genome.fa.s8935.2.7.7.80.10.50.1000.8.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: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775090

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1015 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)
1596086--1596240	77	2.0	77	100	0	310	24	19	27	28	1.98
1601612--1601766	79	2.0	76	93	6	267	25	29	27	18	1.98
1602511--1602581	35	2.0	35	81	10	83	53	0	0	46	1.00
1602811--1602867	17	3.2	17	68	18	53	17	21	10	50	1.75
1602913--1603778	114	7.7	114	92	2	1336	27	17	14	39	1.90
1602913--1603813	226	4.0	227	90	2	1325	27	17	15	39	1.90
1602913--1603816	340	2.7	337	89	2	1341	27	17	15	39	1.90
1604499--1604835	114	3.0	114	89	2	489	31	19	15	34	1.92
1605129--1605177	16	2.8	17	78	12	55	46	6	10	36	1.63
1605530--1605601	12	5.3	14	77	22	66	0	15	0	84	0.62
1605530--1605609	24	3.2	24	80	18	92	1	15	0	83	0.70
1605529--1605601	10	6.8	10	83	13	92	0	16	0	83	0.64
1619638--1619697	3	20.0	3	89	6	95	63	0	0	36	0.95
1621513--1621546	15	2.2	16	89	5	52	26	0	2	70	1.01
1621512--1621570	29	2.0	30	84	15	79	28	0	5	66	1.13
1624858--1624887	15	2.0	15	93	0	51	26	33	3	36	1.73
1625473--1625512	21	1.9	21	89	0	62	50	10	10	30	1.69
1625476--1626440	198	4.8	199	87	3	1363	32	14	13	39	1.84
1627885--1627942	24	2.4	25	80	11	75	50	13	5	31	1.64
1630485--1630543	18	3.5	17	74	21	61	35	5	37	22	1.76
1630836--1632001	199	5.9	199	88	2	1592	31	14	13	40	1.84
1631866--1632191	128	2.6	128	82	4	347	30	14	11	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636966--1637018	25	2.2	24	87	9	74	47	5	0	47	1.26
1639223--1639264	21	2.0	21	86	9	59	23	28	21	26	1.99
1641351--1641400	20	2.5	20	76	0	55	20	16	10	54	1.70
1641320--1641799	182	2.6	181	89	1	726	26	16	13	44	1.84
1647845--1647909	3	21.7	3	81	12	80	35	1	0	63	1.04
1656431--1656505	35	2.1	35	92	0	123	33	29	28	9	1.88
1656581--1656655	24	3.2	24	88	1	116	36	21	17	25	1.95
1656585--1656661	23	3.3	23	85	3	109	36	20	18	24	1.95
1656564--1656677	47	2.4	47	79	5	124	40	19	14	25	1.90
1657812--1657847	18	2.0	18	88	0	54	30	16	0	52	1.44
1659145--1659184	7	5.4	7	88	11	62	25	27	35	12	1.92
1659146--1659184	15	2.6	15	100	0	78	25	25	35	12	1.92
1659187--1659223	13	2.8	13	91	0	65	10	21	48	18	1.78
1659174--1659227	18	3.3	18	75	24	73	11	20	50	18	1.77
1659146--1659187	8	5.5	8	91	8	70	23	26	35	14	1.93
1664097--1664189	1	93.0	1	68	0	51	83	1	11	3	0.81
1664094--1664189	15	6.8	13	76	18	79	83	1	12	3	0.82
1664106--1664190	34	2.4	35	90	3	127	82	1	14	2	0.83
1664094--1664190	9	10.3	9	77	14	83	82	1	13	3	0.84
1665182--1665564	93	4.1	93	95	1	662	27	15	21	34	1.94
1666503--1666591	36	2.6	34	94	3	151	49	10	20	20	1.77
1666500--1666591	34	2.6	36	91	5	152	50	9	20	19	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666389--1666704	143	2.1	150	89	6	477	41	12	19	25	1.87
1666658--1666702	24	1.9	23	82	13	56	51	6	24	17	1.70
1666538--1667052	113	4.7	112	85	5	651	37	13	19	29	1.90
1666537--1667052	225	2.3	221	87	7	737	37	13	18	29	1.90
1666978--1667259	120	2.4	118	86	4	370	42	15	18	24	1.88
1667399--1667444	3	15.7	3	86	13	69	32	0	0	67	0.91
1672504--1672585	29	2.8	29	90	3	121	19	35	31	13	1.90
1672504--1672604	29	3.5	27	84	10	112	21	33	30	13	1.93
1672504--1672614	58	1.9	58	80	7	127	20	36	30	12	1.90
1673049--1673092	21	2.1	21	91	0	70	29	0	15	54	1.42
1673069--1673131	28	2.2	30	94	5	112	30	0	12	57	1.36
1673648--1673691	23	2.0	23	81	4	54	40	0	9	50	1.34
1677072--1677148	22	3.3	22	65	28	59	44	0	10	45	1.38
1676997--1677364	49	7.6	49	88	7	542	43	0	11	45	1.42
1677056--1677364	144	2.1	146	92	5	531	43	0	11	44	1.41
1677306--1677385	21	4.0	21	64	15	60	45	0	10	45	1.37
1677392--1677442	16	2.8	18	75	24	54	35	0	11	52	1.38
1677434--1677553	26	4.6	26	82	4	125	44	2	6	46	1.43
1677336--1677553	14	16.1	13	72	19	103	43	1	8	46	1.45
1677638--1677765	59	2.2	58	83	10	154	41	3	7	47	1.48
1677681--1677722	17	2.5	17	80	0	57	40	0	2	57	1.12
1677749--1677934	26	7.4	25	81	12	197	47	2	6	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677752--1677899	49	3.0	48	84	11	194	47	2	7	42	1.43
1677767--1677860	3	32.3	3	72	6	50	51	3	4	41	1.37
1677434--1678132	368	1.9	371	95	0	1278	43	4	9	43	1.55
1678007--1678133	59	2.2	57	82	12	150	41	2	8	47	1.47
1680650--1680764	20	5.7	20	82	6	115	31	25	19	24	1.98
1680647--1680784	41	3.4	41	80	6	154	34	23	18	23	1.96
1681218--1681244	14	1.9	14	100	0	54	51	25	14	7	1.68
1681258--1681316	20	3.0	20	87	0	73	15	18	22	44	1.87
1681451--1681505	25	2.2	24	78	15	58	20	9	18	52	1.71
1682634--1682678	18	2.5	18	88	0	72	26	44	15	13	1.83
1683160--1683226	20	3.4	20	81	2	73	38	23	22	14	1.92
1683215--1683274	14	3.9	14	76	19	66	50	23	16	10	1.75
1683199--1683290	33	2.8	33	96	0	166	48	20	18	11	1.79
1683199--1683295	19	5.6	19	69	22	88	47	20	19	12	1.81
1683307--1683364	14	3.9	14	75	16	62	12	17	22	48	1.80
1683309--1683380	32	2.2	33	95	2	128	13	18	20	47	1.82
1683365--1683420	20	2.8	19	86	7	76	16	25	23	35	1.94
1685468--1685532	19	3.7	19	84	15	95	46	18	21	13	1.84
1685551--1685607	20	2.8	20	97	0	105	15	22	22	38	1.92
1685924--1686059	61	2.2	63	79	7	154	22	18	25	33	1.96
1685944--1686057	20	5.7	20	81	6	122	23	18	26	31	1.97
1685984--1686079	41	2.3	41	85	3	122	19	20	23	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1686343--1686440	30	3.3	30	88	5	139	45	12	1	40	1.48
1686627--1686666	21	1.9	21	100	0	80	57	15	0	27	1.38
1686772--1686863	46	2.0	47	83	8	118	52	10	0	36	1.37
1687001--1687049	21	2.3	20	83	16	64	61	16	0	22	1.34
1687066--1687095	4	7.5	4	92	0	51	53	20	0	26	1.46
1687025--1687134	47	2.4	46	86	6	159	47	17	2	32	1.62
1687132--1687169	9	4.2	9	83	10	51	65	0	2	31	1.06
1687467--1687523	29	2.0	29	92	0	96	17	29	29	22	1.97
1687604--1687659	29	2.0	28	96	3	103	16	42	26	14	1.86
1688618--1688674	19	3.0	19	94	0	96	33	5	26	35	1.79
1695020--1695064	21	2.1	21	87	0	63	31	28	24	15	1.96
1695923--1696001	31	2.5	31	95	0	140	18	20	21	39	1.93
1695925--1696016	31	3.0	31	90	3	105	21	19	21	36	1.95
1700298--1700330	5	6.6	5	92	0	57	0	75	0	24	0.80
1702031--1702493	112	4.1	112	92	0	764	45	13	14	25	1.82
1702364--1702819	182	2.5	183	92	2	740	43	12	15	28	1.83
1703065--1703112	23	2.1	23	92	0	78	37	18	8	35	1.81
1703561--1703617	18	3.1	18	72	10	53	57	0	1	40	1.09
1703557--1703654	25	4.1	25	69	19	75	56	0	1	42	1.06
1703616--1703667	21	2.7	18	70	16	50	48	0	0	51	1.00
1712444--1712559	24	4.8	24	86	6	155	25	15	19	38	1.91
1712772--1712798	2	13.5	2	100	0	54	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)
1714511--1714583	23	3.2	23	92	0	119	34	5	21	38	1.77
1714091--1719314	487	10.8	488	93	3	8714	41	7	10	40	1.68
1715012--1715045	15	2.2	16	89	5	52	29	8	20	41	1.82
1715474--1715533	23	2.6	23	94	0	102	36	5	21	36	1.76
1715950--1716020	23	3.2	23	88	8	110	33	5	22	38	1.78
1715955--1716025	21	3.3	21	90	4	97	33	5	22	38	1.78
1716437--1716509	23	3.2	23	88	0	101	36	5	19	38	1.75
1716925--1716991	23	3.0	22	88	2	89	35	5	20	37	1.78
1717417--1717466	23	2.2	23	92	0	82	38	6	20	36	1.77
1717417--1717479	23	2.7	23	87	0	81	36	6	19	38	1.77

Tables:   1   2   3   4   5   6   7   8   9