Multiple sequence alignment - TraesCS1B01G474600

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 TraesCS1B01G474600 chr1B 100.000 3574 0 0 1 3574 683320498 683316925 0.000000e+00 6601.0
1 TraesCS1B01G474600 chr1B 89.788 2076 129 32 801 2850 683266096 683264078 0.000000e+00 2582.0
2 TraesCS1B01G474600 chr1B 79.119 1475 184 61 821 2243 45442176 45443578 0.000000e+00 904.0
3 TraesCS1B01G474600 chr1B 79.526 1182 157 48 1099 2243 45604893 45603760 0.000000e+00 763.0
4 TraesCS1B01G474600 chr1B 79.372 1178 166 43 1099 2243 45487230 45486097 0.000000e+00 758.0
5 TraesCS1B01G474600 chr1B 79.407 1180 160 46 1099 2243 45629587 45628456 0.000000e+00 756.0
6 TraesCS1B01G474600 chr1B 78.431 1020 137 48 1259 2243 45547451 45546480 3.970000e-164 588.0
7 TraesCS1B01G474600 chr1B 78.933 731 99 24 1544 2243 45709565 45710271 2.530000e-121 446.0
8 TraesCS1B01G474600 chr1B 82.887 485 62 12 821 1296 45499359 45499831 1.980000e-112 416.0
9 TraesCS1B01G474600 chr1B 87.465 359 39 1 1099 1457 45513430 45513078 3.320000e-110 409.0
10 TraesCS1B01G474600 chr1B 75.754 763 99 44 1299 2021 45571787 45571071 4.480000e-79 305.0
11 TraesCS1B01G474600 chr1B 98.171 164 3 0 2964 3127 683263986 683263823 1.620000e-73 287.0
12 TraesCS1B01G474600 chr1B 93.333 180 9 2 3121 3298 683259068 683258890 2.740000e-66 263.0
13 TraesCS1B01G474600 chr1B 85.714 245 17 8 3330 3574 683258732 683258506 3.560000e-60 243.0
14 TraesCS1B01G474600 chr1B 93.333 150 6 2 2746 2891 683264078 683263929 6.010000e-53 219.0
15 TraesCS1B01G474600 chr1B 95.327 107 5 0 3322 3428 683258899 683258793 1.710000e-38 171.0
16 TraesCS1B01G474600 chr1B 76.324 321 44 13 1732 2021 45512466 45512147 3.720000e-30 143.0
17 TraesCS1B01G474600 chr1B 76.324 321 44 13 1732 2021 45721744 45721425 3.720000e-30 143.0
18 TraesCS1B01G474600 chr1B 93.750 64 3 1 2829 2891 683317541 683317478 1.060000e-15 95.3
19 TraesCS1B01G474600 chr1B 93.750 64 3 1 2958 3020 683317670 683317607 1.060000e-15 95.3
20 TraesCS1B01G474600 chr1D 91.178 2811 165 25 804 3574 490503547 490500780 0.000000e+00 3740.0
21 TraesCS1B01G474600 chr1D 80.000 1285 175 45 998 2243 28173955 28172714 0.000000e+00 874.0
22 TraesCS1B01G474600 chr1D 96.875 64 1 1 2829 2891 490501395 490501332 4.880000e-19 106.0
23 TraesCS1B01G474600 chr1D 90.000 60 2 3 2958 3013 490501512 490501453 1.380000e-09 75.0
24 TraesCS1B01G474600 chr1A 91.858 1965 131 17 960 2913 588692889 588690943 0.000000e+00 2715.0
25 TraesCS1B01G474600 chr1A 82.030 857 87 30 998 1833 29155971 29155161 0.000000e+00 667.0
26 TraesCS1B01G474600 chr1A 86.888 511 48 8 947 1451 29122941 29123438 4.030000e-154 555.0
27 TraesCS1B01G474600 chr1A 78.638 323 49 9 2257 2564 14554775 14555092 2.810000e-46 196.0
28 TraesCS1B01G474600 chr1A 90.000 60 2 3 2958 3013 588691031 588690972 1.380000e-09 75.0
29 TraesCS1B01G474600 chr1A 97.619 42 1 0 2925 2966 588690947 588690906 4.950000e-09 73.1
30 TraesCS1B01G474600 chr2A 93.078 809 45 2 2 799 692035426 692034618 0.000000e+00 1173.0
31 TraesCS1B01G474600 chr5A 92.336 809 49 3 2 799 535617465 535618271 0.000000e+00 1138.0
32 TraesCS1B01G474600 chr5A 92.213 809 52 2 2 799 471715746 471714938 0.000000e+00 1134.0
33 TraesCS1B01G474600 chr6A 91.595 809 57 2 2 799 216012351 216013159 0.000000e+00 1107.0
34 TraesCS1B01G474600 chr4A 91.563 806 57 2 5 799 70744920 70744115 0.000000e+00 1101.0
35 TraesCS1B01G474600 chr4A 91.471 809 58 3 2 799 707051518 707052326 0.000000e+00 1101.0
36 TraesCS1B01G474600 chr4A 91.191 806 60 2 5 799 599484809 599484004 0.000000e+00 1085.0
37 TraesCS1B01G474600 chr3A 91.471 809 58 2 2 799 472424524 472425332 0.000000e+00 1101.0
38 TraesCS1B01G474600 chr6B 90.977 809 62 2 2 799 207168886 207168078 0.000000e+00 1079.0
39 TraesCS1B01G474600 chr6B 90.594 808 66 2 2 799 103443690 103444497 0.000000e+00 1062.0
40 TraesCS1B01G474600 chr7B 85.625 800 104 4 7 795 61616572 61615773 0.000000e+00 830.0
41 TraesCS1B01G474600 chr3B 84.644 801 110 6 5 793 775437246 775436447 0.000000e+00 785.0
42 TraesCS1B01G474600 chrUn 76.755 826 111 41 1232 2021 436831933 436832713 1.560000e-103 387.0


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 TraesCS1B01G474600 chr1B 683316925 683320498 3573 True 2263.866667 6601 95.833333 1 3574 3 chr1B.!!$R10 3573
1 TraesCS1B01G474600 chr1B 683263823 683266096 2273 True 1029.333333 2582 93.764000 801 3127 3 chr1B.!!$R9 2326
2 TraesCS1B01G474600 chr1B 45442176 45443578 1402 False 904.000000 904 79.119000 821 2243 1 chr1B.!!$F1 1422
3 TraesCS1B01G474600 chr1B 45603760 45604893 1133 True 763.000000 763 79.526000 1099 2243 1 chr1B.!!$R4 1144
4 TraesCS1B01G474600 chr1B 45486097 45487230 1133 True 758.000000 758 79.372000 1099 2243 1 chr1B.!!$R1 1144
5 TraesCS1B01G474600 chr1B 45628456 45629587 1131 True 756.000000 756 79.407000 1099 2243 1 chr1B.!!$R5 1144
6 TraesCS1B01G474600 chr1B 45546480 45547451 971 True 588.000000 588 78.431000 1259 2243 1 chr1B.!!$R2 984
7 TraesCS1B01G474600 chr1B 45709565 45710271 706 False 446.000000 446 78.933000 1544 2243 1 chr1B.!!$F3 699
8 TraesCS1B01G474600 chr1B 45571071 45571787 716 True 305.000000 305 75.754000 1299 2021 1 chr1B.!!$R3 722
9 TraesCS1B01G474600 chr1B 45512147 45513430 1283 True 276.000000 409 81.894500 1099 2021 2 chr1B.!!$R7 922
10 TraesCS1B01G474600 chr1B 683258506 683259068 562 True 225.666667 263 91.458000 3121 3574 3 chr1B.!!$R8 453
11 TraesCS1B01G474600 chr1D 490500780 490503547 2767 True 1307.000000 3740 92.684333 804 3574 3 chr1D.!!$R2 2770
12 TraesCS1B01G474600 chr1D 28172714 28173955 1241 True 874.000000 874 80.000000 998 2243 1 chr1D.!!$R1 1245
13 TraesCS1B01G474600 chr1A 588690906 588692889 1983 True 954.366667 2715 93.159000 960 3013 3 chr1A.!!$R2 2053
14 TraesCS1B01G474600 chr1A 29155161 29155971 810 True 667.000000 667 82.030000 998 1833 1 chr1A.!!$R1 835
15 TraesCS1B01G474600 chr2A 692034618 692035426 808 True 1173.000000 1173 93.078000 2 799 1 chr2A.!!$R1 797
16 TraesCS1B01G474600 chr5A 535617465 535618271 806 False 1138.000000 1138 92.336000 2 799 1 chr5A.!!$F1 797
17 TraesCS1B01G474600 chr5A 471714938 471715746 808 True 1134.000000 1134 92.213000 2 799 1 chr5A.!!$R1 797
18 TraesCS1B01G474600 chr6A 216012351 216013159 808 False 1107.000000 1107 91.595000 2 799 1 chr6A.!!$F1 797
19 TraesCS1B01G474600 chr4A 70744115 70744920 805 True 1101.000000 1101 91.563000 5 799 1 chr4A.!!$R1 794
20 TraesCS1B01G474600 chr4A 707051518 707052326 808 False 1101.000000 1101 91.471000 2 799 1 chr4A.!!$F1 797
21 TraesCS1B01G474600 chr4A 599484004 599484809 805 True 1085.000000 1085 91.191000 5 799 1 chr4A.!!$R2 794
22 TraesCS1B01G474600 chr3A 472424524 472425332 808 False 1101.000000 1101 91.471000 2 799 1 chr3A.!!$F1 797
23 TraesCS1B01G474600 chr6B 207168078 207168886 808 True 1079.000000 1079 90.977000 2 799 1 chr6B.!!$R1 797
24 TraesCS1B01G474600 chr6B 103443690 103444497 807 False 1062.000000 1062 90.594000 2 799 1 chr6B.!!$F1 797
25 TraesCS1B01G474600 chr7B 61615773 61616572 799 True 830.000000 830 85.625000 7 795 1 chr7B.!!$R1 788
26 TraesCS1B01G474600 chr3B 775436447 775437246 799 True 785.000000 785 84.644000 5 793 1 chr3B.!!$R1 788
27 TraesCS1B01G474600 chrUn 436831933 436832713 780 False 387.000000 387 76.755000 1232 2021 1 chrUn.!!$F1 789

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
807 820 0.389948 CTCTTAGTTCCGCGTTGGCT 60.39 55.0 4.92 0.0 37.8 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2790 3365 0.470766 TACAGGCCGACAAACTTGGT 59.529 50.0 0.0 0.0 0.0 3.67 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
30 31 4.935352 AAAGCCATTCTGTTGTGCTTTA 57.065 36.364 6.03 0.00 46.95 1.85
64 65 5.230182 GGGGCTTAAAATCAACTTTCACAG 58.770 41.667 0.00 0.00 0.00 3.66
128 129 2.100749 GCGGGTAGCCAATTTGCTTAAT 59.899 45.455 9.59 0.00 42.75 1.40
163 164 2.363359 AGTTTCCGTTCACTTACCTCGT 59.637 45.455 0.00 0.00 0.00 4.18
237 238 1.122632 TAAGGTTGCGGACAGGGTCA 61.123 55.000 0.00 0.00 33.68 4.02
333 334 0.671251 GTTCGCCATGGGTTTGTTCA 59.329 50.000 15.13 0.00 0.00 3.18
346 347 0.608856 TTGTTCATGCTGGCGGATGT 60.609 50.000 0.00 0.00 39.67 3.06
421 422 5.683681 GGGACCTAAACGGAAATACCATAA 58.316 41.667 0.00 0.00 38.90 1.90
577 579 2.618053 CTCCTCCGTGCGAAATACTTT 58.382 47.619 0.00 0.00 0.00 2.66
579 581 2.232941 TCCTCCGTGCGAAATACTTTCT 59.767 45.455 0.00 0.00 37.52 2.52
625 628 2.606519 CGTGGGTCCCCCTTCTGA 60.607 66.667 5.13 0.00 45.70 3.27
762 775 4.081420 CACCAACTCTACTCCATAGCTGTT 60.081 45.833 0.00 0.00 31.69 3.16
795 808 2.922740 TGGTTGTTTCGGCTCTTAGT 57.077 45.000 0.00 0.00 0.00 2.24
799 812 2.074547 TGTTTCGGCTCTTAGTTCCG 57.925 50.000 8.15 8.15 44.16 4.30
806 819 1.967597 GCTCTTAGTTCCGCGTTGGC 61.968 60.000 4.92 0.00 37.80 4.52
807 820 0.389948 CTCTTAGTTCCGCGTTGGCT 60.390 55.000 4.92 0.00 37.80 4.75
811 824 2.501223 TAGTTCCGCGTTGGCTCAGG 62.501 60.000 4.92 0.00 37.80 3.86
840 853 1.741327 TAAGTATGGACGGCCCGCTC 61.741 60.000 3.83 0.00 37.93 5.03
846 860 4.373116 GACGGCCCGCTCTTGTCA 62.373 66.667 1.23 0.00 0.00 3.58
1025 1047 3.541713 GTCGGAGGCTAGCCCTGG 61.542 72.222 30.42 18.60 46.60 4.45
1152 1177 4.496336 GGCATCGCCTCAAGCCCT 62.496 66.667 0.00 0.00 46.69 5.19
1319 1344 1.754745 GTGACTTCCTGCTCACCCA 59.245 57.895 0.00 0.00 32.15 4.51
1419 1447 1.553704 GTCTACAACCCCGTCTCCATT 59.446 52.381 0.00 0.00 0.00 3.16
1505 1557 2.507992 CTGCTTGCTCGACCTCGG 60.508 66.667 0.00 0.00 40.29 4.63
1530 1582 1.842562 CATGGAGATGGAGAAGGTGGT 59.157 52.381 0.00 0.00 0.00 4.16
1566 1618 2.899838 GTGGTCACCGTGCAGCAA 60.900 61.111 0.00 0.00 0.00 3.91
1582 1634 2.048127 AAGAGCGAGACGGCCAAC 60.048 61.111 2.24 0.00 0.00 3.77
1603 1655 0.104855 GATGCGAGCCATGGAGTACA 59.895 55.000 18.40 8.23 33.29 2.90
1604 1656 0.541392 ATGCGAGCCATGGAGTACAA 59.459 50.000 18.40 0.00 31.48 2.41
1608 1660 1.204704 CGAGCCATGGAGTACAACTCA 59.795 52.381 18.40 0.00 46.79 3.41
1650 1705 3.702048 CCGTGGGTGGACGTGGAT 61.702 66.667 0.00 0.00 37.66 3.41
1793 2238 2.355108 CCATGGTGTTCTCAATCGTCCT 60.355 50.000 2.57 0.00 0.00 3.85
1959 2438 3.092301 GGAGAAGCAAAGCCAAATAGGT 58.908 45.455 0.00 0.00 40.61 3.08
2177 2665 5.906113 ACTTCTACGTGTGAGAGATCAAT 57.094 39.130 0.00 0.00 0.00 2.57
2185 2673 5.039984 CGTGTGAGAGATCAATACCTCAAG 58.960 45.833 0.00 0.00 37.40 3.02
2261 2787 5.964758 TGTTGCAGACAATTTGAAGAAACT 58.035 33.333 2.79 0.00 38.27 2.66
2262 2788 5.806502 TGTTGCAGACAATTTGAAGAAACTG 59.193 36.000 2.79 0.00 38.27 3.16
2263 2789 5.833406 TGCAGACAATTTGAAGAAACTGA 57.167 34.783 2.79 0.00 0.00 3.41
2264 2790 6.206395 TGCAGACAATTTGAAGAAACTGAA 57.794 33.333 2.79 0.00 0.00 3.02
2265 2791 6.808829 TGCAGACAATTTGAAGAAACTGAAT 58.191 32.000 2.79 0.00 0.00 2.57
2266 2792 7.267128 TGCAGACAATTTGAAGAAACTGAATT 58.733 30.769 2.79 0.00 0.00 2.17
2267 2793 8.412456 TGCAGACAATTTGAAGAAACTGAATTA 58.588 29.630 2.79 0.00 0.00 1.40
2268 2794 8.694394 GCAGACAATTTGAAGAAACTGAATTAC 58.306 33.333 2.79 0.00 0.00 1.89
2269 2795 9.956720 CAGACAATTTGAAGAAACTGAATTACT 57.043 29.630 2.79 0.00 0.00 2.24
2271 2797 9.399403 GACAATTTGAAGAAACTGAATTACTCC 57.601 33.333 2.79 0.00 0.00 3.85
2272 2798 8.912988 ACAATTTGAAGAAACTGAATTACTCCA 58.087 29.630 2.79 0.00 0.00 3.86
2273 2799 9.748708 CAATTTGAAGAAACTGAATTACTCCAA 57.251 29.630 0.00 0.00 0.00 3.53
2275 2801 9.750125 ATTTGAAGAAACTGAATTACTCCAAAC 57.250 29.630 0.00 0.00 0.00 2.93
2276 2802 8.519799 TTGAAGAAACTGAATTACTCCAAACT 57.480 30.769 0.00 0.00 0.00 2.66
2277 2803 9.621629 TTGAAGAAACTGAATTACTCCAAACTA 57.378 29.630 0.00 0.00 0.00 2.24
2278 2804 9.273016 TGAAGAAACTGAATTACTCCAAACTAG 57.727 33.333 0.00 0.00 0.00 2.57
2308 2852 0.896226 GCTTCCCTACCGAACTGAGT 59.104 55.000 0.00 0.00 0.00 3.41
2338 2882 1.612950 CACCATTTGGCACTAGCAACA 59.387 47.619 0.00 0.00 44.61 3.33
2380 2924 7.708051 TCTTTTGTTACCGATTGAATTGTGAA 58.292 30.769 0.00 0.00 0.00 3.18
2436 2980 2.351157 GCAAGTCAACATGAAGCACCTC 60.351 50.000 0.00 0.00 0.00 3.85
2456 3000 3.022406 TCCCTCTAGTAGAAAGCGAACC 58.978 50.000 0.64 0.00 0.00 3.62
2476 3020 2.933906 CCAGCAATGATGAAATGGCAAC 59.066 45.455 0.00 0.00 0.00 4.17
2506 3050 5.513233 AGAAACAATGGAGCCATGTATCTT 58.487 37.500 2.18 0.00 36.68 2.40
2507 3051 5.954150 AGAAACAATGGAGCCATGTATCTTT 59.046 36.000 2.18 0.00 36.68 2.52
2533 3077 3.782893 GCTTCTTTCAAGAATGAATCGCG 59.217 43.478 0.00 0.00 44.70 5.87
2567 3111 2.195727 TGCTATGAGATTGGACCACCA 58.804 47.619 0.00 0.00 45.34 4.17
2594 3138 6.016860 CTTGAACAAAGAAGGTGATCATCACA 60.017 38.462 19.61 0.00 42.68 3.58
2662 3208 4.038282 ACATGAACTTGTCATTGCACACAT 59.962 37.500 0.00 0.00 45.13 3.21
2663 3209 5.241285 ACATGAACTTGTCATTGCACACATA 59.759 36.000 0.00 0.00 45.13 2.29
2689 3262 7.493971 ACATTGCTCAACTAGAAGATACATCAC 59.506 37.037 0.00 0.00 0.00 3.06
2705 3278 4.074970 ACATCACCAGTTCATCTTTGTCC 58.925 43.478 0.00 0.00 0.00 4.02
2719 3292 4.365723 TCTTTGTCCTTTGACGTACTCAC 58.634 43.478 0.00 0.00 44.86 3.51
2790 3365 0.843309 TGTTTGAGTTGGAGGGAGCA 59.157 50.000 0.00 0.00 0.00 4.26
2804 3379 1.282875 GAGCACCAAGTTTGTCGGC 59.717 57.895 0.00 0.00 0.00 5.54
2806 3381 2.193536 GCACCAAGTTTGTCGGCCT 61.194 57.895 0.00 0.00 0.00 5.19
2988 3567 7.250569 TGTTGTTGTTTCTTGATCTCTTGTTC 58.749 34.615 0.00 0.00 0.00 3.18
2990 3569 5.885352 TGTTGTTTCTTGATCTCTTGTTCCA 59.115 36.000 0.00 0.00 0.00 3.53
3259 3844 4.334481 CGTTCCATAAATAGGTGGTTGTCC 59.666 45.833 0.00 0.00 36.84 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.608590 CAGAATGGCTTTGACCGTTGT 59.391 47.619 0.00 0.00 39.08 3.32
11 12 4.342092 AGTTTAAAGCACAACAGAATGGCT 59.658 37.500 0.00 0.00 43.62 4.75
30 31 2.871096 TTAAGCCCCGACATGAGTTT 57.129 45.000 0.00 0.00 0.00 2.66
64 65 3.535561 CCTATGGACACCACTTCACATC 58.464 50.000 0.00 0.00 35.80 3.06
179 180 2.343101 TCGGCGATCGAACATTTCTTT 58.657 42.857 21.57 0.00 45.86 2.52
218 219 1.122632 TGACCCTGTCCGCAACCTTA 61.123 55.000 0.00 0.00 0.00 2.69
237 238 0.323542 AATCGACCTCTCCACGGACT 60.324 55.000 0.00 0.00 0.00 3.85
333 334 1.153168 GTACCACATCCGCCAGCAT 60.153 57.895 0.00 0.00 0.00 3.79
346 347 5.280113 GGGTTATCCAACTTAGTGTGTACCA 60.280 44.000 0.00 0.00 34.88 3.25
421 422 2.299867 CAAACAGCCTGCCATTTAACCT 59.700 45.455 0.00 0.00 0.00 3.50
577 579 4.517285 CCTCGAAGAAATTCCCATTCAGA 58.483 43.478 0.00 0.00 34.09 3.27
579 581 3.016736 GCCTCGAAGAAATTCCCATTCA 58.983 45.455 0.00 0.00 34.09 2.57
625 628 3.806949 TTGAGGGCTTGTATGGAGTTT 57.193 42.857 0.00 0.00 0.00 2.66
795 808 3.876589 GACCTGAGCCAACGCGGAA 62.877 63.158 12.47 0.00 41.18 4.30
799 812 0.459585 TAATCGACCTGAGCCAACGC 60.460 55.000 0.00 0.00 0.00 4.84
806 819 7.326305 CGTCCATACTTATTTAATCGACCTGAG 59.674 40.741 0.00 0.00 0.00 3.35
807 820 7.143340 CGTCCATACTTATTTAATCGACCTGA 58.857 38.462 0.00 0.00 0.00 3.86
811 824 5.119743 GGCCGTCCATACTTATTTAATCGAC 59.880 44.000 0.00 0.00 0.00 4.20
840 853 1.927210 CGAATCGGCCGATGACAAG 59.073 57.895 39.53 23.83 34.70 3.16
865 879 4.092091 CGTGTGGATAGCTTCTCTTGTTTC 59.908 45.833 0.00 0.00 0.00 2.78
1054 1079 2.749621 GCAGGATGTCCTCGATGTTTTT 59.250 45.455 0.00 0.00 46.65 1.94
1056 1081 1.556911 AGCAGGATGTCCTCGATGTTT 59.443 47.619 0.00 0.00 46.65 2.83
1565 1617 2.048127 GTTGGCCGTCTCGCTCTT 60.048 61.111 0.00 0.00 0.00 2.85
1566 1618 4.421479 CGTTGGCCGTCTCGCTCT 62.421 66.667 0.00 0.00 0.00 4.09
1582 1634 2.087462 TACTCCATGGCTCGCATCCG 62.087 60.000 6.96 0.00 0.00 4.18
1603 1655 1.275291 CCACCCTGACGTACATGAGTT 59.725 52.381 0.00 0.00 0.00 3.01
1604 1656 0.895530 CCACCCTGACGTACATGAGT 59.104 55.000 0.00 0.00 0.00 3.41
1608 1660 2.577059 CGCCACCCTGACGTACAT 59.423 61.111 0.00 0.00 0.00 2.29
1650 1705 4.141965 ACGCCGATGTCGATGCCA 62.142 61.111 3.62 0.00 43.02 4.92
1719 1785 6.385176 TCAGGTCATATCTCCAAAAGATGAGT 59.615 38.462 0.00 0.00 44.69 3.41
1793 2238 1.911766 GGACGTGGAACTGGGAGGA 60.912 63.158 0.00 0.00 31.75 3.71
1855 2321 1.205657 GCGCCGACGATATTCAGAAA 58.794 50.000 0.00 0.00 43.93 2.52
2185 2673 0.600255 ATACCTCGGCAAGCATACGC 60.600 55.000 0.00 0.00 38.99 4.42
2261 2787 9.706691 CTGAAGTTACTAGTTTGGAGTAATTCA 57.293 33.333 0.00 13.50 40.53 2.57
2262 2788 9.708092 ACTGAAGTTACTAGTTTGGAGTAATTC 57.292 33.333 0.00 5.26 40.53 2.17
2263 2789 9.490379 CACTGAAGTTACTAGTTTGGAGTAATT 57.510 33.333 0.00 0.00 40.53 1.40
2264 2790 7.603024 GCACTGAAGTTACTAGTTTGGAGTAAT 59.397 37.037 0.00 0.00 40.53 1.89
2265 2791 6.927381 GCACTGAAGTTACTAGTTTGGAGTAA 59.073 38.462 0.00 0.00 37.11 2.24
2266 2792 6.267014 AGCACTGAAGTTACTAGTTTGGAGTA 59.733 38.462 0.00 0.00 0.00 2.59
2267 2793 5.070580 AGCACTGAAGTTACTAGTTTGGAGT 59.929 40.000 0.00 0.00 0.00 3.85
2268 2794 5.542779 AGCACTGAAGTTACTAGTTTGGAG 58.457 41.667 0.00 0.00 0.00 3.86
2269 2795 5.546621 AGCACTGAAGTTACTAGTTTGGA 57.453 39.130 0.00 0.00 0.00 3.53
2270 2796 5.179555 GGAAGCACTGAAGTTACTAGTTTGG 59.820 44.000 0.00 0.00 0.00 3.28
2271 2797 5.179555 GGGAAGCACTGAAGTTACTAGTTTG 59.820 44.000 0.00 0.00 0.00 2.93
2272 2798 5.071923 AGGGAAGCACTGAAGTTACTAGTTT 59.928 40.000 0.00 0.00 0.00 2.66
2273 2799 4.593634 AGGGAAGCACTGAAGTTACTAGTT 59.406 41.667 0.00 0.00 0.00 2.24
2274 2800 4.161102 AGGGAAGCACTGAAGTTACTAGT 58.839 43.478 0.00 0.00 0.00 2.57
2275 2801 4.810191 AGGGAAGCACTGAAGTTACTAG 57.190 45.455 0.00 0.00 0.00 2.57
2276 2802 4.465305 GGTAGGGAAGCACTGAAGTTACTA 59.535 45.833 0.00 0.00 0.00 1.82
2277 2803 3.261137 GGTAGGGAAGCACTGAAGTTACT 59.739 47.826 0.00 0.00 0.00 2.24
2278 2804 3.597255 GGTAGGGAAGCACTGAAGTTAC 58.403 50.000 0.00 0.00 0.00 2.50
2308 2852 1.626686 CCAAATGGTGGTACTGGCAA 58.373 50.000 0.00 0.00 43.20 4.52
2338 2882 6.692486 ACAAAAGATTCAGTCTATCACGACT 58.308 36.000 0.00 0.00 44.72 4.18
2436 2980 2.758979 TGGTTCGCTTTCTACTAGAGGG 59.241 50.000 0.00 0.00 0.00 4.30
2456 3000 3.616821 CAGTTGCCATTTCATCATTGCTG 59.383 43.478 0.00 0.00 0.00 4.41
2476 3020 3.826157 TGGCTCCATTGTTTCTTTACCAG 59.174 43.478 0.00 0.00 0.00 4.00
2533 3077 7.579761 ATCTCATAGCAAAATTTCTTCTCCC 57.420 36.000 0.00 0.00 0.00 4.30
2567 3111 6.944290 TGATGATCACCTTCTTTGTTCAAGAT 59.056 34.615 0.00 0.00 41.42 2.40
2594 3138 7.660112 TGCTTACAAGATGTTGAAATGTGAAT 58.340 30.769 9.96 0.00 37.10 2.57
2662 3208 8.695456 TGATGTATCTTCTAGTTGAGCAATGTA 58.305 33.333 0.00 0.00 0.00 2.29
2663 3209 7.493971 GTGATGTATCTTCTAGTTGAGCAATGT 59.506 37.037 0.00 0.00 0.00 2.71
2689 3262 4.319766 CGTCAAAGGACAAAGATGAACTGG 60.320 45.833 0.00 0.00 44.54 4.00
2736 3309 7.551262 TCAACACCAAGTATCGCTGTTAATAAT 59.449 33.333 0.00 0.00 0.00 1.28
2790 3365 0.470766 TACAGGCCGACAAACTTGGT 59.529 50.000 0.00 0.00 0.00 3.67
2804 3379 7.824289 TCTTTATTGTCTTCTCCACAATACAGG 59.176 37.037 14.35 5.96 43.33 4.00
2806 3381 7.606456 GGTCTTTATTGTCTTCTCCACAATACA 59.394 37.037 5.03 0.00 43.33 2.29
2953 3532 3.947834 AGAAACAACAACAGGGTCTCTTG 59.052 43.478 0.00 0.00 0.00 3.02
3229 3814 7.340256 ACCACCTATTTATGGAACGTATTTGA 58.660 34.615 0.00 0.00 39.46 2.69
3236 3821 4.334481 GGACAACCACCTATTTATGGAACG 59.666 45.833 0.00 0.00 39.46 3.95
3259 3844 8.080417 CAGATCAGTCCAAAAATATTATGCCTG 58.920 37.037 0.00 1.63 0.00 4.85
3477 4220 0.955428 GCGCACATGTTCTCTTCCCA 60.955 55.000 0.30 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.