Multiple sequence alignment - TraesCS3D01G193600
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 | TraesCS3D01G193600 | chr3D | 100.000 | 4747 | 0 | 0 | 1 | 4747 | 184369113 | 184373859 | 0.000000e+00 | 8767.0 |
1 | TraesCS3D01G193600 | chr3D | 100.000 | 2686 | 0 | 0 | 4968 | 7653 | 184374080 | 184376765 | 0.000000e+00 | 4961.0 |
2 | TraesCS3D01G193600 | chr3D | 100.000 | 2038 | 0 | 0 | 7936 | 9973 | 184377048 | 184379085 | 0.000000e+00 | 3764.0 |
3 | TraesCS3D01G193600 | chr3D | 97.408 | 733 | 19 | 0 | 4013 | 4745 | 278445279 | 278446011 | 0.000000e+00 | 1249.0 |
4 | TraesCS3D01G193600 | chr3D | 97.154 | 738 | 21 | 0 | 4008 | 4745 | 278443847 | 278444584 | 0.000000e+00 | 1247.0 |
5 | TraesCS3D01G193600 | chr3D | 98.485 | 528 | 8 | 0 | 9249 | 9776 | 397784701 | 397784174 | 0.000000e+00 | 931.0 |
6 | TraesCS3D01G193600 | chr3D | 97.710 | 524 | 12 | 0 | 9249 | 9772 | 181111638 | 181112161 | 0.000000e+00 | 902.0 |
7 | TraesCS3D01G193600 | chr3D | 91.921 | 557 | 39 | 4 | 4968 | 5520 | 30048393 | 30047839 | 0.000000e+00 | 774.0 |
8 | TraesCS3D01G193600 | chr3D | 91.577 | 558 | 46 | 1 | 4971 | 5528 | 135264058 | 135264614 | 0.000000e+00 | 769.0 |
9 | TraesCS3D01G193600 | chr3D | 85.185 | 243 | 31 | 5 | 8084 | 8323 | 565616964 | 565616724 | 2.780000e-60 | 244.0 |
10 | TraesCS3D01G193600 | chr3D | 96.947 | 131 | 4 | 0 | 5515 | 5645 | 184373348 | 184373478 | 4.690000e-53 | 220.0 |
11 | TraesCS3D01G193600 | chr3D | 96.947 | 131 | 4 | 0 | 5515 | 5645 | 278444075 | 278444205 | 4.690000e-53 | 220.0 |
12 | TraesCS3D01G193600 | chr3D | 96.947 | 131 | 4 | 0 | 5515 | 5645 | 278445502 | 278445632 | 4.690000e-53 | 220.0 |
13 | TraesCS3D01G193600 | chr3D | 76.330 | 376 | 51 | 17 | 7965 | 8328 | 594347075 | 594347424 | 6.200000e-37 | 167.0 |
14 | TraesCS3D01G193600 | chr3A | 96.090 | 2813 | 83 | 13 | 408 | 3205 | 235370652 | 235373452 | 0.000000e+00 | 4560.0 |
15 | TraesCS3D01G193600 | chr3A | 93.638 | 2012 | 87 | 28 | 5644 | 7647 | 235374212 | 235376190 | 0.000000e+00 | 2968.0 |
16 | TraesCS3D01G193600 | chr3A | 91.321 | 1325 | 45 | 21 | 7937 | 9252 | 235376223 | 235377486 | 0.000000e+00 | 1746.0 |
17 | TraesCS3D01G193600 | chr3A | 95.349 | 774 | 24 | 3 | 3242 | 4012 | 235373453 | 235374217 | 0.000000e+00 | 1219.0 |
18 | TraesCS3D01G193600 | chr3A | 95.646 | 735 | 32 | 0 | 4011 | 4745 | 9561873 | 9561139 | 0.000000e+00 | 1181.0 |
19 | TraesCS3D01G193600 | chr3A | 92.870 | 547 | 37 | 2 | 4968 | 5513 | 38023687 | 38024232 | 0.000000e+00 | 793.0 |
20 | TraesCS3D01G193600 | chr3A | 91.341 | 358 | 19 | 5 | 5 | 360 | 235366985 | 235367332 | 7.010000e-131 | 479.0 |
21 | TraesCS3D01G193600 | chr3A | 96.575 | 146 | 4 | 1 | 9828 | 9973 | 235380385 | 235380529 | 3.600000e-59 | 241.0 |
22 | TraesCS3D01G193600 | chr3A | 96.970 | 132 | 4 | 0 | 5513 | 5644 | 331478867 | 331478998 | 1.300000e-53 | 222.0 |
23 | TraesCS3D01G193600 | chr3A | 95.588 | 136 | 6 | 0 | 5513 | 5648 | 38023156 | 38023291 | 1.690000e-52 | 219.0 |
24 | TraesCS3D01G193600 | chr3A | 76.370 | 292 | 42 | 14 | 8039 | 8328 | 724889137 | 724889403 | 2.260000e-26 | 132.0 |
25 | TraesCS3D01G193600 | chr3A | 75.685 | 292 | 44 | 15 | 8039 | 8328 | 724930994 | 724931260 | 4.890000e-23 | 121.0 |
26 | TraesCS3D01G193600 | chr3A | 85.437 | 103 | 15 | 0 | 6189 | 6291 | 724883402 | 724883504 | 3.810000e-19 | 108.0 |
27 | TraesCS3D01G193600 | chr3B | 93.652 | 2489 | 103 | 19 | 1554 | 4012 | 262852293 | 262854756 | 0.000000e+00 | 3670.0 |
28 | TraesCS3D01G193600 | chr3B | 90.754 | 1352 | 64 | 27 | 7937 | 9257 | 262855672 | 262856993 | 0.000000e+00 | 1748.0 |
29 | TraesCS3D01G193600 | chr3B | 96.354 | 768 | 26 | 2 | 797 | 1563 | 262843253 | 262844019 | 0.000000e+00 | 1262.0 |
30 | TraesCS3D01G193600 | chr3B | 95.853 | 651 | 27 | 0 | 5644 | 6294 | 262854751 | 262855401 | 0.000000e+00 | 1053.0 |
31 | TraesCS3D01G193600 | chr3B | 90.000 | 190 | 11 | 2 | 7447 | 7630 | 262855400 | 262855587 | 1.290000e-58 | 239.0 |
32 | TraesCS3D01G193600 | chr3B | 87.805 | 205 | 17 | 4 | 557 | 754 | 262843057 | 262843260 | 6.020000e-57 | 233.0 |
33 | TraesCS3D01G193600 | chr3B | 80.620 | 258 | 33 | 12 | 1 | 252 | 262842148 | 262842394 | 6.150000e-42 | 183.0 |
34 | TraesCS3D01G193600 | chr3B | 97.826 | 92 | 2 | 0 | 9803 | 9894 | 262864329 | 262864420 | 1.040000e-34 | 159.0 |
35 | TraesCS3D01G193600 | chr3B | 92.857 | 70 | 4 | 1 | 9889 | 9957 | 262877985 | 262878054 | 6.370000e-17 | 100.0 |
36 | TraesCS3D01G193600 | chr3B | 96.226 | 53 | 2 | 0 | 3113 | 3165 | 262853893 | 262853945 | 4.960000e-13 | 87.9 |
37 | TraesCS3D01G193600 | chr3B | 100.000 | 34 | 0 | 0 | 9776 | 9809 | 262856977 | 262857010 | 8.360000e-06 | 63.9 |
38 | TraesCS3D01G193600 | chr7D | 93.508 | 1109 | 60 | 7 | 6289 | 7393 | 305131619 | 305132719 | 0.000000e+00 | 1639.0 |
39 | TraesCS3D01G193600 | chr7D | 95.652 | 736 | 31 | 1 | 4010 | 4745 | 104506056 | 104506790 | 0.000000e+00 | 1181.0 |
40 | TraesCS3D01G193600 | chr7D | 95.362 | 733 | 34 | 0 | 4013 | 4745 | 548904816 | 548904084 | 0.000000e+00 | 1166.0 |
41 | TraesCS3D01G193600 | chr7D | 97.736 | 530 | 10 | 2 | 9249 | 9777 | 13322699 | 13323227 | 0.000000e+00 | 911.0 |
42 | TraesCS3D01G193600 | chr7D | 94.301 | 193 | 10 | 1 | 8135 | 8326 | 289244712 | 289244904 | 2.720000e-75 | 294.0 |
43 | TraesCS3D01G193600 | chr7D | 92.697 | 178 | 13 | 0 | 7449 | 7626 | 289244273 | 289244450 | 3.570000e-64 | 257.0 |
44 | TraesCS3D01G193600 | chr6D | 93.435 | 1112 | 62 | 6 | 6289 | 7393 | 296695652 | 296696759 | 0.000000e+00 | 1639.0 |
45 | TraesCS3D01G193600 | chr6D | 95.634 | 733 | 23 | 2 | 4012 | 4743 | 235770296 | 235771020 | 0.000000e+00 | 1168.0 |
46 | TraesCS3D01G193600 | chr6D | 98.488 | 529 | 7 | 1 | 9249 | 9776 | 119965725 | 119965197 | 0.000000e+00 | 931.0 |
47 | TraesCS3D01G193600 | chr6D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 115323675 | 115323620 | 2.310000e-11 | 82.4 |
48 | TraesCS3D01G193600 | chr6D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 126434301 | 126434246 | 2.310000e-11 | 82.4 |
49 | TraesCS3D01G193600 | chr6D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 296696696 | 296696751 | 2.310000e-11 | 82.4 |
50 | TraesCS3D01G193600 | chr6D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 401143257 | 401143202 | 2.310000e-11 | 82.4 |
51 | TraesCS3D01G193600 | chr2D | 93.478 | 1104 | 65 | 3 | 6290 | 7393 | 284549778 | 284550874 | 0.000000e+00 | 1633.0 |
52 | TraesCS3D01G193600 | chr2D | 97.091 | 722 | 21 | 0 | 4013 | 4734 | 50446206 | 50446927 | 0.000000e+00 | 1218.0 |
53 | TraesCS3D01G193600 | chr2D | 99.055 | 529 | 5 | 0 | 9249 | 9777 | 203046317 | 203045789 | 0.000000e+00 | 950.0 |
54 | TraesCS3D01G193600 | chr2D | 96.269 | 134 | 5 | 0 | 5515 | 5648 | 546811563 | 546811430 | 4.690000e-53 | 220.0 |
55 | TraesCS3D01G193600 | chr2D | 91.447 | 152 | 13 | 0 | 5513 | 5664 | 579950408 | 579950257 | 1.020000e-49 | 209.0 |
56 | TraesCS3D01G193600 | chr5A | 93.032 | 1105 | 77 | 0 | 6289 | 7393 | 524722811 | 524723915 | 0.000000e+00 | 1615.0 |
57 | TraesCS3D01G193600 | chr5A | 93.085 | 1099 | 76 | 0 | 6295 | 7393 | 68818884 | 68817786 | 0.000000e+00 | 1609.0 |
58 | TraesCS3D01G193600 | chr5A | 92.405 | 553 | 41 | 1 | 4968 | 5519 | 338296134 | 338296686 | 0.000000e+00 | 787.0 |
59 | TraesCS3D01G193600 | chr2A | 92.941 | 1105 | 78 | 0 | 6289 | 7393 | 179281894 | 179282998 | 0.000000e+00 | 1609.0 |
60 | TraesCS3D01G193600 | chr2A | 92.941 | 1105 | 78 | 0 | 6289 | 7393 | 421218143 | 421219247 | 0.000000e+00 | 1609.0 |
61 | TraesCS3D01G193600 | chr2A | 92.941 | 1105 | 78 | 0 | 6289 | 7393 | 578391620 | 578390516 | 0.000000e+00 | 1609.0 |
62 | TraesCS3D01G193600 | chr2A | 92.922 | 551 | 36 | 2 | 4971 | 5521 | 732267528 | 732266981 | 0.000000e+00 | 798.0 |
63 | TraesCS3D01G193600 | chr2A | 92.168 | 549 | 43 | 0 | 4971 | 5519 | 385646978 | 385646430 | 0.000000e+00 | 776.0 |
64 | TraesCS3D01G193600 | chr1D | 95.232 | 734 | 35 | 0 | 4012 | 4745 | 402341113 | 402341846 | 0.000000e+00 | 1162.0 |
65 | TraesCS3D01G193600 | chr1D | 98.110 | 529 | 10 | 0 | 9249 | 9777 | 62578408 | 62577880 | 0.000000e+00 | 922.0 |
66 | TraesCS3D01G193600 | chr1D | 96.947 | 131 | 4 | 0 | 5515 | 5645 | 402343945 | 402344075 | 4.690000e-53 | 220.0 |
67 | TraesCS3D01G193600 | chr1D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 182051052 | 182050997 | 2.310000e-11 | 82.4 |
68 | TraesCS3D01G193600 | chr1A | 95.694 | 720 | 31 | 0 | 4012 | 4731 | 442609758 | 442610477 | 0.000000e+00 | 1158.0 |
69 | TraesCS3D01G193600 | chr5D | 97.925 | 530 | 9 | 2 | 9249 | 9777 | 377361712 | 377361184 | 0.000000e+00 | 917.0 |
70 | TraesCS3D01G193600 | chr5D | 92.973 | 555 | 38 | 1 | 4968 | 5521 | 375395426 | 375395980 | 0.000000e+00 | 808.0 |
71 | TraesCS3D01G193600 | chr5D | 89.320 | 103 | 11 | 0 | 6189 | 6291 | 221474063 | 221474165 | 8.130000e-26 | 130.0 |
72 | TraesCS3D01G193600 | chr6B | 97.561 | 533 | 12 | 1 | 9249 | 9780 | 142803291 | 142803823 | 0.000000e+00 | 911.0 |
73 | TraesCS3D01G193600 | chr6B | 97.538 | 528 | 13 | 0 | 9249 | 9776 | 207153344 | 207153871 | 0.000000e+00 | 904.0 |
74 | TraesCS3D01G193600 | chr6B | 88.715 | 319 | 25 | 6 | 8018 | 8326 | 82159883 | 82160200 | 7.310000e-101 | 379.0 |
75 | TraesCS3D01G193600 | chr6B | 81.132 | 265 | 35 | 10 | 8064 | 8323 | 408692786 | 408693040 | 2.200000e-46 | 198.0 |
76 | TraesCS3D01G193600 | chr6B | 93.204 | 103 | 7 | 0 | 6189 | 6291 | 408692262 | 408692364 | 1.730000e-32 | 152.0 |
77 | TraesCS3D01G193600 | chr6B | 89.524 | 105 | 11 | 0 | 6187 | 6291 | 82159478 | 82159582 | 6.280000e-27 | 134.0 |
78 | TraesCS3D01G193600 | chr7A | 93.818 | 550 | 34 | 0 | 4971 | 5520 | 518669932 | 518670481 | 0.000000e+00 | 828.0 |
79 | TraesCS3D01G193600 | chr7A | 92.266 | 556 | 41 | 2 | 4968 | 5521 | 106239306 | 106239861 | 0.000000e+00 | 787.0 |
80 | TraesCS3D01G193600 | chr7A | 91.237 | 194 | 17 | 0 | 7449 | 7642 | 330450773 | 330450580 | 2.140000e-66 | 265.0 |
81 | TraesCS3D01G193600 | chr7B | 92.386 | 197 | 11 | 3 | 8135 | 8330 | 362024755 | 362024948 | 2.740000e-70 | 278.0 |
82 | TraesCS3D01G193600 | chr7B | 92.188 | 192 | 15 | 0 | 7449 | 7640 | 362024311 | 362024502 | 1.280000e-68 | 272.0 |
83 | TraesCS3D01G193600 | chr7B | 94.737 | 57 | 2 | 1 | 7393 | 7449 | 445663469 | 445663414 | 4.960000e-13 | 87.9 |
84 | TraesCS3D01G193600 | chr4D | 92.784 | 194 | 11 | 1 | 7449 | 7642 | 483681327 | 483681517 | 2.740000e-70 | 278.0 |
85 | TraesCS3D01G193600 | chr4D | 97.015 | 134 | 4 | 0 | 5515 | 5648 | 417675177 | 417675044 | 1.010000e-54 | 226.0 |
86 | TraesCS3D01G193600 | chr4D | 87.895 | 190 | 16 | 6 | 7449 | 7632 | 499584109 | 499583921 | 6.070000e-52 | 217.0 |
87 | TraesCS3D01G193600 | chr4D | 78.412 | 403 | 35 | 16 | 7936 | 8322 | 483681586 | 483681952 | 2.180000e-51 | 215.0 |
88 | TraesCS3D01G193600 | chr4D | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 26252994 | 26253049 | 2.310000e-11 | 82.4 |
89 | TraesCS3D01G193600 | chr5B | 91.960 | 199 | 7 | 2 | 7449 | 7641 | 325082858 | 325082663 | 4.590000e-68 | 270.0 |
90 | TraesCS3D01G193600 | chr5B | 93.939 | 99 | 6 | 0 | 6189 | 6287 | 325082964 | 325082866 | 6.240000e-32 | 150.0 |
91 | TraesCS3D01G193600 | chr5B | 88.350 | 103 | 12 | 0 | 6189 | 6291 | 244004847 | 244004949 | 3.780000e-24 | 124.0 |
92 | TraesCS3D01G193600 | chr5B | 94.737 | 57 | 2 | 1 | 7393 | 7449 | 474782712 | 474782767 | 4.960000e-13 | 87.9 |
93 | TraesCS3D01G193600 | chr4B | 86.500 | 200 | 20 | 6 | 7449 | 7642 | 642627595 | 642627397 | 7.850000e-51 | 213.0 |
94 | TraesCS3D01G193600 | chr4B | 92.982 | 57 | 3 | 1 | 7393 | 7449 | 38792529 | 38792584 | 2.310000e-11 | 82.4 |
95 | TraesCS3D01G193600 | chr6A | 90.291 | 103 | 10 | 0 | 6189 | 6291 | 374420481 | 374420583 | 1.750000e-27 | 135.0 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS3D01G193600 | chr3D | 184369113 | 184379085 | 9972 | False | 4428.000000 | 8767 | 99.236750 | 1 | 9973 | 4 | chr3D.!!$F4 | 9972 |
1 | TraesCS3D01G193600 | chr3D | 397784174 | 397784701 | 527 | True | 931.000000 | 931 | 98.485000 | 9249 | 9776 | 1 | chr3D.!!$R2 | 527 |
2 | TraesCS3D01G193600 | chr3D | 181111638 | 181112161 | 523 | False | 902.000000 | 902 | 97.710000 | 9249 | 9772 | 1 | chr3D.!!$F2 | 523 |
3 | TraesCS3D01G193600 | chr3D | 30047839 | 30048393 | 554 | True | 774.000000 | 774 | 91.921000 | 4968 | 5520 | 1 | chr3D.!!$R1 | 552 |
4 | TraesCS3D01G193600 | chr3D | 135264058 | 135264614 | 556 | False | 769.000000 | 769 | 91.577000 | 4971 | 5528 | 1 | chr3D.!!$F1 | 557 |
5 | TraesCS3D01G193600 | chr3D | 278443847 | 278446011 | 2164 | False | 734.000000 | 1249 | 97.114000 | 4008 | 5645 | 4 | chr3D.!!$F5 | 1637 |
6 | TraesCS3D01G193600 | chr3A | 235366985 | 235380529 | 13544 | False | 1868.833333 | 4560 | 94.052333 | 5 | 9973 | 6 | chr3A.!!$F6 | 9968 |
7 | TraesCS3D01G193600 | chr3A | 9561139 | 9561873 | 734 | True | 1181.000000 | 1181 | 95.646000 | 4011 | 4745 | 1 | chr3A.!!$R1 | 734 |
8 | TraesCS3D01G193600 | chr3A | 38023156 | 38024232 | 1076 | False | 506.000000 | 793 | 94.229000 | 4968 | 5648 | 2 | chr3A.!!$F5 | 680 |
9 | TraesCS3D01G193600 | chr3B | 262852293 | 262857010 | 4717 | False | 1143.633333 | 3670 | 94.414167 | 1554 | 9809 | 6 | chr3B.!!$F4 | 8255 |
10 | TraesCS3D01G193600 | chr3B | 262842148 | 262844019 | 1871 | False | 559.333333 | 1262 | 88.259667 | 1 | 1563 | 3 | chr3B.!!$F3 | 1562 |
11 | TraesCS3D01G193600 | chr7D | 305131619 | 305132719 | 1100 | False | 1639.000000 | 1639 | 93.508000 | 6289 | 7393 | 1 | chr7D.!!$F3 | 1104 |
12 | TraesCS3D01G193600 | chr7D | 104506056 | 104506790 | 734 | False | 1181.000000 | 1181 | 95.652000 | 4010 | 4745 | 1 | chr7D.!!$F2 | 735 |
13 | TraesCS3D01G193600 | chr7D | 548904084 | 548904816 | 732 | True | 1166.000000 | 1166 | 95.362000 | 4013 | 4745 | 1 | chr7D.!!$R1 | 732 |
14 | TraesCS3D01G193600 | chr7D | 13322699 | 13323227 | 528 | False | 911.000000 | 911 | 97.736000 | 9249 | 9777 | 1 | chr7D.!!$F1 | 528 |
15 | TraesCS3D01G193600 | chr7D | 289244273 | 289244904 | 631 | False | 275.500000 | 294 | 93.499000 | 7449 | 8326 | 2 | chr7D.!!$F4 | 877 |
16 | TraesCS3D01G193600 | chr6D | 235770296 | 235771020 | 724 | False | 1168.000000 | 1168 | 95.634000 | 4012 | 4743 | 1 | chr6D.!!$F1 | 731 |
17 | TraesCS3D01G193600 | chr6D | 119965197 | 119965725 | 528 | True | 931.000000 | 931 | 98.488000 | 9249 | 9776 | 1 | chr6D.!!$R2 | 527 |
18 | TraesCS3D01G193600 | chr6D | 296695652 | 296696759 | 1107 | False | 860.700000 | 1639 | 93.208500 | 6289 | 7449 | 2 | chr6D.!!$F2 | 1160 |
19 | TraesCS3D01G193600 | chr2D | 284549778 | 284550874 | 1096 | False | 1633.000000 | 1633 | 93.478000 | 6290 | 7393 | 1 | chr2D.!!$F2 | 1103 |
20 | TraesCS3D01G193600 | chr2D | 50446206 | 50446927 | 721 | False | 1218.000000 | 1218 | 97.091000 | 4013 | 4734 | 1 | chr2D.!!$F1 | 721 |
21 | TraesCS3D01G193600 | chr2D | 203045789 | 203046317 | 528 | True | 950.000000 | 950 | 99.055000 | 9249 | 9777 | 1 | chr2D.!!$R1 | 528 |
22 | TraesCS3D01G193600 | chr5A | 524722811 | 524723915 | 1104 | False | 1615.000000 | 1615 | 93.032000 | 6289 | 7393 | 1 | chr5A.!!$F2 | 1104 |
23 | TraesCS3D01G193600 | chr5A | 68817786 | 68818884 | 1098 | True | 1609.000000 | 1609 | 93.085000 | 6295 | 7393 | 1 | chr5A.!!$R1 | 1098 |
24 | TraesCS3D01G193600 | chr5A | 338296134 | 338296686 | 552 | False | 787.000000 | 787 | 92.405000 | 4968 | 5519 | 1 | chr5A.!!$F1 | 551 |
25 | TraesCS3D01G193600 | chr2A | 179281894 | 179282998 | 1104 | False | 1609.000000 | 1609 | 92.941000 | 6289 | 7393 | 1 | chr2A.!!$F1 | 1104 |
26 | TraesCS3D01G193600 | chr2A | 421218143 | 421219247 | 1104 | False | 1609.000000 | 1609 | 92.941000 | 6289 | 7393 | 1 | chr2A.!!$F2 | 1104 |
27 | TraesCS3D01G193600 | chr2A | 578390516 | 578391620 | 1104 | True | 1609.000000 | 1609 | 92.941000 | 6289 | 7393 | 1 | chr2A.!!$R2 | 1104 |
28 | TraesCS3D01G193600 | chr2A | 732266981 | 732267528 | 547 | True | 798.000000 | 798 | 92.922000 | 4971 | 5521 | 1 | chr2A.!!$R3 | 550 |
29 | TraesCS3D01G193600 | chr2A | 385646430 | 385646978 | 548 | True | 776.000000 | 776 | 92.168000 | 4971 | 5519 | 1 | chr2A.!!$R1 | 548 |
30 | TraesCS3D01G193600 | chr1D | 62577880 | 62578408 | 528 | True | 922.000000 | 922 | 98.110000 | 9249 | 9777 | 1 | chr1D.!!$R1 | 528 |
31 | TraesCS3D01G193600 | chr1D | 402341113 | 402344075 | 2962 | False | 691.000000 | 1162 | 96.089500 | 4012 | 5645 | 2 | chr1D.!!$F1 | 1633 |
32 | TraesCS3D01G193600 | chr1A | 442609758 | 442610477 | 719 | False | 1158.000000 | 1158 | 95.694000 | 4012 | 4731 | 1 | chr1A.!!$F1 | 719 |
33 | TraesCS3D01G193600 | chr5D | 377361184 | 377361712 | 528 | True | 917.000000 | 917 | 97.925000 | 9249 | 9777 | 1 | chr5D.!!$R1 | 528 |
34 | TraesCS3D01G193600 | chr5D | 375395426 | 375395980 | 554 | False | 808.000000 | 808 | 92.973000 | 4968 | 5521 | 1 | chr5D.!!$F2 | 553 |
35 | TraesCS3D01G193600 | chr6B | 142803291 | 142803823 | 532 | False | 911.000000 | 911 | 97.561000 | 9249 | 9780 | 1 | chr6B.!!$F1 | 531 |
36 | TraesCS3D01G193600 | chr6B | 207153344 | 207153871 | 527 | False | 904.000000 | 904 | 97.538000 | 9249 | 9776 | 1 | chr6B.!!$F2 | 527 |
37 | TraesCS3D01G193600 | chr6B | 82159478 | 82160200 | 722 | False | 256.500000 | 379 | 89.119500 | 6187 | 8326 | 2 | chr6B.!!$F3 | 2139 |
38 | TraesCS3D01G193600 | chr7A | 518669932 | 518670481 | 549 | False | 828.000000 | 828 | 93.818000 | 4971 | 5520 | 1 | chr7A.!!$F2 | 549 |
39 | TraesCS3D01G193600 | chr7A | 106239306 | 106239861 | 555 | False | 787.000000 | 787 | 92.266000 | 4968 | 5521 | 1 | chr7A.!!$F1 | 553 |
40 | TraesCS3D01G193600 | chr7B | 362024311 | 362024948 | 637 | False | 275.000000 | 278 | 92.287000 | 7449 | 8330 | 2 | chr7B.!!$F1 | 881 |
41 | TraesCS3D01G193600 | chr4D | 483681327 | 483681952 | 625 | False | 246.500000 | 278 | 85.598000 | 7449 | 8322 | 2 | chr4D.!!$F2 | 873 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
508 | 3999 | 1.002069 | TGCAGGGATCCAAGACCATT | 58.998 | 50.000 | 15.23 | 0.0 | 0.00 | 3.16 | F |
563 | 4054 | 1.379527 | GGCTTCCTCCACAATTACGG | 58.620 | 55.000 | 0.00 | 0.0 | 0.00 | 4.02 | F |
1910 | 5562 | 1.215647 | GTCGGTGAAGTCGGCTCAT | 59.784 | 57.895 | 0.00 | 0.0 | 0.00 | 2.90 | F |
2997 | 6664 | 1.792757 | ATCCACCTCCTGCTGGCAAA | 61.793 | 55.000 | 4.42 | 0.0 | 0.00 | 3.68 | F |
4195 | 7884 | 1.555075 | TCAGTATTTGCTCGGCTTCCT | 59.445 | 47.619 | 0.00 | 0.0 | 0.00 | 3.36 | F |
5184 | 10554 | 1.900498 | GTTTCCAGGCAGCAGCAGT | 60.900 | 57.895 | 2.65 | 0.0 | 44.61 | 4.40 | F |
5623 | 12097 | 0.396695 | AATCTCCGCCCTAGAACCGA | 60.397 | 55.000 | 0.00 | 0.0 | 0.00 | 4.69 | F |
6907 | 13392 | 0.387929 | ACGAGAGAGTGCCACGAAAA | 59.612 | 50.000 | 0.00 | 0.0 | 0.00 | 2.29 | F |
7442 | 13929 | 0.323957 | ACGGTTTTCACCTCTAGCCC | 59.676 | 55.000 | 0.00 | 0.0 | 41.64 | 5.19 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1673 | 5325 | 0.694771 | ACTGATTGCCAGCTCCAAGA | 59.305 | 50.000 | 3.10 | 0.0 | 46.81 | 3.02 | R |
2300 | 5960 | 0.961019 | AAACTCGTGCATGTGCCAAT | 59.039 | 45.000 | 5.68 | 0.0 | 41.18 | 3.16 | R |
3849 | 7538 | 3.447229 | TCATCAGCTATCGAACTCAACCA | 59.553 | 43.478 | 0.00 | 0.0 | 0.00 | 3.67 | R |
4317 | 8006 | 0.327576 | AGGGTGGAGATTGTAGGGGG | 60.328 | 60.000 | 0.00 | 0.0 | 0.00 | 5.40 | R |
5428 | 10798 | 2.515991 | CGGTGTGCACAGGTGGTT | 60.516 | 61.111 | 22.40 | 0.0 | 0.00 | 3.67 | R |
6339 | 12813 | 0.677731 | CCACCACATGACATTCCGCT | 60.678 | 55.000 | 0.00 | 0.0 | 0.00 | 5.52 | R |
7431 | 13918 | 0.264955 | TAGGGGAAGGGCTAGAGGTG | 59.735 | 60.000 | 0.00 | 0.0 | 0.00 | 4.00 | R |
8034 | 14585 | 0.617413 | CTCATTGGAGGAGGCTGTGT | 59.383 | 55.000 | 0.00 | 0.0 | 37.51 | 3.72 | R |
9246 | 15873 | 0.953960 | GCGGTCCAAATTCGGTCTGT | 60.954 | 55.000 | 0.00 | 0.0 | 0.00 | 3.41 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
35 | 36 | 6.427853 | TGTCATTAGGTATGTGCATATTCTGC | 59.572 | 38.462 | 0.00 | 0.00 | 41.05 | 4.26 |
80 | 82 | 5.567138 | AATGTTTGCGGATTAGAGAAAGG | 57.433 | 39.130 | 0.00 | 0.00 | 0.00 | 3.11 |
117 | 120 | 6.759356 | GTGCAGTGGGTTAAAAATGTAGTTTT | 59.241 | 34.615 | 0.00 | 0.00 | 41.69 | 2.43 |
120 | 123 | 6.704050 | CAGTGGGTTAAAAATGTAGTTTTGGG | 59.296 | 38.462 | 0.80 | 0.00 | 39.86 | 4.12 |
180 | 184 | 9.474313 | AATCAAATTTGTAGGGCTAATGAGTTA | 57.526 | 29.630 | 17.47 | 0.00 | 0.00 | 2.24 |
183 | 187 | 6.824958 | ATTTGTAGGGCTAATGAGTTAGGA | 57.175 | 37.500 | 0.00 | 0.00 | 38.19 | 2.94 |
206 | 210 | 6.238731 | GGATGCTCGTATTGAAATCCATTGAA | 60.239 | 38.462 | 0.00 | 0.00 | 38.74 | 2.69 |
210 | 214 | 7.488792 | TGCTCGTATTGAAATCCATTGAATTTG | 59.511 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
276 | 371 | 9.118300 | ACTCTTAATAAAGCATGGATGAGAAAG | 57.882 | 33.333 | 0.00 | 0.00 | 32.36 | 2.62 |
291 | 386 | 6.922957 | GGATGAGAAAGTATGATCACAGAGAC | 59.077 | 42.308 | 0.00 | 0.00 | 0.00 | 3.36 |
302 | 397 | 9.619316 | GTATGATCACAGAGACTAACATATCAC | 57.381 | 37.037 | 0.00 | 0.00 | 0.00 | 3.06 |
345 | 440 | 9.696917 | GAACAAACATTTGGTTGAAATCTCTAT | 57.303 | 29.630 | 14.92 | 0.00 | 45.19 | 1.98 |
372 | 930 | 2.110967 | CGCTGGCCAACTCCATGAG | 61.111 | 63.158 | 7.01 | 0.00 | 35.22 | 2.90 |
385 | 943 | 2.679837 | CTCCATGAGGGTTGAAATCACG | 59.320 | 50.000 | 0.00 | 0.00 | 38.11 | 4.35 |
444 | 3813 | 5.507974 | TGTTGCGAGAGATAATACACGTAG | 58.492 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
508 | 3999 | 1.002069 | TGCAGGGATCCAAGACCATT | 58.998 | 50.000 | 15.23 | 0.00 | 0.00 | 3.16 |
537 | 4028 | 2.171209 | CTCCATGGTCAGTGTCGGCA | 62.171 | 60.000 | 12.58 | 0.00 | 0.00 | 5.69 |
563 | 4054 | 1.379527 | GGCTTCCTCCACAATTACGG | 58.620 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
692 | 4336 | 6.030849 | CAGGTGTTCTAATCACGAGACTAAG | 58.969 | 44.000 | 0.00 | 0.00 | 36.76 | 2.18 |
781 | 4427 | 8.716646 | TTTTAGTGCTGAGAATCGATTATTCA | 57.283 | 30.769 | 11.38 | 15.95 | 45.58 | 2.57 |
1505 | 5157 | 7.114953 | GCTCTTGCACTAATTTTGTTAGGTTTC | 59.885 | 37.037 | 0.00 | 0.00 | 39.41 | 2.78 |
1593 | 5245 | 8.339714 | TCTTGGTGTAAGAAATTAAACAGAACG | 58.660 | 33.333 | 0.00 | 0.00 | 42.31 | 3.95 |
1665 | 5317 | 3.342377 | TCATTGCTGTCCGGTCAAATA | 57.658 | 42.857 | 0.00 | 0.00 | 0.00 | 1.40 |
1673 | 5325 | 3.879295 | CTGTCCGGTCAAATATGAATGCT | 59.121 | 43.478 | 0.00 | 0.00 | 37.30 | 3.79 |
1733 | 5385 | 9.664332 | TCAGACATTTTTCCAAAGAAATTTTGA | 57.336 | 25.926 | 0.00 | 0.00 | 41.55 | 2.69 |
1881 | 5533 | 2.027192 | GCTACTCTTGGTGGAATGGTGA | 60.027 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1910 | 5562 | 1.215647 | GTCGGTGAAGTCGGCTCAT | 59.784 | 57.895 | 0.00 | 0.00 | 0.00 | 2.90 |
2205 | 5865 | 1.978617 | AGGTGCAGCAAATTCCCCG | 60.979 | 57.895 | 19.63 | 0.00 | 0.00 | 5.73 |
2288 | 5948 | 3.054802 | ACCTGAGCTGTTTCCTATCAAGG | 60.055 | 47.826 | 0.00 | 0.00 | 45.21 | 3.61 |
2313 | 5973 | 3.428045 | GGAAGAACTATTGGCACATGCAC | 60.428 | 47.826 | 6.15 | 0.00 | 44.36 | 4.57 |
2587 | 6254 | 3.196254 | GGATTTTGATGCCCTGTCATGTT | 59.804 | 43.478 | 0.00 | 0.00 | 0.00 | 2.71 |
2688 | 6355 | 2.561373 | GGCGGCAAAACTTCTCCG | 59.439 | 61.111 | 3.07 | 0.00 | 44.29 | 4.63 |
2764 | 6431 | 3.303881 | TCGGATTGAGCCATCTTATCG | 57.696 | 47.619 | 0.00 | 0.00 | 0.00 | 2.92 |
2832 | 6499 | 3.438781 | TCAACTGTCTTGTTGTTGTGGTC | 59.561 | 43.478 | 7.17 | 0.00 | 45.26 | 4.02 |
2997 | 6664 | 1.792757 | ATCCACCTCCTGCTGGCAAA | 61.793 | 55.000 | 4.42 | 0.00 | 0.00 | 3.68 |
3036 | 6703 | 6.070653 | CCTGTAGTATAACCCACCACAAGTTA | 60.071 | 42.308 | 0.00 | 0.00 | 0.00 | 2.24 |
3043 | 6710 | 2.307686 | ACCCACCACAAGTTATAGGGTG | 59.692 | 50.000 | 0.00 | 0.00 | 45.82 | 4.61 |
3047 | 6714 | 4.820894 | ACCACAAGTTATAGGGTGAGTC | 57.179 | 45.455 | 0.00 | 0.00 | 33.16 | 3.36 |
3169 | 6836 | 4.268884 | GGAGTGCTAAAGCTAATGAAGTCG | 59.731 | 45.833 | 3.26 | 0.00 | 42.66 | 4.18 |
3197 | 6864 | 9.593134 | AATGACAAGTTATTCTCTAGTGATGTC | 57.407 | 33.333 | 13.34 | 13.34 | 35.30 | 3.06 |
3218 | 6885 | 5.104776 | TGTCTGGAGTGCTAAAGCTAATGAT | 60.105 | 40.000 | 3.26 | 0.00 | 42.66 | 2.45 |
3281 | 6948 | 8.902540 | TGCAATATGAAGTAATAACCGAATCT | 57.097 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
3325 | 6992 | 8.822805 | AGTCAGTACCCAAGAGATAAATTAACA | 58.177 | 33.333 | 0.00 | 0.00 | 0.00 | 2.41 |
3326 | 6993 | 9.614792 | GTCAGTACCCAAGAGATAAATTAACAT | 57.385 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
3568 | 7257 | 8.375506 | ACCTGAGTGAGATTAAACAGTTTGATA | 58.624 | 33.333 | 8.93 | 0.00 | 0.00 | 2.15 |
3626 | 7315 | 4.643387 | ACGTTCAGTGGCCAGCCC | 62.643 | 66.667 | 5.11 | 0.00 | 34.56 | 5.19 |
3849 | 7538 | 8.860088 | GCCTCCCATTATTTTTGTTATGATAGT | 58.140 | 33.333 | 0.00 | 0.00 | 0.00 | 2.12 |
3863 | 7552 | 8.002984 | TGTTATGATAGTGGTTGAGTTCGATA | 57.997 | 34.615 | 0.00 | 0.00 | 0.00 | 2.92 |
4008 | 7697 | 9.689501 | ACTTCTAGTGCTTTATCTAGAGTAACT | 57.310 | 33.333 | 0.00 | 0.00 | 41.99 | 2.24 |
4195 | 7884 | 1.555075 | TCAGTATTTGCTCGGCTTCCT | 59.445 | 47.619 | 0.00 | 0.00 | 0.00 | 3.36 |
4258 | 7947 | 3.068881 | CCGCCTCTTCTCCACCAA | 58.931 | 61.111 | 0.00 | 0.00 | 0.00 | 3.67 |
4317 | 8006 | 2.100087 | GACCTCGTCTTCCTCCATCTTC | 59.900 | 54.545 | 0.00 | 0.00 | 0.00 | 2.87 |
4465 | 8154 | 3.710722 | CCGCTGGCCTTCTCCACT | 61.711 | 66.667 | 3.32 | 0.00 | 31.74 | 4.00 |
5184 | 10554 | 1.900498 | GTTTCCAGGCAGCAGCAGT | 60.900 | 57.895 | 2.65 | 0.00 | 44.61 | 4.40 |
5424 | 10794 | 3.842925 | GACGGGCCACTGCTTTCCA | 62.843 | 63.158 | 4.39 | 0.00 | 37.74 | 3.53 |
5537 | 12011 | 3.068881 | CCGCCTCTTCTCCACCAA | 58.931 | 61.111 | 0.00 | 0.00 | 0.00 | 3.67 |
5596 | 12070 | 2.100087 | GACCTCGTCTTCCTCCATCTTC | 59.900 | 54.545 | 0.00 | 0.00 | 0.00 | 2.87 |
5623 | 12097 | 0.396695 | AATCTCCGCCCTAGAACCGA | 60.397 | 55.000 | 0.00 | 0.00 | 0.00 | 4.69 |
5760 | 12234 | 3.375782 | AGAGCAAGTTGATTTGGTTGC | 57.624 | 42.857 | 7.16 | 0.00 | 44.60 | 4.17 |
5858 | 12332 | 6.627395 | ACATCAAACGGTGAAACTTAATCA | 57.373 | 33.333 | 0.00 | 0.00 | 40.50 | 2.57 |
6046 | 12520 | 5.787380 | AGAATGCTTCAGTTTGGATTTTCC | 58.213 | 37.500 | 0.00 | 0.00 | 36.96 | 3.13 |
6089 | 12563 | 4.407365 | CACCCTTTGGAAACTATGGAACT | 58.593 | 43.478 | 0.00 | 0.00 | 33.20 | 3.01 |
6208 | 12682 | 1.000145 | GTAACTTGTAGCTGCTCGGC | 59.000 | 55.000 | 4.91 | 0.00 | 0.00 | 5.54 |
6323 | 12797 | 4.997395 | TGGTGTTCATTGACTTAGAGAAGC | 59.003 | 41.667 | 0.00 | 0.00 | 35.97 | 3.86 |
6339 | 12813 | 5.632118 | AGAGAAGCCCTACGATAAGATACA | 58.368 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
6544 | 13018 | 2.026822 | GGTGATGGATGAGGTCACAAGT | 60.027 | 50.000 | 7.00 | 0.00 | 43.01 | 3.16 |
6696 | 13172 | 5.575995 | GGCTTAGTAGAACTAAAACCGAGTG | 59.424 | 44.000 | 1.55 | 0.00 | 39.89 | 3.51 |
6847 | 13332 | 3.684305 | ACGTGAATCATCGAATCAAAGCA | 59.316 | 39.130 | 11.02 | 0.00 | 0.00 | 3.91 |
6890 | 13375 | 2.666619 | GCTTCTGGCATTCTTTGTGACG | 60.667 | 50.000 | 0.00 | 0.00 | 41.35 | 4.35 |
6907 | 13392 | 0.387929 | ACGAGAGAGTGCCACGAAAA | 59.612 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
6931 | 13416 | 7.253905 | ACTAAAAGGCAAGTTCTATAGGACA | 57.746 | 36.000 | 13.81 | 0.00 | 0.00 | 4.02 |
7000 | 13486 | 1.603802 | AGGCGACATGTTCAACAGTTG | 59.396 | 47.619 | 6.99 | 6.99 | 0.00 | 3.16 |
7040 | 13526 | 1.352017 | TGTTGAGATGGATGTGTGGCT | 59.648 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
7120 | 13606 | 4.461781 | CCAATTGAAGAGAAGCTTGTCCAT | 59.538 | 41.667 | 19.26 | 9.40 | 36.83 | 3.41 |
7127 | 13613 | 3.055530 | AGAGAAGCTTGTCCATCATCGTT | 60.056 | 43.478 | 19.26 | 0.00 | 0.00 | 3.85 |
7149 | 13635 | 3.213506 | TGAGATGGTTTGGGCATATTCG | 58.786 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
7168 | 13655 | 4.399395 | CGCAGGCCTCCAGAAGCA | 62.399 | 66.667 | 0.00 | 0.00 | 0.00 | 3.91 |
7394 | 13881 | 0.539669 | AGCCTACCCCAACTTGTTGC | 60.540 | 55.000 | 7.89 | 0.00 | 0.00 | 4.17 |
7395 | 13882 | 1.532604 | GCCTACCCCAACTTGTTGCC | 61.533 | 60.000 | 7.89 | 0.00 | 0.00 | 4.52 |
7397 | 13884 | 1.247567 | CTACCCCAACTTGTTGCCAG | 58.752 | 55.000 | 7.89 | 2.03 | 0.00 | 4.85 |
7398 | 13885 | 0.847373 | TACCCCAACTTGTTGCCAGA | 59.153 | 50.000 | 7.89 | 0.00 | 0.00 | 3.86 |
7400 | 13887 | 0.389025 | CCCCAACTTGTTGCCAGAAC | 59.611 | 55.000 | 7.89 | 0.00 | 0.00 | 3.01 |
7401 | 13888 | 0.389025 | CCCAACTTGTTGCCAGAACC | 59.611 | 55.000 | 7.89 | 0.00 | 0.00 | 3.62 |
7402 | 13889 | 1.110442 | CCAACTTGTTGCCAGAACCA | 58.890 | 50.000 | 7.89 | 0.00 | 0.00 | 3.67 |
7403 | 13890 | 1.688197 | CCAACTTGTTGCCAGAACCAT | 59.312 | 47.619 | 7.89 | 0.00 | 0.00 | 3.55 |
7404 | 13891 | 2.546373 | CCAACTTGTTGCCAGAACCATG | 60.546 | 50.000 | 7.89 | 0.00 | 0.00 | 3.66 |
7405 | 13892 | 2.361757 | CAACTTGTTGCCAGAACCATGA | 59.638 | 45.455 | 0.00 | 0.00 | 0.00 | 3.07 |
7406 | 13893 | 2.233271 | ACTTGTTGCCAGAACCATGAG | 58.767 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
7408 | 13895 | 2.363306 | TGTTGCCAGAACCATGAGTT | 57.637 | 45.000 | 0.00 | 0.00 | 43.07 | 3.01 |
7409 | 13896 | 1.955778 | TGTTGCCAGAACCATGAGTTG | 59.044 | 47.619 | 0.00 | 0.00 | 39.40 | 3.16 |
7418 | 13905 | 3.231734 | CCATGAGTTGGTTGCGAGA | 57.768 | 52.632 | 0.00 | 0.00 | 40.99 | 4.04 |
7420 | 13907 | 1.667724 | CCATGAGTTGGTTGCGAGATC | 59.332 | 52.381 | 0.00 | 0.00 | 40.99 | 2.75 |
7423 | 13910 | 3.953712 | TGAGTTGGTTGCGAGATCTTA | 57.046 | 42.857 | 0.00 | 0.00 | 0.00 | 2.10 |
7424 | 13911 | 3.585862 | TGAGTTGGTTGCGAGATCTTAC | 58.414 | 45.455 | 0.00 | 0.00 | 0.00 | 2.34 |
7425 | 13912 | 2.599082 | GAGTTGGTTGCGAGATCTTACG | 59.401 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
7428 | 13915 | 1.274167 | TGGTTGCGAGATCTTACGGTT | 59.726 | 47.619 | 0.00 | 0.00 | 0.00 | 4.44 |
7429 | 13916 | 2.289195 | TGGTTGCGAGATCTTACGGTTT | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
7430 | 13917 | 2.740447 | GGTTGCGAGATCTTACGGTTTT | 59.260 | 45.455 | 0.00 | 0.00 | 0.00 | 2.43 |
7431 | 13918 | 3.181523 | GGTTGCGAGATCTTACGGTTTTC | 60.182 | 47.826 | 0.00 | 0.00 | 0.00 | 2.29 |
7432 | 13919 | 3.306917 | TGCGAGATCTTACGGTTTTCA | 57.693 | 42.857 | 0.00 | 0.00 | 0.00 | 2.69 |
7433 | 13920 | 2.991190 | TGCGAGATCTTACGGTTTTCAC | 59.009 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
7434 | 13921 | 2.347755 | GCGAGATCTTACGGTTTTCACC | 59.652 | 50.000 | 0.00 | 0.00 | 40.16 | 4.02 |
7435 | 13922 | 3.846360 | CGAGATCTTACGGTTTTCACCT | 58.154 | 45.455 | 0.00 | 0.00 | 41.64 | 4.00 |
7436 | 13923 | 3.858238 | CGAGATCTTACGGTTTTCACCTC | 59.142 | 47.826 | 0.00 | 0.00 | 41.64 | 3.85 |
7437 | 13924 | 4.380655 | CGAGATCTTACGGTTTTCACCTCT | 60.381 | 45.833 | 0.00 | 0.00 | 41.64 | 3.69 |
7438 | 13925 | 5.163683 | CGAGATCTTACGGTTTTCACCTCTA | 60.164 | 44.000 | 0.00 | 0.00 | 41.64 | 2.43 |
7439 | 13926 | 6.210287 | AGATCTTACGGTTTTCACCTCTAG | 57.790 | 41.667 | 0.00 | 0.00 | 41.64 | 2.43 |
7440 | 13927 | 4.184079 | TCTTACGGTTTTCACCTCTAGC | 57.816 | 45.455 | 0.00 | 0.00 | 41.64 | 3.42 |
7441 | 13928 | 3.056322 | TCTTACGGTTTTCACCTCTAGCC | 60.056 | 47.826 | 0.00 | 0.00 | 41.64 | 3.93 |
7442 | 13929 | 0.323957 | ACGGTTTTCACCTCTAGCCC | 59.676 | 55.000 | 0.00 | 0.00 | 41.64 | 5.19 |
7443 | 13930 | 0.613777 | CGGTTTTCACCTCTAGCCCT | 59.386 | 55.000 | 0.00 | 0.00 | 41.64 | 5.19 |
7444 | 13931 | 1.003233 | CGGTTTTCACCTCTAGCCCTT | 59.997 | 52.381 | 0.00 | 0.00 | 41.64 | 3.95 |
7445 | 13932 | 2.712709 | GGTTTTCACCTCTAGCCCTTC | 58.287 | 52.381 | 0.00 | 0.00 | 40.44 | 3.46 |
7446 | 13933 | 2.618302 | GGTTTTCACCTCTAGCCCTTCC | 60.618 | 54.545 | 0.00 | 0.00 | 40.44 | 3.46 |
7447 | 13934 | 1.286248 | TTTCACCTCTAGCCCTTCCC | 58.714 | 55.000 | 0.00 | 0.00 | 0.00 | 3.97 |
7522 | 14021 | 3.798646 | GCAATAAGCAGCAGCAACA | 57.201 | 47.368 | 3.17 | 0.00 | 45.49 | 3.33 |
7527 | 14026 | 0.524414 | TAAGCAGCAGCAACAGCATG | 59.476 | 50.000 | 3.17 | 0.00 | 45.49 | 4.06 |
8079 | 14630 | 4.862823 | CGGGAGGGGAGGGGAGAC | 62.863 | 77.778 | 0.00 | 0.00 | 0.00 | 3.36 |
8105 | 14699 | 0.404426 | GGGCCTGACCTAAAACACCT | 59.596 | 55.000 | 0.84 | 0.00 | 39.10 | 4.00 |
8294 | 14889 | 2.105993 | AGGATTAACTGGCCGATTACCC | 59.894 | 50.000 | 0.00 | 3.60 | 0.00 | 3.69 |
8371 | 14966 | 5.957842 | TGAGGAATTTGCGTTCACTAAAT | 57.042 | 34.783 | 0.00 | 0.00 | 0.00 | 1.40 |
8372 | 14967 | 5.938322 | TGAGGAATTTGCGTTCACTAAATC | 58.062 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
8373 | 14968 | 5.471797 | TGAGGAATTTGCGTTCACTAAATCA | 59.528 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
8374 | 14969 | 6.150976 | TGAGGAATTTGCGTTCACTAAATCAT | 59.849 | 34.615 | 0.00 | 0.00 | 0.00 | 2.45 |
8375 | 14970 | 7.335673 | TGAGGAATTTGCGTTCACTAAATCATA | 59.664 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
8376 | 14971 | 8.050778 | AGGAATTTGCGTTCACTAAATCATAA | 57.949 | 30.769 | 0.00 | 0.00 | 0.00 | 1.90 |
8377 | 14972 | 8.184192 | AGGAATTTGCGTTCACTAAATCATAAG | 58.816 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
8483 | 15078 | 8.898761 | TCACACACTTTCTTTTCTTGCTTATAA | 58.101 | 29.630 | 0.00 | 0.00 | 0.00 | 0.98 |
8484 | 15079 | 9.173939 | CACACACTTTCTTTTCTTGCTTATAAG | 57.826 | 33.333 | 8.20 | 8.20 | 0.00 | 1.73 |
8485 | 15080 | 8.903820 | ACACACTTTCTTTTCTTGCTTATAAGT | 58.096 | 29.630 | 13.91 | 0.00 | 0.00 | 2.24 |
8591 | 15188 | 6.000219 | TCTTGTACGTCAGGGTAGTATATCC | 59.000 | 44.000 | 0.00 | 0.00 | 44.30 | 2.59 |
8610 | 15207 | 7.716799 | ATATCCTAGATCTAGAGGTTGCAAG | 57.283 | 40.000 | 28.04 | 10.24 | 35.21 | 4.01 |
8662 | 15274 | 6.760298 | TGTTAGGTGTGTAATTTCGTGTGTAA | 59.240 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
8679 | 15291 | 5.766174 | GTGTGTAAAGGTGATAAGAAACCCA | 59.234 | 40.000 | 0.00 | 0.00 | 37.13 | 4.51 |
8703 | 15315 | 3.081804 | GGGCAGCTTAGTTAACATGTGT | 58.918 | 45.455 | 8.61 | 0.00 | 0.00 | 3.72 |
8707 | 15319 | 5.048713 | GGCAGCTTAGTTAACATGTGTTCTT | 60.049 | 40.000 | 8.61 | 0.00 | 39.31 | 2.52 |
8899 | 15518 | 6.467723 | ACATGAAGTCGTGTTTTGTCTATC | 57.532 | 37.500 | 0.00 | 0.00 | 43.01 | 2.08 |
8981 | 15600 | 5.342361 | AGGGGAATAGGTAGAGAAGTAGG | 57.658 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
9033 | 15658 | 3.433274 | ACATAGACAAACGAGTGTGCATG | 59.567 | 43.478 | 0.00 | 6.37 | 0.00 | 4.06 |
9047 | 15672 | 4.821260 | AGTGTGCATGTTGTTGTTCAGATA | 59.179 | 37.500 | 0.00 | 0.00 | 0.00 | 1.98 |
9086 | 15713 | 8.233868 | CGGAATAATATTTGTGACAAAGTGACA | 58.766 | 33.333 | 16.43 | 1.36 | 0.00 | 3.58 |
9209 | 15836 | 7.230747 | TCCTCTAATCATGTTTTGTTTCCTCA | 58.769 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
9225 | 15852 | 6.716628 | TGTTTCCTCAGAATCTGCAAGTAATT | 59.283 | 34.615 | 5.18 | 0.00 | 33.76 | 1.40 |
9240 | 15867 | 6.607689 | GCAAGTAATTGCATTGTGTAGTGTA | 58.392 | 36.000 | 22.11 | 0.00 | 46.60 | 2.90 |
9241 | 15868 | 7.081349 | GCAAGTAATTGCATTGTGTAGTGTAA | 58.919 | 34.615 | 22.11 | 0.00 | 46.60 | 2.41 |
9242 | 15869 | 7.754924 | GCAAGTAATTGCATTGTGTAGTGTAAT | 59.245 | 33.333 | 22.11 | 0.00 | 46.60 | 1.89 |
9243 | 15870 | 9.064804 | CAAGTAATTGCATTGTGTAGTGTAATG | 57.935 | 33.333 | 0.00 | 0.00 | 32.26 | 1.90 |
9244 | 15871 | 7.761409 | AGTAATTGCATTGTGTAGTGTAATGG | 58.239 | 34.615 | 0.00 | 0.00 | 32.26 | 3.16 |
9245 | 15872 | 6.588719 | AATTGCATTGTGTAGTGTAATGGT | 57.411 | 33.333 | 0.00 | 0.00 | 32.26 | 3.55 |
9246 | 15873 | 7.695480 | AATTGCATTGTGTAGTGTAATGGTA | 57.305 | 32.000 | 0.00 | 0.00 | 32.26 | 3.25 |
9247 | 15874 | 6.489127 | TTGCATTGTGTAGTGTAATGGTAC | 57.511 | 37.500 | 0.00 | 0.00 | 33.54 | 3.34 |
9574 | 16202 | 4.097286 | TGCTAGGGTATTTCGGCAAAAATC | 59.903 | 41.667 | 0.00 | 0.00 | 31.50 | 2.17 |
9814 | 16442 | 1.303282 | GGTAGGAAGGTTGGCCTGG | 59.697 | 63.158 | 3.32 | 0.00 | 46.33 | 4.45 |
9815 | 16443 | 1.303282 | GTAGGAAGGTTGGCCTGGG | 59.697 | 63.158 | 3.32 | 0.00 | 46.33 | 4.45 |
9816 | 16444 | 2.612493 | TAGGAAGGTTGGCCTGGGC | 61.612 | 63.158 | 14.23 | 14.23 | 46.33 | 5.36 |
9818 | 16446 | 2.118294 | GAAGGTTGGCCTGGGCTT | 59.882 | 61.111 | 21.72 | 7.00 | 46.33 | 4.35 |
9819 | 16447 | 1.979155 | GAAGGTTGGCCTGGGCTTC | 60.979 | 63.158 | 21.72 | 12.46 | 46.33 | 3.86 |
9820 | 16448 | 3.868200 | AAGGTTGGCCTGGGCTTCG | 62.868 | 63.158 | 21.72 | 0.00 | 46.33 | 3.79 |
9825 | 16453 | 4.176752 | GGCCTGGGCTTCGGGTAG | 62.177 | 72.222 | 13.80 | 0.00 | 43.94 | 3.18 |
9826 | 16454 | 4.858680 | GCCTGGGCTTCGGGTAGC | 62.859 | 72.222 | 4.12 | 0.00 | 43.94 | 3.58 |
9856 | 19342 | 3.036075 | TGAGAGCTTGTGTCATGTCAG | 57.964 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
9866 | 19352 | 5.929697 | TGTGTCATGTCAGAGTGAAATTC | 57.070 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
9918 | 19404 | 6.148811 | TGTCGTTGACAAAGAAAGAAAGAAGT | 59.851 | 34.615 | 5.34 | 0.00 | 39.78 | 3.01 |
9926 | 19412 | 7.475840 | ACAAAGAAAGAAAGAAGTAGCAGTTG | 58.524 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
9927 | 19413 | 6.625873 | AAGAAAGAAAGAAGTAGCAGTTGG | 57.374 | 37.500 | 0.00 | 0.00 | 0.00 | 3.77 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
8 | 9 | 7.658982 | CAGAATATGCACATACCTAATGACAGT | 59.341 | 37.037 | 0.00 | 0.00 | 39.07 | 3.55 |
97 | 100 | 6.584488 | ACCCAAAACTACATTTTTAACCCAC | 58.416 | 36.000 | 0.00 | 0.00 | 38.50 | 4.61 |
180 | 184 | 4.422073 | TGGATTTCAATACGAGCATCCT | 57.578 | 40.909 | 0.00 | 0.00 | 36.71 | 3.24 |
183 | 187 | 6.698008 | TTCAATGGATTTCAATACGAGCAT | 57.302 | 33.333 | 0.00 | 0.00 | 0.00 | 3.79 |
206 | 210 | 2.139917 | TGAGAGCGCGTACAAACAAAT | 58.860 | 42.857 | 8.43 | 0.00 | 0.00 | 2.32 |
210 | 214 | 2.875080 | AAATGAGAGCGCGTACAAAC | 57.125 | 45.000 | 8.43 | 0.00 | 0.00 | 2.93 |
276 | 371 | 9.619316 | GTGATATGTTAGTCTCTGTGATCATAC | 57.381 | 37.037 | 0.00 | 0.00 | 0.00 | 2.39 |
345 | 440 | 1.026182 | GTTGGCCAGCGATGACATGA | 61.026 | 55.000 | 5.11 | 0.00 | 0.00 | 3.07 |
372 | 930 | 5.576447 | ATTATTGTCCGTGATTTCAACCC | 57.424 | 39.130 | 0.00 | 0.00 | 0.00 | 4.11 |
403 | 961 | 4.880696 | GCAACAGATATTTCAAGCTCCTCT | 59.119 | 41.667 | 0.00 | 0.00 | 0.00 | 3.69 |
418 | 3785 | 5.215903 | CGTGTATTATCTCTCGCAACAGAT | 58.784 | 41.667 | 0.00 | 0.00 | 33.75 | 2.90 |
449 | 3818 | 4.321718 | GTGGTTAGGAGTGTTAGGGTTTC | 58.678 | 47.826 | 0.00 | 0.00 | 0.00 | 2.78 |
537 | 4028 | 0.920763 | TGTGGAGGAAGCCCATGGAT | 60.921 | 55.000 | 15.22 | 0.00 | 35.91 | 3.41 |
563 | 4054 | 0.319555 | TGAAGTGGTAGCAGACACGC | 60.320 | 55.000 | 0.00 | 0.00 | 42.25 | 5.34 |
759 | 4405 | 8.893219 | AATTGAATAATCGATTCTCAGCACTA | 57.107 | 30.769 | 15.25 | 4.25 | 43.90 | 2.74 |
1505 | 5157 | 4.342862 | TGGACTCTCTCTTGAAAGTTGG | 57.657 | 45.455 | 0.00 | 0.00 | 0.00 | 3.77 |
1593 | 5245 | 5.048013 | CCCAATTTAGAGGTTTGGTTCTGAC | 60.048 | 44.000 | 0.00 | 0.00 | 38.58 | 3.51 |
1632 | 5284 | 7.255242 | CCGGACAGCAATGATAACAAATATTCT | 60.255 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
1673 | 5325 | 0.694771 | ACTGATTGCCAGCTCCAAGA | 59.305 | 50.000 | 3.10 | 0.00 | 46.81 | 3.02 |
1881 | 5533 | 4.437239 | GACTTCACCGACTCATCATCAAT | 58.563 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2288 | 5948 | 4.439289 | GCATGTGCCAATAGTTCTTCCTTC | 60.439 | 45.833 | 0.00 | 0.00 | 34.31 | 3.46 |
2300 | 5960 | 0.961019 | AAACTCGTGCATGTGCCAAT | 59.039 | 45.000 | 5.68 | 0.00 | 41.18 | 3.16 |
2587 | 6254 | 0.464036 | AGAGACGTGGCTTGTGTCAA | 59.536 | 50.000 | 0.00 | 0.00 | 35.09 | 3.18 |
2688 | 6355 | 7.309438 | GGGCATAATTCCTAAAATCTCCATCAC | 60.309 | 40.741 | 0.00 | 0.00 | 0.00 | 3.06 |
2764 | 6431 | 4.098960 | TCCCACGATCCTACAACAATAGTC | 59.901 | 45.833 | 0.00 | 0.00 | 0.00 | 2.59 |
2832 | 6499 | 4.498345 | GCTAGATCTAGGTGGTCGAACAAG | 60.498 | 50.000 | 27.21 | 0.00 | 33.87 | 3.16 |
2897 | 6564 | 7.045416 | ACATACAAATTTATCGTGGAGCTACA | 58.955 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
3134 | 6801 | 5.355350 | GCTTTAGCACTCCAAACATCACTAT | 59.645 | 40.000 | 0.00 | 0.00 | 41.59 | 2.12 |
3169 | 6836 | 7.834068 | TCACTAGAGAATAACTTGTCATTGC | 57.166 | 36.000 | 0.00 | 0.00 | 0.00 | 3.56 |
3197 | 6864 | 6.690194 | AAATCATTAGCTTTAGCACTCCAG | 57.310 | 37.500 | 4.33 | 0.00 | 45.16 | 3.86 |
3281 | 6948 | 7.333528 | ACTGACTTGCAATTCAACTAAAAGA | 57.666 | 32.000 | 18.71 | 0.00 | 0.00 | 2.52 |
3288 | 6955 | 3.568007 | TGGGTACTGACTTGCAATTCAAC | 59.432 | 43.478 | 18.71 | 14.72 | 0.00 | 3.18 |
3325 | 6992 | 8.478877 | CCTACTCTTAATCAGTTGGTTAGTGAT | 58.521 | 37.037 | 6.90 | 0.00 | 46.60 | 3.06 |
3326 | 6993 | 7.578955 | GCCTACTCTTAATCAGTTGGTTAGTGA | 60.579 | 40.741 | 13.28 | 0.00 | 38.58 | 3.41 |
3374 | 7058 | 5.983118 | CCATACTAGCACGATCAACAATACA | 59.017 | 40.000 | 0.00 | 0.00 | 0.00 | 2.29 |
3568 | 7257 | 7.770897 | GTGAATTTCCCATCAGAGTATAAGTGT | 59.229 | 37.037 | 0.00 | 0.00 | 0.00 | 3.55 |
3626 | 7315 | 6.528423 | CGTAACATCTACTTCCTCTGTTCTTG | 59.472 | 42.308 | 0.00 | 0.00 | 32.66 | 3.02 |
3839 | 7528 | 7.115095 | GCTATCGAACTCAACCACTATCATAAC | 59.885 | 40.741 | 0.00 | 0.00 | 0.00 | 1.89 |
3849 | 7538 | 3.447229 | TCATCAGCTATCGAACTCAACCA | 59.553 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
3863 | 7552 | 5.470437 | CAGTGCAGAATTATCATCATCAGCT | 59.530 | 40.000 | 0.00 | 0.00 | 0.00 | 4.24 |
4008 | 7697 | 5.995282 | CCTAATATGCCGGTCATAACAGAAA | 59.005 | 40.000 | 18.34 | 1.54 | 40.73 | 2.52 |
4195 | 7884 | 1.688187 | GGTCTCCCGGCTCCCTAAA | 60.688 | 63.158 | 0.00 | 0.00 | 0.00 | 1.85 |
4291 | 7980 | 0.392729 | GAGGAAGACGAGGTCGAGGA | 60.393 | 60.000 | 6.35 | 0.00 | 43.02 | 3.71 |
4317 | 8006 | 0.327576 | AGGGTGGAGATTGTAGGGGG | 60.328 | 60.000 | 0.00 | 0.00 | 0.00 | 5.40 |
4581 | 8270 | 1.000019 | AGATCGTTGAGGACCCCGA | 60.000 | 57.895 | 0.00 | 0.00 | 0.00 | 5.14 |
5424 | 10794 | 2.591715 | GTGCACAGGTGGTTCGCT | 60.592 | 61.111 | 13.17 | 0.00 | 0.00 | 4.93 |
5428 | 10798 | 2.515991 | CGGTGTGCACAGGTGGTT | 60.516 | 61.111 | 22.40 | 0.00 | 0.00 | 3.67 |
5537 | 12011 | 4.148825 | CTAGGCGCCGTCCTTGCT | 62.149 | 66.667 | 23.20 | 2.71 | 37.66 | 3.91 |
5596 | 12070 | 2.819284 | GGGCGGAGATTGTAGGGGG | 61.819 | 68.421 | 0.00 | 0.00 | 0.00 | 5.40 |
5623 | 12097 | 2.832733 | GTGTTAGGAGCTAGGGTTCTGT | 59.167 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
5735 | 12209 | 3.953612 | ACCAAATCAACTTGCTCTTCACA | 59.046 | 39.130 | 0.00 | 0.00 | 0.00 | 3.58 |
5738 | 12212 | 3.737774 | GCAACCAAATCAACTTGCTCTTC | 59.262 | 43.478 | 0.00 | 0.00 | 36.81 | 2.87 |
5760 | 12234 | 3.461061 | TCACTCAGCTTTTGTCACTCAG | 58.539 | 45.455 | 0.00 | 0.00 | 0.00 | 3.35 |
5974 | 12448 | 2.676839 | GCATCTCCATCATATTCCGCAG | 59.323 | 50.000 | 0.00 | 0.00 | 0.00 | 5.18 |
6046 | 12520 | 4.396166 | GTGGTTCATCATTGGAAGGTACAG | 59.604 | 45.833 | 0.00 | 0.00 | 0.00 | 2.74 |
6089 | 12563 | 8.715191 | AATACAACTTTGAAAAACATGAAGCA | 57.285 | 26.923 | 0.00 | 0.00 | 0.00 | 3.91 |
6208 | 12682 | 2.182516 | AATCCCTACTCCTCACCTGG | 57.817 | 55.000 | 0.00 | 0.00 | 0.00 | 4.45 |
6268 | 12742 | 9.232882 | AGGTCCTAATTAACCTACCAATGAATA | 57.767 | 33.333 | 7.02 | 0.00 | 44.12 | 1.75 |
6323 | 12797 | 3.079578 | TCCGCTGTATCTTATCGTAGGG | 58.920 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
6339 | 12813 | 0.677731 | CCACCACATGACATTCCGCT | 60.678 | 55.000 | 0.00 | 0.00 | 0.00 | 5.52 |
6544 | 13018 | 7.126268 | CACCATGGGATATCTCCTTGTATATCA | 59.874 | 40.741 | 18.09 | 0.00 | 41.74 | 2.15 |
6847 | 13332 | 1.153086 | GCGCCACTTCATCCATCCT | 60.153 | 57.895 | 0.00 | 0.00 | 0.00 | 3.24 |
6890 | 13375 | 2.156343 | AGTTTTCGTGGCACTCTCTC | 57.844 | 50.000 | 16.72 | 3.67 | 0.00 | 3.20 |
6907 | 13392 | 7.253905 | TGTCCTATAGAACTTGCCTTTTAGT | 57.746 | 36.000 | 0.00 | 0.00 | 0.00 | 2.24 |
7040 | 13526 | 1.891150 | GACTCGGTCCTTCCTTGTGTA | 59.109 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
7120 | 13606 | 3.081061 | CCCAAACCATCTCAAACGATGA | 58.919 | 45.455 | 2.57 | 0.00 | 42.63 | 2.92 |
7127 | 13613 | 3.631686 | CGAATATGCCCAAACCATCTCAA | 59.368 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
7168 | 13655 | 2.184322 | CGTCCGCTATGCACTGGT | 59.816 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
7401 | 13888 | 2.625737 | AGATCTCGCAACCAACTCATG | 58.374 | 47.619 | 0.00 | 0.00 | 0.00 | 3.07 |
7402 | 13889 | 3.340814 | AAGATCTCGCAACCAACTCAT | 57.659 | 42.857 | 0.00 | 0.00 | 0.00 | 2.90 |
7403 | 13890 | 2.839486 | AAGATCTCGCAACCAACTCA | 57.161 | 45.000 | 0.00 | 0.00 | 0.00 | 3.41 |
7404 | 13891 | 2.599082 | CGTAAGATCTCGCAACCAACTC | 59.401 | 50.000 | 0.00 | 0.00 | 43.02 | 3.01 |
7405 | 13892 | 2.607187 | CGTAAGATCTCGCAACCAACT | 58.393 | 47.619 | 0.00 | 0.00 | 43.02 | 3.16 |
7406 | 13893 | 1.659098 | CCGTAAGATCTCGCAACCAAC | 59.341 | 52.381 | 0.00 | 0.00 | 43.02 | 3.77 |
7408 | 13895 | 0.892755 | ACCGTAAGATCTCGCAACCA | 59.107 | 50.000 | 0.00 | 0.00 | 43.02 | 3.67 |
7409 | 13896 | 2.005971 | AACCGTAAGATCTCGCAACC | 57.994 | 50.000 | 0.00 | 0.00 | 43.02 | 3.77 |
7410 | 13897 | 3.430895 | TGAAAACCGTAAGATCTCGCAAC | 59.569 | 43.478 | 0.00 | 0.00 | 43.02 | 4.17 |
7411 | 13898 | 3.430895 | GTGAAAACCGTAAGATCTCGCAA | 59.569 | 43.478 | 0.00 | 0.00 | 43.02 | 4.85 |
7413 | 13900 | 2.347755 | GGTGAAAACCGTAAGATCTCGC | 59.652 | 50.000 | 0.00 | 0.00 | 43.02 | 5.03 |
7414 | 13901 | 3.846360 | AGGTGAAAACCGTAAGATCTCG | 58.154 | 45.455 | 0.00 | 0.00 | 43.02 | 4.04 |
7415 | 13902 | 5.074584 | AGAGGTGAAAACCGTAAGATCTC | 57.925 | 43.478 | 0.00 | 0.00 | 43.02 | 2.75 |
7416 | 13903 | 5.394333 | GCTAGAGGTGAAAACCGTAAGATCT | 60.394 | 44.000 | 0.00 | 0.00 | 43.02 | 2.75 |
7418 | 13905 | 4.382793 | GGCTAGAGGTGAAAACCGTAAGAT | 60.383 | 45.833 | 0.00 | 0.00 | 43.02 | 2.40 |
7420 | 13907 | 3.259902 | GGCTAGAGGTGAAAACCGTAAG | 58.740 | 50.000 | 0.00 | 0.00 | 34.28 | 2.34 |
7423 | 13910 | 0.323957 | GGGCTAGAGGTGAAAACCGT | 59.676 | 55.000 | 0.00 | 0.00 | 34.28 | 4.83 |
7424 | 13911 | 0.613777 | AGGGCTAGAGGTGAAAACCG | 59.386 | 55.000 | 0.00 | 0.00 | 34.28 | 4.44 |
7425 | 13912 | 2.618302 | GGAAGGGCTAGAGGTGAAAACC | 60.618 | 54.545 | 0.00 | 0.00 | 0.00 | 3.27 |
7428 | 13915 | 1.286248 | GGGAAGGGCTAGAGGTGAAA | 58.714 | 55.000 | 0.00 | 0.00 | 0.00 | 2.69 |
7429 | 13916 | 0.620700 | GGGGAAGGGCTAGAGGTGAA | 60.621 | 60.000 | 0.00 | 0.00 | 0.00 | 3.18 |
7430 | 13917 | 1.003051 | GGGGAAGGGCTAGAGGTGA | 59.997 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
7431 | 13918 | 0.264955 | TAGGGGAAGGGCTAGAGGTG | 59.735 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
7432 | 13919 | 1.256010 | ATAGGGGAAGGGCTAGAGGT | 58.744 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
7433 | 13920 | 3.786213 | ATATAGGGGAAGGGCTAGAGG | 57.214 | 52.381 | 0.00 | 0.00 | 0.00 | 3.69 |
7434 | 13921 | 6.288096 | AGATATATAGGGGAAGGGCTAGAG | 57.712 | 45.833 | 0.00 | 0.00 | 0.00 | 2.43 |
7435 | 13922 | 6.692363 | AAGATATATAGGGGAAGGGCTAGA | 57.308 | 41.667 | 0.00 | 0.00 | 0.00 | 2.43 |
7436 | 13923 | 6.495526 | GCTAAGATATATAGGGGAAGGGCTAG | 59.504 | 46.154 | 0.00 | 0.00 | 0.00 | 3.42 |
7437 | 13924 | 6.164223 | AGCTAAGATATATAGGGGAAGGGCTA | 59.836 | 42.308 | 0.00 | 0.00 | 0.00 | 3.93 |
7438 | 13925 | 5.042218 | AGCTAAGATATATAGGGGAAGGGCT | 60.042 | 44.000 | 0.00 | 0.00 | 0.00 | 5.19 |
7439 | 13926 | 5.220521 | AGCTAAGATATATAGGGGAAGGGC | 58.779 | 45.833 | 0.00 | 0.00 | 0.00 | 5.19 |
7440 | 13927 | 7.363031 | TGTAGCTAAGATATATAGGGGAAGGG | 58.637 | 42.308 | 0.00 | 0.00 | 0.00 | 3.95 |
7520 | 14019 | 3.452264 | TCCTGCTCTGTATTACATGCTGT | 59.548 | 43.478 | 17.13 | 0.00 | 31.73 | 4.40 |
7521 | 14020 | 4.056740 | CTCCTGCTCTGTATTACATGCTG | 58.943 | 47.826 | 17.13 | 16.21 | 31.73 | 4.41 |
7522 | 14021 | 3.494048 | GCTCCTGCTCTGTATTACATGCT | 60.494 | 47.826 | 17.13 | 0.00 | 36.03 | 3.79 |
7527 | 14026 | 3.861840 | TGTTGCTCCTGCTCTGTATTAC | 58.138 | 45.455 | 0.00 | 0.00 | 40.48 | 1.89 |
7947 | 14469 | 2.364317 | CCGAGCCTCTTCCTCCCA | 60.364 | 66.667 | 0.00 | 0.00 | 0.00 | 4.37 |
7972 | 14494 | 1.376466 | GCCTGCACTCCTCAAGGAA | 59.624 | 57.895 | 0.00 | 0.00 | 44.91 | 3.36 |
8034 | 14585 | 0.617413 | CTCATTGGAGGAGGCTGTGT | 59.383 | 55.000 | 0.00 | 0.00 | 37.51 | 3.72 |
8079 | 14630 | 1.573108 | TTAGGTCAGGCCCTTCTCAG | 58.427 | 55.000 | 0.00 | 0.00 | 38.26 | 3.35 |
8105 | 14699 | 3.611358 | TCCCTCCTTTACCCCAAAACTA | 58.389 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
8154 | 14749 | 6.435904 | CCGATTAACTGAATAGAGGGAGAGAT | 59.564 | 42.308 | 0.00 | 0.00 | 0.00 | 2.75 |
8591 | 15188 | 3.244044 | GGCCTTGCAACCTCTAGATCTAG | 60.244 | 52.174 | 21.81 | 21.81 | 34.56 | 2.43 |
8597 | 15194 | 1.474143 | GCTAGGCCTTGCAACCTCTAG | 60.474 | 57.143 | 30.78 | 10.70 | 37.50 | 2.43 |
8626 | 15223 | 5.499139 | ACACACCTAACAAAACTGATGTG | 57.501 | 39.130 | 0.00 | 0.00 | 41.49 | 3.21 |
8662 | 15274 | 3.371595 | CCCGATGGGTTTCTTATCACCTT | 60.372 | 47.826 | 0.00 | 0.00 | 38.25 | 3.50 |
8679 | 15291 | 3.206150 | CATGTTAACTAAGCTGCCCGAT | 58.794 | 45.455 | 7.22 | 0.00 | 0.00 | 4.18 |
8703 | 15315 | 4.163458 | CACCCTACCCAGCATAACTAAGAA | 59.837 | 45.833 | 0.00 | 0.00 | 0.00 | 2.52 |
8707 | 15319 | 3.305720 | CTCACCCTACCCAGCATAACTA | 58.694 | 50.000 | 0.00 | 0.00 | 0.00 | 2.24 |
8981 | 15600 | 7.040686 | AGTGTACCACAATTTGATGGAACTTAC | 60.041 | 37.037 | 18.73 | 12.91 | 39.46 | 2.34 |
9047 | 15672 | 9.314321 | CAAATATTATTCCGACTGTACAGAAGT | 57.686 | 33.333 | 29.30 | 8.00 | 0.00 | 3.01 |
9225 | 15852 | 5.552178 | TGTACCATTACACTACACAATGCA | 58.448 | 37.500 | 0.00 | 0.00 | 32.98 | 3.96 |
9243 | 15870 | 2.353323 | GGTCCAAATTCGGTCTGTACC | 58.647 | 52.381 | 0.00 | 0.00 | 42.95 | 3.34 |
9244 | 15871 | 1.997606 | CGGTCCAAATTCGGTCTGTAC | 59.002 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
9245 | 15872 | 1.673626 | GCGGTCCAAATTCGGTCTGTA | 60.674 | 52.381 | 0.00 | 0.00 | 0.00 | 2.74 |
9246 | 15873 | 0.953960 | GCGGTCCAAATTCGGTCTGT | 60.954 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
9247 | 15874 | 1.644786 | GGCGGTCCAAATTCGGTCTG | 61.645 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
9409 | 16036 | 2.677836 | CAATCGGGAATGTTGACGTGAT | 59.322 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
9574 | 16202 | 3.272334 | GAATAGGCGGTGGCGCAG | 61.272 | 66.667 | 10.83 | 0.00 | 41.24 | 5.18 |
9815 | 16443 | 1.134491 | ACAATACAGGCTACCCGAAGC | 60.134 | 52.381 | 0.00 | 0.00 | 41.99 | 3.86 |
9816 | 16444 | 2.936498 | CAACAATACAGGCTACCCGAAG | 59.064 | 50.000 | 0.00 | 0.00 | 35.76 | 3.79 |
9818 | 16446 | 2.167693 | CTCAACAATACAGGCTACCCGA | 59.832 | 50.000 | 0.00 | 0.00 | 35.76 | 5.14 |
9819 | 16447 | 2.167693 | TCTCAACAATACAGGCTACCCG | 59.832 | 50.000 | 0.00 | 0.00 | 35.76 | 5.28 |
9820 | 16448 | 3.798202 | CTCTCAACAATACAGGCTACCC | 58.202 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
9822 | 16450 | 4.130286 | AGCTCTCAACAATACAGGCTAC | 57.870 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
9825 | 16453 | 3.077359 | ACAAGCTCTCAACAATACAGGC | 58.923 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
9826 | 16454 | 4.067896 | ACACAAGCTCTCAACAATACAGG | 58.932 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
9856 | 19342 | 2.229543 | TGCAGGCACATGAATTTCACTC | 59.770 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
9866 | 19352 | 0.038892 | GACAACCTTGCAGGCACATG | 60.039 | 55.000 | 0.00 | 0.00 | 39.63 | 3.21 |
9926 | 19412 | 1.900498 | AAACAGACAGCAGCTGCCC | 60.900 | 57.895 | 34.39 | 22.92 | 43.38 | 5.36 |
9927 | 19413 | 1.285023 | CAAACAGACAGCAGCTGCC | 59.715 | 57.895 | 34.39 | 19.70 | 43.38 | 4.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.