genome.fa.s8620.2.7.7.80.10.50.1000.8.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   57   58   59   60   61   62   63   64   

This is table  8  of  64  ( 7674 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)
1485107--1485141	18	1.9	18	94	0	61	28	20	22	28	1.98
1486650--1486870	110	2.0	111	92	0	372	46	9	8	35	1.66
1487108--1487222	50	2.3	49	78	14	119	21	31	27	19	1.97
1487135--1487261	51	2.5	49	80	11	132	20	30	32	16	1.95
1488814--1488859	22	2.1	22	91	0	74	54	8	0	36	1.32
1488820--1488867	22	2.1	22	84	3	60	58	10	0	31	1.32
1488839--1489353	32	17.7	32	67	24	213	52	12	0	34	1.42
1488875--1489084	26	7.7	26	66	19	81	52	14	0	32	1.45
1488822--1489132	84	3.8	80	82	14	379	52	12	0	34	1.44
1488987--1489027	21	2.0	21	85	9	57	48	12	0	39	1.41
1488806--1489132	167	2.0	165	90	6	527	52	11	0	34	1.43
1488955--1489262	129	2.4	130	90	4	498	52	12	0	35	1.42
1489114--1489151	20	1.9	20	94	0	67	52	7	0	39	1.31
1489108--1489365	86	3.1	89	79	19	354	53	12	0	34	1.38
1489197--1489242	22	2.0	22	87	4	65	54	10	0	34	1.36
1488955--1489321	129	2.8	125	81	11	407	52	12	0	35	1.42
1489069--1489352	54	5.3	54	74	17	279	52	11	0	35	1.41
1489280--1489328	22	2.2	22	85	3	62	55	12	0	32	1.37
1489361--1489496	21	6.4	21	67	21	86	47	10	0	41	1.43
1489483--1489580	15	6.9	15	85	8	125	47	0	1	51	1.07
1489483--1489580	29	3.4	29	88	5	130	47	0	1	51	1.07
1489483--1489590	44	2.5	42	81	12	130	47	1	0	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502075--1502117	15	2.8	16	85	7	61	37	16	27	18	1.92
1504946--1505003	21	2.7	22	86	2	91	29	24	27	18	1.98
1506701--1506778	24	3.2	24	90	5	113	21	23	20	34	1.97
1506712--1506789	24	3.2	24	83	8	88	21	28	20	29	1.98
1511908--1512509	300	2.0	300	100	0	1204	45	10	17	26	1.81
1512670--1512728	31	1.9	31	96	0	109	45	10	3	40	1.54
1513493--1513687	94	2.1	94	97	0	363	45	19	12	23	1.84
1516687--1516730	18	2.5	18	82	13	56	70	0	4	25	1.06
1520302--1520342	14	2.9	14	85	0	55	36	26	9	26	1.88
1525629--1525671	12	3.2	12	77	22	50	51	0	0	48	1.00
1525629--1525707	28	2.7	28	84	9	88	51	2	1	44	1.23
1525710--1525771	21	2.9	21	75	15	65	45	4	4	45	1.46
1525666--1525841	88	2.0	89	82	5	214	48	5	5	40	1.49
1525753--1525803	15	3.3	15	71	15	50	52	3	1	41	1.31
1525944--1525977	13	2.5	13	90	4	50	41	2	8	47	1.50
1525894--1526026	55	2.4	54	87	3	187	39	8	8	43	1.65
1526095--1526134	7	5.7	7	87	0	53	22	0	35	42	1.54
1526083--1526132	21	2.4	21	90	6	75	26	0	32	42	1.56
1526195--1526222	2	14.0	2	100	0	56	50	0	0	50	1.00
1526263--1526317	20	2.8	20	76	13	60	52	3	9	34	1.50
1526344--1526406	24	2.6	24	80	12	67	44	7	7	39	1.63
1526390--1526481	22	4.3	23	74	14	79	39	6	9	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526413--1526437	13	1.9	13	100	0	50	40	0	8	52	1.31
1526377--1526503	64	2.0	66	87	3	186	37	4	10	48	1.58
1526595--1526787	24	7.9	24	67	19	89	45	6	3	45	1.44
1526785--1526848	18	3.6	18	81	8	60	40	1	9	48	1.45
1526826--1526876	2	26.0	2	96	4	95	49	0	0	50	1.00
1526964--1527679	216	3.3	214	91	1	1141	29	11	9	50	1.68
1526964--1527679	214	3.3	214	91	1	1148	29	11	9	50	1.68
1535986--1536070	23	3.9	22	77	13	77	25	29	27	17	1.98
1539621--1539718	3	33.0	3	83	6	128	64	2	1	32	1.12
1545716--1545747	15	2.0	17	88	11	50	31	28	9	31	1.88
1548779--1549336	71	7.8	72	76	10	456	40	11	14	33	1.82
1548821--1549336	140	3.6	140	75	11	437	39	11	14	33	1.82
1549419--1549647	108	2.1	110	91	4	367	43	14	14	27	1.84
1558418--1558481	23	2.9	23	74	4	69	23	23	21	31	1.99
1564283--1564441	65	2.4	67	80	9	186	29	16	22	32	1.95
1570836--1570897	23	2.7	23	85	2	81	22	30	24	22	1.99
1574509--1574608	3	33.0	3	89	2	155	65	1	1	33	1.06
1580011--1580064	18	2.7	20	83	11	67	66	0	9	24	1.20
1580706--1580738	16	2.0	17	88	5	50	33	27	9	30	1.88
1583866--1584436	74	7.8	73	81	6	574	40	11	14	33	1.82
1584096--1584425	68	4.7	69	81	10	246	41	11	14	33	1.81
1584516--1584754	111	2.1	112	94	0	417	44	13	14	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598554--1598613	23	2.6	23	86	7	86	40	23	16	20	1.91
1598949--1599009	2	30.5	2	100	0	122	50	0	0	49	1.00
1604754--1604840	23	3.8	23	98	0	165	28	27	24	19	1.98
1604744--1604841	23	4.3	23	94	0	160	30	25	21	22	1.99
1615594--1615668	23	3.3	23	83	3	89	30	22	20	26	1.98
1615893--1616004	57	2.0	57	82	7	138	35	22	1	40	1.65
1622304--1622470	46	3.6	46	80	1	181	24	19	11	44	1.83
1622458--1622761	81	3.8	81	88	1	448	30	22	12	34	1.91
1622464--1622761	162	1.8	162	91	0	497	30	23	12	33	1.91
1623919--1624033	46	2.5	46	81	2	133	27	20	12	39	1.88
1623936--1624045	46	2.4	46	84	3	141	25	18	13	42	1.87
1624042--1624459	81	5.2	81	84	2	509	31	21	13	34	1.92
1627633--1627733	43	2.3	43	81	6	116	31	13	24	29	1.94
1627740--1627862	44	2.8	44	91	3	187	30	17	21	30	1.96
1628221--1628284	21	3.0	21	80	8	76	3	39	17	40	1.65
1635228--1635307	41	2.0	41	82	0	97	31	16	15	37	1.89
1636632--1636827	41	4.8	41	84	5	229	31	19	17	32	1.95
1636633--1636833	82	2.5	82	84	4	273	30	18	17	33	1.94
1638781--1638866	44	2.0	44	86	4	120	40	2	6	50	1.42
1640139--1640177	2	20.0	2	94	5	71	48	0	0	51	1.00
1651017--1651126	29	3.8	29	82	10	111	56	6	15	21	1.61
1651252--1651354	31	3.3	31	90	0	161	33	4	25	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653000--1653432	134	3.3	130	77	8	421	31	19	17	31	1.95
1659011--1659120	29	3.8	29	81	10	111	57	5	14	22	1.58
1659247--1659349	31	3.3	31	90	0	161	33	4	25	35	1.77
1661044--1661427	129	2.9	129	77	9	391	32	20	16	30	1.95
1667007--1667116	29	3.8	29	82	10	111	56	6	15	21	1.61
1667241--1667342	31	3.3	31	90	0	159	34	3	25	36	1.75
1669010--1669509	129	3.8	134	80	7	533	31	19	18	30	1.96
1669036--1669524	262	1.9	262	82	3	599	31	20	17	30	1.95
1669036--1669638	262	2.3	262	78	4	583	31	18	17	31	1.95
1671356--1671380	13	1.9	13	100	0	50	0	28	8	64	1.22
1671676--1671714	9	3.8	10	84	15	53	41	0	2	56	1.13
1671710--1671789	3	26.7	3	84	0	106	58	0	3	37	1.16
1671701--1671798	12	8.2	12	85	2	99	56	0	3	40	1.15
1672118--1672563	113	3.9	113	86	4	630	30	19	13	37	1.89
1672119--1672563	229	2.0	225	91	3	723	30	19	12	37	1.89
1673068--1673461	83	4.7	83	98	0	761	36	22	13	27	1.92
1674597--1674651	1	55.0	1	77	0	56	0	10	0	89	0.50
1674596--1674654	7	8.4	7	85	7	84	0	13	0	86	0.57
1674596--1674654	12	4.8	13	84	16	81	0	13	0	86	0.57
1685296--1685345	18	2.7	19	79	14	61	72	2	0	26	0.96
1687228--1687296	16	4.4	16	98	1	131	17	18	56	7	1.63
1687382--1687420	9	3.8	10	84	15	53	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687416--1687501	3	28.7	3	90	0	136	61	0	3	34	1.13
1688638--1688685	22	2.2	22	85	7	62	6	12	2	79	1.01
1696542--1696637	31	3.1	31	87	0	129	34	7	23	34	1.83
1700851--1700909	30	2.0	30	100	0	118	33	6	8	50	1.59
1709412--1709472	30	2.0	30	100	0	122	32	6	9	50	1.61
1719055--1719625	80	7.1	81	83	3	672	37	10	19	32	1.86
1719055--1719625	161	3.6	161	84	4	699	37	10	19	32	1.86
1737515--1738170	81	8.1	81	89	1	938	35	11	20	32	1.89
1737514--1738170	242	2.7	243	90	1	978	35	11	20	32	1.89
1757357--1757470	43	2.6	42	81	10	113	33	19	21	26	1.97

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   57   58   59   60   61   62   63   64