genome.fa.s8824.2.7.7.80.10.50.1000.7.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2203 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)
1359698--1359853	65	2.4	64	84	3	188	28	22	17	31	1.96
1365641--1365739	44	2.3	43	83	1	117	32	24	15	28	1.95
1367493--1367531	16	2.4	16	91	0	69	23	17	33	25	1.96
1367994--1368027	12	2.7	13	86	9	52	44	8	5	41	1.60
1368369--1368504	65	2.1	65	91	4	222	26	24	17	31	1.97
1368369--1368521	65	2.4	64	88	3	200	26	22	18	32	1.97
1371580--1371676	44	2.2	44	81	3	106	28	19	14	37	1.91
1371879--1371928	23	2.1	24	85	10	68	52	6	2	40	1.38
1373839--1373917	33	2.4	32	82	12	90	44	5	15	35	1.68
1373798--1374025	104	2.2	104	86	2	314	39	7	15	36	1.77
1374013--1374062	23	2.2	23	92	0	82	38	10	22	30	1.86
1388937--1389036	35	3.1	33	84	12	127	39	42	0	19	1.51
1388966--1389038	29	2.5	29	100	0	146	39	43	0	16	1.48
1389028--1389072	22	2.0	22	91	0	72	33	40	4	22	1.74
1393559--1393613	17	3.5	17	72	23	66	40	40	0	20	1.52
1393547--1393615	29	2.4	29	97	0	129	40	42	0	17	1.49
1393602--1393647	22	2.1	22	91	0	74	34	39	4	21	1.73
1401063--1401091	15	1.9	15	100	0	58	24	13	34	27	1.93
1406054--1406083	10	2.9	10	95	5	51	0	0	10	90	0.47
1406051--1406084	15	2.3	15	95	5	61	0	0	8	91	0.43
1410301--1410407	43	2.4	42	86	10	135	67	5	6	20	1.34
1412154--1412440	84	3.4	83	83	5	301	23	21	24	31	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412603--1414223	105	15.4	105	95	0	2562	23	18	24	32	1.97
1417947--1418036	44	2.0	44	89	4	137	68	6	6	17	1.33
1417960--1418054	44	2.2	43	85	11	122	66	4	7	22	1.34
1441352--1441441	39	2.3	39	86	5	128	30	21	30	18	1.97
1443985--1444034	19	2.5	20	81	12	59	26	16	18	40	1.90
1451273--1451320	20	2.6	18	75	12	51	45	10	18	25	1.81
1451466--1451546	37	2.2	36	82	8	99	51	1	1	45	1.16
1455680--1455714	2	17.5	2	100	0	70	51	0	0	48	1.00
1462622--1462651	12	2.5	12	94	0	51	6	40	3	50	1.45
1470419--1470449	3	10.3	3	92	0	53	0	29	0	70	0.87
1474222--1474317	22	4.4	22	98	0	183	13	22	16	46	1.82
1474288--1474835	136	4.0	135	78	7	523	26	21	17	34	1.95
1475763--1476346	109	5.4	108	84	3	608	42	16	9	31	1.80
1475872--1476347	109	4.4	109	87	2	609	42	16	9	32	1.79
1475763--1476349	54	10.8	55	82	3	672	42	16	9	31	1.80
1478300--1478378	7	10.4	8	83	15	55	2	17	0	79	0.84
1478292--1478414	14	8.5	14	72	12	79	1	17	1	78	0.91
1478334--1478455	13	9.2	13	75	17	94	0	13	4	80	0.92
1478341--1478429	19	4.6	19	89	6	135	0	14	3	82	0.80
1478330--1478429	7	15.3	7	81	14	79	0	15	3	82	0.80
1478330--1478463	32	4.4	31	79	16	104	0	14	5	79	0.93
1479689--1480190	250	2.0	252	99	0	990	41	15	16	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1482731--1482801	23	3.0	24	62	25	60	50	9	9	29	1.68
1482708--1482801	47	2.0	47	100	0	188	51	8	10	29	1.66
1489413--1489518	53	2.0	53	100	0	212	33	28	16	20	1.95
1497638--1497692	23	2.4	22	78	3	65	38	18	20	23	1.93
1498181--1498235	2	29.0	2	89	10	89	50	0	0	49	1.00
1499094--1499131	20	1.9	20	88	0	58	26	18	18	36	1.94
1499139--1499297	63	2.5	63	80	5	176	25	22	18	33	1.96
1502678--1502761	23	3.7	23	79	6	98	30	25	25	19	1.98
1503233--1503287	2	28.0	2	96	3	103	49	0	0	50	1.00
1507300--1507606	154	2.0	155	99	0	607	34	26	12	26	1.91
1513356--1513426	30	2.4	30	85	0	88	47	4	1	46	1.30
1515391--1515439	22	2.2	23	82	7	66	14	22	18	44	1.85
1517013--1517163	76	1.9	81	81	11	190	45	4	6	43	1.50
1523986--1524033	25	2.0	24	84	12	62	43	0	2	54	1.12
1545270--1545329	21	2.8	20	78	9	66	56	8	0	35	1.29
1547179--1547386	42	5.0	42	89	1	328	37	24	21	17	1.94
1547179--1547386	83	2.5	84	88	3	339	37	24	21	17	1.94
1554449--1554820	42	8.8	42	92	1	602	34	25	23	17	1.96
1569342--1569381	15	2.7	15	84	7	55	75	0	7	17	1.03
1569313--1569380	20	3.4	19	80	10	64	72	0	5	22	1.06
1570520--1570549	2	15.0	2	100	0	60	50	0	0	50	1.00
1576682--1576708	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590588--1590639	10	4.3	13	77	20	51	76	0	15	7	0.99
1590605--1590643	10	4.0	10	86	6	53	76	0	17	5	0.96
1591673--1591748	32	2.4	32	88	0	107	34	14	22	28	1.93
1592023--1592146	43	2.9	43	82	2	151	29	28	19	22	1.98
1592358--1592481	43	2.9	43	81	4	144	29	32	18	19	1.96
1591908--1592665	335	2.3	335	93	0	1295	34	24	18	23	1.96
1592693--1592901	42	5.0	42	83	1	258	24	20	22	32	1.98
1592902--1592978	37	2.1	37	92	4	129	44	20	14	20	1.86
1592979--1593397	112	3.7	112	92	0	705	29	22	16	31	1.95
1597048--1597074	14	1.9	14	100	0	54	74	0	7	18	1.05
1597512--1597568	3	19.7	3	75	13	57	63	0	3	33	1.12
1599292--1599335	20	2.3	19	85	11	63	20	25	9	45	1.80
1599298--1599335	20	1.9	20	94	0	67	21	23	10	44	1.83
1599580--1599605	2	13.0	2	100	0	52	50	0	0	50	1.00
1599751--1599792	21	2.0	21	95	0	75	35	19	7	38	1.79
1601020--1601057	19	2.0	19	89	0	58	57	13	2	26	1.49
1612012--1612102	46	2.0	46	91	2	148	27	25	19	27	1.99
1619462--1619505	21	2.1	21	82	0	52	9	43	15	31	1.79
1620671--1620758	45	1.9	46	93	2	151	27	26	19	27	1.99
1620724--1620762	20	1.9	21	94	5	71	35	25	20	17	1.95
1622655--1622719	30	2.2	30	94	0	112	29	26	7	36	1.84
1631843--1631916	13	5.9	12	74	13	51	59	2	0	37	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632676--1632704	12	2.3	13	94	5	51	6	24	6	62	1.45
1633463--1633501	17	2.4	17	91	4	62	53	5	0	41	1.23
1633565--1633589	11	2.3	11	100	0	50	32	0	16	52	1.44
1640766--1640923	21	7.8	20	72	7	86	38	25	17	18	1.92
1640890--1641044	40	3.8	40	82	4	186	37	26	18	18	1.93
1640890--1641043	20	7.7	20	80	7	168	37	26	18	18	1.93
1641427--1641497	33	2.2	33	92	0	115	11	22	18	47	1.80
1641577--1641686	21	5.8	20	74	17	108	45	18	24	11	1.83
1641570--1641686	41	3.1	38	81	14	145	46	17	25	11	1.81
1641637--1641693	14	3.7	14	75	20	60	43	22	24	8	1.81
1641629--1641709	33	2.5	33	95	0	144	46	22	22	8	1.78
1641705--1641802	19	5.7	19	69	22	90	11	22	21	44	1.83
1641727--1641816	14	5.7	14	69	23	63	10	23	22	44	1.82
1641710--1641824	33	3.5	33	97	0	221	10	22	20	46	1.80
1643523--1643990	93	5.1	93	98	0	904	22	12	19	45	1.83
1643523--1643990	185	2.5	186	98	1	904	22	12	19	45	1.83
1644038--1644166	19	7.3	19	75	17	116	46	27	17	8	1.77
1644074--1644166	33	2.8	32	90	4	141	47	26	18	7	1.75
1644162--1644473	19	17.7	19	78	16	323	12	20	20	46	1.83
1644184--1644240	14	3.7	14	77	20	60	10	21	22	45	1.82
1644167--1644487	33	9.2	33	79	14	278	12	20	20	46	1.82
1644200--1644473	52	5.2	50	79	15	195	12	20	20	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646914--1646960	24	2.0	24	87	8	69	38	21	14	25	1.92
1647643--1647952	20	15.5	20	86	1	343	20	17	24	37	1.94
1647643--1647952	40	7.8	40	90	4	394	20	17	24	37	1.94
1647939--1648021	21	4.0	21	73	6	78	25	16	24	33	1.96
1647919--1648017	42	2.4	43	77	11	100	21	18	23	37	1.94
1653366--1653422	19	2.8	20	76	7	62	29	15	22	31	1.95
1670407--1670584	90	2.0	90	90	0	284	44	6	10	37	1.66
1677786--1677827	3	14.0	3	100	0	84	66	0	0	33	0.92
1679461--1680360	123	7.6	123	89	3	930	26	20	15	38	1.91
1679461--1680360	245	3.8	236	84	8	1000	26	20	15	38	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19