genome.fa.s196.2.7.7.80.10.50.1000.28.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  28  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)
4332568--4332686	42	2.8	42	90	0	184	9	45	2	42	1.49
4334594--4334632	18	2.1	19	95	4	71	30	25	20	23	1.98
4334708--4338518	609	6.3	607	88	4	5006	32	17	13	36	1.89
4338521--4338986	158	2.9	156	69	13	383	32	18	12	36	1.88
4338523--4339329	317	2.5	317	84	5	967	32	16	13	37	1.88
4344696--4344742	18	2.6	18	83	6	51	4	46	6	42	1.48
4344699--4344817	42	2.8	42	90	0	184	7	46	3	42	1.48
4347059--4347091	13	2.5	13	90	0	57	36	15	15	33	1.88
4349462--4349515	22	2.7	20	77	13	58	33	7	18	40	1.78
4354552--4354597	20	2.2	21	96	3	85	13	21	19	45	1.84
4356582--4356657	12	6.9	11	75	15	52	39	2	48	9	1.49
4356581--4356666	24	3.8	24	72	17	85	41	2	45	10	1.51
4356572--4356690	42	2.8	42	92	0	193	42	2	46	8	1.47
4362606--4362668	32	1.9	32	84	9	83	41	15	15	26	1.88
4362955--4367789	612	8.0	611	88	3	6565	31	16	13	38	1.87
4373535--4373610	12	6.9	11	74	15	52	40	1	47	10	1.46
4373534--4373643	42	2.6	42	89	0	166	41	1	46	10	1.48
4378549--4378656	21	5.3	18	66	30	58	10	48	1	39	1.48
4378552--4378670	42	2.8	42	93	0	202	9	46	1	42	1.46
4378585--4378660	12	6.9	11	75	15	52	9	48	2	39	1.49
4379407--4379453	15	3.1	15	81	3	58	4	14	2	78	0.99
4381820--4381920	9	11.1	9	74	14	91	11	43	0	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4381792--4381950	42	3.8	42	77	9	164	10	44	1	43	1.47
4381816--4381862	24	2.0	24	91	0	76	12	44	2	40	1.54
4386883--4386926	18	2.4	18	81	7	54	9	47	0	43	1.35
4386889--4387007	42	2.8	41	82	3	139	12	40	0	47	1.42
4391372--4391413	13	3.2	13	96	0	75	38	7	9	45	1.64
4391399--4394159	605	4.6	593	82	7	2762	32	17	13	36	1.89
4394164--4402215	610	13.3	609	86	3	10416	32	17	13	36	1.89
4406010--4410735	611	7.8	609	89	3	6259	32	16	14	37	1.88
4410361--4411300	401	2.3	401	96	0	1731	30	16	15	37	1.90
4411170--4411642	159	3.0	159	70	13	385	30	17	14	37	1.90
4411170--4411752	320	1.8	320	80	4	705	30	17	15	37	1.90
4411305--4413119	612	3.0	604	83	6	2244	32	16	12	38	1.87
4413282--4421920	613	14.2	611	77	10	3045	32	17	13	37	1.88
4414880--4415546	317	2.1	317	89	0	1012	31	17	13	37	1.89
4414931--4415456	159	3.3	157	70	10	433	32	17	13	36	1.88
4415006--4415546	159	3.4	158	70	11	440	30	17	14	37	1.90
4417078--4417105	13	2.2	13	100	0	56	42	14	7	35	1.73
4417664--4418149	160	3.1	157	69	10	430	32	18	11	37	1.86
4417763--4418254	159	3.1	154	70	11	425	32	17	13	37	1.88
4419071--4419614	159	3.4	158	77	10	615	33	16	12	38	1.85
4419199--4419699	159	3.2	158	76	11	540	32	17	11	37	1.86
4419999--4420568	159	3.6	157	76	11	588	32	17	12	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4420127--4420618	159	3.1	158	75	10	527	32	17	11	38	1.86
4420002--4420658	159	4.1	158	73	12	517	32	17	12	37	1.86
4418656--4421249	928	2.8	925	93	1	4277	32	16	13	37	1.88
4422027--4425372	610	5.5	608	83	5	4068	32	17	13	37	1.88
4424104--4424447	159	2.2	158	78	9	326	32	16	12	37	1.87
4424980--4425771	399	2.0	398	83	5	1019	31	18	13	35	1.90
4426372--4426452	42	1.9	42	89	0	126	43	18	20	17	1.88
4427228--4427263	19	1.9	19	88	5	56	77	2	13	5	1.05
4428009--4428126	41	2.8	42	87	1	166	43	0	44	11	1.47
4428018--4428096	12	7.3	11	71	23	53	41	0	44	13	1.44
4428039--4428098	9	6.1	9	72	24	50	43	0	41	15	1.46
4428018--4428122	42	2.5	41	89	1	156	41	0	43	13	1.50
4434856--4434933	9	9.0	9	70	8	63	11	42	1	44	1.48
4434878--4434912	12	2.9	12	84	16	54	11	48	0	40	1.39
4434845--4434963	42	2.8	42	89	0	166	9	44	1	44	1.46
4434869--4434954	24	3.8	24	73	17	85	11	45	1	41	1.48
4438817--4442353	609	5.8	609	90	2	4925	32	17	14	36	1.89
4442130--4442575	223	2.0	222	90	0	703	32	17	14	35	1.90
4442349--4450044	611	12.7	612	86	2	9679	32	17	13	36	1.89
4442349--4450044	612	12.7	612	86	2	9924	32	17	13	36	1.89
4450011--4460400	611	17.1	610	85	4	13023	32	16	14	36	1.89
4460412--4468674	612	13.4	611	79	7	8242	31	16	14	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460412--4462019	606	2.6	610	86	2	2007	31	16	14	37	1.88
4462713--4468674	613	9.8	611	86	2	8264	32	16	14	36	1.89
4469967--4470042	12	6.9	11	77	15	61	39	1	48	10	1.46
4469966--4470051	24	3.8	24	73	17	85	41	1	45	11	1.48
4469987--4470047	9	7.1	9	72	10	56	42	1	44	11	1.50
4469957--4470075	42	2.8	42	90	0	184	42	1	46	9	1.46
4470011--4470056	12	3.9	12	81	13	51	43	0	43	13	1.43
4474724--4480941	609	10.2	608	88	3	8092	32	17	13	36	1.89
4488686--4489020	158	2.1	158	89	0	499	33	15	14	36	1.88
4487455--4488992	610	2.5	601	82	6	1804	32	16	13	37	1.88
4488066--4489578	776	2.0	768	86	3	2144	32	16	14	37	1.88
4491172--4491268	47	2.0	48	96	2	178	28	15	20	35	1.93
4493541--4493601	9	6.1	9	78	17	59	40	0	45	13	1.43
4493509--4493629	42	2.8	42	87	5	154	42	0	44	12	1.48
4495400--4495475	12	6.9	11	75	15	52	39	2	48	9	1.49
4495399--4495484	24	3.8	24	72	17	85	41	2	45	10	1.51
4495390--4495508	42	2.8	42	92	0	193	42	2	46	8	1.47
4499928--4499961	12	2.8	12	83	16	52	11	52	0	35	1.38
4499910--4499961	24	2.1	25	85	3	70	11	48	0	40	1.40
4501569--4504669	609	5.1	610	84	3	3895	37	13	16	32	1.87
4504177--4505100	455	2.0	456	85	2	1261	38	13	16	31	1.88
4504177--4505223	455	2.3	450	83	5	1187	38	13	16	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4504626--4506148	597	2.5	603	82	5	1853	37	13	17	31	1.88
4507385--4507416	10	3.2	10	100	0	64	40	18	21	18	1.91
4507821--4507870	18	2.8	18	81	6	57	46	0	44	10	1.37
4529230--4529254	13	1.9	13	100	0	50	32	8	24	36	1.84
4535353--4535433	20	4.1	20	75	12	69	45	2	43	8	1.48
4661318--4661374	1	57.0	1	82	0	69	0	3	91	5	0.51
4661316--4661374	16	3.5	17	84	13	77	0	3	89	6	0.57
4661318--4661374	29	2.0	28	89	3	87	0	3	91	5	0.51
4663990--4664019	1	30.0	1	100	0	60	0	0	0	100	0.00
4664786--4668976	616	6.8	610	75	14	2918	34	15	17	32	1.91
4673552--4673658	42	2.6	42	85	4	139	9	43	0	45	1.42
4673558--4673625	18	3.6	18	75	11	64	10	42	1	45	1.47
4683336--4685517	632	3.5	610	88	4	2726	32	16	14	36	1.89
4686035--4687314	609	2.1	608	86	3	1773	32	16	14	37	1.88
4687272--4687369	48	2.0	48	98	0	187	28	16	20	34	1.94
4689298--4689358	9	7.1	9	74	10	56	9	42	3	44	1.54
4689270--4689388	42	2.8	42	89	0	184	8	45	2	43	1.47
4689293--4689379	24	3.9	24	72	17	78	10	43	2	43	1.51
4692988--4694540	791	2.0	789	86	1	2112	37	13	16	32	1.87
4695560--4695585	13	2.0	13	100	0	52	38	23	7	30	1.83
4700271--4700838	159	3.6	158	72	11	482	36	12	17	33	1.88
4699176--4700572	612	2.3	606	86	2	1951	37	13	16	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4700236--4700889	318	2.1	316	89	2	997	36	13	17	32	1.89
4699629--4701378	929	1.9	928	86	3	2543	37	13	16	31	1.88
4707162--4708790	610	2.7	608	86	2	2236	37	13	16	32	1.87
4708561--4709056	159	3.1	158	71	6	471	38	12	15	32	1.86
4708775--4711335	606	4.2	612	85	3	3318	36	13	17	32	1.89
4712086--4712111	13	2.0	13	100	0	52	30	15	15	38	1.88
4714658--4714683	13	2.0	13	100	0	52	38	15	15	30	1.88
4716758--4716788	15	2.1	15	93	0	53	12	22	16	48	1.80
4718592--4718636	21	2.1	21	84	8	56	22	20	4	53	1.63
4720855--4720880	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