genome.fa.s9579.2.7.7.80.10.50.1000.8.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  8  of  29  ( 3390 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)
1462628--1462741	37	3.1	37	85	2	158	34	22	16	26	1.95
1463126--1463301	54	3.3	54	84	5	243	36	17	25	20	1.94
1463293--1463553	55	4.7	55	80	8	305	31	17	24	26	1.97
1463129--1463553	111	3.9	109	80	7	372	33	17	24	24	1.96
1466338--1466385	23	2.1	23	84	0	60	35	8	16	39	1.79
1466811--1466873	23	2.7	23	92	0	99	38	20	4	36	1.74
1466452--1467514	431	2.5	432	97	1	1996	38	12	7	41	1.72
1467232--1467304	23	3.2	22	88	3	83	39	20	4	35	1.72
1467242--1467304	23	2.7	23	92	0	99	38	19	4	38	1.73
1467722--1467807	39	2.2	39	93	0	145	18	13	18	48	1.80
1468064--1468100	18	2.1	18	89	0	56	51	10	5	32	1.60
1468520--1468581	23	2.4	26	74	20	67	40	16	4	38	1.69
1468529--1468582	23	2.3	23	93	0	90	40	16	5	37	1.72
1471067--1471875	183	4.4	183	97	0	1494	33	16	13	36	1.88
1471067--1471875	365	2.2	366	96	0	1521	33	16	13	36	1.88
1473335--1473409	3	25.0	3	73	0	60	22	34	6	36	1.81
1473339--1473421	12	6.9	12	83	0	94	20	34	8	36	1.83
1473343--1473421	36	2.2	36	90	0	122	20	35	8	35	1.84
1473363--1473424	18	3.4	18	79	0	79	17	35	9	37	1.83
1473339--1473424	6	14.3	6	77	0	64	19	34	8	37	1.82
1474881--1475957	196	5.5	197	97	1	1968	32	16	15	36	1.90
1476106--1476154	19	2.6	19	90	6	73	55	10	4	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477944--1478009	33	2.0	33	90	0	105	22	48	0	28	1.51
1478043--1478107	21	3.1	21	80	6	69	15	29	15	40	1.88
1480314--1480356	20	2.3	18	85	14	61	20	16	11	51	1.75
1480319--1480365	20	2.4	19	82	10	67	19	17	10	53	1.72
1480487--1480532	20	2.3	20	89	10	76	17	17	10	54	1.70
1483280--1483307	6	4.7	6	100	0	56	17	0	32	50	1.47
1483306--1483343	6	6.3	6	100	0	76	0	15	50	34	1.45
1483519--1483562	2	22.0	2	100	0	88	50	0	0	50	1.00
1483645--1483683	19	2.1	19	95	0	69	43	17	5	33	1.72
1488239--1488766	251	2.1	248	84	2	657	29	13	16	40	1.87
1491737--1491884	3	49.3	3	97	0	278	33	1	0	64	1.02
1497020--1497047	6	4.7	6	100	0	56	71	0	0	28	0.86
1497144--1497211	10	6.5	11	70	14	54	69	0	8	22	1.16
1497149--1497218	33	2.1	33	84	5	88	68	0	7	24	1.14
1498240--1498291	26	2.1	25	85	7	70	73	0	1	25	0.94
1498204--1498291	39	2.3	39	81	11	94	73	0	4	21	1.00
1498216--1498282	22	3.0	22	80	10	73	70	0	4	25	1.06
1498240--1498292	17	2.7	19	81	18	65	71	0	1	26	0.96
1498421--1498462	2	21.5	2	95	4	77	50	0	0	50	1.00
1498315--1498541	36	6.6	34	76	13	191	46	7	0	45	1.33
1498350--1498531	100	1.8	100	89	7	289	48	6	0	45	1.28
1498358--1498571	100	2.1	99	79	9	220	50	7	0	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500287--1500562	35	7.8	36	73	16	181	44	3	5	47	1.41
1500314--1500525	101	2.1	99	90	2	327	46	4	4	45	1.42
1500387--1500454	25	2.6	26	79	11	68	42	7	4	45	1.52
1500439--1500586	35	4.2	34	77	16	124	43	2	2	52	1.27
1500571--1500608	12	3.0	13	84	7	51	15	2	0	81	0.80
1501853--1501923	2	35.5	2	100	0	142	49	0	0	50	1.00
1505378--1505621	95	2.7	94	84	10	305	31	18	18	31	1.95
1506744--1508555	165	10.9	164	79	7	1583	30	23	19	25	1.98
1506744--1508560	249	7.3	244	83	5	1796	30	23	19	25	1.98
1506744--1508555	414	4.4	414	87	2	2412	30	23	19	25	1.98
1509186--1509482	37	8.1	35	74	11	231	43	3	5	47	1.42
1509161--1509482	112	2.9	109	81	10	361	42	3	5	47	1.44
1509323--1509348	12	2.2	12	100	0	52	38	7	7	46	1.61
1509333--1509386	28	1.9	28	81	7	65	50	3	1	44	1.30
1511031--1511061	15	2.1	15	100	0	62	38	16	12	32	1.86
1515930--1515973	2	22.0	2	90	0	70	45	0	0	54	0.99
1515932--1515972	14	2.9	14	100	0	82	43	0	0	56	0.99
1517877--1517932	2	29.0	2	86	13	82	48	0	1	50	1.11
1531206--1531233	13	2.2	13	100	0	56	21	25	17	35	1.95
1531985--1532015	15	2.1	15	93	0	53	29	0	9	61	1.28
1536665--1536710	15	3.1	15	81	6	67	41	8	19	30	1.82
1536719--1536750	14	2.2	15	94	5	57	46	18	6	28	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536900--1536966	28	2.8	22	70	23	53	43	0	0	56	0.99
1537055--1537117	23	2.7	23	80	5	63	46	1	1	50	1.20
1537093--1537145	20	2.7	20	75	16	56	49	1	0	49	1.12
1537215--1537267	22	2.6	21	80	11	65	50	1	0	47	1.12
1542035--1542266	116	1.9	118	86	6	326	35	10	17	36	1.85
1545106--1545214	24	4.5	24	72	11	71	51	12	12	22	1.74
1555947--1556156	106	2.0	106	87	0	303	28	21	13	36	1.91
1556204--1556328	34	3.8	34	73	19	129	42	10	16	31	1.81
1556685--1556727	18	2.5	17	85	7	61	25	4	2	67	1.22
1556982--1557006	2	12.5	2	100	0	50	48	0	0	52	1.00
1559776--1559821	8	5.8	8	82	7	58	13	17	10	58	1.62
1559776--1559821	23	2.0	24	86	4	67	13	17	10	58	1.62
1560917--1560989	9	7.9	9	71	17	51	78	6	13	1	1.02
1560931--1560995	13	5.2	13	77	14	57	81	6	12	0	0.86
1560932--1560972	14	2.9	14	86	10	57	80	7	12	0	0.90
1561599--1561649	22	2.3	22	96	0	93	35	27	11	25	1.91
1562526--1562709	66	2.8	66	86	4	255	32	19	13	34	1.90
1562596--1562850	102	2.5	100	85	5	325	28	18	13	40	1.88
1562658--1562887	36	6.6	36	75	9	197	28	18	13	40	1.88
1562660--1562950	138	2.1	137	83	2	377	29	19	12	39	1.87
1562866--1563002	67	2.1	66	86	4	186	35	21	7	35	1.82
1562883--1563018	68	2.0	67	85	1	182	34	22	7	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563654--1564071	105	4.0	97	81	8	379	33	25	20	21	1.97
1564620--1564744	34	3.8	34	72	19	120	41	10	16	32	1.82
1565101--1565143	18	2.5	17	85	7	61	25	4	2	67	1.22
1565204--1565230	2	13.5	2	100	0	54	48	0	0	51	1.00
1566320--1566362	22	2.0	22	95	0	77	62	9	0	27	1.25
1567427--1567561	59	2.2	61	82	2	166	41	14	12	31	1.84
1567465--1567561	29	3.2	31	74	14	103	42	15	9	32	1.79
1574513--1574646	65	2.1	65	100	0	268	22	19	11	46	1.82
1585775--1585871	38	2.6	38	85	3	117	43	6	3	47	1.44
1585802--1585923	61	2.0	60	87	1	172	45	8	0	45	1.39
1585840--1585900	25	2.6	23	80	10	68	45	6	0	47	1.28
1585860--1586172	37	8.7	38	76	18	246	45	7	1	45	1.40
1585860--1586004	79	1.9	79	89	5	233	46	6	0	46	1.29
1585975--1586036	25	2.4	25	86	2	88	48	4	0	46	1.23
1585802--1586109	97	3.1	102	82	12	308	45	7	0	46	1.37
1585813--1586146	134	2.4	134	81	9	331	45	6	1	46	1.36
1586375--1586463	23	3.9	23	77	4	81	57	24	2	15	1.50
1591275--1591312	17	2.2	17	100	0	76	18	23	42	15	1.89
1600244--1600296	26	2.0	26	85	7	72	43	1	3	50	1.30
1601490--1601538	20	2.6	18	81	15	62	67	0	2	30	1.02
1605208--1605506	150	2.0	147	94	1	517	33	9	9	47	1.68
1605501--1605529	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627836--1627993	21	7.8	20	70	7	77	37	25	17	18	1.93
1627961--1628189	20	11.4	20	83	5	248	36	25	17	19	1.94
1628882--1628928	24	2.0	24	87	8	69	25	14	21	38	1.92
1629103--1629127	12	2.1	12	100	0	50	72	0	28	0	0.86
1631424--1631684	19	14.7	19	78	16	292	45	18	21	14	1.85
1631424--1631648	72	3.1	72	87	5	323	46	18	21	14	1.84
1631410--1631678	53	5.1	52	84	10	302	46	18	21	14	1.84
1631549--1631678	33	3.8	33	87	9	197	46	17	21	14	1.84
1631424--1631684	124	2.1	123	92	3	409	45	18	21	14	1.85
1631674--1631790	53	2.2	53	96	1	218	14	23	17	44	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29