genome.fa.s520.2.7.7.80.10.50.1000.9.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: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1956684

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

This is table  9  of  11  ( 1212 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)
1550860--1550933	3	24.7	3	97	0	139	33	1	0	64	1.02
1551395--1551446	25	2.0	25	85	7	68	65	7	23	3	1.35
1552235--1552283	19	2.7	18	87	9	73	16	4	6	73	1.19
1552323--1552385	12	5.1	12	72	14	56	42	0	1	55	1.09
1552326--1552396	12	5.7	12	72	8	52	42	0	1	56	1.08
1554508--1554755	130	1.9	130	94	0	433	35	14	12	36	1.85
1554522--1554786	130	2.0	129	82	4	318	39	12	13	34	1.83
1555224--1555257	16	2.0	18	88	11	54	64	5	2	26	1.30
1555380--1555422	21	2.0	21	100	0	86	39	0	13	46	1.44
1555391--1555476	35	2.5	35	84	0	100	37	1	20	40	1.61
1557067--1557116	16	3.1	16	82	11	57	32	0	4	64	1.12
1557356--1557388	16	2.1	16	94	0	57	57	21	12	9	1.62
1557457--1557501	16	2.8	16	93	0	81	55	22	13	8	1.65
1557959--1557990	14	2.3	14	94	0	55	50	25	18	6	1.70
1561839--1561932	25	3.8	25	98	0	179	30	15	20	32	1.94
1562015--1562045	13	2.4	13	100	0	62	64	0	0	35	0.94
1562012--1562090	9	7.5	10	84	15	74	74	0	0	25	0.82
1562012--1562090	13	5.8	13	78	21	58	74	0	0	25	0.82
1562041--1562090	14	3.6	13	89	10	73	82	0	0	18	0.68
1562013--1562083	23	3.0	23	83	6	79	76	0	0	23	0.79
1562319--1562625	94	3.3	91	84	8	376	25	19	28	26	1.99
1563578--1563622	16	2.9	16	81	15	58	6	17	0	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577022--1577191	76	2.3	75	96	1	313	30	15	20	33	1.94
1577022--1577191	25	6.8	25	97	1	313	30	15	20	33	1.94
1577274--1577304	13	2.4	13	100	0	62	64	0	0	35	0.94
1577271--1577349	9	7.5	10	84	15	74	74	0	0	25	0.82
1577271--1577349	13	5.8	13	78	21	58	74	0	0	25	0.82
1577300--1577349	14	3.6	13	89	10	73	82	0	0	18	0.68
1577272--1577342	23	3.0	23	83	6	79	76	0	0	23	0.79
1583988--1584039	18	2.9	18	91	5	79	17	1	3	76	1.02
1584111--1584162	21	2.4	21	87	12	70	25	1	3	69	1.16
1583994--1584162	24	7.8	22	70	19	76	23	4	4	68	1.26
1584331--1584368	17	2.2	18	85	4	51	18	2	2	76	1.02
1590693--1590816	65	1.9	63	85	9	171	53	10	24	12	1.69
1591656--1591810	56	2.6	59	86	9	226	40	21	14	23	1.90
1593591--1593628	17	2.2	18	95	4	69	15	0	5	78	0.91
1594625--1594682	28	2.1	28	100	0	116	32	22	10	34	1.88
1595898--1595979	41	2.0	41	87	0	119	10	12	25	51	1.72
1596037--1596102	34	1.9	34	87	6	98	22	16	16	43	1.87
1596128--1596182	24	2.2	25	84	15	71	40	3	16	40	1.66
1596138--1596182	24	2.0	24	91	8	76	37	4	15	42	1.67
1602782--1602824	22	1.9	23	85	4	61	30	0	11	58	1.34
1606921--1606950	10	2.8	11	90	10	53	30	0	16	53	1.44
1620117--1620215	45	2.2	44	82	8	112	31	21	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622398--1622425	14	2.0	14	100	0	56	35	0	42	21	1.53
1624238--1624554	81	3.9	81	84	2	397	29	22	11	36	1.88
1624506--1624697	68	2.8	68	88	3	235	29	24	14	32	1.94
1624917--1625133	59	3.7	58	82	7	262	34	22	9	34	1.86
1625635--1625659	13	1.9	13	100	0	50	24	20	32	24	1.98
1632883--1632932	21	2.4	21	86	3	66	38	14	22	26	1.91
1642025--1642311	30	9.7	30	72	11	209	37	10	2	49	1.49
1642077--1642279	87	2.3	87	73	15	195	37	11	0	49	1.45
1642251--1642313	31	2.0	32	90	3	101	38	6	3	52	1.43
1642025--1642366	59	5.8	60	72	14	214	38	9	2	50	1.46
1642228--1642319	33	2.8	32	82	11	98	36	6	3	53	1.43
1648287--1648325	19	2.1	19	85	0	51	48	5	2	43	1.38
1651123--1651170	23	2.1	23	84	0	60	47	18	10	22	1.79
1651152--1651202	26	1.9	27	84	4	68	45	15	17	21	1.86
1651803--1651842	20	2.0	20	85	5	53	20	20	27	32	1.97
1653839--1654129	6	48.5	6	92	1	485	0	18	49	31	1.50
1653997--1654279	12	24.6	12	83	8	284	0	25	49	24	1.50
1653840--1654286	24	18.4	24	90	2	401	0	21	49	28	1.51
1653865--1654279	36	11.9	36	82	11	255	0	22	49	27	1.52
1655545--1655586	2	21.5	2	95	4	77	52	0	0	47	1.00
1655540--1655598	20	3.4	17	78	15	66	57	1	0	40	1.09
1657630--1657833	110	1.9	110	89	0	318	23	18	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658833--1658880	16	3.3	15	76	23	50	4	14	2	79	0.98
1658917--1658957	17	2.4	17	91	0	64	2	2	7	87	0.70
1658917--1658957	8	4.9	8	85	11	55	2	2	7	87	0.70
1658917--1658957	9	4.7	9	84	6	57	2	2	7	87	0.70
1669173--1669214	18	2.3	18	88	8	59	71	0	9	19	1.13
1669173--1669225	18	2.9	18	83	5	54	69	1	7	20	1.22
1672163--1672207	21	2.1	21	87	0	63	17	26	17	37	1.93
1672213--1672329	20	5.8	20	83	2	153	40	22	18	18	1.92
1672217--1672353	40	3.4	40	80	3	150	37	21	19	21	1.94
1672213--1672327	60	1.9	61	89	1	178	40	21	18	19	1.91
1673213--1673266	24	2.2	24	90	0	81	22	18	18	40	1.91
1675774--1676066	52	5.5	52	73	18	230	45	20	21	11	1.83
1675774--1676068	33	8.3	37	73	17	172	45	20	22	11	1.83
1675898--1676070	88	1.9	89	96	2	321	46	20	21	11	1.82
1675774--1676052	121	2.3	123	89	2	436	45	20	22	11	1.83
1675774--1676070	19	16.7	19	71	18	194	45	20	21	11	1.83
1676066--1676142	19	4.3	19	71	18	67	12	15	23	48	1.80
1676081--1676174	33	2.9	34	90	3	131	11	19	21	47	1.80
1676116--1676174	19	3.4	19	73	22	74	13	22	18	45	1.84
1676124--1676174	17	3.1	17	69	25	54	13	23	17	45	1.84
1676281--1676317	14	2.6	14	91	0	65	45	21	0	32	1.52
1679638--1679693	20	2.8	20	81	10	78	41	19	23	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679678--1679738	14	4.0	14	73	19	50	44	22	22	9	1.82
1679629--1679774	19	8.1	19	70	19	107	44	19	21	13	1.86
1679629--1679752	33	3.5	33	82	11	133	44	20	21	13	1.86
1679781--1679856	20	3.8	20	84	1	91	11	17	19	51	1.76
1680417--1680600	20	9.4	20	71	11	148	21	17	23	38	1.93
1680432--1680461	15	2.0	15	93	0	51	20	16	20	43	1.88
1680417--1680600	40	4.7	40	85	6	227	21	17	23	38	1.93
1680609--1680661	20	2.7	19	83	16	72	13	20	24	41	1.88
1680471--1680661	101	1.9	100	79	8	217	19	18	23	38	1.93
1680937--1681119	20	9.4	20	73	11	155	20	18	22	38	1.94
1680937--1681180	40	6.2	40	81	7	234	20	18	22	38	1.93
1680992--1681180	20	9.4	20	77	5	157	19	18	22	39	1.92
1681126--1681283	20	7.8	20	71	17	67	22	17	23	36	1.95
1680349--1681384	519	2.0	515	95	0	1847	24	15	21	38	1.93
1682151--1682184	15	2.4	14	90	5	50	32	0	2	64	1.08
1687674--1687715	21	2.0	21	81	9	50	23	14	21	40	1.90
1687710--1687744	16	2.2	16	90	5	54	37	22	14	25	1.92
1687889--1688053	2	83.0	2	64	20	53	47	3	7	41	1.48
1687912--1688053	12	11.8	12	73	14	107	49	2	7	40	1.43
1687953--1688063	10	10.5	10	70	21	59	50	1	9	38	1.45
1687981--1688046	26	2.5	27	82	9	82	53	3	7	36	1.45
1688402--1688476	27	2.8	27	77	4	89	26	26	1	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688565--1688604	19	2.1	19	100	0	80	42	0	5	52	1.23
1688951--1689005	16	3.4	16	79	0	56	47	12	18	21	1.82
1689545--1689703	21	7.7	21	66	9	85	19	18	24	37	1.94
1689542--1689700	41	3.9	41	83	9	225	19	18	23	37	1.94
1689566--1689679	20	5.6	20	66	12	70	15	21	22	40	1.91
1690288--1690439	5	27.7	6	89	7	154	0	18	49	31	1.53
1690530--1690662	41	3.3	41	88	3	189	38	24	18	18	1.93
1690593--1690662	21	3.4	21	66	18	65	35	27	18	18	1.94
1690655--1690814	41	3.7	42	85	12	184	37	25	20	16	1.93
1690744--1690835	21	4.4	21	78	13	118	35	27	20	16	1.94

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