genome.fa.s7823.2.7.7.80.10.50.1000.9.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  9  of  33  ( 3920 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)
1566404--1566435	15	2.1	15	94	0	55	21	15	12	50	1.77
1569028--1569061	16	2.1	17	88	5	52	32	8	0	58	1.29
1569318--1569373	20	2.8	20	97	0	103	33	8	21	35	1.85
1575343--1575612	135	2.0	135	100	0	540	34	22	19	22	1.96
1576045--1576140	47	2.0	47	100	0	192	29	12	19	38	1.89
1581975--1582025	2	25.5	2	100	0	102	0	50	0	49	1.00
1582241--1582287	21	2.3	20	78	10	51	23	2	12	61	1.42
1582544--1582705	59	2.7	59	85	4	193	21	14	6	57	1.60
1582567--1582705	30	4.6	31	70	14	112	22	13	5	58	1.57
1582680--1582736	30	1.9	30	85	0	78	19	15	7	57	1.60
1582916--1582960	22	2.1	21	87	4	63	26	0	13	60	1.34
1584775--1584913	68	2.0	68	92	0	233	25	12	27	34	1.92
1587334--1587410	31	2.4	32	86	6	111	24	11	1	62	1.37
1587702--1587748	21	2.2	22	81	7	62	19	27	17	36	1.93
1587740--1587810	20	3.5	20	78	3	79	39	19	19	21	1.93
1587741--1587837	41	2.4	41	84	1	115	36	18	20	24	1.95
1588013--1588074	18	3.0	22	69	26	62	27	38	16	17	1.91
1588406--1588454	20	2.5	20	86	0	71	34	24	20	20	1.96
1588467--1588553	20	4.4	20	86	1	95	14	17	22	44	1.85
1588518--1588561	20	2.2	20	87	0	61	13	13	20	52	1.74
1590432--1590635	20	10.5	20	86	6	294	39	19	20	21	1.92
1590432--1590673	40	6.4	40	82	10	294	40	19	20	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590432--1590673	60	4.2	60	84	7	294	40	19	20	20	1.92
1590766--1590814	20	2.5	20	89	0	71	22	20	22	34	1.97
1591300--1591341	21	2.2	19	87	12	59	21	35	19	23	1.96
1591295--1591405	42	2.6	42	77	5	109	21	37	18	22	1.94
1592759--1592794	14	2.6	14	90	0	54	30	0	22	47	1.52
1592931--1593009	33	2.4	33	84	2	95	15	24	20	40	1.90
1592983--1593069	20	4.3	20	85	2	122	18	22	22	35	1.95
1592981--1593069	40	2.2	40	90	4	135	19	23	22	34	1.96
1595402--1595455	24	2.2	24	93	0	90	40	20	18	20	1.91
1595402--1595469	24	2.8	24	84	0	64	38	20	17	23	1.93
1596316--1596459	20	7.3	20	84	7	197	22	19	20	38	1.94
1596316--1596459	41	3.7	40	88	6	179	22	19	20	38	1.94
1596309--1596459	61	2.6	57	85	6	196	22	19	19	37	1.94
1596456--1596496	21	2.0	21	90	0	64	39	17	26	17	1.91
1600749--1601101	127	2.8	127	92	0	598	23	23	18	35	1.96
1601524--1601627	34	3.1	34	85	0	145	35	6	5	51	1.52
1602151--1602259	42	2.6	42	89	0	164	24	22	32	21	1.98
1602151--1602265	21	5.5	21	79	12	119	23	22	33	20	1.98
1602243--1602340	42	2.3	42	82	0	115	25	16	36	21	1.94
1603131--1603157	13	2.1	13	100	0	54	48	29	0	22	1.51
1604054--1604101	25	2.0	24	88	12	71	62	0	0	37	0.95
1604053--1604150	30	3.3	30	81	5	94	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615125--1615156	14	2.3	14	94	0	55	50	9	15	25	1.74
1615291--1615467	84	2.1	82	88	4	257	44	9	13	32	1.76
1615392--1615518	62	2.0	63	87	1	184	45	9	8	36	1.67
1622674--1622714	3	14.0	3	89	5	66	31	0	0	68	0.90
1626880--1626926	20	2.3	21	82	10	62	14	19	12	53	1.73
1631530--1631596	20	3.2	20	63	8	53	44	11	16	26	1.82
1631529--1632005	116	4.1	114	83	5	537	40	14	21	23	1.90
1632031--1632073	20	2.1	21	86	4	61	48	6	18	25	1.73
1632234--1632529	139	2.1	138	84	1	396	38	14	23	23	1.92
1640210--1640465	136	1.9	135	80	5	302	29	13	16	41	1.86
1648201--1648320	23	5.2	23	79	7	136	30	23	22	24	1.99
1648201--1648324	46	2.7	46	88	0	185	30	23	21	24	1.99
1654567--1654615	23	2.3	20	75	21	55	32	26	18	22	1.97
1654578--1654684	23	4.7	23	85	0	151	34	26	21	17	1.96
1655325--1655376	20	2.6	20	96	0	95	30	28	7	32	1.85
1655368--1655415	22	2.3	21	85	7	62	22	22	14	39	1.91
1655374--1655415	22	1.9	22	90	0	66	21	21	14	42	1.88
1657855--1657923	3	23.0	3	94	5	122	33	0	0	66	0.92
1659580--1659640	13	4.7	13	72	22	56	44	0	1	54	1.10
1660262--1660315	23	2.5	22	82	14	67	27	1	1	68	1.10
1663570--1663603	16	2.1	16	94	0	59	23	20	5	50	1.70
1663655--1663691	3	12.3	3	94	0	65	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672507--1672944	112	3.8	113	77	10	395	39	13	18	28	1.88
1672539--1673043	236	2.2	234	86	2	683	40	12	18	28	1.88
1673275--1673351	3	26.0	3	75	12	70	31	2	0	66	1.05
1674908--1674949	13	2.9	16	86	13	56	45	0	0	54	0.99
1677293--1677359	2	33.0	2	90	3	107	52	1	0	46	1.09
1678412--1678465	19	2.9	18	86	13	74	61	1	1	35	1.18
1683636--1683681	17	2.8	16	81	18	51	76	2	0	21	0.90
1684320--1684408	16	5.6	16	64	15	51	52	23	11	12	1.71
1684888--1685067	60	3.0	60	82	4	220	41	5	21	32	1.76
1684969--1685067	31	3.3	30	67	13	78	40	5	20	34	1.74
1691925--1692107	70	2.6	70	95	0	321	25	9	31	33	1.88
1692967--1693013	20	2.3	21	85	10	62	36	0	2	61	1.08
1694116--1694258	73	2.0	72	84	4	189	52	16	6	24	1.68
1696837--1696890	21	2.6	21	96	0	99	22	14	37	25	1.93
1699669--1699917	125	2.0	125	92	0	417	40	19	23	16	1.91
1702738--1703056	159	2.0	160	99	0	631	30	34	3	31	1.73
1705562--1705599	18	2.2	17	90	4	58	23	7	2	65	1.32
1706161--1706198	3	12.7	3	100	0	76	65	0	0	34	0.93
1707326--1707389	33	1.9	32	84	12	85	64	0	7	28	1.21
1708624--1708683	4	14.2	4	84	10	68	71	1	1	25	1.04
1708624--1708693	21	3.1	22	77	20	74	70	1	2	25	1.10
1708624--1708683	26	2.3	26	86	8	79	71	1	1	25	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708720--1708763	22	2.0	22	86	8	63	36	9	2	52	1.46
1708707--1709094	35	11.0	35	74	14	113	43	9	3	44	1.51
1708763--1709116	35	10.0	35	79	5	347	44	8	3	44	1.51
1708763--1709073	72	4.5	69	83	5	358	43	9	3	44	1.52
1709447--1709520	20	3.7	20	78	3	85	40	20	21	17	1.91
1709464--1709534	21	3.4	21	80	3	99	42	18	23	15	1.88
1709447--1709536	41	2.2	41	97	0	171	40	18	23	17	1.92
1709466--1709601	41	3.3	41	81	5	123	38	19	21	19	1.93
1709571--1709623	20	2.7	20	91	5	81	26	28	18	26	1.98
1709811--1709854	22	2.0	22	95	0	79	20	45	15	18	1.85
1711475--1711519	18	2.5	18	88	0	72	26	44	15	13	1.83
1711986--1712052	20	3.4	20	77	2	64	38	22	22	16	1.92
1712041--1712098	14	3.9	14	75	16	62	50	22	15	12	1.77
1712025--1712117	32	2.8	33	93	3	161	47	20	18	13	1.82
1712132--1712189	14	3.9	14	79	16	71	8	17	25	48	1.75
1712127--1712205	32	2.4	33	95	2	142	10	18	24	46	1.80
1712146--1712263	20	6.4	19	77	11	95	13	20	24	41	1.88
1714234--1714318	33	2.4	36	82	9	95	43	20	22	14	1.87
1714263--1714363	19	5.8	19	80	19	132	46	17	21	13	1.83
1714282--1714363	33	2.5	33	95	0	146	46	18	21	13	1.83
1714234--1714363	52	2.6	51	86	6	169	43	20	22	13	1.86
1714382--1714439	20	2.9	20	89	0	80	17	18	22	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1715498--1715551	24	2.2	24	90	0	81	24	16	20	38	1.92
1718310--1718408	33	3.0	33	89	1	144	39	26	23	11	1.88
1718285--1718469	19	10.1	19	77	14	174	43	22	22	11	1.85
1718380--1718469	39	2.3	38	94	1	153	46	22	20	11	1.81
1719081--1719181	20	4.9	21	71	12	59	18	19	18	42	1.89
1719044--1719137	20	4.7	20	80	2	89	23	18	24	34	1.96
1719065--1719199	41	3.3	41	82	4	139	19	21	20	38	1.94
1719126--1719218	20	4.6	20	78	4	96	17	24	18	39	1.91
1719126--1719218	41	2.3	41	100	0	186	17	24	18	39	1.91
1720368--1720399	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33