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
A20 F60 I1 R1	13	39.7	1364056	98.5%	1343595	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,083,833	C→A	intergenic (‑36/+102)	speB ← / ← speA	agmatinase/arginine decarboxylase, biosynthetic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,083,833	0	C	A	100.0%	89.7 / NA	28	intergenic (‑36/+102)	speB/speA	agmatinase/arginine decarboxylase, biosynthetic
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (13/15); total (13/15)

ATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAAAAACCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAGATAAGTAT  >  NC_000913/3083702‑3083957

aTCGCTGTCATACGGGTGGAAGGTCGTCGGCAGGCGTGAAAAACCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCcgc                                                                                                                      <  1:297944/140‑1 (MQ=255)

aTCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAAAAACCAAAGGCATTGGAAAACAGGGAGTTATCGTATTGATGACCTAAGGTGGTCATGGATGGAAGCCTCTTACAAAGTCGATATAAAAAAAACCtgtctc                                                                                                                      >  2:290218/1‑135 (MQ=255)

     tGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAAAAACCAAAGGCATTTGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAAACTTCCGcgtcgt                                                                                                                 >  2:493245/1‑140 (MQ=255)

                    aGTTCATCGGCAGGCGTAAAAAACCCAAGGCATTGGACACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGa                                                                                                  <  1:311225/140‑1 (MQ=255)

                        cATCGGCAGGCGTAAAAAACCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAggg                                                                                              <  2:39486/140‑1 (MQ=255)

                                  cGTAAAAAACCAAAGGAATTGGTAACCAGTCAGCTATCGGATTGATGATCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGt                                                                                    <  2:326993/140‑1 (MQ=255)

                                   gTAAAAAACCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCGGCGTCGTGAGGTCCGACGAGGTAGGGTTGGATTTGTc                                                                                   >  1:332527/1‑140 (MQ=255)

                                                              gTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCg                                                        <  1:493245/140‑1 (MQ=255)

                                                               tGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTAGGATTTGTCACTATAAATTGTGGCGGATTATCACCGc                                                       >  1:215706/1‑140 (MQ=255)

                                                                      tCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTa                                                >  1:476103/1‑140 (MQ=255)

                                                                       cGTATTGATGACCTAAGATGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAAGCCCGACGAGGAAGGGGTGGATATGTCACAATAAATTGTGCCGGATTATCACCGCCAAATTaa                                               <  2:44655/140‑1 (MQ=255)

                                                                        gTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAg                                              <  1:509528/140‑1 (MQ=255)

                                                                             gatgaCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGTTTTGTCACGATAAATTATGGCGGATTATCACCGCTAAATTAAGCGGAt                                         >  2:291854/1‑140 (MQ=255)

                                                                             gatgaCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGAt                                         <  2:361978/140‑1 (MQ=255)

                                                                             gatgaCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGAt                                         <  2:337345/140‑1 (MQ=255)

                                                                             gatgaCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGAt                                         >  1:171963/1‑140 (MQ=255)

                                                                                gaCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCa                                      <  2:476103/140‑1 (MQ=255)

                                                                                   cTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTAACAATAAATTGTCGCGAATTATCACCGCTACATTAAGGGGATTCaatt                                   >  2:258566/1‑138 (MQ=255)

                                                                                       ggTGCTCATGGATGGATCCCTACTACAAAGTCGATTTAATAAAAACCTCCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAaca                               <  2:215706/140‑1 (MQ=255)

                                                                                             cATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAac                                >  1:661985/1‑133 (MQ=255)

                                                                                             cATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAac                                <  2:661985/133‑1 (MQ=255)

                                                                                                     gaCTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCAt                 >  2:377339/1‑140 (MQ=255)

                                                                                                       cTCCTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCt               <  2:171963/140‑1 (MQ=255)

                                                                                                          cTATTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCa            >  1:34364/1‑140 (MQ=255)

                                                                                                            aTTACAAAGTCGATATACAAAAAACCTTCCGCGTCCTTAAGCCCGACGTGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAg          <  2:181216/140‑1 (MQ=255)

                                                                                                            aTTACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAg          <  1:377339/140‑1 (MQ=255)

                                                                                                              tACAAAGTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAGAt        <  1:531699/140‑1 (MQ=255)

                                                                                                                    gTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAGATAAGtat  >  1:574584/1‑140 (MQ=255)

                                                                                                                    gTCGATATAAAAAAAACCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTAAAGTAACGCAGGACCTACTCAGCTTCAAGATAAGtat  >  1:181216/1‑140 (MQ=255)

ATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAAAAACCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCACCGCTAAATTAAGCGGATTCAAGTAACACAGGACTTACTCATCTTCAAGATAAGTAT  >  NC_000913/3083702‑3083957

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A