genome.fa.s1162.2.7.7.80.10.50.1000.5.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: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1560963

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 971 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)
816864--816901	18	2.0	20	85	10	53	42	18	15	23	1.89
819203--819380	95	1.9	95	87	4	261	31	15	19	33	1.93
820743--820862	36	3.3	36	91	1	186	30	19	10	40	1.85
820747--820999	138	1.8	137	85	4	357	28	18	11	41	1.85
820752--821161	173	2.4	174	89	1	635	26	18	12	42	1.86
820877--821171	36	8.4	36	75	11	254	25	19	12	42	1.87
820949--821137	102	1.9	101	86	3	272	26	19	12	41	1.86
821177--821234	29	2.0	29	89	0	89	36	20	6	36	1.80
823050--823078	2	14.5	2	100	0	58	51	48	0	0	1.00
828545--828643	21	4.9	21	88	4	150	25	30	21	23	1.99
833186--833232	24	2.0	24	91	0	76	36	2	14	46	1.57
836466--836523	31	1.9	31	83	13	77	41	0	5	53	1.23
838073--838214	70	2.0	70	100	0	284	45	8	7	38	1.62
839762--839825	33	1.9	34	87	3	94	45	4	4	45	1.45
841712--841773	31	2.0	31	96	0	115	22	14	38	24	1.91
841777--841828	22	2.4	22	87	3	79	23	28	32	15	1.95
841874--841961	29	3.0	29	81	0	113	20	30	32	15	1.94
848556--848848	55	5.3	55	86	4	387	28	16	18	37	1.92
856795--857023	55	4.2	55	85	1	311	27	15	18	37	1.91
856795--857030	109	2.2	109	85	2	314	27	15	18	37	1.92
866917--866941	13	1.9	13	100	0	50	32	44	16	8	1.76
871380--871446	32	2.1	32	100	0	134	11	16	2	68	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
888456--888486	15	2.1	15	100	0	62	19	25	29	25	1.99
889169--889222	3	18.7	3	81	7	67	37	3	0	59	1.15
890512--890572	27	2.2	29	77	14	74	57	1	4	36	1.30
897018--897075	24	2.3	26	83	13	70	81	1	15	1	0.86
900154--900208	20	2.8	20	88	0	83	27	21	20	30	1.98
900049--900693	119	5.4	119	92	0	1029	32	16	18	32	1.93
900273--900327	20	2.8	20	82	0	65	29	23	18	29	1.98
900392--900446	20	2.7	19	75	10	56	29	20	20	30	1.97
900511--900565	20	2.8	20	81	10	60	32	16	18	32	1.93
900825--900889	3	22.3	3	81	6	80	36	3	0	60	1.13
911388--911494	22	5.0	22	67	13	80	28	20	19	30	1.97
911331--911476	20	6.9	22	63	16	67	28	20	18	32	1.96
911320--911496	42	4.2	42	92	0	282	26	21	19	32	1.97
911547--911646	42	2.4	42	88	1	139	22	25	24	29	1.99
911681--911846	53	3.1	53	88	1	253	30	22	25	21	1.99
915458--915528	33	2.2	33	82	5	81	8	21	39	30	1.83
916804--916839	18	2.0	18	100	0	72	33	11	16	38	1.84
916877--916963	43	2.0	43	88	0	129	24	20	24	31	1.98
916894--916957	22	3.0	22	72	4	67	25	23	25	26	2.00
917068--917107	20	1.9	21	85	10	55	37	35	10	17	1.83
920404--920443	20	1.9	21	85	10	55	37	37	10	15	1.80
920658--920727	34	2.1	32	84	5	86	32	15	28	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924601--924648	15	3.3	15	75	18	57	52	2	39	6	1.39
939252--939303	17	3.1	17	97	0	95	21	11	30	36	1.89
953221--953339	63	1.9	63	84	3	159	34	19	18	27	1.95
953917--953969	18	2.9	18	97	0	97	26	18	28	26	1.98
955407--955435	14	2.1	14	100	0	58	44	0	0	55	0.99
956529--956569	20	2.0	21	90	4	66	41	36	7	14	1.74
958823--958855	17	2.0	17	88	5	50	63	6	6	24	1.40
958900--958932	10	3.3	10	95	0	57	12	3	36	48	1.56
960719--960803	35	2.5	33	76	14	82	28	7	10	54	1.61
968674--968751	33	2.4	32	89	4	122	26	47	14	11	1.78
968792--968841	26	1.9	26	100	0	100	24	36	18	22	1.95
968856--968899	23	1.9	23	100	0	88	22	22	27	27	1.99
969331--969389	28	2.1	27	90	9	93	30	1	11	55	1.46
969864--969922	16	3.4	16	72	17	55	37	0	11	50	1.39
969858--969900	16	2.7	16	80	20	54	39	0	11	48	1.40
969882--969926	21	2.2	21	84	4	56	35	0	8	55	1.31
973049--973080	10	3.2	10	90	0	55	25	9	9	56	1.61
973089--973300	48	4.1	49	80	13	257	41	0	10	47	1.38
973136--973239	35	3.3	35	61	29	86	40	0	10	49	1.38
973119--973308	60	3.3	59	78	18	222	41	0	10	48	1.38
973259--973328	25	3.1	22	77	16	72	41	0	8	50	1.33
973279--973327	14	3.7	14	78	15	59	38	0	12	48	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973194--973313	48	2.5	48	91	4	190	41	0	10	48	1.37
973394--973561	11	14.1	12	70	21	72	43	0	11	44	1.41
973401--973718	60	5.3	60	80	16	390	42	0	11	46	1.39
973507--973610	22	4.3	24	72	24	76	39	0	14	46	1.45
973461--973734	71	4.0	71	79	15	290	41	0	11	46	1.40
973136--974020	275	3.2	274	79	11	736	41	2	11	45	1.51
973686--973733	14	3.6	14	81	16	66	35	0	16	47	1.47
973600--973714	48	2.3	49	89	2	178	42	0	9	47	1.36
973686--973734	25	2.0	25	95	0	89	36	0	16	46	1.47
973843--973992	21	6.9	21	64	22	69	40	0	10	49	1.38
973137--973940	406	2.0	405	96	0	1482	41	2	11	44	1.54
973875--974047	58	3.4	48	77	16	184	42	0	9	48	1.35
973960--974067	14	8.8	13	68	26	58	41	0	10	48	1.37
973912--974051	58	2.3	59	89	6	210	42	0	8	49	1.33
974019--974067	25	2.0	25	91	0	80	38	0	14	46	1.44
973137--974061	406	2.3	406	90	2	1369	41	2	11	45	1.51
976357--976420	25	2.4	28	79	10	71	48	12	0	39	1.41
976770--976853	26	3.3	26	93	1	134	8	36	8	46	1.64
977399--977481	29	2.9	29	79	0	85	15	24	37	22	1.93
983772--983861	30	2.9	31	70	20	80	24	17	22	35	1.95
983739--983861	61	2.0	62	87	1	176	21	19	23	34	1.96
983948--983979	15	2.1	15	100	0	64	40	6	12	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992759--992858	31	3.2	31	68	16	98	20	19	26	35	1.96
992756--992880	62	2.0	62	95	0	223	21	19	23	36	1.95
992773--992874	31	3.3	31	67	15	93	23	19	22	34	1.97
992896--992970	31	2.4	31	80	6	89	17	21	28	33	1.96
994757--994813	20	2.8	20	78	21	66	75	0	10	14	1.05
994766--994813	10	4.8	10	75	10	53	77	0	10	12	1.00
994759--994807	20	2.3	20	86	6	71	77	0	12	10	0.99
994819--994847	3	10.0	3	92	7	51	65	0	0	34	0.93
994819--994846	14	2.0	14	100	0	56	64	0	0	35	0.94
995694--995892	42	4.7	42	92	1	319	50	20	5	24	1.67
996080--998027	391	5.0	391	96	1	3662	32	17	14	35	1.90
996080--998027	774	2.5	783	97	1	3745	32	17	14	35	1.90
1004517--1004611	44	2.2	43	85	10	124	27	23	22	27	1.99
1004517--1004611	23	4.4	21	77	13	70	27	23	22	27	1.99
1004536--1004638	23	4.6	23	80	12	117	25	23	25	26	2.00
1006551--1006579	14	2.0	15	93	6	51	6	3	27	62	1.37
1007253--1007359	46	2.3	46	81	13	132	34	18	18	28	1.95
1007298--1007421	64	1.9	65	88	4	189	29	22	20	27	1.99
1008679--1008720	14	2.7	15	85	10	50	64	4	0	30	1.14
1008724--1008757	16	2.1	17	88	5	52	52	2	2	41	1.31
1008776--1009141	37	10.2	35	79	11	352	44	9	3	42	1.53
1010726--1010808	43	1.9	43	87	0	121	22	22	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013799--1013843	11	4.1	11	82	5	56	71	4	11	13	1.29
1013799--1013840	22	1.9	22	90	9	68	69	4	11	14	1.34
1018053--1018101	1	49.0	1	79	0	53	4	0	6	89	0.57
1018053--1018093	9	4.8	9	85	11	59	2	0	7	90	0.54
1018055--1018102	16	3.0	16	87	6	71	4	0	8	87	0.66
1018046--1018102	25	2.2	25	81	6	69	3	1	10	84	0.82
1022725--1023242	259	2.0	259	98	0	1000	27	14	27	31	1.95
1029859--1029940	20	4.1	20	73	13	62	70	0	8	20	1.13
1029939--1029970	3	10.7	3	100	0	64	68	0	0	31	0.90
1029868--1029949	21	4.0	20	75	10	60	69	0	8	21	1.15

Tables:   1   2   3   4   5   6   7   8   9