genome.fa.s7916.2.7.7.80.10.50.1000.14.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: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3725575

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

This is table  14  of  16  ( 1895 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)
3067021--3067046	2	13.0	2	100	0	52	50	0	0	50	1.00
3072975--3073036	28	2.2	29	85	2	81	32	24	20	22	1.98
3073778--3073811	16	2.1	16	88	0	50	32	8	23	35	1.86
3074562--3074593	15	2.1	16	94	5	57	50	18	25	6	1.70
3078769--3078800	2	16.0	2	100	0	64	50	0	0	50	1.00
3086016--3086097	42	2.0	42	95	0	146	31	8	31	28	1.87
3091553--3091684	63	2.0	68	85	7	184	31	16	12	39	1.85
3094636--3094758	21	6.0	21	88	5	189	1	40	13	43	1.54
3094636--3094758	39	3.1	38	89	5	174	1	40	13	43	1.54
3095569--3095620	23	2.2	24	86	10	81	28	23	13	34	1.92
3099659--3099689	10	3.1	10	90	0	53	51	0	16	32	1.44
3104707--3104776	35	2.0	35	94	0	122	20	22	18	38	1.93
3112151--3112274	60	2.1	60	86	3	169	29	13	16	40	1.87
3119390--3119476	35	2.5	34	80	12	97	55	10	8	26	1.61
3121742--3121787	18	2.6	17	86	10	65	60	2	4	32	1.28
3122950--3123165	40	5.4	41	80	11	243	39	23	15	21	1.91
3122950--3123126	80	2.2	80	96	1	327	40	23	16	20	1.91
3122950--3123163	20	10.7	20	73	15	158	40	23	15	21	1.91
3123315--3123353	16	2.5	15	84	8	51	30	5	0	64	1.15
3123905--3123932	12	2.3	12	100	0	56	53	32	0	14	1.41
3124058--3124111	24	2.2	24	90	0	81	22	18	18	40	1.91
3126377--3126412	18	2.0	18	94	0	63	58	19	5	16	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3126783--3126838	20	2.8	20	83	0	76	17	14	26	41	1.88
3128406--3128504	21	4.7	21	74	10	87	21	18	36	24	1.95
3128406--3128504	42	2.4	42	76	10	112	21	18	36	24	1.95
3128456--3128511	21	2.7	21	78	10	69	25	14	35	25	1.93
3130509--3130631	20	6.2	20	91	0	194	49	20	17	12	1.78
3131128--3131377	20	12.4	20	78	9	240	20	16	21	41	1.90
3131128--3131376	80	3.1	79	85	5	304	20	16	21	41	1.90
3131131--3131388	101	2.6	101	79	10	285	20	15	22	41	1.90
3131128--3131409	20	14.0	21	75	11	211	21	15	21	40	1.91
3131128--3131409	60	4.7	60	76	10	247	21	15	21	40	1.91
3131176--3131453	141	2.0	140	84	3	362	21	15	24	38	1.92
3133368--3133549	71	2.5	72	85	3	251	30	7	14	47	1.71
3138946--3139053	54	2.0	54	100	0	216	46	7	14	31	1.73
3139885--3140016	20	6.6	20	72	11	74	37	27	15	20	1.92
3140018--3140071	20	2.7	20	91	0	90	46	9	16	27	1.78
3139930--3140077	20	7.4	20	74	10	81	43	18	16	20	1.88
3140447--3140518	20	3.5	20	84	5	92	18	18	15	48	1.81
3140448--3140518	21	3.5	20	81	12	83	18	18	14	49	1.80
3140687--3140765	21	3.8	20	85	3	104	18	20	15	45	1.85
3144184--3144234	4	12.8	4	100	0	102	50	23	0	25	1.49
3152791--3153013	105	2.1	105	79	2	232	22	15	21	39	1.92
3155307--3155365	21	2.8	21	78	0	64	25	15	18	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155300--3155395	42	2.3	42	81	0	111	22	14	19	42	1.88
3158146--3158214	16	3.7	18	75	21	61	44	1	1	52	1.19
3158148--3158202	20	2.8	20	86	8	69	43	1	1	52	1.22
3160591--3160667	37	2.1	37	83	9	95	45	3	3	46	1.39
3160813--3160850	20	1.9	20	88	0	58	21	26	10	42	1.85
3163165--3163202	6	6.3	6	100	0	76	52	0	15	31	1.43
3168936--3168972	15	2.5	15	95	0	65	62	5	0	32	1.18
3172805--3172897	29	3.1	29	64	10	71	44	5	21	29	1.74
3172803--3172982	60	3.0	61	79	11	201	43	5	22	29	1.74
3176073--3176113	18	2.3	18	95	0	73	24	19	26	29	1.98
3176222--3176279	24	2.6	23	82	12	77	24	24	18	32	1.97
3181753--3181885	66	2.0	66	100	0	266	26	12	24	37	1.90
3183567--3183607	7	5.9	7	94	0	73	14	29	26	29	1.95
3190463--3190587	62	2.0	63	96	3	236	11	26	34	28	1.90
3190741--3190806	10	6.8	9	75	16	60	18	27	25	28	1.98
3190741--3190799	20	2.9	21	85	7	86	18	27	23	30	1.98
3190742--3190806	30	2.2	29	86	13	89	16	27	26	29	1.97
3190819--3190856	7	5.4	7	87	0	58	18	28	23	28	1.98
3191806--3191907	52	2.0	49	94	5	177	28	8	15	47	1.76
3192056--3192211	75	2.0	78	95	4	282	32	5	16	46	1.68
3192902--3192949	25	1.9	25	87	8	71	25	6	2	66	1.26
3198775--3198834	31	1.9	31	93	0	102	28	11	13	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3203352--3203411	10	5.8	10	74	18	52	53	5	0	41	1.23
3203372--3203412	18	2.3	18	100	0	82	56	0	0	43	0.99
3205193--3205310	6	19.7	6	100	0	236	33	16	0	49	1.47
3205380--3205410	6	5.2	6	100	0	62	51	16	0	32	1.44
3206508--3206543	18	2.0	18	88	0	54	61	0	11	27	1.30
3208250--3208279	4	7.5	4	100	0	60	73	0	26	0	0.84
3210395--3210447	20	2.5	22	82	14	67	49	0	1	49	1.12
3211858--3211914	31	1.9	30	89	7	89	59	10	8	21	1.57
3215801--3215857	19	3.5	15	76	23	53	26	3	1	68	1.15
3217087--3217129	2	21.5	2	100	0	86	48	0	0	51	1.00
3223360--3223407	16	2.9	16	79	17	53	35	6	29	29	1.82
3230247--3230504	131	2.0	131	79	3	286	44	11	16	27	1.82
3233461--3233596	60	2.3	60	93	0	236	29	19	10	41	1.84
3233502--3233595	29	3.2	29	63	21	68	32	17	9	40	1.81
3234076--3234107	2	16.0	2	100	0	64	50	0	0	50	1.00
3234431--3234475	20	2.2	21	84	11	58	62	0	4	33	1.15
3235560--3235601	15	2.7	15	79	17	50	50	0	4	45	1.23
3237347--3237389	3	14.3	3	95	0	77	69	0	30	0	0.88
3237625--3237665	15	2.7	15	84	0	55	9	24	24	41	1.85
3242955--3243021	32	2.1	32	100	0	134	34	22	20	22	1.97
3246206--3246238	15	2.2	15	94	0	57	15	69	9	6	1.34
3251928--3251979	25	2.1	25	85	7	70	3	11	48	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257375--3257406	2	16.0	2	100	0	64	50	0	0	50	1.00
3264262--3264287	2	13.0	2	100	0	52	50	0	0	50	1.00
3264829--3264866	19	2.0	19	89	0	58	55	18	13	13	1.69
3268953--3269229	30	9.2	30	98	0	536	23	19	23	32	1.98
3272561--3272603	21	2.0	21	81	0	50	27	27	25	18	1.98
3273513--3273909	4	99.2	4	99	0	776	25	0	24	49	1.54
3274083--3274178	31	3.1	30	71	12	79	27	19	20	32	1.97
3274161--3274442	30	9.4	30	96	0	521	23	20	23	31	1.98
3277776--3277818	21	2.0	21	81	0	50	27	27	25	18	1.98
3278998--3279310	30	10.4	30	99	0	608	23	20	23	32	1.98
3282545--3282614	31	2.2	31	97	2	131	35	1	24	38	1.64
3285300--3285375	36	2.1	36	97	0	143	43	14	10	31	1.79
3289781--3289819	3	12.7	3	89	5	60	61	0	2	35	1.10
3307359--3307391	15	2.2	15	94	0	57	9	69	15	6	1.34
3310574--3310648	31	2.4	31	86	0	114	33	14	25	26	1.94
3310844--3310894	26	2.0	26	96	0	93	39	15	7	37	1.77
3313151--3313303	29	5.1	29	62	12	76	32	21	7	37	1.82
3313134--3313305	60	2.9	60	87	5	249	33	22	6	36	1.81
3313178--3313276	31	3.3	31	63	16	80	32	24	7	36	1.82
3313789--3313847	25	2.3	25	82	8	66	49	13	6	30	1.68
3314308--3314389	31	2.7	30	75	7	85	31	32	23	12	1.91
3317051--3317104	27	2.0	27	100	0	108	29	11	25	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3317680--3317793	60	1.9	60	85	7	160	32	9	16	41	1.81
3317896--3317952	28	2.0	28	89	0	87	24	15	28	31	1.96
3318458--3318489	2	16.0	2	100	0	64	50	0	0	50	1.00
3326959--3326988	5	6.0	5	100	0	60	20	20	40	20	1.92
3328090--3328149	24	2.5	23	86	5	75	63	1	5	30	1.25
3332302--3332374	28	2.6	28	100	0	146	24	12	43	19	1.85
3333164--3333603	53	8.2	53	80	8	378	27	26	14	31	1.95
3333164--3333603	108	4.1	107	78	8	409	27	26	14	31	1.95
3333169--3333479	161	1.9	161	88	4	466	28	27	13	30	1.94
3333467--3334023	51	10.8	50	76	11	262	24	25	18	32	1.97

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