genome.fa.s8424.2.7.7.80.10.50.1000.7.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

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

This is table  7  of  16  ( 1819 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)
1511646--1511686	16	2.6	16	88	7	57	46	4	4	43	1.46
1512427--1512480	26	2.1	26	100	0	108	14	22	24	38	1.91
1514540--1514662	63	2.0	62	87	9	178	45	5	7	41	1.55
1517250--1517374	23	5.4	23	89	0	187	13	22	27	36	1.92
1518759--1518798	2	20.0	2	100	0	80	50	0	0	50	1.00
1521044--1521197	29	5.4	29	82	4	197	39	22	2	35	1.68
1528297--1528450	29	5.4	29	82	4	206	39	21	2	36	1.67
1528297--1528450	56	2.7	57	84	3	211	39	21	2	36	1.67
1528346--1528464	57	2.1	55	80	7	123	42	19	1	36	1.61
1531739--1531769	15	2.1	15	100	0	62	45	35	6	12	1.68
1532857--1532917	31	2.0	31	93	0	104	11	24	21	42	1.86
1538392--1538439	24	1.9	26	87	8	73	60	10	2	27	1.41
1538391--1538445	25	2.2	25	80	6	67	61	9	1	27	1.36
1540226--1540788	112	4.9	112	79	9	586	29	17	14	38	1.89
1540147--1540660	236	2.2	236	87	2	732	28	17	13	40	1.88
1541963--1542124	54	3.0	54	81	5	193	26	20	14	38	1.91
1542975--1543133	75	2.1	75	83	2	194	28	17	17	35	1.93
1548696--1548738	23	1.9	22	85	4	59	69	4	6	18	1.29
1548683--1548742	30	2.0	29	83	3	75	70	5	6	18	1.29
1550389--1550443	26	2.1	27	83	10	69	58	0	5	36	1.21
1550389--1550443	27	2.1	25	86	10	74	58	0	5	36	1.21
1550396--1550465	28	2.5	28	79	9	70	57	0	7	35	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550604--1550634	16	2.0	16	93	6	55	51	0	9	38	1.35
1552827--1552873	3	15.3	3	87	12	69	63	0	0	36	0.94
1559658--1559684	5	5.4	5	100	0	54	18	0	0	81	0.69
1563464--1563531	26	2.7	26	79	9	77	27	17	26	27	1.98
1565600--1565631	14	2.1	16	88	11	50	40	0	21	37	1.54
1566458--1566536	27	2.8	27	81	9	70	50	3	18	26	1.64
1570747--1570807	31	2.0	31	90	0	95	27	27	9	34	1.89
1577573--1577715	59	2.4	58	80	7	155	73	1	18	6	1.13
1577619--1577734	24	5.0	22	73	17	78	75	2	16	6	1.12
1577623--1577734	48	2.4	50	81	11	130	75	2	16	5	1.11
1577672--1577739	21	3.2	20	77	10	64	76	1	19	2	0.99
1583510--1583555	24	1.9	24	81	0	56	28	21	23	26	1.99
1587342--1587377	18	1.9	19	88	5	56	69	2	0	27	1.02
1587931--1587978	13	3.8	13	72	5	53	10	4	4	81	0.97
1589962--1590079	8	14.8	8	71	10	80	38	0	61	0	0.96
1589961--1590079	12	10.2	12	77	15	117	38	0	61	0	0.96
1589961--1590079	24	5.1	23	86	9	145	38	0	61	0	0.96
1595782--1595844	23	3.0	20	71	15	63	52	15	4	26	1.63
1595939--1595992	29	1.9	27	92	3	81	53	11	12	22	1.70
1596620--1596650	9	3.4	9	90	0	53	35	48	0	16	1.46
1596617--1596686	18	3.7	18	78	10	77	34	48	1	15	1.54
1596617--1596683	24	2.8	24	83	0	80	34	50	1	13	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596658--1596716	18	3.4	17	81	6	64	33	44	1	20	1.62
1598954--1599020	32	2.1	32	100	0	134	49	13	2	34	1.57
1600191--1600273	30	2.8	30	76	8	89	51	6	12	30	1.62
1610282--1610315	17	2.1	16	88	5	50	14	8	0	76	1.01
1616594--1616668	23	3.1	23	73	16	71	10	20	1	68	1.27
1620490--1620523	17	2.1	16	88	5	50	14	8	0	76	1.01
1623556--1623596	20	2.0	20	85	0	55	34	21	9	34	1.87
1637678--1637732	2	27.5	2	100	0	110	50	0	0	49	1.00
1637929--1638052	24	5.2	24	80	9	65	41	20	12	25	1.87
1637946--1638057	24	4.7	24	82	8	129	39	20	14	25	1.90
1637977--1638084	48	2.3	48	80	7	114	43	18	13	24	1.86
1639170--1639205	18	2.0	18	88	0	54	30	16	0	52	1.44
1640519--1640550	15	2.1	15	94	0	55	28	28	28	15	1.96
1640539--1640607	13	5.3	13	98	0	120	18	23	42	15	1.89
1640586--1640624	18	2.2	18	86	9	53	15	23	46	15	1.83
1640545--1640643	31	3.4	30	81	12	109	17	23	44	15	1.86
1640543--1640638	26	3.5	25	76	15	93	19	22	42	14	1.88
1641618--1641669	9	5.6	9	80	15	61	76	0	1	21	0.87
1641616--1641667	14	3.6	14	75	19	54	76	0	1	21	0.87
1641725--1641765	21	1.9	22	90	5	66	75	0	4	19	0.98
1642413--1642577	76	2.2	76	85	3	226	57	9	3	30	1.45
1644526--1644550	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648967--1649221	138	1.8	138	84	3	352	29	14	16	40	1.87
1657688--1657740	26	2.2	23	83	12	63	22	16	22	37	1.94
1669085--1669125	20	2.0	20	95	0	73	34	12	14	39	1.84
1669773--1669846	30	2.5	30	93	4	123	24	27	22	25	2.00
1670511--1670573	29	2.2	29	82	5	74	23	22	12	41	1.88
1670568--1670673	51	2.1	49	81	6	115	20	16	19	43	1.88
1678277--1678342	29	2.3	29	78	0	78	19	25	15	39	1.91
1686299--1686337	15	2.6	14	88	8	51	28	0	10	61	1.28
1694583--1694628	2	23.0	2	100	0	92	50	0	0	50	1.00
1698572--1698614	17	2.5	17	96	0	77	46	2	23	27	1.64
1698742--1698789	21	2.4	19	77	12	51	50	6	2	41	1.39
1701969--1702017	3	16.7	3	83	12	66	32	2	0	65	1.04
1703688--1703737	23	2.0	26	85	11	70	46	2	0	52	1.12
1704302--1705440	113	10.0	113	84	3	1415	30	18	13	36	1.90
1704392--1705442	229	4.6	228	91	0	1715	30	18	13	36	1.90
1704392--1705442	458	2.3	458	97	0	1976	30	18	13	36	1.90
1706145--1706459	115	2.7	115	96	1	571	31	20	13	34	1.92
1706363--1706932	93	6.1	94	95	1	909	35	20	15	29	1.93
1707930--1707998	13	5.1	13	80	19	79	0	15	0	84	0.63
1707929--1707997	20	3.3	20	77	16	70	0	17	0	82	0.67
1707930--1707998	28	2.5	27	83	4	93	0	15	0	84	0.63
1707930--1707998	21	3.4	20	80	20	81	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707929--1707995	12	5.8	12	74	10	68	0	16	0	83	0.64
1720246--1720314	22	3.1	22	97	0	129	34	5	44	14	1.69
1720360--1720410	21	2.4	22	83	6	68	35	1	7	54	1.40
1722598--1722623	6	4.3	6	100	0	52	19	50	0	30	1.48
1724589--1724622	12	2.8	12	86	0	50	0	20	0	79	0.73
1724680--1724776	35	2.8	34	78	4	97	43	10	14	31	1.79
1724819--1725223	72	5.6	73	84	3	498	40	14	17	27	1.88
1724746--1725087	38	9.2	38	69	13	194	40	14	17	26	1.89
1724716--1725174	143	3.1	146	82	5	498	40	15	17	26	1.89
1727310--1727421	36	3.2	34	70	14	93	41	8	17	33	1.79
1727333--1727441	35	3.0	36	71	5	103	36	10	21	32	1.86
1729798--1729852	26	2.1	26	100	0	110	58	3	7	30	1.43
1732615--1732665	14	3.6	14	81	0	66	31	29	13	25	1.94
1735711--1735741	16	1.9	16	93	0	53	35	12	9	41	1.76
1738968--1739013	2	23.0	2	100	0	92	50	0	0	50	1.00
1739011--1739063	4	13.2	4	95	0	97	26	0	22	50	1.49
1740279--1740621	131	2.6	131	84	1	375	41	15	8	35	1.77
1741494--1741697	108	1.9	108	82	4	259	46	18	15	20	1.84
1743320--1743643	136	2.4	136	84	1	452	31	16	19	32	1.94
1744941--1745010	10	7.1	10	78	16	51	10	11	0	78	0.96
1744960--1745017	17	3.2	17	81	18	73	6	15	0	77	0.97
1752663--1752742	37	2.1	38	86	6	110	60	16	15	8	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1754433--1754487	22	2.4	22	78	9	56	45	5	3	45	1.44
1754774--1754812	19	2.1	19	90	0	60	25	23	20	30	1.98
1757307--1757363	8	7.0	8	78	9	53	82	1	12	3	0.87
1757303--1757363	14	4.5	13	78	10	59	81	1	13	3	0.88
1757295--1757351	15	3.7	15	76	6	60	80	1	10	7	0.96
1757313--1757360	23	2.1	23	84	7	62	83	2	10	4	0.87
1757297--1757363	28	2.4	27	82	2	80	80	1	13	4	0.93
1757298--1757372	13	5.8	13	76	17	52	78	2	14	4	1.00
1758510--1758731	101	2.2	101	79	6	229	27	18	14	39	1.90
1758727--1758838	52	2.2	52	91	0	179	28	22	13	35	1.92

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