genome.fa.s8353.2.7.7.80.10.50.1000.5.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: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2583621

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1447 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)
982554--982598	19	2.4	19	84	0	63	37	0	0	62	0.96
982794--982853	29	2.1	29	93	0	102	51	13	6	28	1.66
988156--988215	29	2.1	29	96	0	111	48	13	25	13	1.78
988223--988330	53	2.0	53	96	0	198	28	25	23	23	1.99
989054--989101	20	2.4	20	86	6	62	43	27	16	12	1.84
989072--989281	20	10.5	20	81	5	210	36	25	17	20	1.94
989963--990009	24	2.0	24	87	8	69	25	14	21	38	1.92
992485--992701	19	12.4	19	77	19	240	46	18	21	13	1.83
992485--992682	33	5.8	33	82	13	201	46	18	21	13	1.83
992571--992723	33	4.5	33	74	16	159	45	17	22	13	1.84
992513--992723	52	4.0	52	99	0	413	45	17	23	13	1.83
992734--992788	14	3.6	14	73	21	56	10	23	20	45	1.82
992716--992807	33	2.8	33	90	3	96	18	21	18	41	1.91
992748--992825	19	4.4	19	81	15	112	14	21	17	46	1.84
992932--992968	14	2.6	14	91	0	65	45	21	0	32	1.52
994923--995015	33	2.8	33	91	0	159	47	21	21	9	1.79
994942--994998	14	3.7	14	72	20	51	45	22	22	8	1.80
994886--995020	19	7.6	19	75	16	119	45	23	20	10	1.81
995016--995143	19	7.3	18	75	17	119	8	16	28	46	1.76
995016--995106	33	2.8	33	93	5	150	7	17	28	46	1.76
995191--995659	93	5.1	93	98	0	913	46	18	12	22	1.83
997355--997411	14	3.7	14	75	20	60	43	22	24	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997347--997428	33	2.5	33	100	0	164	47	19	23	9	1.79
997369--997433	19	3.7	19	74	19	77	44	21	23	10	1.83
997445--997501	14	3.7	14	75	20	60	8	24	22	43	1.81
997429--997509	33	2.5	33	93	0	135	8	22	23	45	1.79
997486--997561	21	3.7	21	82	3	100	11	23	18	46	1.82
997485--997562	41	1.9	41	91	0	129	12	24	17	44	1.84
997641--997711	33	2.2	33	92	0	115	47	18	22	11	1.80
998094--998287	20	9.6	20	79	5	203	19	20	24	35	1.95
998094--998287	60	3.2	60	82	0	235	19	20	24	35	1.95
998254--998347	42	2.3	41	74	9	93	23	18	22	36	1.95
1008592--1008621	12	2.6	12	94	5	53	73	0	0	26	0.84
1012719--1012786	26	2.6	26	93	4	111	17	14	32	35	1.91
1020985--1021019	17	2.1	17	88	0	52	65	0	0	34	0.93
1021733--1021779	16	3.1	15	75	19	53	25	6	2	65	1.27
1029242--1029319	17	4.7	17	71	17	74	46	16	0	37	1.48
1029240--1029313	19	4.3	19	69	25	74	47	13	0	39	1.43
1029240--1029334	49	1.9	49	97	0	181	44	15	0	40	1.47
1035565--1035603	21	1.9	20	84	5	51	35	17	2	43	1.63
1036684--1036712	15	1.9	15	100	0	58	34	0	10	55	1.34
1036704--1036849	11	12.4	11	70	21	57	46	2	6	43	1.44
1036749--1036829	24	3.4	23	81	10	83	48	3	7	40	1.49
1036675--1036792	59	2.0	60	89	1	184	40	2	9	47	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036677--1036811	59	2.3	59	86	5	177	43	2	8	45	1.45
1036715--1036859	24	6.2	23	74	19	79	48	2	5	43	1.40
1037242--1037281	17	2.5	15	88	8	53	52	2	0	45	1.14
1037310--1037351	22	1.9	22	90	9	68	40	11	7	40	1.69
1037404--1037450	13	3.5	13	88	2	58	42	2	4	51	1.33
1037400--1037463	24	2.7	23	77	15	69	40	3	3	53	1.33
1037526--1037557	16	2.0	16	100	0	64	43	18	0	37	1.51
1040675--1040813	33	4.2	33	84	5	183	19	20	10	49	1.77
1040675--1040813	65	2.1	67	88	6	203	19	20	10	49	1.77
1042440--1042500	29	2.1	29	90	6	97	26	22	18	32	1.97
1049578--1049626	16	3.1	16	87	0	80	55	22	14	8	1.65
1050694--1050744	24	2.1	24	88	0	75	54	23	11	9	1.66
1050714--1050745	14	2.3	14	100	0	64	50	28	15	6	1.68
1057404--1057458	24	2.3	24	84	3	67	72	0	0	27	0.85
1057404--1057460	28	2.0	29	93	3	98	71	0	0	28	0.86
1057441--1057540	19	5.5	19	75	21	67	58	4	1	37	1.24
1057451--1057564	24	5.0	23	76	18	82	57	4	0	36	1.25
1057500--1057589	2	47.5	2	70	22	61	52	3	1	43	1.25
1057410--1057550	18	7.6	18	72	20	96	61	2	0	34	1.16
1057454--1057562	42	2.6	40	81	17	125	56	4	0	37	1.26
1057452--1057567	18	6.7	18	73	24	81	56	4	0	37	1.25
1059306--1059389	44	1.9	44	85	2	116	48	5	5	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063527--1063906	13	29.8	13	63	20	64	47	3	4	43	1.41
1063527--1063589	26	2.5	26	80	10	76	52	3	0	44	1.17
1063549--1063599	16	3.1	16	81	16	59	50	5	0	43	1.26
1063566--1063736	13	13.3	13	68	13	88	46	5	4	42	1.48
1063571--1063738	72	2.4	68	75	16	182	47	5	4	41	1.49
1063768--1063906	2	70.5	2	70	20	89	47	2	5	44	1.39
1064240--1064333	13	7.1	13	68	21	61	40	6	11	41	1.67
1064240--1064297	18	3.1	18	71	14	55	39	6	12	41	1.69
1064277--1064342	16	4.5	16	68	27	56	39	6	12	42	1.67
1064275--1064367	24	4.3	22	69	20	63	39	5	11	43	1.64
1064240--1064343	42	2.6	42	90	6	162	39	6	12	41	1.69
1064262--1064327	18	3.3	18	68	22	51	42	4	12	40	1.62
1064452--1064530	20	3.9	21	75	5	81	44	26	1	27	1.62
1065218--1065543	99	3.3	99	88	3	476	21	9	18	50	1.75
1067974--1068013	11	3.5	11	80	6	53	40	2	5	52	1.37
1068263--1068309	14	3.7	14	71	26	50	51	4	0	44	1.21
1068261--1068310	23	2.1	24	96	3	93	48	4	0	48	1.20
1068565--1068635	16	4.4	16	87	5	99	39	14	26	19	1.90
1074477--1074509	16	2.1	16	88	5	50	27	18	6	48	1.71
1078446--1078481	18	2.0	18	88	0	54	8	50	0	41	1.33
1080511--1080544	14	2.4	15	90	9	54	52	0	0	47	1.00
1080483--1080534	22	2.4	21	78	9	59	59	0	3	36	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081212--1081266	2	27.5	2	100	0	110	49	0	0	50	1.00
1082437--1083200	136	5.6	136	92	0	1170	25	22	18	33	1.97
1084727--1084751	13	1.9	13	100	0	50	44	8	0	48	1.32
1086855--1086915	20	2.9	21	87	7	79	18	26	34	21	1.96
1105083--1105116	14	2.4	15	90	9	54	52	0	0	47	1.00
1105055--1105106	22	2.4	21	78	9	59	59	0	3	36	1.16
1106971--1107585	136	4.5	136	90	1	880	25	21	17	34	1.96
1119925--1119958	14	2.4	15	90	9	54	52	0	0	47	1.00
1119898--1119952	22	2.3	23	81	12	67	58	0	1	40	1.09
1125556--1125587	15	2.0	17	88	11	50	50	6	12	31	1.65
1130989--1131028	21	1.9	21	85	10	55	45	7	7	40	1.61
1132417--1132976	277	2.0	277	98	0	1093	31	20	15	32	1.94
1137675--1137699	2	12.5	2	100	0	50	52	0	0	48	1.00
1139452--1139497	23	2.0	22	84	12	58	39	0	13	47	1.42
1139512--1139554	19	2.3	19	84	8	52	53	2	0	44	1.13
1140107--1140140	15	2.3	15	90	10	52	29	2	0	67	1.05
1140449--1140487	16	2.5	15	81	18	53	61	5	2	30	1.31
1142980--1143019	21	2.0	19	85	9	53	32	0	17	50	1.47
1151466--1151600	58	2.3	58	90	0	216	32	8	16	42	1.79
1152909--1153077	60	2.8	60	91	0	275	27	42	10	20	1.84
1153905--1153994	47	1.9	47	83	0	117	30	15	17	36	1.91
1153950--1154085	61	2.2	61	86	1	193	30	10	19	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154164--1154225	28	2.2	28	91	0	97	40	8	20	30	1.82
1154661--1154704	16	2.6	17	85	7	72	59	22	2	15	1.48
1154661--1154709	16	3.0	16	87	3	71	55	22	4	18	1.60
1168216--1168271	29	1.9	29	92	7	96	12	35	30	21	1.90
1168330--1168385	29	1.9	29	92	0	94	14	35	30	19	1.91
1168389--1168508	33	3.6	33	87	0	168	10	37	26	25	1.88
1168399--1168546	10	13.5	10	65	17	53	10	35	29	25	1.89
1168388--1168546	66	2.4	67	85	4	205	10	36	28	25	1.88
1168402--1168546	33	4.4	33	85	3	175	10	35	28	25	1.89
1171554--1171593	17	2.4	17	95	0	71	25	5	30	40	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13