Multiple sequence alignment - TraesCS7A01G521600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7A01G521600 chr7A 100.000 4843 0 0 1 4843 705292749 705297591 0.000000e+00 8944.0
1 TraesCS7A01G521600 chr7A 82.033 718 88 21 4145 4841 705332802 705332105 1.510000e-159 573.0
2 TraesCS7A01G521600 chr7A 84.739 249 21 8 3337 3568 705307003 705307251 2.910000e-57 233.0
3 TraesCS7A01G521600 chr7B 87.043 2022 166 54 2431 4412 704626371 704628336 0.000000e+00 2194.0
4 TraesCS7A01G521600 chr7B 89.223 798 66 13 2540 3334 728932521 728933301 0.000000e+00 979.0
5 TraesCS7A01G521600 chr7B 87.124 699 64 8 4144 4841 728933583 728934256 0.000000e+00 769.0
6 TraesCS7A01G521600 chr7B 85.896 709 88 8 4145 4843 704318394 704317688 0.000000e+00 745.0
7 TraesCS7A01G521600 chr7B 84.276 725 77 14 4144 4843 704289391 704290103 0.000000e+00 673.0
8 TraesCS7A01G521600 chr7B 87.153 576 73 1 4266 4841 704547808 704548382 0.000000e+00 652.0
9 TraesCS7A01G521600 chr7B 82.524 721 88 23 4145 4841 704637673 704636967 2.490000e-167 599.0
10 TraesCS7A01G521600 chr7B 89.315 365 17 6 920 1267 704625218 704625577 5.750000e-119 438.0
11 TraesCS7A01G521600 chr7B 81.062 565 78 18 3472 4009 704288524 704289086 1.610000e-114 424.0
12 TraesCS7A01G521600 chr7B 94.059 101 6 0 3360 3460 728933374 728933474 2.330000e-33 154.0
13 TraesCS7A01G521600 chr7B 86.667 105 14 0 1928 2032 704625946 704626050 3.060000e-22 117.0
14 TraesCS7A01G521600 chr7B 81.818 110 18 2 2013 2122 642780166 642780059 1.860000e-14 91.6
15 TraesCS7A01G521600 chr7D 87.443 1760 116 42 2439 4191 613636826 613638487 0.000000e+00 1929.0
16 TraesCS7A01G521600 chr7D 88.550 1310 107 25 918 2205 613634437 613635725 0.000000e+00 1548.0
17 TraesCS7A01G521600 chr7D 90.602 798 57 10 2540 3334 627447009 627447791 0.000000e+00 1042.0
18 TraesCS7A01G521600 chr7D 92.593 621 40 4 3336 3955 627447859 627448474 0.000000e+00 887.0
19 TraesCS7A01G521600 chr7D 89.518 706 60 5 4144 4841 627449592 627450291 0.000000e+00 881.0
20 TraesCS7A01G521600 chr7D 87.447 709 76 12 4144 4843 613626100 613626804 0.000000e+00 804.0
21 TraesCS7A01G521600 chr7D 87.551 490 58 1 4352 4841 613661525 613661039 9.100000e-157 564.0
22 TraesCS7A01G521600 chr7D 93.064 346 20 2 4193 4538 613649381 613649722 2.010000e-138 503.0
23 TraesCS7A01G521600 chr7D 81.640 561 78 13 3472 4009 613625312 613625870 4.450000e-120 442.0
24 TraesCS7A01G521600 chr7D 93.671 158 10 0 3164 3321 613650463 613650620 2.250000e-58 237.0
25 TraesCS7A01G521600 chr7D 73.946 261 50 12 1857 2111 185352205 185351957 6.680000e-14 89.8
26 TraesCS7A01G521600 chr7D 92.453 53 4 0 2055 2107 632805221 632805169 5.200000e-10 76.8
27 TraesCS7A01G521600 chr3B 89.223 798 45 9 124 890 776030183 776030970 0.000000e+00 959.0
28 TraesCS7A01G521600 chr3B 92.079 404 29 2 124 526 51966977 51966576 2.530000e-157 566.0
29 TraesCS7A01G521600 chr3B 92.479 359 18 3 527 884 51966545 51966195 5.590000e-139 505.0
30 TraesCS7A01G521600 chr3B 84.587 545 37 12 1 520 741653959 741653437 9.360000e-137 497.0
31 TraesCS7A01G521600 chr3B 94.257 296 15 2 1 296 51967805 51967512 7.390000e-123 451.0
32 TraesCS7A01G521600 chr3B 76.948 616 106 24 2688 3295 739841019 739841606 7.820000e-83 318.0
33 TraesCS7A01G521600 chr3B 92.453 53 3 1 563 615 741653294 741653243 1.870000e-09 75.0
34 TraesCS7A01G521600 chr4B 89.086 788 52 15 124 887 613015872 613015095 0.000000e+00 948.0
35 TraesCS7A01G521600 chr1B 87.622 719 46 19 201 887 634164012 634163305 0.000000e+00 795.0
36 TraesCS7A01G521600 chr1B 95.480 177 8 0 1 177 634168483 634168307 2.850000e-72 283.0
37 TraesCS7A01G521600 chr1B 74.638 276 50 14 1852 2119 523223145 523222882 2.380000e-18 104.0
38 TraesCS7A01G521600 chr1B 73.930 257 56 5 1855 2111 404507165 404507410 5.160000e-15 93.5
39 TraesCS7A01G521600 chr1B 73.946 261 50 12 1855 2110 593714226 593713979 6.680000e-14 89.8
40 TraesCS7A01G521600 chr2B 91.396 523 27 3 1 523 53729343 53729847 0.000000e+00 701.0
41 TraesCS7A01G521600 chr2B 90.822 523 30 3 1 523 53730995 53731499 0.000000e+00 684.0
42 TraesCS7A01G521600 chr2B 93.132 364 18 3 524 887 53731530 53731886 1.190000e-145 527.0
43 TraesCS7A01G521600 chr2B 92.055 365 20 3 524 887 53754694 53755050 5.590000e-139 505.0
44 TraesCS7A01G521600 chr2B 87.444 446 42 8 442 887 53729803 53730234 7.240000e-138 501.0
45 TraesCS7A01G521600 chr2B 76.823 617 105 26 2688 3295 706585872 706586459 3.640000e-81 313.0
46 TraesCS7A01G521600 chr2B 95.312 64 3 0 524 587 53781809 53781872 8.580000e-18 102.0
47 TraesCS7A01G521600 chr2B 73.646 277 48 23 1861 2119 171095350 171095081 3.110000e-12 84.2
48 TraesCS7A01G521600 chr5B 92.574 404 27 2 124 526 269953882 269953481 1.170000e-160 577.0
49 TraesCS7A01G521600 chr5B 91.870 369 21 3 527 894 269953450 269953090 1.560000e-139 507.0
50 TraesCS7A01G521600 chr5B 73.063 271 56 12 1855 2119 440279326 440279585 4.020000e-11 80.5
51 TraesCS7A01G521600 chr1A 92.519 401 27 3 124 523 61117861 61118259 5.440000e-159 571.0
52 TraesCS7A01G521600 chr1A 87.921 505 34 10 402 887 61118369 61118865 1.960000e-158 569.0
53 TraesCS7A01G521600 chr1A 94.595 296 14 1 1 296 61117033 61117326 1.590000e-124 457.0
54 TraesCS7A01G521600 chr2D 77.813 631 103 24 2688 3309 575269118 575268516 5.960000e-94 355.0
55 TraesCS7A01G521600 chr2D 77.310 617 102 23 2688 3295 263422928 263422341 3.610000e-86 329.0
56 TraesCS7A01G521600 chr2D 81.423 253 42 3 2689 2940 118382229 118381981 8.220000e-48 202.0
57 TraesCS7A01G521600 chr4D 77.524 614 100 23 2688 3292 264462371 264462955 7.770000e-88 335.0
58 TraesCS7A01G521600 chr6A 76.710 614 111 22 2688 3295 526164073 526163486 3.640000e-81 313.0
59 TraesCS7A01G521600 chr4A 76.661 617 106 26 2688 3295 359639336 359638749 1.690000e-79 307.0
60 TraesCS7A01G521600 chr3A 75.172 290 50 16 1854 2135 725153806 725154081 3.060000e-22 117.0
61 TraesCS7A01G521600 chr6B 74.453 274 50 14 1854 2119 715331276 715331015 3.080000e-17 100.0
62 TraesCS7A01G521600 chr6B 83.562 73 12 0 2039 2111 50137175 50137247 8.700000e-08 69.4
63 TraesCS7A01G521600 chr6D 87.671 73 9 0 2039 2111 27425348 27425420 8.640000e-13 86.1


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 TraesCS7A01G521600 chr7A 705292749 705297591 4842 False 8944.000000 8944 100.000000 1 4843 1 chr7A.!!$F1 4842
1 TraesCS7A01G521600 chr7A 705332105 705332802 697 True 573.000000 573 82.033000 4145 4841 1 chr7A.!!$R1 696
2 TraesCS7A01G521600 chr7B 704625218 704628336 3118 False 916.333333 2194 87.675000 920 4412 3 chr7B.!!$F3 3492
3 TraesCS7A01G521600 chr7B 704317688 704318394 706 True 745.000000 745 85.896000 4145 4843 1 chr7B.!!$R2 698
4 TraesCS7A01G521600 chr7B 704547808 704548382 574 False 652.000000 652 87.153000 4266 4841 1 chr7B.!!$F1 575
5 TraesCS7A01G521600 chr7B 728932521 728934256 1735 False 634.000000 979 90.135333 2540 4841 3 chr7B.!!$F4 2301
6 TraesCS7A01G521600 chr7B 704636967 704637673 706 True 599.000000 599 82.524000 4145 4841 1 chr7B.!!$R3 696
7 TraesCS7A01G521600 chr7B 704288524 704290103 1579 False 548.500000 673 82.669000 3472 4843 2 chr7B.!!$F2 1371
8 TraesCS7A01G521600 chr7D 613634437 613638487 4050 False 1738.500000 1929 87.996500 918 4191 2 chr7D.!!$F2 3273
9 TraesCS7A01G521600 chr7D 627447009 627450291 3282 False 936.666667 1042 90.904333 2540 4841 3 chr7D.!!$F4 2301
10 TraesCS7A01G521600 chr7D 613625312 613626804 1492 False 623.000000 804 84.543500 3472 4843 2 chr7D.!!$F1 1371
11 TraesCS7A01G521600 chr7D 613649381 613650620 1239 False 370.000000 503 93.367500 3164 4538 2 chr7D.!!$F3 1374
12 TraesCS7A01G521600 chr3B 776030183 776030970 787 False 959.000000 959 89.223000 124 890 1 chr3B.!!$F2 766
13 TraesCS7A01G521600 chr3B 51966195 51967805 1610 True 507.333333 566 92.938333 1 884 3 chr3B.!!$R1 883
14 TraesCS7A01G521600 chr3B 739841019 739841606 587 False 318.000000 318 76.948000 2688 3295 1 chr3B.!!$F1 607
15 TraesCS7A01G521600 chr3B 741653243 741653959 716 True 286.000000 497 88.520000 1 615 2 chr3B.!!$R2 614
16 TraesCS7A01G521600 chr4B 613015095 613015872 777 True 948.000000 948 89.086000 124 887 1 chr4B.!!$R1 763
17 TraesCS7A01G521600 chr1B 634163305 634164012 707 True 795.000000 795 87.622000 201 887 1 chr1B.!!$R3 686
18 TraesCS7A01G521600 chr2B 53729343 53731886 2543 False 603.250000 701 90.698500 1 887 4 chr2B.!!$F4 886
19 TraesCS7A01G521600 chr2B 706585872 706586459 587 False 313.000000 313 76.823000 2688 3295 1 chr2B.!!$F3 607
20 TraesCS7A01G521600 chr5B 269953090 269953882 792 True 542.000000 577 92.222000 124 894 2 chr5B.!!$R1 770
21 TraesCS7A01G521600 chr1A 61117033 61118865 1832 False 532.333333 571 91.678333 1 887 3 chr1A.!!$F1 886
22 TraesCS7A01G521600 chr2D 575268516 575269118 602 True 355.000000 355 77.813000 2688 3309 1 chr2D.!!$R3 621
23 TraesCS7A01G521600 chr2D 263422341 263422928 587 True 329.000000 329 77.310000 2688 3295 1 chr2D.!!$R2 607
24 TraesCS7A01G521600 chr4D 264462371 264462955 584 False 335.000000 335 77.524000 2688 3292 1 chr4D.!!$F1 604
25 TraesCS7A01G521600 chr6A 526163486 526164073 587 True 313.000000 313 76.710000 2688 3295 1 chr6A.!!$R1 607
26 TraesCS7A01G521600 chr4A 359638749 359639336 587 True 307.000000 307 76.661000 2688 3295 1 chr4A.!!$R1 607

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
949 4338 0.530431 CGCATCGATCCACCACATCA 60.530 55.0 0.00 0.0 0.00 3.07 F
1315 4760 0.541863 AATCCCCTCGCGAATCAACT 59.458 50.0 11.33 0.0 0.00 3.16 F
1748 5195 0.784250 CCGACGCGATTCACGTTTTG 60.784 55.0 15.93 0.0 45.24 2.44 F
2361 5838 0.103755 CTGAGATTAGGCAGCGCTCA 59.896 55.0 7.13 0.0 34.71 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2207 5657 0.109342 CCCCTTGAGCTCAGTGTTGT 59.891 55.000 17.43 0.00 0.00 3.32 R
2213 5663 0.179089 CGATGTCCCCTTGAGCTCAG 60.179 60.000 17.43 10.97 0.00 3.35 R
2923 7291 1.083489 AATGTCGTGCAACCATACCG 58.917 50.000 0.00 0.00 0.00 4.02 R
4142 9794 1.071699 TGCTAGCTCCGTTCCAAAACT 59.928 47.619 17.23 0.00 32.95 2.66 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
30 31 5.895636 TTGGCAGGTACATAATTTGTGAG 57.104 39.130 0.00 0.00 39.48 3.51
203 1013 3.388024 TCAGTTAGGCTGGAAATCGCTAT 59.612 43.478 0.00 0.00 45.08 2.97
247 1057 8.560355 TGTGCACATGTGTATATTTTAGAACT 57.440 30.769 26.01 0.00 0.00 3.01
248 1058 9.660180 TGTGCACATGTGTATATTTTAGAACTA 57.340 29.630 26.01 0.00 0.00 2.24
289 1099 1.075542 TTCCGAGTATTGCTGCAACG 58.924 50.000 18.51 15.81 0.00 4.10
309 1720 0.884514 GGTCAAAGGAAGAAGCAGGC 59.115 55.000 0.00 0.00 0.00 4.85
312 1723 0.600057 CAAAGGAAGAAGCAGGCCAC 59.400 55.000 5.01 0.00 0.00 5.01
352 1766 9.274206 ACTAAAGTGGAGAGAAGAATTTTACAC 57.726 33.333 0.00 0.00 0.00 2.90
353 1767 9.495572 CTAAAGTGGAGAGAAGAATTTTACACT 57.504 33.333 0.00 0.00 38.19 3.55
359 1773 6.367969 GGAGAGAAGAATTTTACACTTGCGTA 59.632 38.462 0.00 0.00 0.00 4.42
375 1789 1.371183 GTATATCCGGCTGGCTGCA 59.629 57.895 18.32 0.00 45.15 4.41
564 2239 4.365505 TTGGCGATGGTGCGACGA 62.366 61.111 0.00 0.00 43.77 4.20
572 2247 2.582226 GGTGCGACGATGCGATGA 60.582 61.111 0.00 0.00 37.81 2.92
610 2354 7.780745 TGTTTCCTTATTTTACCAGGAGAACAA 59.219 33.333 0.00 0.00 38.00 2.83
630 4018 2.511373 TGGTGCGATGGTGCGATC 60.511 61.111 0.00 0.00 37.81 3.69
669 4058 4.534500 TCCTTATTTACCAGGAGAACAGCA 59.466 41.667 0.00 0.00 33.99 4.41
813 4202 4.405116 AATTGTGTGGTGCTGATTGTTT 57.595 36.364 0.00 0.00 0.00 2.83
827 4216 2.613730 TTGTTTCGTGCGTTTTGTGA 57.386 40.000 0.00 0.00 0.00 3.58
830 4219 2.353269 TGTTTCGTGCGTTTTGTGAGAT 59.647 40.909 0.00 0.00 0.00 2.75
851 4240 2.413310 AATTGCCGGGTGTACTTAGG 57.587 50.000 2.18 0.00 0.00 2.69
902 4291 9.656323 AGTAGTAGAGAAGAGATAGAGAAGAGA 57.344 37.037 0.00 0.00 0.00 3.10
908 4297 9.607333 AGAGAAGAGATAGAGAAGAGATAGAGA 57.393 37.037 0.00 0.00 0.00 3.10
947 4336 0.811219 CACGCATCGATCCACCACAT 60.811 55.000 0.00 0.00 0.00 3.21
948 4337 0.530650 ACGCATCGATCCACCACATC 60.531 55.000 0.00 0.00 0.00 3.06
949 4338 0.530431 CGCATCGATCCACCACATCA 60.530 55.000 0.00 0.00 0.00 3.07
950 4339 0.940126 GCATCGATCCACCACATCAC 59.060 55.000 0.00 0.00 0.00 3.06
951 4340 1.743431 GCATCGATCCACCACATCACA 60.743 52.381 0.00 0.00 0.00 3.58
963 4352 0.884704 ACATCACACAGTTCGCCACC 60.885 55.000 0.00 0.00 0.00 4.61
985 4377 1.138661 CTCCCTGCATCTCTCTTCCAC 59.861 57.143 0.00 0.00 0.00 4.02
1015 4418 0.884704 AAGCATGACGGCGAAAGTGT 60.885 50.000 16.62 0.00 39.27 3.55
1277 4690 9.803315 TGATTCTTAGTAGATCATGTACAACAC 57.197 33.333 0.00 0.00 0.00 3.32
1278 4691 9.250624 GATTCTTAGTAGATCATGTACAACACC 57.749 37.037 0.00 0.00 0.00 4.16
1279 4692 6.792326 TCTTAGTAGATCATGTACAACACCG 58.208 40.000 0.00 0.00 0.00 4.94
1280 4693 6.600427 TCTTAGTAGATCATGTACAACACCGA 59.400 38.462 0.00 0.00 0.00 4.69
1282 4695 4.705507 AGTAGATCATGTACAACACCGACT 59.294 41.667 0.00 0.00 0.00 4.18
1300 4745 6.747280 CACCGACTAAATTGATCACAAAATCC 59.253 38.462 0.00 0.00 39.54 3.01
1310 4755 1.094785 CACAAAATCCCCTCGCGAAT 58.905 50.000 11.33 0.00 0.00 3.34
1315 4760 0.541863 AATCCCCTCGCGAATCAACT 59.458 50.000 11.33 0.00 0.00 3.16
1352 4797 4.758674 TCCTGATGCAAACTTTTCTCTGAG 59.241 41.667 0.00 0.00 0.00 3.35
1354 4799 4.717877 TGATGCAAACTTTTCTCTGAGGA 58.282 39.130 4.59 0.00 0.00 3.71
1383 4828 9.657419 AAACAACATCCTGATCCAAATTTATTC 57.343 29.630 0.00 0.00 0.00 1.75
1408 4853 3.118956 AGAGAGCCGTCATCAGGTAAAAG 60.119 47.826 0.00 0.00 0.00 2.27
1422 4867 5.119588 TCAGGTAAAAGTAAAATCAGCGTCG 59.880 40.000 0.00 0.00 0.00 5.12
1429 4875 6.490566 AAGTAAAATCAGCGTCGGTAAAAT 57.509 33.333 0.00 0.00 0.00 1.82
1434 4880 9.281075 GTAAAATCAGCGTCGGTAAAATAATTT 57.719 29.630 0.00 0.00 0.00 1.82
1438 4884 5.408909 TCAGCGTCGGTAAAATAATTTGACA 59.591 36.000 0.00 0.00 0.00 3.58
1447 4893 8.664798 CGGTAAAATAATTTGACAGTCAGATCA 58.335 33.333 7.03 0.00 0.00 2.92
1489 4935 3.128589 ACGTTGCAACTGTTGTCTTCAAT 59.871 39.130 26.09 1.69 35.92 2.57
1493 4939 3.565482 TGCAACTGTTGTCTTCAATCTCC 59.435 43.478 20.57 1.60 35.92 3.71
1498 4944 4.692625 ACTGTTGTCTTCAATCTCCAATCG 59.307 41.667 0.00 0.00 35.92 3.34
1505 4951 3.526931 TCAATCTCCAATCGTCCTGTC 57.473 47.619 0.00 0.00 0.00 3.51
1544 4990 4.353437 GCAGCTTGCTGCCACCAC 62.353 66.667 30.55 7.92 43.99 4.16
1603 5049 3.770040 CCTCCGCGTCATCACCCA 61.770 66.667 4.92 0.00 0.00 4.51
1636 5082 1.605058 TAGCCTCCCGAGCAGTTGAC 61.605 60.000 0.00 0.00 0.00 3.18
1650 5096 1.964373 TTGACTTTTCCGGCGAGCC 60.964 57.895 9.30 3.59 0.00 4.70
1667 5113 2.808206 CCCGCATACCCTCTCACCC 61.808 68.421 0.00 0.00 0.00 4.61
1708 5154 2.342648 GCCACCGTCTTCGACCTT 59.657 61.111 0.00 0.00 39.71 3.50
1730 5177 2.095718 GGAGCTGACACGAAAATTGACC 60.096 50.000 0.00 0.00 0.00 4.02
1748 5195 0.784250 CCGACGCGATTCACGTTTTG 60.784 55.000 15.93 0.00 45.24 2.44
1766 5213 7.330946 CACGTTTTGAGGTACATGAGAATTAGA 59.669 37.037 0.00 0.00 0.00 2.10
1767 5214 7.876068 ACGTTTTGAGGTACATGAGAATTAGAA 59.124 33.333 0.00 0.00 0.00 2.10
1848 5297 3.523972 ACCCCCTTTTGAGGAAGTAGATC 59.476 47.826 0.00 0.00 0.00 2.75
2012 5461 5.759763 TCGATGATGATTCCAGTTGTATTGG 59.240 40.000 0.00 0.00 37.04 3.16
2022 5471 8.887264 ATTCCAGTTGTATTGGTTTGGTATTA 57.113 30.769 0.00 0.00 37.02 0.98
2094 5543 8.821894 GTCTGACTTAAGACAAAGCTAATATGG 58.178 37.037 10.09 0.00 44.98 2.74
2114 5563 6.775594 ATGGAGAGTAAATAAAAACAGGGC 57.224 37.500 0.00 0.00 0.00 5.19
2142 5591 7.496346 AGTAGAGTTCATCAAGGTAAATGGA 57.504 36.000 0.00 0.00 0.00 3.41
2163 5612 0.839946 ATGCTATTCCTCGGGCAACT 59.160 50.000 0.00 0.00 38.21 3.16
2184 5634 5.288804 ACTGAAAATTTGTTTGGATCGGTG 58.711 37.500 0.00 0.00 0.00 4.94
2185 5635 4.626042 TGAAAATTTGTTTGGATCGGTGG 58.374 39.130 0.00 0.00 0.00 4.61
2195 5645 5.356751 TGTTTGGATCGGTGGATTTTCTATG 59.643 40.000 0.00 0.00 31.51 2.23
2198 5648 5.368145 TGGATCGGTGGATTTTCTATGAAG 58.632 41.667 0.00 0.00 31.51 3.02
2205 5655 5.882557 GGTGGATTTTCTATGAAGAGAGCAA 59.117 40.000 0.00 0.00 31.96 3.91
2206 5656 6.183360 GGTGGATTTTCTATGAAGAGAGCAAC 60.183 42.308 0.00 0.00 31.96 4.17
2207 5657 6.372659 GTGGATTTTCTATGAAGAGAGCAACA 59.627 38.462 0.00 0.00 31.96 3.33
2208 5658 6.372659 TGGATTTTCTATGAAGAGAGCAACAC 59.627 38.462 0.00 0.00 31.96 3.32
2209 5659 6.372659 GGATTTTCTATGAAGAGAGCAACACA 59.627 38.462 0.00 0.00 31.96 3.72
2210 5660 7.094634 GGATTTTCTATGAAGAGAGCAACACAA 60.095 37.037 0.00 0.00 31.96 3.33
2211 5661 6.545504 TTTCTATGAAGAGAGCAACACAAC 57.454 37.500 0.00 0.00 31.96 3.32
2212 5662 5.213891 TCTATGAAGAGAGCAACACAACA 57.786 39.130 0.00 0.00 0.00 3.33
2213 5663 4.991056 TCTATGAAGAGAGCAACACAACAC 59.009 41.667 0.00 0.00 0.00 3.32
2214 5664 3.266510 TGAAGAGAGCAACACAACACT 57.733 42.857 0.00 0.00 0.00 3.55
2215 5665 2.938451 TGAAGAGAGCAACACAACACTG 59.062 45.455 0.00 0.00 0.00 3.66
2216 5666 2.988010 AGAGAGCAACACAACACTGA 57.012 45.000 0.00 0.00 0.00 3.41
2217 5667 2.831333 AGAGAGCAACACAACACTGAG 58.169 47.619 0.00 0.00 0.00 3.35
2218 5668 1.262683 GAGAGCAACACAACACTGAGC 59.737 52.381 0.00 0.00 0.00 4.26
2219 5669 1.134280 AGAGCAACACAACACTGAGCT 60.134 47.619 0.00 0.00 0.00 4.09
2220 5670 1.262683 GAGCAACACAACACTGAGCTC 59.737 52.381 6.82 6.82 36.47 4.09
2221 5671 1.016627 GCAACACAACACTGAGCTCA 58.983 50.000 17.19 17.19 0.00 4.26
2222 5672 1.401552 GCAACACAACACTGAGCTCAA 59.598 47.619 18.85 1.63 0.00 3.02
2223 5673 2.540361 GCAACACAACACTGAGCTCAAG 60.540 50.000 18.85 15.42 0.00 3.02
2224 5674 1.959042 ACACAACACTGAGCTCAAGG 58.041 50.000 18.85 14.73 0.00 3.61
2225 5675 1.233019 CACAACACTGAGCTCAAGGG 58.767 55.000 18.85 14.98 0.00 3.95
2226 5676 0.109342 ACAACACTGAGCTCAAGGGG 59.891 55.000 18.85 10.88 0.00 4.79
2227 5677 0.397941 CAACACTGAGCTCAAGGGGA 59.602 55.000 18.85 0.00 0.00 4.81
2228 5678 0.398318 AACACTGAGCTCAAGGGGAC 59.602 55.000 18.85 0.00 0.00 4.46
2229 5679 0.764369 ACACTGAGCTCAAGGGGACA 60.764 55.000 18.85 0.00 0.00 4.02
2230 5680 0.617413 CACTGAGCTCAAGGGGACAT 59.383 55.000 18.85 0.00 0.00 3.06
2231 5681 0.908198 ACTGAGCTCAAGGGGACATC 59.092 55.000 18.85 0.00 0.00 3.06
2232 5682 0.179089 CTGAGCTCAAGGGGACATCG 60.179 60.000 18.85 0.00 0.00 3.84
2233 5683 1.522580 GAGCTCAAGGGGACATCGC 60.523 63.158 9.40 0.00 0.00 4.58
2234 5684 2.244117 GAGCTCAAGGGGACATCGCA 62.244 60.000 9.40 0.00 0.00 5.10
2235 5685 1.817099 GCTCAAGGGGACATCGCAG 60.817 63.158 0.00 0.00 0.00 5.18
2236 5686 1.817099 CTCAAGGGGACATCGCAGC 60.817 63.158 0.00 0.00 0.00 5.25
2237 5687 2.249413 CTCAAGGGGACATCGCAGCT 62.249 60.000 0.00 0.00 0.00 4.24
2238 5688 1.377725 CAAGGGGACATCGCAGCTT 60.378 57.895 0.00 0.00 0.00 3.74
2239 5689 1.377725 AAGGGGACATCGCAGCTTG 60.378 57.895 0.00 0.00 0.00 4.01
2240 5690 3.512516 GGGGACATCGCAGCTTGC 61.513 66.667 0.00 0.00 40.69 4.01
2246 5696 3.437795 ATCGCAGCTTGCTGTGGC 61.438 61.111 28.42 13.26 42.25 5.01
2249 5699 4.395583 GCAGCTTGCTGTGGCGTC 62.396 66.667 21.55 2.71 40.96 5.19
2281 5731 3.254892 GCTTCTAAGGACCTTGTCGAAG 58.745 50.000 24.23 24.23 32.65 3.79
2320 5783 1.515521 GGAAGTGGGTTCGCTGGTTG 61.516 60.000 0.00 0.00 35.80 3.77
2323 5786 4.966787 TGGGTTCGCTGGTTGGGC 62.967 66.667 0.00 0.00 0.00 5.36
2326 5789 2.200337 GGTTCGCTGGTTGGGCTTT 61.200 57.895 0.00 0.00 0.00 3.51
2327 5790 1.739667 GTTCGCTGGTTGGGCTTTT 59.260 52.632 0.00 0.00 0.00 2.27
2328 5791 0.104120 GTTCGCTGGTTGGGCTTTTT 59.896 50.000 0.00 0.00 0.00 1.94
2329 5792 1.338655 GTTCGCTGGTTGGGCTTTTTA 59.661 47.619 0.00 0.00 0.00 1.52
2331 5794 2.243810 TCGCTGGTTGGGCTTTTTAAT 58.756 42.857 0.00 0.00 0.00 1.40
2332 5795 2.630580 TCGCTGGTTGGGCTTTTTAATT 59.369 40.909 0.00 0.00 0.00 1.40
2333 5796 3.070302 TCGCTGGTTGGGCTTTTTAATTT 59.930 39.130 0.00 0.00 0.00 1.82
2334 5797 3.431912 CGCTGGTTGGGCTTTTTAATTTC 59.568 43.478 0.00 0.00 0.00 2.17
2336 5799 4.797933 GCTGGTTGGGCTTTTTAATTTCGA 60.798 41.667 0.00 0.00 0.00 3.71
2337 5800 4.623002 TGGTTGGGCTTTTTAATTTCGAC 58.377 39.130 0.00 0.00 0.00 4.20
2356 5833 1.453669 CCCCCTGAGATTAGGCAGC 59.546 63.158 0.00 0.00 36.47 5.25
2358 5835 1.596477 CCCTGAGATTAGGCAGCGC 60.596 63.158 0.00 0.00 36.47 5.92
2359 5836 1.445095 CCTGAGATTAGGCAGCGCT 59.555 57.895 2.64 2.64 0.00 5.92
2361 5838 0.103755 CTGAGATTAGGCAGCGCTCA 59.896 55.000 7.13 0.00 34.71 4.26
2375 5852 2.665000 CTCAAGCTTGAGCCGGGA 59.335 61.111 36.46 12.03 46.97 5.14
2376 5853 1.743252 CTCAAGCTTGAGCCGGGAC 60.743 63.158 36.46 0.00 46.97 4.46
2377 5854 2.032528 CAAGCTTGAGCCGGGACA 59.967 61.111 22.31 0.00 43.38 4.02
2378 5855 2.032681 AAGCTTGAGCCGGGACAC 59.967 61.111 2.18 0.00 43.38 3.67
2380 5857 4.329545 GCTTGAGCCGGGACACCA 62.330 66.667 2.18 0.00 36.13 4.17
2381 5858 2.358737 CTTGAGCCGGGACACCAC 60.359 66.667 2.18 0.00 36.13 4.16
2382 5859 4.308458 TTGAGCCGGGACACCACG 62.308 66.667 2.18 0.00 36.13 4.94
2384 5861 4.736896 GAGCCGGGACACCACGAC 62.737 72.222 2.18 0.00 36.13 4.34
2390 6291 3.626924 GGACACCACGACCTGCCT 61.627 66.667 0.00 0.00 0.00 4.75
2402 6303 1.226802 CCTGCCTCGATGTCGTCAG 60.227 63.158 2.04 8.23 40.80 3.51
2425 6326 1.447838 GGCTCGCGAAGACCAATCA 60.448 57.895 11.33 0.00 0.00 2.57
2426 6327 0.811616 GGCTCGCGAAGACCAATCAT 60.812 55.000 11.33 0.00 0.00 2.45
2427 6328 0.579156 GCTCGCGAAGACCAATCATC 59.421 55.000 11.33 0.00 0.00 2.92
2428 6329 1.926561 CTCGCGAAGACCAATCATCA 58.073 50.000 11.33 0.00 0.00 3.07
2429 6330 2.270923 CTCGCGAAGACCAATCATCAA 58.729 47.619 11.33 0.00 0.00 2.57
2433 6791 2.223203 GCGAAGACCAATCATCAAGCTG 60.223 50.000 0.00 0.00 0.00 4.24
2437 6795 5.423015 GAAGACCAATCATCAAGCTGTAGA 58.577 41.667 0.00 0.00 0.00 2.59
2448 6806 6.697455 TCATCAAGCTGTAGACGATGTAATTC 59.303 38.462 0.00 0.00 35.91 2.17
2467 6825 1.160329 CGGAAGAATCATCCACGGCC 61.160 60.000 5.32 0.00 36.74 6.13
2488 6846 0.898789 TTTCTCTCGCGGAAGGAGGT 60.899 55.000 6.13 0.00 32.34 3.85
2546 6904 3.329225 TGGGATCATTTGACCACTACACA 59.671 43.478 0.00 0.00 0.00 3.72
2551 6909 6.016276 GGATCATTTGACCACTACACACTTTT 60.016 38.462 0.00 0.00 0.00 2.27
2557 6915 1.531149 CCACTACACACTTTTGCCTCG 59.469 52.381 0.00 0.00 0.00 4.63
2581 6939 1.604278 GATTGCCCGCTACTTTGGATC 59.396 52.381 0.00 0.00 0.00 3.36
2606 6964 8.756927 TCTTCAGAGATGATGACTGAAATAAGT 58.243 33.333 0.00 0.00 45.60 2.24
2651 7009 6.785488 TGAACTAAGAAACAGTAGCATGTG 57.215 37.500 0.00 0.00 32.52 3.21
2672 7030 4.819630 GTGTATCAAAGTTGTCTGGTGGAA 59.180 41.667 0.00 0.00 0.00 3.53
2685 7043 1.339631 TGGTGGAAAACATCTAGGCCG 60.340 52.381 0.00 0.00 0.00 6.13
2726 7084 5.182950 TGACATAACATTGGTTCATGTCACC 59.817 40.000 13.76 9.24 46.34 4.02
2768 7126 4.384098 CCCTGGTTCATACAGTATTGCTCA 60.384 45.833 0.00 0.00 34.16 4.26
2790 7157 6.769512 TCAGTAGGCATCTAATGGGTTATTC 58.230 40.000 0.00 0.00 40.70 1.75
2935 7303 0.747644 CATCTGGCGGTATGGTTGCA 60.748 55.000 0.00 0.00 0.00 4.08
2936 7304 0.748005 ATCTGGCGGTATGGTTGCAC 60.748 55.000 0.00 0.00 0.00 4.57
2937 7305 2.744318 TGGCGGTATGGTTGCACG 60.744 61.111 0.00 0.00 0.00 5.34
2940 7308 2.030401 GCGGTATGGTTGCACGACA 61.030 57.895 0.00 0.00 0.00 4.35
2941 7309 1.366111 GCGGTATGGTTGCACGACAT 61.366 55.000 0.00 0.00 0.00 3.06
2942 7310 1.083489 CGGTATGGTTGCACGACATT 58.917 50.000 2.72 0.00 0.00 2.71
2943 7311 2.272678 CGGTATGGTTGCACGACATTA 58.727 47.619 2.72 0.00 0.00 1.90
2944 7312 2.869801 CGGTATGGTTGCACGACATTAT 59.130 45.455 2.72 0.00 0.00 1.28
2953 7321 6.094742 TGGTTGCACGACATTATGAATATTGT 59.905 34.615 0.00 0.00 31.66 2.71
3019 7406 8.404107 TGATTATGTCAGGTGATATAGACGAA 57.596 34.615 0.00 0.00 31.36 3.85
3041 7431 9.006839 ACGAATACTAATCTTACGATGTCCATA 57.993 33.333 0.00 0.00 0.00 2.74
3042 7432 9.275231 CGAATACTAATCTTACGATGTCCATAC 57.725 37.037 0.00 0.00 0.00 2.39
3126 7516 6.368243 CCGGTGATGAAGATGAATAATCTGAG 59.632 42.308 0.00 0.00 45.37 3.35
3169 7560 5.423015 GAGCTAATTGTCAAGGAGATGTCA 58.577 41.667 0.00 0.00 0.00 3.58
3321 7712 2.355197 TGATTGATACACGCCCTGTTG 58.645 47.619 0.00 0.00 33.91 3.33
3334 7725 5.065859 CACGCCCTGTTGATAATTATGACAA 59.934 40.000 1.78 0.00 0.00 3.18
3417 7938 8.798859 ATTGATACATGATACTGCTAAATCCC 57.201 34.615 0.00 0.00 0.00 3.85
3519 8040 2.367377 ATGCTGGGAGGCCTGCTA 60.367 61.111 24.77 17.98 36.00 3.49
3661 8182 0.104855 CAAGGCGCTAGAGGTATGCA 59.895 55.000 7.64 0.00 0.00 3.96
3669 8190 2.285488 GCTAGAGGTATGCAAAACTCGC 59.715 50.000 0.00 0.00 35.22 5.03
3694 8215 5.539582 AAAACGTATCGCTTTATTCTGCA 57.460 34.783 0.00 0.00 0.00 4.41
3968 8537 5.576774 ACAATATATATGTGTGGTGCGATCG 59.423 40.000 11.69 11.69 0.00 3.69
4002 8581 1.486310 TCGGTAGCATTGAGGAGCATT 59.514 47.619 0.00 0.00 0.00 3.56
4023 8634 3.313012 TGTGAACTCGTATCTGGTTGG 57.687 47.619 0.00 0.00 0.00 3.77
4046 9607 4.781071 CTCAAAGAGATGCAACAAGTGAC 58.219 43.478 0.00 0.00 0.00 3.67
4070 9722 8.451908 ACAAGCTCAAACTAACAAATAAGACT 57.548 30.769 0.00 0.00 0.00 3.24
4071 9723 9.555727 ACAAGCTCAAACTAACAAATAAGACTA 57.444 29.630 0.00 0.00 0.00 2.59
4074 9726 9.944376 AGCTCAAACTAACAAATAAGACTATGA 57.056 29.630 0.00 0.00 0.00 2.15
4102 9754 7.851387 ATGATTGATCTGATGATGCATACTC 57.149 36.000 0.00 0.00 32.19 2.59
4105 9757 7.717875 TGATTGATCTGATGATGCATACTCAAA 59.282 33.333 0.00 0.00 32.19 2.69
4106 9758 6.856135 TGATCTGATGATGCATACTCAAAC 57.144 37.500 0.00 1.40 32.19 2.93
4107 9759 5.464389 TGATCTGATGATGCATACTCAAACG 59.536 40.000 0.00 0.00 32.19 3.60
4108 9760 4.122046 TCTGATGATGCATACTCAAACGG 58.878 43.478 0.00 0.00 0.00 4.44
4109 9761 2.613595 TGATGATGCATACTCAAACGGC 59.386 45.455 0.00 0.00 0.00 5.68
4111 9763 2.642427 TGATGCATACTCAAACGGCAT 58.358 42.857 0.00 0.00 46.91 4.40
4115 9767 3.194861 TGCATACTCAAACGGCATACTC 58.805 45.455 0.00 0.00 0.00 2.59
4116 9768 3.194861 GCATACTCAAACGGCATACTCA 58.805 45.455 0.00 0.00 0.00 3.41
4117 9769 3.621268 GCATACTCAAACGGCATACTCAA 59.379 43.478 0.00 0.00 0.00 3.02
4118 9770 4.094294 GCATACTCAAACGGCATACTCAAA 59.906 41.667 0.00 0.00 0.00 2.69
4119 9771 5.560148 CATACTCAAACGGCATACTCAAAC 58.440 41.667 0.00 0.00 0.00 2.93
4124 9776 5.057819 TCAAACGGCATACTCAAACTAACA 58.942 37.500 0.00 0.00 0.00 2.41
4125 9777 5.527951 TCAAACGGCATACTCAAACTAACAA 59.472 36.000 0.00 0.00 0.00 2.83
4128 9780 4.817464 ACGGCATACTCAAACTAACAAACA 59.183 37.500 0.00 0.00 0.00 2.83
4130 9782 5.851177 CGGCATACTCAAACTAACAAACAAG 59.149 40.000 0.00 0.00 0.00 3.16
4131 9783 6.512741 CGGCATACTCAAACTAACAAACAAGT 60.513 38.462 0.00 0.00 0.00 3.16
4132 9784 6.636850 GGCATACTCAAACTAACAAACAAGTG 59.363 38.462 0.00 0.00 0.00 3.16
4133 9785 7.414436 GCATACTCAAACTAACAAACAAGTGA 58.586 34.615 0.00 0.00 0.00 3.41
4134 9786 7.376072 GCATACTCAAACTAACAAACAAGTGAC 59.624 37.037 0.00 0.00 0.00 3.67
4135 9787 6.811253 ACTCAAACTAACAAACAAGTGACA 57.189 33.333 0.00 0.00 0.00 3.58
4137 9789 7.653647 ACTCAAACTAACAAACAAGTGACAAA 58.346 30.769 0.00 0.00 0.00 2.83
4138 9790 7.593644 ACTCAAACTAACAAACAAGTGACAAAC 59.406 33.333 0.00 0.00 0.00 2.93
4139 9791 7.653647 TCAAACTAACAAACAAGTGACAAACT 58.346 30.769 0.00 0.00 42.60 2.66
4140 9792 7.806014 TCAAACTAACAAACAAGTGACAAACTC 59.194 33.333 0.00 0.00 38.56 3.01
4141 9793 6.811253 ACTAACAAACAAGTGACAAACTCA 57.189 33.333 0.00 0.00 38.56 3.41
4142 9794 7.209471 ACTAACAAACAAGTGACAAACTCAA 57.791 32.000 0.00 0.00 38.56 3.02
4191 9932 2.621338 CTAGCTTCTCAAACGGCATCA 58.379 47.619 0.00 0.00 0.00 3.07
4194 9941 3.609853 AGCTTCTCAAACGGCATCAATA 58.390 40.909 0.00 0.00 0.00 1.90
4224 9980 3.969287 TCTTGAGAGCAACAGCTACAT 57.031 42.857 0.00 0.00 39.10 2.29
4345 10137 3.343617 CTTCTCACTCTTCTCCTCGTCT 58.656 50.000 0.00 0.00 0.00 4.18
4350 10150 2.078392 ACTCTTCTCCTCGTCTTCGAC 58.922 52.381 0.00 0.00 41.35 4.20
4381 10184 3.159298 CGCAAGAAGTATGGTGGCT 57.841 52.632 0.00 0.00 43.02 4.75
4615 10473 3.637273 GGCCGAGGACCAACACCT 61.637 66.667 0.00 0.00 40.80 4.00
4630 11020 2.594303 CCTTTGCCACGCTCACCA 60.594 61.111 0.00 0.00 0.00 4.17
4631 11021 2.192861 CCTTTGCCACGCTCACCAA 61.193 57.895 0.00 0.00 0.00 3.67
4635 11025 2.045926 GCCACGCTCACCAAGGAT 60.046 61.111 0.00 0.00 0.00 3.24
4738 11210 3.994853 GGGTCCGGTCGTTTCGGT 61.995 66.667 0.00 0.00 46.82 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 5.004448 TCCGCACCAATAACTCACAAATTA 58.996 37.500 0.00 0.00 0.00 1.40
30 31 7.646446 AAAAGTTAATTTCCGCACCAATAAC 57.354 32.000 0.00 0.00 0.00 1.89
129 835 8.682710 GGTGTGAACTAAAATAGCCATTCATAA 58.317 33.333 0.00 0.00 0.00 1.90
203 1013 6.756542 GTGCACATCACAATACTACACATCTA 59.243 38.462 13.17 0.00 44.98 1.98
289 1099 1.539157 CCTGCTTCTTCCTTTGACCC 58.461 55.000 0.00 0.00 0.00 4.46
309 1720 6.145696 CACTTTAGTCTAAACTTCTTCCGTGG 59.854 42.308 0.65 0.00 36.92 4.94
312 1723 6.453092 TCCACTTTAGTCTAAACTTCTTCCG 58.547 40.000 0.65 0.00 36.92 4.30
353 1767 1.301401 GCCAGCCGGATATACGCAA 60.301 57.895 5.05 0.00 0.00 4.85
359 1773 1.526917 GTTGCAGCCAGCCGGATAT 60.527 57.895 5.05 0.00 44.83 1.63
513 2158 3.483869 GCCGAGCATCCTTCCCCT 61.484 66.667 0.00 0.00 0.00 4.79
564 2239 7.009174 GGAAACAAAATTAATTCGTCATCGCAT 59.991 33.333 0.10 0.00 36.96 4.73
669 4058 1.782752 CCATCCACCCCCTACAATCAT 59.217 52.381 0.00 0.00 0.00 2.45
813 4202 5.143660 CAATTTATCTCACAAAACGCACGA 58.856 37.500 0.00 0.00 0.00 4.35
827 4216 3.926058 AGTACACCCGGCAATTTATCT 57.074 42.857 0.00 0.00 0.00 1.98
830 4219 3.370739 CCCTAAGTACACCCGGCAATTTA 60.371 47.826 0.00 0.00 0.00 1.40
851 4240 7.770801 AATAAACAAGCAAACAAGAACTTCC 57.229 32.000 0.00 0.00 0.00 3.46
894 4283 7.357303 GGTCGTGTTTATCTCTATCTCTTCTC 58.643 42.308 0.00 0.00 0.00 2.87
895 4284 6.263617 GGGTCGTGTTTATCTCTATCTCTTCT 59.736 42.308 0.00 0.00 0.00 2.85
896 4285 6.440436 GGGTCGTGTTTATCTCTATCTCTTC 58.560 44.000 0.00 0.00 0.00 2.87
897 4286 5.302313 GGGGTCGTGTTTATCTCTATCTCTT 59.698 44.000 0.00 0.00 0.00 2.85
898 4287 4.828387 GGGGTCGTGTTTATCTCTATCTCT 59.172 45.833 0.00 0.00 0.00 3.10
899 4288 4.320348 CGGGGTCGTGTTTATCTCTATCTC 60.320 50.000 0.00 0.00 0.00 2.75
900 4289 3.568853 CGGGGTCGTGTTTATCTCTATCT 59.431 47.826 0.00 0.00 0.00 1.98
901 4290 3.856267 GCGGGGTCGTGTTTATCTCTATC 60.856 52.174 0.00 0.00 38.89 2.08
902 4291 2.035576 GCGGGGTCGTGTTTATCTCTAT 59.964 50.000 0.00 0.00 38.89 1.98
903 4292 1.406539 GCGGGGTCGTGTTTATCTCTA 59.593 52.381 0.00 0.00 38.89 2.43
904 4293 0.175073 GCGGGGTCGTGTTTATCTCT 59.825 55.000 0.00 0.00 38.89 3.10
905 4294 0.808847 GGCGGGGTCGTGTTTATCTC 60.809 60.000 0.00 0.00 38.89 2.75
906 4295 1.219935 GGCGGGGTCGTGTTTATCT 59.780 57.895 0.00 0.00 38.89 1.98
907 4296 1.816679 GGGCGGGGTCGTGTTTATC 60.817 63.158 0.00 0.00 38.89 1.75
908 4297 2.269883 GGGCGGGGTCGTGTTTAT 59.730 61.111 0.00 0.00 38.89 1.40
909 4298 4.376176 CGGGCGGGGTCGTGTTTA 62.376 66.667 0.00 0.00 38.89 2.01
947 4336 2.110213 GGGTGGCGAACTGTGTGA 59.890 61.111 0.00 0.00 0.00 3.58
948 4337 2.978010 GGGGTGGCGAACTGTGTG 60.978 66.667 0.00 0.00 0.00 3.82
949 4338 3.168528 AGGGGTGGCGAACTGTGT 61.169 61.111 0.00 0.00 0.00 3.72
950 4339 2.358737 GAGGGGTGGCGAACTGTG 60.359 66.667 0.00 0.00 0.00 3.66
951 4340 3.637273 GGAGGGGTGGCGAACTGT 61.637 66.667 0.00 0.00 0.00 3.55
963 4352 0.758123 GAAGAGAGATGCAGGGAGGG 59.242 60.000 0.00 0.00 0.00 4.30
985 4377 4.170062 CATGCTTGCGGCGAGGTG 62.170 66.667 18.54 0.00 45.43 4.00
1078 4481 2.125512 CCCCCTCTTCGCGTTCAG 60.126 66.667 5.77 0.68 0.00 3.02
1201 4604 1.808390 CAGCGGCCAAGGTACGTAC 60.808 63.158 17.56 17.56 0.00 3.67
1202 4605 2.574929 CAGCGGCCAAGGTACGTA 59.425 61.111 2.24 0.00 0.00 3.57
1228 4635 5.911838 CAGCAGAAGTAAAAGCAGAAGAAAC 59.088 40.000 0.00 0.00 0.00 2.78
1230 4637 5.368145 TCAGCAGAAGTAAAAGCAGAAGAA 58.632 37.500 0.00 0.00 0.00 2.52
1276 4689 6.127730 GGGATTTTGTGATCAATTTAGTCGGT 60.128 38.462 0.00 0.00 33.32 4.69
1277 4690 6.265577 GGGATTTTGTGATCAATTTAGTCGG 58.734 40.000 0.00 0.00 33.32 4.79
1278 4691 6.095440 AGGGGATTTTGTGATCAATTTAGTCG 59.905 38.462 0.00 0.00 33.32 4.18
1279 4692 7.410120 AGGGGATTTTGTGATCAATTTAGTC 57.590 36.000 0.00 0.00 33.32 2.59
1280 4693 6.095440 CGAGGGGATTTTGTGATCAATTTAGT 59.905 38.462 0.00 0.00 33.32 2.24
1282 4695 5.163561 GCGAGGGGATTTTGTGATCAATTTA 60.164 40.000 0.00 0.00 33.32 1.40
1300 4745 1.438651 TTTCAGTTGATTCGCGAGGG 58.561 50.000 9.59 0.00 0.00 4.30
1315 4760 4.588106 TGCATCAGGATTCAACCTTTTTCA 59.412 37.500 0.00 0.00 38.32 2.69
1359 4804 8.472413 CAGAATAAATTTGGATCAGGATGTTGT 58.528 33.333 0.00 0.00 37.40 3.32
1360 4805 8.689061 TCAGAATAAATTTGGATCAGGATGTTG 58.311 33.333 0.00 0.00 37.40 3.33
1362 4807 8.277197 TCTCAGAATAAATTTGGATCAGGATGT 58.723 33.333 0.00 0.00 37.40 3.06
1363 4808 8.687292 TCTCAGAATAAATTTGGATCAGGATG 57.313 34.615 0.00 0.00 37.54 3.51
1377 4822 4.402474 TGATGACGGCTCTCTCAGAATAAA 59.598 41.667 0.00 0.00 0.00 1.40
1380 4825 2.361757 CTGATGACGGCTCTCTCAGAAT 59.638 50.000 5.20 0.00 36.32 2.40
1383 4828 0.385029 CCTGATGACGGCTCTCTCAG 59.615 60.000 0.00 0.00 34.48 3.35
1408 4853 8.831000 AATTATTTTACCGACGCTGATTTTAC 57.169 30.769 0.00 0.00 0.00 2.01
1422 4867 9.774742 GTGATCTGACTGTCAAATTATTTTACC 57.225 33.333 12.16 0.00 0.00 2.85
1429 4875 6.115446 GGATGGTGATCTGACTGTCAAATTA 58.885 40.000 12.16 0.00 0.00 1.40
1434 4880 2.539302 TGGATGGTGATCTGACTGTCA 58.461 47.619 10.50 10.50 0.00 3.58
1438 4884 1.208052 CCGTTGGATGGTGATCTGACT 59.792 52.381 0.00 0.00 0.00 3.41
1447 4893 0.541863 GATCCTGTCCGTTGGATGGT 59.458 55.000 0.00 0.00 42.56 3.55
1489 4935 0.965866 AGCGACAGGACGATTGGAGA 60.966 55.000 0.00 0.00 35.09 3.71
1493 4939 0.248661 ATCGAGCGACAGGACGATTG 60.249 55.000 0.00 0.00 41.57 2.67
1498 4944 1.226717 GTGGATCGAGCGACAGGAC 60.227 63.158 11.11 0.00 0.00 3.85
1505 4951 2.584418 CCTGCAGTGGATCGAGCG 60.584 66.667 13.81 0.00 0.00 5.03
1593 5039 1.819632 GATGGCCGTGGGTGATGAC 60.820 63.158 0.00 0.00 0.00 3.06
1594 5040 2.589540 GATGGCCGTGGGTGATGA 59.410 61.111 0.00 0.00 0.00 2.92
1603 5049 2.444256 GGCTAAGAGGGATGGCCGT 61.444 63.158 0.00 0.00 33.30 5.68
1650 5096 2.808206 GGGGTGAGAGGGTATGCGG 61.808 68.421 0.00 0.00 0.00 5.69
1660 5106 1.556911 GAGAAGCAGATTGGGGTGAGA 59.443 52.381 0.00 0.00 0.00 3.27
1667 5113 0.813210 GGGCGAGAGAAGCAGATTGG 60.813 60.000 0.00 0.00 36.08 3.16
1708 5154 2.548057 GTCAATTTTCGTGTCAGCTCCA 59.452 45.455 0.00 0.00 0.00 3.86
2094 5543 6.819397 ACTGCCCTGTTTTTATTTACTCTC 57.181 37.500 0.00 0.00 0.00 3.20
2110 5559 3.982516 TGATGAACTCTACTACTGCCCT 58.017 45.455 0.00 0.00 0.00 5.19
2113 5562 5.331876 ACCTTGATGAACTCTACTACTGC 57.668 43.478 0.00 0.00 0.00 4.40
2114 5563 9.307121 CATTTACCTTGATGAACTCTACTACTG 57.693 37.037 0.00 0.00 0.00 2.74
2142 5591 2.639839 AGTTGCCCGAGGAATAGCATAT 59.360 45.455 0.00 0.00 34.72 1.78
2163 5612 4.342378 TCCACCGATCCAAACAAATTTTCA 59.658 37.500 0.00 0.00 0.00 2.69
2184 5634 6.372659 TGTGTTGCTCTCTTCATAGAAAATCC 59.627 38.462 0.00 0.00 0.00 3.01
2185 5635 7.369803 TGTGTTGCTCTCTTCATAGAAAATC 57.630 36.000 0.00 0.00 0.00 2.17
2195 5645 3.198068 TCAGTGTTGTGTTGCTCTCTTC 58.802 45.455 0.00 0.00 0.00 2.87
2198 5648 1.262683 GCTCAGTGTTGTGTTGCTCTC 59.737 52.381 0.00 0.00 0.00 3.20
2205 5655 1.475751 CCCTTGAGCTCAGTGTTGTGT 60.476 52.381 17.43 0.00 0.00 3.72
2206 5656 1.233019 CCCTTGAGCTCAGTGTTGTG 58.767 55.000 17.43 1.84 0.00 3.33
2207 5657 0.109342 CCCCTTGAGCTCAGTGTTGT 59.891 55.000 17.43 0.00 0.00 3.32
2208 5658 0.397941 TCCCCTTGAGCTCAGTGTTG 59.602 55.000 17.43 6.28 0.00 3.33
2209 5659 0.398318 GTCCCCTTGAGCTCAGTGTT 59.602 55.000 17.43 0.00 0.00 3.32
2210 5660 0.764369 TGTCCCCTTGAGCTCAGTGT 60.764 55.000 17.43 0.00 0.00 3.55
2211 5661 0.617413 ATGTCCCCTTGAGCTCAGTG 59.383 55.000 17.43 13.48 0.00 3.66
2212 5662 0.908198 GATGTCCCCTTGAGCTCAGT 59.092 55.000 17.43 0.00 0.00 3.41
2213 5663 0.179089 CGATGTCCCCTTGAGCTCAG 60.179 60.000 17.43 10.97 0.00 3.35
2214 5664 1.900351 CGATGTCCCCTTGAGCTCA 59.100 57.895 13.74 13.74 0.00 4.26
2215 5665 1.522580 GCGATGTCCCCTTGAGCTC 60.523 63.158 6.82 6.82 0.00 4.09
2216 5666 2.249413 CTGCGATGTCCCCTTGAGCT 62.249 60.000 0.00 0.00 0.00 4.09
2217 5667 1.817099 CTGCGATGTCCCCTTGAGC 60.817 63.158 0.00 0.00 0.00 4.26
2218 5668 1.817099 GCTGCGATGTCCCCTTGAG 60.817 63.158 0.00 0.00 0.00 3.02
2219 5669 1.841302 AAGCTGCGATGTCCCCTTGA 61.841 55.000 0.00 0.00 0.00 3.02
2220 5670 1.377725 AAGCTGCGATGTCCCCTTG 60.378 57.895 0.00 0.00 0.00 3.61
2221 5671 1.377725 CAAGCTGCGATGTCCCCTT 60.378 57.895 0.00 0.00 0.00 3.95
2222 5672 2.270205 CAAGCTGCGATGTCCCCT 59.730 61.111 0.00 0.00 0.00 4.79
2223 5673 3.512516 GCAAGCTGCGATGTCCCC 61.513 66.667 9.59 0.00 31.71 4.81
2281 5731 2.275318 CTCTCCTTCGTCATTTCTGCC 58.725 52.381 0.00 0.00 0.00 4.85
2283 5733 3.876274 TCCTCTCCTTCGTCATTTCTG 57.124 47.619 0.00 0.00 0.00 3.02
2289 5739 1.257743 CCACTTCCTCTCCTTCGTCA 58.742 55.000 0.00 0.00 0.00 4.35
2320 5783 2.093869 GGGGGTCGAAATTAAAAAGCCC 60.094 50.000 8.18 8.18 45.05 5.19
2344 5821 1.216122 CTTGAGCGCTGCCTAATCTC 58.784 55.000 18.48 0.00 0.00 2.75
2359 5836 2.347490 GTCCCGGCTCAAGCTTGA 59.653 61.111 26.87 26.87 41.70 3.02
2361 5838 2.032681 GTGTCCCGGCTCAAGCTT 59.967 61.111 0.00 0.00 41.70 3.74
2375 5852 3.991051 CGAGGCAGGTCGTGGTGT 61.991 66.667 0.00 0.00 35.14 4.16
2376 5853 3.006756 ATCGAGGCAGGTCGTGGTG 62.007 63.158 0.00 0.00 40.93 4.17
2377 5854 2.680352 ATCGAGGCAGGTCGTGGT 60.680 61.111 0.00 0.00 40.93 4.16
2378 5855 2.202797 CATCGAGGCAGGTCGTGG 60.203 66.667 0.00 0.00 40.93 4.94
2380 5857 2.885861 GACATCGAGGCAGGTCGT 59.114 61.111 0.00 0.00 40.93 4.34
2381 5858 2.278206 CGACATCGAGGCAGGTCG 60.278 66.667 0.00 4.56 45.62 4.79
2382 5859 1.226717 GACGACATCGAGGCAGGTC 60.227 63.158 8.54 0.00 43.02 3.85
2383 5860 1.938657 CTGACGACATCGAGGCAGGT 61.939 60.000 8.54 0.00 43.02 4.00
2384 5861 1.226802 CTGACGACATCGAGGCAGG 60.227 63.158 8.54 0.00 43.02 4.85
2390 6291 2.761195 CCCTCGCTGACGACATCGA 61.761 63.158 12.69 12.69 45.12 3.59
2414 6315 5.293079 GTCTACAGCTTGATGATTGGTCTTC 59.707 44.000 0.00 0.00 0.00 2.87
2420 6321 4.807834 ACATCGTCTACAGCTTGATGATTG 59.192 41.667 11.14 9.91 38.93 2.67
2421 6322 5.016051 ACATCGTCTACAGCTTGATGATT 57.984 39.130 11.14 4.11 38.93 2.57
2422 6323 4.662468 ACATCGTCTACAGCTTGATGAT 57.338 40.909 7.44 9.01 38.93 2.45
2423 6324 5.576447 TTACATCGTCTACAGCTTGATGA 57.424 39.130 7.44 8.45 38.93 2.92
2425 6326 5.687730 CGAATTACATCGTCTACAGCTTGAT 59.312 40.000 0.00 0.00 38.01 2.57
2426 6327 5.034797 CGAATTACATCGTCTACAGCTTGA 58.965 41.667 0.00 0.00 38.01 3.02
2427 6328 4.207224 CCGAATTACATCGTCTACAGCTTG 59.793 45.833 0.00 0.00 41.16 4.01
2428 6329 4.097437 TCCGAATTACATCGTCTACAGCTT 59.903 41.667 0.00 0.00 41.16 3.74
2429 6330 3.630769 TCCGAATTACATCGTCTACAGCT 59.369 43.478 0.00 0.00 41.16 4.24
2433 6791 6.916387 TGATTCTTCCGAATTACATCGTCTAC 59.084 38.462 0.00 0.00 39.89 2.59
2437 6795 5.696724 GGATGATTCTTCCGAATTACATCGT 59.303 40.000 3.07 0.00 39.44 3.73
2448 6806 1.160329 GGCCGTGGATGATTCTTCCG 61.160 60.000 12.51 3.56 35.94 4.30
2464 6822 1.432270 CTTCCGCGAGAGAAATGGCC 61.432 60.000 8.23 0.00 0.00 5.36
2467 6825 1.565305 CTCCTTCCGCGAGAGAAATG 58.435 55.000 8.23 0.00 0.00 2.32
2488 6846 4.801521 AATCCTCATGGGTGATTCATGA 57.198 40.909 6.59 6.59 45.86 3.07
2546 6904 1.537202 GCAATCTGTCGAGGCAAAAGT 59.463 47.619 0.00 0.00 0.00 2.66
2551 6909 2.268920 GGGCAATCTGTCGAGGCA 59.731 61.111 0.00 0.00 0.00 4.75
2557 6915 1.398390 CAAAGTAGCGGGCAATCTGTC 59.602 52.381 0.00 0.00 0.00 3.51
2581 6939 8.945481 ACTTATTTCAGTCATCATCTCTGAAG 57.055 34.615 0.00 0.00 44.95 3.02
2624 6982 7.119846 ACATGCTACTGTTTCTTAGTTCAATCC 59.880 37.037 0.00 0.00 0.00 3.01
2626 6984 7.445402 ACACATGCTACTGTTTCTTAGTTCAAT 59.555 33.333 0.00 0.00 0.00 2.57
2651 7009 6.183360 TGTTTTCCACCAGACAACTTTGATAC 60.183 38.462 0.00 0.00 36.34 2.24
2672 7030 3.009143 AGAAAACCTCGGCCTAGATGTTT 59.991 43.478 5.70 7.00 39.47 2.83
2685 7043 7.174946 TGTTATGTCAGGATTCAAGAAAACCTC 59.825 37.037 8.31 2.15 32.02 3.85
2726 7084 2.616510 GGGTTCTCAAGTCTCCACCATG 60.617 54.545 0.00 0.00 0.00 3.66
2768 7126 6.240002 CCAGAATAACCCATTAGATGCCTACT 60.240 42.308 0.00 0.00 0.00 2.57
2923 7291 1.083489 AATGTCGTGCAACCATACCG 58.917 50.000 0.00 0.00 0.00 4.02
2953 7321 2.035632 ACGGCCAGGTTCAATTTTGAA 58.964 42.857 2.24 1.66 44.31 2.69
3032 7422 6.868622 ACTTGAGTTAGACAGTATGGACATC 58.131 40.000 0.00 0.00 43.62 3.06
3041 7431 8.150945 ACATATGAACAACTTGAGTTAGACAGT 58.849 33.333 10.38 0.00 36.32 3.55
3042 7432 8.539770 ACATATGAACAACTTGAGTTAGACAG 57.460 34.615 10.38 0.00 36.32 3.51
3123 7513 1.522668 CCATTCAGTGCCGTTTCTCA 58.477 50.000 0.00 0.00 0.00 3.27
3126 7516 1.212751 GCCCATTCAGTGCCGTTTC 59.787 57.895 0.00 0.00 0.00 2.78
3169 7560 2.935201 GTCGATCAAATCTGAAGCAGCT 59.065 45.455 0.00 0.00 34.49 4.24
3298 7689 1.327460 CAGGGCGTGTATCAATCAACG 59.673 52.381 0.00 0.00 0.00 4.10
3334 7725 7.173390 GTCTGAACTTGGACTAGCAAAATACTT 59.827 37.037 0.00 0.00 0.00 2.24
3416 7937 5.745227 AGTAACATCCCAGAAGTAACATGG 58.255 41.667 0.00 0.00 0.00 3.66
3417 7938 6.536582 CAGAGTAACATCCCAGAAGTAACATG 59.463 42.308 0.00 0.00 0.00 3.21
3461 7982 1.697284 CTGGATGGATCGAGGACAGA 58.303 55.000 0.00 0.00 0.00 3.41
3694 8215 5.744300 GCAAAGCCTGTAGTGGAGATGATAT 60.744 44.000 0.00 0.00 0.00 1.63
3834 8357 2.656002 TGCAGTAGACGCCTAGAAGAT 58.344 47.619 0.00 0.00 0.00 2.40
3968 8537 3.792956 TGCTACCGATACGAATTCGAAAC 59.207 43.478 33.05 20.05 43.02 2.78
4002 8581 3.659786 CCAACCAGATACGAGTTCACAA 58.340 45.455 0.00 0.00 0.00 3.33
4023 8634 3.251729 TCACTTGTTGCATCTCTTTGAGC 59.748 43.478 0.00 0.00 0.00 4.26
4071 9723 9.243105 TGCATCATCAGATCAATCATTATTCAT 57.757 29.630 0.00 0.00 30.20 2.57
4072 9724 8.630054 TGCATCATCAGATCAATCATTATTCA 57.370 30.769 0.00 0.00 30.20 2.57
4075 9727 9.907229 AGTATGCATCATCAGATCAATCATTAT 57.093 29.630 0.19 0.00 30.20 1.28
4076 9728 9.379791 GAGTATGCATCATCAGATCAATCATTA 57.620 33.333 0.19 0.00 30.20 1.90
4102 9754 5.351233 TGTTAGTTTGAGTATGCCGTTTG 57.649 39.130 0.00 0.00 0.00 2.93
4105 9757 4.817464 TGTTTGTTAGTTTGAGTATGCCGT 59.183 37.500 0.00 0.00 0.00 5.68
4106 9758 5.351233 TGTTTGTTAGTTTGAGTATGCCG 57.649 39.130 0.00 0.00 0.00 5.69
4107 9759 6.636850 CACTTGTTTGTTAGTTTGAGTATGCC 59.363 38.462 0.00 0.00 0.00 4.40
4108 9760 7.376072 GTCACTTGTTTGTTAGTTTGAGTATGC 59.624 37.037 0.00 0.00 0.00 3.14
4109 9761 8.394877 TGTCACTTGTTTGTTAGTTTGAGTATG 58.605 33.333 0.00 0.00 0.00 2.39
4111 9763 7.908827 TGTCACTTGTTTGTTAGTTTGAGTA 57.091 32.000 0.00 0.00 0.00 2.59
4115 9767 7.593273 TGAGTTTGTCACTTGTTTGTTAGTTTG 59.407 33.333 0.00 0.00 35.01 2.93
4116 9768 7.653647 TGAGTTTGTCACTTGTTTGTTAGTTT 58.346 30.769 0.00 0.00 35.01 2.66
4117 9769 7.209471 TGAGTTTGTCACTTGTTTGTTAGTT 57.791 32.000 0.00 0.00 35.01 2.24
4118 9770 6.811253 TGAGTTTGTCACTTGTTTGTTAGT 57.189 33.333 0.00 0.00 35.01 2.24
4119 9771 7.305474 ACTTGAGTTTGTCACTTGTTTGTTAG 58.695 34.615 0.00 0.00 35.01 2.34
4124 9776 6.423604 CCAAAACTTGAGTTTGTCACTTGTTT 59.576 34.615 9.67 0.00 46.47 2.83
4125 9777 5.925969 CCAAAACTTGAGTTTGTCACTTGTT 59.074 36.000 9.67 0.00 46.47 2.83
4128 9780 5.975693 TCCAAAACTTGAGTTTGTCACTT 57.024 34.783 9.67 0.00 46.47 3.16
4130 9782 4.557301 CGTTCCAAAACTTGAGTTTGTCAC 59.443 41.667 9.67 4.75 46.47 3.67
4131 9783 4.380023 CCGTTCCAAAACTTGAGTTTGTCA 60.380 41.667 9.67 0.00 46.47 3.58
4132 9784 4.102649 CCGTTCCAAAACTTGAGTTTGTC 58.897 43.478 9.67 0.29 46.47 3.18
4133 9785 3.759618 TCCGTTCCAAAACTTGAGTTTGT 59.240 39.130 9.67 0.00 46.47 2.83
4134 9786 4.351192 CTCCGTTCCAAAACTTGAGTTTG 58.649 43.478 9.67 4.95 46.47 2.93
4137 9789 1.947456 GCTCCGTTCCAAAACTTGAGT 59.053 47.619 0.00 0.00 35.76 3.41
4138 9790 2.222027 AGCTCCGTTCCAAAACTTGAG 58.778 47.619 0.00 0.00 36.12 3.02
4139 9791 2.341846 AGCTCCGTTCCAAAACTTGA 57.658 45.000 0.00 0.00 32.95 3.02
4140 9792 2.095718 GCTAGCTCCGTTCCAAAACTTG 60.096 50.000 7.70 0.00 32.95 3.16
4141 9793 2.152016 GCTAGCTCCGTTCCAAAACTT 58.848 47.619 7.70 0.00 32.95 2.66
4142 9794 1.071699 TGCTAGCTCCGTTCCAAAACT 59.928 47.619 17.23 0.00 32.95 2.66
4177 9917 3.938963 GAGGTTATTGATGCCGTTTGAGA 59.061 43.478 0.00 0.00 0.00 3.27
4191 9932 4.225942 TGCTCTCAAGATGGTGAGGTTATT 59.774 41.667 2.57 0.00 44.40 1.40
4194 9941 1.980765 TGCTCTCAAGATGGTGAGGTT 59.019 47.619 2.57 0.00 44.40 3.50
4224 9980 3.641906 GGGTTTATGTAGGAGCTAGCAGA 59.358 47.826 18.83 0.00 0.00 4.26
4381 10184 3.876589 GAGGCGGGTTCAGCGTCAA 62.877 63.158 6.09 0.00 45.51 3.18
4615 10473 2.192861 CCTTGGTGAGCGTGGCAAA 61.193 57.895 0.00 0.00 0.00 3.68
4630 11020 4.162690 GACGCCGAGGCCATCCTT 62.163 66.667 5.01 0.00 44.46 3.36
4661 11051 3.838271 GGCGCCAGTGATCTCCGA 61.838 66.667 24.80 0.00 0.00 4.55


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

AutoCloner maintained by Alex Coulton.