Multiple sequence alignment - TraesCS7B01G479000

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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 TraesCS7B01G479000 chr7B 100.000 4309 0 0 1 4309 733786952 733791260 0.000000e+00 7958.0
1 TraesCS7B01G479000 chr7B 98.306 1240 21 0 2299 3538 733751620 733752859 0.000000e+00 2174.0
2 TraesCS7B01G479000 chr7B 93.823 1279 68 8 970 2240 733750348 733751623 0.000000e+00 1914.0
3 TraesCS7B01G479000 chr7B 92.130 1080 75 6 984 2058 733359551 733358477 0.000000e+00 1515.0
4 TraesCS7B01G479000 chr7B 98.740 635 8 0 3675 4309 740677680 740678314 0.000000e+00 1129.0
5 TraesCS7B01G479000 chr7B 89.888 445 25 9 3653 4096 733755939 733756364 4.870000e-154 555.0
6 TraesCS7B01G479000 chr7B 85.523 449 59 4 3009 3455 733334217 733333773 8.440000e-127 464.0
7 TraesCS7B01G479000 chr7B 94.860 214 11 0 4096 4309 733756255 733756468 6.900000e-88 335.0
8 TraesCS7B01G479000 chr7B 90.000 250 25 0 2359 2608 733357986 733357737 1.490000e-84 324.0
9 TraesCS7B01G479000 chr7B 83.520 358 35 10 601 955 733359885 733359549 3.240000e-81 313.0
10 TraesCS7B01G479000 chr7B 81.818 363 37 11 602 955 733750024 733750366 1.180000e-70 278.0
11 TraesCS7B01G479000 chr7B 82.927 205 34 1 4104 4308 602577944 602577741 2.650000e-42 183.0
12 TraesCS7B01G479000 chr7B 94.545 110 6 0 3987 4096 740678101 740678210 2.060000e-38 171.0
13 TraesCS7B01G479000 chr7B 95.062 81 4 0 3536 3616 733752904 733752984 1.260000e-25 128.0
14 TraesCS7B01G479000 chr7D 89.713 1779 127 26 451 2201 630328501 630326751 0.000000e+00 2220.0
15 TraesCS7B01G479000 chr7D 88.820 1780 125 36 457 2201 631023588 631025328 0.000000e+00 2117.0
16 TraesCS7B01G479000 chr7D 86.422 1635 150 36 601 2201 630712884 630714480 0.000000e+00 1724.0
17 TraesCS7B01G479000 chr7D 90.388 593 51 4 2299 2885 631613024 631613616 0.000000e+00 774.0
18 TraesCS7B01G479000 chr7D 96.256 454 12 3 1 453 630328977 630328528 0.000000e+00 739.0
19 TraesCS7B01G479000 chr7D 94.273 454 16 5 1 453 631021878 631022322 0.000000e+00 686.0
20 TraesCS7B01G479000 chr7D 87.800 459 44 9 2990 3444 638682023 638681573 1.060000e-145 527.0
21 TraesCS7B01G479000 chr7D 86.199 442 53 7 3007 3444 630715058 630715495 5.040000e-129 472.0
22 TraesCS7B01G479000 chr7D 86.333 439 53 5 3009 3444 631034668 631035102 5.040000e-129 472.0
23 TraesCS7B01G479000 chr7D 92.800 250 18 0 2359 2608 631025396 631025645 3.170000e-96 363.0
24 TraesCS7B01G479000 chr7D 87.829 304 22 9 2588 2888 638682311 638682020 4.130000e-90 342.0
25 TraesCS7B01G479000 chr7D 91.200 250 22 0 2359 2608 630714548 630714797 1.480000e-89 340.0
26 TraesCS7B01G479000 chr7D 86.084 309 42 1 3009 3316 630325237 630324929 8.930000e-87 331.0
27 TraesCS7B01G479000 chr7D 90.400 250 24 0 2359 2608 630325746 630325497 3.210000e-86 329.0
28 TraesCS7B01G479000 chr7D 92.670 191 13 1 2992 3182 631613618 631613807 1.530000e-69 274.0
29 TraesCS7B01G479000 chr7D 87.437 199 20 2 2675 2873 630325477 630325284 1.560000e-54 224.0
30 TraesCS7B01G479000 chr7D 96.364 110 4 0 2884 2993 382742644 382742535 9.520000e-42 182.0
31 TraesCS7B01G479000 chr7D 91.406 128 8 3 2882 3008 568184251 568184376 5.730000e-39 172.0
32 TraesCS7B01G479000 chr7D 88.276 145 13 1 2729 2873 631034479 631034619 2.060000e-38 171.0
33 TraesCS7B01G479000 chr7D 98.485 66 0 1 2233 2298 557209533 557209597 9.790000e-22 115.0
34 TraesCS7B01G479000 chr7D 84.722 72 6 5 534 604 95064814 95064747 2.780000e-07 67.6
35 TraesCS7B01G479000 chr7A 87.055 1630 139 33 601 2201 726859880 726858294 0.000000e+00 1775.0
36 TraesCS7B01G479000 chr7A 83.821 513 55 16 2363 2873 726858223 726857737 3.040000e-126 462.0
37 TraesCS7B01G479000 chr7A 83.402 241 35 5 3653 3892 650861891 650861655 7.250000e-53 219.0
38 TraesCS7B01G479000 chr7A 96.875 64 2 0 2239 2302 17672767 17672704 1.640000e-19 108.0
39 TraesCS7B01G479000 chr2B 80.853 1196 172 38 1032 2208 412990216 412991373 0.000000e+00 887.0
40 TraesCS7B01G479000 chr2B 79.548 753 131 17 1315 2058 413062714 413063452 2.300000e-142 516.0
41 TraesCS7B01G479000 chr2B 96.396 111 4 0 2884 2994 43851090 43851200 2.650000e-42 183.0
42 TraesCS7B01G479000 chr2B 84.831 178 25 2 4096 4272 8084037 8083861 1.230000e-40 178.0
43 TraesCS7B01G479000 chr2B 80.841 214 37 3 4097 4309 397598047 397598257 9.590000e-37 165.0
44 TraesCS7B01G479000 chr2B 89.286 84 6 3 2216 2298 770110190 770110271 7.620000e-18 102.0
45 TraesCS7B01G479000 chr2B 85.075 67 8 2 536 602 745706529 745706465 2.780000e-07 67.6
46 TraesCS7B01G479000 chr2D 80.840 1190 173 38 1032 2208 347791947 347793094 0.000000e+00 883.0
47 TraesCS7B01G479000 chr2D 96.396 111 4 0 2884 2994 111321514 111321404 2.650000e-42 183.0
48 TraesCS7B01G479000 chr2D 90.076 131 11 2 2867 2995 427121321 427121191 7.410000e-38 169.0
49 TraesCS7B01G479000 chr2D 95.745 47 2 0 567 613 152664381 152664427 4.620000e-10 76.8
50 TraesCS7B01G479000 chr2A 80.737 1194 170 38 1032 2208 461389362 461390512 0.000000e+00 876.0
51 TraesCS7B01G479000 chr2A 88.321 137 16 0 3961 4097 185358685 185358549 9.590000e-37 165.0
52 TraesCS7B01G479000 chr5A 80.093 864 138 22 1035 1874 569224609 569223756 2.850000e-171 612.0
53 TraesCS7B01G479000 chr5A 81.855 248 40 5 3655 3899 474825056 474824811 2.030000e-48 204.0
54 TraesCS7B01G479000 chr5A 77.510 249 52 3 2362 2608 569218467 569218221 3.470000e-31 147.0
55 TraesCS7B01G479000 chr4A 86.920 237 27 4 3655 3889 695824792 695825026 3.300000e-66 263.0
56 TraesCS7B01G479000 chr4A 98.485 66 0 1 2233 2298 698812452 698812388 9.790000e-22 115.0
57 TraesCS7B01G479000 chr4A 100.000 60 0 0 2239 2298 120182680 120182621 1.270000e-20 111.0
58 TraesCS7B01G479000 chr4A 97.959 49 1 0 557 605 631960101 631960149 7.680000e-13 86.1
59 TraesCS7B01G479000 chr1D 87.387 222 23 4 3655 3875 217641788 217642005 2.570000e-62 250.0
60 TraesCS7B01G479000 chr1D 85.281 231 28 5 3656 3884 258408819 258408593 2.590000e-57 233.0
61 TraesCS7B01G479000 chr1D 88.235 51 4 2 557 606 12312517 12312468 4.650000e-05 60.2
62 TraesCS7B01G479000 chr1D 86.538 52 5 2 554 604 318367196 318367246 6.020000e-04 56.5
63 TraesCS7B01G479000 chr1D 87.755 49 4 2 557 604 479721157 479721110 6.020000e-04 56.5
64 TraesCS7B01G479000 chr1D 81.944 72 5 6 536 604 395983435 395983501 2.000000e-03 54.7
65 TraesCS7B01G479000 chr4B 84.810 237 32 4 3653 3887 535326889 535326655 7.200000e-58 235.0
66 TraesCS7B01G479000 chr4B 90.977 133 11 1 2884 3015 115062825 115062693 1.230000e-40 178.0
67 TraesCS7B01G479000 chr4B 91.837 49 3 1 554 602 589806890 589806937 2.780000e-07 67.6
68 TraesCS7B01G479000 chr1B 84.100 239 30 8 3655 3889 4087056 4087290 1.560000e-54 224.0
69 TraesCS7B01G479000 chr1B 86.792 159 21 0 4114 4272 311425226 311425384 1.230000e-40 178.0
70 TraesCS7B01G479000 chr1B 78.947 209 26 7 3889 4097 10270746 10270556 4.520000e-25 126.0
71 TraesCS7B01G479000 chr1B 95.775 71 1 2 2239 2309 424544055 424544123 3.520000e-21 113.0
72 TraesCS7B01G479000 chr1B 84.722 72 5 6 534 605 262066423 262066488 2.780000e-07 67.6
73 TraesCS7B01G479000 chr1B 82.895 76 7 6 532 605 24605011 24605082 3.600000e-06 63.9
74 TraesCS7B01G479000 chr1B 90.909 44 4 0 3889 3932 492336535 492336578 4.650000e-05 60.2
75 TraesCS7B01G479000 chr3D 82.488 217 37 1 4093 4309 574309977 574309762 5.690000e-44 189.0
76 TraesCS7B01G479000 chr3D 87.500 64 8 0 542 605 352110776 352110713 1.660000e-09 75.0
77 TraesCS7B01G479000 chr3D 92.157 51 4 0 557 607 157099402 157099352 5.980000e-09 73.1
78 TraesCS7B01G479000 chr6D 94.828 116 6 0 2878 2993 397359809 397359924 9.520000e-42 182.0
79 TraesCS7B01G479000 chr6D 86.765 136 18 0 3961 4096 91492232 91492367 7.460000e-33 152.0
80 TraesCS7B01G479000 chr6D 97.015 67 1 1 2233 2299 97582302 97582237 1.270000e-20 111.0
81 TraesCS7B01G479000 chr6D 94.000 50 3 0 554 603 319255344 319255393 4.620000e-10 76.8
82 TraesCS7B01G479000 chr6D 92.857 42 3 0 564 605 62122739 62122698 1.290000e-05 62.1
83 TraesCS7B01G479000 chr6D 88.462 52 4 2 554 604 98100015 98100065 1.290000e-05 62.1
84 TraesCS7B01G479000 chr6D 92.683 41 3 0 564 604 366679101 366679061 4.650000e-05 60.2
85 TraesCS7B01G479000 chr6D 100.000 31 0 0 578 608 414400923 414400893 1.670000e-04 58.4
86 TraesCS7B01G479000 chr6D 86.792 53 5 2 554 605 448790911 448790962 1.670000e-04 58.4
87 TraesCS7B01G479000 chr6D 88.889 45 5 0 565 609 81922710 81922666 6.020000e-04 56.5
88 TraesCS7B01G479000 chr6D 100.000 30 0 0 577 606 93531096 93531125 6.020000e-04 56.5
89 TraesCS7B01G479000 chr6D 100.000 30 0 0 574 603 403973038 403973009 6.020000e-04 56.5
90 TraesCS7B01G479000 chr6D 90.244 41 3 1 564 604 448790900 448790861 8.000000e-03 52.8
91 TraesCS7B01G479000 chr5D 94.783 115 6 0 2878 2992 521523684 521523798 3.420000e-41 180.0
92 TraesCS7B01G479000 chr5D 92.157 51 4 0 554 604 420277177 420277227 5.980000e-09 73.1
93 TraesCS7B01G479000 chr5D 95.238 42 2 0 564 605 457676060 457676019 2.780000e-07 67.6
94 TraesCS7B01G479000 chr5D 82.667 75 6 6 536 609 26787199 26787131 4.650000e-05 60.2
95 TraesCS7B01G479000 chrUn 90.152 132 13 0 3962 4093 45205905 45206036 5.730000e-39 172.0
96 TraesCS7B01G479000 chrUn 93.478 46 3 0 557 602 84225725 84225680 7.730000e-08 69.4
97 TraesCS7B01G479000 chrUn 87.037 54 5 2 557 609 267452910 267452858 4.650000e-05 60.2
98 TraesCS7B01G479000 chrUn 87.037 54 5 2 557 609 340256278 340256226 4.650000e-05 60.2
99 TraesCS7B01G479000 chrUn 86.792 53 5 2 554 605 22130770 22130821 1.670000e-04 58.4
100 TraesCS7B01G479000 chr3B 90.076 131 13 0 3961 4091 96708139 96708009 2.060000e-38 171.0
101 TraesCS7B01G479000 chr3B 93.590 78 2 3 2226 2301 668622 668546 3.520000e-21 113.0
102 TraesCS7B01G479000 chr3B 85.135 74 10 1 533 605 450376726 450376653 1.660000e-09 75.0
103 TraesCS7B01G479000 chr3B 84.000 75 7 5 532 606 768672122 768672191 2.780000e-07 67.6
104 TraesCS7B01G479000 chr1A 83.815 173 28 0 4100 4272 540913516 540913344 9.590000e-37 165.0
105 TraesCS7B01G479000 chr1A 83.237 173 29 0 4100 4272 540892187 540892015 4.460000e-35 159.0
106 TraesCS7B01G479000 chr1A 84.507 71 4 6 536 605 568763719 568763783 3.600000e-06 63.9
107 TraesCS7B01G479000 chr5B 88.321 137 15 1 3961 4097 147432254 147432389 3.450000e-36 163.0
108 TraesCS7B01G479000 chr5B 82.258 124 22 0 3969 4092 285944413 285944290 1.640000e-19 108.0
109 TraesCS7B01G479000 chr5B 80.000 120 23 1 3978 4097 230294912 230294794 2.130000e-13 87.9
110 TraesCS7B01G479000 chr3A 88.550 131 14 1 3961 4091 8034456 8034327 1.600000e-34 158.0
111 TraesCS7B01G479000 chr3A 84.733 131 20 0 3965 4095 171213169 171213039 9.720000e-27 132.0
112 TraesCS7B01G479000 chr4D 78.947 209 26 3 3889 4097 454645037 454645227 4.520000e-25 126.0
113 TraesCS7B01G479000 chr4D 97.059 68 0 2 2233 2299 8132314 8132380 3.520000e-21 113.0
114 TraesCS7B01G479000 chr4D 85.714 70 6 4 536 604 372358009 372358075 2.150000e-08 71.3
115 TraesCS7B01G479000 chr4D 83.117 77 8 4 533 605 84987932 84988007 1.000000e-06 65.8
116 TraesCS7B01G479000 chr6B 92.857 70 4 1 536 605 135867648 135867580 2.740000e-17 100.0
117 TraesCS7B01G479000 chr6A 90.741 54 3 2 552 604 93885258 93885206 2.150000e-08 71.3
118 TraesCS7B01G479000 chr6A 88.462 52 6 0 554 605 150230098 150230149 3.600000e-06 63.9


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 TraesCS7B01G479000 chr7B 733786952 733791260 4308 False 7958.000000 7958 100.000000 1 4309 1 chr7B.!!$F1 4308
1 TraesCS7B01G479000 chr7B 733750024 733756468 6444 False 897.333333 2174 92.292833 602 4309 6 chr7B.!!$F2 3707
2 TraesCS7B01G479000 chr7B 733357737 733359885 2148 True 717.333333 1515 88.550000 601 2608 3 chr7B.!!$R3 2007
3 TraesCS7B01G479000 chr7B 740677680 740678314 634 False 650.000000 1129 96.642500 3675 4309 2 chr7B.!!$F3 634
4 TraesCS7B01G479000 chr7D 631021878 631025645 3767 False 1055.333333 2117 91.964333 1 2608 3 chr7D.!!$F4 2607
5 TraesCS7B01G479000 chr7D 630712884 630715495 2611 False 845.333333 1724 87.940333 601 3444 3 chr7D.!!$F3 2843
6 TraesCS7B01G479000 chr7D 630324929 630328977 4048 True 768.600000 2220 89.978000 1 3316 5 chr7D.!!$R3 3315
7 TraesCS7B01G479000 chr7D 631613024 631613807 783 False 524.000000 774 91.529000 2299 3182 2 chr7D.!!$F6 883
8 TraesCS7B01G479000 chr7D 638681573 638682311 738 True 434.500000 527 87.814500 2588 3444 2 chr7D.!!$R4 856
9 TraesCS7B01G479000 chr7D 631034479 631035102 623 False 321.500000 472 87.304500 2729 3444 2 chr7D.!!$F5 715
10 TraesCS7B01G479000 chr7A 726857737 726859880 2143 True 1118.500000 1775 85.438000 601 2873 2 chr7A.!!$R3 2272
11 TraesCS7B01G479000 chr2B 412990216 412991373 1157 False 887.000000 887 80.853000 1032 2208 1 chr2B.!!$F3 1176
12 TraesCS7B01G479000 chr2B 413062714 413063452 738 False 516.000000 516 79.548000 1315 2058 1 chr2B.!!$F4 743
13 TraesCS7B01G479000 chr2D 347791947 347793094 1147 False 883.000000 883 80.840000 1032 2208 1 chr2D.!!$F2 1176
14 TraesCS7B01G479000 chr2A 461389362 461390512 1150 False 876.000000 876 80.737000 1032 2208 1 chr2A.!!$F1 1176
15 TraesCS7B01G479000 chr5A 569223756 569224609 853 True 612.000000 612 80.093000 1035 1874 1 chr5A.!!$R3 839

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
509 1771 0.466189 AGTGACAACAGGTGGGCAAG 60.466 55.0 0.0 0.0 0.0 4.01 F
1988 3326 0.179040 GGGAGTGGTGGTCGTTTGAA 60.179 55.0 0.0 0.0 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2260 3886 0.034089 GTTTACCCCAGCCTCTGCAT 60.034 55.0 0.0 0.0 41.13 3.96 R
3906 9484 0.613260 CCCGTGATCTGGTCTTCCAA 59.387 55.0 0.0 0.0 43.81 3.53 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
106 107 5.105675 GGTTCAGGTGTTTGACTGGTTTTAA 60.106 40.000 0.00 0.00 35.47 1.52
381 383 1.758862 GGCCTTGGATCTTGGGAAATG 59.241 52.381 0.00 0.00 0.00 2.32
382 384 1.137675 GCCTTGGATCTTGGGAAATGC 59.862 52.381 0.00 0.00 0.00 3.56
509 1771 0.466189 AGTGACAACAGGTGGGCAAG 60.466 55.000 0.00 0.00 0.00 4.01
512 1774 1.518903 GACAACAGGTGGGCAAGAGC 61.519 60.000 0.00 0.00 41.10 4.09
553 1815 2.191981 ATACTCCCTCCGTCCCAAAT 57.808 50.000 0.00 0.00 0.00 2.32
554 1816 2.852714 TACTCCCTCCGTCCCAAATA 57.147 50.000 0.00 0.00 0.00 1.40
559 1821 3.692690 TCCCTCCGTCCCAAATAAAAAG 58.307 45.455 0.00 0.00 0.00 2.27
560 1822 3.074836 TCCCTCCGTCCCAAATAAAAAGT 59.925 43.478 0.00 0.00 0.00 2.66
562 1824 5.011586 CCCTCCGTCCCAAATAAAAAGTTA 58.988 41.667 0.00 0.00 0.00 2.24
563 1825 5.655090 CCCTCCGTCCCAAATAAAAAGTTAT 59.345 40.000 0.00 0.00 0.00 1.89
564 1826 6.829811 CCCTCCGTCCCAAATAAAAAGTTATA 59.170 38.462 0.00 0.00 29.41 0.98
565 1827 7.201758 CCCTCCGTCCCAAATAAAAAGTTATAC 60.202 40.741 0.00 0.00 29.41 1.47
566 1828 7.555195 CCTCCGTCCCAAATAAAAAGTTATACT 59.445 37.037 0.00 0.00 29.41 2.12
567 1829 9.603921 CTCCGTCCCAAATAAAAAGTTATACTA 57.396 33.333 0.00 0.00 29.41 1.82
568 1830 9.956640 TCCGTCCCAAATAAAAAGTTATACTAA 57.043 29.630 0.00 0.00 29.41 2.24
722 2004 5.127031 AGCATGTATTGTTAATTGTCCACCC 59.873 40.000 0.00 0.00 0.00 4.61
754 2036 7.674120 AGTTTGTCGGGTAGTAAAGTTATTCT 58.326 34.615 0.00 0.00 0.00 2.40
757 2039 6.392354 TGTCGGGTAGTAAAGTTATTCTGTG 58.608 40.000 0.00 0.00 0.00 3.66
773 2055 8.617809 GTTATTCTGTGAGTTGTTTGAACCTAA 58.382 33.333 0.00 0.00 0.00 2.69
845 2127 2.282745 GCTGCCAAGTTGCCTCCT 60.283 61.111 0.00 0.00 0.00 3.69
846 2128 1.905354 GCTGCCAAGTTGCCTCCTT 60.905 57.895 0.00 0.00 0.00 3.36
847 2129 1.466851 GCTGCCAAGTTGCCTCCTTT 61.467 55.000 0.00 0.00 0.00 3.11
848 2130 1.909700 CTGCCAAGTTGCCTCCTTTA 58.090 50.000 0.00 0.00 0.00 1.85
849 2131 2.238521 CTGCCAAGTTGCCTCCTTTAA 58.761 47.619 0.00 0.00 0.00 1.52
925 2209 4.641541 TCCCAATCATGCTCAAACATAGTG 59.358 41.667 0.00 0.00 0.00 2.74
952 2236 8.694540 CATGTTAAATATCCCTTCATTTCACCA 58.305 33.333 0.00 0.00 0.00 4.17
969 2253 4.093743 TCACCAGTAAATCAGCACCTAGA 58.906 43.478 0.00 0.00 0.00 2.43
976 2260 7.015292 CCAGTAAATCAGCACCTAGATACCTTA 59.985 40.741 0.00 0.00 0.00 2.69
977 2261 8.085296 CAGTAAATCAGCACCTAGATACCTTAG 58.915 40.741 0.00 0.00 0.00 2.18
978 2262 7.785506 AGTAAATCAGCACCTAGATACCTTAGT 59.214 37.037 0.00 0.00 0.00 2.24
979 2263 7.439108 AAATCAGCACCTAGATACCTTAGTT 57.561 36.000 0.00 0.00 0.00 2.24
980 2264 7.439108 AATCAGCACCTAGATACCTTAGTTT 57.561 36.000 0.00 0.00 0.00 2.66
981 2265 6.466885 TCAGCACCTAGATACCTTAGTTTC 57.533 41.667 0.00 0.00 0.00 2.78
982 2266 5.955959 TCAGCACCTAGATACCTTAGTTTCA 59.044 40.000 0.00 0.00 0.00 2.69
1018 2302 0.394899 CATGGAGGAGCCCCTTGTTC 60.395 60.000 0.00 0.00 44.53 3.18
1038 2322 3.169099 TCACAAGAAAGGAGAGGAGAGG 58.831 50.000 0.00 0.00 0.00 3.69
1262 2546 2.016318 TCCATTGATCGATGCACCAAC 58.984 47.619 16.49 0.00 0.00 3.77
1267 2551 3.885724 TGATCGATGCACCAACTTAGA 57.114 42.857 0.54 0.00 0.00 2.10
1289 2578 1.839994 GGACCTCCTGGACATCATCAA 59.160 52.381 0.00 0.00 37.04 2.57
1291 2580 2.503356 GACCTCCTGGACATCATCAACT 59.497 50.000 0.00 0.00 37.04 3.16
1292 2581 2.915604 ACCTCCTGGACATCATCAACTT 59.084 45.455 0.00 0.00 37.04 2.66
1293 2582 3.276857 CCTCCTGGACATCATCAACTTG 58.723 50.000 0.00 0.00 34.57 3.16
1294 2583 3.054875 CCTCCTGGACATCATCAACTTGA 60.055 47.826 0.00 0.00 34.57 3.02
1299 2590 5.416639 CCTGGACATCATCAACTTGAAATGA 59.583 40.000 17.91 9.82 31.80 2.57
1357 2663 4.873810 ACGCTGTGTGGGCAAGCA 62.874 61.111 0.00 0.00 0.00 3.91
1752 3064 2.497675 TGTCCATCTTGGCTCTCTACAC 59.502 50.000 0.00 0.00 37.47 2.90
1937 3275 7.966204 AGTTGACCGGTTTAATTAATTTCATCG 59.034 33.333 9.42 5.61 0.00 3.84
1988 3326 0.179040 GGGAGTGGTGGTCGTTTGAA 60.179 55.000 0.00 0.00 0.00 2.69
2068 3432 9.981460 ACTATCAATTAGGTGAATTTCCTTTCT 57.019 29.630 8.14 0.00 35.45 2.52
2230 3856 1.873591 GTACCTTGCCGATGCTATTGG 59.126 52.381 0.00 0.00 38.71 3.16
2236 3862 5.188948 ACCTTGCCGATGCTATTGGTATATA 59.811 40.000 0.00 0.00 38.71 0.86
2237 3863 5.755375 CCTTGCCGATGCTATTGGTATATAG 59.245 44.000 0.00 0.00 38.71 1.31
2238 3864 6.406961 CCTTGCCGATGCTATTGGTATATAGA 60.407 42.308 0.00 0.00 38.71 1.98
2239 3865 6.731292 TGCCGATGCTATTGGTATATAGAT 57.269 37.500 0.00 0.00 38.71 1.98
2240 3866 6.515832 TGCCGATGCTATTGGTATATAGATG 58.484 40.000 0.00 0.00 38.71 2.90
2241 3867 6.323739 TGCCGATGCTATTGGTATATAGATGA 59.676 38.462 0.00 0.00 38.71 2.92
2242 3868 6.865726 GCCGATGCTATTGGTATATAGATGAG 59.134 42.308 0.00 0.00 36.12 2.90
2243 3869 6.865726 CCGATGCTATTGGTATATAGATGAGC 59.134 42.308 0.00 0.00 31.10 4.26
2244 3870 6.865726 CGATGCTATTGGTATATAGATGAGCC 59.134 42.308 0.00 0.00 31.10 4.70
2245 3871 6.149129 TGCTATTGGTATATAGATGAGCCG 57.851 41.667 0.00 0.00 31.10 5.52
2246 3872 5.656859 TGCTATTGGTATATAGATGAGCCGT 59.343 40.000 0.00 0.00 31.10 5.68
2247 3873 6.831868 TGCTATTGGTATATAGATGAGCCGTA 59.168 38.462 0.00 0.00 31.10 4.02
2248 3874 7.505923 TGCTATTGGTATATAGATGAGCCGTAT 59.494 37.037 0.00 0.00 31.10 3.06
2249 3875 7.810282 GCTATTGGTATATAGATGAGCCGTATG 59.190 40.741 0.00 0.00 31.10 2.39
2250 3876 5.515797 TGGTATATAGATGAGCCGTATGC 57.484 43.478 0.00 0.00 41.71 3.14
2251 3877 4.953579 TGGTATATAGATGAGCCGTATGCA 59.046 41.667 0.00 0.00 44.83 3.96
2252 3878 5.598417 TGGTATATAGATGAGCCGTATGCAT 59.402 40.000 3.79 3.79 44.83 3.96
2253 3879 6.153067 GGTATATAGATGAGCCGTATGCATC 58.847 44.000 0.19 0.00 44.83 3.91
2255 3881 4.815533 ATAGATGAGCCGTATGCATCTT 57.184 40.909 0.19 0.00 44.55 2.40
2256 3882 3.482156 AGATGAGCCGTATGCATCTTT 57.518 42.857 0.19 0.00 44.55 2.52
2257 3883 3.397482 AGATGAGCCGTATGCATCTTTC 58.603 45.455 0.19 0.00 44.55 2.62
2258 3884 2.988010 TGAGCCGTATGCATCTTTCT 57.012 45.000 0.19 0.00 44.83 2.52
2259 3885 2.554142 TGAGCCGTATGCATCTTTCTG 58.446 47.619 0.19 0.00 44.83 3.02
2260 3886 2.168313 TGAGCCGTATGCATCTTTCTGA 59.832 45.455 0.19 0.00 44.83 3.27
2261 3887 3.181462 TGAGCCGTATGCATCTTTCTGAT 60.181 43.478 0.19 0.00 44.83 2.90
2270 3896 2.920524 CATCTTTCTGATGCAGAGGCT 58.079 47.619 0.00 0.00 44.96 4.58
2271 3897 2.398252 TCTTTCTGATGCAGAGGCTG 57.602 50.000 0.00 0.00 41.75 4.85
2272 3898 1.065636 TCTTTCTGATGCAGAGGCTGG 60.066 52.381 0.00 0.00 41.75 4.85
2273 3899 0.034767 TTTCTGATGCAGAGGCTGGG 60.035 55.000 0.00 0.00 41.75 4.45
2274 3900 1.918467 TTCTGATGCAGAGGCTGGGG 61.918 60.000 0.00 0.00 41.75 4.96
2275 3901 2.611800 TGATGCAGAGGCTGGGGT 60.612 61.111 0.00 0.00 41.91 4.95
2276 3902 1.306911 TGATGCAGAGGCTGGGGTA 60.307 57.895 0.00 0.00 41.91 3.69
2277 3903 0.913934 TGATGCAGAGGCTGGGGTAA 60.914 55.000 0.00 0.00 41.91 2.85
2278 3904 0.255890 GATGCAGAGGCTGGGGTAAA 59.744 55.000 0.00 0.00 41.91 2.01
2279 3905 0.034089 ATGCAGAGGCTGGGGTAAAC 60.034 55.000 0.00 0.00 41.91 2.01
2280 3906 1.378646 GCAGAGGCTGGGGTAAACC 60.379 63.158 0.00 0.00 36.96 3.27
2294 3920 4.669206 GGTAAACCCCCTTTTCGAAAAA 57.331 40.909 22.67 8.37 0.00 1.94
2673 5241 5.717119 ATATGGAGGAGCCTGTAGTTTTT 57.283 39.130 0.00 0.00 37.63 1.94
2689 5257 5.564048 AGTTTTTGTTTTGGTACGTGCTA 57.436 34.783 3.01 0.00 0.00 3.49
2931 5508 7.302350 TGTCACAAAAATGGATGTATCTACG 57.698 36.000 0.00 0.00 0.00 3.51
3039 5616 7.851228 TGTAGTATTTCTCACTGGACATGATT 58.149 34.615 0.00 0.00 0.00 2.57
3329 5912 5.065602 GTGATGACACACACAAGATGCATAT 59.934 40.000 0.00 0.00 45.32 1.78
3330 5913 5.648960 TGATGACACACACAAGATGCATATT 59.351 36.000 0.00 0.00 0.00 1.28
3532 6122 6.093495 TGGAAAAGAAGTTAATGCCGATAGTG 59.907 38.462 0.00 0.00 0.00 2.74
3541 6178 0.325296 TGCCGATAGTGGGAGGAGTT 60.325 55.000 0.00 0.00 0.00 3.01
3606 6243 4.572389 ACGCATGCCTTCTAGAATTACTTG 59.428 41.667 13.15 8.02 0.00 3.16
3644 9222 6.682746 ACGACATAATATGGAGTGCTCTAAG 58.317 40.000 5.16 0.00 33.60 2.18
3650 9228 0.898326 TGGAGTGCTCTAAGTCCGCA 60.898 55.000 0.00 0.00 41.87 5.69
3651 9229 0.461961 GGAGTGCTCTAAGTCCGCAT 59.538 55.000 0.00 0.00 35.93 4.73
3652 9230 1.134670 GGAGTGCTCTAAGTCCGCATT 60.135 52.381 0.00 0.00 35.93 3.56
3653 9231 2.100916 GGAGTGCTCTAAGTCCGCATTA 59.899 50.000 0.00 0.00 35.93 1.90
3654 9232 3.243907 GGAGTGCTCTAAGTCCGCATTAT 60.244 47.826 0.00 0.00 35.93 1.28
3655 9233 3.722147 AGTGCTCTAAGTCCGCATTATG 58.278 45.455 0.00 0.00 35.93 1.90
3656 9234 2.802816 GTGCTCTAAGTCCGCATTATGG 59.197 50.000 0.00 0.00 35.93 2.74
3657 9235 2.698274 TGCTCTAAGTCCGCATTATGGA 59.302 45.455 0.00 0.00 0.00 3.41
3658 9236 3.243873 TGCTCTAAGTCCGCATTATGGAG 60.244 47.826 0.00 0.00 35.82 3.86
3659 9237 3.243907 GCTCTAAGTCCGCATTATGGAGT 60.244 47.826 0.00 0.00 40.95 3.85
3660 9238 4.302455 CTCTAAGTCCGCATTATGGAGTG 58.698 47.826 0.00 0.00 39.14 3.51
3661 9239 1.668419 AAGTCCGCATTATGGAGTGC 58.332 50.000 0.00 0.00 39.14 4.40
3662 9240 0.833287 AGTCCGCATTATGGAGTGCT 59.167 50.000 0.00 0.00 37.77 4.40
3663 9241 1.202580 AGTCCGCATTATGGAGTGCTC 60.203 52.381 0.00 0.00 37.77 4.26
3664 9242 1.123077 TCCGCATTATGGAGTGCTCT 58.877 50.000 0.00 0.00 39.16 4.09
3665 9243 2.035961 GTCCGCATTATGGAGTGCTCTA 59.964 50.000 0.00 0.00 39.16 2.43
3666 9244 2.698274 TCCGCATTATGGAGTGCTCTAA 59.302 45.455 0.00 0.00 39.16 2.10
3667 9245 2.802816 CCGCATTATGGAGTGCTCTAAC 59.197 50.000 0.00 0.00 39.16 2.34
3668 9246 3.493350 CCGCATTATGGAGTGCTCTAACT 60.493 47.826 0.00 0.00 39.16 2.24
3669 9247 3.738282 CGCATTATGGAGTGCTCTAACTC 59.262 47.826 0.00 0.00 44.91 3.01
3906 9484 4.155733 TGCCGCCATCGTCCGATT 62.156 61.111 0.00 0.00 31.62 3.34
3947 9525 0.179020 TTCCACCAGAGCAACACCAG 60.179 55.000 0.00 0.00 0.00 4.00
3948 9526 1.149174 CCACCAGAGCAACACCAGT 59.851 57.895 0.00 0.00 0.00 4.00
3949 9527 1.168407 CCACCAGAGCAACACCAGTG 61.168 60.000 0.00 0.00 0.00 3.66
3950 9528 1.149174 ACCAGAGCAACACCAGTGG 59.851 57.895 7.91 7.91 34.19 4.00
3951 9529 1.601759 CCAGAGCAACACCAGTGGG 60.602 63.158 15.21 5.06 41.29 4.61
3961 9539 3.299977 CCAGTGGGTCGACGGTCA 61.300 66.667 9.92 5.14 0.00 4.02
3962 9540 2.049433 CAGTGGGTCGACGGTCAC 60.049 66.667 20.36 20.36 0.00 3.67
3963 9541 3.300765 AGTGGGTCGACGGTCACC 61.301 66.667 22.68 16.55 0.00 4.02
3964 9542 3.608662 GTGGGTCGACGGTCACCA 61.609 66.667 22.45 17.34 33.91 4.17
4050 9646 2.356553 CCGTCGGCTCGGTTTTCA 60.357 61.111 0.00 0.00 44.77 2.69
4051 9647 2.664436 CCGTCGGCTCGGTTTTCAC 61.664 63.158 0.00 0.00 44.77 3.18
4052 9648 1.663702 CGTCGGCTCGGTTTTCACT 60.664 57.895 0.00 0.00 0.00 3.41
4053 9649 1.860078 GTCGGCTCGGTTTTCACTG 59.140 57.895 0.00 0.00 0.00 3.66
4054 9650 1.301401 TCGGCTCGGTTTTCACTGG 60.301 57.895 0.00 0.00 0.00 4.00
4055 9651 2.954611 GGCTCGGTTTTCACTGGC 59.045 61.111 0.00 0.00 0.00 4.85
4056 9652 1.896660 GGCTCGGTTTTCACTGGCA 60.897 57.895 0.00 0.00 30.80 4.92
4057 9653 1.452145 GGCTCGGTTTTCACTGGCAA 61.452 55.000 0.00 0.00 30.80 4.52
4058 9654 0.598065 GCTCGGTTTTCACTGGCAAT 59.402 50.000 0.00 0.00 0.00 3.56
4059 9655 1.000274 GCTCGGTTTTCACTGGCAATT 60.000 47.619 0.00 0.00 0.00 2.32
4060 9656 2.227865 GCTCGGTTTTCACTGGCAATTA 59.772 45.455 0.00 0.00 0.00 1.40
4061 9657 3.119495 GCTCGGTTTTCACTGGCAATTAT 60.119 43.478 0.00 0.00 0.00 1.28
4062 9658 4.414852 CTCGGTTTTCACTGGCAATTATG 58.585 43.478 0.00 0.00 0.00 1.90
4063 9659 3.823873 TCGGTTTTCACTGGCAATTATGT 59.176 39.130 0.00 0.00 0.00 2.29
4064 9660 4.083003 TCGGTTTTCACTGGCAATTATGTC 60.083 41.667 0.00 0.00 0.00 3.06
4065 9661 4.082787 CGGTTTTCACTGGCAATTATGTCT 60.083 41.667 0.00 0.00 30.51 3.41
4066 9662 5.402398 GGTTTTCACTGGCAATTATGTCTC 58.598 41.667 0.00 0.00 30.51 3.36
4067 9663 5.048083 GGTTTTCACTGGCAATTATGTCTCA 60.048 40.000 0.00 0.00 30.51 3.27
4068 9664 5.627499 TTTCACTGGCAATTATGTCTCAC 57.373 39.130 0.00 0.00 30.51 3.51
4069 9665 3.609853 TCACTGGCAATTATGTCTCACC 58.390 45.455 0.00 0.00 30.51 4.02
4070 9666 2.352651 CACTGGCAATTATGTCTCACCG 59.647 50.000 0.00 0.00 30.51 4.94
4071 9667 2.236146 ACTGGCAATTATGTCTCACCGA 59.764 45.455 0.00 0.00 30.51 4.69
4072 9668 2.609459 CTGGCAATTATGTCTCACCGAC 59.391 50.000 0.00 0.00 43.14 4.79
4073 9669 2.236146 TGGCAATTATGTCTCACCGACT 59.764 45.455 0.00 0.00 43.25 4.18
4074 9670 2.866762 GGCAATTATGTCTCACCGACTC 59.133 50.000 0.00 0.00 43.25 3.36
4075 9671 2.535984 GCAATTATGTCTCACCGACTCG 59.464 50.000 0.00 0.00 43.25 4.18
4076 9672 2.493713 ATTATGTCTCACCGACTCGC 57.506 50.000 0.00 0.00 43.25 5.03
4077 9673 1.170442 TTATGTCTCACCGACTCGCA 58.830 50.000 0.00 0.00 43.25 5.10
4078 9674 0.733150 TATGTCTCACCGACTCGCAG 59.267 55.000 0.00 0.00 43.25 5.18
4079 9675 2.505118 GTCTCACCGACTCGCAGC 60.505 66.667 0.00 0.00 39.61 5.25
4080 9676 2.673341 TCTCACCGACTCGCAGCT 60.673 61.111 0.00 0.00 0.00 4.24
4081 9677 2.505777 CTCACCGACTCGCAGCTG 60.506 66.667 10.11 10.11 0.00 4.24
4082 9678 3.978723 CTCACCGACTCGCAGCTGG 62.979 68.421 17.12 5.82 0.00 4.85
4085 9681 4.803426 CCGACTCGCAGCTGGGAC 62.803 72.222 27.90 18.43 33.28 4.46
4086 9682 3.753434 CGACTCGCAGCTGGGACT 61.753 66.667 27.90 19.50 33.28 3.85
4087 9683 2.407428 CGACTCGCAGCTGGGACTA 61.407 63.158 27.90 9.79 33.28 2.59
4088 9684 1.435515 GACTCGCAGCTGGGACTAG 59.564 63.158 27.90 20.56 33.28 2.57
4089 9685 1.000771 ACTCGCAGCTGGGACTAGA 60.001 57.895 27.90 9.04 33.28 2.43
4090 9686 0.396417 ACTCGCAGCTGGGACTAGAT 60.396 55.000 27.90 9.64 33.28 1.98
4091 9687 0.031857 CTCGCAGCTGGGACTAGATG 59.968 60.000 27.90 14.29 37.16 2.90
4092 9688 0.395724 TCGCAGCTGGGACTAGATGA 60.396 55.000 27.90 4.91 36.21 2.92
4093 9689 0.249238 CGCAGCTGGGACTAGATGAC 60.249 60.000 25.55 0.00 36.21 3.06
4094 9690 0.249238 GCAGCTGGGACTAGATGACG 60.249 60.000 17.12 0.00 36.21 4.35
4095 9691 0.387202 CAGCTGGGACTAGATGACGG 59.613 60.000 5.57 0.00 36.21 4.79
4096 9692 0.259065 AGCTGGGACTAGATGACGGA 59.741 55.000 0.00 0.00 0.00 4.69
4097 9693 0.386113 GCTGGGACTAGATGACGGAC 59.614 60.000 0.00 0.00 0.00 4.79
4098 9694 1.763968 CTGGGACTAGATGACGGACA 58.236 55.000 0.00 0.00 0.00 4.02
4099 9695 2.100197 CTGGGACTAGATGACGGACAA 58.900 52.381 0.00 0.00 0.00 3.18
4100 9696 2.695666 CTGGGACTAGATGACGGACAAT 59.304 50.000 0.00 0.00 0.00 2.71
4101 9697 2.430694 TGGGACTAGATGACGGACAATG 59.569 50.000 0.00 0.00 0.00 2.82
4102 9698 2.693591 GGGACTAGATGACGGACAATGA 59.306 50.000 0.00 0.00 0.00 2.57
4103 9699 3.491104 GGGACTAGATGACGGACAATGAC 60.491 52.174 0.00 0.00 0.00 3.06
4104 9700 3.381908 GGACTAGATGACGGACAATGACT 59.618 47.826 0.00 0.00 0.00 3.41
4105 9701 4.142138 GGACTAGATGACGGACAATGACTT 60.142 45.833 0.00 0.00 0.00 3.01
4106 9702 5.000012 ACTAGATGACGGACAATGACTTC 58.000 43.478 0.00 0.00 0.00 3.01
4107 9703 3.961480 AGATGACGGACAATGACTTCA 57.039 42.857 0.00 0.00 0.00 3.02
4108 9704 4.478206 AGATGACGGACAATGACTTCAT 57.522 40.909 0.00 0.00 38.41 2.57
4109 9705 4.437239 AGATGACGGACAATGACTTCATC 58.563 43.478 15.34 15.34 39.68 2.92
4110 9706 3.676291 TGACGGACAATGACTTCATCA 57.324 42.857 0.00 0.00 43.13 3.07
4111 9707 4.001618 TGACGGACAATGACTTCATCAA 57.998 40.909 0.00 0.00 41.93 2.57
4112 9708 4.384940 TGACGGACAATGACTTCATCAAA 58.615 39.130 0.00 0.00 41.93 2.69
4113 9709 4.452114 TGACGGACAATGACTTCATCAAAG 59.548 41.667 0.00 0.00 41.93 2.77
4127 9723 6.531948 ACTTCATCAAAGTAACGATGTAGAGC 59.468 38.462 11.44 0.00 46.55 4.09
4128 9724 5.034797 TCATCAAAGTAACGATGTAGAGCG 58.965 41.667 0.00 0.00 39.99 5.03
4129 9725 3.176708 TCAAAGTAACGATGTAGAGCGC 58.823 45.455 0.00 0.00 33.02 5.92
4130 9726 2.205307 AAGTAACGATGTAGAGCGCC 57.795 50.000 2.29 0.00 33.02 6.53
4131 9727 0.029035 AGTAACGATGTAGAGCGCCG 59.971 55.000 2.29 0.00 33.02 6.46
4132 9728 1.298863 TAACGATGTAGAGCGCCGC 60.299 57.895 2.29 0.00 33.02 6.53
4133 9729 2.672908 TAACGATGTAGAGCGCCGCC 62.673 60.000 4.98 0.00 33.02 6.13
4134 9730 4.569023 CGATGTAGAGCGCCGCCA 62.569 66.667 4.98 0.00 0.00 5.69
4135 9731 2.029666 GATGTAGAGCGCCGCCAT 59.970 61.111 4.98 0.96 0.00 4.40
4136 9732 1.595382 GATGTAGAGCGCCGCCATT 60.595 57.895 4.98 0.00 0.00 3.16
4137 9733 1.835483 GATGTAGAGCGCCGCCATTG 61.835 60.000 4.98 0.00 0.00 2.82
4138 9734 3.941836 GTAGAGCGCCGCCATTGC 61.942 66.667 4.98 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 4.256920 GCCACACTGTATCAAGACTGAAT 58.743 43.478 0.00 0.00 34.49 2.57
67 68 0.250901 GAACCATCCTGCCACACTGT 60.251 55.000 0.00 0.00 0.00 3.55
106 107 0.975887 AATGCGAAGGTGCCCAAAAT 59.024 45.000 0.00 0.00 0.00 1.82
209 211 4.636975 CTTGCAACAAAAGAAAAACACCG 58.363 39.130 0.00 0.00 0.00 4.94
220 222 0.737804 TCGCTGAGCTTGCAACAAAA 59.262 45.000 1.78 0.00 0.00 2.44
317 319 7.564793 AGGACCTGCAAAAGTAAAAGAAAATT 58.435 30.769 0.00 0.00 0.00 1.82
323 325 7.214467 TGATTAGGACCTGCAAAAGTAAAAG 57.786 36.000 3.53 0.00 0.00 2.27
381 383 5.123979 CCTTCATAGATATAAAAAGGGGCGC 59.876 44.000 0.00 0.00 31.63 6.53
382 384 6.472887 TCCTTCATAGATATAAAAAGGGGCG 58.527 40.000 9.86 0.00 35.16 6.13
427 429 7.513814 CGCTCTATTTTTATTCTGTCGTGTCTC 60.514 40.741 0.00 0.00 0.00 3.36
509 1771 4.273318 ACCAAGGTAATGAATGAAGGCTC 58.727 43.478 0.00 0.00 0.00 4.70
564 1826 8.919145 TCCCAAAATAAGTGTTGTTGATTTAGT 58.081 29.630 0.00 0.00 0.00 2.24
565 1827 9.191995 GTCCCAAAATAAGTGTTGTTGATTTAG 57.808 33.333 0.00 0.00 0.00 1.85
566 1828 7.863375 CGTCCCAAAATAAGTGTTGTTGATTTA 59.137 33.333 0.00 0.00 0.00 1.40
567 1829 6.699642 CGTCCCAAAATAAGTGTTGTTGATTT 59.300 34.615 0.00 0.00 0.00 2.17
568 1830 6.212955 CGTCCCAAAATAAGTGTTGTTGATT 58.787 36.000 0.00 0.00 0.00 2.57
569 1831 5.278758 CCGTCCCAAAATAAGTGTTGTTGAT 60.279 40.000 0.00 0.00 0.00 2.57
575 1837 3.418047 CCTCCGTCCCAAAATAAGTGTT 58.582 45.455 0.00 0.00 0.00 3.32
722 2004 4.996788 ACTACCCGACAAACTATAGTGG 57.003 45.455 6.06 4.66 0.00 4.00
754 2036 4.095782 GCAGTTAGGTTCAAACAACTCACA 59.904 41.667 0.00 0.00 0.00 3.58
757 2039 3.630312 TGGCAGTTAGGTTCAAACAACTC 59.370 43.478 0.00 0.00 0.00 3.01
839 2121 3.697166 TGGGAGACAAATTAAAGGAGGC 58.303 45.455 0.00 0.00 0.00 4.70
877 2160 2.519013 TCAGAGAGCAGCAGTCAAGTA 58.481 47.619 0.00 0.00 0.00 2.24
890 2173 3.808466 TGATTGGGACGATTCAGAGAG 57.192 47.619 0.00 0.00 0.00 3.20
925 2209 7.653311 GGTGAAATGAAGGGATATTTAACATGC 59.347 37.037 0.00 0.00 31.86 4.06
952 2236 7.785506 ACTAAGGTATCTAGGTGCTGATTTACT 59.214 37.037 0.00 0.00 0.00 2.24
995 2279 1.513087 AAGGGGCTCCTCCATGCTTT 61.513 55.000 5.00 0.00 44.07 3.51
1018 2302 2.354604 GCCTCTCCTCTCCTTTCTTGTG 60.355 54.545 0.00 0.00 0.00 3.33
1025 2309 1.011595 TACCAGCCTCTCCTCTCCTT 58.988 55.000 0.00 0.00 0.00 3.36
1038 2322 3.055819 TCTTCACCTCAATCACTACCAGC 60.056 47.826 0.00 0.00 0.00 4.85
1077 2361 3.147595 CCGACGATGAGAGGCCCA 61.148 66.667 0.00 0.00 0.00 5.36
1128 2412 3.411446 GAGATGACCCACAAACATGACA 58.589 45.455 0.00 0.00 0.00 3.58
1262 2546 2.752030 TGTCCAGGAGGTCCATCTAAG 58.248 52.381 0.00 0.00 38.89 2.18
1267 2551 2.053244 GATGATGTCCAGGAGGTCCAT 58.947 52.381 0.00 0.00 38.89 3.41
1289 2578 8.610248 TGAAATTCAATGCAATCATTTCAAGT 57.390 26.923 17.58 0.00 40.74 3.16
1291 2580 8.610248 ACTGAAATTCAATGCAATCATTTCAA 57.390 26.923 19.17 9.70 41.18 2.69
1292 2581 8.092068 AGACTGAAATTCAATGCAATCATTTCA 58.908 29.630 18.28 18.28 40.74 2.69
1293 2582 8.380644 CAGACTGAAATTCAATGCAATCATTTC 58.619 33.333 13.25 13.25 40.74 2.17
1294 2583 7.333423 CCAGACTGAAATTCAATGCAATCATTT 59.667 33.333 3.32 0.00 40.74 2.32
1299 2590 4.020928 TGCCAGACTGAAATTCAATGCAAT 60.021 37.500 3.32 0.00 0.00 3.56
1334 2640 2.666190 CCCACACAGCGTGTCCAG 60.666 66.667 10.67 4.44 43.92 3.86
1357 2663 0.319405 GGTGCTGCTTTGCTCCAAAT 59.681 50.000 0.00 0.00 43.67 2.32
1752 3064 1.277580 ACAAGATGGGGAGAGCCTGG 61.278 60.000 0.00 0.00 0.00 4.45
1810 3122 3.319137 CTCAAGAAACCGAGGATGTCA 57.681 47.619 0.00 0.00 0.00 3.58
1988 3326 1.482593 CCGGAAGCAAGTATCAGGAGT 59.517 52.381 0.00 0.00 33.34 3.85
2098 3721 8.303876 ACCGCATGTTACTATCAAAAGAAAAAT 58.696 29.630 0.00 0.00 0.00 1.82
2230 3856 6.976088 AGATGCATACGGCTCATCTATATAC 58.024 40.000 0.00 0.00 43.46 1.47
2236 3862 3.070734 AGAAAGATGCATACGGCTCATCT 59.929 43.478 0.00 6.09 46.19 2.90
2237 3863 3.186001 CAGAAAGATGCATACGGCTCATC 59.814 47.826 0.00 0.00 45.15 2.92
2238 3864 3.136763 CAGAAAGATGCATACGGCTCAT 58.863 45.455 0.00 0.00 45.15 2.90
2239 3865 2.168313 TCAGAAAGATGCATACGGCTCA 59.832 45.455 0.00 0.00 45.15 4.26
2240 3866 2.826428 TCAGAAAGATGCATACGGCTC 58.174 47.619 0.00 0.00 45.15 4.70
2241 3867 2.988010 TCAGAAAGATGCATACGGCT 57.012 45.000 0.00 0.00 45.15 5.52
2242 3868 3.532892 CATCAGAAAGATGCATACGGC 57.467 47.619 0.00 0.00 46.90 5.68
2251 3877 2.421670 CCAGCCTCTGCATCAGAAAGAT 60.422 50.000 0.00 0.00 40.18 2.40
2252 3878 1.065636 CCAGCCTCTGCATCAGAAAGA 60.066 52.381 0.00 0.00 40.18 2.52
2253 3879 1.380524 CCAGCCTCTGCATCAGAAAG 58.619 55.000 0.00 0.00 40.18 2.62
2254 3880 0.034767 CCCAGCCTCTGCATCAGAAA 60.035 55.000 0.00 0.00 40.18 2.52
2255 3881 1.605992 CCCAGCCTCTGCATCAGAA 59.394 57.895 0.00 0.00 40.18 3.02
2256 3882 2.372890 CCCCAGCCTCTGCATCAGA 61.373 63.158 0.00 0.00 41.13 3.27
2257 3883 1.340399 TACCCCAGCCTCTGCATCAG 61.340 60.000 0.00 0.00 41.13 2.90
2258 3884 0.913934 TTACCCCAGCCTCTGCATCA 60.914 55.000 0.00 0.00 41.13 3.07
2259 3885 0.255890 TTTACCCCAGCCTCTGCATC 59.744 55.000 0.00 0.00 41.13 3.91
2260 3886 0.034089 GTTTACCCCAGCCTCTGCAT 60.034 55.000 0.00 0.00 41.13 3.96
2261 3887 1.378762 GTTTACCCCAGCCTCTGCA 59.621 57.895 0.00 0.00 41.13 4.41
2262 3888 1.378646 GGTTTACCCCAGCCTCTGC 60.379 63.158 0.00 0.00 37.95 4.26
2273 3899 4.669206 TTTTTCGAAAAGGGGGTTTACC 57.331 40.909 21.53 0.00 39.11 2.85
2294 3920 5.529800 ACGTAGTTGCCACAAGTATCTTTTT 59.470 36.000 0.00 0.00 37.78 1.94
2295 3921 5.061179 ACGTAGTTGCCACAAGTATCTTTT 58.939 37.500 0.00 0.00 37.78 2.27
2296 3922 4.638304 ACGTAGTTGCCACAAGTATCTTT 58.362 39.130 0.00 0.00 37.78 2.52
2297 3923 4.267349 ACGTAGTTGCCACAAGTATCTT 57.733 40.909 0.00 0.00 37.78 2.40
2673 5241 9.776158 CATATATTTTTAGCACGTACCAAAACA 57.224 29.630 0.00 0.00 0.00 2.83
2969 5546 2.395619 ACTCCCTCCGTTCGGAATTAT 58.604 47.619 14.79 0.00 33.41 1.28
3039 5616 8.148351 CCCTGACATATTTTAGATCGAGGTTTA 58.852 37.037 0.00 0.00 0.00 2.01
3464 6054 4.819105 TCCTCACCCATAGTTACAACAG 57.181 45.455 0.00 0.00 0.00 3.16
3465 6055 5.772393 AATCCTCACCCATAGTTACAACA 57.228 39.130 0.00 0.00 0.00 3.33
3505 6095 7.990886 ACTATCGGCATTAACTTCTTTTCCATA 59.009 33.333 0.00 0.00 0.00 2.74
3541 6178 6.841229 TCCTATTCTCTTGAAAGGAGCATCTA 59.159 38.462 0.00 0.00 36.03 1.98
3599 6236 9.653287 TGTCGTCTCAGAATTTTATCAAGTAAT 57.347 29.630 0.00 0.00 0.00 1.89
3616 6253 4.584743 AGCACTCCATATTATGTCGTCTCA 59.415 41.667 3.10 0.00 0.00 3.27
3617 6254 5.048364 AGAGCACTCCATATTATGTCGTCTC 60.048 44.000 3.10 7.78 0.00 3.36
3618 6255 4.830046 AGAGCACTCCATATTATGTCGTCT 59.170 41.667 3.10 0.84 0.00 4.18
3619 6256 5.127693 AGAGCACTCCATATTATGTCGTC 57.872 43.478 3.10 0.00 0.00 4.20
3620 6257 6.265649 ACTTAGAGCACTCCATATTATGTCGT 59.734 38.462 3.10 0.00 0.00 4.34
3621 6258 6.682746 ACTTAGAGCACTCCATATTATGTCG 58.317 40.000 3.10 0.00 0.00 4.35
3622 6259 7.093992 GGACTTAGAGCACTCCATATTATGTC 58.906 42.308 3.10 0.00 0.00 3.06
3644 9222 1.202580 AGAGCACTCCATAATGCGGAC 60.203 52.381 0.00 0.00 46.74 4.79
3656 9234 7.670009 TTAGATATACGGAGTTAGAGCACTC 57.330 40.000 0.00 0.00 37.78 3.51
3657 9235 8.351461 GTTTTAGATATACGGAGTTAGAGCACT 58.649 37.037 0.00 0.00 37.78 4.40
3658 9236 7.594386 GGTTTTAGATATACGGAGTTAGAGCAC 59.406 40.741 0.00 0.00 37.78 4.40
3659 9237 7.521099 CGGTTTTAGATATACGGAGTTAGAGCA 60.521 40.741 0.00 0.00 37.78 4.26
3660 9238 6.800892 CGGTTTTAGATATACGGAGTTAGAGC 59.199 42.308 0.00 0.00 37.78 4.09
3661 9239 7.040823 ACCGGTTTTAGATATACGGAGTTAGAG 60.041 40.741 0.00 0.00 37.78 2.43
3662 9240 6.772716 ACCGGTTTTAGATATACGGAGTTAGA 59.227 38.462 0.00 0.00 37.78 2.10
3663 9241 6.860023 CACCGGTTTTAGATATACGGAGTTAG 59.140 42.308 2.97 0.00 37.78 2.34
3664 9242 6.321181 ACACCGGTTTTAGATATACGGAGTTA 59.679 38.462 2.97 0.00 37.78 2.24
3665 9243 5.127682 ACACCGGTTTTAGATATACGGAGTT 59.872 40.000 2.97 0.00 37.78 3.01
3666 9244 5.221126 GACACCGGTTTTAGATATACGGAGT 60.221 44.000 2.97 5.81 45.28 3.85
3667 9245 5.192327 ACACCGGTTTTAGATATACGGAG 57.808 43.478 2.97 2.34 43.69 4.63
3668 9246 4.261155 CGACACCGGTTTTAGATATACGGA 60.261 45.833 2.97 0.00 43.69 4.69
3669 9247 3.976942 CGACACCGGTTTTAGATATACGG 59.023 47.826 2.97 0.00 46.16 4.02
3670 9248 4.601019 ACGACACCGGTTTTAGATATACG 58.399 43.478 2.97 0.00 40.78 3.06
3671 9249 4.672413 CGACGACACCGGTTTTAGATATAC 59.328 45.833 2.97 0.00 40.78 1.47
3672 9250 4.789481 GCGACGACACCGGTTTTAGATATA 60.789 45.833 2.97 0.00 40.78 0.86
3906 9484 0.613260 CCCGTGATCTGGTCTTCCAA 59.387 55.000 0.00 0.00 43.81 3.53
3947 9525 3.569049 CTGGTGACCGTCGACCCAC 62.569 68.421 10.58 14.70 0.00 4.61
3948 9526 3.299977 CTGGTGACCGTCGACCCA 61.300 66.667 10.58 10.05 0.00 4.51
3949 9527 3.300765 ACTGGTGACCGTCGACCC 61.301 66.667 10.58 5.36 0.00 4.46
3950 9528 2.049433 CACTGGTGACCGTCGACC 60.049 66.667 10.58 11.23 0.00 4.79
3951 9529 2.049433 CCACTGGTGACCGTCGAC 60.049 66.667 5.18 5.18 0.00 4.20
3952 9530 3.299977 CCCACTGGTGACCGTCGA 61.300 66.667 0.00 0.00 0.00 4.20
3953 9531 3.612681 ACCCACTGGTGACCGTCG 61.613 66.667 0.00 0.00 45.58 5.12
3962 9540 0.966920 AACTACTGTCGACCCACTGG 59.033 55.000 14.12 1.16 37.80 4.00
3963 9541 2.555325 TGTAACTACTGTCGACCCACTG 59.445 50.000 14.12 2.23 0.00 3.66
3964 9542 2.555757 GTGTAACTACTGTCGACCCACT 59.444 50.000 14.12 0.00 0.00 4.00
4045 9641 5.048083 GGTGAGACATAATTGCCAGTGAAAA 60.048 40.000 0.00 0.00 0.00 2.29
4046 9642 4.458989 GGTGAGACATAATTGCCAGTGAAA 59.541 41.667 0.00 0.00 0.00 2.69
4047 9643 4.009675 GGTGAGACATAATTGCCAGTGAA 58.990 43.478 0.00 0.00 0.00 3.18
4048 9644 3.609853 GGTGAGACATAATTGCCAGTGA 58.390 45.455 0.00 0.00 0.00 3.41
4049 9645 2.352651 CGGTGAGACATAATTGCCAGTG 59.647 50.000 0.00 0.00 0.00 3.66
4050 9646 2.236146 TCGGTGAGACATAATTGCCAGT 59.764 45.455 0.00 0.00 0.00 4.00
4051 9647 2.905075 TCGGTGAGACATAATTGCCAG 58.095 47.619 0.00 0.00 0.00 4.85
4063 9659 2.673341 AGCTGCGAGTCGGTGAGA 60.673 61.111 15.52 0.00 0.00 3.27
4064 9660 2.505777 CAGCTGCGAGTCGGTGAG 60.506 66.667 15.52 0.00 0.00 3.51
4065 9661 4.056125 CCAGCTGCGAGTCGGTGA 62.056 66.667 15.52 0.00 0.00 4.02
4068 9664 4.803426 GTCCCAGCTGCGAGTCGG 62.803 72.222 15.52 2.77 0.00 4.79
4069 9665 2.329678 CTAGTCCCAGCTGCGAGTCG 62.330 65.000 11.98 8.54 0.00 4.18
4070 9666 1.032657 TCTAGTCCCAGCTGCGAGTC 61.033 60.000 11.98 0.00 0.00 3.36
4071 9667 0.396417 ATCTAGTCCCAGCTGCGAGT 60.396 55.000 13.12 13.12 0.00 4.18
4072 9668 0.031857 CATCTAGTCCCAGCTGCGAG 59.968 60.000 8.66 0.65 0.00 5.03
4073 9669 0.395724 TCATCTAGTCCCAGCTGCGA 60.396 55.000 8.66 1.47 0.00 5.10
4074 9670 0.249238 GTCATCTAGTCCCAGCTGCG 60.249 60.000 8.66 0.00 0.00 5.18
4075 9671 0.249238 CGTCATCTAGTCCCAGCTGC 60.249 60.000 8.66 0.00 0.00 5.25
4076 9672 0.387202 CCGTCATCTAGTCCCAGCTG 59.613 60.000 6.78 6.78 0.00 4.24
4077 9673 0.259065 TCCGTCATCTAGTCCCAGCT 59.741 55.000 0.00 0.00 0.00 4.24
4078 9674 0.386113 GTCCGTCATCTAGTCCCAGC 59.614 60.000 0.00 0.00 0.00 4.85
4079 9675 1.763968 TGTCCGTCATCTAGTCCCAG 58.236 55.000 0.00 0.00 0.00 4.45
4080 9676 2.225382 TTGTCCGTCATCTAGTCCCA 57.775 50.000 0.00 0.00 0.00 4.37
4081 9677 2.693591 TCATTGTCCGTCATCTAGTCCC 59.306 50.000 0.00 0.00 0.00 4.46
4082 9678 3.381908 AGTCATTGTCCGTCATCTAGTCC 59.618 47.826 0.00 0.00 0.00 3.85
4083 9679 4.640789 AGTCATTGTCCGTCATCTAGTC 57.359 45.455 0.00 0.00 0.00 2.59
4084 9680 4.462834 TGAAGTCATTGTCCGTCATCTAGT 59.537 41.667 0.00 0.00 0.00 2.57
4085 9681 4.998788 TGAAGTCATTGTCCGTCATCTAG 58.001 43.478 0.00 0.00 0.00 2.43
4086 9682 5.127031 TGATGAAGTCATTGTCCGTCATCTA 59.873 40.000 21.88 13.33 41.16 1.98
4087 9683 3.961480 TGAAGTCATTGTCCGTCATCT 57.039 42.857 0.00 0.00 0.00 2.90
4088 9684 4.183865 TGATGAAGTCATTGTCCGTCATC 58.816 43.478 18.30 18.30 41.02 2.92
4089 9685 4.206477 TGATGAAGTCATTGTCCGTCAT 57.794 40.909 0.00 7.02 36.57 3.06
4090 9686 3.676291 TGATGAAGTCATTGTCCGTCA 57.324 42.857 0.00 0.00 36.57 4.35
4091 9687 4.452455 ACTTTGATGAAGTCATTGTCCGTC 59.548 41.667 0.00 0.00 45.40 4.79
4092 9688 4.389374 ACTTTGATGAAGTCATTGTCCGT 58.611 39.130 0.00 0.00 45.40 4.69
4093 9689 6.307155 GTTACTTTGATGAAGTCATTGTCCG 58.693 40.000 0.00 0.00 45.40 4.79
4094 9690 6.147164 TCGTTACTTTGATGAAGTCATTGTCC 59.853 38.462 0.00 0.00 45.40 4.02
4095 9691 7.117241 TCGTTACTTTGATGAAGTCATTGTC 57.883 36.000 0.00 0.00 45.40 3.18
4096 9692 7.173218 ACATCGTTACTTTGATGAAGTCATTGT 59.827 33.333 9.01 0.00 45.40 2.71
4097 9693 7.521529 ACATCGTTACTTTGATGAAGTCATTG 58.478 34.615 9.01 0.00 45.40 2.82
4098 9694 7.672983 ACATCGTTACTTTGATGAAGTCATT 57.327 32.000 9.01 0.00 45.40 2.57
4099 9695 8.251026 TCTACATCGTTACTTTGATGAAGTCAT 58.749 33.333 9.01 0.00 45.40 3.06
4100 9696 7.599171 TCTACATCGTTACTTTGATGAAGTCA 58.401 34.615 9.01 0.00 45.40 3.41
4101 9697 7.253817 GCTCTACATCGTTACTTTGATGAAGTC 60.254 40.741 9.01 0.00 45.40 3.01
4103 9699 6.291322 CGCTCTACATCGTTACTTTGATGAAG 60.291 42.308 9.01 4.97 43.68 3.02
4104 9700 5.515270 CGCTCTACATCGTTACTTTGATGAA 59.485 40.000 9.01 0.00 43.68 2.57
4105 9701 5.034797 CGCTCTACATCGTTACTTTGATGA 58.965 41.667 9.01 0.00 43.68 2.92
4106 9702 4.317418 GCGCTCTACATCGTTACTTTGATG 60.317 45.833 0.00 0.93 45.83 3.07
4107 9703 3.797256 GCGCTCTACATCGTTACTTTGAT 59.203 43.478 0.00 0.00 0.00 2.57
4108 9704 3.176708 GCGCTCTACATCGTTACTTTGA 58.823 45.455 0.00 0.00 0.00 2.69
4109 9705 2.281762 GGCGCTCTACATCGTTACTTTG 59.718 50.000 7.64 0.00 0.00 2.77
4110 9706 2.537401 GGCGCTCTACATCGTTACTTT 58.463 47.619 7.64 0.00 0.00 2.66
4111 9707 1.533338 CGGCGCTCTACATCGTTACTT 60.533 52.381 7.64 0.00 0.00 2.24
4112 9708 0.029035 CGGCGCTCTACATCGTTACT 59.971 55.000 7.64 0.00 0.00 2.24
4113 9709 1.538117 GCGGCGCTCTACATCGTTAC 61.538 60.000 26.86 0.00 0.00 2.50
4114 9710 1.298863 GCGGCGCTCTACATCGTTA 60.299 57.895 26.86 0.00 0.00 3.18
4115 9711 2.582498 GCGGCGCTCTACATCGTT 60.582 61.111 26.86 0.00 0.00 3.85
4116 9712 4.570663 GGCGGCGCTCTACATCGT 62.571 66.667 32.30 0.00 0.00 3.73
4117 9713 3.848347 ATGGCGGCGCTCTACATCG 62.848 63.158 32.30 0.56 0.00 3.84
4118 9714 1.595382 AATGGCGGCGCTCTACATC 60.595 57.895 32.30 13.58 0.00 3.06
4119 9715 1.889105 CAATGGCGGCGCTCTACAT 60.889 57.895 32.30 22.45 0.00 2.29
4120 9716 2.511373 CAATGGCGGCGCTCTACA 60.511 61.111 32.30 21.12 0.00 2.74
4121 9717 3.941836 GCAATGGCGGCGCTCTAC 61.942 66.667 32.30 15.58 0.00 2.59
4143 9739 1.566077 GGTGAAAACCGAACCGACG 59.434 57.895 0.00 0.00 0.00 5.12
4152 9748 1.883926 ACATAGTTGCCGGTGAAAACC 59.116 47.619 1.90 0.00 0.00 3.27
4153 9749 2.812011 AGACATAGTTGCCGGTGAAAAC 59.188 45.455 1.90 3.28 0.00 2.43


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

AutoCloner maintained by Alex Coulton.