Multiple sequence alignment - TraesCS7B01G034700

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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 TraesCS7B01G034700 chr7B 100.000 2672 0 0 1 2672 33955399 33958070 0.000000e+00 4935
1 TraesCS7B01G034700 chr7B 91.087 1380 93 14 1 1361 34140002 34141370 0.000000e+00 1840
2 TraesCS7B01G034700 chr7B 85.110 1585 140 43 410 1917 34048126 34049691 0.000000e+00 1531
3 TraesCS7B01G034700 chr7B 82.830 961 140 17 739 1685 23318135 23317186 0.000000e+00 837
4 TraesCS7B01G034700 chr7B 90.678 590 27 5 1356 1917 34146525 34147114 0.000000e+00 760
5 TraesCS7B01G034700 chr7B 81.103 979 158 18 707 1680 665522883 665523839 0.000000e+00 758
6 TraesCS7B01G034700 chr7B 80.962 956 139 24 739 1678 665534602 665535530 0.000000e+00 717
7 TraesCS7B01G034700 chr7B 79.920 996 157 21 707 1676 23325832 23324854 0.000000e+00 691
8 TraesCS7B01G034700 chr7B 86.788 439 55 3 1249 1685 665531654 665532091 1.110000e-133 486
9 TraesCS7B01G034700 chr7B 87.050 417 28 14 11 405 34047547 34047959 5.250000e-122 448
10 TraesCS7B01G034700 chr7B 78.828 529 76 20 739 1253 665525671 665526177 9.230000e-85 324
11 TraesCS7B01G034700 chr7A 89.234 1867 115 37 8 1815 85692854 85694693 0.000000e+00 2255
12 TraesCS7B01G034700 chr7A 95.294 85 4 0 2588 2672 699064228 699064312 4.640000e-28 135
13 TraesCS7B01G034700 chr7A 74.351 308 64 12 183 479 644770104 644769801 1.680000e-22 117
14 TraesCS7B01G034700 chr7D 90.875 1600 107 17 1 1576 84405884 84407468 0.000000e+00 2109
15 TraesCS7B01G034700 chr7D 83.353 835 125 8 845 1676 590647666 590648489 0.000000e+00 760
16 TraesCS7B01G034700 chr7D 89.973 369 14 2 1572 1917 84408025 84408393 3.140000e-124 455
17 TraesCS7B01G034700 chr4D 92.784 388 28 0 2204 2591 68812474 68812087 1.800000e-156 562
18 TraesCS7B01G034700 chr4D 90.331 393 36 2 2199 2591 241764327 241763937 5.100000e-142 514
19 TraesCS7B01G034700 chr4D 93.380 287 17 2 1920 2206 312171078 312171362 8.840000e-115 424
20 TraesCS7B01G034700 chr3B 92.468 385 27 2 2204 2587 75064147 75064530 1.400000e-152 549
21 TraesCS7B01G034700 chr3B 95.294 85 4 0 2588 2672 521646525 521646441 4.640000e-28 135
22 TraesCS7B01G034700 chr5D 91.517 389 30 3 2204 2591 517461680 517461294 1.410000e-147 532
23 TraesCS7B01G034700 chr5D 90.464 388 35 2 2205 2591 316259138 316258752 6.600000e-141 510
24 TraesCS7B01G034700 chr5D 95.294 85 4 0 2588 2672 376358393 376358309 4.640000e-28 135
25 TraesCS7B01G034700 chr5D 95.294 85 4 0 2588 2672 462826868 462826952 4.640000e-28 135
26 TraesCS7B01G034700 chrUn 91.799 378 30 1 2204 2581 272156968 272157344 2.360000e-145 525
27 TraesCS7B01G034700 chrUn 91.799 378 30 1 2204 2581 372762202 372762578 2.360000e-145 525
28 TraesCS7B01G034700 chr6D 90.979 388 33 2 2205 2591 55066342 55066728 3.050000e-144 521
29 TraesCS7B01G034700 chr6D 95.294 85 4 0 2588 2672 460634562 460634646 4.640000e-28 135
30 TraesCS7B01G034700 chr6D 94.118 85 5 0 2588 2672 55066955 55067039 2.160000e-26 130
31 TraesCS7B01G034700 chr5B 90.206 388 38 0 2204 2591 407776514 407776901 8.540000e-140 507
32 TraesCS7B01G034700 chr3A 94.077 287 15 2 1920 2206 203838262 203838546 4.090000e-118 435
33 TraesCS7B01G034700 chr3A 93.728 287 16 2 1920 2206 146776948 146777232 1.900000e-116 429
34 TraesCS7B01G034700 chr2D 94.077 287 15 2 1920 2206 95191262 95191546 4.090000e-118 435
35 TraesCS7B01G034700 chr2D 95.294 85 4 0 2588 2672 625129868 625129952 4.640000e-28 135
36 TraesCS7B01G034700 chr4A 93.728 287 16 2 1920 2206 159499660 159499376 1.900000e-116 429
37 TraesCS7B01G034700 chr1A 93.750 288 15 3 1920 2206 553953104 553953389 1.900000e-116 429
38 TraesCS7B01G034700 chr2B 93.728 287 15 3 1920 2206 740857884 740858167 6.840000e-116 427
39 TraesCS7B01G034700 chr4B 93.380 287 17 2 1920 2206 295695954 295695670 8.840000e-115 424
40 TraesCS7B01G034700 chr4B 93.380 287 17 2 1920 2206 394810549 394810265 8.840000e-115 424
41 TraesCS7B01G034700 chr4B 95.294 85 4 0 2588 2672 598609523 598609439 4.640000e-28 135
42 TraesCS7B01G034700 chr1D 94.118 85 5 0 2588 2672 312474930 312475014 2.160000e-26 130


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 TraesCS7B01G034700 chr7B 33955399 33958070 2671 False 4935.0 4935 100.0000 1 2672 1 chr7B.!!$F1 2671
1 TraesCS7B01G034700 chr7B 34140002 34141370 1368 False 1840.0 1840 91.0870 1 1361 1 chr7B.!!$F2 1360
2 TraesCS7B01G034700 chr7B 34047547 34049691 2144 False 989.5 1531 86.0800 11 1917 2 chr7B.!!$F4 1906
3 TraesCS7B01G034700 chr7B 23317186 23318135 949 True 837.0 837 82.8300 739 1685 1 chr7B.!!$R1 946
4 TraesCS7B01G034700 chr7B 34146525 34147114 589 False 760.0 760 90.6780 1356 1917 1 chr7B.!!$F3 561
5 TraesCS7B01G034700 chr7B 23324854 23325832 978 True 691.0 691 79.9200 707 1676 1 chr7B.!!$R2 969
6 TraesCS7B01G034700 chr7B 665531654 665535530 3876 False 601.5 717 83.8750 739 1685 2 chr7B.!!$F6 946
7 TraesCS7B01G034700 chr7B 665522883 665526177 3294 False 541.0 758 79.9655 707 1680 2 chr7B.!!$F5 973
8 TraesCS7B01G034700 chr7A 85692854 85694693 1839 False 2255.0 2255 89.2340 8 1815 1 chr7A.!!$F1 1807
9 TraesCS7B01G034700 chr7D 84405884 84408393 2509 False 1282.0 2109 90.4240 1 1917 2 chr7D.!!$F2 1916
10 TraesCS7B01G034700 chr7D 590647666 590648489 823 False 760.0 760 83.3530 845 1676 1 chr7D.!!$F1 831
11 TraesCS7B01G034700 chr6D 55066342 55067039 697 False 325.5 521 92.5485 2205 2672 2 chr6D.!!$F2 467

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
691 892 0.026803 GAAGAATGCATCGTCGCACC 59.973 55.0 0.0 0.48 46.56 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1952 6553 0.107165 GCCTAGCCTAACCACCAAGG 60.107 60.0 0.0 0.0 45.67 3.61 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
33 34 9.643693 AAAAGTTGTGGCATATTCTAAAATCAG 57.356 29.630 0.00 0.00 0.00 2.90
38 39 8.640063 TGTGGCATATTCTAAAATCAGCATAT 57.360 30.769 0.00 0.00 30.47 1.78
68 69 7.014518 TGCGGTATATGTTTACTATACCACACT 59.985 37.037 15.95 0.00 46.12 3.55
128 129 5.154222 CGGTATCTTGGTTTTCTCAAAAGC 58.846 41.667 4.35 4.35 46.20 3.51
221 224 6.514947 TCTAATGGTAATGATTTGGCAATGC 58.485 36.000 0.00 0.00 0.00 3.56
232 235 3.965379 TTGGCAATGCAGATGTTGAAT 57.035 38.095 7.79 0.00 0.00 2.57
233 236 3.965379 TGGCAATGCAGATGTTGAATT 57.035 38.095 7.79 0.00 35.26 2.17
234 237 4.274602 TGGCAATGCAGATGTTGAATTT 57.725 36.364 7.79 0.00 32.35 1.82
235 238 4.643463 TGGCAATGCAGATGTTGAATTTT 58.357 34.783 7.79 0.00 32.35 1.82
263 267 9.502091 TTCTATAGTCTTGCACAAAGTTTACAT 57.498 29.630 0.00 0.00 37.18 2.29
277 286 8.421002 ACAAAGTTTACATAGTTGCCTTTCAAT 58.579 29.630 0.00 0.00 36.99 2.57
332 361 6.322456 TCTTGTGGTTGGACATTTATTGAACA 59.678 34.615 0.00 0.00 0.00 3.18
384 416 5.078411 TCCAAGTCTTCTATCTTGCACTC 57.922 43.478 0.00 0.00 39.47 3.51
429 624 0.911053 TCATGCATACCAGTGAGGCA 59.089 50.000 0.00 0.00 43.14 4.75
443 638 6.183361 ACCAGTGAGGCATGTAATATGTATGT 60.183 38.462 0.00 0.00 43.14 2.29
493 688 7.603180 TGGCTATAGAGTCACACTATTGATT 57.397 36.000 3.21 0.00 30.32 2.57
494 689 8.023021 TGGCTATAGAGTCACACTATTGATTT 57.977 34.615 3.21 0.00 30.32 2.17
495 690 8.144478 TGGCTATAGAGTCACACTATTGATTTC 58.856 37.037 3.21 0.00 30.32 2.17
496 691 8.364142 GGCTATAGAGTCACACTATTGATTTCT 58.636 37.037 3.21 0.00 33.43 2.52
497 692 9.190858 GCTATAGAGTCACACTATTGATTTCTG 57.809 37.037 3.21 0.00 33.43 3.02
583 783 2.123428 GCCCTCGCATTTGCCAGAT 61.123 57.895 0.00 0.00 37.91 2.90
678 879 2.266279 TCCTCACTTTCGGGGAAGAAT 58.734 47.619 0.00 0.00 0.00 2.40
679 880 2.027192 TCCTCACTTTCGGGGAAGAATG 60.027 50.000 0.00 0.00 0.00 2.67
691 892 0.026803 GAAGAATGCATCGTCGCACC 59.973 55.000 0.00 0.48 46.56 5.01
783 1012 8.999431 ACAATTCAATACATGTAGAAACGACTT 58.001 29.630 11.91 0.00 0.00 3.01
805 1034 7.553334 ACTTATCACGCCTAGAATAGTTGAAA 58.447 34.615 0.00 0.00 36.82 2.69
858 1087 3.558006 CACACCACGTAGACAAATCAACA 59.442 43.478 0.00 0.00 0.00 3.33
859 1088 4.213270 CACACCACGTAGACAAATCAACAT 59.787 41.667 0.00 0.00 0.00 2.71
880 1143 1.612199 GGCCAACGGTAGAACCATTCA 60.612 52.381 0.00 0.00 38.47 2.57
886 1149 5.163447 CCAACGGTAGAACCATTCATAGAGA 60.163 44.000 0.00 0.00 38.47 3.10
966 4721 5.984725 ACATTCCTAATCGACCACACAATA 58.015 37.500 0.00 0.00 0.00 1.90
976 4734 2.426024 GACCACACAATAGCGTCTCCTA 59.574 50.000 0.00 0.00 0.00 2.94
998 4756 0.664466 CCATCGTCCATCGTGATCCG 60.664 60.000 0.00 0.00 40.80 4.18
1074 4841 0.473755 TGCCTAATGATGCCGGTGAT 59.526 50.000 1.90 0.00 0.00 3.06
1125 4895 0.813184 CAGCATCAAAGGCAACGGAT 59.187 50.000 0.00 0.00 46.39 4.18
1204 4974 1.049402 GTACCAGGCTCTATCCCCAC 58.951 60.000 0.00 0.00 0.00 4.61
1220 4990 0.108963 CCACCCTTTACCAACCACGA 59.891 55.000 0.00 0.00 0.00 4.35
1274 5044 1.439228 CGCTGGTCATCATCCTCGT 59.561 57.895 0.00 0.00 0.00 4.18
1278 5048 1.037579 TGGTCATCATCCTCGTCGCT 61.038 55.000 0.00 0.00 0.00 4.93
1280 5050 0.382158 GTCATCATCCTCGTCGCTCA 59.618 55.000 0.00 0.00 0.00 4.26
1341 5111 2.641305 GACCAGAAGCTCTACTACGGA 58.359 52.381 0.00 0.00 0.00 4.69
1366 5136 3.276091 CACCACGCGGCTTCAACA 61.276 61.111 12.47 0.00 34.57 3.33
1377 5147 3.494251 GCGGCTTCAACATGTTCAATTTT 59.506 39.130 8.48 0.00 0.00 1.82
1380 5150 5.463061 CGGCTTCAACATGTTCAATTTTTCT 59.537 36.000 8.48 0.00 0.00 2.52
1384 5154 7.010367 GCTTCAACATGTTCAATTTTTCTGACA 59.990 33.333 8.48 0.00 0.00 3.58
1486 5256 1.301716 GCGCTGGTCTTTCTCACCA 60.302 57.895 0.00 0.00 41.91 4.17
1491 5261 0.770499 TGGTCTTTCTCACCATGGCA 59.230 50.000 13.04 0.00 39.11 4.92
1589 5920 1.067635 GTTGGGCATCGCATTTCTGTT 60.068 47.619 0.00 0.00 0.00 3.16
1641 5972 1.522569 GAAGGGCATCGGCTACACT 59.477 57.895 0.00 0.00 40.87 3.55
1647 5978 0.389817 GCATCGGCTACACTGACACA 60.390 55.000 0.00 0.00 36.16 3.72
1655 5986 2.035961 GCTACACTGACACAACTCCTCA 59.964 50.000 0.00 0.00 0.00 3.86
1725 6066 9.607988 TGGACAATTAGATTACAACGTAATCAT 57.392 29.630 22.36 13.21 36.63 2.45
1795 6222 7.022055 TGTGTACTGTTTAGTTTGTTCATGG 57.978 36.000 0.00 0.00 38.36 3.66
1917 6377 6.592870 GCCCAAAGTCTATGTAAACTCCTAT 58.407 40.000 0.00 0.00 0.00 2.57
1920 6380 7.495934 CCCAAAGTCTATGTAAACTCCTATGTG 59.504 40.741 0.00 0.00 0.00 3.21
1921 6381 7.495934 CCAAAGTCTATGTAAACTCCTATGTGG 59.504 40.741 0.00 0.00 37.10 4.17
1922 6382 7.973048 AAGTCTATGTAAACTCCTATGTGGA 57.027 36.000 0.00 0.00 43.86 4.02
1923 6383 7.973048 AGTCTATGTAAACTCCTATGTGGAA 57.027 36.000 0.00 0.00 45.63 3.53
1924 6384 8.554490 AGTCTATGTAAACTCCTATGTGGAAT 57.446 34.615 0.00 0.00 45.63 3.01
1935 6536 7.547227 ACTCCTATGTGGAATAACAAAAATGC 58.453 34.615 0.00 0.00 45.63 3.56
1937 6538 6.151985 TCCTATGTGGAATAACAAAAATGCGT 59.848 34.615 0.00 0.00 42.94 5.24
1938 6539 6.253298 CCTATGTGGAATAACAAAAATGCGTG 59.747 38.462 0.00 0.00 38.35 5.34
1940 6541 3.738282 GTGGAATAACAAAAATGCGTGCA 59.262 39.130 0.00 0.00 0.00 4.57
1942 6543 8.694850 ATGTGGAATAACAAAAATGCGTGCATT 61.695 33.333 14.03 14.03 39.72 3.56
1944 6545 6.090088 TGGAATAACAAAAATGCGTGCATTAC 59.910 34.615 19.43 0.00 44.86 1.89
1945 6546 6.310224 GGAATAACAAAAATGCGTGCATTACT 59.690 34.615 19.43 8.15 44.86 2.24
1947 6548 8.749841 AATAACAAAAATGCGTGCATTACTTA 57.250 26.923 19.43 12.38 44.86 2.24
1948 6549 8.749841 ATAACAAAAATGCGTGCATTACTTAA 57.250 26.923 19.43 5.86 44.86 1.85
1950 6551 7.650834 ACAAAAATGCGTGCATTACTTAAAT 57.349 28.000 19.43 0.49 44.86 1.40
1952 6553 8.220434 ACAAAAATGCGTGCATTACTTAAATTC 58.780 29.630 19.43 0.00 44.86 2.17
1953 6554 6.885735 AAATGCGTGCATTACTTAAATTCC 57.114 33.333 19.43 0.00 44.86 3.01
1954 6555 5.835113 ATGCGTGCATTACTTAAATTCCT 57.165 34.783 0.51 0.00 31.82 3.36
1955 6556 5.637006 TGCGTGCATTACTTAAATTCCTT 57.363 34.783 0.00 0.00 0.00 3.36
1957 6558 4.798387 GCGTGCATTACTTAAATTCCTTGG 59.202 41.667 0.00 0.00 0.00 3.61
1958 6559 5.621329 GCGTGCATTACTTAAATTCCTTGGT 60.621 40.000 0.00 0.00 0.00 3.67
1959 6560 5.799936 CGTGCATTACTTAAATTCCTTGGTG 59.200 40.000 0.00 0.00 0.00 4.17
1960 6561 6.099341 GTGCATTACTTAAATTCCTTGGTGG 58.901 40.000 0.00 0.00 37.10 4.61
1963 6564 7.451877 TGCATTACTTAAATTCCTTGGTGGTTA 59.548 33.333 0.00 0.00 37.07 2.85
1964 6565 7.973944 GCATTACTTAAATTCCTTGGTGGTTAG 59.026 37.037 0.00 0.00 37.07 2.34
1966 6567 4.770531 ACTTAAATTCCTTGGTGGTTAGGC 59.229 41.667 0.00 0.00 37.07 3.93
1967 6568 3.542969 AAATTCCTTGGTGGTTAGGCT 57.457 42.857 0.00 0.00 37.07 4.58
1969 6570 3.933861 ATTCCTTGGTGGTTAGGCTAG 57.066 47.619 0.00 0.00 37.07 3.42
1970 6571 1.580059 TCCTTGGTGGTTAGGCTAGG 58.420 55.000 0.00 0.00 37.07 3.02
1971 6572 0.107165 CCTTGGTGGTTAGGCTAGGC 60.107 60.000 8.55 8.55 0.00 3.93
1972 6573 0.618458 CTTGGTGGTTAGGCTAGGCA 59.382 55.000 19.70 1.52 0.00 4.75
1973 6574 1.212935 CTTGGTGGTTAGGCTAGGCAT 59.787 52.381 19.70 6.29 0.00 4.40
1974 6575 2.184088 TGGTGGTTAGGCTAGGCATA 57.816 50.000 19.70 5.29 0.00 3.14
1975 6576 1.766496 TGGTGGTTAGGCTAGGCATAC 59.234 52.381 19.70 14.71 0.00 2.39
1976 6577 1.270147 GGTGGTTAGGCTAGGCATACG 60.270 57.143 19.70 0.00 0.00 3.06
1977 6578 1.045407 TGGTTAGGCTAGGCATACGG 58.955 55.000 19.70 0.00 0.00 4.02
1979 6580 1.270147 GGTTAGGCTAGGCATACGGTG 60.270 57.143 19.70 0.00 0.00 4.94
1980 6581 1.045407 TTAGGCTAGGCATACGGTGG 58.955 55.000 19.70 0.00 0.00 4.61
1981 6582 0.830444 TAGGCTAGGCATACGGTGGG 60.830 60.000 19.70 0.00 0.00 4.61
1982 6583 2.440817 GGCTAGGCATACGGTGGGT 61.441 63.158 12.16 0.00 0.00 4.51
1984 6585 0.974383 GCTAGGCATACGGTGGGTAT 59.026 55.000 0.00 0.00 42.62 2.73
1985 6586 2.173519 GCTAGGCATACGGTGGGTATA 58.826 52.381 0.00 0.00 39.86 1.47
1986 6587 2.094338 GCTAGGCATACGGTGGGTATAC 60.094 54.545 0.00 0.00 39.86 1.47
1987 6588 1.345063 AGGCATACGGTGGGTATACC 58.655 55.000 13.99 13.99 43.01 2.73
1988 6589 1.132945 AGGCATACGGTGGGTATACCT 60.133 52.381 21.25 3.87 46.36 3.08
1989 6590 1.274447 GGCATACGGTGGGTATACCTC 59.726 57.143 21.25 14.01 40.54 3.85
1990 6591 1.965643 GCATACGGTGGGTATACCTCA 59.034 52.381 21.25 14.32 39.86 3.86
1991 6592 2.366266 GCATACGGTGGGTATACCTCAA 59.634 50.000 21.25 5.22 39.86 3.02
1993 6594 4.683942 GCATACGGTGGGTATACCTCAAAA 60.684 45.833 21.25 4.15 39.86 2.44
1994 6595 5.430007 CATACGGTGGGTATACCTCAAAAA 58.570 41.667 21.25 4.64 39.86 1.94
1995 6596 3.946606 ACGGTGGGTATACCTCAAAAAG 58.053 45.455 21.25 9.18 41.11 2.27
1996 6597 3.583966 ACGGTGGGTATACCTCAAAAAGA 59.416 43.478 21.25 0.00 41.11 2.52
1997 6598 4.041938 ACGGTGGGTATACCTCAAAAAGAA 59.958 41.667 21.25 0.00 41.11 2.52
1998 6599 4.634443 CGGTGGGTATACCTCAAAAAGAAG 59.366 45.833 21.25 0.00 41.11 2.85
1999 6600 5.570034 CGGTGGGTATACCTCAAAAAGAAGA 60.570 44.000 21.25 0.00 41.11 2.87
2000 6601 6.243148 GGTGGGTATACCTCAAAAAGAAGAA 58.757 40.000 21.25 0.00 41.11 2.52
2001 6602 6.374613 GGTGGGTATACCTCAAAAAGAAGAAG 59.625 42.308 21.25 0.00 41.11 2.85
2003 6604 6.181190 GGGTATACCTCAAAAAGAAGAAGCT 58.819 40.000 21.25 0.00 35.85 3.74
2004 6605 6.659668 GGGTATACCTCAAAAAGAAGAAGCTT 59.340 38.462 21.25 0.00 35.85 3.74
2005 6606 7.148222 GGGTATACCTCAAAAAGAAGAAGCTTC 60.148 40.741 21.25 19.11 35.85 3.86
2006 6607 4.820284 ACCTCAAAAAGAAGAAGCTTCG 57.180 40.909 20.43 4.20 0.00 3.79
2007 6608 4.200092 ACCTCAAAAAGAAGAAGCTTCGT 58.800 39.130 20.43 17.85 0.00 3.85
2008 6609 4.273724 ACCTCAAAAAGAAGAAGCTTCGTC 59.726 41.667 28.40 28.40 36.19 4.20
2016 6617 5.146010 AGAAGAAGCTTCGTCTTTCATCT 57.854 39.130 31.39 17.42 42.09 2.90
2017 6618 6.274157 AGAAGAAGCTTCGTCTTTCATCTA 57.726 37.500 31.39 0.00 42.09 1.98
2019 6620 6.978080 AGAAGAAGCTTCGTCTTTCATCTATC 59.022 38.462 31.39 9.49 42.09 2.08
2020 6621 6.214191 AGAAGCTTCGTCTTTCATCTATCA 57.786 37.500 20.43 0.00 0.00 2.15
2021 6622 6.815089 AGAAGCTTCGTCTTTCATCTATCAT 58.185 36.000 20.43 0.00 0.00 2.45
2023 6624 6.841443 AGCTTCGTCTTTCATCTATCATTG 57.159 37.500 0.00 0.00 0.00 2.82
2024 6625 6.577103 AGCTTCGTCTTTCATCTATCATTGA 58.423 36.000 0.00 0.00 0.00 2.57
2025 6626 7.215789 AGCTTCGTCTTTCATCTATCATTGAT 58.784 34.615 4.28 4.28 0.00 2.57
2026 6627 7.171167 AGCTTCGTCTTTCATCTATCATTGATG 59.829 37.037 9.46 2.87 41.75 3.07
2027 6628 7.170489 GCTTCGTCTTTCATCTATCATTGATGA 59.830 37.037 7.60 7.60 45.69 2.92
2043 6644 5.981088 TTGATGAATTAGAAGCTTTGGCA 57.019 34.783 0.00 0.00 41.70 4.92
2044 6645 5.571784 TGATGAATTAGAAGCTTTGGCAG 57.428 39.130 0.00 0.00 41.70 4.85
2045 6646 5.255687 TGATGAATTAGAAGCTTTGGCAGA 58.744 37.500 0.00 0.00 41.70 4.26
2046 6647 5.356190 TGATGAATTAGAAGCTTTGGCAGAG 59.644 40.000 0.00 0.00 41.70 3.35
2047 6648 4.012374 TGAATTAGAAGCTTTGGCAGAGG 58.988 43.478 7.20 0.00 41.70 3.69
2048 6649 3.728385 ATTAGAAGCTTTGGCAGAGGT 57.272 42.857 3.62 3.62 41.70 3.85
2049 6650 3.508845 TTAGAAGCTTTGGCAGAGGTT 57.491 42.857 20.67 20.67 41.70 3.50
2051 6652 3.064900 AGAAGCTTTGGCAGAGGTTAG 57.935 47.619 20.59 0.00 41.70 2.34
2068 6669 3.306641 GGTTAGGCCTCTATCTGAGCATG 60.307 52.174 9.68 0.00 41.35 4.06
2072 6673 3.651904 AGGCCTCTATCTGAGCATGAAAT 59.348 43.478 0.00 0.00 41.35 2.17
2073 6674 4.002316 GGCCTCTATCTGAGCATGAAATC 58.998 47.826 0.00 0.00 41.35 2.17
2074 6675 3.679025 GCCTCTATCTGAGCATGAAATCG 59.321 47.826 0.00 0.00 41.35 3.34
2076 6677 5.162794 CCTCTATCTGAGCATGAAATCGAG 58.837 45.833 0.00 0.00 41.35 4.04
2077 6678 5.048154 CCTCTATCTGAGCATGAAATCGAGA 60.048 44.000 0.00 0.00 41.35 4.04
2079 6680 7.148103 CCTCTATCTGAGCATGAAATCGAGATA 60.148 40.741 0.00 6.10 41.35 1.98
2080 6681 8.115490 TCTATCTGAGCATGAAATCGAGATAA 57.885 34.615 0.00 0.00 0.00 1.75
2081 6682 8.579863 TCTATCTGAGCATGAAATCGAGATAAA 58.420 33.333 0.00 0.00 0.00 1.40
2082 6683 9.201127 CTATCTGAGCATGAAATCGAGATAAAA 57.799 33.333 0.00 0.00 0.00 1.52
2105 6706 5.354054 AATCATTCGAATGCACAGATAGC 57.646 39.130 29.32 0.00 36.36 2.97
2106 6707 4.063998 TCATTCGAATGCACAGATAGCT 57.936 40.909 29.32 0.00 36.36 3.32
2107 6708 5.200368 TCATTCGAATGCACAGATAGCTA 57.800 39.130 29.32 8.26 36.36 3.32
2108 6709 5.600696 TCATTCGAATGCACAGATAGCTAA 58.399 37.500 29.32 8.07 36.36 3.09
2109 6710 5.463392 TCATTCGAATGCACAGATAGCTAAC 59.537 40.000 29.32 0.00 36.36 2.34
2110 6711 4.385358 TCGAATGCACAGATAGCTAACA 57.615 40.909 0.00 0.00 0.00 2.41
2111 6712 4.948847 TCGAATGCACAGATAGCTAACAT 58.051 39.130 0.00 0.00 0.00 2.71
2112 6713 4.746611 TCGAATGCACAGATAGCTAACATG 59.253 41.667 0.00 0.00 0.00 3.21
2113 6714 4.509230 CGAATGCACAGATAGCTAACATGT 59.491 41.667 0.00 0.00 0.00 3.21
2114 6715 5.007039 CGAATGCACAGATAGCTAACATGTT 59.993 40.000 16.68 16.68 0.00 2.71
2115 6716 5.746307 ATGCACAGATAGCTAACATGTTG 57.254 39.130 21.42 11.79 0.00 3.33
2116 6717 3.374988 TGCACAGATAGCTAACATGTTGC 59.625 43.478 21.42 20.07 0.00 4.17
2117 6718 3.544834 GCACAGATAGCTAACATGTTGCG 60.545 47.826 21.42 12.60 0.00 4.85
2118 6719 3.618594 CACAGATAGCTAACATGTTGCGT 59.381 43.478 21.42 14.87 0.00 5.24
2119 6720 3.618594 ACAGATAGCTAACATGTTGCGTG 59.381 43.478 21.42 18.04 0.00 5.34
2120 6721 3.865164 CAGATAGCTAACATGTTGCGTGA 59.135 43.478 21.42 12.57 0.00 4.35
2121 6722 4.329801 CAGATAGCTAACATGTTGCGTGAA 59.670 41.667 21.42 10.68 0.00 3.18
2122 6723 4.568359 AGATAGCTAACATGTTGCGTGAAG 59.432 41.667 21.42 10.15 0.00 3.02
2123 6724 2.766313 AGCTAACATGTTGCGTGAAGA 58.234 42.857 21.42 0.00 0.00 2.87
2124 6725 2.738846 AGCTAACATGTTGCGTGAAGAG 59.261 45.455 21.42 8.70 0.00 2.85
2125 6726 2.159653 GCTAACATGTTGCGTGAAGAGG 60.160 50.000 21.42 0.32 0.00 3.69
2126 6727 2.254546 AACATGTTGCGTGAAGAGGA 57.745 45.000 11.07 0.00 0.00 3.71
2127 6728 2.254546 ACATGTTGCGTGAAGAGGAA 57.745 45.000 0.00 0.00 0.00 3.36
2128 6729 1.873591 ACATGTTGCGTGAAGAGGAAC 59.126 47.619 0.00 0.00 39.81 3.62
2144 6745 4.345859 AGGAACTCAAATGGTACGAACA 57.654 40.909 0.00 0.00 0.00 3.18
2145 6746 4.906618 AGGAACTCAAATGGTACGAACAT 58.093 39.130 0.00 0.00 0.00 2.71
2146 6747 5.313712 AGGAACTCAAATGGTACGAACATT 58.686 37.500 0.00 0.00 40.07 2.71
2147 6748 5.411669 AGGAACTCAAATGGTACGAACATTC 59.588 40.000 0.00 0.00 37.55 2.67
2148 6749 5.411669 GGAACTCAAATGGTACGAACATTCT 59.588 40.000 0.00 0.00 37.55 2.40
2149 6750 6.592607 GGAACTCAAATGGTACGAACATTCTA 59.407 38.462 0.00 0.00 37.55 2.10
2150 6751 7.118680 GGAACTCAAATGGTACGAACATTCTAA 59.881 37.037 0.00 0.00 37.55 2.10
2151 6752 8.561738 AACTCAAATGGTACGAACATTCTAAT 57.438 30.769 0.00 0.00 37.55 1.73
2152 6753 8.561738 ACTCAAATGGTACGAACATTCTAATT 57.438 30.769 0.00 0.00 37.55 1.40
2153 6754 8.665685 ACTCAAATGGTACGAACATTCTAATTC 58.334 33.333 0.00 0.00 37.55 2.17
2154 6755 8.786826 TCAAATGGTACGAACATTCTAATTCT 57.213 30.769 0.00 0.00 37.55 2.40
2155 6756 8.879759 TCAAATGGTACGAACATTCTAATTCTC 58.120 33.333 0.00 0.00 37.55 2.87
2156 6757 8.664798 CAAATGGTACGAACATTCTAATTCTCA 58.335 33.333 0.00 0.00 37.55 3.27
2157 6758 8.786826 AATGGTACGAACATTCTAATTCTCAA 57.213 30.769 0.00 0.00 33.51 3.02
2158 6759 8.964476 ATGGTACGAACATTCTAATTCTCAAT 57.036 30.769 0.00 0.00 0.00 2.57
2159 6760 8.786826 TGGTACGAACATTCTAATTCTCAATT 57.213 30.769 0.00 0.00 34.90 2.32
2160 6761 9.226606 TGGTACGAACATTCTAATTCTCAATTT 57.773 29.630 0.00 0.00 32.38 1.82
2174 6775 9.973661 TAATTCTCAATTTATCCTGAAAGGTGA 57.026 29.630 0.00 0.00 42.92 4.02
2187 6788 6.438259 CTGAAAGGTGATTCGAGTACTAGA 57.562 41.667 1.01 1.01 31.80 2.43
2188 6789 7.033530 CTGAAAGGTGATTCGAGTACTAGAT 57.966 40.000 6.52 0.00 31.80 1.98
2189 6790 8.155821 CTGAAAGGTGATTCGAGTACTAGATA 57.844 38.462 6.52 0.00 31.80 1.98
2190 6791 8.693120 TGAAAGGTGATTCGAGTACTAGATAT 57.307 34.615 6.52 3.91 31.80 1.63
2191 6792 9.132923 TGAAAGGTGATTCGAGTACTAGATATT 57.867 33.333 6.52 0.00 31.80 1.28
2192 6793 9.968870 GAAAGGTGATTCGAGTACTAGATATTT 57.031 33.333 6.52 2.88 0.00 1.40
2194 6795 9.968870 AAGGTGATTCGAGTACTAGATATTTTC 57.031 33.333 6.52 1.28 0.00 2.29
2195 6796 9.132923 AGGTGATTCGAGTACTAGATATTTTCA 57.867 33.333 6.52 3.54 0.00 2.69
2196 6797 9.915629 GGTGATTCGAGTACTAGATATTTTCAT 57.084 33.333 6.52 0.00 0.00 2.57
2198 6799 9.914131 TGATTCGAGTACTAGATATTTTCATGG 57.086 33.333 6.52 0.00 0.00 3.66
2201 6802 8.693120 TCGAGTACTAGATATTTTCATGGAGT 57.307 34.615 1.01 0.00 0.00 3.85
2202 6803 8.784994 TCGAGTACTAGATATTTTCATGGAGTC 58.215 37.037 1.01 0.00 0.00 3.36
2203 6804 7.746916 CGAGTACTAGATATTTTCATGGAGTCG 59.253 40.741 0.00 0.00 32.93 4.18
2238 6839 2.680339 GTCAAGGCAGAGCATTACTTCC 59.320 50.000 0.00 0.00 29.32 3.46
2244 6845 3.314635 GGCAGAGCATTACTTCCATGAAG 59.685 47.826 0.00 2.40 44.37 3.02
2252 6853 9.113838 GAGCATTACTTCCATGAAGAAGATTTA 57.886 33.333 15.93 0.00 45.08 1.40
2311 7070 3.883830 AGATGCACTCGACAAATCTCT 57.116 42.857 0.00 0.00 0.00 3.10
2328 7087 4.098055 TCTCTCGTCAGTTGCTATTGTC 57.902 45.455 0.00 0.00 0.00 3.18
2333 7092 5.048294 TCTCGTCAGTTGCTATTGTCTGTAA 60.048 40.000 0.00 0.00 0.00 2.41
2334 7093 5.534407 TCGTCAGTTGCTATTGTCTGTAAA 58.466 37.500 0.00 0.00 0.00 2.01
2375 7134 8.834749 ATTTAAGTCTCTAGTTGTCCTTGTTC 57.165 34.615 0.00 0.00 0.00 3.18
2383 7142 4.098914 AGTTGTCCTTGTTCATTGCCTA 57.901 40.909 0.00 0.00 0.00 3.93
2384 7143 4.666512 AGTTGTCCTTGTTCATTGCCTAT 58.333 39.130 0.00 0.00 0.00 2.57
2502 7545 6.379988 ACCCAAATACCATTAATGAAGGTGTC 59.620 38.462 17.23 0.00 36.87 3.67
2506 7549 3.968265 ACCATTAATGAAGGTGTCTGGG 58.032 45.455 17.23 0.00 33.57 4.45
2507 7550 3.591527 ACCATTAATGAAGGTGTCTGGGA 59.408 43.478 17.23 0.00 33.57 4.37
2510 7553 5.658190 CCATTAATGAAGGTGTCTGGGAAAT 59.342 40.000 17.23 0.00 0.00 2.17
2512 7555 7.341769 CCATTAATGAAGGTGTCTGGGAAATTA 59.658 37.037 17.23 0.00 0.00 1.40
2513 7556 7.938140 TTAATGAAGGTGTCTGGGAAATTAG 57.062 36.000 0.00 0.00 0.00 1.73
2514 7557 4.301072 TGAAGGTGTCTGGGAAATTAGG 57.699 45.455 0.00 0.00 0.00 2.69
2534 7577 5.574970 AGGAAAAAGGACACAGAGAGAAT 57.425 39.130 0.00 0.00 0.00 2.40
2619 8341 5.635549 TTCAATCATTATCGCACTACGTG 57.364 39.130 0.00 0.00 44.19 4.49
2620 8342 4.927422 TCAATCATTATCGCACTACGTGA 58.073 39.130 0.00 0.00 44.19 4.35
2630 8352 2.531206 GCACTACGTGAGCCTCTTTAG 58.469 52.381 0.00 0.00 35.23 1.85
2640 8362 4.396478 GTGAGCCTCTTTAGTTCATTTCCC 59.604 45.833 0.00 0.00 0.00 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 7.761249 GCTGATTTTAGAATATGCCACAACTTT 59.239 33.333 0.00 0.00 0.00 2.66
9 10 7.093814 TGCTGATTTTAGAATATGCCACAACTT 60.094 33.333 0.00 0.00 0.00 2.66
108 109 6.723298 TTGGCTTTTGAGAAAACCAAGATA 57.277 33.333 3.37 0.00 37.00 1.98
244 248 6.142320 GCAACTATGTAAACTTTGTGCAAGAC 59.858 38.462 0.00 0.00 36.21 3.01
301 327 5.413309 AATGTCCAACCACAAGAAAAACA 57.587 34.783 0.00 0.00 0.00 2.83
302 328 8.334632 CAATAAATGTCCAACCACAAGAAAAAC 58.665 33.333 0.00 0.00 0.00 2.43
303 329 8.260818 TCAATAAATGTCCAACCACAAGAAAAA 58.739 29.630 0.00 0.00 0.00 1.94
337 366 4.796312 GCACACGAATTTTGTAAACTGTGT 59.204 37.500 0.00 0.00 39.68 3.72
493 688 9.942850 TTCATATTGTGTGACTAGAATTCAGAA 57.057 29.630 8.44 0.00 0.00 3.02
583 783 0.758734 ACTCAACTAGCACAGTGCCA 59.241 50.000 22.41 7.83 46.52 4.92
678 879 4.350441 TGACGGTGCGACGATGCA 62.350 61.111 0.00 2.31 43.95 3.96
679 880 3.545481 CTGACGGTGCGACGATGC 61.545 66.667 0.00 0.00 37.61 3.91
691 892 2.558795 TCTTTGGAACTCTCTCCTGACG 59.441 50.000 0.00 0.00 36.35 4.35
770 999 3.192001 AGGCGTGATAAGTCGTTTCTACA 59.808 43.478 0.00 0.00 0.00 2.74
783 1012 7.722363 TGATTTCAACTATTCTAGGCGTGATA 58.278 34.615 0.00 0.00 0.00 2.15
805 1034 1.180029 GAAGCCCAGCACATGTTGAT 58.820 50.000 0.00 0.00 0.00 2.57
817 1046 0.609131 GGCAAGCTAGTTGAAGCCCA 60.609 55.000 6.68 0.00 43.86 5.36
858 1087 0.623723 ATGGTTCTACCGTTGGCCAT 59.376 50.000 6.09 0.00 42.58 4.40
859 1088 0.402504 AATGGTTCTACCGTTGGCCA 59.597 50.000 0.00 0.00 45.29 5.36
886 1149 7.069085 ACGTTGGTGTGTATATATAGGTGAACT 59.931 37.037 0.00 0.00 0.00 3.01
966 4721 0.107116 ACGATGGAGTAGGAGACGCT 60.107 55.000 0.00 0.00 0.00 5.07
976 4734 1.338337 GATCACGATGGACGATGGAGT 59.662 52.381 0.00 0.00 45.77 3.85
998 4756 0.038166 TTGTGGACTTGGAGGCATCC 59.962 55.000 11.34 11.34 46.87 3.51
1074 4841 0.036105 CTGCAGGTGCTATGGTCACA 60.036 55.000 5.57 0.00 42.66 3.58
1125 4895 1.141019 GGCGCTCGACATGACCTTA 59.859 57.895 7.64 0.00 0.00 2.69
1146 4916 4.008933 AGGAGCTGCGCGAGGTTT 62.009 61.111 12.10 0.40 30.42 3.27
1204 4974 1.877443 CTTGTCGTGGTTGGTAAAGGG 59.123 52.381 0.00 0.00 0.00 3.95
1220 4990 1.109323 GTTGGAGGCCTTGCACTTGT 61.109 55.000 6.77 0.00 0.00 3.16
1278 5048 3.520721 TGAAGGAGAAGAGGATGCATTGA 59.479 43.478 0.00 0.00 0.00 2.57
1280 5050 3.371380 GGTGAAGGAGAAGAGGATGCATT 60.371 47.826 0.00 0.00 0.00 3.56
1366 5136 8.010733 TCCTCTTTGTCAGAAAAATTGAACAT 57.989 30.769 0.00 0.00 0.00 2.71
1377 5147 3.643320 TCAGCTTCTCCTCTTTGTCAGAA 59.357 43.478 0.00 0.00 0.00 3.02
1380 5150 3.389329 ACTTCAGCTTCTCCTCTTTGTCA 59.611 43.478 0.00 0.00 0.00 3.58
1384 5154 2.975489 TCCACTTCAGCTTCTCCTCTTT 59.025 45.455 0.00 0.00 0.00 2.52
1436 5206 1.827789 TGCAAAAAGTCCAGCGGCT 60.828 52.632 0.00 0.00 0.00 5.52
1486 5256 1.105167 CCCATGTCGCTGAATGCCAT 61.105 55.000 0.00 0.00 38.78 4.40
1491 5261 0.179045 GTAGCCCCATGTCGCTGAAT 60.179 55.000 12.71 0.00 36.53 2.57
1501 5271 2.171003 GAAGCAGTTTTGTAGCCCCAT 58.829 47.619 0.00 0.00 0.00 4.00
1589 5920 4.338118 GGAAGACCATGAACACAAAACTCA 59.662 41.667 0.00 0.00 35.97 3.41
1641 5972 3.555795 GCTTCTCATGAGGAGTTGTGTCA 60.556 47.826 28.19 1.28 44.40 3.58
1647 5978 3.172339 AGTGAGCTTCTCATGAGGAGTT 58.828 45.455 28.19 24.17 42.73 3.01
1655 5986 6.705302 TCTAAACATCAAGTGAGCTTCTCAT 58.295 36.000 0.00 0.00 42.73 2.90
1777 6204 4.925054 CCATGCCATGAACAAACTAAACAG 59.075 41.667 6.18 0.00 0.00 3.16
1795 6222 2.682856 ACATACACGAATGGTTCCATGC 59.317 45.455 5.02 2.34 0.00 4.06
1917 6377 3.738282 GCACGCATTTTTGTTATTCCACA 59.262 39.130 0.00 0.00 0.00 4.17
1920 6380 5.529014 AATGCACGCATTTTTGTTATTCC 57.471 34.783 11.41 0.00 43.32 3.01
1921 6381 7.276953 AGTAATGCACGCATTTTTGTTATTC 57.723 32.000 21.32 3.57 43.32 1.75
1922 6382 7.650834 AAGTAATGCACGCATTTTTGTTATT 57.349 28.000 21.32 5.16 43.32 1.40
1923 6383 8.749841 TTAAGTAATGCACGCATTTTTGTTAT 57.250 26.923 21.32 5.62 43.32 1.89
1924 6384 8.575565 TTTAAGTAATGCACGCATTTTTGTTA 57.424 26.923 21.32 11.43 43.32 2.41
1935 6536 5.799936 CACCAAGGAATTTAAGTAATGCACG 59.200 40.000 0.00 0.00 0.00 5.34
1937 6538 5.777732 ACCACCAAGGAATTTAAGTAATGCA 59.222 36.000 0.00 0.00 41.22 3.96
1938 6539 6.280855 ACCACCAAGGAATTTAAGTAATGC 57.719 37.500 0.00 0.00 41.22 3.56
1940 6541 7.123697 GCCTAACCACCAAGGAATTTAAGTAAT 59.876 37.037 0.00 0.00 41.22 1.89
1942 6543 5.947566 GCCTAACCACCAAGGAATTTAAGTA 59.052 40.000 0.00 0.00 41.22 2.24
1944 6545 5.016831 AGCCTAACCACCAAGGAATTTAAG 58.983 41.667 0.00 0.00 41.22 1.85
1945 6546 5.005628 AGCCTAACCACCAAGGAATTTAA 57.994 39.130 0.00 0.00 41.22 1.52
1947 6548 3.542969 AGCCTAACCACCAAGGAATTT 57.457 42.857 0.00 0.00 41.22 1.82
1948 6549 3.053619 CCTAGCCTAACCACCAAGGAATT 60.054 47.826 0.00 0.00 41.22 2.17
1950 6551 1.913419 CCTAGCCTAACCACCAAGGAA 59.087 52.381 0.00 0.00 41.22 3.36
1952 6553 0.107165 GCCTAGCCTAACCACCAAGG 60.107 60.000 0.00 0.00 45.67 3.61
1953 6554 0.618458 TGCCTAGCCTAACCACCAAG 59.382 55.000 0.00 0.00 0.00 3.61
1954 6555 1.295020 ATGCCTAGCCTAACCACCAA 58.705 50.000 0.00 0.00 0.00 3.67
1955 6556 1.766496 GTATGCCTAGCCTAACCACCA 59.234 52.381 0.00 0.00 0.00 4.17
1957 6558 1.270147 CCGTATGCCTAGCCTAACCAC 60.270 57.143 0.00 0.00 0.00 4.16
1958 6559 1.045407 CCGTATGCCTAGCCTAACCA 58.955 55.000 0.00 0.00 0.00 3.67
1959 6560 1.046204 ACCGTATGCCTAGCCTAACC 58.954 55.000 0.00 0.00 0.00 2.85
1960 6561 1.270147 CCACCGTATGCCTAGCCTAAC 60.270 57.143 0.00 0.00 0.00 2.34
1963 6564 2.140792 CCCACCGTATGCCTAGCCT 61.141 63.158 0.00 0.00 0.00 4.58
1964 6565 1.117142 TACCCACCGTATGCCTAGCC 61.117 60.000 0.00 0.00 0.00 3.93
1966 6567 3.863142 GTATACCCACCGTATGCCTAG 57.137 52.381 0.00 0.00 38.19 3.02
1970 6571 1.965643 TGAGGTATACCCACCGTATGC 59.034 52.381 18.65 0.00 43.84 3.14
1971 6572 4.675976 TTTGAGGTATACCCACCGTATG 57.324 45.455 18.65 0.00 43.84 2.39
1972 6573 5.426185 TCTTTTTGAGGTATACCCACCGTAT 59.574 40.000 18.65 0.00 43.84 3.06
1973 6574 4.776837 TCTTTTTGAGGTATACCCACCGTA 59.223 41.667 18.65 0.11 43.84 4.02
1974 6575 3.583966 TCTTTTTGAGGTATACCCACCGT 59.416 43.478 18.65 0.00 43.84 4.83
1975 6576 4.210724 TCTTTTTGAGGTATACCCACCG 57.789 45.455 18.65 1.53 43.84 4.94
1976 6577 5.812286 TCTTCTTTTTGAGGTATACCCACC 58.188 41.667 18.65 8.74 39.02 4.61
1977 6578 6.127980 GCTTCTTCTTTTTGAGGTATACCCAC 60.128 42.308 18.65 13.19 36.42 4.61
1979 6580 6.181190 AGCTTCTTCTTTTTGAGGTATACCC 58.819 40.000 18.65 10.49 36.42 3.69
1980 6581 7.413109 CGAAGCTTCTTCTTTTTGAGGTATACC 60.413 40.741 23.50 14.54 0.00 2.73
1981 6582 7.117956 ACGAAGCTTCTTCTTTTTGAGGTATAC 59.882 37.037 23.50 0.00 0.00 1.47
1982 6583 7.159372 ACGAAGCTTCTTCTTTTTGAGGTATA 58.841 34.615 23.50 0.00 0.00 1.47
1984 6585 5.365619 ACGAAGCTTCTTCTTTTTGAGGTA 58.634 37.500 23.50 0.00 0.00 3.08
1985 6586 4.200092 ACGAAGCTTCTTCTTTTTGAGGT 58.800 39.130 23.50 7.09 0.00 3.85
1986 6587 4.513318 AGACGAAGCTTCTTCTTTTTGAGG 59.487 41.667 25.35 8.50 32.59 3.86
1987 6588 5.665381 AGACGAAGCTTCTTCTTTTTGAG 57.335 39.130 25.35 8.97 32.59 3.02
1988 6589 6.436843 AAAGACGAAGCTTCTTCTTTTTGA 57.563 33.333 36.62 0.00 46.88 2.69
1993 6594 5.546526 AGATGAAAGACGAAGCTTCTTCTT 58.453 37.500 31.75 31.75 44.54 2.52
1994 6595 5.146010 AGATGAAAGACGAAGCTTCTTCT 57.854 39.130 25.35 25.35 37.39 2.85
1995 6596 6.754209 TGATAGATGAAAGACGAAGCTTCTTC 59.246 38.462 21.95 21.95 31.87 2.87
1996 6597 6.634805 TGATAGATGAAAGACGAAGCTTCTT 58.365 36.000 23.50 15.25 34.66 2.52
1997 6598 6.214191 TGATAGATGAAAGACGAAGCTTCT 57.786 37.500 23.50 11.09 0.00 2.85
1998 6599 7.223582 TCAATGATAGATGAAAGACGAAGCTTC 59.776 37.037 16.84 16.84 0.00 3.86
1999 6600 7.044181 TCAATGATAGATGAAAGACGAAGCTT 58.956 34.615 0.00 0.00 0.00 3.74
2000 6601 6.577103 TCAATGATAGATGAAAGACGAAGCT 58.423 36.000 0.00 0.00 0.00 3.74
2001 6602 6.834959 TCAATGATAGATGAAAGACGAAGC 57.165 37.500 0.00 0.00 0.00 3.86
2015 6616 9.894783 CCAAAGCTTCTAATTCATCAATGATAG 57.105 33.333 0.00 0.00 36.56 2.08
2016 6617 8.355169 GCCAAAGCTTCTAATTCATCAATGATA 58.645 33.333 0.00 0.00 34.49 2.15
2017 6618 7.147794 TGCCAAAGCTTCTAATTCATCAATGAT 60.148 33.333 0.00 0.00 40.80 2.45
2019 6620 6.334989 TGCCAAAGCTTCTAATTCATCAATG 58.665 36.000 0.00 0.00 40.80 2.82
2020 6621 6.379133 TCTGCCAAAGCTTCTAATTCATCAAT 59.621 34.615 0.00 0.00 40.80 2.57
2021 6622 5.711506 TCTGCCAAAGCTTCTAATTCATCAA 59.288 36.000 0.00 0.00 40.80 2.57
2023 6624 5.221009 CCTCTGCCAAAGCTTCTAATTCATC 60.221 44.000 0.00 0.00 40.80 2.92
2024 6625 4.643784 CCTCTGCCAAAGCTTCTAATTCAT 59.356 41.667 0.00 0.00 40.80 2.57
2025 6626 4.012374 CCTCTGCCAAAGCTTCTAATTCA 58.988 43.478 0.00 0.00 40.80 2.57
2026 6627 4.013050 ACCTCTGCCAAAGCTTCTAATTC 58.987 43.478 0.00 0.00 40.80 2.17
2027 6628 4.039603 ACCTCTGCCAAAGCTTCTAATT 57.960 40.909 0.00 0.00 40.80 1.40
2031 6632 2.290577 CCTAACCTCTGCCAAAGCTTCT 60.291 50.000 0.00 0.00 40.80 2.85
2033 6634 1.888391 GCCTAACCTCTGCCAAAGCTT 60.888 52.381 0.00 0.00 40.80 3.74
2034 6635 0.322906 GCCTAACCTCTGCCAAAGCT 60.323 55.000 0.00 0.00 40.80 3.74
2035 6636 1.315981 GGCCTAACCTCTGCCAAAGC 61.316 60.000 0.00 0.00 44.70 3.51
2036 6637 2.873797 GGCCTAACCTCTGCCAAAG 58.126 57.895 0.00 0.00 44.70 2.77
2046 6647 2.320781 TGCTCAGATAGAGGCCTAACC 58.679 52.381 4.42 0.00 44.86 2.85
2047 6648 3.576118 TCATGCTCAGATAGAGGCCTAAC 59.424 47.826 4.42 0.00 44.86 2.34
2048 6649 3.849527 TCATGCTCAGATAGAGGCCTAA 58.150 45.455 4.42 0.00 44.86 2.69
2049 6650 3.532641 TCATGCTCAGATAGAGGCCTA 57.467 47.619 4.42 0.00 44.86 3.93
2051 6652 3.482156 TTTCATGCTCAGATAGAGGCC 57.518 47.619 0.00 0.00 44.86 5.19
2056 6657 8.754230 TTTATCTCGATTTCATGCTCAGATAG 57.246 34.615 0.00 0.00 0.00 2.08
2057 6658 9.546428 TTTTTATCTCGATTTCATGCTCAGATA 57.454 29.630 0.00 0.00 0.00 1.98
2058 6659 8.442632 TTTTTATCTCGATTTCATGCTCAGAT 57.557 30.769 0.00 0.00 0.00 2.90
2059 6660 7.848223 TTTTTATCTCGATTTCATGCTCAGA 57.152 32.000 0.00 0.00 0.00 3.27
2080 6681 6.694411 GCTATCTGTGCATTCGAATGATTTTT 59.306 34.615 36.10 19.38 38.70 1.94
2081 6682 6.039047 AGCTATCTGTGCATTCGAATGATTTT 59.961 34.615 36.10 18.92 38.70 1.82
2082 6683 5.530171 AGCTATCTGTGCATTCGAATGATTT 59.470 36.000 36.10 18.04 38.70 2.17
2085 6686 4.063998 AGCTATCTGTGCATTCGAATGA 57.936 40.909 36.10 20.64 38.70 2.57
2086 6687 5.234972 TGTTAGCTATCTGTGCATTCGAATG 59.765 40.000 29.67 29.67 39.40 2.67
2087 6688 5.359756 TGTTAGCTATCTGTGCATTCGAAT 58.640 37.500 4.39 4.39 0.00 3.34
2088 6689 4.754322 TGTTAGCTATCTGTGCATTCGAA 58.246 39.130 0.00 0.00 0.00 3.71
2089 6690 4.385358 TGTTAGCTATCTGTGCATTCGA 57.615 40.909 0.00 0.00 0.00 3.71
2090 6691 4.509230 ACATGTTAGCTATCTGTGCATTCG 59.491 41.667 0.00 0.00 0.00 3.34
2091 6692 5.998454 ACATGTTAGCTATCTGTGCATTC 57.002 39.130 0.00 0.00 0.00 2.67
2092 6693 5.449588 GCAACATGTTAGCTATCTGTGCATT 60.450 40.000 11.53 0.00 0.00 3.56
2093 6694 4.036027 GCAACATGTTAGCTATCTGTGCAT 59.964 41.667 11.53 0.00 0.00 3.96
2094 6695 3.374988 GCAACATGTTAGCTATCTGTGCA 59.625 43.478 11.53 0.00 0.00 4.57
2095 6696 3.544834 CGCAACATGTTAGCTATCTGTGC 60.545 47.826 22.12 13.80 0.00 4.57
2096 6697 3.618594 ACGCAACATGTTAGCTATCTGTG 59.381 43.478 22.12 13.78 0.00 3.66
2097 6698 3.618594 CACGCAACATGTTAGCTATCTGT 59.381 43.478 22.12 13.75 0.00 3.41
2098 6699 3.865164 TCACGCAACATGTTAGCTATCTG 59.135 43.478 22.12 14.82 0.00 2.90
2099 6700 4.123497 TCACGCAACATGTTAGCTATCT 57.877 40.909 22.12 7.17 0.00 1.98
2100 6701 4.566759 TCTTCACGCAACATGTTAGCTATC 59.433 41.667 22.12 0.00 0.00 2.08
2101 6702 4.503910 TCTTCACGCAACATGTTAGCTAT 58.496 39.130 22.12 12.67 0.00 2.97
2102 6703 3.920446 TCTTCACGCAACATGTTAGCTA 58.080 40.909 22.12 0.00 0.00 3.32
2103 6704 2.738846 CTCTTCACGCAACATGTTAGCT 59.261 45.455 22.12 12.02 0.00 3.32
2104 6705 2.159653 CCTCTTCACGCAACATGTTAGC 60.160 50.000 11.53 15.44 0.00 3.09
2105 6706 3.325870 TCCTCTTCACGCAACATGTTAG 58.674 45.455 11.53 10.95 0.00 2.34
2106 6707 3.394674 TCCTCTTCACGCAACATGTTA 57.605 42.857 11.53 0.00 0.00 2.41
2107 6708 2.254546 TCCTCTTCACGCAACATGTT 57.745 45.000 4.92 4.92 0.00 2.71
2108 6709 1.873591 GTTCCTCTTCACGCAACATGT 59.126 47.619 0.00 0.00 0.00 3.21
2109 6710 2.146342 AGTTCCTCTTCACGCAACATG 58.854 47.619 0.00 0.00 0.00 3.21
2110 6711 2.224281 TGAGTTCCTCTTCACGCAACAT 60.224 45.455 0.00 0.00 0.00 2.71
2111 6712 1.138069 TGAGTTCCTCTTCACGCAACA 59.862 47.619 0.00 0.00 0.00 3.33
2112 6713 1.865865 TGAGTTCCTCTTCACGCAAC 58.134 50.000 0.00 0.00 0.00 4.17
2113 6714 2.613026 TTGAGTTCCTCTTCACGCAA 57.387 45.000 0.00 0.00 31.25 4.85
2114 6715 2.613026 TTTGAGTTCCTCTTCACGCA 57.387 45.000 0.00 0.00 0.00 5.24
2115 6716 2.160417 CCATTTGAGTTCCTCTTCACGC 59.840 50.000 0.00 0.00 0.00 5.34
2116 6717 3.403038 ACCATTTGAGTTCCTCTTCACG 58.597 45.455 0.00 0.00 0.00 4.35
2117 6718 4.389077 CGTACCATTTGAGTTCCTCTTCAC 59.611 45.833 0.00 0.00 0.00 3.18
2118 6719 4.282449 TCGTACCATTTGAGTTCCTCTTCA 59.718 41.667 0.00 0.00 0.00 3.02
2119 6720 4.817517 TCGTACCATTTGAGTTCCTCTTC 58.182 43.478 0.00 0.00 0.00 2.87
2120 6721 4.884668 TCGTACCATTTGAGTTCCTCTT 57.115 40.909 0.00 0.00 0.00 2.85
2121 6722 4.039973 TGTTCGTACCATTTGAGTTCCTCT 59.960 41.667 0.00 0.00 0.00 3.69
2122 6723 4.312443 TGTTCGTACCATTTGAGTTCCTC 58.688 43.478 0.00 0.00 0.00 3.71
2123 6724 4.345859 TGTTCGTACCATTTGAGTTCCT 57.654 40.909 0.00 0.00 0.00 3.36
2124 6725 5.411669 AGAATGTTCGTACCATTTGAGTTCC 59.588 40.000 0.00 0.00 32.84 3.62
2125 6726 6.481954 AGAATGTTCGTACCATTTGAGTTC 57.518 37.500 0.00 0.00 32.84 3.01
2126 6727 7.972832 TTAGAATGTTCGTACCATTTGAGTT 57.027 32.000 0.00 0.00 32.84 3.01
2127 6728 8.561738 AATTAGAATGTTCGTACCATTTGAGT 57.438 30.769 0.00 0.00 32.84 3.41
2128 6729 8.883731 AGAATTAGAATGTTCGTACCATTTGAG 58.116 33.333 0.00 0.00 32.84 3.02
2129 6730 8.786826 AGAATTAGAATGTTCGTACCATTTGA 57.213 30.769 0.00 0.00 32.84 2.69
2130 6731 8.664798 TGAGAATTAGAATGTTCGTACCATTTG 58.335 33.333 0.00 0.00 32.84 2.32
2131 6732 8.786826 TGAGAATTAGAATGTTCGTACCATTT 57.213 30.769 0.00 0.00 32.84 2.32
2132 6733 8.786826 TTGAGAATTAGAATGTTCGTACCATT 57.213 30.769 0.00 0.00 35.30 3.16
2133 6734 8.964476 ATTGAGAATTAGAATGTTCGTACCAT 57.036 30.769 0.00 0.00 0.00 3.55
2134 6735 8.786826 AATTGAGAATTAGAATGTTCGTACCA 57.213 30.769 0.00 0.00 0.00 3.25
2148 6749 9.973661 TCACCTTTCAGGATAAATTGAGAATTA 57.026 29.630 0.00 0.00 37.67 1.40
2149 6750 8.884124 TCACCTTTCAGGATAAATTGAGAATT 57.116 30.769 0.00 0.00 37.67 2.17
2150 6751 9.484806 AATCACCTTTCAGGATAAATTGAGAAT 57.515 29.630 0.00 0.00 37.67 2.40
2151 6752 8.884124 AATCACCTTTCAGGATAAATTGAGAA 57.116 30.769 0.00 0.00 37.67 2.87
2152 6753 7.280876 CGAATCACCTTTCAGGATAAATTGAGA 59.719 37.037 0.00 0.00 37.67 3.27
2153 6754 7.280876 TCGAATCACCTTTCAGGATAAATTGAG 59.719 37.037 0.00 0.00 37.67 3.02
2154 6755 7.109501 TCGAATCACCTTTCAGGATAAATTGA 58.890 34.615 0.00 0.00 37.67 2.57
2155 6756 7.066284 ACTCGAATCACCTTTCAGGATAAATTG 59.934 37.037 0.00 0.00 37.67 2.32
2156 6757 7.112779 ACTCGAATCACCTTTCAGGATAAATT 58.887 34.615 0.00 0.00 37.67 1.82
2157 6758 6.653989 ACTCGAATCACCTTTCAGGATAAAT 58.346 36.000 0.00 0.00 37.67 1.40
2158 6759 6.049955 ACTCGAATCACCTTTCAGGATAAA 57.950 37.500 0.00 0.00 37.67 1.40
2159 6760 5.677319 ACTCGAATCACCTTTCAGGATAA 57.323 39.130 0.00 0.00 37.67 1.75
2160 6761 5.892119 AGTACTCGAATCACCTTTCAGGATA 59.108 40.000 0.00 0.00 37.67 2.59
2161 6762 4.712337 AGTACTCGAATCACCTTTCAGGAT 59.288 41.667 0.00 0.00 37.67 3.24
2162 6763 4.087182 AGTACTCGAATCACCTTTCAGGA 58.913 43.478 0.00 0.00 37.67 3.86
2163 6764 4.457834 AGTACTCGAATCACCTTTCAGG 57.542 45.455 0.00 0.00 42.49 3.86
2164 6765 6.438259 TCTAGTACTCGAATCACCTTTCAG 57.562 41.667 0.00 0.00 0.00 3.02
2165 6766 8.693120 ATATCTAGTACTCGAATCACCTTTCA 57.307 34.615 0.00 0.00 0.00 2.69
2166 6767 9.968870 AAATATCTAGTACTCGAATCACCTTTC 57.031 33.333 0.00 0.00 0.00 2.62
2168 6769 9.968870 GAAAATATCTAGTACTCGAATCACCTT 57.031 33.333 0.00 0.00 0.00 3.50
2169 6770 9.132923 TGAAAATATCTAGTACTCGAATCACCT 57.867 33.333 0.00 0.00 0.00 4.00
2170 6771 9.915629 ATGAAAATATCTAGTACTCGAATCACC 57.084 33.333 0.00 0.00 0.00 4.02
2172 6773 9.914131 CCATGAAAATATCTAGTACTCGAATCA 57.086 33.333 0.00 1.24 0.00 2.57
2175 6776 9.132923 ACTCCATGAAAATATCTAGTACTCGAA 57.867 33.333 0.00 0.00 0.00 3.71
2176 6777 8.693120 ACTCCATGAAAATATCTAGTACTCGA 57.307 34.615 0.00 0.00 0.00 4.04
2177 6778 7.746916 CGACTCCATGAAAATATCTAGTACTCG 59.253 40.741 0.00 0.00 0.00 4.18
2178 6779 7.539366 GCGACTCCATGAAAATATCTAGTACTC 59.461 40.741 0.00 0.00 0.00 2.59
2179 6780 7.371936 GCGACTCCATGAAAATATCTAGTACT 58.628 38.462 0.00 0.00 0.00 2.73
2180 6781 6.586844 GGCGACTCCATGAAAATATCTAGTAC 59.413 42.308 0.00 0.00 34.01 2.73
2181 6782 6.493802 AGGCGACTCCATGAAAATATCTAGTA 59.506 38.462 0.00 0.00 32.90 1.82
2182 6783 5.305644 AGGCGACTCCATGAAAATATCTAGT 59.694 40.000 0.00 0.00 32.90 2.57
2183 6784 5.788450 AGGCGACTCCATGAAAATATCTAG 58.212 41.667 0.00 0.00 32.90 2.43
2184 6785 5.808366 AGGCGACTCCATGAAAATATCTA 57.192 39.130 0.00 0.00 32.90 1.98
2185 6786 4.696479 AGGCGACTCCATGAAAATATCT 57.304 40.909 0.00 0.00 32.90 1.98
2200 6801 1.079503 GACTTTCACCATGAGGCGAC 58.920 55.000 0.00 0.00 39.06 5.19
2201 6802 0.684535 TGACTTTCACCATGAGGCGA 59.315 50.000 0.00 0.00 39.06 5.54
2202 6803 1.466167 CTTGACTTTCACCATGAGGCG 59.534 52.381 0.00 0.00 39.06 5.52
2203 6804 1.815003 CCTTGACTTTCACCATGAGGC 59.185 52.381 0.00 0.00 39.06 4.70
2238 6839 7.636150 ACTCAACCCATAAATCTTCTTCATG 57.364 36.000 0.00 0.00 0.00 3.07
2244 6845 8.110860 TCTTGAAACTCAACCCATAAATCTTC 57.889 34.615 0.00 0.00 32.21 2.87
2247 6848 9.143631 CATTTCTTGAAACTCAACCCATAAATC 57.856 33.333 0.00 0.00 32.21 2.17
2252 6853 6.484364 AACATTTCTTGAAACTCAACCCAT 57.516 33.333 0.00 0.00 32.21 4.00
2294 7053 1.269723 ACGAGAGATTTGTCGAGTGCA 59.730 47.619 9.89 0.00 42.21 4.57
2311 7070 3.660501 ACAGACAATAGCAACTGACGA 57.339 42.857 0.00 0.00 34.88 4.20
2368 7127 8.641498 AGGATAATTATAGGCAATGAACAAGG 57.359 34.615 0.00 0.00 0.00 3.61
2410 7422 7.573968 AAATCTTCATTCTGCCTAATACCAC 57.426 36.000 0.00 0.00 0.00 4.16
2419 7431 9.590451 TTTCATTTCATAAATCTTCATTCTGCC 57.410 29.630 0.00 0.00 0.00 4.85
2452 7495 2.846206 TGAACCCAATGCCATAGACTCT 59.154 45.455 0.00 0.00 0.00 3.24
2455 7498 3.953612 TCAATGAACCCAATGCCATAGAC 59.046 43.478 0.00 0.00 0.00 2.59
2488 7531 7.561356 CCTAATTTCCCAGACACCTTCATTAAT 59.439 37.037 0.00 0.00 0.00 1.40
2502 7545 5.538433 TGTGTCCTTTTTCCTAATTTCCCAG 59.462 40.000 0.00 0.00 0.00 4.45
2506 7549 7.661847 TCTCTCTGTGTCCTTTTTCCTAATTTC 59.338 37.037 0.00 0.00 0.00 2.17
2507 7550 7.518188 TCTCTCTGTGTCCTTTTTCCTAATTT 58.482 34.615 0.00 0.00 0.00 1.82
2510 7553 6.494666 TTCTCTCTGTGTCCTTTTTCCTAA 57.505 37.500 0.00 0.00 0.00 2.69
2512 7555 5.309282 AGATTCTCTCTGTGTCCTTTTTCCT 59.691 40.000 0.00 0.00 31.12 3.36
2513 7556 5.555966 AGATTCTCTCTGTGTCCTTTTTCC 58.444 41.667 0.00 0.00 31.12 3.13
2514 7557 6.567511 GCAAGATTCTCTCTGTGTCCTTTTTC 60.568 42.308 0.00 0.00 33.29 2.29
2545 7588 6.645003 GGTTGGGTATTTAGTTGCTTCAAAAG 59.355 38.462 0.00 0.00 0.00 2.27
2549 7592 4.730966 TGGTTGGGTATTTAGTTGCTTCA 58.269 39.130 0.00 0.00 0.00 3.02
2554 7597 8.575649 AGTATTTCTGGTTGGGTATTTAGTTG 57.424 34.615 0.00 0.00 0.00 3.16
2619 8341 3.623510 CGGGAAATGAACTAAAGAGGCTC 59.376 47.826 6.34 6.34 0.00 4.70
2620 8342 3.263425 TCGGGAAATGAACTAAAGAGGCT 59.737 43.478 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.