genome.fa.s8577.2.7.7.80.10.50.1000.4.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: VEPZ01008577.1 Hibiscus syriacus cultivar Beakdansim tig00111506_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1329373

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 525 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)
910589--910621	17	2.0	17	88	5	50	63	6	0	30	1.18
912345--912394	21	2.4	21	86	6	66	12	20	26	42	1.86
912756--912804	22	2.3	21	78	3	53	48	6	4	40	1.47
912771--912917	65	2.3	65	79	12	162	45	6	3	44	1.47
912827--912891	26	2.5	26	77	5	78	44	4	4	46	1.44
912913--912951	17	2.3	16	83	12	51	43	5	5	46	1.48
912860--913006	39	3.8	39	78	11	160	44	5	4	45	1.45
912857--913006	78	1.9	81	91	4	252	44	6	4	46	1.47
912973--913030	24	2.4	24	88	11	84	44	5	1	48	1.35
912931--913081	61	2.5	61	87	3	223	43	7	3	45	1.49
913042--913100	22	2.6	21	82	12	64	45	10	1	42	1.48
912804--913068	140	1.9	141	84	10	339	43	6	3	45	1.48
913070--913134	26	2.5	24	82	9	67	43	4	0	52	1.22
913965--914011	24	2.0	24	95	0	85	25	0	10	63	1.26
914191--914224	2	17.0	2	93	0	59	50	2	0	47	1.16
918720--918853	60	2.2	60	82	5	155	34	18	15	31	1.93
925505--925541	18	2.1	17	90	5	56	40	8	35	16	1.78
934318--934477	80	2.0	80	100	0	320	18	26	20	35	1.95
935353--935458	24	4.5	24	93	1	178	30	22	24	22	1.99
935449--935502	23	2.3	23	87	0	72	33	24	22	20	1.97
938986--939063	35	2.2	35	95	0	138	17	23	10	48	1.78
941250--941306	21	2.7	21	83	0	60	21	33	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942397--942465	24	2.9	25	79	18	76	52	2	1	43	1.25
942523--942614	40	2.2	42	81	11	102	45	1	2	51	1.20
942554--942611	26	2.2	26	78	6	64	44	1	1	51	1.21
943523--943566	19	2.4	19	96	3	81	25	11	11	52	1.70
943717--943776	23	2.6	23	86	5	68	30	15	10	45	1.78
943804--943847	23	1.9	23	90	0	70	38	6	9	45	1.63
943709--943915	87	2.4	86	84	3	254	32	10	11	45	1.73
943813--943857	23	2.0	23	86	0	63	40	8	11	40	1.72
943836--943973	64	2.2	64	90	0	213	32	7	13	46	1.72
943900--944114	87	2.5	87	83	4	290	33	9	12	44	1.75
943772--944069	151	2.0	151	87	1	427	32	9	11	46	1.72
944042--944092	23	2.2	23	89	0	75	33	19	9	37	1.85
947375--947460	33	2.6	31	81	7	91	24	16	18	40	1.90
952829--952877	25	2.0	25	95	0	89	30	22	8	38	1.83
955406--955447	22	1.9	22	95	0	75	40	19	14	26	1.89
958536--958637	23	4.3	23	70	18	66	41	2	1	53	1.27
958967--958997	9	3.4	9	95	0	53	16	25	0	58	1.38
959450--959502	3	17.7	3	80	7	63	66	0	32	1	1.03
960217--960267	2	25.5	2	91	0	84	47	0	52	0	1.00
965390--965414	3	8.3	3	100	0	50	32	0	0	68	0.90
981026--981063	7	5.4	7	100	0	76	26	0	26	47	1.52
991346--991462	33	3.6	34	71	14	120	25	28	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991321--991467	64	2.3	64	96	1	267	26	31	12	29	1.93
991321--991417	33	3.0	31	68	18	90	26	32	12	27	1.92
991548--991613	24	2.8	24	83	0	87	34	30	9	25	1.87
992151--992192	15	2.8	15	96	0	75	23	14	19	42	1.87
992803--992968	45	3.8	44	79	9	171	41	19	18	20	1.90
992838--992959	15	8.5	15	66	15	62	44	19	17	18	1.87
992829--992957	39	3.2	39	79	8	107	42	20	17	19	1.89
992850--992895	24	1.9	24	81	0	56	39	23	17	19	1.92
992803--992957	84	1.8	84	86	2	222	42	19	17	20	1.89
992883--992959	30	2.6	30	72	0	82	46	16	16	19	1.84
995251--995471	64	3.5	64	81	3	214	34	19	18	27	1.95
996391--996483	30	3.1	30	93	1	152	20	21	26	31	1.98
999054--999116	23	2.7	23	92	0	99	12	19	34	33	1.89
1002056--1002133	29	2.7	29	89	2	111	46	12	8	32	1.73
1002042--1002373	131	2.5	129	86	5	448	41	12	11	34	1.78
1002188--1002264	29	2.6	29	91	2	118	41	14	11	32	1.82
1002230--1002481	108	2.3	108	88	3	364	39	11	11	37	1.78
1002446--1002510	29	2.2	29	88	0	94	49	10	6	33	1.63
1002565--1002628	29	2.2	29	88	0	92	45	10	9	34	1.72
1008753--1008808	2	29.0	2	89	7	89	50	0	0	50	1.00
1010894--1010928	2	17.5	2	100	0	70	48	0	0	51	1.00
1014677--1014828	70	2.2	70	81	9	168	34	9	9	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017902--1017947	25	1.9	23	82	8	56	41	6	4	47	1.49
1020062--1020102	14	2.9	14	81	0	55	41	19	17	21	1.90
1020105--1020140	14	2.6	14	100	0	72	19	22	33	25	1.97
1020105--1020183	14	5.6	14	79	11	63	25	20	26	27	1.99
1020193--1020231	19	2.1	19	85	0	51	15	25	28	30	1.96
1021362--1021393	2	16.0	2	100	0	64	50	0	0	50	1.00
1033119--1033158	2	20.0	2	100	0	80	50	0	0	50	1.00
1042056--1042219	82	2.0	82	97	1	310	51	5	6	36	1.50
1042521--1042571	18	2.8	18	85	8	59	25	1	0	72	0.95
1044356--1044389	18	1.9	17	88	5	50	17	23	29	29	1.97
1046229--1046268	2	20.0	2	100	0	80	50	0	0	50	1.00
1046288--1046327	21	2.0	20	85	5	53	35	0	5	60	1.19
1048655--1048711	28	2.0	28	86	6	80	31	14	21	33	1.92
1048834--1048952	60	2.0	60	83	3	150	35	18	17	28	1.94
1061399--1061424	2	13.0	2	100	0	52	50	0	0	50	1.00
1061665--1061729	32	2.0	32	87	0	94	40	12	3	44	1.57
1064723--1064766	2	22.0	2	100	0	88	50	0	0	50	1.00
1065716--1065764	21	2.3	21	96	0	89	34	20	16	28	1.94
1067154--1067197	19	2.1	22	88	12	67	40	11	4	43	1.61
1080915--1080963	3	16.3	3	100	0	98	65	0	34	0	0.93
1083696--1083734	21	2.0	20	85	14	55	38	12	10	38	1.78
1092497--1092526	15	2.0	15	100	0	60	53	0	6	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099176--1099256	37	2.2	38	80	13	96	50	2	1	45	1.22
1107050--1107628	217	2.7	216	90	4	870	24	12	26	36	1.91
1113170--1113221	15	3.4	15	72	15	52	1	57	3	36	1.28
1115350--1115438	41	2.2	41	88	6	128	50	1	1	47	1.15
1115742--1115801	19	3.3	19	73	17	63	55	23	11	10	1.66
1122150--1122182	11	3.1	11	86	4	50	54	0	9	36	1.32
1125462--1125553	38	2.4	38	82	8	100	46	9	7	35	1.65
1126102--1126209	24	4.9	23	74	17	95	27	4	0	66	1.17
1126161--1126213	25	2.0	27	89	10	83	30	0	1	67	1.01
1126088--1126231	63	2.3	59	74	20	130	23	6	0	68	1.18
1126180--1126270	11	8.5	10	74	17	60	19	5	2	72	1.15
1126377--1126449	25	3.2	24	73	25	68	30	5	0	64	1.16
1126729--1126883	9	17.1	9	68	21	51	24	3	2	69	1.16
1126729--1126883	13	11.8	13	66	18	63	24	3	2	69	1.16
1126804--1126883	22	3.5	22	75	18	67	18	2	2	76	1.02
1126745--1126881	27	5.0	27	69	19	70	22	3	2	70	1.16
1128864--1128906	2	21.5	2	100	0	86	48	0	0	51	1.00
1143527--1144049	277	1.9	278	91	2	863	28	19	14	36	1.92
1148748--1148788	19	2.1	20	86	13	59	53	2	2	41	1.27
1149435--1149471	2	19.0	2	94	5	67	51	0	0	48	1.00
1151692--1151740	21	2.3	22	79	10	57	34	24	14	26	1.94
1158754--1159116	41	8.9	41	86	3	410	28	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161973--1162012	13	3.3	13	73	20	50	7	25	10	57	1.57
1162734--1163046	128	2.4	129	82	6	352	25	23	20	30	1.99
1162735--1163046	85	3.7	83	82	5	288	25	23	20	29	1.99
1162902--1163064	86	1.9	88	84	5	224	24	26	19	28	1.99
1162736--1163046	43	7.3	43	85	4	319	26	23	20	29	1.99
1163512--1163538	8	3.4	8	100	0	54	29	0	0	70	0.88
1168337--1168363	2	13.5	2	100	0	54	48	0	0	51	1.00
1175547--1175584	2	19.0	2	100	0	76	50	0	0	50	1.00
1179332--1179380	20	2.5	20	80	10	55	30	28	4	36	1.76
1185000--1185049	15	3.2	16	80	11	59	48	0	0	52	1.00

Tables:   1   2   3   4   5