genome.fa.s160.2.7.7.80.10.50.1000.21.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  21  of  30  ( 3592 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)
3361996--3362046	20	2.5	20	90	6	77	37	19	11	31	1.88
3362096--3362158	32	1.9	33	87	9	94	41	12	15	30	1.85
3362693--3362725	16	2.1	16	100	0	66	54	6	6	33	1.50
3364667--3364693	13	2.1	13	100	0	54	40	14	14	29	1.86
3370909--3370964	19	2.9	19	86	2	76	35	17	14	32	1.90
3371304--3371357	20	2.6	21	76	5	65	37	14	7	40	1.74
3371841--3371979	51	2.7	52	82	5	167	43	12	15	28	1.83
3372485--3372525	21	2.0	21	95	0	73	46	12	7	34	1.69
3372535--3372581	24	2.0	24	86	0	67	34	19	21	25	1.96
3374341--3374380	18	2.2	18	95	0	71	55	10	12	22	1.67
3376192--3376234	22	2.0	21	86	4	59	44	23	6	25	1.78
3376325--3376379	16	3.4	16	79	0	65	47	25	9	18	1.78
3376344--3376387	16	2.8	16	92	0	70	50	22	9	18	1.75
3376420--3376452	15	2.2	15	94	0	57	45	21	12	21	1.84
3382962--3383431	165	2.9	159	81	8	531	43	21	8	27	1.80
3386406--3386445	19	2.1	19	86	9	55	72	2	0	25	0.97
3386449--3386483	16	2.1	18	89	10	56	60	5	2	31	1.35
3387496--3387522	14	1.9	14	100	0	54	77	0	7	14	0.97
3387451--3387527	24	3.1	23	69	10	55	66	0	11	22	1.24
3387914--3388003	15	5.9	15	70	14	76	27	8	4	58	1.47
3387927--3388012	30	2.8	30	83	3	109	32	8	4	54	1.50
3387926--3388024	30	3.2	29	80	8	108	30	9	6	54	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388195--3388222	2	14.0	2	100	0	56	50	0	0	50	1.00
3391505--3391534	13	2.3	13	94	0	51	36	10	16	36	1.82
3391484--3391548	33	2.0	32	85	11	87	35	16	16	30	1.92
3391580--3391635	19	2.8	20	86	2	78	37	14	16	32	1.88
3391620--3391646	13	2.1	13	100	0	54	40	14	14	29	1.86
3392858--3393461	165	3.7	162	80	11	626	29	10	8	51	1.65
3392844--3393305	167	2.8	165	87	7	659	29	9	8	52	1.65
3392844--3393459	332	1.9	330	81	9	768	29	10	8	51	1.66
3393531--3393630	2	50.0	2	100	0	200	0	50	0	50	1.00
3394010--3394083	32	2.3	32	81	6	80	77	0	17	5	0.96
3394025--3394074	21	2.4	21	83	6	57	76	0	18	6	0.99
3394045--3394081	12	3.2	12	88	3	58	75	0	13	10	1.04
3395014--3395260	129	1.9	129	88	3	372	32	10	14	42	1.79
3402149--3402725	28	19.9	29	81	7	620	23	18	29	27	1.98
3402163--3402725	116	4.9	114	88	5	794	23	18	30	27	1.98
3402163--3402725	233	2.4	226	87	5	797	23	18	30	27	1.98
3403969--3404026	1	58.0	1	78	0	62	6	0	3	89	0.57
3403947--3404020	28	2.7	26	85	10	85	6	2	6	83	0.88
3403943--3404026	36	2.2	36	85	10	107	7	2	5	84	0.85
3403947--3404015	25	2.5	29	84	13	83	7	2	5	84	0.87
3403945--3404026	23	3.4	23	81	8	92	6	2	6	85	0.82
3403947--3404026	26	3.0	26	85	9	90	6	2	6	85	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3407125--3407152	13	2.2	13	100	0	56	28	14	17	39	1.89
3407105--3407170	33	2.0	33	85	5	89	31	15	12	40	1.83
3407395--3407442	21	2.3	21	100	0	96	22	18	14	43	1.87
3416436--3416485	21	2.4	22	80	10	59	48	6	12	34	1.65
3416784--3416836	24	2.2	24	83	10	63	62	1	5	30	1.29
3416784--3416836	25	2.2	25	83	10	65	62	1	5	30	1.29
3419968--3419999	2	16.0	2	100	0	64	50	0	0	50	1.00
3420155--3420181	2	13.5	2	100	0	54	51	0	0	48	1.00
3421871--3421895	11	2.3	11	100	0	50	36	0	8	56	1.29
3421915--3422030	24	4.6	26	74	19	79	40	2	0	56	1.19
3421946--3422007	32	1.9	32	86	3	88	37	3	1	58	1.24
3421999--3422031	16	2.0	17	94	5	59	36	6	0	57	1.23
3424258--3424296	21	1.9	21	89	5	62	35	0	2	61	1.10
3424247--3424309	21	3.0	21	75	11	56	42	1	1	53	1.19
3425770--3425807	19	2.0	20	89	5	60	63	0	5	31	1.17
3425815--3425855	17	2.4	17	91	4	64	58	7	7	26	1.51
3431210--3431483	142	1.9	142	89	0	422	37	20	16	25	1.93
3435882--3435906	13	1.9	13	100	0	50	36	16	16	32	1.90
3435891--3435947	19	2.9	19	78	2	69	33	15	17	33	1.92
3442158--3442186	13	2.2	13	100	0	58	27	13	17	41	1.87
3442300--3442344	22	2.0	22	82	8	54	28	22	0	48	1.50
3444035--3444091	30	1.9	30	96	3	107	33	1	26	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3444791--3444837	13	4.0	13	74	25	59	34	12	17	36	1.87
3444768--3444837	33	2.1	34	86	7	99	34	12	18	34	1.89
3447499--3447524	13	2.0	13	100	0	52	76	0	7	15	0.99
3447536--3447592	21	2.7	21	97	0	105	33	10	19	36	1.86
3447648--3447715	19	3.9	19	78	21	85	35	11	14	38	1.83
3447669--3447693	13	1.9	13	100	0	50	36	16	16	32	1.90
3447650--3447712	32	2.0	32	96	0	117	34	12	15	36	1.86
3447755--3447780	13	2.0	13	100	0	52	30	15	15	38	1.88
3447735--3447801	33	2.0	33	88	0	98	25	14	16	43	1.86
3450254--3450329	27	2.8	27	88	9	102	22	32	22	22	1.98
3450312--3450535	52	4.4	51	78	2	214	27	25	14	32	1.95
3450312--3450535	51	4.4	51	77	8	188	27	25	14	32	1.95
3452195--3452269	21	3.6	21	77	13	75	38	14	16	30	1.88
3452195--3452247	20	2.6	20	85	11	72	39	15	16	28	1.89
3452304--3452421	52	2.3	50	82	4	148	32	11	12	43	1.79
3456410--3456457	2	24.5	2	82	4	53	47	0	8	43	1.33
3458040--3458105	21	3.2	20	76	16	64	43	9	3	43	1.51
3463642--3463683	21	2.0	21	86	4	59	45	7	16	30	1.74
3463751--3463890	52	2.7	52	85	2	192	30	15	12	41	1.84
3465906--3465934	15	1.9	15	100	0	58	10	34	6	48	1.64
3467481--3467534	20	2.7	20	91	0	81	44	12	12	29	1.80
3467549--3467605	19	2.9	20	84	2	71	42	14	10	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3471292--3471346	23	2.4	23	75	6	58	52	1	0	45	1.11
3472312--3472345	17	1.9	18	88	5	52	58	0	0	41	0.98
3472701--3472726	6	4.3	6	100	0	52	69	30	0	0	0.89
3483296--3483324	13	2.1	14	93	6	51	55	0	0	44	0.99
3483530--3483917	174	2.2	172	80	6	433	43	8	5	42	1.58
3484146--3484580	169	2.6	172	82	7	514	48	4	3	42	1.42
3484536--3484578	22	2.0	22	86	4	61	46	2	0	51	1.13
3484536--3484574	21	2.0	20	85	10	53	43	2	0	53	1.14
3488901--3488944	21	2.1	21	82	0	52	29	2	2	65	1.16
3490079--3490110	16	2.0	16	93	0	55	9	6	34	50	1.60
3490098--3490145	16	3.1	16	81	6	62	20	16	22	39	1.92
3490093--3490141	16	3.1	16	79	5	55	16	14	28	40	1.87
3491004--3491052	16	3.1	16	82	5	55	24	12	18	44	1.84
3493231--3493271	20	2.0	20	95	0	73	56	12	2	29	1.49
3497734--3497841	52	2.1	52	85	0	144	32	14	14	37	1.87
3497889--3497952	33	2.0	32	87	3	92	42	14	14	29	1.84
3498580--3498637	30	1.9	30	92	0	98	15	20	12	51	1.75
3503693--3503743	20	2.5	20	90	6	77	35	17	13	33	1.89
3503775--3503834	20	3.0	20	87	7	95	35	18	13	33	1.89
3503774--3503830	19	2.9	19	92	5	96	35	17	14	33	1.90
3503815--3503846	13	2.5	13	94	0	55	40	12	15	31	1.85
3505011--3505088	15	5.4	14	80	10	86	75	5	1	17	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505011--3505088	22	3.6	21	76	10	77	75	5	1	17	1.05
3505012--3505087	7	10.7	7	75	17	59	75	5	1	18	1.07
3505140--3505236	17	5.4	17	75	18	97	45	7	26	20	1.77
3505152--3505253	20	5.4	19	75	21	99	45	8	26	19	1.80
3505140--3505253	37	3.1	37	96	0	201	43	7	27	21	1.79
3516195--3516223	13	2.2	13	100	0	58	27	13	17	41	1.87
3517254--3517323	28	2.5	28	88	0	95	28	18	30	22	1.98
3525005--3525058	19	2.8	20	82	5	65	33	14	14	37	1.88
3525029--3525091	33	1.9	33	87	9	94	41	12	12	33	1.81
3529646--3530426	42	18.6	42	73	8	421	16	27	19	36	1.94

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