genome.fa.s8302.2.7.7.80.10.50.1000.15.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

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

This is table  15  of  17  ( 1926 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)
2893155--2893257	23	4.7	23	84	4	124	25	21	29	24	1.99
2903430--2903811	81	4.7	82	75	8	348	34	18	19	28	1.95
2903421--2903810	82	4.8	80	72	11	258	33	18	19	28	1.95
2903421--2903742	162	2.0	164	87	3	474	33	18	19	29	1.95
2904923--2905146	113	2.0	111	96	3	414	25	13	14	47	1.80
2905424--2905552	64	2.0	64	96	3	242	24	26	17	31	1.97
2908558--2908795	41	5.9	41	76	11	143	31	9	20	38	1.85
2908613--2908858	41	6.1	41	85	3	322	32	10	21	34	1.88
2912234--2912291	25	2.3	25	96	0	107	43	1	15	39	1.57
2912439--2913520	6	183.3	6	89	8	1681	32	0	16	50	1.48
2916981--2917023	6	7.0	6	89	10	61	46	0	0	53	1.00
2924936--2924996	27	2.3	27	100	0	122	39	16	13	31	1.87
2928677--2928744	27	2.6	27	95	4	122	41	16	11	30	1.84
2937183--2937243	24	2.6	24	78	2	70	52	18	9	19	1.72
2939634--2939672	19	2.0	20	90	5	62	25	28	30	15	1.96
2939654--2939700	20	2.2	21	82	14	53	21	27	34	17	1.95
2941695--2941751	24	2.4	24	84	0	78	50	17	12	19	1.77
2946627--2946698	24	3.0	24	81	2	83	48	18	11	22	1.79
2949168--2949199	13	2.5	13	94	0	55	15	25	43	15	1.86
2951268--2951363	24	4.0	23	82	5	93	48	16	13	20	1.80
2951272--2951340	12	5.8	12	71	10	52	50	18	13	17	1.77
2958572--2958614	13	3.4	13	80	3	52	20	0	2	76	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2958646--2958972	37	8.8	35	74	19	163	45	3	6	44	1.46
2958665--2958761	32	2.8	33	87	7	115	46	3	7	43	1.47
2958646--2958976	74	4.4	74	78	11	331	45	3	6	44	1.45
2958979--2959018	3	13.7	3	85	15	57	30	2	0	67	1.04
2960223--2960308	11	7.5	11	72	17	52	17	5	2	74	1.12
2961013--2961071	21	2.7	21	82	10	73	49	1	3	45	1.28
2961065--2961129	27	2.4	27	100	0	130	53	3	3	40	1.32
2962036--2962065	15	2.0	15	100	0	60	40	13	13	33	1.83
2963067--2963261	42	4.7	42	72	12	129	26	23	17	32	1.97
2963346--2963469	42	3.0	41	82	8	144	27	25	17	29	1.98
2963008--2963675	247	2.7	247	86	2	896	28	22	16	32	1.96
2965579--2965615	2	18.5	2	100	0	74	48	0	0	51	1.00
2967348--2967384	19	2.0	19	89	5	58	43	10	0	45	1.39
2970065--2970089	12	2.1	12	100	0	50	20	16	24	40	1.91
2975631--2975698	34	2.0	34	97	0	127	41	14	22	22	1.90
2980934--2981021	27	3.3	27	96	0	158	38	11	23	26	1.89
2990152--2990207	20	2.8	20	91	2	85	23	30	10	35	1.89
2990178--2990406	46	5.0	46	92	1	379	21	23	10	43	1.84
2990175--2990374	20	8.7	24	71	21	144	21	24	11	43	1.85
2995189--2995258	18	3.7	18	80	14	86	24	31	24	20	1.98
2996824--2996862	21	1.9	21	89	5	62	17	25	23	33	1.96
2996845--2996885	18	2.2	19	86	4	57	14	31	29	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2996886--2996937	22	2.4	22	80	0	59	21	51	17	9	1.73
2996908--2996944	17	2.2	17	90	0	56	16	51	21	10	1.74
3004120--3004179	11	5.9	10	75	11	59	15	26	23	35	1.94
3004141--3004203	10	6.3	10	71	18	51	14	28	26	30	1.95
3004120--3004179	21	2.9	21	95	2	104	15	26	23	35	1.94
3004198--3004244	17	3.0	17	79	20	66	17	48	25	8	1.74
3006456--3006612	64	2.5	62	81	10	165	29	17	19	33	1.95
3010128--3010436	46	6.7	46	88	0	438	22	21	12	44	1.85
3010213--3010508	72	4.2	72	75	14	292	22	21	11	44	1.84
3010259--3010587	164	2.0	164	92	0	541	22	20	12	44	1.85
3010128--3010482	138	2.6	135	83	6	358	22	21	11	43	1.85
3010423--3010587	46	3.6	46	92	0	267	21	21	12	44	1.85
3010305--3010541	118	2.0	118	92	0	393	21	20	12	45	1.84
3010167--3010587	26	18.0	26	66	21	245	22	20	12	44	1.84
3014873--3014923	2	25.5	2	100	0	102	50	0	0	49	1.00
3024845--3024889	23	2.0	23	90	0	72	24	26	26	22	2.00
3024857--3025171	149	2.1	149	93	3	537	33	21	18	26	1.96
3026058--3026092	18	1.9	18	88	11	54	22	17	5	54	1.64
3028805--3028852	20	2.4	21	80	16	57	77	0	14	8	0.99
3032306--3032344	15	2.6	14	84	11	51	0	17	5	76	0.96
3032296--3032340	23	1.9	24	95	4	83	0	20	4	75	0.97
3032299--3032344	7	6.3	7	82	9	56	0	19	4	76	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3042709--3042790	34	2.3	33	78	12	83	62	2	6	29	1.32
3042870--3042918	15	3.1	16	79	8	64	67	4	2	26	1.19
3053231--3053314	42	2.0	42	86	4	116	21	16	13	48	1.80
3053553--3053599	22	2.1	23	92	4	78	46	2	0	51	1.13
3053679--3053764	27	3.1	27	71	18	70	47	1	2	48	1.22
3053917--3053993	27	3.0	26	72	18	72	50	0	1	48	1.09
3054162--3054220	14	4.1	14	84	4	82	35	20	6	37	1.79
3054160--3054218	29	2.0	29	96	0	109	32	20	8	38	1.83
3054245--3054291	15	3.1	15	84	0	67	36	6	17	40	1.75
3054256--3054306	15	3.5	15	81	5	68	41	3	19	35	1.70
3054245--3054306	30	2.1	30	90	3	99	38	4	17	38	1.71
3054677--3054722	24	2.0	23	83	12	58	39	4	2	54	1.32
3054710--3054821	29	3.8	30	75	18	94	51	1	0	46	1.11
3054836--3054885	14	3.3	14	76	17	55	58	0	0	42	0.98
3054833--3054879	22	2.1	23	92	4	78	55	0	0	44	0.99
3054833--3054909	30	2.6	29	84	12	93	53	0	0	46	1.00
3054833--3054876	8	5.6	8	81	13	56	54	0	0	45	0.99
3054833--3054884	8	6.3	9	79	20	53	55	0	0	44	0.99
3054837--3054913	22	3.5	22	82	10	68	51	0	0	48	1.00
3055547--3055657	35	3.2	34	84	2	141	41	23	0	34	1.61
3055555--3055656	34	2.9	34	85	2	123	43	23	0	32	1.61
3060925--3060963	18	2.2	18	95	0	69	30	23	7	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061791--3061847	19	2.8	19	81	7	69	24	33	26	15	1.95
3065252--3065319	35	1.9	35	82	5	84	32	0	23	44	1.54
3067459--3067539	40	2.0	40	92	0	135	41	22	13	22	1.88
3075542--3075595	19	2.8	19	85	2	63	33	18	29	18	1.95
3077469--3077512	2	22.0	2	100	0	88	50	0	0	50	1.00
3080514--3080595	29	2.8	29	75	1	83	35	19	20	24	1.96
3080585--3080623	18	2.1	19	85	4	53	28	17	33	20	1.96
3088554--3088596	22	1.9	23	81	13	54	27	2	9	60	1.40
3108833--3108872	15	2.6	16	85	14	50	37	5	22	35	1.76
3117591--3117773	29	6.4	27	71	18	106	33	2	12	51	1.52
3119340--3119397	20	2.6	22	84	10	66	31	20	22	25	1.98
3120294--3120454	18	8.9	18	91	0	250	20	25	31	22	1.98
3123985--3124024	21	2.0	20	85	5	53	35	0	20	45	1.51
3124080--3124106	14	1.9	14	100	0	54	40	7	22	29	1.81
3124423--3124545	18	6.9	18	91	3	196	19	26	31	22	1.98
3124423--3124545	35	3.5	36	92	3	196	19	26	31	22	1.98
3125722--3125746	9	2.8	9	100	0	50	72	0	8	20	1.10
3133865--3133989	24	5.2	24	83	8	137	25	16	20	38	1.92
3136039--3136063	10	2.5	10	100	0	50	32	0	40	28	1.57
3137221--3137339	60	2.0	60	81	3	141	34	16	17	31	1.93
3149652--3149729	24	2.9	28	70	18	65	42	2	2	52	1.28
3152363--3152405	17	2.8	16	80	16	54	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3162322--3162366	15	2.9	15	83	12	56	53	13	13	20	1.72
3167227--3167254	13	2.2	13	100	0	56	21	21	14	42	1.88
3167794--3167938	40	3.5	42	80	10	149	25	25	17	31	1.97
3169439--3169885	222	2.0	222	98	1	862	34	23	15	26	1.94
3175948--3175994	18	2.7	18	83	3	60	38	8	25	27	1.85
3176378--3176869	218	2.2	219	87	7	699	40	17	12	29	1.86
3178518--3179064	44	12.5	42	72	17	151	26	18	7	47	1.75
3178627--3178997	92	4.1	92	80	11	364	24	19	8	47	1.76
3178694--3179075	87	4.4	88	77	14	301	25	19	8	47	1.77
3178600--3179075	44	10.8	43	75	11	347	25	19	7	47	1.76

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