genome.fa.s9572.2.7.7.80.10.50.1000.6.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: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2529503

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1477 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)
1126102--1126155	23	2.3	25	87	12	87	62	11	14	11	1.53
1126106--1126154	24	2.1	22	92	7	80	61	12	14	12	1.58
1131041--1131081	14	2.9	14	92	0	64	4	41	0	53	1.22
1131477--1131510	17	2.0	17	100	0	68	23	29	11	35	1.90
1134752--1134858	24	4.5	24	73	0	88	46	17	14	21	1.83
1135986--1136021	18	2.0	18	88	0	54	30	16	0	52	1.44
1137332--1137364	7	4.6	7	92	7	57	24	27	33	15	1.95
1137323--1137363	15	2.6	15	92	7	64	24	26	34	14	1.94
1137355--1137390	18	2.0	18	89	10	56	11	19	47	22	1.80
1140671--1140713	23	2.0	21	86	9	59	67	4	0	27	1.10
1140904--1140931	14	2.0	14	100	0	56	50	7	0	42	1.30
1154779--1155105	164	2.0	163	98	1	629	27	24	12	35	1.92
1158397--1158479	40	2.0	42	90	6	134	27	21	12	38	1.89
1165151--1165193	2	21.5	2	100	0	86	48	0	0	51	1.00
1165623--1165673	15	3.3	15	73	10	57	25	33	21	19	1.97
1165625--1165694	32	2.2	32	86	0	95	27	30	21	21	1.98
1182302--1182461	65	2.5	63	86	6	214	31	24	18	26	1.97
1182433--1182481	19	2.6	19	84	9	57	24	28	20	26	1.99
1182302--1182481	65	2.8	63	80	13	197	30	25	18	26	1.98
1183583--1183696	60	1.9	61	96	3	214	40	22	16	20	1.91
1189971--1190014	21	2.1	21	86	0	61	9	40	15	34	1.79
1194516--1194599	25	3.2	29	60	30	69	39	10	13	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194497--1194602	50	2.1	50	96	0	194	40	8	13	37	1.75
1202543--1202571	15	1.9	15	100	0	58	13	27	31	27	1.94
1202551--1202598	22	2.2	22	96	0	87	20	33	22	22	1.97
1203857--1203926	20	3.5	20	71	7	70	28	11	28	31	1.92
1203857--1203949	40	2.3	40	98	0	177	29	11	29	30	1.92
1203876--1203946	20	3.5	20	73	7	81	30	14	29	25	1.94
1204579--1204609	16	1.9	16	93	0	53	38	9	22	29	1.86
1210406--1210479	18	3.9	18	84	10	103	28	31	21	18	1.97
1210406--1210484	39	2.0	39	95	0	140	29	29	21	20	1.98
1222676--1222865	103	1.8	103	82	2	247	24	13	16	45	1.83
1223438--1223488	2	25.5	2	100	0	102	49	0	0	50	1.00
1225734--1225787	21	2.6	21	84	0	81	25	11	24	38	1.88
1231964--1232154	104	1.8	103	89	3	303	21	14	18	45	1.84
1236359--1236402	2	22.5	2	95	4	81	50	0	0	50	1.00
1237988--1238065	2	41.0	2	90	10	128	52	0	0	47	1.00
1237988--1238064	31	2.5	32	91	8	133	53	0	0	46	1.00
1237989--1238065	33	2.4	31	89	10	120	51	0	0	48	1.00
1242877--1243372	249	2.0	248	96	3	910	36	13	12	38	1.82
1243345--1243426	39	2.1	38	93	2	137	41	17	9	31	1.82
1248165--1248411	132	1.9	129	95	4	451	45	15	15	23	1.84
1252908--1252980	28	2.7	29	78	18	68	43	0	5	50	1.25
1254122--1254260	60	2.3	59	83	2	179	30	17	17	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255860--1255934	35	2.2	34	95	2	132	42	4	8	45	1.52
1255927--1256073	34	4.2	34	79	13	158	46	4	5	44	1.45
1255955--1256075	36	3.4	35	84	10	156	44	4	4	45	1.47
1256026--1256113	42	2.1	43	87	10	128	45	3	4	46	1.40
1256077--1256143	31	2.2	29	87	7	98	41	2	5	49	1.42
1256239--1256303	7	9.7	7	76	15	50	24	1	1	72	1.02
1256404--1256606	38	5.1	37	77	16	153	43	3	5	46	1.44
1256476--1256502	13	2.1	13	100	0	54	48	0	0	51	1.00
1255993--1256822	420	2.0	407	87	10	1204	36	9	10	43	1.71
1256438--1256538	49	2.1	49	98	0	193	45	2	3	47	1.36
1256487--1256606	37	3.2	37	89	5	172	43	2	6	47	1.43
1256657--1256714	30	1.9	30	85	0	80	29	1	0	68	0.99
1257221--1257264	22	2.0	23	86	4	63	68	27	0	4	1.09
1259610--1259635	2	13.0	2	100	0	52	50	0	0	50	1.00
1260497--1260562	2	32.5	2	80	8	71	53	3	3	40	1.32
1264833--1264927	29	3.3	29	98	0	181	45	1	23	30	1.60
1266028--1266073	23	2.0	23	86	0	65	21	26	32	19	1.97
1266984--1267370	196	2.0	198	81	4	460	39	10	11	39	1.76
1267718--1267777	30	2.0	30	83	3	77	43	18	3	35	1.67
1268005--1268033	14	2.1	14	100	0	58	48	0	0	51	1.00
1269695--1269753	22	2.7	22	82	10	77	52	0	1	45	1.10
1269771--1269809	18	2.2	18	100	0	78	30	28	0	41	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270608--1270668	26	2.4	25	82	15	72	52	0	1	45	1.10
1270608--1270668	25	2.4	24	82	15	70	52	0	1	45	1.10
1270902--1270943	16	2.5	17	81	14	52	54	4	0	40	1.21
1271286--1271313	2	14.0	2	100	0	56	50	0	0	50	1.00
1272004--1272028	2	12.5	2	100	0	50	48	0	0	52	1.00
1273475--1273530	22	2.5	22	80	5	69	41	14	3	41	1.63
1278596--1278648	26	2.0	26	85	7	72	50	0	1	47	1.12
1279480--1279541	30	2.1	30	87	0	88	45	8	8	38	1.63
1280539--1280573	13	2.9	12	91	8	54	42	0	8	48	1.33
1285682--1285745	22	2.9	22	80	13	60	65	0	9	25	1.22
1285757--1285803	13	3.7	13	80	5	60	78	4	2	14	0.99
1285766--1285801	12	2.8	13	95	4	65	75	5	2	16	1.12
1286726--1286763	3	12.7	3	100	0	76	68	0	0	31	0.90
1287181--1287847	124	5.4	124	88	2	907	25	17	24	33	1.96
1287181--1287844	246	2.7	246	87	1	918	25	17	24	33	1.96
1287905--1288315	110	3.6	110	72	14	349	25	18	22	33	1.97
1287729--1288364	240	2.6	244	86	4	854	25	17	23	33	1.96
1289354--1289552	95	2.1	94	87	2	283	33	16	15	34	1.90
1291603--1291682	39	2.1	39	97	0	151	35	22	23	18	1.96
1293894--1294046	31	5.0	31	93	3	256	39	22	18	19	1.93
1293894--1294046	61	2.5	62	93	3	256	39	22	18	19	1.93
1294721--1294765	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298559--1298712	31	5.0	31	96	1	274	38	22	19	19	1.94
1299385--1299429	21	2.1	21	87	0	63	15	24	28	31	1.96
1300319--1300359	20	2.1	19	90	4	64	31	26	0	41	1.56
1300321--1300360	10	4.0	10	84	12	55	32	27	0	40	1.57
1300486--1300708	114	2.0	111	87	2	320	36	8	9	45	1.66
1306100--1306130	16	1.9	16	93	0	53	67	3	0	29	1.06
1306099--1306145	13	3.3	14	77	14	51	68	4	0	27	1.08
1306312--1306433	47	2.5	49	85	7	160	27	23	23	25	2.00
1306444--1306568	51	2.5	50	78	1	133	20	32	31	16	1.95
1306953--1306991	7	5.3	7	82	11	51	79	0	0	20	0.73
1315639--1315667	2	14.5	2	100	0	58	48	0	0	51	1.00
1317923--1317951	2	14.5	2	100	0	58	51	0	0	48	1.00
1319068--1319111	21	2.1	21	83	8	54	31	25	20	22	1.98
1319300--1319338	20	2.0	19	85	5	51	51	0	5	43	1.24
1320182--1320285	37	2.8	37	98	1	199	13	9	36	40	1.77
1320003--1320560	291	1.9	292	93	1	960	22	12	28	37	1.90
1320472--1320560	38	2.4	38	87	7	128	12	11	39	37	1.79
1321131--1321176	18	2.7	18	93	6	78	28	32	6	32	1.83
1321533--1321964	3	143.7	3	85	8	486	62	1	33	1	1.16
1322577--1322699	2	61.5	2	90	6	178	47	4	0	47	1.23
1324067--1324113	24	2.0	24	79	8	51	63	4	0	31	1.13
1324062--1324142	15	5.5	14	72	20	60	62	3	0	33	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324085--1324140	21	2.7	20	81	10	58	64	3	0	32	1.11
1324826--1324878	24	2.3	23	80	6	63	45	1	0	52	1.11
1324843--1324924	28	3.0	27	70	16	69	53	1	3	41	1.26
1324970--1325029	8	7.4	8	80	17	54	38	0	1	60	1.07
1324974--1325045	32	2.3	30	75	20	76	40	0	1	58	1.07
1327843--1327873	7	4.4	7	100	0	62	25	29	29	16	1.96
1327900--1327999	9	10.3	9	78	12	83	28	27	28	17	1.97
1327902--1328002	20	5.1	20	77	13	93	27	27	25	18	1.98
1327900--1327999	29	3.4	29	82	6	112	28	27	28	17	1.97
1334838--1334878	22	1.9	21	95	5	73	9	24	46	19	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13