New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 1469240	NA (NA)	52 (1.070)	44/282	0.2	96.3%	intergenic (‑91/‑1)	insC1/ydbA	IS2 repressor TnpA/pseudogene, autotransporter homolog; interrupted by IS2 and IS30
	?	NC_000913_3_hsa_tpiA	= 1596355	2 (0.040)					pseudogene (1633/3861 nt)	yneO	pseudogene, AidA homolog

GATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1469093‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACGTTAACCCTGACGAATAACGGTACGCTGAATGTCGAAG  <  NC_000913_3_hsa_tpiA/1596355‑1596208                                                                                                                                                                                                                                                                                                          GATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAG                                                                                                                                                     >  2:459098/1‑149  ATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCCATAATCTGTTGTTCATTGTCTAGTCAAAAAACTAGTATTAAGACTATCAATTATTTTGCTGATATTGGTTTTCTGGAGATTCGGGGGGCCGGTCTAGA                                                                                                                                                    >  1:624810/1‑149  ATCTTTTCCTGTGTGGTACGCCGACTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTACAAACTAGTCTTAAGATTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGA                                                                                                                                                    <  1:713280/149‑1    CTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATATGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCCCTTATTTAAGTGATATTGGTTATCTGGAGATTCAGGGGGCCAGTCTAGATA                                                                                                                                                  >  1:664745/1‑149     TTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATAC                                                                                                                                                 >  1:688311/1‑149             TGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAG                                                                                                                                         >  1:240025/1‑149              GTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGAGGCCAGTCTAAATCCACAGATAGC                                                                                                                                        >  2:656002/1‑149               TGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACA                                                                                                                                                <  1:87950/140‑1               TGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACA                                                                                                                                                >  2:87950/1‑140                 GTACGCCGGCTGCGTTTCTCCTGCCCTAAGACATCAATTCTCTGTCCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCT                                                                                                                                     <  1:53092/149‑1                     GCCGTCGGCGTTTCCCCGTCCCTAACACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAAT                                                                                                                                 <  1:392073/149‑1                         TCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCACTGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTTATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACc                                                                                                                             >  2:420983/1‑148                           TGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACAATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGACAGTCTAGATACACAGATGGCTCTCGATGACAAA                                                                                                                           >  1:769853/1‑149                                   TCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGG                                                                                                                   <  1:749801/149‑1                                       GCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGAC                                                                                                               >  2:58107/1‑149                                         CCTAAGACATCAATCATCTGTTCTCCAATTACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGT                                                                                                             <  2:549245/149‑1                                           TAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGA                                                                                                           <  1:261402/149‑1                                            AAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACACAAGTAAGGGCGACGTGAG                                                                                                          >  1:292348/1‑149                                             AGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATCTTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGG                                                                                                         >  1:256018/1‑149                                                 ATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAG                                                                                                                                                     <  1:69839/101‑1                                                 ATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAG                                                                                                                                                     >  2:69839/1‑101                                                    AATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATG                                                                                                  >  1:20225/1‑149                                                    AATCATCTGTTCCCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATG                                                                                                  <  1:727033/149‑1                                                      TCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGA                                                                                                    <  1:112093/145‑1                                                      TCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGA                                                                                                    >  2:574156/1‑145                                                      TCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGA                                                                                                    >  2:112093/1‑145                                                      TCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGA                                                                                                    <  1:574156/145‑1                                                        ATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATGCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCA                                                                                              <  1:174447/149‑1                                                           TGTTCTCCAATGACTAGTCGAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGATCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAA                                                                                           >  2:713116/1‑149                                                                   AATGAGTAGTCTCAAAGCTCTTGTTAAGACTATCACTTAGTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTC                                                                                   >  2:712126/1‑149                                                                              TAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTC                                                                        >  1:256733/1‑149                                                                              TAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTC                                                                        <  1:656002/149‑1                                                                              TAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGGGGATGGGCAGAACTCTCTTCTTGAAACATTC                                                                        >  2:258357/1‑149                                                                              TAAAAACTAGGAATAAGACTATCACTTATTTAAGTGATATTGGTTGTCGGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTC                                                                        <  1:744548/149‑1                                                                                AAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGAGTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAA                                                                      <  2:662070/149‑1                                                                                AAAACTAGTATTAAGACTATCACGTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGCTAGCTCTCTATGACATAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAA                                                                      <  1:713116/149‑1                                                                                 AAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGCGCCGGTGTAGATACACAGATAGCGCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAAT                                                                     <  1:198677/149‑1                                                                                   ACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACCTTCAATAT                                                                   >  2:551992/1‑149                                                                                    CTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATG                                                                  >  2:110312/1‑149                                                                                          TTAAGACTATCACTTATTTAAGTGCTAGTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACACTCAATATGTACGTA                                                            <  2:600921/149‑1                                                                                                 TATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACAT                                                     <  2:624810/149‑1                                                                                                 TATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGAAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACAT                                                     >  1:448997/1‑149                                                                                                  ATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATC                                                    <  2:448997/149‑1                                                                                                     ACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTCGGGACATCTGG                                                 >  2:551258/1‑149                                                                                                       ttgTTTAAGTGATATTGGTTGTCTGGATATTCAGGGGGCCAGTCTAGATACATAGATAGCTCTCAATGATAAAAGTAAGGGCGACGTGAGGGTGGATGTGCAGAACTCTTTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTA                                               <  2:618216/146‑1                                                                                                              AGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTAC                                        >  2:457666/1‑149                                                                                                               GTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACG                                       >  1:77536/1‑149                                                                                                                       GGTTGTCTGGAGATTCGGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACGTTAACCCT                               >  2:151283/1‑149                                                                                                                         TTGGCTGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACGTTAACCCTGA                             <  1:594918/149‑1                                                                                                                              TGGAGATTCAGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACGTTAACCCTGACGAAT                        >  2:724045/1‑149                                                                                                                                       AGGGGGCCAGTCTAGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCCCGTCTTGAAACATTCCATATGTACGTAGGGACATCTGGTACGGGTACGTCAACCCTGACGAATAACGGTACG               >  2:713994/1‑149                                                                                                                                                    AGATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGGGGATGTGCACAACTCTCTTCTTGAAACATCCAATATGTACGTAGGGCCATCTGGTACAGGTACGTTAACCCTGACGAATAACGGTACGCCGAATGTCGAAt  >  2:501518/1‑148                                                                                                                                                                                                                                                                                                          GATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1469093‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GATACACAGATAGCTCTCAATGACAAAAGTAAGGGCGACGTGAGGGTGGATGGGCAGAACTCTCTTCTTGAAACATTCAATATGTACGTAGGGACATCTGGTACGGGTACGTTAACCCTGACGAATAACGGTACGCTGAATGTCGAAG  <  NC_000913_3_hsa_tpiA/1596355‑1596208

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.