genome.fa.s9000.2.7.7.80.10.50.1000.8.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1003 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)
1464028--1464083	28	2.0	28	85	3	76	17	5	0	76	0.96
1464013--1464082	6	10.7	6	77	17	50	20	4	0	75	0.96
1464027--1464080	14	3.9	14	83	7	56	18	5	0	75	0.98
1470181--1470205	2	12.5	2	100	0	50	48	0	0	52	1.00
1474076--1474986	225	4.1	225	92	5	1530	45	7	8	38	1.63
1475021--1475080	20	3.1	18	80	15	66	55	13	15	16	1.70
1477420--1477463	21	2.1	21	91	0	70	40	11	31	15	1.83
1477497--1477562	33	2.0	33	90	0	105	28	0	48	22	1.51
1479352--1479400	19	2.6	19	93	0	80	30	2	10	57	1.43
1479517--1480871	197	6.9	199	94	2	2346	35	15	17	31	1.91
1482332--1482403	3	24.3	3	74	2	65	36	6	33	23	1.82
1482321--1482399	18	4.4	18	80	3	97	37	7	34	20	1.81
1482321--1482399	6	13.3	6	77	2	70	37	7	34	20	1.81
1482324--1482399	12	6.4	12	84	3	91	36	7	34	21	1.82
1483893--1484385	183	2.7	182	93	1	853	33	15	17	33	1.91
1484545--1484631	39	2.2	39	91	0	147	48	19	13	18	1.81
1485049--1485121	23	3.2	23	88	0	101	34	4	21	39	1.73
1485474--1485546	23	3.2	23	88	0	101	34	4	21	39	1.73
1485895--1485967	23	3.2	23	84	0	92	34	4	20	41	1.72
1484847--1486321	425	3.5	426	95	2	2680	41	7	12	38	1.71
1488509--1488584	33	2.3	33	88	2	107	52	0	0	47	1.00
1488602--1488636	12	2.9	12	95	0	61	28	51	11	8	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489057--1489099	17	2.5	17	76	0	50	27	11	11	48	1.74
1489093--1489187	35	2.7	36	82	11	108	31	13	13	41	1.84
1489128--1489187	18	3.4	18	90	2	95	31	15	11	41	1.82
1493639--1493673	14	2.6	14	90	4	54	8	31	0	60	1.27
1507355--1507407	19	2.7	20	76	8	54	33	20	16	28	1.95
1507106--1507471	177	2.1	177	91	3	585	37	14	16	31	1.89
1508915--1508958	23	1.9	23	85	0	61	27	22	25	25	2.00
1508938--1509241	149	2.0	149	97	0	572	35	20	15	29	1.93
1509697--1509855	63	2.5	63	85	2	203	27	21	18	32	1.97
1509823--1509860	19	2.0	20	89	5	60	28	28	13	28	1.94
1515954--1515999	23	2.0	23	91	0	74	28	26	23	21	1.99
1515977--1516272	145	2.0	145	96	2	551	35	20	16	27	1.94
1516725--1516880	63	2.5	63	82	2	179	27	19	19	33	1.96
1518085--1518142	20	3.0	20	79	2	64	32	24	18	24	1.97
1521485--1521535	2	25.5	2	100	0	102	49	0	0	50	1.00
1521631--1522443	81	10.0	81	89	0	1151	36	10	19	33	1.87
1546100--1546463	177	2.1	177	95	1	649	35	15	18	30	1.92
1547833--1547929	20	4.8	20	80	2	79	37	24	13	24	1.92
1549715--1549767	17	3.1	17	72	5	61	35	13	11	39	1.80
1551531--1551942	81	5.1	81	88	2	560	36	11	21	31	1.89
1553610--1553634	13	1.9	13	100	0	50	40	0	0	60	0.97
1553761--1553789	12	2.5	12	94	5	51	27	6	6	58	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554218--1554316	21	4.8	20	74	6	81	37	21	19	22	1.94
1554284--1554512	20	11.4	20	80	5	221	36	24	18	20	1.94
1555206--1555250	23	2.0	23	86	8	65	26	15	22	35	1.94
1555425--1555449	12	2.1	12	100	0	50	72	0	28	0	0.86
1557747--1558008	19	14.7	19	76	18	278	45	16	22	14	1.85
1557747--1557985	72	3.4	72	80	8	287	46	16	22	14	1.83
1557733--1558002	53	5.1	53	88	8	394	45	17	22	14	1.84
1558017--1558104	19	4.8	19	82	14	123	14	22	14	47	1.81
1557998--1558104	53	2.0	52	96	1	196	14	24	15	45	1.83
1558195--1558231	14	2.6	14	91	0	65	45	21	0	32	1.52
1560166--1560322	33	4.4	37	83	8	152	46	25	19	8	1.78
1560166--1560286	52	2.2	52	89	7	179	47	27	18	7	1.75
1560244--1560300	14	3.7	14	72	20	51	43	28	21	7	1.78
1560225--1560317	33	2.8	33	91	0	159	46	24	20	8	1.79
1560184--1560322	52	2.7	52	76	10	158	46	25	20	7	1.78
1560166--1560322	19	8.8	19	75	16	138	46	25	19	8	1.78
1560318--1560408	19	5.4	18	69	26	74	7	17	28	46	1.76
1560334--1560422	14	5.7	14	72	24	54	7	20	26	44	1.78
1560318--1560440	33	3.7	33	91	2	185	8	17	27	45	1.79
1560488--1560760	93	3.1	87	89	6	315	44	19	13	23	1.85
1560538--1560760	93	2.4	93	98	0	428	44	19	13	22	1.85
1562483--1562564	33	2.5	33	93	0	137	50	18	20	10	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562505--1562569	19	3.7	19	66	19	59	47	21	20	10	1.80
1562581--1562637	14	3.7	14	75	20	60	8	24	22	43	1.81
1562565--1562644	33	2.4	33	95	0	142	8	21	22	47	1.78
1562625--1562696	21	3.4	21	79	7	92	13	20	16	48	1.80
1562778--1562848	33	2.2	33	94	0	124	47	16	23	11	1.79
1563228--1563379	20	7.6	20	85	2	189	20	19	26	33	1.97
1563227--1563379	60	2.5	60	86	2	209	20	19	26	33	1.96
1563373--1563443	21	3.4	20	75	13	54	25	18	22	33	1.96
1564382--1564411	12	2.6	12	94	5	53	30	6	6	56	1.51
1564681--1564722	17	2.6	16	85	10	59	52	0	0	47	1.00
1564702--1564748	23	2.0	24	83	4	60	46	0	0	53	1.00
1565571--1565869	101	2.9	100	78	10	320	49	10	9	31	1.67
1565586--1565869	51	5.6	51	75	7	229	48	10	9	31	1.69
1565967--1566060	49	1.9	49	82	8	120	52	0	4	43	1.21
1566559--1566610	27	1.9	27	84	7	70	34	13	15	36	1.87
1568675--1568727	27	2.0	27	84	0	70	11	41	11	35	1.77
1569077--1569157	20	4.2	20	72	9	60	41	11	9	37	1.74
1569421--1569461	22	1.9	21	95	5	73	53	2	4	39	1.35
1581784--1581889	39	2.7	39	85	2	124	32	24	16	26	1.97
1584454--1584485	2	16.0	2	100	0	64	50	0	0	50	1.00
1585023--1585066	22	1.9	24	86	9	65	50	2	6	40	1.42
1585390--1585450	31	1.9	32	83	9	81	29	9	8	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586598--1586827	65	3.6	65	78	11	217	29	24	18	27	1.98
1592668--1592731	20	3.2	20	93	0	110	20	21	34	23	1.97
1594827--1594859	2	16.5	2	100	0	66	48	0	0	51	1.00
1597099--1597133	18	2.0	17	88	5	52	31	25	0	42	1.55
1598738--1598762	12	2.1	12	100	0	50	8	52	0	40	1.31
1600799--1600832	16	2.1	17	88	5	52	14	11	14	58	1.63
1602143--1602269	64	2.0	65	85	4	177	29	24	19	26	1.99
1604963--1605007	12	3.8	12	82	11	58	33	0	0	66	0.92
1606695--1606722	2	14.0	2	100	0	56	50	0	0	50	1.00
1612113--1612150	16	2.4	16	90	0	58	47	21	2	28	1.64
1612496--1612813	107	3.0	103	81	8	379	31	15	11	41	1.82
1612781--1612919	36	3.8	36	82	2	154	33	18	12	34	1.89
1612987--1613166	99	1.8	100	84	3	247	32	12	13	42	1.81
1613080--1613270	64	3.0	60	80	13	195	30	9	15	44	1.79
1613126--1613183	27	2.1	27	80	0	62	32	5	18	43	1.73
1613283--1613345	33	1.9	33	86	0	90	30	14	12	42	1.82
1613266--1613430	29	5.6	29	78	8	136	29	13	12	44	1.81
1613329--1613503	29	5.9	29	70	21	87	30	13	13	43	1.81
1613457--1613522	29	2.3	29	82	10	82	34	13	12	39	1.82
1613371--1613592	92	2.4	91	85	8	290	28	13	13	43	1.83
1613815--1613889	39	1.9	38	83	2	96	24	36	13	26	1.92
1613804--1614161	133	2.7	133	88	1	511	26	32	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616117--1616154	2	19.0	2	88	0	58	50	5	0	44	1.24
1619602--1619632	4	7.8	4	100	0	62	77	0	0	22	0.77
1620195--1621364	136	8.6	136	83	1	1261	27	21	16	33	1.95
1622832--1622881	3	16.7	3	87	8	75	36	0	2	62	1.07
1622817--1622876	18	3.3	18	82	13	70	40	0	1	58	1.08
1623909--1623947	13	2.8	13	88	7	51	25	2	0	71	0.98
1624087--1624130	23	2.0	23	86	4	63	38	6	0	54	1.27
1625154--1625256	47	2.2	47	79	10	113	39	10	15	33	1.82
1632998--1633106	40	2.8	39	84	1	155	32	16	17	33	1.92
1632998--1633113	20	5.8	20	80	6	137	30	18	17	34	1.93

Tables:   1   2   3   4   5   6   7   8   9