genome.fa.s8082.2.7.7.80.10.50.1000.17.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  17  of  28  ( 3312 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)
3279807--3279843	17	2.2	17	90	0	56	56	0	5	37	1.22
3279864--3279918	19	2.8	19	83	2	65	56	5	1	36	1.33
3284046--3284114	25	2.8	25	76	12	79	36	18	11	33	1.87
3284579--3284641	11	5.9	11	71	14	51	58	1	1	38	1.17
3284752--3284824	21	3.5	20	77	5	67	50	27	1	20	1.56
3287258--3287314	12	4.8	12	78	4	71	36	24	19	19	1.94
3287251--3287299	23	2.1	23	96	0	89	34	22	24	18	1.96
3289419--3289464	14	3.3	14	90	0	74	6	19	4	69	1.28
3290657--3290701	21	2.1	21	83	0	54	37	20	15	26	1.92
3292607--3292639	9	3.8	9	96	4	59	45	0	0	54	0.99
3293044--3293073	4	7.8	4	92	7	53	73	0	0	26	0.84
3293057--3293121	27	2.3	30	75	20	77	58	1	0	40	1.07
3293215--3293240	7	3.7	7	100	0	52	57	0	0	42	0.98
3294614--3294717	31	3.3	31	91	2	172	41	15	18	25	1.89
3300347--3300393	20	2.3	20	96	0	85	27	12	12	46	1.78
3301247--3301470	122	1.9	120	91	3	369	48	9	9	32	1.68
3301538--3301570	16	2.1	16	94	0	57	54	24	12	9	1.66
3301635--3301718	23	3.6	23	86	1	114	59	20	10	9	1.58
3301642--3301734	23	4.0	23	85	4	98	59	23	10	6	1.54
3301982--3302036	24	2.2	25	93	6	94	54	14	12	18	1.71
3301983--3302037	14	4.1	14	77	22	64	54	14	14	16	1.71
3306559--3306603	18	2.4	19	85	10	58	20	4	0	75	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3313091--3313228	27	5.1	27	81	3	125	60	2	21	15	1.45
3313108--3313228	54	2.2	54	80	2	154	60	2	21	15	1.47
3328647--3328761	39	2.9	39	85	0	140	37	13	29	20	1.90
3330428--3330748	116	2.8	115	84	4	367	37	17	22	23	1.94
3330884--3331065	36	5.1	36	80	5	190	29	14	9	46	1.76
3330897--3331063	73	2.3	73	81	5	180	29	14	10	45	1.78
3333692--3333739	21	2.3	21	96	0	87	29	31	10	29	1.90
3335663--3335785	60	2.0	60	100	0	246	41	18	8	31	1.80
3350207--3350250	19	2.4	18	85	7	61	54	2	2	40	1.25
3351604--3351646	2	21.5	2	100	0	86	48	0	0	51	1.00
3352298--3352355	25	2.3	25	96	0	107	22	18	15	43	1.88
3352802--3352838	19	2.1	19	90	10	60	48	0	0	51	1.00
3359500--3359577	24	3.2	24	74	3	68	23	10	17	48	1.78
3362704--3362935	30	7.6	29	70	16	139	55	0	5	39	1.22
3362704--3362785	29	2.8	29	86	1	110	54	0	7	37	1.28
3362704--3362806	29	3.5	29	79	11	104	56	0	5	37	1.24
3362794--3362845	25	2.1	24	82	7	59	57	0	1	40	1.10
3363562--3363610	2	24.5	2	100	0	98	51	0	0	48	1.00
3364344--3364640	138	2.1	139	80	10	338	43	4	2	49	1.34
3364530--3364585	21	2.6	21	72	13	51	44	1	0	53	1.11
3371664--3371716	23	2.3	23	90	0	88	30	26	20	22	1.98
3371702--3371759	21	2.8	22	84	10	77	34	29	15	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3372300--3372351	19	2.5	20	75	12	52	26	26	15	30	1.96
3372402--3372503	42	2.4	42	90	0	159	30	33	9	26	1.89
3372431--3372498	22	3.2	22	68	16	70	29	30	10	29	1.90
3376345--3376377	13	2.5	13	100	0	66	21	27	27	24	1.99
3378543--3378592	21	2.4	21	96	0	91	46	30	6	18	1.73
3379238--3379336	42	2.4	42	91	0	162	29	30	12	28	1.93
3379258--3379331	22	3.5	22	69	14	64	28	27	13	31	1.94
3385908--3387038	45	25.7	45	77	8	618	26	17	16	39	1.90
3385918--3386547	128	4.8	126	80	9	470	26	18	16	38	1.92
3385918--3386630	86	8.2	87	75	10	414	27	17	16	38	1.91
3386574--3387043	179	2.6	177	80	5	518	25	15	17	40	1.89
3386381--3387054	134	5.0	133	79	6	564	25	15	17	41	1.88
3387034--3387071	17	2.2	17	95	0	67	7	7	18	65	1.43
3388225--3388278	2	28.5	2	83	10	69	50	1	0	48	1.11
3388906--3388938	2	16.5	2	100	0	66	51	0	48	0	1.00
3390489--3390521	17	1.9	17	93	0	57	36	12	15	36	1.84
3392842--3392923	41	2.0	41	100	0	164	21	34	17	26	1.95
3397871--3397922	14	3.7	14	78	0	50	17	11	13	57	1.64
3398129--3398178	3	16.7	3	100	0	100	68	0	0	32	0.90
3406561--3406592	3	10.7	3	100	0	64	68	0	0	31	0.90
3408283--3408309	13	2.1	13	100	0	54	48	0	0	51	1.00
3409133--3409194	18	3.5	18	69	10	56	30	0	4	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411067--3411129	3	21.0	3	90	0	90	33	0	33	33	1.58
3411315--3411388	25	3.0	24	74	7	76	18	1	8	71	1.18
3419662--3419779	45	2.6	45	85	7	159	39	9	20	30	1.84
3422473--3422535	32	2.0	31	93	3	108	19	14	9	57	1.64
3424460--3424744	142	2.0	142	99	0	561	37	21	12	28	1.90
3424900--3425234	85	4.0	85	79	4	329	33	19	19	27	1.96
3427292--3427328	14	2.6	15	87	8	51	21	2	0	75	0.92
3436815--3437106	66	4.4	66	87	0	368	26	15	24	33	1.95
3436793--3437106	132	2.4	133	85	0	414	27	14	23	34	1.94
3437252--3437285	17	1.9	18	94	5	61	55	17	5	20	1.62
3438960--3438999	17	2.4	17	86	0	53	27	5	7	60	1.45
3438968--3439001	17	2.0	17	94	0	59	29	0	8	61	1.26
3442651--3442692	13	3.2	13	82	0	57	19	42	19	19	1.89
3444999--3445110	24	4.7	24	87	4	154	24	15	20	40	1.91
3452470--3452523	19	2.8	19	100	0	108	29	33	16	20	1.95
3453432--3453476	22	2.0	22	95	0	81	26	22	24	26	2.00
3457624--3457706	13	6.8	12	71	14	62	79	2	15	2	0.94
3457630--3457706	6	12.2	6	74	20	68	79	2	15	2	0.96
3457625--3457706	18	4.4	18	77	15	87	79	2	15	2	0.95
3457630--3457706	7	11.0	7	75	18	63	79	2	15	2	0.96
3463229--3463288	22	2.7	22	84	5	77	26	20	23	30	1.98
3475482--3475567	45	1.9	45	80	0	100	37	15	29	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3476836--3477367	134	4.0	132	83	4	629	32	18	18	30	1.95
3476838--3477367	269	2.0	268	85	3	717	32	18	18	30	1.95
3477799--3477830	2	16.0	2	100	0	64	50	0	0	50	1.00
3479048--3479094	21	2.3	20	92	7	78	14	21	29	34	1.93
3479049--3479094	10	4.6	10	89	10	76	13	21	30	34	1.91
3479099--3479168	35	1.9	36	85	5	97	20	50	18	11	1.77
3479112--3479168	18	3.2	17	87	7	87	19	47	21	12	1.81
3479198--3479265	29	2.3	29	84	0	91	29	5	25	39	1.79
3479967--3480035	24	2.9	24	77	0	75	24	13	18	43	1.86
3486289--3486330	17	2.4	18	96	4	77	16	50	23	9	1.75
3486290--3486334	13	3.2	13	77	22	54	17	44	24	13	1.85
3486337--3486433	29	3.3	29	79	0	95	25	4	25	44	1.72
3487137--3487205	24	2.9	24	77	0	75	24	13	18	43	1.86
3487857--3487898	8	5.6	8	78	16	54	83	2	14	0	0.75
3487857--3487898	21	2.0	21	95	0	75	83	2	14	0	0.75
3487868--3487894	13	2.1	13	100	0	54	85	0	14	0	0.61
3492501--3492547	3	15.7	3	100	0	94	68	0	0	31	0.90
3492663--3492713	16	3.2	16	86	5	68	17	13	17	50	1.77
3503825--3503867	21	2.0	21	90	0	68	41	16	25	16	1.88
3509960--3509985	11	2.4	11	100	0	52	92	7	0	0	0.39
3509979--3510017	12	3.5	11	83	13	53	74	10	15	0	1.07
3509959--3510024	10	6.5	10	76	8	62	75	13	10	0	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520604--3520750	24	5.9	24	74	13	102	48	0	0	49	1.10
3520798--3520940	43	3.6	39	78	16	136	42	0	1	55	1.13
3520843--3520925	22	3.8	22	76	10	80	46	1	1	50	1.16
3521017--3521079	23	2.6	25	73	21	69	47	1	0	50	1.10
3521210--3521240	14	2.2	14	94	0	53	45	12	0	41	1.42
3521588--3521654	31	2.2	31	88	0	98	41	2	7	47	1.47
3522530--3522616	32	2.8	32	85	5	124	33	17	17	32	1.93
3522495--3522634	32	4.4	32	75	11	121	34	17	17	30	1.94
3523547--3523668	64	1.9	63	81	5	147	28	18	17	35	1.94
3526642--3526797	32	4.9	32	78	12	153	30	19	18	31	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28