genome.fa.s8955.2.7.7.80.10.50.1000.17.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

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

This is table  17  of  23  ( 2731 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)
3355746--3355849	21	5.0	20	76	3	91	20	36	19	24	1.95
3357229--3357294	30	2.2	30	94	0	123	28	3	12	56	1.51
3357444--3357701	20	13.9	20	73	14	203	22	19	21	36	1.96
3357517--3357698	34	4.8	40	69	15	154	21	19	21	36	1.95
3357464--3357673	54	3.9	54	92	0	323	21	19	21	37	1.95
3357876--3357906	12	2.6	12	94	0	53	16	6	29	48	1.70
3359933--3359969	14	2.6	14	91	4	56	5	21	21	51	1.68
3360171--3360217	24	2.0	24	95	0	85	34	17	21	27	1.95
3361038--3361078	20	2.0	20	95	0	73	24	21	29	24	1.99
3361066--3361120	21	2.6	21	88	0	83	20	21	25	32	1.97
3361109--3361161	20	2.7	20	96	0	97	20	20	18	39	1.92
3364994--3365062	27	2.7	27	93	6	117	40	17	11	30	1.85
3368718--3368747	15	2.0	15	93	0	51	46	16	13	23	1.82
3374710--3374921	106	2.0	105	99	0	415	38	11	20	29	1.88
3379954--3379998	20	2.3	20	92	3	74	42	0	0	57	0.98
3380016--3380040	13	1.9	13	100	0	50	68	0	0	32	0.90
3382472--3382521	24	2.1	24	100	0	100	30	4	12	54	1.55
3384698--3384729	15	2.2	15	94	5	57	21	0	0	78	0.76
3384698--3384775	20	4.3	18	78	16	67	28	2	0	69	1.02
3384728--3384788	8	6.9	8	74	18	50	29	3	1	65	1.18
3395411--3395462	16	3.2	17	86	10	74	84	0	9	5	0.77
3395793--3395866	18	3.8	19	82	8	87	31	9	4	55	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3396789--3396846	22	2.6	22	77	0	71	36	13	15	34	1.87
3397285--3397465	91	2.0	91	94	4	321	24	6	37	30	1.81
3401261--3401303	19	2.3	19	83	0	59	65	0	16	18	1.28
3407615--3407648	17	2.1	16	88	5	50	76	0	8	14	1.01
3408999--3409395	113	3.5	113	89	1	600	38	14	19	27	1.91
3415245--3415349	52	2.0	52	98	0	201	27	24	24	22	2.00
3416815--3416864	21	2.3	22	93	3	84	32	10	4	54	1.52
3417678--3417705	12	2.3	12	100	0	56	50	39	10	0	1.37
3418462--3418711	30	8.4	30	80	2	225	16	13	10	58	1.62
3418481--3418640	61	2.7	59	82	2	185	17	14	11	56	1.66
3418462--3418711	59	4.2	59	77	4	223	16	13	10	58	1.62
3420259--3420285	7	3.9	7	100	0	54	14	14	0	70	1.17
3433171--3433217	17	2.7	18	86	3	69	34	8	27	29	1.87
3433814--3433884	37	1.9	37	94	0	124	40	36	8	14	1.76
3433804--3433889	37	2.5	34	81	9	95	39	39	8	12	1.73
3441055--3441369	55	5.8	55	87	6	374	28	25	17	28	1.98
3441743--3441829	42	2.1	41	87	4	122	33	24	16	26	1.95
3442009--3442105	42	2.3	42	92	0	158	31	20	19	27	1.97
3441824--3442085	135	1.9	135	89	3	402	29	21	17	31	1.96
3457557--3457610	23	2.4	23	93	3	92	27	33	9	29	1.88
3459391--3459670	77	3.6	77	81	3	323	37	8	19	34	1.81
3462010--3462036	14	1.9	14	100	0	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3462136--3462171	13	2.6	14	91	4	56	52	0	0	47	1.00
3462891--3462937	20	2.4	19	82	10	67	53	10	17	19	1.72
3462679--3463150	180	2.6	182	91	0	723	41	13	17	27	1.86
3463082--3463122	20	2.2	19	83	12	50	51	14	17	17	1.77
3465338--3465402	21	3.1	21	86	0	85	43	10	27	18	1.83
3465436--3465501	33	2.0	33	90	0	105	28	0	48	22	1.51
3467290--3467338	19	2.6	19	96	0	89	32	0	10	57	1.32
3467290--3467350	19	3.3	19	90	2	79	34	0	11	54	1.37
3467576--3468025	200	2.2	200	96	0	828	36	15	19	29	1.92
3468631--3469036	183	2.2	182	91	2	652	35	14	15	34	1.88
3468910--3469156	120	2.1	120	95	0	440	33	14	14	37	1.87
3468731--3469320	303	1.9	303	95	0	1054	35	14	15	35	1.88
3472738--3472782	23	2.0	23	90	0	72	33	13	8	44	1.75
3472748--3472792	23	2.0	23	86	0	63	37	15	8	37	1.79
3472664--3472913	87	2.9	87	96	0	455	32	14	10	42	1.79
3472835--3472879	23	2.0	23	86	0	63	37	15	8	37	1.79
3478789--3478824	16	2.2	17	90	5	56	47	0	2	50	1.15
3479406--3479543	43	3.2	43	77	1	143	34	16	22	26	1.95
3482294--3482601	82	3.7	83	80	2	325	32	18	18	31	1.95
3482451--3482609	41	3.9	41	68	7	97	32	18	20	28	1.96
3482856--3482899	13	3.3	13	78	6	52	61	0	2	36	1.09
3489932--3489977	20	2.3	20	88	3	67	23	15	30	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507090--3507394	43	7.1	43	82	3	341	32	20	21	25	1.98
3507107--3507394	85	3.4	85	83	3	332	32	20	20	26	1.97
3507090--3507392	128	2.4	128	84	2	385	32	20	21	25	1.97
3511173--3511459	41	7.0	41	83	3	301	35	17	18	27	1.94
3512578--3512621	20	2.2	20	84	4	54	22	18	13	45	1.84
3516663--3516692	13	2.4	12	89	10	51	3	6	0	90	0.56
3524820--3524860	20	2.0	20	100	0	82	51	4	14	29	1.63
3525842--3525885	21	2.0	21	91	4	70	59	11	0	29	1.32
3526358--3526406	24	2.0	24	100	0	98	16	12	8	63	1.51
3527882--3527987	54	1.9	55	94	1	187	37	17	16	28	1.91
3527899--3528022	28	4.5	28	79	14	150	37	18	19	24	1.94
3528012--3528268	110	2.3	109	81	5	275	34	17	19	28	1.95
3528233--3528297	22	2.6	24	79	18	71	32	20	23	24	1.98
3534070--3534210	72	2.0	72	95	0	255	37	18	13	30	1.89
3534507--3534662	65	2.4	65	86	3	217	28	22	19	30	1.98
3540447--3540528	21	3.9	21	72	19	71	29	20	19	30	1.97
3540410--3540513	44	2.4	44	90	1	156	29	22	19	28	1.98
3540989--3541028	13	3.2	13	83	16	57	40	12	2	45	1.56
3543113--3543248	65	2.1	64	89	4	211	27	22	17	32	1.96
3543113--3543267	65	2.4	65	84	7	201	28	20	18	32	1.96
3545824--3546416	182	3.3	181	87	3	826	42	12	16	28	1.85
3548426--3548480	18	3.1	18	83	0	74	29	7	54	9	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3548426--3548472	9	5.2	9	86	0	67	25	8	55	10	1.62
3548887--3549207	128	2.5	126	81	6	335	43	10	13	31	1.79
3549075--3550635	199	7.8	199	88	2	2045	39	14	15	31	1.87
3549075--3550596	593	2.6	592	85	3	2090	39	14	15	30	1.87
3550929--3550987	18	3.5	17	74	21	61	22	37	5	35	1.76
3552998--3554645	199	8.2	199	86	4	2190	39	14	14	31	1.86
3554035--3554087	20	2.7	20	90	0	88	41	9	16	32	1.81
3553836--3554288	219	2.1	219	91	0	726	39	14	15	30	1.87
3554862--3554909	23	2.1	23	92	0	78	37	8	4	50	1.52
3554765--3554930	87	1.9	87	85	3	228	35	9	8	46	1.66
3557852--3557879	7	4.0	7	100	0	56	28	14	0	57	1.38
3558305--3558352	24	1.9	26	83	8	64	39	8	18	33	1.81
3558756--3558804	24	2.0	24	100	0	98	44	0	0	55	0.99
3560525--3560570	24	2.0	24	83	12	60	45	2	4	47	1.34
3561513--3561655	41	3.5	42	81	8	177	32	18	17	32	1.94
3561510--3561662	82	1.9	82	91	2	254	32	17	17	32	1.94
3561513--3561671	41	3.9	41	74	12	130	32	16	16	33	1.92
3561511--3561679	82	2.1	82	87	2	241	31	17	17	33	1.93
3564660--3564702	19	2.1	20	83	12	52	27	11	4	55	1.55
3565823--3566204	43	8.9	43	92	0	611	25	28	18	27	1.98
3569228--3569403	13	12.8	13	65	16	63	46	5	5	43	1.48
3569267--3569348	20	4.2	20	74	16	64	50	3	2	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3569199--3569388	98	1.9	97	95	1	344	46	4	4	44	1.43
3569194--3569348	18	8.1	20	73	12	128	47	5	2	44	1.39
3569171--3569244	18	4.7	15	73	23	55	50	5	0	44	1.25
3569263--3569403	39	3.8	39	71	10	107	47	4	4	43	1.44
3571841--3573090	164	7.6	162	78	7	1148	25	20	24	29	1.99
3571776--3572973	407	2.9	406	88	3	1632	25	19	24	30	1.98
3571893--3573090	328	3.7	327	85	3	1511	25	19	24	29	1.99
3577299--3577328	5	5.8	5	96	4	51	80	0	3	16	0.85
3578414--3578453	18	2.4	16	87	8	53	80	7	2	10	1.00
3579621--3579716	40	2.4	40	91	0	156	40	7	11	40	1.69

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