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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,163,578	G→A	A107T (GCA→ACA)	thiK →	thiamine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,163,578	0	G	A	100.0%	129.8 / NA	34	A107T (GCA→ACA)	thiK	thiamine kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/20); total (14/20)

GCAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGGCAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACGTCTGCGCAAA  >  NC_000913/1163430‑1163721

gcAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACa                                                                                                                                               <  2:340545/151‑1 (MQ=255)

   gTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGc                                                                                                                                            <  2:240819/151‑1 (MQ=255)

   gTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGc                                                                                                                                            >  2:644895/1‑151 (MQ=255)

              tGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCAGATACCAACGAACTGACAGGCTTGCTGtatt                                                                                                                                  >  2:239039/1‑150 (MQ=255)

                          gggCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATcaaca                                                                                                                     <  1:314466/151‑1 (MQ=255)

                               ttATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCAc                                                                                                                >  1:222442/1‑151 (MQ=255)

                                tATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCAc                                                                                                                <  2:416423/150‑1 (MQ=255)

                                tATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCAc                                                                                                                <  1:632915/150‑1 (MQ=255)

                                tATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCAc                                                                                                                <  1:21380/150‑1 (MQ=255)

                                    acaACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGtttt                                                                                                           >  1:542833/1‑151 (MQ=255)

                                       aCTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTtggc                                                                                                        <  1:577324/151‑1 (MQ=255)

                                          aCCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTtggct                                                                                                       <  2:100789/149‑1 (MQ=255)

                                           cccGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTtggctggc                                                                                                    >  2:228733/1‑151 (MQ=255)

                                             cGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCg                                                                                                   >  1:431201/1‑150 (MQ=255)

                                                atgcatTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAAt                                                                                                >  1:504210/1‑150 (MQ=255)

                                                   catTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACg                                                                                            >  2:463258/1‑151 (MQ=255)

                                                     ttGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCt                                                                                          >  1:242667/1‑151 (MQ=255)

                                                       gCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGt                                                                                        <  1:648234/151‑1 (MQ=255)

                                                                ccGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTAc                                                                               >  1:375689/1‑151 (MQ=255)

                                                                   cATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTgg                                                                            <  2:77275/151‑1 (MQ=255)

                                                                                                         gCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGAc                                       <  1:880/150‑1 (MQ=255)

                                                                                                         gCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGAc                                       <  2:365184/150‑1 (MQ=255)

                                                                                                                       aaaCGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGACGCGGCGGACAGTGGGTTGGCTGCg                        <  2:496124/151‑1 (MQ=255)

                                                                                                                         aCGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGaa                      <  1:433845/151‑1 (MQ=255)

                                                                                                                          cGTATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAAt                     <  2:261585/151‑1 (MQ=255)

                                                                                                                            tATTTGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGt                   >  2:589078/1‑151 (MQ=255)

                                                                                                                                tGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTaa                >  1:474085/1‑150 (MQ=255)

                                                                                                                                tGCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTaa                <  1:234228/150‑1 (MQ=255)

                                                                                                                                 gCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTaaaa              <  1:660691/151‑1 (MQ=255)

                                                                                                                                 gCCGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTaaaa              <  1:43149/151‑1 (MQ=255)

                                                                                                                                   cGGATACCAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACg            <  2:343733/151‑1 (MQ=255)

                                                                                                                                         ccAACGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACGTCTgcg      >  2:550550/1‑151 (MQ=255)

                                                                                                                                            aCGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACGTCTGCGCa    >  2:453913/1‑150 (MQ=255)

                                                                                                                                             cGAACTGACAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACGTCTGCGCaaa  <  1:476131/151‑1 (MQ=255)

GCAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTGACTGGATGGTAGTCGACTATCTGCCCGGCGCGGTAAAAACGTATTTGCCGGATACCAACGAACTGGCAGGCTTGCTGTATTATCTACATCAACAACCACGTTTTGGCTGGCGAATAACGCTGTTGCCGTTACTGGAACTGTACTGGCAGCAAAGCGATCCGGCGCGGCGGACAGTGGGTTGGCTGCGAATGTTAAAACGTCTGCGCAAA  >  NC_000913/1163430‑1163721

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A