Multiple sequence alignment - TraesCS1B01G347800

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 TraesCS1B01G347800 chr1B 100.000 3417 0 0 1 3417 577035840 577039256 0.000000e+00 6311.0
1 TraesCS1B01G347800 chr1B 87.215 1009 107 14 922 1924 576921299 576922291 0.000000e+00 1129.0
2 TraesCS1B01G347800 chr1B 88.023 693 80 3 1233 1924 577028404 577029094 0.000000e+00 817.0
3 TraesCS1B01G347800 chr1B 88.737 657 67 2 2058 2714 577029206 577029855 0.000000e+00 797.0
4 TraesCS1B01G347800 chr1B 87.778 630 65 5 2089 2714 576922452 576923073 0.000000e+00 726.0
5 TraesCS1B01G347800 chr1B 92.754 69 2 2 3342 3409 388519462 388519528 2.810000e-16 97.1
6 TraesCS1B01G347800 chr1D 87.948 1925 187 23 922 2841 426978250 426980134 0.000000e+00 2228.0
7 TraesCS1B01G347800 chr1D 89.286 1092 97 9 1750 2834 426987935 426989013 0.000000e+00 1351.0
8 TraesCS1B01G347800 chr1D 95.509 757 32 2 878 1634 426987107 426987861 0.000000e+00 1208.0
9 TraesCS1B01G347800 chr1D 88.676 680 65 9 1252 1924 426931961 426932635 0.000000e+00 819.0
10 TraesCS1B01G347800 chr1D 84.300 828 109 10 2351 3166 427006664 427007482 0.000000e+00 789.0
11 TraesCS1B01G347800 chr1D 87.576 660 69 6 2089 2744 426932789 426933439 0.000000e+00 752.0
12 TraesCS1B01G347800 chr1D 89.204 565 46 11 1 555 481700750 481700191 0.000000e+00 691.0
13 TraesCS1B01G347800 chr1D 91.393 488 32 6 1 480 438153651 438153166 0.000000e+00 660.0
14 TraesCS1B01G347800 chr1D 79.368 950 170 19 993 1923 427039108 427040050 0.000000e+00 645.0
15 TraesCS1B01G347800 chr1D 91.589 321 20 5 565 878 426986750 426987070 1.460000e-118 436.0
16 TraesCS1B01G347800 chr1D 82.889 450 54 14 2897 3339 426988648 426989081 1.920000e-102 383.0
17 TraesCS1B01G347800 chr1D 86.607 336 39 3 922 1257 426930868 426931197 1.940000e-97 366.0
18 TraesCS1B01G347800 chr1D 77.409 602 123 10 2090 2688 427040145 427040736 2.520000e-91 346.0
19 TraesCS1B01G347800 chr1D 82.258 372 53 9 2897 3260 426979762 426980128 3.310000e-80 309.0
20 TraesCS1B01G347800 chr1D 92.437 119 6 2 1951 2069 334873977 334874092 2.110000e-37 167.0
21 TraesCS1B01G347800 chr1A 86.910 1482 135 29 923 2400 521989749 521991175 0.000000e+00 1607.0
22 TraesCS1B01G347800 chr1A 88.305 1009 100 11 922 1924 521977559 521978555 0.000000e+00 1194.0
23 TraesCS1B01G347800 chr1A 87.879 660 68 5 2089 2744 521978747 521979398 0.000000e+00 765.0
24 TraesCS1B01G347800 chr1A 80.927 949 157 20 993 1923 522189656 522190598 0.000000e+00 728.0
25 TraesCS1B01G347800 chr1A 87.097 403 46 3 2768 3166 521992692 521993092 5.200000e-123 451.0
26 TraesCS1B01G347800 chr1A 83.699 319 37 8 2896 3201 521991196 521991512 1.550000e-73 287.0
27 TraesCS1B01G347800 chrUn 86.376 756 84 11 922 1674 371289789 371289050 0.000000e+00 808.0
28 TraesCS1B01G347800 chrUn 87.778 630 65 5 2089 2714 374061258 374061879 0.000000e+00 726.0
29 TraesCS1B01G347800 chrUn 90.079 252 22 3 1676 1924 374060846 374061097 1.180000e-84 324.0
30 TraesCS1B01G347800 chr7D 91.197 568 39 7 1 559 534448474 534447909 0.000000e+00 761.0
31 TraesCS1B01G347800 chr6A 89.613 568 44 9 1 559 610590406 610590967 0.000000e+00 708.0
32 TraesCS1B01G347800 chr6A 87.371 388 31 11 177 555 84032733 84032355 2.440000e-116 429.0
33 TraesCS1B01G347800 chr4A 89.217 575 43 10 1 559 545847628 545848199 0.000000e+00 701.0
34 TraesCS1B01G347800 chr6B 88.596 570 52 9 1 560 707851518 707852084 0.000000e+00 680.0
35 TraesCS1B01G347800 chr7B 87.024 578 46 14 1 560 517633211 517633777 2.900000e-175 625.0
36 TraesCS1B01G347800 chr7B 88.771 472 39 8 1 460 725974514 725974045 1.780000e-157 566.0
37 TraesCS1B01G347800 chr2A 92.235 425 25 5 1 419 692213826 692213404 2.270000e-166 595.0
38 TraesCS1B01G347800 chr5A 94.118 68 2 1 3342 3409 205786674 205786739 6.030000e-18 102.0
39 TraesCS1B01G347800 chr4B 90.909 77 5 1 3341 3417 139922777 139922851 6.030000e-18 102.0
40 TraesCS1B01G347800 chr3B 94.030 67 2 1 3343 3409 491999366 491999430 2.170000e-17 100.0
41 TraesCS1B01G347800 chr3B 93.939 66 2 1 3344 3409 200714951 200715014 7.800000e-17 99.0
42 TraesCS1B01G347800 chr3B 90.789 76 4 3 3342 3417 282568733 282568805 7.800000e-17 99.0
43 TraesCS1B01G347800 chr3B 84.946 93 12 1 3325 3417 469475718 469475628 3.630000e-15 93.5
44 TraesCS1B01G347800 chr7A 93.939 66 2 1 3344 3409 614905273 614905336 7.800000e-17 99.0
45 TraesCS1B01G347800 chr5B 90.541 74 3 3 3345 3417 91634635 91634565 1.010000e-15 95.3


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 TraesCS1B01G347800 chr1B 577035840 577039256 3416 False 6311.000000 6311 100.000000 1 3417 1 chr1B.!!$F2 3416
1 TraesCS1B01G347800 chr1B 576921299 576923073 1774 False 927.500000 1129 87.496500 922 2714 2 chr1B.!!$F3 1792
2 TraesCS1B01G347800 chr1B 577028404 577029855 1451 False 807.000000 817 88.380000 1233 2714 2 chr1B.!!$F4 1481
3 TraesCS1B01G347800 chr1D 426978250 426980134 1884 False 1268.500000 2228 85.103000 922 3260 2 chr1D.!!$F4 2338
4 TraesCS1B01G347800 chr1D 426986750 426989081 2331 False 844.500000 1351 89.818250 565 3339 4 chr1D.!!$F5 2774
5 TraesCS1B01G347800 chr1D 427006664 427007482 818 False 789.000000 789 84.300000 2351 3166 1 chr1D.!!$F2 815
6 TraesCS1B01G347800 chr1D 481700191 481700750 559 True 691.000000 691 89.204000 1 555 1 chr1D.!!$R2 554
7 TraesCS1B01G347800 chr1D 426930868 426933439 2571 False 645.666667 819 87.619667 922 2744 3 chr1D.!!$F3 1822
8 TraesCS1B01G347800 chr1D 427039108 427040736 1628 False 495.500000 645 78.388500 993 2688 2 chr1D.!!$F6 1695
9 TraesCS1B01G347800 chr1A 521977559 521979398 1839 False 979.500000 1194 88.092000 922 2744 2 chr1A.!!$F2 1822
10 TraesCS1B01G347800 chr1A 521989749 521993092 3343 False 781.666667 1607 85.902000 923 3201 3 chr1A.!!$F3 2278
11 TraesCS1B01G347800 chr1A 522189656 522190598 942 False 728.000000 728 80.927000 993 1923 1 chr1A.!!$F1 930
12 TraesCS1B01G347800 chrUn 371289050 371289789 739 True 808.000000 808 86.376000 922 1674 1 chrUn.!!$R1 752
13 TraesCS1B01G347800 chrUn 374060846 374061879 1033 False 525.000000 726 88.928500 1676 2714 2 chrUn.!!$F1 1038
14 TraesCS1B01G347800 chr7D 534447909 534448474 565 True 761.000000 761 91.197000 1 559 1 chr7D.!!$R1 558
15 TraesCS1B01G347800 chr6A 610590406 610590967 561 False 708.000000 708 89.613000 1 559 1 chr6A.!!$F1 558
16 TraesCS1B01G347800 chr4A 545847628 545848199 571 False 701.000000 701 89.217000 1 559 1 chr4A.!!$F1 558
17 TraesCS1B01G347800 chr6B 707851518 707852084 566 False 680.000000 680 88.596000 1 560 1 chr6B.!!$F1 559
18 TraesCS1B01G347800 chr7B 517633211 517633777 566 False 625.000000 625 87.024000 1 560 1 chr7B.!!$F1 559

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
985 1065 0.249657 GTCCATTCCGCTCTGCTAGG 60.25 60.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2813 5038 0.101399 GATCAGGCGACGAGTGATGT 59.899 55.0 14.86 0.0 30.93 3.06 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
57 59 9.744468 AATGTGTGAAACCTATCTTTTGTAAAC 57.256 29.630 0.00 0.00 34.36 2.01
350 366 8.674925 TTAATACTAGTCTTTCCTTGGGAGAA 57.325 34.615 0.00 0.00 31.21 2.87
368 384 6.486657 TGGGAGAAAGACTTGTGAATGTTTAG 59.513 38.462 0.00 0.00 0.00 1.85
446 475 5.293569 GGTCCATAACAGGTTTGTATTCTCG 59.706 44.000 0.00 0.00 36.23 4.04
448 477 4.035208 CCATAACAGGTTTGTATTCTCGCC 59.965 45.833 0.00 0.00 36.23 5.54
456 485 6.093495 CAGGTTTGTATTCTCGCCTATTGAAA 59.907 38.462 0.00 0.00 0.00 2.69
462 491 5.998454 ATTCTCGCCTATTGAAATGTGAG 57.002 39.130 0.00 0.00 36.84 3.51
480 512 5.933617 TGTGAGAGATTGGCTTGCTTATAT 58.066 37.500 0.00 0.00 0.00 0.86
481 513 7.066307 TGTGAGAGATTGGCTTGCTTATATA 57.934 36.000 0.00 0.00 0.00 0.86
506 538 2.428890 ACAGTGGCCACGAATTTCAAAA 59.571 40.909 29.68 0.00 36.20 2.44
555 587 1.814169 GCTCCGGGCTCCGTAAAAG 60.814 63.158 0.00 5.83 46.80 2.27
560 592 1.881324 CCGGGCTCCGTAAAAGAAAAA 59.119 47.619 11.85 0.00 46.80 1.94
561 593 2.490509 CCGGGCTCCGTAAAAGAAAAAT 59.509 45.455 11.85 0.00 46.80 1.82
562 594 3.427098 CCGGGCTCCGTAAAAGAAAAATC 60.427 47.826 11.85 0.00 46.80 2.17
563 595 3.189702 CGGGCTCCGTAAAAGAAAAATCA 59.810 43.478 5.56 0.00 42.73 2.57
568 600 3.189702 TCCGTAAAAGAAAAATCAGGCCG 59.810 43.478 0.00 0.00 0.00 6.13
603 642 1.744522 CATGATTGCATCGGGACAACA 59.255 47.619 0.00 0.00 30.68 3.33
651 690 0.517316 GGGACAACGATGTTGCTGTC 59.483 55.000 9.45 1.22 40.74 3.51
748 787 0.379669 CCATCGCTCAATGCCTGAAC 59.620 55.000 0.00 0.00 38.78 3.18
757 796 0.398696 AATGCCTGAACCGTACCACA 59.601 50.000 0.00 0.00 0.00 4.17
762 801 1.508632 CTGAACCGTACCACAACCAG 58.491 55.000 0.00 0.00 0.00 4.00
764 803 1.202557 TGAACCGTACCACAACCAGAC 60.203 52.381 0.00 0.00 0.00 3.51
767 806 0.388134 CCGTACCACAACCAGACGAG 60.388 60.000 0.00 0.00 35.59 4.18
768 807 0.594602 CGTACCACAACCAGACGAGA 59.405 55.000 0.00 0.00 35.59 4.04
775 814 5.141182 ACCACAACCAGACGAGATATATCT 58.859 41.667 15.26 15.26 40.50 1.98
785 824 6.590677 CAGACGAGATATATCTACTCCGTTGA 59.409 42.308 21.31 0.00 37.25 3.18
791 830 1.390565 ATCTACTCCGTTGACCTCCG 58.609 55.000 0.00 0.00 0.00 4.63
845 884 1.466167 CATGGCTTCCACTCTTTCGTG 59.534 52.381 0.00 0.00 35.80 4.35
915 991 1.375908 TCTTGTGTGGATCCTGCGC 60.376 57.895 14.23 12.73 0.00 6.09
920 996 1.153309 TGTGGATCCTGCGCATCAG 60.153 57.895 12.24 2.67 42.49 2.90
970 1046 1.222300 GTACACACATGTTGCGTCCA 58.778 50.000 0.00 0.00 40.48 4.02
985 1065 0.249657 GTCCATTCCGCTCTGCTAGG 60.250 60.000 0.00 0.00 0.00 3.02
986 1066 1.596477 CCATTCCGCTCTGCTAGGC 60.596 63.158 0.00 0.00 0.00 3.93
987 1067 1.445095 CATTCCGCTCTGCTAGGCT 59.555 57.895 0.00 0.00 0.00 4.58
988 1068 0.676184 CATTCCGCTCTGCTAGGCTA 59.324 55.000 0.00 0.00 0.00 3.93
989 1069 0.965439 ATTCCGCTCTGCTAGGCTAG 59.035 55.000 17.33 17.33 0.00 3.42
1058 1138 2.957006 GCCTCCTCTTCGTGGTATCTTA 59.043 50.000 0.00 0.00 0.00 2.10
1076 1156 0.522626 TACTTCACCATCGTCGCGAA 59.477 50.000 12.06 0.00 39.99 4.70
1155 1247 1.898574 CGGCAACCTGCTCCAGTTT 60.899 57.895 0.00 0.00 44.28 2.66
1182 1274 2.887568 CGCCATCACCAGACGCTC 60.888 66.667 0.00 0.00 0.00 5.03
1260 2121 3.063084 GTCGTGGTCTCCTCCGCT 61.063 66.667 0.00 0.00 36.01 5.52
1263 2124 2.680352 GTGGTCTCCTCCGCTCCA 60.680 66.667 0.00 0.00 35.37 3.86
1647 2511 0.460284 AGGTCCGCGACATGATGAAC 60.460 55.000 8.23 0.00 33.68 3.18
1699 2563 2.659244 GCGACGTGTTCCCGACAA 60.659 61.111 0.00 0.00 40.65 3.18
1794 2658 0.032117 TGGAGAGGACCATCACGGAT 60.032 55.000 0.00 0.00 38.63 4.18
1820 2687 1.368579 GGAACCCAGGAAACGACGA 59.631 57.895 0.00 0.00 0.00 4.20
1823 2690 2.431942 CCCAGGAAACGACGACGG 60.432 66.667 12.58 0.00 44.46 4.79
1892 2759 1.005924 CCAGGGGTTTAAGCTGGACAT 59.994 52.381 0.00 0.00 37.37 3.06
2008 2974 4.743644 GGTTGGTCGATTAGCAGTATACAC 59.256 45.833 5.50 0.00 36.82 2.90
2046 3015 0.264359 AGGAGTAGGAGCAGCCAGAT 59.736 55.000 0.00 0.00 40.02 2.90
2047 3016 1.501170 AGGAGTAGGAGCAGCCAGATA 59.499 52.381 0.00 0.00 40.02 1.98
2048 3017 1.616374 GGAGTAGGAGCAGCCAGATAC 59.384 57.143 0.00 0.00 40.02 2.24
2051 3020 2.632028 AGTAGGAGCAGCCAGATACATG 59.368 50.000 0.00 0.00 40.02 3.21
2129 3146 0.388134 CACCGACACGACCTACAAGG 60.388 60.000 0.00 0.00 42.49 3.61
2264 3284 1.701847 ACAAGATGAACCTCCTGCAGT 59.298 47.619 13.81 0.00 0.00 4.40
2268 3288 1.903877 ATGAACCTCCTGCAGTCGGG 61.904 60.000 19.21 16.18 40.23 5.14
2400 3420 4.101790 CAACACGTGGGCCATCGC 62.102 66.667 21.57 5.59 0.00 4.58
2428 3448 2.438392 GGAGGGATAAAGATTCGTGGGT 59.562 50.000 0.00 0.00 0.00 4.51
2489 3509 4.094442 GGAACCATCGACTACAATGGAAAC 59.906 45.833 7.46 0.00 44.37 2.78
2637 3665 0.806492 GGATCCGGACTCGTTTGAGC 60.806 60.000 6.12 0.00 46.69 4.26
2648 3676 0.662619 CGTTTGAGCTTGTTGAGGCA 59.337 50.000 0.00 0.00 0.00 4.75
2714 3742 6.315393 CCGTAAAACCTCTGTAAGCATACATT 59.685 38.462 1.68 0.00 41.09 2.71
2717 3746 7.944729 AAAACCTCTGTAAGCATACATTGAT 57.055 32.000 1.68 0.00 41.09 2.57
2751 3789 2.158519 ACTGCTAATTAATTCCCCCGGG 60.159 50.000 15.80 15.80 0.00 5.73
2755 3793 0.105709 AATTAATTCCCCCGGGGCAG 60.106 55.000 36.20 22.35 43.94 4.85
2765 3803 2.458620 CCCCGGGGCAGTTAAATAAAA 58.541 47.619 31.01 0.00 0.00 1.52
2808 5033 1.246649 ATGAATCTTGCGTTGTGGCA 58.753 45.000 0.00 0.00 42.12 4.92
2810 5035 0.109597 GAATCTTGCGTTGTGGCAGG 60.110 55.000 0.00 0.00 44.94 4.85
2813 5038 2.124529 TTGCGTTGTGGCAGGACA 60.125 55.556 0.00 0.00 44.94 4.02
2820 5045 2.144952 TGTGGCAGGACACATCACT 58.855 52.632 3.31 0.00 45.70 3.41
2844 5069 1.215655 GCCTGATCCGCATCGTACAC 61.216 60.000 0.00 0.00 0.00 2.90
2845 5070 0.597637 CCTGATCCGCATCGTACACC 60.598 60.000 0.00 0.00 0.00 4.16
2847 5072 1.300697 GATCCGCATCGTACACCCC 60.301 63.158 0.00 0.00 0.00 4.95
2851 5076 1.105167 CCGCATCGTACACCCCTCTA 61.105 60.000 0.00 0.00 0.00 2.43
2855 5080 2.628657 GCATCGTACACCCCTCTATCTT 59.371 50.000 0.00 0.00 0.00 2.40
2857 5082 3.657398 TCGTACACCCCTCTATCTTCA 57.343 47.619 0.00 0.00 0.00 3.02
2872 5097 3.845781 TCTTCAGCACTTCTTTCCTGT 57.154 42.857 0.00 0.00 0.00 4.00
2875 5100 1.151668 CAGCACTTCTTTCCTGTCGG 58.848 55.000 0.00 0.00 0.00 4.79
2881 5106 3.183775 CACTTCTTTCCTGTCGGTTAACG 59.816 47.826 0.00 0.00 46.11 3.18
2892 5117 1.843734 CGGTTAACGCAAAAGGCCGA 61.844 55.000 0.00 0.00 40.04 5.54
2894 5119 0.589708 GTTAACGCAAAAGGCCGAGT 59.410 50.000 0.00 0.00 40.31 4.18
2922 5147 1.899814 TCGACTACAATGGCAAGGACT 59.100 47.619 0.00 0.00 0.00 3.85
2923 5148 2.002586 CGACTACAATGGCAAGGACTG 58.997 52.381 0.00 0.00 0.00 3.51
2924 5149 2.612972 CGACTACAATGGCAAGGACTGT 60.613 50.000 0.00 0.00 0.00 3.55
2972 5201 4.564110 GCCCCGGTATGGCCTGTC 62.564 72.222 8.93 0.00 43.33 3.51
2996 5225 3.418068 GCCTCACACAGCTCACGC 61.418 66.667 0.00 0.00 0.00 5.34
3007 5236 2.680913 GCTCACGCTGGCGAACATT 61.681 57.895 21.77 0.00 42.83 2.71
3099 5328 0.605589 GTGTCGCCAGGCCTTAAGTT 60.606 55.000 0.00 0.00 0.00 2.66
3101 5330 0.521735 GTCGCCAGGCCTTAAGTTTG 59.478 55.000 0.00 0.00 0.00 2.93
3110 5339 3.092301 GGCCTTAAGTTTGCCTTGATCT 58.908 45.455 12.50 0.00 42.01 2.75
3114 5343 5.509670 GCCTTAAGTTTGCCTTGATCTTTGT 60.510 40.000 0.97 0.00 34.46 2.83
3121 5350 5.957842 TTGCCTTGATCTTTGTCGTAAAT 57.042 34.783 0.00 0.00 0.00 1.40
3127 5356 6.036517 CCTTGATCTTTGTCGTAAATCCTCTG 59.963 42.308 0.00 0.00 0.00 3.35
3129 5358 5.869344 TGATCTTTGTCGTAAATCCTCTGTG 59.131 40.000 0.00 0.00 0.00 3.66
3139 5368 5.755375 CGTAAATCCTCTGTGAGCATACATT 59.245 40.000 0.00 0.00 0.00 2.71
3157 5386 8.704234 GCATACATTGACTATGTTAGAGTAAGC 58.296 37.037 7.83 0.00 45.19 3.09
3166 5395 9.116054 GACTATGTTAGAGTAAGCGCTAATTAC 57.884 37.037 12.05 10.33 38.78 1.89
3167 5396 6.988109 ATGTTAGAGTAAGCGCTAATTACG 57.012 37.500 12.05 3.91 38.78 3.18
3169 5398 5.967674 TGTTAGAGTAAGCGCTAATTACGTC 59.032 40.000 12.05 9.31 38.78 4.34
3170 5399 3.962423 AGAGTAAGCGCTAATTACGTCC 58.038 45.455 12.05 5.17 38.02 4.79
3171 5400 3.048501 GAGTAAGCGCTAATTACGTCCC 58.951 50.000 12.05 0.00 38.02 4.46
3172 5401 2.428171 AGTAAGCGCTAATTACGTCCCA 59.572 45.455 12.05 0.00 38.02 4.37
3173 5402 1.935933 AAGCGCTAATTACGTCCCAG 58.064 50.000 12.05 0.00 0.00 4.45
3174 5403 1.108776 AGCGCTAATTACGTCCCAGA 58.891 50.000 8.99 0.00 0.00 3.86
3175 5404 1.479323 AGCGCTAATTACGTCCCAGAA 59.521 47.619 8.99 0.00 0.00 3.02
3176 5405 1.859080 GCGCTAATTACGTCCCAGAAG 59.141 52.381 0.00 0.00 0.00 2.85
3177 5406 2.737679 GCGCTAATTACGTCCCAGAAGT 60.738 50.000 0.00 0.00 0.00 3.01
3178 5407 3.489738 GCGCTAATTACGTCCCAGAAGTA 60.490 47.826 0.00 0.00 0.00 2.24
3179 5408 4.795308 GCGCTAATTACGTCCCAGAAGTAT 60.795 45.833 0.00 0.00 0.00 2.12
3180 5409 5.563475 GCGCTAATTACGTCCCAGAAGTATA 60.563 44.000 0.00 0.00 0.00 1.47
3181 5410 6.441274 CGCTAATTACGTCCCAGAAGTATAA 58.559 40.000 0.00 0.00 0.00 0.98
3182 5411 7.088905 CGCTAATTACGTCCCAGAAGTATAAT 58.911 38.462 0.00 0.00 0.00 1.28
3183 5412 7.061905 CGCTAATTACGTCCCAGAAGTATAATG 59.938 40.741 0.00 0.00 0.00 1.90
3184 5413 8.086522 GCTAATTACGTCCCAGAAGTATAATGA 58.913 37.037 0.00 0.00 0.00 2.57
3185 5414 9.976511 CTAATTACGTCCCAGAAGTATAATGAA 57.023 33.333 0.00 0.00 0.00 2.57
3187 5416 9.847224 AATTACGTCCCAGAAGTATAATGAAAT 57.153 29.630 0.00 0.00 0.00 2.17
3191 5420 9.326413 ACGTCCCAGAAGTATAATGAAATAAAG 57.674 33.333 0.00 0.00 0.00 1.85
3192 5421 8.774586 CGTCCCAGAAGTATAATGAAATAAAGG 58.225 37.037 0.00 0.00 0.00 3.11
3193 5422 9.847224 GTCCCAGAAGTATAATGAAATAAAGGA 57.153 33.333 0.00 0.00 0.00 3.36
3206 5435 7.900782 TGAAATAAAGGAGAAAGTTAGTCGG 57.099 36.000 0.00 0.00 0.00 4.79
3207 5436 6.370718 TGAAATAAAGGAGAAAGTTAGTCGGC 59.629 38.462 0.00 0.00 0.00 5.54
3208 5437 2.365408 AAGGAGAAAGTTAGTCGGCG 57.635 50.000 0.00 0.00 0.00 6.46
3209 5438 1.542492 AGGAGAAAGTTAGTCGGCGA 58.458 50.000 4.99 4.99 0.00 5.54
3210 5439 1.891150 AGGAGAAAGTTAGTCGGCGAA 59.109 47.619 12.92 0.00 0.00 4.70
3211 5440 2.094649 AGGAGAAAGTTAGTCGGCGAAG 60.095 50.000 12.92 0.00 0.00 3.79
3212 5441 2.260481 GAGAAAGTTAGTCGGCGAAGG 58.740 52.381 12.92 0.00 0.00 3.46
3213 5442 1.617357 AGAAAGTTAGTCGGCGAAGGT 59.383 47.619 12.92 1.39 0.00 3.50
3214 5443 2.821969 AGAAAGTTAGTCGGCGAAGGTA 59.178 45.455 12.92 0.24 0.00 3.08
3215 5444 3.446516 AGAAAGTTAGTCGGCGAAGGTAT 59.553 43.478 12.92 0.00 0.00 2.73
3216 5445 2.865343 AGTTAGTCGGCGAAGGTATG 57.135 50.000 12.92 0.00 0.00 2.39
3217 5446 2.372264 AGTTAGTCGGCGAAGGTATGA 58.628 47.619 12.92 0.00 0.00 2.15
3218 5447 2.756760 AGTTAGTCGGCGAAGGTATGAA 59.243 45.455 12.92 0.00 0.00 2.57
3219 5448 3.383825 AGTTAGTCGGCGAAGGTATGAAT 59.616 43.478 12.92 0.00 0.00 2.57
3220 5449 2.981859 AGTCGGCGAAGGTATGAATT 57.018 45.000 12.92 0.00 0.00 2.17
3221 5450 3.261981 AGTCGGCGAAGGTATGAATTT 57.738 42.857 12.92 0.00 0.00 1.82
3222 5451 3.606687 AGTCGGCGAAGGTATGAATTTT 58.393 40.909 12.92 0.00 0.00 1.82
3223 5452 3.374058 AGTCGGCGAAGGTATGAATTTTG 59.626 43.478 12.92 0.00 0.00 2.44
3224 5453 2.096819 TCGGCGAAGGTATGAATTTTGC 59.903 45.455 7.35 0.00 0.00 3.68
3225 5454 2.159448 CGGCGAAGGTATGAATTTTGCA 60.159 45.455 0.00 0.00 33.77 4.08
3229 5458 4.259930 GCGAAGGTATGAATTTTGCATTGC 60.260 41.667 0.46 0.46 32.65 3.56
3234 5463 2.808523 TGAATTTTGCATTGCGTCCA 57.191 40.000 3.84 0.00 0.00 4.02
3258 5487 1.224075 CATCATGTGTCGCCTGATCC 58.776 55.000 1.59 0.00 31.46 3.36
3259 5488 0.249615 ATCATGTGTCGCCTGATCCG 60.250 55.000 0.00 0.00 28.28 4.18
3260 5489 2.202932 ATGTGTCGCCTGATCCGC 60.203 61.111 0.00 0.00 0.00 5.54
3261 5490 3.017771 ATGTGTCGCCTGATCCGCA 62.018 57.895 3.13 0.00 0.00 5.69
3262 5491 2.202932 GTGTCGCCTGATCCGCAT 60.203 61.111 3.13 0.00 0.00 4.73
3263 5492 1.815421 GTGTCGCCTGATCCGCATT 60.815 57.895 3.13 0.00 0.00 3.56
3264 5493 0.529773 GTGTCGCCTGATCCGCATTA 60.530 55.000 3.13 0.00 0.00 1.90
3265 5494 0.392706 TGTCGCCTGATCCGCATTAT 59.607 50.000 3.13 0.00 0.00 1.28
3266 5495 1.616374 TGTCGCCTGATCCGCATTATA 59.384 47.619 3.13 0.00 0.00 0.98
3267 5496 1.993370 GTCGCCTGATCCGCATTATAC 59.007 52.381 3.13 0.00 0.00 1.47
3268 5497 1.616374 TCGCCTGATCCGCATTATACA 59.384 47.619 3.13 0.00 0.00 2.29
3269 5498 2.233676 TCGCCTGATCCGCATTATACAT 59.766 45.455 3.13 0.00 0.00 2.29
3270 5499 2.604914 CGCCTGATCCGCATTATACATC 59.395 50.000 3.13 0.00 0.00 3.06
3281 5510 5.300752 CGCATTATACATCCCTCTGTCTTT 58.699 41.667 0.00 0.00 0.00 2.52
3282 5511 5.178252 CGCATTATACATCCCTCTGTCTTTG 59.822 44.000 0.00 0.00 0.00 2.77
3301 5530 2.863153 CACTTCTTTCCTGCCGCG 59.137 61.111 0.00 0.00 0.00 6.46
3304 5533 1.667830 CTTCTTTCCTGCCGCGTCA 60.668 57.895 4.92 0.00 0.00 4.35
3311 5540 2.034879 CCTGCCGCGTCAAGAACAT 61.035 57.895 4.92 0.00 0.00 2.71
3312 5541 0.739462 CCTGCCGCGTCAAGAACATA 60.739 55.000 4.92 0.00 0.00 2.29
3316 5545 1.060698 GCCGCGTCAAGAACATACTTC 59.939 52.381 4.92 0.00 0.00 3.01
3319 5548 2.222596 CGCGTCAAGAACATACTTCTGC 60.223 50.000 0.00 0.00 0.00 4.26
3321 5550 3.372206 GCGTCAAGAACATACTTCTGCAT 59.628 43.478 0.00 0.00 0.00 3.96
3323 5552 4.867047 CGTCAAGAACATACTTCTGCATCT 59.133 41.667 0.00 0.00 0.00 2.90
3324 5553 5.220359 CGTCAAGAACATACTTCTGCATCTG 60.220 44.000 0.00 0.00 0.00 2.90
3339 5569 0.618458 ATCTGTTTCCCCTTGCGCTA 59.382 50.000 9.73 0.00 0.00 4.26
3340 5570 0.618458 TCTGTTTCCCCTTGCGCTAT 59.382 50.000 9.73 0.00 0.00 2.97
3341 5571 1.017387 CTGTTTCCCCTTGCGCTATC 58.983 55.000 9.73 0.00 0.00 2.08
3342 5572 0.742990 TGTTTCCCCTTGCGCTATCG 60.743 55.000 9.73 0.00 39.07 2.92
3359 5589 2.357034 GCTGTCGGCGTTCTGGAA 60.357 61.111 6.85 0.00 0.00 3.53
3360 5590 1.959226 GCTGTCGGCGTTCTGGAAA 60.959 57.895 6.85 0.00 0.00 3.13
3361 5591 1.860078 CTGTCGGCGTTCTGGAAAC 59.140 57.895 6.85 0.00 0.00 2.78
3362 5592 1.886861 CTGTCGGCGTTCTGGAAACG 61.887 60.000 6.85 5.98 45.56 3.60
3363 5593 2.356553 TCGGCGTTCTGGAAACGG 60.357 61.111 6.85 0.00 43.25 4.44
3364 5594 3.419759 CGGCGTTCTGGAAACGGG 61.420 66.667 11.71 0.00 43.25 5.28
3365 5595 3.053896 GGCGTTCTGGAAACGGGG 61.054 66.667 11.71 0.00 43.25 5.73
3366 5596 3.053896 GCGTTCTGGAAACGGGGG 61.054 66.667 11.71 0.00 43.25 5.40
3367 5597 2.428622 CGTTCTGGAAACGGGGGT 59.571 61.111 2.53 0.00 39.73 4.95
3368 5598 1.670083 CGTTCTGGAAACGGGGGTC 60.670 63.158 2.53 0.00 39.73 4.46
3369 5599 1.303074 GTTCTGGAAACGGGGGTCC 60.303 63.158 0.00 0.00 37.31 4.46
3370 5600 1.462627 TTCTGGAAACGGGGGTCCT 60.463 57.895 0.00 0.00 37.31 3.85
3371 5601 1.486145 TTCTGGAAACGGGGGTCCTC 61.486 60.000 0.00 0.00 37.31 3.71
3372 5602 2.122324 TGGAAACGGGGGTCCTCA 60.122 61.111 0.00 0.00 34.77 3.86
3373 5603 2.185310 CTGGAAACGGGGGTCCTCAG 62.185 65.000 0.00 0.00 34.77 3.35
3374 5604 1.916777 GGAAACGGGGGTCCTCAGA 60.917 63.158 0.00 0.00 0.00 3.27
3375 5605 1.295746 GAAACGGGGGTCCTCAGAC 59.704 63.158 0.00 0.00 42.73 3.51
3376 5606 1.152096 AAACGGGGGTCCTCAGACT 60.152 57.895 0.00 0.00 43.05 3.24
3377 5607 0.767060 AAACGGGGGTCCTCAGACTT 60.767 55.000 0.00 0.00 43.05 3.01
3378 5608 1.481056 AACGGGGGTCCTCAGACTTG 61.481 60.000 0.00 0.00 43.05 3.16
3379 5609 2.671682 GGGGGTCCTCAGACTTGC 59.328 66.667 0.00 0.00 43.05 4.01
3380 5610 2.671682 GGGGTCCTCAGACTTGCC 59.328 66.667 0.00 0.00 43.05 4.52
3381 5611 1.920835 GGGGTCCTCAGACTTGCCT 60.921 63.158 0.00 0.00 43.05 4.75
3382 5612 1.298014 GGGTCCTCAGACTTGCCTG 59.702 63.158 0.00 0.00 43.05 4.85
3383 5613 1.376553 GGTCCTCAGACTTGCCTGC 60.377 63.158 0.00 0.00 43.05 4.85
3384 5614 1.376553 GTCCTCAGACTTGCCTGCC 60.377 63.158 0.00 0.00 40.10 4.85
3385 5615 1.537397 TCCTCAGACTTGCCTGCCT 60.537 57.895 0.00 0.00 34.28 4.75
3386 5616 1.376942 CCTCAGACTTGCCTGCCTG 60.377 63.158 0.00 0.00 34.28 4.85
3387 5617 2.033141 TCAGACTTGCCTGCCTGC 59.967 61.111 0.00 0.00 34.28 4.85
3388 5618 3.429141 CAGACTTGCCTGCCTGCG 61.429 66.667 0.00 0.00 0.00 5.18
3389 5619 4.711949 AGACTTGCCTGCCTGCGG 62.712 66.667 0.00 0.00 0.00 5.69
3406 5636 2.564975 GCATGCGGCATATGGCTC 59.435 61.111 24.98 18.80 43.97 4.70
3407 5637 2.263021 GCATGCGGCATATGGCTCA 61.263 57.895 22.28 22.28 43.97 4.26
3408 5638 1.798234 GCATGCGGCATATGGCTCAA 61.798 55.000 23.57 11.19 43.97 3.02
3409 5639 0.885879 CATGCGGCATATGGCTCAAT 59.114 50.000 23.57 12.82 44.01 2.57
3410 5640 0.885879 ATGCGGCATATGGCTCAATG 59.114 50.000 23.57 10.80 44.01 2.82
3411 5641 0.179023 TGCGGCATATGGCTCAATGA 60.179 50.000 24.98 0.48 44.01 2.57
3412 5642 0.520404 GCGGCATATGGCTCAATGAG 59.480 55.000 24.98 5.78 44.01 2.90
3413 5643 1.888215 CGGCATATGGCTCAATGAGT 58.112 50.000 24.98 0.00 44.01 3.41
3414 5644 1.534163 CGGCATATGGCTCAATGAGTG 59.466 52.381 24.98 2.90 44.01 3.51
3415 5645 1.884579 GGCATATGGCTCAATGAGTGG 59.115 52.381 21.32 0.00 44.01 4.00
3416 5646 1.268899 GCATATGGCTCAATGAGTGGC 59.731 52.381 12.29 0.44 40.25 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 64 9.612620 ACTCATTTCAATAAACGATTTCACTTC 57.387 29.630 0.00 0.00 0.00 3.01
324 340 8.855804 TCTCCCAAGGAAAGACTAGTATTAAT 57.144 34.615 2.61 0.00 0.00 1.40
350 366 4.213482 GGCGACTAAACATTCACAAGTCTT 59.787 41.667 0.00 0.00 35.51 3.01
368 384 1.024271 TGTGGGTAGTATACGGCGAC 58.976 55.000 16.62 0.19 44.28 5.19
446 475 5.506982 GCCAATCTCTCACATTTCAATAGGC 60.507 44.000 0.00 0.00 0.00 3.93
448 477 6.939132 AGCCAATCTCTCACATTTCAATAG 57.061 37.500 0.00 0.00 0.00 1.73
456 485 2.803030 AGCAAGCCAATCTCTCACAT 57.197 45.000 0.00 0.00 0.00 3.21
462 491 8.327941 TGTTCATATATAAGCAAGCCAATCTC 57.672 34.615 0.00 0.00 0.00 2.75
480 512 2.779755 ATTCGTGGCCACTGTTCATA 57.220 45.000 32.28 10.53 0.00 2.15
481 513 1.909700 AATTCGTGGCCACTGTTCAT 58.090 45.000 32.28 14.15 0.00 2.57
506 538 5.335897 CGAAGAATCCACCACACATGATTTT 60.336 40.000 0.00 0.00 0.00 1.82
542 574 4.380550 CCTGATTTTTCTTTTACGGAGCCC 60.381 45.833 0.00 0.00 0.00 5.19
550 582 2.829120 CCCCGGCCTGATTTTTCTTTTA 59.171 45.455 0.00 0.00 0.00 1.52
551 583 1.623311 CCCCGGCCTGATTTTTCTTTT 59.377 47.619 0.00 0.00 0.00 2.27
555 587 1.654023 CGACCCCGGCCTGATTTTTC 61.654 60.000 0.00 0.00 0.00 2.29
568 600 2.124151 ATGCAAGATGCCGACCCC 60.124 61.111 0.00 0.00 44.23 4.95
612 651 2.745281 CCGATACCCGCAAAAGAAAAGA 59.255 45.455 0.00 0.00 36.84 2.52
613 652 2.159435 CCCGATACCCGCAAAAGAAAAG 60.159 50.000 0.00 0.00 36.84 2.27
625 664 0.462789 ACATCGTTGTCCCGATACCC 59.537 55.000 0.00 0.00 45.25 3.69
673 712 2.203084 TGCTTTCGACGCACCCAA 60.203 55.556 4.57 0.00 31.40 4.12
678 717 2.607635 GGAAATATCTGCTTTCGACGCA 59.392 45.455 8.16 8.16 34.19 5.24
748 787 0.388134 CTCGTCTGGTTGTGGTACGG 60.388 60.000 0.00 0.00 34.47 4.02
757 796 5.875910 CGGAGTAGATATATCTCGTCTGGTT 59.124 44.000 18.59 0.00 38.32 3.67
762 801 6.183360 GGTCAACGGAGTAGATATATCTCGTC 60.183 46.154 18.59 15.14 45.00 4.20
764 803 5.875910 AGGTCAACGGAGTAGATATATCTCG 59.124 44.000 18.59 17.08 45.00 4.04
767 806 5.064962 CGGAGGTCAACGGAGTAGATATATC 59.935 48.000 4.42 4.42 45.00 1.63
768 807 4.942483 CGGAGGTCAACGGAGTAGATATAT 59.058 45.833 0.00 0.00 45.00 0.86
801 840 2.806856 GAGCTGCGCATGGAACGAG 61.807 63.158 12.24 0.00 0.00 4.18
836 875 3.479269 GGCGGCGACACGAAAGAG 61.479 66.667 12.98 0.00 35.47 2.85
839 878 4.340019 TACGGCGGCGACACGAAA 62.340 61.111 38.93 10.57 35.47 3.46
915 991 2.350522 AGCGGTGAACTTAAGCTGATG 58.649 47.619 1.29 0.00 36.73 3.07
920 996 2.011540 AGCTAGCGGTGAACTTAAGC 57.988 50.000 9.55 0.00 0.00 3.09
970 1046 0.965439 CTAGCCTAGCAGAGCGGAAT 59.035 55.000 0.00 0.00 0.00 3.01
1058 1138 0.319211 TTTCGCGACGATGGTGAAGT 60.319 50.000 9.15 0.00 35.55 3.01
1076 1156 4.699522 GGCCGTGTCCGAAGCCTT 62.700 66.667 0.00 0.00 38.09 4.35
1281 2142 2.122547 ACGTGGTCCTGGGTCCTT 60.123 61.111 9.47 0.00 0.00 3.36
1699 2563 1.082954 AGTCCACCAGCCACCCTAT 59.917 57.895 0.00 0.00 0.00 2.57
1794 2658 2.606519 CCTGGGTTCCCCTCGTGA 60.607 66.667 5.34 0.00 45.70 4.35
1892 2759 6.566079 AGATAAGTCCCTTCACATCAATCA 57.434 37.500 0.00 0.00 0.00 2.57
1989 2952 3.562505 CCGTGTATACTGCTAATCGACC 58.437 50.000 4.17 0.00 0.00 4.79
2023 2992 1.133637 TGGCTGCTCCTACTCCTAGAG 60.134 57.143 0.00 0.00 35.26 2.43
2024 2993 0.927029 TGGCTGCTCCTACTCCTAGA 59.073 55.000 0.00 0.00 35.26 2.43
2083 3100 2.865119 TGAACATGTCCTGCAGATGT 57.135 45.000 17.39 14.43 0.00 3.06
2129 3146 1.160137 GCCATGGTCCATTCTATCGC 58.840 55.000 14.67 0.00 0.00 4.58
2264 3284 2.352617 GCAATGTTTCTTTCATGCCCGA 60.353 45.455 0.00 0.00 0.00 5.14
2268 3288 1.391144 GCCGCAATGTTTCTTTCATGC 59.609 47.619 0.00 0.00 0.00 4.06
2320 3340 3.519579 CTGTGCATCTTGAATCGACTCT 58.480 45.455 0.00 0.00 0.00 3.24
2400 3420 1.729586 TCTTTATCCCTCCCGATGGG 58.270 55.000 0.00 0.00 46.11 4.00
2401 3421 3.617531 CGAATCTTTATCCCTCCCGATGG 60.618 52.174 0.00 0.00 0.00 3.51
2402 3422 3.006967 ACGAATCTTTATCCCTCCCGATG 59.993 47.826 0.00 0.00 0.00 3.84
2403 3423 3.006967 CACGAATCTTTATCCCTCCCGAT 59.993 47.826 0.00 0.00 0.00 4.18
2404 3424 2.364324 CACGAATCTTTATCCCTCCCGA 59.636 50.000 0.00 0.00 0.00 5.14
2405 3425 2.548067 CCACGAATCTTTATCCCTCCCG 60.548 54.545 0.00 0.00 0.00 5.14
2406 3426 2.224548 CCCACGAATCTTTATCCCTCCC 60.225 54.545 0.00 0.00 0.00 4.30
2420 3440 3.851845 CTCGGCGTTCACCCACGAA 62.852 63.158 6.85 0.00 43.15 3.85
2428 3448 2.654877 GGAACTCCTCGGCGTTCA 59.345 61.111 17.62 0.00 40.42 3.18
2489 3509 3.464494 GGTAGGAACCGGGGGTCG 61.464 72.222 6.32 0.00 35.62 4.79
2613 3641 3.147595 CGAGTCCGGATCCTGGCA 61.148 66.667 7.81 1.56 0.00 4.92
2765 3803 3.387397 CGTTCACCGGTTAACTTTCTCT 58.613 45.455 25.01 0.00 0.00 3.10
2795 5020 2.186160 TGTCCTGCCACAACGCAAG 61.186 57.895 0.00 0.00 38.56 4.01
2808 5033 1.213013 GCGACGAGTGATGTGTCCT 59.787 57.895 0.00 0.00 0.00 3.85
2810 5035 1.073216 CAGGCGACGAGTGATGTGTC 61.073 60.000 0.00 0.00 0.00 3.67
2813 5038 0.101399 GATCAGGCGACGAGTGATGT 59.899 55.000 14.86 0.00 30.93 3.06
2820 5045 3.484742 GATGCGGATCAGGCGACGA 62.485 63.158 12.54 0.00 0.00 4.20
2844 5069 3.037549 AGAAGTGCTGAAGATAGAGGGG 58.962 50.000 0.00 0.00 0.00 4.79
2845 5070 4.751767 AAGAAGTGCTGAAGATAGAGGG 57.248 45.455 0.00 0.00 0.00 4.30
2847 5072 5.811613 CAGGAAAGAAGTGCTGAAGATAGAG 59.188 44.000 0.00 0.00 39.16 2.43
2851 5076 4.322567 GACAGGAAAGAAGTGCTGAAGAT 58.677 43.478 0.44 0.00 39.16 2.40
2855 5080 1.270305 CCGACAGGAAAGAAGTGCTGA 60.270 52.381 0.44 0.00 39.16 4.26
2857 5082 0.759346 ACCGACAGGAAAGAAGTGCT 59.241 50.000 0.00 0.00 41.02 4.40
2872 5097 1.843734 CGGCCTTTTGCGTTAACCGA 61.844 55.000 0.00 0.00 41.61 4.69
2875 5100 0.589708 ACTCGGCCTTTTGCGTTAAC 59.410 50.000 0.00 0.00 42.61 2.01
2881 5106 0.803117 GGTTCTACTCGGCCTTTTGC 59.197 55.000 0.00 0.00 40.16 3.68
2892 5117 5.263968 CCATTGTAGTCGATGGTTCTACT 57.736 43.478 10.42 0.00 45.78 2.57
2922 5147 2.259204 CGCCGAACGGTAGGAACA 59.741 61.111 2.76 0.00 38.44 3.18
2923 5148 3.184003 GCGCCGAACGGTAGGAAC 61.184 66.667 2.76 0.00 43.93 3.62
2924 5149 4.781959 CGCGCCGAACGGTAGGAA 62.782 66.667 2.76 0.00 43.93 3.36
2958 5187 3.151710 TCCGACAGGCCATACCGG 61.152 66.667 16.50 16.50 46.52 5.28
3041 5270 3.257393 CCTCAAACGAGTCTGAATCCTG 58.743 50.000 0.00 0.00 0.00 3.86
3042 5271 2.900546 ACCTCAAACGAGTCTGAATCCT 59.099 45.455 0.00 0.00 0.00 3.24
3044 5273 4.058817 ACAACCTCAAACGAGTCTGAATC 58.941 43.478 0.00 0.00 0.00 2.52
3045 5274 4.073293 ACAACCTCAAACGAGTCTGAAT 57.927 40.909 0.00 0.00 0.00 2.57
3046 5275 3.536956 ACAACCTCAAACGAGTCTGAA 57.463 42.857 0.00 0.00 0.00 3.02
3047 5276 3.118920 TCAACAACCTCAAACGAGTCTGA 60.119 43.478 0.00 0.00 0.00 3.27
3099 5328 5.106317 GGATTTACGACAAAGATCAAGGCAA 60.106 40.000 0.00 0.00 0.00 4.52
3101 5330 4.636206 AGGATTTACGACAAAGATCAAGGC 59.364 41.667 0.00 0.00 0.00 4.35
3110 5339 3.994392 GCTCACAGAGGATTTACGACAAA 59.006 43.478 0.00 0.00 0.00 2.83
3114 5343 4.401202 TGTATGCTCACAGAGGATTTACGA 59.599 41.667 6.35 0.00 37.44 3.43
3121 5350 3.771479 AGTCAATGTATGCTCACAGAGGA 59.229 43.478 0.00 0.00 33.93 3.71
3139 5368 6.688637 TTAGCGCTTACTCTAACATAGTCA 57.311 37.500 18.68 0.00 0.00 3.41
3157 5386 3.160777 ACTTCTGGGACGTAATTAGCG 57.839 47.619 0.00 6.08 0.00 4.26
3166 5395 8.774586 CCTTTATTTCATTATACTTCTGGGACG 58.225 37.037 0.00 0.00 0.00 4.79
3167 5396 9.847224 TCCTTTATTTCATTATACTTCTGGGAC 57.153 33.333 0.00 0.00 0.00 4.46
3180 5409 8.947115 CCGACTAACTTTCTCCTTTATTTCATT 58.053 33.333 0.00 0.00 0.00 2.57
3181 5410 7.065923 GCCGACTAACTTTCTCCTTTATTTCAT 59.934 37.037 0.00 0.00 0.00 2.57
3182 5411 6.370718 GCCGACTAACTTTCTCCTTTATTTCA 59.629 38.462 0.00 0.00 0.00 2.69
3183 5412 6.455246 CGCCGACTAACTTTCTCCTTTATTTC 60.455 42.308 0.00 0.00 0.00 2.17
3184 5413 5.350640 CGCCGACTAACTTTCTCCTTTATTT 59.649 40.000 0.00 0.00 0.00 1.40
3185 5414 4.868734 CGCCGACTAACTTTCTCCTTTATT 59.131 41.667 0.00 0.00 0.00 1.40
3186 5415 4.159135 TCGCCGACTAACTTTCTCCTTTAT 59.841 41.667 0.00 0.00 0.00 1.40
3187 5416 3.507233 TCGCCGACTAACTTTCTCCTTTA 59.493 43.478 0.00 0.00 0.00 1.85
3188 5417 2.298163 TCGCCGACTAACTTTCTCCTTT 59.702 45.455 0.00 0.00 0.00 3.11
3189 5418 1.891150 TCGCCGACTAACTTTCTCCTT 59.109 47.619 0.00 0.00 0.00 3.36
3190 5419 1.542492 TCGCCGACTAACTTTCTCCT 58.458 50.000 0.00 0.00 0.00 3.69
3191 5420 2.260481 CTTCGCCGACTAACTTTCTCC 58.740 52.381 0.00 0.00 0.00 3.71
3192 5421 2.260481 CCTTCGCCGACTAACTTTCTC 58.740 52.381 0.00 0.00 0.00 2.87
3193 5422 1.617357 ACCTTCGCCGACTAACTTTCT 59.383 47.619 0.00 0.00 0.00 2.52
3194 5423 2.075979 ACCTTCGCCGACTAACTTTC 57.924 50.000 0.00 0.00 0.00 2.62
3195 5424 3.194116 TCATACCTTCGCCGACTAACTTT 59.806 43.478 0.00 0.00 0.00 2.66
3196 5425 2.756760 TCATACCTTCGCCGACTAACTT 59.243 45.455 0.00 0.00 0.00 2.66
3197 5426 2.372264 TCATACCTTCGCCGACTAACT 58.628 47.619 0.00 0.00 0.00 2.24
3198 5427 2.857592 TCATACCTTCGCCGACTAAC 57.142 50.000 0.00 0.00 0.00 2.34
3199 5428 4.395959 AATTCATACCTTCGCCGACTAA 57.604 40.909 0.00 0.00 0.00 2.24
3200 5429 4.395959 AAATTCATACCTTCGCCGACTA 57.604 40.909 0.00 0.00 0.00 2.59
3201 5430 2.981859 AATTCATACCTTCGCCGACT 57.018 45.000 0.00 0.00 0.00 4.18
3202 5431 3.680789 CAAAATTCATACCTTCGCCGAC 58.319 45.455 0.00 0.00 0.00 4.79
3203 5432 2.096819 GCAAAATTCATACCTTCGCCGA 59.903 45.455 0.00 0.00 0.00 5.54
3204 5433 2.159448 TGCAAAATTCATACCTTCGCCG 60.159 45.455 0.00 0.00 0.00 6.46
3205 5434 3.502191 TGCAAAATTCATACCTTCGCC 57.498 42.857 0.00 0.00 0.00 5.54
3206 5435 4.259930 GCAATGCAAAATTCATACCTTCGC 60.260 41.667 0.00 0.00 0.00 4.70
3207 5436 4.027458 CGCAATGCAAAATTCATACCTTCG 60.027 41.667 5.91 0.00 0.00 3.79
3208 5437 4.864247 ACGCAATGCAAAATTCATACCTTC 59.136 37.500 5.91 0.00 0.00 3.46
3209 5438 4.819769 ACGCAATGCAAAATTCATACCTT 58.180 34.783 5.91 0.00 0.00 3.50
3210 5439 4.423732 GACGCAATGCAAAATTCATACCT 58.576 39.130 5.91 0.00 0.00 3.08
3211 5440 3.551485 GGACGCAATGCAAAATTCATACC 59.449 43.478 5.91 0.00 0.00 2.73
3212 5441 4.172505 TGGACGCAATGCAAAATTCATAC 58.827 39.130 5.91 0.00 0.00 2.39
3213 5442 4.446994 TGGACGCAATGCAAAATTCATA 57.553 36.364 5.91 0.00 0.00 2.15
3214 5443 3.316071 TGGACGCAATGCAAAATTCAT 57.684 38.095 5.91 0.00 0.00 2.57
3215 5444 2.808523 TGGACGCAATGCAAAATTCA 57.191 40.000 5.91 0.00 0.00 2.57
3220 5449 2.878743 CGTTTGGACGCAATGCAAA 58.121 47.368 5.91 1.11 45.41 3.68
3221 5450 4.624293 CGTTTGGACGCAATGCAA 57.376 50.000 5.91 0.00 43.03 4.08
3234 5463 0.955428 AGGCGACACATGATGCGTTT 60.955 50.000 0.00 0.00 32.55 3.60
3240 5469 0.249615 CGGATCAGGCGACACATGAT 60.250 55.000 0.00 0.00 36.40 2.45
3244 5473 2.520465 AATGCGGATCAGGCGACACA 62.520 55.000 0.00 0.00 0.00 3.72
3258 5487 4.527509 AGACAGAGGGATGTATAATGCG 57.472 45.455 0.00 0.00 32.25 4.73
3259 5488 5.471456 CCAAAGACAGAGGGATGTATAATGC 59.529 44.000 0.00 0.00 32.25 3.56
3260 5489 5.471456 GCCAAAGACAGAGGGATGTATAATG 59.529 44.000 0.00 0.00 32.25 1.90
3261 5490 5.132648 TGCCAAAGACAGAGGGATGTATAAT 59.867 40.000 0.00 0.00 32.25 1.28
3262 5491 4.473196 TGCCAAAGACAGAGGGATGTATAA 59.527 41.667 0.00 0.00 32.25 0.98
3263 5492 4.037222 TGCCAAAGACAGAGGGATGTATA 58.963 43.478 0.00 0.00 32.25 1.47
3264 5493 2.846206 TGCCAAAGACAGAGGGATGTAT 59.154 45.455 0.00 0.00 32.25 2.29
3265 5494 2.027192 GTGCCAAAGACAGAGGGATGTA 60.027 50.000 0.00 0.00 32.25 2.29
3266 5495 1.067295 TGCCAAAGACAGAGGGATGT 58.933 50.000 0.00 0.00 35.68 3.06
3267 5496 1.004044 AGTGCCAAAGACAGAGGGATG 59.996 52.381 0.00 0.00 0.00 3.51
3268 5497 1.366319 AGTGCCAAAGACAGAGGGAT 58.634 50.000 0.00 0.00 0.00 3.85
3269 5498 1.072331 GAAGTGCCAAAGACAGAGGGA 59.928 52.381 0.00 0.00 0.00 4.20
3270 5499 1.072965 AGAAGTGCCAAAGACAGAGGG 59.927 52.381 0.00 0.00 0.00 4.30
3301 5530 5.641209 ACAGATGCAGAAGTATGTTCTTGAC 59.359 40.000 0.00 0.00 0.00 3.18
3304 5533 6.150140 GGAAACAGATGCAGAAGTATGTTCTT 59.850 38.462 0.00 0.00 30.95 2.52
3311 5540 2.912956 AGGGGAAACAGATGCAGAAGTA 59.087 45.455 0.00 0.00 0.00 2.24
3312 5541 1.707427 AGGGGAAACAGATGCAGAAGT 59.293 47.619 0.00 0.00 0.00 3.01
3316 5545 0.529378 GCAAGGGGAAACAGATGCAG 59.471 55.000 0.00 0.00 34.72 4.41
3319 5548 0.962356 AGCGCAAGGGGAAACAGATG 60.962 55.000 11.47 0.00 38.28 2.90
3321 5550 0.618458 ATAGCGCAAGGGGAAACAGA 59.382 50.000 11.47 0.00 38.28 3.41
3323 5552 0.742990 CGATAGCGCAAGGGGAAACA 60.743 55.000 11.47 0.00 38.28 2.83
3324 5553 2.014594 CGATAGCGCAAGGGGAAAC 58.985 57.895 11.47 0.00 38.28 2.78
3342 5572 1.959226 TTTCCAGAACGCCGACAGC 60.959 57.895 0.00 0.00 38.52 4.40
3343 5573 1.860078 GTTTCCAGAACGCCGACAG 59.140 57.895 0.00 0.00 0.00 3.51
3344 5574 1.952133 CGTTTCCAGAACGCCGACA 60.952 57.895 0.00 0.00 36.82 4.35
3345 5575 2.664436 CCGTTTCCAGAACGCCGAC 61.664 63.158 5.83 0.00 41.85 4.79
3346 5576 2.356553 CCGTTTCCAGAACGCCGA 60.357 61.111 5.83 0.00 41.85 5.54
3347 5577 3.419759 CCCGTTTCCAGAACGCCG 61.420 66.667 5.83 0.00 41.85 6.46
3348 5578 3.053896 CCCCGTTTCCAGAACGCC 61.054 66.667 5.83 0.00 41.85 5.68
3349 5579 3.053896 CCCCCGTTTCCAGAACGC 61.054 66.667 5.83 0.00 41.85 4.84
3350 5580 1.670083 GACCCCCGTTTCCAGAACG 60.670 63.158 4.46 4.46 42.74 3.95
3351 5581 1.303074 GGACCCCCGTTTCCAGAAC 60.303 63.158 0.00 0.00 0.00 3.01
3352 5582 1.462627 AGGACCCCCGTTTCCAGAA 60.463 57.895 0.00 0.00 37.58 3.02
3353 5583 1.916777 GAGGACCCCCGTTTCCAGA 60.917 63.158 0.00 0.00 37.58 3.86
3354 5584 2.185310 CTGAGGACCCCCGTTTCCAG 62.185 65.000 0.00 0.00 37.58 3.86
3355 5585 2.122324 TGAGGACCCCCGTTTCCA 60.122 61.111 0.00 0.00 37.58 3.53
3356 5586 1.916777 TCTGAGGACCCCCGTTTCC 60.917 63.158 0.00 0.00 37.58 3.13
3357 5587 1.192803 AGTCTGAGGACCCCCGTTTC 61.193 60.000 0.00 0.00 43.05 2.78
3358 5588 0.767060 AAGTCTGAGGACCCCCGTTT 60.767 55.000 0.00 0.00 43.05 3.60
3359 5589 1.152096 AAGTCTGAGGACCCCCGTT 60.152 57.895 0.00 0.00 43.05 4.44
3360 5590 1.913762 CAAGTCTGAGGACCCCCGT 60.914 63.158 0.00 0.00 43.05 5.28
3361 5591 2.982130 CAAGTCTGAGGACCCCCG 59.018 66.667 0.00 0.00 43.05 5.73
3362 5592 2.671682 GCAAGTCTGAGGACCCCC 59.328 66.667 0.00 0.00 43.05 5.40
3363 5593 1.920835 AGGCAAGTCTGAGGACCCC 60.921 63.158 0.00 0.00 43.05 4.95
3364 5594 1.298014 CAGGCAAGTCTGAGGACCC 59.702 63.158 0.00 0.00 43.05 4.46
3365 5595 1.376553 GCAGGCAAGTCTGAGGACC 60.377 63.158 5.76 0.00 43.05 4.46
3366 5596 1.376553 GGCAGGCAAGTCTGAGGAC 60.377 63.158 5.76 0.00 42.41 3.85
3367 5597 1.537397 AGGCAGGCAAGTCTGAGGA 60.537 57.895 5.76 0.00 36.93 3.71
3368 5598 1.376942 CAGGCAGGCAAGTCTGAGG 60.377 63.158 5.76 0.00 43.82 3.86
3369 5599 2.039405 GCAGGCAGGCAAGTCTGAG 61.039 63.158 14.55 0.00 43.82 3.35
3370 5600 2.033141 GCAGGCAGGCAAGTCTGA 59.967 61.111 14.55 0.00 43.82 3.27
3371 5601 3.429141 CGCAGGCAGGCAAGTCTG 61.429 66.667 7.14 7.14 43.93 3.51
3372 5602 4.711949 CCGCAGGCAGGCAAGTCT 62.712 66.667 0.00 0.00 46.14 3.24
3384 5614 3.359523 ATATGCCGCATGCCGCAG 61.360 61.111 31.57 11.13 42.60 5.18
3385 5615 3.662153 CATATGCCGCATGCCGCA 61.662 61.111 30.82 30.82 42.60 5.69
3386 5616 4.409218 CCATATGCCGCATGCCGC 62.409 66.667 22.01 22.01 40.16 6.53
3387 5617 4.409218 GCCATATGCCGCATGCCG 62.409 66.667 16.40 6.93 40.16 5.69
3388 5618 2.986306 GAGCCATATGCCGCATGCC 61.986 63.158 16.40 0.00 42.71 4.40
3389 5619 1.798234 TTGAGCCATATGCCGCATGC 61.798 55.000 16.40 7.91 42.71 4.06
3390 5620 0.885879 ATTGAGCCATATGCCGCATG 59.114 50.000 16.40 1.28 42.71 4.06
3391 5621 0.885879 CATTGAGCCATATGCCGCAT 59.114 50.000 11.38 11.38 42.71 4.73
3392 5622 0.179023 TCATTGAGCCATATGCCGCA 60.179 50.000 0.00 0.00 42.71 5.69
3393 5623 0.520404 CTCATTGAGCCATATGCCGC 59.480 55.000 0.00 0.00 42.71 6.53
3394 5624 1.534163 CACTCATTGAGCCATATGCCG 59.466 52.381 13.64 0.00 42.71 5.69
3395 5625 1.884579 CCACTCATTGAGCCATATGCC 59.115 52.381 13.64 0.00 42.71 4.40
3396 5626 1.268899 GCCACTCATTGAGCCATATGC 59.731 52.381 13.64 4.17 41.71 3.14


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

AutoCloner maintained by Alex Coulton.