genome.fa.s8124.2.7.7.80.10.50.1000.18.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  18  of  19  ( 2165 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)
3076167--3076309	60	2.4	60	77	12	143	34	19	4	41	1.71
3079499--3079543	18	2.5	18	100	0	90	31	22	8	37	1.85
3088228--3088279	23	2.3	23	80	6	61	34	23	0	42	1.54
3092296--3092408	20	5.7	20	90	2	165	38	6	24	30	1.80
3092561--3092640	37	2.1	38	88	6	119	52	2	0	45	1.14
3098856--3098929	31	2.4	31	93	0	121	35	6	6	51	1.55
3099026--3099101	31	2.5	31	82	2	91	48	6	11	32	1.66
3099977--3100021	18	2.5	18	92	0	81	6	31	0	62	1.21
3102642--3102702	21	3.0	21	90	2	97	26	27	11	34	1.91
3106393--3106439	19	2.6	18	87	9	69	51	4	12	31	1.59
3106506--3106557	13	4.1	13	80	5	61	50	0	26	23	1.50
3106585--3106649	18	3.4	18	76	12	76	30	6	16	46	1.72
3106585--3106661	39	2.0	39	100	0	154	28	6	18	46	1.73
3109811--3110120	155	2.0	155	99	0	611	38	11	18	31	1.87
3114022--3114133	2	56.0	2	100	0	224	50	0	50	0	1.00
3118524--3118569	24	1.9	24	90	0	74	58	6	10	23	1.55
3120966--3121015	19	2.6	19	84	6	66	14	2	10	74	1.16
3121333--3121367	17	2.1	17	94	0	61	25	5	8	60	1.49
3121365--3121532	84	2.0	83	90	1	264	23	15	13	47	1.81
3121579--3121642	21	3.0	21	84	4	76	37	0	1	60	1.06
3126635--3126693	21	2.8	20	75	12	55	28	11	27	32	1.92
3126693--3126739	20	2.3	21	85	7	69	21	14	19	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127645--3127705	21	2.8	22	76	16	65	75	6	8	9	1.19
3136223--3136289	31	2.1	32	81	10	75	56	4	5	32	1.43
3136420--3136463	2	23.0	2	86	9	65	47	2	0	50	1.13
3136406--3136463	29	2.1	29	83	6	75	46	3	1	48	1.29
3136477--3136507	11	2.8	11	95	0	53	35	9	3	51	1.51
3137296--3137328	16	2.0	17	94	5	59	51	0	6	42	1.26
3147802--3147857	24	2.3	24	100	0	112	28	21	14	35	1.92
3150352--3150438	31	2.8	31	75	6	95	21	29	13	34	1.92
3150461--3150494	15	2.3	15	89	0	50	55	2	23	17	1.55
3158208--3158923	228	3.1	229	97	1	1343	44	7	8	39	1.63
3158972--3159018	20	2.4	19	86	10	67	55	8	17	19	1.67
3159161--3159203	20	2.3	19	88	11	63	51	11	16	20	1.75
3161882--3161925	21	2.1	21	91	0	70	40	11	31	15	1.83
3161959--3162024	33	2.0	33	90	0	105	28	0	48	22	1.51
3163893--3165870	199	9.9	199	96	1	3595	36	14	16	31	1.90
3163893--3165870	399	4.9	399	96	1	3606	36	14	16	31	1.90
3163893--3165870	598	3.3	598	96	1	3613	36	14	16	31	1.90
3167333--3167436	6	17.3	6	81	0	91	38	6	34	20	1.79
3167336--3167436	12	8.4	12	88	0	121	37	6	34	20	1.80
3172528--3172592	25	2.6	25	80	0	85	35	9	13	41	1.77
3172939--3173011	23	3.2	23	88	0	101	34	4	21	39	1.73
3173435--3173471	18	2.1	18	89	0	56	32	5	10	51	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3173725--3173811	39	2.2	39	91	0	147	48	19	13	18	1.81
3174233--3174305	23	3.2	23	88	0	101	34	4	21	39	1.73
3174662--3174734	23	3.2	23	88	0	101	34	4	21	39	1.73
3174030--3175083	429	2.5	429	97	1	1968	41	7	12	38	1.71
3176769--3176806	20	1.9	20	88	0	58	10	7	15	65	1.45
3177944--3178038	32	2.9	33	75	7	88	43	26	13	16	1.86
3177953--3178031	16	4.9	16	75	3	77	41	26	16	15	1.88
3180557--3181545	336	3.0	330	83	4	1200	34	11	31	22	1.90
3181227--3181854	309	2.0	305	85	5	836	33	11	31	23	1.91
3181541--3182176	336	1.9	333	84	2	864	34	12	30	21	1.91
3189113--3189200	29	3.1	29	83	8	117	38	15	25	20	1.92
3194671--3194695	2	12.5	2	100	0	50	48	0	0	52	1.00
3204324--3204366	2	21.5	2	100	0	86	51	0	48	0	1.00
3207589--3207695	52	2.1	52	85	3	144	18	5	28	47	1.71
3209848--3209953	52	2.0	52	98	0	203	33	9	19	36	1.84
3211227--3211266	13	3.2	13	89	7	64	55	0	0	45	0.99
3213085--3213184	33	3.0	34	83	2	139	39	3	4	54	1.35
3213704--3213797	21	4.5	21	92	5	129	20	26	35	18	1.95
3213801--3213848	21	2.3	21	85	0	60	22	12	39	25	1.89
3215573--3215657	32	2.6	32	81	5	98	60	2	0	37	1.10
3215573--3215648	35	2.3	34	84	6	102	61	1	0	36	1.04
3215601--3215680	34	2.3	34	81	12	92	65	5	0	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217058--3217089	17	2.0	17	88	11	50	37	0	59	3	1.13
3217358--3217438	12	6.4	12	69	13	56	49	1	6	43	1.35
3217442--3217548	52	2.1	52	85	3	144	18	5	28	47	1.71
3219698--3219803	52	2.0	52	98	0	203	33	9	19	36	1.84
3223010--3223041	17	2.0	17	88	11	50	37	0	59	3	1.13
3225083--3225117	18	1.9	18	100	0	70	25	34	17	22	1.96
3226010--3226063	21	2.5	23	82	11	69	29	25	16	27	1.97
3229880--3229917	20	1.9	20	88	0	58	36	18	18	26	1.94
3230649--3230698	23	2.1	24	85	7	66	24	18	22	36	1.95
3233669--3233726	20	2.7	20	81	10	62	32	18	20	27	1.97
3236150--3236195	22	2.1	23	80	15	62	28	28	15	28	1.96
3236591--3236622	14	2.3	14	94	0	55	25	21	0	53	1.46
3238395--3238438	22	2.0	22	82	8	54	43	2	0	54	1.12
3240874--3240948	26	2.9	26	97	0	141	22	26	26	24	2.00
3249546--3249598	21	2.5	21	96	0	97	11	20	16	50	1.76
3254682--3254746	28	2.2	28	84	10	78	26	0	1	72	0.94
3254681--3254746	15	4.6	14	75	11	62	25	0	1	72	0.93
3254691--3254747	21	2.9	21	85	12	77	26	0	0	73	0.83
3254682--3254756	28	2.6	29	79	12	75	26	1	2	69	1.10
3254996--3255047	20	2.5	21	90	3	79	73	0	0	26	0.84
3255014--3255055	15	2.7	15	88	3	57	71	0	0	28	0.86
3261945--3262026	29	2.8	29	92	3	130	15	31	31	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262097--3262152	27	2.1	27	100	0	112	28	25	21	25	1.99
3262269--3262314	23	2.0	23	100	0	92	47	4	39	8	1.54
3262269--3262329	23	2.6	23	86	5	59	50	6	36	6	1.54
3262319--3262371	21	2.5	21	96	0	97	62	0	35	1	1.06
3262317--3262348	17	1.9	16	93	6	55	62	0	37	0	0.95
3262506--3262594	41	2.2	41	78	8	92	42	1	10	46	1.45
3262575--3262665	45	2.0	48	89	6	143	42	0	10	46	1.39
3262827--3262873	16	3.0	16	84	9	53	29	0	10	59	1.31
3262848--3262878	15	2.1	14	94	5	53	38	0	6	54	1.26
3265028--3265060	17	1.9	17	93	0	57	45	12	6	36	1.66
3265045--3265113	22	3.0	22	73	19	77	47	7	4	40	1.51
3265252--3265334	11	6.9	11	74	15	58	50	4	2	42	1.36
3265252--3265338	38	2.4	37	81	9	99	51	4	2	41	1.35
3265322--3265459	12	10.0	13	71	20	70	43	7	4	44	1.53
3265268--3265459	14	14.3	13	73	19	82	45	7	3	43	1.50
3265268--3265459	26	7.7	26	66	18	88	45	7	3	43	1.50
3265419--3265466	23	2.1	23	84	0	60	41	6	4	47	1.48
3266842--3266900	26	2.3	24	78	16	64	40	3	8	47	1.51
3267624--3267686	28	2.2	30	91	5	103	57	11	0	31	1.34
3267628--3267693	28	2.4	28	85	10	98	56	10	0	33	1.34
3267663--3267711	21	2.3	21	85	3	71	53	16	0	30	1.43
3268224--3268387	81	2.0	81	100	0	328	19	37	17	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268394--3268491	29	3.4	29	92	2	153	21	32	30	15	1.94
3268538--3268595	12	4.8	12	78	6	64	15	32	18	32	1.93
3268527--3268595	36	1.9	35	97	2	129	15	30	20	33	1.94
3271280--3271329	7	7.1	7	86	0	73	72	12	0	16	1.13
3271273--3271318	21	2.2	21	88	0	65	80	10	0	8	0.91
3271418--3271499	38	2.2	38	86	0	119	36	13	26	23	1.92
3275843--3276157	157	2.0	157	96	0	585	26	15	19	38	1.92
3277200--3277256	27	2.1	27	100	0	114	35	5	26	33	1.79
3280033--3280065	16	2.1	16	94	0	57	27	30	21	21	1.98
3281597--3281627	15	2.1	15	100	0	62	12	32	29	25	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19