genome.fa.s8017.2.7.7.80.10.50.1000.7.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

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

This is table  7  of  15  ( 1748 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)
1338207--1338245	19	2.0	20	90	5	62	43	5	5	46	1.48
1338496--1338535	21	1.9	21	85	10	55	62	5	10	22	1.46
1339162--1339204	16	2.6	16	88	3	59	13	6	20	58	1.59
1339668--1339774	44	2.4	43	83	4	142	34	4	20	40	1.73
1340247--1340305	21	2.8	21	94	0	100	32	11	35	20	1.89
1348019--1348266	126	2.0	126	100	0	496	25	14	19	40	1.89
1349386--1349433	25	2.0	25	91	4	80	25	16	22	35	1.95
1355331--1355409	35	2.3	35	90	0	122	34	3	36	25	1.74
1355751--1355801	19	2.6	20	87	3	68	45	5	15	33	1.71
1357942--1358013	36	2.0	36	91	0	117	22	20	8	48	1.76
1359492--1359570	35	2.3	35	95	0	140	31	3	39	25	1.74
1359913--1359961	19	2.6	19	86	0	62	44	6	14	34	1.70
1362619--1362651	17	2.1	17	88	11	52	24	27	15	33	1.95
1369360--1369403	21	2.0	22	86	4	63	68	0	2	29	1.02
1369413--1369473	19	3.2	19	78	15	63	14	1	9	73	1.16
1369420--1369474	10	5.9	9	81	12	58	14	1	9	74	1.14
1374116--1374150	17	2.1	17	88	0	52	11	17	0	71	1.14
1389440--1389506	36	1.9	35	88	8	102	20	28	31	19	1.97
1393268--1393421	31	5.0	31	87	7	206	37	22	18	21	1.94
1397274--1397358	29	2.9	29	75	10	91	32	3	4	58	1.36
1397307--1397521	99	2.2	98	88	2	313	31	7	5	55	1.51
1403900--1403942	16	2.7	16	81	0	59	16	16	20	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403901--1404040	32	4.4	30	78	9	102	15	13	25	45	1.83
1416270--1416345	31	2.5	31	82	0	98	47	13	9	30	1.73
1424815--1424868	20	2.9	19	81	10	67	37	16	11	35	1.84
1427692--1427740	13	3.5	13	77	20	53	16	38	22	22	1.92
1427694--1427732	17	2.2	17	90	4	60	17	41	23	17	1.91
1427749--1427822	29	2.6	29	91	0	112	25	8	18	47	1.76
1428524--1428596	24	3.0	24	83	0	101	24	13	20	41	1.89
1428613--1428649	2	18.5	2	100	0	74	48	0	0	51	1.00
1440738--1440898	65	2.5	65	85	5	211	28	19	22	29	1.98
1441399--1441475	2	39.5	2	94	5	140	50	0	0	49	1.00
1449475--1449523	19	2.7	17	84	9	53	26	20	28	24	1.99
1450389--1450725	5	68.8	5	69	22	145	53	4	1	40	1.32
1450412--1450724	2	166.5	2	67	26	154	52	4	1	41	1.32
1450392--1450725	7	45.9	7	71	21	201	52	4	1	40	1.32
1464767--1464813	20	2.2	22	81	11	62	21	6	19	53	1.67
1472039--1472337	150	2.0	150	96	3	559	29	21	22	27	1.99
1477239--1477277	19	2.1	19	85	9	53	56	2	0	41	1.13
1483850--1483892	4	10.8	4	100	0	86	23	0	0	76	0.78
1486819--1486854	17	2.1	17	89	0	54	19	47	19	13	1.83
1491884--1491931	13	3.3	13	75	25	51	18	41	22	16	1.90
1491870--1491925	18	3.1	18	92	0	85	17	44	23	14	1.85
1496198--1496503	160	1.9	155	93	6	526	40	12	9	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496817--1496858	22	2.0	21	86	9	59	33	7	0	59	1.25
1498528--1498608	38	2.0	41	93	6	141	35	17	16	30	1.92
1501556--1501925	188	2.0	181	96	3	677	29	13	21	35	1.92
1503063--1503106	16	2.8	16	80	10	54	34	4	34	27	1.77
1503412--1503446	19	1.9	17	88	11	52	34	2	0	62	1.10
1504284--1504355	19	3.8	19	98	0	135	29	16	29	25	1.97
1504970--1505079	40	2.8	40	92	0	175	33	26	16	23	1.95
1515391--1515446	21	2.8	20	78	7	69	44	17	5	32	1.72
1517585--1517644	23	2.6	23	84	5	77	40	5	16	38	1.71
1517558--1517720	87	1.9	87	88	0	245	41	10	14	34	1.80
1518012--1518733	182	4.0	182	87	3	1015	26	15	13	44	1.84
1518471--1518525	21	2.7	19	78	13	65	14	14	14	56	1.68
1518012--1518726	363	2.0	362	90	1	1121	26	15	13	43	1.84
1519559--1519602	22	2.0	22	86	0	61	25	0	13	61	1.32
1521189--1521239	14	3.9	13	71	7	50	72	1	9	15	1.19
1521329--1521459	37	3.6	36	70	18	92	68	2	6	22	1.24
1521415--1521469	20	2.7	20	77	5	65	67	1	3	27	1.17
1521943--1522047	37	2.8	37	85	0	138	32	12	14	40	1.83
1522780--1524467	106	16.0	105	90	2	2422	23	18	24	34	1.96
1525293--1525348	22	2.5	22	91	0	94	26	12	23	37	1.90
1525958--1525996	17	2.2	18	86	9	53	2	7	7	82	0.94
1525971--1526017	16	3.1	15	83	16	62	0	12	6	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527191--1527239	25	2.0	25	84	8	64	48	8	20	22	1.75
1527946--1527973	5	5.6	5	100	0	56	82	0	0	17	0.68
1529392--1529422	2	15.5	2	100	0	62	51	0	0	48	1.00
1529831--1529935	37	2.8	37	85	0	138	32	14	13	40	1.84
1531893--1532146	87	2.9	87	94	0	429	42	9	13	33	1.77
1535376--1535967	300	2.0	302	94	1	1035	35	15	14	34	1.88
1535661--1536244	183	3.2	182	94	1	980	33	16	14	35	1.89
1537441--1537491	3	17.0	3	85	0	57	23	33	5	37	1.79
1537445--1537508	12	5.3	12	86	0	74	20	32	7	39	1.81
1537445--1537508	6	10.7	6	82	0	56	20	32	7	39	1.81
1538956--1539701	193	3.8	198	91	4	1189	30	18	14	36	1.92
1538956--1539697	390	1.9	391	91	4	1214	30	18	14	36	1.91
1539930--1539978	19	2.6	19	96	0	89	57	10	0	32	1.32
1541762--1541826	32	2.0	33	87	3	96	23	47	0	29	1.52
1541872--1541922	21	2.4	21	83	6	68	17	27	7	47	1.75
1544287--1544344	19	3.1	18	79	13	64	20	15	12	51	1.75
1544129--1544480	176	2.0	179	85	6	484	28	16	13	41	1.87
1546710--1547228	260	2.0	259	96	1	970	33	24	11	29	1.91
1550124--1550163	21	1.9	21	90	10	64	52	0	10	37	1.35
1553961--1553998	20	1.9	20	88	0	58	26	34	26	13	1.93
1559015--1559061	23	2.0	23	83	0	58	21	12	8	57	1.62
1559028--1559076	23	2.1	23	84	0	62	22	16	4	57	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564104--1564196	45	2.0	46	97	2	179	60	15	13	10	1.59
1564218--1564244	14	1.9	14	100	0	54	74	14	11	0	1.08
1570560--1570598	4	10.2	4	89	10	64	51	25	0	23	1.49
1570973--1571274	102	3.0	104	76	14	308	31	16	11	41	1.84
1571277--1571381	34	3.1	35	81	9	135	34	20	11	33	1.89
1571408--1571478	31	2.3	30	79	15	83	35	16	14	33	1.89
1571541--1571711	63	2.7	64	81	7	183	29	11	14	45	1.79
1571719--1571810	30	3.1	29	79	14	91	27	18	14	40	1.89
1571766--1571906	28	5.0	29	77	16	127	26	10	17	46	1.80
1571800--1571901	26	3.7	26	75	20	91	24	8	17	49	1.75
1571851--1572071	90	2.5	88	79	15	240	27	12	14	45	1.80
1572180--1572259	29	2.8	29	94	0	133	22	12	15	50	1.77
1572279--1572354	40	1.9	39	94	2	134	19	38	18	23	1.93
1572413--1572488	40	1.9	39	83	2	98	23	32	15	27	1.95
1572268--1572626	134	2.7	134	89	0	529	25	30	17	25	1.98
1579444--1579495	21	2.5	21	81	3	61	38	19	25	17	1.93
1579463--1579557	41	2.3	41	80	3	102	35	21	21	22	1.96
1579484--1579577	20	4.7	20	78	2	80	31	23	19	25	1.98
1579526--1579579	20	2.7	19	88	8	81	24	25	20	29	1.99
1580088--1580143	19	2.9	19	86	2	85	48	23	17	10	1.79
1580149--1580214	19	3.7	19	72	15	68	12	22	22	42	1.87
1580154--1580236	33	2.5	34	94	2	141	12	22	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580171--1580227	14	3.6	14	72	22	51	10	24	24	40	1.87
1582287--1582458	42	4.1	42	79	1	193	21	37	17	23	1.94
1582354--1582468	21	5.5	21	65	10	65	22	33	21	22	1.98
1582284--1582458	83	2.1	84	98	1	343	21	37	17	23	1.94
1583827--1583860	14	2.4	14	95	0	59	32	0	23	44	1.54
1583983--1584039	14	3.7	14	75	20	60	43	22	24	8	1.81
1583965--1584054	33	2.7	33	94	0	153	43	21	22	13	1.87
1583965--1584025	19	3.5	19	74	21	69	44	21	22	11	1.84
1584088--1584144	19	3.4	19	68	31	65	14	21	19	45	1.85
1584049--1584144	31	3.1	31	90	4	149	16	20	20	41	1.90

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