genome.fa.s3132.2.7.7.80.10.50.1000.5.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: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1555756

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 823 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)
987441--987537	23	4.2	23	74	4	79	27	19	13	39	1.89
987510--987577	34	2.0	35	85	8	95	23	14	16	45	1.84
989258--989291	12	2.9	12	91	4	52	44	38	0	17	1.49
989258--989291	18	1.9	17	88	5	50	44	38	0	17	1.49
989665--989689	2	12.5	2	100	0	50	52	0	0	48	1.00
999760--999815	29	1.9	29	92	0	94	12	35	30	21	1.90
999852--999884	14	2.4	14	94	0	57	6	30	39	24	1.79
1012740--1012786	18	2.5	20	73	20	55	70	4	2	23	1.16
1014688--1014726	2	21.0	2	85	15	57	51	0	0	48	1.00
1014687--1014726	11	3.6	11	87	12	64	52	0	0	47	1.00
1014688--1014727	20	2.0	20	90	9	64	50	0	0	50	1.00
1014688--1014730	22	2.0	21	95	4	77	48	0	0	51	1.00
1014871--1015054	13	14.9	13	69	19	94	43	3	5	46	1.46
1014863--1015054	24	7.8	24	75	15	135	43	3	5	46	1.44
1014965--1015053	34	2.6	34	82	7	99	43	3	3	49	1.35
1014992--1015059	21	3.1	22	80	13	79	48	2	2	45	1.32
1015179--1015210	13	2.4	14	94	5	57	46	6	6	40	1.54
1016674--1016729	13	4.3	13	88	6	87	41	7	5	46	1.54
1016681--1016729	25	1.9	26	95	4	91	40	8	4	46	1.52
1018796--1018907	51	2.2	52	86	1	154	58	12	8	21	1.60
1023820--1023845	2	13.0	2	100	0	52	50	0	0	50	1.00
1027623--1027664	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027712--1027744	14	2.3	15	89	5	50	57	0	0	42	0.98
1030359--1030402	3	14.7	3	100	0	88	68	0	0	31	0.90
1030661--1030789	65	2.0	65	100	0	258	32	12	13	41	1.82
1031428--1031482	23	2.3	23	84	3	65	41	3	7	47	1.49
1036605--1036644	15	2.7	15	88	3	55	22	15	12	50	1.77
1039882--1039919	12	3.0	12	85	14	58	81	0	18	0	0.69
1039882--1039919	14	2.9	13	88	11	60	81	0	18	0	0.69
1041861--1042080	114	1.9	114	91	0	359	32	17	20	29	1.95
1044471--1044522	22	2.4	22	90	0	86	34	13	13	38	1.84
1044927--1045471	113	4.8	112	94	2	896	38	14	19	27	1.90
1044927--1045471	224	2.4	226	92	1	907	38	14	19	27	1.90
1045426--1045491	20	3.3	20	65	23	57	50	10	24	15	1.75
1045411--1045511	40	2.5	40	96	0	193	49	8	23	17	1.75
1045296--1045613	154	2.1	153	95	1	573	40	12	20	26	1.88
1050413--1050446	16	2.1	17	94	5	61	41	5	17	35	1.74
1055016--1055052	18	2.0	19	89	5	58	56	0	8	35	1.29
1057473--1057529	15	3.8	15	73	0	60	40	0	50	8	1.33
1057471--1057535	24	2.7	24	80	0	67	41	1	49	7	1.41
1057498--1057528	12	2.6	12	89	0	53	38	0	54	6	1.26
1059287--1059320	2	17.0	2	100	0	68	50	0	0	50	1.00
1066027--1066074	14	3.4	14	76	2	51	25	2	10	62	1.38
1066362--1066432	27	2.6	27	77	6	72	61	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066411--1066444	15	2.1	15	89	10	50	67	0	0	32	0.91
1066448--1066488	15	2.7	16	77	11	50	63	2	0	34	1.08
1066419--1066490	33	2.2	33	85	9	96	62	1	1	34	1.13
1066419--1066507	31	2.8	30	77	14	74	61	1	1	35	1.11
1066465--1066522	27	2.2	27	87	3	82	53	0	0	46	1.00
1068053--1068118	30	2.2	30	86	0	87	12	25	25	36	1.91
1068652--1068676	2	12.5	2	100	0	50	48	0	0	52	1.00
1070248--1070277	12	2.4	13	88	11	53	60	0	0	40	0.97
1070375--1070434	24	2.5	24	81	13	61	73	5	5	16	1.19
1070827--1070879	22	2.4	21	84	9	70	3	43	32	20	1.70
1071661--1071715	15	3.4	17	78	12	53	72	0	3	23	1.00
1071713--1071763	27	1.9	27	84	11	70	52	5	1	39	1.37
1071730--1071880	39	3.9	38	80	11	146	45	5	3	45	1.42
1071866--1071895	15	1.9	16	93	6	53	53	6	0	40	1.27
1071789--1071972	91	2.0	91	87	8	266	44	4	4	46	1.46
1071830--1071931	27	3.8	25	70	20	73	44	4	3	47	1.43
1071901--1072067	36	4.6	36	79	8	124	45	6	2	44	1.45
1071882--1072084	37	5.4	37	79	10	200	44	6	3	44	1.49
1071944--1072106	74	2.2	71	82	7	184	47	7	3	41	1.49
1071981--1072107	37	3.5	34	77	11	101	47	7	3	41	1.48
1072699--1073731	165	6.2	163	86	5	1121	24	21	25	29	1.99
1072699--1073711	249	4.1	248	85	4	1181	24	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072640--1073731	333	3.3	328	85	4	1336	24	20	24	30	1.99
1077093--1077137	19	2.4	19	85	3	65	64	11	13	11	1.50
1077765--1077797	17	1.9	17	93	0	57	72	9	12	6	1.26
1079327--1079368	22	1.9	22	100	0	84	4	45	28	21	1.72
1079325--1079378	22	2.5	22	87	0	81	3	46	31	18	1.67
1080211--1080261	27	1.9	27	84	11	70	52	5	1	39	1.37
1080228--1080310	41	2.0	40	86	2	112	40	4	3	50	1.41
1080280--1080379	43	2.6	38	80	15	100	44	5	4	47	1.43
1080279--1080369	41	2.2	42	86	7	123	42	4	4	48	1.43
1080366--1080394	15	1.9	15	100	0	58	51	6	0	41	1.28
1080289--1080471	90	2.0	91	87	7	264	43	4	4	46	1.46
1080400--1080566	36	4.6	36	79	8	124	45	6	2	44	1.45
1080381--1080583	37	5.4	37	79	10	200	44	6	3	44	1.49
1080443--1080605	74	2.2	71	82	7	184	47	7	3	41	1.49
1080480--1080606	37	3.5	34	77	11	101	47	7	3	41	1.48
1094416--1094440	13	1.9	13	100	0	50	36	0	0	64	0.94
1098075--1098188	42	2.7	43	91	2	187	16	17	16	49	1.81
1098401--1098470	27	2.9	23	74	24	63	50	1	1	47	1.19
1098453--1098558	30	3.6	29	79	17	105	44	0	1	52	1.18
1098543--1098604	23	2.6	23	84	5	70	51	4	3	40	1.39
1098885--1098934	20	2.5	20	93	0	82	34	12	10	44	1.75
1098917--1098989	30	2.5	30	90	2	112	32	16	6	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098917--1098989	15	4.9	15	76	3	76	32	16	6	43	1.74
1099061--1099142	30	2.8	29	85	9	112	42	3	15	37	1.65
1099072--1099142	15	4.8	15	78	3	81	42	4	16	36	1.68
1099076--1099142	30	2.3	30	94	2	118	41	4	17	35	1.70
1099286--1099344	23	2.6	23	78	8	57	47	3	0	49	1.18
1099274--1099374	50	2.0	52	80	7	118	47	1	0	50	1.12
1099323--1099494	89	1.9	87	81	9	204	45	0	4	49	1.22
1099650--1099699	22	2.3	23	83	16	63	52	0	2	46	1.12
1099913--1100004	41	2.2	42	90	1	141	50	18	14	17	1.79
1101291--1101327	20	1.9	19	89	10	58	45	10	24	18	1.81
1103733--1103803	34	2.1	34	100	0	142	29	16	11	42	1.83
1104327--1104389	7	9.0	7	100	0	126	42	0	57	0	0.99
1105204--1105581	187	2.0	188	88	1	553	36	11	5	47	1.61
1112038--1112125	45	1.9	47	88	4	135	29	11	19	39	1.86
1121794--1121862	28	2.5	28	81	6	79	76	1	13	8	1.07
1121850--1121896	18	2.8	17	78	12	53	72	2	19	6	1.17
1121876--1121929	24	2.2	26	84	12	71	75	1	18	3	1.03
1121843--1121952	43	2.6	40	82	15	125	72	0	20	6	1.11
1121910--1121944	17	2.1	16	94	5	61	77	0	17	5	0.96
1123193--1123265	37	2.0	37	100	0	146	35	19	23	21	1.96
1123282--1123711	55	8.0	54	80	8	434	29	16	25	28	1.97
1123282--1123647	106	3.4	107	80	8	440	28	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123282--1123646	161	2.3	161	90	1	563	29	16	25	28	1.97
1129841--1129901	21	3.2	21	65	29	64	32	3	21	42	1.69
1129834--1129952	35	3.3	36	87	6	170	33	2	21	42	1.66
1134461--1134524	21	3.4	20	66	29	59	31	6	17	45	1.73
1134454--1134574	35	3.4	36	88	5	183	32	5	18	43	1.73
1136817--1136867	15	3.4	15	86	0	75	9	15	66	7	1.43
1141770--1141807	20	1.9	20	88	0	58	21	26	10	42	1.85
1143596--1144013	209	2.0	209	100	0	836	25	20	22	30	1.98
1144459--1144499	20	2.0	21	90	4	66	24	0	7	68	1.15
1147804--1147863	23	2.6	24	78	5	70	68	8	0	23	1.16

Tables:   1   2   3   4   5   6   7