Multiple sequence alignment - TraesCS7D01G469000

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G469000 chr7D 100.000 3945 0 0 1 3945 582305001 582301057 0.000000e+00 7286.0
1 TraesCS7D01G469000 chr7D 85.759 948 110 19 1018 1963 82899030 82899954 0.000000e+00 979.0
2 TraesCS7D01G469000 chr7D 83.188 1029 151 20 946 1962 83063158 83064176 0.000000e+00 922.0
3 TraesCS7D01G469000 chr7D 83.903 994 129 18 997 1963 205131721 205132710 0.000000e+00 920.0
4 TraesCS7D01G469000 chr7D 78.148 691 118 21 2109 2781 82902025 82902700 3.670000e-110 409.0
5 TraesCS7D01G469000 chr7D 85.027 374 42 10 2422 2791 205133340 205133703 6.230000e-98 368.0
6 TraesCS7D01G469000 chr7D 90.984 244 21 1 399 642 393625085 393624843 1.060000e-85 327.0
7 TraesCS7D01G469000 chr7D 90.210 143 14 0 2814 2956 205134563 205134705 1.870000e-43 187.0
8 TraesCS7D01G469000 chr7D 89.231 130 14 0 2423 2552 83064833 83064962 3.150000e-36 163.0
9 TraesCS7D01G469000 chr7D 86.620 142 16 2 2813 2954 82902843 82902981 1.900000e-33 154.0
10 TraesCS7D01G469000 chr7B 88.953 2788 210 55 843 3602 650130209 650127492 0.000000e+00 3352.0
11 TraesCS7D01G469000 chr7B 84.990 986 124 20 1000 1963 169433033 169434016 0.000000e+00 979.0
12 TraesCS7D01G469000 chr7B 85.127 948 119 15 1018 1962 32330516 32331444 0.000000e+00 950.0
13 TraesCS7D01G469000 chr7B 83.153 1015 147 20 946 1958 32408287 32409279 0.000000e+00 905.0
14 TraesCS7D01G469000 chr7B 87.558 651 80 1 1313 1963 32344786 32345435 0.000000e+00 752.0
15 TraesCS7D01G469000 chr7B 89.535 344 17 7 3619 3945 650127424 650127083 6.100000e-113 418.0
16 TraesCS7D01G469000 chr7B 85.953 299 26 7 3 296 650130721 650130434 4.950000e-79 305.0
17 TraesCS7D01G469000 chr7B 90.000 130 13 0 2423 2552 32332119 32332248 6.780000e-38 169.0
18 TraesCS7D01G469000 chr7B 85.517 145 18 2 2813 2957 32332693 32332834 8.830000e-32 148.0
19 TraesCS7D01G469000 chr7B 87.719 57 7 0 2493 2549 32354420 32354476 2.540000e-07 67.6
20 TraesCS7D01G469000 chr7A 91.202 2296 125 33 785 3047 674275417 674273166 0.000000e+00 3049.0
21 TraesCS7D01G469000 chr7A 85.714 980 117 18 997 1957 217202641 217203616 0.000000e+00 1013.0
22 TraesCS7D01G469000 chr7A 85.335 941 115 13 1018 1957 84854670 84855588 0.000000e+00 952.0
23 TraesCS7D01G469000 chr7A 83.221 1037 142 24 946 1962 85030805 85031829 0.000000e+00 922.0
24 TraesCS7D01G469000 chr7A 88.889 468 44 6 3160 3620 674273175 674272709 1.590000e-158 569.0
25 TraesCS7D01G469000 chr7A 87.321 418 24 9 1 404 674277000 674276598 6.010000e-123 451.0
26 TraesCS7D01G469000 chr7A 90.214 327 20 3 3619 3945 674272666 674272352 2.190000e-112 416.0
27 TraesCS7D01G469000 chr7A 77.920 702 122 21 2109 2791 84855875 84856562 1.320000e-109 407.0
28 TraesCS7D01G469000 chr7A 83.924 367 46 7 2422 2785 217204277 217204633 4.880000e-89 339.0
29 TraesCS7D01G469000 chr7A 91.736 242 20 0 401 642 218936186 218936427 1.760000e-88 337.0
30 TraesCS7D01G469000 chr7A 90.210 143 14 0 2814 2956 217205540 217205682 1.870000e-43 187.0
31 TraesCS7D01G469000 chr3D 92.213 244 19 0 399 642 148251244 148251001 2.920000e-91 346.0
32 TraesCS7D01G469000 chr3D 90.164 244 22 2 399 642 4579090 4579331 2.290000e-82 316.0
33 TraesCS7D01G469000 chr6A 91.358 243 19 2 401 642 606719577 606719818 8.170000e-87 331.0
34 TraesCS7D01G469000 chr6A 82.143 168 28 2 2055 2221 609479857 609479691 4.110000e-30 143.0
35 TraesCS7D01G469000 chr4B 90.909 242 22 0 401 642 121191554 121191795 3.800000e-85 326.0
36 TraesCS7D01G469000 chr6D 89.189 259 22 6 386 642 472139329 472139075 6.360000e-83 318.0
37 TraesCS7D01G469000 chr6D 76.451 293 63 6 2055 2344 462635119 462634830 1.900000e-33 154.0
38 TraesCS7D01G469000 chr5D 90.164 244 22 2 400 642 557935623 557935381 2.290000e-82 316.0
39 TraesCS7D01G469000 chr5D 90.083 242 24 0 401 642 546697975 546697734 8.230000e-82 315.0
40 TraesCS7D01G469000 chr1A 91.954 87 7 0 119 205 417400618 417400704 5.350000e-24 122.0
41 TraesCS7D01G469000 chr1A 91.954 87 7 0 119 205 425264027 425264113 5.350000e-24 122.0
42 TraesCS7D01G469000 chr6B 80.000 170 28 5 2055 2221 705474384 705474550 1.930000e-23 121.0
43 TraesCS7D01G469000 chrUn 86.957 92 12 0 116 207 28682520 28682611 1.940000e-18 104.0
44 TraesCS7D01G469000 chr5A 88.372 86 10 0 119 204 3613004 3613089 1.940000e-18 104.0
45 TraesCS7D01G469000 chr5A 86.047 86 12 0 119 204 1342668 1342583 4.200000e-15 93.5
46 TraesCS7D01G469000 chr5B 87.059 85 11 0 119 203 559679766 559679682 3.240000e-16 97.1
47 TraesCS7D01G469000 chr2B 87.209 86 10 1 120 204 200567953 200568038 3.240000e-16 97.1


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 TraesCS7D01G469000 chr7D 582301057 582305001 3944 True 7286.000000 7286 100.000000 1 3945 1 chr7D.!!$R2 3944
1 TraesCS7D01G469000 chr7D 83063158 83064962 1804 False 542.500000 922 86.209500 946 2552 2 chr7D.!!$F2 1606
2 TraesCS7D01G469000 chr7D 82899030 82902981 3951 False 514.000000 979 83.509000 1018 2954 3 chr7D.!!$F1 1936
3 TraesCS7D01G469000 chr7D 205131721 205134705 2984 False 491.666667 920 86.380000 997 2956 3 chr7D.!!$F3 1959
4 TraesCS7D01G469000 chr7B 650127083 650130721 3638 True 1358.333333 3352 88.147000 3 3945 3 chr7B.!!$R1 3942
5 TraesCS7D01G469000 chr7B 169433033 169434016 983 False 979.000000 979 84.990000 1000 1963 1 chr7B.!!$F4 963
6 TraesCS7D01G469000 chr7B 32408287 32409279 992 False 905.000000 905 83.153000 946 1958 1 chr7B.!!$F3 1012
7 TraesCS7D01G469000 chr7B 32344786 32345435 649 False 752.000000 752 87.558000 1313 1963 1 chr7B.!!$F1 650
8 TraesCS7D01G469000 chr7B 32330516 32332834 2318 False 422.333333 950 86.881333 1018 2957 3 chr7B.!!$F5 1939
9 TraesCS7D01G469000 chr7A 674272352 674277000 4648 True 1121.250000 3049 89.406500 1 3945 4 chr7A.!!$R1 3944
10 TraesCS7D01G469000 chr7A 85030805 85031829 1024 False 922.000000 922 83.221000 946 1962 1 chr7A.!!$F1 1016
11 TraesCS7D01G469000 chr7A 84854670 84856562 1892 False 679.500000 952 81.627500 1018 2791 2 chr7A.!!$F3 1773
12 TraesCS7D01G469000 chr7A 217202641 217205682 3041 False 513.000000 1013 86.616000 997 2956 3 chr7A.!!$F4 1959

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
731 746 0.096628 GAAGCTCTTCATGTGCTGCG 59.903 55.0 4.85 0.0 43.74 5.18 F
1305 2477 0.247460 ACTGCTGATGCTGACGCTAA 59.753 50.0 0.00 0.0 40.66 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2506 5810 0.889638 TGTAGCCGAGGAGATAGCCG 60.890 60.0 0.0 0.0 0.00 5.52 R
3217 7562 0.032540 AAGGAAAAAGCTTGCTGCCG 59.967 50.0 0.0 0.0 44.23 5.69 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
81 92 0.922626 TGGTAGGGGCATGCATACAA 59.077 50.000 21.36 9.78 0.00 2.41
101 112 1.608590 ACAGCCGATCTTTGTTGTTGG 59.391 47.619 0.00 0.00 0.00 3.77
185 199 2.793232 AGTTCGAAACTGCGACACTTAC 59.207 45.455 0.00 0.00 41.01 2.34
187 201 2.658285 TCGAAACTGCGACACTTACTC 58.342 47.619 0.00 0.00 35.01 2.59
242 256 8.754991 TTCGTGGTATGGATTTATTAACCATT 57.245 30.769 0.00 0.00 43.11 3.16
289 303 4.361783 TGACCCTATGAGATTCCAGACAA 58.638 43.478 0.00 0.00 0.00 3.18
293 308 4.445305 CCCTATGAGATTCCAGACAATGCA 60.445 45.833 0.00 0.00 0.00 3.96
296 311 4.224991 TGAGATTCCAGACAATGCATGA 57.775 40.909 0.00 0.00 0.00 3.07
337 352 7.754851 AAGTTACATTTTTCCGATAACCTGT 57.245 32.000 0.00 0.00 0.00 4.00
338 353 7.373778 AGTTACATTTTTCCGATAACCTGTC 57.626 36.000 0.00 0.00 0.00 3.51
339 354 6.938030 AGTTACATTTTTCCGATAACCTGTCA 59.062 34.615 0.00 0.00 0.00 3.58
347 362 2.673368 CCGATAACCTGTCAAAGTCTGC 59.327 50.000 0.00 0.00 0.00 4.26
348 363 3.589988 CGATAACCTGTCAAAGTCTGCT 58.410 45.455 0.00 0.00 0.00 4.24
351 366 5.062308 CGATAACCTGTCAAAGTCTGCTAAC 59.938 44.000 0.00 0.00 0.00 2.34
352 367 3.838244 ACCTGTCAAAGTCTGCTAACA 57.162 42.857 0.00 0.00 0.00 2.41
353 368 4.150897 ACCTGTCAAAGTCTGCTAACAA 57.849 40.909 0.00 0.00 0.00 2.83
354 369 4.130118 ACCTGTCAAAGTCTGCTAACAAG 58.870 43.478 0.00 0.00 0.00 3.16
355 370 4.130118 CCTGTCAAAGTCTGCTAACAAGT 58.870 43.478 0.00 0.00 0.00 3.16
356 371 4.024556 CCTGTCAAAGTCTGCTAACAAGTG 60.025 45.833 0.00 0.00 0.00 3.16
357 372 3.312421 TGTCAAAGTCTGCTAACAAGTGC 59.688 43.478 0.00 0.00 0.00 4.40
358 373 3.312421 GTCAAAGTCTGCTAACAAGTGCA 59.688 43.478 0.00 0.00 37.63 4.57
408 423 4.403585 GGTAACCATGAAGTACTCCCTC 57.596 50.000 0.00 0.00 0.00 4.30
409 424 4.031611 GGTAACCATGAAGTACTCCCTCT 58.968 47.826 0.00 0.00 0.00 3.69
410 425 4.141914 GGTAACCATGAAGTACTCCCTCTG 60.142 50.000 0.00 0.00 0.00 3.35
411 426 2.472029 ACCATGAAGTACTCCCTCTGG 58.528 52.381 0.00 2.29 0.00 3.86
412 427 2.225650 ACCATGAAGTACTCCCTCTGGT 60.226 50.000 0.00 2.93 0.00 4.00
413 428 2.840651 CCATGAAGTACTCCCTCTGGTT 59.159 50.000 0.00 0.00 0.00 3.67
414 429 3.118592 CCATGAAGTACTCCCTCTGGTTC 60.119 52.174 0.00 0.00 0.00 3.62
415 430 3.544698 TGAAGTACTCCCTCTGGTTCT 57.455 47.619 0.00 0.00 0.00 3.01
416 431 3.858135 TGAAGTACTCCCTCTGGTTCTT 58.142 45.455 0.00 0.00 0.00 2.52
417 432 4.232091 TGAAGTACTCCCTCTGGTTCTTT 58.768 43.478 0.00 0.00 0.00 2.52
418 433 4.658901 TGAAGTACTCCCTCTGGTTCTTTT 59.341 41.667 0.00 0.00 0.00 2.27
419 434 5.132144 TGAAGTACTCCCTCTGGTTCTTTTT 59.868 40.000 0.00 0.00 0.00 1.94
420 435 6.328148 TGAAGTACTCCCTCTGGTTCTTTTTA 59.672 38.462 0.00 0.00 0.00 1.52
421 436 6.111669 AGTACTCCCTCTGGTTCTTTTTAC 57.888 41.667 0.00 0.00 0.00 2.01
422 437 5.845065 AGTACTCCCTCTGGTTCTTTTTACT 59.155 40.000 0.00 0.00 0.00 2.24
423 438 5.230323 ACTCCCTCTGGTTCTTTTTACTC 57.770 43.478 0.00 0.00 0.00 2.59
424 439 4.908481 ACTCCCTCTGGTTCTTTTTACTCT 59.092 41.667 0.00 0.00 0.00 3.24
425 440 5.221742 ACTCCCTCTGGTTCTTTTTACTCTG 60.222 44.000 0.00 0.00 0.00 3.35
426 441 3.753797 CCCTCTGGTTCTTTTTACTCTGC 59.246 47.826 0.00 0.00 0.00 4.26
427 442 4.389374 CCTCTGGTTCTTTTTACTCTGCA 58.611 43.478 0.00 0.00 0.00 4.41
428 443 5.006386 CCTCTGGTTCTTTTTACTCTGCAT 58.994 41.667 0.00 0.00 0.00 3.96
429 444 6.173339 CCTCTGGTTCTTTTTACTCTGCATA 58.827 40.000 0.00 0.00 0.00 3.14
430 445 6.825721 CCTCTGGTTCTTTTTACTCTGCATAT 59.174 38.462 0.00 0.00 0.00 1.78
431 446 7.987458 CCTCTGGTTCTTTTTACTCTGCATATA 59.013 37.037 0.00 0.00 0.00 0.86
432 447 9.383519 CTCTGGTTCTTTTTACTCTGCATATAA 57.616 33.333 0.00 0.00 0.00 0.98
433 448 9.383519 TCTGGTTCTTTTTACTCTGCATATAAG 57.616 33.333 0.00 0.00 0.00 1.73
434 449 9.383519 CTGGTTCTTTTTACTCTGCATATAAGA 57.616 33.333 0.00 0.00 0.00 2.10
435 450 9.733556 TGGTTCTTTTTACTCTGCATATAAGAA 57.266 29.630 0.00 0.00 0.00 2.52
456 471 7.787725 AGAATTGTCTAAAGTCAAACTTCGT 57.212 32.000 0.00 0.00 37.47 3.85
457 472 8.882415 AGAATTGTCTAAAGTCAAACTTCGTA 57.118 30.769 0.00 0.00 37.47 3.43
458 473 9.321562 AGAATTGTCTAAAGTCAAACTTCGTAA 57.678 29.630 0.00 0.00 37.47 3.18
459 474 9.925268 GAATTGTCTAAAGTCAAACTTCGTAAA 57.075 29.630 0.00 0.00 37.47 2.01
460 475 9.931210 AATTGTCTAAAGTCAAACTTCGTAAAG 57.069 29.630 0.00 0.00 37.47 1.85
538 553 8.911662 ACAATATGAAAATTTAAGTCACAACGC 58.088 29.630 0.00 0.00 0.00 4.84
539 554 8.910666 CAATATGAAAATTTAAGTCACAACGCA 58.089 29.630 0.00 0.00 0.00 5.24
540 555 9.638239 AATATGAAAATTTAAGTCACAACGCAT 57.362 25.926 0.00 0.00 0.00 4.73
541 556 6.984740 TGAAAATTTAAGTCACAACGCATC 57.015 33.333 0.00 0.00 0.00 3.91
542 557 6.734137 TGAAAATTTAAGTCACAACGCATCT 58.266 32.000 0.00 0.00 0.00 2.90
543 558 7.866729 TGAAAATTTAAGTCACAACGCATCTA 58.133 30.769 0.00 0.00 0.00 1.98
544 559 8.346300 TGAAAATTTAAGTCACAACGCATCTAA 58.654 29.630 0.00 0.00 0.00 2.10
545 560 9.341899 GAAAATTTAAGTCACAACGCATCTAAT 57.658 29.630 0.00 0.00 0.00 1.73
546 561 8.673626 AAATTTAAGTCACAACGCATCTAATG 57.326 30.769 0.00 0.00 0.00 1.90
547 562 7.609760 ATTTAAGTCACAACGCATCTAATGA 57.390 32.000 0.00 0.00 0.00 2.57
548 563 7.609760 TTTAAGTCACAACGCATCTAATGAT 57.390 32.000 0.00 0.00 0.00 2.45
549 564 8.710835 TTTAAGTCACAACGCATCTAATGATA 57.289 30.769 0.00 0.00 0.00 2.15
550 565 8.710835 TTAAGTCACAACGCATCTAATGATAA 57.289 30.769 0.00 0.00 0.00 1.75
551 566 7.792374 AAGTCACAACGCATCTAATGATAAT 57.208 32.000 0.00 0.00 0.00 1.28
552 567 7.182361 AGTCACAACGCATCTAATGATAATG 57.818 36.000 0.00 0.00 0.00 1.90
553 568 6.986231 AGTCACAACGCATCTAATGATAATGA 59.014 34.615 0.00 0.00 0.00 2.57
554 569 7.658982 AGTCACAACGCATCTAATGATAATGAT 59.341 33.333 0.00 0.00 0.00 2.45
555 570 8.285394 GTCACAACGCATCTAATGATAATGATT 58.715 33.333 0.00 0.00 0.00 2.57
556 571 8.839343 TCACAACGCATCTAATGATAATGATTT 58.161 29.630 0.00 0.00 0.00 2.17
557 572 9.110617 CACAACGCATCTAATGATAATGATTTC 57.889 33.333 0.00 0.00 0.00 2.17
558 573 8.839343 ACAACGCATCTAATGATAATGATTTCA 58.161 29.630 0.00 0.00 0.00 2.69
559 574 9.110617 CAACGCATCTAATGATAATGATTTCAC 57.889 33.333 0.00 0.00 0.00 3.18
560 575 8.382030 ACGCATCTAATGATAATGATTTCACA 57.618 30.769 0.00 0.00 0.00 3.58
561 576 9.006839 ACGCATCTAATGATAATGATTTCACAT 57.993 29.630 0.00 0.00 0.00 3.21
562 577 9.836076 CGCATCTAATGATAATGATTTCACATT 57.164 29.630 0.00 0.00 42.17 2.71
639 654 9.722056 AATTTCAGACAAATCTTATATGCGAAC 57.278 29.630 0.00 0.00 30.42 3.95
640 655 8.492673 TTTCAGACAAATCTTATATGCGAACT 57.507 30.769 0.00 0.00 30.42 3.01
641 656 9.594478 TTTCAGACAAATCTTATATGCGAACTA 57.406 29.630 0.00 0.00 30.42 2.24
642 657 8.803201 TCAGACAAATCTTATATGCGAACTAG 57.197 34.615 0.00 0.00 30.42 2.57
643 658 8.414003 TCAGACAAATCTTATATGCGAACTAGT 58.586 33.333 0.00 0.00 30.42 2.57
644 659 9.678941 CAGACAAATCTTATATGCGAACTAGTA 57.321 33.333 0.00 0.00 30.42 1.82
694 709 3.542648 GGGGTAACAATGAAGTAGGAGC 58.457 50.000 0.00 0.00 39.74 4.70
702 717 7.661536 AACAATGAAGTAGGAGCAGTCTATA 57.338 36.000 0.00 0.00 0.00 1.31
709 724 6.658188 AGTAGGAGCAGTCTATAATCCAAC 57.342 41.667 0.00 0.00 32.21 3.77
723 738 3.902881 ATCCAACGAGAAGCTCTTCAT 57.097 42.857 11.69 0.00 41.84 2.57
731 746 0.096628 GAAGCTCTTCATGTGCTGCG 59.903 55.000 4.85 0.00 43.74 5.18
747 762 2.827555 CTGCGTCGATTCAGTTTTCAC 58.172 47.619 0.00 0.00 0.00 3.18
748 763 2.476619 CTGCGTCGATTCAGTTTTCACT 59.523 45.455 0.00 0.00 0.00 3.41
749 764 2.869801 TGCGTCGATTCAGTTTTCACTT 59.130 40.909 0.00 0.00 0.00 3.16
750 765 3.311322 TGCGTCGATTCAGTTTTCACTTT 59.689 39.130 0.00 0.00 0.00 2.66
751 766 4.201871 TGCGTCGATTCAGTTTTCACTTTT 60.202 37.500 0.00 0.00 0.00 2.27
778 815 6.537453 ACACATGCATCCTATCCTATCTAC 57.463 41.667 0.00 0.00 0.00 2.59
779 816 6.019108 ACACATGCATCCTATCCTATCTACA 58.981 40.000 0.00 0.00 0.00 2.74
780 817 6.071108 ACACATGCATCCTATCCTATCTACAC 60.071 42.308 0.00 0.00 0.00 2.90
781 818 5.423610 ACATGCATCCTATCCTATCTACACC 59.576 44.000 0.00 0.00 0.00 4.16
782 819 4.017126 TGCATCCTATCCTATCTACACCG 58.983 47.826 0.00 0.00 0.00 4.94
783 820 4.017808 GCATCCTATCCTATCTACACCGT 58.982 47.826 0.00 0.00 0.00 4.83
805 1876 3.470709 TGATGAATCGGCAGAAGAATCC 58.529 45.455 0.00 0.00 0.00 3.01
943 2032 5.067936 CGTGGATATAGATACCTGGATGGAC 59.932 48.000 0.00 0.00 39.71 4.02
971 2063 3.311110 GGAGGCAGACCGGTGACA 61.311 66.667 14.63 0.00 42.76 3.58
978 2070 2.740055 GACCGGTGACAGCTGCAG 60.740 66.667 14.63 10.11 0.00 4.41
1230 2329 1.219393 CTCCACCTTCTCCTTCGGC 59.781 63.158 0.00 0.00 0.00 5.54
1243 2353 0.522915 CTTCGGCTTCCTCGTACGTC 60.523 60.000 16.05 0.00 0.00 4.34
1250 2360 0.603707 TTCCTCGTACGTCCGTCACT 60.604 55.000 16.05 0.00 0.00 3.41
1251 2361 1.134075 CCTCGTACGTCCGTCACTG 59.866 63.158 16.05 0.00 0.00 3.66
1261 2378 0.970937 TCCGTCACTGTCCATCTCCC 60.971 60.000 0.00 0.00 0.00 4.30
1262 2379 0.972983 CCGTCACTGTCCATCTCCCT 60.973 60.000 0.00 0.00 0.00 4.20
1264 2381 1.561643 GTCACTGTCCATCTCCCTCA 58.438 55.000 0.00 0.00 0.00 3.86
1266 2383 0.539051 CACTGTCCATCTCCCTCACC 59.461 60.000 0.00 0.00 0.00 4.02
1273 2419 0.692476 CATCTCCCTCACCCACACAA 59.308 55.000 0.00 0.00 0.00 3.33
1303 2475 1.447489 GACTGCTGATGCTGACGCT 60.447 57.895 0.00 0.00 40.66 5.07
1305 2477 0.247460 ACTGCTGATGCTGACGCTAA 59.753 50.000 0.00 0.00 40.66 3.09
1307 2479 0.247460 TGCTGATGCTGACGCTAACT 59.753 50.000 0.00 0.00 40.48 2.24
1308 2480 1.476488 TGCTGATGCTGACGCTAACTA 59.524 47.619 0.00 0.00 40.48 2.24
1309 2481 2.094234 TGCTGATGCTGACGCTAACTAA 60.094 45.455 0.00 0.00 40.48 2.24
1310 2482 2.282820 GCTGATGCTGACGCTAACTAAC 59.717 50.000 0.00 0.00 36.97 2.34
1311 2483 3.511699 CTGATGCTGACGCTAACTAACA 58.488 45.455 0.00 0.00 36.97 2.41
1312 2484 3.250744 TGATGCTGACGCTAACTAACAC 58.749 45.455 0.00 0.00 36.97 3.32
1313 2485 1.693467 TGCTGACGCTAACTAACACG 58.307 50.000 0.00 0.00 36.97 4.49
1314 2486 0.365859 GCTGACGCTAACTAACACGC 59.634 55.000 0.00 0.00 0.00 5.34
1315 2487 1.978542 CTGACGCTAACTAACACGCT 58.021 50.000 0.00 0.00 0.00 5.07
1462 2634 2.053244 CTCCTCATGGTGCCCTTCTAT 58.947 52.381 0.00 0.00 34.23 1.98
1576 2748 0.391597 TCTCCTTCGCCGTCAACTTT 59.608 50.000 0.00 0.00 0.00 2.66
1822 2994 2.507547 GCCGCGTTCCACGACATA 60.508 61.111 4.92 0.00 46.05 2.29
1997 3179 4.261994 CCAAAACCCATTACAACCTGACAG 60.262 45.833 0.00 0.00 0.00 3.51
2020 5082 5.762218 AGCATTCTGAACTTATATGGCTGAC 59.238 40.000 0.00 0.00 0.00 3.51
2021 5083 5.528690 GCATTCTGAACTTATATGGCTGACA 59.471 40.000 0.00 0.00 0.00 3.58
2268 5486 1.816835 GTCATCTACACCACCGACTCA 59.183 52.381 0.00 0.00 0.00 3.41
2357 5575 2.180017 CGTGCTTTCAGGCATGCC 59.820 61.111 30.12 30.12 44.34 4.40
2405 5659 6.017523 TGCTAGTTTCATTTTGTTCATGTCGA 60.018 34.615 0.00 0.00 0.00 4.20
2702 6134 1.874915 CATGCTTTGCGGGATTGCG 60.875 57.895 0.00 0.00 37.81 4.85
2946 7290 2.103941 CCAAGCCTCTCCTGGAATAGAC 59.896 54.545 0.00 0.00 0.00 2.59
2959 7303 5.186797 CCTGGAATAGACCTAGATCACCATC 59.813 48.000 0.00 0.00 0.00 3.51
2963 7307 6.183360 GGAATAGACCTAGATCACCATCGATC 60.183 46.154 0.00 0.00 41.85 3.69
2976 7320 5.294306 TCACCATCGATCAATAAAACTCTGC 59.706 40.000 0.00 0.00 0.00 4.26
3002 7346 4.202305 CCCCGAAGAAAGAGAGAAGCATAT 60.202 45.833 0.00 0.00 0.00 1.78
3008 7352 7.470702 CGAAGAAAGAGAGAAGCATATCCCTAA 60.471 40.741 0.00 0.00 0.00 2.69
3009 7353 7.301868 AGAAAGAGAGAAGCATATCCCTAAG 57.698 40.000 0.00 0.00 0.00 2.18
3031 7376 0.519519 TTGTGGCGCCGATGTAAAAG 59.480 50.000 23.90 0.00 0.00 2.27
3041 7386 5.548250 CGCCGATGTAAAAGTTAGAAGTTC 58.452 41.667 0.00 0.00 0.00 3.01
3042 7387 5.347907 CGCCGATGTAAAAGTTAGAAGTTCT 59.652 40.000 10.87 10.87 0.00 3.01
3043 7388 6.453922 CGCCGATGTAAAAGTTAGAAGTTCTC 60.454 42.308 9.12 0.00 0.00 2.87
3045 7390 7.758528 GCCGATGTAAAAGTTAGAAGTTCTCTA 59.241 37.037 9.12 0.00 35.41 2.43
3046 7391 9.291664 CCGATGTAAAAGTTAGAAGTTCTCTAG 57.708 37.037 9.12 0.00 37.93 2.43
3049 7394 9.646427 ATGTAAAAGTTAGAAGTTCTCTAGCAG 57.354 33.333 9.12 0.00 39.64 4.24
3050 7395 7.599245 TGTAAAAGTTAGAAGTTCTCTAGCAGC 59.401 37.037 9.12 0.00 39.64 5.25
3051 7396 5.730296 AAGTTAGAAGTTCTCTAGCAGCA 57.270 39.130 9.12 0.00 39.64 4.41
3052 7397 5.930837 AGTTAGAAGTTCTCTAGCAGCAT 57.069 39.130 9.12 0.00 39.64 3.79
3072 7417 7.318141 CAGCATTTTGTAAGATGGTCATTCTT 58.682 34.615 0.00 0.00 32.13 2.52
3085 7430 6.395426 TGGTCATTCTTATGCCATCATTTC 57.605 37.500 0.00 0.00 34.88 2.17
3086 7431 6.131264 TGGTCATTCTTATGCCATCATTTCT 58.869 36.000 0.00 0.00 34.88 2.52
3087 7432 6.608405 TGGTCATTCTTATGCCATCATTTCTT 59.392 34.615 0.00 0.00 34.88 2.52
3146 7491 1.779025 GACCATGCTATGCAGTGGCG 61.779 60.000 15.56 0.00 43.65 5.69
3147 7492 2.330393 CATGCTATGCAGTGGCGC 59.670 61.111 0.00 0.00 43.65 6.53
3148 7493 2.184830 CATGCTATGCAGTGGCGCT 61.185 57.895 7.64 0.00 43.65 5.92
3187 7532 3.618690 AGAACTAGAAGGAAATGCGCT 57.381 42.857 9.73 0.00 0.00 5.92
3188 7533 3.944087 AGAACTAGAAGGAAATGCGCTT 58.056 40.909 9.73 0.00 0.00 4.68
3211 7556 2.049156 TGCGCCGTTGTCTCTCAG 60.049 61.111 4.18 0.00 0.00 3.35
3217 7562 0.445436 CCGTTGTCTCTCAGCATTGC 59.555 55.000 0.00 0.00 0.00 3.56
3233 7578 3.542369 GCGGCAGCAAGCTTTTTC 58.458 55.556 3.18 0.00 44.79 2.29
3245 7591 7.331687 GCAGCAAGCTTTTTCCTTTGATATTTA 59.668 33.333 0.00 0.00 41.15 1.40
3248 7594 9.369904 GCAAGCTTTTTCCTTTGATATTTATCA 57.630 29.630 0.00 0.00 40.69 2.15
3277 7633 7.125507 ACAGACATTTCATGGAATCTCTCTACT 59.874 37.037 1.69 0.00 33.60 2.57
3286 7642 3.704061 GGAATCTCTCTACTCAGCAACCT 59.296 47.826 0.00 0.00 0.00 3.50
3312 7668 5.125417 GGACAATTAGCAGCACTGGAAATTA 59.875 40.000 0.00 0.00 0.00 1.40
3339 7696 2.420022 GGAATGCACACTACACATCCAC 59.580 50.000 0.00 0.00 0.00 4.02
3340 7697 2.857186 ATGCACACTACACATCCACA 57.143 45.000 0.00 0.00 0.00 4.17
3343 7700 2.217750 GCACACTACACATCCACACAA 58.782 47.619 0.00 0.00 0.00 3.33
3345 7702 3.253188 GCACACTACACATCCACACAATT 59.747 43.478 0.00 0.00 0.00 2.32
3346 7703 4.786507 CACACTACACATCCACACAATTG 58.213 43.478 3.24 3.24 0.00 2.32
3359 7716 3.737266 CACACAATTGATCTTGCCACAAC 59.263 43.478 13.59 0.00 0.00 3.32
3364 7721 4.713824 ATTGATCTTGCCACAACAGATG 57.286 40.909 0.00 0.00 0.00 2.90
3397 7754 4.460948 AACGAAAGGCGGAGAATACTTA 57.539 40.909 0.00 0.00 46.49 2.24
3402 7759 4.657436 AAGGCGGAGAATACTTAGACAG 57.343 45.455 0.00 0.00 0.00 3.51
3433 7790 9.257651 ACTATTATCTACAAACCAAATACTCGC 57.742 33.333 0.00 0.00 0.00 5.03
3443 7800 5.048846 ACCAAATACTCGCCATATTTCCT 57.951 39.130 0.00 0.00 31.33 3.36
3583 7942 2.712057 GTGATTGACACTGGCAAAGG 57.288 50.000 0.18 0.00 45.13 3.11
3592 7951 0.183492 ACTGGCAAAGGCACTGAAGA 59.817 50.000 0.00 0.00 40.86 2.87
3593 7952 0.879765 CTGGCAAAGGCACTGAAGAG 59.120 55.000 0.00 0.00 40.86 2.85
3603 7969 1.363744 CACTGAAGAGGCCTTTAGCG 58.636 55.000 6.77 0.00 45.17 4.26
3615 7981 3.245519 GGCCTTTAGCGAATCTTTACTCG 59.754 47.826 0.00 0.00 45.17 4.18
3681 8108 3.987404 GCCCACACAGTAGGCTTG 58.013 61.111 0.00 0.00 43.62 4.01
3702 8129 6.613755 TTGTGCTGAGATATCACATTCATG 57.386 37.500 5.32 0.00 40.00 3.07
3713 8140 4.852134 TCACATTCATGTTGGGAGTTTG 57.148 40.909 0.00 0.00 39.39 2.93
3720 8147 8.428063 ACATTCATGTTGGGAGTTTGAAAATAA 58.572 29.630 0.00 0.00 37.90 1.40
3752 8179 4.343814 TCGCAATCCTATCAACCTCATACA 59.656 41.667 0.00 0.00 0.00 2.29
3775 8202 6.968904 ACACGATGCAGAATCATGTTAAATTC 59.031 34.615 0.00 0.00 38.53 2.17
3824 8251 8.246180 AGAATTATTCGTCATTGCAAGATGTTT 58.754 29.630 4.94 3.84 34.02 2.83
3846 8273 1.503542 GCACGGCTGAATCACTTGG 59.496 57.895 0.00 0.00 0.00 3.61
3863 8290 0.178995 TGGCCACATTCAGCAGTCAA 60.179 50.000 0.00 0.00 0.00 3.18
3873 8300 1.019673 CAGCAGTCAACAACAGCACT 58.980 50.000 0.00 0.00 42.50 4.40
3933 8360 0.606401 AACTGGCCAGTGAACCATCG 60.606 55.000 38.35 9.62 41.58 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 6.527023 CCGTTTGTTAAAATGTACACACACAA 59.473 34.615 0.00 0.84 37.54 3.33
81 92 1.608590 CCAACAACAAAGATCGGCTGT 59.391 47.619 0.00 0.00 0.00 4.40
185 199 2.224892 TGATACTCCCTCCGATCCAGAG 60.225 54.545 1.19 1.19 0.00 3.35
187 201 2.294449 TGATACTCCCTCCGATCCAG 57.706 55.000 0.00 0.00 0.00 3.86
293 308 3.686227 TTGGTATCCCAAGGCATTCAT 57.314 42.857 0.00 0.00 45.93 2.57
308 323 8.513774 GGTTATCGGAAAAATGTAACTTTGGTA 58.486 33.333 0.00 0.00 0.00 3.25
318 333 6.264518 ACTTTGACAGGTTATCGGAAAAATGT 59.735 34.615 0.00 0.00 0.00 2.71
325 340 3.616560 GCAGACTTTGACAGGTTATCGGA 60.617 47.826 0.00 0.00 0.00 4.55
337 352 3.540617 TGCACTTGTTAGCAGACTTTGA 58.459 40.909 0.00 0.00 35.51 2.69
338 353 3.969117 TGCACTTGTTAGCAGACTTTG 57.031 42.857 0.00 0.00 35.51 2.77
347 362 1.516161 TCTGCTGCTGCACTTGTTAG 58.484 50.000 14.93 3.31 45.31 2.34
348 363 2.189594 ATCTGCTGCTGCACTTGTTA 57.810 45.000 14.93 0.00 45.31 2.41
351 366 1.698165 CAAATCTGCTGCTGCACTTG 58.302 50.000 14.93 13.56 45.31 3.16
352 367 0.038526 GCAAATCTGCTGCTGCACTT 60.039 50.000 14.93 8.35 45.31 3.16
353 368 1.585006 GCAAATCTGCTGCTGCACT 59.415 52.632 14.93 2.07 45.31 4.40
354 369 4.164252 GCAAATCTGCTGCTGCAC 57.836 55.556 14.93 0.00 45.31 4.57
393 408 3.772025 AGAACCAGAGGGAGTACTTCATG 59.228 47.826 2.92 0.00 38.05 3.07
404 419 3.753797 GCAGAGTAAAAAGAACCAGAGGG 59.246 47.826 0.00 0.00 41.29 4.30
405 420 4.389374 TGCAGAGTAAAAAGAACCAGAGG 58.611 43.478 0.00 0.00 0.00 3.69
408 423 9.383519 TCTTATATGCAGAGTAAAAAGAACCAG 57.616 33.333 0.00 0.00 0.00 4.00
409 424 9.733556 TTCTTATATGCAGAGTAAAAAGAACCA 57.266 29.630 0.00 0.00 29.39 3.67
430 445 9.321562 ACGAAGTTTGACTTTAGACAATTCTTA 57.678 29.630 0.00 0.00 37.78 2.10
431 446 8.209917 ACGAAGTTTGACTTTAGACAATTCTT 57.790 30.769 0.00 10.10 37.78 2.52
432 447 7.787725 ACGAAGTTTGACTTTAGACAATTCT 57.212 32.000 0.00 0.00 37.78 2.40
433 448 9.925268 TTTACGAAGTTTGACTTTAGACAATTC 57.075 29.630 0.00 0.00 37.78 2.17
434 449 9.931210 CTTTACGAAGTTTGACTTTAGACAATT 57.069 29.630 0.00 0.00 37.78 2.32
435 450 9.106070 ACTTTACGAAGTTTGACTTTAGACAAT 57.894 29.630 0.00 0.00 43.48 2.71
436 451 8.483307 ACTTTACGAAGTTTGACTTTAGACAA 57.517 30.769 0.00 0.00 43.48 3.18
512 527 8.911662 GCGTTGTGACTTAAATTTTCATATTGT 58.088 29.630 0.00 0.00 0.00 2.71
513 528 8.910666 TGCGTTGTGACTTAAATTTTCATATTG 58.089 29.630 0.00 0.00 0.00 1.90
514 529 9.638239 ATGCGTTGTGACTTAAATTTTCATATT 57.362 25.926 0.00 0.00 0.00 1.28
515 530 9.289303 GATGCGTTGTGACTTAAATTTTCATAT 57.711 29.630 0.00 0.00 0.00 1.78
516 531 8.511321 AGATGCGTTGTGACTTAAATTTTCATA 58.489 29.630 0.00 0.00 0.00 2.15
517 532 7.370383 AGATGCGTTGTGACTTAAATTTTCAT 58.630 30.769 0.00 0.00 0.00 2.57
518 533 6.734137 AGATGCGTTGTGACTTAAATTTTCA 58.266 32.000 0.00 0.00 0.00 2.69
519 534 8.722342 TTAGATGCGTTGTGACTTAAATTTTC 57.278 30.769 0.00 0.00 0.00 2.29
520 535 9.128107 CATTAGATGCGTTGTGACTTAAATTTT 57.872 29.630 0.00 0.00 0.00 1.82
521 536 8.511321 TCATTAGATGCGTTGTGACTTAAATTT 58.489 29.630 0.00 0.00 0.00 1.82
522 537 8.039603 TCATTAGATGCGTTGTGACTTAAATT 57.960 30.769 0.00 0.00 0.00 1.82
523 538 7.609760 TCATTAGATGCGTTGTGACTTAAAT 57.390 32.000 0.00 0.00 0.00 1.40
524 539 7.609760 ATCATTAGATGCGTTGTGACTTAAA 57.390 32.000 0.00 0.00 31.91 1.52
525 540 8.710835 TTATCATTAGATGCGTTGTGACTTAA 57.289 30.769 0.00 0.00 35.67 1.85
526 541 8.764287 CATTATCATTAGATGCGTTGTGACTTA 58.236 33.333 0.00 0.00 35.67 2.24
527 542 7.495606 TCATTATCATTAGATGCGTTGTGACTT 59.504 33.333 0.00 0.00 35.67 3.01
528 543 6.986231 TCATTATCATTAGATGCGTTGTGACT 59.014 34.615 0.00 0.00 35.67 3.41
529 544 7.177498 TCATTATCATTAGATGCGTTGTGAC 57.823 36.000 0.00 0.00 35.67 3.67
530 545 7.967890 ATCATTATCATTAGATGCGTTGTGA 57.032 32.000 0.00 0.00 35.67 3.58
531 546 9.110617 GAAATCATTATCATTAGATGCGTTGTG 57.889 33.333 0.00 0.00 35.67 3.33
532 547 8.839343 TGAAATCATTATCATTAGATGCGTTGT 58.161 29.630 0.00 0.00 35.67 3.32
533 548 9.110617 GTGAAATCATTATCATTAGATGCGTTG 57.889 33.333 0.00 0.00 35.67 4.10
534 549 8.839343 TGTGAAATCATTATCATTAGATGCGTT 58.161 29.630 0.00 0.00 35.67 4.84
535 550 8.382030 TGTGAAATCATTATCATTAGATGCGT 57.618 30.769 0.00 0.00 35.67 5.24
536 551 9.836076 AATGTGAAATCATTATCATTAGATGCG 57.164 29.630 0.00 0.00 36.44 4.73
613 628 9.722056 GTTCGCATATAAGATTTGTCTGAAATT 57.278 29.630 0.00 0.00 0.00 1.82
614 629 9.113838 AGTTCGCATATAAGATTTGTCTGAAAT 57.886 29.630 0.00 0.00 0.00 2.17
615 630 8.492673 AGTTCGCATATAAGATTTGTCTGAAA 57.507 30.769 0.00 0.00 0.00 2.69
616 631 9.249457 CTAGTTCGCATATAAGATTTGTCTGAA 57.751 33.333 0.00 0.00 0.00 3.02
617 632 8.414003 ACTAGTTCGCATATAAGATTTGTCTGA 58.586 33.333 0.00 0.00 0.00 3.27
618 633 8.581057 ACTAGTTCGCATATAAGATTTGTCTG 57.419 34.615 0.00 0.00 0.00 3.51
649 664 8.854117 CCCCATTAAAGAATACTACTACGTACT 58.146 37.037 0.00 0.00 0.00 2.73
650 665 8.084684 CCCCCATTAAAGAATACTACTACGTAC 58.915 40.741 0.00 0.00 0.00 3.67
651 666 7.784550 ACCCCCATTAAAGAATACTACTACGTA 59.215 37.037 0.00 0.00 0.00 3.57
652 667 6.612863 ACCCCCATTAAAGAATACTACTACGT 59.387 38.462 0.00 0.00 0.00 3.57
653 668 7.059202 ACCCCCATTAAAGAATACTACTACG 57.941 40.000 0.00 0.00 0.00 3.51
654 669 9.770097 GTTACCCCCATTAAAGAATACTACTAC 57.230 37.037 0.00 0.00 0.00 2.73
655 670 9.504705 TGTTACCCCCATTAAAGAATACTACTA 57.495 33.333 0.00 0.00 0.00 1.82
656 671 8.396619 TGTTACCCCCATTAAAGAATACTACT 57.603 34.615 0.00 0.00 0.00 2.57
657 672 9.636789 ATTGTTACCCCCATTAAAGAATACTAC 57.363 33.333 0.00 0.00 0.00 2.73
658 673 9.635404 CATTGTTACCCCCATTAAAGAATACTA 57.365 33.333 0.00 0.00 0.00 1.82
659 674 8.340757 TCATTGTTACCCCCATTAAAGAATACT 58.659 33.333 0.00 0.00 0.00 2.12
672 687 3.684697 GCTCCTACTTCATTGTTACCCCC 60.685 52.174 0.00 0.00 0.00 5.40
694 709 5.837437 AGCTTCTCGTTGGATTATAGACTG 58.163 41.667 0.00 0.00 0.00 3.51
702 717 3.685139 TGAAGAGCTTCTCGTTGGATT 57.315 42.857 11.16 0.00 40.14 3.01
709 724 1.659601 CAGCACATGAAGAGCTTCTCG 59.340 52.381 11.16 5.19 41.66 4.04
723 738 0.599991 AACTGAATCGACGCAGCACA 60.600 50.000 14.36 0.00 35.57 4.57
731 746 7.272515 TGTTTGAAAAGTGAAAACTGAATCGAC 59.727 33.333 0.00 0.00 35.35 4.20
747 762 6.038356 GGATAGGATGCATGTGTTTGAAAAG 58.962 40.000 2.46 0.00 0.00 2.27
748 763 5.716228 AGGATAGGATGCATGTGTTTGAAAA 59.284 36.000 2.46 0.00 0.00 2.29
749 764 5.263599 AGGATAGGATGCATGTGTTTGAAA 58.736 37.500 2.46 0.00 0.00 2.69
750 765 4.858850 AGGATAGGATGCATGTGTTTGAA 58.141 39.130 2.46 0.00 0.00 2.69
751 766 4.508551 AGGATAGGATGCATGTGTTTGA 57.491 40.909 2.46 0.00 0.00 2.69
778 815 0.374758 CTGCCGATTCATCAACGGTG 59.625 55.000 0.00 0.00 46.95 4.94
779 816 0.249120 TCTGCCGATTCATCAACGGT 59.751 50.000 0.00 0.00 46.95 4.83
781 818 2.270923 TCTTCTGCCGATTCATCAACG 58.729 47.619 0.00 0.00 0.00 4.10
782 819 4.260948 GGATTCTTCTGCCGATTCATCAAC 60.261 45.833 0.00 0.00 0.00 3.18
783 820 3.879295 GGATTCTTCTGCCGATTCATCAA 59.121 43.478 0.00 0.00 0.00 2.57
835 1916 1.140375 GCGAGTACCTACCCGTTGG 59.860 63.158 0.00 0.00 37.80 3.77
878 1966 3.909285 GCCGCCGGTAGGTAGGTC 61.909 72.222 17.36 0.00 38.87 3.85
1230 2329 0.179205 GTGACGGACGTACGAGGAAG 60.179 60.000 30.05 10.46 37.61 3.46
1243 2353 0.972983 AGGGAGATGGACAGTGACGG 60.973 60.000 0.00 0.00 0.00 4.79
1250 2360 0.909610 GTGGGTGAGGGAGATGGACA 60.910 60.000 0.00 0.00 0.00 4.02
1251 2361 0.909610 TGTGGGTGAGGGAGATGGAC 60.910 60.000 0.00 0.00 0.00 4.02
1261 2378 1.691196 ATGGTGTTTGTGTGGGTGAG 58.309 50.000 0.00 0.00 0.00 3.51
1262 2379 1.753649 CAATGGTGTTTGTGTGGGTGA 59.246 47.619 0.00 0.00 0.00 4.02
1264 2381 0.463620 GCAATGGTGTTTGTGTGGGT 59.536 50.000 0.00 0.00 0.00 4.51
1266 2383 1.408340 TCAGCAATGGTGTTTGTGTGG 59.592 47.619 12.41 0.00 32.43 4.17
1576 2748 2.852075 AGGAACTTGGCGGTGGGA 60.852 61.111 0.00 0.00 27.25 4.37
1997 3179 5.528690 TGTCAGCCATATAAGTTCAGAATGC 59.471 40.000 0.00 0.00 34.76 3.56
2020 5082 6.202379 CACAAATGTACAGATGGATAGCTCTG 59.798 42.308 13.43 0.00 43.62 3.35
2021 5083 6.286758 CACAAATGTACAGATGGATAGCTCT 58.713 40.000 13.43 0.00 0.00 4.09
2027 5089 4.240881 AGCCACAAATGTACAGATGGAT 57.759 40.909 17.27 10.71 0.00 3.41
2357 5575 1.190643 GTGTGAGAGGAAGGGGAGAG 58.809 60.000 0.00 0.00 0.00 3.20
2405 5659 3.262915 CCTGAATGAGAGGAAGGTTGAGT 59.737 47.826 0.00 0.00 31.48 3.41
2464 5768 1.826385 AGCAGCCAAGGTTGATGTAC 58.174 50.000 7.16 0.00 0.00 2.90
2506 5810 0.889638 TGTAGCCGAGGAGATAGCCG 60.890 60.000 0.00 0.00 0.00 5.52
2603 6030 5.751509 TCGAAGAATCATACCACAAATACCG 59.248 40.000 0.00 0.00 0.00 4.02
2638 6069 1.460359 GCCAACGCCACAAAATTCATG 59.540 47.619 0.00 0.00 0.00 3.07
2702 6134 6.815641 TGAAGATTAAGATCAGTGTCTGAAGC 59.184 38.462 3.58 0.00 44.04 3.86
2946 7290 7.875041 AGTTTTATTGATCGATGGTGATCTAGG 59.125 37.037 0.54 0.00 44.12 3.02
2959 7303 4.035675 GGGGAAGCAGAGTTTTATTGATCG 59.964 45.833 0.00 0.00 0.00 3.69
2963 7307 3.343617 TCGGGGAAGCAGAGTTTTATTG 58.656 45.455 0.00 0.00 0.00 1.90
2976 7320 3.855858 CTTCTCTCTTTCTTCGGGGAAG 58.144 50.000 0.00 0.00 40.65 3.46
3021 7366 8.800031 GCTAGAGAACTTCTAACTTTTACATCG 58.200 37.037 0.00 0.00 37.93 3.84
3031 7376 6.976636 AAATGCTGCTAGAGAACTTCTAAC 57.023 37.500 0.00 0.00 37.93 2.34
3041 7386 5.587844 ACCATCTTACAAAATGCTGCTAGAG 59.412 40.000 0.00 0.00 0.00 2.43
3042 7387 5.500234 ACCATCTTACAAAATGCTGCTAGA 58.500 37.500 0.00 0.00 0.00 2.43
3043 7388 5.355071 TGACCATCTTACAAAATGCTGCTAG 59.645 40.000 0.00 0.00 0.00 3.42
3045 7390 4.081406 TGACCATCTTACAAAATGCTGCT 58.919 39.130 0.00 0.00 0.00 4.24
3046 7391 4.439305 TGACCATCTTACAAAATGCTGC 57.561 40.909 0.00 0.00 0.00 5.25
3049 7394 9.241317 CATAAGAATGACCATCTTACAAAATGC 57.759 33.333 0.00 0.00 40.97 3.56
3050 7395 9.241317 GCATAAGAATGACCATCTTACAAAATG 57.759 33.333 0.00 0.00 40.97 2.32
3051 7396 8.416329 GGCATAAGAATGACCATCTTACAAAAT 58.584 33.333 0.00 0.00 40.97 1.82
3052 7397 7.395772 TGGCATAAGAATGACCATCTTACAAAA 59.604 33.333 0.00 0.00 40.97 2.44
3109 7454 7.874528 AGCATGGTCTAAGAAAATTTGGAAAAG 59.125 33.333 0.00 0.00 0.00 2.27
3146 7491 3.420839 ACACAACTAAAGCACACAAGC 57.579 42.857 0.00 0.00 0.00 4.01
3147 7492 5.984233 TCTACACAACTAAAGCACACAAG 57.016 39.130 0.00 0.00 0.00 3.16
3148 7493 5.878116 AGTTCTACACAACTAAAGCACACAA 59.122 36.000 0.00 0.00 34.70 3.33
3217 7562 0.032540 AAGGAAAAAGCTTGCTGCCG 59.967 50.000 0.00 0.00 44.23 5.69
3245 7591 8.991783 AGATTCCATGAAATGTCTGTTATGAT 57.008 30.769 0.00 0.00 44.81 2.45
3248 7594 8.492782 AGAGAGATTCCATGAAATGTCTGTTAT 58.507 33.333 9.13 0.00 44.81 1.89
3251 7597 6.310764 AGAGAGATTCCATGAAATGTCTGT 57.689 37.500 9.13 2.25 44.81 3.41
3252 7598 7.499292 AGTAGAGAGATTCCATGAAATGTCTG 58.501 38.462 9.13 0.00 44.81 3.51
3253 7599 7.344093 TGAGTAGAGAGATTCCATGAAATGTCT 59.656 37.037 3.87 3.87 44.81 3.41
3254 7600 7.495901 TGAGTAGAGAGATTCCATGAAATGTC 58.504 38.462 0.00 0.00 44.81 3.06
3255 7601 7.429374 TGAGTAGAGAGATTCCATGAAATGT 57.571 36.000 0.00 0.00 44.81 2.71
3277 7633 2.879756 GCTAATTGTCCCAGGTTGCTGA 60.880 50.000 0.00 0.00 0.00 4.26
3286 7642 1.614051 CCAGTGCTGCTAATTGTCCCA 60.614 52.381 0.00 0.00 0.00 4.37
3339 7696 3.979948 TGTTGTGGCAAGATCAATTGTG 58.020 40.909 5.13 0.00 32.56 3.33
3340 7697 3.890756 TCTGTTGTGGCAAGATCAATTGT 59.109 39.130 5.13 0.00 32.56 2.71
3343 7700 4.084287 ACATCTGTTGTGGCAAGATCAAT 58.916 39.130 0.00 0.00 37.11 2.57
3345 7702 3.144657 ACATCTGTTGTGGCAAGATCA 57.855 42.857 0.00 0.00 37.11 2.92
3346 7703 3.755378 AGAACATCTGTTGTGGCAAGATC 59.245 43.478 0.00 0.00 38.99 2.75
3359 7716 7.017645 CCTTTCGTTACATTTCAGAACATCTG 58.982 38.462 0.88 0.88 45.59 2.90
3364 7721 4.148891 CGCCTTTCGTTACATTTCAGAAC 58.851 43.478 0.00 0.00 0.00 3.01
3416 7773 7.201750 GGAAATATGGCGAGTATTTGGTTTGTA 60.202 37.037 6.96 0.00 33.23 2.41
3420 7777 5.445964 AGGAAATATGGCGAGTATTTGGTT 58.554 37.500 6.96 0.00 33.23 3.67
3449 7808 6.438425 GGGGTAATTATGTCGAGTATTCCCTA 59.562 42.308 0.00 0.00 0.00 3.53
3465 7824 4.116113 ACCATCAACAGAGGGGGTAATTA 58.884 43.478 1.07 0.00 37.53 1.40
3583 7942 1.090728 GCTAAAGGCCTCTTCAGTGC 58.909 55.000 5.23 0.00 34.27 4.40
3592 7951 4.443621 GAGTAAAGATTCGCTAAAGGCCT 58.556 43.478 0.00 0.00 37.74 5.19
3593 7952 3.245519 CGAGTAAAGATTCGCTAAAGGCC 59.754 47.826 0.00 0.00 37.74 5.19
3603 7969 4.451096 TCTGTTGTTGGCGAGTAAAGATTC 59.549 41.667 0.00 0.00 0.00 2.52
3615 7981 0.467290 TCCCTGGTTCTGTTGTTGGC 60.467 55.000 0.00 0.00 0.00 4.52
3681 8108 6.427974 CAACATGAATGTGATATCTCAGCAC 58.572 40.000 12.61 7.39 44.07 4.40
3702 8129 4.345547 TGGGGTTATTTTCAAACTCCCAAC 59.654 41.667 10.76 0.00 45.42 3.77
3713 8140 3.859411 TGCGATGTTGGGGTTATTTTC 57.141 42.857 0.00 0.00 0.00 2.29
3720 8147 0.916086 TAGGATTGCGATGTTGGGGT 59.084 50.000 0.00 0.00 0.00 4.95
3752 8179 6.319658 AGGAATTTAACATGATTCTGCATCGT 59.680 34.615 0.00 0.00 34.08 3.73
3775 8202 5.443185 AATCATGTTTCGCATAATGGAGG 57.557 39.130 0.00 0.00 35.74 4.30
3824 8251 2.027073 GTGATTCAGCCGTGCGACA 61.027 57.895 0.00 0.00 0.00 4.35
3846 8273 0.953727 TGTTGACTGCTGAATGTGGC 59.046 50.000 0.00 0.00 0.00 5.01
3863 8290 0.764890 TAGGCTTCCAGTGCTGTTGT 59.235 50.000 0.00 0.00 0.00 3.32
3873 8300 2.921834 ACTCTGGTAGTAGGCTTCCA 57.078 50.000 0.00 0.00 39.42 3.53


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

AutoCloner maintained by Alex Coulton.