Multiple sequence alignment - TraesCS7D01G185700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G185700 chr7D 100.000 9012 0 0 1 9012 138429086 138420075 0.000000e+00 16643.0
1 TraesCS7D01G185700 chr7D 80.894 246 44 3 344 586 575229944 575229699 3.320000e-44 191.0
2 TraesCS7D01G185700 chr7D 80.080 251 47 3 344 592 11041243 11040994 5.560000e-42 183.0
3 TraesCS7D01G185700 chr7D 100.000 30 0 0 82 111 385425834 385425805 1.000000e-03 56.5
4 TraesCS7D01G185700 chr7D 100.000 28 0 0 170 197 629577907 629577934 1.600000e-02 52.8
5 TraesCS7D01G185700 chr7B 95.855 7286 232 29 1016 8273 103897431 103890188 0.000000e+00 11718.0
6 TraesCS7D01G185700 chr7B 83.652 1517 206 29 1919 3407 49063 47561 0.000000e+00 1389.0
7 TraesCS7D01G185700 chr7B 82.701 1081 136 35 4495 5544 46521 45461 0.000000e+00 913.0
8 TraesCS7D01G185700 chr7B 88.418 708 63 8 5 699 103899792 103899091 0.000000e+00 835.0
9 TraesCS7D01G185700 chr7B 97.987 298 6 0 734 1031 103899095 103898798 1.340000e-142 518.0
10 TraesCS7D01G185700 chr7B 90.588 170 16 0 3500 3669 47358 47189 9.100000e-55 226.0
11 TraesCS7D01G185700 chr7B 80.986 284 48 5 7734 8014 43905 43625 4.240000e-53 220.0
12 TraesCS7D01G185700 chr7B 86.893 206 15 6 8491 8692 103888855 103888658 4.240000e-53 220.0
13 TraesCS7D01G185700 chr7B 78.756 193 39 2 4680 4871 735289043 735288852 2.640000e-25 128.0
14 TraesCS7D01G185700 chr7B 100.000 30 0 0 8271 8300 103889141 103889112 1.000000e-03 56.5
15 TraesCS7D01G185700 chr2B 81.613 3856 570 77 1717 5539 787752163 787755912 0.000000e+00 3064.0
16 TraesCS7D01G185700 chr2B 83.134 836 110 22 6084 6902 787756296 787757117 0.000000e+00 734.0
17 TraesCS7D01G185700 chr2B 80.080 251 44 6 342 589 451530128 451530375 2.000000e-41 182.0
18 TraesCS7D01G185700 chr7A 94.280 1853 85 7 3711 5545 138508221 138506372 0.000000e+00 2815.0
19 TraesCS7D01G185700 chr7A 96.462 1272 39 1 2426 3697 138509472 138508207 0.000000e+00 2095.0
20 TraesCS7D01G185700 chr7A 94.481 1359 50 7 5586 6939 138504088 138502750 0.000000e+00 2071.0
21 TraesCS7D01G185700 chr7A 93.911 1281 73 5 7024 8302 138502749 138501472 0.000000e+00 1929.0
22 TraesCS7D01G185700 chr7A 96.056 786 27 2 1633 2418 138510611 138509830 0.000000e+00 1277.0
23 TraesCS7D01G185700 chr7A 93.584 717 28 6 8301 9012 138501382 138500679 0.000000e+00 1053.0
24 TraesCS7D01G185700 chr7A 91.150 452 22 4 1195 1646 138511065 138510632 1.670000e-166 597.0
25 TraesCS7D01G185700 chr7A 90.094 424 21 11 779 1185 138511464 138511045 1.720000e-146 531.0
26 TraesCS7D01G185700 chr7A 89.691 97 10 0 629 725 138511564 138511468 3.420000e-24 124.0
27 TraesCS7D01G185700 chr7A 88.298 94 9 2 6932 7025 8236003 8236094 2.660000e-20 111.0
28 TraesCS7D01G185700 chr5D 84.600 2026 268 28 1679 3683 500446406 500444404 0.000000e+00 1973.0
29 TraesCS7D01G185700 chr5D 82.591 1505 216 28 1919 3398 562721486 562722969 0.000000e+00 1286.0
30 TraesCS7D01G185700 chr5D 85.627 1141 139 17 4412 5544 500443783 500442660 0.000000e+00 1175.0
31 TraesCS7D01G185700 chr5D 87.183 788 79 12 4766 5544 562724159 562724933 0.000000e+00 876.0
32 TraesCS7D01G185700 chr5D 83.168 1010 114 28 4559 5544 18174465 18175442 0.000000e+00 872.0
33 TraesCS7D01G185700 chr5D 82.849 997 143 17 5954 6934 500442413 500441429 0.000000e+00 869.0
34 TraesCS7D01G185700 chr5D 82.549 871 121 21 6080 6934 18175715 18176570 0.000000e+00 737.0
35 TraesCS7D01G185700 chr5D 81.308 642 93 15 3732 4369 500444402 500443784 6.280000e-136 496.0
36 TraesCS7D01G185700 chr5D 79.070 645 104 17 7374 8014 562726058 562726675 1.810000e-111 414.0
37 TraesCS7D01G185700 chr5D 89.503 181 17 2 3500 3679 562723048 562723227 2.530000e-55 228.0
38 TraesCS7D01G185700 chr5D 81.526 249 40 6 344 589 329505600 329505355 5.520000e-47 200.0
39 TraesCS7D01G185700 chr5D 86.111 144 20 0 5754 5897 18175491 18175634 1.210000e-33 156.0
40 TraesCS7D01G185700 chr5D 88.776 98 11 0 6933 7030 252217184 252217281 4.420000e-23 121.0
41 TraesCS7D01G185700 chr5D 91.765 85 6 1 6942 7025 457676106 457676022 5.720000e-22 117.0
42 TraesCS7D01G185700 chr5D 90.909 44 2 1 8343 8384 453824725 453824682 3.510000e-04 58.4
43 TraesCS7D01G185700 chr5B 84.554 2020 264 31 1682 3683 621846965 621844976 0.000000e+00 1958.0
44 TraesCS7D01G185700 chr5B 85.308 1232 147 16 2435 3665 712967651 712968849 0.000000e+00 1242.0
45 TraesCS7D01G185700 chr5B 85.351 1140 145 16 4412 5544 621844346 621843222 0.000000e+00 1160.0
46 TraesCS7D01G185700 chr5B 84.226 1008 118 24 4556 5544 712969964 712970949 0.000000e+00 942.0
47 TraesCS7D01G185700 chr5B 82.851 1003 142 15 5954 6934 621842992 621841998 0.000000e+00 872.0
48 TraesCS7D01G185700 chr5B 82.115 643 95 13 3732 4369 621844974 621844347 4.790000e-147 532.0
49 TraesCS7D01G185700 chr5B 79.877 651 110 12 7374 8019 712972110 712972744 2.970000e-124 457.0
50 TraesCS7D01G185700 chr5B 89.286 196 19 2 6706 6900 712971842 712972036 2.510000e-60 244.0
51 TraesCS7D01G185700 chr5B 77.823 248 47 5 1 243 535695948 535696192 7.290000e-31 147.0
52 TraesCS7D01G185700 chr5A 84.403 2026 269 25 1679 3683 626971901 626969902 0.000000e+00 1947.0
53 TraesCS7D01G185700 chr5A 84.104 1969 249 38 1729 3684 11937468 11939385 0.000000e+00 1844.0
54 TraesCS7D01G185700 chr5A 86.053 1140 136 15 4412 5544 626969272 626968149 0.000000e+00 1203.0
55 TraesCS7D01G185700 chr5A 84.431 1002 104 27 4559 5540 11940101 11941070 0.000000e+00 939.0
56 TraesCS7D01G185700 chr5A 83.282 981 137 15 5971 6931 626967911 626966938 0.000000e+00 878.0
57 TraesCS7D01G185700 chr5A 82.131 873 121 25 6080 6934 11941335 11942190 0.000000e+00 715.0
58 TraesCS7D01G185700 chr5A 82.087 642 97 11 3732 4369 626969900 626969273 4.790000e-147 532.0
59 TraesCS7D01G185700 chr5A 80.321 249 47 2 345 592 473447114 473446867 4.300000e-43 187.0
60 TraesCS7D01G185700 chr5A 87.500 144 18 0 5754 5897 11941111 11941254 5.600000e-37 167.0
61 TraesCS7D01G185700 chr4A 83.788 1721 229 36 1729 3414 615699599 615697894 0.000000e+00 1587.0
62 TraesCS7D01G185700 chr4A 87.370 768 82 10 4775 5541 615696770 615696017 0.000000e+00 867.0
63 TraesCS7D01G185700 chr4A 81.777 878 125 22 6079 6937 615695667 615694806 0.000000e+00 702.0
64 TraesCS7D01G185700 chr4A 82.486 177 24 7 5754 5928 615695925 615695754 2.030000e-31 148.0
65 TraesCS7D01G185700 chr4A 82.530 166 28 1 4559 4723 615696942 615696777 2.620000e-30 145.0
66 TraesCS7D01G185700 chr3D 83.691 233 38 0 344 576 481916143 481915911 4.240000e-53 220.0
67 TraesCS7D01G185700 chr3D 94.118 85 5 0 6941 7025 381989074 381989158 7.340000e-26 130.0
68 TraesCS7D01G185700 chr3D 92.045 88 7 0 6941 7028 429306326 429306239 3.420000e-24 124.0
69 TraesCS7D01G185700 chr3D 87.931 58 7 0 7738 7795 82102454 82102511 1.620000e-07 69.4
70 TraesCS7D01G185700 chr3D 78.218 101 19 2 13 113 32259900 32259803 2.720000e-05 62.1
71 TraesCS7D01G185700 chr3D 90.000 50 2 2 8337 8384 42250339 42250387 2.720000e-05 62.1
72 TraesCS7D01G185700 chr3D 100.000 28 0 0 8357 8384 506184733 506184706 1.600000e-02 52.8
73 TraesCS7D01G185700 chrUn 81.356 236 37 6 356 589 19193995 19194225 1.550000e-42 185.0
74 TraesCS7D01G185700 chr6B 83.092 207 30 3 387 593 117805833 117805632 5.560000e-42 183.0
75 TraesCS7D01G185700 chr1D 93.684 95 5 1 6935 7028 120537611 120537705 3.390000e-29 141.0
76 TraesCS7D01G185700 chr3B 88.421 95 11 0 6931 7025 312161289 312161383 2.060000e-21 115.0
77 TraesCS7D01G185700 chr3B 86.735 98 11 2 71 168 143506689 143506784 3.440000e-19 108.0
78 TraesCS7D01G185700 chr3B 80.165 121 16 5 85 199 76487887 76487769 5.800000e-12 84.2
79 TraesCS7D01G185700 chr3B 87.931 58 7 0 7738 7795 128670238 128670295 1.620000e-07 69.4
80 TraesCS7D01G185700 chr3B 100.000 30 0 0 84 113 625195678 625195649 1.000000e-03 56.5
81 TraesCS7D01G185700 chr3A 89.130 92 10 0 6934 7025 333321381 333321290 2.060000e-21 115.0
82 TraesCS7D01G185700 chr3A 95.122 41 2 0 7755 7795 97476393 97476433 2.100000e-06 65.8
83 TraesCS7D01G185700 chr3A 73.797 187 39 8 68 247 716193479 716193662 2.100000e-06 65.8
84 TraesCS7D01G185700 chr1B 82.576 132 19 4 8837 8967 369201564 369201692 7.400000e-21 113.0
85 TraesCS7D01G185700 chr2D 74.654 217 44 8 37 247 24221231 24221020 1.610000e-12 86.1
86 TraesCS7D01G185700 chr2D 100.000 30 0 0 6134 6163 75638163 75638192 1.000000e-03 56.5
87 TraesCS7D01G185700 chr2A 97.059 34 1 0 6130 6163 75567585 75567552 3.510000e-04 58.4


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 TraesCS7D01G185700 chr7D 138420075 138429086 9011 True 16643.000000 16643 100.000000 1 9012 1 chr7D.!!$R2 9011
1 TraesCS7D01G185700 chr7B 103888658 103899792 11134 True 2669.500000 11718 93.830600 5 8692 5 chr7B.!!$R3 8687
2 TraesCS7D01G185700 chr7B 43625 49063 5438 True 687.000000 1389 84.481750 1919 8014 4 chr7B.!!$R2 6095
3 TraesCS7D01G185700 chr2B 787752163 787757117 4954 False 1899.000000 3064 82.373500 1717 6902 2 chr2B.!!$F2 5185
4 TraesCS7D01G185700 chr7A 138500679 138511564 10885 True 1388.000000 2815 93.301000 629 9012 9 chr7A.!!$R1 8383
5 TraesCS7D01G185700 chr5D 500441429 500446406 4977 True 1128.250000 1973 83.596000 1679 6934 4 chr5D.!!$R4 5255
6 TraesCS7D01G185700 chr5D 562721486 562726675 5189 False 701.000000 1286 84.586750 1919 8014 4 chr5D.!!$F3 6095
7 TraesCS7D01G185700 chr5D 18174465 18176570 2105 False 588.333333 872 83.942667 4559 6934 3 chr5D.!!$F2 2375
8 TraesCS7D01G185700 chr5B 621841998 621846965 4967 True 1130.500000 1958 83.717750 1682 6934 4 chr5B.!!$R1 5252
9 TraesCS7D01G185700 chr5B 712967651 712972744 5093 False 721.250000 1242 84.674250 2435 8019 4 chr5B.!!$F2 5584
10 TraesCS7D01G185700 chr5A 626966938 626971901 4963 True 1140.000000 1947 83.956250 1679 6931 4 chr5A.!!$R2 5252
11 TraesCS7D01G185700 chr5A 11937468 11942190 4722 False 916.250000 1844 84.541500 1729 6934 4 chr5A.!!$F1 5205
12 TraesCS7D01G185700 chr4A 615694806 615699599 4793 True 689.800000 1587 83.590200 1729 6937 5 chr4A.!!$R1 5208

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
737 750 0.324285 CAGATGAGCATAGGGGAGCC 59.676 60.000 0.00 0.00 0.00 4.70 F
1322 2734 1.337703 ACTACCGTACTCAAACACGCA 59.662 47.619 0.00 0.00 36.85 5.24 F
2909 4813 1.075212 TCATTCCATGTGGGTCAGCAA 59.925 47.619 0.00 0.00 38.11 3.91 F
3146 5050 0.394216 TGCCCCATGGACAGATTTCG 60.394 55.000 15.22 0.00 0.00 3.46 F
3344 5248 1.077265 ATTTGTGGAGGCTGGGGTG 59.923 57.895 0.00 0.00 0.00 4.61 F
4673 7184 0.388263 GCGGTAAGCCTACCTATCGC 60.388 60.000 9.82 4.27 44.96 4.58 F
5102 7637 1.137086 GGCTGCGTCTTTCCTCAGATA 59.863 52.381 0.00 0.00 0.00 1.98 F
5851 10694 2.128035 GAACTTGGTCGTCACTGTGAG 58.872 52.381 11.41 5.88 0.00 3.51 F
6329 11233 2.585330 TGCTCTTGAAATGAAGTGCCA 58.415 42.857 0.00 0.00 40.27 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1972 3451 0.532573 ACATACGCACTGGTCCTCTG 59.467 55.000 0.00 0.0 0.00 3.35 R
3146 5050 3.078837 TCCAAAGAATTTAGCACCGTCC 58.921 45.455 0.00 0.0 35.03 4.79 R
4547 7043 2.115910 TGGCTTCCTTGGCACCTG 59.884 61.111 0.00 0.0 37.59 4.00 R
4554 7059 2.947448 GCCTATTTGTGGCTTCCTTG 57.053 50.000 0.00 0.0 46.38 3.61 R
5102 7637 3.119101 ACCTTTCTCGTAGCGTCATCAAT 60.119 43.478 0.00 0.0 0.00 2.57 R
5762 10605 2.841442 AGGAACTGGCTGTGAGTTAC 57.159 50.000 0.00 0.0 37.18 2.50 R
6939 11927 0.328258 ATTTTGGGACGGAGGGAGTG 59.672 55.000 0.00 0.0 0.00 3.51 R
7016 12004 1.080638 TGCATCCAAACTACCCCCTT 58.919 50.000 0.00 0.0 0.00 3.95 R
8022 13015 0.318275 TTCATTGCGCCAAAACGGAC 60.318 50.000 4.18 0.0 36.56 4.79 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
135 137 7.975750 AGAAATATTTCAGGCGTCTAAGAAAC 58.024 34.615 26.02 0.00 39.61 2.78
179 189 2.929398 GCCTGATTTTATTTTGCCACGG 59.071 45.455 0.00 0.00 0.00 4.94
201 211 3.120165 GGCTCCTCGAATGTTCAAACTTC 60.120 47.826 0.00 0.00 0.00 3.01
204 214 5.335191 GCTCCTCGAATGTTCAAACTTCATT 60.335 40.000 0.00 0.00 35.00 2.57
229 239 3.531262 AAAATCACGGAGTTAACGCAC 57.469 42.857 11.59 2.27 41.61 5.34
238 248 1.661112 GAGTTAACGCACAGGAGCATC 59.339 52.381 4.29 0.00 0.00 3.91
278 291 9.677567 TTTCTGAAATTTCTTGATTTTACGGAG 57.322 29.630 18.64 3.77 29.75 4.63
358 371 2.017049 CTTTCCCCCTATGAAAGCACG 58.983 52.381 0.00 0.00 41.41 5.34
362 375 0.676466 CCCCTATGAAAGCACGCACA 60.676 55.000 0.00 0.00 0.00 4.57
363 376 1.382522 CCCTATGAAAGCACGCACAT 58.617 50.000 0.00 0.00 0.00 3.21
367 380 2.900122 ATGAAAGCACGCACATACAC 57.100 45.000 0.00 0.00 0.00 2.90
369 382 1.530720 TGAAAGCACGCACATACACTG 59.469 47.619 0.00 0.00 0.00 3.66
384 397 1.776667 ACACTGTGCCCCTATATGCAT 59.223 47.619 7.90 3.79 40.07 3.96
391 404 1.137872 GCCCCTATATGCATCTCCGAG 59.862 57.143 0.19 0.00 0.00 4.63
402 415 2.844946 CATCTCCGAGAGACTGAGCTA 58.155 52.381 4.07 0.00 41.76 3.32
403 416 3.411446 CATCTCCGAGAGACTGAGCTAT 58.589 50.000 4.07 0.00 41.76 2.97
409 422 5.182487 TCCGAGAGACTGAGCTATCATATC 58.818 45.833 0.00 0.00 34.12 1.63
432 445 7.582435 TCATCTTGAGATTTTACGAAGACAC 57.418 36.000 0.00 0.00 31.21 3.67
434 447 4.921515 TCTTGAGATTTTACGAAGACACCG 59.078 41.667 0.00 0.00 0.00 4.94
454 467 3.525537 CGTAGGTTCCTCGTAGTAGACA 58.474 50.000 0.00 0.00 0.00 3.41
471 484 2.900546 AGACAGAAACGTCTCTTCCCAT 59.099 45.455 0.00 0.00 42.70 4.00
477 490 3.485463 AACGTCTCTTCCCATTGAACA 57.515 42.857 0.00 0.00 0.00 3.18
480 493 1.464997 GTCTCTTCCCATTGAACACGC 59.535 52.381 0.00 0.00 0.00 5.34
505 518 8.968242 GCATCACCGAAAATCCTAAAATAAATC 58.032 33.333 0.00 0.00 0.00 2.17
521 534 8.579682 AAAATAAATCCAGAATAAATGCGAGC 57.420 30.769 0.00 0.00 0.00 5.03
523 536 5.779529 AAATCCAGAATAAATGCGAGCAT 57.220 34.783 4.52 4.52 38.46 3.79
526 539 3.811497 TCCAGAATAAATGCGAGCATCAG 59.189 43.478 11.26 0.00 35.31 2.90
532 545 1.376543 AATGCGAGCATCAGGACTTG 58.623 50.000 11.26 0.00 35.31 3.16
535 548 0.723981 GCGAGCATCAGGACTTGAAC 59.276 55.000 0.00 0.00 39.77 3.18
553 566 1.418334 ACCCTGAAGCGCTGAGATAT 58.582 50.000 12.58 0.00 0.00 1.63
558 571 3.432592 CCTGAAGCGCTGAGATATCATTG 59.567 47.826 12.58 0.15 0.00 2.82
567 580 5.509670 CGCTGAGATATCATTGTCCACCTAA 60.510 44.000 5.32 0.00 0.00 2.69
576 589 1.354101 TGTCCACCTAACCGTCCAAT 58.646 50.000 0.00 0.00 0.00 3.16
578 591 2.905085 TGTCCACCTAACCGTCCAATTA 59.095 45.455 0.00 0.00 0.00 1.40
589 602 4.925836 ACCGTCCAATTATAGGTTGGTTT 58.074 39.130 14.91 1.39 45.05 3.27
596 609 5.343249 CAATTATAGGTTGGTTTGCTCTGC 58.657 41.667 0.00 0.00 0.00 4.26
598 611 2.584835 TAGGTTGGTTTGCTCTGCAT 57.415 45.000 0.00 0.00 38.76 3.96
665 678 1.269778 CGAGCTGTGGTTCAGAGAACA 60.270 52.381 11.51 0.00 46.27 3.18
722 735 4.404073 ACAGCTCGGAGAAGTAATTCAGAT 59.596 41.667 9.69 0.00 34.09 2.90
725 738 4.981674 GCTCGGAGAAGTAATTCAGATGAG 59.018 45.833 9.69 7.67 34.09 2.90
727 740 4.402474 TCGGAGAAGTAATTCAGATGAGCA 59.598 41.667 5.62 0.00 0.00 4.26
728 741 5.069648 TCGGAGAAGTAATTCAGATGAGCAT 59.930 40.000 5.62 0.00 0.00 3.79
729 742 6.265422 TCGGAGAAGTAATTCAGATGAGCATA 59.735 38.462 5.62 0.00 0.00 3.14
730 743 6.585702 CGGAGAAGTAATTCAGATGAGCATAG 59.414 42.308 5.62 0.00 0.00 2.23
731 744 6.873076 GGAGAAGTAATTCAGATGAGCATAGG 59.127 42.308 5.62 0.00 0.00 2.57
732 745 6.767456 AGAAGTAATTCAGATGAGCATAGGG 58.233 40.000 5.62 0.00 0.00 3.53
733 746 5.495926 AGTAATTCAGATGAGCATAGGGG 57.504 43.478 0.00 0.00 0.00 4.79
734 747 5.158141 AGTAATTCAGATGAGCATAGGGGA 58.842 41.667 0.00 0.00 0.00 4.81
735 748 4.637387 AATTCAGATGAGCATAGGGGAG 57.363 45.455 0.00 0.00 0.00 4.30
736 749 1.346062 TCAGATGAGCATAGGGGAGC 58.654 55.000 0.00 0.00 0.00 4.70
737 750 0.324285 CAGATGAGCATAGGGGAGCC 59.676 60.000 0.00 0.00 0.00 4.70
1081 2493 2.141517 CGCTTCTTGCCCTATCATGAG 58.858 52.381 0.09 0.00 38.78 2.90
1104 2516 6.914259 AGCTAATTCCTTGCTTGTTTCTAAC 58.086 36.000 0.00 0.00 32.61 2.34
1106 2518 6.582672 GCTAATTCCTTGCTTGTTTCTAACAC 59.417 38.462 0.00 0.00 41.97 3.32
1109 2521 3.882888 TCCTTGCTTGTTTCTAACACTGG 59.117 43.478 0.00 0.00 41.97 4.00
1128 2540 4.990426 ACTGGTTGCTTATTCACATTTTGC 59.010 37.500 0.00 0.00 0.00 3.68
1158 2570 7.617225 TCTACCCATAATTATCCATTACCGTG 58.383 38.462 0.00 0.00 29.65 4.94
1161 2573 5.652014 CCCATAATTATCCATTACCGTGCAT 59.348 40.000 0.00 0.00 29.65 3.96
1168 2580 3.670625 TCCATTACCGTGCATATTAGGC 58.329 45.455 0.00 0.00 0.00 3.93
1184 2596 4.450082 TTAGGCGTATATGCATCGTCAT 57.550 40.909 18.41 0.00 36.28 3.06
1188 2600 5.419542 AGGCGTATATGCATCGTCATTATT 58.580 37.500 18.41 0.00 36.28 1.40
1193 2605 7.166824 CGTATATGCATCGTCATTATTCACAC 58.833 38.462 0.19 0.00 0.00 3.82
1213 2625 2.159558 ACTAGGCGTATATGCATCGTCG 60.160 50.000 18.41 7.70 36.28 5.12
1235 2647 5.651576 TCGTGGATGAATTGAATTTGATGGA 59.348 36.000 0.00 0.00 0.00 3.41
1236 2648 6.152492 TCGTGGATGAATTGAATTTGATGGAA 59.848 34.615 0.00 0.00 0.00 3.53
1244 2656 9.993454 TGAATTGAATTTGATGGAATGTTTACA 57.007 25.926 0.00 0.00 0.00 2.41
1322 2734 1.337703 ACTACCGTACTCAAACACGCA 59.662 47.619 0.00 0.00 36.85 5.24
1415 2827 6.780457 ATTATGCCAGCAAGAACAATAACT 57.220 33.333 0.00 0.00 0.00 2.24
1435 2847 3.323403 ACTGTAGCAGGCTCATTATCTCC 59.677 47.826 0.00 0.00 35.51 3.71
1440 2852 2.549778 GCAGGCTCATTATCTCCCTCAC 60.550 54.545 0.00 0.00 0.00 3.51
1570 2982 5.786311 CAATCATCCTTCCTGCAAGAAAAA 58.214 37.500 0.00 0.00 34.07 1.94
1574 2986 4.654091 TCCTTCCTGCAAGAAAAACAAG 57.346 40.909 0.00 0.00 34.07 3.16
1586 2998 7.542477 TGCAAGAAAAACAAGTCGTTCATTTTA 59.458 29.630 0.00 0.00 36.59 1.52
1649 3093 3.821033 ACACAGTGGCTTTCCTCAAATAC 59.179 43.478 5.31 0.00 0.00 1.89
1657 3101 5.009610 TGGCTTTCCTCAAATACAAACTCAC 59.990 40.000 0.00 0.00 0.00 3.51
1875 3344 8.847196 GCTTATGCATTATGATCACATCCATAT 58.153 33.333 3.54 0.00 37.26 1.78
1972 3451 4.268797 ACTTTTTCCGAGTTCTACCCTC 57.731 45.455 0.00 0.00 0.00 4.30
2419 4272 5.221541 GCACACCTACATAGAATAAGCTCCT 60.222 44.000 0.00 0.00 0.00 3.69
2909 4813 1.075212 TCATTCCATGTGGGTCAGCAA 59.925 47.619 0.00 0.00 38.11 3.91
3146 5050 0.394216 TGCCCCATGGACAGATTTCG 60.394 55.000 15.22 0.00 0.00 3.46
3344 5248 1.077265 ATTTGTGGAGGCTGGGGTG 59.923 57.895 0.00 0.00 0.00 4.61
3691 5735 6.795144 ATGCCTTCATGATAAAACCATTCA 57.205 33.333 0.00 0.00 0.00 2.57
3692 5736 6.795144 TGCCTTCATGATAAAACCATTCAT 57.205 33.333 0.00 0.00 0.00 2.57
3694 5738 8.481492 TGCCTTCATGATAAAACCATTCATAT 57.519 30.769 0.00 0.00 0.00 1.78
3695 5739 8.926374 TGCCTTCATGATAAAACCATTCATATT 58.074 29.630 0.00 0.00 0.00 1.28
3790 5850 4.202245 TGGATCAAAGTAACCTTCTCCG 57.798 45.455 0.00 0.00 31.29 4.63
4044 6454 5.560966 ACTAATACGTGGCCTTTCATTTG 57.439 39.130 3.32 2.76 0.00 2.32
4114 6524 7.127955 AGGAAAGGCTATTCTTAAATCCAGAGA 59.872 37.037 0.00 0.00 0.00 3.10
4332 6803 3.133003 AGCTAGCGGTAGATCAAACACAT 59.867 43.478 25.15 0.00 0.00 3.21
4439 6916 9.170890 TCAATACCTATGGGTGAGATCTTTAAT 57.829 33.333 11.69 0.00 46.75 1.40
4546 7042 5.124936 TCACTATCTACGCTTGCAGTTTCTA 59.875 40.000 0.00 0.00 0.00 2.10
4547 7043 5.230306 CACTATCTACGCTTGCAGTTTCTAC 59.770 44.000 0.00 0.00 0.00 2.59
4554 7059 1.537202 CTTGCAGTTTCTACAGGTGCC 59.463 52.381 0.00 0.00 32.99 5.01
4647 7158 7.821566 TCAACCATATAAACTATTGGGTGGAT 58.178 34.615 6.04 0.00 45.19 3.41
4673 7184 0.388263 GCGGTAAGCCTACCTATCGC 60.388 60.000 9.82 4.27 44.96 4.58
4675 7186 1.335145 GGTAAGCCTACCTATCGCCA 58.665 55.000 4.11 0.00 43.92 5.69
4703 7221 9.436957 CCCACACATATCTTATTAGGACATAAC 57.563 37.037 0.00 0.00 0.00 1.89
5102 7637 1.137086 GGCTGCGTCTTTCCTCAGATA 59.863 52.381 0.00 0.00 0.00 1.98
5688 10517 7.572353 GCGGTGTAGAATAAATGTTCTTCAACA 60.572 37.037 12.53 3.72 46.71 3.33
5762 10605 6.498304 ACTGTGTTAGTTCTTGAAATGCAAG 58.502 36.000 0.00 0.00 42.82 4.01
5851 10694 2.128035 GAACTTGGTCGTCACTGTGAG 58.872 52.381 11.41 5.88 0.00 3.51
5937 10780 9.565213 CCAAGATTTTACTGATTCAATCAAGTC 57.435 33.333 0.75 0.00 39.11 3.01
5981 10824 6.989659 ACTAGTTTTCAGTTTGACGGATAGA 58.010 36.000 0.00 0.00 0.00 1.98
6222 11076 5.843673 TGCGGAAATTTATGCTAATTCCA 57.156 34.783 13.43 0.00 0.00 3.53
6329 11233 2.585330 TGCTCTTGAAATGAAGTGCCA 58.415 42.857 0.00 0.00 40.27 4.92
6691 11628 8.562892 CATTAATTTAACTCTATGGAGGCACTG 58.437 37.037 11.17 0.00 41.55 3.66
6970 11958 3.561503 GTCCCAAAATAAGTGTCGTTGC 58.438 45.455 0.00 0.00 0.00 4.17
6979 11967 7.718272 AAATAAGTGTCGTTGCTTTAGTACA 57.282 32.000 0.00 0.00 0.00 2.90
7016 12004 2.070783 GCGACACTTATTTTGGGACGA 58.929 47.619 0.00 0.00 0.00 4.20
7021 12009 2.752903 CACTTATTTTGGGACGAAGGGG 59.247 50.000 0.00 0.00 0.00 4.79
7069 12057 2.054799 GGGTGAAGGTATGAGCCCATA 58.945 52.381 0.00 0.00 36.25 2.74
7306 12297 7.667635 GGCCTTATATAGCTCCTCTTTGAAATT 59.332 37.037 0.00 0.00 0.00 1.82
7945 12938 0.771127 TTGTCCTAGCCCACTTTGCT 59.229 50.000 0.00 0.00 42.81 3.91
8044 13037 0.777631 CGTTTTGGCGCAATGAAGTG 59.222 50.000 10.83 0.00 0.00 3.16
8099 13092 6.406065 GGGTTCAGAGACTCTACATAAACTCC 60.406 46.154 4.22 5.54 0.00 3.85
8206 13200 0.817634 TTTGGTCCCTCAGCGTTGTG 60.818 55.000 0.00 0.00 0.00 3.33
8266 13260 3.435026 CCCTGACCCTCAAGTCTCAAAAA 60.435 47.826 0.00 0.00 37.66 1.94
8355 14491 2.124695 GAGGAATCACCGGGTGGC 60.125 66.667 26.07 15.49 44.74 5.01
8389 14525 6.267699 ACCTAAATATATTGCTCAAAAGGGGC 59.732 38.462 0.00 0.00 0.00 5.80
8393 14529 0.971386 ATTGCTCAAAAGGGGCAGTG 59.029 50.000 0.00 0.00 37.28 3.66
8398 14534 0.031616 TCAAAAGGGGCAGTGGGTTT 60.032 50.000 0.00 0.00 0.00 3.27
8483 14621 2.104963 ACACAAGGAAGTGGACTCCTTC 59.895 50.000 1.07 0.00 41.48 3.46
8541 14682 8.508062 GTCTAGATCATCAGTACATCGTACATT 58.492 37.037 7.02 0.00 0.00 2.71
8572 14713 4.286297 TGACCGAATGAATGTCTTTCCT 57.714 40.909 0.00 0.00 33.04 3.36
8678 14820 1.134560 GCGGTGTAGTCTAGTCCCAAG 59.865 57.143 0.00 0.00 0.00 3.61
8718 14860 0.992695 GTAGAGAGGCCCACCCTTTT 59.007 55.000 0.00 0.00 46.60 2.27
8734 14876 4.653341 ACCCTTTTCCAAACAACATGATCA 59.347 37.500 0.00 0.00 0.00 2.92
8752 14894 6.413783 TGATCACAAGACCTACACAAGTAA 57.586 37.500 0.00 0.00 0.00 2.24
8753 14895 6.220930 TGATCACAAGACCTACACAAGTAAC 58.779 40.000 0.00 0.00 0.00 2.50
8754 14896 4.952460 TCACAAGACCTACACAAGTAACC 58.048 43.478 0.00 0.00 0.00 2.85
8755 14897 4.406326 TCACAAGACCTACACAAGTAACCA 59.594 41.667 0.00 0.00 0.00 3.67
8756 14898 4.510340 CACAAGACCTACACAAGTAACCAC 59.490 45.833 0.00 0.00 0.00 4.16
8757 14899 4.162698 ACAAGACCTACACAAGTAACCACA 59.837 41.667 0.00 0.00 0.00 4.17
8758 14900 5.163237 ACAAGACCTACACAAGTAACCACAT 60.163 40.000 0.00 0.00 0.00 3.21
8759 14901 6.042322 ACAAGACCTACACAAGTAACCACATA 59.958 38.462 0.00 0.00 0.00 2.29
8760 14902 6.869206 AGACCTACACAAGTAACCACATAT 57.131 37.500 0.00 0.00 0.00 1.78
8761 14903 7.253905 AGACCTACACAAGTAACCACATATT 57.746 36.000 0.00 0.00 0.00 1.28
8762 14904 7.103641 AGACCTACACAAGTAACCACATATTG 58.896 38.462 0.00 0.00 0.00 1.90
8775 14917 9.072294 GTAACCACATATTGTTTAGTGAATTGC 57.928 33.333 0.00 0.00 33.99 3.56
8825 14967 7.320384 TCAATGAGGAGCCAAGATAATATGA 57.680 36.000 0.00 0.00 0.00 2.15
8833 14975 8.037758 AGGAGCCAAGATAATATGAGAATAACG 58.962 37.037 0.00 0.00 0.00 3.18
8843 14985 1.626321 TGAGAATAACGGGAAGCCACA 59.374 47.619 0.00 0.00 0.00 4.17
8968 15110 4.291249 AGGAGTTTGGCTATTCAAGGGTTA 59.709 41.667 0.00 0.00 0.00 2.85
8997 15139 4.943705 TCACCATGACCTAAATTTCTCTGC 59.056 41.667 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 2.679450 TGCATTTGAGCATCTTGTTGC 58.321 42.857 0.00 0.00 40.11 4.17
45 47 1.135344 TGCACGGTGATCATGCATTTG 60.135 47.619 16.56 2.67 44.17 2.32
69 71 8.423349 TCCTCAAATGTCAAAACTTTCATCAAT 58.577 29.630 0.00 0.00 0.00 2.57
110 112 7.824779 AGTTTCTTAGACGCCTGAAATATTTCT 59.175 33.333 24.77 7.97 38.02 2.52
115 117 7.442969 TCAAAAGTTTCTTAGACGCCTGAAATA 59.557 33.333 0.00 0.00 32.22 1.40
119 121 4.699637 TCAAAAGTTTCTTAGACGCCTGA 58.300 39.130 0.00 0.00 0.00 3.86
135 137 5.897133 CATGAACAATGCGACTTTCAAAAG 58.103 37.500 0.97 0.97 41.73 2.27
179 189 2.427506 AGTTTGAACATTCGAGGAGCC 58.572 47.619 0.00 0.00 0.00 4.70
210 220 2.478894 CTGTGCGTTAACTCCGTGATTT 59.521 45.455 3.71 0.00 0.00 2.17
211 221 2.066262 CTGTGCGTTAACTCCGTGATT 58.934 47.619 3.71 0.00 0.00 2.57
212 222 1.671850 CCTGTGCGTTAACTCCGTGAT 60.672 52.381 3.71 0.00 0.00 3.06
254 264 8.615878 TCTCCGTAAAATCAAGAAATTTCAGA 57.384 30.769 19.99 16.41 0.00 3.27
255 265 8.721478 TCTCTCCGTAAAATCAAGAAATTTCAG 58.279 33.333 19.99 11.86 0.00 3.02
257 267 8.722394 ACTCTCTCCGTAAAATCAAGAAATTTC 58.278 33.333 10.33 10.33 0.00 2.17
258 268 8.622948 ACTCTCTCCGTAAAATCAAGAAATTT 57.377 30.769 0.00 0.00 0.00 1.82
276 289 6.263617 CCTTCACTAATGGGTAGTACTCTCTC 59.736 46.154 0.00 0.00 41.37 3.20
277 290 6.130569 CCTTCACTAATGGGTAGTACTCTCT 58.869 44.000 0.00 0.00 41.37 3.10
278 291 5.221283 GCCTTCACTAATGGGTAGTACTCTC 60.221 48.000 0.00 0.00 41.37 3.20
341 354 1.223487 GCGTGCTTTCATAGGGGGA 59.777 57.895 0.00 0.00 0.00 4.81
344 357 1.382522 ATGTGCGTGCTTTCATAGGG 58.617 50.000 0.00 0.00 0.00 3.53
362 375 2.978978 TGCATATAGGGGCACAGTGTAT 59.021 45.455 1.61 0.00 34.58 2.29
363 376 2.403561 TGCATATAGGGGCACAGTGTA 58.596 47.619 1.61 0.00 34.58 2.90
367 380 2.355513 GGAGATGCATATAGGGGCACAG 60.356 54.545 0.00 0.00 43.75 3.66
369 382 1.406069 CGGAGATGCATATAGGGGCAC 60.406 57.143 0.00 0.00 43.75 5.01
379 392 1.955778 CTCAGTCTCTCGGAGATGCAT 59.044 52.381 8.39 0.00 40.98 3.96
384 397 2.436173 TGATAGCTCAGTCTCTCGGAGA 59.564 50.000 7.60 7.60 40.01 3.71
391 404 8.054152 TCAAGATGATATGATAGCTCAGTCTC 57.946 38.462 0.00 0.00 34.12 3.36
409 422 6.454318 CGGTGTCTTCGTAAAATCTCAAGATG 60.454 42.308 0.00 0.00 34.49 2.90
429 442 1.271597 ACTACGAGGAACCTACGGTGT 60.272 52.381 13.70 10.03 35.34 4.16
431 444 2.501723 TCTACTACGAGGAACCTACGGT 59.498 50.000 13.70 7.08 37.65 4.83
432 445 2.869192 GTCTACTACGAGGAACCTACGG 59.131 54.545 13.70 2.54 0.00 4.02
434 447 4.764172 TCTGTCTACTACGAGGAACCTAC 58.236 47.826 0.00 0.00 0.00 3.18
440 453 3.668447 ACGTTTCTGTCTACTACGAGGA 58.332 45.455 0.00 0.00 36.21 3.71
454 467 4.065789 GTTCAATGGGAAGAGACGTTTCT 58.934 43.478 2.13 2.13 35.82 2.52
471 484 1.300481 TTTCGGTGATGCGTGTTCAA 58.700 45.000 0.00 0.00 0.00 2.69
477 490 2.684001 TAGGATTTTCGGTGATGCGT 57.316 45.000 0.00 0.00 0.00 5.24
480 493 9.463443 GGATTTATTTTAGGATTTTCGGTGATG 57.537 33.333 0.00 0.00 0.00 3.07
505 518 3.058432 CCTGATGCTCGCATTTATTCTGG 60.058 47.826 5.79 3.80 36.70 3.86
520 533 3.965888 AGGGTTCAAGTCCTGATGC 57.034 52.632 0.00 0.00 32.78 3.91
526 539 1.578206 GCGCTTCAGGGTTCAAGTCC 61.578 60.000 0.00 0.00 0.00 3.85
532 545 0.107945 ATCTCAGCGCTTCAGGGTTC 60.108 55.000 7.50 0.00 0.00 3.62
535 548 1.342496 TGATATCTCAGCGCTTCAGGG 59.658 52.381 7.50 0.00 0.00 4.45
541 554 2.366590 TGGACAATGATATCTCAGCGCT 59.633 45.455 2.64 2.64 34.12 5.92
543 556 3.062763 GGTGGACAATGATATCTCAGCG 58.937 50.000 3.98 0.00 34.12 5.18
553 566 1.276989 GGACGGTTAGGTGGACAATGA 59.723 52.381 0.00 0.00 0.00 2.57
558 571 2.484742 AATTGGACGGTTAGGTGGAC 57.515 50.000 0.00 0.00 0.00 4.02
576 589 4.027674 TGCAGAGCAAACCAACCTATAA 57.972 40.909 0.00 0.00 34.76 0.98
578 591 2.584835 TGCAGAGCAAACCAACCTAT 57.415 45.000 0.00 0.00 34.76 2.57
589 602 4.052608 CAAACAACAAATGATGCAGAGCA 58.947 39.130 0.00 0.00 44.86 4.26
596 609 5.291178 TCAAGGCTCAAACAACAAATGATG 58.709 37.500 0.00 0.00 0.00 3.07
598 611 4.998671 TCAAGGCTCAAACAACAAATGA 57.001 36.364 0.00 0.00 0.00 2.57
735 748 2.203070 CGGGTGTGGAGCATAGGC 60.203 66.667 0.00 0.00 41.61 3.93
736 749 2.203070 GCGGGTGTGGAGCATAGG 60.203 66.667 0.00 0.00 0.00 2.57
737 750 2.203070 GGCGGGTGTGGAGCATAG 60.203 66.667 0.00 0.00 0.00 2.23
1081 2493 6.582672 GTGTTAGAAACAAGCAAGGAATTAGC 59.417 38.462 0.00 0.00 44.16 3.09
1104 2516 5.107375 GCAAAATGTGAATAAGCAACCAGTG 60.107 40.000 0.00 0.00 0.00 3.66
1106 2518 4.989797 TGCAAAATGTGAATAAGCAACCAG 59.010 37.500 0.00 0.00 0.00 4.00
1109 2521 6.709145 TCATGCAAAATGTGAATAAGCAAC 57.291 33.333 0.00 0.00 33.91 4.17
1161 2573 5.570234 TGACGATGCATATACGCCTAATA 57.430 39.130 0.00 0.00 0.00 0.98
1168 2580 7.062255 AGTGTGAATAATGACGATGCATATACG 59.938 37.037 0.00 1.18 0.00 3.06
1184 2596 6.091718 TGCATATACGCCTAGTGTGAATAA 57.908 37.500 0.00 0.00 0.00 1.40
1188 2600 3.365969 CGATGCATATACGCCTAGTGTGA 60.366 47.826 0.00 0.00 0.00 3.58
1193 2605 2.159558 ACGACGATGCATATACGCCTAG 60.160 50.000 15.32 4.79 0.00 3.02
1213 2625 7.767198 ACATTCCATCAAATTCAATTCATCCAC 59.233 33.333 0.00 0.00 0.00 4.02
1235 2647 1.788308 CGTCGTCGTGGTGTAAACATT 59.212 47.619 0.00 0.00 0.00 2.71
1236 2648 1.001487 TCGTCGTCGTGGTGTAAACAT 60.001 47.619 1.33 0.00 38.33 2.71
1243 2655 2.794166 GTCGTCGTCGTCGTGGTG 60.794 66.667 11.41 0.00 38.33 4.17
1244 2656 3.232645 CTGTCGTCGTCGTCGTGGT 62.233 63.158 11.41 0.00 38.33 4.16
1245 2657 2.499098 CTGTCGTCGTCGTCGTGG 60.499 66.667 11.41 0.00 38.33 4.94
1322 2734 3.140707 TGGATGGTTTGAGGATGCCATAT 59.859 43.478 0.00 0.00 41.33 1.78
1353 2765 6.561614 CAGGAAGAAGAATGTGATGATTTGG 58.438 40.000 0.00 0.00 0.00 3.28
1397 2809 3.923017 ACAGTTATTGTTCTTGCTGGC 57.077 42.857 0.00 0.00 36.31 4.85
1415 2827 2.634940 GGGAGATAATGAGCCTGCTACA 59.365 50.000 0.00 0.00 0.00 2.74
1495 2907 4.890088 ACCTGCAGTATCTAAAAACACGA 58.110 39.130 13.81 0.00 0.00 4.35
1496 2908 5.867716 ACTACCTGCAGTATCTAAAAACACG 59.132 40.000 13.81 0.00 0.00 4.49
1570 2982 6.640907 GGAAAGCAATAAAATGAACGACTTGT 59.359 34.615 0.00 0.00 0.00 3.16
1574 2986 6.149633 AGTGGAAAGCAATAAAATGAACGAC 58.850 36.000 0.00 0.00 0.00 4.34
1586 2998 8.579850 TGAGATTACATTTAGTGGAAAGCAAT 57.420 30.769 0.00 0.00 33.40 3.56
1627 3040 2.435372 TTTGAGGAAAGCCACTGTGT 57.565 45.000 7.08 0.00 36.29 3.72
1649 3093 5.337578 TTTCCTTTTCCTTGGTGAGTTTG 57.662 39.130 0.00 0.00 0.00 2.93
1657 3101 4.060205 CTGTGCATTTTCCTTTTCCTTGG 58.940 43.478 0.00 0.00 0.00 3.61
1972 3451 0.532573 ACATACGCACTGGTCCTCTG 59.467 55.000 0.00 0.00 0.00 3.35
2111 3590 0.546122 TGGATTTATGCCTGCCTCGT 59.454 50.000 0.00 0.00 0.00 4.18
2208 3687 7.268586 TCATAGAATAGTCAAAGCTCACCTTC 58.731 38.462 0.00 0.00 31.99 3.46
2419 4272 3.953712 TTCTACAATGAGTTGAGCGGA 57.046 42.857 0.00 0.00 38.71 5.54
2591 4495 4.403113 TCATTCATCACATGGACCAATTGG 59.597 41.667 23.31 23.31 42.17 3.16
2681 4585 5.815233 ACACCATGTATCCTTCTGATAGG 57.185 43.478 0.00 0.00 36.62 2.57
3146 5050 3.078837 TCCAAAGAATTTAGCACCGTCC 58.921 45.455 0.00 0.00 35.03 4.79
3344 5248 3.206090 GTACGTGAGGACAACCCAC 57.794 57.895 0.00 0.00 46.92 4.61
3790 5850 4.399303 CCTGTCCACATCAAAATTAGGGAC 59.601 45.833 0.00 0.00 42.75 4.46
3967 6359 9.432982 AAGATATAATGATCTCCTCACTATCCC 57.567 37.037 0.00 0.00 35.01 3.85
4044 6454 5.186198 AGGATCATTGTTTGGCTGTAGTAC 58.814 41.667 0.00 0.00 0.00 2.73
4114 6524 2.372172 CCCCAGTCTCCAGTAAACAAGT 59.628 50.000 0.00 0.00 0.00 3.16
4245 6702 8.579850 TCACTAAGGCATCAAACAATAATCTT 57.420 30.769 0.00 0.00 0.00 2.40
4332 6803 7.724490 TCTCATTCTCCTCATCTGAAACTAA 57.276 36.000 0.00 0.00 0.00 2.24
4439 6916 8.928448 AGAACTGCAATAGTCTAAGATGGATAA 58.072 33.333 0.00 0.00 39.18 1.75
4546 7042 2.116125 GGCTTCCTTGGCACCTGT 59.884 61.111 0.00 0.00 0.00 4.00
4547 7043 2.115910 TGGCTTCCTTGGCACCTG 59.884 61.111 0.00 0.00 37.59 4.00
4554 7059 2.947448 GCCTATTTGTGGCTTCCTTG 57.053 50.000 0.00 0.00 46.38 3.61
4673 7184 7.106239 GTCCTAATAAGATATGTGTGGGATGG 58.894 42.308 0.00 0.00 0.00 3.51
4675 7186 7.872061 TGTCCTAATAAGATATGTGTGGGAT 57.128 36.000 0.00 0.00 0.00 3.85
4764 7299 7.592533 CCTGAAACACAAGATGACACATTTTAG 59.407 37.037 0.00 0.00 0.00 1.85
5102 7637 3.119101 ACCTTTCTCGTAGCGTCATCAAT 60.119 43.478 0.00 0.00 0.00 2.57
5568 10397 8.219105 CAGACACTAACATAGAAAACCGTAAAC 58.781 37.037 0.00 0.00 0.00 2.01
5688 10517 8.531982 ACATATATATCGCTAACCAACACTCAT 58.468 33.333 0.00 0.00 0.00 2.90
5762 10605 2.841442 AGGAACTGGCTGTGAGTTAC 57.159 50.000 0.00 0.00 37.18 2.50
5981 10824 8.220559 AGCCCATTGATCATATTTGTAAGTAGT 58.779 33.333 0.00 0.00 0.00 2.73
6222 11076 7.133483 ACTGGGTCTACTTACCTATGAAGAAT 58.867 38.462 0.00 0.00 39.65 2.40
6329 11233 9.830975 AGTATAAATGAAAACAACTGCCTTTTT 57.169 25.926 0.00 0.00 0.00 1.94
6939 11927 0.328258 ATTTTGGGACGGAGGGAGTG 59.672 55.000 0.00 0.00 0.00 3.51
6979 11967 5.989777 AGTGTCGCTCATTTAGTACAAAGTT 59.010 36.000 0.00 0.00 0.00 2.66
7016 12004 1.080638 TGCATCCAAACTACCCCCTT 58.919 50.000 0.00 0.00 0.00 3.95
7021 12009 1.740025 GCTCAGTGCATCCAAACTACC 59.260 52.381 0.00 0.00 42.31 3.18
7069 12057 4.229582 TGGGCTCCTTGTATTTGGAATAGT 59.770 41.667 0.00 0.00 31.23 2.12
7150 12138 3.893753 TTTTCACCCTCCCTGATTTGA 57.106 42.857 0.00 0.00 0.00 2.69
7243 12234 5.675684 ACAAAATCAAACCTTTCACCACT 57.324 34.783 0.00 0.00 0.00 4.00
7306 12297 2.542020 TCTCAAATGTTCAGCGGACA 57.458 45.000 0.00 0.00 0.00 4.02
7945 12938 5.185454 ACGAAGAAGATGGCAATGATGTAA 58.815 37.500 0.00 0.00 0.00 2.41
8022 13015 0.318275 TTCATTGCGCCAAAACGGAC 60.318 50.000 4.18 0.00 36.56 4.79
8076 13069 7.159322 TGGAGTTTATGTAGAGTCTCTGAAC 57.841 40.000 12.92 4.28 0.00 3.18
8095 13088 9.698309 CAACTCTCGATTATATAACAATGGAGT 57.302 33.333 15.72 5.90 38.58 3.85
8190 13184 0.534203 TTTCACAACGCTGAGGGACC 60.534 55.000 2.65 0.00 0.00 4.46
8206 13200 7.389053 AGAGTTGATGACCAAACATAGACTTTC 59.611 37.037 0.00 0.00 36.36 2.62
8266 13260 7.643764 CAGTGAGAAAATAACAACATTTCACGT 59.356 33.333 0.00 0.00 35.91 4.49
8355 14491 4.935808 GCAATATATTTAGGTGGAGGGACG 59.064 45.833 0.00 0.00 0.00 4.79
8361 14497 7.505585 CCCTTTTGAGCAATATATTTAGGTGGA 59.494 37.037 0.00 0.00 0.00 4.02
8389 14525 4.157840 GGGTAATTGCTCTTAAACCCACTG 59.842 45.833 3.47 0.00 44.94 3.66
8393 14529 4.381612 GCTTGGGTAATTGCTCTTAAACCC 60.382 45.833 1.28 1.28 45.64 4.11
8420 14556 5.558844 CGCTTGCGCATTTCTATAATTCTCA 60.559 40.000 12.75 0.00 35.30 3.27
8452 14590 1.273327 CTTCCTTGTGTTGGCATTCCC 59.727 52.381 0.00 0.00 0.00 3.97
8541 14682 5.163311 ACATTCATTCGGTCATCTCCATACA 60.163 40.000 0.00 0.00 0.00 2.29
8678 14820 4.451900 ACTCCAACATCAATCGATTACCC 58.548 43.478 10.97 0.00 0.00 3.69
8718 14860 4.278170 GGTCTTGTGATCATGTTGTTTGGA 59.722 41.667 0.00 0.00 0.00 3.53
8734 14876 4.162698 TGTGGTTACTTGTGTAGGTCTTGT 59.837 41.667 0.00 0.00 0.00 3.16
8752 14894 6.150307 TCGCAATTCACTAAACAATATGTGGT 59.850 34.615 0.00 0.00 0.00 4.16
8753 14895 6.468956 GTCGCAATTCACTAAACAATATGTGG 59.531 38.462 0.00 0.00 0.00 4.17
8754 14896 6.468956 GGTCGCAATTCACTAAACAATATGTG 59.531 38.462 0.00 0.00 0.00 3.21
8755 14897 6.374333 AGGTCGCAATTCACTAAACAATATGT 59.626 34.615 0.00 0.00 0.00 2.29
8756 14898 6.785191 AGGTCGCAATTCACTAAACAATATG 58.215 36.000 0.00 0.00 0.00 1.78
8757 14899 7.120579 TGAAGGTCGCAATTCACTAAACAATAT 59.879 33.333 0.00 0.00 30.67 1.28
8758 14900 6.428465 TGAAGGTCGCAATTCACTAAACAATA 59.572 34.615 0.00 0.00 30.67 1.90
8759 14901 5.240623 TGAAGGTCGCAATTCACTAAACAAT 59.759 36.000 0.00 0.00 30.67 2.71
8760 14902 4.576873 TGAAGGTCGCAATTCACTAAACAA 59.423 37.500 0.00 0.00 30.67 2.83
8761 14903 4.130857 TGAAGGTCGCAATTCACTAAACA 58.869 39.130 0.00 0.00 30.67 2.83
8762 14904 4.378459 CCTGAAGGTCGCAATTCACTAAAC 60.378 45.833 0.00 0.00 32.25 2.01
8788 14930 3.007506 TCCTCATTGATACCAACACACGT 59.992 43.478 0.00 0.00 34.72 4.49
8825 14967 2.871096 TTGTGGCTTCCCGTTATTCT 57.129 45.000 0.00 0.00 0.00 2.40
8833 14975 5.337578 TGCTTTAAATATTGTGGCTTCCC 57.662 39.130 0.00 0.00 0.00 3.97
8843 14985 5.891551 AGACCGGACCAATGCTTTAAATATT 59.108 36.000 9.46 0.00 0.00 1.28


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

AutoCloner maintained by Alex Coulton.