genome.fa.s8214.2.7.7.80.10.50.1000.7.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: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2117680

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

This is table  7  of  11  ( 1291 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)
1205737--1205792	27	2.2	25	87	6	76	39	3	0	57	1.16
1205749--1205818	27	2.6	27	80	11	72	40	1	0	58	1.07
1207306--1207357	3	17.7	3	84	11	72	34	0	0	65	0.93
1207417--1207452	18	2.0	18	94	0	63	38	36	16	8	1.79
1208842--1208891	21	2.3	23	80	13	61	34	2	0	64	1.05
1220268--1220348	12	6.8	12	68	20	55	77	1	19	1	0.90
1220269--1220321	22	2.3	23	87	3	72	79	1	16	1	0.92
1220287--1220350	19	3.4	18	83	14	69	78	0	20	1	0.84
1220276--1220345	30	2.4	30	83	9	90	77	1	20	1	0.93
1220269--1220350	10	8.4	10	71	23	68	78	1	19	1	0.89
1220681--1220754	19	3.8	20	78	8	64	33	9	4	52	1.53
1221048--1221385	114	3.0	114	91	0	532	36	15	17	31	1.91
1222033--1222645	113	5.4	112	81	8	658	38	14	19	28	1.90
1222039--1222645	223	2.7	222	89	6	886	38	14	18	28	1.91
1222456--1222724	120	2.3	118	88	3	380	40	16	19	23	1.91
1222879--1222938	27	2.3	26	86	8	88	41	0	0	58	0.98
1222871--1222925	3	18.7	3	85	10	69	36	0	0	63	0.95
1224283--1224358	29	2.7	27	73	13	64	27	1	3	67	1.17
1232448--1232478	2	15.5	2	100	0	62	51	0	0	48	1.00
1239416--1239559	54	2.7	54	82	2	164	28	27	17	27	1.98
1239999--1240088	25	3.7	25	80	11	89	22	22	24	31	1.99
1250726--1250769	22	2.0	22	100	0	88	45	22	13	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251475--1251613	70	2.0	70	94	0	242	35	12	15	35	1.86
1253057--1253124	27	2.6	27	90	2	102	27	4	1	66	1.20
1255760--1255823	3	21.3	3	100	0	128	0	32	0	67	0.91
1257526--1257670	21	6.7	21	75	3	85	21	15	22	40	1.91
1257592--1257695	23	4.7	23	78	8	108	16	19	26	37	1.92
1257575--1257678	44	2.4	44	83	6	122	18	17	25	38	1.92
1262446--1262552	21	5.0	21	80	8	108	17	18	26	37	1.93
1265704--1265823	25	5.2	24	63	31	66	25	23	9	41	1.84
1265690--1265939	45	5.6	45	90	1	378	29	23	7	39	1.82
1265690--1265939	89	2.8	89	91	0	401	29	23	7	39	1.82
1269758--1269782	11	2.3	11	100	0	50	64	8	0	28	1.22
1269830--1269865	13	2.8	12	88	12	54	47	0	25	27	1.52
1270254--1270283	14	2.1	14	93	0	51	50	6	16	26	1.70
1275972--1276015	22	2.0	23	90	4	72	68	9	13	9	1.40
1279386--1279443	24	2.4	25	82	8	66	50	3	3	43	1.36
1281882--1281933	3	17.0	3	80	4	59	65	0	5	28	1.16
1281893--1281933	15	2.6	16	88	7	66	65	0	4	29	1.13
1282154--1282415	134	2.0	132	86	1	362	21	18	32	27	1.96
1283363--1283475	7	16.1	7	74	16	101	0	18	0	80	0.76
1283357--1283475	33	3.7	32	81	13	127	1	17	0	80	0.79
1290538--1290597	30	2.0	30	83	0	75	31	3	18	46	1.65
1295778--1295804	10	2.7	10	100	0	54	0	11	7	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296453--1296501	3	16.0	3	82	4	62	67	0	4	28	1.09
1301899--1301944	18	2.4	18	85	7	56	45	2	2	50	1.26
1301889--1301948	20	3.0	20	78	9	61	41	6	1	50	1.39
1301899--1301955	20	2.9	20	82	7	64	45	3	1	49	1.29
1305998--1306099	35	2.9	36	79	8	109	21	21	16	40	1.91
1305982--1306119	36	3.9	35	77	9	136	19	20	18	41	1.91
1309875--1309937	30	2.1	30	87	0	90	9	28	9	52	1.65
1310284--1310332	24	2.0	25	84	4	64	53	8	2	36	1.43
1311238--1311287	20	2.5	20	86	0	73	40	26	14	20	1.90
1311289--1311391	40	2.5	40	81	6	127	41	23	14	20	1.89
1311278--1311387	20	5.4	20	83	1	112	40	25	14	20	1.90
1311375--1311442	26	2.6	26	90	0	109	48	23	8	19	1.76
1311520--1311577	22	2.6	22	75	0	71	20	39	18	20	1.92
1313695--1313744	21	2.4	21	89	0	82	18	16	32	34	1.92
1313696--1313854	62	2.5	63	76	10	146	20	13	32	32	1.92
1314153--1314203	21	2.4	21	90	0	84	21	25	23	29	1.99
1314193--1314286	42	2.2	42	86	3	127	22	36	21	20	1.95
1314192--1314266	21	3.6	21	73	7	80	22	34	21	21	1.97
1314230--1314286	21	2.7	22	75	8	64	21	36	22	19	1.95
1315587--1315753	66	2.5	67	86	10	211	29	2	16	51	1.59
1315618--1315761	66	2.2	64	90	4	227	30	2	17	50	1.58
1315814--1315859	20	2.3	20	96	0	83	41	21	17	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315882--1315921	20	2.0	20	95	0	71	22	15	22	40	1.91
1315885--1315928	20	2.2	20	87	0	61	20	20	22	36	1.95
1317234--1317270	18	2.1	18	89	0	56	51	10	5	32	1.60
1317656--1317700	21	2.1	22	87	4	65	35	20	11	33	1.88
1317754--1317810	20	2.8	20	84	10	71	43	19	19	17	1.88
1317858--1317896	14	2.9	14	84	3	53	10	17	25	46	1.80
1321512--1321609	36	2.6	40	76	17	118	22	15	21	40	1.90
1321457--1321640	19	9.6	19	79	13	148	22	14	22	40	1.90
1321536--1321652	60	2.0	56	88	6	171	19	16	24	39	1.92
1322626--1322660	2	18.0	2	94	5	63	48	0	0	51	1.00
1322626--1322658	17	1.9	17	100	0	66	48	0	0	51	1.00
1322660--1322689	2	15.0	2	100	0	60	0	0	50	50	1.00
1323034--1323080	15	2.9	15	81	12	58	25	0	29	44	1.54
1323078--1323122	20	2.2	22	84	11	60	26	0	15	57	1.38
1324730--1324784	27	2.0	28	92	3	94	18	16	14	50	1.77
1329775--1329833	27	2.2	27	100	0	118	33	20	18	27	1.96
1329833--1329942	32	3.6	31	87	12	165	32	20	18	29	1.96
1329852--1329942	27	3.2	27	92	7	137	34	19	18	27	1.96
1338675--1338715	16	2.6	16	82	17	50	43	0	0	56	0.99
1339682--1339722	20	2.1	19	86	4	55	39	2	0	58	1.11
1339783--1339826	15	2.6	17	79	13	56	36	0	2	61	1.09
1339783--1339825	3	13.3	3	90	4	50	34	0	2	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339741--1339851	46	2.2	51	81	12	124	33	3	7	55	1.44
1339883--1339942	18	3.4	18	76	2	68	25	10	0	65	1.24
1351096--1351209	59	1.9	59	85	0	156	55	12	20	12	1.68
1351951--1352979	105	9.8	105	99	0	2006	32	25	19	22	1.97
1353060--1353101	20	2.1	20	90	0	66	26	23	16	33	1.96
1353315--1353355	16	2.6	16	82	17	50	43	0	0	56	0.99
1354324--1354364	20	2.1	19	86	4	55	39	2	0	58	1.11
1354425--1354486	31	2.0	32	84	9	83	33	1	4	59	1.28
1354516--1354575	18	3.4	18	76	2	68	25	10	0	65	1.24
1356660--1356693	18	1.9	17	88	5	50	29	26	23	20	1.99
1358882--1358962	31	2.6	31	92	0	126	27	13	12	46	1.79
1358982--1359012	14	2.2	14	94	0	53	58	25	12	3	1.50
1358969--1359066	23	4.3	23	81	8	101	62	21	8	8	1.49
1368326--1368350	2	12.5	2	100	0	50	48	0	0	52	1.00
1369226--1369255	16	1.9	15	93	6	51	26	3	3	66	1.23
1372855--1372893	19	2.1	19	90	0	60	66	5	2	25	1.25
1372855--1372902	19	2.7	18	84	9	55	66	4	2	27	1.21
1373759--1373810	23	2.3	23	93	0	86	36	5	11	46	1.64
1374093--1374136	16	2.6	17	76	23	56	63	2	0	34	1.07
1376652--1376704	20	2.5	21	79	17	56	52	3	0	43	1.19
1378103--1378152	19	2.6	19	87	0	64	40	6	14	40	1.70
1378145--1378182	20	1.9	20	94	0	67	34	15	21	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378143--1378191	20	2.5	20	79	0	62	34	14	22	28	1.93
1383175--1383225	20	2.6	20	87	3	77	43	7	11	37	1.71
1383177--1383236	20	3.1	19	82	2	66	38	10	15	36	1.80
1383927--1384033	33	3.4	32	78	7	112	33	19	18	28	1.96
1383927--1384033	32	3.4	32	80	5	119	33	19	18	28	1.96
1384259--1384291	2	16.5	2	100	0	66	48	0	0	51	1.00
1388116--1388171	22	2.5	22	80	8	60	67	8	0	23	1.18
1390629--1390665	17	2.2	17	100	0	74	48	0	21	29	1.50
1391421--1391447	2	13.5	2	100	0	54	48	0	0	51	1.00
1391774--1391813	21	1.9	21	89	0	62	27	17	17	37	1.92

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