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
A1 F5 I97 R1	275	44.0	1733530	96.5%	1672856	122.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	487,218	A→C	K117N (AAA→AAC)	apt →	adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	487,218	0	A	C	100.0%	121.6 / NA	35	K117N (AAA→AAC)	apt	adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (17/18); total (17/18)

CGGTAGCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGA  >  NZ_CP009273/487085‑487346

cGGTAGCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCggg                                                                                                                             <  2:284487/139‑1 (MQ=255)

               tgggCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTAAGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCtggt                                                                                                              >  2:543675/1‑139 (MQ=255)

                gggCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCtggtg                                                                                                             >  1:17481/1‑139 (MQ=255)

                     ttGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGga                                                                                                        <  1:425002/139‑1 (MQ=255)

                     ttGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTATGGTGGTGga                                                                                                        >  2:510255/1‑139 (MQ=255)

                       ggCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGgac                                                                                                       >  2:612728/1‑138 (MQ=255)

                                  ggTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGc                                                                                            >  1:440470/1‑138 (MQ=255)

                                      cGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACcg                                                                                       >  1:543774/1‑139 (MQ=255)

                                        tAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTG‑‑ATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACcggcgg                                                                                   <  1:523993/139‑1 (MQ=255)

                                          aaCCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACcggcgg                                                                                   <  2:650752/139‑1 (MQ=255)

                                               ggCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACa                                                                                                                        >  1:357515/1‑97 (MQ=255)

                                               ggCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACa                                                                                                                        <  2:357515/97‑1 (MQ=255)

                                               ggCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTa                                                                              >  2:280556/1‑139 (MQ=255)

                                                        ccGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGc                                                                       <  2:659778/137‑1 (MQ=255)

                                                                aaCCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTaaa                                                             >  2:82166/1‑139 (MQ=255)

                                                                              cTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCt                                               <  2:688277/139‑1 (MQ=255)

                                                                                  cGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGggt                                           <  1:185337/139‑1 (MQ=255)

                                                                                         gAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGaa                                     <  2:320951/138‑1 (MQ=255)

                                                                                            tACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACaa                                                                                                                       <  2:375053/53‑1 (MQ=255)

                                                                                            tACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACaa                                                                                                                       >  1:375053/1‑53 (MQ=255)

                                                                                               ggCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCt                               >  1:597644/1‑138 (MQ=255)

                                                                                                   ccGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGc                          >  1:300841/1‑139 (MQ=255)

                                                                                                         aGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGtt                    <  2:17481/139‑1 (MQ=255)

                                                                                                         aGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGtt                    <  2:129018/139‑1 (MQ=255)

                                                                                                         aGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGtt                    <  2:543774/139‑1 (MQ=255)

                                                                                                         aGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGtt                    <  2:836553/139‑1 (MQ=255)

                                                                                                         aGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGtt                    <  2:78417/139‑1 (MQ=255)

                                                                                                           cTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCa                  <  1:851279/139‑1 (MQ=255)

                                                                                                                gaTCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCAtt                <  1:808741/136‑1 (MQ=255)

                                                                                                                gaTCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCAtt                >  2:808741/1‑136 (MQ=255)

                                                                                                                     aCGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGAGGTGGACGATCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCt        >  1:99671/1‑139 (MQ=255)

                                                                                                                     aCGTTGATGCCATCAACCCGGGCGACAAAGCTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGGGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCt        >  2:711681/1‑139 (MQ=255)

                                                                                                                       gTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGt      <  2:28178/139‑1 (MQ=255)

                                                                                                                           aTGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGa  >  1:487344/1‑139 (MQ=255)

                                                                                                                           aTGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGa  >  1:661544/1‑139 (MQ=255)

CGGTAGCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGA  >  NZ_CP009273/487085‑487346

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

GCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGAT  >  NZ_CP009273/487090‑487347

GCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGG                                                                                                             >  SRR3722120.17684/1‑151 (MQ=60)

               GTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGG                                                                                              <  SRR3722120.431204/151‑1 (MQ=60)

                  GGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCA                                                                                            >  SRR3722120.446914/1‑150 (MQ=60)

                      TTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGG                                                                                       >  SRR3722120.551437/1‑151 (MQ=60)

                               TCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGctgtctcttatacacatctccgagcccacg                                                                                >  SRR3722120.362704/1‑119 (MQ=60)

                                  GTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTG‑‑ATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAG                                                                         <  SRR3722120.531464/151‑1 (MQ=60)

                                                                            ACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGctgtctcttatacacatctccgagcccacgagactaaggcgaatctcgtatgccgtcttctgcttgaaaaaaaaa                                  >  SRR3722120.380582/1‑75 (MQ=60)

                                                                            ACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGC                                 <  SRR3722120.187917/151‑1 (MQ=60)

                                                                               ACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTG                               >  SRR3722120.605957/1‑150 (MQ=60)

                                                                                   GGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCT                          >  SRR3722120.305157/1‑151 (MQ=60)

                                                                                                     GCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTG        <  SRR3722120.862691/151‑1 (MQ=60)

                                                                                                     GCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGAGGTGGACGATCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTG        >  SRR3722120.100999/1‑151 (MQ=60)

                                                                                                        GGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTT      <  SRR3722120.819639/150‑1 (MQ=60)

                                                                                                           GATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGAT  >  SRR3722120.494349/1‑151 (MQ=60)

                                                                                                           GATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGAT  >  SRR3722120.670618/1‑151 (MQ=60)

GCTCTGGGTCTGGGCGTTGGCTTTGTACCGGTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAGTGGCTGACGCTGCGTTCATTATCAACCTGTTCGAT  >  NZ_CP009273/487090‑487347

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 17 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`