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
A2 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,742,229	(A)_7→6	coding (817/1149 nt)	cfa →	cyclopropane fatty acyl phospholipid synthase, SAM‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,742,223	0	A	.	100.0%	168.1 / NA	40	coding (811/1149 nt)	cfa	cyclopropane fatty acyl phospholipid synthase, SAM‑dependent
Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (18/22); total (18/22)

CTGAACGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGAAAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCT  >  NC_000913/1742085‑1742357

cTGAACGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGa                                                                                                                                        >  2:809925/1‑139 (MQ=255)

  gAACGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGaaa                                                                                                                                      <  1:787531/139‑1 (MQ=255)

   aaCGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGaaaa                                                                                                                                     >  1:577707/1‑139 (MQ=255)

   aaCGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGaaaa                                                                                                                                     >  2:927633/1‑139 (MQ=255)

                         tttCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATccc                                                                                                              <  2:577707/139‑1 (MQ=255)

                           tCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGAt                                                                                                                             <  2:284588/122‑1 (MQ=255)

                           tCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGAt                                                                                                                             >  1:284588/1‑122 (MQ=255)

                             tgtgGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGa                                                                                                          <  1:922333/139‑1 (MQ=255)

                               tgGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAACCCGATCTGAATGtt                                                                                                                    >  1:468845/1‑127 (MQ=255)

                               tgGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGtt                                                                                                                    <  2:468845/127‑1 (MQ=255)

                                       ttCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTaataaata                                                                                                >  2:484455/1‑139 (MQ=255)

                                         cGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTTGATCGTAATTTGAAATCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAatata                                                                                              <  1:927633/139‑1 (MQ=255)

                                                 tCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGtt                                                                                                                    >  2:955808/1‑109 (MQ=255)

                                                 tCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGtt                                                                                                                    <  1:955808/109‑1 (MQ=255)

                                                     aCCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACg                                                                                  >  2:501813/1‑139 (MQ=255)

                                                                   aTACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCctct                                                                    >  2:997559/1‑139 (MQ=255)

                                                                      ccTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGAt                                                                                                                             <  2:644702/79‑1 (MQ=255)

                                                                      ccTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGAt                                                                                                                             >  1:644702/1‑79 (MQ=255)

                                                                         aTTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGa                                                                                                          >  1:467131/1‑95 (MQ=255)

                                                                         aTTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGa                                                                                                          <  2:467131/95‑1 (MQ=255)

                                                                               cGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTcc                                                                                       <  1:731450/108‑1 (MQ=255)

                                                                               cGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTcc                                                                                       >  2:731450/1‑108 (MQ=255)

                                                                                ggtggtGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTg                                                       >  2:151957/1‑139 (MQ=255)

                                                                                 gtggtgGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGc                                                      >  1:554548/1‑139 (MQ=255)

                                                                                  tggtggATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCt                                                     <  2:448727/139‑1 (MQ=255)

                                                                                       gATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCt                                                     <  2:587509/134‑1 (MQ=255)

                                                                                       gATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGATGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTATGTACGCCAGATTGCt                                                     >  1:587509/1‑134 (MQ=255)

                                                                                            tAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATtaat                                                                                                     >  1:737044/1‑81 (MQ=255)

                                                                                            tAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATtaat                                                                                                     <  2:737044/81‑1 (MQ=255)

                                                                                              aTTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGaa                                         <  1:484455/139‑1 (MQ=255)

                                                                                                          aaGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATcc                                                                                                               <  2:829522/57‑1 (MQ=255)

                                                                                                          aaGGCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACAGATCTGAATGTTGATcc                                                                                                               >  1:829522/1‑57 (MQ=255)

                                                                                                             gCATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATg                          <  1:50664/139‑1 (MQ=255)

                                                                                                              cATATTCCTGCTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATgg                         <  1:301999/139‑1 (MQ=255)

                                                                                                                        cTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTtgcctgcc                                                                        <  1:179951/82‑1 (MQ=255)

                                                                                                                        cTCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTtgcctgcc                                                                        >  2:179951/1‑82 (MQ=255)

                                                                                                                         tCCATACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCAt              <  2:554548/139‑1 (MQ=255)

                                                                                                                             tACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGc                                            >  1:542877/1‑105 (MQ=255)

                                                                                                                             tACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGc                                            <  2:542877/105‑1 (MQ=255)

                                                                                                                             tACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCa                                    >  1:177463/1‑113 (MQ=255)

                                                                                                                             tACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCa                                    <  2:177463/113‑1 (MQ=255)

                                                                                                                             tACTATCGGTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACt          >  1:303609/1‑139 (MQ=255)

                                                                                                                                 aTCGGTCCG‑AAAAAACCGATCTGAATGTTGAGCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCGCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGCAAGACTGGCATAACTTCgg      <  2:672558/139‑1 (MQ=255)

                                                                                                                                     gTTCG‑AAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCt  <  1:997559/139‑1 (MQ=255)

CTGAACGACCAGTTTGATCGTATTGTTTCTGTGGGGATGTTCGAGCACGTCGGACCGAAAAATTACGATACCTATTTTGCGGTGGTGGATCGTAATTTGAAACCGGAAGGCATATTCCTGCTCCATACTATCGGTTCGAAAAAAACCGATCTGAATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCT  >  NC_000913/1742085‑1742357

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A