Multiple sequence alignment - TraesCS7D01G159700

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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 TraesCS7D01G159700 chr7D 100.000 2657 0 0 1 2657 109145773 109143117 0.000000e+00 4907.0
1 TraesCS7D01G159700 chr7D 78.506 1098 165 32 769 1829 9354552 9355615 0.000000e+00 654.0
2 TraesCS7D01G159700 chr7D 94.444 54 3 0 997 1050 109144723 109144670 1.690000e-12 84.2
3 TraesCS7D01G159700 chr7B 92.964 1947 113 16 722 2657 68223980 68222047 0.000000e+00 2815.0
4 TraesCS7D01G159700 chr7B 91.928 1945 133 12 722 2657 68161027 68159098 0.000000e+00 2700.0
5 TraesCS7D01G159700 chr7B 84.368 467 47 15 75 537 68224416 68223972 4.060000e-118 435.0
6 TraesCS7D01G159700 chr7B 83.281 317 27 15 225 537 68161313 68161019 4.360000e-68 268.0
7 TraesCS7D01G159700 chr7B 87.821 156 18 1 75 229 68164244 68164089 5.840000e-42 182.0
8 TraesCS7D01G159700 chr7A 91.081 1951 139 12 722 2657 114414729 114412799 0.000000e+00 2606.0
9 TraesCS7D01G159700 chr7A 90.481 1954 149 14 722 2657 114689094 114687160 0.000000e+00 2543.0
10 TraesCS7D01G159700 chr7A 81.126 1616 244 29 1066 2657 10169953 10168375 0.000000e+00 1238.0
11 TraesCS7D01G159700 chr7A 78.658 1654 253 55 1052 2654 9486675 9488279 0.000000e+00 1007.0
12 TraesCS7D01G159700 chr7A 77.728 1347 246 36 1051 2384 9494249 9495554 0.000000e+00 776.0
13 TraesCS7D01G159700 chr7A 90.389 489 41 6 55 537 114415209 114414721 2.880000e-179 638.0
14 TraesCS7D01G159700 chr7A 89.344 488 47 5 55 537 114689573 114689086 2.260000e-170 608.0
15 TraesCS7D01G159700 chr7A 82.152 409 57 8 1050 1458 1526782 1526390 1.180000e-88 337.0
16 TraesCS7D01G159700 chr6D 92.693 1218 86 1 997 2214 84280064 84281278 0.000000e+00 1753.0
17 TraesCS7D01G159700 chr6D 90.736 421 32 5 116 531 84279335 84279753 2.990000e-154 555.0
18 TraesCS7D01G159700 chr6D 89.563 412 26 9 2254 2657 84281277 84281679 8.490000e-140 507.0
19 TraesCS7D01G159700 chr6D 88.108 370 35 3 743 1104 84279749 84280117 5.250000e-117 431.0
20 TraesCS7D01G159700 chr6D 87.864 206 19 6 229 432 429498290 429498491 1.230000e-58 237.0
21 TraesCS7D01G159700 chr4B 81.004 1395 217 29 1055 2417 654201948 654203326 0.000000e+00 1064.0
22 TraesCS7D01G159700 chr4A 83.220 1180 163 14 1142 2294 728353003 728351832 0.000000e+00 1050.0
23 TraesCS7D01G159700 chr4A 78.411 1510 247 50 1141 2614 730456135 730457601 0.000000e+00 909.0
24 TraesCS7D01G159700 chr4A 76.854 1564 275 57 1143 2657 729880937 729882462 0.000000e+00 802.0
25 TraesCS7D01G159700 chr5A 80.664 1386 222 22 1052 2406 691821001 691822371 0.000000e+00 1033.0
26 TraesCS7D01G159700 chr1D 76.429 280 42 13 201 463 480677337 480677609 2.150000e-26 130.0
27 TraesCS7D01G159700 chr2B 82.927 123 16 5 342 464 407216308 407216191 3.620000e-19 106.0


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 TraesCS7D01G159700 chr7D 109143117 109145773 2656 True 2495.6 4907 97.222000 1 2657 2 chr7D.!!$R1 2656
1 TraesCS7D01G159700 chr7D 9354552 9355615 1063 False 654.0 654 78.506000 769 1829 1 chr7D.!!$F1 1060
2 TraesCS7D01G159700 chr7B 68222047 68224416 2369 True 1625.0 2815 88.666000 75 2657 2 chr7B.!!$R2 2582
3 TraesCS7D01G159700 chr7B 68159098 68164244 5146 True 1050.0 2700 87.676667 75 2657 3 chr7B.!!$R1 2582
4 TraesCS7D01G159700 chr7A 114412799 114415209 2410 True 1622.0 2606 90.735000 55 2657 2 chr7A.!!$R3 2602
5 TraesCS7D01G159700 chr7A 114687160 114689573 2413 True 1575.5 2543 89.912500 55 2657 2 chr7A.!!$R4 2602
6 TraesCS7D01G159700 chr7A 10168375 10169953 1578 True 1238.0 1238 81.126000 1066 2657 1 chr7A.!!$R2 1591
7 TraesCS7D01G159700 chr7A 9486675 9488279 1604 False 1007.0 1007 78.658000 1052 2654 1 chr7A.!!$F1 1602
8 TraesCS7D01G159700 chr7A 9494249 9495554 1305 False 776.0 776 77.728000 1051 2384 1 chr7A.!!$F2 1333
9 TraesCS7D01G159700 chr6D 84279335 84281679 2344 False 811.5 1753 90.275000 116 2657 4 chr6D.!!$F2 2541
10 TraesCS7D01G159700 chr4B 654201948 654203326 1378 False 1064.0 1064 81.004000 1055 2417 1 chr4B.!!$F1 1362
11 TraesCS7D01G159700 chr4A 728351832 728353003 1171 True 1050.0 1050 83.220000 1142 2294 1 chr4A.!!$R1 1152
12 TraesCS7D01G159700 chr4A 730456135 730457601 1466 False 909.0 909 78.411000 1141 2614 1 chr4A.!!$F2 1473
13 TraesCS7D01G159700 chr4A 729880937 729882462 1525 False 802.0 802 76.854000 1143 2657 1 chr4A.!!$F1 1514
14 TraesCS7D01G159700 chr5A 691821001 691822371 1370 False 1033.0 1033 80.664000 1052 2406 1 chr5A.!!$F1 1354

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
49 50 0.039617 TTTGTTCATTTGCTCCCGCG 60.040 50.0 0.0 0.0 39.65 6.46 F
908 3709 0.118346 TAGAGGACCACCACCACCAT 59.882 55.0 0.0 0.0 38.94 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1286 4169 1.593296 GGTCGTGTAGAGGAAGCCGT 61.593 60.0 0.0 0.0 0.0 5.68 R
2354 5358 0.764890 AGCAGGAGTACAAGCACCAA 59.235 50.0 0.0 0.0 0.0 3.67 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
17 18 2.504032 GAATGGATCGGCGGTGGA 59.496 61.111 7.21 0.00 0.00 4.02
18 19 1.887707 GAATGGATCGGCGGTGGAC 60.888 63.158 7.21 0.00 0.00 4.02
19 20 2.587322 GAATGGATCGGCGGTGGACA 62.587 60.000 7.21 0.00 0.00 4.02
20 21 2.191786 AATGGATCGGCGGTGGACAA 62.192 55.000 7.21 0.00 0.00 3.18
21 22 2.046700 GGATCGGCGGTGGACAAA 60.047 61.111 7.21 0.00 0.00 2.83
22 23 1.673009 GGATCGGCGGTGGACAAAA 60.673 57.895 7.21 0.00 0.00 2.44
23 24 1.238625 GGATCGGCGGTGGACAAAAA 61.239 55.000 7.21 0.00 0.00 1.94
24 25 0.109919 GATCGGCGGTGGACAAAAAC 60.110 55.000 7.21 0.00 0.00 2.43
25 26 0.820074 ATCGGCGGTGGACAAAAACA 60.820 50.000 7.21 0.00 0.00 2.83
26 27 1.030488 TCGGCGGTGGACAAAAACAA 61.030 50.000 7.21 0.00 0.00 2.83
27 28 0.179134 CGGCGGTGGACAAAAACAAA 60.179 50.000 0.00 0.00 0.00 2.83
28 29 1.282817 GGCGGTGGACAAAAACAAAC 58.717 50.000 0.00 0.00 0.00 2.93
29 30 1.404315 GGCGGTGGACAAAAACAAACA 60.404 47.619 0.00 0.00 0.00 2.83
30 31 2.545731 GCGGTGGACAAAAACAAACAT 58.454 42.857 0.00 0.00 0.00 2.71
31 32 2.933260 GCGGTGGACAAAAACAAACATT 59.067 40.909 0.00 0.00 0.00 2.71
32 33 3.372514 GCGGTGGACAAAAACAAACATTT 59.627 39.130 0.00 0.00 0.00 2.32
33 34 4.726306 GCGGTGGACAAAAACAAACATTTG 60.726 41.667 2.77 2.77 43.62 2.32
46 47 5.347012 CAAACATTTGTTCATTTGCTCCC 57.653 39.130 0.00 0.00 37.25 4.30
47 48 3.302365 ACATTTGTTCATTTGCTCCCG 57.698 42.857 0.00 0.00 0.00 5.14
48 49 1.994779 CATTTGTTCATTTGCTCCCGC 59.005 47.619 0.00 0.00 0.00 6.13
49 50 0.039617 TTTGTTCATTTGCTCCCGCG 60.040 50.000 0.00 0.00 39.65 6.46
50 51 1.169661 TTGTTCATTTGCTCCCGCGT 61.170 50.000 4.92 0.00 39.65 6.01
51 52 1.154225 GTTCATTTGCTCCCGCGTG 60.154 57.895 4.92 0.00 39.65 5.34
52 53 1.599518 TTCATTTGCTCCCGCGTGT 60.600 52.632 4.92 0.00 39.65 4.49
53 54 1.169661 TTCATTTGCTCCCGCGTGTT 61.170 50.000 4.92 0.00 39.65 3.32
54 55 1.442520 CATTTGCTCCCGCGTGTTG 60.443 57.895 4.92 0.00 39.65 3.33
55 56 2.625823 ATTTGCTCCCGCGTGTTGG 61.626 57.895 4.92 0.00 39.65 3.77
79 80 1.005137 GTTTTTGTGTCCGTTACGCGA 60.005 47.619 15.93 0.00 44.77 5.87
85 86 3.133464 TCCGTTACGCGACCGGAT 61.133 61.111 25.88 2.42 45.20 4.18
105 106 4.912485 TTTGGGGTCGCGCGTTGA 62.912 61.111 30.98 7.84 0.00 3.18
114 115 4.700365 GCGCGTTGAAGTTGGCCC 62.700 66.667 8.43 0.00 0.00 5.80
151 152 6.642683 ACGTAGCTAACACATTGTTGTATC 57.357 37.500 0.00 0.00 41.30 2.24
162 163 8.579850 ACACATTGTTGTATCCAATATTCTGT 57.420 30.769 0.00 0.00 33.76 3.41
237 3021 7.435305 ACTCTCTAAGTGAAAAGGAGTTACAC 58.565 38.462 0.00 0.00 36.65 2.90
252 3036 4.861210 AGTTACACGAGAACAGAAGACAG 58.139 43.478 0.00 0.00 0.00 3.51
285 3071 0.570218 AGACATGGATAGGGAGGCCT 59.430 55.000 3.86 3.86 0.00 5.19
294 3080 2.190398 TAGGGAGGCCTAAATGCAGA 57.810 50.000 4.42 0.00 0.00 4.26
313 3100 1.354705 GAAACTTAGTTGGGGGAGGCT 59.645 52.381 0.00 0.00 0.00 4.58
476 3264 7.889873 TTCCTTCTAGTCATGTTTGGAAAAA 57.110 32.000 0.00 0.00 30.57 1.94
480 3268 7.201911 CCTTCTAGTCATGTTTGGAAAAAGGTT 60.202 37.037 0.00 0.00 0.00 3.50
484 3273 9.981114 CTAGTCATGTTTGGAAAAAGGTTATTT 57.019 29.630 0.00 0.00 0.00 1.40
536 3326 9.891828 TGTCATTTTTGTGTTTGTATCTATGAC 57.108 29.630 0.00 0.00 38.87 3.06
537 3327 9.341899 GTCATTTTTGTGTTTGTATCTATGACC 57.658 33.333 0.00 0.00 34.75 4.02
538 3328 9.072375 TCATTTTTGTGTTTGTATCTATGACCA 57.928 29.630 0.00 0.00 0.00 4.02
539 3329 9.689976 CATTTTTGTGTTTGTATCTATGACCAA 57.310 29.630 0.00 0.00 0.00 3.67
550 3340 9.850628 TTGTATCTATGACCAATAATACTACGC 57.149 33.333 0.00 0.00 0.00 4.42
551 3341 8.464404 TGTATCTATGACCAATAATACTACGCC 58.536 37.037 0.00 0.00 0.00 5.68
552 3342 7.719871 ATCTATGACCAATAATACTACGCCT 57.280 36.000 0.00 0.00 0.00 5.52
553 3343 8.818622 ATCTATGACCAATAATACTACGCCTA 57.181 34.615 0.00 0.00 0.00 3.93
554 3344 8.048534 TCTATGACCAATAATACTACGCCTAC 57.951 38.462 0.00 0.00 0.00 3.18
556 3346 4.022935 TGACCAATAATACTACGCCTACGG 60.023 45.833 0.00 0.00 46.04 4.02
557 3347 4.144297 ACCAATAATACTACGCCTACGGA 58.856 43.478 0.00 0.00 46.04 4.69
558 3348 4.768968 ACCAATAATACTACGCCTACGGAT 59.231 41.667 0.00 0.00 46.04 4.18
559 3349 5.945784 ACCAATAATACTACGCCTACGGATA 59.054 40.000 0.00 0.00 46.04 2.59
560 3350 6.094603 ACCAATAATACTACGCCTACGGATAG 59.905 42.308 0.00 0.00 46.04 2.08
570 3360 3.644884 CCTACGGATAGGTTGCTACAG 57.355 52.381 0.00 0.00 42.95 2.74
571 3361 3.220110 CCTACGGATAGGTTGCTACAGA 58.780 50.000 0.00 0.00 42.95 3.41
572 3362 3.635373 CCTACGGATAGGTTGCTACAGAA 59.365 47.826 0.00 0.00 42.95 3.02
573 3363 4.098960 CCTACGGATAGGTTGCTACAGAAA 59.901 45.833 0.00 0.00 42.95 2.52
574 3364 4.124851 ACGGATAGGTTGCTACAGAAAG 57.875 45.455 0.00 0.00 0.00 2.62
575 3365 3.767673 ACGGATAGGTTGCTACAGAAAGA 59.232 43.478 0.00 0.00 0.00 2.52
576 3366 4.406003 ACGGATAGGTTGCTACAGAAAGAT 59.594 41.667 0.00 0.00 0.00 2.40
577 3367 4.747108 CGGATAGGTTGCTACAGAAAGATG 59.253 45.833 0.00 0.00 0.00 2.90
578 3368 4.513318 GGATAGGTTGCTACAGAAAGATGC 59.487 45.833 0.00 0.00 0.00 3.91
579 3369 2.716217 AGGTTGCTACAGAAAGATGCC 58.284 47.619 0.00 0.00 0.00 4.40
580 3370 2.307098 AGGTTGCTACAGAAAGATGCCT 59.693 45.455 0.00 0.00 0.00 4.75
581 3371 3.519510 AGGTTGCTACAGAAAGATGCCTA 59.480 43.478 0.00 0.00 0.00 3.93
582 3372 3.623510 GGTTGCTACAGAAAGATGCCTAC 59.376 47.826 0.00 0.00 0.00 3.18
583 3373 4.253685 GTTGCTACAGAAAGATGCCTACA 58.746 43.478 0.00 0.00 0.00 2.74
584 3374 4.760530 TGCTACAGAAAGATGCCTACAT 57.239 40.909 0.00 0.00 39.98 2.29
585 3375 5.869649 TGCTACAGAAAGATGCCTACATA 57.130 39.130 0.00 0.00 36.35 2.29
586 3376 5.601662 TGCTACAGAAAGATGCCTACATAC 58.398 41.667 0.00 0.00 36.35 2.39
587 3377 5.363868 TGCTACAGAAAGATGCCTACATACT 59.636 40.000 0.00 0.00 36.35 2.12
588 3378 5.694006 GCTACAGAAAGATGCCTACATACTG 59.306 44.000 0.00 0.00 36.35 2.74
589 3379 5.939764 ACAGAAAGATGCCTACATACTGA 57.060 39.130 0.00 0.00 36.35 3.41
590 3380 5.665459 ACAGAAAGATGCCTACATACTGAC 58.335 41.667 0.00 0.00 36.35 3.51
591 3381 5.187772 ACAGAAAGATGCCTACATACTGACA 59.812 40.000 0.00 0.00 36.35 3.58
592 3382 6.126940 ACAGAAAGATGCCTACATACTGACAT 60.127 38.462 0.00 0.00 36.35 3.06
593 3383 6.202379 CAGAAAGATGCCTACATACTGACATG 59.798 42.308 0.00 0.00 36.35 3.21
594 3384 4.613925 AGATGCCTACATACTGACATGG 57.386 45.455 0.00 0.00 36.35 3.66
595 3385 2.620251 TGCCTACATACTGACATGGC 57.380 50.000 0.00 0.00 39.33 4.40
596 3386 1.836802 TGCCTACATACTGACATGGCA 59.163 47.619 0.00 0.00 45.31 4.92
597 3387 2.238395 TGCCTACATACTGACATGGCAA 59.762 45.455 1.11 0.00 44.67 4.52
598 3388 3.278574 GCCTACATACTGACATGGCAAA 58.721 45.455 1.11 0.00 38.79 3.68
599 3389 3.885297 GCCTACATACTGACATGGCAAAT 59.115 43.478 1.11 0.00 38.79 2.32
600 3390 4.339247 GCCTACATACTGACATGGCAAATT 59.661 41.667 1.11 0.00 38.79 1.82
601 3391 5.163519 GCCTACATACTGACATGGCAAATTT 60.164 40.000 1.11 0.00 38.79 1.82
602 3392 6.498304 CCTACATACTGACATGGCAAATTTC 58.502 40.000 1.11 0.00 0.00 2.17
603 3393 6.319658 CCTACATACTGACATGGCAAATTTCT 59.680 38.462 1.11 0.00 0.00 2.52
604 3394 7.498900 CCTACATACTGACATGGCAAATTTCTA 59.501 37.037 1.11 0.00 0.00 2.10
605 3395 7.886629 ACATACTGACATGGCAAATTTCTAT 57.113 32.000 1.11 0.00 0.00 1.98
606 3396 7.709947 ACATACTGACATGGCAAATTTCTATG 58.290 34.615 1.11 3.96 0.00 2.23
607 3397 5.002464 ACTGACATGGCAAATTTCTATGC 57.998 39.130 1.11 3.40 41.82 3.14
608 3398 4.031418 TGACATGGCAAATTTCTATGCG 57.969 40.909 0.00 0.00 43.47 4.73
609 3399 3.693578 TGACATGGCAAATTTCTATGCGA 59.306 39.130 0.00 1.73 43.47 5.10
610 3400 4.032703 ACATGGCAAATTTCTATGCGAC 57.967 40.909 0.00 0.00 43.47 5.19
611 3401 3.696051 ACATGGCAAATTTCTATGCGACT 59.304 39.130 0.00 0.00 43.47 4.18
612 3402 3.763097 TGGCAAATTTCTATGCGACTG 57.237 42.857 0.00 0.00 43.47 3.51
613 3403 3.342719 TGGCAAATTTCTATGCGACTGA 58.657 40.909 0.00 0.00 43.47 3.41
614 3404 3.374988 TGGCAAATTTCTATGCGACTGAG 59.625 43.478 0.00 0.00 43.47 3.35
615 3405 3.375299 GGCAAATTTCTATGCGACTGAGT 59.625 43.478 0.00 0.00 43.47 3.41
616 3406 4.337763 GCAAATTTCTATGCGACTGAGTG 58.662 43.478 0.00 0.00 32.17 3.51
617 3407 4.093408 GCAAATTTCTATGCGACTGAGTGA 59.907 41.667 0.00 0.00 32.17 3.41
618 3408 5.726138 GCAAATTTCTATGCGACTGAGTGAG 60.726 44.000 0.00 0.00 32.17 3.51
619 3409 3.510388 TTTCTATGCGACTGAGTGAGG 57.490 47.619 0.00 0.00 0.00 3.86
620 3410 2.130272 TCTATGCGACTGAGTGAGGT 57.870 50.000 0.00 0.00 0.00 3.85
621 3411 1.745653 TCTATGCGACTGAGTGAGGTG 59.254 52.381 0.00 0.00 0.00 4.00
622 3412 1.745653 CTATGCGACTGAGTGAGGTGA 59.254 52.381 0.00 0.00 0.00 4.02
623 3413 0.529833 ATGCGACTGAGTGAGGTGAG 59.470 55.000 0.00 0.00 0.00 3.51
624 3414 1.214062 GCGACTGAGTGAGGTGAGG 59.786 63.158 0.00 0.00 0.00 3.86
625 3415 1.528292 GCGACTGAGTGAGGTGAGGT 61.528 60.000 0.00 0.00 0.00 3.85
626 3416 0.242286 CGACTGAGTGAGGTGAGGTG 59.758 60.000 0.00 0.00 0.00 4.00
627 3417 1.621992 GACTGAGTGAGGTGAGGTGA 58.378 55.000 0.00 0.00 0.00 4.02
628 3418 1.543802 GACTGAGTGAGGTGAGGTGAG 59.456 57.143 0.00 0.00 0.00 3.51
629 3419 0.894141 CTGAGTGAGGTGAGGTGAGG 59.106 60.000 0.00 0.00 0.00 3.86
630 3420 0.482887 TGAGTGAGGTGAGGTGAGGA 59.517 55.000 0.00 0.00 0.00 3.71
631 3421 0.892063 GAGTGAGGTGAGGTGAGGAC 59.108 60.000 0.00 0.00 0.00 3.85
632 3422 0.188587 AGTGAGGTGAGGTGAGGACA 59.811 55.000 0.00 0.00 0.00 4.02
633 3423 1.048601 GTGAGGTGAGGTGAGGACAA 58.951 55.000 0.00 0.00 0.00 3.18
634 3424 1.048601 TGAGGTGAGGTGAGGACAAC 58.951 55.000 0.00 0.00 0.00 3.32
636 3426 2.158370 TGAGGTGAGGTGAGGACAACTA 60.158 50.000 0.00 0.00 44.82 2.24
637 3427 2.231721 GAGGTGAGGTGAGGACAACTAC 59.768 54.545 0.00 0.00 44.82 2.73
638 3428 2.158295 AGGTGAGGTGAGGACAACTACT 60.158 50.000 0.00 0.00 44.82 2.57
639 3429 2.633481 GGTGAGGTGAGGACAACTACTT 59.367 50.000 0.00 0.00 44.82 2.24
640 3430 3.555168 GGTGAGGTGAGGACAACTACTTG 60.555 52.174 0.00 0.00 44.82 3.16
641 3431 3.321111 GTGAGGTGAGGACAACTACTTGA 59.679 47.826 0.00 0.00 44.82 3.02
642 3432 4.021016 GTGAGGTGAGGACAACTACTTGAT 60.021 45.833 0.00 0.00 44.82 2.57
643 3433 4.593206 TGAGGTGAGGACAACTACTTGATT 59.407 41.667 0.00 0.00 44.82 2.57
644 3434 5.778241 TGAGGTGAGGACAACTACTTGATTA 59.222 40.000 0.00 0.00 44.82 1.75
645 3435 6.440647 TGAGGTGAGGACAACTACTTGATTAT 59.559 38.462 0.00 0.00 44.82 1.28
646 3436 7.618117 TGAGGTGAGGACAACTACTTGATTATA 59.382 37.037 0.00 0.00 44.82 0.98
647 3437 8.554490 AGGTGAGGACAACTACTTGATTATAT 57.446 34.615 0.00 0.00 42.81 0.86
648 3438 9.656323 AGGTGAGGACAACTACTTGATTATATA 57.344 33.333 0.00 0.00 42.81 0.86
665 3455 9.890629 TGATTATATATTCAACTGTATGAGGCC 57.109 33.333 0.00 0.00 0.00 5.19
666 3456 9.890629 GATTATATATTCAACTGTATGAGGCCA 57.109 33.333 5.01 0.00 0.00 5.36
667 3457 9.672673 ATTATATATTCAACTGTATGAGGCCAC 57.327 33.333 5.01 0.00 0.00 5.01
668 3458 2.093306 TTCAACTGTATGAGGCCACG 57.907 50.000 5.01 0.00 0.00 4.94
669 3459 0.973632 TCAACTGTATGAGGCCACGT 59.026 50.000 5.01 1.73 0.00 4.49
670 3460 1.067142 TCAACTGTATGAGGCCACGTC 60.067 52.381 5.01 0.00 0.00 4.34
671 3461 0.249398 AACTGTATGAGGCCACGTCC 59.751 55.000 5.01 0.00 0.00 4.79
672 3462 0.614979 ACTGTATGAGGCCACGTCCT 60.615 55.000 5.01 0.00 39.67 3.85
673 3463 0.179100 CTGTATGAGGCCACGTCCTG 60.179 60.000 5.01 0.00 36.38 3.86
674 3464 0.902984 TGTATGAGGCCACGTCCTGT 60.903 55.000 5.01 0.00 36.38 4.00
675 3465 0.179108 GTATGAGGCCACGTCCTGTC 60.179 60.000 5.01 0.00 36.38 3.51
676 3466 1.327690 TATGAGGCCACGTCCTGTCC 61.328 60.000 5.01 0.00 36.38 4.02
677 3467 4.436998 GAGGCCACGTCCTGTCCG 62.437 72.222 5.01 0.00 36.38 4.79
679 3469 3.376078 GGCCACGTCCTGTCCGTA 61.376 66.667 0.00 0.00 36.65 4.02
680 3470 2.652530 GCCACGTCCTGTCCGTAA 59.347 61.111 0.00 0.00 36.65 3.18
681 3471 1.445582 GCCACGTCCTGTCCGTAAG 60.446 63.158 0.00 0.00 36.65 2.34
696 3486 3.634730 CGTAAGGTGAGTGCGTAAATG 57.365 47.619 0.00 0.00 0.00 2.32
697 3487 2.991190 CGTAAGGTGAGTGCGTAAATGT 59.009 45.455 0.00 0.00 0.00 2.71
698 3488 3.181534 CGTAAGGTGAGTGCGTAAATGTG 60.182 47.826 0.00 0.00 0.00 3.21
699 3489 2.543777 AGGTGAGTGCGTAAATGTGT 57.456 45.000 0.00 0.00 0.00 3.72
700 3490 2.143122 AGGTGAGTGCGTAAATGTGTG 58.857 47.619 0.00 0.00 0.00 3.82
701 3491 1.399727 GGTGAGTGCGTAAATGTGTGC 60.400 52.381 0.00 0.00 0.00 4.57
702 3492 0.871722 TGAGTGCGTAAATGTGTGCC 59.128 50.000 0.00 0.00 0.00 5.01
703 3493 0.871722 GAGTGCGTAAATGTGTGCCA 59.128 50.000 0.00 0.00 0.00 4.92
704 3494 1.468520 GAGTGCGTAAATGTGTGCCAT 59.531 47.619 0.00 0.00 34.36 4.40
705 3495 2.675844 GAGTGCGTAAATGTGTGCCATA 59.324 45.455 0.00 0.00 31.97 2.74
706 3496 3.078097 AGTGCGTAAATGTGTGCCATAA 58.922 40.909 0.00 0.00 31.97 1.90
707 3497 3.126858 AGTGCGTAAATGTGTGCCATAAG 59.873 43.478 0.00 0.00 31.97 1.73
708 3498 3.078097 TGCGTAAATGTGTGCCATAAGT 58.922 40.909 0.00 0.00 31.97 2.24
709 3499 3.120025 TGCGTAAATGTGTGCCATAAGTG 60.120 43.478 0.00 0.00 31.97 3.16
710 3500 3.119990 GCGTAAATGTGTGCCATAAGTGT 60.120 43.478 0.00 0.00 31.97 3.55
711 3501 4.093703 GCGTAAATGTGTGCCATAAGTGTA 59.906 41.667 0.00 0.00 31.97 2.90
712 3502 5.726688 GCGTAAATGTGTGCCATAAGTGTAG 60.727 44.000 0.00 0.00 31.97 2.74
713 3503 4.701956 AAATGTGTGCCATAAGTGTAGC 57.298 40.909 0.00 0.00 31.97 3.58
714 3504 2.849294 TGTGTGCCATAAGTGTAGCA 57.151 45.000 0.00 0.00 0.00 3.49
715 3505 3.348647 TGTGTGCCATAAGTGTAGCAT 57.651 42.857 0.00 0.00 37.60 3.79
716 3506 3.684908 TGTGTGCCATAAGTGTAGCATT 58.315 40.909 0.00 0.00 37.60 3.56
717 3507 4.078537 TGTGTGCCATAAGTGTAGCATTT 58.921 39.130 0.00 0.00 37.60 2.32
718 3508 4.155826 TGTGTGCCATAAGTGTAGCATTTC 59.844 41.667 0.00 0.00 37.60 2.17
719 3509 4.396166 GTGTGCCATAAGTGTAGCATTTCT 59.604 41.667 0.00 0.00 37.60 2.52
720 3510 4.635765 TGTGCCATAAGTGTAGCATTTCTC 59.364 41.667 0.00 0.00 37.60 2.87
721 3511 4.635765 GTGCCATAAGTGTAGCATTTCTCA 59.364 41.667 0.00 0.00 37.60 3.27
722 3512 5.297776 GTGCCATAAGTGTAGCATTTCTCAT 59.702 40.000 0.00 0.00 37.60 2.90
723 3513 5.528690 TGCCATAAGTGTAGCATTTCTCATC 59.471 40.000 0.00 0.00 0.00 2.92
724 3514 5.762218 GCCATAAGTGTAGCATTTCTCATCT 59.238 40.000 0.00 0.00 0.00 2.90
725 3515 6.931281 GCCATAAGTGTAGCATTTCTCATCTA 59.069 38.462 0.00 0.00 0.00 1.98
757 3549 2.213310 TCCAAGCATCCCCATTTCCTA 58.787 47.619 0.00 0.00 0.00 2.94
765 3557 6.071320 AGCATCCCCATTTCCTATTTCTAAC 58.929 40.000 0.00 0.00 0.00 2.34
787 3579 1.817941 AGCGTCCGTGCTGTTGTTT 60.818 52.632 0.00 0.00 45.28 2.83
865 3663 1.611592 CCGTCGCTGTCGTAAACCAC 61.612 60.000 0.00 0.00 36.96 4.16
875 3673 3.118482 TGTCGTAAACCACACCAAGGTAA 60.118 43.478 0.00 0.00 38.76 2.85
891 3689 3.797451 GGTAACTTTCCGACTCCCTAG 57.203 52.381 0.00 0.00 0.00 3.02
908 3709 0.118346 TAGAGGACCACCACCACCAT 59.882 55.000 0.00 0.00 38.94 3.55
909 3710 0.772124 AGAGGACCACCACCACCATT 60.772 55.000 0.00 0.00 38.94 3.16
938 3739 0.182061 ATTCGCAGCCAGATCCATGT 59.818 50.000 0.00 0.00 0.00 3.21
1173 4056 0.395862 ACGTCGACCTCATCCTGGAT 60.396 55.000 10.58 2.57 0.00 3.41
1286 4169 0.178873 AAGCTACCCCAGACCCTTGA 60.179 55.000 0.00 0.00 0.00 3.02
1326 4212 3.723235 CTGCAGCAGCGGGTATCGT 62.723 63.158 10.14 0.00 46.23 3.73
1400 4292 3.545703 CTTACCTGCATCCTAACAAGGG 58.454 50.000 0.00 0.00 0.00 3.95
1479 4428 2.566952 GCAACAGGCATGATTACCAC 57.433 50.000 4.84 0.00 43.97 4.16
1564 4531 4.523173 AGGAGACGATGAACAGACTTAACA 59.477 41.667 0.00 0.00 0.00 2.41
1923 4906 6.405508 GCTTACACTATGTTGTAGCTCCTGTA 60.406 42.308 0.00 0.00 33.50 2.74
2099 5082 1.135972 CGACACAATTTTCCTGGCTCG 60.136 52.381 0.00 0.00 0.00 5.03
2206 5202 7.112779 ACAGAAATTTCTACCCTATGTTCCTG 58.887 38.462 20.07 6.57 35.34 3.86
2316 5320 5.112220 TCATCTGAACAATTTGTCTGTGC 57.888 39.130 1.83 0.00 0.00 4.57
2363 5367 1.550072 CCCCCTATTTGTTGGTGCTTG 59.450 52.381 0.00 0.00 0.00 4.01
2410 5422 2.161855 CAGAGCAATGCCTGGTAAACA 58.838 47.619 13.50 0.00 35.35 2.83
2412 5431 3.019564 AGAGCAATGCCTGGTAAACATC 58.980 45.455 0.00 0.00 35.35 3.06
2418 5437 2.806434 TGCCTGGTAAACATCAGCATT 58.194 42.857 0.00 0.00 0.00 3.56
2437 5456 8.914654 TCAGCATTATTTCATTTTCAAAGAACG 58.085 29.630 0.00 0.00 0.00 3.95
2438 5457 8.164153 CAGCATTATTTCATTTTCAAAGAACGG 58.836 33.333 0.00 0.00 0.00 4.44
2439 5458 8.087750 AGCATTATTTCATTTTCAAAGAACGGA 58.912 29.630 0.00 0.00 0.00 4.69
2440 5459 8.872845 GCATTATTTCATTTTCAAAGAACGGAT 58.127 29.630 0.00 0.00 0.00 4.18
2445 5464 8.709386 TTTCATTTTCAAAGAACGGATTTTCA 57.291 26.923 0.00 0.00 0.00 2.69
2446 5465 8.709386 TTCATTTTCAAAGAACGGATTTTCAA 57.291 26.923 0.00 0.00 0.00 2.69
2447 5466 8.709386 TCATTTTCAAAGAACGGATTTTCAAA 57.291 26.923 0.00 0.00 0.00 2.69
2448 5467 8.816144 TCATTTTCAAAGAACGGATTTTCAAAG 58.184 29.630 0.00 0.00 0.00 2.77
2449 5468 8.816144 CATTTTCAAAGAACGGATTTTCAAAGA 58.184 29.630 0.00 0.00 0.00 2.52
2450 5469 8.764524 TTTTCAAAGAACGGATTTTCAAAGAA 57.235 26.923 0.00 0.00 0.00 2.52
2553 5601 6.440965 ACTGTAATAGGCCCTCTTATCCATAC 59.559 42.308 0.00 0.00 0.00 2.39
2617 5674 5.867716 CGTCAACCTGCTAGTGTACTAAAAT 59.132 40.000 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.189521 GTCCACCGCCGATCCATT 59.810 61.111 0.00 0.00 0.00 3.16
2 3 2.191786 TTTGTCCACCGCCGATCCAT 62.192 55.000 0.00 0.00 0.00 3.41
3 4 2.398840 TTTTGTCCACCGCCGATCCA 62.399 55.000 0.00 0.00 0.00 3.41
4 5 1.238625 TTTTTGTCCACCGCCGATCC 61.239 55.000 0.00 0.00 0.00 3.36
6 7 0.820074 TGTTTTTGTCCACCGCCGAT 60.820 50.000 0.00 0.00 0.00 4.18
7 8 1.030488 TTGTTTTTGTCCACCGCCGA 61.030 50.000 0.00 0.00 0.00 5.54
8 9 0.179134 TTTGTTTTTGTCCACCGCCG 60.179 50.000 0.00 0.00 0.00 6.46
9 10 1.282817 GTTTGTTTTTGTCCACCGCC 58.717 50.000 0.00 0.00 0.00 6.13
10 11 1.997669 TGTTTGTTTTTGTCCACCGC 58.002 45.000 0.00 0.00 0.00 5.68
11 12 4.891516 CAAATGTTTGTTTTTGTCCACCG 58.108 39.130 0.00 0.00 33.59 4.94
24 25 4.084433 CGGGAGCAAATGAACAAATGTTTG 60.084 41.667 0.00 4.04 43.62 2.93
25 26 4.057432 CGGGAGCAAATGAACAAATGTTT 58.943 39.130 0.00 0.00 38.56 2.83
26 27 3.652274 CGGGAGCAAATGAACAAATGTT 58.348 40.909 0.00 0.00 41.64 2.71
27 28 3.302365 CGGGAGCAAATGAACAAATGT 57.698 42.857 0.00 0.00 0.00 2.71
46 47 3.759766 AAAAACGGCCCAACACGCG 62.760 57.895 3.53 3.53 0.00 6.01
47 48 2.105328 AAAAACGGCCCAACACGC 59.895 55.556 0.00 0.00 0.00 5.34
48 49 1.139947 ACAAAAACGGCCCAACACG 59.860 52.632 0.00 0.00 0.00 4.49
49 50 0.108567 ACACAAAAACGGCCCAACAC 60.109 50.000 0.00 0.00 0.00 3.32
50 51 0.173708 GACACAAAAACGGCCCAACA 59.826 50.000 0.00 0.00 0.00 3.33
51 52 0.528901 GGACACAAAAACGGCCCAAC 60.529 55.000 0.00 0.00 0.00 3.77
52 53 1.817209 GGACACAAAAACGGCCCAA 59.183 52.632 0.00 0.00 0.00 4.12
53 54 2.482333 CGGACACAAAAACGGCCCA 61.482 57.895 0.00 0.00 0.00 5.36
54 55 2.007113 AACGGACACAAAAACGGCCC 62.007 55.000 0.00 0.00 0.00 5.80
55 56 0.662085 TAACGGACACAAAAACGGCC 59.338 50.000 0.00 0.00 0.00 6.13
56 57 1.745566 GTAACGGACACAAAAACGGC 58.254 50.000 0.00 0.00 0.00 5.68
57 58 1.916822 GCGTAACGGACACAAAAACGG 60.917 52.381 0.00 0.00 0.00 4.44
58 59 1.378347 GCGTAACGGACACAAAAACG 58.622 50.000 0.00 0.00 0.00 3.60
59 60 1.005137 TCGCGTAACGGACACAAAAAC 60.005 47.619 5.77 0.00 43.89 2.43
60 61 1.005137 GTCGCGTAACGGACACAAAAA 60.005 47.619 5.77 0.00 43.89 1.94
79 80 1.223487 CGACCCCAAATGATCCGGT 59.777 57.895 0.00 0.00 0.00 5.28
85 86 4.690719 ACGCGCGACCCCAAATGA 62.691 61.111 39.36 0.00 0.00 2.57
105 106 1.575419 TATGGTACTCGGGCCAACTT 58.425 50.000 4.39 0.00 38.38 2.66
129 130 6.032722 GGATACAACAATGTGTTAGCTACG 57.967 41.667 0.00 0.00 38.77 3.51
151 152 8.934825 CCAAACAAAACCATAACAGAATATTGG 58.065 33.333 0.00 0.00 0.00 3.16
162 163 9.110502 GTTTATTTCACCCAAACAAAACCATAA 57.889 29.630 0.00 0.00 32.15 1.90
167 168 8.387354 CAGAAGTTTATTTCACCCAAACAAAAC 58.613 33.333 0.00 0.00 35.38 2.43
237 3021 4.570772 TCCAAAAACTGTCTTCTGTTCTCG 59.429 41.667 0.00 0.00 35.29 4.04
252 3036 9.586435 CCTATCCATGTCTTATTTTCCAAAAAC 57.414 33.333 0.00 0.00 0.00 2.43
285 3071 4.770010 CCCCCAACTAAGTTTCTGCATTTA 59.230 41.667 0.00 0.00 0.00 1.40
294 3080 1.456919 AGCCTCCCCCAACTAAGTTT 58.543 50.000 0.00 0.00 0.00 2.66
313 3100 0.824109 CCATCGCCACCTTCTCACTA 59.176 55.000 0.00 0.00 0.00 2.74
446 3234 4.866508 ACATGACTAGAAGGAAACGTGA 57.133 40.909 0.00 0.00 0.00 4.35
533 3323 4.022935 CCGTAGGCGTAGTATTATTGGTCA 60.023 45.833 0.00 0.00 46.14 4.02
534 3324 4.479619 CCGTAGGCGTAGTATTATTGGTC 58.520 47.826 0.00 0.00 46.14 4.02
535 3325 4.510038 CCGTAGGCGTAGTATTATTGGT 57.490 45.455 0.00 0.00 46.14 3.67
551 3341 4.913335 TTCTGTAGCAACCTATCCGTAG 57.087 45.455 0.00 0.00 0.00 3.51
552 3342 4.951715 TCTTTCTGTAGCAACCTATCCGTA 59.048 41.667 0.00 0.00 0.00 4.02
553 3343 3.767673 TCTTTCTGTAGCAACCTATCCGT 59.232 43.478 0.00 0.00 0.00 4.69
554 3344 4.386867 TCTTTCTGTAGCAACCTATCCG 57.613 45.455 0.00 0.00 0.00 4.18
555 3345 4.513318 GCATCTTTCTGTAGCAACCTATCC 59.487 45.833 0.00 0.00 0.00 2.59
556 3346 4.513318 GGCATCTTTCTGTAGCAACCTATC 59.487 45.833 0.00 0.00 0.00 2.08
557 3347 4.164988 AGGCATCTTTCTGTAGCAACCTAT 59.835 41.667 0.00 0.00 0.00 2.57
558 3348 3.519510 AGGCATCTTTCTGTAGCAACCTA 59.480 43.478 0.00 0.00 0.00 3.08
559 3349 2.307098 AGGCATCTTTCTGTAGCAACCT 59.693 45.455 0.00 0.00 0.00 3.50
560 3350 2.716217 AGGCATCTTTCTGTAGCAACC 58.284 47.619 0.00 0.00 0.00 3.77
561 3351 4.253685 TGTAGGCATCTTTCTGTAGCAAC 58.746 43.478 0.00 0.00 0.00 4.17
562 3352 4.551702 TGTAGGCATCTTTCTGTAGCAA 57.448 40.909 0.00 0.00 0.00 3.91
563 3353 4.760530 ATGTAGGCATCTTTCTGTAGCA 57.239 40.909 0.00 0.00 0.00 3.49
564 3354 5.694006 CAGTATGTAGGCATCTTTCTGTAGC 59.306 44.000 0.00 0.00 36.58 3.58
565 3355 6.920758 GTCAGTATGTAGGCATCTTTCTGTAG 59.079 42.308 0.00 0.00 37.40 2.74
566 3356 6.379988 TGTCAGTATGTAGGCATCTTTCTGTA 59.620 38.462 0.00 0.00 37.40 2.74
567 3357 5.187772 TGTCAGTATGTAGGCATCTTTCTGT 59.812 40.000 0.00 0.00 37.40 3.41
568 3358 5.664457 TGTCAGTATGTAGGCATCTTTCTG 58.336 41.667 0.00 0.00 37.40 3.02
569 3359 5.939764 TGTCAGTATGTAGGCATCTTTCT 57.060 39.130 0.00 0.00 37.40 2.52
570 3360 5.468072 CCATGTCAGTATGTAGGCATCTTTC 59.532 44.000 0.00 0.00 37.40 2.62
571 3361 5.371526 CCATGTCAGTATGTAGGCATCTTT 58.628 41.667 0.00 0.00 37.40 2.52
572 3362 4.744867 GCCATGTCAGTATGTAGGCATCTT 60.745 45.833 0.00 0.00 38.63 2.40
573 3363 3.244353 GCCATGTCAGTATGTAGGCATCT 60.244 47.826 0.00 0.00 38.63 2.90
574 3364 3.070018 GCCATGTCAGTATGTAGGCATC 58.930 50.000 0.00 0.00 38.63 3.91
575 3365 2.439135 TGCCATGTCAGTATGTAGGCAT 59.561 45.455 0.00 0.00 41.60 4.40
576 3366 1.836802 TGCCATGTCAGTATGTAGGCA 59.163 47.619 0.00 0.00 43.12 4.75
577 3367 2.620251 TGCCATGTCAGTATGTAGGC 57.380 50.000 0.00 0.00 39.00 3.93
578 3368 6.319658 AGAAATTTGCCATGTCAGTATGTAGG 59.680 38.462 0.00 0.00 37.40 3.18
579 3369 7.325660 AGAAATTTGCCATGTCAGTATGTAG 57.674 36.000 0.00 0.00 37.40 2.74
580 3370 8.839343 CATAGAAATTTGCCATGTCAGTATGTA 58.161 33.333 0.00 0.00 37.40 2.29
581 3371 7.682741 GCATAGAAATTTGCCATGTCAGTATGT 60.683 37.037 0.00 0.00 32.88 2.29
582 3372 6.639686 GCATAGAAATTTGCCATGTCAGTATG 59.360 38.462 0.00 0.00 32.66 2.39
583 3373 6.513884 CGCATAGAAATTTGCCATGTCAGTAT 60.514 38.462 0.00 0.00 35.41 2.12
584 3374 5.220835 CGCATAGAAATTTGCCATGTCAGTA 60.221 40.000 0.00 0.00 35.41 2.74
585 3375 4.439153 CGCATAGAAATTTGCCATGTCAGT 60.439 41.667 0.00 0.00 35.41 3.41
586 3376 4.039703 CGCATAGAAATTTGCCATGTCAG 58.960 43.478 0.00 0.00 35.41 3.51
587 3377 3.693578 TCGCATAGAAATTTGCCATGTCA 59.306 39.130 0.00 0.00 35.41 3.58
588 3378 4.037690 GTCGCATAGAAATTTGCCATGTC 58.962 43.478 0.00 0.00 35.41 3.06
589 3379 3.696051 AGTCGCATAGAAATTTGCCATGT 59.304 39.130 0.00 0.00 35.41 3.21
590 3380 4.039703 CAGTCGCATAGAAATTTGCCATG 58.960 43.478 0.00 0.00 35.41 3.66
591 3381 3.947196 TCAGTCGCATAGAAATTTGCCAT 59.053 39.130 0.00 0.00 35.41 4.40
592 3382 3.342719 TCAGTCGCATAGAAATTTGCCA 58.657 40.909 0.00 0.00 35.41 4.92
593 3383 3.375299 ACTCAGTCGCATAGAAATTTGCC 59.625 43.478 0.00 0.00 35.41 4.52
594 3384 4.093408 TCACTCAGTCGCATAGAAATTTGC 59.907 41.667 0.00 0.00 35.50 3.68
595 3385 5.220548 CCTCACTCAGTCGCATAGAAATTTG 60.221 44.000 0.00 0.00 0.00 2.32
596 3386 4.872691 CCTCACTCAGTCGCATAGAAATTT 59.127 41.667 0.00 0.00 0.00 1.82
597 3387 4.081420 ACCTCACTCAGTCGCATAGAAATT 60.081 41.667 0.00 0.00 0.00 1.82
598 3388 3.449018 ACCTCACTCAGTCGCATAGAAAT 59.551 43.478 0.00 0.00 0.00 2.17
599 3389 2.826128 ACCTCACTCAGTCGCATAGAAA 59.174 45.455 0.00 0.00 0.00 2.52
600 3390 2.164422 CACCTCACTCAGTCGCATAGAA 59.836 50.000 0.00 0.00 0.00 2.10
601 3391 1.745653 CACCTCACTCAGTCGCATAGA 59.254 52.381 0.00 0.00 0.00 1.98
602 3392 1.745653 TCACCTCACTCAGTCGCATAG 59.254 52.381 0.00 0.00 0.00 2.23
603 3393 1.745653 CTCACCTCACTCAGTCGCATA 59.254 52.381 0.00 0.00 0.00 3.14
604 3394 0.529833 CTCACCTCACTCAGTCGCAT 59.470 55.000 0.00 0.00 0.00 4.73
605 3395 1.527433 CCTCACCTCACTCAGTCGCA 61.527 60.000 0.00 0.00 0.00 5.10
606 3396 1.214062 CCTCACCTCACTCAGTCGC 59.786 63.158 0.00 0.00 0.00 5.19
607 3397 0.242286 CACCTCACCTCACTCAGTCG 59.758 60.000 0.00 0.00 0.00 4.18
608 3398 1.543802 CTCACCTCACCTCACTCAGTC 59.456 57.143 0.00 0.00 0.00 3.51
609 3399 1.626686 CTCACCTCACCTCACTCAGT 58.373 55.000 0.00 0.00 0.00 3.41
610 3400 0.894141 CCTCACCTCACCTCACTCAG 59.106 60.000 0.00 0.00 0.00 3.35
611 3401 0.482887 TCCTCACCTCACCTCACTCA 59.517 55.000 0.00 0.00 0.00 3.41
612 3402 0.892063 GTCCTCACCTCACCTCACTC 59.108 60.000 0.00 0.00 0.00 3.51
613 3403 0.188587 TGTCCTCACCTCACCTCACT 59.811 55.000 0.00 0.00 0.00 3.41
614 3404 1.048601 TTGTCCTCACCTCACCTCAC 58.951 55.000 0.00 0.00 0.00 3.51
615 3405 1.048601 GTTGTCCTCACCTCACCTCA 58.951 55.000 0.00 0.00 0.00 3.86
616 3406 1.343069 AGTTGTCCTCACCTCACCTC 58.657 55.000 0.00 0.00 0.00 3.85
617 3407 2.158295 AGTAGTTGTCCTCACCTCACCT 60.158 50.000 0.00 0.00 0.00 4.00
618 3408 2.249139 AGTAGTTGTCCTCACCTCACC 58.751 52.381 0.00 0.00 0.00 4.02
619 3409 3.321111 TCAAGTAGTTGTCCTCACCTCAC 59.679 47.826 10.08 0.00 34.98 3.51
620 3410 3.572642 TCAAGTAGTTGTCCTCACCTCA 58.427 45.455 10.08 0.00 34.98 3.86
621 3411 4.810191 ATCAAGTAGTTGTCCTCACCTC 57.190 45.455 10.08 0.00 34.98 3.85
622 3412 6.875972 ATAATCAAGTAGTTGTCCTCACCT 57.124 37.500 10.08 0.00 34.98 4.00
639 3429 9.890629 GGCCTCATACAGTTGAATATATAATCA 57.109 33.333 0.00 0.00 0.00 2.57
640 3430 9.890629 TGGCCTCATACAGTTGAATATATAATC 57.109 33.333 3.32 0.00 0.00 1.75
641 3431 9.672673 GTGGCCTCATACAGTTGAATATATAAT 57.327 33.333 3.32 0.00 0.00 1.28
642 3432 7.817478 CGTGGCCTCATACAGTTGAATATATAA 59.183 37.037 3.32 0.00 0.00 0.98
643 3433 7.039293 ACGTGGCCTCATACAGTTGAATATATA 60.039 37.037 3.32 0.00 0.00 0.86
644 3434 6.166279 CGTGGCCTCATACAGTTGAATATAT 58.834 40.000 3.32 0.00 0.00 0.86
645 3435 5.069914 ACGTGGCCTCATACAGTTGAATATA 59.930 40.000 3.32 0.00 0.00 0.86
646 3436 4.141711 ACGTGGCCTCATACAGTTGAATAT 60.142 41.667 3.32 0.00 0.00 1.28
647 3437 3.196901 ACGTGGCCTCATACAGTTGAATA 59.803 43.478 3.32 0.00 0.00 1.75
648 3438 2.027192 ACGTGGCCTCATACAGTTGAAT 60.027 45.455 3.32 0.00 0.00 2.57
649 3439 1.346395 ACGTGGCCTCATACAGTTGAA 59.654 47.619 3.32 0.00 0.00 2.69
650 3440 0.973632 ACGTGGCCTCATACAGTTGA 59.026 50.000 3.32 0.00 0.00 3.18
651 3441 1.359848 GACGTGGCCTCATACAGTTG 58.640 55.000 3.32 0.00 0.00 3.16
652 3442 0.249398 GGACGTGGCCTCATACAGTT 59.751 55.000 3.32 0.00 0.00 3.16
653 3443 0.614979 AGGACGTGGCCTCATACAGT 60.615 55.000 3.32 0.00 30.76 3.55
654 3444 0.179100 CAGGACGTGGCCTCATACAG 60.179 60.000 3.32 0.00 35.66 2.74
655 3445 0.902984 ACAGGACGTGGCCTCATACA 60.903 55.000 3.32 0.00 35.66 2.29
656 3446 0.179108 GACAGGACGTGGCCTCATAC 60.179 60.000 3.32 0.00 35.66 2.39
657 3447 2.199117 GACAGGACGTGGCCTCATA 58.801 57.895 3.32 0.00 35.66 2.15
658 3448 2.982130 GACAGGACGTGGCCTCAT 59.018 61.111 3.32 0.00 35.66 2.90
663 3453 1.445582 CTTACGGACAGGACGTGGC 60.446 63.158 0.00 0.00 45.20 5.01
664 3454 1.214589 CCTTACGGACAGGACGTGG 59.785 63.158 0.00 0.00 45.20 4.94
665 3455 0.388134 CACCTTACGGACAGGACGTG 60.388 60.000 0.00 0.00 45.20 4.49
667 3457 0.170561 CTCACCTTACGGACAGGACG 59.829 60.000 3.97 0.00 35.14 4.79
668 3458 1.067776 CACTCACCTTACGGACAGGAC 60.068 57.143 3.97 0.00 35.14 3.85
669 3459 1.254026 CACTCACCTTACGGACAGGA 58.746 55.000 3.97 0.00 35.14 3.86
670 3460 0.389948 GCACTCACCTTACGGACAGG 60.390 60.000 0.00 0.00 37.45 4.00
671 3461 0.732880 CGCACTCACCTTACGGACAG 60.733 60.000 0.00 0.00 0.00 3.51
672 3462 1.287815 CGCACTCACCTTACGGACA 59.712 57.895 0.00 0.00 0.00 4.02
673 3463 0.523072 TACGCACTCACCTTACGGAC 59.477 55.000 0.00 0.00 0.00 4.79
674 3464 1.246649 TTACGCACTCACCTTACGGA 58.753 50.000 0.00 0.00 0.00 4.69
675 3465 2.068837 TTTACGCACTCACCTTACGG 57.931 50.000 0.00 0.00 0.00 4.02
676 3466 2.991190 ACATTTACGCACTCACCTTACG 59.009 45.455 0.00 0.00 0.00 3.18
677 3467 3.744426 ACACATTTACGCACTCACCTTAC 59.256 43.478 0.00 0.00 0.00 2.34
678 3468 3.743911 CACACATTTACGCACTCACCTTA 59.256 43.478 0.00 0.00 0.00 2.69
679 3469 2.548057 CACACATTTACGCACTCACCTT 59.452 45.455 0.00 0.00 0.00 3.50
680 3470 2.143122 CACACATTTACGCACTCACCT 58.857 47.619 0.00 0.00 0.00 4.00
681 3471 1.399727 GCACACATTTACGCACTCACC 60.400 52.381 0.00 0.00 0.00 4.02
682 3472 1.399727 GGCACACATTTACGCACTCAC 60.400 52.381 0.00 0.00 0.00 3.51
683 3473 0.871722 GGCACACATTTACGCACTCA 59.128 50.000 0.00 0.00 0.00 3.41
684 3474 0.871722 TGGCACACATTTACGCACTC 59.128 50.000 0.00 0.00 0.00 3.51
685 3475 3.014037 TGGCACACATTTACGCACT 57.986 47.368 0.00 0.00 0.00 4.40
698 3488 4.635765 TGAGAAATGCTACACTTATGGCAC 59.364 41.667 0.00 0.00 37.52 5.01
699 3489 4.842574 TGAGAAATGCTACACTTATGGCA 58.157 39.130 0.00 0.00 39.06 4.92
700 3490 5.762218 AGATGAGAAATGCTACACTTATGGC 59.238 40.000 0.00 0.00 0.00 4.40
701 3491 8.933807 CATAGATGAGAAATGCTACACTTATGG 58.066 37.037 0.00 0.00 0.00 2.74
702 3492 9.702494 TCATAGATGAGAAATGCTACACTTATG 57.298 33.333 0.00 0.00 32.11 1.90
703 3493 9.703892 GTCATAGATGAGAAATGCTACACTTAT 57.296 33.333 0.00 0.00 37.51 1.73
704 3494 8.918116 AGTCATAGATGAGAAATGCTACACTTA 58.082 33.333 0.00 0.00 37.51 2.24
705 3495 7.790027 AGTCATAGATGAGAAATGCTACACTT 58.210 34.615 0.00 0.00 37.51 3.16
706 3496 7.358770 AGTCATAGATGAGAAATGCTACACT 57.641 36.000 0.00 0.00 37.51 3.55
707 3497 9.352784 GATAGTCATAGATGAGAAATGCTACAC 57.647 37.037 0.00 0.00 37.51 2.90
708 3498 8.526978 GGATAGTCATAGATGAGAAATGCTACA 58.473 37.037 0.00 0.00 37.51 2.74
709 3499 8.526978 TGGATAGTCATAGATGAGAAATGCTAC 58.473 37.037 0.00 0.00 37.51 3.58
710 3500 8.655935 TGGATAGTCATAGATGAGAAATGCTA 57.344 34.615 0.00 0.00 37.51 3.49
711 3501 7.550597 TGGATAGTCATAGATGAGAAATGCT 57.449 36.000 0.00 0.00 37.51 3.79
712 3502 8.789825 ATTGGATAGTCATAGATGAGAAATGC 57.210 34.615 0.00 0.00 37.51 3.56
713 3503 9.381033 GGATTGGATAGTCATAGATGAGAAATG 57.619 37.037 0.00 0.00 37.51 2.32
714 3504 9.109246 TGGATTGGATAGTCATAGATGAGAAAT 57.891 33.333 0.00 0.00 37.51 2.17
715 3505 8.496534 TGGATTGGATAGTCATAGATGAGAAA 57.503 34.615 0.00 0.00 37.51 2.52
716 3506 8.496534 TTGGATTGGATAGTCATAGATGAGAA 57.503 34.615 0.00 0.00 37.51 2.87
717 3507 7.310299 GCTTGGATTGGATAGTCATAGATGAGA 60.310 40.741 0.00 0.00 37.51 3.27
718 3508 6.817641 GCTTGGATTGGATAGTCATAGATGAG 59.182 42.308 0.00 0.00 37.51 2.90
719 3509 6.270695 TGCTTGGATTGGATAGTCATAGATGA 59.729 38.462 0.00 0.00 0.00 2.92
720 3510 6.470278 TGCTTGGATTGGATAGTCATAGATG 58.530 40.000 0.00 0.00 0.00 2.90
721 3511 6.692849 TGCTTGGATTGGATAGTCATAGAT 57.307 37.500 0.00 0.00 0.00 1.98
722 3512 6.296087 GGATGCTTGGATTGGATAGTCATAGA 60.296 42.308 0.00 0.00 0.00 1.98
723 3513 5.879223 GGATGCTTGGATTGGATAGTCATAG 59.121 44.000 0.00 0.00 0.00 2.23
724 3514 5.280676 GGGATGCTTGGATTGGATAGTCATA 60.281 44.000 0.00 0.00 0.00 2.15
725 3515 4.508047 GGGATGCTTGGATTGGATAGTCAT 60.508 45.833 0.00 0.00 0.00 3.06
757 3549 2.993899 CACGGACGCTGAAGTTAGAAAT 59.006 45.455 0.00 0.00 0.00 2.17
787 3579 1.148027 ACTTCTCAGAGGACAGTGGGA 59.852 52.381 0.00 0.00 0.00 4.37
865 3663 3.064931 GAGTCGGAAAGTTACCTTGGTG 58.935 50.000 2.03 0.00 0.00 4.17
875 3673 1.639628 TCCTCTAGGGAGTCGGAAAGT 59.360 52.381 0.00 0.00 39.58 2.66
889 3687 0.118346 ATGGTGGTGGTGGTCCTCTA 59.882 55.000 0.00 0.00 34.23 2.43
891 3689 0.609131 CAATGGTGGTGGTGGTCCTC 60.609 60.000 0.00 0.00 34.23 3.71
908 3709 3.357203 TGGCTGCGAATAATTAACCCAA 58.643 40.909 0.00 0.00 0.00 4.12
909 3710 2.948979 CTGGCTGCGAATAATTAACCCA 59.051 45.455 0.00 0.00 0.00 4.51
919 3720 0.182061 ACATGGATCTGGCTGCGAAT 59.818 50.000 0.00 0.00 0.00 3.34
923 3724 1.135721 GGAAAACATGGATCTGGCTGC 59.864 52.381 0.00 0.00 0.00 5.25
938 3739 4.371624 TCTGCAAATGGAGAGAGGAAAA 57.628 40.909 0.01 0.00 37.60 2.29
1173 4056 2.373338 CTGGGAGGCGGGAGAGGATA 62.373 65.000 0.00 0.00 0.00 2.59
1286 4169 1.593296 GGTCGTGTAGAGGAAGCCGT 61.593 60.000 0.00 0.00 0.00 5.68
1326 4212 1.595929 GAAACCGGCGAAGTGGTGA 60.596 57.895 9.30 0.00 38.34 4.02
1479 4428 1.769733 CGGGATTGCACACAACAAAG 58.230 50.000 0.00 0.00 38.99 2.77
1564 4531 2.499303 AAAGCCAGGCCTGCGGTATT 62.499 55.000 28.39 17.25 0.00 1.89
2042 5025 1.978580 CAACCACCCTGTACTTCTCCT 59.021 52.381 0.00 0.00 0.00 3.69
2184 5180 9.628500 AATACAGGAACATAGGGTAGAAATTTC 57.372 33.333 10.33 10.33 0.00 2.17
2206 5202 3.005897 TCTGCTAATGGCTCCGAGAATAC 59.994 47.826 0.00 0.00 42.39 1.89
2348 5352 4.759693 CAGGAGTACAAGCACCAACAAATA 59.240 41.667 0.00 0.00 0.00 1.40
2354 5358 0.764890 AGCAGGAGTACAAGCACCAA 59.235 50.000 0.00 0.00 0.00 3.67
2363 5367 3.127721 GGAAATCAAGCAAGCAGGAGTAC 59.872 47.826 0.00 0.00 0.00 2.73
2412 5431 8.164153 CCGTTCTTTGAAAATGAAATAATGCTG 58.836 33.333 0.00 0.00 40.94 4.41
2436 5455 8.466798 AGGGTAATAACATTCTTTGAAAATCCG 58.533 33.333 0.00 0.00 0.00 4.18
2449 5468 9.869757 GCAAACAAGAATAAGGGTAATAACATT 57.130 29.630 0.00 0.00 0.00 2.71
2450 5469 8.474831 GGCAAACAAGAATAAGGGTAATAACAT 58.525 33.333 0.00 0.00 0.00 2.71
2464 5483 3.157087 CCAGTGGTAGGCAAACAAGAAT 58.843 45.455 0.00 0.00 0.00 2.40
2576 5630 6.823689 AGGTTGACGATATGCACTAAGATTTT 59.176 34.615 0.00 0.00 0.00 1.82
2593 5647 4.430137 TTAGTACACTAGCAGGTTGACG 57.570 45.455 0.00 0.00 0.00 4.35
2617 5674 4.161565 ACCAGTAACAAGTCTGACTGAACA 59.838 41.667 11.71 0.00 41.51 3.18


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

AutoCloner maintained by Alex Coulton.