genome.fa.s105.2.7.7.80.10.50.1000.3.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1849 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)
348705--348776	11	7.8	8	81	17	54	23	4	1	70	1.12
348705--348796	29	3.1	28	79	16	98	23	5	1	69	1.16
348705--348796	30	3.1	29	77	16	100	23	5	1	69	1.16
349806--349840	13	2.7	13	90	0	52	28	0	0	71	0.86
351275--351299	4	6.2	4	100	0	50	76	0	0	24	0.80
352376--352419	22	2.0	21	82	4	52	27	0	11	61	1.30
353519--353570	7	7.3	7	77	10	52	42	0	1	55	1.10
353521--353569	15	3.4	14	78	13	55	44	0	2	53	1.12
353523--353562	21	1.9	21	89	0	62	42	0	2	55	1.13
354140--354530	99	4.0	99	89	3	594	28	20	18	31	1.97
354140--354530	193	2.0	197	88	3	594	28	20	18	31	1.97
354798--354852	27	2.0	28	89	3	85	43	0	3	52	1.18
354804--354909	36	2.9	38	84	8	107	44	0	1	53	1.11
354839--354899	19	3.3	19	75	9	72	40	0	0	59	0.98
354822--354927	36	2.9	36	85	2	142	40	0	1	57	1.09
354775--354927	72	2.2	68	79	10	155	40	0	1	58	1.06
354873--354923	24	2.0	25	85	14	70	41	0	0	58	0.98
355383--355414	2	16.0	2	100	0	64	50	0	0	50	1.00
355644--355691	25	1.9	25	87	8	71	66	0	2	31	1.03
355725--355775	20	2.9	17	80	13	59	62	0	0	37	0.95
369485--369531	24	2.0	24	83	8	60	42	4	0	53	1.20
369775--369816	14	3.0	14	79	10	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369795--369837	17	2.4	19	88	7	63	41	0	0	58	0.98
369774--369831	28	1.9	28	86	13	80	46	0	0	53	1.00
369999--370054	21	2.8	18	78	19	58	60	3	35	0	1.14
370633--370679	21	2.3	20	85	3	58	46	2	4	46	1.34
371358--371445	34	2.6	37	79	12	84	52	0	2	45	1.13
371673--371703	15	2.0	16	93	6	55	25	3	0	70	1.02
372846--372894	25	2.0	25	88	4	73	30	0	0	69	0.89
374370--374418	15	3.2	15	82	2	62	32	8	2	57	1.40
375244--375280	12	3.0	13	84	11	51	43	8	0	48	1.32
376930--376999	11	6.4	11	69	12	54	61	0	0	38	0.96
376926--376999	14	5.4	14	67	22	50	60	0	0	39	0.97
377595--377668	38	1.9	38	86	0	103	43	8	20	28	1.80
378612--378666	23	2.4	24	77	22	64	29	1	3	65	1.20
378677--378750	15	4.8	15	81	5	85	59	2	0	37	1.12
378680--378750	23	3.1	23	80	6	65	59	2	0	38	1.12
378677--378772	30	3.1	29	81	11	95	60	3	0	36	1.13
378699--378794	15	6.3	16	73	13	71	61	1	1	36	1.10
379814--379881	14	4.7	14	77	15	59	35	0	0	64	0.94
381941--381991	27	1.9	27	92	4	86	47	5	19	27	1.73
389356--389442	33	2.5	35	77	7	88	55	0	0	44	0.99
389383--389443	17	3.6	17	71	4	52	55	0	0	44	0.99
389689--389734	7	6.7	7	85	9	60	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389690--389767	6	12.7	6	74	16	54	39	1	0	58	1.06
389697--389755	17	3.3	18	78	21	63	40	0	0	59	0.97
389993--390264	139	2.0	137	86	5	388	36	3	12	48	1.58
397966--398009	14	3.1	14	86	3	61	36	6	2	54	1.40
397968--398016	14	3.4	14	80	5	53	34	8	2	55	1.41
400872--400915	10	4.3	10	88	2	61	54	0	0	45	0.99
402997--403044	14	3.3	15	76	23	57	52	0	0	47	1.00
403445--403490	15	3.1	14	81	9	56	39	0	0	60	0.97
403690--403734	22	2.1	21	83	4	54	17	8	8	64	1.47
403906--403942	19	1.9	19	88	0	56	37	0	0	62	0.96
406311--406365	27	2.0	27	92	0	92	56	3	14	25	1.55
406519--406545	11	2.5	11	100	0	54	44	14	18	22	1.86
410784--410843	14	4.1	14	78	19	52	35	0	0	65	0.93
410789--410834	17	2.9	16	84	12	60	39	0	0	60	0.97
410784--410836	14	3.6	14	75	22	54	35	0	0	64	0.94
412923--412973	27	1.9	27	92	4	86	47	5	19	27	1.73
420336--420422	33	2.5	35	77	7	88	55	0	0	44	0.99
420363--420423	17	3.6	17	71	4	52	55	0	0	44	0.99
420669--420714	7	6.7	7	85	9	60	43	0	0	56	0.99
420677--420735	17	3.3	18	78	21	63	40	0	0	59	0.97
420972--421241	138	2.0	136	86	5	384	35	3	12	48	1.58
430293--430360	17	4.2	17	71	14	54	41	0	1	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430876--430935	30	2.1	30	81	12	72	23	10	5	61	1.47
431928--431959	12	2.7	12	95	0	55	18	25	37	18	1.94
432308--432334	13	2.1	13	100	0	54	22	7	7	62	1.46
437279--437322	10	4.3	10	88	2	61	54	0	0	45	0.99
439123--439171	25	2.0	24	84	4	62	12	8	6	73	1.24
439162--439211	23	2.2	23	85	7	66	30	4	8	58	1.45
440080--440122	20	2.2	19	83	4	50	18	9	9	62	1.51
442700--442754	27	2.0	27	92	0	92	56	3	14	25	1.55
442908--442934	11	2.5	11	100	0	54	44	14	18	22	1.86
449014--449043	15	1.9	16	93	6	53	30	13	0	56	1.37
450570--450617	14	3.4	14	80	8	53	50	0	0	50	1.00
450596--450638	17	2.4	19	88	7	63	41	0	0	58	0.98
450573--450632	28	2.0	28	87	12	84	46	0	0	53	1.00
451710--451771	19	2.8	23	72	20	69	59	3	0	37	1.13
451702--451754	27	1.9	28	85	11	74	62	1	0	35	1.06
451710--451774	21	3.0	21	75	22	64	58	3	0	38	1.14
453961--454005	24	1.9	24	86	13	67	48	0	0	51	1.00
454311--454344	2	17.0	2	100	0	68	50	0	0	50	1.00
456524--456813	150	1.9	151	85	2	395	44	7	2	45	1.45
456940--457076	67	2.0	67	88	2	204	46	16	15	21	1.83
458228--458252	4	6.2	4	100	0	50	76	0	0	24	0.80
458495--458816	160	2.0	160	96	0	590	35	19	19	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469369--469419	21	2.4	21	83	6	68	33	1	13	50	1.53
477435--477464	2	15.0	2	100	0	60	50	0	50	0	1.00
478780--478844	22	3.0	22	90	6	105	61	4	3	30	1.31
479103--479164	16	3.7	17	77	16	67	48	0	0	51	1.00
479114--479166	14	3.2	16	78	21	65	45	0	0	54	0.99
479130--479164	18	2.0	17	88	5	52	51	0	0	48	1.00
479374--479408	3	11.3	3	93	6	61	65	2	0	31	1.07
482409--482490	18	4.8	17	71	18	55	28	3	9	58	1.47
484597--484658	23	2.5	25	80	19	76	41	0	0	58	0.98
484709--484756	21	2.3	21	88	0	69	58	0	0	41	0.98
486953--486993	18	2.2	20	82	8	50	29	0	2	68	1.03
487135--487181	22	2.1	23	84	4	60	46	0	0	53	1.00
488175--488208	16	2.3	14	90	10	50	82	0	14	2	0.79
488176--488208	14	2.3	15	89	5	50	81	0	15	3	0.80
489161--489208	18	2.6	19	77	9	55	37	2	4	56	1.30
489235--489927	176	4.0	176	89	4	960	53	6	4	35	1.46
489627--489951	161	2.0	162	91	2	528	54	6	4	34	1.48
489235--489927	337	2.0	343	86	6	960	53	6	4	35	1.46
490365--490398	6	5.7	6	96	0	59	47	0	17	35	1.48
491151--491231	39	2.1	39	95	0	144	45	17	9	27	1.79
491599--491793	103	1.9	107	81	7	247	37	8	6	47	1.61
492401--492435	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493144--493183	19	2.1	19	90	9	64	55	0	0	45	0.99
493273--493312	18	2.2	18	90	0	62	60	10	0	30	1.30
493514--493549	6	6.0	6	93	0	63	47	0	2	50	1.15
493507--493546	18	2.2	18	86	0	53	55	0	2	42	1.13
493858--493902	6	7.5	6	82	0	54	44	4	4	46	1.43
493858--493902	18	2.5	18	92	0	72	44	4	4	46	1.43
495848--495877	2	15.0	2	100	0	60	50	0	0	50	1.00
496531--496560	15	2.0	15	93	0	51	46	0	30	23	1.52
502522--502553	15	2.1	16	94	5	57	56	0	0	43	0.99
503048--503120	35	2.1	36	92	5	123	32	13	20	32	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16