genome.fa.s7748.2.7.7.80.10.50.1000.16.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  16  of  24  ( 2778 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)
3077787--3077878	47	2.0	47	85	8	125	28	22	22	26	1.99
3077843--3077900	12	4.9	12	75	12	57	36	27	15	20	1.93
3077787--3077876	24	3.8	23	79	2	90	28	23	23	24	1.99
3077825--3077905	35	2.3	35	93	0	144	30	24	17	27	1.97
3078799--3078900	32	3.3	32	76	10	79	40	0	0	59	0.97
3080683--3080752	21	3.3	21	90	7	115	18	32	25	22	1.97
3081274--3081380	34	3.1	34	86	0	151	51	6	5	36	1.51
3081795--3082197	127	3.2	126	94	0	716	32	21	24	22	1.98
3087055--3087090	11	3.5	11	78	21	51	27	27	16	27	1.97
3087054--3087099	19	2.4	19	96	3	83	26	30	15	28	1.96
3088573--3088650	14	5.8	14	68	22	51	44	33	0	21	1.53
3088733--3088762	14	2.1	14	93	0	51	43	0	6	50	1.28
3088854--3088883	12	2.6	11	90	10	51	16	30	33	20	1.94
3099674--3099772	47	2.1	47	81	3	110	31	14	23	31	1.94
3106485--3106582	42	2.3	42	87	0	133	26	17	22	33	1.96
3106633--3106716	44	2.0	43	88	4	125	28	21	20	29	1.98
3106633--3106695	20	3.0	20	72	17	65	26	22	22	28	1.99
3106498--3106769	137	2.0	135	86	2	384	31	18	22	27	1.97
3106676--3106890	80	2.7	80	92	1	340	31	17	21	29	1.96
3107315--3107607	53	5.5	53	84	4	338	31	21	26	21	1.98
3107315--3107565	108	2.3	106	87	2	342	31	22	27	18	1.97
3107979--3108010	10	3.1	10	91	8	55	9	9	0	81	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107979--3108010	11	3.0	11	95	4	57	9	9	0	81	0.88
3110885--3110928	21	2.0	22	82	4	54	43	4	0	52	1.22
3113426--3113471	24	2.0	23	86	4	65	69	4	0	26	1.07
3115710--3115740	2	15.5	2	100	0	62	0	48	0	51	1.00
3115740--3115770	2	15.5	2	93	0	53	51	0	0	48	1.00
3116271--3116310	20	2.1	19	86	13	55	35	17	15	32	1.91
3117409--3117465	28	2.0	28	96	0	105	31	10	14	43	1.79
3118942--3119008	22	3.0	22	68	22	59	23	4	7	64	1.38
3118941--3119061	43	2.8	43	83	6	136	23	8	7	61	1.50
3118941--3119432	87	5.7	86	75	11	303	25	16	6	52	1.67
3118985--3119432	43	10.4	43	75	14	232	25	17	6	50	1.69
3119029--3119419	86	4.5	84	76	12	269	25	18	6	49	1.71
3133039--3133126	44	2.0	44	100	0	176	36	15	9	38	1.80
3133160--3133196	19	1.9	19	100	0	74	10	24	16	48	1.77
3135773--3135816	17	2.6	17	77	0	52	59	0	0	40	0.98
3143693--3143738	21	2.1	22	88	8	67	28	15	10	45	1.79
3143712--3143860	66	2.2	67	86	4	230	35	18	11	34	1.87
3143868--3143928	31	2.0	31	86	0	86	36	18	11	34	1.86
3143883--3144069	67	2.7	67	83	3	230	29	21	11	37	1.89
3144385--3144647	106	2.5	105	81	7	325	35	24	18	20	1.95
3145991--3146050	23	2.7	22	82	7	59	33	3	3	60	1.30
3146109--3146159	21	2.4	21	84	12	61	21	7	1	68	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155394--3155469	36	2.1	36	97	0	143	28	25	10	35	1.89
3156136--3156243	43	2.6	42	84	8	134	47	0	0	52	1.00
3156228--3156257	13	2.3	13	100	0	60	63	0	0	36	0.95
3156227--3156267	21	2.0	21	85	9	57	65	0	0	34	0.93
3156149--3156243	43	2.3	43	85	7	135	47	0	0	52	1.00
3156796--3156825	2	15.0	2	100	0	60	50	0	0	50	1.00
3157660--3157703	18	2.3	20	84	7	56	43	4	2	50	1.35
3157674--3157790	59	2.0	59	83	8	148	37	6	1	53	1.38
3159118--3159182	34	1.9	33	87	3	94	53	0	1	44	1.09
3159118--3159188	18	4.1	18	71	14	60	52	0	1	46	1.09
3159228--3159290	14	4.4	14	76	11	56	53	0	0	46	1.00
3159272--3159315	19	2.3	19	80	0	61	54	2	2	40	1.25
3159552--3159584	17	1.9	17	100	0	66	39	0	0	60	0.97
3160601--3160652	20	2.6	20	84	0	68	48	25	0	26	1.52
3163706--3164036	165	2.0	166	99	0	655	32	20	11	35	1.89
3165444--3165855	112	3.7	112	90	1	630	48	13	12	25	1.78
3165444--3165855	223	1.8	223	92	2	693	48	13	12	25	1.78
3170689--3171063	182	2.1	182	92	1	617	43	13	16	26	1.85
3176123--3176303	99	1.8	99	82	7	233	39	11	13	35	1.81
3176278--3176312	17	2.1	17	100	0	70	37	22	11	28	1.89
3178189--3178379	101	1.9	101	82	4	242	34	12	12	40	1.80
3178168--3178396	101	2.3	101	78	6	232	33	11	11	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3179884--3179918	19	1.9	17	88	11	52	62	0	2	34	1.10
3195681--3195753	24	2.9	25	84	10	96	43	4	0	52	1.20
3195694--3195769	26	3.0	25	83	14	95	42	3	0	53	1.19
3195928--3195995	31	2.2	31	81	0	82	48	10	11	29	1.73
3199628--3199894	38	7.3	39	75	16	207	44	4	5	44	1.49
3199641--3199900	37	7.2	36	79	13	241	44	4	5	45	1.48
3199694--3199751	30	2.0	30	86	10	84	50	6	5	37	1.52
3199862--3199958	31	3.3	30	79	11	101	50	3	5	41	1.40
3199877--3199960	30	2.8	31	79	15	104	52	3	5	38	1.43
3199923--3200018	41	2.5	41	87	12	134	50	3	5	41	1.40
3201328--3201372	12	3.7	12	80	14	56	17	2	0	80	0.82
3201325--3201372	13	3.7	13	81	15	55	18	2	0	79	0.84
3201427--3201490	1	64.0	1	79	0	65	6	3	1	89	0.65
3201444--3201490	17	2.8	17	86	0	76	4	2	2	91	0.55
3201427--3201490	26	2.5	26	85	12	80	6	3	1	89	0.65
3201430--3201488	29	2.0	31	86	6	86	6	3	1	88	0.69
3201427--3201490	19	3.5	19	80	8	78	6	3	1	89	0.65
3204080--3204130	23	2.2	23	92	0	84	29	27	25	17	1.98
3204156--3204367	100	2.1	100	89	3	329	37	23	14	25	1.92
3208233--3209607	84	16.7	83	76	7	1180	31	25	19	24	1.98
3208233--3209609	164	8.4	164	80	5	1307	31	25	19	24	1.98
3208233--3209551	248	5.3	247	82	6	1410	31	25	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3209996--3210400	38	10.9	36	79	13	312	44	4	5	44	1.48
3210012--3210275	77	3.5	76	82	7	276	44	4	5	45	1.49
3210239--3210344	34	3.2	33	85	11	137	47	2	4	45	1.38
3210303--3210402	40	2.5	39	78	21	127	48	3	5	44	1.40
3210420--3210449	13	2.3	13	100	0	60	30	0	0	70	0.88
3211742--3211786	15	3.3	15	76	20	53	22	4	0	73	1.01
3211742--3211793	25	2.0	26	92	3	88	19	5	0	75	1.01
3211742--3211789	26	1.9	25	87	8	71	20	4	0	75	0.97
3211880--3211947	12	5.6	12	77	19	54	25	2	1	70	1.09
3211899--3211951	4	12.8	4	78	21	56	22	3	1	71	1.12
3211886--3211953	26	2.6	25	76	21	77	23	2	1	72	1.07
3213293--3213327	17	2.0	18	88	5	54	40	8	0	51	1.33
3213419--3213532	56	2.0	56	100	0	228	39	5	5	50	1.48
3214273--3214329	29	1.9	30	85	3	80	14	17	19	49	1.80
3214768--3214826	29	2.0	29	93	0	100	25	5	32	37	1.78
3215049--3215116	29	2.3	30	82	7	86	51	17	13	17	1.76
3216679--3216726	21	2.3	21	100	0	96	45	12	14	27	1.81
3220227--3220251	3	8.3	3	100	0	50	64	0	0	36	0.94
3224839--3224939	51	2.0	51	96	0	184	30	22	11	34	1.90
3227163--3227206	14	3.0	14	87	12	70	15	22	13	47	1.81
3227163--3227206	16	2.9	16	93	6	74	15	22	13	47	1.81
3232523--3232605	43	1.9	43	82	0	103	59	16	12	12	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3232787--3232848	14	4.4	14	83	0	88	54	16	14	14	1.71
3234320--3234350	8	3.9	8	100	0	62	35	0	12	51	1.40
3235306--3235351	21	2.1	22	96	4	85	39	13	4	43	1.63
3236920--3236957	19	2.0	19	94	0	67	39	26	7	26	1.83
3236924--3236969	19	2.4	19	85	0	65	34	28	10	26	1.90
3238087--3238123	14	2.6	14	91	4	56	51	21	21	5	1.68
3240339--3240469	20	6.8	20	77	12	132	33	20	18	27	1.96
3240339--3240518	94	1.9	93	83	5	229	34	20	18	26	1.96
3240520--3240571	20	2.6	20	90	6	79	13	11	21	53	1.70
3240637--3240806	71	2.5	66	82	12	177	50	17	2	30	1.59

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24