Multiple sequence alignment - TraesCS4B01G212200

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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 TraesCS4B01G212200 chr4B 100.000 2664 0 0 1 2664 450484365 450481702 0.000000e+00 4920.0
1 TraesCS4B01G212200 chr4B 89.405 925 57 19 793 1693 450686680 450685773 0.000000e+00 1127.0
2 TraesCS4B01G212200 chr4B 87.757 972 77 23 799 1749 450105403 450106353 0.000000e+00 1098.0
3 TraesCS4B01G212200 chr4D 92.569 1090 56 9 793 1874 365865316 365864244 0.000000e+00 1541.0
4 TraesCS4B01G212200 chr4D 91.565 818 46 14 794 1604 365217228 365218029 0.000000e+00 1107.0
5 TraesCS4B01G212200 chr4D 87.538 987 63 26 813 1757 366219939 366218971 0.000000e+00 1086.0
6 TraesCS4B01G212200 chr4D 90.534 581 22 8 2114 2664 365864230 365863653 0.000000e+00 737.0
7 TraesCS4B01G212200 chr4D 86.426 582 44 18 1 555 306822465 306823038 2.930000e-169 604.0
8 TraesCS4B01G212200 chr4D 77.752 436 83 11 131 555 469144410 469143978 3.400000e-64 255.0
9 TraesCS4B01G212200 chr4D 90.533 169 16 0 553 721 306823079 306823247 9.600000e-55 224.0
10 TraesCS4B01G212200 chr4A 96.237 930 30 2 1014 1938 99004934 99005863 0.000000e+00 1519.0
11 TraesCS4B01G212200 chr4A 88.553 926 62 25 798 1693 98785195 98786106 0.000000e+00 1083.0
12 TraesCS4B01G212200 chr4A 87.679 698 74 11 793 1478 98787164 98787861 0.000000e+00 802.0
13 TraesCS4B01G212200 chr4A 89.623 636 28 6 2061 2664 99005857 99006486 0.000000e+00 774.0
14 TraesCS4B01G212200 chr4A 89.937 477 45 2 1127 1600 100551358 100550882 1.750000e-171 612.0
15 TraesCS4B01G212200 chr4A 86.854 213 14 8 793 991 99000507 99000719 2.670000e-55 226.0
16 TraesCS4B01G212200 chr2B 95.714 560 16 5 2 554 69561189 69560631 0.000000e+00 894.0
17 TraesCS4B01G212200 chr2B 87.500 576 45 12 4 555 139356158 139355586 8.040000e-180 640.0
18 TraesCS4B01G212200 chr2B 87.263 581 39 20 3 555 106167821 106168394 4.840000e-177 630.0
19 TraesCS4B01G212200 chr2B 95.582 249 10 1 308 555 604984708 604984460 5.340000e-107 398.0
20 TraesCS4B01G212200 chr2B 97.653 213 3 2 1 211 604985163 604984951 5.420000e-97 364.0
21 TraesCS4B01G212200 chr2B 93.443 183 9 2 553 732 604984419 604984237 4.370000e-68 268.0
22 TraesCS4B01G212200 chr2B 90.419 167 16 0 554 720 139355547 139355381 1.240000e-53 220.0
23 TraesCS4B01G212200 chr5B 95.683 556 21 3 1 555 488220419 488219866 0.000000e+00 891.0
24 TraesCS4B01G212200 chr5B 95.858 169 7 0 553 721 488219826 488219658 9.400000e-70 274.0
25 TraesCS4B01G212200 chr7B 95.512 557 21 4 1 555 43360521 43359967 0.000000e+00 887.0
26 TraesCS4B01G212200 chr7B 95.504 556 21 4 2 555 723800201 723799648 0.000000e+00 885.0
27 TraesCS4B01G212200 chr7B 95.238 168 7 1 553 720 43359926 43359760 5.650000e-67 265.0
28 TraesCS4B01G212200 chr7B 93.714 175 11 0 553 727 723799607 723799433 2.030000e-66 263.0
29 TraesCS4B01G212200 chr5D 86.885 61 8 0 1813 1873 460449122 460449182 4.760000e-08 69.4


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 TraesCS4B01G212200 chr4B 450481702 450484365 2663 True 4920.000000 4920 100.000000 1 2664 1 chr4B.!!$R1 2663
1 TraesCS4B01G212200 chr4B 450685773 450686680 907 True 1127.000000 1127 89.405000 793 1693 1 chr4B.!!$R2 900
2 TraesCS4B01G212200 chr4B 450105403 450106353 950 False 1098.000000 1098 87.757000 799 1749 1 chr4B.!!$F1 950
3 TraesCS4B01G212200 chr4D 365863653 365865316 1663 True 1139.000000 1541 91.551500 793 2664 2 chr4D.!!$R3 1871
4 TraesCS4B01G212200 chr4D 365217228 365218029 801 False 1107.000000 1107 91.565000 794 1604 1 chr4D.!!$F1 810
5 TraesCS4B01G212200 chr4D 366218971 366219939 968 True 1086.000000 1086 87.538000 813 1757 1 chr4D.!!$R1 944
6 TraesCS4B01G212200 chr4D 306822465 306823247 782 False 414.000000 604 88.479500 1 721 2 chr4D.!!$F2 720
7 TraesCS4B01G212200 chr4A 99004934 99006486 1552 False 1146.500000 1519 92.930000 1014 2664 2 chr4A.!!$F3 1650
8 TraesCS4B01G212200 chr4A 98785195 98787861 2666 False 942.500000 1083 88.116000 793 1693 2 chr4A.!!$F2 900
9 TraesCS4B01G212200 chr2B 69560631 69561189 558 True 894.000000 894 95.714000 2 554 1 chr2B.!!$R1 552
10 TraesCS4B01G212200 chr2B 106167821 106168394 573 False 630.000000 630 87.263000 3 555 1 chr2B.!!$F1 552
11 TraesCS4B01G212200 chr2B 139355381 139356158 777 True 430.000000 640 88.959500 4 720 2 chr2B.!!$R2 716
12 TraesCS4B01G212200 chr2B 604984237 604985163 926 True 343.333333 398 95.559333 1 732 3 chr2B.!!$R3 731
13 TraesCS4B01G212200 chr5B 488219658 488220419 761 True 582.500000 891 95.770500 1 721 2 chr5B.!!$R1 720
14 TraesCS4B01G212200 chr7B 43359760 43360521 761 True 576.000000 887 95.375000 1 720 2 chr7B.!!$R1 719
15 TraesCS4B01G212200 chr7B 723799433 723800201 768 True 574.000000 885 94.609000 2 727 2 chr7B.!!$R2 725

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
944 1194 0.248843 CTGCTTTCTCCTTCTCCGCT 59.751 55.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2008 2347 0.107945 ATTCCTCAAGCCTGACGAGC 60.108 55.0 0.0 0.0 0.0 5.03 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
288 343 2.376518 TCTAGGATGGCATCAATTCCCC 59.623 50.000 27.39 10.21 0.00 4.81
426 623 7.574967 GCATAGCACACACTTGGTAACTTTTAT 60.575 37.037 0.00 0.00 33.35 1.40
694 940 6.944400 CGTACGTACAAGTTGCTTAAATACAC 59.056 38.462 24.50 0.00 0.00 2.90
712 958 4.532314 ACACACTAGTTGGTAGTTAGCC 57.468 45.455 0.00 0.00 40.27 3.93
723 969 4.941713 TGGTAGTTAGCCCAATCCATTTT 58.058 39.130 0.00 0.00 0.00 1.82
724 970 5.337788 TGGTAGTTAGCCCAATCCATTTTT 58.662 37.500 0.00 0.00 0.00 1.94
725 971 6.494952 TGGTAGTTAGCCCAATCCATTTTTA 58.505 36.000 0.00 0.00 0.00 1.52
726 972 6.954684 TGGTAGTTAGCCCAATCCATTTTTAA 59.045 34.615 0.00 0.00 0.00 1.52
727 973 7.455008 TGGTAGTTAGCCCAATCCATTTTTAAA 59.545 33.333 0.00 0.00 0.00 1.52
728 974 8.315482 GGTAGTTAGCCCAATCCATTTTTAAAA 58.685 33.333 0.00 0.00 0.00 1.52
729 975 9.884636 GTAGTTAGCCCAATCCATTTTTAAAAT 57.115 29.630 0.55 0.00 0.00 1.82
733 979 9.898152 TTAGCCCAATCCATTTTTAAAATAAGG 57.102 29.630 0.55 4.70 0.00 2.69
734 980 7.345691 AGCCCAATCCATTTTTAAAATAAGGG 58.654 34.615 0.55 10.31 0.00 3.95
735 981 7.036935 AGCCCAATCCATTTTTAAAATAAGGGT 60.037 33.333 17.59 6.68 32.71 4.34
736 982 7.282224 GCCCAATCCATTTTTAAAATAAGGGTC 59.718 37.037 17.59 11.13 32.71 4.46
737 983 7.494298 CCCAATCCATTTTTAAAATAAGGGTCG 59.506 37.037 0.55 0.00 0.00 4.79
738 984 7.494298 CCAATCCATTTTTAAAATAAGGGTCGG 59.506 37.037 0.55 0.00 0.00 4.79
739 985 7.727578 ATCCATTTTTAAAATAAGGGTCGGT 57.272 32.000 0.55 0.00 0.00 4.69
740 986 6.926313 TCCATTTTTAAAATAAGGGTCGGTG 58.074 36.000 0.55 0.00 0.00 4.94
741 987 5.579119 CCATTTTTAAAATAAGGGTCGGTGC 59.421 40.000 0.55 0.00 0.00 5.01
742 988 5.786264 TTTTTAAAATAAGGGTCGGTGCA 57.214 34.783 0.55 0.00 0.00 4.57
743 989 5.986501 TTTTAAAATAAGGGTCGGTGCAT 57.013 34.783 0.00 0.00 0.00 3.96
744 990 5.570234 TTTAAAATAAGGGTCGGTGCATC 57.430 39.130 0.00 0.00 0.00 3.91
745 991 3.366052 AAAATAAGGGTCGGTGCATCT 57.634 42.857 0.00 0.00 0.00 2.90
746 992 3.366052 AAATAAGGGTCGGTGCATCTT 57.634 42.857 0.00 0.00 0.00 2.40
747 993 3.366052 AATAAGGGTCGGTGCATCTTT 57.634 42.857 0.00 0.00 0.00 2.52
748 994 2.871096 TAAGGGTCGGTGCATCTTTT 57.129 45.000 0.00 0.00 0.00 2.27
749 995 1.247567 AAGGGTCGGTGCATCTTTTG 58.752 50.000 0.00 0.00 0.00 2.44
783 1029 3.411415 GCATCAGCGCAAATCTACTTT 57.589 42.857 11.47 0.00 0.00 2.66
784 1030 3.762779 GCATCAGCGCAAATCTACTTTT 58.237 40.909 11.47 0.00 0.00 2.27
785 1031 4.168760 GCATCAGCGCAAATCTACTTTTT 58.831 39.130 11.47 0.00 0.00 1.94
877 1123 1.358759 GCCCAACCAACGAACACAG 59.641 57.895 0.00 0.00 0.00 3.66
894 1140 1.025113 CAGTCCAGCGACCTCGAGTA 61.025 60.000 12.31 0.00 43.02 2.59
901 1147 1.201098 GCGACCTCGAGTATTCACGC 61.201 60.000 12.31 13.93 43.02 5.34
925 1172 4.712122 AGACGAGAGAATTCTCCAGAAC 57.288 45.455 28.01 19.75 45.85 3.01
942 1192 2.028567 AGAACTGCTTTCTCCTTCTCCG 60.029 50.000 0.00 0.00 40.98 4.63
944 1194 0.248843 CTGCTTTCTCCTTCTCCGCT 59.751 55.000 0.00 0.00 0.00 5.52
972 1223 7.238486 TCATCCCAGCTCTCTATAAATTCTC 57.762 40.000 0.00 0.00 0.00 2.87
996 1247 0.801067 GTCCCGATCGACAGAAACCG 60.801 60.000 18.66 0.00 32.74 4.44
1009 1261 4.372656 ACAGAAACCGAAGAAAGTCTGAG 58.627 43.478 5.54 0.00 36.75 3.35
1084 1343 0.652592 CACCAGCCAAATCGTCGATC 59.347 55.000 8.45 0.00 0.00 3.69
1086 1345 0.461870 CCAGCCAAATCGTCGATCCA 60.462 55.000 8.45 0.00 0.00 3.41
1102 1361 1.751927 CCATTCCACCAGCAGCTCC 60.752 63.158 0.00 0.00 0.00 4.70
1110 1369 2.679092 CAGCAGCTCCAATCCCCA 59.321 61.111 0.00 0.00 0.00 4.96
1111 1370 1.751927 CAGCAGCTCCAATCCCCAC 60.752 63.158 0.00 0.00 0.00 4.61
1112 1371 2.440980 GCAGCTCCAATCCCCACC 60.441 66.667 0.00 0.00 0.00 4.61
1113 1372 2.124570 CAGCTCCAATCCCCACCG 60.125 66.667 0.00 0.00 0.00 4.94
1114 1373 2.285368 AGCTCCAATCCCCACCGA 60.285 61.111 0.00 0.00 0.00 4.69
1115 1374 1.694169 AGCTCCAATCCCCACCGAT 60.694 57.895 0.00 0.00 0.00 4.18
1116 1375 0.399949 AGCTCCAATCCCCACCGATA 60.400 55.000 0.00 0.00 0.00 2.92
1117 1376 0.250338 GCTCCAATCCCCACCGATAC 60.250 60.000 0.00 0.00 0.00 2.24
1118 1377 0.033504 CTCCAATCCCCACCGATACG 59.966 60.000 0.00 0.00 0.00 3.06
1155 1423 4.605967 CGCCGCAGCAACGTGTTT 62.606 61.111 0.00 0.00 39.83 2.83
1211 1479 4.162690 CTTCCCCTTCGGCTCCGG 62.163 72.222 8.59 0.00 40.25 5.14
1216 1484 4.697756 CCTTCGGCTCCGGCAACA 62.698 66.667 8.59 0.00 40.87 3.33
1422 1699 0.709992 AGGAGCAGGAGGAGAAGACT 59.290 55.000 0.00 0.00 0.00 3.24
1553 1830 4.619227 CGTCACCGTGCCCAAGGT 62.619 66.667 0.00 0.00 43.97 3.50
1587 1864 0.833287 CCGAGGTCAAGTCCATCCAT 59.167 55.000 0.00 0.00 0.00 3.41
1794 2123 2.541233 ACTGGCTCTGTACTCCATCT 57.459 50.000 0.00 0.00 0.00 2.90
1800 2129 2.898705 CTCTGTACTCCATCTGCAACC 58.101 52.381 0.00 0.00 0.00 3.77
1940 2279 4.593864 GAGCTTAGGCGCCTCCCG 62.594 72.222 36.73 22.88 44.37 5.14
1950 2289 4.864334 GCCTCCCGGATGCTGGTG 62.864 72.222 0.73 0.00 0.00 4.17
1952 2291 3.402681 CTCCCGGATGCTGGTGGT 61.403 66.667 0.73 0.00 0.00 4.16
1953 2292 2.039787 TCCCGGATGCTGGTGGTA 59.960 61.111 0.73 0.00 0.00 3.25
1954 2293 2.032860 CTCCCGGATGCTGGTGGTAG 62.033 65.000 0.73 0.00 0.00 3.18
1956 2295 2.063979 CCGGATGCTGGTGGTAGGA 61.064 63.158 0.00 0.00 0.00 2.94
1957 2296 1.443407 CGGATGCTGGTGGTAGGAG 59.557 63.158 0.00 0.00 0.00 3.69
1958 2297 1.832912 GGATGCTGGTGGTAGGAGG 59.167 63.158 0.00 0.00 0.00 4.30
1960 2299 0.755686 GATGCTGGTGGTAGGAGGAG 59.244 60.000 0.00 0.00 0.00 3.69
1961 2300 1.341156 ATGCTGGTGGTAGGAGGAGC 61.341 60.000 0.00 0.00 0.00 4.70
1962 2301 1.990060 GCTGGTGGTAGGAGGAGCA 60.990 63.158 0.00 0.00 0.00 4.26
1963 2302 1.901085 CTGGTGGTAGGAGGAGCAC 59.099 63.158 0.00 0.00 45.15 4.40
1964 2303 1.949847 CTGGTGGTAGGAGGAGCACG 61.950 65.000 0.20 0.00 46.49 5.34
1965 2304 2.722201 GGTGGTAGGAGGAGCACGG 61.722 68.421 0.20 0.00 46.49 4.94
1966 2305 3.075005 TGGTAGGAGGAGCACGGC 61.075 66.667 0.00 0.00 0.00 5.68
1967 2306 4.208686 GGTAGGAGGAGCACGGCG 62.209 72.222 4.80 4.80 0.00 6.46
1968 2307 3.138798 GTAGGAGGAGCACGGCGA 61.139 66.667 16.62 0.00 0.00 5.54
1969 2308 2.829003 TAGGAGGAGCACGGCGAG 60.829 66.667 16.62 7.03 0.00 5.03
1994 2333 4.057428 GGACGACGAGCAGCCAGT 62.057 66.667 0.00 0.00 0.00 4.00
1995 2334 2.505118 GACGACGAGCAGCCAGTC 60.505 66.667 0.00 7.59 0.00 3.51
1999 2338 2.986413 ACGAGCAGCCAGTCGTCT 60.986 61.111 2.47 0.00 46.17 4.18
2000 2339 2.259818 CGAGCAGCCAGTCGTCTT 59.740 61.111 0.00 0.00 0.00 3.01
2001 2340 1.803519 CGAGCAGCCAGTCGTCTTC 60.804 63.158 0.00 0.00 0.00 2.87
2002 2341 1.446966 GAGCAGCCAGTCGTCTTCC 60.447 63.158 0.00 0.00 0.00 3.46
2003 2342 2.435059 GCAGCCAGTCGTCTTCCC 60.435 66.667 0.00 0.00 0.00 3.97
2004 2343 2.125912 CAGCCAGTCGTCTTCCCG 60.126 66.667 0.00 0.00 0.00 5.14
2005 2344 3.382832 AGCCAGTCGTCTTCCCGG 61.383 66.667 0.00 0.00 0.00 5.73
2006 2345 3.692406 GCCAGTCGTCTTCCCGGT 61.692 66.667 0.00 0.00 0.00 5.28
2007 2346 3.057337 CCAGTCGTCTTCCCGGTT 58.943 61.111 0.00 0.00 0.00 4.44
2008 2347 1.374252 CCAGTCGTCTTCCCGGTTG 60.374 63.158 0.00 0.00 0.00 3.77
2009 2348 2.027625 CAGTCGTCTTCCCGGTTGC 61.028 63.158 0.00 0.00 0.00 4.17
2010 2349 2.207924 AGTCGTCTTCCCGGTTGCT 61.208 57.895 0.00 0.00 0.00 3.91
2011 2350 1.737008 GTCGTCTTCCCGGTTGCTC 60.737 63.158 0.00 0.00 0.00 4.26
2012 2351 2.809601 CGTCTTCCCGGTTGCTCG 60.810 66.667 0.00 0.00 0.00 5.03
2013 2352 2.342648 GTCTTCCCGGTTGCTCGT 59.657 61.111 0.00 0.00 0.00 4.18
2014 2353 1.737008 GTCTTCCCGGTTGCTCGTC 60.737 63.158 0.00 0.00 0.00 4.20
2015 2354 2.204461 TCTTCCCGGTTGCTCGTCA 61.204 57.895 0.00 0.00 0.00 4.35
2016 2355 1.738099 CTTCCCGGTTGCTCGTCAG 60.738 63.158 0.00 0.00 0.00 3.51
2017 2356 3.234630 TTCCCGGTTGCTCGTCAGG 62.235 63.158 0.00 0.00 0.00 3.86
2019 2358 4.379243 CCGGTTGCTCGTCAGGCT 62.379 66.667 0.00 0.00 0.00 4.58
2020 2359 2.357517 CGGTTGCTCGTCAGGCTT 60.358 61.111 0.00 0.00 0.00 4.35
2021 2360 2.671177 CGGTTGCTCGTCAGGCTTG 61.671 63.158 0.00 0.00 0.00 4.01
2029 2368 2.418746 GCTCGTCAGGCTTGAGGAATTA 60.419 50.000 19.87 0.81 44.83 1.40
2042 2381 1.657162 AGGAATTAGTGGAGGAGGGGA 59.343 52.381 0.00 0.00 0.00 4.81
2052 2391 2.835895 GGAGGGGACGAGGAGCTC 60.836 72.222 4.71 4.71 0.00 4.09
2084 2423 0.878523 TCGGTGTCTTTTGTCAGCCG 60.879 55.000 0.00 0.00 35.47 5.52
2089 2428 0.586802 GTCTTTTGTCAGCCGTGTCC 59.413 55.000 0.00 0.00 0.00 4.02
2094 2433 4.008933 GTCAGCCGTGTCCTGCCT 62.009 66.667 0.00 0.00 0.00 4.75
2112 2453 0.247814 CTGAGCTATGTTTTGCGCCG 60.248 55.000 4.18 0.00 0.00 6.46
2119 2460 4.322385 GTTTTGCGCCGGCGTTCT 62.322 61.111 45.02 0.00 44.10 3.01
2124 2465 3.192922 GCGCCGGCGTTCTGTATT 61.193 61.111 45.02 0.00 42.09 1.89
2344 3000 4.087892 CTCCCCTGTCTGGCCACG 62.088 72.222 0.00 0.00 0.00 4.94
2347 3003 4.394712 CCCTGTCTGGCCACGTCC 62.395 72.222 0.00 0.00 0.00 4.79
2359 3015 1.035932 CCACGTCCTACATCTCCCGT 61.036 60.000 0.00 0.00 0.00 5.28
2429 3562 0.102663 GGAGATCTCGGGTCCGTTTC 59.897 60.000 16.46 5.34 40.74 2.78
2640 3774 1.909302 AGAAGCTGGAATCCGGAAGAA 59.091 47.619 13.24 0.00 29.82 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 74 1.693467 TGCTACTTAGACACGCGTTG 58.307 50.000 10.22 8.21 0.00 4.10
519 718 1.961394 TGTAGCTCAAACCGTCACTCT 59.039 47.619 0.00 0.00 0.00 3.24
523 722 1.871039 GCTTTGTAGCTCAAACCGTCA 59.129 47.619 0.00 0.00 44.27 4.35
555 754 8.822855 CACATTGATTAAGCATGCATACAAAAT 58.177 29.630 21.98 9.85 0.00 1.82
678 924 7.501225 ACCAACTAGTGTGTATTTAAGCAACTT 59.499 33.333 0.00 0.00 0.00 2.66
679 925 6.996282 ACCAACTAGTGTGTATTTAAGCAACT 59.004 34.615 0.00 0.00 0.00 3.16
694 940 4.546829 TTGGGCTAACTACCAACTAGTG 57.453 45.455 0.00 0.00 41.56 2.74
712 958 7.494298 CCGACCCTTATTTTAAAAATGGATTGG 59.506 37.037 4.44 4.44 0.00 3.16
723 969 4.850680 AGATGCACCGACCCTTATTTTAA 58.149 39.130 0.00 0.00 0.00 1.52
724 970 4.497291 AGATGCACCGACCCTTATTTTA 57.503 40.909 0.00 0.00 0.00 1.52
725 971 3.366052 AGATGCACCGACCCTTATTTT 57.634 42.857 0.00 0.00 0.00 1.82
726 972 3.366052 AAGATGCACCGACCCTTATTT 57.634 42.857 0.00 0.00 0.00 1.40
727 973 3.366052 AAAGATGCACCGACCCTTATT 57.634 42.857 0.00 0.00 0.00 1.40
728 974 3.016736 CAAAAGATGCACCGACCCTTAT 58.983 45.455 0.00 0.00 0.00 1.73
729 975 2.432444 CAAAAGATGCACCGACCCTTA 58.568 47.619 0.00 0.00 0.00 2.69
730 976 1.247567 CAAAAGATGCACCGACCCTT 58.752 50.000 0.00 0.00 0.00 3.95
731 977 2.946947 CAAAAGATGCACCGACCCT 58.053 52.632 0.00 0.00 0.00 4.34
752 998 3.456280 TGCGCTGATGCTTTTTCTTTTT 58.544 36.364 9.73 0.00 36.97 1.94
753 999 3.096489 TGCGCTGATGCTTTTTCTTTT 57.904 38.095 9.73 0.00 36.97 2.27
754 1000 2.798976 TGCGCTGATGCTTTTTCTTT 57.201 40.000 9.73 0.00 36.97 2.52
755 1001 2.798976 TTGCGCTGATGCTTTTTCTT 57.201 40.000 9.73 0.00 36.97 2.52
756 1002 2.798976 TTTGCGCTGATGCTTTTTCT 57.201 40.000 9.73 0.00 36.97 2.52
757 1003 3.248266 AGATTTGCGCTGATGCTTTTTC 58.752 40.909 9.73 0.00 36.97 2.29
758 1004 3.308438 AGATTTGCGCTGATGCTTTTT 57.692 38.095 9.73 0.00 36.97 1.94
759 1005 3.441572 AGTAGATTTGCGCTGATGCTTTT 59.558 39.130 9.73 0.00 36.97 2.27
760 1006 3.012518 AGTAGATTTGCGCTGATGCTTT 58.987 40.909 9.73 0.00 36.97 3.51
761 1007 2.636830 AGTAGATTTGCGCTGATGCTT 58.363 42.857 9.73 0.00 36.97 3.91
762 1008 2.322355 AGTAGATTTGCGCTGATGCT 57.678 45.000 9.73 2.14 36.97 3.79
763 1009 3.411415 AAAGTAGATTTGCGCTGATGC 57.589 42.857 9.73 0.00 0.00 3.91
786 1032 6.149474 GGACTCTGCAGTAGATTTGCTAAAAA 59.851 38.462 14.67 0.00 42.02 1.94
787 1033 5.643777 GGACTCTGCAGTAGATTTGCTAAAA 59.356 40.000 14.67 0.00 42.02 1.52
788 1034 5.178797 GGACTCTGCAGTAGATTTGCTAAA 58.821 41.667 14.67 0.00 42.02 1.85
789 1035 4.222810 TGGACTCTGCAGTAGATTTGCTAA 59.777 41.667 14.67 0.00 42.02 3.09
790 1036 3.769300 TGGACTCTGCAGTAGATTTGCTA 59.231 43.478 14.67 0.00 42.02 3.49
791 1037 2.568956 TGGACTCTGCAGTAGATTTGCT 59.431 45.455 14.67 0.00 42.02 3.91
877 1123 0.739561 AATACTCGAGGTCGCTGGAC 59.260 55.000 18.41 0.00 42.66 4.02
894 1140 0.803117 TCTCTCGTCTTCGCGTGAAT 59.197 50.000 12.53 0.00 34.66 2.57
925 1172 0.248843 AGCGGAGAAGGAGAAAGCAG 59.751 55.000 0.00 0.00 0.00 4.24
942 1192 7.831691 TTATAGAGAGCTGGGATGATATAGC 57.168 40.000 0.00 0.00 36.45 2.97
996 1247 3.500299 GGTGCTTTCCTCAGACTTTCTTC 59.500 47.826 0.00 0.00 0.00 2.87
1009 1261 1.131315 GCTCTTTGATCGGTGCTTTCC 59.869 52.381 0.00 0.00 0.00 3.13
1084 1343 1.751927 GGAGCTGCTGGTGGAATGG 60.752 63.158 7.01 0.00 0.00 3.16
1086 1345 0.333993 ATTGGAGCTGCTGGTGGAAT 59.666 50.000 7.01 0.00 0.00 3.01
1102 1361 0.249741 GGTCGTATCGGTGGGGATTG 60.250 60.000 0.00 0.00 0.00 2.67
1110 1369 0.813184 ACATTGTCGGTCGTATCGGT 59.187 50.000 0.00 0.00 0.00 4.69
1111 1370 1.474017 GACATTGTCGGTCGTATCGG 58.526 55.000 0.13 0.00 0.00 4.18
1155 1423 1.305046 GTCGAGGGAGAAGGGGTCA 60.305 63.158 0.00 0.00 0.00 4.02
1452 1729 4.693532 CTGCGCAGGAACTTACCA 57.306 55.556 29.88 0.00 34.60 3.25
1587 1864 1.003233 TCATCGCTCTAGCCGGAGATA 59.997 52.381 5.05 0.00 37.91 1.98
1794 2123 3.942748 GGTAATGGATTTACTCGGTTGCA 59.057 43.478 0.00 0.00 40.14 4.08
1800 2129 5.463724 GCAGAGAAGGTAATGGATTTACTCG 59.536 44.000 0.00 0.00 40.14 4.18
1938 2277 2.032860 CTCCTACCACCAGCATCCGG 62.033 65.000 0.00 0.00 0.00 5.14
1940 2279 0.691078 TCCTCCTACCACCAGCATCC 60.691 60.000 0.00 0.00 0.00 3.51
1941 2280 0.755686 CTCCTCCTACCACCAGCATC 59.244 60.000 0.00 0.00 0.00 3.91
1942 2281 1.341156 GCTCCTCCTACCACCAGCAT 61.341 60.000 0.00 0.00 0.00 3.79
1945 2284 1.901085 GTGCTCCTCCTACCACCAG 59.099 63.158 0.00 0.00 0.00 4.00
1946 2285 1.982395 CGTGCTCCTCCTACCACCA 60.982 63.158 0.00 0.00 0.00 4.17
1947 2286 2.722201 CCGTGCTCCTCCTACCACC 61.722 68.421 0.00 0.00 0.00 4.61
1948 2287 2.893398 CCGTGCTCCTCCTACCAC 59.107 66.667 0.00 0.00 0.00 4.16
1949 2288 3.075005 GCCGTGCTCCTCCTACCA 61.075 66.667 0.00 0.00 0.00 3.25
1950 2289 4.208686 CGCCGTGCTCCTCCTACC 62.209 72.222 0.00 0.00 0.00 3.18
1952 2291 2.829003 CTCGCCGTGCTCCTCCTA 60.829 66.667 0.00 0.00 0.00 2.94
1972 2311 4.838486 CTGCTCGTCGTCCGCCTC 62.838 72.222 0.00 0.00 36.19 4.70
1977 2316 3.973267 GACTGGCTGCTCGTCGTCC 62.973 68.421 0.00 0.00 0.00 4.79
1978 2317 2.505118 GACTGGCTGCTCGTCGTC 60.505 66.667 0.00 0.00 0.00 4.20
1979 2318 4.406173 CGACTGGCTGCTCGTCGT 62.406 66.667 24.87 7.50 43.82 4.34
1982 2321 2.479412 GAAGACGACTGGCTGCTCGT 62.479 60.000 14.09 14.09 45.62 4.18
1983 2322 1.803519 GAAGACGACTGGCTGCTCG 60.804 63.158 8.04 8.04 35.96 5.03
1984 2323 1.446966 GGAAGACGACTGGCTGCTC 60.447 63.158 0.00 0.00 0.00 4.26
1985 2324 2.659610 GGAAGACGACTGGCTGCT 59.340 61.111 0.00 0.00 0.00 4.24
1986 2325 2.435059 GGGAAGACGACTGGCTGC 60.435 66.667 0.00 0.00 0.00 5.25
1987 2326 2.125912 CGGGAAGACGACTGGCTG 60.126 66.667 0.00 0.00 35.47 4.85
1988 2327 3.382832 CCGGGAAGACGACTGGCT 61.383 66.667 0.00 0.00 35.47 4.75
1989 2328 3.236003 AACCGGGAAGACGACTGGC 62.236 63.158 6.32 0.00 36.57 4.85
1990 2329 1.374252 CAACCGGGAAGACGACTGG 60.374 63.158 6.32 0.00 39.10 4.00
1991 2330 2.027625 GCAACCGGGAAGACGACTG 61.028 63.158 6.32 0.00 35.47 3.51
1992 2331 2.156051 GAGCAACCGGGAAGACGACT 62.156 60.000 6.32 0.00 35.47 4.18
1993 2332 1.737008 GAGCAACCGGGAAGACGAC 60.737 63.158 6.32 0.00 35.47 4.34
1994 2333 2.654877 GAGCAACCGGGAAGACGA 59.345 61.111 6.32 0.00 35.47 4.20
1995 2334 2.809601 CGAGCAACCGGGAAGACG 60.810 66.667 6.32 1.94 0.00 4.18
1996 2335 1.737008 GACGAGCAACCGGGAAGAC 60.737 63.158 6.32 0.00 0.00 3.01
1997 2336 2.154798 CTGACGAGCAACCGGGAAGA 62.155 60.000 6.32 0.00 0.00 2.87
1998 2337 1.738099 CTGACGAGCAACCGGGAAG 60.738 63.158 6.32 0.00 0.00 3.46
1999 2338 2.342279 CTGACGAGCAACCGGGAA 59.658 61.111 6.32 0.00 0.00 3.97
2000 2339 3.691342 CCTGACGAGCAACCGGGA 61.691 66.667 6.32 0.00 0.00 5.14
2002 2341 3.883744 AAGCCTGACGAGCAACCGG 62.884 63.158 0.00 0.00 0.00 5.28
2003 2342 2.357517 AAGCCTGACGAGCAACCG 60.358 61.111 0.00 0.00 0.00 4.44
2004 2343 1.294659 CTCAAGCCTGACGAGCAACC 61.295 60.000 0.00 0.00 0.00 3.77
2005 2344 1.294659 CCTCAAGCCTGACGAGCAAC 61.295 60.000 0.00 0.00 0.00 4.17
2006 2345 1.004560 CCTCAAGCCTGACGAGCAA 60.005 57.895 0.00 0.00 0.00 3.91
2007 2346 1.471829 TTCCTCAAGCCTGACGAGCA 61.472 55.000 0.00 0.00 0.00 4.26
2008 2347 0.107945 ATTCCTCAAGCCTGACGAGC 60.108 55.000 0.00 0.00 0.00 5.03
2009 2348 2.393271 AATTCCTCAAGCCTGACGAG 57.607 50.000 0.00 0.00 0.00 4.18
2010 2349 2.832129 ACTAATTCCTCAAGCCTGACGA 59.168 45.455 0.00 0.00 0.00 4.20
2011 2350 2.932614 CACTAATTCCTCAAGCCTGACG 59.067 50.000 0.00 0.00 0.00 4.35
2012 2351 3.055094 TCCACTAATTCCTCAAGCCTGAC 60.055 47.826 0.00 0.00 0.00 3.51
2013 2352 3.181329 TCCACTAATTCCTCAAGCCTGA 58.819 45.455 0.00 0.00 0.00 3.86
2014 2353 3.539604 CTCCACTAATTCCTCAAGCCTG 58.460 50.000 0.00 0.00 0.00 4.85
2015 2354 2.507471 CCTCCACTAATTCCTCAAGCCT 59.493 50.000 0.00 0.00 0.00 4.58
2016 2355 2.505819 TCCTCCACTAATTCCTCAAGCC 59.494 50.000 0.00 0.00 0.00 4.35
2017 2356 3.432890 CCTCCTCCACTAATTCCTCAAGC 60.433 52.174 0.00 0.00 0.00 4.01
2018 2357 3.135530 CCCTCCTCCACTAATTCCTCAAG 59.864 52.174 0.00 0.00 0.00 3.02
2019 2358 3.115390 CCCTCCTCCACTAATTCCTCAA 58.885 50.000 0.00 0.00 0.00 3.02
2020 2359 2.629639 CCCCTCCTCCACTAATTCCTCA 60.630 54.545 0.00 0.00 0.00 3.86
2021 2360 2.050918 CCCCTCCTCCACTAATTCCTC 58.949 57.143 0.00 0.00 0.00 3.71
2029 2368 2.360980 CTCGTCCCCTCCTCCACT 59.639 66.667 0.00 0.00 0.00 4.00
2059 2398 2.110213 AAAAGACACCGAGGCGCA 59.890 55.556 10.83 0.00 0.00 6.09
2084 2423 0.539051 ACATAGCTCAGGCAGGACAC 59.461 55.000 0.00 0.00 41.70 3.67
2089 2428 1.202110 CGCAAAACATAGCTCAGGCAG 60.202 52.381 0.00 0.00 41.70 4.85
2094 2433 1.643868 CCGGCGCAAAACATAGCTCA 61.644 55.000 10.83 0.00 0.00 4.26
2112 2453 3.365969 CCCTTTTGACAATACAGAACGCC 60.366 47.826 0.00 0.00 0.00 5.68
2119 2460 0.885196 GCGGCCCTTTTGACAATACA 59.115 50.000 0.00 0.00 0.00 2.29
2124 2465 4.257654 TCCGCGGCCCTTTTGACA 62.258 61.111 23.51 0.00 0.00 3.58
2249 2619 2.440796 CCAGCGGTGGCAATGGAT 60.441 61.111 22.48 0.00 43.41 3.41
2275 2645 1.737201 GAGAAGTCTCGCTAGCCCC 59.263 63.158 9.66 0.00 32.78 5.80
2344 3000 0.945813 CGAGACGGGAGATGTAGGAC 59.054 60.000 0.00 0.00 0.00 3.85
2347 3003 0.582482 CGACGAGACGGGAGATGTAG 59.418 60.000 0.00 0.00 0.00 2.74
2421 3554 2.704193 CGCGACTGACGAAACGGAC 61.704 63.158 0.00 0.00 45.77 4.79
2429 3562 2.391821 GTTGCATCGCGACTGACG 59.608 61.111 12.93 0.00 39.63 4.35
2509 3643 4.361971 TGGGCTCTCGTCGAGGGT 62.362 66.667 22.71 0.00 40.25 4.34


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

AutoCloner maintained by Alex Coulton.