genome.fa.s8926.2.7.7.80.10.50.1000.8.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  8  of  20  ( 2371 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)
1476482--1476582	42	2.4	42	83	3	114	25	18	32	22	1.97
1476876--1476971	42	2.3	43	76	5	106	34	32	11	21	1.89
1476876--1477058	21	8.7	22	70	9	82	32	33	10	22	1.89
1479006--1479085	22	3.6	22	87	0	124	17	20	43	18	1.88
1488308--1488351	17	2.6	18	78	10	56	50	0	0	50	1.00
1488462--1488532	30	2.4	30	80	0	79	21	29	12	36	1.90
1491361--1491461	44	2.3	44	85	0	139	30	24	15	28	1.96
1497234--1497289	20	2.7	21	81	10	71	33	16	16	33	1.91
1499206--1499246	18	2.3	18	87	8	57	17	2	21	58	1.50
1500023--1500120	44	2.2	44	87	3	135	31	22	16	29	1.96
1501174--1501202	3	9.7	3	100	0	58	65	0	0	34	0.93
1501428--1501518	44	2.1	44	93	0	155	34	20	17	27	1.95
1501436--1501533	44	2.2	44	88	0	151	32	18	18	30	1.95
1501637--1502019	117	3.3	117	83	3	464	24	23	15	36	1.94
1501675--1502019	119	2.9	118	85	3	455	24	24	14	36	1.93
1503276--1503325	24	2.1	24	100	0	100	24	12	16	48	1.79
1504537--1504576	4	9.8	4	89	10	55	20	0	0	80	0.72
1504534--1504592	20	2.9	19	81	16	66	16	3	0	79	0.86
1504534--1504586	10	4.9	11	86	6	65	16	1	0	81	0.79
1504558--1504618	12	5.3	12	88	11	76	14	9	0	75	1.04
1504558--1504618	18	3.6	18	85	14	76	14	9	0	75	1.04
1506730--1506877	23	6.7	22	79	9	142	30	25	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506760--1506920	21	7.4	22	80	10	111	29	25	22	21	1.99
1506726--1506898	43	4.0	43	81	8	188	29	25	22	22	1.99
1507413--1507555	55	2.6	55	92	0	241	29	21	18	30	1.97
1522736--1522819	21	4.0	21	76	14	91	30	27	16	25	1.97
1522735--1522819	43	2.0	43	92	0	143	30	27	17	24	1.97
1523336--1523480	55	2.6	55	88	0	218	31	22	16	28	1.96
1525940--1525976	14	2.6	14	91	0	56	48	13	18	18	1.80
1530462--1530750	108	2.7	108	84	2	357	23	18	16	41	1.90
1530751--1530854	32	3.2	31	86	6	145	32	16	2	48	1.61
1532821--1532854	17	2.0	18	88	11	54	26	5	29	38	1.80
1534601--1534759	85	1.9	85	80	7	189	31	21	18	28	1.97
1542007--1542539	233	2.3	232	88	1	760	34	14	15	35	1.88
1542468--1542571	47	2.2	47	94	0	181	44	4	12	38	1.64
1542605--1542703	39	2.5	40	75	11	103	32	21	17	29	1.96
1543085--1543595	134	3.8	134	81	4	557	32	22	14	30	1.94
1544063--1544104	3	14.3	3	90	5	68	2	0	28	69	1.01
1546399--1546423	2	12.5	2	100	0	50	48	0	0	52	1.00
1547161--1547206	24	1.9	24	83	16	60	13	21	41	23	1.88
1547560--1547833	114	2.5	111	81	7	297	23	15	15	45	1.84
1547855--1547977	32	3.8	32	94	3	203	29	16	2	52	1.57
1548123--1548147	4	6.2	4	100	0	50	24	0	0	76	0.80
1548183--1548238	28	2.0	28	82	10	69	25	21	1	51	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549399--1549423	3	8.3	3	100	0	50	64	0	0	36	0.94
1551600--1551696	15	7.0	14	76	22	82	34	2	2	61	1.19
1551565--1551657	30	3.1	30	80	11	109	31	3	3	62	1.27
1551628--1551677	24	2.1	24	88	7	75	28	4	2	66	1.21
1552951--1553036	42	2.1	41	81	14	99	52	2	2	43	1.26
1554781--1554829	19	2.7	17	84	9	53	26	18	30	24	1.98
1554801--1555010	64	3.2	64	82	8	205	26	16	25	31	1.96
1554907--1554945	19	2.1	19	95	0	69	25	15	38	20	1.92
1554971--1555010	21	1.9	21	94	0	71	22	15	30	32	1.94
1557515--1557594	24	3.5	23	77	14	94	27	23	26	22	2.00
1557514--1557609	44	2.2	44	81	9	115	26	21	27	25	2.00
1563403--1563603	64	3.1	64	80	9	196	27	15	24	31	1.96
1563509--1563547	19	2.1	19	90	0	60	28	15	35	20	1.93
1563584--1563616	13	2.5	13	100	0	66	24	9	30	36	1.86
1563875--1564046	43	4.0	43	79	7	136	34	18	22	24	1.96
1563876--1564003	43	3.0	44	81	5	145	35	18	21	25	1.96
1563937--1564086	43	3.5	44	83	10	168	34	18	22	26	1.96
1566815--1566867	22	2.5	21	73	14	54	49	20	11	18	1.78
1567556--1567715	41	3.9	41	72	10	146	31	18	18	31	1.94
1567503--1567694	82	2.4	82	83	1	235	31	18	18	31	1.95
1572893--1573324	38	11.5	39	71	11	287	38	12	17	31	1.86
1572776--1573242	151	3.1	150	83	5	579	40	11	17	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572775--1573251	76	6.4	73	81	6	496	40	10	17	31	1.84
1572875--1573334	111	4.1	111	73	9	362	39	11	17	32	1.85
1575567--1575673	52	2.1	52	89	0	160	49	9	20	20	1.76
1578131--1578405	138	2.0	138	96	3	509	41	16	11	30	1.84
1579455--1579503	21	2.3	21	86	6	64	24	22	22	30	1.99
1584797--1584854	24	2.4	24	91	0	89	24	12	22	41	1.87
1592447--1592551	51	2.1	51	100	0	210	32	9	7	50	1.63
1592468--1592550	27	3.2	27	65	22	77	36	9	6	48	1.61
1596175--1596237	31	2.0	31	96	0	117	14	9	26	49	1.74
1598591--1598915	42	7.7	41	82	3	344	27	27	15	29	1.96
1598587--1598915	85	3.9	84	85	4	412	27	27	16	28	1.97
1598593--1598915	127	2.5	127	84	3	425	27	27	15	29	1.96
1606062--1606120	6	9.8	6	90	0	82	33	45	15	5	1.68
1608312--1608367	14	3.9	14	80	2	58	25	21	21	32	1.98
1611045--1611129	32	2.7	32	79	18	106	10	30	31	27	1.90
1611045--1611118	31	2.3	32	86	11	100	12	27	32	28	1.92
1611903--1611963	30	2.0	31	93	3	106	24	3	36	36	1.72
1617359--1617521	80	2.0	80	81	0	191	28	17	23	30	1.97
1618859--1618932	7	10.4	7	71	18	55	2	20	0	77	0.90
1618888--1618926	17	2.3	17	86	0	51	2	17	0	79	0.84
1618853--1618909	24	2.3	24	77	19	64	7	17	0	75	1.02
1628591--1628644	23	2.3	23	87	0	81	22	11	24	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632440--1632484	21	2.1	22	87	4	65	26	17	4	51	1.65
1632987--1633033	19	2.5	19	100	0	94	25	34	17	23	1.96
1635746--1635846	23	4.5	23	79	11	95	29	13	20	35	1.92
1635810--1635851	21	2.0	21	90	4	68	26	7	26	40	1.81
1640176--1640374	30	6.7	30	80	2	206	56	8	16	19	1.64
1640176--1640374	60	3.4	60	86	4	280	56	8	16	19	1.64
1640174--1640347	89	2.0	89	83	2	224	56	8	16	19	1.64
1640176--1640374	89	2.2	88	80	4	213	56	8	16	19	1.64
1641422--1641457	12	2.9	13	88	12	58	55	0	0	44	0.99
1641650--1642129	130	3.7	130	80	4	495	25	17	31	25	1.97
1642267--1642418	68	2.3	68	86	4	202	42	15	13	27	1.85
1642267--1642430	66	2.5	67	85	6	203	42	15	13	29	1.85
1642557--1642619	32	2.0	32	90	0	99	30	26	15	26	1.96
1645904--1645946	13	3.3	13	84	12	61	51	13	18	16	1.77
1645905--1645955	26	1.9	27	88	4	77	50	13	17	17	1.77
1647175--1647215	18	2.3	18	86	0	55	24	4	26	43	1.74
1647185--1647221	18	2.1	18	89	0	56	24	5	27	43	1.76
1648164--1648366	30	6.8	29	76	9	167	58	9	14	18	1.62
1648164--1648366	62	3.4	60	85	4	250	58	9	14	18	1.62
1648162--1648366	92	2.3	90	79	6	216	58	9	14	18	1.62
1649830--1649869	20	2.0	20	90	0	62	7	2	47	42	1.45
1650840--1650931	39	2.4	39	98	0	175	23	15	19	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652520--1652573	23	2.3	23	96	0	99	70	14	7	7	1.32
1659815--1659843	14	2.0	15	93	6	51	37	0	0	62	0.96
1660123--1660203	20	4.0	20	73	10	58	37	24	7	30	1.83
1660760--1660806	21	2.2	21	92	0	76	55	4	10	29	1.53
1660757--1660814	21	2.7	21	78	7	64	56	3	10	29	1.49
1662288--1662384	51	1.9	50	82	2	122	43	2	7	47	1.42
1662344--1662399	28	2.0	28	82	0	67	48	3	3	44	1.37
1662419--1662467	17	2.7	20	78	21	70	44	0	4	51	1.20
1662326--1662480	46	3.4	43	70	20	118	44	2	5	47	1.41
1663175--1663221	21	2.2	21	84	3	58	68	10	19	2	1.30

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20