Multiple sequence alignment - TraesCS6D01G071500

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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 TraesCS6D01G071500 chr6D 100.000 4247 0 0 1 4247 36126065 36121819 0.000000e+00 7843.0
1 TraesCS6D01G071500 chr6D 72.695 1117 245 50 987 2076 28658347 28657264 6.850000e-83 318.0
2 TraesCS6D01G071500 chr6D 73.237 964 213 32 1015 1966 29094606 29093676 4.120000e-80 309.0
3 TraesCS6D01G071500 chr6D 90.164 122 10 2 3870 3990 35713693 35713813 1.580000e-34 158.0
4 TraesCS6D01G071500 chr6D 79.279 222 40 5 1829 2047 27534048 27533830 2.650000e-32 150.0
5 TraesCS6D01G071500 chr6D 84.000 125 18 2 1832 1955 28304365 28304242 7.460000e-23 119.0
6 TraesCS6D01G071500 chr6D 97.368 38 1 0 2023 2060 36123977 36123940 9.860000e-07 65.8
7 TraesCS6D01G071500 chr6D 97.368 38 1 0 2089 2126 36124043 36124006 9.860000e-07 65.8
8 TraesCS6D01G071500 chr6B 95.045 2119 67 12 873 2975 75671237 75669141 0.000000e+00 3297.0
9 TraesCS6D01G071500 chr6B 92.775 1301 54 20 2975 4247 75668522 75667234 0.000000e+00 1845.0
10 TraesCS6D01G071500 chr6B 92.759 511 22 7 1 500 75684032 75683526 0.000000e+00 725.0
11 TraesCS6D01G071500 chr6B 71.861 1091 245 45 1026 2085 54148989 54150048 1.520000e-64 257.0
12 TraesCS6D01G071500 chr6B 76.724 464 88 13 993 1449 60657166 60657616 1.530000e-59 241.0
13 TraesCS6D01G071500 chr6B 92.763 152 10 1 528 679 75683527 75683377 7.150000e-53 219.0
14 TraesCS6D01G071500 chr6B 80.075 266 46 6 1829 2090 51310796 51310534 1.560000e-44 191.0
15 TraesCS6D01G071500 chr6B 85.350 157 17 4 460 612 642914216 642914062 1.580000e-34 158.0
16 TraesCS6D01G071500 chr6B 76.316 266 47 12 1829 2090 52360502 52360249 1.240000e-25 128.0
17 TraesCS6D01G071500 chr6B 95.000 60 3 0 816 875 75670604 75670545 1.260000e-15 95.3
18 TraesCS6D01G071500 chr6B 87.179 78 8 2 3793 3868 203990409 203990486 2.100000e-13 87.9
19 TraesCS6D01G071500 chr6B 97.368 38 1 0 2023 2060 75670041 75670004 9.860000e-07 65.8
20 TraesCS6D01G071500 chr6B 97.368 38 1 0 2089 2126 75670107 75670070 9.860000e-07 65.8
21 TraesCS6D01G071500 chr6B 95.000 40 2 0 2277 2316 75669561 75669600 3.550000e-06 63.9
22 TraesCS6D01G071500 chr6A 95.798 1285 41 3 873 2157 39949912 39948641 0.000000e+00 2061.0
23 TraesCS6D01G071500 chr6A 94.299 1298 42 7 2975 4247 39940349 39939059 0.000000e+00 1958.0
24 TraesCS6D01G071500 chr6A 97.034 843 11 3 2150 2979 39941794 39940953 0.000000e+00 1406.0
25 TraesCS6D01G071500 chr6A 94.301 579 21 8 1 572 39950893 39950320 0.000000e+00 876.0
26 TraesCS6D01G071500 chr6A 73.540 1062 234 35 1044 2090 30455129 30456158 1.120000e-95 361.0
27 TraesCS6D01G071500 chr6A 72.361 1118 247 52 987 2076 34029172 34030255 3.210000e-76 296.0
28 TraesCS6D01G071500 chr6A 81.164 292 52 2 1015 1306 33529899 33530187 9.180000e-57 231.0
29 TraesCS6D01G071500 chr6A 81.452 248 41 4 1024 1269 33304336 33304580 9.310000e-47 198.0
30 TraesCS6D01G071500 chr6A 76.336 262 56 5 1827 2085 29911493 29911235 7.410000e-28 135.0
31 TraesCS6D01G071500 chr6A 98.305 59 1 0 697 755 39949977 39949919 2.090000e-18 104.0
32 TraesCS6D01G071500 chr6A 93.548 62 3 1 816 876 39949272 39949211 1.630000e-14 91.6
33 TraesCS6D01G071500 chr6A 97.500 40 1 0 2277 2316 39941375 39941414 7.620000e-08 69.4
34 TraesCS6D01G071500 chr6A 97.368 38 1 0 2023 2060 39948709 39948672 9.860000e-07 65.8
35 TraesCS6D01G071500 chr6A 97.368 38 1 0 2089 2126 39948775 39948738 9.860000e-07 65.8
36 TraesCS6D01G071500 chrUn 85.606 264 29 7 1023 1283 102522636 102522379 7.000000e-68 268.0
37 TraesCS6D01G071500 chrUn 71.795 1092 256 42 1023 2086 96937964 96939031 3.260000e-66 263.0
38 TraesCS6D01G071500 chrUn 86.567 67 6 3 2912 2975 119864891 119864957 2.120000e-08 71.3
39 TraesCS6D01G071500 chr4B 86.813 182 13 9 460 636 18701930 18701755 4.330000e-45 193.0
40 TraesCS6D01G071500 chr4A 85.405 185 22 3 460 640 703654299 703654116 2.020000e-43 187.0
41 TraesCS6D01G071500 chr4A 94.340 53 1 2 754 805 692928153 692928204 3.520000e-11 80.5
42 TraesCS6D01G071500 chr4A 92.000 50 3 1 772 820 643277275 643277324 7.620000e-08 69.4
43 TraesCS6D01G071500 chr4A 92.000 50 3 1 772 820 643351316 643351365 7.620000e-08 69.4
44 TraesCS6D01G071500 chr4A 87.931 58 3 2 754 808 160233438 160233494 9.860000e-07 65.8
45 TraesCS6D01G071500 chr5A 85.795 176 21 3 458 631 641594980 641594807 2.610000e-42 183.0
46 TraesCS6D01G071500 chr5A 84.416 77 10 2 3794 3869 46012192 46012117 1.640000e-09 75.0
47 TraesCS6D01G071500 chr5A 94.286 35 2 0 1577 1611 606053943 606053977 2.000000e-03 54.7
48 TraesCS6D01G071500 chr7D 85.000 180 20 5 460 636 566463606 566463431 4.360000e-40 176.0
49 TraesCS6D01G071500 chr7D 84.530 181 22 3 461 637 632289100 632288922 1.570000e-39 174.0
50 TraesCS6D01G071500 chr7D 83.133 83 10 4 3790 3870 55377430 55377350 5.890000e-09 73.1
51 TraesCS6D01G071500 chr1A 82.081 173 25 3 469 638 571871874 571872043 4.430000e-30 143.0
52 TraesCS6D01G071500 chr7A 86.822 129 11 4 511 636 709764414 709764539 5.730000e-29 139.0
53 TraesCS6D01G071500 chr7A 89.744 78 6 2 3794 3870 229175534 229175458 9.720000e-17 99.0
54 TraesCS6D01G071500 chr7A 83.516 91 10 2 460 548 495538262 495538175 3.520000e-11 80.5
55 TraesCS6D01G071500 chr7A 93.617 47 2 1 772 818 632521114 632521159 7.620000e-08 69.4
56 TraesCS6D01G071500 chr3A 85.124 121 15 3 3871 3990 176045454 176045572 2.070000e-23 121.0
57 TraesCS6D01G071500 chr3A 85.593 118 14 3 3871 3987 176117292 176117407 2.070000e-23 121.0
58 TraesCS6D01G071500 chr3A 90.741 54 1 4 754 804 170234687 170234635 7.620000e-08 69.4
59 TraesCS6D01G071500 chr7B 87.342 79 8 2 3794 3871 537461397 537461474 5.850000e-14 89.8
60 TraesCS6D01G071500 chr3D 97.872 47 0 1 3871 3916 153512815 153512769 3.520000e-11 80.5
61 TraesCS6D01G071500 chr3D 86.364 66 7 2 2912 2975 255448417 255448482 2.120000e-08 71.3
62 TraesCS6D01G071500 chr5B 94.000 50 1 2 771 820 47504156 47504109 1.640000e-09 75.0
63 TraesCS6D01G071500 chr3B 87.500 64 8 0 2912 2975 377125141 377125204 1.640000e-09 75.0
64 TraesCS6D01G071500 chr4D 81.928 83 12 3 3790 3870 160742372 160742291 2.740000e-07 67.6
65 TraesCS6D01G071500 chr1D 81.928 83 12 3 3790 3871 189644704 189644784 2.740000e-07 67.6
66 TraesCS6D01G071500 chr1D 87.931 58 4 3 771 825 251295217 251295274 9.860000e-07 65.8
67 TraesCS6D01G071500 chr1B 85.714 63 5 2 752 811 302758597 302758536 3.550000e-06 63.9
68 TraesCS6D01G071500 chr5D 94.286 35 2 0 1577 1611 484416374 484416408 2.000000e-03 54.7


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 TraesCS6D01G071500 chr6D 36121819 36126065 4246 True 2658.200000 7843 98.245333 1 4247 3 chr6D.!!$R5 4246
1 TraesCS6D01G071500 chr6D 28657264 28658347 1083 True 318.000000 318 72.695000 987 2076 1 chr6D.!!$R3 1089
2 TraesCS6D01G071500 chr6D 29093676 29094606 930 True 309.000000 309 73.237000 1015 1966 1 chr6D.!!$R4 951
3 TraesCS6D01G071500 chr6B 75667234 75671237 4003 True 1073.780000 3297 95.511200 816 4247 5 chr6B.!!$R4 3431
4 TraesCS6D01G071500 chr6B 75683377 75684032 655 True 472.000000 725 92.761000 1 679 2 chr6B.!!$R5 678
5 TraesCS6D01G071500 chr6B 54148989 54150048 1059 False 257.000000 257 71.861000 1026 2085 1 chr6B.!!$F1 1059
6 TraesCS6D01G071500 chr6A 39939059 39941794 2735 True 1682.000000 1958 95.666500 2150 4247 2 chr6A.!!$R2 2097
7 TraesCS6D01G071500 chr6A 39948641 39950893 2252 True 544.033333 2061 96.114667 1 2157 6 chr6A.!!$R3 2156
8 TraesCS6D01G071500 chr6A 30455129 30456158 1029 False 361.000000 361 73.540000 1044 2090 1 chr6A.!!$F1 1046
9 TraesCS6D01G071500 chr6A 34029172 34030255 1083 False 296.000000 296 72.361000 987 2076 1 chr6A.!!$F4 1089
10 TraesCS6D01G071500 chrUn 96937964 96939031 1067 False 263.000000 263 71.795000 1023 2086 1 chrUn.!!$F1 1063

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
945 1266 0.036010 CAGCGTGACATTTCCCCTCT 60.036 55.0 0.0 0.0 0.00 3.69 F
1314 1642 0.324943 CCCGCTTCTCCCTTCAGAAA 59.675 55.0 0.0 0.0 31.86 2.52 F
1321 1649 0.621082 CTCCCTTCAGAAACTCCCCC 59.379 60.0 0.0 0.0 0.00 5.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2076 2443 4.771577 ACCACATTATTTGACTGCAATGGA 59.228 37.500 0.0 0.0 33.18 3.41 R
2548 2915 5.556915 TCAAAATCACGGACCAGTAGAATT 58.443 37.500 0.0 0.0 0.00 2.17 R
3400 4404 1.398390 GCAATCGGACTAGCCACAAAG 59.602 52.381 0.0 0.0 35.94 2.77 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
101 102 1.887707 CCCTAACCAATCGGAGCGC 60.888 63.158 0.00 0.00 35.59 5.92
201 210 4.060038 ACTGACGTTCTCTGAATTGTGT 57.940 40.909 0.00 0.00 0.00 3.72
202 211 3.804325 ACTGACGTTCTCTGAATTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
215 224 1.092921 TTGTGTGTGAAGACCACCGC 61.093 55.000 0.00 0.00 45.09 5.68
487 501 3.569277 TGCTAAACGTACAGAGTACCACA 59.431 43.478 0.00 0.00 0.00 4.17
503 517 3.735591 ACCACACAATTACACGCTAACT 58.264 40.909 0.00 0.00 0.00 2.24
510 524 6.534079 ACACAATTACACGCTAACTAGGATTC 59.466 38.462 0.00 0.00 0.00 2.52
513 527 7.822822 ACAATTACACGCTAACTAGGATTCTTT 59.177 33.333 0.00 0.00 0.00 2.52
514 528 8.328864 CAATTACACGCTAACTAGGATTCTTTC 58.671 37.037 0.00 0.00 0.00 2.62
534 548 6.966461 TCTTTCTTTCTAACTAATCTCCCCCT 59.034 38.462 0.00 0.00 0.00 4.79
547 561 2.986019 TCTCCCCCTTCTGATTTTCACA 59.014 45.455 0.00 0.00 0.00 3.58
590 911 6.127619 CCCCTTAATCTCCAATCAAAACTCAC 60.128 42.308 0.00 0.00 0.00 3.51
640 961 4.767409 TGTATCTCTAGCATTACTCGGCAT 59.233 41.667 0.00 0.00 0.00 4.40
641 962 4.881019 ATCTCTAGCATTACTCGGCATT 57.119 40.909 0.00 0.00 0.00 3.56
642 963 3.982475 TCTCTAGCATTACTCGGCATTG 58.018 45.455 0.00 0.00 0.00 2.82
643 964 3.384789 TCTCTAGCATTACTCGGCATTGT 59.615 43.478 0.00 0.00 0.00 2.71
644 965 4.583073 TCTCTAGCATTACTCGGCATTGTA 59.417 41.667 0.00 0.00 0.00 2.41
645 966 4.871513 TCTAGCATTACTCGGCATTGTAG 58.128 43.478 0.00 0.00 0.00 2.74
646 967 3.543680 AGCATTACTCGGCATTGTAGT 57.456 42.857 0.00 0.00 0.00 2.73
647 968 4.665833 AGCATTACTCGGCATTGTAGTA 57.334 40.909 0.00 0.00 0.00 1.82
648 969 5.215252 AGCATTACTCGGCATTGTAGTAT 57.785 39.130 0.00 0.00 0.00 2.12
649 970 4.991056 AGCATTACTCGGCATTGTAGTATG 59.009 41.667 0.00 0.00 0.00 2.39
650 971 4.750098 GCATTACTCGGCATTGTAGTATGT 59.250 41.667 0.00 0.00 0.00 2.29
651 972 5.236478 GCATTACTCGGCATTGTAGTATGTT 59.764 40.000 0.00 0.00 0.00 2.71
652 973 6.649436 CATTACTCGGCATTGTAGTATGTTG 58.351 40.000 0.00 0.00 0.00 3.33
653 974 4.202245 ACTCGGCATTGTAGTATGTTGT 57.798 40.909 0.00 0.00 0.00 3.32
654 975 3.932710 ACTCGGCATTGTAGTATGTTGTG 59.067 43.478 0.00 0.00 0.00 3.33
655 976 3.932710 CTCGGCATTGTAGTATGTTGTGT 59.067 43.478 0.00 0.00 0.00 3.72
656 977 4.320023 TCGGCATTGTAGTATGTTGTGTT 58.680 39.130 0.00 0.00 0.00 3.32
657 978 4.757657 TCGGCATTGTAGTATGTTGTGTTT 59.242 37.500 0.00 0.00 0.00 2.83
658 979 5.239744 TCGGCATTGTAGTATGTTGTGTTTT 59.760 36.000 0.00 0.00 0.00 2.43
659 980 5.341993 CGGCATTGTAGTATGTTGTGTTTTG 59.658 40.000 0.00 0.00 0.00 2.44
660 981 6.212955 GGCATTGTAGTATGTTGTGTTTTGT 58.787 36.000 0.00 0.00 0.00 2.83
661 982 6.143758 GGCATTGTAGTATGTTGTGTTTTGTG 59.856 38.462 0.00 0.00 0.00 3.33
662 983 6.695278 GCATTGTAGTATGTTGTGTTTTGTGT 59.305 34.615 0.00 0.00 0.00 3.72
663 984 7.305935 GCATTGTAGTATGTTGTGTTTTGTGTG 60.306 37.037 0.00 0.00 0.00 3.82
664 985 6.125327 TGTAGTATGTTGTGTTTTGTGTGG 57.875 37.500 0.00 0.00 0.00 4.17
665 986 5.648526 TGTAGTATGTTGTGTTTTGTGTGGT 59.351 36.000 0.00 0.00 0.00 4.16
666 987 5.652994 AGTATGTTGTGTTTTGTGTGGTT 57.347 34.783 0.00 0.00 0.00 3.67
667 988 5.646606 AGTATGTTGTGTTTTGTGTGGTTC 58.353 37.500 0.00 0.00 0.00 3.62
668 989 2.935042 TGTTGTGTTTTGTGTGGTTCG 58.065 42.857 0.00 0.00 0.00 3.95
669 990 2.255316 GTTGTGTTTTGTGTGGTTCGG 58.745 47.619 0.00 0.00 0.00 4.30
670 991 0.171455 TGTGTTTTGTGTGGTTCGGC 59.829 50.000 0.00 0.00 0.00 5.54
671 992 0.863957 GTGTTTTGTGTGGTTCGGCG 60.864 55.000 0.00 0.00 0.00 6.46
672 993 1.025113 TGTTTTGTGTGGTTCGGCGA 61.025 50.000 4.99 4.99 0.00 5.54
673 994 0.099082 GTTTTGTGTGGTTCGGCGAA 59.901 50.000 19.83 19.83 0.00 4.70
674 995 0.809385 TTTTGTGTGGTTCGGCGAAA 59.191 45.000 25.48 6.95 0.00 3.46
675 996 0.809385 TTTGTGTGGTTCGGCGAAAA 59.191 45.000 25.48 13.10 0.00 2.29
676 997 1.025812 TTGTGTGGTTCGGCGAAAAT 58.974 45.000 25.48 0.00 0.00 1.82
677 998 0.309302 TGTGTGGTTCGGCGAAAATG 59.691 50.000 25.48 0.00 0.00 2.32
678 999 0.309612 GTGTGGTTCGGCGAAAATGT 59.690 50.000 25.48 0.00 0.00 2.71
679 1000 1.532007 GTGTGGTTCGGCGAAAATGTA 59.468 47.619 25.48 7.31 0.00 2.29
680 1001 2.031857 GTGTGGTTCGGCGAAAATGTAA 60.032 45.455 25.48 5.42 0.00 2.41
681 1002 2.814919 TGTGGTTCGGCGAAAATGTAAT 59.185 40.909 25.48 0.00 0.00 1.89
682 1003 4.001652 TGTGGTTCGGCGAAAATGTAATA 58.998 39.130 25.48 2.93 0.00 0.98
683 1004 4.636648 TGTGGTTCGGCGAAAATGTAATAT 59.363 37.500 25.48 0.00 0.00 1.28
684 1005 4.967575 GTGGTTCGGCGAAAATGTAATATG 59.032 41.667 25.48 0.00 0.00 1.78
685 1006 4.876679 TGGTTCGGCGAAAATGTAATATGA 59.123 37.500 25.48 0.00 0.00 2.15
686 1007 5.007234 TGGTTCGGCGAAAATGTAATATGAG 59.993 40.000 25.48 0.00 0.00 2.90
687 1008 5.235616 GGTTCGGCGAAAATGTAATATGAGA 59.764 40.000 25.48 0.00 0.00 3.27
688 1009 6.073222 GGTTCGGCGAAAATGTAATATGAGAT 60.073 38.462 25.48 0.00 0.00 2.75
689 1010 7.352739 GTTCGGCGAAAATGTAATATGAGATT 58.647 34.615 25.48 0.00 0.00 2.40
690 1011 6.887368 TCGGCGAAAATGTAATATGAGATTG 58.113 36.000 7.35 0.00 0.00 2.67
691 1012 6.481976 TCGGCGAAAATGTAATATGAGATTGT 59.518 34.615 7.35 0.00 0.00 2.71
692 1013 6.792250 CGGCGAAAATGTAATATGAGATTGTC 59.208 38.462 0.00 0.00 0.00 3.18
693 1014 7.307396 CGGCGAAAATGTAATATGAGATTGTCT 60.307 37.037 0.00 0.00 0.00 3.41
694 1015 8.012241 GGCGAAAATGTAATATGAGATTGTCTC 58.988 37.037 0.07 0.07 43.65 3.36
695 1016 8.768955 GCGAAAATGTAATATGAGATTGTCTCT 58.231 33.333 8.30 0.00 43.73 3.10
755 1076 4.569943 TGTTGTGGCTTTCTCTGATCTAC 58.430 43.478 0.00 0.00 0.00 2.59
757 1078 4.727507 TGTGGCTTTCTCTGATCTACTC 57.272 45.455 0.00 0.00 0.00 2.59
758 1079 3.449018 TGTGGCTTTCTCTGATCTACTCC 59.551 47.826 0.00 0.00 0.00 3.85
759 1080 3.034635 TGGCTTTCTCTGATCTACTCCC 58.965 50.000 0.00 0.00 0.00 4.30
761 1082 3.709141 GGCTTTCTCTGATCTACTCCCTT 59.291 47.826 0.00 0.00 0.00 3.95
762 1083 4.202212 GGCTTTCTCTGATCTACTCCCTTC 60.202 50.000 0.00 0.00 0.00 3.46
763 1084 4.499019 GCTTTCTCTGATCTACTCCCTTCG 60.499 50.000 0.00 0.00 0.00 3.79
764 1085 3.935818 TCTCTGATCTACTCCCTTCGT 57.064 47.619 0.00 0.00 0.00 3.85
765 1086 3.811083 TCTCTGATCTACTCCCTTCGTC 58.189 50.000 0.00 0.00 0.00 4.20
766 1087 2.882137 CTCTGATCTACTCCCTTCGTCC 59.118 54.545 0.00 0.00 0.00 4.79
767 1088 1.957877 CTGATCTACTCCCTTCGTCCC 59.042 57.143 0.00 0.00 0.00 4.46
768 1089 1.286849 TGATCTACTCCCTTCGTCCCA 59.713 52.381 0.00 0.00 0.00 4.37
769 1090 1.682323 GATCTACTCCCTTCGTCCCAC 59.318 57.143 0.00 0.00 0.00 4.61
770 1091 0.702902 TCTACTCCCTTCGTCCCACT 59.297 55.000 0.00 0.00 0.00 4.00
771 1092 1.918262 TCTACTCCCTTCGTCCCACTA 59.082 52.381 0.00 0.00 0.00 2.74
772 1093 2.309755 TCTACTCCCTTCGTCCCACTAA 59.690 50.000 0.00 0.00 0.00 2.24
773 1094 2.019807 ACTCCCTTCGTCCCACTAAA 57.980 50.000 0.00 0.00 0.00 1.85
774 1095 2.332117 ACTCCCTTCGTCCCACTAAAA 58.668 47.619 0.00 0.00 0.00 1.52
775 1096 2.707257 ACTCCCTTCGTCCCACTAAAAA 59.293 45.455 0.00 0.00 0.00 1.94
800 1121 4.872664 GTCTTACATTATGAGACGGAGGG 58.127 47.826 0.00 0.00 34.53 4.30
801 1122 4.583489 GTCTTACATTATGAGACGGAGGGA 59.417 45.833 0.00 0.00 34.53 4.20
802 1123 4.827835 TCTTACATTATGAGACGGAGGGAG 59.172 45.833 0.00 0.00 0.00 4.30
803 1124 3.033659 ACATTATGAGACGGAGGGAGT 57.966 47.619 0.00 0.00 0.00 3.85
804 1125 4.180377 ACATTATGAGACGGAGGGAGTA 57.820 45.455 0.00 0.00 0.00 2.59
805 1126 4.145807 ACATTATGAGACGGAGGGAGTAG 58.854 47.826 0.00 0.00 0.00 2.57
806 1127 3.947612 TTATGAGACGGAGGGAGTAGT 57.052 47.619 0.00 0.00 0.00 2.73
807 1128 2.830651 ATGAGACGGAGGGAGTAGTT 57.169 50.000 0.00 0.00 0.00 2.24
808 1129 3.947612 ATGAGACGGAGGGAGTAGTTA 57.052 47.619 0.00 0.00 0.00 2.24
809 1130 3.947612 TGAGACGGAGGGAGTAGTTAT 57.052 47.619 0.00 0.00 0.00 1.89
810 1131 4.246712 TGAGACGGAGGGAGTAGTTATT 57.753 45.455 0.00 0.00 0.00 1.40
811 1132 5.378230 TGAGACGGAGGGAGTAGTTATTA 57.622 43.478 0.00 0.00 0.00 0.98
812 1133 5.950023 TGAGACGGAGGGAGTAGTTATTAT 58.050 41.667 0.00 0.00 0.00 1.28
813 1134 6.002704 TGAGACGGAGGGAGTAGTTATTATC 58.997 44.000 0.00 0.00 0.00 1.75
814 1135 5.950023 AGACGGAGGGAGTAGTTATTATCA 58.050 41.667 0.00 0.00 0.00 2.15
815 1136 6.553857 AGACGGAGGGAGTAGTTATTATCAT 58.446 40.000 0.00 0.00 0.00 2.45
816 1137 6.434652 AGACGGAGGGAGTAGTTATTATCATG 59.565 42.308 0.00 0.00 0.00 3.07
817 1138 6.075984 ACGGAGGGAGTAGTTATTATCATGT 58.924 40.000 0.00 0.00 0.00 3.21
818 1139 6.553852 ACGGAGGGAGTAGTTATTATCATGTT 59.446 38.462 0.00 0.00 0.00 2.71
819 1140 7.070821 ACGGAGGGAGTAGTTATTATCATGTTT 59.929 37.037 0.00 0.00 0.00 2.83
820 1141 7.385205 CGGAGGGAGTAGTTATTATCATGTTTG 59.615 40.741 0.00 0.00 0.00 2.93
821 1142 7.661847 GGAGGGAGTAGTTATTATCATGTTTGG 59.338 40.741 0.00 0.00 0.00 3.28
822 1143 8.102484 AGGGAGTAGTTATTATCATGTTTGGT 57.898 34.615 0.00 0.00 0.00 3.67
823 1144 7.993183 AGGGAGTAGTTATTATCATGTTTGGTG 59.007 37.037 0.00 0.00 0.00 4.17
824 1145 7.228706 GGGAGTAGTTATTATCATGTTTGGTGG 59.771 40.741 0.00 0.00 0.00 4.61
825 1146 7.228706 GGAGTAGTTATTATCATGTTTGGTGGG 59.771 40.741 0.00 0.00 0.00 4.61
826 1147 5.852282 AGTTATTATCATGTTTGGTGGGC 57.148 39.130 0.00 0.00 0.00 5.36
827 1148 5.518865 AGTTATTATCATGTTTGGTGGGCT 58.481 37.500 0.00 0.00 0.00 5.19
828 1149 5.957774 AGTTATTATCATGTTTGGTGGGCTT 59.042 36.000 0.00 0.00 0.00 4.35
829 1150 4.741321 ATTATCATGTTTGGTGGGCTTG 57.259 40.909 0.00 0.00 0.00 4.01
830 1151 1.269012 ATCATGTTTGGTGGGCTTGG 58.731 50.000 0.00 0.00 0.00 3.61
831 1152 0.187117 TCATGTTTGGTGGGCTTGGA 59.813 50.000 0.00 0.00 0.00 3.53
832 1153 0.604578 CATGTTTGGTGGGCTTGGAG 59.395 55.000 0.00 0.00 0.00 3.86
833 1154 0.482446 ATGTTTGGTGGGCTTGGAGA 59.518 50.000 0.00 0.00 0.00 3.71
834 1155 0.178992 TGTTTGGTGGGCTTGGAGAG 60.179 55.000 0.00 0.00 0.00 3.20
835 1156 0.110486 GTTTGGTGGGCTTGGAGAGA 59.890 55.000 0.00 0.00 0.00 3.10
836 1157 0.401738 TTTGGTGGGCTTGGAGAGAG 59.598 55.000 0.00 0.00 0.00 3.20
837 1158 1.492133 TTGGTGGGCTTGGAGAGAGG 61.492 60.000 0.00 0.00 0.00 3.69
838 1159 2.270527 GTGGGCTTGGAGAGAGGC 59.729 66.667 0.00 0.00 38.83 4.70
839 1160 2.123632 TGGGCTTGGAGAGAGGCT 59.876 61.111 0.00 0.00 39.44 4.58
840 1161 1.992277 TGGGCTTGGAGAGAGGCTC 60.992 63.158 6.34 6.34 43.17 4.70
847 1168 4.019983 GAGAGAGGCTCCCAACGA 57.980 61.111 11.71 0.00 37.69 3.85
848 1169 2.277858 GAGAGAGGCTCCCAACGAA 58.722 57.895 11.71 0.00 37.69 3.85
849 1170 0.608640 GAGAGAGGCTCCCAACGAAA 59.391 55.000 11.71 0.00 37.69 3.46
850 1171 1.208293 GAGAGAGGCTCCCAACGAAAT 59.792 52.381 11.71 0.00 37.69 2.17
851 1172 1.630878 AGAGAGGCTCCCAACGAAATT 59.369 47.619 11.71 0.00 0.00 1.82
852 1173 2.838202 AGAGAGGCTCCCAACGAAATTA 59.162 45.455 11.71 0.00 0.00 1.40
853 1174 3.456277 AGAGAGGCTCCCAACGAAATTAT 59.544 43.478 11.71 0.00 0.00 1.28
854 1175 3.545703 AGAGGCTCCCAACGAAATTATG 58.454 45.455 11.71 0.00 0.00 1.90
855 1176 2.024414 AGGCTCCCAACGAAATTATGC 58.976 47.619 0.00 0.00 0.00 3.14
856 1177 1.748493 GGCTCCCAACGAAATTATGCA 59.252 47.619 0.00 0.00 0.00 3.96
857 1178 2.479560 GGCTCCCAACGAAATTATGCAC 60.480 50.000 0.00 0.00 0.00 4.57
858 1179 2.791158 GCTCCCAACGAAATTATGCACG 60.791 50.000 0.00 0.00 0.00 5.34
859 1180 2.675844 CTCCCAACGAAATTATGCACGA 59.324 45.455 0.00 0.00 0.00 4.35
860 1181 2.675844 TCCCAACGAAATTATGCACGAG 59.324 45.455 0.00 0.00 0.00 4.18
861 1182 2.418628 CCCAACGAAATTATGCACGAGT 59.581 45.455 0.00 0.00 0.00 4.18
862 1183 3.416277 CCAACGAAATTATGCACGAGTG 58.584 45.455 0.00 0.00 0.00 3.51
863 1184 3.124466 CCAACGAAATTATGCACGAGTGA 59.876 43.478 7.50 0.00 0.00 3.41
864 1185 4.201812 CCAACGAAATTATGCACGAGTGAT 60.202 41.667 7.50 1.10 0.00 3.06
865 1186 5.006261 CCAACGAAATTATGCACGAGTGATA 59.994 40.000 7.50 0.21 0.00 2.15
866 1187 5.890110 ACGAAATTATGCACGAGTGATAG 57.110 39.130 7.50 0.00 0.00 2.08
867 1188 4.209288 ACGAAATTATGCACGAGTGATAGC 59.791 41.667 7.50 0.00 0.00 2.97
868 1189 4.376413 CGAAATTATGCACGAGTGATAGCC 60.376 45.833 7.50 0.00 0.00 3.93
869 1190 4.342862 AATTATGCACGAGTGATAGCCT 57.657 40.909 7.50 0.00 0.00 4.58
870 1191 2.800881 TATGCACGAGTGATAGCCTG 57.199 50.000 7.50 0.00 0.00 4.85
871 1192 0.531532 ATGCACGAGTGATAGCCTGC 60.532 55.000 7.50 0.00 0.00 4.85
872 1193 2.233654 GCACGAGTGATAGCCTGCG 61.234 63.158 7.50 0.00 0.00 5.18
873 1194 1.139734 CACGAGTGATAGCCTGCGT 59.860 57.895 0.00 0.00 0.00 5.24
874 1195 0.458543 CACGAGTGATAGCCTGCGTT 60.459 55.000 0.00 0.00 0.00 4.84
875 1196 1.100510 ACGAGTGATAGCCTGCGTTA 58.899 50.000 0.00 0.00 0.00 3.18
876 1197 1.681793 ACGAGTGATAGCCTGCGTTAT 59.318 47.619 0.00 0.00 0.00 1.89
945 1266 0.036010 CAGCGTGACATTTCCCCTCT 60.036 55.000 0.00 0.00 0.00 3.69
946 1267 0.036010 AGCGTGACATTTCCCCTCTG 60.036 55.000 0.00 0.00 0.00 3.35
947 1268 1.026718 GCGTGACATTTCCCCTCTGG 61.027 60.000 0.00 0.00 0.00 3.86
948 1269 1.026718 CGTGACATTTCCCCTCTGGC 61.027 60.000 0.00 0.00 0.00 4.85
949 1270 0.681243 GTGACATTTCCCCTCTGGCC 60.681 60.000 0.00 0.00 0.00 5.36
950 1271 1.076705 GACATTTCCCCTCTGGCCC 60.077 63.158 0.00 0.00 0.00 5.80
951 1272 1.544917 ACATTTCCCCTCTGGCCCT 60.545 57.895 0.00 0.00 0.00 5.19
952 1273 1.228510 CATTTCCCCTCTGGCCCTC 59.771 63.158 0.00 0.00 0.00 4.30
1314 1642 0.324943 CCCGCTTCTCCCTTCAGAAA 59.675 55.000 0.00 0.00 31.86 2.52
1321 1649 0.621082 CTCCCTTCAGAAACTCCCCC 59.379 60.000 0.00 0.00 0.00 5.40
1367 1698 2.472909 GCCATGGCCTCGTGCTAAC 61.473 63.158 27.24 0.00 40.92 2.34
1987 2354 8.507524 ACTTTCCCTAAATTTACATAGTGAGC 57.492 34.615 0.00 0.00 0.00 4.26
1988 2355 8.107095 ACTTTCCCTAAATTTACATAGTGAGCA 58.893 33.333 0.00 0.00 0.00 4.26
2076 2443 4.197750 GTGTCTTCATGATCCAGCTTGAT 58.802 43.478 0.00 0.00 0.00 2.57
2480 2847 5.647658 TGCGATGGTTATGACTTGAGAAAAT 59.352 36.000 0.00 0.00 0.00 1.82
3290 4294 5.554070 TGCTATCATGATGTACTGGATTGG 58.446 41.667 18.72 0.00 0.00 3.16
3323 4327 6.155393 AGCCTGTCTTTAAGTAGTAGCAGAAT 59.845 38.462 0.00 0.00 0.00 2.40
3400 4404 4.806775 TGTTGCTGCATTGCATTCAATATC 59.193 37.500 21.42 13.51 40.74 1.63
3530 4546 6.332630 GCTTATACAATTGCCATTTCACACT 58.667 36.000 5.05 0.00 0.00 3.55
3599 4615 7.611855 AGTTATGTGCAATCTTAGCCTTTTAGT 59.388 33.333 0.00 0.00 0.00 2.24
3733 4751 1.267732 GCGTCGATTGCAGAATCTTGG 60.268 52.381 7.63 0.00 36.56 3.61
3749 4767 4.122143 TCTTGGTTCAGCAAGGTTTTTG 57.878 40.909 16.67 0.00 0.00 2.44
3803 4821 7.555554 GTCAACTACTACATACTACTCCCTCAA 59.444 40.741 0.00 0.00 0.00 3.02
3821 4839 5.057149 CCTCAATCCCTAATTACTTGTCGG 58.943 45.833 0.00 0.00 0.00 4.79
3844 4862 8.265055 TCGGAGAAATGGATGTATCTAAAACTT 58.735 33.333 0.00 0.00 0.00 2.66
3955 4973 6.778559 GCTATCTAAACTAAGGGAGAGGAGAA 59.221 42.308 0.00 0.00 0.00 2.87
4002 5031 2.803492 GCCACACACGAGAGAGAAACTT 60.803 50.000 0.00 0.00 0.00 2.66
4146 5189 1.821332 GAGGGGCTCAAATCAGCGG 60.821 63.158 0.00 0.00 40.68 5.52
4167 5210 2.658268 CTGCGACGTGCTGTGTGA 60.658 61.111 0.00 0.00 46.63 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
101 102 5.409826 GGTTAGGTCTGAGAATTGACAAGTG 59.590 44.000 0.00 0.0 35.11 3.16
149 150 6.045955 GTCTTCTACATCTCCTTTAGCTTGG 58.954 44.000 0.00 0.0 0.00 3.61
150 151 6.872920 AGTCTTCTACATCTCCTTTAGCTTG 58.127 40.000 0.00 0.0 0.00 4.01
151 152 7.837187 ACTAGTCTTCTACATCTCCTTTAGCTT 59.163 37.037 0.00 0.0 0.00 3.74
202 211 4.309950 ACCGGCGGTGGTCTTCAC 62.310 66.667 33.71 0.0 45.34 3.18
215 224 1.883021 CTAAAGGCTTTGGCACCGG 59.117 57.895 22.32 0.0 40.87 5.28
280 289 4.516698 AGCTCGTGTCATCATGTTCTTTTT 59.483 37.500 0.00 0.0 32.85 1.94
487 501 6.875076 AGAATCCTAGTTAGCGTGTAATTGT 58.125 36.000 0.00 0.0 0.00 2.71
510 524 7.201702 AGGGGGAGATTAGTTAGAAAGAAAG 57.798 40.000 0.00 0.0 0.00 2.62
513 527 6.384305 CAGAAGGGGGAGATTAGTTAGAAAGA 59.616 42.308 0.00 0.0 0.00 2.52
514 528 6.384305 TCAGAAGGGGGAGATTAGTTAGAAAG 59.616 42.308 0.00 0.0 0.00 2.62
526 540 2.986019 TGTGAAAATCAGAAGGGGGAGA 59.014 45.455 0.00 0.0 0.00 3.71
534 548 3.230134 CCCAACCCTGTGAAAATCAGAA 58.770 45.455 0.00 0.0 35.20 3.02
590 911 7.095270 AGAGTTACACGGGATTTACAAACTAG 58.905 38.462 0.00 0.0 0.00 2.57
640 961 6.151312 ACCACACAAAACACAACATACTACAA 59.849 34.615 0.00 0.0 0.00 2.41
641 962 5.648526 ACCACACAAAACACAACATACTACA 59.351 36.000 0.00 0.0 0.00 2.74
642 963 6.126568 ACCACACAAAACACAACATACTAC 57.873 37.500 0.00 0.0 0.00 2.73
643 964 6.457122 CGAACCACACAAAACACAACATACTA 60.457 38.462 0.00 0.0 0.00 1.82
644 965 5.646606 GAACCACACAAAACACAACATACT 58.353 37.500 0.00 0.0 0.00 2.12
645 966 4.497608 CGAACCACACAAAACACAACATAC 59.502 41.667 0.00 0.0 0.00 2.39
646 967 4.438880 CCGAACCACACAAAACACAACATA 60.439 41.667 0.00 0.0 0.00 2.29
647 968 3.506810 CGAACCACACAAAACACAACAT 58.493 40.909 0.00 0.0 0.00 2.71
648 969 2.351835 CCGAACCACACAAAACACAACA 60.352 45.455 0.00 0.0 0.00 3.33
649 970 2.255316 CCGAACCACACAAAACACAAC 58.745 47.619 0.00 0.0 0.00 3.32
650 971 1.402984 GCCGAACCACACAAAACACAA 60.403 47.619 0.00 0.0 0.00 3.33
651 972 0.171455 GCCGAACCACACAAAACACA 59.829 50.000 0.00 0.0 0.00 3.72
652 973 0.863957 CGCCGAACCACACAAAACAC 60.864 55.000 0.00 0.0 0.00 3.32
653 974 1.025113 TCGCCGAACCACACAAAACA 61.025 50.000 0.00 0.0 0.00 2.83
654 975 0.099082 TTCGCCGAACCACACAAAAC 59.901 50.000 0.00 0.0 0.00 2.43
655 976 0.809385 TTTCGCCGAACCACACAAAA 59.191 45.000 0.00 0.0 0.00 2.44
656 977 0.809385 TTTTCGCCGAACCACACAAA 59.191 45.000 0.00 0.0 0.00 2.83
657 978 1.025812 ATTTTCGCCGAACCACACAA 58.974 45.000 0.00 0.0 0.00 3.33
658 979 0.309302 CATTTTCGCCGAACCACACA 59.691 50.000 0.00 0.0 0.00 3.72
659 980 0.309612 ACATTTTCGCCGAACCACAC 59.690 50.000 0.00 0.0 0.00 3.82
660 981 1.880271 TACATTTTCGCCGAACCACA 58.120 45.000 0.00 0.0 0.00 4.17
661 982 2.973419 TTACATTTTCGCCGAACCAC 57.027 45.000 0.00 0.0 0.00 4.16
662 983 4.876679 TCATATTACATTTTCGCCGAACCA 59.123 37.500 0.00 0.0 0.00 3.67
663 984 5.235616 TCTCATATTACATTTTCGCCGAACC 59.764 40.000 0.00 0.0 0.00 3.62
664 985 6.281848 TCTCATATTACATTTTCGCCGAAC 57.718 37.500 0.00 0.0 0.00 3.95
665 986 7.011950 ACAATCTCATATTACATTTTCGCCGAA 59.988 33.333 0.00 0.0 0.00 4.30
666 987 6.481976 ACAATCTCATATTACATTTTCGCCGA 59.518 34.615 0.00 0.0 0.00 5.54
667 988 6.658831 ACAATCTCATATTACATTTTCGCCG 58.341 36.000 0.00 0.0 0.00 6.46
668 989 7.865707 AGACAATCTCATATTACATTTTCGCC 58.134 34.615 0.00 0.0 0.00 5.54
669 990 8.768955 AGAGACAATCTCATATTACATTTTCGC 58.231 33.333 8.48 0.0 45.73 4.70
682 1003 8.976353 ACATAGAGTTACAAGAGACAATCTCAT 58.024 33.333 8.48 0.0 45.73 2.90
683 1004 8.354711 ACATAGAGTTACAAGAGACAATCTCA 57.645 34.615 8.48 0.0 45.73 3.27
688 1009 8.191446 GCTGATACATAGAGTTACAAGAGACAA 58.809 37.037 0.00 0.0 0.00 3.18
689 1010 7.558081 AGCTGATACATAGAGTTACAAGAGACA 59.442 37.037 0.00 0.0 0.00 3.41
690 1011 7.936584 AGCTGATACATAGAGTTACAAGAGAC 58.063 38.462 0.00 0.0 0.00 3.36
691 1012 8.409371 CAAGCTGATACATAGAGTTACAAGAGA 58.591 37.037 0.00 0.0 0.00 3.10
692 1013 7.651304 CCAAGCTGATACATAGAGTTACAAGAG 59.349 40.741 0.00 0.0 0.00 2.85
693 1014 7.124298 ACCAAGCTGATACATAGAGTTACAAGA 59.876 37.037 0.00 0.0 0.00 3.02
694 1015 7.268586 ACCAAGCTGATACATAGAGTTACAAG 58.731 38.462 0.00 0.0 0.00 3.16
695 1016 7.182817 ACCAAGCTGATACATAGAGTTACAA 57.817 36.000 0.00 0.0 0.00 2.41
735 1056 4.081420 GGAGTAGATCAGAGAAAGCCACAA 60.081 45.833 0.00 0.0 0.00 3.33
755 1076 3.412237 TTTTTAGTGGGACGAAGGGAG 57.588 47.619 0.00 0.0 0.00 4.30
778 1099 4.583489 TCCCTCCGTCTCATAATGTAAGAC 59.417 45.833 0.00 0.0 36.82 3.01
779 1100 4.800023 TCCCTCCGTCTCATAATGTAAGA 58.200 43.478 0.00 0.0 0.00 2.10
780 1101 4.585162 ACTCCCTCCGTCTCATAATGTAAG 59.415 45.833 0.00 0.0 0.00 2.34
781 1102 4.543689 ACTCCCTCCGTCTCATAATGTAA 58.456 43.478 0.00 0.0 0.00 2.41
782 1103 4.180377 ACTCCCTCCGTCTCATAATGTA 57.820 45.455 0.00 0.0 0.00 2.29
783 1104 3.033659 ACTCCCTCCGTCTCATAATGT 57.966 47.619 0.00 0.0 0.00 2.71
784 1105 4.145807 ACTACTCCCTCCGTCTCATAATG 58.854 47.826 0.00 0.0 0.00 1.90
785 1106 4.456662 ACTACTCCCTCCGTCTCATAAT 57.543 45.455 0.00 0.0 0.00 1.28
786 1107 3.947612 ACTACTCCCTCCGTCTCATAA 57.052 47.619 0.00 0.0 0.00 1.90
787 1108 3.947612 AACTACTCCCTCCGTCTCATA 57.052 47.619 0.00 0.0 0.00 2.15
788 1109 2.830651 AACTACTCCCTCCGTCTCAT 57.169 50.000 0.00 0.0 0.00 2.90
789 1110 3.947612 ATAACTACTCCCTCCGTCTCA 57.052 47.619 0.00 0.0 0.00 3.27
790 1111 6.002704 TGATAATAACTACTCCCTCCGTCTC 58.997 44.000 0.00 0.0 0.00 3.36
791 1112 5.950023 TGATAATAACTACTCCCTCCGTCT 58.050 41.667 0.00 0.0 0.00 4.18
792 1113 6.208994 ACATGATAATAACTACTCCCTCCGTC 59.791 42.308 0.00 0.0 0.00 4.79
793 1114 6.075984 ACATGATAATAACTACTCCCTCCGT 58.924 40.000 0.00 0.0 0.00 4.69
794 1115 6.591750 ACATGATAATAACTACTCCCTCCG 57.408 41.667 0.00 0.0 0.00 4.63
795 1116 7.661847 CCAAACATGATAATAACTACTCCCTCC 59.338 40.741 0.00 0.0 0.00 4.30
796 1117 8.211629 ACCAAACATGATAATAACTACTCCCTC 58.788 37.037 0.00 0.0 0.00 4.30
797 1118 7.993183 CACCAAACATGATAATAACTACTCCCT 59.007 37.037 0.00 0.0 0.00 4.20
798 1119 7.228706 CCACCAAACATGATAATAACTACTCCC 59.771 40.741 0.00 0.0 0.00 4.30
799 1120 7.228706 CCCACCAAACATGATAATAACTACTCC 59.771 40.741 0.00 0.0 0.00 3.85
800 1121 7.255139 GCCCACCAAACATGATAATAACTACTC 60.255 40.741 0.00 0.0 0.00 2.59
801 1122 6.546034 GCCCACCAAACATGATAATAACTACT 59.454 38.462 0.00 0.0 0.00 2.57
802 1123 6.546034 AGCCCACCAAACATGATAATAACTAC 59.454 38.462 0.00 0.0 0.00 2.73
803 1124 6.668645 AGCCCACCAAACATGATAATAACTA 58.331 36.000 0.00 0.0 0.00 2.24
804 1125 5.518865 AGCCCACCAAACATGATAATAACT 58.481 37.500 0.00 0.0 0.00 2.24
805 1126 5.852282 AGCCCACCAAACATGATAATAAC 57.148 39.130 0.00 0.0 0.00 1.89
806 1127 5.128499 CCAAGCCCACCAAACATGATAATAA 59.872 40.000 0.00 0.0 0.00 1.40
807 1128 4.648762 CCAAGCCCACCAAACATGATAATA 59.351 41.667 0.00 0.0 0.00 0.98
808 1129 3.451902 CCAAGCCCACCAAACATGATAAT 59.548 43.478 0.00 0.0 0.00 1.28
809 1130 2.830923 CCAAGCCCACCAAACATGATAA 59.169 45.455 0.00 0.0 0.00 1.75
810 1131 2.042297 TCCAAGCCCACCAAACATGATA 59.958 45.455 0.00 0.0 0.00 2.15
811 1132 1.203162 TCCAAGCCCACCAAACATGAT 60.203 47.619 0.00 0.0 0.00 2.45
812 1133 0.187117 TCCAAGCCCACCAAACATGA 59.813 50.000 0.00 0.0 0.00 3.07
813 1134 0.604578 CTCCAAGCCCACCAAACATG 59.395 55.000 0.00 0.0 0.00 3.21
814 1135 0.482446 TCTCCAAGCCCACCAAACAT 59.518 50.000 0.00 0.0 0.00 2.71
815 1136 0.178992 CTCTCCAAGCCCACCAAACA 60.179 55.000 0.00 0.0 0.00 2.83
816 1137 0.110486 TCTCTCCAAGCCCACCAAAC 59.890 55.000 0.00 0.0 0.00 2.93
817 1138 0.401738 CTCTCTCCAAGCCCACCAAA 59.598 55.000 0.00 0.0 0.00 3.28
818 1139 1.492133 CCTCTCTCCAAGCCCACCAA 61.492 60.000 0.00 0.0 0.00 3.67
819 1140 1.920325 CCTCTCTCCAAGCCCACCA 60.920 63.158 0.00 0.0 0.00 4.17
820 1141 2.993853 CCTCTCTCCAAGCCCACC 59.006 66.667 0.00 0.0 0.00 4.61
821 1142 2.250741 GAGCCTCTCTCCAAGCCCAC 62.251 65.000 0.00 0.0 35.77 4.61
822 1143 1.992277 GAGCCTCTCTCCAAGCCCA 60.992 63.158 0.00 0.0 35.77 5.36
823 1144 2.907236 GAGCCTCTCTCCAAGCCC 59.093 66.667 0.00 0.0 35.77 5.19
830 1151 0.608640 TTTCGTTGGGAGCCTCTCTC 59.391 55.000 0.00 0.0 41.15 3.20
831 1152 1.280457 ATTTCGTTGGGAGCCTCTCT 58.720 50.000 0.00 0.0 0.00 3.10
832 1153 2.115343 AATTTCGTTGGGAGCCTCTC 57.885 50.000 0.00 0.0 0.00 3.20
833 1154 3.545703 CATAATTTCGTTGGGAGCCTCT 58.454 45.455 0.00 0.0 0.00 3.69
834 1155 2.033424 GCATAATTTCGTTGGGAGCCTC 59.967 50.000 0.00 0.0 0.00 4.70
835 1156 2.024414 GCATAATTTCGTTGGGAGCCT 58.976 47.619 0.00 0.0 0.00 4.58
836 1157 1.748493 TGCATAATTTCGTTGGGAGCC 59.252 47.619 0.00 0.0 0.00 4.70
837 1158 2.791158 CGTGCATAATTTCGTTGGGAGC 60.791 50.000 0.00 0.0 0.00 4.70
838 1159 2.675844 TCGTGCATAATTTCGTTGGGAG 59.324 45.455 0.00 0.0 0.00 4.30
839 1160 2.675844 CTCGTGCATAATTTCGTTGGGA 59.324 45.455 0.00 0.0 0.00 4.37
840 1161 2.418628 ACTCGTGCATAATTTCGTTGGG 59.581 45.455 0.00 0.0 0.00 4.12
841 1162 3.124466 TCACTCGTGCATAATTTCGTTGG 59.876 43.478 0.00 0.0 0.00 3.77
842 1163 4.320667 TCACTCGTGCATAATTTCGTTG 57.679 40.909 0.00 0.0 0.00 4.10
843 1164 5.276868 GCTATCACTCGTGCATAATTTCGTT 60.277 40.000 0.00 0.0 0.00 3.85
844 1165 4.209288 GCTATCACTCGTGCATAATTTCGT 59.791 41.667 0.00 0.0 0.00 3.85
845 1166 4.376413 GGCTATCACTCGTGCATAATTTCG 60.376 45.833 0.00 0.0 0.00 3.46
846 1167 4.752101 AGGCTATCACTCGTGCATAATTTC 59.248 41.667 0.00 0.0 0.00 2.17
847 1168 4.512944 CAGGCTATCACTCGTGCATAATTT 59.487 41.667 0.00 0.0 0.00 1.82
848 1169 4.060900 CAGGCTATCACTCGTGCATAATT 58.939 43.478 0.00 0.0 0.00 1.40
849 1170 3.657634 CAGGCTATCACTCGTGCATAAT 58.342 45.455 0.00 0.0 0.00 1.28
850 1171 2.803133 GCAGGCTATCACTCGTGCATAA 60.803 50.000 0.00 0.0 41.91 1.90
851 1172 1.269778 GCAGGCTATCACTCGTGCATA 60.270 52.381 0.00 0.0 41.91 3.14
852 1173 0.531532 GCAGGCTATCACTCGTGCAT 60.532 55.000 0.00 0.0 41.91 3.96
853 1174 1.153568 GCAGGCTATCACTCGTGCA 60.154 57.895 0.00 0.0 41.91 4.57
854 1175 2.233654 CGCAGGCTATCACTCGTGC 61.234 63.158 0.00 0.0 39.76 5.34
855 1176 0.458543 AACGCAGGCTATCACTCGTG 60.459 55.000 0.00 0.0 0.00 4.35
856 1177 1.100510 TAACGCAGGCTATCACTCGT 58.899 50.000 0.00 0.0 0.00 4.18
857 1178 2.054363 CATAACGCAGGCTATCACTCG 58.946 52.381 0.00 0.0 0.00 4.18
858 1179 2.408050 CCATAACGCAGGCTATCACTC 58.592 52.381 0.00 0.0 0.00 3.51
859 1180 1.070758 CCCATAACGCAGGCTATCACT 59.929 52.381 0.00 0.0 0.00 3.41
860 1181 1.512926 CCCATAACGCAGGCTATCAC 58.487 55.000 0.00 0.0 0.00 3.06
861 1182 0.250295 GCCCATAACGCAGGCTATCA 60.250 55.000 0.00 0.0 43.62 2.15
862 1183 0.955919 GGCCCATAACGCAGGCTATC 60.956 60.000 0.00 0.0 46.31 2.08
863 1184 1.073199 GGCCCATAACGCAGGCTAT 59.927 57.895 0.00 0.0 46.31 2.97
864 1185 1.632018 AAGGCCCATAACGCAGGCTA 61.632 55.000 0.00 0.0 46.31 3.93
865 1186 2.499303 AAAGGCCCATAACGCAGGCT 62.499 55.000 0.00 0.0 46.31 4.58
866 1187 1.604147 AAAAGGCCCATAACGCAGGC 61.604 55.000 0.00 0.0 46.37 4.85
867 1188 0.894835 AAAAAGGCCCATAACGCAGG 59.105 50.000 0.00 0.0 0.00 4.85
887 1208 8.909923 CCAGAACTTTAACTTTTCTTTAGGGAA 58.090 33.333 0.00 0.0 0.00 3.97
894 1215 6.791867 AAGCCCAGAACTTTAACTTTTCTT 57.208 33.333 0.00 0.0 0.00 2.52
896 1217 5.983720 GGAAAGCCCAGAACTTTAACTTTTC 59.016 40.000 0.00 0.0 37.47 2.29
897 1218 5.423931 TGGAAAGCCCAGAACTTTAACTTTT 59.576 36.000 0.00 0.0 40.82 2.27
899 1220 4.542697 TGGAAAGCCCAGAACTTTAACTT 58.457 39.130 0.00 0.0 40.82 2.66
900 1221 4.178956 TGGAAAGCCCAGAACTTTAACT 57.821 40.909 0.00 0.0 40.82 2.24
947 1268 3.844090 GAGTGGAGCGGAGAGGGC 61.844 72.222 0.00 0.0 0.00 5.19
948 1269 3.151022 GGAGTGGAGCGGAGAGGG 61.151 72.222 0.00 0.0 0.00 4.30
949 1270 1.984570 TTGGAGTGGAGCGGAGAGG 60.985 63.158 0.00 0.0 0.00 3.69
950 1271 1.216710 GTTGGAGTGGAGCGGAGAG 59.783 63.158 0.00 0.0 0.00 3.20
951 1272 1.533033 TGTTGGAGTGGAGCGGAGA 60.533 57.895 0.00 0.0 0.00 3.71
952 1273 1.079543 CTGTTGGAGTGGAGCGGAG 60.080 63.158 0.00 0.0 0.00 4.63
1367 1698 1.941668 GCAACTTCCTCCAGTCGAAGG 60.942 57.143 0.00 0.0 39.87 3.46
1417 1757 1.310933 AAGGCGATGCTTTGCTGGAG 61.311 55.000 11.33 0.0 32.36 3.86
1508 1854 2.113986 ACACCTGGAAGTGCTGGC 59.886 61.111 0.00 0.0 41.67 4.85
2076 2443 4.771577 ACCACATTATTTGACTGCAATGGA 59.228 37.500 0.00 0.0 33.18 3.41
2480 2847 7.038302 AGCCAGCTAAGCTACCATTAACATATA 60.038 37.037 8.61 0.0 39.29 0.86
2548 2915 5.556915 TCAAAATCACGGACCAGTAGAATT 58.443 37.500 0.00 0.0 0.00 2.17
3400 4404 1.398390 GCAATCGGACTAGCCACAAAG 59.602 52.381 0.00 0.0 35.94 2.77
3530 4546 2.885135 ATGATCCCAAGTGAACAGCA 57.115 45.000 0.00 0.0 0.00 4.41
3599 4615 6.677920 GCTGAGAAAATATTTAAGCAAGCGGA 60.678 38.462 15.04 0.0 0.00 5.54
3733 4751 3.518634 TGGACAAAAACCTTGCTGAAC 57.481 42.857 0.00 0.0 0.00 3.18
3749 4767 9.185680 ACAGTAATCCTTTAAATGGTATTGGAC 57.814 33.333 0.00 0.0 0.00 4.02
3803 4821 6.555463 TTTCTCCGACAAGTAATTAGGGAT 57.445 37.500 0.00 0.0 0.00 3.85
3851 4869 8.681486 TCCAACAGAAATGGATGTATTAGATG 57.319 34.615 0.00 0.0 41.98 2.90
3955 4973 0.680061 GGGACTCAAGACAAGGACGT 59.320 55.000 0.00 0.0 0.00 4.34
4002 5031 1.372499 GTGTCTGGTTGCTCGCGTA 60.372 57.895 5.77 0.0 0.00 4.42
4124 5167 2.262774 CTGATTTGAGCCCCTCCGCT 62.263 60.000 0.00 0.0 43.42 5.52
4183 5226 4.446413 CGTCCACCGGGCCACTAC 62.446 72.222 6.32 0.0 0.00 2.73
4201 5244 3.300667 GAAACAGCCGCTCACGCAG 62.301 63.158 0.00 0.0 38.22 5.18
4206 5249 0.884704 GTCCAAGAAACAGCCGCTCA 60.885 55.000 0.00 0.0 0.00 4.26
4208 5251 1.600916 GGTCCAAGAAACAGCCGCT 60.601 57.895 0.00 0.0 0.00 5.52


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

AutoCloner maintained by Alex Coulton.