genome.fa.s7.2.7.7.80.10.50.1000.32.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  32  of  37  ( 4421 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)
5549591--5549695	20	4.8	20	72	21	84	41	11	16	30	1.83
5550849--5550918	32	2.2	32	81	0	77	27	17	25	30	1.97
5550860--5551434	197	2.9	196	84	3	702	25	16	28	29	1.97
5550858--5551434	28	20.3	28	84	2	641	25	16	28	29	1.97
5552081--5552148	19	3.9	19	78	21	85	35	11	14	38	1.83
5552102--5552126	13	1.9	13	100	0	50	36	16	16	32	1.90
5552083--5552145	32	2.0	32	96	0	117	34	12	15	36	1.86
5552188--5552213	13	2.0	13	100	0	52	30	15	15	38	1.88
5552168--5552234	33	2.0	33	88	0	98	25	14	16	43	1.86
5554582--5554970	51	7.4	50	71	19	159	30	25	12	31	1.92
5554691--5554766	27	2.8	28	88	6	102	23	31	21	23	1.98
5554585--5554971	52	7.4	52	73	13	265	30	25	12	31	1.92
5554751--5554971	105	2.1	103	83	5	266	30	25	10	32	1.90
5554580--5555080	263	1.9	262	87	4	740	28	26	13	30	1.94
5562088--5562113	13	2.0	13	100	0	52	38	15	15	30	1.88
5564340--5564384	21	2.1	21	84	8	56	53	4	20	22	1.63
5566188--5566218	15	2.1	15	93	0	53	48	16	22	12	1.80
5568298--5568336	13	3.0	13	100	0	78	30	15	15	38	1.88
5570880--5570905	13	2.0	13	100	0	52	38	15	15	30	1.88
5571808--5571841	17	2.0	17	88	0	50	50	17	26	5	1.69
5577489--5577542	13	4.2	13	86	13	60	85	9	5	0	0.75
5577489--5577566	13	6.1	12	76	10	57	80	6	11	1	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5578535--5579465	60	16.3	59	82	10	946	26	27	20	25	1.99
5578527--5579465	234	4.1	231	85	6	1124	26	26	20	26	1.99
5578559--5579464	55	15.9	56	85	7	841	26	27	20	25	1.99
5579289--5579440	47	3.0	48	82	14	207	30	28	21	19	1.97
5579241--5579440	102	2.0	102	93	0	346	30	28	21	20	1.98
5580262--5580329	19	3.9	19	76	21	76	36	11	13	38	1.81
5580264--5580326	32	2.0	32	93	0	108	36	12	14	36	1.84
5580283--5580307	13	1.9	13	100	0	50	36	16	16	32	1.90
5580369--5580394	13	2.0	13	100	0	52	30	15	15	38	1.88
5580349--5580415	33	2.0	33	85	0	89	25	14	14	44	1.84
5582754--5583139	51	7.3	53	74	11	240	30	25	12	31	1.92
5582863--5582935	27	2.7	27	85	6	94	24	32	20	21	1.97
5582751--5583139	52	7.4	50	73	14	232	30	25	12	31	1.92
5582920--5583139	105	2.1	103	84	3	280	30	25	10	33	1.90
5582749--5583250	264	1.9	263	88	3	751	28	26	13	31	1.94
5591105--5591152	15	3.2	15	75	0	60	16	0	41	41	1.48
5598982--5599036	20	2.8	20	88	0	83	43	10	10	34	1.75
5598932--5599087	71	2.2	71	88	4	228	43	11	15	29	1.82
5600339--5600377	20	2.0	20	89	0	60	38	7	17	35	1.79
5601521--5601563	23	2.0	22	81	9	52	46	4	6	41	1.51
5614477--5614535	32	1.9	30	83	13	75	59	10	10	20	1.58
5615003--5615054	20	2.6	20	100	0	104	38	19	11	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5619182--5619343	48	3.4	49	80	5	145	35	14	16	33	1.89
5622426--5622450	13	1.9	13	100	0	50	32	16	20	32	1.94
5625387--5625426	20	2.0	21	95	5	73	32	15	12	40	1.84
5629819--5629854	12	3.0	12	87	0	54	22	33	0	44	1.53
5631515--5631565	20	2.6	19	84	9	59	43	15	15	25	1.86
5631927--5631983	22	2.7	22	86	5	73	33	24	0	42	1.55
5631926--5632000	20	3.8	20	78	14	75	33	24	0	42	1.55
5639718--5639868	79	1.9	80	86	4	216	29	26	14	29	1.95
5639800--5639968	51	3.3	51	85	3	207	30	28	12	28	1.93
5640313--5640361	23	2.2	22	81	3	53	14	4	14	67	1.37
5641808--5641875	33	2.1	33	94	2	120	55	13	11	19	1.67
5642147--5642200	19	2.8	19	88	2	72	27	20	12	38	1.89
5642227--5642282	19	2.9	19	86	2	76	37	10	17	33	1.85
5642267--5642293	13	2.1	13	100	0	54	40	14	14	29	1.86
5646522--5646646	52	2.4	52	95	0	223	28	17	18	36	1.94
5646522--5646666	52	2.8	51	89	4	211	29	17	18	34	1.94
5646655--5646679	13	1.9	13	100	0	50	36	16	16	32	1.90
5648292--5648328	13	2.8	13	87	0	56	35	10	16	37	1.83
5653093--5653119	13	2.1	13	100	0	54	29	14	14	40	1.86
5653074--5653138	32	2.0	33	87	3	96	29	15	12	43	1.83
5653103--5653159	19	2.9	19	84	2	78	33	15	15	35	1.90
5653376--5653444	33	2.1	33	86	5	95	31	13	18	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5662095--5662121	13	2.1	13	100	0	54	29	14	14	40	1.86
5662167--5662219	13	4.5	13	71	26	55	33	13	16	35	1.88
5662151--5662219	33	2.1	33	89	5	104	31	13	18	36	1.89
5662408--5662460	13	4.5	13	71	26	55	33	13	16	35	1.88
5662392--5662460	33	2.1	33	89	5	104	31	13	18	36	1.89
5662143--5662624	241	2.0	241	96	0	883	35	19	16	28	1.93
5664940--5664995	19	2.9	19	78	2	58	37	12	17	32	1.88
5667423--5667448	13	2.0	13	100	0	52	30	15	15	38	1.88
5669493--5669535	20	2.1	20	82	4	50	11	30	41	16	1.83
5672039--5672069	15	2.1	15	93	0	53	12	22	16	48	1.80
5676027--5676052	13	2.0	13	100	0	52	30	15	15	38	1.88
5676006--5676070	32	2.0	33	93	6	114	27	12	15	44	1.82
5676006--5676070	19	3.6	19	73	26	70	27	12	15	44	1.82
5676741--5676798	21	2.8	21	83	0	62	18	17	1	62	1.42
5676759--5676802	21	2.1	21	91	0	70	18	15	2	63	1.41
5679930--5679970	15	2.7	16	81	11	59	31	17	2	48	1.60
5679995--5680093	48	2.1	48	94	3	173	30	15	12	42	1.83
5682162--5682223	32	1.9	33	83	3	81	37	11	19	32	1.87
5682215--5682257	20	2.0	22	86	8	63	13	13	23	48	1.79
5683959--5684008	26	1.9	26	83	0	64	42	6	0	52	1.26
5693139--5693212	22	3.5	21	73	14	62	17	16	2	63	1.42
5693138--5693210	21	3.4	22	71	19	55	17	15	2	64	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5695764--5695789	13	2.0	13	100	0	52	38	15	15	30	1.88
5702237--5702340	37	2.8	38	82	4	115	46	20	8	25	1.79
5704221--5704267	22	2.2	22	84	3	60	42	10	6	40	1.65
5705151--5705206	20	2.7	21	81	10	62	73	0	19	7	1.06
5706029--5706348	57	5.6	57	81	5	351	34	8	11	46	1.70
5706008--5706291	114	2.5	114	94	1	487	33	7	12	46	1.70
5706079--5706229	28	5.3	28	61	12	74	34	7	12	45	1.71
5706008--5706411	57	7.0	58	78	7	217	32	9	11	45	1.74
5708062--5708239	92	1.9	93	84	1	241	33	15	14	37	1.88
5715363--5715388	13	2.0	13	100	0	52	30	15	15	38	1.88
5715343--5715406	32	2.0	33	90	3	103	28	14	18	39	1.90
5715343--5715413	19	4.0	18	72	25	62	26	12	21	39	1.89
5717478--5717516	20	1.9	20	84	5	51	10	28	43	17	1.82
5724131--5724156	13	2.0	13	100	0	52	30	15	15	38	1.88
5725014--5725058	20	2.1	22	88	8	67	24	35	22	17	1.95
5725386--5725894	256	2.0	257	96	1	948	27	29	17	26	1.98
5727355--5727379	13	1.9	13	100	0	50	36	16	16	32	1.90
5727364--5727420	19	3.0	20	69	7	55	38	14	14	33	1.85
5729334--5729572	97	2.5	96	86	0	334	29	12	29	28	1.93
5731282--5731333	11	4.9	10	84	9	59	1	21	0	76	0.87
5731299--5731333	15	2.2	16	90	5	54	0	17	0	82	0.66
5732680--5732803	32	4.0	31	80	12	116	21	16	32	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5732671--5733258	28	20.1	28	78	8	394	25	16	29	28	1.97
5732824--5732879	29	1.9	29	82	7	69	32	14	21	32	1.93
5732905--5733256	142	2.5	143	82	4	435	24	16	30	29	1.96
5733641--5733666	13	2.0	13	100	0	52	38	15	15	30	1.88
5735880--5735924	21	2.1	21	84	8	56	53	4	20	22	1.63
5739772--5739851	20	3.8	20	75	15	79	26	15	15	43	1.85
5739837--5739875	13	3.0	13	100	0	78	30	15	15	38	1.88
5742411--5742436	13	2.0	13	100	0	52	38	15	15	30	1.88
5743185--5743351	28	5.9	28	79	5	185	24	16	28	31	1.96
5743185--5743351	56	3.0	56	81	6	212	24	16	28	31	1.96

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