genome.fa.s9586.2.7.7.80.10.50.1000.18.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  18  of  19  ( 2170 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)
3522242--3522731	138	3.5	138	85	3	637	23	18	21	35	1.96
3522875--3522925	23	2.2	23	82	6	59	49	0	19	31	1.49
3525555--3525612	17	3.5	17	75	13	66	60	0	0	39	0.97
3525550--3525641	33	2.8	33	81	6	89	61	2	0	35	1.08
3531659--3531717	31	1.9	31	89	6	93	44	3	5	47	1.42
3531670--3531738	31	2.2	31	84	5	86	46	4	8	40	1.55
3532203--3532258	28	2.0	29	85	3	78	33	21	17	26	1.96
3537154--3537231	31	2.5	31	78	0	75	28	11	23	37	1.89
3537755--3537821	16	4.2	16	75	3	73	10	13	28	47	1.75
3538181--3538686	253	2.0	253	100	0	1012	44	11	15	27	1.82
3538936--3539007	2	36.5	2	85	13	96	51	2	1	44	1.24
3538956--3539040	35	2.6	34	83	12	106	51	4	3	40	1.40
3542758--3542789	14	2.3	14	100	0	64	6	40	18	34	1.76
3553551--3553578	13	2.2	13	100	0	56	85	0	0	14	0.59
3554726--3554790	23	2.7	25	76	13	73	64	1	7	26	1.29
3554823--3554891	2	35.5	2	80	16	74	53	2	1	42	1.24
3558766--3558817	17	3.2	17	75	10	54	32	1	13	51	1.52
3560256--3560293	2	19.0	2	100	0	76	50	0	0	50	1.00
3576900--3576967	36	1.9	36	87	3	102	22	22	20	35	1.96
3587365--3587419	6	8.7	6	76	23	51	63	0	21	14	1.30
3587365--3587419	13	4.3	12	75	25	51	63	0	21	14	1.30
3587365--3587419	19	2.9	19	97	0	101	63	0	21	14	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603776--3604440	278	2.5	267	85	8	856	33	15	15	35	1.89
3604267--3604304	20	1.9	20	100	0	76	31	13	26	28	1.93
3604268--3604316	20	2.5	20	90	6	73	34	16	20	28	1.94
3606521--3606555	9	3.9	9	92	7	54	5	14	0	80	0.89
3612452--3612498	16	2.7	19	69	30	50	55	12	4	27	1.56
3624805--3624851	3	16.0	3	93	4	78	36	0	0	63	0.94
3624871--3625492	310	2.0	309	97	1	1185	27	33	19	18	1.96
3626326--3626367	14	2.9	14	83	16	50	30	4	4	59	1.39
3626723--3626759	17	2.1	18	90	5	58	54	0	0	45	1.00
3628148--3628218	35	2.0	36	86	8	101	40	18	12	28	1.87
3628813--3628844	14	2.4	13	94	5	55	84	0	15	0	0.63
3628813--3628863	23	2.3	23	80	12	61	78	0	17	3	0.90
3628835--3628872	16	2.3	18	86	13	55	73	0	18	7	1.06
3629351--3629381	15	2.1	15	100	0	62	54	12	6	25	1.62
3632900--3633172	36	7.5	36	71	3	224	31	17	13	38	1.88
3632900--3633182	73	3.9	73	93	1	480	30	18	13	38	1.88
3633213--3633662	123	3.7	122	89	1	677	40	15	19	24	1.91
3635057--3635103	14	3.2	16	70	29	50	31	2	4	61	1.27
3638299--3638324	10	2.6	10	100	0	52	23	7	7	61	1.49
3645377--3645431	20	2.8	20	97	0	101	25	16	30	27	1.96
3645417--3645501	35	2.4	35	96	0	152	29	18	18	32	1.95
3645452--3645574	54	2.3	55	88	4	178	31	19	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3650198--3650314	25	4.4	27	65	27	72	42	5	14	37	1.68
3650200--3650327	40	3.2	40	67	22	122	40	5	16	37	1.72
3650222--3650348	39	3.2	39	67	22	118	42	3	16	37	1.67
3650195--3650356	81	2.0	81	100	0	324	43	4	14	37	1.68
3654957--3655280	160	2.0	163	98	1	627	39	12	20	27	1.89
3656934--3656998	20	3.2	20	82	4	78	33	15	16	33	1.91
3658368--3658434	22	3.0	22	88	0	98	25	20	25	28	1.99
3661071--3662737	557	3.0	556	96	0	3030	39	7	22	30	1.82
3664304--3664346	22	2.0	22	90	0	68	25	16	23	34	1.95
3669206--3669269	22	2.9	22	83	0	83	29	20	20	29	1.97
3670013--3670139	35	3.6	35	83	3	148	35	17	20	26	1.95
3670215--3670433	47	4.6	47	70	19	141	36	20	17	26	1.94
3670123--3670421	141	2.1	141	91	0	490	36	19	17	27	1.94
3670123--3670464	141	2.4	141	87	2	474	36	19	17	26	1.93
3670608--3670656	21	2.3	22	89	3	73	48	0	0	51	1.00
3670613--3670656	16	2.7	16	82	3	52	47	0	0	52	1.00
3671096--3671135	3	12.3	3	85	15	53	65	32	2	0	1.06
3671532--3671570	13	2.8	13	88	7	51	25	2	0	71	0.98
3677101--3677130	2	15.5	2	93	6	53	53	0	0	46	1.00
3679070--3679278	43	4.6	45	71	10	147	24	18	29	26	1.98
3680224--3680297	14	4.9	15	79	12	55	8	18	0	72	1.08
3680234--3680297	14	4.4	14	82	9	74	7	18	0	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3680234--3680299	16	4.3	16	81	12	77	7	18	0	74	1.05
3692309--3692349	2	20.5	2	100	0	82	51	0	0	48	1.00
3697082--3697132	18	2.8	18	82	8	59	31	19	3	45	1.69
3703255--3703302	23	2.1	23	84	0	60	37	12	14	35	1.84
3703684--3703756	23	3.2	23	82	0	83	41	19	5	34	1.74
3704159--3704284	39	3.2	39	95	0	225	17	12	20	49	1.79
3704827--3704877	25	2.0	25	92	0	84	39	19	7	33	1.81
3705145--3705196	23	2.3	22	90	6	77	44	19	1	34	1.62
3705155--3705217	23	2.7	23	90	0	90	38	19	6	36	1.77
3705571--3705622	23	2.3	22	90	6	77	44	19	1	34	1.62
3705581--3705643	23	2.7	23	90	0	90	38	19	6	36	1.77
3705995--3706070	21	3.5	22	78	10	75	39	21	5	34	1.76
3704909--3706599	426	3.9	431	97	1	3206	39	12	8	39	1.74
3706428--3706479	23	2.3	22	90	6	77	44	19	1	34	1.62
3706438--3706500	23	2.7	23	90	0	90	38	17	7	36	1.79
3704909--3706599	857	2.0	856	97	1	3203	39	12	8	39	1.74
3709623--3709665	22	1.9	23	90	4	70	44	13	11	30	1.80
3709661--3710354	365	1.9	365	94	2	1223	33	16	13	36	1.88
3709661--3710354	183	3.8	183	96	1	1225	33	16	13	36	1.88
3711552--3711623	3	24.0	3	78	0	72	25	34	5	34	1.79
3713052--3714795	195	8.9	198	97	2	3276	30	16	16	36	1.91
3714914--3714962	19	2.6	19	93	0	80	57	10	2	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3716840--3716881	21	2.0	21	85	0	57	14	30	16	38	1.89
3718918--3718965	20	2.4	19	83	10	69	20	16	10	52	1.73
3719088--3719132	20	2.2	20	92	7	74	17	17	11	53	1.72
3720438--3720473	18	2.0	18	100	0	72	66	11	11	11	1.45
3720636--3721145	192	2.6	191	80	6	525	41	13	14	30	1.84
3725057--3725098	19	2.2	19	87	8	59	50	4	2	42	1.36
3728607--3728638	15	2.1	15	100	0	64	43	18	6	31	1.75
3729789--3729849	20	3.1	20	67	21	56	32	11	3	52	1.54
3729773--3729849	39	2.0	39	94	2	138	33	10	2	53	1.49
3733603--3733638	18	2.0	18	88	0	54	58	0	19	22	1.40
3734501--3734553	27	2.0	26	88	3	79	30	28	16	24	1.97
3734764--3734858	36	2.7	36	85	1	129	42	26	1	30	1.62
3734762--3734844	35	2.3	35	87	2	121	42	22	1	33	1.62
3735357--3735392	9	4.3	9	83	16	51	58	0	0	41	0.98
3735341--3735636	148	2.0	149	89	2	452	48	9	7	34	1.63
3737165--3737252	3	29.3	3	100	0	176	32	0	67	0	0.91
3741049--3741086	8	4.9	8	80	6	51	34	0	26	39	1.57
3741157--3741657	128	3.9	128	97	0	921	23	25	18	32	1.97
3742016--3742107	21	4.4	21	90	5	125	21	27	32	18	1.97
3742113--3742160	21	2.3	21	85	0	60	22	12	39	25	1.89
3742472--3742556	32	2.6	32	81	5	98	60	2	0	37	1.10
3742467--3742547	35	2.4	34	81	8	103	61	1	0	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3742500--3742579	34	2.3	34	81	12	92	65	5	0	30	1.14
3744969--3745031	28	2.2	28	85	2	81	55	20	1	22	1.52
3745112--3745164	18	2.7	21	80	14	67	56	20	0	22	1.42
3745986--3746075	28	3.2	28	79	14	89	22	2	18	56	1.52
3746140--3746215	29	2.6	29	83	8	91	25	2	15	56	1.52
3757137--3757192	15	4.0	14	73	15	53	26	3	0	69	1.04
3757137--3757192	21	2.7	20	78	8	67	26	3	0	69	1.04
3757190--3757214	2	12.5	2	100	0	50	48	0	0	52	1.00
3758661--3758710	24	2.1	23	82	14	57	44	0	2	54	1.11
3761269--3761345	26	2.9	27	77	11	70	19	12	5	62	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19