genome.fa.s8772.2.7.7.80.10.50.1000.7.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

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

This is table  7  of  16  ( 1817 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)
1238923--1239016	33	2.8	34	81	3	127	13	17	23	45	1.84
1240879--1240952	20	3.7	20	85	0	85	43	20	17	18	1.88
1241301--1241376	22	3.5	22	85	0	89	21	17	38	23	1.93
1241561--1241654	20	4.7	20	81	2	125	21	20	20	38	1.94
1241541--1241654	61	1.9	60	88	1	174	22	20	21	35	1.96
1241651--1241695	20	2.2	21	84	4	56	37	15	26	20	1.92
1241561--1241696	61	2.2	61	78	2	148	26	18	21	33	1.96
1243856--1243913	29	2.0	29	93	0	98	36	13	24	25	1.92
1244495--1244550	24	2.3	25	84	3	69	48	7	14	30	1.70
1244877--1244943	31	2.2	31	83	5	82	40	14	8	35	1.78
1252989--1253013	12	2.1	12	100	0	50	16	8	24	52	1.70
1253897--1253938	22	1.9	22	95	0	75	21	21	26	30	1.98
1260049--1260080	15	2.1	15	94	0	55	43	18	15	21	1.87
1263856--1263881	2	13.0	2	100	0	52	50	0	0	50	1.00
1266723--1266772	24	2.1	24	88	7	75	26	2	14	58	1.47
1269993--1270022	13	2.2	14	94	5	53	13	6	0	80	0.91
1272084--1272132	24	2.0	24	88	7	73	26	2	14	57	1.48
1291766--1291923	59	2.6	59	85	5	167	59	22	6	11	1.55
1291796--1291923	61	2.1	59	89	2	202	58	23	7	10	1.56
1291915--1291963	18	2.8	17	76	11	55	30	40	14	14	1.85
1296963--1296991	3	9.7	3	100	0	58	68	0	0	31	0.89
1298584--1298656	3	24.7	3	82	8	51	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298584--1298664	14	5.8	14	75	15	78	45	0	0	54	0.99
1301270--1301294	9	2.8	9	100	0	50	48	0	0	52	1.00
1304046--1304077	15	2.1	15	94	0	55	25	18	9	46	1.79
1311400--1311460	9	6.8	9	80	12	72	81	0	18	0	0.68
1311402--1311442	13	3.2	12	80	12	55	85	0	14	0	0.60
1311397--1311459	24	2.8	23	84	13	78	80	0	19	0	0.70
1311404--1311450	7	6.9	7	78	11	53	82	0	17	0	0.66
1311397--1311460	22	2.9	23	80	15	89	81	0	18	0	0.70
1311400--1311460	26	2.4	27	83	10	83	81	0	18	0	0.68
1312592--1313586	84	11.8	84	92	2	1616	27	11	22	37	1.89
1313322--1313606	92	3.2	92	87	5	381	28	12	22	36	1.91
1313953--1314057	52	2.0	52	98	0	201	35	13	17	34	1.88
1314385--1314483	36	2.6	36	88	6	144	50	8	22	19	1.73
1314385--1314443	20	3.2	20	68	24	56	52	6	22	18	1.68
1314387--1314444	18	3.2	18	67	26	50	53	6	20	18	1.67
1314421--1314765	113	3.1	113	99	0	681	37	16	19	26	1.93
1314761--1314858	40	2.6	37	93	6	162	46	11	24	17	1.80
1315102--1315178	3	25.7	3	86	5	75	42	0	0	57	0.99
1318467--1318508	21	2.0	20	86	13	59	69	2	4	23	1.20
1325425--1325472	20	2.4	20	96	0	87	62	8	6	22	1.46
1326357--1326410	27	2.0	27	100	0	108	40	14	7	37	1.74
1328197--1328247	19	2.7	19	96	0	93	29	27	21	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328295--1328411	20	5.7	21	80	7	71	27	21	17	33	1.96
1328322--1328422	20	5.0	21	81	10	113	31	19	17	30	1.95
1329283--1329336	24	2.2	24	93	0	90	20	18	20	40	1.91
1331848--1331902	19	2.8	19	83	2	65	38	21	21	18	1.94
1331809--1331902	20	4.7	20	71	13	68	35	23	20	21	1.96
1331875--1331996	33	3.7	33	91	0	190	45	18	23	13	1.84
1331875--1331961	19	5.1	18	64	25	55	47	17	21	13	1.82
1332011--1332076	19	3.7	19	75	19	79	12	22	19	45	1.83
1332183--1332219	14	2.6	14	91	0	65	45	21	0	32	1.52
1333569--1333635	21	3.2	21	68	4	55	19	20	35	23	1.95
1333569--1333691	42	2.9	41	79	7	113	22	18	36	21	1.95
1334112--1334170	19	3.4	18	71	22	54	44	20	23	11	1.85
1334172--1334224	19	2.7	19	88	2	70	9	16	24	49	1.76
1334315--1334782	94	5.1	94	92	3	745	47	18	12	21	1.82
1336467--1336562	20	5.2	20	72	21	91	45	18	23	11	1.82
1336514--1336569	14	3.6	14	74	21	58	42	23	25	8	1.82
1336465--1336619	33	4.5	33	87	5	211	45	20	22	11	1.83
1336631--1336741	20	5.8	20	76	13	92	10	20	18	49	1.77
1337269--1337448	20	8.9	20	78	5	105	32	18	20	28	1.96
1337323--1337420	41	2.4	41	83	5	110	28	20	18	32	1.96
1337272--1337426	60	2.6	60	73	3	141	32	19	19	28	1.96
1339525--1339557	4	8.2	4	100	0	66	51	24	0	24	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341226--1341277	21	2.5	21	81	3	61	38	19	25	17	1.93
1341266--1341359	20	4.7	20	79	7	82	32	25	18	23	1.97
1341876--1341942	19	3.5	19	85	2	89	47	25	16	10	1.78
1341938--1342103	20	9.1	19	73	16	127	12	22	21	43	1.86
1341991--1342078	33	2.6	33	92	1	140	11	25	25	38	1.89
1345512--1345547	14	2.6	14	95	0	63	30	0	25	44	1.54
1345718--1345844	33	3.9	33	87	11	190	15	22	19	42	1.89
1345711--1345842	66	2.0	65	94	4	230	17	21	19	41	1.90
1345816--1345863	19	2.5	19	82	3	60	14	20	22	41	1.89
1347786--1348368	292	2.0	291	98	1	1141	26	22	12	38	1.90
1349699--1349756	19	2.9	20	87	7	82	39	22	22	15	1.91
1349699--1349755	21	2.8	20	89	5	80	40	22	22	14	1.90
1349780--1349833	14	3.5	14	77	22	63	11	20	20	48	1.80
1349762--1349832	33	2.2	33	84	0	88	19	19	21	39	1.93
1349775--1349852	33	2.4	33	88	0	111	12	21	21	43	1.86
1351807--1351863	21	2.9	19	82	10	78	35	24	24	15	1.95
1351929--1351985	14	3.9	14	75	20	53	10	14	24	50	1.73
1351920--1352001	31	2.6	32	84	7	114	10	15	21	51	1.75
1351985--1352040	20	2.8	19	78	7	58	16	21	23	39	1.92
1352336--1352378	17	2.5	17	88	0	68	13	16	41	27	1.86
1352665--1352713	23	2.1	24	96	3	91	24	18	34	22	1.96
1354256--1354374	21	5.9	21	72	14	65	18	20	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354198--1354310	20	5.7	20	77	9	88	23	16	23	35	1.95
1354240--1354372	41	3.3	41	81	6	139	19	20	21	39	1.93
1354299--1354391	20	4.6	20	81	4	105	17	23	18	40	1.90
1354299--1354391	41	2.3	41	98	0	177	17	23	18	40	1.90
1359164--1359210	17	2.8	17	83	3	60	31	0	6	61	1.21
1365634--1365663	3	10.0	3	92	0	51	70	0	0	30	0.88
1365838--1365885	3	15.7	3	80	20	55	64	2	0	33	1.05
1367185--1367248	25	2.5	25	85	12	78	75	0	3	21	0.95
1367327--1367383	29	2.0	29	89	0	87	40	3	10	45	1.56
1367296--1367419	66	1.9	65	83	9	164	44	4	6	44	1.51
1367269--1367571	102	3.0	98	76	14	285	44	6	5	44	1.52
1367393--1367599	71	3.0	65	75	17	213	43	7	4	44	1.52
1367349--1367639	36	8.1	37	77	11	234	43	6	4	44	1.51
1367355--1367638	75	4.0	73	78	13	270	44	7	4	44	1.51
1368202--1369017	80	9.9	79	74	9	546	24	19	24	31	1.98
1368309--1369037	84	8.8	84	77	6	601	24	19	24	31	1.98
1368207--1369051	165	5.1	165	83	3	932	23	20	24	31	1.98
1368207--1369037	333	2.5	328	84	3	1017	24	20	24	31	1.98
1370235--1370430	95	2.1	94	87	3	286	32	18	16	32	1.94
1374040--1374105	3	22.7	3	83	11	84	65	0	1	33	1.02
1374857--1374936	34	2.4	33	95	2	142	3	18	22	55	1.59
1375571--1375627	29	2.0	29	96	0	105	42	5	8	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375540--1375663	66	1.9	65	82	9	155	44	6	5	43	1.53
1375593--1375877	36	8.2	35	75	13	205	44	7	4	43	1.53
1375593--1375878	67	4.1	67	77	14	244	44	7	4	43	1.53
1378444--1378500	30	1.9	29	86	10	80	59	5	14	21	1.54
1378970--1379011	20	2.2	20	86	4	59	45	4	2	47	1.36
1399963--1400041	34	2.4	33	83	8	90	39	0	1	59	1.06
1399953--1400041	34	2.7	31	79	6	88	39	0	2	58	1.11
1400182--1400235	17	3.2	17	72	0	54	31	0	3	64	1.11
1401766--1401813	21	2.3	21	85	0	60	25	39	12	22	1.89
1401817--1401889	21	3.5	20	83	14	94	17	32	27	21	1.96

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