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
A12 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_000913	4,517,951	(C)_6→9	coding (285/522 nt)	fecI ←	RNA polymerase sigma factor FecI

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4517945	0 (0.000)	35 (0.690) +CCC	21/258	1.2	100%	coding (291/522 nt)	fecI	RNA polymerase sigma factor FecI
*	?	NC_000913	4517946 =	0 (0.000)	35 (0.690) +CCC	21/258	1.2	100%	coding (290/522 nt)	fecI	RNA polymerase sigma factor FecI

CAATCTCGCTGTATGTCAGACCATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4517809‑4517945

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCGTTTCGCTGA  >  NC_000913/4517946‑4518084

                                                                                                                                         ||||

CAATCTCGCTGTATGTCAGACCATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCC                                                                                                                                             >  1:611075/1‑140

  ATCTCGCTGTATGTCAGACCATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCC                                                                                                                                           >  2:243773/1‑140

   TCTCGCTGTATGTCAGACCATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCC                                                                                                                                          <  2:622055/140‑1

                     CATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCC                                                                                                                        >  1:232684/1‑140

                     CATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCC                                                                                                                        >  1:357893/1‑140

                       TCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCA                                                                                                                       >  1:408278/1‑140

                       TCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAG                                                                                                                      >  2:491745/1‑140

                       TCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGC                                                                                                                     >  1:317573/1‑140

                       TCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGC                                                                                                                     >  2:12006/1‑140

                         CAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGC                                                                                                                     <  2:161294/140‑1

                                              TTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGTGGAGATGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCA                                                                                               >  1:644323/1‑140

                                              TTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCA                                                                                               >  1:155957/1‑140

                                               TCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAG                                                                                              >  1:779974/1‑140

                                                        TTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCGGCGCGTTTCG                                                                                     <  1:837425/140‑1

                                                             GTTTAGCCCATCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAA                                                                                <  1:423241/140‑1

                                                              TTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAA                                                                                <  2:785560/140‑1

                                                                      GTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCC                                                                        <  2:611075/140‑1

                                                                      GTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCA                                                                       <  2:779974/140‑1

                                                                            CATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCA                                                                 >  2:378038/1‑140

                                                                             ATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACG                                                               <  1:12006/140‑1

                                                                              TGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACG                                                               <  1:243773/140‑1

                                                                               GCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACG                                                               <  1:448798/140‑1

                                                                                   TCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTT                                                          <  1:154519/140‑1

                                                                                        GAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGAT                                                    >  1:762849/1‑140

                                                                                             GTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGC                                               <  2:317573/140‑1

                                                                                              TAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGC                                               <  2:124335/140‑1

                                                                                                   TCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGG                                          >  2:38718/1‑140

                                                                                                   TCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGG                                          >  2:549879/1‑140

                                                                                                     TCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGTGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAG                                       >  1:386786/1‑140

                                                                                                     TCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGA                                         >  2:844464/1‑140

                                                                                                     TCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAA                                        >  2:366326/1‑140

                                                                                                                  CGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGA                                 <  2:317437/135‑1

                                                                                                                  CGCGTTCCTCAGGTGAAGGCGCTCCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGA                                 >  1:317437/1‑135

                                                                                                                     GTTCCTCAGGTGAAGGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATTCGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCAGCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGG                        <  2:232684/140‑1

                                                                                                                                 AAGGCGCT‑‑CCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCG           >  2:394779/1‑140

                                                                                                                                   GGCGCT‑CCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCGT          >  2:505639/1‑140

                                                                                                                                        tcCCCCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCGTTTCG      <  2:408278/138‑1

                                                                                                                                            CCCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCGTTTCGCTGA  >  1:747712/1‑140

                                                                                                                                         ||||

CAATCTCGCTGTATGTCAGACCATCCAGTTGCGAAAGCAGAAACGCTTCACGTGTTTTGCCGTTTAGCCCGTCCAGCATGCTGTCGAGGAGTTGTAGGGTCTCGAGTTGGCTTTCGCGTTCCTCAGGTGAAGGCGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4517809‑4517945

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCTCCGGCATAAGCGCCAGCATCTCCAGATACGCTTTTTCCAGCGCGTTTCGGCGAAACAGGTCCACCATCACGCGTTTGGCGATAGTGCAGAGGAAGGAGCGAGGATCGCGGATCGTCGAGAGCGTTTCGCTGA  >  NC_000913/4517946‑4518084

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A