genome.fa.s8071.2.7.7.80.10.50.1000.6.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: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1969971

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 922 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)
1175762--1176330	114	5.0	114	89	2	826	43	12	11	31	1.78
1192533--1192563	6	5.2	6	100	0	62	16	35	16	32	1.91
1193081--1193185	34	3.1	34	83	2	131	57	17	9	16	1.65
1201373--1201615	51	4.7	51	75	5	184	27	23	22	26	2.00
1212449--1212489	19	2.1	20	90	4	66	75	0	9	14	1.04
1218749--1218785	19	1.9	19	100	0	74	21	16	16	45	1.84
1218780--1218833	22	2.5	22	90	0	90	16	16	29	37	1.91
1218945--1218981	6	6.2	6	93	0	65	37	48	13	0	1.43
1219595--1219688	22	4.4	22	78	8	122	38	25	18	18	1.93
1219677--1219720	21	2.1	21	86	0	61	34	29	15	20	1.94
1223865--1223923	31	1.9	31	96	0	109	42	6	8	42	1.61
1223939--1224023	14	5.5	14	72	20	71	56	3	1	38	1.24
1223938--1224032	32	3.0	32	93	0	163	54	5	1	38	1.30
1223980--1224174	98	2.0	102	88	4	299	52	10	1	36	1.42
1224012--1224094	22	3.8	22	100	0	166	50	9	0	39	1.35
1224078--1224309	32	8.4	30	67	29	144	52	11	0	34	1.44
1224061--1224210	80	1.9	80	95	0	273	52	13	0	33	1.45
1224112--1224186	22	3.2	22	75	14	69	54	16	0	29	1.42
1224141--1224309	54	3.1	54	97	0	320	52	11	0	35	1.42
1224190--1224232	22	2.0	22	100	0	86	51	13	0	34	1.42
1224192--1224240	22	2.2	22	88	3	71	55	12	2	30	1.48
1224244--1224286	22	2.0	22	95	0	77	51	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224246--1224294	22	2.2	22	85	3	62	55	12	0	32	1.37
1224289--1224324	14	2.5	15	95	4	65	61	0	0	38	0.96
1230359--1230412	25	2.2	25	96	0	99	31	20	25	22	1.98
1236830--1236872	18	2.4	18	88	0	59	46	0	6	46	1.30
1248093--1248122	13	2.2	14	94	5	53	50	3	6	40	1.45
1248098--1248269	86	2.0	86	97	0	326	30	9	16	43	1.80
1254653--1254765	60	1.9	60	87	3	165	37	13	8	40	1.75
1259734--1259770	20	1.9	19	89	10	58	43	10	24	21	1.84
1261970--1262000	2	15.5	2	100	0	62	51	0	0	48	1.00
1269905--1269936	2	16.0	2	100	0	64	0	50	0	50	1.00
1274284--1274470	95	2.0	94	86	6	261	18	16	17	48	1.82
1284748--1284808	29	2.1	29	84	3	79	42	4	13	39	1.65
1286706--1286768	18	3.5	18	91	0	108	30	20	14	34	1.92
1292807--1292846	20	1.9	20	85	10	53	42	22	0	35	1.54
1293872--1293966	29	3.2	29	69	16	86	32	18	3	45	1.66
1293868--1294021	60	2.5	60	85	3	184	29	23	4	42	1.74
1294010--1294042	11	3.0	11	100	0	66	36	36	0	27	1.57
1295241--1295336	2	48.0	2	100	0	192	50	0	0	50	1.00
1295406--1295451	8	5.8	8	94	0	56	43	0	4	52	1.21
1295406--1295443	2	19.0	2	94	0	67	47	0	2	50	1.15
1295906--1295968	21	3.0	21	86	4	81	26	25	22	25	2.00
1295916--1295968	22	2.5	21	84	6	70	26	26	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296855--1296880	12	2.2	12	100	0	52	57	0	7	34	1.27
1298466--1298533	29	2.3	29	92	0	109	26	10	19	44	1.82
1299092--1299148	26	2.2	26	90	3	87	31	17	5	45	1.71
1305383--1305448	25	2.7	25	79	6	73	33	1	4	60	1.26
1305775--1305850	37	2.1	36	85	7	100	46	0	3	50	1.20
1316690--1316828	74	1.9	74	88	8	212	23	11	32	33	1.90
1317410--1317435	4	6.5	4	100	0	52	73	0	0	26	0.84
1319372--1319418	17	2.7	18	77	12	53	55	4	0	40	1.19
1337430--1337526	37	2.6	36	79	9	106	28	10	27	32	1.90
1343349--1343376	14	2.0	14	100	0	56	42	0	7	50	1.30
1344174--1344206	6	5.3	6	96	3	57	69	0	0	30	0.88
1350973--1351011	19	2.1	19	85	0	51	35	0	5	58	1.20
1361844--1361969	60	2.2	58	91	7	202	34	10	21	33	1.87
1364777--1364931	45	3.4	45	94	0	256	32	10	26	30	1.90
1364912--1364976	34	1.9	34	83	0	85	43	10	20	26	1.84
1364867--1365019	79	1.9	79	89	2	236	37	11	22	27	1.89
1364946--1365043	45	2.2	45	83	0	115	36	14	20	28	1.92
1367497--1367570	36	2.0	37	89	2	114	36	16	10	36	1.83
1367800--1367847	23	2.1	23	88	0	69	35	6	18	39	1.76
1368076--1368531	182	2.5	182	88	3	668	28	15	12	43	1.83
1368402--1368863	112	4.1	112	87	3	635	26	14	12	46	1.80
1371516--1371610	21	4.5	21	97	0	181	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393262--1393306	2	22.5	2	100	0	90	51	0	0	48	1.00
1396314--1396369	20	2.7	21	81	8	62	33	12	25	28	1.92
1396404--1396441	20	1.9	20	94	0	67	31	18	26	23	1.97
1401366--1401401	12	3.0	12	91	0	63	25	8	27	38	1.84
1414911--1414970	31	1.9	31	89	0	93	41	11	13	33	1.80
1428126--1428200	31	2.4	31	81	0	105	41	13	13	32	1.83
1428482--1428508	12	2.2	12	100	0	54	29	0	37	33	1.58
1428899--1428937	13	3.0	13	92	7	62	30	7	12	48	1.69
1428933--1428992	23	2.4	25	75	8	61	60	3	3	33	1.30
1429153--1429259	50	2.1	50	84	3	144	16	31	28	23	1.96
1429556--1429765	111	1.9	111	97	0	402	35	7	11	45	1.69
1431234--1431284	18	2.8	18	90	0	75	27	25	21	25	1.99
1431617--1431655	15	2.6	15	87	0	51	30	20	33	15	1.94
1435473--1435586	51	2.2	51	82	0	138	23	28	29	17	1.97
1448554--1448609	17	3.0	18	71	12	51	46	3	0	50	1.19
1448724--1448783	22	2.6	23	79	10	61	45	1	1	51	1.21
1448873--1448927	27	2.0	27	83	13	69	50	0	0	49	1.00
1448892--1448931	17	2.5	17	80	19	50	57	0	0	42	0.98
1449158--1449217	27	2.2	28	90	3	95	58	16	10	15	1.63
1453317--1453361	18	2.6	18	82	3	56	42	8	20	28	1.82
1453675--1453699	12	2.1	12	100	0	50	64	16	0	20	1.30
1453889--1453979	38	2.4	38	90	3	148	39	39	10	9	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459576--1459687	55	2.1	51	82	11	129	56	2	2	38	1.28
1475753--1475791	5	7.8	5	85	0	51	5	41	35	17	1.72
1475758--1475791	10	3.4	10	95	0	59	5	41	38	14	1.70
1479419--1479458	21	1.9	21	89	0	62	45	20	5	30	1.72
1485470--1485535	34	1.9	34	90	0	105	24	34	28	12	1.91
1485522--1485573	10	4.9	10	73	13	50	25	25	40	9	1.85
1485468--1485546	34	2.3	34	82	0	104	24	32	32	10	1.88
1485654--1485705	10	4.8	10	78	21	52	11	28	34	25	1.91
1485645--1485684	20	2.0	20	90	0	62	7	32	35	25	1.84
1487519--1487555	2	18.5	2	100	0	74	51	0	0	48	1.00
1487859--1487898	20	2.0	20	90	0	62	22	22	17	37	1.94
1488176--1488202	4	6.8	4	100	0	54	0	22	25	51	1.48
1488432--1488472	20	2.1	20	86	4	57	26	14	26	31	1.95
1489108--1489171	2	32.0	2	100	0	128	50	0	0	50	1.00
1492325--1492367	21	2.0	22	86	13	63	41	2	0	55	1.12
1494201--1494228	14	2.0	14	100	0	56	21	42	28	7	1.79
1494195--1494286	10	8.5	10	70	15	67	25	30	35	8	1.86
1495259--1495287	2	14.5	2	100	0	58	51	0	0	48	1.00
1496226--1496272	2	23.5	2	100	0	94	51	0	0	48	1.00
1496576--1496615	20	2.0	20	90	0	62	22	22	17	37	1.94
1497144--1497184	20	2.1	20	86	4	57	26	14	26	31	1.95
1502492--1502528	20	1.9	19	89	10	58	45	10	24	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515867--1515910	21	2.1	21	87	8	63	27	31	22	18	1.97
1517481--1517514	16	2.1	16	94	0	59	32	8	26	32	1.87
1521578--1521697	35	3.3	36	86	9	165	31	4	20	44	1.70
1523121--1523213	21	4.5	21	78	4	100	39	18	24	17	1.91
1523121--1523213	41	2.3	41	100	0	186	39	18	24	17	1.91
1523140--1523274	41	3.3	41	82	6	132	37	21	21	19	1.94
1523202--1523316	20	5.7	19	76	11	77	34	23	17	24	1.96
1523484--1523527	22	2.0	22	95	0	79	20	45	15	18	1.85
1523791--1523828	20	1.9	20	88	0	58	13	15	21	50	1.78
1525148--1525192	18	2.5	18	88	0	72	26	44	15	13	1.83

Tables:   1   2   3   4   5   6   7   8