Multiple sequence alignment - TraesCS7B01G066100

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 TraesCS7B01G066100 chr7B 100.000 4295 0 0 1 4295 72238068 72233774 0.000000e+00 7932.0
1 TraesCS7B01G066100 chr7B 82.293 1779 247 37 2244 4008 72223792 72222068 0.000000e+00 1478.0
2 TraesCS7B01G066100 chr7B 85.188 1249 115 32 2926 4129 72122032 72120809 0.000000e+00 1218.0
3 TraesCS7B01G066100 chr7B 85.108 1249 116 32 2926 4129 72142287 72141064 0.000000e+00 1212.0
4 TraesCS7B01G066100 chr7B 90.430 721 63 6 2661 3377 72202544 72203262 0.000000e+00 944.0
5 TraesCS7B01G066100 chr7B 86.527 809 96 6 2553 3360 72159469 72160265 0.000000e+00 878.0
6 TraesCS7B01G066100 chr7B 87.454 542 42 9 2959 3474 72226442 72225901 6.150000e-168 601.0
7 TraesCS7B01G066100 chr7B 82.094 659 63 28 3496 4129 72203383 72204011 2.960000e-141 512.0
8 TraesCS7B01G066100 chr7B 84.387 538 48 16 3610 4129 72225659 72225140 2.980000e-136 496.0
9 TraesCS7B01G066100 chr7B 77.430 607 91 24 3524 4125 72219879 72219314 1.930000e-83 320.0
10 TraesCS7B01G066100 chr7B 75.801 562 87 27 1790 2323 72176500 72177040 5.550000e-59 239.0
11 TraesCS7B01G066100 chr7B 76.471 459 57 26 1770 2226 72120144 72119735 7.280000e-48 202.0
12 TraesCS7B01G066100 chr7B 75.817 459 55 26 1770 2226 72140399 72139995 9.490000e-42 182.0
13 TraesCS7B01G066100 chr7B 89.655 116 12 0 2295 2410 72159276 72159391 9.620000e-32 148.0
14 TraesCS7B01G066100 chr7B 87.356 87 11 0 3467 3553 72225748 72225662 2.730000e-17 100.0
15 TraesCS7B01G066100 chr7B 91.525 59 5 0 2168 2226 72205700 72205758 9.900000e-12 82.4
16 TraesCS7B01G066100 chr7B 95.455 44 2 0 4129 4172 72233895 72233852 2.140000e-08 71.3
17 TraesCS7B01G066100 chr7B 95.455 44 2 0 4174 4217 72233940 72233897 2.140000e-08 71.3
18 TraesCS7B01G066100 chr7D 93.796 4352 170 33 1 4295 112429321 112425013 0.000000e+00 6449.0
19 TraesCS7B01G066100 chr7D 82.551 1874 238 45 2224 4066 112423966 112422151 0.000000e+00 1567.0
20 TraesCS7B01G066100 chr7D 100.000 46 0 0 4172 4217 112425179 112425134 7.650000e-13 86.1
21 TraesCS7B01G066100 chr7D 95.455 44 2 0 4129 4172 112425132 112425089 2.140000e-08 71.3
22 TraesCS7B01G066100 chr7A 91.811 2772 160 27 1456 4172 117787638 117784879 0.000000e+00 3799.0
23 TraesCS7B01G066100 chr7A 90.254 1416 83 23 1 1379 117789304 117787907 0.000000e+00 1799.0
24 TraesCS7B01G066100 chr7A 82.379 1799 221 53 1784 3530 117763417 117761663 0.000000e+00 1478.0
25 TraesCS7B01G066100 chr7A 86.149 1249 101 32 2926 4129 117757363 117756142 0.000000e+00 1282.0
26 TraesCS7B01G066100 chr7A 85.639 571 54 15 3589 4142 117761666 117761107 3.720000e-160 575.0
27 TraesCS7B01G066100 chr7A 79.210 582 79 23 3568 4142 117765145 117764599 2.440000e-97 366.0
28 TraesCS7B01G066100 chr7A 87.302 126 11 3 4171 4295 117784925 117784804 5.790000e-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 TraesCS7B01G066100 chr7B 72233774 72238068 4294 True 7932.000000 7932 100.000000 1 4295 1 chr7B.!!$R1 4294
1 TraesCS7B01G066100 chr7B 72119735 72122032 2297 True 710.000000 1218 80.829500 1770 4129 2 chr7B.!!$R2 2359
2 TraesCS7B01G066100 chr7B 72139995 72142287 2292 True 697.000000 1212 80.462500 1770 4129 2 chr7B.!!$R3 2359
3 TraesCS7B01G066100 chr7B 72219314 72226442 7128 True 599.000000 1478 83.784000 2244 4129 5 chr7B.!!$R4 1885
4 TraesCS7B01G066100 chr7B 72159276 72160265 989 False 513.000000 878 88.091000 2295 3360 2 chr7B.!!$F2 1065
5 TraesCS7B01G066100 chr7B 72202544 72205758 3214 False 512.800000 944 88.016333 2168 4129 3 chr7B.!!$F3 1961
6 TraesCS7B01G066100 chr7B 72176500 72177040 540 False 239.000000 239 75.801000 1790 2323 1 chr7B.!!$F1 533
7 TraesCS7B01G066100 chr7D 112422151 112429321 7170 True 4008.000000 6449 88.173500 1 4295 2 chr7D.!!$R1 4294
8 TraesCS7B01G066100 chr7A 117784804 117789304 4500 True 1912.333333 3799 89.789000 1 4295 3 chr7A.!!$R2 4294
9 TraesCS7B01G066100 chr7A 117756142 117765145 9003 True 925.250000 1478 83.344250 1784 4142 4 chr7A.!!$R1 2358

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
890 910 0.663153 GATATGAGCCGTTGGTTGCC 59.337 55.0 0.0 0.0 0.00 4.52 F
1271 1299 0.886563 AATTGCAGTGGCTCTTCAGC 59.113 50.0 0.0 0.0 46.06 4.26 F
3048 3327 0.543410 TACGGAAAGGGCAGAGACCA 60.543 55.0 0.0 0.0 29.21 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2292 2564 0.536006 GGCTAAGCTGGGCCATACAG 60.536 60.0 20.96 3.73 46.84 2.74 R
3107 3387 1.032794 ACTGCAGTCGTCAGTGAAGA 58.967 50.0 15.25 4.51 42.63 2.87 R
4104 4632 0.032815 GGATGAGGCTCGGAGCTAAC 59.967 60.0 27.47 18.65 41.99 2.34 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
26 27 5.106634 GCATACTGATGGATGAGATTTGCTC 60.107 44.000 0.00 0.00 37.56 4.26
28 29 5.113446 ACTGATGGATGAGATTTGCTCTT 57.887 39.130 0.00 0.00 44.27 2.85
29 30 5.124645 ACTGATGGATGAGATTTGCTCTTC 58.875 41.667 0.00 0.00 44.27 2.87
67 69 4.082408 GGGGTTTTCGTCCCAAAGAAATAG 60.082 45.833 3.37 0.00 46.26 1.73
68 70 4.521639 GGGTTTTCGTCCCAAAGAAATAGT 59.478 41.667 0.00 0.00 44.05 2.12
69 71 5.706833 GGGTTTTCGTCCCAAAGAAATAGTA 59.293 40.000 0.00 0.00 44.05 1.82
131 133 2.825532 CCACACCCAAATGTTAAGGGAG 59.174 50.000 3.32 0.00 45.80 4.30
153 155 6.350110 GGAGCTAAATGTTTCAATGTAGGCAA 60.350 38.462 0.00 0.00 0.00 4.52
492 501 4.183865 CCTGAACATAGCAGTCGAAATCA 58.816 43.478 0.00 0.00 0.00 2.57
500 509 1.135972 GCAGTCGAAATCACGCAATGT 60.136 47.619 0.00 0.00 0.00 2.71
522 531 1.830071 GCGGATCCAGTAATCCCCCTA 60.830 57.143 13.41 0.00 41.98 3.53
595 604 1.135112 GGGAATCGGTGCCAAATTCAC 60.135 52.381 0.00 7.40 37.76 3.18
602 611 2.036572 GCCAAATTCACCGGGGGA 59.963 61.111 2.42 0.00 0.00 4.81
605 614 0.894835 CCAAATTCACCGGGGGAAAG 59.105 55.000 17.01 8.99 0.00 2.62
606 615 1.549037 CCAAATTCACCGGGGGAAAGA 60.549 52.381 17.01 0.00 0.00 2.52
616 632 1.619977 CGGGGGAAAGAAGGAGAGAGA 60.620 57.143 0.00 0.00 0.00 3.10
890 910 0.663153 GATATGAGCCGTTGGTTGCC 59.337 55.000 0.00 0.00 0.00 4.52
928 948 1.228306 ACGGCCCGGATTGTTTCAA 60.228 52.632 8.57 0.00 0.00 2.69
1009 1029 3.957535 CGGAATCCATGGCGCTGC 61.958 66.667 6.96 0.00 0.00 5.25
1253 1281 2.223735 CGGAGGATTGTAGAAGCGCTAA 60.224 50.000 12.05 0.00 0.00 3.09
1271 1299 0.886563 AATTGCAGTGGCTCTTCAGC 59.113 50.000 0.00 0.00 46.06 4.26
1312 1343 2.242043 CATTTTGTGAGCTGGGGTTCT 58.758 47.619 0.00 0.00 0.00 3.01
1381 1418 7.089538 CCATTGTTTGTGAGTGTTGCATTATA 58.910 34.615 0.00 0.00 0.00 0.98
1654 1895 7.920151 TGTGAATGTCAAGACAACTAATTTTGG 59.080 33.333 7.02 0.00 45.41 3.28
1700 1941 4.260784 GCATGCTTTGTACCTGCACTATAC 60.261 45.833 11.37 0.00 39.63 1.47
1702 1943 3.203716 GCTTTGTACCTGCACTATACCC 58.796 50.000 0.00 0.00 0.00 3.69
1716 1957 5.570034 GCACTATACCCAGTGTTAGAAACCA 60.570 44.000 5.26 0.00 46.31 3.67
1762 2003 5.074584 AGTGAAGTAGTTAGCACTAAGGC 57.925 43.478 3.44 0.00 39.61 4.35
1768 2009 1.000145 GTTAGCACTAAGGCACTCGC 59.000 55.000 0.00 0.00 38.49 5.03
1780 2021 3.275999 AGGCACTCGCGGTTATAAAAAT 58.724 40.909 6.13 0.00 39.92 1.82
1788 2029 5.770417 TCGCGGTTATAAAAATTGTTTGGT 58.230 33.333 6.13 0.00 0.00 3.67
1817 2059 5.357314 GCAAACCCCTCTATTTCTAAACCTC 59.643 44.000 0.00 0.00 0.00 3.85
1819 2061 4.359996 ACCCCTCTATTTCTAAACCTCGT 58.640 43.478 0.00 0.00 0.00 4.18
1834 2076 4.602340 ACCTCGTCTTCTTGCTAGAAAA 57.398 40.909 11.71 0.00 39.80 2.29
1922 2180 7.122055 GGAAATAACATAAACATGGACCAGACA 59.878 37.037 0.00 0.00 0.00 3.41
1958 2222 3.113260 GTGGCTTACCGCTTATGAGAT 57.887 47.619 0.00 0.00 43.60 2.75
1968 2232 5.990668 ACCGCTTATGAGATTTTCCTAACT 58.009 37.500 0.00 0.00 0.00 2.24
2046 2311 9.912634 TTAATCCATCAGATTTTCTTGTTGAAC 57.087 29.630 0.00 0.00 42.86 3.18
2112 2381 8.173775 CGGATCTGCTTATTTATGAGCATTAAG 58.826 37.037 9.28 0.00 46.32 1.85
2231 2501 5.531287 GGTTGTCTCAAACATATACCATCCC 59.469 44.000 0.00 0.00 36.62 3.85
2236 2506 6.828785 GTCTCAAACATATACCATCCCAAACT 59.171 38.462 0.00 0.00 0.00 2.66
2242 2512 6.122277 ACATATACCATCCCAAACTTGTGAG 58.878 40.000 0.00 0.00 0.00 3.51
2270 2540 6.318648 GGTGACATCATCCTAGCACATTAAAA 59.681 38.462 0.00 0.00 0.00 1.52
2271 2541 7.148086 GGTGACATCATCCTAGCACATTAAAAA 60.148 37.037 0.00 0.00 0.00 1.94
2299 2571 8.627208 AATTATGGTCTTCTATTGCTGTATGG 57.373 34.615 0.00 0.00 0.00 2.74
2301 2573 3.142174 GGTCTTCTATTGCTGTATGGCC 58.858 50.000 0.00 0.00 0.00 5.36
2323 2595 2.991190 CAGCTTAGCCAAATTTGTGCTG 59.009 45.455 29.21 25.01 40.17 4.41
2357 2629 4.650972 AACTTGTGAGTTTGGGGCTATA 57.349 40.909 0.00 0.00 43.48 1.31
2430 2702 4.859798 CCTCTTGTCAGAATAACGAGACAC 59.140 45.833 0.00 0.00 37.83 3.67
2468 2745 5.876357 TGAGCCATCACTACCTTAACTTTT 58.124 37.500 0.00 0.00 0.00 2.27
2498 2775 9.347934 TGTTACAACAAACAAACTATCAAACAG 57.652 29.630 0.00 0.00 36.45 3.16
2540 2817 4.581824 TCGTACCTATGGTAGTAAGCCTTG 59.418 45.833 0.00 0.00 39.02 3.61
2551 2828 1.461127 GTAAGCCTTGTCTTCTGCGTG 59.539 52.381 0.00 0.00 0.00 5.34
2598 2875 4.675114 CCATGCACTCAAAACTTTCGTAAC 59.325 41.667 0.00 0.00 0.00 2.50
2612 2889 9.880157 AAACTTTCGTAACTGGCTAATATAAGA 57.120 29.630 0.00 0.00 0.00 2.10
2625 2902 8.651389 TGGCTAATATAAGAGCAATGTCTAGTT 58.349 33.333 10.45 0.00 40.64 2.24
3048 3327 0.543410 TACGGAAAGGGCAGAGACCA 60.543 55.000 0.00 0.00 29.21 4.02
3107 3387 0.243907 CTGACCCACGACATCGAGTT 59.756 55.000 8.54 0.00 43.02 3.01
3117 3397 2.911723 CGACATCGAGTTCTTCACTGAC 59.088 50.000 0.00 0.00 43.02 3.51
3162 3443 3.075641 GGACGGGACCCTGACCTC 61.076 72.222 9.41 0.00 34.97 3.85
3195 3476 3.249189 GGAGTGACCTGTGCCCCA 61.249 66.667 0.00 0.00 35.41 4.96
3235 3523 2.593148 AAATGGCCACACGCGACA 60.593 55.556 15.93 1.68 38.94 4.35
3405 3718 8.321353 TGTTCAGTATGGAAGTTGATACTCATT 58.679 33.333 0.00 0.00 33.90 2.57
3566 4048 8.768955 GCTCATAACAACAGACATAAGGATAAG 58.231 37.037 0.00 0.00 0.00 1.73
3587 4069 9.087424 GATAAGCTACCAAAATTTGAATGGAAC 57.913 33.333 13.22 3.62 37.66 3.62
3698 4180 7.685481 TCTCTTTGGTGATGGAATGTTAGTTA 58.315 34.615 0.00 0.00 0.00 2.24
3887 4383 7.093112 GGATTCATAGCTATTGACCTACCAGAT 60.093 40.741 2.64 0.00 0.00 2.90
3889 4385 5.481824 TCATAGCTATTGACCTACCAGATGG 59.518 44.000 2.64 0.00 42.17 3.51
3913 4410 7.282224 TGGCAATAATTTCATACCACTGTCTAC 59.718 37.037 0.00 0.00 0.00 2.59
3914 4411 7.255139 GGCAATAATTTCATACCACTGTCTACC 60.255 40.741 0.00 0.00 0.00 3.18
3915 4412 7.518370 GCAATAATTTCATACCACTGTCTACCG 60.518 40.741 0.00 0.00 0.00 4.02
3916 4413 2.953466 TTCATACCACTGTCTACCGC 57.047 50.000 0.00 0.00 0.00 5.68
3917 4414 1.842052 TCATACCACTGTCTACCGCA 58.158 50.000 0.00 0.00 0.00 5.69
3918 4415 2.384828 TCATACCACTGTCTACCGCAT 58.615 47.619 0.00 0.00 0.00 4.73
3919 4416 2.764010 TCATACCACTGTCTACCGCATT 59.236 45.455 0.00 0.00 0.00 3.56
4071 4599 1.000274 GGCACCGGGAATTATTGATGC 60.000 52.381 6.32 1.45 0.00 3.91
4142 4670 3.523087 TACTGGCTTGTCGGCGCAA 62.523 57.895 10.83 14.19 42.02 4.85
4224 4752 2.197250 CACTCGGATCCTCAGTGCT 58.803 57.895 21.58 0.00 31.62 4.40
4225 4753 1.393603 CACTCGGATCCTCAGTGCTA 58.606 55.000 21.58 0.00 31.62 3.49
4226 4754 1.751351 CACTCGGATCCTCAGTGCTAA 59.249 52.381 21.58 0.00 31.62 3.09
4253 4781 1.473258 TTGTGCATGCCATTAGACCC 58.527 50.000 16.68 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 2.038557 CCCCCACCGGTATTGATAGAAG 59.961 54.545 6.87 0.00 0.00 2.85
28 29 1.061967 ACCCCCACCGGTATTGATAGA 60.062 52.381 6.87 0.00 33.04 1.98
29 30 1.430992 ACCCCCACCGGTATTGATAG 58.569 55.000 6.87 0.00 33.04 2.08
131 133 6.155827 TGTTGCCTACATTGAAACATTTAGC 58.844 36.000 0.00 0.00 0.00 3.09
153 155 7.014615 AGCCAAATGTAAGAGTTGAATTCTTGT 59.985 33.333 12.47 0.00 36.38 3.16
504 513 5.571285 GAATTTAGGGGGATTACTGGATCC 58.429 45.833 4.20 4.20 44.03 3.36
522 531 3.757745 ATCGATTTTCGTGGCGAATTT 57.242 38.095 4.79 0.00 45.28 1.82
584 593 2.283532 CCCCCGGTGAATTTGGCA 60.284 61.111 0.00 0.00 0.00 4.92
595 604 0.617820 TCTCTCCTTCTTTCCCCCGG 60.618 60.000 0.00 0.00 0.00 5.73
602 611 5.279960 GGAAGCTCTTTCTCTCTCCTTCTTT 60.280 44.000 0.00 0.00 36.03 2.52
605 614 3.428862 CGGAAGCTCTTTCTCTCTCCTTC 60.429 52.174 0.00 0.00 36.03 3.46
606 615 2.495669 CGGAAGCTCTTTCTCTCTCCTT 59.504 50.000 0.00 0.00 36.03 3.36
616 632 3.050275 GCGCCACGGAAGCTCTTT 61.050 61.111 0.00 0.00 0.00 2.52
771 787 2.359850 CCATCACCACCACCACCG 60.360 66.667 0.00 0.00 0.00 4.94
774 790 1.458486 GAACCCATCACCACCACCA 59.542 57.895 0.00 0.00 0.00 4.17
890 910 4.363990 AGCGCGATAGATGGCCCG 62.364 66.667 12.10 0.00 39.76 6.13
928 948 1.228306 CGGCTCCTATCCGGTCTCT 60.228 63.158 0.00 0.00 42.99 3.10
984 1004 0.740737 CCATGGATTCCGCTTTGTCC 59.259 55.000 5.56 0.00 0.00 4.02
986 1006 1.656818 CGCCATGGATTCCGCTTTGT 61.657 55.000 18.40 0.00 0.00 2.83
1253 1281 2.564471 GCTGAAGAGCCACTGCAAT 58.436 52.632 0.00 0.00 39.57 3.56
1271 1299 4.009675 TGGATGGCAGCTACTAACAAAAG 58.990 43.478 1.50 0.00 0.00 2.27
1312 1343 4.704540 CCAACTAATTGCCATCACCTAACA 59.295 41.667 0.00 0.00 34.17 2.41
1381 1418 1.067516 ACAAAATGCTGCAACGAAGCT 59.932 42.857 6.36 0.00 41.42 3.74
1520 1757 8.220755 ACACAAATATATAAGTCCACGCATTT 57.779 30.769 0.00 0.00 0.00 2.32
1654 1895 6.128391 TGCTCGACTAACATAAATCAAACACC 60.128 38.462 0.00 0.00 0.00 4.16
1700 1941 4.261801 CCACTATGGTTTCTAACACTGGG 58.738 47.826 0.00 0.00 31.35 4.45
1716 1957 7.778382 ACTTTCTCCACTAAAAACAACCACTAT 59.222 33.333 0.00 0.00 0.00 2.12
1762 2003 6.183359 CCAAACAATTTTTATAACCGCGAGTG 60.183 38.462 8.23 0.00 0.00 3.51
1768 2009 8.376942 GCACATACCAAACAATTTTTATAACCG 58.623 33.333 0.00 0.00 0.00 4.44
1788 2029 5.450818 AGAAATAGAGGGGTTTGCACATA 57.549 39.130 0.00 0.00 0.00 2.29
1798 2039 4.650131 AGACGAGGTTTAGAAATAGAGGGG 59.350 45.833 0.00 0.00 0.00 4.79
1922 2180 3.302161 AGCCACAAATGACATATGCCAT 58.698 40.909 1.58 0.00 0.00 4.40
1949 2213 6.980978 TCGAGCAGTTAGGAAAATCTCATAAG 59.019 38.462 0.00 0.00 31.19 1.73
1958 2222 4.081322 ACCTTTCGAGCAGTTAGGAAAA 57.919 40.909 0.00 0.00 0.00 2.29
1968 2232 5.759506 TTCATTTACAAACCTTTCGAGCA 57.240 34.783 0.00 0.00 0.00 4.26
2046 2311 1.800805 AGCACTGACTGACGGATTTG 58.199 50.000 0.00 0.00 0.00 2.32
2112 2381 8.000780 AGGAACCTCTCAACATAATTTATTGC 57.999 34.615 0.00 0.00 0.00 3.56
2231 2501 4.096231 TGATGTCACCAACTCACAAGTTTG 59.904 41.667 0.00 0.00 43.28 2.93
2236 2506 3.072915 AGGATGATGTCACCAACTCACAA 59.927 43.478 0.00 0.00 0.00 3.33
2242 2512 2.939103 GTGCTAGGATGATGTCACCAAC 59.061 50.000 0.00 0.00 0.00 3.77
2273 2543 9.071276 CCATACAGCAATAGAAGACCATAATTT 57.929 33.333 0.00 0.00 0.00 1.82
2274 2544 7.175641 GCCATACAGCAATAGAAGACCATAATT 59.824 37.037 0.00 0.00 0.00 1.40
2275 2545 6.656693 GCCATACAGCAATAGAAGACCATAAT 59.343 38.462 0.00 0.00 0.00 1.28
2292 2564 0.536006 GGCTAAGCTGGGCCATACAG 60.536 60.000 20.96 3.73 46.84 2.74
2299 2571 1.276138 ACAAATTTGGCTAAGCTGGGC 59.724 47.619 21.74 6.57 0.00 5.36
2301 2573 2.028748 AGCACAAATTTGGCTAAGCTGG 60.029 45.455 24.02 5.86 34.46 4.85
2323 2595 4.689345 ACTCACAAGTTACGGCAGAATTAC 59.311 41.667 0.00 0.00 28.74 1.89
2357 2629 6.629128 TCTTTGAATGTTGATGTGTGTTGTT 58.371 32.000 0.00 0.00 0.00 2.83
2498 2775 5.049398 ACGAGTGTCTCAGTTATTCAGTC 57.951 43.478 0.00 0.00 0.00 3.51
2540 2817 4.329256 GGTATTTAAGGACACGCAGAAGAC 59.671 45.833 0.00 0.00 0.00 3.01
2551 2828 6.866770 GGTGCTTGAAAAAGGTATTTAAGGAC 59.133 38.462 6.81 6.81 35.27 3.85
2598 2875 8.310382 ACTAGACATTGCTCTTATATTAGCCAG 58.690 37.037 0.00 0.00 37.97 4.85
2612 2889 7.826252 ACATATCAGAAACAACTAGACATTGCT 59.174 33.333 0.00 0.00 0.00 3.91
2651 2928 6.433093 ACATATGAGTTTCCTTGTTACCAACC 59.567 38.462 10.38 0.00 0.00 3.77
3048 3327 4.108673 GGAGGGACCGTGTACTGT 57.891 61.111 0.00 0.00 0.00 3.55
3107 3387 1.032794 ACTGCAGTCGTCAGTGAAGA 58.967 50.000 15.25 4.51 42.63 2.87
3117 3397 2.823196 TGACAAAAACACTGCAGTCG 57.177 45.000 18.64 15.04 0.00 4.18
3162 3443 4.389077 GTCACTCCAACGAAAGAATAGTGG 59.611 45.833 0.00 0.00 34.46 4.00
3195 3476 1.754803 TCGTCCTCGAATTGGTATGCT 59.245 47.619 0.00 0.00 43.34 3.79
3371 3659 8.977412 TCAACTTCCATACTGAACACTATATCA 58.023 33.333 0.00 0.00 0.00 2.15
3375 3663 8.982723 AGTATCAACTTCCATACTGAACACTAT 58.017 33.333 0.00 0.00 35.01 2.12
3376 3664 8.362464 AGTATCAACTTCCATACTGAACACTA 57.638 34.615 0.00 0.00 35.01 2.74
3378 3666 7.097192 TGAGTATCAACTTCCATACTGAACAC 58.903 38.462 0.00 0.00 45.97 3.32
3379 3667 7.239763 TGAGTATCAACTTCCATACTGAACA 57.760 36.000 0.00 0.00 45.97 3.18
3410 3723 7.389607 GCAAACCTTACTGAACTTCCATAGTTA 59.610 37.037 0.00 0.00 47.00 2.24
3413 3726 5.940470 AGCAAACCTTACTGAACTTCCATAG 59.060 40.000 0.00 0.00 0.00 2.23
3566 4048 5.546526 TGGTTCCATTCAAATTTTGGTAGC 58.453 37.500 9.18 7.87 0.00 3.58
3587 4069 2.113860 ATTGGGAGTCACGTGAATGG 57.886 50.000 24.83 0.00 0.00 3.16
3887 4383 6.186957 AGACAGTGGTATGAAATTATTGCCA 58.813 36.000 0.00 0.00 0.00 4.92
3889 4385 7.518370 CGGTAGACAGTGGTATGAAATTATTGC 60.518 40.741 0.00 0.00 0.00 3.56
3913 4410 8.040518 CTTATAAAAGAGTTATGCGGAATGCGG 61.041 40.741 0.00 0.00 40.02 5.69
3914 4411 6.792250 CTTATAAAAGAGTTATGCGGAATGCG 59.208 38.462 0.00 0.00 40.02 4.73
3915 4412 7.041372 TCCTTATAAAAGAGTTATGCGGAATGC 60.041 37.037 0.00 0.00 38.45 3.56
3916 4413 8.378172 TCCTTATAAAAGAGTTATGCGGAATG 57.622 34.615 0.00 0.00 34.37 2.67
3917 4414 7.173390 GCTCCTTATAAAAGAGTTATGCGGAAT 59.827 37.037 11.77 0.00 34.37 3.01
3918 4415 6.482308 GCTCCTTATAAAAGAGTTATGCGGAA 59.518 38.462 11.77 0.00 34.37 4.30
3919 4416 5.989777 GCTCCTTATAAAAGAGTTATGCGGA 59.010 40.000 11.77 0.00 34.37 5.54
3974 4473 5.944007 TGGAATTCTAAGGCAGAAGTAAACC 59.056 40.000 5.23 0.00 46.37 3.27
4071 4599 6.392354 AGTGGATGTTGCAATTTGAGTTATG 58.608 36.000 0.59 0.00 0.00 1.90
4104 4632 0.032815 GGATGAGGCTCGGAGCTAAC 59.967 60.000 27.47 18.65 41.99 2.34
4131 4659 1.729470 AACAATGGTTGCGCCGACAA 61.729 50.000 4.18 0.00 41.21 3.18
4142 4670 2.809696 GTGCTGGTACGTAAACAATGGT 59.190 45.455 0.00 0.00 0.00 3.55
4224 4752 9.737844 TCTAATGGCATGCACAAAGATATATTA 57.262 29.630 21.36 7.10 0.00 0.98
4225 4753 8.517878 GTCTAATGGCATGCACAAAGATATATT 58.482 33.333 21.36 6.36 0.00 1.28
4226 4754 7.121759 GGTCTAATGGCATGCACAAAGATATAT 59.878 37.037 21.36 0.00 0.00 0.86
4253 4781 0.169672 GTAGCCAACTGCAGCATGTG 59.830 55.000 15.27 6.97 44.83 3.21


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

AutoCloner maintained by Alex Coulton.