genome.fa.s258.2.7.7.80.10.50.1000.15.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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  15  of  25  ( 2900 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)
3460580--3460611	2	16.0	2	100	0	64	0	0	50	50	1.00
3460923--3460956	2	17.0	2	100	0	68	50	0	0	50	1.00
3462677--3462725	23	2.1	23	88	0	71	59	2	0	38	1.09
3464096--3464214	51	2.5	46	78	13	114	45	2	4	47	1.35
3464818--3464875	6	10.0	6	73	14	50	32	1	0	65	1.03
3464853--3464894	22	1.9	22	85	9	59	38	0	2	59	1.10
3466009--3466069	23	2.6	25	75	21	60	39	3	3	54	1.33
3466262--3466304	19	2.2	20	87	4	61	48	0	0	51	1.00
3466770--3466801	3	10.7	3	93	0	55	68	3	0	28	1.04
3466912--3466952	20	2.0	21	90	4	66	34	0	4	60	1.18
3467019--3467056	20	1.9	20	84	10	51	42	5	2	50	1.39
3467151--3467193	17	2.6	16	78	10	50	18	6	0	74	1.04
3467481--3467519	19	2.0	20	90	5	62	35	10	7	46	1.67
3467736--3467768	10	3.3	10	100	0	66	78	0	0	21	0.75
3472695--3472740	22	2.0	23	91	4	76	58	0	2	39	1.10
3472680--3472809	59	2.2	59	83	6	165	53	0	0	45	1.05
3472705--3472813	30	3.8	29	83	6	141	58	0	0	41	0.98
3472686--3472819	28	4.7	28	75	17	105	55	0	0	43	1.04
3476683--3476716	6	5.7	6	96	0	50	17	8	50	23	1.74
3477306--3477352	21	2.3	20	79	13	51	36	0	4	59	1.17
3477312--3477360	21	2.3	21	79	6	55	40	0	4	55	1.19
3477297--3477358	30	2.0	30	82	14	74	35	0	4	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477315--3477383	28	2.3	30	80	11	72	39	0	1	59	1.06
3477341--3477376	18	2.1	18	89	5	56	41	0	0	58	0.98
3477794--3477834	15	2.7	15	85	11	57	65	7	0	26	1.18
3477794--3477834	14	2.8	14	88	7	55	65	7	0	26	1.18
3478801--3478837	2	18.5	2	100	0	74	48	0	0	51	1.00
3484352--3484384	2	16.5	2	100	0	66	51	0	0	48	1.00
3484849--3484880	6	5.7	6	96	3	50	15	0	0	84	0.63
3485286--3485317	2	16.0	2	100	0	64	50	0	0	50	1.00
3486126--3486154	2	15.0	2	92	7	51	48	0	0	51	1.00
3486598--3486625	3	9.3	3	100	0	56	32	0	0	67	0.91
3488384--3488412	2	14.5	2	100	0	58	48	0	0	51	1.00
3488739--3488788	22	2.2	24	85	7	68	40	6	0	54	1.25
3488745--3488795	22	2.3	23	82	3	59	37	9	0	52	1.34
3492576--3492642	23	2.8	23	77	14	73	47	0	0	52	1.00
3492592--3492639	18	2.6	18	80	9	53	50	0	0	50	1.00
3492573--3492636	25	2.5	25	82	12	85	51	0	0	48	1.00
3494969--3495007	19	2.2	17	90	9	60	58	0	0	41	0.98
3494973--3495053	16	4.7	17	71	15	51	54	4	0	40	1.22
3495228--3495352	32	3.6	33	67	20	85	40	3	0	55	1.22
3495222--3495364	72	2.0	72	94	0	250	41	2	2	53	1.27
3495282--3495320	18	2.2	18	86	9	53	48	0	2	48	1.15
3496155--3496203	18	2.6	18	79	17	55	59	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3496151--3496200	20	2.5	20	87	6	66	58	4	0	38	1.17
3496230--3496262	17	1.9	17	93	0	57	21	6	18	54	1.64
3496431--3496492	25	2.5	24	77	10	72	56	1	0	41	1.09
3498667--3498716	13	4.4	11	78	19	50	48	0	2	50	1.12
3498676--3498738	21	3.3	19	77	16	67	52	0	1	46	1.10
3498670--3498750	17	4.9	16	73	19	60	49	0	2	48	1.14
3498705--3498753	17	3.0	16	85	11	64	51	0	2	46	1.12
3499107--3499146	15	2.5	16	84	12	55	50	2	2	45	1.28
3499391--3499430	21	2.0	19	85	9	53	17	7	0	75	1.03
3505857--3505941	31	2.8	31	70	8	75	56	2	0	41	1.12
3505930--3506010	40	2.0	41	85	7	112	54	2	0	43	1.13
3505953--3506013	28	2.1	30	85	11	83	52	3	0	44	1.17
3505950--3506008	14	4.4	13	75	25	52	54	1	0	44	1.10
3514069--3514106	17	2.2	18	85	4	51	65	0	0	34	0.93
3514194--3514227	17	1.9	18	88	5	52	35	0	2	61	1.11
3514567--3514597	16	1.9	16	100	0	62	58	0	0	41	0.98
3514720--3514757	18	2.1	18	90	0	58	63	0	0	36	0.95
3514740--3514774	11	3.3	10	92	8	52	57	0	0	42	0.99
3514892--3514942	18	2.8	18	82	8	59	56	0	0	43	0.99
3522168--3522335	85	2.0	85	84	4	223	35	11	10	42	1.75
3525470--3525494	13	1.9	13	100	0	50	0	0	96	4	0.24
3533663--3533705	19	2.4	17	81	14	50	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3533668--3533703	17	2.1	18	89	5	56	33	0	0	66	0.92
3535208--3535241	15	2.3	15	90	10	52	52	2	0	44	1.16
3536814--3536873	18	3.3	17	77	11	57	48	10	0	41	1.37
3536908--3536946	2	20.0	2	84	5	53	53	0	2	43	1.14
3538047--3538090	15	2.9	16	83	16	58	70	0	4	25	1.06
3540776--3540811	15	2.5	15	90	4	56	16	5	0	77	0.94
3540852--3540885	2	17.0	2	100	0	68	50	0	0	50	1.00
3551712--3551778	30	2.3	30	83	14	88	59	1	1	37	1.16
3551832--3551991	9	15.9	10	70	20	95	57	1	0	40	1.14
3551828--3551945	31	3.8	29	76	13	101	55	0	0	43	1.11
3551826--3552129	42	7.2	41	73	13	156	55	3	2	38	1.29
3551831--3551946	21	5.6	21	80	5	130	55	0	0	43	1.11
3551831--3551955	10	11.8	11	73	20	90	55	1	0	42	1.15
3551826--3551955	21	6.3	20	77	11	122	55	1	0	42	1.14
3551833--3552131	21	14.1	20	67	19	110	56	3	2	38	1.29
3552056--3552149	42	2.3	42	87	8	140	62	2	0	35	1.07
3552055--3552141	21	4.1	22	77	18	94	62	2	0	35	1.08
3554520--3554573	13	4.1	13	75	20	58	70	1	7	20	1.21
3558327--3558375	25	2.0	24	84	11	64	42	4	0	53	1.20
3565428--3565457	15	2.0	15	100	0	60	53	6	13	26	1.64
3565899--3565931	10	3.3	10	87	12	50	18	0	0	81	0.68
3567026--3567086	31	2.0	29	81	12	70	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3573856--3573890	17	2.0	18	88	5	54	60	0	0	40	0.97
3579507--3579538	2	16.0	2	100	0	64	0	50	0	50	1.00
3581898--3581956	30	2.0	30	96	0	109	33	1	0	64	1.04
3581946--3582101	30	5.1	30	80	7	145	55	1	1	41	1.19
3581980--3582067	19	4.4	20	66	20	51	55	1	2	40	1.20
3582948--3582972	13	1.9	13	100	0	50	0	0	12	88	0.53
3588951--3589090	70	2.0	72	92	4	239	50	2	8	39	1.45
3594886--3594917	14	2.2	15	94	5	57	84	9	0	6	0.78
3606013--3606046	2	17.0	2	100	0	68	50	0	50	0	1.00
3612432--3612650	34	6.5	34	83	6	266	40	26	7	25	1.82
3612430--3612650	68	3.3	67	87	1	307	40	26	7	24	1.82
3612430--3612650	101	2.2	102	90	4	349	40	26	7	24	1.82
3616716--3616778	19	3.3	19	90	0	90	34	19	17	28	1.94
3617084--3617300	34	6.4	34	83	6	262	40	26	7	24	1.82
3617082--3617300	68	3.2	67	86	1	303	40	26	7	24	1.82
3617082--3617300	101	2.2	102	90	5	345	40	26	7	24	1.82
3617467--3617492	3	8.7	3	100	0	52	34	0	0	65	0.93
3618245--3618334	32	3.0	31	71	23	75	45	0	0	54	0.99
3618239--3618340	33	3.4	31	79	13	101	44	0	0	55	0.99
3618306--3618346	20	2.0	20	86	9	57	51	0	0	48	1.00
3621621--3621655	14	2.3	16	90	9	56	60	0	0	40	0.97
3622107--3622183	30	2.6	30	89	0	109	16	15	55	11	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622229--3622285	24	2.4	24	87	0	78	7	33	43	15	1.74
3622244--3622294	24	2.1	24	96	0	93	5	27	43	23	1.77
3627318--3627372	26	2.2	25	83	9	67	45	0	0	54	0.99
3627335--3627391	25	2.3	25	85	8	80	40	0	0	59	0.97
3627336--3627379	12	3.6	12	81	3	52	45	0	0	54	0.99
3627359--3627426	14	4.8	16	68	25	53	38	1	0	60	1.06
3627388--3627437	19	2.5	20	81	12	59	42	2	0	56	1.11
3627373--3627446	26	3.0	25	81	13	82	39	1	0	59	1.06
3630295--3630352	29	2.0	29	93	0	98	36	15	15	32	1.89
3634463--3634487	2	12.5	2	100	0	50	48	0	0	52	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