Multiple sequence alignment - TraesCS7D01G244700

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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 TraesCS7D01G244700 chr7D 100.000 4743 0 0 1 4743 213383667 213378925 0.000000e+00 8759.0
1 TraesCS7D01G244700 chr7D 97.188 569 12 3 4178 4743 176881091 176880524 0.000000e+00 959.0
2 TraesCS7D01G244700 chr7D 96.290 566 21 0 4178 4743 580382935 580383500 0.000000e+00 929.0
3 TraesCS7D01G244700 chr7D 87.253 557 50 13 1913 2466 213380194 213379656 2.430000e-172 616.0
4 TraesCS7D01G244700 chr7D 87.253 557 50 13 3474 4012 213381755 213381202 2.430000e-172 616.0
5 TraesCS7D01G244700 chr7D 76.037 217 31 6 1510 1706 489201446 489201231 5.050000e-15 93.5
6 TraesCS7D01G244700 chr7D 89.286 56 6 0 1510 1565 370865012 370864957 2.370000e-08 71.3
7 TraesCS7D01G244700 chr7A 92.661 2507 91 36 1706 4177 224993689 224991241 0.000000e+00 3524.0
8 TraesCS7D01G244700 chr7A 86.949 613 45 13 3420 4012 224993527 224992930 0.000000e+00 656.0
9 TraesCS7D01G244700 chr7A 85.996 557 48 19 1913 2466 224991933 224991404 1.920000e-158 569.0
10 TraesCS7D01G244700 chr7A 89.950 398 18 8 1051 1446 224994059 224993682 1.190000e-135 494.0
11 TraesCS7D01G244700 chr7A 81.218 197 19 10 1510 1706 729934924 729935102 4.950000e-30 143.0
12 TraesCS7D01G244700 chr7A 93.590 78 5 0 975 1052 225005572 225005649 3.000000e-22 117.0
13 TraesCS7D01G244700 chr7A 94.643 56 3 0 1510 1565 652902308 652902363 2.350000e-13 87.9
14 TraesCS7D01G244700 chr7A 90.741 54 3 2 1308 1360 224992933 224992881 2.370000e-08 71.3
15 TraesCS7D01G244700 chr7B 94.099 1593 54 18 1699 3261 188592098 188593680 0.000000e+00 2385.0
16 TraesCS7D01G244700 chr7B 93.963 1441 67 10 1 1432 188586104 188587533 0.000000e+00 2161.0
17 TraesCS7D01G244700 chr7B 88.151 557 43 15 3474 4012 188592308 188592859 4.000000e-180 641.0
18 TraesCS7D01G244700 chr7B 93.199 397 21 5 3785 4177 188594193 188594587 3.180000e-161 579.0
19 TraesCS7D01G244700 chr7B 87.154 397 29 8 1758 2134 188593558 188593952 9.430000e-117 431.0
20 TraesCS7D01G244700 chr7B 92.674 273 16 2 3422 3690 188593678 188593950 1.600000e-104 390.0
21 TraesCS7D01G244700 chr7B 77.818 275 40 13 1445 1705 388635505 388635238 2.960000e-32 150.0
22 TraesCS7D01G244700 chr7B 81.928 166 17 7 1510 1662 211375691 211375856 1.390000e-25 128.0
23 TraesCS7D01G244700 chr7B 97.368 38 1 0 3684 3721 188594159 188594196 1.100000e-06 65.8
24 TraesCS7D01G244700 chr7B 94.737 38 2 0 2126 2163 188594159 188594196 5.130000e-05 60.2
25 TraesCS7D01G244700 chr2D 97.173 566 15 1 4178 4743 358120886 358120322 0.000000e+00 955.0
26 TraesCS7D01G244700 chr2D 96.837 569 14 3 4178 4743 489773684 489773117 0.000000e+00 948.0
27 TraesCS7D01G244700 chr2D 96.820 566 16 2 4178 4743 5119804 5120367 0.000000e+00 944.0
28 TraesCS7D01G244700 chr2D 93.617 188 10 2 3256 3442 29162386 29162572 3.610000e-71 279.0
29 TraesCS7D01G244700 chr2D 88.506 87 9 1 1447 1533 37275205 37275120 2.330000e-18 104.0
30 TraesCS7D01G244700 chr3D 97.018 570 12 4 4178 4743 6030366 6029798 0.000000e+00 953.0
31 TraesCS7D01G244700 chr3D 96.473 567 16 3 4178 4741 589565132 589565697 0.000000e+00 933.0
32 TraesCS7D01G244700 chr3D 93.243 74 4 1 1592 1664 116335800 116335727 1.800000e-19 108.0
33 TraesCS7D01G244700 chr3D 79.012 162 16 4 1519 1662 470498760 470498599 1.410000e-15 95.3
34 TraesCS7D01G244700 chr1D 96.655 568 14 4 4178 4741 1025000 1024434 0.000000e+00 939.0
35 TraesCS7D01G244700 chr1D 87.019 208 20 2 1510 1712 464639381 464639176 1.330000e-55 228.0
36 TraesCS7D01G244700 chr1D 79.675 246 28 7 1480 1705 327935139 327934896 1.770000e-34 158.0
37 TraesCS7D01G244700 chr1D 80.288 208 23 8 1510 1699 324338901 324339108 1.780000e-29 141.0
38 TraesCS7D01G244700 chr1D 77.778 207 28 9 1510 1705 365968854 365969053 1.400000e-20 111.0
39 TraesCS7D01G244700 chr1D 87.500 88 10 1 1447 1534 240118962 240119048 3.020000e-17 100.0
40 TraesCS7D01G244700 chr1D 93.333 45 3 0 1447 1491 416525319 416525275 3.060000e-07 67.6
41 TraesCS7D01G244700 chr5D 96.631 564 18 1 4180 4743 4797150 4796588 0.000000e+00 935.0
42 TraesCS7D01G244700 chr5D 98.225 169 3 0 3259 3427 274578176 274578008 3.590000e-76 296.0
43 TraesCS7D01G244700 chr5D 83.333 246 19 8 1481 1705 513525652 513525408 1.730000e-49 207.0
44 TraesCS7D01G244700 chr5D 89.773 88 8 1 1447 1534 353926300 353926214 1.400000e-20 111.0
45 TraesCS7D01G244700 chr5D 89.535 86 8 1 1449 1534 406617580 406617664 1.800000e-19 108.0
46 TraesCS7D01G244700 chr5D 88.636 88 9 1 1447 1534 515818397 515818483 6.490000e-19 106.0
47 TraesCS7D01G244700 chr5D 86.207 87 11 1 1447 1533 553630646 553630731 5.050000e-15 93.5
48 TraesCS7D01G244700 chr6D 97.661 171 4 0 3253 3423 392896969 392897139 1.290000e-75 294.0
49 TraesCS7D01G244700 chr6A 96.111 180 5 2 3251 3428 24071886 24072065 4.640000e-75 292.0
50 TraesCS7D01G244700 chr6A 82.412 199 27 3 1510 1702 105637436 105637240 2.940000e-37 167.0
51 TraesCS7D01G244700 chr6A 78.199 211 18 7 1510 1702 560640399 560640599 5.020000e-20 110.0
52 TraesCS7D01G244700 chr6A 79.651 172 16 4 1510 1662 578692634 578692463 6.490000e-19 106.0
53 TraesCS7D01G244700 chr4D 96.591 176 4 2 3248 3423 403412900 403413073 1.670000e-74 291.0
54 TraesCS7D01G244700 chr4B 96.067 178 6 1 3251 3428 323794486 323794662 6.010000e-74 289.0
55 TraesCS7D01G244700 chr3A 95.055 182 6 2 3259 3440 641872783 641872961 2.790000e-72 283.0
56 TraesCS7D01G244700 chr3A 79.909 219 21 6 1474 1673 18967888 18968102 6.400000e-29 139.0
57 TraesCS7D01G244700 chr3A 81.481 162 18 1 1510 1659 711114685 711114846 6.450000e-24 122.0
58 TraesCS7D01G244700 chr1A 94.086 186 10 1 3239 3423 452455066 452455251 1.000000e-71 281.0
59 TraesCS7D01G244700 chr1A 85.987 157 8 7 1510 1660 496316439 496316291 6.360000e-34 156.0
60 TraesCS7D01G244700 chr1A 89.744 78 8 0 1596 1673 239868586 239868663 3.020000e-17 100.0
61 TraesCS7D01G244700 chr1A 94.643 56 3 0 1510 1565 550608522 550608467 2.350000e-13 87.9
62 TraesCS7D01G244700 chr1A 92.857 56 4 0 1510 1565 552047853 552047798 1.090000e-11 82.4
63 TraesCS7D01G244700 chr2A 81.685 273 32 7 1447 1702 182038065 182038336 1.340000e-50 211.0
64 TraesCS7D01G244700 chr2A 80.258 233 27 5 1447 1661 149199447 149199678 1.770000e-34 158.0
65 TraesCS7D01G244700 chr5B 84.080 201 22 5 1510 1705 120303598 120303403 8.110000e-43 185.0
66 TraesCS7D01G244700 chr5B 86.928 153 12 5 1511 1662 568817323 568817178 1.060000e-36 165.0
67 TraesCS7D01G244700 chr5B 84.375 160 15 2 1510 1664 460682103 460682257 1.060000e-31 148.0
68 TraesCS7D01G244700 chr5B 88.636 88 9 1 1447 1534 379164466 379164552 6.490000e-19 106.0
69 TraesCS7D01G244700 chr5B 87.500 88 10 1 1447 1534 493425908 493425822 3.020000e-17 100.0
70 TraesCS7D01G244700 chr5B 86.364 88 11 1 1447 1534 640134866 640134952 1.410000e-15 95.3
71 TraesCS7D01G244700 chr5B 97.368 38 1 0 1670 1707 6680792 6680755 1.100000e-06 65.8
72 TraesCS7D01G244700 chr5B 97.368 38 1 0 1670 1707 24423540 24423503 1.100000e-06 65.8
73 TraesCS7D01G244700 chr6B 82.990 194 20 6 1480 1662 544635801 544635992 3.800000e-36 163.0
74 TraesCS7D01G244700 chr6B 80.110 181 19 6 1510 1673 645817331 645817151 8.340000e-23 119.0
75 TraesCS7D01G244700 chr4A 89.773 88 8 1 1447 1534 101610382 101610468 1.400000e-20 111.0
76 TraesCS7D01G244700 chr1B 85.106 94 9 4 1446 1538 515457629 515457540 1.820000e-14 91.6


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 TraesCS7D01G244700 chr7D 213378925 213383667 4742 True 8759.000000 8759 100.000000 1 4743 1 chr7D.!!$R2 4742
1 TraesCS7D01G244700 chr7D 176880524 176881091 567 True 959.000000 959 97.188000 4178 4743 1 chr7D.!!$R1 565
2 TraesCS7D01G244700 chr7D 580382935 580383500 565 False 929.000000 929 96.290000 4178 4743 1 chr7D.!!$F1 565
3 TraesCS7D01G244700 chr7D 213379656 213381755 2099 True 616.000000 616 87.253000 1913 4012 2 chr7D.!!$R5 2099
4 TraesCS7D01G244700 chr7A 224991241 224994059 2818 True 1062.860000 3524 89.259400 1051 4177 5 chr7A.!!$R1 3126
5 TraesCS7D01G244700 chr7B 188586104 188587533 1429 False 2161.000000 2161 93.963000 1 1432 1 chr7B.!!$F1 1431
6 TraesCS7D01G244700 chr7B 188592098 188594587 2489 False 650.285714 2385 92.483143 1699 4177 7 chr7B.!!$F3 2478
7 TraesCS7D01G244700 chr2D 358120322 358120886 564 True 955.000000 955 97.173000 4178 4743 1 chr2D.!!$R2 565
8 TraesCS7D01G244700 chr2D 489773117 489773684 567 True 948.000000 948 96.837000 4178 4743 1 chr2D.!!$R3 565
9 TraesCS7D01G244700 chr2D 5119804 5120367 563 False 944.000000 944 96.820000 4178 4743 1 chr2D.!!$F1 565
10 TraesCS7D01G244700 chr3D 6029798 6030366 568 True 953.000000 953 97.018000 4178 4743 1 chr3D.!!$R1 565
11 TraesCS7D01G244700 chr3D 589565132 589565697 565 False 933.000000 933 96.473000 4178 4741 1 chr3D.!!$F1 563
12 TraesCS7D01G244700 chr1D 1024434 1025000 566 True 939.000000 939 96.655000 4178 4741 1 chr1D.!!$R1 563
13 TraesCS7D01G244700 chr5D 4796588 4797150 562 True 935.000000 935 96.631000 4180 4743 1 chr5D.!!$R1 563

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
99 100 0.032678 CTACTGCTATGGTCCGCTGG 59.967 60.0 0.00 0.00 0.00 4.85 F
550 551 0.036732 GCATCACTGAGTGGGGTGAA 59.963 55.0 13.33 0.00 44.10 3.18 F
1586 1596 0.291414 TTCGTTAACGCGCGAATACG 59.709 50.0 39.36 34.73 41.36 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1448 1458 0.107831 GCCCGACATATGGCCAAGTA 59.892 55.0 10.96 0.00 41.97 2.24 R
1690 1700 0.179034 GAGCTTAGACCTGGCCATGG 60.179 60.0 5.51 13.05 0.00 3.66 R
4067 4365 6.299805 TCTACTCAGCACAAGGAAATACAT 57.700 37.5 0.00 0.00 0.00 2.29 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
60 61 1.134580 AGCTGCGCAATCAGTATCACT 60.135 47.619 13.05 0.00 36.49 3.41
94 95 0.106894 GGTGGCTACTGCTATGGTCC 59.893 60.000 0.00 0.00 39.59 4.46
99 100 0.032678 CTACTGCTATGGTCCGCTGG 59.967 60.000 0.00 0.00 0.00 4.85
100 101 0.396556 TACTGCTATGGTCCGCTGGA 60.397 55.000 0.00 0.00 0.00 3.86
108 109 2.997897 GTCCGCTGGACCCTGTCT 60.998 66.667 14.46 0.00 46.19 3.41
109 110 2.680352 TCCGCTGGACCCTGTCTC 60.680 66.667 0.00 0.00 32.47 3.36
110 111 3.775654 CCGCTGGACCCTGTCTCC 61.776 72.222 0.00 0.00 32.47 3.71
152 153 1.082104 GTGCGAGCAAAACTTCCCG 60.082 57.895 0.00 0.00 0.00 5.14
154 155 2.561373 CGAGCAAAACTTCCCGCC 59.439 61.111 0.00 0.00 0.00 6.13
195 196 2.224843 ACCATGATCAGCACCAAGTTGA 60.225 45.455 3.87 0.00 41.89 3.18
204 205 1.603455 ACCAAGTTGATGTGGCGGG 60.603 57.895 3.87 0.00 38.58 6.13
224 225 2.105128 GCGGCGCAGTCACTCTAT 59.895 61.111 29.21 0.00 0.00 1.98
231 232 0.249238 GCAGTCACTCTATGGCCTCG 60.249 60.000 3.32 0.00 30.92 4.63
233 234 1.107114 AGTCACTCTATGGCCTCGTG 58.893 55.000 3.32 4.25 30.92 4.35
257 258 0.678684 TCCTGTGCACTCGATACCGA 60.679 55.000 19.41 0.00 43.35 4.69
362 363 0.250124 CCAGTGCTACCGGTGAAACA 60.250 55.000 19.93 6.98 39.98 2.83
370 371 2.144482 ACCGGTGAAACACGTCTAAG 57.856 50.000 6.12 0.00 39.98 2.18
380 381 2.143925 ACACGTCTAAGCTTTTCTGGC 58.856 47.619 3.20 0.00 0.00 4.85
389 390 1.032014 GCTTTTCTGGCTGTGGTCAA 58.968 50.000 0.00 0.00 0.00 3.18
415 416 2.978978 TCAACATTCCTGACCCTTCTCA 59.021 45.455 0.00 0.00 0.00 3.27
418 419 5.429762 TCAACATTCCTGACCCTTCTCATAT 59.570 40.000 0.00 0.00 0.00 1.78
423 424 3.389329 TCCTGACCCTTCTCATATTCAGC 59.611 47.826 0.00 0.00 31.05 4.26
428 429 2.036992 CCCTTCTCATATTCAGCGCTCT 59.963 50.000 7.13 0.00 0.00 4.09
456 457 2.357517 AAAGCGTCCCGTCTGCTG 60.358 61.111 0.00 0.00 39.30 4.41
470 471 1.572085 CTGCTGGTGTTCCTGAAGCG 61.572 60.000 0.00 0.00 34.32 4.68
530 531 3.620488 TCTTGCACACAAAGAGTTCCTT 58.380 40.909 0.00 0.00 34.74 3.36
550 551 0.036732 GCATCACTGAGTGGGGTGAA 59.963 55.000 13.33 0.00 44.10 3.18
591 592 0.979665 AGAGGTGTCAGTGGATGGTG 59.020 55.000 0.00 0.00 0.00 4.17
603 604 1.103803 GGATGGTGTGAGCGAGTCTA 58.896 55.000 0.00 0.00 0.00 2.59
734 735 1.136500 CTAGCCCCTACGAAGGTCAAC 59.864 57.143 0.00 0.00 41.89 3.18
752 753 6.049790 GGTCAACAAGGGATTCTACTATCAC 58.950 44.000 0.00 0.00 0.00 3.06
830 831 4.389687 GCGACAAATGCATTGGAGAAATTT 59.610 37.500 20.90 0.00 43.66 1.82
867 868 3.556004 GGTTAGTCTCTTGCTTGCTCACT 60.556 47.826 0.00 0.00 0.00 3.41
870 871 2.368221 AGTCTCTTGCTTGCTCACTTCT 59.632 45.455 0.00 0.00 0.00 2.85
871 872 3.576118 AGTCTCTTGCTTGCTCACTTCTA 59.424 43.478 0.00 0.00 0.00 2.10
872 873 3.677596 GTCTCTTGCTTGCTCACTTCTAC 59.322 47.826 0.00 0.00 0.00 2.59
873 874 3.576118 TCTCTTGCTTGCTCACTTCTACT 59.424 43.478 0.00 0.00 0.00 2.57
908 909 6.500684 TTCATTTCAAGTAATCTCTGTGCC 57.499 37.500 0.00 0.00 0.00 5.01
911 912 4.623932 TTCAAGTAATCTCTGTGCCTGT 57.376 40.909 0.00 0.00 0.00 4.00
918 919 1.269958 TCTCTGTGCCTGTGCTATGT 58.730 50.000 0.00 0.00 38.71 2.29
949 950 7.921786 TCCAATCTAACGATGTTCATCTTTT 57.078 32.000 9.19 6.02 0.00 2.27
954 955 5.995282 TCTAACGATGTTCATCTTTTGTGGT 59.005 36.000 9.19 0.00 0.00 4.16
965 966 2.243736 TCTTTTGTGGTTGAAGGAGGGT 59.756 45.455 0.00 0.00 0.00 4.34
994 995 7.381766 TGTTTGAACTTCATATCATCTGTGG 57.618 36.000 0.00 0.00 0.00 4.17
998 999 6.475504 TGAACTTCATATCATCTGTGGTGTT 58.524 36.000 0.00 0.00 0.00 3.32
1106 1107 5.756347 CACCCATATCAATTTTCTGGCAATG 59.244 40.000 0.00 0.00 0.00 2.82
1165 1166 4.933505 TTGCTGAATGTGGAAAACATGA 57.066 36.364 0.00 0.00 44.51 3.07
1213 1216 0.973632 TCCGCAGAAACCAGAAGCTA 59.026 50.000 0.00 0.00 0.00 3.32
1241 1245 4.517285 CTCTAGCCTTGACCTTGCAATTA 58.483 43.478 0.00 0.00 0.00 1.40
1361 1367 1.800805 ACAGTACATGTGTGCTCTGC 58.199 50.000 9.11 0.00 41.91 4.26
1363 1369 2.224378 ACAGTACATGTGTGCTCTGCTT 60.224 45.455 9.11 0.00 41.91 3.91
1455 1465 7.108847 AGATCCATAGCTCAATTATACTTGGC 58.891 38.462 0.00 5.81 0.00 4.52
1456 1466 5.560724 TCCATAGCTCAATTATACTTGGCC 58.439 41.667 0.00 0.00 0.00 5.36
1457 1467 5.073008 TCCATAGCTCAATTATACTTGGCCA 59.927 40.000 0.00 0.00 0.00 5.36
1458 1468 5.948162 CCATAGCTCAATTATACTTGGCCAT 59.052 40.000 6.09 0.00 0.00 4.40
1459 1469 7.037658 TCCATAGCTCAATTATACTTGGCCATA 60.038 37.037 6.09 0.00 0.00 2.74
1460 1470 7.776969 CCATAGCTCAATTATACTTGGCCATAT 59.223 37.037 6.09 4.98 0.00 1.78
1461 1471 8.618677 CATAGCTCAATTATACTTGGCCATATG 58.381 37.037 6.09 2.30 0.00 1.78
1462 1472 6.546484 AGCTCAATTATACTTGGCCATATGT 58.454 36.000 6.09 9.11 0.00 2.29
1463 1473 6.656693 AGCTCAATTATACTTGGCCATATGTC 59.343 38.462 6.09 0.00 0.00 3.06
1464 1474 6.402550 GCTCAATTATACTTGGCCATATGTCG 60.403 42.308 6.09 0.00 0.00 4.35
1465 1475 5.937540 TCAATTATACTTGGCCATATGTCGG 59.062 40.000 6.09 0.00 0.00 4.79
1466 1476 2.859165 ATACTTGGCCATATGTCGGG 57.141 50.000 6.09 0.00 0.00 5.14
1505 1515 2.799176 GGCCTACCAAAGCCTGATG 58.201 57.895 0.00 0.00 46.14 3.07
1506 1516 1.387295 GGCCTACCAAAGCCTGATGC 61.387 60.000 0.00 0.00 46.14 3.91
1507 1517 0.680921 GCCTACCAAAGCCTGATGCA 60.681 55.000 0.00 0.00 44.83 3.96
1508 1518 1.838112 CCTACCAAAGCCTGATGCAA 58.162 50.000 0.00 0.00 44.83 4.08
1509 1519 2.381911 CCTACCAAAGCCTGATGCAAT 58.618 47.619 0.00 0.00 44.83 3.56
1510 1520 3.554934 CCTACCAAAGCCTGATGCAATA 58.445 45.455 0.00 0.00 44.83 1.90
1511 1521 3.953612 CCTACCAAAGCCTGATGCAATAA 59.046 43.478 0.00 0.00 44.83 1.40
1512 1522 4.402155 CCTACCAAAGCCTGATGCAATAAA 59.598 41.667 0.00 0.00 44.83 1.40
1513 1523 4.888326 ACCAAAGCCTGATGCAATAAAA 57.112 36.364 0.00 0.00 44.83 1.52
1514 1524 5.226194 ACCAAAGCCTGATGCAATAAAAA 57.774 34.783 0.00 0.00 44.83 1.94
1515 1525 4.996758 ACCAAAGCCTGATGCAATAAAAAC 59.003 37.500 0.00 0.00 44.83 2.43
1516 1526 4.392754 CCAAAGCCTGATGCAATAAAAACC 59.607 41.667 0.00 0.00 44.83 3.27
1517 1527 4.888326 AAGCCTGATGCAATAAAAACCA 57.112 36.364 0.00 0.00 44.83 3.67
1518 1528 4.460948 AGCCTGATGCAATAAAAACCAG 57.539 40.909 0.00 0.00 44.83 4.00
1519 1529 3.196254 AGCCTGATGCAATAAAAACCAGG 59.804 43.478 0.00 0.00 44.83 4.45
1520 1530 3.524541 CCTGATGCAATAAAAACCAGGC 58.475 45.455 0.00 0.00 34.15 4.85
1521 1531 3.524541 CTGATGCAATAAAAACCAGGCC 58.475 45.455 0.00 0.00 0.00 5.19
1522 1532 2.235898 TGATGCAATAAAAACCAGGCCC 59.764 45.455 0.00 0.00 0.00 5.80
1523 1533 0.605589 TGCAATAAAAACCAGGCCCG 59.394 50.000 0.00 0.00 0.00 6.13
1524 1534 0.892063 GCAATAAAAACCAGGCCCGA 59.108 50.000 0.00 0.00 0.00 5.14
1525 1535 1.135112 GCAATAAAAACCAGGCCCGAG 60.135 52.381 0.00 0.00 0.00 4.63
1526 1536 1.135112 CAATAAAAACCAGGCCCGAGC 60.135 52.381 0.00 0.00 38.76 5.03
1542 1552 3.792736 GCCCGGCCCATCACACTA 61.793 66.667 0.00 0.00 0.00 2.74
1543 1553 2.994699 CCCGGCCCATCACACTAA 59.005 61.111 0.00 0.00 0.00 2.24
1544 1554 1.301623 CCCGGCCCATCACACTAAA 59.698 57.895 0.00 0.00 0.00 1.85
1545 1555 0.322997 CCCGGCCCATCACACTAAAA 60.323 55.000 0.00 0.00 0.00 1.52
1546 1556 1.094785 CCGGCCCATCACACTAAAAG 58.905 55.000 0.00 0.00 0.00 2.27
1547 1557 0.451783 CGGCCCATCACACTAAAAGC 59.548 55.000 0.00 0.00 0.00 3.51
1548 1558 0.817654 GGCCCATCACACTAAAAGCC 59.182 55.000 0.00 0.00 0.00 4.35
1549 1559 1.616994 GGCCCATCACACTAAAAGCCT 60.617 52.381 0.00 0.00 36.22 4.58
1550 1560 1.474077 GCCCATCACACTAAAAGCCTG 59.526 52.381 0.00 0.00 0.00 4.85
1551 1561 2.795329 CCCATCACACTAAAAGCCTGT 58.205 47.619 0.00 0.00 0.00 4.00
1552 1562 2.749621 CCCATCACACTAAAAGCCTGTC 59.250 50.000 0.00 0.00 0.00 3.51
1553 1563 2.416547 CCATCACACTAAAAGCCTGTCG 59.583 50.000 0.00 0.00 0.00 4.35
1554 1564 2.163818 TCACACTAAAAGCCTGTCGG 57.836 50.000 0.00 0.00 0.00 4.79
1555 1565 1.156736 CACACTAAAAGCCTGTCGGG 58.843 55.000 0.00 0.00 38.36 5.14
1572 1582 4.083862 GCCTCGGGCCTCTTCGTT 62.084 66.667 0.84 0.00 44.06 3.85
1573 1583 2.718073 GCCTCGGGCCTCTTCGTTA 61.718 63.158 0.84 0.00 44.06 3.18
1574 1584 1.895238 CCTCGGGCCTCTTCGTTAA 59.105 57.895 0.84 0.00 0.00 2.01
1575 1585 0.459759 CCTCGGGCCTCTTCGTTAAC 60.460 60.000 0.84 0.00 0.00 2.01
1576 1586 0.801067 CTCGGGCCTCTTCGTTAACG 60.801 60.000 21.85 21.85 41.45 3.18
1577 1587 2.450345 CGGGCCTCTTCGTTAACGC 61.450 63.158 22.96 7.70 39.60 4.84
1578 1588 2.450345 GGGCCTCTTCGTTAACGCG 61.450 63.158 22.96 15.60 39.60 6.01
1579 1589 2.394524 GCCTCTTCGTTAACGCGC 59.605 61.111 22.96 14.00 39.60 6.86
1580 1590 2.687436 CCTCTTCGTTAACGCGCG 59.313 61.111 30.96 30.96 39.60 6.86
1581 1591 1.798725 CCTCTTCGTTAACGCGCGA 60.799 57.895 39.36 13.15 39.60 5.87
1582 1592 1.339235 CCTCTTCGTTAACGCGCGAA 61.339 55.000 39.36 21.51 43.55 4.70
1583 1593 0.638746 CTCTTCGTTAACGCGCGAAT 59.361 50.000 39.36 26.14 44.46 3.34
1584 1594 1.841944 CTCTTCGTTAACGCGCGAATA 59.158 47.619 39.36 25.00 44.46 1.75
1585 1595 1.578915 TCTTCGTTAACGCGCGAATAC 59.421 47.619 39.36 26.34 44.46 1.89
1586 1596 0.291414 TTCGTTAACGCGCGAATACG 59.709 50.000 39.36 34.73 41.36 3.06
1587 1597 0.520205 TCGTTAACGCGCGAATACGA 60.520 50.000 34.41 34.41 39.54 3.43
1588 1598 0.378236 CGTTAACGCGCGAATACGAC 60.378 55.000 39.36 22.03 42.66 4.34
1589 1599 0.378236 GTTAACGCGCGAATACGACG 60.378 55.000 39.36 3.97 42.82 5.12
1590 1600 1.462871 TTAACGCGCGAATACGACGG 61.463 55.000 39.36 2.87 41.99 4.79
1596 1606 4.936823 CGAATACGACGGGGCCGG 62.937 72.222 9.88 9.88 44.69 6.13
1627 1637 2.498167 CCATCGGGCTTGAAATCTAGG 58.502 52.381 0.00 0.00 0.00 3.02
1628 1638 1.876156 CATCGGGCTTGAAATCTAGGC 59.124 52.381 9.36 9.36 41.89 3.93
1632 1642 2.717639 GGCTTGAAATCTAGGCCTGA 57.282 50.000 17.99 11.61 39.68 3.86
1633 1643 2.570135 GGCTTGAAATCTAGGCCTGAG 58.430 52.381 17.99 9.21 39.68 3.35
1634 1644 1.946081 GCTTGAAATCTAGGCCTGAGC 59.054 52.381 17.99 7.87 38.76 4.26
1668 1678 4.754667 GTCGGGCCGGGTCAAGTC 62.755 72.222 27.98 3.07 0.00 3.01
1762 1772 6.710278 AGCCATTGTTTACCTAAATTTGCAT 58.290 32.000 0.00 0.00 0.00 3.96
1763 1773 6.594937 AGCCATTGTTTACCTAAATTTGCATG 59.405 34.615 0.00 0.00 0.00 4.06
1764 1774 6.371271 GCCATTGTTTACCTAAATTTGCATGT 59.629 34.615 0.00 0.00 0.00 3.21
1804 1817 9.410556 GTTATGATGCAAGTTCAGTTTATTGTT 57.589 29.630 0.00 0.00 0.00 2.83
1809 1822 7.985634 TGCAAGTTCAGTTTATTGTTCTTTC 57.014 32.000 0.00 0.00 0.00 2.62
4057 4355 5.640147 TCCATGTCCTTTATTTCCTTGTGT 58.360 37.500 0.00 0.00 0.00 3.72
4067 4365 7.333423 CCTTTATTTCCTTGTGTGTTCTATCGA 59.667 37.037 0.00 0.00 0.00 3.59
4084 4382 5.985530 TCTATCGATGTATTTCCTTGTGCTG 59.014 40.000 8.54 0.00 0.00 4.41
4088 4386 5.105513 TCGATGTATTTCCTTGTGCTGAGTA 60.106 40.000 0.00 0.00 0.00 2.59
4138 4436 3.491104 GGTGTCTCTCTTTGTTCTCGTGT 60.491 47.826 0.00 0.00 0.00 4.49
4147 4445 0.176910 TGTTCTCGTGTGTGGCTTGA 59.823 50.000 0.00 0.00 0.00 3.02
4148 4446 1.295792 GTTCTCGTGTGTGGCTTGAA 58.704 50.000 0.00 0.00 0.00 2.69
4154 4454 1.670811 CGTGTGTGGCTTGAAGTTCTT 59.329 47.619 4.17 0.00 0.00 2.52
4163 4463 6.149973 TGTGGCTTGAAGTTCTTTGATGATAG 59.850 38.462 4.17 0.00 0.00 2.08
4164 4464 5.649395 TGGCTTGAAGTTCTTTGATGATAGG 59.351 40.000 4.17 0.00 0.00 2.57
4172 4472 7.798596 AGTTCTTTGATGATAGGCTACAATG 57.201 36.000 0.00 0.00 0.00 2.82
4174 4474 7.831193 AGTTCTTTGATGATAGGCTACAATGTT 59.169 33.333 0.00 0.00 0.00 2.71
4175 4475 7.792374 TCTTTGATGATAGGCTACAATGTTC 57.208 36.000 0.00 0.00 0.00 3.18
4176 4476 7.568349 TCTTTGATGATAGGCTACAATGTTCT 58.432 34.615 0.00 0.00 0.00 3.01
4220 4521 3.474570 AGATCTGGTCGCCCCTGC 61.475 66.667 0.00 0.00 32.38 4.85
4450 4758 0.326238 TCTAGGCTCCCGGGTGAAAT 60.326 55.000 26.61 12.57 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 1.427809 CCACCCCAGATCATGCTCTA 58.572 55.000 0.00 0.00 0.00 2.43
94 95 1.903877 ATTGGAGACAGGGTCCAGCG 61.904 60.000 0.00 0.00 45.00 5.18
99 100 5.041191 ACAATGATATTGGAGACAGGGTC 57.959 43.478 6.51 0.00 44.54 4.46
100 101 4.474651 TGACAATGATATTGGAGACAGGGT 59.525 41.667 6.51 0.00 44.54 4.34
101 102 5.039920 TGACAATGATATTGGAGACAGGG 57.960 43.478 6.51 0.00 44.54 4.45
103 104 6.183360 GGTGTTGACAATGATATTGGAGACAG 60.183 42.308 6.51 0.00 44.54 3.51
104 105 5.647658 GGTGTTGACAATGATATTGGAGACA 59.352 40.000 6.51 4.86 39.83 3.41
105 106 5.647658 TGGTGTTGACAATGATATTGGAGAC 59.352 40.000 6.51 2.76 0.00 3.36
106 107 5.814481 TGGTGTTGACAATGATATTGGAGA 58.186 37.500 6.51 0.00 0.00 3.71
107 108 6.544931 AGATGGTGTTGACAATGATATTGGAG 59.455 38.462 6.51 0.00 0.00 3.86
108 109 6.319405 CAGATGGTGTTGACAATGATATTGGA 59.681 38.462 6.51 0.00 0.00 3.53
109 110 6.460537 CCAGATGGTGTTGACAATGATATTGG 60.461 42.308 6.51 0.00 0.00 3.16
110 111 6.500910 CCAGATGGTGTTGACAATGATATTG 58.499 40.000 0.00 0.28 0.00 1.90
152 153 1.864565 ACGGAAATTGTTTGCTTGGC 58.135 45.000 0.00 0.00 0.00 4.52
154 155 4.806247 TGGTTAACGGAAATTGTTTGCTTG 59.194 37.500 0.00 0.00 0.00 4.01
204 205 4.077188 GAGTGACTGCGCCGCAAC 62.077 66.667 14.77 8.98 38.41 4.17
209 210 1.884926 GCCATAGAGTGACTGCGCC 60.885 63.158 4.18 0.00 0.00 6.53
224 225 2.203788 AGGAAGGACACGAGGCCA 60.204 61.111 7.72 0.00 0.00 5.36
231 232 0.946221 CGAGTGCACAGGAAGGACAC 60.946 60.000 21.04 0.00 0.00 3.67
233 234 0.247736 ATCGAGTGCACAGGAAGGAC 59.752 55.000 21.04 0.00 0.00 3.85
257 258 2.575455 CTAGGTCGGGAGTGAGGCCT 62.575 65.000 3.86 3.86 0.00 5.19
260 261 2.128507 GGCTAGGTCGGGAGTGAGG 61.129 68.421 0.00 0.00 0.00 3.86
313 314 0.990374 AAGTCTGGGATCAGCAGCTT 59.010 50.000 0.00 0.00 40.69 3.74
356 357 4.272504 CCAGAAAAGCTTAGACGTGTTTCA 59.727 41.667 0.00 0.00 0.00 2.69
362 363 2.224305 ACAGCCAGAAAAGCTTAGACGT 60.224 45.455 0.00 0.00 38.95 4.34
370 371 1.000938 CTTGACCACAGCCAGAAAAGC 60.001 52.381 0.00 0.00 0.00 3.51
380 381 4.023707 GGAATGTTGAGAACTTGACCACAG 60.024 45.833 0.00 0.00 0.00 3.66
389 390 2.982488 AGGGTCAGGAATGTTGAGAACT 59.018 45.455 0.00 0.00 0.00 3.01
428 429 1.503818 GGACGCTTTCTTCAACCGCA 61.504 55.000 0.00 0.00 0.00 5.69
444 445 1.668151 GAACACCAGCAGACGGGAC 60.668 63.158 0.00 0.00 34.79 4.46
456 457 2.190981 CGTATACGCTTCAGGAACACC 58.809 52.381 13.08 0.00 0.00 4.16
504 505 2.438021 ACTCTTTGTGTGCAAGAGGGTA 59.562 45.455 15.09 0.00 35.81 3.69
530 531 1.126948 TCACCCCACTCAGTGATGCA 61.127 55.000 6.30 0.00 38.07 3.96
550 551 1.002773 AGTCAAACTCGGCGGGTTTAT 59.997 47.619 34.50 21.44 35.48 1.40
734 735 5.535406 ACCTACGTGATAGTAGAATCCCTTG 59.465 44.000 0.00 0.00 45.07 3.61
752 753 3.506455 ACCTACTGCTGCATATACCTACG 59.494 47.826 1.31 0.00 0.00 3.51
830 831 6.264744 AGAGACTAACCGCAGCTATATTGTTA 59.735 38.462 0.00 0.00 0.00 2.41
949 950 0.472471 GTGACCCTCCTTCAACCACA 59.528 55.000 0.00 0.00 0.00 4.17
954 955 1.518367 AACAGGTGACCCTCCTTCAA 58.482 50.000 0.00 0.00 39.89 2.69
965 966 7.335171 CAGATGATATGAAGTTCAAACAGGTGA 59.665 37.037 10.14 0.00 0.00 4.02
994 995 5.519206 GGACCAGATACGAACTCATTAACAC 59.481 44.000 0.00 0.00 0.00 3.32
998 999 3.317149 CCGGACCAGATACGAACTCATTA 59.683 47.826 0.00 0.00 36.36 1.90
1038 1039 3.587797 TGGGTTGTAGTCTCGAACATC 57.412 47.619 0.00 0.00 0.00 3.06
1094 1095 2.211806 GCTTTGCACATTGCCAGAAAA 58.788 42.857 0.00 0.00 44.23 2.29
1106 1107 2.127232 ATATGGGCGGGCTTTGCAC 61.127 57.895 0.26 0.00 35.91 4.57
1165 1166 1.881973 GACACACCAACATGTCAGCAT 59.118 47.619 0.00 0.00 43.89 3.79
1213 1216 3.039252 AGGTCAAGGCTAGAGCATACT 57.961 47.619 3.54 0.00 44.36 2.12
1241 1245 5.699458 ACTTGACAGAAAATATCGAAACGGT 59.301 36.000 0.00 0.00 0.00 4.83
1276 1280 9.783425 GCAGATTACGAAATTGAAAAAGAAAAG 57.217 29.630 0.00 0.00 0.00 2.27
1280 1284 8.914654 CAATGCAGATTACGAAATTGAAAAAGA 58.085 29.630 0.00 0.00 0.00 2.52
1330 1336 7.047891 CACACATGTACTGTTAGGATGGTATT 58.952 38.462 0.00 0.00 35.29 1.89
1386 1392 3.244700 ACCATGTAGCAGCTGAACTCTTT 60.245 43.478 20.43 0.00 0.00 2.52
1435 1445 8.618677 CATATGGCCAAGTATAATTGAGCTATG 58.381 37.037 22.72 18.16 33.26 2.23
1446 1456 2.027561 GCCCGACATATGGCCAAGTATA 60.028 50.000 10.96 0.00 41.97 1.47
1447 1457 1.271379 GCCCGACATATGGCCAAGTAT 60.271 52.381 10.96 0.00 41.97 2.12
1448 1458 0.107831 GCCCGACATATGGCCAAGTA 59.892 55.000 10.96 0.00 41.97 2.24
1449 1459 1.152963 GCCCGACATATGGCCAAGT 60.153 57.895 10.96 9.38 41.97 3.16
1450 1460 3.749981 GCCCGACATATGGCCAAG 58.250 61.111 10.96 5.45 41.97 3.61
1483 1493 2.755876 GGCTTTGGTAGGCCCAGC 60.756 66.667 0.00 0.00 46.31 4.85
1489 1499 1.838112 TTGCATCAGGCTTTGGTAGG 58.162 50.000 0.00 0.00 45.15 3.18
1490 1500 5.581126 TTTATTGCATCAGGCTTTGGTAG 57.419 39.130 0.00 0.00 45.15 3.18
1491 1501 5.991933 TTTTATTGCATCAGGCTTTGGTA 57.008 34.783 0.00 0.00 45.15 3.25
1492 1502 4.888326 TTTTATTGCATCAGGCTTTGGT 57.112 36.364 0.00 0.00 45.15 3.67
1493 1503 4.392754 GGTTTTTATTGCATCAGGCTTTGG 59.607 41.667 0.00 0.00 45.15 3.28
1494 1504 4.996122 TGGTTTTTATTGCATCAGGCTTTG 59.004 37.500 0.00 0.00 45.15 2.77
1495 1505 5.226194 TGGTTTTTATTGCATCAGGCTTT 57.774 34.783 0.00 0.00 45.15 3.51
1496 1506 4.322953 CCTGGTTTTTATTGCATCAGGCTT 60.323 41.667 0.00 0.00 45.15 4.35
1497 1507 3.196254 CCTGGTTTTTATTGCATCAGGCT 59.804 43.478 0.00 0.00 45.15 4.58
1498 1508 3.524541 CCTGGTTTTTATTGCATCAGGC 58.475 45.455 0.00 0.00 45.13 4.85
1499 1509 3.524541 GCCTGGTTTTTATTGCATCAGG 58.475 45.455 0.00 0.00 42.13 3.86
1500 1510 3.524541 GGCCTGGTTTTTATTGCATCAG 58.475 45.455 0.00 0.00 0.00 2.90
1501 1511 2.235898 GGGCCTGGTTTTTATTGCATCA 59.764 45.455 0.84 0.00 0.00 3.07
1502 1512 2.738321 CGGGCCTGGTTTTTATTGCATC 60.738 50.000 2.57 0.00 0.00 3.91
1503 1513 1.206849 CGGGCCTGGTTTTTATTGCAT 59.793 47.619 2.57 0.00 0.00 3.96
1504 1514 0.605589 CGGGCCTGGTTTTTATTGCA 59.394 50.000 2.57 0.00 0.00 4.08
1505 1515 0.892063 TCGGGCCTGGTTTTTATTGC 59.108 50.000 12.87 0.00 0.00 3.56
1506 1516 1.135112 GCTCGGGCCTGGTTTTTATTG 60.135 52.381 12.87 0.00 0.00 1.90
1507 1517 1.182667 GCTCGGGCCTGGTTTTTATT 58.817 50.000 12.87 0.00 0.00 1.40
1508 1518 2.882170 GCTCGGGCCTGGTTTTTAT 58.118 52.632 12.87 0.00 0.00 1.40
1509 1519 4.408378 GCTCGGGCCTGGTTTTTA 57.592 55.556 12.87 0.00 0.00 1.52
1525 1535 2.830186 TTTAGTGTGATGGGCCGGGC 62.830 60.000 22.00 22.00 0.00 6.13
1526 1536 0.322997 TTTTAGTGTGATGGGCCGGG 60.323 55.000 2.18 0.00 0.00 5.73
1527 1537 1.094785 CTTTTAGTGTGATGGGCCGG 58.905 55.000 0.00 0.00 0.00 6.13
1528 1538 0.451783 GCTTTTAGTGTGATGGGCCG 59.548 55.000 0.00 0.00 0.00 6.13
1529 1539 0.817654 GGCTTTTAGTGTGATGGGCC 59.182 55.000 0.00 0.00 0.00 5.80
1530 1540 1.474077 CAGGCTTTTAGTGTGATGGGC 59.526 52.381 0.00 0.00 0.00 5.36
1531 1541 2.749621 GACAGGCTTTTAGTGTGATGGG 59.250 50.000 0.00 0.00 0.00 4.00
1532 1542 2.416547 CGACAGGCTTTTAGTGTGATGG 59.583 50.000 0.00 0.00 0.00 3.51
1533 1543 2.416547 CCGACAGGCTTTTAGTGTGATG 59.583 50.000 0.00 0.00 0.00 3.07
1534 1544 2.615493 CCCGACAGGCTTTTAGTGTGAT 60.615 50.000 0.00 0.00 35.76 3.06
1535 1545 1.270625 CCCGACAGGCTTTTAGTGTGA 60.271 52.381 0.00 0.00 35.76 3.58
1536 1546 1.156736 CCCGACAGGCTTTTAGTGTG 58.843 55.000 0.00 0.00 35.76 3.82
1537 1547 3.625745 CCCGACAGGCTTTTAGTGT 57.374 52.632 0.00 0.00 35.76 3.55
1556 1566 0.459759 GTTAACGAAGAGGCCCGAGG 60.460 60.000 0.00 0.00 0.00 4.63
1557 1567 0.801067 CGTTAACGAAGAGGCCCGAG 60.801 60.000 23.35 0.00 43.02 4.63
1558 1568 1.213537 CGTTAACGAAGAGGCCCGA 59.786 57.895 23.35 0.00 43.02 5.14
1559 1569 2.450345 GCGTTAACGAAGAGGCCCG 61.450 63.158 31.03 0.00 43.02 6.13
1560 1570 2.450345 CGCGTTAACGAAGAGGCCC 61.450 63.158 31.03 9.81 43.02 5.80
1561 1571 3.078560 CGCGTTAACGAAGAGGCC 58.921 61.111 31.03 10.53 43.02 5.19
1562 1572 2.394524 GCGCGTTAACGAAGAGGC 59.605 61.111 31.03 19.32 43.02 4.70
1563 1573 1.339235 TTCGCGCGTTAACGAAGAGG 61.339 55.000 31.03 17.24 42.85 3.69
1564 1574 2.056388 TTCGCGCGTTAACGAAGAG 58.944 52.632 31.03 22.80 42.85 2.85
1565 1575 4.225157 TTCGCGCGTTAACGAAGA 57.775 50.000 31.03 21.18 42.85 2.87
1568 1578 0.520205 TCGTATTCGCGCGTTAACGA 60.520 50.000 33.90 33.90 38.09 3.85
1569 1579 0.378236 GTCGTATTCGCGCGTTAACG 60.378 55.000 31.58 31.58 38.54 3.18
1570 1580 0.378236 CGTCGTATTCGCGCGTTAAC 60.378 55.000 30.98 22.62 36.96 2.01
1571 1581 1.462871 CCGTCGTATTCGCGCGTTAA 61.463 55.000 30.98 18.53 36.14 2.01
1572 1582 1.933997 CCGTCGTATTCGCGCGTTA 60.934 57.895 30.98 19.42 36.14 3.18
1573 1583 3.242474 CCGTCGTATTCGCGCGTT 61.242 61.111 30.98 20.51 36.14 4.84
1579 1589 4.936823 CCGGCCCCGTCGTATTCG 62.937 72.222 5.93 0.00 37.81 3.34
1607 1617 2.498167 CCTAGATTTCAAGCCCGATGG 58.502 52.381 0.00 0.00 0.00 3.51
1608 1618 1.876156 GCCTAGATTTCAAGCCCGATG 59.124 52.381 0.00 0.00 0.00 3.84
1609 1619 1.202818 GGCCTAGATTTCAAGCCCGAT 60.203 52.381 0.00 0.00 37.66 4.18
1610 1620 0.180406 GGCCTAGATTTCAAGCCCGA 59.820 55.000 0.00 0.00 37.66 5.14
1611 1621 0.181350 AGGCCTAGATTTCAAGCCCG 59.819 55.000 1.29 0.00 45.00 6.13
1612 1622 1.212935 TCAGGCCTAGATTTCAAGCCC 59.787 52.381 3.98 0.00 45.00 5.19
1613 1623 2.570135 CTCAGGCCTAGATTTCAAGCC 58.430 52.381 3.98 0.00 44.20 4.35
1614 1624 1.946081 GCTCAGGCCTAGATTTCAAGC 59.054 52.381 3.98 0.81 0.00 4.01
1651 1661 4.754667 GACTTGACCCGGCCCGAC 62.755 72.222 3.71 0.00 0.00 4.79
1689 1699 1.152881 GCTTAGACCTGGCCATGGG 60.153 63.158 20.97 16.10 0.00 4.00
1690 1700 0.179034 GAGCTTAGACCTGGCCATGG 60.179 60.000 5.51 13.05 0.00 3.66
1691 1701 0.543277 TGAGCTTAGACCTGGCCATG 59.457 55.000 5.51 6.06 0.00 3.66
1692 1702 1.289160 TTGAGCTTAGACCTGGCCAT 58.711 50.000 5.51 0.00 0.00 4.40
1693 1703 1.065199 CATTGAGCTTAGACCTGGCCA 60.065 52.381 4.71 4.71 0.00 5.36
1694 1704 1.673168 CATTGAGCTTAGACCTGGCC 58.327 55.000 0.00 0.00 0.00 5.36
1695 1705 1.020437 GCATTGAGCTTAGACCTGGC 58.980 55.000 0.00 0.00 41.15 4.85
1696 1706 2.408271 TGCATTGAGCTTAGACCTGG 57.592 50.000 0.00 0.00 45.94 4.45
1697 1707 3.693085 ACATTGCATTGAGCTTAGACCTG 59.307 43.478 15.20 0.00 45.94 4.00
1698 1708 3.944015 GACATTGCATTGAGCTTAGACCT 59.056 43.478 15.20 0.00 45.94 3.85
1699 1709 3.691118 TGACATTGCATTGAGCTTAGACC 59.309 43.478 15.20 0.00 45.94 3.85
1700 1710 4.952262 TGACATTGCATTGAGCTTAGAC 57.048 40.909 15.20 0.00 45.94 2.59
1701 1711 5.065602 GTGATGACATTGCATTGAGCTTAGA 59.934 40.000 15.20 0.00 45.94 2.10
1702 1712 5.066117 AGTGATGACATTGCATTGAGCTTAG 59.934 40.000 15.20 0.00 45.94 2.18
1703 1713 4.945543 AGTGATGACATTGCATTGAGCTTA 59.054 37.500 15.20 0.00 45.94 3.09
1704 1714 3.762288 AGTGATGACATTGCATTGAGCTT 59.238 39.130 15.20 5.28 45.94 3.74
1762 1772 3.706594 TCATAACAAAAGGGGCAACAACA 59.293 39.130 0.00 0.00 39.74 3.33
1763 1773 4.329462 TCATAACAAAAGGGGCAACAAC 57.671 40.909 0.00 0.00 39.74 3.32
1764 1774 4.802248 GCATCATAACAAAAGGGGCAACAA 60.802 41.667 0.00 0.00 39.74 2.83
4067 4365 6.299805 TCTACTCAGCACAAGGAAATACAT 57.700 37.500 0.00 0.00 0.00 2.29
4138 4436 4.206375 TCATCAAAGAACTTCAAGCCACA 58.794 39.130 0.00 0.00 0.00 4.17
4147 4445 7.831193 ACATTGTAGCCTATCATCAAAGAACTT 59.169 33.333 0.00 0.00 0.00 2.66
4148 4446 7.341805 ACATTGTAGCCTATCATCAAAGAACT 58.658 34.615 0.00 0.00 0.00 3.01
4154 4454 5.985530 CGAGAACATTGTAGCCTATCATCAA 59.014 40.000 0.00 0.00 0.00 2.57
4163 4463 1.009829 CAGCCGAGAACATTGTAGCC 58.990 55.000 0.00 0.00 0.00 3.93
4164 4464 0.375106 GCAGCCGAGAACATTGTAGC 59.625 55.000 0.00 0.00 0.00 3.58
4172 4472 3.426568 GCCACAGCAGCCGAGAAC 61.427 66.667 0.00 0.00 39.53 3.01
4174 4474 4.074526 GAGCCACAGCAGCCGAGA 62.075 66.667 0.00 0.00 43.56 4.04
4450 4758 1.371183 CGCCCAACAGAGTTGAGGA 59.629 57.895 11.19 0.00 0.00 3.71
4670 4981 1.202154 CGGACTGGACACGTATGAGAC 60.202 57.143 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.