genome.fa.s100.2.7.7.80.10.50.1000.4.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: Scaffold100
Parameters: 2 7 7 80 10 50 1000
Length:  904619

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 870 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)
446324--446395	33	2.2	33	92	0	117	16	16	37	29	1.91
446262--446453	84	2.3	84	89	0	285	15	18	35	29	1.92
446345--446446	51	2.0	53	90	3	163	12	17	38	31	1.88
446908--446989	26	3.3	25	67	16	71	21	21	3	52	1.62
446916--447017	49	2.1	49	83	0	123	18	25	4	50	1.66
447172--447200	9	3.3	9	95	4	51	17	0	0	82	0.66
447172--447219	14	3.4	13	83	16	60	18	0	2	79	0.84
447176--447217	9	5.1	8	82	11	50	16	0	2	80	0.81
447531--447562	17	2.0	17	88	11	50	62	12	21	3	1.43
447662--447771	53	2.1	53	82	1	130	41	17	30	10	1.82
447716--448901	42	28.3	42	81	3	1131	37	18	29	14	1.90
453087--453111	13	1.9	13	100	0	50	36	16	16	32	1.90
453067--453133	33	2.0	33	88	0	98	32	11	14	40	1.83
453194--453318	52	2.4	52	94	0	214	36	17	17	28	1.93
460212--460283	23	3.1	23	75	11	67	75	11	8	5	1.19
460506--460561	29	2.0	29	86	10	80	80	14	5	0	0.88
461393--461430	16	2.3	17	86	4	51	44	23	5	26	1.74
461519--461640	31	4.0	31	75	5	124	25	30	16	27	1.97
461740--461800	28	2.2	27	88	2	86	22	34	13	29	1.92
461673--461973	96	3.0	95	78	14	338	20	34	11	33	1.89
461653--462006	34	10.5	34	83	9	422	19	34	11	34	1.88
461766--462006	105	2.3	103	90	3	376	19	34	11	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462016--462209	33	5.9	34	85	8	269	28	32	19	19	1.96
462014--462207	66	3.0	64	90	4	300	28	32	19	19	1.96
462209--462638	49	9.0	49	79	11	439	25	24	17	33	1.96
462209--462524	92	3.4	92	96	0	580	25	24	18	31	1.98
462433--462630	101	1.9	101	83	6	252	25	23	16	34	1.95
463446--463470	13	1.9	13	100	0	50	36	16	16	32	1.90
463426--463492	33	2.0	33	88	0	98	32	11	14	40	1.83
463533--463557	13	1.9	13	100	0	50	32	16	16	36	1.90
463512--463578	33	2.0	34	91	2	109	35	16	11	35	1.86
470231--470270	20	2.1	20	86	9	57	55	5	5	35	1.44
472628--472744	51	2.3	51	86	0	162	17	16	35	30	1.92
472701--472769	33	2.1	33	86	0	93	15	15	37	30	1.90
472642--472832	84	2.3	84	88	1	287	16	18	36	28	1.92
473301--473399	49	2.0	49	96	0	180	17	22	6	54	1.64
473306--473415	49	2.2	49	87	3	150	18	25	6	50	1.70
473561--473603	16	2.7	16	85	7	61	20	0	4	74	1.00
473570--473621	16	3.2	16	81	13	61	17	0	7	75	1.03
473576--473613	18	2.1	18	90	0	58	15	0	5	78	0.91
473570--473629	25	2.4	26	80	8	70	20	0	6	73	1.05
475499--475747	124	2.0	124	96	0	453	29	18	25	25	1.98
477479--477527	19	2.4	19	80	13	53	30	20	4	44	1.70
485185--486227	42	24.9	41	81	5	979	13	28	19	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485186--486190	294	3.4	291	84	3	1209	13	28	18	38	1.90
486670--486720	8	6.5	8	82	13	70	76	9	0	13	1.02
486678--486720	15	2.9	14	83	13	50	76	9	0	13	1.01
486669--486720	24	2.2	23	93	3	86	76	9	0	13	1.01
486670--486730	31	1.9	32	90	3	97	73	8	0	18	1.07
486671--486720	7	6.6	7	80	15	55	76	10	0	14	1.03
486917--486996	25	3.2	25	68	10	83	53	5	22	18	1.63
486899--486997	49	2.0	49	100	0	198	53	6	24	16	1.65
486909--486985	24	3.2	23	68	10	73	49	6	25	18	1.71
486918--487000	26	3.3	26	67	16	84	53	4	22	19	1.64
487520--487656	33	4.3	33	81	7	165	32	33	16	18	1.93
487523--487647	62	2.0	62	92	0	205	32	33	16	17	1.92
487523--487614	29	3.0	29	85	6	121	31	33	16	18	1.93
487615--487730	51	2.3	51	90	0	178	30	37	18	13	1.90
487639--487725	25	3.4	25	66	20	72	27	37	19	14	1.91
489146--489193	8	5.8	8	78	9	51	79	2	0	18	0.84
489151--489193	16	2.6	16	85	7	59	79	2	0	18	0.85
490689--490737	11	4.5	11	80	9	57	38	0	0	61	0.96
495975--496047	21	3.5	21	69	23	55	49	0	6	43	1.29
497774--497820	19	2.4	19	82	3	58	53	0	0	46	1.00
502409--502491	40	2.1	38	82	11	94	51	1	0	46	1.08
510657--510783	66	1.9	66	80	3	148	29	28	14	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512386--512736	174	2.0	172	88	3	517	44	15	15	24	1.85
514246--514297	26	2.0	26	92	3	88	25	11	3	59	1.49
515349--515429	20	4.3	19	79	16	73	48	6	1	44	1.35
517218--517260	21	2.0	22	95	4	79	67	4	4	23	1.28
517496--517548	23	2.3	22	81	9	61	39	11	0	49	1.39
518315--518356	19	2.4	17	81	18	50	54	4	2	38	1.34
518900--518944	21	2.1	22	83	4	56	48	4	2	44	1.35
520137--520171	7	5.0	7	89	0	52	40	2	0	57	1.14
520113--520204	23	4.0	23	72	19	75	46	1	0	52	1.07
520122--520220	22	4.5	22	78	13	78	49	1	0	49	1.07
520241--520284	16	2.8	16	82	10	54	59	0	2	38	1.10
520890--520973	39	2.2	39	88	0	123	38	10	19	32	1.86
524747--525251	113	4.6	102	76	13	454	40	17	15	26	1.90
524849--525251	113	3.6	112	83	4	515	38	18	15	26	1.91
525963--526003	2	20.0	2	90	5	64	51	0	2	46	1.14
527414--527449	2	18.0	2	94	0	63	47	2	0	50	1.15
527869--527902	17	2.0	17	88	0	50	55	11	17	14	1.68
528008--528034	14	1.9	14	100	0	54	37	22	0	40	1.54
528362--528412	16	3.2	16	72	22	54	50	0	0	49	1.00
528337--528454	32	3.7	33	74	18	106	53	0	0	45	1.06
528400--528458	29	2.1	28	87	9	84	57	1	0	40	1.09
531150--531192	21	2.0	21	86	0	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531192--531370	95	1.9	91	82	10	220	36	11	12	40	1.78
531392--531443	23	2.3	22	86	3	77	32	1	19	46	1.61
532727--532784	20	2.9	19	70	25	57	75	1	1	20	0.97
537401--537426	2	13.0	2	100	0	52	50	0	0	50	1.00
538435--538489	28	1.9	29	81	3	67	34	3	9	52	1.50
538578--538624	14	3.1	14	85	14	58	29	2	0	68	1.02
538581--538624	15	2.8	17	80	16	58	29	2	0	68	1.02
538580--538779	94	2.1	95	82	6	246	37	3	0	59	1.17
539098--539171	18	3.5	21	70	25	66	48	0	5	45	1.25
539542--539588	16	2.8	16	76	17	51	51	0	0	48	1.00
539748--539823	28	2.7	28	76	12	75	57	0	1	40	1.07
540559--540592	16	2.1	17	88	5	52	32	5	0	61	1.20
541719--541771	21	2.6	21	80	11	58	56	0	0	43	0.99
544798--544830	16	2.0	17	94	5	59	51	18	0	30	1.46
547364--547511	42	3.6	42	83	3	210	21	10	15	52	1.72
547344--547510	82	2.0	82	100	0	334	21	9	15	53	1.70
550109--550135	2	13.5	2	100	0	54	51	0	0	48	1.00
551666--551705	2	20.0	2	94	0	71	47	0	0	52	1.00
552240--552282	18	2.4	18	80	7	52	65	0	0	34	0.93
553875--553928	20	2.7	20	88	0	72	37	12	16	33	1.87
559944--560007	20	3.5	20	72	27	79	37	15	18	28	1.92
559964--560020	13	3.8	13	72	27	51	35	15	17	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559943--560023	33	2.5	33	100	0	162	35	14	19	29	1.92
562600--562661	33	1.9	33	87	9	92	30	17	17	33	1.94
562712--562773	20	2.6	25	73	26	80	33	11	19	35	1.87
562721--562768	20	2.4	20	96	0	87	33	10	20	35	1.87
562987--563040	2	27.0	2	96	0	99	48	0	0	51	1.00
566578--566654	20	3.8	20	86	6	111	40	12	15	31	1.85
570151--570220	27	2.6	27	76	0	86	27	15	24	32	1.95
570241--570300	15	4.1	15	71	4	50	21	15	25	38	1.92
570240--570298	29	2.0	30	86	3	84	22	16	25	35	1.95
575797--575978	79	2.3	78	85	6	244	33	16	25	24	1.96

Tables:   1   2   3   4   5   6   7   8