genome.fa.s7776.2.7.7.80.10.50.1000.5.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: VEPZ01007776.1 Hibiscus syriacus cultivar Beakdansim tig00110057_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2207776

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1243 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)
937210--937359	15	9.5	15	76	15	133	44	0	4	51	1.25
937321--937377	18	3.4	18	69	18	59	33	0	12	54	1.38
937307--937382	32	2.4	32	97	0	143	36	0	9	53	1.33
937330--938002	54	12.3	54	72	18	346	34	0	13	52	1.42
937272--937927	112	6.1	108	75	15	465	35	0	12	52	1.41
937412--937959	32	17.6	32	75	19	436	34	0	12	52	1.41
937474--937538	22	3.0	22	95	0	121	36	0	12	50	1.40
937550--937592	22	2.0	22	100	0	86	34	0	13	51	1.42
937627--937927	80	3.8	78	84	11	405	34	0	12	52	1.42
937746--937790	22	2.0	22	95	0	81	40	0	11	48	1.39
937746--938121	106	3.5	107	83	11	493	34	0	13	52	1.43
937833--937897	21	3.1	21	93	6	114	35	0	12	52	1.39
937884--937937	14	3.6	14	72	18	54	37	0	5	57	1.22
937939--938002	26	2.7	22	82	17	92	31	0	18	50	1.48
937969--938121	79	1.9	79	93	2	263	32	0	13	52	1.45
937996--938143	39	3.8	39	72	15	153	31	0	14	54	1.45
938136--938194	31	1.9	31	96	0	109	42	8	6	42	1.61
938767--938806	18	2.2	18	100	0	80	27	27	5	40	1.77
939972--940096	31	4.0	31	92	2	198	20	18	23	38	1.93
943776--943812	20	1.9	20	94	5	67	10	27	35	27	1.90
944399--944523	31	4.0	31	91	2	180	21	17	21	39	1.93
956777--957001	109	2.0	109	88	5	326	24	18	15	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957581--957619	11	3.1	13	79	20	55	46	15	17	20	1.84
957575--957618	11	3.6	12	80	17	54	45	18	20	15	1.85
959911--959950	21	1.9	21	94	0	71	30	15	7	47	1.72
959945--960043	33	3.0	33	92	1	155	32	7	14	46	1.71
959954--960008	17	3.3	17	70	14	60	30	3	16	49	1.63
960029--960083	13	4.2	13	75	13	58	34	3	12	49	1.59
960279--960335	21	2.7	21	91	0	96	19	26	26	28	1.99
960501--960559	15	3.6	15	73	20	55	32	11	11	44	1.78
960520--960556	19	1.9	20	94	5	67	37	10	10	40	1.75
960650--960681	16	2.0	17	88	11	50	43	21	21	12	1.86
971514--972161	314	2.1	315	92	1	1086	40	17	17	24	1.91
975240--975264	12	2.1	12	100	0	50	8	0	32	60	1.26
980501--980580	40	2.0	41	80	11	94	71	8	5	15	1.28
982568--982769	85	2.4	85	89	0	296	24	20	21	33	1.97
982935--983062	65	2.0	65	85	0	175	28	14	17	39	1.89
984641--984837	99	2.0	99	84	2	261	32	16	17	34	1.92
988239--988375	12	11.9	11	66	19	57	75	7	5	12	1.18
988659--988701	3	14.3	3	85	9	61	67	0	2	30	1.03
989782--989839	19	2.9	19	83	14	73	55	0	5	39	1.22
989778--989845	22	3.3	21	86	13	90	57	0	4	38	1.19
992694--992845	60	2.5	60	80	8	159	34	20	3	41	1.71
998682--998738	30	1.9	30	92	0	96	61	7	14	17	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000497--1000672	83	2.1	82	86	3	246	25	19	30	25	1.98
1000706--1001035	66	5.0	66	89	1	437	37	13	21	26	1.91
1000706--1000964	36	7.6	35	62	12	101	38	14	20	26	1.91
1000812--1000994	30	5.7	30	66	18	100	36	14	21	27	1.92
1001067--1001216	38	3.9	38	79	6	162	37	12	19	30	1.89
1002407--1002456	16	3.2	16	72	13	50	2	14	6	78	1.03
1002407--1002460	17	3.4	17	77	12	60	1	14	5	77	1.03
1005909--1005940	16	2.1	15	94	5	55	59	6	15	18	1.57
1006131--1006188	29	2.0	30	93	3	100	63	10	10	15	1.51
1006458--1006549	46	2.0	46	95	0	166	50	17	6	26	1.70
1007625--1007657	3	11.7	3	87	12	52	33	0	0	66	0.92
1011344--1011475	55	2.4	55	89	5	196	42	11	24	21	1.86
1014194--1014227	11	3.4	10	88	11	52	82	0	14	2	0.79
1015331--1016789	54	26.7	54	85	5	1354	33	17	23	25	1.96
1015331--1016557	109	11.3	108	83	5	1425	33	18	23	25	1.97
1015318--1016566	436	2.9	435	89	3	1757	33	18	23	24	1.97
1016528--1016843	55	5.7	55	93	2	528	33	15	23	27	1.95
1016490--1016855	110	3.3	108	88	6	479	32	16	23	27	1.96
1017031--1017071	3	13.7	3	90	10	66	34	0	0	65	0.93
1019702--1019728	3	9.0	3	100	0	54	66	0	0	33	0.92
1019705--1019741	12	3.0	13	88	7	51	62	2	0	35	1.10
1021031--1021070	21	1.9	21	84	0	53	60	2	17	20	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021181--1021246	32	2.1	32	88	0	96	77	7	3	12	1.09
1021178--1021248	27	2.6	28	80	11	83	74	7	4	14	1.18
1023835--1023905	35	2.0	35	94	0	124	50	15	8	25	1.72
1023839--1023913	35	2.3	32	86	9	98	53	17	6	22	1.67
1025231--1025346	61	1.9	60	85	5	162	17	24	34	24	1.96
1025940--1025982	20	2.2	20	86	0	59	53	0	0	46	1.00
1029207--1029824	138	4.5	138	87	3	872	22	20	21	36	1.95
1029207--1029824	275	2.3	275	88	3	899	22	20	21	36	1.95
1029965--1030092	63	2.0	63	95	0	229	39	0	22	37	1.54
1029971--1030070	23	4.6	23	67	16	70	44	0	20	36	1.52
1030034--1030083	23	2.2	23	82	7	57	48	0	20	32	1.50
1030177--1030207	14	2.2	14	100	0	62	25	0	16	58	1.38
1030328--1030400	34	2.1	34	92	0	119	36	4	5	53	1.43
1030918--1030969	21	2.5	21	87	0	77	21	25	34	19	1.96
1030962--1031050	42	2.1	42	80	0	97	23	21	30	24	1.99
1032788--1032854	31	2.1	32	81	8	75	56	0	0	43	0.99
1034685--1034718	13	2.5	13	85	4	50	32	0	2	64	1.08
1036298--1036329	12	2.7	12	100	0	64	50	9	31	9	1.66
1037752--1037788	14	2.4	16	86	8	51	10	40	2	45	1.53
1041690--1041748	30	2.0	30	82	0	73	37	10	20	32	1.86
1051395--1051433	21	1.9	20	89	5	60	66	20	0	12	1.24
1054387--1054430	23	2.0	21	82	13	52	34	15	18	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057920--1057958	20	2.0	20	89	0	60	33	23	10	33	1.88
1078135--1078179	22	2.0	22	91	0	72	48	15	13	22	1.79
1079062--1079122	22	2.8	22	89	0	86	26	24	19	29	1.99
1081914--1081948	17	2.1	17	94	0	61	51	37	5	5	1.50
1082282--1082330	20	2.5	20	90	3	73	40	20	10	28	1.85
1095964--1096006	20	2.2	20	91	0	68	32	11	20	34	1.89
1105409--1105563	74	2.1	74	90	0	238	34	24	14	27	1.94
1105561--1105600	13	3.1	13	88	0	62	25	25	17	32	1.97
1112219--1112299	30	2.7	29	76	16	85	34	16	2	46	1.60
1115781--1115893	47	2.4	47	79	2	138	30	13	20	35	1.91
1121965--1121999	8	4.5	8	96	3	63	40	0	8	51	1.33
1121965--1122003	16	2.6	15	88	11	62	41	0	7	51	1.31
1125115--1125311	13	14.6	13	77	12	168	84	0	12	3	0.73
1125116--1125311	30	6.1	33	79	13	196	85	0	11	3	0.71
1125115--1125302	7	26.7	7	80	10	170	85	0	12	2	0.71
1125179--1125302	1	124.0	1	78	0	131	89	0	10	0	0.48
1126589--1126661	37	2.0	37	88	0	110	38	17	19	24	1.93
1126680--1126946	55	4.9	54	86	4	277	26	16	25	31	1.96
1126665--1126932	110	2.5	110	83	4	323	27	15	25	31	1.96
1128578--1128626	6	8.2	6	100	0	98	34	48	16	0	1.46
1128624--1128692	5	13.8	5	95	0	111	21	36	40	1	1.63
1129481--1129510	15	2.0	15	93	0	51	40	13	10	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129628--1129673	23	2.0	23	95	0	83	47	10	4	36	1.58
1133604--1133636	2	16.5	2	100	0	66	51	0	0	48	1.00
1134430--1134467	3	12.7	3	94	0	67	68	2	0	28	1.03
1135045--1135136	3	30.0	3	80	8	87	40	1	0	58	1.05
1137254--1137296	18	2.4	18	76	7	52	25	4	2	67	1.22
1137291--1137328	15	2.8	13	88	11	51	23	5	2	68	1.23
1142182--1142224	20	2.2	20	100	0	86	39	9	23	27	1.85
1149106--1150145	83	12.5	83	96	1	1658	28	12	21	37	1.90
1150874--1151655	112	7.0	112	93	1	1175	36	15	18	29	1.91
1151875--1151966	3	30.0	3	80	8	96	39	1	0	59	1.04

Tables:   1   2   3   4   5   6   7   8   9   10   11