genome.fa.s404.2.7.7.80.10.50.1000.3.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: Scaffold404
Parameters: 2 7 7 80 10 50 1000
Length:  638648

Tables:   1   2   3   4   

This is table  3  of  4  ( 431 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)
356467--356846	116	3.3	115	81	10	404	43	7	8	40	1.64
356467--356911	114	3.9	114	79	10	444	42	8	8	40	1.65
357113--357167	22	2.5	22	81	0	65	25	18	7	49	1.73
358130--358177	22	2.1	23	84	3	62	43	2	0	54	1.12
358954--358980	12	2.2	12	100	0	54	66	7	0	25	1.17
359538--359590	16	3.3	15	74	10	52	20	24	0	54	1.44
360428--360489	18	3.3	18	66	16	54	38	0	8	53	1.31
360409--360498	38	2.4	38	100	0	180	44	0	6	48	1.29
364756--364797	14	3.1	14	83	12	52	45	0	0	54	0.99
364928--364963	15	2.4	15	86	13	56	69	0	2	27	1.02
365216--365305	36	2.6	33	77	17	94	57	1	0	41	1.06
365351--365404	21	2.8	18	74	15	54	40	0	0	59	0.98
368935--369140	109	1.9	109	83	6	265	36	1	6	54	1.38
369128--369227	25	4.3	23	72	24	68	42	2	1	55	1.18
369137--369194	19	2.8	21	82	12	68	43	3	0	53	1.17
369137--369203	19	3.3	20	81	6	66	43	2	0	53	1.16
369187--369312	26	4.7	27	75	12	102	45	4	0	49	1.29
369322--369371	19	2.7	19	76	14	59	50	2	0	48	1.12
369290--369371	42	2.0	40	81	11	94	47	1	0	51	1.08
369834--369882	21	2.3	21	76	16	57	67	2	0	30	1.02
370305--370364	27	2.2	27	81	0	75	50	1	5	43	1.34
370354--370522	83	2.0	81	81	7	189	55	2	2	39	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370866--370906	21	2.0	21	95	0	73	48	0	7	43	1.30
370866--370921	21	2.7	21	86	5	60	51	0	7	41	1.29
372700--372763	23	2.9	23	75	15	80	50	0	0	50	1.00
373442--373474	13	2.4	14	85	5	50	39	0	0	60	0.97
374732--374770	15	2.4	16	87	8	53	48	0	5	46	1.24
377213--377243	2	15.5	2	100	0	62	51	0	48	0	1.00
377522--377554	2	16.5	2	93	0	57	45	0	0	54	0.99
377621--377675	22	2.4	23	81	6	58	61	1	3	32	1.24
378004--378057	20	2.8	20	82	2	65	31	14	14	38	1.87
378122--378173	20	2.6	20	96	0	95	34	9	19	36	1.84
385667--385795	52	2.5	52	90	0	204	27	17	17	36	1.93
385667--385815	52	2.9	51	78	9	158	29	17	18	34	1.94
385804--385828	13	1.9	13	100	0	50	36	16	16	32	1.90
385874--385975	32	3.2	32	95	0	177	37	19	11	31	1.88
385900--385956	13	3.9	13	74	24	51	35	21	12	31	1.90
385913--386027	51	2.3	51	98	0	221	36	20	11	31	1.88
385964--386026	32	2.0	32	100	0	126	34	20	12	31	1.90
385983--386007	13	1.9	13	100	0	50	32	20	16	32	1.94
390497--390557	20	3.1	19	74	6	59	32	11	16	39	1.84
390586--390648	33	1.9	32	87	12	92	36	15	15	31	1.90
391421--391456	16	2.3	15	90	4	54	52	2	2	41	1.30
391693--391744	25	2.1	26	82	7	63	50	3	0	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392036--392078	2	21.5	2	100	0	86	48	0	0	51	1.00
392627--392656	14	2.1	14	100	0	60	20	23	20	36	1.95
394313--394370	27	2.2	26	84	9	73	43	0	1	55	1.10
394323--394378	27	2.1	27	80	12	62	44	0	3	51	1.18
400649--400723	20	3.8	20	78	0	87	34	13	10	41	1.79
400649--400726	40	2.0	39	87	2	111	34	12	11	41	1.80
414530--414562	5	6.8	5	93	6	59	84	15	0	0	0.61
414527--414588	10	5.7	10	75	19	54	82	12	3	1	0.87
415799--417142	29	46.9	29	84	3	1648	30	29	15	24	1.95
415799--417142	86	15.6	87	85	3	1648	30	29	15	24	1.95
415799--417142	143	9.4	145	85	2	1648	30	29	15	24	1.95
417666--417740	20	3.8	20	78	0	87	34	13	10	41	1.79
417767--417804	20	1.9	20	100	0	76	42	10	13	34	1.78
424775--424877	53	1.9	54	90	2	163	24	13	14	47	1.80
427219--427246	4	7.0	4	100	0	56	0	25	0	75	0.81
427842--428037	50	3.9	50	91	2	331	29	21	19	29	1.98
432436--432629	50	3.9	50	82	1	255	32	17	17	32	1.93
432973--433014	22	2.0	21	86	13	59	42	0	0	57	0.99
433138--433180	16	2.6	16	89	10	61	53	2	0	44	1.13
433156--433246	29	3.1	30	75	17	93	61	1	2	35	1.15
433156--433246	31	3.1	29	77	11	89	61	1	2	35	1.15
433873--433903	15	2.1	15	93	0	53	64	3	0	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433673--434005	121	2.7	124	82	10	387	55	1	1	41	1.18
434327--434355	14	2.0	15	93	6	51	34	0	0	65	0.93
434447--434480	7	4.9	7	85	0	50	26	0	0	73	0.83
434437--434487	21	2.5	20	72	12	50	41	1	0	56	1.10
435527--435575	26	1.9	26	87	4	73	75	0	0	24	0.80
435658--435710	22	2.5	22	84	6	74	58	1	3	35	1.27
435885--435982	34	3.0	34	72	14	96	62	9	4	24	1.43
436146--436179	3	11.3	3	100	0	68	32	0	0	67	0.91
437988--438027	21	1.9	21	85	10	55	67	0	0	32	0.91
437985--438016	16	2.1	16	94	5	57	59	0	0	40	0.97
438099--438137	14	2.6	16	88	8	55	71	2	2	23	1.10
438099--438157	30	2.0	30	83	6	75	67	1	3	27	1.16
438647--438696	18	2.7	18	87	9	66	46	0	2	52	1.12
439493--439590	48	2.1	47	90	1	151	33	3	5	58	1.36
441114--441164	21	2.4	22	83	3	68	50	3	0	45	1.20
441240--441293	13	4.2	13	79	15	58	55	1	0	42	1.10
441910--441951	22	2.0	21	85	4	57	61	0	0	38	0.96
441910--441951	20	2.0	20	82	13	50	61	0	0	38	0.96
450097--450133	20	1.9	20	88	5	58	43	0	10	45	1.39
453470--453524	16	3.6	16	78	9	69	58	3	1	36	1.26
454228--454265	2	19.0	2	100	0	76	0	50	0	50	1.00
454436--454465	10	3.0	10	95	0	51	6	10	0	83	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454460--454494	18	2.0	18	88	5	54	37	2	0	60	1.12
454454--454500	24	1.9	25	91	4	78	36	4	0	59	1.17
456032--456095	15	4.2	15	78	7	58	26	1	12	59	1.42
456297--456340	14	3.2	14	84	12	56	47	0	0	52	1.00
457877--457918	19	2.2	19	83	8	50	23	2	2	71	1.10
457982--458080	39	2.4	42	77	14	107	52	2	2	43	1.24
458113--458168	27	2.0	28	80	16	64	37	7	5	50	1.53
459771--459815	22	2.0	22	86	0	63	13	28	24	33	1.93
461956--462001	20	2.3	20	84	0	56	32	4	52	10	1.56
466683--466736	27	2.0	27	81	3	63	51	14	1	31	1.53
467441--467500	21	3.0	20	75	15	52	76	1	5	16	1.04
468547--468594	21	2.3	20	76	13	53	39	20	0	39	1.53
471497--471521	13	1.9	13	100	0	50	60	8	0	32	1.26
472463--472496	3	11.3	3	93	0	59	29	0	2	67	1.05
482427--482574	74	2.0	74	94	0	260	35	24	6	33	1.82
487426--487513	43	2.0	43	86	0	122	57	4	6	30	1.45
488195--488277	20	4.2	20	68	18	57	40	2	2	54	1.27
488225--488279	20	2.8	20	75	13	60	45	0	0	54	0.99
488918--489003	19	4.8	19	78	16	94	37	10	15	37	1.81
488919--488981	32	2.0	32	90	0	99	36	11	15	36	1.84
489044--489069	13	2.0	13	100	0	52	30	15	15	38	1.88
491251--491287	15	2.5	15	90	0	65	24	18	16	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491858--491925	21	3.2	21	73	10	59	58	0	0	41	0.98
491881--491941	16	3.8	16	86	4	88	50	0	0	49	1.00
496355--496386	2	16.0	2	100	0	64	0	0	50	50	1.00
498855--498893	17	2.4	16	87	8	53	33	0	0	66	0.92
499166--499222	26	2.2	26	81	9	64	22	3	12	61	1.46
499250--499327	40	2.0	40	94	5	140	32	12	0	55	1.38
499863--499904	2	21.5	2	95	4	77	52	0	0	47	1.00
505898--505931	17	2.0	17	94	0	59	50	0	0	50	1.00
506249--506292	21	2.1	21	86	0	61	40	9	2	47	1.48
508652--508724	36	2.0	36	92	5	121	38	15	16	30	1.89

Tables:   1   2   3   4