oyster.v9_M.fa.s34.2.7.7.80.10.50.500.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold678
Parameters: 2 7 7 80 10 50 500
Length:  1173314

Tables:   1   2   3   4   

This is table  2  of  4  ( 461 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)
411712--412136	188	2.3	183	85	7	552	26	13	22	37	1.92
418159--418193	16	2.2	16	90	10	54	40	14	31	14	1.86
423640--423711	3	24.0	3	100	0	144	66	0	33	0	0.92
427443--427506	2	32.0	2	96	0	119	48	1	50	0	1.10
428964--429080	21	5.6	21	85	7	148	39	19	14	26	1.90
429047--429111	31	2.1	31	85	0	85	33	18	16	30	1.94
429079--429173	21	4.5	21	83	7	95	36	17	14	30	1.90
429027--429130	52	2.0	52	85	7	140	35	19	16	28	1.93
428985--429173	94	2.0	94	91	0	306	38	19	14	28	1.91
429006--429149	73	2.0	73	86	5	202	38	18	14	27	1.90
428949--429170	115	1.9	115	91	0	363	38	19	14	27	1.91
430660--430715	27	2.1	27	89	0	85	44	12	7	35	1.70
430642--430737	21	4.3	21	75	17	86	44	12	6	36	1.67
430642--430736	48	2.0	48	85	4	129	45	12	6	35	1.68
437382--437421	21	1.9	21	89	0	62	45	17	15	22	1.85
437483--437636	21	7.4	21	75	4	132	27	15	19	37	1.92
437488--437594	41	2.6	42	82	4	119	28	14	18	38	1.91
437718--437809	21	4.4	21	73	0	85	36	19	14	29	1.91
448632--449124	39	13.0	39	65	14	156	22	19	13	44	1.86
448742--448894	72	2.1	72	82	4	182	23	18	13	44	1.85
450588--450856	138	2.0	135	89	6	416	40	15	10	33	1.82
454637--454823	39	4.8	39	87	0	266	21	21	11	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454628--454823	78	2.5	78	89	0	302	22	20	11	45	1.82
456991--457054	2	32.0	2	100	0	128	0	50	0	50	1.00
457695--457822	41	3.1	41	89	1	193	50	17	10	21	1.75
461548--461638	44	2.1	44	93	0	155	20	15	16	47	1.83
461588--461705	57	2.1	57	95	0	209	24	11	16	47	1.79
463100--463208	22	5.0	22	86	2	157	25	16	14	43	1.86
463100--463200	43	2.3	44	87	1	150	25	16	14	42	1.87
463381--463652	22	12.4	22	85	5	372	26	18	14	40	1.89
467030--467187	33	4.8	33	93	0	262	27	10	16	44	1.81
467440--467492	2	26.5	2	100	0	106	49	0	50	0	1.00
467797--468391	43	13.8	43	94	0	1021	32	21	20	26	1.97
468857--468943	21	4.2	21	88	1	122	43	11	16	28	1.82
469033--469207	42	4.2	42	74	8	158	34	13	17	34	1.89
469019--469207	21	9.1	20	67	13	87	33	13	16	35	1.89
469206--469371	21	7.9	21	82	0	170	36	13	18	31	1.90
469220--469371	63	2.4	63	88	0	214	36	14	17	31	1.90
469449--469534	21	4.1	21	76	0	82	29	16	13	40	1.87
469455--469535	42	1.9	42	87	0	117	30	17	13	38	1.88
470091--470119	2	14.5	2	100	0	58	0	48	0	51	1.00
476178--476514	43	7.9	43	94	0	527	35	21	20	22	1.96
476493--476534	20	2.1	20	100	0	84	47	30	4	16	1.67
476450--476577	63	2.0	63	98	0	247	38	25	16	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476513--476745	43	5.4	43	91	0	358	36	22	18	23	1.95
476408--476620	106	2.0	105	95	0	381	37	24	17	20	1.94
476590--476900	155	2.0	155	86	2	437	34	21	18	25	1.96
476746--477072	43	7.6	43	82	4	356	34	20	18	26	1.96
476745--477040	129	2.3	130	92	2	499	34	20	17	27	1.95
481562--481600	21	1.9	21	94	5	71	30	12	2	53	1.52
484480--485522	59	17.5	58	73	11	316	49	7	11	31	1.66
484420--485525	118	9.3	116	72	11	595	49	7	11	31	1.65
484420--485525	20	55.6	20	75	7	849	49	7	11	31	1.65
485632--487085	29	50.1	29	93	0	2287	40	23	4	30	1.76
488673--488708	2	18.0	2	100	0	72	0	50	0	50	1.00
489210--489295	43	2.0	43	95	0	154	26	25	17	30	1.97
489407--489973	86	6.8	84	82	7	672	25	19	10	44	1.82
489407--489720	28	11.0	28	84	5	364	25	19	10	44	1.82
489700--489736	18	2.1	18	100	0	74	16	16	10	56	1.66
489645--489965	74	4.0	74	77	14	268	25	19	9	45	1.80
489673--489766	46	2.0	46	85	0	125	24	18	9	47	1.78
489617--489938	102	3.0	102	76	14	290	25	19	9	45	1.80
489588--489973	130	2.9	132	82	6	384	25	19	9	45	1.81
489719--489973	29	9.0	28	86	3	334	26	19	10	43	1.82
495737--495776	2	20.0	2	100	0	80	0	50	0	50	1.00
504577--504610	17	2.0	17	94	0	59	17	20	20	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505024--505132	21	5.0	21	77	10	101	40	7	9	43	1.64
510906--511035	30	4.3	30	97	0	233	36	13	22	27	1.91
511559--511585	14	1.9	14	100	0	54	22	14	3	59	1.51
514019--514124	25	4.2	25	79	0	104	25	26	20	27	1.99
514018--514124	50	2.1	50	92	0	178	25	26	20	28	1.99
514035--514140	25	4.2	25	85	0	149	24	26	18	30	1.98
514036--514140	50	2.1	50	90	0	165	24	26	18	30	1.98
519582--520002	210	2.0	207	95	2	754	33	16	9	39	1.82
520873--520918	16	3.0	15	87	6	58	28	28	13	30	1.94
521119--521184	20	3.4	20	70	16	57	53	9	1	36	1.42
521408--521980	177	3.2	176	88	3	791	33	27	15	23	1.95
521751--521792	19	2.2	19	86	0	57	40	33	4	21	1.74
521759--521798	19	2.1	19	90	0	62	37	37	2	22	1.68
521408--522066	177	3.7	174	83	6	667	33	26	15	24	1.95
521408--522066	355	1.9	350	82	6	821	33	26	15	24	1.95
527609--527656	2	24.0	2	100	0	96	0	50	0	50	1.00
528339--528442	37	2.9	36	72	15	99	38	9	16	35	1.81
528513--528764	65	3.9	65	99	0	495	35	28	9	26	1.87
535373--536146	22	35.4	22	77	4	641	26	25	25	22	2.00
539544--539663	24	4.9	25	78	7	120	30	18	15	35	1.92
539546--539663	49	2.4	49	83	5	132	30	17	16	35	1.92
539676--539737	25	2.4	27	81	10	83	16	25	16	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540623--541032	26	15.8	26	85	5	454	27	8	37	26	1.85
542813--542864	27	1.9	27	84	0	68	32	13	23	30	1.93
546277--546309	15	2.1	16	88	5	50	24	27	21	27	1.99
549225--549324	30	3.3	30	77	10	96	25	21	28	26	1.99
549887--550311	98	4.3	98	86	4	561	31	16	14	38	1.88
564397--564425	15	2.0	15	93	6	51	0	10	0	89	0.48
564651--564685	17	2.1	17	94	0	61	54	20	5	20	1.64
564647--564846	84	2.4	82	83	1	238	39	15	13	32	1.85
565488--565747	53	4.8	54	80	9	237	32	10	17	39	1.84
565548--565747	106	1.9	104	83	9	262	32	11	17	39	1.84
565930--565964	17	2.1	17	94	0	61	22	5	20	51	1.68
574462--574488	2	13.5	2	100	0	54	48	0	0	51	1.00
579291--579335	21	2.1	21	87	0	63	15	35	24	24	1.94
581104--581390	83	3.5	83	82	0	331	28	21	16	33	1.95
583543--583571	14	2.0	15	93	6	51	31	0	6	62	1.22
585840--585913	21	3.5	21	81	7	105	16	18	22	41	1.89
585830--585921	42	2.2	42	90	3	150	20	20	18	40	1.92
587613--587723	21	5.3	22	78	8	115	16	22	19	41	1.90
587589--587723	42	3.2	42	82	5	148	17	23	17	40	1.91
589254--589286	17	1.9	17	93	0	57	27	18	24	30	1.98
591606--591739	20	6.6	20	88	3	205	25	11	26	36	1.90
591606--591739	41	3.3	40	91	4	198	25	11	26	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591606--591739	61	2.2	61	98	0	259	25	11	26	36	1.90
594760--594790	2	15.5	2	100	0	62	0	48	0	51	1.00
595124--595156	15	2.2	15	94	0	57	45	21	6	27	1.75
597328--597359	2	16.0	2	100	0	64	0	50	0	50	1.00
603822--603863	2	21.0	2	100	0	84	50	0	50	0	1.00
604761--604796	17	2.1	17	94	0	63	58	16	5	19	1.58
604673--604875	85	2.4	85	85	4	250	40	15	12	31	1.84
605512--605698	51	3.5	52	76	9	171	34	10	15	40	1.81
605736--605770	17	2.1	16	94	5	61	20	5	17	57	1.60
605703--605941	84	2.9	84	86	0	354	29	14	15	41	1.86

Tables:   1   2   3   4