genome.fa.s2294.2.7.7.80.10.50.1000.12.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  12  of  14  ( 1587 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)
3733300--3733508	7	29.9	7	100	0	418	71	0	0	28	0.86
3740539--3740572	16	2.1	17	88	5	52	79	8	2	8	1.03
3741564--3741605	22	1.9	22	90	0	66	28	11	26	33	1.92
3767590--3767633	22	2.0	21	83	12	54	40	0	0	59	0.98
3773257--3773290	17	1.9	17	88	5	50	32	0	20	47	1.51
3777140--3777194	27	2.0	27	100	0	110	41	18	3	36	1.68
3779437--3779499	11	5.9	11	72	18	53	60	3	3	33	1.28
3779438--3779499	21	2.9	21	73	4	61	61	3	3	32	1.28
3783780--3784090	160	1.9	160	92	1	525	29	17	17	34	1.93
3784275--3784300	12	2.2	12	100	0	52	30	15	11	42	1.82
3785288--3785327	13	3.1	13	82	13	55	40	17	7	35	1.78
3802391--3802421	15	2.0	16	93	6	55	38	6	0	54	1.26
3806711--3806738	14	2.0	14	100	0	56	57	0	7	35	1.26
3822103--3822170	33	2.1	33	81	10	77	75	4	7	13	1.17
3822122--3822182	10	5.8	10	75	16	52	75	3	6	14	1.13
3822127--3822181	24	2.3	23	84	12	67	74	3	7	14	1.17
3823339--3823456	21	5.5	21	72	9	85	38	17	18	24	1.92
3837130--3837157	12	2.3	12	100	0	56	28	7	0	64	1.20
3838956--3838989	8	4.2	8	100	0	68	35	0	23	41	1.55
3849748--3849849	39	2.6	39	84	3	134	24	38	20	16	1.93
3857085--3857114	15	2.0	15	93	0	51	36	40	13	10	1.78
3859021--3859065	17	2.6	17	100	0	90	53	4	22	20	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3860294--3860324	16	1.9	16	93	0	53	35	0	25	38	1.56
3863422--3863466	22	2.0	22	86	0	63	44	4	22	28	1.72
3866574--3866618	22	2.0	22	86	0	63	53	15	11	20	1.72
3867231--3867353	63	2.0	62	82	4	149	26	29	21	23	1.99
3867871--3867943	17	4.1	17	69	19	51	73	1	20	4	1.06
3871587--3871618	16	1.9	17	93	6	57	37	21	0	40	1.54
3871779--3871949	43	4.0	43	75	8	145	33	26	15	23	1.95
3877621--3877646	7	3.7	7	100	0	52	38	30	15	15	1.88
3878010--3878160	47	3.2	47	84	5	207	35	19	13	30	1.91
3878216--3878254	20	2.0	20	89	0	60	38	15	0	46	1.46
3882341--3882381	3	13.7	3	100	0	82	34	0	31	34	1.58
3891809--3891851	19	2.3	19	84	8	52	41	2	0	55	1.12
3891820--3891881	31	1.9	33	90	6	101	43	0	0	56	0.99
3891822--3891889	31	2.3	31	85	7	88	44	0	0	55	0.99
3892087--3892118	16	2.1	15	94	5	55	37	0	9	53	1.34
3892289--3892364	14	5.0	15	74	22	70	36	5	15	42	1.70
3892309--3892347	20	2.0	20	94	0	69	35	2	15	46	1.60
3892296--3892359	34	1.9	33	87	9	94	35	4	15	43	1.68
3892340--3892426	33	2.7	32	79	13	106	28	6	17	47	1.73
3894932--3894957	13	2.0	13	100	0	52	23	30	0	46	1.53
3895764--3895818	22	2.5	22	82	5	67	41	5	1	50	1.36
3899552--3899851	69	4.4	69	86	7	407	29	7	1	61	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3899687--3899733	23	2.1	23	84	11	62	23	4	2	70	1.16
3899725--3899828	32	3.2	32	70	17	106	34	6	0	58	1.24
3899718--3899851	65	2.1	62	79	17	143	31	6	0	61	1.27
3903485--3903524	20	2.0	20	85	4	55	32	7	15	45	1.74
3911213--3911286	20	3.8	19	72	15	53	45	0	1	52	1.09
3911230--3911264	18	2.0	18	88	5	54	51	0	0	48	1.00
3911217--3911291	26	3.0	23	74	14	69	46	0	1	52	1.09
3912879--3912918	15	2.7	15	88	3	64	27	0	0	72	0.85
3914063--3914124	3	20.7	3	96	0	115	35	0	32	32	1.58
3918372--3918397	5	5.2	5	100	0	52	38	19	19	23	1.93
3918877--3918926	21	2.5	20	83	9	57	50	0	30	20	1.49
3919893--3919922	15	1.9	16	93	6	53	26	13	0	60	1.34
3920619--3920659	21	2.0	21	100	0	82	24	21	14	39	1.91
3925872--3925934	31	2.1	30	85	8	85	50	15	1	31	1.54
3928579--3928616	2	19.0	2	100	0	76	50	0	50	0	1.00
3934862--3935086	22	10.2	22	80	0	252	28	8	19	42	1.81
3934859--3935077	44	5.0	44	88	0	312	29	9	18	42	1.81
3936870--3937190	160	2.0	161	92	0	536	44	10	13	32	1.77
3937540--3937571	7	4.4	7	92	7	55	43	40	0	15	1.47
3937542--3937571	15	2.0	15	100	0	60	46	40	0	13	1.43
3939139--3939180	13	3.1	14	83	10	52	73	4	0	21	1.01
3941277--3941477	62	3.2	59	73	20	156	52	4	2	40	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3941372--3941480	37	3.0	35	79	12	105	54	2	1	41	1.25
3941377--3941480	23	4.2	25	73	18	83	53	2	1	41	1.26
3942948--3942978	14	2.2	14	94	0	53	32	25	3	38	1.72
3943537--3943581	22	2.0	22	91	0	72	35	8	8	46	1.66
3948253--3948281	5	5.8	5	100	0	58	58	0	0	41	0.98
3954845--3955194	175	2.0	175	97	0	655	23	27	16	33	1.95
3962684--3962860	44	4.0	44	100	0	354	45	11	13	29	1.78
3962789--3962864	24	3.4	24	61	22	56	46	7	13	32	1.72
3965169--3965199	15	2.1	15	93	0	53	64	0	35	0	0.94
3966251--3966304	21	2.6	21	82	5	65	18	7	40	33	1.78
3966996--3967170	77	2.3	77	88	0	251	48	22	9	20	1.77
3971525--3971577	26	2.0	26	96	0	97	56	22	3	16	1.56
3971790--3971923	48	2.8	48	88	3	207	46	16	11	26	1.80
3972017--3972083	35	1.9	34	84	3	89	62	19	1	16	1.40
3972242--3972348	44	2.6	41	84	10	130	34	25	7	32	1.84
3973402--3973434	15	2.2	15	89	10	50	24	0	0	75	0.80
3982074--3982623	275	2.0	275	97	0	1046	36	18	14	30	1.91
3993054--3993106	26	2.0	26	100	0	106	15	32	22	30	1.94
4001976--4002075	40	2.5	40	75	12	98	38	16	22	24	1.93
4002152--4002372	75	2.9	74	75	12	209	23	34	3	39	1.70
4002297--4002411	61	1.9	61	89	5	180	18	37	4	40	1.70
4002420--4002502	25	3.3	25	84	3	114	12	40	21	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4003771--4003799	11	2.7	11	94	5	51	34	0	0	65	0.93
4004801--4004864	20	3.2	20	93	2	101	34	0	3	62	1.11
4005032--4005118	19	4.5	19	69	11	68	43	2	2	51	1.26
4004984--4005320	59	5.6	59	91	1	512	44	5	3	45	1.44
4006114--4006354	111	2.1	112	87	9	346	43	14	14	27	1.84
4006461--4006823	115	3.2	113	82	7	448	34	16	13	36	1.88
4012634--4012724	43	2.1	43	87	4	130	27	30	16	25	1.97
4020026--4020088	31	2.0	31	96	0	117	55	9	11	23	1.64
4024751--4024795	24	2.0	22	86	8	63	60	0	0	40	0.97
4024746--4024789	16	2.9	16	80	6	56	63	0	0	36	0.95
4024615--4025029	207	2.0	208	99	0	823	39	7	13	40	1.71
4024958--4025002	24	2.0	22	86	8	63	60	0	0	40	0.97
4024953--4024996	16	2.9	16	80	6	56	63	0	0	36	0.95
4025646--4025700	10	5.5	10	72	23	53	67	0	5	27	1.12
4025640--4025705	30	2.1	32	86	5	91	60	1	7	30	1.33
4025886--4025953	20	3.2	21	74	18	61	25	7	8	58	1.54
4025894--4025978	40	2.1	40	82	8	102	24	5	5	63	1.40
4025989--4026054	9	7.0	9	77	13	53	30	1	1	66	1.10
4025992--4026047	19	2.9	19	82	12	69	30	1	1	66	1.12
4025955--4026027	10	7.3	10	75	9	60	31	2	1	64	1.16
4026722--4026759	3	12.7	3	100	0	76	34	0	0	65	0.93
4027194--4027231	18	2.0	20	90	10	62	76	5	0	18	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028668--4028724	25	2.2	26	84	3	71	43	0	3	52	1.18
4032646--4032699	27	2.0	27	92	7	92	22	7	16	53	1.67
4032647--4032712	27	2.4	27	85	12	89	24	9	13	53	1.69
4033387--4033468	20	4.2	20	70	16	73	60	4	2	31	1.30
4033389--4033444	21	2.7	21	81	8	69	62	5	0	32	1.18
4033725--4033853	40	3.2	40	81	3	100	33	21	19	25	1.97
4033737--4033847	40	2.8	40	87	4	154	30	23	20	25	1.99
4033906--4033986	40	2.0	40	83	4	101	28	23	25	22	1.99
4034040--4034065	9	2.9	9	100	0	52	19	11	34	34	1.88
4034204--4034262	31	1.9	31	83	13	77	62	1	3	32	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14