genome.fa.s7782.2.7.7.80.10.50.1000.18.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

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  ( 2174 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)
3729896--3729943	21	2.2	23	81	7	55	27	2	14	56	1.50
3732421--3732516	32	3.0	32	85	0	129	37	16	15	30	1.90
3736364--3736401	20	1.9	20	94	0	67	13	31	39	15	1.86
3742824--3742863	21	1.9	21	85	10	55	35	10	2	52	1.48
3746555--3746607	25	2.1	25	100	0	106	30	18	15	35	1.92
3747968--3748097	67	1.9	67	82	11	160	49	6	4	39	1.50
3750436--3750506	34	2.1	34	84	7	92	22	28	15	33	1.95
3750832--3750869	20	1.9	20	88	0	58	23	18	36	21	1.95
3750919--3750959	20	2.0	20	85	0	55	29	21	26	21	1.99
3751186--3751225	21	1.9	21	89	0	62	50	10	10	30	1.69
3754178--3754217	21	1.9	22	90	10	66	15	10	37	37	1.80
3754353--3754422	20	3.8	19	72	18	58	25	20	32	21	1.97
3755981--3756006	11	2.4	11	100	0	52	7	0	0	92	0.39
3769462--3769505	14	3.2	13	84	12	52	77	0	2	20	0.88
3769467--3769516	5	10.0	5	82	12	50	74	0	6	20	1.03
3769474--3769510	9	4.0	9	92	3	56	72	0	5	21	1.04
3772215--3772308	35	2.7	35	83	0	98	29	1	26	42	1.62
3773264--3773313	16	3.1	16	72	16	50	16	2	4	78	1.00
3773683--3774715	533	1.9	529	93	3	1795	36	9	20	33	1.85
3775563--3775642	40	2.0	40	92	0	133	22	20	27	30	1.98
3775576--3775642	18	3.5	18	75	15	71	22	19	29	28	1.98
3779556--3779593	20	1.9	20	88	0	58	15	26	36	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3779533--3779593	21	3.0	20	78	7	61	14	24	37	22	1.92
3787399--3787622	20	11.1	20	75	4	218	18	13	25	42	1.87
3787391--3787647	100	2.6	100	91	1	399	18	14	24	43	1.87
3787391--3787647	40	6.4	40	82	5	216	18	14	24	43	1.87
3787436--3787687	40	6.3	39	80	9	118	18	13	26	40	1.88
3794292--3794370	28	2.7	27	77	13	77	51	5	7	35	1.52
3796438--3796500	27	2.5	24	76	20	65	30	3	0	66	1.07
3796438--3796500	16	3.7	16	73	21	56	30	3	0	66	1.07
3796462--3796501	19	2.1	19	86	9	55	27	0	0	72	0.85
3796461--3796504	14	3.2	14	78	15	56	25	0	0	75	0.81
3796438--3796501	25	2.5	25	79	18	69	29	3	0	67	1.06
3800659--3801409	110	6.9	110	90	0	1105	34	21	18	25	1.96
3800659--3801409	331	2.3	327	90	2	1164	34	21	18	25	1.96
3801528--3802136	84	7.3	84	78	4	599	29	24	20	25	1.99
3801528--3802152	249	2.5	249	87	1	901	29	24	20	25	1.99
3802478--3802527	3	16.7	3	84	15	68	32	0	0	68	0.90
3802904--3802949	17	2.7	17	78	18	51	23	6	0	69	1.11
3802963--3803051	35	2.6	35	84	12	105	26	3	1	68	1.12
3803979--3804022	23	2.0	23	86	4	63	25	22	22	29	1.99
3807016--3807056	17	2.4	17	91	0	64	29	17	9	43	1.80
3807792--3807820	6	4.8	6	100	0	58	48	0	51	0	1.00
3807996--3808049	21	2.6	21	100	0	108	20	16	33	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808080--3808131	21	2.5	21	81	3	61	38	19	25	17	1.93
3808120--3808220	20	5.0	20	80	7	105	32	24	17	24	1.97
3808117--3808233	61	1.9	61	83	0	153	33	24	17	24	1.96
3808182--3808234	20	2.7	20	90	0	79	24	28	18	28	1.98
3808805--3808988	19	10.1	19	75	15	156	11	21	21	44	1.84
3808805--3808894	39	2.3	38	96	1	162	11	18	22	47	1.80
3808877--3808963	32	2.6	33	92	3	140	11	25	24	39	1.89
3808931--3808988	20	2.9	20	80	10	64	13	24	18	43	1.87
3810987--3811109	42	2.9	42	80	2	122	22	36	17	22	1.95
3811043--3811109	21	3.2	21	66	6	55	23	35	20	19	1.95
3812464--3812499	14	2.6	14	95	0	63	30	0	25	44	1.54
3812626--3812684	19	3.4	19	73	22	74	13	22	18	45	1.84
3812607--3812683	33	2.3	34	84	6	104	18	22	20	38	1.93
3814973--3814997	12	2.1	12	100	0	50	0	28	0	72	0.86
3815172--3815224	24	2.2	24	86	3	72	39	20	15	24	1.91
3816321--3816374	14	3.5	14	77	22	63	11	20	20	48	1.80
3816303--3816373	33	2.2	33	84	0	88	19	19	21	39	1.93
3816316--3816393	33	2.4	33	91	0	120	12	23	21	42	1.87
3816481--3816517	14	2.6	14	86	0	56	48	21	0	29	1.50
3818370--3818436	19	3.5	19	83	4	89	37	23	23	14	1.93
3818484--3818541	14	3.9	14	79	16	71	10	17	24	48	1.78
3818467--3818557	32	2.8	33	94	3	166	12	18	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3818542--3818596	20	2.8	19	83	8	65	16	23	23	36	1.94
3819076--3819120	18	2.5	18	88	0	72	13	15	44	26	1.83
3820442--3820515	20	3.8	20	77	8	71	45	21	17	14	1.84
3820748--3820791	22	2.0	22	95	0	79	18	15	45	20	1.85
3820979--3821051	20	3.7	20	96	0	128	24	19	28	27	1.98
3821072--3821142	21	3.4	21	80	3	99	15	23	18	42	1.88
3821086--3821159	20	3.7	20	80	3	94	17	22	18	40	1.91
3821069--3821159	41	2.2	41	100	0	182	17	24	18	39	1.92
3827759--3827803	24	1.9	23	82	13	56	33	2	11	53	1.49
3831047--3831191	21	6.8	21	78	3	164	35	26	16	21	1.94
3831025--3831191	42	3.9	43	81	4	151	37	25	16	21	1.93
3831047--3831191	42	3.4	42	84	2	182	35	26	16	21	1.94
3835800--3835858	24	2.5	24	97	0	109	33	22	0	44	1.53
3836078--3836131	23	2.2	24	74	9	56	42	22	12	22	1.87
3836088--3836174	42	2.1	42	86	4	122	39	25	13	21	1.90
3836140--3836192	21	2.4	21	78	6	52	45	22	11	20	1.83
3836160--3836233	21	3.6	21	72	7	71	41	22	12	22	1.87
3844629--3844663	18	1.9	18	88	0	52	25	2	14	57	1.51
3851473--3851516	20	2.2	20	95	0	79	50	13	13	22	1.77
3853394--3853423	6	5.0	6	91	0	51	33	46	16	3	1.64
3854039--3854081	21	2.0	21	90	0	68	32	32	18	16	1.93
3855073--3855224	65	2.4	64	84	5	182	30	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3859084--3859118	15	2.3	15	100	0	70	60	8	25	5	1.49
3864313--3864400	30	3.0	29	83	5	104	42	6	17	34	1.75
3866070--3866231	40	4.1	40	93	0	279	23	15	27	33	1.95
3866909--3866963	22	2.5	22	87	3	74	18	21	16	43	1.88
3868443--3868470	13	2.2	13	100	0	56	28	7	28	35	1.84
3868780--3868805	2	13.0	2	100	0	52	50	0	0	50	1.00
3869289--3869322	2	17.5	2	93	6	61	52	0	0	47	1.00
3869324--3869382	13	4.8	13	75	21	56	77	6	15	0	0.96
3869325--3869436	6	18.8	6	73	12	81	76	4	14	4	1.09
3869325--3869437	23	4.8	22	74	18	86	76	4	14	4	1.09
3869345--3869383	7	5.9	7	94	5	64	76	7	15	0	0.99
3869325--3869383	14	4.8	13	78	17	72	77	6	15	0	0.96
3869324--3869412	7	12.6	7	75	17	60	78	4	14	2	1.00
3869366--3869436	29	2.4	30	81	13	85	76	2	14	7	1.11
3871113--3871195	30	2.8	29	80	8	87	40	8	19	31	1.81
3873156--3873317	40	4.1	40	95	0	288	24	16	25	33	1.96
3873425--3873531	45	2.4	45	85	6	137	36	10	22	30	1.88
3873874--3873912	18	2.2	18	85	0	51	17	20	30	30	1.96
3874233--3874324	39	2.4	39	88	3	132	36	15	1	46	1.53
3874590--3874649	30	2.0	30	83	6	77	35	20	18	26	1.95
3879282--3879326	16	2.8	15	81	15	54	77	2	17	2	0.97
3879937--3880230	146	2.0	146	97	0	561	36	22	16	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3880256--3880710	106	4.5	98	84	8	496	35	22	18	23	1.96
3880122--3880833	298	2.3	295	84	7	874	35	22	18	23	1.96
3880416--3880805	104	3.7	105	84	6	513	35	21	19	24	1.96
3881337--3881408	35	2.1	35	97	0	135	38	11	22	27	1.88
3882207--3882283	41	1.9	39	86	5	109	16	28	6	48	1.71
3882299--3882378	40	2.0	40	86	9	112	33	5	5	56	1.43
3882367--3882391	2	12.5	2	100	0	50	48	0	0	52	1.00
3882452--3882519	9	7.9	9	78	6	61	16	5	1	76	1.05
3882444--3882518	14	5.4	14	77	13	66	16	6	1	76	1.07
3883769--3883940	90	1.9	90	83	2	220	29	26	19	23	1.98

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