genome.fa.s7867.2.7.7.80.10.50.1000.17.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

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

This is table  17  of  18  ( 2128 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)
3162928--3162977	19	2.6	19	90	6	75	36	0	0	64	0.94
3164141--3164192	15	3.7	14	76	23	56	38	1	0	59	1.08
3164198--3164231	17	2.0	17	88	11	52	29	5	0	64	1.17
3164237--3164263	4	6.8	4	100	0	54	74	0	0	25	0.83
3164261--3164286	2	13.0	2	100	0	52	50	0	0	50	1.00
3165740--3165777	15	2.5	15	100	0	76	47	13	26	13	1.79
3171480--3171698	114	1.9	114	92	1	368	32	15	20	30	1.94
3173735--3173888	54	3.0	52	85	9	199	38	15	19	25	1.91
3173735--3173888	50	3.0	50	87	7	186	38	15	19	25	1.91
3174244--3174320	22	3.5	22	92	0	136	32	11	15	40	1.84
3175018--3175085	31	2.2	31	94	0	118	23	17	20	38	1.93
3175049--3175665	76	8.1	76	93	1	1020	24	19	21	34	1.96
3175819--3175884	3	21.3	3	87	6	96	36	0	0	63	0.95
3175819--3175884	31	2.1	31	94	0	114	36	0	0	63	0.95
3177092--3177172	15	5.7	14	70	22	62	35	2	1	60	1.18
3177176--3177200	4	6.2	4	100	0	50	76	0	0	24	0.80
3179067--3179109	21	2.0	21	86	9	59	55	11	2	30	1.48
3180580--3180644	3	22.3	3	87	12	100	63	0	0	36	0.95
3180580--3180644	14	4.7	14	90	9	107	63	0	0	36	0.95
3181677--3181701	11	2.3	11	100	0	50	32	20	24	24	1.98
3181916--3182431	162	3.1	162	87	5	663	40	13	18	27	1.88
3182078--3182495	182	2.3	181	90	1	656	40	13	18	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183718--3183794	38	2.0	38	100	0	154	46	7	5	40	1.55
3183728--3183789	19	3.3	19	64	8	54	50	8	3	38	1.48
3184412--3184467	24	2.5	23	77	11	62	44	0	5	50	1.25
3184849--3184889	21	2.0	21	90	0	64	43	12	29	14	1.82
3185498--3185727	115	2.0	115	100	0	460	31	10	20	37	1.87
3186773--3186821	19	2.6	19	93	6	82	34	2	8	55	1.41
3187129--3187167	15	2.6	15	91	0	60	41	25	10	23	1.86
3187288--3188144	199	4.3	199	80	8	931	37	14	17	31	1.89
3190974--3191021	24	2.0	24	83	0	60	31	4	10	54	1.53
3191841--3192003	21	7.6	21	79	2	137	33	23	19	22	1.97
3191838--3191926	23	4.0	23	81	7	94	32	26	20	20	1.97
3194074--3194112	16	2.3	17	86	8	53	48	0	17	33	1.48
3196274--3196641	181	2.0	181	98	1	711	35	14	18	30	1.91
3197472--3197511	17	2.4	17	86	0	53	32	15	12	40	1.84
3197523--3197580	30	1.9	31	85	3	82	36	13	8	41	1.76
3197568--3197609	18	2.3	18	95	0	75	33	7	9	50	1.62
3205041--3205118	27	2.9	27	83	5	88	20	16	8	53	1.69
3205066--3205110	13	3.4	13	77	17	56	17	22	11	48	1.78
3208944--3208990	9	5.3	9	89	5	69	85	0	14	0	0.61
3208940--3209001	18	3.6	18	87	10	85	80	1	17	0	0.79
3208950--3209000	17	2.7	18	85	14	68	86	1	11	0	0.66
3208944--3208990	8	5.6	8	87	9	67	85	0	14	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3210013--3210096	32	2.6	32	92	0	132	29	15	21	33	1.94
3210443--3210983	128	4.2	128	77	7	486	26	26	19	28	1.98
3213533--3213571	16	2.4	17	86	4	53	25	5	7	61	1.44
3215670--3215706	19	1.9	19	88	0	56	45	21	29	2	1.65
3215746--3215781	17	2.1	17	89	0	54	19	2	27	50	1.62
3216297--3216368	31	2.4	29	82	11	83	56	1	5	36	1.31
3216349--3216393	21	2.2	21	88	4	65	64	0	2	33	1.06
3216321--3216386	29	2.2	29	80	15	73	63	1	3	31	1.19
3220609--3220681	32	2.4	30	90	6	119	26	21	21	30	1.99
3220610--3220698	32	2.8	32	85	6	94	28	20	21	30	1.98
3221048--3221101	23	2.3	23	96	0	99	35	1	18	44	1.61
3226606--3226646	15	2.7	15	96	0	73	43	7	19	29	1.78
3229235--3229923	225	3.1	223	80	4	679	32	19	18	30	1.96
3229345--3230017	225	3.0	220	77	7	631	32	18	18	30	1.96
3230905--3231067	3	52.0	3	65	17	55	36	8	1	53	1.39
3230888--3230926	13	3.2	12	86	13	53	25	2	0	71	0.98
3230949--3231048	43	2.3	43	77	14	109	38	7	1	54	1.35
3231003--3231059	23	2.3	25	85	8	73	36	7	0	56	1.27
3231026--3231069	19	2.3	19	84	7	54	31	9	2	56	1.43
3233351--3233380	16	1.9	15	93	6	51	46	3	0	50	1.18
3233822--3233996	39	4.5	39	86	0	242	30	28	17	24	1.97
3234212--3234313	34	2.8	37	86	10	158	43	13	14	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3234209--3234347	37	3.8	37	81	9	160	41	12	14	30	1.83
3234704--3234746	18	2.5	17	85	7	61	25	4	2	67	1.22
3237698--3237736	8	5.0	8	84	6	53	10	17	12	58	1.61
3238863--3238892	10	3.0	10	95	0	51	83	10	6	0	0.81
3238842--3238927	33	2.6	32	80	15	86	77	5	16	0	0.95
3238846--3238927	17	4.9	17	76	18	59	78	6	15	0	0.95
3239578--3239632	22	2.5	22	100	0	110	36	27	12	23	1.91
3240035--3240070	18	2.0	18	88	0	54	19	8	30	41	1.81
3240492--3240612	36	3.3	36	91	2	197	25	20	12	41	1.87
3240433--3240817	138	2.8	138	83	1	450	29	19	11	38	1.88
3240534--3240718	102	1.8	102	88	2	282	29	17	13	40	1.88
3240636--3240754	36	3.3	36	83	2	157	27	20	14	37	1.91
3240710--3240888	65	2.7	65	84	4	223	34	20	8	36	1.84
3241489--3241945	105	4.3	107	87	3	579	34	25	18	22	1.96
3242492--3242593	34	2.8	37	89	10	167	43	14	14	27	1.85
3242984--3243026	18	2.5	17	81	7	52	25	2	2	69	1.12
3243196--3243306	57	2.0	55	84	10	145	31	2	1	63	1.18
3243265--3243306	21	2.0	20	86	4	57	30	0	0	69	0.89
3243282--3243329	17	2.8	17	75	15	53	22	4	0	72	1.01
3248563--3248599	12	2.9	13	88	8	58	67	0	2	29	1.04
3248564--3248591	6	4.7	6	100	0	56	71	0	0	28	0.86
3254162--3254200	20	2.0	20	84	0	51	33	15	35	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254646--3254844	55	3.6	55	88	4	285	36	11	17	34	1.86
3259148--3259194	17	2.8	17	84	15	62	63	2	0	34	1.06
3262794--3262847	24	2.2	24	93	0	90	24	18	16	40	1.90
3265045--3265079	18	1.9	18	94	0	61	54	25	2	17	1.57
3265139--3265404	140	1.9	140	96	0	496	29	12	15	42	1.84
3265379--3265617	20	12.9	20	72	15	190	34	21	17	25	1.96
3265383--3265456	34	2.2	34	87	0	112	36	21	16	25	1.94
3265379--3265523	54	2.7	54	89	0	227	35	22	17	24	1.95
3265424--3265666	74	3.3	74	86	1	319	34	22	18	23	1.96
3265495--3265597	54	1.9	54	83	0	134	34	21	18	25	1.96
3265660--3265698	20	2.0	20	94	0	69	7	20	23	48	1.75
3267847--3267913	20	3.5	18	78	11	71	35	23	19	20	1.95
3267858--3267913	20	2.8	20	83	0	76	35	21	19	23	1.96
3268032--3268081	18	2.8	18	96	0	91	40	6	20	34	1.77
3269809--3269895	20	4.4	20	86	4	115	49	22	16	11	1.77
3270268--3270318	22	2.3	22	89	0	84	19	9	43	27	1.82
3270484--3270757	20	13.6	20	75	8	225	29	20	23	27	1.99
3270486--3270702	98	2.2	99	94	2	400	26	20	23	29	1.99
3270691--3270743	21	2.5	22	71	6	54	39	18	22	18	1.92
3277451--3277511	31	2.0	31	100	0	122	26	26	27	19	1.99
3292565--3292690	60	2.1	60	84	0	162	34	20	3	41	1.71
3294374--3294430	28	2.0	28	96	0	105	38	12	14	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3295910--3295961	21	2.4	21	75	15	52	57	5	3	32	1.40
3296200--3296255	20	2.8	19	79	17	60	58	3	0	37	1.15
3299512--3299570	14	3.9	15	74	20	52	76	5	1	16	1.05
3300811--3300849	3	13.0	3	100	0	78	66	0	0	33	0.92
3300848--3300899	25	2.2	24	78	18	56	57	1	1	38	1.21
3300865--3300962	39	2.6	37	78	15	112	48	5	1	44	1.31
3301171--3301213	18	2.4	18	76	0	50	23	9	4	62	1.44
3301299--3301346	16	2.9	17	87	9	64	18	8	0	72	1.08
3304542--3304816	137	2.0	137	97	1	525	25	28	18	27	1.98
3308458--3309067	112	5.4	112	85	1	641	32	24	14	28	1.95

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