genome.fa.s9267.2.7.7.80.10.50.1000.9.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: VEPZ01009267.1 Hibiscus syriacus cultivar Beakdansim tig00112925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1725308

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

This is table  9  of  10  ( 1110 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)
1514454--1514527	19	4.5	16	83	16	66	13	20	18	47	1.82
1514450--1514517	19	3.8	19	87	12	101	13	22	17	47	1.82
1516538--1516593	19	2.9	19	84	5	76	35	21	25	17	1.95
1516593--1516650	14	3.9	14	77	16	62	48	24	17	10	1.78
1516577--1516655	32	2.4	33	91	2	124	46	21	18	12	1.82
1516662--1516756	19	5.7	18	70	24	82	12	17	21	48	1.80
1516667--1516756	31	2.8	33	88	5	139	12	16	21	50	1.78
1516741--1516795	20	2.8	19	83	8	65	16	23	23	36	1.94
1517277--1517321	18	2.5	18	88	0	72	13	15	44	26	1.83
1518626--1518663	20	1.9	20	88	0	58	50	21	15	13	1.78
1518925--1518968	22	2.0	22	95	0	79	18	15	45	20	1.85
1519136--1519250	20	5.7	20	76	5	79	22	17	23	36	1.95
1519239--1519331	20	4.5	21	78	4	100	17	24	18	39	1.91
1519178--1519312	41	3.3	41	82	4	139	19	21	20	38	1.94
1519239--1519331	41	2.3	41	100	0	186	17	24	18	39	1.91
1521922--1522200	127	2.2	127	80	4	292	35	14	15	34	1.87
1521922--1522507	130	4.6	127	74	7	341	34	14	16	34	1.89
1522042--1522536	256	1.9	255	80	6	581	32	13	17	35	1.90
1525942--1525993	20	2.6	20	93	0	95	25	25	23	26	2.00
1527072--1527191	32	3.9	31	82	5	127	26	20	18	34	1.96
1529068--1529190	20	6.1	20	89	2	142	45	23	12	18	1.83
1529136--1529195	21	2.9	21	97	0	111	41	26	10	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529208--1529310	40	2.6	40	79	0	107	33	22	8	35	1.85
1529243--1529310	20	3.4	20	74	8	66	30	22	11	35	1.90
1529467--1529504	16	2.5	15	84	12	51	28	5	0	65	1.14
1530096--1530129	12	2.8	12	90	0	50	55	29	0	14	1.40
1530459--1530483	3	8.3	3	100	0	50	64	0	36	0	0.94
1532556--1532591	18	2.0	18	94	0	63	55	25	2	16	1.55
1532868--1532921	20	2.7	20	79	0	54	22	12	20	44	1.85
1533003--1533040	17	2.2	17	95	0	67	71	10	0	18	1.14
1534429--1534526	21	4.7	21	84	3	117	26	16	33	23	1.95
1534918--1534967	21	2.4	21	75	0	55	38	30	12	20	1.88
1535081--1535176	42	2.3	42	85	0	120	19	15	34	30	1.93
1536615--1536667	20	2.7	20	96	0	97	49	22	18	9	1.76
1536615--1536675	20	3.1	20	90	2	70	49	24	16	9	1.76
1536684--1536722	20	2.0	20	100	0	78	15	12	20	51	1.76
1536686--1536729	20	2.2	20	91	0	70	15	13	20	50	1.78
1537049--1537103	22	2.5	22	87	0	83	18	16	47	18	1.83
1537226--1537295	20	3.5	20	88	0	104	14	12	24	48	1.78
1537219--1537317	40	2.5	39	77	4	108	17	15	23	44	1.86
1537894--1537918	3	8.3	3	100	0	50	68	0	0	32	0.90
1541109--1541149	21	2.0	21	90	0	64	43	0	14	41	1.45
1544426--1544470	15	2.9	16	84	15	60	57	4	0	37	1.19
1545483--1545528	22	2.1	22	100	0	92	45	8	10	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549040--1549080	21	2.0	21	90	0	64	26	24	21	26	2.00
1552268--1552302	16	2.1	17	89	5	54	45	0	0	54	0.99
1554365--1554431	22	2.9	24	82	14	88	22	5	29	41	1.77
1554372--1554431	22	2.7	22	89	0	93	23	6	30	40	1.80
1559396--1559468	3	23.7	3	81	10	76	64	2	2	30	1.21
1559396--1559468	31	2.4	30	86	4	92	64	2	2	30	1.21
1559667--1560018	131	2.7	131	83	3	402	25	17	30	26	1.98
1560031--1560157	65	2.0	65	90	0	200	42	11	21	24	1.86
1560387--1560452	30	2.2	30	97	0	123	12	7	30	50	1.67
1560837--1560896	3	19.7	3	80	10	68	65	1	1	31	1.13
1561109--1561444	131	2.5	131	82	4	363	25	17	30	26	1.97
1561518--1561624	55	1.9	55	84	3	144	44	14	15	24	1.85
1561573--1561614	21	2.0	20	82	13	50	50	16	11	21	1.77
1562966--1563027	15	4.1	15	85	4	79	0	16	3	80	0.83
1562969--1563027	5	11.6	5	80	3	64	0	16	3	79	0.86
1569597--1569639	21	2.0	23	86	9	63	58	2	2	37	1.24
1571243--1571394	66	2.3	65	84	8	186	28	17	21	32	1.96
1574066--1574188	44	2.8	42	75	16	117	26	18	27	27	1.98
1579892--1579999	45	2.4	46	85	4	139	33	18	21	26	1.96
1579899--1579999	46	2.2	45	85	5	132	32	18	20	27	1.96
1582018--1582044	14	1.9	14	100	0	54	33	0	0	66	0.92
1582201--1582276	15	4.9	16	74	6	59	13	3	6	76	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582171--1582277	43	2.5	42	76	10	110	15	5	5	72	1.22
1582343--1582400	28	2.1	27	81	9	64	27	6	3	62	1.37
1582506--1582642	22	6.6	22	72	21	93	16	5	1	76	1.03
1582553--1582655	5	20.8	5	82	15	101	16	1	0	80	0.86
1582543--1582655	28	4.2	26	77	15	106	16	2	1	78	0.95
1582558--1582658	11	8.5	11	77	15	94	15	1	0	81	0.84
1582563--1582656	6	16.5	6	79	16	87	15	2	1	80	0.86
1582553--1582655	33	3.1	32	81	13	120	16	1	0	80	0.86
1582553--1582658	23	4.5	23	72	19	85	16	1	0	81	0.84
1582563--1582660	27	4.0	25	71	17	80	16	2	1	80	0.86
1582553--1582670	20	5.9	19	75	20	55	16	2	2	78	0.96
1590607--1590655	23	2.2	22	96	3	89	24	32	24	18	1.97
1590639--1590681	19	2.3	19	84	8	52	20	32	32	13	1.92
1594052--1594338	128	2.2	127	82	3	326	32	14	16	35	1.90
1594052--1594598	128	4.2	128	73	7	317	33	14	16	35	1.90
1598239--1598273	2	18.0	2	94	5	63	48	0	0	51	1.00
1598419--1598450	2	16.0	2	100	0	64	50	0	0	50	1.00
1602111--1602245	21	6.6	21	79	10	145	28	15	24	31	1.95
1602196--1602265	20	3.5	20	72	3	68	18	21	21	38	1.93
1602132--1602268	41	3.4	39	83	6	157	26	16	22	34	1.95
1602257--1602308	22	2.4	22	86	0	77	21	17	26	34	1.95
1602407--1602454	6	8.5	6	97	2	75	29	54	16	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603085--1603131	19	2.5	19	96	0	85	40	17	21	21	1.91
1603164--1603217	21	2.6	21	100	0	108	29	29	16	24	1.97
1603143--1603343	62	3.4	62	74	12	240	37	23	18	19	1.94
1603240--1603290	20	2.5	20	90	6	77	43	25	21	9	1.83
1603144--1603421	115	2.5	109	89	4	394	36	24	18	20	1.95
1603279--1603421	21	6.6	21	74	10	117	33	24	18	23	1.97
1603259--1603425	89	1.9	89	96	0	307	35	23	19	22	1.96
1604800--1604824	3	8.3	3	100	0	50	68	0	0	32	0.90
1608136--1608179	3	14.7	3	90	9	72	68	0	0	31	0.90
1611448--1611502	20	2.8	20	76	15	60	23	7	40	29	1.81
1612763--1612821	25	2.3	25	91	2	91	13	20	11	54	1.70
1620913--1620942	8	3.8	8	90	0	51	50	3	0	46	1.18
1626190--1626301	24	4.7	24	94	0	188	22	20	22	34	1.96
1627337--1627381	21	2.0	23	87	8	67	53	2	2	42	1.25
1628520--1628569	18	3.0	17	83	11	59	24	28	10	38	1.87
1628536--1628610	20	3.9	19	89	6	109	17	28	9	45	1.79
1635145--1635178	2	17.0	2	100	0	68	50	0	0	50	1.00
1636374--1636404	8	4.0	8	95	4	55	38	0	22	38	1.54
1639515--1639626	24	4.7	24	92	0	179	22	21	22	33	1.97
1640702--1640746	21	2.0	23	87	8	67	53	2	2	42	1.25
1644532--1644613	21	4.0	21	79	7	87	18	23	35	23	1.96
1651265--1651334	18	4.0	17	85	10	63	21	27	10	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651281--1651335	18	2.9	18	94	5	92	16	27	10	45	1.80
1652705--1652736	16	2.1	15	94	5	55	50	28	0	21	1.49
1653710--1653964	53	4.8	53	84	3	316	24	25	20	29	1.99
1654055--1654079	13	1.9	13	100	0	50	24	20	24	32	1.98
1654120--1654202	42	2.0	42	90	0	130	34	16	18	30	1.93
1664253--1664577	131	2.5	130	87	5	451	32	12	12	42	1.80
1664577--1665859	198	6.5	199	88	2	1753	34	12	12	40	1.81
1666527--1666583	17	3.2	17	75	22	55	52	31	12	3	1.55
1667542--1667869	177	1.9	177	87	0	485	32	16	11	39	1.84
1667719--1668077	198	1.8	198	85	0	511	34	15	9	40	1.79

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