genome.fa.s9289.2.7.7.80.10.50.1000.5.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: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661737

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 855 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)
922320--922386	31	2.2	31	94	0	116	49	10	8	31	1.68
930542--930575	6	5.7	6	100	0	68	0	17	32	50	1.47
930604--930761	21	7.8	20	72	7	86	38	24	17	18	1.93
930729--930957	20	11.4	20	81	5	230	37	25	17	19	1.94
931869--931893	12	2.1	12	100	0	50	72	0	28	0	0.86
934178--934458	53	5.2	54	91	6	439	44	17	22	14	1.85
934178--934458	19	15.7	19	79	16	332	44	17	22	14	1.85
934178--934458	105	2.6	106	92	4	458	44	17	22	14	1.85
934467--934514	20	2.4	20	100	0	96	14	22	16	45	1.84
934449--934551	50	2.0	54	88	7	160	14	24	17	43	1.86
934650--934686	14	2.6	14	91	0	65	45	21	0	32	1.52
935629--935725	20	5.2	20	72	18	100	46	17	24	11	1.81
935627--935691	21	3.1	21	82	4	96	47	15	26	10	1.78
935676--935732	14	3.7	14	75	20	60	43	22	24	8	1.81
935627--935749	33	3.5	33	90	8	165	46	18	24	10	1.81
935765--935821	14	3.7	14	75	20	60	8	24	22	43	1.81
935760--935828	33	2.1	33	100	0	138	8	23	20	47	1.77
935809--935882	21	3.5	21	80	7	96	14	20	17	47	1.83
935962--936032	33	2.2	33	94	0	124	47	16	23	11	1.79
936411--936603	20	9.6	20	85	5	246	18	19	27	34	1.95
936917--937002	29	3.0	29	89	0	136	53	8	2	36	1.43
949743--949786	21	2.0	21	82	13	52	31	6	15	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
950474--950511	10	3.8	10	86	10	51	63	10	15	10	1.52
950474--950507	10	3.3	11	88	12	54	67	8	14	8	1.41
952712--952810	21	4.8	20	75	6	81	37	22	19	21	1.94
952778--953006	20	11.4	20	79	7	214	36	25	17	20	1.94
953699--953744	24	2.0	23	87	12	67	26	15	21	36	1.93
953919--953943	12	2.1	12	100	0	50	72	0	28	0	0.86
956229--956462	72	3.3	72	80	8	286	47	17	21	13	1.82
956215--956484	53	5.1	52	89	8	406	46	17	22	13	1.83
956205--956489	72	4.0	68	77	13	267	45	17	22	14	1.84
956268--956466	105	1.9	105	92	4	83	46	16	23	13	1.82
956461--956576	53	2.2	52	86	3	160	18	23	18	38	1.93
956499--956586	19	4.8	19	82	14	123	13	22	15	47	1.81
956677--956713	14	2.6	14	91	0	65	45	21	0	32	1.52
958637--958809	19	9.6	19	76	12	150	45	23	20	10	1.82
958731--958787	14	3.7	14	75	20	51	43	22	22	10	1.84
958712--958804	33	2.8	33	95	0	168	46	21	21	10	1.81
958671--958809	52	2.7	52	74	8	147	46	23	21	9	1.80
958821--958879	14	3.9	14	74	20	55	6	18	27	47	1.74
958805--958928	33	3.7	33	91	1	185	8	18	26	45	1.78
958805--958863	19	3.4	19	77	22	83	6	15	30	47	1.71
958805--958896	19	5.4	18	69	24	65	7	18	27	46	1.76
958854--958910	14	3.7	14	75	20	60	8	24	22	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959026--959341	93	3.4	93	98	0	614	45	18	13	22	1.84
961028--961124	20	5.2	20	72	18	100	46	17	24	11	1.81
961026--961090	21	3.1	21	82	4	96	47	15	26	10	1.78
961075--961131	14	3.7	14	75	20	60	43	22	24	8	1.81
961026--961134	33	3.1	33	88	10	137	44	19	25	10	1.81
961157--961230	21	3.5	21	80	7	96	14	20	17	47	1.83
961310--961380	33	2.2	33	94	0	124	47	16	23	11	1.79
961759--961951	20	9.6	20	85	5	246	18	19	27	34	1.95
965798--965873	35	2.2	35	92	0	125	39	23	1	35	1.63
966270--966517	130	1.9	130	90	0	397	37	14	12	35	1.85
966284--966548	130	2.0	129	79	4	282	40	13	12	33	1.82
966841--966898	26	2.2	26	81	6	64	48	1	3	46	1.29
993524--993663	66	2.1	66	93	1	237	21	22	11	44	1.84
1001323--1001356	11	3.0	11	91	4	50	67	0	2	29	1.05
1001359--1001421	6	9.7	7	81	18	59	68	1	0	30	0.99
1001367--1001447	6	12.3	6	76	14	72	65	1	1	32	1.08
1001358--1001421	12	5.0	13	85	11	80	67	1	0	31	1.00
1001336--1001420	32	2.8	30	80	16	86	65	1	1	31	1.07
1001366--1001431	20	3.3	20	81	12	82	69	0	1	28	0.97
1002725--1002819	3	32.0	3	81	10	88	64	0	1	34	1.01
1004353--1004402	16	3.1	15	85	11	55	44	6	20	30	1.75
1004962--1005045	39	2.2	39	95	4	152	41	36	10	10	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004960--1005073	33	3.2	34	82	14	142	44	33	9	12	1.74
1016084--1016108	3	8.3	3	100	0	50	0	32	0	68	0.90
1018047--1018287	113	2.1	113	89	0	376	36	13	15	34	1.87
1019418--1019466	20	2.4	21	82	6	64	38	6	22	32	1.79
1019490--1019525	18	1.9	19	94	5	65	27	11	8	52	1.65
1019720--1019768	25	2.0	25	84	4	64	46	2	8	42	1.45
1020138--1020179	19	2.3	18	87	4	57	50	2	0	47	1.14
1020089--1020208	59	2.0	59	87	3	170	50	4	0	44	1.27
1022603--1022651	26	2.0	25	91	4	73	51	2	0	46	1.12
1022731--1022820	42	2.1	42	83	4	110	41	2	2	54	1.25
1022763--1022852	33	2.6	34	77	17	98	44	2	1	52	1.20
1023898--1023958	24	2.4	25	81	10	63	77	1	4	16	1.03
1024040--1024075	18	1.9	19	88	5	56	69	0	0	30	0.89
1024045--1024174	17	7.7	17	69	17	60	72	1	3	23	1.07
1024110--1024200	15	5.7	15	73	16	67	76	4	1	17	1.00
1024100--1024199	44	2.3	42	77	11	105	76	4	2	18	1.04
1025378--1025434	28	2.0	28	86	0	78	43	8	3	43	1.52
1025399--1025787	38	10.4	37	88	7	542	43	5	4	47	1.44
1025405--1025787	74	5.1	75	88	8	532	43	5	4	46	1.45
1034370--1034411	20	2.0	20	82	13	50	16	11	14	57	1.66
1037606--1037732	63	2.0	63	98	0	245	48	11	14	25	1.78
1038588--1038632	21	2.1	21	87	0	63	44	0	2	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040596--1040745	30	5.0	30	87	0	183	37	18	23	21	1.94
1040596--1040773	90	2.0	90	80	6	200	36	18	25	19	1.94
1048256--1048296	2	21.5	2	90	9	68	48	0	0	51	1.00
1048368--1048432	23	2.8	24	75	17	64	33	15	6	44	1.71
1049060--1049206	30	4.9	30	85	0	168	36	19	23	21	1.95
1053551--1053603	23	2.3	23	87	6	72	15	16	16	50	1.78
1055470--1055796	163	2.0	163	98	0	627	34	11	25	28	1.90
1056738--1056771	15	2.3	15	89	0	50	35	8	26	29	1.87
1058439--1058476	15	2.5	15	87	12	51	42	7	2	47	1.46
1068208--1068243	18	1.9	19	88	5	56	27	11	2	58	1.46
1073636--1073754	21	5.8	21	74	3	71	47	25	1	25	1.61
1077595--1077848	130	1.9	137	84	8	353	35	12	16	36	1.86
1081897--1081955	21	2.8	20	75	14	57	76	6	16	0	1.00
1081911--1081940	15	1.9	16	93	6	53	80	6	13	0	0.91
1081909--1081952	22	2.0	23	86	4	63	77	6	15	0	0.97
1081909--1081943	8	4.7	7	89	10	52	82	5	11	0	0.82
1082538--1082581	22	2.0	22	91	8	72	38	22	11	27	1.88
1083531--1083797	36	7.7	36	76	12	254	28	19	13	39	1.89
1083474--1083860	134	2.8	134	83	5	438	28	19	12	38	1.89
1083581--1083761	100	1.8	99	88	5	276	28	17	13	39	1.88
1083755--1083929	65	2.6	65	84	4	224	33	21	9	36	1.85
1084529--1084978	105	4.3	105	92	2	694	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086110--1086147	16	2.4	17	82	13	53	26	5	2	65	1.27
1086173--1086220	20	2.3	21	75	17	55	29	6	0	64	1.18
1086375--1086440	9	7.3	9	80	10	64	24	3	0	72	0.98
1086369--1086433	30	2.3	30	81	7	73	27	3	0	69	1.03
1086374--1086438	33	2.0	33	84	6	87	26	3	0	70	1.01
1087370--1087801	43	10.1	42	79	9	360	27	18	6	47	1.73
1087341--1087854	86	6.0	83	76	13	393	27	17	6	48	1.71
1087360--1087826	172	2.7	172	83	8	501	27	17	6	47	1.72
1087341--1087848	43	11.8	42	75	12	256	27	17	5	48	1.70
1096337--1096375	8	5.0	8	84	6	53	10	17	12	58	1.61

Tables:   1   2   3   4   5   6   7   8