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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	649,372	A→G	F67S (TTC→TCC)	citF ←	citrate lyase, citrate‑ACP transferase (alpha) subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	649,372	0	A	G	100.0%	129.1 / NA	36	F67S (TTC→TCC)	citF	citrate lyase, citrate‑ACP transferase (alpha) subunit
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/19); total (17/19)

TGTGTTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGAAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCA  >  NC_000913/649241‑649497

tgtgTTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAAc                                                                                                                        >  2:599995/1‑139 (MQ=255)

         ccAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAGGCGTGATGGGAGGAAACCGTCATGcc                                                                                                               >  2:211676/1‑139 (MQ=255)

          cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:491911/139‑1 (MQ=255)

          cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:64528/139‑1 (MQ=255)

              ggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              >  1:639436/1‑135 (MQ=255)

              ggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  2:639436/135‑1 (MQ=255)

                             cTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGcgac                                                                                           >  1:45369/1‑139 (MQ=255)

                               cAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGcgacga                                                                                         >  2:228161/1‑139 (MQ=255)

                                    aGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGc                                                                                    <  2:531952/139‑1 (MQ=255)

                                    aGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGc                                                                                    <  1:228161/139‑1 (MQ=255)

                                     gCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCGTATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGct                                                                                   <  2:426546/139‑1 (MQ=255)

                                      cTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:61019/111‑1 (MQ=255)

                                      cTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              >  2:61019/1‑111 (MQ=255)

                                      cTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGctt                                                                                  >  1:161583/1‑139 (MQ=255)

                                              cAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAgg                                                                          <  2:45369/139‑1 (MQ=255)

                                                      ggTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  1:599995/139‑1 (MQ=255)

                                                      ggTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  2:367462/139‑1 (MQ=255)

                                                                  ccATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATc                                                      >  2:262378/1‑139 (MQ=255)

                                                                      cTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATcgcgc                                                  <  1:653170/139‑1 (MQ=255)

                                                                               gACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:785585/70‑1 (MQ=255)

                                                                               gACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              >  2:785585/1‑70 (MQ=255)

                                                                                          ccATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGt                              <  1:262378/139‑1 (MQ=255)

                                                                                            atatTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGttt                            >  2:269701/1‑139 (MQ=255)

                                                                                             tatTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTg                           >  2:529757/1‑139 (MQ=255)

                                                                                                  aCGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGct                                                                                   <  1:694411/78‑1 (MQ=255)

                                                                                                  aCGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGct                                                                                   >  2:694411/1‑78 (MQ=255)

                                                                                                    ggtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGc                    <  1:168399/139‑1 (MQ=255)

                                                                                                     gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  1:669243/92‑1 (MQ=255)

                                                                                                     gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  >  2:669243/1‑92 (MQ=255)

                                                                                                     gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCg                   >  2:793948/1‑139 (MQ=255)

                                                                                                     gccaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCg                   >  1:787448/3‑139 (MQ=255)

                                                                                                           tcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCt             <  2:161583/139‑1 (MQ=255)

                                                                                                            caCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTg            >  2:588137/1‑139 (MQ=255)

                                                                                                                    cGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTgg                                                                      <  2:445550/73‑1 (MQ=255)

                                                                                                                    cGGAAAGCGTGATGGGAGAAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTgg                                                                      >  1:445550/1‑73 (MQ=255)

                                                                                                                      gAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCa  <  1:588137/139‑1 (MQ=255)

TGTGTTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGAAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCA  >  NC_000913/649241‑649497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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