genome.fa.s2.2.7.7.80.10.50.1000.25.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   

This is table  25  of  38  ( 4457 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)
3837203--3837278	21	3.7	21	80	3	100	42	11	17	28	1.84
3837185--3837278	41	2.3	41	98	0	179	39	12	18	29	1.88
3837317--3837342	13	2.0	13	100	0	52	38	15	15	30	1.88
3838421--3838459	13	3.0	13	85	11	53	0	2	10	87	0.65
3838421--3838463	20	2.1	21	86	4	61	0	2	11	86	0.67
3845620--3845739	52	2.3	51	91	4	197	29	18	19	33	1.95
3845748--3845772	13	1.9	13	100	0	50	36	16	16	32	1.90
3845813--3845879	33	2.0	33	88	0	98	40	13	11	34	1.81
3845835--3845859	13	1.9	13	100	0	50	32	16	16	36	1.90
3846070--3846104	18	1.9	18	94	0	61	25	37	17	20	1.94
3854512--3854663	76	2.0	76	97	0	286	34	18	17	29	1.94
3855586--3855645	14	4.2	14	76	17	61	43	10	25	21	1.83
3855628--3855729	53	1.9	53	95	0	186	37	9	27	25	1.87
3858575--3858637	33	1.9	33	87	6	92	34	15	12	36	1.86
3858670--3858725	19	2.9	19	83	2	67	35	10	21	32	1.88
3858719--3858799	20	3.8	20	70	12	72	37	8	18	35	1.82
3858723--3858812	44	2.0	44	100	0	180	32	8	22	36	1.85
3858897--3858937	22	2.0	22	85	9	59	43	9	12	34	1.75
3866648--3866688	22	2.0	21	85	9	57	43	9	9	36	1.71
3867646--3867715	20	3.5	19	76	7	68	41	17	11	30	1.84
3867685--3867821	53	2.6	53	96	1	247	37	18	17	27	1.93
3867853--3867907	21	2.5	22	94	5	94	29	25	9	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869941--3870105	84	2.0	84	83	7	210	52	3	18	24	1.61
3873196--3873266	20	3.6	19	77	7	70	40	16	12	29	1.86
3873236--3873372	53	2.6	53	95	1	238	37	18	16	27	1.92
3873485--3873509	13	1.9	13	100	0	50	32	16	20	32	1.94
3877657--3877715	23	2.6	23	94	0	100	40	13	6	38	1.71
3879273--3879314	21	2.0	21	85	0	57	64	0	14	21	1.29
3880530--3880555	13	2.0	13	100	0	52	30	15	15	38	1.88
3881253--3881296	21	2.1	21	83	8	54	27	31	2	38	1.69
3883090--3883128	13	3.0	13	96	0	69	35	15	17	30	1.91
3883114--3883192	20	3.7	20	78	15	77	44	15	15	25	1.85
3885206--3885236	15	2.1	15	93	0	53	12	22	16	48	1.80
3888562--3888587	13	2.0	13	100	0	52	30	15	15	38	1.88
3888636--3888689	20	2.6	21	82	2	65	33	20	11	35	1.88
3892363--3892426	32	1.9	34	90	9	105	29	14	23	32	1.94
3894013--3894052	19	2.1	19	85	0	53	12	10	5	72	1.26
3903737--3903776	17	2.4	17	86	0	62	85	7	0	7	0.76
3905025--3906176	86	13.3	84	83	6	1326	28	31	18	21	1.97
3905025--3906174	57	19.9	57	83	6	1315	28	31	18	21	1.97
3905025--3906096	28	37.4	28	85	5	1302	28	31	18	21	1.97
3906241--3906363	49	2.6	46	81	7	131	21	27	20	30	1.98
3909905--3909966	20	3.0	20	81	4	70	35	9	17	37	1.83
3912043--3912088	21	2.2	21	92	0	74	67	4	6	21	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3916851--3916971	52	2.3	52	94	0	215	27	19	18	35	1.94
3916847--3916998	52	2.9	51	80	9	182	26	17	21	35	1.95
3917076--3917170	19	5.6	19	68	27	88	34	18	14	31	1.92
3917038--3917184	32	4.6	32	95	0	251	34	17	14	34	1.89
3917095--3917183	13	5.9	13	68	27	52	33	17	15	32	1.92
3918028--3918518	49	10.1	49	81	8	565	32	16	25	24	1.96
3918037--3918518	101	4.9	100	83	7	564	32	17	25	24	1.96
3918040--3918518	144	3.3	144	88	3	658	32	17	25	24	1.96
3918238--3918518	92	3.0	93	81	9	297	33	17	24	24	1.96
3918532--3918717	33	5.7	33	79	3	225	20	17	33	28	1.96
3918526--3918716	65	2.9	65	87	0	265	20	18	31	28	1.97
3918747--3919065	68	4.9	68	76	12	326	35	13	30	21	1.91
3918730--3918871	28	4.7	28	70	19	106	33	11	31	23	1.91
3918916--3918969	28	1.9	28	92	0	90	29	14	31	24	1.95
3918731--3919035	96	3.2	96	92	0	522	35	12	29	21	1.91
3919046--3919355	58	5.3	58	90	4	430	18	17	32	30	1.94
3919046--3919355	30	10.7	29	83	9	341	18	17	32	30	1.94
3919040--3919355	88	3.6	85	85	7	377	19	17	32	30	1.95
3920560--3920603	14	3.2	13	87	12	61	2	2	15	79	0.93
3920560--3920603	15	3.1	15	87	6	56	2	2	15	79	0.93
3920560--3920617	28	2.1	27	81	9	64	3	3	17	75	1.07
3924898--3924971	27	2.7	27	97	0	139	18	18	39	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3926974--3927100	52	2.5	52	92	1	211	28	15	17	38	1.90
3926974--3927121	52	2.9	51	87	5	183	30	15	17	36	1.91
3927110--3927134	13	1.9	13	100	0	50	36	16	16	32	1.90
3927187--3927235	19	2.6	19	93	3	82	36	20	12	30	1.89
3929682--3929719	20	1.9	20	94	0	67	42	18	13	26	1.87
3931609--3931646	16	2.3	17	82	17	53	47	2	31	18	1.62
3932400--3932427	13	2.2	13	100	0	56	32	17	14	35	1.90
3932505--3932561	20	2.8	21	94	2	98	35	10	17	36	1.84
3934300--3934372	20	3.6	20	79	3	92	35	15	19	30	1.92
3934318--3934393	21	3.7	21	80	3	100	42	11	17	28	1.84
3934300--3934393	41	2.3	41	96	0	170	39	13	18	28	1.89
3934432--3934457	13	2.0	13	100	0	52	38	15	15	30	1.88
3935479--3935823	142	2.4	147	83	8	454	43	9	9	37	1.70
3935521--3935876	142	2.5	140	86	4	477	42	11	9	36	1.73
3936698--3936748	10	4.9	10	88	7	59	3	19	0	76	0.94
3936716--3936755	13	2.9	14	89	10	57	0	17	0	82	0.67
3937145--3937976	165	5.0	163	77	7	700	49	9	10	31	1.68
3937216--3937850	165	3.8	165	82	4	705	50	9	10	30	1.67
3937235--3937835	331	1.8	330	83	5	802	50	8	10	30	1.67
3937106--3937976	331	2.6	331	77	6	743	49	9	10	31	1.68
3939223--3939355	35	3.8	35	84	2	133	46	14	18	20	1.83
3942745--3942778	1	34.0	1	90	0	50	94	0	2	2	0.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3942743--3942774	16	2.0	16	100	0	64	87	0	6	6	0.67
3942784--3942840	21	2.7	21	97	0	105	33	10	19	36	1.86
3942896--3942963	19	3.9	19	78	21	85	35	11	14	38	1.83
3942917--3942941	13	1.9	13	100	0	50	36	16	16	32	1.90
3942898--3942960	32	2.0	32	96	0	117	34	12	15	36	1.86
3943003--3943028	13	2.0	13	100	0	52	30	15	15	38	1.88
3942983--3943049	33	2.0	33	88	0	98	25	14	16	43	1.86
3945508--3945580	27	2.7	27	87	6	94	23	34	21	20	1.97
3945563--3945733	51	3.3	51	78	4	189	29	25	11	33	1.91
3945716--3945797	28	2.9	28	82	7	96	24	31	17	26	1.97
3955871--3956924	55	19.1	55	91	4	1561	29	30	20	20	1.97
3956019--3956658	26	23.3	26	61	19	101	29	30	19	20	1.97
3956772--3956852	29	2.9	29	66	15	71	27	32	18	22	1.97
3958183--3958239	21	2.7	21	97	0	105	33	10	19	36	1.86
3958295--3958362	19	3.9	19	78	21	85	35	11	14	38	1.83
3958316--3958340	13	1.9	13	100	0	50	36	16	16	32	1.90
3958297--3958359	32	2.0	32	96	0	117	34	12	15	36	1.86
3958402--3958427	13	2.0	13	100	0	52	30	15	15	38	1.88
3958382--3958448	33	2.0	33	88	0	98	25	14	16	43	1.86
3960954--3961124	51	3.3	51	80	4	207	29	25	11	33	1.91
3961107--3961188	28	2.9	28	82	7	96	24	31	17	26	1.97
3973546--3973623	1	78.0	1	81	0	93	91	5	3	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3973546--3973623	21	3.7	21	88	5	104	91	5	3	0	0.52
3974589--3975706	55	20.3	55	91	4	1682	29	30	20	20	1.97
3974801--3975440	28	23.3	26	61	19	110	29	31	19	19	1.97
3975554--3975634	29	2.9	29	66	15	71	27	32	18	22	1.97
3976694--3976719	13	2.0	13	100	0	52	76	0	7	15	0.99
3976732--3976788	21	2.7	21	97	0	105	33	10	19	36	1.86
3976844--3976911	19	3.9	19	78	21	85	35	11	14	38	1.83
3976865--3976889	13	1.9	13	100	0	50	36	16	16	32	1.90
3976846--3976908	32	2.0	32	96	0	117	34	12	15	36	1.86
3976951--3976976	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