genome.fa.s196.2.7.7.80.10.50.1000.23.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  23  of  47  ( 5587 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)
3505653--3505771	52	2.3	51	88	2	168	30	19	10	39	1.86
3507590--3507635	24	1.9	24	86	0	65	34	4	4	56	1.39
3508956--3509002	20	2.3	21	82	10	62	31	19	14	34	1.92
3509029--3509103	20	3.8	19	82	3	69	37	16	13	33	1.87
3513444--3513506	33	1.9	33	87	6	92	28	15	17	38	1.91
3514104--3514161	19	3.1	18	83	11	71	34	15	13	36	1.87
3514189--3514246	25	2.6	22	81	13	66	29	18	20	31	1.97
3514235--3514259	13	1.9	13	100	0	50	36	16	16	32	1.90
3522528--3522599	20	3.7	19	88	7	92	30	16	15	37	1.90
3526570--3526792	83	2.7	82	90	2	347	27	24	13	34	1.93
3527393--3527692	46	6.6	46	78	6	259	23	24	10	42	1.85
3527393--3527660	90	2.9	91	80	4	279	23	24	10	41	1.86
3527854--3528108	85	3.0	85	78	3	217	19	20	12	47	1.81
3527877--3528034	43	3.7	43	75	5	149	17	19	13	50	1.78
3529466--3529611	41	3.6	41	76	4	152	41	13	26	19	1.87
3529460--3529630	82	2.1	81	85	1	225	42	14	23	19	1.88
3529493--3529711	81	2.7	81	80	6	237	39	13	25	21	1.90
3530898--3530942	11	3.9	12	86	11	51	0	4	6	88	0.61
3532410--3532761	130	2.7	128	76	5	307	36	11	23	27	1.89
3535075--3535201	50	2.5	50	87	2	175	41	16	16	25	1.89
3539747--3539802	21	2.7	21	94	0	103	48	14	12	25	1.78
3540551--3540800	61	4.1	61	77	4	236	37	14	24	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3540553--3540794	122	2.0	123	85	2	335	37	14	24	23	1.93
3540763--3541453	52	13.1	52	75	8	542	36	15	23	24	1.94
3540941--3541774	52	16.4	51	71	12	315	37	15	22	24	1.93
3541490--3541782	104	2.9	103	84	6	364	38	15	21	24	1.92
3541793--3542699	97	9.4	95	78	7	747	20	16	32	30	1.95
3541787--3542699	32	28.5	32	78	9	785	20	16	31	30	1.95
3542757--3542825	33	2.1	33	91	0	111	36	17	23	23	1.95
3545344--3545406	33	1.9	33	93	0	108	36	14	15	33	1.88
3545509--3545551	22	2.0	22	85	0	59	34	9	9	46	1.68
3546978--3547068	20	4.1	20	70	24	74	28	18	9	42	1.82
3546984--3547099	50	2.3	51	92	1	189	28	20	10	40	1.85
3547003--3547115	51	2.2	50	85	1	145	31	19	11	37	1.87
3550486--3550510	13	1.9	13	100	0	50	36	16	16	32	1.90
3550573--3550597	13	1.9	13	100	0	50	32	16	16	36	1.90
3550606--3550786	52	3.5	52	98	0	344	34	19	17	28	1.95
3554918--3554944	10	2.7	10	100	0	54	0	0	22	77	0.76
3564640--3564752	1	113.0	1	78	0	100	87	7	2	1	0.70
3564638--3564752	30	3.7	31	85	9	128	86	9	2	1	0.75
3564640--3564752	28	4.1	26	80	14	120	87	7	2	1	0.70
3564640--3564752	36	3.1	36	83	9	133	87	7	2	1	0.70
3566194--3566544	30	11.9	29	76	12	250	28	29	16	25	1.97
3566254--3566306	27	2.0	27	92	0	88	33	33	16	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3566190--3566481	121	2.5	117	77	4	291	28	28	16	26	1.97
3566404--3566514	56	1.9	59	87	5	165	33	29	17	19	1.95
3566404--3566542	56	2.4	56	83	5	145	31	30	17	20	1.96
3566534--3566692	52	3.2	52	76	16	192	24	25	16	33	1.96
3566549--3566638	43	2.1	43	91	0	144	26	25	17	30	1.98
3567577--3567601	13	1.9	13	100	0	50	36	16	16	32	1.90
3567664--3567688	13	1.9	13	100	0	50	32	16	16	36	1.90
3567697--3567877	52	3.5	52	98	0	344	34	19	17	28	1.95
3576805--3577405	79	7.6	79	76	6	457	34	12	25	27	1.92
3576805--3577405	158	3.8	157	80	5	622	34	12	25	27	1.92
3576856--3577371	236	2.2	237	79	5	544	34	12	25	28	1.92
3576805--3577395	315	1.9	315	82	2	740	33	12	25	28	1.92
3580306--3580370	34	1.9	34	87	0	94	38	18	23	20	1.93
3580416--3580594	42	4.3	41	77	10	186	37	12	24	25	1.91
3580416--3580594	41	4.3	43	78	6	190	37	12	24	25	1.91
3580586--3581216	61	10.4	59	78	9	292	30	19	24	25	1.98
3580597--3581203	123	5.0	121	79	6	620	30	20	24	25	1.98
3580648--3581206	184	3.1	179	81	7	658	29	20	24	25	1.99
3582190--3582251	1	62.0	1	73	0	52	4	4	3	87	0.76
3582190--3582232	19	2.4	19	88	7	63	4	6	2	86	0.79
3582187--3582251	8	8.1	8	80	11	62	4	6	3	86	0.79
3582190--3582251	16	3.9	15	85	8	70	4	4	3	87	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3583048--3583087	20	2.0	20	100	0	80	25	35	15	25	1.94
3582512--3583651	584	2.0	584	98	0	2226	26	22	18	32	1.97
3594564--3594661	51	1.9	51	83	8	128	32	8	27	31	1.86
3594547--3594868	130	2.5	129	86	2	432	34	13	24	28	1.93
3594694--3594809	51	2.3	51	81	3	135	31	12	25	31	1.92
3594744--3595105	79	4.6	79	80	2	379	33	12	25	29	1.92
3594753--3595105	158	2.2	156	84	1	445	33	12	24	29	1.92
3599177--3599234	24	2.4	24	86	11	91	17	32	18	31	1.94
3600754--3600815	20	3.5	20	67	28	57	27	14	14	43	1.84
3600886--3600910	13	1.9	13	100	0	50	36	16	16	32	1.90
3610207--3610273	1	67.0	1	75	0	62	88	10	1	0	0.59
3610208--3610271	28	2.2	28	94	2	110	87	10	1	0	0.61
3610207--3610273	20	3.3	20	89	8	100	88	10	1	0	0.59
3610208--3610273	8	7.8	8	86	13	71	87	10	1	0	0.60
3611358--3611606	60	4.3	58	80	11	289	26	28	20	25	1.99
3611635--3611886	61	4.3	59	83	9	300	25	27	21	25	1.99
3611419--3611830	215	1.9	216	85	4	573	25	28	20	26	1.99
3611635--3611886	122	2.1	115	87	6	353	25	27	21	25	1.99
3611873--3611969	45	2.2	42	81	5	104	21	26	10	41	1.85
3612832--3612902	20	3.6	19	86	7	97	29	16	12	40	1.86
3615124--3615303	51	3.5	51	79	2	193	30	25	10	33	1.89
3615290--3615363	28	2.6	28	84	0	94	21	29	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3615396--3615451	28	2.0	28	85	0	76	21	32	17	28	1.96
3615278--3615479	109	1.9	109	87	0	296	23	25	16	34	1.95
3615424--3615595	79	2.2	79	83	7	215	27	25	13	33	1.94
3617906--3617993	44	2.0	44	97	0	167	28	27	14	29	1.95
3620238--3620293	22	2.6	21	77	8	58	62	8	1	26	1.35
3621969--3622527	153	3.7	151	77	7	501	41	16	15	26	1.88
3621969--3622527	301	1.8	304	80	8	674	41	16	15	26	1.88
3626500--3626528	15	1.9	15	100	0	58	62	13	10	13	1.55
3628034--3628107	38	2.0	38	94	2	132	22	14	12	50	1.77
3627900--3628290	209	1.8	212	92	4	664	28	13	8	49	1.72
3628888--3628949	15	4.4	15	74	24	55	35	0	0	64	0.94
3628902--3628959	27	2.1	28	80	3	64	37	1	1	58	1.18
3629659--3629702	20	2.2	20	88	8	63	54	29	13	2	1.51
3631779--3632441	313	2.1	311	80	4	714	23	16	20	39	1.92
3631706--3632524	156	5.3	154	76	6	620	23	16	19	39	1.91
3642233--3642371	29	4.7	32	81	10	104	23	19	30	27	1.98
3642293--3642739	28	15.7	28	78	5	371	25	17	27	29	1.98
3642337--3642735	144	2.8	142	82	3	462	25	18	26	29	1.98
3642280--3642737	172	2.7	173	86	3	613	25	18	27	28	1.98
3643999--3644053	16	3.4	16	85	5	74	5	0	9	85	0.74
3644015--3644049	9	3.9	9	88	11	54	8	0	2	88	0.61
3644016--3644049	17	1.9	18	94	5	61	8	0	2	88	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3654400--3654603	61	3.3	61	94	0	354	27	18	24	29	1.98
3657345--3657370	13	2.0	13	100	0	52	30	15	15	38	1.88
3657430--3657502	20	3.6	20	81	3	101	31	19	13	35	1.91
3657409--3657502	41	2.3	41	96	0	170	30	18	12	38	1.88
3657409--3657484	21	3.7	21	78	3	91	30	17	11	40	1.85
3659945--3659983	13	3.0	13	96	0	69	35	15	17	30	1.91
3659969--3660047	20	3.7	20	75	18	70	45	15	13	25	1.83
3662063--3662093	15	2.1	15	93	0	53	12	22	16	48	1.80
3664105--3664147	22	2.0	22	86	4	61	23	11	9	55	1.64
3666154--3666179	13	2.0	13	100	0	52	30	15	15	38	1.88

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   35   36   37   38   39   40   41   42   43   44   45   46   47