genome.fa.s8100.2.7.7.80.10.50.1000.5.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: VEPZ01008100.1 Hibiscus syriacus cultivar Beakdansim tig00110630_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1372717

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 729 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)
830246--830431	30	6.1	30	65	18	87	39	5	2	53	1.36
830332--830451	28	4.3	27	79	8	105	35	4	3	57	1.34
830330--830451	27	4.3	28	76	10	113	35	4	3	57	1.34
830439--830511	28	2.5	29	82	8	85	49	1	5	43	1.34
830455--830568	28	4.1	28	76	13	108	55	1	4	38	1.30
831782--831846	18	3.4	18	67	19	51	46	15	7	30	1.74
831762--831844	39	2.1	39	93	0	139	48	16	7	27	1.73
831979--832025	19	2.6	18	86	6	67	31	12	6	48	1.66
832726--832889	83	2.0	83	90	0	256	27	20	12	40	1.88
836821--836862	22	1.9	22	90	0	66	28	21	21	28	1.99
837531--837560	15	2.0	15	93	0	51	23	20	23	33	1.97
837679--837717	21	2.0	21	85	10	55	33	28	0	38	1.57
841497--841538	22	1.9	22	100	0	84	26	23	19	30	1.98
848930--849016	34	2.6	34	81	0	93	20	10	28	40	1.85
850268--850342	21	3.6	21	75	8	64	34	22	18	24	1.96
853808--853852	23	2.0	23	86	0	63	26	26	26	20	1.99
861259--861303	23	2.0	23	86	0	63	26	26	26	20	1.99
862811--862862	26	2.0	26	100	0	104	30	19	11	38	1.87
865021--865064	17	2.6	17	96	0	79	31	4	18	45	1.69
870102--870155	22	2.5	22	90	0	81	37	9	14	38	1.79
870931--871004	20	3.7	20	78	7	78	24	18	20	36	1.95
871532--871574	10	4.4	10	85	2	61	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
871588--871651	26	2.6	24	78	9	67	39	26	18	15	1.91
874740--874777	19	2.0	20	84	5	51	36	2	2	57	1.26
877838--877905	8	8.0	8	81	12	82	25	13	29	32	1.93
877838--877904	16	3.9	16	85	14	98	25	13	29	31	1.94
877834--877904	20	3.5	20	88	0	88	25	14	29	30	1.94
889806--889849	17	2.4	18	81	11	54	18	11	0	70	1.16
891049--891101	13	4.1	13	72	0	52	45	15	18	20	1.85
891375--891500	47	2.8	45	86	5	173	30	23	7	38	1.83
891604--891723	40	3.0	40	93	2	197	32	25	15	25	1.96
895691--895980	140	2.0	140	93	6	490	18	18	29	33	1.95
897878--897954	26	3.0	26	84	3	93	49	9	6	35	1.60
903091--903157	26	2.6	26	92	0	107	50	10	5	32	1.61
906557--906594	19	2.0	20	84	5	51	42	21	15	21	1.89
924071--924108	20	1.9	19	94	5	67	21	26	18	34	1.96
924161--924216	22	2.5	22	88	0	85	23	12	25	39	1.89
924970--925022	21	2.5	22	78	9	56	52	1	32	13	1.51
926259--926324	23	3.2	23	60	28	56	45	4	45	4	1.44
926259--926348	39	2.3	39	100	0	180	45	5	44	4	1.47
932823--932848	2	13.0	2	100	0	52	50	0	0	50	1.00
936308--936386	31	2.4	33	85	6	108	59	1	7	31	1.33
936651--936715	7	9.3	7	77	12	55	47	26	1	24	1.61
936651--936715	14	4.6	14	76	14	62	47	26	1	24	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937744--937787	21	2.1	21	100	0	88	56	0	13	29	1.38
947084--947152	2	34.5	2	100	0	138	49	0	0	50	1.00
947730--947766	20	1.9	19	89	10	58	45	8	21	24	1.78
947915--947989	38	2.0	37	84	5	98	48	5	1	45	1.33
948119--948454	177	1.9	178	99	0	665	38	12	17	30	1.87
948986--949030	15	3.1	15	80	6	65	42	6	20	31	1.77
949220--949281	22	2.8	22	70	13	56	45	0	0	54	0.99
949240--949273	18	1.9	17	88	5	50	44	0	0	55	0.99
949366--949433	11	6.2	11	69	17	52	48	1	1	48	1.19
949397--949448	21	2.6	19	77	14	52	50	1	0	48	1.12
949508--949595	5	17.0	5	75	11	79	45	0	0	54	0.99
949492--949599	44	2.5	41	78	14	119	45	0	0	53	1.06
949530--949606	27	3.0	27	90	9	119	45	0	0	54	0.99
949542--949590	22	2.2	22	100	0	98	44	0	0	55	0.99
949755--949871	42	2.8	42	86	2	155	47	15	14	22	1.81
952479--952531	27	2.1	24	82	10	61	50	0	5	43	1.25
956253--956307	2	29.0	2	81	17	64	52	0	1	45	1.11
956253--956305	21	2.6	21	85	11	74	52	0	1	45	1.11
962801--962843	15	2.9	15	96	0	77	39	25	18	16	1.91
962917--962993	23	3.3	23	96	0	145	38	9	20	31	1.84
965085--965222	68	2.0	70	97	2	262	23	15	28	31	1.95
974819--974879	21	3.0	20	76	7	68	26	16	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974820--974886	21	3.2	21	69	10	57	28	14	25	31	1.95
978150--978506	36	9.8	36	78	14	333	42	8	3	45	1.49
978160--978506	38	9.4	37	80	10	365	42	8	2	45	1.49
983424--983494	28	2.6	27	85	10	92	57	1	0	40	1.07
993110--993141	15	2.1	15	100	0	64	40	12	25	21	1.88
996013--996052	20	2.0	20	95	0	71	35	17	15	32	1.91
996454--996768	123	2.6	123	88	1	461	41	15	19	23	1.90
996686--997047	139	2.6	138	81	7	432	41	14	18	25	1.89
997097--997161	20	3.3	20	76	4	78	41	9	24	24	1.84
998560--998589	2	15.0	2	100	0	60	50	0	0	50	1.00
999633--999689	28	2.0	28	82	0	69	24	19	8	47	1.77
999676--999866	78	2.4	81	84	3	262	30	21	12	35	1.90
999676--999883	79	2.6	81	83	3	278	29	22	12	35	1.90
999824--1000138	68	4.6	68	84	0	389	30	25	14	29	1.95
1000039--1000257	119	1.8	119	91	0	357	31	22	14	31	1.93
1000136--1000356	68	3.2	68	91	0	352	30	24	14	30	1.94
999972--1000325	187	1.9	187	91	1	575	31	23	14	30	1.94
1000573--1000778	59	3.5	58	86	3	261	34	18	11	35	1.87
1005061--1005085	2	12.5	2	100	0	50	52	48	0	0	1.00
1005262--1005660	81	4.9	80	84	2	469	30	22	10	35	1.88
1005262--1005660	161	2.5	162	82	2	534	30	22	10	35	1.88
1005610--1006006	68	5.8	68	91	0	623	29	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006224--1006489	59	4.5	59	82	2	320	35	16	12	35	1.86
1006803--1007013	95	2.2	95	79	3	219	27	23	14	35	1.94
1025545--1025577	14	2.4	14	100	0	66	12	42	33	12	1.79
1025805--1026040	37	6.4	37	83	5	273	42	8	3	45	1.51
1025805--1026038	73	3.2	72	86	4	299	42	8	3	45	1.51
1026025--1026081	2	28.0	2	96	3	105	49	1	0	49	1.11
1027948--1028020	28	2.5	28	82	10	85	50	8	10	30	1.66
1027960--1028023	29	2.2	29	88	2	94	51	9	10	28	1.68
1027755--1027994	117	2.1	116	86	5	342	55	5	10	28	1.57
1028118--1028149	14	2.2	14	94	5	55	12	0	0	87	0.54
1030541--1030572	14	2.1	16	88	11	50	56	12	9	21	1.64
1043665--1043771	44	2.4	44	85	0	142	31	19	17	30	1.95
1043711--1043771	23	2.8	21	66	9	50	31	19	18	31	1.96
1045490--1045573	28	3.0	28	92	1	143	16	7	29	46	1.74
1045278--1045796	277	1.9	276	92	1	871	24	11	25	38	1.88
1045765--1045840	36	2.1	38	90	5	120	15	11	34	38	1.84
1046416--1046461	18	2.8	16	83	9	65	30	30	6	32	1.83
1047282--1047315	12	2.7	13	86	9	52	44	11	5	38	1.65
1049919--1049963	20	2.2	20	88	0	63	24	26	11	37	1.89
1050817--1050883	21	3.3	21	79	8	68	29	19	11	38	1.88
1058689--1058961	55	5.0	55	83	3	309	32	13	18	34	1.90
1059130--1059170	18	2.3	18	87	8	57	56	7	7	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059163--1059883	81	8.9	81	86	1	903	36	11	22	29	1.89
1063838--1063892	19	2.8	19	81	13	67	30	14	29	25	1.95
1063914--1063967	22	2.7	19	85	8	63	35	16	18	29	1.93
1064290--1064457	55	3.1	55	91	1	266	35	12	19	33	1.89
1064556--1066085	81	18.9	81	88	1	2136	34	11	23	29	1.91
1068039--1068140	41	2.5	41	80	6	100	38	12	19	29	1.89
1068121--1068176	28	2.0	28	89	0	85	28	14	25	32	1.94
1068544--1068622	39	2.0	39	97	0	149	27	22	34	15	1.94
1073272--1073334	33	1.9	32	81	9	74	38	3	3	55	1.32
1073379--1073450	19	4.1	16	70	26	56	56	0	1	41	1.07

Tables:   1   2   3   4   5   6   7