genome.fa.s7960.2.7.7.80.10.50.1000.18.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  18  of  39  ( 4646 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)
3620670--3620790	54	2.2	53	85	4	161	32	17	13	37	1.88
3620699--3620809	54	2.0	56	89	5	172	33	20	13	32	1.92
3620951--3620987	18	2.1	18	100	0	74	0	21	16	62	1.33
3621241--3621287	20	2.3	20	78	7	51	27	25	12	34	1.92
3630812--3631144	111	3.0	111	96	0	612	45	10	7	36	1.68
3631968--3632000	6	5.5	6	100	0	66	33	0	0	66	0.92
3642639--3642663	2	12.5	2	100	0	50	48	0	0	52	1.00
3645252--3645306	20	2.8	20	82	0	65	29	27	30	12	1.93
3650547--3650629	23	3.8	21	76	16	71	25	30	22	21	1.99
3650548--3650613	23	2.9	22	84	6	78	22	28	24	24	1.99
3653575--3654478	366	2.5	362	89	3	1361	32	15	13	38	1.87
3655037--3655161	45	2.7	46	93	2	207	28	16	12	43	1.83
3658942--3658984	3	14.3	3	95	0	77	37	0	0	62	0.95
3661873--3663293	364	3.9	364	88	2	2012	30	14	15	39	1.87
3663952--3663996	14	3.4	14	72	27	53	28	6	8	55	1.56
3663947--3663996	25	2.0	24	96	3	91	28	6	8	58	1.51
3666220--3666263	21	2.1	21	91	0	70	29	0	15	54	1.42
3666240--3666293	28	1.9	28	100	0	108	27	0	14	57	1.38
3670097--3670236	11	11.5	12	68	20	62	41	1	10	47	1.46
3670132--3670334	60	3.4	59	88	4	295	41	1	10	46	1.47
3670474--3670738	11	21.9	12	66	20	71	42	1	9	46	1.44
3670481--3670618	60	2.3	60	89	3	206	40	0	12	47	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3670577--3670660	28	3.2	28	63	22	74	42	1	10	45	1.46
3670539--3670673	49	2.8	49	93	3	222	43	0	10	45	1.43
3670635--3670704	14	5.1	14	76	10	54	44	2	8	44	1.49
3670687--3670735	21	2.3	21	96	0	89	40	6	4	48	1.47
3671007--3671045	11	3.2	12	82	10	53	46	0	10	43	1.37
3671148--3671209	17	3.6	17	75	2	61	45	0	8	46	1.32
3671019--3671184	59	2.8	59	91	0	278	40	0	9	49	1.39
3671030--3671134	21	5.2	21	67	20	64	40	0	7	50	1.37
3671143--3671215	35	2.1	35	94	2	130	43	0	8	47	1.33
3672328--3672371	23	1.9	23	85	0	61	54	2	4	38	1.33
3674424--3674484	29	2.1	29	81	0	68	27	27	29	14	1.95
3674901--3674986	45	1.9	45	92	4	147	36	18	8	37	1.81
3674903--3675011	45	2.4	45	86	6	141	35	15	9	39	1.79
3680160--3680194	3	11.7	3	93	0	61	65	0	2	31	1.07
3680246--3680343	36	2.8	34	77	7	90	43	6	4	45	1.47
3680280--3680453	77	2.3	76	81	11	198	45	8	2	44	1.46
3680280--3680453	37	4.6	37	76	13	133	45	8	2	44	1.46
3680226--3680447	37	5.9	37	73	15	129	45	7	3	44	1.48
3681594--3681628	14	2.5	14	90	0	52	65	0	8	25	1.21
3681661--3681746	5	15.6	5	72	21	57	74	2	8	15	1.15
3681816--3681858	18	2.4	18	92	0	68	72	0	6	20	1.08
3682731--3683109	201	1.9	200	81	4	462	26	19	17	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3683745--3683974	123	1.9	123	85	1	318	25	13	23	38	1.90
3690466--3690512	18	2.6	18	93	0	76	70	0	2	27	0.99
3691094--3691122	12	2.3	13	94	5	51	58	3	0	37	1.15
3691513--3691551	20	2.1	19	90	9	62	38	0	0	61	0.96
3691768--3691820	2	26.5	2	96	0	97	50	1	0	47	1.12
3700268--3700355	46	1.9	46	88	0	131	46	14	11	27	1.79
3701641--3701675	2	17.5	2	100	0	70	48	0	0	51	1.00
3708956--3708995	20	2.0	20	85	9	55	20	32	25	22	1.98
3708958--3709017	23	2.7	23	80	7	72	20	35	25	20	1.96
3708999--3709038	21	1.9	21	89	0	62	25	40	25	10	1.86
3711800--3711854	20	2.8	20	97	0	101	21	32	29	16	1.95
3713414--3713999	177	3.3	176	89	2	881	30	22	15	31	1.95
3714640--3714708	22	3.1	22	85	6	95	40	11	10	37	1.75
3715073--3715189	54	2.2	53	90	6	182	29	18	15	36	1.92
3716544--3716577	16	2.1	16	100	0	68	44	5	17	32	1.73
3716472--3716661	100	1.9	100	93	2	328	35	13	20	30	1.91
3716560--3716717	84	1.9	84	96	2	291	36	14	20	29	1.92
3723044--3723089	3	16.0	3	86	8	69	65	0	0	34	0.93
3723974--3724014	15	2.9	15	89	7	59	14	34	29	21	1.93
3726491--3726592	24	4.2	24	76	5	89	21	14	16	47	1.83
3728714--3728781	13	5.3	13	77	13	70	16	44	22	17	1.87
3728710--3728758	23	2.1	23	96	0	89	18	53	18	10	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3731250--3731358	24	4.5	24	74	4	94	21	14	16	47	1.82
3733159--3733206	24	2.0	24	91	0	78	18	41	20	18	1.90
3733305--3733416	33	3.4	33	85	3	127	13	35	26	24	1.92
3738637--3739099	243	1.9	243	83	3	592	25	26	14	33	1.94
3743202--3743259	28	2.0	28	86	10	80	37	10	1	50	1.47
3744192--3744235	18	2.4	18	96	0	79	38	6	29	25	1.81
3748445--3748497	3	17.7	3	100	0	106	0	32	0	67	0.91
3752067--3752114	14	3.4	14	85	0	69	14	12	16	56	1.68
3752202--3752242	21	2.0	21	85	0	55	73	4	0	21	1.02
3752282--3752317	10	3.6	10	84	0	54	16	13	11	58	1.63
3752319--3752364	24	1.9	24	90	0	74	10	19	19	50	1.77
3752326--3752377	24	2.2	24	82	0	59	11	21	19	48	1.80
3763345--3763624	73	3.8	73	84	6	332	41	13	13	31	1.83
3763345--3763638	147	2.0	150	85	2	405	41	12	13	31	1.83
3763706--3764016	112	2.8	112	93	1	518	48	13	11	26	1.77
3764282--3764334	21	2.5	21	96	0	97	35	28	18	16	1.93
3770114--3770173	21	2.9	22	82	9	72	30	26	15	28	1.96
3770596--3770633	18	2.1	19	90	5	60	34	0	13	52	1.40
3770867--3770903	12	3.1	12	92	0	65	32	45	8	13	1.73
3772431--3772464	13	2.6	14	86	13	54	44	8	5	41	1.60
3773775--3774011	112	2.1	112	92	0	386	46	12	14	26	1.79
3775069--3775117	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3775089--3775298	65	3.2	64	77	8	201	26	18	24	30	1.98
3781928--3781967	19	2.0	20	85	4	55	25	15	5	55	1.60
3783411--3783620	65	3.2	64	78	13	209	26	18	24	30	1.97
3785408--3785483	6	12.7	6	98	0	125	53	0	46	0	1.00
3785467--3785611	73	2.0	73	95	0	263	48	4	22	24	1.69
3788166--3788216	15	3.4	15	83	0	57	37	9	31	21	1.86
3788955--3789002	13	3.6	13	83	5	60	60	0	6	33	1.22
3790026--3790059	2	17.0	2	100	0	68	50	0	0	50	1.00
3791118--3791320	80	2.5	80	90	1	318	33	25	18	21	1.96
3799455--3799500	16	2.7	17	86	6	67	34	6	28	30	1.82
3800075--3800164	38	2.4	38	90	7	148	37	38	12	11	1.78
3800277--3800343	29	2.4	28	92	5	109	43	37	8	10	1.71
3801386--3801428	23	1.9	23	86	13	63	46	0	9	44	1.35
3802240--3802361	33	3.6	34	93	4	201	30	9	18	41	1.81
3802414--3802694	36	7.9	36	77	11	285	40	14	19	25	1.90
3802414--3802694	73	4.0	74	76	12	284	40	14	19	25	1.90
3802356--3802695	174	1.9	177	86	4	492	39	14	20	25	1.90
3802449--3802702	138	1.8	138	85	3	359	38	14	19	27	1.90
3804014--3804269	95	2.7	93	84	4	309	33	16	16	33	1.92
3806275--3806317	21	2.0	21	86	0	59	18	27	6	46	1.75
3811689--3811754	10	6.5	10	72	10	53	1	10	13	74	1.15
3811697--3811761	19	3.4	19	71	24	55	1	9	12	76	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3811696--3811760	20	3.3	19	77	12	69	1	9	10	78	1.03
3814813--3814837	13	1.9	13	100	0	50	56	0	8	36	1.29
3814986--3815030	23	2.0	23	82	8	56	75	2	6	15	1.11
3815018--3815043	11	2.4	11	100	0	52	84	7	0	7	0.77
3819488--3819569	40	2.0	40	88	4	121	53	17	7	21	1.67
3819940--3819980	18	2.2	19	83	12	50	51	2	0	46	1.14
3827394--3827484	30	3.0	30	91	0	155	34	24	19	21	1.97
3827394--3827513	60	2.0	60	83	3	152	34	24	20	20	1.97
3828248--3828322	20	3.7	19	74	13	60	24	25	21	29	1.99
3832965--3833067	30	3.4	30	91	0	170	31	24	21	23	1.99

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