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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,148,499	T→C	C293C (TGT→TGC)	plsX →	putative phosphate acyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,148,499	0	T	C	100.0%	74.2 / NA	22	C293C (TGT→TGC)	plsX	putative phosphate acyltransferase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/10); total (12/10)

TGCTGAAATCTCAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATC  >  NC_000913/1148375‑1148633

tgctgAAATCTCAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTgcg                                                                                                                          <  2:74647/139‑1 (MQ=255)

tgctgAAATCACAGGGTGAATGGAAAAAACGGTCGTGGTGGCTACTGTTTTTAAAGCGTTGGCTACAAAAGAGCCTGACGATGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTgcg                                                                                                                          >  1:656269/1‑139 (MQ=255)

  ctgAAATCTCAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGcgcg                                                                                                                        >  1:677812/1‑139 (MQ=255)

     aaaTCTCAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCa                                                                                                                     <  1:315514/139‑1 (MQ=255)

          tcAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTg                                                                                                                <  2:753416/139‑1 (MQ=255)

                                               ttattaAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTg                                                                           >  2:438636/1‑139 (MQ=255)

                                                         gTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCa                                                                                                                     >  1:512936/1‑87 (MQ=255)

                                                         gTTGGCTACAAAACAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCa                                                                                                                     <  2:512936/87‑1 (MQ=255)

                                                           tGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTg                                                               >  1:668100/1‑139 (MQ=255)

                                                            ggCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGa                                                              <  1:210780/139‑1 (MQ=255)

                                                                       agCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGc                                                   >  1:692122/1‑139 (MQ=255)

                                                                       agCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGc                                                   >  2:479884/1‑139 (MQ=255)

                                                                         ccTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAg                                                 >  2:325074/1‑139 (MQ=255)

                                                                            gACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCg                                              >  2:710088/1‑139 (MQ=255)

                                                                                                       cGACCAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAAtt                   >  1:282852/1‑139 (MQ=255)

                                                                                                           cAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCg               <  1:479884/139‑1 (MQ=255)

                                                                                                           cAGTATAACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCg               <  2:668100/139‑1 (MQ=255)

                                                                                                              tataACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCg               <  1:483506/136‑1 (MQ=255)

                                                                                                              tataACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCg               >  2:483506/1‑136 (MQ=255)

                                                                                                              tataACGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTc            >  1:621121/1‑139 (MQ=255)

                                                                                                                 aaCGGCGCCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGcc         <  2:693590/139‑1 (MQ=255)

                                                                                                                     gcgcCTGCCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCACAGCGAATTGCCGCTCGCCTGGa     <  2:282852/139‑1 (MQ=255)

                                                                                                                      cgcCTGCCTGTTAGGATTGCGCGGCAAGGTGAGAAAAAGGCGTGAGGTGTGCATCAAACGAGGCTTTGCGGTAGTGATTAAACAGGGCTTGCAGGCGGTGCAGCCTTAAGTTCTTCAGCGAATTGGCGCACGCCTTGag    <  2:656269/139‑2 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAg                                 <  1:600338/108‑1 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAg                                 >  2:600338/1‑108 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGa     >  2:110734/1‑136 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGa     <  1:110734/136‑1 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATc  >  1:48181/1‑139 (MQ=255)

                                                                                                                        cctgcctgTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATc  >  2:322486/1‑139 (MQ=255)

TGCTGAAATCTCAGGGTGAAGGGAAAAAACGGTCGTGGTGGCTACTGTTATTAAAGCGTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATC  >  NC_000913/1148375‑1148633

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A