Multiple sequence alignment - TraesCS1B01G025200

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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 TraesCS1B01G025200 chr1B 100.000 2694 0 0 1 2694 12356871 12359564 0.000000e+00 4975.0
1 TraesCS1B01G025200 chr1B 89.203 602 54 7 1381 1976 194768995 194769591 0.000000e+00 741.0
2 TraesCS1B01G025200 chr1B 89.601 577 48 7 727 1297 12764609 12764039 0.000000e+00 723.0
3 TraesCS1B01G025200 chr1B 89.510 572 51 5 727 1295 13504846 13504281 0.000000e+00 715.0
4 TraesCS1B01G025200 chr1B 89.236 576 42 6 727 1295 13017416 13016854 0.000000e+00 702.0
5 TraesCS1B01G025200 chr1B 83.291 395 57 5 944 1331 13565207 13564815 3.300000e-94 355.0
6 TraesCS1B01G025200 chr1B 83.401 247 33 4 1091 1331 13560069 13559825 3.490000e-54 222.0
7 TraesCS1B01G025200 chr1B 98.276 58 1 0 39 96 625575003 625575060 4.750000e-18 102.0
8 TraesCS1B01G025200 chr1B 90.789 76 5 2 315 389 70308749 70308675 1.710000e-17 100.0
9 TraesCS1B01G025200 chr1A 92.252 1381 80 13 1332 2694 578213534 578214905 0.000000e+00 1932.0
10 TraesCS1B01G025200 chr1A 93.410 1214 62 10 1497 2694 578216115 578217326 0.000000e+00 1783.0
11 TraesCS1B01G025200 chr1A 85.927 739 64 17 574 1295 10716462 10715747 0.000000e+00 752.0
12 TraesCS1B01G025200 chr1A 94.737 133 7 0 202 334 10717647 10717515 9.780000e-50 207.0
13 TraesCS1B01G025200 chr7A 92.969 768 40 7 1334 2088 66932054 66932820 0.000000e+00 1107.0
14 TraesCS1B01G025200 chr7A 91.071 112 8 2 98 207 118166915 118166804 1.670000e-32 150.0
15 TraesCS1B01G025200 chr7A 90.654 107 9 1 98 203 118166818 118166924 1.010000e-29 141.0
16 TraesCS1B01G025200 chr7A 82.424 165 16 6 40 203 157012303 157012151 6.050000e-27 132.0
17 TraesCS1B01G025200 chr7A 92.500 80 4 2 311 389 68540970 68540892 2.190000e-21 113.0
18 TraesCS1B01G025200 chr7A 90.909 66 5 1 370 434 68540877 68540812 1.330000e-13 87.9
19 TraesCS1B01G025200 chr3A 92.876 772 40 8 1331 2088 723492947 723493717 0.000000e+00 1107.0
20 TraesCS1B01G025200 chr2A 92.839 768 41 7 1334 2088 684471098 684470332 0.000000e+00 1101.0
21 TraesCS1B01G025200 chr2A 92.057 768 41 8 1334 2088 767592744 767591984 0.000000e+00 1062.0
22 TraesCS1B01G025200 chr2A 93.651 189 11 1 202 389 767010346 767010534 5.680000e-72 281.0
23 TraesCS1B01G025200 chr2A 92.500 80 4 2 311 389 710764149 710764071 2.190000e-21 113.0
24 TraesCS1B01G025200 chr3D 89.607 712 63 8 1991 2694 550512654 550511946 0.000000e+00 894.0
25 TraesCS1B01G025200 chr7B 88.764 712 65 11 1991 2694 64474889 64475593 0.000000e+00 857.0
26 TraesCS1B01G025200 chr7B 87.234 94 6 3 39 132 427824479 427824566 4.750000e-18 102.0
27 TraesCS1B01G025200 chr5B 88.732 710 66 10 1991 2692 508818989 508818286 0.000000e+00 856.0
28 TraesCS1B01G025200 chr5B 89.944 179 17 1 212 389 377115689 377115867 2.090000e-56 230.0
29 TraesCS1B01G025200 chr5B 91.589 107 8 1 98 203 38357119 38357013 2.160000e-31 147.0
30 TraesCS1B01G025200 chr5B 96.203 79 1 2 313 389 377115850 377115928 7.830000e-26 128.0
31 TraesCS1B01G025200 chr6B 88.095 714 64 12 1991 2694 36824937 36824235 0.000000e+00 828.0
32 TraesCS1B01G025200 chr6B 90.741 108 4 4 98 203 691965386 691965283 3.620000e-29 139.0
33 TraesCS1B01G025200 chr6B 88.793 116 5 5 98 211 691965292 691965401 4.680000e-28 135.0
34 TraesCS1B01G025200 chr5D 88.056 720 58 13 1991 2694 239233278 239233985 0.000000e+00 828.0
35 TraesCS1B01G025200 chr5D 89.286 84 7 2 302 385 455830555 455830636 1.320000e-18 104.0
36 TraesCS1B01G025200 chr4B 87.675 714 65 13 1991 2694 665222448 665221748 0.000000e+00 809.0
37 TraesCS1B01G025200 chr4B 98.276 58 1 0 39 96 89457597 89457654 4.750000e-18 102.0
38 TraesCS1B01G025200 chr4B 91.892 74 5 1 312 384 461197242 461197315 4.750000e-18 102.0
39 TraesCS1B01G025200 chr4A 87.395 714 71 12 1991 2694 648475316 648474612 0.000000e+00 802.0
40 TraesCS1B01G025200 chr5A 89.649 599 56 5 1381 1976 32929064 32928469 0.000000e+00 758.0
41 TraesCS1B01G025200 chr2D 89.149 599 54 6 1381 1976 39467325 39467915 0.000000e+00 736.0
42 TraesCS1B01G025200 chr2D 88.272 162 14 2 47 203 366144682 366144843 3.540000e-44 189.0
43 TraesCS1B01G025200 chr2D 88.000 100 7 2 47 141 366144629 366144728 2.190000e-21 113.0
44 TraesCS1B01G025200 chr2D 95.349 43 2 0 1327 1369 10207502 10207460 4.810000e-08 69.4
45 TraesCS1B01G025200 chr1D 90.072 554 42 6 788 1340 9420830 9420289 0.000000e+00 706.0
46 TraesCS1B01G025200 chr1D 94.101 356 19 2 646 1000 9435147 9434793 8.490000e-150 540.0
47 TraesCS1B01G025200 chr1D 86.842 342 43 2 943 1282 9426032 9426373 5.440000e-102 381.0
48 TraesCS1B01G025200 chr1D 80.658 517 73 9 430 920 9425523 9426038 2.530000e-100 375.0
49 TraesCS1B01G025200 chr1D 94.931 217 11 0 1079 1295 9434779 9434563 9.240000e-90 340.0
50 TraesCS1B01G025200 chr1D 93.122 189 10 2 202 389 9436715 9436529 9.500000e-70 274.0
51 TraesCS1B01G025200 chr1D 83.117 154 25 1 1133 1286 9402120 9402272 3.620000e-29 139.0
52 TraesCS1B01G025200 chr1D 89.720 107 9 2 98 203 491052640 491052535 4.680000e-28 135.0
53 TraesCS1B01G025200 chr1D 97.778 45 1 0 599 643 9435232 9435188 8.000000e-11 78.7
54 TraesCS1B01G025200 chrUn 89.655 116 4 5 98 211 339830055 339829946 1.010000e-29 141.0
55 TraesCS1B01G025200 chrUn 81.212 165 19 8 39 203 17443304 17443456 3.640000e-24 122.0
56 TraesCS1B01G025200 chr2B 88.793 116 8 3 98 209 594692065 594691951 1.300000e-28 137.0
57 TraesCS1B01G025200 chr2B 81.818 165 9 9 40 204 184655510 184655653 4.710000e-23 119.0
58 TraesCS1B01G025200 chr7D 98.276 58 1 0 39 96 2918931 2918874 4.750000e-18 102.0
59 TraesCS1B01G025200 chr6A 89.362 47 4 1 1332 1378 506873822 506873777 1.040000e-04 58.4


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 TraesCS1B01G025200 chr1B 12356871 12359564 2693 False 4975.000 4975 100.000 1 2694 1 chr1B.!!$F1 2693
1 TraesCS1B01G025200 chr1B 194768995 194769591 596 False 741.000 741 89.203 1381 1976 1 chr1B.!!$F2 595
2 TraesCS1B01G025200 chr1B 12764039 12764609 570 True 723.000 723 89.601 727 1297 1 chr1B.!!$R1 570
3 TraesCS1B01G025200 chr1B 13504281 13504846 565 True 715.000 715 89.510 727 1295 1 chr1B.!!$R3 568
4 TraesCS1B01G025200 chr1B 13016854 13017416 562 True 702.000 702 89.236 727 1295 1 chr1B.!!$R2 568
5 TraesCS1B01G025200 chr1A 578213534 578217326 3792 False 1857.500 1932 92.831 1332 2694 2 chr1A.!!$F1 1362
6 TraesCS1B01G025200 chr1A 10715747 10717647 1900 True 479.500 752 90.332 202 1295 2 chr1A.!!$R1 1093
7 TraesCS1B01G025200 chr7A 66932054 66932820 766 False 1107.000 1107 92.969 1334 2088 1 chr7A.!!$F1 754
8 TraesCS1B01G025200 chr3A 723492947 723493717 770 False 1107.000 1107 92.876 1331 2088 1 chr3A.!!$F1 757
9 TraesCS1B01G025200 chr2A 684470332 684471098 766 True 1101.000 1101 92.839 1334 2088 1 chr2A.!!$R1 754
10 TraesCS1B01G025200 chr2A 767591984 767592744 760 True 1062.000 1062 92.057 1334 2088 1 chr2A.!!$R3 754
11 TraesCS1B01G025200 chr3D 550511946 550512654 708 True 894.000 894 89.607 1991 2694 1 chr3D.!!$R1 703
12 TraesCS1B01G025200 chr7B 64474889 64475593 704 False 857.000 857 88.764 1991 2694 1 chr7B.!!$F1 703
13 TraesCS1B01G025200 chr5B 508818286 508818989 703 True 856.000 856 88.732 1991 2692 1 chr5B.!!$R2 701
14 TraesCS1B01G025200 chr6B 36824235 36824937 702 True 828.000 828 88.095 1991 2694 1 chr6B.!!$R1 703
15 TraesCS1B01G025200 chr5D 239233278 239233985 707 False 828.000 828 88.056 1991 2694 1 chr5D.!!$F1 703
16 TraesCS1B01G025200 chr4B 665221748 665222448 700 True 809.000 809 87.675 1991 2694 1 chr4B.!!$R1 703
17 TraesCS1B01G025200 chr4A 648474612 648475316 704 True 802.000 802 87.395 1991 2694 1 chr4A.!!$R1 703
18 TraesCS1B01G025200 chr5A 32928469 32929064 595 True 758.000 758 89.649 1381 1976 1 chr5A.!!$R1 595
19 TraesCS1B01G025200 chr2D 39467325 39467915 590 False 736.000 736 89.149 1381 1976 1 chr2D.!!$F1 595
20 TraesCS1B01G025200 chr1D 9420289 9420830 541 True 706.000 706 90.072 788 1340 1 chr1D.!!$R1 552
21 TraesCS1B01G025200 chr1D 9425523 9426373 850 False 378.000 381 83.750 430 1282 2 chr1D.!!$F2 852
22 TraesCS1B01G025200 chr1D 9434563 9436715 2152 True 308.175 540 94.983 202 1295 4 chr1D.!!$R3 1093

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
49 50 1.041437 GGTCCAAGATACTCCCTCCG 58.959 60.000 0.00 0.0 0.00 4.63 F
841 2810 1.074775 AGCCCGGCTGATTTGTGAA 59.925 52.632 12.38 0.0 37.57 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1200 3210 0.039437 AGACACGCGTTGAGTCGAAT 60.039 50.0 10.22 0.0 42.3 3.34 R
2461 6913 0.398664 ATGGGTAGCGGTAGAGGCTT 60.399 55.0 0.00 0.0 41.8 4.35 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
20 21 3.065019 GTGCACGAAGTTGTTTGATGT 57.935 42.857 0.00 0.00 41.61 3.06
21 22 4.203950 GTGCACGAAGTTGTTTGATGTA 57.796 40.909 0.00 0.00 41.61 2.29
22 23 4.783242 GTGCACGAAGTTGTTTGATGTAT 58.217 39.130 0.00 0.00 41.61 2.29
23 24 5.212194 GTGCACGAAGTTGTTTGATGTATT 58.788 37.500 0.00 0.00 41.61 1.89
24 25 5.339611 GTGCACGAAGTTGTTTGATGTATTC 59.660 40.000 0.00 0.00 41.61 1.75
25 26 5.238432 TGCACGAAGTTGTTTGATGTATTCT 59.762 36.000 0.00 0.00 41.61 2.40
26 27 6.142817 GCACGAAGTTGTTTGATGTATTCTT 58.857 36.000 0.00 0.00 41.61 2.52
27 28 6.636850 GCACGAAGTTGTTTGATGTATTCTTT 59.363 34.615 0.00 0.00 41.61 2.52
28 29 7.149128 GCACGAAGTTGTTTGATGTATTCTTTC 60.149 37.037 0.00 0.00 41.61 2.62
29 30 8.070171 CACGAAGTTGTTTGATGTATTCTTTCT 58.930 33.333 0.00 0.00 41.61 2.52
30 31 8.070171 ACGAAGTTGTTTGATGTATTCTTTCTG 58.930 33.333 0.00 0.00 37.78 3.02
31 32 7.535258 CGAAGTTGTTTGATGTATTCTTTCTGG 59.465 37.037 0.00 0.00 0.00 3.86
32 33 7.823745 AGTTGTTTGATGTATTCTTTCTGGT 57.176 32.000 0.00 0.00 0.00 4.00
33 34 7.875971 AGTTGTTTGATGTATTCTTTCTGGTC 58.124 34.615 0.00 0.00 0.00 4.02
34 35 6.817765 TGTTTGATGTATTCTTTCTGGTCC 57.182 37.500 0.00 0.00 0.00 4.46
35 36 6.303054 TGTTTGATGTATTCTTTCTGGTCCA 58.697 36.000 0.00 0.00 0.00 4.02
36 37 6.775142 TGTTTGATGTATTCTTTCTGGTCCAA 59.225 34.615 0.00 0.00 0.00 3.53
37 38 7.040478 TGTTTGATGTATTCTTTCTGGTCCAAG 60.040 37.037 0.00 0.00 0.00 3.61
38 39 6.373005 TGATGTATTCTTTCTGGTCCAAGA 57.627 37.500 0.00 0.00 0.00 3.02
39 40 6.962182 TGATGTATTCTTTCTGGTCCAAGAT 58.038 36.000 0.00 0.00 0.00 2.40
40 41 8.089625 TGATGTATTCTTTCTGGTCCAAGATA 57.910 34.615 0.00 0.00 0.00 1.98
41 42 7.987458 TGATGTATTCTTTCTGGTCCAAGATAC 59.013 37.037 0.00 0.27 0.00 2.24
42 43 7.496346 TGTATTCTTTCTGGTCCAAGATACT 57.504 36.000 0.00 0.00 0.00 2.12
43 44 7.556844 TGTATTCTTTCTGGTCCAAGATACTC 58.443 38.462 0.00 0.00 0.00 2.59
44 45 5.422214 TTCTTTCTGGTCCAAGATACTCC 57.578 43.478 0.00 0.00 0.00 3.85
45 46 3.775316 TCTTTCTGGTCCAAGATACTCCC 59.225 47.826 0.00 0.00 0.00 4.30
46 47 3.491766 TTCTGGTCCAAGATACTCCCT 57.508 47.619 0.00 0.00 0.00 4.20
47 48 3.033659 TCTGGTCCAAGATACTCCCTC 57.966 52.381 0.00 0.00 0.00 4.30
48 49 2.043227 CTGGTCCAAGATACTCCCTCC 58.957 57.143 0.00 0.00 0.00 4.30
49 50 1.041437 GGTCCAAGATACTCCCTCCG 58.959 60.000 0.00 0.00 0.00 4.63
50 51 1.688627 GGTCCAAGATACTCCCTCCGT 60.689 57.143 0.00 0.00 0.00 4.69
51 52 2.108970 GTCCAAGATACTCCCTCCGTT 58.891 52.381 0.00 0.00 0.00 4.44
52 53 2.101082 GTCCAAGATACTCCCTCCGTTC 59.899 54.545 0.00 0.00 0.00 3.95
53 54 2.108168 CCAAGATACTCCCTCCGTTCA 58.892 52.381 0.00 0.00 0.00 3.18
54 55 2.500098 CCAAGATACTCCCTCCGTTCAA 59.500 50.000 0.00 0.00 0.00 2.69
55 56 3.055385 CCAAGATACTCCCTCCGTTCAAA 60.055 47.826 0.00 0.00 0.00 2.69
56 57 4.564821 CCAAGATACTCCCTCCGTTCAAAA 60.565 45.833 0.00 0.00 0.00 2.44
57 58 4.903045 AGATACTCCCTCCGTTCAAAAA 57.097 40.909 0.00 0.00 0.00 1.94
58 59 5.437191 AGATACTCCCTCCGTTCAAAAAT 57.563 39.130 0.00 0.00 0.00 1.82
59 60 6.555463 AGATACTCCCTCCGTTCAAAAATA 57.445 37.500 0.00 0.00 0.00 1.40
60 61 6.346896 AGATACTCCCTCCGTTCAAAAATAC 58.653 40.000 0.00 0.00 0.00 1.89
61 62 4.635699 ACTCCCTCCGTTCAAAAATACT 57.364 40.909 0.00 0.00 0.00 2.12
62 63 4.981812 ACTCCCTCCGTTCAAAAATACTT 58.018 39.130 0.00 0.00 0.00 2.24
63 64 4.760204 ACTCCCTCCGTTCAAAAATACTTG 59.240 41.667 0.00 0.00 0.00 3.16
64 65 4.721132 TCCCTCCGTTCAAAAATACTTGT 58.279 39.130 0.00 0.00 0.00 3.16
65 66 4.758165 TCCCTCCGTTCAAAAATACTTGTC 59.242 41.667 0.00 0.00 0.00 3.18
66 67 4.517453 CCCTCCGTTCAAAAATACTTGTCA 59.483 41.667 0.00 0.00 0.00 3.58
67 68 5.183140 CCCTCCGTTCAAAAATACTTGTCAT 59.817 40.000 0.00 0.00 0.00 3.06
68 69 6.314784 CCTCCGTTCAAAAATACTTGTCATC 58.685 40.000 0.00 0.00 0.00 2.92
69 70 6.072728 CCTCCGTTCAAAAATACTTGTCATCA 60.073 38.462 0.00 0.00 0.00 3.07
70 71 7.265647 TCCGTTCAAAAATACTTGTCATCAA 57.734 32.000 0.00 0.00 0.00 2.57
71 72 7.708051 TCCGTTCAAAAATACTTGTCATCAAA 58.292 30.769 0.00 0.00 32.87 2.69
72 73 8.191446 TCCGTTCAAAAATACTTGTCATCAAAA 58.809 29.630 0.00 0.00 32.87 2.44
73 74 8.977505 CCGTTCAAAAATACTTGTCATCAAAAT 58.022 29.630 0.00 0.00 32.87 1.82
74 75 9.782028 CGTTCAAAAATACTTGTCATCAAAATG 57.218 29.630 0.00 0.00 32.87 2.32
101 102 9.968870 AATAAAAAGAGATGTATCTAGTCGTCC 57.031 33.333 0.00 0.00 37.25 4.79
102 103 7.406031 AAAAAGAGATGTATCTAGTCGTCCA 57.594 36.000 0.00 0.00 37.25 4.02
103 104 7.406031 AAAAGAGATGTATCTAGTCGTCCAA 57.594 36.000 0.00 0.00 37.25 3.53
104 105 7.406031 AAAGAGATGTATCTAGTCGTCCAAA 57.594 36.000 0.00 0.00 37.25 3.28
105 106 7.406031 AAGAGATGTATCTAGTCGTCCAAAA 57.594 36.000 0.00 0.00 37.25 2.44
106 107 7.406031 AGAGATGTATCTAGTCGTCCAAAAA 57.594 36.000 0.00 0.00 37.25 1.94
107 108 8.012957 AGAGATGTATCTAGTCGTCCAAAAAT 57.987 34.615 0.00 0.00 37.25 1.82
108 109 9.132923 AGAGATGTATCTAGTCGTCCAAAAATA 57.867 33.333 0.00 0.00 37.25 1.40
109 110 9.182933 GAGATGTATCTAGTCGTCCAAAAATAC 57.817 37.037 0.00 0.00 37.25 1.89
110 111 8.915036 AGATGTATCTAGTCGTCCAAAAATACT 58.085 33.333 0.00 0.00 34.85 2.12
111 112 9.530633 GATGTATCTAGTCGTCCAAAAATACTT 57.469 33.333 0.00 0.00 0.00 2.24
112 113 8.697846 TGTATCTAGTCGTCCAAAAATACTTG 57.302 34.615 0.00 0.00 0.00 3.16
113 114 8.308931 TGTATCTAGTCGTCCAAAAATACTTGT 58.691 33.333 0.00 0.00 0.00 3.16
114 115 7.829378 ATCTAGTCGTCCAAAAATACTTGTC 57.171 36.000 0.00 0.00 0.00 3.18
115 116 6.751157 TCTAGTCGTCCAAAAATACTTGTCA 58.249 36.000 0.00 0.00 0.00 3.58
116 117 7.383687 TCTAGTCGTCCAAAAATACTTGTCAT 58.616 34.615 0.00 0.00 0.00 3.06
117 118 6.481954 AGTCGTCCAAAAATACTTGTCATC 57.518 37.500 0.00 0.00 0.00 2.92
118 119 5.995282 AGTCGTCCAAAAATACTTGTCATCA 59.005 36.000 0.00 0.00 0.00 3.07
119 120 6.485313 AGTCGTCCAAAAATACTTGTCATCAA 59.515 34.615 0.00 0.00 0.00 2.57
120 121 7.012894 AGTCGTCCAAAAATACTTGTCATCAAA 59.987 33.333 0.00 0.00 32.87 2.69
121 122 7.646130 GTCGTCCAAAAATACTTGTCATCAAAA 59.354 33.333 0.00 0.00 32.87 2.44
122 123 8.356657 TCGTCCAAAAATACTTGTCATCAAAAT 58.643 29.630 0.00 0.00 32.87 1.82
123 124 8.427012 CGTCCAAAAATACTTGTCATCAAAATG 58.573 33.333 0.00 0.00 32.87 2.32
124 125 9.474920 GTCCAAAAATACTTGTCATCAAAATGA 57.525 29.630 0.00 0.00 39.63 2.57
159 160 7.908827 TGTATCGAGAACTAGATACATCTCC 57.091 40.000 23.44 7.10 46.09 3.71
160 161 7.681679 TGTATCGAGAACTAGATACATCTCCT 58.318 38.462 23.44 0.00 46.09 3.69
161 162 8.158132 TGTATCGAGAACTAGATACATCTCCTT 58.842 37.037 23.44 0.00 46.09 3.36
162 163 7.681939 ATCGAGAACTAGATACATCTCCTTC 57.318 40.000 0.00 0.00 38.32 3.46
163 164 6.833041 TCGAGAACTAGATACATCTCCTTCT 58.167 40.000 0.00 9.51 38.32 2.85
164 165 7.964624 TCGAGAACTAGATACATCTCCTTCTA 58.035 38.462 0.00 0.00 38.32 2.10
165 166 8.598916 TCGAGAACTAGATACATCTCCTTCTAT 58.401 37.037 0.00 0.00 38.32 1.98
166 167 8.879759 CGAGAACTAGATACATCTCCTTCTATC 58.120 40.741 0.00 0.00 38.32 2.08
167 168 9.174166 GAGAACTAGATACATCTCCTTCTATCC 57.826 40.741 0.00 0.00 38.32 2.59
168 169 8.674173 AGAACTAGATACATCTCCTTCTATCCA 58.326 37.037 0.00 0.00 38.32 3.41
169 170 9.474313 GAACTAGATACATCTCCTTCTATCCAT 57.526 37.037 0.00 0.00 38.32 3.41
170 171 9.836179 AACTAGATACATCTCCTTCTATCCATT 57.164 33.333 0.00 0.00 38.32 3.16
171 172 9.836179 ACTAGATACATCTCCTTCTATCCATTT 57.164 33.333 0.00 0.00 38.32 2.32
174 175 9.163894 AGATACATCTCCTTCTATCCATTTTGA 57.836 33.333 0.00 0.00 29.30 2.69
175 176 9.956640 GATACATCTCCTTCTATCCATTTTGAT 57.043 33.333 0.00 0.00 0.00 2.57
176 177 9.736414 ATACATCTCCTTCTATCCATTTTGATG 57.264 33.333 0.00 0.00 35.23 3.07
177 178 7.809238 ACATCTCCTTCTATCCATTTTGATGA 58.191 34.615 0.00 0.00 33.85 2.92
178 179 7.718753 ACATCTCCTTCTATCCATTTTGATGAC 59.281 37.037 0.00 0.00 33.85 3.06
179 180 7.199167 TCTCCTTCTATCCATTTTGATGACA 57.801 36.000 0.00 0.00 0.00 3.58
180 181 7.632861 TCTCCTTCTATCCATTTTGATGACAA 58.367 34.615 0.00 0.00 0.00 3.18
181 182 7.772292 TCTCCTTCTATCCATTTTGATGACAAG 59.228 37.037 0.00 0.00 37.32 3.16
182 183 7.405292 TCCTTCTATCCATTTTGATGACAAGT 58.595 34.615 0.00 0.00 37.32 3.16
183 184 8.548025 TCCTTCTATCCATTTTGATGACAAGTA 58.452 33.333 0.00 0.00 37.32 2.24
184 185 9.347240 CCTTCTATCCATTTTGATGACAAGTAT 57.653 33.333 0.00 0.00 37.32 2.12
189 190 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
190 191 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
191 192 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
192 193 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
193 194 6.869315 TTTGATGACAAGTATTTTCGGACA 57.131 33.333 0.00 0.00 37.32 4.02
194 195 6.480524 TTGATGACAAGTATTTTCGGACAG 57.519 37.500 0.00 0.00 0.00 3.51
195 196 5.789521 TGATGACAAGTATTTTCGGACAGA 58.210 37.500 0.00 0.00 0.00 3.41
196 197 5.869344 TGATGACAAGTATTTTCGGACAGAG 59.131 40.000 0.00 0.00 0.00 3.35
197 198 4.566004 TGACAAGTATTTTCGGACAGAGG 58.434 43.478 0.00 0.00 0.00 3.69
198 199 3.933332 GACAAGTATTTTCGGACAGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
199 200 3.581332 ACAAGTATTTTCGGACAGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
200 201 4.184629 CAAGTATTTTCGGACAGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
221 222 7.180051 AGGGAGTATTATAGATGCTTCCTTCAG 59.820 40.741 0.00 0.00 36.49 3.02
280 281 5.618236 CATGGACATGTCATGGATACTTCT 58.382 41.667 26.47 0.00 38.55 2.85
282 283 3.812053 GGACATGTCATGGATACTTCTGC 59.188 47.826 26.47 0.90 37.61 4.26
354 355 4.895668 AGTCGGTGTTCCAAATACCTAA 57.104 40.909 4.44 0.00 40.20 2.69
355 356 5.231702 AGTCGGTGTTCCAAATACCTAAA 57.768 39.130 4.44 0.00 40.20 1.85
366 367 7.461182 TCCAAATACCTAAACATCCAAACAG 57.539 36.000 0.00 0.00 0.00 3.16
411 447 3.830192 GCCAAGGCTCCCAATGCG 61.830 66.667 3.29 0.00 38.26 4.73
447 483 2.931969 GCGTAAGGGTATTGTACACCAC 59.068 50.000 0.00 0.00 37.84 4.16
472 508 2.289565 CGGAAAAGGGCAGAATAGGAC 58.710 52.381 0.00 0.00 0.00 3.85
473 509 2.355716 CGGAAAAGGGCAGAATAGGACA 60.356 50.000 0.00 0.00 0.00 4.02
479 515 4.870021 AGGGCAGAATAGGACAGAAAAT 57.130 40.909 0.00 0.00 0.00 1.82
482 518 4.098501 GGGCAGAATAGGACAGAAAATTGG 59.901 45.833 0.00 0.00 0.00 3.16
512 969 9.720769 GGTGCAGGCTTTCTATTATACTATTAA 57.279 33.333 0.00 0.00 0.00 1.40
539 996 9.396022 CTAATAAAGAAATGGGAAGAGCACTTA 57.604 33.333 0.00 0.00 36.39 2.24
544 1001 5.649831 AGAAATGGGAAGAGCACTTACATTC 59.350 40.000 19.25 14.36 40.01 2.67
603 1478 2.470821 GCTGTATGGTGTACGGCTTAG 58.529 52.381 10.84 0.00 44.19 2.18
664 2630 5.660864 ACTTGGAGAAGGAAAACAATCCAAA 59.339 36.000 6.00 0.00 44.00 3.28
670 2636 5.764686 AGAAGGAAAACAATCCAAATTTGCC 59.235 36.000 12.92 5.25 42.27 4.52
673 2639 4.766373 GGAAAACAATCCAAATTTGCCCAT 59.234 37.500 12.92 1.56 39.42 4.00
682 2648 3.934579 CCAAATTTGCCCATTAGCTGAAC 59.065 43.478 12.92 0.00 0.00 3.18
683 2649 4.563168 CCAAATTTGCCCATTAGCTGAACA 60.563 41.667 12.92 0.00 0.00 3.18
693 2659 4.398988 CCATTAGCTGAACATGCCAACTTA 59.601 41.667 0.00 0.00 0.00 2.24
696 2662 2.679837 AGCTGAACATGCCAACTTATCG 59.320 45.455 0.00 0.00 0.00 2.92
841 2810 1.074775 AGCCCGGCTGATTTGTGAA 59.925 52.632 12.38 0.00 37.57 3.18
878 2847 4.267214 CAGAAGTGCAGTGATAACATCGAG 59.733 45.833 0.00 0.00 0.00 4.04
1002 3010 3.491619 GCGATATCAGAGACCTTTGCAGA 60.492 47.826 3.12 0.00 0.00 4.26
1020 3030 2.280797 CACACCACACCCACGAGG 60.281 66.667 0.00 0.00 43.78 4.63
1209 3219 3.833645 CCGCCGGGATTCGACTCA 61.834 66.667 2.18 0.00 42.43 3.41
1263 3273 3.289834 CTTGGCCGTGTTGCAGCT 61.290 61.111 1.17 0.00 0.00 4.24
1266 3276 3.595758 GGCCGTGTTGCAGCTGTT 61.596 61.111 16.64 0.00 0.00 3.16
1269 3279 2.186160 CCGTGTTGCAGCTGTTCCA 61.186 57.895 16.64 6.41 0.00 3.53
1299 3309 7.907214 TGGCTAGCTTAGAGTTTCTTTTAAG 57.093 36.000 15.72 0.00 0.00 1.85
1302 3312 7.064847 GGCTAGCTTAGAGTTTCTTTTAAGGAC 59.935 40.741 15.72 0.00 0.00 3.85
1308 3318 4.922103 AGAGTTTCTTTTAAGGACGCTACG 59.078 41.667 0.00 0.00 0.00 3.51
1310 3320 5.772521 AGTTTCTTTTAAGGACGCTACGTA 58.227 37.500 0.00 0.00 41.37 3.57
1354 3364 1.017177 GTAGAATGCCCGTGCGTTGA 61.017 55.000 0.86 0.00 46.55 3.18
1436 3446 1.039856 AACAAAATTGACGCAGGCCT 58.960 45.000 0.00 0.00 0.00 5.19
1461 3471 6.443934 TGTCGAAGGATTCTTTTTGAACAA 57.556 33.333 0.00 0.00 44.75 2.83
1471 3481 8.813282 GGATTCTTTTTGAACAACAACGTAATT 58.187 29.630 0.00 0.00 38.29 1.40
1830 6268 4.368315 TGATGGCGTATTGTACATCTGAC 58.632 43.478 0.00 0.00 40.18 3.51
1941 6382 9.186323 CATTTCAATGGTTTAACACGAATTGTA 57.814 29.630 0.00 0.00 34.19 2.41
1946 6387 9.352784 CAATGGTTTAACACGAATTGTATCAAT 57.647 29.630 0.00 0.00 37.51 2.57
1980 6421 2.232399 TGCATCTGACTTGCAACACAT 58.768 42.857 3.58 0.00 46.48 3.21
2125 6569 5.163364 ACAAGTGGACCTGAAGCTATGATAG 60.163 44.000 0.00 0.00 0.00 2.08
2136 6580 8.133627 CCTGAAGCTATGATAGGAACAAAATTG 58.866 37.037 1.11 0.00 0.00 2.32
2227 6671 4.679654 CAGTGCTCGGAAAAACAAATTACC 59.320 41.667 0.00 0.00 0.00 2.85
2331 6779 8.977505 CATAAAATCCTCACGTTTTCAAAACAT 58.022 29.630 13.42 0.00 0.00 2.71
2341 6789 7.436376 TCACGTTTTCAAAACATTATCATGCAA 59.564 29.630 13.42 0.00 33.05 4.08
2454 6906 3.257393 GGTCAGATACGCATCATCATCC 58.743 50.000 0.00 0.00 33.21 3.51
2461 6913 3.558931 ACGCATCATCATCCCAGTTTA 57.441 42.857 0.00 0.00 0.00 2.01
2523 6976 5.513495 CCTCTCGTCTTTCTTATTTCACTCG 59.487 44.000 0.00 0.00 0.00 4.18
2647 7100 0.455633 GCTTGGCAAGTTCTCATGCG 60.456 55.000 26.71 0.29 43.47 4.73
2659 7112 3.827008 TCTCATGCGCTTTCTAATCCT 57.173 42.857 9.73 0.00 0.00 3.24
2660 7113 4.142609 TCTCATGCGCTTTCTAATCCTT 57.857 40.909 9.73 0.00 0.00 3.36
2662 7115 3.609853 TCATGCGCTTTCTAATCCTTGT 58.390 40.909 9.73 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.065019 ACATCAAACAACTTCGTGCAC 57.935 42.857 6.82 6.82 0.00 4.57
1 2 5.238432 AGAATACATCAAACAACTTCGTGCA 59.762 36.000 0.00 0.00 0.00 4.57
2 3 5.689819 AGAATACATCAAACAACTTCGTGC 58.310 37.500 0.00 0.00 0.00 5.34
3 4 8.070171 AGAAAGAATACATCAAACAACTTCGTG 58.930 33.333 0.00 0.00 0.00 4.35
4 5 8.070171 CAGAAAGAATACATCAAACAACTTCGT 58.930 33.333 0.00 0.00 0.00 3.85
5 6 7.535258 CCAGAAAGAATACATCAAACAACTTCG 59.465 37.037 0.00 0.00 0.00 3.79
6 7 8.352942 ACCAGAAAGAATACATCAAACAACTTC 58.647 33.333 0.00 0.00 0.00 3.01
7 8 8.237811 ACCAGAAAGAATACATCAAACAACTT 57.762 30.769 0.00 0.00 0.00 2.66
8 9 7.040409 GGACCAGAAAGAATACATCAAACAACT 60.040 37.037 0.00 0.00 0.00 3.16
9 10 7.084486 GGACCAGAAAGAATACATCAAACAAC 58.916 38.462 0.00 0.00 0.00 3.32
10 11 6.775142 TGGACCAGAAAGAATACATCAAACAA 59.225 34.615 0.00 0.00 0.00 2.83
11 12 6.303054 TGGACCAGAAAGAATACATCAAACA 58.697 36.000 0.00 0.00 0.00 2.83
12 13 6.817765 TGGACCAGAAAGAATACATCAAAC 57.182 37.500 0.00 0.00 0.00 2.93
13 14 7.230747 TCTTGGACCAGAAAGAATACATCAAA 58.769 34.615 0.00 0.00 29.59 2.69
14 15 6.778821 TCTTGGACCAGAAAGAATACATCAA 58.221 36.000 0.00 0.00 29.59 2.57
15 16 6.373005 TCTTGGACCAGAAAGAATACATCA 57.627 37.500 0.00 0.00 29.59 3.07
16 17 8.207545 AGTATCTTGGACCAGAAAGAATACATC 58.792 37.037 0.00 0.00 36.09 3.06
17 18 8.095452 AGTATCTTGGACCAGAAAGAATACAT 57.905 34.615 0.00 0.00 36.09 2.29
18 19 7.364762 GGAGTATCTTGGACCAGAAAGAATACA 60.365 40.741 0.00 0.00 36.09 2.29
19 20 6.987404 GGAGTATCTTGGACCAGAAAGAATAC 59.013 42.308 0.00 3.47 36.09 1.89
20 21 6.099845 GGGAGTATCTTGGACCAGAAAGAATA 59.900 42.308 0.00 0.00 36.09 1.75
21 22 5.104318 GGGAGTATCTTGGACCAGAAAGAAT 60.104 44.000 0.00 0.00 36.09 2.40
22 23 4.225267 GGGAGTATCTTGGACCAGAAAGAA 59.775 45.833 0.00 0.00 36.09 2.52
23 24 3.775316 GGGAGTATCTTGGACCAGAAAGA 59.225 47.826 0.00 0.00 36.87 2.52
24 25 3.777522 AGGGAGTATCTTGGACCAGAAAG 59.222 47.826 0.00 0.00 33.73 2.62
25 26 3.775316 GAGGGAGTATCTTGGACCAGAAA 59.225 47.826 0.00 0.00 33.73 2.52
26 27 3.375699 GAGGGAGTATCTTGGACCAGAA 58.624 50.000 0.00 0.00 33.73 3.02
27 28 2.359355 GGAGGGAGTATCTTGGACCAGA 60.359 54.545 0.00 0.00 33.73 3.86
28 29 2.043227 GGAGGGAGTATCTTGGACCAG 58.957 57.143 0.00 0.00 33.73 4.00
29 30 1.688311 CGGAGGGAGTATCTTGGACCA 60.688 57.143 0.00 0.00 33.73 4.02
30 31 1.041437 CGGAGGGAGTATCTTGGACC 58.959 60.000 0.00 0.00 33.73 4.46
31 32 1.777941 ACGGAGGGAGTATCTTGGAC 58.222 55.000 0.00 0.00 33.73 4.02
32 33 2.291996 TGAACGGAGGGAGTATCTTGGA 60.292 50.000 0.00 0.00 33.73 3.53
33 34 2.108168 TGAACGGAGGGAGTATCTTGG 58.892 52.381 0.00 0.00 33.73 3.61
34 35 3.887621 TTGAACGGAGGGAGTATCTTG 57.112 47.619 0.00 0.00 33.73 3.02
35 36 4.903045 TTTTGAACGGAGGGAGTATCTT 57.097 40.909 0.00 0.00 33.73 2.40
36 37 4.903045 TTTTTGAACGGAGGGAGTATCT 57.097 40.909 0.00 0.00 33.73 1.98
37 38 6.346896 AGTATTTTTGAACGGAGGGAGTATC 58.653 40.000 0.00 0.00 0.00 2.24
38 39 6.309389 AGTATTTTTGAACGGAGGGAGTAT 57.691 37.500 0.00 0.00 0.00 2.12
39 40 5.750352 AGTATTTTTGAACGGAGGGAGTA 57.250 39.130 0.00 0.00 0.00 2.59
40 41 4.635699 AGTATTTTTGAACGGAGGGAGT 57.364 40.909 0.00 0.00 0.00 3.85
41 42 4.760204 ACAAGTATTTTTGAACGGAGGGAG 59.240 41.667 0.00 0.00 0.00 4.30
42 43 4.721132 ACAAGTATTTTTGAACGGAGGGA 58.279 39.130 0.00 0.00 0.00 4.20
43 44 4.517453 TGACAAGTATTTTTGAACGGAGGG 59.483 41.667 0.00 0.00 0.00 4.30
44 45 5.682943 TGACAAGTATTTTTGAACGGAGG 57.317 39.130 0.00 0.00 0.00 4.30
45 46 6.898041 TGATGACAAGTATTTTTGAACGGAG 58.102 36.000 0.00 0.00 0.00 4.63
46 47 6.869315 TGATGACAAGTATTTTTGAACGGA 57.131 33.333 0.00 0.00 0.00 4.69
47 48 7.922505 TTTGATGACAAGTATTTTTGAACGG 57.077 32.000 0.00 0.00 37.32 4.44
48 49 9.782028 CATTTTGATGACAAGTATTTTTGAACG 57.218 29.630 0.00 0.00 37.32 3.95
75 76 9.968870 GGACGACTAGATACATCTCTTTTTATT 57.031 33.333 0.00 0.00 38.32 1.40
76 77 9.132923 TGGACGACTAGATACATCTCTTTTTAT 57.867 33.333 0.00 0.00 38.32 1.40
77 78 8.515695 TGGACGACTAGATACATCTCTTTTTA 57.484 34.615 0.00 0.00 38.32 1.52
78 79 7.406031 TGGACGACTAGATACATCTCTTTTT 57.594 36.000 0.00 0.00 38.32 1.94
79 80 7.406031 TTGGACGACTAGATACATCTCTTTT 57.594 36.000 0.00 0.00 38.32 2.27
80 81 7.406031 TTTGGACGACTAGATACATCTCTTT 57.594 36.000 0.00 0.00 38.32 2.52
81 82 7.406031 TTTTGGACGACTAGATACATCTCTT 57.594 36.000 0.00 0.00 38.32 2.85
82 83 7.406031 TTTTTGGACGACTAGATACATCTCT 57.594 36.000 0.00 0.00 38.32 3.10
83 84 9.182933 GTATTTTTGGACGACTAGATACATCTC 57.817 37.037 0.00 0.00 38.32 2.75
84 85 8.915036 AGTATTTTTGGACGACTAGATACATCT 58.085 33.333 0.00 0.00 40.86 2.90
85 86 9.530633 AAGTATTTTTGGACGACTAGATACATC 57.469 33.333 0.00 0.00 0.00 3.06
86 87 9.314321 CAAGTATTTTTGGACGACTAGATACAT 57.686 33.333 0.00 0.00 0.00 2.29
87 88 8.308931 ACAAGTATTTTTGGACGACTAGATACA 58.691 33.333 0.00 0.00 32.32 2.29
88 89 8.699283 ACAAGTATTTTTGGACGACTAGATAC 57.301 34.615 0.00 0.00 32.32 2.24
89 90 8.525316 TGACAAGTATTTTTGGACGACTAGATA 58.475 33.333 0.00 0.00 32.32 1.98
90 91 7.383687 TGACAAGTATTTTTGGACGACTAGAT 58.616 34.615 0.00 0.00 32.32 1.98
91 92 6.751157 TGACAAGTATTTTTGGACGACTAGA 58.249 36.000 0.00 0.00 32.32 2.43
92 93 7.330946 TGATGACAAGTATTTTTGGACGACTAG 59.669 37.037 0.00 0.00 32.32 2.57
93 94 7.156000 TGATGACAAGTATTTTTGGACGACTA 58.844 34.615 0.00 0.00 32.32 2.59
94 95 5.995282 TGATGACAAGTATTTTTGGACGACT 59.005 36.000 0.00 0.00 32.32 4.18
95 96 6.236017 TGATGACAAGTATTTTTGGACGAC 57.764 37.500 0.00 0.00 32.32 4.34
96 97 6.869315 TTGATGACAAGTATTTTTGGACGA 57.131 33.333 0.00 0.00 32.32 4.20
97 98 7.922505 TTTTGATGACAAGTATTTTTGGACG 57.077 32.000 0.00 0.00 37.32 4.79
98 99 9.474920 TCATTTTGATGACAAGTATTTTTGGAC 57.525 29.630 0.00 0.00 37.32 4.02
128 129 9.562408 TGTATCTAGTTCTCGATACATCTCTTT 57.438 33.333 17.33 0.00 44.05 2.52
136 137 8.556213 AAGGAGATGTATCTAGTTCTCGATAC 57.444 38.462 13.83 13.83 41.33 2.24
137 138 8.598916 AGAAGGAGATGTATCTAGTTCTCGATA 58.401 37.037 10.34 0.00 35.63 2.92
138 139 7.458397 AGAAGGAGATGTATCTAGTTCTCGAT 58.542 38.462 10.34 0.00 35.63 3.59
139 140 6.833041 AGAAGGAGATGTATCTAGTTCTCGA 58.167 40.000 10.34 0.00 35.63 4.04
140 141 8.786826 ATAGAAGGAGATGTATCTAGTTCTCG 57.213 38.462 15.95 0.00 38.73 4.04
141 142 9.174166 GGATAGAAGGAGATGTATCTAGTTCTC 57.826 40.741 15.95 8.01 38.73 2.87
142 143 8.674173 TGGATAGAAGGAGATGTATCTAGTTCT 58.326 37.037 16.41 16.41 39.97 3.01
143 144 8.871629 TGGATAGAAGGAGATGTATCTAGTTC 57.128 38.462 0.00 1.84 37.25 3.01
144 145 9.836179 AATGGATAGAAGGAGATGTATCTAGTT 57.164 33.333 0.00 0.00 37.25 2.24
145 146 9.836179 AAATGGATAGAAGGAGATGTATCTAGT 57.164 33.333 0.00 0.00 37.25 2.57
148 149 9.163894 TCAAAATGGATAGAAGGAGATGTATCT 57.836 33.333 0.00 0.00 40.50 1.98
149 150 9.956640 ATCAAAATGGATAGAAGGAGATGTATC 57.043 33.333 0.00 0.00 0.00 2.24
150 151 9.736414 CATCAAAATGGATAGAAGGAGATGTAT 57.264 33.333 0.00 0.00 0.00 2.29
151 152 8.937835 TCATCAAAATGGATAGAAGGAGATGTA 58.062 33.333 0.00 0.00 33.42 2.29
152 153 7.718753 GTCATCAAAATGGATAGAAGGAGATGT 59.281 37.037 0.00 0.00 33.42 3.06
153 154 7.718314 TGTCATCAAAATGGATAGAAGGAGATG 59.282 37.037 0.00 0.00 33.42 2.90
154 155 7.809238 TGTCATCAAAATGGATAGAAGGAGAT 58.191 34.615 0.00 0.00 33.42 2.75
155 156 7.199167 TGTCATCAAAATGGATAGAAGGAGA 57.801 36.000 0.00 0.00 33.42 3.71
156 157 7.555554 ACTTGTCATCAAAATGGATAGAAGGAG 59.444 37.037 0.00 0.00 33.42 3.69
157 158 7.405292 ACTTGTCATCAAAATGGATAGAAGGA 58.595 34.615 0.00 0.00 33.42 3.36
158 159 7.636150 ACTTGTCATCAAAATGGATAGAAGG 57.364 36.000 0.00 0.00 33.42 3.46
164 165 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
165 166 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
166 167 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
167 168 7.807433 TGTCCGAAAATACTTGTCATCAAAATG 59.193 33.333 0.00 0.00 32.87 2.32
168 169 7.881142 TGTCCGAAAATACTTGTCATCAAAAT 58.119 30.769 0.00 0.00 32.87 1.82
169 170 7.227711 TCTGTCCGAAAATACTTGTCATCAAAA 59.772 33.333 0.00 0.00 32.87 2.44
170 171 6.708502 TCTGTCCGAAAATACTTGTCATCAAA 59.291 34.615 0.00 0.00 32.87 2.69
171 172 6.227522 TCTGTCCGAAAATACTTGTCATCAA 58.772 36.000 0.00 0.00 0.00 2.57
172 173 5.789521 TCTGTCCGAAAATACTTGTCATCA 58.210 37.500 0.00 0.00 0.00 3.07
173 174 5.292101 CCTCTGTCCGAAAATACTTGTCATC 59.708 44.000 0.00 0.00 0.00 2.92
174 175 5.178797 CCTCTGTCCGAAAATACTTGTCAT 58.821 41.667 0.00 0.00 0.00 3.06
175 176 4.562757 CCCTCTGTCCGAAAATACTTGTCA 60.563 45.833 0.00 0.00 0.00 3.58
176 177 3.933332 CCCTCTGTCCGAAAATACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
177 178 3.581332 TCCCTCTGTCCGAAAATACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
178 179 4.184629 CTCCCTCTGTCCGAAAATACTTG 58.815 47.826 0.00 0.00 0.00 3.16
179 180 3.838903 ACTCCCTCTGTCCGAAAATACTT 59.161 43.478 0.00 0.00 0.00 2.24
180 181 3.442076 ACTCCCTCTGTCCGAAAATACT 58.558 45.455 0.00 0.00 0.00 2.12
181 182 3.889520 ACTCCCTCTGTCCGAAAATAC 57.110 47.619 0.00 0.00 0.00 1.89
182 183 7.850935 ATAATACTCCCTCTGTCCGAAAATA 57.149 36.000 0.00 0.00 0.00 1.40
183 184 6.749036 ATAATACTCCCTCTGTCCGAAAAT 57.251 37.500 0.00 0.00 0.00 1.82
184 185 7.064866 TCTATAATACTCCCTCTGTCCGAAAA 58.935 38.462 0.00 0.00 0.00 2.29
185 186 6.607970 TCTATAATACTCCCTCTGTCCGAAA 58.392 40.000 0.00 0.00 0.00 3.46
186 187 6.196918 TCTATAATACTCCCTCTGTCCGAA 57.803 41.667 0.00 0.00 0.00 4.30
187 188 5.837770 TCTATAATACTCCCTCTGTCCGA 57.162 43.478 0.00 0.00 0.00 4.55
188 189 5.163602 GCATCTATAATACTCCCTCTGTCCG 60.164 48.000 0.00 0.00 0.00 4.79
189 190 5.955355 AGCATCTATAATACTCCCTCTGTCC 59.045 44.000 0.00 0.00 0.00 4.02
190 191 7.363443 GGAAGCATCTATAATACTCCCTCTGTC 60.363 44.444 0.00 0.00 0.00 3.51
191 192 6.439058 GGAAGCATCTATAATACTCCCTCTGT 59.561 42.308 0.00 0.00 0.00 3.41
192 193 6.667414 AGGAAGCATCTATAATACTCCCTCTG 59.333 42.308 0.00 0.00 0.00 3.35
193 194 6.810500 AGGAAGCATCTATAATACTCCCTCT 58.189 40.000 0.00 0.00 0.00 3.69
194 195 7.179338 TGAAGGAAGCATCTATAATACTCCCTC 59.821 40.741 0.00 0.00 0.00 4.30
195 196 7.019388 TGAAGGAAGCATCTATAATACTCCCT 58.981 38.462 0.00 0.00 0.00 4.20
196 197 7.246171 TGAAGGAAGCATCTATAATACTCCC 57.754 40.000 0.00 0.00 0.00 4.30
197 198 7.327214 CCTGAAGGAAGCATCTATAATACTCC 58.673 42.308 0.00 0.00 37.39 3.85
198 199 6.816140 GCCTGAAGGAAGCATCTATAATACTC 59.184 42.308 0.00 0.00 37.39 2.59
199 200 6.270927 TGCCTGAAGGAAGCATCTATAATACT 59.729 38.462 0.00 0.00 37.39 2.12
200 201 6.370166 GTGCCTGAAGGAAGCATCTATAATAC 59.630 42.308 0.00 0.00 39.04 1.89
221 222 1.076485 ATCCAGGGAAGCATGTGCC 60.076 57.895 0.57 0.00 43.38 5.01
354 355 6.357579 TGCCAATATTTCTGTTTGGATGTT 57.642 33.333 5.15 0.00 42.02 2.71
355 356 5.999205 TGCCAATATTTCTGTTTGGATGT 57.001 34.783 5.15 0.00 42.02 3.06
411 447 1.717194 TACGCTCCGTTTGGATGTTC 58.283 50.000 0.00 0.00 45.33 3.18
447 483 2.741486 TTCTGCCCTTTTCCGGTCCG 62.741 60.000 3.60 3.60 0.00 4.79
472 508 2.548493 CCTGCACCAACCCAATTTTCTG 60.548 50.000 0.00 0.00 0.00 3.02
473 509 1.693606 CCTGCACCAACCCAATTTTCT 59.306 47.619 0.00 0.00 0.00 2.52
479 515 1.382420 AAAGCCTGCACCAACCCAA 60.382 52.632 0.00 0.00 0.00 4.12
482 518 1.839424 ATAGAAAGCCTGCACCAACC 58.161 50.000 0.00 0.00 0.00 3.77
512 969 7.406104 AGTGCTCTTCCCATTTCTTTATTAGT 58.594 34.615 0.00 0.00 0.00 2.24
533 990 5.627499 TGTCCATTCAAGAATGTAAGTGC 57.373 39.130 18.47 5.69 44.97 4.40
603 1478 1.933853 CAAACCCAGCTACATACGCTC 59.066 52.381 0.00 0.00 35.07 5.03
643 2571 6.745794 AATTTGGATTGTTTTCCTTCTCCA 57.254 33.333 0.00 0.00 36.68 3.86
644 2572 6.073058 GCAAATTTGGATTGTTTTCCTTCTCC 60.073 38.462 19.47 0.00 36.68 3.71
664 2630 3.431207 GCATGTTCAGCTAATGGGCAAAT 60.431 43.478 0.00 0.00 34.17 2.32
670 2636 2.756760 AGTTGGCATGTTCAGCTAATGG 59.243 45.455 5.95 0.00 34.95 3.16
673 2639 4.332543 CGATAAGTTGGCATGTTCAGCTAA 59.667 41.667 7.65 0.00 0.00 3.09
682 2648 4.154015 TGTCTTTGACGATAAGTTGGCATG 59.846 41.667 0.00 0.00 34.95 4.06
683 2649 4.323417 TGTCTTTGACGATAAGTTGGCAT 58.677 39.130 0.00 0.00 34.95 4.40
693 2659 4.647424 TTTGGCTTTTGTCTTTGACGAT 57.353 36.364 0.00 0.00 34.95 3.73
696 2662 3.248363 GGCATTTGGCTTTTGTCTTTGAC 59.752 43.478 0.00 0.00 44.01 3.18
841 2810 4.184629 GCACTTCTGGATAGATCGTTTGT 58.815 43.478 0.00 0.00 31.81 2.83
878 2847 3.518003 GCATGACTGGGTGATGCC 58.482 61.111 10.16 0.00 44.88 4.40
1002 3010 2.504032 CTCGTGGGTGTGGTGTGT 59.496 61.111 0.00 0.00 0.00 3.72
1020 3030 4.223923 ACTTCAGATATATGTGCTAGGGCC 59.776 45.833 4.99 0.00 37.74 5.80
1065 3075 2.887783 GGATGTCTTCGGAGAGCTCATA 59.112 50.000 17.77 0.00 38.43 2.15
1200 3210 0.039437 AGACACGCGTTGAGTCGAAT 60.039 50.000 10.22 0.00 42.30 3.34
1269 3279 2.448453 ACTCTAAGCTAGCCAACGACT 58.552 47.619 12.13 0.00 0.00 4.18
1308 3318 7.942990 AGTGGTATATAGTTCAACTCTGCTAC 58.057 38.462 0.00 0.00 0.00 3.58
1310 3320 7.780745 ACTAGTGGTATATAGTTCAACTCTGCT 59.219 37.037 0.00 0.00 0.00 4.24
1411 3421 3.490761 CCTGCGTCAATTTTGTTGGAAGT 60.491 43.478 0.00 0.00 0.00 3.01
1420 3430 1.412343 ACAAAGGCCTGCGTCAATTTT 59.588 42.857 5.69 0.00 0.00 1.82
1436 3446 6.857956 TGTTCAAAAAGAATCCTTCGACAAA 58.142 32.000 0.00 0.00 38.76 2.83
1461 3471 7.782049 TGAGAGATGGAGATAAATTACGTTGT 58.218 34.615 0.00 0.00 0.00 3.32
1471 3481 6.129874 CGGGGTATATGAGAGATGGAGATAA 58.870 44.000 0.00 0.00 0.00 1.75
1543 5972 8.914328 TTTACACAATGAGATGCATACAAATG 57.086 30.769 0.00 9.49 35.78 2.32
1705 6142 2.867975 GCACATGCTGCTTTGTCTTTTT 59.132 40.909 11.51 0.00 43.33 1.94
1842 6281 9.813826 TCATCTCTCAAGGTAGTGATAATCATA 57.186 33.333 0.00 0.00 30.57 2.15
1859 6298 2.504367 TCGATACGCCATCATCTCTCA 58.496 47.619 0.00 0.00 32.71 3.27
1941 6382 7.174426 CAGATGCACCACTGATATACAATTGAT 59.826 37.037 13.59 4.14 36.38 2.57
1946 6387 5.129320 AGTCAGATGCACCACTGATATACAA 59.871 40.000 18.40 0.00 43.46 2.41
2054 6498 6.051946 AGTTAGATTAGGATGGGGTTCCTA 57.948 41.667 0.00 0.00 44.50 2.94
2125 6569 5.922739 GAACACCATTCCAATTTTGTTCC 57.077 39.130 9.70 0.00 37.80 3.62
2190 6634 1.068127 AGCACTGAACTACCGTTTCGT 59.932 47.619 0.00 0.00 32.39 3.85
2227 6671 3.005554 AGTCGAAGTTGATCAGGCAATG 58.994 45.455 0.00 0.00 0.00 2.82
2454 6906 1.207329 AGCGGTAGAGGCTTAAACTGG 59.793 52.381 0.00 0.00 37.50 4.00
2461 6913 0.398664 ATGGGTAGCGGTAGAGGCTT 60.399 55.000 0.00 0.00 41.80 4.35
2523 6976 4.498177 GGTGAAGACAAACTCCAGAAAAGC 60.498 45.833 0.00 0.00 0.00 3.51
2558 7011 3.057315 GCATTGAGCTGGACTTGCTTTTA 60.057 43.478 0.00 0.00 41.30 1.52


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

AutoCloner maintained by Alex Coulton.