genome.fa.s2890.2.7.7.80.10.50.1000.4.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2516 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)
849942--850022	21	3.9	21	75	15	96	35	25	20	17	1.95
849952--850193	41	5.9	41	91	3	398	38	24	21	15	1.92
850116--850186	21	3.4	21	67	18	67	38	25	21	15	1.92
853828--853888	30	2.0	30	83	0	77	29	9	19	40	1.84
854325--854437	60	1.9	60	81	3	138	41	4	22	31	1.73
855251--855314	33	1.9	33	90	0	101	23	3	31	42	1.70
858929--858976	9	5.0	9	76	14	51	14	18	29	37	1.91
858984--859049	13	5.3	13	79	20	63	16	48	22	12	1.79
858980--859043	18	3.6	18	100	0	128	17	51	21	9	1.73
859025--859078	7	7.5	8	75	23	57	12	37	27	22	1.91
859041--859079	7	5.4	7	87	6	60	10	33	30	25	1.89
859041--859078	15	2.6	15	91	4	60	10	34	28	26	1.90
860374--860409	18	2.0	18	88	0	54	52	0	16	30	1.44
861548--861625	24	3.2	24	83	7	104	20	15	17	46	1.84
863797--863862	13	5.3	13	79	20	63	16	48	22	12	1.79
863793--863856	18	3.6	18	100	0	128	17	51	21	9	1.73
863838--863891	7	7.5	8	75	23	57	12	37	27	22	1.91
863854--863892	7	5.4	7	87	6	60	10	33	30	25	1.89
863854--863891	15	2.6	15	91	4	60	10	34	28	26	1.90
865189--865224	18	2.0	18	88	0	54	52	0	16	30	1.44
866361--866438	24	3.2	24	83	7	104	20	15	17	46	1.84
868610--868684	18	4.4	18	80	16	106	17	50	20	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
868614--868692	31	2.5	31	93	0	140	16	46	21	15	1.83
868632--868668	13	2.8	13	91	0	65	16	48	21	13	1.80
868681--868722	7	5.7	7	86	8	57	11	30	30	26	1.92
868681--868721	15	2.7	15	85	7	57	12	31	29	26	1.92
870018--870053	18	2.0	18	88	0	54	52	0	16	30	1.44
871192--871269	24	3.2	24	83	7	104	20	15	17	46	1.84
873442--873516	18	4.4	18	80	16	106	17	50	20	12	1.77
873446--873524	31	2.5	31	93	0	140	16	46	21	15	1.83
873464--873500	13	2.8	13	91	0	65	16	48	21	13	1.80
874827--874862	18	2.0	18	88	0	54	52	0	16	30	1.44
876001--876078	24	3.2	24	83	7	104	20	15	17	46	1.84
877036--877097	32	2.1	31	85	11	85	64	6	3	25	1.33
877158--877198	17	2.4	18	80	15	52	60	2	0	36	1.10
880619--880976	188	1.9	188	79	4	409	29	16	20	33	1.94
881660--881740	43	1.9	42	82	12	103	44	2	16	37	1.61
881702--881784	22	3.6	22	87	7	112	39	3	20	36	1.70
890427--890465	20	2.0	20	89	0	60	33	23	10	33	1.88
892901--892942	21	2.0	21	85	0	57	40	19	14	26	1.89
896686--896775	46	2.0	46	88	0	135	53	2	18	25	1.56
903566--903626	21	2.9	21	100	0	122	34	14	9	40	1.79
905037--905078	21	2.0	21	81	9	50	42	23	11	21	1.86
914902--914942	20	2.0	21	85	4	57	58	2	2	36	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915834--915869	18	2.0	18	100	0	72	0	11	11	77	0.99
916373--916440	3	22.7	3	96	0	127	64	0	1	33	1.02
916760--917400	113	5.7	113	87	3	880	29	19	12	38	1.89
916760--917436	339	2.0	338	89	3	1029	29	19	12	37	1.89
916760--917400	226	2.8	226	93	1	1063	29	19	12	38	1.89
918165--918742	84	6.9	84	96	2	1020	37	20	14	28	1.92
919492--919533	19	2.2	20	91	4	68	52	11	4	30	1.59
930495--930539	18	2.5	18	78	7	56	71	2	0	26	0.98
931221--931261	20	2.0	21	85	4	57	58	2	2	36	1.24
932153--932188	18	2.0	18	100	0	72	0	11	11	77	0.99
932692--932753	3	20.7	3	96	0	115	64	0	1	33	1.03
935895--935954	7	8.7	7	94	1	77	0	28	6	65	1.18
935895--935954	21	2.9	21	87	2	86	0	28	6	65	1.18
952281--952319	20	2.0	20	84	0	51	33	5	2	58	1.33
956194--956250	22	2.9	18	76	18	60	42	19	19	19	1.90
959712--959737	13	2.0	13	100	0	52	15	7	30	46	1.74
962931--962962	16	2.0	16	93	0	55	37	21	0	40	1.54
962932--962971	16	2.4	16	87	4	53	37	22	0	40	1.54
963146--963195	20	2.5	20	93	0	91	28	18	28	26	1.98
963375--963419	17	2.6	17	100	0	90	35	11	22	31	1.89
963456--963504	20	2.5	20	82	0	53	32	20	20	26	1.97
964555--964696	65	2.2	63	84	8	180	32	18	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965498--965549	18	2.9	18	91	0	86	19	21	30	28	1.97
968615--968717	46	2.3	46	85	6	131	34	17	19	28	1.94
968724--968801	20	3.7	20	89	6	111	30	19	23	26	1.98
969573--969608	18	2.0	18	94	0	63	16	19	33	30	1.94
975833--975873	18	2.3	18	91	4	66	29	4	2	63	1.28
976926--977038	51	2.2	51	84	3	138	25	26	28	19	1.99
976942--977053	51	2.2	50	83	10	138	24	29	30	16	1.96
980206--980249	21	2.1	21	91	0	70	15	29	11	43	1.82
982929--983003	21	3.7	20	78	10	80	26	21	18	33	1.96
983036--983162	20	6.3	20	86	5	157	29	28	18	23	1.98
983095--983180	40	2.2	40	89	0	127	26	27	19	25	1.99
983078--983171	20	4.7	20	97	0	161	24	28	20	26	1.99
983375--983481	40	3.0	34	72	15	97	39	23	23	14	1.91
983394--983469	20	3.8	20	92	0	125	40	23	21	14	1.90
983488--983567	34	2.4	34	89	0	115	12	22	25	40	1.89
985124--985215	42	2.2	42	88	1	141	20	15	42	21	1.89
985151--985211	21	2.9	21	73	9	70	21	13	42	22	1.87
985555--985607	20	2.7	20	87	0	70	33	28	13	24	1.93
985561--985673	39	2.9	39	81	6	104	38	24	19	16	1.92
985561--985666	20	5.4	20	82	3	108	36	25	20	16	1.94
985581--985673	39	2.4	38	85	5	114	39	23	21	15	1.91
985655--985713	14	3.9	14	72	20	55	50	22	15	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985639--985729	33	2.8	33	89	0	137	48	23	16	12	1.79
985752--985805	14	3.5	14	73	22	54	11	16	22	50	1.77
985725--985841	19	6.6	19	69	19	83	14	18	20	46	1.84
985730--985817	33	2.7	33	94	0	149	12	17	20	50	1.78
985805--985849	20	2.3	20	92	3	74	20	20	17	42	1.90
986372--986419	18	2.7	18	93	0	87	14	12	45	27	1.81
987739--987781	20	2.2	20	86	0	59	53	20	16	9	1.70
988213--988346	20	6.7	20	88	5	189	22	18	28	30	1.97
988336--988387	20	2.5	20	84	3	59	19	23	19	38	1.93
988233--988368	41	3.3	41	85	3	150	22	19	26	32	1.97
988377--988429	21	2.5	22	81	6	74	33	18	26	20	1.96
999416--999467	20	2.6	20	90	0	86	21	17	34	26	1.95
1009639--1009671	13	2.5	13	100	0	66	81	6	12	0	0.85
1009633--1009673	13	2.8	15	82	17	59	82	7	9	0	0.83
1009634--1009672	14	2.8	14	88	11	62	82	7	10	0	0.86
1009649--1009687	18	2.1	18	90	9	60	82	7	10	0	0.86
1017217--1017286	20	3.3	21	70	16	63	42	2	4	50	1.37
1017248--1017420	90	1.9	89	94	1	301	43	5	10	39	1.64
1018673--1018711	21	1.9	21	84	5	53	28	15	5	51	1.64
1020901--1020942	20	2.1	20	95	0	75	23	7	42	26	1.80
1020910--1020955	20	2.3	20	84	0	56	28	13	32	26	1.93
1032590--1032627	8	4.8	8	90	0	58	78	2	2	15	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032608--1032673	32	2.1	32	83	11	82	74	0	13	12	1.08
1034852--1035020	81	2.1	81	90	0	266	28	24	12	34	1.92
1035306--1035334	15	2.0	15	93	6	51	13	24	0	62	1.32
1035363--1035575	46	4.6	46	89	2	320	20	24	10	44	1.83
1035375--1035667	20	12.7	20	68	22	118	20	24	10	44	1.84
1035519--1035582	29	2.2	29	97	0	119	20	25	9	45	1.80
1035473--1035647	75	2.4	74	89	6	266	18	24	11	45	1.83
1035431--1035671	121	2.0	121	92	0	401	20	23	11	44	1.83
1035548--1035680	46	2.9	46	89	2	205	20	21	11	46	1.81
1036283--1036321	17	2.2	18	86	4	53	28	30	7	33	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21