genome.fa.s761.2.7.7.80.10.50.1000.12.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  12  of  23  ( 2686 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)
3022456--3022503	26	1.9	25	84	16	64	29	4	14	52	1.60
3032762--3032809	13	3.7	13	83	10	71	6	27	18	47	1.72
3040792--3040855	26	2.5	26	97	0	119	35	15	20	28	1.93
3041804--3041849	23	2.0	23	86	0	65	23	15	26	34	1.94
3050566--3050596	16	1.9	16	93	0	53	19	6	6	67	1.35
3050565--3050746	101	1.8	99	83	9	244	19	7	10	62	1.51
3052250--3052292	20	2.2	20	100	0	86	37	9	13	39	1.78
3052395--3052454	22	2.7	23	74	7	61	48	20	1	30	1.59
3054248--3054397	75	2.0	75	98	0	291	28	13	18	40	1.88
3069643--3069699	22	2.7	20	76	10	51	54	8	12	24	1.65
3071832--3071878	24	2.0	24	83	8	60	17	6	4	72	1.22
3071848--3071884	18	2.0	19	89	5	58	16	10	5	67	1.38
3107977--3108016	21	2.0	20	85	5	53	30	12	17	40	1.86
3112274--3112322	21	2.3	21	89	0	71	38	12	24	24	1.90
3116487--3116518	16	2.1	16	88	11	50	68	18	0	12	1.20
3118254--3118315	19	3.3	19	95	0	106	41	8	11	38	1.70
3121037--3121065	2	14.5	2	100	0	58	51	48	0	0	1.00
3122625--3122677	15	3.7	13	80	16	52	7	18	0	73	1.06
3122641--3122677	14	2.5	15	87	12	51	5	21	0	72	1.04
3139977--3140015	17	2.3	17	100	0	78	12	20	30	35	1.90
3142648--3142751	53	2.0	53	86	0	145	42	15	15	26	1.87
3144496--3144569	29	2.5	30	80	2	96	29	12	9	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3147189--3148030	116	7.3	116	91	1	1350	27	21	21	29	1.98
3147189--3148030	231	3.6	232	92	2	1327	27	21	21	29	1.98
3148949--3149381	215	2.0	216	92	1	726	31	20	15	33	1.94
3166205--3166290	21	4.0	21	75	11	77	15	25	37	22	1.93
3170097--3170136	21	1.9	21	85	10	55	35	10	2	52	1.48
3179512--3179940	54	8.1	54	85	4	579	30	14	16	38	1.88
3187287--3187493	55	3.8	55	88	3	301	33	18	20	27	1.96
3187451--3187532	42	1.9	43	90	2	130	32	15	21	29	1.95
3193949--3194402	54	8.4	54	82	5	531	32	20	19	27	1.97
3193949--3194402	109	4.2	109	86	5	526	32	20	19	27	1.97
3193949--3194402	164	2.8	163	86	4	621	32	20	19	27	1.97
3196147--3196298	76	2.0	76	100	0	304	31	22	19	26	1.98
3199898--3199982	34	2.5	34	96	0	152	15	24	24	35	1.94
3200004--3200057	22	2.5	22	96	0	99	35	18	33	12	1.89
3200087--3200131	23	1.9	24	95	4	83	8	24	40	26	1.84
3200084--3200137	23	2.4	21	82	17	72	11	24	40	24	1.87
3202446--3202490	16	2.7	18	77	22	53	28	0	6	64	1.19
3202678--3202718	19	2.2	19	100	0	82	31	34	4	29	1.79
3202994--3203030	6	6.2	6	96	0	65	18	0	62	18	1.34
3202989--3203030	18	2.3	18	87	0	66	21	2	59	16	1.48
3203475--3204073	42	15.8	41	73	19	272	49	6	4	39	1.46
3203521--3204071	14	39.0	14	68	20	198	50	6	3	39	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3203521--3204118	22	27.3	22	68	21	164	50	6	3	39	1.45
3203598--3203622	13	1.9	13	100	0	50	48	12	0	40	1.40
3203614--3204125	59	8.3	63	74	18	247	50	6	4	39	1.46
3203521--3204036	8	68.8	8	67	23	195	50	6	3	39	1.44
3203757--3204132	59	6.5	57	78	14	294	50	5	3	40	1.45
3204074--3204129	25	2.2	24	87	12	76	50	3	3	42	1.37
3203848--3204143	14	20.8	14	69	22	75	50	5	3	40	1.43
3207443--3207491	18	2.7	18	100	0	98	26	34	14	24	1.94
3207830--3207909	34	2.4	34	100	0	160	30	28	26	15	1.96
3212902--3212944	15	2.8	15	82	3	50	48	9	0	41	1.35
3213649--3213693	21	2.1	21	87	0	63	31	28	24	15	1.96
3215342--3215400	22	2.6	23	94	2	102	18	27	30	23	1.98
3218567--3218611	21	2.1	21	87	0	63	31	28	24	15	1.96
3220260--3220318	22	2.6	23	94	2	102	18	27	30	23	1.98
3221022--3221064	16	2.6	17	81	7	52	44	6	2	46	1.43
3229527--3229554	14	2.0	14	100	0	56	21	28	7	42	1.79
3230051--3230094	23	2.0	23	86	4	63	70	9	0	20	1.14
3234060--3234087	14	2.0	14	100	0	56	21	14	7	57	1.61
3242436--3242479	15	2.9	15	93	0	79	63	0	36	0	0.95
3242438--3242492	15	3.1	19	77	22	64	65	0	34	0	0.93
3242435--3242495	19	3.4	18	80	14	74	65	0	34	0	0.93
3242642--3242670	10	3.0	10	95	5	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3245260--3245312	22	2.4	22	90	6	81	45	7	5	41	1.56
3245434--3245588	11	13.2	11	70	20	91	43	8	3	45	1.50
3245438--3245588	24	6.4	24	75	13	118	43	8	3	44	1.51
3245500--3245618	59	2.0	59	90	3	186	47	10	2	39	1.51
3245555--3245588	13	2.9	11	84	16	50	44	8	2	44	1.50
3245580--3245608	15	1.9	15	100	0	58	55	10	0	34	1.34
3251338--3251412	26	3.0	26	75	16	77	17	18	0	64	1.30
3251615--3251669	27	2.0	28	85	7	76	72	3	16	7	1.21
3258001--3258124	23	5.4	23	79	12	132	33	23	18	25	1.97
3258091--3258142	22	2.3	23	90	3	79	30	28	19	21	1.97
3266730--3267061	166	2.0	166	100	0	664	31	34	10	22	1.88
3267656--3267717	22	2.6	22	80	12	61	54	19	1	24	1.53
3267656--3267721	24	2.8	23	75	11	62	54	19	1	24	1.53
3271571--3271645	32	2.4	31	79	16	84	72	5	2	20	1.17
3271762--3271831	2	35.0	2	100	0	140	50	0	0	50	1.00
3273310--3273517	111	1.9	111	88	1	319	22	18	24	35	1.95
3274440--3274524	45	1.9	44	86	9	120	16	31	17	34	1.93
3278470--3278504	13	2.7	13	100	0	70	48	11	25	14	1.77
3285423--3285454	15	2.1	15	94	0	55	78	0	9	12	0.97
3285460--3285522	16	3.9	17	72	27	66	61	1	1	34	1.15
3285498--3285554	19	2.9	19	71	7	51	61	0	7	31	1.23
3285460--3285565	48	2.2	50	80	11	114	59	0	4	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3286367--3286415	23	2.1	23	100	0	98	36	4	10	48	1.56
3297201--3297243	23	2.0	23	86	9	63	65	4	9	20	1.40
3300161--3300212	23	2.3	22	90	6	77	44	19	1	34	1.62
3300171--3300233	23	2.7	23	90	0	90	38	19	6	36	1.77
3301119--3301161	22	1.9	23	85	4	61	46	11	11	30	1.76
3301157--3301668	183	2.8	183	95	1	902	33	16	14	36	1.88
3302868--3302942	3	25.0	3	79	0	69	24	34	6	34	1.81
3302872--3302957	12	7.2	12	78	0	64	20	34	8	36	1.83
3302890--3302954	30	2.2	30	91	0	103	20	35	10	33	1.87
3304413--3305582	199	5.9	199	98	0	2258	30	16	16	36	1.91
3304413--3305582	594	2.0	596	98	0	2256	30	16	16	36	1.91
3305701--3305749	19	2.6	19	93	0	80	57	10	2	30	1.43
3307542--3307607	33	2.0	33	90	0	105	22	48	0	28	1.51
3307641--3307705	21	3.1	21	80	6	69	15	29	15	40	1.88
3309927--3309969	20	2.3	18	82	17	61	18	16	11	53	1.72
3309932--3309978	20	2.3	20	89	10	78	17	17	10	55	1.69
3311077--3311438	182	2.0	182	97	0	688	37	14	18	29	1.90
3312402--3312441	18	2.2	18	95	0	71	10	37	22	30	1.87
3312630--3312705	36	2.1	36	97	0	143	31	10	14	43	1.79
3313214--3313263	20	2.5	20	87	6	66	42	26	22	10	1.84
3313272--3313424	20	7.6	20	79	5	146	37	23	18	19	1.94
3313272--3313425	40	3.8	40	78	8	168	38	23	18	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3313211--3313422	101	2.1	101	81	3	248	38	23	18	18	1.93
3313272--3313400	60	2.1	62	86	2	181	40	22	17	19	1.91
3313960--3314032	20	3.6	19	83	7	92	52	19	16	12	1.75
3314015--3314095	33	2.5	33	83	0	99	50	19	18	11	1.76
3314091--3314250	19	9.1	19	68	21	116	11	22	20	46	1.82
3314096--3314250	33	4.5	33	87	5	211	10	21	20	47	1.81
3314146--3314201	14	3.6	14	74	21	58	8	25	23	42	1.82
3314153--3314248	20	5.2	20	74	21	100	11	22	18	46	1.81
3316272--3316338	21	3.2	21	68	4	55	25	35	19	19	1.95
3316220--3316338	42	2.8	42	81	5	107	23	36	17	22	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23