genome.fa.s8310.2.7.7.80.10.50.1000.7.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

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

This is table  7  of  15  ( 1695 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)
1340166--1340209	19	2.3	19	84	4	52	68	2	9	20	1.28
1364057--1364201	77	1.9	79	84	8	199	41	8	5	44	1.59
1374099--1374241	65	2.2	64	81	3	153	27	17	23	31	1.97
1376148--1376174	6	4.5	6	100	0	54	18	0	29	51	1.46
1376902--1376981	23	3.6	23	76	6	92	26	25	23	25	2.00
1386058--1386135	30	2.6	30	85	4	95	39	20	30	8	1.83
1386058--1386144	30	2.9	31	82	3	88	37	20	29	11	1.88
1386368--1386423	24	2.3	24	100	0	112	37	16	17	28	1.91
1394759--1394810	19	2.8	19	82	8	63	26	34	13	25	1.93
1394882--1394916	18	2.0	17	88	5	52	34	22	14	28	1.93
1394758--1394918	65	2.5	65	80	5	184	31	26	15	26	1.96
1406411--1406474	21	3.0	21	77	4	67	21	42	6	29	1.78
1407274--1407317	21	2.1	21	86	0	61	6	34	15	43	1.74
1408367--1408405	19	2.1	19	95	0	69	20	38	15	25	1.92
1408353--1408513	65	2.5	64	80	3	189	31	26	15	26	1.96
1411289--1411340	23	2.3	23	86	3	70	19	34	21	25	1.96
1415301--1415332	6	5.3	6	96	0	55	37	12	34	15	1.85
1417483--1417515	15	2.2	15	100	0	66	24	6	33	36	1.80
1419581--1419657	23	3.5	22	71	7	66	25	25	22	25	2.00
1424266--1424319	3	17.3	3	84	7	72	31	0	0	68	0.90
1424266--1424319	19	2.9	19	94	2	92	31	0	0	68	0.90
1425472--1425522	25	2.0	25	81	7	59	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425460--1425544	34	2.5	34	98	0	161	60	0	0	40	0.97
1437279--1437345	34	1.9	34	82	14	84	47	19	13	19	1.82
1444438--1444484	24	2.0	24	95	0	85	29	23	0	46	1.52
1445030--1445110	36	2.3	35	85	4	108	8	13	4	72	1.24
1445030--1445112	18	4.7	17	69	10	60	9	13	4	72	1.26
1446695--1446741	14	3.3	14	75	24	53	53	4	6	36	1.46
1448969--1449013	20	2.2	20	80	0	54	33	8	20	37	1.83
1449025--1449063	18	2.2	17	86	4	51	41	12	25	20	1.88
1449061--1449165	50	2.1	50	89	0	156	30	10	29	29	1.90
1449079--1449183	50	2.1	50	80	0	111	33	8	29	28	1.87
1461223--1461277	24	2.4	22	80	14	65	27	1	12	58	1.45
1464698--1464939	93	2.6	94	83	2	281	40	9	7	42	1.64
1464698--1464978	97	3.0	94	84	2	287	39	9	7	42	1.67
1476689--1477411	361	2.0	361	99	0	1437	34	26	14	24	1.93
1480672--1480696	11	2.3	11	100	0	50	28	16	0	56	1.41
1484187--1484242	24	2.3	24	84	0	67	44	12	8	33	1.73
1490650--1490702	19	2.7	20	73	2	54	33	13	30	22	1.92
1491107--1491615	54	9.6	54	87	4	707	30	19	17	33	1.95
1491107--1491638	159	3.3	161	88	3	742	31	18	17	33	1.94
1491126--1491615	213	2.3	209	87	5	700	30	19	17	32	1.95
1491453--1492166	357	2.0	357	90	2	1121	32	16	17	34	1.92
1491810--1491966	54	3.0	52	87	2	217	29	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498170--1498518	54	6.5	54	90	2	522	29	19	18	32	1.96
1500884--1500991	30	3.6	30	89	1	162	17	14	6	61	1.54
1500946--1501085	67	2.1	68	86	1	192	16	10	10	62	1.55
1500976--1501085	37	3.1	35	68	18	86	15	10	11	62	1.53
1501005--1501054	16	3.2	16	73	15	52	12	8	14	66	1.45
1501004--1501096	30	3.0	30	80	3	105	15	9	12	62	1.54
1500885--1501094	60	3.4	60	80	10	206	17	12	9	60	1.57
1502883--1502945	31	2.1	31	87	3	92	11	15	11	61	1.55
1503706--1503765	30	2.0	30	90	0	93	23	16	21	38	1.93
1505031--1505297	55	4.9	55	85	4	371	26	18	22	32	1.97
1505031--1505293	108	2.4	108	88	1	391	26	19	22	31	1.97
1505711--1505784	22	3.7	20	81	12	71	25	29	16	28	1.97
1505653--1505841	95	2.0	95	89	2	290	28	25	15	30	1.96
1510971--1511215	109	2.2	109	85	0	328	30	16	20	33	1.94
1510971--1511231	55	4.8	55	80	3	276	30	16	20	32	1.95
1511596--1511788	95	2.0	98	83	4	248	26	24	17	31	1.97
1512609--1512792	81	2.3	81	89	4	291	27	21	13	38	1.90
1512728--1513005	63	4.4	63	93	0	475	26	19	12	40	1.88
1513413--1513609	95	2.1	95	90	0	304	24	24	13	37	1.91
1513598--1513645	18	2.7	18	100	0	96	33	25	12	29	1.92
1515280--1515326	14	3.4	14	77	13	53	76	6	17	0	0.98
1515284--1515331	22	2.1	23	84	3	62	75	8	16	0	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516539--1516617	36	2.2	36	86	2	106	31	20	10	37	1.86
1516670--1516895	65	3.5	65	82	4	244	30	11	15	42	1.83
1516740--1516895	66	2.4	65	87	2	231	28	10	17	42	1.83
1516843--1516947	29	3.6	30	82	8	119	32	11	16	40	1.84
1516871--1516947	30	2.6	29	91	2	118	31	12	15	40	1.85
1516901--1517079	67	2.7	67	85	4	229	26	21	15	35	1.94
1517143--1517256	48	2.5	46	81	7	126	29	27	14	28	1.96
1517590--1517621	3	10.7	3	100	0	64	34	0	0	65	0.93
1519101--1519371	30	9.2	29	80	6	251	17	11	8	63	1.51
1519113--1519369	117	2.2	114	83	8	311	16	11	8	63	1.51
1523269--1523389	20	6.0	20	80	5	136	33	23	16	26	1.96
1523354--1523403	20	2.5	20	76	0	55	28	26	16	30	1.96
1523958--1524021	19	3.4	19	95	0	110	50	25	15	9	1.74
1524058--1524113	14	3.6	14	74	21	58	12	25	23	39	1.89
1524039--1524137	33	3.0	33	92	1	162	12	25	22	40	1.88
1524017--1524162	19	8.1	19	72	17	114	13	23	19	43	1.86
1526220--1526264	21	2.1	21	100	0	90	17	40	13	28	1.88
1527679--1527714	14	2.6	14	95	0	63	30	0	25	44	1.54
1527821--1527887	19	3.8	19	77	18	81	44	20	22	11	1.84
1527896--1528019	33	3.9	31	85	8	178	16	22	19	41	1.89
1527889--1528018	63	2.0	65	92	4	219	17	21	19	41	1.90
1527915--1528046	63	2.1	64	80	5	142	18	21	19	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530305--1530341	12	3.1	12	100	0	74	0	27	0	72	0.84
1531374--1531452	20	3.9	20	77	9	70	35	22	18	22	1.96
1531412--1531461	20	2.5	20	80	0	73	38	22	18	22	1.94
1531675--1531741	20	3.3	20	73	8	73	40	20	20	17	1.92
1531659--1531762	40	2.9	34	76	15	109	40	21	22	16	1.91
1531774--1531827	14	3.5	14	77	22	63	11	20	20	48	1.80
1531756--1531826	33	2.2	33	84	0	88	19	19	21	39	1.93
1531954--1531990	14	2.6	14	86	0	56	48	21	0	29	1.50
1533433--1533492	21	2.9	20	73	11	59	20	11	45	23	1.83
1533859--1533925	20	3.5	20	78	11	77	38	23	22	14	1.92
1533973--1534030	14	3.9	14	79	16	71	10	17	24	48	1.78
1533956--1534046	32	2.8	33	94	3	166	12	18	21	47	1.81
1534031--1534074	20	2.2	20	88	4	63	18	25	20	36	1.95
1534567--1534611	18	2.5	18	88	0	72	13	15	44	26	1.83
1535928--1535986	20	3.0	20	87	0	73	42	22	18	16	1.89
1536480--1536614	20	6.7	20	85	5	155	24	18	25	31	1.97
1536460--1536613	61	2.5	61	82	3	186	24	17	24	33	1.96
1536480--1536635	81	1.9	81	82	2	197	23	19	24	32	1.98
1538541--1538565	12	2.1	12	100	0	50	32	0	68	0	0.90
1538475--1538630	73	2.2	72	98	1	303	30	4	43	21	1.72
1538778--1538848	27	2.5	28	81	11	81	35	7	52	5	1.52
1544703--1544807	24	4.4	24	76	7	106	50	16	14	19	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564890--1564922	17	2.0	17	88	5	50	24	3	30	42	1.70
1565101--1565140	21	2.0	20	85	5	53	67	0	0	32	0.91
1565497--1565646	42	3.6	42	82	1	167	29	22	17	30	1.97
1566037--1566127	47	1.9	48	88	6	141	57	0	4	38	1.19
1566037--1566143	47	2.3	46	84	11	119	59	0	5	34	1.21
1567555--1567714	87	1.8	87	95	0	293	43	11	13	31	1.80
1567850--1568871	182	5.6	182	94	1	1766	27	16	12	42	1.85
1573016--1573050	12	2.9	12	91	0	52	25	31	5	37	1.80
1574539--1575140	190	3.2	191	88	10	861	31	17	15	35	1.91
1574981--1575303	160	2.0	158	91	7	517	29	16	17	36	1.92

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