genome.fa.s247.2.7.7.80.10.50.1000.25.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  25  of  29  ( 3470 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)
3933241--3933272	12	2.7	12	95	0	55	46	0	25	28	1.53
3934102--3934237	51	2.7	51	88	0	182	27	16	13	42	1.85
3940251--3940286	16	2.3	16	90	4	56	58	0	13	27	1.36
3943629--3943662	17	2.0	17	88	11	52	32	2	23	41	1.69
3944236--3944288	19	2.7	20	82	2	72	30	18	13	37	1.89
3946696--3946721	4	6.5	4	100	0	52	50	23	0	26	1.50
3947908--3947976	33	2.1	34	86	8	97	34	14	14	36	1.87
3952441--3952644	79	2.6	80	84	5	279	35	15	23	26	1.94
3952599--3952668	28	2.5	28	88	0	95	30	18	27	24	1.98
3952657--3952773	51	2.3	50	79	7	119	33	12	25	28	1.93
3955120--3955149	13	2.3	13	94	0	51	40	10	16	33	1.82
3955384--3955594	61	3.6	59	78	11	191	27	20	27	24	1.99
3955427--3955540	55	2.1	55	86	3	158	28	21	25	24	1.99
3955481--3955630	61	2.4	62	87	3	214	28	18	26	26	1.98
3955374--3955594	117	1.9	115	82	5	275	26	20	27	25	1.99
3956030--3956131	41	2.5	42	83	13	117	43	11	26	18	1.85
3956266--3956611	61	5.9	60	81	8	367	24	21	26	26	1.99
3956266--3956843	172	3.4	171	81	11	710	24	20	27	26	1.99
3956389--3956633	55	4.3	55	86	7	337	22	22	26	28	1.99
3956458--3956541	29	3.1	27	66	16	73	19	21	33	26	1.97
3956733--3956823	29	3.2	29	66	20	75	26	19	28	25	1.99
3956497--3956794	155	1.9	156	88	4	451	25	19	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3956652--3956848	55	3.5	55	86	6	254	24	20	27	27	1.99
3956441--3957240	210	3.8	203	80	11	798	25	19	28	26	1.99
3956862--3956996	54	2.5	54	91	3	218	24	21	26	27	1.99
3956713--3957150	148	2.9	149	88	4	621	24	18	29	26	1.98
3957016--3957270	61	4.3	61	81	8	301	26	18	27	27	1.98
3957016--3957242	117	1.9	115	85	4	312	25	18	29	27	1.98
3960216--3960334	51	2.3	51	89	0	184	31	14	27	26	1.95
3960319--3960421	28	3.7	28	93	0	161	25	17	33	24	1.96
3960404--3960573	51	3.3	51	94	0	286	32	13	25	28	1.94
3960558--3960626	25	2.6	26	80	13	95	28	17	28	24	1.97
3960644--3960985	155	2.2	155	81	7	399	34	14	25	25	1.94
3960611--3960985	79	4.8	77	78	7	384	32	14	26	26	1.95
3960921--3961097	51	3.5	49	79	6	176	33	12	27	27	1.92
3962606--3962631	13	2.0	13	100	0	52	30	15	15	38	1.88
3962586--3962649	32	2.0	33	90	3	103	28	14	18	39	1.90
3962586--3962656	19	4.0	18	72	25	62	26	12	21	39	1.89
3964525--3964599	20	3.8	19	87	7	105	42	13	16	28	1.85
3965327--3965426	41	2.4	41	84	12	118	45	10	27	18	1.81
3965377--3965464	35	2.6	32	77	15	88	46	11	23	18	1.81
3965421--3965625	43	4.7	43	77	11	186	40	13	25	20	1.89
3965416--3965625	45	4.8	43	75	13	171	41	13	25	20	1.88
3965607--3965785	61	2.9	61	86	4	263	29	19	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3965610--3965806	61	3.3	56	82	8	164	27	19	24	27	1.99
3965729--3965902	94	1.8	95	92	1	296	25	20	27	25	1.99
3965827--3966101	55	5.0	55	85	6	358	25	20	25	28	1.99
3966013--3966099	28	3.1	28	62	21	65	29	20	22	26	1.99
3967103--3967156	9	6.0	9	80	8	65	0	9	5	85	0.75
3967103--3967180	11	7.0	10	78	18	50	0	7	8	83	0.82
3967104--3967167	27	2.4	26	86	2	83	0	7	7	84	0.78
3967103--3967181	34	2.3	35	82	10	101	0	7	10	82	0.85
3967132--3967179	23	2.1	23	92	3	80	0	4	12	83	0.79
3973889--3973933	21	2.1	21	84	8	56	22	20	4	53	1.63
3976133--3976196	32	2.0	33	87	3	94	29	14	17	39	1.88
3978700--3978725	13	2.0	13	100	0	52	38	15	15	30	1.88
3982634--3982678	21	2.1	21	84	8	56	22	20	4	53	1.63
3984898--3984923	13	2.0	13	100	0	52	30	15	15	38	1.88
3984878--3984941	32	2.0	33	90	3	103	28	14	18	39	1.90
3984878--3984948	19	4.0	18	72	25	62	26	12	21	39	1.89
3993056--3993386	78	4.2	79	82	3	310	34	13	25	26	1.93
3993099--3993386	80	3.6	79	82	4	312	34	13	26	26	1.93
3993351--3993414	28	2.3	28	83	5	76	31	10	29	28	1.91
3993266--3993465	107	1.9	107	82	6	253	32	13	28	26	1.94
3995661--3995691	13	2.4	13	100	0	62	38	16	16	29	1.90
3995642--3995711	33	2.1	33	94	0	122	38	12	20	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3995642--3995728	20	4.7	19	73	21	78	41	13	17	27	1.87
3995984--3996257	61	4.6	61	86	7	382	27	20	28	24	1.99
3995993--3996226	117	2.0	116	92	4	391	24	20	29	25	1.99
3996656--3996755	41	2.4	41	85	6	123	45	10	26	19	1.81
3996893--3997031	60	2.3	61	82	7	167	26	23	23	25	2.00
3997076--3997249	55	3.1	55	84	6	197	25	19	28	26	1.99
3997173--3997409	94	2.5	94	91	2	370	27	18	30	24	1.98
3997344--3997552	61	3.5	61	82	11	238	27	20	27	24	1.99
3998001--3998029	13	2.2	13	100	0	58	41	17	13	27	1.87
3999032--3999056	13	1.9	13	100	0	50	32	16	16	36	1.90
3999045--3999192	52	2.9	53	83	5	187	31	18	18	31	1.95
3999065--3999192	52	2.5	52	89	3	197	32	18	18	29	1.95
4006450--4006477	9	3.1	9	100	0	56	89	10	0	0	0.49
4007437--4007673	31	7.6	31	85	9	315	24	30	18	25	1.98
4007437--4007673	63	3.8	61	83	10	295	24	30	18	25	1.98
4007437--4007673	94	2.5	94	95	2	433	24	30	18	25	1.98
4007736--4007924	34	5.4	33	83	12	236	20	34	11	33	1.89
4007718--4007924	71	2.9	69	90	5	308	19	34	12	33	1.89
4007736--4007924	104	1.8	102	89	4	274	20	34	11	33	1.89
4007740--4007957	104	2.1	102	83	8	262	22	35	12	29	1.91
4007907--4007985	33	2.5	32	84	15	119	26	37	16	18	1.92
4007978--4008443	49	9.8	48	86	7	628	25	25	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4008165--4008452	97	3.0	91	89	5	378	25	26	18	30	1.98
4008353--4008491	52	2.6	52	82	4	161	25	25	15	33	1.95
4009319--4009385	33	2.0	33	88	0	98	34	11	13	40	1.81
4009339--4009363	13	1.9	13	100	0	50	36	16	16	32	1.90
4009426--4009450	13	1.9	13	100	0	50	32	16	16	36	1.90
4014600--4014630	13	2.4	13	94	0	53	35	12	16	35	1.87
4014580--4014646	33	2.0	33	88	5	100	32	16	14	35	1.90
4014716--4014742	13	2.1	13	100	0	54	40	14	14	29	1.86
4014697--4014761	32	2.0	32	90	3	103	40	16	16	26	1.90
4019795--4019831	2	19.0	2	94	5	67	51	0	0	48	1.00
4024516--4024697	81	2.4	74	77	15	197	50	4	12	32	1.62
4024529--4024732	82	2.5	82	89	2	311	49	4	14	31	1.63
4025384--4025414	2	15.5	2	100	0	62	51	0	0	48	1.00
4025593--4025624	2	16.0	2	93	0	55	50	0	3	46	1.17
4026156--4026197	2	21.5	2	85	4	59	42	0	2	54	1.13
4026147--4026198	6	8.5	6	82	4	50	40	1	1	55	1.22
4026432--4026471	15	2.6	14	88	11	53	55	2	0	42	1.13
4030424--4030454	2	15.5	2	93	0	53	45	0	0	54	0.99
4032584--4032626	3	14.3	3	100	0	86	67	0	0	32	0.91
4037777--4038206	156	2.8	152	79	6	416	37	19	14	27	1.91
4039672--4039700	9	3.2	9	100	0	58	79	0	0	20	0.74
4043598--4043672	20	3.7	19	79	10	69	42	10	12	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4043720--4043769	20	2.5	20	86	3	64	30	14	12	44	1.81
4043811--4043866	21	2.7	21	97	0	103	42	14	10	32	1.80
4046927--4046951	13	1.9	13	100	0	50	32	16	16	36	1.90
4046939--4046991	21	2.5	22	82	11	67	39	16	15	28	1.89
4047051--4047076	13	2.0	13	100	0	52	38	15	15	30	1.88
4047033--4047096	33	2.0	32	87	9	94	37	20	14	28	1.91
4051795--4051820	13	2.0	13	100	0	52	38	15	15	30	1.88
4054416--4054453	13	2.9	13	92	0	67	31	13	15	39	1.86
4054586--4054627	21	2.0	21	86	13	59	35	21	0	42	1.53
4056292--4056504	105	2.0	105	94	0	372	41	2	26	30	1.68

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