oyster.v9_M.fa.s35.2.7.7.80.10.50.500.1.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: scaffold1836
Parameters: 2 7 7 80 10 50 500
Length:  1164857

Tables:   1   2   3   4   

This is table  1  of  4  ( 374 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)
30500--30549	2	25.0	2	100	0	100	50	0	50	0	1.00
59530--59600	22	3.2	22	70	18	58	33	19	19	26	1.96
71324--71390	7	9.6	7	83	0	89	35	14	22	26	1.93
74568--74634	7	9.6	7	83	0	89	26	22	14	35	1.93
74568--74634	21	3.2	21	86	0	98	26	22	14	35	1.93
97592--97677	21	4.1	21	78	1	84	25	10	22	41	1.85
102710--102735	11	2.4	11	100	0	52	42	19	7	30	1.79
102939--102984	23	2.0	23	100	0	92	43	34	4	17	1.69
103454--103508	2	27.5	2	100	0	110	0	50	0	49	1.00
103634--103700	2	33.5	2	90	0	98	2	46	2	47	1.33
114248--114292	21	2.1	21	91	0	72	22	24	35	17	1.95
114818--114851	12	2.8	12	100	0	68	0	32	26	41	1.56
114806--114851	8	6.0	8	82	7	51	0	34	26	39	1.57
132581--132613	12	2.8	12	90	0	57	6	24	33	36	1.80
132738--132781	2	22.0	2	100	0	88	50	0	50	0	1.00
137395--137445	2	25.5	2	100	0	102	49	0	50	0	1.00
140431--140627	90	2.2	89	80	2	205	24	19	23	31	1.98
141018--141601	34	17.2	34	90	0	898	31	13	27	27	1.94
141152--141240	17	5.2	17	66	20	60	31	13	25	29	1.94
142042--142067	11	2.4	11	100	0	52	26	7	26	38	1.83
148792--148885	43	2.2	43	98	0	179	39	15	13	30	1.87
155495--155539	2	22.5	2	100	0	90	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161231--161285	2	27.5	2	100	0	110	0	50	0	49	1.00
167382--167433	26	2.0	27	96	3	97	34	28	7	28	1.85
168638--168687	2	25.0	2	100	0	100	0	50	0	50	1.00
173157--173207	2	25.5	2	100	0	102	0	49	0	50	1.00
180394--180421	2	14.0	2	100	0	56	0	0	50	50	1.00
180421--180481	2	30.5	2	100	0	122	49	0	50	0	1.00
184252--184276	11	2.3	11	100	0	50	48	20	8	24	1.76
204257--204610	32	11.1	32	88	1	514	33	21	10	34	1.87
204257--205773	64	23.3	64	82	8	1518	33	23	11	31	1.90
204257--205773	96	15.5	96	88	4	2103	33	23	11	31	1.90
204562--204654	45	2.1	45	97	0	177	34	25	9	30	1.88
204615--205773	32	35.8	32	88	3	1698	33	23	11	31	1.90
204507--204723	113	2.0	108	89	4	335	35	23	10	30	1.89
207980--208529	32	17.0	32	82	4	640	32	23	11	33	1.90
211815--211873	24	2.5	24	94	0	100	6	30	37	25	1.82
219102--219151	20	2.5	20	80	9	57	38	10	10	42	1.72
219313--219340	12	2.3	12	100	0	56	46	7	7	39	1.59
225046--225073	13	2.2	13	100	0	56	32	14	17	35	1.90
228084--228240	30	5.2	30	93	0	242	22	12	19	45	1.84
231249--231440	21	8.8	22	79	10	139	28	10	14	46	1.78
231249--231439	42	4.4	42	79	7	177	28	10	14	46	1.78
231249--231343	25	4.1	25	65	22	64	28	9	15	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231255--231386	67	2.0	67	82	5	160	27	10	15	46	1.79
231732--231805	21	3.5	21	78	8	78	48	13	8	29	1.71
231740--231985	21	11.3	23	71	11	87	47	14	10	26	1.77
231798--231986	64	2.9	63	81	3	207	47	15	11	25	1.79
231776--232166	21	18.7	21	73	8	197	47	14	9	27	1.75
231776--231983	43	4.8	43	75	7	181	48	14	11	25	1.77
231802--232007	64	3.2	64	78	3	173	48	14	10	26	1.76
232044--232181	21	6.6	21	81	3	161	43	16	9	30	1.80
232044--232225	21	8.7	21	78	3	143	44	18	7	29	1.76
234546--234616	21	3.4	21	73	5	65	39	23	21	15	1.91
236167--236211	22	2.0	22	100	0	90	28	13	13	44	1.81
240730--240759	2	15.0	2	100	0	60	50	0	0	50	1.00
242750--242784	18	1.9	18	88	0	52	40	11	17	31	1.85
243674--243735	2	31.0	2	100	0	124	0	50	0	50	1.00
258548--258586	17	2.4	17	86	4	53	2	0	17	79	0.84
265612--265643	13	2.5	13	95	5	57	21	0	6	71	1.07
271016--271058	2	21.5	2	100	0	86	48	0	51	0	1.00
273065--273115	2	25.5	2	100	0	102	49	0	50	0	1.00
275740--275774	18	1.9	18	88	0	52	54	11	0	34	1.37
277863--277889	13	2.1	13	100	0	54	70	0	14	14	1.17
282082--282127	2	23.5	2	95	4	85	47	0	52	0	1.00
289250--289277	13	2.2	13	100	0	56	46	17	7	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294726--294759	16	2.1	16	100	0	68	0	35	26	38	1.57
294783--295907	166	6.8	165	92	1	1709	28	17	16	38	1.91
298494--298753	126	2.1	126	99	0	511	33	11	13	40	1.81
300665--300695	8	3.9	8	91	0	53	0	0	35	64	0.94
314805--314837	17	1.9	17	100	0	66	21	48	6	24	1.72
315831--315881	17	3.0	17	75	11	59	76	15	1	5	1.07
318178--318228	17	3.0	17	75	11	59	76	15	1	5	1.07
323959--324375	144	2.9	144	93	2	676	31	13	16	38	1.88
325958--326028	5	14.2	5	82	11	76	80	18	1	0	0.79
325959--326028	26	2.8	25	85	10	97	81	17	1	0	0.77
325960--326027	32	2.1	32	86	5	93	82	16	1	0	0.75
325960--326027	6	11.7	6	83	14	65	82	16	1	0	0.75
337435--337470	18	2.0	18	88	0	54	25	33	22	19	1.97
337528--337565	16	2.4	16	95	0	67	0	42	21	36	1.53
344484--344509	2	13.0	2	100	0	52	50	0	50	0	1.00
345104--345175	2	36.5	2	97	2	137	50	0	50	0	1.00
345786--345816	16	1.9	16	100	0	62	48	19	12	19	1.81
345973--346007	18	1.9	18	94	0	61	42	8	17	31	1.79
350988--351019	2	16.0	2	100	0	64	50	0	50	0	1.00
353531--353934	202	2.0	201	99	0	799	30	16	17	34	1.93
355151--355408	128	2.0	128	96	1	482	34	17	18	29	1.94
358908--359043	5	26.8	5	71	5	94	56	23	14	5	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360282--360409	5	25.2	5	72	9	89	6	14	21	57	1.58
360267--360366	25	4.2	25	82	10	127	5	12	25	58	1.54
360267--360391	25	5.4	25	75	16	124	5	11	24	58	1.54
361318--361773	34	13.8	34	76	7	382	23	16	23	37	1.93
361318--361653	102	3.3	102	85	1	424	23	16	23	37	1.94
361670--361796	59	2.2	59	82	0	155	22	14	25	37	1.92
361748--361812	25	2.8	23	86	6	78	18	13	30	36	1.90
361854--361972	59	2.0	59	85	3	159	21	13	24	41	1.89
361888--361938	25	2.0	25	92	0	84	19	13	25	41	1.88
361913--362020	34	3.2	34	81	0	108	21	12	23	42	1.87
361827--362006	93	1.9	93	81	2	218	21	13	24	40	1.89
362085--362134	25	2.0	25	88	0	73	22	14	24	40	1.90
362230--362337	34	3.2	34	84	2	146	22	16	25	35	1.95
365559--365811	47	5.4	47	90	0	357	32	14	18	35	1.91
371373--371448	18	4.3	18	86	3	102	39	14	17	28	1.89
371385--371456	18	4.1	18	90	1	101	43	11	15	30	1.81
371759--372352	18	33.0	18	83	2	701	42	14	14	28	1.85
371759--372352	54	11.0	54	85	2	782	42	14	14	28	1.85
391746--391787	20	2.2	19	83	8	50	28	14	11	45	1.80
391917--391975	20	3.0	20	75	9	66	28	10	13	47	1.75
420956--420989	14	2.3	15	90	10	52	38	11	23	26	1.89
427211--427705	22	22.3	22	81	2	528	41	38	8	12	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429864--430661	35	23.7	35	86	6	1018	30	14	29	25	1.94
429868--430661	67	11.8	67	85	7	974	30	14	29	25	1.94
432068--432939	36	24.9	36	77	9	721	39	19	15	25	1.91
432146--432202	28	2.0	28	100	0	114	40	17	17	24	1.91
432534--432590	28	2.0	28	100	0	114	40	17	17	24	1.91
432437--432830	136	2.9	136	96	0	698	41	20	14	24	1.89
432670--432726	28	2.0	28	100	0	114	40	17	17	24	1.91
433990--434112	47	2.5	47	85	7	147	28	21	18	31	1.97
434342--434496	83	1.9	83	86	2	222	30	22	17	29	1.97
435453--436167	43	16.7	43	83	3	839	31	17	18	33	1.94

Tables:   1   2   3   4