genome.fa.s352.2.7.7.80.10.50.1000.3.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: Scaffold352
Parameters: 2 7 7 80 10 50 1000
Length:  630196

Tables:   1   2   3   4   

This is table  3  of  4  ( 417 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)
401315--401344	13	2.3	13	94	0	51	6	3	10	80	1.01
404749--404777	14	2.0	15	93	6	51	82	0	17	0	0.66
413140--413166	13	2.1	13	100	0	54	29	14	14	40	1.86
413223--413252	13	2.3	13	100	0	60	30	13	16	40	1.87
413202--413267	33	2.0	34	91	8	109	30	18	15	36	1.91
413903--413936	16	2.1	17	89	10	54	29	35	0	35	1.58
415805--415829	13	1.9	13	100	0	50	40	8	16	36	1.77
415958--415998	19	2.2	19	86	8	57	51	21	0	26	1.48
422024--422053	13	2.3	13	100	0	60	30	13	16	40	1.87
422098--422256	19	7.8	21	73	18	90	33	16	15	33	1.91
422098--422152	20	2.7	20	88	8	76	32	18	14	34	1.91
422037--422235	84	2.4	84	96	0	364	32	17	17	33	1.93
422055--422196	43	3.3	43	67	21	127	33	16	17	31	1.93
422182--422254	19	3.7	19	92	3	110	34	17	15	32	1.91
422242--422268	13	2.1	13	100	0	54	40	14	14	29	1.86
423335--423381	3	15.7	3	100	0	94	34	0	0	65	0.93
434208--434346	51	2.7	51	87	1	197	43	12	12	30	1.80
436818--436854	18	2.2	17	86	13	51	43	18	5	32	1.73
438240--438282	16	2.9	14	83	12	59	23	6	13	55	1.62
438249--438279	16	1.9	16	100	0	62	19	6	16	58	1.59
438900--439104	64	3.2	61	74	10	180	41	16	14	27	1.87
440676--440707	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443180--443210	2	15.5	2	100	0	62	51	0	0	48	1.00
443977--444191	107	2.0	107	96	0	394	40	13	15	30	1.86
447256--447308	26	2.0	27	88	3	81	43	1	0	54	1.11
448234--448510	108	2.6	106	83	9	316	52	1	2	42	1.25
448440--448525	22	3.8	22	76	11	84	60	1	1	37	1.12
448447--448549	47	2.2	45	81	13	120	60	2	0	35	1.18
448891--448919	14	2.0	15	93	6	51	34	3	0	62	1.12
449072--449122	24	2.3	23	83	10	61	37	0	1	60	1.08
449437--449525	39	2.3	39	80	3	99	47	2	5	44	1.39
449705--450007	86	3.5	87	86	5	371	42	7	13	35	1.73
449911--450144	117	2.0	118	86	5	332	47	6	14	31	1.70
453272--453421	52	2.9	52	91	4	241	30	17	18	34	1.94
453462--453486	13	1.9	13	100	0	50	32	16	16	36	1.90
453444--453506	33	1.9	33	86	0	90	41	15	11	31	1.83
454225--454471	52	4.9	51	77	10	260	32	19	25	21	1.97
454282--454465	95	1.9	95	87	2	271	30	21	25	22	1.99
454514--454586	28	2.6	28	91	0	119	20	16	24	38	1.93
454514--454611	28	3.4	28	85	2	106	21	17	25	35	1.95
454608--454675	35	2.0	35	88	2	102	38	10	30	20	1.86
454652--454825	29	6.0	29	81	6	192	26	16	28	28	1.97
454671--454831	86	1.9	86	88	2	243	24	16	28	29	1.97
456267--456292	3	8.7	3	100	0	52	0	0	30	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456295--456357	1	63.0	1	77	0	63	1	1	7	88	0.63
456264--456362	33	2.8	33	83	11	108	1	1	16	81	0.80
456265--456360	15	6.1	15	81	17	83	1	1	15	82	0.79
466800--466840	20	2.0	20	100	0	82	34	24	24	17	1.96
470224--470299	32	2.4	32	97	0	143	27	21	19	31	1.97
470308--470332	13	1.9	13	100	0	50	36	16	16	32	1.90
470373--470439	33	2.0	33	88	0	98	40	14	11	32	1.83
470395--470419	13	1.9	13	100	0	50	32	16	16	36	1.90
470710--470845	67	2.0	66	85	4	184	43	9	18	28	1.81
470779--470951	92	1.9	92	82	0	220	39	10	18	31	1.84
475703--475826	52	2.4	51	94	1	212	28	17	18	35	1.94
475703--475846	52	2.8	51	88	5	202	29	17	18	34	1.94
475835--475859	13	1.9	13	100	0	50	36	16	16	32	1.90
475900--475966	33	2.0	33	88	0	98	40	13	11	34	1.81
475922--475946	13	1.9	13	100	0	50	32	16	16	36	1.90
476855--477540	343	2.0	344	91	1	1099	37	14	18	29	1.91
478521--478721	41	4.9	40	71	4	125	24	14	16	44	1.85
478532--478648	41	2.9	41	81	6	132	24	11	16	47	1.79
478521--478658	41	3.4	41	77	5	129	23	11	18	46	1.82
484896--484929	15	2.2	15	94	5	59	73	5	20	0	1.04
485216--485389	84	2.1	85	81	5	210	35	5	5	53	1.47
485259--485389	44	3.1	44	69	19	114	38	4	5	51	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485399--485492	46	2.0	48	89	6	147	37	1	5	56	1.29
489324--489387	33	1.9	33	93	0	110	20	18	14	46	1.83
490240--490281	22	1.9	22	90	9	68	40	2	0	57	1.12
491078--491149	29	2.5	27	80	8	72	52	2	2	41	1.30
491560--491601	17	2.4	17	88	4	57	47	2	0	50	1.14
498964--499000	5	8.0	5	88	11	53	81	0	18	0	0.70
498964--499003	13	3.0	13	82	17	55	82	0	17	0	0.67
498965--499003	18	2.2	18	95	4	71	84	0	15	0	0.62
499334--499403	32	2.2	32	92	0	113	41	18	30	10	1.83
499439--499530	36	2.6	36	85	0	121	39	20	26	14	1.90
501192--501998	156	5.2	154	76	4	710	23	18	19	38	1.93
501236--501999	311	2.5	308	80	4	795	23	18	19	38	1.93
505356--505385	8	3.6	8	91	8	51	86	0	13	0	0.57
506949--507154	90	2.3	90	92	0	340	27	29	15	28	1.96
507410--507488	36	2.2	36	83	0	95	18	26	11	43	1.84
507500--507686	88	2.1	89	85	4	254	22	24	13	39	1.91
507525--507675	44	3.4	44	82	8	200	21	23	15	39	1.91
507809--508205	42	9.4	42	76	4	280	17	29	18	34	1.94
507895--508053	85	1.9	85	82	0	201	18	29	18	32	1.96
507880--508176	127	2.3	126	79	4	337	17	29	19	33	1.95
507880--508238	126	2.8	125	77	7	357	16	28	18	35	1.93
507793--508199	84	4.8	84	76	5	318	17	29	17	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508301--508480	85	2.1	86	86	1	245	15	29	20	35	1.92
508301--508480	43	4.2	43	91	1	245	15	29	20	35	1.92
508301--508818	128	4.1	128	78	7	533	15	28	20	35	1.93
508449--508505	29	2.0	29	92	0	96	12	26	26	35	1.92
508406--508546	72	2.0	72	89	0	219	12	26	24	35	1.92
508478--508817	43	7.9	42	80	6	333	15	28	20	35	1.93
508301--508682	202	1.9	200	85	1	530	14	28	21	35	1.93
508478--508817	85	4.0	86	80	1	351	15	28	20	35	1.93
508716--508850	43	3.2	43	80	7	114	17	28	20	34	1.94
508747--508955	42	5.0	41	75	5	141	15	29	18	36	1.92
508879--509078	42	4.7	42	76	7	161	19	32	16	33	1.93
508894--509083	85	2.2	87	81	6	210	18	33	14	33	1.92
509020--509106	44	2.0	44	86	0	120	13	34	17	34	1.89
509128--509211	42	2.0	42	85	0	114	15	28	20	35	1.93
509299--509479	41	4.4	42	74	5	127	23	30	16	29	1.96
509296--509988	84	8.3	81	72	11	262	21	26	17	34	1.96
509185--509651	42	11.2	41	70	7	163	20	27	18	33	1.96
509727--509856	41	3.1	41	78	5	138	22	28	16	33	1.95
509797--509904	42	2.6	41	80	4	119	21	28	18	31	1.97
510061--510244	41	4.4	42	76	8	187	20	32	16	30	1.95
510007--510263	126	2.0	126	98	0	496	19	31	18	29	1.96
510007--510283	42	6.6	42	74	7	206	19	31	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510318--510672	84	4.2	84	85	2	385	21	30	13	33	1.92
512433--512479	17	2.8	17	87	6	69	25	0	0	74	0.82
512606--512636	15	2.1	15	93	0	53	83	0	16	0	0.64
514649--515475	157	5.3	154	77	6	659	23	18	19	38	1.93
515458--515797	176	1.9	176	93	0	581	28	15	17	38	1.91
516772--516798	13	2.1	13	100	0	54	40	14	14	29	1.86
516752--516817	32	2.0	33	88	8	100	42	16	15	25	1.87
519079--519117	21	1.9	19	85	10	51	46	0	23	30	1.53
525118--525171	19	2.8	20	85	2	65	35	16	16	31	1.92
530841--530886	18	2.6	18	92	0	74	58	4	13	23	1.52

Tables:   1   2   3   4