genome.fa.s6573.2.7.7.80.10.50.1000.6.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: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218788

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 727 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)
948160--948204	21	2.1	21	100	0	90	33	24	13	28	1.93
949091--949142	23	2.3	23	86	0	77	23	32	13	30	1.93
955760--955812	20	2.7	20	96	0	97	24	24	26	24	2.00
956156--956196	22	1.9	22	85	5	57	51	12	24	12	1.73
960483--960529	19	2.5	19	89	3	69	46	21	8	23	1.78
960547--960590	20	2.2	20	83	0	52	18	9	27	45	1.79
970699--970727	10	2.7	11	89	10	51	58	10	0	31	1.31
975552--975597	20	2.3	19	85	14	58	50	8	15	26	1.73
993063--993142	21	3.7	21	80	6	97	40	25	13	21	1.90
997149--997196	25	1.9	25	83	8	62	52	12	6	29	1.63
1000808--1000852	21	2.1	21	87	0	63	53	4	8	33	1.52
1008797--1008845	21	2.3	21	79	10	55	30	2	16	51	1.56
1008822--1008884	28	2.2	30	88	5	94	30	1	12	55	1.47
1008842--1008958	44	2.4	49	83	10	145	38	0	8	52	1.38
1009236--1009263	10	2.8	10	100	0	56	71	0	28	0	0.86
1009380--1009409	15	1.9	16	93	6	53	43	0	10	46	1.37
1009385--1009439	19	2.8	19	74	12	58	41	0	9	49	1.34
1009501--1009565	20	3.2	20	82	4	85	43	3	7	46	1.48
1009501--1009548	21	2.3	20	89	3	69	39	4	10	45	1.58
1009659--1009697	16	2.3	17	86	8	53	41	10	5	43	1.61
1010520--1010585	30	2.2	30	86	5	89	40	6	16	36	1.73
1011810--1011881	9	8.0	9	80	0	63	25	2	18	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011821--1011862	18	2.3	18	100	0	84	28	0	16	54	1.42
1011809--1011871	18	3.5	18	86	0	72	25	4	17	52	1.64
1011809--1011873	27	2.4	27	86	0	94	24	4	16	53	1.62
1011810--1011881	27	2.7	27	84	4	83	25	2	18	54	1.57
1013019--1013097	38	2.1	38	92	0	131	25	20	31	22	1.98
1013100--1013143	21	2.1	21	82	0	52	29	15	15	38	1.89
1013106--1013200	21	4.5	21	66	15	61	30	13	16	38	1.88
1013357--1013427	31	2.3	31	88	7	101	45	9	15	29	1.78
1016586--1016629	21	2.0	22	83	12	56	36	0	11	52	1.38
1016827--1016907	11	7.4	11	72	14	51	40	2	11	45	1.53
1016879--1016985	52	2.1	52	94	0	187	44	2	13	39	1.58
1016978--1017016	16	2.4	16	86	4	51	38	5	12	43	1.65
1018072--1018220	44	3.4	44	92	3	221	31	24	6	38	1.80
1018121--1018192	24	3.2	24	62	34	59	30	20	8	40	1.82
1018595--1018635	21	1.9	22	90	5	66	43	12	7	36	1.70
1022132--1022174	20	2.3	19	88	8	61	34	25	9	30	1.87
1026761--1026803	20	2.3	19	88	8	61	34	25	9	30	1.87
1029962--1030050	24	3.7	24	82	7	92	29	16	19	34	1.94
1035226--1035314	24	3.7	24	79	7	83	30	16	17	34	1.93
1037863--1037890	4	7.0	4	100	0	56	75	0	0	25	0.81
1040536--1040624	24	3.7	24	82	7	92	29	15	19	35	1.93
1044745--1044893	44	3.4	44	91	3	212	32	23	6	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044994--1045122	59	2.2	59	87	0	177	29	25	17	27	1.97
1047798--1047841	23	1.9	23	85	0	61	54	2	4	38	1.33
1049835--1049911	29	2.7	29	97	0	145	10	28	40	20	1.86
1049835--1049934	29	3.4	29	88	0	110	12	29	38	21	1.89
1054188--1054250	23	2.6	24	90	7	92	66	4	0	28	1.12
1055753--1055815	23	2.6	24	76	23	62	49	3	0	47	1.17
1055966--1056038	23	3.1	23	80	5	67	52	4	0	43	1.20
1056126--1056180	20	2.6	21	72	18	60	56	0	0	43	0.99
1056486--1056516	8	3.9	8	100	0	62	0	61	0	38	0.96
1057068--1057161	22	4.4	22	76	10	106	17	20	25	37	1.93
1057786--1057837	5	9.5	6	93	6	69	0	17	50	32	1.47
1057914--1058010	22	4.5	22	78	7	101	40	24	14	20	1.90
1058796--1058846	22	2.3	22	100	0	102	25	17	7	49	1.74
1058980--1059045	28	2.3	27	75	19	71	42	1	1	54	1.18
1059101--1059157	29	2.0	29	85	0	78	42	5	0	52	1.24
1059482--1059524	14	3.1	14	83	6	52	53	6	0	39	1.28
1059758--1059802	9	5.1	9	84	10	58	44	2	2	51	1.26
1067632--1067673	18	2.3	18	91	0	66	21	47	21	9	1.79
1070032--1070101	12	5.8	12	78	6	61	17	12	18	51	1.76
1070033--1070105	24	3.0	24	79	0	92	19	10	17	52	1.74
1070012--1070105	48	2.0	48	85	4	127	21	13	15	48	1.80
1072746--1072855	40	2.8	40	92	0	184	34	27	14	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075042--1075089	20	2.5	20	90	10	73	50	4	14	31	1.62
1077816--1077926	39	2.8	39	86	5	152	34	8	9	48	1.64
1083396--1083435	20	2.0	20	95	0	71	50	7	30	12	1.68
1094811--1095068	89	2.9	89	93	0	417	29	24	23	21	1.99
1097748--1097790	18	2.5	17	85	7	61	67	2	4	25	1.22
1097680--1097790	59	1.9	56	82	8	134	63	1	4	30	1.25
1098181--1098282	34	2.9	36	89	7	172	27	14	13	44	1.83
1098830--1099347	106	5.0	105	88	4	690	21	17	25	34	1.96
1099990--1100147	68	2.4	66	84	4	201	35	8	22	32	1.85
1099991--1100173	65	2.7	67	81	4	183	37	8	22	31	1.85
1100123--1100403	36	8.0	35	76	12	254	40	13	19	25	1.89
1100071--1100384	138	2.3	137	83	1	405	39	12	20	27	1.88
1100883--1100918	18	2.0	18	88	0	54	41	30	8	19	1.81
1101333--1101403	22	3.2	22	95	0	124	28	14	23	33	1.94
1102080--1102132	17	3.2	16	79	10	54	0	13	7	79	0.93
1103285--1103323	8	5.0	8	84	6	53	58	12	17	10	1.61
1103285--1103323	15	2.5	15	87	4	51	58	12	17	10	1.61
1106432--1106474	18	2.5	17	85	7	61	67	2	4	25	1.22
1106364--1106475	61	1.9	57	80	14	129	62	1	3	32	1.23
1106865--1106966	34	2.9	36	89	7	172	27	14	13	44	1.83
1107434--1107473	13	3.0	13	85	3	53	37	15	22	25	1.93
1111848--1111911	16	3.9	16	78	11	67	75	0	14	10	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111848--1111922	16	4.6	15	76	12	60	74	0	13	12	1.07
1113935--1114200	143	1.8	144	91	2	435	37	18	11	32	1.87
1116498--1116891	118	3.4	117	82	3	429	40	13	19	25	1.89
1119844--1120027	43	4.3	43	87	0	244	28	24	20	26	1.99
1120223--1120281	21	2.8	21	84	0	73	55	20	5	18	1.61
1127796--1127944	42	3.6	42	78	4	133	31	14	20	32	1.93
1127827--1128087	82	3.2	80	76	10	231	35	19	16	27	1.94
1127905--1128227	41	8.0	40	71	12	189	33	20	17	28	1.95
1127984--1128087	42	2.5	40	83	7	129	35	23	13	27	1.92
1143361--1143400	20	2.0	20	85	0	53	35	10	22	32	1.87
1147139--1147183	16	2.8	16	93	0	72	37	4	28	28	1.77
1159734--1159776	18	2.4	18	96	0	77	32	6	27	32	1.84
1159969--1160086	54	2.2	54	81	0	137	27	19	16	35	1.94
1165772--1165816	23	1.9	22	82	13	54	66	0	8	24	1.20
1171823--1171878	9	6.1	9	82	12	60	80	0	16	3	0.85
1171823--1171878	28	2.0	28	86	3	78	80	0	16	3	0.85
1171821--1171882	19	3.3	19	81	6	81	79	0	17	3	0.87
1174865--1174983	43	2.8	44	84	3	136	33	27	15	22	1.95
1174957--1175538	261	2.2	261	90	1	916	33	24	16	25	1.96
1175355--1175584	124	1.9	124	91	1	381	33	25	18	23	1.97
1175633--1176017	137	2.8	137	88	3	544	34	25	16	24	1.95
1176179--1176206	3	9.3	3	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182446--1182496	20	2.5	20	82	14	61	43	23	0	33	1.54
1187201--1187286	31	2.8	32	78	5	104	47	5	3	43	1.44
1188310--1188400	31	3.0	30	81	3	101	46	3	3	47	1.35
1188310--1188400	30	3.0	31	82	6	96	46	3	3	47	1.35
1188736--1188855	40	3.0	40	98	0	231	49	10	10	30	1.70
1189086--1189116	16	1.9	16	93	0	53	29	0	3	67	1.06
1191948--1192063	38	3.1	38	92	0	196	17	10	18	54	1.70
1192025--1192071	24	2.0	24	91	0	76	17	10	17	55	1.69
1192272--1192395	23	5.4	23	78	7	101	12	12	20	54	1.69
1192312--1192412	47	2.1	47	81	0	121	10	13	17	57	1.65

Tables:   1   2   3   4   5   6   7