genome.fa.s9584.2.7.7.80.10.50.1000.6.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: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2003061

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 921 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)
1347597--1347664	30	2.2	30	84	7	82	27	10	22	39	1.86
1347698--1347781	39	2.2	39	86	0	123	10	11	36	40	1.77
1347712--1347792	39	2.1	39	88	4	119	13	9	35	40	1.78
1347946--1348002	26	2.2	26	93	0	96	19	17	24	38	1.93
1348741--1348769	2	14.5	2	100	0	58	48	0	0	51	1.00
1350517--1350542	13	2.0	13	100	0	52	15	53	0	30	1.42
1355406--1355434	10	2.9	10	100	0	58	41	0	37	20	1.53
1356465--1356510	16	2.9	16	87	3	67	54	6	0	39	1.26
1358722--1358763	14	2.7	15	85	14	59	71	2	7	19	1.20
1362877--1362930	22	2.6	22	88	8	78	27	29	20	22	1.98
1362955--1363008	21	2.5	22	88	8	76	27	27	16	27	1.97
1366113--1366147	3	11.7	3	93	0	61	28	0	2	68	1.04
1367875--1367915	22	1.9	22	95	5	75	34	2	4	58	1.32
1371648--1371715	20	3.2	20	82	14	75	76	7	16	0	1.00
1371636--1371708	25	3.0	25	74	20	73	76	5	16	1	1.04
1371663--1371718	21	2.7	20	76	21	53	78	7	14	0	0.95
1371645--1371732	19	4.7	18	70	20	56	76	7	14	1	1.07
1373433--1373548	36	3.2	34	81	11	133	30	19	14	35	1.92
1373450--1373556	37	3.0	36	82	9	128	31	18	13	36	1.89
1373312--1373708	175	2.2	176	87	3	559	32	17	12	37	1.87
1373626--1373730	36	2.9	36	82	1	129	34	16	11	38	1.84
1373768--1373826	31	1.9	31	93	3	102	30	15	11	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373893--1374110	64	3.3	64	81	8	233	31	10	13	44	1.78
1374078--1374240	29	5.5	31	76	16	116	31	12	12	42	1.80
1374095--1374157	33	1.9	33	90	6	101	31	17	12	38	1.87
1374283--1374363	29	2.8	29	73	1	81	28	17	13	40	1.87
1374355--1374494	65	2.2	64	84	2	174	33	11	13	41	1.80
1374334--1374494	63	2.5	63	81	4	189	30	11	13	44	1.80
1374459--1374594	74	1.9	72	83	8	179	33	14	13	38	1.85
1374714--1374794	28	2.8	26	77	17	81	28	16	13	41	1.86
1374747--1374810	28	2.3	28	83	0	83	28	20	14	37	1.91
1374878--1375171	134	2.2	134	85	3	367	25	30	18	24	1.98
1375364--1375405	18	2.5	17	92	7	68	30	0	0	69	0.89
1375404--1375432	3	9.7	3	100	0	58	0	0	31	68	0.89
1379154--1379188	18	1.9	18	100	0	70	31	34	17	17	1.93
1384901--1384957	22	2.8	21	84	7	64	26	28	19	26	1.99
1392064--1392131	31	2.2	31	81	5	75	44	10	2	42	1.53
1398667--1398707	21	2.0	21	95	0	73	48	14	9	26	1.75
1401156--1401218	19	3.3	19	90	0	99	33	31	12	22	1.91
1409862--1410020	66	2.5	62	82	11	187	35	22	15	27	1.94
1409998--1410040	19	2.4	19	88	7	63	23	27	18	30	1.98
1411456--1411494	18	2.2	18	85	0	51	23	5	38	33	1.77
1414279--1414335	24	2.4	24	84	0	69	54	17	10	17	1.70
1414299--1414335	12	3.1	12	84	0	56	54	16	16	13	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416589--1416632	17	2.6	17	74	25	56	29	22	29	18	1.97
1417805--1418055	129	2.0	123	82	6	297	38	12	17	30	1.88
1418095--1418137	15	2.9	15	83	10	52	46	2	2	48	1.27
1418095--1418132	16	2.4	16	86	4	51	39	2	2	55	1.28
1418392--1418449	30	1.9	30	89	6	91	43	12	3	41	1.59
1427856--1428054	109	1.8	109	91	2	328	31	20	12	36	1.90
1429542--1429613	16	4.4	16	82	8	83	51	2	4	41	1.35
1429553--1429613	16	3.8	16	88	0	86	49	3	4	42	1.40
1429813--1429850	20	1.9	20	88	0	58	23	15	13	47	1.81
1430181--1430382	54	3.7	54	76	10	178	25	17	13	43	1.86
1430499--1430545	17	2.9	16	90	9	69	42	2	6	48	1.40
1431633--1431684	19	2.7	19	100	0	104	34	26	21	17	1.95
1439152--1439195	21	2.1	21	86	0	61	9	36	15	38	1.80
1440201--1440406	64	3.2	64	81	8	213	30	24	16	27	1.97
1441600--1441647	16	2.9	17	90	6	73	41	6	4	47	1.48
1441829--1441917	45	2.0	45	95	0	160	28	23	11	37	1.89
1444080--1444131	26	2.0	26	85	11	70	59	13	13	13	1.61
1444866--1444930	33	2.0	32	87	3	94	55	3	3	38	1.31
1444868--1444931	16	3.9	17	75	6	69	56	3	1	39	1.25
1450900--1450958	21	2.8	21	75	17	59	50	1	1	45	1.21
1452464--1452540	3	25.3	3	87	7	84	58	0	0	41	0.98
1452456--1452540	22	3.8	22	89	7	127	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452857--1453208	112	3.0	111	77	12	411	29	18	13	38	1.88
1452772--1453208	236	1.9	235	89	2	682	28	19	13	39	1.89
1453255--1453685	215	2.0	216	99	0	855	32	12	16	37	1.87
1454768--1454801	9	3.7	9	96	4	59	8	8	0	82	0.85
1454733--1454787	29	1.9	29	89	10	87	14	16	0	69	1.20
1454767--1454801	10	3.6	10	92	7	63	8	8	0	82	0.83
1462099--1462130	15	2.1	15	94	0	55	46	6	21	25	1.74
1465383--1465435	24	2.2	25	77	16	58	66	1	1	30	1.13
1465404--1465457	28	2.0	27	88	3	81	59	0	5	35	1.21
1465841--1465878	20	1.9	20	84	10	51	28	5	5	60	1.40
1466245--1466290	3	15.3	3	90	0	74	63	0	4	32	1.14
1466248--1466290	15	2.9	15	100	0	86	62	0	4	32	1.15
1466842--1466882	15	2.7	15	96	0	73	12	26	0	60	1.31
1467676--1467736	3	20.3	3	83	6	61	57	0	0	42	0.98
1467658--1467736	24	3.2	24	77	13	79	53	0	0	46	1.00
1470855--1470923	29	2.4	29	97	2	131	40	7	10	42	1.66
1473568--1473637	18	4.0	17	73	12	61	38	8	15	37	1.78
1473737--1473775	20	2.0	20	89	0	60	41	20	7	30	1.80
1474892--1474938	13	3.6	13	88	0	76	51	27	2	19	1.58
1479566--1479658	31	3.0	31	84	7	109	27	24	7	39	1.82
1485731--1485774	18	2.5	19	82	14	58	70	0	13	15	1.17
1488516--1488652	59	2.3	59	77	5	152	28	16	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1495853--1495989	59	2.3	59	81	2	177	28	18	24	27	1.98
1499828--1499930	53	1.9	53	94	0	179	25	13	18	42	1.87
1502733--1502792	22	2.9	20	73	9	57	21	15	15	48	1.81
1504242--1504679	54	8.1	54	89	1	617	33	13	16	36	1.88
1505407--1505437	14	2.2	14	94	0	53	51	3	0	45	1.17
1505633--1505709	24	3.2	24	87	3	111	51	18	7	22	1.71
1510083--1510160	24	3.2	24	81	3	86	52	16	12	17	1.74
1510097--1510161	12	5.4	12	71	0	58	52	15	13	18	1.75
1514661--1514720	24	2.5	24	75	0	57	51	15	13	20	1.75
1519235--1519361	12	10.6	11	68	20	51	55	15	12	15	1.69
1519260--1519343	24	3.5	23	83	0	87	57	16	11	14	1.66
1519301--1519361	24	2.5	24	86	0	77	59	13	13	14	1.63
1528002--1528438	54	8.1	54	84	2	547	33	13	17	35	1.89
1540284--1540334	23	2.2	23	82	6	59	33	0	37	29	1.58
1546570--1546671	50	2.0	50	100	0	204	26	17	17	38	1.92
1552819--1552852	13	2.6	13	95	0	59	35	17	17	29	1.93
1555903--1555947	24	1.9	24	90	4	74	71	2	0	26	0.98
1558496--1558521	10	2.6	10	100	0	52	7	7	0	84	0.77
1564139--1564196	2	29.0	2	100	0	116	50	0	0	50	1.00
1565773--1565991	45	4.9	45	93	0	330	28	21	8	40	1.83
1566028--1566357	81	4.1	81	87	1	475	28	20	13	37	1.90
1566953--1566993	19	2.2	19	86	0	55	31	21	12	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567017--1567088	20	3.6	20	88	3	92	15	34	18	31	1.92
1570263--1570320	28	2.1	28	81	12	66	50	3	1	44	1.29
1571120--1571148	10	2.9	10	100	0	58	68	10	10	10	1.39
1572566--1572665	3	33.0	3	78	6	76	58	0	4	38	1.17
1581400--1582102	134	5.3	133	82	4	808	30	14	20	33	1.93
1581400--1582106	267	2.6	263	84	5	866	30	14	21	33	1.93
1583371--1583413	2	22.0	2	90	4	70	46	0	2	51	1.13
1589988--1590022	18	2.0	18	94	5	63	80	5	2	11	1.00
1593920--1593949	15	2.0	15	100	0	60	66	6	0	26	1.16
1594132--1594544	137	3.0	136	81	3	461	27	16	28	28	1.97

Tables:   1   2   3   4   5   6   7   8