genome.fa.s8802.2.7.7.80.10.50.1000.3.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: VEPZ01008802.1 Hibiscus syriacus cultivar Beakdansim tig00111952_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1147353

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 641 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)
532614--532657	20	2.2	20	95	0	79	29	18	18	34	1.94
533405--533461	25	2.3	24	80	14	64	45	1	3	49	1.29
538565--538605	21	2.0	21	85	9	57	24	29	12	34	1.91
541601--541640	21	1.9	21	89	0	62	32	20	12	35	1.90
543582--543683	31	3.3	31	81	8	109	42	17	13	26	1.87
543623--543694	31	2.3	30	81	6	99	40	19	15	25	1.90
543720--543756	18	2.1	18	94	0	65	56	16	0	27	1.40
543911--544048	68	2.0	68	91	0	222	28	19	13	38	1.90
545455--545702	67	3.7	66	83	2	300	32	26	15	26	1.95
554364--554430	22	3.1	20	76	16	71	50	1	0	47	1.10
554385--554418	17	2.1	16	89	10	52	50	2	0	47	1.16
557873--557947	31	2.4	31	84	0	105	29	12	10	48	1.74
558307--558429	36	3.2	41	62	19	109	34	11	4	49	1.58
558278--558427	75	2.0	75	100	0	300	37	12	5	45	1.64
558439--558509	27	2.5	28	80	15	76	38	4	0	57	1.18
558444--558499	27	2.2	26	87	9	80	39	5	0	55	1.23
560918--561015	25	3.9	25	73	16	69	40	1	2	56	1.18
560948--561003	23	2.4	23	80	8	69	44	0	0	55	0.99
576689--576818	65	2.0	65	96	3	244	10	21	12	55	1.67
577290--577329	3	13.3	3	94	0	71	70	0	0	30	0.88
586148--586311	82	2.0	82	100	0	328	37	14	12	35	1.84
586943--587005	29	2.3	26	81	8	63	36	19	3	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591068--591111	23	1.9	23	85	0	61	25	22	20	31	1.98
591335--591401	34	2.0	33	88	2	98	50	16	8	23	1.73
591487--591577	30	2.9	30	91	4	137	40	16	14	28	1.87
592144--592168	13	1.9	13	100	0	50	40	36	0	24	1.55
601375--601430	27	2.0	28	82	3	69	30	1	5	62	1.28
607924--608116	37	5.4	37	72	9	159	30	17	9	41	1.82
608048--608138	37	2.5	37	79	0	110	26	20	13	39	1.89
608253--608361	36	3.0	36	83	1	128	27	22	12	36	1.91
608580--608727	52	2.8	52	82	4	172	35	10	14	39	1.81
608580--608702	51	2.4	53	84	2	160	36	11	14	37	1.82
608864--608932	22	3.2	22	71	8	70	26	15	26	31	1.96
608869--608989	42	2.9	42	75	6	129	25	16	23	34	1.95
609960--610351	139	2.8	138	87	1	552	37	16	19	26	1.93
610118--610180	20	3.2	20	66	28	53	46	11	17	25	1.81
611675--611730	27	2.0	28	82	3	69	30	1	5	62	1.28
614155--614266	37	3.0	37	93	0	179	41	10	11	36	1.76
614786--614825	20	2.0	20	85	0	53	40	2	0	57	1.12
614894--614927	2	17.0	2	100	0	68	50	0	0	50	1.00
615064--615097	13	2.6	13	90	0	50	14	8	0	76	1.01
615171--615200	15	1.9	16	93	6	53	16	16	0	66	1.25
630872--630962	30	3.1	29	78	7	94	42	4	16	36	1.68
642199--642238	19	2.1	19	100	0	80	35	10	20	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642958--643005	18	2.7	18	96	0	87	58	6	20	14	1.58
643996--644041	18	2.8	16	84	12	65	30	13	13	43	1.81
643996--644044	16	2.9	16	85	11	71	28	12	16	42	1.84
645667--646131	215	2.2	216	88	1	675	35	20	17	26	1.95
645667--646121	54	8.4	54	87	2	637	35	20	17	26	1.95
645667--646180	54	9.5	54	85	3	495	34	20	17	26	1.95
649293--649351	29	2.0	29	93	0	100	27	23	5	44	1.74
649661--650028	79	4.7	79	85	2	456	29	21	12	36	1.91
649787--649998	34	5.6	34	70	22	127	28	20	12	38	1.89
649661--650028	158	2.3	158	87	2	517	29	21	12	36	1.91
650471--650602	61	2.2	60	87	1	183	24	28	15	31	1.96
650471--650584	22	5.6	20	71	10	86	25	28	15	29	1.96
655109--655146	20	1.9	20	88	0	58	15	26	36	21	1.93
655086--655146	21	3.0	20	78	7	61	14	24	37	22	1.92
658954--658996	20	2.2	20	83	8	52	37	2	2	58	1.24
662891--662949	29	2.0	29	93	0	100	27	23	5	44	1.74
663218--663325	45	2.4	45	81	4	110	30	24	10	35	1.88
663247--663784	79	6.8	79	88	0	790	28	22	11	37	1.89
663464--663676	34	5.6	34	67	21	120	27	22	12	37	1.90
663487--663720	45	5.7	44	65	20	157	27	23	12	37	1.90
664240--664273	17	2.0	17	88	0	50	29	23	17	29	1.97
667906--667939	2	17.5	2	93	6	61	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671502--671544	22	2.0	22	90	0	68	16	9	39	34	1.80
679820--680599	54	14.4	54	87	1	1019	36	20	16	26	1.94
684068--684370	79	3.8	80	87	3	418	30	23	11	34	1.90
684194--684326	34	3.6	34	70	20	113	30	21	9	38	1.85
684345--684393	23	2.1	23	92	0	80	32	24	14	28	1.94
684870--685066	94	2.1	94	84	2	254	26	24	17	30	1.97
697811--698481	54	12.4	54	88	2	920	35	20	17	26	1.95
701346--701376	2	15.5	2	100	0	62	48	0	0	51	1.00
701515--701573	29	2.0	29	93	0	100	27	23	5	44	1.74
701871--702144	79	3.5	79	85	3	363	28	22	13	35	1.92
702615--702851	93	2.5	94	78	9	236	26	23	18	31	1.97
704477--704501	4	6.2	4	100	0	50	28	0	0	72	0.86
706010--706630	55	11.2	56	87	2	803	33	18	10	37	1.86
706412--706503	28	3.3	28	64	3	69	31	17	11	39	1.86
706027--706630	111	5.5	111	88	2	853	33	18	11	37	1.86
710211--710638	54	7.9	54	90	2	603	36	19	18	26	1.94
710311--710393	26	3.1	26	63	24	64	37	19	18	25	1.94
711647--711820	89	2.0	88	91	2	285	45	5	10	38	1.62
717650--717969	54	5.9	54	86	2	428	37	18	18	25	1.93
717650--717961	162	1.9	162	88	1	473	36	18	18	25	1.94
718979--719152	90	2.0	88	94	2	303	44	5	11	37	1.64
719468--719603	54	2.5	54	84	0	164	33	21	19	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720593--720627	12	2.9	12	86	0	52	34	0	25	40	1.56
720572--720626	18	3.1	17	81	5	56	40	1	20	38	1.63
720665--720744	2	41.0	2	95	5	146	0	0	51	48	1.00
724240--724336	46	2.1	46	86	0	131	20	22	23	32	1.98
724242--724330	23	3.9	23	69	0	79	21	23	25	29	1.99
724464--724539	6	12.7	6	82	0	62	38	2	22	36	1.68
724487--724540	3	18.0	3	81	7	65	35	0	27	37	1.57
725878--725910	14	2.4	14	90	10	50	30	6	12	51	1.63
726071--726097	12	2.2	12	100	0	54	22	7	22	48	1.75
734056--734098	17	2.5	17	80	0	50	41	4	16	37	1.69
734049--734150	51	2.0	52	80	5	118	42	7	13	36	1.74
735149--735177	14	2.1	14	93	6	51	37	6	41	13	1.72
740942--740971	12	2.4	13	94	5	53	56	0	3	40	1.16
742900--742988	36	2.5	36	88	0	124	40	10	17	31	1.83
742921--742996	36	2.1	36	85	0	98	46	13	14	26	1.81
742996--743539	84	6.6	84	77	7	521	24	20	25	29	1.99
746903--746948	19	2.4	19	96	0	83	65	13	10	10	1.48
748619--748648	12	2.4	13	94	5	53	56	0	3	40	1.16
754986--755022	19	1.9	19	89	10	58	18	5	5	70	1.27
756776--756834	8	7.4	8	71	21	52	23	0	3	72	0.99
756777--756834	17	3.6	17	78	17	70	22	0	3	74	0.97
770557--770609	23	2.3	23	90	0	88	26	18	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
786122--786246	60	2.1	60	96	0	232	30	10	25	33	1.89
788918--788958	21	2.0	21	90	0	64	21	26	21	29	1.99
789394--789455	21	3.1	21	75	13	76	51	11	11	25	1.71
789394--789451	18	3.0	20	75	12	66	50	10	12	27	1.72
791761--791810	20	2.8	17	73	26	50	28	14	30	28	1.95
791761--791829	36	1.9	36	82	5	86	26	13	30	30	1.93
792142--792181	21	2.0	21	85	5	55	50	7	12	30	1.68
792142--792194	18	2.8	18	78	15	54	50	9	11	28	1.69
794647--794718	36	2.0	36	86	10	103	30	19	25	25	1.98
795006--795046	21	2.0	21	85	0	55	48	9	14	26	1.75

Tables:   1   2   3   4   5   6