genome.fa.s9343.2.7.7.80.10.50.1000.7.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1269 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)
1224430--1224480	22	2.3	22	100	0	102	23	31	37	7	1.83
1224536--1224577	21	2.1	20	91	8	68	45	7	0	47	1.30
1225982--1226022	14	3.1	14	76	16	52	48	4	0	46	1.23
1226029--1226085	30	1.9	30	92	0	96	61	3	0	35	1.13
1226029--1226093	30	2.2	30	88	0	94	61	3	0	35	1.12
1226550--1226623	7	10.7	7	80	8	53	50	27	0	22	1.50
1226543--1226623	21	3.9	21	75	18	62	49	25	1	23	1.58
1226606--1226655	21	2.4	21	79	0	64	54	24	0	22	1.45
1226723--1226796	25	3.0	25	97	0	139	37	16	9	36	1.81
1226715--1226789	25	3.2	22	87	7	71	37	14	10	37	1.81
1227211--1227243	16	2.1	16	100	0	66	57	24	12	6	1.57
1227308--1227336	10	2.9	10	100	0	58	58	20	10	10	1.60
1228405--1228434	14	2.1	15	93	6	53	63	3	6	26	1.35
1228432--1228477	14	3.6	14	77	22	64	54	23	13	8	1.66
1228426--1228494	24	2.9	24	91	4	104	55	21	13	10	1.67
1229553--1229619	12	5.8	12	73	18	61	35	17	19	26	1.94
1229553--1229617	23	2.8	23	88	2	94	36	16	20	26	1.93
1229602--1229691	24	3.8	24	93	0	153	22	24	21	32	1.98
1241376--1241418	20	2.1	21	87	8	63	18	13	0	67	1.23
1248137--1248166	15	2.0	15	93	0	51	16	66	10	6	1.41
1248370--1248421	18	2.9	18	74	8	52	19	1	48	30	1.60
1253247--1253314	30	2.3	28	83	14	84	57	11	11	19	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255091--1255168	40	2.0	39	87	7	113	23	16	35	24	1.95
1254977--1255300	134	2.4	133	89	2	459	25	16	31	26	1.96
1255312--1255370	29	2.0	30	90	3	93	47	15	15	22	1.82
1255413--1255614	29	6.9	30	69	23	108	45	14	12	26	1.81
1255506--1255614	29	3.9	27	84	7	121	47	16	11	24	1.79
1255321--1255559	91	2.6	91	81	7	286	45	15	12	27	1.81
1255619--1255757	65	2.2	63	88	2	197	39	13	14	32	1.85
1255623--1255757	63	2.1	64	87	2	191	38	14	14	32	1.86
1255851--1255921	36	2.0	36	83	5	90	33	8	14	43	1.75
1256226--1256418	107	1.8	107	91	1	325	43	12	14	30	1.82
1256817--1256958	4	36.0	4	91	5	236	24	0	24	50	1.49
1257234--1257289	24	2.4	23	79	8	60	50	5	8	35	1.57
1258152--1258194	11	3.8	11	85	14	61	0	18	11	69	1.17
1258148--1258209	18	3.6	18	71	20	51	1	16	11	70	1.23
1258135--1258191	29	2.0	29	83	13	73	0	19	10	70	1.16
1261491--1261528	19	2.0	20	89	5	60	31	2	13	52	1.54
1262171--1262238	30	2.3	28	83	14	84	57	11	11	19	1.64
1263519--1263567	21	2.3	21	96	0	89	6	22	38	32	1.79
1267295--1267349	21	2.6	22	83	11	62	32	3	5	58	1.38
1276801--1276864	19	3.2	20	82	8	78	75	6	1	17	1.09
1276812--1276880	19	3.6	18	83	13	77	73	5	2	17	1.15
1276917--1276964	19	2.5	20	80	13	55	66	4	4	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277296--1277332	15	2.4	16	82	13	51	78	0	13	8	0.96
1277315--1277342	10	2.8	10	100	0	56	75	0	10	14	1.06
1277301--1277346	24	1.9	24	86	8	67	76	0	13	10	1.03
1277300--1277355	25	2.2	27	78	18	66	76	0	10	12	1.01
1277384--1277450	18	3.7	18	71	11	57	70	0	7	22	1.12
1277386--1277536	12	11.4	12	68	22	56	65	1	5	27	1.24
1277474--1277519	14	3.1	14	80	20	58	58	2	0	39	1.10
1279049--1279245	106	1.9	106	88	2	297	20	18	25	35	1.96
1280307--1280359	11	4.5	11	80	15	61	0	15	1	83	0.74
1280307--1280348	14	3.1	14	81	18	54	0	16	2	80	0.81
1280316--1280361	23	2.0	23	86	0	65	0	17	2	80	0.81
1280307--1280360	14	4.0	14	79	9	51	0	14	1	83	0.73
1280307--1280361	12	4.5	12	77	11	58	0	16	1	81	0.77
1280398--1280436	16	2.5	15	84	8	51	0	20	0	79	0.73
1290304--1290387	19	4.3	19	78	17	84	75	7	2	15	1.13
1290304--1290387	39	2.2	38	87	8	116	75	7	2	15	1.13
1290405--1290452	19	2.5	20	80	13	55	66	4	4	25	1.27
1290670--1290730	2	30.5	2	100	0	122	50	0	0	49	1.00
1290827--1290861	16	2.2	16	90	5	54	77	0	8	14	0.99
1290886--1290959	18	4.1	18	72	11	62	68	1	6	22	1.20
1290895--1290955	12	5.1	12	73	15	54	70	1	4	22	1.15
1290984--1291012	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298774--1298811	20	1.9	20	88	0	58	39	5	21	34	1.76
1301386--1301415	15	2.0	15	100	0	60	53	26	13	6	1.64
1305638--1305731	43	2.2	41	88	5	143	38	34	10	17	1.84
1305638--1305731	42	2.2	42	87	9	138	38	34	10	17	1.84
1308329--1308362	13	2.6	13	95	0	59	14	17	50	17	1.79
1315695--1315724	9	3.3	9	90	0	51	0	26	0	73	0.84
1316304--1316345	19	2.1	19	86	8	57	33	11	26	28	1.92
1317271--1317311	21	2.0	21	85	0	55	24	14	24	36	1.93
1319158--1319311	65	2.4	65	85	5	197	29	16	22	31	1.96
1327860--1328060	65	3.1	64	80	10	212	27	17	23	30	1.97
1328024--1328093	20	3.5	20	96	0	131	15	15	38	30	1.89
1334429--1334457	13	2.2	13	100	0	58	51	13	6	27	1.66
1334472--1334553	25	3.5	25	66	23	70	68	3	4	23	1.25
1334476--1334598	44	2.8	45	92	2	203	66	5	5	21	1.34
1338575--1338629	20	2.5	20	80	11	56	38	7	1	52	1.40
1339138--1339166	15	1.9	15	100	0	58	31	48	6	13	1.69
1344287--1344320	2	17.0	2	100	0	68	50	0	0	50	1.00
1345191--1345287	51	1.9	51	83	8	126	14	21	25	38	1.92
1345302--1345346	12	3.7	13	82	11	51	57	0	0	42	0.98
1345402--1345707	71	4.2	72	83	5	339	45	8	3	42	1.51
1345392--1345669	110	2.5	107	87	5	378	46	7	3	42	1.49
1345655--1345682	14	2.0	14	100	0	56	42	14	7	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345375--1345707	37	9.2	35	80	10	316	46	8	3	41	1.52
1345566--1345713	36	4.1	36	80	11	101	43	10	3	42	1.56
1352051--1352386	54	6.2	54	83	4	381	35	19	17	27	1.94
1352051--1352393	162	2.1	163	87	1	492	35	20	17	27	1.95
1353477--1353745	10	29.6	9	69	25	126	40	1	5	52	1.36
1353479--1353691	2	112.5	2	68	27	121	42	1	4	51	1.33
1353477--1353653	23	7.6	23	74	20	124	41	1	5	51	1.31
1353489--1353700	19	10.8	19	74	15	114	41	1	5	50	1.35
1354030--1354072	20	2.1	21	86	4	61	48	25	11	13	1.77
1354428--1354452	13	1.9	13	100	0	50	12	0	40	48	1.40
1359264--1359324	29	2.1	29	82	11	72	39	3	4	52	1.39
1370948--1371059	40	2.8	39	78	7	111	51	1	0	45	1.17
1371983--1372021	8	4.4	9	87	12	55	7	10	0	82	0.86
1378890--1379047	30	5.3	30	80	10	155	39	21	25	12	1.89
1378890--1379040	60	2.5	59	84	8	173	39	21	25	12	1.89
1381902--1381936	13	2.6	14	86	9	54	31	14	8	45	1.75
1382302--1382361	3	20.0	3	79	6	59	40	0	0	60	0.97
1383380--1383437	30	2.0	30	82	3	73	24	6	6	62	1.45
1383746--1383793	2	24.0	2	100	0	96	50	0	0	50	1.00
1387164--1387241	39	2.0	39	87	0	111	56	11	6	25	1.58
1393676--1393711	18	2.0	18	89	10	56	50	0	13	36	1.43
1396998--1397049	3	18.0	3	84	15	74	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398273--1398303	15	2.1	15	93	0	53	19	12	6	61	1.53
1398602--1398692	46	2.0	47	88	2	139	37	23	10	28	1.89
1402049--1402085	18	1.9	19	89	10	58	51	0	10	37	1.37
1402397--1402495	3	34.0	3	84	9	134	33	1	0	65	0.99
1402397--1402490	25	3.7	26	86	10	133	32	0	0	67	0.91
1405191--1405221	15	2.1	15	93	0	53	19	12	6	61	1.53
1405521--1405617	49	2.0	50	85	4	135	41	20	10	27	1.85
1405676--1405711	16	2.2	16	90	9	56	72	0	0	27	0.85
1409333--1409372	17	2.4	17	84	16	57	77	2	0	20	0.88
1414002--1414035	17	2.0	17	100	0	68	11	23	47	17	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11