genome.fa.s8436.2.7.7.80.10.50.1000.3.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: VEPZ01008436.1 Hibiscus syriacus cultivar Beakdansim tig00111234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1066897

Tables:   1   2   3   4   

This is table  3  of  4  ( 431 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)
628576--628614	15	2.5	15	87	4	51	58	12	17	10	1.61
629999--630037	5	7.4	5	88	11	60	74	0	23	2	0.94
629996--630037	15	2.6	17	85	14	70	71	0	23	4	1.05
631313--631390	37	2.2	37	81	9	90	65	1	8	24	1.29
631347--631384	20	1.9	20	88	0	58	63	2	7	26	1.35
631841--631933	37	2.5	37	87	0	123	30	13	12	43	1.82
635089--635137	8	6.4	8	79	9	57	34	0	14	51	1.43
635085--635133	10	4.9	10	84	0	53	36	0	12	51	1.40
635085--635137	14	3.6	14	85	9	70	35	0	13	50	1.41
635085--635129	16	2.9	16	90	6	67	37	0	11	51	1.38
640929--640957	15	2.0	15	93	6	51	41	0	0	58	0.98
643558--644091	265	2.0	264	98	0	1041	42	13	7	37	1.72
644436--644488	26	2.0	27	81	3	63	43	1	0	54	1.11
644468--644501	16	2.1	17	88	5	52	61	0	0	38	0.96
646110--646139	2	15.0	2	100	0	60	0	50	0	50	1.00
647249--647288	17	2.3	18	87	12	57	62	5	30	2	1.29
647341--647405	2	32.5	2	100	0	130	50	0	0	49	1.00
647405--647437	2	16.5	2	100	0	66	51	0	48	0	1.00
663505--663570	24	2.8	24	83	0	78	54	19	12	13	1.70
663662--663711	17	3.0	16	72	11	55	34	0	20	46	1.51
663757--663807	24	2.1	24	88	0	75	66	13	3	15	1.39
667666--667885	109	2.0	109	98	0	422	29	17	13	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684396--684442	2	23.5	2	95	0	85	51	0	2	46	1.13
704391--704419	13	2.2	13	100	0	58	41	17	20	20	1.90
710666--710978	157	2.0	158	96	3	589	39	17	14	28	1.89
712938--713050	60	1.9	60	83	3	147	48	5	15	30	1.67
713284--713352	32	2.2	32	89	0	102	42	18	7	31	1.78
713343--713439	5	19.4	5	100	0	194	60	0	0	39	0.97
717493--717528	5	7.0	5	96	3	63	41	0	0	58	0.98
719411--719449	2	20.0	2	94	5	71	48	0	0	51	1.00
719434--719734	150	2.0	153	86	5	423	46	6	4	41	1.52
721860--721919	30	2.0	30	100	0	120	26	6	30	36	1.82
728262--728290	12	2.5	12	94	5	51	62	0	0	37	0.96
734542--734566	12	2.1	12	100	0	50	40	0	60	0	0.97
750214--750262	3	16.3	3	100	0	98	67	0	0	32	0.91
751747--751775	2	14.5	2	100	0	58	51	0	0	48	1.00
751779--751807	2	14.5	2	100	0	58	51	0	48	0	1.00
754107--754859	340	2.2	340	86	3	1053	31	13	22	32	1.92
754664--755250	195	3.0	195	91	0	886	32	13	23	31	1.93
762991--763104	45	2.5	45	92	0	183	20	10	12	57	1.64
764108--764189	34	2.6	31	71	26	73	46	1	4	47	1.31
767151--767191	21	2.0	21	90	0	64	26	26	21	24	2.00
769370--769462	20	4.6	20	85	2	114	44	20	21	13	1.86
769470--769584	20	5.7	19	75	11	68	33	23	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
769752--769795	22	2.0	22	95	0	79	20	45	15	18	1.85
770058--770116	20	3.0	20	82	0	64	16	16	22	44	1.87
771436--771480	18	2.5	18	88	0	72	26	44	15	13	1.83
771956--772001	20	2.3	20	88	0	65	36	26	21	15	1.93
771967--772025	19	3.1	19	85	2	73	38	20	23	16	1.92
772044--772099	20	2.8	19	86	7	76	16	25	23	35	1.94
773963--773998	14	2.6	14	90	0	54	30	0	22	47	1.52
774115--774163	19	2.6	19	93	0	89	48	14	20	16	1.80
774201--774238	20	1.9	20	88	0	58	18	21	21	39	1.93
775288--775341	24	2.2	24	86	0	72	25	16	18	38	1.92
777775--777905	19	7.7	19	64	23	85	43	17	22	16	1.88
777775--777901	33	3.9	32	82	8	166	43	17	22	17	1.88
777780--777908	66	2.0	66	92	3	215	43	16	21	18	1.88
778083--778119	14	2.6	14	91	0	65	45	24	0	29	1.53
779476--779678	42	4.8	41	75	9	167	23	17	36	22	1.95
779507--779678	84	2.0	84	98	0	335	23	16	37	22	1.93
779898--780084	91	2.0	90	88	6	277	47	17	12	22	1.81
780251--780381	63	2.1	63	98	0	253	24	36	18	20	1.95
781834--781954	19	6.8	19	70	19	100	45	18	23	13	1.84
781833--781954	33	3.5	36	86	6	130	45	18	22	13	1.85
781859--781954	33	2.9	33	93	0	156	43	19	23	12	1.85
781882--781937	14	3.6	14	74	21	58	42	23	25	8	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
781949--781999	19	2.7	19	78	0	57	11	17	23	47	1.81
782552--782604	20	2.7	20	81	0	70	30	20	24	24	1.99
782617--782666	20	2.5	20	93	0	82	26	18	24	32	1.97
782554--782687	61	2.2	61	77	6	137	23	19	22	34	1.97
782737--782777	21	2.0	21	85	0	55	34	31	17	17	1.93
788145--788179	2	18.0	2	94	5	63	48	0	0	51	1.00
798840--798914	32	2.3	32	97	0	141	16	10	20	53	1.72
806312--806388	31	2.5	31	78	2	82	15	27	29	27	1.96
811054--811086	17	1.9	17	88	11	50	39	0	18	42	1.50
811197--811276	29	2.9	28	90	3	126	47	16	8	27	1.76
811199--811290	29	3.2	28	82	15	118	45	17	9	27	1.79
812025--812061	17	2.2	18	85	9	51	27	2	2	67	1.17
812384--812430	23	2.0	23	91	0	76	14	12	17	55	1.70
812596--812650	24	2.3	24	83	0	65	7	18	20	54	1.66
813318--813375	29	2.0	29	86	0	80	13	34	27	24	1.93
813415--813485	10	6.7	10	76	23	65	25	36	26	11	1.90
813435--813485	20	2.5	20	96	0	93	25	33	29	11	1.91
813494--813546	23	2.3	24	87	9	83	28	24	35	11	1.90
813566--813649	29	2.9	29	90	0	132	21	29	34	14	1.93
825590--825629	19	2.1	19	95	0	71	47	10	0	42	1.37
826175--826211	19	1.9	19	88	0	56	56	5	0	37	1.22
830292--830347	3	17.3	3	89	10	76	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
836214--836686	153	3.0	158	90	4	773	36	23	8	31	1.85
837093--837217	50	2.5	49	83	6	153	19	28	35	17	1.94
843534--843575	18	2.3	18	95	0	75	30	14	19	35	1.91
843755--843797	18	2.4	18	88	0	59	51	0	0	48	1.00
846957--846985	14	2.1	14	100	0	58	41	0	13	44	1.44
852779--852817	19	2.1	19	95	0	69	12	17	0	69	1.19
854337--854409	25	3.0	24	72	21	62	43	2	1	52	1.24
866070--866156	35	2.5	34	78	12	88	55	10	6	27	1.59
868438--868486	8	5.8	9	72	13	50	63	0	2	34	1.06
868435--868486	16	3.1	17	83	10	63	65	0	1	32	1.04
869242--869272	16	1.9	16	93	0	53	45	0	3	51	1.17
870220--870269	18	2.7	18	81	3	64	40	2	0	58	1.10
870263--870303	18	2.3	19	79	8	50	48	2	0	48	1.14
870641--870689	20	2.5	20	89	0	71	42	20	10	26	1.84
881968--882054	35	2.5	34	78	12	88	55	10	6	27	1.59
884349--884397	8	5.8	9	72	13	50	63	0	2	34	1.06
884346--884397	16	3.1	17	83	10	63	65	0	1	32	1.04
885149--885179	16	1.9	16	93	0	53	45	0	3	51	1.17
886168--886208	18	2.3	19	79	8	50	48	2	0	48	1.14
886543--886592	20	2.5	20	93	0	82	42	18	14	26	1.87
911032--911089	24	2.4	24	85	0	71	39	13	44	1	1.54
911050--911184	12	11.2	12	67	21	70	39	13	47	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
911118--911176	30	2.0	30	86	0	82	38	13	47	0	1.43
911134--911184	21	2.4	21	90	0	75	37	11	50	0	1.39
914739--914767	15	1.9	15	100	0	58	34	0	10	55	1.34
914752--914812	24	2.8	21	76	13	59	39	0	8	52	1.31
914758--914854	11	8.3	11	70	17	52	40	2	9	48	1.47
914783--914891	21	5.3	22	68	21	67	40	3	7	48	1.49
914730--914891	59	2.7	59	93	0	261	39	2	8	50	1.45
914915--915167	124	2.0	125	90	2	402	45	13	11	29	1.80
915235--915274	21	1.9	21	85	10	55	25	0	25	50	1.50
915649--915754	21	5.2	21	68	14	62	49	7	2	40	1.46

Tables:   1   2   3   4