genome.fa.s1547.2.7.7.80.10.50.1000.19.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  19  of  51  ( 6083 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)
3725800--3725913	51	2.3	50	86	6	151	24	21	28	24	1.99
3738540--3738626	35	2.5	34	80	12	97	54	10	8	27	1.62
3739286--3739334	23	2.1	23	96	0	89	10	22	38	28	1.87
3740976--3741032	23	2.7	19	72	27	53	66	0	1	31	1.02
3740966--3741031	25	2.6	26	77	18	68	69	0	1	28	0.97
3741042--3741091	10	5.0	10	82	0	55	44	0	30	26	1.55
3742223--3742698	182	2.6	182	87	1	684	41	14	16	27	1.87
3742619--3742664	20	2.3	19	78	10	56	54	10	15	19	1.70
3744881--3744924	21	2.1	21	91	0	70	40	11	31	15	1.83
3744958--3745023	33	2.0	33	90	0	105	30	0	45	24	1.53
3746809--3746857	19	2.6	19	96	0	89	34	0	8	57	1.29
3747120--3747660	202	2.7	200	93	3	917	36	14	15	33	1.88
3750514--3751062	201	2.7	197	83	3	717	38	14	15	31	1.87
3754116--3754278	87	1.9	87	96	0	299	33	14	11	40	1.82
3754200--3754244	23	2.0	23	90	0	72	37	17	8	35	1.81
3754490--3754516	12	2.2	12	100	0	54	37	14	29	18	1.91
3756663--3756706	20	2.2	20	88	4	63	54	4	4	36	1.41
3759059--3759100	23	1.9	22	85	9	59	38	14	16	30	1.89
3762198--3762342	64	2.2	67	86	6	199	30	21	17	31	1.96
3766036--3766070	15	2.3	15	95	0	61	57	8	28	5	1.52
3768027--3768101	21	3.5	21	76	12	55	32	21	18	28	1.97
3771921--3772057	64	2.2	63	81	6	152	24	23	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3775331--3775399	23	3.0	23	84	0	93	31	26	23	18	1.97
3776060--3776104	23	1.9	24	81	4	56	37	13	0	48	1.42
3776440--3776478	19	2.0	19	85	5	51	30	15	7	46	1.74
3777002--3777137	64	2.1	63	81	6	150	25	23	18	33	1.97
3779023--3779177	64	2.4	64	82	8	190	32	20	16	30	1.95
3783209--3783432	64	3.5	64	81	4	222	32	20	19	28	1.96
3783793--3783864	29	2.5	29	97	2	137	44	16	20	18	1.87
3790265--3790488	64	3.5	64	81	2	209	33	20	18	27	1.96
3790792--3790827	12	3.0	12	91	0	63	33	5	25	36	1.79
3792477--3792520	20	2.2	20	88	4	63	54	4	4	36	1.41
3792617--3792672	27	2.1	27	83	9	71	44	0	3	51	1.18
3794354--3794426	20	3.6	20	81	3	92	30	24	27	17	1.97
3794461--3794503	22	1.9	23	90	4	70	20	20	32	25	1.97
3794451--3794545	21	4.6	20	81	13	102	23	18	34	23	1.96
3794451--3794545	42	2.3	42	85	7	122	23	18	34	23	1.96
3794614--3794682	29	2.3	30	82	9	79	46	15	4	33	1.66
3794625--3794683	30	2.0	30	90	6	93	44	16	3	35	1.65
3797886--3797968	20	4.0	21	80	10	84	25	26	27	20	1.99
3797895--3797968	20	3.7	20	85	3	103	27	24	28	20	1.99
3797886--3797968	41	2.0	41	90	4	132	25	26	27	20	1.99
3798003--3798045	22	1.9	23	90	4	70	20	20	32	25	1.97
3798145--3798202	30	2.0	29	90	10	91	44	15	5	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3798145--3798203	29	2.0	30	93	6	102	44	15	5	35	1.68
3818026--3818058	3	11.0	3	100	0	66	66	0	33	0	0.92
3820086--3820112	4	6.8	4	100	0	54	22	0	0	77	0.76
3820672--3820708	19	2.0	19	89	5	58	62	5	21	10	1.48
3828840--3828868	14	2.0	15	93	6	51	10	6	34	48	1.64
3831546--3831731	92	2.0	92	96	0	345	38	20	19	20	1.93
3832657--3832810	77	2.0	77	100	0	308	33	18	14	33	1.91
3840841--3840865	11	2.3	11	100	0	50	12	44	0	44	1.41
3848606--3848633	10	2.8	10	100	0	56	42	7	0	50	1.30
3849191--3849241	24	2.1	24	85	0	66	29	19	29	21	1.98
3849328--3849700	185	2.0	188	98	1	725	29	23	19	27	1.98
3850642--3850675	18	2.0	18	88	11	54	70	0	14	14	1.17
3863149--3863239	28	3.1	28	78	6	92	38	4	0	57	1.19
3866824--3866923	24	4.2	24	85	0	128	26	13	18	43	1.86
3869117--3869156	17	2.4	17	83	8	55	17	25	25	32	1.97
3871698--3871797	24	4.2	24	86	0	128	25	15	19	41	1.89
3873829--3873869	17	2.4	17	84	8	57	12	24	31	31	1.92
3881199--3881298	24	4.2	24	80	0	110	26	14	18	42	1.87
3881194--3881298	48	2.2	48	80	0	129	25	13	18	42	1.86
3885533--3885600	31	2.2	31	81	5	75	38	14	20	26	1.91
3895192--3895242	23	2.2	23	85	0	66	9	23	15	50	1.73
3895204--3895271	25	2.8	25	88	4	95	11	20	14	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895581--3895615	15	2.3	15	90	0	52	17	11	0	71	1.14
3895699--3895752	27	2.0	28	88	3	83	35	1	11	51	1.48
3895696--3895848	66	2.4	64	82	9	170	44	3	7	45	1.47
3895726--3895803	37	2.1	37	87	0	111	44	3	6	44	1.47
3899380--3899418	2	19.5	2	100	0	78	48	0	0	51	1.00
3900339--3900578	125	1.9	125	83	3	313	45	9	12	32	1.74
3901028--3901069	19	2.2	19	100	0	84	57	19	4	19	1.58
3901345--3901379	17	2.1	17	100	0	70	17	17	31	34	1.93
3902706--3902762	2	28.5	2	100	0	114	49	0	0	50	1.00
3903432--3903484	21	2.5	21	81	0	70	20	22	18	37	1.94
3903474--3903546	20	3.7	20	94	0	119	38	20	19	21	1.94
3903474--3903564	20	4.6	20	87	2	112	36	20	19	23	1.95
3903743--3903808	22	3.0	22	86	0	96	24	37	15	22	1.92
3904133--3904205	33	2.2	34	82	7	87	15	20	24	39	1.91
3904179--3904225	20	2.3	20	88	0	67	19	17	25	38	1.92
3904193--3904247	20	2.8	20	91	0	83	10	16	23	49	1.77
3904212--3904255	20	2.2	20	87	0	61	13	13	20	52	1.74
3906137--3906187	20	2.5	20	93	0	84	41	25	15	17	1.89
3906193--3906330	19	7.7	19	67	21	64	44	20	18	17	1.87
3906140--3906324	53	3.5	53	72	14	155	44	21	17	16	1.87
3906160--3906252	33	2.8	34	78	4	91	47	22	17	12	1.81
3906238--3906292	20	2.8	20	88	2	76	40	20	16	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3906337--3906425	20	4.4	20	94	0	133	21	19	22	37	1.95
3906353--3906435	20	4.2	20	92	0	76	16	19	21	42	1.89
3908549--3908633	33	2.5	33	92	1	134	45	18	22	12	1.83
3908644--3908763	20	6.7	19	72	21	80	15	23	19	42	1.88
3908670--3908723	14	3.5	14	73	22	54	11	24	20	44	1.83
3908648--3908743	33	2.8	33	93	3	156	13	23	18	43	1.86
3908737--3908813	40	1.9	41	89	2	120	22	19	20	37	1.94
3908716--3908823	20	5.4	20	79	8	105	20	19	22	37	1.94
3912156--3912218	20	3.2	20	93	0	99	23	15	26	33	1.95
3912205--3912257	20	2.7	20	93	0	88	18	18	22	39	1.92
3914764--3914835	18	4.2	17	74	15	60	36	0	1	62	1.04
3914771--3914851	30	2.5	33	82	13	107	38	0	1	60	1.05
3914773--3914851	33	2.4	33	83	10	90	39	0	1	59	1.06
3914781--3914863	31	2.8	29	81	13	89	38	0	1	60	1.05
3914780--3914864	17	5.4	15	71	17	57	38	0	1	60	1.05
3916447--3916538	21	4.5	21	89	8	111	18	33	27	20	1.96
3917050--3917144	31	2.8	35	75	18	92	55	4	3	36	1.35
3917648--3917845	100	2.0	100	98	0	387	30	22	27	18	1.97
3917522--3917970	225	2.0	224	98	1	873	31	20	26	20	1.98
3917740--3917971	125	1.8	127	97	1	441	31	20	26	21	1.98
3918040--3918078	15	2.6	15	79	0	51	35	30	0	33	1.58
3920008--3920373	181	2.0	182	97	2	693	30	20	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3923344--3923425	29	2.8	29	94	1	137	32	14	9	42	1.79
3923774--3923803	10	3.0	10	100	0	60	20	60	20	0	1.37
3927991--3928072	29	2.8	29	90	1	128	32	15	9	41	1.80
3928991--3929463	241	2.0	242	91	1	779	25	23	17	33	1.96
3931120--3931201	33	2.5	33	92	2	130	12	9	37	40	1.76
3931781--3931827	18	2.7	18	93	3	78	27	31	8	31	1.87
3935117--3935183	30	2.2	30	83	0	89	47	19	2	29	1.64
3936475--3936519	8	5.5	8	82	12	56	44	0	2	53	1.13
3936475--3936520	16	2.9	16	87	6	67	43	0	2	54	1.12
3938140--3938195	27	2.1	26	83	9	69	21	3	1	73	1.08

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