Multiple sequence alignment - TraesCS6B01G005800

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 TraesCS6B01G005800 chr6B 100.000 1649 0 0 1 1649 4176147 4174499 0.000000e+00 3046.0
1 TraesCS6B01G005800 chr6B 100.000 1240 0 0 1955 3194 4174193 4172954 0.000000e+00 2290.0
2 TraesCS6B01G005800 chr6B 83.291 790 98 19 867 1649 4164363 4163601 0.000000e+00 697.0
3 TraesCS6B01G005800 chr6B 83.287 712 95 17 1994 2686 4163559 4162853 4.490000e-178 634.0
4 TraesCS6B01G005800 chr6B 88.722 399 35 5 1008 1400 3870135 3870529 2.230000e-131 479.0
5 TraesCS6B01G005800 chr6B 85.360 444 50 8 2255 2686 3871507 3871947 2.260000e-121 446.0
6 TraesCS6B01G005800 chr6B 86.973 261 30 3 657 915 3869876 3870134 1.120000e-74 291.0
7 TraesCS6B01G005800 chr6B 81.180 356 67 0 1294 1649 3870352 3870707 1.450000e-73 287.0
8 TraesCS6B01G005800 chr6B 93.985 133 7 1 518 650 22428248 22428117 1.940000e-47 200.0
9 TraesCS6B01G005800 chr6B 93.985 133 7 1 518 650 625949744 625949875 1.940000e-47 200.0
10 TraesCS6B01G005800 chr6B 86.275 153 21 0 1988 2140 3871115 3871267 1.970000e-37 167.0
11 TraesCS6B01G005800 chr6B 84.568 162 19 1 1233 1388 4174849 4174688 4.270000e-34 156.0
12 TraesCS6B01G005800 chr6B 84.568 162 19 1 1299 1460 4174915 4174760 4.270000e-34 156.0
13 TraesCS6B01G005800 chr6B 80.851 188 35 1 1959 2146 4163785 4163599 2.570000e-31 147.0
14 TraesCS6B01G005800 chr6B 81.761 159 29 0 1982 2140 3870545 3870703 2.000000e-27 134.0
15 TraesCS6B01G005800 chr6D 94.754 1258 46 9 1955 3194 4203936 4205191 0.000000e+00 1940.0
16 TraesCS6B01G005800 chr6D 94.563 1030 36 9 1955 2966 2167680 2168707 0.000000e+00 1574.0
17 TraesCS6B01G005800 chr6D 88.789 776 50 18 707 1455 2166654 2167419 0.000000e+00 917.0
18 TraesCS6B01G005800 chr6D 89.983 579 55 3 817 1393 4202737 4203314 0.000000e+00 745.0
19 TraesCS6B01G005800 chr6D 90.223 358 27 3 1294 1649 4203150 4203501 8.070000e-126 460.0
20 TraesCS6B01G005800 chr6D 83.668 398 33 13 103 496 4202154 4202523 2.360000e-91 346.0
21 TraesCS6B01G005800 chr6D 83.500 400 35 16 103 497 2166216 2166589 8.480000e-91 344.0
22 TraesCS6B01G005800 chr6D 95.513 156 6 1 3040 3194 2168700 2168855 6.840000e-62 248.0
23 TraesCS6B01G005800 chr6D 92.045 176 13 1 651 826 4202543 4202717 2.460000e-61 246.0
24 TraesCS6B01G005800 chr6D 91.129 124 9 1 1988 2109 4203439 4203562 1.970000e-37 167.0
25 TraesCS6B01G005800 chr6D 84.431 167 20 2 1294 1460 2167192 2167352 3.300000e-35 159.0
26 TraesCS6B01G005800 chr6D 89.610 77 7 1 1955 2030 2167752 2167828 2.620000e-16 97.1
27 TraesCS6B01G005800 chr6A 87.333 750 84 5 660 1400 735852 735105 0.000000e+00 848.0
28 TraesCS6B01G005800 chr6A 90.097 616 39 7 1994 2592 734429 733819 0.000000e+00 780.0
29 TraesCS6B01G005800 chr6A 84.366 710 80 11 1994 2686 688216 687521 0.000000e+00 667.0
30 TraesCS6B01G005800 chr6A 87.993 558 57 6 2644 3194 733740 733186 0.000000e+00 651.0
31 TraesCS6B01G005800 chr6A 85.590 576 57 7 820 1388 689356 688800 5.940000e-162 580.0
32 TraesCS6B01G005800 chr6A 79.806 515 53 26 1 488 736384 735894 8.540000e-86 327.0
33 TraesCS6B01G005800 chr6A 80.580 345 67 0 1305 1649 688955 688611 1.890000e-67 267.0
34 TraesCS6B01G005800 chr6A 91.379 116 10 0 1994 2109 734981 734866 3.300000e-35 159.0
35 TraesCS6B01G005800 chr6A 84.967 153 23 0 1994 2146 735077 734925 4.270000e-34 156.0
36 TraesCS6B01G005800 chrUn 93.985 133 7 1 518 650 423004308 423004439 1.940000e-47 200.0
37 TraesCS6B01G005800 chr7B 93.985 133 7 1 518 650 662742659 662742528 1.940000e-47 200.0
38 TraesCS6B01G005800 chr3A 93.985 133 7 1 518 650 273160459 273160328 1.940000e-47 200.0
39 TraesCS6B01G005800 chr2B 93.985 133 7 1 518 650 110645223 110645092 1.940000e-47 200.0
40 TraesCS6B01G005800 chr1A 93.985 133 7 1 518 650 554453374 554453243 1.940000e-47 200.0
41 TraesCS6B01G005800 chr5D 93.233 133 8 1 518 650 503325862 503325993 9.040000e-46 195.0
42 TraesCS6B01G005800 chr4A 92.647 136 9 1 518 652 309398346 309398211 9.040000e-46 195.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G005800 chr6B 4172954 4176147 3193 True 1412.000000 3046 92.284000 1 3194 4 chr6B.!!$R3 3193
1 TraesCS6B01G005800 chr6B 4162853 4164363 1510 True 492.666667 697 82.476333 867 2686 3 chr6B.!!$R2 1819
2 TraesCS6B01G005800 chr6B 3869876 3871947 2071 False 300.666667 479 85.045167 657 2686 6 chr6B.!!$F2 2029
3 TraesCS6B01G005800 chr6D 4202154 4205191 3037 False 650.666667 1940 90.300333 103 3194 6 chr6D.!!$F2 3091
4 TraesCS6B01G005800 chr6D 2166216 2168855 2639 False 556.516667 1574 89.401000 103 3194 6 chr6D.!!$F1 3091
5 TraesCS6B01G005800 chr6A 687521 689356 1835 True 504.666667 667 83.512000 820 2686 3 chr6A.!!$R1 1866
6 TraesCS6B01G005800 chr6A 733186 736384 3198 True 486.833333 848 86.929167 1 3194 6 chr6A.!!$R2 3193

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
641 678 0.035343 GTTCGGGGAAAGGGGAAGAG 60.035 60.0 0.0 0.0 0.0 2.85 F
1357 1439 0.035820 TCAACCATTACCAGGACCGC 60.036 55.0 0.0 0.0 0.0 5.68 F
1360 1442 0.180406 ACCATTACCAGGACCGCATC 59.820 55.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2086 3432 0.041982 AGTGGTTGTGGGTTTGGGTT 59.958 50.0 0.0 0.0 0.00 4.11 R
2183 3637 0.466124 GCGGCTCCTCTAGGATGTTT 59.534 55.0 0.0 0.0 44.46 2.83 R
2744 4295 1.453155 AGCCCAAAGTAATCTGTGCG 58.547 50.0 0.0 0.0 0.00 5.34 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 7.290813 GGGTTATAATGAAATTCTGGAGGAGT 58.709 38.462 0.00 0.00 37.87 3.85
47 48 7.780271 GGGTTATAATGAAATTCTGGAGGAGTT 59.220 37.037 0.00 0.00 37.87 3.01
75 76 9.807921 AATCCTTAGAAAATTTTCCTGTACTGA 57.192 29.630 24.01 13.46 37.92 3.41
76 77 8.848474 TCCTTAGAAAATTTTCCTGTACTGAG 57.152 34.615 24.01 12.12 37.92 3.35
78 79 8.722394 CCTTAGAAAATTTTCCTGTACTGAGTC 58.278 37.037 24.01 0.00 37.92 3.36
85 96 9.442047 AAATTTTCCTGTACTGAGTCAGAATAG 57.558 33.333 26.86 18.10 35.18 1.73
98 109 9.322773 CTGAGTCAGAATAGCAATTCATAGAAA 57.677 33.333 15.46 0.00 43.44 2.52
120 136 9.918630 AGAAAAACAAATCATAGGACTCATTTG 57.081 29.630 0.00 0.00 40.55 2.32
125 141 6.127814 ACAAATCATAGGACTCATTTGCACTG 60.128 38.462 2.08 0.00 39.04 3.66
130 146 3.087031 AGGACTCATTTGCACTGGATTG 58.913 45.455 0.00 0.00 0.00 2.67
131 147 3.084039 GGACTCATTTGCACTGGATTGA 58.916 45.455 0.00 0.00 0.00 2.57
132 148 3.698040 GGACTCATTTGCACTGGATTGAT 59.302 43.478 0.00 0.00 0.00 2.57
133 149 4.201990 GGACTCATTTGCACTGGATTGATC 60.202 45.833 0.00 0.00 0.00 2.92
164 180 2.496899 AATCATCCACGCAAACCTCT 57.503 45.000 0.00 0.00 0.00 3.69
165 181 2.496899 ATCATCCACGCAAACCTCTT 57.503 45.000 0.00 0.00 0.00 2.85
176 192 4.819630 ACGCAAACCTCTTGTTTAGAATCA 59.180 37.500 0.00 0.00 45.35 2.57
188 204 9.098355 TCTTGTTTAGAATCATATGACTTTCCG 57.902 33.333 7.78 0.00 0.00 4.30
189 205 8.786826 TTGTTTAGAATCATATGACTTTCCGT 57.213 30.769 7.78 0.00 0.00 4.69
196 212 7.492669 AGAATCATATGACTTTCCGTTGTACAG 59.507 37.037 7.78 0.00 0.00 2.74
277 302 7.724305 TCTATGAAAAAGGTGTAGTGTGTTC 57.276 36.000 0.00 0.00 0.00 3.18
282 307 6.261381 TGAAAAAGGTGTAGTGTGTTCATACC 59.739 38.462 0.00 0.00 0.00 2.73
289 320 7.286775 AGGTGTAGTGTGTTCATACCAAATTTT 59.713 33.333 0.00 0.00 0.00 1.82
361 395 9.634163 AAGGGAAAAACGACAAATACATAATTC 57.366 29.630 0.00 0.00 0.00 2.17
390 424 5.376625 AGGCTTATTTCTATCGCATTTGGA 58.623 37.500 0.00 0.00 0.00 3.53
398 432 5.545063 TCTATCGCATTTGGACTGGAATA 57.455 39.130 0.00 0.00 0.00 1.75
406 440 8.134895 TCGCATTTGGACTGGAATATTATTTTC 58.865 33.333 0.00 0.00 0.00 2.29
565 602 7.569599 GGATCCTAATCCTAGGGTTAATCAA 57.430 40.000 20.76 7.72 46.97 2.57
566 603 8.164057 GGATCCTAATCCTAGGGTTAATCAAT 57.836 38.462 20.76 11.10 46.97 2.57
567 604 8.615705 GGATCCTAATCCTAGGGTTAATCAATT 58.384 37.037 20.76 9.86 46.97 2.32
576 613 8.999895 TCCTAGGGTTAATCAATTTTAGCTAGT 58.000 33.333 9.46 0.00 0.00 2.57
577 614 9.628500 CCTAGGGTTAATCAATTTTAGCTAGTT 57.372 33.333 0.00 0.00 0.00 2.24
580 617 9.700831 AGGGTTAATCAATTTTAGCTAGTTGAT 57.299 29.630 18.04 18.04 41.60 2.57
581 618 9.736023 GGGTTAATCAATTTTAGCTAGTTGATG 57.264 33.333 21.62 9.33 40.20 3.07
582 619 9.736023 GGTTAATCAATTTTAGCTAGTTGATGG 57.264 33.333 21.62 4.66 40.20 3.51
583 620 9.736023 GTTAATCAATTTTAGCTAGTTGATGGG 57.264 33.333 21.62 1.53 40.20 4.00
584 621 9.693739 TTAATCAATTTTAGCTAGTTGATGGGA 57.306 29.630 21.62 13.03 40.20 4.37
585 622 8.593945 AATCAATTTTAGCTAGTTGATGGGAA 57.406 30.769 21.62 0.00 40.20 3.97
586 623 8.593945 ATCAATTTTAGCTAGTTGATGGGAAA 57.406 30.769 20.85 6.97 39.20 3.13
587 624 8.415950 TCAATTTTAGCTAGTTGATGGGAAAA 57.584 30.769 11.83 1.50 0.00 2.29
588 625 9.034800 TCAATTTTAGCTAGTTGATGGGAAAAT 57.965 29.630 11.83 3.44 0.00 1.82
591 628 7.548196 TTTAGCTAGTTGATGGGAAAATACG 57.452 36.000 0.00 0.00 0.00 3.06
592 629 5.353394 AGCTAGTTGATGGGAAAATACGA 57.647 39.130 0.00 0.00 0.00 3.43
593 630 5.741011 AGCTAGTTGATGGGAAAATACGAA 58.259 37.500 0.00 0.00 0.00 3.85
594 631 6.357367 AGCTAGTTGATGGGAAAATACGAAT 58.643 36.000 0.00 0.00 0.00 3.34
595 632 6.828785 AGCTAGTTGATGGGAAAATACGAATT 59.171 34.615 0.00 0.00 0.00 2.17
596 633 7.990886 AGCTAGTTGATGGGAAAATACGAATTA 59.009 33.333 0.00 0.00 0.00 1.40
597 634 8.617809 GCTAGTTGATGGGAAAATACGAATTAA 58.382 33.333 0.00 0.00 0.00 1.40
600 637 8.413229 AGTTGATGGGAAAATACGAATTAATGG 58.587 33.333 0.00 0.00 0.00 3.16
601 638 7.889873 TGATGGGAAAATACGAATTAATGGT 57.110 32.000 0.00 0.00 0.00 3.55
602 639 8.982091 TGATGGGAAAATACGAATTAATGGTA 57.018 30.769 0.00 0.00 0.00 3.25
603 640 9.409918 TGATGGGAAAATACGAATTAATGGTAA 57.590 29.630 0.00 0.00 0.00 2.85
628 665 2.795470 GCTTAGAGCGATTTAGTTCGGG 59.205 50.000 0.00 0.00 39.49 5.14
629 666 3.381949 CTTAGAGCGATTTAGTTCGGGG 58.618 50.000 0.00 0.00 39.49 5.73
630 667 1.481871 AGAGCGATTTAGTTCGGGGA 58.518 50.000 0.00 0.00 39.49 4.81
631 668 1.829222 AGAGCGATTTAGTTCGGGGAA 59.171 47.619 0.00 0.00 39.49 3.97
632 669 2.235402 AGAGCGATTTAGTTCGGGGAAA 59.765 45.455 0.00 0.00 39.49 3.13
633 670 2.608090 GAGCGATTTAGTTCGGGGAAAG 59.392 50.000 0.00 0.00 39.49 2.62
634 671 1.669265 GCGATTTAGTTCGGGGAAAGG 59.331 52.381 0.00 0.00 39.49 3.11
635 672 2.285977 CGATTTAGTTCGGGGAAAGGG 58.714 52.381 0.00 0.00 35.50 3.95
636 673 2.651455 GATTTAGTTCGGGGAAAGGGG 58.349 52.381 0.00 0.00 0.00 4.79
637 674 1.744872 TTTAGTTCGGGGAAAGGGGA 58.255 50.000 0.00 0.00 0.00 4.81
638 675 1.744872 TTAGTTCGGGGAAAGGGGAA 58.255 50.000 0.00 0.00 0.00 3.97
639 676 1.282382 TAGTTCGGGGAAAGGGGAAG 58.718 55.000 0.00 0.00 0.00 3.46
640 677 0.475048 AGTTCGGGGAAAGGGGAAGA 60.475 55.000 0.00 0.00 0.00 2.87
641 678 0.035343 GTTCGGGGAAAGGGGAAGAG 60.035 60.000 0.00 0.00 0.00 2.85
642 679 0.475048 TTCGGGGAAAGGGGAAGAGT 60.475 55.000 0.00 0.00 0.00 3.24
643 680 0.414629 TCGGGGAAAGGGGAAGAGTA 59.585 55.000 0.00 0.00 0.00 2.59
644 681 1.203338 TCGGGGAAAGGGGAAGAGTAA 60.203 52.381 0.00 0.00 0.00 2.24
645 682 1.209747 CGGGGAAAGGGGAAGAGTAAG 59.790 57.143 0.00 0.00 0.00 2.34
646 683 2.558974 GGGGAAAGGGGAAGAGTAAGA 58.441 52.381 0.00 0.00 0.00 2.10
647 684 2.917600 GGGGAAAGGGGAAGAGTAAGAA 59.082 50.000 0.00 0.00 0.00 2.52
648 685 3.332783 GGGGAAAGGGGAAGAGTAAGAAA 59.667 47.826 0.00 0.00 0.00 2.52
649 686 4.202641 GGGGAAAGGGGAAGAGTAAGAAAA 60.203 45.833 0.00 0.00 0.00 2.29
654 691 7.094162 GGAAAGGGGAAGAGTAAGAAAAATGAG 60.094 40.741 0.00 0.00 0.00 2.90
655 692 6.704056 AGGGGAAGAGTAAGAAAAATGAGA 57.296 37.500 0.00 0.00 0.00 3.27
658 695 8.268605 AGGGGAAGAGTAAGAAAAATGAGATAC 58.731 37.037 0.00 0.00 0.00 2.24
676 713 4.337555 AGATACAAATTCCATGCTCACAGC 59.662 41.667 0.00 0.00 42.82 4.40
705 742 0.108329 ACCCTGCTATCGGTTCAACG 60.108 55.000 0.00 0.00 0.00 4.10
723 760 7.118680 GGTTCAACGGAATTACTGAAAGTGATA 59.881 37.037 0.00 0.00 42.98 2.15
746 783 1.686355 TTGTTCACAACTTGGGCGAT 58.314 45.000 0.00 0.00 0.00 4.58
788 825 4.564769 GCTCTCCTACGATCAACTGAAAAG 59.435 45.833 0.00 0.00 0.00 2.27
802 839 5.171339 ACTGAAAAGTGCCACATCTATCT 57.829 39.130 0.00 0.00 0.00 1.98
831 897 8.393366 ACGAAAACTACTCCAACTTTTCTAAAC 58.607 33.333 0.00 0.00 32.66 2.01
832 898 8.610035 CGAAAACTACTCCAACTTTTCTAAACT 58.390 33.333 0.00 0.00 32.66 2.66
856 922 2.228545 TTTCATATGGTTGGCTGCCA 57.771 45.000 19.30 19.30 40.68 4.92
931 1003 2.972713 ACAAGCCTAGTCAGAGTTGGAA 59.027 45.455 9.75 0.00 0.00 3.53
936 1008 6.567602 AGCCTAGTCAGAGTTGGAATAAAT 57.432 37.500 9.75 0.00 0.00 1.40
953 1025 6.202954 GGAATAAATAGCGTACATGCTTGTCT 59.797 38.462 8.74 3.30 44.46 3.41
957 1029 3.594603 AGCGTACATGCTTGTCTAGTT 57.405 42.857 8.74 0.00 44.46 2.24
966 1038 5.536161 ACATGCTTGTCTAGTTTTGATTGGT 59.464 36.000 0.00 0.00 0.00 3.67
993 1065 9.996554 TGAATTCGCTTATAAATAGGAAGATCA 57.003 29.630 0.04 0.00 0.00 2.92
1001 1073 3.498774 AATAGGAAGATCAAGGCGCAT 57.501 42.857 10.83 0.00 0.00 4.73
1081 1163 0.741915 GTCCTCCCTTCTCGTAGCAG 59.258 60.000 0.00 0.00 0.00 4.24
1105 1187 2.950309 CTGCTGCTTATGCTTCTTCCAT 59.050 45.455 0.00 0.00 40.48 3.41
1152 1234 2.432510 CAACCTGATCACTAGAGACCCC 59.567 54.545 0.00 0.00 0.00 4.95
1165 1247 1.835712 GACCCCCGATACGACCCAT 60.836 63.158 0.00 0.00 0.00 4.00
1231 1313 3.117093 TCCAAACCCTCAACCATTACCAA 60.117 43.478 0.00 0.00 0.00 3.67
1248 1330 1.760480 AAACCCACAACCACTGCCC 60.760 57.895 0.00 0.00 0.00 5.36
1297 1379 1.134788 CACTACCCGAGCCTAAACCTG 60.135 57.143 0.00 0.00 0.00 4.00
1299 1381 1.136500 CTACCCGAGCCTAAACCTGAC 59.864 57.143 0.00 0.00 0.00 3.51
1300 1382 1.221021 CCCGAGCCTAAACCTGACC 59.779 63.158 0.00 0.00 0.00 4.02
1301 1383 1.221021 CCGAGCCTAAACCTGACCC 59.779 63.158 0.00 0.00 0.00 4.46
1302 1384 1.550130 CCGAGCCTAAACCTGACCCA 61.550 60.000 0.00 0.00 0.00 4.51
1303 1385 0.323629 CGAGCCTAAACCTGACCCAA 59.676 55.000 0.00 0.00 0.00 4.12
1304 1386 1.271163 CGAGCCTAAACCTGACCCAAA 60.271 52.381 0.00 0.00 0.00 3.28
1305 1387 2.812613 CGAGCCTAAACCTGACCCAAAA 60.813 50.000 0.00 0.00 0.00 2.44
1306 1388 2.557056 GAGCCTAAACCTGACCCAAAAC 59.443 50.000 0.00 0.00 0.00 2.43
1307 1389 1.616865 GCCTAAACCTGACCCAAAACC 59.383 52.381 0.00 0.00 0.00 3.27
1308 1390 2.952116 CCTAAACCTGACCCAAAACCA 58.048 47.619 0.00 0.00 0.00 3.67
1309 1391 2.626266 CCTAAACCTGACCCAAAACCAC 59.374 50.000 0.00 0.00 0.00 4.16
1310 1392 2.543037 AAACCTGACCCAAAACCACT 57.457 45.000 0.00 0.00 0.00 4.00
1311 1393 1.775385 AACCTGACCCAAAACCACTG 58.225 50.000 0.00 0.00 0.00 3.66
1312 1394 0.755327 ACCTGACCCAAAACCACTGC 60.755 55.000 0.00 0.00 0.00 4.40
1313 1395 1.463553 CCTGACCCAAAACCACTGCC 61.464 60.000 0.00 0.00 0.00 4.85
1314 1396 0.754957 CTGACCCAAAACCACTGCCA 60.755 55.000 0.00 0.00 0.00 4.92
1315 1397 0.754957 TGACCCAAAACCACTGCCAG 60.755 55.000 0.00 0.00 0.00 4.85
1316 1398 0.467290 GACCCAAAACCACTGCCAGA 60.467 55.000 0.00 0.00 0.00 3.86
1317 1399 0.468029 ACCCAAAACCACTGCCAGAG 60.468 55.000 0.00 0.00 0.00 3.35
1318 1400 1.662044 CCAAAACCACTGCCAGAGC 59.338 57.895 0.00 0.00 40.48 4.09
1319 1401 1.662044 CAAAACCACTGCCAGAGCC 59.338 57.895 0.00 0.00 38.69 4.70
1320 1402 1.108727 CAAAACCACTGCCAGAGCCA 61.109 55.000 0.00 0.00 38.69 4.75
1321 1403 1.109323 AAAACCACTGCCAGAGCCAC 61.109 55.000 0.00 0.00 38.69 5.01
1322 1404 2.283143 AAACCACTGCCAGAGCCACA 62.283 55.000 0.00 0.00 38.69 4.17
1323 1405 2.113774 CCACTGCCAGAGCCACAA 59.886 61.111 0.00 0.00 38.69 3.33
1324 1406 2.263741 CCACTGCCAGAGCCACAAC 61.264 63.158 0.00 0.00 38.69 3.32
1325 1407 2.113986 ACTGCCAGAGCCACAACC 59.886 61.111 0.00 0.00 38.69 3.77
1326 1408 2.433446 CTGCCAGAGCCACAACCT 59.567 61.111 0.00 0.00 38.69 3.50
1327 1409 1.970114 CTGCCAGAGCCACAACCTG 60.970 63.158 0.00 0.00 38.69 4.00
1328 1410 2.401699 CTGCCAGAGCCACAACCTGA 62.402 60.000 0.00 0.00 38.69 3.86
1329 1411 1.001641 GCCAGAGCCACAACCTGAT 60.002 57.895 0.00 0.00 0.00 2.90
1330 1412 1.028868 GCCAGAGCCACAACCTGATC 61.029 60.000 0.00 0.00 0.00 2.92
1331 1413 0.393537 CCAGAGCCACAACCTGATCC 60.394 60.000 0.00 0.00 0.00 3.36
1332 1414 0.325933 CAGAGCCACAACCTGATCCA 59.674 55.000 0.00 0.00 0.00 3.41
1333 1415 1.067295 AGAGCCACAACCTGATCCAA 58.933 50.000 0.00 0.00 0.00 3.53
1334 1416 1.425066 AGAGCCACAACCTGATCCAAA 59.575 47.619 0.00 0.00 0.00 3.28
1335 1417 1.541588 GAGCCACAACCTGATCCAAAC 59.458 52.381 0.00 0.00 0.00 2.93
1336 1418 0.240945 GCCACAACCTGATCCAAACG 59.759 55.000 0.00 0.00 0.00 3.60
1337 1419 0.240945 CCACAACCTGATCCAAACGC 59.759 55.000 0.00 0.00 0.00 4.84
1338 1420 1.238439 CACAACCTGATCCAAACGCT 58.762 50.000 0.00 0.00 0.00 5.07
1339 1421 1.197721 CACAACCTGATCCAAACGCTC 59.802 52.381 0.00 0.00 0.00 5.03
1340 1422 1.202758 ACAACCTGATCCAAACGCTCA 60.203 47.619 0.00 0.00 0.00 4.26
1341 1423 1.879380 CAACCTGATCCAAACGCTCAA 59.121 47.619 0.00 0.00 0.00 3.02
1342 1424 1.523758 ACCTGATCCAAACGCTCAAC 58.476 50.000 0.00 0.00 0.00 3.18
1343 1425 0.804989 CCTGATCCAAACGCTCAACC 59.195 55.000 0.00 0.00 0.00 3.77
1344 1426 1.522668 CTGATCCAAACGCTCAACCA 58.477 50.000 0.00 0.00 0.00 3.67
1345 1427 2.086869 CTGATCCAAACGCTCAACCAT 58.913 47.619 0.00 0.00 0.00 3.55
1346 1428 2.489329 CTGATCCAAACGCTCAACCATT 59.511 45.455 0.00 0.00 0.00 3.16
1347 1429 3.680490 TGATCCAAACGCTCAACCATTA 58.320 40.909 0.00 0.00 0.00 1.90
1348 1430 3.438781 TGATCCAAACGCTCAACCATTAC 59.561 43.478 0.00 0.00 0.00 1.89
1349 1431 2.156098 TCCAAACGCTCAACCATTACC 58.844 47.619 0.00 0.00 0.00 2.85
1350 1432 1.883275 CCAAACGCTCAACCATTACCA 59.117 47.619 0.00 0.00 0.00 3.25
1351 1433 2.095263 CCAAACGCTCAACCATTACCAG 60.095 50.000 0.00 0.00 0.00 4.00
1352 1434 1.821216 AACGCTCAACCATTACCAGG 58.179 50.000 0.00 0.00 0.00 4.45
1353 1435 0.981183 ACGCTCAACCATTACCAGGA 59.019 50.000 0.00 0.00 0.00 3.86
1354 1436 1.338769 ACGCTCAACCATTACCAGGAC 60.339 52.381 0.00 0.00 0.00 3.85
1355 1437 1.751437 GCTCAACCATTACCAGGACC 58.249 55.000 0.00 0.00 0.00 4.46
1356 1438 2.012051 GCTCAACCATTACCAGGACCG 61.012 57.143 0.00 0.00 0.00 4.79
1357 1439 0.035820 TCAACCATTACCAGGACCGC 60.036 55.000 0.00 0.00 0.00 5.68
1358 1440 0.322098 CAACCATTACCAGGACCGCA 60.322 55.000 0.00 0.00 0.00 5.69
1359 1441 0.623723 AACCATTACCAGGACCGCAT 59.376 50.000 0.00 0.00 0.00 4.73
1360 1442 0.180406 ACCATTACCAGGACCGCATC 59.820 55.000 0.00 0.00 0.00 3.91
1371 1453 0.394352 GACCGCATCCTGACCCAAAT 60.394 55.000 0.00 0.00 0.00 2.32
1394 1476 3.832237 AACCACTGCCAGAGCCACG 62.832 63.158 0.00 0.00 38.69 4.94
1461 1543 2.978156 ATCCACAACCATTGTCAGGT 57.022 45.000 0.00 0.00 43.23 4.00
1463 1545 0.874390 CCACAACCATTGTCAGGTCG 59.126 55.000 0.00 0.00 43.23 4.79
1479 1561 0.794473 GTCGAATCCCACAACCGTTC 59.206 55.000 0.00 0.00 0.00 3.95
1482 1564 1.396996 CGAATCCCACAACCGTTCATC 59.603 52.381 0.00 0.00 0.00 2.92
1499 1581 4.335647 CGGCCCACAGTCAAGCCT 62.336 66.667 0.00 0.00 43.48 4.58
1566 1648 1.602311 CATTAGCAGGATCACAGCCC 58.398 55.000 0.00 0.00 0.00 5.19
2013 3359 0.390860 CAAACCCGAAACCATTGCCA 59.609 50.000 0.00 0.00 0.00 4.92
2039 3385 1.530655 AGCCAAACCCAAACCCTCG 60.531 57.895 0.00 0.00 0.00 4.63
2086 3432 2.700897 CCAAACCCACAACCATTACCAA 59.299 45.455 0.00 0.00 0.00 3.67
2136 3590 2.819595 CCGGACCCGAATGCACAG 60.820 66.667 10.42 0.00 42.83 3.66
2181 3635 4.861102 AGCAGAAAAGGAAAATGTGGAG 57.139 40.909 0.00 0.00 0.00 3.86
2182 3636 3.006217 AGCAGAAAAGGAAAATGTGGAGC 59.994 43.478 0.00 0.00 0.00 4.70
2183 3637 3.243839 GCAGAAAAGGAAAATGTGGAGCA 60.244 43.478 0.00 0.00 0.00 4.26
2274 3766 4.392047 TGACTTATAATGCCAGCTGGATG 58.608 43.478 37.21 17.70 37.39 3.51
2430 3943 5.181245 GTGTGTGCTGGTTGTACTATGATTT 59.819 40.000 0.00 0.00 32.31 2.17
2622 4168 2.590073 TCATGGCGCAAATTTGTAACG 58.410 42.857 19.03 14.66 0.00 3.18
2673 4221 4.417426 TTGAGGTATAAAGTGGCTAGGC 57.583 45.455 9.85 9.85 0.00 3.93
2693 4244 3.193479 GGCTTCTAGTTTGGGTCAAATGG 59.807 47.826 0.00 0.00 35.74 3.16
2695 4246 4.280929 GCTTCTAGTTTGGGTCAAATGGTT 59.719 41.667 0.00 0.00 35.74 3.67
2769 4320 5.358160 GCACAGATTACTTTGGGCTTATCTT 59.642 40.000 0.00 0.00 40.53 2.40
2826 4377 3.265995 CAGTATTTGGTCTAGTGGGGGTT 59.734 47.826 0.00 0.00 0.00 4.11
2882 4437 5.422666 TTGATTATGCCATCAACGATGAC 57.577 39.130 0.00 0.00 42.09 3.06
2895 4450 3.027170 GATGACGTGGCGGTTGCTG 62.027 63.158 0.00 0.00 42.25 4.41
2901 4456 4.947147 TGGCGGTTGCTGGTGTCC 62.947 66.667 0.00 0.00 42.25 4.02
2974 4529 3.416156 GGGATGTCTTTGAGTGAAAGCT 58.584 45.455 0.00 0.00 40.95 3.74
3083 4638 2.875296 CACTTTTCCTGGGTTGGATGA 58.125 47.619 0.00 0.00 35.83 2.92
3130 4685 2.579787 CCGACGATGCGAGTGGTC 60.580 66.667 0.00 0.00 0.00 4.02
3168 4723 3.338126 GACGACGATGGTGGCGAGT 62.338 63.158 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 9.467796 AATTTTCTAAGGATTAAACTCCTCCAG 57.532 33.333 0.00 0.59 45.15 3.86
72 73 8.883954 TTCTATGAATTGCTATTCTGACTCAG 57.116 34.615 19.31 0.00 40.68 3.35
73 74 9.671279 TTTTCTATGAATTGCTATTCTGACTCA 57.329 29.630 19.31 1.98 40.68 3.41
98 109 7.039504 AGTGCAAATGAGTCCTATGATTTGTTT 60.040 33.333 12.08 0.51 37.85 2.83
101 112 6.263344 CAGTGCAAATGAGTCCTATGATTTG 58.737 40.000 7.99 7.99 38.35 2.32
142 158 3.573967 AGAGGTTTGCGTGGATGATTTTT 59.426 39.130 0.00 0.00 0.00 1.94
146 162 2.086869 CAAGAGGTTTGCGTGGATGAT 58.913 47.619 0.00 0.00 0.00 2.45
147 163 1.202758 ACAAGAGGTTTGCGTGGATGA 60.203 47.619 0.00 0.00 0.00 2.92
164 180 8.786826 ACGGAAAGTCATATGATTCTAAACAA 57.213 30.769 9.02 0.00 0.00 2.83
165 181 8.664798 CAACGGAAAGTCATATGATTCTAAACA 58.335 33.333 9.02 0.00 0.00 2.83
176 192 4.827692 TGCTGTACAACGGAAAGTCATAT 58.172 39.130 0.00 0.00 0.00 1.78
187 203 3.896648 AGGATGTTTTGCTGTACAACG 57.103 42.857 0.00 0.00 38.23 4.10
188 204 4.708601 CGTAGGATGTTTTGCTGTACAAC 58.291 43.478 0.00 0.00 38.23 3.32
328 361 5.640189 TTGTCGTTTTTCCCTTTGTGTAA 57.360 34.783 0.00 0.00 0.00 2.41
361 395 9.683069 AAATGCGATAGAAATAAGCCTATTTTG 57.317 29.630 1.91 0.00 37.76 2.44
381 415 8.137437 AGAAAATAATATTCCAGTCCAAATGCG 58.863 33.333 0.00 0.00 0.00 4.73
390 424 8.275040 AGGCTACACAGAAAATAATATTCCAGT 58.725 33.333 0.00 0.00 0.00 4.00
398 432 9.461312 TGATTTGTAGGCTACACAGAAAATAAT 57.539 29.630 26.21 19.06 38.63 1.28
550 587 8.999895 ACTAGCTAAAATTGATTAACCCTAGGA 58.000 33.333 11.48 0.00 0.00 2.94
551 588 9.628500 AACTAGCTAAAATTGATTAACCCTAGG 57.372 33.333 0.06 0.06 0.00 3.02
554 591 9.700831 ATCAACTAGCTAAAATTGATTAACCCT 57.299 29.630 16.39 1.35 38.35 4.34
555 592 9.736023 CATCAACTAGCTAAAATTGATTAACCC 57.264 33.333 18.31 0.00 39.25 4.11
556 593 9.736023 CCATCAACTAGCTAAAATTGATTAACC 57.264 33.333 18.31 0.00 39.25 2.85
557 594 9.736023 CCCATCAACTAGCTAAAATTGATTAAC 57.264 33.333 18.31 0.00 39.25 2.01
558 595 9.693739 TCCCATCAACTAGCTAAAATTGATTAA 57.306 29.630 18.31 9.12 39.25 1.40
559 596 9.693739 TTCCCATCAACTAGCTAAAATTGATTA 57.306 29.630 18.31 9.35 39.25 1.75
560 597 8.593945 TTCCCATCAACTAGCTAAAATTGATT 57.406 30.769 18.31 7.47 39.25 2.57
561 598 8.593945 TTTCCCATCAACTAGCTAAAATTGAT 57.406 30.769 16.39 16.39 41.37 2.57
562 599 8.415950 TTTTCCCATCAACTAGCTAAAATTGA 57.584 30.769 14.02 14.02 35.64 2.57
565 602 8.621286 CGTATTTTCCCATCAACTAGCTAAAAT 58.379 33.333 0.00 0.00 32.05 1.82
566 603 7.825270 TCGTATTTTCCCATCAACTAGCTAAAA 59.175 33.333 0.00 0.00 0.00 1.52
567 604 7.332557 TCGTATTTTCCCATCAACTAGCTAAA 58.667 34.615 0.00 0.00 0.00 1.85
568 605 6.880484 TCGTATTTTCCCATCAACTAGCTAA 58.120 36.000 0.00 0.00 0.00 3.09
569 606 6.474140 TCGTATTTTCCCATCAACTAGCTA 57.526 37.500 0.00 0.00 0.00 3.32
570 607 5.353394 TCGTATTTTCCCATCAACTAGCT 57.647 39.130 0.00 0.00 0.00 3.32
571 608 6.619801 ATTCGTATTTTCCCATCAACTAGC 57.380 37.500 0.00 0.00 0.00 3.42
574 611 8.413229 CCATTAATTCGTATTTTCCCATCAACT 58.587 33.333 0.00 0.00 0.00 3.16
575 612 8.194769 ACCATTAATTCGTATTTTCCCATCAAC 58.805 33.333 0.00 0.00 0.00 3.18
576 613 8.299990 ACCATTAATTCGTATTTTCCCATCAA 57.700 30.769 0.00 0.00 0.00 2.57
577 614 7.889873 ACCATTAATTCGTATTTTCCCATCA 57.110 32.000 0.00 0.00 0.00 3.07
607 644 2.795470 CCCGAACTAAATCGCTCTAAGC 59.205 50.000 0.00 0.00 41.40 3.09
608 645 3.067742 TCCCCGAACTAAATCGCTCTAAG 59.932 47.826 0.00 0.00 41.40 2.18
609 646 3.025978 TCCCCGAACTAAATCGCTCTAA 58.974 45.455 0.00 0.00 41.40 2.10
610 647 2.658285 TCCCCGAACTAAATCGCTCTA 58.342 47.619 0.00 0.00 41.40 2.43
611 648 1.481871 TCCCCGAACTAAATCGCTCT 58.518 50.000 0.00 0.00 41.40 4.09
612 649 2.304751 TTCCCCGAACTAAATCGCTC 57.695 50.000 0.00 0.00 41.40 5.03
613 650 2.629051 CTTTCCCCGAACTAAATCGCT 58.371 47.619 0.00 0.00 41.40 4.93
614 651 1.669265 CCTTTCCCCGAACTAAATCGC 59.331 52.381 0.00 0.00 41.40 4.58
615 652 2.285977 CCCTTTCCCCGAACTAAATCG 58.714 52.381 0.00 0.00 42.37 3.34
616 653 2.240414 TCCCCTTTCCCCGAACTAAATC 59.760 50.000 0.00 0.00 0.00 2.17
617 654 2.281034 TCCCCTTTCCCCGAACTAAAT 58.719 47.619 0.00 0.00 0.00 1.40
618 655 1.744872 TCCCCTTTCCCCGAACTAAA 58.255 50.000 0.00 0.00 0.00 1.85
619 656 1.631898 CTTCCCCTTTCCCCGAACTAA 59.368 52.381 0.00 0.00 0.00 2.24
620 657 1.203338 TCTTCCCCTTTCCCCGAACTA 60.203 52.381 0.00 0.00 0.00 2.24
621 658 0.475048 TCTTCCCCTTTCCCCGAACT 60.475 55.000 0.00 0.00 0.00 3.01
622 659 0.035343 CTCTTCCCCTTTCCCCGAAC 60.035 60.000 0.00 0.00 0.00 3.95
623 660 0.475048 ACTCTTCCCCTTTCCCCGAA 60.475 55.000 0.00 0.00 0.00 4.30
624 661 0.414629 TACTCTTCCCCTTTCCCCGA 59.585 55.000 0.00 0.00 0.00 5.14
625 662 1.209747 CTTACTCTTCCCCTTTCCCCG 59.790 57.143 0.00 0.00 0.00 5.73
626 663 2.558974 TCTTACTCTTCCCCTTTCCCC 58.441 52.381 0.00 0.00 0.00 4.81
627 664 4.652679 TTTCTTACTCTTCCCCTTTCCC 57.347 45.455 0.00 0.00 0.00 3.97
628 665 6.719829 TCATTTTTCTTACTCTTCCCCTTTCC 59.280 38.462 0.00 0.00 0.00 3.13
629 666 7.665974 TCTCATTTTTCTTACTCTTCCCCTTTC 59.334 37.037 0.00 0.00 0.00 2.62
630 667 7.526918 TCTCATTTTTCTTACTCTTCCCCTTT 58.473 34.615 0.00 0.00 0.00 3.11
631 668 7.091533 TCTCATTTTTCTTACTCTTCCCCTT 57.908 36.000 0.00 0.00 0.00 3.95
632 669 6.704056 TCTCATTTTTCTTACTCTTCCCCT 57.296 37.500 0.00 0.00 0.00 4.79
633 670 8.047310 TGTATCTCATTTTTCTTACTCTTCCCC 58.953 37.037 0.00 0.00 0.00 4.81
634 671 9.449719 TTGTATCTCATTTTTCTTACTCTTCCC 57.550 33.333 0.00 0.00 0.00 3.97
643 680 9.374838 GCATGGAATTTGTATCTCATTTTTCTT 57.625 29.630 0.00 0.00 0.00 2.52
644 681 8.755977 AGCATGGAATTTGTATCTCATTTTTCT 58.244 29.630 0.00 0.00 0.00 2.52
645 682 8.937634 AGCATGGAATTTGTATCTCATTTTTC 57.062 30.769 0.00 0.00 0.00 2.29
646 683 8.533657 TGAGCATGGAATTTGTATCTCATTTTT 58.466 29.630 0.00 0.00 0.00 1.94
647 684 7.977853 GTGAGCATGGAATTTGTATCTCATTTT 59.022 33.333 0.00 0.00 32.82 1.82
648 685 7.123098 TGTGAGCATGGAATTTGTATCTCATTT 59.877 33.333 0.00 0.00 32.82 2.32
649 686 6.604396 TGTGAGCATGGAATTTGTATCTCATT 59.396 34.615 0.00 0.00 32.82 2.57
654 691 4.498682 GGCTGTGAGCATGGAATTTGTATC 60.499 45.833 0.00 0.00 44.75 2.24
655 692 3.382546 GGCTGTGAGCATGGAATTTGTAT 59.617 43.478 0.00 0.00 44.75 2.29
658 695 1.134907 GGGCTGTGAGCATGGAATTTG 60.135 52.381 0.00 0.00 44.75 2.32
676 713 1.277557 GATAGCAGGGTAGCAGATGGG 59.722 57.143 0.00 0.00 36.85 4.00
705 742 8.336801 ACAACCTTATCACTTTCAGTAATTCC 57.663 34.615 0.00 0.00 0.00 3.01
763 800 2.685388 TCAGTTGATCGTAGGAGAGCAG 59.315 50.000 0.00 0.00 37.85 4.24
788 825 1.409064 TCGTCCAGATAGATGTGGCAC 59.591 52.381 11.55 11.55 40.77 5.01
802 839 4.411256 AAGTTGGAGTAGTTTTCGTCCA 57.589 40.909 0.00 0.00 37.31 4.02
831 897 5.343249 GCAGCCAACCATATGAAAAAGTAG 58.657 41.667 3.65 0.00 0.00 2.57
832 898 4.159506 GGCAGCCAACCATATGAAAAAGTA 59.840 41.667 6.55 0.00 0.00 2.24
840 906 1.135527 CAACTGGCAGCCAACCATATG 59.864 52.381 17.03 4.14 36.36 1.78
841 907 1.477553 CAACTGGCAGCCAACCATAT 58.522 50.000 17.03 0.00 36.36 1.78
843 909 1.909781 CCAACTGGCAGCCAACCAT 60.910 57.895 17.03 0.00 36.36 3.55
856 922 0.247736 CTCCGCTTAGTGCTCCAACT 59.752 55.000 0.00 0.00 40.11 3.16
917 989 7.108841 ACGCTATTTATTCCAACTCTGACTA 57.891 36.000 0.00 0.00 0.00 2.59
919 991 6.755141 TGTACGCTATTTATTCCAACTCTGAC 59.245 38.462 0.00 0.00 0.00 3.51
931 1003 7.434492 ACTAGACAAGCATGTACGCTATTTAT 58.566 34.615 0.00 0.00 42.89 1.40
936 1008 4.713824 AACTAGACAAGCATGTACGCTA 57.286 40.909 0.00 0.00 42.89 4.26
953 1025 6.325919 AGCGAATTCAACCAATCAAAACTA 57.674 33.333 6.22 0.00 0.00 2.24
957 1029 9.868277 ATTTATAAGCGAATTCAACCAATCAAA 57.132 25.926 6.22 0.00 0.00 2.69
1001 1073 7.489982 GTGTTGCTACATACTTGCAAGTGCA 62.490 44.000 36.50 31.84 45.55 4.57
1015 1097 2.151202 GGCTAAGCTTGTGTTGCTACA 58.849 47.619 9.86 0.00 40.22 2.74
1105 1187 0.386476 CCTGCAGCAAGAGCAAACAA 59.614 50.000 8.66 0.00 45.49 2.83
1152 1234 1.441515 CGCGTATGGGTCGTATCGG 60.442 63.158 0.00 0.00 0.00 4.18
1165 1247 0.609151 TCTGGATTTGGGTTCGCGTA 59.391 50.000 5.77 0.00 0.00 4.42
1231 1313 2.123468 GGGCAGTGGTTGTGGGTT 60.123 61.111 0.00 0.00 0.00 4.11
1260 1342 3.299977 GGTTGCGGGTTTGGGTCC 61.300 66.667 0.00 0.00 0.00 4.46
1297 1379 0.467290 TCTGGCAGTGGTTTTGGGTC 60.467 55.000 15.27 0.00 0.00 4.46
1299 1381 1.809567 GCTCTGGCAGTGGTTTTGGG 61.810 60.000 15.27 0.00 38.54 4.12
1300 1382 1.662044 GCTCTGGCAGTGGTTTTGG 59.338 57.895 15.27 0.00 38.54 3.28
1301 1383 1.108727 TGGCTCTGGCAGTGGTTTTG 61.109 55.000 15.27 0.00 40.87 2.44
1302 1384 1.109323 GTGGCTCTGGCAGTGGTTTT 61.109 55.000 15.27 0.00 39.19 2.43
1303 1385 1.529244 GTGGCTCTGGCAGTGGTTT 60.529 57.895 15.27 0.00 39.19 3.27
1304 1386 2.113986 GTGGCTCTGGCAGTGGTT 59.886 61.111 15.27 0.00 39.19 3.67
1305 1387 2.756042 TTGTGGCTCTGGCAGTGGT 61.756 57.895 15.27 0.00 39.19 4.16
1306 1388 2.113774 TTGTGGCTCTGGCAGTGG 59.886 61.111 15.27 9.88 39.19 4.00
1307 1389 2.263741 GGTTGTGGCTCTGGCAGTG 61.264 63.158 15.27 13.56 39.19 3.66
1308 1390 2.113986 GGTTGTGGCTCTGGCAGT 59.886 61.111 15.27 0.00 39.19 4.40
1309 1391 1.970114 CAGGTTGTGGCTCTGGCAG 60.970 63.158 8.58 8.58 39.19 4.85
1310 1392 1.782201 ATCAGGTTGTGGCTCTGGCA 61.782 55.000 0.00 0.00 40.87 4.92
1311 1393 1.001641 ATCAGGTTGTGGCTCTGGC 60.002 57.895 0.00 0.00 37.82 4.85
1312 1394 0.393537 GGATCAGGTTGTGGCTCTGG 60.394 60.000 0.00 0.00 0.00 3.86
1313 1395 0.325933 TGGATCAGGTTGTGGCTCTG 59.674 55.000 0.00 0.00 0.00 3.35
1314 1396 1.067295 TTGGATCAGGTTGTGGCTCT 58.933 50.000 0.00 0.00 0.00 4.09
1315 1397 1.541588 GTTTGGATCAGGTTGTGGCTC 59.458 52.381 0.00 0.00 0.00 4.70
1316 1398 1.620822 GTTTGGATCAGGTTGTGGCT 58.379 50.000 0.00 0.00 0.00 4.75
1317 1399 0.240945 CGTTTGGATCAGGTTGTGGC 59.759 55.000 0.00 0.00 0.00 5.01
1318 1400 0.240945 GCGTTTGGATCAGGTTGTGG 59.759 55.000 0.00 0.00 0.00 4.17
1319 1401 1.197721 GAGCGTTTGGATCAGGTTGTG 59.802 52.381 0.00 0.00 0.00 3.33
1320 1402 1.202758 TGAGCGTTTGGATCAGGTTGT 60.203 47.619 0.00 0.00 35.82 3.32
1321 1403 1.522668 TGAGCGTTTGGATCAGGTTG 58.477 50.000 0.00 0.00 35.82 3.77
1322 1404 1.880027 GTTGAGCGTTTGGATCAGGTT 59.120 47.619 0.00 0.00 42.92 3.50
1323 1405 1.523758 GTTGAGCGTTTGGATCAGGT 58.476 50.000 0.00 0.00 42.92 4.00
1324 1406 0.804989 GGTTGAGCGTTTGGATCAGG 59.195 55.000 0.00 0.00 42.92 3.86
1325 1407 1.522668 TGGTTGAGCGTTTGGATCAG 58.477 50.000 0.00 0.00 42.92 2.90
1326 1408 2.198827 ATGGTTGAGCGTTTGGATCA 57.801 45.000 0.00 0.00 39.79 2.92
1327 1409 3.181500 GGTAATGGTTGAGCGTTTGGATC 60.181 47.826 0.00 0.00 0.00 3.36
1328 1410 2.752903 GGTAATGGTTGAGCGTTTGGAT 59.247 45.455 0.00 0.00 0.00 3.41
1329 1411 2.156098 GGTAATGGTTGAGCGTTTGGA 58.844 47.619 0.00 0.00 0.00 3.53
1330 1412 1.883275 TGGTAATGGTTGAGCGTTTGG 59.117 47.619 0.00 0.00 0.00 3.28
1331 1413 2.095263 CCTGGTAATGGTTGAGCGTTTG 60.095 50.000 0.00 0.00 0.00 2.93
1332 1414 2.159382 CCTGGTAATGGTTGAGCGTTT 58.841 47.619 0.00 0.00 0.00 3.60
1333 1415 1.349688 TCCTGGTAATGGTTGAGCGTT 59.650 47.619 0.00 0.00 0.00 4.84
1334 1416 0.981183 TCCTGGTAATGGTTGAGCGT 59.019 50.000 0.00 0.00 0.00 5.07
1335 1417 1.369625 GTCCTGGTAATGGTTGAGCG 58.630 55.000 0.00 0.00 0.00 5.03
1336 1418 1.751437 GGTCCTGGTAATGGTTGAGC 58.249 55.000 0.00 0.00 0.00 4.26
1337 1419 2.012051 GCGGTCCTGGTAATGGTTGAG 61.012 57.143 0.00 0.00 0.00 3.02
1338 1420 0.035820 GCGGTCCTGGTAATGGTTGA 60.036 55.000 0.00 0.00 0.00 3.18
1339 1421 0.322098 TGCGGTCCTGGTAATGGTTG 60.322 55.000 0.00 0.00 0.00 3.77
1340 1422 0.623723 ATGCGGTCCTGGTAATGGTT 59.376 50.000 0.00 0.00 0.00 3.67
1341 1423 0.180406 GATGCGGTCCTGGTAATGGT 59.820 55.000 0.00 0.00 0.00 3.55
1342 1424 0.535102 GGATGCGGTCCTGGTAATGG 60.535 60.000 0.91 0.00 44.16 3.16
1343 1425 3.006672 GGATGCGGTCCTGGTAATG 57.993 57.895 0.91 0.00 44.16 1.90
1352 1434 0.394352 ATTTGGGTCAGGATGCGGTC 60.394 55.000 0.00 0.00 34.76 4.79
1353 1435 0.394352 GATTTGGGTCAGGATGCGGT 60.394 55.000 0.00 0.00 34.76 5.68
1354 1436 1.103398 GGATTTGGGTCAGGATGCGG 61.103 60.000 0.00 0.00 34.76 5.69
1355 1437 0.394216 TGGATTTGGGTCAGGATGCG 60.394 55.000 0.00 0.00 34.76 4.73
1356 1438 1.106285 GTGGATTTGGGTCAGGATGC 58.894 55.000 0.00 0.00 34.76 3.91
1357 1439 2.493278 GTTGTGGATTTGGGTCAGGATG 59.507 50.000 0.00 0.00 37.54 3.51
1358 1440 2.557452 GGTTGTGGATTTGGGTCAGGAT 60.557 50.000 0.00 0.00 0.00 3.24
1359 1441 1.203001 GGTTGTGGATTTGGGTCAGGA 60.203 52.381 0.00 0.00 0.00 3.86
1360 1442 1.256812 GGTTGTGGATTTGGGTCAGG 58.743 55.000 0.00 0.00 0.00 3.86
1361 1443 1.613437 GTGGTTGTGGATTTGGGTCAG 59.387 52.381 0.00 0.00 0.00 3.51
1362 1444 1.216678 AGTGGTTGTGGATTTGGGTCA 59.783 47.619 0.00 0.00 0.00 4.02
1363 1445 1.613437 CAGTGGTTGTGGATTTGGGTC 59.387 52.381 0.00 0.00 0.00 4.46
1364 1446 1.703411 CAGTGGTTGTGGATTTGGGT 58.297 50.000 0.00 0.00 0.00 4.51
1365 1447 0.318120 GCAGTGGTTGTGGATTTGGG 59.682 55.000 0.00 0.00 0.00 4.12
1371 1453 1.451504 CTCTGGCAGTGGTTGTGGA 59.548 57.895 15.27 0.00 0.00 4.02
1394 1476 1.464997 GTTGAGCGTTTGGATCAGGTC 59.535 52.381 0.00 0.00 42.92 3.85
1461 1543 0.393448 TGAACGGTTGTGGGATTCGA 59.607 50.000 0.00 0.00 0.00 3.71
1463 1545 1.396996 CGATGAACGGTTGTGGGATTC 59.603 52.381 0.00 0.00 38.46 2.52
1479 1561 2.401766 GCTTGACTGTGGGCCGATG 61.402 63.158 0.00 0.00 0.00 3.84
1499 1581 4.980805 GTCGTGGCTGCCGGTTCA 62.981 66.667 14.98 0.00 0.00 3.18
1566 1648 2.057137 ATGGTTGTGGATTGGGATCG 57.943 50.000 0.00 0.00 32.84 3.69
1957 3255 3.499563 CCTGGTAATGGTTGAGGGTTTGA 60.500 47.826 0.00 0.00 0.00 2.69
2013 3359 1.943730 TTGGGTTTGGCTGTGGGTCT 61.944 55.000 0.00 0.00 0.00 3.85
2039 3385 2.516225 GCGGTCCTGGTAATGGCC 60.516 66.667 0.00 0.00 0.00 5.36
2086 3432 0.041982 AGTGGTTGTGGGTTTGGGTT 59.958 50.000 0.00 0.00 0.00 4.11
2181 3635 1.808133 CGGCTCCTCTAGGATGTTTGC 60.808 57.143 0.00 0.00 44.46 3.68
2182 3636 1.808133 GCGGCTCCTCTAGGATGTTTG 60.808 57.143 0.00 0.00 44.46 2.93
2183 3637 0.466124 GCGGCTCCTCTAGGATGTTT 59.534 55.000 0.00 0.00 44.46 2.83
2227 3717 1.538512 TGTACTATATCTGGCGCGGTC 59.461 52.381 8.83 0.00 0.00 4.79
2261 3753 3.635373 CACTTATTTCATCCAGCTGGCAT 59.365 43.478 28.91 18.58 34.44 4.40
2274 3766 3.120095 GGGTACAACACGCCACTTATTTC 60.120 47.826 0.00 0.00 34.07 2.17
2673 4221 7.703058 ATAACCATTTGACCCAAACTAGAAG 57.297 36.000 0.00 0.00 36.13 2.85
2728 4279 4.802039 TCTGTGCGAATATTCTCCGTAAAC 59.198 41.667 13.45 0.68 0.00 2.01
2734 4285 7.348201 CAAAGTAATCTGTGCGAATATTCTCC 58.652 38.462 13.45 5.18 0.00 3.71
2744 4295 1.453155 AGCCCAAAGTAATCTGTGCG 58.547 50.000 0.00 0.00 0.00 5.34
2783 4334 7.253905 ACTGCCTTACCTATAGAGAAAACAA 57.746 36.000 0.00 0.00 0.00 2.83
2861 4416 3.494251 CGTCATCGTTGATGGCATAATCA 59.506 43.478 11.48 0.00 43.94 2.57
2895 4450 4.569719 TCCAAGAAGGAATAAGGACACC 57.430 45.455 0.00 0.00 45.65 4.16
2974 4529 1.462928 CCCACAACAGGGGCCTTAA 59.537 57.895 0.84 0.00 45.60 1.85
3083 4638 4.202461 ACCATCCAACCGTGATAATATGCT 60.202 41.667 0.00 0.00 0.00 3.79
3117 4672 2.880879 CACCGACCACTCGCATCG 60.881 66.667 0.00 0.00 38.70 3.84
3130 4685 2.357034 CACCGAGTCCCAACACCG 60.357 66.667 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.