genome.fa.s7909.2.7.7.80.10.50.1000.7.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: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3382237

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

This is table  7  of  17  ( 1978 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)
1169315--1169358	23	1.9	24	90	9	74	47	4	22	25	1.70
1169315--1169362	24	2.0	24	88	8	71	47	4	25	22	1.69
1169421--1169576	83	1.9	83	91	0	258	44	11	2	41	1.54
1169896--1169927	15	2.0	17	88	11	50	68	0	9	21	1.17
1171747--1171795	20	2.5	19	81	15	64	12	16	0	71	1.14
1175695--1175723	14	2.0	15	93	6	51	62	0	0	37	0.96
1185037--1185078	18	2.3	18	87	4	57	52	0	0	47	1.00
1185102--1185148	22	2.0	23	84	12	60	42	4	4	48	1.42
1189280--1189359	3	26.3	3	89	2	88	42	0	0	57	0.98
1202140--1202170	10	3.0	10	95	4	53	87	0	12	0	0.55
1202141--1202171	16	2.0	15	93	6	53	90	0	9	0	0.46
1203330--1203961	84	7.6	84	93	2	1053	29	12	21	37	1.90
1203322--1203961	166	3.8	167	93	2	1099	29	12	21	37	1.90
1203322--1203961	250	2.6	249	94	1	1129	29	12	21	37	1.90
1203907--1204228	115	2.8	115	93	0	547	31	13	21	32	1.93
1204952--1205314	113	3.2	113	95	0	629	37	13	19	29	1.91
1205229--1205409	95	1.9	93	83	0	218	34	16	17	32	1.92
1205115--1205654	208	2.7	196	81	5	589	37	14	18	29	1.90
1205885--1205919	3	11.3	3	87	6	52	37	0	0	62	0.95
1210683--1210730	21	2.3	21	96	0	87	41	12	18	27	1.86
1215338--1215385	21	2.3	21	96	0	87	41	12	18	27	1.86
1216617--1216641	3	8.3	3	100	0	50	68	0	32	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218422--1218447	10	2.6	10	100	0	52	73	0	0	26	0.84
1219372--1219404	2	16.5	2	100	0	66	48	0	0	51	1.00
1220876--1221068	20	9.6	20	83	5	237	34	26	19	19	1.95
1221448--1221518	33	2.2	33	92	0	115	11	22	16	49	1.78
1221598--1221704	21	5.6	20	72	17	93	47	18	20	13	1.81
1221659--1221715	14	3.7	14	75	20	60	43	22	24	8	1.81
1221652--1221731	33	2.4	33	95	0	142	47	22	21	8	1.78
1221727--1221854	19	7.1	19	71	19	87	10	25	18	45	1.82
1221749--1221805	14	3.7	14	75	20	60	8	24	22	43	1.81
1221732--1221854	33	3.5	33	88	10	165	10	24	18	46	1.81
1221790--1221854	21	3.1	21	82	4	96	10	26	15	47	1.78
1223538--1223946	93	4.4	93	99	0	800	22	13	19	45	1.84
1224076--1224120	19	2.4	19	92	0	72	46	26	17	8	1.78
1224116--1224288	19	9.6	19	76	12	150	10	20	23	45	1.82
1224119--1224213	33	2.9	33	91	0	163	12	22	20	45	1.84
1224116--1224288	33	4.8	38	79	8	159	10	20	23	45	1.82
1226214--1226249	14	2.6	14	95	0	63	33	0	22	44	1.53
1226356--1226454	20	5.4	19	83	12	127	45	17	22	15	1.85
1226356--1226472	54	2.2	53	95	3	209	43	17	23	14	1.87
1226469--1226738	53	5.1	52	87	8	388	13	21	17	47	1.82
1226485--1226724	72	3.4	70	79	13	253	13	21	17	47	1.82
1226469--1226738	105	2.5	108	89	7	405	13	21	17	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229023--1229047	12	2.1	12	100	0	50	0	28	0	72	0.86
1229222--1229268	24	2.0	24	87	8	69	38	21	14	25	1.92
1229961--1230189	20	11.4	20	85	1	235	19	17	25	37	1.94
1230157--1230254	21	4.8	20	75	10	81	21	19	21	37	1.94
1230157--1230255	42	2.4	43	77	11	100	21	19	22	37	1.94
1231047--1231094	23	2.1	23	88	0	69	43	8	10	37	1.69
1231047--1231101	23	2.5	22	85	8	67	45	7	9	38	1.64
1232035--1232068	16	2.1	16	88	0	50	64	0	0	35	0.94
1233619--1233678	20	2.9	21	90	7	95	30	25	26	18	1.98
1233714--1233758	22	2.0	22	91	4	72	28	33	26	11	1.91
1234192--1234237	20	2.3	20	96	0	83	47	0	28	23	1.52
1235173--1235264	23	4.0	23	88	5	141	19	26	26	28	1.99
1251952--1251991	19	2.2	17	86	8	53	55	0	15	30	1.41
1252428--1252462	11	3.2	11	87	0	52	34	14	22	28	1.93
1252542--1252593	21	2.6	19	79	8	50	25	19	9	46	1.80
1253732--1253877	64	2.2	66	86	4	199	30	23	17	27	1.97
1253774--1253896	64	1.9	62	83	9	158	28	22	18	30	1.98
1262400--1262545	64	2.2	66	89	4	217	28	25	19	26	1.98
1262443--1262563	64	1.9	62	86	10	172	27	23	19	28	1.99
1265315--1265356	19	2.2	19	79	8	50	35	4	11	47	1.61
1267633--1267706	29	2.5	30	82	8	82	41	9	10	37	1.73
1268162--1268205	17	2.4	18	81	11	54	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268397--1268491	42	2.2	41	82	10	111	52	14	4	28	1.60
1277502--1277554	20	2.7	20	93	0	88	22	18	33	24	1.97
1284153--1284190	19	2.0	19	100	0	76	31	15	10	42	1.81
1284268--1284292	2	12.5	2	100	0	50	48	0	0	52	1.00
1285526--1285611	43	2.0	43	93	4	147	58	19	0	22	1.40
1290179--1290231	21	2.5	21	75	6	63	22	26	16	33	1.96
1290221--1290272	21	2.5	21	81	3	61	38	19	23	19	1.93
1290240--1290370	41	3.2	42	86	3	144	32	26	19	21	1.97
1290262--1290435	20	8.6	20	87	3	206	29	27	18	24	1.98
1290589--1290622	12	2.9	12	86	4	52	17	41	5	35	1.74
1291405--1291429	12	2.1	12	100	0	50	72	0	28	0	0.86
1293711--1293786	20	3.8	20	96	0	134	39	23	22	14	1.91
1293692--1293798	40	3.0	34	73	15	97	39	23	23	14	1.91
1293810--1293863	14	3.5	14	75	22	54	11	22	20	46	1.82
1293792--1293862	33	2.2	33	81	0	79	19	21	21	38	1.94
1295437--1295530	42	2.2	42	83	5	118	21	13	41	23	1.89
1295790--1295859	25	2.8	25	73	18	65	51	14	10	24	1.72
1295868--1295920	20	2.7	20	90	0	79	35	28	11	24	1.90
1295894--1295960	20	3.4	20	85	2	82	38	25	22	13	1.90
1295894--1295998	19	5.7	19	77	14	85	42	23	20	12	1.86
1295933--1296009	19	4.3	19	75	18	76	46	24	18	10	1.80
1296005--1296080	19	4.3	19	77	16	99	13	21	19	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296660--1296707	18	2.7	18	93	0	87	14	12	45	27	1.81
1298002--1298039	20	1.9	20	88	0	58	50	21	15	13	1.78
1298318--1298361	22	2.0	22	95	0	79	18	15	45	20	1.85
1298548--1298661	20	5.7	20	84	6	140	22	18	27	31	1.97
1298528--1298663	41	3.3	41	84	6	186	22	17	25	33	1.96
1298528--1298683	41	3.8	41	80	6	138	21	19	25	33	1.97
1298695--1298744	21	2.4	22	76	6	59	38	18	24	20	1.93
1299685--1299723	19	2.1	19	100	0	78	30	25	0	43	1.55
1312301--1312337	10	3.8	10	89	7	58	8	27	0	64	1.21
1312298--1312344	10	5.1	9	85	7	51	8	27	0	63	1.23
1312289--1312344	19	3.1	18	82	12	62	8	28	0	62	1.25
1312608--1312817	76	2.8	77	88	2	291	24	32	23	20	1.98
1318574--1318611	19	2.0	19	89	0	58	21	36	26	15	1.93
1320585--1320635	9	6.2	8	76	19	52	13	0	27	58	1.36
1320587--1320630	17	2.6	17	85	7	63	13	0	29	56	1.38
1320922--1320982	32	1.9	32	100	0	122	39	6	24	29	1.80
1321266--1321475	75	2.8	77	85	3	282	24	31	23	20	1.98
1323110--1323148	19	2.1	19	95	0	69	20	38	15	25	1.92
1323045--1323274	64	3.5	64	80	10	213	30	26	16	26	1.97
1323226--1323274	19	2.6	19	84	9	57	24	30	18	26	1.98
1329076--1329155	24	3.5	22	78	14	92	22	26	22	28	1.99
1331680--1331718	19	2.1	19	95	0	69	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331636--1331844	64	3.2	64	79	9	205	30	25	16	27	1.96
1331796--1331844	19	2.6	19	84	9	57	24	30	18	26	1.98
1335263--1335299	20	2.0	20	89	10	60	5	27	0	67	1.12
1335779--1335817	20	2.0	20	89	0	60	33	10	23	33	1.88
1337405--1337429	11	2.3	11	100	0	50	24	44	0	32	1.54
1342501--1342534	7	5.0	7	85	7	52	32	0	0	67	0.91
1342508--1342532	13	1.9	13	100	0	50	36	0	0	64	0.94
1344195--1344240	19	2.4	19	96	0	83	10	8	10	69	1.37
1347277--1348384	84	13.4	82	80	4	1041	30	24	20	25	1.98
1347268--1348350	164	6.6	164	86	2	1201	30	24	20	24	1.99

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