genome.fa.s8717.2.7.7.80.10.50.1000.7.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  7  of  16  ( 1896 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)
1390321--1390365	4	12.0	4	81	13	51	26	0	0	73	0.84
1390330--1390365	15	2.5	14	90	4	54	25	0	0	75	0.81
1390324--1390372	22	2.2	22	82	7	55	26	0	2	71	0.97
1392220--1392299	29	2.8	29	98	0	151	30	36	26	7	1.84
1392351--1392434	29	2.9	29	92	0	132	17	26	35	20	1.95
1392457--1392521	32	2.0	32	100	0	130	27	38	9	24	1.86
1392480--1392617	65	2.1	65	89	4	217	25	30	16	27	1.97
1393026--1393127	43	2.5	39	85	9	134	44	0	8	47	1.34
1393528--1393589	17	3.4	17	77	16	70	41	0	11	46	1.39
1393805--1393872	15	4.9	15	70	21	51	51	7	0	41	1.30
1396737--1396832	49	1.9	50	93	2	167	42	0	10	46	1.38
1396813--1396864	17	2.7	19	71	17	54	48	0	9	42	1.36
1396852--1397028	59	3.0	60	73	16	201	41	2	10	45	1.50
1396920--1397259	14	24.1	14	66	23	69	44	1	8	45	1.44
1396843--1397176	23	13.4	26	68	19	112	43	1	9	44	1.47
1396847--1397089	116	2.2	118	84	12	334	43	1	9	44	1.47
1396945--1397235	88	3.2	87	81	15	349	44	1	9	45	1.44
1397131--1397176	12	3.7	12	83	11	65	52	4	2	41	1.33
1397121--1397184	26	2.5	26	92	0	92	48	3	4	43	1.39
1396847--1397243	25	17.2	24	71	20	180	43	1	9	45	1.45
1396847--1397259	11	35.6	11	66	24	144	43	1	9	45	1.44
1397389--1397426	16	2.6	15	88	12	53	39	0	2	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400087--1400192	30	3.5	30	84	10	135	46	14	0	38	1.51
1400091--1400145	15	3.6	16	70	20	55	43	14	0	41	1.45
1400326--1400359	17	2.0	17	94	0	59	38	41	2	17	1.65
1400668--1400721	22	2.5	22	87	3	83	24	20	50	5	1.69
1400777--1400877	29	3.5	29	95	0	175	12	32	33	20	1.91
1400900--1400930	15	2.1	15	100	0	62	25	22	19	32	1.97
1401440--1401494	3	18.7	3	96	3	103	69	0	0	30	0.89
1401643--1401714	31	2.3	31	76	9	83	18	15	16	50	1.79
1405052--1405787	134	5.5	134	85	0	945	32	19	19	29	1.96
1405046--1405787	269	2.8	266	85	1	1009	31	19	19	29	1.96
1406224--1406431	45	4.6	45	74	7	163	39	18	17	24	1.91
1406399--1406463	32	2.0	32	96	0	121	32	21	20	26	1.97
1406358--1406506	77	1.9	77	91	0	244	36	18	20	24	1.95
1406431--1406647	45	4.9	45	82	3	233	37	17	20	23	1.94
1406289--1406598	167	1.9	167	84	4	419	39	18	20	22	1.93
1406426--1406648	90	2.5	91	83	4	258	38	17	20	23	1.93
1406219--1406604	212	1.8	212	81	3	490	38	18	18	23	1.93
1406573--1407048	38	11.8	38	81	10	465	38	18	18	25	1.93
1406530--1407048	157	3.2	161	83	7	595	37	18	18	24	1.93
1408197--1408327	43	2.9	45	82	10	135	28	22	13	35	1.93
1416131--1416174	2	22.0	2	100	0	88	50	0	0	50	1.00
1416699--1416747	22	2.2	22	82	7	55	46	2	6	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420242--1420275	17	1.9	18	88	5	52	26	8	20	44	1.81
1421234--1421326	21	4.5	21	81	4	109	39	17	24	18	1.91
1421234--1421326	41	2.3	41	98	0	177	39	17	24	18	1.91
1421253--1421387	41	3.3	41	83	6	132	37	20	21	20	1.94
1421315--1421409	20	4.7	19	75	8	73	36	23	16	23	1.94
1421312--1421409	41	2.4	41	87	0	142	38	22	16	22	1.92
1421577--1421620	22	2.0	22	95	0	79	20	45	15	18	1.85
1421885--1421927	20	2.2	20	95	0	77	9	18	18	53	1.70
1423247--1423291	18	2.5	18	85	0	63	26	42	15	15	1.87
1423773--1423839	20	3.4	20	81	2	73	38	23	22	14	1.92
1423828--1423885	14	3.9	14	79	16	71	48	24	17	10	1.78
1423812--1423902	32	2.8	33	94	3	166	47	21	18	12	1.81
1423919--1423976	14	3.9	14	79	16	71	8	17	25	48	1.75
1423914--1423984	32	2.2	33	97	2	135	8	19	23	47	1.77
1423977--1424023	20	2.4	19	82	6	58	19	27	19	34	1.96
1423965--1424031	19	3.5	19	79	4	80	16	23	22	37	1.94
1425899--1425934	14	2.6	14	90	0	54	30	0	22	47	1.52
1426041--1426094	14	3.5	14	77	22	63	48	20	20	11	1.80
1426051--1426087	19	1.9	19	88	0	56	51	16	21	10	1.74
1426118--1426155	20	1.9	20	94	0	67	15	21	23	39	1.92
1427209--1427254	24	1.9	24	90	0	74	28	19	21	30	1.98
1427208--1427261	24	2.2	24	83	0	72	25	16	20	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427436--1427460	12	2.1	12	100	0	50	72	0	28	0	0.86
1429753--1429879	33	3.8	33	84	4	184	43	18	22	15	1.88
1429754--1429886	66	2.0	66	94	0	230	42	18	21	17	1.90
1429879--1429922	20	2.2	20	88	4	63	15	15	22	45	1.85
1429884--1429923	20	2.0	20	95	0	71	12	15	20	52	1.74
1430062--1430098	14	2.6	14	91	0	65	45	24	0	29	1.53
1431454--1431520	21	3.2	21	68	4	55	19	20	35	23	1.95
1431454--1431576	42	2.9	41	80	7	113	22	17	36	22	1.95
1433560--1433739	19	9.8	19	72	14	83	46	22	20	10	1.81
1433585--1433683	33	3.0	33	86	1	135	40	25	23	11	1.87
1433655--1433744	19	4.7	19	90	2	135	50	23	17	8	1.74
1433655--1433744	39	2.3	38	90	1	135	50	23	17	8	1.74
1433740--1433806	19	3.5	19	83	2	89	8	16	23	50	1.73
1434321--1434360	20	2.0	20	100	0	80	30	20	30	20	1.97
1434382--1434435	20	2.7	20	91	0	90	25	16	24	33	1.96
1434506--1434546	21	2.0	21	85	0	55	34	31	17	17	1.93
1435798--1435862	5	12.2	5	73	15	51	3	16	0	80	0.85
1435806--1435854	22	2.3	21	82	6	62	4	14	0	81	0.83
1435800--1435865	12	5.5	12	76	7	71	3	16	0	80	0.84
1435980--1436007	14	2.0	14	100	0	56	21	28	21	28	1.99
1440749--1440782	13	2.6	13	95	0	59	50	5	0	44	1.26
1440729--1440797	31	2.2	31	87	12	97	49	4	1	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440760--1440887	18	6.9	19	69	22	69	47	4	3	44	1.39
1440723--1440863	59	2.4	57	78	15	144	48	3	2	44	1.34
1440725--1440874	2	76.5	2	67	18	66	48	3	2	45	1.33
1441005--1441073	19	3.6	18	71	21	52	50	1	1	46	1.19
1440890--1441080	54	3.6	53	69	20	130	49	2	1	47	1.23
1441044--1441111	23	2.9	24	80	12	70	52	2	0	44	1.16
1441068--1441112	23	2.0	23	90	0	72	53	2	0	44	1.13
1441228--1441286	22	2.7	22	81	7	66	50	0	1	47	1.11
1441458--1441501	14	3.1	14	86	0	61	38	18	9	34	1.82
1441530--1441574	2	23.0	2	88	4	65	48	4	0	46	1.22
1441865--1441906	22	1.9	22	85	9	59	47	2	7	42	1.43
1441815--1441950	57	2.4	55	81	4	166	43	6	8	41	1.60
1441941--1441969	14	2.0	15	93	6	51	48	6	6	37	1.57
1441945--1442035	21	4.3	20	73	12	74	39	6	6	47	1.56
1441956--1442062	22	5.0	21	76	13	94	40	6	7	45	1.58
1442078--1442181	21	4.8	21	75	16	79	48	3	1	46	1.31
1442052--1442201	66	2.3	66	82	8	171	45	4	3	47	1.38
1441980--1442188	21	9.6	21	68	17	70	43	5	4	46	1.47
1442217--1442283	15	4.5	14	82	14	73	47	0	1	50	1.10
1442215--1442297	21	4.1	20	75	20	66	46	0	1	51	1.08
1442215--1442277	6	11.3	6	77	19	50	49	0	1	49	1.10
1442112--1442287	7	24.7	7	67	23	52	48	2	1	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442510--1442563	23	2.3	24	96	3	101	48	9	0	42	1.35
1442857--1442913	16	3.6	16	80	0	69	33	12	29	24	1.92
1455758--1455814	27	2.1	27	93	0	96	31	15	19	33	1.93
1456158--1456244	24	3.6	24	85	0	102	24	8	17	50	1.72
1457225--1457924	226	3.1	225	87	2	983	38	14	16	31	1.88
1457310--1457954	118	5.8	110	69	12	391	37	13	15	32	1.88
1458110--1459258	200	5.8	199	86	3	1588	33	13	13	39	1.84
1458830--1458869	21	2.0	21	90	9	66	30	12	15	42	1.83
1458110--1459258	398	2.9	395	88	3	1638	33	13	13	39	1.84
1462149--1462196	18	2.7	18	96	0	87	43	20	0	35	1.52

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