genome.fa.s190.2.7.7.80.10.50.1000.6.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  6  of  62  ( 7381 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)
1255900--1255935	15	2.4	15	95	0	63	36	5	16	41	1.72
1255953--1256007	14	3.9	14	85	0	65	30	14	16	38	1.89
1256164--1256261	35	2.7	34	79	14	83	45	0	5	48	1.24
1256186--1256261	37	2.1	36	86	11	104	47	0	2	50	1.15
1256187--1256237	23	2.2	23	82	0	57	49	0	1	49	1.12
1256220--1256300	33	2.7	27	73	21	72	50	1	1	46	1.17
1256245--1256336	25	3.4	26	72	21	73	52	2	0	45	1.13
1256276--1256415	31	4.7	32	74	19	94	50	0	1	47	1.15
1257260--1257286	3	9.0	3	100	0	54	33	0	0	66	0.92
1257294--1257428	60	2.2	60	78	12	136	36	15	12	35	1.86
1257347--1257486	60	2.3	60	85	7	178	35	14	12	37	1.83
1259942--1260054	21	5.5	21	68	4	95	21	18	25	34	1.96
1259936--1260123	41	4.6	41	88	5	258	22	19	22	36	1.95
1259961--1260074	20	5.6	20	69	4	93	17	21	23	37	1.94
1260194--1260291	6	16.5	6	96	1	153	31	52	13	3	1.56
1260897--1260971	22	3.5	22	72	17	61	34	28	20	17	1.95
1260891--1260950	20	2.9	20	76	13	68	38	25	23	13	1.91
1260870--1260971	41	2.5	42	80	10	122	35	24	18	21	1.96
1260939--1260992	21	2.6	21	96	0	99	29	27	16	25	1.97
1271536--1271576	20	2.0	20	85	4	55	51	17	2	29	1.58
1274870--1274937	21	3.2	21	74	15	77	20	20	26	32	1.97
1274877--1274943	21	3.1	23	75	16	79	19	20	22	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274870--1274965	42	2.3	42	90	0	156	22	19	22	34	1.97
1275056--1275088	6	5.5	6	92	0	57	33	48	15	3	1.60
1281003--1281058	29	2.0	29	82	10	71	32	3	12	51	1.56
1282215--1282720	180	2.8	180	80	6	564	40	8	11	38	1.73
1283901--1283959	26	2.3	26	84	0	73	18	20	13	47	1.82
1285022--1285073	2	26.0	2	100	0	104	50	0	0	50	1.00
1289632--1289656	3	8.3	3	100	0	50	0	32	0	68	0.90
1306932--1307233	75	4.0	75	98	0	577	22	36	16	24	1.94
1312736--1312768	7	4.7	7	100	0	66	57	0	30	12	1.35
1313073--1313108	14	2.5	15	86	13	58	44	0	0	55	0.99
1313073--1313109	13	2.6	14	91	8	58	45	0	0	54	1.00
1314380--1314483	21	4.6	23	75	17	94	21	20	20	38	1.94
1314411--1314483	23	3.0	26	75	21	93	21	19	17	41	1.91
1315190--1315343	21	7.4	21	75	13	97	24	21	20	33	1.97
1315180--1315305	21	6.2	20	72	17	98	25	21	19	34	1.96
1315211--1315309	41	2.4	41	94	0	180	23	22	20	34	1.97
1315180--1315386	103	2.0	100	80	10	222	25	20	21	32	1.97
1318487--1318609	61	2.0	61	96	0	228	41	4	27	26	1.76
1321104--1321138	6	5.8	6	100	0	70	34	34	14	17	1.90
1321752--1321959	5	42.4	5	96	3	388	39	0	0	60	0.97
1339703--1339780	39	2.0	38	85	7	104	55	10	7	26	1.60
1344655--1344953	41	7.1	41	89	6	456	18	20	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344771--1345002	41	5.8	40	81	11	162	17	19	23	39	1.92
1344769--1345008	82	3.0	77	84	9	236	19	19	22	38	1.93
1345611--1345675	6	10.5	6	93	6	112	0	15	50	33	1.44
1345867--1345953	41	2.1	41	87	4	122	39	22	18	19	1.93
1346441--1346497	20	2.8	20	84	5	71	35	17	12	35	1.87
1347520--1347599	30	2.6	30	84	2	97	50	6	12	31	1.65
1357014--1357069	3	18.7	3	96	0	103	33	1	0	64	1.04
1357068--1357102	14	2.4	15	85	4	54	60	2	0	37	1.12
1357573--1357614	15	2.8	15	89	7	59	76	2	21	0	0.90
1357573--1357614	20	2.1	20	86	8	59	76	2	21	0	0.90
1369855--1369928	9	8.3	9	82	11	64	83	0	16	0	0.64
1369867--1369927	1	61.0	1	73	0	50	86	0	13	0	0.56
1369858--1369928	20	3.7	19	87	11	101	84	0	15	0	0.62
1369858--1369928	28	2.5	28	93	2	115	84	0	15	0	0.62
1370244--1370283	16	2.5	16	88	8	55	30	7	10	52	1.62
1371078--1371695	83	7.5	83	95	1	1000	25	13	23	36	1.92
1371078--1371695	164	3.7	165	93	3	1021	25	13	23	36	1.92
1372345--1373197	114	7.5	114	92	3	1315	37	13	19	28	1.90
1372345--1373197	227	3.7	228	91	2	1315	37	13	19	28	1.90
1373333--1373391	3	19.7	3	100	0	118	33	0	0	66	0.92
1373390--1373424	14	2.4	15	85	4	54	60	2	0	37	1.12
1373895--1373936	15	2.8	15	89	7	59	76	2	21	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373895--1373936	20	2.1	20	86	8	59	76	2	21	0	0.90
1379377--1379402	10	2.6	10	100	0	52	7	11	34	46	1.69
1388639--1388676	12	3.2	12	88	3	51	63	0	0	36	0.95
1390926--1391031	20	5.3	19	77	10	86	33	24	17	23	1.96
1399378--1399444	22	3.0	22	95	2	116	25	28	26	19	1.99
1401141--1401185	21	2.1	21	87	0	63	15	24	28	31	1.96
1402186--1402211	13	2.0	13	100	0	52	30	15	30	23	1.95
1406796--1406845	20	2.5	20	83	0	55	36	18	14	32	1.90
1406810--1406847	20	1.9	20	94	0	67	31	15	15	36	1.90
1421885--1421918	2	17.0	2	100	0	68	50	0	0	50	1.00
1424856--1424903	2	25.0	2	87	8	73	45	0	0	54	0.99
1427937--1427975	2	19.0	2	94	5	69	48	0	2	48	1.15
1428701--1428873	60	2.9	59	82	8	199	36	11	5	46	1.64
1429022--1429154	60	2.2	59	77	5	142	40	4	19	35	1.72
1443299--1443352	21	2.7	19	78	13	54	53	5	1	38	1.35
1443598--1443627	9	3.3	9	90	0	51	86	0	0	13	0.57
1455133--1455171	20	2.0	20	84	0	51	53	0	7	38	1.30
1466476--1466531	21	2.6	22	75	11	53	46	32	0	21	1.52
1469017--1469049	16	2.0	17	88	5	50	48	6	0	45	1.27
1469236--1469272	7	4.9	8	83	12	51	13	54	32	0	1.40
1469270--1469833	12	47.9	12	80	9	477	33	49	17	0	1.47
1469282--1469612	2	165.5	2	74	4	247	37	49	12	0	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1469244--1469840	4	152.5	4	77	9	365	32	49	18	0	1.47
1469856--1469881	2	13.0	2	100	0	52	50	0	0	50	1.00
1469933--1469974	2	22.0	2	90	9	70	50	0	0	50	1.00
1470411--1470481	29	2.4	30	92	7	126	30	18	9	40	1.83
1470653--1470874	4	56.0	4	98	1	430	24	50	25	0	1.50
1470895--1470943	2	25.0	2	95	4	91	48	0	0	51	1.00
1470997--1471032	2	18.0	2	100	0	72	50	0	0	50	1.00
1471477--1471548	31	2.3	31	100	0	144	30	19	9	40	1.84
1471746--1471784	2	19.5	2	100	0	78	51	0	0	48	1.00
1476637--1476707	33	2.2	33	86	0	106	29	7	14	49	1.69
1477903--1477935	2	16.5	2	100	0	66	51	0	0	48	1.00
1478382--1478422	16	2.5	17	78	21	52	34	2	14	48	1.57
1478780--1479251	57	8.3	57	88	0	674	27	15	21	35	1.94
1478780--1479251	172	2.8	171	90	0	712	27	15	21	35	1.94
1479224--1479291	20	3.4	20	91	0	109	29	17	22	30	1.97
1479319--1479359	21	2.0	21	95	0	73	31	9	29	29	1.89
1479365--1479414	20	2.5	20	83	0	64	22	14	18	46	1.84
1480421--1480448	14	2.0	14	100	0	56	14	21	28	35	1.92
1480560--1480594	2	17.5	2	100	0	70	51	0	0	48	1.00
1481446--1481738	57	5.1	57	81	1	336	27	15	20	36	1.93
1481438--1481734	115	2.6	114	83	2	362	28	15	19	36	1.92
1481711--1481749	20	2.0	20	94	0	69	28	15	20	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481712--1481758	20	2.3	20	88	0	67	27	12	25	34	1.92
1481656--1481835	77	2.3	77	89	0	261	27	13	23	35	1.93
1481789--1481855	20	3.3	20	93	0	107	26	14	26	31	1.95
1481710--1481912	97	2.1	97	93	0	352	27	14	23	33	1.94
1481828--1481971	57	2.5	57	90	1	216	27	16	22	34	1.95
1484033--1484073	2	20.5	2	100	0	82	48	0	0	51	1.00
1484193--1484250	29	2.0	29	89	0	89	13	36	27	22	1.92
1484293--1484339	14	3.4	14	93	0	76	23	38	29	8	1.84
1484321--1484405	33	2.6	33	86	3	109	25	27	37	9	1.87
1484409--1484464	29	1.9	29	96	0	103	19	30	37	12	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62