genome.fa.s8620.2.7.7.80.10.50.1000.19.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  19  of  64  ( 7674 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)
3685895--3685919	13	1.9	13	100	0	50	56	0	12	32	1.36
3686207--3686238	14	2.3	14	100	0	64	68	6	6	18	1.32
3686207--3686256	14	3.4	14	88	5	55	68	6	6	20	1.33
3687349--3687493	75	1.9	75	98	0	281	36	31	17	14	1.90
3688498--3688546	20	2.5	20	96	0	89	14	12	24	48	1.77
3691149--3691364	103	2.1	102	88	2	317	42	11	15	31	1.82
3693628--3693685	30	1.9	30	85	0	80	36	10	18	34	1.85
3693644--3693708	15	4.3	15	82	0	76	30	6	21	41	1.77
3699694--3699769	15	5.1	15	77	0	71	28	5	23	42	1.76
3699686--3699752	30	2.2	30	91	0	107	32	7	25	34	1.84
3699872--3699933	23	2.7	23	82	0	79	19	27	19	33	1.96
3699872--3699956	23	3.7	22	78	6	73	21	25	20	32	1.97
3699942--3699995	24	2.2	24	86	0	72	22	18	18	40	1.91
3701592--3701661	31	2.3	30	85	11	90	4	18	0	77	0.93
3701618--3701662	13	3.4	13	82	17	65	2	17	0	80	0.82
3701670--3701700	16	1.9	16	93	0	53	9	16	0	74	1.07
3701602--3701693	23	4.0	23	76	17	84	6	15	0	78	0.95
3701602--3701703	50	2.1	49	80	12	111	6	15	0	77	0.97
3706351--3706419	33	2.1	32	86	7	95	31	15	31	20	1.94
3715996--3716032	18	2.1	18	89	0	56	37	2	0	59	1.12
3718825--3718893	15	4.5	15	81	15	79	37	8	5	47	1.58
3719944--3719977	7	4.9	7	96	0	50	5	0	64	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3722345--3722384	21	1.9	21	84	0	53	35	12	5	47	1.63
3731267--3731308	22	1.9	22	90	0	66	16	14	30	38	1.89
3736279--3736337	31	2.0	28	83	9	73	72	1	11	13	1.19
3736971--3737018	15	3.3	15	79	2	53	81	0	16	2	0.79
3736971--3737015	21	2.2	21	88	11	67	80	0	17	2	0.82
3737143--3737202	21	2.9	21	94	0	102	40	13	23	23	1.90
3740886--3740939	2	27.5	2	96	3	101	50	0	0	50	1.00
3741580--3742174	54	11.0	54	89	1	818	37	17	10	33	1.85
3743349--3743382	13	2.6	13	90	0	59	14	41	23	20	1.89
3743344--3743404	31	2.0	31	93	0	104	16	42	22	18	1.89
3743364--3743400	18	2.1	18	94	0	65	16	45	24	13	1.83
3743377--3743406	13	2.3	13	100	0	60	16	46	23	13	1.82
3745680--3745767	24	3.7	24	89	0	131	22	18	22	36	1.95
3745680--3745777	24	4.1	24	86	0	88	23	16	22	37	1.93
3746916--3746948	2	17.5	2	87	12	52	48	0	0	51	1.00
3747686--3748062	54	7.0	54	90	0	585	37	16	11	33	1.85
3747686--3748064	161	2.3	163	91	3	615	37	16	11	34	1.85
3754633--3754715	8	10.5	8	78	17	59	8	14	1	75	1.08
3754662--3754715	16	3.4	16	82	7	65	5	16	1	75	1.07
3754647--3754700	26	2.1	26	82	6	65	7	14	0	77	0.97
3765453--3765486	15	2.4	14	86	13	52	50	0	2	47	1.16
3765457--3765485	15	1.9	15	100	0	58	55	0	3	41	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3765853--3765985	68	1.9	69	96	1	250	51	11	4	32	1.57
3766275--3766318	23	2.0	21	86	8	61	50	11	0	38	1.39
3766347--3766387	2	21.0	2	95	5	75	51	0	0	48	1.00
3767643--3767668	3	8.7	3	100	0	52	65	0	0	34	0.93
3768254--3768287	15	2.3	15	89	0	50	20	11	35	32	1.89
3770987--3771174	60	3.1	60	80	4	218	32	22	3	40	1.72
3770986--3771087	31	3.4	31	68	13	86	33	19	3	43	1.70
3771005--3771098	29	3.2	29	68	11	82	35	19	2	43	1.63
3771296--3771412	60	2.0	60	86	10	168	42	0	23	33	1.60
3771296--3771436	60	2.3	60	81	13	166	41	1	21	34	1.62
3771296--3771466	60	2.9	59	81	11	147	42	1	20	35	1.60
3773160--3773685	262	2.0	262	100	0	1052	41	14	13	30	1.84
3777856--3777899	22	2.0	22	86	4	61	40	4	2	52	1.34
3779257--3779372	20	5.8	21	67	27	74	50	6	0	42	1.32
3779266--3779396	42	3.2	42	73	18	157	49	6	0	42	1.34
3779222--3779354	39	3.3	40	72	17	130	48	4	2	45	1.35
3779225--3779453	81	2.8	82	90	5	351	48	5	1	44	1.33
3779225--3779427	42	4.9	42	69	22	139	47	4	1	45	1.33
3780257--3780383	60	2.1	61	84	11	156	33	22	5	38	1.77
3780509--3780588	31	2.7	29	72	16	74	38	3	23	33	1.73
3780509--3780660	29	5.1	30	65	21	88	40	4	21	34	1.74
3780507--3780661	60	2.6	59	81	8	190	41	4	20	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3780507--3780683	59	3.0	60	78	8	191	41	4	19	33	1.72
3781264--3781390	60	2.1	60	83	0	155	36	17	14	31	1.90
3781596--3781628	17	1.9	17	88	11	50	66	0	0	33	0.92
3788733--3788761	14	2.0	15	93	6	51	13	13	17	55	1.70
3790251--3790287	19	2.1	19	85	10	51	18	2	2	75	1.04
3790266--3790313	20	2.4	20	86	6	62	18	2	4	75	1.07
3791120--3791173	27	2.0	27	100	0	108	29	25	33	11	1.91
3793326--3793360	13	2.8	13	87	12	56	80	0	14	5	0.89
3793432--3793569	65	2.1	68	87	5	203	40	21	13	23	1.89
3794483--3794571	32	2.8	32	87	3	126	24	13	26	34	1.93
3795201--3795523	106	3.0	106	84	0	405	34	21	19	24	1.96
3795752--3796121	102	3.6	102	90	2	573	31	18	12	36	1.89
3795906--3796092	37	5.3	37	67	16	119	27	18	13	40	1.89
3796156--3796258	36	2.8	37	92	2	181	29	22	12	35	1.91
3796169--3796355	102	1.8	102	84	6	254	29	20	11	38	1.88
3796273--3796389	36	3.2	36	82	7	137	28	18	12	40	1.88
3796375--3796466	39	2.4	39	85	3	116	41	23	7	27	1.81
3796474--3796631	84	1.9	85	85	1	219	29	24	20	25	1.99
3797572--3797596	2	12.5	2	100	0	50	48	0	0	52	1.00
3797657--3797699	2	22.0	2	84	13	54	44	4	0	51	1.22
3797638--3797699	14	4.3	15	78	11	58	40	3	0	56	1.15
3797729--3797825	37	2.9	34	80	9	101	27	3	2	67	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797799--3797857	17	3.6	16	76	13	57	23	3	0	72	0.99
3797798--3797856	31	1.9	31	83	10	77	23	3	0	72	0.99
3797719--3797842	44	2.9	41	71	17	99	26	3	3	66	1.22
3797830--3797859	15	2.1	14	93	6	51	16	6	0	76	0.99
3797800--3797857	16	3.4	17	76	11	57	24	3	0	72	1.00
3798053--3798104	19	2.8	17	75	16	50	17	1	5	75	1.10
3798045--3798085	9	4.4	9	85	14	57	17	2	2	78	0.98
3800134--3800164	11	2.8	11	95	0	53	38	0	22	38	1.54
3801067--3801106	17	2.3	18	86	4	55	30	2	2	65	1.19
3808360--3808399	17	2.3	18	86	4	55	32	0	2	65	1.06
3809345--3809404	30	2.0	31	83	3	77	51	11	0	36	1.38
3811045--3811190	78	1.9	78	84	5	197	37	10	15	36	1.81
3811160--3811364	60	3.4	60	90	3	297	39	11	8	40	1.72
3813147--3813259	38	3.1	37	93	5	194	49	0	4	45	1.28
3813235--3813279	21	2.2	20	96	4	81	48	2	4	44	1.35
3813362--3813409	3	16.7	3	78	8	55	31	0	0	68	0.90
3813363--3813436	26	2.9	25	78	13	73	32	0	0	67	0.91
3813396--3813446	18	2.9	18	88	2	77	25	1	0	72	0.95
3813358--3813435	29	2.5	32	78	17	85	33	0	0	66	0.92
3814572--3814615	6	7.5	6	80	14	56	15	4	0	79	0.89
3814558--3814609	23	2.3	22	81	15	61	15	9	1	73	1.18
3814578--3814689	45	2.5	46	81	12	126	11	9	2	75	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3817475--3817536	20	3.2	19	69	17	56	30	3	12	53	1.55
3817645--3817744	20	5.6	18	67	20	59	52	1	1	46	1.14
3817665--3817780	20	5.6	20	69	17	67	45	0	0	52	1.12
3817641--3817776	64	2.1	63	80	14	163	47	0	0	50	1.11
3817703--3817758	23	2.4	23	82	11	71	51	0	0	48	1.00
3817646--3817788	65	2.2	65	82	15	179	48	0	0	50	1.11
3817663--3817810	65	2.3	63	81	13	160	46	2	1	50	1.21
3817805--3817866	24	2.5	25	79	7	74	54	1	0	43	1.09
3817805--3817873	24	2.9	23	73	18	61	52	1	0	46	1.09
3821473--3821516	21	2.0	22	82	4	54	29	9	22	38	1.85

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64