genome.fa.s7741.2.7.7.80.10.50.1000.5.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: VEPZ01007741.1 Hibiscus syriacus cultivar Beakdansim tig00110004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1550271

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 830 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)
986736--986799	23	2.5	26	75	25	66	20	9	0	70	1.14
986736--986799	25	2.6	25	75	20	71	20	9	0	70	1.14
992396--992649	96	2.6	97	90	2	379	33	19	18	28	1.95
993317--993570	37	6.5	37	73	14	113	48	1	6	43	1.37
993316--993408	36	2.6	36	82	6	116	50	2	5	41	1.37
993390--993421	2	16.5	2	93	6	57	50	0	0	50	1.00
993320--993496	86	2.0	87	82	6	216	47	2	6	43	1.42
993358--993459	50	2.1	49	88	1	150	44	1	8	45	1.46
993591--993681	42	2.2	42	84	9	123	47	1	4	47	1.29
993406--993698	37	7.9	36	81	10	288	45	1	7	45	1.39
993400--993698	112	2.7	112	78	13	319	45	1	7	45	1.38
994013--994066	23	2.4	23	93	3	92	44	29	16	9	1.79
996164--996569	133	3.0	136	82	8	459	46	13	11	28	1.78
996846--996897	14	3.7	14	100	0	104	44	0	21	34	1.52
996831--996910	28	2.9	29	83	7	103	46	2	20	31	1.64
999255--999284	16	1.9	15	93	6	51	73	0	0	26	0.84
999254--999327	6	12.3	6	78	17	57	68	0	2	28	1.03
999254--999327	9	8.2	9	72	20	57	68	0	2	28	1.03
999516--999972	135	3.4	136	90	3	690	31	16	20	31	1.94
1006423--1006472	21	2.4	22	86	10	77	48	16	20	16	1.82
1007416--1007451	13	2.8	13	100	0	72	38	0	13	47	1.44
1007905--1008255	131	2.7	131	85	0	459	40	15	10	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009036--1009193	24	6.6	24	94	0	280	25	22	20	31	1.98
1011532--1011579	12	4.0	12	81	7	53	66	0	4	29	1.10
1011737--1011791	27	2.0	28	82	10	69	47	1	0	50	1.11
1012893--1012944	3	17.7	3	80	4	61	30	3	1	63	1.23
1018838--1018905	26	2.9	22	74	19	66	72	10	17	0	1.12
1018853--1018905	15	3.4	15	77	15	54	77	7	15	0	0.98
1018845--1018938	49	1.9	49	82	8	120	76	8	14	0	1.01
1018854--1018938	26	3.4	26	80	15	99	77	8	14	0	0.98
1018868--1018945	19	4.2	19	71	12	54	76	8	12	1	1.06
1020128--1020261	4	33.8	4	96	1	54	50	32	0	17	1.46
1020139--1020532	8	49.5	8	94	2	490	40	27	8	23	1.83
1020738--1020875	36	3.8	36	76	11	122	34	18	13	34	1.89
1020891--1020972	31	2.6	32	76	9	96	31	17	15	35	1.91
1021439--1021527	38	2.4	39	77	11	105	34	13	10	41	1.78
1021486--1021624	63	2.2	62	82	6	161	32	10	10	46	1.74
1021505--1021633	65	2.0	63	80	5	143	31	9	10	48	1.70
1021830--1021939	28	3.8	28	76	12	98	26	18	14	40	1.89
1021968--1022300	134	2.5	134	83	3	386	25	28	18	28	1.98
1022496--1022559	3	21.7	3	83	3	85	34	3	1	60	1.22
1022918--1022962	21	2.1	21	100	0	90	40	37	13	8	1.76
1023974--1024006	2	16.5	2	100	0	66	48	0	0	51	1.00
1025783--1025942	60	2.7	59	79	12	152	40	5	21	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029291--1029501	74	2.8	74	83	3	253	41	10	15	33	1.81
1029401--1029833	74	5.8	76	75	9	329	38	12	15	33	1.86
1029418--1029635	110	2.0	111	89	2	341	38	11	15	34	1.84
1029291--1029801	36	13.9	36	68	17	176	38	11	15	34	1.84
1029401--1029833	36	11.6	37	71	8	209	38	12	15	33	1.86
1029401--1029861	38	12.3	37	72	10	285	37	12	15	33	1.86
1029592--1029910	112	2.8	112	86	3	419	36	12	15	35	1.85
1032669--1032728	30	2.0	30	90	3	95	56	11	18	13	1.66
1042896--1042944	20	2.5	20	100	0	98	30	22	10	36	1.87
1042897--1042953	20	2.5	24	72	27	68	29	22	14	33	1.93
1044769--1044823	26	2.1	26	100	0	110	41	23	10	23	1.86
1045679--1045748	18	3.9	18	98	0	131	21	22	28	27	1.99
1056556--1056657	21	4.7	22	78	9	93	20	21	30	27	1.98
1074839--1074870	15	2.2	15	94	5	57	56	0	0	43	0.99
1081509--1081546	19	2.0	19	100	0	76	47	15	10	26	1.78
1094342--1094414	19	4.0	19	71	11	55	45	1	0	53	1.09
1094460--1094520	19	3.3	19	76	2	61	60	0	0	39	0.97
1094692--1094810	41	2.9	42	86	7	179	47	18	15	17	1.82
1094965--1095109	36	4.1	36	87	2	186	20	8	26	43	1.81
1094965--1095109	72	2.0	72	89	1	220	20	8	26	43	1.81
1095047--1095160	54	2.1	54	90	0	183	21	9	24	43	1.82
1094977--1095124	72	2.1	70	83	6	181	21	10	25	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095102--1095170	36	1.9	36	93	0	120	20	7	27	44	1.77
1096062--1096104	2	22.0	2	90	4	70	46	0	0	53	1.00
1096433--1096459	5	5.4	5	100	0	54	81	0	0	18	0.69
1097666--1097716	2	26.5	2	84	7	61	49	1	1	47	1.24
1100497--1100589	48	1.9	48	97	0	177	30	6	9	53	1.58
1102080--1102116	5	7.2	5	87	6	56	0	18	2	78	0.87
1102976--1103083	36	3.0	36	91	0	162	34	16	16	32	1.92
1102971--1103186	36	5.5	41	81	9	145	38	16	15	28	1.90
1103116--1103195	41	2.0	41	87	0	115	38	16	16	28	1.90
1103533--1103615	42	2.0	42	88	2	123	42	18	14	25	1.88
1103881--1104023	41	3.5	40	69	12	110	35	18	16	30	1.92
1103713--1104066	82	4.3	82	80	3	370	36	18	14	30	1.91
1103914--1104049	41	3.3	39	72	17	116	33	18	17	30	1.94
1104921--1105444	265	2.0	262	84	4	689	40	10	11	37	1.76
1105292--1105912	337	1.8	331	81	11	751	42	8	10	37	1.71
1108917--1109023	56	1.9	56	88	0	160	46	15	14	23	1.82
1110137--1110185	16	3.0	16	84	3	71	28	28	4	38	1.75
1110330--1110394	29	2.1	29	83	11	76	23	6	6	64	1.39
1114601--1114651	13	4.3	11	90	9	66	84	0	15	0	0.63
1114592--1114650	17	3.4	17	81	9	66	81	1	16	0	0.78
1114592--1114650	4	14.8	4	79	12	59	81	1	16	0	0.78
1117050--1117230	36	5.2	36	72	11	133	30	17	13	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117015--1117535	67	7.6	67	82	7	502	30	18	13	38	1.88
1117335--1117446	30	3.5	30	69	19	91	32	18	12	36	1.88
1117357--1117483	37	3.6	37	71	18	126	29	17	14	39	1.89
1117009--1117535	134	3.9	133	83	7	557	29	18	13	38	1.88
1117086--1117618	201	2.6	202	81	7	566	31	18	12	37	1.88
1117086--1117616	134	3.9	135	83	5	526	31	18	12	37	1.88
1117742--1118665	139	6.7	139	82	2	955	31	26	16	24	1.96
1119916--1120142	124	1.8	124	88	3	350	24	15	14	45	1.83
1120302--1120332	16	1.9	16	93	0	53	19	9	3	67	1.33
1121359--1121396	18	2.1	19	85	14	53	36	5	2	55	1.37
1121359--1121395	17	2.1	19	85	10	51	37	5	2	54	1.38
1123157--1123186	14	2.1	15	93	6	53	60	26	6	6	1.47
1123332--1123369	17	2.3	17	86	13	53	5	26	2	65	1.27
1124013--1124071	3	19.7	3	89	0	91	62	0	3	33	1.12
1129025--1129124	50	2.1	47	82	15	118	52	13	2	33	1.51
1133129--1133241	59	1.9	59	92	3	192	38	23	12	24	1.90
1134771--1134917	65	2.3	62	80	12	163	29	17	20	32	1.96
1135926--1135969	21	2.1	21	86	0	61	34	13	40	11	1.81
1137501--1137603	24	4.6	22	77	13	104	26	24	23	26	2.00
1137504--1137622	21	5.4	21	73	18	75	26	21	24	27	1.99
1137528--1137622	42	2.2	44	83	10	117	25	20	25	29	1.99
1143398--1143446	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143417--1143627	65	3.3	64	80	8	214	27	18	23	31	1.97
1147105--1147236	65	2.0	63	85	9	178	27	19	12	40	1.87
1161380--1161413	6	5.7	6	100	0	68	0	14	50	35	1.44
1170342--1170503	64	2.5	63	81	6	173	32	19	24	24	1.97
1171954--1172022	23	3.0	23	82	0	93	21	26	23	28	1.99
1174665--1174749	20	4.2	20	83	3	116	38	22	21	17	1.93
1175611--1175664	24	2.2	24	93	0	90	20	18	20	40	1.91
1178184--1178271	33	2.6	32	85	5	113	48	22	18	10	1.77
1178224--1178427	53	3.9	53	71	10	141	46	20	20	12	1.82
1178213--1178362	19	8.6	19	68	25	66	46	23	20	10	1.81

Tables:   1   2   3   4   5   6   7