Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A5 F17 I0 R1	87	56.5	4283937	98.6%	4223961	62.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	556,858	A→T	100%	L36Q (CTG→CAG)	folD ←	bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase and 5,10‑methylene‑tetrahydrofolate cyclohydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	556,858	0	A	T	100.0%	110.3 / NA	38	L36Q (CTG→CAG)	folD	bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase and 5,10‑methylene‑tetrahydrofolate cyclohydrolase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (24/14); total (24/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CACAAGCCTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCAGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCAGAGCGC  >  W3110S.gb/556790‑556920

cagaaGCCTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGt                                                              >  1:1827625/4‑71 (MQ=255)

 acaAGCCTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTc                                                             <  1:617925/71‑1 (MQ=255)

  caAGCCTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTcc                                                            >  1:3078595/1‑71 (MQ=255)

      ccTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAAAGGCCTGTCCTGGt                                                        <  1:103921/71‑1 (MQ=255)

          gCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGc                                                      <  1:1769053/69‑1 (MQ=255)

           cGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCg                                                   <  1:688155/71‑1 (MQ=255)

            tcttgcttgcGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCg                                                   <  1:1587843/68‑1 (MQ=255)

              ttgcttgcGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAg                                                >  1:1848080/1‑71 (MQ=255)

                    gcGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGc                                          >  1:3607189/1‑71 (MQ=255)

                    gcGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGc                                          >  1:1670490/1‑71 (MQ=255)

                         aTAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCaa                                     >  1:187097/1‑71 (MQ=255)

                           aaaTTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTc                                                             >  1:3105123/1‑45 (MQ=255)

                            aaTTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCg                                                   >  1:2225664/1‑54 (MQ=255)

                              tttGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATAc                                  <  1:165074/69‑1 (MQ=255)

                                tGCGATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACgcgc                              >  1:3329600/1‑71 (MQ=255)

                                   gATGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTg                           <  1:3711032/71‑1 (MQ=255)

                                     tGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTgg                                                         >  1:1879864/1‑39 (MQ=255)

                                     tGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATAcg                                 >  1:671405/1‑63 (MQ=255)

                                     tGCAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGaa                         >  1:3780514/1‑71 (MQ=255)

                                       cAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACt                       <  1:3932775/71‑1 (MQ=255)

                                       cAGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACt                       >  1:297653/1‑71 (MQ=255)

                                        aGGGTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACtt                      >  1:1934613/1‑71 (MQ=255)

                                         gggTTACTACCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACttt                     <  1:1679631/71‑1 (MQ=255)

                                            gtactacCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACttt                     <  1:1231065/67‑1 (MQ=255)

                                                 acCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATa                                   >  1:3574026/1‑49 (MQ=255)

                                                 acCCACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGTAc                        >  1:1155950/1‑60 (MQ=255)

                                                  cccACCAGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAAc            >  1:43154/1‑71 (MQ=255)

                                                   ccaccaGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACgtt                     >  1:1056434/1‑61 (MQ=255)

                                                     accaGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACtt          >  1:2637061/1‑70 (MQ=255)

                                                     accaGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTc         <  1:2201985/71‑1 (MQ=255)

                                                      ccaGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCa        <  1:3038985/71‑1 (MQ=255)

                                                       caGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACtt          >  1:190152/1‑68 (MQ=255)

                                                       caGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACtt          >  1:1300695/1‑68 (MQ=255)

                                                        aGCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCa        >  1:3479662/1‑69 (MQ=255)

                                                         gCACAACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCagag     >  1:2432469/1‑71 (MQ=255)

                                                            caACGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCAGAgcg   >  1:1160404/1‑70 (MQ=255)

                                                             aaCGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCAGAgcgc  <  1:2284457/70‑1 (MQ=255)

                                                              aCGGCCTGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACtttt                    <  1:3323587/51‑1 (MQ=255)

CACAAGCCTTGCGTTTGCTTGCGACATAAATTTGCGATGCAGGGTTACTACCCACCAGCACAACGGCCAGTCCTGGTGCCCGCAGTCCGGCTGCAATACGCGCCTGAACTTTTTGAGCAACTTCAGAGCGC  >  W3110S.gb/556790‑556920

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A