Multiple sequence alignment - TraesCS7D01G205900

Loading Multiple Alignment...

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 TraesCS7D01G205900 chr7D 100.000 3245 0 0 1 3245 163252768 163256012 0.000000e+00 5993.0
1 TraesCS7D01G205900 chr7D 73.547 688 151 20 1556 2239 16009054 16008394 1.950000e-57 233.0
2 TraesCS7D01G205900 chr7B 93.233 2793 143 22 432 3206 125501060 125503824 0.000000e+00 4069.0
3 TraesCS7D01G205900 chr7B 93.827 162 10 0 122 283 125500912 125501073 8.990000e-61 244.0
4 TraesCS7D01G205900 chr7A 92.693 1697 75 11 565 2257 164396491 164398142 0.000000e+00 2401.0
5 TraesCS7D01G205900 chr7A 93.427 928 46 7 2294 3206 164398143 164399070 0.000000e+00 1362.0
6 TraesCS7D01G205900 chr7A 79.722 1509 267 24 880 2371 14772000 14770514 0.000000e+00 1055.0
7 TraesCS7D01G205900 chr7A 94.211 570 32 1 1 570 164395526 164396094 0.000000e+00 869.0
8 TraesCS7D01G205900 chr7A 79.562 137 27 1 734 869 5154358 5154494 2.660000e-16 97.1
9 TraesCS7D01G205900 chr4A 79.182 1393 258 22 892 2276 719142992 719144360 0.000000e+00 937.0
10 TraesCS7D01G205900 chrUn 82.209 163 27 2 1556 1717 440034935 440035096 4.370000e-29 139.0


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 TraesCS7D01G205900 chr7D 163252768 163256012 3244 False 5993.0 5993 100.000000 1 3245 1 chr7D.!!$F1 3244
1 TraesCS7D01G205900 chr7D 16008394 16009054 660 True 233.0 233 73.547000 1556 2239 1 chr7D.!!$R1 683
2 TraesCS7D01G205900 chr7B 125500912 125503824 2912 False 2156.5 4069 93.530000 122 3206 2 chr7B.!!$F1 3084
3 TraesCS7D01G205900 chr7A 164395526 164399070 3544 False 1544.0 2401 93.443667 1 3206 3 chr7A.!!$F2 3205
4 TraesCS7D01G205900 chr7A 14770514 14772000 1486 True 1055.0 1055 79.722000 880 2371 1 chr7A.!!$R1 1491
5 TraesCS7D01G205900 chr4A 719142992 719144360 1368 False 937.0 937 79.182000 892 2276 1 chr4A.!!$F1 1384

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
424 425 0.111639 TCCCCTACAGCCACAAAACC 59.888 55.0 0.0 0.0 0.00 3.27 F
1323 1732 0.034337 CAGCCAAGCAAAGTGCCATT 59.966 50.0 0.0 0.0 46.52 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2333 0.537653 TGGACCGTGCGGATAAATGA 59.462 50.000 18.16 0.0 38.96 2.57 R
2880 3318 1.074084 TGACTAATGCGGTTGGGGAAA 59.926 47.619 0.00 0.0 0.00 3.13 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
59 60 8.171400 TGGTTAGAATTTATGAAAACCCCACTA 58.829 33.333 0.00 0.00 36.39 2.74
86 87 2.171003 GGCCTTTATTTGTGCACTCCT 58.829 47.619 19.41 4.66 0.00 3.69
107 108 8.232412 ACTCCTCTAATAGTATTGTGGACCATA 58.768 37.037 5.61 0.00 0.00 2.74
160 161 4.142049 GCTCTGACCTCTACTAAAGTGCAT 60.142 45.833 0.00 0.00 0.00 3.96
212 213 1.202879 CCAACCCACTAAGCTCACCAA 60.203 52.381 0.00 0.00 0.00 3.67
295 296 2.294078 CCGCCAACCCTCTCCTTCT 61.294 63.158 0.00 0.00 0.00 2.85
296 297 1.219393 CGCCAACCCTCTCCTTCTC 59.781 63.158 0.00 0.00 0.00 2.87
344 345 2.290323 CCAACTCCCTTTCTCGAACCAT 60.290 50.000 0.00 0.00 0.00 3.55
364 365 4.147449 CTCACCGATGAGCCGCCA 62.147 66.667 0.00 0.00 45.83 5.69
391 392 2.660064 GCCCCTCAGTCATCGGTGT 61.660 63.158 0.00 0.00 0.00 4.16
393 394 1.257750 CCCCTCAGTCATCGGTGTCA 61.258 60.000 0.00 0.00 0.00 3.58
397 398 2.289072 CCTCAGTCATCGGTGTCAACTT 60.289 50.000 0.00 0.00 0.00 2.66
406 407 0.606673 GGTGTCAACTTCCAGGCCTC 60.607 60.000 0.00 0.00 0.00 4.70
424 425 0.111639 TCCCCTACAGCCACAAAACC 59.888 55.000 0.00 0.00 0.00 3.27
427 428 1.579429 CTACAGCCACAAAACCGCC 59.421 57.895 0.00 0.00 0.00 6.13
498 499 1.751924 CCTCTCCTCCTTCGTCGATTT 59.248 52.381 0.00 0.00 0.00 2.17
600 1003 9.571810 TTGTCAAAGATAACATTGCATTCATAC 57.428 29.630 0.00 0.00 0.00 2.39
602 1005 8.190122 GTCAAAGATAACATTGCATTCATACCA 58.810 33.333 0.00 0.00 0.00 3.25
603 1006 8.190122 TCAAAGATAACATTGCATTCATACCAC 58.810 33.333 0.00 0.00 0.00 4.16
622 1025 6.837471 ACCACAAGTCTAGTTTCCTAGTAG 57.163 41.667 0.00 0.00 41.31 2.57
632 1035 8.852135 GTCTAGTTTCCTAGTAGATATGTTGCT 58.148 37.037 0.00 0.00 40.15 3.91
687 1090 6.800072 AAGAATTGGAACTCTAGAGTAGGG 57.200 41.667 25.42 0.00 41.58 3.53
688 1091 6.093617 AGAATTGGAACTCTAGAGTAGGGA 57.906 41.667 25.42 12.63 41.58 4.20
689 1092 6.503944 AGAATTGGAACTCTAGAGTAGGGAA 58.496 40.000 25.42 15.38 41.58 3.97
690 1093 6.381707 AGAATTGGAACTCTAGAGTAGGGAAC 59.618 42.308 25.42 13.82 41.58 3.62
691 1094 4.949966 TGGAACTCTAGAGTAGGGAACT 57.050 45.455 25.42 8.27 41.58 3.01
723 1126 5.491078 AGACTTATCCAATAGGTTTGGTGGA 59.509 40.000 4.42 0.00 44.07 4.02
732 1135 1.363807 GTTTGGTGGAGCACAAGCC 59.636 57.895 0.00 0.00 43.56 4.35
742 1145 0.663153 AGCACAAGCCTTCGACAAAC 59.337 50.000 0.00 0.00 43.56 2.93
910 1314 7.954788 TGCGTATACATTGTTATAGCATTCA 57.045 32.000 3.32 0.00 0.00 2.57
995 1404 0.687354 ATGGTTTGCAGAGAGGTCGT 59.313 50.000 0.00 0.00 0.00 4.34
1118 1527 1.410517 CTCTCGCTTAGGCTCAATCCA 59.589 52.381 0.00 0.00 36.09 3.41
1215 1624 1.017387 GCACTTTATTCCCGCCTCTG 58.983 55.000 0.00 0.00 0.00 3.35
1224 1633 2.108566 CCGCCTCTGCTCATCCAG 59.891 66.667 0.00 0.00 34.43 3.86
1322 1731 1.669440 CAGCCAAGCAAAGTGCCAT 59.331 52.632 0.00 0.00 46.52 4.40
1323 1732 0.034337 CAGCCAAGCAAAGTGCCATT 59.966 50.000 0.00 0.00 46.52 3.16
1482 1891 2.732366 CGTCTCCCATTACGTGATGAG 58.268 52.381 20.86 8.70 34.48 2.90
1584 1993 1.912043 AGTGCCATTCTAACAGCTCCT 59.088 47.619 0.00 0.00 0.00 3.69
1625 2034 3.278157 GCTTGTTAGCACTGGCCC 58.722 61.111 0.00 0.00 46.95 5.80
1642 2051 2.243994 GGCCCCTCCTTATTTAGTTGGT 59.756 50.000 0.00 0.00 0.00 3.67
1682 2091 2.365617 GGTCTGAACTCCAGTGTTCTGA 59.634 50.000 14.35 14.35 45.69 3.27
1841 2250 0.608640 AGTTGCCAAGACCCGTCTAG 59.391 55.000 0.00 0.00 39.39 2.43
1924 2333 2.928801 TCAGTACAATGCCAGTGTGT 57.071 45.000 8.24 0.00 0.00 3.72
2162 2579 3.853355 AGATCCATCTGTTGATCCCAC 57.147 47.619 0.00 0.00 38.50 4.61
2247 2665 2.267174 ATTCAGATGGCCCTTGATCG 57.733 50.000 0.00 0.00 0.00 3.69
2274 2695 2.969950 TGTACCTACAACTTGCTGGTCT 59.030 45.455 8.93 0.00 32.40 3.85
2275 2696 4.021719 GTGTACCTACAACTTGCTGGTCTA 60.022 45.833 8.93 0.10 38.04 2.59
2276 2697 4.589798 TGTACCTACAACTTGCTGGTCTAA 59.410 41.667 8.93 0.00 32.40 2.10
2277 2698 4.004196 ACCTACAACTTGCTGGTCTAAC 57.996 45.455 1.61 0.00 0.00 2.34
2278 2699 3.646637 ACCTACAACTTGCTGGTCTAACT 59.353 43.478 1.61 0.00 0.00 2.24
2279 2700 4.836736 ACCTACAACTTGCTGGTCTAACTA 59.163 41.667 1.61 0.00 0.00 2.24
2318 2743 4.051661 TGGGAAATTTCCTCTTCTGCAT 57.948 40.909 31.23 0.00 46.72 3.96
2378 2803 1.886542 ACTCGGAATTCAACCTTTGCC 59.113 47.619 7.93 0.00 0.00 4.52
2391 2816 6.696411 TCAACCTTTGCCTTATATTTTGGTG 58.304 36.000 0.00 0.00 0.00 4.17
2435 2860 5.964958 AAGAGATGTTTATGGTGGTTGTG 57.035 39.130 0.00 0.00 0.00 3.33
2673 3108 5.593095 AGATTAGCACATGATGAGTTGCATT 59.407 36.000 0.00 0.00 37.34 3.56
2689 3124 5.925969 AGTTGCATTACCTTGTTTGCATAAC 59.074 36.000 0.00 0.00 43.91 1.89
2698 3133 5.993441 ACCTTGTTTGCATAACTAACGTACT 59.007 36.000 11.34 0.00 36.88 2.73
2784 3219 4.940046 ACTCACCAGCAATGATCTTAACAG 59.060 41.667 0.00 0.00 0.00 3.16
2792 3227 7.033791 CAGCAATGATCTTAACAGCAAAGATT 58.966 34.615 0.00 0.00 42.38 2.40
2846 3284 4.736611 ATGCCTCATGATGATAACCCTT 57.263 40.909 1.72 0.00 0.00 3.95
2848 3286 3.202818 TGCCTCATGATGATAACCCTTGT 59.797 43.478 1.72 0.00 0.00 3.16
2849 3287 3.567164 GCCTCATGATGATAACCCTTGTG 59.433 47.826 1.72 0.00 0.00 3.33
2868 3306 2.421424 GTGGCTCTCGCAAAAGATGATT 59.579 45.455 0.00 0.00 38.10 2.57
2879 3317 8.633075 TCGCAAAAGATGATTGAAATTATTCC 57.367 30.769 0.00 0.00 34.49 3.01
2880 3318 8.469200 TCGCAAAAGATGATTGAAATTATTCCT 58.531 29.630 0.00 0.00 34.49 3.36
2897 3335 1.102978 CCTTTCCCCAACCGCATTAG 58.897 55.000 0.00 0.00 0.00 1.73
2923 3361 9.846248 GTCAGCAACATATATTTTGAGAAAGTT 57.154 29.630 14.44 0.00 0.00 2.66
3012 3456 2.022764 TTACATGAGCCCATCACACG 57.977 50.000 0.00 0.00 41.91 4.49
3019 3463 0.889186 AGCCCATCACACGAACCAAC 60.889 55.000 0.00 0.00 0.00 3.77
3022 3467 1.222300 CCATCACACGAACCAACGAA 58.778 50.000 0.00 0.00 37.03 3.85
3024 3469 2.601266 CCATCACACGAACCAACGAAAC 60.601 50.000 0.00 0.00 37.03 2.78
3098 3544 9.561069 AGTGGTCACTTCAACAAATATATATCC 57.439 33.333 0.00 0.00 38.83 2.59
3168 3617 4.844085 TGGAATCTTCAGTTCCCTACTTCA 59.156 41.667 2.73 0.00 43.60 3.02
3206 3655 2.035961 GTCTCCCTTTGTTTTTCTGGCC 59.964 50.000 0.00 0.00 0.00 5.36
3207 3656 1.344438 CTCCCTTTGTTTTTCTGGCCC 59.656 52.381 0.00 0.00 0.00 5.80
3208 3657 1.062505 TCCCTTTGTTTTTCTGGCCCT 60.063 47.619 0.00 0.00 0.00 5.19
3209 3658 2.178106 TCCCTTTGTTTTTCTGGCCCTA 59.822 45.455 0.00 0.00 0.00 3.53
3210 3659 3.173151 CCCTTTGTTTTTCTGGCCCTAT 58.827 45.455 0.00 0.00 0.00 2.57
3211 3660 3.055891 CCCTTTGTTTTTCTGGCCCTATG 60.056 47.826 0.00 0.00 0.00 2.23
3212 3661 3.831911 CCTTTGTTTTTCTGGCCCTATGA 59.168 43.478 0.00 0.00 0.00 2.15
3213 3662 4.467438 CCTTTGTTTTTCTGGCCCTATGAT 59.533 41.667 0.00 0.00 0.00 2.45
3214 3663 5.404466 TTTGTTTTTCTGGCCCTATGATG 57.596 39.130 0.00 0.00 0.00 3.07
3215 3664 4.314522 TGTTTTTCTGGCCCTATGATGA 57.685 40.909 0.00 0.00 0.00 2.92
3216 3665 4.016444 TGTTTTTCTGGCCCTATGATGAC 58.984 43.478 0.00 0.00 0.00 3.06
3217 3666 4.016444 GTTTTTCTGGCCCTATGATGACA 58.984 43.478 0.00 0.00 0.00 3.58
3218 3667 3.281727 TTTCTGGCCCTATGATGACAC 57.718 47.619 0.00 0.00 0.00 3.67
3219 3668 0.752658 TCTGGCCCTATGATGACACG 59.247 55.000 0.00 0.00 0.00 4.49
3220 3669 0.250038 CTGGCCCTATGATGACACGG 60.250 60.000 0.00 0.00 0.00 4.94
3221 3670 0.980754 TGGCCCTATGATGACACGGT 60.981 55.000 0.00 0.00 0.00 4.83
3222 3671 1.045407 GGCCCTATGATGACACGGTA 58.955 55.000 0.00 0.00 0.00 4.02
3223 3672 1.414919 GGCCCTATGATGACACGGTAA 59.585 52.381 0.00 0.00 0.00 2.85
3224 3673 2.158871 GGCCCTATGATGACACGGTAAA 60.159 50.000 0.00 0.00 0.00 2.01
3225 3674 3.537580 GCCCTATGATGACACGGTAAAA 58.462 45.455 0.00 0.00 0.00 1.52
3226 3675 3.560068 GCCCTATGATGACACGGTAAAAG 59.440 47.826 0.00 0.00 0.00 2.27
3227 3676 4.682320 GCCCTATGATGACACGGTAAAAGA 60.682 45.833 0.00 0.00 0.00 2.52
3228 3677 5.050490 CCCTATGATGACACGGTAAAAGAG 58.950 45.833 0.00 0.00 0.00 2.85
3229 3678 5.163447 CCCTATGATGACACGGTAAAAGAGA 60.163 44.000 0.00 0.00 0.00 3.10
3230 3679 5.980116 CCTATGATGACACGGTAAAAGAGAG 59.020 44.000 0.00 0.00 0.00 3.20
3231 3680 5.661056 ATGATGACACGGTAAAAGAGAGA 57.339 39.130 0.00 0.00 0.00 3.10
3232 3681 4.806330 TGATGACACGGTAAAAGAGAGAC 58.194 43.478 0.00 0.00 0.00 3.36
3233 3682 3.655276 TGACACGGTAAAAGAGAGACC 57.345 47.619 0.00 0.00 0.00 3.85
3234 3683 2.298163 TGACACGGTAAAAGAGAGACCC 59.702 50.000 0.00 0.00 0.00 4.46
3235 3684 2.561858 GACACGGTAAAAGAGAGACCCT 59.438 50.000 0.00 0.00 0.00 4.34
3236 3685 3.760684 GACACGGTAAAAGAGAGACCCTA 59.239 47.826 0.00 0.00 0.00 3.53
3237 3686 4.351127 ACACGGTAAAAGAGAGACCCTAT 58.649 43.478 0.00 0.00 0.00 2.57
3238 3687 5.513233 ACACGGTAAAAGAGAGACCCTATA 58.487 41.667 0.00 0.00 0.00 1.31
3239 3688 5.954150 ACACGGTAAAAGAGAGACCCTATAA 59.046 40.000 0.00 0.00 0.00 0.98
3240 3689 6.438425 ACACGGTAAAAGAGAGACCCTATAAA 59.562 38.462 0.00 0.00 0.00 1.40
3241 3690 7.038799 ACACGGTAAAAGAGAGACCCTATAAAA 60.039 37.037 0.00 0.00 0.00 1.52
3242 3691 7.491696 CACGGTAAAAGAGAGACCCTATAAAAG 59.508 40.741 0.00 0.00 0.00 2.27
3243 3692 7.398332 ACGGTAAAAGAGAGACCCTATAAAAGA 59.602 37.037 0.00 0.00 0.00 2.52
3244 3693 8.422566 CGGTAAAAGAGAGACCCTATAAAAGAT 58.577 37.037 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.036952 ACCATCAGTTGCAGACTCCG 60.037 55.000 0.00 0.00 36.10 4.63
18 19 2.191128 AACCATCAGTTGCAGACTCC 57.809 50.000 0.00 0.00 37.29 3.85
59 60 2.497273 GCACAAATAAAGGCCCATCACT 59.503 45.455 0.00 0.00 0.00 3.41
68 69 7.770897 ACTATTAGAGGAGTGCACAAATAAAGG 59.229 37.037 21.04 9.45 0.00 3.11
86 87 7.363530 GCCGATATGGTCCACAATACTATTAGA 60.364 40.741 0.00 0.00 41.21 2.10
107 108 1.660167 GGCTTAACCGTTTAGCCGAT 58.340 50.000 21.98 0.00 35.86 4.18
134 135 4.461081 CACTTTAGTAGAGGTCAGAGCACT 59.539 45.833 4.88 4.88 0.00 4.40
160 161 4.023980 ACTAGTGACGAGATGAAATGGGA 58.976 43.478 0.00 0.00 0.00 4.37
295 296 1.140052 CATATGTGGTAGCCCGGTTGA 59.860 52.381 0.00 0.00 0.00 3.18
296 297 1.593196 CATATGTGGTAGCCCGGTTG 58.407 55.000 0.00 0.00 0.00 3.77
364 365 4.320456 CTGAGGGGCGTGCAGTGT 62.320 66.667 0.00 0.00 0.00 3.55
373 374 2.187946 CACCGATGACTGAGGGGC 59.812 66.667 0.00 0.00 0.00 5.80
391 392 2.231380 GGGGAGGCCTGGAAGTTGA 61.231 63.158 12.00 0.00 0.00 3.18
393 394 0.914902 GTAGGGGAGGCCTGGAAGTT 60.915 60.000 12.00 0.00 0.00 2.66
397 398 2.368594 CTGTAGGGGAGGCCTGGA 59.631 66.667 12.00 0.00 0.00 3.86
406 407 1.241315 CGGTTTTGTGGCTGTAGGGG 61.241 60.000 0.00 0.00 0.00 4.79
667 1070 6.265304 AGTTCCCTACTCTAGAGTTCCAATT 58.735 40.000 29.57 11.89 42.54 2.32
686 1089 8.700439 ATTGGATAAGTCTACTCTAGAGTTCC 57.300 38.462 29.57 25.45 43.16 3.62
688 1091 9.802039 CCTATTGGATAAGTCTACTCTAGAGTT 57.198 37.037 29.57 14.34 42.08 3.01
689 1092 8.951541 ACCTATTGGATAAGTCTACTCTAGAGT 58.048 37.037 27.72 27.72 40.04 3.24
690 1093 9.802039 AACCTATTGGATAAGTCTACTCTAGAG 57.198 37.037 18.49 18.49 34.58 2.43
693 1096 9.144298 CCAAACCTATTGGATAAGTCTACTCTA 57.856 37.037 0.00 0.00 42.06 2.43
694 1097 7.624077 ACCAAACCTATTGGATAAGTCTACTCT 59.376 37.037 13.81 0.00 42.06 3.24
695 1098 7.711339 CACCAAACCTATTGGATAAGTCTACTC 59.289 40.741 13.81 0.00 42.06 2.59
696 1099 7.365652 CCACCAAACCTATTGGATAAGTCTACT 60.366 40.741 13.81 0.00 42.06 2.57
697 1100 6.766467 CCACCAAACCTATTGGATAAGTCTAC 59.234 42.308 13.81 0.00 42.06 2.59
698 1101 6.674861 TCCACCAAACCTATTGGATAAGTCTA 59.325 38.462 13.81 0.00 42.06 2.59
699 1102 5.491078 TCCACCAAACCTATTGGATAAGTCT 59.509 40.000 13.81 0.00 42.06 3.24
700 1103 5.751586 TCCACCAAACCTATTGGATAAGTC 58.248 41.667 13.81 0.00 42.06 3.01
701 1104 5.755849 CTCCACCAAACCTATTGGATAAGT 58.244 41.667 13.81 0.00 42.06 2.24
702 1105 4.580580 GCTCCACCAAACCTATTGGATAAG 59.419 45.833 13.81 8.19 42.06 1.73
718 1121 2.328099 CGAAGGCTTGTGCTCCACC 61.328 63.158 3.46 0.00 39.59 4.61
723 1126 0.663153 GTTTGTCGAAGGCTTGTGCT 59.337 50.000 3.46 0.00 39.59 4.40
732 1135 5.204833 CCACACTATGTTTGTTTGTCGAAG 58.795 41.667 0.00 0.00 0.00 3.79
742 1145 6.112734 TGTTATCCTAGCCACACTATGTTTG 58.887 40.000 0.00 0.00 0.00 2.93
1063 1472 1.912043 CAGATCCTTTGGGAGGTCTGT 59.088 52.381 12.50 0.00 45.86 3.41
1118 1527 2.036346 GCAACAAAGGCAAGAAGGTCAT 59.964 45.455 0.00 0.00 0.00 3.06
1224 1633 2.297701 ACATGGACACGAATATTGGGC 58.702 47.619 0.00 0.00 0.00 5.36
1482 1891 4.402793 TCAGACCAGTTGAGCTTCCTATAC 59.597 45.833 0.00 0.00 0.00 1.47
1527 1936 4.373156 AACTAGTTGTTGGAGCTCCATT 57.627 40.909 35.42 20.84 46.97 3.16
1584 1993 0.874390 GCGAGTTTGGTGATGCAAGA 59.126 50.000 0.00 0.00 0.00 3.02
1625 2034 4.482952 ACCGACCAACTAAATAAGGAGG 57.517 45.455 0.00 0.00 0.00 4.30
1642 2051 2.635915 ACCAAGTATCACTTCCAACCGA 59.364 45.455 0.00 0.00 36.03 4.69
1841 2250 3.999663 GCAGACCACTAGCCATGATATTC 59.000 47.826 0.00 0.00 0.00 1.75
1924 2333 0.537653 TGGACCGTGCGGATAAATGA 59.462 50.000 18.16 0.00 38.96 2.57
2161 2578 1.211457 GATCCTGAAGTGCTGATGGGT 59.789 52.381 0.00 0.00 0.00 4.51
2162 2579 1.489649 AGATCCTGAAGTGCTGATGGG 59.510 52.381 0.00 0.00 0.00 4.00
2247 2665 2.473984 GCAAGTTGTAGGTACACGTGAC 59.526 50.000 25.01 15.43 35.64 3.67
2274 2695 9.890629 CCCAATAAGCTTGAGCATATATAGTTA 57.109 33.333 9.86 0.00 45.16 2.24
2275 2696 8.605947 TCCCAATAAGCTTGAGCATATATAGTT 58.394 33.333 9.86 0.00 45.16 2.24
2276 2697 8.150827 TCCCAATAAGCTTGAGCATATATAGT 57.849 34.615 9.86 0.00 45.16 2.12
2277 2698 9.453572 TTTCCCAATAAGCTTGAGCATATATAG 57.546 33.333 9.86 0.00 45.16 1.31
2278 2699 9.979897 ATTTCCCAATAAGCTTGAGCATATATA 57.020 29.630 9.86 0.00 45.16 0.86
2279 2700 8.890410 ATTTCCCAATAAGCTTGAGCATATAT 57.110 30.769 9.86 0.00 45.16 0.86
2284 2705 5.337491 GGAAATTTCCCAATAAGCTTGAGCA 60.337 40.000 24.44 0.00 41.72 4.26
2318 2743 3.095912 TCTCCAAACTCATACCCGAGA 57.904 47.619 0.00 0.00 36.47 4.04
2391 2816 3.349927 ACAAAGTATTAGAAACCGGGGC 58.650 45.455 6.32 0.00 0.00 5.80
2435 2860 3.685272 GGAGGTTCAGCTTAAGCAGTAAC 59.315 47.826 28.39 24.45 45.16 2.50
2615 3049 3.381590 GTGGCCTTTCTGTCAATAATCCC 59.618 47.826 3.32 0.00 0.00 3.85
2649 3083 4.520179 TGCAACTCATCATGTGCTAATCT 58.480 39.130 5.47 0.00 0.00 2.40
2673 3108 7.153985 AGTACGTTAGTTATGCAAACAAGGTA 58.846 34.615 0.00 14.00 0.00 3.08
2689 3124 8.015087 TGAATTCAAAAGCATGAAGTACGTTAG 58.985 33.333 5.45 0.00 42.21 2.34
2698 3133 6.766944 ACCAATTGTGAATTCAAAAGCATGAA 59.233 30.769 16.02 2.66 43.03 2.57
2784 3219 9.910511 CAAAATGCATCTTTATGTAATCTTTGC 57.089 29.630 0.00 0.00 35.38 3.68
2868 3306 4.464597 CGGTTGGGGAAAGGAATAATTTCA 59.535 41.667 1.37 0.00 38.21 2.69
2879 3317 1.743394 GACTAATGCGGTTGGGGAAAG 59.257 52.381 0.00 0.00 0.00 2.62
2880 3318 1.074084 TGACTAATGCGGTTGGGGAAA 59.926 47.619 0.00 0.00 0.00 3.13
2897 3335 9.846248 AACTTTCTCAAAATATATGTTGCTGAC 57.154 29.630 10.38 0.00 0.00 3.51
2921 3359 9.946165 GGCTGTTGTTGGAGTAAATATATAAAC 57.054 33.333 0.00 0.00 0.00 2.01
2923 3361 8.275758 TGGGCTGTTGTTGGAGTAAATATATAA 58.724 33.333 0.00 0.00 0.00 0.98
2925 3363 6.546034 GTGGGCTGTTGTTGGAGTAAATATAT 59.454 38.462 0.00 0.00 0.00 0.86
2941 3379 3.508845 AGTACAATCTTGTGGGCTGTT 57.491 42.857 5.84 0.00 42.31 3.16
2942 3380 4.634012 TTAGTACAATCTTGTGGGCTGT 57.366 40.909 5.84 0.00 42.31 4.40
3012 3456 3.242478 TGTTCATGTCGTTTCGTTGGTTC 60.242 43.478 0.00 0.00 0.00 3.62
3019 3463 1.526887 ACTGCTGTTCATGTCGTTTCG 59.473 47.619 0.00 0.00 0.00 3.46
3022 3467 3.106242 TGTACTGCTGTTCATGTCGTT 57.894 42.857 0.09 0.00 0.00 3.85
3024 3469 2.799978 TGTTGTACTGCTGTTCATGTCG 59.200 45.455 0.09 0.00 0.00 4.35
3186 3635 2.316108 GGCCAGAAAAACAAAGGGAGA 58.684 47.619 0.00 0.00 0.00 3.71
3206 3655 5.902681 TCTCTTTTACCGTGTCATCATAGG 58.097 41.667 0.00 0.00 0.00 2.57
3207 3656 6.693545 GTCTCTCTTTTACCGTGTCATCATAG 59.306 42.308 0.00 0.00 0.00 2.23
3208 3657 6.405508 GGTCTCTCTTTTACCGTGTCATCATA 60.406 42.308 0.00 0.00 0.00 2.15
3209 3658 5.411781 GTCTCTCTTTTACCGTGTCATCAT 58.588 41.667 0.00 0.00 0.00 2.45
3210 3659 4.321750 GGTCTCTCTTTTACCGTGTCATCA 60.322 45.833 0.00 0.00 0.00 3.07
3211 3660 4.174762 GGTCTCTCTTTTACCGTGTCATC 58.825 47.826 0.00 0.00 0.00 2.92
3212 3661 3.056035 GGGTCTCTCTTTTACCGTGTCAT 60.056 47.826 0.00 0.00 33.89 3.06
3213 3662 2.298163 GGGTCTCTCTTTTACCGTGTCA 59.702 50.000 0.00 0.00 33.89 3.58
3214 3663 2.561858 AGGGTCTCTCTTTTACCGTGTC 59.438 50.000 0.00 0.00 33.89 3.67
3215 3664 2.606378 AGGGTCTCTCTTTTACCGTGT 58.394 47.619 0.00 0.00 33.89 4.49
3216 3665 6.461110 TTATAGGGTCTCTCTTTTACCGTG 57.539 41.667 0.00 0.00 33.66 4.94
3217 3666 7.398332 TCTTTTATAGGGTCTCTCTTTTACCGT 59.602 37.037 0.00 0.00 35.65 4.83
3218 3667 7.779073 TCTTTTATAGGGTCTCTCTTTTACCG 58.221 38.462 0.00 0.00 33.89 4.02


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

AutoCloner maintained by Alex Coulton.