genome.fa.s1574.2.7.7.80.10.50.1000.5.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: VEPZ01001574.1 Hibiscus syriacus cultivar Beakdansim tig00003126_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1705968

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 793 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)
968697--969066	200	1.8	201	90	0	598	28	24	14	32	1.95
969245--969436	57	3.4	57	84	3	262	35	16	9	38	1.81
974969--975013	19	2.4	18	82	7	54	35	8	0	55	1.31
974988--975030	13	3.3	12	79	17	50	39	2	0	58	1.11
975726--975763	20	1.9	20	88	0	58	55	13	15	15	1.70
975726--975776	20	2.5	20	83	0	57	58	13	11	15	1.63
977367--977403	2	18.5	2	100	0	74	48	0	0	51	1.00
977808--978043	101	2.3	104	81	11	290	34	7	30	27	1.85
978082--978137	18	3.1	18	97	0	103	35	5	32	26	1.79
978285--978422	61	2.3	61	88	0	204	36	9	7	47	1.64
978495--978552	17	3.5	17	69	21	59	46	6	5	41	1.53
978483--978672	33	5.6	33	72	18	158	43	6	6	43	1.56
978512--978740	18	13.3	18	70	16	155	42	6	6	45	1.54
978520--978740	51	4.3	51	93	1	345	42	6	6	45	1.55
978656--978688	9	3.7	9	84	15	50	39	0	6	54	1.25
978483--978672	86	2.2	83	81	12	226	43	6	6	43	1.56
978573--978746	33	5.3	32	70	15	115	41	5	6	46	1.53
978512--978811	18	17.8	17	69	21	79	42	5	6	45	1.54
978875--978909	15	2.4	15	95	4	63	48	0	5	45	1.26
978878--978949	27	2.7	27	82	0	72	47	2	6	43	1.45
978979--979078	2	48.0	2	68	18	53	46	4	6	44	1.47
979006--979065	7	8.9	7	78	10	54	50	3	5	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979007--979065	20	3.0	20	82	9	75	50	3	5	40	1.41
978979--979080	29	4.0	27	72	21	85	45	3	6	44	1.49
979074--979174	18	4.9	21	73	23	81	43	9	8	37	1.69
979097--979196	18	5.2	18	78	13	101	41	11	8	40	1.70
978993--979207	20	10.8	20	71	17	56	44	7	6	40	1.61
979241--979315	34	2.2	36	85	7	102	46	2	5	45	1.40
979193--979498	20	15.0	20	64	23	72	42	4	7	45	1.52
979268--979315	22	2.2	22	85	7	62	50	0	4	45	1.21
979301--979353	27	2.0	27	96	0	97	47	0	9	43	1.36
979299--979362	27	2.4	27	86	2	85	48	1	7	42	1.41
979353--979387	18	1.9	18	88	0	52	45	5	5	42	1.51
979398--979493	42	2.3	42	75	15	108	42	6	8	42	1.60
979407--979498	18	4.6	19	75	21	66	40	5	9	44	1.60
978939--979515	284	2.0	285	84	7	743	42	5	7	44	1.56
979460--979699	58	4.0	59	76	12	213	40	6	6	47	1.54
979588--979625	18	2.1	18	90	0	58	44	5	2	47	1.39
979555--979639	25	2.9	30	70	23	72	41	4	3	50	1.40
979675--979836	11	14.1	11	68	20	57	45	4	6	43	1.50
979660--979855	20	9.9	20	70	16	99	44	4	7	43	1.52
979654--979739	27	3.2	27	80	6	93	46	2	6	44	1.43
979701--979739	14	2.8	13	81	11	51	51	2	7	38	1.44
979660--979788	4	30.0	4	70	17	73	47	4	5	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979662--979771	27	4.2	26	77	11	89	47	4	5	42	1.47
979667--979885	22	10.1	22	68	19	79	43	3	7	45	1.50
979758--979885	11	12.1	11	68	21	51	40	3	8	46	1.53
979967--980018	22	2.4	22	81	12	70	48	5	1	44	1.38
979958--980071	53	2.2	53	90	0	174	46	6	2	44	1.42
979981--980041	31	1.9	30	90	6	86	47	4	1	45	1.34
980013--980247	20	11.7	20	71	17	98	44	4	5	45	1.46
980120--980264	2	72.0	2	69	18	88	46	2	3	46	1.34
980094--980266	9	18.9	9	68	23	60	44	2	5	46	1.42
980120--980264	11	14.4	10	72	16	88	46	2	3	46	1.34
980369--980849	208	2.3	210	89	4	711	30	11	7	50	1.66
983588--983634	24	2.0	25	87	8	71	44	29	8	17	1.78
995912--996330	35	12.6	35	72	11	240	41	17	18	22	1.90
996026--996324	30	9.2	30	69	14	114	41	16	18	23	1.89
996045--996324	65	4.3	65	86	0	353	41	17	17	23	1.90
997733--997802	24	3.0	24	85	2	97	51	17	14	17	1.77
997739--997799	12	5.3	11	72	16	52	52	16	14	16	1.75
997733--997840	24	4.5	25	76	10	84	50	15	13	19	1.77
1003214--1003290	37	2.1	37	85	4	102	48	2	3	45	1.34
1003517--1003632	30	3.9	30	97	0	214	46	12	22	18	1.82
1003655--1003714	30	2.0	30	100	0	120	23	40	23	13	1.90
1003786--1003811	5	5.2	5	100	0	52	0	19	57	23	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004249--1004274	13	2.0	13	100	0	52	38	7	7	46	1.61
1005422--1005482	24	2.5	23	76	10	68	11	21	14	52	1.73
1007010--1007127	15	7.5	15	81	13	139	44	0	2	52	1.14
1007130--1007172	22	2.0	22	100	0	86	39	0	9	51	1.34
1007055--1007396	106	3.2	101	76	16	327	35	0	11	51	1.41
1007107--1007395	54	5.4	54	84	10	387	34	0	13	51	1.43
1007025--1007206	69	2.7	67	77	10	199	42	0	6	51	1.26
1007152--1007257	31	3.7	31	75	22	122	36	0	11	50	1.45
1007228--1007275	22	2.4	18	73	23	51	33	0	14	52	1.42
1007259--1007326	26	2.6	26	100	0	136	23	0	22	54	1.45
1007343--1007385	22	2.0	22	95	0	77	32	0	16	51	1.45
1007410--1007468	31	1.9	31	89	0	91	44	10	6	38	1.65
1008755--1008824	20	3.5	20	100	0	140	27	25	18	28	1.98
1008815--1008863	20	2.5	20	89	0	80	44	20	14	20	1.86
1008753--1008840	40	2.2	38	80	11	113	30	25	18	26	1.98
1009345--1009450	20	5.9	19	71	25	97	50	21	12	15	1.76
1009348--1009469	34	3.6	34	95	0	208	50	22	13	13	1.77
1009368--1009456	14	5.5	14	67	27	52	50	24	12	12	1.74
1009469--1009523	20	2.8	20	85	0	83	16	16	20	47	1.83
1011098--1011160	11	5.6	11	83	3	81	80	7	9	1	0.95
1018829--1018878	21	2.4	21	82	0	64	18	12	34	36	1.87
1018895--1019011	21	5.5	22	76	8	68	20	11	32	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018831--1019007	63	2.8	62	78	6	171	20	12	33	33	1.90
1018953--1019025	21	3.5	21	92	0	101	20	17	27	34	1.95
1019285--1019378	21	4.7	20	77	7	93	25	36	15	22	1.94
1023482--1023528	24	2.0	24	86	0	67	34	17	21	27	1.95
1024248--1024285	16	2.5	15	84	12	51	65	0	5	28	1.14
1024442--1024591	20	7.4	20	68	16	69	33	12	23	31	1.91
1024443--1024673	40	5.8	40	72	9	130	31	12	24	31	1.92
1025107--1025137	13	2.4	13	100	0	62	54	16	6	22	1.64
1025494--1025518	2	12.5	2	100	0	50	48	0	0	52	1.00
1028646--1028825	60	3.0	60	81	3	218	32	22	4	40	1.74
1030450--1030579	59	2.2	58	91	5	210	25	16	6	51	1.68
1036789--1036814	2	13.0	2	100	0	52	50	0	0	50	1.00
1039368--1039420	15	3.6	14	84	5	70	20	30	28	20	1.98
1039367--1039432	29	2.3	30	82	12	84	21	33	25	19	1.97
1040406--1040464	27	2.1	28	93	3	102	47	16	13	22	1.82
1041569--1041639	23	3.1	23	100	0	142	25	21	32	21	1.98
1042115--1042150	15	2.4	15	100	0	72	19	8	44	27	1.79
1050601--1050679	41	2.0	40	84	2	104	27	11	22	37	1.89
1052286--1052338	25	2.1	25	92	0	88	43	15	9	32	1.78
1053538--1053597	19	3.4	19	73	17	74	11	13	25	50	1.75
1053529--1053605	34	2.3	34	95	0	136	11	12	27	48	1.76
1053954--1053997	18	2.5	19	79	20	51	63	4	18	13	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061546--1061592	20	2.3	20	88	0	67	44	14	21	19	1.86
1061616--1061744	66	2.0	66	96	0	240	23	15	19	41	1.89
1062632--1063449	407	2.0	407	97	0	1555	27	25	17	29	1.97
1072989--1073030	22	1.9	22	95	0	75	42	14	19	23	1.87
1078083--1078136	25	2.1	25	83	16	67	24	5	0	70	1.08
1080816--1080860	21	2.1	21	84	15	58	28	11	0	60	1.31
1089386--1089427	20	2.1	20	100	0	84	52	23	0	23	1.47
1090861--1090940	22	3.8	21	74	11	74	22	23	27	26	2.00
1100358--1100433	31	2.5	31	78	17	88	9	13	7	69	1.35
1104445--1104469	10	2.5	10	100	0	50	0	8	8	84	0.79

Tables:   1   2   3   4   5   6   7