genome.fa.s8620.2.7.7.80.10.50.1000.16.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  16  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)
3137270--3137324	22	2.5	22	96	0	101	23	14	27	34	1.94
3137928--3137981	16	3.5	15	80	7	54	1	14	3	79	0.95
3137930--3137987	15	3.9	14	78	14	53	3	12	3	81	0.95
3137926--3137996	32	2.3	30	76	13	72	4	18	2	74	1.10
3142727--3142780	22	2.5	22	79	8	58	66	1	5	25	1.23
3142736--3142806	22	3.1	23	78	11	67	69	0	4	26	1.07
3142769--3142827	22	2.5	24	75	10	68	66	0	3	30	1.08
3142951--3143000	14	3.3	14	79	17	55	70	6	6	18	1.29
3143526--3143627	37	2.8	37	86	0	132	29	15	14	40	1.87
3143975--3144110	64	2.1	64	87	2	193	26	17	25	30	1.97
3143976--3144129	64	2.4	64	84	4	177	27	18	24	29	1.98
3146761--3146812	20	2.6	20	100	0	104	21	21	32	25	1.98
3146800--3146969	23	7.6	23	71	15	133	27	20	24	27	1.99
3146827--3146944	21	5.4	21	70	15	96	27	18	23	30	1.98
3146804--3146968	44	3.7	44	91	2	269	28	19	24	27	1.98
3152743--3152806	19	3.4	19	97	0	119	20	21	34	23	1.97
3152801--3152952	63	2.4	63	82	10	177	28	19	22	28	1.98
3154619--3154738	23	5.3	23	77	3	93	24	16	25	34	1.96
3154690--3154738	21	2.3	22	85	3	64	28	10	24	36	1.88
3154814--3154850	19	1.9	19	88	0	56	56	2	8	32	1.43
3157975--3158061	45	1.9	45	83	4	113	27	35	10	26	1.89
3158811--3158853	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3159525--3159571	14	3.4	14	77	11	51	78	0	6	14	0.93
3160049--3160100	3	16.7	3	81	15	52	36	3	0	59	1.16
3161836--3161867	2	16.0	2	100	0	64	50	0	0	50	1.00
3163912--3163948	7	5.3	7	100	0	74	43	13	0	43	1.44
3163958--3164049	37	2.4	39	81	3	107	43	9	4	42	1.57
3164051--3164232	36	5.0	36	75	13	160	42	6	2	48	1.42
3164052--3164232	69	2.5	73	79	11	201	43	6	2	48	1.42
3164181--3164278	46	2.1	49	86	9	141	40	6	2	51	1.38
3164228--3164301	37	2.0	39	84	7	100	40	9	1	48	1.44
3170933--3171278	137	2.5	137	77	9	326	42	14	11	32	1.81
3173110--3173184	32	2.3	34	82	13	86	48	0	0	52	1.00
3173110--3173195	38	2.3	37	84	7	120	48	0	0	51	1.00
3173110--3173207	38	3.0	32	74	22	80	46	0	0	53	1.00
3173607--3173676	3	22.7	3	85	5	95	67	1	2	28	1.14
3173608--3173676	31	2.4	28	90	7	102	66	1	2	28	1.14
3173610--3173680	25	2.9	25	83	8	92	67	1	2	28	1.13
3173616--3173689	25	3.0	25	82	4	78	67	2	4	25	1.21
3173874--3174235	121	3.0	118	87	3	519	24	22	15	37	1.93
3175356--3175414	12	4.5	13	77	14	50	6	13	3	76	1.12
3184141--3184179	20	2.0	20	85	10	53	51	0	20	28	1.48
3184526--3184568	20	2.2	20	95	0	77	39	2	9	48	1.48
3187330--3187381	20	2.6	20	96	0	95	38	26	13	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187371--3187469	21	4.8	20	72	6	72	36	23	19	21	1.95
3187436--3187629	20	9.6	20	81	5	221	35	25	19	19	1.95
3187436--3187629	60	3.2	60	83	0	253	35	25	19	19	1.95
3188006--3188076	33	2.2	33	92	0	115	11	22	18	47	1.80
3188197--3188251	14	3.6	14	73	21	56	40	23	27	9	1.85
3188197--3188267	33	2.2	33	92	0	115	42	25	23	8	1.82
3188263--3188360	19	5.7	19	70	22	81	10	24	22	42	1.84
3188285--3188374	14	5.7	14	74	23	81	8	25	23	42	1.83
3188268--3188382	33	3.5	33	95	0	212	9	24	20	45	1.81
3190071--3190447	93	4.1	93	97	2	717	22	12	18	46	1.83
3190490--3190618	19	7.3	19	75	17	125	45	28	17	8	1.77
3190526--3190618	33	2.8	32	91	4	150	46	27	18	7	1.76
3190490--3190618	52	2.5	52	74	14	140	45	28	17	8	1.77
3190614--3190748	19	7.6	19	76	16	137	10	19	24	45	1.81
3190636--3190692	14	3.7	14	77	20	60	8	21	24	45	1.80
3190619--3190711	33	2.8	33	98	0	177	9	20	22	47	1.79
3192541--3192613	38	1.9	38	97	0	137	28	1	16	53	1.51
3192536--3192600	19	3.4	19	64	8	51	24	1	15	58	1.46
3192545--3192637	38	2.4	38	83	5	107	31	1	19	48	1.56
3192595--3192628	13	2.6	14	86	13	54	35	0	23	41	1.55
3192733--3192834	19	5.6	19	84	13	151	44	17	23	14	1.86
3192825--3193093	19	15.5	18	75	16	216	15	21	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3192825--3193093	51	5.2	51	87	8	220	15	21	17	46	1.84
3192841--3193078	87	2.8	85	88	6	326	14	21	17	46	1.83
3192986--3193059	18	4.6	15	71	22	53	13	22	18	44	1.85
3192969--3193155	31	5.7	32	75	14	152	12	22	18	46	1.82
3192841--3193159	33	9.5	33	75	17	191	13	21	18	47	1.83
3192914--3193131	51	4.2	49	87	7	267	14	21	16	47	1.82
3196206--3196572	20	18.5	20	85	5	449	19	18	26	34	1.95
3197056--3197111	28	2.0	29	82	3	69	30	16	5	48	1.68
3212653--3212697	6	7.3	6	89	2	63	6	0	57	35	1.25
3212713--3212758	19	2.4	20	75	20	53	43	0	0	56	0.99
3215141--3215255	60	1.9	60	83	3	151	37	19	13	30	1.89
3215366--3215395	14	2.1	14	93	0	51	53	0	33	13	1.40
3224616--3224689	29	2.5	31	75	16	86	47	8	4	40	1.52
3232962--3232998	18	2.1	18	85	14	51	32	13	10	43	1.79
3235137--3235324	46	4.1	46	88	1	252	26	18	9	46	1.79
3235150--3235324	92	1.9	92	92	0	296	25	18	9	45	1.80
3235472--3235648	54	3.3	53	84	4	203	27	21	20	29	1.98
3236001--3236037	19	1.9	19	88	0	56	32	18	10	37	1.86
3236737--3236778	11	3.8	11	81	6	50	69	4	11	14	1.34
3241083--3241131	10	4.5	10	76	18	53	0	4	10	85	0.71
3241461--3241502	11	3.8	11	81	6	50	69	4	11	14	1.34
3243396--3243447	27	1.9	27	96	0	95	51	5	3	38	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243405--3243460	27	2.1	27	82	0	67	60	5	1	32	1.29
3243525--3243572	25	1.9	25	82	0	60	60	8	0	31	1.26
3243496--3243822	142	2.2	146	82	10	391	61	7	1	29	1.31
3244951--3245321	186	2.0	180	88	6	543	46	7	3	42	1.51
3245818--3245857	20	2.0	20	85	0	53	27	12	30	30	1.93
3245829--3245881	18	2.8	20	85	11	74	26	13	24	35	1.92
3247795--3247829	17	2.1	17	88	0	52	48	5	2	42	1.41
3248492--3248534	21	2.0	21	90	0	68	30	23	11	34	1.90
3250613--3250684	35	2.1	35	94	0	126	40	16	11	31	1.84
3252326--3252397	35	2.1	35	91	0	117	30	11	18	40	1.85
3254944--3254994	26	2.0	26	84	7	68	7	54	7	29	1.57
3268134--3268229	34	2.9	32	83	6	111	29	13	3	54	1.54
3268381--3268449	30	2.3	31	82	7	79	20	15	5	57	1.58
3277490--3277651	40	4.1	40	94	0	279	24	15	26	33	1.95
3277756--3277977	46	4.9	45	88	4	304	42	6	20	30	1.78
3277756--3277983	91	2.5	91	87	6	327	42	6	21	30	1.78
3277756--3277983	45	5.0	45	87	4	316	42	6	21	30	1.78
3281555--3281602	5	9.8	5	78	13	55	77	0	2	20	0.88
3281555--3281607	19	2.7	19	77	13	54	75	1	1	20	0.99
3281556--3281593	16	2.5	15	86	4	58	81	0	2	15	0.80
3282242--3282364	19	6.5	19	70	15	60	56	13	0	29	1.42
3289435--3289476	17	2.5	17	92	0	66	73	0	2	23	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3295177--3295254	35	2.2	35	84	6	104	41	20	0	38	1.53
3295869--3295906	20	1.9	20	94	0	67	60	2	5	31	1.33
3296759--3296784	2	13.0	2	100	0	52	50	0	50	0	1.00
3297654--3297708	12	4.4	13	88	9	71	63	0	0	36	0.95
3297666--3297708	3	13.7	3	90	9	68	65	0	0	34	0.93
3298861--3298898	3	12.3	3	84	15	51	36	0	0	63	0.95
3298852--3298907	24	2.4	24	82	8	62	37	0	1	60	1.07
3313457--3313483	3	9.0	3	100	0	54	66	0	0	33	0.92
3313739--3313781	19	2.2	19	83	4	50	44	0	0	55	0.99
3313865--3313896	17	1.9	16	93	6	55	50	25	6	18	1.70

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