genome.fa.s139.2.7.7.80.10.50.1000.3.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: Scaffold139
Parameters: 2 7 7 80 10 50 1000
Length:  1720190

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1306 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)
327721--327762	20	2.2	19	86	4	57	59	23	0	16	1.37
331614--331643	15	2.1	15	93	6	53	50	33	6	10	1.62
337181--337206	13	2.0	13	100	0	52	30	15	15	38	1.88
339839--340639	155	5.1	156	80	4	783	39	19	16	25	1.92
341786--341833	23	2.1	23	88	3	71	8	8	4	79	1.06
341947--341980	16	2.1	16	88	0	50	5	8	2	82	0.93
342046--342071	12	2.2	12	100	0	52	50	0	15	34	1.45
342513--342567	21	2.6	21	85	8	67	36	3	16	43	1.65
342659--342731	20	3.7	19	82	8	76	31	19	16	32	1.94
344385--344427	18	2.4	18	84	7	52	41	6	20	30	1.79
349147--349200	20	2.8	19	80	5	63	35	14	12	37	1.85
350047--350432	166	2.3	164	81	10	414	50	8	12	29	1.69
354530--354562	10	3.3	10	100	0	66	33	12	9	45	1.73
359870--359895	13	2.0	13	100	0	52	30	15	15	38	1.88
360593--360636	21	2.1	21	83	8	54	25	31	4	38	1.76
362438--362463	13	2.0	13	100	0	52	38	15	15	30	1.88
364542--364572	15	2.1	15	93	0	53	12	22	16	48	1.80
366374--366418	21	2.1	21	84	8	56	22	20	4	53	1.63
368623--368648	13	2.0	13	100	0	52	30	15	15	38	1.88
370125--370169	23	2.0	23	86	0	63	13	4	51	31	1.61
370510--370540	16	1.9	16	93	0	53	22	0	35	41	1.54
372602--372665	33	2.0	32	87	3	92	26	12	21	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372707--372759	20	2.6	21	82	8	65	30	16	15	37	1.90
372747--372771	13	1.9	13	100	0	50	36	16	16	32	1.90
380039--380102	33	2.0	32	87	3	92	26	12	21	39	1.89
380144--380196	20	2.6	21	82	8	65	30	16	15	37	1.90
380184--380208	13	1.9	13	100	0	50	36	16	16	32	1.90
380839--380870	15	2.1	15	100	0	64	43	6	0	50	1.27
382677--382701	13	1.9	13	100	0	50	32	20	16	32	1.94
385384--385467	19	4.7	19	81	18	108	33	11	17	36	1.87
385424--385448	13	1.9	13	100	0	50	36	16	16	32	1.90
385405--385472	32	2.1	32	97	0	127	33	11	17	36	1.86
385511--385535	13	1.9	13	100	0	50	32	16	16	36	1.90
385544--385672	52	2.5	52	97	0	240	35	18	17	27	1.94
388822--390263	720	2.0	720	99	0	2866	29	20	14	36	1.92
392666--392728	19	3.7	18	76	24	73	25	14	19	41	1.89
392685--392710	13	2.0	13	100	0	52	30	15	15	38	1.88
392666--392728	32	2.0	32	96	0	117	25	14	19	41	1.89
392770--392822	20	2.6	21	82	8	65	30	16	15	37	1.90
392810--392834	13	1.9	13	100	0	50	36	16	16	32	1.90
397947--398013	20	3.3	20	81	8	66	28	11	19	40	1.87
400565--400699	59	2.3	59	82	3	148	31	11	13	43	1.79
404000--404036	2	18.5	2	88	0	56	0	43	5	51	1.24
404593--404617	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404986--405020	2	18.0	2	94	5	63	51	0	0	48	1.00
407956--407986	2	15.5	2	100	0	62	51	0	0	48	1.00
410904--410932	14	2.1	14	100	0	58	27	0	37	34	1.57
411084--411111	13	2.2	13	100	0	56	39	14	14	32	1.86
411159--411214	19	2.9	19	89	2	76	37	16	17	28	1.91
419946--419998	19	2.7	19	85	8	63	41	15	15	28	1.87
419947--420020	20	3.8	19	81	15	80	40	13	14	31	1.85
420968--421584	156	4.0	156	77	7	350	23	17	20	39	1.92
420952--421805	155	5.5	155	75	8	599	23	16	19	39	1.92
425814--425842	14	2.0	15	93	6	51	31	13	0	55	1.39
429033--429086	20	2.7	19	80	11	56	33	16	12	37	1.87
429119--429167	19	2.5	19	83	3	53	40	16	12	30	1.85
434677--434897	95	2.3	93	82	5	264	29	25	12	32	1.92
437281--437307	7	3.9	7	100	0	54	29	0	11	59	1.32
439210--439530	150	2.1	153	81	10	370	27	14	16	40	1.88
440365--440389	4	6.2	4	100	0	50	76	0	0	24	0.80
446756--446959	76	2.6	78	80	5	218	28	16	29	25	1.96
446911--446982	28	2.6	28	88	0	99	23	19	34	22	1.96
446971--447139	52	3.3	50	80	9	189	32	13	24	29	1.93
447004--447139	51	2.6	51	83	11	161	33	13	24	27	1.94
447113--447194	27	3.0	28	82	10	98	26	21	29	21	1.99
449612--449637	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449591--449657	33	2.0	33	88	0	98	43	16	14	25	1.86
449677--449744	19	3.9	18	76	23	83	38	14	11	35	1.83
449699--449723	13	1.9	13	100	0	50	32	16	16	36	1.90
449680--449742	32	2.0	32	96	0	117	36	15	12	34	1.86
449800--449856	21	2.7	21	97	0	105	36	19	10	33	1.86
449859--449900	20	2.1	20	100	0	84	14	4	0	80	0.86
454113--454192	25	3.7	20	72	19	63	37	16	16	30	1.90
454120--454170	25	2.0	25	84	0	66	35	21	15	27	1.94
454482--454560	38	2.1	38	92	0	131	40	20	10	29	1.85
455105--455727	55	11.3	54	91	4	905	20	20	29	29	1.98
455371--455460	26	3.3	26	68	14	74	20	17	33	28	1.95
455401--455489	29	3.2	29	67	20	89	19	19	33	28	1.96
456692--456754	26	2.4	25	82	7	72	0	7	7	84	0.79
456709--456756	12	3.8	12	89	8	69	0	2	10	87	0.62
456710--456752	21	2.0	23	90	9	72	0	2	9	88	0.60
469162--469365	76	2.6	78	80	5	218	28	16	29	25	1.96
469317--469388	28	2.6	28	88	0	99	23	19	34	22	1.96
469377--469546	52	3.3	50	79	11	182	32	12	24	29	1.93
469520--469601	27	3.0	28	82	10	98	26	21	29	21	1.99
472019--472044	13	2.0	13	100	0	52	38	15	15	30	1.88
471998--472064	33	2.0	33	88	0	98	43	16	14	25	1.86
472084--472151	19	3.9	18	76	23	83	38	14	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472106--472130	13	1.9	13	100	0	50	32	16	16	36	1.90
472087--472149	32	2.0	32	96	0	117	36	15	12	34	1.86
472207--472263	21	2.7	21	97	0	105	36	19	10	33	1.86
472266--472305	21	1.9	21	100	0	80	10	2	0	87	0.63
472269--472308	20	2.0	20	100	0	80	10	5	0	85	0.75
476522--476601	25	3.7	20	72	19	63	37	16	16	30	1.90
476529--476579	25	2.0	25	84	0	66	35	21	15	27	1.94
476891--476969	38	2.1	38	92	0	131	40	20	10	29	1.85
479939--479988	23	2.2	23	86	10	68	30	6	20	44	1.75
483286--483350	23	2.8	24	78	17	75	4	24	0	70	1.06
483692--484105	165	2.5	162	80	7	435	48	7	11	32	1.67
485268--485453	84	2.2	83	83	6	216	43	13	24	18	1.86
485330--485459	40	3.1	42	70	6	106	43	13	25	17	1.85
485333--485552	83	2.6	84	76	9	207	41	13	25	19	1.88
485791--486045	44	5.8	44	71	11	157	39	15	23	21	1.91
485786--486064	132	2.1	132	85	0	369	39	14	24	21	1.91
486053--486166	48	2.4	48	88	2	167	43	19	18	18	1.88
486188--486406	14	15.7	14	78	6	212	44	0	28	26	1.58
486419--486513	48	2.0	49	87	2	138	44	22	15	17	1.87
487774--487799	12	2.2	12	100	0	52	30	0	15	53	1.42
494479--494522	23	1.9	23	100	0	88	45	0	15	38	1.47
494479--494533	23	2.4	23	90	0	83	41	0	12	45	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495408--495454	23	2.1	23	84	11	62	2	23	0	74	0.93
497358--497424	20	3.4	20	65	19	59	26	13	10	49	1.74
497365--497443	39	2.0	39	97	0	149	24	15	11	49	1.77
498373--498720	115	3.0	115	90	0	570	25	24	10	39	1.87
501884--501998	51	2.3	51	83	3	133	36	7	26	29	1.84
501935--502328	79	5.0	78	74	10	350	35	10	23	30	1.88
501826--502077	130	1.9	130	86	4	355	37	8	23	29	1.85
501941--502328	158	2.4	158	77	6	433	36	10	22	30	1.88
503086--503129	22	2.0	21	82	4	52	59	0	2	38	1.10
503086--503136	21	2.5	20	81	9	57	56	0	1	41	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11