genome.fa.s8717.2.7.7.80.10.50.1000.16.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  16  of  16  ( 1896 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)
3231160--3231201	22	1.9	22	90	9	68	7	14	16	61	1.53
3232149--3232191	19	2.3	19	100	0	86	30	11	25	32	1.91
3233937--3233972	2	18.0	2	100	0	72	50	0	0	50	1.00
3234098--3234593	119	4.2	118	80	4	516	26	18	16	39	1.91
3234098--3234593	237	2.1	237	86	1	681	26	18	16	39	1.91
3234192--3234593	118	3.4	115	80	5	389	26	17	16	39	1.90
3236816--3236872	26	2.1	28	90	6	91	22	14	7	56	1.62
3238817--3238869	23	2.3	23	90	0	88	30	26	20	22	1.98
3238855--3238911	21	2.7	21	84	15	82	29	31	17	21	1.96
3239457--3239601	54	2.7	54	88	3	202	28	22	18	30	1.97
3239571--3239622	20	2.6	20	84	6	70	25	28	17	28	1.97
3239611--3239666	22	2.5	22	88	0	76	37	19	14	28	1.91
3245778--3245874	23	4.2	23	97	0	176	29	23	24	21	1.99
3245741--3245874	46	3.0	46	88	6	177	29	23	23	23	1.99
3246447--3246570	54	2.3	54	84	6	155	29	20	20	29	1.98
3246566--3246610	20	2.2	20	84	7	56	28	26	15	28	1.96
3246661--3246701	22	1.9	21	85	5	55	26	21	24	26	2.00
3247977--3248018	20	2.1	20	86	8	59	35	11	21	30	1.90
3249447--3249557	32	3.5	31	78	9	116	17	25	28	28	1.97
3256357--3256396	14	2.7	15	84	7	55	65	5	17	12	1.44
3256942--3256981	20	2.0	20	100	0	80	30	5	10	55	1.54
3257398--3257423	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3263507--3263549	6	6.8	6	84	5	50	79	0	2	18	0.85
3263507--3263549	13	3.4	12	81	12	50	79	0	2	18	0.85
3263505--3263541	7	5.0	7	90	9	56	81	0	0	18	0.70
3263716--3264053	135	2.5	132	81	4	399	31	19	19	29	1.97
3263726--3264053	133	2.4	135	81	5	405	31	19	20	28	1.97
3264097--3264737	38	16.8	38	78	2	631	37	18	19	24	1.94
3264097--3264737	152	4.2	152	85	2	721	37	18	19	24	1.94
3265900--3266011	43	2.5	46	82	10	160	33	19	14	33	1.92
3273340--3273364	13	1.9	13	100	0	50	84	0	0	16	0.63
3275179--3275249	22	3.1	22	82	15	83	71	1	8	18	1.18
3275204--3275249	18	2.6	18	80	10	51	73	2	8	15	1.16
3277154--3277204	26	2.0	25	88	3	75	47	7	15	29	1.74
3277288--3277333	13	3.5	13	87	0	74	26	45	0	28	1.54
3284861--3284915	23	2.4	23	93	0	92	34	16	23	25	1.95
3291785--3291821	17	2.2	17	100	0	74	35	21	0	43	1.53
3298001--3298029	7	4.1	7	100	0	58	44	13	0	41	1.44
3300838--3302705	937	2.0	937	92	1	3116	32	19	19	28	1.96
3303451--3303481	15	2.0	16	93	6	55	45	6	0	48	1.28
3303835--3303863	14	2.1	14	100	0	58	44	13	6	34	1.71
3303858--3303909	24	2.2	24	86	6	70	51	17	11	19	1.75
3310075--3310124	22	2.3	20	80	12	55	36	32	0	32	1.58
3310423--3310491	22	3.1	23	75	21	67	75	2	18	2	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315663--3315703	22	1.9	21	90	5	64	36	36	0	26	1.57
3339968--3340301	168	2.0	166	98	1	650	23	23	21	30	1.99
3356598--3356640	18	2.4	18	88	0	59	39	13	16	30	1.87
3362228--3362261	17	2.1	17	88	5	52	64	20	0	14	1.28
3364393--3364426	13	2.6	13	90	0	50	23	0	38	38	1.55
3367086--3367171	13	7.2	12	72	22	58	29	3	37	30	1.74
3367068--3367172	36	2.9	36	95	1	185	28	4	36	30	1.78
3372792--3372877	13	7.2	12	72	22	58	29	3	37	30	1.74
3372774--3372878	36	2.9	36	95	1	185	28	4	36	30	1.78
3375613--3375660	23	2.1	23	92	3	80	8	12	4	75	1.18
3376016--3376049	13	2.6	13	90	0	50	23	0	38	38	1.55
3378567--3378623	25	2.3	25	93	0	96	28	15	24	31	1.96
3380289--3380335	21	2.2	20	85	7	58	31	25	23	19	1.98
3380558--3380613	25	2.2	25	90	0	85	21	17	44	16	1.86
3385781--3385878	40	2.5	39	88	6	144	30	25	20	23	1.98
3387895--3387936	17	2.3	18	88	8	59	33	26	7	33	1.83
3388891--3388916	13	2.0	13	100	0	52	38	7	7	46	1.61
3393490--3393541	19	2.5	21	75	12	54	23	5	0	71	1.07
3393980--3394111	46	2.9	46	82	0	156	30	22	17	29	1.97
3394002--3394124	46	2.7	45	81	7	131	27	22	20	29	1.98
3407676--3407753	41	1.9	41	84	5	104	24	12	12	50	1.76
3407916--3407960	2	22.5	2	100	0	90	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412515--3412578	24	2.7	24	85	0	92	26	17	12	43	1.84
3412562--3412628	12	5.6	12	71	7	55	16	13	19	50	1.77
3412562--3412633	24	3.0	24	83	0	90	16	12	19	51	1.76
3415384--3415415	16	2.0	16	93	0	55	40	12	12	34	1.81
3419613--3419651	10	3.7	10	83	10	51	2	15	0	82	0.79
3422671--3422716	21	2.2	21	100	0	92	39	10	21	28	1.87
3423222--3423251	16	1.9	16	93	6	53	46	20	6	26	1.75
3425290--3425331	21	2.0	21	85	0	57	42	11	16	28	1.84
3426576--3426629	15	3.3	15	76	18	63	53	7	3	35	1.47
3429768--3430181	39	10.8	38	81	10	429	42	7	4	45	1.53
3430660--3431132	200	2.4	201	80	5	553	27	19	21	31	1.97
3438697--3438762	9	7.3	9	78	11	64	81	0	1	16	0.76
3438692--3438760	5	13.8	5	84	15	74	81	0	1	17	0.77
3438692--3438762	22	3.5	21	80	17	80	81	0	1	16	0.76
3438689--3438762	27	2.7	26	88	12	105	81	0	1	17	0.77
3438906--3439008	46	2.3	45	83	8	120	41	6	0	50	1.35
3439039--3439104	27	2.4	27	87	2	87	42	7	3	46	1.47
3438838--3439091	37	6.4	39	77	14	218	42	7	1	47	1.43
3439052--3439106	27	2.0	27	92	0	92	43	7	3	45	1.49
3439057--3439118	27	2.3	26	81	8	72	41	8	3	46	1.49
3439015--3439145	64	2.0	64	85	2	172	43	8	3	45	1.49
3445889--3445922	17	1.9	18	88	5	52	29	2	0	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3446043--3446083	16	2.5	17	80	11	59	24	0	0	75	0.80
3446041--3446095	21	2.6	20	85	8	65	25	1	0	72	0.94
3446041--3446102	28	2.2	28	86	11	83	27	1	0	70	0.96
3446285--3446319	16	2.2	16	89	0	52	51	2	0	45	1.16
3447042--3447142	24	4.2	24	80	0	94	62	16	10	9	1.54
3447234--3447276	17	2.5	18	82	17	56	32	2	20	44	1.65
3448329--3448365	19	1.9	18	89	10	56	27	0	13	59	1.35
3450903--3450936	16	2.1	16	100	0	68	38	5	5	50	1.51

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

The End!