genome.fa.s8360.2.7.7.80.10.50.1000.6.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: VEPZ01008360.1 Hibiscus syriacus cultivar Beakdansim tig00111099_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1563863

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 792 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)
1130896--1131057	22	6.5	22	69	25	90	40	0	8	51	1.31
1130929--1131287	32	11.7	32	71	23	238	36	0	10	52	1.38
1130907--1131399	54	9.0	54	73	17	419	37	0	9	52	1.36
1131037--1131255	80	2.6	83	90	8	324	36	0	10	52	1.40
1131116--1131367	118	2.2	117	88	8	376	36	0	10	52	1.36
1131149--1131191	22	2.0	22	95	0	77	37	0	11	51	1.39
1131180--1131265	14	5.6	14	70	20	64	37	0	6	55	1.27
1131234--1131384	80	1.9	80	95	0	275	37	0	9	52	1.35
1131347--1131389	22	2.0	22	90	0	68	44	0	4	51	1.22
1131258--1131384	40	3.2	40	67	16	109	37	0	9	53	1.33
1131413--1131472	31	1.9	31	82	0	75	48	10	3	38	1.53
1139152--1139195	23	1.9	23	90	0	70	20	43	0	36	1.52
1142336--1142387	3	17.7	3	96	4	97	34	0	0	65	0.93
1143677--1143791	59	1.9	60	96	1	214	37	5	6	50	1.52
1144224--1144281	26	2.1	28	84	12	77	32	5	13	48	1.65
1147605--1147906	157	2.0	150	93	5	516	30	16	24	29	1.96
1150004--1150132	48	2.7	48	75	13	131	21	16	18	43	1.88
1150021--1150132	24	4.7	24	87	6	156	22	16	18	41	1.90
1155740--1155868	48	2.7	48	75	13	131	21	16	18	43	1.88
1155757--1155868	24	4.7	24	87	6	156	22	16	18	41	1.90
1158855--1158913	3	19.7	3	96	0	109	33	1	0	64	1.04
1160341--1160376	16	2.2	17	90	5	56	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161032--1161076	17	2.6	17	85	0	54	31	6	0	62	1.21
1171722--1171794	1	73.0	1	80	0	83	90	0	9	0	0.46
1171722--1171793	11	6.5	11	89	9	103	90	0	9	0	0.46
1172124--1172167	17	2.6	17	89	3	63	31	6	4	56	1.46
1172930--1173492	83	6.7	83	95	1	914	28	13	21	35	1.92
1174226--1174659	113	3.8	113	94	0	726	39	13	18	28	1.88
1174976--1175049	3	24.7	3	97	0	139	33	1	0	64	1.02
1175781--1175839	30	2.0	29	83	3	73	38	6	5	49	1.52
1176099--1176134	16	2.2	17	90	5	56	52	0	0	47	1.00
1189265--1189312	20	2.4	20	89	6	71	81	4	4	10	0.97
1189579--1189612	12	2.8	12	90	4	50	35	0	2	61	1.11
1191136--1191200	25	2.6	25	70	7	60	60	3	1	35	1.22
1203082--1203143	25	2.5	25	92	5	99	67	9	1	20	1.28
1203164--1203209	18	2.6	18	82	6	58	71	0	2	26	0.97
1208965--1209026	29	2.1	30	82	14	76	58	3	4	33	1.36
1219906--1219950	23	1.9	23	81	4	54	53	4	8	33	1.52
1232308--1232534	116	2.0	116	83	1	294	53	3	13	29	1.57
1232776--1232834	30	2.0	30	90	3	93	45	5	3	45	1.42
1242927--1242963	16	2.3	16	100	0	74	48	13	13	24	1.78
1247429--1247460	3	10.7	3	93	0	55	62	0	34	3	1.11
1252590--1252766	88	2.0	88	97	0	336	31	10	11	46	1.75
1257656--1257711	16	3.6	16	72	11	53	8	7	33	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258134--1258183	20	2.5	19	81	15	57	32	0	0	68	0.90
1259610--1259674	20	3.5	20	66	30	54	43	20	6	30	1.76
1259566--1259675	35	3.1	35	90	3	159	42	20	4	32	1.72
1263802--1263835	16	2.1	16	94	0	59	32	26	8	32	1.87
1264245--1264364	35	3.3	36	87	5	172	44	20	5	30	1.72
1273116--1273150	16	2.2	16	89	0	52	31	0	17	51	1.45
1273116--1273142	14	1.9	14	100	0	54	33	0	14	51	1.43
1280296--1280330	12	2.8	12	91	4	52	42	0	0	57	0.99
1293064--1293366	147	2.0	153	92	6	519	41	6	20	31	1.78
1294500--1294534	17	2.1	17	94	0	61	20	48	2	28	1.63
1296258--1296371	57	2.0	58	96	1	212	40	7	10	42	1.66
1296972--1297002	2	15.5	2	100	0	62	48	0	0	51	1.00
1298766--1298801	15	2.4	15	100	0	72	75	5	0	19	1.00
1304622--1304705	39	2.2	39	88	0	132	34	17	23	23	1.96
1310296--1310615	163	2.0	163	86	1	453	36	16	24	23	1.94
1313071--1313106	18	2.0	18	100	0	72	44	16	11	27	1.82
1318204--1318269	6	10.0	6	75	18	60	48	4	0	46	1.22
1318219--1318269	21	2.4	21	100	0	102	49	3	0	47	1.20
1321796--1321829	17	1.9	18	94	5	61	38	0	0	61	0.96
1322490--1322524	16	2.1	17	89	5	54	0	11	51	37	1.38
1322496--1322524	11	2.6	11	100	0	58	0	10	51	37	1.36
1324069--1324436	183	2.0	185	96	2	679	30	15	24	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326281--1326438	64	2.5	63	79	8	160	29	18	24	27	1.98
1327362--1327404	2	21.5	2	100	0	86	51	0	0	48	1.00
1327568--1327599	2	16.0	2	100	0	64	50	0	0	50	1.00
1328111--1328155	23	2.0	23	81	0	54	20	24	24	31	1.98
1330826--1330851	13	2.0	13	100	0	52	38	0	15	46	1.46
1334152--1334223	2	37.0	2	80	5	85	50	6	0	43	1.29
1334155--1334365	4	53.5	4	86	8	236	49	18	0	32	1.47
1334693--1334762	31	2.3	31	84	0	86	31	20	17	31	1.95
1338659--1338683	4	6.2	4	100	0	50	48	24	0	28	1.52
1343143--1343182	4	10.0	4	94	0	71	27	0	0	72	0.85
1345484--1345739	124	2.0	128	96	3	484	27	10	11	50	1.71
1349230--1349267	2	19.5	2	94	5	69	52	0	0	47	1.00
1351581--1351608	4	7.0	4	100	0	56	25	25	25	25	2.00
1351898--1351940	19	2.1	21	83	8	54	55	0	6	37	1.27
1352691--1352766	19	3.9	19	74	14	57	40	11	9	38	1.74
1352692--1352788	40	2.4	41	84	5	126	39	12	10	38	1.77
1352692--1352789	39	2.4	38	80	9	115	39	12	10	37	1.77
1352773--1352834	27	2.5	24	80	17	72	41	16	12	29	1.85
1359799--1360076	143	2.0	142	91	0	448	39	10	14	36	1.80
1362406--1362446	20	2.0	20	90	0	64	43	2	4	48	1.37
1362611--1362662	26	2.1	25	82	7	61	51	3	3	40	1.38
1362644--1362690	22	2.1	22	96	0	85	40	4	6	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363875--1363962	34	2.6	35	75	8	101	17	9	29	44	1.79
1365143--1365322	60	3.0	59	79	6	182	41	3	20	35	1.68
1373840--1373897	17	3.2	18	75	15	57	17	6	27	48	1.72
1377394--1377476	23	3.5	23	88	1	85	27	15	19	37	1.92
1377401--1377476	24	3.2	24	90	1	118	26	15	21	36	1.93
1377554--1377628	35	2.1	35	95	0	132	9	28	28	34	1.88
1382561--1382617	25	2.3	24	79	8	62	47	0	7	45	1.30
1385762--1385819	17	3.2	18	75	15	57	17	6	27	48	1.72
1389318--1389400	23	3.5	23	88	1	94	28	14	19	37	1.91
1389325--1389400	24	3.2	24	88	1	118	27	14	21	36	1.92
1389478--1389552	35	2.1	35	92	0	123	10	26	28	34	1.90
1393318--1393374	25	2.3	24	79	8	62	47	0	7	45	1.30
1400809--1400898	29	3.1	28	72	12	83	40	3	21	35	1.70
1400738--1400898	58	2.7	60	81	12	181	39	3	22	33	1.72
1405564--1405651	45	2.0	45	90	0	140	7	4	42	45	1.54
1405570--1405664	45	2.1	45	84	0	118	6	7	44	42	1.57
1407035--1407063	14	2.0	15	93	6	51	20	6	6	65	1.40
1408887--1408949	25	2.5	26	77	10	69	49	3	6	41	1.44
1408931--1409008	38	2.1	38	80	7	88	60	0	8	30	1.28
1421077--1421109	15	2.2	15	94	0	57	6	15	69	9	1.34
1427051--1427124	36	2.1	36	94	0	130	36	13	33	16	1.88
1428824--1428850	2	13.5	2	100	0	54	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)
1429571--1429597	2	13.5	2	100	0	54	48	0	0	51	1.00
1437645--1437684	21	1.9	21	89	0	62	55	0	7	37	1.29
1438165--1438203	20	2.0	20	84	0	51	56	5	7	30	1.49
1440185--1440214	15	2.1	15	93	6	53	50	0	0	50	1.00
1440245--1440269	12	2.1	12	100	0	50	32	0	0	68	0.90
1440267--1440309	21	2.0	22	86	8	63	58	2	0	39	1.11
1440708--1440792	42	2.0	42	90	4	136	56	12	2	28	1.49
1441820--1441859	2	20.5	2	94	5	73	47	0	0	52	1.00
1441891--1441992	39	2.6	38	78	18	120	35	18	0	45	1.57
1450581--1450898	20	15.6	20	77	7	174	39	19	22	19	1.93

Tables:   1   2   3   4   5   6   7