genome.fa.s1838.2.7.7.80.10.50.1000.6.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2134 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)
1078599--1078663	21	3.1	21	68	4	51	23	35	20	21	1.96
1080014--1080050	14	2.6	14	88	12	58	32	0	18	48	1.49
1080157--1080207	14	3.1	17	72	21	54	45	17	23	13	1.84
1080157--1080236	33	2.4	33	93	0	133	46	21	21	11	1.82
1080157--1080215	19	3.4	19	73	22	74	45	18	22	13	1.84
1080246--1080372	33	3.8	33	91	0	200	14	23	16	45	1.84
1080248--1080372	66	1.9	66	94	0	223	14	23	16	46	1.83
1080242--1080372	19	7.7	19	65	23	76	13	23	16	45	1.83
1082683--1082709	14	1.9	14	100	0	54	7	11	29	51	1.64
1082909--1082962	24	2.2	24	93	0	90	40	20	18	20	1.91
1082909--1082976	24	2.8	24	84	0	64	38	20	17	23	1.93
1083825--1083952	20	6.4	21	84	5	151	35	17	19	27	1.95
1083825--1083951	41	3.2	41	85	5	163	35	18	19	26	1.95
1083932--1084026	41	2.6	34	78	21	120	23	21	16	38	1.92
1083824--1084027	20	10.5	20	78	12	144	30	19	18	31	1.95
1083824--1084066	20	12.4	20	77	11	139	31	18	19	30	1.96
1083958--1084044	41	2.1	41	84	0	111	27	19	19	33	1.96
1084011--1084065	21	2.6	21	88	5	76	34	16	25	23	1.95
1085412--1085464	27	2.0	27	84	0	70	64	0	9	26	1.24
1087246--1087287	20	2.1	20	95	0	75	40	7	23	28	1.81
1092540--1092600	29	2.1	29	87	0	86	26	21	6	45	1.76
1092984--1093128	47	3.1	47	91	2	229	20	20	11	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093042--1093122	20	3.7	20	69	20	63	20	24	12	41	1.87
1093155--1093441	34	7.5	34	70	23	178	27	22	11	37	1.89
1093135--1093500	79	4.6	79	90	0	552	27	22	11	38	1.88
1093347--1093490	45	3.5	44	72	21	148	27	22	12	36	1.91
1093979--1094015	20	1.9	19	89	10	58	24	27	16	32	1.96
1093891--1094114	95	2.4	95	86	4	292	25	25	15	33	1.95
1094126--1094166	21	2.0	21	90	0	64	31	7	19	41	1.79
1095253--1095290	20	1.9	19	89	5	58	15	13	21	50	1.78
1097133--1097157	9	2.8	9	100	0	50	32	8	0	60	1.26
1101947--1101996	22	2.3	22	92	0	82	22	4	12	62	1.46
1112727--1112780	21	2.6	21	96	0	99	42	25	16	14	1.87
1117306--1117422	42	2.8	42	74	5	128	26	20	20	32	1.97
1116799--1117575	258	3.0	258	89	1	1171	32	15	16	35	1.91
1118009--1118632	45	14.1	44	78	9	410	24	17	16	41	1.90
1118009--1118597	90	6.7	91	76	8	500	24	17	16	41	1.89
1118011--1118621	216	2.8	218	86	4	804	25	17	17	40	1.90
1118588--1118746	51	3.1	49	85	9	196	26	20	18	35	1.95
1118626--1118746	51	2.4	50	93	4	206	24	22	17	35	1.95
1118629--1118769	51	2.7	51	84	5	133	27	20	16	35	1.94
1119765--1119862	49	2.0	49	97	0	187	29	15	28	26	1.96
1120006--1120261	2	128.0	2	72	17	95	48	0	6	43	1.34
1120006--1120167	73	2.2	74	83	6	206	50	0	8	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120096--1120168	29	2.5	29	84	4	94	50	1	9	38	1.44
1120153--1120192	21	1.9	21	94	0	71	47	0	7	45	1.31
1120006--1120261	73	3.4	71	76	12	181	48	0	6	43	1.34
1120230--1120291	22	2.9	21	81	9	63	48	0	6	45	1.28
1121322--1121361	20	2.1	19	95	4	71	22	25	10	42	1.84
1121262--1121548	87	3.2	87	81	11	297	34	26	7	31	1.85
1121391--1121461	32	2.2	33	89	5	117	26	23	9	39	1.86
1121341--1121527	99	1.9	100	89	1	295	35	26	7	31	1.84
1122971--1123017	21	2.4	19	83	13	60	25	4	4	65	1.29
1123665--1123702	19	2.0	20	84	5	51	15	2	5	76	1.08
1124281--1124438	37	4.2	38	77	4	144	47	6	1	43	1.41
1124275--1124438	75	2.2	74	80	3	186	46	7	2	43	1.44
1129146--1129179	4	8.0	4	96	3	50	29	0	0	70	0.87
1129629--1129669	21	2.0	20	85	4	55	36	4	0	58	1.20
1129955--1130006	3	17.3	3	100	0	104	67	0	0	32	0.91
1131417--1131463	21	2.2	21	85	7	60	63	8	10	17	1.49
1132607--1132635	10	3.0	10	95	5	51	89	0	0	10	0.48
1133072--1133116	21	2.1	21	84	8	56	24	2	22	51	1.60
1136845--1136879	18	1.9	18	88	11	54	31	0	5	62	1.18
1136852--1136906	21	2.6	21	88	5	85	32	0	7	60	1.24
1138355--1138388	12	2.9	12	86	4	52	29	0	0	70	0.87
1140382--1140451	36	1.9	36	100	0	140	32	18	22	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144159--1144389	115	2.0	116	97	2	439	39	18	22	19	1.92
1150178--1150236	9	7.2	8	76	16	59	79	0	8	11	0.93
1150177--1150236	17	3.7	16	85	14	79	80	0	8	11	0.92
1151240--1151304	20	3.3	20	67	18	55	44	12	21	21	1.85
1151222--1151400	92	2.0	91	92	2	297	39	16	21	22	1.92
1151316--1151659	135	2.6	135	89	3	511	34	17	22	25	1.95
1151695--1151862	90	1.9	89	86	6	239	37	14	22	25	1.92
1151996--1152052	3	19.0	3	76	7	53	31	0	5	63	1.17
1151996--1152057	24	2.5	24	87	7	90	33	0	4	61	1.17
1159960--1159994	2	17.5	2	87	0	52	54	2	0	42	1.15
1160551--1160651	21	4.7	21	78	9	96	42	21	12	22	1.87
1169178--1169212	15	2.3	15	100	0	70	34	31	14	20	1.92
1172813--1172931	42	2.8	42	89	0	193	18	18	16	46	1.85
1173102--1173162	22	2.8	23	82	7	65	47	0	0	52	1.00
1173128--1173230	54	1.9	52	84	11	138	48	0	0	49	1.14
1173215--1173277	27	2.2	28	86	10	85	46	0	1	52	1.10
1173295--1173464	90	1.9	86	81	11	202	51	4	0	44	1.20
1173608--1173651	20	2.2	20	100	0	88	31	13	9	45	1.75
1173640--1173717	30	2.6	30	87	2	113	35	16	7	39	1.78
1173656--1173706	15	3.4	15	86	0	75	39	17	5	37	1.74
1175269--1175298	2	15.0	2	100	0	60	50	0	0	50	1.00
1177297--1178955	826	2.0	828	95	0	2993	40	14	10	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181058--1181121	29	2.2	30	82	2	76	35	21	6	35	1.79
1193129--1193202	35	2.1	35	87	5	105	43	16	0	40	1.48
1193206--1193273	35	1.9	35	84	0	91	32	1	23	42	1.63
1194151--1194192	21	2.0	21	90	9	68	23	23	19	33	1.97
1194754--1194806	22	2.4	22	90	0	88	20	24	20	33	1.97
1194960--1195006	21	2.3	21	77	3	51	40	10	6	42	1.65
1195019--1195102	44	1.9	44	82	0	105	34	20	7	38	1.80
1200306--1200330	12	2.1	12	100	0	50	48	16	8	28	1.74
1201265--1201337	36	2.0	36	84	10	96	49	4	1	45	1.29
1204081--1205053	201	4.8	200	83	4	1115	38	12	16	33	1.85
1209104--1209448	177	1.9	177	85	4	473	39	14	14	31	1.86
1209276--1209782	199	2.5	198	84	5	630	39	13	15	31	1.86
1209812--1209939	64	2.0	64	89	0	193	31	11	12	44	1.78
1210211--1210448	20	11.6	20	81	7	237	14	21	23	39	1.91
1210186--1210476	42	7.0	41	81	8	288	16	21	22	39	1.92
1210398--1210467	22	3.3	21	71	15	63	15	22	24	37	1.93
1210189--1210511	102	3.2	102	83	7	399	17	20	22	39	1.92
1210461--1210545	19	4.3	19	75	8	89	20	20	17	42	1.90
1210255--1210508	122	2.1	119	78	11	264	16	21	21	40	1.91
1210422--1210541	60	2.0	60	90	4	188	20	20	17	41	1.90
1210211--1210536	164	2.0	163	83	7	410	16	21	21	40	1.91
1210631--1210686	6	9.5	6	98	1	105	32	51	16	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211168--1211208	5	8.4	5	97	2	75	0	41	21	36	1.54
1211209--1211267	6	10.5	6	98	1	90	0	16	54	28	1.43
1211264--1211300	6	6.2	6	100	0	74	32	0	32	35	1.58
1211234--1211297	12	5.3	12	92	0	56	15	7	42	34	1.76
1211234--1211273	18	2.2	18	90	0	62	5	12	47	35	1.63
1211793--1211928	47	2.8	50	80	12	156	50	5	2	41	1.39
1211819--1211928	47	2.3	48	87	4	161	50	4	2	41	1.37
1211813--1211889	2	38.5	2	74	14	61	48	3	3	44	1.39
1211786--1211921	16	8.2	17	71	17	99	52	5	2	40	1.36
1211874--1211950	39	2.0	40	86	2	111	54	7	1	36	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18