genome.fa.s7860.2.7.7.80.10.50.1000.8.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1828 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)
1124972--1125010	16	2.5	17	88	12	57	64	0	0	35	0.94
1128950--1128995	22	2.1	22	88	4	67	32	28	17	21	1.96
1132238--1132276	19	2.1	19	100	0	78	51	17	20	10	1.74
1154084--1154130	20	2.3	20	92	0	76	51	4	19	25	1.65
1155363--1155397	17	2.1	17	94	0	61	25	17	11	45	1.81
1170166--1170215	22	2.3	22	96	0	91	28	24	24	24	2.00
1176217--1176245	2	14.5	2	100	0	58	48	0	0	51	1.00
1179188--1179236	24	2.0	25	84	11	66	40	8	0	51	1.32
1179266--1179348	32	2.6	31	79	9	87	39	7	1	51	1.37
1179440--1179503	27	2.4	27	89	0	92	56	0	1	42	1.09
1179457--1179550	27	3.6	26	81	11	97	53	1	2	43	1.19
1179457--1179550	25	3.7	26	80	11	90	53	1	2	43	1.19
1184025--1184064	21	1.9	21	89	0	62	10	25	40	25	1.86
1184046--1184094	23	2.2	23	82	7	66	18	20	40	20	1.91
1184047--1184106	23	2.9	20	82	9	59	18	25	33	23	1.97
1190430--1190593	65	2.5	65	84	5	199	29	17	21	31	1.96
1195673--1195712	20	2.2	17	86	13	53	40	0	0	60	0.97
1195868--1195919	27	2.0	27	84	3	70	48	3	0	48	1.20
1195959--1196068	28	4.1	27	71	15	95	49	0	0	49	1.13
1195976--1196076	50	2.0	50	84	11	134	49	0	0	48	1.14
1203694--1203767	29	2.6	29	77	16	82	55	12	6	25	1.61
1204972--1205017	21	2.2	21	84	0	56	54	6	0	39	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211572--1211682	58	1.9	59	86	1	161	37	7	20	34	1.80
1221230--1221346	61	1.9	62	98	1	227	35	5	12	47	1.64
1223077--1223117	3	14.0	3	89	5	66	34	2	0	63	1.08
1224444--1224473	15	1.9	16	93	6	53	33	3	0	63	1.11
1228708--1228746	14	2.6	14	88	8	51	35	12	0	51	1.40
1228721--1228751	14	2.1	15	94	5	55	38	6	0	54	1.26
1229256--1229310	20	2.5	22	80	8	60	25	25	14	34	1.94
1241025--1241054	14	2.1	14	93	0	51	30	6	16	46	1.73
1241141--1241181	21	1.9	22	90	5	66	46	2	0	51	1.14
1241580--1241634	22	2.3	23	84	9	67	49	0	1	49	1.11
1248751--1248807	29	2.0	29	86	6	80	50	0	1	47	1.11
1249083--1249112	2	15.0	2	92	0	51	46	0	0	53	1.00
1249113--1249178	3	22.3	3	79	17	68	68	0	3	28	1.05
1249110--1249178	20	3.5	20	80	20	83	68	0	2	28	1.04
1249147--1249200	12	4.5	11	84	13	54	66	1	1	29	1.12
1249110--1249188	39	2.1	38	88	6	117	67	1	2	29	1.12
1250317--1250370	3	17.7	3	92	3	90	62	0	0	37	0.95
1250501--1250600	46	2.2	45	92	1	164	37	21	20	22	1.95
1250533--1250805	76	3.6	76	94	0	467	34	20	20	24	1.97
1250746--1251353	184	3.3	184	98	0	1171	39	14	14	31	1.87
1251298--1251585	76	3.8	76	98	0	540	35	21	19	23	1.96
1252261--1252313	23	2.3	23	96	3	99	39	15	7	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259907--1259956	12	3.9	12	80	14	55	58	6	12	24	1.56
1259895--1259954	27	2.3	27	91	2	95	58	5	13	23	1.55
1260014--1260055	7	6.0	7	78	10	50	54	14	16	14	1.71
1262077--1262132	29	2.0	28	86	10	78	50	0	1	48	1.11
1262388--1262422	16	2.2	16	90	10	54	40	0	0	60	0.97
1262423--1262489	3	23.3	3	73	14	52	70	1	2	25	1.10
1262422--1262489	11	6.0	11	75	10	57	70	1	2	25	1.09
1263785--1263825	3	13.7	3	90	10	66	63	0	0	36	0.95
1271660--1271982	55	5.9	55	93	0	538	36	17	10	36	1.83
1276566--1276684	31	3.9	31	91	3	179	36	20	16	26	1.93
1280418--1280457	3	12.7	3	84	10	53	0	35	0	65	0.93
1280422--1280457	16	2.2	16	95	0	63	0	36	0	63	0.94
1280418--1280456	13	3.0	13	81	11	53	0	33	0	66	0.92
1280995--1281114	63	1.9	64	81	8	147	36	20	15	27	1.93
1281451--1281510	31	2.0	30	87	9	86	36	1	25	36	1.66
1289447--1289479	15	2.2	15	100	0	66	33	36	24	6	1.80
1290946--1291373	224	1.9	225	88	2	646	29	18	17	34	1.94
1297368--1297397	15	2.0	15	100	0	60	6	13	33	46	1.69
1299022--1299058	17	2.2	17	95	0	65	13	21	8	56	1.63
1300063--1300126	24	2.7	24	80	0	74	39	7	28	25	1.83
1303749--1303806	2	29.5	2	89	3	91	44	0	1	53	1.10
1303760--1303817	8	7.2	8	92	0	71	43	0	6	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308373--1308434	29	2.1	29	100	0	124	41	19	12	25	1.87
1309454--1309496	14	3.1	14	76	6	52	46	2	13	37	1.57
1311885--1311924	15	2.7	16	81	18	59	65	0	0	35	0.93
1311885--1311924	14	2.7	15	88	7	64	65	0	0	35	0.93
1313618--1313655	2	19.0	2	100	0	76	50	0	0	50	1.00
1315431--1315488	2	29.0	2	92	0	98	48	1	1	48	1.22
1317592--1317632	21	2.0	21	85	9	57	53	21	9	14	1.70
1319339--1319851	236	2.2	235	89	4	775	35	17	17	29	1.93
1319721--1319834	42	2.7	41	72	9	97	31	21	20	26	1.98
1319887--1320822	53	17.7	52	81	8	695	40	18	9	32	1.82
1319887--1320509	106	5.9	106	86	3	798	40	19	8	32	1.81
1319887--1320509	211	3.0	212	86	4	795	40	19	8	32	1.81
1320514--1320826	55	5.7	55	83	4	391	40	14	11	33	1.82
1322727--1322783	4	13.8	4	77	14	53	3	19	0	77	0.92
1322727--1322784	13	4.7	11	78	16	53	3	18	0	77	0.91
1322724--1322771	22	2.1	22	88	3	69	4	14	0	81	0.84
1324132--1324197	22	3.0	20	81	14	69	48	13	21	16	1.80
1325087--1325177	20	4.6	20	81	10	64	36	28	19	15	1.92
1325126--1325454	20	16.5	20	86	4	434	33	26	19	20	1.97
1326119--1326165	24	2.0	24	87	8	69	25	14	21	38	1.92
1326341--1326365	12	2.1	12	100	0	50	72	0	28	0	0.86
1328006--1328095	14	5.7	14	74	23	81	42	23	25	8	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327998--1328112	33	3.5	33	95	0	212	45	20	24	9	1.81
1328005--1328117	19	6.8	18	72	23	88	43	22	24	9	1.83
1328128--1328182	14	3.6	14	73	21	56	9	27	23	40	1.85
1328303--1328373	33	2.2	33	92	0	115	47	18	22	11	1.80
1328555--1328610	22	2.5	22	79	2	67	21	16	39	23	1.92
1328756--1328949	20	9.6	20	82	5	221	19	19	25	35	1.95
1328756--1328949	60	3.2	60	83	0	253	19	19	25	35	1.95
1328942--1329018	21	3.7	20	70	13	57	27	16	23	32	1.96
1329004--1329055	20	2.6	20	96	0	95	21	13	26	38	1.90
1329950--1329995	17	2.7	18	80	10	51	73	2	6	17	1.14
1331120--1331182	27	2.4	25	79	10	65	65	11	3	20	1.38
1347638--1347710	34	2.1	35	94	2	130	19	47	2	30	1.63
1349787--1349884	48	2.0	48	94	0	169	35	15	18	30	1.92
1352363--1352496	68	2.0	68	92	0	223	32	18	17	31	1.94
1353965--1354027	33	1.9	33	83	0	81	19	31	20	28	1.97
1354310--1354356	24	2.0	24	91	0	76	12	8	21	57	1.62
1354311--1354370	24	2.5	24	83	0	75	15	10	16	58	1.63
1355028--1355108	16	5.1	16	92	0	126	7	11	23	58	1.58
1355275--1355450	96	1.8	96	91	2	291	18	21	34	25	1.96
1358335--1358366	2	16.0	2	100	0	64	50	0	0	50	1.00
1359169--1359528	200	1.8	199	82	4	465	36	11	20	31	1.88
1359169--1359595	200	2.1	199	79	5	452	36	11	19	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362147--1362207	23	2.7	23	89	0	95	26	27	26	19	1.99
1363709--1363867	63	2.5	63	85	2	194	26	20	19	33	1.97
1363835--1363872	19	2.0	20	94	5	69	26	28	15	28	1.96
1367674--1367734	23	2.7	23	89	0	95	26	27	26	19	1.99
1369237--1369395	63	2.5	63	86	2	203	26	21	19	32	1.97
1369363--1369400	19	2.0	20	94	5	69	26	28	15	28	1.96
1370617--1370661	18	2.4	18	81	3	54	53	11	0	35	1.37
1372574--1372612	19	2.0	20	95	5	71	10	25	35	28	1.89
1372648--1372687	20	2.0	20	90	0	62	12	22	32	32	1.91
1378678--1378717	21	1.9	21	100	0	80	32	7	5	55	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16