oyster.v9_M.fa.s5.2.7.7.80.10.50.500.2.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: scaffold102
Parameters: 2 7 7 80 10 50 500
Length:  1727112

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 549 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)
382630--382765	27	5.0	27	78	8	114	33	22	22	20	1.97
383492--383530	2	19.5	2	89	0	60	56	0	43	0	0.99
384430--384462	1	33.0	1	93	0	57	96	3	0	0	0.20
384430--384465	13	2.8	13	95	4	65	94	5	0	0	0.31
388766--389002	48	4.9	48	80	2	287	21	21	18	38	1.93
388764--389001	96	2.5	97	92	0	397	21	21	18	38	1.94
393761--393871	31	3.5	31	74	11	107	42	18	13	25	1.87
395371--395481	31	3.5	31	73	16	109	42	19	12	25	1.87
396522--396944	212	2.0	211	100	0	837	31	17	13	37	1.88
396953--397954	437	2.3	436	89	0	1493	31	18	14	34	1.92
398399--398620	53	4.0	53	84	8	266	45	18	22	13	1.83
398399--398620	56	4.0	56	86	7	310	45	18	22	13	1.83
412435--412478	2	22.0	2	100	0	88	0	50	0	50	1.00
419697--419725	13	2.1	14	93	6	51	55	6	13	24	1.63
434525--434589	30	2.2	30	94	2	114	55	3	15	26	1.55
435356--435404	20	2.5	20	82	0	62	61	14	10	14	1.57
448571--448619	2	24.5	2	100	0	98	51	0	48	0	1.00
450567--450595	14	2.1	14	93	6	51	13	17	0	68	1.20
463158--463221	32	2.0	32	100	0	128	28	3	15	53	1.57
471465--471514	4	12.8	4	82	4	66	32	26	42	0	1.56
471462--471508	12	3.9	12	91	0	76	34	25	40	0	1.56
477561--478249	166	4.1	167	86	4	905	35	15	22	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477561--478249	334	2.1	333	86	4	962	35	15	22	26	1.94
481379--481554	93	1.9	93	84	2	237	11	32	34	21	1.89
487890--488315	166	2.6	166	92	3	689	26	23	16	33	1.95
488494--488536	3	14.3	3	85	0	50	41	34	23	0	1.55
488488--488519	15	2.1	15	100	0	64	46	34	18	0	1.49
488488--488536	18	2.7	18	90	0	71	44	34	20	0	1.52
503466--504240	156	4.7	165	83	6	891	38	15	16	29	1.90
504271--504310	4	10.0	4	94	0	71	47	25	27	0	1.52
510187--510254	31	2.2	31	100	0	136	16	32	8	42	1.79
511588--511718	31	4.2	31	89	0	190	38	32	16	12	1.86
512839--512865	2	13.5	2	100	0	54	51	0	48	0	1.00
517804--517828	12	2.1	12	100	0	50	16	24	16	44	1.86
517819--517986	22	7.6	22	78	5	178	30	19	14	35	1.92
517819--518287	44	10.4	44	79	8	410	30	19	15	34	1.93
517816--518280	66	6.8	66	76	9	434	30	19	15	34	1.93
517891--518087	97	2.0	98	93	2	335	31	18	13	35	1.90
517994--518287	22	13.2	22	77	9	260	30	20	15	32	1.94
517993--518280	136	2.2	130	89	5	459	30	20	15	33	1.94
518785--518833	26	2.0	24	84	11	64	32	20	10	36	1.86
522611--522640	2	15.0	2	100	0	60	0	0	50	50	1.00
524517--524600	2	41.5	2	80	2	96	48	4	44	2	1.36
526067--526131	31	2.1	31	97	0	121	18	30	9	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526639--527168	166	3.2	166	87	2	733	28	22	14	34	1.94
528646--528685	8	5.1	8	90	3	64	37	22	40	0	1.54
533438--533463	2	13.0	2	100	0	52	50	0	0	50	1.00
535008--535114	53	2.0	53	85	0	142	48	6	9	35	1.61
547287--547334	22	2.2	22	88	0	69	29	14	43	12	1.82
547357--547465	8	14.9	7	75	21	82	10	44	15	30	1.79
547350--547469	22	5.5	22	80	10	129	9	45	15	30	1.78
547349--547465	14	8.1	13	73	20	74	9	45	15	29	1.77
549002--549122	30	4.0	30	91	0	188	23	25	23	26	2.00
560131--560337	39	5.3	39	84	4	274	34	18	25	21	1.96
560131--560330	77	2.6	78	86	3	260	35	17	25	22	1.95
561885--561909	12	2.1	12	100	0	50	8	0	0	92	0.40
568795--568860	31	2.1	31	97	0	123	40	10	31	16	1.83
569224--569564	167	2.0	166	97	1	648	32	19	12	36	1.88
570819--570867	24	2.0	24	84	0	62	36	8	0	55	1.30
579085--579116	11	2.6	13	90	9	50	9	18	28	43	1.81
579125--579155	11	2.8	11	90	0	53	45	29	16	9	1.79
579318--579357	11	3.6	11	89	0	53	47	27	15	10	1.77
579321--579367	22	2.1	22	88	0	67	40	27	17	14	1.89
581907--582017	37	3.1	37	77	12	124	37	8	8	45	1.63
582897--582925	6	4.8	6	100	0	58	0	0	13	86	0.58
591594--591642	15	3.0	17	82	11	66	36	10	20	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597182--597214	2	16.0	2	93	6	57	48	0	0	48	1.01
602514--602578	8	8.1	8	86	6	60	27	40	6	26	1.80
602524--602598	4	18.8	4	81	10	91	30	42	1	25	1.63
602524--602598	32	2.3	32	97	0	141	30	42	1	25	1.63
602568--602605	20	1.9	20	94	0	67	36	39	0	23	1.55
607078--607142	33	2.0	32	93	3	112	43	13	4	38	1.65
607088--607142	14	3.6	14	73	21	56	43	14	1	40	1.56
619167--619202	9	3.9	9	92	7	63	88	0	11	0	0.50
619166--619208	10	4.3	10	82	11	61	88	0	11	0	0.52
619394--619490	21	4.7	21	82	5	108	35	20	15	28	1.93
619665--619708	5	8.8	5	92	0	70	40	25	13	20	1.89
619665--619708	15	2.9	15	93	0	79	40	25	13	20	1.89
619732--619811	21	3.8	21	88	4	108	41	26	6	26	1.79
622650--622692	20	2.1	20	86	0	59	25	9	23	41	1.84
622834--622950	62	1.9	62	85	3	164	36	20	11	31	1.88
622848--623002	83	1.9	83	86	2	222	36	21	12	29	1.91
622848--622984	42	3.3	42	76	10	136	35	19	13	31	1.90
622844--622984	21	6.8	21	77	8	117	35	19	12	31	1.90
623556--623584	2	14.5	2	100	0	58	51	0	0	48	1.00
629097--629123	11	2.5	11	100	0	54	92	7	0	0	0.38
636056--636114	10	6.2	10	84	11	63	13	22	6	57	1.59
636042--636109	14	5.2	14	79	16	92	11	22	5	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636037--636124	14	6.9	14	75	19	59	14	21	9	54	1.68
637855--637932	29	2.8	28	74	3	77	25	11	33	29	1.91
637860--637905	23	2.0	24	86	4	67	26	8	32	32	1.87
637742--637967	118	1.9	119	89	3	357	24	9	34	31	1.88
643128--643189	23	2.7	23	87	5	72	25	11	33	29	1.91
643157--643213	21	2.8	21	83	2	71	26	8	35	29	1.87
653090--653115	2	13.0	2	100	0	52	50	0	0	50	1.00
661017--661070	4	13.5	4	88	0	72	1	27	18	51	1.56
661056--661120	2	32.5	2	90	0	103	0	44	4	50	1.22
661017--661120	8	13.0	8	87	0	91	0	36	11	50	1.45
674479--674591	10	10.9	10	66	16	52	13	41	14	30	1.84
674479--674526	21	2.3	21	85	3	62	8	43	10	37	1.69
674612--674658	20	2.4	20	85	0	67	14	42	17	25	1.87
675217--675267	2	25.5	2	100	0	102	49	0	50	0	1.00
676300--676345	2	23.0	2	100	0	92	0	50	0	50	1.00
677336--677401	20	3.3	20	79	6	71	27	15	43	13	1.84
677346--677412	20	3.4	19	77	4	53	28	17	43	10	1.82
677472--677532	10	5.9	10	71	5	50	34	11	44	9	1.74
681007--681073	7	9.6	7	83	0	89	35	14	22	26	1.93
681568--681599	2	16.0	2	100	0	64	50	0	50	0	1.00
689507--689548	12	3.5	12	86	0	57	0	45	4	50	1.23
699663--699707	2	22.5	2	100	0	90	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)
700336--700428	46	2.0	46	85	0	123	26	19	8	45	1.79
700653--700773	2	60.5	2	90	0	80	0	34	12	52	1.45
705958--705992	16	2.2	16	100	0	70	37	20	5	37	1.76
706498--706522	12	2.1	12	100	0	50	0	40	16	44	1.47
708606--708909	134	2.2	135	81	9	348	25	27	19	26	1.99
708966--709348	163	2.4	162	86	3	493	31	19	14	35	1.91
718337--718407	32	2.3	32	85	11	103	21	19	38	21	1.94
718337--718534	42	4.7	43	85	3	231	22	16	37	23	1.93
718337--718535	10	18.9	10	73	12	89	22	16	38	23	1.93
718527--718590	33	2.0	31	85	11	85	34	14	26	25	1.94

Tables:   1   2   3   4   5