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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	544,754	C→T	R180H (CGT→CAT)	allC ←	allantoate amidohydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	544,754	0	C	T	100.0%	101.5 / NA	32	R180H (CGT→CAT)	allC	allantoate amidohydrolase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/17); total (15/17)

CCGTTCAGCGTTACCGTATAACGACGCTGCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGACGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCACGTCGTCAGGATTCGCCAGCCCAAAAATATTTTTACTGCCCCA  >  NC_000913/544628‑544887

ccGTTCAGCGTTACCGTATAACGACCCTGCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTg                                                                                                                           <  2:291659/139‑1 (MQ=255)

             ccGTATAACGACGCTGCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGAtgc                                                                                                                                     >  2:215829/1‑116 (MQ=255)

             ccGTATAACGACGCTGCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGAtgc                                                                                                                                     <  1:215829/116‑1 (MQ=255)

                            gCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGc                                                                                               <  1:246143/139‑1 (MQ=255)

                                            caccacGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACa                                                                               <  1:799697/139‑1 (MQ=255)

                                            caccacGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACa                                                                               <  1:312218/139‑1 (MQ=255)

                                                         gattgCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCtt                                                                  >  1:1196160/1‑139 (MQ=255)

                                                            tgCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTgg                                                               >  2:1032794/1‑139 (MQ=255)

                                                             gCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGc                                                              <  2:1196160/139‑1 (MQ=255)

                                                                 aTTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATc                                                                                                      <  2:404940/95‑1 (MQ=255)

                                                                 aTTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATc                                                                                                      >  1:404940/1‑95 (MQ=255)

                                                                              acacaGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCa                                             <  1:1032794/139‑1 (MQ=255)

                                                                               cacaGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTggg                                                                                                                         >  2:500066/1‑62 (MQ=255)

                                                                               cacaGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTggg                                                                                                                         <  1:500066/62‑1 (MQ=255)

                                                                                  aGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGAc                                                                                <  2:702491/100‑1 (MQ=255)

                                                                                  aGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGAc                                                                                >  1:702491/1‑100 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTg                                                                                                                           <  1:611145/50‑1 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTg                                                                                                                           >  2:611145/1‑50 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGatat                                                   >  2:1222817/1‑122 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGatat                                                   <  1:1222817/122‑1 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTcc                                                >  2:1100232/1‑125 (MQ=255)

                                                                                         ttCAATATGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTcc                                                <  1:1100232/125‑1 (MQ=255)

                                                                                                tGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTcc                                                                    >  1:237124/1‑98 (MQ=255)

                                                                                                tGCAGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTcc                                                                    <  2:237124/98‑1 (MQ=255)

                                                                                                   aGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCAt                                                            >  2:1160448/1‑103 (MQ=255)

                                                                                                   aGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCAt                                                            <  1:1160448/103‑1 (MQ=255)

                                                                                                   aGTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCACGTCGTCAGGATTCGCCAGcc                        >  1:1262534/1‑139 (MQ=255)

                                                                                                    gTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTg                                                                <  1:1038495/98‑1 (MQ=255)

                                                                                                    gTTCAACAAAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTg                                                                >  2:1038495/1‑98 (MQ=255)

                                                                                                       caacaaAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCAc                                            <  1:1187212/115‑1 (MQ=255)

                                                                                                       caacaaAGGCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCAc                                            >  2:1187212/1‑115 (MQ=255)

                                                                                                               gCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAg                                                       >  2:1506024/1‑96 (MQ=255)

                                                                                                               gCTTTAATATCCTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAg                                                       <  1:1506024/96‑1 (MQ=255)

                                                                                                                         ccTGATGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCACGTCGTCAGGATTCGCCAGCCCAAAAATATTTTTACTGCCCCa  >  2:263994/1‑139 (MQ=255)

CCGTTCAGCGTTACCGTATAACGACGCTGCCCGACAATTGCATTCACCACGCCAATTGATTGCCCATTACTTTCCAGCACACAGCCCTGTTCAATATGCAGTTCAACAAAGGCTTTAATATCCTGACGCGGAGTTAGTGGGGCGTTCGGAAGAGTAAATCCGCAAGCCTTCATCGCATCGACAAAACTATTTCCTTTGGCATCACAGATATTCCGCACGTCGTCAGGATTCGCCAGCCCAAAAATATTTTTACTGCCCCA  >  NC_000913/544628‑544887

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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