genome.fa.s8183.2.7.7.80.10.50.1000.7.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: VEPZ01008183.1 Hibiscus syriacus cultivar Beakdansim tig00110783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2364390

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

This is table  7  of  11  ( 1319 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)
1360657--1360751	49	1.9	49	95	0	172	16	33	30	18	1.94
1360745--1360799	18	3.2	16	78	12	56	29	43	10	16	1.82
1362909--1362969	3	20.0	3	78	18	56	29	0	0	70	0.88
1362909--1362970	24	2.8	22	83	13	83	30	0	0	69	0.89
1369506--1369559	20	2.6	21	82	2	65	46	22	0	31	1.52
1370109--1370152	13	3.4	13	81	6	54	22	4	0	72	1.02
1370112--1370155	20	2.3	19	88	4	61	22	4	0	72	1.02
1370252--1370312	18	3.2	19	69	15	54	52	1	3	42	1.27
1374434--1374522	30	3.0	30	71	19	78	50	1	0	48	1.08
1375504--1376164	332	2.0	335	91	1	1078	31	18	16	33	1.93
1376498--1376536	20	1.9	20	84	5	51	71	0	2	25	0.98
1377295--1377342	25	2.0	24	87	4	69	64	10	0	25	1.25
1377295--1377357	25	2.5	25	75	12	65	66	7	0	25	1.18
1379789--1379829	18	2.3	18	91	4	66	29	4	2	63	1.28
1381507--1381542	18	2.0	18	88	0	54	33	27	13	25	1.94
1382284--1382328	21	2.1	21	87	0	63	31	28	24	15	1.96
1382903--1382937	18	1.9	18	88	11	54	54	5	17	22	1.64
1382993--1383036	22	2.0	22	86	4	63	45	0	20	34	1.51
1383259--1383308	2	25.0	2	100	0	100	50	0	0	50	1.00
1383976--1384020	23	2.0	23	81	0	54	22	24	26	26	2.00
1388627--1388672	12	3.8	12	82	2	56	65	6	2	26	1.28
1388952--1389063	51	2.2	51	84	6	138	25	26	30	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390031--1390101	36	2.0	36	88	5	108	39	9	12	38	1.77
1402508--1402546	19	2.0	19	85	5	51	51	0	7	41	1.31
1402520--1402556	19	1.9	19	89	10	58	48	0	5	45	1.25
1405108--1405146	17	2.3	17	81	0	51	56	10	12	20	1.65
1405814--1406274	55	8.6	54	84	5	467	27	24	18	29	1.98
1406070--1406280	102	2.1	102	90	1	289	27	27	15	29	1.96
1406285--1406359	37	2.1	36	87	7	107	24	20	18	37	1.94
1407639--1407734	16	6.1	15	74	21	90	10	13	0	76	1.03
1407639--1407727	23	3.9	23	91	7	137	10	13	0	76	1.02
1407639--1407734	9	12.0	9	79	19	83	10	13	0	76	1.03
1407639--1407727	47	1.9	46	90	6	144	10	13	0	76	1.02
1407646--1407718	7	9.7	7	81	11	83	10	13	0	75	1.05
1407634--1407742	23	4.8	23	87	8	136	11	12	0	76	1.03
1407640--1407742	47	2.2	47	86	6	140	10	13	0	75	1.04
1407686--1407742	14	3.8	14	71	24	53	12	10	0	77	1.00
1417148--1417208	32	1.9	32	83	12	81	57	3	11	27	1.49
1417451--1417483	2	16.5	2	100	0	66	48	0	0	51	1.00
1417800--1417922	59	2.1	59	81	1	138	37	17	15	30	1.90
1418848--1418963	60	1.9	60	87	3	171	38	4	25	31	1.75
1419996--1420085	35	2.6	35	87	5	137	27	1	28	42	1.63
1420786--1420854	35	2.0	35	88	5	104	30	1	26	42	1.64
1428286--1428354	32	2.2	32	81	2	86	37	7	13	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430941--1431016	30	2.5	31	91	4	118	21	26	10	42	1.85
1433996--1434105	23	4.8	23	84	4	150	30	25	26	17	1.97
1433999--1434105	46	2.3	46	96	0	196	29	26	27	16	1.97
1439198--1439261	23	2.8	22	77	15	76	34	25	23	17	1.96
1440282--1440311	2	15.0	2	100	0	60	50	0	0	50	1.00
1457301--1457334	16	2.1	16	88	0	50	29	0	2	67	1.05
1457346--1457505	80	2.0	80	98	0	311	28	13	17	40	1.87
1457685--1457729	8	6.0	8	77	15	51	68	0	0	31	0.89
1457680--1457738	12	4.8	13	76	17	54	71	0	0	28	0.87
1457675--1457719	21	2.1	21	91	0	72	75	0	0	24	0.80
1458340--1458370	10	3.1	10	90	0	53	12	16	51	19	1.76
1481474--1481524	25	2.0	25	81	7	59	35	3	1	58	1.28
1483421--1483455	2	17.5	2	100	0	70	51	0	0	48	1.00
1484343--1484705	120	3.0	121	75	7	281	38	13	8	39	1.75
1485640--1485702	27	2.3	27	100	0	126	34	12	3	49	1.57
1494309--1494968	218	3.0	218	98	0	1275	35	20	16	28	1.94
1496767--1496815	22	2.2	22	85	7	64	36	18	14	30	1.90
1496848--1496896	13	3.7	13	78	5	62	24	18	24	32	1.97
1496841--1496896	27	2.1	26	93	3	94	25	19	25	30	1.98
1502189--1502228	21	1.9	21	94	0	71	25	22	25	27	2.00
1507543--1507662	30	4.1	30	81	5	140	60	6	12	20	1.54
1507531--1507662	60	2.3	57	85	9	169	58	6	13	21	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507552--1507677	60	2.1	59	84	11	159	59	7	11	21	1.56
1507910--1508124	20	10.9	20	75	14	171	14	22	22	40	1.91
1507910--1508165	40	6.4	40	76	16	205	16	22	21	39	1.91
1507905--1508136	115	2.0	115	94	0	410	17	21	22	38	1.93
1508081--1508159	22	3.7	22	68	13	67	18	20	22	37	1.94
1508090--1508177	41	2.1	41	95	0	158	20	20	20	38	1.94
1508109--1508177	19	3.5	19	69	11	66	20	21	18	39	1.93
1508276--1508309	5	6.6	5	96	3	59	23	55	20	0	1.43
1508799--1508832	5	6.6	5	89	3	50	0	20	52	26	1.46
1508918--1509033	41	2.8	41	97	0	214	37	24	19	18	1.93
1508961--1509094	61	2.2	61	98	0	259	39	23	20	15	1.91
1509022--1509156	41	3.3	41	97	0	252	37	25	19	17	1.94
1508920--1509178	102	2.5	101	93	1	428	37	25	18	18	1.94
1509699--1509735	9	4.1	9	100	0	74	24	43	0	32	1.55
1513767--1513812	2	23.0	2	100	0	92	50	0	0	50	1.00
1514692--1515013	94	3.3	95	86	7	445	43	10	19	26	1.84
1522725--1522833	57	1.9	57	90	0	173	34	30	20	14	1.92
1525325--1525367	17	2.5	17	73	0	50	32	27	23	16	1.96
1528251--1528311	23	2.7	23	87	5	88	19	26	27	26	1.99
1528419--1528454	2	18.0	2	100	0	72	50	0	0	50	1.00
1531840--1531896	20	2.8	20	100	0	114	24	31	24	19	1.98
1533415--1533496	23	3.6	23	86	0	119	20	24	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534568--1534610	20	2.2	20	86	0	59	34	13	16	34	1.88
1544221--1544263	20	2.2	20	86	0	59	34	13	16	34	1.88
1547302--1547467	57	3.0	56	84	1	217	34	28	20	16	1.94
1549969--1550019	24	2.1	24	92	0	84	25	23	31	19	1.98
1549958--1550000	17	2.5	17	100	0	86	23	27	30	18	1.98
1552034--1552196	57	2.9	57	87	0	236	36	27	19	16	1.93
1557109--1557221	59	1.9	59	81	3	138	45	3	4	46	1.40
1560626--1560662	16	2.2	17	90	4	58	37	5	21	35	1.77
1561923--1562011	18	4.9	18	70	17	69	58	2	1	38	1.18
1561923--1562011	19	4.9	17	70	22	58	58	2	1	38	1.18
1562324--1562377	23	2.3	23	78	9	56	42	1	0	55	1.10
1562903--1562979	35	2.2	35	90	2	129	44	24	0	31	1.54
1562903--1563008	35	3.1	34	82	5	106	43	26	0	29	1.61
1563481--1563770	141	2.0	139	89	4	400	47	7	7	36	1.60
1563950--1564029	35	2.3	35	84	0	97	33	2	22	41	1.67
1565469--1565674	44	4.8	44	79	8	190	33	16	21	28	1.95
1565496--1565665	44	3.9	44	83	5	193	35	17	21	25	1.95
1565539--1565729	88	2.2	87	83	2	231	35	16	21	26	1.94
1565503--1565729	88	2.6	86	80	3	229	36	18	20	25	1.95
1565915--1565956	21	2.0	21	85	0	57	47	26	0	26	1.52
1569192--1569277	42	2.0	42	100	0	172	43	13	24	18	1.87
1574941--1574968	10	2.8	10	100	0	56	32	10	25	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576886--1576911	2	13.0	2	100	0	52	50	0	0	50	1.00
1577765--1577794	13	2.3	13	94	0	51	60	6	10	23	1.52
1580861--1580900	21	1.9	21	90	10	64	27	20	0	52	1.46
1581288--1581358	18	3.9	18	94	0	124	26	30	16	25	1.97
1582203--1582248	21	2.2	21	96	0	83	41	21	15	21	1.90
1584467--1584519	26	2.0	27	85	3	72	64	3	0	32	1.12
1587588--1587647	24	2.5	24	100	0	120	26	13	15	45	1.83
1587588--1587647	12	5.0	12	75	0	66	26	13	15	45	1.83
1589859--1590280	209	2.0	209	99	0	826	20	22	19	37	1.94
1591653--1591706	23	2.3	23	84	12	67	24	12	18	44	1.85

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