genome.fa.s113.2.7.7.80.10.50.1000.20.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  20  of  23  ( 2678 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)
3185190--3185424	112	2.1	112	81	3	276	34	16	20	28	1.94
3185370--3188426	52	58.8	52	75	6	1893	34	17	23	24	1.96
3185335--3188426	104	29.7	104	75	4	2309	34	17	23	24	1.96
3185335--3188425	156	19.8	156	76	5	2267	34	17	23	24	1.96
3193365--3193471	42	2.5	42	92	0	178	10	46	2	40	1.52
3193386--3193471	24	3.8	24	69	17	76	11	45	2	40	1.53
3195203--3199231	52	77.5	52	71	6	1920	34	16	24	24	1.95
3195235--3196415	155	7.7	155	74	7	713	34	16	24	24	1.95
3195372--3195824	200	2.2	199	80	5	498	34	16	24	24	1.96
3195406--3195690	148	1.9	148	79	2	322	33	15	26	24	1.95
3195203--3196038	355	2.3	353	80	5	903	35	16	23	25	1.95
3199943--3200952	52	19.6	52	75	3	716	33	17	24	24	1.96
3199943--3200931	155	6.4	153	74	6	497	33	17	24	24	1.96
3200784--3200873	45	2.0	45	86	0	126	35	20	22	22	1.96
3202589--3202664	12	6.9	11	75	15	52	39	2	48	9	1.49
3202588--3202673	24	3.8	24	72	17	85	41	2	45	10	1.51
3202579--3202697	42	2.8	42	92	0	193	42	2	46	8	1.47
3209558--3209618	9	7.1	9	72	10	56	11	44	1	42	1.50
3209563--3209597	12	2.9	12	84	16	54	11	48	0	40	1.39
3209530--3209648	42	2.8	42	90	0	184	9	46	1	42	1.46
3209554--3209639	24	3.8	24	73	17	85	11	45	1	41	1.48
3215179--3218602	52	65.9	52	71	7	1781	33	17	24	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217869--3217927	29	2.0	29	96	0	109	37	13	20	28	1.91
3218584--3218632	25	2.0	25	87	0	71	34	24	24	16	1.95
3218868--3219017	52	2.9	52	77	0	156	40	16	22	21	1.92
3219522--3219576	20	2.7	21	83	8	69	32	12	12	41	1.81
3220483--3220521	20	1.9	21	89	5	62	23	10	10	56	1.63
3222937--3225092	104	20.9	104	73	4	1400	33	17	24	24	1.97
3222937--3225092	52	41.7	51	72	6	880	33	17	24	24	1.97
3222929--3225092	156	14.0	156	73	4	1350	33	17	24	24	1.97
3226726--3226801	12	6.9	11	75	15	52	39	2	48	9	1.49
3226725--3226810	24	3.8	24	72	17	85	41	2	45	10	1.51
3226716--3226834	42	2.8	42	92	0	193	42	2	46	8	1.47
3238276--3238394	42	2.8	42	92	0	193	8	46	2	42	1.47
3238309--3238384	12	6.9	11	75	15	52	9	48	2	39	1.49
3238300--3238385	24	3.8	24	72	17	85	10	45	2	41	1.51
3238291--3238361	18	3.6	18	69	20	52	9	43	2	43	1.52
3240850--3242650	52	34.9	51	71	7	1048	32	17	25	24	1.97
3240840--3242732	207	9.2	207	76	5	1065	32	17	25	24	1.97
3240850--3242650	104	17.5	102	73	6	1170	32	17	25	24	1.97
3240850--3242650	155	11.6	155	73	5	1273	32	17	25	24	1.97
3241330--3242183	362	2.4	355	80	4	910	34	16	25	23	1.96
3243520--3243708	103	1.8	102	80	3	227	32	18	27	21	1.96
3243584--3243909	154	2.1	154	83	1	402	33	16	26	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243577--3244314	202	3.6	206	77	6	597	32	17	25	24	1.96
3243435--3244915	52	28.7	52	71	5	744	34	17	24	24	1.96
3246536--3246611	12	6.9	11	75	15	52	39	2	48	9	1.49
3246535--3246620	24	3.8	24	72	17	85	41	2	45	10	1.51
3246526--3246644	42	2.8	42	92	0	193	42	2	46	8	1.47
3251621--3258476	52	132.0	52	70	7	2063	32	17	24	24	1.97
3251624--3258476	155	44.0	154	69	8	2583	32	17	24	24	1.97
3251749--3258471	207	32.4	208	74	7	3360	32	17	24	24	1.97
3252160--3252531	206	1.8	207	79	5	439	33	17	25	23	1.96
3255717--3256165	202	2.2	203	83	5	546	32	16	26	24	1.96
3255833--3256116	150	1.9	150	80	2	329	33	16	25	24	1.96
3257004--3257320	100	3.0	100	68	11	249	31	16	25	26	1.97
3256450--3257848	212	6.7	212	77	6	895	31	17	24	25	1.97
3257545--3258476	473	2.0	472	87	2	1372	31	17	24	26	1.97
3260099--3260174	12	6.9	11	75	15	52	39	2	48	9	1.49
3260098--3260183	24	3.8	24	72	17	85	41	2	45	10	1.51
3260089--3260211	42	2.9	42	91	1	192	43	2	45	8	1.46
3265035--3265451	52	8.0	52	74	4	320	32	17	22	27	1.96
3265035--3265442	209	2.0	208	81	3	480	32	17	22	27	1.97
3265794--3265848	28	2.0	28	85	0	74	25	20	23	30	1.98
3276485--3276560	12	6.9	11	75	15	52	39	2	48	9	1.49
3276484--3276569	24	3.8	24	72	17	85	41	2	45	10	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3276475--3276597	42	2.9	42	91	1	192	43	2	45	8	1.46
3285737--3285816	42	1.9	42	89	0	124	10	45	2	42	1.51
3285770--3285836	12	5.9	11	75	18	57	10	49	1	38	1.46
3285765--3285846	33	2.5	33	89	0	119	9	45	1	43	1.44
3293070--3293206	44	3.1	44	98	0	265	33	23	10	32	1.89
3297741--3297790	18	2.8	18	78	6	57	6	42	2	50	1.38
3298374--3298427	22	2.5	22	96	0	99	55	7	9	27	1.58
3298483--3298524	21	2.0	22	95	4	77	4	16	7	71	1.26
3298481--3298527	25	1.9	24	83	12	60	4	17	6	72	1.22
3299062--3299148	44	2.0	44	97	0	165	33	20	11	34	1.89
3310251--3310369	42	2.8	42	92	0	193	8	46	2	42	1.47
3312933--3313051	42	2.8	42	92	0	193	8	46	2	42	1.47
3312966--3313041	12	6.9	11	75	15	52	9	48	2	39	1.49
3312957--3313042	24	3.8	24	72	17	85	10	45	2	41	1.51
3312948--3313018	18	3.6	18	69	20	52	9	43	2	43	1.52
3315602--3315660	12	4.9	12	80	15	77	38	0	47	13	1.43
3315602--3315660	24	2.5	24	94	0	109	38	0	47	13	1.43
3315650--3315694	18	2.4	18	85	3	54	44	4	44	6	1.50
3328678--3328796	42	2.8	42	92	0	193	8	46	2	42	1.47
3333777--3333826	18	2.7	19	79	11	52	8	42	4	46	1.52
3333816--3333874	12	4.9	12	80	15	77	11	47	0	40	1.40
3333807--3333874	24	2.8	24	90	0	109	13	44	0	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3338600--3338675	12	6.9	11	81	15	79	39	0	47	13	1.42
3338620--3338680	9	7.1	9	74	10	65	42	0	44	13	1.43
3338599--3338708	42	2.6	42	92	0	175	41	0	44	12	1.49
3338602--3338684	12	7.4	12	76	15	56	40	0	44	14	1.45
3343750--3344397	322	2.0	322	100	0	1296	31	16	20	31	1.95
3351785--3351870	24	3.8	24	69	17	76	10	44	2	43	1.51
3351748--3351879	42	3.1	42	85	2	176	8	43	2	46	1.46
3352626--3352660	17	1.9	19	88	11	56	5	14	2	77	1.07
3363244--3363329	24	3.8	24	69	17	76	10	44	2	43	1.51
3363207--3363338	42	3.1	42	85	2	176	8	43	2	46	1.46
3364085--3364120	18	1.9	19	88	5	56	5	13	2	77	1.05
3371954--3372072	42	2.8	42	92	0	193	8	46	2	42	1.47
3371987--3372062	12	6.9	11	75	15	52	9	48	2	39	1.49
3371978--3372063	24	3.8	24	72	17	85	10	45	2	41	1.51
3371969--3372039	18	3.6	18	69	20	52	9	43	2	43	1.52
3379457--3379495	15	2.4	16	87	8	53	46	7	5	41	1.55
3381102--3381171	28	2.5	29	81	6	81	12	12	7	67	1.42
3384034--3384097	12	5.9	11	78	15	55	40	0	45	14	1.44
3384033--3384102	9	6.8	9	71	25	50	42	0	42	14	1.45
3384024--3384091	30	2.3	30	84	2	102	44	0	44	11	1.40
3384024--3384130	42	2.6	42	84	7	132	42	1	43	11	1.51
3384460--3384674	107	2.0	107	99	0	421	40	12	25	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388939--3389014	12	6.9	11	75	15	52	39	2	48	9	1.49
3388938--3389053	42	2.7	42	93	1	196	41	3	46	8	1.51
3394752--3395180	218	2.0	218	97	0	813	38	23	8	29	1.84
3397376--3397456	42	1.9	42	92	0	135	11	45	1	41	1.47
3397410--3397475	12	5.8	12	75	21	70	13	46	0	39	1.43
3397405--3397475	33	2.2	33	97	0	133	14	45	0	40	1.44
3401962--3402053	24	4.2	23	72	18	79	43	2	44	9	1.49
3401962--3402071	42	2.6	42	92	0	184	41	2	46	9	1.50
3411922--3412028	42	2.5	42	92	0	178	9	46	2	41	1.50
3411955--3412025	12	6.5	11	76	15	51	9	47	2	39	1.51

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23