genome.fa.s29.2.7.7.80.10.50.1000.22.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   31   32   
          33   34   

This is table  22  of  34  ( 4030 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)
3333675--3333754	38	2.0	40	83	7	101	81	13	2	2	0.90
3333695--3333768	26	2.9	24	76	13	76	79	13	4	2	0.98
3335019--3335681	28	23.5	28	84	3	756	30	29	17	23	1.97
3335019--3335679	169	3.9	168	84	2	829	30	29	17	23	1.97
3336634--3336690	30	1.9	30	96	0	105	26	14	10	49	1.75
3336675--3336807	40	3.5	40	74	21	160	32	11	12	43	1.78
3336645--3336802	71	2.2	71	96	1	300	31	12	12	44	1.79
3336746--3336816	20	3.5	20	72	0	70	32	11	15	40	1.83
3336806--3336882	31	2.5	31	89	4	111	24	19	14	41	1.89
3341234--3341341	48	2.2	48	83	6	130	33	12	15	37	1.86
3346451--3346531	41	1.9	43	85	9	114	30	13	16	39	1.87
3349438--3349466	9	3.3	9	95	4	51	82	6	0	10	0.83
3350862--3351132	65	4.2	65	76	9	203	38	16	25	18	1.92
3350902--3351090	65	2.9	64	80	11	206	37	14	29	19	1.91
3351229--3351377	66	2.3	66	79	9	162	41	16	19	22	1.90
3351537--3351626	31	3.0	30	82	9	128	47	10	23	18	1.79
3351526--3351622	31	3.1	31	81	10	126	46	10	23	19	1.81
3351652--3351792	65	2.2	65	80	6	160	42	17	21	17	1.89
3351599--3351873	66	4.2	64	77	8	198	41	17	23	17	1.90
3351737--3352061	66	5.0	65	72	9	189	42	16	22	19	1.89
3351580--3351898	131	2.4	132	76	9	296	42	17	22	18	1.90
3351816--3352061	132	1.9	130	80	9	284	43	15	21	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3351773--3352159	197	2.0	197	79	7	419	43	16	21	19	1.88
3352736--3352768	10	3.3	10	95	0	57	3	9	18	69	1.28
3353048--3353111	33	2.0	32	87	3	92	40	14	15	29	1.86
3362231--3362280	20	2.5	20	96	0	91	44	16	24	16	1.86
3364775--3364815	21	2.0	21	85	0	55	36	14	21	26	1.93
3365649--3365797	52	2.9	51	88	4	226	30	17	18	33	1.94
3365786--3365810	13	1.9	13	100	0	50	36	16	16	32	1.90
3365851--3365917	33	2.0	33	88	0	98	40	14	11	32	1.83
3365873--3365897	13	1.9	13	100	0	50	32	16	16	36	1.90
3369668--3369858	95	2.0	92	87	3	274	32	9	9	48	1.68
3372121--3372170	25	2.0	24	81	11	57	64	0	10	26	1.25
3376467--3376530	33	1.9	33	87	6	94	45	10	12	31	1.77
3377399--3377525	66	1.9	66	82	3	157	43	14	23	18	1.87
3380874--3380974	31	3.2	31	90	1	166	37	16	12	32	1.87
3380932--3380956	13	1.9	13	100	0	50	32	16	16	36	1.90
3380881--3380997	18	6.9	17	69	25	79	36	15	13	34	1.87
3381747--3382373	43	13.6	49	75	10	517	31	17	24	25	1.97
3381742--3382373	92	6.9	92	90	2	941	31	17	24	26	1.97
3381779--3382369	271	2.2	273	90	2	945	31	18	24	25	1.97
3382401--3382508	34	3.2	34	74	9	103	37	11	28	22	1.88
3382459--3382675	33	6.8	33	80	10	202	34	11	29	24	1.91
3382497--3382676	63	2.8	65	85	6	244	32	11	30	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383932--3383971	13	3.1	13	82	13	55	0	2	15	82	0.77
3384635--3384666	15	2.1	15	100	0	64	31	18	40	9	1.83
3389186--3389243	29	2.0	29	86	0	80	43	15	27	13	1.85
3389215--3389347	66	2.0	65	81	5	153	36	15	28	18	1.92
3389876--3390094	60	3.7	60	78	7	210	47	17	15	19	1.83
3389875--3390094	120	1.8	120	84	1	298	46	17	15	19	1.84
3390103--3390300	110	1.8	110	83	6	267	44	18	18	18	1.87
3390258--3390384	60	2.1	60	80	7	143	49	18	13	18	1.79
3390530--3390724	82	2.4	82	92	0	318	40	11	19	28	1.86
3391515--3391568	20	2.7	20	88	5	74	31	11	18	38	1.86
3397864--3397902	20	2.0	20	85	10	53	33	15	0	51	1.44
3400341--3400394	20	2.7	20	88	5	83	35	12	14	37	1.85
3428954--3429028	21	3.6	21	78	8	91	41	13	14	30	1.84
3428954--3429047	42	2.2	43	88	3	138	39	13	14	31	1.86
3430998--3431022	13	1.9	13	100	0	50	32	16	16	36	1.90
3432991--3433032	21	2.0	21	86	9	59	23	26	4	45	1.73
3434125--3434191	37	1.9	35	88	11	102	29	25	11	32	1.92
3434670--3434695	13	2.0	13	100	0	52	30	23	15	30	1.95
3434758--3434894	53	2.6	53	92	1	238	27	17	17	37	1.92
3434864--3434934	20	3.5	20	77	11	74	29	12	16	40	1.86
3434974--3435014	21	2.0	21	85	9	57	39	9	12	39	1.76
3442223--3442263	20	2.0	20	90	9	64	75	2	0	21	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3442873--3442897	13	1.9	13	100	0	50	72	0	8	20	1.10
3442503--3442978	164	2.9	167	84	5	624	54	6	10	28	1.59
3444850--3444908	20	3.0	20	84	0	82	45	10	11	32	1.74
3445001--3445054	20	2.7	20	79	2	63	31	12	12	42	1.81
3445871--3445903	13	2.6	13	90	4	50	6	12	0	81	0.85
3450174--3450213	21	2.0	20	85	5	53	50	15	12	22	1.77
3451138--3451257	51	2.4	51	88	1	179	42	10	18	28	1.84
3451127--3451257	50	2.6	50	86	1	190	41	11	17	29	1.84
3453129--3453278	78	1.9	78	83	5	196	46	12	22	18	1.82
3456763--3456883	52	2.3	52	95	2	217	29	18	18	33	1.94
3456763--3456903	52	2.7	51	89	4	210	31	17	18	32	1.94
3456892--3456916	13	1.9	13	100	0	50	36	16	16	32	1.90
3456982--3457006	13	1.9	13	100	0	50	32	16	16	36	1.90
3457342--3457731	40	9.8	40	76	4	286	18	25	14	40	1.89
3457342--3457795	80	5.7	80	75	3	365	18	25	14	40	1.89
3457372--3457730	120	3.0	119	81	3	344	19	25	14	41	1.89
3457479--3457787	120	2.6	120	80	4	329	18	25	14	41	1.89
3459006--3459049	20	2.1	20	87	8	61	61	25	13	0	1.32
3459009--3459052	21	2.1	22	91	8	74	59	25	15	0	1.37
3460192--3460223	6	5.3	6	100	0	64	15	0	0	84	0.63
3460417--3460884	128	3.6	129	81	4	532	26	16	19	38	1.92
3460774--3461436	152	4.3	153	78	5	581	27	17	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3460773--3461456	306	2.2	305	81	4	763	27	17	17	38	1.92
3463515--3463577	22	3.0	22	72	21	62	47	0	0	52	1.00
3463784--3463860	22	3.5	22	83	0	100	20	18	28	32	1.96
3463845--3463886	15	2.8	15	100	0	84	14	7	38	40	1.73
3464850--3464914	30	2.3	29	76	21	68	55	0	0	44	0.99
3507078--3507113	16	2.2	16	95	0	63	41	13	16	27	1.87
3511803--3512003	79	2.6	78	83	2	233	29	15	28	25	1.96
3511955--3512026	28	2.6	27	84	8	83	25	18	33	23	1.97
3512014--3512399	52	7.4	51	72	11	226	32	13	25	28	1.93
3512106--3512235	51	2.5	52	81	1	154	35	14	23	26	1.94
3512218--3512293	27	2.8	26	88	9	100	21	22	34	22	1.97
3511904--3512404	263	1.9	262	89	3	774	31	13	26	27	1.94
3514768--3514793	13	2.0	13	100	0	52	38	15	15	30	1.88
3514747--3514813	33	2.0	33	88	0	98	43	16	14	25	1.86
3514827--3514926	19	5.9	18	73	26	103	38	15	12	35	1.84
3514849--3514905	13	3.9	13	76	24	60	35	15	14	35	1.88
3514830--3514924	32	3.0	32	98	0	181	36	15	12	34	1.86
3514982--3515038	21	2.7	21	97	0	105	36	19	10	33	1.86
3516063--3516087	13	1.9	13	100	0	50	48	8	8	36	1.62
3516074--3516111	20	1.9	20	94	0	67	42	10	10	36	1.74
3516136--3516161	13	2.0	13	100	0	52	30	15	15	38	1.88
3517859--3517889	14	2.1	15	94	5	55	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)
3522926--3522952	13	2.1	13	100	0	54	40	14	14	29	1.86
3522908--3522972	33	2.0	33	93	3	114	38	16	12	32	1.86
3523620--3523701	5	16.4	5	93	3	139	42	0	0	57	0.98
3524355--3524395	16	2.5	17	84	8	57	70	0	0	29	0.87
3525080--3525113	15	2.2	15	89	5	50	61	0	2	35	1.11
3532385--3532434	19	2.5	19	83	6	64	40	12	14	34	1.82
3532385--3532430	21	2.3	21	85	7	60	39	13	13	34	1.83
3532468--3532506	13	3.0	13	96	0	69	30	15	12	41	1.85
3532544--3532599	20	2.8	20	88	0	94	35	16	8	39	1.80
3534885--3535070	51	3.6	50	80	8	203	30	25	10	33	1.90

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   31   32   
          33   34