genome.fa.s8356.2.7.7.80.10.50.1000.8.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  8  of  56  ( 6656 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)
1357209--1357239	16	2.0	15	93	6	53	45	12	12	29	1.80
1357487--1357520	18	1.9	17	88	5	50	61	2	2	32	1.26
1358409--1358438	2	15.0	2	100	0	60	50	0	0	50	1.00
1359076--1359106	2	15.5	2	100	0	62	48	0	0	51	1.00
1371199--1371231	3	11.0	3	100	0	66	66	0	0	33	0.92
1376939--1376988	21	2.4	21	100	0	100	18	26	4	52	1.63
1379920--1379950	15	2.1	15	100	0	62	45	12	19	22	1.84
1379941--1379997	26	2.1	27	96	3	107	52	12	14	21	1.73
1381401--1381523	24	5.1	24	88	3	176	25	13	20	41	1.88
1388024--1388100	36	2.2	36	83	4	95	45	12	9	32	1.74
1389488--1389556	3	24.0	3	77	14	74	28	2	1	66	1.14
1389488--1389555	17	3.8	18	81	11	79	27	2	1	67	1.13
1391583--1391626	22	2.0	22	81	0	52	27	4	15	52	1.63
1397416--1397535	36	3.4	36	79	6	113	30	20	12	35	1.90
1397787--1397912	29	4.5	28	84	10	161	29	10	17	42	1.82
1397778--1397912	57	2.4	56	83	9	168	28	10	18	42	1.83
1397873--1397927	26	2.1	26	83	10	67	32	9	16	41	1.80
1397865--1398092	93	2.4	94	83	8	263	32	10	14	42	1.80
1397979--1398549	67	8.5	67	97	0	1047	31	11	11	45	1.76
1398772--1398897	67	1.9	65	88	3	189	27	11	11	48	1.75
1398767--1398950	67	2.8	65	78	8	176	28	15	11	44	1.81
1399130--1399226	36	2.7	36	84	7	110	28	16	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399480--1399670	40	4.6	40	73	14	152	24	30	18	25	1.98
1399470--1399630	83	1.9	83	87	7	232	24	31	19	24	1.98
1399480--1399760	129	2.2	130	93	1	485	24	30	19	25	1.98
1399510--1399791	43	6.5	44	71	14	172	25	30	18	25	1.98
1399959--1400025	3	23.0	3	79	11	77	28	2	1	67	1.14
1399956--1400025	35	2.0	35	91	5	115	27	4	2	65	1.25
1402061--1402104	22	2.0	22	81	0	52	27	4	15	52	1.63
1410011--1410049	17	2.4	16	84	12	53	51	0	2	46	1.14
1410053--1410088	16	2.3	16	90	4	56	66	0	2	30	1.06
1410854--1410900	23	2.0	23	84	8	60	57	6	6	29	1.49
1413294--1413326	15	2.3	15	89	5	50	42	0	6	51	1.26
1413389--1413427	14	2.8	14	84	11	53	71	2	0	25	0.98
1414927--1415142	42	5.1	41	76	9	157	30	18	18	31	1.95
1414931--1415109	42	4.2	42	78	2	162	29	18	20	30	1.97
1414931--1415109	85	2.1	85	81	4	200	29	18	20	30	1.97
1416562--1416629	31	2.2	32	81	7	77	22	10	32	35	1.88
1417309--1417490	60	3.0	60	79	3	188	34	20	5	40	1.76
1418531--1418573	21	2.1	20	82	4	50	65	4	13	16	1.43
1418794--1418821	6	4.7	6	100	0	56	50	0	0	50	1.00
1418874--1418909	18	2.0	18	100	0	72	27	16	11	44	1.82
1419085--1419110	13	2.0	13	100	0	52	53	0	0	46	1.00
1428736--1428793	23	2.6	22	80	2	71	24	29	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430807--1430942	30	4.6	28	76	12	121	33	9	2	55	1.45
1430947--1431219	30	9.2	30	72	13	138	52	1	7	38	1.40
1430944--1431224	29	9.5	29	73	11	158	52	1	7	38	1.40
1442553--1442602	20	2.5	20	83	0	55	32	32	22	14	1.93
1442620--1442668	22	2.2	22	78	7	55	32	28	28	10	1.90
1443601--1443787	31	6.0	31	94	1	304	21	19	21	37	1.94
1445434--1445463	2	15.0	2	100	0	60	50	0	0	50	1.00
1445737--1445815	29	2.7	29	92	0	131	29	27	11	31	1.91
1446237--1446288	26	2.0	25	82	10	61	28	1	3	65	1.21
1446451--1446980	263	2.0	262	98	0	1024	32	12	20	35	1.89
1449782--1449868	35	2.5	34	78	12	88	55	10	8	26	1.61
1451979--1452191	111	1.9	110	94	2	374	45	11	6	36	1.66
1452265--1452303	18	2.2	18	90	4	62	64	2	2	30	1.21
1452346--1452375	10	3.0	10	95	0	51	36	0	30	33	1.58
1452498--1452607	51	2.2	51	81	4	134	23	28	30	17	1.97
1453885--1453966	42	2.0	43	83	13	109	43	1	2	52	1.22
1454098--1454137	14	2.8	14	84	3	53	40	0	0	60	0.97
1454098--1454156	14	4.4	14	69	16	52	40	1	0	57	1.09
1454141--1454230	40	2.2	42	86	6	121	44	1	1	53	1.15
1454202--1454295	14	6.9	14	67	11	52	48	1	2	47	1.20
1454224--1454307	28	3.0	27	73	11	80	50	2	2	45	1.27
1454336--1454385	24	2.1	24	88	7	75	44	0	2	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455785--1455838	22	2.5	22	78	0	63	25	22	22	29	1.99
1458239--1458264	2	13.0	2	100	0	52	50	0	0	50	1.00
1458889--1458927	20	2.0	20	84	0	51	41	0	0	58	0.98
1459577--1459662	34	2.5	34	96	0	154	61	0	0	38	0.96
1460884--1460936	21	2.5	21	72	6	54	20	22	18	37	1.94
1460926--1460977	21	2.5	20	75	3	50	40	19	23	17	1.91
1460963--1461060	41	2.4	41	89	0	142	39	23	16	20	1.91
1460966--1461040	20	3.7	20	74	10	71	37	25	17	20	1.94
1460990--1461060	21	3.5	20	71	11	63	39	23	16	19	1.92
1461229--1461272	22	2.0	22	95	0	79	20	45	15	18	1.85
1461539--1461587	20	2.5	20	89	0	71	18	18	26	36	1.94
1462918--1462965	18	2.7	18	93	0	87	27	45	12	14	1.81
1463517--1463561	20	2.3	20	80	3	56	40	20	22	17	1.92
1463615--1463697	33	2.5	33	94	0	139	10	16	21	50	1.76
1463634--1463752	19	6.4	19	76	12	95	14	21	21	42	1.88
1463679--1463752	20	3.8	19	83	5	76	16	24	21	37	1.93
1463740--1463778	20	2.0	20	89	0	60	28	12	25	33	1.93
1464127--1464187	21	3.0	20	73	7	68	22	42	13	21	1.87
1464124--1464214	41	2.2	42	86	2	130	23	41	14	20	1.89
1465593--1465629	14	2.6	14	86	0	56	32	0	18	48	1.49
1465807--1465957	19	8.7	18	68	21	83	12	24	19	43	1.85
1465811--1465937	33	3.8	33	92	0	209	12	24	18	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465868--1465919	14	3.4	14	72	23	50	9	25	21	44	1.82
1465811--1465937	66	1.9	66	96	0	236	12	24	18	44	1.84
1468264--1468288	12	2.1	12	100	0	50	0	28	0	72	0.86
1468394--1468448	24	2.2	25	80	6	67	41	18	16	23	1.89
1469195--1469302	20	5.4	20	94	0	171	25	19	29	25	1.98
1469190--1469344	20	7.7	20	85	5	168	23	18	27	30	1.98
1469334--1469385	20	2.5	21	87	3	70	21	23	17	38	1.93
1469375--1469427	21	2.5	22	81	6	74	33	18	26	20	1.96
1471204--1471266	6	11.5	6	76	19	66	34	17	33	14	1.90
1471189--1471259	15	4.9	15	79	10	85	36	19	32	11	1.87
1471189--1471259	21	3.4	20	84	7	88	36	19	32	11	1.87
1471192--1471262	9	8.2	9	76	9	58	36	18	32	12	1.88
1475917--1476102	60	3.1	58	78	10	171	30	24	5	39	1.79
1476268--1476384	60	2.0	60	81	6	139	46	2	14	36	1.59
1478671--1478933	54	4.9	54	86	1	341	31	19	17	31	1.95
1478913--1478959	20	2.5	19	93	6	78	34	17	21	27	1.95
1478931--1478966	18	2.0	18	88	0	54	36	19	19	25	1.95
1480125--1480162	8	4.8	8	93	0	67	0	36	0	63	0.95
1483132--1483170	15	2.6	15	100	0	78	25	20	28	25	1.99
1485226--1485584	54	6.7	54	84	6	435	31	16	17	33	1.93
1485247--1485584	107	3.2	106	84	7	407	31	16	18	33	1.93
1492248--1492754	257	2.0	256	85	1	685	27	15	20	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1497620--1497671	26	2.0	26	92	0	86	34	7	34	23	1.83
1504972--1505005	14	2.4	14	95	0	59	17	0	8	73	1.08
1506734--1506792	31	1.9	31	89	0	91	40	15	0	44	1.46
1506877--1506915	20	1.9	21	89	5	62	66	2	5	25	1.25
1508848--1508932	42	2.0	42	100	0	170	27	9	23	40	1.85
1517873--1517918	5	9.2	5	90	0	65	73	0	0	26	0.83
1517846--1517910	20	3.1	21	80	14	64	73	1	0	24	0.91
1517879--1517939	15	4.1	15	85	4	70	68	1	0	29	0.99
1517842--1517925	10	8.9	10	73	15	54	71	1	0	27	0.93
1522951--1523026	30	2.5	30	95	0	134	44	10	13	31	1.77

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56