Multiple sequence alignment - TraesCS7A01G337700

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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 TraesCS7A01G337700 chr7A 100.000 2685 0 0 1 2685 493673514 493670830 0.000000e+00 4959.0
1 TraesCS7A01G337700 chr7A 89.748 1112 81 11 639 1743 493657222 493656137 0.000000e+00 1391.0
2 TraesCS7A01G337700 chr7A 84.398 1378 154 29 383 1747 493697594 493698923 0.000000e+00 1297.0
3 TraesCS7A01G337700 chr7A 85.965 1140 123 21 608 1742 493693285 493694392 0.000000e+00 1184.0
4 TraesCS7A01G337700 chr7A 89.674 184 11 3 379 555 493673963 493674145 7.480000e-56 228.0
5 TraesCS7A01G337700 chr7A 81.746 126 10 4 1866 1991 493642802 493642690 2.850000e-15 93.5
6 TraesCS7A01G337700 chr7A 100.000 46 0 0 2285 2330 493671184 493671139 4.760000e-13 86.1
7 TraesCS7A01G337700 chr7A 100.000 46 0 0 2331 2376 493671230 493671185 4.760000e-13 86.1
8 TraesCS7A01G337700 chr7B 96.690 1722 47 5 19 1732 460574565 460572846 0.000000e+00 2856.0
9 TraesCS7A01G337700 chr7B 95.666 1615 39 6 125 1732 460584954 460583364 0.000000e+00 2566.0
10 TraesCS7A01G337700 chr7B 90.668 1468 102 13 641 2101 460577761 460576322 0.000000e+00 1919.0
11 TraesCS7A01G337700 chr7B 89.575 1247 103 10 503 1743 460565635 460564410 0.000000e+00 1557.0
12 TraesCS7A01G337700 chr7B 88.889 549 53 4 1133 1677 460590312 460590856 0.000000e+00 669.0
13 TraesCS7A01G337700 chr7B 86.228 639 46 17 1716 2329 460583333 460582712 0.000000e+00 654.0
14 TraesCS7A01G337700 chr7B 80.791 885 110 29 281 1148 460589002 460589843 2.920000e-179 638.0
15 TraesCS7A01G337700 chr7B 87.730 489 28 4 1717 2201 460572797 460572337 2.350000e-150 542.0
16 TraesCS7A01G337700 chr7B 95.000 120 5 1 8 126 460585156 460585037 1.270000e-43 187.0
17 TraesCS7A01G337700 chr7B 82.540 126 9 5 1866 1991 460562739 460562627 6.120000e-17 99.0
18 TraesCS7A01G337700 chr7D 85.372 752 84 10 618 1368 443127851 443128577 0.000000e+00 756.0
19 TraesCS7A01G337700 chr7D 86.375 389 42 8 1365 1747 443139392 443139775 5.350000e-112 414.0
20 TraesCS7A01G337700 chr3B 81.961 255 36 6 2433 2685 646023891 646023645 9.740000e-50 207.0
21 TraesCS7A01G337700 chr1D 87.027 185 16 3 90 270 464871327 464871507 4.530000e-48 202.0
22 TraesCS7A01G337700 chr1D 78.656 253 42 8 2433 2684 203573773 203573532 9.950000e-35 158.0
23 TraesCS7A01G337700 chr1D 80.645 155 21 6 1602 1756 464872096 464872241 7.860000e-21 111.0
24 TraesCS7A01G337700 chr5D 79.688 256 40 7 2433 2685 384881952 384882198 9.880000e-40 174.0
25 TraesCS7A01G337700 chr5D 78.261 230 41 8 2376 2601 434035680 434035904 3.600000e-29 139.0
26 TraesCS7A01G337700 chr5D 88.312 77 9 0 335 411 97281700 97281776 2.850000e-15 93.5
27 TraesCS7A01G337700 chr2D 76.923 312 56 9 2376 2685 543527540 543527243 2.140000e-36 163.0
28 TraesCS7A01G337700 chr2D 100.000 30 0 0 2372 2401 534057157 534057186 3.730000e-04 56.5
29 TraesCS7A01G337700 chr4A 78.049 246 45 5 2441 2685 629294682 629294919 2.150000e-31 147.0
30 TraesCS7A01G337700 chr4A 78.322 143 30 1 2445 2586 438310407 438310549 1.020000e-14 91.6
31 TraesCS7A01G337700 chr2B 78.924 223 35 7 2467 2685 576691047 576690833 1.000000e-29 141.0
32 TraesCS7A01G337700 chr1A 79.429 175 29 6 2433 2603 127055465 127055636 1.690000e-22 117.0
33 TraesCS7A01G337700 chr5B 82.576 132 20 3 2450 2579 214143224 214143354 2.180000e-21 113.0
34 TraesCS7A01G337700 chr5B 89.610 77 8 0 335 411 105764823 105764899 6.120000e-17 99.0
35 TraesCS7A01G337700 chr5B 91.304 69 6 0 343 411 103483885 103483953 7.910000e-16 95.3


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 TraesCS7A01G337700 chr7A 493670830 493673514 2684 True 1710.400000 4959 100.0000 1 2685 3 chr7A.!!$R3 2684
1 TraesCS7A01G337700 chr7A 493656137 493657222 1085 True 1391.000000 1391 89.7480 639 1743 1 chr7A.!!$R2 1104
2 TraesCS7A01G337700 chr7A 493693285 493698923 5638 False 1240.500000 1297 85.1815 383 1747 2 chr7A.!!$F2 1364
3 TraesCS7A01G337700 chr7B 460572337 460577761 5424 True 1772.333333 2856 91.6960 19 2201 3 chr7B.!!$R2 2182
4 TraesCS7A01G337700 chr7B 460582712 460585156 2444 True 1135.666667 2566 92.2980 8 2329 3 chr7B.!!$R3 2321
5 TraesCS7A01G337700 chr7B 460562627 460565635 3008 True 828.000000 1557 86.0575 503 1991 2 chr7B.!!$R1 1488
6 TraesCS7A01G337700 chr7B 460589002 460590856 1854 False 653.500000 669 84.8400 281 1677 2 chr7B.!!$F1 1396
7 TraesCS7A01G337700 chr7D 443127851 443128577 726 False 756.000000 756 85.3720 618 1368 1 chr7D.!!$F1 750

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
61 3241 3.018149 GGTACTTGTTGGGTGTGTTTGA 58.982 45.455 0.00 0.0 0.00 2.69 F
1272 5039 2.349886 GACGAGCTTGTCCATCAATGTC 59.650 50.000 21.79 0.0 35.35 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1360 9650 0.454600 GACCTCGGCGAAGTACATCA 59.545 55.0 11.68 0.0 0.0 3.07 R
2457 12408 0.102481 ACGGACCGATACATGACTGC 59.898 55.0 23.38 0.0 0.0 4.40 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
25 3204 4.100653 GGGTAGAGTACTTGTTATGACCCC 59.899 50.000 0.00 0.00 38.45 4.95
61 3241 3.018149 GGTACTTGTTGGGTGTGTTTGA 58.982 45.455 0.00 0.00 0.00 2.69
130 3394 8.427276 TGGCATGTATCCATATCTGATAGATTC 58.573 37.037 3.48 1.29 36.20 2.52
261 3525 4.882671 TCAAACAACTTCTTCTCAGCAC 57.117 40.909 0.00 0.00 0.00 4.40
414 3680 3.187227 ACATGCTGAAACAGTCGATTCAC 59.813 43.478 0.00 0.00 31.37 3.18
778 4061 5.247337 TCTTGTCCCATGTTGTATCACTACA 59.753 40.000 0.00 0.00 38.14 2.74
779 4062 4.827692 TGTCCCATGTTGTATCACTACAC 58.172 43.478 0.00 0.00 36.73 2.90
861 4144 7.914427 TCTTATATTTCTGTCTAGGCAGGAA 57.086 36.000 20.26 20.26 38.25 3.36
930 4213 4.517952 TGAGAGAAGACAAGCTGAAGAG 57.482 45.455 0.00 0.00 0.00 2.85
1272 5039 2.349886 GACGAGCTTGTCCATCAATGTC 59.650 50.000 21.79 0.00 35.35 3.06
1336 9626 8.778358 CAACTTTACTGTCAAGATAAAGAAGCT 58.222 33.333 8.62 0.00 37.89 3.74
1360 9650 0.904649 TCAGCTGATTGGATGTCGGT 59.095 50.000 13.74 0.00 0.00 4.69
1423 9713 4.141390 ACTCTATGCCTGTTATCCTTTGGG 60.141 45.833 0.00 0.00 0.00 4.12
1511 9803 5.772672 ACATTGTGATTTACTTTGGCAGGTA 59.227 36.000 0.00 0.00 0.00 3.08
1784 10421 9.289782 AGTTGATTTATGAATGTATTCCTAGCC 57.710 33.333 2.41 0.00 35.97 3.93
1804 10441 2.158711 CCCCAGCAGCATCTGAAGAATA 60.159 50.000 6.78 0.00 36.19 1.75
1878 11801 6.932400 TGGTTCTAATGTCACACTCGTATTTT 59.068 34.615 0.00 0.00 0.00 1.82
2059 11986 1.743252 GCACCACCTGCAGCTAGAC 60.743 63.158 8.66 0.00 46.29 2.59
2060 11987 1.673477 CACCACCTGCAGCTAGACA 59.327 57.895 8.66 0.00 0.00 3.41
2098 12049 5.990408 ACTTGACAAGATTTAAACGAGCAG 58.010 37.500 21.95 0.00 0.00 4.24
2111 12062 3.502191 ACGAGCAGAGAAGTCAATCTC 57.498 47.619 0.00 0.00 45.06 2.75
2116 12067 2.419851 GCAGAGAAGTCAATCTCCCTGG 60.420 54.545 0.90 0.00 45.70 4.45
2119 12070 0.620556 GAAGTCAATCTCCCTGGCCA 59.379 55.000 4.71 4.71 0.00 5.36
2127 12078 2.196742 TCTCCCTGGCCAGTCATATT 57.803 50.000 30.63 0.00 0.00 1.28
2134 12085 3.495806 CCTGGCCAGTCATATTCTTCTCC 60.496 52.174 30.63 0.00 0.00 3.71
2136 12087 2.103263 GGCCAGTCATATTCTTCTCCGT 59.897 50.000 0.00 0.00 0.00 4.69
2167 12118 3.957497 CTGCACCAGAGTAGTAGAATCCT 59.043 47.826 0.00 0.00 32.44 3.24
2186 12137 3.648067 TCCTATTCTACCATTGCAGAGGG 59.352 47.826 10.77 5.30 34.64 4.30
2204 12155 2.431942 CGTTCCGCGCCTGTAGTT 60.432 61.111 0.00 0.00 0.00 2.24
2206 12157 0.526954 CGTTCCGCGCCTGTAGTTAT 60.527 55.000 0.00 0.00 0.00 1.89
2207 12158 1.648504 GTTCCGCGCCTGTAGTTATT 58.351 50.000 0.00 0.00 0.00 1.40
2210 12161 2.813061 TCCGCGCCTGTAGTTATTTAC 58.187 47.619 0.00 0.00 0.00 2.01
2211 12162 1.519758 CCGCGCCTGTAGTTATTTACG 59.480 52.381 0.00 0.00 0.00 3.18
2247 12198 3.572584 CTGGAGATTGAGTTTTGCTTGC 58.427 45.455 0.00 0.00 0.00 4.01
2248 12199 2.297033 TGGAGATTGAGTTTTGCTTGCC 59.703 45.455 0.00 0.00 0.00 4.52
2258 12209 5.068987 TGAGTTTTGCTTGCCTTTGTTAGAT 59.931 36.000 0.00 0.00 0.00 1.98
2259 12210 6.264292 TGAGTTTTGCTTGCCTTTGTTAGATA 59.736 34.615 0.00 0.00 0.00 1.98
2263 12214 4.905429 TGCTTGCCTTTGTTAGATACTGA 58.095 39.130 0.00 0.00 0.00 3.41
2264 12215 5.312895 TGCTTGCCTTTGTTAGATACTGAA 58.687 37.500 0.00 0.00 0.00 3.02
2265 12216 5.945784 TGCTTGCCTTTGTTAGATACTGAAT 59.054 36.000 0.00 0.00 0.00 2.57
2266 12217 6.127925 TGCTTGCCTTTGTTAGATACTGAATG 60.128 38.462 0.00 0.00 0.00 2.67
2267 12218 6.127897 GCTTGCCTTTGTTAGATACTGAATGT 60.128 38.462 0.00 0.00 0.00 2.71
2268 12219 7.065803 GCTTGCCTTTGTTAGATACTGAATGTA 59.934 37.037 0.00 0.00 35.37 2.29
2269 12220 8.856153 TTGCCTTTGTTAGATACTGAATGTAA 57.144 30.769 0.00 0.00 34.45 2.41
2270 12221 9.461312 TTGCCTTTGTTAGATACTGAATGTAAT 57.539 29.630 0.00 0.00 34.45 1.89
2271 12222 9.461312 TGCCTTTGTTAGATACTGAATGTAATT 57.539 29.630 0.00 0.00 40.93 1.40
2311 12262 9.757227 ATGTCTTTTATCGTTGGAAATTTTGAA 57.243 25.926 0.00 0.00 0.00 2.69
2312 12263 9.757227 TGTCTTTTATCGTTGGAAATTTTGAAT 57.243 25.926 0.00 0.00 0.00 2.57
2345 12296 9.326413 CCAGAACCTTATATGTCTTTTATCGTT 57.674 33.333 0.00 0.00 0.00 3.85
2378 12329 9.640952 TTTGAATATAAATCCAGAACCTTAGGG 57.359 33.333 2.32 0.00 38.88 3.53
2379 12330 7.231467 TGAATATAAATCCAGAACCTTAGGGC 58.769 38.462 2.32 0.00 35.63 5.19
2380 12331 6.780198 ATATAAATCCAGAACCTTAGGGCA 57.220 37.500 2.32 0.00 35.63 5.36
2381 12332 5.669798 ATAAATCCAGAACCTTAGGGCAT 57.330 39.130 2.32 0.00 35.63 4.40
2382 12333 3.584733 AATCCAGAACCTTAGGGCATC 57.415 47.619 2.32 0.00 35.63 3.91
2383 12334 2.270434 TCCAGAACCTTAGGGCATCT 57.730 50.000 2.32 0.26 33.91 2.90
2384 12335 2.119495 TCCAGAACCTTAGGGCATCTC 58.881 52.381 2.32 0.00 32.08 2.75
2385 12336 1.141858 CCAGAACCTTAGGGCATCTCC 59.858 57.143 2.32 0.00 32.08 3.71
2386 12337 1.839994 CAGAACCTTAGGGCATCTCCA 59.160 52.381 2.32 0.00 36.21 3.86
2387 12338 2.239654 CAGAACCTTAGGGCATCTCCAA 59.760 50.000 2.32 0.00 36.21 3.53
2388 12339 2.239907 AGAACCTTAGGGCATCTCCAAC 59.760 50.000 2.32 0.00 36.21 3.77
2389 12340 0.541863 ACCTTAGGGCATCTCCAACG 59.458 55.000 2.32 0.00 36.21 4.10
2390 12341 0.815615 CCTTAGGGCATCTCCAACGC 60.816 60.000 0.00 0.00 36.21 4.84
2391 12342 1.153449 TTAGGGCATCTCCAACGCG 60.153 57.895 3.53 3.53 36.21 6.01
2392 12343 1.609635 TTAGGGCATCTCCAACGCGA 61.610 55.000 15.93 0.00 36.21 5.87
2393 12344 2.292794 TAGGGCATCTCCAACGCGAC 62.293 60.000 15.93 0.00 36.21 5.19
2394 12345 3.195698 GGCATCTCCAACGCGACC 61.196 66.667 15.93 0.00 34.01 4.79
2395 12346 3.195698 GCATCTCCAACGCGACCC 61.196 66.667 15.93 0.00 0.00 4.46
2396 12347 2.885644 CATCTCCAACGCGACCCG 60.886 66.667 15.93 0.00 44.21 5.28
2407 12358 2.742372 CGACCCGCAAACCTCCTG 60.742 66.667 0.00 0.00 0.00 3.86
2408 12359 3.056328 GACCCGCAAACCTCCTGC 61.056 66.667 0.00 0.00 36.41 4.85
2409 12360 3.842925 GACCCGCAAACCTCCTGCA 62.843 63.158 0.00 0.00 39.91 4.41
2410 12361 2.597217 CCCGCAAACCTCCTGCAA 60.597 61.111 0.00 0.00 39.91 4.08
2411 12362 2.644992 CCGCAAACCTCCTGCAAC 59.355 61.111 0.00 0.00 39.91 4.17
2412 12363 2.644992 CGCAAACCTCCTGCAACC 59.355 61.111 0.00 0.00 39.91 3.77
2413 12364 2.192861 CGCAAACCTCCTGCAACCA 61.193 57.895 0.00 0.00 39.91 3.67
2414 12365 1.526575 CGCAAACCTCCTGCAACCAT 61.527 55.000 0.00 0.00 39.91 3.55
2415 12366 0.244721 GCAAACCTCCTGCAACCATC 59.755 55.000 0.00 0.00 39.69 3.51
2416 12367 0.890683 CAAACCTCCTGCAACCATCC 59.109 55.000 0.00 0.00 0.00 3.51
2417 12368 0.609131 AAACCTCCTGCAACCATCCG 60.609 55.000 0.00 0.00 0.00 4.18
2418 12369 2.124570 CCTCCTGCAACCATCCGG 60.125 66.667 0.00 0.00 38.77 5.14
2419 12370 2.669133 CCTCCTGCAACCATCCGGA 61.669 63.158 6.61 6.61 35.59 5.14
2420 12371 1.450312 CTCCTGCAACCATCCGGAC 60.450 63.158 6.12 0.00 35.59 4.79
2421 12372 2.438434 CCTGCAACCATCCGGACC 60.438 66.667 6.12 0.00 35.59 4.46
2422 12373 2.350895 CTGCAACCATCCGGACCA 59.649 61.111 6.12 0.00 35.59 4.02
2423 12374 2.033448 TGCAACCATCCGGACCAC 59.967 61.111 6.12 0.00 35.59 4.16
2424 12375 3.124921 GCAACCATCCGGACCACG 61.125 66.667 6.12 0.00 43.80 4.94
2425 12376 3.124921 CAACCATCCGGACCACGC 61.125 66.667 6.12 0.00 42.52 5.34
2426 12377 4.404098 AACCATCCGGACCACGCC 62.404 66.667 6.12 0.00 42.52 5.68
2446 12397 3.998672 GTGGTCCGGACTGCGGAA 61.999 66.667 32.52 10.09 37.27 4.30
2447 12398 3.691342 TGGTCCGGACTGCGGAAG 61.691 66.667 32.52 0.00 37.27 3.46
2466 12417 3.583054 CCATCCAAGGCAGTCATGT 57.417 52.632 0.00 0.00 0.00 3.21
2467 12418 2.715749 CCATCCAAGGCAGTCATGTA 57.284 50.000 0.00 0.00 0.00 2.29
2468 12419 3.219176 CCATCCAAGGCAGTCATGTAT 57.781 47.619 0.00 0.00 0.00 2.29
2469 12420 3.144506 CCATCCAAGGCAGTCATGTATC 58.855 50.000 0.00 0.00 0.00 2.24
2470 12421 2.602257 TCCAAGGCAGTCATGTATCG 57.398 50.000 0.00 0.00 0.00 2.92
2471 12422 1.138859 TCCAAGGCAGTCATGTATCGG 59.861 52.381 0.00 0.00 0.00 4.18
2472 12423 1.134401 CCAAGGCAGTCATGTATCGGT 60.134 52.381 0.00 0.00 0.00 4.69
2473 12424 2.205074 CAAGGCAGTCATGTATCGGTC 58.795 52.381 0.00 0.00 0.00 4.79
2474 12425 0.753262 AGGCAGTCATGTATCGGTCC 59.247 55.000 0.00 0.00 0.00 4.46
2475 12426 0.597637 GGCAGTCATGTATCGGTCCG 60.598 60.000 4.39 4.39 0.00 4.79
2476 12427 0.102481 GCAGTCATGTATCGGTCCGT 59.898 55.000 11.88 1.23 0.00 4.69
2477 12428 1.840181 CAGTCATGTATCGGTCCGTG 58.160 55.000 11.88 1.45 0.00 4.94
2478 12429 1.404035 CAGTCATGTATCGGTCCGTGA 59.596 52.381 11.88 4.17 0.00 4.35
2479 12430 1.404391 AGTCATGTATCGGTCCGTGAC 59.596 52.381 19.19 19.19 44.32 3.67
2480 12431 0.379316 TCATGTATCGGTCCGTGACG 59.621 55.000 11.88 0.00 32.65 4.35
2481 12432 1.065273 ATGTATCGGTCCGTGACGC 59.935 57.895 11.88 0.00 32.65 5.19
2482 12433 2.649975 GTATCGGTCCGTGACGCG 60.650 66.667 11.88 3.53 40.95 6.01
2491 12442 3.541831 CGTGACGCGGTTCGGATG 61.542 66.667 12.47 0.00 43.86 3.51
2492 12443 3.849953 GTGACGCGGTTCGGATGC 61.850 66.667 12.47 0.00 43.86 3.91
2497 12448 3.098555 GCGGTTCGGATGCGATTT 58.901 55.556 11.02 0.00 0.00 2.17
2498 12449 1.011131 GCGGTTCGGATGCGATTTC 60.011 57.895 11.02 4.35 0.00 2.17
2499 12450 1.429148 GCGGTTCGGATGCGATTTCT 61.429 55.000 11.02 0.00 0.00 2.52
2500 12451 1.006832 CGGTTCGGATGCGATTTCTT 58.993 50.000 11.02 0.00 0.00 2.52
2501 12452 1.004927 CGGTTCGGATGCGATTTCTTC 60.005 52.381 11.02 0.00 0.00 2.87
2502 12453 1.330829 GGTTCGGATGCGATTTCTTCC 59.669 52.381 11.02 3.25 0.00 3.46
2503 12454 2.006888 GTTCGGATGCGATTTCTTCCA 58.993 47.619 11.02 0.00 32.34 3.53
2504 12455 1.651987 TCGGATGCGATTTCTTCCAC 58.348 50.000 4.75 0.00 32.34 4.02
2505 12456 1.066502 TCGGATGCGATTTCTTCCACA 60.067 47.619 4.75 0.00 32.34 4.17
2506 12457 1.737236 CGGATGCGATTTCTTCCACAA 59.263 47.619 0.00 0.00 32.34 3.33
2507 12458 2.161410 CGGATGCGATTTCTTCCACAAA 59.839 45.455 0.00 0.00 32.34 2.83
2508 12459 3.181497 CGGATGCGATTTCTTCCACAAAT 60.181 43.478 0.00 0.00 32.34 2.32
2509 12460 4.354587 GGATGCGATTTCTTCCACAAATC 58.645 43.478 0.00 0.00 37.04 2.17
2517 12468 7.692908 GATTTCTTCCACAAATCGAAAACAA 57.307 32.000 0.00 0.00 32.11 2.83
2518 12469 8.125728 GATTTCTTCCACAAATCGAAAACAAA 57.874 30.769 0.00 0.00 32.11 2.83
2519 12470 7.891183 TTTCTTCCACAAATCGAAAACAAAA 57.109 28.000 0.00 0.00 0.00 2.44
2520 12471 7.891183 TTCTTCCACAAATCGAAAACAAAAA 57.109 28.000 0.00 0.00 0.00 1.94
2521 12472 8.485976 TTCTTCCACAAATCGAAAACAAAAAT 57.514 26.923 0.00 0.00 0.00 1.82
2522 12473 7.904094 TCTTCCACAAATCGAAAACAAAAATG 58.096 30.769 0.00 0.00 0.00 2.32
2523 12474 6.595772 TCCACAAATCGAAAACAAAAATGG 57.404 33.333 0.00 0.00 0.00 3.16
2524 12475 5.525378 TCCACAAATCGAAAACAAAAATGGG 59.475 36.000 0.00 0.00 0.00 4.00
2525 12476 5.277731 CCACAAATCGAAAACAAAAATGGGG 60.278 40.000 0.00 0.00 0.00 4.96
2526 12477 5.525378 CACAAATCGAAAACAAAAATGGGGA 59.475 36.000 0.00 0.00 0.00 4.81
2527 12478 6.037610 CACAAATCGAAAACAAAAATGGGGAA 59.962 34.615 0.00 0.00 0.00 3.97
2528 12479 6.259829 ACAAATCGAAAACAAAAATGGGGAAG 59.740 34.615 0.00 0.00 0.00 3.46
2529 12480 4.329462 TCGAAAACAAAAATGGGGAAGG 57.671 40.909 0.00 0.00 0.00 3.46
2530 12481 3.707102 TCGAAAACAAAAATGGGGAAGGT 59.293 39.130 0.00 0.00 0.00 3.50
2531 12482 4.162509 TCGAAAACAAAAATGGGGAAGGTT 59.837 37.500 0.00 0.00 0.00 3.50
2532 12483 4.878971 CGAAAACAAAAATGGGGAAGGTTT 59.121 37.500 0.00 0.00 0.00 3.27
2533 12484 5.220758 CGAAAACAAAAATGGGGAAGGTTTG 60.221 40.000 0.00 0.00 35.72 2.93
2534 12485 3.207265 ACAAAAATGGGGAAGGTTTGC 57.793 42.857 0.00 0.00 33.46 3.68
2535 12486 2.142319 CAAAAATGGGGAAGGTTTGCG 58.858 47.619 0.00 0.00 0.00 4.85
2536 12487 0.684535 AAAATGGGGAAGGTTTGCGG 59.315 50.000 0.00 0.00 0.00 5.69
2537 12488 1.191489 AAATGGGGAAGGTTTGCGGG 61.191 55.000 0.00 0.00 0.00 6.13
2538 12489 2.380571 AATGGGGAAGGTTTGCGGGT 62.381 55.000 0.00 0.00 0.00 5.28
2539 12490 2.989253 GGGGAAGGTTTGCGGGTG 60.989 66.667 0.00 0.00 0.00 4.61
2540 12491 2.203437 GGGAAGGTTTGCGGGTGT 60.203 61.111 0.00 0.00 0.00 4.16
2541 12492 2.561037 GGGAAGGTTTGCGGGTGTG 61.561 63.158 0.00 0.00 0.00 3.82
2542 12493 2.335011 GAAGGTTTGCGGGTGTGC 59.665 61.111 0.00 0.00 0.00 4.57
2543 12494 3.536498 GAAGGTTTGCGGGTGTGCG 62.536 63.158 0.00 0.00 37.81 5.34
2546 12497 4.322385 GTTTGCGGGTGTGCGGAC 62.322 66.667 0.00 0.00 37.81 4.79
2553 12504 4.028490 GGTGTGCGGACCCATCCA 62.028 66.667 4.04 0.00 46.67 3.41
2554 12505 2.033448 GTGTGCGGACCCATCCAA 59.967 61.111 4.04 0.00 46.67 3.53
2555 12506 2.040544 GTGTGCGGACCCATCCAAG 61.041 63.158 4.04 0.00 46.67 3.61
2556 12507 3.134127 GTGCGGACCCATCCAAGC 61.134 66.667 0.00 0.00 46.67 4.01
2557 12508 4.424711 TGCGGACCCATCCAAGCC 62.425 66.667 0.00 0.00 46.67 4.35
2559 12510 4.856801 CGGACCCATCCAAGCCCG 62.857 72.222 0.00 0.00 46.67 6.13
2561 12512 4.115199 GACCCATCCAAGCCCGCT 62.115 66.667 0.00 0.00 0.00 5.52
2562 12513 3.645268 GACCCATCCAAGCCCGCTT 62.645 63.158 0.00 0.00 36.60 4.68
2563 12514 2.830370 CCCATCCAAGCCCGCTTC 60.830 66.667 0.00 0.00 33.42 3.86
2564 12515 2.273449 CCATCCAAGCCCGCTTCT 59.727 61.111 0.00 0.00 33.42 2.85
2565 12516 2.117156 CCATCCAAGCCCGCTTCTG 61.117 63.158 0.00 0.00 33.42 3.02
2566 12517 1.078214 CATCCAAGCCCGCTTCTGA 60.078 57.895 0.00 0.00 33.42 3.27
2567 12518 1.078143 ATCCAAGCCCGCTTCTGAC 60.078 57.895 0.00 0.00 33.42 3.51
2568 12519 1.557269 ATCCAAGCCCGCTTCTGACT 61.557 55.000 0.00 0.00 33.42 3.41
2569 12520 2.037136 CCAAGCCCGCTTCTGACTG 61.037 63.158 0.00 0.00 33.42 3.51
2570 12521 2.359230 AAGCCCGCTTCTGACTGC 60.359 61.111 0.00 0.00 0.00 4.40
2571 12522 3.909086 AAGCCCGCTTCTGACTGCC 62.909 63.158 0.00 0.00 0.00 4.85
2573 12524 3.710722 CCCGCTTCTGACTGCCCT 61.711 66.667 0.00 0.00 0.00 5.19
2574 12525 2.435586 CCGCTTCTGACTGCCCTG 60.436 66.667 0.00 0.00 0.00 4.45
2575 12526 2.435586 CGCTTCTGACTGCCCTGG 60.436 66.667 0.00 0.00 0.00 4.45
2576 12527 2.749441 GCTTCTGACTGCCCTGGC 60.749 66.667 0.00 0.00 42.35 4.85
2577 12528 2.045536 CTTCTGACTGCCCTGGCC 60.046 66.667 5.57 0.00 41.09 5.36
2578 12529 3.635268 CTTCTGACTGCCCTGGCCC 62.635 68.421 5.57 0.00 41.09 5.80
2579 12530 4.980592 TCTGACTGCCCTGGCCCA 62.981 66.667 5.57 0.58 41.09 5.36
2580 12531 4.729918 CTGACTGCCCTGGCCCAC 62.730 72.222 5.57 0.00 41.09 4.61
2590 12541 2.368594 TGGCCCACCAAAACCCAA 59.631 55.556 0.00 0.00 45.37 4.12
2591 12542 1.306997 TGGCCCACCAAAACCCAAA 60.307 52.632 0.00 0.00 45.37 3.28
2592 12543 1.147376 GGCCCACCAAAACCCAAAC 59.853 57.895 0.00 0.00 35.26 2.93
2593 12544 1.147376 GCCCACCAAAACCCAAACC 59.853 57.895 0.00 0.00 0.00 3.27
2594 12545 1.833606 CCCACCAAAACCCAAACCC 59.166 57.895 0.00 0.00 0.00 4.11
2595 12546 1.701031 CCCACCAAAACCCAAACCCC 61.701 60.000 0.00 0.00 0.00 4.95
2596 12547 1.701031 CCACCAAAACCCAAACCCCC 61.701 60.000 0.00 0.00 0.00 5.40
2597 12548 0.692756 CACCAAAACCCAAACCCCCT 60.693 55.000 0.00 0.00 0.00 4.79
2598 12549 0.399376 ACCAAAACCCAAACCCCCTC 60.399 55.000 0.00 0.00 0.00 4.30
2599 12550 1.125093 CCAAAACCCAAACCCCCTCC 61.125 60.000 0.00 0.00 0.00 4.30
2600 12551 1.125093 CAAAACCCAAACCCCCTCCC 61.125 60.000 0.00 0.00 0.00 4.30
2601 12552 2.335134 AAAACCCAAACCCCCTCCCC 62.335 60.000 0.00 0.00 0.00 4.81
2604 12555 3.347590 CCAAACCCCCTCCCCCTC 61.348 72.222 0.00 0.00 0.00 4.30
2605 12556 3.347590 CAAACCCCCTCCCCCTCC 61.348 72.222 0.00 0.00 0.00 4.30
2606 12557 3.563377 AAACCCCCTCCCCCTCCT 61.563 66.667 0.00 0.00 0.00 3.69
2607 12558 3.598173 AAACCCCCTCCCCCTCCTC 62.598 68.421 0.00 0.00 0.00 3.71
2615 12566 4.016706 CCCCCTCCTCGTGCGTTT 62.017 66.667 0.00 0.00 0.00 3.60
2616 12567 2.032071 CCCCTCCTCGTGCGTTTT 59.968 61.111 0.00 0.00 0.00 2.43
2617 12568 2.033194 CCCCTCCTCGTGCGTTTTC 61.033 63.158 0.00 0.00 0.00 2.29
2619 12570 2.380410 CCTCCTCGTGCGTTTTCGG 61.380 63.158 0.00 0.00 44.29 4.30
2620 12571 1.663702 CTCCTCGTGCGTTTTCGGT 60.664 57.895 0.00 0.00 44.29 4.69
2621 12572 1.615107 CTCCTCGTGCGTTTTCGGTC 61.615 60.000 0.00 0.00 44.29 4.79
2622 12573 1.952133 CCTCGTGCGTTTTCGGTCA 60.952 57.895 0.00 0.00 44.29 4.02
2623 12574 1.200839 CTCGTGCGTTTTCGGTCAC 59.799 57.895 0.00 0.00 44.29 3.67
2624 12575 2.154427 CTCGTGCGTTTTCGGTCACC 62.154 60.000 0.00 0.00 44.29 4.02
2634 12585 4.554363 CGGTCACCGCCGCTCTAG 62.554 72.222 1.50 0.00 45.47 2.43
2635 12586 3.138798 GGTCACCGCCGCTCTAGA 61.139 66.667 0.00 0.00 0.00 2.43
2636 12587 2.409651 GTCACCGCCGCTCTAGAG 59.590 66.667 15.85 15.85 0.00 2.43
2655 12606 4.166011 GTCAGCGCCCGCATTCAC 62.166 66.667 15.50 1.96 44.88 3.18
2664 12615 2.582226 CGCATTCACGCTCGGCTA 60.582 61.111 0.00 0.00 0.00 3.93
2665 12616 2.580470 CGCATTCACGCTCGGCTAG 61.580 63.158 0.00 0.00 0.00 3.42
2666 12617 1.226974 GCATTCACGCTCGGCTAGA 60.227 57.895 0.00 0.00 0.00 2.43
2674 12625 4.615834 CTCGGCTAGAGCGGACGC 62.616 72.222 8.91 8.91 43.87 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.365895 GGGTCATAACAAGTACTCTACCCAT 59.634 44.000 14.45 0.00 42.94 4.00
2 3 4.100653 GGGGTCATAACAAGTACTCTACCC 59.899 50.000 0.00 5.85 42.74 3.69
3 4 4.961099 AGGGGTCATAACAAGTACTCTACC 59.039 45.833 0.00 0.00 0.00 3.18
4 5 7.255871 CCATAGGGGTCATAACAAGTACTCTAC 60.256 44.444 0.00 0.00 0.00 2.59
5 6 6.781014 CCATAGGGGTCATAACAAGTACTCTA 59.219 42.308 0.00 0.00 0.00 2.43
38 3217 2.341846 ACACACCCAACAAGTACCAG 57.658 50.000 0.00 0.00 0.00 4.00
61 3241 4.413520 ACCATGCTAGGGTGAGATTGTTAT 59.586 41.667 0.00 0.00 37.23 1.89
130 3394 1.900486 ACCTCAAGGAGAAGGTAACCG 59.100 52.381 2.30 0.00 38.94 4.44
208 3472 6.912591 CGAATTATCCACAAATTCTTGCTACC 59.087 38.462 6.90 0.00 39.92 3.18
261 3525 1.229428 ATGCACGAGGAAAGTGTGTG 58.771 50.000 0.00 0.00 41.36 3.82
309 3574 9.399403 CTAAATTTGAAGCTTGAAAGTCCTAAC 57.601 33.333 16.18 0.00 0.00 2.34
468 3735 7.542025 AGCTCCATTTAAAGCTATTTGTTGAG 58.458 34.615 0.00 0.00 46.73 3.02
823 4106 7.173907 CAGAAATATAAGAATCCGGTCAGCAAT 59.826 37.037 0.00 0.00 0.00 3.56
906 4189 6.596309 TCTTCAGCTTGTCTTCTCTCAATA 57.404 37.500 0.00 0.00 0.00 1.90
907 4190 5.480642 TCTTCAGCTTGTCTTCTCTCAAT 57.519 39.130 0.00 0.00 0.00 2.57
930 4213 1.988467 GCTTGGAAAAATTGAGCTCGC 59.012 47.619 9.64 0.00 0.00 5.03
1336 9626 1.005097 ACATCCAATCAGCTGAGCCAA 59.995 47.619 22.96 8.26 0.00 4.52
1360 9650 0.454600 GACCTCGGCGAAGTACATCA 59.545 55.000 11.68 0.00 0.00 3.07
1423 9713 6.491403 AGTTTCCATACCATATTGATCTTGCC 59.509 38.462 0.00 0.00 0.00 4.52
1511 9803 2.752903 GGTTCTCACGGGCATAACATTT 59.247 45.455 0.00 0.00 0.00 2.32
1523 9815 1.271379 ACCCATTCCTTGGTTCTCACG 60.271 52.381 0.00 0.00 44.83 4.35
1768 10191 2.106511 GCTGGGGCTAGGAATACATTCA 59.893 50.000 4.45 0.00 35.62 2.57
1784 10421 2.054232 ATTCTTCAGATGCTGCTGGG 57.946 50.000 0.00 1.87 36.55 4.45
1804 10441 1.617018 TTGCTGCCCTGCTACTCGAT 61.617 55.000 0.00 0.00 0.00 3.59
1878 11801 3.994392 GAGTAAACCAGTCGCATCAAAGA 59.006 43.478 0.00 0.00 0.00 2.52
2055 11982 6.040504 TCAAGTTCAAAGTAGCAGACTGTCTA 59.959 38.462 10.47 3.65 38.87 2.59
2059 11986 4.811024 TGTCAAGTTCAAAGTAGCAGACTG 59.189 41.667 0.00 0.00 38.87 3.51
2060 11987 5.023533 TGTCAAGTTCAAAGTAGCAGACT 57.976 39.130 0.00 0.00 41.56 3.24
2098 12049 1.134250 GGCCAGGGAGATTGACTTCTC 60.134 57.143 0.00 0.00 41.21 2.87
2111 12062 2.441001 AGAAGAATATGACTGGCCAGGG 59.559 50.000 35.42 14.44 0.00 4.45
2116 12067 3.460857 ACGGAGAAGAATATGACTGGC 57.539 47.619 0.00 0.00 0.00 4.85
2119 12070 6.535508 GCTGTTAAACGGAGAAGAATATGACT 59.464 38.462 0.00 0.00 0.00 3.41
2127 12078 2.870435 GCAGGCTGTTAAACGGAGAAGA 60.870 50.000 17.16 0.00 0.00 2.87
2134 12085 0.238289 CTGGTGCAGGCTGTTAAACG 59.762 55.000 17.16 0.00 0.00 3.60
2136 12087 1.142870 ACTCTGGTGCAGGCTGTTAAA 59.857 47.619 17.16 0.00 31.51 1.52
2167 12118 2.224281 CGCCCTCTGCAATGGTAGAATA 60.224 50.000 4.26 0.00 41.33 1.75
2222 12173 2.294233 GCAAAACTCAATCTCCAGCACA 59.706 45.455 0.00 0.00 0.00 4.57
2223 12174 2.555757 AGCAAAACTCAATCTCCAGCAC 59.444 45.455 0.00 0.00 0.00 4.40
2224 12175 2.867624 AGCAAAACTCAATCTCCAGCA 58.132 42.857 0.00 0.00 0.00 4.41
2225 12176 3.572584 CAAGCAAAACTCAATCTCCAGC 58.427 45.455 0.00 0.00 0.00 4.85
2226 12177 3.572584 GCAAGCAAAACTCAATCTCCAG 58.427 45.455 0.00 0.00 0.00 3.86
2285 12236 9.757227 TTCAAAATTTCCAACGATAAAAGACAT 57.243 25.926 0.00 0.00 0.00 3.06
2286 12237 9.757227 ATTCAAAATTTCCAACGATAAAAGACA 57.243 25.926 0.00 0.00 0.00 3.41
2317 12268 9.712305 CGATAAAAGACATATAAGGTTCTGGAT 57.288 33.333 0.00 0.00 0.00 3.41
2318 12269 8.701895 ACGATAAAAGACATATAAGGTTCTGGA 58.298 33.333 0.00 0.00 0.00 3.86
2319 12270 8.888579 ACGATAAAAGACATATAAGGTTCTGG 57.111 34.615 0.00 0.00 0.00 3.86
2321 12272 9.326413 CCAACGATAAAAGACATATAAGGTTCT 57.674 33.333 0.00 0.00 0.00 3.01
2322 12273 9.321562 TCCAACGATAAAAGACATATAAGGTTC 57.678 33.333 0.00 0.00 0.00 3.62
2323 12274 9.675464 TTCCAACGATAAAAGACATATAAGGTT 57.325 29.630 0.00 0.00 0.00 3.50
2324 12275 9.675464 TTTCCAACGATAAAAGACATATAAGGT 57.325 29.630 0.00 0.00 0.00 3.50
2364 12315 2.119495 GAGATGCCCTAAGGTTCTGGA 58.881 52.381 0.00 0.00 34.57 3.86
2365 12316 1.141858 GGAGATGCCCTAAGGTTCTGG 59.858 57.143 0.00 0.00 34.57 3.86
2366 12317 1.839994 TGGAGATGCCCTAAGGTTCTG 59.160 52.381 0.00 0.00 34.97 3.02
2367 12318 2.239907 GTTGGAGATGCCCTAAGGTTCT 59.760 50.000 0.00 0.00 34.97 3.01
2368 12319 2.644676 GTTGGAGATGCCCTAAGGTTC 58.355 52.381 0.00 0.00 34.97 3.62
2369 12320 1.065418 CGTTGGAGATGCCCTAAGGTT 60.065 52.381 0.00 0.00 34.97 3.50
2371 12322 0.815615 GCGTTGGAGATGCCCTAAGG 60.816 60.000 0.00 0.00 34.03 2.69
2373 12324 1.153449 CGCGTTGGAGATGCCCTAA 60.153 57.895 0.00 0.00 36.93 2.69
2375 12326 3.390521 TCGCGTTGGAGATGCCCT 61.391 61.111 5.77 0.00 36.93 5.19
2376 12327 3.195698 GTCGCGTTGGAGATGCCC 61.196 66.667 5.77 0.00 36.93 5.36
2377 12328 3.195698 GGTCGCGTTGGAGATGCC 61.196 66.667 5.77 0.00 36.93 4.40
2378 12329 3.195698 GGGTCGCGTTGGAGATGC 61.196 66.667 5.77 0.00 36.90 3.91
2379 12330 2.885644 CGGGTCGCGTTGGAGATG 60.886 66.667 5.77 0.00 0.00 2.90
2380 12331 4.814294 GCGGGTCGCGTTGGAGAT 62.814 66.667 5.77 0.00 44.55 2.75
2390 12341 2.742372 CAGGAGGTTTGCGGGTCG 60.742 66.667 0.00 0.00 0.00 4.79
2391 12342 3.056328 GCAGGAGGTTTGCGGGTC 61.056 66.667 0.00 0.00 0.00 4.46
2392 12343 3.429372 TTGCAGGAGGTTTGCGGGT 62.429 57.895 0.00 0.00 44.40 5.28
2393 12344 2.597217 TTGCAGGAGGTTTGCGGG 60.597 61.111 0.00 0.00 44.40 6.13
2394 12345 2.644992 GTTGCAGGAGGTTTGCGG 59.355 61.111 0.00 0.00 44.40 5.69
2395 12346 1.526575 ATGGTTGCAGGAGGTTTGCG 61.527 55.000 0.00 0.00 44.40 4.85
2396 12347 0.244721 GATGGTTGCAGGAGGTTTGC 59.755 55.000 0.00 0.00 41.86 3.68
2397 12348 0.890683 GGATGGTTGCAGGAGGTTTG 59.109 55.000 0.00 0.00 0.00 2.93
2398 12349 0.609131 CGGATGGTTGCAGGAGGTTT 60.609 55.000 0.00 0.00 0.00 3.27
2399 12350 1.002134 CGGATGGTTGCAGGAGGTT 60.002 57.895 0.00 0.00 0.00 3.50
2400 12351 2.671070 CGGATGGTTGCAGGAGGT 59.329 61.111 0.00 0.00 0.00 3.85
2401 12352 2.124570 CCGGATGGTTGCAGGAGG 60.125 66.667 0.00 0.00 0.00 4.30
2402 12353 1.450312 GTCCGGATGGTTGCAGGAG 60.450 63.158 7.81 0.00 36.30 3.69
2403 12354 2.668632 GTCCGGATGGTTGCAGGA 59.331 61.111 7.81 0.00 36.30 3.86
2404 12355 2.438434 GGTCCGGATGGTTGCAGG 60.438 66.667 7.81 0.00 36.30 4.85
2405 12356 2.040544 GTGGTCCGGATGGTTGCAG 61.041 63.158 7.81 0.00 36.30 4.41
2406 12357 2.033448 GTGGTCCGGATGGTTGCA 59.967 61.111 7.81 0.00 36.30 4.08
2407 12358 3.124921 CGTGGTCCGGATGGTTGC 61.125 66.667 7.81 0.00 36.30 4.17
2408 12359 3.124921 GCGTGGTCCGGATGGTTG 61.125 66.667 7.81 0.00 36.94 3.77
2409 12360 4.404098 GGCGTGGTCCGGATGGTT 62.404 66.667 7.81 0.00 36.94 3.67
2435 12386 2.892425 GATGGCTTCCGCAGTCCG 60.892 66.667 0.00 0.00 38.10 4.79
2436 12387 2.514824 GGATGGCTTCCGCAGTCC 60.515 66.667 3.39 0.00 38.10 3.85
2448 12399 2.715749 TACATGACTGCCTTGGATGG 57.284 50.000 0.00 0.00 0.00 3.51
2449 12400 2.804527 CGATACATGACTGCCTTGGATG 59.195 50.000 0.00 0.00 0.00 3.51
2450 12401 2.224378 CCGATACATGACTGCCTTGGAT 60.224 50.000 0.00 0.00 0.00 3.41
2451 12402 1.138859 CCGATACATGACTGCCTTGGA 59.861 52.381 0.00 0.00 0.00 3.53
2452 12403 1.134401 ACCGATACATGACTGCCTTGG 60.134 52.381 0.00 0.00 0.00 3.61
2453 12404 2.205074 GACCGATACATGACTGCCTTG 58.795 52.381 0.00 0.00 0.00 3.61
2454 12405 1.139058 GGACCGATACATGACTGCCTT 59.861 52.381 0.00 0.00 0.00 4.35
2455 12406 0.753262 GGACCGATACATGACTGCCT 59.247 55.000 0.00 0.00 0.00 4.75
2456 12407 0.597637 CGGACCGATACATGACTGCC 60.598 60.000 8.64 0.00 0.00 4.85
2457 12408 0.102481 ACGGACCGATACATGACTGC 59.898 55.000 23.38 0.00 0.00 4.40
2458 12409 1.404035 TCACGGACCGATACATGACTG 59.596 52.381 23.38 4.84 0.00 3.51
2459 12410 1.404391 GTCACGGACCGATACATGACT 59.596 52.381 23.38 0.00 34.86 3.41
2460 12411 1.836383 GTCACGGACCGATACATGAC 58.164 55.000 23.38 18.94 0.00 3.06
2461 12412 0.379316 CGTCACGGACCGATACATGA 59.621 55.000 23.38 10.68 0.00 3.07
2462 12413 1.206745 GCGTCACGGACCGATACATG 61.207 60.000 23.38 8.11 0.00 3.21
2463 12414 1.065273 GCGTCACGGACCGATACAT 59.935 57.895 23.38 0.00 0.00 2.29
2464 12415 2.486504 GCGTCACGGACCGATACA 59.513 61.111 23.38 0.00 0.00 2.29
2465 12416 2.649975 CGCGTCACGGACCGATAC 60.650 66.667 23.38 16.28 38.44 2.24
2474 12425 3.541831 CATCCGAACCGCGTCACG 61.542 66.667 4.92 7.23 43.15 4.35
2475 12426 3.849953 GCATCCGAACCGCGTCAC 61.850 66.667 4.92 0.00 38.67 3.67
2484 12435 8.536172 GATTTGTGGAAGAAATCGCATCCGAA 62.536 42.308 0.00 0.00 44.92 4.30
2485 12436 7.153601 GATTTGTGGAAGAAATCGCATCCGA 62.154 44.000 0.00 0.00 44.92 4.55
2486 12437 1.368641 TGTGGAAGAAATCGCATCCG 58.631 50.000 0.00 0.00 34.60 4.18
2487 12438 3.848272 TTTGTGGAAGAAATCGCATCC 57.152 42.857 0.00 0.00 0.00 3.51
2494 12445 8.485976 TTTTGTTTTCGATTTGTGGAAGAAAT 57.514 26.923 0.00 0.00 43.11 2.17
2495 12446 7.891183 TTTTGTTTTCGATTTGTGGAAGAAA 57.109 28.000 0.00 0.00 31.90 2.52
2496 12447 7.891183 TTTTTGTTTTCGATTTGTGGAAGAA 57.109 28.000 0.00 0.00 0.00 2.52
2497 12448 7.010923 CCATTTTTGTTTTCGATTTGTGGAAGA 59.989 33.333 0.00 0.00 0.00 2.87
2498 12449 7.125113 CCATTTTTGTTTTCGATTTGTGGAAG 58.875 34.615 0.00 0.00 0.00 3.46
2499 12450 6.037610 CCCATTTTTGTTTTCGATTTGTGGAA 59.962 34.615 0.00 0.00 0.00 3.53
2500 12451 5.525378 CCCATTTTTGTTTTCGATTTGTGGA 59.475 36.000 0.00 0.00 0.00 4.02
2501 12452 5.277731 CCCCATTTTTGTTTTCGATTTGTGG 60.278 40.000 0.00 0.00 0.00 4.17
2502 12453 5.525378 TCCCCATTTTTGTTTTCGATTTGTG 59.475 36.000 0.00 0.00 0.00 3.33
2503 12454 5.675538 TCCCCATTTTTGTTTTCGATTTGT 58.324 33.333 0.00 0.00 0.00 2.83
2504 12455 6.293353 CCTTCCCCATTTTTGTTTTCGATTTG 60.293 38.462 0.00 0.00 0.00 2.32
2505 12456 5.762711 CCTTCCCCATTTTTGTTTTCGATTT 59.237 36.000 0.00 0.00 0.00 2.17
2506 12457 5.163248 ACCTTCCCCATTTTTGTTTTCGATT 60.163 36.000 0.00 0.00 0.00 3.34
2507 12458 4.346709 ACCTTCCCCATTTTTGTTTTCGAT 59.653 37.500 0.00 0.00 0.00 3.59
2508 12459 3.707102 ACCTTCCCCATTTTTGTTTTCGA 59.293 39.130 0.00 0.00 0.00 3.71
2509 12460 4.066646 ACCTTCCCCATTTTTGTTTTCG 57.933 40.909 0.00 0.00 0.00 3.46
2510 12461 5.449862 GCAAACCTTCCCCATTTTTGTTTTC 60.450 40.000 0.00 0.00 31.19 2.29
2511 12462 4.400884 GCAAACCTTCCCCATTTTTGTTTT 59.599 37.500 0.00 0.00 31.19 2.43
2512 12463 3.951037 GCAAACCTTCCCCATTTTTGTTT 59.049 39.130 0.00 0.00 31.19 2.83
2513 12464 3.550820 GCAAACCTTCCCCATTTTTGTT 58.449 40.909 0.00 0.00 31.19 2.83
2514 12465 2.484594 CGCAAACCTTCCCCATTTTTGT 60.485 45.455 0.00 0.00 31.19 2.83
2515 12466 2.142319 CGCAAACCTTCCCCATTTTTG 58.858 47.619 0.00 0.00 0.00 2.44
2516 12467 1.071542 CCGCAAACCTTCCCCATTTTT 59.928 47.619 0.00 0.00 0.00 1.94
2517 12468 0.684535 CCGCAAACCTTCCCCATTTT 59.315 50.000 0.00 0.00 0.00 1.82
2518 12469 1.191489 CCCGCAAACCTTCCCCATTT 61.191 55.000 0.00 0.00 0.00 2.32
2519 12470 1.609210 CCCGCAAACCTTCCCCATT 60.609 57.895 0.00 0.00 0.00 3.16
2520 12471 2.037208 CCCGCAAACCTTCCCCAT 59.963 61.111 0.00 0.00 0.00 4.00
2521 12472 3.503839 ACCCGCAAACCTTCCCCA 61.504 61.111 0.00 0.00 0.00 4.96
2522 12473 2.989253 CACCCGCAAACCTTCCCC 60.989 66.667 0.00 0.00 0.00 4.81
2523 12474 2.203437 ACACCCGCAAACCTTCCC 60.203 61.111 0.00 0.00 0.00 3.97
2524 12475 3.039134 CACACCCGCAAACCTTCC 58.961 61.111 0.00 0.00 0.00 3.46
2525 12476 2.335011 GCACACCCGCAAACCTTC 59.665 61.111 0.00 0.00 0.00 3.46
2526 12477 3.591835 CGCACACCCGCAAACCTT 61.592 61.111 0.00 0.00 0.00 3.50
2529 12480 4.322385 GTCCGCACACCCGCAAAC 62.322 66.667 0.00 0.00 0.00 2.93
2544 12495 3.645268 AAGCGGGCTTGGATGGGTC 62.645 63.158 4.90 0.00 34.60 4.46
2545 12496 3.645268 GAAGCGGGCTTGGATGGGT 62.645 63.158 11.17 0.00 36.26 4.51
2546 12497 2.830370 GAAGCGGGCTTGGATGGG 60.830 66.667 11.17 0.00 36.26 4.00
2547 12498 2.117156 CAGAAGCGGGCTTGGATGG 61.117 63.158 11.17 0.00 36.26 3.51
2548 12499 1.078214 TCAGAAGCGGGCTTGGATG 60.078 57.895 11.17 7.03 36.26 3.51
2549 12500 1.078143 GTCAGAAGCGGGCTTGGAT 60.078 57.895 11.17 0.00 36.26 3.41
2550 12501 2.217038 AGTCAGAAGCGGGCTTGGA 61.217 57.895 11.17 5.52 36.26 3.53
2551 12502 2.037136 CAGTCAGAAGCGGGCTTGG 61.037 63.158 11.17 3.13 36.26 3.61
2552 12503 2.684843 GCAGTCAGAAGCGGGCTTG 61.685 63.158 11.17 0.00 36.26 4.01
2553 12504 2.359230 GCAGTCAGAAGCGGGCTT 60.359 61.111 5.45 5.45 39.23 4.35
2554 12505 4.400961 GGCAGTCAGAAGCGGGCT 62.401 66.667 0.00 0.00 0.00 5.19
2556 12507 3.710722 AGGGCAGTCAGAAGCGGG 61.711 66.667 0.00 0.00 0.00 6.13
2557 12508 2.435586 CAGGGCAGTCAGAAGCGG 60.436 66.667 0.00 0.00 0.00 5.52
2558 12509 2.435586 CCAGGGCAGTCAGAAGCG 60.436 66.667 0.00 0.00 0.00 4.68
2559 12510 2.749441 GCCAGGGCAGTCAGAAGC 60.749 66.667 5.20 0.00 41.49 3.86
2560 12511 2.045536 GGCCAGGGCAGTCAGAAG 60.046 66.667 13.10 0.00 44.11 2.85
2561 12512 3.650950 GGGCCAGGGCAGTCAGAA 61.651 66.667 16.36 0.00 44.11 3.02
2562 12513 4.980592 TGGGCCAGGGCAGTCAGA 62.981 66.667 16.36 0.00 44.11 3.27
2563 12514 4.729918 GTGGGCCAGGGCAGTCAG 62.730 72.222 16.36 0.00 44.11 3.51
2567 12518 4.619320 TTTGGTGGGCCAGGGCAG 62.619 66.667 16.36 0.00 46.91 4.85
2568 12519 4.163463 TTTTGGTGGGCCAGGGCA 62.163 61.111 16.36 0.00 46.91 5.36
2569 12520 3.625897 GTTTTGGTGGGCCAGGGC 61.626 66.667 6.40 3.77 46.91 5.19
2570 12521 2.922503 GGTTTTGGTGGGCCAGGG 60.923 66.667 6.40 0.00 46.91 4.45
2571 12522 2.922503 GGGTTTTGGTGGGCCAGG 60.923 66.667 6.40 0.00 46.91 4.45
2572 12523 1.341156 TTTGGGTTTTGGTGGGCCAG 61.341 55.000 6.40 0.00 46.91 4.85
2573 12524 1.306997 TTTGGGTTTTGGTGGGCCA 60.307 52.632 0.00 0.00 44.38 5.36
2574 12525 1.147376 GTTTGGGTTTTGGTGGGCC 59.853 57.895 0.00 0.00 0.00 5.80
2575 12526 1.147376 GGTTTGGGTTTTGGTGGGC 59.853 57.895 0.00 0.00 0.00 5.36
2576 12527 1.701031 GGGGTTTGGGTTTTGGTGGG 61.701 60.000 0.00 0.00 0.00 4.61
2577 12528 1.701031 GGGGGTTTGGGTTTTGGTGG 61.701 60.000 0.00 0.00 0.00 4.61
2578 12529 0.692756 AGGGGGTTTGGGTTTTGGTG 60.693 55.000 0.00 0.00 0.00 4.17
2579 12530 0.399376 GAGGGGGTTTGGGTTTTGGT 60.399 55.000 0.00 0.00 0.00 3.67
2580 12531 1.125093 GGAGGGGGTTTGGGTTTTGG 61.125 60.000 0.00 0.00 0.00 3.28
2581 12532 1.125093 GGGAGGGGGTTTGGGTTTTG 61.125 60.000 0.00 0.00 0.00 2.44
2582 12533 1.237753 GGGAGGGGGTTTGGGTTTT 59.762 57.895 0.00 0.00 0.00 2.43
2583 12534 2.797075 GGGGAGGGGGTTTGGGTTT 61.797 63.158 0.00 0.00 0.00 3.27
2584 12535 3.197895 GGGGAGGGGGTTTGGGTT 61.198 66.667 0.00 0.00 0.00 4.11
2587 12538 3.347590 GAGGGGGAGGGGGTTTGG 61.348 72.222 0.00 0.00 0.00 3.28
2588 12539 3.347590 GGAGGGGGAGGGGGTTTG 61.348 72.222 0.00 0.00 0.00 2.93
2589 12540 3.563377 AGGAGGGGGAGGGGGTTT 61.563 66.667 0.00 0.00 0.00 3.27
2590 12541 4.040198 GAGGAGGGGGAGGGGGTT 62.040 72.222 0.00 0.00 0.00 4.11
2598 12549 3.546714 AAAACGCACGAGGAGGGGG 62.547 63.158 0.00 0.00 42.62 5.40
2599 12550 2.032071 AAAACGCACGAGGAGGGG 59.968 61.111 0.00 0.00 0.00 4.79
2600 12551 2.380410 CGAAAACGCACGAGGAGGG 61.380 63.158 0.00 0.00 0.00 4.30
2601 12552 2.380410 CCGAAAACGCACGAGGAGG 61.380 63.158 0.00 0.00 0.00 4.30
2602 12553 1.615107 GACCGAAAACGCACGAGGAG 61.615 60.000 0.00 0.00 0.00 3.69
2603 12554 1.662446 GACCGAAAACGCACGAGGA 60.662 57.895 0.00 0.00 0.00 3.71
2604 12555 1.952133 TGACCGAAAACGCACGAGG 60.952 57.895 0.00 0.00 0.00 4.63
2605 12556 1.200839 GTGACCGAAAACGCACGAG 59.799 57.895 0.00 0.00 0.00 4.18
2606 12557 2.239124 GGTGACCGAAAACGCACGA 61.239 57.895 0.00 0.00 32.24 4.35
2607 12558 2.247267 GGTGACCGAAAACGCACG 59.753 61.111 0.00 0.00 32.24 5.34
2618 12569 3.127352 CTCTAGAGCGGCGGTGACC 62.127 68.421 19.47 1.29 0.00 4.02
2619 12570 2.409651 CTCTAGAGCGGCGGTGAC 59.590 66.667 19.47 2.20 0.00 3.67
2620 12571 3.518998 GCTCTAGAGCGGCGGTGA 61.519 66.667 28.04 6.91 45.29 4.02
2638 12589 4.166011 GTGAATGCGGGCGCTGAC 62.166 66.667 7.64 0.00 42.51 3.51
2647 12598 2.580470 CTAGCCGAGCGTGAATGCG 61.580 63.158 0.00 0.00 40.67 4.73
2648 12599 1.211818 CTCTAGCCGAGCGTGAATGC 61.212 60.000 0.00 0.00 31.99 3.56
2649 12600 2.878743 CTCTAGCCGAGCGTGAATG 58.121 57.895 0.00 0.00 31.99 2.67
2657 12608 4.615834 GCGTCCGCTCTAGCCGAG 62.616 72.222 4.10 0.00 42.88 4.63
2660 12611 4.908877 GTCGCGTCCGCTCTAGCC 62.909 72.222 5.77 0.00 39.32 3.93
2661 12612 4.908877 GGTCGCGTCCGCTCTAGC 62.909 72.222 6.64 1.55 39.32 3.42
2662 12613 3.506096 TGGTCGCGTCCGCTCTAG 61.506 66.667 17.40 0.00 39.32 2.43
2663 12614 3.807538 GTGGTCGCGTCCGCTCTA 61.808 66.667 25.35 1.97 39.32 2.43


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

AutoCloner maintained by Alex Coulton.