genome.fa.s8935.2.7.7.80.10.50.1000.6.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: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775090

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1015 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)
1325935--1326037	38	2.7	39	81	6	138	24	15	20	39	1.91
1332988--1333068	29	2.8	30	88	5	121	27	0	41	30	1.56
1333250--1333401	50	3.0	50	94	0	259	28	24	17	29	1.97
1333428--1334168	44	16.8	44	67	7	281	29	21	21	28	1.98
1333350--1334180	133	6.2	133	94	0	1367	29	21	21	27	1.98
1333350--1334180	265	3.1	266	93	0	1405	29	21	21	27	1.98
1333350--1334180	398	2.1	400	94	0	1450	29	21	21	27	1.98
1334985--1335019	7	5.3	7	86	13	56	0	14	0	85	0.59
1334985--1335019	6	5.5	6	90	10	52	0	14	0	85	0.59
1334985--1335019	13	2.7	13	100	0	70	0	14	0	85	0.59
1347741--1347821	29	2.8	30	88	5	121	27	0	41	30	1.56
1351820--1351866	20	2.4	20	82	10	53	4	27	2	65	1.22
1356931--1357798	436	2.0	434	88	2	1276	23	21	14	40	1.89
1358225--1358259	18	1.9	18	88	0	52	37	17	28	17	1.92
1359945--1360040	40	2.4	40	91	0	156	31	18	10	39	1.85
1359948--1360014	20	3.3	20	67	22	59	31	19	10	38	1.85
1361827--1361888	14	4.4	14	85	0	88	16	12	16	54	1.71
1362143--1362206	24	2.7	24	90	0	101	14	18	14	53	1.73
1362094--1362223	24	5.5	23	76	10	79	13	15	15	56	1.68
1366020--1366169	4	36.2	4	68	11	79	20	3	6	70	1.24
1366024--1366156	25	5.4	25	68	20	82	19	3	6	69	1.26
1366073--1366139	29	2.3	27	78	12	64	20	4	4	70	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367638--1367665	11	2.5	11	100	0	56	71	10	17	0	1.14
1374139--1374180	21	2.0	21	86	9	59	35	11	2	50	1.52
1376618--1376688	22	3.2	22	75	13	65	14	22	16	46	1.83
1378373--1378410	16	2.5	16	87	8	53	28	0	13	57	1.36
1383895--1384172	82	3.4	81	79	8	296	30	17	18	33	1.94
1384182--1384414	43	5.5	43	86	4	260	27	17	18	35	1.94
1389761--1389831	21	3.4	21	98	0	133	16	9	22	50	1.74
1390395--1390458	8	8.0	8	94	0	101	35	25	10	28	1.89
1396229--1396578	20	17.5	20	86	4	339	34	26	19	20	1.96
1396229--1396597	60	6.2	60	84	3	440	34	25	19	20	1.96
1396267--1396597	20	16.6	19	87	3	374	33	25	19	21	1.97
1397193--1397239	24	2.0	24	87	8	69	25	14	21	38	1.92
1397412--1397436	12	2.1	12	100	0	50	72	0	28	0	0.86
1399736--1400041	19	17.4	19	79	16	349	47	18	20	14	1.83
1399736--1400063	33	9.5	34	79	16	274	46	18	20	14	1.84
1399764--1400041	52	5.2	53	90	6	349	47	17	20	14	1.83
1399736--1400063	52	6.3	54	85	12	308	46	18	20	14	1.84
1400070--1400171	19	5.6	19	85	12	151	14	23	17	44	1.86
1400277--1400312	13	2.6	14	86	4	56	47	22	0	30	1.52
1400307--1400379	12	6.0	12	67	20	53	57	16	1	24	1.47
1402234--1402290	14	3.7	14	77	20	60	45	22	21	10	1.82
1402215--1402307	33	2.8	33	95	0	168	47	21	20	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402178--1402312	19	7.6	19	76	16	128	45	23	19	11	1.82
1402308--1402435	19	7.3	19	73	19	116	8	17	28	45	1.78
1402308--1402397	32	2.8	33	94	1	155	7	18	28	44	1.78
1402479--1402949	92	5.1	93	97	1	903	46	18	12	22	1.83
1404647--1404757	14	6.8	18	74	21	102	42	22	25	9	1.84
1404640--1404752	32	3.5	32	93	3	199	44	21	24	9	1.82
1404769--1404823	14	3.6	14	73	21	56	9	27	23	40	1.85
1404944--1405014	33	2.2	33	92	0	115	47	18	22	11	1.80
1405196--1405250	22	2.5	22	81	0	74	20	16	40	23	1.91
1405396--1405589	20	9.6	20	81	5	212	19	19	25	36	1.95
1405396--1405589	60	3.2	60	82	0	244	19	19	25	36	1.95
1405582--1405658	21	3.7	20	70	13	57	27	16	23	32	1.96
1405644--1405695	20	2.6	20	96	0	95	21	13	26	38	1.90
1406295--1406331	18	2.0	19	89	5	58	51	35	0	13	1.41
1411313--1411551	116	2.1	115	86	3	327	54	5	12	26	1.60
1412546--1412572	2	13.5	2	100	0	54	48	0	0	51	1.00
1412812--1412871	2	30.0	2	100	0	120	50	0	0	50	1.00
1413470--1413512	2	21.5	2	100	0	86	51	0	0	48	1.00
1413522--1413585	31	2.1	31	87	0	92	45	9	7	37	1.66
1413887--1413941	20	2.7	21	77	5	58	40	16	23	20	1.91
1413930--1414044	20	5.7	20	79	5	106	35	22	17	24	1.95
1413927--1414044	61	1.9	62	86	5	168	37	22	16	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413950--1414038	41	2.2	41	85	0	115	38	22	15	23	1.93
1414212--1414255	22	2.0	22	95	0	79	20	45	15	18	1.85
1414498--1414561	20	3.2	20	84	0	83	14	18	21	45	1.85
1414697--1414751	25	2.2	24	78	15	58	20	9	18	52	1.71
1416388--1416433	20	2.3	20	84	0	56	36	23	21	17	1.94
1416399--1416454	20	2.8	20	81	2	69	39	21	23	16	1.92
1416443--1416500	14	3.9	14	75	16	62	50	24	15	10	1.75
1416427--1416517	32	2.8	33	91	3	157	48	21	17	12	1.80
1416534--1416624	14	5.9	14	73	20	74	10	16	21	50	1.76
1416529--1416640	33	3.4	33	93	1	190	11	17	21	49	1.78
1416625--1416680	20	2.8	19	86	7	76	16	25	23	35	1.94
1417046--1417134	42	2.1	42	85	0	124	21	43	14	20	1.87
1418548--1418586	14	2.8	14	84	0	51	35	0	17	46	1.49
1418713--1418766	14	3.5	14	77	22	63	48	20	20	11	1.80
1418843--1418881	20	2.0	20	94	0	69	15	17	25	41	1.89
1419098--1419168	20	3.5	20	75	5	63	22	18	19	39	1.92
1419134--1419185	20	2.5	20	81	3	59	21	21	17	40	1.91
1419958--1420011	24	2.2	24	90	0	81	22	16	20	40	1.91
1420186--1420210	12	2.1	12	100	0	50	72	0	28	0	0.86
1422502--1422661	33	4.8	33	90	4	252	43	18	23	15	1.87
1422661--1422702	19	2.2	19	86	0	57	16	19	21	42	1.89
1422670--1422736	19	3.8	19	73	18	72	11	22	19	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422673--1422736	33	1.9	33	96	0	119	10	23	20	45	1.82
1422842--1422878	14	2.6	14	91	0	65	45	24	0	29	1.53
1424185--1424251	21	3.2	21	68	4	55	19	20	35	23	1.95
1424185--1424307	42	2.9	41	79	7	113	22	18	36	21	1.95
1424525--1424709	91	2.0	90	89	8	284	47	18	11	22	1.81
1425508--1425550	21	2.0	22	82	13	54	48	2	4	44	1.36
1426396--1426536	19	7.8	19	72	17	95	44	19	22	12	1.85
1426421--1426519	33	3.0	33	90	1	153	41	22	24	12	1.87
1426537--1426581	19	2.4	19	92	0	72	8	15	26	48	1.74
1427132--1427184	20	2.7	20	93	0	88	26	20	28	24	1.99
1427193--1427246	20	2.7	20	97	0	99	25	18	24	31	1.97
1427133--1427249	61	1.9	61	85	0	162	23	17	24	33	1.97
1427133--1427267	61	2.2	61	81	2	155	22	20	24	32	1.98
1427317--1427357	21	2.0	21	85	0	55	34	29	17	19	1.94
1428941--1429055	60	1.9	60	85	0	158	30	19	15	34	1.93
1430575--1431035	228	2.0	228	84	6	610	39	16	13	30	1.88
1432127--1432187	28	2.2	28	82	11	72	31	1	6	60	1.32
1434356--1434397	22	1.9	22	90	9	68	28	11	16	42	1.84
1438669--1438843	87	2.0	87	100	0	350	39	8	14	37	1.76
1438905--1438940	8	4.5	8	100	0	72	58	0	27	13	1.36
1439078--1439114	2	18.5	2	100	0	74	51	0	0	48	1.00
1440148--1440207	32	1.9	31	82	3	75	60	3	21	15	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440394--1440479	34	2.6	34	84	14	108	59	2	12	25	1.46
1440268--1440683	202	2.1	201	89	0	634	41	10	19	28	1.85
1440597--1440693	34	2.9	34	80	6	108	54	2	16	26	1.53
1442874--1442944	6	11.8	6	81	0	79	30	11	5	52	1.60
1442877--1442943	30	2.2	30	97	0	107	31	10	5	52	1.60
1442851--1442943	24	3.6	24	76	16	78	30	10	7	51	1.64
1444740--1444801	21	3.0	21	73	17	67	25	4	0	69	1.08
1444748--1444801	20	2.6	21	77	13	67	24	5	0	70	1.08
1444758--1444805	17	2.8	17	81	6	53	27	6	0	66	1.15
1444776--1444809	17	2.1	16	94	5	59	29	0	0	70	0.87

Tables:   1   2   3   4   5   6   7   8   9