genome.fa.s9014.2.7.7.80.10.50.1000.13.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

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

This is table  13  of  13  ( 1552 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)
3207605--3207638	2	17.0	2	100	0	68	50	0	0	50	1.00
3214834--3214876	21	2.0	22	81	4	52	25	0	20	53	1.46
3231442--3231491	14	3.5	14	83	5	64	26	14	30	30	1.94
3249635--3249666	13	2.5	13	95	5	57	34	0	0	65	0.93
3250293--3250356	31	2.1	31	93	0	110	42	6	12	39	1.68
3250420--3250471	22	2.2	25	86	10	74	59	1	0	38	1.08
3252883--3252953	18	3.8	18	81	7	97	29	32	18	19	1.96
3252880--3252962	38	2.2	38	89	4	132	28	31	16	22	1.96
3258840--3258912	18	3.9	18	76	13	85	30	30	21	17	1.97
3259016--3259070	21	2.7	20	80	11	58	38	18	1	41	1.61
3268724--3268748	13	1.9	13	100	0	50	16	40	24	20	1.91
3275934--3275987	13	4.4	13	72	13	51	18	44	20	16	1.87
3275930--3275980	23	2.2	23	92	0	84	19	47	19	13	1.83
3275989--3276047	29	2.0	29	96	0	109	27	6	27	38	1.81
3276062--3276121	26	2.3	27	80	8	63	45	1	8	45	1.43
3276080--3276154	29	2.8	25	79	18	87	34	0	16	49	1.46
3276095--3276167	29	2.5	29	86	0	101	31	0	16	52	1.44
3277952--3278187	129	1.8	127	87	3	348	33	18	17	30	1.94
3279285--3279409	35	3.7	34	74	18	91	72	0	21	5	1.04
3279310--3279394	12	6.6	12	77	13	64	77	0	17	4	0.93
3279306--3279459	42	3.7	44	74	17	134	74	0	20	4	0.99
3279331--3279425	30	3.1	30	78	15	106	74	0	22	3	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279299--3279457	61	2.5	61	83	7	203	73	0	22	4	1.00
3279413--3279465	16	3.4	15	77	15	54	75	0	16	7	1.02
3279413--3279481	30	2.3	29	82	9	77	72	1	15	10	1.18
3280506--3280638	44	3.0	44	83	1	158	33	14	23	29	1.94
3282268--3282302	17	2.1	17	94	0	61	31	11	8	48	1.69
3282565--3282672	42	2.6	42	80	4	121	26	23	23	26	2.00
3283013--3283662	268	2.4	266	78	6	695	33	20	15	31	1.93
3283011--3283662	134	4.9	134	79	4	620	32	20	15	31	1.93
3283415--3283844	228	1.9	227	83	1	556	32	21	15	30	1.95
3292592--3292637	2	23.0	2	91	8	76	50	2	0	47	1.13
3293914--3293959	2	23.5	2	95	4	85	50	0	0	50	1.00
3294250--3294281	15	2.2	14	94	5	55	31	3	0	65	1.08
3296246--3296377	64	2.0	65	91	4	214	59	4	2	33	1.30
3296750--3296786	2	18.5	2	100	0	74	51	0	0	48	1.00
3297496--3297595	36	3.0	33	68	15	96	30	4	16	50	1.63
3297496--3297624	68	1.9	67	98	1	249	28	3	15	51	1.61
3299515--3299554	2	20.0	2	100	0	80	50	0	0	50	1.00
3301650--3301909	43	6.4	43	71	22	195	35	12	25	27	1.92
3301723--3301942	45	5.2	44	73	16	169	36	12	22	28	1.90
3301768--3301832	34	1.9	34	83	0	85	35	12	23	29	1.91
3301559--3301839	79	3.6	79	90	1	449	35	12	24	27	1.91
3301559--3301870	156	2.0	155	88	3	466	35	12	24	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3309830--3309861	5	6.6	5	92	7	57	81	0	0	18	0.70
3309831--3309861	14	2.2	14	100	0	62	80	0	0	19	0.71
3344421--3344585	83	2.0	84	92	1	278	32	15	13	37	1.87
3344778--3344818	21	1.9	22	85	5	57	73	0	0	26	0.84
3345496--3345544	20	2.5	20	86	0	62	30	22	18	28	1.97
3360784--3360831	20	2.4	20	85	0	60	31	6	18	43	1.75
3363822--3363944	63	2.0	63	100	0	246	25	21	25	27	2.00
3367330--3367382	20	2.7	20	93	0	88	24	28	20	26	1.99
3367934--3367979	20	2.4	19	85	7	65	47	26	15	10	1.78
3367975--3368144	19	9.1	19	84	8	215	12	21	20	44	1.85
3367975--3368144	39	4.6	38	82	9	215	12	21	20	44	1.85
3367975--3368144	72	2.3	75	85	8	215	12	21	20	44	1.85
3370144--3370266	42	2.9	42	80	2	122	22	36	17	22	1.95
3370200--3370266	21	3.2	21	66	6	55	23	35	20	19	1.95
3371629--3371664	14	2.6	14	95	0	63	30	0	25	44	1.54
3371827--3371953	33	3.9	32	85	8	184	15	22	18	42	1.89
3371820--3371950	66	2.0	66	96	0	244	16	22	18	41	1.89
3375890--3375924	16	2.2	16	89	0	52	68	0	8	22	1.16
3377279--3377335	27	2.2	26	87	6	80	19	3	1	75	1.04
3378427--3378464	16	2.4	17	82	8	53	31	2	0	65	1.06
3394523--3394726	22	9.0	21	74	16	160	43	2	11	42	1.55
3394547--3394796	47	5.3	46	74	15	201	43	2	10	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3394755--3394808	26	2.1	25	83	10	65	44	0	7	48	1.31
3394817--3394845	3	9.7	3	100	0	58	31	0	0	68	0.89
3396060--3396099	18	2.2	18	86	8	55	20	2	0	77	0.88
3398360--3398404	22	2.0	23	86	4	65	22	20	22	35	1.96
3398361--3398411	23	2.2	23	82	6	59	25	19	21	33	1.97
3402354--3402414	22	2.8	22	73	14	54	50	6	0	42	1.28
3402364--3402499	73	1.9	73	83	8	181	48	3	2	45	1.32
3402417--3402455	17	2.2	17	86	13	53	43	0	5	51	1.24
3409425--3409521	12	8.6	11	71	14	65	48	0	4	47	1.21
3409417--3409468	26	2.0	27	85	11	72	44	0	5	50	1.26
3409450--3409529	2	43.0	2	74	18	66	48	0	2	48	1.14
3409429--3409529	14	6.3	17	69	25	60	46	0	3	49	1.20
3409493--3409533	17	2.4	18	76	15	52	41	0	0	58	0.98
3414246--3414374	59	2.2	59	82	0	159	28	24	17	29	1.97
3418044--3418111	23	3.0	22	80	4	73	22	22	20	35	1.96
3422495--3422921	73	5.9	70	77	9	374	27	20	11	41	1.86
3422504--3422933	145	3.0	141	77	8	429	27	20	10	41	1.85
3423767--3423810	3	14.3	3	90	4	70	34	0	2	63	1.07
3423927--3423956	14	2.1	14	93	0	51	36	3	0	60	1.14
3423929--3423978	3	17.7	3	76	19	54	32	4	0	64	1.12
3423922--3423975	20	2.8	19	86	5	72	35	3	0	61	1.14
3426281--3426319	5	7.8	5	83	11	53	58	0	5	35	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428696--3428728	17	2.0	17	88	5	50	9	24	0	66	1.20
3429740--3429776	20	1.9	19	89	10	58	45	5	24	24	1.74
3431395--3431488	36	2.6	36	91	6	163	35	12	12	39	1.82
3433313--3433359	23	2.1	21	88	7	67	78	2	2	17	0.94
3433323--3433367	23	2.0	23	82	8	56	75	4	2	17	1.07
3433318--3433373	29	1.9	28	86	13	78	76	3	1	17	1.01
3433398--3433480	2	45.0	2	79	15	90	51	1	1	45	1.16
3436610--3436643	2	17.0	2	100	0	68	50	0	0	50	1.00
3447917--3447993	20	3.8	20	94	0	127	29	20	15	33	1.94
3455030--3455128	5	19.8	5	95	0	135	21	12	20	46	1.82
3457443--3457490	18	2.7	18	93	0	78	4	43	4	47	1.41
3458725--3458761	3	13.0	3	83	11	51	32	0	0	67	0.91
3458725--3458761	17	2.2	17	95	0	65	32	0	0	67	0.91
3458725--3458766	14	3.1	14	86	10	52	35	0	0	64	0.94
3460076--3460149	2	37.0	2	100	0	148	50	0	0	50	1.00
3460182--3460364	91	2.0	91	82	8	221	43	8	7	40	1.63
3462308--3462391	43	2.0	43	88	4	125	28	7	23	40	1.81
3462547--3462585	19	2.0	19	90	5	60	33	17	0	48	1.48
3462557--3462585	13	2.3	13	94	5	51	31	13	0	55	1.39
3465363--3465419	9	6.6	9	84	8	64	84	0	15	0	0.63
3465365--3465419	17	3.3	16	84	5	74	83	0	16	0	0.64
3465361--3465398	20	1.9	20	89	10	60	84	0	15	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3465363--3465411	24	2.0	24	92	8	80	85	0	14	0	0.59
3465363--3465419	25	2.2	25	90	3	87	84	0	15	0	0.63

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

The End!