Multiple sequence alignment - TraesCS7B01G302900

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 TraesCS7B01G302900 chr7B 100.000 4439 0 0 1 4439 540247135 540251573 0.000000e+00 8198.0
1 TraesCS7B01G302900 chr7B 94.800 250 12 1 3886 4134 510630236 510629987 5.380000e-104 388.0
2 TraesCS7B01G302900 chr7B 96.988 166 5 0 3710 3875 467536118 467535953 3.380000e-71 279.0
3 TraesCS7B01G302900 chr7B 97.546 163 4 0 3713 3875 551062363 551062525 3.380000e-71 279.0
4 TraesCS7B01G302900 chr7D 93.017 3795 131 46 1 3704 511323710 511327461 0.000000e+00 5417.0
5 TraesCS7B01G302900 chr7A 92.859 3795 149 43 150 3868 583870607 583874355 0.000000e+00 5395.0
6 TraesCS7B01G302900 chr7A 96.429 56 2 0 41 96 583870539 583870594 4.730000e-15 93.5
7 TraesCS7B01G302900 chr2D 79.079 956 176 23 2468 3411 637903674 637904617 1.740000e-178 636.0
8 TraesCS7B01G302900 chr2D 75.088 1136 206 57 1309 2398 426942845 426943949 4.050000e-125 459.0
9 TraesCS7B01G302900 chr2B 78.705 911 176 16 2468 3369 503772269 503773170 3.820000e-165 592.0
10 TraesCS7B01G302900 chr2B 74.474 1140 209 54 1307 2398 503771118 503772223 6.870000e-113 418.0
11 TraesCS7B01G302900 chr2B 96.296 243 9 0 3886 4128 796028490 796028732 2.490000e-107 399.0
12 TraesCS7B01G302900 chr2B 90.452 199 11 8 3711 3903 796027723 796027919 5.700000e-64 255.0
13 TraesCS7B01G302900 chr2A 78.284 944 185 16 2468 3401 761306776 761307709 1.380000e-164 590.0
14 TraesCS7B01G302900 chr2A 75.264 1136 199 53 1313 2398 561556152 561555049 2.420000e-127 466.0
15 TraesCS7B01G302900 chr2A 92.593 243 17 1 3891 4133 379035857 379036098 9.140000e-92 348.0
16 TraesCS7B01G302900 chr2A 96.429 168 6 0 3705 3872 379034971 379035138 1.220000e-70 278.0
17 TraesCS7B01G302900 chr1B 89.862 434 24 11 3716 4129 429911665 429911232 1.400000e-149 540.0
18 TraesCS7B01G302900 chr1B 95.618 251 11 0 3879 4129 566984926 566984676 1.920000e-108 403.0
19 TraesCS7B01G302900 chr1B 94.422 251 14 0 3879 4129 279500569 279500319 1.940000e-103 387.0
20 TraesCS7B01G302900 chr1B 94.737 247 13 0 3879 4125 3653022 3653268 6.970000e-103 385.0
21 TraesCS7B01G302900 chr1B 92.784 194 10 4 3713 3903 61432907 61433099 1.220000e-70 278.0
22 TraesCS7B01G302900 chr1B 92.268 194 12 3 3713 3903 61442329 61442522 5.660000e-69 272.0
23 TraesCS7B01G302900 chr1B 90.385 208 13 6 3712 3913 3652211 3652417 2.630000e-67 267.0
24 TraesCS7B01G302900 chr1B 90.722 194 12 5 3716 3903 279500818 279500625 2.050000e-63 254.0
25 TraesCS7B01G302900 chr1B 89.899 198 13 6 3713 3903 566985650 566985453 9.530000e-62 248.0
26 TraesCS7B01G302900 chr6B 94.981 259 9 3 3875 4129 506705302 506705560 1.920000e-108 403.0
27 TraesCS7B01G302900 chr6B 94.800 250 13 0 3879 4128 715193291 715193042 1.500000e-104 390.0
28 TraesCS7B01G302900 chr6B 77.188 320 55 12 1396 1709 694972401 694972708 2.120000e-38 171.0
29 TraesCS7B01G302900 chr3B 94.821 251 13 0 3879 4129 20159427 20159177 4.160000e-105 392.0
30 TraesCS7B01G302900 chr3B 95.041 242 12 0 3885 4126 107773455 107773214 9.010000e-102 381.0
31 TraesCS7B01G302900 chr3B 91.584 202 11 6 3712 3907 194767061 194766860 1.570000e-69 274.0
32 TraesCS7B01G302900 chr5B 94.800 250 13 0 3879 4128 185563195 185562946 1.500000e-104 390.0
33 TraesCS7B01G302900 chr5B 96.970 165 5 0 3711 3875 185563492 185563328 1.220000e-70 278.0
34 TraesCS7B01G302900 chr4A 96.450 169 5 1 3708 3875 698936344 698936176 1.220000e-70 278.0
35 TraesCS7B01G302900 chr4A 90.050 201 13 6 3710 3903 642669167 642669367 2.050000e-63 254.0
36 TraesCS7B01G302900 chr4A 71.589 982 239 39 2458 3419 598147314 598146353 9.600000e-57 231.0
37 TraesCS7B01G302900 chrUn 78.104 443 87 9 2468 2905 22436995 22437432 5.660000e-69 272.0
38 TraesCS7B01G302900 chr5A 72.614 880 205 30 2471 3326 641215362 641214495 1.580000e-64 257.0
39 TraesCS7B01G302900 chr5D 74.013 608 142 13 2727 3326 513535914 513535315 2.670000e-57 233.0
40 TraesCS7B01G302900 chr4B 71.327 980 245 34 2458 3419 9516148 9515187 2.080000e-53 220.0
41 TraesCS7B01G302900 chr4D 71.657 875 222 25 2455 3316 5525795 5526656 7.480000e-53 219.0
42 TraesCS7B01G302900 chr6A 76.250 320 58 12 1396 1709 603404401 603404708 2.140000e-33 154.0
43 TraesCS7B01G302900 chr6D 75.938 320 59 12 1396 1709 456789149 456789456 9.950000e-32 148.0
44 TraesCS7B01G302900 chr1D 73.019 467 99 14 1157 1605 6542215 6541758 5.990000e-29 139.0


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 TraesCS7B01G302900 chr7B 540247135 540251573 4438 False 8198.00 8198 100.0000 1 4439 1 chr7B.!!$F1 4438
1 TraesCS7B01G302900 chr7D 511323710 511327461 3751 False 5417.00 5417 93.0170 1 3704 1 chr7D.!!$F1 3703
2 TraesCS7B01G302900 chr7A 583870539 583874355 3816 False 2744.25 5395 94.6440 41 3868 2 chr7A.!!$F1 3827
3 TraesCS7B01G302900 chr2D 637903674 637904617 943 False 636.00 636 79.0790 2468 3411 1 chr2D.!!$F2 943
4 TraesCS7B01G302900 chr2D 426942845 426943949 1104 False 459.00 459 75.0880 1309 2398 1 chr2D.!!$F1 1089
5 TraesCS7B01G302900 chr2B 503771118 503773170 2052 False 505.00 592 76.5895 1307 3369 2 chr2B.!!$F1 2062
6 TraesCS7B01G302900 chr2B 796027723 796028732 1009 False 327.00 399 93.3740 3711 4128 2 chr2B.!!$F2 417
7 TraesCS7B01G302900 chr2A 761306776 761307709 933 False 590.00 590 78.2840 2468 3401 1 chr2A.!!$F1 933
8 TraesCS7B01G302900 chr2A 561555049 561556152 1103 True 466.00 466 75.2640 1313 2398 1 chr2A.!!$R1 1085
9 TraesCS7B01G302900 chr2A 379034971 379036098 1127 False 313.00 348 94.5110 3705 4133 2 chr2A.!!$F2 428
10 TraesCS7B01G302900 chr1B 3652211 3653268 1057 False 326.00 385 92.5610 3712 4125 2 chr1B.!!$F3 413
11 TraesCS7B01G302900 chr1B 566984676 566985650 974 True 325.50 403 92.7585 3713 4129 2 chr1B.!!$R3 416
12 TraesCS7B01G302900 chr5B 185562946 185563492 546 True 334.00 390 95.8850 3711 4128 2 chr5B.!!$R1 417
13 TraesCS7B01G302900 chr4A 598146353 598147314 961 True 231.00 231 71.5890 2458 3419 1 chr4A.!!$R1 961
14 TraesCS7B01G302900 chr5A 641214495 641215362 867 True 257.00 257 72.6140 2471 3326 1 chr5A.!!$R1 855
15 TraesCS7B01G302900 chr5D 513535315 513535914 599 True 233.00 233 74.0130 2727 3326 1 chr5D.!!$R1 599
16 TraesCS7B01G302900 chr4B 9515187 9516148 961 True 220.00 220 71.3270 2458 3419 1 chr4B.!!$R1 961
17 TraesCS7B01G302900 chr4D 5525795 5526656 861 False 219.00 219 71.6570 2455 3316 1 chr4D.!!$F1 861

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
101 113 0.036388 CCCAGAGCCAAAGCGTTCTA 60.036 55.000 0.0 0.00 46.67 2.10 F
589 627 0.249405 GCTGCTCTGCTACTGCTAGG 60.249 60.000 0.0 0.00 40.48 3.02 F
995 1082 0.385751 TTGATCGAGGCGAGGTGATC 59.614 55.000 0.0 0.00 39.91 2.92 F
1872 2011 0.908656 AGGAGCAGCTGGTGATGACT 60.909 55.000 25.6 10.21 0.00 3.41 F
2478 2620 2.793946 GCACGCATCGGCAAGATT 59.206 55.556 0.0 0.00 41.24 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1740 1876 1.154580 GAGCTGCGCTTTGACGAAC 60.155 57.895 9.73 0.00 39.88 3.95 R
1809 1945 2.282958 AGGTCCTCGTTCCAGCGA 60.283 61.111 0.00 0.00 39.22 4.93 R
2247 2386 2.389747 CCATACTTGGCGACGCAGTAC 61.390 57.143 23.09 4.37 37.16 2.73 R
3420 3574 0.598419 TTCAGAGCATGCTATCCGCG 60.598 55.000 22.74 5.54 43.27 6.46 R
4256 5715 0.105408 TAAACGCGAGGAATAGGGGC 59.895 55.000 15.93 0.00 0.00 5.80 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
32 33 4.012895 CACGTGGTCACCGCTTGC 62.013 66.667 7.95 0.00 0.00 4.01
36 37 4.927782 TGGTCACCGCTTGCGCTT 62.928 61.111 9.73 0.00 0.00 4.68
37 38 4.090057 GGTCACCGCTTGCGCTTC 62.090 66.667 9.73 0.00 0.00 3.86
85 97 3.292460 CTGTACAAAAGTTGGTTCCCCA 58.708 45.455 0.00 0.00 39.65 4.96
94 106 4.423231 GGTTCCCCAGAGCCAAAG 57.577 61.111 0.00 0.00 42.72 2.77
95 107 1.979155 GGTTCCCCAGAGCCAAAGC 60.979 63.158 0.00 0.00 42.72 3.51
96 108 2.034066 TTCCCCAGAGCCAAAGCG 59.966 61.111 0.00 0.00 46.67 4.68
97 109 2.829384 TTCCCCAGAGCCAAAGCGT 61.829 57.895 0.00 0.00 46.67 5.07
98 110 2.282462 CCCCAGAGCCAAAGCGTT 60.282 61.111 0.00 0.00 46.67 4.84
99 111 2.335712 CCCCAGAGCCAAAGCGTTC 61.336 63.158 0.00 0.00 46.67 3.95
100 112 1.302832 CCCAGAGCCAAAGCGTTCT 60.303 57.895 0.00 0.00 46.67 3.01
101 113 0.036388 CCCAGAGCCAAAGCGTTCTA 60.036 55.000 0.00 0.00 46.67 2.10
102 114 1.363744 CCAGAGCCAAAGCGTTCTAG 58.636 55.000 0.00 0.00 46.67 2.43
103 115 0.723981 CAGAGCCAAAGCGTTCTAGC 59.276 55.000 0.00 0.00 46.67 3.42
178 191 1.187567 AACAAAGCCCATCCCACAGC 61.188 55.000 0.00 0.00 0.00 4.40
240 253 2.032550 TCTTTACTTAGCGCGCTCGTAT 59.967 45.455 40.23 23.32 38.14 3.06
352 376 2.626840 GCTAGCTTCTCCCTGAAACTG 58.373 52.381 7.70 0.00 33.61 3.16
359 383 0.600057 CTCCCTGAAACTGCTTTGGC 59.400 55.000 0.00 0.00 39.26 4.52
361 385 1.372128 CCTGAAACTGCTTTGGCGC 60.372 57.895 0.00 0.00 42.25 6.53
395 419 2.821969 ACACAAAGGCAGATTAAGCTGG 59.178 45.455 21.48 7.52 36.41 4.85
396 420 2.821969 CACAAAGGCAGATTAAGCTGGT 59.178 45.455 21.48 8.15 36.41 4.00
401 425 1.336125 GGCAGATTAAGCTGGTCATGC 59.664 52.381 21.48 7.30 36.41 4.06
455 493 4.202030 GGCTAGCTTAGTTGTGTAGATCGT 60.202 45.833 15.72 0.00 0.00 3.73
539 577 1.839296 CTTCCCGGATCCTCCCTCC 60.839 68.421 10.75 0.00 31.13 4.30
584 622 0.997932 CGAAAGCTGCTCTGCTACTG 59.002 55.000 1.00 0.00 43.24 2.74
585 623 0.726256 GAAAGCTGCTCTGCTACTGC 59.274 55.000 1.00 0.00 43.24 4.40
586 624 0.324285 AAAGCTGCTCTGCTACTGCT 59.676 50.000 1.00 0.00 43.24 4.24
587 625 1.189752 AAGCTGCTCTGCTACTGCTA 58.810 50.000 1.00 0.00 43.24 3.49
588 626 0.746063 AGCTGCTCTGCTACTGCTAG 59.254 55.000 0.00 0.00 42.10 3.42
589 627 0.249405 GCTGCTCTGCTACTGCTAGG 60.249 60.000 0.00 0.00 40.48 3.02
590 628 1.397672 CTGCTCTGCTACTGCTAGGA 58.602 55.000 0.00 0.00 40.48 2.94
591 629 1.066908 CTGCTCTGCTACTGCTAGGAC 59.933 57.143 0.00 0.00 40.48 3.85
592 630 1.341482 TGCTCTGCTACTGCTAGGACT 60.341 52.381 0.00 0.00 40.48 3.85
618 656 3.044305 GCGCGTGACAAGGCTTCT 61.044 61.111 8.43 0.00 34.99 2.85
619 657 2.856032 CGCGTGACAAGGCTTCTG 59.144 61.111 0.00 0.00 34.99 3.02
620 658 1.956170 CGCGTGACAAGGCTTCTGT 60.956 57.895 0.00 0.00 34.99 3.41
621 659 1.571460 GCGTGACAAGGCTTCTGTG 59.429 57.895 0.00 0.00 34.31 3.66
622 660 1.571460 CGTGACAAGGCTTCTGTGC 59.429 57.895 0.00 0.00 0.00 4.57
623 661 1.571460 GTGACAAGGCTTCTGTGCG 59.429 57.895 0.00 0.00 0.00 5.34
695 733 1.068055 GCAAGCTTCATCTTGGTGGTG 60.068 52.381 0.00 0.00 42.68 4.17
749 787 1.295357 CGCGTCACCTGCCATTTACA 61.295 55.000 0.00 0.00 0.00 2.41
843 910 5.513094 CCTTGAAAGATTGAGTGAGTGGGTA 60.513 44.000 0.00 0.00 0.00 3.69
916 998 6.092122 GGTGTTTTATTCGATCTGACATGTGA 59.908 38.462 1.15 0.00 0.00 3.58
966 1053 3.300388 AGATAGGATCGAACCTGCTGAA 58.700 45.455 23.44 4.01 40.81 3.02
968 1055 2.393271 AGGATCGAACCTGCTGAAAG 57.607 50.000 14.25 0.00 39.01 2.62
994 1081 0.387202 CTTGATCGAGGCGAGGTGAT 59.613 55.000 1.50 0.00 39.91 3.06
995 1082 0.385751 TTGATCGAGGCGAGGTGATC 59.614 55.000 0.00 0.00 39.91 2.92
1017 1113 2.755469 ATGGGCGGCAACCATGAC 60.755 61.111 12.47 0.00 46.57 3.06
1498 1595 2.754658 AGTGGTACCGCCTCGAGG 60.755 66.667 27.83 27.83 38.35 4.63
1557 1660 1.522355 CATGCTCGCCGTCTGGATT 60.522 57.895 0.00 0.00 37.49 3.01
1687 1805 2.149803 CTGGTACCTCCGCGTCAACA 62.150 60.000 14.36 0.00 39.52 3.33
1809 1945 4.021925 GCGGCCACTCTCAACCCT 62.022 66.667 2.24 0.00 0.00 4.34
1872 2011 0.908656 AGGAGCAGCTGGTGATGACT 60.909 55.000 25.60 10.21 0.00 3.41
2181 2320 4.719369 GTCGGCGTGCTCGAGGTT 62.719 66.667 15.58 0.00 39.71 3.50
2298 2437 3.261216 CGCACGCGCACCATGATA 61.261 61.111 5.73 0.00 38.40 2.15
2478 2620 2.793946 GCACGCATCGGCAAGATT 59.206 55.556 0.00 0.00 41.24 2.40
3051 3205 4.343323 CCGCCCCACATGGACACA 62.343 66.667 0.00 0.00 37.39 3.72
3454 3608 6.530019 TGCTCTGAATTACTATGAGTGACA 57.470 37.500 0.00 0.00 0.00 3.58
3489 3646 3.304458 GCTTGTTCTTCGATCGGGTTTTT 60.304 43.478 16.41 0.00 0.00 1.94
3549 3717 5.863935 TCGTCTTCATATGAGAGTGTTTGTG 59.136 40.000 5.39 0.00 0.00 3.33
3550 3718 5.635280 CGTCTTCATATGAGAGTGTTTGTGT 59.365 40.000 5.39 0.00 0.00 3.72
3551 3719 6.146184 CGTCTTCATATGAGAGTGTTTGTGTT 59.854 38.462 5.39 0.00 0.00 3.32
3552 3720 7.328493 CGTCTTCATATGAGAGTGTTTGTGTTA 59.672 37.037 5.39 0.00 0.00 2.41
3553 3721 8.988934 GTCTTCATATGAGAGTGTTTGTGTTAA 58.011 33.333 5.39 0.00 0.00 2.01
3554 3722 8.988934 TCTTCATATGAGAGTGTTTGTGTTAAC 58.011 33.333 5.39 0.00 0.00 2.01
3610 3790 6.257193 CCCGTGTAACTATTATGTTTGTCTCC 59.743 42.308 0.00 0.00 31.75 3.71
3691 3871 8.684386 TGAAGGCAATATATAAACGGAATTGA 57.316 30.769 0.00 0.00 30.77 2.57
3730 3931 6.095021 AGTTCTTAGAGGGTGTTTGTTTTCAC 59.905 38.462 0.00 0.00 0.00 3.18
3877 4078 4.297207 GGACTTATCCCGGGCTCT 57.703 61.111 18.49 5.32 39.39 4.09
3878 4079 2.051105 GGACTTATCCCGGGCTCTC 58.949 63.158 18.49 5.24 39.39 3.20
3879 4080 1.660917 GACTTATCCCGGGCTCTCG 59.339 63.158 18.49 5.28 0.00 4.04
4030 5489 4.409574 TGTAAACAAACAGGTAGGGACTCA 59.590 41.667 0.00 0.00 41.75 3.41
4058 5517 8.983702 ACTTATAAGTCCCTGTAAACAAACAA 57.016 30.769 12.50 0.00 32.86 2.83
4129 5588 1.960689 TGAAACAAACAGGGCCTTAGC 59.039 47.619 1.32 0.00 38.76 3.09
4130 5589 2.239400 GAAACAAACAGGGCCTTAGCT 58.761 47.619 1.32 0.00 39.73 3.32
4131 5590 3.181438 TGAAACAAACAGGGCCTTAGCTA 60.181 43.478 1.32 0.00 39.73 3.32
4132 5591 3.739401 AACAAACAGGGCCTTAGCTAT 57.261 42.857 1.32 0.00 39.73 2.97
4133 5592 3.739401 ACAAACAGGGCCTTAGCTATT 57.261 42.857 1.32 0.00 39.73 1.73
4134 5593 4.047627 ACAAACAGGGCCTTAGCTATTT 57.952 40.909 1.32 0.00 39.73 1.40
4135 5594 4.416516 ACAAACAGGGCCTTAGCTATTTT 58.583 39.130 1.32 0.00 39.73 1.82
4136 5595 4.220602 ACAAACAGGGCCTTAGCTATTTTG 59.779 41.667 1.32 7.61 39.73 2.44
4137 5596 3.739401 ACAGGGCCTTAGCTATTTTGT 57.261 42.857 1.32 0.00 39.73 2.83
4138 5597 3.356290 ACAGGGCCTTAGCTATTTTGTG 58.644 45.455 1.32 0.00 39.73 3.33
4139 5598 2.099756 CAGGGCCTTAGCTATTTTGTGC 59.900 50.000 1.32 0.00 39.73 4.57
4140 5599 2.099405 GGGCCTTAGCTATTTTGTGCA 58.901 47.619 0.84 0.00 39.73 4.57
4141 5600 2.495669 GGGCCTTAGCTATTTTGTGCAA 59.504 45.455 0.84 0.00 39.73 4.08
4142 5601 3.056179 GGGCCTTAGCTATTTTGTGCAAA 60.056 43.478 0.84 0.00 39.73 3.68
4143 5602 4.562552 GGGCCTTAGCTATTTTGTGCAAAA 60.563 41.667 11.77 11.77 40.69 2.44
4144 5603 4.994217 GGCCTTAGCTATTTTGTGCAAAAA 59.006 37.500 13.13 0.00 40.24 1.94
4165 5624 7.865706 AAAAATCCATATCTAGAGTTGCGTT 57.134 32.000 0.00 0.00 0.00 4.84
4166 5625 8.958119 AAAAATCCATATCTAGAGTTGCGTTA 57.042 30.769 0.00 0.00 0.00 3.18
4167 5626 9.561069 AAAAATCCATATCTAGAGTTGCGTTAT 57.439 29.630 0.00 0.00 0.00 1.89
4168 5627 9.561069 AAAATCCATATCTAGAGTTGCGTTATT 57.439 29.630 0.00 0.00 0.00 1.40
4169 5628 9.561069 AAATCCATATCTAGAGTTGCGTTATTT 57.439 29.630 0.00 0.90 0.00 1.40
4170 5629 7.946655 TCCATATCTAGAGTTGCGTTATTTG 57.053 36.000 0.00 0.00 0.00 2.32
4171 5630 7.497595 TCCATATCTAGAGTTGCGTTATTTGT 58.502 34.615 0.00 0.00 0.00 2.83
4172 5631 7.652105 TCCATATCTAGAGTTGCGTTATTTGTC 59.348 37.037 0.00 0.00 0.00 3.18
4173 5632 7.438160 CCATATCTAGAGTTGCGTTATTTGTCA 59.562 37.037 0.00 0.00 0.00 3.58
4174 5633 8.982685 CATATCTAGAGTTGCGTTATTTGTCAT 58.017 33.333 0.00 0.00 0.00 3.06
4177 5636 8.352752 TCTAGAGTTGCGTTATTTGTCATATG 57.647 34.615 0.00 0.00 0.00 1.78
4178 5637 5.810525 AGAGTTGCGTTATTTGTCATATGC 58.189 37.500 0.00 0.00 0.00 3.14
4179 5638 5.586243 AGAGTTGCGTTATTTGTCATATGCT 59.414 36.000 0.00 0.00 0.00 3.79
4180 5639 5.810525 AGTTGCGTTATTTGTCATATGCTC 58.189 37.500 0.00 0.00 0.00 4.26
4181 5640 4.811555 TGCGTTATTTGTCATATGCTCC 57.188 40.909 0.00 0.00 0.00 4.70
4182 5641 3.563808 TGCGTTATTTGTCATATGCTCCC 59.436 43.478 0.00 0.00 0.00 4.30
4183 5642 3.815401 GCGTTATTTGTCATATGCTCCCT 59.185 43.478 0.00 0.00 0.00 4.20
4184 5643 4.275936 GCGTTATTTGTCATATGCTCCCTT 59.724 41.667 0.00 0.00 0.00 3.95
4185 5644 5.751680 CGTTATTTGTCATATGCTCCCTTG 58.248 41.667 0.00 0.00 0.00 3.61
4186 5645 5.523369 GTTATTTGTCATATGCTCCCTTGC 58.477 41.667 0.00 0.00 0.00 4.01
4187 5646 2.057137 TTGTCATATGCTCCCTTGCC 57.943 50.000 0.00 0.00 0.00 4.52
4188 5647 1.216064 TGTCATATGCTCCCTTGCCT 58.784 50.000 0.00 0.00 0.00 4.75
4189 5648 1.565759 TGTCATATGCTCCCTTGCCTT 59.434 47.619 0.00 0.00 0.00 4.35
4190 5649 1.952296 GTCATATGCTCCCTTGCCTTG 59.048 52.381 0.00 0.00 0.00 3.61
4191 5650 1.565759 TCATATGCTCCCTTGCCTTGT 59.434 47.619 0.00 0.00 0.00 3.16
4192 5651 2.025037 TCATATGCTCCCTTGCCTTGTT 60.025 45.455 0.00 0.00 0.00 2.83
4193 5652 2.603075 TATGCTCCCTTGCCTTGTTT 57.397 45.000 0.00 0.00 0.00 2.83
4194 5653 1.720781 ATGCTCCCTTGCCTTGTTTT 58.279 45.000 0.00 0.00 0.00 2.43
4195 5654 0.752054 TGCTCCCTTGCCTTGTTTTG 59.248 50.000 0.00 0.00 0.00 2.44
4196 5655 0.752658 GCTCCCTTGCCTTGTTTTGT 59.247 50.000 0.00 0.00 0.00 2.83
4197 5656 1.138859 GCTCCCTTGCCTTGTTTTGTT 59.861 47.619 0.00 0.00 0.00 2.83
4198 5657 2.825205 CTCCCTTGCCTTGTTTTGTTG 58.175 47.619 0.00 0.00 0.00 3.33
4199 5658 1.484240 TCCCTTGCCTTGTTTTGTTGG 59.516 47.619 0.00 0.00 0.00 3.77
4200 5659 1.298602 CCTTGCCTTGTTTTGTTGGC 58.701 50.000 0.00 0.00 45.10 4.52
4201 5660 1.298602 CTTGCCTTGTTTTGTTGGCC 58.701 50.000 0.00 0.00 44.32 5.36
4202 5661 0.107459 TTGCCTTGTTTTGTTGGCCC 60.107 50.000 0.00 0.00 44.32 5.80
4203 5662 1.594021 GCCTTGTTTTGTTGGCCCG 60.594 57.895 0.00 0.00 39.49 6.13
4204 5663 1.594021 CCTTGTTTTGTTGGCCCGC 60.594 57.895 0.00 0.00 0.00 6.13
4205 5664 1.594021 CTTGTTTTGTTGGCCCGCC 60.594 57.895 0.00 0.00 0.00 6.13
4206 5665 2.026945 CTTGTTTTGTTGGCCCGCCT 62.027 55.000 7.35 0.00 36.94 5.52
4207 5666 2.022240 TTGTTTTGTTGGCCCGCCTC 62.022 55.000 7.35 1.19 36.94 4.70
4208 5667 2.197324 TTTTGTTGGCCCGCCTCT 59.803 55.556 7.35 0.00 36.94 3.69
4209 5668 1.456705 TTTTGTTGGCCCGCCTCTT 60.457 52.632 7.35 0.00 36.94 2.85
4210 5669 1.460273 TTTTGTTGGCCCGCCTCTTC 61.460 55.000 7.35 0.00 36.94 2.87
4211 5670 3.860930 TTGTTGGCCCGCCTCTTCC 62.861 63.158 7.35 0.00 36.94 3.46
4212 5671 4.035102 GTTGGCCCGCCTCTTCCT 62.035 66.667 7.35 0.00 36.94 3.36
4213 5672 3.256960 TTGGCCCGCCTCTTCCTT 61.257 61.111 7.35 0.00 36.94 3.36
4214 5673 2.840753 TTGGCCCGCCTCTTCCTTT 61.841 57.895 7.35 0.00 36.94 3.11
4215 5674 2.035783 GGCCCGCCTCTTCCTTTT 59.964 61.111 0.00 0.00 0.00 2.27
4216 5675 2.046864 GGCCCGCCTCTTCCTTTTC 61.047 63.158 0.00 0.00 0.00 2.29
4217 5676 1.002011 GCCCGCCTCTTCCTTTTCT 60.002 57.895 0.00 0.00 0.00 2.52
4218 5677 0.609406 GCCCGCCTCTTCCTTTTCTT 60.609 55.000 0.00 0.00 0.00 2.52
4219 5678 1.168714 CCCGCCTCTTCCTTTTCTTG 58.831 55.000 0.00 0.00 0.00 3.02
4220 5679 0.523519 CCGCCTCTTCCTTTTCTTGC 59.476 55.000 0.00 0.00 0.00 4.01
4221 5680 0.523519 CGCCTCTTCCTTTTCTTGCC 59.476 55.000 0.00 0.00 0.00 4.52
4222 5681 0.891373 GCCTCTTCCTTTTCTTGCCC 59.109 55.000 0.00 0.00 0.00 5.36
4223 5682 1.168714 CCTCTTCCTTTTCTTGCCCG 58.831 55.000 0.00 0.00 0.00 6.13
4224 5683 1.168714 CTCTTCCTTTTCTTGCCCGG 58.831 55.000 0.00 0.00 0.00 5.73
4225 5684 0.893727 TCTTCCTTTTCTTGCCCGGC 60.894 55.000 1.04 1.04 0.00 6.13
4226 5685 0.895559 CTTCCTTTTCTTGCCCGGCT 60.896 55.000 11.61 0.00 0.00 5.52
4227 5686 0.893727 TTCCTTTTCTTGCCCGGCTC 60.894 55.000 11.61 0.00 0.00 4.70
4228 5687 1.603455 CCTTTTCTTGCCCGGCTCA 60.603 57.895 11.61 0.00 0.00 4.26
4229 5688 0.967380 CCTTTTCTTGCCCGGCTCAT 60.967 55.000 11.61 0.00 0.00 2.90
4230 5689 1.681780 CCTTTTCTTGCCCGGCTCATA 60.682 52.381 11.61 0.00 0.00 2.15
4231 5690 1.672881 CTTTTCTTGCCCGGCTCATAG 59.327 52.381 11.61 3.24 0.00 2.23
4232 5691 0.748005 TTTCTTGCCCGGCTCATAGC 60.748 55.000 11.61 0.00 41.46 2.97
4233 5692 1.626356 TTCTTGCCCGGCTCATAGCT 61.626 55.000 11.61 0.00 41.99 3.32
4234 5693 1.890979 CTTGCCCGGCTCATAGCTG 60.891 63.158 11.61 0.57 46.95 4.24
4243 5702 1.664873 CTCATAGCTGAGCGAGGGG 59.335 63.158 0.00 0.00 42.36 4.79
4244 5703 1.814772 CTCATAGCTGAGCGAGGGGG 61.815 65.000 0.00 0.00 42.36 5.40
4245 5704 3.237741 ATAGCTGAGCGAGGGGGC 61.238 66.667 0.00 0.00 0.00 5.80
4268 5727 4.315941 CGGGCGCCCCTATTCCTC 62.316 72.222 39.24 11.89 42.67 3.71
4269 5728 4.315941 GGGCGCCCCTATTCCTCG 62.316 72.222 36.64 0.00 41.34 4.63
4270 5729 4.990553 GGCGCCCCTATTCCTCGC 62.991 72.222 18.11 0.00 44.39 5.03
4272 5731 3.912907 CGCCCCTATTCCTCGCGT 61.913 66.667 5.77 0.00 38.12 6.01
4273 5732 2.504519 GCCCCTATTCCTCGCGTT 59.495 61.111 5.77 0.00 0.00 4.84
4274 5733 1.153229 GCCCCTATTCCTCGCGTTT 60.153 57.895 5.77 0.00 0.00 3.60
4275 5734 0.105408 GCCCCTATTCCTCGCGTTTA 59.895 55.000 5.77 0.00 0.00 2.01
4276 5735 1.872653 GCCCCTATTCCTCGCGTTTAG 60.873 57.143 5.77 0.00 0.00 1.85
4277 5736 1.499049 CCCTATTCCTCGCGTTTAGC 58.501 55.000 5.77 0.00 43.95 3.09
4288 5747 2.763930 GCGTTTAGCGACTGTAACTG 57.236 50.000 0.00 0.00 44.77 3.16
4289 5748 1.201780 GCGTTTAGCGACTGTAACTGC 60.202 52.381 0.00 0.00 44.77 4.40
4290 5749 2.325761 CGTTTAGCGACTGTAACTGCT 58.674 47.619 0.00 0.00 44.77 4.24
4291 5750 2.090658 CGTTTAGCGACTGTAACTGCTG 59.909 50.000 6.58 0.00 44.77 4.41
4292 5751 3.314553 GTTTAGCGACTGTAACTGCTGA 58.685 45.455 0.00 0.00 38.33 4.26
4293 5752 2.631418 TAGCGACTGTAACTGCTGAC 57.369 50.000 0.00 0.00 38.33 3.51
4294 5753 0.387367 AGCGACTGTAACTGCTGACG 60.387 55.000 0.00 0.00 36.09 4.35
4295 5754 1.945776 GCGACTGTAACTGCTGACGC 61.946 60.000 0.00 0.00 41.53 5.19
4296 5755 1.344942 CGACTGTAACTGCTGACGCC 61.345 60.000 0.00 0.00 34.43 5.68
4297 5756 1.344942 GACTGTAACTGCTGACGCCG 61.345 60.000 0.00 0.00 34.43 6.46
4298 5757 1.080772 CTGTAACTGCTGACGCCGA 60.081 57.895 0.00 0.00 34.43 5.54
4299 5758 0.666274 CTGTAACTGCTGACGCCGAA 60.666 55.000 0.00 0.00 34.43 4.30
4300 5759 0.666274 TGTAACTGCTGACGCCGAAG 60.666 55.000 0.00 0.00 34.43 3.79
4313 5772 2.504032 CGAAGGGGGCGAGCAATA 59.496 61.111 0.00 0.00 0.00 1.90
4314 5773 1.071471 CGAAGGGGGCGAGCAATAT 59.929 57.895 0.00 0.00 0.00 1.28
4315 5774 1.230635 CGAAGGGGGCGAGCAATATG 61.231 60.000 0.00 0.00 0.00 1.78
4316 5775 0.890996 GAAGGGGGCGAGCAATATGG 60.891 60.000 0.00 0.00 0.00 2.74
4317 5776 1.645402 AAGGGGGCGAGCAATATGGT 61.645 55.000 0.00 0.00 0.00 3.55
4318 5777 1.152756 GGGGGCGAGCAATATGGTT 60.153 57.895 0.00 0.00 0.00 3.67
4319 5778 1.172812 GGGGGCGAGCAATATGGTTC 61.173 60.000 0.00 0.00 0.00 3.62
4320 5779 1.507141 GGGGCGAGCAATATGGTTCG 61.507 60.000 11.67 11.67 43.21 3.95
4321 5780 1.507141 GGGCGAGCAATATGGTTCGG 61.507 60.000 16.87 0.89 41.09 4.30
4322 5781 1.279840 GCGAGCAATATGGTTCGGC 59.720 57.895 16.87 6.73 41.09 5.54
4323 5782 1.941812 CGAGCAATATGGTTCGGCC 59.058 57.895 8.39 0.00 37.77 6.13
4324 5783 1.507141 CGAGCAATATGGTTCGGCCC 61.507 60.000 8.39 0.00 37.77 5.80
4325 5784 0.465460 GAGCAATATGGTTCGGCCCA 60.465 55.000 0.00 0.00 39.27 5.36
4326 5785 0.751643 AGCAATATGGTTCGGCCCAC 60.752 55.000 0.00 0.00 37.31 4.61
4327 5786 2.021722 CAATATGGTTCGGCCCACG 58.978 57.895 0.00 0.00 46.11 4.94
4328 5787 1.822186 AATATGGTTCGGCCCACGC 60.822 57.895 0.00 0.00 43.86 5.34
4329 5788 4.823419 TATGGTTCGGCCCACGCG 62.823 66.667 3.53 3.53 43.86 6.01
4348 5807 4.664677 GAGCGAGGCCACACGTGT 62.665 66.667 17.22 17.22 33.08 4.49
4349 5808 4.235762 AGCGAGGCCACACGTGTT 62.236 61.111 20.79 3.92 33.08 3.32
4350 5809 3.276846 GCGAGGCCACACGTGTTT 61.277 61.111 20.79 4.88 33.08 2.83
4351 5810 2.830285 GCGAGGCCACACGTGTTTT 61.830 57.895 20.79 4.48 33.08 2.43
4352 5811 1.500512 GCGAGGCCACACGTGTTTTA 61.501 55.000 20.79 0.00 33.08 1.52
4353 5812 1.153353 CGAGGCCACACGTGTTTTAT 58.847 50.000 20.79 5.64 0.00 1.40
4354 5813 1.136085 CGAGGCCACACGTGTTTTATG 60.136 52.381 20.79 7.34 0.00 1.90
4355 5814 1.877443 GAGGCCACACGTGTTTTATGT 59.123 47.619 20.79 1.22 0.00 2.29
4356 5815 2.292292 GAGGCCACACGTGTTTTATGTT 59.708 45.455 20.79 0.76 0.00 2.71
4357 5816 2.691011 AGGCCACACGTGTTTTATGTTT 59.309 40.909 20.79 0.00 0.00 2.83
4358 5817 3.131400 AGGCCACACGTGTTTTATGTTTT 59.869 39.130 20.79 0.00 0.00 2.43
4359 5818 3.866327 GGCCACACGTGTTTTATGTTTTT 59.134 39.130 20.79 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 1.764054 AGGGGAGAGGGATGAAGCG 60.764 63.158 0.00 0.00 0.00 4.68
33 34 1.835693 CAGGGGAGAGGGATGAAGC 59.164 63.158 0.00 0.00 0.00 3.86
34 35 0.984961 TGCAGGGGAGAGGGATGAAG 60.985 60.000 0.00 0.00 0.00 3.02
35 36 1.082766 TGCAGGGGAGAGGGATGAA 59.917 57.895 0.00 0.00 0.00 2.57
36 37 1.690633 GTGCAGGGGAGAGGGATGA 60.691 63.158 0.00 0.00 0.00 2.92
37 38 2.914289 GTGCAGGGGAGAGGGATG 59.086 66.667 0.00 0.00 0.00 3.51
85 97 0.610687 AGCTAGAACGCTTTGGCTCT 59.389 50.000 0.00 0.00 36.74 4.09
93 105 4.319911 CGATCTTTAGCTAGCTAGAACGCT 60.320 45.833 24.96 16.76 43.83 5.07
94 106 3.909574 CGATCTTTAGCTAGCTAGAACGC 59.090 47.826 24.96 15.75 0.00 4.84
95 107 5.345609 TCGATCTTTAGCTAGCTAGAACG 57.654 43.478 28.03 28.03 0.00 3.95
96 108 6.019152 CGATCGATCTTTAGCTAGCTAGAAC 58.981 44.000 25.15 17.18 0.00 3.01
97 109 5.932883 TCGATCGATCTTTAGCTAGCTAGAA 59.067 40.000 25.15 18.01 0.00 2.10
98 110 5.349270 GTCGATCGATCTTTAGCTAGCTAGA 59.651 44.000 25.15 20.13 0.00 2.43
99 111 5.556470 GTCGATCGATCTTTAGCTAGCTAG 58.444 45.833 22.50 16.84 0.00 3.42
100 112 4.091655 CGTCGATCGATCTTTAGCTAGCTA 59.908 45.833 22.50 20.67 42.86 3.32
101 113 3.120477 CGTCGATCGATCTTTAGCTAGCT 60.120 47.826 22.50 23.12 42.86 3.32
102 114 3.120615 TCGTCGATCGATCTTTAGCTAGC 60.121 47.826 22.50 6.62 44.01 3.42
103 115 4.648917 TCGTCGATCGATCTTTAGCTAG 57.351 45.455 22.50 5.20 44.01 3.42
138 151 6.831769 TGTTTATGCGATTTCTGTTTCTCTC 58.168 36.000 0.00 0.00 0.00 3.20
144 157 4.923281 GGCTTTGTTTATGCGATTTCTGTT 59.077 37.500 0.00 0.00 0.00 3.16
145 158 4.485163 GGCTTTGTTTATGCGATTTCTGT 58.515 39.130 0.00 0.00 0.00 3.41
146 159 3.859386 GGGCTTTGTTTATGCGATTTCTG 59.141 43.478 0.00 0.00 0.00 3.02
147 160 3.509575 TGGGCTTTGTTTATGCGATTTCT 59.490 39.130 0.00 0.00 0.00 2.52
148 161 3.843999 TGGGCTTTGTTTATGCGATTTC 58.156 40.909 0.00 0.00 0.00 2.17
152 165 1.748493 GGATGGGCTTTGTTTATGCGA 59.252 47.619 0.00 0.00 0.00 5.10
240 253 4.007659 GGAGGAAAGGCGATTAAAAGTGA 58.992 43.478 0.00 0.00 0.00 3.41
352 376 2.768492 CCATGAGAGGCGCCAAAGC 61.768 63.158 31.54 15.30 0.00 3.51
361 385 2.082231 CTTTGTGTGAGCCATGAGAGG 58.918 52.381 0.00 0.00 0.00 3.69
395 419 0.731994 TGTGTGTGTGTGTGCATGAC 59.268 50.000 0.00 0.00 0.00 3.06
396 420 1.677942 ATGTGTGTGTGTGTGCATGA 58.322 45.000 0.00 0.00 0.00 3.07
401 425 3.194062 TGTCAGTATGTGTGTGTGTGTG 58.806 45.455 0.00 0.00 37.40 3.82
455 493 1.027357 GGAAGGTATACGCGAGGTCA 58.973 55.000 15.93 0.00 0.00 4.02
543 581 0.753111 GAGGCCAAATGTAGCTGGGG 60.753 60.000 5.01 0.00 32.95 4.96
585 623 1.361993 CGCAGGCTAGCAGTCCTAG 59.638 63.158 18.24 1.15 45.26 3.02
586 624 2.786495 GCGCAGGCTAGCAGTCCTA 61.786 63.158 18.24 0.00 35.83 2.94
587 625 4.154347 GCGCAGGCTAGCAGTCCT 62.154 66.667 18.24 0.57 35.83 3.85
589 627 4.803426 ACGCGCAGGCTAGCAGTC 62.803 66.667 18.24 3.14 36.88 3.51
591 629 4.801624 TCACGCGCAGGCTAGCAG 62.802 66.667 18.24 9.62 36.88 4.24
684 722 4.074970 CAAGAAACTAGCACCACCAAGAT 58.925 43.478 0.00 0.00 0.00 2.40
695 733 1.135523 GCGGCAGCAAGAAACTAGC 59.864 57.895 3.18 0.00 44.35 3.42
749 787 0.835941 CAGGCCCTCATCTAGCAAGT 59.164 55.000 0.00 0.00 0.00 3.16
916 998 4.878397 CCAACAAAACAGAGACAAGAGACT 59.122 41.667 0.00 0.00 0.00 3.24
966 1053 0.036010 CCTCGATCAAGCACCACCTT 60.036 55.000 0.00 0.00 0.00 3.50
968 1055 2.109126 GCCTCGATCAAGCACCACC 61.109 63.158 0.00 0.00 0.00 4.61
997 1084 4.424711 ATGGTTGCCGCCCATCGT 62.425 61.111 0.00 0.00 38.30 3.73
998 1085 3.891400 CATGGTTGCCGCCCATCG 61.891 66.667 0.00 0.00 40.76 3.84
1251 1347 1.255667 GCTTCACCTCCACGTAGGGA 61.256 60.000 9.18 1.87 41.32 4.20
1687 1805 2.419198 GTCCTGCGCCTCGATGAT 59.581 61.111 4.18 0.00 0.00 2.45
1740 1876 1.154580 GAGCTGCGCTTTGACGAAC 60.155 57.895 9.73 0.00 39.88 3.95
1809 1945 2.282958 AGGTCCTCGTTCCAGCGA 60.283 61.111 0.00 0.00 39.22 4.93
1872 2011 2.987547 GACACCCGGTCCTCGACA 60.988 66.667 0.00 0.00 40.83 4.35
2058 2197 3.680786 CAGGCTCGGACGTGGACA 61.681 66.667 0.00 0.00 0.00 4.02
2247 2386 2.389747 CCATACTTGGCGACGCAGTAC 61.390 57.143 23.09 4.37 37.16 2.73
2478 2620 4.451150 GTGGACAGGCGGATGCGA 62.451 66.667 12.10 0.00 44.10 5.10
3051 3205 1.604378 CTCCGCCCAGGACATCTTT 59.396 57.895 0.00 0.00 45.98 2.52
3420 3574 0.598419 TTCAGAGCATGCTATCCGCG 60.598 55.000 22.74 5.54 43.27 6.46
3454 3608 6.493802 TCGAAGAACAAGCCATATAGGAGTAT 59.506 38.462 0.00 0.00 41.22 2.12
3489 3646 5.365021 TTGGCTTGGGAAAAGAAATTCAA 57.635 34.783 0.00 0.00 0.00 2.69
3549 3717 6.327279 ACCCAAACTCAGCATTTAGTTAAC 57.673 37.500 0.00 0.00 34.91 2.01
3550 3718 6.969993 AACCCAAACTCAGCATTTAGTTAA 57.030 33.333 0.00 0.00 34.91 2.01
3551 3719 6.547880 TCAAACCCAAACTCAGCATTTAGTTA 59.452 34.615 0.00 0.00 34.91 2.24
3552 3720 5.362430 TCAAACCCAAACTCAGCATTTAGTT 59.638 36.000 0.00 0.00 37.54 2.24
3553 3721 4.892934 TCAAACCCAAACTCAGCATTTAGT 59.107 37.500 0.00 0.00 0.00 2.24
3554 3722 5.241506 TCTCAAACCCAAACTCAGCATTTAG 59.758 40.000 0.00 0.00 0.00 1.85
3594 3771 9.605275 TCATTCTTCTGGAGACAAACATAATAG 57.395 33.333 0.00 0.00 42.06 1.73
3596 3773 7.884877 TGTCATTCTTCTGGAGACAAACATAAT 59.115 33.333 0.00 0.00 42.06 1.28
3610 3790 6.978659 AGCATGCAATTATTGTCATTCTTCTG 59.021 34.615 21.98 1.80 0.00 3.02
3730 3931 4.482952 AGTCCCTAAACCAATAAGTCCG 57.517 45.455 0.00 0.00 0.00 4.79
4098 5557 6.015772 GCCCTGTTTGTTTCATAAGTCCTAAA 60.016 38.462 0.00 0.00 0.00 1.85
4141 5600 7.865706 AACGCAACTCTAGATATGGATTTTT 57.134 32.000 0.00 0.00 0.00 1.94
4142 5601 9.561069 AATAACGCAACTCTAGATATGGATTTT 57.439 29.630 0.00 0.00 0.00 1.82
4143 5602 9.561069 AAATAACGCAACTCTAGATATGGATTT 57.439 29.630 0.00 0.00 0.00 2.17
4144 5603 8.993121 CAAATAACGCAACTCTAGATATGGATT 58.007 33.333 0.00 0.00 0.00 3.01
4145 5604 8.150945 ACAAATAACGCAACTCTAGATATGGAT 58.849 33.333 0.00 0.00 0.00 3.41
4146 5605 7.497595 ACAAATAACGCAACTCTAGATATGGA 58.502 34.615 0.00 0.00 0.00 3.41
4147 5606 7.438160 TGACAAATAACGCAACTCTAGATATGG 59.562 37.037 0.00 0.00 0.00 2.74
4148 5607 8.352752 TGACAAATAACGCAACTCTAGATATG 57.647 34.615 0.00 0.00 0.00 1.78
4151 5610 8.982685 CATATGACAAATAACGCAACTCTAGAT 58.017 33.333 0.00 0.00 0.00 1.98
4152 5611 7.042725 GCATATGACAAATAACGCAACTCTAGA 60.043 37.037 6.97 0.00 0.00 2.43
4153 5612 7.042456 AGCATATGACAAATAACGCAACTCTAG 60.042 37.037 6.97 0.00 0.00 2.43
4154 5613 6.761242 AGCATATGACAAATAACGCAACTCTA 59.239 34.615 6.97 0.00 0.00 2.43
4155 5614 5.586243 AGCATATGACAAATAACGCAACTCT 59.414 36.000 6.97 0.00 0.00 3.24
4156 5615 5.810525 AGCATATGACAAATAACGCAACTC 58.189 37.500 6.97 0.00 0.00 3.01
4157 5616 5.220854 GGAGCATATGACAAATAACGCAACT 60.221 40.000 6.97 0.00 0.00 3.16
4158 5617 4.970003 GGAGCATATGACAAATAACGCAAC 59.030 41.667 6.97 0.00 0.00 4.17
4159 5618 4.036262 GGGAGCATATGACAAATAACGCAA 59.964 41.667 6.97 0.00 0.00 4.85
4160 5619 3.563808 GGGAGCATATGACAAATAACGCA 59.436 43.478 6.97 0.00 0.00 5.24
4161 5620 3.815401 AGGGAGCATATGACAAATAACGC 59.185 43.478 6.97 0.00 0.00 4.84
4162 5621 5.751680 CAAGGGAGCATATGACAAATAACG 58.248 41.667 6.97 0.00 0.00 3.18
4163 5622 5.507985 GGCAAGGGAGCATATGACAAATAAC 60.508 44.000 6.97 0.00 35.83 1.89
4164 5623 4.584325 GGCAAGGGAGCATATGACAAATAA 59.416 41.667 6.97 0.00 35.83 1.40
4165 5624 4.141181 AGGCAAGGGAGCATATGACAAATA 60.141 41.667 6.97 0.00 35.83 1.40
4166 5625 2.961062 GGCAAGGGAGCATATGACAAAT 59.039 45.455 6.97 0.00 35.83 2.32
4167 5626 2.025037 AGGCAAGGGAGCATATGACAAA 60.025 45.455 6.97 0.00 35.83 2.83
4168 5627 1.565759 AGGCAAGGGAGCATATGACAA 59.434 47.619 6.97 0.00 35.83 3.18
4169 5628 1.216064 AGGCAAGGGAGCATATGACA 58.784 50.000 6.97 0.00 35.83 3.58
4170 5629 1.952296 CAAGGCAAGGGAGCATATGAC 59.048 52.381 6.97 0.00 35.83 3.06
4171 5630 1.565759 ACAAGGCAAGGGAGCATATGA 59.434 47.619 6.97 0.00 35.83 2.15
4172 5631 2.062971 ACAAGGCAAGGGAGCATATG 57.937 50.000 0.00 0.00 35.83 1.78
4173 5632 2.834638 AACAAGGCAAGGGAGCATAT 57.165 45.000 0.00 0.00 35.83 1.78
4174 5633 2.562298 CAAAACAAGGCAAGGGAGCATA 59.438 45.455 0.00 0.00 35.83 3.14
4175 5634 1.345415 CAAAACAAGGCAAGGGAGCAT 59.655 47.619 0.00 0.00 35.83 3.79
4176 5635 0.752054 CAAAACAAGGCAAGGGAGCA 59.248 50.000 0.00 0.00 35.83 4.26
4177 5636 0.752658 ACAAAACAAGGCAAGGGAGC 59.247 50.000 0.00 0.00 0.00 4.70
4178 5637 2.483538 CCAACAAAACAAGGCAAGGGAG 60.484 50.000 0.00 0.00 0.00 4.30
4179 5638 1.484240 CCAACAAAACAAGGCAAGGGA 59.516 47.619 0.00 0.00 0.00 4.20
4180 5639 1.952193 CCAACAAAACAAGGCAAGGG 58.048 50.000 0.00 0.00 0.00 3.95
4181 5640 1.298602 GCCAACAAAACAAGGCAAGG 58.701 50.000 0.00 0.00 46.26 3.61
4185 5644 1.594021 CGGGCCAACAAAACAAGGC 60.594 57.895 4.39 0.00 46.28 4.35
4186 5645 1.594021 GCGGGCCAACAAAACAAGG 60.594 57.895 4.39 0.00 0.00 3.61
4187 5646 1.594021 GGCGGGCCAACAAAACAAG 60.594 57.895 4.39 0.00 35.81 3.16
4188 5647 2.022240 GAGGCGGGCCAACAAAACAA 62.022 55.000 12.97 0.00 38.92 2.83
4189 5648 2.443016 AGGCGGGCCAACAAAACA 60.443 55.556 12.97 0.00 38.92 2.83
4190 5649 1.744320 AAGAGGCGGGCCAACAAAAC 61.744 55.000 12.97 0.00 38.92 2.43
4191 5650 1.456705 AAGAGGCGGGCCAACAAAA 60.457 52.632 12.97 0.00 38.92 2.44
4192 5651 1.901464 GAAGAGGCGGGCCAACAAA 60.901 57.895 12.97 0.00 38.92 2.83
4193 5652 2.282180 GAAGAGGCGGGCCAACAA 60.282 61.111 12.97 0.00 38.92 2.83
4194 5653 4.344865 GGAAGAGGCGGGCCAACA 62.345 66.667 12.97 0.00 38.92 3.33
4195 5654 3.569200 AAGGAAGAGGCGGGCCAAC 62.569 63.158 12.97 5.67 38.92 3.77
4196 5655 2.366153 AAAAGGAAGAGGCGGGCCAA 62.366 55.000 12.97 0.00 38.92 4.52
4197 5656 2.764637 GAAAAGGAAGAGGCGGGCCA 62.765 60.000 12.97 0.00 38.92 5.36
4198 5657 2.035783 AAAAGGAAGAGGCGGGCC 59.964 61.111 0.18 0.18 0.00 5.80
4199 5658 0.609406 AAGAAAAGGAAGAGGCGGGC 60.609 55.000 0.00 0.00 0.00 6.13
4200 5659 1.168714 CAAGAAAAGGAAGAGGCGGG 58.831 55.000 0.00 0.00 0.00 6.13
4201 5660 0.523519 GCAAGAAAAGGAAGAGGCGG 59.476 55.000 0.00 0.00 0.00 6.13
4202 5661 0.523519 GGCAAGAAAAGGAAGAGGCG 59.476 55.000 0.00 0.00 0.00 5.52
4203 5662 0.891373 GGGCAAGAAAAGGAAGAGGC 59.109 55.000 0.00 0.00 0.00 4.70
4204 5663 1.168714 CGGGCAAGAAAAGGAAGAGG 58.831 55.000 0.00 0.00 0.00 3.69
4205 5664 1.168714 CCGGGCAAGAAAAGGAAGAG 58.831 55.000 0.00 0.00 0.00 2.85
4206 5665 0.893727 GCCGGGCAAGAAAAGGAAGA 60.894 55.000 15.62 0.00 0.00 2.87
4207 5666 0.895559 AGCCGGGCAAGAAAAGGAAG 60.896 55.000 23.09 0.00 0.00 3.46
4208 5667 0.893727 GAGCCGGGCAAGAAAAGGAA 60.894 55.000 23.09 0.00 0.00 3.36
4209 5668 1.303317 GAGCCGGGCAAGAAAAGGA 60.303 57.895 23.09 0.00 0.00 3.36
4210 5669 0.967380 ATGAGCCGGGCAAGAAAAGG 60.967 55.000 23.09 0.00 0.00 3.11
4211 5670 1.672881 CTATGAGCCGGGCAAGAAAAG 59.327 52.381 23.09 6.75 0.00 2.27
4212 5671 1.750193 CTATGAGCCGGGCAAGAAAA 58.250 50.000 23.09 0.00 0.00 2.29
4213 5672 0.748005 GCTATGAGCCGGGCAAGAAA 60.748 55.000 23.09 1.48 34.48 2.52
4214 5673 1.153168 GCTATGAGCCGGGCAAGAA 60.153 57.895 23.09 3.45 34.48 2.52
4215 5674 2.066393 AGCTATGAGCCGGGCAAGA 61.066 57.895 23.09 5.29 43.77 3.02
4216 5675 1.890979 CAGCTATGAGCCGGGCAAG 60.891 63.158 23.09 13.37 43.77 4.01
4217 5676 2.190313 CAGCTATGAGCCGGGCAA 59.810 61.111 23.09 9.53 43.77 4.52
4218 5677 2.763710 TCAGCTATGAGCCGGGCA 60.764 61.111 23.09 0.60 43.77 5.36
4219 5678 2.030262 CTCAGCTATGAGCCGGGC 59.970 66.667 12.11 12.11 46.19 6.13
4226 5685 1.834378 CCCCCTCGCTCAGCTATGA 60.834 63.158 0.00 0.00 0.00 2.15
4227 5686 2.739784 CCCCCTCGCTCAGCTATG 59.260 66.667 0.00 0.00 0.00 2.23
4228 5687 3.237741 GCCCCCTCGCTCAGCTAT 61.238 66.667 0.00 0.00 0.00 2.97
4252 5711 4.315941 CGAGGAATAGGGGCGCCC 62.316 72.222 38.57 38.57 45.90 6.13
4253 5712 4.990553 GCGAGGAATAGGGGCGCC 62.991 72.222 21.18 21.18 41.65 6.53
4256 5715 0.105408 TAAACGCGAGGAATAGGGGC 59.895 55.000 15.93 0.00 0.00 5.80
4257 5716 1.872653 GCTAAACGCGAGGAATAGGGG 60.873 57.143 15.93 0.00 0.00 4.79
4258 5717 1.499049 GCTAAACGCGAGGAATAGGG 58.501 55.000 15.93 0.00 0.00 3.53
4269 5728 1.201780 GCAGTTACAGTCGCTAAACGC 60.202 52.381 0.00 0.00 43.23 4.84
4270 5729 2.090658 CAGCAGTTACAGTCGCTAAACG 59.909 50.000 0.00 0.00 45.62 3.60
4271 5730 3.121445 GTCAGCAGTTACAGTCGCTAAAC 59.879 47.826 0.00 0.00 32.29 2.01
4272 5731 3.314553 GTCAGCAGTTACAGTCGCTAAA 58.685 45.455 0.00 0.00 32.29 1.85
4273 5732 2.667448 CGTCAGCAGTTACAGTCGCTAA 60.667 50.000 0.00 0.00 32.29 3.09
4274 5733 1.135774 CGTCAGCAGTTACAGTCGCTA 60.136 52.381 0.00 0.00 32.29 4.26
4275 5734 0.387367 CGTCAGCAGTTACAGTCGCT 60.387 55.000 0.00 0.00 34.29 4.93
4276 5735 1.945776 GCGTCAGCAGTTACAGTCGC 61.946 60.000 0.00 0.00 44.35 5.19
4277 5736 2.062779 GCGTCAGCAGTTACAGTCG 58.937 57.895 0.00 0.00 44.35 4.18
4295 5754 2.397413 ATATTGCTCGCCCCCTTCGG 62.397 60.000 0.00 0.00 0.00 4.30
4296 5755 1.071471 ATATTGCTCGCCCCCTTCG 59.929 57.895 0.00 0.00 0.00 3.79
4297 5756 0.890996 CCATATTGCTCGCCCCCTTC 60.891 60.000 0.00 0.00 0.00 3.46
4298 5757 1.151450 CCATATTGCTCGCCCCCTT 59.849 57.895 0.00 0.00 0.00 3.95
4299 5758 1.645402 AACCATATTGCTCGCCCCCT 61.645 55.000 0.00 0.00 0.00 4.79
4300 5759 1.152756 AACCATATTGCTCGCCCCC 60.153 57.895 0.00 0.00 0.00 5.40
4301 5760 1.507141 CGAACCATATTGCTCGCCCC 61.507 60.000 0.00 0.00 0.00 5.80
4302 5761 1.507141 CCGAACCATATTGCTCGCCC 61.507 60.000 0.00 0.00 0.00 6.13
4303 5762 1.941812 CCGAACCATATTGCTCGCC 59.058 57.895 0.00 0.00 0.00 5.54
4304 5763 1.279840 GCCGAACCATATTGCTCGC 59.720 57.895 0.00 0.00 0.00 5.03
4305 5764 1.507141 GGGCCGAACCATATTGCTCG 61.507 60.000 0.00 0.00 42.05 5.03
4306 5765 0.465460 TGGGCCGAACCATATTGCTC 60.465 55.000 0.00 0.00 42.05 4.26
4307 5766 0.751643 GTGGGCCGAACCATATTGCT 60.752 55.000 0.00 0.00 43.59 3.91
4308 5767 1.733526 GTGGGCCGAACCATATTGC 59.266 57.895 0.00 0.00 43.59 3.56
4309 5768 2.021722 CGTGGGCCGAACCATATTG 58.978 57.895 0.00 0.00 43.59 1.90
4310 5769 1.822186 GCGTGGGCCGAACCATATT 60.822 57.895 0.00 0.00 43.59 1.28
4311 5770 2.203153 GCGTGGGCCGAACCATAT 60.203 61.111 0.00 0.00 43.59 1.78
4312 5771 4.823419 CGCGTGGGCCGAACCATA 62.823 66.667 0.00 0.00 43.59 2.74
4331 5790 4.664677 ACACGTGTGGCCTCGCTC 62.665 66.667 22.71 1.26 34.19 5.03
4332 5791 3.750373 AAACACGTGTGGCCTCGCT 62.750 57.895 24.16 0.00 34.19 4.93
4333 5792 1.500512 TAAAACACGTGTGGCCTCGC 61.501 55.000 24.16 6.24 34.19 5.03
4334 5793 1.136085 CATAAAACACGTGTGGCCTCG 60.136 52.381 24.16 9.18 34.19 4.63
4335 5794 1.877443 ACATAAAACACGTGTGGCCTC 59.123 47.619 24.16 0.00 34.19 4.70
4336 5795 1.975660 ACATAAAACACGTGTGGCCT 58.024 45.000 24.16 2.75 34.19 5.19
4337 5796 2.785713 AACATAAAACACGTGTGGCC 57.214 45.000 24.16 0.00 34.19 5.36


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

AutoCloner maintained by Alex Coulton.