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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	967,118	A→G	Q166Q (CAA→CAG)	msbA →	lipid ABC transporter permease/ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	967,118	0	A	G	100.0%	118.6 / NA	33	Q166Q (CAA→CAG)	msbA	lipid ABC transporter permease/ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/14); total (19/14)

TACGCTGTTGTCACGTATTACCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAACTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAATGCT  >  NC_000913/966986‑967252

tACGCTGTTGTCACGTATTACCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCg                                                                                                                                  <  1:230622/139‑1 (MQ=255)

                 ttACCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCg                                                                                                                                  >  2:370211/1‑122 (MQ=255)

                 ttACCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCg                                                                                                                                  <  1:370211/122‑1 (MQ=255)

                   aCCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTgg                                                                                                               >  2:114136/1‑139 (MQ=255)

                        cGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCg                                                                                                          >  1:39525/1‑139 (MQ=255)

                        cGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCg                                                                                                          >  2:553172/1‑139 (MQ=255)

                                            cttcttcttcCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcg                                                                                      <  2:39525/139‑1 (MQ=255)

                                              tcttcttcCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcgcg                                                                                    <  1:553172/139‑1 (MQ=255)

                                                    tcCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcgcg                                                                                    <  1:642496/133‑1 (MQ=255)

                                                    tcCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcgcg                                                                                    >  2:642496/1‑133 (MQ=255)

                                                                                           atcatcGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGATTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAaca                                       >  1:571370/1‑139 (MQ=255)

                                                                                              atcGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCa                                    <  2:419757/139‑1 (MQ=255)

                                                                                                   ccTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATgggg                               <  2:783174/139‑1 (MQ=255)

                                                                                                    cTGTTCATCATGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGc                              <  1:114136/139‑1 (MQ=255)

                                                                                                            catGATTTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCTATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCa                                    >  1:69406/1‑125 (MQ=255)

                                                                                                            catGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCa                                    <  1:717576/125‑1 (MQ=255)

                                                                                                            catGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCa                                    <  2:69406/125‑1 (MQ=255)

                                                                                                            catGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCa                                    >  2:717576/1‑125 (MQ=255)

                                                                                                            catGATGTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGacc                      >  2:628766/1‑139 (MQ=255)

                                                                                                                 tgTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGaa                                         >  2:165138/1‑115 (MQ=255)

                                                                                                                 tgTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGaa                                         <  1:165138/115‑1 (MQ=255)

                                                                                                                 tgTTCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAg                 >  2:398638/1‑139 (MQ=255)

                                                                                                                    tCTATTACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAgcgc              >  1:40488/1‑139 (MQ=255)

                                                                                                                        ttACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGaa          >  1:733629/1‑139 (MQ=255)

                                                                                                                        ttACAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGaa          <  1:628766/139‑1 (MQ=255)

                                                                                                                           cAGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACaa       >  2:185545/1‑139 (MQ=255)

                                                                                                                            aGTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACaaa      <  1:258011/139‑1 (MQ=255)

                                                                                                                             gTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcgcg                                                                                    >  2:125892/1‑60 (MQ=255)

                                                                                                                             gTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTcgcg                                                                                    <  1:125892/60‑1 (MQ=255)

                                                                                                                             gTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAAt     >  2:50998/1‑139 (MQ=255)

                                                                                                                             gTTGGCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAAt     >  2:686781/1‑139 (MQ=255)

                                                                                                                                ggCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAATGCt  >  1:692091/1‑139 (MQ=255)

                                                                                                                                ggCAGCTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAATGCt  >  1:655072/1‑139 (MQ=255)

TACGCTGTTGTCACGTATTACCTACGATTCCGAACAGGTTGCTTCTTCTTCTTCCGGCGCACTGATTACTGTTGTGCGTGAAGGTGCGTCGATCATCGGCCTGTTCATCATGATGTTCTATTACAGTTGGCAACTGTCGATCATTTTGATTGTGCTGGCACCGATTGTTTCGATTGCGATTCGCGTTGTATCGAAGCGTTTTCGCAACATCAGTAAAAACATGCAGAACACCATGGGGCAGGTGACCACCAGCGCAGAACAAATGCT  >  NC_000913/966986‑967252

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A