genome.fa.s9586.2.7.7.80.10.50.1000.7.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2170 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)
1205124--1205195	22	3.3	22	86	5	101	27	20	23	27	1.99
1205132--1205194	21	3.0	21	90	2	90	23	23	25	26	2.00
1206570--1206730	64	2.5	64	84	5	200	28	20	17	33	1.95
1209934--1210002	22	3.1	22	89	4	104	26	21	24	27	1.99
1209942--1210002	21	2.8	22	92	2	97	22	24	26	26	2.00
1211380--1211539	63	2.5	64	82	9	175	28	20	17	33	1.95
1214740--1214811	22	3.3	22	88	5	110	27	20	25	26	1.99
1214748--1214810	21	3.0	21	92	2	99	23	23	26	25	2.00
1216160--1216318	64	2.5	61	83	7	185	27	20	18	33	1.96
1218520--1218699	91	2.0	89	97	2	342	25	32	17	24	1.97
1225268--1225427	80	2.0	80	97	2	304	28	24	15	32	1.95
1243877--1243912	19	1.9	18	88	5	54	27	0	8	63	1.23
1254200--1254970	137	5.8	136	84	6	873	35	25	15	24	1.94
1255130--1255154	3	8.3	3	100	0	50	36	0	0	64	0.94
1262114--1262226	40	2.8	40	85	6	133	10	0	38	51	1.37
1264266--1264368	31	3.4	31	97	2	192	28	22	26	23	1.99
1267743--1267779	11	3.3	11	92	7	65	16	16	51	16	1.77
1267743--1267780	12	3.2	12	96	3	69	15	15	52	15	1.75
1268703--1268808	31	3.5	31	97	1	196	29	23	25	21	1.99
1270207--1270260	28	2.0	27	88	3	81	9	0	40	50	1.35
1270160--1270255	39	2.5	37	85	9	115	7	0	42	50	1.30
1274602--1274658	17	3.4	17	80	0	51	29	10	17	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275719--1275810	2	46.5	2	97	2	177	51	0	0	48	1.00
1276219--1276287	23	3.0	23	82	0	93	31	24	24	18	1.98
1281940--1281982	18	2.5	17	85	7	59	30	13	11	44	1.80
1282056--1282108	17	3.1	17	80	0	61	33	15	9	41	1.79
1284579--1284634	19	2.8	21	79	17	66	53	0	7	39	1.28
1285789--1285857	22	3.0	23	72	21	63	37	1	2	57	1.22
1285834--1285868	15	2.3	15	90	0	52	42	2	0	54	1.15
1287621--1287668	21	2.2	21	92	3	78	35	27	6	31	1.82
1289948--1289975	2	14.0	2	100	0	56	50	0	0	50	1.00
1290121--1290154	15	2.3	15	94	0	59	52	8	5	32	1.56
1292887--1292919	9	3.7	9	84	15	50	21	0	0	78	0.75
1292887--1292919	14	2.5	13	95	5	57	21	0	0	78	0.75
1294021--1294099	34	2.3	34	86	6	106	45	22	0	31	1.53
1294269--1294556	148	2.0	143	88	3	432	36	6	10	46	1.65
1295062--1295133	35	2.0	36	86	2	101	34	0	20	44	1.52
1299106--1299202	26	3.6	26	73	17	81	16	22	11	49	1.77
1299090--1299198	55	2.0	55	85	3	148	15	22	11	51	1.74
1301418--1301451	2	17.5	2	87	6	52	44	0	0	55	0.99
1301710--1301740	16	1.9	16	100	0	62	51	19	6	22	1.69
1303480--1303569	46	2.0	46	95	0	162	36	10	10	43	1.72
1304330--1304385	23	2.5	21	81	16	60	39	3	0	57	1.16
1313428--1313466	21	1.9	20	84	5	51	17	12	23	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319435--1319962	264	2.0	264	99	0	1047	22	22	16	38	1.93
1321969--1322089	64	1.9	64	81	6	147	36	18	16	28	1.92
1328029--1328122	47	2.0	47	97	0	179	30	20	19	29	1.97
1328870--1329026	64	2.5	64	79	10	169	35	19	17	27	1.94
1329403--1329512	29	3.8	29	90	2	177	45	15	20	19	1.85
1335744--1335898	64	2.4	65	78	10	149	36	20	17	26	1.94
1337163--1337192	14	2.1	14	93	0	51	43	26	0	30	1.55
1339480--1339539	20	2.8	21	87	7	77	18	25	35	21	1.96
1345515--1345624	29	3.8	29	90	2	177	46	14	20	18	1.84
1347126--1347281	64	2.4	64	76	8	156	36	18	17	26	1.94
1347659--1347768	29	3.8	29	92	2	186	45	15	20	18	1.85
1350001--1350071	23	3.1	23	91	0	115	35	8	18	38	1.81
1350872--1350926	20	2.8	20	88	0	83	18	20	18	43	1.88
1350690--1351090	202	2.0	202	88	0	604	27	15	13	43	1.84
1351027--1351610	112	5.2	112	92	0	945	26	14	13	46	1.81
1351027--1351610	225	2.6	223	91	1	936	26	14	13	46	1.81
1355978--1356053	36	2.1	36	95	0	134	44	10	2	42	1.52
1360181--1360239	2	29.0	2	96	3	109	49	0	1	49	1.11
1365386--1365413	13	2.2	13	100	0	56	39	0	0	60	0.97
1369372--1369416	21	2.1	21	84	8	56	20	22	8	48	1.76
1369371--1369419	22	2.3	23	79	13	59	20	22	8	48	1.75
1371435--1371516	42	2.0	42	92	0	137	24	8	13	53	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371735--1371787	24	2.5	21	72	21	56	50	0	0	49	1.00
1371742--1371901	24	6.3	24	69	22	80	50	0	0	48	1.10
1371760--1371818	31	1.9	31	82	6	75	55	1	0	42	1.09
1371742--1371903	26	6.4	25	70	23	76	50	0	0	48	1.10
1372302--1372338	15	2.5	15	100	0	74	40	13	5	40	1.67
1373522--1373636	60	1.9	61	83	1	151	43	9	10	36	1.72
1377283--1377315	8	4.1	8	92	0	57	45	15	27	12	1.81
1382313--1382737	212	2.0	212	98	0	814	40	20	18	21	1.92
1389057--1389175	43	2.7	43	80	3	123	25	19	5	50	1.67
1392494--1392541	20	2.3	21	92	7	89	29	33	6	31	1.82
1395404--1395431	2	14.0	2	100	0	56	50	0	0	50	1.00
1401828--1401869	20	2.1	20	82	8	50	30	0	4	64	1.14
1417795--1417838	23	2.0	22	86	4	61	36	0	9	54	1.32
1417811--1417918	32	3.4	33	82	7	116	43	0	2	53	1.15
1418116--1418174	31	2.0	30	90	6	93	25	11	5	57	1.54
1419268--1419610	111	3.1	109	86	3	479	32	11	11	44	1.77
1420042--1420391	111	3.1	111	92	0	565	33	12	11	42	1.79
1419271--1421163	781	2.4	781	91	3	2951	36	9	10	43	1.72
1420855--1421411	111	5.0	110	86	2	699	32	11	10	45	1.74
1420855--1421402	222	2.5	223	88	1	780	32	11	10	45	1.74
1423366--1423417	26	2.0	26	100	0	104	26	7	19	46	1.77
1423479--1423677	87	2.3	87	87	0	290	33	8	10	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423614--1423658	23	2.0	23	86	0	63	44	17	4	33	1.69
1424360--1424440	34	2.4	34	80	13	89	32	0	4	62	1.16
1425160--1425204	21	2.1	21	87	0	63	31	28	24	15	1.96
1426571--1426598	14	2.0	14	100	0	56	28	7	28	35	1.84
1426699--1427162	149	3.1	149	95	0	831	28	16	20	34	1.95
1427130--1427174	23	2.0	23	90	0	72	22	26	26	24	2.00
1428012--1428065	17	3.2	17	72	0	54	31	0	3	64	1.11
1430114--1430158	21	2.1	21	87	0	63	31	28	24	15	1.96
1431984--1432028	23	2.0	23	86	0	63	20	26	26	26	1.99
1432943--1433015	21	3.5	21	88	7	112	17	32	27	21	1.96
1433537--1433615	28	2.8	28	88	5	106	53	3	2	40	1.33
1433537--1433640	28	3.5	28	75	15	93	51	4	2	40	1.38
1433538--1433638	34	3.2	32	77	17	111	53	4	2	38	1.38
1437228--1437318	29	3.1	29	81	7	87	45	1	2	51	1.20
1437258--1437318	29	2.1	29	96	0	113	42	0	1	55	1.09
1437277--1437326	15	3.4	15	71	13	50	44	0	0	56	0.99
1444508--1444551	22	2.0	22	81	0	52	45	22	2	29	1.65
1445176--1445215	10	4.0	10	84	12	55	32	27	0	40	1.57
1446179--1446211	10	2.9	12	82	17	52	33	0	51	15	1.43
1446844--1446893	23	2.2	23	85	0	64	38	12	16	34	1.85
1446856--1446900	23	2.0	23	90	0	72	40	11	15	33	1.83
1446816--1446978	87	1.9	87	90	2	265	41	12	12	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447018--1447496	200	2.4	198	81	4	536	32	14	14	38	1.86
1450227--1450274	19	2.5	19	96	0	87	56	10	2	31	1.45
1451803--1453190	200	7.0	200	86	3	1835	31	16	13	38	1.87
1451803--1453190	595	2.3	589	85	5	1839	31	16	13	38	1.87
1453903--1453953	24	2.1	24	88	0	75	47	17	3	31	1.66
1455272--1455311	12	3.3	12	89	0	53	27	30	2	40	1.70
1456521--1456568	25	1.9	25	91	0	78	70	16	4	8	1.27
1456761--1457929	201	5.8	201	89	1	1664	33	15	13	37	1.87
1458378--1458426	19	2.6	19	96	0	89	55	6	2	36	1.37
1459980--1460018	18	2.2	18	95	0	69	7	35	0	56	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19