genome.fa.s8033.2.7.7.80.10.50.1000.8.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: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3048429

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

This is table  8  of  14  ( 1580 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)
1371237--1371399	77	2.1	77	90	2	256	29	1	17	51	1.55
1371493--1371599	20	5.3	20	80	0	124	33	18	21	26	1.96
1371499--1371600	40	2.5	40	88	0	141	34	18	20	26	1.96
1374201--1374254	24	2.2	24	93	0	90	40	20	18	20	1.91
1374996--1375034	15	2.5	15	83	4	51	66	0	5	28	1.12
1375192--1375304	20	5.5	21	83	5	126	29	10	24	35	1.89
1375192--1375280	41	2.2	42	83	4	110	31	10	23	34	1.88
1375192--1375312	21	5.9	20	83	4	127	30	10	24	33	1.90
1375222--1375345	21	6.0	21	81	6	103	29	12	25	33	1.93
1378054--1378085	3	10.7	3	100	0	64	34	31	0	34	1.58
1378084--1378205	3	40.7	3	98	0	208	30	0	3	66	1.08
1380307--1380664	131	2.8	131	80	4	361	29	10	16	42	1.83
1381550--1381587	17	2.2	17	100	0	76	15	28	15	39	1.89
1392778--1392825	18	2.6	18	75	18	53	66	4	0	29	1.10
1401330--1401436	24	4.5	24	75	0	106	47	16	14	20	1.82
1401330--1401438	48	2.3	48	78	0	128	47	16	15	20	1.82
1403908--1404034	29	4.4	28	84	6	112	49	23	4	22	1.68
1403935--1404034	29	3.4	29	88	0	146	50	24	5	21	1.68
1404929--1404974	18	2.6	17	86	6	56	41	0	0	58	0.98
1404925--1404995	24	3.0	25	78	10	78	45	0	0	54	0.99
1406215--1406280	22	2.9	23	80	11	73	25	4	3	66	1.25
1406232--1406280	11	4.5	10	82	14	53	26	4	2	67	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410566--1410598	14	2.3	15	89	5	50	90	3	3	3	0.58
1416035--1416323	153	1.9	152	97	0	542	24	19	20	34	1.96
1416035--1416323	76	3.8	76	96	0	533	24	19	20	34	1.96
1416448--1416634	76	2.5	76	97	0	347	24	19	21	34	1.97
1416751--1416796	18	2.6	17	86	6	56	41	0	0	58	0.98
1416747--1416817	24	3.0	25	78	10	78	45	0	0	54	0.99
1418057--1418105	22	2.2	22	89	7	73	26	4	2	67	1.19
1418057--1418105	11	4.5	10	82	14	53	26	4	2	67	1.19
1418488--1418519	2	16.0	2	100	0	64	50	0	0	50	1.00
1419190--1419228	2	19.5	2	94	0	69	48	0	2	48	1.15
1422478--1422533	26	2.1	27	90	3	87	37	0	1	60	1.07
1422498--1422567	33	2.1	34	97	2	133	40	0	0	60	0.97
1422483--1422545	26	2.4	26	83	0	81	41	0	1	57	1.08
1422508--1422569	17	3.6	17	78	4	72	41	0	0	58	0.98
1423204--1423247	22	1.9	22	86	9	61	77	2	2	18	0.98
1424508--1424866	37	9.4	38	76	15	325	43	7	2	46	1.44
1424502--1424777	38	7.4	37	84	7	330	43	7	2	47	1.43
1424737--1424848	26	4.3	26	71	10	86	46	7	1	44	1.41
1424763--1424791	2	14.5	2	100	0	58	48	0	0	51	1.00
1424502--1424851	114	3.1	111	80	9	363	43	7	2	46	1.44
1424785--1424845	26	2.2	28	85	11	99	44	9	3	42	1.54
1429648--1429677	15	1.9	16	93	6	53	66	0	6	26	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429754--1429815	30	2.1	30	84	0	79	61	4	14	19	1.51
1430856--1430979	37	3.3	37	88	3	178	41	4	4	50	1.43
1430932--1431022	29	3.2	28	83	7	105	43	6	1	48	1.36
1430949--1431036	29	3.0	29	83	9	126	43	6	0	50	1.29
1437976--1438159	29	6.4	29	78	5	142	34	5	12	46	1.66
1437943--1438164	58	3.8	58	75	6	184	35	4	13	45	1.65
1437943--1438164	29	7.7	29	73	9	134	35	4	13	45	1.65
1438089--1438187	29	3.4	29	84	5	119	41	5	11	42	1.62
1438392--1438444	20	2.5	20	87	6	70	39	7	13	39	1.73
1442581--1442641	16	3.5	16	72	20	59	37	14	18	29	1.90
1442568--1442643	37	2.1	37	100	0	152	34	14	18	32	1.91
1442568--1442625	16	3.0	21	66	23	63	34	12	20	32	1.90
1445887--1445949	28	2.2	29	91	2	101	38	15	4	41	1.69
1459090--1459299	65	3.3	63	78	11	221	31	22	18	26	1.97
1459271--1459319	19	2.6	19	84	9	57	24	28	20	26	1.99
1459140--1459319	65	2.8	63	81	10	204	30	23	18	27	1.98
1466703--1466746	21	2.1	21	82	0	52	9	43	15	31	1.79
1467787--1467842	20	2.8	20	97	0	103	30	33	16	19	1.94
1467804--1467952	65	2.3	65	78	13	155	32	23	17	26	1.96
1467855--1468014	65	2.5	65	83	5	191	31	22	19	26	1.98
1477539--1477569	10	3.1	10	95	0	53	32	29	29	9	1.89
1480313--1481134	82	10.1	82	85	3	1045	31	21	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480313--1481134	163	5.0	163	85	2	1082	31	21	12	34	1.90
1481241--1481605	55	6.7	55	90	0	536	33	19	10	35	1.86
1481241--1481602	109	3.3	110	89	2	505	34	19	10	35	1.86
1481241--1481605	164	2.2	163	89	3	545	33	19	10	35	1.86
1484576--1485438	82	10.7	82	86	3	1101	31	21	11	35	1.89
1484576--1485436	243	3.6	245	85	3	1124	31	21	11	35	1.89
1484598--1485425	325	2.6	326	86	5	1096	31	21	11	35	1.89
1485548--1485914	55	6.7	55	90	1	574	33	19	11	36	1.87
1488927--1489676	82	9.2	82	87	2	949	33	20	10	36	1.86
1488927--1489670	163	4.6	163	86	2	926	32	20	9	36	1.86
1490009--1490047	19	2.0	20	85	5	53	23	38	0	38	1.55
1494082--1494115	2	17.0	2	100	0	68	50	0	0	50	1.00
1494274--1494322	13	3.8	13	86	0	71	34	16	18	30	1.93
1494275--1494327	26	2.0	26	92	0	88	33	13	18	33	1.90
1494450--1494729	81	3.5	81	87	7	421	31	20	12	35	1.90
1494755--1494954	50	3.9	52	81	10	202	35	17	11	36	1.85
1495747--1495795	25	2.0	24	84	4	62	44	24	0	30	1.54
1496587--1497351	383	2.0	380	95	3	1394	36	17	9	35	1.83
1498524--1498629	31	3.5	31	75	14	123	33	22	5	37	1.78
1498512--1498635	59	2.1	59	98	0	239	34	20	4	40	1.74
1508667--1508698	2	16.5	2	93	6	57	50	0	0	50	1.00
1508507--1508725	107	2.0	109	93	5	381	47	8	6	37	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508808--1508853	20	2.3	20	92	0	74	34	23	10	30	1.89
1508976--1509050	19	3.8	20	71	15	66	30	21	12	36	1.90
1508994--1509097	40	2.7	39	83	5	113	30	20	11	37	1.88
1508943--1509110	20	8.4	21	68	15	99	31	21	11	35	1.90
1512645--1512687	20	2.1	21	82	4	52	58	16	0	25	1.38
1513396--1513445	26	1.9	26	83	0	64	40	14	14	32	1.85
1513458--1513506	20	2.5	20	93	0	80	20	12	22	44	1.84
1514365--1514426	26	2.4	27	94	5	110	46	11	9	32	1.72
1515341--1515404	32	2.0	32	100	0	128	25	12	12	50	1.75
1515491--1515523	16	2.1	16	94	0	57	33	6	3	57	1.38
1516476--1516564	21	4.3	20	82	12	83	35	25	15	22	1.94
1516487--1516564	21	3.7	22	86	10	110	34	26	17	20	1.95
1517108--1517147	17	2.3	17	82	4	53	17	27	17	37	1.92
1521756--1521813	28	2.1	28	83	0	71	48	13	12	25	1.77
1525297--1525383	23	3.8	23	84	3	95	36	25	21	16	1.94
1525463--1525529	22	3.0	22	71	4	62	31	17	11	38	1.87
1525460--1525589	45	3.0	45	82	3	140	33	20	10	35	1.87
1529050--1529078	2	14.5	2	100	0	58	51	0	0	48	1.00
1533909--1533962	22	2.5	22	96	0	99	53	7	14	24	1.66
1538040--1538099	30	2.0	31	86	3	86	28	8	8	55	1.59
1538972--1539021	20	2.5	20	93	3	84	34	12	6	48	1.65
1539706--1539765	22	2.7	22	70	14	52	76	3	18	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542135--1542193	29	2.0	30	83	3	75	28	6	10	54	1.59
1543056--1543107	21	2.6	21	90	6	81	34	13	5	46	1.67
1543132--1543439	155	2.0	152	95	4	487	28	18	11	40	1.86
1543644--1543692	22	2.2	22	82	13	57	22	10	0	67	1.20
1544140--1544483	73	4.7	71	76	7	227	32	21	9	36	1.86
1544140--1544309	37	4.6	37	76	7	139	33	20	8	37	1.84
1544140--1544306	74	2.3	73	84	3	210	34	20	8	36	1.84
1544176--1544478	73	4.2	69	77	8	232	33	21	9	34	1.87
1550280--1550443	81	2.0	81	86	2	231	26	24	11	37	1.90
1550393--1550741	68	5.1	68	92	0	556	30	25	14	29	1.94

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