Multiple sequence alignment - TraesCS5B01G556700

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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 TraesCS5B01G556700 chr5B 100.000 5708 0 0 1 5708 705063023 705068730 0.000000e+00 10541.0
1 TraesCS5B01G556700 chr5B 86.520 1276 134 18 2709 3981 705137726 705138966 0.000000e+00 1369.0
2 TraesCS5B01G556700 chr5B 85.994 1278 140 18 2709 3979 705271651 705272896 0.000000e+00 1332.0
3 TraesCS5B01G556700 chr5B 86.570 968 112 16 2707 3664 705258495 705259454 0.000000e+00 1051.0
4 TraesCS5B01G556700 chr5B 84.148 839 99 13 3980 4804 705139053 705139871 0.000000e+00 782.0
5 TraesCS5B01G556700 chr5B 83.727 719 80 18 4007 4695 705259868 705260579 0.000000e+00 645.0
6 TraesCS5B01G556700 chr5B 84.325 689 63 22 3980 4626 705273036 705273721 2.900000e-177 632.0
7 TraesCS5B01G556700 chr5B 86.131 137 12 4 4900 5030 705274044 705274179 2.140000e-29 141.0
8 TraesCS5B01G556700 chr5D 96.788 2646 67 5 2573 5201 558032734 558035378 0.000000e+00 4399.0
9 TraesCS5B01G556700 chr5D 93.750 1904 114 4 556 2458 558029768 558031667 0.000000e+00 2852.0
10 TraesCS5B01G556700 chr5D 85.945 1423 153 23 2584 3981 557546121 557544721 0.000000e+00 1476.0
11 TraesCS5B01G556700 chr5D 83.671 1433 186 33 2584 3981 557538531 557537112 0.000000e+00 1306.0
12 TraesCS5B01G556700 chr5D 83.749 843 101 16 3980 4807 557544664 557543843 0.000000e+00 765.0
13 TraesCS5B01G556700 chr5D 88.614 606 54 13 86 682 558029233 558029832 0.000000e+00 723.0
14 TraesCS5B01G556700 chr5D 83.472 720 81 21 4007 4695 557536982 557536270 2.240000e-178 636.0
15 TraesCS5B01G556700 chr5D 86.226 530 36 19 5210 5707 558037384 558037908 1.810000e-149 540.0
16 TraesCS5B01G556700 chr5D 81.905 105 14 5 5537 5637 9530506 9530609 3.660000e-12 84.2
17 TraesCS5B01G556700 chr4A 85.482 1412 154 18 2604 3981 609818006 609816612 0.000000e+00 1424.0
18 TraesCS5B01G556700 chr4A 85.337 1289 170 14 2707 3981 609920017 609918734 0.000000e+00 1315.0
19 TraesCS5B01G556700 chr4A 93.856 651 34 5 4041 4685 610022075 610021425 0.000000e+00 976.0
20 TraesCS5B01G556700 chr4A 84.827 837 99 12 3980 4807 609926909 609926092 0.000000e+00 817.0
21 TraesCS5B01G556700 chr4A 82.700 711 98 16 4007 4700 609918605 609917903 4.890000e-170 608.0
22 TraesCS5B01G556700 chr4A 85.395 582 49 23 3981 4530 609816408 609815831 6.420000e-159 571.0
23 TraesCS5B01G556700 chr4A 84.314 153 17 5 2102 2250 609819115 609818966 5.960000e-30 143.0
24 TraesCS5B01G556700 chr4A 78.543 247 29 14 1490 1712 609823375 609823129 2.140000e-29 141.0
25 TraesCS5B01G556700 chr4A 78.832 137 22 6 5490 5623 577107193 577107325 1.020000e-12 86.1
26 TraesCS5B01G556700 chr4A 100.000 31 0 0 5210 5240 609946000 609945970 2.220000e-04 58.4
27 TraesCS5B01G556700 chr6B 82.431 1275 194 17 2710 3981 57285463 57286710 0.000000e+00 1086.0
28 TraesCS5B01G556700 chr6B 80.445 1258 207 22 2729 3965 57322933 57324172 0.000000e+00 924.0
29 TraesCS5B01G556700 chr6B 80.952 735 109 21 3980 4697 57324316 57325036 2.320000e-153 553.0
30 TraesCS5B01G556700 chr6B 79.130 115 15 8 5552 5662 640704637 640704746 2.850000e-08 71.3
31 TraesCS5B01G556700 chr6D 81.697 1273 204 15 2710 3980 30283603 30282358 0.000000e+00 1033.0
32 TraesCS5B01G556700 chr6D 81.946 781 130 8 3203 3981 30226082 30225311 0.000000e+00 651.0
33 TraesCS5B01G556700 chr6D 81.140 737 109 21 3980 4700 30246156 30245434 1.070000e-156 564.0
34 TraesCS5B01G556700 chr6D 80.985 731 111 19 3980 4695 30237347 30236630 6.460000e-154 555.0
35 TraesCS5B01G556700 chr6D 85.859 297 38 2 3982 4275 30225186 30224891 4.290000e-81 313.0
36 TraesCS5B01G556700 chr3B 81.684 748 96 27 3980 4697 811447564 811448300 8.240000e-163 584.0
37 TraesCS5B01G556700 chr3A 81.694 732 102 16 3980 4697 734130406 734131119 1.070000e-161 580.0
38 TraesCS5B01G556700 chr6A 80.748 722 111 19 3980 4686 32670294 32671002 6.510000e-149 538.0
39 TraesCS5B01G556700 chr3D 95.548 292 12 1 4910 5201 265481357 265481647 3.110000e-127 466.0
40 TraesCS5B01G556700 chr5A 95.294 85 4 0 5117 5201 704822226 704822142 9.980000e-28 135.0
41 TraesCS5B01G556700 chr2D 80.451 133 19 7 5521 5651 577332758 577332631 1.690000e-15 95.3
42 TraesCS5B01G556700 chr4D 81.928 83 11 2 5589 5671 375560298 375560220 3.690000e-07 67.6
43 TraesCS5B01G556700 chr7B 100.000 28 0 0 5441 5468 167626068 167626095 1.000000e-02 52.8
44 TraesCS5B01G556700 chr1D 100.000 28 0 0 5441 5468 311897022 311896995 1.000000e-02 52.8
45 TraesCS5B01G556700 chr1A 100.000 28 0 0 5441 5468 392051613 392051586 1.000000e-02 52.8


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 TraesCS5B01G556700 chr5B 705063023 705068730 5707 False 10541.000000 10541 100.000000 1 5708 1 chr5B.!!$F1 5707
1 TraesCS5B01G556700 chr5B 705137726 705139871 2145 False 1075.500000 1369 85.334000 2709 4804 2 chr5B.!!$F2 2095
2 TraesCS5B01G556700 chr5B 705258495 705260579 2084 False 848.000000 1051 85.148500 2707 4695 2 chr5B.!!$F3 1988
3 TraesCS5B01G556700 chr5B 705271651 705274179 2528 False 701.666667 1332 85.483333 2709 5030 3 chr5B.!!$F4 2321
4 TraesCS5B01G556700 chr5D 558029233 558037908 8675 False 2128.500000 4399 91.344500 86 5707 4 chr5D.!!$F2 5621
5 TraesCS5B01G556700 chr5D 557543843 557546121 2278 True 1120.500000 1476 84.847000 2584 4807 2 chr5D.!!$R2 2223
6 TraesCS5B01G556700 chr5D 557536270 557538531 2261 True 971.000000 1306 83.571500 2584 4695 2 chr5D.!!$R1 2111
7 TraesCS5B01G556700 chr4A 610021425 610022075 650 True 976.000000 976 93.856000 4041 4685 1 chr4A.!!$R4 644
8 TraesCS5B01G556700 chr4A 609917903 609920017 2114 True 961.500000 1315 84.018500 2707 4700 2 chr4A.!!$R6 1993
9 TraesCS5B01G556700 chr4A 609926092 609926909 817 True 817.000000 817 84.827000 3980 4807 1 chr4A.!!$R2 827
10 TraesCS5B01G556700 chr4A 609815831 609819115 3284 True 712.666667 1424 85.063667 2102 4530 3 chr4A.!!$R5 2428
11 TraesCS5B01G556700 chr6B 57285463 57286710 1247 False 1086.000000 1086 82.431000 2710 3981 1 chr6B.!!$F1 1271
12 TraesCS5B01G556700 chr6B 57322933 57325036 2103 False 738.500000 924 80.698500 2729 4697 2 chr6B.!!$F3 1968
13 TraesCS5B01G556700 chr6D 30282358 30283603 1245 True 1033.000000 1033 81.697000 2710 3980 1 chr6D.!!$R3 1270
14 TraesCS5B01G556700 chr6D 30245434 30246156 722 True 564.000000 564 81.140000 3980 4700 1 chr6D.!!$R2 720
15 TraesCS5B01G556700 chr6D 30236630 30237347 717 True 555.000000 555 80.985000 3980 4695 1 chr6D.!!$R1 715
16 TraesCS5B01G556700 chr6D 30224891 30226082 1191 True 482.000000 651 83.902500 3203 4275 2 chr6D.!!$R4 1072
17 TraesCS5B01G556700 chr3B 811447564 811448300 736 False 584.000000 584 81.684000 3980 4697 1 chr3B.!!$F1 717
18 TraesCS5B01G556700 chr3A 734130406 734131119 713 False 580.000000 580 81.694000 3980 4697 1 chr3A.!!$F1 717
19 TraesCS5B01G556700 chr6A 32670294 32671002 708 False 538.000000 538 80.748000 3980 4686 1 chr6A.!!$F1 706

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
983 1053 0.446222 TCGCTAGGAAACATTTGCGC 59.554 50.0 0.0 0.0 42.58 6.09 F
1673 1743 0.682292 TGCGTGTATGTTCTCCACCA 59.318 50.0 0.0 0.0 0.00 4.17 F
2103 2173 0.529378 CTTGACCTTTCATGCTGGCC 59.471 55.0 0.0 0.0 0.00 5.36 F
3489 4679 1.855295 TGTGCCCGATACTGTCCTAA 58.145 50.0 0.0 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2082 2152 1.615392 GCCAGCATGAAAGGTCAAGTT 59.385 47.619 0.00 0.0 39.69 2.66 R
3489 4679 1.078848 GCCAGAGCCGACTGTCATT 60.079 57.895 8.73 0.0 36.30 2.57 R
3503 4693 2.430465 CCATAATCAATCCTCGGCCAG 58.570 52.381 2.24 0.0 0.00 4.85 R
5032 6786 1.927487 TTCTGGTGGTAGCCGAACTA 58.073 50.000 0.00 0.0 0.00 2.24 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
24 25 7.562454 TTCCTTTTCGAGTTCATACACTTTT 57.438 32.000 0.00 0.00 0.00 2.27
25 26 7.562454 TCCTTTTCGAGTTCATACACTTTTT 57.438 32.000 0.00 0.00 0.00 1.94
26 27 7.636326 TCCTTTTCGAGTTCATACACTTTTTC 58.364 34.615 0.00 0.00 0.00 2.29
27 28 7.281324 TCCTTTTCGAGTTCATACACTTTTTCA 59.719 33.333 0.00 0.00 0.00 2.69
28 29 7.913297 CCTTTTCGAGTTCATACACTTTTTCAA 59.087 33.333 0.00 0.00 0.00 2.69
29 30 9.284594 CTTTTCGAGTTCATACACTTTTTCAAA 57.715 29.630 0.00 0.00 0.00 2.69
30 31 8.609478 TTTCGAGTTCATACACTTTTTCAAAC 57.391 30.769 0.00 0.00 0.00 2.93
31 32 7.548196 TCGAGTTCATACACTTTTTCAAACT 57.452 32.000 0.00 0.00 0.00 2.66
32 33 7.627340 TCGAGTTCATACACTTTTTCAAACTC 58.373 34.615 0.00 0.00 38.51 3.01
33 34 7.822575 GAGTTCATACACTTTTTCAAACTCG 57.177 36.000 0.00 0.00 34.13 4.18
34 35 7.316544 AGTTCATACACTTTTTCAAACTCGT 57.683 32.000 0.00 0.00 0.00 4.18
35 36 7.758495 AGTTCATACACTTTTTCAAACTCGTT 58.242 30.769 0.00 0.00 0.00 3.85
36 37 8.885722 AGTTCATACACTTTTTCAAACTCGTTA 58.114 29.630 0.00 0.00 0.00 3.18
37 38 9.493206 GTTCATACACTTTTTCAAACTCGTTAA 57.507 29.630 0.00 0.00 0.00 2.01
38 39 9.493206 TTCATACACTTTTTCAAACTCGTTAAC 57.507 29.630 0.00 0.00 0.00 2.01
39 40 8.885722 TCATACACTTTTTCAAACTCGTTAACT 58.114 29.630 3.71 0.00 0.00 2.24
40 41 9.498307 CATACACTTTTTCAAACTCGTTAACTT 57.502 29.630 3.71 0.00 0.00 2.66
156 159 9.991388 CAGTTTCATGAACATTGTTTTGATTTT 57.009 25.926 7.89 4.08 40.84 1.82
382 387 6.729690 TGGAACCTTTCAGAATTGAATGTT 57.270 33.333 5.79 5.79 42.60 2.71
383 388 6.514947 TGGAACCTTTCAGAATTGAATGTTG 58.485 36.000 9.15 0.00 42.60 3.33
432 437 6.892310 ACTAAATACGGCCGTTAGTTAAAG 57.108 37.500 38.94 25.98 35.09 1.85
435 440 6.799926 AAATACGGCCGTTAGTTAAAGAAA 57.200 33.333 38.94 14.49 0.00 2.52
436 441 6.413018 AATACGGCCGTTAGTTAAAGAAAG 57.587 37.500 38.94 0.00 0.00 2.62
437 442 3.993920 ACGGCCGTTAGTTAAAGAAAGA 58.006 40.909 28.70 0.00 0.00 2.52
439 444 4.450080 ACGGCCGTTAGTTAAAGAAAGAAG 59.550 41.667 28.70 0.00 0.00 2.85
524 532 1.682005 GCCAGGCCCATGTAGCAAA 60.682 57.895 0.00 0.00 0.00 3.68
551 559 3.582647 TGAGGAGGACAAATGTTAGCTCA 59.417 43.478 0.00 0.00 0.00 4.26
553 561 3.327757 AGGAGGACAAATGTTAGCTCACA 59.672 43.478 2.64 2.64 0.00 3.58
555 563 4.319177 GAGGACAAATGTTAGCTCACAGT 58.681 43.478 6.89 0.45 0.00 3.55
556 564 4.067896 AGGACAAATGTTAGCTCACAGTG 58.932 43.478 6.89 9.42 0.00 3.66
557 565 3.189287 GGACAAATGTTAGCTCACAGTGG 59.811 47.826 15.29 9.65 0.00 4.00
561 631 2.566833 TGTTAGCTCACAGTGGCAAT 57.433 45.000 14.26 0.00 0.00 3.56
578 648 2.481795 GCAATTGCCACAAGACAAGTGT 60.482 45.455 20.06 0.00 42.25 3.55
604 674 7.962934 TCAACTGTAAATCTTGACAAAAACG 57.037 32.000 0.00 0.00 0.00 3.60
623 693 2.128035 CGACTCAACAACTCTGGACAC 58.872 52.381 0.00 0.00 0.00 3.67
635 705 1.352017 TCTGGACACATGCCACAAGAT 59.648 47.619 0.00 0.00 0.00 2.40
638 708 3.346315 TGGACACATGCCACAAGATAAG 58.654 45.455 0.00 0.00 0.00 1.73
651 721 6.722301 CCACAAGATAAGTGCATCAACTATG 58.278 40.000 0.00 0.00 38.74 2.23
656 726 8.833493 CAAGATAAGTGCATCAACTATGAATCA 58.167 33.333 0.00 0.00 39.49 2.57
665 735 7.971722 TGCATCAACTATGAATCATGACAAAAG 59.028 33.333 5.91 0.00 39.49 2.27
705 775 4.596212 TCTCCAATGGATCATGCTAGTCAT 59.404 41.667 0.87 0.00 35.31 3.06
750 820 5.513233 AGCATAAAGAAGGATGTGGACAAT 58.487 37.500 0.00 0.00 0.00 2.71
765 835 4.026744 TGGACAATAGGAGGAGAAGACAG 58.973 47.826 0.00 0.00 0.00 3.51
796 866 7.394816 GCATAACCATGGATGTACTTAGGTAT 58.605 38.462 21.47 0.00 32.36 2.73
812 882 8.788325 ACTTAGGTATATGGACAAGTGAAAAC 57.212 34.615 0.00 0.00 0.00 2.43
817 887 3.963383 ATGGACAAGTGAAAACGACAC 57.037 42.857 0.00 0.00 38.38 3.67
819 889 1.928503 GGACAAGTGAAAACGACACGA 59.071 47.619 0.00 0.00 42.25 4.35
862 932 1.193323 CCAACCAATGCCAGCCAATA 58.807 50.000 0.00 0.00 0.00 1.90
875 945 2.297033 CAGCCAATAGCCACACAAACTT 59.703 45.455 0.00 0.00 45.47 2.66
880 950 5.219633 CCAATAGCCACACAAACTTACAAC 58.780 41.667 0.00 0.00 0.00 3.32
910 980 1.568504 TCCAACTCACGGAAGCCTAT 58.431 50.000 0.00 0.00 0.00 2.57
958 1028 9.624373 AGCATTATATATCCCATCTTCATTCAC 57.376 33.333 0.00 0.00 0.00 3.18
969 1039 1.992667 CTTCATTCACGTTGCTCGCTA 59.007 47.619 0.00 0.00 44.19 4.26
982 1052 1.529826 GCTCGCTAGGAAACATTTGCG 60.530 52.381 0.00 0.00 43.95 4.85
983 1053 0.446222 TCGCTAGGAAACATTTGCGC 59.554 50.000 0.00 0.00 42.58 6.09
1056 1126 2.426431 TTCTTACTTGTCCCCTCCCA 57.574 50.000 0.00 0.00 0.00 4.37
1063 1133 2.178984 ACTTGTCCCCTCCCAAATCAAA 59.821 45.455 0.00 0.00 0.00 2.69
1106 1176 7.338196 TCAGTTCAACTGGATGTTTGAGTTAAA 59.662 33.333 17.71 0.00 45.94 1.52
1129 1199 7.658525 AATATAGTTGTTGCATTCCAATCCA 57.341 32.000 0.00 0.00 35.55 3.41
1140 1210 3.311486 TTCCAATCCAAACCGCATTTC 57.689 42.857 0.00 0.00 0.00 2.17
1163 1233 6.550843 TCGTGCATTACTAATTGGTTTGATG 58.449 36.000 0.00 4.35 0.00 3.07
1195 1265 6.654793 TTCTTCGTTGATTTTTGGTTTTGG 57.345 33.333 0.00 0.00 0.00 3.28
1200 1270 6.998802 TCGTTGATTTTTGGTTTTGGGATAT 58.001 32.000 0.00 0.00 0.00 1.63
1216 1286 7.528996 TTGGGATATCTAAATGGAATTGCTG 57.471 36.000 2.05 0.00 36.10 4.41
1220 1290 6.210185 GGATATCTAAATGGAATTGCTGCCTT 59.790 38.462 2.05 0.00 36.10 4.35
1240 1310 6.645827 TGCCTTGTGTTTGATGTCAATATTTG 59.354 34.615 0.00 0.00 35.55 2.32
1241 1311 6.091169 GCCTTGTGTTTGATGTCAATATTTGG 59.909 38.462 0.00 0.00 35.55 3.28
1380 1450 8.445275 AATATCGCATCAAACCAATTAGTACA 57.555 30.769 0.00 0.00 0.00 2.90
1439 1509 7.736691 TCCATCTATCCATCTATCTTTTCCTGT 59.263 37.037 0.00 0.00 0.00 4.00
1472 1542 7.920682 CCAAGTGTTAATTTGACTAACTTTGCT 59.079 33.333 0.00 0.00 31.06 3.91
1505 1575 2.821969 CCTTAATTGTCTGCTGCTTGGT 59.178 45.455 0.00 0.00 0.00 3.67
1518 1588 1.530013 GCTTGGTTGGATGCTGCTGT 61.530 55.000 0.00 0.00 0.00 4.40
1538 1608 5.237344 GCTGTTGTCAACTTACTCTTGATGT 59.763 40.000 16.45 0.00 30.46 3.06
1559 1629 3.802685 GTGTGTCTTGACAGTGTAAGTCC 59.197 47.826 3.45 0.00 35.15 3.85
1575 1645 8.274322 AGTGTAAGTCCATGAATCATTCCATTA 58.726 33.333 0.00 0.00 0.00 1.90
1673 1743 0.682292 TGCGTGTATGTTCTCCACCA 59.318 50.000 0.00 0.00 0.00 4.17
1753 1823 9.415544 CCTTTTTCCTTCTACAAATTGAATCAG 57.584 33.333 0.00 0.00 0.00 2.90
1831 1901 9.049050 TCTACAAAGTATCACCCCTAAAACATA 57.951 33.333 0.00 0.00 0.00 2.29
1836 1906 7.079451 AGTATCACCCCTAAAACATATCCTG 57.921 40.000 0.00 0.00 0.00 3.86
1906 1976 7.361889 TGTTCGCTTTGAAACCGTTATAATA 57.638 32.000 0.00 0.00 38.60 0.98
1907 1977 7.804712 TGTTCGCTTTGAAACCGTTATAATAA 58.195 30.769 0.00 0.00 38.60 1.40
1975 2045 4.662145 CAAAGGAAATTGTCGTCATAGCC 58.338 43.478 0.00 0.00 0.00 3.93
1982 2052 6.588756 GGAAATTGTCGTCATAGCCGATATTA 59.411 38.462 0.00 0.00 36.62 0.98
1989 2059 8.129211 TGTCGTCATAGCCGATATTATCATAAG 58.871 37.037 4.63 0.00 36.62 1.73
2042 2112 7.608376 TGGTATGAGTTTCGAAATATTTGGTCA 59.392 33.333 14.69 4.74 0.00 4.02
2103 2173 0.529378 CTTGACCTTTCATGCTGGCC 59.471 55.000 0.00 0.00 0.00 5.36
2163 2233 3.416156 GAGTCTTCTTCTGCCCACAATT 58.584 45.455 0.00 0.00 0.00 2.32
2350 2453 3.644966 TCTTGTTCTGTTGGTCCAAGT 57.355 42.857 3.96 0.00 35.26 3.16
2351 2454 3.963129 TCTTGTTCTGTTGGTCCAAGTT 58.037 40.909 3.96 0.00 35.26 2.66
2370 2500 6.920758 CCAAGTTAAATTGGTCAATGTTTCGA 59.079 34.615 23.40 0.00 44.01 3.71
2375 2505 9.620660 GTTAAATTGGTCAATGTTTCGACTAAT 57.379 29.630 0.00 0.00 42.86 1.73
2514 2809 5.155278 ACATGGATGTGTTTGCATTCAAT 57.845 34.783 0.00 0.00 37.83 2.57
2515 2810 6.283544 ACATGGATGTGTTTGCATTCAATA 57.716 33.333 0.00 0.00 37.83 1.90
2517 2812 7.332557 ACATGGATGTGTTTGCATTCAATAAT 58.667 30.769 0.00 0.00 37.83 1.28
2518 2813 7.279090 ACATGGATGTGTTTGCATTCAATAATG 59.721 33.333 0.00 0.00 41.43 1.90
2519 2814 6.699366 TGGATGTGTTTGCATTCAATAATGT 58.301 32.000 0.00 0.00 43.75 2.71
2540 2835 8.644318 AATGTACTTGTTAAATCTAGTAGCCG 57.356 34.615 0.00 0.00 0.00 5.52
2542 2837 8.004087 TGTACTTGTTAAATCTAGTAGCCGAT 57.996 34.615 0.00 0.00 0.00 4.18
2545 2840 7.727181 ACTTGTTAAATCTAGTAGCCGATCAT 58.273 34.615 0.00 0.00 0.00 2.45
2547 2842 9.692749 CTTGTTAAATCTAGTAGCCGATCATAA 57.307 33.333 0.00 0.00 0.00 1.90
2552 2847 8.553459 AAATCTAGTAGCCGATCATAATTTGG 57.447 34.615 0.00 0.00 0.00 3.28
2553 2848 6.665992 TCTAGTAGCCGATCATAATTTGGT 57.334 37.500 0.00 0.00 0.00 3.67
2554 2849 6.455647 TCTAGTAGCCGATCATAATTTGGTG 58.544 40.000 0.00 0.00 0.00 4.17
2555 2850 5.036117 AGTAGCCGATCATAATTTGGTGT 57.964 39.130 0.00 0.00 0.00 4.16
2556 2851 4.816385 AGTAGCCGATCATAATTTGGTGTG 59.184 41.667 0.00 0.00 0.00 3.82
2557 2852 2.358898 AGCCGATCATAATTTGGTGTGC 59.641 45.455 0.00 0.00 0.00 4.57
2559 2854 2.687425 CCGATCATAATTTGGTGTGCCA 59.313 45.455 0.00 0.00 44.38 4.92
2601 3731 9.712305 TTGTACCATTTTACCAATAACCAAATG 57.288 29.630 0.00 0.00 0.00 2.32
2695 3831 4.611366 GCGGAAATCTACGACAACAAAAAG 59.389 41.667 0.00 0.00 0.00 2.27
2696 3832 5.559417 GCGGAAATCTACGACAACAAAAAGA 60.559 40.000 0.00 0.00 0.00 2.52
2697 3833 6.599437 CGGAAATCTACGACAACAAAAAGAT 58.401 36.000 0.00 0.00 0.00 2.40
2698 3834 7.622672 GCGGAAATCTACGACAACAAAAAGATA 60.623 37.037 0.00 0.00 0.00 1.98
2699 3835 8.388103 CGGAAATCTACGACAACAAAAAGATAT 58.612 33.333 0.00 0.00 0.00 1.63
2703 3839 8.649973 ATCTACGACAACAAAAAGATATCTCC 57.350 34.615 5.51 0.00 0.00 3.71
2704 3840 5.779806 ACGACAACAAAAAGATATCTCCG 57.220 39.130 5.51 0.00 0.00 4.63
2727 3892 8.241367 TCCGGCATAAATAAAAAGAAGAAGAAC 58.759 33.333 0.00 0.00 0.00 3.01
3009 4181 4.613850 CGGTCATCATATACACTGGTCTCG 60.614 50.000 0.00 0.00 0.00 4.04
3357 4547 3.015145 CGGGAAGTGGGGGTGGAT 61.015 66.667 0.00 0.00 0.00 3.41
3467 4657 5.065218 GGTTTATGATCTCAAACGTGATGCT 59.935 40.000 13.21 0.00 35.85 3.79
3489 4679 1.855295 TGTGCCCGATACTGTCCTAA 58.145 50.000 0.00 0.00 0.00 2.69
3503 4693 2.094182 TGTCCTAAATGACAGTCGGCTC 60.094 50.000 0.00 0.00 40.22 4.70
3687 4889 2.896044 TGGCTGTAATTGCATCAAACCA 59.104 40.909 0.00 0.00 0.00 3.67
4200 5774 1.511850 CACTGATGTGCACTTCCGAA 58.488 50.000 25.08 9.91 37.38 4.30
4319 5925 8.663167 TGTCCATATCTATTGATGTCTGGAAAT 58.337 33.333 14.67 0.00 38.06 2.17
4472 6098 4.591321 TGGGAGGCTTTGTCATTTATCT 57.409 40.909 0.00 0.00 0.00 1.98
4793 6532 7.885297 TGATTTCAATATTTAGCATGGGTAGC 58.115 34.615 0.00 0.00 0.00 3.58
4804 6543 2.695666 GCATGGGTAGCTGAAGTAGAGA 59.304 50.000 0.00 0.00 0.00 3.10
4815 6554 6.402222 AGCTGAAGTAGAGACAATTGGTAAG 58.598 40.000 10.83 0.00 0.00 2.34
4854 6593 5.597806 CTTATTGTCAGCATTGGCATCAAT 58.402 37.500 0.00 0.00 43.79 2.57
5032 6786 6.630071 ACATTTGTTGCTTCAGTTTTGTAGT 58.370 32.000 0.00 0.00 0.00 2.73
5038 6792 5.900339 TGCTTCAGTTTTGTAGTAGTTCG 57.100 39.130 0.00 0.00 0.00 3.95
5053 6807 2.463752 AGTTCGGCTACCACCAGAATA 58.536 47.619 0.00 0.00 0.00 1.75
5195 6949 2.635915 AGGTCCACTTACCAACGATTGA 59.364 45.455 0.00 0.00 42.40 2.57
5201 6955 3.188254 CACTTACCAACGATTGACATGCA 59.812 43.478 0.00 0.00 0.00 3.96
5202 6956 3.818210 ACTTACCAACGATTGACATGCAA 59.182 39.130 0.00 5.27 41.53 4.08
5204 6958 1.952990 ACCAACGATTGACATGCAACA 59.047 42.857 0.00 0.00 39.78 3.33
5205 6959 2.557924 ACCAACGATTGACATGCAACAT 59.442 40.909 0.00 0.00 39.78 2.71
5206 6960 3.173599 CCAACGATTGACATGCAACATC 58.826 45.455 0.00 0.00 39.78 3.06
5207 6961 3.119743 CCAACGATTGACATGCAACATCT 60.120 43.478 0.00 0.00 39.78 2.90
5238 8989 3.916761 TCAAGTTCCATGAAATGCTTGC 58.083 40.909 0.00 0.00 44.97 4.01
5348 9124 6.676237 AAAGGTTTGCGTCATTGAAAAATT 57.324 29.167 0.00 0.00 0.00 1.82
5349 9125 5.655893 AGGTTTGCGTCATTGAAAAATTG 57.344 34.783 0.00 0.00 0.00 2.32
5415 9191 5.041951 TCACGTGTTTCCAAAATATGCTC 57.958 39.130 16.51 0.00 0.00 4.26
5419 9195 4.324402 CGTGTTTCCAAAATATGCTCAAGC 59.676 41.667 0.00 0.00 42.50 4.01
5443 9220 6.314400 GCATTTCAAAAATATGCTGGTCACAT 59.686 34.615 0.00 0.00 41.04 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 7.281324 TGAAAAAGTGTATGAACTCGAAAAGGA 59.719 33.333 0.00 0.00 0.00 3.36
5 6 8.455682 AGTTTGAAAAAGTGTATGAACTCGAAA 58.544 29.630 0.00 0.00 0.00 3.46
6 7 7.981142 AGTTTGAAAAAGTGTATGAACTCGAA 58.019 30.769 0.00 0.00 0.00 3.71
7 8 7.548196 AGTTTGAAAAAGTGTATGAACTCGA 57.452 32.000 0.00 0.00 0.00 4.04
8 9 7.822575 GAGTTTGAAAAAGTGTATGAACTCG 57.177 36.000 0.00 0.00 34.47 4.18
9 10 7.407337 ACGAGTTTGAAAAAGTGTATGAACTC 58.593 34.615 0.00 0.00 38.72 3.01
10 11 7.316544 ACGAGTTTGAAAAAGTGTATGAACT 57.683 32.000 0.00 0.00 0.00 3.01
11 12 7.964545 AACGAGTTTGAAAAAGTGTATGAAC 57.035 32.000 0.00 0.00 0.00 3.18
12 13 9.493206 GTTAACGAGTTTGAAAAAGTGTATGAA 57.507 29.630 0.00 0.00 0.00 2.57
13 14 8.885722 AGTTAACGAGTTTGAAAAAGTGTATGA 58.114 29.630 0.00 0.00 0.00 2.15
14 15 9.498307 AAGTTAACGAGTTTGAAAAAGTGTATG 57.502 29.630 0.00 0.00 0.00 2.39
115 116 8.728337 TCATGAAACTGAAAGATATTCCTGAG 57.272 34.615 0.00 0.00 37.43 3.35
293 298 8.634335 TGGATTCAAAGTTGTCTATGAATTCA 57.366 30.769 11.26 11.26 42.58 2.57
297 302 7.174413 TCCATGGATTCAAAGTTGTCTATGAA 58.826 34.615 11.44 0.00 33.11 2.57
361 366 8.706035 CATTCAACATTCAATTCTGAAAGGTTC 58.294 33.333 0.00 0.00 44.64 3.62
367 372 9.767228 ATGTTTCATTCAACATTCAATTCTGAA 57.233 25.926 0.00 0.00 43.54 3.02
371 376 9.199982 ACTGATGTTTCATTCAACATTCAATTC 57.800 29.630 0.81 0.00 45.55 2.17
374 379 8.196103 TCAACTGATGTTTCATTCAACATTCAA 58.804 29.630 0.81 0.00 45.55 2.69
379 384 8.768957 TTTTTCAACTGATGTTTCATTCAACA 57.231 26.923 0.00 0.00 40.92 3.33
415 420 5.132897 TCTTTCTTTAACTAACGGCCGTA 57.867 39.130 34.44 18.53 0.00 4.02
473 480 8.792633 CACATTTCCACTTCATTTTAGTTCCTA 58.207 33.333 0.00 0.00 0.00 2.94
490 498 2.569354 GGCCCAACGCACATTTCCA 61.569 57.895 0.00 0.00 40.31 3.53
524 532 5.183904 GCTAACATTTGTCCTCCTCATTTGT 59.816 40.000 0.00 0.00 0.00 2.83
557 565 2.129607 CACTTGTCTTGTGGCAATTGC 58.870 47.619 22.47 22.47 41.14 3.56
561 631 3.814625 TGATACACTTGTCTTGTGGCAA 58.185 40.909 0.00 0.00 39.52 4.52
578 648 9.658475 CGTTTTTGTCAAGATTTACAGTTGATA 57.342 29.630 0.00 0.00 32.98 2.15
604 674 3.179443 TGTGTCCAGAGTTGTTGAGTC 57.821 47.619 0.00 0.00 0.00 3.36
623 693 3.379057 TGATGCACTTATCTTGTGGCATG 59.621 43.478 0.00 0.00 34.73 4.06
635 705 7.769970 TGTCATGATTCATAGTTGATGCACTTA 59.230 33.333 0.00 0.00 35.29 2.24
638 708 6.367686 TGTCATGATTCATAGTTGATGCAC 57.632 37.500 0.00 0.00 35.29 4.57
651 721 5.978919 TGTTGAGTTGCTTTTGTCATGATTC 59.021 36.000 0.00 0.00 0.00 2.52
656 726 5.126061 AGAGTTGTTGAGTTGCTTTTGTCAT 59.874 36.000 0.00 0.00 0.00 3.06
665 735 2.545946 GGAGACAGAGTTGTTGAGTTGC 59.454 50.000 0.00 0.00 37.76 4.17
705 775 5.569630 GCTTCTCCATTTGTCTCCTAGTGAA 60.570 44.000 0.00 0.00 0.00 3.18
750 820 2.158593 CCGGATCTGTCTTCTCCTCCTA 60.159 54.545 0.00 0.00 0.00 2.94
765 835 2.086869 CATCCATGGTTATGCCGGATC 58.913 52.381 12.58 0.00 35.94 3.36
796 866 3.491639 CGTGTCGTTTTCACTTGTCCATA 59.508 43.478 0.00 0.00 34.14 2.74
812 882 0.528901 TTCTGTTGGTGGTCGTGTCG 60.529 55.000 0.00 0.00 0.00 4.35
817 887 2.014128 ACTGTTTTCTGTTGGTGGTCG 58.986 47.619 0.00 0.00 0.00 4.79
819 889 3.201266 TCCTACTGTTTTCTGTTGGTGGT 59.799 43.478 0.00 0.00 42.01 4.16
862 932 2.634600 TCGTTGTAAGTTTGTGTGGCT 58.365 42.857 0.00 0.00 0.00 4.75
875 945 3.818210 AGTTGGAATGCATGTTCGTTGTA 59.182 39.130 0.00 0.00 0.00 2.41
880 950 2.725759 CGTGAGTTGGAATGCATGTTCG 60.726 50.000 0.00 0.00 0.00 3.95
910 980 8.827832 TGCTATTAACAAGGTAGGTAGTTAGA 57.172 34.615 0.00 0.00 0.00 2.10
934 1004 9.605275 ACGTGAATGAAGATGGGATATATAATG 57.395 33.333 0.00 0.00 0.00 1.90
937 1007 7.549134 GCAACGTGAATGAAGATGGGATATATA 59.451 37.037 0.00 0.00 0.00 0.86
945 1015 2.222886 CGAGCAACGTGAATGAAGATGG 60.223 50.000 0.00 0.00 37.22 3.51
953 1023 0.530744 TCCTAGCGAGCAACGTGAAT 59.469 50.000 0.00 0.00 44.60 2.57
958 1028 1.359848 ATGTTTCCTAGCGAGCAACG 58.640 50.000 0.00 0.00 45.66 4.10
969 1039 2.863704 GCAAAGAGCGCAAATGTTTCCT 60.864 45.455 11.47 0.00 0.00 3.36
983 1053 4.735132 TCGACGGGCGGCAAAGAG 62.735 66.667 12.47 0.00 41.33 2.85
1003 1073 1.139520 GCAAATGCACGGTCATCCC 59.860 57.895 0.00 0.00 41.59 3.85
1004 1074 4.792106 GCAAATGCACGGTCATCC 57.208 55.556 0.00 0.00 41.59 3.51
1056 1126 7.388776 TGAGAATCTCTCGATTGTGTTTGATTT 59.611 33.333 11.92 0.00 46.25 2.17
1063 1133 5.047731 TGAACTGAGAATCTCTCGATTGTGT 60.048 40.000 11.92 0.00 46.25 3.72
1106 1176 7.658525 TTGGATTGGAATGCAACAACTATAT 57.341 32.000 2.48 0.00 41.00 0.86
1140 1210 6.321717 ACATCAAACCAATTAGTAATGCACG 58.678 36.000 0.00 0.00 0.00 5.34
1195 1265 5.713861 AGGCAGCAATTCCATTTAGATATCC 59.286 40.000 0.00 0.00 0.00 2.59
1200 1270 4.082081 CACAAGGCAGCAATTCCATTTAGA 60.082 41.667 0.00 0.00 0.00 2.10
1205 1275 1.636148 ACACAAGGCAGCAATTCCAT 58.364 45.000 0.00 0.00 0.00 3.41
1206 1276 1.412079 AACACAAGGCAGCAATTCCA 58.588 45.000 0.00 0.00 0.00 3.53
1216 1286 6.091169 CCAAATATTGACATCAAACACAAGGC 59.909 38.462 0.00 0.00 39.55 4.35
1220 1290 6.094193 TGCCAAATATTGACATCAAACACA 57.906 33.333 0.00 0.00 39.55 3.72
1306 1376 9.918630 ACAATTGACAATCTTTCTAGAAATTGG 57.081 29.630 24.90 14.79 37.63 3.16
1346 1416 5.294060 GGTTTGATGCGATATTTGGCAAAAT 59.706 36.000 17.70 11.44 40.15 1.82
1418 1488 9.217278 CATTCACAGGAAAAGATAGATGGATAG 57.783 37.037 0.00 0.00 36.43 2.08
1420 1490 6.489361 GCATTCACAGGAAAAGATAGATGGAT 59.511 38.462 0.00 0.00 36.43 3.41
1428 1498 3.173953 TGGGCATTCACAGGAAAAGAT 57.826 42.857 0.00 0.00 36.43 2.40
1439 1509 5.304101 AGTCAAATTAACACTTGGGCATTCA 59.696 36.000 0.00 0.00 0.00 2.57
1476 1546 6.434028 AGCAGCAGACAATTAAGGAACATTTA 59.566 34.615 0.00 0.00 0.00 1.40
1489 1559 0.963962 CCAACCAAGCAGCAGACAAT 59.036 50.000 0.00 0.00 0.00 2.71
1505 1575 1.337703 GTTGACAACAGCAGCATCCAA 59.662 47.619 13.52 0.00 0.00 3.53
1518 1588 6.112734 ACACACATCAAGAGTAAGTTGACAA 58.887 36.000 0.00 0.00 36.76 3.18
1538 1608 3.449377 TGGACTTACACTGTCAAGACACA 59.551 43.478 0.00 0.00 36.21 3.72
1795 1865 9.933723 GGGTGATACTTTGTAGAAACTAGTTAA 57.066 33.333 8.92 0.00 0.00 2.01
1814 1884 8.751215 ATACAGGATATGTTTTAGGGGTGATA 57.249 34.615 0.00 0.00 39.96 2.15
1816 1886 8.751215 ATATACAGGATATGTTTTAGGGGTGA 57.249 34.615 0.00 0.00 39.96 4.02
1818 1888 8.612145 GGAATATACAGGATATGTTTTAGGGGT 58.388 37.037 0.00 0.00 39.96 4.95
1831 1901 7.060383 CTCAGTTGAGTGGAATATACAGGAT 57.940 40.000 0.91 0.00 37.40 3.24
1866 1936 9.639601 CAAAGCGAACATAGTTATAGGATATCA 57.360 33.333 4.83 0.00 0.00 2.15
1957 2027 2.546778 TCGGCTATGACGACAATTTCC 58.453 47.619 0.00 0.00 38.55 3.13
2005 2075 6.604396 TCGAAACTCATACCAGTGTTATCCTA 59.396 38.462 0.00 0.00 0.00 2.94
2007 2077 5.657474 TCGAAACTCATACCAGTGTTATCC 58.343 41.667 0.00 0.00 0.00 2.59
2008 2078 7.591006 TTTCGAAACTCATACCAGTGTTATC 57.409 36.000 6.47 0.00 0.00 1.75
2013 2083 7.910162 CCAAATATTTCGAAACTCATACCAGTG 59.090 37.037 13.81 1.25 0.00 3.66
2042 2112 8.114743 AGGAAGAAGGAAAAATCATTCTGAGAT 58.885 33.333 6.52 0.00 39.44 2.75
2082 2152 1.615392 GCCAGCATGAAAGGTCAAGTT 59.385 47.619 0.00 0.00 39.69 2.66
2087 2157 2.054453 GGGGCCAGCATGAAAGGTC 61.054 63.158 4.39 0.00 39.69 3.85
2103 2173 2.223665 GGTCGTACCTAAGACATTCGGG 60.224 54.545 1.82 0.00 39.01 5.14
2131 2201 4.030216 AGAAGAAGACTCCCTCTCCATTC 58.970 47.826 0.00 0.00 0.00 2.67
2296 2391 8.092521 CCAAATATATCTGATTGGTCACAGAC 57.907 38.462 0.00 0.00 44.18 3.51
2351 2454 9.619316 CAATTAGTCGAAACATTGACCAATTTA 57.381 29.630 6.02 0.00 35.31 1.40
2404 2534 6.097839 ACACCAAATTAAGATCGGCTACTAGA 59.902 38.462 0.00 0.00 0.00 2.43
2496 2791 7.975616 AGTACATTATTGAATGCAAACACATCC 59.024 33.333 0.00 0.00 45.52 3.51
2499 2794 8.140628 ACAAGTACATTATTGAATGCAAACACA 58.859 29.630 0.00 0.00 45.52 3.72
2500 2795 8.519492 ACAAGTACATTATTGAATGCAAACAC 57.481 30.769 0.00 0.00 45.52 3.32
2514 2809 9.740239 CGGCTACTAGATTTAACAAGTACATTA 57.260 33.333 0.00 0.00 0.00 1.90
2515 2810 8.472413 TCGGCTACTAGATTTAACAAGTACATT 58.528 33.333 0.00 0.00 0.00 2.71
2517 2812 7.395190 TCGGCTACTAGATTTAACAAGTACA 57.605 36.000 0.00 0.00 0.00 2.90
2518 2813 8.133627 TGATCGGCTACTAGATTTAACAAGTAC 58.866 37.037 0.00 0.00 0.00 2.73
2519 2814 8.229253 TGATCGGCTACTAGATTTAACAAGTA 57.771 34.615 0.00 0.00 0.00 2.24
2531 2826 6.146184 CACACCAAATTATGATCGGCTACTAG 59.854 42.308 0.00 0.00 0.00 2.57
2536 2831 2.358898 GCACACCAAATTATGATCGGCT 59.641 45.455 0.00 0.00 0.00 5.52
2537 2832 2.543653 GGCACACCAAATTATGATCGGC 60.544 50.000 0.00 0.00 35.26 5.54
2538 2833 2.687425 TGGCACACCAAATTATGATCGG 59.313 45.455 0.00 0.00 45.37 4.18
2551 2846 5.852282 AGTTTATGGAATATTGGCACACC 57.148 39.130 0.00 0.00 39.29 4.16
2552 2847 7.602265 ACAAAAGTTTATGGAATATTGGCACAC 59.398 33.333 0.00 0.00 39.29 3.82
2553 2848 7.675062 ACAAAAGTTTATGGAATATTGGCACA 58.325 30.769 0.00 0.00 0.00 4.57
2554 2849 9.083080 GTACAAAAGTTTATGGAATATTGGCAC 57.917 33.333 0.00 0.00 0.00 5.01
2555 2850 8.254508 GGTACAAAAGTTTATGGAATATTGGCA 58.745 33.333 0.00 0.00 0.00 4.92
2556 2851 8.254508 TGGTACAAAAGTTTATGGAATATTGGC 58.745 33.333 0.00 0.00 31.92 4.52
2696 3832 9.793259 TCTTCTTTTTATTTATGCCGGAGATAT 57.207 29.630 5.05 0.00 0.00 1.63
2697 3833 9.621629 TTCTTCTTTTTATTTATGCCGGAGATA 57.378 29.630 5.05 0.00 0.00 1.98
2698 3834 8.519799 TTCTTCTTTTTATTTATGCCGGAGAT 57.480 30.769 5.05 0.00 0.00 2.75
2699 3835 7.827236 TCTTCTTCTTTTTATTTATGCCGGAGA 59.173 33.333 5.05 0.00 0.00 3.71
2701 3837 7.931578 TCTTCTTCTTTTTATTTATGCCGGA 57.068 32.000 5.05 0.00 0.00 5.14
2702 3838 8.244113 AGTTCTTCTTCTTTTTATTTATGCCGG 58.756 33.333 0.00 0.00 0.00 6.13
2703 3839 9.065871 CAGTTCTTCTTCTTTTTATTTATGCCG 57.934 33.333 0.00 0.00 0.00 5.69
2704 3840 8.864024 GCAGTTCTTCTTCTTTTTATTTATGCC 58.136 33.333 0.00 0.00 0.00 4.40
2771 3940 7.604927 TGGTAAACTCCATTGTAGTACATTGAC 59.395 37.037 21.35 12.57 32.80 3.18
3009 4181 3.119291 CCTGATGCTTCTGTATGTCGAC 58.881 50.000 9.11 9.11 0.00 4.20
3357 4547 3.149196 GGATTGCTGAAGACAAGTCCAA 58.851 45.455 0.00 0.00 31.03 3.53
3467 4657 1.349688 AGGACAGTATCGGGCACAAAA 59.650 47.619 0.00 0.00 0.00 2.44
3489 4679 1.078848 GCCAGAGCCGACTGTCATT 60.079 57.895 8.73 0.00 36.30 2.57
3503 4693 2.430465 CCATAATCAATCCTCGGCCAG 58.570 52.381 2.24 0.00 0.00 4.85
4115 5689 2.292267 CCTATGCCACCATGAACTGAC 58.708 52.381 0.00 0.00 32.85 3.51
4472 6098 9.942850 TCAGTTCTGTCATGAAGTGAATAATAA 57.057 29.630 14.83 0.00 46.87 1.40
4709 6446 6.187125 TGTCAATTAGAATTGCTCTTCTGC 57.813 37.500 9.66 0.00 44.15 4.26
4793 6532 9.360093 CTTACTTACCAATTGTCTCTACTTCAG 57.640 37.037 4.43 0.00 0.00 3.02
4804 6543 9.109393 CACATACTATGCTTACTTACCAATTGT 57.891 33.333 4.43 0.00 0.00 2.71
4854 6593 8.457261 GCAAATTTAAATCATAAAACATGGGCA 58.543 29.630 0.10 0.00 0.00 5.36
4863 6602 9.352784 CGAACCTCTGCAAATTTAAATCATAAA 57.647 29.630 0.10 0.00 0.00 1.40
4864 6603 7.973388 CCGAACCTCTGCAAATTTAAATCATAA 59.027 33.333 0.10 0.00 0.00 1.90
4888 6627 5.333645 GCACAAGCTCATATTATTCACTCCG 60.334 44.000 0.00 0.00 37.91 4.63
5032 6786 1.927487 TTCTGGTGGTAGCCGAACTA 58.073 50.000 0.00 0.00 0.00 2.24
5038 6792 6.071616 TGTTTTTGAATATTCTGGTGGTAGCC 60.072 38.462 16.24 0.00 0.00 3.93
5053 6807 8.415553 TGACATCTTCATTCTGTGTTTTTGAAT 58.584 29.630 0.00 0.00 0.00 2.57
5195 6949 8.659925 TTGAACAAAAATTAGATGTTGCATGT 57.340 26.923 7.82 0.00 37.41 3.21
5202 6956 9.480053 CATGGAACTTGAACAAAAATTAGATGT 57.520 29.630 0.00 0.00 0.00 3.06
5238 8989 8.253113 AGCATTTTTAATGGATTACAGGAACAG 58.747 33.333 1.99 0.00 0.00 3.16
5419 9195 7.837202 ATGTGACCAGCATATTTTTGAAATG 57.163 32.000 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.