genome.fa.s8480.2.7.7.80.10.50.1000.5.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: VEPZ01008480.1 Hibiscus syriacus cultivar Beakdansim tig00111311_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2515485

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

This is table  5  of  13  ( 1492 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)
864286--864405	42	2.8	42	93	1	195	23	20	32	24	1.98
864474--864542	29	2.3	30	82	9	79	46	14	5	33	1.68
864485--864543	30	2.0	30	90	6	93	44	15	5	35	1.68
868142--868178	17	2.2	17	95	0	65	29	24	32	13	1.93
875995--876040	2	23.0	2	100	0	92	50	0	0	50	1.00
876991--877016	2	13.0	2	100	0	52	50	0	0	50	1.00
878980--879018	15	2.5	15	88	12	53	51	0	0	48	1.00
883731--883810	41	2.0	41	89	0	124	41	11	15	32	1.82
885799--885831	13	2.4	14	90	5	50	24	0	3	72	0.98
893363--893464	44	2.3	44	83	3	125	31	22	17	28	1.97
893914--893956	13	3.3	13	87	6	61	34	11	9	44	1.73
896013--896136	55	2.3	55	88	0	185	28	20	16	33	1.95
899931--899999	29	2.4	30	83	11	90	30	1	8	59	1.36
911582--911632	26	2.0	25	84	3	66	54	0	3	41	1.19
911692--911721	15	1.9	16	93	6	53	50	0	0	50	1.00
912070--912105	18	2.1	18	94	5	65	72	0	0	27	0.85
915556--915625	15	4.7	15	76	0	59	31	2	31	34	1.73
916259--916284	3	8.7	3	100	0	52	65	0	34	0	0.93
917867--917909	16	2.7	16	92	0	77	6	32	18	41	1.77
921335--921407	23	3.2	23	90	0	101	46	10	26	16	1.80
926149--926256	31	3.5	31	85	0	144	26	11	12	50	1.73
926396--926468	25	2.8	26	77	8	76	49	2	4	43	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
926469--926499	15	2.0	16	93	6	55	48	0	0	51	1.00
926599--926627	2	15.0	2	92	7	51	51	0	0	48	1.00
926768--926870	39	2.7	38	76	19	117	42	0	16	39	1.55
926894--926962	31	2.2	31	92	5	113	49	5	18	26	1.70
927024--927087	31	2.0	33	87	6	96	51	6	9	32	1.59
942202--942296	49	1.9	49	85	4	129	40	13	12	33	1.83
942385--942415	15	2.1	15	93	0	53	54	3	0	41	1.16
942578--942651	31	2.2	34	88	9	109	31	12	33	22	1.91
962767--962804	20	1.9	20	89	10	60	18	15	0	65	1.27
968748--968781	17	2.1	16	88	5	50	14	8	0	76	1.01
980616--980662	22	2.1	22	84	7	60	46	8	0	44	1.33
982238--982281	16	2.8	16	85	0	70	54	20	13	11	1.69
983377--983418	14	3.3	14	75	25	56	52	26	14	7	1.67
983371--983418	24	2.0	24	100	0	96	54	25	12	8	1.65
985522--985564	15	2.9	15	100	0	86	13	18	27	39	1.89
985522--985589	32	2.2	30	82	10	75	14	20	27	36	1.92
985605--985670	15	4.3	15	74	9	62	16	25	33	24	1.96
988432--988556	3	42.0	3	84	4	146	39	0	2	58	1.11
995030--995083	2	27.0	2	100	0	108	50	0	0	50	1.00
998892--999003	54	2.1	54	87	0	161	38	16	22	23	1.93
1000073--1001015	76	12.4	76	96	1	1701	22	21	21	35	1.96
1000073--1001015	229	4.1	228	95	1	1694	22	21	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000073--1001015	305	3.1	304	95	0	1701	22	21	21	35	1.96
1001147--1001274	3	42.0	3	85	3	148	39	0	2	58	1.11
1004992--1005051	10	5.6	10	83	14	75	10	11	23	55	1.66
1004994--1005044	24	2.1	24	100	0	102	7	11	25	54	1.63
1004970--1005051	34	2.4	34	86	8	105	12	13	21	52	1.73
1004994--1005034	14	3.2	14	74	25	54	7	12	26	53	1.64
1004992--1005064	34	2.1	34	89	0	110	12	10	20	56	1.66
1005972--1006038	16	4.3	16	84	3	84	10	11	17	59	1.60
1007495--1007534	20	2.1	19	90	4	62	35	7	32	25	1.84
1007689--1007763	37	2.0	37	85	10	100	49	4	1	45	1.29
1012942--1012977	18	1.9	19	88	5	56	58	8	0	33	1.28
1013007--1013039	6	5.5	6	100	0	66	81	0	0	18	0.68
1013782--1013835	24	2.3	24	74	3	56	61	1	1	35	1.18
1015441--1015480	20	2.0	20	100	0	80	25	5	25	45	1.73
1015793--1015826	2	17.0	2	100	0	68	50	0	0	50	1.00
1019363--1019517	36	4.3	36	97	0	283	27	25	27	19	1.99
1019615--1019855	36	6.7	36	99	0	446	29	24	28	17	1.97
1019259--1019769	252	2.0	252	99	0	1013	25	18	24	32	1.97
1029554--1029603	21	2.4	21	93	0	82	52	8	10	30	1.64
1029676--1029826	74	2.0	77	93	3	263	33	5	12	47	1.66
1034528--1034582	2	27.5	2	100	0	110	50	0	0	49	1.00
1042071--1042127	25	2.3	25	96	0	105	22	8	24	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045483--1045529	23	2.0	24	87	4	69	65	2	0	31	1.04
1045496--1045582	11	7.8	11	69	21	56	64	3	0	32	1.10
1045496--1045594	22	4.4	22	72	21	64	64	4	0	31	1.12
1046446--1046510	22	3.1	20	81	18	71	0	15	4	80	0.88
1046447--1046525	37	2.1	38	81	13	92	0	18	6	74	1.02
1046925--1046977	11	4.5	11	83	6	52	58	0	0	41	0.98
1046936--1046977	3	14.0	3	85	9	59	61	0	0	38	0.96
1046925--1046973	14	3.6	13	86	8	71	57	0	0	42	0.99
1046936--1046976	16	2.8	14	92	7	64	60	0	0	39	0.96
1046946--1046983	19	2.1	18	95	5	67	60	0	0	39	0.97
1047104--1047975	76	11.5	76	95	0	1512	35	20	19	23	1.96
1049043--1049198	54	2.9	54	91	0	249	23	23	16	37	1.93
1051189--1051411	114	2.0	114	90	0	356	31	20	14	33	1.93
1053579--1053630	10	5.0	10	90	9	86	0	13	0	86	0.57
1053585--1053626	22	1.9	22	100	0	84	0	14	0	85	0.59
1059159--1059205	23	2.0	24	87	4	69	65	2	0	31	1.04
1059181--1059263	17	4.9	17	73	14	66	63	3	0	32	1.11
1060124--1060183	21	3.1	18	77	20	50	0	16	5	78	0.92
1060119--1060181	23	2.8	23	81	11	85	0	15	4	79	0.90
1060115--1060196	38	2.1	38	82	13	96	0	18	7	74	1.04
1060596--1060672	11	7.0	11	77	14	70	59	0	0	40	0.97
1060607--1060676	3	23.0	3	82	8	88	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060598--1060672	19	4.1	19	73	13	66	60	0	0	40	0.97
1060596--1060676	28	2.9	28	94	3	137	60	0	0	39	0.97
1060607--1060677	22	3.3	21	84	7	81	63	0	0	36	0.95
1063627--1063657	16	1.9	16	100	0	62	38	25	12	22	1.90
1066357--1066431	35	2.1	35	95	0	132	34	28	28	9	1.88
1066513--1066599	24	3.7	23	81	4	93	39	18	14	27	1.90
1066509--1066599	47	1.9	48	81	2	112	38	18	15	27	1.91
1068938--1068969	7	4.4	7	92	7	55	25	28	34	12	1.92
1068939--1068985	8	6.5	8	79	20	59	21	25	38	14	1.92
1068939--1068985	15	3.3	15	91	5	71	21	25	38	14	1.92
1068967--1069030	5	12.0	5	73	23	51	7	21	53	17	1.69
1068946--1069026	13	6.3	13	79	18	66	13	23	46	16	1.82
1068967--1069030	18	3.6	18	95	0	119	7	21	53	17	1.69
1074333--1074374	21	2.0	21	100	0	84	38	14	9	38	1.78
1078430--1078458	15	2.0	15	93	6	51	37	0	0	62	0.96
1079136--1079201	19	3.4	19	66	22	55	60	3	3	33	1.27
1079156--1079214	13	4.5	13	74	19	59	64	1	1	32	1.13
1080877--1080953	38	2.0	38	85	5	102	36	31	18	14	1.90
1082637--1082716	42	1.9	42	89	0	124	25	26	16	32	1.96
1090562--1090588	10	2.7	10	100	0	54	7	37	0	55	1.28
1091555--1091596	22	1.9	22	85	0	57	30	0	50	19	1.48
1101117--1101144	7	4.0	7	100	0	56	28	28	28	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105221--1105261	19	2.2	19	86	8	57	43	12	9	34	1.75
1107110--1107184	36	2.1	36	94	0	132	13	16	33	37	1.87
1107357--1107392	16	2.2	17	90	5	56	72	0	2	25	0.98
1107334--1107367	5	7.2	5	93	6	54	79	0	0	20	0.73
1107425--1107474	12	4.0	12	83	16	66	50	8	0	42	1.32
1107421--1107539	27	4.6	26	75	15	97	45	6	0	47	1.35
1107450--1107728	76	3.7	76	84	9	374	45	7	1	45	1.39
1107563--1107613	26	2.0	26	84	7	68	43	7	1	47	1.43
1107601--1107701	11	8.1	11	70	28	62	45	7	0	45	1.39
1107450--1107727	39	7.4	37	85	9	352	45	7	1	46	1.39

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