genome.fa.s48.2.7.7.80.10.50.1000.22.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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   

This is table  22  of  27  ( 3212 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)
3321502--3321534	15	2.1	16	88	11	50	42	0	0	57	0.98
3324478--3324520	3	14.7	3	90	4	70	32	2	0	65	1.06
3325122--3325161	15	2.8	15	79	20	50	32	0	0	67	0.91
3326727--3326780	26	2.1	26	89	0	81	55	0	0	44	0.99
3326739--3326793	26	2.2	24	84	12	67	60	0	0	40	0.97
3329234--3329274	2	20.5	2	100	0	82	0	48	0	51	1.00
3334199--3334247	24	2.0	24	88	0	71	32	2	14	51	1.54
3334461--3334502	2	21.0	2	95	0	75	47	0	0	52	1.00
3334967--3335009	17	2.4	18	80	7	61	44	0	0	55	0.99
3337972--3338019	2	24.0	2	95	0	87	50	2	0	47	1.12
3349296--3349334	13	3.2	13	89	7	55	58	0	0	41	0.98
3349855--3349898	21	2.3	18	84	11	52	34	2	0	63	1.07
3349848--3349891	22	2.0	22	81	4	52	40	2	0	56	1.11
3350342--3350411	28	2.5	27	84	15	90	42	7	5	44	1.55
3350671--3350720	24	2.1	24	85	14	68	42	0	0	58	0.98
3364566--3364632	23	2.8	23	80	8	64	5	23	4	65	1.34
3365401--3365441	21	2.0	20	85	9	55	53	0	2	43	1.13
3365428--3365457	14	2.1	15	93	6	53	60	0	0	40	0.97
3365534--3365593	31	1.9	31	93	3	102	60	8	0	31	1.27
3366204--3366263	28	2.1	28	100	0	120	40	10	30	20	1.85
3366861--3366893	14	2.4	14	85	15	50	51	0	0	48	1.00
3367261--3367299	20	1.9	21	84	5	53	41	2	2	53	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367859--3367931	6	11.8	6	74	20	62	38	0	0	61	0.96
3367897--3367931	18	1.9	18	100	0	70	34	0	0	65	0.93
3372615--3372643	3	10.0	3	92	7	51	68	0	31	0	0.89
3375448--3375483	3	12.0	3	100	0	72	33	0	0	66	0.92
3375821--3376185	183	2.0	183	97	0	694	35	21	15	28	1.94
3384320--3384379	29	2.1	29	81	6	68	55	0	0	45	0.99
3403271--3404122	352	2.5	344	85	4	1104	36	14	20	28	1.91
3405266--3405300	17	2.1	17	89	10	54	25	0	0	74	0.82
3405440--3405540	11	8.7	11	73	16	71	58	0	0	40	1.05
3405442--3405540	5	20.2	5	71	20	59	58	0	1	40	1.05
3405478--3405542	21	3.0	22	77	11	71	55	0	1	43	1.09
3405442--3405544	16	7.0	16	68	26	59	57	0	0	41	1.05
3413688--3413770	41	2.0	41	92	0	139	40	15	16	26	1.89
3422085--3422143	15	4.1	15	75	20	56	54	0	0	45	0.99
3422080--3422131	27	2.0	25	88	7	77	50	0	0	50	1.00
3429820--3429849	2	15.0	2	100	0	60	50	0	0	50	1.00
3437738--3437790	19	2.8	19	82	8	63	52	0	0	47	1.00
3438198--3438260	32	1.9	33	87	9	94	53	0	0	46	1.00
3438823--3438864	15	2.8	15	78	10	50	33	0	0	66	0.92
3438826--3438936	20	5.0	22	70	23	72	44	0	0	54	1.06
3438806--3438904	14	6.9	15	71	14	75	38	1	0	60	1.04
3439047--3439106	22	2.7	21	76	16	59	38	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3439050--3439106	14	3.9	15	75	11	55	38	0	3	57	1.16
3439095--3439129	17	1.9	17	88	11	52	54	0	0	45	0.99
3439175--3439205	10	2.9	11	90	9	55	29	0	0	70	0.87
3444137--3444164	2	14.0	2	100	0	56	50	0	0	50	1.00
3444318--3444372	20	2.7	20	78	18	60	38	0	1	60	1.08
3444345--3444406	19	3.0	21	75	18	67	41	0	0	58	0.98
3444306--3444407	41	2.5	40	81	12	109	40	0	1	57	1.10
3444757--3444786	12	2.5	12	100	0	60	63	10	13	13	1.52
3446875--3446911	2	18.5	2	100	0	74	51	0	0	48	1.00
3447422--3447451	2	15.0	2	100	0	60	0	50	0	50	1.00
3448529--3448561	17	2.0	17	88	5	50	60	3	0	36	1.12
3449678--3449732	23	2.3	24	90	6	85	67	0	1	30	1.01
3451473--3451510	20	1.9	20	84	10	51	57	2	0	39	1.12
3452854--3452890	2	18.5	2	100	0	74	48	0	0	51	1.00
3454580--3454640	12	5.1	12	85	0	68	6	21	36	36	1.79
3458183--3458225	15	2.8	15	82	10	52	48	0	0	51	1.00
3458173--3458221	23	2.1	23	81	7	55	55	0	0	44	0.99
3458188--3458225	8	5.0	8	90	9	62	50	0	0	50	1.00
3458423--3458452	2	15.0	2	100	0	60	50	0	0	50	1.00
3458959--3459020	31	2.0	31	84	6	81	41	1	4	51	1.33
3459590--3459626	19	1.9	20	88	5	58	24	0	8	67	1.17
3473573--3473614	23	1.9	22	90	9	68	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473622--3473661	19	2.1	19	95	0	71	57	10	2	30	1.45
3473815--3473849	17	2.1	17	88	0	52	31	0	2	65	1.07
3484787--3484867	41	2.0	42	92	2	137	50	3	11	34	1.56
3485311--3485349	18	2.1	19	85	4	53	56	2	0	41	1.13
3486302--3486326	2	12.5	2	100	0	50	52	0	0	48	1.00
3487829--3487869	16	2.6	15	85	11	55	43	0	0	56	0.99
3487829--3487878	15	3.1	16	85	8	66	42	0	0	58	0.98
3487836--3487878	16	2.5	17	81	11	61	39	0	0	60	0.97
3487831--3487891	17	3.8	16	81	16	56	42	1	0	55	1.09
3487924--3487995	36	2.0	36	86	5	101	50	2	0	47	1.15
3488340--3488371	5	6.6	5	96	3	57	18	0	0	81	0.70
3496873--3496917	23	2.0	23	82	8	56	53	0	0	46	1.00
3504327--3504360	17	1.9	18	88	5	52	29	0	0	70	0.87
3504990--3505028	2	19.5	2	100	0	78	0	48	0	51	1.00
3511179--3511214	2	18.0	2	100	0	72	50	0	50	0	1.00
3512429--3512465	17	2.2	17	90	4	58	59	0	0	40	0.97
3512434--3512472	17	2.3	17	81	0	51	58	0	0	41	0.98
3513189--3513218	6	4.8	6	95	4	51	0	13	16	70	1.18
3518471--3518498	9	3.1	9	100	0	56	21	0	0	78	0.75
3518589--3518649	25	2.5	26	81	7	65	57	0	1	40	1.08
3523811--3523848	3	12.7	3	100	0	76	65	0	0	34	0.93
3523847--3523871	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3524058--3524108	2	25.5	2	95	0	93	49	0	0	50	1.00
3525186--3525222	2	18.5	2	100	0	74	51	0	0	48	1.00
3526130--3526156	2	13.5	2	100	0	54	48	0	0	51	1.00
3527642--3527676	2	18.0	2	88	5	54	48	0	2	48	1.16
3529188--3529262	35	2.1	35	82	5	87	50	2	1	45	1.24
3531093--3531124	2	16.0	2	100	0	64	50	0	0	50	1.00
3542008--3542056	21	2.4	22	81	18	61	61	0	0	38	0.96
3550126--3550199	26	2.7	27	79	10	78	44	0	1	54	1.08
3550144--3550210	30	2.3	28	87	5	89	41	0	1	56	1.08
3550406--3550450	17	2.6	17	89	6	65	40	0	0	60	0.97
3550393--3550450	17	3.4	17	79	13	57	39	1	1	56	1.19
3550785--3550837	3	17.7	3	100	0	106	33	0	0	66	0.92
3553538--3553571	3	11.3	3	100	0	68	32	0	0	67	0.91
3557621--3557669	21	2.3	21	86	6	64	59	0	4	36	1.17
3563457--3563537	37	2.2	37	90	0	126	29	23	20	25	1.99
3563469--3563554	37	2.3	37	86	4	111	36	26	15	22	1.93
3569283--3569331	21	2.3	21	86	6	64	59	0	4	36	1.17
3575119--3575199	37	2.2	37	90	0	126	29	23	20	25	1.99
3575131--3575216	37	2.3	37	86	4	111	36	26	15	22	1.93
3578716--3578763	21	2.3	22	79	17	57	58	0	6	35	1.23
3578880--3578923	18	2.4	18	85	11	54	54	0	0	45	0.99
3578875--3578929	26	2.1	26	83	6	67	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3581493--3581535	3	14.3	3	100	0	86	32	0	0	67	0.91
3582952--3583014	21	3.0	21	77	13	67	33	3	9	53	1.49
3582974--3583014	20	2.0	22	90	9	68	34	2	7	56	1.40
3585586--3585634	21	2.3	21	86	6	64	59	0	4	36	1.17
3591273--3591356	37	2.3	37	85	0	114	32	23	19	25	1.97
3591273--3591371	37	2.7	37	84	6	112	34	24	17	24	1.96
3592264--3592309	22	2.1	23	88	8	69	32	4	8	54	1.51
3594877--3594925	21	2.3	21	86	6	64	59	0	4	36	1.17
3595085--3595135	26	2.0	25	81	7	59	49	13	1	35	1.54
3600563--3600646	37	2.3	37	85	0	114	32	23	19	25	1.97

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