genome.fa.s8025.2.7.7.80.10.50.1000.7.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: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2744542

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

This is table  7  of  12  ( 1393 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)
1407241--1407534	39	7.7	39	86	3	393	21	26	12	40	1.88
1407241--1407534	78	3.8	78	88	4	438	21	26	12	40	1.88
1407241--1407534	114	2.6	114	88	1	426	21	26	12	40	1.88
1407539--1407798	73	3.6	72	89	3	396	40	11	15	33	1.83
1407609--1407791	37	5.1	35	67	12	118	42	10	14	32	1.80
1411876--1411936	2	30.5	2	100	0	122	50	0	0	49	1.00
1413533--1413569	18	2.2	16	90	9	56	72	5	5	16	1.21
1415993--1416021	6	4.8	6	100	0	58	51	0	0	48	1.00
1417021--1417115	45	2.1	45	90	0	145	24	13	36	25	1.92
1422337--1422403	23	2.9	23	88	0	98	26	25	25	22	2.00
1423435--1423474	2	20.0	2	100	0	80	50	0	0	50	1.00
1427480--1427548	23	3.0	23	91	0	111	27	27	24	20	1.99
1428761--1428803	18	2.4	18	84	7	52	51	11	2	34	1.51
1430197--1430240	22	2.0	22	82	8	54	9	29	4	56	1.50
1434643--1434695	20	2.7	20	87	0	70	33	15	28	22	1.94
1435110--1435223	55	2.0	57	90	6	180	35	14	21	28	1.92
1435125--1435253	55	2.3	55	86	4	170	41	11	17	29	1.84
1435437--1435632	68	2.9	68	93	1	322	31	16	23	28	1.96
1440695--1440741	14	3.4	14	88	11	62	0	19	2	78	0.85
1442598--1442633	18	2.0	18	100	0	72	22	22	27	27	1.99
1442530--1442701	86	2.0	86	97	0	326	28	17	26	27	1.98
1442616--1442919	68	4.5	68	95	0	536	28	17	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447236--1447288	16	3.0	17	71	17	54	28	24	18	28	1.98
1449102--1449274	90	1.9	89	94	1	301	44	6	10	37	1.67
1450639--1450673	10	3.6	10	88	3	54	34	2	0	62	1.10
1451230--1451286	18	2.9	19	85	12	80	29	10	12	47	1.74
1451714--1451754	21	2.0	21	85	0	55	31	21	24	21	1.98
1452891--1452929	17	2.3	17	86	0	51	23	43	20	12	1.86
1453586--1453665	29	2.8	29	86	1	108	15	25	21	38	1.92
1456996--1457470	138	3.4	137	81	4	508	31	17	22	28	1.97
1465104--1465320	30	7.2	30	71	10	113	42	12	28	17	1.85
1466052--1466109	21	2.8	21	79	10	64	20	15	29	34	1.94
1466164--1466212	21	2.3	21	82	3	53	32	32	14	20	1.92
1471172--1471277	36	3.0	32	77	14	86	33	15	10	41	1.81
1471193--1471277	36	2.4	35	82	5	107	31	16	10	41	1.82
1471126--1471277	72	2.1	73	81	8	177	31	15	13	39	1.86
1471358--1471551	104	1.9	104	83	2	255	36	14	10	38	1.81
1471548--1471657	30	3.5	30	69	20	98	28	17	13	40	1.87
1471496--1471676	65	2.8	66	93	2	294	28	17	14	39	1.88
1474403--1474836	139	3.1	139	84	0	564	31	28	14	25	1.95
1474878--1474928	15	3.4	15	73	10	50	23	15	1	58	1.47
1475067--1475173	55	1.9	56	83	5	137	46	12	14	26	1.80
1476111--1476135	4	6.2	4	100	0	50	24	0	0	76	0.80
1476075--1476363	135	2.2	135	88	3	435	23	16	13	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478126--1478180	28	2.0	28	82	7	67	58	3	0	38	1.16
1479309--1479355	15	2.9	15	77	22	51	57	0	0	42	0.98
1479528--1479681	45	3.3	45	70	15	141	22	27	11	39	1.87
1479531--1479827	95	3.1	95	86	2	418	21	25	12	40	1.88
1479903--1480110	95	2.2	95	87	0	308	30	18	16	34	1.93
1480174--1480841	20	33.5	20	86	1	847	32	22	22	22	1.98
1487995--1488056	18	3.7	17	74	18	58	58	3	1	37	1.24
1489261--1489307	15	2.9	15	77	22	51	57	0	0	42	0.98
1498294--1498433	60	2.3	60	77	7	142	42	6	17	33	1.74
1498728--1498795	21	3.1	21	83	10	66	29	2	0	67	1.05
1498730--1498780	15	3.5	15	89	10	72	25	3	0	70	1.04
1498737--1498796	3	20.0	3	80	13	70	33	3	0	63	1.11
1500047--1500080	17	1.9	18	88	5	52	23	5	2	67	1.26
1500740--1500772	17	2.0	17	88	5	50	39	9	0	51	1.34
1503965--1504049	42	2.0	42	93	4	145	34	11	12	41	1.80
1506907--1506944	18	2.1	18	90	0	58	57	2	5	34	1.35
1507301--1507355	28	2.0	28	92	0	92	50	21	10	16	1.75
1510543--1510584	22	2.1	19	86	13	57	57	2	4	35	1.33
1511981--1512005	2	12.5	2	100	0	50	0	0	48	52	1.00
1513545--1513606	28	2.2	28	82	5	72	30	6	8	54	1.55
1516387--1516508	49	2.5	49	87	0	181	18	14	17	50	1.79
1520447--1520483	17	2.2	17	86	13	51	54	0	8	37	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521517--1521604	21	4.2	21	85	2	124	31	18	26	23	1.97
1521517--1521604	41	2.1	42	87	2	124	31	18	26	23	1.97
1526102--1526227	29	4.4	29	77	7	123	36	4	2	56	1.33
1526016--1526161	73	2.0	73	81	6	172	40	4	4	51	1.40
1526214--1526302	30	2.9	31	81	5	101	51	1	6	40	1.36
1526239--1526343	54	1.9	54	84	3	140	54	0	6	38	1.33
1530121--1530161	22	1.9	21	90	5	64	70	4	0	24	1.06
1543104--1543197	46	2.0	46	100	0	188	40	4	12	42	1.63
1543364--1543748	206	1.9	205	85	2	531	46	13	15	25	1.82
1555274--1555308	18	1.9	18	94	0	61	28	31	5	34	1.81
1569836--1569882	21	2.2	21	100	0	94	51	25	8	14	1.71
1570817--1570849	2	16.5	2	100	0	66	48	0	0	51	1.00
1576017--1576054	13	3.0	13	88	3	60	60	2	0	36	1.11
1578992--1579034	20	2.2	20	91	0	68	39	23	16	20	1.92
1579008--1579199	60	3.2	59	85	5	269	42	24	14	18	1.88
1579028--1579235	20	10.4	20	78	6	197	42	24	14	18	1.87
1579028--1579213	40	4.7	40	81	5	241	42	24	14	18	1.88
1579028--1579235	60	3.5	60	83	7	278	42	24	14	18	1.87
1579202--1579312	39	2.8	40	82	9	122	37	19	11	30	1.88
1579219--1579312	19	4.9	19	84	5	118	36	20	10	32	1.87
1579469--1579506	16	2.5	15	84	12	51	28	5	0	65	1.14
1582357--1582392	18	2.0	18	94	0	63	55	25	2	16	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582752--1582852	20	5.1	20	95	2	168	14	18	24	41	1.89
1582762--1582871	20	5.5	20	92	2	100	14	19	21	44	1.86
1582822--1582879	20	2.9	20	86	0	71	17	18	17	46	1.84
1582753--1582880	60	2.1	60	84	5	161	17	17	21	43	1.87
1582947--1583102	69	2.3	67	88	7	219	50	17	2	29	1.59
1584451--1584509	21	2.8	20	84	2	64	23	15	35	25	1.94
1586680--1586720	19	2.2	18	91	4	64	51	17	17	14	1.77
1587118--1587165	22	2.2	22	92	0	78	20	14	43	20	1.87
1587130--1587172	22	2.0	22	95	0	77	20	13	44	20	1.86
1587279--1587529	20	12.4	20	76	3	171	20	13	22	43	1.87
1587340--1587525	60	3.1	60	82	4	196	20	13	22	44	1.86
1587277--1587495	81	2.7	81	87	1	323	20	12	22	44	1.85
1587367--1587546	61	3.0	62	81	11	205	20	11	21	46	1.82
1587564--1587610	19	2.4	19	85	3	58	25	14	27	31	1.95
1590094--1590232	64	2.2	63	83	6	165	28	17	20	33	1.95
1590116--1590252	64	2.2	63	82	4	168	27	18	18	34	1.95
1596668--1596792	64	2.0	63	82	7	155	27	18	20	34	1.95
1604044--1604117	31	2.4	32	84	6	98	39	12	22	25	1.89
1604096--1604155	29	2.1	29	81	6	68	36	8	23	31	1.84
1615758--1615837	37	2.2	37	97	0	151	50	5	1	43	1.32
1619106--1619156	26	2.0	26	96	3	95	43	5	19	31	1.75
1629408--1629450	20	2.2	20	82	0	50	41	0	13	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631326--1631551	103	2.2	103	94	0	398	26	12	23	36	1.91
1631567--1631622	23	2.4	23	93	0	94	17	28	26	26	1.98
1633309--1633390	23	3.7	23	73	12	73	21	20	25	31	1.98
1633657--1633716	26	2.3	26	97	0	111	31	10	28	30	1.89
1637926--1637966	19	2.1	19	86	4	55	43	4	12	39	1.63
1640133--1640167	15	2.3	15	90	0	52	62	0	11	25	1.28
1640531--1640572	16	2.6	16	92	0	66	40	9	16	33	1.81
1641617--1641716	48	2.1	48	100	0	200	32	12	14	42	1.82
1641758--1641828	19	3.6	19	73	14	72	60	4	1	33	1.25
1644980--1645016	17	2.2	17	86	13	51	37	8	0	54	1.30

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