genome.fa.s8041.2.7.7.80.10.50.1000.6.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  6  of  21  ( 2430 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)
1386637--1386692	18	3.2	18	76	5	60	41	1	1	55	1.21
1387194--1387313	35	3.3	36	89	6	181	30	5	20	44	1.72
1391814--1391899	37	2.3	38	88	4	122	32	4	18	44	1.71
1393593--1393648	21	2.6	21	81	13	69	55	0	1	42	1.10
1393591--1393647	22	2.6	22	81	13	64	54	0	1	43	1.10
1393623--1393657	17	2.1	17	88	0	52	54	0	0	45	0.99
1397193--1397230	3	12.7	3	100	0	76	31	0	0	68	0.90
1397551--1397631	42	1.9	42	89	0	126	32	13	23	30	1.93
1397642--1398412	202	3.9	203	85	5	989	28	21	17	33	1.96
1398417--1398688	117	2.3	116	91	2	438	25	24	14	36	1.93
1399820--1399932	57	2.0	58	96	3	212	22	24	12	40	1.88
1400288--1400394	42	2.6	41	78	12	105	30	20	20	28	1.98
1400151--1400785	242	2.7	238	87	3	927	34	15	17	31	1.92
1400853--1401008	59	2.6	61	82	4	190	40	16	10	33	1.82
1402716--1402885	83	2.1	79	79	11	175	44	5	7	42	1.57
1410130--1410197	28	2.4	28	82	0	82	22	7	30	39	1.81
1410939--1411008	21	3.3	21	79	15	81	4	17	1	77	1.01
1410916--1410993	16	4.6	17	69	15	54	3	17	1	76	1.00
1410993--1411026	17	1.9	18	88	5	52	8	14	0	76	1.01
1411281--1411308	2	14.0	2	100	0	56	50	0	0	50	1.00
1416288--1416572	153	1.9	154	97	0	545	22	22	20	34	1.97
1418697--1418741	3	15.0	3	85	0	63	64	2	4	28	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418946--1419010	2	33.0	2	96	3	123	49	0	0	50	1.00
1420917--1420989	3	25.0	3	78	10	80	39	0	0	60	0.97
1420904--1420988	18	4.5	18	75	12	55	42	0	0	57	0.98
1420916--1420989	11	6.9	11	71	20	59	40	0	0	59	0.97
1420923--1420989	18	3.9	17	90	7	100	40	0	0	59	0.97
1421157--1421195	19	2.1	19	95	0	69	25	51	17	5	1.66
1422398--1422490	48	1.9	47	82	6	114	40	8	1	49	1.40
1425641--1425672	2	16.5	2	93	6	57	53	0	0	46	1.00
1427500--1427582	18	4.6	18	86	5	123	48	18	8	25	1.76
1438400--1438457	24	2.4	24	82	0	71	36	18	20	24	1.95
1441357--1441585	18	12.6	17	78	9	181	49	17	7	24	1.72
1441357--1441589	36	6.4	34	82	9	218	49	17	7	25	1.73
1441343--1441589	72	3.4	72	82	8	261	48	17	8	25	1.75
1448031--1448070	20	2.0	20	85	9	55	32	7	0	60	1.25
1449469--1449508	20	2.0	21	85	14	57	42	2	7	47	1.45
1449504--1449605	43	2.3	44	79	3	125	48	1	3	46	1.32
1454776--1454930	29	5.4	28	83	6	150	42	23	3	29	1.72
1454813--1454931	59	2.0	58	85	6	159	38	27	4	29	1.75
1454932--1454969	17	2.2	17	90	0	58	15	23	39	21	1.92
1459526--1459598	8	10.1	8	77	19	56	31	1	1	65	1.09
1459528--1459591	8	9.1	7	79	17	71	29	1	1	67	1.09
1459528--1459591	21	3.0	21	84	8	94	29	1	1	67	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459527--1459639	14	8.1	14	69	14	65	33	0	3	61	1.19
1461133--1461274	55	2.6	55	89	2	205	32	19	18	29	1.96
1467400--1467506	21	5.0	21	67	28	55	32	24	18	24	1.97
1468021--1468216	55	3.6	55	80	5	159	31	22	18	28	1.97
1472283--1472313	13	2.4	13	100	0	62	25	6	22	45	1.76
1475837--1475876	20	2.0	20	95	0	71	52	10	15	22	1.71
1485781--1485860	38	2.1	38	83	4	99	48	31	7	12	1.68
1486205--1486271	24	2.7	24	71	15	64	25	19	14	40	1.90
1489416--1489461	9	5.1	9	75	19	51	52	2	2	43	1.25
1492288--1492364	38	2.0	38	100	0	154	25	5	36	32	1.78
1494567--1494610	12	3.6	12	81	3	52	27	18	2	52	1.57
1494666--1494718	19	2.8	19	76	0	61	26	16	9	47	1.77
1495024--1495058	16	2.1	18	89	10	56	45	11	0	42	1.40
1503299--1503342	22	2.1	21	87	8	63	72	6	9	11	1.27
1505000--1505079	25	3.2	25	76	1	90	31	18	26	23	1.98
1505209--1505255	15	3.1	15	81	0	58	42	21	6	29	1.77
1505298--1505336	17	2.3	17	86	0	51	64	7	0	28	1.21
1508737--1508790	28	1.9	28	96	0	99	25	37	12	24	1.91
1511944--1511990	24	2.0	24	82	0	58	36	23	14	25	1.93
1512013--1512094	25	3.3	25	82	3	103	30	21	23	24	1.99
1512196--1512265	30	2.3	30	82	4	79	41	22	7	28	1.80
1516016--1516177	46	3.7	46	83	8	219	19	21	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516446--1516758	52	6.0	51	76	10	211	29	19	20	30	1.97
1516470--1517047	105	5.6	107	77	11	333	31	18	19	30	1.96
1516500--1517451	53	18.3	54	78	7	756	32	18	19	29	1.96
1516860--1517450	263	2.3	265	84	5	749	33	19	18	28	1.96
1520418--1520452	2	17.5	2	100	0	70	48	0	0	51	1.00
1522112--1522278	46	3.7	45	86	3	219	23	21	9	45	1.81
1522531--1523571	54	19.3	54	84	0	1116	31	18	19	30	1.96
1523903--1523949	22	2.1	23	88	4	69	34	25	12	27	1.92
1523934--1523997	19	3.4	19	97	0	119	26	15	17	40	1.89
1523913--1523997	38	2.2	38	85	6	107	29	17	16	36	1.92
1524040--1524077	20	1.9	20	88	0	58	18	39	13	28	1.88
1532549--1532859	78	4.1	78	87	4	390	27	23	10	37	1.88
1533295--1533467	92	1.9	91	83	10	228	24	23	16	35	1.95
1533451--1533488	20	1.9	20	88	0	58	31	21	18	28	1.97
1538888--1538964	37	2.0	39	92	7	131	33	28	6	31	1.83
1539891--1540219	79	4.2	79	87	0	435	29	22	10	37	1.88
1542625--1542663	20	2.0	20	84	0	51	20	5	0	74	1.01
1545639--1545691	28	1.9	27	84	3	70	49	5	13	32	1.65
1551285--1551354	31	2.3	30	97	2	131	48	12	32	5	1.65
1557419--1557504	22	3.9	22	74	21	81	69	5	4	19	1.27
1561337--1561395	25	2.3	24	80	11	64	52	6	11	28	1.63
1561802--1562052	80	3.2	80	87	1	362	34	17	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562200--1562234	3	11.7	3	100	0	70	34	0	0	65	0.93
1564532--1564582	16	3.1	16	88	2	66	64	27	1	5	1.27
1565938--1565995	3	19.0	3	96	3	107	0	32	0	67	0.91
1568117--1568146	10	2.8	11	90	10	53	66	0	0	33	0.92
1568474--1568502	14	2.0	15	93	6	51	10	0	27	62	1.28
1578561--1578609	3	15.7	3	83	8	62	40	0	0	59	0.98
1585321--1585359	18	2.2	18	95	0	69	30	7	28	33	1.85
1585689--1586940	128	9.7	127	80	5	1250	25	29	18	26	1.98
1585702--1586595	46	20.9	43	66	15	211	26	29	18	26	1.98
1585689--1587017	256	5.1	256	82	5	1396	26	29	18	26	1.98
1587223--1587274	3	16.7	3	84	7	68	40	0	0	59	0.97
1587788--1587941	29	5.2	28	73	16	107	19	12	11	57	1.64
1591946--1592036	28	3.3	28	78	7	80	35	5	1	58	1.29
1595306--1595337	15	2.1	15	94	0	55	25	18	9	46	1.79
1599120--1599151	9	3.6	9	91	0	55	21	21	0	56	1.43
1601915--1601979	3	21.7	3	81	6	78	40	0	0	60	0.97
1601915--1601974	21	2.8	22	92	5	97	41	0	0	58	0.98
1601986--1602040	26	2.1	26	86	6	76	41	27	18	12	1.86
1603250--1603308	15	4.0	15	76	22	54	28	5	0	66	1.13
1604051--1604095	11	3.9	12	77	16	51	24	2	0	73	0.95
1604052--1604095	22	2.0	22	86	4	61	25	2	0	72	0.96
1604072--1604120	20	2.5	20	87	9	66	22	2	4	71	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604506--1604567	29	2.1	30	87	3	90	37	0	22	40	1.54
1607973--1608032	29	2.0	30	83	3	77	33	5	8	53	1.53
1608014--1608281	99	2.7	98	90	4	418	38	13	17	30	1.88
1608603--1608673	3	23.0	3	83	11	81	36	0	1	61	1.05
1608609--1608675	16	4.1	16	85	11	82	38	0	1	59	1.06
1608603--1608654	19	2.7	19	88	8	79	32	0	0	67	0.91
1609776--1609822	15	3.0	17	85	11	57	29	6	4	59	1.41
1609826--1609870	20	2.2	21	84	4	56	17	0	11	71	1.14
1609828--1609913	24	3.7	23	77	14	70	24	1	6	67	1.22
1609837--1609913	11	6.7	11	72	16	59	24	1	6	67	1.22

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21