genome.fa.s4578.2.7.7.80.10.50.1000.4.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: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248949

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 816 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)
552276--552328	23	2.2	24	83	9	65	30	0	5	64	1.17
553261--553291	16	1.9	16	93	0	53	35	25	19	19	1.95
555655--555714	20	3.0	20	80	4	77	35	10	18	36	1.84
556141--556181	22	1.9	21	90	5	64	26	29	21	21	1.99
557214--557334	44	2.8	42	71	17	104	44	3	1	50	1.28
557255--557536	146	1.9	146	85	5	388	39	5	7	47	1.54
557303--557580	146	1.9	146	82	6	352	39	5	7	47	1.54
558615--558702	46	1.9	46	86	4	124	38	13	20	27	1.90
565583--565723	75	1.9	75	91	2	230	33	16	21	29	1.95
566658--566791	54	2.5	54	74	9	146	43	15	17	23	1.87
567189--567243	22	2.5	22	87	0	74	34	16	12	36	1.87
567987--568042	21	2.7	21	77	8	60	35	23	21	19	1.96
567909--568409	118	4.3	118	89	0	763	30	19	20	29	1.97
569726--569766	19	2.1	20	86	13	59	34	0	4	60	1.18
569823--569851	14	2.1	14	100	0	58	31	0	0	68	0.89
569809--569869	24	2.7	23	78	14	65	31	1	1	65	1.12
569940--570248	146	2.2	142	83	11	357	38	8	6	46	1.58
571969--572007	20	1.9	21	84	5	53	43	7	12	35	1.72
575849--575924	31	2.4	31	77	2	80	15	26	30	27	1.96
581133--581207	30	2.5	30	100	0	150	44	2	12	41	1.55
587271--587306	18	2.0	18	89	10	56	25	33	22	19	1.97
587353--587392	19	2.1	19	100	0	80	32	15	20	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587806--587855	25	2.0	25	92	0	82	24	22	10	44	1.83
591387--591432	18	2.6	18	78	0	56	28	21	19	30	1.98
593310--593340	15	2.1	15	93	0	53	54	0	0	45	0.99
593552--593580	12	2.3	13	94	5	51	48	6	0	44	1.29
597167--597215	16	3.0	16	74	14	55	44	8	12	34	1.71
598240--598627	93	4.2	93	79	5	410	20	34	19	25	1.96
598270--598608	186	1.8	186	89	2	529	21	35	18	24	1.96
602936--602975	14	2.9	14	80	0	53	20	0	25	55	1.44
605777--605809	14	2.4	14	90	10	50	57	6	12	24	1.57
606956--607022	30	2.2	30	87	10	93	28	0	0	71	0.86
606956--607025	9	7.4	9	73	13	52	27	0	0	72	0.84
606964--607022	27	2.1	27	87	9	84	28	0	0	71	0.87
610436--610496	26	2.3	26	78	10	79	40	16	21	21	1.91
610745--610789	20	2.2	22	88	11	69	37	0	0	62	0.96
610734--610797	26	2.6	23	79	16	65	34	0	0	65	0.93
613054--613086	16	2.1	16	94	0	57	42	9	27	21	1.83
613794--613831	19	2.0	20	89	5	60	18	10	34	36	1.85
613851--613916	34	1.9	34	87	0	96	48	7	28	15	1.72
614013--614160	40	3.7	40	82	5	122	57	13	3	25	1.52
614094--614161	20	3.4	19	71	17	57	60	13	1	25	1.42
617718--617743	12	2.2	12	100	0	52	34	7	7	50	1.60
620052--620110	23	2.8	21	82	7	66	47	13	15	23	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625067--625097	15	2.1	15	93	0	53	67	3	16	12	1.35
625057--625103	24	2.0	24	83	4	60	65	2	21	10	1.33
629805--629866	20	3.0	21	74	6	63	22	12	16	48	1.80
630382--630428	23	2.0	23	87	0	67	36	8	2	53	1.44
634894--634923	15	2.0	15	100	0	60	33	20	6	40	1.78
638719--638774	23	2.5	22	76	2	58	35	17	5	41	1.73
638897--638941	15	2.9	16	80	9	58	22	6	6	64	1.41
640382--640450	33	2.1	33	88	0	102	40	5	21	31	1.77
642011--642077	33	2.0	33	91	0	107	34	7	23	34	1.83
641397--643197	477	3.9	455	78	9	1509	30	17	17	33	1.94
641823--643428	477	3.4	466	78	8	1573	29	17	18	34	1.94
643030--643867	430	1.9	429	82	5	1030	30	17	17	34	1.93
645113--645363	49	5.2	48	81	4	170	35	27	15	21	1.94
645113--645250	48	2.9	48	82	2	161	34	28	15	21	1.94
645113--645350	95	2.5	96	79	6	232	36	27	14	21	1.93
646039--646068	11	2.7	11	94	0	51	30	10	6	53	1.60
648747--648776	2	15.0	2	100	0	60	50	0	0	50	1.00
655962--656044	38	2.2	37	83	10	98	45	8	3	42	1.52
655754--656610	429	2.0	430	86	4	1201	46	12	8	32	1.73
657920--658057	47	3.0	47	83	9	183	35	11	14	38	1.82
662786--662980	2	101.5	2	79	13	205	45	2	3	48	1.33
672512--672567	21	2.6	22	72	16	55	37	5	16	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672619--672664	8	5.2	10	73	26	50	56	0	0	43	0.99
672619--672665	5	9.0	5	97	2	76	57	0	0	42	0.98
672796--672863	15	4.7	15	70	14	52	54	1	7	36	1.37
673604--673707	50	2.1	50	100	0	208	45	1	9	43	1.48
673888--673918	16	1.9	16	93	0	53	35	16	22	25	1.94
682875--682931	29	1.9	30	85	3	80	47	14	21	17	1.82
684173--684206	9	3.8	9	88	11	52	76	0	2	20	0.92
684172--684206	13	2.6	13	90	4	52	77	0	2	20	0.90
684259--684303	2	22.5	2	100	0	90	51	0	0	48	1.00
684694--684750	2	28.5	2	96	0	105	50	1	0	47	1.11
684748--684789	17	2.5	17	84	3	59	66	2	4	26	1.23
686459--686510	21	2.4	21	84	9	61	9	21	0	69	1.17
686499--686533	18	2.0	18	88	5	54	11	11	5	71	1.30
689171--690283	106	10.5	106	90	3	1596	33	24	18	22	1.97
689175--690283	214	5.2	212	89	2	1615	33	24	18	22	1.97
689171--690283	320	3.5	317	88	2	1592	33	24	18	22	1.97
690461--690615	84	1.8	84	87	0	229	31	25	19	23	1.98
690764--690867	37	2.8	37	94	2	174	42	16	10	30	1.82
692335--692370	13	2.8	13	91	0	54	5	16	2	75	1.12
692405--692452	23	2.1	23	88	7	71	12	8	0	79	0.94
692428--692505	30	2.6	29	72	23	81	14	10	0	75	1.04
692560--692592	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699651--699714	31	2.1	30	94	2	110	9	14	39	37	1.78
700404--700545	47	3.0	47	92	1	232	28	18	23	29	1.98
700567--701816	249	5.0	249	93	0	2112	35	17	16	30	1.92
701672--701753	42	1.9	43	82	2	103	37	20	19	21	1.94
704983--705048	7	9.9	7	77	19	61	9	18	0	72	1.10
704975--705048	27	2.9	27	94	6	127	8	17	0	74	1.05
704980--705048	20	3.5	20	82	11	88	8	17	0	73	1.07
708836--708865	15	2.0	15	93	0	51	0	16	6	76	0.99
709334--709448	3	39.3	3	89	3	173	64	0	0	34	1.00
709698--709855	61	2.6	61	96	0	289	27	22	9	39	1.85
709805--710364	113	4.9	113	95	0	960	29	19	14	37	1.91
710942--711158	85	2.6	83	91	2	362	35	23	13	26	1.93
711109--712314	52	23.2	52	96	1	2215	36	24	15	23	1.94
713105--713141	16	2.3	16	90	9	58	54	5	8	32	1.53
726018--726138	3	40.7	3	89	1	190	64	0	0	34	1.00
729242--729299	23	2.5	23	81	13	66	72	3	0	24	1.00
735096--735212	3	39.7	3	75	16	86	32	3	0	63	1.17
737725--738396	138	4.8	136	81	6	697	30	12	14	41	1.83
737809--738462	276	2.4	276	80	7	616	30	12	14	42	1.83
746896--746963	23	3.0	23	86	0	91	17	25	26	30	1.97
753775--753844	23	3.0	23	91	0	113	17	24	27	31	1.97
754974--755024	9	6.2	9	78	17	58	19	17	1	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
757885--757947	6	10.2	6	75	21	51	80	1	12	4	0.93
757877--757947	20	3.6	18	80	17	63	80	1	12	5	0.95
757874--757947	11	6.2	11	75	18	51	79	1	13	5	0.96
757888--757947	12	4.8	12	82	10	59	81	1	11	5	0.91
757874--757947	7	10.0	7	70	21	53	79	1	13	5	0.96
759335--760000	54	12.3	54	89	1	951	31	18	20	28	1.97
760138--760387	81	3.1	81	87	1	385	38	11	23	26	1.89
761613--761801	104	1.8	104	83	2	254	40	15	11	32	1.83
762044--762094	3	16.7	3	82	11	59	31	1	1	64	1.15
764234--765390	140	8.4	137	82	4	1128	30	12	13	43	1.81

Tables:   1   2   3   4   5   6   7