genome.fa.s7733.2.7.7.80.10.50.1000.6.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: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1979160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 996 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)
1298318--1298356	19	2.1	19	100	0	78	33	20	30	15	1.94
1300492--1300538	22	2.2	21	85	7	60	68	2	6	23	1.24
1304200--1304278	36	2.2	37	88	8	119	49	8	10	31	1.67
1314503--1314562	20	3.0	19	80	7	66	25	36	26	11	1.90
1316777--1316826	25	2.0	25	96	0	91	42	0	34	24	1.55
1316778--1316833	25	2.5	22	82	11	60	39	0	41	19	1.52
1319753--1319834	33	2.5	33	91	0	128	20	23	15	40	1.91
1320189--1320274	25	3.8	24	84	9	110	15	10	19	54	1.69
1328922--1328962	8	5.2	8	82	5	57	34	0	29	36	1.58
1329033--1329914	128	6.9	128	96	1	1619	23	25	19	31	1.98
1329033--1329914	381	2.3	384	96	1	1628	23	25	19	31	1.98
1330315--1330414	33	3.0	34	82	2	130	39	2	4	55	1.30
1330940--1331021	21	3.9	21	92	4	121	20	24	36	18	1.95
1331031--1331078	21	2.3	21	85	0	60	22	12	39	25	1.89
1332829--1332898	34	2.1	34	84	7	90	65	5	0	28	1.15
1332814--1332886	19	4.3	18	74	20	59	61	2	0	35	1.10
1332823--1332886	19	3.7	18	76	19	64	62	3	0	34	1.11
1334487--1334545	28	2.1	28	93	0	100	27	10	18	44	1.82
1335006--1335077	29	2.5	29	88	0	99	23	34	31	9	1.87
1335026--1335094	29	2.4	29	100	0	138	23	30	37	8	1.85
1335109--1335161	28	2.0	27	92	7	90	20	16	47	15	1.83
1335144--1335190	19	2.5	19	93	6	78	19	17	44	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335230--1335258	14	2.1	14	100	0	58	20	20	37	20	1.94
1335281--1335314	17	2.0	17	88	0	50	23	41	0	35	1.55
1335813--1335856	21	2.1	21	91	0	70	29	0	15	54	1.42
1336338--1336399	17	3.4	17	73	16	61	40	0	11	48	1.39
1336360--1336403	23	2.0	23	81	4	54	40	0	9	50	1.34
1336633--1336688	26	2.2	26	80	6	60	51	7	1	39	1.40
1339703--1339737	17	2.0	18	94	5	63	57	0	5	37	1.23
1339930--1340106	42	4.3	42	70	19	115	43	2	10	43	1.53
1339977--1340162	26	7.5	25	74	13	147	45	4	8	41	1.55
1340001--1340188	98	1.9	97	86	3	270	42	4	9	43	1.57
1339921--1340166	124	2.0	120	85	6	334	45	4	8	41	1.55
1340177--1340514	60	5.6	59	77	14	311	41	0	13	45	1.45
1340199--1340805	109	5.4	109	74	14	533	41	0	12	45	1.45
1340177--1340763	169	3.4	176	74	17	542	41	0	12	45	1.45
1340275--1340769	130	3.7	127	78	14	475	41	0	12	45	1.44
1340487--1340666	11	16.6	11	70	25	82	41	0	13	44	1.48
1340490--1340595	21	5.2	21	78	13	105	43	0	11	45	1.40
1340308--1340726	211	2.0	212	95	0	750	41	0	12	45	1.45
1340511--1340769	60	4.1	60	84	10	356	41	0	12	45	1.45
1340617--1340720	22	4.3	24	70	24	67	39	0	14	45	1.51
1340642--1340815	49	3.4	47	75	20	154	40	1	12	45	1.50
1340701--1340815	49	2.4	46	87	8	176	39	0	13	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340431--1340775	131	2.5	139	89	6	537	41	0	13	45	1.46
1340308--1340781	131	3.5	130	83	10	512	41	0	13	44	1.45
1343034--1343064	15	2.1	14	94	5	53	54	6	0	38	1.26
1343387--1343427	22	1.9	21	85	5	55	53	19	0	26	1.45
1343527--1343573	14	3.5	13	77	11	51	2	40	0	57	1.11
1343568--1343632	26	2.4	27	84	10	87	7	33	7	50	1.59
1343675--1343741	33	2.0	33	91	0	107	28	26	10	34	1.90
1343861--1343899	18	2.1	19	95	4	71	25	17	56	0	1.41
1343915--1343996	29	2.8	29	86	0	110	14	20	40	24	1.90
1343941--1344021	29	2.7	29	86	3	108	13	17	43	25	1.86
1348784--1348808	6	4.2	6	100	0	50	20	16	64	0	1.30
1348872--1348915	13	3.5	13	87	6	63	18	50	15	15	1.79
1348881--1348916	12	2.9	12	91	4	54	19	52	16	11	1.73
1349029--1349066	12	3.2	12	100	0	76	23	50	18	7	1.73
1351050--1351103	25	2.2	25	93	0	90	5	14	16	62	1.49
1354811--1354871	20	3.0	20	81	11	63	24	4	3	67	1.26
1354822--1354871	19	2.5	20	81	12	59	24	4	2	70	1.15
1355576--1355612	16	2.3	16	95	0	65	62	0	5	32	1.18
1360196--1360266	35	2.0	35	100	0	142	40	16	2	39	1.64
1360426--1360472	15	3.1	16	77	20	55	42	0	23	34	1.54
1360734--1360844	55	2.0	55	91	1	179	26	13	27	32	1.94
1372701--1372774	3	24.7	3	100	0	148	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377394--1377432	20	2.0	20	94	0	69	35	5	17	41	1.72
1377446--1377483	19	2.0	20	89	5	60	39	5	13	42	1.66
1377393--1377541	52	2.9	51	92	5	246	33	5	12	48	1.64
1377498--1377537	20	2.0	20	95	0	71	37	5	12	45	1.64
1382106--1382144	20	2.0	20	94	0	69	35	5	17	41	1.72
1382158--1382195	19	2.0	20	85	15	53	36	5	13	44	1.66
1382105--1382254	52	2.9	52	94	4	266	32	6	13	48	1.67
1382210--1382250	20	2.0	21	90	4	66	36	4	14	43	1.67
1387008--1387063	25	2.2	25	87	0	76	25	16	12	46	1.81
1387083--1387139	28	2.0	28	86	6	80	33	14	17	35	1.90
1389569--1389800	73	3.2	73	93	0	383	23	17	27	31	1.97
1389816--1390142	93	3.5	92	77	6	268	26	18	19	35	1.95
1395265--1395878	153	4.0	152	83	1	642	34	24	24	16	1.95
1396883--1396924	21	2.0	21	90	0	66	19	9	14	57	1.64
1397690--1397740	14	3.6	14	76	10	50	62	3	1	31	1.24
1397687--1397743	28	2.0	28	93	0	96	59	5	1	33	1.30
1400086--1400143	18	3.2	18	87	0	80	29	3	22	44	1.69
1402146--1402189	23	1.9	23	81	9	54	43	15	2	38	1.60
1411454--1411537	35	2.3	34	80	11	96	45	0	3	51	1.18
1413466--1413572	21	5.1	21	95	1	180	38	14	23	23	1.92
1413566--1413703	41	3.4	41	74	2	116	36	23	15	23	1.94
1413611--1413677	20	3.3	20	82	0	89	29	29	11	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413870--1413913	22	2.0	22	90	0	70	20	43	15	20	1.88
1414176--1414225	20	2.5	20	86	0	64	16	20	26	38	1.92
1414365--1414421	25	2.3	24	77	14	62	21	8	17	52	1.71
1415550--1415597	18	2.7	18	93	0	87	27	45	12	14	1.81
1416138--1416204	20	3.4	20	81	2	73	40	22	20	16	1.91
1416177--1416273	19	5.6	19	71	22	97	47	21	18	12	1.81
1416193--1416251	14	3.9	14	72	20	55	50	23	15	10	1.74
1416177--1416268	33	2.8	33	96	0	166	48	21	17	11	1.79
1416299--1416385	20	4.4	20	83	1	104	14	24	24	36	1.93
1416373--1416410	20	2.0	20	89	5	60	23	13	28	34	1.92
1416745--1416853	44	2.5	44	82	4	114	22	40	15	22	1.91
1418242--1418280	14	2.8	14	84	0	51	35	0	17	46	1.49
1418451--1418526	20	3.8	20	72	6	73	17	19	21	42	1.90
1418439--1418542	40	2.9	34	76	15	109	15	22	22	40	1.91
1418738--1418829	20	4.6	20	73	2	76	20	18	21	39	1.93
1418814--1418865	20	2.5	21	87	3	70	21	23	17	38	1.93
1419644--1419697	24	2.2	24	90	0	81	22	16	20	40	1.91
1419872--1419896	12	2.1	12	100	0	50	72	0	28	0	0.86
1422138--1422267	19	7.6	19	64	23	74	16	22	18	43	1.88
1422144--1422267	33	3.8	32	85	8	169	15	21	18	44	1.86
1422365--1422401	14	2.6	14	91	0	65	45	24	0	29	1.53
1423751--1423817	21	3.2	21	68	4	55	19	20	35	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423751--1423873	42	2.9	41	79	7	113	22	18	36	21	1.95
1425971--1426036	33	2.0	34	90	3	107	39	22	24	13	1.90
1425975--1426077	52	2.0	53	90	1	163	41	22	23	12	1.88
1425947--1426083	19	7.6	19	70	18	96	44	19	22	13	1.85
1426087--1426131	19	2.4	19	92	0	72	8	17	26	46	1.78
1426682--1426732	20	2.5	20	81	6	59	25	19	21	33	1.97
1426740--1426795	20	2.8	20	97	0	103	41	23	19	16	1.90
1426869--1426917	21	2.3	22	79	6	66	36	16	26	20	1.93
1426700--1426961	143	1.8	143	80	8	318	32	17	20	28	1.96
1427189--1427288	51	2.0	51	82	7	123	39	10	11	40	1.74

Tables:   1   2   3   4   5   6   7   8   9