genome.fa.s4593.2.7.7.80.10.50.1000.6.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: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1592963

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 829 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)
1198166--1198314	60	2.5	60	85	1	183	34	24	20	20	1.97
1198283--1198410	31	4.1	31	76	6	132	34	20	17	27	1.95
1198943--1198985	20	2.1	21	87	8	63	32	11	6	48	1.66
1198949--1198995	20	2.2	20	85	7	58	36	12	6	44	1.68
1210213--1210248	2	18.0	2	100	0	72	50	0	0	50	1.00
1228734--1228758	12	2.1	12	100	0	50	76	0	0	24	0.80
1228795--1228863	33	2.1	32	84	7	86	44	4	2	47	1.37
1228860--1229106	34	7.1	33	72	20	168	42	6	4	46	1.50
1228901--1229099	64	3.0	66	82	7	213	42	6	4	46	1.50
1229171--1229196	13	2.0	13	100	0	52	30	15	30	23	1.95
1229744--1230439	83	8.5	84	78	8	684	24	21	25	29	1.99
1229724--1230439	163	4.4	163	81	8	756	24	21	25	29	1.99
1229744--1230439	84	8.5	83	78	8	676	24	21	25	29	1.99
1229720--1230439	246	2.9	246	91	3	1125	24	20	25	29	1.99
1233629--1233671	24	1.9	22	86	13	61	76	4	9	9	1.14
1234951--1235183	117	2.0	114	95	4	423	26	17	24	31	1.97
1236224--1236253	16	1.9	15	93	6	51	13	26	40	20	1.89
1236601--1236678	34	2.2	36	82	11	99	44	6	5	43	1.51
1236715--1236841	31	4.1	33	76	13	126	44	7	3	45	1.47
1236701--1236836	61	2.3	60	83	7	161	43	6	2	47	1.44
1236549--1236852	166	1.8	165	82	9	395	42	6	4	46	1.50
1237332--1237381	20	2.5	20	93	3	84	22	20	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237344--1237388	20	2.2	20	88	0	63	24	26	8	40	1.84
1238339--1238375	18	2.1	18	100	0	74	16	18	5	59	1.55
1238380--1238428	2	25.0	2	91	4	82	48	0	2	48	1.12
1248477--1248520	17	2.6	16	85	7	52	27	4	13	54	1.58
1248997--1249041	18	2.5	19	72	13	51	40	2	0	57	1.11
1249589--1249614	12	2.2	12	100	0	52	50	0	0	50	1.00
1249866--1249940	2	37.5	2	100	0	150	50	0	0	49	1.00
1253607--1253664	19	3.0	19	80	7	64	29	3	3	63	1.27
1253797--1253836	21	1.9	21	94	0	71	25	7	20	47	1.75
1254305--1254352	16	3.0	16	82	8	53	54	0	0	45	0.99
1255400--1255440	21	1.9	22	85	5	57	39	2	4	53	1.35
1255744--1255840	48	2.0	49	93	2	169	39	4	4	52	1.40
1255802--1255837	15	2.4	15	90	0	54	41	2	0	55	1.14
1255951--1255976	11	2.4	11	100	0	52	76	7	0	15	0.99
1256566--1256592	4	6.8	4	100	0	54	77	0	0	22	0.76
1257368--1257423	19	3.0	18	77	15	60	21	28	17	32	1.96
1259135--1259173	14	2.8	14	84	0	51	17	5	17	58	1.56
1259575--1259667	31	2.9	32	82	6	109	23	23	25	26	2.00
1266762--1266791	2	15.0	2	100	0	60	50	0	0	50	1.00
1266949--1266979	2	15.5	2	100	0	62	48	0	0	51	1.00
1274491--1274554	23	2.8	23	81	6	60	35	3	1	59	1.23
1275279--1275304	4	6.5	4	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278173--1278269	32	3.1	31	85	5	131	17	26	26	28	1.98
1281740--1281841	34	2.9	36	91	5	172	44	13	14	27	1.83
1282232--1282271	18	2.3	18	83	8	57	25	5	2	67	1.23
1282328--1282352	2	12.5	2	100	0	50	48	0	0	52	1.00
1285176--1285232	26	2.2	25	81	9	71	78	7	14	0	0.94
1285168--1285231	13	4.9	12	76	12	56	81	6	12	0	0.87
1285830--1285873	22	2.0	22	91	8	72	38	22	11	27	1.88
1286823--1287104	36	8.0	36	80	8	321	25	19	14	40	1.89
1286781--1287104	72	4.6	73	77	10	248	26	19	15	38	1.91
1286879--1287067	102	1.9	102	89	2	299	26	18	13	40	1.88
1286843--1287169	138	2.4	137	84	2	458	28	19	12	39	1.88
1287062--1287219	65	2.4	66	85	5	194	33	20	8	37	1.83
1287062--1287236	68	2.6	67	83	4	212	33	21	8	36	1.84
1287840--1288605	105	7.3	105	89	2	1060	34	25	17	22	1.96
1289140--1289241	34	2.9	36	91	5	172	44	13	14	27	1.83
1289633--1289675	18	2.5	17	85	7	61	25	4	2	67	1.22
1289673--1289794	2	62.5	2	79	13	112	41	2	0	54	1.19
1301552--1301603	27	1.9	27	100	0	104	32	26	15	25	1.95
1305914--1306147	124	1.9	123	82	6	294	33	16	16	34	1.91
1313428--1314411	490	2.0	486	93	4	1703	39	8	10	42	1.69
1314585--1314649	20	3.2	20	86	0	94	40	18	18	23	1.92
1314643--1314685	20	2.2	20	100	0	86	41	25	11	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314578--1314671	40	2.3	40	78	10	102	41	20	14	23	1.89
1315198--1315260	20	3.2	20	90	2	101	12	17	20	49	1.79
1317311--1317392	21	4.0	21	80	12	80	21	35	18	24	1.96
1318242--1318284	21	2.0	21	100	0	86	53	4	13	27	1.60
1318783--1318812	15	2.1	14	93	6	51	13	0	10	76	1.01
1318863--1318901	20	2.0	20	94	0	69	43	20	17	17	1.88
1318891--1318987	49	2.0	49	87	4	142	32	18	20	27	1.96
1321447--1321500	24	2.3	23	87	6	81	40	20	16	22	1.91
1321624--1321657	12	2.8	12	90	0	50	14	0	29	55	1.40
1322409--1322476	20	3.4	20	72	8	57	35	14	22	27	1.93
1322401--1322478	40	2.0	40	86	0	111	37	14	20	28	1.91
1322429--1322569	20	7.0	20	72	3	95	36	12	22	27	1.91
1322441--1322578	61	2.3	60	81	5	152	36	12	22	28	1.90
1322490--1322567	41	1.9	41	84	5	104	38	14	21	25	1.91
1322611--1322652	20	2.1	20	100	0	84	19	14	28	38	1.90
1323365--1323400	15	2.4	15	90	0	54	55	0	2	41	1.14
1325084--1325133	21	2.3	23	82	6	59	36	2	2	60	1.20
1328793--1329103	155	2.0	157	97	2	592	21	7	13	57	1.61
1332125--1332166	21	2.2	20	83	12	52	42	0	0	57	0.99
1334816--1334989	84	2.1	84	98	1	339	31	6	8	53	1.57
1340179--1340240	22	2.8	22	85	0	79	40	12	25	20	1.89
1344798--1344856	29	2.0	29	100	0	118	23	13	13	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349466--1349524	29	2.0	29	100	0	118	23	13	13	49	1.78
1350405--1350476	36	2.0	36	100	0	144	33	2	36	27	1.72
1360111--1360160	17	2.9	17	82	11	59	68	0	0	32	0.90
1360341--1360547	91	2.3	92	84	2	256	23	16	33	26	1.96
1360516--1360758	41	5.8	41	80	8	269	25	18	32	23	1.97
1360823--1360903	27	2.9	27	81	7	83	49	13	12	24	1.76
1361822--1361947	67	1.9	66	85	8	175	46	10	13	29	1.76
1361901--1361964	30	2.1	30	94	0	110	40	14	9	35	1.78
1361896--1361973	30	2.7	29	82	11	97	44	15	7	32	1.75
1361952--1362055	52	2.0	53	92	3	174	35	18	13	32	1.90
1362051--1362142	29	3.3	27	86	6	96	47	14	6	31	1.69
1362066--1362161	29	3.4	28	83	7	115	45	14	9	30	1.76
1362420--1362517	36	2.8	35	81	3	117	33	12	19	34	1.89
1362421--1362539	36	3.4	36	80	6	111	35	12	21	30	1.91
1362491--1362731	105	2.3	105	83	9	298	38	11	20	29	1.88
1362672--1362835	37	4.4	36	79	8	179	39	12	18	29	1.88
1362697--1362832	72	1.9	72	87	6	204	36	13	19	30	1.90
1369555--1369597	20	2.2	20	86	0	59	6	16	4	72	1.24
1370126--1370175	17	2.9	17	82	11	59	68	0	0	32	0.90
1383839--1383863	13	1.9	13	100	0	50	32	16	8	44	1.76
1386391--1386424	18	1.9	18	88	5	52	26	29	26	17	1.98
1387353--1387426	34	2.2	34	78	4	78	31	1	4	63	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387795--1387819	4	6.2	4	100	0	50	76	0	0	24	0.80
1389240--1389276	2	20.0	2	84	15	53	51	0	0	48	1.00
1397806--1397871	23	2.9	24	78	14	77	36	1	0	62	1.05
1398268--1398320	22	2.5	21	85	11	72	71	1	0	26	0.96
1398268--1398317	23	2.3	22	83	13	59	74	2	0	24	0.93
1399796--1399835	3	13.3	3	94	0	71	67	2	0	30	1.04
1405915--1405959	19	2.3	20	88	7	67	31	0	4	64	1.13
1406498--1406543	2	23.0	2	95	0	83	47	2	0	50	1.13
1415601--1415666	34	2.0	32	88	5	96	22	28	16	31	1.96
1415885--1415924	21	1.9	22	90	10	66	12	10	40	37	1.77

Tables:   1   2   3   4   5   6   7