genome.fa.s160.2.7.7.80.10.50.1000.23.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  23  of  30  ( 3592 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)
3790683--3790776	41	2.3	41	96	0	170	30	18	12	38	1.88
3790683--3790758	21	3.7	21	78	3	91	30	17	11	40	1.85
3793204--3793242	13	3.0	13	96	0	69	35	15	17	30	1.91
3793228--3793306	20	3.7	20	75	18	70	45	15	13	25	1.83
3795321--3795351	15	2.1	15	93	0	53	12	22	16	48	1.80
3799414--3799439	13	2.0	13	100	0	52	30	15	15	38	1.88
3799499--3799571	20	3.6	20	81	3	101	31	19	13	35	1.91
3799478--3799571	41	2.3	41	96	0	170	30	18	12	38	1.88
3799478--3799553	21	3.7	21	78	3	91	30	17	11	40	1.85
3802329--3802355	13	2.1	13	100	0	54	40	14	14	29	1.86
3803427--3803506	33	2.5	32	87	4	108	38	11	17	32	1.85
3803951--3804064	39	2.9	39	71	3	104	35	14	11	37	1.83
3803953--3804197	78	3.1	76	78	6	258	33	15	11	38	1.84
3804573--3804617	21	2.1	21	95	0	81	40	8	22	28	1.84
3807972--3807996	13	1.9	13	100	0	50	36	16	16	32	1.90
3807932--3808040	53	2.1	53	91	0	173	28	15	18	37	1.91
3808044--3808095	19	2.7	19	78	3	68	44	15	11	28	1.81
3815257--3815287	15	2.1	15	93	0	53	22	32	0	45	1.53
3817346--3817633	153	1.9	154	82	5	368	37	17	13	31	1.89
3820539--3821098	105	5.3	105	70	10	324	43	15	21	19	1.88
3821019--3821185	86	1.9	87	81	7	205	44	14	22	19	1.86
3821105--3821572	105	4.5	104	75	8	323	45	14	21	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3821170--3821567	210	1.9	207	80	6	464	45	14	21	18	1.85
3826949--3827271	153	2.1	154	81	4	366	43	20	12	24	1.86
3827856--3827902	21	2.2	22	78	17	55	46	12	12	27	1.78
3827865--3827911	21	2.3	20	82	7	60	51	14	8	25	1.71
3829634--3829689	20	2.8	20	84	10	69	3	14	0	82	0.81
3829634--3829689	29	1.9	29	92	0	94	3	14	0	82	0.81
3833875--3833924	25	2.0	25	96	0	91	24	18	16	42	1.89
3834629--3834672	12	3.5	12	80	20	54	79	0	15	4	0.89
3834769--3834894	61	2.0	62	89	1	191	26	13	19	40	1.89
3835648--3835866	58	3.8	58	84	3	253	25	10	16	47	1.78
3835695--3835866	58	3.0	59	87	5	262	25	8	18	48	1.76
3842807--3842857	21	2.5	20	78	12	59	68	0	19	11	1.20
3842821--3842867	21	2.2	21	88	7	69	59	0	17	23	1.37
3842882--3842932	21	2.5	20	78	12	59	47	13	19	19	1.83
3848485--3848520	16	2.2	16	90	0	54	13	16	11	58	1.63
3849446--3849470	13	1.9	13	100	0	50	32	16	20	32	1.94
3851111--3851172	10	5.0	14	67	28	59	20	22	12	43	1.86
3851111--3851172	24	2.6	24	97	0	115	20	22	12	43	1.86
3851169--3851195	13	2.1	13	100	0	54	37	14	7	40	1.74
3851365--3851421	13	3.9	13	72	24	51	35	12	17	35	1.87
3851363--3851440	32	2.4	32	97	0	147	33	11	16	38	1.85
3851378--3851441	19	3.7	19	74	23	77	32	10	17	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3851408--3851507	20	4.7	21	78	17	100	39	12	14	35	1.82
3851446--3851518	26	3.0	25	75	22	84	39	13	15	31	1.86
3851429--3851518	46	2.0	46	95	0	162	38	13	15	32	1.86
3857707--3857732	13	2.0	13	100	0	52	30	15	15	38	1.88
3857873--3858607	372	2.0	372	98	0	1434	33	17	15	34	1.91
3858545--3858699	36	4.5	36	79	9	164	30	12	27	30	1.93
3858545--3858699	32	4.6	34	78	10	167	30	12	27	30	1.93
3858547--3858705	68	2.4	68	96	2	295	30	11	26	30	1.92
3860907--3860959	16	3.3	15	74	10	52	43	18	1	35	1.62
3869392--3869798	206	2.0	207	99	0	807	29	16	24	30	1.96
3869996--3870045	25	2.0	25	96	3	93	40	0	6	54	1.25
3870664--3870690	13	2.1	13	100	0	54	29	14	14	40	1.86
3870675--3870728	19	2.8	19	82	2	63	33	20	11	35	1.88
3875987--3876025	20	2.0	20	85	10	53	33	7	2	56	1.41
3876549--3877054	149	3.4	153	82	7	585	29	13	14	42	1.83
3876940--3876984	21	2.1	21	84	8	56	24	4	6	64	1.37
3877585--3877636	20	2.5	21	78	3	61	36	11	19	32	1.87
3877672--3877815	52	2.7	52	83	7	175	30	12	14	42	1.83
3879676--3879876	79	2.6	78	83	4	226	29	16	28	25	1.97
3879828--3879899	28	2.6	28	88	0	99	23	19	34	22	1.96
3879888--3880224	52	6.4	52	68	17	176	32	12	25	29	1.92
3880031--3880112	27	3.0	28	82	10	98	26	21	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3879774--3880166	107	3.7	105	72	11	332	30	14	27	27	1.95
3879821--3880226	212	1.9	212	88	3	620	31	13	26	28	1.94
3880103--3880221	51	2.3	53	85	7	154	34	10	21	32	1.89
3883544--3883626	26	3.0	29	65	22	77	21	21	28	27	1.99
3883521--3886137	55	47.3	55	88	4	3613	21	20	30	28	1.98
3885452--3885541	26	3.3	26	69	19	85	18	17	34	28	1.94
3886001--3886090	26	3.3	26	67	19	76	20	17	33	28	1.95
3887130--3887173	23	1.9	23	90	9	72	0	6	6	86	0.71
3887137--3887175	14	2.7	14	84	4	51	0	7	5	87	0.68
3887143--3887175	13	2.5	13	95	0	57	0	9	3	87	0.63
3899597--3899797	79	2.6	78	83	4	226	29	16	28	25	1.97
3899749--3899820	28	2.6	28	88	0	99	23	19	34	22	1.96
3899809--3900145	52	6.4	52	68	17	176	32	12	25	29	1.92
3899952--3900036	27	3.1	27	85	8	102	28	20	29	22	1.98
3899695--3900086	107	3.7	104	72	11	310	30	14	27	27	1.95
3899742--3900147	212	1.9	212	88	3	611	31	13	26	28	1.94
3900024--3900142	51	2.3	53	85	7	154	34	10	21	32	1.89
3902493--3902559	33	2.0	33	85	0	89	44	16	13	25	1.84
3902579--3902646	19	3.9	18	76	23	83	38	14	11	35	1.83
3902601--3902625	13	1.9	13	100	0	50	32	16	16	36	1.90
3902582--3902644	32	2.0	32	96	0	117	36	15	12	34	1.86
3903007--3903036	12	2.5	12	94	0	51	23	26	13	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3906082--3906115	16	2.1	16	100	0	68	26	26	11	35	1.91
3912593--3913490	28	31.1	29	86	5	1092	23	17	30	29	1.97
3912597--3913490	57	15.5	57	84	5	1050	22	17	30	29	1.97
3914735--3914784	11	4.5	11	85	7	66	0	0	14	86	0.58
3914739--3914786	8	6.1	8	90	4	53	0	0	14	85	0.60
3914737--3914772	15	2.4	15	95	0	63	0	0	13	86	0.58
3914737--3914783	7	6.9	7	85	9	62	0	0	12	87	0.55
3928501--3928577	20	3.8	20	77	6	84	38	12	14	33	1.84
3929801--3929838	20	1.9	20	84	10	51	10	0	34	55	1.34
3931428--3931457	12	2.4	13	94	5	53	40	13	13	33	1.83
3931501--3931557	19	2.9	19	89	5	87	36	17	12	33	1.87
3938032--3938056	10	2.5	10	100	0	50	28	12	8	52	1.66
3940235--3940265	13	2.4	13	94	0	53	38	9	16	35	1.81
3941863--3941893	15	2.1	15	100	0	62	32	12	12	41	1.81
3942397--3942461	33	2.0	33	87	0	94	36	13	15	33	1.87
3943635--3943668	10	3.5	10	84	8	52	50	0	5	44	1.26
3943635--3943673	19	2.1	19	100	0	78	48	0	5	46	1.24
3944144--3944189	18	2.5	19	82	13	60	15	6	4	73	1.19
3949439--3949469	2	15.5	2	100	0	62	48	0	51	0	1.00
3951338--3951377	20	2.0	20	90	0	62	55	5	0	40	1.22
3951343--3951399	20	3.1	19	82	10	73	49	1	0	49	1.11
3951434--3951471	14	2.6	15	83	8	51	60	2	0	36	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3952320--3952363	21	2.1	21	87	8	63	36	0	13	50	1.42
3956217--3956257	2	20.5	2	94	0	73	48	2	0	48	1.14
3957319--3957369	13	3.9	13	78	0	66	31	15	15	37	1.89
3957313--3957366	26	2.1	26	96	0	99	27	14	16	40	1.88
3957868--3957911	23	1.9	23	81	9	54	29	6	22	40	1.80
3959052--3959086	3	11.7	3	93	0	61	37	0	34	28	1.58
3961404--3961499	19	5.7	19	69	26	90	34	12	17	35	1.88
3961424--3961448	13	1.9	13	100	0	50	36	16	16	32	1.90
3961405--3961507	32	3.2	32	92	0	179	33	12	18	34	1.89
3961585--3961713	52	2.5	52	93	0	222	35	18	17	27	1.94

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