genome.fa.s7889.2.7.7.80.10.50.1000.6.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: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1663484

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1005 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)
1057677--1057704	12	2.3	12	100	0	56	46	17	28	7	1.75
1062426--1062467	20	2.2	20	86	4	59	33	14	19	33	1.91
1063919--1063962	23	1.9	23	85	0	61	31	29	6	31	1.84
1072455--1073019	257	2.2	255	86	6	760	27	12	19	40	1.87
1073344--1073390	18	2.7	18	93	3	78	27	31	8	31	1.87
1074070--1074112	20	2.2	20	86	0	59	30	13	23	32	1.93
1075549--1075592	23	1.9	23	90	0	70	31	29	9	29	1.88
1079940--1079991	25	2.1	25	92	0	86	28	7	32	30	1.85
1083938--1083979	2	20.0	2	90	9	66	47	0	4	47	1.23
1083985--1084088	36	2.8	38	88	7	151	46	6	7	39	1.59
1084054--1084102	22	2.2	23	88	3	73	36	6	8	48	1.58
1084060--1084108	22	2.1	24	85	7	66	46	8	6	38	1.58
1084091--1084144	29	1.9	29	88	7	85	42	1	5	50	1.36
1084093--1084154	29	2.1	29	82	11	74	41	3	8	46	1.49
1084095--1084153	27	2.1	28	81	12	68	42	3	8	45	1.51
1085698--1085727	6	4.8	6	92	8	51	30	3	0	66	1.07
1085698--1085727	13	2.4	12	94	5	51	30	3	0	66	1.07
1086449--1086589	59	2.4	59	82	5	160	36	4	24	34	1.75
1086568--1086660	29	3.2	29	93	0	150	43	3	16	37	1.64
1086794--1086827	16	2.1	16	94	0	59	32	20	11	35	1.89
1090003--1090065	13	4.8	13	75	14	58	76	0	3	20	0.93
1090004--1090063	4	13.8	4	80	13	57	75	0	3	21	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090004--1090063	18	3.4	17	83	4	75	75	0	3	21	0.95
1090054--1090141	20	4.4	18	87	8	59	54	4	0	40	1.21
1090089--1090147	2	29.5	2	100	0	118	50	0	0	49	1.00
1090162--1090328	36	4.7	35	88	3	237	40	7	2	49	1.46
1090299--1090346	13	3.8	13	72	10	55	41	10	6	41	1.64
1090304--1090352	24	2.0	24	100	0	98	44	12	4	38	1.61
1090271--1090406	60	2.3	61	87	5	188	41	8	5	44	1.56
1090304--1090369	24	2.8	24	88	6	82	46	10	3	39	1.54
1090328--1090453	37	3.4	36	91	5	198	39	8	6	45	1.61
1090474--1090588	38	3.0	38	79	12	121	39	7	5	47	1.55
1090843--1090904	20	3.3	19	67	28	51	33	14	14	37	1.87
1102481--1102524	21	2.0	22	82	4	54	31	22	11	34	1.90
1105187--1105357	20	7.7	20	70	21	108	18	25	10	45	1.82
1105206--1105370	26	7.0	26	71	22	159	18	24	11	45	1.82
1105174--1105370	46	4.3	46	93	0	331	19	23	10	46	1.81
1110746--1110800	21	2.5	22	85	11	78	27	23	16	32	1.96
1114260--1114290	8	3.9	8	100	0	62	38	0	0	61	0.96
1114292--1114383	2	46.5	2	97	2	177	0	0	50	50	1.00
1115442--1115493	20	2.6	20	90	0	86	23	38	17	21	1.93
1115516--1115591	21	3.6	21	77	10	82	27	19	17	35	1.94
1115515--1115568	22	2.5	20	88	11	81	27	20	16	35	1.94
1122873--1122929	9	6.3	9	76	11	55	73	0	3	22	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122986--1123135	36	4.2	36	86	8	200	40	6	4	49	1.48
1122986--1123135	71	2.1	71	91	2	239	40	6	4	49	1.48
1122999--1123153	71	2.2	71	85	2	204	42	7	3	46	1.49
1123153--1123281	37	3.5	37	77	10	140	46	7	5	40	1.56
1123323--1123368	24	1.9	24	86	0	65	41	4	4	50	1.42
1123321--1123382	24	2.6	23	80	10	61	40	6	4	48	1.50
1123705--1123736	2	16.0	2	100	0	64	50	0	0	50	1.00
1140472--1140503	13	2.5	13	100	0	64	0	6	6	87	0.67
1144264--1144310	21	2.3	21	85	3	60	14	10	29	44	1.79
1146064--1146105	20	2.0	20	82	13	50	52	0	2	45	1.13
1146536--1146898	182	2.0	182	87	2	532	39	14	18	28	1.89
1148851--1148907	24	2.5	23	77	8	62	43	0	5	50	1.24
1149185--1149215	14	2.2	14	94	0	53	22	6	58	12	1.58
1149297--1149337	21	2.0	21	90	9	66	39	14	31	14	1.87
1149375--1149472	33	3.0	33	96	0	178	29	0	45	24	1.53
1151231--1151279	19	2.6	19	96	0	89	32	0	10	57	1.32
1151883--1152293	202	2.1	197	85	6	551	35	14	17	32	1.90
1152685--1152730	18	2.6	18	89	0	65	41	4	32	21	1.73
1152685--1152730	6	7.7	6	90	0	56	41	4	32	21	1.73
1152685--1152730	12	3.8	12	91	0	65	41	4	32	21	1.73
1154291--1155057	200	3.9	198	86	4	992	40	12	15	32	1.84
1156387--1156433	17	2.6	19	76	13	62	31	2	12	53	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158152--1158201	22	2.4	22	90	6	77	40	10	16	34	1.81
1159063--1159375	45	7.0	45	95	1	540	21	23	21	33	1.97
1159249--1159324	20	3.2	26	62	30	69	22	25	21	31	1.98
1159338--1159555	116	1.9	114	89	1	337	29	20	20	29	1.98
1159841--1159920	3	26.3	3	84	2	97	38	3	0	57	1.17
1159830--1159906	18	4.2	18	80	9	75	38	1	0	59	1.06
1161105--1161146	2	21.0	2	90	0	66	54	0	0	45	0.99
1162518--1162603	38	2.3	38	89	0	127	29	20	13	36	1.92
1164087--1164214	62	2.1	60	84	12	165	37	10	12	39	1.78
1167319--1167448	60	2.2	60	79	8	140	34	16	7	41	1.77
1167618--1167811	60	3.2	58	77	8	158	41	5	20	32	1.75
1176022--1176054	7	4.9	7	85	7	50	27	3	0	69	1.03
1176179--1176221	6	6.7	6	87	12	59	30	0	0	69	0.88
1176179--1176221	13	3.3	13	96	0	77	30	0	0	69	0.88
1176539--1176564	6	4.3	6	100	0	52	50	0	0	50	1.00
1181381--1181936	165	3.4	164	87	2	724	30	24	20	25	1.99
1181490--1182126	249	2.6	247	85	3	778	30	24	19	25	1.98
1183753--1183805	19	2.7	19	77	16	54	13	7	3	75	1.15
1183906--1183935	13	2.3	13	94	0	51	30	0	0	70	0.88
1185177--1185213	3	12.3	3	94	0	65	70	0	0	29	0.88
1185555--1185590	13	2.8	13	91	0	63	19	16	22	41	1.90
1192961--1192990	13	2.3	13	94	0	51	20	16	20	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193921--1194035	21	5.5	21	84	6	137	30	22	22	24	1.99
1193983--1194052	20	3.5	20	76	18	81	34	18	21	25	1.96
1193921--1194052	41	3.2	41	87	5	160	31	21	21	25	1.98
1193921--1194098	21	8.6	21	77	15	97	29	21	23	26	1.99
1193980--1194077	41	2.4	41	87	3	135	31	19	22	26	1.98
1193983--1194143	62	2.6	62	81	8	181	29	19	22	28	1.98
1194252--1194299	5	9.0	5	97	2	69	25	56	18	0	1.42
1194343--1194381	19	2.1	19	100	0	78	20	33	5	41	1.74
1194849--1194901	6	9.0	6	89	4	81	0	16	62	20	1.33
1194978--1195023	20	2.2	20	84	3	56	32	17	23	26	1.97
1195034--1195145	21	5.4	21	75	13	90	22	22	22	33	1.98
1195013--1195140	62	2.1	62	93	0	220	24	22	21	31	1.98
1197046--1197988	184	5.0	184	87	5	1216	37	19	18	24	1.94
1202199--1202237	15	2.6	15	83	0	51	43	20	7	28	1.79
1203021--1203073	25	2.2	24	84	15	67	66	5	1	26	1.25
1203471--1203617	59	2.5	59	76	9	147	29	15	17	37	1.91
1204084--1204136	26	2.0	26	89	7	81	28	7	13	50	1.68
1205180--1205214	16	2.2	16	89	0	52	45	0	2	51	1.16
1207151--1207211	3	20.7	3	86	3	52	21	1	9	67	1.29
1207801--1207843	15	2.6	17	75	17	54	72	9	11	6	1.29
1208837--1208888	2	26.0	2	100	0	104	50	0	0	50	1.00
1210611--1210639	5	6.0	5	92	8	51	0	0	20	79	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210611--1210649	19	2.1	18	86	13	53	2	0	15	82	0.79
1213301--1213391	30	3.2	28	80	9	87	40	18	7	32	1.79
1220307--1220380	7	10.6	7	78	16	82	81	1	16	1	0.84
1220317--1220375	27	2.2	27	93	0	100	79	1	16	1	0.89
1220308--1220380	20	3.5	20	83	9	85	80	1	16	1	0.85
1220303--1220380	13	6.1	13	79	10	81	80	1	16	1	0.84
1220305--1220390	27	3.3	26	78	13	88	77	1	16	4	0.99
1221546--1221588	20	2.2	20	86	0	59	30	13	23	32	1.93
1223372--1223422	12	4.1	12	74	18	50	15	7	9	66	1.43
1226197--1226227	11	2.8	11	95	0	53	19	61	19	0	1.35

Tables:   1   2   3   4   5   6   7   8   9