genome.fa.s7859.2.7.7.80.10.50.1000.15.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

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

This is table  15  of  18  ( 2075 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)
3061680--3061818	72	1.9	73	91	1	226	16	22	19	41	1.90
3061645--3061791	33	4.3	33	85	11	206	12	23	19	44	1.85
3064335--3064386	24	2.2	24	82	0	59	36	21	19	23	1.95
3065267--3065361	20	4.5	20	87	12	145	18	21	26	33	1.96
3065278--3065348	25	3.0	25	80	19	107	19	19	23	36	1.95
3065259--3065348	45	2.0	45	95	4	164	18	21	24	35	1.96
3065358--3065403	21	2.2	21	84	0	56	39	17	26	17	1.91
3066409--3066444	2	18.5	2	88	5	56	50	0	0	50	1.00
3066430--3066603	38	4.7	37	88	5	237	44	3	6	44	1.47
3066430--3066603	75	2.3	75	86	5	239	44	3	6	44	1.47
3066647--3066694	4	12.2	4	84	4	62	22	0	2	75	0.91
3066661--3066694	11	3.0	11	95	4	59	26	0	0	73	0.83
3066657--3066693	19	1.9	19	94	0	65	27	0	0	72	0.84
3067903--3067968	26	2.5	26	74	18	64	21	7	1	69	1.21
3067906--3068013	25	4.7	23	70	20	64	18	7	3	70	1.26
3067892--3068046	69	2.3	69	76	11	158	20	7	2	69	1.26
3068314--3068351	16	2.4	16	90	0	58	28	47	10	13	1.76
3069757--3069798	22	1.9	22	100	0	84	30	23	16	28	1.96
3074975--3075102	40	3.1	41	72	15	104	36	0	22	40	1.54
3075093--3075121	13	2.2	13	100	0	58	62	0	0	37	0.96
3086010--3086063	27	2.0	27	88	0	81	20	7	20	51	1.70
3088176--3088288	55	2.1	55	91	3	183	43	11	22	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3088184--3088306	55	2.2	55	86	2	167	45	14	20	19	1.85
3092343--3092568	125	1.8	125	90	0	362	31	15	26	26	1.96
3092346--3092600	125	2.0	125	86	1	350	32	16	25	25	1.96
3093735--3093788	27	2.0	27	88	0	81	20	7	20	51	1.70
3095802--3095866	22	3.0	22	80	13	80	36	24	16	21	1.94
3096218--3096268	18	2.9	18	88	8	70	37	7	27	27	1.84
3101985--3102051	29	2.3	29	82	7	82	49	2	7	40	1.46
3102063--3102116	28	1.9	28	84	0	72	42	5	9	42	1.60
3103620--3103651	12	2.7	12	90	0	55	56	9	0	34	1.32
3105337--3105382	17	2.7	17	90	6	67	43	6	15	34	1.72
3106817--3106857	16	2.6	16	96	0	73	48	9	2	39	1.49
3123893--3124379	113	4.2	113	86	6	688	33	12	12	41	1.80
3124140--3124164	12	2.1	12	100	0	50	60	8	16	16	1.58
3123912--3124379	237	2.0	239	91	0	760	33	12	12	41	1.80
3124700--3124744	23	2.0	23	86	0	63	40	20	8	31	1.83
3124636--3124820	87	2.1	87	94	0	325	32	14	11	41	1.81
3124714--3124938	64	3.4	64	70	12	222	33	15	10	40	1.81
3124778--3124967	23	8.5	23	71	10	124	34	16	8	40	1.80
3124720--3124967	133	1.9	133	94	0	442	33	14	10	40	1.81
3124967--3125262	112	2.6	112	91	0	475	33	13	11	41	1.80
3127865--3127898	14	2.4	14	95	5	59	8	20	50	20	1.75
3127890--3127979	19	4.5	19	73	17	67	27	27	25	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127896--3127979	10	8.4	9	68	19	51	27	28	26	17	1.98
3127909--3127954	23	2.0	23	91	0	74	28	28	23	19	1.98
3134433--3134865	213	2.0	218	95	4	781	30	17	24	27	1.97
3134900--3134945	23	2.0	23	91	0	74	28	28	23	19	1.98
3141664--3141697	14	2.4	14	95	5	59	8	20	50	20	1.75
3141689--3141778	19	4.5	19	73	17	67	27	27	25	18	1.98
3141695--3141778	10	8.4	9	68	19	51	27	28	26	17	1.98
3141708--3141753	23	2.0	23	91	0	74	28	28	23	19	1.98
3148475--3148521	5	9.8	5	81	9	62	4	21	53	21	1.63
3148481--3148516	9	3.9	9	85	7	54	5	22	50	22	1.70
3148475--3148521	19	2.5	19	100	0	94	4	21	53	21	1.63
3148495--3148528	14	2.4	14	95	5	59	8	20	50	20	1.75
3148520--3148609	19	4.5	19	78	17	85	26	28	26	17	1.98
3148526--3148609	10	8.4	9	73	19	69	26	29	27	16	1.97
3148520--3148600	42	1.9	43	87	7	121	25	28	27	18	1.98
3148539--3148584	23	2.0	23	100	0	92	26	30	26	17	1.97
3151052--3151088	7	5.4	7	87	6	58	27	29	27	16	1.97
3151051--3151088	13	2.8	14	88	8	60	28	28	26	15	1.96
3151085--3151123	14	2.8	14	100	0	78	7	20	51	20	1.72
3151120--3151159	19	2.0	21	85	9	57	27	30	25	17	1.97
3151131--3151190	21	2.9	20	85	11	77	30	26	25	18	1.98
3151118--3151189	10	7.3	9	75	14	54	29	27	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3152194--3152231	20	1.9	20	94	0	67	31	34	15	18	1.92
3152194--3152336	64	2.2	64	91	3	234	31	23	13	31	1.93
3152260--3152429	91	1.9	90	87	6	254	28	24	16	30	1.96
3159005--3159042	20	1.9	20	94	0	67	31	34	15	18	1.92
3159062--3159152	45	2.0	46	91	2	148	27	25	19	27	1.99
3159003--3159213	110	1.9	110	83	9	279	29	25	16	28	1.97
3159431--3159476	21	2.2	21	100	0	92	52	23	13	10	1.71
3159912--3160786	113	7.8	113	90	2	1325	31	11	13	43	1.81
3159912--3160785	337	2.6	336	90	1	1376	31	11	13	43	1.81
3161254--3161309	20	2.7	21	86	2	69	30	23	21	25	1.99
3161309--3161365	19	2.7	22	76	15	66	35	5	24	35	1.78
3161678--3161709	6	5.5	6	96	3	57	0	15	53	31	1.43
3161824--3161976	20	7.7	20	70	11	107	27	18	25	28	1.98
3161825--3162017	60	3.2	60	85	5	203	26	18	26	29	1.98
3161931--3162036	20	5.3	20	72	9	83	24	17	29	28	1.98
3162002--3162038	19	1.9	19	94	0	65	21	16	29	32	1.95
3162914--3163008	3	31.7	3	91	0	154	34	1	0	64	1.01
3163397--3163470	20	3.7	20	74	13	71	74	4	18	2	1.10
3164242--3164283	20	2.1	20	86	0	57	33	0	4	61	1.17
3165108--3165144	15	2.7	15	88	12	53	24	5	8	62	1.44
3175693--3175745	1	53.0	1	80	0	52	88	0	11	0	0.51
3175690--3175746	6	8.4	7	81	14	59	85	0	14	0	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3176683--3177081	52	7.7	52	94	2	680	24	14	22	38	1.92
3176687--3177081	205	1.9	206	95	2	713	23	14	22	38	1.92
3177636--3178312	232	2.9	232	92	1	1115	37	14	19	27	1.92
3177632--3178312	118	5.8	117	91	3	1063	37	14	19	27	1.92
3178558--3178650	3	32.0	3	88	6	138	34	0	0	65	0.93
3178557--3178651	23	4.1	23	86	5	138	35	0	0	64	0.94
3179036--3179109	20	3.7	20	74	13	71	74	4	18	2	1.10
3183931--3184044	11	10.7	11	72	11	67	46	4	2	46	1.36
3184150--3184205	17	3.1	17	84	7	58	44	1	3	50	1.29
3184398--3184549	53	2.8	56	82	8	181	53	1	6	37	1.38
3183850--3184992	2	578.0	2	64	22	264	45	4	4	45	1.44
3184614--3185082	22	22.4	21	70	21	174	40	7	1	50	1.38
3185814--3185892	22	3.6	22	79	6	90	18	21	24	35	1.96
3190446--3190516	22	3.2	22	83	0	97	18	25	25	30	1.98
3192639--3192725	32	2.7	31	83	11	106	14	29	31	24	1.95
3193538--3194244	2	356.5	2	64	23	189	41	6	3	48	1.44
3193491--3193836	8	48.1	7	70	23	112	40	5	2	52	1.36
3194680--3195402	6	121.5	6	96	3	1322	33	0	17	49	1.47
3195870--3195942	36	2.1	35	86	2	101	52	2	5	39	1.39
3196327--3196381	20	2.7	21	75	11	60	21	25	20	32	1.97
3196410--3196503	21	4.6	20	88	4	116	20	21	22	36	1.95
3196410--3196531	41	3.0	41	84	4	122	22	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196429--3196516	41	2.1	42	91	2	142	20	20	19	39	1.92
3196450--3196516	21	3.2	21	85	4	91	19	20	17	41	1.90
3196518--3196607	41	2.2	41	88	2	128	41	17	21	20	1.91
3196518--3196607	20	4.4	20	84	2	126	41	17	21	20	1.91
3197177--3197237	14	4.0	14	73	19	50	44	22	22	9	1.82
3197156--3197248	33	2.8	33	90	1	132	43	24	21	10	1.84
3197244--3197389	19	8.1	19	74	17	141	12	23	19	45	1.84
3197266--3197389	33	3.5	33	83	8	149	12	23	19	45	1.84
3197249--3197389	52	2.7	53	78	14	157	12	22	19	46	1.83
3199082--3199457	94	4.1	93	94	2	616	21	12	18	47	1.81

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