oyster.v9_M.fa.s43.2.7.7.80.10.50.500.2.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: scaffold1583
Parameters: 2 7 7 80 10 50 500
Length:  1104062

Tables:   1   2   3   

This is table  2  of  3  ( 312 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)
434768--434800	16	2.0	17	88	5	50	24	3	30	42	1.70
453052--453082	15	2.1	15	93	0	53	29	12	16	41	1.85
456642--456706	32	2.0	33	90	6	105	44	9	6	40	1.61
458082--458106	13	1.9	13	100	0	50	44	24	0	32	1.54
459462--459518	18	3.1	18	80	14	62	52	8	1	36	1.43
459691--459873	15	11.5	15	71	17	102	47	11	3	37	1.56
459830--459864	18	1.9	18	94	0	61	51	8	0	40	1.33
459725--459952	98	2.4	98	86	8	301	46	12	5	35	1.65
459911--459977	32	2.1	32	82	0	80	46	7	8	37	1.64
460027--460075	20	2.5	20	82	0	62	53	10	0	36	1.35
460178--460230	20	2.6	20	84	0	70	41	15	3	39	1.65
492267--493052	321	2.4	322	91	1	1234	30	14	21	33	1.93
492267--493094	161	5.1	161	88	2	1151	30	14	20	34	1.93
504630--505005	187	2.0	186	98	1	743	31	14	20	33	1.93
507420--507464	16	2.8	16	82	0	54	31	22	0	46	1.52
507417--507468	20	2.6	20	79	11	61	30	23	0	46	1.53
511875--511916	18	2.3	18	83	0	57	35	14	11	38	1.83
522444--522471	1	28.0	1	100	0	56	100	0	0	0	0.00
523156--523193	18	2.1	19	85	5	51	23	10	15	50	1.75
524240--524296	2	29.0	2	96	3	107	0	50	0	49	1.00
526017--526046	15	2.1	15	93	6	53	33	46	6	13	1.69
526960--527008	2	24.5	2	100	0	98	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530502--530540	2	19.5	2	100	0	78	0	48	0	51	1.00
533388--533419	2	16.0	2	100	0	64	50	0	50	0	1.00
534442--534487	17	2.8	17	93	3	76	30	13	23	32	1.93
536295--536368	18	4.1	18	89	0	94	0	41	8	50	1.32
536313--536368	2	28.0	2	92	0	94	0	46	3	50	1.19
536305--536365	10	6.3	10	88	7	81	0	42	6	50	1.28
536447--536487	16	2.7	15	88	7	64	34	14	9	41	1.79
544912--545179	138	1.9	137	81	4	315	25	25	15	34	1.95
546508--546537	3	10.0	3	100	0	60	0	66	0	33	0.92
546943--547814	31	28.1	31	85	1	1100	30	26	16	27	1.97
562610--562661	14	3.8	14	74	5	61	46	5	21	26	1.74
562612--562667	27	2.1	27	96	0	103	46	5	17	30	1.71
570867--571130	35	7.6	34	91	5	370	32	26	14	25	1.95
573577--573622	19	2.4	19	88	3	65	10	10	39	39	1.76
604711--604759	2	24.5	2	100	0	98	0	51	0	48	1.00
604916--605824	39	23.3	39	77	7	717	15	26	17	40	1.89
608560--608605	23	2.0	23	100	0	92	39	21	17	21	1.93
621515--621695	64	2.8	64	93	0	299	23	20	20	35	1.96
622306--622363	2	30.0	2	93	6	102	0	48	0	51	1.00
623511--623679	31	5.5	31	86	0	248	21	5	36	35	1.78
623511--623679	93	1.8	93	90	0	275	21	5	36	35	1.78
624100--624152	26	2.0	27	92	3	90	37	18	13	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624431--624584	26	5.9	26	93	0	254	24	24	16	35	1.95
624431--624584	52	3.0	52	95	0	281	24	24	16	35	1.95
624673--624726	22	2.5	20	82	11	63	51	14	16	16	1.76
624673--624726	11	5.1	10	78	8	54	51	14	16	16	1.76
626470--626919	28	16.1	28	78	5	408	26	14	30	28	1.95
626874--626933	14	4.3	14	70	8	59	15	18	36	30	1.91
626874--626956	42	2.0	42	95	0	148	19	15	36	28	1.93
626996--627087	33	2.8	33	94	0	157	9	28	36	25	1.87
628812--628965	81	1.9	81	87	0	227	44	20	11	22	1.84
635570--635657	44	2.0	43	95	2	158	14	22	26	35	1.93
635732--635979	125	2.0	121	94	3	433	39	11	20	28	1.88
639016--639105	46	1.9	47	88	2	137	21	16	15	46	1.84
639852--639910	30	2.0	30	89	0	91	30	20	22	27	1.98
640267--641200	30	31.2	30	96	0	1595	24	16	34	25	1.95
642336--642485	30	5.0	30	88	1	221	37	17	32	13	1.88
643806--643831	2	13.0	2	100	0	52	0	0	50	50	1.00
643831--643857	1	27.0	1	100	0	54	0	0	100	0	0.00
651410--651681	57	4.8	56	85	5	332	23	34	16	25	1.95
652818--653059	31	7.9	31	92	5	413	16	26	26	31	1.96
657719--657806	21	4.5	20	89	9	114	23	11	15	48	1.78
659453--659540	21	4.5	20	89	9	114	23	11	15	48	1.78
662162--662270	27	4.0	26	86	9	130	38	19	13	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662177--662272	27	3.6	27	90	2	131	38	20	12	28	1.89
685410--686905	28	56.2	28	72	12	955	28	17	16	37	1.92
685879--686376	50	9.7	50	78	7	453	28	17	17	35	1.93
685996--686244	22	10.2	22	67	19	102	27	18	19	34	1.95
686118--686615	237	2.1	234	89	1	755	27	18	17	36	1.94
686383--686481	22	4.2	22	76	16	92	27	20	18	34	1.95
686355--686827	50	9.1	50	77	11	407	28	18	16	36	1.92
686422--686833	106	3.9	106	75	14	321	28	17	16	37	1.91
686015--686968	78	12.3	78	69	15	406	27	18	16	36	1.93
686838--686949	22	4.8	22	86	12	161	27	22	13	36	1.92
686806--686927	50	2.4	50	93	0	208	27	22	13	35	1.93
686838--686985	72	2.1	72	89	2	226	28	21	12	37	1.89
690851--691258	31	13.2	31	87	2	534	24	23	17	34	1.96
691240--691274	16	2.2	16	89	0	52	25	34	8	31	1.86
691189--691336	78	1.9	78	90	2	235	23	25	17	33	1.96
691255--691548	31	9.5	31	94	1	473	22	25	19	32	1.97
691145--691367	109	2.0	109	89	3	342	23	26	17	33	1.96
691860--692283	32	13.2	32	86	1	508	26	17	22	33	1.96
692708--692748	17	2.4	17	95	0	73	26	36	4	31	1.78
694120--694689	38	14.8	38	90	5	732	33	13	25	27	1.93
699074--699117	2	22.0	2	100	0	88	50	0	50	0	1.00
700623--700692	2	35.5	2	94	2	106	45	0	52	1	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700836--700884	16	3.1	16	82	8	64	2	20	38	38	1.64
702091--702144	2	27.0	2	100	0	108	0	50	0	50	1.00
704215--704308	21	4.5	21	79	0	89	28	14	15	40	1.88
704215--704308	42	2.2	42	84	0	116	28	14	15	40	1.88
704465--704523	30	2.0	30	93	0	100	25	25	22	27	2.00
705090--705210	21	5.8	21	78	3	127	42	15	13	28	1.84
705086--705210	42	3.0	42	91	0	196	41	16	14	28	1.87
705090--705210	63	1.9	63	81	0	143	42	15	13	28	1.84
705265--705401	63	2.2	62	78	1	148	27	13	20	38	1.90
705265--705403	21	6.7	21	78	1	127	27	13	20	38	1.91
705480--705571	21	4.4	21	79	5	96	39	18	18	23	1.92
705480--705571	42	2.2	42	88	3	132	39	18	18	23	1.92
707771--707826	2	28.0	2	96	0	103	48	0	51	0	1.00
708291--708329	2	19.5	2	100	0	78	48	0	51	0	1.00
711860--712153	147	2.0	147	100	0	588	36	13	18	31	1.90
713183--713318	61	2.2	61	96	0	245	27	12	21	38	1.89
713377--713455	30	2.6	30	97	0	149	26	16	15	41	1.88
714800--714851	17	2.8	18	77	11	52	32	5	11	50	1.62
714800--714878	37	2.2	35	84	4	104	34	3	11	50	1.56
714818--714879	17	3.6	16	72	19	54	35	1	9	53	1.44
714913--714971	30	2.0	30	83	6	75	33	5	16	44	1.70
715654--715699	12	3.8	12	97	0	83	41	10	8	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
716368--716477	21	5.2	21	96	0	193	1	19	39	40	1.62
718775--718825	2	25.5	2	100	0	102	50	0	49	0	1.00
722696--722735	2	20.0	2	100	0	80	50	0	50	0	1.00
736799--736980	59	3.0	60	87	6	212	19	19	15	46	1.85
736861--736980	59	2.0	59	100	0	240	20	18	15	46	1.84
752194--752272	41	1.9	41	97	0	149	41	13	11	32	1.81
758279--758312	3	11.3	3	93	0	59	0	2	35	61	1.11
758664--758770	31	3.5	30	80	3	124	17	28	26	27	1.98
758758--758790	16	2.1	16	94	0	57	15	27	27	30	1.96
761491--761564	38	1.9	38	97	0	139	31	12	8	48	1.69

Tables:   1   2   3