genome.fa.s8424.2.7.7.80.10.50.1000.14.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  14  of  16  ( 1819 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)
3601352--3601533	90	2.0	91	88	1	267	21	26	23	28	1.99
3602312--3602372	24	2.6	23	74	7	61	65	9	16	8	1.45
3607923--3607967	14	2.9	15	87	12	65	4	13	8	73	1.23
3608415--3608494	35	2.2	37	88	4	119	28	3	36	31	1.75
3613854--3614027	90	1.9	91	85	1	242	21	27	22	29	1.99
3618521--3618576	13	4.7	11	74	21	51	0	19	1	78	0.84
3618521--3618576	18	3.1	18	82	17	71	0	19	1	78	0.84
3628649--3628734	13	7.2	12	72	22	58	29	3	37	30	1.74
3628631--3628735	36	2.9	36	95	1	185	28	4	36	30	1.78
3629076--3629126	19	2.6	20	87	3	68	45	5	15	33	1.71
3632437--3632522	13	7.2	12	72	22	58	29	3	37	30	1.74
3632419--3632523	36	2.9	36	95	1	185	28	4	36	30	1.78
3633480--3633522	13	3.3	13	76	0	50	79	2	16	2	0.95
3633795--3633827	17	1.9	17	93	0	57	33	30	0	36	1.58
3637298--3637323	13	2.0	13	100	0	52	23	38	0	38	1.55
3646765--3646797	16	2.1	16	100	0	66	42	6	18	33	1.75
3648542--3648594	16	3.2	16	77	17	56	66	0	18	15	1.26
3649207--3649286	35	2.2	36	91	2	126	28	3	37	30	1.75
3649628--3649678	19	2.6	20	87	3	68	45	5	15	33	1.71
3656519--3656561	23	1.9	21	81	13	50	34	13	18	32	1.90
3657791--3657852	27	2.2	28	82	2	81	11	16	11	61	1.57
3663749--3663993	123	2.0	124	89	2	377	24	26	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3665429--3665483	24	2.3	25	81	6	60	32	16	21	29	1.95
3666541--3666837	148	2.0	148	97	0	558	27	20	23	28	1.99
3666906--3666945	20	1.9	22	85	10	57	40	12	30	17	1.86
3675755--3675813	24	2.4	25	85	2	75	76	5	16	1	1.05
3675752--3675794	14	3.0	15	80	10	54	79	2	18	0	0.85
3675745--3675823	24	3.3	24	80	5	72	72	7	17	2	1.20
3678546--3678605	13	4.8	13	76	15	56	26	3	36	33	1.73
3678527--3678631	36	2.9	35	92	4	174	27	4	36	31	1.78
3684056--3684106	20	2.6	20	90	3	77	35	15	5	43	1.71
3684523--3684561	14	2.7	14	84	15	53	15	20	0	64	1.30
3686423--3686472	14	3.9	13	73	21	52	78	2	20	0	0.86
3686417--3686472	19	3.1	18	82	17	71	78	1	19	0	0.84
3686417--3686472	11	4.7	11	74	21	51	78	1	19	0	0.84
3694615--3694654	16	2.4	16	95	4	71	92	7	0	0	0.38
3694615--3694657	1	43.0	1	85	0	59	93	6	0	0	0.37
3694616--3694657	11	3.7	11	93	3	66	92	7	0	0	0.37
3701100--3703527	939	2.6	939	95	0	4326	27	25	15	31	1.96
3711768--3711808	16	2.6	16	92	0	73	39	4	24	31	1.76
3713995--3714098	33	3.1	33	82	9	95	30	36	1	30	1.69
3718501--3718569	33	2.1	33	83	5	86	30	36	1	31	1.67
3721976--3722061	13	7.2	12	72	22	58	29	3	37	30	1.74
3721958--3722062	36	2.9	36	95	1	185	28	4	36	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3722404--3722454	19	2.6	20	87	3	68	45	5	15	33	1.71
3725610--3725651	14	2.9	15	80	16	52	2	14	2	80	0.90
3726120--3726205	11	7.2	12	74	22	67	29	2	37	31	1.70
3726102--3726206	36	2.9	36	94	1	176	28	3	36	31	1.75
3747415--3747473	25	2.4	25	94	0	100	27	20	30	22	1.98
3748968--3749052	11	7.2	11	74	22	75	32	35	2	29	1.70
3748966--3749069	36	2.9	36	90	5	158	30	35	2	30	1.72
3749438--3749484	24	2.0	22	84	15	60	78	4	17	0	0.90
3749506--3749552	14	3.1	15	75	12	51	72	6	19	2	1.17
3749703--3749753	25	2.0	25	88	7	77	15	21	0	62	1.32
3754678--3754778	36	2.8	36	94	4	170	31	34	3	29	1.76
3757272--3757381	35	3.2	35	83	3	134	28	37	2	31	1.71
3758636--3758685	18	2.8	18	80	19	61	70	0	12	18	1.17
3759788--3759940	21	7.3	21	73	12	136	45	9	16	29	1.78
3759788--3759940	63	2.4	63	95	1	272	45	9	16	29	1.78
3760229--3760271	13	3.2	13	80	3	50	69	0	11	18	1.17
3764154--3764200	9	5.2	9	77	10	51	0	17	2	80	0.80
3764152--3764201	17	3.0	17	91	8	77	0	18	4	78	0.91
3765937--3765994	30	1.9	31	85	3	82	53	10	8	27	1.64
3768670--3768719	18	2.8	18	80	19	61	70	0	12	18	1.17
3768665--3769020	176	2.0	177	99	0	705	41	5	27	25	1.78
3771628--3771657	13	2.4	13	94	5	53	26	30	0	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3774406--3774464	23	2.5	24	81	5	68	8	18	11	61	1.55
3775257--3775428	90	1.9	91	87	1	256	29	23	25	22	1.99
3781312--3781378	30	2.2	30	84	5	82	4	8	13	73	1.23
3781349--3781374	10	2.6	10	100	0	52	0	15	7	76	0.99
3782618--3782718	35	2.8	36	83	4	132	27	37	3	30	1.75
3794721--3794780	30	2.0	31	86	3	86	53	10	8	28	1.63
3796230--3796272	22	2.0	23	86	9	63	13	16	9	60	1.58
3797183--3797224	13	3.4	12	80	12	50	7	14	4	73	1.21
3797181--3797234	24	2.3	23	75	15	56	7	16	3	72	1.22
3797481--3797530	18	2.8	18	75	19	52	70	0	10	20	1.16
3798891--3798950	30	2.0	31	86	3	86	55	8	8	28	1.59
3805923--3805960	20	2.0	19	85	10	51	50	5	5	39	1.48
3816721--3818214	746	2.0	746	99	0	2952	29	22	14	33	1.93
3818238--3818298	24	2.4	26	75	13	72	62	13	18	6	1.51
3826054--3826093	19	2.0	20	90	4	64	20	15	0	65	1.28
3827076--3827121	14	3.1	15	84	6	58	65	0	17	17	1.28
3827062--3827110	20	2.5	20	80	12	57	63	0	16	20	1.31
3827534--3827585	19	2.6	21	90	6	81	46	7	13	32	1.72
3830877--3830932	13	4.7	11	74	21	51	0	19	1	78	0.84
3830877--3830932	18	3.1	18	82	17	71	0	19	1	78	0.84
3831660--3831711	19	2.6	21	90	6	81	46	7	13	32	1.72
3832518--3832561	22	1.9	23	90	9	72	36	4	20	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3833756--3833808	20	2.7	20	79	2	54	33	11	7	47	1.68
3834497--3834523	14	1.9	14	100	0	54	44	0	33	22	1.53
3834934--3834980	13	3.2	16	80	17	57	17	19	0	63	1.30
3834955--3834983	13	2.3	13	94	5	51	13	17	0	68	1.20
3839250--3839292	23	1.9	21	81	13	50	34	13	18	32	1.90
3846989--3847049	13	4.9	13	74	11	56	31	3	34	31	1.74
3846970--3847085	36	3.2	36	91	2	171	30	3	35	31	1.74
3852707--3852767	13	4.9	13	74	11	56	31	3	34	31	1.74
3852688--3852802	36	3.2	36	91	2	169	30	3	34	31	1.75
3854804--3854843	9	4.3	9	82	17	55	65	0	22	12	1.26
3854802--3854843	13	3.0	14	86	13	68	64	0	21	14	1.29
3856649--3856686	20	2.0	19	85	10	51	50	5	5	39	1.48
3864280--3864325	20	2.4	19	88	3	65	78	15	6	0	0.95
3864280--3864318	19	2.1	19	95	0	69	79	12	7	0	0.93
3864280--3864325	19	2.3	20	88	7	67	78	15	6	0	0.95
3870055--3870175	50	2.4	50	98	0	233	34	1	14	49	1.53
3871768--3871797	5	6.2	5	92	7	53	0	16	0	83	0.65
3874012--3874072	24	2.4	26	75	13	72	62	13	18	6	1.51
3879970--3880118	36	4.2	36	92	0	237	32	35	4	28	1.76
3879970--3880104	13	11.3	11	70	26	80	31	35	3	29	1.75
3879982--3880157	36	5.1	33	86	7	99	30	35	3	30	1.74
3883815--3883870	24	2.4	25	85	8	73	7	14	17	60	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3884514--3884564	19	2.6	20	87	3	68	45	5	15	33	1.71
3887782--3887840	25	2.5	23	76	17	59	8	11	15	64	1.49
3888471--3888521	19	2.6	20	87	3	68	45	5	15	33	1.71
3892639--3892671	13	2.5	13	95	0	57	78	12	9	0	0.95
3892632--3892671	13	3.2	12	86	13	55	82	10	7	0	0.84
3897988--3898035	21	2.3	21	85	7	62	0	16	6	77	0.97
3898411--3898490	35	2.2	36	91	2	126	28	3	37	30	1.75
3898831--3898879	19	2.5	20	86	3	64	46	6	14	32	1.69
3900702--3900761	30	2.0	31	83	3	77	26	8	10	55	1.61
3901589--3901640	21	2.6	21	90	6	81	34	13	5	46	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16