Multiple sequence alignment - TraesCS6D01G114800

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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 TraesCS6D01G114800 chr6D 100.000 5189 0 0 1 5189 81751203 81746015 0.000000e+00 9583
1 TraesCS6D01G114800 chr6D 91.614 1574 90 20 765 2335 81920998 81919464 0.000000e+00 2137
2 TraesCS6D01G114800 chr6D 77.115 3085 655 42 1100 4158 82220411 82217352 0.000000e+00 1738
3 TraesCS6D01G114800 chr6D 76.798 3129 631 69 1101 4188 81673780 81670706 0.000000e+00 1668
4 TraesCS6D01G114800 chr6D 76.531 3102 651 56 1100 4158 82237576 82234509 0.000000e+00 1624
5 TraesCS6D01G114800 chr6D 75.840 3096 677 59 1100 4158 81759627 81756566 0.000000e+00 1507
6 TraesCS6D01G114800 chr6D 78.682 1942 384 22 1100 3024 82964571 82962643 0.000000e+00 1266
7 TraesCS6D01G114800 chr6D 84.105 648 99 4 2329 2974 81919057 81918412 1.590000e-174 623
8 TraesCS6D01G114800 chr6B 94.053 4103 202 20 195 4275 156419269 156415187 0.000000e+00 6187
9 TraesCS6D01G114800 chr6B 77.182 3151 614 75 1101 4205 156375922 156372831 0.000000e+00 1738
10 TraesCS6D01G114800 chr6B 75.921 3094 684 43 1100 4158 156550872 156547805 0.000000e+00 1530
11 TraesCS6D01G114800 chr6B 75.815 3097 679 56 1100 4158 157489222 157486158 0.000000e+00 1506
12 TraesCS6D01G114800 chr6B 75.701 3066 676 57 1129 4158 156528812 156525780 0.000000e+00 1471
13 TraesCS6D01G114800 chr6B 75.535 3082 693 42 1100 4146 156740921 156737866 0.000000e+00 1458
14 TraesCS6D01G114800 chr6B 79.124 1940 371 22 1100 3024 157779776 157777856 0.000000e+00 1308
15 TraesCS6D01G114800 chr6B 82.727 1100 176 10 1100 2188 157911542 157912638 0.000000e+00 966
16 TraesCS6D01G114800 chr6B 87.662 770 50 19 4438 5189 156415185 156414443 0.000000e+00 854
17 TraesCS6D01G114800 chr6B 75.000 1620 355 38 1116 2716 157790310 157788722 0.000000e+00 702
18 TraesCS6D01G114800 chr6B 98.795 166 2 0 4272 4437 468734819 468734654 3.930000e-76 296
19 TraesCS6D01G114800 chr6B 97.076 171 5 0 4274 4444 690750956 690750786 6.570000e-74 289
20 TraesCS6D01G114800 chr6B 93.714 175 11 0 1 175 156475692 156475518 3.980000e-66 263
21 TraesCS6D01G114800 chr6A 93.830 4117 212 21 208 4299 98243279 98239180 0.000000e+00 6157
22 TraesCS6D01G114800 chr6A 76.677 3100 630 70 1129 4188 98064831 98061785 0.000000e+00 1633
23 TraesCS6D01G114800 chr6A 76.044 3089 679 48 1100 4159 98309899 98306843 0.000000e+00 1548
24 TraesCS6D01G114800 chr6A 76.116 3069 661 61 1130 4159 98315853 98312818 0.000000e+00 1541
25 TraesCS6D01G114800 chr6A 79.350 1937 379 16 1100 3024 99786857 99784930 0.000000e+00 1341
26 TraesCS6D01G114800 chr6A 87.657 794 55 18 4417 5189 98239126 98238355 0.000000e+00 883
27 TraesCS6D01G114800 chr6A 91.053 190 13 2 1 187 98244257 98244069 2.400000e-63 254
28 TraesCS6D01G114800 chr5B 98.225 169 3 0 4268 4436 145828350 145828182 3.930000e-76 296
29 TraesCS6D01G114800 chr3A 98.788 165 2 0 4272 4436 731100879 731100715 1.410000e-75 294
30 TraesCS6D01G114800 chrUn 98.780 164 2 0 4274 4437 60492499 60492662 5.080000e-75 292
31 TraesCS6D01G114800 chr4B 96.571 175 4 2 4263 4436 618591771 618591598 6.570000e-74 289
32 TraesCS6D01G114800 chr4B 96.045 177 6 1 4263 4438 448896225 448896049 2.360000e-73 287
33 TraesCS6D01G114800 chr3B 97.076 171 3 2 4266 4436 592595321 592595489 2.360000e-73 287
34 TraesCS6D01G114800 chr3B 96.532 173 5 1 4273 4445 420875673 420875844 8.500000e-73 285


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 TraesCS6D01G114800 chr6D 81746015 81751203 5188 True 9583.000000 9583 100.000000 1 5189 1 chr6D.!!$R2 5188
1 TraesCS6D01G114800 chr6D 82217352 82220411 3059 True 1738.000000 1738 77.115000 1100 4158 1 chr6D.!!$R4 3058
2 TraesCS6D01G114800 chr6D 81670706 81673780 3074 True 1668.000000 1668 76.798000 1101 4188 1 chr6D.!!$R1 3087
3 TraesCS6D01G114800 chr6D 82234509 82237576 3067 True 1624.000000 1624 76.531000 1100 4158 1 chr6D.!!$R5 3058
4 TraesCS6D01G114800 chr6D 81756566 81759627 3061 True 1507.000000 1507 75.840000 1100 4158 1 chr6D.!!$R3 3058
5 TraesCS6D01G114800 chr6D 81918412 81920998 2586 True 1380.000000 2137 87.859500 765 2974 2 chr6D.!!$R7 2209
6 TraesCS6D01G114800 chr6D 82962643 82964571 1928 True 1266.000000 1266 78.682000 1100 3024 1 chr6D.!!$R6 1924
7 TraesCS6D01G114800 chr6B 156414443 156419269 4826 True 3520.500000 6187 90.857500 195 5189 2 chr6B.!!$R11 4994
8 TraesCS6D01G114800 chr6B 156372831 156375922 3091 True 1738.000000 1738 77.182000 1101 4205 1 chr6B.!!$R1 3104
9 TraesCS6D01G114800 chr6B 156547805 156550872 3067 True 1530.000000 1530 75.921000 1100 4158 1 chr6B.!!$R4 3058
10 TraesCS6D01G114800 chr6B 157486158 157489222 3064 True 1506.000000 1506 75.815000 1100 4158 1 chr6B.!!$R6 3058
11 TraesCS6D01G114800 chr6B 156525780 156528812 3032 True 1471.000000 1471 75.701000 1129 4158 1 chr6B.!!$R3 3029
12 TraesCS6D01G114800 chr6B 156737866 156740921 3055 True 1458.000000 1458 75.535000 1100 4146 1 chr6B.!!$R5 3046
13 TraesCS6D01G114800 chr6B 157777856 157779776 1920 True 1308.000000 1308 79.124000 1100 3024 1 chr6B.!!$R7 1924
14 TraesCS6D01G114800 chr6B 157911542 157912638 1096 False 966.000000 966 82.727000 1100 2188 1 chr6B.!!$F1 1088
15 TraesCS6D01G114800 chr6B 157788722 157790310 1588 True 702.000000 702 75.000000 1116 2716 1 chr6B.!!$R8 1600
16 TraesCS6D01G114800 chr6A 98238355 98244257 5902 True 2431.333333 6157 90.846667 1 5189 3 chr6A.!!$R3 5188
17 TraesCS6D01G114800 chr6A 98061785 98064831 3046 True 1633.000000 1633 76.677000 1129 4188 1 chr6A.!!$R1 3059
18 TraesCS6D01G114800 chr6A 98306843 98315853 9010 True 1544.500000 1548 76.080000 1100 4159 2 chr6A.!!$R4 3059
19 TraesCS6D01G114800 chr6A 99784930 99786857 1927 True 1341.000000 1341 79.350000 1100 3024 1 chr6A.!!$R2 1924

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
352 1128 0.032130 CATCTCCATGCATGCCAAGC 59.968 55.000 21.69 0.0 0.0 4.01 F
1057 1856 0.809385 CAAGGAGTGCAGCAATGGAG 59.191 55.000 0.00 0.0 0.0 3.86 F
1078 1877 0.972471 CCCCATGTCTTTCCTTGGCC 60.972 60.000 0.00 0.0 0.0 5.36 F
1535 2341 1.265365 GAGCAACTTGTTCACAGGAGC 59.735 52.381 1.00 0.4 0.0 4.70 F
3063 10275 1.562008 TGTGGTTCAACAGAAGGACCA 59.438 47.619 0.00 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1446 2249 1.285078 TCTTCCATGTCTCCTCCGAGA 59.715 52.381 0.00 0.00 43.08 4.04 R
2936 10148 0.036388 TGGTCCTTCGAGGTCATTGC 60.036 55.000 0.00 0.00 36.53 3.56 R
3063 10275 1.599797 CCGTTTTCTGAAGCCCGGT 60.600 57.895 0.00 0.00 0.00 5.28 R
3451 10672 2.237143 CCTCTGCAGTGAATTCCCTGTA 59.763 50.000 17.65 13.08 0.00 2.74 R
4658 11893 0.038251 GTGTCGCATGGAGTCAGTGA 60.038 55.000 0.00 0.00 0.00 3.41 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 3.498774 ATTGTTCTCTCAGTGCCAAGT 57.501 42.857 0.00 0.00 0.00 3.16
49 50 2.504367 CAAGTTAAGGGACCCACAGTG 58.496 52.381 14.60 1.31 0.00 3.66
51 52 0.109723 GTTAAGGGACCCACAGTGCA 59.890 55.000 14.60 0.00 38.89 4.57
52 53 0.847373 TTAAGGGACCCACAGTGCAA 59.153 50.000 14.60 0.00 38.89 4.08
67 68 6.366877 CCACAGTGCAATTTTCTCTAAAATGG 59.633 38.462 0.00 0.00 43.04 3.16
107 111 6.322491 GGATACAAGATAACAAGGTTGCAAC 58.678 40.000 21.59 21.59 0.00 4.17
128 132 8.097038 TGCAACAAAACTTATAAAATGCCCATA 58.903 29.630 0.00 0.00 0.00 2.74
157 161 8.175069 AGTACATAATGTTGTTTAAGTGATGCG 58.825 33.333 0.00 0.00 0.00 4.73
175 179 1.128692 GCGTCTTAGGTGCACATGAAC 59.871 52.381 20.43 10.53 0.00 3.18
176 180 2.412870 CGTCTTAGGTGCACATGAACA 58.587 47.619 20.43 0.00 0.00 3.18
187 191 6.317140 AGGTGCACATGAACACTGAATAATAG 59.683 38.462 20.43 0.00 36.99 1.73
188 192 6.458751 GGTGCACATGAACACTGAATAATAGG 60.459 42.308 20.43 0.00 36.99 2.57
190 952 6.539826 TGCACATGAACACTGAATAATAGGAG 59.460 38.462 0.00 0.00 0.00 3.69
228 1001 7.552687 GGTATATCACAGAAACTCAAATCACCA 59.447 37.037 0.00 0.00 0.00 4.17
229 1002 9.113838 GTATATCACAGAAACTCAAATCACCAT 57.886 33.333 0.00 0.00 0.00 3.55
230 1003 5.947228 TCACAGAAACTCAAATCACCATC 57.053 39.130 0.00 0.00 0.00 3.51
246 1020 6.012337 TCACCATCTAAATTTCTGCCCATA 57.988 37.500 0.00 0.00 0.00 2.74
264 1038 2.897271 TAACATCACAAGGTGGCCAT 57.103 45.000 9.72 0.00 33.87 4.40
274 1048 3.978193 GTGGCCATGTCCCACCCA 61.978 66.667 9.72 1.18 45.51 4.51
301 1076 1.616628 CTCCCAAGGCCTAGGTGGT 60.617 63.158 18.73 0.00 38.35 4.16
327 1103 1.493772 TTCGTTGCTTAGGTGACGTG 58.506 50.000 0.00 0.00 36.89 4.49
352 1128 0.032130 CATCTCCATGCATGCCAAGC 59.968 55.000 21.69 0.00 0.00 4.01
395 1176 3.990092 TCGACTATGCAAAGTTGACACT 58.010 40.909 0.00 0.00 35.40 3.55
461 1242 8.498054 AGGAACACATTACATGAGTGAATAAG 57.502 34.615 15.36 3.28 34.32 1.73
462 1243 7.066284 AGGAACACATTACATGAGTGAATAAGC 59.934 37.037 15.36 0.00 34.32 3.09
469 1250 9.755804 CATTACATGAGTGAATAAGCTAGAAGA 57.244 33.333 0.00 0.00 0.00 2.87
473 1254 7.276658 ACATGAGTGAATAAGCTAGAAGAAACG 59.723 37.037 0.00 0.00 0.00 3.60
481 1262 7.737525 ATAAGCTAGAAGAAACGAACTAACG 57.262 36.000 0.00 0.00 39.31 3.18
483 1264 5.152804 AGCTAGAAGAAACGAACTAACGAC 58.847 41.667 0.00 0.00 37.03 4.34
487 1276 4.743644 AGAAGAAACGAACTAACGACCAAG 59.256 41.667 0.00 0.00 37.03 3.61
506 1299 5.105513 ACCAAGTAAACACACCAAAAAGAGG 60.106 40.000 0.00 0.00 0.00 3.69
514 1307 3.070015 CACACCAAAAAGAGGCCAAGAAT 59.930 43.478 5.01 0.00 0.00 2.40
516 1309 3.321682 CACCAAAAAGAGGCCAAGAATGA 59.678 43.478 5.01 0.00 0.00 2.57
551 1345 1.709147 GCCACCTGCTGCGATTAGTG 61.709 60.000 0.00 0.00 36.87 2.74
618 1412 5.840693 TGATGGGGCATATCATATCGTATCT 59.159 40.000 0.00 0.00 30.03 1.98
737 1533 2.155279 GCAAGAGGGTCTGGTCTTTTC 58.845 52.381 0.00 0.00 30.31 2.29
918 1714 2.325661 TGTGAGAGTCCAATCCTCCA 57.674 50.000 0.00 0.00 0.00 3.86
1057 1856 0.809385 CAAGGAGTGCAGCAATGGAG 59.191 55.000 0.00 0.00 0.00 3.86
1078 1877 0.972471 CCCCATGTCTTTCCTTGGCC 60.972 60.000 0.00 0.00 0.00 5.36
1093 1892 2.434884 GCCGTGCTGCTGCTCTTA 60.435 61.111 17.00 0.00 40.48 2.10
1123 1922 1.913722 CTGCTCTCCATGGCCTCTT 59.086 57.895 6.96 0.00 0.00 2.85
1185 1985 3.650950 TTCCTGGCTGGGCTGTCC 61.651 66.667 10.79 0.00 36.20 4.02
1383 2186 1.367471 CCACAACTCGCTGTCTGGA 59.633 57.895 0.00 0.00 31.40 3.86
1446 2249 2.146342 CTTGATGTCAGCTTCAACCGT 58.854 47.619 0.00 0.00 35.69 4.83
1535 2341 1.265365 GAGCAACTTGTTCACAGGAGC 59.735 52.381 1.00 0.40 0.00 4.70
2316 9106 2.541466 AGGAACCTCACTTCCCTACTG 58.459 52.381 0.00 0.00 40.78 2.74
2403 9606 6.601217 AGAATCTTCAGGTTCTTTCAATAGCC 59.399 38.462 0.00 0.00 30.84 3.93
2664 9870 2.954989 TGAACTGCCTGTTTATGCAACA 59.045 40.909 0.00 0.00 43.55 3.33
2694 9906 3.746492 GTCAATATCGGATAACCAGTGCC 59.254 47.826 1.16 0.00 35.59 5.01
2936 10148 5.048083 TCCTTTCAGAATTCAACATTTCCCG 60.048 40.000 8.44 0.00 0.00 5.14
3003 10215 9.507329 AGTACATTCTCAAATTCTAGCTTTGAA 57.493 29.630 16.30 0.00 40.89 2.69
3018 10230 5.393866 AGCTTTGAAGGGAATCCAAAGTTA 58.606 37.500 0.09 0.00 44.99 2.24
3024 10236 3.981212 AGGGAATCCAAAGTTATGTGGG 58.019 45.455 0.09 0.00 35.46 4.61
3063 10275 1.562008 TGTGGTTCAACAGAAGGACCA 59.438 47.619 0.00 0.00 0.00 4.02
3081 10293 1.599797 ACCGGGCTTCAGAAAACGG 60.600 57.895 6.32 14.88 46.16 4.44
3135 10347 2.025793 TGGTGTGTTCTTTGGAGGAACA 60.026 45.455 5.35 5.35 46.95 3.18
3169 10381 3.003173 TCGGGGGTCTCCTTGCAG 61.003 66.667 0.00 0.00 35.33 4.41
3252 10467 4.026475 GCTATTTCAATCGAGACTGGTTCG 60.026 45.833 0.00 0.00 39.33 3.95
3451 10672 6.037940 GCTTAATGATGACATGTGTCTGATGT 59.962 38.462 1.15 0.00 44.99 3.06
3526 10747 4.035112 CCTTGTACCACTCTGGGGTTATA 58.965 47.826 0.00 0.00 43.37 0.98
3561 10782 6.940739 AGATTCAAGGTTCCTCATATATCCG 58.059 40.000 0.00 0.00 0.00 4.18
3711 10932 2.038952 AGTCTGCAAGCCTCACATTGTA 59.961 45.455 0.00 0.00 0.00 2.41
4018 11242 2.705658 TCAGAAGGGAAGCAACTTGAGA 59.294 45.455 0.00 0.00 0.00 3.27
4163 11387 6.070767 TCCTTCCTTGAAAGTATAGACACCAG 60.071 42.308 0.00 0.00 0.00 4.00
4165 11389 6.928348 TCCTTGAAAGTATAGACACCAGAA 57.072 37.500 0.00 0.00 0.00 3.02
4219 11443 7.559590 AAGTGGTTAGACATGATTATCTTGC 57.440 36.000 0.00 2.36 0.00 4.01
4256 11481 4.349048 TGGCAGATGTAGCTTCCATCTAAT 59.651 41.667 21.49 4.96 45.52 1.73
4265 11490 8.762481 TGTAGCTTCCATCTAATTAGTACTGA 57.238 34.615 12.19 0.00 0.00 3.41
4269 11494 9.594936 AGCTTCCATCTAATTAGTACTGACTAT 57.405 33.333 12.19 0.00 37.99 2.12
4270 11495 9.849166 GCTTCCATCTAATTAGTACTGACTATC 57.151 37.037 12.19 0.00 37.99 2.08
4285 11512 5.073417 ACTGACTATCTATACTCCCTCCGTT 59.927 44.000 0.00 0.00 0.00 4.44
4288 11515 4.602732 ACTATCTATACTCCCTCCGTTCCT 59.397 45.833 0.00 0.00 0.00 3.36
4294 11521 7.706674 TCTATACTCCCTCCGTTCCTAAATAT 58.293 38.462 0.00 0.00 0.00 1.28
4295 11522 8.839745 TCTATACTCCCTCCGTTCCTAAATATA 58.160 37.037 0.00 0.00 0.00 0.86
4296 11523 9.471702 CTATACTCCCTCCGTTCCTAAATATAA 57.528 37.037 0.00 0.00 0.00 0.98
4302 11529 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
4303 11530 7.441458 CCCTCCGTTCCTAAATATAAGTCTTTG 59.559 40.741 0.00 0.00 0.00 2.77
4304 11531 7.985752 CCTCCGTTCCTAAATATAAGTCTTTGT 59.014 37.037 0.00 0.00 0.00 2.83
4320 11547 7.962995 AGTCTTTGTAGAGATTCCACTATGA 57.037 36.000 0.00 0.00 0.00 2.15
4325 11552 9.522804 CTTTGTAGAGATTCCACTATGAACTAC 57.477 37.037 0.00 0.00 0.00 2.73
4327 11554 8.768501 TGTAGAGATTCCACTATGAACTACAT 57.231 34.615 0.00 0.00 42.39 2.29
4328 11555 9.862149 TGTAGAGATTCCACTATGAACTACATA 57.138 33.333 0.00 0.00 40.07 2.29
4330 11557 7.877003 AGAGATTCCACTATGAACTACATACG 58.123 38.462 0.00 0.00 40.07 3.06
4332 11559 6.776116 AGATTCCACTATGAACTACATACGGA 59.224 38.462 0.00 0.00 40.07 4.69
4333 11560 6.971726 TTCCACTATGAACTACATACGGAT 57.028 37.500 0.00 0.00 37.58 4.18
4334 11561 6.327279 TCCACTATGAACTACATACGGATG 57.673 41.667 5.94 5.94 40.07 3.51
4337 11564 7.668469 TCCACTATGAACTACATACGGATGTAT 59.332 37.037 20.64 7.28 45.42 2.29
4338 11565 8.953313 CCACTATGAACTACATACGGATGTATA 58.047 37.037 20.64 10.04 45.42 1.47
4347 11574 9.355916 ACTACATACGGATGTATATAGATGCAT 57.644 33.333 20.64 0.00 45.42 3.96
4350 11577 9.890629 ACATACGGATGTATATAGATGCATTTT 57.109 29.630 12.79 0.00 44.77 1.82
4354 11581 9.944376 ACGGATGTATATAGATGCATTTTAAGT 57.056 29.630 11.19 0.00 38.38 2.24
4363 11590 6.839124 AGATGCATTTTAAGTGTGGATTCA 57.161 33.333 0.00 0.00 0.00 2.57
4364 11591 7.414222 AGATGCATTTTAAGTGTGGATTCAT 57.586 32.000 0.00 0.00 0.00 2.57
4365 11592 7.844009 AGATGCATTTTAAGTGTGGATTCATT 58.156 30.769 0.00 0.00 0.00 2.57
4366 11593 7.977853 AGATGCATTTTAAGTGTGGATTCATTC 59.022 33.333 0.00 0.00 0.00 2.67
4367 11594 6.990798 TGCATTTTAAGTGTGGATTCATTCA 58.009 32.000 0.00 0.00 0.00 2.57
4368 11595 7.613585 TGCATTTTAAGTGTGGATTCATTCAT 58.386 30.769 0.00 0.00 0.00 2.57
4369 11596 8.095792 TGCATTTTAAGTGTGGATTCATTCATT 58.904 29.630 0.00 0.00 0.00 2.57
4370 11597 8.938906 GCATTTTAAGTGTGGATTCATTCATTT 58.061 29.630 0.00 0.00 0.00 2.32
4373 11600 7.887996 TTAAGTGTGGATTCATTCATTTTGC 57.112 32.000 0.00 0.00 0.00 3.68
4374 11601 5.733620 AGTGTGGATTCATTCATTTTGCT 57.266 34.783 0.00 0.00 0.00 3.91
4375 11602 5.717119 AGTGTGGATTCATTCATTTTGCTC 58.283 37.500 0.00 0.00 0.00 4.26
4376 11603 4.866486 GTGTGGATTCATTCATTTTGCTCC 59.134 41.667 0.00 0.00 0.00 4.70
4377 11604 4.107622 GTGGATTCATTCATTTTGCTCCG 58.892 43.478 0.00 0.00 0.00 4.63
4378 11605 3.763360 TGGATTCATTCATTTTGCTCCGT 59.237 39.130 0.00 0.00 0.00 4.69
4379 11606 4.946772 TGGATTCATTCATTTTGCTCCGTA 59.053 37.500 0.00 0.00 0.00 4.02
4380 11607 5.593909 TGGATTCATTCATTTTGCTCCGTAT 59.406 36.000 0.00 0.00 0.00 3.06
4381 11608 5.916883 GGATTCATTCATTTTGCTCCGTATG 59.083 40.000 0.00 0.00 0.00 2.39
4382 11609 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
4383 11610 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
4384 11611 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
4385 11612 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
4386 11613 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
4387 11614 4.439057 TCATTTTGCTCCGTATGTAGTCC 58.561 43.478 0.00 0.00 0.00 3.85
4388 11615 3.965379 TTTTGCTCCGTATGTAGTCCA 57.035 42.857 0.00 0.00 0.00 4.02
4389 11616 2.953466 TTGCTCCGTATGTAGTCCAC 57.047 50.000 0.00 0.00 0.00 4.02
4390 11617 1.108776 TGCTCCGTATGTAGTCCACC 58.891 55.000 0.00 0.00 0.00 4.61
4391 11618 1.341679 TGCTCCGTATGTAGTCCACCT 60.342 52.381 0.00 0.00 0.00 4.00
4392 11619 2.092267 TGCTCCGTATGTAGTCCACCTA 60.092 50.000 0.00 0.00 0.00 3.08
4393 11620 2.553172 GCTCCGTATGTAGTCCACCTAG 59.447 54.545 0.00 0.00 0.00 3.02
4394 11621 3.818180 CTCCGTATGTAGTCCACCTAGT 58.182 50.000 0.00 0.00 0.00 2.57
4395 11622 3.548770 TCCGTATGTAGTCCACCTAGTG 58.451 50.000 0.00 0.00 0.00 2.74
4396 11623 3.200605 TCCGTATGTAGTCCACCTAGTGA 59.799 47.826 0.00 0.00 35.23 3.41
4397 11624 3.949754 CCGTATGTAGTCCACCTAGTGAA 59.050 47.826 0.00 0.00 35.23 3.18
4398 11625 4.400251 CCGTATGTAGTCCACCTAGTGAAA 59.600 45.833 0.00 0.00 35.23 2.69
4399 11626 5.068723 CCGTATGTAGTCCACCTAGTGAAAT 59.931 44.000 0.00 0.00 35.23 2.17
4400 11627 6.207213 CGTATGTAGTCCACCTAGTGAAATC 58.793 44.000 0.00 0.00 35.23 2.17
4401 11628 6.039493 CGTATGTAGTCCACCTAGTGAAATCT 59.961 42.308 0.00 0.00 35.23 2.40
4402 11629 5.916661 TGTAGTCCACCTAGTGAAATCTC 57.083 43.478 0.00 0.00 35.23 2.75
4403 11630 5.580998 TGTAGTCCACCTAGTGAAATCTCT 58.419 41.667 0.00 0.00 35.23 3.10
4404 11631 6.728411 TGTAGTCCACCTAGTGAAATCTCTA 58.272 40.000 0.00 0.00 35.23 2.43
4405 11632 6.602406 TGTAGTCCACCTAGTGAAATCTCTAC 59.398 42.308 0.00 0.00 35.23 2.59
4406 11633 5.580998 AGTCCACCTAGTGAAATCTCTACA 58.419 41.667 0.00 0.00 35.23 2.74
4407 11634 6.017192 AGTCCACCTAGTGAAATCTCTACAA 58.983 40.000 0.00 0.00 35.23 2.41
4408 11635 6.497259 AGTCCACCTAGTGAAATCTCTACAAA 59.503 38.462 0.00 0.00 35.23 2.83
4409 11636 6.814146 GTCCACCTAGTGAAATCTCTACAAAG 59.186 42.308 0.00 0.00 35.23 2.77
4410 11637 6.724441 TCCACCTAGTGAAATCTCTACAAAGA 59.276 38.462 0.00 0.00 35.23 2.52
4411 11638 6.814146 CCACCTAGTGAAATCTCTACAAAGAC 59.186 42.308 0.00 0.00 35.23 3.01
4412 11639 7.310113 CCACCTAGTGAAATCTCTACAAAGACT 60.310 40.741 0.00 0.00 35.23 3.24
4413 11640 8.091449 CACCTAGTGAAATCTCTACAAAGACTT 58.909 37.037 0.00 0.00 35.23 3.01
4414 11641 9.310449 ACCTAGTGAAATCTCTACAAAGACTTA 57.690 33.333 0.00 0.00 0.00 2.24
4415 11642 9.575783 CCTAGTGAAATCTCTACAAAGACTTAC 57.424 37.037 0.00 0.00 0.00 2.34
4431 11658 4.161754 AGACTTACATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
4432 11659 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
4433 11660 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
4434 11661 2.547990 ACATTTAGGAACGGAGGGAGT 58.452 47.619 0.00 0.00 0.00 3.85
4436 11663 3.705072 ACATTTAGGAACGGAGGGAGTAG 59.295 47.826 0.00 0.00 0.00 2.57
4505 11732 9.973661 TCATGTCCTTCCTTTTCTCAAATTATA 57.026 29.630 0.00 0.00 0.00 0.98
4535 11762 8.301252 ACTCCATGGTTAAACAAGTTTAAAGT 57.699 30.769 16.99 13.23 43.89 2.66
4536 11763 8.755028 ACTCCATGGTTAAACAAGTTTAAAGTT 58.245 29.630 16.99 2.28 43.89 2.66
4579 11806 2.991250 TCCAGCATGCTCCTTAAGAAC 58.009 47.619 19.68 0.00 31.97 3.01
4658 11893 6.398095 GCAAAATGCCCTTTTACAGAAGTAT 58.602 36.000 0.00 0.00 37.42 2.12
4668 11903 6.814146 CCTTTTACAGAAGTATCACTGACTCC 59.186 42.308 0.00 0.00 37.54 3.85
4671 11906 5.336150 ACAGAAGTATCACTGACTCCATG 57.664 43.478 0.00 0.00 37.54 3.66
4695 11931 4.745125 CGACACAAGGCGAGAATATACATT 59.255 41.667 0.00 0.00 0.00 2.71
4707 11943 5.676552 AGAATATACATTAACCACACCGCA 58.323 37.500 0.00 0.00 0.00 5.69
4731 11967 1.026182 AAGCTTCGCATCGGCAATGA 61.026 50.000 0.00 0.00 41.24 2.57
4733 11969 1.010350 CTTCGCATCGGCAATGAGC 60.010 57.895 2.71 0.00 41.24 4.26
4788 12029 9.399403 GAAGCACTTAAAAGGAAGATAAAACTG 57.601 33.333 0.00 0.00 0.00 3.16
4841 12086 5.517655 CCCCAAATGTTAGGGTTCCTAGAAA 60.518 44.000 0.00 0.00 43.89 2.52
4859 12104 5.562298 AGAAAGCCTAGGTCTGTAAAACA 57.438 39.130 11.31 0.00 0.00 2.83
4871 12116 5.393962 GTCTGTAAAACATCAACATGAGGC 58.606 41.667 0.00 0.00 30.14 4.70
4872 12117 4.458989 TCTGTAAAACATCAACATGAGGCC 59.541 41.667 0.00 0.00 30.14 5.19
4873 12118 4.148079 TGTAAAACATCAACATGAGGCCA 58.852 39.130 5.01 0.00 30.14 5.36
4907 12152 2.224079 CCATTCTACGGCATTCGGATTG 59.776 50.000 0.00 0.00 44.45 2.67
4908 12153 2.971660 TTCTACGGCATTCGGATTGA 57.028 45.000 4.17 0.00 44.45 2.57
4909 12154 3.469008 TTCTACGGCATTCGGATTGAT 57.531 42.857 4.17 0.00 44.45 2.57
4910 12155 3.469008 TCTACGGCATTCGGATTGATT 57.531 42.857 4.17 0.00 44.45 2.57
4923 12168 7.452880 TTCGGATTGATTTCTGAATTGAAGT 57.547 32.000 0.00 0.00 36.35 3.01
4924 12169 8.560355 TTCGGATTGATTTCTGAATTGAAGTA 57.440 30.769 0.00 0.00 36.35 2.24
4977 12222 5.241662 GTCTACAAATTCCAGAGCTCAGTT 58.758 41.667 17.77 0.00 0.00 3.16
4982 12227 1.140312 TTCCAGAGCTCAGTTTGGGT 58.860 50.000 17.77 0.00 0.00 4.51
4984 12229 0.689623 CCAGAGCTCAGTTTGGGTCT 59.310 55.000 17.77 0.00 40.33 3.85
4992 12237 3.878778 CTCAGTTTGGGTCTATCCTTGG 58.121 50.000 0.00 0.00 36.25 3.61
5019 12266 4.214986 TGGGAAATCTGCGATGAGTAAA 57.785 40.909 0.00 0.00 0.00 2.01
5020 12267 4.584874 TGGGAAATCTGCGATGAGTAAAA 58.415 39.130 0.00 0.00 0.00 1.52
5024 12271 6.425504 GGAAATCTGCGATGAGTAAAATCAG 58.574 40.000 0.00 0.00 31.44 2.90
5047 12294 2.974698 GCAGCATCCCGATTCCCG 60.975 66.667 0.00 0.00 38.18 5.14
5049 12296 1.372683 CAGCATCCCGATTCCCGAT 59.627 57.895 0.00 0.00 41.76 4.18
5050 12297 0.250467 CAGCATCCCGATTCCCGATT 60.250 55.000 0.00 0.00 41.76 3.34
5052 12299 0.955919 GCATCCCGATTCCCGATTCC 60.956 60.000 0.00 0.00 41.76 3.01
5054 12301 1.489560 ATCCCGATTCCCGATTCCCC 61.490 60.000 0.00 0.00 41.76 4.81
5057 12304 0.818040 CCGATTCCCGATTCCCCAAC 60.818 60.000 0.00 0.00 41.76 3.77
5058 12305 0.818040 CGATTCCCGATTCCCCAACC 60.818 60.000 0.00 0.00 41.76 3.77
5059 12306 0.257616 GATTCCCGATTCCCCAACCA 59.742 55.000 0.00 0.00 0.00 3.67
5061 12308 2.437716 CCCGATTCCCCAACCACG 60.438 66.667 0.00 0.00 0.00 4.94
5062 12309 2.666207 CCGATTCCCCAACCACGA 59.334 61.111 0.00 0.00 0.00 4.35
5063 12310 1.223487 CCGATTCCCCAACCACGAT 59.777 57.895 0.00 0.00 0.00 3.73
5064 12311 0.393808 CCGATTCCCCAACCACGATT 60.394 55.000 0.00 0.00 0.00 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 3.281727 AACTTGGCACTGAGAGAACAA 57.718 42.857 0.00 0.00 0.00 2.83
20 21 2.038557 GTCCCTTAACTTGGCACTGAGA 59.961 50.000 0.00 0.00 0.00 3.27
33 34 0.847373 TTGCACTGTGGGTCCCTTAA 59.153 50.000 10.00 0.00 0.00 1.85
49 50 6.875726 AGCCTTTCCATTTTAGAGAAAATTGC 59.124 34.615 0.00 0.00 41.53 3.56
51 52 8.650490 TCAAGCCTTTCCATTTTAGAGAAAATT 58.350 29.630 0.00 0.00 41.53 1.82
52 53 8.193953 TCAAGCCTTTCCATTTTAGAGAAAAT 57.806 30.769 0.00 0.00 44.44 1.82
67 68 5.036117 TGTATCCACCTATCAAGCCTTTC 57.964 43.478 0.00 0.00 0.00 2.62
90 94 6.220726 AGTTTTGTTGCAACCTTGTTATCT 57.779 33.333 26.14 10.77 0.00 1.98
102 106 6.291377 TGGGCATTTTATAAGTTTTGTTGCA 58.709 32.000 0.00 0.00 0.00 4.08
157 161 3.187227 CAGTGTTCATGTGCACCTAAGAC 59.813 47.826 15.69 13.66 36.35 3.01
220 993 5.721000 TGGGCAGAAATTTAGATGGTGATTT 59.279 36.000 0.00 0.00 0.00 2.17
228 1001 7.560991 TGTGATGTTATGGGCAGAAATTTAGAT 59.439 33.333 0.00 0.00 0.00 1.98
229 1002 6.889177 TGTGATGTTATGGGCAGAAATTTAGA 59.111 34.615 0.00 0.00 0.00 2.10
230 1003 7.099266 TGTGATGTTATGGGCAGAAATTTAG 57.901 36.000 0.00 0.00 0.00 1.85
246 1020 1.259609 CATGGCCACCTTGTGATGTT 58.740 50.000 8.16 0.00 35.23 2.71
271 1045 2.521958 CTTGGGAGTGCCTACGTGGG 62.522 65.000 14.62 14.62 36.00 4.61
272 1046 1.079127 CTTGGGAGTGCCTACGTGG 60.079 63.158 1.06 0.00 39.35 4.94
273 1047 1.079127 CCTTGGGAGTGCCTACGTG 60.079 63.158 1.06 0.00 0.00 4.49
274 1048 2.955881 GCCTTGGGAGTGCCTACGT 61.956 63.158 1.06 0.00 0.00 3.57
352 1128 4.872664 AGTCTTCAGTTTCAGAACGTAGG 58.127 43.478 0.00 0.00 40.75 3.18
395 1176 1.827789 GGTGCTGGTTGGCTGTCAA 60.828 57.895 0.00 0.00 0.00 3.18
461 1242 4.323070 GGTCGTTAGTTCGTTTCTTCTAGC 59.677 45.833 0.00 0.00 0.00 3.42
462 1243 5.455392 TGGTCGTTAGTTCGTTTCTTCTAG 58.545 41.667 0.00 0.00 0.00 2.43
469 1250 5.580297 TGTTTACTTGGTCGTTAGTTCGTTT 59.420 36.000 0.00 0.00 0.00 3.60
473 1254 5.277011 GGTGTGTTTACTTGGTCGTTAGTTC 60.277 44.000 0.00 0.00 0.00 3.01
481 1262 5.956642 TCTTTTTGGTGTGTTTACTTGGTC 58.043 37.500 0.00 0.00 0.00 4.02
483 1264 5.348164 CCTCTTTTTGGTGTGTTTACTTGG 58.652 41.667 0.00 0.00 0.00 3.61
487 1276 3.131400 TGGCCTCTTTTTGGTGTGTTTAC 59.869 43.478 3.32 0.00 0.00 2.01
506 1299 2.030805 GTCAGTGGTGTTCATTCTTGGC 60.031 50.000 0.00 0.00 0.00 4.52
594 1388 5.840693 AGATACGATATGATATGCCCCATCA 59.159 40.000 0.00 0.00 36.86 3.07
618 1412 8.122330 GCATTTGTTTAACGACATGATCTGATA 58.878 33.333 0.00 0.00 0.00 2.15
716 1511 0.035458 AAAGACCAGACCCTCTTGCG 59.965 55.000 0.00 0.00 0.00 4.85
737 1533 6.626623 GCCCTGCAATAAGCCAATAATCTATG 60.627 42.308 0.00 0.00 44.83 2.23
856 1652 2.597903 GGTCAAGGATCAGGGGCC 59.402 66.667 0.00 0.00 0.00 5.80
918 1714 1.022903 AGGGTGAGGAGGAAGGAGAT 58.977 55.000 0.00 0.00 0.00 2.75
1057 1856 1.839424 CCAAGGAAAGACATGGGGAC 58.161 55.000 0.00 0.00 0.00 4.46
1066 1865 1.600636 CAGCACGGCCAAGGAAAGA 60.601 57.895 2.24 0.00 0.00 2.52
1078 1877 0.742281 ACCATAAGAGCAGCAGCACG 60.742 55.000 3.17 0.00 45.49 5.34
1093 1892 2.360852 GAGCAGCAGCACCACCAT 60.361 61.111 3.17 0.00 45.49 3.55
1123 1922 2.416747 CTCCGTGCAAGAACTGATTGA 58.583 47.619 0.00 0.00 0.00 2.57
1313 2116 3.129300 CCAGCGAGGGCGATAAGA 58.871 61.111 0.00 0.00 46.35 2.10
1446 2249 1.285078 TCTTCCATGTCTCCTCCGAGA 59.715 52.381 0.00 0.00 43.08 4.04
1535 2341 1.511318 TTGCCACGTGGATGGAAACG 61.511 55.000 38.30 8.59 43.02 3.60
1909 8697 2.573462 TCTTGAGCTGGCCTATTGAGTT 59.427 45.455 3.32 0.00 0.00 3.01
2106 8896 3.752665 TGGAATTGTGCCGGTAAAGTTA 58.247 40.909 1.90 0.00 0.00 2.24
2403 9606 5.772825 TTTTTCCAGACAATGAGGAACTG 57.227 39.130 6.19 0.00 41.55 3.16
2603 9806 2.874701 CGGGGTGCAATCTTATCTGAAG 59.125 50.000 0.00 0.00 0.00 3.02
2664 9870 5.227908 GTTATCCGATATTGACGTGATGGT 58.772 41.667 0.00 0.00 0.00 3.55
2694 9906 5.129485 TCCTAGATTCAGCACTTTAGGGAAG 59.871 44.000 0.00 0.00 41.32 3.46
2835 10047 1.526575 CCAGCACCCGCAGATTTGTT 61.527 55.000 0.00 0.00 42.27 2.83
2936 10148 0.036388 TGGTCCTTCGAGGTCATTGC 60.036 55.000 0.00 0.00 36.53 3.56
3003 10215 3.881713 GCCCACATAACTTTGGATTCCCT 60.882 47.826 0.00 0.00 34.46 4.20
3018 10230 2.877300 GCGATGGAGAATATGCCCACAT 60.877 50.000 0.00 0.00 40.49 3.21
3024 10236 2.874701 ACAACTGCGATGGAGAATATGC 59.125 45.455 0.00 0.00 0.00 3.14
3063 10275 1.599797 CCGTTTTCTGAAGCCCGGT 60.600 57.895 0.00 0.00 0.00 5.28
3081 10293 4.152938 GCAAAAATGGATTTCTTGCTCCAC 59.847 41.667 16.40 0.00 44.06 4.02
3135 10347 2.749621 CCCGAGCACAAAAAGAATAGCT 59.250 45.455 0.00 0.00 34.61 3.32
3169 10381 4.439305 TGAAACTGGTATGCTTGAATGC 57.561 40.909 0.00 0.00 0.00 3.56
3252 10467 6.203723 GTGGCACTATCACTAATGATTCTTCC 59.796 42.308 11.13 0.00 43.40 3.46
3451 10672 2.237143 CCTCTGCAGTGAATTCCCTGTA 59.763 50.000 17.65 13.08 0.00 2.74
3526 10747 3.118531 ACCTTGAATCTCCCTGTATGCT 58.881 45.455 0.00 0.00 0.00 3.79
3561 10782 1.133976 AGGCTGCCATTCTCCATGTAC 60.134 52.381 22.65 0.00 0.00 2.90
4018 11242 2.320781 CCGAAGTGTAGGATCCAGGAT 58.679 52.381 15.82 0.00 0.00 3.24
4240 11465 8.630917 GTCAGTACTAATTAGATGGAAGCTACA 58.369 37.037 19.38 0.00 32.56 2.74
4256 11481 8.824783 GGAGGGAGTATAGATAGTCAGTACTAA 58.175 40.741 0.00 0.00 41.49 2.24
4265 11490 4.602732 AGGAACGGAGGGAGTATAGATAGT 59.397 45.833 0.00 0.00 0.00 2.12
4269 11494 5.393068 TTTAGGAACGGAGGGAGTATAGA 57.607 43.478 0.00 0.00 0.00 1.98
4270 11495 7.957992 ATATTTAGGAACGGAGGGAGTATAG 57.042 40.000 0.00 0.00 0.00 1.31
4294 11521 9.475620 TCATAGTGGAATCTCTACAAAGACTTA 57.524 33.333 0.00 0.00 29.47 2.24
4295 11522 8.367660 TCATAGTGGAATCTCTACAAAGACTT 57.632 34.615 0.00 0.00 29.47 3.01
4296 11523 7.962995 TCATAGTGGAATCTCTACAAAGACT 57.037 36.000 0.00 0.00 29.47 3.24
4302 11529 8.768501 ATGTAGTTCATAGTGGAATCTCTACA 57.231 34.615 0.00 0.00 37.82 2.74
4304 11531 9.000486 CGTATGTAGTTCATAGTGGAATCTCTA 58.000 37.037 0.00 0.00 39.36 2.43
4305 11532 7.040340 CCGTATGTAGTTCATAGTGGAATCTCT 60.040 40.741 3.20 0.00 39.36 3.10
4306 11533 7.040617 TCCGTATGTAGTTCATAGTGGAATCTC 60.041 40.741 7.73 0.00 39.60 2.75
4307 11534 6.776116 TCCGTATGTAGTTCATAGTGGAATCT 59.224 38.462 7.73 0.00 39.60 2.40
4308 11535 6.978338 TCCGTATGTAGTTCATAGTGGAATC 58.022 40.000 7.73 0.00 39.60 2.52
4309 11536 6.971726 TCCGTATGTAGTTCATAGTGGAAT 57.028 37.500 7.73 0.00 39.60 3.01
4311 11538 5.831525 ACATCCGTATGTAGTTCATAGTGGA 59.168 40.000 11.01 11.01 44.66 4.02
4328 11555 9.944376 ACTTAAAATGCATCTATATACATCCGT 57.056 29.630 0.00 0.00 0.00 4.69
4337 11564 9.625747 TGAATCCACACTTAAAATGCATCTATA 57.374 29.630 0.00 0.00 0.00 1.31
4338 11565 8.523915 TGAATCCACACTTAAAATGCATCTAT 57.476 30.769 0.00 0.00 0.00 1.98
4340 11567 6.839124 TGAATCCACACTTAAAATGCATCT 57.161 33.333 0.00 0.00 0.00 2.90
4343 11570 6.990798 TGAATGAATCCACACTTAAAATGCA 58.009 32.000 0.00 0.00 0.00 3.96
4344 11571 8.483307 AATGAATGAATCCACACTTAAAATGC 57.517 30.769 0.00 0.00 0.00 3.56
4347 11574 8.772705 GCAAAATGAATGAATCCACACTTAAAA 58.227 29.630 0.00 0.00 0.00 1.52
4350 11577 7.230849 AGCAAAATGAATGAATCCACACTTA 57.769 32.000 0.00 0.00 0.00 2.24
4351 11578 6.105397 AGCAAAATGAATGAATCCACACTT 57.895 33.333 0.00 0.00 0.00 3.16
4352 11579 5.337009 GGAGCAAAATGAATGAATCCACACT 60.337 40.000 0.00 0.00 0.00 3.55
4353 11580 4.866486 GGAGCAAAATGAATGAATCCACAC 59.134 41.667 0.00 0.00 0.00 3.82
4354 11581 4.380761 CGGAGCAAAATGAATGAATCCACA 60.381 41.667 0.00 0.00 0.00 4.17
4355 11582 4.107622 CGGAGCAAAATGAATGAATCCAC 58.892 43.478 0.00 0.00 0.00 4.02
4356 11583 3.763360 ACGGAGCAAAATGAATGAATCCA 59.237 39.130 0.00 0.00 0.00 3.41
4357 11584 4.376340 ACGGAGCAAAATGAATGAATCC 57.624 40.909 0.00 0.00 0.00 3.01
4358 11585 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
4359 11586 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
4360 11587 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
4361 11588 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
4362 11589 6.363577 ACTACATACGGAGCAAAATGAATG 57.636 37.500 0.00 0.00 0.00 2.67
4363 11590 5.527582 GGACTACATACGGAGCAAAATGAAT 59.472 40.000 0.00 0.00 0.00 2.57
4364 11591 4.873827 GGACTACATACGGAGCAAAATGAA 59.126 41.667 0.00 0.00 0.00 2.57
4365 11592 4.081365 TGGACTACATACGGAGCAAAATGA 60.081 41.667 0.00 0.00 0.00 2.57
4366 11593 4.034048 GTGGACTACATACGGAGCAAAATG 59.966 45.833 0.00 0.00 0.00 2.32
4367 11594 4.189231 GTGGACTACATACGGAGCAAAAT 58.811 43.478 0.00 0.00 0.00 1.82
4368 11595 3.592059 GTGGACTACATACGGAGCAAAA 58.408 45.455 0.00 0.00 0.00 2.44
4369 11596 2.093869 GGTGGACTACATACGGAGCAAA 60.094 50.000 0.00 0.00 0.00 3.68
4370 11597 1.479323 GGTGGACTACATACGGAGCAA 59.521 52.381 0.00 0.00 0.00 3.91
4371 11598 1.108776 GGTGGACTACATACGGAGCA 58.891 55.000 0.00 0.00 0.00 4.26
4372 11599 1.400737 AGGTGGACTACATACGGAGC 58.599 55.000 0.00 0.00 0.00 4.70
4373 11600 3.564644 CACTAGGTGGACTACATACGGAG 59.435 52.174 0.00 0.00 0.00 4.63
4374 11601 3.200605 TCACTAGGTGGACTACATACGGA 59.799 47.826 0.00 0.00 33.87 4.69
4375 11602 3.548770 TCACTAGGTGGACTACATACGG 58.451 50.000 0.00 0.00 33.87 4.02
4376 11603 5.571784 TTTCACTAGGTGGACTACATACG 57.428 43.478 0.00 0.00 33.87 3.06
4377 11604 7.285858 AGAGATTTCACTAGGTGGACTACATAC 59.714 40.741 0.00 0.00 33.87 2.39
4378 11605 7.355101 AGAGATTTCACTAGGTGGACTACATA 58.645 38.462 0.00 0.00 33.87 2.29
4379 11606 6.198639 AGAGATTTCACTAGGTGGACTACAT 58.801 40.000 0.00 0.00 33.87 2.29
4380 11607 5.580998 AGAGATTTCACTAGGTGGACTACA 58.419 41.667 0.00 0.00 33.87 2.74
4381 11608 6.602406 TGTAGAGATTTCACTAGGTGGACTAC 59.398 42.308 0.00 0.00 33.87 2.73
4382 11609 6.728411 TGTAGAGATTTCACTAGGTGGACTA 58.272 40.000 0.00 0.00 33.87 2.59
4383 11610 5.580998 TGTAGAGATTTCACTAGGTGGACT 58.419 41.667 0.00 0.00 33.87 3.85
4384 11611 5.916661 TGTAGAGATTTCACTAGGTGGAC 57.083 43.478 0.00 0.00 33.87 4.02
4385 11612 6.724441 TCTTTGTAGAGATTTCACTAGGTGGA 59.276 38.462 0.00 0.00 33.87 4.02
4386 11613 6.814146 GTCTTTGTAGAGATTTCACTAGGTGG 59.186 42.308 0.00 0.00 33.87 4.61
4387 11614 7.607250 AGTCTTTGTAGAGATTTCACTAGGTG 58.393 38.462 0.00 0.00 34.45 4.00
4388 11615 7.784470 AGTCTTTGTAGAGATTTCACTAGGT 57.216 36.000 0.00 0.00 0.00 3.08
4389 11616 9.575783 GTAAGTCTTTGTAGAGATTTCACTAGG 57.424 37.037 0.00 0.00 29.76 3.02
4399 11626 9.924650 GTTCCTAAATGTAAGTCTTTGTAGAGA 57.075 33.333 0.00 0.00 0.00 3.10
4400 11627 8.861101 CGTTCCTAAATGTAAGTCTTTGTAGAG 58.139 37.037 0.00 0.00 0.00 2.43
4401 11628 7.816031 CCGTTCCTAAATGTAAGTCTTTGTAGA 59.184 37.037 0.00 0.00 0.00 2.59
4402 11629 7.816031 TCCGTTCCTAAATGTAAGTCTTTGTAG 59.184 37.037 0.00 0.00 0.00 2.74
4403 11630 7.669427 TCCGTTCCTAAATGTAAGTCTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
4404 11631 6.527423 TCCGTTCCTAAATGTAAGTCTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
4405 11632 6.092259 CCTCCGTTCCTAAATGTAAGTCTTTG 59.908 42.308 0.00 0.00 0.00 2.77
4406 11633 6.171213 CCTCCGTTCCTAAATGTAAGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
4407 11634 5.338137 CCCTCCGTTCCTAAATGTAAGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
4408 11635 4.161754 CCCTCCGTTCCTAAATGTAAGTCT 59.838 45.833 0.00 0.00 0.00 3.24
4409 11636 4.161001 TCCCTCCGTTCCTAAATGTAAGTC 59.839 45.833 0.00 0.00 0.00 3.01
4410 11637 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
4411 11638 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
4412 11639 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
4413 11640 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
4414 11641 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
4415 11642 3.705072 ACTACTCCCTCCGTTCCTAAATG 59.295 47.826 0.00 0.00 0.00 2.32
4420 11647 1.358445 AGAACTACTCCCTCCGTTCCT 59.642 52.381 0.00 0.00 37.15 3.36
4423 11650 3.806157 GCAAAAGAACTACTCCCTCCGTT 60.806 47.826 0.00 0.00 0.00 4.44
4431 11658 4.088823 CAGCCATGCAAAAGAACTACTC 57.911 45.455 0.00 0.00 0.00 2.59
4540 11767 6.663953 TGCTGGATAAGAACTGAGTAACTACT 59.336 38.462 0.00 0.00 39.71 2.57
4541 11768 6.864342 TGCTGGATAAGAACTGAGTAACTAC 58.136 40.000 0.00 0.00 0.00 2.73
4542 11769 7.492524 CATGCTGGATAAGAACTGAGTAACTA 58.507 38.462 0.00 0.00 0.00 2.24
4543 11770 6.344500 CATGCTGGATAAGAACTGAGTAACT 58.656 40.000 0.00 0.00 0.00 2.24
4544 11771 5.007136 GCATGCTGGATAAGAACTGAGTAAC 59.993 44.000 11.37 0.00 0.00 2.50
4579 11806 5.947228 TTTTGCATTCTAACTCTGTGGAG 57.053 39.130 0.00 0.00 44.62 3.86
4594 11829 8.052748 TCCTAGTAACATGTAGGAATTTTGCAT 58.947 33.333 11.89 0.00 41.59 3.96
4658 11893 0.038251 GTGTCGCATGGAGTCAGTGA 60.038 55.000 0.00 0.00 0.00 3.41
4668 11903 1.291184 TTCTCGCCTTGTGTCGCATG 61.291 55.000 0.00 0.00 0.00 4.06
4671 11906 1.571919 ATATTCTCGCCTTGTGTCGC 58.428 50.000 0.00 0.00 0.00 5.19
4695 11931 0.816018 CTTGGTGTGCGGTGTGGTTA 60.816 55.000 0.00 0.00 0.00 2.85
4731 11967 8.908786 AACATGTATTATATACTTGCTGTGCT 57.091 30.769 0.00 0.00 0.00 4.40
4796 12041 5.828328 GGGGAAAATTTCGATGTCTTCCTAT 59.172 40.000 13.43 0.00 34.13 2.57
4807 12052 6.031751 CCTAACATTTGGGGAAAATTTCGA 57.968 37.500 0.00 0.00 36.28 3.71
4841 12086 5.221843 TGTTGATGTTTTACAGACCTAGGCT 60.222 40.000 9.30 4.10 0.00 4.58
4859 12104 2.307496 TTTGGTGGCCTCATGTTGAT 57.693 45.000 3.32 0.00 0.00 2.57
4871 12116 1.207811 GAATGGCCATCCTTTTGGTGG 59.792 52.381 21.08 0.00 41.01 4.61
4872 12117 2.181975 AGAATGGCCATCCTTTTGGTG 58.818 47.619 21.08 0.00 39.11 4.17
4873 12118 2.629017 AGAATGGCCATCCTTTTGGT 57.371 45.000 21.08 0.00 39.11 3.67
4907 12152 9.342308 TCCCATGTATACTTCAATTCAGAAATC 57.658 33.333 4.17 0.00 0.00 2.17
4908 12153 9.347240 CTCCCATGTATACTTCAATTCAGAAAT 57.653 33.333 4.17 0.00 0.00 2.17
4909 12154 8.328758 ACTCCCATGTATACTTCAATTCAGAAA 58.671 33.333 4.17 0.00 0.00 2.52
4910 12155 7.861629 ACTCCCATGTATACTTCAATTCAGAA 58.138 34.615 4.17 0.00 0.00 3.02
4923 12168 4.746535 TCGAAGCAAACTCCCATGTATA 57.253 40.909 0.00 0.00 0.00 1.47
4924 12169 3.627395 TCGAAGCAAACTCCCATGTAT 57.373 42.857 0.00 0.00 0.00 2.29
4977 12222 1.632018 CCGCCCAAGGATAGACCCAA 61.632 60.000 0.00 0.00 40.05 4.12
4982 12227 1.632018 CCCAACCGCCCAAGGATAGA 61.632 60.000 0.00 0.00 34.73 1.98
4984 12229 1.208844 TTCCCAACCGCCCAAGGATA 61.209 55.000 0.00 0.00 34.73 2.59
4992 12237 2.885113 GCAGATTTCCCAACCGCC 59.115 61.111 0.00 0.00 0.00 6.13
5019 12266 1.535685 GATGCTGCCCTCCCTGATT 59.464 57.895 0.00 0.00 0.00 2.57
5020 12267 2.459086 GGATGCTGCCCTCCCTGAT 61.459 63.158 7.01 0.00 0.00 2.90
5047 12294 1.743394 GTGAATCGTGGTTGGGGAATC 59.257 52.381 0.00 0.00 0.00 2.52
5049 12296 0.604243 CGTGAATCGTGGTTGGGGAA 60.604 55.000 0.00 0.00 34.52 3.97
5050 12297 1.004320 CGTGAATCGTGGTTGGGGA 60.004 57.895 0.00 0.00 34.52 4.81
5052 12299 1.963855 TGCGTGAATCGTGGTTGGG 60.964 57.895 0.00 0.00 42.13 4.12
5054 12301 1.206578 GGTGCGTGAATCGTGGTTG 59.793 57.895 0.00 0.00 42.13 3.77
5057 12304 1.958715 TGTGGTGCGTGAATCGTGG 60.959 57.895 0.00 0.00 42.13 4.94
5058 12305 1.204062 GTGTGGTGCGTGAATCGTG 59.796 57.895 0.00 0.00 42.13 4.35
5059 12306 1.959226 GGTGTGGTGCGTGAATCGT 60.959 57.895 0.00 0.00 42.13 3.73
5061 12308 2.860293 CGGTGTGGTGCGTGAATC 59.140 61.111 0.00 0.00 0.00 2.52
5062 12309 3.353836 GCGGTGTGGTGCGTGAAT 61.354 61.111 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.