genome.fa.s8160.2.7.7.80.10.50.1000.6.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: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466564

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 773 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)
1243288--1243317	6	5.0	6	100	0	60	33	0	50	16	1.46
1245227--1245310	22	3.7	23	75	15	77	45	2	1	51	1.22
1245238--1245289	23	2.2	24	82	3	61	46	1	0	51	1.12
1245200--1245312	11	10.4	11	64	25	53	45	1	1	51	1.22
1249764--1249838	36	2.1	36	92	0	123	42	4	17	36	1.68
1257270--1257312	18	2.5	17	85	7	61	25	4	2	67	1.22
1257568--1257623	21	2.7	20	75	8	58	25	3	0	71	1.02
1261878--1262414	183	2.9	183	96	0	968	27	20	21	30	1.98
1263568--1263681	36	3.2	34	71	9	86	25	16	14	43	1.85
1263552--1263712	72	2.2	75	85	8	215	27	19	12	40	1.87
1263568--1263763	72	2.7	72	81	10	170	26	17	14	41	1.88
1263742--1263894	39	3.6	39	69	21	119	27	22	13	36	1.92
1263910--1263985	36	2.1	36	90	0	116	22	21	15	40	1.90
1263797--1264010	104	2.1	103	90	2	333	30	21	12	35	1.90
1264185--1264816	105	6.0	105	91	2	925	33	26	17	21	1.96
1265360--1265455	37	2.6	37	85	3	122	43	14	12	29	1.82
1265820--1265862	18	2.5	17	85	7	61	25	4	2	67	1.22
1266110--1266178	21	3.2	20	76	12	57	24	2	0	72	0.98
1266445--1266497	18	2.9	17	81	10	61	15	7	3	73	1.20
1267723--1267803	35	2.3	35	89	2	126	30	14	39	14	1.87
1267901--1267945	15	2.8	17	74	22	51	48	0	0	51	1.00
1268958--1269090	54	2.4	56	77	8	128	32	14	4	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270085--1270128	22	2.0	23	90	4	72	54	6	4	34	1.47
1272467--1272525	29	2.1	29	93	6	104	13	13	23	49	1.78
1272522--1272557	9	4.1	9	96	3	65	11	8	0	80	0.90
1274434--1274462	7	4.1	7	100	0	58	13	13	13	58	1.63
1275719--1275750	16	2.0	16	93	0	55	78	6	15	0	0.95
1276338--1276380	22	2.0	22	95	0	77	39	23	11	25	1.88
1276817--1276852	18	2.0	18	88	0	54	19	2	33	44	1.65
1277344--1278507	106	11.0	106	88	2	1644	34	24	18	23	1.96
1279994--1280052	29	2.1	29	93	6	104	13	13	23	49	1.78
1280049--1280084	9	4.1	9	96	3	65	11	8	0	80	0.90
1282807--1282878	31	2.3	31	90	0	108	30	33	19	16	1.94
1284438--1284495	4	14.8	4	92	3	64	67	0	0	32	0.91
1285619--1286045	84	5.2	82	76	8	314	24	20	25	29	1.99
1286226--1287620	106	13.2	106	93	0	2301	23	18	25	33	1.97
1291657--1291693	4	9.5	4	94	5	67	75	0	0	24	0.80
1293801--1293836	12	2.8	13	87	4	56	22	25	27	25	2.00
1298353--1298495	71	2.0	71	94	0	250	34	13	17	34	1.89
1298546--1298688	71	2.0	71	91	0	232	33	13	22	30	1.92
1298306--1298690	193	2.0	192	92	1	646	36	12	19	30	1.89
1300016--1300274	58	4.5	58	83	5	294	36	5	13	44	1.67
1300066--1300160	31	3.2	31	65	22	85	37	4	10	47	1.58
1306130--1306176	14	3.3	14	82	8	51	19	19	6	55	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307824--1307870	19	2.5	19	86	6	60	29	8	17	44	1.78
1307837--1307879	19	2.3	19	100	0	86	25	9	16	48	1.75
1307846--1307889	19	2.3	19	84	7	54	29	11	11	47	1.74
1309656--1309720	33	2.0	33	81	0	76	23	27	21	27	1.99
1312218--1312252	18	1.9	18	88	0	52	48	0	0	51	1.00
1312752--1312788	18	2.1	18	89	0	56	51	0	0	48	1.00
1315041--1315125	37	2.3	37	86	6	120	42	20	4	32	1.72
1319627--1319745	35	3.3	36	87	5	161	44	16	5	33	1.70
1319648--1319772	35	3.5	36	82	9	125	42	16	7	34	1.75
1327678--1328184	58	8.7	58	92	0	663	33	18	11	35	1.87
1339450--1339732	30	9.4	30	98	0	539	33	23	19	24	1.97
1339971--1339996	4	6.5	4	100	0	52	50	23	0	26	1.50
1345138--1345170	2	16.5	2	100	0	66	48	0	0	51	1.00
1346734--1346938	105	2.0	105	92	0	338	25	22	4	47	1.71
1347451--1347901	58	7.7	59	91	1	633	32	18	11	36	1.88
1348229--1348281	20	2.5	22	78	6	56	26	24	13	35	1.92
1348322--1348376	20	2.7	21	88	8	78	25	23	16	34	1.95
1350473--1350921	58	7.7	58	90	0	612	33	17	11	36	1.87
1352739--1354726	81	24.7	81	88	1	2832	35	10	21	32	1.88
1355548--1355639	45	2.0	45	85	0	121	43	8	10	36	1.71
1363988--1364160	77	2.2	77	90	0	274	34	19	10	35	1.86
1364524--1364690	78	2.1	78	82	2	192	32	18	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364920--1364960	21	2.0	21	86	9	59	2	24	2	70	1.11
1364908--1364940	12	2.8	12	100	0	66	6	18	0	75	1.00
1365187--1365322	65	2.1	65	91	0	218	23	16	14	44	1.85
1365610--1365644	15	2.2	16	90	5	54	2	37	0	60	1.12
1368100--1368142	20	2.2	20	86	0	59	32	18	16	32	1.93
1368196--1368306	20	5.6	20	93	0	195	27	23	18	30	1.97
1370708--1370766	22	2.8	21	87	7	75	42	13	27	16	1.86
1370719--1370766	20	2.3	22	89	7	73	45	16	22	14	1.84
1374021--1374129	51	2.1	53	87	3	159	56	4	1	36	1.30
1374978--1375004	14	1.9	14	100	0	54	77	0	0	22	0.76
1376672--1376698	2	13.5	2	100	0	54	48	0	0	51	1.00
1379470--1379920	150	3.0	150	97	0	839	31	19	19	29	1.96
1386695--1386740	19	2.4	19	92	0	74	21	10	21	45	1.82
1391922--1391985	18	3.5	19	75	23	66	51	29	14	4	1.62
1391929--1391989	19	3.3	19	73	17	74	50	31	14	3	1.59
1401839--1401933	21	4.5	21	94	0	163	31	31	20	16	1.95
1401929--1402214	42	6.8	42	87	5	400	21	19	22	36	1.96
1402557--1402601	21	2.1	22	84	12	58	28	6	6	57	1.50
1402955--1403089	6	22.5	6	100	0	270	0	16	50	33	1.45
1404087--1404112	2	13.0	2	100	0	52	50	0	0	50	1.00
1406901--1406959	28	2.0	31	83	9	79	35	11	1	50	1.49
1407460--1407593	60	2.2	60	85	1	180	35	24	2	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1407460--1407605	59	2.5	59	84	3	168	35	23	2	38	1.69
1411910--1411942	17	1.9	17	93	0	57	48	27	3	21	1.64
1412513--1412540	10	2.8	10	100	0	56	53	0	17	28	1.44
1414003--1414104	42	2.4	42	90	0	150	9	39	17	33	1.83
1414257--1414319	4	15.8	4	100	0	126	74	0	25	0	0.82
1414458--1414567	54	2.0	54	85	7	148	36	0	10	51	1.43
1414988--1415047	17	3.4	17	82	13	84	41	0	8	50	1.33
1418324--1418365	11	3.8	11	84	12	59	26	2	2	69	1.13
1418324--1418365	16	2.6	16	78	17	50	26	2	2	69	1.13
1418695--1418852	21	7.8	20	72	7	86	38	25	17	18	1.92
1418819--1418973	40	3.8	40	82	4	186	37	26	18	18	1.93
1418819--1418972	20	7.7	20	80	7	168	37	26	18	18	1.93
1419353--1419423	33	2.2	33	92	0	115	11	22	18	47	1.80
1419503--1419578	20	3.8	19	81	10	89	44	17	25	13	1.84
1419502--1419578	40	1.9	41	94	2	138	44	16	25	12	1.84
1419562--1419618	14	3.7	14	70	20	51	43	22	22	10	1.84
1419555--1419634	33	2.5	33	91	2	126	46	22	21	10	1.81
1419630--1419727	19	5.7	19	69	22	90	11	22	21	44	1.83
1419652--1419741	14	5.7	14	69	23	63	10	23	22	44	1.82
1419635--1419749	33	3.5	33	97	0	221	10	22	20	46	1.80
1421451--1422009	93	6.1	93	98	1	1081	21	12	19	45	1.83
1421451--1422009	184	3.0	185	98	1	1086	21	12	19	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422073--1422185	19	6.5	19	74	19	120	46	28	17	7	1.74
1422093--1422185	33	2.8	32	91	4	150	46	27	18	7	1.76
1422073--1422185	52	2.2	51	81	9	131	46	28	17	7	1.74
1422181--1422299	19	6.8	19	76	18	114	10	20	21	47	1.81
1422184--1422278	33	2.9	33	93	0	163	12	21	20	46	1.83
1422250--1422315	19	3.4	19	87	6	89	10	16	27	45	1.80
1424228--1424263	14	2.6	14	95	0	63	33	0	22	44	1.53
1424369--1424465	19	5.4	19	83	12	132	46	17	21	14	1.84
1424369--1424484	52	2.2	52	95	0	205	43	18	24	13	1.86
1424474--1424643	19	9.7	19	76	19	181	15	21	18	45	1.85

Tables:   1   2   3   4   5   6   7