Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	43 [0]	[0] 43	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	42 (0.950)	41/262	0.1	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATC  >  NC_000913/3815801‑3816079                                                                                                                                             |                                                                                                                                           acctgcttgctaagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgcctccttctgcCGt                                                                                                                                          >  1:17111‑M2/141‑143 (MQ=255)   ctgcttgctaagcgcaaattcaataaactggcgctgatatggttacatgccttcgctcctcatcttacttttctacagacaaaaaagaggcgactcatcagtcgccttaaaaatcaggttgccagcgccgcctactgcCGTcc                                                                                                                                        >  2:691810‑M2/139‑143 (MQ=255)    cgcttgctaagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaacaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTccc                                                                                                                                       <  1:448060‑M2/6‑1 (MQ=255)           taagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACt                                                                                                                                <  1:601349‑M2/13‑1 (MQ=255)              gcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCCCTtcc                                                                                                                             >  1:4547‑M2/128‑142 (MQ=255)                    attcaataaactggcgctgatctggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAatgatg                                                                                                                       <  2:126316‑M2/22‑1 (MQ=255)                       caataacctggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATgcgc                                                                                                                    <  2:754720‑M2/25‑1 (MQ=255)                        aataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGcc                                                                                                                   >  1:705748‑M2/118‑143 (MQ=255)                         ataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCACTTATGCgcct                                                                                                                  >  1:205608‑M2/117‑142 (MQ=255)                                ggcgctgatatggtttcatgccttcgctcctcatcttactttcatacagacaaaaaaaaggcgactcgtcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCg                                                                                                           <  1:539043‑M2/34‑1 (MQ=255)                                     ttatatggtttcatggcttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtcat                                                                                                      <  2:33949‑M2/39‑1 (MQ=255)                                       atatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCCGtcatca                                                                                                    >  2:79274‑M2/103‑143 (MQ=255)                                              ttcatcccttcgctcctcatcttacttttctacagacaaaaaaaaggccactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGtt                                                                                             <  2:332005‑M2/48‑1 (MQ=255)                                                   gccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGt                                                                                        >  2:167230‑M2/91‑143 (MQ=255)                                                    ccttcgctcctcatcttacttttctacagacaaaaaaaaggcgtctcatcaggcgctttaaaagtccgtgtgccagcaccgccttcggcCGGCCCCGGCACTTCAATGTGGCGCCCGTCTTCGGTCATCACTACGTTCATGTc                                                                                       <  1:839139‑M2/54‑1 (MQ=255)                                                     cttctctccccatcttgcttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCg                                                                                      <  1:391272‑M2/55‑1 (MQ=255)                                                         gctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtct                                                                                  >  1:298830‑M2/85‑143 (MQ=255)                                                           tcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTctct                                                                                >  1:569903‑M2/83‑143 (MQ=255)                                                            cctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTGCGTTCATGTCGGTCTCTg                                                                               >  1:160055‑M2/82‑143 (MQ=255)                                                            cctcatcttacttctctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTg                                                                               <  2:759421‑M2/62‑1 (MQ=255)                                                             ctcatccgactcttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGTTGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGc                                                                              <  1:517563‑M2/63‑1 (MQ=255)                                                              tcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCg                                                                             <  2:69855‑M2/64‑1 (MQ=255)                                                                atcttacttttgtacagacacaaacaaggcggctcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCGGTCTTCGGTCATCACTACGTTCATGTCGGTGTCTGCGGc                                                                           <  2:312145‑M2/66‑1 (MQ=255)                                                                            tacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAAc                                                               >  1:406125‑M2/66‑143 (MQ=255)                                                                            tacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAAc                                                               <  1:852604‑M2/78‑1 (MQ=255)                                                                               agacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGGCTTCGGTCATCACTACGTTCATGTCGGGCTCTGCGGCCGAGTCTTCAACGTa                                                            >  1:654458‑M2/63‑143 (MQ=255)                                                                                gacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTAt                                                           >  1:284907‑M2/62‑143 (MQ=255)                                                                                    aaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGCTGCGCCCGGCGTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCCACGTATTCCa                                                       >  1:197136‑M2/58‑143 (MQ=255)                                                                                     aaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAg                                                      >  1:691560‑M2/57‑143 (MQ=255)                                                                                      aaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGGACTTCAATGATGCGCCCGTCTTCGGTCATCACTGAGTTCATGTCGGTCTCTAAGGCAGAGCCTGCAACGTCTTCCAGa                                                     >  2:274207‑M2/56‑143 (MQ=255)                                                                                                 tcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCGGAGTCTTCAACGTATTCCAGATCGCCAACCGc                                          >  1:783970‑M2/45‑143 (MQ=255)                                                                                                    tcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCGAAGCGCTTc                                       >  2:154881‑M2/42‑143 (MQ=255)                                                                                                     cagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCg                                      >  2:155868‑M2/41‑143 (MQ=255)                                                                                                      agtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGc                                     >  1:288741‑M2/40‑143 (MQ=255)                                                                                                        tcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCCTCACTTGGTTCACCCCCCTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCg                                   >  1:397817‑M2/38‑143 (MQ=255)                                                                                                        tcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTGCGGTCATCACTACGTTCATGTCGGTCTCTGCGACAGAGTGTTCCACGTATTCCAGATAGCAACCCGCGTCGCCg                                   >  2:460530‑M2/38‑143 (MQ=255)                                                                                                          gccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGCGCCTTCAACGCATTCCAGCTCGCAAACCGCTGCGCCgtc                                 >  2:638307‑M2/36‑142 (MQ=255)                                                                                                                 aaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCAAGCCGACCCGTTCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAAtt                          >  1:629545‑M2/29‑143 (MQ=255)                                                                                                                       gtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCCACGTATTCCATATCGCAAACCGCTTCGCCGCTCACAATTCCGACa                    >  2:389533‑M2/23‑143 (MQ=255)                                                                                                                       gtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACa                    <  1:185496‑M2/121‑1 (MQ=255)                                                                                                                              agcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCACAAACCGCTTAGCCGTTAACAATTCCGACAGAAACTg             >  1:522520‑M2/16‑143 (MQ=255)                                                                                                                                cgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTCCg           >  1:693107‑M2/14‑143 (MQ=255)                                                                                                                                         ctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATc  <  1:603589‑M2/139‑1 (MQ=255)                                                                                                                                             |                                                                                                                                           AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATC  >  NC_000913/3815801‑3816079

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑