genome.fa.s7844.2.7.7.80.10.50.1000.5.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: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2094103

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 732 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)
1439166--1439294	32	3.9	32	76	14	120	50	9	0	39	1.40
1440563--1440601	21	1.9	20	89	5	60	74	5	0	20	1.01
1465122--1465278	72	2.2	72	86	6	212	32	13	17	36	1.89
1471835--1472050	108	2.0	108	94	0	378	33	24	13	29	1.93
1473533--1473566	17	2.0	17	88	0	50	29	11	26	32	1.92
1480324--1480374	6	8.5	6	100	0	102	17	0	17	64	1.29
1485328--1485419	26	3.5	26	95	0	166	20	14	32	32	1.92
1486466--1486567	31	3.4	31	82	8	120	44	3	7	44	1.51
1486638--1486673	16	2.2	16	90	0	54	44	25	11	19	1.83
1489640--1490014	184	2.0	183	93	2	644	42	2	9	46	1.47
1498989--1499147	87	1.8	86	98	1	309	40	14	11	33	1.82
1500048--1500103	24	2.3	25	81	12	71	37	5	0	57	1.22
1501588--1501656	29	2.4	29	85	7	97	50	1	0	47	1.09
1502992--1503027	6	6.0	6	86	0	54	44	0	16	38	1.48
1502992--1503027	18	2.0	18	100	0	72	44	0	16	38	1.48
1504468--1504624	60	2.6	60	79	8	151	40	5	20	33	1.76
1503998--1504656	325	2.0	326	97	1	1259	39	9	14	36	1.78
1504464--1504650	60	3.1	60	76	9	141	41	5	18	33	1.75
1506719--1507049	87	3.8	87	87	1	468	43	11	12	32	1.77
1506912--1506961	23	2.2	23	85	0	64	38	8	18	36	1.80
1506921--1506968	23	2.1	23	88	0	69	39	6	18	35	1.76
1506735--1507350	174	3.4	174	82	10	757	43	10	11	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506921--1507159	110	2.2	110	89	0	379	42	10	13	34	1.78
1507008--1507072	23	2.8	23	97	0	121	38	10	12	38	1.78
1506843--1507255	197	2.1	197	95	0	745	44	10	11	34	1.74
1507031--1507350	87	3.7	87	86	1	437	43	10	11	34	1.76
1507109--1507158	23	2.2	23	85	0	64	38	8	18	36	1.80
1507118--1507165	23	2.1	23	88	0	69	39	6	18	35	1.76
1507283--1507331	23	2.1	23	84	0	62	34	12	16	36	1.86
1507866--1507911	24	1.9	24	91	8	76	54	4	0	41	1.20
1508262--1508349	30	2.9	30	79	14	85	47	1	1	50	1.16
1508397--1508461	24	2.8	24	97	2	123	44	0	3	52	1.16
1508659--1508697	12	3.6	12	74	25	50	69	20	0	10	1.17
1516306--1516382	37	2.1	37	85	4	102	33	11	22	32	1.90
1523074--1523118	18	2.4	19	82	17	58	35	0	6	57	1.25
1524611--1524635	3	8.3	3	100	0	50	32	0	0	68	0.90
1530061--1530098	16	2.4	16	86	8	51	26	5	2	65	1.27
1549453--1549507	21	2.6	21	82	0	65	20	20	27	32	1.97
1549499--1549654	21	7.4	21	70	16	126	24	17	19	38	1.93
1549483--1549661	42	4.3	42	93	0	286	25	18	20	36	1.95
1551429--1551471	22	2.0	22	100	0	86	9	23	48	18	1.76
1551470--1551566	19	5.1	19	81	10	117	27	30	25	15	1.96
1551468--1551565	9	10.3	9	75	11	72	27	30	27	14	1.95
1551481--1551585	29	3.6	28	83	6	111	31	28	24	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568030--1568063	17	2.0	17	88	11	52	38	5	11	44	1.65
1570343--1570434	26	3.5	26	92	0	139	52	3	9	34	1.51
1573442--1573490	23	2.1	23	84	0	62	34	22	8	34	1.84
1580238--1580283	15	3.1	15	81	12	67	8	15	23	52	1.70
1580235--1580293	30	2.0	30	86	0	82	10	16	25	47	1.78
1581742--1581778	18	2.1	18	100	0	74	27	10	16	45	1.80
1581937--1581963	13	2.1	13	100	0	54	29	0	0	70	0.88
1585219--1585259	21	2.0	21	90	9	66	39	29	2	29	1.70
1586022--1586656	221	2.9	222	91	2	1008	36	14	16	32	1.89
1588160--1588202	19	2.3	19	84	11	54	27	2	2	67	1.15
1588148--1588310	78	2.0	80	95	3	294	27	3	6	63	1.33
1596096--1596148	27	2.0	27	92	0	88	43	1	9	45	1.47
1597054--1597187	67	2.0	66	89	4	207	37	10	20	31	1.87
1598606--1598652	24	2.0	24	100	0	94	34	29	14	21	1.93
1598604--1598656	24	2.4	21	82	17	79	35	30	15	18	1.92
1598637--1598701	33	2.0	33	90	0	103	38	30	9	21	1.85
1598829--1598876	15	3.1	16	76	11	64	10	12	25	52	1.71
1598829--1598887	30	2.0	30	82	0	73	10	15	25	49	1.76
1600394--1600430	18	2.1	18	100	0	74	27	10	16	45	1.80
1600589--1600615	13	2.1	13	100	0	54	29	0	0	70	0.88
1605994--1606102	36	3.0	36	100	0	218	38	19	9	33	1.83
1607194--1607242	20	2.5	20	77	9	55	67	4	0	28	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608953--1608998	23	2.0	23	87	8	67	36	0	17	45	1.49
1609139--1609167	6	4.8	6	100	0	58	17	17	65	0	1.27
1617414--1617453	12	3.4	12	89	3	64	67	0	7	25	1.16
1617949--1617996	22	2.3	20	86	13	62	41	0	0	58	0.98
1618060--1618096	17	2.2	17	90	4	58	54	0	5	40	1.24
1618196--1618237	17	2.5	17	88	7	59	45	2	4	47	1.36
1619156--1619200	14	3.5	13	77	22	51	15	13	11	60	1.60
1619164--1619210	10	4.3	10	80	19	58	17	12	10	59	1.60
1619147--1619211	24	2.6	24	92	4	103	16	12	13	56	1.66
1619239--1619305	29	2.3	29	100	0	134	32	2	22	41	1.69
1619503--1619603	10	10.1	10	73	16	84	10	8	19	60	1.56
1619495--1619596	23	4.4	23	73	16	93	9	7	21	60	1.53
1619486--1619567	33	2.5	32	88	2	110	8	7	20	63	1.47
1619510--1619603	47	2.0	46	89	2	143	11	8	19	60	1.56
1623244--1623470	41	5.5	41	95	0	418	15	20	24	39	1.91
1624053--1624299	6	37.8	6	83	13	271	0	20	44	35	1.55
1624060--1624299	20	12.5	20	84	12	303	0	20	43	35	1.55
1624060--1624294	26	8.9	25	85	11	246	0	20	43	35	1.55
1624055--1624297	88	2.8	85	87	10	354	0	20	44	34	1.55
1624088--1624297	26	8.5	26	87	10	277	0	20	43	35	1.56
1624054--1624299	94	2.7	90	84	13	308	0	20	43	35	1.55
1624370--1624492	63	2.0	62	91	6	203	37	24	20	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624443--1624556	20	5.6	20	67	19	74	40	23	22	13	1.89
1624421--1624581	41	3.9	42	91	4	249	38	24	21	15	1.92
1624592--1624637	19	2.3	20	81	7	58	23	17	30	28	1.97
1625143--1625210	23	3.0	23	80	4	84	61	11	8	17	1.54
1633066--1633118	18	3.1	18	75	20	51	62	1	0	35	1.06
1638096--1638146	24	2.1	24	100	0	102	23	11	29	35	1.90
1645692--1645718	13	2.1	13	100	0	54	29	0	0	70	0.88
1650179--1650439	129	2.0	129	99	0	513	28	17	19	34	1.95
1656439--1656482	22	2.0	22	81	0	52	36	27	2	34	1.70
1657531--1657568	2	19.0	2	100	0	76	50	0	50	0	1.00
1663716--1663786	31	2.3	31	90	2	117	42	4	12	40	1.62
1667764--1667794	2	15.5	2	100	0	62	51	0	0	48	1.00
1668448--1668504	28	2.0	28	83	6	71	35	22	14	28	1.93
1674040--1674996	441	2.2	439	84	3	1216	28	16	17	37	1.92
1676586--1676632	19	2.5	19	83	10	62	27	17	29	25	1.97
1676539--1676683	64	2.3	63	83	11	179	29	16	26	27	1.97
1679264--1679344	24	3.6	23	75	14	87	29	20	25	23	1.99
1679242--1679364	44	2.8	42	77	8	120	25	19	28	26	1.99
1683156--1683195	21	1.9	21	85	10	55	35	10	2	52	1.48
1685125--1685171	19	2.6	17	86	10	58	31	19	23	25	1.98
1685140--1685286	64	2.3	63	83	10	174	30	15	25	27	1.96
1685683--1685877	105	1.8	105	83	1	255	29	19	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685818--1686825	332	3.0	333	91	1	1646	27	18	17	35	1.94
1688402--1688549	60	2.5	60	82	4	165	29	22	4	43	1.73
1688888--1688961	37	2.1	35	87	10	105	35	4	6	54	1.46
1692738--1692913	89	2.0	89	95	0	316	37	6	13	42	1.70
1697698--1697746	20	2.5	20	78	15	57	42	6	22	28	1.77
1697903--1697968	34	1.9	35	82	11	84	50	3	0	46	1.16
1701135--1701208	31	2.4	31	88	0	103	39	0	12	48	1.41
1701180--1701239	28	2.2	28	85	5	79	46	1	3	48	1.28
1717128--1717177	26	1.9	26	83	0	64	30	10	20	40	1.85
1732695--1732819	42	2.9	42	85	2	160	27	24	21	27	1.99

Tables:   1   2   3   4   5   6   7