genome.fa.s9628.2.7.7.80.10.50.1000.4.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1154 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)
789822--789858	19	1.9	19	88	0	56	10	29	35	24	1.89
790713--790749	18	2.1	18	100	0	74	10	35	0	54	1.36
793232--793473	30	8.1	30	97	0	439	34	23	18	22	1.96
793458--793551	31	3.1	30	72	4	80	30	21	18	29	1.97
794779--794823	21	2.1	21	84	8	56	33	26	24	15	1.95
795510--795560	22	2.3	22	93	0	84	31	25	25	17	1.97
795518--795562	22	2.0	22	100	0	90	26	26	26	20	1.99
795781--795840	30	2.0	31	90	3	95	33	23	6	36	1.81
795855--795925	29	2.5	28	93	2	115	38	12	9	39	1.77
796227--796377	67	2.2	67	88	3	214	17	27	26	28	1.97
796357--796399	21	2.0	21	86	0	59	16	25	27	30	1.97
802411--802477	22	3.0	22	100	0	134	26	26	26	19	1.99
802695--802754	30	2.0	31	90	3	95	33	23	6	36	1.81
802769--802839	29	2.5	28	93	2	115	38	12	9	39	1.77
803270--803312	21	2.0	21	86	0	59	16	25	27	30	1.97
803141--803290	67	2.2	67	88	2	212	17	26	27	28	1.97
804378--804404	13	2.1	13	100	0	54	44	14	14	25	1.84
804719--804750	2	16.0	2	100	0	64	50	0	0	50	1.00
805497--805542	24	1.9	24	86	0	65	19	23	30	26	1.98
808706--808750	21	2.1	21	87	0	63	31	28	24	15	1.96
809584--809637	2	27.0	2	100	0	108	50	0	0	50	1.00
810402--810446	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
811630--811672	20	2.2	20	86	0	59	9	30	34	25	1.87
813754--813818	22	3.0	22	95	2	114	24	26	27	21	1.99
813767--813807	13	3.5	13	75	25	54	24	26	26	21	2.00
815501--815545	21	2.1	21	87	0	63	15	24	28	31	1.96
818064--818104	20	2.0	20	85	0	55	26	29	26	17	1.97
818960--819113	31	5.0	31	93	1	256	22	20	20	37	1.95
822927--823080	31	5.0	31	93	1	256	22	20	20	37	1.95
825041--825106	22	3.0	22	97	0	123	24	27	27	21	1.99
825054--825094	13	3.5	13	75	25	54	24	26	26	21	2.00
826800--826844	21	2.1	21	87	0	63	15	24	28	31	1.96
829523--829576	27	2.0	27	100	0	108	29	3	18	48	1.65
829824--829873	25	2.0	26	84	4	66	48	4	0	48	1.20
832206--832437	123	1.9	123	80	3	270	28	13	36	21	1.92
835187--835433	123	2.0	123	100	0	494	28	8	12	49	1.71
835552--835581	2	15.0	2	100	0	60	50	0	0	50	1.00
858309--858352	20	2.2	20	83	0	52	59	2	2	36	1.23
866338--866385	24	2.0	23	88	4	69	25	0	6	68	1.12
867877--867949	28	2.6	29	95	2	130	16	49	21	12	1.78
879873--879905	15	2.1	17	88	11	52	66	3	12	18	1.36
882449--882486	15	2.6	14	84	16	51	44	10	10	34	1.73
887307--887379	29	2.6	29	88	2	112	42	4	23	30	1.73
889222--889253	3	10.7	3	100	0	64	34	31	0	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
891689--891717	10	2.9	10	100	0	58	62	0	0	37	0.96
900065--900107	21	2.0	21	86	0	59	30	27	25	16	1.97
900134--900171	20	1.9	20	88	0	58	23	34	31	10	1.89
900798--900842	23	2.0	23	86	0	63	20	26	26	26	1.99
903216--903259	21	2.2	20	91	4	70	31	25	25	18	1.97
903730--903764	2	17.5	2	100	0	70	51	0	0	48	1.00
904599--904695	32	3.1	32	78	14	128	28	17	18	35	1.94
904598--904698	31	3.2	31	81	10	125	28	18	18	33	1.95
904686--904779	30	3.1	30	90	3	136	20	21	27	30	1.98
908081--908125	21	2.1	21	87	0	63	31	28	24	15	1.96
908601--908631	2	15.5	2	100	0	62	51	0	0	48	1.00
909467--909563	32	3.1	32	78	14	128	28	17	18	35	1.94
909466--909566	31	3.2	31	81	10	125	28	18	18	33	1.95
909554--909647	30	3.1	30	90	3	136	20	21	27	30	1.98
914705--914747	21	2.0	21	86	0	59	30	27	25	16	1.97
914774--914811	20	1.9	20	88	0	58	23	34	31	10	1.89
916839--916889	23	2.2	23	82	0	57	29	19	27	23	1.98
916850--916902	23	2.3	23	86	0	79	26	18	28	26	1.98
916918--917134	103	2.1	103	88	6	321	37	23	13	25	1.91
919435--919471	18	2.1	18	100	0	74	32	16	18	32	1.93
937408--937479	28	2.6	28	74	12	67	47	25	4	23	1.69
937498--937545	22	2.2	21	82	10	60	50	18	0	31	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937504--937546	22	1.9	23	90	4	70	46	20	0	32	1.51
946642--946671	16	1.9	15	93	6	51	50	0	0	50	1.00
950033--950096	31	2.1	31	91	5	103	25	3	39	32	1.71
963667--963763	42	2.3	41	82	1	113	25	22	22	28	1.99
963883--964014	42	3.1	42	96	0	237	26	24	17	31	1.97
964056--964080	13	1.9	13	100	0	50	32	24	20	24	1.98
964070--964351	80	3.5	80	90	0	458	30	18	23	28	1.97
964309--964421	42	2.7	41	85	6	147	23	18	23	33	1.97
964834--965029	53	3.7	53	88	2	297	28	21	28	21	1.99
973584--973625	14	3.0	14	82	6	50	47	26	0	26	1.52
981108--981283	96	1.8	96	93	0	307	24	33	22	19	1.97
981167--981457	129	2.3	129	87	0	429	25	27	25	21	1.99
985414--985479	20	3.3	20	78	4	71	30	18	15	36	1.91
985370--985480	39	2.8	40	83	2	134	33	18	12	36	1.88
987827--987887	23	2.7	23	81	0	86	19	26	26	27	1.99
989937--989996	31	2.0	30	87	9	86	36	1	21	40	1.64
990220--990277	23	2.5	23	85	0	80	17	25	27	29	1.97
991603--991682	22	3.7	22	80	5	92	30	20	27	22	1.98
993381--993426	24	2.0	24	86	4	67	23	26	26	23	2.00
1000390--1000445	23	2.4	23	90	0	94	17	25	26	30	1.97
1000390--1000458	23	3.0	23	84	0	66	18	23	26	31	1.97
1005041--1005085	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005668--1005702	18	1.9	18	88	11	54	54	5	17	22	1.64
1006581--1006884	149	2.0	149	98	0	581	26	18	20	34	1.95
1006863--1006907	23	2.0	23	86	0	63	20	24	28	26	1.99
1009478--1009640	63	2.6	65	77	9	158	36	18	18	26	1.94
1010271--1010331	23	2.7	23	89	0	95	19	26	27	26	1.99
1011067--1011120	24	2.2	24	90	0	81	22	18	18	40	1.91
1013691--1013747	20	2.8	20	81	0	78	21	15	22	40	1.91
1014382--1014486	27	3.8	27	75	13	81	47	0	2	48	1.23
1014482--1014526	23	2.0	23	86	0	63	53	2	2	42	1.25
1014623--1014676	20	2.7	20	77	13	65	57	0	0	42	0.98
1014641--1014704	25	2.6	25	81	18	73	51	0	1	46	1.10
1015244--1015318	31	2.4	31	93	2	123	29	17	16	37	1.91
1017165--1017207	18	2.4	18	88	7	61	23	6	0	69	1.12
1017256--1017325	5	13.4	5	73	19	54	22	5	0	71	1.07
1017268--1017325	12	5.3	11	80	13	66	20	6	0	72	1.07
1017268--1017325	17	3.5	17	77	11	66	20	6	0	72	1.07
1017393--1017453	8	7.8	8	73	10	54	13	1	3	81	0.88
1020634--1020666	1	33.0	1	93	0	57	0	3	0	96	0.20
1029821--1029878	2	29.5	2	81	10	66	50	1	0	48	1.11
1029807--1029868	33	2.0	30	90	9	97	53	1	0	45	1.10
1030221--1030246	13	2.0	13	100	0	52	30	15	30	23	1.95
1030793--1030819	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036403--1036559	60	2.6	61	81	11	180	33	14	17	35	1.90
1037213--1037341	20	6.3	20	73	10	64	31	22	18	27	1.97
1038159--1038212	24	2.2	24	90	0	81	22	18	18	40	1.91
1038404--1038440	14	2.6	14	91	4	56	51	21	21	5	1.68
1040263--1040297	18	1.9	18	94	0	61	57	17	2	22	1.53
1040355--1040637	140	2.0	140	97	0	539	28	13	15	43	1.84
1040608--1040769	20	8.8	20	74	16	161	35	22	17	23	1.95
1040608--1040771	73	2.2	74	93	1	276	35	22	18	23	1.96
1040636--1040803	34	4.8	34	80	10	178	37	22	18	21	1.94
1040669--1040820	20	8.2	20	71	18	71	34	23	19	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10