genome.fa.s8460.2.7.7.80.10.50.1000.8.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

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

This is table  8  of  15  ( 1744 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)
1419902--1420008	43	2.5	43	85	7	155	48	1	16	32	1.57
1423778--1423817	3	13.7	3	94	5	73	65	0	0	35	0.93
1424351--1424469	39	3.1	39	72	14	111	34	15	2	47	1.58
1424682--1424740	26	2.4	24	85	5	73	38	5	0	55	1.22
1424712--1424753	21	2.0	21	85	0	57	33	4	0	61	1.17
1424961--1424993	3	11.0	3	93	0	57	63	0	0	36	0.95
1427061--1427111	20	2.5	20	96	0	93	45	15	15	23	1.85
1427061--1427158	20	4.9	20	80	5	90	41	18	15	24	1.89
1427278--1427328	22	2.3	22	82	0	66	19	41	21	17	1.91
1427667--1427714	20	2.4	20	96	0	87	47	22	18	10	1.79
1431238--1431398	64	2.6	64	91	3	249	27	2	16	53	1.56
1431460--1431515	20	2.8	20	75	5	60	23	16	19	41	1.90
1431571--1431606	16	2.2	16	90	0	54	19	0	13	66	1.24
1431653--1431710	20	2.9	21	82	10	68	18	15	17	48	1.82
1432021--1432067	6	7.8	6	90	0	76	17	2	19	61	1.44
1434350--1434396	24	2.0	24	95	0	85	34	17	21	27	1.95
1434354--1434405	24	2.2	24	85	0	68	36	19	19	25	1.95
1434517--1434550	12	2.8	12	90	0	50	14	0	29	55	1.40
1435142--1435179	16	2.5	15	84	12	51	65	0	5	28	1.14
1435343--1435402	20	3.0	20	81	11	79	36	11	20	31	1.88
1435329--1435424	40	2.4	39	81	8	113	36	9	20	33	1.85
1435450--1435622	20	8.6	20	77	6	172	21	18	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435455--1435625	60	2.8	60	82	8	213	21	18	18	42	1.90
1435616--1435667	20	2.6	20	81	6	61	17	13	30	38	1.88
1435967--1436143	86	2.1	86	95	1	320	38	18	9	32	1.83
1436133--1436188	2	27.5	2	96	3	103	50	1	0	48	1.11
1439241--1439274	15	2.3	15	89	0	50	67	0	2	29	1.05
1439659--1439719	31	2.0	31	90	0	95	54	13	8	24	1.66
1441237--1441262	3	8.7	3	100	0	52	0	34	0	65	0.93
1442287--1442322	2	17.5	2	94	5	63	50	0	2	47	1.15
1442648--1442710	31	2.0	31	96	0	117	26	19	19	34	1.95
1443514--1443558	12	3.8	12	84	0	54	20	11	22	46	1.81
1444037--1444070	18	1.9	18	94	5	61	38	26	23	11	1.89
1443949--1444174	107	2.1	107	91	1	364	39	20	18	20	1.92
1444139--1444173	18	1.9	18	88	0	52	42	22	20	14	1.88
1444223--1444299	29	2.6	30	77	6	95	33	28	5	32	1.79
1445699--1445804	35	3.0	35	91	2	169	42	23	0	33	1.61
1445813--1445880	35	1.9	35	90	0	109	41	0	14	44	1.45
1446221--1446258	19	2.0	19	100	0	76	47	5	36	10	1.61
1446652--1446768	41	2.9	41	87	7	141	41	22	17	19	1.91
1446640--1446768	20	6.3	21	76	12	117	40	22	17	19	1.91
1446794--1446871	40	2.0	40	86	0	111	41	16	16	25	1.89
1446788--1446876	20	4.4	20	82	2	99	41	17	16	23	1.90
1446846--1446886	20	2.0	20	85	0	55	34	17	21	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447683--1447742	24	2.5	24	83	0	84	25	18	18	38	1.93
1450271--1450345	14	5.0	14	72	15	51	44	18	24	13	1.85
1450313--1450392	33	2.4	33	95	0	142	43	17	25	13	1.86
1450271--1450371	47	2.1	47	92	0	166	43	18	24	12	1.85
1450392--1450468	19	4.3	19	79	15	92	14	15	24	45	1.83
1450407--1450500	33	2.8	32	90	3	134	12	19	22	45	1.83
1450392--1450500	19	6.3	17	73	20	68	13	18	22	44	1.85
1450607--1450643	14	2.6	14	91	0	65	45	21	0	32	1.52
1451987--1452053	21	3.2	21	68	4	55	19	20	35	23	1.95
1454056--1454111	20	2.8	20	77	20	71	39	21	25	14	1.91
1454146--1454214	33	2.1	33	94	0	120	10	23	18	47	1.79
1454191--1454235	21	2.1	21	87	0	63	13	24	11	51	1.73
1454750--1454922	20	8.6	20	77	5	159	20	18	23	37	1.94
1454752--1454922	40	4.2	41	86	1	229	21	18	22	38	1.94
1454935--1454983	20	2.5	20	90	6	73	14	16	24	44	1.84
1458357--1458595	132	1.8	132	89	3	383	21	21	19	37	1.95
1459458--1459520	31	2.0	31	100	0	126	31	12	25	30	1.93
1462354--1462564	102	2.1	102	99	0	413	20	27	20	32	1.97
1469373--1469429	25	2.1	28	84	9	75	45	3	1	49	1.29
1469490--1469535	20	2.4	19	82	10	58	56	2	2	39	1.24
1469970--1470002	14	2.4	14	94	0	57	42	3	12	42	1.57
1470247--1470271	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470507--1470537	14	2.2	14	94	0	53	25	51	0	22	1.48
1470509--1470539	16	1.9	16	100	0	62	25	51	0	22	1.48
1471436--1471483	23	2.1	23	88	7	71	35	0	2	62	1.07
1471447--1471497	17	3.3	16	82	12	63	39	0	1	58	1.09
1471438--1471512	21	3.7	21	71	23	61	36	0	2	61	1.10
1474133--1474181	24	2.0	24	100	0	98	24	24	20	30	1.98
1479822--1479911	37	2.4	37	92	0	144	21	20	12	46	1.82
1490237--1490286	25	2.0	25	96	0	91	42	2	24	32	1.66
1491438--1491495	24	2.5	21	75	25	55	39	5	22	32	1.76
1491693--1491783	18	4.7	20	76	15	93	20	20	29	28	1.98
1494565--1494640	15	5.3	15	74	15	79	43	1	1	53	1.17
1494569--1494638	19	3.5	19	66	21	52	44	1	1	52	1.18
1494548--1494641	42	2.2	42	94	3	163	44	2	3	50	1.30
1495188--1495236	23	2.2	23	86	13	68	46	12	0	40	1.41
1495241--1495311	30	2.4	31	85	7	101	40	11	0	47	1.39
1495300--1495324	13	1.9	13	100	0	50	40	20	0	40	1.52
1495325--1495349	2	12.5	2	100	0	50	48	0	0	52	1.00
1495252--1495411	75	2.1	78	89	8	247	43	11	0	45	1.39
1495337--1495384	25	1.9	26	87	8	73	41	10	0	47	1.37
1495313--1495431	62	1.9	64	84	10	165	43	11	0	44	1.40
1495289--1495425	38	3.6	37	77	9	161	43	13	0	43	1.43
1495388--1495440	23	2.2	23	86	6	70	41	9	0	49	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1495388--1495446	25	2.2	25	82	8	73	40	8	0	50	1.33
1495979--1496008	14	2.1	14	93	0	51	40	0	6	53	1.27
1496307--1496340	17	1.9	17	94	5	59	64	5	0	29	1.17
1496492--1496538	22	2.2	20	82	14	51	31	2	4	61	1.27
1500245--1500634	184	2.1	185	93	2	660	44	3	7	45	1.48
1501278--1501312	15	2.2	16	90	5	54	45	8	2	42	1.49
1506553--1506886	167	2.0	167	99	0	659	34	22	14	27	1.94
1509995--1510189	92	2.1	92	95	1	347	48	12	15	23	1.79
1510087--1510365	112	2.5	112	92	2	463	44	13	16	25	1.85
1510313--1510807	162	3.1	162	92	0	803	44	11	15	29	1.81
1511664--1511780	21	5.7	21	79	6	123	41	17	22	19	1.91
1511664--1511780	62	1.9	62	92	3	200	41	17	22	19	1.91
1511664--1511780	41	2.8	41	82	5	128	41	17	22	19	1.91
1511748--1511843	41	2.3	41	82	3	113	38	21	18	20	1.93
1511769--1511862	20	4.7	20	80	2	89	34	24	18	23	1.96
1511664--1511818	62	2.5	61	83	10	183	41	18	20	20	1.91
1512385--1512451	19	3.5	19	83	2	80	49	23	16	10	1.77
1512447--1512515	19	3.6	19	98	0	129	11	21	21	44	1.84
1512499--1512584	33	2.6	32	89	5	127	13	27	20	37	1.91
1514643--1514709	21	3.2	21	66	6	55	23	35	20	19	1.95
1516035--1516070	14	2.6	14	90	0	54	27	2	25	44	1.68
1516249--1516366	19	6.7	19	66	19	76	12	23	20	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516253--1516346	33	2.8	33	96	0	170	11	24	19	44	1.84
1520106--1520142	14	2.6	14	86	0	56	48	21	0	29	1.50
1520633--1520657	8	3.1	8	100	0	50	64	24	0	12	1.27
1520647--1520683	14	2.6	14	86	0	56	48	21	0	29	1.50
1521629--1521683	20	2.8	20	94	0	92	38	18	23	20	1.93
1521706--1521779	19	4.5	16	83	16	66	13	20	18	47	1.82
1521702--1521769	19	3.8	19	87	12	101	13	22	17	47	1.82
1521886--1521922	14	2.6	14	86	0	56	48	21	0	29	1.50
1523773--1523896	39	3.4	36	81	9	139	42	23	21	12	1.86
1523773--1523896	19	6.9	18	80	12	139	42	23	21	12	1.86

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