genome.fa.s7746.2.7.7.80.10.50.1000.5.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

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

This is table  5  of  15  ( 1700 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)
1285314--1285350	19	1.9	19	88	0	56	24	37	27	10	1.88
1291489--1291530	22	2.0	21	86	13	61	50	9	0	40	1.35
1291661--1291735	17	3.7	21	72	18	68	62	2	0	34	1.09
1291691--1291735	23	2.0	24	86	8	67	66	2	0	31	1.04
1292833--1292929	48	2.0	48	95	0	176	40	11	9	39	1.73
1298298--1298341	13	3.4	13	90	0	70	36	20	15	27	1.93
1304796--1304829	18	1.9	18	88	5	52	52	0	0	47	1.00
1306873--1307226	55	6.4	55	92	1	577	35	18	11	35	1.86
1314791--1315093	55	5.7	55	81	11	366	36	19	10	33	1.87
1315523--1315574	20	2.6	19	84	6	68	21	28	15	34	1.94
1316742--1317303	275	2.0	275	97	0	1070	31	8	23	36	1.85
1317636--1317677	22	1.9	22	90	0	66	30	21	21	26	1.98
1317913--1317958	18	2.5	18	82	3	56	56	0	17	26	1.41
1321249--1321322	31	2.4	31	100	0	148	50	16	12	21	1.77
1331538--1332100	54	10.5	53	88	2	777	26	17	20	35	1.95
1337044--1337310	54	4.9	54	88	1	401	25	16	20	36	1.94
1342539--1342577	21	1.9	20	84	5	51	35	20	15	28	1.93
1343506--1343581	24	3.3	24	66	23	72	31	22	9	36	1.86
1343508--1343595	45	2.0	45	93	0	149	31	23	9	35	1.86
1362974--1363016	6	7.2	6	83	0	59	76	2	4	16	1.05
1365144--1365186	19	2.3	19	92	4	70	13	9	0	76	1.01
1370706--1370745	12	3.6	12	80	12	50	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370732--1371186	22	20.6	22	87	1	651	38	0	11	50	1.38
1371211--1371269	31	1.9	31	85	0	82	42	8	5	44	1.57
1376353--1376392	17	2.4	17	95	0	71	25	27	12	35	1.92
1391451--1391596	6	24.7	6	95	2	260	0	48	0	50	1.05
1392440--1392482	22	2.0	21	82	8	52	48	4	0	46	1.22
1392912--1392978	34	2.0	34	93	0	116	29	0	25	44	1.54
1407907--1408021	60	1.9	60	82	7	144	32	21	5	40	1.75
1408154--1408276	60	2.0	60	83	6	151	39	7	22	30	1.81
1410369--1410395	13	2.1	13	100	0	54	22	14	14	48	1.81
1415463--1415508	21	2.2	21	84	0	56	54	19	2	23	1.55
1415476--1415529	28	1.9	28	84	0	72	51	22	0	25	1.48
1415555--1415613	14	4.2	13	81	12	55	45	25	1	27	1.63
1415566--1415610	15	3.1	15	81	12	58	44	31	0	24	1.54
1415555--1415645	29	3.2	29	79	14	84	47	26	1	25	1.59
1415584--1415629	21	2.2	21	84	7	58	47	23	0	28	1.52
1415809--1415913	15	7.4	14	73	17	83	51	24	2	20	1.61
1415815--1416010	21	9.1	21	66	7	63	50	26	2	20	1.61
1415845--1415912	28	2.5	28	87	2	93	51	26	4	17	1.64
1415973--1416062	15	6.3	14	70	8	56	50	21	1	27	1.56
1415981--1416088	35	3.0	35	81	10	121	49	23	0	26	1.56
1416749--1416784	2	18.0	2	100	0	72	50	0	0	50	1.00
1422970--1423062	21	4.6	20	78	4	96	38	18	24	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422967--1423062	41	2.3	41	98	0	183	39	17	23	18	1.92
1422970--1423062	20	4.6	20	78	4	96	38	18	24	18	1.92
1422989--1423123	41	3.3	41	81	6	123	37	20	21	20	1.94
1423051--1423145	20	4.7	20	80	2	91	34	24	17	23	1.96
1423625--1423662	20	1.9	20	88	0	58	13	15	21	50	1.78
1424950--1424994	18	2.5	18	85	0	63	26	42	15	15	1.87
1425462--1425507	20	2.3	20	88	0	65	36	26	21	15	1.93
1425501--1425594	18	5.6	17	67	22	58	45	24	19	10	1.81
1425501--1425588	32	2.8	31	86	5	131	46	25	18	10	1.80
1425516--1425572	14	3.9	14	72	18	53	47	28	17	7	1.73
1425529--1425594	19	3.8	19	67	22	63	46	24	19	9	1.78
1425590--1425677	18	5.4	16	73	20	67	10	18	26	45	1.81
1425605--1425662	14	3.9	14	79	16	71	8	17	25	48	1.75
1425590--1425677	32	2.8	32	91	3	133	10	18	26	45	1.81
1425665--1425716	20	2.7	19	85	5	68	15	23	25	36	1.93
1427045--1427232	33	5.7	33	85	6	274	42	19	22	15	1.88
1427046--1427243	65	3.0	66	96	0	353	41	19	22	16	1.90
1427236--1427277	19	2.2	20	83	12	61	16	19	23	40	1.91
1427403--1427445	13	3.4	13	77	3	52	53	18	0	27	1.45
1428353--1428545	33	5.8	33	85	4	282	42	19	22	15	1.88
1428354--1428552	66	3.0	66	97	0	371	41	19	22	16	1.90
1428545--1428587	20	2.2	20	87	4	61	16	18	23	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428725--1428756	13	2.5	13	89	0	55	40	25	0	34	1.56
1429940--1430006	21	3.2	21	65	4	55	19	19	35	25	1.95
1432062--1432241	19	9.8	19	74	14	128	43	22	22	11	1.85
1432087--1432185	33	3.0	33	87	1	135	38	26	24	11	1.88
1432159--1432246	19	4.6	19	92	2	149	45	22	20	11	1.83
1432159--1432246	39	2.3	38	94	2	149	45	22	20	11	1.83
1432242--1432308	19	3.5	19	81	2	80	10	16	23	49	1.77
1432820--1432913	20	4.7	20	78	2	89	24	18	24	32	1.97
1432902--1432956	20	2.7	21	80	5	67	20	23	18	38	1.93
1437049--1437524	182	2.6	183	88	1	695	42	13	16	27	1.86
1439708--1439772	21	3.1	21	93	0	103	41	10	30	16	1.83
1439806--1439871	33	2.0	33	90	0	105	28	0	48	22	1.51
1441666--1441712	19	2.5	19	93	6	78	34	2	8	55	1.42
1441948--1443111	200	5.8	200	95	0	2026	36	14	18	31	1.90
1444564--1444631	6	11.3	6	90	0	82	38	4	32	25	1.76
1444564--1444631	9	7.6	9	84	0	82	38	4	32	25	1.76
1446114--1446361	121	2.1	120	92	0	406	33	14	14	37	1.87
1446418--1446664	120	2.1	120	92	0	413	32	13	15	38	1.87
1445951--1447131	303	3.9	303	96	0	2157	33	14	16	35	1.89
1446722--1446967	120	2.0	120	95	0	438	32	13	16	37	1.87
1449894--1449966	23	3.2	23	92	0	119	34	5	21	38	1.77
1450372--1450444	23	3.2	23	92	0	119	34	5	21	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449682--1451795	478	4.4	478	95	1	3724	42	7	10	39	1.68
1450850--1450922	23	3.2	23	90	0	110	35	5	20	38	1.76
1451322--1451394	23	3.2	23	90	0	110	34	5	20	39	1.76
1457440--1457558	9	12.8	9	68	21	59	78	2	16	2	0.98
1457442--1457557	23	4.7	22	71	22	72	78	2	16	2	0.97
1457452--1457556	34	2.8	35	76	16	97	78	2	16	2	1.00
1457518--1457558	15	2.8	15	79	17	50	78	4	17	0	0.93
1457472--1457545	33	2.3	32	81	11	80	75	4	16	4	1.10
1458585--1458658	31	2.4	32	86	8	100	33	14	22	28	1.94
1459383--1459508	41	3.0	41	80	10	141	30	31	18	19	1.95
1458896--1459685	332	2.4	334	89	2	1207	33	24	18	24	1.97
1459710--1459869	42	3.8	42	93	0	266	26	23	19	31	1.98
1460100--1460662	215	2.6	214	85	8	746	30	24	17	28	1.97
1460100--1460682	109	5.3	109	83	8	692	30	24	17	27	1.97
1465336--1465484	59	2.5	59	79	12	137	32	22	6	38	1.78
1465609--1465770	60	2.8	57	83	5	175	39	6	20	33	1.79
1465795--1465834	2	20.0	2	100	0	80	50	0	0	50	1.00
1466960--1466996	2	18.0	2	94	5	65	48	2	0	48	1.15
1469754--1469796	21	2.0	21	81	0	50	53	0	0	46	1.00
1475073--1475124	2	26.0	2	100	0	104	50	0	0	50	1.00
1477270--1477304	18	1.9	18	88	0	52	17	0	8	74	1.06
1483693--1483767	7	10.3	7	72	13	53	22	24	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483710--1483766	30	1.9	29	89	3	87	21	22	19	36	1.95
1484964--1485014	21	2.4	21	96	0	93	29	7	3	58	1.44
1494994--1495065	8	9.2	8	75	6	67	44	22	19	13	1.86
1494986--1495070	15	5.5	15	76	2	62	42	22	20	15	1.89
1494986--1495053	16	4.4	15	80	7	64	44	22	17	16	1.87
1494994--1495053	24	2.6	23	91	2	93	46	21	16	15	1.83
1497206--1497265	8	7.8	8	77	5	61	13	21	21	43	1.87
1498392--1499826	4	360.0	4	99	0	2835	49	25	0	25	1.50
1500700--1500759	30	2.0	30	93	0	102	26	15	6	51	1.67
1503788--1503844	21	2.7	21	91	0	96	35	12	21	31	1.90

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