genome.fa.s472.2.7.7.80.10.50.1000.3.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: Scaffold472
Parameters: 2 7 7 80 10 50 1000
Length:  529027

Tables:   1   2   3   4   

This is table  3  of  4  ( 377 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)
359967--360012	21	2.2	20	81	11	58	32	19	4	43	1.71
362391--362416	13	2.0	13	100	0	52	38	15	15	30	1.88
362373--362436	32	2.0	33	87	3	94	40	17	14	28	1.88
363349--363643	140	2.1	143	85	6	395	43	11	8	36	1.72
364343--364392	10	4.7	11	87	7	68	0	22	0	78	0.76
364343--364392	21	2.4	21	86	6	75	0	22	0	78	0.76
364876--365302	166	2.6	163	76	12	422	48	6	11	33	1.66
366159--366327	38	4.5	38	77	8	141	28	13	18	39	1.88
370038--370071	15	2.3	15	94	0	59	23	5	23	47	1.73
370241--370362	35	3.3	35	67	14	93	36	2	12	49	1.54
370232--370381	75	2.0	77	85	5	207	37	2	12	48	1.52
370235--370405	75	2.3	75	81	7	170	36	2	14	46	1.59
371459--371483	2	12.5	2	100	0	50	48	0	0	52	1.00
371603--371652	24	2.1	23	85	7	64	58	0	10	32	1.31
372369--372415	22	2.1	22	88	7	69	38	2	0	59	1.09
372392--372491	14	6.7	14	70	22	53	49	0	0	51	1.00
372381--372498	38	3.2	38	71	15	120	49	0	0	50	1.00
372422--372462	11	3.8	11	81	15	50	51	0	0	48	1.00
372378--372519	76	1.9	76	89	7	225	47	0	0	52	1.00
373098--373134	3	12.3	3	100	0	74	32	0	0	67	0.91
376798--376822	1	25.0	1	100	0	50	0	100	0	0	0.00
380998--381024	2	13.5	2	100	0	54	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)
381521--381557	16	2.3	16	85	0	56	48	10	2	37	1.52
383133--383159	2	13.5	2	100	0	54	48	0	0	51	1.00
385668--385716	25	2.0	25	88	4	73	48	10	6	34	1.62
386104--386135	2	16.0	2	100	0	64	50	0	0	50	1.00
386531--386573	4	10.8	4	94	0	50	48	9	0	41	1.35
386531--386572	12	3.5	12	86	0	57	50	9	0	40	1.35
388133--388171	2	19.5	2	94	0	69	48	0	2	48	1.15
389166--389197	2	16.5	2	93	6	57	50	0	0	50	1.00
391087--391119	13	2.5	13	90	9	50	48	3	0	48	1.17
391627--391681	22	2.4	23	82	14	69	47	0	0	52	1.00
391644--391698	24	2.2	24	83	3	65	41	5	0	52	1.24
391991--392051	31	2.0	29	87	12	88	59	1	0	39	1.08
392023--392061	19	2.1	19	85	9	53	61	0	0	38	0.96
392907--392944	18	2.2	18	95	4	69	23	23	31	21	1.98
394192--394216	13	1.9	13	100	0	50	32	16	16	36	1.90
394246--394298	10	5.1	10	77	8	61	22	24	11	41	1.86
399372--399412	13	3.0	13	89	7	55	58	0	0	41	0.98
402394--402463	18	4.2	17	74	23	60	64	0	0	35	0.94
402411--402463	18	2.9	18	86	5	63	66	0	0	33	0.92
402427--402466	19	2.1	18	86	13	53	67	0	0	32	0.91
402393--402454	31	2.0	29	84	12	79	61	0	0	38	0.96
405056--405090	17	2.0	17	88	5	52	85	0	11	2	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405570--405677	49	2.2	49	91	1	171	25	13	4	55	1.58
410453--410526	28	2.6	28	82	14	89	39	1	0	59	1.06
412136--412167	3	10.7	3	100	0	64	31	0	0	68	0.90
412985--413039	22	2.5	22	81	0	65	40	0	16	43	1.48
415316--416187	322	2.7	326	80	9	946	27	11	8	52	1.66
416564--416601	11	3.2	13	82	17	55	73	0	26	0	0.83
416568--416610	20	2.0	22	91	8	72	74	0	25	0	0.82
416564--416609	24	1.9	24	86	8	67	73	0	26	0	0.83
419038--419115	32	2.5	31	89	4	113	39	16	16	26	1.90
419734--419772	20	1.9	21	89	5	62	43	5	15	35	1.69
419836--419895	20	3.0	20	82	2	75	28	15	13	43	1.84
426027--426052	13	2.0	13	100	0	52	38	15	15	30	1.88
426689--426723	9	3.9	9	85	14	54	54	0	25	20	1.45
426783--426925	52	2.8	53	78	4	166	34	14	23	27	1.94
426891--427123	101	2.4	95	79	9	238	32	17	24	24	1.97
427034--427123	43	2.1	43	91	0	144	31	18	25	24	1.98
427129--427441	32	9.8	31	85	5	374	21	19	29	30	1.97
427129--427449	96	3.3	96	87	1	448	21	18	29	29	1.97
427129--427449	64	5.0	64	86	1	421	21	18	29	29	1.97
429018--429058	5	8.8	5	84	15	61	0	0	14	85	0.60
429001--429057	22	2.5	22	91	2	87	0	1	15	82	0.75
429015--429070	9	6.1	9	84	14	62	0	1	12	85	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429019--429070	13	3.9	13	85	11	70	0	1	11	86	0.65
429000--429068	19	3.5	19	82	13	86	0	2	13	84	0.74
429000--429070	18	4.1	17	79	15	67	0	2	12	84	0.73
429018--429070	27	2.0	27	88	7	81	0	1	11	86	0.64
449104--449166	33	1.9	33	87	6	92	34	9	19	36	1.84
449139--449193	20	2.8	20	97	0	101	38	10	12	38	1.79
450340--450364	13	1.9	13	100	0	50	36	16	16	32	1.90
450320--450388	32	2.1	33	94	2	122	34	11	17	36	1.86
450446--450626	52	3.5	52	93	0	308	35	17	18	29	1.93
464327--464421	1	95.0	1	73	0	73	86	12	1	0	0.63
464325--464421	15	6.5	14	80	16	106	85	13	1	0	0.65
464327--464445	6	19.7	6	84	10	104	83	15	0	0	0.70
464408--464442	3	11.7	3	87	0	52	74	25	0	0	0.82
464328--464445	15	7.9	15	73	20	88	83	16	0	0	0.71
465880--466773	59	15.2	57	84	6	976	29	32	16	21	1.95
465874--466758	29	30.1	29	85	6	1097	28	32	16	22	1.95
466816--467183	49	7.8	48	81	11	442	25	23	18	32	1.97
466866--467124	43	5.7	43	81	10	311	25	24	18	30	1.98
466817--467192	92	4.0	92	95	1	644	25	23	17	32	1.97
467831--467926	19	5.3	19	81	15	123	35	11	17	35	1.86
467825--467928	32	3.0	32	84	9	118	35	10	16	37	1.83
467947--468149	52	3.9	52	96	0	352	35	18	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476690--476738	13	3.8	13	88	0	62	40	16	10	32	1.82
479412--479436	13	1.9	13	100	0	50	36	16	16	32	1.90
479418--479457	20	2.0	20	90	0	62	40	12	17	30	1.86
480342--480403	27	2.3	27	94	0	106	19	38	14	27	1.90
480371--480454	35	2.5	34	79	11	100	21	32	11	34	1.90
480371--480464	33	2.8	33	78	12	93	21	30	14	32	1.94
480450--480547	32	3.0	33	91	5	155	29	34	17	18	1.94
480545--481063	49	10.8	49	85	6	661	25	26	17	31	1.97
480545--481120	98	5.9	98	86	6	739	25	25	17	31	1.97
480545--481054	147	3.6	144	89	5	761	25	25	18	30	1.98
480964--481117	52	2.9	53	81	4	193	24	24	15	35	1.94
480874--481063	95	2.0	91	90	6	292	25	24	17	32	1.97
481067--481193	67	1.9	68	85	1	175	22	25	12	39	1.89
481988--482012	13	1.9	13	100	0	50	36	16	16	32	1.90
482078--482102	13	1.9	13	100	0	50	32	16	16	36	1.90
482111--482231	52	2.3	52	94	0	215	35	18	17	28	1.93
488940--488985	24	1.9	24	95	0	83	39	15	8	36	1.78
489718--489807	32	2.8	32	93	1	144	34	3	8	53	1.49
491574--491607	11	3.2	10	88	12	50	47	2	2	47	1.32
492790--492821	13	2.4	14	90	10	50	71	0	0	28	0.86
493191--493261	23	2.9	24	77	12	65	57	0	1	40	1.07
493190--493251	23	2.6	25	77	15	67	58	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493984--494026	11	3.9	11	90	0	68	65	0	0	34	0.93
493978--494023	16	2.7	18	83	12	62	65	0	0	34	0.93
495047--495265	106	2.1	107	90	2	343	38	11	11	38	1.78
495553--495591	7	5.9	7	90	3	55	23	2	0	74	0.94
497440--497485	22	2.1	22	84	8	58	82	2	15	0	0.76
497448--497475	14	2.0	14	100	0	56	85	0	14	0	0.59
497509--497615	40	2.6	40	80	8	117	71	2	10	15	1.25
497509--497592	40	2.0	44	86	9	122	70	1	10	17	1.22
504227--504334	32	3.5	32	82	10	134	24	28	9	37	1.86
504227--504746	31	17.2	30	75	9	233	26	27	10	35	1.89

Tables:   1   2   3   4