genome.fa.s15.2.7.7.80.10.50.1000.24.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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  ( 2909 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)
3811560--3811641	28	2.9	28	83	7	96	24	32	17	25	1.96
3811242--3811636	213	1.9	213	88	2	605	29	27	13	30	1.94
3813253--3813306	20	2.7	20	91	8	83	31	18	11	38	1.86
3815190--3815422	79	3.0	78	76	5	236	33	9	17	38	1.83
3817016--3817120	35	2.8	37	68	11	88	29	14	18	38	1.90
3817092--3817271	77	2.3	77	79	6	195	30	16	16	36	1.91
3820340--3820382	23	1.9	23	90	4	70	41	0	0	58	0.98
3829954--3829990	17	2.2	17	90	4	58	43	0	0	56	0.99
3829943--3829990	17	3.1	16	82	11	57	45	0	0	54	0.99
3830059--3830127	16	4.5	15	77	15	61	34	0	0	65	0.93
3830260--3830297	20	1.9	20	88	0	58	55	2	2	39	1.28
3830723--3830769	17	2.8	17	80	0	58	53	4	2	40	1.32
3835970--3836013	21	2.2	20	83	4	52	52	4	11	31	1.57
3837004--3837046	14	2.9	15	83	13	54	58	2	0	39	1.11
3847926--3848040	51	2.3	50	93	1	194	42	9	18	29	1.82
3847965--3848040	20	3.0	26	66	29	65	46	7	17	28	1.76
3854137--3854176	20	2.0	21	90	5	64	40	10	15	35	1.80
3856825--3856917	29	3.0	30	80	10	116	32	12	15	39	1.85
3856978--3857034	20	2.8	21	83	2	71	33	17	14	35	1.90
3858255--3858815	149	3.8	149	76	5	469	37	18	16	27	1.92
3859447--3859498	21	2.5	21	81	6	61	26	3	1	67	1.18
3860992--3861560	167	3.5	160	75	12	474	48	7	10	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3863485--3863518	16	2.1	16	94	0	59	50	11	11	26	1.73
3866668--3866707	7	5.3	7	83	16	53	5	12	0	82	0.82
3868608--3869081	163	2.9	163	99	0	941	36	5	24	33	1.78
3869508--3869552	19	2.4	19	88	7	65	55	0	0	44	0.99
3869548--3869593	24	2.0	24	86	4	67	60	0	0	39	0.97
3869550--3869592	11	3.7	12	79	14	54	60	0	0	39	0.97
3871005--3871044	13	3.1	13	81	0	53	50	0	0	50	1.00
3871295--3871338	13	3.2	13	83	9	52	25	0	0	75	0.81
3870983--3871395	212	1.9	213	92	2	695	39	4	4	50	1.44
3876468--3876496	10	2.7	11	94	5	51	65	0	10	24	1.23
3878162--3878208	20	2.3	20	96	0	85	38	8	14	38	1.77
3878221--3878246	13	2.0	13	100	0	52	30	15	15	38	1.88
3878235--3878288	21	2.7	20	77	8	65	35	16	12	35	1.87
3879022--3879322	52	6.1	48	75	9	178	31	17	25	24	1.97
3879022--3879410	49	8.1	48	72	14	259	31	17	24	25	1.97
3879022--3879343	149	2.2	148	81	3	362	31	18	25	24	1.97
3879327--3879549	39	5.6	39	65	17	125	28	17	26	27	1.98
3879341--3879487	75	2.0	74	89	1	222	29	16	25	28	1.97
3879517--3880076	49	11.4	49	70	11	326	32	17	25	24	1.97
3879517--3879894	149	2.5	147	80	4	384	32	16	25	25	1.96
3880115--3880209	28	3.3	29	89	5	149	16	16	31	34	1.92
3880249--3880411	33	5.0	33	90	0	247	36	14	31	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3880524--3880598	38	2.0	38	91	0	123	50	10	22	16	1.75
3880631--3880874	30	7.8	31	81	8	273	34	15	27	22	1.94
3880650--3880874	61	3.6	61	80	8	258	32	15	28	23	1.95
3881821--3881857	17	2.2	16	90	4	56	2	2	8	86	0.76
3882101--3882140	20	2.0	21	90	5	64	2	0	15	82	0.77
3889069--3889096	13	2.2	13	100	0	56	39	17	14	28	1.89
3889050--3889116	33	2.0	33	88	5	100	40	13	16	29	1.87
3896405--3896458	21	2.7	19	83	11	65	37	12	18	31	1.89
3896509--3896536	13	2.2	13	100	0	56	28	14	17	39	1.89
3896490--3896555	33	2.0	33	85	5	89	31	16	12	39	1.85
3901948--3901986	6	6.3	6	85	14	53	30	0	2	66	1.05
3901948--3901988	18	2.2	20	91	8	68	31	0	2	65	1.05
3901948--3901986	13	3.2	13	89	7	55	30	0	2	66	1.05
3907783--3908359	155	3.7	155	82	3	655	37	19	18	23	1.94
3907787--3908359	309	1.9	310	82	3	733	37	20	18	23	1.94
3909823--3909847	13	1.9	13	100	0	50	36	16	16	32	1.90
3909803--3909871	32	2.1	33	94	2	122	34	11	17	36	1.86
3909942--3910070	52	2.5	52	97	0	240	35	18	17	27	1.94
3914054--3914494	168	2.6	166	86	5	606	53	8	11	26	1.64
3914076--3914508	165	2.6	168	85	5	585	54	8	10	27	1.63
3914076--3914563	165	2.9	165	81	7	562	53	8	12	26	1.66
3915668--3915831	85	1.9	85	89	0	256	41	14	23	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3915799--3915954	83	1.9	84	79	4	181	47	13	21	17	1.82
3916137--3916240	42	2.5	42	75	0	109	40	21	24	14	1.90
3916208--3916332	42	3.0	42	84	2	153	34	20	26	18	1.96
3916311--3916356	22	2.1	22	91	0	74	32	17	26	23	1.97
3916269--3916390	64	1.9	64	84	0	163	35	20	25	18	1.95
3916333--3916513	42	4.3	42	79	4	177	37	19	26	16	1.93
3916337--3916513	84	2.1	84	83	4	214	37	20	25	15	1.92
3916337--3916558	84	2.6	84	79	6	209	37	19	26	16	1.92
3916493--3916593	43	2.3	43	83	3	123	41	15	25	16	1.88
3916810--3916913	44	2.4	44	83	3	120	43	18	17	21	1.88
3917052--3917137	35	2.5	35	86	0	109	41	9	25	23	1.84
3917345--3917519	93	1.9	92	84	5	237	29	14	26	29	1.95
3917345--3917547	93	2.2	92	80	8	234	30	12	29	28	1.93
3918455--3918494	6	6.7	6	85	0	53	2	0	12	85	0.71
3918455--3918497	18	2.4	18	88	0	59	2	0	11	86	0.67
3919697--3919744	21	2.4	19	86	6	60	37	14	16	31	1.89
3919697--3919748	19	2.6	21	87	6	72	38	15	15	30	1.88
3920781--3920968	51	3.6	51	79	5	216	29	26	11	32	1.91
3920948--3920998	27	1.9	26	100	0	93	29	33	15	21	1.94
3920899--3921102	107	1.9	107	89	3	320	28	28	14	27	1.95
3920781--3921075	52	5.6	52	71	11	235	29	27	11	31	1.92
3920975--3921168	80	2.4	80	86	4	264	29	27	12	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3920796--3921735	291	3.2	289	90	1	1391	28	26	12	31	1.93
3921266--3921446	80	2.3	80	92	3	294	27	28	14	28	1.96
3921377--3921546	52	3.3	51	81	4	198	29	25	11	32	1.91
3921555--3921738	79	2.3	79	83	1	226	26	28	14	30	1.95
3923793--3923827	4	8.8	4	93	0	61	22	0	2	74	0.95
3934107--3934173	11	5.9	11	81	10	64	83	8	5	1	0.86
3934122--3934148	10	2.7	10	100	0	54	92	7	0	0	0.38
3934124--3934159	18	1.9	19	94	5	65	88	8	2	0	0.59
3935241--3935715	55	8.4	55	88	5	582	26	27	22	24	2.00
3935293--3935380	26	3.3	26	65	14	70	25	30	21	22	1.99
3936447--3936496	19	2.5	21	87	6	68	38	10	16	36	1.82
3936528--3936585	21	2.8	21	100	0	116	34	10	17	37	1.84
3936572--3936597	13	2.0	13	100	0	52	30	15	15	38	1.88
3936528--3936608	42	2.0	40	81	13	94	32	12	17	38	1.87
3938956--3939462	52	9.7	50	68	15	233	28	26	12	31	1.92
3939074--3939512	107	4.1	105	77	10	446	28	27	13	30	1.94
3939230--3939304	27	2.7	27	87	6	98	25	33	18	22	1.97
3939433--3939519	28	3.0	30	89	5	92	25	29	14	29	1.95
3939446--3939519	28	2.6	28	97	0	139	22	31	16	29	1.96
3939446--3939544	28	3.5	28	90	0	90	23	33	18	25	1.97
3939498--3939679	79	2.3	78	81	3	204	24	27	16	31	1.96
3943841--3944200	153	2.3	154	85	4	492	37	20	18	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3946208--3946742	167	3.2	166	86	2	639	52	8	12	26	1.67
3948489--3949092	165	3.6	167	81	7	642	28	9	8	53	1.62
3949195--3949223	2	14.5	2	100	0	58	0	48	0	51	1.00
3949247--3949293	25	1.9	24	83	12	60	23	0	0	76	0.78
3955214--3955244	13	2.4	13	94	0	53	35	12	16	35	1.87
3955289--3955342	19	2.7	20	88	5	74	35	18	14	31	1.91
3955331--3955355	13	1.9	13	100	0	50	32	16	16	36	1.90
3955312--3955376	33	2.0	32	90	3	103	36	16	16	29	1.92
3955905--3955981	41	1.9	40	91	2	127	33	29	1	35	1.66
3955896--3955986	22	4.6	19	72	18	62	28	34	1	36	1.65

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