genome.fa.s9610.2.7.7.80.10.50.1000.16.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  16  of  18  ( 2160 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)
3257227--3257281	28	1.9	29	92	3	94	25	32	25	16	1.96
3257220--3257298	9	8.3	9	78	10	77	27	29	25	17	1.98
3258020--3258068	20	2.5	20	93	0	80	32	24	24	18	1.97
3258042--3258135	33	2.8	33	83	3	107	42	22	22	12	1.87
3258150--3258251	34	3.0	34	94	2	188	13	24	17	44	1.85
3260415--3260501	20	4.4	20	85	1	86	43	24	17	14	1.86
3260514--3260562	20	2.5	20	89	0	71	16	18	28	36	1.92
3261156--3261284	20	6.4	20	85	1	168	22	19	20	37	1.94
3261281--3261326	21	2.2	21	88	0	65	36	17	28	17	1.92
3261623--3261660	20	1.9	20	88	0	58	26	21	5	47	1.71
3261944--3262002	21	2.8	21	84	0	73	50	8	6	33	1.59
3265140--3265179	21	1.9	21	94	0	71	27	17	20	35	1.95
3265149--3265191	21	2.0	21	82	8	52	27	23	16	32	1.96
3268838--3268879	20	2.1	20	90	0	66	47	14	14	23	1.80
3268939--3269443	197	2.6	196	75	9	490	41	13	16	28	1.87
3271632--3271662	12	2.6	12	100	0	62	35	0	45	19	1.51
3272234--3272276	20	2.2	20	86	0	59	34	11	16	37	1.85
3282598--3282640	20	2.2	20	86	0	59	34	11	16	37	1.85
3285518--3285565	18	2.7	18	86	0	60	39	2	18	39	1.63
3286619--3286775	64	2.5	64	83	6	185	33	20	17	28	1.95
3287095--3287130	18	2.0	18	88	0	54	30	8	16	44	1.77
3288281--3288350	18	3.7	18	76	14	77	20	22	31	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291605--3291653	19	2.7	17	84	9	53	26	20	28	24	1.99
3291625--3291780	65	2.4	64	83	7	174	29	19	22	28	1.98
3292762--3292803	21	2.0	21	86	4	59	45	23	11	19	1.83
3293019--3293353	179	1.9	178	89	4	523	37	12	15	34	1.85
3293167--3293705	200	2.7	199	86	2	742	36	14	14	34	1.87
3294201--3294261	18	3.4	18	81	0	77	31	32	4	31	1.79
3295977--3296023	21	2.2	20	82	10	58	31	2	19	46	1.61
3295978--3296026	22	2.3	21	85	3	62	32	2	18	46	1.60
3296696--3296749	20	2.8	18	76	13	54	31	31	20	16	1.95
3297647--3297744	18	5.4	18	90	2	135	18	19	34	27	1.95
3299058--3299082	13	1.9	13	100	0	50	20	16	16	48	1.82
3299111--3299156	12	3.6	12	81	16	56	45	17	19	17	1.85
3299117--3299157	12	3.1	13	80	19	57	46	14	17	21	1.84
3301428--3301469	21	2.0	21	95	0	75	30	14	7	47	1.71
3301464--3301567	33	3.2	33	90	1	165	31	7	15	45	1.74
3301476--3301528	17	3.2	17	70	24	58	33	3	15	47	1.63
3303798--3303837	21	2.0	21	90	9	66	42	10	12	35	1.76
3303899--3304219	169	1.9	169	82	5	409	37	13	15	32	1.87
3304832--3304909	20	3.9	20	81	8	79	46	14	12	26	1.80
3304832--3304909	40	2.0	40	84	0	102	46	14	12	26	1.80
3305273--3305342	20	3.5	20	86	0	104	48	18	8	24	1.76
3304868--3305303	199	2.2	198	83	3	527	40	14	15	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3309139--3309299	64	2.5	63	84	7	182	34	18	20	26	1.95
3309891--3309953	23	2.7	23	87	4	83	20	25	26	26	1.99
3310959--3311021	23	2.7	22	85	9	81	22	25	25	26	2.00
3317843--3317905	23	2.7	23	90	4	92	22	22	26	28	1.99
3317833--3317910	23	3.3	23	82	5	86	25	17	23	33	1.96
3322661--3323264	225	2.7	226	85	2	835	32	14	13	39	1.85
3330061--3330107	18	2.6	18	80	6	51	40	2	2	55	1.24
3331838--3331878	18	2.3	18	91	4	66	29	4	2	63	1.28
3333916--3333941	3	8.7	3	100	0	52	34	30	34	0	1.58
3334077--3334149	26	3.0	24	69	27	64	27	6	4	61	1.40
3337727--3337849	50	2.4	50	80	6	124	22	28	32	16	1.96
3338039--3338081	22	2.0	22	86	9	61	30	4	4	60	1.37
3342438--3342467	2	15.0	2	100	0	60	50	0	0	50	1.00
3345177--3345222	21	2.1	21	84	4	56	34	2	17	45	1.61
3372493--3372640	61	2.5	61	78	11	180	45	5	16	32	1.70
3378411--3378443	17	1.9	17	100	0	66	30	21	18	30	1.97
3390232--3390303	35	2.1	35	97	2	137	45	5	9	38	1.60
3397637--3397691	10	5.7	10	77	16	62	69	5	3	21	1.25
3397637--3397692	27	2.1	26	83	9	76	69	5	3	21	1.24
3397818--3397847	14	2.1	14	93	0	51	63	0	0	36	0.95
3400268--3400295	2	14.0	2	100	0	56	50	0	0	50	1.00
3402365--3402392	3	9.3	3	100	0	56	0	35	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409756--3409819	23	2.8	23	76	9	60	53	0	3	43	1.16
3410841--3410903	24	2.6	24	78	14	58	49	3	0	47	1.17
3410888--3410962	23	3.0	23	73	19	71	48	1	1	49	1.18
3411034--3411102	19	3.6	19	69	21	54	50	1	2	44	1.25
3410997--3411082	27	3.1	27	71	18	70	47	1	2	48	1.22
3411181--3411251	33	2.3	29	84	15	90	50	2	0	46	1.16
3417209--3417250	21	1.9	21	85	9	57	47	0	2	50	1.14
3417498--3417551	3	18.0	3	100	0	108	66	0	0	33	0.92
3417788--3417928	66	2.1	65	80	11	153	49	9	9	30	1.69
3417940--3418057	63	1.9	64	85	3	168	55	5	9	30	1.53
3424589--3424616	2	14.0	2	100	0	56	50	0	0	50	1.00
3424843--3424897	13	4.2	13	76	17	60	72	0	1	25	0.94
3426123--3426173	20	2.3	21	87	12	68	11	21	33	33	1.90
3426200--3426249	3	17.0	3	91	4	84	66	0	0	34	0.92
3427018--3427114	42	2.3	41	87	1	131	30	22	23	22	1.99
3426798--3427644	265	3.2	264	87	3	1206	32	19	17	30	1.95
3428669--3428776	54	2.0	54	83	0	135	27	25	11	36	1.90
3430385--3430414	12	2.5	12	94	0	51	6	20	0	73	1.05
3430373--3430431	31	2.0	29	87	12	84	3	20	0	76	0.93
3430394--3430430	19	1.9	19	94	0	65	2	16	0	81	0.81
3430372--3430432	10	6.1	10	78	17	65	3	19	0	77	0.91
3443004--3443037	17	2.1	16	88	5	50	76	0	8	14	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447256--3447324	30	2.2	30	85	15	95	34	5	17	42	1.73
3447265--3447324	30	2.0	30	93	6	104	33	6	16	43	1.74
3447541--3447731	74	2.5	73	91	4	292	29	25	19	25	1.99
3447693--3447768	22	3.6	21	79	11	75	25	31	18	25	1.97
3447691--3447748	20	2.8	21	84	12	75	25	31	18	24	1.98
3448482--3448639	21	7.8	20	72	7	86	38	25	17	18	1.92
3448606--3448835	20	11.5	20	79	5	214	36	24	18	20	1.95
3449739--3449763	12	2.1	12	100	0	50	72	0	28	0	0.86
3452040--3452411	19	21.4	19	76	18	384	46	17	22	13	1.83
3452068--3452433	52	7.0	52	97	0	689	46	16	23	13	1.83
3452458--3452501	19	2.4	19	96	3	81	15	20	18	45	1.85
3452466--3452509	19	2.3	19	92	0	70	18	20	15	45	1.85
3452608--3452644	14	2.6	14	91	0	65	45	21	0	32	1.52
3454580--3454672	33	2.8	33	93	0	159	47	21	19	11	1.81
3454543--3454677	19	7.6	19	76	16	128	45	23	18	11	1.82
3454599--3454655	14	3.7	14	75	20	51	45	22	19	12	1.83
3454673--3454801	19	7.3	19	75	17	125	8	16	28	46	1.76
3454673--3454764	33	2.8	33	93	3	150	7	17	28	46	1.75
3454849--3455503	93	7.1	93	99	0	1294	45	19	12	21	1.83
3454849--3455503	278	2.4	279	99	0	1294	45	19	12	21	1.83
3457160--3457249	14	5.7	14	72	23	72	44	22	24	8	1.81
3457152--3457266	33	3.5	33	98	0	221	46	20	22	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3457174--3457271	19	5.7	19	70	22	90	44	21	22	11	1.83
3457267--3457325	19	3.4	19	66	22	56	8	15	28	47	1.74
3457267--3457341	33	2.3	33	95	0	132	8	17	26	48	1.75
3457323--3457400	41	1.9	41	94	0	138	12	26	15	44	1.82
3457324--3457399	21	3.7	21	80	3	100	11	26	15	46	1.81
3457479--3457549	33	2.2	33	92	0	115	47	18	22	11	1.80
3457731--3457785	22	2.5	22	78	0	65	20	16	38	25	1.92
3457932--3458086	20	7.7	20	84	4	195	22	19	25	32	1.97
3457934--3458125	40	4.8	40	82	3	199	20	18	24	35	1.95
3457934--3458105	20	8.6	20	82	5	177	21	18	25	34	1.96

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