genome.fa.s1688.2.7.7.80.10.50.1000.3.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: Scaffold1688
Parameters: 2 7 7 80 10 50 1000
Length:  613586

Tables:   1   2   3   4   

This is table  3  of  4  ( 407 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)
312005--312041	16	2.3	16	100	0	74	45	13	13	27	1.81
312419--312476	22	2.6	22	91	2	89	74	3	8	13	1.19
312847--312913	32	2.1	32	94	0	116	8	19	11	59	1.58
313563--313590	13	2.2	13	100	0	56	32	14	14	39	1.86
313638--313693	22	2.5	22	85	0	76	32	25	8	33	1.87
326668--326776	42	2.6	42	86	0	137	13	36	1	47	1.54
333335--333428	41	2.3	42	81	1	109	44	1	42	11	1.48
333394--333444	18	2.8	18	79	5	50	45	0	43	11	1.40
333366--333449	42	1.9	44	85	9	118	40	1	45	13	1.51
335713--335748	13	2.8	13	86	0	54	36	38	5	19	1.75
338825--338905	42	1.9	42	82	5	101	11	38	1	49	1.46
339651--339679	15	1.9	15	100	0	58	27	17	20	34	1.95
344138--344186	23	2.1	23	92	0	80	32	26	12	28	1.92
350662--350787	20	5.8	20	70	21	83	42	12	13	30	1.82
351712--352612	28	31.5	28	80	6	645	25	16	29	28	1.97
352021--352240	32	7.1	32	82	6	222	18	17	30	33	1.94
351712--352612	113	7.9	113	78	6	735	25	16	29	28	1.97
352432--352608	27	6.4	27	84	5	212	29	12	30	27	1.93
352410--352609	82	2.4	85	80	9	232	30	14	28	26	1.95
356333--356389	13	4.9	13	72	27	65	31	17	15	35	1.92
356342--356406	19	3.7	19	76	23	88	30	20	15	33	1.93
356333--356406	32	2.3	32	100	0	148	31	18	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356489--356537	13	4.2	13	70	24	54	32	16	16	34	1.91
356469--356537	34	2.1	32	89	10	104	34	15	15	33	1.90
362683--362707	13	1.9	13	100	0	50	32	16	20	32	1.94
364516--364584	33	2.1	33	97	0	129	40	4	23	31	1.74
365322--365370	13	4.2	13	70	24	54	32	16	16	34	1.91
365302--365370	34	2.1	32	86	10	95	36	14	15	33	1.89
371082--371176	20	4.8	20	90	2	129	35	16	12	34	1.87
371103--371156	12	5.2	12	68	32	52	35	18	11	35	1.86
373024--373301	149	1.9	149	81	6	348	22	21	19	35	1.96
372959--373310	149	2.4	149	79	4	345	23	21	20	34	1.97
376183--376298	58	1.9	58	82	5	142	44	15	8	31	1.76
384264--384325	30	2.1	30	100	0	124	12	37	0	50	1.41
384264--384316	18	3.3	18	70	29	64	13	35	0	50	1.41
384260--384325	12	6.2	11	72	21	52	12	37	0	50	1.40
385123--385208	38	2.3	38	89	0	136	53	16	11	18	1.72
390465--390861	158	2.5	155	76	10	394	30	19	13	37	1.90
390676--391183	155	3.2	153	79	7	384	32	16	13	37	1.87
390883--391183	158	1.9	159	82	4	376	33	15	12	37	1.86
392996--393021	13	2.0	13	100	0	52	38	15	15	30	1.88
394659--394738	30	2.6	30	76	11	74	45	0	45	10	1.37
394689--394749	9	7.1	9	72	10	56	42	1	44	11	1.50
394659--394777	42	2.8	42	89	0	175	43	1	45	9	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399857--400239	158	2.4	158	78	2	376	30	18	15	36	1.91
400945--401162	109	2.0	109	92	0	364	37	9	13	38	1.78
401345--401418	20	3.7	20	81	3	103	35	13	20	31	1.91
401363--401438	21	3.7	21	82	3	109	40	11	18	28	1.86
401345--401438	41	2.3	41	100	0	188	38	12	19	29	1.89
401477--401502	13	2.0	13	100	0	52	38	15	15	30	1.88
403696--403740	21	2.1	21	84	8	56	53	4	20	22	1.63
407587--407666	20	3.8	20	75	15	79	26	15	15	43	1.85
407652--407742	13	7.0	13	93	0	155	30	18	15	35	1.92
407653--407742	26	3.5	26	100	0	180	31	18	15	34	1.93
410194--410267	20	3.7	20	81	3	103	35	13	20	31	1.91
410212--410287	21	3.7	21	82	3	109	40	11	18	28	1.86
410194--410287	41	2.3	41	100	0	188	38	12	19	29	1.89
410327--410351	13	1.9	13	100	0	50	36	16	16	32	1.90
412873--412980	52	2.1	52	100	0	216	49	14	17	18	1.80
417993--418058	12	6.1	11	68	21	50	13	40	0	45	1.44
417963--418057	42	2.3	42	88	0	145	13	43	0	43	1.44
417991--418069	21	3.8	21	73	6	70	12	37	0	49	1.41
422497--422529	12	2.8	12	90	0	57	72	9	12	6	1.26
432270--432294	13	1.9	13	100	0	50	36	16	16	32	1.90
432247--432314	33	2.1	33	91	2	111	33	14	16	35	1.89
432368--432417	20	2.5	20	86	0	64	38	16	16	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433567--433606	17	2.4	17	95	4	73	47	0	10	42	1.37
433849--434126	153	1.8	153	87	2	416	32	5	9	52	1.58
433884--434269	149	2.6	151	80	4	381	32	7	10	49	1.64
440227--440252	13	2.0	13	100	0	52	30	15	15	38	1.88
440206--440270	32	2.0	33	93	6	114	27	12	15	44	1.82
440206--440270	19	3.6	19	73	26	70	27	12	15	44	1.82
442322--442364	20	2.1	20	86	4	59	9	25	44	20	1.81
442795--442832	13	2.9	13	96	0	67	31	15	18	34	1.92
443036--443067	8	4.0	8	100	0	64	62	25	0	12	1.30
444922--444952	15	2.1	15	93	0	53	12	22	16	48	1.80
448674--448732	32	1.9	30	83	13	75	59	10	10	20	1.58
449013--449038	13	2.0	13	100	0	52	30	15	15	38	1.88
448992--449056	32	2.0	33	93	6	114	27	12	15	44	1.82
448992--449056	19	3.6	19	73	26	70	27	12	15	44	1.82
452584--452608	13	1.9	13	100	0	50	36	16	16	32	1.90
452729--452774	21	2.2	20	81	11	58	32	19	4	43	1.71
454229--454271	23	2.0	21	81	9	50	13	9	16	60	1.58
455159--455184	13	2.0	13	100	0	52	38	15	15	30	1.88
455141--455204	32	2.0	32	84	3	83	43	14	14	28	1.83
459960--460027	33	2.1	32	88	2	100	32	11	19	36	1.88
461290--461345	21	2.6	22	94	5	105	37	10	25	26	1.88
461333--461363	10	3.1	10	90	0	53	41	6	29	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461387--461520	53	2.5	53	93	1	232	27	17	17	37	1.92
461603--461643	21	2.0	21	85	9	57	39	9	12	39	1.76
462099--462140	22	1.9	22	90	9	68	42	21	2	33	1.66
463984--464021	13	2.9	13	92	0	58	34	15	15	34	1.90
470127--470152	13	2.0	13	100	0	52	38	15	15	30	1.88
470105--470172	33	2.1	32	91	2	109	32	13	19	35	1.90
471994--472210	112	1.9	112	92	1	364	50	9	5	34	1.59
478831--479140	41	7.4	41	72	14	159	40	12	24	21	1.88
478954--479121	46	3.9	44	78	10	159	42	13	25	18	1.86
478872--479101	41	5.5	40	75	11	167	41	13	23	20	1.88
478855--479136	82	3.3	88	78	7	264	41	12	24	20	1.87
478938--479186	85	2.9	85	79	7	247	42	12	25	20	1.87
479151--480283	61	18.6	61	82	5	1181	30	18	26	25	1.98
480087--480251	60	2.9	54	82	7	150	25	18	28	27	1.98
481247--481305	11	5.2	11	79	6	55	0	10	6	83	0.82
481266--481321	12	4.4	12	76	17	51	1	5	7	85	0.79
481266--481320	19	2.9	18	82	17	67	1	5	7	85	0.80
493695--494150	79	5.8	78	82	4	391	34	11	23	29	1.91
494042--494280	130	1.8	130	85	1	336	34	11	23	29	1.91
496621--496650	13	2.3	13	94	0	51	40	13	20	26	1.89
500313--500370	9	6.8	9	71	11	50	43	1	43	12	1.52
500313--500404	42	2.2	42	90	2	139	43	3	43	9	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515581--515652	33	2.2	33	84	0	90	11	41	1	45	1.48
515610--515691	42	2.0	42	90	0	128	12	43	0	43	1.41
517458--517483	13	2.0	13	100	0	52	23	15	23	38	1.92
518330--518390	21	2.7	22	85	12	72	11	6	8	73	1.24
519610--521436	918	2.0	917	95	0	3316	33	23	14	28	1.94
523083--523146	32	2.0	33	87	3	94	40	15	15	28	1.88
527189--527219	15	2.1	15	93	0	53	48	16	22	12	1.80
529298--529336	13	3.0	13	96	0	69	30	17	15	35	1.91
529448--529493	21	2.2	20	81	11	58	32	19	4	43	1.71
530946--530988	23	2.0	21	81	9	50	13	9	16	60	1.58

Tables:   1   2   3   4