genome.fa.s9623.2.7.7.80.10.50.1000.9.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2083 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)
1500919--1501026	25	4.0	27	81	9	103	50	3	4	41	1.41
1500919--1500986	7	9.7	7	75	15	61	54	1	2	41	1.24
1500953--1501152	27	7.3	27	72	14	151	44	5	6	44	1.51
1500933--1501099	7	27.0	6	66	22	53	46	3	5	44	1.43
1500933--1501099	9	20.2	8	67	20	53	46	3	5	44	1.43
1500964--1501171	113	1.8	113	93	0	362	41	4	7	46	1.52
1501248--1501393	25	5.7	25	74	16	97	49	4	4	41	1.43
1501245--1501393	34	4.4	33	75	20	112	48	4	4	42	1.42
1501275--1501682	2	206.0	2	63	25	88	48	4	3	43	1.41
1501275--1501682	13	34.3	12	65	23	88	48	4	3	43	1.41
1501474--1501556	15	5.7	14	76	18	55	48	2	1	48	1.22
1501639--1501692	19	2.9	19	83	10	67	48	0	0	51	1.00
1501717--1501758	18	2.3	19	83	8	59	28	9	0	61	1.27
1507850--1507900	20	2.5	20	93	0	93	43	29	15	11	1.82
1508119--1508592	182	2.6	182	87	3	652	44	12	15	27	1.83
1510702--1510734	15	2.2	15	94	0	57	18	9	63	9	1.49
1510817--1510857	21	2.0	21	90	0	64	41	12	26	19	1.87
1510894--1510959	33	2.0	33	87	0	96	33	0	43	22	1.54
1511146--1511219	33	2.2	33	90	0	121	58	0	39	2	1.13
1511146--1511234	33	2.7	33	79	10	110	55	0	41	3	1.17
1512720--1512768	19	2.5	20	90	9	84	30	2	10	57	1.43
1513003--1513390	200	1.9	200	96	0	713	36	14	17	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514890--1515907	182	5.6	182	95	1	1748	42	12	16	27	1.85
1517492--1517536	20	2.2	20	88	7	65	17	15	17	48	1.81
1521405--1521448	19	2.3	19	84	4	52	18	4	2	75	1.09
1521419--1521458	12	2.8	15	75	25	50	20	2	0	77	0.88
1525346--1525384	20	2.0	20	89	0	60	30	10	17	41	1.83
1525495--1525621	63	2.0	63	98	0	245	25	13	25	35	1.93
1527084--1527181	45	2.2	44	80	8	108	50	5	24	20	1.68
1528935--1528963	4	7.5	4	92	7	51	20	0	0	79	0.74
1528939--1528973	15	2.2	16	90	5	54	25	0	0	74	0.82
1529714--1529751	19	2.0	20	90	10	62	15	31	21	31	1.94
1529759--1529812	26	2.1	26	92	0	90	25	18	11	44	1.83
1530396--1530531	30	4.5	30	75	12	109	19	27	15	37	1.92
1535559--1535594	14	2.5	15	90	4	56	41	5	13	38	1.68
1536371--1536425	2	27.5	2	100	0	110	50	0	0	49	1.00
1537930--1537972	18	2.2	20	88	8	63	32	11	23	32	1.90
1541933--1542059	59	2.1	59	80	1	146	33	17	16	33	1.92
1542912--1542963	18	2.9	17	75	13	52	71	1	11	15	1.23
1550814--1550853	21	1.9	21	85	10	55	35	10	2	52	1.48
1552771--1552953	65	2.8	64	80	7	201	25	19	25	30	1.98
1552794--1553001	65	3.2	63	79	12	183	25	17	25	31	1.97
1560359--1560387	14	2.1	14	100	0	58	86	6	6	0	0.72
1560812--1560870	14	4.1	14	72	12	57	59	15	5	20	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1561241--1561295	27	2.0	27	100	0	110	43	14	14	27	1.84
1562027--1562068	22	2.0	22	81	13	52	21	2	9	66	1.32
1562154--1562180	2	13.5	2	100	0	54	48	0	0	51	1.00
1562187--1562270	29	2.9	30	77	12	86	16	9	0	73	1.08
1565284--1565334	8	6.4	8	80	6	50	82	3	11	1	0.89
1565978--1566054	22	3.5	22	94	0	136	37	27	14	20	1.91
1566468--1566504	18	2.0	19	89	5	58	18	2	32	45	1.64
1566906--1567043	63	2.2	63	92	3	233	33	25	15	26	1.95
1566798--1567148	169	2.1	169	95	0	621	33	25	16	24	1.96
1566969--1568221	106	11.9	106	90	1	1887	33	24	18	23	1.97
1568952--1569056	37	2.8	37	88	0	156	40	15	15	29	1.88
1569542--1569579	19	2.0	19	85	10	51	34	2	0	63	1.09
1569785--1569841	12	5.2	12	81	8	52	31	3	3	61	1.30
1569858--1569887	2	15.5	2	93	6	53	50	0	0	50	1.00
1569911--1569959	25	2.0	23	84	7	62	16	8	0	75	1.03
1574590--1574664	30	2.5	30	82	2	80	38	26	8	26	1.84
1575383--1575436	29	1.9	27	88	7	81	48	3	3	44	1.38
1575381--1575450	27	2.5	28	82	11	90	40	4	4	51	1.41
1575484--1575622	74	1.9	74	87	4	208	55	3	2	38	1.32
1576175--1576217	3	14.7	3	95	4	79	34	0	0	65	0.93
1577395--1577478	30	2.8	29	75	5	78	19	16	5	58	1.58
1577565--1577593	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577635--1577671	6	6.5	6	87	6	51	13	0	2	83	0.74
1581523--1581720	96	2.0	98	86	1	274	33	15	17	33	1.92
1582878--1583192	85	3.7	84	78	1	324	34	21	19	24	1.96
1583987--1584016	5	6.0	5	100	0	60	40	0	0	60	0.97
1585100--1585173	30	2.5	30	81	0	94	22	17	4	55	1.59
1585335--1585364	6	5.0	6	91	0	51	16	0	3	80	0.85
1586546--1586578	17	1.9	17	93	0	57	48	6	3	42	1.43
1597638--1597738	30	3.4	30	81	6	107	60	7	12	18	1.56
1598650--1598694	21	2.2	20	84	4	54	11	13	2	73	1.19
1599201--1599243	11	3.7	11	79	11	50	11	18	37	32	1.87
1599588--1599695	43	2.6	43	80	4	123	23	18	32	25	1.97
1599631--1600139	130	3.9	131	80	6	532	25	17	30	26	1.97
1600227--1600326	30	3.3	30	77	5	87	41	13	16	30	1.85
1600253--1600332	30	2.7	30	84	1	90	42	13	13	30	1.83
1602218--1602244	2	13.5	2	100	0	54	48	0	0	51	1.00
1606208--1606318	29	3.8	28	77	5	105	60	8	11	19	1.56
1608589--1608613	7	3.6	7	100	0	50	60	0	0	40	0.97
1613345--1613633	36	8.2	36	73	14	226	31	33	4	30	1.78
1613345--1613443	13	8.3	11	71	23	67	31	36	3	29	1.73
1613521--1613619	13	8.3	11	71	23	67	31	36	3	29	1.73
1613306--1613658	176	2.0	177	99	0	699	30	31	5	33	1.79
1613533--1613672	36	4.1	33	83	9	97	30	36	2	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620250--1620296	23	2.1	22	92	7	78	27	12	42	17	1.85
1622566--1622816	130	1.9	130	98	0	484	50	12	7	29	1.67
1623049--1623077	15	1.9	15	100	0	58	17	34	20	27	1.95
1624969--1625301	111	3.0	111	97	0	630	45	10	7	36	1.68
1625363--1625403	18	2.3	18	87	4	57	65	2	4	26	1.25
1625443--1625484	20	2.2	19	91	4	66	40	0	26	33	1.56
1625605--1625730	50	2.5	49	79	5	135	23	27	32	15	1.95
1626257--1626333	37	2.1	36	80	4	82	45	2	6	45	1.43
1626748--1626793	18	2.6	18	86	3	58	34	8	26	30	1.86
1627314--1627404	28	3.1	28	87	9	121	46	32	6	14	1.70
1629520--1629571	22	2.5	22	87	6	72	30	11	25	32	1.91
1629896--1630432	214	2.5	215	87	1	763	28	17	20	32	1.96
1629900--1630411	54	9.5	54	90	0	758	28	18	20	33	1.96
1630512--1630604	2	47.0	2	97	2	179	50	0	0	49	1.00
1632399--1632436	20	1.9	20	88	0	58	26	21	26	26	1.99
1632526--1632933	200	2.0	203	95	2	741	37	3	22	37	1.70
1636967--1637051	40	2.1	40	88	0	125	29	22	24	23	1.99
1636967--1637051	20	4.2	20	83	0	107	29	22	24	23	1.99
1642641--1642733	29	3.2	29	90	6	152	43	0	24	32	1.55
1643842--1644068	54	4.2	54	87	3	325	28	18	18	33	1.95
1643861--1644113	107	2.4	108	84	4	289	31	17	17	33	1.93
1657308--1657361	7	7.7	7	80	0	54	42	35	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659649--1659709	33	1.9	31	87	9	88	26	14	16	42	1.87
1659800--1659872	37	2.0	36	89	2	110	26	8	10	54	1.63
1660075--1660111	17	2.2	17	95	0	65	24	18	32	24	1.97
1660096--1660145	11	4.5	11	80	5	55	30	20	24	26	1.98
1660130--1660193	24	2.7	24	97	0	119	25	25	23	26	2.00
1664887--1664954	3	23.0	3	82	8	86	66	1	1	30	1.10
1664891--1664954	22	2.7	23	83	9	85	67	1	1	29	1.09
1664888--1664959	25	2.9	25	81	6	83	66	2	1	29	1.14
1665306--1665734	112	3.8	111	82	8	483	28	19	12	38	1.89
1667071--1667143	18	4.1	17	81	8	92	46	5	13	34	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18