genome.fa.s7909.2.7.7.80.10.50.1000.8.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: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3382237

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

This is table  8  of  17  ( 1978 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)
1350229--1350262	7	5.0	7	85	7	52	32	0	0	67	0.91
1350236--1350260	13	1.9	13	100	0	50	36	0	0	64	0.94
1355243--1355275	15	2.1	16	88	5	50	9	24	15	51	1.72
1356020--1356054	16	2.1	17	94	5	63	34	25	8	31	1.86
1357737--1357813	31	2.5	32	82	6	104	28	11	12	46	1.77
1362447--1362483	15	2.5	15	90	0	56	10	13	45	29	1.77
1369825--1369868	22	2.0	22	82	8	54	47	2	0	50	1.13
1370283--1370339	23	2.3	25	76	14	73	42	8	15	33	1.78
1370295--1370344	23	2.2	23	92	0	82	38	8	22	32	1.83
1370306--1370414	53	2.1	53	96	0	200	40	8	17	33	1.79
1370341--1370808	232	2.0	235	98	1	906	36	10	14	38	1.81
1370840--1371859	182	5.6	182	92	1	1712	27	16	12	42	1.85
1372368--1372414	20	2.4	19	79	10	58	21	17	8	53	1.70
1372335--1372808	182	2.6	181	87	2	662	27	16	13	43	1.85
1373475--1373511	19	1.9	19	94	0	65	32	29	16	21	1.95
1373584--1373633	21	2.4	21	89	0	73	20	20	30	30	1.97
1373623--1373663	20	2.0	21	95	4	75	19	26	24	29	1.98
1373625--1373670	20	2.3	20	88	7	67	21	23	23	30	1.99
1373909--1373954	22	2.1	22	87	0	65	63	8	8	19	1.49
1374224--1374253	15	1.9	16	93	6	53	33	0	0	66	0.92
1374216--1374259	16	2.7	17	79	10	56	38	0	2	59	1.10
1374416--1374463	21	2.3	20	79	6	60	33	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374543--1374588	19	2.4	19	85	3	56	21	17	30	30	1.96
1374554--1374590	19	1.9	19	94	0	65	21	16	29	32	1.95
1379905--1379954	20	2.6	20	81	15	61	34	18	22	26	1.96
1393738--1393777	17	2.3	18	86	8	64	27	5	0	67	1.11
1393755--1393811	26	2.2	26	96	0	105	26	3	1	68	1.15
1396787--1396811	2	12.5	2	100	0	50	48	0	0	52	1.00
1399854--1399991	68	2.0	69	94	1	242	47	8	14	29	1.74
1410739--1410763	2	12.5	2	100	0	50	48	0	0	52	1.00
1413563--1413608	24	1.9	24	90	0	74	32	19	21	26	1.97
1413640--1413685	23	2.0	23	91	0	74	34	26	21	17	1.95
1413722--1413772	19	2.6	19	96	3	93	35	15	11	37	1.84
1417151--1417264	20	5.6	19	70	13	68	33	29	11	25	1.91
1417257--1417392	20	6.8	20	73	11	84	25	23	12	38	1.90
1417296--1417392	40	2.4	40	83	6	117	28	22	12	36	1.91
1417564--1417602	16	2.5	15	84	8	51	28	5	0	66	1.12
1418199--1418232	12	2.8	12	90	0	50	55	29	0	14	1.40
1418353--1418399	24	2.0	24	100	0	94	29	19	17	34	1.94
1420652--1420686	12	2.9	12	82	0	52	45	31	5	17	1.71
1420646--1420685	18	2.2	18	90	0	62	50	30	2	17	1.59
1422390--1422485	21	4.7	21	84	6	126	20	18	37	22	1.94
1422770--1422821	21	2.5	21	80	0	59	30	26	21	21	1.98
1422830--1422945	21	5.5	22	71	10	73	31	32	12	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423060--1423164	42	2.5	42	87	0	147	19	18	36	26	1.94
1424641--1424717	20	3.8	20	92	0	109	50	18	18	12	1.77
1427294--1427340	21	2.1	21	84	7	58	21	6	17	55	1.64
1427732--1427781	20	2.5	20	76	3	55	80	4	14	2	0.95
1431907--1432193	24	11.6	25	85	5	370	22	18	23	35	1.96
1431908--1432193	49	5.8	49	85	4	371	22	18	23	35	1.96
1432488--1432540	17	3.2	17	84	12	74	22	0	0	77	0.77
1432488--1432540	6	9.6	5	82	17	61	22	0	0	77	0.77
1432488--1432548	27	2.3	27	83	13	81	22	0	1	75	0.89
1432488--1432540	11	4.7	11	82	13	72	22	0	0	77	0.77
1433330--1433364	17	2.0	18	88	5	54	25	5	0	68	1.11
1439028--1439084	24	2.4	24	72	0	60	24	17	17	40	1.91
1443170--1443228	29	2.0	29	100	0	118	49	13	13	23	1.78
1445037--1445144	15	7.2	15	91	0	180	30	32	22	14	1.94
1445037--1445144	30	3.6	30	98	0	207	30	32	22	14	1.94
1445229--1445302	29	2.6	29	97	2	141	18	21	16	43	1.88
1445318--1445364	24	2.0	24	83	8	60	38	23	6	31	1.80
1445331--1445364	12	2.8	12	90	0	50	41	23	2	32	1.69
1445673--1445897	64	3.5	63	83	6	206	26	20	20	32	1.97
1451616--1451738	15	8.2	15	93	0	201	30	32	22	14	1.94
1451823--1451896	29	2.6	29	97	2	141	18	21	16	43	1.88
1451912--1451958	24	2.0	24	83	8	60	38	23	6	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451925--1451958	12	2.8	12	90	0	50	41	23	2	32	1.69
1452269--1452445	64	2.8	64	82	5	198	25	20	22	32	1.98
1452269--1452493	64	3.5	63	81	6	197	26	20	20	32	1.97
1454713--1454799	43	2.0	43	86	0	120	31	16	5	47	1.70
1455287--1455330	21	2.1	21	100	0	88	43	9	9	38	1.68
1467380--1467409	16	1.9	16	93	6	53	50	6	0	43	1.28
1469048--1469150	53	1.9	53	94	0	179	41	19	14	24	1.89
1469952--1470015	23	2.8	24	76	7	69	29	21	26	21	1.99
1470869--1471012	64	2.2	64	80	9	168	25	20	21	32	1.98
1472724--1472785	2	31.0	2	100	0	124	50	0	0	50	1.00
1474981--1475049	23	3.0	23	86	0	93	26	24	27	21	1.99
1475152--1475199	2	24.0	2	100	0	96	50	0	0	50	1.00
1475293--1475350	27	2.1	27	84	6	73	29	22	5	43	1.75
1477511--1477562	21	2.5	20	87	9	70	32	26	11	28	1.91
1482345--1482397	19	2.8	20	77	16	58	75	3	13	7	1.15
1487739--1487968	41	5.6	41	69	10	128	33	18	15	32	1.92
1494008--1494040	12	2.5	13	85	14	50	36	0	63	0	0.95
1496534--1496558	2	12.5	2	100	0	50	48	0	52	0	1.00
1501497--1501837	170	2.0	170	99	0	673	27	26	15	30	1.96
1505476--1505663	60	3.1	60	80	3	164	33	19	4	43	1.70
1508213--1508277	32	2.0	32	91	5	105	41	9	16	32	1.80
1511180--1511211	12	2.7	12	90	0	55	18	9	31	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511588--1511680	29	3.2	29	75	10	75	45	17	18	19	1.86
1512294--1512345	17	3.1	16	83	5	59	21	17	32	28	1.96
1514097--1514216	64	1.9	64	79	10	138	66	1	7	24	1.26
1514230--1514287	16	3.6	16	72	9	55	77	1	5	15	1.02
1514309--1514365	25	2.3	25	82	14	73	70	0	10	19	1.16
1514414--1514456	18	2.4	18	92	0	68	72	0	6	20	1.08
1515694--1516142	85	5.3	85	85	3	571	24	18	21	35	1.96
1515694--1516140	171	2.6	170	87	3	621	24	19	21	35	1.96
1520201--1520347	9	15.4	9	68	17	66	76	1	6	15	1.04
1520241--1520344	16	7.0	15	69	15	74	77	1	5	14	1.03
1520194--1520305	42	2.7	41	80	6	111	74	0	6	18	1.08
1520241--1520347	5	20.0	5	70	21	58	78	1	5	14	1.01
1520144--1520290	68	2.2	66	81	8	170	70	1	6	21	1.17
1520242--1520347	42	2.6	40	85	11	135	79	1	5	13	0.99
1520283--1520353	37	1.9	36	88	8	108	76	1	8	14	1.09
1520369--1520416	20	2.3	20	85	7	60	68	2	12	16	1.29
1520377--1520416	20	2.0	20	90	5	62	70	0	12	17	1.18
1520467--1520512	18	2.5	19	82	10	60	71	0	6	21	1.08
1522042--1522079	19	2.0	20	84	5	51	31	5	10	52	1.58
1522964--1523006	22	1.9	23	85	4	61	39	4	2	53	1.34
1523177--1523239	24	2.6	25	82	5	67	26	3	1	68	1.14
1524604--1524638	18	1.9	18	94	0	61	31	5	17	45	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526356--1526441	29	2.9	29	81	6	84	46	3	4	45	1.41
1526850--1527297	229	2.0	227	94	1	781	45	8	7	39	1.61
1527363--1527408	20	2.3	19	89	10	74	54	10	17	17	1.70
1527528--1527573	20	2.3	20	86	13	69	54	8	17	19	1.68
1530698--1530741	19	2.4	19	92	3	72	31	2	9	56	1.43
1530824--1532247	399	3.6	399	97	0	2708	38	14	15	32	1.87
1530824--1532247	200	7.1	199	97	0	2661	38	14	15	32	1.87
1533709--1533806	6	16.3	6	76	8	56	38	7	32	21	1.81
1533737--1533810	3	24.7	3	78	0	76	35	5	33	25	1.79
1533712--1533802	42	2.2	42	87	0	128	37	7	32	21	1.82

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