genome.fa.s8162.2.7.7.80.10.50.1000.7.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  7  of  16  ( 1865 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)
1483305--1483543	55	4.3	55	80	6	184	32	22	15	29	1.95
1483391--1483599	55	3.9	55	80	10	191	32	25	14	27	1.95
1483305--1483585	110	2.6	109	77	5	253	31	23	15	29	1.95
1483894--1483928	17	2.1	17	89	10	54	28	25	2	42	1.69
1484938--1484990	6	8.2	6	76	15	52	5	15	1	77	1.04
1484938--1485095	12	11.7	14	67	21	63	7	19	0	72	1.13
1484938--1484990	26	2.1	25	89	3	79	5	15	1	77	1.04
1485002--1485130	14	8.3	16	75	18	98	8	16	0	75	1.04
1485018--1485147	9	15.1	9	71	21	50	8	16	0	75	1.03
1484968--1485056	40	2.3	37	80	14	92	8	20	0	70	1.13
1485018--1485147	59	2.2	58	84	8	163	8	16	0	75	1.03
1484955--1485137	50	3.7	50	84	9	182	7	18	0	73	1.09
1484969--1485147	59	3.0	58	77	17	158	8	17	0	73	1.07
1485045--1485147	20	5.1	20	74	20	83	7	14	0	77	0.97
1485062--1485140	42	1.9	42	85	12	110	7	12	0	79	0.92
1486876--1486925	24	2.1	24	85	7	66	24	2	14	60	1.45
1487398--1487431	17	2.1	16	88	5	50	14	8	0	76	1.01
1497126--1497175	24	2.1	24	85	7	66	26	2	12	60	1.43
1497650--1497683	17	2.1	16	88	5	50	14	8	0	76	1.01
1506312--1506417	45	2.3	47	85	6	135	40	17	9	32	1.82
1508316--1508358	18	2.3	18	88	8	59	51	23	0	25	1.49
1511011--1511107	21	4.6	21	76	0	68	31	15	13	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513126--1513182	23	2.5	23	82	0	78	28	19	17	35	1.94
1513980--1514036	3	19.0	3	89	7	80	38	0	0	61	0.96
1513972--1514034	18	3.4	18	79	14	74	36	0	0	63	0.95
1513972--1514036	21	3.1	21	82	10	89	36	0	0	63	0.95
1515639--1515671	11	2.8	12	86	9	50	45	0	0	54	0.99
1526884--1527004	28	4.4	28	83	12	117	80	0	17	1	0.85
1526880--1527008	43	2.8	45	78	18	142	79	0	18	1	0.87
1526880--1526988	56	1.9	56	87	7	159	79	0	17	1	0.87
1526899--1527007	25	4.2	27	70	18	81	80	0	17	0	0.81
1526893--1527006	46	2.5	46	81	16	139	79	0	18	0	0.83
1527338--1527377	20	1.9	22	90	10	66	30	12	2	55	1.50
1527687--1528138	114	4.0	114	94	0	742	33	15	19	31	1.93
1528828--1529386	113	4.9	113	84	5	698	37	15	19	28	1.92
1528823--1529385	228	2.5	223	88	4	792	37	15	19	28	1.91
1528823--1529385	225	2.5	222	87	4	774	37	15	19	28	1.91
1529732--1529788	3	19.0	3	89	7	89	36	0	0	63	0.95
1529724--1529788	21	3.1	21	87	10	98	35	0	0	64	0.94
1531380--1531412	11	2.8	12	86	9	50	45	0	0	54	0.99
1533482--1533607	14	9.0	14	68	6	76	45	26	0	28	1.54
1533561--1533607	7	6.7	7	85	9	69	44	25	0	29	1.54
1533498--1533599	28	3.6	29	92	2	138	47	23	0	29	1.52
1533568--1533612	21	2.1	21	95	0	81	44	24	0	31	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533857--1533897	14	3.1	14	76	20	52	41	0	4	53	1.22
1535468--1535543	38	2.0	38	85	7	102	55	0	0	44	0.99
1537034--1537081	15	3.3	15	85	2	62	37	8	14	39	1.76
1540816--1540841	3	8.7	3	100	0	52	65	0	0	34	0.93
1543073--1543097	2	12.5	2	100	0	50	52	0	0	48	1.00
1543401--1543437	15	2.6	14	91	8	65	59	0	0	40	0.97
1544478--1544515	15	2.4	17	86	8	53	39	0	2	57	1.12
1545157--1545233	37	2.1	37	85	4	102	48	1	3	46	1.28
1546371--1546406	18	2.0	18	88	0	54	13	0	69	16	1.19
1547711--1547765	25	2.2	25	77	6	58	65	1	1	30	1.13
1547724--1547764	8	5.0	8	85	5	55	73	0	0	26	0.84
1549341--1549946	82	7.4	82	85	1	757	25	18	21	35	1.95
1549341--1549940	247	2.4	246	86	1	826	25	18	21	35	1.95
1549913--1550744	90	9.4	90	82	4	906	29	21	18	31	1.97
1549913--1550587	269	2.5	269	86	1	931	28	21	18	31	1.97
1550824--1551363	62	8.6	62	85	4	665	34	15	23	27	1.94
1550887--1551363	253	1.9	252	89	1	740	34	15	23	27	1.94
1571914--1572355	133	3.3	132	82	3	521	28	16	23	31	1.97
1601987--1602030	20	2.3	19	84	4	52	43	20	0	36	1.52
1612242--1612328	3	27.0	3	73	15	59	57	3	2	36	1.28
1612242--1612328	16	5.4	16	82	8	104	57	3	2	36	1.28
1612242--1612328	13	6.8	12	71	16	59	57	3	2	36	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616745--1616778	2	17.0	2	100	0	68	50	0	0	50	1.00
1617045--1617762	54	13.3	54	89	2	950	20	24	19	34	1.96
1619048--1619110	9	7.1	9	74	15	51	3	12	1	82	0.86
1619056--1619105	23	2.1	23	88	3	73	2	12	2	84	0.80
1632105--1632146	3	14.0	3	85	9	59	64	0	0	35	0.94
1660390--1660489	48	2.1	48	86	0	137	26	7	21	46	1.76
1665360--1665422	28	2.2	28	97	0	117	33	19	9	38	1.84
1672289--1673536	625	2.0	623	96	0	2271	32	15	19	32	1.94
1675357--1675457	32	3.2	32	84	5	132	33	14	19	31	1.93
1676665--1676751	32	2.7	33	85	3	131	43	31	9	16	1.79
1679318--1679482	73	2.3	73	84	4	208	38	11	6	43	1.67
1679523--1679685	77	2.1	77	86	0	218	39	15	12	32	1.85
1679518--1680309	263	3.0	263	81	5	903	34	15	10	39	1.82
1681028--1681081	26	2.0	28	85	7	76	42	0	18	38	1.50
1681059--1685937	4	1235.8	4	95	3	8925	25	0	24	49	1.52
1681099--1681161	19	3.2	19	82	15	74	30	1	17	50	1.55
1681096--1681153	15	3.9	15	78	10	66	29	1	18	50	1.57
1686008--1686084	36	2.1	38	82	7	95	44	15	3	36	1.65
1686066--1686106	11	3.5	11	90	6	55	41	17	7	34	1.77
1686057--1686139	43	1.9	43	80	9	98	39	19	6	34	1.76
1686243--1686975	285	2.6	284	81	5	813	31	13	6	48	1.69
1696983--1697016	17	2.0	17	94	0	59	47	5	2	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697383--1697440	2	29.0	2	100	0	116	50	0	0	50	1.00
1697478--1698118	81	7.9	81	88	1	919	30	22	12	34	1.92
1698279--1698524	57	4.4	57	93	5	439	36	17	9	35	1.83
1701464--1701510	21	2.2	21	84	3	58	27	14	21	36	1.93
1701512--1701560	23	2.1	23	92	0	80	22	14	28	34	1.93
1708399--1708449	22	2.4	21	86	3	66	19	11	27	41	1.86
1708412--1708477	22	3.0	22	80	13	64	22	13	27	36	1.92
1708443--1708495	23	2.3	23	93	0	88	22	18	28	30	1.98
1711469--1711530	22	2.8	22	90	0	106	29	17	11	41	1.84
1715327--1715365	18	2.2	18	86	9	53	10	5	15	69	1.34
1720634--1720800	43	3.8	43	88	4	226	40	8	18	31	1.82
1721196--1721235	21	1.9	21	94	0	71	25	22	25	27	2.00
1727770--1727809	21	1.9	21	84	0	53	37	17	20	25	1.94
1735227--1735318	38	2.4	39	92	7	161	41	14	15	29	1.86
1735304--1735364	27	2.5	24	86	10	79	36	16	18	29	1.92
1735440--1735491	28	1.9	27	85	14	72	32	19	7	40	1.80
1737058--1737141	3	27.7	3	83	11	109	34	0	0	65	0.93
1737058--1737129	24	3.0	24	93	2	126	31	0	0	68	0.90
1738487--1738519	3	11.0	3	93	0	57	33	3	0	63	1.10
1738711--1738753	20	2.2	20	86	0	59	32	0	2	65	1.06
1742637--1742668	15	2.1	15	94	0	55	25	18	9	46	1.79
1749974--1750048	16	4.6	15	79	15	69	77	0	21	1	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749975--1750055	13	6.2	12	76	18	65	77	0	20	1	0.83
1749986--1750035	19	2.8	18	88	8	75	82	0	18	0	0.68
1749985--1750058	26	2.8	26	84	10	96	78	0	21	0	0.75
1749974--1750057	34	2.5	31	81	18	91	77	0	21	1	0.84
1750278--1751144	224	3.9	222	86	7	1216	38	12	18	30	1.89
1750820--1751535	123	5.9	123	80	9	778	41	14	17	26	1.88
1750486--1751510	236	4.4	234	83	7	1148	39	13	17	28	1.88
1751734--1751807	3	24.7	3	86	5	105	35	0	0	64	0.94
1753364--1753406	20	2.2	20	86	0	59	30	0	4	65	1.13
1758798--1758848	14	3.6	15	87	12	65	27	0	31	41	1.56

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