genome.fa.s8942.2.7.7.80.10.50.1000.7.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: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2383254

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1310 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)
1268214--1268294	3	26.0	3	81	9	74	39	3	0	56	1.17
1272688--1272734	13	3.6	13	79	0	58	29	14	14	40	1.87
1272688--1272742	13	4.2	13	80	0	56	27	18	16	38	1.92
1272724--1272879	85	1.8	84	90	1	249	28	19	21	30	1.98
1276508--1276539	6	5.3	6	96	0	55	28	21	0	50	1.49
1281618--1282024	119	3.4	119	87	0	582	31	16	17	33	1.93
1281961--1282015	20	2.8	20	82	0	74	29	29	18	23	1.98
1282145--1282229	3	27.0	3	82	9	64	40	4	0	55	1.21
1292336--1292708	81	4.6	81	82	4	394	32	23	10	33	1.90
1292336--1293002	162	4.3	160	75	13	611	32	22	11	33	1.90
1292650--1293209	68	7.9	66	76	9	287	31	23	12	32	1.92
1292792--1292996	81	2.5	81	88	1	295	31	23	9	35	1.87
1292954--1293207	68	3.7	68	85	3	323	31	22	14	31	1.94
1292957--1293207	136	1.8	136	86	3	362	31	22	14	31	1.94
1293923--1293976	22	2.6	21	88	8	76	29	18	16	35	1.93
1298184--1298227	20	2.2	20	83	4	52	56	6	0	36	1.26
1320668--1321404	81	9.1	81	89	2	1052	35	11	22	30	1.89
1322632--1322690	26	2.3	26	85	2	75	22	11	25	40	1.88
1336304--1336342	20	2.0	20	90	5	62	33	0	28	38	1.57
1339240--1339491	54	4.7	54	84	1	317	32	21	18	27	1.97
1339261--1339461	107	1.9	108	92	1	341	34	19	17	28	1.95
1345869--1346165	54	5.5	54	85	2	355	37	20	17	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354703--1354746	23	1.9	23	85	0	61	54	2	4	38	1.33
1356237--1356285	21	2.3	20	86	13	71	53	16	0	30	1.43
1356541--1356589	24	2.1	23	84	3	62	32	16	28	22	1.95
1358088--1358132	18	2.6	17	82	6	54	28	2	0	68	1.01
1369373--1369415	21	2.0	23	86	9	63	34	6	11	46	1.67
1369604--1369699	20	4.8	20	84	2	129	20	36	27	15	1.93
1369604--1369699	41	2.4	41	91	1	149	20	36	27	15	1.93
1370977--1371023	19	2.5	19	79	6	51	53	8	8	29	1.61
1372386--1372426	19	2.2	19	90	0	64	24	39	21	14	1.91
1372393--1372446	19	2.8	20	91	8	85	18	37	27	16	1.93
1377007--1377369	30	12.3	29	74	11	240	41	9	1	48	1.42
1377007--1377160	59	2.6	61	82	7	190	38	7	1	51	1.42
1377261--1377319	23	2.5	22	86	8	73	37	8	0	54	1.31
1377502--1377565	23	2.7	23	80	9	67	51	0	6	42	1.27
1377502--1377548	25	2.0	25	87	8	71	53	0	6	40	1.27
1377535--1377583	18	2.8	17	78	6	53	42	0	12	44	1.41
1385511--1385558	23	2.1	23	84	3	62	22	33	20	22	1.97
1387789--1387841	21	2.6	21	96	3	99	18	43	22	15	1.87
1397124--1397254	68	1.9	70	88	4	203	53	11	31	3	1.55
1401360--1401400	14	3.0	14	85	3	57	68	0	0	31	0.90
1401362--1401400	13	2.9	13	85	14	53	69	0	0	30	0.89
1401362--1401410	22	2.2	22	85	0	62	65	0	2	32	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402648--1402727	3	27.0	3	84	2	108	65	2	0	32	1.06
1403046--1403225	90	2.0	89	91	1	288	33	22	17	27	1.96
1403110--1403550	176	2.5	177	91	1	706	32	20	17	29	1.95
1405055--1405301	51	4.9	51	84	2	327	23	23	17	36	1.95
1405055--1405301	101	2.4	103	84	2	338	23	23	17	36	1.95
1406770--1406810	10	3.9	10	93	6	64	0	17	0	82	0.66
1406770--1406822	21	2.5	22	85	14	67	0	16	1	81	0.79
1406774--1406822	10	4.7	10	82	9	62	0	16	2	81	0.78
1409852--1409891	21	1.9	21	89	0	62	60	5	17	17	1.54
1413540--1413575	14	2.6	14	86	0	54	61	0	2	36	1.11
1413795--1413824	2	15.0	2	100	0	60	50	0	0	50	1.00
1414902--1414996	3	32.3	3	82	4	113	61	1	1	36	1.10
1422405--1422563	64	2.5	63	87	5	230	27	17	23	30	1.97
1423241--1423288	21	2.3	22	85	7	64	62	25	2	10	1.38
1424725--1424767	21	2.1	20	86	4	59	13	25	41	18	1.88
1424742--1424843	53	1.9	54	85	2	143	17	25	26	30	1.97
1425008--1425047	20	2.0	20	90	4	64	55	7	0	37	1.29
1427366--1427417	24	2.2	24	82	0	59	32	19	21	26	1.97
1427404--1427441	20	1.9	20	88	0	58	23	18	31	26	1.97
1433919--1434276	42	8.7	42	68	17	155	48	6	17	27	1.71
1433972--1434084	41	2.7	41	80	9	131	48	8	17	24	1.76
1433923--1434083	83	1.9	85	82	7	204	49	7	17	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433976--1434201	119	1.9	120	83	9	293	50	7	17	24	1.73
1435674--1436031	55	6.7	54	82	4	363	33	12	18	34	1.89
1435694--1435999	155	1.9	158	85	4	422	33	13	18	33	1.90
1438209--1438535	160	2.0	161	98	1	638	29	11	22	36	1.89
1442255--1442304	22	2.4	21	80	6	57	32	12	26	30	1.92
1442592--1442630	16	2.5	16	95	4	71	33	0	17	48	1.48
1442666--1443079	55	7.5	55	89	1	589	34	13	18	33	1.90
1447193--1447379	44	4.2	44	79	8	177	18	26	21	33	1.96
1447360--1447440	39	2.1	39	83	0	99	20	30	17	30	1.96
1450584--1450669	35	2.5	35	84	0	109	34	16	16	32	1.91
1457127--1457176	11	4.6	11	76	14	59	22	18	34	26	1.96
1465470--1465889	55	7.6	55	86	4	508	34	13	17	34	1.89
1468490--1468533	22	2.0	22	86	4	61	54	2	2	40	1.25
1469321--1469407	29	3.0	29	96	0	156	22	41	21	13	1.89
1470178--1470391	44	4.8	44	86	3	295	19	26	22	31	1.98
1476400--1476443	16	2.8	16	89	0	70	20	43	22	13	1.87
1477201--1477413	44	4.8	45	85	2	265	20	29	20	30	1.97
1477201--1477388	87	2.1	88	86	4	256	19	30	20	30	1.97
1477369--1477452	39	2.2	39	84	0	105	20	33	20	26	1.97
1493305--1493436	48	2.7	48	84	1	183	40	12	20	26	1.89
1494766--1494817	23	2.3	23	96	0	95	11	36	3	48	1.58
1495559--1495674	62	1.9	62	83	1	153	34	13	16	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1497042--1497099	19	3.1	19	97	0	107	29	13	20	36	1.91
1497514--1497539	2	13.0	2	100	0	52	50	0	0	50	1.00
1498874--1498917	21	2.1	21	100	0	88	22	20	22	34	1.97
1501204--1501240	18	2.0	19	89	5	58	27	32	24	16	1.96
1502900--1503009	32	3.4	31	75	8	96	50	11	1	35	1.50
1504577--1504654	13	6.0	13	82	5	86	28	21	16	33	1.95
1504577--1504654	39	2.0	39	82	5	95	28	21	16	33	1.95
1504577--1504654	26	3.0	26	84	0	102	28	21	16	33	1.95
1504626--1504791	85	2.0	85	84	4	219	30	22	18	29	1.97
1510098--1510256	40	4.0	40	96	0	282	22	15	27	35	1.94
1517219--1517261	8	5.4	8	88	0	68	72	0	27	0	0.85
1517219--1517261	16	2.7	16	100	0	86	72	0	27	0	0.85
1519765--1519812	20	2.4	20	82	6	53	54	2	12	31	1.49
1526272--1526326	21	2.6	21	94	0	83	45	10	14	29	1.79
1540689--1540726	20	2.0	19	85	10	51	26	23	18	31	1.97
1541110--1541153	22	2.0	22	86	4	61	38	6	2	52	1.41
1546038--1546076	20	1.9	21	89	5	62	48	5	12	33	1.63
1548666--1548728	29	2.2	29	80	5	74	41	15	4	38	1.69
1548963--1549016	25	2.2	25	86	3	74	42	5	7	44	1.55
1549993--1550044	25	2.1	25	82	7	61	40	1	5	51	1.37
1551594--1551635	21	2.0	22	85	4	59	50	2	0	47	1.14
1551827--1551879	20	2.7	20	85	5	72	45	24	16	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1551902--1551933	16	1.9	17	93	6	57	34	34	18	12	1.89
1551920--1552033	20	5.7	20	77	5	122	40	21	17	20	1.91
1551919--1552054	40	3.4	40	87	1	191	38	22	16	21	1.93
1552616--1552726	20	5.8	20	70	18	76	50	18	19	10	1.76
1552770--1552816	20	2.3	21	78	10	53	12	25	10	51	1.72
1554835--1554901	21	3.2	21	68	6	55	23	34	20	20	1.97
1556227--1556259	14	2.4	14	94	0	57	33	0	21	45	1.52
1556366--1556457	19	5.4	17	66	24	52	50	20	16	13	1.78
1556366--1556459	33	2.8	32	83	3	116	48	21	17	12	1.79
1556429--1556469	19	2.2	19	95	0	73	51	21	14	12	1.75

Tables:   1   2   3   4   5   6   7   8   9   10   11