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
A6 F28 I2 R2	64	60.0	3197630	92.7%	2964203	60.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	minE	2,367,537	C→T	intergenic (‑85/‑105)	pepQ ← / → fadB	proline dipeptidase/fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,367,537	0	C	T	100.0%	87.8 / NA	27	intergenic (‑85/‑105)	pepQ/fadB	proline dipeptidase/fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/11); total (16/11)

GACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATC  >  minE/2367474‑2367602

gACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCgg                                                            >  1:979797/1‑71 (MQ=255)

  ccTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCa                                                          >  1:2095058/1‑71 (MQ=255)

   cTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCAt                                                         <  1:1019620/71‑1 (MQ=255)

   cTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCAt                                                         <  1:237801/71‑1 (MQ=255)

     tAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCAttt                                                       >  1:2946625/1‑71 (MQ=255)

           tcCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTa                                                  >  1:2243556/1‑70 (MQ=255)

              gCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCtt                                                    >  1:876275/1‑65 (MQ=255)

              gCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCtt                                                    >  1:677922/1‑65 (MQ=255)

                  cTTAGCACATCGTTCATACAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCa                                                          >  1:2125818/1‑55 (MQ=255)

                    tAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgtt                                        >  1:1850958/1‑71 (MQ=255)

                     aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCtttt                                           <  1:1020452/67‑1 (MQ=255)

                     aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgt                                         <  1:3177712/69‑1 (MQ=255)

                     aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgt                                         <  1:1141509/69‑1 (MQ=255)

                     aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttg                                          <  1:2688625/68‑1 (MQ=255)

                           tCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCatat                                 <  1:3046236/71‑1 (MQ=255)

                           tCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCata                                  >  1:1875903/1‑70 (MQ=255)

                                  tCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttg                                          <  1:1537677/55‑1 (MQ=255)

                                     agagCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAacac                        >  1:2387317/1‑70 (MQ=255)

                                        gCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACaaaa                    <  1:831303/71‑1 (MQ=255)

                                              tttCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATacaca              >  1:1683810/1‑71 (MQ=255)

                                               ttCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAAcaca                       >  1:2452543/1‑61 (MQ=255)

                                                tCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACt            >  1:391621/1‑71 (MQ=255)

                                                tCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACt            >  1:1529794/1‑71 (MQ=255)

                                                tCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACt            >  1:1052307/1‑71 (MQ=255)

                                                      gAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACt      >  1:1847716/1‑71 (MQ=255)

                                                       aGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTc     <  1:2314643/71‑1 (MQ=255)

                                                          gTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATc  <  1:778741/71‑1 (MQ=255)

GACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATC  >  minE/2367474‑2367602

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