genome.fa.s8225.2.7.7.80.10.50.1000.7.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: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890193

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

This is table  7  of  10  ( 1082 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)
1104406--1105118	76	9.4	76	97	0	1338	34	21	22	21	1.96
1104406--1105118	379	1.9	379	97	0	1354	34	21	22	21	1.96
1105775--1105829	22	2.5	22	87	0	83	36	14	14	34	1.87
1108361--1108801	82	5.4	82	91	2	683	36	23	13	26	1.92
1108361--1108801	164	2.7	165	93	2	764	36	23	13	26	1.92
1116812--1116836	12	2.1	12	100	0	50	8	60	32	0	1.26
1117534--1117606	3	24.3	3	74	10	60	57	1	0	41	1.07
1119000--1119039	20	2.0	20	100	0	80	35	15	25	25	1.94
1121582--1121683	34	3.0	34	100	0	204	26	17	26	29	1.98
1124952--1125022	23	3.1	23	79	0	79	21	21	19	38	1.94
1124961--1125027	23	2.9	23	81	0	80	20	17	20	40	1.92
1129116--1129203	32	2.8	31	76	8	97	35	28	19	17	1.94
1129221--1129266	16	2.9	16	93	0	74	21	19	13	45	1.84
1129447--1129478	9	3.4	9	95	4	55	62	0	0	37	0.95
1129525--1129564	20	2.0	21	95	5	73	45	0	5	50	1.23
1130127--1130157	16	1.9	16	93	0	53	48	25	22	3	1.66
1132628--1132953	98	3.3	99	88	3	451	50	17	9	22	1.75
1134156--1134201	19	2.3	20	78	17	51	45	2	4	47	1.34
1134666--1134706	21	2.0	21	90	0	64	36	12	14	36	1.84
1134781--1134853	7	10.6	7	71	8	51	23	0	32	43	1.54
1134936--1135010	27	2.7	28	85	8	91	46	5	4	44	1.45
1134928--1135024	29	3.4	28	80	9	99	45	5	5	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134936--1134988	2	27.0	2	84	3	72	49	3	1	45	1.31
1134985--1135078	42	2.4	38	86	10	120	41	10	7	40	1.68
1135190--1135228	14	2.8	14	80	0	51	23	0	33	43	1.54
1135258--1135335	15	4.9	16	72	21	58	42	0	5	52	1.23
1135286--1135343	26	2.2	26	84	6	73	44	0	3	51	1.18
1138744--1138780	19	1.9	19	94	0	65	32	24	21	21	1.98
1138745--1138791	19	2.5	19	85	0	58	31	25	21	21	1.98
1150438--1150466	2	15.0	2	92	7	51	51	0	0	48	1.00
1152694--1153287	66	9.0	66	81	5	580	41	13	17	28	1.86
1153161--1153275	36	3.4	34	70	25	91	41	13	20	25	1.88
1153435--1153575	37	3.7	37	78	16	137	34	12	17	35	1.88
1154762--1154805	12	3.6	12	75	6	52	0	4	11	84	0.77
1158880--1158947	23	3.0	23	84	4	75	22	25	22	30	1.99
1159522--1159574	17	3.1	17	77	0	61	37	9	7	45	1.65
1167429--1167918	55	9.1	55	86	6	602	28	25	18	27	1.98
1167429--1167908	106	4.5	107	89	5	567	28	25	17	27	1.98
1167429--1167908	161	3.0	159	88	4	628	28	25	17	27	1.98
1167918--1168000	37	2.2	37	89	4	123	20	18	18	43	1.88
1169128--1169192	7	9.0	7	73	17	53	4	13	0	81	0.84
1169129--1169192	16	3.8	16	72	20	58	4	14	0	81	0.85
1169140--1169178	20	2.0	21	90	10	64	7	12	0	79	0.93
1169123--1169186	34	1.9	33	84	15	87	6	12	0	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169122--1169193	28	2.4	30	76	15	78	5	15	0	79	0.91
1169196--1169249	26	2.0	27	86	10	76	12	16	0	70	1.17
1183222--1183295	23	3.3	23	79	9	64	17	22	33	25	1.96
1183246--1183305	23	2.7	23	77	12	70	20	25	30	25	1.99
1189325--1189591	55	4.9	55	87	2	344	28	20	19	32	1.97
1190010--1190065	22	2.7	20	81	10	67	26	28	16	28	1.97
1189937--1190140	95	2.1	95	89	1	302	26	23	16	32	1.96
1193301--1193333	9	3.3	10	87	12	50	12	9	0	78	0.95
1199098--1199137	17	2.4	17	91	0	62	35	17	7	40	1.78
1208621--1208688	34	2.0	34	100	0	136	26	17	26	29	1.98
1221971--1222059	30	3.0	30	89	0	133	37	28	10	24	1.88
1231255--1231303	23	2.1	23	85	7	64	28	2	12	57	1.46
1237721--1237756	12	3.0	12	91	0	63	36	25	5	33	1.79
1238746--1238793	3	15.7	3	95	4	87	66	0	33	0	0.92
1239425--1239494	35	2.0	35	97	0	131	35	30	11	22	1.90
1244096--1244129	15	2.3	15	89	0	50	35	29	14	20	1.93
1244241--1244309	24	2.8	26	83	12	85	31	24	5	37	1.79
1244274--1244309	12	3.0	12	91	0	63	36	25	5	33	1.79
1251520--1251544	12	2.1	12	100	0	50	40	24	0	36	1.55
1260483--1260534	26	2.0	26	100	0	104	23	3	34	38	1.73
1260490--1260547	26	2.2	26	90	0	89	27	5	31	36	1.79
1261305--1261702	201	2.0	201	98	0	778	46	3	19	29	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262895--1262963	20	3.4	19	74	16	57	28	21	26	23	1.99
1263244--1263293	19	2.7	19	84	3	57	32	2	14	52	1.53
1263246--1263293	9	5.1	10	80	14	57	31	2	14	52	1.54
1264615--1264680	22	2.9	23	84	4	98	18	25	24	31	1.97
1264615--1264672	23	2.6	23	88	2	91	17	27	25	29	1.97
1272229--1272276	25	1.9	25	100	0	96	29	12	16	41	1.85
1285848--1285894	24	2.0	23	88	12	69	57	4	4	34	1.38
1288910--1288973	10	6.1	10	80	10	74	57	18	10	12	1.63
1289218--1289276	10	5.5	10	74	21	57	59	11	11	16	1.61
1289218--1289278	24	2.7	24	85	12	85	59	11	13	16	1.62
1289261--1289295	17	2.0	18	94	5	63	51	14	17	17	1.77
1291843--1291935	32	3.0	31	85	3	116	19	19	26	34	1.96
1292012--1292124	32	3.6	32	86	1	147	20	22	25	31	1.98
1292012--1292190	63	2.8	64	77	5	159	22	20	25	31	1.98
1295619--1295663	23	2.0	23	82	8	56	8	4	15	71	1.28
1310160--1310215	20	2.8	20	86	0	76	12	17	21	48	1.80
1310860--1310886	6	4.5	6	100	0	54	0	14	51	33	1.43
1311019--1311112	41	2.3	41	94	0	161	32	22	21	23	1.98
1315654--1315698	2	23.0	2	90	4	74	46	0	2	51	1.13
1315708--1315769	25	2.6	25	80	10	67	19	11	0	69	1.18
1315741--1316002	126	2.0	126	85	7	348	26	11	4	57	1.53
1315771--1316002	126	1.8	130	88	5	366	26	11	5	57	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326538--1326599	1	62.0	1	77	0	61	88	9	1	0	0.58
1326538--1326604	33	1.9	35	91	8	111	86	8	4	0	0.69
1326645--1326685	12	3.5	12	90	3	57	78	0	21	0	0.76
1327418--1328893	105	14.4	105	91	5	2384	34	25	18	22	1.96
1327418--1328893	308	4.8	310	91	6	2316	34	25	18	22	1.96
1330425--1330487	14	4.8	13	74	18	51	38	1	6	53	1.36
1330530--1330789	127	2.0	127	85	7	350	25	10	5	58	1.51
1334479--1334790	75	4.2	75	83	0	363	41	10	12	34	1.78
1334891--1334965	23	3.3	23	87	7	109	33	25	9	32	1.88
1334903--1334960	21	2.7	21	91	5	89	32	27	12	27	1.92
1336413--1336445	17	1.9	17	100	0	66	24	48	15	12	1.78
1338108--1338150	21	2.0	21	82	8	52	46	2	37	13	1.57
1346286--1346395	55	2.0	54	96	1	202	33	11	21	32	1.90
1347687--1347753	23	2.9	23	84	0	89	19	26	25	28	1.99
1352207--1352270	31	2.0	32	93	3	112	32	6	10	50	1.63
1354606--1354710	37	2.8	37	86	0	147	40	15	11	33	1.83
1355104--1355164	18	3.1	18	79	13	59	32	0	3	63	1.10
1355319--1355380	22	2.8	23	79	16	60	30	3	3	62	1.26
1355392--1355425	14	2.5	13	90	4	50	29	0	0	70	0.87
1355331--1355442	21	5.3	21	73	18	72	30	4	0	64	1.19
1355390--1355440	13	4.4	12	76	16	54	29	1	0	68	1.00
1358236--1358273	18	2.1	18	100	0	76	52	5	26	15	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359879--1359921	21	2.0	22	86	4	61	81	6	6	4	0.98
1359887--1359922	16	2.2	17	90	5	56	83	5	8	2	0.89
1360752--1360812	23	2.8	21	78	11	68	31	11	6	50	1.64
1361448--1361642	106	1.8	106	92	0	327	35	26	16	21	1.94
1361610--1361668	26	2.3	26	96	0	109	30	27	8	33	1.86
1361504--1361774	132	2.1	132	91	1	436	34	25	15	24	1.94
1361448--1361880	238	1.8	238	91	0	713	34	25	16	23	1.95
1361644--1362430	106	7.4	106	92	0	1227	34	24	17	22	1.96
1363180--1363276	37	2.6	37	90	0	149	41	16	9	32	1.80
1363556--1363595	13	3.1	13	81	0	53	37	2	0	60	1.11

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