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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,593,675	(C)_5→6	coding (96/699 nt)	ypfH ←	palmitoyl‑CoA esterase activity, uncertain physiological substrate

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,593,670	1	.	C	100.0%	109.7 / NA	31	E34G (GAA→GGA)	ypfH	palmitoyl‑CoA esterase activity, uncertain physiological substrate
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (15/16); total (15/16)

ACGCGCCTGGCGATTATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑CCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCGAACTCCTTAACTGATGTC  >  NC_000913/2593534‑2593792

acGCGCCTGGCGATTATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑cc                                                                                                                          >  2:318455/1‑139 (MQ=255)

            aTTATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCAc                                                                                                               <  2:594540/139‑1 (MQ=255)

              tATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑c                                                                                                                           <  1:643499/124‑1 (MQ=255)

              tATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCACTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑c                                                                                                                           >  2:643499/1‑124 (MQ=255)

                tCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCggg                                                                                                           <  2:561326/139‑1 (MQ=255)

                tCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCggg                                                                                                           >  1:265738/1‑139 (MQ=255)

                tCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCggg                                                                                                           <  1:41917/139‑1 (MQ=255)

                  ttCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGtt                                                                                                         <  1:160933/139‑1 (MQ=255)

                           aCCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGac                                                                                                >  2:641874/1‑139 (MQ=255)

                               tGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCg                                                                                            >  1:355993/1‑139 (MQ=255)

                               tGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCg                                                                                            >  1:884822/1‑139 (MQ=255)

                                    cGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGaa                                                                                       >  1:412329/1‑139 (MQ=255)

                                      aaaaCCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGaaaa                                                                                     >  1:140483/1‑139 (MQ=255)

                                      aaaaCCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGaa                                                                                       <  2:845952/137‑1 (MQ=255)

                                      aaaaCCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGaa                                                                                       >  1:845952/1‑137 (MQ=255)

                                         aCCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCa                                                                                  <  2:355993/139‑1 (MQ=255)

                                         aCCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCa                                                                                  <  2:992062/139‑1 (MQ=255)

                                           cACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGt                                                                                >  2:198992/1‑139 (MQ=255)

                                                aCGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑c                                                                                                                           <  1:837617/90‑1 (MQ=255)

                                                aCGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑c                                                                                                                           >  2:837617/1‑90 (MQ=255)

                                                            aTTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAgg                                                               <  2:265738/139‑1 (MQ=255)

                                                                                          caccacCAGCGCATCAGGAAACAGCGGTGCGAACCAGTTGCCTATTTCCCCCCATTGCCACCggg                                                                                                           >  2:800047/1‑65 (MQ=255)

                                                                                          caccacCAGCGCATCAGGAAACAGCGGTGCGAACCAGTTGCCTATTTCCCCCCATTGCCACCggg                                                                                                           <  1:800047/65‑1 (MQ=255)

                                                                                          caccacCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTc                                 <  2:120027/139‑1 (MQ=255)

                                                                                          caccacCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTc                                 >  2:60639/1‑139 (MQ=255)

                                                                                            ccaccaGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCAt                               >  1:411483/1‑139 (MQ=255)

                                                                                               ccaGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGtt                            >  1:1083830/1‑139 (MQ=255)

                                                                                                   cgcATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGa                                                                                        >  1:90294/1‑75 (MQ=255)

                                                                                                   cgcATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGa                                                                                        <  2:90294/75‑1 (MQ=255)

                                                                                                       tCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCg                    <  2:1083830/139‑1 (MQ=255)

                                                                                                       tCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCg                    <  1:198992/139‑1 (MQ=255)

                                                                                                       tCAGGAAACAGCGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCg                    <  2:884822/139‑1 (MQ=255)

                                                                                                                  cGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGtt                                                                                                         >  2:219470/1‑43 (MQ=37)

                                                                                                                  cGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGtt                                                                                                         <  1:219470/43‑1 (MQ=37)

                                                                                                                  cGGTGCAAACCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCGAACTCCTTAAc         >  1:99726/1‑139 (MQ=255)

                                                                                                                         aaCCAGTTGCCTATTTCCCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCGAACTCCTTAACTGATGTc  <  1:1076709/139‑1 (MQ=255)

ACGCGCCTGGCGATTATCTTCCGTAATACCCTGCACCGAAAACCACTGACGCCCCGCCGGATTACCGCTCGGCTCCGCGCCACCGACACTCACCACCAGCGCATCAGGAAACAGCGGTGCAAACCAGTTGCCTATTT‑CCCCCATTGCCACCGGGTTATCCCCGACACCGTGGAAAAGCAGTAACAACTGTTGCGCAGGTTTATCCGGGCTTTGAACAACAAAATGGTCATGTTTCATGGCGAACTCCTTAACTGATGTC  >  NC_000913/2593534‑2593792

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A