genome.fa.s7721.2.7.7.80.10.50.1000.6.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

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

This is table  6  of  16  ( 1904 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)
1276102--1276155	8	7.0	7	80	14	54	29	0	3	66	1.09
1278352--1278403	20	2.6	19	90	6	77	36	17	26	19	1.94
1278425--1278468	19	2.3	19	80	0	52	34	13	25	27	1.93
1278428--1278498	22	3.5	20	77	9	63	30	15	26	26	1.96
1278914--1279295	45	9.5	42	69	23	243	33	11	24	30	1.91
1278904--1279305	79	5.1	79	93	0	660	35	11	23	29	1.90
1278959--1279255	34	7.8	34	70	22	180	34	12	22	30	1.91
1281001--1281043	22	2.0	22	86	9	61	41	4	4	48	1.44
1284534--1284610	30	2.6	30	82	8	86	36	9	0	54	1.32
1285296--1285866	81	7.1	81	92	0	903	35	11	23	29	1.89
1285296--1285866	241	2.4	242	91	0	910	35	11	23	29	1.89
1285892--1285993	46	2.2	46	87	1	143	44	10	23	21	1.84
1297811--1297853	2	21.5	2	100	0	86	51	0	0	48	1.00
1299625--1299709	5	17.0	5	75	13	68	75	1	4	18	1.04
1299622--1299707	27	3.3	26	73	11	77	76	1	4	17	1.01
1300907--1300961	3	17.3	3	78	17	58	63	1	3	30	1.22
1300982--1301269	41	6.9	41	70	20	129	45	7	3	44	1.48
1301001--1301096	29	3.2	30	89	7	151	47	5	3	43	1.41
1301062--1301269	38	5.5	37	81	13	244	44	8	3	43	1.52
1303191--1303226	2	18.0	2	100	0	72	50	0	0	50	1.00
1306957--1307002	23	2.0	23	91	8	76	15	21	36	26	1.93
1307704--1307752	6	8.2	6	100	0	98	18	48	0	32	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314605--1314729	61	2.1	60	96	1	232	51	16	10	21	1.74
1314915--1314974	29	2.1	29	90	0	93	35	3	15	46	1.62
1315206--1315311	38	2.9	37	74	19	98	46	0	0	53	1.00
1315363--1315436	35	2.1	36	89	2	114	16	39	14	29	1.88
1315757--1315807	22	2.4	22	83	9	61	56	5	0	37	1.23
1315772--1315820	22	2.2	22	85	3	62	55	12	0	32	1.37
1315760--1316223	54	8.4	54	91	4	757	52	11	0	35	1.39
1315792--1316223	32	15.4	32	72	26	390	52	11	0	35	1.40
1315824--1315865	22	1.9	22	95	0	75	52	11	0	35	1.38
1315944--1315992	22	2.2	22	85	3	62	55	12	0	32	1.37
1315996--1316038	22	2.0	22	95	0	77	51	11	0	37	1.39
1315998--1316046	22	2.2	22	85	3	62	55	12	0	32	1.37
1316050--1316092	22	2.0	22	100	0	86	51	13	0	34	1.42
1316052--1316154	22	4.2	22	70	23	71	54	13	0	32	1.40
1316158--1316258	22	4.5	22	69	7	85	53	8	0	37	1.32
1316177--1316275	15	6.0	15	71	22	74	52	6	0	41	1.26
1325320--1325513	97	2.0	97	92	0	325	25	15	17	42	1.88
1330929--1330989	32	1.9	32	82	0	77	27	22	13	36	1.92
1331177--1331206	15	2.0	15	100	0	60	20	53	13	13	1.72
1335371--1335432	32	1.9	32	83	0	79	29	25	11	33	1.91
1339671--1339747	32	2.4	31	77	12	75	31	20	11	36	1.89
1347232--1347264	16	2.1	16	100	0	66	57	24	12	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347334--1347378	16	2.8	16	89	0	72	55	24	13	6	1.62
1352938--1352983	14	3.3	14	93	0	74	52	23	15	8	1.70
1352931--1352982	24	2.2	24	82	6	61	53	23	13	9	1.68
1352918--1353008	38	2.4	39	81	7	98	51	19	15	13	1.76
1354727--1354788	30	2.1	30	100	0	124	38	24	3	33	1.71
1358770--1358833	18	3.6	18	89	0	101	18	18	29	32	1.95
1364895--1364945	18	2.8	18	85	5	68	17	13	33	35	1.89
1365634--1365658	13	1.9	13	100	0	50	4	16	0	80	0.87
1370322--1370378	22	2.6	21	76	15	62	59	0	8	31	1.28
1372441--1372479	2	19.5	2	100	0	78	51	0	0	48	1.00
1373294--1373407	51	2.2	49	83	10	133	17	31	28	22	1.97
1378899--1378945	23	2.0	23	91	0	76	38	8	21	31	1.83
1378859--1379021	87	1.9	87	88	0	245	41	11	12	33	1.80
1379563--1379614	20	2.6	20	90	0	77	19	11	21	48	1.80
1379940--1379988	20	2.5	19	77	9	53	14	18	10	57	1.65
1379583--1381085	182	8.1	182	74	13	1165	27	14	13	44	1.84
1380132--1380185	20	2.7	20	88	2	81	16	12	16	53	1.73
1379583--1381081	364	4.1	363	89	5	2265	27	15	13	44	1.83
1379398--1381081	566	3.0	562	86	5	2341	27	15	13	44	1.84
1389818--1389914	29	3.2	28	71	19	72	60	10	8	20	1.54
1390470--1390525	24	2.3	24	100	0	112	50	17	0	32	1.47
1390474--1390515	13	3.4	13	74	12	52	50	16	0	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391715--1391884	91	1.9	91	94	0	304	25	17	14	42	1.87
1391718--1392347	228	2.8	226	87	2	904	25	20	16	38	1.93
1392171--1392345	91	1.9	92	89	5	275	24	18	15	41	1.89
1392857--1393036	76	2.4	73	81	7	209	37	13	20	28	1.90
1393081--1393144	33	1.9	33	87	0	92	40	14	20	25	1.89
1392977--1393234	99	2.6	99	83	6	315	36	12	18	31	1.89
1393005--1393304	163	1.8	166	89	3	482	37	12	19	31	1.88
1393114--1393291	65	2.7	65	88	4	252	37	12	19	30	1.89
1393301--1393828	40	13.2	40	92	0	833	41	11	16	30	1.84
1393628--1393696	23	3.3	23	61	23	60	39	11	14	34	1.82
1393746--1393816	23	3.3	23	66	22	64	45	11	11	32	1.75
1394721--1394834	54	2.1	54	88	1	165	24	22	12	40	1.88
1396309--1396351	19	2.4	19	84	7	54	32	18	25	23	1.97
1396329--1396488	65	2.5	64	84	9	191	26	18	24	30	1.98
1396329--1396537	65	3.2	63	78	15	189	25	18	24	30	1.98
1396873--1396922	25	2.0	25	100	0	100	36	32	0	32	1.58
1411402--1411498	29	3.2	28	71	19	72	60	10	8	20	1.54
1418767--1418911	64	2.3	64	83	0	182	31	18	15	33	1.93
1418761--1418911	32	4.7	31	78	6	149	31	19	15	33	1.93
1419230--1419277	18	2.8	17	87	12	71	37	27	14	20	1.92
1419235--1419277	18	2.4	18	96	0	77	39	27	13	18	1.89
1421829--1421894	30	2.2	29	83	2	78	46	7	18	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424520--1424604	34	2.5	34	86	0	107	36	11	23	28	1.90
1431094--1431124	2	16.0	2	93	6	55	48	0	0	51	1.00
1431060--1431105	23	2.0	23	83	8	58	39	4	8	47	1.54
1432708--1432771	17	3.6	18	76	19	62	71	7	15	4	1.26
1435637--1435682	23	2.0	23	83	8	58	36	6	8	47	1.60
1444229--1444257	3	9.7	3	100	0	58	65	0	0	34	0.93
1444419--1444657	130	1.8	130	84	1	327	29	18	21	30	1.97
1444607--1444716	41	2.7	41	88	0	166	30	20	18	30	1.96
1444682--1444801	46	2.6	45	73	3	116	28	20	20	30	1.97
1444642--1444939	132	2.3	132	82	3	332	30	17	19	32	1.95
1446120--1446199	6	13.5	6	75	19	53	16	6	0	77	0.96
1446115--1446156	12	3.3	13	83	9	52	16	0	0	83	0.65
1446140--1446225	15	5.8	15	75	23	51	12	12	0	74	1.08
1452786--1452826	21	1.9	22	85	5	57	14	19	7	58	1.59
1455998--1456039	22	1.9	22	85	9	59	11	11	35	40	1.79
1458662--1458712	20	2.5	20	96	0	93	37	17	23	21	1.94
1459626--1459717	23	3.8	23	81	5	103	26	18	21	33	1.96
1459846--1459884	19	2.0	20	85	5	53	53	5	10	30	1.56
1461191--1461234	22	2.0	22	81	4	52	15	27	6	50	1.70
1461747--1461788	6	7.0	6	82	17	52	69	0	0	30	0.89
1461750--1461792	19	2.3	19	88	11	70	69	0	0	30	0.88
1461758--1461784	14	1.9	14	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1461747--1461795	14	3.2	16	75	16	50	69	0	0	30	0.89
1462120--1462145	12	2.2	12	100	0	52	50	7	0	42	1.31
1463787--1463841	22	2.7	20	81	15	67	30	16	27	25	1.96
1464158--1464358	81	2.5	81	91	0	323	35	13	23	27	1.93
1468817--1469199	81	4.8	81	91	0	599	36	12	23	27	1.91
1476891--1476948	7	8.3	7	100	0	116	41	15	29	13	1.86
1477170--1477357	68	2.8	68	98	0	358	32	8	26	32	1.86
1478611--1478649	14	2.7	14	84	4	51	66	0	7	25	1.18
1478578--1478724	72	2.1	67	80	16	160	65	1	8	24	1.29
1478690--1478791	40	2.4	42	80	12	118	74	2	7	14	1.16

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