genome.fa.s8876.2.7.7.80.10.50.1000.6.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: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1683876

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 708 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)
1387247--1387290	16	2.8	15	80	10	52	84	0	6	9	0.79
1388301--1389078	53	14.7	55	75	12	288	29	16	27	26	1.97
1388460--1388667	51	4.1	50	78	6	182	32	19	26	21	1.97
1388688--1389078	108	3.6	108	87	2	522	28	14	29	28	1.95
1388688--1389075	161	2.4	161	96	1	715	28	14	29	28	1.95
1389758--1389800	17	2.5	17	92	0	77	16	46	23	13	1.83
1391271--1391295	13	1.9	13	100	0	50	16	4	0	80	0.87
1401538--1401598	19	3.3	19	70	25	67	47	8	4	39	1.55
1401550--1401607	16	3.4	16	70	25	55	41	13	5	39	1.67
1401538--1401611	36	2.1	36	100	0	148	45	10	5	37	1.62
1403293--1403336	17	2.6	18	82	10	56	43	0	2	54	1.12
1404252--1404355	34	3.2	33	74	20	121	55	18	7	18	1.65
1404278--1404371	28	3.1	28	72	21	100	57	15	10	15	1.65
1404252--1404371	62	1.9	62	98	0	231	55	17	9	17	1.67
1405296--1405329	14	2.5	13	86	13	50	82	0	2	14	0.79
1407382--1407450	23	3.0	23	84	0	93	26	24	27	21	1.99
1407872--1407905	17	2.0	17	88	0	50	29	11	8	50	1.69
1407881--1407913	17	2.1	17	88	11	52	27	12	3	57	1.49
1408290--1408327	18	2.1	18	90	0	58	18	26	18	36	1.94
1419924--1419981	28	2.0	29	96	3	109	24	10	22	43	1.84
1423077--1423123	21	2.3	21	79	13	55	40	14	6	38	1.72
1440291--1440347	26	2.2	26	87	6	80	29	28	5	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446700--1446724	2	12.5	2	100	0	50	52	0	0	48	1.00
1450365--1450421	29	2.0	29	89	0	87	17	35	26	21	1.95
1450491--1450523	14	2.4	14	94	0	57	6	30	39	24	1.79
1451338--1451365	2	14.0	2	100	0	56	50	0	0	50	1.00
1451445--1451475	10	3.1	10	95	0	53	67	0	9	22	1.19
1455138--1455197	24	2.5	24	94	2	104	25	25	13	36	1.92
1455138--1455197	12	5.1	12	75	18	63	25	25	13	36	1.92
1455339--1455412	23	3.2	23	82	0	94	40	17	14	27	1.89
1459729--1460457	362	2.0	365	97	2	1387	30	13	15	41	1.85
1471045--1471089	20	2.2	20	96	0	81	55	0	20	24	1.43
1473061--1473224	60	2.7	60	80	5	179	41	4	21	32	1.72
1474405--1474436	16	2.0	16	100	0	64	62	0	0	37	0.95
1474407--1474442	16	2.3	16	90	4	56	61	0	2	36	1.11
1474489--1474548	17	3.5	17	80	8	61	28	1	3	66	1.17
1505238--1505775	277	1.9	277	97	0	1013	40	9	10	38	1.73
1512967--1513008	2	21.0	2	100	0	84	50	0	0	50	1.00
1512999--1513050	22	2.5	19	79	14	59	55	3	3	36	1.36
1513316--1513517	110	1.8	110	94	0	359	31	19	14	34	1.92
1516353--1516451	33	3.1	32	85	5	139	38	10	10	41	1.73
1516353--1516451	32	3.1	31	85	8	137	38	10	10	41	1.73
1518178--1518202	13	1.9	13	100	0	50	40	8	0	52	1.31
1520854--1520912	25	2.4	25	94	0	109	57	0	6	35	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520992--1521025	17	2.0	17	100	0	68	41	5	17	35	1.74
1525652--1525677	12	2.2	12	100	0	52	38	19	26	15	1.91
1531116--1531151	18	2.0	18	94	0	63	13	33	22	30	1.93
1533280--1533438	57	2.8	57	92	5	263	23	20	20	35	1.96
1535913--1536014	30	3.4	30	98	0	195	51	14	7	25	1.69
1545099--1545136	17	2.1	19	85	9	53	42	0	7	50	1.31
1546282--1546312	2	15.5	2	100	0	62	48	0	0	51	1.00
1551002--1551033	2	16.0	2	100	0	64	50	0	0	50	1.00
1552856--1552909	17	3.0	18	81	8	56	29	0	3	66	1.09
1552869--1552911	20	2.2	19	88	12	61	25	0	2	72	0.97
1552869--1552911	18	2.3	19	88	8	61	25	0	2	72	0.97
1552869--1552911	10	4.5	10	80	11	54	25	0	2	72	0.97
1562998--1563099	46	2.2	46	80	3	125	39	17	17	25	1.92
1563195--1563276	32	2.6	32	88	1	121	23	6	12	58	1.56
1564399--1564424	2	13.0	2	100	0	52	50	0	0	50	1.00
1564440--1564770	170	1.9	170	92	0	554	35	11	10	41	1.76
1575438--1575476	16	2.4	16	91	0	60	48	17	17	15	1.81
1577017--1577043	13	2.1	13	100	0	54	29	14	33	22	1.94
1581267--1581304	17	2.2	17	86	9	51	65	2	5	26	1.27
1588374--1588419	22	2.0	22	83	8	56	56	8	0	34	1.30
1595111--1595356	122	2.0	122	100	0	492	24	19	26	28	1.99
1595959--1596016	28	2.1	28	100	0	116	39	10	17	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602595--1602625	2	15.5	2	100	0	62	51	0	0	48	1.00
1605755--1605815	13	4.3	13	71	18	50	19	44	19	16	1.87
1605751--1605808	18	3.5	18	71	22	63	18	48	18	13	1.81
1608136--1608214	24	3.5	23	79	10	92	27	16	20	35	1.94
1608136--1608203	19	3.3	19	70	21	64	27	16	20	35	1.94
1610713--1610757	15	3.0	15	93	0	72	40	26	15	17	1.90
1610959--1611028	21	3.3	21	87	0	113	14	42	21	21	1.88
1611592--1611967	192	2.0	190	91	1	610	35	15	11	38	1.83
1614545--1614633	45	2.0	44	97	2	169	35	11	22	30	1.89
1615503--1616072	189	3.0	189	95	1	1014	35	16	10	38	1.82
1621093--1621176	37	2.3	37	78	14	93	54	2	3	39	1.31
1628542--1628571	15	2.0	15	100	0	60	26	6	13	53	1.64
1629758--1629818	27	2.3	27	82	0	77	54	24	4	16	1.62
1629968--1630050	21	4.0	21	95	0	148	24	39	24	12	1.89
1630042--1630110	21	3.3	21	86	9	79	27	26	28	17	1.97
1629965--1630079	42	2.7	41	85	5	133	25	37	23	13	1.92
1630058--1630121	21	3.0	21	86	8	78	23	29	28	18	1.98
1630161--1630221	21	2.9	21	77	0	59	37	31	19	11	1.87
1635362--1635433	21	3.4	21	90	0	108	18	38	22	20	1.93
1637584--1637620	19	2.1	18	90	10	58	27	16	0	56	1.40
1642403--1642451	22	2.1	23	82	14	57	48	6	0	44	1.27
1646409--1646469	27	2.3	27	82	0	77	54	24	4	16	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646617--1646773	42	3.7	42	82	5	140	25	35	24	14	1.93
1646617--1646731	21	5.5	21	89	0	158	25	38	23	13	1.91
1646705--1646773	21	3.3	21	88	8	88	24	31	24	18	1.98
1646813--1646873	21	2.9	21	82	0	68	37	32	19	9	1.85
1652048--1652119	21	3.4	21	92	0	117	16	38	22	22	1.93
1654284--1654320	19	2.1	18	90	10	58	27	16	0	56	1.40
1659145--1659193	22	2.1	23	82	14	57	48	6	0	44	1.27
1663156--1663216	27	2.3	27	82	0	77	54	24	4	16	1.62
1663363--1663519	42	3.7	42	82	5	140	25	35	24	14	1.93
1663363--1663477	21	5.5	21	89	0	158	25	38	23	13	1.91
1663451--1663519	21	3.3	21	88	8	88	24	31	24	18	1.98
1663559--1663619	21	2.9	21	82	0	68	37	32	19	9	1.85
1668794--1668865	21	3.4	21	92	0	117	16	38	22	22	1.93
1671027--1671063	19	2.1	18	90	10	58	27	16	0	56	1.40
1675874--1675922	22	2.1	23	82	14	57	48	6	0	44	1.27
1679855--1679916	27	2.3	27	85	0	79	54	24	4	16	1.61
1680061--1680217	42	3.7	42	82	5	140	25	35	24	14	1.93
1680061--1680175	21	5.5	21	89	0	158	25	38	23	13	1.91
1680149--1680217	21	3.3	21	88	8	88	24	31	24	18	1.98
1680257--1680317	21	2.9	21	82	0	68	37	32	19	9	1.85

Tables:   1   2   3   4   5   6

The End!