genome.fa.s8097.2.7.7.80.10.50.1000.6.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: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3094402

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

This is table  6  of  12  ( 1389 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)
1379961--1380013	14	4.1	14	81	18	78	7	15	26	50	1.70
1379962--1380021	24	2.5	24	94	0	102	10	11	25	53	1.68
1379981--1380036	24	2.3	24	84	0	67	14	12	17	55	1.69
1381104--1381178	10	7.7	10	68	21	52	9	10	21	58	1.59
1381110--1381174	16	4.1	16	91	0	112	7	10	23	58	1.57
1381244--1381274	16	1.9	16	100	0	62	6	12	22	58	1.58
1388034--1388065	2	16.0	2	100	0	64	50	0	0	50	1.00
1389248--1389318	23	3.1	23	89	0	97	38	18	16	26	1.92
1393109--1393201	45	2.1	44	89	2	141	39	4	3	52	1.37
1395692--1395721	3	10.0	3	100	0	60	66	0	0	33	0.92
1400014--1400057	22	1.9	24	86	9	65	34	2	2	61	1.21
1402498--1402544	20	2.3	20	88	0	67	42	10	19	27	1.84
1402508--1402550	20	2.3	19	88	8	61	48	9	20	20	1.77
1402700--1402772	36	2.0	36	82	10	87	46	4	2	46	1.36
1405277--1405313	20	1.9	19	89	10	58	45	10	24	18	1.81
1409156--1409193	6	6.5	6	96	3	69	18	47	15	18	1.83
1409603--1409633	4	7.8	4	100	0	62	51	22	0	25	1.48
1418989--1419038	25	2.0	25	100	0	100	40	16	12	32	1.84
1423777--1423944	84	2.0	84	84	8	223	35	28	9	26	1.88
1426725--1426773	2	24.5	2	100	0	98	51	0	48	0	1.00
1430318--1430365	25	2.0	24	84	12	62	31	2	4	62	1.26
1434480--1434513	17	2.0	17	88	0	50	35	5	14	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443954--1444141	92	2.0	94	97	2	362	31	19	28	20	1.97
1447271--1447304	14	2.4	14	95	0	59	50	0	29	20	1.49
1448790--1448893	53	2.0	53	96	3	194	21	31	26	20	1.98
1449518--1449599	30	2.8	30	94	1	139	14	37	25	21	1.92
1449518--1449663	27	5.2	27	82	8	141	13	34	26	26	1.93
1453322--1453373	7	7.1	7	77	14	52	42	1	1	53	1.23
1463434--1463495	25	2.5	25	100	0	124	29	4	8	58	1.48
1470320--1470391	22	3.4	22	69	11	78	19	19	23	37	1.94
1470320--1470413	41	2.3	41	96	0	170	20	18	22	39	1.92
1470341--1470406	19	3.3	19	70	12	60	19	19	19	40	1.91
1470491--1470524	12	2.8	12	90	0	50	26	58	14	0	1.36
1471031--1471081	6	8.5	6	100	0	102	0	15	50	33	1.44
1471228--1471341	20	5.7	20	87	2	174	41	22	22	13	1.88
1471225--1471340	61	1.9	61	100	0	232	40	23	22	13	1.90
1471317--1471371	28	2.0	28	82	7	67	34	16	29	20	1.94
1471856--1471886	2	15.5	2	100	0	62	51	0	0	48	1.00
1477748--1477779	16	2.0	16	100	0	64	37	6	6	50	1.53
1479650--1479689	21	1.9	21	85	10	55	35	10	2	52	1.48
1497133--1497174	11	3.8	11	96	0	75	69	9	0	21	1.17
1505677--1505708	2	16.0	2	100	0	64	50	0	50	0	1.00
1505982--1506008	14	1.9	14	100	0	54	37	0	0	62	0.95
1508778--1508961	58	3.2	58	83	2	226	37	14	16	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510694--1510734	2	20.5	2	89	0	64	0	51	4	43	1.23
1510694--1510734	14	2.9	14	96	0	73	0	51	4	43	1.23
1514704--1514746	22	2.0	22	86	9	61	16	16	23	44	1.86
1519828--1519866	16	2.5	16	87	4	53	35	12	20	30	1.90
1537564--1537611	21	2.3	21	85	0	60	37	8	8	45	1.64
1538219--1538266	25	2.0	24	87	4	69	45	0	0	54	0.99
1541344--1541379	18	2.0	18	100	0	72	33	33	5	27	1.80
1542225--1542266	20	2.1	20	82	8	50	28	9	0	61	1.27
1554833--1554931	45	2.1	46	85	7	128	41	21	9	28	1.83
1557690--1557815	63	2.0	63	100	0	252	15	23	25	34	1.95
1565350--1565403	26	2.1	26	96	0	99	44	3	22	29	1.70
1567598--1567654	29	1.9	30	89	3	89	47	35	1	15	1.56
1571598--1571794	31	6.3	31	77	9	175	35	16	17	30	1.92
1571578--1571766	63	3.0	63	88	0	297	33	16	16	32	1.92
1571578--1571734	32	5.0	31	73	9	138	32	17	16	33	1.93
1572565--1572592	14	2.0	14	100	0	56	21	14	21	42	1.88
1574404--1574468	29	2.2	31	94	5	116	66	4	0	29	1.12
1575475--1575519	23	1.9	24	90	4	74	62	0	0	37	0.96
1583537--1583563	13	2.1	13	100	0	54	18	7	0	74	1.05
1586232--1586284	20	2.6	21	77	17	67	28	33	13	24	1.93
1586273--1586340	20	3.3	20	71	4	64	32	25	17	25	1.97
1586334--1586380	20	2.3	20	96	0	85	44	27	12	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586397--1586482	20	4.2	20	94	2	154	46	16	18	18	1.84
1586397--1586482	41	2.1	40	95	2	154	46	16	18	18	1.84
1586845--1586901	21	2.8	20	81	5	78	17	21	15	45	1.85
1587330--1587362	17	1.9	17	88	11	50	45	0	3	51	1.16
1587657--1587706	24	2.1	23	85	10	66	38	6	2	54	1.37
1594293--1594358	31	2.1	32	97	2	125	39	21	10	28	1.86
1594757--1595122	149	2.4	149	79	2	367	28	21	17	32	1.96
1598694--1598767	29	2.6	29	80	0	85	25	20	10	43	1.84
1611162--1611195	14	2.5	13	85	4	50	44	0	0	55	0.99
1614341--1614413	30	2.4	30	93	0	119	24	19	24	31	1.98
1616724--1616751	2	14.0	2	100	0	56	50	0	0	50	1.00
1622442--1622479	19	2.0	19	94	0	67	15	39	18	26	1.91
1627754--1627789	2	18.0	2	100	0	72	50	0	0	50	1.00
1627907--1627946	15	2.7	15	88	0	53	30	5	22	42	1.75
1628014--1628045	15	2.1	15	94	0	55	40	18	12	28	1.87
1628053--1628109	16	3.6	16	95	0	105	31	15	12	40	1.85
1628721--1628756	16	2.2	17	90	5	56	75	0	0	25	0.81
1630206--1630392	96	1.9	96	89	0	284	23	13	37	25	1.91
1637723--1637798	10	6.8	10	71	21	53	21	7	7	63	1.47
1637725--1637808	24	3.5	24	90	0	123	21	8	7	63	1.47
1637749--1637808	14	4.9	13	72	24	51	21	8	6	63	1.45
1638061--1638115	20	2.6	21	80	5	58	10	5	21	61	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638188--1638303	51	2.3	51	98	0	223	30	10	14	44	1.79
1640441--1640482	22	1.9	22	95	0	75	45	9	7	38	1.64
1649344--1649377	17	1.9	18	94	5	61	32	8	5	52	1.56
1649491--1649551	11	5.7	11	79	14	74	50	0	0	49	1.00
1649498--1649550	14	3.6	14	75	22	54	50	0	0	49	1.00
1649486--1649536	8	6.5	8	79	20	63	49	0	0	50	1.00
1649473--1649551	31	2.6	30	91	2	131	51	1	0	46	1.08
1649477--1649574	31	3.2	31	85	4	101	50	4	0	45	1.20
1650403--1650456	22	2.5	22	79	5	58	59	1	3	35	1.26
1650933--1651144	15	13.5	15	78	14	205	44	0	3	51	1.19
1651030--1651144	14	7.5	14	77	15	113	40	0	4	54	1.20
1650933--1651144	47	4.5	48	86	7	283	44	0	3	51	1.19
1651092--1651167	32	2.4	32	97	0	143	39	0	6	53	1.27
1651059--1651162	18	6.4	17	71	18	62	38	0	7	53	1.30
1651227--1651420	22	8.0	22	71	21	138	36	0	12	51	1.40
1651197--1651915	54	13.5	54	72	16	323	34	0	13	52	1.41
1651400--1651484	32	2.7	32	98	0	161	32	0	12	54	1.39
1651464--1651523	22	2.7	22	100	0	120	33	0	15	51	1.43
1651534--1651726	32	6.7	32	72	22	183	35	0	11	53	1.37
1651564--1651608	22	2.0	22	95	0	81	40	0	11	48	1.39
1651357--1651422	21	3.1	21	97	2	96	34	0	13	51	1.41
1651620--1651662	22	2.0	22	95	0	77	32	0	13	53	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651652--1651704	14	3.5	14	72	18	52	35	0	5	58	1.22
1651854--1651900	22	2.4	19	80	19	60	34	0	12	53	1.39
1651861--1651905	22	2.0	22	100	0	90	37	0	13	48	1.42
1651930--1651988	31	1.9	31	92	0	100	42	10	6	40	1.65
1652006--1652048	16	2.7	16	92	0	68	23	6	6	62	1.45
1653540--1653599	23	2.6	24	84	7	81	43	0	1	55	1.10
1653574--1653603	15	2.0	15	93	0	51	43	0	0	56	0.99
1655419--1655456	20	1.9	20	88	0	58	44	0	2	52	1.14
1656186--1656220	15	2.2	16	95	5	63	25	5	17	51	1.67
1656234--1656284	2	25.5	2	100	0	102	50	0	0	49	1.00

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