genome.fa.s7993.2.7.7.80.10.50.1000.8.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

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

This is table  8  of  12  ( 1410 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)
1427910--1427967	3	19.7	3	78	3	64	36	3	0	60	1.14
1427907--1427971	12	5.5	12	83	1	60	38	3	0	58	1.14
1427910--1427967	18	3.3	18	82	2	73	36	3	0	60	1.14
1428152--1428182	10	3.1	10	100	0	62	19	9	19	51	1.74
1438448--1438489	22	1.9	22	90	9	68	14	11	4	69	1.34
1449719--1450067	131	2.7	131	81	0	385	32	10	16	40	1.83
1450256--1450572	131	2.4	131	81	1	357	31	11	16	40	1.83
1464018--1464077	13	4.6	13	81	8	77	36	20	15	28	1.92
1464010--1464077	26	2.6	26	82	13	86	36	19	17	26	1.94
1475215--1475292	37	2.1	37	97	0	147	30	7	19	42	1.79
1476009--1476247	37	6.3	37	74	13	209	36	21	18	22	1.95
1479020--1479201	5	35.4	5	75	22	132	75	0	19	4	1.00
1479012--1479229	30	7.3	29	73	20	143	75	0	18	5	1.02
1479006--1479239	25	9.5	25	71	21	133	75	0	18	5	1.03
1479012--1479232	10	22.2	10	67	22	87	75	0	18	5	1.02
1479190--1479243	7	8.4	7	86	13	73	74	0	14	11	1.08
1480949--1481000	3	17.7	3	76	4	52	32	3	1	61	1.25
1480989--1481041	26	2.0	26	92	0	88	41	3	3	50	1.38
1483467--1483536	2	35.0	2	100	0	140	50	0	0	50	1.00
1485106--1485156	21	2.4	22	80	12	61	56	7	0	35	1.28
1489333--1489381	8	6.4	8	77	15	50	51	2	2	44	1.24
1491899--1491952	28	1.9	28	88	0	81	33	25	12	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494056--1494091	14	2.6	14	100	0	72	41	0	5	52	1.24
1500922--1500959	8	4.4	9	83	9	53	63	0	0	36	0.95
1500917--1500963	17	2.8	16	81	15	51	63	0	0	36	0.94
1501029--1501053	10	2.5	10	100	0	50	0	12	0	88	0.53
1502736--1502866	61	2.2	59	82	8	165	43	2	19	35	1.63
1503791--1503848	12	4.8	12	82	0	71	51	18	15	13	1.76
1503803--1503871	24	2.9	24	84	0	75	46	18	14	20	1.84
1503813--1503883	24	3.0	24	73	8	56	47	18	14	19	1.82
1506371--1506417	10	5.5	8	82	14	51	23	25	34	17	1.96
1506381--1506414	15	2.1	16	89	10	52	23	26	35	14	1.94
1506371--1506425	27	2.0	28	83	16	71	23	25	34	16	1.95
1506404--1506453	13	3.5	13	76	23	55	16	24	44	16	1.86
1506412--1506458	18	2.6	18	93	0	76	12	23	46	17	1.82
1508517--1508604	24	3.7	24	84	0	104	46	18	15	19	1.84
1508522--1508581	12	5.0	12	76	8	68	48	18	18	15	1.81
1508510--1508618	48	2.3	47	83	3	128	46	17	16	19	1.84
1508515--1508618	24	4.3	24	75	4	86	47	17	17	18	1.84
1513150--1513190	17	2.4	17	87	0	55	41	7	0	51	1.30
1513160--1513196	17	2.2	17	100	0	74	43	0	0	56	0.99
1513709--1513734	11	2.4	11	100	0	52	46	0	15	38	1.46
1513960--1514006	23	2.0	23	100	0	94	25	21	23	29	1.99
1515321--1515406	31	2.8	31	81	0	109	36	5	4	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1519431--1519480	19	2.7	19	90	3	75	58	2	0	40	1.10
1524595--1524647	14	3.7	14	82	2	61	20	20	33	24	1.97
1528675--1528700	4	6.5	4	100	0	52	23	0	0	76	0.78
1528980--1529018	19	2.1	18	90	4	60	48	5	2	43	1.38
1532856--1532899	14	2.9	14	81	18	52	15	11	9	63	1.51
1536907--1536932	6	4.3	6	100	0	52	15	0	0	84	0.62
1544997--1545048	3	18.7	3	80	11	58	25	0	1	73	0.94
1546176--1546317	47	3.0	47	97	0	275	56	8	9	25	1.60
1546945--1546974	2	15.5	2	93	6	53	50	0	0	50	1.00
1550151--1550181	3	10.7	3	93	6	55	67	0	32	0	0.91
1550827--1550884	13	4.5	13	70	23	50	50	0	3	46	1.18
1550821--1550883	21	3.1	21	71	13	69	52	0	3	44	1.17
1550885--1551021	14	9.6	14	79	17	124	37	7	1	54	1.38
1550884--1551074	7	26.6	7	69	23	80	37	8	1	53	1.38
1550883--1551034	44	3.5	43	76	16	154	37	7	1	53	1.39
1550904--1551078	44	4.1	41	77	13	158	37	8	1	53	1.38
1550905--1551080	22	8.1	20	80	11	127	38	7	1	52	1.38
1552589--1552639	8	6.6	8	80	6	52	47	15	1	35	1.57
1552577--1552628	23	2.3	23	93	0	86	42	21	3	32	1.71
1552592--1552633	4	10.8	4	82	5	50	47	19	2	30	1.62
1552592--1552636	23	2.0	23	90	0	72	48	17	2	31	1.59
1552890--1552935	14	3.4	14	77	14	51	21	0	23	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1552890--1552935	21	2.2	20	85	7	65	21	0	23	54	1.45
1552886--1552937	21	2.5	21	78	12	61	23	0	23	53	1.46
1552991--1553039	19	2.8	17	88	11	80	40	0	8	51	1.32
1552991--1553030	17	2.4	17	87	8	55	42	0	7	50	1.30
1553564--1553600	15	2.4	15	90	4	56	40	5	5	48	1.49
1553649--1553705	21	2.7	21	75	0	60	26	1	35	36	1.67
1553756--1553794	2	20.0	2	89	5	62	48	2	0	48	1.15
1554153--1554386	2	117.0	2	68	18	105	43	4	2	49	1.37
1554219--1554281	13	4.5	15	80	11	80	38	4	7	49	1.53
1554231--1554287	13	4.2	13	86	4	69	40	5	7	47	1.53
1554228--1554281	13	4.0	13	88	9	81	38	5	7	48	1.55
1554219--1554380	15	11.3	15	75	13	112	43	4	3	48	1.40
1554244--1554386	52	2.8	49	71	18	121	44	3	2	49	1.34
1556288--1556350	11	5.9	11	73	14	60	39	1	1	57	1.18
1562895--1562955	21	3.2	21	65	26	62	31	4	16	47	1.68
1562894--1562964	36	2.0	35	97	2	133	30	5	16	46	1.70
1564294--1564363	30	2.3	30	82	5	77	37	15	27	20	1.93
1564635--1564676	16	2.5	17	80	11	50	33	11	23	30	1.91
1565492--1565520	15	1.9	15	100	0	58	37	6	27	27	1.82
1575447--1575521	39	1.9	39	91	5	125	2	16	40	41	1.62
1575573--1575628	3	17.3	3	76	20	51	64	0	0	35	0.94
1575574--1575812	7	33.4	7	70	19	147	53	2	2	41	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575589--1575812	2	119.5	2	66	23	98	52	3	3	41	1.33
1575619--1575776	72	2.3	69	83	14	200	51	3	4	40	1.38
1585043--1585262	43	5.1	43	84	2	183	25	17	23	34	1.96
1585098--1585264	44	3.9	43	84	3	219	24	17	23	34	1.96
1585064--1585264	86	2.3	87	86	1	280	24	16	23	34	1.95
1585306--1585432	43	2.9	43	80	2	128	33	18	22	25	1.97
1585757--1585808	21	2.5	21	80	0	59	9	32	13	44	1.76
1595701--1595749	21	2.2	22	92	7	82	36	12	6	44	1.67
1596866--1596914	20	2.5	20	89	0	71	30	10	34	24	1.89
1598764--1598814	20	2.5	20	87	6	68	35	17	29	17	1.93
1599245--1599506	54	4.9	54	90	0	389	29	17	18	33	1.94
1599245--1599561	162	2.0	162	82	2	386	30	16	18	34	1.93
1603106--1603148	23	1.9	22	85	4	59	79	0	4	16	0.90
1603106--1603148	11	3.8	12	85	11	56	79	0	4	16	0.90
1604208--1604291	39	2.2	39	86	0	114	5	20	38	35	1.77
1604356--1604541	11	16.0	11	64	20	51	51	4	3	40	1.39
1604422--1604552	7	19.6	7	74	17	93	49	4	2	43	1.35
1604389--1604504	43	2.6	44	79	14	123	49	6	3	41	1.44
1604422--1604554	2	71.0	2	69	24	78	49	4	2	43	1.35
1604421--1604507	46	1.9	45	85	2	120	50	5	2	41	1.39
1604426--1604542	9	13.2	9	70	21	79	50	4	1	43	1.31
1604554--1604740	5	37.4	5	100	0	374	60	39	0	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604739--1604797	5	12.2	5	75	13	52	55	6	0	37	1.26
1604765--1604797	14	2.4	14	94	0	57	54	3	0	42	1.15
1604740--1604801	23	2.6	24	82	7	72	53	8	0	38	1.31
1608003--1608050	3	16.7	3	87	8	73	33	0	0	66	0.92
1611697--1611797	37	2.8	36	84	6	123	38	14	15	30	1.88
1612274--1612316	15	2.7	15	78	7	50	37	2	0	60	1.10
1612494--1612527	16	2.1	16	88	0	50	32	5	0	61	1.20
1612508--1612558	21	2.4	22	80	3	59	27	3	1	66	1.20
1615861--1615931	20	3.3	20	82	9	70	78	5	14	1	0.99
1617427--1617531	36	2.9	37	92	1	167	23	23	13	39	1.90

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