Multiple sequence alignment - TraesCS7B01G308600

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 TraesCS7B01G308600 chr7B 100.000 2320 0 0 806 3125 552561303 552558984 0.000000e+00 4285
1 TraesCS7B01G308600 chr7B 87.125 800 101 2 1246 2044 552665648 552666446 0.000000e+00 905
2 TraesCS7B01G308600 chr7B 100.000 408 0 0 1 408 552562108 552561701 0.000000e+00 754
3 TraesCS7B01G308600 chr7D 94.835 1665 66 8 807 2463 519262259 519260607 0.000000e+00 2580
4 TraesCS7B01G308600 chr7D 87.000 800 102 2 1246 2044 519271230 519272028 0.000000e+00 900
5 TraesCS7B01G308600 chr7D 95.610 410 15 3 1 408 519262668 519262260 0.000000e+00 654
6 TraesCS7B01G308600 chr7D 94.271 384 16 4 2633 3015 519259562 519259184 1.620000e-162 582
7 TraesCS7B01G308600 chr7A 94.266 1465 57 10 818 2263 595070128 595068672 0.000000e+00 2215
8 TraesCS7B01G308600 chr7A 87.500 800 98 2 1246 2044 595198838 595199636 0.000000e+00 922
9 TraesCS7B01G308600 chr7A 95.545 404 9 4 1 400 595070542 595070144 3.400000e-179 638
10 TraesCS7B01G308600 chr7A 92.208 385 18 4 2640 3015 595050534 595050153 4.590000e-148 534
11 TraesCS7B01G308600 chr7A 88.073 218 12 6 2249 2463 595067598 595067392 2.410000e-61 246
12 TraesCS7B01G308600 chr7A 81.333 150 10 7 2456 2588 595066565 595066417 4.260000e-19 106
13 TraesCS7B01G308600 chr4D 84.242 679 56 25 2387 3015 8785313 8785990 5.730000e-172 614
14 TraesCS7B01G308600 chr5B 88.182 110 13 0 3016 3125 546918793 546918684 7.030000e-27 132


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 TraesCS7B01G308600 chr7B 552558984 552562108 3124 True 2519.50 4285 100.000000 1 3125 2 chr7B.!!$R1 3124
1 TraesCS7B01G308600 chr7B 552665648 552666446 798 False 905.00 905 87.125000 1246 2044 1 chr7B.!!$F1 798
2 TraesCS7B01G308600 chr7D 519259184 519262668 3484 True 1272.00 2580 94.905333 1 3015 3 chr7D.!!$R1 3014
3 TraesCS7B01G308600 chr7D 519271230 519272028 798 False 900.00 900 87.000000 1246 2044 1 chr7D.!!$F1 798
4 TraesCS7B01G308600 chr7A 595198838 595199636 798 False 922.00 922 87.500000 1246 2044 1 chr7A.!!$F1 798
5 TraesCS7B01G308600 chr7A 595066417 595070542 4125 True 801.25 2215 89.804250 1 2588 4 chr7A.!!$R2 2587
6 TraesCS7B01G308600 chr4D 8785313 8785990 677 False 614.00 614 84.242000 2387 3015 1 chr4D.!!$F1 628

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
824 826 2.193248 CCTCGGAGCAATTCCCCC 59.807 66.667 0.0 0.0 43.63 5.40 F
1263 1278 1.300931 GCGCCTGAAGATCGCCATA 60.301 57.895 0.0 0.0 42.71 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2103 2124 0.108329 ACGGCCGGTCATTAGACAAG 60.108 55.0 31.76 0.0 46.80 3.16 R
3076 5095 0.179145 CTAGGAACAACGTCGCCGAT 60.179 55.0 0.00 0.0 37.88 4.18 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
24 25 7.452880 GTGCCCATGAGCTGATAATAATAAA 57.547 36.000 0.00 0.00 0.00 1.40
25 26 7.885297 GTGCCCATGAGCTGATAATAATAAAA 58.115 34.615 0.00 0.00 0.00 1.52
26 27 8.025445 GTGCCCATGAGCTGATAATAATAAAAG 58.975 37.037 0.00 0.00 0.00 2.27
27 28 7.725397 TGCCCATGAGCTGATAATAATAAAAGT 59.275 33.333 0.00 0.00 0.00 2.66
28 29 8.239998 GCCCATGAGCTGATAATAATAAAAGTC 58.760 37.037 0.00 0.00 0.00 3.01
29 30 9.512588 CCCATGAGCTGATAATAATAAAAGTCT 57.487 33.333 0.00 0.00 0.00 3.24
67 69 4.074259 AGGACGGCGTATGTATGTATGTA 58.926 43.478 14.74 0.00 0.00 2.29
68 70 4.703575 AGGACGGCGTATGTATGTATGTAT 59.296 41.667 14.74 0.00 0.00 2.29
71 73 5.775686 ACGGCGTATGTATGTATGTATGTT 58.224 37.500 12.58 0.00 0.00 2.71
72 74 5.631929 ACGGCGTATGTATGTATGTATGTTG 59.368 40.000 12.58 0.00 0.00 3.33
79 81 9.752961 GTATGTATGTATGTATGTTGGTGTGTA 57.247 33.333 0.00 0.00 0.00 2.90
824 826 2.193248 CCTCGGAGCAATTCCCCC 59.807 66.667 0.00 0.00 43.63 5.40
825 827 2.203070 CTCGGAGCAATTCCCCCG 60.203 66.667 0.00 0.00 43.63 5.73
826 828 3.006728 TCGGAGCAATTCCCCCGT 61.007 61.111 0.00 0.00 43.63 5.28
827 829 2.513897 CGGAGCAATTCCCCCGTC 60.514 66.667 0.00 0.00 43.63 4.79
828 830 2.513897 GGAGCAATTCCCCCGTCG 60.514 66.667 0.00 0.00 40.37 5.12
876 878 2.255252 CTTCTTTTGCCGCCCGTG 59.745 61.111 0.00 0.00 0.00 4.94
877 879 2.517402 TTCTTTTGCCGCCCGTGT 60.517 55.556 0.00 0.00 0.00 4.49
878 880 2.458006 CTTCTTTTGCCGCCCGTGTC 62.458 60.000 0.00 0.00 0.00 3.67
879 881 4.383602 CTTTTGCCGCCCGTGTCG 62.384 66.667 0.00 0.00 0.00 4.35
992 1004 4.577246 CGCCGCTCCCTAGACAGC 62.577 72.222 0.00 0.00 0.00 4.40
996 1008 3.461773 GCTCCCTAGACAGCCGCA 61.462 66.667 0.00 0.00 0.00 5.69
1037 1049 3.637273 GCGACTCCACCAACCCCT 61.637 66.667 0.00 0.00 0.00 4.79
1039 1051 2.214216 CGACTCCACCAACCCCTGA 61.214 63.158 0.00 0.00 0.00 3.86
1079 1091 3.207669 CAGCAGCCTCCAATCCGC 61.208 66.667 0.00 0.00 0.00 5.54
1080 1092 4.845580 AGCAGCCTCCAATCCGCG 62.846 66.667 0.00 0.00 0.00 6.46
1263 1278 1.300931 GCGCCTGAAGATCGCCATA 60.301 57.895 0.00 0.00 42.71 2.74
1387 1402 2.749044 TCGGCGCGTCCTTCTACT 60.749 61.111 4.51 0.00 0.00 2.57
1549 1564 1.492993 GGAGTTCCCCAGGAAGCAGT 61.493 60.000 0.00 0.00 42.88 4.40
1563 1578 1.673665 GCAGTTCCTCAGCCACCTG 60.674 63.158 0.00 0.00 40.54 4.00
1794 1809 4.687215 GAGACGCAGCTGGTGGCA 62.687 66.667 17.12 0.00 44.79 4.92
1857 1872 2.272146 CCCATCGACACCAAGGGG 59.728 66.667 0.00 0.00 41.29 4.79
2171 2192 8.675504 CGTCGTAGTAGGGATAATAATGAATCT 58.324 37.037 0.00 0.00 0.00 2.40
2206 2227 1.592669 CATCGATCTGCCGTGGACC 60.593 63.158 0.00 0.00 0.00 4.46
2243 2264 4.384940 TCCAAAGACATGACGAATTCACA 58.615 39.130 6.22 5.57 36.92 3.58
2293 3405 1.743958 CGTGAGTAGGTAGTGGGTGAG 59.256 57.143 0.00 0.00 0.00 3.51
2337 3449 9.790389 ATGAACTTTTAAACGTTTGTGTGATAA 57.210 25.926 23.46 4.94 0.00 1.75
2338 3450 9.279904 TGAACTTTTAAACGTTTGTGTGATAAG 57.720 29.630 23.46 14.57 0.00 1.73
2339 3451 9.281075 GAACTTTTAAACGTTTGTGTGATAAGT 57.719 29.630 23.46 15.14 0.00 2.24
2427 3539 6.836242 TCAAGGCCTTTTTATTCATTTTGGT 58.164 32.000 17.61 0.00 0.00 3.67
2432 3544 6.658816 GGCCTTTTTATTCATTTTGGTGGAAT 59.341 34.615 0.00 0.00 35.57 3.01
2487 4443 5.163561 CCAGGCGGTACATCAAAAATTACAT 60.164 40.000 0.00 0.00 0.00 2.29
2567 4538 5.047590 ACGTAAATCAAACCCCTGGAAATTC 60.048 40.000 0.00 0.00 0.00 2.17
2598 4587 0.103208 ATGATCTCCAACCGAGCGAC 59.897 55.000 0.00 0.00 38.62 5.19
2635 4653 6.539173 TCCACAATCACAACTTGGTTATAGT 58.461 36.000 0.00 0.00 0.00 2.12
2636 4654 7.001674 TCCACAATCACAACTTGGTTATAGTT 58.998 34.615 0.00 0.00 36.31 2.24
2637 4655 8.158132 TCCACAATCACAACTTGGTTATAGTTA 58.842 33.333 0.00 0.00 34.22 2.24
2638 4656 8.956426 CCACAATCACAACTTGGTTATAGTTAT 58.044 33.333 0.00 0.00 34.22 1.89
2655 4673 4.911390 AGTTATAGCCTTGTTCACTTGCT 58.089 39.130 0.00 0.00 36.11 3.91
2656 4674 6.049955 AGTTATAGCCTTGTTCACTTGCTA 57.950 37.500 0.00 0.00 38.73 3.49
2657 4675 6.109359 AGTTATAGCCTTGTTCACTTGCTAG 58.891 40.000 0.00 0.00 37.88 3.42
2708 4727 0.108567 TCGATCGCCAACGGATCAAA 60.109 50.000 11.09 0.00 40.63 2.69
2724 4743 2.599677 TCAAACGCCCCTTGGTATTTT 58.400 42.857 0.00 0.00 0.00 1.82
2761 4780 4.484537 AGAAACTGACCATCTCCATCTG 57.515 45.455 0.00 0.00 0.00 2.90
2977 4996 8.943594 AACCTCATTATGGGTAAACTTGTTAA 57.056 30.769 5.94 0.00 35.09 2.01
3003 5022 0.977627 TCCAGATCGCCCACATCACT 60.978 55.000 0.00 0.00 0.00 3.41
3020 5039 4.613925 TCACTGAGATTATGATGAGCCC 57.386 45.455 0.00 0.00 0.00 5.19
3021 5040 4.229639 TCACTGAGATTATGATGAGCCCT 58.770 43.478 0.00 0.00 0.00 5.19
3022 5041 4.040095 TCACTGAGATTATGATGAGCCCTG 59.960 45.833 0.00 0.00 0.00 4.45
3023 5042 3.244491 ACTGAGATTATGATGAGCCCTGC 60.244 47.826 0.00 0.00 0.00 4.85
3024 5043 2.977580 TGAGATTATGATGAGCCCTGCT 59.022 45.455 0.00 0.00 43.88 4.24
3025 5044 4.162651 TGAGATTATGATGAGCCCTGCTA 58.837 43.478 0.00 0.00 39.88 3.49
3026 5045 4.781621 TGAGATTATGATGAGCCCTGCTAT 59.218 41.667 0.00 0.00 39.88 2.97
3027 5046 5.960202 TGAGATTATGATGAGCCCTGCTATA 59.040 40.000 0.00 0.00 39.88 1.31
3028 5047 6.127225 TGAGATTATGATGAGCCCTGCTATAC 60.127 42.308 0.00 0.00 39.88 1.47
3029 5048 5.723405 AGATTATGATGAGCCCTGCTATACA 59.277 40.000 0.00 0.00 39.88 2.29
3030 5049 3.977134 ATGATGAGCCCTGCTATACAG 57.023 47.619 0.00 0.00 46.77 2.74
3031 5050 1.345741 TGATGAGCCCTGCTATACAGC 59.654 52.381 0.00 0.00 45.78 4.40
3045 5064 6.010294 GCTATACAGCCGACACTTATTAGA 57.990 41.667 0.00 0.00 42.37 2.10
3046 5065 5.857517 GCTATACAGCCGACACTTATTAGAC 59.142 44.000 0.00 0.00 42.37 2.59
3047 5066 3.146618 ACAGCCGACACTTATTAGACG 57.853 47.619 0.00 0.00 0.00 4.18
3048 5067 2.751259 ACAGCCGACACTTATTAGACGA 59.249 45.455 0.00 0.00 0.00 4.20
3049 5068 3.106672 CAGCCGACACTTATTAGACGAC 58.893 50.000 0.00 0.00 0.00 4.34
3050 5069 2.751259 AGCCGACACTTATTAGACGACA 59.249 45.455 0.00 0.00 0.00 4.35
3051 5070 2.850647 GCCGACACTTATTAGACGACAC 59.149 50.000 0.00 0.00 0.00 3.67
3052 5071 3.096461 CCGACACTTATTAGACGACACG 58.904 50.000 0.00 0.00 0.00 4.49
3053 5072 2.525096 CGACACTTATTAGACGACACGC 59.475 50.000 0.00 0.00 0.00 5.34
3055 5074 1.252015 CACTTATTAGACGACACGCGC 59.748 52.381 5.73 0.00 46.04 6.86
3056 5075 1.135603 ACTTATTAGACGACACGCGCA 60.136 47.619 5.73 0.00 46.04 6.09
3057 5076 1.252015 CTTATTAGACGACACGCGCAC 59.748 52.381 5.73 0.00 46.04 5.34
3058 5077 0.858548 TATTAGACGACACGCGCACG 60.859 55.000 5.73 12.50 46.04 5.34
3059 5078 2.517391 ATTAGACGACACGCGCACGA 62.517 55.000 22.34 4.88 46.04 4.35
3060 5079 2.517391 TTAGACGACACGCGCACGAT 62.517 55.000 22.34 14.17 46.04 3.73
3061 5080 4.178255 GACGACACGCGCACGATG 62.178 66.667 22.34 9.36 46.04 3.84
3062 5081 4.994201 ACGACACGCGCACGATGT 62.994 61.111 22.34 12.47 46.04 3.06
3063 5082 3.762992 CGACACGCGCACGATGTT 61.763 61.111 5.73 0.00 43.93 2.71
3064 5083 2.549282 GACACGCGCACGATGTTT 59.451 55.556 5.73 0.00 43.93 2.83
3065 5084 1.788203 GACACGCGCACGATGTTTG 60.788 57.895 5.73 0.00 43.93 2.93
3066 5085 3.158813 CACGCGCACGATGTTTGC 61.159 61.111 5.73 0.00 43.93 3.68
3067 5086 4.383602 ACGCGCACGATGTTTGCC 62.384 61.111 5.73 0.00 43.93 4.52
3068 5087 4.382114 CGCGCACGATGTTTGCCA 62.382 61.111 8.75 0.00 43.93 4.92
3069 5088 2.179018 GCGCACGATGTTTGCCAT 59.821 55.556 0.30 0.00 36.57 4.40
3070 5089 1.869132 GCGCACGATGTTTGCCATC 60.869 57.895 0.30 0.00 45.50 3.51
3071 5090 1.226379 CGCACGATGTTTGCCATCC 60.226 57.895 0.00 0.00 46.10 3.51
3072 5091 1.882311 GCACGATGTTTGCCATCCA 59.118 52.632 0.00 0.00 46.10 3.41
3073 5092 0.179156 GCACGATGTTTGCCATCCAG 60.179 55.000 0.00 0.00 46.10 3.86
3074 5093 0.179156 CACGATGTTTGCCATCCAGC 60.179 55.000 0.00 0.00 46.10 4.85
3075 5094 1.315257 ACGATGTTTGCCATCCAGCC 61.315 55.000 0.00 0.00 46.10 4.85
3076 5095 1.314534 CGATGTTTGCCATCCAGCCA 61.315 55.000 0.00 0.00 46.10 4.75
3077 5096 1.117150 GATGTTTGCCATCCAGCCAT 58.883 50.000 0.00 0.00 43.59 4.40
3078 5097 1.068127 GATGTTTGCCATCCAGCCATC 59.932 52.381 0.00 0.00 43.59 3.51
3079 5098 1.314534 TGTTTGCCATCCAGCCATCG 61.315 55.000 0.00 0.00 0.00 3.84
3080 5099 1.753848 TTTGCCATCCAGCCATCGG 60.754 57.895 0.00 0.00 0.00 4.18
3097 5116 3.031660 GGCGACGTTGTTCCTAGAG 57.968 57.895 4.37 0.00 0.00 2.43
3098 5117 0.243095 GGCGACGTTGTTCCTAGAGT 59.757 55.000 4.37 0.00 0.00 3.24
3099 5118 1.470098 GGCGACGTTGTTCCTAGAGTA 59.530 52.381 4.37 0.00 0.00 2.59
3100 5119 2.098770 GGCGACGTTGTTCCTAGAGTAT 59.901 50.000 4.37 0.00 0.00 2.12
3101 5120 3.361414 GCGACGTTGTTCCTAGAGTATC 58.639 50.000 4.37 0.00 0.00 2.24
3116 5135 3.818180 GAGTATCTTACGGTGGAGAGGA 58.182 50.000 0.00 0.00 0.00 3.71
3117 5136 4.205587 GAGTATCTTACGGTGGAGAGGAA 58.794 47.826 0.00 0.00 0.00 3.36
3118 5137 4.805744 AGTATCTTACGGTGGAGAGGAAT 58.194 43.478 0.00 0.00 0.00 3.01
3119 5138 5.209659 AGTATCTTACGGTGGAGAGGAATT 58.790 41.667 0.00 0.00 0.00 2.17
3120 5139 6.371278 AGTATCTTACGGTGGAGAGGAATTA 58.629 40.000 0.00 0.00 0.00 1.40
3121 5140 7.011382 AGTATCTTACGGTGGAGAGGAATTAT 58.989 38.462 0.00 0.00 0.00 1.28
3122 5141 5.786264 TCTTACGGTGGAGAGGAATTATC 57.214 43.478 0.00 0.00 0.00 1.75
3123 5142 4.277672 TCTTACGGTGGAGAGGAATTATCG 59.722 45.833 0.00 0.00 0.00 2.92
3124 5143 1.687123 ACGGTGGAGAGGAATTATCGG 59.313 52.381 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 8.369424 GTCCTCCTCTTTTAGACTTTAGACTTT 58.631 37.037 0.00 0.00 0.00 2.66
24 25 7.309316 CGTCCTCCTCTTTTAGACTTTAGACTT 60.309 40.741 0.00 0.00 0.00 3.01
25 26 6.151480 CGTCCTCCTCTTTTAGACTTTAGACT 59.849 42.308 0.00 0.00 0.00 3.24
26 27 6.324042 CGTCCTCCTCTTTTAGACTTTAGAC 58.676 44.000 0.00 0.00 0.00 2.59
27 28 5.418209 CCGTCCTCCTCTTTTAGACTTTAGA 59.582 44.000 0.00 0.00 0.00 2.10
28 29 5.652518 CCGTCCTCCTCTTTTAGACTTTAG 58.347 45.833 0.00 0.00 0.00 1.85
29 30 4.081807 GCCGTCCTCCTCTTTTAGACTTTA 60.082 45.833 0.00 0.00 0.00 1.85
30 31 3.306849 GCCGTCCTCCTCTTTTAGACTTT 60.307 47.826 0.00 0.00 0.00 2.66
33 34 1.469423 CGCCGTCCTCCTCTTTTAGAC 60.469 57.143 0.00 0.00 0.00 2.59
34 35 0.815734 CGCCGTCCTCCTCTTTTAGA 59.184 55.000 0.00 0.00 0.00 2.10
35 36 0.531200 ACGCCGTCCTCCTCTTTTAG 59.469 55.000 0.00 0.00 0.00 1.85
67 69 4.783227 AGGAGAAGGTATACACACCAACAT 59.217 41.667 5.01 0.00 41.40 2.71
68 70 4.164981 AGGAGAAGGTATACACACCAACA 58.835 43.478 5.01 0.00 41.40 3.33
71 73 4.164981 ACAAGGAGAAGGTATACACACCA 58.835 43.478 5.01 0.00 41.40 4.17
72 74 4.382793 GGACAAGGAGAAGGTATACACACC 60.383 50.000 5.01 4.14 39.02 4.16
79 81 4.226168 CCAAGAAGGACAAGGAGAAGGTAT 59.774 45.833 0.00 0.00 41.22 2.73
805 807 2.193248 GGGAATTGCTCCGAGGGG 59.807 66.667 0.00 0.00 46.51 4.79
810 812 2.513897 GACGGGGGAATTGCTCCG 60.514 66.667 33.74 33.74 46.51 4.63
812 814 3.202706 GCGACGGGGGAATTGCTC 61.203 66.667 0.00 0.00 0.00 4.26
985 997 0.744414 GCCATTCTTGCGGCTGTCTA 60.744 55.000 0.00 0.00 45.29 2.59
1061 1073 3.207669 CGGATTGGAGGCTGCTGC 61.208 66.667 7.74 7.10 38.76 5.25
1067 1079 4.467084 TGTCCGCGGATTGGAGGC 62.467 66.667 33.58 17.12 35.82 4.70
1079 1091 4.189188 CCGCCGTAGACCTGTCCG 62.189 72.222 0.00 0.00 0.00 4.79
1080 1092 4.509737 GCCGCCGTAGACCTGTCC 62.510 72.222 0.00 0.00 0.00 4.02
1263 1278 1.228154 GAAGTTGCCGAACCCCACT 60.228 57.895 0.00 0.00 31.81 4.00
1549 1564 3.650950 GGGCAGGTGGCTGAGGAA 61.651 66.667 3.28 0.00 44.01 3.36
1559 1574 3.382832 CGAAGTCCTCGGGCAGGT 61.383 66.667 0.00 0.00 44.20 4.00
1857 1872 2.277373 CGGAGCAGCGTCTCGTAC 60.277 66.667 2.89 0.00 33.98 3.67
2103 2124 0.108329 ACGGCCGGTCATTAGACAAG 60.108 55.000 31.76 0.00 46.80 3.16
2151 2172 7.726033 AGCGAGATTCATTATTATCCCTACT 57.274 36.000 0.00 0.00 0.00 2.57
2171 2192 3.804601 TGTCAGCGACATAAAGCGA 57.195 47.368 7.20 0.00 37.67 4.93
2215 2236 3.334691 TCGTCATGTCTTTGGATGGAAC 58.665 45.455 0.00 0.00 0.00 3.62
2243 2264 1.344942 GCTGCTCGACACGATTCGTT 61.345 55.000 9.40 1.29 38.32 3.85
2274 3383 1.477295 GCTCACCCACTACCTACTCAC 59.523 57.143 0.00 0.00 0.00 3.51
2293 3405 1.133790 CATTGCCCTTCTAGCACAAGC 59.866 52.381 0.00 0.00 40.69 4.01
2346 3458 6.037500 GCTCATCTACACAATGCTGACAATAA 59.962 38.462 0.00 0.00 0.00 1.40
2487 4443 6.596309 TGCTCTTCTGATAGACTCTTTTCA 57.404 37.500 0.00 0.00 0.00 2.69
2598 4587 2.672961 TTGTGGAGTAGAAGCGATGG 57.327 50.000 0.00 0.00 0.00 3.51
2635 4653 6.049955 ACTAGCAAGTGAACAAGGCTATAA 57.950 37.500 0.00 0.00 36.57 0.98
2636 4654 5.677319 ACTAGCAAGTGAACAAGGCTATA 57.323 39.130 0.00 0.00 36.57 1.31
2637 4655 4.559862 ACTAGCAAGTGAACAAGGCTAT 57.440 40.909 0.00 0.00 36.57 2.97
2638 4656 4.527038 ACTACTAGCAAGTGAACAAGGCTA 59.473 41.667 0.00 0.00 36.36 3.93
2639 4657 2.938956 ACTAGCAAGTGAACAAGGCT 57.061 45.000 0.00 0.00 38.55 4.58
2640 4658 3.665190 ACTACTAGCAAGTGAACAAGGC 58.335 45.455 0.00 0.00 36.36 4.35
2655 4673 5.812286 TGTCGGGATGCTATGATACTACTA 58.188 41.667 0.00 0.00 0.00 1.82
2656 4674 4.663334 TGTCGGGATGCTATGATACTACT 58.337 43.478 0.00 0.00 0.00 2.57
2657 4675 5.344066 CATGTCGGGATGCTATGATACTAC 58.656 45.833 0.00 0.00 0.00 2.73
2724 4743 5.043737 AGTTTCTTACTGGCAGGTGTAAA 57.956 39.130 20.34 10.83 35.19 2.01
2752 4771 3.118261 GGAATAGTTGTGCCAGATGGAGA 60.118 47.826 2.18 0.00 37.39 3.71
2761 4780 1.092348 GGAACGGGAATAGTTGTGCC 58.908 55.000 0.00 0.00 31.14 5.01
2854 4873 1.277557 GAGACCAGTTCAGAGGCACAT 59.722 52.381 0.00 0.00 0.00 3.21
2977 4996 2.060980 GGGCGATCTGGACCAGTCT 61.061 63.158 21.06 9.99 34.16 3.24
3003 5022 2.977580 AGCAGGGCTCATCATAATCTCA 59.022 45.455 0.00 0.00 30.62 3.27
3023 5042 6.073385 TCGTCTAATAAGTGTCGGCTGTATAG 60.073 42.308 0.00 0.00 0.00 1.31
3024 5043 5.759763 TCGTCTAATAAGTGTCGGCTGTATA 59.240 40.000 0.00 0.00 0.00 1.47
3025 5044 4.577693 TCGTCTAATAAGTGTCGGCTGTAT 59.422 41.667 0.00 0.00 0.00 2.29
3026 5045 3.940852 TCGTCTAATAAGTGTCGGCTGTA 59.059 43.478 0.00 0.00 0.00 2.74
3027 5046 2.751259 TCGTCTAATAAGTGTCGGCTGT 59.249 45.455 0.00 0.00 0.00 4.40
3028 5047 3.106672 GTCGTCTAATAAGTGTCGGCTG 58.893 50.000 0.00 0.00 0.00 4.85
3029 5048 2.751259 TGTCGTCTAATAAGTGTCGGCT 59.249 45.455 0.00 0.00 0.00 5.52
3030 5049 2.850647 GTGTCGTCTAATAAGTGTCGGC 59.149 50.000 0.00 0.00 0.00 5.54
3031 5050 3.096461 CGTGTCGTCTAATAAGTGTCGG 58.904 50.000 0.00 0.00 0.00 4.79
3032 5051 2.525096 GCGTGTCGTCTAATAAGTGTCG 59.475 50.000 0.00 0.00 0.00 4.35
3033 5052 2.525096 CGCGTGTCGTCTAATAAGTGTC 59.475 50.000 0.00 0.00 0.00 3.67
3034 5053 2.512885 CGCGTGTCGTCTAATAAGTGT 58.487 47.619 0.00 0.00 0.00 3.55
3035 5054 1.252015 GCGCGTGTCGTCTAATAAGTG 59.748 52.381 8.43 0.00 41.07 3.16
3036 5055 1.135603 TGCGCGTGTCGTCTAATAAGT 60.136 47.619 8.43 0.00 41.07 2.24
3037 5056 1.252015 GTGCGCGTGTCGTCTAATAAG 59.748 52.381 8.43 0.00 41.07 1.73
3038 5057 1.261989 GTGCGCGTGTCGTCTAATAA 58.738 50.000 8.43 0.00 41.07 1.40
3039 5058 0.858548 CGTGCGCGTGTCGTCTAATA 60.859 55.000 12.43 0.00 41.07 0.98
3040 5059 2.150218 CGTGCGCGTGTCGTCTAAT 61.150 57.895 12.43 0.00 41.07 1.73
3041 5060 2.517391 ATCGTGCGCGTGTCGTCTAA 62.517 55.000 20.50 0.00 41.07 2.10
3042 5061 3.030763 ATCGTGCGCGTGTCGTCTA 62.031 57.895 20.50 0.00 41.07 2.59
3043 5062 4.400109 ATCGTGCGCGTGTCGTCT 62.400 61.111 20.50 0.52 41.07 4.18
3044 5063 4.178255 CATCGTGCGCGTGTCGTC 62.178 66.667 20.50 0.00 41.07 4.20
3045 5064 4.994201 ACATCGTGCGCGTGTCGT 62.994 61.111 20.50 9.62 41.07 4.34
3046 5065 3.276409 AAACATCGTGCGCGTGTCG 62.276 57.895 20.50 10.61 39.49 4.35
3047 5066 1.788203 CAAACATCGTGCGCGTGTC 60.788 57.895 20.50 0.00 39.49 3.67
3048 5067 2.248140 CAAACATCGTGCGCGTGT 59.752 55.556 20.50 18.96 39.49 4.49
3049 5068 3.158813 GCAAACATCGTGCGCGTG 61.159 61.111 20.50 18.32 39.49 5.34
3050 5069 4.383602 GGCAAACATCGTGCGCGT 62.384 61.111 20.50 4.13 43.18 6.01
3051 5070 3.665825 ATGGCAAACATCGTGCGCG 62.666 57.895 14.79 14.79 43.18 6.86
3052 5071 1.869132 GATGGCAAACATCGTGCGC 60.869 57.895 0.00 0.00 45.87 6.09
3053 5072 4.365287 GATGGCAAACATCGTGCG 57.635 55.556 0.00 0.00 45.87 5.34
3073 5092 3.362851 GAACAACGTCGCCGATGGC 62.363 63.158 11.52 0.00 46.75 4.40
3074 5093 2.736682 GGAACAACGTCGCCGATGG 61.737 63.158 11.52 0.00 40.74 3.51
3075 5094 0.457166 TAGGAACAACGTCGCCGATG 60.457 55.000 4.46 4.46 42.00 3.84
3076 5095 0.179145 CTAGGAACAACGTCGCCGAT 60.179 55.000 0.00 0.00 37.88 4.18
3077 5096 1.210931 CTAGGAACAACGTCGCCGA 59.789 57.895 0.00 0.00 37.88 5.54
3078 5097 0.797249 CTCTAGGAACAACGTCGCCG 60.797 60.000 0.00 0.00 40.83 6.46
3079 5098 0.243095 ACTCTAGGAACAACGTCGCC 59.757 55.000 0.00 0.00 0.00 5.54
3080 5099 2.907910 TACTCTAGGAACAACGTCGC 57.092 50.000 0.00 0.00 0.00 5.19
3081 5100 4.879104 AGATACTCTAGGAACAACGTCG 57.121 45.455 0.00 0.00 0.00 5.12
3082 5101 6.190962 CGTAAGATACTCTAGGAACAACGTC 58.809 44.000 0.00 0.00 43.02 4.34
3083 5102 5.065731 CCGTAAGATACTCTAGGAACAACGT 59.934 44.000 0.00 0.00 43.02 3.99
3084 5103 5.065731 ACCGTAAGATACTCTAGGAACAACG 59.934 44.000 0.00 0.00 43.02 4.10
3085 5104 6.264088 CACCGTAAGATACTCTAGGAACAAC 58.736 44.000 0.00 0.00 43.02 3.32
3086 5105 5.359009 CCACCGTAAGATACTCTAGGAACAA 59.641 44.000 0.00 0.00 43.02 2.83
3087 5106 4.885907 CCACCGTAAGATACTCTAGGAACA 59.114 45.833 0.00 0.00 43.02 3.18
3088 5107 5.128919 TCCACCGTAAGATACTCTAGGAAC 58.871 45.833 0.00 0.00 43.02 3.62
3089 5108 5.131642 TCTCCACCGTAAGATACTCTAGGAA 59.868 44.000 0.00 0.00 43.02 3.36
3090 5109 4.657504 TCTCCACCGTAAGATACTCTAGGA 59.342 45.833 0.00 0.00 43.02 2.94
3091 5110 4.970711 TCTCCACCGTAAGATACTCTAGG 58.029 47.826 0.00 0.00 43.02 3.02
3092 5111 4.998672 CCTCTCCACCGTAAGATACTCTAG 59.001 50.000 0.00 0.00 43.02 2.43
3093 5112 4.657504 TCCTCTCCACCGTAAGATACTCTA 59.342 45.833 0.00 0.00 43.02 2.43
3094 5113 3.458857 TCCTCTCCACCGTAAGATACTCT 59.541 47.826 0.00 0.00 43.02 3.24
3095 5114 3.818180 TCCTCTCCACCGTAAGATACTC 58.182 50.000 0.00 0.00 43.02 2.59
3096 5115 3.947612 TCCTCTCCACCGTAAGATACT 57.052 47.619 0.00 0.00 43.02 2.12
3097 5116 5.532664 AATTCCTCTCCACCGTAAGATAC 57.467 43.478 0.00 0.00 43.02 2.24
3098 5117 6.150641 CGATAATTCCTCTCCACCGTAAGATA 59.849 42.308 0.00 0.00 43.02 1.98
3099 5118 5.047943 CGATAATTCCTCTCCACCGTAAGAT 60.048 44.000 0.00 0.00 43.02 2.40
3100 5119 4.277672 CGATAATTCCTCTCCACCGTAAGA 59.722 45.833 0.00 0.00 43.02 2.10
3101 5120 4.547532 CGATAATTCCTCTCCACCGTAAG 58.452 47.826 0.00 0.00 0.00 2.34
3102 5121 3.319972 CCGATAATTCCTCTCCACCGTAA 59.680 47.826 0.00 0.00 0.00 3.18
3103 5122 2.889045 CCGATAATTCCTCTCCACCGTA 59.111 50.000 0.00 0.00 0.00 4.02
3104 5123 1.687123 CCGATAATTCCTCTCCACCGT 59.313 52.381 0.00 0.00 0.00 4.83
3105 5124 2.440539 CCGATAATTCCTCTCCACCG 57.559 55.000 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.