Multiple sequence alignment - TraesCS6B01G141700

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 TraesCS6B01G141700 chr6B 100.000 5882 0 0 1 5882 141016200 141022081 0.000000e+00 10826.0
1 TraesCS6B01G141700 chr6B 94.218 588 25 1 1 588 668696911 668697489 0.000000e+00 889.0
2 TraesCS6B01G141700 chr6B 93.039 589 26 2 1 589 560962086 560962659 0.000000e+00 846.0
3 TraesCS6B01G141700 chr6B 99.304 431 3 0 3427 3857 667959229 667958799 0.000000e+00 780.0
4 TraesCS6B01G141700 chr6B 99.422 346 2 0 3868 4213 667958972 667958627 3.870000e-176 628.0
5 TraesCS6B01G141700 chr6B 95.139 288 14 0 304 591 255477183 255476896 6.950000e-124 455.0
6 TraesCS6B01G141700 chr6B 94.737 285 15 0 304 588 19789120 19788836 1.500000e-120 444.0
7 TraesCS6B01G141700 chr6B 91.930 285 23 0 1 285 195283724 195283440 3.300000e-107 399.0
8 TraesCS6B01G141700 chr6B 84.507 71 8 3 3214 3282 387077735 387077804 3.800000e-07 67.6
9 TraesCS6B01G141700 chr6D 96.645 2832 63 15 609 3426 65908665 65911478 0.000000e+00 4674.0
10 TraesCS6B01G141700 chr6D 97.059 1190 24 5 4209 5389 65911468 65912655 0.000000e+00 1993.0
11 TraesCS6B01G141700 chr6D 92.486 519 13 3 5387 5882 65912780 65913295 0.000000e+00 719.0
12 TraesCS6B01G141700 chr6D 82.667 75 12 1 3209 3282 194175718 194175792 1.370000e-06 65.8
13 TraesCS6B01G141700 chr6A 91.474 2897 141 35 589 3426 81851804 81848955 0.000000e+00 3884.0
14 TraesCS6B01G141700 chr6A 92.569 1709 56 15 4209 5882 81848965 81847293 0.000000e+00 2386.0
15 TraesCS6B01G141700 chr3B 89.602 1029 78 15 917 1935 784731434 784732443 0.000000e+00 1280.0
16 TraesCS6B01G141700 chr3B 89.094 1027 87 13 917 1935 784741203 784742212 0.000000e+00 1253.0
17 TraesCS6B01G141700 chr3B 96.259 588 20 1 1 588 753977063 753977648 0.000000e+00 963.0
18 TraesCS6B01G141700 chr3B 96.095 589 22 1 1 589 129449424 129450011 0.000000e+00 959.0
19 TraesCS6B01G141700 chr3B 100.000 431 0 0 3427 3857 473183185 473182755 0.000000e+00 797.0
20 TraesCS6B01G141700 chr3B 99.304 431 3 0 3427 3857 242601490 242601920 0.000000e+00 780.0
21 TraesCS6B01G141700 chr3B 99.710 345 1 0 3868 4212 473182928 473182584 2.990000e-177 632.0
22 TraesCS6B01G141700 chr3B 97.971 345 6 1 3868 4212 242601747 242602090 1.090000e-166 597.0
23 TraesCS6B01G141700 chr3B 83.810 105 15 2 3229 3331 63412981 63412877 1.350000e-16 99.0
24 TraesCS6B01G141700 chr7B 96.259 588 20 1 1 588 599433870 599433285 0.000000e+00 963.0
25 TraesCS6B01G141700 chr7B 94.910 609 26 3 1 607 445596070 445595465 0.000000e+00 948.0
26 TraesCS6B01G141700 chr7B 100.000 431 0 0 3427 3857 327636417 327635987 0.000000e+00 797.0
27 TraesCS6B01G141700 chr7B 99.422 346 1 1 3868 4212 327636160 327635815 1.390000e-175 627.0
28 TraesCS6B01G141700 chr2B 96.259 588 20 1 1 588 471646952 471647537 0.000000e+00 963.0
29 TraesCS6B01G141700 chr2B 95.756 589 24 1 1 589 162117175 162117762 0.000000e+00 948.0
30 TraesCS6B01G141700 chr2B 93.939 594 21 2 1 593 737909159 737909738 0.000000e+00 883.0
31 TraesCS6B01G141700 chr2B 100.000 28 0 0 5323 5350 405272935 405272962 1.100000e-02 52.8
32 TraesCS6B01G141700 chr1B 95.645 597 26 0 1 597 356687893 356687297 0.000000e+00 959.0
33 TraesCS6B01G141700 chr1B 96.088 588 20 3 1 588 466712875 466713459 0.000000e+00 955.0
34 TraesCS6B01G141700 chr1B 93.548 589 23 1 1 589 26150200 26150773 0.000000e+00 863.0
35 TraesCS6B01G141700 chr1B 94.035 285 17 0 304 588 520867110 520866826 3.260000e-117 433.0
36 TraesCS6B01G141700 chr1B 91.228 285 25 0 1 285 520867563 520867279 7.150000e-104 388.0
37 TraesCS6B01G141700 chr1B 85.333 225 29 1 365 589 266921390 266921170 4.580000e-56 230.0
38 TraesCS6B01G141700 chr5B 95.932 590 23 1 1 590 589308726 589309314 0.000000e+00 955.0
39 TraesCS6B01G141700 chr5B 95.408 588 26 1 1 588 261393130 261393716 0.000000e+00 935.0
40 TraesCS6B01G141700 chr5B 94.898 588 27 1 3 590 23972351 23971767 0.000000e+00 917.0
41 TraesCS6B01G141700 chr5B 94.737 589 17 1 1 589 354288024 354287450 0.000000e+00 904.0
42 TraesCS6B01G141700 chr5B 100.000 431 0 0 3427 3857 138781592 138782022 0.000000e+00 797.0
43 TraesCS6B01G141700 chr5B 99.539 434 2 0 3424 3857 384592660 384593093 0.000000e+00 791.0
44 TraesCS6B01G141700 chr5B 99.710 345 1 0 3868 4212 138781849 138782193 2.990000e-177 632.0
45 TraesCS6B01G141700 chr5B 84.906 106 12 4 3228 3331 465998062 465997959 2.900000e-18 104.0
46 TraesCS6B01G141700 chr4A 95.770 591 18 1 1 591 653418910 653418327 0.000000e+00 946.0
47 TraesCS6B01G141700 chr4A 79.279 111 17 3 5698 5807 549887510 549887615 8.180000e-09 73.1
48 TraesCS6B01G141700 chr5A 94.218 588 20 1 1 588 504613165 504612592 0.000000e+00 885.0
49 TraesCS6B01G141700 chr5A 89.362 141 15 0 450 590 160280642 160280502 1.680000e-40 178.0
50 TraesCS6B01G141700 chr5A 100.000 31 0 0 405 435 291994999 291995029 2.290000e-04 58.4
51 TraesCS6B01G141700 chr3A 99.545 440 2 0 3418 3857 611200714 611201153 0.000000e+00 802.0
52 TraesCS6B01G141700 chr3A 99.145 351 3 0 3868 4218 611201181 611201531 2.990000e-177 632.0
53 TraesCS6B01G141700 chr3A 92.117 444 21 6 2001 2443 735590756 735591186 1.080000e-171 614.0
54 TraesCS6B01G141700 chr3A 100.000 29 0 0 5322 5350 119479916 119479888 3.000000e-03 54.7
55 TraesCS6B01G141700 chr1A 100.000 431 0 0 3427 3857 426095518 426095948 0.000000e+00 797.0
56 TraesCS6B01G141700 chr1A 99.536 431 2 0 3427 3857 173975234 173974804 0.000000e+00 785.0
57 TraesCS6B01G141700 chr1A 99.429 350 2 0 3868 4217 173974977 173974628 2.310000e-178 636.0
58 TraesCS6B01G141700 chr1A 98.844 346 4 0 3868 4213 426095775 426096120 8.370000e-173 617.0
59 TraesCS6B01G141700 chrUn 99.420 345 2 0 3868 4212 275836798 275836454 1.390000e-175 627.0
60 TraesCS6B01G141700 chr4B 96.821 346 8 1 3868 4213 12504288 12504630 5.110000e-160 575.0
61 TraesCS6B01G141700 chr4B 90.254 236 21 1 353 588 32199544 32199777 2.060000e-79 307.0
62 TraesCS6B01G141700 chr4B 87.845 181 21 1 409 588 32198385 32198205 1.660000e-50 211.0
63 TraesCS6B01G141700 chr4B 88.667 150 16 1 450 599 547707061 547707209 1.300000e-41 182.0
64 TraesCS6B01G141700 chr5D 88.957 163 17 1 406 567 369991009 369991171 3.590000e-47 200.0
65 TraesCS6B01G141700 chr5D 84.906 106 13 3 3228 3331 387623278 387623174 2.900000e-18 104.0
66 TraesCS6B01G141700 chr2A 90.141 142 14 0 450 591 331055137 331054996 1.010000e-42 185.0
67 TraesCS6B01G141700 chr2A 89.928 139 14 0 450 588 364561393 364561531 4.680000e-41 180.0
68 TraesCS6B01G141700 chr2A 88.966 145 15 1 450 594 235934541 235934398 1.680000e-40 178.0
69 TraesCS6B01G141700 chr2A 84.615 143 22 0 449 591 146927520 146927378 6.140000e-30 143.0
70 TraesCS6B01G141700 chr7D 87.586 145 18 0 450 594 152625836 152625692 1.010000e-37 169.0
71 TraesCS6B01G141700 chr2D 87.500 144 17 1 450 592 604238123 604237980 1.310000e-36 165.0
72 TraesCS6B01G141700 chr2D 79.325 237 41 7 352 584 474248481 474248249 6.100000e-35 159.0


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 TraesCS6B01G141700 chr6B 141016200 141022081 5881 False 10826.0 10826 100.000000 1 5882 1 chr6B.!!$F1 5881
1 TraesCS6B01G141700 chr6B 668696911 668697489 578 False 889.0 889 94.218000 1 588 1 chr6B.!!$F4 587
2 TraesCS6B01G141700 chr6B 560962086 560962659 573 False 846.0 846 93.039000 1 589 1 chr6B.!!$F3 588
3 TraesCS6B01G141700 chr6B 667958627 667959229 602 True 704.0 780 99.363000 3427 4213 2 chr6B.!!$R4 786
4 TraesCS6B01G141700 chr6D 65908665 65913295 4630 False 2462.0 4674 95.396667 609 5882 3 chr6D.!!$F2 5273
5 TraesCS6B01G141700 chr6A 81847293 81851804 4511 True 3135.0 3884 92.021500 589 5882 2 chr6A.!!$R1 5293
6 TraesCS6B01G141700 chr3B 784731434 784732443 1009 False 1280.0 1280 89.602000 917 1935 1 chr3B.!!$F3 1018
7 TraesCS6B01G141700 chr3B 784741203 784742212 1009 False 1253.0 1253 89.094000 917 1935 1 chr3B.!!$F4 1018
8 TraesCS6B01G141700 chr3B 753977063 753977648 585 False 963.0 963 96.259000 1 588 1 chr3B.!!$F2 587
9 TraesCS6B01G141700 chr3B 129449424 129450011 587 False 959.0 959 96.095000 1 589 1 chr3B.!!$F1 588
10 TraesCS6B01G141700 chr3B 473182584 473183185 601 True 714.5 797 99.855000 3427 4212 2 chr3B.!!$R2 785
11 TraesCS6B01G141700 chr3B 242601490 242602090 600 False 688.5 780 98.637500 3427 4212 2 chr3B.!!$F5 785
12 TraesCS6B01G141700 chr7B 599433285 599433870 585 True 963.0 963 96.259000 1 588 1 chr7B.!!$R2 587
13 TraesCS6B01G141700 chr7B 445595465 445596070 605 True 948.0 948 94.910000 1 607 1 chr7B.!!$R1 606
14 TraesCS6B01G141700 chr7B 327635815 327636417 602 True 712.0 797 99.711000 3427 4212 2 chr7B.!!$R3 785
15 TraesCS6B01G141700 chr2B 471646952 471647537 585 False 963.0 963 96.259000 1 588 1 chr2B.!!$F3 587
16 TraesCS6B01G141700 chr2B 162117175 162117762 587 False 948.0 948 95.756000 1 589 1 chr2B.!!$F1 588
17 TraesCS6B01G141700 chr2B 737909159 737909738 579 False 883.0 883 93.939000 1 593 1 chr2B.!!$F4 592
18 TraesCS6B01G141700 chr1B 356687297 356687893 596 True 959.0 959 95.645000 1 597 1 chr1B.!!$R2 596
19 TraesCS6B01G141700 chr1B 466712875 466713459 584 False 955.0 955 96.088000 1 588 1 chr1B.!!$F2 587
20 TraesCS6B01G141700 chr1B 26150200 26150773 573 False 863.0 863 93.548000 1 589 1 chr1B.!!$F1 588
21 TraesCS6B01G141700 chr1B 520866826 520867563 737 True 410.5 433 92.631500 1 588 2 chr1B.!!$R3 587
22 TraesCS6B01G141700 chr5B 589308726 589309314 588 False 955.0 955 95.932000 1 590 1 chr5B.!!$F3 589
23 TraesCS6B01G141700 chr5B 261393130 261393716 586 False 935.0 935 95.408000 1 588 1 chr5B.!!$F1 587
24 TraesCS6B01G141700 chr5B 23971767 23972351 584 True 917.0 917 94.898000 3 590 1 chr5B.!!$R1 587
25 TraesCS6B01G141700 chr5B 354287450 354288024 574 True 904.0 904 94.737000 1 589 1 chr5B.!!$R2 588
26 TraesCS6B01G141700 chr5B 138781592 138782193 601 False 714.5 797 99.855000 3427 4212 2 chr5B.!!$F4 785
27 TraesCS6B01G141700 chr4A 653418327 653418910 583 True 946.0 946 95.770000 1 591 1 chr4A.!!$R1 590
28 TraesCS6B01G141700 chr5A 504612592 504613165 573 True 885.0 885 94.218000 1 588 1 chr5A.!!$R2 587
29 TraesCS6B01G141700 chr3A 611200714 611201531 817 False 717.0 802 99.345000 3418 4218 2 chr3A.!!$F2 800
30 TraesCS6B01G141700 chr1A 173974628 173975234 606 True 710.5 785 99.482500 3427 4217 2 chr1A.!!$R1 790
31 TraesCS6B01G141700 chr1A 426095518 426096120 602 False 707.0 797 99.422000 3427 4213 2 chr1A.!!$F1 786

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
521 704 0.538287 GCAGAGGGGCAAAACTGAGT 60.538 55.000 0.0 0.0 32.9 3.41 F
1286 1484 0.889186 TTTTTCCAGCTCTGCCGGTC 60.889 55.000 1.9 0.0 0.0 4.79 F
1859 2108 0.870307 GCGGTGTCAGTGGCTATACG 60.870 60.000 0.0 0.0 0.0 3.06 F
3029 3288 1.000843 GCCAATTCACCACAAAGTCCC 59.999 52.381 0.0 0.0 0.0 4.46 F
3838 4100 0.254178 CTCCTCCCCTGGTTGATGTG 59.746 60.000 0.0 0.0 0.0 3.21 F
3930 4192 0.031111 TCCTCCCCTCCTATGGTGTG 60.031 60.000 0.0 0.0 0.0 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1322 1520 1.821216 GCCAGTAGCAAACCTAGCAA 58.179 50.000 0.0 0.0 42.97 3.91 R
3014 3273 0.631753 TTGGGGGACTTTGTGGTGAA 59.368 50.000 0.0 0.0 0.00 3.18 R
3831 4093 1.151221 ACACCAGCAGCCACATCAA 59.849 52.632 0.0 0.0 0.00 2.57 R
3911 4173 0.031111 CACACCATAGGAGGGGAGGA 60.031 60.000 0.0 0.0 34.94 3.71 R
4683 5150 2.203480 GTGCTTTCAGGTGGGGCA 60.203 61.111 0.0 0.0 0.00 5.36 R
5636 6261 2.228822 GCGAAGTTGGATGTGGTTCATT 59.771 45.455 0.0 0.0 36.83 2.57 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
53 54 3.863041 CCTTGTTCCTAGTGCCTTCTAC 58.137 50.000 0.00 0.00 0.00 2.59
76 77 3.411517 CTCCCCCGTGCCTTCCAT 61.412 66.667 0.00 0.00 0.00 3.41
521 704 0.538287 GCAGAGGGGCAAAACTGAGT 60.538 55.000 0.00 0.00 32.90 3.41
549 732 6.728632 ACCTAAAAATTAGGGGCAAATCTGAA 59.271 34.615 17.91 0.00 39.00 3.02
567 750 5.014858 TCTGAATAGTGGGTTCGAGTTAGT 58.985 41.667 0.00 0.00 0.00 2.24
607 790 6.979238 TGTCCCAAATTTAAAACGGTGTTAAG 59.021 34.615 3.87 0.00 0.00 1.85
608 791 6.979817 GTCCCAAATTTAAAACGGTGTTAAGT 59.020 34.615 3.87 0.00 0.00 2.24
609 792 8.134261 GTCCCAAATTTAAAACGGTGTTAAGTA 58.866 33.333 3.87 0.00 0.00 2.24
611 794 8.970293 CCCAAATTTAAAACGGTGTTAAGTAAG 58.030 33.333 3.87 0.00 0.00 2.34
626 809 6.072893 TGTTAAGTAAGGATTTTTCTCGTGCC 60.073 38.462 0.00 0.00 0.00 5.01
692 878 2.887360 GCAGCCAATTGCGGATGT 59.113 55.556 0.00 0.00 44.53 3.06
982 1174 1.598882 GAGGGATTTGAGGCGGATTC 58.401 55.000 0.00 0.00 0.00 2.52
1286 1484 0.889186 TTTTTCCAGCTCTGCCGGTC 60.889 55.000 1.90 0.00 0.00 4.79
1416 1628 3.993658 TCCAGTATCCACCCTGTAGAT 57.006 47.619 0.00 0.00 0.00 1.98
1420 1632 5.491078 TCCAGTATCCACCCTGTAGATTTTT 59.509 40.000 0.00 0.00 0.00 1.94
1421 1633 6.674861 TCCAGTATCCACCCTGTAGATTTTTA 59.325 38.462 0.00 0.00 0.00 1.52
1422 1634 6.992715 CCAGTATCCACCCTGTAGATTTTTAG 59.007 42.308 0.00 0.00 0.00 1.85
1530 1743 2.490903 ACTGTGATTTGAGAAGCATGGC 59.509 45.455 0.00 0.00 33.18 4.40
1563 1776 6.091713 TCGCTTAATTGGTTGTTACTTAGCTC 59.908 38.462 0.00 0.00 0.00 4.09
1776 2021 7.867921 TGTAATGGTTAGATTACCTGGATTGT 58.132 34.615 0.00 0.00 37.82 2.71
1859 2108 0.870307 GCGGTGTCAGTGGCTATACG 60.870 60.000 0.00 0.00 0.00 3.06
2201 2456 9.679661 TGCTTAATAAACATATTGTCTCCTTGA 57.320 29.630 0.00 0.00 0.00 3.02
2220 2475 6.071952 TCCTTGAATTCAGTTTAATGACCAGC 60.072 38.462 8.41 0.00 0.00 4.85
2364 2623 6.579666 TTATTCAGACATTTCTTGCAGCTT 57.420 33.333 0.00 0.00 0.00 3.74
2621 2880 2.455032 CTCTTTGGTCTCAGTATCGCG 58.545 52.381 0.00 0.00 0.00 5.87
2924 3183 5.526111 CGGAGAAGGTAGAAAAACAGACAAA 59.474 40.000 0.00 0.00 0.00 2.83
2994 3253 2.292267 CTCTCTCTGGCTCTCTCTGAC 58.708 57.143 0.00 0.00 0.00 3.51
2996 3255 3.111484 TCTCTCTGGCTCTCTCTGACTA 58.889 50.000 0.00 0.00 0.00 2.59
2997 3256 3.521531 TCTCTCTGGCTCTCTCTGACTAA 59.478 47.826 0.00 0.00 0.00 2.24
3014 3273 1.632018 TAAGCTGCGTAGGGGCCAAT 61.632 55.000 4.39 0.00 0.00 3.16
3029 3288 1.000843 GCCAATTCACCACAAAGTCCC 59.999 52.381 0.00 0.00 0.00 4.46
3424 3686 3.264193 TGCATCGCCTATTATTGGGAGAT 59.736 43.478 1.29 1.29 42.45 2.75
3824 4086 1.613630 TTGTGCTCCTCCCCTCCTC 60.614 63.158 0.00 0.00 0.00 3.71
3825 4087 2.766229 GTGCTCCTCCCCTCCTCC 60.766 72.222 0.00 0.00 0.00 4.30
3826 4088 4.095400 TGCTCCTCCCCTCCTCCC 62.095 72.222 0.00 0.00 0.00 4.30
3827 4089 4.890306 GCTCCTCCCCTCCTCCCC 62.890 77.778 0.00 0.00 0.00 4.81
3828 4090 3.039526 CTCCTCCCCTCCTCCCCT 61.040 72.222 0.00 0.00 0.00 4.79
3829 4091 3.368501 TCCTCCCCTCCTCCCCTG 61.369 72.222 0.00 0.00 0.00 4.45
3830 4092 4.505970 CCTCCCCTCCTCCCCTGG 62.506 77.778 0.00 0.00 0.00 4.45
3831 4093 3.700350 CTCCCCTCCTCCCCTGGT 61.700 72.222 0.00 0.00 0.00 4.00
3832 4094 3.216371 TCCCCTCCTCCCCTGGTT 61.216 66.667 0.00 0.00 0.00 3.67
3833 4095 3.017581 CCCCTCCTCCCCTGGTTG 61.018 72.222 0.00 0.00 0.00 3.77
3834 4096 2.124996 CCCTCCTCCCCTGGTTGA 59.875 66.667 0.00 0.00 0.00 3.18
3835 4097 1.308216 CCCTCCTCCCCTGGTTGAT 60.308 63.158 0.00 0.00 0.00 2.57
3836 4098 1.639635 CCCTCCTCCCCTGGTTGATG 61.640 65.000 0.00 0.00 0.00 3.07
3837 4099 0.916358 CCTCCTCCCCTGGTTGATGT 60.916 60.000 0.00 0.00 0.00 3.06
3838 4100 0.254178 CTCCTCCCCTGGTTGATGTG 59.746 60.000 0.00 0.00 0.00 3.21
3839 4101 1.207488 TCCTCCCCTGGTTGATGTGG 61.207 60.000 0.00 0.00 0.00 4.17
3840 4102 1.379044 CTCCCCTGGTTGATGTGGC 60.379 63.158 0.00 0.00 0.00 5.01
3841 4103 1.852157 TCCCCTGGTTGATGTGGCT 60.852 57.895 0.00 0.00 0.00 4.75
3842 4104 1.679977 CCCCTGGTTGATGTGGCTG 60.680 63.158 0.00 0.00 0.00 4.85
3843 4105 2.345760 CCCTGGTTGATGTGGCTGC 61.346 63.158 0.00 0.00 0.00 5.25
3844 4106 1.303888 CCTGGTTGATGTGGCTGCT 60.304 57.895 0.00 0.00 0.00 4.24
3845 4107 1.592400 CCTGGTTGATGTGGCTGCTG 61.592 60.000 0.00 0.00 0.00 4.41
3846 4108 1.592400 CTGGTTGATGTGGCTGCTGG 61.592 60.000 0.00 0.00 0.00 4.85
3847 4109 1.604593 GGTTGATGTGGCTGCTGGT 60.605 57.895 0.00 0.00 0.00 4.00
3848 4110 1.582968 GTTGATGTGGCTGCTGGTG 59.417 57.895 0.00 0.00 0.00 4.17
3849 4111 1.151221 TTGATGTGGCTGCTGGTGT 59.849 52.632 0.00 0.00 0.00 4.16
3850 4112 1.174078 TTGATGTGGCTGCTGGTGTG 61.174 55.000 0.00 0.00 0.00 3.82
3851 4113 2.986306 GATGTGGCTGCTGGTGTGC 61.986 63.158 0.00 0.00 0.00 4.57
3898 4160 4.684134 CACCCCTGGTTGCCCCTG 62.684 72.222 0.00 0.00 31.02 4.45
3903 4165 4.673375 CTGGTTGCCCCTGCTGCT 62.673 66.667 0.00 0.00 38.71 4.24
3904 4166 4.980702 TGGTTGCCCCTGCTGCTG 62.981 66.667 0.00 0.00 38.71 4.41
3905 4167 4.982701 GGTTGCCCCTGCTGCTGT 62.983 66.667 0.00 0.00 38.71 4.40
3906 4168 2.914097 GTTGCCCCTGCTGCTGTT 60.914 61.111 0.00 0.00 38.71 3.16
3907 4169 2.598394 TTGCCCCTGCTGCTGTTC 60.598 61.111 0.00 0.00 38.71 3.18
3908 4170 3.137385 TTGCCCCTGCTGCTGTTCT 62.137 57.895 0.00 0.00 38.71 3.01
3909 4171 3.060615 GCCCCTGCTGCTGTTCTG 61.061 66.667 0.00 0.00 33.53 3.02
3910 4172 3.060615 CCCCTGCTGCTGTTCTGC 61.061 66.667 0.00 0.00 39.73 4.26
3911 4173 2.033757 CCCTGCTGCTGTTCTGCT 59.966 61.111 0.00 0.00 39.95 4.24
3912 4174 2.039405 CCCTGCTGCTGTTCTGCTC 61.039 63.158 0.00 0.00 39.95 4.26
3913 4175 2.039405 CCTGCTGCTGTTCTGCTCC 61.039 63.158 0.00 0.00 39.95 4.70
3914 4176 1.003597 CTGCTGCTGTTCTGCTCCT 60.004 57.895 0.00 0.00 39.95 3.69
3915 4177 1.004080 TGCTGCTGTTCTGCTCCTC 60.004 57.895 0.00 0.00 39.95 3.71
3916 4178 1.744741 GCTGCTGTTCTGCTCCTCC 60.745 63.158 0.00 0.00 36.79 4.30
3917 4179 1.078567 CTGCTGTTCTGCTCCTCCC 60.079 63.158 3.65 0.00 0.00 4.30
3918 4180 2.270527 GCTGTTCTGCTCCTCCCC 59.729 66.667 0.00 0.00 0.00 4.81
3919 4181 2.297129 GCTGTTCTGCTCCTCCCCT 61.297 63.158 0.00 0.00 0.00 4.79
3920 4182 1.904032 CTGTTCTGCTCCTCCCCTC 59.096 63.158 0.00 0.00 0.00 4.30
3921 4183 1.613630 TGTTCTGCTCCTCCCCTCC 60.614 63.158 0.00 0.00 0.00 4.30
3922 4184 1.306568 GTTCTGCTCCTCCCCTCCT 60.307 63.158 0.00 0.00 0.00 3.69
3923 4185 0.032017 GTTCTGCTCCTCCCCTCCTA 60.032 60.000 0.00 0.00 0.00 2.94
3924 4186 0.944999 TTCTGCTCCTCCCCTCCTAT 59.055 55.000 0.00 0.00 0.00 2.57
3925 4187 0.189574 TCTGCTCCTCCCCTCCTATG 59.810 60.000 0.00 0.00 0.00 2.23
3926 4188 0.835543 CTGCTCCTCCCCTCCTATGG 60.836 65.000 0.00 0.00 0.00 2.74
3927 4189 1.237458 GCTCCTCCCCTCCTATGGT 59.763 63.158 0.00 0.00 0.00 3.55
3928 4190 1.124477 GCTCCTCCCCTCCTATGGTG 61.124 65.000 0.00 0.00 0.00 4.17
3929 4191 0.266152 CTCCTCCCCTCCTATGGTGT 59.734 60.000 0.00 0.00 0.00 4.16
3930 4192 0.031111 TCCTCCCCTCCTATGGTGTG 60.031 60.000 0.00 0.00 0.00 3.82
3931 4193 1.700042 CCTCCCCTCCTATGGTGTGC 61.700 65.000 0.00 0.00 0.00 4.57
3932 4194 0.692419 CTCCCCTCCTATGGTGTGCT 60.692 60.000 0.00 0.00 0.00 4.40
3933 4195 0.691078 TCCCCTCCTATGGTGTGCTC 60.691 60.000 0.00 0.00 0.00 4.26
3934 4196 1.700042 CCCCTCCTATGGTGTGCTCC 61.700 65.000 0.00 0.00 0.00 4.70
3935 4197 0.692419 CCCTCCTATGGTGTGCTCCT 60.692 60.000 0.00 0.00 0.00 3.69
3936 4198 0.755686 CCTCCTATGGTGTGCTCCTC 59.244 60.000 0.00 0.00 0.00 3.71
3937 4199 0.755686 CTCCTATGGTGTGCTCCTCC 59.244 60.000 0.00 0.00 0.00 4.30
3938 4200 0.691078 TCCTATGGTGTGCTCCTCCC 60.691 60.000 0.00 0.00 0.00 4.30
3939 4201 1.700042 CCTATGGTGTGCTCCTCCCC 61.700 65.000 0.00 0.00 0.00 4.81
3940 4202 0.692419 CTATGGTGTGCTCCTCCCCT 60.692 60.000 0.00 0.00 0.00 4.79
3941 4203 0.691078 TATGGTGTGCTCCTCCCCTC 60.691 60.000 0.00 0.00 0.00 4.30
3942 4204 3.403558 GGTGTGCTCCTCCCCTCC 61.404 72.222 0.00 0.00 0.00 4.30
3943 4205 2.284995 GTGTGCTCCTCCCCTCCT 60.285 66.667 0.00 0.00 0.00 3.69
3944 4206 2.039624 TGTGCTCCTCCCCTCCTC 59.960 66.667 0.00 0.00 0.00 3.71
3945 4207 2.766229 GTGCTCCTCCCCTCCTCC 60.766 72.222 0.00 0.00 0.00 4.30
3946 4208 4.095400 TGCTCCTCCCCTCCTCCC 62.095 72.222 0.00 0.00 0.00 4.30
3947 4209 3.773154 GCTCCTCCCCTCCTCCCT 61.773 72.222 0.00 0.00 0.00 4.20
3948 4210 3.124088 CTCCTCCCCTCCTCCCTT 58.876 66.667 0.00 0.00 0.00 3.95
3949 4211 1.383803 CTCCTCCCCTCCTCCCTTG 60.384 68.421 0.00 0.00 0.00 3.61
3950 4212 3.093172 CCTCCCCTCCTCCCTTGC 61.093 72.222 0.00 0.00 0.00 4.01
3951 4213 2.041928 CTCCCCTCCTCCCTTGCT 59.958 66.667 0.00 0.00 0.00 3.91
3952 4214 1.314867 CTCCCCTCCTCCCTTGCTA 59.685 63.158 0.00 0.00 0.00 3.49
3953 4215 1.003051 TCCCCTCCTCCCTTGCTAC 59.997 63.158 0.00 0.00 0.00 3.58
3954 4216 1.003573 CCCCTCCTCCCTTGCTACT 59.996 63.158 0.00 0.00 0.00 2.57
3955 4217 1.341156 CCCCTCCTCCCTTGCTACTG 61.341 65.000 0.00 0.00 0.00 2.74
3956 4218 0.618968 CCCTCCTCCCTTGCTACTGT 60.619 60.000 0.00 0.00 0.00 3.55
3957 4219 0.539051 CCTCCTCCCTTGCTACTGTG 59.461 60.000 0.00 0.00 0.00 3.66
3958 4220 0.107945 CTCCTCCCTTGCTACTGTGC 60.108 60.000 0.00 0.00 0.00 4.57
3959 4221 0.545309 TCCTCCCTTGCTACTGTGCT 60.545 55.000 0.00 0.00 0.00 4.40
3960 4222 0.107945 CCTCCCTTGCTACTGTGCTC 60.108 60.000 0.00 0.00 0.00 4.26
3961 4223 0.107945 CTCCCTTGCTACTGTGCTCC 60.108 60.000 0.00 0.00 0.00 4.70
3962 4224 0.545309 TCCCTTGCTACTGTGCTCCT 60.545 55.000 0.00 0.00 0.00 3.69
3963 4225 0.107945 CCCTTGCTACTGTGCTCCTC 60.108 60.000 0.00 0.00 0.00 3.71
3964 4226 0.107945 CCTTGCTACTGTGCTCCTCC 60.108 60.000 0.00 0.00 0.00 4.30
3965 4227 0.107945 CTTGCTACTGTGCTCCTCCC 60.108 60.000 0.00 0.00 0.00 4.30
3966 4228 1.553690 TTGCTACTGTGCTCCTCCCC 61.554 60.000 0.00 0.00 0.00 4.81
3967 4229 1.687493 GCTACTGTGCTCCTCCCCT 60.687 63.158 0.00 0.00 0.00 4.79
3968 4230 1.681486 GCTACTGTGCTCCTCCCCTC 61.681 65.000 0.00 0.00 0.00 4.30
3969 4231 1.001760 TACTGTGCTCCTCCCCTCC 59.998 63.158 0.00 0.00 0.00 4.30
3970 4232 2.531483 TACTGTGCTCCTCCCCTCCC 62.531 65.000 0.00 0.00 0.00 4.30
3971 4233 4.741239 TGTGCTCCTCCCCTCCCC 62.741 72.222 0.00 0.00 0.00 4.81
3972 4234 4.423209 GTGCTCCTCCCCTCCCCT 62.423 72.222 0.00 0.00 0.00 4.79
3973 4235 4.421554 TGCTCCTCCCCTCCCCTG 62.422 72.222 0.00 0.00 0.00 4.45
3975 4237 3.700350 CTCCTCCCCTCCCCTGGT 61.700 72.222 0.00 0.00 0.00 4.00
3976 4238 3.216371 TCCTCCCCTCCCCTGGTT 61.216 66.667 0.00 0.00 0.00 3.67
3977 4239 3.017581 CCTCCCCTCCCCTGGTTG 61.018 72.222 0.00 0.00 0.00 3.77
3978 4240 2.204151 CTCCCCTCCCCTGGTTGT 60.204 66.667 0.00 0.00 0.00 3.32
3979 4241 1.852626 CTCCCCTCCCCTGGTTGTT 60.853 63.158 0.00 0.00 0.00 2.83
3980 4242 2.142292 CTCCCCTCCCCTGGTTGTTG 62.142 65.000 0.00 0.00 0.00 3.33
3981 4243 2.469765 CCCCTCCCCTGGTTGTTGT 61.470 63.158 0.00 0.00 0.00 3.32
3982 4244 1.541672 CCCTCCCCTGGTTGTTGTT 59.458 57.895 0.00 0.00 0.00 2.83
3983 4245 0.539669 CCCTCCCCTGGTTGTTGTTC 60.540 60.000 0.00 0.00 0.00 3.18
3984 4246 0.539669 CCTCCCCTGGTTGTTGTTCC 60.540 60.000 0.00 0.00 0.00 3.62
3985 4247 0.478507 CTCCCCTGGTTGTTGTTCCT 59.521 55.000 0.00 0.00 0.00 3.36
3986 4248 0.184933 TCCCCTGGTTGTTGTTCCTG 59.815 55.000 0.00 0.00 0.00 3.86
3987 4249 1.463553 CCCCTGGTTGTTGTTCCTGC 61.464 60.000 0.00 0.00 0.00 4.85
3988 4250 0.468029 CCCTGGTTGTTGTTCCTGCT 60.468 55.000 0.00 0.00 0.00 4.24
3989 4251 0.670162 CCTGGTTGTTGTTCCTGCTG 59.330 55.000 0.00 0.00 0.00 4.41
3990 4252 1.392589 CTGGTTGTTGTTCCTGCTGT 58.607 50.000 0.00 0.00 0.00 4.40
3991 4253 1.750778 CTGGTTGTTGTTCCTGCTGTT 59.249 47.619 0.00 0.00 0.00 3.16
3992 4254 1.476085 TGGTTGTTGTTCCTGCTGTTG 59.524 47.619 0.00 0.00 0.00 3.33
3993 4255 1.476488 GGTTGTTGTTCCTGCTGTTGT 59.524 47.619 0.00 0.00 0.00 3.32
3994 4256 2.529151 GTTGTTGTTCCTGCTGTTGTG 58.471 47.619 0.00 0.00 0.00 3.33
3995 4257 0.455410 TGTTGTTCCTGCTGTTGTGC 59.545 50.000 0.00 0.00 0.00 4.57
3996 4258 0.740737 GTTGTTCCTGCTGTTGTGCT 59.259 50.000 0.00 0.00 0.00 4.40
3997 4259 1.024271 TTGTTCCTGCTGTTGTGCTC 58.976 50.000 0.00 0.00 0.00 4.26
3998 4260 0.819259 TGTTCCTGCTGTTGTGCTCC 60.819 55.000 0.00 0.00 0.00 4.70
3999 4261 0.536006 GTTCCTGCTGTTGTGCTCCT 60.536 55.000 0.00 0.00 0.00 3.69
4000 4262 0.250467 TTCCTGCTGTTGTGCTCCTC 60.250 55.000 0.00 0.00 0.00 3.71
4001 4263 1.673665 CCTGCTGTTGTGCTCCTCC 60.674 63.158 0.00 0.00 0.00 4.30
4002 4264 1.673665 CTGCTGTTGTGCTCCTCCC 60.674 63.158 0.00 0.00 0.00 4.30
4003 4265 2.360475 GCTGTTGTGCTCCTCCCC 60.360 66.667 0.00 0.00 0.00 4.81
4004 4266 2.900106 GCTGTTGTGCTCCTCCCCT 61.900 63.158 0.00 0.00 0.00 4.79
4005 4267 1.298014 CTGTTGTGCTCCTCCCCTC 59.702 63.158 0.00 0.00 0.00 4.30
4006 4268 2.190488 CTGTTGTGCTCCTCCCCTCC 62.190 65.000 0.00 0.00 0.00 4.30
4007 4269 1.920835 GTTGTGCTCCTCCCCTCCT 60.921 63.158 0.00 0.00 0.00 3.69
4224 4688 4.941263 CGAAAACATTGGGGAGATAAGACA 59.059 41.667 0.00 0.00 0.00 3.41
4226 4690 6.095440 CGAAAACATTGGGGAGATAAGACAAT 59.905 38.462 0.00 0.00 32.43 2.71
4316 4780 8.028938 TGTGCTTTATATGGCTTTTCTTTTCTC 58.971 33.333 0.00 0.00 0.00 2.87
4325 4789 7.823745 TGGCTTTTCTTTTCTCAGTATTCTT 57.176 32.000 0.00 0.00 0.00 2.52
4680 5147 2.026075 TGCCATGACATCTGATTGGTCA 60.026 45.455 11.72 11.72 44.73 4.02
4704 5171 0.540365 CCCCACCTGAAAGCACACAT 60.540 55.000 0.00 0.00 0.00 3.21
4963 5438 2.358737 GCCTCCACCGGAAGTGTG 60.359 66.667 9.46 0.00 45.74 3.82
5154 5629 3.561120 TTACTGTTGGCGCCCCCAG 62.561 63.158 30.32 30.32 46.39 4.45
5513 6115 3.134623 ACAATCTGATTCCGTAGCCATCA 59.865 43.478 0.00 0.00 0.00 3.07
5514 6116 4.202398 ACAATCTGATTCCGTAGCCATCAT 60.202 41.667 0.00 0.00 0.00 2.45
5515 6117 3.667497 TCTGATTCCGTAGCCATCATC 57.333 47.619 0.00 0.00 0.00 2.92
5636 6261 0.611896 TGTGCCATCAGTCTCCTCGA 60.612 55.000 0.00 0.00 0.00 4.04
5688 6313 1.760613 TCAGAGGTTTTGTCGACCACT 59.239 47.619 14.12 3.70 38.41 4.00
5692 6317 2.014128 AGGTTTTGTCGACCACTGTTG 58.986 47.619 14.12 0.00 39.71 3.33
5698 6323 2.004017 TGTCGACCACTGTTGAAACAC 58.996 47.619 14.12 0.00 36.64 3.32
5805 6430 5.918426 ATCATGTTGTGCATATGGTTTGA 57.082 34.783 4.56 0.00 35.74 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 3.731728 GCATGGTGGCAGAGGGGA 61.732 66.667 0.00 0.00 0.00 4.81
521 704 9.362151 CAGATTTGCCCCTAATTTTTAGGTATA 57.638 33.333 11.37 0.00 32.88 1.47
549 732 2.167900 GCCACTAACTCGAACCCACTAT 59.832 50.000 0.00 0.00 0.00 2.12
607 790 5.372547 AAAGGCACGAGAAAAATCCTTAC 57.627 39.130 0.00 0.00 33.91 2.34
608 791 5.300792 ACAAAAGGCACGAGAAAAATCCTTA 59.699 36.000 0.00 0.00 33.91 2.69
609 792 4.099419 ACAAAAGGCACGAGAAAAATCCTT 59.901 37.500 0.00 0.00 35.63 3.36
611 794 3.977427 ACAAAAGGCACGAGAAAAATCC 58.023 40.909 0.00 0.00 0.00 3.01
614 797 2.793237 GCGACAAAAGGCACGAGAAAAA 60.793 45.455 0.00 0.00 0.00 1.94
1122 1319 0.541863 GAAAGGGGAGAGAATGCGGA 59.458 55.000 0.00 0.00 0.00 5.54
1286 1484 1.639298 GCCAGCAGCTACTTCAACCG 61.639 60.000 0.00 0.00 38.99 4.44
1317 1515 4.035675 CCAGTAGCAAACCTAGCAATTAGC 59.964 45.833 0.00 0.00 46.19 3.09
1318 1516 4.035675 GCCAGTAGCAAACCTAGCAATTAG 59.964 45.833 0.00 0.00 42.97 1.73
1319 1517 3.945285 GCCAGTAGCAAACCTAGCAATTA 59.055 43.478 0.00 0.00 42.97 1.40
1320 1518 2.755103 GCCAGTAGCAAACCTAGCAATT 59.245 45.455 0.00 0.00 42.97 2.32
1321 1519 2.369394 GCCAGTAGCAAACCTAGCAAT 58.631 47.619 0.00 0.00 42.97 3.56
1322 1520 1.821216 GCCAGTAGCAAACCTAGCAA 58.179 50.000 0.00 0.00 42.97 3.91
1421 1633 9.137459 ACACATGAATCACTAGCTAATACTACT 57.863 33.333 0.00 0.00 0.00 2.57
1537 1750 6.598064 AGCTAAGTAACAACCAATTAAGCGAT 59.402 34.615 0.00 0.00 0.00 4.58
1539 1752 6.178239 AGCTAAGTAACAACCAATTAAGCG 57.822 37.500 0.00 0.00 0.00 4.68
1715 1932 8.294954 TCTCTGGGTTTGTAATTGTGTAAAAA 57.705 30.769 0.00 0.00 0.00 1.94
1776 2021 3.987868 GAGTGTAGCGATGAACTGAAACA 59.012 43.478 0.00 0.00 0.00 2.83
1859 2108 3.368843 GCAAATGCATGGAACTGCTTTAC 59.631 43.478 14.24 0.00 42.75 2.01
2220 2475 8.120465 CCTAATGTAACTTACTTGCCGTTAATG 58.880 37.037 0.71 0.00 0.00 1.90
2329 2588 9.846248 GAAATGTCTGAATAAAATACTTGCAGT 57.154 29.630 0.00 0.00 0.00 4.40
2621 2880 6.173339 TGAACTGACTATGATTGAAGGGTTC 58.827 40.000 0.00 0.00 0.00 3.62
2814 3073 1.268234 GCCGTCATGCTTACAGAATGC 60.268 52.381 0.00 0.00 42.53 3.56
2924 3183 2.026822 CACCTTCTACATGCCTCACCTT 60.027 50.000 0.00 0.00 0.00 3.50
2994 3253 2.109181 GGCCCCTACGCAGCTTAG 59.891 66.667 0.00 0.00 0.00 2.18
2996 3255 2.499303 AATTGGCCCCTACGCAGCTT 62.499 55.000 0.00 0.00 0.00 3.74
2997 3256 2.893682 GAATTGGCCCCTACGCAGCT 62.894 60.000 0.00 0.00 0.00 4.24
3014 3273 0.631753 TTGGGGGACTTTGTGGTGAA 59.368 50.000 0.00 0.00 0.00 3.18
3824 4086 1.679977 CAGCCACATCAACCAGGGG 60.680 63.158 0.00 0.00 0.00 4.79
3825 4087 2.345760 GCAGCCACATCAACCAGGG 61.346 63.158 0.00 0.00 0.00 4.45
3826 4088 1.303888 AGCAGCCACATCAACCAGG 60.304 57.895 0.00 0.00 0.00 4.45
3827 4089 1.592400 CCAGCAGCCACATCAACCAG 61.592 60.000 0.00 0.00 0.00 4.00
3828 4090 1.604308 CCAGCAGCCACATCAACCA 60.604 57.895 0.00 0.00 0.00 3.67
3829 4091 1.604593 ACCAGCAGCCACATCAACC 60.605 57.895 0.00 0.00 0.00 3.77
3830 4092 1.174712 ACACCAGCAGCCACATCAAC 61.175 55.000 0.00 0.00 0.00 3.18
3831 4093 1.151221 ACACCAGCAGCCACATCAA 59.849 52.632 0.00 0.00 0.00 2.57
3832 4094 1.601477 CACACCAGCAGCCACATCA 60.601 57.895 0.00 0.00 0.00 3.07
3833 4095 2.986306 GCACACCAGCAGCCACATC 61.986 63.158 0.00 0.00 0.00 3.06
3834 4096 2.987547 GCACACCAGCAGCCACAT 60.988 61.111 0.00 0.00 0.00 3.21
3889 4151 2.914097 AACAGCAGCAGGGGCAAC 60.914 61.111 0.00 0.00 44.61 4.17
3890 4152 2.598394 GAACAGCAGCAGGGGCAA 60.598 61.111 0.00 0.00 44.61 4.52
3891 4153 3.573229 AGAACAGCAGCAGGGGCA 61.573 61.111 0.00 0.00 44.61 5.36
3892 4154 3.060615 CAGAACAGCAGCAGGGGC 61.061 66.667 0.00 0.00 41.61 5.80
3893 4155 3.060615 GCAGAACAGCAGCAGGGG 61.061 66.667 0.00 0.00 0.00 4.79
3894 4156 2.033757 AGCAGAACAGCAGCAGGG 59.966 61.111 0.00 0.00 36.85 4.45
3895 4157 2.039405 GGAGCAGAACAGCAGCAGG 61.039 63.158 0.00 0.00 36.85 4.85
3896 4158 1.003597 AGGAGCAGAACAGCAGCAG 60.004 57.895 0.00 0.00 36.85 4.24
3897 4159 1.004080 GAGGAGCAGAACAGCAGCA 60.004 57.895 0.00 0.00 36.85 4.41
3898 4160 1.744741 GGAGGAGCAGAACAGCAGC 60.745 63.158 0.00 0.00 36.85 5.25
3899 4161 1.078567 GGGAGGAGCAGAACAGCAG 60.079 63.158 0.00 0.00 36.85 4.24
3900 4162 2.596851 GGGGAGGAGCAGAACAGCA 61.597 63.158 0.00 0.00 36.85 4.41
3901 4163 2.250741 GAGGGGAGGAGCAGAACAGC 62.251 65.000 0.00 0.00 0.00 4.40
3902 4164 1.621672 GGAGGGGAGGAGCAGAACAG 61.622 65.000 0.00 0.00 0.00 3.16
3903 4165 1.613630 GGAGGGGAGGAGCAGAACA 60.614 63.158 0.00 0.00 0.00 3.18
3904 4166 0.032017 TAGGAGGGGAGGAGCAGAAC 60.032 60.000 0.00 0.00 0.00 3.01
3905 4167 0.944999 ATAGGAGGGGAGGAGCAGAA 59.055 55.000 0.00 0.00 0.00 3.02
3906 4168 0.189574 CATAGGAGGGGAGGAGCAGA 59.810 60.000 0.00 0.00 0.00 4.26
3907 4169 0.835543 CCATAGGAGGGGAGGAGCAG 60.836 65.000 0.00 0.00 0.00 4.24
3908 4170 1.237163 CCATAGGAGGGGAGGAGCA 59.763 63.158 0.00 0.00 0.00 4.26
3909 4171 1.124477 CACCATAGGAGGGGAGGAGC 61.124 65.000 0.00 0.00 32.15 4.70
3910 4172 0.266152 ACACCATAGGAGGGGAGGAG 59.734 60.000 0.00 0.00 34.94 3.69
3911 4173 0.031111 CACACCATAGGAGGGGAGGA 60.031 60.000 0.00 0.00 34.94 3.71
3912 4174 1.700042 GCACACCATAGGAGGGGAGG 61.700 65.000 0.00 0.00 34.94 4.30
3913 4175 0.692419 AGCACACCATAGGAGGGGAG 60.692 60.000 0.00 0.00 34.94 4.30
3914 4176 0.691078 GAGCACACCATAGGAGGGGA 60.691 60.000 0.00 0.00 34.94 4.81
3915 4177 1.700042 GGAGCACACCATAGGAGGGG 61.700 65.000 0.00 0.00 38.34 4.79
3916 4178 0.692419 AGGAGCACACCATAGGAGGG 60.692 60.000 0.00 0.00 0.00 4.30
3917 4179 0.755686 GAGGAGCACACCATAGGAGG 59.244 60.000 0.00 0.00 0.00 4.30
3918 4180 0.755686 GGAGGAGCACACCATAGGAG 59.244 60.000 0.00 0.00 0.00 3.69
3919 4181 0.691078 GGGAGGAGCACACCATAGGA 60.691 60.000 0.00 0.00 0.00 2.94
3920 4182 1.700042 GGGGAGGAGCACACCATAGG 61.700 65.000 0.00 0.00 0.00 2.57
3921 4183 0.692419 AGGGGAGGAGCACACCATAG 60.692 60.000 0.00 0.00 0.00 2.23
3922 4184 0.691078 GAGGGGAGGAGCACACCATA 60.691 60.000 0.00 0.00 0.00 2.74
3923 4185 1.997874 GAGGGGAGGAGCACACCAT 60.998 63.158 0.00 0.00 0.00 3.55
3924 4186 2.607750 GAGGGGAGGAGCACACCA 60.608 66.667 0.00 0.00 0.00 4.17
3925 4187 3.403558 GGAGGGGAGGAGCACACC 61.404 72.222 0.00 0.00 0.00 4.16
3926 4188 2.284995 AGGAGGGGAGGAGCACAC 60.285 66.667 0.00 0.00 0.00 3.82
3927 4189 2.039624 GAGGAGGGGAGGAGCACA 59.960 66.667 0.00 0.00 0.00 4.57
3928 4190 2.766229 GGAGGAGGGGAGGAGCAC 60.766 72.222 0.00 0.00 0.00 4.40
3929 4191 4.095400 GGGAGGAGGGGAGGAGCA 62.095 72.222 0.00 0.00 0.00 4.26
3930 4192 3.339951 AAGGGAGGAGGGGAGGAGC 62.340 68.421 0.00 0.00 0.00 4.70
3931 4193 1.383803 CAAGGGAGGAGGGGAGGAG 60.384 68.421 0.00 0.00 0.00 3.69
3932 4194 2.787866 CAAGGGAGGAGGGGAGGA 59.212 66.667 0.00 0.00 0.00 3.71
3933 4195 2.257541 TAGCAAGGGAGGAGGGGAGG 62.258 65.000 0.00 0.00 0.00 4.30
3934 4196 1.051556 GTAGCAAGGGAGGAGGGGAG 61.052 65.000 0.00 0.00 0.00 4.30
3935 4197 1.003051 GTAGCAAGGGAGGAGGGGA 59.997 63.158 0.00 0.00 0.00 4.81
3936 4198 1.003573 AGTAGCAAGGGAGGAGGGG 59.996 63.158 0.00 0.00 0.00 4.79
3937 4199 0.618968 ACAGTAGCAAGGGAGGAGGG 60.619 60.000 0.00 0.00 0.00 4.30
3938 4200 0.539051 CACAGTAGCAAGGGAGGAGG 59.461 60.000 0.00 0.00 0.00 4.30
3939 4201 0.107945 GCACAGTAGCAAGGGAGGAG 60.108 60.000 0.00 0.00 0.00 3.69
3940 4202 0.545309 AGCACAGTAGCAAGGGAGGA 60.545 55.000 0.00 0.00 36.85 3.71
3941 4203 0.107945 GAGCACAGTAGCAAGGGAGG 60.108 60.000 0.00 0.00 36.85 4.30
3942 4204 0.107945 GGAGCACAGTAGCAAGGGAG 60.108 60.000 0.00 0.00 36.85 4.30
3943 4205 0.545309 AGGAGCACAGTAGCAAGGGA 60.545 55.000 0.00 0.00 36.85 4.20
3944 4206 0.107945 GAGGAGCACAGTAGCAAGGG 60.108 60.000 0.00 0.00 36.85 3.95
3945 4207 0.107945 GGAGGAGCACAGTAGCAAGG 60.108 60.000 0.00 0.00 36.85 3.61
3946 4208 0.107945 GGGAGGAGCACAGTAGCAAG 60.108 60.000 0.00 0.00 36.85 4.01
3947 4209 1.553690 GGGGAGGAGCACAGTAGCAA 61.554 60.000 0.00 0.00 36.85 3.91
3948 4210 1.990060 GGGGAGGAGCACAGTAGCA 60.990 63.158 0.00 0.00 36.85 3.49
3949 4211 1.681486 GAGGGGAGGAGCACAGTAGC 61.681 65.000 0.00 0.00 0.00 3.58
3950 4212 1.045911 GGAGGGGAGGAGCACAGTAG 61.046 65.000 0.00 0.00 0.00 2.57
3951 4213 1.001760 GGAGGGGAGGAGCACAGTA 59.998 63.158 0.00 0.00 0.00 2.74
3952 4214 2.284995 GGAGGGGAGGAGCACAGT 60.285 66.667 0.00 0.00 0.00 3.55
3953 4215 3.086600 GGGAGGGGAGGAGCACAG 61.087 72.222 0.00 0.00 0.00 3.66
3954 4216 4.741239 GGGGAGGGGAGGAGCACA 62.741 72.222 0.00 0.00 0.00 4.57
3955 4217 4.423209 AGGGGAGGGGAGGAGCAC 62.423 72.222 0.00 0.00 0.00 4.40
3956 4218 4.421554 CAGGGGAGGGGAGGAGCA 62.422 72.222 0.00 0.00 0.00 4.26
3958 4220 3.274550 AACCAGGGGAGGGGAGGAG 62.275 68.421 0.00 0.00 0.00 3.69
3959 4221 3.216371 AACCAGGGGAGGGGAGGA 61.216 66.667 0.00 0.00 0.00 3.71
3960 4222 3.017581 CAACCAGGGGAGGGGAGG 61.018 72.222 0.00 0.00 0.00 4.30
3961 4223 1.852626 AACAACCAGGGGAGGGGAG 60.853 63.158 0.00 0.00 0.00 4.30
3962 4224 2.160171 CAACAACCAGGGGAGGGGA 61.160 63.158 0.00 0.00 0.00 4.81
3963 4225 2.018884 AACAACAACCAGGGGAGGGG 62.019 60.000 0.00 0.00 0.00 4.79
3964 4226 0.539669 GAACAACAACCAGGGGAGGG 60.540 60.000 0.00 0.00 0.00 4.30
3965 4227 0.539669 GGAACAACAACCAGGGGAGG 60.540 60.000 0.00 0.00 0.00 4.30
3966 4228 0.478507 AGGAACAACAACCAGGGGAG 59.521 55.000 0.00 0.00 0.00 4.30
3967 4229 0.184933 CAGGAACAACAACCAGGGGA 59.815 55.000 0.00 0.00 0.00 4.81
3968 4230 1.463553 GCAGGAACAACAACCAGGGG 61.464 60.000 0.00 0.00 0.00 4.79
3969 4231 0.468029 AGCAGGAACAACAACCAGGG 60.468 55.000 0.00 0.00 0.00 4.45
3970 4232 0.670162 CAGCAGGAACAACAACCAGG 59.330 55.000 0.00 0.00 0.00 4.45
3971 4233 1.392589 ACAGCAGGAACAACAACCAG 58.607 50.000 0.00 0.00 0.00 4.00
3972 4234 1.476085 CAACAGCAGGAACAACAACCA 59.524 47.619 0.00 0.00 0.00 3.67
3973 4235 1.476488 ACAACAGCAGGAACAACAACC 59.524 47.619 0.00 0.00 0.00 3.77
3974 4236 2.529151 CACAACAGCAGGAACAACAAC 58.471 47.619 0.00 0.00 0.00 3.32
3975 4237 1.135141 GCACAACAGCAGGAACAACAA 60.135 47.619 0.00 0.00 0.00 2.83
3976 4238 0.455410 GCACAACAGCAGGAACAACA 59.545 50.000 0.00 0.00 0.00 3.33
3977 4239 0.740737 AGCACAACAGCAGGAACAAC 59.259 50.000 0.00 0.00 36.85 3.32
3978 4240 1.024271 GAGCACAACAGCAGGAACAA 58.976 50.000 0.00 0.00 36.85 2.83
3979 4241 0.819259 GGAGCACAACAGCAGGAACA 60.819 55.000 0.00 0.00 36.85 3.18
3980 4242 0.536006 AGGAGCACAACAGCAGGAAC 60.536 55.000 0.00 0.00 36.85 3.62
3981 4243 0.250467 GAGGAGCACAACAGCAGGAA 60.250 55.000 0.00 0.00 36.85 3.36
3982 4244 1.372683 GAGGAGCACAACAGCAGGA 59.627 57.895 0.00 0.00 36.85 3.86
3983 4245 1.673665 GGAGGAGCACAACAGCAGG 60.674 63.158 0.00 0.00 36.85 4.85
3984 4246 1.673665 GGGAGGAGCACAACAGCAG 60.674 63.158 0.00 0.00 36.85 4.24
3985 4247 2.431683 GGGAGGAGCACAACAGCA 59.568 61.111 0.00 0.00 36.85 4.41
3986 4248 2.360475 GGGGAGGAGCACAACAGC 60.360 66.667 0.00 0.00 0.00 4.40
3987 4249 1.298014 GAGGGGAGGAGCACAACAG 59.702 63.158 0.00 0.00 0.00 3.16
3988 4250 2.224159 GGAGGGGAGGAGCACAACA 61.224 63.158 0.00 0.00 0.00 3.33
3989 4251 1.904990 GAGGAGGGGAGGAGCACAAC 61.905 65.000 0.00 0.00 0.00 3.32
3990 4252 1.613630 GAGGAGGGGAGGAGCACAA 60.614 63.158 0.00 0.00 0.00 3.33
3991 4253 2.039624 GAGGAGGGGAGGAGCACA 59.960 66.667 0.00 0.00 0.00 4.57
3992 4254 2.766229 GGAGGAGGGGAGGAGCAC 60.766 72.222 0.00 0.00 0.00 4.40
3993 4255 4.095400 GGGAGGAGGGGAGGAGCA 62.095 72.222 0.00 0.00 0.00 4.26
3994 4256 4.890306 GGGGAGGAGGGGAGGAGC 62.890 77.778 0.00 0.00 0.00 4.70
3995 4257 3.039526 AGGGGAGGAGGGGAGGAG 61.040 72.222 0.00 0.00 0.00 3.69
3996 4258 3.368501 CAGGGGAGGAGGGGAGGA 61.369 72.222 0.00 0.00 0.00 3.71
3997 4259 4.505970 CCAGGGGAGGAGGGGAGG 62.506 77.778 0.00 0.00 0.00 4.30
3998 4260 3.274550 AACCAGGGGAGGAGGGGAG 62.275 68.421 0.00 0.00 0.00 4.30
3999 4261 3.216371 AACCAGGGGAGGAGGGGA 61.216 66.667 0.00 0.00 0.00 4.81
4000 4262 2.865183 ATCAACCAGGGGAGGAGGGG 62.865 65.000 0.00 0.00 0.00 4.79
4001 4263 1.308216 ATCAACCAGGGGAGGAGGG 60.308 63.158 0.00 0.00 0.00 4.30
4002 4264 0.916358 ACATCAACCAGGGGAGGAGG 60.916 60.000 2.41 0.00 0.00 4.30
4003 4265 0.254178 CACATCAACCAGGGGAGGAG 59.746 60.000 2.41 0.00 0.00 3.69
4004 4266 1.207488 CCACATCAACCAGGGGAGGA 61.207 60.000 2.41 0.00 0.00 3.71
4005 4267 1.304282 CCACATCAACCAGGGGAGG 59.696 63.158 0.00 0.00 0.00 4.30
4006 4268 1.379044 GCCACATCAACCAGGGGAG 60.379 63.158 0.00 0.00 0.00 4.30
4007 4269 1.852157 AGCCACATCAACCAGGGGA 60.852 57.895 0.00 0.00 0.00 4.81
4224 4688 6.648192 TGTGTTTTCTTTGGAATTGACCATT 58.352 32.000 0.00 0.00 39.82 3.16
4226 4690 5.667539 TGTGTTTTCTTTGGAATTGACCA 57.332 34.783 0.00 0.00 38.24 4.02
4316 4780 7.915397 ACAAACAAGTTAGCAACAAGAATACTG 59.085 33.333 0.00 0.00 0.00 2.74
4325 4789 2.691011 GGGGACAAACAAGTTAGCAACA 59.309 45.455 0.00 0.00 0.00 3.33
4680 5147 2.437897 CTTTCAGGTGGGGCAGCT 59.562 61.111 0.00 0.00 43.33 4.24
4683 5150 2.203480 GTGCTTTCAGGTGGGGCA 60.203 61.111 0.00 0.00 0.00 5.36
4684 5151 2.203480 TGTGCTTTCAGGTGGGGC 60.203 61.111 0.00 0.00 0.00 5.80
4692 5159 6.631971 TCTTCAACATTATGTGTGCTTTCA 57.368 33.333 0.00 0.00 41.14 2.69
4704 5171 3.689161 CGTCCATTGGCTCTTCAACATTA 59.311 43.478 0.00 0.00 0.00 1.90
4963 5438 7.672983 TTCTCAATCCATCAAAAGTAGACAC 57.327 36.000 0.00 0.00 0.00 3.67
5134 5609 2.349755 GGGGCGCCAACAGTAAGA 59.650 61.111 30.85 0.00 0.00 2.10
5154 5629 9.139174 CACCAACAATACCAGATCAAATTAAAC 57.861 33.333 0.00 0.00 0.00 2.01
5396 5998 4.857871 CATTTCAATGCAAGCTTGATGG 57.142 40.909 30.39 16.73 32.94 3.51
5636 6261 2.228822 GCGAAGTTGGATGTGGTTCATT 59.771 45.455 0.00 0.00 36.83 2.57
5698 6323 4.034048 GCAAGATATCAAACACACCCTACG 59.966 45.833 5.32 0.00 0.00 3.51
5716 6341 2.955609 GGGGGAAAACGATGCAAGA 58.044 52.632 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.