genome.fa.s7909.2.7.7.80.10.50.1000.6.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: 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  6  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)
998114--998416	85	3.5	86	95	2	545	43	7	9	39	1.65
999791--999833	21	2.0	21	86	4	59	60	0	2	37	1.10
1009447--1009608	48	3.4	48	90	2	245	31	26	14	27	1.95
1011353--1011398	18	2.6	18	82	0	65	26	19	10	43	1.84
1011737--1011769	17	1.9	17	88	11	50	66	3	0	30	1.06
1016508--1016532	6	4.2	6	100	0	50	20	16	64	0	1.30
1016590--1016633	13	3.5	13	90	6	72	18	52	15	13	1.75
1016683--1016722	19	2.1	19	85	0	53	55	0	0	45	0.99
1017011--1017039	2	14.5	2	100	0	58	48	0	51	0	1.00
1017652--1017691	19	2.0	21	85	9	57	62	5	0	32	1.17
1019281--1019358	3	26.0	3	92	0	129	62	0	1	35	1.03
1019639--1019742	41	2.7	38	82	11	131	22	22	7	48	1.76
1019777--1020556	113	6.9	113	89	3	1135	27	19	14	38	1.90
1019679--1020553	339	2.6	337	88	4	1256	27	19	13	39	1.90
1021289--1021506	84	2.5	86	86	5	289	35	20	15	28	1.93
1022303--1022339	16	2.3	16	90	9	58	54	5	8	32	1.53
1022660--1022745	1	86.0	1	71	0	64	0	13	0	86	0.58
1022660--1022747	9	9.7	9	84	6	88	0	14	0	85	0.60
1022666--1022745	11	7.4	11	83	9	85	0	13	0	86	0.58
1022660--1022747	20	4.7	20	83	13	116	0	14	0	85	0.60
1022660--1022748	18	4.8	18	85	10	126	0	14	0	85	0.60
1035121--1035181	29	2.2	27	82	11	70	1	21	9	67	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035471--1035530	3	20.0	3	96	0	111	65	0	1	33	1.03
1038421--1038515	3	31.7	3	93	0	163	33	3	0	63	1.10
1039952--1039997	13	3.5	13	82	11	58	41	0	0	58	0.98
1051334--1051365	15	2.3	15	89	10	50	87	0	12	0	0.54
1051699--1051740	19	2.2	20	91	4	68	30	4	11	52	1.59
1052523--1052851	83	4.0	83	96	0	597	30	13	21	34	1.92
1053650--1054327	117	5.9	116	91	3	985	37	12	20	30	1.89
1054646--1054748	3	34.3	3	94	0	179	33	2	0	63	1.10
1056183--1056228	13	3.5	13	82	11	58	41	0	0	58	0.98
1057641--1057727	35	2.5	34	80	12	97	55	10	8	26	1.61
1058331--1058382	18	2.9	18	94	0	86	26	15	25	32	1.95
1059701--1059922	111	2.0	111	94	0	390	45	10	8	36	1.68
1062117--1062165	21	2.3	21	96	0	89	28	28	18	24	1.98
1065228--1065272	23	2.0	23	90	0	72	20	26	28	24	1.99
1065268--1065312	21	2.1	21	88	8	65	31	31	13	24	1.93
1065448--1065498	21	2.4	21	87	6	68	29	23	9	37	1.87
1065834--1065887	20	2.6	20	88	5	72	24	29	24	22	1.99
1065978--1066037	22	2.8	21	85	9	86	31	23	15	30	1.95
1068856--1069005	74	2.0	75	88	7	223	44	4	10	40	1.60
1071985--1072058	36	2.1	36	89	5	114	39	12	12	36	1.80
1073424--1073724	55	5.5	54	88	4	410	27	18	19	34	1.95
1078379--1078437	31	1.9	31	92	0	100	40	6	10	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078464--1078512	22	2.2	21	82	10	62	53	14	0	32	1.41
1078483--1078616	32	4.7	31	72	27	127	52	15	0	32	1.43
1078452--1079291	54	15.6	54	71	18	406	52	12	0	34	1.39
1078466--1079260	80	9.9	80	81	10	508	52	13	0	33	1.40
1078517--1078591	22	3.2	23	75	17	82	54	17	0	28	1.43
1078597--1078671	22	3.2	23	71	17	73	54	16	0	29	1.42
1078643--1079292	32	22.7	32	68	27	373	52	12	0	34	1.39
1078675--1078788	22	5.0	22	80	8	120	53	13	0	33	1.40
1078773--1078851	18	4.4	18	67	17	56	54	10	0	35	1.34
1078800--1078842	22	2.0	22	90	0	68	53	9	0	37	1.33
1078845--1078897	14	3.5	14	72	18	52	58	3	0	37	1.16
1078886--1078927	22	2.0	21	95	4	75	50	14	0	35	1.43
1078888--1078935	22	2.2	22	85	7	62	54	14	0	31	1.41
1078941--1079015	22	3.2	23	75	17	82	54	17	0	28	1.43
1079019--1079061	22	2.0	22	100	0	86	51	13	0	34	1.42
1079021--1079069	22	2.2	22	88	3	71	55	14	0	30	1.40
1079104--1079149	22	2.0	22	87	4	65	54	10	0	34	1.36
1079153--1079195	22	2.0	22	95	0	77	51	11	0	37	1.39
1079155--1079203	22	2.2	22	85	3	62	55	12	0	32	1.37
1079198--1079282	14	5.5	14	67	20	53	56	7	0	36	1.27
1079302--1079396	22	4.2	22	68	10	75	52	9	0	37	1.34
1079341--1079458	15	7.5	15	81	13	139	51	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079118--1079458	54	7.0	46	71	18	180	52	8	0	39	1.31
1079302--1079443	67	2.1	68	86	3	198	51	6	0	42	1.27
1081119--1081205	43	2.0	43	100	0	174	27	18	17	36	1.93
1081672--1081753	37	2.2	37	97	0	155	37	25	14	21	1.92
1090360--1090454	23	4.3	24	82	16	125	38	0	61	0	0.96
1090397--1090447	18	2.8	18	96	0	93	35	0	64	0	0.94
1091289--1091423	15	8.7	15	67	15	69	45	1	2	50	1.23
1093917--1093978	31	2.0	31	96	0	115	29	27	17	25	1.98
1094580--1094633	14	3.9	14	80	2	56	70	5	7	16	1.30
1094599--1094641	19	2.3	18	84	8	50	79	2	6	11	1.02
1094710--1094786	39	2.0	37	87	5	109	41	3	1	53	1.27
1094765--1094845	32	2.7	29	83	10	108	43	4	1	50	1.31
1094827--1094852	12	2.2	12	100	0	52	50	7	0	42	1.31
1094765--1094857	29	3.1	29	82	8	114	45	5	1	48	1.32
1094824--1095038	34	6.4	33	75	15	176	42	5	4	47	1.47
1094824--1095003	99	1.8	99	83	9	244	42	5	4	47	1.45
1095421--1095474	22	2.3	24	84	12	69	42	1	0	55	1.10
1096657--1096739	32	2.6	32	84	0	103	37	18	7	37	1.78
1096654--1096775	64	1.9	63	83	1	154	33	18	9	39	1.82
1098520--1098566	16	2.8	17	83	6	60	68	0	25	6	1.13
1102111--1102166	27	2.1	27	100	0	112	33	17	14	33	1.90
1102786--1102848	29	2.3	28	81	10	76	44	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102785--1102843	15	3.4	18	81	9	63	44	1	0	54	1.10
1104150--1104206	30	1.9	30	85	0	78	29	0	5	64	1.15
1104293--1104332	2	21.0	2	90	10	66	47	0	0	52	1.00
1104294--1104332	11	3.6	11	96	3	71	46	0	0	53	1.00
1105530--1105578	21	2.3	21	80	16	57	28	6	2	63	1.30
1114917--1114993	22	3.5	22	92	0	136	35	11	14	38	1.82
1115509--1115831	165	2.0	166	91	1	524	35	13	12	38	1.83
1115835--1116386	75	7.3	75	97	0	978	22	20	22	34	1.97
1116531--1116598	3	22.0	3	76	5	55	44	0	0	55	0.99
1117940--1118039	28	3.4	27	71	18	67	31	4	3	62	1.29
1118663--1118724	33	1.9	33	83	6	83	40	0	1	58	1.08
1124200--1124291	23	4.0	23	82	4	105	32	22	26	18	1.97
1125460--1125601	62	2.3	63	87	3	207	23	21	22	33	1.98
1130301--1130333	18	1.9	17	88	11	50	21	21	9	48	1.77
1130672--1130764	30	3.1	30	75	14	93	35	19	17	27	1.94
1130672--1130763	31	3.0	31	78	7	100	35	18	17	28	1.93
1136802--1136893	41	2.2	41	86	0	121	40	17	8	33	1.80
1143724--1143763	19	2.0	20	85	4	55	37	17	15	30	1.90
1144477--1144517	18	2.3	18	87	4	57	29	7	2	60	1.36
1153908--1153951	20	2.2	21	80	15	58	43	4	20	31	1.72
1154248--1154287	21	1.9	21	94	0	71	32	30	15	22	1.94
1154313--1154351	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)
1154248--1154456	64	3.2	63	82	11	203	32	25	15	26	1.96
1154429--1154477	19	2.6	19	84	9	57	24	30	18	26	1.98
1156397--1156436	21	1.9	21	90	10	64	52	0	10	37	1.35
1157685--1157735	27	2.0	27	88	11	81	11	13	31	43	1.80
1163302--1163341	21	1.9	21	94	0	71	32	30	15	22	1.94
1163367--1163405	19	2.1	19	90	0	60	20	35	15	28	1.93
1163302--1163509	64	3.2	63	80	6	195	31	25	15	27	1.96
1164280--1164438	83	1.9	83	90	0	255	42	12	3	41	1.58
1167672--1167995	57	5.6	55	74	12	185	41	13	7	37	1.73
1167670--1167995	58	5.6	56	74	10	241	41	13	7	37	1.73

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