genome.fa.s8387.2.7.7.80.10.50.1000.6.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: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2491990

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

This is table  6  of  12  ( 1390 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)
1083425--1083463	12	3.1	12	85	7	51	20	0	0	79	0.73
1083411--1083464	18	3.1	17	84	10	65	24	1	0	74	0.92
1085890--1086364	160	3.0	160	97	2	899	25	18	8	46	1.78
1085890--1086483	314	1.9	304	82	12	740	25	18	8	47	1.77
1086679--1086723	16	2.8	16	89	3	63	51	2	0	46	1.13
1086685--1086725	16	2.6	16	92	0	64	48	0	0	51	1.00
1101268--1101340	22	3.4	21	69	16	60	26	19	21	32	1.97
1101261--1101323	20	3.0	20	70	17	65	23	23	23	28	2.00
1101261--1101466	42	5.0	42	68	13	149	28	18	22	31	1.97
1101397--1101464	22	3.2	21	68	16	50	26	16	22	35	1.94
1101390--1101477	42	2.1	42	93	0	149	27	13	22	36	1.92
1101261--1101557	122	2.4	122	92	0	486	29	17	21	31	1.96
1101431--1101751	80	4.1	80	87	4	490	33	16	21	28	1.95
1101431--1101751	155	2.0	160	95	3	580	33	16	21	28	1.95
1101754--1101882	42	3.1	41	82	5	152	27	18	20	33	1.96
1101764--1101834	22	3.3	22	67	15	67	25	18	21	35	1.95
1102181--1102282	53	1.9	53	94	2	179	29	24	27	18	1.98
1105126--1105157	5	6.6	5	92	7	57	81	0	0	18	0.70
1105465--1105496	10	3.2	10	95	0	55	12	15	18	53	1.73
1105467--1105517	14	3.9	14	75	19	56	11	13	17	56	1.66
1105488--1105538	18	2.8	18	75	16	52	15	9	15	58	1.62
1105700--1105817	10	11.5	10	78	5	110	15	12	13	58	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105707--1105841	20	7.1	20	81	11	140	12	13	16	57	1.65
1105793--1105874	10	7.9	10	74	8	65	8	6	21	63	1.45
1105721--1105821	53	2.0	50	88	5	148	13	13	15	56	1.68
1105785--1105878	20	4.6	20	81	7	98	7	8	22	61	1.49
1105700--1105841	73	2.0	70	87	4	203	13	12	15	58	1.64
1105711--1105894	73	2.5	71	77	11	174	11	10	17	59	1.59
1113920--1113968	22	2.2	22	100	0	98	22	18	36	22	1.95
1115486--1115513	2	14.0	2	100	0	56	50	0	0	50	1.00
1120564--1120593	15	2.0	15	93	0	51	43	13	16	26	1.85
1132462--1132541	39	2.1	39	83	4	99	31	6	41	21	1.78
1138076--1138110	6	5.8	6	93	0	61	31	2	31	34	1.73
1145486--1145668	102	1.8	101	84	3	251	25	9	13	50	1.72
1145485--1145668	51	3.6	50	82	7	228	26	9	13	50	1.72
1147198--1147252	10	5.6	10	82	8	53	52	0	9	38	1.33
1147230--1147255	2	13.0	2	100	0	52	50	0	0	50	1.00
1151161--1151407	130	1.9	129	88	2	370	33	10	16	39	1.83
1152367--1152434	31	2.2	31	86	0	91	32	8	10	48	1.68
1152559--1152613	20	2.7	20	83	10	67	56	1	1	40	1.21
1152588--1152627	15	2.7	15	96	0	71	62	0	0	37	0.95
1152558--1152613	21	2.8	20	81	7	69	57	1	1	39	1.20
1152622--1152680	21	2.6	23	80	17	70	55	0	3	40	1.16
1152707--1152755	21	2.3	21	92	0	80	55	16	4	24	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152847--1152884	14	2.7	14	87	0	58	5	21	2	71	1.19
1153979--1154042	31	2.1	31	90	0	101	29	10	10	48	1.73
1154174--1154232	27	2.1	27	84	3	73	59	0	1	38	1.08
1154196--1154252	24	2.3	27	85	11	77	57	0	3	38	1.16
1154245--1154298	24	2.2	25	83	3	65	48	0	7	44	1.31
1158417--1158500	27	3.4	25	82	14	95	53	0	3	42	1.18
1159911--1160002	12	7.8	12	71	7	71	50	18	14	17	1.79
1159909--1160016	24	4.5	24	77	4	112	49	17	15	17	1.81
1159909--1160016	48	2.3	48	83	4	130	49	17	15	17	1.81
1161109--1161142	18	1.9	18	88	5	52	29	20	0	50	1.49
1162322--1162393	24	3.1	24	70	20	64	72	1	4	22	1.10
1166084--1166132	25	2.0	25	84	8	64	40	2	2	55	1.23
1170853--1170928	40	1.9	40	100	0	152	25	3	14	56	1.55
1171536--1171573	2	19.0	2	100	0	76	50	0	0	50	1.00
1171571--1171668	4	24.5	4	100	0	196	25	0	24	50	1.50
1174235--1174274	2	20.0	2	100	0	80	50	0	0	50	1.00
1178762--1178811	20	2.5	20	84	9	66	44	4	2	50	1.32
1180034--1180080	22	2.2	21	81	11	51	27	0	21	51	1.48
1182739--1182917	20	8.9	20	73	12	125	40	21	21	17	1.92
1182823--1182930	40	2.7	40	92	0	180	37	23	22	16	1.93
1182797--1182917	60	2.0	61	90	6	192	37	23	22	17	1.94
1182801--1182930	20	6.4	20	78	8	138	36	24	21	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183041--1183139	6	16.5	6	100	0	198	33	50	16	0	1.45
1183888--1183938	6	8.5	6	100	0	102	0	15	50	33	1.44
1184049--1184325	20	13.8	20	84	8	298	16	20	24	37	1.93
1184049--1184340	60	4.8	60	84	7	340	16	20	25	37	1.93
1184331--1184404	20	3.7	20	90	3	114	12	18	17	51	1.76
1184327--1184422	40	2.4	38	78	13	113	14	18	18	47	1.82
1184391--1184442	19	2.7	19	90	3	77	15	17	25	42	1.88
1186524--1186643	31	3.9	31	89	0	186	45	8	13	33	1.73
1186524--1186664	62	2.3	62	85	2	187	43	7	12	36	1.71
1188066--1188128	25	2.4	27	82	10	78	57	4	3	34	1.36
1189493--1189517	12	2.1	12	100	0	50	60	8	8	24	1.52
1191625--1191651	14	1.9	14	100	0	54	81	0	3	14	0.82
1194333--1194720	123	3.2	123	87	1	564	39	14	18	27	1.89
1194626--1194790	82	2.0	82	86	4	233	35	16	17	30	1.92
1196365--1196435	36	1.9	37	97	2	135	45	0	2	52	1.15
1201910--1202032	63	2.0	63	91	0	201	24	20	18	36	1.95
1205972--1206160	88	2.1	90	81	7	220	39	9	19	31	1.84
1206086--1206203	51	2.3	51	88	0	164	33	9	25	32	1.88
1206027--1206316	139	2.1	139	85	1	384	34	9	22	33	1.86
1208165--1208211	20	2.3	21	78	14	53	2	6	10	80	0.96
1208250--1208578	182	1.8	182	82	4	430	27	21	11	38	1.89
1216088--1216125	20	1.9	20	84	10	51	31	23	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218799--1218856	20	3.0	20	92	2	91	34	12	18	34	1.88
1218799--1218863	20	3.3	20	89	2	78	35	10	20	33	1.87
1218910--1218950	20	2.0	20	90	9	66	34	19	14	31	1.92
1222645--1222683	20	1.9	21	89	5	62	46	23	15	15	1.83
1222619--1223814	182	6.6	182	87	1	1625	44	13	15	27	1.83
1223179--1223222	21	2.2	20	84	12	54	54	15	13	15	1.71
1222619--1223814	365	3.3	364	87	2	1665	44	13	15	27	1.83
1224203--1224247	19	2.4	19	92	3	74	42	0	20	37	1.52
1224498--1224536	18	2.2	18	86	9	53	46	5	7	41	1.55
1225790--1225837	9	5.3	9	84	0	60	31	6	54	8	1.55
1225790--1225829	18	2.2	18	95	0	71	32	5	55	7	1.50
1226247--1226285	18	2.2	18	95	0	69	53	0	41	5	1.23
1227753--1227801	19	2.6	19	90	3	73	30	2	10	57	1.43
1228147--1229445	199	6.5	199	94	0	2161	41	15	15	27	1.87
1228147--1229445	598	2.2	597	92	0	2181	41	15	15	27	1.87
1229796--1229853	15	3.7	15	83	6	71	22	50	1	25	1.59
1232195--1232786	300	2.0	300	96	0	1085	41	16	13	29	1.86
1232714--1233614	199	4.5	200	90	2	1406	41	15	15	27	1.87
1234193--1234259	22	3.0	22	100	0	134	26	26	26	19	1.99
1234477--1234536	30	2.0	31	90	3	95	33	23	6	36	1.81
1234551--1234622	29	2.5	29	93	0	117	38	12	9	38	1.76
1234925--1235077	68	2.2	69	87	4	213	18	27	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234925--1235099	67	2.6	67	84	7	194	18	27	26	28	1.98
1241123--1241173	22	2.3	22	93	0	84	31	25	25	17	1.97
1241131--1241175	22	2.0	22	100	0	90	26	26	26	20	1.99
1241395--1241454	30	2.0	31	90	3	95	33	23	6	36	1.81
1241469--1241539	29	2.5	29	90	2	108	38	12	9	39	1.77
1241842--1241993	68	2.2	69	87	4	211	18	26	26	27	1.98
1245690--1246139	182	2.5	182	91	0	711	42	14	16	27	1.86
1246759--1246806	23	2.1	23	84	0	60	37	10	8	43	1.69
1251670--1251921	127	2.0	130	92	2	429	24	8	23	44	1.80
1252700--1252731	2	16.0	2	100	0	64	50	50	0	0	1.00

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