Multiple sequence alignment - TraesCS6B01G109700

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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 TraesCS6B01G109700 chr6B 100.000 3116 0 0 1 3116 91202479 91205594 0.000000e+00 5755.0
1 TraesCS6B01G109700 chr6B 85.794 1429 162 14 1038 2448 91611955 91610550 0.000000e+00 1476.0
2 TraesCS6B01G109700 chr6B 91.329 346 28 2 2771 3116 431708601 431708944 3.640000e-129 472.0
3 TraesCS6B01G109700 chr6B 88.793 348 35 3 2773 3116 604113315 604112968 1.030000e-114 424.0
4 TraesCS6B01G109700 chr6B 79.479 307 31 11 18 322 91618282 91618006 4.100000e-44 189.0
5 TraesCS6B01G109700 chr6D 90.187 1875 144 23 770 2623 39492097 39493952 0.000000e+00 2407.0
6 TraesCS6B01G109700 chr6D 82.956 1238 153 37 1404 2627 39705572 39704379 0.000000e+00 1064.0
7 TraesCS6B01G109700 chr6D 92.970 697 33 6 1 691 39491241 39491927 0.000000e+00 1002.0
8 TraesCS6B01G109700 chr6D 82.193 1140 152 33 1499 2627 39669231 39668132 0.000000e+00 933.0
9 TraesCS6B01G109700 chr6D 91.518 448 32 3 927 1374 39706012 39705571 2.050000e-171 612.0
10 TraesCS6B01G109700 chr6D 83.580 609 73 12 1636 2236 39665909 39665320 2.110000e-151 545.0
11 TraesCS6B01G109700 chr6D 91.436 397 30 1 1400 1792 39777548 39777152 2.730000e-150 542.0
12 TraesCS6B01G109700 chr6D 92.553 376 22 2 942 1317 40058511 40058142 4.570000e-148 534.0
13 TraesCS6B01G109700 chr6D 84.289 471 66 5 1771 2236 39702597 39702130 1.320000e-123 453.0
14 TraesCS6B01G109700 chr6D 81.121 339 28 9 1 337 40059136 40058832 4.020000e-59 239.0
15 TraesCS6B01G109700 chr6D 85.780 218 11 4 1144 1361 39666283 39666086 2.430000e-51 213.0
16 TraesCS6B01G109700 chr6D 82.906 234 18 6 1 234 39775955 39775744 1.140000e-44 191.0
17 TraesCS6B01G109700 chr6D 82.083 240 23 10 17 256 39669732 39669513 1.480000e-43 187.0
18 TraesCS6B01G109700 chr6D 84.795 171 14 4 2466 2630 39663898 39663734 8.940000e-36 161.0
19 TraesCS6B01G109700 chr6D 81.507 146 14 6 2638 2773 436813500 436813358 1.180000e-19 108.0
20 TraesCS6B01G109700 chr6D 98.305 59 1 0 279 337 39717713 39717655 1.530000e-18 104.0
21 TraesCS6B01G109700 chr6D 100.000 43 0 0 686 728 39491946 39491988 2.580000e-11 80.5
22 TraesCS6B01G109700 chr6A 84.324 555 67 10 1947 2490 51475917 51475372 2.750000e-145 525.0
23 TraesCS6B01G109700 chr6A 81.466 491 59 15 2159 2624 51416519 51417002 1.060000e-99 374.0
24 TraesCS6B01G109700 chr6A 84.762 105 8 2 934 1031 51477351 51477248 7.110000e-17 99.0
25 TraesCS6B01G109700 chr7B 89.306 346 37 0 2771 3116 608945209 608944864 4.770000e-118 435.0
26 TraesCS6B01G109700 chr7B 79.397 199 38 2 1031 1229 647014199 647014394 1.510000e-28 137.0
27 TraesCS6B01G109700 chr3B 88.761 347 36 1 2773 3116 154436750 154436404 3.720000e-114 422.0
28 TraesCS6B01G109700 chr1B 88.252 349 39 2 2770 3116 527384379 527384031 1.730000e-112 416.0
29 TraesCS6B01G109700 chr1B 87.644 348 39 3 2771 3116 26587950 26588295 4.840000e-108 401.0
30 TraesCS6B01G109700 chr5B 87.679 349 39 4 2770 3116 425359091 425359437 1.350000e-108 403.0
31 TraesCS6B01G109700 chr2B 88.323 334 39 0 2773 3106 746269487 746269820 4.840000e-108 401.0
32 TraesCS6B01G109700 chrUn 87.572 346 38 4 2772 3116 264053245 264052904 2.250000e-106 396.0
33 TraesCS6B01G109700 chr1A 87.755 147 18 0 1761 1907 259177221 259177075 4.130000e-39 172.0
34 TraesCS6B01G109700 chr7D 85.000 140 16 5 2636 2773 234347182 234347318 1.510000e-28 137.0
35 TraesCS6B01G109700 chr7A 83.673 147 13 7 2631 2768 126958113 126957969 9.070000e-26 128.0
36 TraesCS6B01G109700 chr4A 81.879 149 13 8 2636 2773 669858447 669858592 2.540000e-21 113.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G109700 chr6B 91202479 91205594 3115 False 5755.000000 5755 100.000000 1 3116 1 chr6B.!!$F1 3115
1 TraesCS6B01G109700 chr6B 91610550 91611955 1405 True 1476.000000 1476 85.794000 1038 2448 1 chr6B.!!$R1 1410
2 TraesCS6B01G109700 chr6D 39491241 39493952 2711 False 1163.166667 2407 94.385667 1 2623 3 chr6D.!!$F1 2622
3 TraesCS6B01G109700 chr6D 39702130 39706012 3882 True 709.666667 1064 86.254333 927 2627 3 chr6D.!!$R4 1700
4 TraesCS6B01G109700 chr6D 39663734 39669732 5998 True 407.800000 933 83.686200 17 2630 5 chr6D.!!$R3 2613
5 TraesCS6B01G109700 chr6D 40058142 40059136 994 True 386.500000 534 86.837000 1 1317 2 chr6D.!!$R6 1316
6 TraesCS6B01G109700 chr6D 39775744 39777548 1804 True 366.500000 542 87.171000 1 1792 2 chr6D.!!$R5 1791
7 TraesCS6B01G109700 chr6A 51475372 51477351 1979 True 312.000000 525 84.543000 934 2490 2 chr6A.!!$R1 1556

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
753 2870 0.25361 ACCTCGTCTCCTCGTCAGAT 59.746 55.0 0.0 0.0 0.0 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 10018 1.302511 CCCCGGTCAGGTTCTGTTG 60.303 63.158 0.0 0.0 38.74 3.33 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
97 98 2.568956 AGTTAGAACCATGAGCTGCAGA 59.431 45.455 20.43 0.00 0.00 4.26
102 103 1.460504 ACCATGAGCTGCAGATGTTG 58.539 50.000 20.43 10.83 0.00 3.33
261 263 1.346395 TGTGTCGCCTGGAAACTGTAT 59.654 47.619 0.00 0.00 33.71 2.29
269 271 3.758554 GCCTGGAAACTGTATGACATTGT 59.241 43.478 0.00 0.00 0.00 2.71
341 823 3.802139 TGTTCAAGTCTGACAACGTCATC 59.198 43.478 10.88 0.00 41.94 2.92
377 859 5.391950 GCATCGTTGGAAAGTGTTCATGTAT 60.392 40.000 0.00 0.00 35.25 2.29
379 861 6.627395 TCGTTGGAAAGTGTTCATGTATTT 57.373 33.333 0.00 0.00 35.25 1.40
380 862 6.434596 TCGTTGGAAAGTGTTCATGTATTTG 58.565 36.000 0.00 0.00 35.25 2.32
381 863 6.261158 TCGTTGGAAAGTGTTCATGTATTTGA 59.739 34.615 0.00 0.00 35.25 2.69
511 1287 0.659123 AAACGTTCGCGGATTTGCAC 60.659 50.000 6.13 0.00 46.45 4.57
515 1291 3.022401 TTCGCGGATTTGCACGAGC 62.022 57.895 6.13 0.00 42.57 5.03
549 1325 5.121221 TCGAATTTGAAAAGGAGGAAAGC 57.879 39.130 0.00 0.00 0.00 3.51
553 1654 5.718724 ATTTGAAAAGGAGGAAAGCAGAG 57.281 39.130 0.00 0.00 0.00 3.35
567 1668 4.840401 AAGCAGAGCAAAAACGAAAAAC 57.160 36.364 0.00 0.00 0.00 2.43
585 1686 7.658167 ACGAAAAACCTGAAAAGAAAAAGGAAA 59.342 29.630 0.00 0.00 33.78 3.13
636 1778 0.606673 AGAACCTTCTGAAAGCCGGC 60.607 55.000 21.89 21.89 35.89 6.13
641 1783 2.469465 CTTCTGAAAGCCGGCAGGGA 62.469 60.000 31.54 15.78 38.47 4.20
742 2829 2.640316 AAGCTTGGAAAACCTCGTCT 57.360 45.000 0.00 0.00 0.00 4.18
753 2870 0.253610 ACCTCGTCTCCTCGTCAGAT 59.746 55.000 0.00 0.00 0.00 2.90
758 2875 1.130749 CGTCTCCTCGTCAGATTCGTT 59.869 52.381 0.00 0.00 0.00 3.85
767 2884 4.388499 AGATTCGTTGCCCGCCGT 62.388 61.111 0.00 0.00 36.19 5.68
768 2885 3.428282 GATTCGTTGCCCGCCGTT 61.428 61.111 0.00 0.00 36.19 4.44
979 3121 3.120385 CGACCATCAGCGCTGCAA 61.120 61.111 32.44 17.30 0.00 4.08
981 3123 2.033141 ACCATCAGCGCTGCAAGT 59.967 55.556 32.44 23.64 35.30 3.16
1072 3221 2.752238 ACGAGGACGAGCTCAGGG 60.752 66.667 15.40 0.00 42.66 4.45
1233 3608 4.025360 TGGCAGATTGGTTTGCTCATATT 58.975 39.130 0.00 0.00 40.15 1.28
1257 3632 1.734707 CGCAAATCCGACGACCTAAGT 60.735 52.381 0.00 0.00 0.00 2.24
1473 3848 1.115467 CCATGGAGTACCGAGAGCTT 58.885 55.000 5.56 0.00 39.42 3.74
1678 4452 5.825593 TGGACCTATTATTCTGTCCCATC 57.174 43.478 5.17 0.00 45.36 3.51
1881 7738 0.112995 TTGGATGCTTTGAGGTGCCT 59.887 50.000 0.00 0.00 0.00 4.75
1900 7757 3.685139 CTGGCAAGGAAGAGAACTGTA 57.315 47.619 0.00 0.00 0.00 2.74
1907 7764 2.300437 AGGAAGAGAACTGTAGTGGCAC 59.700 50.000 10.29 10.29 0.00 5.01
1997 8201 1.616994 GGTGAAGCTGGCCCTTACAAT 60.617 52.381 0.00 0.00 0.00 2.71
2004 8307 4.551729 GCCCTTACAATGGCGCTA 57.448 55.556 7.64 0.00 38.00 4.26
2047 8350 3.103911 GCCACTTCACCGACGACG 61.104 66.667 0.00 0.00 39.43 5.12
2086 8389 3.268023 AGCAAGCTATGAAGGTGTACC 57.732 47.619 0.00 0.00 32.57 3.34
2090 8393 3.895232 AGCTATGAAGGTGTACCACAG 57.105 47.619 3.56 0.00 38.89 3.66
2120 8423 6.398234 ACCAGTGTTGTTTGCATAATGTTA 57.602 33.333 0.00 0.00 0.00 2.41
2128 8431 8.629158 TGTTGTTTGCATAATGTTAGAGTCTTT 58.371 29.630 0.00 0.00 0.00 2.52
2140 8443 5.546499 TGTTAGAGTCTTTAGGGGTCATGTT 59.454 40.000 0.00 0.00 0.00 2.71
2141 8444 4.828072 AGAGTCTTTAGGGGTCATGTTC 57.172 45.455 0.00 0.00 0.00 3.18
2142 8445 4.168101 AGAGTCTTTAGGGGTCATGTTCA 58.832 43.478 0.00 0.00 0.00 3.18
2148 8451 6.884836 GTCTTTAGGGGTCATGTTCAGTTTAT 59.115 38.462 0.00 0.00 0.00 1.40
2150 8453 4.927267 AGGGGTCATGTTCAGTTTATCA 57.073 40.909 0.00 0.00 0.00 2.15
2157 8460 6.294176 GGTCATGTTCAGTTTATCATATGCCC 60.294 42.308 0.00 0.00 0.00 5.36
2194 8501 9.630098 CAATATGTTTGAGCAACTCTGTATTTT 57.370 29.630 0.00 0.00 36.21 1.82
2226 8533 8.153550 ACTTATTTGCAAGATACTATAGCAGCT 58.846 33.333 0.00 0.00 36.47 4.24
2241 8548 2.094675 GCAGCTATGTGTCCCATTTGT 58.905 47.619 0.00 0.00 34.86 2.83
2251 8560 5.003160 TGTGTCCCATTTGTGATAGTTGAG 58.997 41.667 0.00 0.00 0.00 3.02
2334 8645 3.447742 TGTGCTGCGTGAAGATACATAG 58.552 45.455 0.00 0.00 0.00 2.23
2344 8655 6.924060 GCGTGAAGATACATAGGTCTAACATT 59.076 38.462 0.00 0.00 0.00 2.71
2354 8665 6.153000 ACATAGGTCTAACATTCAGTTCGTCT 59.847 38.462 0.00 0.00 41.64 4.18
2396 8707 2.158475 AGACAGGCTGTTGATTTCCCAA 60.158 45.455 22.98 0.00 0.00 4.12
2402 8713 4.347583 AGGCTGTTGATTTCCCAAATGAAA 59.652 37.500 0.00 0.00 38.51 2.69
2448 8759 4.518211 GCATAGTAGCTGAAGGCATCAATT 59.482 41.667 0.00 0.00 44.79 2.32
2469 9968 4.371624 TGTTCTTCCATCCATGTGACTT 57.628 40.909 0.00 0.00 0.00 3.01
2513 10012 2.495084 CTCACACGAGGAGGATATCGA 58.505 52.381 1.13 0.00 41.40 3.59
2514 10013 3.078097 CTCACACGAGGAGGATATCGAT 58.922 50.000 2.16 2.16 41.40 3.59
2516 10015 4.844884 TCACACGAGGAGGATATCGATAT 58.155 43.478 17.77 17.77 41.40 1.63
2532 10031 3.132289 TCGATATCCCAACAGAACCTGAC 59.868 47.826 0.45 0.00 35.18 3.51
2540 10039 3.637273 AGAACCTGACCGGGGTGC 61.637 66.667 6.32 1.49 37.13 5.01
2619 10122 8.206126 TCTATAATGGTTCCTTCATCTGCATA 57.794 34.615 0.00 0.00 0.00 3.14
2627 10130 6.489361 GGTTCCTTCATCTGCATAGATCAATT 59.511 38.462 0.00 0.00 41.71 2.32
2632 10210 9.149225 CCTTCATCTGCATAGATCAATTACTAC 57.851 37.037 0.00 0.00 41.71 2.73
2633 10211 8.748380 TTCATCTGCATAGATCAATTACTACG 57.252 34.615 0.00 0.00 41.71 3.51
2637 10215 7.139392 TCTGCATAGATCAATTACTACGTGTC 58.861 38.462 0.00 0.00 0.00 3.67
2640 10218 6.918569 GCATAGATCAATTACTACGTGTCTGT 59.081 38.462 0.00 0.00 0.00 3.41
2641 10219 7.113684 GCATAGATCAATTACTACGTGTCTGTC 59.886 40.741 0.00 0.00 0.00 3.51
2643 10221 7.860918 AGATCAATTACTACGTGTCTGTCTA 57.139 36.000 0.00 0.00 0.00 2.59
2647 10225 7.524912 TCAATTACTACGTGTCTGTCTAGAAC 58.475 38.462 0.00 0.00 34.01 3.01
2648 10226 7.173735 TCAATTACTACGTGTCTGTCTAGAACA 59.826 37.037 0.00 0.00 34.01 3.18
2649 10227 4.745837 ACTACGTGTCTGTCTAGAACAC 57.254 45.455 13.86 13.86 34.01 3.32
2650 10228 4.132336 ACTACGTGTCTGTCTAGAACACA 58.868 43.478 20.66 10.20 36.04 3.72
2658 10236 7.008719 CGTGTCTGTCTAGAACACATCTAAATG 59.991 40.741 20.66 4.02 40.12 2.32
2683 10261 8.354011 GTGTCATAGTTATGTCACATCTAACC 57.646 38.462 18.26 0.00 45.53 2.85
2684 10262 8.198109 GTGTCATAGTTATGTCACATCTAACCT 58.802 37.037 18.26 0.00 45.53 3.50
2685 10263 8.197439 TGTCATAGTTATGTCACATCTAACCTG 58.803 37.037 0.00 0.00 35.26 4.00
2686 10264 8.414003 GTCATAGTTATGTCACATCTAACCTGA 58.586 37.037 0.00 0.00 35.26 3.86
2687 10265 9.147732 TCATAGTTATGTCACATCTAACCTGAT 57.852 33.333 0.00 0.00 35.26 2.90
2688 10266 9.770097 CATAGTTATGTCACATCTAACCTGATT 57.230 33.333 0.00 0.00 0.00 2.57
2691 10269 9.167311 AGTTATGTCACATCTAACCTGATTTTC 57.833 33.333 0.00 0.00 0.00 2.29
2692 10270 8.946085 GTTATGTCACATCTAACCTGATTTTCA 58.054 33.333 0.00 0.00 0.00 2.69
2693 10271 7.621428 ATGTCACATCTAACCTGATTTTCAG 57.379 36.000 0.00 0.00 43.91 3.02
2694 10272 6.533730 TGTCACATCTAACCTGATTTTCAGT 58.466 36.000 4.00 0.00 42.80 3.41
2700 10410 8.352942 ACATCTAACCTGATTTTCAGTTTGTTC 58.647 33.333 4.00 0.00 42.80 3.18
2701 10411 8.571336 CATCTAACCTGATTTTCAGTTTGTTCT 58.429 33.333 4.00 0.00 42.80 3.01
2704 10414 9.586435 CTAACCTGATTTTCAGTTTGTTCTTTT 57.414 29.630 4.00 0.00 42.80 2.27
2738 10448 5.876612 TTTTTGTTTCTTGTTGCTGCATT 57.123 30.435 1.84 0.00 0.00 3.56
2739 10449 6.974932 TTTTTGTTTCTTGTTGCTGCATTA 57.025 29.167 1.84 0.00 0.00 1.90
2740 10450 7.551035 TTTTTGTTTCTTGTTGCTGCATTAT 57.449 28.000 1.84 0.00 0.00 1.28
2741 10451 8.654230 TTTTTGTTTCTTGTTGCTGCATTATA 57.346 26.923 1.84 0.00 0.00 0.98
2742 10452 8.830201 TTTTGTTTCTTGTTGCTGCATTATAT 57.170 26.923 1.84 0.00 0.00 0.86
2743 10453 9.920133 TTTTGTTTCTTGTTGCTGCATTATATA 57.080 25.926 1.84 0.00 0.00 0.86
2769 10479 5.736951 ATAGGAGCTTAGATGTGACATCC 57.263 43.478 21.05 6.49 0.00 3.51
2770 10480 3.652055 AGGAGCTTAGATGTGACATCCT 58.348 45.455 21.05 11.37 0.00 3.24
2771 10481 4.036518 AGGAGCTTAGATGTGACATCCTT 58.963 43.478 21.05 7.22 31.97 3.36
2772 10482 5.211973 AGGAGCTTAGATGTGACATCCTTA 58.788 41.667 21.05 6.22 31.97 2.69
2773 10483 5.304101 AGGAGCTTAGATGTGACATCCTTAG 59.696 44.000 21.05 15.92 31.97 2.18
2774 10484 5.303078 GGAGCTTAGATGTGACATCCTTAGA 59.697 44.000 21.05 3.38 0.00 2.10
2775 10485 6.403866 AGCTTAGATGTGACATCCTTAGAG 57.596 41.667 21.05 12.69 0.00 2.43
2776 10486 4.987912 GCTTAGATGTGACATCCTTAGAGC 59.012 45.833 21.05 17.58 0.00 4.09
2777 10487 5.452496 GCTTAGATGTGACATCCTTAGAGCA 60.452 44.000 21.05 0.00 0.00 4.26
2778 10488 6.737720 TTAGATGTGACATCCTTAGAGCAT 57.262 37.500 21.05 2.95 0.00 3.79
2779 10489 5.212532 AGATGTGACATCCTTAGAGCATC 57.787 43.478 21.05 0.00 33.71 3.91
2791 10501 1.427020 GAGCATCTTCAACAGCCGC 59.573 57.895 0.00 0.00 0.00 6.53
2792 10502 2.099062 GCATCTTCAACAGCCGCG 59.901 61.111 0.00 0.00 0.00 6.46
2793 10503 2.099062 CATCTTCAACAGCCGCGC 59.901 61.111 0.00 0.00 0.00 6.86
2794 10504 2.046892 ATCTTCAACAGCCGCGCT 60.047 55.556 5.56 0.00 40.77 5.92
2795 10505 1.083806 CATCTTCAACAGCCGCGCTA 61.084 55.000 5.56 0.00 36.40 4.26
2796 10506 0.179073 ATCTTCAACAGCCGCGCTAT 60.179 50.000 5.56 0.00 36.40 2.97
2797 10507 0.458260 TCTTCAACAGCCGCGCTATA 59.542 50.000 5.56 0.00 36.40 1.31
2798 10508 1.134936 TCTTCAACAGCCGCGCTATAA 60.135 47.619 5.56 0.00 36.40 0.98
2799 10509 1.663643 CTTCAACAGCCGCGCTATAAA 59.336 47.619 5.56 0.00 36.40 1.40
2800 10510 1.003851 TCAACAGCCGCGCTATAAAC 58.996 50.000 5.56 0.00 36.40 2.01
2801 10511 0.315059 CAACAGCCGCGCTATAAACG 60.315 55.000 5.56 0.00 36.40 3.60
2819 10529 2.796617 CGCCGCGCAGAAAAAGTG 60.797 61.111 8.75 0.00 0.00 3.16
2820 10530 2.429069 GCCGCGCAGAAAAAGTGG 60.429 61.111 8.75 0.00 38.48 4.00
2821 10531 3.030652 CCGCGCAGAAAAAGTGGT 58.969 55.556 8.75 0.00 0.00 4.16
2822 10532 1.370414 CCGCGCAGAAAAAGTGGTG 60.370 57.895 8.75 0.00 0.00 4.17
2823 10533 1.370414 CGCGCAGAAAAAGTGGTGG 60.370 57.895 8.75 0.00 0.00 4.61
2824 10534 1.733526 GCGCAGAAAAAGTGGTGGT 59.266 52.632 0.30 0.00 0.00 4.16
2825 10535 0.102300 GCGCAGAAAAAGTGGTGGTT 59.898 50.000 0.30 0.00 0.00 3.67
2826 10536 1.470805 GCGCAGAAAAAGTGGTGGTTT 60.471 47.619 0.30 0.00 0.00 3.27
2827 10537 2.887337 CGCAGAAAAAGTGGTGGTTTT 58.113 42.857 0.00 0.00 0.00 2.43
2828 10538 3.735514 GCGCAGAAAAAGTGGTGGTTTTA 60.736 43.478 0.30 0.00 0.00 1.52
2829 10539 4.041723 CGCAGAAAAAGTGGTGGTTTTAG 58.958 43.478 0.00 0.00 0.00 1.85
2830 10540 3.802139 GCAGAAAAAGTGGTGGTTTTAGC 59.198 43.478 0.00 0.00 0.00 3.09
2831 10541 4.041723 CAGAAAAAGTGGTGGTTTTAGCG 58.958 43.478 0.00 0.00 0.00 4.26
2832 10542 2.502213 AAAAGTGGTGGTTTTAGCGC 57.498 45.000 0.00 0.00 0.00 5.92
2833 10543 0.309612 AAAGTGGTGGTTTTAGCGCG 59.690 50.000 0.00 0.00 34.04 6.86
2834 10544 0.816421 AAGTGGTGGTTTTAGCGCGT 60.816 50.000 8.43 0.00 34.04 6.01
2835 10545 1.082366 GTGGTGGTTTTAGCGCGTG 60.082 57.895 8.43 0.00 0.00 5.34
2836 10546 2.127003 GGTGGTTTTAGCGCGTGC 60.127 61.111 14.39 14.39 43.24 5.34
2882 10592 4.947278 CAAAAACCGCGCGCACGA 62.947 61.111 32.61 0.00 43.93 4.35
2883 10593 4.949125 AAAAACCGCGCGCACGAC 62.949 61.111 32.61 0.27 43.93 4.34
2887 10597 4.865761 ACCGCGCGCACGACATAT 62.866 61.111 32.61 3.09 43.93 1.78
2888 10598 4.339809 CCGCGCGCACGACATATG 62.340 66.667 32.61 11.04 43.93 1.78
2889 10599 4.975482 CGCGCGCACGACATATGC 62.975 66.667 32.61 0.00 43.93 3.14
2890 10600 3.924065 GCGCGCACGACATATGCA 61.924 61.111 29.10 0.00 43.57 3.96
2891 10601 2.700407 CGCGCACGACATATGCAA 59.300 55.556 8.75 0.00 43.57 4.08
2892 10602 1.276547 CGCGCACGACATATGCAAT 59.723 52.632 8.75 0.00 43.57 3.56
2893 10603 0.316114 CGCGCACGACATATGCAATT 60.316 50.000 8.75 0.00 43.57 2.32
2894 10604 1.388888 GCGCACGACATATGCAATTC 58.611 50.000 0.30 0.00 43.57 2.17
2895 10605 1.267982 GCGCACGACATATGCAATTCA 60.268 47.619 0.30 0.00 43.57 2.57
2896 10606 2.632228 CGCACGACATATGCAATTCAG 58.368 47.619 1.58 0.00 43.57 3.02
2897 10607 2.378806 GCACGACATATGCAATTCAGC 58.621 47.619 1.58 0.00 42.88 4.26
2898 10608 2.632228 CACGACATATGCAATTCAGCG 58.368 47.619 1.58 0.00 37.31 5.18
2899 10609 1.003545 ACGACATATGCAATTCAGCGC 60.004 47.619 0.00 0.00 37.31 5.92
2900 10610 1.666904 GACATATGCAATTCAGCGCG 58.333 50.000 0.00 0.00 37.31 6.86
2901 10611 0.317269 ACATATGCAATTCAGCGCGC 60.317 50.000 26.66 26.66 37.31 6.86
2902 10612 1.082561 ATATGCAATTCAGCGCGCG 60.083 52.632 28.44 28.44 37.31 6.86
2903 10613 2.448153 ATATGCAATTCAGCGCGCGG 62.448 55.000 33.06 26.50 37.31 6.46
2936 10646 2.648724 CGCGCCGCTTATTTGCTG 60.649 61.111 7.78 0.00 0.00 4.41
2937 10647 2.485122 GCGCCGCTTATTTGCTGT 59.515 55.556 0.00 0.00 0.00 4.40
2938 10648 1.869132 GCGCCGCTTATTTGCTGTG 60.869 57.895 0.00 0.00 0.00 3.66
2939 10649 1.501741 CGCCGCTTATTTGCTGTGT 59.498 52.632 0.00 0.00 0.00 3.72
2940 10650 0.521242 CGCCGCTTATTTGCTGTGTC 60.521 55.000 0.00 0.00 0.00 3.67
2941 10651 0.179163 GCCGCTTATTTGCTGTGTCC 60.179 55.000 0.00 0.00 0.00 4.02
2942 10652 0.096976 CCGCTTATTTGCTGTGTCCG 59.903 55.000 0.00 0.00 0.00 4.79
2943 10653 0.521242 CGCTTATTTGCTGTGTCCGC 60.521 55.000 0.00 0.00 0.00 5.54
2944 10654 0.804989 GCTTATTTGCTGTGTCCGCT 59.195 50.000 0.00 0.00 0.00 5.52
2945 10655 1.202076 GCTTATTTGCTGTGTCCGCTC 60.202 52.381 0.00 0.00 0.00 5.03
2946 10656 1.398390 CTTATTTGCTGTGTCCGCTCC 59.602 52.381 0.00 0.00 0.00 4.70
2947 10657 0.392461 TATTTGCTGTGTCCGCTCCC 60.392 55.000 0.00 0.00 0.00 4.30
2948 10658 4.680237 TTGCTGTGTCCGCTCCCG 62.680 66.667 0.00 0.00 0.00 5.14
2963 10673 3.777925 CCGCGCGTTGGACTCTTG 61.778 66.667 29.95 4.86 0.00 3.02
2964 10674 2.733218 CGCGCGTTGGACTCTTGA 60.733 61.111 24.19 0.00 0.00 3.02
2965 10675 2.720758 CGCGCGTTGGACTCTTGAG 61.721 63.158 24.19 0.00 0.00 3.02
2966 10676 3.016474 GCGCGTTGGACTCTTGAGC 62.016 63.158 8.43 0.00 0.00 4.26
2967 10677 1.664649 CGCGTTGGACTCTTGAGCA 60.665 57.895 0.00 0.00 0.00 4.26
2968 10678 1.862806 GCGTTGGACTCTTGAGCAC 59.137 57.895 0.00 0.00 0.00 4.40
2969 10679 0.601311 GCGTTGGACTCTTGAGCACT 60.601 55.000 0.00 0.00 0.00 4.40
2970 10680 1.423395 CGTTGGACTCTTGAGCACTC 58.577 55.000 0.00 0.00 0.00 3.51
2971 10681 1.423395 GTTGGACTCTTGAGCACTCG 58.577 55.000 0.00 0.00 0.00 4.18
2972 10682 0.319900 TTGGACTCTTGAGCACTCGC 60.320 55.000 0.00 0.00 38.99 5.03
2973 10683 1.290324 GGACTCTTGAGCACTCGCA 59.710 57.895 0.00 0.00 42.27 5.10
2974 10684 1.011451 GGACTCTTGAGCACTCGCAC 61.011 60.000 0.00 0.00 42.27 5.34
2975 10685 1.340657 GACTCTTGAGCACTCGCACG 61.341 60.000 0.00 0.00 42.27 5.34
2976 10686 2.724708 CTCTTGAGCACTCGCACGC 61.725 63.158 0.00 0.00 42.27 5.34
2977 10687 3.037833 CTTGAGCACTCGCACGCA 61.038 61.111 0.00 0.00 42.27 5.24
2978 10688 2.587473 TTGAGCACTCGCACGCAA 60.587 55.556 0.00 0.00 42.27 4.85
2979 10689 2.754805 CTTGAGCACTCGCACGCAAC 62.755 60.000 0.00 0.00 42.27 4.17
2980 10690 3.038417 GAGCACTCGCACGCAACT 61.038 61.111 0.00 0.00 42.27 3.16
2981 10691 3.004734 GAGCACTCGCACGCAACTC 62.005 63.158 0.00 0.00 42.27 3.01
2982 10692 4.077188 GCACTCGCACGCAACTCC 62.077 66.667 0.00 0.00 38.36 3.85
2983 10693 2.661537 CACTCGCACGCAACTCCA 60.662 61.111 0.00 0.00 0.00 3.86
2984 10694 2.661866 ACTCGCACGCAACTCCAC 60.662 61.111 0.00 0.00 0.00 4.02
2985 10695 3.414700 CTCGCACGCAACTCCACC 61.415 66.667 0.00 0.00 0.00 4.61
2986 10696 3.865929 CTCGCACGCAACTCCACCT 62.866 63.158 0.00 0.00 0.00 4.00
2987 10697 2.048597 CGCACGCAACTCCACCTA 60.049 61.111 0.00 0.00 0.00 3.08
2988 10698 2.380410 CGCACGCAACTCCACCTAC 61.380 63.158 0.00 0.00 0.00 3.18
2989 10699 2.033194 GCACGCAACTCCACCTACC 61.033 63.158 0.00 0.00 0.00 3.18
2990 10700 1.375523 CACGCAACTCCACCTACCC 60.376 63.158 0.00 0.00 0.00 3.69
2991 10701 1.839747 ACGCAACTCCACCTACCCA 60.840 57.895 0.00 0.00 0.00 4.51
2992 10702 1.198759 ACGCAACTCCACCTACCCAT 61.199 55.000 0.00 0.00 0.00 4.00
2993 10703 0.462047 CGCAACTCCACCTACCCATC 60.462 60.000 0.00 0.00 0.00 3.51
2994 10704 0.107165 GCAACTCCACCTACCCATCC 60.107 60.000 0.00 0.00 0.00 3.51
2995 10705 1.285280 CAACTCCACCTACCCATCCA 58.715 55.000 0.00 0.00 0.00 3.41
2996 10706 1.210478 CAACTCCACCTACCCATCCAG 59.790 57.143 0.00 0.00 0.00 3.86
2997 10707 0.983378 ACTCCACCTACCCATCCAGC 60.983 60.000 0.00 0.00 0.00 4.85
2998 10708 1.692749 TCCACCTACCCATCCAGCC 60.693 63.158 0.00 0.00 0.00 4.85
2999 10709 2.505982 CACCTACCCATCCAGCCG 59.494 66.667 0.00 0.00 0.00 5.52
3000 10710 3.480133 ACCTACCCATCCAGCCGC 61.480 66.667 0.00 0.00 0.00 6.53
3001 10711 4.609018 CCTACCCATCCAGCCGCG 62.609 72.222 0.00 0.00 0.00 6.46
3032 10742 3.690280 CCGCGCCACCCCATTTTT 61.690 61.111 0.00 0.00 0.00 1.94
3033 10743 2.126110 CGCGCCACCCCATTTTTC 60.126 61.111 0.00 0.00 0.00 2.29
3034 10744 2.264480 GCGCCACCCCATTTTTCC 59.736 61.111 0.00 0.00 0.00 3.13
3035 10745 2.578714 GCGCCACCCCATTTTTCCA 61.579 57.895 0.00 0.00 0.00 3.53
3036 10746 1.591183 CGCCACCCCATTTTTCCAG 59.409 57.895 0.00 0.00 0.00 3.86
3037 10747 1.296392 GCCACCCCATTTTTCCAGC 59.704 57.895 0.00 0.00 0.00 4.85
3038 10748 1.591183 CCACCCCATTTTTCCAGCG 59.409 57.895 0.00 0.00 0.00 5.18
3039 10749 0.897863 CCACCCCATTTTTCCAGCGA 60.898 55.000 0.00 0.00 0.00 4.93
3040 10750 0.243636 CACCCCATTTTTCCAGCGAC 59.756 55.000 0.00 0.00 0.00 5.19
3041 10751 0.898326 ACCCCATTTTTCCAGCGACC 60.898 55.000 0.00 0.00 0.00 4.79
3042 10752 1.506262 CCCATTTTTCCAGCGACCG 59.494 57.895 0.00 0.00 0.00 4.79
3043 10753 1.241315 CCCATTTTTCCAGCGACCGT 61.241 55.000 0.00 0.00 0.00 4.83
3044 10754 0.596082 CCATTTTTCCAGCGACCGTT 59.404 50.000 0.00 0.00 0.00 4.44
3045 10755 1.401018 CCATTTTTCCAGCGACCGTTC 60.401 52.381 0.00 0.00 0.00 3.95
3046 10756 0.879090 ATTTTTCCAGCGACCGTTCC 59.121 50.000 0.00 0.00 0.00 3.62
3047 10757 0.464013 TTTTTCCAGCGACCGTTCCA 60.464 50.000 0.00 0.00 0.00 3.53
3048 10758 0.464013 TTTTCCAGCGACCGTTCCAA 60.464 50.000 0.00 0.00 0.00 3.53
3049 10759 1.161563 TTTCCAGCGACCGTTCCAAC 61.162 55.000 0.00 0.00 0.00 3.77
3058 10768 2.032071 CGTTCCAACGCTTCCCCT 59.968 61.111 0.00 0.00 46.06 4.79
3059 10769 2.325082 CGTTCCAACGCTTCCCCTG 61.325 63.158 0.00 0.00 46.06 4.45
3061 10771 1.072505 TTCCAACGCTTCCCCTGTC 59.927 57.895 0.00 0.00 0.00 3.51
3065 10775 0.035458 CAACGCTTCCCCTGTCTCTT 59.965 55.000 0.00 0.00 0.00 2.85
3066 10776 0.321996 AACGCTTCCCCTGTCTCTTC 59.678 55.000 0.00 0.00 0.00 2.87
3067 10777 1.219393 CGCTTCCCCTGTCTCTTCC 59.781 63.158 0.00 0.00 0.00 3.46
3070 10780 2.245438 CTTCCCCTGTCTCTTCCCGC 62.245 65.000 0.00 0.00 0.00 6.13
3072 10782 4.821589 CCCTGTCTCTTCCCGCGC 62.822 72.222 0.00 0.00 0.00 6.86
3096 10806 2.664081 CGGCTTCCTCCCTTGCTCT 61.664 63.158 0.00 0.00 0.00 4.09
3099 10809 1.490574 GCTTCCTCCCTTGCTCTCTA 58.509 55.000 0.00 0.00 0.00 2.43
3100 10810 1.412343 GCTTCCTCCCTTGCTCTCTAG 59.588 57.143 0.00 0.00 0.00 2.43
3101 10811 2.745968 CTTCCTCCCTTGCTCTCTAGT 58.254 52.381 0.00 0.00 0.00 2.57
3102 10812 2.445682 TCCTCCCTTGCTCTCTAGTC 57.554 55.000 0.00 0.00 0.00 2.59
3104 10814 2.031120 CCTCCCTTGCTCTCTAGTCAG 58.969 57.143 0.00 0.00 0.00 3.51
3105 10815 1.408702 CTCCCTTGCTCTCTAGTCAGC 59.591 57.143 8.29 8.29 36.08 4.26
3107 10817 1.134848 CCCTTGCTCTCTAGTCAGCAC 60.135 57.143 15.28 0.00 45.37 4.40
3108 10818 1.134848 CCTTGCTCTCTAGTCAGCACC 60.135 57.143 15.28 0.00 45.37 5.01
3109 10819 0.528017 TTGCTCTCTAGTCAGCACCG 59.472 55.000 15.28 0.00 45.37 4.94
3110 10820 1.226831 GCTCTCTAGTCAGCACCGC 60.227 63.158 9.88 0.00 35.56 5.68
3112 10822 2.010582 CTCTCTAGTCAGCACCGCCC 62.011 65.000 0.00 0.00 0.00 6.13
3113 10823 3.417275 CTCTAGTCAGCACCGCCCG 62.417 68.421 0.00 0.00 0.00 6.13
3114 10824 3.760035 CTAGTCAGCACCGCCCGT 61.760 66.667 0.00 0.00 0.00 5.28
3115 10825 3.701604 CTAGTCAGCACCGCCCGTC 62.702 68.421 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 1.552792 TGTGTGATGCCTATTCACGGA 59.447 47.619 0.00 0.00 45.14 4.69
97 98 9.665719 AGTTTAACAAAGATGGAAAAACAACAT 57.334 25.926 0.00 0.00 33.01 2.71
341 823 2.574322 CAACGATGCCTGAACTTTTCG 58.426 47.619 0.00 0.00 0.00 3.46
490 1266 1.125270 GCAAATCCGCGAACGTTTTT 58.875 45.000 8.23 0.00 37.70 1.94
492 1268 0.659123 GTGCAAATCCGCGAACGTTT 60.659 50.000 8.23 0.00 37.70 3.60
540 1316 2.605580 CGTTTTTGCTCTGCTTTCCTCC 60.606 50.000 0.00 0.00 0.00 4.30
549 1325 4.420168 TCAGGTTTTTCGTTTTTGCTCTG 58.580 39.130 0.00 0.00 0.00 3.35
553 1654 6.159419 TCTTTTCAGGTTTTTCGTTTTTGC 57.841 33.333 0.00 0.00 0.00 3.68
633 1775 2.406616 CCGGTTTTCATCCCTGCCG 61.407 63.158 0.00 0.00 38.99 5.69
636 1778 3.214328 CCTATTCCGGTTTTCATCCCTG 58.786 50.000 0.00 0.00 0.00 4.45
641 1783 1.675552 CGGCCTATTCCGGTTTTCAT 58.324 50.000 0.00 0.00 45.38 2.57
742 2829 0.108804 GGCAACGAATCTGACGAGGA 60.109 55.000 0.00 0.00 34.70 3.71
767 2884 1.144969 GTGCGACGAATCTGAACCAA 58.855 50.000 0.00 0.00 0.00 3.67
768 2885 0.032815 TGTGCGACGAATCTGAACCA 59.967 50.000 0.00 0.00 0.00 3.67
979 3121 3.276857 TCATCGGAAGTAGAGCGTTACT 58.723 45.455 0.00 0.00 35.44 2.24
981 3123 3.881089 TCATCATCGGAAGTAGAGCGTTA 59.119 43.478 0.00 0.00 0.00 3.18
1072 3221 0.392327 GCCTTCCTCTCCAGAAGCAC 60.392 60.000 0.00 0.00 39.55 4.40
1233 3608 1.153901 GTCGTCGGATTTGCGGAGA 60.154 57.895 0.00 0.00 0.00 3.71
1257 3632 1.048601 GTCCGATGGCCTGGATCTTA 58.951 55.000 13.87 0.00 36.48 2.10
1473 3848 2.324330 CCGTTCATGCGGCTTGACA 61.324 57.895 17.01 7.21 45.47 3.58
1539 3923 1.515521 CCTTCTGGAACAACACGGCC 61.516 60.000 0.00 0.00 38.70 6.13
1678 4452 5.818857 CCAAAATCAAATTGGGGAGCTTATG 59.181 40.000 0.00 0.00 42.95 1.90
1881 7738 2.972713 ACTACAGTTCTCTTCCTTGCCA 59.027 45.455 0.00 0.00 0.00 4.92
1900 7757 1.472662 AACGTCCTGCTAGTGCCACT 61.473 55.000 1.54 1.54 38.71 4.00
1907 7764 3.577649 TCTTCTGAAACGTCCTGCTAG 57.422 47.619 0.00 0.00 0.00 3.42
1950 8154 2.301902 GATGCAGAGTGCCGCTTTCG 62.302 60.000 0.00 0.00 44.23 3.46
1960 8164 2.362369 CCTCGGTGGGATGCAGAGT 61.362 63.158 0.00 0.00 0.00 3.24
1972 8176 4.021925 GGCCAGCTTCACCTCGGT 62.022 66.667 0.00 0.00 0.00 4.69
1997 8201 6.765989 AGTATTCATAATCTTGTTTAGCGCCA 59.234 34.615 2.29 0.00 0.00 5.69
2004 8307 7.377766 ACGCACAGTATTCATAATCTTGTTT 57.622 32.000 0.00 0.00 0.00 2.83
2047 8350 3.202097 GCTTCAGATCTCTGGCTTTACC 58.798 50.000 7.33 0.00 43.91 2.85
2116 8419 5.091552 ACATGACCCCTAAAGACTCTAACA 58.908 41.667 0.00 0.00 0.00 2.41
2120 8423 4.168101 TGAACATGACCCCTAAAGACTCT 58.832 43.478 0.00 0.00 0.00 3.24
2128 8431 6.575244 ATGATAAACTGAACATGACCCCTA 57.425 37.500 0.00 0.00 0.00 3.53
2140 8443 5.849475 TCCCTAAGGGCATATGATAAACTGA 59.151 40.000 6.97 0.00 43.94 3.41
2141 8444 6.126863 TCCCTAAGGGCATATGATAAACTG 57.873 41.667 6.97 0.00 43.94 3.16
2142 8445 6.505344 TGATCCCTAAGGGCATATGATAAACT 59.495 38.462 6.97 0.00 43.94 2.66
2148 8451 3.597182 TGTGATCCCTAAGGGCATATGA 58.403 45.455 6.97 0.00 43.94 2.15
2150 8453 6.218315 ACATATTGTGATCCCTAAGGGCATAT 59.782 38.462 0.00 0.00 43.94 1.78
2157 8460 6.543465 TGCTCAAACATATTGTGATCCCTAAG 59.457 38.462 0.00 0.00 0.00 2.18
2177 8484 9.555727 AAGTAACTAAAAATACAGAGTTGCTCA 57.444 29.630 4.98 0.00 41.93 4.26
2201 8508 8.545229 AGCTGCTATAGTATCTTGCAAATAAG 57.455 34.615 0.00 0.00 33.07 1.73
2289 8600 8.515414 ACAACCTTGAAATATTGAGCTCTTAAC 58.485 33.333 16.19 1.07 0.00 2.01
2293 8604 5.105997 GCACAACCTTGAAATATTGAGCTCT 60.106 40.000 16.19 0.00 36.23 4.09
2302 8613 2.031245 CACGCAGCACAACCTTGAAATA 60.031 45.455 0.00 0.00 0.00 1.40
2354 8665 3.981071 AACAGAACAGCAGCCTATACA 57.019 42.857 0.00 0.00 0.00 2.29
2396 8707 4.414846 ACCTCCTGCCTGATCTATTTCATT 59.585 41.667 0.00 0.00 0.00 2.57
2402 8713 2.971330 CTCAACCTCCTGCCTGATCTAT 59.029 50.000 0.00 0.00 0.00 1.98
2448 8759 4.371624 AAGTCACATGGATGGAAGAACA 57.628 40.909 0.00 0.00 0.00 3.18
2513 10012 2.170607 CGGTCAGGTTCTGTTGGGATAT 59.829 50.000 0.00 0.00 32.61 1.63
2514 10013 1.553248 CGGTCAGGTTCTGTTGGGATA 59.447 52.381 0.00 0.00 32.61 2.59
2516 10015 1.752198 CGGTCAGGTTCTGTTGGGA 59.248 57.895 0.00 0.00 32.61 4.37
2519 10018 1.302511 CCCCGGTCAGGTTCTGTTG 60.303 63.158 0.00 0.00 38.74 3.33
2521 10020 2.122547 ACCCCGGTCAGGTTCTGT 60.123 61.111 0.00 0.00 38.74 3.41
2540 10039 4.095610 CAAAATAAAGAAGCTAACGGGCG 58.904 43.478 0.00 0.00 37.29 6.13
2543 10042 5.793457 CGGAACAAAATAAAGAAGCTAACGG 59.207 40.000 0.00 0.00 0.00 4.44
2545 10044 6.146898 TGCGGAACAAAATAAAGAAGCTAAC 58.853 36.000 0.00 0.00 0.00 2.34
2619 10122 6.761099 AGACAGACACGTAGTAATTGATCT 57.239 37.500 0.00 0.00 41.61 2.75
2627 10130 5.299949 TGTGTTCTAGACAGACACGTAGTA 58.700 41.667 17.27 1.82 37.61 1.82
2632 10210 4.427096 AGATGTGTTCTAGACAGACACG 57.573 45.455 17.27 0.00 39.39 4.49
2633 10211 7.815068 ACATTTAGATGTGTTCTAGACAGACAC 59.185 37.037 16.13 16.13 44.64 3.67
2660 10238 8.414003 TCAGGTTAGATGTGACATAACTATGAC 58.586 37.037 10.13 0.00 37.15 3.06
2662 10240 9.770097 AATCAGGTTAGATGTGACATAACTATG 57.230 33.333 10.13 9.49 39.55 2.23
2665 10243 9.167311 GAAAATCAGGTTAGATGTGACATAACT 57.833 33.333 10.13 2.33 31.53 2.24
2666 10244 8.946085 TGAAAATCAGGTTAGATGTGACATAAC 58.054 33.333 0.00 0.00 0.00 1.89
2667 10245 9.166173 CTGAAAATCAGGTTAGATGTGACATAA 57.834 33.333 0.00 0.00 40.71 1.90
2668 10246 8.722480 CTGAAAATCAGGTTAGATGTGACATA 57.278 34.615 0.00 0.00 40.71 2.29
2669 10247 7.621428 CTGAAAATCAGGTTAGATGTGACAT 57.379 36.000 0.00 0.00 40.71 3.06
2671 10249 7.440523 AACTGAAAATCAGGTTAGATGTGAC 57.559 36.000 11.70 0.00 42.87 3.67
2716 10426 5.876612 AATGCAGCAACAAGAAACAAAAA 57.123 30.435 0.00 0.00 0.00 1.94
2743 10453 8.317679 GGATGTCACATCTAAGCTCCTATAAAT 58.682 37.037 17.46 0.00 0.00 1.40
2744 10454 7.510685 AGGATGTCACATCTAAGCTCCTATAAA 59.489 37.037 17.46 0.00 30.26 1.40
2745 10455 7.013220 AGGATGTCACATCTAAGCTCCTATAA 58.987 38.462 17.46 0.00 30.26 0.98
2746 10456 6.556639 AGGATGTCACATCTAAGCTCCTATA 58.443 40.000 17.46 0.00 30.26 1.31
2747 10457 5.401750 AGGATGTCACATCTAAGCTCCTAT 58.598 41.667 17.46 0.00 30.26 2.57
2748 10458 4.809193 AGGATGTCACATCTAAGCTCCTA 58.191 43.478 17.46 0.00 30.26 2.94
2749 10459 3.652055 AGGATGTCACATCTAAGCTCCT 58.348 45.455 17.46 2.78 0.00 3.69
2750 10460 4.414337 AAGGATGTCACATCTAAGCTCC 57.586 45.455 17.46 0.18 0.00 4.70
2751 10461 6.398234 TCTAAGGATGTCACATCTAAGCTC 57.602 41.667 17.46 0.00 0.00 4.09
2752 10462 5.221422 GCTCTAAGGATGTCACATCTAAGCT 60.221 44.000 17.46 3.19 0.00 3.74
2753 10463 4.987912 GCTCTAAGGATGTCACATCTAAGC 59.012 45.833 17.46 13.98 0.00 3.09
2754 10464 6.154203 TGCTCTAAGGATGTCACATCTAAG 57.846 41.667 17.46 11.83 0.00 2.18
2755 10465 6.552725 AGATGCTCTAAGGATGTCACATCTAA 59.447 38.462 17.46 2.83 40.75 2.10
2756 10466 6.073981 AGATGCTCTAAGGATGTCACATCTA 58.926 40.000 17.46 2.37 40.75 1.98
2757 10467 4.900652 AGATGCTCTAAGGATGTCACATCT 59.099 41.667 17.46 1.18 38.47 2.90
2758 10468 5.212532 AGATGCTCTAAGGATGTCACATC 57.787 43.478 9.53 9.53 34.32 3.06
2759 10469 5.129980 TGAAGATGCTCTAAGGATGTCACAT 59.870 40.000 0.00 0.00 0.00 3.21
2760 10470 4.467438 TGAAGATGCTCTAAGGATGTCACA 59.533 41.667 0.00 0.00 0.00 3.58
2761 10471 5.016051 TGAAGATGCTCTAAGGATGTCAC 57.984 43.478 0.00 0.00 0.00 3.67
2762 10472 5.046376 TGTTGAAGATGCTCTAAGGATGTCA 60.046 40.000 0.00 0.00 0.00 3.58
2763 10473 5.423015 TGTTGAAGATGCTCTAAGGATGTC 58.577 41.667 0.00 0.00 0.00 3.06
2764 10474 5.426504 CTGTTGAAGATGCTCTAAGGATGT 58.573 41.667 0.00 0.00 0.00 3.06
2765 10475 4.272991 GCTGTTGAAGATGCTCTAAGGATG 59.727 45.833 0.00 0.00 0.00 3.51
2766 10476 4.450053 GCTGTTGAAGATGCTCTAAGGAT 58.550 43.478 0.00 0.00 0.00 3.24
2767 10477 3.369892 GGCTGTTGAAGATGCTCTAAGGA 60.370 47.826 0.00 0.00 0.00 3.36
2768 10478 2.941720 GGCTGTTGAAGATGCTCTAAGG 59.058 50.000 0.00 0.00 0.00 2.69
2769 10479 2.606725 CGGCTGTTGAAGATGCTCTAAG 59.393 50.000 0.00 0.00 0.00 2.18
2770 10480 2.621338 CGGCTGTTGAAGATGCTCTAA 58.379 47.619 0.00 0.00 0.00 2.10
2771 10481 1.740380 GCGGCTGTTGAAGATGCTCTA 60.740 52.381 0.00 0.00 0.00 2.43
2772 10482 1.023513 GCGGCTGTTGAAGATGCTCT 61.024 55.000 0.00 0.00 0.00 4.09
2773 10483 1.427020 GCGGCTGTTGAAGATGCTC 59.573 57.895 0.00 0.00 0.00 4.26
2774 10484 2.393768 CGCGGCTGTTGAAGATGCT 61.394 57.895 0.00 0.00 0.00 3.79
2775 10485 2.099062 CGCGGCTGTTGAAGATGC 59.901 61.111 0.00 0.00 0.00 3.91
2776 10486 1.083806 TAGCGCGGCTGTTGAAGATG 61.084 55.000 8.83 0.00 40.10 2.90
2777 10487 0.179073 ATAGCGCGGCTGTTGAAGAT 60.179 50.000 8.83 0.00 40.10 2.40
2778 10488 0.458260 TATAGCGCGGCTGTTGAAGA 59.542 50.000 8.83 0.00 40.10 2.87
2779 10489 1.286501 TTATAGCGCGGCTGTTGAAG 58.713 50.000 8.83 0.00 40.10 3.02
2780 10490 1.395608 GTTTATAGCGCGGCTGTTGAA 59.604 47.619 8.83 0.69 40.10 2.69
2781 10491 1.003851 GTTTATAGCGCGGCTGTTGA 58.996 50.000 8.83 0.00 40.10 3.18
2782 10492 0.315059 CGTTTATAGCGCGGCTGTTG 60.315 55.000 8.83 0.00 40.10 3.33
2783 10493 2.003672 CGTTTATAGCGCGGCTGTT 58.996 52.632 8.83 0.97 40.10 3.16
2784 10494 2.522638 GCGTTTATAGCGCGGCTGT 61.523 57.895 8.83 6.64 45.36 4.40
2785 10495 2.245532 GCGTTTATAGCGCGGCTG 59.754 61.111 8.83 0.00 45.36 4.85
2802 10512 2.796617 CACTTTTTCTGCGCGGCG 60.797 61.111 19.62 19.62 0.00 6.46
2803 10513 2.429069 CCACTTTTTCTGCGCGGC 60.429 61.111 12.58 0.00 0.00 6.53
2804 10514 1.370414 CACCACTTTTTCTGCGCGG 60.370 57.895 10.86 10.86 0.00 6.46
2805 10515 1.370414 CCACCACTTTTTCTGCGCG 60.370 57.895 0.00 0.00 0.00 6.86
2806 10516 0.102300 AACCACCACTTTTTCTGCGC 59.898 50.000 0.00 0.00 0.00 6.09
2807 10517 2.577449 AAACCACCACTTTTTCTGCG 57.423 45.000 0.00 0.00 0.00 5.18
2808 10518 3.802139 GCTAAAACCACCACTTTTTCTGC 59.198 43.478 0.00 0.00 0.00 4.26
2809 10519 4.041723 CGCTAAAACCACCACTTTTTCTG 58.958 43.478 0.00 0.00 0.00 3.02
2810 10520 3.490249 GCGCTAAAACCACCACTTTTTCT 60.490 43.478 0.00 0.00 0.00 2.52
2811 10521 2.792674 GCGCTAAAACCACCACTTTTTC 59.207 45.455 0.00 0.00 0.00 2.29
2812 10522 2.796735 CGCGCTAAAACCACCACTTTTT 60.797 45.455 5.56 0.00 0.00 1.94
2813 10523 1.268845 CGCGCTAAAACCACCACTTTT 60.269 47.619 5.56 0.00 0.00 2.27
2814 10524 0.309612 CGCGCTAAAACCACCACTTT 59.690 50.000 5.56 0.00 0.00 2.66
2815 10525 0.816421 ACGCGCTAAAACCACCACTT 60.816 50.000 5.73 0.00 0.00 3.16
2816 10526 1.227734 ACGCGCTAAAACCACCACT 60.228 52.632 5.73 0.00 0.00 4.00
2817 10527 1.082366 CACGCGCTAAAACCACCAC 60.082 57.895 5.73 0.00 0.00 4.16
2818 10528 2.899044 GCACGCGCTAAAACCACCA 61.899 57.895 5.73 0.00 34.30 4.17
2819 10529 2.127003 GCACGCGCTAAAACCACC 60.127 61.111 5.73 0.00 34.30 4.61
2865 10575 4.947278 TCGTGCGCGCGGTTTTTG 62.947 61.111 38.98 13.28 38.14 2.44
2866 10576 4.949125 GTCGTGCGCGCGGTTTTT 62.949 61.111 38.98 0.00 38.14 1.94
2870 10580 4.865761 ATATGTCGTGCGCGCGGT 62.866 61.111 38.98 27.23 38.14 5.68
2871 10581 4.339809 CATATGTCGTGCGCGCGG 62.340 66.667 38.98 22.63 38.14 6.46
2872 10582 4.975482 GCATATGTCGTGCGCGCG 62.975 66.667 35.70 35.70 38.14 6.86
2873 10583 2.700334 ATTGCATATGTCGTGCGCGC 62.700 55.000 27.26 27.26 45.37 6.86
2874 10584 0.316114 AATTGCATATGTCGTGCGCG 60.316 50.000 14.79 14.79 45.37 6.86
2875 10585 1.267982 TGAATTGCATATGTCGTGCGC 60.268 47.619 0.00 0.00 45.37 6.09
2876 10586 2.632228 CTGAATTGCATATGTCGTGCG 58.368 47.619 4.29 0.00 45.37 5.34
2877 10587 2.378806 GCTGAATTGCATATGTCGTGC 58.621 47.619 4.29 0.00 42.81 5.34
2878 10588 2.632228 CGCTGAATTGCATATGTCGTG 58.368 47.619 4.29 0.00 0.00 4.35
2879 10589 1.003545 GCGCTGAATTGCATATGTCGT 60.004 47.619 0.00 0.00 0.00 4.34
2880 10590 1.666904 GCGCTGAATTGCATATGTCG 58.333 50.000 0.00 0.00 0.00 4.35
2881 10591 1.666904 CGCGCTGAATTGCATATGTC 58.333 50.000 5.56 0.00 0.00 3.06
2882 10592 0.317269 GCGCGCTGAATTGCATATGT 60.317 50.000 26.67 0.00 0.00 2.29
2883 10593 1.325210 CGCGCGCTGAATTGCATATG 61.325 55.000 30.48 4.24 0.00 1.78
2884 10594 1.082561 CGCGCGCTGAATTGCATAT 60.083 52.632 30.48 0.00 0.00 1.78
2885 10595 2.324133 CGCGCGCTGAATTGCATA 59.676 55.556 30.48 0.00 0.00 3.14
2886 10596 4.541482 CCGCGCGCTGAATTGCAT 62.541 61.111 30.48 0.00 0.00 3.96
2919 10629 2.648724 CAGCAAATAAGCGGCGCG 60.649 61.111 27.59 12.27 40.15 6.86
2920 10630 1.869132 CACAGCAAATAAGCGGCGC 60.869 57.895 26.86 26.86 40.15 6.53
2921 10631 0.521242 GACACAGCAAATAAGCGGCG 60.521 55.000 0.51 0.51 40.15 6.46
2922 10632 0.179163 GGACACAGCAAATAAGCGGC 60.179 55.000 0.00 0.00 40.15 6.53
2923 10633 0.096976 CGGACACAGCAAATAAGCGG 59.903 55.000 0.00 0.00 40.15 5.52
2924 10634 0.521242 GCGGACACAGCAAATAAGCG 60.521 55.000 0.00 0.00 40.15 4.68
2925 10635 0.804989 AGCGGACACAGCAAATAAGC 59.195 50.000 0.00 0.00 37.01 3.09
2926 10636 1.398390 GGAGCGGACACAGCAAATAAG 59.602 52.381 0.00 0.00 37.01 1.73
2927 10637 1.448985 GGAGCGGACACAGCAAATAA 58.551 50.000 0.00 0.00 37.01 1.40
2928 10638 0.392461 GGGAGCGGACACAGCAAATA 60.392 55.000 0.00 0.00 37.01 1.40
2929 10639 1.675641 GGGAGCGGACACAGCAAAT 60.676 57.895 0.00 0.00 37.01 2.32
2930 10640 2.281484 GGGAGCGGACACAGCAAA 60.281 61.111 0.00 0.00 37.01 3.68
2931 10641 4.680237 CGGGAGCGGACACAGCAA 62.680 66.667 0.00 0.00 37.01 3.91
2946 10656 3.777925 CAAGAGTCCAACGCGCGG 61.778 66.667 35.22 17.35 0.00 6.46
2947 10657 2.720758 CTCAAGAGTCCAACGCGCG 61.721 63.158 30.96 30.96 0.00 6.86
2948 10658 3.016474 GCTCAAGAGTCCAACGCGC 62.016 63.158 5.73 0.00 0.00 6.86
2949 10659 1.664649 TGCTCAAGAGTCCAACGCG 60.665 57.895 3.53 3.53 0.00 6.01
2950 10660 0.601311 AGTGCTCAAGAGTCCAACGC 60.601 55.000 0.00 0.00 0.00 4.84
2951 10661 1.423395 GAGTGCTCAAGAGTCCAACG 58.577 55.000 0.00 0.00 0.00 4.10
2952 10662 1.423395 CGAGTGCTCAAGAGTCCAAC 58.577 55.000 0.00 0.00 0.00 3.77
2953 10663 0.319900 GCGAGTGCTCAAGAGTCCAA 60.320 55.000 0.00 0.00 38.39 3.53
2954 10664 1.290324 GCGAGTGCTCAAGAGTCCA 59.710 57.895 0.00 0.00 38.39 4.02
2955 10665 1.011451 GTGCGAGTGCTCAAGAGTCC 61.011 60.000 0.00 0.00 43.34 3.85
2956 10666 1.340657 CGTGCGAGTGCTCAAGAGTC 61.341 60.000 0.00 0.00 43.34 3.36
2957 10667 1.372251 CGTGCGAGTGCTCAAGAGT 60.372 57.895 0.00 0.00 43.34 3.24
2958 10668 2.724708 GCGTGCGAGTGCTCAAGAG 61.725 63.158 0.00 0.00 43.34 2.85
2959 10669 2.734723 GCGTGCGAGTGCTCAAGA 60.735 61.111 0.00 0.00 43.34 3.02
2960 10670 2.597713 TTGCGTGCGAGTGCTCAAG 61.598 57.895 0.00 0.00 43.34 3.02
2961 10671 2.587473 TTGCGTGCGAGTGCTCAA 60.587 55.556 0.00 0.00 43.34 3.02
2962 10672 3.337889 GTTGCGTGCGAGTGCTCA 61.338 61.111 0.00 0.00 43.34 4.26
2963 10673 3.004734 GAGTTGCGTGCGAGTGCTC 62.005 63.158 0.00 0.00 43.34 4.26
2964 10674 3.038417 GAGTTGCGTGCGAGTGCT 61.038 61.111 0.00 0.00 43.34 4.40
2965 10675 4.077188 GGAGTTGCGTGCGAGTGC 62.077 66.667 0.00 0.00 43.20 4.40
2966 10676 2.661537 TGGAGTTGCGTGCGAGTG 60.662 61.111 0.00 0.00 0.00 3.51
2967 10677 2.661866 GTGGAGTTGCGTGCGAGT 60.662 61.111 0.00 0.00 0.00 4.18
2968 10678 2.486636 TAGGTGGAGTTGCGTGCGAG 62.487 60.000 0.00 0.00 0.00 5.03
2969 10679 2.566570 TAGGTGGAGTTGCGTGCGA 61.567 57.895 0.00 0.00 0.00 5.10
2970 10680 2.048597 TAGGTGGAGTTGCGTGCG 60.049 61.111 0.00 0.00 0.00 5.34
2971 10681 2.033194 GGTAGGTGGAGTTGCGTGC 61.033 63.158 0.00 0.00 0.00 5.34
2972 10682 1.375523 GGGTAGGTGGAGTTGCGTG 60.376 63.158 0.00 0.00 0.00 5.34
2973 10683 1.198759 ATGGGTAGGTGGAGTTGCGT 61.199 55.000 0.00 0.00 0.00 5.24
2974 10684 0.462047 GATGGGTAGGTGGAGTTGCG 60.462 60.000 0.00 0.00 0.00 4.85
2975 10685 0.107165 GGATGGGTAGGTGGAGTTGC 60.107 60.000 0.00 0.00 0.00 4.17
2976 10686 1.210478 CTGGATGGGTAGGTGGAGTTG 59.790 57.143 0.00 0.00 0.00 3.16
2977 10687 1.584724 CTGGATGGGTAGGTGGAGTT 58.415 55.000 0.00 0.00 0.00 3.01
2978 10688 0.983378 GCTGGATGGGTAGGTGGAGT 60.983 60.000 0.00 0.00 0.00 3.85
2979 10689 1.700042 GGCTGGATGGGTAGGTGGAG 61.700 65.000 0.00 0.00 0.00 3.86
2980 10690 1.692749 GGCTGGATGGGTAGGTGGA 60.693 63.158 0.00 0.00 0.00 4.02
2981 10691 2.919043 GGCTGGATGGGTAGGTGG 59.081 66.667 0.00 0.00 0.00 4.61
2982 10692 2.505982 CGGCTGGATGGGTAGGTG 59.494 66.667 0.00 0.00 0.00 4.00
2983 10693 3.480133 GCGGCTGGATGGGTAGGT 61.480 66.667 0.00 0.00 0.00 3.08
2984 10694 4.609018 CGCGGCTGGATGGGTAGG 62.609 72.222 0.00 0.00 0.00 3.18
3015 10725 3.641159 GAAAAATGGGGTGGCGCGG 62.641 63.158 8.83 0.00 0.00 6.46
3016 10726 2.126110 GAAAAATGGGGTGGCGCG 60.126 61.111 0.00 0.00 0.00 6.86
3017 10727 2.264480 GGAAAAATGGGGTGGCGC 59.736 61.111 0.00 0.00 0.00 6.53
3018 10728 1.591183 CTGGAAAAATGGGGTGGCG 59.409 57.895 0.00 0.00 0.00 5.69
3019 10729 1.296392 GCTGGAAAAATGGGGTGGC 59.704 57.895 0.00 0.00 0.00 5.01
3020 10730 0.897863 TCGCTGGAAAAATGGGGTGG 60.898 55.000 0.00 0.00 0.00 4.61
3021 10731 0.243636 GTCGCTGGAAAAATGGGGTG 59.756 55.000 0.00 0.00 0.00 4.61
3022 10732 0.898326 GGTCGCTGGAAAAATGGGGT 60.898 55.000 0.00 0.00 0.00 4.95
3023 10733 1.890174 GGTCGCTGGAAAAATGGGG 59.110 57.895 0.00 0.00 0.00 4.96
3024 10734 1.241315 ACGGTCGCTGGAAAAATGGG 61.241 55.000 0.00 0.00 0.00 4.00
3025 10735 0.596082 AACGGTCGCTGGAAAAATGG 59.404 50.000 0.00 0.00 0.00 3.16
3026 10736 1.401018 GGAACGGTCGCTGGAAAAATG 60.401 52.381 0.00 0.00 0.00 2.32
3027 10737 0.879090 GGAACGGTCGCTGGAAAAAT 59.121 50.000 0.00 0.00 0.00 1.82
3028 10738 0.464013 TGGAACGGTCGCTGGAAAAA 60.464 50.000 0.00 0.00 0.00 1.94
3029 10739 0.464013 TTGGAACGGTCGCTGGAAAA 60.464 50.000 0.00 0.00 0.00 2.29
3030 10740 1.146485 TTGGAACGGTCGCTGGAAA 59.854 52.632 0.00 0.00 0.00 3.13
3031 10741 1.595929 GTTGGAACGGTCGCTGGAA 60.596 57.895 0.00 0.00 0.00 3.53
3032 10742 2.029964 GTTGGAACGGTCGCTGGA 59.970 61.111 0.00 0.00 0.00 3.86
3042 10752 1.228154 ACAGGGGAAGCGTTGGAAC 60.228 57.895 0.00 0.00 0.00 3.62
3043 10753 1.072505 GACAGGGGAAGCGTTGGAA 59.927 57.895 0.00 0.00 0.00 3.53
3044 10754 1.827399 GAGACAGGGGAAGCGTTGGA 61.827 60.000 0.00 0.00 0.00 3.53
3045 10755 1.376037 GAGACAGGGGAAGCGTTGG 60.376 63.158 0.00 0.00 0.00 3.77
3046 10756 0.035458 AAGAGACAGGGGAAGCGTTG 59.965 55.000 0.00 0.00 0.00 4.10
3047 10757 0.321996 GAAGAGACAGGGGAAGCGTT 59.678 55.000 0.00 0.00 0.00 4.84
3048 10758 1.545706 GGAAGAGACAGGGGAAGCGT 61.546 60.000 0.00 0.00 0.00 5.07
3049 10759 1.219393 GGAAGAGACAGGGGAAGCG 59.781 63.158 0.00 0.00 0.00 4.68
3050 10760 1.604915 GGGAAGAGACAGGGGAAGC 59.395 63.158 0.00 0.00 0.00 3.86
3051 10761 1.901085 CGGGAAGAGACAGGGGAAG 59.099 63.158 0.00 0.00 0.00 3.46
3052 10762 2.291043 GCGGGAAGAGACAGGGGAA 61.291 63.158 0.00 0.00 0.00 3.97
3053 10763 2.683933 GCGGGAAGAGACAGGGGA 60.684 66.667 0.00 0.00 0.00 4.81
3054 10764 4.148825 CGCGGGAAGAGACAGGGG 62.149 72.222 0.00 0.00 0.00 4.79
3055 10765 4.821589 GCGCGGGAAGAGACAGGG 62.822 72.222 8.83 0.00 0.00 4.45
3077 10787 4.416738 AGCAAGGGAGGAAGCCGC 62.417 66.667 0.00 0.00 0.00 6.53
3082 10792 2.043115 TGACTAGAGAGCAAGGGAGGAA 59.957 50.000 0.00 0.00 0.00 3.36
3083 10793 1.641192 TGACTAGAGAGCAAGGGAGGA 59.359 52.381 0.00 0.00 0.00 3.71
3085 10795 1.408702 GCTGACTAGAGAGCAAGGGAG 59.591 57.143 11.40 0.00 35.15 4.30
3086 10796 1.272704 TGCTGACTAGAGAGCAAGGGA 60.273 52.381 15.25 0.00 42.22 4.20
3087 10797 1.134848 GTGCTGACTAGAGAGCAAGGG 60.135 57.143 18.07 0.00 46.49 3.95
3092 10802 1.226831 GCGGTGCTGACTAGAGAGC 60.227 63.158 0.00 3.65 35.65 4.09
3093 10803 1.435515 GGCGGTGCTGACTAGAGAG 59.564 63.158 0.00 0.00 0.00 3.20
3096 10806 3.449227 CGGGCGGTGCTGACTAGA 61.449 66.667 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.