genome.fa.s7864.2.7.7.80.10.50.1000.7.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: VEPZ01007864.1 Hibiscus syriacus cultivar Beakdansim tig00110236_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1537186

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 870 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)
1212338--1212391	20	2.8	18	83	8	63	14	1	3	79	0.95
1217240--1217270	12	2.6	12	100	0	62	45	6	0	48	1.28
1217288--1217335	19	2.5	19	82	3	60	56	4	6	33	1.44
1218352--1218579	123	1.9	123	85	7	320	39	8	17	34	1.80
1219835--1219903	20	3.5	19	75	16	61	28	21	18	30	1.97
1219937--1219985	20	2.4	20	80	10	55	30	24	18	26	1.98
1221113--1221156	15	2.9	15	80	12	54	15	9	31	43	1.79
1221997--1222045	19	2.7	18	78	6	55	40	4	2	53	1.32
1231775--1231821	3	14.7	3	82	12	58	61	2	0	36	1.08
1231776--1231821	13	3.8	12	83	16	60	60	2	0	36	1.09
1231775--1231821	10	4.9	9	80	14	58	61	2	0	36	1.08
1233790--1234250	53	8.7	54	83	8	533	29	14	27	28	1.95
1233790--1234250	104	4.3	105	86	8	607	29	14	27	28	1.95
1233790--1234238	159	2.8	157	85	7	613	28	14	27	29	1.96
1248596--1249066	55	8.7	55	90	3	706	29	14	28	27	1.96
1248596--1249066	163	2.9	162	89	4	732	29	14	28	27	1.96
1248596--1249066	108	4.3	108	93	2	775	29	14	28	27	1.96
1255970--1257022	81	13.0	81	88	2	1468	37	10	20	32	1.86
1255970--1257022	244	4.3	243	88	2	1481	37	10	20	32	1.86
1257067--1257185	45	2.6	45	81	7	125	47	12	17	22	1.82
1258766--1258797	15	2.1	15	94	0	55	78	0	9	12	0.97
1258800--1259036	16	13.8	17	69	22	97	61	0	5	33	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258800--1258910	48	2.3	48	82	10	122	61	0	4	33	1.22
1258893--1259047	6	24.8	6	74	16	59	60	0	5	33	1.20
1258997--1259034	2	19.0	2	100	0	76	50	0	0	50	1.00
1259171--1259217	2	23.5	2	100	0	94	51	0	0	48	1.00
1260635--1260841	110	1.9	110	86	2	299	21	18	23	36	1.95
1261937--1261962	12	2.2	12	100	0	52	0	0	7	92	0.39
1269065--1269101	18	2.0	19	94	5	67	64	5	8	21	1.40
1271855--1271917	29	2.2	29	82	5	74	65	1	15	17	1.36
1271980--1272021	2	21.5	2	95	4	77	52	0	0	47	1.00
1272064--1272095	15	2.1	15	94	0	55	78	0	9	12	0.97
1272090--1272157	14	4.8	14	77	21	63	61	1	2	33	1.20
1272090--1272154	30	2.2	29	80	17	73	61	1	3	33	1.21
1272090--1272159	21	3.4	21	69	21	58	61	1	2	34	1.20
1272267--1272293	2	13.5	2	100	0	54	51	0	0	48	1.00
1274227--1274282	25	2.3	25	84	6	71	26	10	5	57	1.54
1275253--1275295	20	2.2	20	91	0	68	27	23	4	44	1.73
1275279--1275408	45	2.9	45	93	2	208	31	20	7	40	1.81
1277831--1277863	16	2.1	16	94	0	57	15	12	21	51	1.75
1278324--1278369	23	2.1	21	84	8	56	32	6	6	54	1.52
1280387--1280441	13	4.5	12	78	21	53	32	1	1	63	1.15
1280387--1280447	25	2.4	25	78	5	70	34	1	1	62	1.15
1283142--1283176	18	1.9	18	88	0	52	17	2	14	65	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298100--1298144	21	2.3	19	85	11	56	33	22	17	26	1.96
1298178--1298245	20	3.5	20	90	4	95	29	22	20	27	1.98
1298844--1298883	20	2.0	21	90	5	64	32	22	17	27	1.96
1302748--1302800	14	4.1	14	79	18	69	15	11	15	58	1.63
1302745--1302799	24	2.3	24	96	0	101	16	10	12	60	1.60
1303211--1303251	16	2.7	16	85	7	59	12	9	17	60	1.57
1304651--1304675	10	2.5	10	100	0	50	48	0	20	32	1.50
1304768--1304809	11	3.8	11	100	0	84	23	9	0	66	1.21
1309322--1309385	30	2.1	29	86	11	85	64	4	10	20	1.43
1309596--1309886	120	2.4	122	86	5	385	44	12	16	26	1.83
1319280--1319566	156	1.8	156	83	0	385	27	17	20	34	1.95
1324888--1325012	66	1.9	66	81	3	153	46	16	11	26	1.80
1325684--1325729	24	1.9	24	100	0	92	43	2	0	54	1.12
1325685--1325739	24	2.3	24	90	0	83	52	1	0	45	1.11
1327015--1327134	61	2.0	61	86	0	168	34	7	17	40	1.78
1327079--1327346	107	2.5	107	91	1	421	33	10	21	34	1.87
1330085--1330159	27	2.7	29	79	6	84	32	2	2	62	1.23
1330083--1330168	33	2.7	32	77	12	77	33	2	2	61	1.21
1330470--1330526	25	2.3	25	93	0	96	49	21	12	17	1.79
1331092--1331127	2	18.0	2	100	0	72	50	0	0	50	1.00
1332642--1332739	51	1.9	52	89	2	153	40	11	13	34	1.80
1333703--1333767	2	32.5	2	100	0	130	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335594--1335625	2	16.5	2	93	6	57	50	0	0	50	1.00
1340912--1341067	43	3.4	43	67	13	123	34	25	18	21	1.96
1340801--1341775	94	10.0	94	87	7	1272	34	25	17	22	1.96
1340801--1341775	200	5.0	198	89	4	1361	34	25	17	22	1.96
1342013--1342470	84	5.5	83	81	3	501	29	24	20	25	1.99
1342003--1342470	168	2.8	168	84	2	606	29	24	20	25	1.99
1355403--1355458	27	2.1	26	83	12	69	55	3	0	41	1.17
1368934--1369003	28	2.5	28	88	0	95	40	27	2	30	1.71
1373888--1373927	17	2.4	17	86	0	53	20	30	35	15	1.93
1381020--1381059	20	2.0	20	95	0	71	37	5	17	40	1.72
1387421--1387465	23	2.0	22	87	12	65	57	0	0	42	0.98
1389866--1389933	29	2.3	29	87	0	91	42	23	7	26	1.80
1389912--1389992	30	2.8	29	79	3	90	46	19	6	27	1.73
1397247--1397314	29	2.3	29	85	5	84	42	23	7	26	1.80
1397291--1397372	29	2.8	29	92	0	137	43	23	9	23	1.83
1397380--1397426	18	2.7	18	93	3	78	14	23	44	17	1.85
1401494--1401538	2	22.5	2	100	0	90	51	0	0	48	1.00
1401703--1401761	27	2.1	27	84	12	75	61	5	0	33	1.18
1403985--1404044	26	2.3	25	81	13	68	45	1	5	48	1.34
1404014--1404048	18	1.9	18	88	0	52	37	2	5	54	1.39
1407154--1407200	2	23.5	2	86	0	67	51	6	0	42	1.27
1407156--1407200	16	2.8	16	96	0	81	51	6	0	42	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409290--1409847	113	4.9	112	84	6	646	27	18	13	39	1.89
1409290--1409838	226	2.4	227	87	6	745	27	19	13	39	1.89
1414150--1414350	72	2.7	73	86	4	262	33	17	19	28	1.95
1417310--1417399	43	2.0	45	82	4	112	35	23	12	28	1.91
1418819--1418891	28	2.6	29	78	6	78	60	0	8	31	1.26
1419811--1419867	27	2.1	28	83	9	73	66	1	1	29	1.12
1419786--1419850	24	2.7	23	75	20	62	63	1	4	30	1.24
1419803--1419871	27	2.8	23	72	19	59	66	1	2	28	1.14
1422456--1422507	20	2.6	20	96	0	95	34	25	11	28	1.91
1437334--1437371	19	2.1	19	95	5	69	86	5	0	7	0.69
1443649--1443678	15	1.9	16	93	6	53	40	10	6	43	1.64
1447890--1447946	18	3.3	17	76	16	55	57	1	0	40	1.09
1447890--1447941	15	3.3	15	71	23	52	57	1	0	40	1.10
1447916--1447964	23	2.1	23	84	0	62	57	0	4	38	1.18
1447936--1448004	30	2.1	34	84	10	92	59	0	4	36	1.17
1449811--1449853	21	2.0	22	86	4	61	25	0	4	69	1.07
1449805--1449854	21	2.4	21	77	12	57	32	0	4	64	1.12
1450992--1451033	18	2.3	18	100	0	84	35	21	0	42	1.53
1451052--1451101	20	2.5	20	83	0	55	34	10	18	38	1.84
1453303--1453380	35	2.2	35	100	0	156	48	17	8	24	1.76
1455033--1455125	38	2.4	39	89	1	143	24	10	13	50	1.74
1457919--1457967	20	2.5	21	75	18	52	34	10	34	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1458384--1458419	18	2.0	18	88	0	54	11	13	19	55	1.68
1459914--1459951	19	1.9	19	89	5	58	34	10	10	44	1.73
1468786--1468812	7	3.9	7	100	0	54	25	14	44	14	1.84
1469173--1469220	3	16.0	3	100	0	96	33	0	0	66	0.92
1470181--1470234	25	2.0	27	86	13	76	22	12	3	61	1.47
1470370--1470411	22	1.9	22	100	0	84	30	11	9	47	1.72
1472803--1472867	31	2.2	31	83	5	80	43	0	9	47	1.35
1472823--1472896	35	2.3	31	86	9	94	36	1	9	52	1.42
1472823--1472898	34	2.3	33	82	8	93	38	1	9	51	1.42
1472945--1473052	50	2.2	50	81	6	123	45	9	9	36	1.68

Tables:   1   2   3   4   5   6   7   8