genome.fa.s59.2.7.7.80.10.50.1000.24.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  24  of  25  ( 2913 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)
3820018--3820071	17	3.1	17	78	10	56	44	1	0	53	1.11
3821901--3821940	21	1.9	21	85	10	55	57	0	0	42	0.98
3823206--3823244	16	2.4	16	83	8	53	53	0	0	46	1.00
3824852--3824890	21	1.9	21	94	5	71	46	0	0	53	1.00
3824851--3824897	21	2.2	21	85	11	69	46	0	0	53	1.00
3825261--3825348	43	2.2	41	84	11	112	34	10	2	53	1.47
3825442--3825480	17	2.2	18	90	4	62	25	7	0	66	1.18
3826422--3826470	2	25.0	2	89	4	73	48	0	0	51	1.00
3828399--3828427	14	2.0	15	93	6	51	27	17	6	48	1.72
3828560--3828627	28	2.4	29	81	11	72	41	4	1	52	1.30
3828855--3828893	17	2.4	16	87	12	53	28	5	0	66	1.12
3829164--3829194	13	2.3	13	94	5	53	80	0	0	19	0.71
3829166--3829199	13	2.6	13	85	0	50	76	0	0	23	0.79
3831029--3831083	26	2.1	27	83	6	69	50	0	1	47	1.11
3831904--3831956	24	2.2	24	83	6	63	43	13	1	41	1.54
3832197--3832231	17	2.0	18	88	5	54	62	0	0	37	0.95
3833552--3833612	26	2.5	23	81	10	68	32	6	13	47	1.68
3833958--3834025	19	3.9	19	78	21	85	35	11	14	38	1.83
3833979--3834003	13	1.9	13	100	0	50	36	16	16	32	1.90
3833960--3834022	32	2.0	32	96	0	117	34	12	15	36	1.86
3834045--3834111	33	2.0	33	91	0	107	28	14	13	43	1.84
3834073--3834111	20	2.0	20	94	0	69	33	15	10	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3834065--3834091	13	2.1	13	100	0	54	29	14	14	40	1.86
3836395--3836736	52	6.5	53	70	14	199	29	25	12	32	1.92
3836458--3836850	107	3.7	106	72	12	327	27	27	14	30	1.95
3836400--3836735	104	3.2	102	70	15	281	30	25	12	32	1.92
3836720--3836796	28	2.8	28	87	0	100	23	33	19	23	1.97
3836398--3836803	212	1.9	212	88	3	620	28	26	13	31	1.94
3836750--3836951	78	2.6	79	82	3	230	24	30	16	28	1.96
3837944--3838006	33	2.0	33	87	6	94	66	7	1	23	1.27
3837973--3838015	20	2.2	19	87	4	59	69	6	2	20	1.23
3837977--3838040	24	2.9	22	79	9	69	60	7	3	28	1.39
3840500--3840542	21	2.0	22	86	4	61	62	6	0	30	1.21
3841004--3841197	73	2.7	73	81	4	196	53	9	3	34	1.48
3842453--3842499	20	2.3	21	79	17	55	57	2	0	40	1.11
3844268--3844314	24	1.9	25	82	4	60	63	0	14	21	1.30
3845345--3845387	23	1.9	23	86	13	63	20	2	0	76	0.89
3845343--3845386	17	2.5	17	86	13	63	22	2	0	75	0.92
3846480--3846546	30	2.3	30	84	7	84	17	2	11	67	1.35
3846758--3846825	26	2.6	26	79	11	77	54	4	5	35	1.45
3846760--3846825	27	2.5	26	76	11	73	53	4	6	36	1.46
3846862--3846893	10	3.4	10	87	12	50	25	0	0	75	0.81
3848959--3849011	20	2.7	20	77	13	56	26	7	1	64	1.31
3849771--3849809	15	2.5	15	87	4	51	17	0	2	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849767--3849809	4	11.2	4	80	9	54	18	0	2	79	0.85
3851738--3851768	16	1.9	16	93	0	53	41	0	0	58	0.98
3851754--3851926	83	2.1	84	85	5	235	46	4	2	46	1.36
3852046--3852106	27	2.2	26	85	8	77	49	1	0	49	1.10
3852087--3852124	20	1.9	20	89	10	60	47	0	0	52	1.00
3852809--3852852	16	2.7	16	80	16	54	63	0	4	31	1.14
3854076--3854146	30	2.5	28	81	6	81	56	5	4	33	1.42
3855474--3855521	2	24.0	2	78	0	51	43	6	0	50	1.27
3855474--3855521	18	2.7	18	86	0	69	43	6	0	50	1.27
3861632--3861664	15	2.2	15	94	0	57	75	0	21	3	0.93
3863457--3863549	6	15.0	6	69	14	55	45	2	2	50	1.25
3863592--3863646	27	2.1	27	89	3	85	58	0	0	41	0.98
3864265--3864299	17	2.1	17	88	0	52	60	0	17	22	1.37
3864282--3864317	15	2.4	15	90	0	54	41	0	30	27	1.56
3871982--3872013	16	1.9	17	93	6	57	78	0	0	21	0.76
3872544--3872578	18	1.9	18	88	0	52	42	2	0	54	1.15
3873372--3873403	15	2.2	14	94	5	55	62	0	0	37	0.95
3873469--3873542	12	7.0	12	70	23	60	52	1	1	44	1.17
3873720--3874083	10	34.0	11	69	17	180	46	1	2	49	1.27
3873797--3874075	21	13.6	19	73	17	131	46	1	2	50	1.22
3873834--3874075	33	7.4	33	67	21	84	46	1	2	50	1.23
3873916--3873945	15	2.1	14	93	6	51	36	0	3	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3873901--3874087	62	2.9	61	80	12	198	48	1	1	48	1.20
3873901--3874089	85	2.2	84	81	12	217	48	1	1	48	1.20
3873901--3874083	21	8.6	21	80	12	180	48	1	1	48	1.21
3874567--3874599	2	16.5	2	100	0	66	0	51	0	48	1.00
3876071--3876098	13	2.2	13	100	0	56	32	17	21	28	1.96
3883777--3883809	16	2.1	16	100	0	66	18	18	24	39	1.92
3884249--3884300	14	3.6	14	80	14	70	78	5	3	11	1.05
3884250--3884301	15	3.5	15	80	15	72	80	5	3	9	0.99
3884244--3884305	29	2.1	29	100	0	124	74	8	3	14	1.18
3884690--3884719	16	1.9	15	93	6	51	26	16	3	53	1.59
3885202--3885299	16	6.2	16	82	5	83	13	18	26	41	1.87
3885202--3885299	32	3.1	32	80	1	117	13	18	26	41	1.87
3886276--3886319	3	14.7	3	90	0	70	63	0	31	4	1.14
3899360--3900460	365	3.0	364	95	2	1991	38	13	13	35	1.84
3900513--3900798	138	2.1	138	91	0	464	15	20	12	51	1.75
3901336--3901706	43	8.7	43	77	4	313	36	17	30	15	1.91
3909435--3909476	22	1.9	22	85	9	59	38	0	0	61	0.96
3909847--3909882	18	2.0	18	88	0	54	52	2	0	44	1.15
3915512--3915563	20	2.5	21	87	9	72	30	15	13	40	1.86
3923082--3923172	16	5.9	15	72	14	53	35	1	1	62	1.10
3923089--3923127	14	2.8	14	81	11	53	28	0	0	71	0.86
3923092--3923123	15	2.1	16	94	5	57	21	0	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3924096--3924127	15	2.1	16	94	5	57	46	0	0	53	1.00
3924995--3925052	18	3.2	18	76	13	57	65	0	8	25	1.21
3925384--3925439	17	3.5	16	83	7	69	73	0	1	25	0.93
3925384--3925417	14	2.5	14	85	4	52	70	0	0	29	0.87
3929752--3929782	3	10.3	3	92	0	53	32	3	0	64	1.09
3930610--3930657	24	2.0	24	92	8	80	52	22	12	12	1.73
3930925--3930956	3	10.7	3	100	0	64	0	31	0	68	0.90
3933454--3933493	19	2.1	19	86	9	55	55	0	2	42	1.13
3934191--3934222	16	2.1	16	94	5	57	46	0	0	53	1.00
3934572--3934624	21	2.7	21	83	13	60	41	0	1	56	1.10
3934764--3934805	19	2.2	19	83	8	50	50	0	0	50	1.00
3934850--3934907	16	3.6	16	81	4	71	58	1	0	39	1.08
3934844--3934907	33	1.9	34	90	3	103	60	1	0	37	1.06
3934844--3934900	17	3.4	17	80	7	71	61	1	0	36	1.07
3936299--3936328	10	3.0	10	90	0	51	36	0	3	60	1.14
3937749--3937782	18	1.9	18	88	5	52	26	2	0	70	1.01
3937984--3938023	17	2.3	18	91	4	64	52	7	0	40	1.30
3938528--3938581	23	2.4	23	84	3	65	25	9	11	53	1.66
3945214--3945245	14	2.3	14	94	0	55	15	18	15	50	1.79
3949972--3950002	15	2.1	15	93	0	53	87	9	0	3	0.66
3950689--3950733	19	2.3	20	88	3	65	33	0	0	66	0.92
3950692--3950738	19	2.3	21	82	14	62	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3950692--3950749	20	2.8	20	75	17	57	34	0	1	63	1.04
3951064--3951099	18	1.9	19	88	5	56	30	0	2	66	1.06
3951088--3951115	3	9.3	3	100	0	56	32	0	0	67	0.91
3954308--3954347	3	13.3	3	83	0	53	40	0	25	35	1.56
3954308--3954350	9	4.8	9	97	0	77	41	0	23	34	1.55
3957848--3957874	13	2.1	13	100	0	54	48	14	14	22	1.81
3958449--3958503	28	2.0	28	82	7	67	30	0	3	65	1.10
3958463--3958499	19	1.9	19	89	10	58	27	0	5	67	1.12
3962010--3962048	20	1.9	21	85	15	55	71	2	0	25	0.98
3962089--3962117	2	14.5	2	100	0	58	0	48	0	51	1.00

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