Multiple sequence alignment - TraesCS2B01G564800

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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 TraesCS2B01G564800 chr2B 100.000 3080 0 0 1 3080 756554533 756551454 0.000000e+00 5688.0
1 TraesCS2B01G564800 chr2B 86.872 716 45 23 962 1648 756571426 756570731 0.000000e+00 756.0
2 TraesCS2B01G564800 chr2B 86.833 281 26 9 2485 2754 776689254 776688974 1.390000e-78 303.0
3 TraesCS2B01G564800 chr2B 84.244 311 35 12 2662 2963 59259448 59259143 1.080000e-74 291.0
4 TraesCS2B01G564800 chr2B 90.533 169 16 0 1436 1604 718396625 718396793 1.110000e-54 224.0
5 TraesCS2B01G564800 chr2B 81.295 278 32 12 1029 1288 718396244 718396519 1.120000e-49 207.0
6 TraesCS2B01G564800 chr2B 91.304 138 12 0 2109 2246 107224753 107224890 4.050000e-44 189.0
7 TraesCS2B01G564800 chr2B 93.651 126 8 0 2109 2234 116817928 116818053 4.050000e-44 189.0
8 TraesCS2B01G564800 chr2B 86.364 66 4 3 332 396 471572412 471572351 1.980000e-07 67.6
9 TraesCS2B01G564800 chr2B 100.000 33 0 0 2434 2466 756569092 756569060 9.220000e-06 62.1
10 TraesCS2B01G564800 chr2A 89.548 1636 103 28 3 1602 749905573 749903970 0.000000e+00 2012.0
11 TraesCS2B01G564800 chr2A 92.548 416 23 2 1095 1510 749910518 749910111 9.510000e-165 590.0
12 TraesCS2B01G564800 chr2A 80.452 619 60 25 1029 1605 726985970 726986569 1.710000e-112 416.0
13 TraesCS2B01G564800 chr2A 89.362 329 20 7 1788 2112 749903929 749903612 1.720000e-107 399.0
14 TraesCS2B01G564800 chr2A 90.411 292 27 1 1358 1648 749915112 749914821 1.730000e-102 383.0
15 TraesCS2B01G564800 chr2A 89.961 259 12 6 2236 2485 749903617 749903364 3.830000e-84 322.0
16 TraesCS2B01G564800 chr2A 84.821 112 6 8 2367 2472 749914349 749914243 5.430000e-18 102.0
17 TraesCS2B01G564800 chr2D 95.080 752 29 3 855 1602 619046967 619046220 0.000000e+00 1177.0
18 TraesCS2B01G564800 chr2D 89.985 669 47 8 962 1610 619058628 619057960 0.000000e+00 846.0
19 TraesCS2B01G564800 chr2D 89.623 424 34 5 2487 2904 83851707 83852126 5.850000e-147 531.0
20 TraesCS2B01G564800 chr2D 88.941 425 39 4 2486 2904 403481438 403481016 4.550000e-143 518.0
21 TraesCS2B01G564800 chr2D 94.260 331 13 2 1788 2112 619046179 619045849 4.590000e-138 501.0
22 TraesCS2B01G564800 chr2D 80.844 616 60 31 1029 1605 592410854 592411450 6.100000e-117 431.0
23 TraesCS2B01G564800 chr2D 84.348 460 43 11 2480 2916 638307430 638306977 1.020000e-114 424.0
24 TraesCS2B01G564800 chr2D 96.825 252 6 1 2236 2485 619045858 619045607 1.320000e-113 420.0
25 TraesCS2B01G564800 chr2D 79.938 648 61 33 216 832 619047570 619046961 2.210000e-111 412.0
26 TraesCS2B01G564800 chr2D 93.361 241 14 2 1270 1510 619052960 619052722 3.780000e-94 355.0
27 TraesCS2B01G564800 chr2D 89.455 275 26 2 2808 3080 83851993 83852266 8.180000e-91 344.0
28 TraesCS2B01G564800 chr2D 89.706 272 25 2 2811 3080 403481146 403480876 8.180000e-91 344.0
29 TraesCS2B01G564800 chr2D 89.726 146 13 2 2095 2238 100314013 100314158 5.240000e-43 185.0
30 TraesCS2B01G564800 chr2D 76.151 239 37 14 2236 2464 619057645 619057417 1.170000e-19 108.0
31 TraesCS2B01G564800 chr2D 83.333 78 8 3 267 339 548601348 548601271 1.980000e-07 67.6
32 TraesCS2B01G564800 chr2D 85.714 63 4 3 332 393 45551805 45551747 9.220000e-06 62.1
33 TraesCS2B01G564800 chr2D 85.965 57 4 3 333 389 484907036 484907088 1.190000e-04 58.4
34 TraesCS2B01G564800 chr4A 94.581 609 20 2 2485 3080 717725713 717726321 0.000000e+00 929.0
35 TraesCS2B01G564800 chr4A 86.207 609 32 10 2486 3079 733353612 733354183 2.030000e-171 612.0
36 TraesCS2B01G564800 chr4A 82.692 104 13 5 1679 1780 736113362 736113462 1.520000e-13 87.9
37 TraesCS2B01G564800 chr4A 84.884 86 10 3 1696 1780 734875084 734875167 1.970000e-12 84.2
38 TraesCS2B01G564800 chr4A 100.000 30 0 0 116 145 606786717 606786688 4.290000e-04 56.5
39 TraesCS2B01G564800 chr5B 94.243 608 22 2 2486 3080 281369060 281369667 0.000000e+00 917.0
40 TraesCS2B01G564800 chr5B 83.713 614 70 18 2486 3080 682508134 682507532 1.250000e-153 553.0
41 TraesCS2B01G564800 chr5B 83.630 281 38 8 2486 2759 460968676 460968397 1.100000e-64 257.0
42 TraesCS2B01G564800 chr5B 89.865 148 13 2 2092 2238 533628708 533628854 4.050000e-44 189.0
43 TraesCS2B01G564800 chr5B 89.865 148 12 3 2096 2242 244118005 244118150 1.460000e-43 187.0
44 TraesCS2B01G564800 chr3B 88.704 602 44 6 2485 3080 452699896 452700479 0.000000e+00 713.0
45 TraesCS2B01G564800 chr3B 90.278 144 12 2 2095 2238 795169605 795169746 1.460000e-43 187.0
46 TraesCS2B01G564800 chr1D 89.267 382 33 4 2529 2904 363854984 363855363 3.590000e-129 472.0
47 TraesCS2B01G564800 chr1D 89.455 275 25 3 2808 3080 363855230 363855502 8.180000e-91 344.0
48 TraesCS2B01G564800 chr6B 89.068 311 27 5 2775 3080 156565246 156565554 2.240000e-101 379.0
49 TraesCS2B01G564800 chr6B 81.553 103 18 1 1681 1782 639153395 639153497 1.970000e-12 84.2
50 TraesCS2B01G564800 chr6A 85.765 281 32 8 2485 2764 478916023 478916296 1.080000e-74 291.0
51 TraesCS2B01G564800 chr6A 74.803 254 40 13 105 338 609739593 609739842 3.270000e-15 93.5
52 TraesCS2B01G564800 chr1B 84.962 266 35 5 2482 2742 673458520 673458255 6.550000e-67 265.0
53 TraesCS2B01G564800 chr1B 84.444 90 11 3 1695 1782 174643820 174643732 5.470000e-13 86.1
54 TraesCS2B01G564800 chr1B 85.185 81 10 2 248 327 342327162 342327083 7.080000e-12 82.4
55 TraesCS2B01G564800 chr1B 81.609 87 15 1 116 201 90696131 90696045 1.530000e-08 71.3
56 TraesCS2B01G564800 chr1B 88.136 59 2 4 339 396 608048673 608048727 7.130000e-07 65.8
57 TraesCS2B01G564800 chr1B 79.775 89 15 3 243 328 90696042 90696130 9.220000e-06 62.1
58 TraesCS2B01G564800 chr4D 85.603 257 29 7 2486 2735 26526617 26526872 2.360000e-66 263.0
59 TraesCS2B01G564800 chr4D 88.372 172 19 1 1440 1610 493016996 493017167 4.030000e-49 206.0
60 TraesCS2B01G564800 chr4D 97.368 38 0 1 361 397 48070075 48070038 2.560000e-06 63.9
61 TraesCS2B01G564800 chr4D 97.297 37 0 1 361 396 477586264 477586300 9.220000e-06 62.1
62 TraesCS2B01G564800 chr4D 100.000 29 0 0 1922 1950 493017354 493017382 2.000000e-03 54.7
63 TraesCS2B01G564800 chr7B 93.431 137 7 2 2110 2246 47573 47439 5.210000e-48 202.0
64 TraesCS2B01G564800 chr7B 76.471 323 46 13 49 344 111326416 111326097 6.880000e-32 148.0
65 TraesCS2B01G564800 chr7B 85.882 85 10 2 1699 1782 613240176 613240093 4.230000e-14 89.8
66 TraesCS2B01G564800 chr7B 87.500 64 5 3 267 328 111326272 111326334 1.530000e-08 71.3
67 TraesCS2B01G564800 chrUn 91.971 137 9 2 2110 2245 43344643 43344508 1.130000e-44 191.0
68 TraesCS2B01G564800 chrUn 85.882 85 10 2 1699 1782 332851767 332851684 4.230000e-14 89.8
69 TraesCS2B01G564800 chrUn 97.297 37 0 1 361 396 38423532 38423496 9.220000e-06 62.1
70 TraesCS2B01G564800 chr1A 89.333 150 12 3 2096 2242 585983472 585983324 5.240000e-43 185.0
71 TraesCS2B01G564800 chr1A 94.545 55 2 1 1696 1749 513434630 513434684 1.970000e-12 84.2
72 TraesCS2B01G564800 chr5D 78.007 291 42 14 116 395 557215164 557214885 2.460000e-36 163.0
73 TraesCS2B01G564800 chr5D 86.301 73 4 5 332 402 529762582 529762650 1.180000e-09 75.0
74 TraesCS2B01G564800 chr5D 84.615 65 5 4 333 396 22867744 22867684 3.320000e-05 60.2
75 TraesCS2B01G564800 chr3D 74.539 271 54 11 90 347 593082383 593082651 1.510000e-18 104.0
76 TraesCS2B01G564800 chr3D 74.882 211 36 14 119 319 147919173 147918970 2.550000e-11 80.5
77 TraesCS2B01G564800 chr3D 93.333 45 2 1 285 328 88097438 88097482 7.130000e-07 65.8
78 TraesCS2B01G564800 chr3D 86.154 65 4 3 334 397 613075160 613075100 7.130000e-07 65.8
79 TraesCS2B01G564800 chr3D 97.368 38 0 1 361 397 428518448 428518411 2.560000e-06 63.9
80 TraesCS2B01G564800 chr3D 85.938 64 4 3 332 394 565611478 565611537 2.560000e-06 63.9
81 TraesCS2B01G564800 chr3A 85.149 101 14 1 1683 1782 13089697 13089597 5.430000e-18 102.0
82 TraesCS2B01G564800 chr3A 80.208 96 16 3 247 339 104562237 104562332 5.510000e-08 69.4
83 TraesCS2B01G564800 chr7D 86.154 65 9 0 1691 1755 36611269 36611333 1.530000e-08 71.3
84 TraesCS2B01G564800 chr7D 86.364 66 4 3 332 396 464363063 464363002 1.980000e-07 67.6
85 TraesCS2B01G564800 chr6D 86.154 65 4 3 334 397 48529956 48529896 7.130000e-07 65.8
86 TraesCS2B01G564800 chr7A 97.059 34 0 1 110 143 17376677 17376645 4.290000e-04 56.5
87 TraesCS2B01G564800 chr5A 100.000 29 0 0 1922 1950 673089378 673089350 2.000000e-03 54.7
88 TraesCS2B01G564800 chr4B 100.000 29 0 0 1922 1950 631608333 631608305 2.000000e-03 54.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G564800 chr2B 756551454 756554533 3079 True 5688.000000 5688 100.000000 1 3080 1 chr2B.!!$R3 3079
1 TraesCS2B01G564800 chr2B 756569060 756571426 2366 True 409.050000 756 93.436000 962 2466 2 chr2B.!!$R5 1504
2 TraesCS2B01G564800 chr2B 718396244 718396793 549 False 215.500000 224 85.914000 1029 1604 2 chr2B.!!$F3 575
3 TraesCS2B01G564800 chr2A 749903364 749905573 2209 True 911.000000 2012 89.623667 3 2485 3 chr2A.!!$R1 2482
4 TraesCS2B01G564800 chr2A 726985970 726986569 599 False 416.000000 416 80.452000 1029 1605 1 chr2A.!!$F1 576
5 TraesCS2B01G564800 chr2A 749910111 749915112 5001 True 358.333333 590 89.260000 1095 2472 3 chr2A.!!$R2 1377
6 TraesCS2B01G564800 chr2D 619045607 619047570 1963 True 627.500000 1177 91.525750 216 2485 4 chr2D.!!$R6 2269
7 TraesCS2B01G564800 chr2D 619057417 619058628 1211 True 477.000000 846 83.068000 962 2464 2 chr2D.!!$R7 1502
8 TraesCS2B01G564800 chr2D 83851707 83852266 559 False 437.500000 531 89.539000 2487 3080 2 chr2D.!!$F4 593
9 TraesCS2B01G564800 chr2D 403480876 403481438 562 True 431.000000 518 89.323500 2486 3080 2 chr2D.!!$R5 594
10 TraesCS2B01G564800 chr2D 592410854 592411450 596 False 431.000000 431 80.844000 1029 1605 1 chr2D.!!$F3 576
11 TraesCS2B01G564800 chr4A 717725713 717726321 608 False 929.000000 929 94.581000 2485 3080 1 chr4A.!!$F1 595
12 TraesCS2B01G564800 chr4A 733353612 733354183 571 False 612.000000 612 86.207000 2486 3079 1 chr4A.!!$F2 593
13 TraesCS2B01G564800 chr5B 281369060 281369667 607 False 917.000000 917 94.243000 2486 3080 1 chr5B.!!$F2 594
14 TraesCS2B01G564800 chr5B 682507532 682508134 602 True 553.000000 553 83.713000 2486 3080 1 chr5B.!!$R2 594
15 TraesCS2B01G564800 chr3B 452699896 452700479 583 False 713.000000 713 88.704000 2485 3080 1 chr3B.!!$F1 595
16 TraesCS2B01G564800 chr1D 363854984 363855502 518 False 408.000000 472 89.361000 2529 3080 2 chr1D.!!$F1 551

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
438 468 0.029567 GTCTCGCGAGGTCTACCATG 59.970 60.0 33.98 7.32 38.89 3.66 F
623 672 0.518636 CCTCCAACGCTCATGTTGTG 59.481 55.0 5.96 0.00 46.08 3.33 F
1024 1089 0.538977 ACTCTGTGCTTGCATTGCCT 60.539 50.0 6.12 0.00 0.00 4.75 F
1025 1090 0.601558 CTCTGTGCTTGCATTGCCTT 59.398 50.0 6.12 0.00 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 5328 0.338814 AGGTACTCCTTCCGTCCCAT 59.661 55.000 0.00 0.00 42.12 4.00 R
1771 5334 0.386113 GCTAGCAGGTACTCCTTCCG 59.614 60.000 10.63 0.00 43.07 4.30 R
1888 5475 1.410882 GCTTCTGCTGGAGGGTACTAG 59.589 57.143 0.52 0.00 36.03 2.57 R
2406 7302 1.586564 GCGCAGGTACGTAGCTCAG 60.587 63.158 23.75 19.82 34.88 3.35 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
88 91 4.262121 GCTCATATGCTCTCTGATGACAGT 60.262 45.833 0.00 0.00 43.81 3.55
91 94 7.352079 TCATATGCTCTCTGATGACAGTAAA 57.648 36.000 0.00 0.00 43.81 2.01
92 95 7.785033 TCATATGCTCTCTGATGACAGTAAAA 58.215 34.615 0.00 0.00 43.81 1.52
93 96 8.427276 TCATATGCTCTCTGATGACAGTAAAAT 58.573 33.333 0.00 0.00 43.81 1.82
94 97 9.053840 CATATGCTCTCTGATGACAGTAAAATT 57.946 33.333 0.00 0.00 43.81 1.82
149 155 7.865385 GGTAAACTTTGACAAATATTCTGTGCA 59.135 33.333 0.05 0.00 0.00 4.57
242 251 9.961265 GCTAGTTTTTAAAGTATTTTGGAGTGT 57.039 29.630 0.00 0.00 40.09 3.55
271 285 5.781210 TTTCCATGACTTGCACAAATGTA 57.219 34.783 0.00 0.00 0.00 2.29
414 443 6.262273 ACTTTCGCCTTCATTTTCACTTCTTA 59.738 34.615 0.00 0.00 0.00 2.10
436 466 1.748122 GGTCTCGCGAGGTCTACCA 60.748 63.158 33.98 11.88 38.89 3.25
438 468 0.029567 GTCTCGCGAGGTCTACCATG 59.970 60.000 33.98 7.32 38.89 3.66
448 478 0.743345 GTCTACCATGGTTGTCGCCC 60.743 60.000 25.38 5.02 0.00 6.13
453 483 2.933287 ATGGTTGTCGCCCCCAGA 60.933 61.111 0.00 0.00 0.00 3.86
492 522 3.302344 CCTGTTGGTTTGCCCGGG 61.302 66.667 19.09 19.09 35.15 5.73
500 530 1.979693 GTTTGCCCGGGTGCCATAA 60.980 57.895 24.63 5.38 0.00 1.90
516 546 6.698766 GGTGCCATAATTTGATTAGCTTTCTG 59.301 38.462 0.00 0.00 0.00 3.02
529 559 4.660789 AGCTTTCTGTCACTTTTGCATT 57.339 36.364 0.00 0.00 0.00 3.56
545 575 9.768662 ACTTTTGCATTTGATAATTTTCACTCT 57.231 25.926 0.00 0.00 0.00 3.24
565 610 5.183904 ACTCTTAGAACCAAATCCATGTTGC 59.816 40.000 0.00 0.00 0.00 4.17
621 670 1.236616 TGCCTCCAACGCTCATGTTG 61.237 55.000 0.00 0.00 46.86 3.33
623 672 0.518636 CCTCCAACGCTCATGTTGTG 59.481 55.000 5.96 0.00 46.08 3.33
670 720 1.301009 CCTTTATCTCGCCCCTCGC 60.301 63.158 0.00 0.00 38.27 5.03
703 753 2.094100 TTCAGGGGAGAGATAGGCAG 57.906 55.000 0.00 0.00 0.00 4.85
719 769 1.526464 GGCAGGCGTTTTGTCAAAATG 59.474 47.619 21.17 21.17 39.74 2.32
725 775 3.000825 GGCGTTTTGTCAAAATGGTGAAC 59.999 43.478 24.77 12.10 37.74 3.18
729 779 6.129194 GCGTTTTGTCAAAATGGTGAACTATC 60.129 38.462 24.77 7.39 37.74 2.08
737 787 8.299570 GTCAAAATGGTGAACTATCAGTGAAAT 58.700 33.333 0.00 0.00 35.88 2.17
773 823 9.912634 AGAGAATAACATGTAAATGTTTGTTGG 57.087 29.630 16.38 0.00 41.55 3.77
800 850 9.290988 GTGAGAGAGAAACCACTATAGATGATA 57.709 37.037 6.78 0.00 0.00 2.15
809 860 6.664714 ACCACTATAGATGATATAGCGGTCT 58.335 40.000 6.78 2.01 38.06 3.85
850 901 2.190161 CAATTGATGCATGCACGGAAG 58.810 47.619 25.37 8.00 0.00 3.46
851 902 0.742505 ATTGATGCATGCACGGAAGG 59.257 50.000 25.37 0.00 0.00 3.46
883 934 6.599445 CATGGTAGAAAATCCTCTCTCCAAT 58.401 40.000 0.00 0.00 35.03 3.16
898 949 5.243730 TCTCTCCAATTTCCAAACCATGTTC 59.756 40.000 0.00 0.00 0.00 3.18
909 960 3.715628 AACCATGTTCACTTGTCTTGC 57.284 42.857 0.00 0.00 0.00 4.01
1004 1061 7.164122 AGCACTATCTATATGTGGACCAAATG 58.836 38.462 7.48 0.00 32.85 2.32
1010 1067 6.820335 TCTATATGTGGACCAAATGACTCTG 58.180 40.000 7.48 0.00 0.00 3.35
1022 1087 0.594602 TGACTCTGTGCTTGCATTGC 59.405 50.000 0.46 0.46 0.00 3.56
1024 1089 0.538977 ACTCTGTGCTTGCATTGCCT 60.539 50.000 6.12 0.00 0.00 4.75
1025 1090 0.601558 CTCTGTGCTTGCATTGCCTT 59.398 50.000 6.12 0.00 0.00 4.35
1390 4935 1.283793 CGGCTGTCACTTTGGCTTG 59.716 57.895 0.00 0.00 0.00 4.01
1610 5173 7.227314 AGGACTTCATCAACGTACGTACATATA 59.773 37.037 23.12 8.22 0.00 0.86
1611 5174 7.533222 GGACTTCATCAACGTACGTACATATAG 59.467 40.741 23.12 16.65 0.00 1.31
1612 5175 7.923888 ACTTCATCAACGTACGTACATATAGT 58.076 34.615 23.12 17.25 0.00 2.12
1613 5176 8.066595 ACTTCATCAACGTACGTACATATAGTC 58.933 37.037 23.12 0.00 0.00 2.59
1614 5177 7.481275 TCATCAACGTACGTACATATAGTCA 57.519 36.000 23.12 5.82 0.00 3.41
1615 5178 8.091385 TCATCAACGTACGTACATATAGTCAT 57.909 34.615 23.12 0.00 0.00 3.06
1616 5179 9.206870 TCATCAACGTACGTACATATAGTCATA 57.793 33.333 23.12 4.76 0.00 2.15
1617 5180 9.983804 CATCAACGTACGTACATATAGTCATAT 57.016 33.333 23.12 0.00 0.00 1.78
1640 5203 4.826556 ACACATGGCTACTTCTCTCTTTC 58.173 43.478 0.00 0.00 0.00 2.62
1650 5213 6.536941 GCTACTTCTCTCTTTCCCATTTACTG 59.463 42.308 0.00 0.00 0.00 2.74
1659 5222 7.993183 TCTCTTTCCCATTTACTGCCTAATTAG 59.007 37.037 5.43 5.43 0.00 1.73
1660 5223 7.060421 TCTTTCCCATTTACTGCCTAATTAGG 58.940 38.462 24.90 24.90 46.42 2.69
1661 5224 6.584471 TTCCCATTTACTGCCTAATTAGGA 57.416 37.500 31.78 16.94 46.63 2.94
1662 5225 6.187727 TCCCATTTACTGCCTAATTAGGAG 57.812 41.667 31.78 25.20 46.63 3.69
1663 5226 4.762251 CCCATTTACTGCCTAATTAGGAGC 59.238 45.833 31.78 18.80 46.63 4.70
1664 5227 5.376625 CCATTTACTGCCTAATTAGGAGCA 58.623 41.667 31.78 21.90 46.63 4.26
1665 5228 6.006449 CCATTTACTGCCTAATTAGGAGCAT 58.994 40.000 31.78 16.75 46.63 3.79
1666 5229 6.491403 CCATTTACTGCCTAATTAGGAGCATT 59.509 38.462 31.78 19.56 46.63 3.56
1714 5277 8.690203 TCCTTTGTCTCAAAATAAATGTCTCA 57.310 30.769 0.00 0.00 0.00 3.27
1715 5278 9.130661 TCCTTTGTCTCAAAATAAATGTCTCAA 57.869 29.630 0.00 0.00 0.00 3.02
1716 5279 9.748708 CCTTTGTCTCAAAATAAATGTCTCAAA 57.251 29.630 0.00 0.00 0.00 2.69
1768 5331 9.849166 AATACAAAGTTGAACCGTTTATTATGG 57.151 29.630 0.00 0.00 39.00 2.74
1769 5332 6.683715 ACAAAGTTGAACCGTTTATTATGGG 58.316 36.000 0.00 0.00 37.22 4.00
1770 5333 6.490721 ACAAAGTTGAACCGTTTATTATGGGA 59.509 34.615 0.00 0.00 37.22 4.37
1771 5334 6.505044 AAGTTGAACCGTTTATTATGGGAC 57.495 37.500 0.00 0.00 37.22 4.46
1772 5335 4.632688 AGTTGAACCGTTTATTATGGGACG 59.367 41.667 0.00 0.00 37.22 4.79
1778 5341 4.062677 CGTTTATTATGGGACGGAAGGA 57.937 45.455 0.00 0.00 32.29 3.36
1779 5342 4.056050 CGTTTATTATGGGACGGAAGGAG 58.944 47.826 0.00 0.00 32.29 3.69
1780 5343 4.442472 CGTTTATTATGGGACGGAAGGAGT 60.442 45.833 0.00 0.00 32.29 3.85
1781 5344 5.221303 CGTTTATTATGGGACGGAAGGAGTA 60.221 44.000 0.00 0.00 32.29 2.59
1782 5345 5.796424 TTATTATGGGACGGAAGGAGTAC 57.204 43.478 0.00 0.00 0.00 2.73
1783 5346 2.077687 TATGGGACGGAAGGAGTACC 57.922 55.000 0.00 0.00 42.94 3.34
2004 5597 0.236711 CAGCAGCTTCGTTCCACTTG 59.763 55.000 0.00 0.00 0.00 3.16
2062 5662 6.968263 AGCTAGATGACTTATTCAGCACTA 57.032 37.500 0.00 0.00 43.63 2.74
2083 5683 7.481169 GCACTAGACTACTCGTTAACAAAGTAG 59.519 40.741 27.59 27.59 45.15 2.57
2108 5709 9.956640 AGTACTACTACTATGTACTCTGTGTTT 57.043 33.333 0.00 0.00 41.86 2.83
2109 5710 9.985318 GTACTACTACTATGTACTCTGTGTTTG 57.015 37.037 0.00 0.00 35.16 2.93
2110 5711 8.632906 ACTACTACTATGTACTCTGTGTTTGT 57.367 34.615 0.00 0.00 0.00 2.83
2111 5712 9.730705 ACTACTACTATGTACTCTGTGTTTGTA 57.269 33.333 0.00 0.00 0.00 2.41
2112 5713 9.985318 CTACTACTATGTACTCTGTGTTTGTAC 57.015 37.037 0.00 0.00 37.60 2.90
2113 5714 8.632906 ACTACTATGTACTCTGTGTTTGTACT 57.367 34.615 0.00 0.00 37.85 2.73
2114 5715 8.728833 ACTACTATGTACTCTGTGTTTGTACTC 58.271 37.037 0.00 0.00 37.85 2.59
2115 5716 6.921914 ACTATGTACTCTGTGTTTGTACTCC 58.078 40.000 0.00 0.00 37.85 3.85
2116 5717 4.595762 TGTACTCTGTGTTTGTACTCCC 57.404 45.455 0.00 0.00 37.85 4.30
2117 5718 4.220724 TGTACTCTGTGTTTGTACTCCCT 58.779 43.478 0.00 0.00 37.85 4.20
2118 5719 4.280174 TGTACTCTGTGTTTGTACTCCCTC 59.720 45.833 0.00 0.00 37.85 4.30
2119 5720 2.633481 ACTCTGTGTTTGTACTCCCTCC 59.367 50.000 0.00 0.00 0.00 4.30
2120 5721 1.616865 TCTGTGTTTGTACTCCCTCCG 59.383 52.381 0.00 0.00 0.00 4.63
2121 5722 1.343465 CTGTGTTTGTACTCCCTCCGT 59.657 52.381 0.00 0.00 0.00 4.69
2122 5723 2.559668 CTGTGTTTGTACTCCCTCCGTA 59.440 50.000 0.00 0.00 0.00 4.02
2123 5724 2.964464 TGTGTTTGTACTCCCTCCGTAA 59.036 45.455 0.00 0.00 0.00 3.18
2124 5725 3.006110 TGTGTTTGTACTCCCTCCGTAAG 59.994 47.826 0.00 0.00 0.00 2.34
2145 5746 9.277565 CGTAAGGAAATACTTGTCATCAAAATG 57.722 33.333 0.00 0.00 32.87 2.32
2156 5757 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
2157 5758 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
2158 5759 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
2159 5760 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
2160 5761 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
2161 5762 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
2164 5765 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
2170 5771 9.170890 TGAATAAAAGGGGATGTATCTAGATGT 57.829 33.333 15.79 1.25 0.00 3.06
2178 5779 9.845214 AGGGGATGTATCTAGATGTATTTTAGT 57.155 33.333 15.79 0.00 0.00 2.24
2224 5825 8.638565 GTCAATTTTGATGACAAGTATTTTCGG 58.361 33.333 2.01 0.00 45.13 4.30
2225 5826 8.572185 TCAATTTTGATGACAAGTATTTTCGGA 58.428 29.630 0.00 0.00 37.32 4.55
2226 5827 8.638565 CAATTTTGATGACAAGTATTTTCGGAC 58.361 33.333 0.00 0.00 37.32 4.79
2227 5828 6.869315 TTTGATGACAAGTATTTTCGGACA 57.131 33.333 0.00 0.00 37.32 4.02
2228 5829 6.480524 TTGATGACAAGTATTTTCGGACAG 57.519 37.500 0.00 0.00 0.00 3.51
2229 5830 5.789521 TGATGACAAGTATTTTCGGACAGA 58.210 37.500 0.00 0.00 0.00 3.41
2230 5831 6.227522 TGATGACAAGTATTTTCGGACAGAA 58.772 36.000 0.00 0.00 37.01 3.02
2231 5832 6.368791 TGATGACAAGTATTTTCGGACAGAAG 59.631 38.462 0.00 0.00 40.40 2.85
2232 5833 4.994852 TGACAAGTATTTTCGGACAGAAGG 59.005 41.667 0.00 0.00 40.40 3.46
2233 5834 5.221561 TGACAAGTATTTTCGGACAGAAGGA 60.222 40.000 0.00 0.00 40.40 3.36
2234 5835 5.617252 ACAAGTATTTTCGGACAGAAGGAA 58.383 37.500 0.00 0.00 40.40 3.36
2235 5836 6.238648 ACAAGTATTTTCGGACAGAAGGAAT 58.761 36.000 0.00 0.00 40.40 3.01
2236 5837 7.391620 ACAAGTATTTTCGGACAGAAGGAATA 58.608 34.615 0.00 0.00 40.40 1.75
2237 5838 8.047310 ACAAGTATTTTCGGACAGAAGGAATAT 58.953 33.333 0.00 0.00 40.40 1.28
2238 5839 9.542462 CAAGTATTTTCGGACAGAAGGAATATA 57.458 33.333 0.00 0.00 40.40 0.86
2270 5873 2.910199 TCATAGCCTACTTGCTTGCAG 58.090 47.619 0.00 0.00 42.75 4.41
2406 7302 2.883386 GGCCAGAGATGAATGGATCAAC 59.117 50.000 0.00 0.00 42.54 3.18
2419 7321 2.426024 TGGATCAACTGAGCTACGTACC 59.574 50.000 0.00 0.00 0.00 3.34
2621 7524 5.836821 TGTCGAGTGCTTATCTATTGACT 57.163 39.130 0.00 0.00 0.00 3.41
2702 7630 4.052518 GGGGCCCACATGTCAGCT 62.053 66.667 26.86 0.00 0.00 4.24
2703 7631 2.036256 GGGCCCACATGTCAGCTT 59.964 61.111 19.95 0.00 0.00 3.74
2704 7632 2.048603 GGGCCCACATGTCAGCTTC 61.049 63.158 19.95 5.91 0.00 3.86
2705 7633 1.001641 GGCCCACATGTCAGCTTCT 60.002 57.895 14.53 0.00 0.00 2.85
2706 7634 1.028868 GGCCCACATGTCAGCTTCTC 61.029 60.000 14.53 0.00 0.00 2.87
2707 7635 0.035630 GCCCACATGTCAGCTTCTCT 60.036 55.000 8.98 0.00 0.00 3.10
2708 7636 1.612726 GCCCACATGTCAGCTTCTCTT 60.613 52.381 8.98 0.00 0.00 2.85
2709 7637 2.787994 CCCACATGTCAGCTTCTCTTT 58.212 47.619 0.00 0.00 0.00 2.52
2710 7638 3.152341 CCCACATGTCAGCTTCTCTTTT 58.848 45.455 0.00 0.00 0.00 2.27
2711 7639 3.190118 CCCACATGTCAGCTTCTCTTTTC 59.810 47.826 0.00 0.00 0.00 2.29
2712 7640 4.070716 CCACATGTCAGCTTCTCTTTTCT 58.929 43.478 0.00 0.00 0.00 2.52
2713 7641 4.518211 CCACATGTCAGCTTCTCTTTTCTT 59.482 41.667 0.00 0.00 0.00 2.52
2714 7642 5.334724 CCACATGTCAGCTTCTCTTTTCTTC 60.335 44.000 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 23 2.717639 ATGAAGGCCGCTATCAAAGT 57.282 45.000 0.00 0.00 0.00 2.66
46 49 0.749649 CTCGGAAGCAGCTACTCCAT 59.250 55.000 12.78 0.00 0.00 3.41
169 175 3.338249 CACGACTTCCATGAATGTCCTT 58.662 45.455 0.00 0.00 0.00 3.36
215 224 9.959749 CACTCCAAAATACTTTAAAAACTAGCA 57.040 29.630 0.00 0.00 0.00 3.49
216 225 9.961265 ACACTCCAAAATACTTTAAAAACTAGC 57.039 29.630 0.00 0.00 0.00 3.42
271 285 8.665643 TGCTTGAAAATTTTCATCATGAAACT 57.334 26.923 29.13 4.69 45.03 2.66
389 418 4.580580 AGAAGTGAAAATGAAGGCGAAAGT 59.419 37.500 0.00 0.00 0.00 2.66
398 427 6.472887 AGACCCGATAAGAAGTGAAAATGAA 58.527 36.000 0.00 0.00 0.00 2.57
414 443 2.321263 TAGACCTCGCGAGACCCGAT 62.321 60.000 36.59 17.53 41.76 4.18
436 466 2.933287 TCTGGGGGCGACAACCAT 60.933 61.111 4.21 0.00 38.10 3.55
438 468 3.637273 AGTCTGGGGGCGACAACC 61.637 66.667 0.00 0.00 33.89 3.77
448 478 2.185350 CGTAGGCAGCAGTCTGGG 59.815 66.667 1.14 0.00 40.65 4.45
473 503 2.727544 CGGGCAAACCAACAGGTG 59.272 61.111 0.00 0.00 40.22 4.00
478 508 4.293648 GCACCCGGGCAAACCAAC 62.294 66.667 24.08 0.00 40.22 3.77
492 522 7.260603 ACAGAAAGCTAATCAAATTATGGCAC 58.739 34.615 0.00 0.00 0.00 5.01
500 530 7.383300 GCAAAAGTGACAGAAAGCTAATCAAAT 59.617 33.333 0.00 0.00 0.00 2.32
516 546 9.584839 GTGAAAATTATCAAATGCAAAAGTGAC 57.415 29.630 0.00 0.00 0.00 3.67
545 575 4.075682 TCGCAACATGGATTTGGTTCTAA 58.924 39.130 0.00 0.00 0.00 2.10
583 628 4.336433 AGGCAACAAGATTAATGATGGTCG 59.664 41.667 0.00 0.00 41.41 4.79
676 726 1.561542 TCTCTCCCCTGAATCTTTGGC 59.438 52.381 0.00 0.00 0.00 4.52
703 753 2.815478 TCACCATTTTGACAAAACGCC 58.185 42.857 15.36 0.00 32.37 5.68
719 769 7.544566 TCGACTAAATTTCACTGATAGTTCACC 59.455 37.037 0.00 0.00 0.00 4.02
767 817 2.507886 TGGTTTCTCTCTCACCCAACAA 59.492 45.455 0.00 0.00 0.00 2.83
773 823 6.547880 TCATCTATAGTGGTTTCTCTCTCACC 59.452 42.308 0.00 0.00 0.00 4.02
800 850 0.608130 TTGCTGTGTGAGACCGCTAT 59.392 50.000 0.00 0.00 35.87 2.97
834 885 1.002257 ACCTTCCGTGCATGCATCA 60.002 52.632 25.64 7.92 0.00 3.07
848 899 3.719268 TTCTACCATGCATGTGACCTT 57.281 42.857 24.58 4.92 0.00 3.50
850 901 4.202050 GGATTTTCTACCATGCATGTGACC 60.202 45.833 24.58 12.58 0.00 4.02
851 902 4.641989 AGGATTTTCTACCATGCATGTGAC 59.358 41.667 24.58 8.20 0.00 3.67
883 934 4.709397 AGACAAGTGAACATGGTTTGGAAA 59.291 37.500 0.00 0.00 0.00 3.13
898 949 1.338020 GAAAGGTGGGCAAGACAAGTG 59.662 52.381 0.00 0.00 0.00 3.16
909 960 0.821711 TTGCGACCAAGAAAGGTGGG 60.822 55.000 0.00 0.00 43.38 4.61
1004 1061 0.109412 GGCAATGCAAGCACAGAGTC 60.109 55.000 7.79 0.00 0.00 3.36
1010 1067 0.389426 CAGGAAGGCAATGCAAGCAC 60.389 55.000 7.79 6.01 0.00 4.40
1022 1087 3.118261 TCAAATGTAGCTAGGCAGGAAGG 60.118 47.826 0.00 0.00 0.00 3.46
1024 1089 3.519510 AGTCAAATGTAGCTAGGCAGGAA 59.480 43.478 0.00 0.00 0.00 3.36
1025 1090 3.107601 AGTCAAATGTAGCTAGGCAGGA 58.892 45.455 0.00 0.00 0.00 3.86
1456 5019 0.462047 GGTTCTTGATCATCCGGCGT 60.462 55.000 6.01 0.00 0.00 5.68
1610 5173 6.780031 AGAGAAGTAGCCATGTGTATATGACT 59.220 38.462 0.00 0.00 0.00 3.41
1611 5174 6.987386 AGAGAAGTAGCCATGTGTATATGAC 58.013 40.000 0.00 0.00 0.00 3.06
1612 5175 7.007116 AGAGAGAAGTAGCCATGTGTATATGA 58.993 38.462 0.00 0.00 0.00 2.15
1613 5176 7.225784 AGAGAGAAGTAGCCATGTGTATATG 57.774 40.000 0.00 0.00 0.00 1.78
1614 5177 7.847711 AAGAGAGAAGTAGCCATGTGTATAT 57.152 36.000 0.00 0.00 0.00 0.86
1615 5178 7.201920 GGAAAGAGAGAAGTAGCCATGTGTATA 60.202 40.741 0.00 0.00 0.00 1.47
1616 5179 6.407525 GGAAAGAGAGAAGTAGCCATGTGTAT 60.408 42.308 0.00 0.00 0.00 2.29
1617 5180 5.105310 GGAAAGAGAGAAGTAGCCATGTGTA 60.105 44.000 0.00 0.00 0.00 2.90
1623 5186 2.902608 TGGGAAAGAGAGAAGTAGCCA 58.097 47.619 0.00 0.00 0.00 4.75
1640 5203 4.762251 GCTCCTAATTAGGCAGTAAATGGG 59.238 45.833 24.52 1.32 43.31 4.00
1650 5213 7.751768 ATGAAACTAATGCTCCTAATTAGGC 57.248 36.000 24.52 15.16 43.31 3.93
1688 5251 9.130661 TGAGACATTTATTTTGAGACAAAGGAA 57.869 29.630 0.00 0.00 0.00 3.36
1689 5252 8.690203 TGAGACATTTATTTTGAGACAAAGGA 57.310 30.769 0.00 0.00 0.00 3.36
1690 5253 9.748708 TTTGAGACATTTATTTTGAGACAAAGG 57.251 29.630 0.00 0.00 0.00 3.11
1742 5305 9.849166 CCATAATAAACGGTTCAACTTTGTATT 57.151 29.630 0.00 0.00 0.00 1.89
1743 5306 8.463607 CCCATAATAAACGGTTCAACTTTGTAT 58.536 33.333 0.00 0.00 0.00 2.29
1744 5307 7.664731 TCCCATAATAAACGGTTCAACTTTGTA 59.335 33.333 0.00 0.00 0.00 2.41
1745 5308 6.490721 TCCCATAATAAACGGTTCAACTTTGT 59.509 34.615 0.00 0.00 0.00 2.83
1746 5309 6.804783 GTCCCATAATAAACGGTTCAACTTTG 59.195 38.462 0.00 0.00 0.00 2.77
1747 5310 6.348704 CGTCCCATAATAAACGGTTCAACTTT 60.349 38.462 0.00 0.00 0.00 2.66
1748 5311 5.122711 CGTCCCATAATAAACGGTTCAACTT 59.877 40.000 0.00 0.00 0.00 2.66
1749 5312 4.632688 CGTCCCATAATAAACGGTTCAACT 59.367 41.667 0.00 0.00 0.00 3.16
1750 5313 4.900664 CGTCCCATAATAAACGGTTCAAC 58.099 43.478 0.00 0.00 0.00 3.18
1757 5320 4.056050 CTCCTTCCGTCCCATAATAAACG 58.944 47.826 0.00 0.00 35.01 3.60
1758 5321 5.032327 ACTCCTTCCGTCCCATAATAAAC 57.968 43.478 0.00 0.00 0.00 2.01
1759 5322 5.070847 GGTACTCCTTCCGTCCCATAATAAA 59.929 44.000 0.00 0.00 0.00 1.40
1760 5323 4.590222 GGTACTCCTTCCGTCCCATAATAA 59.410 45.833 0.00 0.00 0.00 1.40
1761 5324 4.140853 AGGTACTCCTTCCGTCCCATAATA 60.141 45.833 0.00 0.00 42.12 0.98
1762 5325 2.970640 GGTACTCCTTCCGTCCCATAAT 59.029 50.000 0.00 0.00 0.00 1.28
1763 5326 2.023695 AGGTACTCCTTCCGTCCCATAA 60.024 50.000 0.00 0.00 42.12 1.90
1764 5327 1.572415 AGGTACTCCTTCCGTCCCATA 59.428 52.381 0.00 0.00 42.12 2.74
1765 5328 0.338814 AGGTACTCCTTCCGTCCCAT 59.661 55.000 0.00 0.00 42.12 4.00
1766 5329 0.613853 CAGGTACTCCTTCCGTCCCA 60.614 60.000 0.00 0.00 43.07 4.37
1767 5330 1.957765 GCAGGTACTCCTTCCGTCCC 61.958 65.000 0.00 0.00 43.07 4.46
1768 5331 0.971447 AGCAGGTACTCCTTCCGTCC 60.971 60.000 0.00 0.00 43.07 4.79
1769 5332 1.677052 CTAGCAGGTACTCCTTCCGTC 59.323 57.143 0.00 0.00 43.07 4.79
1770 5333 1.765230 CTAGCAGGTACTCCTTCCGT 58.235 55.000 0.00 0.00 43.07 4.69
1771 5334 0.386113 GCTAGCAGGTACTCCTTCCG 59.614 60.000 10.63 0.00 43.07 4.30
1772 5335 1.783071 AGCTAGCAGGTACTCCTTCC 58.217 55.000 18.83 0.00 43.07 3.46
1773 5336 2.624364 GGTAGCTAGCAGGTACTCCTTC 59.376 54.545 18.83 0.00 45.66 3.46
1774 5337 2.245287 AGGTAGCTAGCAGGTACTCCTT 59.755 50.000 24.01 0.00 45.66 3.36
1775 5338 1.854280 AGGTAGCTAGCAGGTACTCCT 59.146 52.381 24.01 6.81 45.66 3.69
1776 5339 1.957877 CAGGTAGCTAGCAGGTACTCC 59.042 57.143 24.01 4.49 45.66 3.85
1777 5340 2.933573 TCAGGTAGCTAGCAGGTACTC 58.066 52.381 24.01 5.44 45.66 2.59
1778 5341 3.383698 TTCAGGTAGCTAGCAGGTACT 57.616 47.619 24.01 4.57 45.66 2.73
1779 5342 4.467198 TTTTCAGGTAGCTAGCAGGTAC 57.533 45.455 24.01 10.65 45.65 3.34
1780 5343 4.469945 ACATTTTCAGGTAGCTAGCAGGTA 59.530 41.667 24.01 7.64 0.00 3.08
1781 5344 3.264450 ACATTTTCAGGTAGCTAGCAGGT 59.736 43.478 24.01 8.52 0.00 4.00
1782 5345 3.878778 ACATTTTCAGGTAGCTAGCAGG 58.121 45.455 24.01 15.50 0.00 4.85
1783 5346 6.109359 AGTAACATTTTCAGGTAGCTAGCAG 58.891 40.000 24.01 16.65 0.00 4.24
1784 5347 6.049955 AGTAACATTTTCAGGTAGCTAGCA 57.950 37.500 24.01 4.06 0.00 3.49
1888 5475 1.410882 GCTTCTGCTGGAGGGTACTAG 59.589 57.143 0.52 0.00 36.03 2.57
2004 5597 3.118884 AGCTTGGACAATCAATCCATTGC 60.119 43.478 9.93 9.93 45.71 3.56
2083 5683 9.985318 CAAACACAGAGTACATAGTAGTAGTAC 57.015 37.037 0.00 0.00 38.65 2.73
2103 5704 3.582780 CTTACGGAGGGAGTACAAACAC 58.417 50.000 0.00 0.00 0.00 3.32
2106 5707 3.173953 TCCTTACGGAGGGAGTACAAA 57.826 47.619 0.00 0.00 46.31 2.83
2107 5708 2.905415 TCCTTACGGAGGGAGTACAA 57.095 50.000 0.00 0.00 46.31 2.41
2108 5709 2.905415 TTCCTTACGGAGGGAGTACA 57.095 50.000 0.00 0.00 46.31 2.90
2109 5710 4.892345 AGTATTTCCTTACGGAGGGAGTAC 59.108 45.833 12.73 12.73 43.42 2.73
2110 5711 5.134725 AGTATTTCCTTACGGAGGGAGTA 57.865 43.478 0.00 0.00 46.31 2.59
2111 5712 3.991683 AGTATTTCCTTACGGAGGGAGT 58.008 45.455 0.00 0.00 46.31 3.85
2112 5713 4.161754 ACAAGTATTTCCTTACGGAGGGAG 59.838 45.833 0.00 0.00 46.31 4.30
2113 5714 4.098894 ACAAGTATTTCCTTACGGAGGGA 58.901 43.478 0.00 0.00 46.31 4.20
2114 5715 4.081309 TGACAAGTATTTCCTTACGGAGGG 60.081 45.833 7.19 0.00 46.31 4.30
2116 5717 6.338146 TGATGACAAGTATTTCCTTACGGAG 58.662 40.000 0.00 0.00 41.25 4.63
2117 5718 6.288941 TGATGACAAGTATTTCCTTACGGA 57.711 37.500 0.00 0.00 37.60 4.69
2118 5719 6.978343 TTGATGACAAGTATTTCCTTACGG 57.022 37.500 0.00 0.00 0.00 4.02
2119 5720 9.277565 CATTTTGATGACAAGTATTTCCTTACG 57.722 33.333 0.00 0.00 37.32 3.18
2130 5731 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
2131 5732 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
2132 5733 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
2133 5734 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
2134 5735 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
2135 5736 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
2138 5739 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
2144 5745 9.170890 ACATCTAGATACATCCCCTTTTATTCA 57.829 33.333 4.54 0.00 0.00 2.57
2152 5753 9.845214 ACTAAAATACATCTAGATACATCCCCT 57.155 33.333 4.54 0.00 0.00 4.79
2198 5799 8.638565 CCGAAAATACTTGTCATCAAAATTGAC 58.361 33.333 0.00 0.00 43.04 3.18
2199 5800 8.572185 TCCGAAAATACTTGTCATCAAAATTGA 58.428 29.630 0.00 0.00 42.14 2.57
2200 5801 8.638565 GTCCGAAAATACTTGTCATCAAAATTG 58.361 33.333 0.00 0.00 32.87 2.32
2201 5802 8.356657 TGTCCGAAAATACTTGTCATCAAAATT 58.643 29.630 0.00 0.00 32.87 1.82
2202 5803 7.881142 TGTCCGAAAATACTTGTCATCAAAAT 58.119 30.769 0.00 0.00 32.87 1.82
2203 5804 7.227711 TCTGTCCGAAAATACTTGTCATCAAAA 59.772 33.333 0.00 0.00 32.87 2.44
2204 5805 6.708502 TCTGTCCGAAAATACTTGTCATCAAA 59.291 34.615 0.00 0.00 32.87 2.69
2205 5806 6.227522 TCTGTCCGAAAATACTTGTCATCAA 58.772 36.000 0.00 0.00 0.00 2.57
2206 5807 5.789521 TCTGTCCGAAAATACTTGTCATCA 58.210 37.500 0.00 0.00 0.00 3.07
2207 5808 6.183360 CCTTCTGTCCGAAAATACTTGTCATC 60.183 42.308 0.00 0.00 0.00 2.92
2208 5809 5.643777 CCTTCTGTCCGAAAATACTTGTCAT 59.356 40.000 0.00 0.00 0.00 3.06
2209 5810 4.994852 CCTTCTGTCCGAAAATACTTGTCA 59.005 41.667 0.00 0.00 0.00 3.58
2210 5811 5.235516 TCCTTCTGTCCGAAAATACTTGTC 58.764 41.667 0.00 0.00 0.00 3.18
2211 5812 5.223449 TCCTTCTGTCCGAAAATACTTGT 57.777 39.130 0.00 0.00 0.00 3.16
2212 5813 6.743575 ATTCCTTCTGTCCGAAAATACTTG 57.256 37.500 0.00 0.00 0.00 3.16
2221 5822 8.837389 CGATACATATATATTCCTTCTGTCCGA 58.163 37.037 0.00 0.00 0.00 4.55
2222 5823 8.837389 TCGATACATATATATTCCTTCTGTCCG 58.163 37.037 0.00 0.00 0.00 4.79
2238 5839 7.923344 GCAAGTAGGCTATGATTCGATACATAT 59.077 37.037 0.00 2.62 0.00 1.78
2270 5873 4.503370 GCTACATCCTTGCTTACGTACTTC 59.497 45.833 0.00 0.00 0.00 3.01
2362 7253 7.038658 GGCCTCAACATATATTAAGGAGAGACT 60.039 40.741 0.00 0.00 0.00 3.24
2363 7254 7.100409 GGCCTCAACATATATTAAGGAGAGAC 58.900 42.308 0.00 0.00 0.00 3.36
2380 7274 2.092753 TCCATTCATCTCTGGCCTCAAC 60.093 50.000 3.32 0.00 32.30 3.18
2406 7302 1.586564 GCGCAGGTACGTAGCTCAG 60.587 63.158 23.75 19.82 34.88 3.35
2419 7321 1.696988 AAAGCCGTTAATTTGCGCAG 58.303 45.000 11.31 0.00 0.00 5.18
2473 7375 4.222810 TGCTATTTACTCTCTTGCCAGACA 59.777 41.667 0.00 0.00 0.00 3.41
2573 7476 3.364889 GGCTTTTTAAAACAGCCGACT 57.635 42.857 25.04 0.00 43.73 4.18
2594 7497 9.031360 GTCAATAGATAAGCACTCGACAATTTA 57.969 33.333 0.00 0.00 0.00 1.40
2621 7524 2.167693 GGTCCGACCTGTCATAATCACA 59.832 50.000 10.59 0.00 34.73 3.58
2702 7630 8.490311 AGAAGGAAAGAGAAGAAGAAAAGAGAA 58.510 33.333 0.00 0.00 0.00 2.87
2703 7631 8.028652 AGAAGGAAAGAGAAGAAGAAAAGAGA 57.971 34.615 0.00 0.00 0.00 3.10
2704 7632 8.150296 AGAGAAGGAAAGAGAAGAAGAAAAGAG 58.850 37.037 0.00 0.00 0.00 2.85
2705 7633 8.028652 AGAGAAGGAAAGAGAAGAAGAAAAGA 57.971 34.615 0.00 0.00 0.00 2.52
2706 7634 7.387673 GGAGAGAAGGAAAGAGAAGAAGAAAAG 59.612 40.741 0.00 0.00 0.00 2.27
2707 7635 7.071824 AGGAGAGAAGGAAAGAGAAGAAGAAAA 59.928 37.037 0.00 0.00 0.00 2.29
2708 7636 6.556874 AGGAGAGAAGGAAAGAGAAGAAGAAA 59.443 38.462 0.00 0.00 0.00 2.52
2709 7637 6.081356 AGGAGAGAAGGAAAGAGAAGAAGAA 58.919 40.000 0.00 0.00 0.00 2.52
2710 7638 5.650283 AGGAGAGAAGGAAAGAGAAGAAGA 58.350 41.667 0.00 0.00 0.00 2.87
2711 7639 5.716703 AGAGGAGAGAAGGAAAGAGAAGAAG 59.283 44.000 0.00 0.00 0.00 2.85
2712 7640 5.650283 AGAGGAGAGAAGGAAAGAGAAGAA 58.350 41.667 0.00 0.00 0.00 2.52
2713 7641 5.269554 AGAGGAGAGAAGGAAAGAGAAGA 57.730 43.478 0.00 0.00 0.00 2.87
2714 7642 5.105351 GGAAGAGGAGAGAAGGAAAGAGAAG 60.105 48.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.