Multiple sequence alignment - TraesCS5A01G381800

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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 TraesCS5A01G381800 chr5A 100.000 7048 0 0 1 7048 579434831 579441878 0.000000e+00 13016.0
1 TraesCS5A01G381800 chr5A 82.197 865 93 31 3312 4139 579848615 579849455 0.000000e+00 688.0
2 TraesCS5A01G381800 chr5A 84.097 742 77 21 4954 5690 579902564 579901859 0.000000e+00 678.0
3 TraesCS5A01G381800 chr5A 84.340 530 48 18 5168 5690 579861300 579860799 2.960000e-133 486.0
4 TraesCS5A01G381800 chr5A 83.239 531 53 20 5168 5690 580192351 580191849 8.330000e-124 455.0
5 TraesCS5A01G381800 chr5A 83.193 476 68 7 4481 4953 579903091 579902625 6.530000e-115 425.0
6 TraesCS5A01G381800 chr5A 83.406 458 64 6 3965 4421 579153036 579152590 1.410000e-111 414.0
7 TraesCS5A01G381800 chr5A 81.262 523 59 19 3312 3817 579855149 579854649 3.080000e-103 387.0
8 TraesCS5A01G381800 chr5A 87.278 338 34 8 3811 4144 579868151 579867819 1.860000e-100 377.0
9 TraesCS5A01G381800 chr5A 88.552 297 28 5 2933 3228 579841730 579842021 8.700000e-94 355.0
10 TraesCS5A01G381800 chr5A 85.417 336 43 4 3811 4144 579917442 579917111 1.880000e-90 344.0
11 TraesCS5A01G381800 chr5A 87.137 241 31 0 5810 6050 579151405 579151165 2.500000e-69 274.0
12 TraesCS5A01G381800 chr5A 87.671 219 19 4 5769 5987 580191818 580191608 1.520000e-61 248.0
13 TraesCS5A01G381800 chr5A 82.117 274 38 6 6352 6617 579168153 579168423 2.560000e-54 224.0
14 TraesCS5A01G381800 chr5A 87.356 174 19 2 2947 3120 579855480 579855310 5.580000e-46 196.0
15 TraesCS5A01G381800 chr5A 85.057 174 23 2 2947 3120 579869396 579869226 2.610000e-39 174.0
16 TraesCS5A01G381800 chr5A 88.889 90 8 2 2868 2955 579855988 579855899 7.470000e-20 110.0
17 TraesCS5A01G381800 chr5A 88.889 90 8 2 2868 2955 579869904 579869815 7.470000e-20 110.0
18 TraesCS5A01G381800 chr5A 86.517 89 7 3 2868 2955 579847697 579847781 7.530000e-15 93.5
19 TraesCS5A01G381800 chr5D 95.280 4492 124 17 2258 6696 459866596 459862140 0.000000e+00 7040.0
20 TraesCS5A01G381800 chr5D 89.564 2204 129 35 121 2259 459868827 459866660 0.000000e+00 2702.0
21 TraesCS5A01G381800 chr5D 85.655 725 65 22 4639 5356 459735824 459735132 0.000000e+00 726.0
22 TraesCS5A01G381800 chr5D 82.503 863 84 35 3313 4139 459765106 459764275 0.000000e+00 695.0
23 TraesCS5A01G381800 chr5D 82.407 864 84 35 3312 4139 459760645 459759814 0.000000e+00 691.0
24 TraesCS5A01G381800 chr5D 84.218 754 66 28 3420 4139 459752422 459751688 0.000000e+00 684.0
25 TraesCS5A01G381800 chr5D 84.194 620 86 8 4044 4657 459731851 459731238 6.090000e-165 592.0
26 TraesCS5A01G381800 chr5D 82.330 515 71 12 4453 4958 459574405 459573902 5.050000e-116 429.0
27 TraesCS5A01G381800 chr5D 88.757 338 34 3 4234 4570 459736802 459736468 1.830000e-110 411.0
28 TraesCS5A01G381800 chr5D 83.753 437 55 11 4522 4953 459750315 459749890 3.960000e-107 399.0
29 TraesCS5A01G381800 chr5D 84.833 389 39 11 2577 2958 459737785 459737410 2.400000e-99 374.0
30 TraesCS5A01G381800 chr5D 89.933 298 18 5 6762 7047 459839590 459839293 2.400000e-99 374.0
31 TraesCS5A01G381800 chr5D 88.552 297 32 2 2933 3228 459765544 459765249 6.720000e-95 359.0
32 TraesCS5A01G381800 chr5D 89.324 281 28 2 2933 3212 459765861 459765582 1.120000e-92 351.0
33 TraesCS5A01G381800 chr5D 81.941 371 46 8 2490 2840 459689409 459689040 1.920000e-75 294.0
34 TraesCS5A01G381800 chr5D 84.277 159 23 2 998 1155 459579676 459579519 3.400000e-33 154.0
35 TraesCS5A01G381800 chr5D 100.000 77 0 0 6682 6758 459839794 459839718 7.370000e-30 143.0
36 TraesCS5A01G381800 chr5B 95.486 1994 47 12 4574 6540 564990023 564988046 0.000000e+00 3144.0
37 TraesCS5A01G381800 chr5B 96.357 1153 40 1 3487 4639 564991192 564990042 0.000000e+00 1895.0
38 TraesCS5A01G381800 chr5B 94.525 1169 41 12 2264 3424 564992353 564991200 0.000000e+00 1783.0
39 TraesCS5A01G381800 chr5B 87.692 1170 96 21 37 1172 564994750 564993595 0.000000e+00 1319.0
40 TraesCS5A01G381800 chr5B 82.126 1477 184 38 3965 5424 563663554 563662141 0.000000e+00 1192.0
41 TraesCS5A01G381800 chr5B 89.279 998 36 29 1287 2259 564993354 564992403 0.000000e+00 1184.0
42 TraesCS5A01G381800 chr5B 83.166 1194 148 26 3965 5141 563695464 563694307 0.000000e+00 1042.0
43 TraesCS5A01G381800 chr5B 84.926 743 70 22 4954 5690 564526496 564525790 0.000000e+00 713.0
44 TraesCS5A01G381800 chr5B 84.345 741 74 22 4956 5690 564464584 564463880 0.000000e+00 688.0
45 TraesCS5A01G381800 chr5B 83.967 736 72 23 4962 5690 564193997 564193301 0.000000e+00 664.0
46 TraesCS5A01G381800 chr5B 83.715 743 74 25 4956 5690 564233576 564232873 0.000000e+00 658.0
47 TraesCS5A01G381800 chr5B 84.962 665 67 15 3492 4139 564479689 564479041 1.660000e-180 643.0
48 TraesCS5A01G381800 chr5B 81.308 642 85 30 2239 2866 563696213 563695593 8.220000e-134 488.0
49 TraesCS5A01G381800 chr5B 84.466 515 54 10 3641 4139 564446226 564445722 1.060000e-132 484.0
50 TraesCS5A01G381800 chr5B 83.242 549 70 11 4409 4953 564527086 564526556 1.060000e-132 484.0
51 TraesCS5A01G381800 chr5B 81.532 509 55 22 3312 3801 564530143 564529655 3.990000e-102 383.0
52 TraesCS5A01G381800 chr5B 88.552 297 32 2 2933 3228 564486237 564485942 6.720000e-95 359.0
53 TraesCS5A01G381800 chr5B 85.841 339 38 2 3811 4147 564529285 564528955 1.120000e-92 351.0
54 TraesCS5A01G381800 chr5B 87.375 301 22 10 6761 7048 564969537 564969240 1.470000e-86 331.0
55 TraesCS5A01G381800 chr5B 87.900 281 32 2 2933 3212 564486553 564486274 5.270000e-86 329.0
56 TraesCS5A01G381800 chr5B 81.912 387 50 15 2495 2864 564197655 564197272 6.870000e-80 309.0
57 TraesCS5A01G381800 chr5B 78.125 512 74 36 5793 6281 563661839 563661343 2.490000e-74 291.0
58 TraesCS5A01G381800 chr5B 86.486 259 33 2 5793 6050 563693680 563693423 4.160000e-72 283.0
59 TraesCS5A01G381800 chr5B 80.519 385 59 13 2495 2864 564237688 564237305 1.500000e-71 281.0
60 TraesCS5A01G381800 chr5B 95.031 161 8 0 6536 6696 564986628 564986468 3.260000e-63 254.0
61 TraesCS5A01G381800 chr5B 81.387 274 38 7 6355 6618 564515230 564514960 1.990000e-50 211.0
62 TraesCS5A01G381800 chr5B 98.667 75 0 1 6688 6762 564969734 564969661 1.600000e-26 132.0
63 TraesCS5A01G381800 chrUn 80.516 1704 219 51 3952 5629 68137649 68139265 0.000000e+00 1203.0
64 TraesCS5A01G381800 chrUn 80.407 1720 222 53 3960 5651 315403853 315402221 0.000000e+00 1203.0
65 TraesCS5A01G381800 chrUn 84.916 358 42 6 2500 2846 68137152 68137508 1.120000e-92 351.0
66 TraesCS5A01G381800 chrUn 83.947 380 47 8 2500 2866 315404361 315403983 1.120000e-92 351.0
67 TraesCS5A01G381800 chrUn 77.341 534 82 32 5772 6281 68139351 68139869 5.380000e-71 279.0
68 TraesCS5A01G381800 chrUn 77.341 534 82 31 5772 6281 315402161 315401643 5.380000e-71 279.0
69 TraesCS5A01G381800 chrUn 77.341 534 82 32 5772 6281 326011495 326012013 5.380000e-71 279.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G381800 chr5A 579434831 579441878 7047 False 13016.000000 13016 100.000000 1 7048 1 chr5A.!!$F2 7047
1 TraesCS5A01G381800 chr5A 579901859 579903091 1232 True 551.500000 678 83.645000 4481 5690 2 chr5A.!!$R6 1209
2 TraesCS5A01G381800 chr5A 579860799 579861300 501 True 486.000000 486 84.340000 5168 5690 1 chr5A.!!$R1 522
3 TraesCS5A01G381800 chr5A 579847697 579849455 1758 False 390.750000 688 84.357000 2868 4139 2 chr5A.!!$F4 1271
4 TraesCS5A01G381800 chr5A 580191608 580192351 743 True 351.500000 455 85.455000 5168 5987 2 chr5A.!!$R7 819
5 TraesCS5A01G381800 chr5A 579151165 579153036 1871 True 344.000000 414 85.271500 3965 6050 2 chr5A.!!$R3 2085
6 TraesCS5A01G381800 chr5A 579854649 579855988 1339 True 231.000000 387 85.835667 2868 3817 3 chr5A.!!$R4 949
7 TraesCS5A01G381800 chr5A 579867819 579869904 2085 True 220.333333 377 87.074667 2868 4144 3 chr5A.!!$R5 1276
8 TraesCS5A01G381800 chr5D 459862140 459868827 6687 True 4871.000000 7040 92.422000 121 6696 2 chr5D.!!$R8 6575
9 TraesCS5A01G381800 chr5D 459749890 459752422 2532 True 541.500000 684 83.985500 3420 4953 2 chr5D.!!$R5 1533
10 TraesCS5A01G381800 chr5D 459731238 459737785 6547 True 525.750000 726 85.859750 2577 5356 4 chr5D.!!$R4 2779
11 TraesCS5A01G381800 chr5D 459759814 459765861 6047 True 524.000000 695 85.696500 2933 4139 4 chr5D.!!$R6 1206
12 TraesCS5A01G381800 chr5D 459573902 459574405 503 True 429.000000 429 82.330000 4453 4958 1 chr5D.!!$R1 505
13 TraesCS5A01G381800 chr5D 459839293 459839794 501 True 258.500000 374 94.966500 6682 7047 2 chr5D.!!$R7 365
14 TraesCS5A01G381800 chr5B 564986468 564994750 8282 True 1596.500000 3144 93.061667 37 6696 6 chr5B.!!$R12 6659
15 TraesCS5A01G381800 chr5B 563661343 563663554 2211 True 741.500000 1192 80.125500 3965 6281 2 chr5B.!!$R5 2316
16 TraesCS5A01G381800 chr5B 564463880 564464584 704 True 688.000000 688 84.345000 4956 5690 1 chr5B.!!$R2 734
17 TraesCS5A01G381800 chr5B 564479041 564479689 648 True 643.000000 643 84.962000 3492 4139 1 chr5B.!!$R3 647
18 TraesCS5A01G381800 chr5B 563693423 563696213 2790 True 604.333333 1042 83.653333 2239 6050 3 chr5B.!!$R6 3811
19 TraesCS5A01G381800 chr5B 564193301 564197655 4354 True 486.500000 664 82.939500 2495 5690 2 chr5B.!!$R7 3195
20 TraesCS5A01G381800 chr5B 564445722 564446226 504 True 484.000000 484 84.466000 3641 4139 1 chr5B.!!$R1 498
21 TraesCS5A01G381800 chr5B 564525790 564530143 4353 True 482.750000 713 83.885250 3312 5690 4 chr5B.!!$R10 2378
22 TraesCS5A01G381800 chr5B 564232873 564237688 4815 True 469.500000 658 82.117000 2495 5690 2 chr5B.!!$R8 3195
23 TraesCS5A01G381800 chr5B 564485942 564486553 611 True 344.000000 359 88.226000 2933 3228 2 chr5B.!!$R9 295
24 TraesCS5A01G381800 chrUn 68137152 68139869 2717 False 611.000000 1203 80.924333 2500 6281 3 chrUn.!!$F2 3781
25 TraesCS5A01G381800 chrUn 315401643 315404361 2718 True 611.000000 1203 80.565000 2500 6281 3 chrUn.!!$R1 3781
26 TraesCS5A01G381800 chrUn 326011495 326012013 518 False 279.000000 279 77.341000 5772 6281 1 chrUn.!!$F1 509

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
559 586 0.322187 AATTCGCCACCTACCCACAC 60.322 55.000 0.00 0.0 0.00 3.82 F
1174 1215 1.065928 CGCCGCCTCTACGATTTCT 59.934 57.895 0.00 0.0 34.06 2.52 F
1551 1724 0.460987 GGGTCTGCTTCGTCATCCTG 60.461 60.000 0.00 0.0 0.00 3.86 F
2319 2594 1.070577 GTATAGCCGCGCTTCACATTG 60.071 52.381 5.56 0.0 40.44 2.82 F
2383 2659 2.569059 GCTGCACCACATGATGTAGAT 58.431 47.619 14.83 0.0 30.82 1.98 F
2904 3211 2.903784 TGAGCCTTAAGAAGTGGTGCTA 59.096 45.455 3.36 0.0 0.00 3.49 F
4240 11604 2.091885 ACCCCAAAGATGTCAACACAGT 60.092 45.455 0.00 0.0 35.41 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1520 1693 1.079543 CAGACCCAGCTCCAACGAG 60.080 63.158 0.00 0.00 39.33 4.18 R
2383 2659 1.126488 GAGTGATCATCCTCCTGGCA 58.874 55.000 0.00 0.00 0.00 4.92 R
2852 3159 3.160777 ACGCTATGCAGGTGTACTTAC 57.839 47.619 6.84 0.00 0.00 2.34 R
3690 9054 1.226746 AGTGCACTTTTCTGCGGTAC 58.773 50.000 15.25 0.00 40.31 3.34 R
4240 11604 1.907255 TCTCCGTCCTGTCAGAGTAGA 59.093 52.381 0.00 0.00 0.00 2.59 R
4621 13345 3.808728 TGTGACTTTCCTTGAGACAAGG 58.191 45.455 20.43 20.43 38.78 3.61 R
6198 20623 3.887716 TCTACGGGTATGCTAACCTCTTC 59.112 47.826 7.80 0.00 39.65 2.87 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
33 34 8.673626 ATCATTCAAAATATGTTCACACGTTC 57.326 30.769 0.00 0.00 0.00 3.95
34 35 7.643579 TCATTCAAAATATGTTCACACGTTCA 58.356 30.769 0.00 0.00 0.00 3.18
37 38 7.252965 TCAAAATATGTTCACACGTTCAGAA 57.747 32.000 0.00 0.00 0.00 3.02
38 39 7.698628 TCAAAATATGTTCACACGTTCAGAAA 58.301 30.769 0.00 0.00 0.00 2.52
40 41 9.605955 CAAAATATGTTCACACGTTCAGAAATA 57.394 29.630 0.00 0.00 0.00 1.40
42 43 9.773328 AAATATGTTCACACGTTCAGAAATATG 57.227 29.630 0.00 0.00 0.00 1.78
155 160 5.976534 TCACGGATTTCAAAAACATGTTCAG 59.023 36.000 12.39 5.10 0.00 3.02
158 163 5.982516 CGGATTTCAAAAACATGTTCAGGAA 59.017 36.000 12.39 12.25 0.00 3.36
161 166 9.487790 GGATTTCAAAAACATGTTCAGGAAATA 57.512 29.630 26.85 13.78 34.81 1.40
266 289 6.374613 AGAATCTTCCCAAAACCGTCTTAATC 59.625 38.462 0.00 0.00 0.00 1.75
289 312 3.440415 GCCCACTAAAGCCACCGC 61.440 66.667 0.00 0.00 0.00 5.68
339 363 4.309933 CCAAGCTACATCTCGCAATATGA 58.690 43.478 0.00 0.00 0.00 2.15
407 431 1.940613 ACCAAACGAACTGCAGAACTC 59.059 47.619 23.35 12.50 0.00 3.01
416 440 0.951040 CTGCAGAACTCGGTCCCAAC 60.951 60.000 8.42 0.00 0.00 3.77
435 459 2.427410 GCGGCGTTTCAGCTTGTG 60.427 61.111 9.37 0.00 37.29 3.33
450 474 2.616510 GCTTGTGCAGACTTCATAGGGT 60.617 50.000 0.00 0.00 39.41 4.34
454 478 2.234908 GTGCAGACTTCATAGGGTGACT 59.765 50.000 0.00 0.00 36.32 3.41
496 520 1.999071 GCCGAGCAACCAAACACACA 61.999 55.000 0.00 0.00 0.00 3.72
498 522 0.449786 CGAGCAACCAAACACACACA 59.550 50.000 0.00 0.00 0.00 3.72
503 527 2.411409 GCAACCAAACACACACAACAAG 59.589 45.455 0.00 0.00 0.00 3.16
506 530 5.223382 CAACCAAACACACACAACAAGTTA 58.777 37.500 0.00 0.00 0.00 2.24
507 531 4.800784 ACCAAACACACACAACAAGTTAC 58.199 39.130 0.00 0.00 0.00 2.50
517 541 5.768164 CACACAACAAGTTACCCCTCTTTAT 59.232 40.000 0.00 0.00 0.00 1.40
518 542 5.768164 ACACAACAAGTTACCCCTCTTTATG 59.232 40.000 0.00 0.00 0.00 1.90
519 543 5.183140 CACAACAAGTTACCCCTCTTTATGG 59.817 44.000 0.00 0.00 0.00 2.74
526 550 5.791141 AGTTACCCCTCTTTATGGTCTCTTT 59.209 40.000 0.00 0.00 33.55 2.52
527 551 4.576330 ACCCCTCTTTATGGTCTCTTTG 57.424 45.455 0.00 0.00 0.00 2.77
528 552 3.282885 CCCCTCTTTATGGTCTCTTTGC 58.717 50.000 0.00 0.00 0.00 3.68
529 553 3.054065 CCCCTCTTTATGGTCTCTTTGCT 60.054 47.826 0.00 0.00 0.00 3.91
530 554 4.568592 CCCCTCTTTATGGTCTCTTTGCTT 60.569 45.833 0.00 0.00 0.00 3.91
532 556 5.105997 CCCTCTTTATGGTCTCTTTGCTTTG 60.106 44.000 0.00 0.00 0.00 2.77
534 558 6.655003 CCTCTTTATGGTCTCTTTGCTTTGTA 59.345 38.462 0.00 0.00 0.00 2.41
535 559 7.361286 CCTCTTTATGGTCTCTTTGCTTTGTAC 60.361 40.741 0.00 0.00 0.00 2.90
539 563 4.776349 TGGTCTCTTTGCTTTGTACAAGA 58.224 39.130 8.56 0.43 0.00 3.02
559 586 0.322187 AATTCGCCACCTACCCACAC 60.322 55.000 0.00 0.00 0.00 3.82
561 588 2.358247 CGCCACCTACCCACACAC 60.358 66.667 0.00 0.00 0.00 3.82
565 592 2.024825 GCCACCTACCCACACACAAAA 61.025 52.381 0.00 0.00 0.00 2.44
632 659 3.626028 CTGGTTCGGAACAGGAAAAAG 57.374 47.619 21.36 4.51 0.00 2.27
753 784 1.467920 CCTCTGCCACTCCAATTTCC 58.532 55.000 0.00 0.00 0.00 3.13
765 796 7.095187 GCCACTCCAATTTCCTCTATTTATACG 60.095 40.741 0.00 0.00 0.00 3.06
914 949 1.341531 CCGCGTATTCCTGATTCTCCT 59.658 52.381 4.92 0.00 0.00 3.69
950 985 1.140804 GCTCTTCTGACGAGGAGGC 59.859 63.158 12.40 0.00 42.04 4.70
957 992 4.176851 GACGAGGAGGCCGACGAC 62.177 72.222 17.32 9.73 34.07 4.34
968 1009 2.125229 CGACGACGAGGAGGAGGA 60.125 66.667 0.00 0.00 42.66 3.71
971 1012 2.272797 CGACGAGGAGGAGGAGGT 59.727 66.667 0.00 0.00 0.00 3.85
974 1015 3.151022 CGAGGAGGAGGAGGTGGC 61.151 72.222 0.00 0.00 0.00 5.01
975 1016 3.151022 GAGGAGGAGGAGGTGGCG 61.151 72.222 0.00 0.00 0.00 5.69
976 1017 3.663815 GAGGAGGAGGAGGTGGCGA 62.664 68.421 0.00 0.00 0.00 5.54
977 1018 2.683933 GGAGGAGGAGGTGGCGAA 60.684 66.667 0.00 0.00 0.00 4.70
1135 1176 3.383185 CCATACCTGTGAGTTCTCTCTCC 59.617 52.174 1.53 0.00 40.98 3.71
1136 1177 1.931635 ACCTGTGAGTTCTCTCTCCC 58.068 55.000 1.53 0.00 40.98 4.30
1137 1178 1.431243 ACCTGTGAGTTCTCTCTCCCT 59.569 52.381 1.53 0.00 40.98 4.20
1138 1179 2.099405 CCTGTGAGTTCTCTCTCCCTC 58.901 57.143 1.53 0.00 40.98 4.30
1154 1195 1.529713 CTCTCTCTACCCCGCTCCC 60.530 68.421 0.00 0.00 0.00 4.30
1174 1215 1.065928 CGCCGCCTCTACGATTTCT 59.934 57.895 0.00 0.00 34.06 2.52
1204 1245 2.042435 CCGCCCTCCCTCTCTCTT 60.042 66.667 0.00 0.00 0.00 2.85
1366 1533 2.094757 CTGTCAGTGGTGGCGTGGTA 62.095 60.000 0.00 0.00 0.00 3.25
1461 1628 1.986575 GAGGCTTCTGATTGCGTGCC 61.987 60.000 0.00 0.00 40.54 5.01
1550 1723 0.904865 TGGGTCTGCTTCGTCATCCT 60.905 55.000 0.00 0.00 0.00 3.24
1551 1724 0.460987 GGGTCTGCTTCGTCATCCTG 60.461 60.000 0.00 0.00 0.00 3.86
1613 1786 1.183549 GGAGCTACTCCGGAGAAACA 58.816 55.000 37.69 17.42 41.08 2.83
1620 1793 1.284982 CTCCGGAGAAACACTGTGCG 61.285 60.000 28.21 2.00 0.00 5.34
1823 2019 3.515602 ACAGAGCAGAAGGGAAACAAT 57.484 42.857 0.00 0.00 0.00 2.71
1834 2030 7.375053 CAGAAGGGAAACAATAAAAATCCGAA 58.625 34.615 0.00 0.00 0.00 4.30
1835 2031 7.328493 CAGAAGGGAAACAATAAAAATCCGAAC 59.672 37.037 0.00 0.00 0.00 3.95
1836 2032 6.658188 AGGGAAACAATAAAAATCCGAACA 57.342 33.333 0.00 0.00 0.00 3.18
1837 2033 7.239763 AGGGAAACAATAAAAATCCGAACAT 57.760 32.000 0.00 0.00 0.00 2.71
1838 2034 7.676004 AGGGAAACAATAAAAATCCGAACATT 58.324 30.769 0.00 0.00 0.00 2.71
1839 2035 8.808092 AGGGAAACAATAAAAATCCGAACATTA 58.192 29.630 0.00 0.00 0.00 1.90
1840 2036 9.083080 GGGAAACAATAAAAATCCGAACATTAG 57.917 33.333 0.00 0.00 0.00 1.73
1841 2037 8.592155 GGAAACAATAAAAATCCGAACATTAGC 58.408 33.333 0.00 0.00 0.00 3.09
1842 2038 9.134734 GAAACAATAAAAATCCGAACATTAGCA 57.865 29.630 0.00 0.00 0.00 3.49
1843 2039 8.687824 AACAATAAAAATCCGAACATTAGCAG 57.312 30.769 0.00 0.00 0.00 4.24
1900 2097 4.708177 AGCAGAACTACTCTTGAAAAGCA 58.292 39.130 0.00 0.00 45.70 3.91
1963 2160 4.099573 ACATTAGCAGCCGTAGTATTCTGT 59.900 41.667 0.00 0.00 0.00 3.41
1970 2167 4.096532 CAGCCGTAGTATTCTGTTCTCTGA 59.903 45.833 0.00 0.00 0.00 3.27
1971 2168 4.705507 AGCCGTAGTATTCTGTTCTCTGAA 59.294 41.667 0.00 0.00 36.32 3.02
2022 2219 2.945080 ATATGCCATGCAGCTACAGT 57.055 45.000 0.00 0.00 43.65 3.55
2058 2255 1.266175 CACTGCTCCTCTTTGCACTTG 59.734 52.381 0.00 0.00 35.20 3.16
2319 2594 1.070577 GTATAGCCGCGCTTCACATTG 60.071 52.381 5.56 0.00 40.44 2.82
2383 2659 2.569059 GCTGCACCACATGATGTAGAT 58.431 47.619 14.83 0.00 30.82 1.98
2415 2691 9.638239 GAGGATGATCACTCTGATTATCTAAAC 57.362 37.037 13.64 1.99 44.51 2.01
2904 3211 2.903784 TGAGCCTTAAGAAGTGGTGCTA 59.096 45.455 3.36 0.00 0.00 3.49
2976 3717 4.803329 ATGAGCCATTTGGAGGTTCTAT 57.197 40.909 0.00 0.00 37.29 1.98
3274 4090 2.923035 ACCAGACCCCACAGTCCG 60.923 66.667 0.00 0.00 37.49 4.79
3533 4441 9.862585 GTTCAAATACATTTCCATTGTGTTTTC 57.137 29.630 0.00 0.00 36.61 2.29
3660 9024 9.516314 AGTAGAAAAGTGCACTTAACATTTTTC 57.484 29.630 31.31 25.76 46.08 2.29
3690 9054 8.794553 AGAATAAGAGTATATGTACGACCCTTG 58.205 37.037 0.00 0.00 35.92 3.61
3694 9058 5.767168 AGAGTATATGTACGACCCTTGTACC 59.233 44.000 0.00 0.00 41.13 3.34
3948 9798 4.778904 TGAAATACACACGCTTGCTAAAC 58.221 39.130 0.00 0.00 0.00 2.01
3958 9810 5.063438 ACACGCTTGCTAAACAGTGTATATG 59.937 40.000 0.00 0.00 40.48 1.78
4240 11604 2.091885 ACCCCAAAGATGTCAACACAGT 60.092 45.455 0.00 0.00 35.41 3.55
4336 11700 3.378427 GCCAAATAAATCTGAAGACCGCT 59.622 43.478 0.00 0.00 0.00 5.52
4621 13345 4.493220 CGAAGAAATCGCAGAATCCAAGTC 60.493 45.833 0.00 0.00 45.89 3.01
4768 13936 2.935201 CAGTAAGACCTCTTGCAGCATC 59.065 50.000 0.00 0.00 40.39 3.91
4770 13938 2.399916 AAGACCTCTTGCAGCATCTC 57.600 50.000 0.00 0.00 34.38 2.75
4771 13939 1.570803 AGACCTCTTGCAGCATCTCT 58.429 50.000 0.00 0.00 0.00 3.10
4773 13941 3.307506 AGACCTCTTGCAGCATCTCTAT 58.692 45.455 0.00 0.00 0.00 1.98
4774 13942 3.710677 AGACCTCTTGCAGCATCTCTATT 59.289 43.478 0.00 0.00 0.00 1.73
4775 13943 4.057432 GACCTCTTGCAGCATCTCTATTC 58.943 47.826 0.00 0.00 0.00 1.75
4776 13944 3.453717 ACCTCTTGCAGCATCTCTATTCA 59.546 43.478 0.00 0.00 0.00 2.57
4777 13945 4.080695 ACCTCTTGCAGCATCTCTATTCAA 60.081 41.667 0.00 0.00 0.00 2.69
4778 13946 5.064558 CCTCTTGCAGCATCTCTATTCAAT 58.935 41.667 0.00 0.00 0.00 2.57
4848 14022 7.621428 TCAAAATGAAAATTGTTTTGCAGGA 57.379 28.000 11.00 0.00 40.70 3.86
5164 14477 7.068103 ACAGTGGTCTTGTGAATTTTTATGACA 59.932 33.333 0.00 0.00 0.00 3.58
5173 14486 6.775142 TGTGAATTTTTATGACAGGTGGAGAA 59.225 34.615 0.00 0.00 0.00 2.87
5678 19032 3.343617 TCAAAGCTCCCAAAGAATACGG 58.656 45.455 0.00 0.00 0.00 4.02
5743 19098 0.319555 TCCTGTTAGTGAGTGTGCGC 60.320 55.000 0.00 0.00 0.00 6.09
5972 20096 0.178767 TTGTGATGGAGCTGCGCTAT 59.821 50.000 9.73 1.27 39.88 2.97
6198 20623 0.615850 AAGAGAGAAGGGGCGAAAGG 59.384 55.000 0.00 0.00 0.00 3.11
6304 21033 0.615850 CTCAGTTGTTCCTCTCCCCC 59.384 60.000 0.00 0.00 0.00 5.40
6326 21062 5.230182 CCCTCTTTCTTGTGGTAATTTTGC 58.770 41.667 0.00 0.00 0.00 3.68
6550 22711 2.831685 ATGTCTAAGCCGTTGACACA 57.168 45.000 4.77 0.00 42.43 3.72
6562 22723 4.675114 GCCGTTGACACATTTTAAGTCTTG 59.325 41.667 0.00 0.00 33.56 3.02
6569 22730 9.868277 TTGACACATTTTAAGTCTTGTTCAATT 57.132 25.926 0.00 0.00 33.56 2.32
6634 22795 6.726035 TTTTATTCAGAAAAGCGAACGTTG 57.274 33.333 5.00 0.00 0.00 4.10
6760 23679 5.039984 TGAATCAACAACAAAACATGACGG 58.960 37.500 0.00 0.00 0.00 4.79
6773 23816 2.293122 ACATGACGGTGGATGTTTGTTG 59.707 45.455 0.00 0.00 27.94 3.33
6785 23828 2.294074 TGTTTGTTGTCTAGGGCACAC 58.706 47.619 0.00 0.00 0.00 3.82
6798 23841 2.607892 GCACACGGAGAGGTTGCAC 61.608 63.158 0.00 0.00 0.00 4.57
6834 23877 2.029970 CGGCAATAGCAACGTTTATCGT 59.970 45.455 0.00 0.00 46.20 3.73
6846 23889 1.063469 GTTTATCGTTGATGGGGCACG 59.937 52.381 0.00 0.00 0.00 5.34
6882 23925 0.179156 CCAGTCGGCATCAAACATGC 60.179 55.000 0.00 0.00 43.85 4.06
6926 23969 1.219935 GGGTGTTAGGGTAGTGGCG 59.780 63.158 0.00 0.00 0.00 5.69
6928 23971 1.595357 GTGTTAGGGTAGTGGCGCT 59.405 57.895 7.64 5.62 35.74 5.92
6930 23973 0.036765 TGTTAGGGTAGTGGCGCTTG 60.037 55.000 5.61 0.00 33.59 4.01
6939 23982 3.965258 TGGCGCTTGGGTCATGGT 61.965 61.111 7.64 0.00 0.00 3.55
6950 24005 2.825387 TCATGGTGGATGCTGCGC 60.825 61.111 0.00 0.00 31.32 6.09
6979 24034 0.598562 ATGGTAGCGGCTAGATCACG 59.401 55.000 10.54 0.00 0.00 4.35
6995 24050 2.691522 CGCAACGACATGAGAGCG 59.308 61.111 0.00 10.69 39.17 5.03
7005 24060 0.105039 CATGAGAGCGACCCCCTAAC 59.895 60.000 0.00 0.00 0.00 2.34
7010 24065 0.749454 GAGCGACCCCCTAACGACTA 60.749 60.000 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 7.802720 TCTGAACGTGTGAACATATTTTGAATG 59.197 33.333 0.00 0.00 0.00 2.67
13 14 6.852858 TCTGAACGTGTGAACATATTTTGA 57.147 33.333 0.00 0.00 0.00 2.69
14 15 7.906611 TTTCTGAACGTGTGAACATATTTTG 57.093 32.000 0.00 0.00 0.00 2.44
16 17 9.773328 CATATTTCTGAACGTGTGAACATATTT 57.227 29.630 0.00 0.00 0.00 1.40
17 18 8.946085 ACATATTTCTGAACGTGTGAACATATT 58.054 29.630 0.00 0.00 0.00 1.28
18 19 8.492673 ACATATTTCTGAACGTGTGAACATAT 57.507 30.769 0.00 0.00 0.00 1.78
19 20 7.899178 ACATATTTCTGAACGTGTGAACATA 57.101 32.000 0.00 0.00 0.00 2.29
21 22 6.258947 TCAACATATTTCTGAACGTGTGAACA 59.741 34.615 0.00 0.00 0.00 3.18
22 23 6.655062 TCAACATATTTCTGAACGTGTGAAC 58.345 36.000 0.00 0.00 0.00 3.18
23 24 6.565811 GCTCAACATATTTCTGAACGTGTGAA 60.566 38.462 0.00 0.00 0.00 3.18
25 26 5.082059 GCTCAACATATTTCTGAACGTGTG 58.918 41.667 0.00 0.00 0.00 3.82
27 28 5.082059 GTGCTCAACATATTTCTGAACGTG 58.918 41.667 0.00 0.00 0.00 4.49
28 29 4.754618 TGTGCTCAACATATTTCTGAACGT 59.245 37.500 0.00 0.00 32.36 3.99
129 134 6.813649 TGAACATGTTTTTGAAATCCGTGAAA 59.186 30.769 13.36 0.00 0.00 2.69
130 135 6.333416 TGAACATGTTTTTGAAATCCGTGAA 58.667 32.000 13.36 0.00 0.00 3.18
176 181 9.817365 CAACTTGAACATCTTTCTACATTGTAG 57.183 33.333 16.27 16.27 0.00 2.74
266 289 3.134127 GCTTTAGTGGGCCAGCCG 61.134 66.667 6.40 0.00 36.85 5.52
318 342 5.225642 TCTCATATTGCGAGATGTAGCTTG 58.774 41.667 8.40 0.00 34.59 4.01
339 363 4.461450 TCTACATGGGAGCTATGTCTCT 57.539 45.455 3.87 0.00 39.36 3.10
346 370 6.055588 GTGCTTATTTTCTACATGGGAGCTA 58.944 40.000 0.00 0.00 0.00 3.32
376 400 0.739462 TCGTTTGGTAGCTCGCATGG 60.739 55.000 0.00 0.00 0.00 3.66
377 401 1.075542 TTCGTTTGGTAGCTCGCATG 58.924 50.000 0.00 0.00 0.00 4.06
416 440 4.741781 CAAGCTGAAACGCCGCGG 62.742 66.667 24.05 24.05 0.00 6.46
435 459 2.480416 CGAGTCACCCTATGAAGTCTGC 60.480 54.545 0.00 0.00 39.72 4.26
450 474 2.343758 GCCTTCCTGCACGAGTCA 59.656 61.111 0.00 0.00 0.00 3.41
454 478 2.668185 TTTTCGGCCTTCCTGCACGA 62.668 55.000 0.00 0.00 33.97 4.35
496 520 5.163023 ACCATAAAGAGGGGTAACTTGTTGT 60.163 40.000 0.00 0.00 31.89 3.32
498 522 5.312443 AGACCATAAAGAGGGGTAACTTGTT 59.688 40.000 0.00 0.00 34.39 2.83
503 527 5.695424 AAGAGACCATAAAGAGGGGTAAC 57.305 43.478 0.00 0.00 34.39 2.50
506 530 3.308473 GCAAAGAGACCATAAAGAGGGGT 60.308 47.826 0.00 0.00 37.70 4.95
507 531 3.054065 AGCAAAGAGACCATAAAGAGGGG 60.054 47.826 0.00 0.00 0.00 4.79
517 541 4.776349 TCTTGTACAAAGCAAAGAGACCA 58.224 39.130 10.03 0.00 0.00 4.02
518 542 5.751243 TTCTTGTACAAAGCAAAGAGACC 57.249 39.130 10.03 0.00 0.00 3.85
519 543 7.112148 CGAATTTCTTGTACAAAGCAAAGAGAC 59.888 37.037 10.03 2.81 0.00 3.36
526 550 3.316588 TGGCGAATTTCTTGTACAAAGCA 59.683 39.130 10.03 0.00 0.00 3.91
527 551 3.668656 GTGGCGAATTTCTTGTACAAAGC 59.331 43.478 10.03 6.61 0.00 3.51
528 552 4.023193 AGGTGGCGAATTTCTTGTACAAAG 60.023 41.667 10.03 4.41 0.00 2.77
529 553 3.886505 AGGTGGCGAATTTCTTGTACAAA 59.113 39.130 10.03 0.00 0.00 2.83
530 554 3.482436 AGGTGGCGAATTTCTTGTACAA 58.518 40.909 8.28 8.28 0.00 2.41
532 556 3.373130 GGTAGGTGGCGAATTTCTTGTAC 59.627 47.826 0.00 0.00 0.00 2.90
534 558 2.433436 GGTAGGTGGCGAATTTCTTGT 58.567 47.619 0.00 0.00 0.00 3.16
535 559 1.743394 GGGTAGGTGGCGAATTTCTTG 59.257 52.381 0.00 0.00 0.00 3.02
539 563 0.402504 TGTGGGTAGGTGGCGAATTT 59.597 50.000 0.00 0.00 0.00 1.82
652 679 4.884668 TTCGGAACTGTCTTCCTATTGT 57.115 40.909 0.00 0.00 36.45 2.71
753 784 5.647589 TCCTATTGCGCCGTATAAATAGAG 58.352 41.667 19.09 11.88 35.52 2.43
765 796 2.223044 CGAAGTCTTTTCCTATTGCGCC 60.223 50.000 4.18 0.00 0.00 6.53
852 887 4.629523 TTGACCGGCCGGGACAAC 62.630 66.667 44.99 28.88 43.89 3.32
950 985 3.203412 CCTCCTCCTCGTCGTCGG 61.203 72.222 1.55 0.00 37.69 4.79
957 992 3.151022 GCCACCTCCTCCTCCTCG 61.151 72.222 0.00 0.00 0.00 4.63
968 1009 2.113139 CAACCACCTTCGCCACCT 59.887 61.111 0.00 0.00 0.00 4.00
1065 1106 1.654954 GGAAGTAGCCGTCGCAGAGA 61.655 60.000 0.00 0.00 36.95 3.10
1116 1157 2.650322 AGGGAGAGAGAACTCACAGGTA 59.350 50.000 4.64 0.00 44.79 3.08
1135 1176 1.529713 GGAGCGGGGTAGAGAGAGG 60.530 68.421 0.00 0.00 0.00 3.69
1136 1177 1.529713 GGGAGCGGGGTAGAGAGAG 60.530 68.421 0.00 0.00 0.00 3.20
1137 1178 2.601868 GGGAGCGGGGTAGAGAGA 59.398 66.667 0.00 0.00 0.00 3.10
1138 1179 2.522193 GGGGAGCGGGGTAGAGAG 60.522 72.222 0.00 0.00 0.00 3.20
1154 1195 3.441011 AAATCGTAGAGGCGGCGGG 62.441 63.158 9.78 0.00 43.63 6.13
1169 1210 2.742589 GCGGACGGAAGAGAAAAGAAAT 59.257 45.455 0.00 0.00 0.00 2.17
1174 1215 1.004200 GGGCGGACGGAAGAGAAAA 60.004 57.895 0.00 0.00 0.00 2.29
1204 1245 4.400109 GCGCAGACACGACGGAGA 62.400 66.667 0.30 0.00 34.06 3.71
1290 1457 0.951558 CCGACACCAAAACCAAGGAG 59.048 55.000 0.00 0.00 0.00 3.69
1366 1533 1.289109 CGTCGAACGCCAACCTGATT 61.289 55.000 0.00 0.00 33.65 2.57
1421 1588 1.736645 CAATTCGCACGAGACCGGT 60.737 57.895 6.92 6.92 40.78 5.28
1520 1693 1.079543 CAGACCCAGCTCCAACGAG 60.080 63.158 0.00 0.00 39.33 4.18
1550 1723 4.020617 CGCCTGCCTCTTGGTCCA 62.021 66.667 0.00 0.00 35.27 4.02
1551 1724 3.553095 AACGCCTGCCTCTTGGTCC 62.553 63.158 0.00 0.00 35.27 4.46
1613 1786 3.989698 CTTCGATCGGCCGCACAGT 62.990 63.158 23.51 3.06 0.00 3.55
1634 1822 2.332654 GCACGGGCGAAGAAACCAT 61.333 57.895 0.00 0.00 0.00 3.55
1789 1977 1.228245 TCTGTTTGAGCCACCCTGC 60.228 57.895 0.00 0.00 0.00 4.85
1823 2019 5.708230 ACACCTGCTAATGTTCGGATTTTTA 59.292 36.000 0.00 0.00 0.00 1.52
1834 2030 3.550820 TGTTGTTGACACCTGCTAATGT 58.449 40.909 0.00 0.00 32.00 2.71
1900 2097 3.606972 AGGATTTAGCCTCCTGATGGAT 58.393 45.455 0.00 0.00 41.66 3.41
1918 2115 1.639108 TGGGAGCTAGTGAGTGTAGGA 59.361 52.381 0.00 0.00 0.00 2.94
1971 2168 7.506938 TGGAATGAGAGAAACAAGAGGATTTTT 59.493 33.333 0.00 0.00 0.00 1.94
2022 2219 3.555324 TGGAGGTGGCTTGTGCGA 61.555 61.111 0.00 0.00 40.82 5.10
2058 2255 7.432350 AGAAGATCAACAATTCTGACAAGAC 57.568 36.000 0.00 0.00 32.19 3.01
2187 2389 4.865925 TCGATAACATAACCAAACGGACAG 59.134 41.667 0.00 0.00 0.00 3.51
2281 2556 7.116948 CGGCTATACCAAAAACATAGATCTGAG 59.883 40.741 5.18 0.00 39.03 3.35
2383 2659 1.126488 GAGTGATCATCCTCCTGGCA 58.874 55.000 0.00 0.00 0.00 4.92
2415 2691 5.796935 CAGGCTTATCAATCAAGAACGTTTG 59.203 40.000 0.46 0.00 0.00 2.93
2852 3159 3.160777 ACGCTATGCAGGTGTACTTAC 57.839 47.619 6.84 0.00 0.00 2.34
2946 3256 4.823157 TCCAAATGGCTCATTTTGACATG 58.177 39.130 9.58 0.00 40.60 3.21
3437 4324 4.897509 TGGAATCGCAGATATCCTTCAT 57.102 40.909 0.00 0.00 45.12 2.57
3546 4454 7.605410 ACACCATATTTTACTGAAAGGTACG 57.395 36.000 0.00 0.00 39.30 3.67
3631 4539 6.995511 TGTTAAGTGCACTTTTCTACTGTT 57.004 33.333 35.20 11.37 37.40 3.16
3639 4547 8.770438 TTCAGAAAAATGTTAAGTGCACTTTT 57.230 26.923 35.20 21.73 37.40 2.27
3640 4548 8.250332 TCTTCAGAAAAATGTTAAGTGCACTTT 58.750 29.630 35.20 19.78 37.40 2.66
3641 4549 7.771183 TCTTCAGAAAAATGTTAAGTGCACTT 58.229 30.769 32.97 32.97 39.85 3.16
3643 4551 7.985634 TTCTTCAGAAAAATGTTAAGTGCAC 57.014 32.000 9.40 9.40 0.00 4.57
3660 9024 9.828852 GGTCGTACATATACTCTTATTCTTCAG 57.171 37.037 0.00 0.00 0.00 3.02
3690 9054 1.226746 AGTGCACTTTTCTGCGGTAC 58.773 50.000 15.25 0.00 40.31 3.34
3694 9058 7.566858 AAAATATTAAGTGCACTTTTCTGCG 57.433 32.000 35.20 0.00 40.31 5.18
3948 9798 7.598118 TCACCAAACAAAAATGCATATACACTG 59.402 33.333 0.00 0.00 0.00 3.66
3958 9810 4.612932 TTGCTTCACCAAACAAAAATGC 57.387 36.364 0.00 0.00 0.00 3.56
4013 9877 3.738982 TGAGTCGAGATTGCAGGAAAAA 58.261 40.909 0.00 0.00 0.00 1.94
4014 9878 3.329386 CTGAGTCGAGATTGCAGGAAAA 58.671 45.455 0.00 0.00 0.00 2.29
4231 11595 3.570125 CCTGTCAGAGTAGACTGTGTTGA 59.430 47.826 0.00 0.00 38.30 3.18
4240 11604 1.907255 TCTCCGTCCTGTCAGAGTAGA 59.093 52.381 0.00 0.00 0.00 2.59
4621 13345 3.808728 TGTGACTTTCCTTGAGACAAGG 58.191 45.455 20.43 20.43 38.78 3.61
4789 13958 4.581309 AACACATGGTCCATCAGAATCT 57.419 40.909 0.00 0.00 0.00 2.40
4848 14022 5.165961 TGAGGCAACAGTTTAGCTTCTAT 57.834 39.130 8.60 0.00 35.65 1.98
5164 14477 4.901849 TCGGATGAAATATCTTCTCCACCT 59.098 41.667 0.00 0.00 31.97 4.00
5173 14486 6.064060 TGCAGGATTTTCGGATGAAATATCT 58.936 36.000 0.00 0.00 43.32 1.98
5573 18912 5.338056 GGGTGGTTCCTTTTAATGGAAATCC 60.338 44.000 12.89 11.50 44.14 3.01
5678 19032 4.050553 TGAGCTGCAAAATGTTTTAGTGC 58.949 39.130 1.02 0.00 0.00 4.40
5867 19991 3.934391 GAGTAGGCCGTGCAGCGTT 62.934 63.158 0.00 0.00 39.32 4.84
5915 20039 3.999285 ACCGGCCTCAGGACCTCT 61.999 66.667 0.00 0.00 0.00 3.69
6198 20623 3.887716 TCTACGGGTATGCTAACCTCTTC 59.112 47.826 7.80 0.00 39.65 2.87
6304 21033 6.089249 AGCAAAATTACCACAAGAAAGAGG 57.911 37.500 0.00 0.00 0.00 3.69
6326 21062 2.154462 CCTTGCACAGTGGGTAAGAAG 58.846 52.381 23.16 5.05 30.66 2.85
6475 21214 2.126307 GCTGTTCAGCTCGCTCGA 60.126 61.111 16.29 0.00 0.00 4.04
6562 22723 6.470235 CACTGTTTCACTTGTCTGAATTGAAC 59.530 38.462 0.00 0.00 30.19 3.18
6569 22730 2.938451 CTGCACTGTTTCACTTGTCTGA 59.062 45.455 0.00 0.00 0.00 3.27
6634 22795 9.865484 CAGAACTTTAGTTTAGTAAAGAAGTGC 57.135 33.333 19.03 13.57 40.93 4.40
6758 23677 2.742053 CCTAGACAACAAACATCCACCG 59.258 50.000 0.00 0.00 0.00 4.94
6760 23679 2.488153 GCCCTAGACAACAAACATCCAC 59.512 50.000 0.00 0.00 0.00 4.02
6773 23816 1.668101 CCTCTCCGTGTGCCCTAGAC 61.668 65.000 0.00 0.00 0.00 2.59
6785 23828 2.738521 CCACGTGCAACCTCTCCG 60.739 66.667 10.91 0.00 0.00 4.63
6798 23841 4.760047 CCGACAAGGGCCTCCACG 62.760 72.222 6.46 12.68 35.97 4.94
6852 23895 1.153628 CCGACTGGAAGCCGTTAGG 60.154 63.158 0.00 0.00 38.53 2.69
6911 23954 0.036765 CAAGCGCCACTACCCTAACA 60.037 55.000 2.29 0.00 0.00 2.41
6926 23969 1.669999 GCATCCACCATGACCCAAGC 61.670 60.000 0.00 0.00 33.80 4.01
6928 23971 0.323633 CAGCATCCACCATGACCCAA 60.324 55.000 0.00 0.00 33.80 4.12
6930 23973 2.123428 GCAGCATCCACCATGACCC 61.123 63.158 0.00 0.00 33.80 4.46
6950 24005 0.179073 CCGCTACCATTCCTCACCTG 60.179 60.000 0.00 0.00 0.00 4.00
6979 24034 1.687494 GGTCGCTCTCATGTCGTTGC 61.687 60.000 0.00 0.00 0.00 4.17
7005 24060 1.173444 ATAGACCGCTGCCCTAGTCG 61.173 60.000 0.00 0.00 34.41 4.18
7010 24065 2.365635 ACCATAGACCGCTGCCCT 60.366 61.111 0.00 0.00 0.00 5.19
7017 24072 2.039418 TCATCTTCCCACCATAGACCG 58.961 52.381 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.