genome.fa.s8736.2.7.7.80.10.50.1000.9.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: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2478687

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1494 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)
1514164--1514498	131	2.6	130	86	2	453	40	16	11	31	1.83
1514934--1514978	24	1.9	23	86	4	63	66	8	6	17	1.40
1515277--1515507	109	2.1	108	82	5	286	47	14	16	22	1.82
1516502--1516546	3	15.3	3	86	4	65	66	2	0	31	1.04
1518318--1518363	20	2.3	19	85	7	56	28	21	15	34	1.94
1518857--1518887	15	2.1	15	100	0	62	25	0	35	38	1.56
1520764--1520810	20	2.3	20	92	0	76	10	4	36	48	1.57
1520773--1520812	20	2.0	20	100	0	80	10	0	35	55	1.34
1521174--1521198	4	6.2	4	100	0	50	72	0	0	28	0.86
1521381--1521432	14	3.8	13	77	10	50	42	21	0	36	1.53
1521700--1521776	31	2.5	31	87	2	102	23	9	12	54	1.66
1522163--1522188	8	3.2	8	100	0	52	76	0	0	23	0.78
1528743--1528779	12	3.1	12	96	0	65	40	32	8	18	1.80
1530138--1530494	118	3.0	118	93	0	610	50	12	9	27	1.71
1531004--1531044	2	21.0	2	95	5	75	48	0	51	0	1.00
1532807--1532844	20	1.9	20	94	0	67	31	34	15	18	1.92
1532864--1532950	45	1.9	46	92	2	149	27	26	19	26	1.99
1532917--1532970	20	2.7	20	100	0	108	33	29	20	16	1.95
1538757--1538837	24	3.6	23	74	14	71	22	22	23	32	1.98
1547459--1547558	3	33.7	3	93	2	175	65	0	1	34	1.00
1547875--1548626	113	6.6	113	93	0	1234	29	18	13	38	1.90
1549242--1549587	84	4.1	84	91	1	541	36	21	13	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550695--1550759	17	3.7	17	80	13	78	3	18	0	78	0.88
1550688--1550752	24	2.7	24	81	11	80	3	18	0	78	0.88
1557949--1557980	15	2.2	15	94	5	57	43	3	6	46	1.44
1561288--1561350	28	2.2	28	81	10	76	65	6	3	25	1.32
1561288--1561364	28	2.7	27	77	15	68	64	5	2	27	1.27
1561323--1561367	18	2.4	19	82	10	58	64	2	2	31	1.18
1563518--1563621	3	34.7	3	92	0	172	64	0	1	33	1.05
1564340--1564373	16	2.1	16	100	0	68	23	5	20	50	1.70
1564696--1564741	21	2.0	21	84	12	56	67	8	17	6	1.39
1565233--1565311	5	15.4	5	83	11	74	20	2	1	75	0.98
1565233--1565311	26	3.0	25	78	12	88	20	2	1	75	0.98
1565238--1565305	21	3.3	20	78	13	75	19	2	1	76	0.99
1574710--1574759	25	2.0	26	88	11	77	56	0	2	42	1.11
1582319--1582421	44	2.3	44	91	3	163	30	23	19	27	1.98
1582903--1582937	14	2.6	14	95	4	63	37	14	5	42	1.69
1584421--1584447	2	13.5	2	100	0	54	48	0	0	51	1.00
1584701--1584772	36	2.0	36	100	0	144	47	2	25	25	1.65
1586832--1587056	119	1.9	119	85	0	315	33	17	20	28	1.96
1588777--1588830	2	27.5	2	92	3	92	48	1	0	50	1.11
1588777--1588841	10	6.6	10	89	3	69	46	3	0	50	1.17
1590655--1590744	23	3.9	23	82	5	119	31	24	20	24	1.98
1596903--1596935	3	11.3	3	93	6	59	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604522--1604570	23	2.2	22	85	3	62	28	6	0	65	1.16
1605132--1605156	12	2.1	12	100	0	50	44	8	8	40	1.63
1606417--1606455	20	2.0	20	89	0	60	33	0	20	46	1.51
1607327--1607485	81	2.0	81	91	0	255	25	15	20	38	1.92
1607327--1607451	39	3.1	39	75	6	142	24	14	18	43	1.87
1607348--1607485	41	3.4	41	77	10	156	24	16	21	36	1.94
1609318--1609434	44	2.7	44	85	1	164	29	18	19	31	1.96
1609298--1609424	43	3.0	43	84	2	175	33	18	19	29	1.95
1610076--1610144	28	2.4	29	83	9	88	28	17	23	30	1.97
1610379--1610723	172	2.0	172	99	0	681	31	11	15	41	1.82
1611148--1611180	16	2.0	17	88	5	50	39	0	12	48	1.40
1614719--1614774	21	2.6	22	77	8	71	21	23	19	35	1.96
1623201--1623254	26	2.1	26	96	0	99	27	11	20	40	1.86
1624847--1624885	20	2.0	20	100	0	78	35	0	20	43	1.52
1637530--1637563	16	2.1	16	100	0	68	64	0	0	35	0.94
1637525--1637563	16	2.6	14	85	14	60	56	0	0	43	0.99
1638666--1638698	14	2.4	14	94	0	57	51	3	0	45	1.16
1646612--1646705	47	2.0	47	100	0	188	29	4	42	23	1.73
1646627--1646702	25	3.2	25	64	17	70	28	3	42	25	1.73
1656320--1656384	31	2.1	30	88	2	94	33	12	6	47	1.66
1658578--1658611	17	2.0	17	94	0	59	23	14	11	50	1.76
1658709--1658733	13	1.9	13	100	0	50	24	16	4	56	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659735--1659768	2	17.5	2	93	6	61	50	0	0	50	1.00
1659921--1659960	2	20.0	2	100	0	80	50	0	0	50	1.00
1663705--1663780	10	7.5	10	74	24	70	81	0	17	1	0.76
1663705--1663769	10	6.9	9	86	10	78	83	0	16	0	0.66
1663705--1663764	18	3.2	18	88	11	86	83	0	16	0	0.65
1663712--1663780	17	4.1	17	75	16	63	81	0	17	1	0.77
1666031--1666186	54	2.9	54	88	0	231	35	14	23	26	1.94
1666551--1666616	20	3.2	20	87	8	96	33	16	10	39	1.83
1666551--1666627	22	3.6	22	89	3	104	35	14	11	38	1.82
1667315--1667575	73	3.6	73	94	0	441	33	14	11	40	1.83
1667583--1667837	39	6.5	39	89	0	348	40	11	25	21	1.87
1667583--1667837	117	2.2	117	89	0	384	40	11	25	21	1.87
1667779--1668202	120	3.5	120	87	3	557	40	15	18	25	1.90
1669682--1669718	2	19.0	2	94	5	67	51	0	0	48	1.00
1673730--1673845	46	2.6	44	81	12	139	31	19	9	39	1.84
1674276--1674416	67	2.1	67	94	3	257	39	15	17	27	1.90
1675640--1675736	49	2.0	49	97	0	185	41	24	6	27	1.79
1676135--1676303	84	2.0	84	100	0	338	26	16	18	38	1.92
1676771--1676826	27	2.1	27	100	0	112	35	10	23	30	1.89
1683479--1683539	30	2.0	30	100	0	122	29	19	19	31	1.97
1691645--1691688	3	14.3	3	85	4	61	61	2	0	36	1.09
1691891--1692246	133	2.7	133	84	1	464	23	17	32	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692271--1692334	28	2.3	28	89	5	94	48	12	12	26	1.76
1692471--1692541	32	2.1	34	82	5	83	35	9	14	40	1.79
1692572--1692693	65	1.9	65	91	3	201	44	14	7	33	1.73
1692776--1692841	31	2.1	31	83	10	82	39	12	15	33	1.84
1692994--1693118	63	2.0	62	80	8	141	43	13	12	31	1.81
1693219--1693292	36	2.1	35	87	7	105	36	10	18	33	1.86
1693224--1693317	36	2.6	36	79	12	104	34	13	20	31	1.92
1693259--1693503	107	2.3	104	80	8	275	39	11	17	31	1.86
1693514--1693645	48	2.7	48	69	18	110	40	9	13	35	1.78
1694649--1694693	11	4.2	11	85	5	56	0	15	4	80	0.87
1694658--1694707	5	10.0	5	78	8	57	0	16	4	80	0.87
1694644--1694686	21	2.0	22	86	9	61	0	13	6	79	0.93
1694644--1694694	22	2.3	22	83	10	59	0	13	5	80	0.89
1695150--1695200	25	2.0	24	88	7	75	17	31	13	37	1.89
1698641--1698677	8	4.9	8	83	12	51	83	2	0	13	0.74
1698643--1698676	14	2.4	14	95	5	59	85	2	0	11	0.71
1700632--1700663	15	2.1	15	94	0	55	84	0	0	15	0.63
1700631--1700666	18	2.0	18	88	0	54	83	0	0	16	0.65
1700635--1700660	12	2.2	12	100	0	52	84	0	0	15	0.62
1710299--1710340	21	2.0	21	81	9	50	40	7	19	33	1.78
1712025--1712082	24	2.4	24	77	13	64	10	29	36	24	1.88
1712357--1712395	20	2.0	20	89	0	60	33	23	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724298--1724396	3	33.7	3	87	4	148	34	4	0	61	1.15
1725887--1725964	42	1.9	40	82	15	97	47	0	5	47	1.24
1727879--1727920	15	3.0	14	83	10	50	19	19	7	54	1.66
1731233--1731275	8	5.4	8	83	10	52	81	0	18	0	0.69
1731233--1731274	16	2.7	16	82	17	61	80	0	19	0	0.70
1733612--1733925	113	2.8	113	91	1	477	33	14	19	33	1.92
1736054--1736133	40	2.0	40	95	0	142	33	16	21	28	1.95
1736518--1736572	22	2.5	22	90	0	92	34	12	14	38	1.84
1736973--1738301	113	11.7	114	88	4	1693	37	14	18	29	1.90
1738441--1738526	3	28.7	3	90	4	138	33	2	0	63	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13