genome.fa.s8645.2.7.7.80.10.50.1000.5.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  5  of  22  ( 2605 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)
877942--877966	13	1.9	13	100	0	50	24	20	16	40	1.91
878188--878460	91	3.0	91	94	2	476	36	17	21	24	1.94
879349--879377	14	2.1	14	93	6	51	51	0	6	41	1.28
889298--889398	24	4.2	24	79	2	105	27	16	16	38	1.91
892341--892388	11	4.4	11	78	19	55	50	0	0	50	1.00
892709--892766	29	2.0	29	100	0	116	17	6	24	51	1.69
892980--893016	15	2.5	15	90	0	56	2	27	24	45	1.66
895749--895814	29	2.3	29	79	7	73	56	1	9	33	1.40
896311--896354	3	15.3	3	82	17	58	65	0	0	34	0.93
896310--896354	11	4.0	11	97	2	81	64	0	0	35	0.94
896506--897277	137	5.6	137	89	0	1112	25	15	24	34	1.95
897199--897329	54	2.4	54	96	0	235	24	16	25	33	1.96
906744--907038	119	2.5	121	89	2	434	41	18	9	31	1.82
907865--907930	29	2.3	29	79	7	73	56	1	9	33	1.40
909322--909363	20	2.0	20	86	4	57	69	7	11	11	1.37
910894--910933	20	2.0	20	90	9	64	15	17	27	40	1.89
911506--911764	111	2.4	108	85	3	342	23	20	23	32	1.98
912959--913004	14	3.1	15	75	18	51	2	13	6	78	1.04
916640--916667	14	2.0	14	100	0	56	57	14	7	21	1.61
920060--920110	25	2.0	25	84	7	66	68	9	5	15	1.36
926292--926368	30	2.6	30	80	0	100	20	33	10	35	1.87
932952--933271	161	2.0	161	89	0	487	30	14	7	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936316--936356	21	2.0	21	90	9	66	43	2	0	53	1.13
936769--936841	29	2.5	29	87	10	105	16	26	30	27	1.97
938059--938121	25	2.5	26	94	2	110	36	0	17	46	1.49
938140--938220	21	3.9	20	77	9	74	50	22	1	25	1.56
938132--938220	7	12.9	7	80	7	65	49	24	1	24	1.57
938928--938989	31	2.0	31	87	0	88	25	32	24	17	1.97
940116--940147	13	2.4	14	85	15	50	59	0	0	40	0.97
940441--940503	25	2.5	26	94	2	110	36	0	17	46	1.49
940514--940595	7	11.9	7	78	7	60	48	25	1	24	1.58
941303--941364	31	2.0	31	87	0	88	25	32	24	17	1.97
943023--943056	7	4.6	7	86	13	50	14	26	29	29	1.95
943023--943056	16	2.3	14	90	10	50	14	26	29	29	1.95
943037--943078	22	1.9	22	95	0	75	14	23	26	35	1.93
947648--947687	21	1.9	21	89	0	62	27	17	17	37	1.92
947647--947693	21	2.4	19	80	13	58	27	17	19	36	1.93
951617--951676	30	2.0	30	86	0	84	28	16	16	38	1.91
954387--954502	58	2.0	58	94	0	205	37	7	20	33	1.82
954606--954691	40	2.1	41	89	4	138	34	17	11	36	1.86
954936--954972	18	1.9	19	89	10	58	40	0	2	56	1.13
955196--955280	39	2.2	39	89	2	125	35	17	10	36	1.85
955523--955559	18	1.9	19	89	10	58	40	0	2	56	1.13
954579--956343	587	3.0	588	99	0	3462	40	9	12	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955783--955868	40	2.2	40	89	0	127	36	17	10	36	1.84
956111--956147	18	1.9	19	89	10	58	40	0	2	56	1.13
956372--956411	19	2.1	19	95	0	71	30	17	32	20	1.95
957436--957526	29	3.1	29	98	0	173	20	24	30	24	1.99
961054--961093	19	2.1	19	85	0	53	32	15	30	22	1.94
963149--963196	3	15.7	3	95	4	87	33	0	0	66	0.92
963198--963241	19	2.4	19	80	3	54	38	0	2	59	1.10
963740--963769	13	2.2	14	94	5	53	10	6	0	83	0.81
965266--965298	17	2.0	17	88	5	50	60	21	12	6	1.53
969078--969156	20	3.9	19	76	15	72	73	5	5	16	1.19
969879--969940	3	20.3	3	84	12	74	69	0	0	30	0.89
970306--970633	83	3.9	83	84	1	431	24	19	24	32	1.98
970312--970636	167	1.9	168	87	0	481	23	19	24	32	1.97
970625--970751	69	1.9	66	88	8	193	30	7	19	41	1.80
970625--970752	33	3.8	33	86	8	186	30	8	19	41	1.81
970738--971056	36	9.1	37	71	20	213	40	12	18	28	1.87
970705--970856	67	2.2	68	85	10	195	36	13	20	30	1.91
970807--971056	36	7.1	36	76	13	225	41	12	18	28	1.86
971344--971468	43	2.9	43	84	4	162	24	16	28	30	1.97
972743--973003	95	2.7	94	83	4	299	33	18	15	32	1.92
974531--974573	16	2.8	16	96	3	79	65	9	11	13	1.48
974617--974650	17	2.0	18	88	11	54	35	41	5	17	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975517--975572	28	2.0	28	83	13	71	73	7	3	16	1.20
975493--975591	17	6.3	15	73	20	53	73	5	4	17	1.17
975515--975591	20	3.8	19	77	14	66	75	6	2	15	1.12
975526--975581	28	2.1	27	80	12	62	78	5	3	12	1.05
976286--976350	3	21.3	3	85	14	73	69	0	0	30	0.89
981069--981164	30	3.3	30	81	5	90	59	0	0	40	0.97
987629--987672	2	22.5	2	90	4	72	47	0	0	52	1.00
994756--994841	3	29.0	3	81	6	104	31	2	2	63	1.19
1007811--1007889	26	3.2	24	79	16	83	70	1	12	15	1.22
1007811--1007872	13	4.9	13	78	20	69	69	1	14	14	1.27
1007821--1007868	12	3.8	12	77	5	51	72	0	12	14	1.11
1007821--1007889	24	2.9	22	78	21	77	72	0	11	15	1.12
1009418--1009980	113	5.0	113	97	0	1054	37	13	20	28	1.91
1010222--1010300	3	26.7	3	80	12	92	29	2	1	67	1.12
1010229--1010300	24	3.0	24	95	0	126	27	2	1	68	1.12
1010299--1010330	3	10.3	3	93	6	55	65	0	0	34	0.93
1014785--1014928	35	4.1	35	85	0	189	34	20	22	22	1.96
1014785--1014932	70	2.1	70	87	0	215	35	19	22	21	1.96
1016021--1016109	3	30.0	3	90	2	144	32	1	0	66	0.99
1017444--1017490	20	2.3	21	78	10	62	29	2	4	63	1.25
1018233--1018282	18	2.8	17	81	6	64	24	0	2	74	0.93
1024421--1024467	20	2.3	21	78	10	62	63	4	2	29	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025796--1025884	3	30.0	3	90	2	144	66	0	1	32	0.99
1026139--1026930	113	6.8	113	92	3	1070	28	19	13	37	1.91
1027539--1027652	54	2.2	53	85	6	151	38	21	13	26	1.90
1027696--1027836	50	2.8	50	100	0	282	39	21	14	24	1.91
1027867--1028020	52	3.0	51	92	4	249	37	22	14	24	1.92
1027540--1028240	185	3.8	186	94	3	1164	37	21	14	27	1.92
1027876--1028021	50	2.9	50	95	2	256	39	23	14	23	1.91
1028064--1028207	52	2.8	52	100	0	288	42	20	15	22	1.89
1031326--1031496	33	5.0	33	79	10	182	33	12	2	50	1.55
1031398--1031477	40	2.0	41	90	2	126	33	11	2	52	1.50
1031358--1031496	73	1.9	74	85	4	192	33	12	2	51	1.54
1031432--1031496	32	2.0	32	82	14	80	30	12	3	53	1.53
1031688--1031754	29	2.3	29	75	14	66	20	17	4	56	1.58
1041924--1043074	42	26.9	42	80	5	1141	26	18	16	38	1.92
1045006--1045095	40	2.2	41	88	2	137	33	15	2	48	1.57
1044904--1045111	33	6.1	33	84	8	274	31	14	3	50	1.61
1049680--1049709	13	2.2	14	94	5	53	40	6	13	40	1.71
1056733--1056828	30	3.2	30	77	11	88	36	6	13	43	1.69
1056755--1056862	31	3.5	30	80	7	101	36	6	11	46	1.65
1056781--1056862	32	2.6	31	82	1	101	39	7	7	46	1.60
1057789--1057814	2	13.0	2	100	0	52	50	0	0	50	1.00
1058490--1058526	3	12.3	3	88	0	56	2	62	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064517--1064567	19	2.6	19	81	3	57	60	9	11	17	1.57
1065103--1065239	62	2.2	63	82	8	156	57	10	10	21	1.61
1068905--1068935	3	10.3	3	100	0	62	0	0	32	67	0.91
1072580--1072627	3	16.0	3	78	8	53	58	4	2	35	1.29
1072820--1073296	90	5.3	91	94	1	825	33	22	19	24	1.97
1072820--1073296	181	2.6	181	96	0	875	33	22	19	24	1.97
1073226--1073344	63	1.9	63	98	0	229	27	24	18	29	1.98
1073226--1073359	63	2.1	63	93	2	225	27	23	20	28	1.99
1073387--1073525	43	3.2	43	80	2	163	30	29	12	27	1.93
1073516--1073549	12	2.8	12	100	0	68	32	17	8	41	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22