genome.fa.s6093.2.7.7.80.10.50.1000.5.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1555 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)
960564--960638	20	4.1	20	69	22	65	12	25	18	44	1.84
960625--960652	14	2.0	14	100	0	56	14	14	21	50	1.78
962351--962823	185	2.5	186	99	0	930	22	12	18	46	1.83
962351--962823	93	5.1	93	99	0	930	22	12	18	46	1.83
962867--962995	19	7.3	19	75	17	125	45	28	16	9	1.78
962903--962995	33	2.8	32	91	4	150	46	27	17	8	1.77
962867--962995	52	2.5	52	72	14	131	45	28	16	9	1.78
962991--963125	19	7.6	19	74	16	119	11	18	23	45	1.82
963013--963069	14	3.7	14	77	20	60	10	21	22	45	1.82
962996--963088	33	2.8	33	93	0	159	11	19	21	47	1.81
965052--965087	14	2.6	14	95	0	63	33	0	22	44	1.53
965194--965243	20	2.5	20	96	3	93	42	18	24	16	1.89
965234--965424	19	10.8	19	75	17	144	15	21	17	45	1.85
965258--965455	33	5.8	32	76	16	177	13	20	19	46	1.83
965250--965427	52	3.4	52	97	0	329	14	21	17	46	1.84
967739--967763	12	2.1	12	100	0	50	0	28	0	72	0.86
968667--969035	20	18.5	20	86	4	449	20	18	26	34	1.96
971825--972233	54	7.6	54	91	0	595	34	21	18	25	1.96
971889--971974	27	3.2	27	63	18	70	36	20	18	24	1.95
973286--973312	2	13.5	2	100	0	54	48	0	0	51	1.00
973851--973892	17	2.5	17	80	0	57	42	14	2	40	1.58
977130--977307	96	1.9	96	84	2	241	39	14	19	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977678--978091	45	9.2	45	89	0	621	44	12	21	21	1.85
980335--980380	22	2.1	21	84	8	56	58	0	2	39	1.10
980668--980741	37	2.0	37	100	0	148	40	18	10	29	1.85
981588--981673	35	2.5	35	84	0	100	40	20	1	37	1.61
981642--981684	21	2.0	21	100	0	86	46	13	0	39	1.44
981807--981840	16	2.0	18	88	11	54	26	2	5	64	1.30
982324--982558	130	1.8	130	95	0	425	37	13	13	36	1.84
988427--988671	126	1.9	126	94	0	436	13	26	24	35	1.92
993165--993226	16	3.9	16	77	8	63	8	11	32	48	1.68
993187--993267	38	2.1	38	83	0	99	11	12	30	45	1.76
993207--993248	22	1.9	22	95	0	75	11	9	33	45	1.73
997652--997711	27	2.2	27	96	0	111	33	6	33	26	1.83
1000944--1000987	21	2.1	21	86	0	61	27	0	22	50	1.50
1001594--1001643	12	4.3	12	78	19	52	66	0	2	32	1.03
1004776--1004808	17	1.9	17	88	11	50	30	27	0	42	1.56
1008892--1008958	2	37.0	2	72	24	51	49	1	0	49	1.10
1010950--1010990	2	20.5	2	100	0	82	48	0	0	51	1.00
1012865--1012911	2	23.5	2	100	0	94	51	0	0	48	1.00
1016599--1016738	52	2.6	53	82	8	142	32	16	20	30	1.95
1016617--1016742	52	2.4	53	84	6	148	33	15	20	30	1.94
1017289--1017343	21	2.6	22	80	8	60	20	18	25	36	1.94
1017331--1017386	23	2.5	22	85	8	69	17	25	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017310--1017386	22	3.5	22	75	15	70	18	22	25	33	1.96
1019299--1019456	76	2.0	79	83	8	200	45	5	10	39	1.60
1020144--1020519	186	2.0	186	97	0	716	32	18	19	28	1.96
1021312--1021555	50	4.8	51	85	5	302	49	15	11	23	1.76
1021310--1021555	101	2.4	101	85	5	320	49	15	10	23	1.76
1021636--1021666	16	1.9	16	93	0	53	80	0	0	19	0.71
1027316--1027350	17	2.1	17	94	0	61	48	8	17	25	1.75
1030162--1030206	12	3.8	12	87	0	63	26	20	15	37	1.92
1030305--1030357	17	3.1	16	81	10	61	41	5	16	35	1.73
1030315--1030367	17	3.1	17	86	5	54	41	7	13	37	1.72
1032673--1032789	41	2.9	41	81	0	144	33	16	19	30	1.94
1035810--1035857	3	16.7	3	82	8	64	60	0	0	39	0.97
1035802--1035857	26	2.2	26	96	0	103	58	0	1	39	1.08
1036028--1036074	20	2.3	20	96	0	85	21	17	25	36	1.94
1036140--1036193	20	2.7	20	85	0	72	25	20	20	33	1.97
1036021--1036772	119	6.3	119	91	1	1161	30	16	15	36	1.91
1036495--1036548	20	2.7	20	82	0	63	29	20	22	27	1.98
1036624--1036667	20	2.2	20	83	0	52	29	15	22	31	1.95
1039374--1039416	11	3.8	11	90	6	68	0	18	0	81	0.69
1039374--1039416	5	7.8	5	80	19	50	0	18	0	81	0.69
1046611--1046639	2	15.0	2	92	7	51	48	0	0	51	1.00
1046888--1046952	35	1.9	33	84	12	87	63	3	4	29	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047650--1047675	13	2.0	13	100	0	52	23	7	23	46	1.78
1048100--1048153	3	17.7	3	81	11	65	61	0	1	37	1.07
1060937--1060969	3	11.3	3	93	6	59	30	0	0	69	0.88
1062070--1062100	2	15.5	2	100	0	62	51	0	0	48	1.00
1076462--1076635	35	4.9	35	86	2	213	41	17	19	21	1.90
1076460--1076635	36	4.9	36	86	2	221	41	17	19	21	1.90
1077902--1077950	22	2.3	20	80	13	53	18	4	6	71	1.23
1077960--1078011	2	26.0	2	100	0	104	50	0	0	50	1.00
1079441--1079495	19	2.9	19	74	15	60	65	1	9	23	1.31
1079478--1079527	22	2.4	21	80	16	59	70	2	6	22	1.20
1079580--1079722	22	6.7	20	66	26	62	65	1	3	29	1.17
1079598--1079713	24	4.4	27	66	22	68	66	0	3	29	1.14
1079595--1079699	24	4.4	23	73	14	81	65	0	2	30	1.13
1079581--1079671	22	4.1	21	76	18	69	67	0	4	28	1.10
1079587--1079711	15	8.2	15	67	21	57	66	0	4	28	1.15
1079841--1079889	21	2.2	21	82	10	53	61	0	4	34	1.15
1079898--1079955	27	2.1	29	84	12	77	70	1	1	25	1.06
1080349--1080450	37	2.8	37	89	0	141	30	14	14	40	1.86
1081203--1082054	106	8.0	106	91	0	1310	23	17	24	34	1.96
1083017--1083071	22	2.5	22	93	0	101	23	10	27	38	1.88
1083674--1083742	17	4.3	15	77	13	66	1	11	4	82	0.87
1083688--1083741	18	2.9	18	78	10	56	0	12	5	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083675--1083742	26	2.7	25	78	12	77	1	11	4	82	0.88
1087944--1088000	19	2.9	19	75	14	62	66	1	8	22	1.29
1088100--1088176	25	3.3	24	77	17	81	64	0	5	29	1.15
1088350--1088374	2	12.5	2	100	0	50	52	0	0	48	1.00
1088419--1088451	10	3.7	9	92	8	50	66	0	0	33	0.92
1088869--1088970	37	2.8	37	87	3	134	30	13	14	41	1.85
1092107--1092134	2	14.0	2	100	0	56	50	0	0	50	1.00
1093436--1093484	22	2.2	22	92	0	89	55	14	8	22	1.65
1093436--1093500	22	2.9	22	86	2	76	53	12	9	24	1.67
1096845--1097235	54	7.2	54	86	2	498	26	17	19	36	1.94
1096815--1097235	162	2.6	162	85	2	549	26	17	20	35	1.95
1098004--1098143	70	2.0	70	94	0	244	41	23	2	32	1.66
1107891--1107950	19	3.2	19	97	0	111	21	10	35	33	1.87
1116709--1116737	2	14.5	2	100	0	58	48	0	0	51	1.00
1125664--1125716	26	2.0	26	100	0	106	33	18	26	20	1.96
1126235--1126305	29	2.4	30	81	11	85	42	8	18	30	1.80
1148071--1148157	44	2.0	44	100	0	174	27	20	18	33	1.96
1148558--1148663	50	2.3	47	84	14	132	33	1	12	51	1.50
1152101--1152128	9	3.1	9	100	0	56	25	0	10	64	1.26
1155334--1155363	15	1.9	16	93	6	53	60	0	23	16	1.36
1155852--1155894	18	2.2	20	84	8	54	20	2	20	55	1.54
1158559--1158584	13	2.0	13	100	0	52	46	7	7	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162469--1162586	20	5.8	20	76	7	96	39	24	20	15	1.91
1162527--1162615	22	4.1	22	78	8	85	30	23	24	21	1.99
1162595--1162838	40	6.0	42	90	4	376	16	19	27	36	1.93
1162581--1162893	62	5.1	60	80	10	314	16	19	26	37	1.93
1162595--1162895	20	14.8	20	79	7	259	15	19	26	38	1.92
1162595--1162838	82	3.0	82	90	4	386	16	19	27	36	1.93
1166249--1166274	3	8.7	3	100	0	52	0	34	0	65	0.93
1173789--1173895	43	2.3	48	83	15	127	37	1	9	51	1.45
1175341--1175541	31	6.5	31	82	7	183	36	11	12	38	1.80
1175330--1175541	62	3.4	62	86	1	280	37	11	12	38	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13