Multiple sequence alignment - TraesCS5B01G239700

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 TraesCS5B01G239700 chr5B 100.000 3230 0 0 1 3230 419946416 419949645 0.000000e+00 5965.0
1 TraesCS5B01G239700 chr5B 94.959 853 38 5 2382 3230 326508933 326509784 0.000000e+00 1332.0
2 TraesCS5B01G239700 chr5B 94.645 859 39 6 2378 3230 694236786 694235929 0.000000e+00 1325.0
3 TraesCS5B01G239700 chr5B 81.780 944 135 23 1301 2236 419727498 419728412 0.000000e+00 756.0
4 TraesCS5B01G239700 chr5B 81.610 919 146 15 1306 2217 420732946 420732044 0.000000e+00 739.0
5 TraesCS5B01G239700 chr5B 76.185 907 185 23 1329 2218 420716172 420715280 1.770000e-122 449.0
6 TraesCS5B01G239700 chr5B 86.124 209 24 4 575 781 489470836 489471041 1.510000e-53 220.0
7 TraesCS5B01G239700 chr5B 86.500 200 23 3 575 773 231839688 231839884 1.950000e-52 217.0
8 TraesCS5B01G239700 chr5B 73.744 617 118 36 1495 2086 415670198 415669601 5.460000e-48 202.0
9 TraesCS5B01G239700 chr5A 95.264 1478 52 9 910 2377 457379959 457381428 0.000000e+00 2326.0
10 TraesCS5B01G239700 chr5A 82.755 922 140 11 1306 2222 457511607 457512514 0.000000e+00 804.0
11 TraesCS5B01G239700 chr5A 81.442 943 138 22 1303 2237 457086337 457087250 0.000000e+00 737.0
12 TraesCS5B01G239700 chr5A 76.619 911 182 25 1329 2222 457514831 457515727 1.050000e-129 473.0
13 TraesCS5B01G239700 chr5A 77.804 428 74 15 1381 1792 70482926 70482504 8.950000e-61 244.0
14 TraesCS5B01G239700 chr5A 86.124 209 21 5 575 775 693652691 693652483 5.430000e-53 219.0
15 TraesCS5B01G239700 chr5A 100.000 38 0 0 860 897 457379877 457379914 1.610000e-08 71.3
16 TraesCS5B01G239700 chr5D 97.149 982 25 1 1066 2044 355076476 355077457 0.000000e+00 1655.0
17 TraesCS5B01G239700 chr5D 82.251 924 141 13 1306 2222 355797789 355796882 0.000000e+00 776.0
18 TraesCS5B01G239700 chr5D 81.828 941 134 21 1303 2235 354941351 354942262 0.000000e+00 756.0
19 TraesCS5B01G239700 chr5D 98.876 356 4 0 2040 2395 355082589 355082944 1.260000e-178 636.0
20 TraesCS5B01G239700 chr5D 76.790 922 181 25 1329 2232 355796492 355795586 1.350000e-133 486.0
21 TraesCS5B01G239700 chr5D 78.095 420 72 13 1389 1792 75354356 75353941 6.920000e-62 248.0
22 TraesCS5B01G239700 chr5D 88.372 172 12 4 910 1076 355075848 355076016 1.970000e-47 200.0
23 TraesCS5B01G239700 chr6B 95.327 856 37 3 2377 3230 659251368 659252222 0.000000e+00 1356.0
24 TraesCS5B01G239700 chr6B 95.423 852 34 4 2382 3230 182449993 182450842 0.000000e+00 1352.0
25 TraesCS5B01G239700 chr6B 90.846 579 48 5 1 577 251529512 251528937 0.000000e+00 771.0
26 TraesCS5B01G239700 chr6B 90.517 580 50 5 1 577 586139377 586138800 0.000000e+00 761.0
27 TraesCS5B01G239700 chr6B 89.810 579 55 4 1 577 595941777 595941201 0.000000e+00 739.0
28 TraesCS5B01G239700 chr6B 89.810 579 54 5 1 577 251367976 251367401 0.000000e+00 737.0
29 TraesCS5B01G239700 chr6B 85.149 202 27 2 575 776 692739640 692739442 1.520000e-48 204.0
30 TraesCS5B01G239700 chr1B 95.327 856 36 4 2379 3230 357471227 357472082 0.000000e+00 1356.0
31 TraesCS5B01G239700 chr1B 94.632 857 42 3 2378 3230 370035757 370036613 0.000000e+00 1325.0
32 TraesCS5B01G239700 chr7B 95.205 855 38 3 2378 3230 712768170 712769023 0.000000e+00 1349.0
33 TraesCS5B01G239700 chr2B 94.959 853 39 3 2382 3230 585193423 585192571 0.000000e+00 1334.0
34 TraesCS5B01G239700 chr2B 94.737 855 42 3 2378 3230 523865801 523866654 0.000000e+00 1327.0
35 TraesCS5B01G239700 chr2B 89.842 571 51 7 1 568 115369588 115370154 0.000000e+00 726.0
36 TraesCS5B01G239700 chr3B 89.792 578 55 4 1 577 825877059 825876485 0.000000e+00 737.0
37 TraesCS5B01G239700 chr4D 89.465 579 57 4 1 577 494641585 494641009 0.000000e+00 728.0
38 TraesCS5B01G239700 chr4D 89.825 570 53 5 1 568 275867747 275868313 0.000000e+00 726.0
39 TraesCS5B01G239700 chr4B 89.002 591 57 8 1 586 375172049 375172636 0.000000e+00 725.0
40 TraesCS5B01G239700 chr2D 86.190 210 21 4 575 776 570105843 570106052 1.510000e-53 220.0
41 TraesCS5B01G239700 chr2D 85.096 208 24 5 575 775 552067157 552066950 4.220000e-49 206.0
42 TraesCS5B01G239700 chr1D 86.700 203 22 4 575 776 337998758 337998560 1.510000e-53 220.0
43 TraesCS5B01G239700 chr4A 85.787 197 26 1 575 771 179475060 179474866 1.170000e-49 207.0
44 TraesCS5B01G239700 chr3D 85.366 205 22 4 575 771 16239986 16240190 4.220000e-49 206.0
45 TraesCS5B01G239700 chr7D 79.167 288 50 8 1403 1688 125887931 125888210 1.180000e-44 191.0
46 TraesCS5B01G239700 chr7D 78.819 288 51 8 1403 1688 125909135 125909414 5.500000e-43 185.0
47 TraesCS5B01G239700 chr3A 100.000 34 0 0 778 811 569663627 569663660 2.690000e-06 63.9


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 TraesCS5B01G239700 chr5B 419946416 419949645 3229 False 5965.00 5965 100.0000 1 3230 1 chr5B.!!$F4 3229
1 TraesCS5B01G239700 chr5B 326508933 326509784 851 False 1332.00 1332 94.9590 2382 3230 1 chr5B.!!$F2 848
2 TraesCS5B01G239700 chr5B 694235929 694236786 857 True 1325.00 1325 94.6450 2378 3230 1 chr5B.!!$R4 852
3 TraesCS5B01G239700 chr5B 419727498 419728412 914 False 756.00 756 81.7800 1301 2236 1 chr5B.!!$F3 935
4 TraesCS5B01G239700 chr5B 420732044 420732946 902 True 739.00 739 81.6100 1306 2217 1 chr5B.!!$R3 911
5 TraesCS5B01G239700 chr5B 420715280 420716172 892 True 449.00 449 76.1850 1329 2218 1 chr5B.!!$R2 889
6 TraesCS5B01G239700 chr5B 415669601 415670198 597 True 202.00 202 73.7440 1495 2086 1 chr5B.!!$R1 591
7 TraesCS5B01G239700 chr5A 457379877 457381428 1551 False 1198.65 2326 97.6320 860 2377 2 chr5A.!!$F2 1517
8 TraesCS5B01G239700 chr5A 457086337 457087250 913 False 737.00 737 81.4420 1303 2237 1 chr5A.!!$F1 934
9 TraesCS5B01G239700 chr5A 457511607 457515727 4120 False 638.50 804 79.6870 1306 2222 2 chr5A.!!$F3 916
10 TraesCS5B01G239700 chr5D 355075848 355077457 1609 False 927.50 1655 92.7605 910 2044 2 chr5D.!!$F3 1134
11 TraesCS5B01G239700 chr5D 354941351 354942262 911 False 756.00 756 81.8280 1303 2235 1 chr5D.!!$F1 932
12 TraesCS5B01G239700 chr5D 355795586 355797789 2203 True 631.00 776 79.5205 1306 2232 2 chr5D.!!$R2 926
13 TraesCS5B01G239700 chr6B 659251368 659252222 854 False 1356.00 1356 95.3270 2377 3230 1 chr6B.!!$F2 853
14 TraesCS5B01G239700 chr6B 182449993 182450842 849 False 1352.00 1352 95.4230 2382 3230 1 chr6B.!!$F1 848
15 TraesCS5B01G239700 chr6B 251528937 251529512 575 True 771.00 771 90.8460 1 577 1 chr6B.!!$R2 576
16 TraesCS5B01G239700 chr6B 586138800 586139377 577 True 761.00 761 90.5170 1 577 1 chr6B.!!$R3 576
17 TraesCS5B01G239700 chr6B 595941201 595941777 576 True 739.00 739 89.8100 1 577 1 chr6B.!!$R4 576
18 TraesCS5B01G239700 chr6B 251367401 251367976 575 True 737.00 737 89.8100 1 577 1 chr6B.!!$R1 576
19 TraesCS5B01G239700 chr1B 357471227 357472082 855 False 1356.00 1356 95.3270 2379 3230 1 chr1B.!!$F1 851
20 TraesCS5B01G239700 chr1B 370035757 370036613 856 False 1325.00 1325 94.6320 2378 3230 1 chr1B.!!$F2 852
21 TraesCS5B01G239700 chr7B 712768170 712769023 853 False 1349.00 1349 95.2050 2378 3230 1 chr7B.!!$F1 852
22 TraesCS5B01G239700 chr2B 585192571 585193423 852 True 1334.00 1334 94.9590 2382 3230 1 chr2B.!!$R1 848
23 TraesCS5B01G239700 chr2B 523865801 523866654 853 False 1327.00 1327 94.7370 2378 3230 1 chr2B.!!$F2 852
24 TraesCS5B01G239700 chr2B 115369588 115370154 566 False 726.00 726 89.8420 1 568 1 chr2B.!!$F1 567
25 TraesCS5B01G239700 chr3B 825876485 825877059 574 True 737.00 737 89.7920 1 577 1 chr3B.!!$R1 576
26 TraesCS5B01G239700 chr4D 494641009 494641585 576 True 728.00 728 89.4650 1 577 1 chr4D.!!$R1 576
27 TraesCS5B01G239700 chr4D 275867747 275868313 566 False 726.00 726 89.8250 1 568 1 chr4D.!!$F1 567
28 TraesCS5B01G239700 chr4B 375172049 375172636 587 False 725.00 725 89.0020 1 586 1 chr4B.!!$F1 585

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
612 620 0.031585 GTAGCCGGACGATGCATGTA 59.968 55.0 5.05 0.0 0.0 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2380 3669 1.078918 CGGCTGTTGGAGATGCTCA 60.079 57.895 0.0 0.0 31.08 4.26 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
374 380 3.185594 TCCGTTTTCTTGCACGATACTTG 59.814 43.478 0.00 0.00 38.76 3.16
376 382 4.150980 CCGTTTTCTTGCACGATACTTGTA 59.849 41.667 0.00 0.00 38.76 2.41
390 396 7.010738 CACGATACTTGTATTGGTCGGTAAAAT 59.989 37.037 11.42 0.00 33.75 1.82
443 449 2.224354 ACCGTACCACGACAAAATCCTT 60.224 45.455 0.00 0.00 46.05 3.36
462 468 3.438360 CTTTGCTTTTGTTTCGAGCTGT 58.562 40.909 0.00 0.00 37.32 4.40
515 523 2.282462 AAGCGCCCCAAGGACAAG 60.282 61.111 2.29 0.00 33.47 3.16
574 582 3.763897 GGTATTGCAACATCCTTGAACCT 59.236 43.478 0.00 0.00 0.00 3.50
577 585 6.071616 GGTATTGCAACATCCTTGAACCTTTA 60.072 38.462 0.00 0.00 0.00 1.85
578 586 5.452078 TTGCAACATCCTTGAACCTTTAG 57.548 39.130 0.00 0.00 0.00 1.85
579 587 4.469657 TGCAACATCCTTGAACCTTTAGT 58.530 39.130 0.00 0.00 0.00 2.24
580 588 4.278170 TGCAACATCCTTGAACCTTTAGTG 59.722 41.667 0.00 0.00 0.00 2.74
582 590 5.472137 GCAACATCCTTGAACCTTTAGTGTA 59.528 40.000 0.00 0.00 0.00 2.90
583 591 6.348540 GCAACATCCTTGAACCTTTAGTGTAG 60.349 42.308 0.00 0.00 0.00 2.74
584 592 6.435292 ACATCCTTGAACCTTTAGTGTAGT 57.565 37.500 0.00 0.00 0.00 2.73
585 593 6.231211 ACATCCTTGAACCTTTAGTGTAGTG 58.769 40.000 0.00 0.00 0.00 2.74
586 594 5.881923 TCCTTGAACCTTTAGTGTAGTGT 57.118 39.130 0.00 0.00 0.00 3.55
587 595 5.607477 TCCTTGAACCTTTAGTGTAGTGTG 58.393 41.667 0.00 0.00 0.00 3.82
588 596 5.364446 TCCTTGAACCTTTAGTGTAGTGTGA 59.636 40.000 0.00 0.00 0.00 3.58
589 597 6.042781 TCCTTGAACCTTTAGTGTAGTGTGAT 59.957 38.462 0.00 0.00 0.00 3.06
590 598 6.147821 CCTTGAACCTTTAGTGTAGTGTGATG 59.852 42.308 0.00 0.00 0.00 3.07
591 599 5.547465 TGAACCTTTAGTGTAGTGTGATGG 58.453 41.667 0.00 0.00 0.00 3.51
592 600 5.305902 TGAACCTTTAGTGTAGTGTGATGGA 59.694 40.000 0.00 0.00 0.00 3.41
593 601 5.407407 ACCTTTAGTGTAGTGTGATGGAG 57.593 43.478 0.00 0.00 0.00 3.86
594 602 4.838986 ACCTTTAGTGTAGTGTGATGGAGT 59.161 41.667 0.00 0.00 0.00 3.85
595 603 6.014647 ACCTTTAGTGTAGTGTGATGGAGTA 58.985 40.000 0.00 0.00 0.00 2.59
596 604 6.153000 ACCTTTAGTGTAGTGTGATGGAGTAG 59.847 42.308 0.00 0.00 0.00 2.57
597 605 5.578005 TTAGTGTAGTGTGATGGAGTAGC 57.422 43.478 0.00 0.00 0.00 3.58
598 606 2.761208 AGTGTAGTGTGATGGAGTAGCC 59.239 50.000 0.00 0.00 37.10 3.93
599 607 1.749063 TGTAGTGTGATGGAGTAGCCG 59.251 52.381 0.00 0.00 40.66 5.52
600 608 1.067212 GTAGTGTGATGGAGTAGCCGG 59.933 57.143 0.00 0.00 40.66 6.13
601 609 0.324368 AGTGTGATGGAGTAGCCGGA 60.324 55.000 5.05 0.00 40.66 5.14
602 610 0.179108 GTGTGATGGAGTAGCCGGAC 60.179 60.000 5.05 0.00 40.66 4.79
603 611 1.065928 GTGATGGAGTAGCCGGACG 59.934 63.158 5.05 0.00 40.66 4.79
604 612 1.077285 TGATGGAGTAGCCGGACGA 60.077 57.895 5.05 0.00 40.66 4.20
605 613 0.467474 TGATGGAGTAGCCGGACGAT 60.467 55.000 5.05 0.00 40.66 3.73
606 614 0.039074 GATGGAGTAGCCGGACGATG 60.039 60.000 5.05 0.00 40.66 3.84
607 615 2.027751 GGAGTAGCCGGACGATGC 59.972 66.667 5.05 0.00 0.00 3.91
608 616 2.782222 GGAGTAGCCGGACGATGCA 61.782 63.158 5.05 0.00 0.00 3.96
609 617 1.364171 GAGTAGCCGGACGATGCAT 59.636 57.895 5.05 0.00 0.00 3.96
610 618 0.941463 GAGTAGCCGGACGATGCATG 60.941 60.000 5.05 0.00 0.00 4.06
611 619 1.227263 GTAGCCGGACGATGCATGT 60.227 57.895 5.05 2.18 0.00 3.21
612 620 0.031585 GTAGCCGGACGATGCATGTA 59.968 55.000 5.05 0.00 0.00 2.29
613 621 0.313987 TAGCCGGACGATGCATGTAG 59.686 55.000 5.05 0.00 0.00 2.74
614 622 1.227263 GCCGGACGATGCATGTAGT 60.227 57.895 5.05 0.53 0.00 2.73
615 623 0.810031 GCCGGACGATGCATGTAGTT 60.810 55.000 5.05 0.00 0.00 2.24
616 624 1.209128 CCGGACGATGCATGTAGTTC 58.791 55.000 2.46 0.00 0.00 3.01
617 625 0.846401 CGGACGATGCATGTAGTTCG 59.154 55.000 2.46 8.41 37.60 3.95
618 626 1.533129 CGGACGATGCATGTAGTTCGA 60.533 52.381 17.47 0.00 37.77 3.71
619 627 1.852895 GGACGATGCATGTAGTTCGAC 59.147 52.381 2.46 7.15 35.64 4.20
620 628 1.513178 GACGATGCATGTAGTTCGACG 59.487 52.381 2.46 0.00 35.64 5.12
621 629 1.135489 ACGATGCATGTAGTTCGACGT 60.135 47.619 2.46 0.38 35.64 4.34
622 630 2.096335 ACGATGCATGTAGTTCGACGTA 59.904 45.455 2.46 0.00 35.64 3.57
623 631 2.714480 CGATGCATGTAGTTCGACGTAG 59.286 50.000 2.46 0.00 33.59 3.51
640 648 5.530519 ACGTAGTTGCATGAGTTTGTATG 57.469 39.130 0.00 0.00 37.78 2.39
641 649 4.391830 ACGTAGTTGCATGAGTTTGTATGG 59.608 41.667 0.00 0.00 37.78 2.74
642 650 4.629634 CGTAGTTGCATGAGTTTGTATGGA 59.370 41.667 0.00 0.00 0.00 3.41
643 651 5.294306 CGTAGTTGCATGAGTTTGTATGGAT 59.706 40.000 0.00 0.00 0.00 3.41
644 652 6.183360 CGTAGTTGCATGAGTTTGTATGGATT 60.183 38.462 0.00 0.00 0.00 3.01
645 653 6.594788 AGTTGCATGAGTTTGTATGGATTT 57.405 33.333 0.00 0.00 0.00 2.17
646 654 7.701539 AGTTGCATGAGTTTGTATGGATTTA 57.298 32.000 0.00 0.00 0.00 1.40
647 655 8.121305 AGTTGCATGAGTTTGTATGGATTTAA 57.879 30.769 0.00 0.00 0.00 1.52
648 656 8.246180 AGTTGCATGAGTTTGTATGGATTTAAG 58.754 33.333 0.00 0.00 0.00 1.85
649 657 7.936496 TGCATGAGTTTGTATGGATTTAAGA 57.064 32.000 0.00 0.00 0.00 2.10
650 658 8.523915 TGCATGAGTTTGTATGGATTTAAGAT 57.476 30.769 0.00 0.00 0.00 2.40
651 659 9.625747 TGCATGAGTTTGTATGGATTTAAGATA 57.374 29.630 0.00 0.00 0.00 1.98
670 678 7.496529 AAGATATGTTAATTGATGTGTCCGG 57.503 36.000 0.00 0.00 0.00 5.14
671 679 6.826668 AGATATGTTAATTGATGTGTCCGGA 58.173 36.000 0.00 0.00 0.00 5.14
672 680 7.453393 AGATATGTTAATTGATGTGTCCGGAT 58.547 34.615 7.81 0.00 0.00 4.18
673 681 5.756195 ATGTTAATTGATGTGTCCGGATG 57.244 39.130 7.81 0.00 0.00 3.51
674 682 4.584874 TGTTAATTGATGTGTCCGGATGT 58.415 39.130 7.81 0.00 0.00 3.06
675 683 4.394610 TGTTAATTGATGTGTCCGGATGTG 59.605 41.667 7.81 0.00 0.00 3.21
676 684 2.042686 ATTGATGTGTCCGGATGTGG 57.957 50.000 7.81 0.00 0.00 4.17
677 685 0.980423 TTGATGTGTCCGGATGTGGA 59.020 50.000 7.81 0.00 35.04 4.02
678 686 1.203237 TGATGTGTCCGGATGTGGAT 58.797 50.000 7.81 0.00 40.91 3.41
679 687 1.559219 TGATGTGTCCGGATGTGGATT 59.441 47.619 7.81 0.00 40.91 3.01
680 688 1.942657 GATGTGTCCGGATGTGGATTG 59.057 52.381 7.81 0.00 40.91 2.67
681 689 0.980423 TGTGTCCGGATGTGGATTGA 59.020 50.000 7.81 0.00 40.91 2.57
682 690 1.349357 TGTGTCCGGATGTGGATTGAA 59.651 47.619 7.81 0.00 40.91 2.69
683 691 2.026356 TGTGTCCGGATGTGGATTGAAT 60.026 45.455 7.81 0.00 40.91 2.57
684 692 3.016736 GTGTCCGGATGTGGATTGAATT 58.983 45.455 7.81 0.00 40.91 2.17
685 693 3.443681 GTGTCCGGATGTGGATTGAATTT 59.556 43.478 7.81 0.00 40.91 1.82
686 694 4.082245 GTGTCCGGATGTGGATTGAATTTT 60.082 41.667 7.81 0.00 40.91 1.82
687 695 4.526262 TGTCCGGATGTGGATTGAATTTTT 59.474 37.500 7.81 0.00 40.91 1.94
701 709 4.492604 TTTTTGAGGAGTGCCCGG 57.507 55.556 0.00 0.00 40.87 5.73
702 710 1.534697 TTTTTGAGGAGTGCCCGGT 59.465 52.632 0.00 0.00 40.87 5.28
703 711 0.536460 TTTTTGAGGAGTGCCCGGTC 60.536 55.000 0.00 0.00 40.87 4.79
704 712 1.701031 TTTTGAGGAGTGCCCGGTCA 61.701 55.000 0.00 0.00 40.87 4.02
705 713 2.111999 TTTGAGGAGTGCCCGGTCAG 62.112 60.000 0.00 0.00 40.87 3.51
706 714 2.997897 GAGGAGTGCCCGGTCAGT 60.998 66.667 0.00 0.00 40.87 3.41
707 715 3.302347 GAGGAGTGCCCGGTCAGTG 62.302 68.421 0.00 0.00 40.87 3.66
708 716 3.626924 GGAGTGCCCGGTCAGTGT 61.627 66.667 0.00 0.00 0.00 3.55
709 717 2.048127 GAGTGCCCGGTCAGTGTC 60.048 66.667 0.00 0.00 0.00 3.67
710 718 3.591254 GAGTGCCCGGTCAGTGTCC 62.591 68.421 0.00 0.00 0.00 4.02
745 753 3.712907 GGTGCTTGAGGGGCCGTA 61.713 66.667 0.00 0.00 0.00 4.02
746 754 2.590092 GTGCTTGAGGGGCCGTAT 59.410 61.111 0.00 0.00 0.00 3.06
747 755 1.077716 GTGCTTGAGGGGCCGTATT 60.078 57.895 0.00 0.00 0.00 1.89
748 756 0.679960 GTGCTTGAGGGGCCGTATTT 60.680 55.000 0.00 0.00 0.00 1.40
749 757 0.679640 TGCTTGAGGGGCCGTATTTG 60.680 55.000 0.00 0.00 0.00 2.32
750 758 0.393808 GCTTGAGGGGCCGTATTTGA 60.394 55.000 0.00 0.00 0.00 2.69
751 759 1.379527 CTTGAGGGGCCGTATTTGAC 58.620 55.000 0.00 0.00 0.00 3.18
752 760 0.693622 TTGAGGGGCCGTATTTGACA 59.306 50.000 0.00 0.00 0.00 3.58
753 761 0.693622 TGAGGGGCCGTATTTGACAA 59.306 50.000 0.00 0.00 0.00 3.18
754 762 1.092348 GAGGGGCCGTATTTGACAAC 58.908 55.000 0.00 0.00 0.00 3.32
755 763 0.696501 AGGGGCCGTATTTGACAACT 59.303 50.000 0.00 0.00 0.00 3.16
756 764 1.092348 GGGGCCGTATTTGACAACTC 58.908 55.000 0.00 0.00 0.00 3.01
757 765 1.092348 GGGCCGTATTTGACAACTCC 58.908 55.000 0.00 0.00 0.00 3.85
758 766 0.725117 GGCCGTATTTGACAACTCCG 59.275 55.000 0.00 0.00 0.00 4.63
759 767 1.673626 GGCCGTATTTGACAACTCCGA 60.674 52.381 0.00 0.00 0.00 4.55
760 768 1.392510 GCCGTATTTGACAACTCCGAC 59.607 52.381 0.00 0.00 0.00 4.79
761 769 2.929592 GCCGTATTTGACAACTCCGACT 60.930 50.000 0.00 0.00 0.00 4.18
762 770 2.666508 CCGTATTTGACAACTCCGACTG 59.333 50.000 0.00 0.00 0.00 3.51
763 771 3.314553 CGTATTTGACAACTCCGACTGT 58.685 45.455 0.00 0.00 0.00 3.55
764 772 4.478699 CGTATTTGACAACTCCGACTGTA 58.521 43.478 0.00 0.00 0.00 2.74
765 773 4.557690 CGTATTTGACAACTCCGACTGTAG 59.442 45.833 0.00 0.00 0.00 2.74
766 774 4.866508 ATTTGACAACTCCGACTGTAGA 57.133 40.909 0.00 0.00 0.00 2.59
767 775 4.866508 TTTGACAACTCCGACTGTAGAT 57.133 40.909 0.00 0.00 0.00 1.98
768 776 3.850122 TGACAACTCCGACTGTAGATG 57.150 47.619 0.00 0.00 0.00 2.90
769 777 2.094700 TGACAACTCCGACTGTAGATGC 60.095 50.000 0.00 0.00 0.00 3.91
770 778 2.164624 GACAACTCCGACTGTAGATGCT 59.835 50.000 0.00 0.00 0.00 3.79
771 779 2.164624 ACAACTCCGACTGTAGATGCTC 59.835 50.000 0.00 0.00 0.00 4.26
772 780 2.425312 CAACTCCGACTGTAGATGCTCT 59.575 50.000 0.00 0.00 0.00 4.09
773 781 3.562343 ACTCCGACTGTAGATGCTCTA 57.438 47.619 0.00 0.00 0.00 2.43
774 782 3.887352 ACTCCGACTGTAGATGCTCTAA 58.113 45.455 0.00 0.00 29.58 2.10
775 783 4.270834 ACTCCGACTGTAGATGCTCTAAA 58.729 43.478 0.00 0.00 29.58 1.85
776 784 4.890581 ACTCCGACTGTAGATGCTCTAAAT 59.109 41.667 0.00 0.00 29.58 1.40
777 785 6.062749 ACTCCGACTGTAGATGCTCTAAATA 58.937 40.000 0.00 0.00 29.58 1.40
778 786 6.016943 ACTCCGACTGTAGATGCTCTAAATAC 60.017 42.308 0.00 0.00 29.58 1.89
779 787 6.062749 TCCGACTGTAGATGCTCTAAATACT 58.937 40.000 0.00 0.00 29.58 2.12
780 788 6.205076 TCCGACTGTAGATGCTCTAAATACTC 59.795 42.308 0.00 0.00 29.58 2.59
781 789 6.017026 CCGACTGTAGATGCTCTAAATACTCA 60.017 42.308 0.00 0.00 29.58 3.41
782 790 7.308891 CCGACTGTAGATGCTCTAAATACTCAT 60.309 40.741 0.00 0.00 29.58 2.90
783 791 8.079203 CGACTGTAGATGCTCTAAATACTCATT 58.921 37.037 0.00 0.00 29.58 2.57
784 792 9.757227 GACTGTAGATGCTCTAAATACTCATTT 57.243 33.333 0.00 0.00 38.02 2.32
790 798 9.771534 AGATGCTCTAAATACTCATTTTACTCC 57.228 33.333 0.00 0.00 35.88 3.85
791 799 8.594881 ATGCTCTAAATACTCATTTTACTCCG 57.405 34.615 0.00 0.00 35.88 4.63
792 800 7.553334 TGCTCTAAATACTCATTTTACTCCGT 58.447 34.615 0.00 0.00 35.88 4.69
793 801 8.689061 TGCTCTAAATACTCATTTTACTCCGTA 58.311 33.333 0.00 0.00 35.88 4.02
794 802 9.694137 GCTCTAAATACTCATTTTACTCCGTAT 57.306 33.333 0.00 0.00 35.88 3.06
826 834 9.725019 TTATATAGAAACCTACATGCATTCAGG 57.275 33.333 18.05 18.05 0.00 3.86
827 835 4.574674 AGAAACCTACATGCATTCAGGA 57.425 40.909 24.06 0.00 32.25 3.86
828 836 4.922206 AGAAACCTACATGCATTCAGGAA 58.078 39.130 24.06 0.00 32.25 3.36
829 837 4.702131 AGAAACCTACATGCATTCAGGAAC 59.298 41.667 24.06 15.61 32.25 3.62
830 838 2.632377 ACCTACATGCATTCAGGAACG 58.368 47.619 24.06 2.99 32.25 3.95
831 839 2.236146 ACCTACATGCATTCAGGAACGA 59.764 45.455 24.06 0.00 32.25 3.85
832 840 3.270027 CCTACATGCATTCAGGAACGAA 58.730 45.455 15.57 0.00 0.00 3.85
833 841 3.689161 CCTACATGCATTCAGGAACGAAA 59.311 43.478 15.57 0.00 0.00 3.46
834 842 3.837213 ACATGCATTCAGGAACGAAAG 57.163 42.857 0.00 0.00 0.00 2.62
835 843 2.489329 ACATGCATTCAGGAACGAAAGG 59.511 45.455 0.00 0.00 0.00 3.11
836 844 2.559698 TGCATTCAGGAACGAAAGGA 57.440 45.000 0.00 0.00 0.00 3.36
837 845 2.426522 TGCATTCAGGAACGAAAGGAG 58.573 47.619 0.00 0.00 0.00 3.69
838 846 2.224523 TGCATTCAGGAACGAAAGGAGT 60.225 45.455 0.00 0.00 0.00 3.85
839 847 3.007506 TGCATTCAGGAACGAAAGGAGTA 59.992 43.478 0.00 0.00 0.00 2.59
840 848 4.192317 GCATTCAGGAACGAAAGGAGTAT 58.808 43.478 0.00 0.00 0.00 2.12
841 849 4.636206 GCATTCAGGAACGAAAGGAGTATT 59.364 41.667 0.00 0.00 0.00 1.89
842 850 5.815740 GCATTCAGGAACGAAAGGAGTATTA 59.184 40.000 0.00 0.00 0.00 0.98
843 851 6.315393 GCATTCAGGAACGAAAGGAGTATTAA 59.685 38.462 0.00 0.00 0.00 1.40
844 852 7.148306 GCATTCAGGAACGAAAGGAGTATTAAA 60.148 37.037 0.00 0.00 0.00 1.52
845 853 7.900782 TTCAGGAACGAAAGGAGTATTAAAG 57.099 36.000 0.00 0.00 0.00 1.85
846 854 7.235935 TCAGGAACGAAAGGAGTATTAAAGA 57.764 36.000 0.00 0.00 0.00 2.52
847 855 7.848128 TCAGGAACGAAAGGAGTATTAAAGAT 58.152 34.615 0.00 0.00 0.00 2.40
848 856 8.974238 TCAGGAACGAAAGGAGTATTAAAGATA 58.026 33.333 0.00 0.00 0.00 1.98
849 857 9.032420 CAGGAACGAAAGGAGTATTAAAGATAC 57.968 37.037 0.00 0.00 0.00 2.24
850 858 8.979534 AGGAACGAAAGGAGTATTAAAGATACT 58.020 33.333 0.00 0.00 37.53 2.12
851 859 9.597170 GGAACGAAAGGAGTATTAAAGATACTT 57.403 33.333 0.00 0.00 35.20 2.24
903 911 6.694445 CTCATTATTGAGGTCCTCCCTAAT 57.306 41.667 16.60 14.75 46.51 1.73
904 912 7.084268 CTCATTATTGAGGTCCTCCCTAATT 57.916 40.000 16.60 0.00 46.51 1.40
906 914 7.290061 TCATTATTGAGGTCCTCCCTAATTTG 58.710 38.462 16.60 9.64 46.51 2.32
907 915 4.526438 ATTGAGGTCCTCCCTAATTTGG 57.474 45.455 16.60 0.00 46.51 3.28
911 951 1.285078 GGTCCTCCCTAATTTGGCAGT 59.715 52.381 0.00 0.00 0.00 4.40
914 954 2.852449 TCCTCCCTAATTTGGCAGTCAT 59.148 45.455 0.00 0.00 0.00 3.06
983 1024 1.262417 TGAGAAGTCATGCCCGTACA 58.738 50.000 0.00 0.00 0.00 2.90
997 1038 1.712350 CCGTACAACGTTGAGAAGTCG 59.288 52.381 33.66 23.11 40.58 4.18
998 1039 2.378806 CGTACAACGTTGAGAAGTCGT 58.621 47.619 33.66 11.87 36.74 4.34
1023 1064 3.328637 TGCTCCCAGTCATGCATATATGT 59.671 43.478 14.14 0.00 0.00 2.29
1029 1074 5.816258 CCCAGTCATGCATATATGTCTGATC 59.184 44.000 14.14 10.83 42.75 2.92
1033 1078 9.250624 CAGTCATGCATATATGTCTGATCATAG 57.749 37.037 14.14 4.16 42.75 2.23
1034 1079 8.979534 AGTCATGCATATATGTCTGATCATAGT 58.020 33.333 14.14 0.00 34.43 2.12
1057 1102 1.448540 GGCACGACCTCATCACCAG 60.449 63.158 0.00 0.00 34.51 4.00
1080 1595 0.036388 ACCACACACAGGCTTATCCG 60.036 55.000 0.00 0.00 40.77 4.18
1085 1600 0.676782 ACACAGGCTTATCCGGTTGC 60.677 55.000 0.00 1.54 41.48 4.17
1203 1718 0.399376 TACCCCGACCACCATGCTAT 60.399 55.000 0.00 0.00 0.00 2.97
1380 1898 1.959226 CCTCAACGAACCCACCGTG 60.959 63.158 0.00 0.00 40.44 4.94
1421 1939 4.082523 CACCGGCGTCACCTCCAT 62.083 66.667 6.01 0.00 35.61 3.41
2274 2848 3.906601 CGTACGTGTATAGTAGCATGCAG 59.093 47.826 21.98 0.34 0.00 4.41
2372 2949 5.945155 AGTTCACTGCAAAAACGTCTTTTA 58.055 33.333 7.72 0.00 0.00 1.52
2374 2951 7.033185 AGTTCACTGCAAAAACGTCTTTTATT 58.967 30.769 7.72 0.00 0.00 1.40
2380 3669 9.361315 ACTGCAAAAACGTCTTTTATTTACTTT 57.639 25.926 7.72 0.00 0.00 2.66
2571 5619 9.559958 CAAACCACATATACATTTCAAGAAGAC 57.440 33.333 0.00 0.00 0.00 3.01
2734 5782 7.012610 ACAATGTCGAATGCAGAAATCATCATA 59.987 33.333 0.00 0.00 0.00 2.15
2735 5783 6.923928 TGTCGAATGCAGAAATCATCATAA 57.076 33.333 0.00 0.00 0.00 1.90
3008 6266 2.092914 CCAAAATCTAGCCGGTCCTCTT 60.093 50.000 1.90 0.00 0.00 2.85
3140 6398 0.598065 GCTTCACGAAGGTTTGCCAT 59.402 50.000 8.78 0.00 38.80 4.40
3211 6469 1.669604 TTTGCTACAAACTGCACCGA 58.330 45.000 0.00 0.00 39.05 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 78 8.429237 TTGGTTTCAACATTTATGGGATTACT 57.571 30.769 0.00 0.00 0.00 2.24
141 143 5.751990 GGAGTCTGAAACGTTCTGAAAAGTA 59.248 40.000 0.00 0.00 38.98 2.24
249 251 8.051901 ACTACTCCCGATTTTCCTAAATTTTG 57.948 34.615 0.00 0.00 34.16 2.44
254 257 5.349061 GGACTACTCCCGATTTTCCTAAA 57.651 43.478 0.00 0.00 0.00 1.85
266 269 1.340795 TGTCTCCTTCGGACTACTCCC 60.341 57.143 0.00 0.00 35.04 4.30
268 271 1.397692 CGTGTCTCCTTCGGACTACTC 59.602 57.143 0.00 0.00 35.04 2.59
280 283 3.371063 TGGACGCCTCGTGTCTCC 61.371 66.667 5.42 0.00 41.37 3.71
443 449 3.502191 AACAGCTCGAAACAAAAGCAA 57.498 38.095 0.00 0.00 38.51 3.91
489 495 4.699522 GGGGCGCTTGGAGACGTT 62.700 66.667 7.64 0.00 0.00 3.99
550 558 4.380867 GGTTCAAGGATGTTGCAATACCTG 60.381 45.833 18.03 13.46 0.00 4.00
555 563 4.961438 AAAGGTTCAAGGATGTTGCAAT 57.039 36.364 0.59 0.00 0.00 3.56
564 572 5.364446 TCACACTACACTAAAGGTTCAAGGA 59.636 40.000 0.00 0.00 0.00 3.36
568 576 5.305902 TCCATCACACTACACTAAAGGTTCA 59.694 40.000 0.00 0.00 0.00 3.18
569 577 5.790593 TCCATCACACTACACTAAAGGTTC 58.209 41.667 0.00 0.00 0.00 3.62
574 582 5.105473 GGCTACTCCATCACACTACACTAAA 60.105 44.000 0.00 0.00 34.01 1.85
577 585 2.761208 GGCTACTCCATCACACTACACT 59.239 50.000 0.00 0.00 34.01 3.55
578 586 2.479730 CGGCTACTCCATCACACTACAC 60.480 54.545 0.00 0.00 34.01 2.90
579 587 1.749063 CGGCTACTCCATCACACTACA 59.251 52.381 0.00 0.00 34.01 2.74
580 588 1.067212 CCGGCTACTCCATCACACTAC 59.933 57.143 0.00 0.00 34.01 2.73
582 590 0.324368 TCCGGCTACTCCATCACACT 60.324 55.000 0.00 0.00 34.01 3.55
583 591 0.179108 GTCCGGCTACTCCATCACAC 60.179 60.000 0.00 0.00 34.01 3.82
584 592 1.663379 CGTCCGGCTACTCCATCACA 61.663 60.000 0.00 0.00 34.01 3.58
585 593 1.065928 CGTCCGGCTACTCCATCAC 59.934 63.158 0.00 0.00 34.01 3.06
586 594 0.467474 ATCGTCCGGCTACTCCATCA 60.467 55.000 0.00 0.00 34.01 3.07
587 595 0.039074 CATCGTCCGGCTACTCCATC 60.039 60.000 0.00 0.00 34.01 3.51
588 596 2.041976 CATCGTCCGGCTACTCCAT 58.958 57.895 0.00 0.00 34.01 3.41
589 597 2.782222 GCATCGTCCGGCTACTCCA 61.782 63.158 0.00 0.00 34.01 3.86
590 598 2.027751 GCATCGTCCGGCTACTCC 59.972 66.667 0.00 0.00 0.00 3.85
591 599 0.941463 CATGCATCGTCCGGCTACTC 60.941 60.000 0.00 0.00 0.00 2.59
592 600 1.068083 CATGCATCGTCCGGCTACT 59.932 57.895 0.00 0.00 0.00 2.57
593 601 0.031585 TACATGCATCGTCCGGCTAC 59.968 55.000 0.00 0.00 0.00 3.58
594 602 0.313987 CTACATGCATCGTCCGGCTA 59.686 55.000 0.00 0.00 0.00 3.93
595 603 1.068083 CTACATGCATCGTCCGGCT 59.932 57.895 0.00 0.00 0.00 5.52
596 604 0.810031 AACTACATGCATCGTCCGGC 60.810 55.000 0.00 0.00 0.00 6.13
597 605 1.209128 GAACTACATGCATCGTCCGG 58.791 55.000 0.00 0.00 0.00 5.14
598 606 0.846401 CGAACTACATGCATCGTCCG 59.154 55.000 0.00 0.00 0.00 4.79
599 607 1.852895 GTCGAACTACATGCATCGTCC 59.147 52.381 0.00 0.00 36.70 4.79
600 608 1.513178 CGTCGAACTACATGCATCGTC 59.487 52.381 0.00 0.00 36.70 4.20
601 609 1.135489 ACGTCGAACTACATGCATCGT 60.135 47.619 0.00 1.32 36.70 3.73
602 610 1.545759 ACGTCGAACTACATGCATCG 58.454 50.000 0.00 0.00 36.67 3.84
603 611 3.692576 ACTACGTCGAACTACATGCATC 58.307 45.455 0.00 0.00 0.00 3.91
604 612 3.777465 ACTACGTCGAACTACATGCAT 57.223 42.857 0.00 0.00 0.00 3.96
605 613 3.239254 CAACTACGTCGAACTACATGCA 58.761 45.455 0.00 0.00 0.00 3.96
606 614 2.027688 GCAACTACGTCGAACTACATGC 59.972 50.000 0.00 0.00 0.00 4.06
607 615 3.239254 TGCAACTACGTCGAACTACATG 58.761 45.455 0.00 0.00 0.00 3.21
608 616 3.564235 TGCAACTACGTCGAACTACAT 57.436 42.857 0.00 0.00 0.00 2.29
609 617 3.058085 TCATGCAACTACGTCGAACTACA 60.058 43.478 0.00 0.00 0.00 2.74
610 618 3.495193 TCATGCAACTACGTCGAACTAC 58.505 45.455 0.00 0.00 0.00 2.73
611 619 3.189910 ACTCATGCAACTACGTCGAACTA 59.810 43.478 0.00 0.00 0.00 2.24
612 620 2.030185 ACTCATGCAACTACGTCGAACT 60.030 45.455 0.00 0.00 0.00 3.01
613 621 2.325761 ACTCATGCAACTACGTCGAAC 58.674 47.619 0.00 0.00 0.00 3.95
614 622 2.717580 ACTCATGCAACTACGTCGAA 57.282 45.000 0.00 0.00 0.00 3.71
615 623 2.717580 AACTCATGCAACTACGTCGA 57.282 45.000 0.00 0.00 0.00 4.20
616 624 2.475111 ACAAACTCATGCAACTACGTCG 59.525 45.455 0.00 0.00 0.00 5.12
617 625 5.445939 CCATACAAACTCATGCAACTACGTC 60.446 44.000 0.00 0.00 0.00 4.34
618 626 4.391830 CCATACAAACTCATGCAACTACGT 59.608 41.667 0.00 0.00 0.00 3.57
619 627 4.629634 TCCATACAAACTCATGCAACTACG 59.370 41.667 0.00 0.00 0.00 3.51
620 628 6.683974 ATCCATACAAACTCATGCAACTAC 57.316 37.500 0.00 0.00 0.00 2.73
621 629 7.701539 AAATCCATACAAACTCATGCAACTA 57.298 32.000 0.00 0.00 0.00 2.24
622 630 6.594788 AAATCCATACAAACTCATGCAACT 57.405 33.333 0.00 0.00 0.00 3.16
623 631 8.243426 TCTTAAATCCATACAAACTCATGCAAC 58.757 33.333 0.00 0.00 0.00 4.17
624 632 8.347004 TCTTAAATCCATACAAACTCATGCAA 57.653 30.769 0.00 0.00 0.00 4.08
625 633 7.936496 TCTTAAATCCATACAAACTCATGCA 57.064 32.000 0.00 0.00 0.00 3.96
644 652 9.051679 CCGGACACATCAATTAACATATCTTAA 57.948 33.333 0.00 0.00 0.00 1.85
645 653 8.425703 TCCGGACACATCAATTAACATATCTTA 58.574 33.333 0.00 0.00 0.00 2.10
646 654 7.279615 TCCGGACACATCAATTAACATATCTT 58.720 34.615 0.00 0.00 0.00 2.40
647 655 6.826668 TCCGGACACATCAATTAACATATCT 58.173 36.000 0.00 0.00 0.00 1.98
648 656 7.173218 ACATCCGGACACATCAATTAACATATC 59.827 37.037 6.12 0.00 0.00 1.63
649 657 6.998074 ACATCCGGACACATCAATTAACATAT 59.002 34.615 6.12 0.00 0.00 1.78
650 658 6.259829 CACATCCGGACACATCAATTAACATA 59.740 38.462 6.12 0.00 0.00 2.29
651 659 5.066375 CACATCCGGACACATCAATTAACAT 59.934 40.000 6.12 0.00 0.00 2.71
652 660 4.394610 CACATCCGGACACATCAATTAACA 59.605 41.667 6.12 0.00 0.00 2.41
653 661 4.201910 CCACATCCGGACACATCAATTAAC 60.202 45.833 6.12 0.00 0.00 2.01
654 662 3.944650 CCACATCCGGACACATCAATTAA 59.055 43.478 6.12 0.00 0.00 1.40
655 663 3.198853 TCCACATCCGGACACATCAATTA 59.801 43.478 6.12 0.00 0.00 1.40
656 664 2.026356 TCCACATCCGGACACATCAATT 60.026 45.455 6.12 0.00 0.00 2.32
657 665 1.559219 TCCACATCCGGACACATCAAT 59.441 47.619 6.12 0.00 0.00 2.57
658 666 0.980423 TCCACATCCGGACACATCAA 59.020 50.000 6.12 0.00 0.00 2.57
659 667 1.203237 ATCCACATCCGGACACATCA 58.797 50.000 6.12 0.00 38.07 3.07
660 668 1.942657 CAATCCACATCCGGACACATC 59.057 52.381 6.12 0.00 38.07 3.06
661 669 1.559219 TCAATCCACATCCGGACACAT 59.441 47.619 6.12 0.00 38.07 3.21
662 670 0.980423 TCAATCCACATCCGGACACA 59.020 50.000 6.12 0.00 38.07 3.72
663 671 2.107950 TTCAATCCACATCCGGACAC 57.892 50.000 6.12 0.00 38.07 3.67
664 672 3.364460 AATTCAATCCACATCCGGACA 57.636 42.857 6.12 0.00 38.07 4.02
665 673 4.718940 AAAATTCAATCCACATCCGGAC 57.281 40.909 6.12 0.00 38.07 4.79
684 692 0.536460 GACCGGGCACTCCTCAAAAA 60.536 55.000 0.00 0.00 0.00 1.94
685 693 1.072505 GACCGGGCACTCCTCAAAA 59.927 57.895 0.00 0.00 0.00 2.44
686 694 2.111999 CTGACCGGGCACTCCTCAAA 62.112 60.000 5.41 0.00 0.00 2.69
687 695 2.525629 TGACCGGGCACTCCTCAA 60.526 61.111 5.41 0.00 0.00 3.02
688 696 2.997315 CTGACCGGGCACTCCTCA 60.997 66.667 5.41 0.00 0.00 3.86
689 697 2.997897 ACTGACCGGGCACTCCTC 60.998 66.667 5.41 0.00 0.00 3.71
690 698 3.314331 CACTGACCGGGCACTCCT 61.314 66.667 5.41 0.00 0.00 3.69
691 699 3.591254 GACACTGACCGGGCACTCC 62.591 68.421 5.41 0.00 0.00 3.85
692 700 2.048127 GACACTGACCGGGCACTC 60.048 66.667 5.41 0.00 0.00 3.51
693 701 3.626924 GGACACTGACCGGGCACT 61.627 66.667 5.41 0.00 0.00 4.40
728 736 2.552231 AATACGGCCCCTCAAGCACC 62.552 60.000 0.00 0.00 0.00 5.01
729 737 0.679960 AAATACGGCCCCTCAAGCAC 60.680 55.000 0.00 0.00 0.00 4.40
730 738 0.679640 CAAATACGGCCCCTCAAGCA 60.680 55.000 0.00 0.00 0.00 3.91
731 739 0.393808 TCAAATACGGCCCCTCAAGC 60.394 55.000 0.00 0.00 0.00 4.01
732 740 1.339631 TGTCAAATACGGCCCCTCAAG 60.340 52.381 0.00 0.00 0.00 3.02
733 741 0.693622 TGTCAAATACGGCCCCTCAA 59.306 50.000 0.00 0.00 0.00 3.02
734 742 0.693622 TTGTCAAATACGGCCCCTCA 59.306 50.000 0.00 0.00 0.00 3.86
735 743 1.092348 GTTGTCAAATACGGCCCCTC 58.908 55.000 0.00 0.00 0.00 4.30
736 744 0.696501 AGTTGTCAAATACGGCCCCT 59.303 50.000 0.00 0.00 0.00 4.79
737 745 1.092348 GAGTTGTCAAATACGGCCCC 58.908 55.000 0.00 0.00 0.00 5.80
738 746 1.092348 GGAGTTGTCAAATACGGCCC 58.908 55.000 0.00 0.00 0.00 5.80
739 747 0.725117 CGGAGTTGTCAAATACGGCC 59.275 55.000 9.77 0.00 0.00 6.13
740 748 1.392510 GTCGGAGTTGTCAAATACGGC 59.607 52.381 16.94 12.14 0.00 5.68
741 749 2.666508 CAGTCGGAGTTGTCAAATACGG 59.333 50.000 16.94 0.00 0.00 4.02
742 750 3.314553 ACAGTCGGAGTTGTCAAATACG 58.685 45.455 11.36 11.36 0.00 3.06
743 751 5.706916 TCTACAGTCGGAGTTGTCAAATAC 58.293 41.667 0.00 0.00 0.00 1.89
744 752 5.970317 TCTACAGTCGGAGTTGTCAAATA 57.030 39.130 0.00 0.00 0.00 1.40
745 753 4.866508 TCTACAGTCGGAGTTGTCAAAT 57.133 40.909 0.00 0.00 0.00 2.32
746 754 4.556233 CATCTACAGTCGGAGTTGTCAAA 58.444 43.478 0.00 0.00 0.00 2.69
747 755 3.614150 GCATCTACAGTCGGAGTTGTCAA 60.614 47.826 0.00 0.00 0.00 3.18
748 756 2.094700 GCATCTACAGTCGGAGTTGTCA 60.095 50.000 0.00 0.00 0.00 3.58
749 757 2.164624 AGCATCTACAGTCGGAGTTGTC 59.835 50.000 0.00 0.00 0.00 3.18
750 758 2.164624 GAGCATCTACAGTCGGAGTTGT 59.835 50.000 0.00 1.37 0.00 3.32
751 759 2.803451 GAGCATCTACAGTCGGAGTTG 58.197 52.381 0.00 0.00 0.00 3.16
765 773 8.704234 CGGAGTAAAATGAGTATTTAGAGCATC 58.296 37.037 0.00 0.00 35.50 3.91
766 774 8.204836 ACGGAGTAAAATGAGTATTTAGAGCAT 58.795 33.333 0.00 0.00 41.94 3.79
767 775 7.553334 ACGGAGTAAAATGAGTATTTAGAGCA 58.447 34.615 0.00 0.00 41.94 4.26
800 808 9.725019 CCTGAATGCATGTAGGTTTCTATATAA 57.275 33.333 17.35 0.00 0.00 0.98
801 809 9.100197 TCCTGAATGCATGTAGGTTTCTATATA 57.900 33.333 22.17 4.33 0.00 0.86
802 810 7.977818 TCCTGAATGCATGTAGGTTTCTATAT 58.022 34.615 22.17 0.00 0.00 0.86
803 811 7.373617 TCCTGAATGCATGTAGGTTTCTATA 57.626 36.000 22.17 5.45 0.00 1.31
804 812 6.252599 TCCTGAATGCATGTAGGTTTCTAT 57.747 37.500 22.17 0.00 0.00 1.98
805 813 5.692115 TCCTGAATGCATGTAGGTTTCTA 57.308 39.130 22.17 6.57 0.00 2.10
806 814 4.574674 TCCTGAATGCATGTAGGTTTCT 57.425 40.909 22.17 0.00 0.00 2.52
807 815 4.437390 CGTTCCTGAATGCATGTAGGTTTC 60.437 45.833 22.17 14.90 0.00 2.78
808 816 3.440173 CGTTCCTGAATGCATGTAGGTTT 59.560 43.478 22.17 0.00 0.00 3.27
809 817 3.009723 CGTTCCTGAATGCATGTAGGTT 58.990 45.455 22.17 0.00 0.00 3.50
810 818 2.236146 TCGTTCCTGAATGCATGTAGGT 59.764 45.455 22.17 0.00 0.00 3.08
811 819 2.905075 TCGTTCCTGAATGCATGTAGG 58.095 47.619 18.84 18.84 0.00 3.18
812 820 4.201851 CCTTTCGTTCCTGAATGCATGTAG 60.202 45.833 0.00 1.31 0.00 2.74
813 821 3.689161 CCTTTCGTTCCTGAATGCATGTA 59.311 43.478 0.00 0.00 0.00 2.29
814 822 2.489329 CCTTTCGTTCCTGAATGCATGT 59.511 45.455 0.00 0.00 0.00 3.21
815 823 2.749076 TCCTTTCGTTCCTGAATGCATG 59.251 45.455 0.00 0.00 0.00 4.06
816 824 3.012518 CTCCTTTCGTTCCTGAATGCAT 58.987 45.455 0.00 0.00 0.00 3.96
817 825 2.224523 ACTCCTTTCGTTCCTGAATGCA 60.225 45.455 0.00 0.00 0.00 3.96
818 826 2.427506 ACTCCTTTCGTTCCTGAATGC 58.572 47.619 0.00 0.00 0.00 3.56
819 827 7.843490 TTAATACTCCTTTCGTTCCTGAATG 57.157 36.000 0.00 0.00 0.00 2.67
820 828 8.319146 TCTTTAATACTCCTTTCGTTCCTGAAT 58.681 33.333 0.00 0.00 0.00 2.57
821 829 7.673180 TCTTTAATACTCCTTTCGTTCCTGAA 58.327 34.615 0.00 0.00 0.00 3.02
822 830 7.235935 TCTTTAATACTCCTTTCGTTCCTGA 57.764 36.000 0.00 0.00 0.00 3.86
823 831 9.032420 GTATCTTTAATACTCCTTTCGTTCCTG 57.968 37.037 0.00 0.00 0.00 3.86
824 832 8.979534 AGTATCTTTAATACTCCTTTCGTTCCT 58.020 33.333 0.00 0.00 29.47 3.36
825 833 9.597170 AAGTATCTTTAATACTCCTTTCGTTCC 57.403 33.333 0.00 0.00 34.04 3.62
838 846 9.710979 GCGTGTTGCATAAAAGTATCTTTAATA 57.289 29.630 0.00 0.00 45.45 0.98
839 847 8.614994 GCGTGTTGCATAAAAGTATCTTTAAT 57.385 30.769 0.00 0.00 45.45 1.40
856 864 0.164647 GTCACATCTGAGCGTGTTGC 59.835 55.000 9.13 0.00 46.98 4.17
857 865 0.436150 CGTCACATCTGAGCGTGTTG 59.564 55.000 9.13 1.74 34.66 3.33
858 866 0.032130 ACGTCACATCTGAGCGTGTT 59.968 50.000 9.13 0.00 34.76 3.32
897 905 2.877043 GCATGACTGCCAAATTAGGG 57.123 50.000 0.00 0.00 42.88 3.53
911 951 2.741985 CCGACAGCAACGGCATGA 60.742 61.111 0.00 0.00 43.74 3.07
941 981 0.890542 GGACTGCATGTGCCTGTTCA 60.891 55.000 2.07 0.00 41.18 3.18
943 983 4.085876 GGACTGCATGTGCCTGTT 57.914 55.556 2.07 0.00 41.18 3.16
983 1024 1.792949 GCATGACGACTTCTCAACGTT 59.207 47.619 0.00 0.00 40.29 3.99
997 1038 0.393402 TGCATGACTGGGAGCATGAC 60.393 55.000 0.00 0.00 43.43 3.06
998 1039 0.549469 ATGCATGACTGGGAGCATGA 59.451 50.000 0.00 0.00 45.19 3.07
1050 1095 1.211703 TGTGTGTGGTGAACTGGTGAT 59.788 47.619 0.00 0.00 0.00 3.06
1057 1102 1.961793 TAAGCCTGTGTGTGGTGAAC 58.038 50.000 0.00 0.00 0.00 3.18
1080 1595 0.687354 TGGAGGAGAAGTGAGCAACC 59.313 55.000 0.00 0.00 0.00 3.77
1085 1600 0.179936 GGCCATGGAGGAGAAGTGAG 59.820 60.000 18.40 0.00 41.22 3.51
1203 1718 2.572556 TGGCGGAAAGGTGGTAGATAAA 59.427 45.455 0.00 0.00 0.00 1.40
1233 1751 0.179108 GGGATGTAGACGTGCAGACC 60.179 60.000 0.00 0.00 0.00 3.85
1597 2118 3.986006 GGACACCACGAGGACGCA 61.986 66.667 5.68 0.00 43.96 5.24
2240 2814 2.022195 ACACGTACGTAGGCAGATCAT 58.978 47.619 22.34 0.00 0.00 2.45
2251 2825 3.313249 TGCATGCTACTATACACGTACGT 59.687 43.478 16.72 16.72 0.00 3.57
2252 2826 3.880610 TGCATGCTACTATACACGTACG 58.119 45.455 20.33 15.01 0.00 3.67
2253 2827 3.669122 GCTGCATGCTACTATACACGTAC 59.331 47.826 20.33 0.00 38.95 3.67
2254 2828 3.316868 TGCTGCATGCTACTATACACGTA 59.683 43.478 20.33 0.00 43.37 3.57
2274 2848 1.419012 TGTCATCTCCCATCTGGATGC 59.581 52.381 5.16 0.00 44.07 3.91
2372 2949 5.105997 GCTGTTGGAGATGCTCAAAGTAAAT 60.106 40.000 0.00 0.00 31.08 1.40
2374 2951 3.753272 GCTGTTGGAGATGCTCAAAGTAA 59.247 43.478 0.00 0.00 31.08 2.24
2380 3669 1.078918 CGGCTGTTGGAGATGCTCA 60.079 57.895 0.00 0.00 31.08 4.26
2417 3706 2.300066 GCGCGGCAAACAGGTTTTC 61.300 57.895 8.83 0.00 0.00 2.29
2505 5545 1.157257 TTTGCGCTCTGCTGAAACGA 61.157 50.000 9.73 3.12 46.63 3.85
2540 5587 3.691049 ATGTATATGTGGTTTGTGCGC 57.309 42.857 0.00 0.00 0.00 6.09
2571 5619 6.271396 TGTTTGTTTGATCATTTTTGCTCG 57.729 33.333 0.00 0.00 0.00 5.03
2698 5746 6.619744 TGCATTCGACATTGTATTGTTCATT 58.380 32.000 0.00 0.00 0.00 2.57
2734 5782 2.198827 TGGCATGGACGACAAAGATT 57.801 45.000 0.00 0.00 0.00 2.40
2735 5783 2.019249 CATGGCATGGACGACAAAGAT 58.981 47.619 19.80 0.00 0.00 2.40
2891 6148 5.012664 TGGCCAAGATTTAGACTACTCACAA 59.987 40.000 0.61 0.00 0.00 3.33
3008 6266 4.122143 GCAAGCCCAATTTGCTATTGTA 57.878 40.909 10.03 0.00 45.64 2.41
3140 6398 4.422073 AGCGGATGACATCTATCCAAAA 57.578 40.909 14.95 0.00 43.46 2.44
3211 6469 1.659794 GCAAACGGTGAGTTGCCAT 59.340 52.632 4.99 0.00 43.37 4.40


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

AutoCloner maintained by Alex Coulton.