genome.fa.s8001.2.7.7.80.10.50.1000.6.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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  ( 2081 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)
1140232--1140282	23	2.3	22	76	6	57	37	17	1	43	1.61
1141585--1141619	17	2.1	17	94	0	61	54	20	0	25	1.45
1156163--1156236	38	1.9	38	89	5	114	16	12	32	39	1.85
1156820--1156855	18	2.0	18	94	0	63	27	30	5	36	1.80
1165419--1165485	26	2.6	26	100	0	134	20	31	23	23	1.98
1165971--1166002	3	10.7	3	100	0	64	31	0	0	68	0.90
1174170--1174197	8	3.5	8	100	0	56	39	0	10	50	1.37
1177681--1177734	8	7.4	8	78	19	64	77	0	9	12	0.98
1178736--1179324	55	10.7	55	91	2	857	30	15	25	28	1.96
1180976--1181042	26	2.6	26	100	0	134	20	31	23	23	1.98
1181528--1181556	3	9.7	3	100	0	58	31	0	0	68	0.89
1183814--1183888	21	3.6	21	77	10	75	22	17	26	33	1.96
1183829--1183904	21	3.6	21	85	5	91	23	17	28	30	1.97
1187875--1187901	6	4.5	6	100	0	54	37	18	14	29	1.91
1187971--1188000	15	1.9	15	93	6	51	53	0	0	46	1.00
1187971--1188000	8	3.9	8	95	4	53	53	0	0	46	1.00
1187950--1188012	8	8.0	8	82	10	51	53	0	0	46	1.00
1194216--1194265	18	2.8	18	84	0	64	6	14	48	32	1.67
1194216--1194265	24	2.1	24	92	0	82	6	14	48	32	1.67
1194724--1194807	30	2.8	30	88	0	123	11	25	30	32	1.92
1197553--1197642	22	3.9	22	71	19	67	32	0	6	61	1.22
1197621--1197670	23	2.1	24	85	3	66	42	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199785--1199887	15	6.5	15	75	15	91	44	0	2	51	1.23
1199785--1199844	30	2.0	30	93	0	102	51	1	0	46	1.10
1199840--1199934	22	4.2	22	68	13	77	37	0	10	51	1.37
1199852--1199887	14	2.5	14	95	4	63	38	0	0	61	0.96
1199867--1199964	32	3.4	32	72	26	117	36	0	10	53	1.35
1199867--1200274	54	7.4	54	71	14	271	35	0	12	52	1.38
1199912--1200130	80	2.6	82	89	7	320	35	0	12	52	1.39
1199991--1200162	32	5.7	32	84	13	247	34	0	12	52	1.39
1200024--1200066	22	2.0	22	100	0	86	34	0	13	51	1.42
1200055--1200140	14	5.6	14	67	20	55	36	0	8	55	1.29
1199991--1200242	118	2.2	112	90	7	391	34	0	12	52	1.39
1199867--1200274	198	2.1	188	92	4	672	35	0	12	52	1.38
1200109--1200259	80	1.9	80	94	0	266	33	0	13	52	1.41
1200289--1200347	31	1.9	31	92	0	100	44	8	6	40	1.61
1201222--1201260	17	2.4	17	95	4	71	43	0	5	51	1.24
1203152--1203211	29	2.0	30	96	3	113	48	13	13	25	1.78
1208592--1208650	29	2.0	29	93	0	100	49	13	13	23	1.78
1219824--1219904	34	2.3	35	93	2	137	20	37	23	18	1.94
1220017--1220058	21	2.0	21	85	0	57	26	19	26	28	1.98
1220342--1220411	34	2.1	32	84	5	86	32	15	27	24	1.95
1222057--1222125	24	2.9	24	97	0	129	18	27	26	27	1.98
1222794--1222832	18	2.2	18	100	0	78	46	5	15	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224754--1224855	45	2.3	45	79	6	118	35	8	18	37	1.82
1225032--1225192	58	2.8	58	80	0	187	36	8	12	42	1.72
1225909--1225950	20	2.3	19	88	12	61	30	16	16	35	1.92
1227429--1227476	20	2.5	19	83	10	53	31	12	4	52	1.58
1228540--1228654	20	5.8	20	72	5	81	34	29	9	26	1.88
1228645--1228732	40	2.2	40	77	0	95	39	21	10	28	1.86
1228920--1229047	40	3.2	40	85	2	159	31	13	17	38	1.88
1229041--1229084	20	2.2	20	83	4	52	34	4	27	34	1.77
1229049--1229144	21	4.7	20	73	5	75	31	10	27	31	1.90
1230902--1230941	3	13.7	3	89	5	64	62	0	2	35	1.09
1234816--1234964	49	3.0	48	89	6	210	34	12	19	33	1.90
1238561--1238609	2	24.5	2	100	0	98	51	0	0	48	1.00
1239376--1239488	56	2.0	56	96	0	208	34	11	13	40	1.80
1240691--1240783	21	4.6	20	78	4	96	38	18	24	18	1.92
1240688--1240783	41	2.3	41	98	0	183	39	17	23	18	1.92
1240691--1240783	20	4.6	20	78	4	96	38	18	24	18	1.92
1240710--1240844	41	3.3	41	82	6	132	37	20	22	19	1.94
1240772--1240865	20	4.7	20	80	2	89	34	23	19	23	1.97
1241410--1241453	19	2.3	19	88	0	61	50	25	15	9	1.74
1241458--1241652	19	10.6	19	78	13	203	12	21	22	44	1.85
1241458--1241652	33	5.3	38	79	13	171	12	21	22	44	1.85
1241449--1241652	58	3.7	57	75	15	176	12	21	22	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241595--1241652	20	2.9	20	80	10	64	13	24	18	43	1.87
1243651--1243773	42	2.9	42	80	2	122	22	36	17	22	1.95
1243707--1243773	21	3.2	21	66	6	55	23	35	20	19	1.95
1245129--1245164	14	2.6	14	95	0	63	30	0	25	44	1.54
1245322--1245419	19	5.7	19	69	22	90	13	24	18	43	1.85
1245326--1245419	33	2.8	33	96	0	170	13	24	18	43	1.86
1246413--1246463	20	2.5	20	93	0	84	35	21	21	21	1.96
1246493--1246565	14	4.5	15	74	22	60	13	20	19	46	1.83
1246489--1246555	18	3.8	19	83	16	92	13	22	17	46	1.83
1246672--1246708	14	2.6	14	86	0	56	48	21	0	29	1.50
1248574--1248640	19	3.5	19	81	4	80	38	22	23	14	1.92
1248629--1248686	14	3.9	14	79	16	71	48	25	17	8	1.75
1248613--1248691	32	2.4	33	93	2	133	48	22	18	10	1.78
1248698--1248793	19	5.6	17	72	21	78	11	19	22	45	1.82
1248720--1248777	14	3.9	14	79	16	71	8	17	25	48	1.75
1248703--1248793	32	2.8	33	94	3	166	10	18	23	47	1.80
1248778--1248832	20	2.8	19	83	8	65	16	23	23	36	1.94
1249301--1249345	18	2.5	18	85	0	63	15	15	42	26	1.87
1250661--1250698	20	1.9	20	88	0	58	50	21	15	13	1.78
1251192--1251244	20	2.7	20	93	0	88	24	18	28	28	1.98
1251212--1251289	41	1.9	41	86	0	111	23	16	20	39	1.92
1251212--1251307	41	2.3	41	80	7	106	21	17	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251280--1251367	20	4.3	21	75	4	81	18	21	18	42	1.90
1251278--1251370	41	2.3	41	94	0	159	19	21	17	41	1.90
1251278--1251367	21	4.4	20	77	4	90	18	22	17	41	1.91
1252405--1252471	20	3.3	20	91	0	107	34	20	17	26	1.96
1252385--1252475	40	2.3	39	77	5	101	35	23	16	25	1.95
1252400--1252593	40	4.8	40	71	13	96	34	21	14	29	1.93
1252360--1252593	60	3.9	61	75	8	165	34	23	14	28	1.94
1252518--1252568	20	2.5	20	84	9	68	27	21	13	37	1.91
1252545--1252612	20	3.5	19	76	13	59	27	22	13	36	1.91
1253381--1253414	12	2.8	12	90	0	50	55	29	0	14	1.40
1253540--1253593	24	2.2	24	93	0	90	20	18	20	40	1.91
1255845--1255891	12	3.9	12	91	5	69	55	21	6	17	1.64
1255844--1255894	18	2.8	18	81	0	57	56	21	5	15	1.60
1255844--1255891	6	8.0	6	80	0	51	56	20	6	16	1.62
1256144--1256198	20	2.8	20	97	0	101	47	23	12	16	1.81
1256247--1256285	20	2.0	20	89	0	60	17	15	23	43	1.87
1257605--1257689	40	2.2	39	91	4	136	49	0	0	50	1.00
1257752--1257830	35	2.3	35	84	4	106	17	41	11	29	1.84
1258251--1258309	21	2.8	21	78	0	73	22	16	35	25	1.95
1258653--1258692	21	2.0	21	85	5	55	35	35	10	20	1.86
1258709--1258758	21	2.4	21	86	0	64	36	30	12	22	1.90
1260277--1260330	20	2.7	20	91	0	90	14	16	22	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260656--1260698	22	2.0	21	86	8	61	20	18	41	18	1.90
1260866--1260935	20	3.5	20	80	7	79	28	15	20	35	1.93
1260903--1260977	20	3.7	21	76	5	73	26	13	28	32	1.94
1262447--1262541	38	2.5	38	94	0	172	27	13	13	45	1.81
1264226--1264338	21	5.5	20	71	13	77	34	23	20	21	1.97
1264289--1264544	20	12.6	20	76	7	221	37	24	19	19	1.94
1264289--1264541	41	6.2	41	87	3	336	37	24	18	19	1.94
1264704--1264754	22	2.2	23	79	10	59	19	41	11	27	1.86
1265101--1265179	20	3.9	21	86	5	94	51	17	18	11	1.75
1266908--1267287	94	4.1	94	95	1	656	21	12	18	47	1.82

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