Multiple sequence alignment - TraesCS2A01G086300

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 TraesCS2A01G086300 chr2A 100.000 3498 0 0 1 3498 39577160 39580657 0.000000e+00 6460
1 TraesCS2A01G086300 chr2A 94.124 868 42 8 2632 3498 39947722 39946863 0.000000e+00 1312
2 TraesCS2A01G086300 chr2A 94.459 379 11 4 2102 2475 39948090 39947717 3.030000e-160 575
3 TraesCS2A01G086300 chr2A 95.068 365 14 2 183 544 39557943 39558306 3.920000e-159 571
4 TraesCS2A01G086300 chr2A 94.355 372 19 1 173 542 755528614 755528985 1.410000e-158 569
5 TraesCS2A01G086300 chr2A 93.883 376 21 2 905 1280 39949566 39949193 1.820000e-157 566
6 TraesCS2A01G086300 chr2A 85.116 430 48 9 2738 3151 749845103 749844674 3.230000e-115 425
7 TraesCS2A01G086300 chr2A 84.884 344 30 7 540 877 39949958 39949631 9.360000e-86 327
8 TraesCS2A01G086300 chr2A 87.805 164 16 3 740 903 39557311 39557470 4.610000e-44 189
9 TraesCS2A01G086300 chr2A 95.833 72 3 0 540 611 39550572 39550643 2.210000e-22 117
10 TraesCS2A01G086300 chr2B 90.458 1876 113 32 540 2389 61267575 61265740 0.000000e+00 2412
11 TraesCS2A01G086300 chr2B 86.497 511 51 7 2746 3242 61262796 61262290 2.370000e-151 545
12 TraesCS2A01G086300 chr2B 93.436 259 14 2 3243 3498 717480359 717480101 7.090000e-102 381
13 TraesCS2A01G086300 chr2B 91.579 95 6 2 2381 2475 61265564 61265472 2.830000e-26 130
14 TraesCS2A01G086300 chr2D 91.867 1414 97 6 1074 2475 36222058 36223465 0.000000e+00 1958
15 TraesCS2A01G086300 chr2D 83.700 546 64 15 2714 3242 203523544 203523007 3.140000e-135 492
16 TraesCS2A01G086300 chr2D 84.502 271 28 7 2895 3151 618829368 618829098 4.480000e-64 255
17 TraesCS2A01G086300 chr2D 91.146 192 3 6 905 1083 36221634 36221824 7.500000e-62 248
18 TraesCS2A01G086300 chr2D 80.429 373 27 17 540 911 36220106 36220433 3.490000e-60 243
19 TraesCS2A01G086300 chr2D 88.820 161 16 1 2478 2636 645852293 645852133 2.750000e-46 196
20 TraesCS2A01G086300 chr2D 89.172 157 14 2 2478 2631 626675237 626675393 3.560000e-45 193
21 TraesCS2A01G086300 chr2D 90.991 111 4 4 796 904 36221496 36221602 1.010000e-30 145
22 TraesCS2A01G086300 chr2D 96.970 66 2 0 2632 2697 36223460 36223525 1.030000e-20 111
23 TraesCS2A01G086300 chr3D 90.174 977 71 11 1076 2045 380480368 380479410 0.000000e+00 1249
24 TraesCS2A01G086300 chr3D 94.574 258 12 1 3243 3498 420585770 420585513 7.040000e-107 398
25 TraesCS2A01G086300 chr3D 94.253 261 12 2 3238 3495 562172719 562172979 2.530000e-106 396
26 TraesCS2A01G086300 chr3D 93.064 173 10 2 907 1078 380481965 380481794 5.800000e-63 252
27 TraesCS2A01G086300 chr3D 92.453 159 9 2 2478 2633 605949403 605949245 1.260000e-54 224
28 TraesCS2A01G086300 chr3D 82.156 269 27 11 650 904 380482259 380481998 9.840000e-51 211
29 TraesCS2A01G086300 chr3D 93.421 76 5 0 540 615 380482612 380482537 2.850000e-21 113
30 TraesCS2A01G086300 chr4A 86.364 550 50 20 1 540 606781914 606781380 8.420000e-161 577
31 TraesCS2A01G086300 chr4A 82.653 490 55 23 2707 3172 614601275 614600792 1.170000e-109 407
32 TraesCS2A01G086300 chr3A 94.624 372 18 1 173 542 8633949 8633578 3.030000e-160 575
33 TraesCS2A01G086300 chr7A 91.748 412 29 3 133 540 213116023 213115613 5.070000e-158 568
34 TraesCS2A01G086300 chr7A 94.215 363 18 3 183 544 439798418 439798778 5.100000e-153 551
35 TraesCS2A01G086300 chr5D 85.533 553 53 22 3 544 543685796 543686332 1.420000e-153 553
36 TraesCS2A01G086300 chr5D 83.209 268 31 4 2987 3241 541692974 541693240 2.100000e-57 233
37 TraesCS2A01G086300 chr5D 81.720 186 28 6 2752 2935 342169207 342169026 2.180000e-32 150
38 TraesCS2A01G086300 chr5B 86.318 497 49 14 2759 3238 696704524 696704030 1.110000e-144 523
39 TraesCS2A01G086300 chr5B 92.453 159 9 2 2479 2634 107904763 107904921 1.260000e-54 224
40 TraesCS2A01G086300 chr3B 86.207 493 47 16 2768 3242 717275114 717274625 6.700000e-142 514
41 TraesCS2A01G086300 chr3B 94.163 257 14 1 3243 3498 654151661 654151405 1.180000e-104 390
42 TraesCS2A01G086300 chr3B 93.462 260 15 2 3238 3495 150153927 150154186 5.480000e-103 385
43 TraesCS2A01G086300 chr3B 88.060 201 19 3 1 199 43540842 43541039 2.100000e-57 233
44 TraesCS2A01G086300 chr3B 90.964 166 10 3 2471 2633 565416429 565416592 5.880000e-53 219
45 TraesCS2A01G086300 chr3B 90.566 159 12 2 2478 2633 151701405 151701563 1.270000e-49 207
46 TraesCS2A01G086300 chr6D 83.184 559 65 25 1 549 14188711 14188172 5.250000e-133 484
47 TraesCS2A01G086300 chr6D 83.466 502 57 15 2756 3241 144564240 144564731 8.910000e-121 444
48 TraesCS2A01G086300 chr6D 93.774 257 14 2 3243 3498 83144210 83143955 5.480000e-103 385
49 TraesCS2A01G086300 chr6D 94.071 253 15 0 3243 3495 392516925 392517177 5.480000e-103 385
50 TraesCS2A01G086300 chrUn 82.616 558 62 27 1 544 259876212 259875676 8.850000e-126 460
51 TraesCS2A01G086300 chr7D 82.616 558 62 27 1 544 115018932 115019468 8.850000e-126 460
52 TraesCS2A01G086300 chr4D 82.206 562 69 25 1 550 362487799 362488341 4.120000e-124 455
53 TraesCS2A01G086300 chr6B 82.505 503 60 16 2756 3241 257600278 257600769 1.940000e-112 416
54 TraesCS2A01G086300 chr7B 81.511 503 69 14 2756 3241 151655343 151655838 3.270000e-105 392
55 TraesCS2A01G086300 chr7B 89.308 159 12 4 2478 2633 44617305 44617461 9.910000e-46 195
56 TraesCS2A01G086300 chr1D 94.510 255 12 2 3243 3495 18049738 18049992 3.270000e-105 392
57 TraesCS2A01G086300 chr4B 89.937 159 13 2 2478 2633 184008913 184009071 5.920000e-48 202
58 TraesCS2A01G086300 chr4B 89.308 159 14 2 2478 2633 504942621 504942463 2.750000e-46 196
59 TraesCS2A01G086300 chr5A 82.796 186 30 2 2746 2931 357044828 357045011 7.770000e-37 165


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 TraesCS2A01G086300 chr2A 39577160 39580657 3497 False 6460.00 6460 100.000000 1 3498 1 chr2A.!!$F2 3497
1 TraesCS2A01G086300 chr2A 39946863 39949958 3095 True 695.00 1312 91.837500 540 3498 4 chr2A.!!$R2 2958
2 TraesCS2A01G086300 chr2A 39557311 39558306 995 False 380.00 571 91.436500 183 903 2 chr2A.!!$F4 720
3 TraesCS2A01G086300 chr2B 61262290 61267575 5285 True 1029.00 2412 89.511333 540 3242 3 chr2B.!!$R2 2702
4 TraesCS2A01G086300 chr2D 36220106 36223525 3419 False 541.00 1958 90.280600 540 2697 5 chr2D.!!$F2 2157
5 TraesCS2A01G086300 chr2D 203523007 203523544 537 True 492.00 492 83.700000 2714 3242 1 chr2D.!!$R1 528
6 TraesCS2A01G086300 chr3D 380479410 380482612 3202 True 456.25 1249 89.703750 540 2045 4 chr3D.!!$R3 1505
7 TraesCS2A01G086300 chr4A 606781380 606781914 534 True 577.00 577 86.364000 1 540 1 chr4A.!!$R1 539
8 TraesCS2A01G086300 chr5D 543685796 543686332 536 False 553.00 553 85.533000 3 544 1 chr5D.!!$F2 541
9 TraesCS2A01G086300 chr6D 14188172 14188711 539 True 484.00 484 83.184000 1 549 1 chr6D.!!$R1 548
10 TraesCS2A01G086300 chrUn 259875676 259876212 536 True 460.00 460 82.616000 1 544 1 chrUn.!!$R1 543
11 TraesCS2A01G086300 chr7D 115018932 115019468 536 False 460.00 460 82.616000 1 544 1 chr7D.!!$F1 543
12 TraesCS2A01G086300 chr4D 362487799 362488341 542 False 455.00 455 82.206000 1 550 1 chr4D.!!$F1 549

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
380 837 0.040942 TTAGGTGGGGTGTACGGCTA 59.959 55.0 0.00 0.0 0.00 3.93 F
997 2951 0.529337 CAGCAGCCGAAGTCGATGAT 60.529 55.0 1.43 0.0 43.02 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 6035 1.078848 GTGCAATCCTCGAGCCACT 60.079 57.895 6.99 0.00 0.0 4.00 R
2610 7063 0.034477 GGATGTCAACCGGGTTCCAT 60.034 55.000 17.23 17.23 0.0 3.41 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
114 118 6.812998 TCTTTACCATGTAGATTAGGGTTCG 58.187 40.000 0.00 0.00 33.14 3.95
116 120 2.704065 ACCATGTAGATTAGGGTTCGGG 59.296 50.000 0.00 0.00 0.00 5.14
117 121 2.038557 CCATGTAGATTAGGGTTCGGGG 59.961 54.545 0.00 0.00 0.00 5.73
176 181 6.998968 AAACTCAAATCTAATCTGGCTGAG 57.001 37.500 0.00 0.00 35.92 3.35
317 773 4.947147 GTGGGCGAAGTGGTGGCA 62.947 66.667 0.00 0.00 31.34 4.92
348 804 1.974957 TCAGCACTGCACTAACCCTAA 59.025 47.619 3.30 0.00 0.00 2.69
356 812 4.223477 ACTGCACTAACCCTAAATCGGTAA 59.777 41.667 0.00 0.00 31.69 2.85
380 837 0.040942 TTAGGTGGGGTGTACGGCTA 59.959 55.000 0.00 0.00 0.00 3.93
386 843 1.366366 GGGTGTACGGCTATGCGAT 59.634 57.895 0.00 0.00 0.00 4.58
525 987 4.572571 GTTGGGCCCACACGGTGA 62.573 66.667 28.70 4.49 35.23 4.02
572 1034 8.803235 TGATACTAATGCTTAGAATATGACGGT 58.197 33.333 9.14 0.00 36.73 4.83
660 1380 8.931385 ATTAATTGTTGCTGATTTATTTCGCT 57.069 26.923 0.00 0.00 0.00 4.93
661 1381 6.636666 AATTGTTGCTGATTTATTTCGCTG 57.363 33.333 0.00 0.00 0.00 5.18
662 1382 5.369685 TTGTTGCTGATTTATTTCGCTGA 57.630 34.783 0.00 0.00 0.00 4.26
663 1383 5.565592 TGTTGCTGATTTATTTCGCTGAT 57.434 34.783 0.00 0.00 0.00 2.90
664 1384 5.953183 TGTTGCTGATTTATTTCGCTGATT 58.047 33.333 0.00 0.00 0.00 2.57
665 1385 6.389091 TGTTGCTGATTTATTTCGCTGATTT 58.611 32.000 0.00 0.00 0.00 2.17
668 1388 7.320443 TGCTGATTTATTTCGCTGATTTACT 57.680 32.000 0.00 0.00 0.00 2.24
682 1402 6.797033 CGCTGATTTACTACAAAAAGGTCTTG 59.203 38.462 0.00 0.00 0.00 3.02
684 1404 8.515414 GCTGATTTACTACAAAAAGGTCTTGAT 58.485 33.333 0.00 0.00 0.00 2.57
691 1412 1.826385 AAAAGGTCTTGATGCCTCGG 58.174 50.000 0.00 0.00 33.24 4.63
700 1421 3.007506 TCTTGATGCCTCGGTGAACTTTA 59.992 43.478 0.00 0.00 0.00 1.85
706 1427 5.664294 TGCCTCGGTGAACTTTATACTAA 57.336 39.130 0.00 0.00 0.00 2.24
707 1428 6.040209 TGCCTCGGTGAACTTTATACTAAA 57.960 37.500 0.00 0.00 0.00 1.85
708 1429 5.870978 TGCCTCGGTGAACTTTATACTAAAC 59.129 40.000 0.00 0.00 0.00 2.01
728 1453 9.772973 ACTAAACAGCGACAATTAATATGGATA 57.227 29.630 0.00 0.00 0.00 2.59
785 1512 2.760303 CACGTTGTTTTGTGTGCAAC 57.240 45.000 0.00 0.00 39.09 4.17
787 1514 0.637738 CGTTGTTTTGTGTGCAACCG 59.362 50.000 0.00 0.00 39.24 4.44
806 1533 2.536928 CCGGAAAGAAAAAGATAGCGCG 60.537 50.000 0.00 0.00 0.00 6.86
807 1534 2.441462 GGAAAGAAAAAGATAGCGCGC 58.559 47.619 26.66 26.66 0.00 6.86
808 1535 2.094383 GAAAGAAAAAGATAGCGCGCG 58.906 47.619 28.44 28.44 0.00 6.86
896 2810 4.528596 AGATTTCGAGGATCACCGGATATT 59.471 41.667 9.46 0.00 41.83 1.28
975 2929 3.084039 TCTGCATTTCTGGCCTACAAAG 58.916 45.455 3.32 0.00 0.00 2.77
994 2948 2.185350 CCAGCAGCCGAAGTCGAT 59.815 61.111 1.43 0.00 43.02 3.59
997 2951 0.529337 CAGCAGCCGAAGTCGATGAT 60.529 55.000 1.43 0.00 43.02 2.45
1225 4612 2.045242 TCCAGGGTCCTCGTCGAG 60.045 66.667 15.53 15.53 0.00 4.04
1352 5400 3.060615 CCGACGAGTTCCTCCGGT 61.061 66.667 0.00 0.00 33.07 5.28
1415 5469 2.899339 GATCCAAGCCGCAGAGCC 60.899 66.667 0.00 0.00 0.00 4.70
1417 5471 3.694058 ATCCAAGCCGCAGAGCCTG 62.694 63.158 0.00 0.00 34.12 4.85
1653 5909 3.437795 CGAGCACCCGGAGTACGT 61.438 66.667 0.73 0.00 42.24 3.57
1654 5910 2.181021 GAGCACCCGGAGTACGTG 59.819 66.667 0.73 2.60 42.24 4.49
1656 5912 2.126189 GCACCCGGAGTACGTGAC 60.126 66.667 0.73 0.00 42.24 3.67
1657 5913 2.922950 GCACCCGGAGTACGTGACA 61.923 63.158 0.73 0.00 42.24 3.58
1670 5926 1.448497 GTGACAAACTCCGTCCCCA 59.552 57.895 0.00 0.00 32.15 4.96
1706 5962 3.764466 CGACGCCCAGCCTCTTCT 61.764 66.667 0.00 0.00 0.00 2.85
1786 6048 2.581354 GTGCAGTGGCTCGAGGAT 59.419 61.111 15.58 0.00 41.91 3.24
1804 6066 2.449031 ATTGCACGTCCTTCGAGGCA 62.449 55.000 0.00 7.07 45.22 4.75
2134 6396 2.202756 GTGATCTCGGCGTGGACC 60.203 66.667 6.85 0.00 0.00 4.46
2461 6914 9.743057 TTGAAGAGCGAATTTCATTTTCTAAAA 57.257 25.926 0.00 0.00 33.68 1.52
2469 6922 9.463443 CGAATTTCATTTTCTAAAAGTGAAGGT 57.537 29.630 9.36 3.90 32.50 3.50
2478 6931 8.842358 TTTCTAAAAGTGAAGGTATGTAGTGG 57.158 34.615 0.00 0.00 0.00 4.00
2479 6932 6.942976 TCTAAAAGTGAAGGTATGTAGTGGG 58.057 40.000 0.00 0.00 0.00 4.61
2480 6933 5.836024 AAAAGTGAAGGTATGTAGTGGGA 57.164 39.130 0.00 0.00 0.00 4.37
2481 6934 6.388619 AAAAGTGAAGGTATGTAGTGGGAT 57.611 37.500 0.00 0.00 0.00 3.85
2482 6935 5.359194 AAGTGAAGGTATGTAGTGGGATG 57.641 43.478 0.00 0.00 0.00 3.51
2483 6936 4.362677 AGTGAAGGTATGTAGTGGGATGT 58.637 43.478 0.00 0.00 0.00 3.06
2484 6937 5.525484 AGTGAAGGTATGTAGTGGGATGTA 58.475 41.667 0.00 0.00 0.00 2.29
2485 6938 5.962031 AGTGAAGGTATGTAGTGGGATGTAA 59.038 40.000 0.00 0.00 0.00 2.41
2486 6939 6.098409 AGTGAAGGTATGTAGTGGGATGTAAG 59.902 42.308 0.00 0.00 0.00 2.34
2487 6940 5.962031 TGAAGGTATGTAGTGGGATGTAAGT 59.038 40.000 0.00 0.00 0.00 2.24
2488 6941 5.871396 AGGTATGTAGTGGGATGTAAGTG 57.129 43.478 0.00 0.00 0.00 3.16
2489 6942 4.654262 AGGTATGTAGTGGGATGTAAGTGG 59.346 45.833 0.00 0.00 0.00 4.00
2490 6943 3.560636 ATGTAGTGGGATGTAAGTGGC 57.439 47.619 0.00 0.00 0.00 5.01
2491 6944 2.261729 TGTAGTGGGATGTAAGTGGCA 58.738 47.619 0.00 0.00 0.00 4.92
2492 6945 2.640332 TGTAGTGGGATGTAAGTGGCAA 59.360 45.455 0.00 0.00 0.00 4.52
2493 6946 2.969821 AGTGGGATGTAAGTGGCAAA 57.030 45.000 0.00 0.00 0.00 3.68
2494 6947 3.456380 AGTGGGATGTAAGTGGCAAAT 57.544 42.857 0.00 0.00 0.00 2.32
2495 6948 4.584638 AGTGGGATGTAAGTGGCAAATA 57.415 40.909 0.00 0.00 0.00 1.40
2496 6949 4.929479 AGTGGGATGTAAGTGGCAAATAA 58.071 39.130 0.00 0.00 0.00 1.40
2497 6950 5.329399 AGTGGGATGTAAGTGGCAAATAAA 58.671 37.500 0.00 0.00 0.00 1.40
2498 6951 5.957774 AGTGGGATGTAAGTGGCAAATAAAT 59.042 36.000 0.00 0.00 0.00 1.40
2499 6952 6.042143 GTGGGATGTAAGTGGCAAATAAATG 58.958 40.000 0.00 0.00 0.00 2.32
2500 6953 5.128499 TGGGATGTAAGTGGCAAATAAATGG 59.872 40.000 0.00 0.00 0.00 3.16
2501 6954 5.049828 GGATGTAAGTGGCAAATAAATGGC 58.950 41.667 0.00 0.00 45.44 4.40
2507 6960 1.501169 GGCAAATAAATGGCATCCGC 58.499 50.000 0.00 0.00 44.66 5.54
2508 6961 1.202510 GGCAAATAAATGGCATCCGCA 60.203 47.619 0.00 0.00 44.66 5.69
2509 6962 2.548875 GCAAATAAATGGCATCCGCAA 58.451 42.857 0.00 0.00 41.24 4.85
2510 6963 3.132925 GCAAATAAATGGCATCCGCAAT 58.867 40.909 0.00 0.00 41.24 3.56
2511 6964 3.184986 GCAAATAAATGGCATCCGCAATC 59.815 43.478 0.00 0.00 41.24 2.67
2512 6965 3.665745 AATAAATGGCATCCGCAATCC 57.334 42.857 0.00 0.00 41.24 3.01
2513 6966 2.363306 TAAATGGCATCCGCAATCCT 57.637 45.000 0.00 0.00 41.24 3.24
2514 6967 0.748450 AAATGGCATCCGCAATCCTG 59.252 50.000 0.00 0.00 41.24 3.86
2515 6968 0.396139 AATGGCATCCGCAATCCTGT 60.396 50.000 0.00 0.00 41.24 4.00
2516 6969 0.396139 ATGGCATCCGCAATCCTGTT 60.396 50.000 0.00 0.00 41.24 3.16
2517 6970 0.611618 TGGCATCCGCAATCCTGTTT 60.612 50.000 0.00 0.00 41.24 2.83
2518 6971 1.340502 TGGCATCCGCAATCCTGTTTA 60.341 47.619 0.00 0.00 41.24 2.01
2519 6972 1.334869 GGCATCCGCAATCCTGTTTAG 59.665 52.381 0.00 0.00 41.24 1.85
2520 6973 2.017049 GCATCCGCAATCCTGTTTAGT 58.983 47.619 0.00 0.00 38.36 2.24
2521 6974 2.423538 GCATCCGCAATCCTGTTTAGTT 59.576 45.455 0.00 0.00 38.36 2.24
2522 6975 3.119495 GCATCCGCAATCCTGTTTAGTTT 60.119 43.478 0.00 0.00 38.36 2.66
2523 6976 4.414852 CATCCGCAATCCTGTTTAGTTTG 58.585 43.478 0.00 0.00 0.00 2.93
2524 6977 3.482436 TCCGCAATCCTGTTTAGTTTGT 58.518 40.909 0.00 0.00 0.00 2.83
2525 6978 3.886505 TCCGCAATCCTGTTTAGTTTGTT 59.113 39.130 0.00 0.00 0.00 2.83
2526 6979 4.339814 TCCGCAATCCTGTTTAGTTTGTTT 59.660 37.500 0.00 0.00 0.00 2.83
2527 6980 5.047188 CCGCAATCCTGTTTAGTTTGTTTT 58.953 37.500 0.00 0.00 0.00 2.43
2528 6981 5.051106 CCGCAATCCTGTTTAGTTTGTTTTG 60.051 40.000 0.00 0.00 0.00 2.44
2529 6982 5.556194 CGCAATCCTGTTTAGTTTGTTTTGC 60.556 40.000 0.00 0.00 34.07 3.68
2530 6983 5.523552 GCAATCCTGTTTAGTTTGTTTTGCT 59.476 36.000 0.00 0.00 34.47 3.91
2531 6984 6.699642 GCAATCCTGTTTAGTTTGTTTTGCTA 59.300 34.615 0.00 0.00 34.47 3.49
2532 6985 7.096065 GCAATCCTGTTTAGTTTGTTTTGCTAG 60.096 37.037 0.00 0.00 34.47 3.42
2533 6986 7.582667 ATCCTGTTTAGTTTGTTTTGCTAGT 57.417 32.000 0.00 0.00 0.00 2.57
2534 6987 7.399245 TCCTGTTTAGTTTGTTTTGCTAGTT 57.601 32.000 0.00 0.00 0.00 2.24
2535 6988 7.832769 TCCTGTTTAGTTTGTTTTGCTAGTTT 58.167 30.769 0.00 0.00 0.00 2.66
2536 6989 7.757624 TCCTGTTTAGTTTGTTTTGCTAGTTTG 59.242 33.333 0.00 0.00 0.00 2.93
2537 6990 7.757624 CCTGTTTAGTTTGTTTTGCTAGTTTGA 59.242 33.333 0.00 0.00 0.00 2.69
2538 6991 9.301153 CTGTTTAGTTTGTTTTGCTAGTTTGAT 57.699 29.630 0.00 0.00 0.00 2.57
2544 6997 8.682710 AGTTTGTTTTGCTAGTTTGATAGTTCA 58.317 29.630 0.00 0.00 0.00 3.18
2545 6998 9.463443 GTTTGTTTTGCTAGTTTGATAGTTCAT 57.537 29.630 0.00 0.00 0.00 2.57
2550 7003 9.691362 TTTTGCTAGTTTGATAGTTCATTTTCC 57.309 29.630 0.00 0.00 0.00 3.13
2551 7004 8.635765 TTGCTAGTTTGATAGTTCATTTTCCT 57.364 30.769 0.00 0.00 0.00 3.36
2552 7005 8.268850 TGCTAGTTTGATAGTTCATTTTCCTC 57.731 34.615 0.00 0.00 0.00 3.71
2553 7006 7.882791 TGCTAGTTTGATAGTTCATTTTCCTCA 59.117 33.333 0.00 0.00 0.00 3.86
2554 7007 8.730680 GCTAGTTTGATAGTTCATTTTCCTCAA 58.269 33.333 0.00 0.00 0.00 3.02
2557 7010 8.912988 AGTTTGATAGTTCATTTTCCTCAAACA 58.087 29.630 20.70 0.00 46.65 2.83
2558 7011 9.528018 GTTTGATAGTTCATTTTCCTCAAACAA 57.472 29.630 16.20 0.00 45.00 2.83
2613 7066 9.942850 AAGTGAACTTTAAATGGGATTAAATGG 57.057 29.630 0.00 0.00 35.02 3.16
2614 7067 9.320295 AGTGAACTTTAAATGGGATTAAATGGA 57.680 29.630 0.00 0.00 35.02 3.41
2615 7068 9.936759 GTGAACTTTAAATGGGATTAAATGGAA 57.063 29.630 0.00 0.00 35.02 3.53
2616 7069 9.936759 TGAACTTTAAATGGGATTAAATGGAAC 57.063 29.630 0.00 0.00 35.02 3.62
2617 7070 9.378551 GAACTTTAAATGGGATTAAATGGAACC 57.621 33.333 0.00 0.00 35.02 3.62
2618 7071 7.857456 ACTTTAAATGGGATTAAATGGAACCC 58.143 34.615 0.00 0.00 40.79 4.11
2619 7072 6.472686 TTAAATGGGATTAAATGGAACCCG 57.527 37.500 0.00 0.00 43.04 5.28
2620 7073 2.445682 TGGGATTAAATGGAACCCGG 57.554 50.000 0.00 0.00 43.04 5.73
2621 7074 1.641714 TGGGATTAAATGGAACCCGGT 59.358 47.619 0.00 0.00 43.04 5.28
2622 7075 2.043252 TGGGATTAAATGGAACCCGGTT 59.957 45.455 1.22 1.22 43.04 4.44
2623 7076 2.429250 GGGATTAAATGGAACCCGGTTG 59.571 50.000 7.78 0.00 0.00 3.77
2624 7077 3.358118 GGATTAAATGGAACCCGGTTGA 58.642 45.455 7.78 0.00 0.00 3.18
2625 7078 3.129813 GGATTAAATGGAACCCGGTTGAC 59.870 47.826 7.78 0.90 0.00 3.18
2626 7079 2.953284 TAAATGGAACCCGGTTGACA 57.047 45.000 7.78 7.13 0.00 3.58
2627 7080 2.302587 AAATGGAACCCGGTTGACAT 57.697 45.000 7.78 9.22 0.00 3.06
2628 7081 1.834188 AATGGAACCCGGTTGACATC 58.166 50.000 7.78 0.00 0.00 3.06
2629 7082 0.034477 ATGGAACCCGGTTGACATCC 60.034 55.000 7.78 2.64 0.00 3.51
2630 7083 1.378119 GGAACCCGGTTGACATCCC 60.378 63.158 7.78 0.00 0.00 3.85
2703 9769 2.753043 CAGCTCCATGGTGGCACC 60.753 66.667 29.75 29.75 40.23 5.01
2735 9801 6.381133 TCGTGATATATGCATTATCTCCCTGT 59.619 38.462 20.11 0.00 0.00 4.00
2736 9802 6.478016 CGTGATATATGCATTATCTCCCTGTG 59.522 42.308 20.11 8.17 0.00 3.66
2934 10004 1.404986 CGTCTTCCTTTCATACCGGCA 60.405 52.381 0.00 0.00 0.00 5.69
3072 10152 3.550030 CCTTTTCTTGGCGAAATTCACGT 60.550 43.478 6.81 0.00 41.04 4.49
3083 10163 3.119956 CGAAATTCACGTGCGTACTTACA 59.880 43.478 11.67 0.00 0.00 2.41
3250 10335 1.341852 GGAACCGATAAGGAGAGAGGC 59.658 57.143 0.00 0.00 45.00 4.70
3293 10378 6.885918 CCATGGAGGCCTTTATTTTTGAAAAT 59.114 34.615 6.77 6.88 41.24 1.82
3401 10486 6.028987 TCATGATGAAATACATTGTGTTGCG 58.971 36.000 0.00 0.00 39.56 4.85
3404 10489 4.153958 TGAAATACATTGTGTTGCGACC 57.846 40.909 0.45 0.00 0.00 4.79
3468 10553 6.173339 AGTATCATGTGTTAAACAGACCCAG 58.827 40.000 0.00 0.00 43.64 4.45
3486 10571 4.053295 CCCAGATTTGTCTTTTTGCACAG 58.947 43.478 0.00 0.00 0.00 3.66
3489 10574 2.307934 TTTGTCTTTTTGCACAGCCC 57.692 45.000 0.00 0.00 0.00 5.19
3495 10580 3.255642 GTCTTTTTGCACAGCCCTCATTA 59.744 43.478 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 82 5.197451 ACATGGTAAAGAAAACACCTCACA 58.803 37.500 0.00 0.00 33.28 3.58
123 127 4.020307 TGGAAATCAAAAGAATCAAGCCCC 60.020 41.667 0.00 0.00 0.00 5.80
162 167 4.033009 TCAATGGTCTCAGCCAGATTAGA 58.967 43.478 0.00 0.00 42.47 2.10
176 181 4.752101 CCGATCCAAAGTCTATCAATGGTC 59.248 45.833 0.00 0.00 32.90 4.02
317 773 2.437359 GTGCTGATGGGAAGCGCT 60.437 61.111 2.64 2.64 45.57 5.92
348 804 2.709397 CCCACCTAATCCCTTACCGATT 59.291 50.000 0.00 0.00 34.40 3.34
356 812 1.889174 GTACACCCCACCTAATCCCT 58.111 55.000 0.00 0.00 0.00 4.20
380 837 1.575244 CATCACGAGGTTCATCGCAT 58.425 50.000 6.78 0.00 46.60 4.73
482 941 2.797278 CGGGCCCTTAGATCTGCGT 61.797 63.158 22.43 0.00 0.00 5.24
617 1079 9.393786 ACAATTAATATGTATAGGAGGGAGTGT 57.606 33.333 0.00 0.00 0.00 3.55
644 1364 7.320443 AGTAAATCAGCGAAATAAATCAGCA 57.680 32.000 0.00 0.00 0.00 4.41
656 1376 6.228258 AGACCTTTTTGTAGTAAATCAGCGA 58.772 36.000 0.00 0.00 0.00 4.93
657 1377 6.481954 AGACCTTTTTGTAGTAAATCAGCG 57.518 37.500 0.00 0.00 0.00 5.18
658 1378 7.871853 TCAAGACCTTTTTGTAGTAAATCAGC 58.128 34.615 0.00 0.00 0.00 4.26
659 1379 9.831737 CATCAAGACCTTTTTGTAGTAAATCAG 57.168 33.333 0.00 0.00 0.00 2.90
660 1380 8.296713 GCATCAAGACCTTTTTGTAGTAAATCA 58.703 33.333 0.00 0.00 0.00 2.57
661 1381 7.755373 GGCATCAAGACCTTTTTGTAGTAAATC 59.245 37.037 0.00 0.00 0.00 2.17
662 1382 7.451566 AGGCATCAAGACCTTTTTGTAGTAAAT 59.548 33.333 0.00 0.00 29.74 1.40
663 1383 6.775629 AGGCATCAAGACCTTTTTGTAGTAAA 59.224 34.615 0.00 0.00 29.74 2.01
664 1384 6.303839 AGGCATCAAGACCTTTTTGTAGTAA 58.696 36.000 0.00 0.00 29.74 2.24
665 1385 5.876357 AGGCATCAAGACCTTTTTGTAGTA 58.124 37.500 0.00 0.00 29.74 1.82
668 1388 3.751175 CGAGGCATCAAGACCTTTTTGTA 59.249 43.478 0.00 0.00 36.05 2.41
673 1393 0.693049 ACCGAGGCATCAAGACCTTT 59.307 50.000 0.00 0.00 36.05 3.11
682 1402 4.694339 AGTATAAAGTTCACCGAGGCATC 58.306 43.478 0.00 0.00 0.00 3.91
684 1404 5.664294 TTAGTATAAAGTTCACCGAGGCA 57.336 39.130 0.00 0.00 0.00 4.75
691 1412 7.342318 TGTCGCTGTTTAGTATAAAGTTCAC 57.658 36.000 0.00 0.00 0.00 3.18
700 1421 9.772973 TCCATATTAATTGTCGCTGTTTAGTAT 57.227 29.630 0.00 0.00 0.00 2.12
706 1427 8.902540 TCTTATCCATATTAATTGTCGCTGTT 57.097 30.769 0.00 0.00 0.00 3.16
707 1428 7.604164 CCTCTTATCCATATTAATTGTCGCTGT 59.396 37.037 0.00 0.00 0.00 4.40
708 1429 7.819415 TCCTCTTATCCATATTAATTGTCGCTG 59.181 37.037 0.00 0.00 0.00 5.18
728 1453 8.870075 AGAAGCAAAATAAACTACATCCTCTT 57.130 30.769 0.00 0.00 0.00 2.85
785 1512 2.536928 CGCGCTATCTTTTTCTTTCCGG 60.537 50.000 5.56 0.00 0.00 5.14
787 1514 2.441462 GCGCGCTATCTTTTTCTTTCC 58.559 47.619 26.67 0.00 0.00 3.13
806 1533 0.934436 GTTTGGATGTGTGTGTGCGC 60.934 55.000 0.00 0.00 0.00 6.09
807 1534 0.380024 TGTTTGGATGTGTGTGTGCG 59.620 50.000 0.00 0.00 0.00 5.34
808 1535 1.405105 AGTGTTTGGATGTGTGTGTGC 59.595 47.619 0.00 0.00 0.00 4.57
820 1547 4.082571 CCTCTGGCTATTCAAAGTGTTTGG 60.083 45.833 0.00 0.00 40.98 3.28
896 2810 7.602644 GTCACTCACTTGGTTTTGTATCTATCA 59.397 37.037 0.00 0.00 0.00 2.15
994 2948 0.819582 TCTGCTGTCGATCTGCATCA 59.180 50.000 15.72 7.05 46.67 3.07
997 2951 1.153686 GCTCTGCTGTCGATCTGCA 60.154 57.895 14.97 14.97 45.98 4.41
1225 4612 4.261781 CCGGCGAGCGGGTAGTAC 62.262 72.222 9.30 0.00 0.00 2.73
1352 5400 2.574018 CGTGAGGAGTGGCAGACCA 61.574 63.158 11.55 0.00 46.51 4.02
1644 5900 1.694639 GGAGTTTGTCACGTACTCCG 58.305 55.000 16.55 0.00 45.95 4.63
1770 6032 1.078918 CAATCCTCGAGCCACTGCA 60.079 57.895 6.99 0.00 41.13 4.41
1773 6035 1.078848 GTGCAATCCTCGAGCCACT 60.079 57.895 6.99 0.00 0.00 4.00
1786 6048 2.357034 GCCTCGAAGGACGTGCAA 60.357 61.111 10.52 0.00 37.67 4.08
1958 6220 4.379243 CTGCCCAGCCGTCGACTT 62.379 66.667 14.70 0.00 0.00 3.01
2405 6852 5.425196 ACCGCAAGAAAGGTTAAGGTATA 57.575 39.130 0.00 0.00 37.49 1.47
2406 6853 4.296621 ACCGCAAGAAAGGTTAAGGTAT 57.703 40.909 0.00 0.00 37.49 2.73
2461 6914 4.362677 ACATCCCACTACATACCTTCACT 58.637 43.478 0.00 0.00 0.00 3.41
2469 6922 4.034410 TGCCACTTACATCCCACTACATA 58.966 43.478 0.00 0.00 0.00 2.29
2470 6923 2.843730 TGCCACTTACATCCCACTACAT 59.156 45.455 0.00 0.00 0.00 2.29
2471 6924 2.261729 TGCCACTTACATCCCACTACA 58.738 47.619 0.00 0.00 0.00 2.74
2472 6925 3.343941 TTGCCACTTACATCCCACTAC 57.656 47.619 0.00 0.00 0.00 2.73
2473 6926 4.584638 ATTTGCCACTTACATCCCACTA 57.415 40.909 0.00 0.00 0.00 2.74
2474 6927 2.969821 TTTGCCACTTACATCCCACT 57.030 45.000 0.00 0.00 0.00 4.00
2475 6928 5.652994 TTTATTTGCCACTTACATCCCAC 57.347 39.130 0.00 0.00 0.00 4.61
2476 6929 5.128499 CCATTTATTTGCCACTTACATCCCA 59.872 40.000 0.00 0.00 0.00 4.37
2477 6930 5.600696 CCATTTATTTGCCACTTACATCCC 58.399 41.667 0.00 0.00 0.00 3.85
2478 6931 5.049828 GCCATTTATTTGCCACTTACATCC 58.950 41.667 0.00 0.00 0.00 3.51
2479 6932 5.659463 TGCCATTTATTTGCCACTTACATC 58.341 37.500 0.00 0.00 0.00 3.06
2480 6933 5.674052 TGCCATTTATTTGCCACTTACAT 57.326 34.783 0.00 0.00 0.00 2.29
2481 6934 5.395103 GGATGCCATTTATTTGCCACTTACA 60.395 40.000 0.00 0.00 0.00 2.41
2482 6935 5.049828 GGATGCCATTTATTTGCCACTTAC 58.950 41.667 0.00 0.00 0.00 2.34
2483 6936 4.202101 CGGATGCCATTTATTTGCCACTTA 60.202 41.667 0.00 0.00 0.00 2.24
2484 6937 3.430651 CGGATGCCATTTATTTGCCACTT 60.431 43.478 0.00 0.00 0.00 3.16
2485 6938 2.101249 CGGATGCCATTTATTTGCCACT 59.899 45.455 0.00 0.00 0.00 4.00
2486 6939 2.472816 CGGATGCCATTTATTTGCCAC 58.527 47.619 0.00 0.00 0.00 5.01
2487 6940 1.202510 GCGGATGCCATTTATTTGCCA 60.203 47.619 0.00 0.00 33.98 4.92
2488 6941 1.202510 TGCGGATGCCATTTATTTGCC 60.203 47.619 0.00 0.00 41.78 4.52
2489 6942 2.222007 TGCGGATGCCATTTATTTGC 57.778 45.000 0.00 0.00 41.78 3.68
2490 6943 3.742369 GGATTGCGGATGCCATTTATTTG 59.258 43.478 0.00 0.00 41.78 2.32
2491 6944 3.642848 AGGATTGCGGATGCCATTTATTT 59.357 39.130 0.00 0.00 41.78 1.40
2492 6945 3.006110 CAGGATTGCGGATGCCATTTATT 59.994 43.478 0.00 0.00 41.78 1.40
2493 6946 2.559668 CAGGATTGCGGATGCCATTTAT 59.440 45.455 0.00 0.00 41.78 1.40
2494 6947 1.955778 CAGGATTGCGGATGCCATTTA 59.044 47.619 0.00 0.00 41.78 1.40
2495 6948 0.748450 CAGGATTGCGGATGCCATTT 59.252 50.000 0.00 0.00 41.78 2.32
2496 6949 0.396139 ACAGGATTGCGGATGCCATT 60.396 50.000 0.00 0.00 41.78 3.16
2497 6950 0.396139 AACAGGATTGCGGATGCCAT 60.396 50.000 0.00 0.00 41.78 4.40
2498 6951 0.611618 AAACAGGATTGCGGATGCCA 60.612 50.000 0.00 0.00 41.78 4.92
2499 6952 1.334869 CTAAACAGGATTGCGGATGCC 59.665 52.381 0.00 0.00 41.78 4.40
2500 6953 2.017049 ACTAAACAGGATTGCGGATGC 58.983 47.619 0.00 0.00 43.20 3.91
2501 6954 4.082787 ACAAACTAAACAGGATTGCGGATG 60.083 41.667 0.00 0.00 0.00 3.51
2502 6955 4.079253 ACAAACTAAACAGGATTGCGGAT 58.921 39.130 0.00 0.00 0.00 4.18
2503 6956 3.482436 ACAAACTAAACAGGATTGCGGA 58.518 40.909 0.00 0.00 0.00 5.54
2504 6957 3.915437 ACAAACTAAACAGGATTGCGG 57.085 42.857 0.00 0.00 0.00 5.69
2505 6958 5.556194 GCAAAACAAACTAAACAGGATTGCG 60.556 40.000 0.00 0.00 31.50 4.85
2506 6959 5.523552 AGCAAAACAAACTAAACAGGATTGC 59.476 36.000 0.00 0.00 39.61 3.56
2507 6960 7.920682 ACTAGCAAAACAAACTAAACAGGATTG 59.079 33.333 0.00 0.00 0.00 2.67
2508 6961 8.007405 ACTAGCAAAACAAACTAAACAGGATT 57.993 30.769 0.00 0.00 0.00 3.01
2509 6962 7.582667 ACTAGCAAAACAAACTAAACAGGAT 57.417 32.000 0.00 0.00 0.00 3.24
2510 6963 7.399245 AACTAGCAAAACAAACTAAACAGGA 57.601 32.000 0.00 0.00 0.00 3.86
2511 6964 7.757624 TCAAACTAGCAAAACAAACTAAACAGG 59.242 33.333 0.00 0.00 0.00 4.00
2512 6965 8.682128 TCAAACTAGCAAAACAAACTAAACAG 57.318 30.769 0.00 0.00 0.00 3.16
2518 6971 8.682710 TGAACTATCAAACTAGCAAAACAAACT 58.317 29.630 0.00 0.00 30.99 2.66
2519 6972 8.850454 TGAACTATCAAACTAGCAAAACAAAC 57.150 30.769 0.00 0.00 30.99 2.93
2524 6977 9.691362 GGAAAATGAACTATCAAACTAGCAAAA 57.309 29.630 0.00 0.00 39.49 2.44
2525 6978 9.077885 AGGAAAATGAACTATCAAACTAGCAAA 57.922 29.630 0.00 0.00 39.49 3.68
2526 6979 8.635765 AGGAAAATGAACTATCAAACTAGCAA 57.364 30.769 0.00 0.00 39.49 3.91
2527 6980 7.882791 TGAGGAAAATGAACTATCAAACTAGCA 59.117 33.333 0.00 0.00 39.49 3.49
2528 6981 8.268850 TGAGGAAAATGAACTATCAAACTAGC 57.731 34.615 0.00 0.00 39.49 3.42
2587 7040 9.942850 CCATTTAATCCCATTTAAAGTTCACTT 57.057 29.630 0.00 0.00 35.24 3.16
2588 7041 9.320295 TCCATTTAATCCCATTTAAAGTTCACT 57.680 29.630 0.00 0.00 35.24 3.41
2589 7042 9.936759 TTCCATTTAATCCCATTTAAAGTTCAC 57.063 29.630 0.00 0.00 35.24 3.18
2590 7043 9.936759 GTTCCATTTAATCCCATTTAAAGTTCA 57.063 29.630 0.00 0.00 35.24 3.18
2591 7044 9.378551 GGTTCCATTTAATCCCATTTAAAGTTC 57.621 33.333 0.00 0.00 35.24 3.01
2592 7045 8.325787 GGGTTCCATTTAATCCCATTTAAAGTT 58.674 33.333 0.00 0.00 35.24 2.66
2593 7046 7.364320 CGGGTTCCATTTAATCCCATTTAAAGT 60.364 37.037 0.00 0.00 38.15 2.66
2594 7047 6.983890 CGGGTTCCATTTAATCCCATTTAAAG 59.016 38.462 0.00 0.00 38.15 1.85
2595 7048 6.127026 CCGGGTTCCATTTAATCCCATTTAAA 60.127 38.462 0.00 0.00 38.15 1.52
2596 7049 5.364157 CCGGGTTCCATTTAATCCCATTTAA 59.636 40.000 0.00 0.00 38.15 1.52
2597 7050 4.896482 CCGGGTTCCATTTAATCCCATTTA 59.104 41.667 0.00 0.00 38.15 1.40
2598 7051 3.709141 CCGGGTTCCATTTAATCCCATTT 59.291 43.478 0.00 0.00 38.15 2.32
2599 7052 3.304829 CCGGGTTCCATTTAATCCCATT 58.695 45.455 0.00 0.00 38.15 3.16
2600 7053 2.246327 ACCGGGTTCCATTTAATCCCAT 59.754 45.455 6.32 0.00 38.15 4.00
2601 7054 1.641714 ACCGGGTTCCATTTAATCCCA 59.358 47.619 6.32 0.00 38.15 4.37
2602 7055 2.429250 CAACCGGGTTCCATTTAATCCC 59.571 50.000 10.04 0.00 35.22 3.85
2603 7056 3.129813 GTCAACCGGGTTCCATTTAATCC 59.870 47.826 10.04 0.00 0.00 3.01
2604 7057 3.759618 TGTCAACCGGGTTCCATTTAATC 59.240 43.478 10.04 0.00 0.00 1.75
2605 7058 3.768878 TGTCAACCGGGTTCCATTTAAT 58.231 40.909 10.04 0.00 0.00 1.40
2606 7059 3.225177 TGTCAACCGGGTTCCATTTAA 57.775 42.857 10.04 0.00 0.00 1.52
2607 7060 2.953284 TGTCAACCGGGTTCCATTTA 57.047 45.000 10.04 0.00 0.00 1.40
2608 7061 2.167662 GATGTCAACCGGGTTCCATTT 58.832 47.619 10.04 0.00 0.00 2.32
2609 7062 1.615919 GGATGTCAACCGGGTTCCATT 60.616 52.381 10.04 0.00 0.00 3.16
2610 7063 0.034477 GGATGTCAACCGGGTTCCAT 60.034 55.000 17.23 17.23 0.00 3.41
2611 7064 1.377229 GGATGTCAACCGGGTTCCA 59.623 57.895 10.04 10.20 0.00 3.53
2612 7065 1.378119 GGGATGTCAACCGGGTTCC 60.378 63.158 10.04 7.90 0.00 3.62
2613 7066 0.906775 TAGGGATGTCAACCGGGTTC 59.093 55.000 10.04 0.03 0.00 3.62
2614 7067 1.211949 CATAGGGATGTCAACCGGGTT 59.788 52.381 6.59 6.59 0.00 4.11
2615 7068 0.837272 CATAGGGATGTCAACCGGGT 59.163 55.000 6.32 0.00 0.00 5.28
2616 7069 0.837272 ACATAGGGATGTCAACCGGG 59.163 55.000 6.32 0.00 43.01 5.73
2617 7070 2.545113 CGTACATAGGGATGTCAACCGG 60.545 54.545 0.00 0.00 43.01 5.28
2618 7071 2.545113 CCGTACATAGGGATGTCAACCG 60.545 54.545 0.00 0.00 43.01 4.44
2619 7072 2.433239 ACCGTACATAGGGATGTCAACC 59.567 50.000 4.67 0.00 43.01 3.77
2620 7073 3.814005 ACCGTACATAGGGATGTCAAC 57.186 47.619 4.67 0.00 43.01 3.18
2621 7074 3.770388 TGAACCGTACATAGGGATGTCAA 59.230 43.478 4.67 0.00 43.01 3.18
2622 7075 3.367321 TGAACCGTACATAGGGATGTCA 58.633 45.455 4.67 2.96 43.01 3.58
2623 7076 3.383825 ACTGAACCGTACATAGGGATGTC 59.616 47.826 4.67 0.72 43.01 3.06
2625 7078 3.492656 CCACTGAACCGTACATAGGGATG 60.493 52.174 4.67 0.00 39.16 3.51
2626 7079 2.698797 CCACTGAACCGTACATAGGGAT 59.301 50.000 4.67 0.00 35.32 3.85
2627 7080 2.104967 CCACTGAACCGTACATAGGGA 58.895 52.381 4.67 0.00 35.32 4.20
2628 7081 1.472728 GCCACTGAACCGTACATAGGG 60.473 57.143 0.00 0.00 37.27 3.53
2629 7082 1.206132 TGCCACTGAACCGTACATAGG 59.794 52.381 0.00 0.00 0.00 2.57
2630 7083 2.665649 TGCCACTGAACCGTACATAG 57.334 50.000 0.00 0.00 0.00 2.23
2702 9768 2.037121 TGCATATATCACGAGGGTGTGG 59.963 50.000 0.00 0.00 44.68 4.17
2703 9769 3.385193 TGCATATATCACGAGGGTGTG 57.615 47.619 0.00 0.00 44.68 3.82
2712 9778 6.765036 CCACAGGGAGATAATGCATATATCAC 59.235 42.308 20.96 17.00 36.14 3.06
2871 9941 7.416964 AACATTGCACCCTAAATAGCATTTA 57.583 32.000 0.00 0.00 36.80 1.40
3010 10080 4.284490 AGCATGTACAAAGAGAGAACCTGA 59.716 41.667 0.00 0.00 0.00 3.86
3072 10152 0.599558 AGTCCGCTTGTAAGTACGCA 59.400 50.000 0.00 0.00 0.00 5.24
3185 10270 8.655651 ATTACACGAATTGTTTGGATGTTTTT 57.344 26.923 0.00 0.00 39.91 1.94
3250 10335 2.358737 AGCTCGGCCTCCAAAACG 60.359 61.111 0.00 0.00 0.00 3.60
3340 10425 3.377172 GTGGGTTACATCCTTGCATACAC 59.623 47.826 0.00 0.00 0.00 2.90
3391 10476 2.248280 TGTACAGGTCGCAACACAAT 57.752 45.000 0.00 0.00 0.00 2.71
3424 10509 2.138535 ATTCATCCTCCCAGGCCATA 57.861 50.000 5.01 0.00 34.61 2.74
3468 10553 2.802247 GGGCTGTGCAAAAAGACAAATC 59.198 45.455 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.