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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	391,739	C→T	289 (TAG→TAA)	insF1 ←	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	391,739	0	C	T	100.0%	114.4 / NA	38	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/19); total (19/19)

TGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCC  >  NC_000913/391618‑391844

tGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGtt                                                                                          >  2:345858/1‑139 (MQ=255)

      aGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  1:414097/139‑1 (MQ=255)

       gATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAAt                                                                                   >  2:641477/1‑139 (MQ=255)

            cTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTc                                                                              >  1:554528/1‑139 (MQ=255)

                 ttGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGAc                                                                         >  1:377705/1‑139 (MQ=255)

                    aTACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGa                                                                      <  1:350838/139‑1 (MQ=255)

                        cggtcagcTGTCTAGTAACTCCTAGAGTACTGTTGCGTTGACCGAATCTACTTGGTGGGGGGCTGATGG‑ACCCGACCCACGTAATATGGTCACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTCTGCCGGACTGAGgcc                                                                  <  1:13204/136‑1 (MQ=21)

                          atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGAATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccg                                                                 <  1:498523/139‑1 (MQ=255)

                          atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                >  2:783772/1‑139 (MQ=255)

                          atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                <  1:641477/139‑1 (MQ=255)

                           tcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgcc                                                               >  1:666637/1‑139 (MQ=255)

                                  aCTATTAACTCCTAGAGCACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATTCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCag                                                        <  2:493022/139‑2 (MQ=255)

                                                cAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCa                                          >  1:171378/1‑139 (MQ=255)

                                                 aGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCAc                                         <  2:738891/139‑1 (MQ=255)

                                                    aCTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                      <  2:360724/139‑1 (MQ=255)

                                                    aCTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                      >  2:753481/1‑139 (MQ=255)

                                                     cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    >  2:655679/1‑92 (MQ=255)

                                                     cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  1:655679/92‑1 (MQ=255)

                                                       gTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTg                                   >  2:80835/1‑139 (MQ=255)

                                                        ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGt                                  >  2:18478/1‑139 (MQ=255)

                                                        ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGt                                  >  1:20589/1‑139 (MQ=255)

                                                        ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCACCACCGATTGt                                  >  2:519848/1‑139 (MQ=255)

                                                             ttGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgcc                                                                  <  2:395468/102‑1 (MQ=255)

                                                             ttGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgcc                                                                  >  1:395468/1‑102 (MQ=255)

                                                               gACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATcaca                           <  1:48873/139‑1 (MQ=255)

                                                               gACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATcaca                           <  2:20589/139‑1 (MQ=255)

                                                                    aaTCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                      <  1:80835/139‑1 (MQ=255)

                                                                    aaTCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                      <  2:554528/139‑1 (MQ=255)

                                                                      tCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                    <  2:377705/139‑1 (MQ=255)

                                                                      tCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                    <  1:18478/139‑1 (MQ=255)

                                                                            gggtgggGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTa              >  1:632280/1‑139 (MQ=255)

                                                                              gtgggGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTaaa            >  1:434554/1‑139 (MQ=38)

                                                                                 gggggCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAacac         >  2:166629/1‑139 (MQ=37)

                                                                                  ggggCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAAt                               >  2:325016/1‑116 (MQ=25)

                                                                                  ggggCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAAt                               <  1:325016/116‑1 (MQ=25)

                                                                                        gattg‑atCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc  <  2:62229/139‑1 (MQ=14)

                                                                                        gattg‑atCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc  <  2:632280/139‑1 (MQ=14)

                                                                                        gattg‑atCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc  >  1:206981/1‑139 (MQ=14)

TGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTG‑ATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCC  >  NC_000913/391618‑391844

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A