genome.fa.s8955.2.7.7.80.10.50.1000.18.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  18  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)
3579642--3579710	18	3.6	18	68	21	50	43	7	10	39	1.66
3579621--3579721	13	7.8	12	68	23	55	40	6	11	40	1.69
3579621--3579734	40	2.9	38	84	7	140	39	7	13	40	1.71
3579959--3580028	37	1.9	36	85	2	95	41	8	8	41	1.66
3581469--3581515	14	3.7	14	71	26	50	51	4	0	44	1.21
3581467--3581516	23	2.1	24	96	3	93	48	4	0	48	1.20
3581770--3581824	16	3.4	16	89	0	83	40	14	25	20	1.90
3581881--3581966	25	3.3	25	63	15	66	17	15	29	38	1.90
3592223--3592667	142	3.2	139	77	15	450	46	7	9	37	1.64
3592457--3592519	20	3.0	20	81	11	56	52	3	1	42	1.27
3592373--3592614	133	1.8	132	81	8	305	44	8	9	37	1.68
3594289--3594348	17	3.4	17	69	24	52	18	25	8	48	1.75
3594312--3594623	102	3.0	101	75	10	308	27	17	16	39	1.91
3594511--3595036	113	4.5	120	83	8	404	26	19	15	38	1.91
3594719--3595047	113	2.9	113	90	3	497	28	19	15	37	1.92
3595455--3595531	22	3.5	22	89	0	118	36	14	15	33	1.88
3595891--3596056	54	3.1	54	92	0	269	22	22	16	38	1.93
3598117--3598453	113	3.0	114	94	0	577	30	20	16	33	1.94
3603869--3603922	14	3.8	14	80	2	54	50	9	14	25	1.73
3606112--3606166	29	1.9	29	85	3	76	50	1	1	45	1.22
3606270--3606447	86	2.0	88	82	7	220	39	10	11	37	1.77
3606504--3606607	11	9.2	11	80	11	113	68	0	1	28	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3606504--3606607	23	4.6	22	80	13	113	68	0	1	28	1.07
3610286--3610361	3	25.0	3	77	7	73	42	0	0	57	0.98
3615773--3615804	15	2.1	15	94	0	55	25	18	9	46	1.79
3622701--3622981	140	2.0	141	99	0	555	35	12	22	29	1.91
3623237--3623267	11	2.8	11	100	0	62	93	0	6	0	0.35
3624631--3625268	83	6.9	92	82	11	643	29	14	21	34	1.93
3625017--3625261	92	2.7	92	94	1	420	27	14	22	35	1.93
3626000--3626753	113	6.7	113	93	2	1182	36	15	18	28	1.92
3626982--3627051	3	22.7	3	82	5	77	41	0	0	58	0.98
3634637--3634676	21	1.9	21	100	0	80	10	30	32	27	1.89
3634852--3634891	21	1.9	21	100	0	80	10	30	32	27	1.89
3634579--3635013	215	2.0	220	97	2	835	28	15	19	37	1.92
3642555--3642596	20	2.2	19	84	16	52	45	7	9	38	1.64
3655437--3655607	83	2.1	81	82	2	207	30	16	18	33	1.93
3655437--3655670	83	2.9	81	80	5	204	30	17	18	34	1.94
3655866--3656012	42	3.5	42	80	2	163	29	10	19	40	1.85
3659882--3659920	18	2.2	18	100	0	78	20	23	30	25	1.98
3661427--3661646	110	2.0	110	90	1	352	45	8	8	36	1.66
3661770--3661810	10	4.1	10	84	12	57	39	0	29	31	1.57
3661941--3662049	51	2.2	50	91	1	173	17	29	37	15	1.91
3662643--3662692	21	2.4	21	93	0	82	32	32	18	18	1.94
3662704--3662903	21	9.6	20	74	14	174	18	18	28	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3662688--3662899	42	5.1	42	90	2	333	18	17	26	36	1.94
3662870--3662912	21	2.0	21	81	0	50	20	23	30	25	1.99
3663756--3664057	42	7.2	42	86	3	401	36	20	18	24	1.95
3663803--3663872	23	3.2	23	67	22	69	41	20	15	22	1.90
3663756--3664056	124	2.4	126	87	3	444	36	20	17	24	1.95
3664032--3664081	21	2.4	21	89	0	73	30	28	22	20	1.98
3677845--3678138	153	1.9	153	84	5	389	25	27	13	32	1.94
3691398--3691450	21	2.5	22	81	12	65	33	15	24	26	1.95
3691541--3691694	79	1.9	79	100	0	308	29	8	20	41	1.82
3705328--3705376	24	2.0	25	84	11	66	46	0	6	46	1.27
3705825--3705863	20	2.0	20	89	0	60	41	17	23	17	1.91
3708419--3708453	16	2.1	17	89	5	54	25	17	0	57	1.40
3709001--3709034	14	2.4	14	90	0	50	50	26	0	23	1.50
3712923--3712956	12	2.8	12	86	0	50	35	2	17	44	1.64
3713734--3713775	18	2.3	18	87	0	57	19	50	21	9	1.75
3716172--3716293	24	5.1	24	86	4	156	24	16	20	38	1.92
3716898--3716951	26	2.0	28	82	7	67	27	7	11	53	1.63
3719929--3720009	39	2.1	39	100	0	162	20	24	14	39	1.91
3720036--3720098	12	5.2	12	72	14	58	26	12	22	38	1.90
3720021--3720142	24	5.1	24	85	7	158	25	13	20	40	1.90
3720747--3720800	26	2.0	28	82	7	67	27	7	11	53	1.63
3723781--3723861	39	2.1	39	100	0	162	20	24	14	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3723873--3723994	24	5.1	24	83	7	149	24	13	21	40	1.90
3723892--3723951	12	5.0	12	72	20	54	25	11	23	40	1.88
3726103--3726141	18	2.2	18	85	0	51	23	48	15	12	1.79
3728597--3728718	24	5.1	24	83	7	140	26	15	18	39	1.91
3739549--3740292	127	6.0	127	88	5	1157	22	23	20	33	1.97
3739952--3740182	110	2.1	111	92	0	383	23	22	18	35	1.95
3739569--3740292	237	3.0	240	91	5	1154	22	23	20	34	1.97
3740722--3740822	34	3.0	34	86	0	148	39	3	3	52	1.39
3741342--3741393	21	2.5	21	78	12	61	26	26	28	17	1.97
3741366--3741449	42	2.0	42	81	4	98	29	20	28	21	1.98
3743184--3743220	19	2.0	18	89	5	56	62	0	0	37	0.96
3745818--3745937	35	3.3	36	89	5	181	43	20	5	31	1.73
3745869--3745929	21	3.2	21	65	29	64	42	21	4	31	1.74
3745820--3745964	35	4.1	36	83	11	142	41	19	6	33	1.76
3750435--3750553	35	3.3	36	89	5	179	43	20	4	31	1.71
3750486--3750546	21	3.2	21	65	29	64	42	21	4	31	1.74
3761402--3761451	25	2.0	25	96	0	91	28	10	8	54	1.62
3761590--3761696	41	2.7	40	82	5	117	52	8	7	31	1.59
3762299--3762343	18	2.5	18	77	0	54	51	6	35	6	1.55
3762333--3762377	12	3.8	12	82	8	56	60	2	37	0	1.09
3765586--3765620	16	2.2	16	89	0	52	62	20	5	11	1.48
3766608--3766662	14	3.9	14	90	0	83	58	21	10	9	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773048--3773216	86	2.0	86	98	0	329	20	26	23	30	1.98
3775204--3775268	31	2.1	31	88	5	96	44	7	4	43	1.53
3776034--3776176	71	2.0	71	87	2	207	34	9	19	35	1.85
3777577--3777621	21	2.2	20	84	7	56	60	0	0	40	0.97
3779209--3779351	76	1.9	76	91	2	234	34	19	9	37	1.84
3784632--3784708	2	39.0	2	92	7	131	49	0	1	49	1.09
3785960--3786128	88	1.9	90	85	6	236	37	18	8	35	1.82
3798307--3798410	37	2.8	37	83	0	127	40	13	14	31	1.85
3798827--3798868	11	3.8	11	79	20	52	26	0	0	73	0.83
3798831--3798877	21	2.2	22	88	11	71	21	2	0	76	0.89
3798910--3798941	2	16.5	2	93	6	57	46	0	0	53	1.00
3799099--3799201	25	3.9	25	74	20	77	29	3	0	66	1.16
3799308--3799358	20	2.7	18	74	20	50	21	9	1	66	1.31
3800170--3800211	20	2.1	20	95	0	75	28	33	38	0	1.58
3800340--3800367	4	7.0	4	100	0	56	25	0	0	75	0.81
3803678--3803724	16	3.1	15	83	16	62	80	6	12	0	0.88
3803699--3803737	17	2.2	18	86	9	53	82	7	7	2	0.94
3804348--3804402	22	2.5	22	96	0	101	36	25	12	25	1.91
3805338--3806607	106	12.0	106	89	2	1817	34	24	17	23	1.96
3807357--3807460	37	2.8	37	85	0	136	41	13	13	31	1.83
3808183--3808249	23	3.0	20	76	21	62	28	2	0	68	1.04
3808184--3808239	23	2.3	25	85	11	73	26	1	0	71	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808194--3808251	28	2.1	27	81	9	64	27	3	0	68	1.05
3809045--3809154	31	3.5	31	91	0	175	19	20	20	40	1.92
3809045--3809169	31	4.0	30	88	2	160	20	19	21	38	1.94
3810478--3810570	21	4.5	21	78	4	100	39	18	24	17	1.91
3810559--3810673	20	5.7	20	80	6	106	31	25	18	25	1.97
3810478--3810570	41	2.3	41	100	0	186	39	18	24	17	1.91
3810861--3810904	22	2.0	22	95	0	79	20	45	15	18	1.85
3811167--3811225	20	3.0	20	87	0	73	16	18	22	42	1.89
3812544--3812588	18	2.5	18	88	0	72	26	44	15	13	1.83
3813070--3813122	20	2.7	20	90	0	79	39	24	20	15	1.91

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