Multiple sequence alignment - TraesCS7B01G391300

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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 TraesCS7B01G391300 chr7B 100.000 3358 0 0 1 3358 657931922 657935279 0.000000e+00 6202.0
1 TraesCS7B01G391300 chr7D 93.868 2854 125 30 101 2928 587069311 587072140 0.000000e+00 4255.0
2 TraesCS7B01G391300 chr7D 82.789 337 35 12 55 380 586971523 586971847 2.550000e-71 279.0
3 TraesCS7B01G391300 chr7D 90.476 105 10 0 3254 3358 587073386 587073490 4.520000e-29 139.0
4 TraesCS7B01G391300 chr7D 86.316 95 4 4 3171 3257 587072949 587073042 9.920000e-16 95.3
5 TraesCS7B01G391300 chr7A 92.305 2872 157 33 93 2928 678579726 678582569 0.000000e+00 4021.0
6 TraesCS7B01G391300 chr7A 82.143 336 35 12 55 379 678224354 678224675 7.140000e-67 265.0
7 TraesCS7B01G391300 chr7A 80.159 252 17 19 145 374 678175697 678175937 1.250000e-34 158.0
8 TraesCS7B01G391300 chr6B 81.828 908 147 14 1048 1950 204920780 204921674 0.000000e+00 747.0
9 TraesCS7B01G391300 chr6B 82.645 363 62 1 2002 2363 204922353 204922715 1.500000e-83 320.0
10 TraesCS7B01G391300 chr6A 81.718 908 148 14 1048 1950 143962534 143963428 0.000000e+00 741.0
11 TraesCS7B01G391300 chr6A 82.873 362 62 0 2002 2363 143964224 143964585 3.230000e-85 326.0
12 TraesCS7B01G391300 chr6D 81.498 908 150 14 1048 1950 115542959 115543853 0.000000e+00 730.0
13 TraesCS7B01G391300 chr6D 82.873 362 62 0 2002 2363 115544532 115544893 3.230000e-85 326.0


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 TraesCS7B01G391300 chr7B 657931922 657935279 3357 False 6202.000000 6202 100.0000 1 3358 1 chr7B.!!$F1 3357
1 TraesCS7B01G391300 chr7D 587069311 587073490 4179 False 1496.433333 4255 90.2200 101 3358 3 chr7D.!!$F2 3257
2 TraesCS7B01G391300 chr7A 678579726 678582569 2843 False 4021.000000 4021 92.3050 93 2928 1 chr7A.!!$F3 2835
3 TraesCS7B01G391300 chr6B 204920780 204922715 1935 False 533.500000 747 82.2365 1048 2363 2 chr6B.!!$F1 1315
4 TraesCS7B01G391300 chr6A 143962534 143964585 2051 False 533.500000 741 82.2955 1048 2363 2 chr6A.!!$F1 1315
5 TraesCS7B01G391300 chr6D 115542959 115544893 1934 False 528.000000 730 82.1855 1048 2363 2 chr6D.!!$F1 1315

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
91 92 0.103208 TTTCCATTTTTGCGTGCCGT 59.897 45.0 0.0 0.0 0.0 5.68 F
92 93 0.318275 TTCCATTTTTGCGTGCCGTC 60.318 50.0 0.0 0.0 0.0 4.79 F
590 609 0.881118 TGCTTGATTTTGGAGGCGAC 59.119 50.0 0.0 0.0 0.0 5.19 F
1952 1995 0.109964 GCGCCGTAAGTCAATTGCAA 60.110 50.0 0.0 0.0 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1347 1390 0.322456 CCATCAAAACCCGAGCCAGA 60.322 55.000 0.00 0.0 0.0 3.86 R
1935 1978 1.268352 TGGTTGCAATTGACTTACGGC 59.732 47.619 10.34 0.0 0.0 5.68 R
2135 2933 1.473258 TGTTCACCACAGCAAAAGCT 58.527 45.000 0.00 0.0 0.0 3.74 R
3316 5038 0.179097 GCGTAGAAGGGCTTGGAGAG 60.179 60.000 0.00 0.0 0.0 3.20 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 6.910995 GGCCTAATGAGATCAAATTCAGATG 58.089 40.000 0.00 0.00 0.00 2.90
25 26 6.072064 GGCCTAATGAGATCAAATTCAGATGG 60.072 42.308 0.00 0.00 0.00 3.51
26 27 6.569994 GCCTAATGAGATCAAATTCAGATGGC 60.570 42.308 0.00 1.83 32.66 4.40
27 28 5.434352 AATGAGATCAAATTCAGATGGCG 57.566 39.130 0.00 0.00 0.00 5.69
28 29 4.141233 TGAGATCAAATTCAGATGGCGA 57.859 40.909 0.00 0.00 0.00 5.54
29 30 4.124970 TGAGATCAAATTCAGATGGCGAG 58.875 43.478 0.00 0.00 0.00 5.03
30 31 2.877168 AGATCAAATTCAGATGGCGAGC 59.123 45.455 0.00 0.00 0.00 5.03
31 32 2.408271 TCAAATTCAGATGGCGAGCT 57.592 45.000 0.00 0.00 0.00 4.09
32 33 2.283298 TCAAATTCAGATGGCGAGCTC 58.717 47.619 2.73 2.73 0.00 4.09
33 34 2.093288 TCAAATTCAGATGGCGAGCTCT 60.093 45.455 12.85 0.00 0.00 4.09
34 35 2.237393 AATTCAGATGGCGAGCTCTC 57.763 50.000 12.85 3.04 0.00 3.20
35 36 0.392336 ATTCAGATGGCGAGCTCTCC 59.608 55.000 16.14 16.14 0.00 3.71
36 37 1.680522 TTCAGATGGCGAGCTCTCCC 61.681 60.000 19.93 15.64 0.00 4.30
37 38 2.841988 AGATGGCGAGCTCTCCCC 60.842 66.667 19.93 13.21 0.00 4.81
38 39 3.934962 GATGGCGAGCTCTCCCCC 61.935 72.222 19.93 10.83 0.00 5.40
44 45 3.462678 GAGCTCTCCCCCGGTGAC 61.463 72.222 6.43 0.00 0.00 3.67
45 46 3.966930 GAGCTCTCCCCCGGTGACT 62.967 68.421 6.43 0.00 0.00 3.41
46 47 3.775654 GCTCTCCCCCGGTGACTG 61.776 72.222 0.00 0.00 0.00 3.51
47 48 2.283966 CTCTCCCCCGGTGACTGT 60.284 66.667 0.00 0.00 0.00 3.55
48 49 2.603473 TCTCCCCCGGTGACTGTG 60.603 66.667 0.00 0.00 0.00 3.66
49 50 2.603473 CTCCCCCGGTGACTGTGA 60.603 66.667 0.00 0.00 0.00 3.58
50 51 2.122769 TCCCCCGGTGACTGTGAA 60.123 61.111 0.00 0.00 0.00 3.18
51 52 1.764571 CTCCCCCGGTGACTGTGAAA 61.765 60.000 0.00 0.00 0.00 2.69
52 53 1.149627 CCCCCGGTGACTGTGAAAA 59.850 57.895 0.00 0.00 0.00 2.29
53 54 0.466555 CCCCCGGTGACTGTGAAAAA 60.467 55.000 0.00 0.00 0.00 1.94
72 73 4.341366 AAAAATTAAACTGCAGCAGGCT 57.659 36.364 26.38 14.72 45.15 4.58
73 74 4.341366 AAAATTAAACTGCAGCAGGCTT 57.659 36.364 26.38 19.71 45.15 4.35
74 75 4.341366 AAATTAAACTGCAGCAGGCTTT 57.659 36.364 26.38 19.35 45.15 3.51
75 76 3.582714 ATTAAACTGCAGCAGGCTTTC 57.417 42.857 26.38 0.00 45.15 2.62
76 77 1.247567 TAAACTGCAGCAGGCTTTCC 58.752 50.000 26.38 0.00 45.15 3.13
77 78 0.756442 AAACTGCAGCAGGCTTTCCA 60.756 50.000 26.38 0.00 45.15 3.53
78 79 0.541296 AACTGCAGCAGGCTTTCCAT 60.541 50.000 26.38 0.00 45.15 3.41
79 80 0.541296 ACTGCAGCAGGCTTTCCATT 60.541 50.000 26.38 0.00 45.15 3.16
80 81 0.606604 CTGCAGCAGGCTTTCCATTT 59.393 50.000 15.35 0.00 45.15 2.32
81 82 1.001633 CTGCAGCAGGCTTTCCATTTT 59.998 47.619 15.35 0.00 45.15 1.82
82 83 1.417145 TGCAGCAGGCTTTCCATTTTT 59.583 42.857 0.00 0.00 45.15 1.94
83 84 1.802365 GCAGCAGGCTTTCCATTTTTG 59.198 47.619 0.00 0.00 40.25 2.44
84 85 1.802365 CAGCAGGCTTTCCATTTTTGC 59.198 47.619 0.00 0.00 33.74 3.68
85 86 0.792031 GCAGGCTTTCCATTTTTGCG 59.208 50.000 0.00 0.00 33.74 4.85
86 87 1.873486 GCAGGCTTTCCATTTTTGCGT 60.873 47.619 0.00 0.00 33.74 5.24
87 88 1.794116 CAGGCTTTCCATTTTTGCGTG 59.206 47.619 0.00 0.00 34.19 5.34
88 89 0.512518 GGCTTTCCATTTTTGCGTGC 59.487 50.000 0.00 0.00 0.00 5.34
89 90 0.512518 GCTTTCCATTTTTGCGTGCC 59.487 50.000 0.00 0.00 0.00 5.01
90 91 0.783579 CTTTCCATTTTTGCGTGCCG 59.216 50.000 0.00 0.00 0.00 5.69
91 92 0.103208 TTTCCATTTTTGCGTGCCGT 59.897 45.000 0.00 0.00 0.00 5.68
92 93 0.318275 TTCCATTTTTGCGTGCCGTC 60.318 50.000 0.00 0.00 0.00 4.79
93 94 2.080062 CCATTTTTGCGTGCCGTCG 61.080 57.895 0.00 0.00 0.00 5.12
94 95 1.082431 CATTTTTGCGTGCCGTCGA 60.082 52.632 0.00 0.00 0.00 4.20
95 96 1.082366 ATTTTTGCGTGCCGTCGAC 60.082 52.632 5.18 5.18 0.00 4.20
96 97 2.757946 ATTTTTGCGTGCCGTCGACG 62.758 55.000 30.33 30.33 39.87 5.12
178 184 2.868196 TCGCACCGAGAGAAGACG 59.132 61.111 0.00 0.00 0.00 4.18
281 296 1.324005 CCTCCACTCCCGACTTCCTC 61.324 65.000 0.00 0.00 0.00 3.71
306 321 4.104417 GAGTCGTCGCCTCGCAGT 62.104 66.667 0.00 0.00 0.00 4.40
452 471 3.747976 AATTTCACCGCCCGCTGC 61.748 61.111 0.00 0.00 0.00 5.25
482 501 5.447413 GGTTGCGCTTACTATTTCCTTCTTC 60.447 44.000 9.73 0.00 0.00 2.87
485 504 4.508492 GCGCTTACTATTTCCTTCTTCTCC 59.492 45.833 0.00 0.00 0.00 3.71
590 609 0.881118 TGCTTGATTTTGGAGGCGAC 59.119 50.000 0.00 0.00 0.00 5.19
597 616 3.842925 TTTGGAGGCGACTGGTGGC 62.843 63.158 0.00 0.00 44.43 5.01
605 624 4.767255 GACTGGTGGCCTCGGCAG 62.767 72.222 10.51 6.92 44.11 4.85
627 647 0.890996 GGGAGGGCCGAATTAGCATG 60.891 60.000 0.00 0.00 33.83 4.06
634 655 2.163412 GGCCGAATTAGCATGTTTGTGA 59.837 45.455 0.00 0.00 0.00 3.58
638 659 4.201851 CCGAATTAGCATGTTTGTGAGAGG 60.202 45.833 0.00 0.00 0.00 3.69
657 678 0.970937 GCCCCCTGCTTTTAACCTCC 60.971 60.000 0.00 0.00 36.87 4.30
698 719 1.692173 TAGGTGGGGAATGCGTAGGC 61.692 60.000 0.00 0.00 40.52 3.93
729 750 0.898320 AGTGCTGCGTCTTGTATCCT 59.102 50.000 0.00 0.00 0.00 3.24
836 871 3.751246 CACAGCCGTGCAATGGGG 61.751 66.667 8.24 0.00 45.58 4.96
847 882 1.280421 TGCAATGGGGCAAATTTACCC 59.720 47.619 17.24 17.24 46.24 3.69
852 887 1.133009 TGGGGCAAATTTACCCTGTGT 60.133 47.619 23.24 0.00 46.19 3.72
856 891 3.574826 GGGCAAATTTACCCTGTGTTGTA 59.425 43.478 18.08 0.00 43.36 2.41
857 892 4.321675 GGGCAAATTTACCCTGTGTTGTAG 60.322 45.833 18.08 0.00 43.36 2.74
858 893 4.279922 GGCAAATTTACCCTGTGTTGTAGT 59.720 41.667 0.00 0.00 0.00 2.73
859 894 5.474189 GGCAAATTTACCCTGTGTTGTAGTA 59.526 40.000 0.00 0.00 0.00 1.82
862 897 8.899771 GCAAATTTACCCTGTGTTGTAGTATAT 58.100 33.333 0.00 0.00 0.00 0.86
882 917 6.968131 ATATGTTAGGTTATATGTGCTGCG 57.032 37.500 0.00 0.00 0.00 5.18
886 921 2.146342 AGGTTATATGTGCTGCGCATC 58.854 47.619 29.72 16.37 41.91 3.91
888 923 2.158449 GGTTATATGTGCTGCGCATCTC 59.842 50.000 29.72 17.83 41.91 2.75
893 928 2.586914 TGCTGCGCATCTCGATGG 60.587 61.111 12.24 0.00 41.67 3.51
895 930 2.593134 GCTGCGCATCTCGATGGAC 61.593 63.158 12.24 0.00 41.67 4.02
896 931 1.227060 CTGCGCATCTCGATGGACA 60.227 57.895 12.24 0.00 41.67 4.02
897 932 1.213733 CTGCGCATCTCGATGGACAG 61.214 60.000 12.24 0.00 41.67 3.51
898 933 1.227089 GCGCATCTCGATGGACAGT 60.227 57.895 0.30 0.00 41.67 3.55
899 934 1.211818 GCGCATCTCGATGGACAGTC 61.212 60.000 0.30 0.00 41.67 3.51
937 974 6.619464 TGGTTATATATGCAGGGACCATTTT 58.381 36.000 0.00 0.00 31.26 1.82
947 984 3.954258 CAGGGACCATTTTATTCCTGGAC 59.046 47.826 0.00 0.00 38.38 4.02
966 1003 6.564709 TGGACAACAGATCATTTTCAGAAG 57.435 37.500 0.00 0.00 0.00 2.85
968 1005 5.182760 GGACAACAGATCATTTTCAGAAGCT 59.817 40.000 0.00 0.00 0.00 3.74
976 1013 5.217978 TCATTTTCAGAAGCTTTGCCATT 57.782 34.783 0.00 0.00 0.00 3.16
1169 1212 2.600420 CGGACAACATGAACTCGATGAG 59.400 50.000 0.00 0.00 35.52 2.90
1254 1297 1.302431 CGTCATGCTCAACCACCCA 60.302 57.895 0.00 0.00 0.00 4.51
1308 1351 3.363970 CGGTTTGCAACAGTGTCATCTAC 60.364 47.826 0.00 0.00 0.00 2.59
1347 1390 2.235898 GTCTGTTCTCAAGGAGGATGCT 59.764 50.000 0.00 0.00 40.15 3.79
1348 1391 2.499289 TCTGTTCTCAAGGAGGATGCTC 59.501 50.000 5.52 5.52 33.13 4.26
1491 1534 2.870411 GCTGTATCGGGGAACATACAAC 59.130 50.000 0.00 0.00 35.53 3.32
1926 1969 1.546961 CAGAGACAGGAACCTACCGT 58.453 55.000 0.00 0.00 34.73 4.83
1935 1978 1.078708 AACCTACCGTTGGATGGCG 60.079 57.895 5.98 0.00 31.79 5.69
1952 1995 0.109964 GCGCCGTAAGTCAATTGCAA 60.110 50.000 0.00 0.00 0.00 4.08
2135 2933 1.672030 CATGACAGCGGTTCAGGCA 60.672 57.895 0.00 0.00 0.00 4.75
2261 3059 1.463674 GCCCATCATTCAACGAGGTT 58.536 50.000 0.00 0.00 0.00 3.50
2385 3183 1.689273 GCCAGGATACAGAGTACCAGG 59.311 57.143 0.00 0.00 41.41 4.45
2490 3289 2.203070 GTGTGCCTGCCTATCCGG 60.203 66.667 0.00 0.00 0.00 5.14
2665 3465 5.680619 TGTTAACAAGGAGCTATGGTATGG 58.319 41.667 5.64 0.00 0.00 2.74
2666 3466 5.190925 TGTTAACAAGGAGCTATGGTATGGT 59.809 40.000 5.64 0.00 0.00 3.55
2667 3467 6.384595 TGTTAACAAGGAGCTATGGTATGGTA 59.615 38.462 5.64 0.00 0.00 3.25
2668 3468 7.071950 TGTTAACAAGGAGCTATGGTATGGTAT 59.928 37.037 5.64 0.00 0.00 2.73
2669 3469 5.489792 ACAAGGAGCTATGGTATGGTATG 57.510 43.478 0.00 0.00 0.00 2.39
2670 3470 4.907875 ACAAGGAGCTATGGTATGGTATGT 59.092 41.667 0.00 0.00 0.00 2.29
2671 3471 5.221722 ACAAGGAGCTATGGTATGGTATGTG 60.222 44.000 0.00 0.00 0.00 3.21
2684 3484 0.370273 GTATGTGTTCTCCGCAAGCG 59.630 55.000 7.60 7.60 37.07 4.68
2706 3506 4.201666 CGAAGAGCTATCTTTGTCTTGTGC 60.202 45.833 0.00 0.00 45.98 4.57
2762 3562 3.058224 GCTGTTGTGTAAATCTGTGTCCC 60.058 47.826 0.00 0.00 0.00 4.46
2773 3573 1.355381 TCTGTGTCCCATTGCCTGAAT 59.645 47.619 0.00 0.00 0.00 2.57
2775 3575 1.355381 TGTGTCCCATTGCCTGAATCT 59.645 47.619 0.00 0.00 0.00 2.40
2783 3583 0.038166 TTGCCTGAATCTTCGGCCTT 59.962 50.000 17.18 0.00 42.27 4.35
2784 3584 0.677731 TGCCTGAATCTTCGGCCTTG 60.678 55.000 17.18 0.00 42.27 3.61
2785 3585 1.997928 GCCTGAATCTTCGGCCTTGC 61.998 60.000 0.00 0.21 39.37 4.01
2798 3598 1.405661 GGCCTTGCTAGTGGTCACTAC 60.406 57.143 6.73 5.57 42.54 2.73
2840 3641 4.512571 TGAGAATTGTGATGACTGTGTGTG 59.487 41.667 0.00 0.00 0.00 3.82
2861 3662 1.470098 CTGCCATTCTTTTCACCTCCG 59.530 52.381 0.00 0.00 0.00 4.63
2867 3668 1.438651 TCTTTTCACCTCCGAATGCG 58.561 50.000 0.00 0.00 37.24 4.73
2902 3703 7.605691 TGTTCTCATCAGATTCTTCTTCTTTCC 59.394 37.037 0.00 0.00 0.00 3.13
2914 3715 8.438676 TTCTTCTTCTTTCCGGATCAATTATC 57.561 34.615 4.15 0.00 0.00 1.75
2928 3729 8.547894 CGGATCAATTATCGTCTATGTCAAAAA 58.452 33.333 0.00 0.00 35.21 1.94
2976 3777 9.533253 AATTCAAGATAACAGTGTTCTTTTTGG 57.467 29.630 12.82 0.00 0.00 3.28
2977 3778 7.873719 TCAAGATAACAGTGTTCTTTTTGGA 57.126 32.000 12.82 2.02 0.00 3.53
2978 3779 8.463930 TCAAGATAACAGTGTTCTTTTTGGAT 57.536 30.769 12.82 0.00 0.00 3.41
2979 3780 8.567948 TCAAGATAACAGTGTTCTTTTTGGATC 58.432 33.333 12.82 7.36 0.00 3.36
2980 3781 8.352201 CAAGATAACAGTGTTCTTTTTGGATCA 58.648 33.333 12.82 0.00 0.00 2.92
2981 3782 8.463930 AGATAACAGTGTTCTTTTTGGATCAA 57.536 30.769 12.82 0.00 0.00 2.57
2982 3783 9.082313 AGATAACAGTGTTCTTTTTGGATCAAT 57.918 29.630 12.82 0.00 0.00 2.57
2983 3784 9.696917 GATAACAGTGTTCTTTTTGGATCAATT 57.303 29.630 12.82 0.00 0.00 2.32
2988 3789 9.480053 CAGTGTTCTTTTTGGATCAATTATTGT 57.520 29.630 4.77 0.00 0.00 2.71
2989 3790 9.696917 AGTGTTCTTTTTGGATCAATTATTGTC 57.303 29.630 4.77 2.56 0.00 3.18
3030 3831 8.851541 AATAAACATTTTGGATCAATTGCTGT 57.148 26.923 0.00 0.00 0.00 4.40
3031 3832 6.790285 AAACATTTTGGATCAATTGCTGTC 57.210 33.333 0.00 0.00 0.00 3.51
3032 3833 5.733620 ACATTTTGGATCAATTGCTGTCT 57.266 34.783 0.00 0.00 0.00 3.41
3034 3835 7.414222 ACATTTTGGATCAATTGCTGTCTAT 57.586 32.000 0.00 0.00 0.00 1.98
3046 3900 9.108284 TCAATTGCTGTCTATATCAAAATTCGA 57.892 29.630 0.00 0.00 0.00 3.71
3047 3901 9.720667 CAATTGCTGTCTATATCAAAATTCGAA 57.279 29.630 0.00 0.00 0.00 3.71
3062 3916 9.825109 TCAAAATTCGAAATAAACCTTTTCCTT 57.175 25.926 0.00 0.00 30.89 3.36
3068 3922 7.042335 TCGAAATAAACCTTTTCCTTTTTGCA 58.958 30.769 0.00 0.00 30.89 4.08
3069 3923 7.549488 TCGAAATAAACCTTTTCCTTTTTGCAA 59.451 29.630 0.00 0.00 30.89 4.08
3070 3924 7.638295 CGAAATAAACCTTTTCCTTTTTGCAAC 59.362 33.333 0.00 0.00 30.89 4.17
3071 3925 6.935741 ATAAACCTTTTCCTTTTTGCAACC 57.064 33.333 0.00 0.00 0.00 3.77
3086 4304 7.872113 TTTTGCAACCAATCCAAAATAAACT 57.128 28.000 0.00 0.00 34.58 2.66
3087 4305 7.489574 TTTGCAACCAATCCAAAATAAACTC 57.510 32.000 0.00 0.00 0.00 3.01
3102 4320 1.663695 AACTCTGTTCACCGGTGTTG 58.336 50.000 32.74 20.20 35.40 3.33
3104 4322 1.507141 CTCTGTTCACCGGTGTTGGC 61.507 60.000 32.74 20.49 0.00 4.52
3109 4327 2.358737 CACCGGTGTTGGCCTCTC 60.359 66.667 26.95 0.00 0.00 3.20
3111 4329 2.266055 CCGGTGTTGGCCTCTCTC 59.734 66.667 3.32 0.00 0.00 3.20
3113 4331 1.216710 CGGTGTTGGCCTCTCTCTC 59.783 63.158 3.32 0.00 0.00 3.20
3115 4333 0.534873 GGTGTTGGCCTCTCTCTCTC 59.465 60.000 3.32 0.00 0.00 3.20
3118 4336 1.076187 TGTTGGCCTCTCTCTCTCTGA 59.924 52.381 3.32 0.00 0.00 3.27
3119 4337 2.292126 TGTTGGCCTCTCTCTCTCTGAT 60.292 50.000 3.32 0.00 0.00 2.90
3120 4338 2.362077 GTTGGCCTCTCTCTCTCTGATC 59.638 54.545 3.32 0.00 0.00 2.92
3121 4339 1.852309 TGGCCTCTCTCTCTCTGATCT 59.148 52.381 3.32 0.00 0.00 2.75
3122 4340 2.158623 TGGCCTCTCTCTCTCTGATCTC 60.159 54.545 3.32 0.00 0.00 2.75
3123 4341 2.508526 GCCTCTCTCTCTCTGATCTCC 58.491 57.143 0.00 0.00 0.00 3.71
3124 4342 2.815589 GCCTCTCTCTCTCTGATCTCCC 60.816 59.091 0.00 0.00 0.00 4.30
3125 4343 2.713167 CCTCTCTCTCTCTGATCTCCCT 59.287 54.545 0.00 0.00 0.00 4.20
3126 4344 3.139025 CCTCTCTCTCTCTGATCTCCCTT 59.861 52.174 0.00 0.00 0.00 3.95
3128 4346 5.304686 TCTCTCTCTCTGATCTCCCTTAC 57.695 47.826 0.00 0.00 0.00 2.34
3131 4349 4.724293 TCTCTCTCTGATCTCCCTTACAGA 59.276 45.833 0.00 0.00 37.71 3.41
3132 4350 5.372363 TCTCTCTCTGATCTCCCTTACAGAT 59.628 44.000 0.00 0.00 38.43 2.90
3133 4351 5.630121 TCTCTCTGATCTCCCTTACAGATC 58.370 45.833 0.00 3.19 44.62 2.75
3134 4352 4.393834 TCTCTGATCTCCCTTACAGATCG 58.606 47.826 0.00 1.81 46.52 3.69
3135 4353 3.932545 CTGATCTCCCTTACAGATCGG 57.067 52.381 4.51 4.51 46.52 4.18
3136 4354 3.595190 TGATCTCCCTTACAGATCGGA 57.405 47.619 0.00 0.00 46.52 4.55
3137 4355 3.491342 TGATCTCCCTTACAGATCGGAG 58.509 50.000 0.00 2.77 46.52 4.63
3138 4356 3.117474 TGATCTCCCTTACAGATCGGAGT 60.117 47.826 10.68 3.51 46.52 3.85
3140 4358 3.024547 TCTCCCTTACAGATCGGAGTTG 58.975 50.000 10.68 0.00 42.21 3.16
3141 4359 2.101582 CTCCCTTACAGATCGGAGTTGG 59.898 54.545 0.00 1.30 37.67 3.77
3143 4361 1.831736 CCTTACAGATCGGAGTTGGGT 59.168 52.381 0.00 0.00 0.00 4.51
3144 4362 2.159085 CCTTACAGATCGGAGTTGGGTC 60.159 54.545 0.00 0.00 0.00 4.46
3145 4363 1.481871 TACAGATCGGAGTTGGGTCC 58.518 55.000 0.00 0.00 0.00 4.46
3146 4364 1.265454 ACAGATCGGAGTTGGGTCCC 61.265 60.000 0.00 0.00 32.26 4.46
3147 4365 1.689582 AGATCGGAGTTGGGTCCCC 60.690 63.158 5.13 0.00 32.26 4.81
3148 4366 3.081409 ATCGGAGTTGGGTCCCCG 61.081 66.667 5.13 0.74 43.02 5.73
3149 4367 3.918328 ATCGGAGTTGGGTCCCCGT 62.918 63.158 5.13 0.00 42.34 5.28
3150 4368 4.078516 CGGAGTTGGGTCCCCGTC 62.079 72.222 5.13 0.00 39.42 4.79
3151 4369 3.714001 GGAGTTGGGTCCCCGTCC 61.714 72.222 5.13 4.96 39.42 4.79
3153 4371 1.305549 GAGTTGGGTCCCCGTCCTA 60.306 63.158 5.13 0.00 39.42 2.94
3154 4372 1.305887 AGTTGGGTCCCCGTCCTAG 60.306 63.158 5.13 0.00 39.42 3.02
3156 4374 1.305549 TTGGGTCCCCGTCCTAGTC 60.306 63.158 5.13 0.00 39.42 2.59
3157 4375 2.832201 GGGTCCCCGTCCTAGTCG 60.832 72.222 0.00 0.00 0.00 4.18
3166 4384 3.129502 TCCTAGTCGGACGCGGTG 61.130 66.667 12.47 0.00 36.69 4.94
3167 4385 3.437795 CCTAGTCGGACGCGGTGT 61.438 66.667 12.47 0.00 33.16 4.16
3168 4386 2.564975 CTAGTCGGACGCGGTGTT 59.435 61.111 12.47 0.00 0.00 3.32
3169 4387 1.800315 CTAGTCGGACGCGGTGTTG 60.800 63.158 12.47 0.00 0.00 3.33
3170 4388 3.902162 TAGTCGGACGCGGTGTTGC 62.902 63.158 12.47 0.00 0.00 4.17
3192 4560 4.020485 GCTCCTCCGCTTTTATATAGGGAA 60.020 45.833 0.00 0.00 0.00 3.97
3193 4561 5.725362 CTCCTCCGCTTTTATATAGGGAAG 58.275 45.833 0.00 0.00 0.00 3.46
3194 4562 4.530946 TCCTCCGCTTTTATATAGGGAAGG 59.469 45.833 0.00 0.00 0.00 3.46
3197 4565 6.110411 TCCGCTTTTATATAGGGAAGGAAG 57.890 41.667 0.00 0.00 0.00 3.46
3209 4577 0.949105 GAAGGAAGAGTTCGCGCCAA 60.949 55.000 0.00 0.00 0.00 4.52
3210 4578 0.951040 AAGGAAGAGTTCGCGCCAAG 60.951 55.000 0.00 0.00 0.00 3.61
3211 4579 2.476499 GAAGAGTTCGCGCCAAGC 59.524 61.111 0.00 0.00 43.95 4.01
3224 4599 2.928694 CGCCAAGCAATTTACGTTTCT 58.071 42.857 0.00 0.00 0.00 2.52
3305 5027 4.125695 CCCGTTCCCCGAGACGAC 62.126 72.222 0.00 0.00 41.53 4.34
3336 5058 1.519455 CTCCAAGCCCTTCTACGCG 60.519 63.158 3.53 3.53 0.00 6.01
3341 5063 4.125695 GCCCTTCTACGCGTCGGT 62.126 66.667 18.63 0.00 0.00 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.072064 CCATCTGAATTTGATCTCATTAGGCC 60.072 42.308 0.00 0.00 0.00 5.19
2 3 6.348295 CGCCATCTGAATTTGATCTCATTAGG 60.348 42.308 0.00 0.00 0.00 2.69
4 5 6.290605 TCGCCATCTGAATTTGATCTCATTA 58.709 36.000 0.00 0.00 0.00 1.90
5 6 5.128205 TCGCCATCTGAATTTGATCTCATT 58.872 37.500 0.00 0.00 0.00 2.57
6 7 4.711399 TCGCCATCTGAATTTGATCTCAT 58.289 39.130 0.00 0.00 0.00 2.90
7 8 4.124970 CTCGCCATCTGAATTTGATCTCA 58.875 43.478 0.00 0.00 0.00 3.27
8 9 3.059051 GCTCGCCATCTGAATTTGATCTC 60.059 47.826 0.00 0.00 0.00 2.75
9 10 2.877168 GCTCGCCATCTGAATTTGATCT 59.123 45.455 0.00 0.00 0.00 2.75
10 11 2.877168 AGCTCGCCATCTGAATTTGATC 59.123 45.455 0.00 0.00 0.00 2.92
11 12 2.877168 GAGCTCGCCATCTGAATTTGAT 59.123 45.455 0.00 0.00 0.00 2.57
12 13 2.093288 AGAGCTCGCCATCTGAATTTGA 60.093 45.455 8.37 0.00 0.00 2.69
13 14 2.286872 AGAGCTCGCCATCTGAATTTG 58.713 47.619 8.37 0.00 0.00 2.32
14 15 2.559440 GAGAGCTCGCCATCTGAATTT 58.441 47.619 8.37 0.00 0.00 1.82
15 16 1.202627 GGAGAGCTCGCCATCTGAATT 60.203 52.381 29.33 0.00 35.76 2.17
16 17 0.392336 GGAGAGCTCGCCATCTGAAT 59.608 55.000 29.33 0.00 35.76 2.57
17 18 1.680522 GGGAGAGCTCGCCATCTGAA 61.681 60.000 33.61 0.00 37.57 3.02
18 19 2.130426 GGGAGAGCTCGCCATCTGA 61.130 63.158 33.61 0.00 37.57 3.27
19 20 2.420890 GGGAGAGCTCGCCATCTG 59.579 66.667 33.61 0.00 37.57 2.90
27 28 3.462678 GTCACCGGGGGAGAGCTC 61.463 72.222 2.42 5.27 0.00 4.09
28 29 3.999285 AGTCACCGGGGGAGAGCT 61.999 66.667 2.42 0.00 0.00 4.09
29 30 3.775654 CAGTCACCGGGGGAGAGC 61.776 72.222 2.42 0.00 0.00 4.09
30 31 2.283966 ACAGTCACCGGGGGAGAG 60.284 66.667 2.42 0.00 0.00 3.20
31 32 2.603473 CACAGTCACCGGGGGAGA 60.603 66.667 2.42 0.00 0.00 3.71
32 33 1.764571 TTTCACAGTCACCGGGGGAG 61.765 60.000 2.42 0.00 0.00 4.30
33 34 1.346479 TTTTCACAGTCACCGGGGGA 61.346 55.000 2.42 0.00 0.00 4.81
34 35 0.466555 TTTTTCACAGTCACCGGGGG 60.467 55.000 2.42 0.00 0.00 5.40
35 36 3.103637 TTTTTCACAGTCACCGGGG 57.896 52.632 6.32 0.00 0.00 5.73
51 52 4.341366 AGCCTGCTGCAGTTTAATTTTT 57.659 36.364 26.41 0.52 44.83 1.94
52 53 4.341366 AAGCCTGCTGCAGTTTAATTTT 57.659 36.364 26.41 8.35 44.83 1.82
53 54 4.309933 GAAAGCCTGCTGCAGTTTAATTT 58.690 39.130 26.41 18.00 44.83 1.82
54 55 3.306294 GGAAAGCCTGCTGCAGTTTAATT 60.306 43.478 26.41 14.22 44.83 1.40
55 56 2.232208 GGAAAGCCTGCTGCAGTTTAAT 59.768 45.455 26.41 9.96 44.83 1.40
56 57 1.613437 GGAAAGCCTGCTGCAGTTTAA 59.387 47.619 26.41 0.00 44.83 1.52
57 58 1.247567 GGAAAGCCTGCTGCAGTTTA 58.752 50.000 26.41 1.32 44.83 2.01
58 59 0.756442 TGGAAAGCCTGCTGCAGTTT 60.756 50.000 26.41 20.61 44.83 2.66
59 60 0.541296 ATGGAAAGCCTGCTGCAGTT 60.541 50.000 26.41 15.36 44.83 3.16
60 61 0.541296 AATGGAAAGCCTGCTGCAGT 60.541 50.000 26.41 9.52 44.83 4.40
61 62 0.606604 AAATGGAAAGCCTGCTGCAG 59.393 50.000 22.44 22.44 44.83 4.41
62 63 1.050204 AAAATGGAAAGCCTGCTGCA 58.950 45.000 0.88 0.88 44.83 4.41
63 64 1.802365 CAAAAATGGAAAGCCTGCTGC 59.198 47.619 0.00 0.00 41.71 5.25
64 65 1.802365 GCAAAAATGGAAAGCCTGCTG 59.198 47.619 0.00 0.00 34.31 4.41
65 66 1.606224 CGCAAAAATGGAAAGCCTGCT 60.606 47.619 0.00 0.00 30.47 4.24
66 67 0.792031 CGCAAAAATGGAAAGCCTGC 59.208 50.000 0.00 0.00 34.31 4.85
67 68 1.794116 CACGCAAAAATGGAAAGCCTG 59.206 47.619 0.00 0.00 34.31 4.85
68 69 1.873486 GCACGCAAAAATGGAAAGCCT 60.873 47.619 0.00 0.00 34.31 4.58
69 70 0.512518 GCACGCAAAAATGGAAAGCC 59.487 50.000 0.00 0.00 0.00 4.35
70 71 0.512518 GGCACGCAAAAATGGAAAGC 59.487 50.000 0.00 0.00 0.00 3.51
127 128 0.694444 AGATATCCACGGCCCACCTT 60.694 55.000 0.00 0.00 0.00 3.50
130 131 0.249911 GTGAGATATCCACGGCCCAC 60.250 60.000 0.00 0.00 0.00 4.61
139 140 5.587289 GAGCGAGGATAATGTGAGATATCC 58.413 45.833 0.00 4.07 45.26 2.59
142 143 3.119814 GCGAGCGAGGATAATGTGAGATA 60.120 47.826 0.00 0.00 0.00 1.98
194 200 2.784347 CCTCGCTCTCCCTTTTTCTTT 58.216 47.619 0.00 0.00 0.00 2.52
281 296 4.493747 GCGACGACTCGGAAGGGG 62.494 72.222 0.00 0.00 40.53 4.79
303 318 3.054503 GCTGTGCCTGCCTGACTG 61.055 66.667 0.00 0.00 0.00 3.51
304 319 3.563224 TGCTGTGCCTGCCTGACT 61.563 61.111 2.54 0.00 0.00 3.41
305 320 3.360340 GTGCTGTGCCTGCCTGAC 61.360 66.667 2.54 0.00 0.00 3.51
306 321 4.994471 CGTGCTGTGCCTGCCTGA 62.994 66.667 2.54 0.00 0.00 3.86
564 583 1.216178 CAAAATCAAGCAGGCGGGG 59.784 57.895 0.00 0.00 0.00 5.73
627 647 1.303643 CAGGGGGCCTCTCACAAAC 60.304 63.158 0.61 0.00 0.00 2.93
634 655 0.039764 GTTAAAAGCAGGGGGCCTCT 59.960 55.000 0.00 0.00 46.50 3.69
638 659 0.970937 GGAGGTTAAAAGCAGGGGGC 60.971 60.000 0.00 0.00 45.30 5.80
657 678 2.578786 ACCAACCAAAACTAACCCTCG 58.421 47.619 0.00 0.00 0.00 4.63
698 719 1.020333 GCAGCACTGAAGCTCTCCTG 61.020 60.000 0.81 0.00 44.54 3.86
715 736 1.621317 TCACCAAGGATACAAGACGCA 59.379 47.619 0.00 0.00 41.41 5.24
729 750 3.318839 CAGACCAAATTGAGCTTCACCAA 59.681 43.478 0.00 0.00 0.00 3.67
836 871 5.447624 ACTACAACACAGGGTAAATTTGC 57.552 39.130 0.00 0.00 0.00 3.68
856 891 7.759886 CGCAGCACATATAACCTAACATATACT 59.240 37.037 0.00 0.00 0.00 2.12
857 892 7.895870 CGCAGCACATATAACCTAACATATAC 58.104 38.462 0.00 0.00 0.00 1.47
859 894 6.968131 CGCAGCACATATAACCTAACATAT 57.032 37.500 0.00 0.00 0.00 1.78
878 913 1.213733 CTGTCCATCGAGATGCGCAG 61.214 60.000 18.32 1.21 40.61 5.18
882 917 2.522836 ATGACTGTCCATCGAGATGC 57.477 50.000 5.17 0.00 37.49 3.91
886 921 5.471797 ACAGAGTATATGACTGTCCATCGAG 59.528 44.000 5.17 0.00 40.19 4.04
888 923 5.697473 ACAGAGTATATGACTGTCCATCG 57.303 43.478 5.17 0.00 40.19 3.84
895 930 5.860941 AACCAGGACAGAGTATATGACTG 57.139 43.478 0.00 0.00 39.06 3.51
899 934 9.973450 GCATATATAACCAGGACAGAGTATATG 57.027 37.037 0.00 4.53 35.73 1.78
937 974 7.174413 TGAAAATGATCTGTTGTCCAGGAATA 58.826 34.615 0.00 0.00 41.83 1.75
941 978 5.005740 TCTGAAAATGATCTGTTGTCCAGG 58.994 41.667 0.00 0.00 41.83 4.45
947 984 6.128902 GCAAAGCTTCTGAAAATGATCTGTTG 60.129 38.462 0.00 0.00 0.00 3.33
966 1003 0.104671 ACACACACCAATGGCAAAGC 59.895 50.000 0.00 0.00 0.00 3.51
968 1005 1.741732 GCAACACACACCAATGGCAAA 60.742 47.619 0.00 0.00 0.00 3.68
976 1013 2.373224 TCAAAGATGCAACACACACCA 58.627 42.857 0.00 0.00 0.00 4.17
1254 1297 3.083997 GGGACATCACGGAGGCCT 61.084 66.667 3.86 3.86 0.00 5.19
1347 1390 0.322456 CCATCAAAACCCGAGCCAGA 60.322 55.000 0.00 0.00 0.00 3.86
1348 1391 0.322456 TCCATCAAAACCCGAGCCAG 60.322 55.000 0.00 0.00 0.00 4.85
1926 1969 1.448893 GACTTACGGCGCCATCCAA 60.449 57.895 28.98 12.75 0.00 3.53
1935 1978 1.268352 TGGTTGCAATTGACTTACGGC 59.732 47.619 10.34 0.00 0.00 5.68
1952 1995 6.267070 CACAAATAAAAACAACGGTAGTGGT 58.733 36.000 0.00 0.00 35.66 4.16
2135 2933 1.473258 TGTTCACCACAGCAAAAGCT 58.527 45.000 0.00 0.00 0.00 3.74
2261 3059 2.265739 GCCTCGAGCATGGTCACA 59.734 61.111 23.68 9.26 42.97 3.58
2385 3183 7.145323 TCGTTCTTCTTCCCATTTTTCATTTC 58.855 34.615 0.00 0.00 0.00 2.17
2490 3289 2.191641 GGGCAGCCATCAGACCTC 59.808 66.667 15.19 0.00 0.00 3.85
2665 3465 0.370273 CGCTTGCGGAGAACACATAC 59.630 55.000 7.16 0.00 0.00 2.39
2666 3466 0.245266 TCGCTTGCGGAGAACACATA 59.755 50.000 15.10 0.00 0.00 2.29
2667 3467 0.602638 TTCGCTTGCGGAGAACACAT 60.603 50.000 15.10 0.00 0.00 3.21
2668 3468 1.221466 CTTCGCTTGCGGAGAACACA 61.221 55.000 17.46 0.00 30.90 3.72
2669 3469 0.944311 TCTTCGCTTGCGGAGAACAC 60.944 55.000 21.84 0.00 30.90 3.32
2670 3470 0.667487 CTCTTCGCTTGCGGAGAACA 60.667 55.000 23.68 5.40 30.90 3.18
2671 3471 1.960994 GCTCTTCGCTTGCGGAGAAC 61.961 60.000 23.68 17.19 35.14 3.01
2684 3484 4.934602 AGCACAAGACAAAGATAGCTCTTC 59.065 41.667 0.00 0.00 40.93 2.87
2706 3506 2.671888 CAGAATATGCAGCCGCTATCAG 59.328 50.000 0.00 0.00 39.64 2.90
2762 3562 0.383231 GGCCGAAGATTCAGGCAATG 59.617 55.000 21.42 0.00 43.63 2.82
2773 3573 1.192146 ACCACTAGCAAGGCCGAAGA 61.192 55.000 0.00 0.00 0.00 2.87
2775 3575 1.295423 GACCACTAGCAAGGCCGAA 59.705 57.895 0.00 0.00 0.00 4.30
2798 3598 4.584325 TCTCAAATCAACAAAACCAGGAGG 59.416 41.667 0.00 0.00 42.21 4.30
2840 3641 1.203287 GGAGGTGAAAAGAATGGCAGC 59.797 52.381 0.00 0.00 0.00 5.25
2861 3662 5.484173 TGAGAACAATATGAACCGCATTC 57.516 39.130 0.00 0.00 38.44 2.67
2867 3668 8.674263 AGAATCTGATGAGAACAATATGAACC 57.326 34.615 0.00 0.00 0.00 3.62
2902 3703 7.637709 TTTGACATAGACGATAATTGATCCG 57.362 36.000 0.00 0.00 0.00 4.18
2950 3751 9.533253 CCAAAAAGAACACTGTTATCTTGAATT 57.467 29.630 10.67 0.00 33.86 2.17
2951 3752 8.912988 TCCAAAAAGAACACTGTTATCTTGAAT 58.087 29.630 10.67 0.00 33.86 2.57
2953 3754 7.873719 TCCAAAAAGAACACTGTTATCTTGA 57.126 32.000 10.67 0.00 33.86 3.02
2955 3756 8.463930 TGATCCAAAAAGAACACTGTTATCTT 57.536 30.769 0.00 0.00 35.00 2.40
2956 3757 8.463930 TTGATCCAAAAAGAACACTGTTATCT 57.536 30.769 0.00 0.00 0.00 1.98
2961 3762 9.480053 CAATAATTGATCCAAAAAGAACACTGT 57.520 29.630 0.00 0.00 0.00 3.55
2962 3763 9.480053 ACAATAATTGATCCAAAAAGAACACTG 57.520 29.630 0.00 0.00 0.00 3.66
2963 3764 9.696917 GACAATAATTGATCCAAAAAGAACACT 57.303 29.630 0.00 0.00 0.00 3.55
2964 3765 9.696917 AGACAATAATTGATCCAAAAAGAACAC 57.303 29.630 0.00 0.00 0.00 3.32
3004 3805 9.287373 ACAGCAATTGATCCAAAATGTTTATTT 57.713 25.926 10.34 0.00 38.11 1.40
3005 3806 8.851541 ACAGCAATTGATCCAAAATGTTTATT 57.148 26.923 10.34 0.00 0.00 1.40
3006 3807 8.316214 AGACAGCAATTGATCCAAAATGTTTAT 58.684 29.630 10.34 0.00 0.00 1.40
3008 3809 6.527423 AGACAGCAATTGATCCAAAATGTTT 58.473 32.000 10.34 0.00 0.00 2.83
3010 3811 5.733620 AGACAGCAATTGATCCAAAATGT 57.266 34.783 10.34 0.00 0.00 2.71
3011 3812 9.622004 GATATAGACAGCAATTGATCCAAAATG 57.378 33.333 10.34 0.00 0.00 2.32
3012 3813 9.358406 TGATATAGACAGCAATTGATCCAAAAT 57.642 29.630 10.34 0.00 0.00 1.82
3013 3814 8.750515 TGATATAGACAGCAATTGATCCAAAA 57.249 30.769 10.34 0.00 0.00 2.44
3014 3815 8.750515 TTGATATAGACAGCAATTGATCCAAA 57.249 30.769 10.34 0.00 0.00 3.28
3015 3816 8.750515 TTTGATATAGACAGCAATTGATCCAA 57.249 30.769 10.34 0.00 0.00 3.53
3016 3817 8.750515 TTTTGATATAGACAGCAATTGATCCA 57.249 30.769 10.34 0.00 0.00 3.41
3019 3820 9.888878 CGAATTTTGATATAGACAGCAATTGAT 57.111 29.630 10.34 0.00 0.00 2.57
3020 3821 9.108284 TCGAATTTTGATATAGACAGCAATTGA 57.892 29.630 10.34 0.00 0.00 2.57
3021 3822 9.720667 TTCGAATTTTGATATAGACAGCAATTG 57.279 29.630 0.00 0.00 0.00 2.32
3046 3900 7.394641 TGGTTGCAAAAAGGAAAAGGTTTATTT 59.605 29.630 0.00 0.00 0.00 1.40
3047 3901 6.887002 TGGTTGCAAAAAGGAAAAGGTTTATT 59.113 30.769 0.00 0.00 0.00 1.40
3048 3902 6.418946 TGGTTGCAAAAAGGAAAAGGTTTAT 58.581 32.000 0.00 0.00 0.00 1.40
3050 3904 4.657013 TGGTTGCAAAAAGGAAAAGGTTT 58.343 34.783 0.00 0.00 0.00 3.27
3053 3907 4.275689 GGATTGGTTGCAAAAAGGAAAAGG 59.724 41.667 0.00 0.00 0.00 3.11
3054 3908 4.880696 TGGATTGGTTGCAAAAAGGAAAAG 59.119 37.500 0.00 0.00 0.00 2.27
3058 3912 4.494091 TTTGGATTGGTTGCAAAAAGGA 57.506 36.364 0.00 0.00 41.95 3.36
3063 3917 7.226325 CAGAGTTTATTTTGGATTGGTTGCAAA 59.774 33.333 0.00 0.00 43.03 3.68
3064 3918 6.705381 CAGAGTTTATTTTGGATTGGTTGCAA 59.295 34.615 0.00 0.00 33.34 4.08
3066 3920 6.223120 ACAGAGTTTATTTTGGATTGGTTGC 58.777 36.000 0.00 0.00 0.00 4.17
3068 3922 7.926018 GTGAACAGAGTTTATTTTGGATTGGTT 59.074 33.333 0.00 0.00 0.00 3.67
3069 3923 7.433680 GTGAACAGAGTTTATTTTGGATTGGT 58.566 34.615 0.00 0.00 0.00 3.67
3070 3924 6.868339 GGTGAACAGAGTTTATTTTGGATTGG 59.132 38.462 0.00 0.00 0.00 3.16
3071 3925 6.582295 CGGTGAACAGAGTTTATTTTGGATTG 59.418 38.462 0.00 0.00 0.00 2.67
3086 4304 1.525077 GCCAACACCGGTGAACAGA 60.525 57.895 40.21 0.00 0.00 3.41
3087 4305 2.551912 GGCCAACACCGGTGAACAG 61.552 63.158 40.21 24.36 0.00 3.16
3102 4320 2.508526 GAGATCAGAGAGAGAGAGGCC 58.491 57.143 0.00 0.00 0.00 5.19
3104 4322 2.713167 AGGGAGATCAGAGAGAGAGAGG 59.287 54.545 0.00 0.00 0.00 3.69
3109 4327 5.047566 TCTGTAAGGGAGATCAGAGAGAG 57.952 47.826 0.00 0.00 33.77 3.20
3111 4329 4.455533 CGATCTGTAAGGGAGATCAGAGAG 59.544 50.000 0.00 0.00 44.20 3.20
3113 4331 3.505680 CCGATCTGTAAGGGAGATCAGAG 59.494 52.174 0.00 0.00 44.20 3.35
3115 4333 3.491342 TCCGATCTGTAAGGGAGATCAG 58.509 50.000 0.00 0.00 44.20 2.90
3121 4339 2.108168 CCAACTCCGATCTGTAAGGGA 58.892 52.381 0.00 0.00 0.00 4.20
3122 4340 1.139058 CCCAACTCCGATCTGTAAGGG 59.861 57.143 0.00 0.00 0.00 3.95
3123 4341 1.831736 ACCCAACTCCGATCTGTAAGG 59.168 52.381 0.00 0.00 0.00 2.69
3124 4342 2.159085 GGACCCAACTCCGATCTGTAAG 60.159 54.545 0.00 0.00 0.00 2.34
3125 4343 1.829222 GGACCCAACTCCGATCTGTAA 59.171 52.381 0.00 0.00 0.00 2.41
3126 4344 1.481871 GGACCCAACTCCGATCTGTA 58.518 55.000 0.00 0.00 0.00 2.74
3128 4346 1.522569 GGGACCCAACTCCGATCTG 59.477 63.158 5.33 0.00 0.00 2.90
3141 4359 2.832201 CCGACTAGGACGGGGACC 60.832 72.222 18.58 0.00 45.87 4.46
3150 4368 2.986306 AACACCGCGTCCGACTAGG 61.986 63.158 4.92 7.39 42.97 3.02
3151 4369 1.800315 CAACACCGCGTCCGACTAG 60.800 63.158 4.92 0.00 36.29 2.57
3157 4375 4.681978 AGGAGCAACACCGCGTCC 62.682 66.667 4.92 3.03 36.85 4.79
3159 4377 4.681978 GGAGGAGCAACACCGCGT 62.682 66.667 4.92 0.00 36.85 6.01
3162 4380 3.883744 AAGCGGAGGAGCAACACCG 62.884 63.158 11.13 11.13 46.74 4.94
3163 4381 1.172812 AAAAGCGGAGGAGCAACACC 61.173 55.000 0.00 0.00 40.15 4.16
3164 4382 1.519408 TAAAAGCGGAGGAGCAACAC 58.481 50.000 0.00 0.00 40.15 3.32
3166 4384 4.691216 CCTATATAAAAGCGGAGGAGCAAC 59.309 45.833 0.00 0.00 40.15 4.17
3167 4385 4.262894 CCCTATATAAAAGCGGAGGAGCAA 60.263 45.833 0.00 0.00 40.15 3.91
3168 4386 3.260884 CCCTATATAAAAGCGGAGGAGCA 59.739 47.826 0.00 0.00 40.15 4.26
3169 4387 3.514309 TCCCTATATAAAAGCGGAGGAGC 59.486 47.826 0.00 0.00 37.41 4.70
3170 4388 5.337652 CCTTCCCTATATAAAAGCGGAGGAG 60.338 48.000 0.00 0.00 0.00 3.69
3171 4389 4.530946 CCTTCCCTATATAAAAGCGGAGGA 59.469 45.833 0.00 0.00 0.00 3.71
3172 4390 4.530946 TCCTTCCCTATATAAAAGCGGAGG 59.469 45.833 0.00 0.00 0.00 4.30
3173 4391 5.740290 TCCTTCCCTATATAAAAGCGGAG 57.260 43.478 0.00 0.00 0.00 4.63
3192 4560 1.374758 CTTGGCGCGAACTCTTCCT 60.375 57.895 12.10 0.00 0.00 3.36
3193 4561 3.028366 GCTTGGCGCGAACTCTTCC 62.028 63.158 12.10 0.00 0.00 3.46
3194 4562 1.841663 TTGCTTGGCGCGAACTCTTC 61.842 55.000 12.10 0.00 43.27 2.87
3197 4565 0.387239 AAATTGCTTGGCGCGAACTC 60.387 50.000 12.10 0.00 43.27 3.01
3209 4577 5.458779 GCAGAAACAAGAAACGTAAATTGCT 59.541 36.000 0.00 0.00 0.00 3.91
3210 4578 5.231147 TGCAGAAACAAGAAACGTAAATTGC 59.769 36.000 0.00 0.00 0.00 3.56
3211 4579 6.252441 TGTGCAGAAACAAGAAACGTAAATTG 59.748 34.615 0.00 0.00 0.00 2.32
3212 4580 6.326375 TGTGCAGAAACAAGAAACGTAAATT 58.674 32.000 0.00 0.00 0.00 1.82
3213 4581 5.885881 TGTGCAGAAACAAGAAACGTAAAT 58.114 33.333 0.00 0.00 0.00 1.40
3214 4582 5.298197 TGTGCAGAAACAAGAAACGTAAA 57.702 34.783 0.00 0.00 0.00 2.01
3316 5038 0.179097 GCGTAGAAGGGCTTGGAGAG 60.179 60.000 0.00 0.00 0.00 3.20
3317 5039 1.898154 GCGTAGAAGGGCTTGGAGA 59.102 57.895 0.00 0.00 0.00 3.71
3320 5042 1.810030 GACGCGTAGAAGGGCTTGG 60.810 63.158 13.97 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.