4.45
1738 2857 4.131088 GTGCTCGTCGTCCTCCCC 62.131 72.222 0.00 0.00 0.00 4.81
1808 2927 1.883084 GGACATCGACATGGACGCC 60.883 63.158 9.17 2.57 33.82 5.68
1891 3010 3.712907 TACGACCAAGGCCAGCCC 61.713 66.667 5.01 0.00 36.58 5.19
1921 3040 1.652563 GAAACGAGTGGTGGTTGGC 59.347 57.895 0.00 0.00 0.00 4.52
2017 3136 2.768344 CTACCCGGGCCAGGACAT 60.768 66.667 25.19 10.89 0.00 3.06
2031 3162 3.359033 CAGGACATGGAAATGGTGATGT 58.641 45.455 0.00 0.00 0.00 3.06
2032 3163 3.379372 CAGGACATGGAAATGGTGATGTC 59.621 47.826 0.00 0.00 42.61 3.06
2089 3220 3.002759 GCGTCCAATTCTGAATAGAAGGC 59.997 47.826 2.85 7.38 45.53 4.35
2092 3223 4.578105 GTCCAATTCTGAATAGAAGGCTGG 59.422 45.833 2.85 6.06 45.53 4.85
2102 3233 4.115199 AAGGCTGGGATCCACGGC 62.115 66.667 20.14 20.14 39.48 5.68
2171 3302 3.909957 ACGAAACGTTTGAGTTGCC 57.090 47.368 20.10 0.59 36.35 4.52
2180 3311 5.046910 ACGTTTGAGTTGCCTATTTGATG 57.953 39.130 0.00 0.00 0.00 3.07
2185 3316 6.839124 TTGAGTTGCCTATTTGATGTCATT 57.161 33.333 0.00 0.00 0.00 2.57
2186 3317 6.198650 TGAGTTGCCTATTTGATGTCATTG 57.801 37.500 0.00 0.00 0.00 2.82
2187 3318 5.945191 TGAGTTGCCTATTTGATGTCATTGA 59.055 36.000 0.00 0.00 0.00 2.57
2190 3321 6.604396 AGTTGCCTATTTGATGTCATTGATGA 59.396 34.615 0.00 0.00 0.00 2.92
2247 3413 4.650972 AGGTCAATACAAGGCCAAGTAA 57.349 40.909 5.01 0.00 0.00 2.24
2258 3424 2.829720 AGGCCAAGTAACACGAGTATCA 59.170 45.455 5.01 0.00 33.17 2.15
2259 3425 3.451178 AGGCCAAGTAACACGAGTATCAT 59.549 43.478 5.01 0.00 33.17 2.45
2260 3426 3.802685 GGCCAAGTAACACGAGTATCATC 59.197 47.826 0.00 0.00 33.17 2.92
2261 3427 4.441634 GGCCAAGTAACACGAGTATCATCT 60.442 45.833 0.00 0.00 33.17 2.90
2262 3428 5.221185 GGCCAAGTAACACGAGTATCATCTA 60.221 44.000 0.00 0.00 33.17 1.98
2263 3429 5.915758 GCCAAGTAACACGAGTATCATCTAG 59.084 44.000 0.00 0.00 33.17 2.43
2266 3432 9.000486 CCAAGTAACACGAGTATCATCTAGATA 58.000 37.037 4.54 0.00 38.19 1.98
2279 3445 6.782082 TCATCTAGATACATCCATACCTGC 57.218 41.667 4.54 0.00 0.00 4.85
2280 3446 5.358160 TCATCTAGATACATCCATACCTGCG 59.642 44.000 4.54 0.00 0.00 5.18
2281 3447 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
2282 3448 3.944055 AGATACATCCATACCTGCGAC 57.056 47.619 0.00 0.00 0.00 5.19
2283 3449 3.230976 AGATACATCCATACCTGCGACA 58.769 45.455 0.00 0.00 0.00 4.35
2284 3450 3.256879 AGATACATCCATACCTGCGACAG 59.743 47.826 0.00 0.00 0.00 3.51
2293 3459 2.677971 CCTGCGACAGGTAATTCGG 58.322 57.895 15.27 0.00 45.82 4.30
2294 3460 0.174845 CCTGCGACAGGTAATTCGGA 59.825 55.000 15.27 0.00 45.82 4.55
2295 3461 1.404986 CCTGCGACAGGTAATTCGGAA 60.405 52.381 15.27 0.00 45.82 4.30
2296 3462 1.659098 CTGCGACAGGTAATTCGGAAC 59.341 52.381 0.00 0.00 35.02 3.62
2354 3523 2.495155 TGTATGCAACAGCACTCCAT 57.505 45.000 0.00 0.00 41.80 3.41
2357 3526 0.251474 ATGCAACAGCACTCCATGGT 60.251 50.000 12.58 0.00 41.80 3.55
2369 3538 0.895100 TCCATGGTTCAACAGCCAGC 60.895 55.000 12.58 0.00 38.27 4.85
2396 3565 1.400142 TGCTATGCAAACATGCGTACC 59.600 47.619 0.00 0.00 37.04 3.34
2402 3571 1.135803 GCAAACATGCGTACCGATGTT 60.136 47.619 10.12 10.12 38.31 2.71
2419 3588 6.128117 ACCGATGTTGTATGTCATTTGGTTAC 60.128 38.462 0.00 0.00 32.93 2.50
2421 3590 7.279090 CCGATGTTGTATGTCATTTGGTTACTA 59.721 37.037 0.00 0.00 0.00 1.82
2422 3591 8.114290 CGATGTTGTATGTCATTTGGTTACTAC 58.886 37.037 0.00 0.00 0.00 2.73
2431 3609 7.208777 TGTCATTTGGTTACTACAGTTCGTAA 58.791 34.615 0.00 0.00 0.00 3.18
2443 3621 8.542497 ACTACAGTTCGTAATAAGAAATTGCA 57.458 30.769 0.00 0.00 0.00 4.08
2511 3689 0.035458 CGTAAGGGCTGGATCATCCC 59.965 60.000 0.00 7.80 39.87 3.85
2530 3708 3.632080 TGGCCCACCACTACCACG 61.632 66.667 0.00 0.00 42.67 4.94
2555 3734 6.632909 CCATCATGTATGCCTTTTGAAGAAA 58.367 36.000 0.00 0.00 33.92 2.52
2569 3748 1.943340 GAAGAAATCATCACCGGGCTC 59.057 52.381 6.32 0.00 0.00 4.70
2614 3793 2.187707 GCTTTTGCTAATGCGATGTGG 58.812 47.619 3.25 0.00 43.34 4.17
2780 3972 2.559998 CCATATTTTGGTGGTGACGC 57.440 50.000 0.00 0.00 40.99 5.19
2799 3991 2.731027 CGCGTTCTGAATTTTAAGGGCC 60.731 50.000 0.00 0.00 0.00 5.80
2800 3992 2.416836 GCGTTCTGAATTTTAAGGGCCC 60.417 50.000 16.46 16.46 0.00 5.80
2817 4009 1.135286 GCCCGCATTCCTTTTCAGAAG 60.135 52.381 0.00 0.00 0.00 2.85
2820 4012 2.165030 CCGCATTCCTTTTCAGAAGCAT 59.835 45.455 0.00 0.00 0.00 3.79
2851 4043 7.483307 GGCATATTAGTCATTGTTCATGTTGT 58.517 34.615 0.00 0.00 34.06 3.32
2884 4077 7.062957 TCTTTTTCTGAGATCCACTCCTTTTT 58.937 34.615 0.00 0.00 44.34 1.94
2921 4115 1.442769 GATTCAGCTCGTGCCTCAAA 58.557 50.000 5.73 0.00 40.80 2.69
2955 4150 5.413309 AAACACTTTGTCAATTTGGGTGA 57.587 34.783 0.00 0.00 0.00 4.02
2990 4185 2.096406 CGACGATGTTGCGCCTTG 59.904 61.111 4.18 0.00 33.86 3.61
3009 4204 1.337354 TGGCAATCGCTAACAACTCGA 60.337 47.619 0.00 0.00 38.60 4.04
3013 4208 2.624316 ATCGCTAACAACTCGAACGA 57.376 45.000 0.00 0.00 35.77 3.85
3050 4245 0.834687 TGGCTAGGACTCACGGGTTT 60.835 55.000 0.00 0.00 0.00 3.27
3071 4266 3.906998 TGTGCGGTGTTTCATAAAATGG 58.093 40.909 0.00 0.00 0.00 3.16
3072 4267 3.319405 TGTGCGGTGTTTCATAAAATGGT 59.681 39.130 0.00 0.00 0.00 3.55
3078 4273 5.062058 CGGTGTTTCATAAAATGGTTGATGC 59.938 40.000 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.287915 CACATACGGTTGCTTAGGATGC 59.712 50.000 0.00 0.00 0.00 3.91
28 29 2.563620 TGTCACATACGGTTGCTTAGGA 59.436 45.455 0.00 0.00 0.00 2.94
80 81 2.031683 CGTGACCTCAGTGTTGTTTTCC 59.968 50.000 0.00 0.00 0.00 3.13
118 124 7.279313 GCTGAATTCATACTTTTGGCAATGATT 59.721 33.333 8.96 0.00 0.00 2.57
119 125 6.759827 GCTGAATTCATACTTTTGGCAATGAT 59.240 34.615 8.96 0.00 0.00 2.45
125 131 4.176271 GTGGCTGAATTCATACTTTTGGC 58.824 43.478 8.96 8.29 0.00 4.52
145 151 4.358494 TTGTCGTTGGTTAAACAAGGTG 57.642 40.909 21.71 9.21 38.84 4.00
151 157 5.394322 CGATCAACTTTGTCGTTGGTTAAAC 59.606 40.000 4.12 0.00 43.36 2.01
191 197 5.661458 TCAACCTATCTAAGTACAGCTTGC 58.339 41.667 0.00 0.00 38.05 4.01
192 198 6.535508 GGTTCAACCTATCTAAGTACAGCTTG 59.464 42.308 0.00 0.00 35.53 4.01
193 199 6.351966 GGGTTCAACCTATCTAAGTACAGCTT 60.352 42.308 6.51 0.00 38.64 3.74
220 227 5.521544 TGGGTTAAATTTAGTGCGTGAAAC 58.478 37.500 0.00 0.00 0.00 2.78
243 250 5.520748 ACTTTGGGTCCATCTAGTTGAAT 57.479 39.130 2.20 0.00 0.00 2.57
303 316 5.182380 GGAGAGAATTATACCTCTGTCTCCG 59.818 48.000 0.00 0.00 39.64 4.63
345 549 8.951243 CGGTCTAAACCTTAACTTAGTAGTACT 58.049 37.037 8.14 8.14 44.04 2.73
346 550 8.947115 TCGGTCTAAACCTTAACTTAGTAGTAC 58.053 37.037 0.00 0.00 44.04 2.73
351 555 7.715266 ATCTCGGTCTAAACCTTAACTTAGT 57.285 36.000 0.00 0.00 44.04 2.24
367 571 9.503427 CCTTTTGTTTTTAATCATATCTCGGTC 57.497 33.333 0.00 0.00 0.00 4.79
459 1504 0.637195 TTTTTGGAGTGGTTGGGGGA 59.363 50.000 0.00 0.00 0.00 4.81
460 1505 1.047801 CTTTTTGGAGTGGTTGGGGG 58.952 55.000 0.00 0.00 0.00 5.40
658 1729 3.256960 TTGGTGGCCCAGGTCTCC 61.257 66.667 0.00 2.35 43.15 3.71
659 1730 2.034221 GTTGGTGGCCCAGGTCTC 59.966 66.667 0.00 0.00 43.15 3.36
660 1731 3.953775 CGTTGGTGGCCCAGGTCT 61.954 66.667 0.00 0.00 43.15 3.85
707 1787 0.957888 GTCCCAGGAGAGCAAAGTGC 60.958 60.000 0.00 0.00 45.46 4.40
710 1790 3.547567 CTGTCCCAGGAGAGCAAAG 57.452 57.895 0.00 0.00 0.00 2.77
943 2026 3.719646 TACCTCGATTCGCCCGGGA 62.720 63.158 29.31 2.74 0.00 5.14
951 2034 1.329906 TCGCTCGTTCTACCTCGATTC 59.670 52.381 0.00 0.00 35.57 2.52
958 2041 0.248296 CTCTGCTCGCTCGTTCTACC 60.248 60.000 0.00 0.00 0.00 3.18
966 2049 1.153862 CAGACCACTCTGCTCGCTC 60.154 63.158 0.00 0.00 37.72 5.03
987 2070 1.073199 CCCCATAATCGGCCACCTC 59.927 63.158 2.24 0.00 0.00 3.85
1278 2367 1.797537 GAACCGAATGCACGCAAGC 60.798 57.895 0.00 0.00 45.62 4.01
1279 2368 2.832818 CGGAACCGAATGCACGCAAG 62.833 60.000 7.53 0.00 42.83 4.01
1307 2396 6.264970 TCAGAACACACCAAATCAATCAATCA 59.735 34.615 0.00 0.00 0.00 2.57
1511 2630 2.087009 GGACGCCGAAGACAACGAG 61.087 63.158 0.00 0.00 0.00 4.18
1544 2663 4.016706 CCGTTGGACCCCTCGCTT 62.017 66.667 0.00 0.00 0.00 4.68
1616 2735 3.119709 CTCCAGCTCGAGAGGCGAC 62.120 68.421 18.75 0.00 45.59 5.19
1643 2762 1.152881 GCCCAGGATGTCCATGACC 60.153 63.158 1.30 0.00 38.89 4.02
1808 2927 1.000938 TCGATGATGCTCCAGATGTCG 60.001 52.381 0.00 0.00 0.00 4.35
1891 3010 1.668101 CTCGTTTCCCTCCTCCTCCG 61.668 65.000 0.00 0.00 0.00 4.63
1892 3011 0.615261 ACTCGTTTCCCTCCTCCTCC 60.615 60.000 0.00 0.00 0.00 4.30
1895 3014 1.192803 ACCACTCGTTTCCCTCCTCC 61.193 60.000 0.00 0.00 0.00 4.30
1921 3040 2.271800 CGAGTTCCTTCTCCAAATCCG 58.728 52.381 0.00 0.00 0.00 4.18
2013 3132 3.624777 AGGACATCACCATTTCCATGTC 58.375 45.455 2.84 2.84 42.97 3.06
2014 3133 3.624777 GAGGACATCACCATTTCCATGT 58.375 45.455 0.00 0.00 31.84 3.21
2016 3135 2.854967 AGGAGGACATCACCATTTCCAT 59.145 45.455 0.00 0.00 31.84 3.41
2017 3136 2.239654 GAGGAGGACATCACCATTTCCA 59.760 50.000 0.00 0.00 31.84 3.53
2021 3152 2.277008 AGGAGGAGGACATCACCATT 57.723 50.000 5.62 0.00 0.00 3.16
2031 3162 2.279073 CTGCGGGTAGGAGGAGGA 59.721 66.667 0.00 0.00 34.34 3.71
2032 3163 2.042843 ACTGCGGGTAGGAGGAGG 60.043 66.667 0.00 0.00 43.20 4.30
2033 3164 2.128507 GGACTGCGGGTAGGAGGAG 61.129 68.421 0.00 0.00 43.20 3.69
2089 3220 4.530857 GACCGCCGTGGATCCCAG 62.531 72.222 9.90 2.66 42.00 4.45
2180 3311 8.091385 TGTATGTGCATTCTATCATCAATGAC 57.909 34.615 0.00 0.00 40.03 3.06
2223 3389 4.993028 ACTTGGCCTTGTATTGACCTAAA 58.007 39.130 3.32 0.00 0.00 1.85
2258 3424 5.358442 GTCGCAGGTATGGATGTATCTAGAT 59.642 44.000 10.73 10.73 0.00 1.98
2259 3425 4.700692 GTCGCAGGTATGGATGTATCTAGA 59.299 45.833 0.00 0.00 0.00 2.43
2260 3426 4.459337 TGTCGCAGGTATGGATGTATCTAG 59.541 45.833 0.00 0.00 0.00 2.43
2261 3427 4.403734 TGTCGCAGGTATGGATGTATCTA 58.596 43.478 0.00 0.00 0.00 1.98
2262 3428 3.230976 TGTCGCAGGTATGGATGTATCT 58.769 45.455 0.00 0.00 0.00 1.98
2263 3429 3.579709 CTGTCGCAGGTATGGATGTATC 58.420 50.000 0.00 0.00 0.00 2.24
2266 3432 0.465705 CCTGTCGCAGGTATGGATGT 59.534 55.000 15.27 0.00 45.82 3.06
2276 3442 1.659098 GTTCCGAATTACCTGTCGCAG 59.341 52.381 0.52 0.52 35.93 5.18
2277 3443 1.717194 GTTCCGAATTACCTGTCGCA 58.283 50.000 0.00 0.00 35.93 5.10
2278 3444 0.643820 CGTTCCGAATTACCTGTCGC 59.356 55.000 0.00 0.00 35.93 5.19
2279 3445 2.267188 TCGTTCCGAATTACCTGTCG 57.733 50.000 0.00 0.00 37.01 4.35
2280 3446 2.928116 CCTTCGTTCCGAATTACCTGTC 59.072 50.000 0.00 0.00 44.85 3.51
2281 3447 2.564062 TCCTTCGTTCCGAATTACCTGT 59.436 45.455 0.00 0.00 44.85 4.00
2282 3448 3.241067 TCCTTCGTTCCGAATTACCTG 57.759 47.619 0.00 0.00 44.85 4.00
2283 3449 3.260128 ACTTCCTTCGTTCCGAATTACCT 59.740 43.478 0.00 0.00 44.85 3.08
2284 3450 3.593096 ACTTCCTTCGTTCCGAATTACC 58.407 45.455 0.00 0.00 44.85 2.85
2285 3451 5.634859 TGTTACTTCCTTCGTTCCGAATTAC 59.365 40.000 0.00 0.00 44.85 1.89
2286 3452 5.782047 TGTTACTTCCTTCGTTCCGAATTA 58.218 37.500 0.00 0.00 44.85 1.40
2287 3453 4.634199 TGTTACTTCCTTCGTTCCGAATT 58.366 39.130 0.00 0.00 44.85 2.17
2288 3454 4.243270 CTGTTACTTCCTTCGTTCCGAAT 58.757 43.478 0.00 0.00 44.85 3.34
2289 3455 3.068590 ACTGTTACTTCCTTCGTTCCGAA 59.931 43.478 0.00 0.00 43.75 4.30
2290 3456 2.624838 ACTGTTACTTCCTTCGTTCCGA 59.375 45.455 0.00 0.00 0.00 4.55
2291 3457 3.022607 ACTGTTACTTCCTTCGTTCCG 57.977 47.619 0.00 0.00 0.00 4.30
2292 3458 5.746307 AAAACTGTTACTTCCTTCGTTCC 57.254 39.130 0.00 0.00 0.00 3.62
2293 3459 7.641411 GGTTAAAAACTGTTACTTCCTTCGTTC 59.359 37.037 0.00 0.00 0.00 3.95
2294 3460 7.121020 TGGTTAAAAACTGTTACTTCCTTCGTT 59.879 33.333 0.00 0.00 0.00 3.85
2295 3461 6.598850 TGGTTAAAAACTGTTACTTCCTTCGT 59.401 34.615 0.00 0.00 0.00 3.85
2296 3462 7.018635 TGGTTAAAAACTGTTACTTCCTTCG 57.981 36.000 0.00 0.00 0.00 3.79
2297 3463 9.811995 ATTTGGTTAAAAACTGTTACTTCCTTC 57.188 29.630 0.00 0.00 0.00 3.46
2298 3464 9.594478 CATTTGGTTAAAAACTGTTACTTCCTT 57.406 29.630 0.00 0.00 0.00 3.36
2299 3465 8.755028 ACATTTGGTTAAAAACTGTTACTTCCT 58.245 29.630 0.00 0.00 0.00 3.36
2300 3466 8.936070 ACATTTGGTTAAAAACTGTTACTTCC 57.064 30.769 0.00 0.00 0.00 3.46
2302 3468 9.806203 GGTACATTTGGTTAAAAACTGTTACTT 57.194 29.630 0.00 0.00 0.00 2.24
2303 3469 8.968969 TGGTACATTTGGTTAAAAACTGTTACT 58.031 29.630 0.00 0.00 0.00 2.24
2354 3523 1.597854 CTCGCTGGCTGTTGAACCA 60.598 57.895 0.00 0.00 0.00 3.67
2357 3526 0.106708 ACTTCTCGCTGGCTGTTGAA 59.893 50.000 0.00 0.00 0.00 2.69
2369 3538 3.677601 CATGTTTGCATAGCACTTCTCG 58.322 45.455 0.00 0.00 38.71 4.04
2396 3565 7.072177 AGTAACCAAATGACATACAACATCG 57.928 36.000 0.00 0.00 0.00 3.84
2402 3571 7.329962 CGAACTGTAGTAACCAAATGACATACA 59.670 37.037 0.00 0.00 0.00 2.29
2419 3588 9.262472 GTTGCAATTTCTTATTACGAACTGTAG 57.738 33.333 0.59 0.00 33.75 2.74
2421 3590 7.871853 AGTTGCAATTTCTTATTACGAACTGT 58.128 30.769 0.59 0.00 0.00 3.55
2422 3591 9.820229 TTAGTTGCAATTTCTTATTACGAACTG 57.180 29.630 0.59 0.00 0.00 3.16
2435 3613 9.124807 GGTACAGTACAAATTAGTTGCAATTTC 57.875 33.333 12.89 0.00 41.31 2.17
2498 3676 1.605738 GCCATGGGATGATCCAGCC 60.606 63.158 15.13 0.00 40.56 4.85
2555 3734 1.135094 AATCAGAGCCCGGTGATGAT 58.865 50.000 6.08 4.74 33.58 2.45
2569 3748 7.043590 GCAAGTTGCTTTAGAATGCATAATCAG 60.044 37.037 20.71 0.00 40.96 2.90
2613 3792 4.082845 AGCTAAAGGAGAAGAAAAAGGCC 58.917 43.478 0.00 0.00 0.00 5.19
2614 3793 5.465051 CAAGCTAAAGGAGAAGAAAAAGGC 58.535 41.667 0.00 0.00 0.00 4.35
2661 3845 2.352503 AGCAACACGCAATCAAATCC 57.647 45.000 0.00 0.00 46.13 3.01
2673 3857 1.444119 TTGCTCACCCGAAGCAACAC 61.444 55.000 6.45 0.00 42.65 3.32
2777 3969 2.095415 GCCCTTAAAATTCAGAACGCGT 60.095 45.455 5.58 5.58 0.00 6.01
2778 3970 2.515912 GCCCTTAAAATTCAGAACGCG 58.484 47.619 3.53 3.53 0.00 6.01
2780 3972 2.159435 CGGGCCCTTAAAATTCAGAACG 60.159 50.000 22.43 0.00 0.00 3.95
2799 3991 1.541147 TGCTTCTGAAAAGGAATGCGG 59.459 47.619 0.00 0.00 0.00 5.69
2800 3992 2.995466 TGCTTCTGAAAAGGAATGCG 57.005 45.000 0.00 0.00 0.00 4.73
2817 4009 6.092670 ACAATGACTAATATGCCGTATGATGC 59.907 38.462 0.00 0.00 0.00 3.91
2820 4012 7.213678 TGAACAATGACTAATATGCCGTATGA 58.786 34.615 0.00 0.00 0.00 2.15
2858 4050 5.419239 AGGAGTGGATCTCAGAAAAAGAG 57.581 43.478 0.00 0.00 44.40 2.85
2861 4054 6.040842 CCAAAAAGGAGTGGATCTCAGAAAAA 59.959 38.462 0.00 0.00 44.40 1.94
2866 4059 3.009473 TCCCAAAAAGGAGTGGATCTCAG 59.991 47.826 0.00 0.00 44.40 3.35
2908 4102 0.110644 CGAAAGTTTGAGGCACGAGC 60.111 55.000 0.00 0.00 41.10 5.03
2911 4105 1.798223 TCATCGAAAGTTTGAGGCACG 59.202 47.619 0.00 0.00 0.00 5.34
2921 4115 7.490962 TGACAAAGTGTTTATCATCGAAAGT 57.509 32.000 0.00 0.00 0.00 2.66
2955 4150 3.443976 GTCGCATCACCAAAGTTGTTTT 58.556 40.909 0.00 0.00 0.00 2.43
2990 4185 1.355971 TCGAGTTGTTAGCGATTGCC 58.644 50.000 0.00 0.00 44.31 4.52
3009 4204 6.194796 CAACCATTGGATCAATAACTCGTT 57.805 37.500 10.37 0.00 32.35 3.85
3025 4220 1.066143 CGTGAGTCCTAGCCAACCATT 60.066 52.381 0.00 0.00 0.00 3.16
3026 4221 0.537188 CGTGAGTCCTAGCCAACCAT 59.463 55.000 0.00 0.00 0.00 3.55
3050 4245 3.319405 ACCATTTTATGAAACACCGCACA 59.681 39.130 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.