genome.fa.s8094.2.7.7.80.10.50.1000.19.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  19  of  43  ( 5090 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)
3768641--3768698	14	4.3	14	79	12	59	77	0	20	1	0.86
3768644--3768698	29	2.0	29	85	7	78	78	0	20	1	0.85
3768643--3768693	8	6.1	8	76	14	50	80	0	17	1	0.81
3768644--3768707	27	2.4	28	82	12	73	78	0	17	4	0.92
3768660--3768705	14	3.2	14	84	3	56	80	0	15	4	0.86
3768660--3768717	29	2.0	30	83	16	77	79	0	13	6	0.93
3770505--3770713	54	3.9	54	83	2	233	39	14	20	25	1.91
3770504--3770702	108	1.8	108	84	6	269	39	14	21	24	1.91
3771803--3771921	36	3.3	34	70	22	98	32	15	10	42	1.80
3771796--3771980	73	2.5	73	91	1	282	35	13	11	40	1.81
3772007--3772070	19	3.3	19	64	20	51	40	10	28	20	1.86
3771988--3772248	39	6.7	39	89	1	380	41	11	24	22	1.86
3771988--3772248	78	3.3	78	93	0	432	41	11	24	22	1.86
3773662--3773724	22	2.4	27	70	29	73	22	11	3	63	1.41
3773671--3773720	22	2.3	22	100	0	100	22	12	4	62	1.46
3773810--3773848	11	3.2	12	89	7	53	25	0	5	69	1.09
3773891--3774145	141	1.8	139	82	8	329	38	4	10	46	1.59
3777712--3777783	19	3.5	20	85	9	92	30	15	25	29	1.96
3778118--3778430	55	5.6	56	89	1	443	38	10	17	33	1.83
3782057--3782108	21	2.5	21	81	3	61	38	19	25	17	1.93
3782097--3782150	20	2.7	20	94	0	99	31	24	14	29	1.95
3782094--3782210	61	1.9	61	82	0	144	33	24	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3782159--3782211	20	2.7	20	93	0	88	24	28	20	26	1.99
3782767--3782808	19	2.2	19	91	0	66	52	26	16	4	1.63
3782804--3782893	19	4.7	19	91	2	144	11	18	22	47	1.80
3782804--3782893	39	2.3	38	96	1	162	11	18	22	47	1.80
3782804--3782904	39	2.6	39	89	4	116	9	19	24	45	1.81
3782918--3782953	14	2.6	14	90	0	54	13	19	25	41	1.88
3782866--3782939	33	2.2	33	85	0	103	12	20	27	40	1.87
3782945--3782994	20	2.5	20	83	6	57	14	24	22	40	1.90
3785061--3785127	21	3.2	21	66	6	55	23	35	20	19	1.95
3785009--3785127	42	2.8	42	81	5	107	22	36	18	22	1.95
3786479--3786514	14	2.6	14	95	0	63	30	0	25	44	1.54
3786693--3786810	19	6.7	19	63	19	58	16	22	20	41	1.90
3786696--3786790	33	2.9	31	83	9	127	15	22	20	42	1.89
3789084--3789108	12	2.1	12	100	0	50	0	28	0	72	0.86
3789283--3789336	24	2.2	24	90	0	81	38	20	16	24	1.92
3790391--3790448	20	2.9	20	97	0	107	37	24	22	15	1.93
3790472--3790525	14	3.5	14	77	22	63	11	20	20	48	1.80
3790454--3790524	33	2.2	33	84	0	88	19	19	21	39	1.93
3790467--3790544	33	2.4	33	91	0	120	12	23	21	42	1.87
3790632--3790668	14	2.6	14	86	0	56	48	21	0	29	1.50
3792535--3792601	19	3.5	19	75	4	71	41	23	19	14	1.89
3792590--3792647	14	3.9	14	79	16	71	48	25	17	8	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792574--3792652	32	2.4	33	95	2	142	46	24	18	10	1.80
3793082--3793124	20	2.2	20	86	0	59	48	20	18	11	1.79
3793403--3793446	22	2.0	22	95	0	79	18	15	45	20	1.85
3793634--3793747	20	5.7	20	80	6	113	24	19	26	29	1.98
3793614--3793749	41	3.3	41	77	6	150	24	18	25	32	1.97
3793737--3793829	20	4.5	21	78	4	100	17	24	18	39	1.91
3793676--3793810	41	3.3	41	82	4	139	19	21	21	37	1.94
3793737--3793829	41	2.3	41	100	0	186	17	24	18	39	1.91
3794261--3794297	15	2.5	15	95	0	65	8	70	16	5	1.30
3801559--3801589	6	5.2	6	92	0	53	16	0	64	19	1.29
3809513--3809551	20	2.0	20	84	0	51	38	7	15	38	1.76
3809496--3809611	52	2.3	51	89	7	189	30	8	14	46	1.75
3812199--3812254	27	2.1	27	100	0	112	32	26	10	30	1.90
3814698--3814789	20	5.0	20	69	22	67	34	5	15	44	1.69
3814681--3814796	52	2.3	51	92	1	196	30	6	14	48	1.70
3825428--3825576	63	2.5	59	83	10	178	48	15	16	18	1.81
3826756--3826880	50	2.5	49	80	11	146	16	33	27	22	1.96
3826982--3827021	10	4.0	10	84	12	55	32	27	0	40	1.57
3827149--3827480	111	3.0	111	94	0	547	36	7	11	45	1.67
3828582--3828696	23	5.0	23	81	0	149	29	24	26	19	1.98
3828582--3828696	46	2.5	46	98	0	221	29	24	26	19	1.98
3829098--3829161	2	32.0	2	100	0	128	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3831618--3831651	16	2.1	16	100	0	68	41	17	17	23	1.90
3841294--3841330	12	3.2	12	77	14	51	32	5	51	10	1.60
3841471--3841593	51	2.4	51	80	2	122	23	27	32	16	1.96
3842652--3842732	33	2.4	33	76	12	83	50	0	2	46	1.14
3842635--3842774	70	2.1	66	80	8	147	47	0	1	50	1.15
3843340--3843385	17	2.6	18	93	3	76	50	8	10	30	1.68
3849557--3849630	37	2.0	37	100	0	148	27	21	29	21	1.99
3851983--3852026	23	1.9	23	95	0	79	22	25	31	20	1.98
3852035--3852260	103	2.2	103	95	1	400	36	24	12	26	1.91
3852726--3852763	20	1.9	20	88	0	58	10	26	34	28	1.90
3852791--3852833	21	2.0	21	81	0	50	16	25	30	27	1.97
3856092--3856191	38	2.7	38	68	9	89	34	17	14	35	1.89
3856155--3856711	71	7.9	70	82	7	574	29	21	10	38	1.87
3858240--3858298	22	2.8	20	75	14	55	16	6	1	74	1.11
3858378--3858416	21	1.9	21	89	5	62	10	10	2	76	1.10
3858389--3858419	15	2.1	15	100	0	62	12	12	0	74	1.08
3858486--3858525	19	2.3	18	84	16	50	17	7	5	70	1.30
3861517--3861579	23	2.7	23	82	4	83	20	25	26	26	1.99
3875452--3875502	22	2.3	22	86	0	66	25	11	17	45	1.83
3875463--3875559	50	1.9	51	85	6	135	31	14	17	36	1.90
3888880--3888935	16	3.1	19	75	17	57	67	0	8	23	1.18
3891212--3891282	21	3.3	21	74	16	65	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3896688--3896725	18	2.1	18	85	9	51	36	5	7	50	1.54
3903620--3903657	18	2.1	18	85	9	51	36	5	7	50	1.54
3905251--3905304	11	5.1	10	80	6	54	16	1	1	79	0.91
3905253--3905305	21	2.6	21	77	19	58	18	1	1	77	0.96
3908423--3908457	15	2.3	15	90	0	52	37	31	0	31	1.58
3908428--3908457	3	10.0	3	92	0	51	36	33	0	30	1.58
3912029--3912057	11	2.6	11	100	0	58	20	10	17	51	1.74
3913419--3913489	35	2.0	35	91	0	115	22	9	23	43	1.83
3914375--3914413	19	2.1	19	95	0	69	20	38	15	25	1.92
3914312--3914520	65	3.2	63	83	8	217	29	25	17	27	1.98
3914361--3914521	65	2.5	65	86	3	218	30	26	16	27	1.96
3914361--3914541	64	2.8	64	83	2	220	29	26	17	27	1.97
3920318--3920373	22	2.7	21	83	10	62	30	23	17	28	1.97
3921914--3921957	21	2.1	21	86	0	61	9	36	15	38	1.80
3922994--3923032	19	2.1	19	95	0	69	20	38	15	25	1.92
3922931--3923139	65	3.2	63	82	8	208	29	25	17	27	1.97
3922980--3923140	65	2.5	65	84	3	209	30	25	16	27	1.96
3922931--3923160	64	3.6	64	80	6	216	29	25	17	27	1.98
3926642--3926675	16	2.1	16	89	10	52	52	0	5	41	1.25
3928323--3928357	2	17.5	2	100	0	70	51	0	0	48	1.00
3929509--3929551	18	2.7	15	77	19	50	20	4	2	72	1.14
3929549--3929593	2	23.5	2	88	8	67	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3929533--3929601	12	5.6	12	83	13	70	37	0	0	62	0.96
3929581--3929619	12	3.4	11	89	7	51	20	2	5	71	1.17
3929863--3929892	15	1.9	16	93	6	53	13	6	0	80	0.91
3934387--3935170	84	9.4	83	82	3	813	29	25	20	24	1.99
3936390--3936465	21	3.9	18	69	23	55	17	3	2	76	1.06
3936487--3936522	2	18.0	2	100	0	72	50	0	0	50	1.00
3936615--3936724	3	35.7	3	75	18	75	26	1	3	68	1.16
3936614--3936724	25	4.4	25	74	18	86	26	1	3	68	1.16
3936690--3936729	15	2.6	15	88	4	53	30	2	2	65	1.19
3936640--3936733	49	1.9	49	84	4	127	23	3	3	70	1.17

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