genome.fa.s2126.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1482737

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 903 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399041--399098	27	2.1	27	93	0	98	41	0	0	58	0.98
401082--401153	36	2.0	36	100	0	144	44	13	13	27	1.82
410401--410444	18	2.4	18	92	0	70	18	18	13	50	1.79
412882--412926	18	2.5	19	78	10	58	4	31	4	60	1.37
414440--414517	24	3.4	24	85	8	108	20	17	29	32	1.96
415901--415964	33	1.9	34	93	3	112	34	14	17	34	1.89
417876--417917	10	4.2	10	84	0	57	30	35	0	33	1.58
417876--417917	20	2.1	20	90	0	66	30	35	0	33	1.58
417932--417965	17	1.9	18	88	5	52	29	0	5	64	1.17
428878--428940	31	2.2	28	81	15	76	30	25	22	22	1.99
434638--434711	15	5.2	15	70	16	59	43	0	2	54	1.14
434620--434707	42	2.1	43	91	2	142	43	1	5	50	1.33
435071--435196	63	2.0	63	93	0	216	41	12	11	34	1.80
438752--438795	21	2.1	21	86	0	61	15	25	27	31	1.96
441751--441794	22	2.0	23	86	4	63	27	22	27	22	1.99
441771--442223	148	3.1	149	95	2	806	33	20	16	28	1.95
442323--442350	14	2.0	14	100	0	56	35	28	7	28	1.84
443718--443762	21	2.1	21	87	0	63	17	24	26	31	1.97
445243--446362	201	5.7	199	92	2	1795	30	18	14	36	1.91
447229--447253	4	6.2	4	100	0	50	48	28	0	24	1.52
448443--448508	33	2.0	33	93	0	114	22	46	0	30	1.52
448542--448606	21	3.1	21	90	0	94	18	30	7	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452428--452472	3	15.3	3	86	4	65	37	0	2	60	1.09
453572--453616	21	2.1	21	87	0	63	31	28	24	15	1.96
454201--454235	18	1.9	18	88	11	54	54	5	17	22	1.64
455215--455666	149	3.0	149	97	0	852	27	17	20	34	1.95
455645--455689	23	2.0	23	86	0	63	20	24	28	26	1.99
459429--459463	18	1.9	18	88	11	54	54	5	17	22	1.64
459520--459563	22	2.0	22	86	4	63	45	0	22	31	1.53
460448--460898	149	3.0	149	98	0	859	27	17	19	34	1.95
463994--464038	22	2.0	22	86	4	63	31	31	26	11	1.91
465372--465432	23	2.7	23	89	0	95	19	26	27	26	1.99
469147--469189	21	2.0	21	86	0	59	27	23	27	20	1.99
469216--469260	22	2.0	22	86	4	63	31	33	26	8	1.87
470568--470603	18	2.0	18	94	0	63	13	22	30	33	1.93
470465--470828	121	3.0	121	94	0	622	26	14	23	35	1.94
470685--470721	18	2.1	17	95	5	65	18	16	29	35	1.93
475534--475577	20	2.2	20	87	0	61	15	9	6	68	1.38
480543--480702	54	3.0	54	84	3	200	36	15	21	26	1.93
481067--481120	20	2.7	20	91	2	81	33	16	16	33	1.92
481814--481890	25	3.3	25	63	29	69	22	23	19	35	1.96
481803--482165	45	8.0	45	88	1	474	25	23	19	31	1.98
482097--482239	76	1.9	74	85	2	196	25	21	18	33	1.97
482173--482322	45	3.3	44	88	3	201	26	22	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482005--482330	167	1.9	168	90	1	512	27	22	18	31	1.97
482397--482452	3	19.3	3	85	7	80	37	0	1	60	1.07
491201--491243	2	21.5	2	100	0	86	48	0	0	51	1.00
491280--491384	34	3.1	34	83	0	138	20	28	21	28	1.99
493367--493434	18	3.8	18	98	1	129	23	33	26	16	1.95
497333--497457	18	6.9	18	90	0	187	26	32	21	19	1.97
501443--501550	18	6.0	18	87	0	135	27	32	21	18	1.97
505607--505687	18	4.5	18	92	0	135	29	30	20	18	1.97
506317--506350	14	2.4	14	95	0	59	38	20	8	32	1.84
510740--510795	19	3.3	19	68	31	63	26	3	3	66	1.25
510702--510828	59	2.1	58	78	9	132	30	3	3	61	1.32
510736--510833	28	3.4	28	92	5	151	28	3	3	65	1.23
514373--514500	63	2.0	64	98	1	249	30	12	18	38	1.88
515115--515543	213	2.0	213	100	0	858	30	16	31	22	1.95
518200--518315	59	1.9	59	80	1	133	18	20	36	25	1.95
520643--520695	19	2.7	19	82	2	61	37	13	15	33	1.86
531776--531861	44	2.0	44	90	9	140	41	22	10	25	1.85
531992--532354	178	2.0	176	89	7	547	42	3	8	46	1.51
532632--532729	38	2.7	37	85	9	146	31	5	14	48	1.65
532634--532735	35	2.8	36	89	5	145	31	5	12	50	1.64
535937--536019	30	2.8	30	78	5	80	60	25	9	4	1.48
546030--546130	31	3.2	31	70	22	102	26	4	7	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546028--546151	63	2.0	63	96	0	230	29	4	8	58	1.48
549477--550238	199	3.8	200	80	5	859	31	16	13	37	1.88
550239--550278	15	2.7	15	88	0	53	37	7	17	37	1.78
550549--550611	11	5.5	11	81	10	81	46	9	7	36	1.66
550535--550609	25	3.1	25	81	11	111	48	10	5	36	1.61
553276--553564	148	2.0	148	84	4	386	33	14	13	38	1.85
553419--553795	200	1.9	200	91	1	612	36	13	11	38	1.82
554060--554108	19	2.6	19	96	0	89	57	10	0	32	1.32
555889--555951	33	1.9	33	96	0	117	23	46	0	30	1.53
555985--556049	21	3.1	21	95	0	112	13	35	10	40	1.80
558417--559637	182	6.7	182	93	0	1929	27	17	14	40	1.88
563560--563594	18	1.9	19	88	11	56	57	0	0	42	0.99
563564--563609	18	2.6	17	81	15	58	54	0	2	43	1.12
563560--563643	17	5.3	15	72	17	55	57	1	1	40	1.14
563586--563633	21	2.2	22	85	7	62	54	2	2	41	1.24
563603--563738	64	2.1	62	94	4	236	55	1	0	43	1.09
563659--563738	23	3.2	25	78	19	96	55	1	0	43	1.08
563719--563764	12	3.9	12	78	21	53	67	0	0	32	0.91
563603--563762	64	2.5	64	89	6	216	57	1	0	41	1.07
566747--566792	24	1.9	24	82	8	58	54	6	0	39	1.26
567061--567135	10	7.7	10	69	21	61	58	20	12	9	1.60
567065--567129	16	4.1	16	91	0	112	58	21	12	7	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567880--567935	14	4.3	14	73	17	57	53	23	10	12	1.69
567859--567928	24	2.9	24	87	4	97	58	18	10	12	1.62
571900--571942	18	2.4	18	84	7	52	37	30	20	11	1.89
579633--579825	32	6.1	32	93	3	304	25	18	20	35	1.95
580527--580579	22	2.4	21	84	6	61	28	20	28	22	1.99
587773--587802	14	2.2	14	94	5	53	30	0	6	63	1.20
593946--593986	2	22.0	2	80	14	52	48	0	0	51	1.00
594012--594465	38	12.4	37	76	12	281	44	3	6	45	1.47
594012--594362	75	4.6	77	82	9	391	44	3	6	45	1.46
594012--594360	38	9.1	38	83	8	374	44	3	6	45	1.46
594462--594527	24	2.9	24	80	8	68	22	1	3	72	1.06
594470--594527	4	14.5	4	82	13	75	20	1	1	75	0.97
595811--595845	13	2.7	13	86	0	52	20	2	2	74	1.08
595865--595901	14	2.8	14	92	8	60	21	8	0	70	1.13
595865--595910	15	3.3	14	85	14	60	19	8	0	71	1.11
601194--601799	84	7.3	81	76	6	527	29	24	21	24	1.99
601208--601799	165	3.6	164	87	1	817	29	25	21	24	1.99
602325--602365	2	22.0	2	80	14	52	48	0	0	51	1.00
602319--602350	15	2.2	14	94	5	55	37	0	0	62	0.95
602391--602786	37	11.0	36	75	13	250	43	4	6	45	1.48
602391--602769	75	5.2	74	77	14	262	43	3	6	45	1.47
602391--602731	38	9.2	36	75	19	212	44	3	6	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602689--602823	29	4.3	30	71	16	96	44	3	5	45	1.45
602824--602869	23	2.0	24	86	4	67	23	2	4	69	1.17
602832--602884	4	13.5	4	81	18	67	20	1	1	75	0.99
604109--604185	4	18.8	4	74	10	66	19	3	2	74	1.10
604197--604228	12	2.6	13	90	9	50	25	9	0	65	1.22
604351--604380	12	2.5	12	94	0	51	40	3	0	56	1.16
608328--608587	55	5.0	51	79	12	219	48	4	7	39	1.53
608382--608588	51	4.0	50	80	11	188	50	4	7	37	1.52
608328--608587	54	5.0	49	80	11	234	48	4	7	39	1.53
608526--608676	69	2.2	68	98	1	293	56	3	6	32	1.43

Tables:   1   2   3   4   5   6   7   8