oyster.v9_M.fa.s39.2.7.7.80.10.50.500.2.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: scaffold1174
Parameters: 2 7 7 80 10 50 500
Length:  1120009

Tables:   1   2   3   

This is table  2  of  3  ( 291 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)
401446--401590	56	2.6	56	96	3	269	39	17	17	24	1.92
401623--401726	10	10.0	10	89	6	145	9	18	30	41	1.82
405727--405764	3	12.7	3	100	0	76	31	0	34	34	1.58
408737--408769	13	2.4	14	95	5	59	45	15	30	9	1.77
410691--410756	33	2.0	33	93	0	114	31	10	15	42	1.81
422779--422991	49	4.4	49	76	15	169	24	13	19	41	1.88
422880--422963	44	1.9	44	97	0	159	20	13	19	47	1.82
424412--424450	2	19.5	2	100	0	78	0	48	0	51	1.00
438110--438171	9	6.8	9	82	10	56	32	1	4	61	1.27
438114--438166	12	4.3	12	77	13	54	32	1	3	62	1.24
438123--438171	16	3.0	15	88	11	62	32	2	2	63	1.17
445276--445342	7	9.6	7	76	0	71	38	14	19	26	1.91
452052--452095	2	22.0	2	100	0	88	50	0	50	0	1.00
464196--464220	13	1.9	13	100	0	50	24	12	24	40	1.88
465632--465659	2	14.0	2	100	0	56	0	50	0	50	1.00
469093--469194	30	3.4	30	76	10	91	24	14	33	27	1.94
469112--469211	30	3.3	30	73	8	87	23	14	37	26	1.92
469265--470052	30	26.0	30	72	5	490	20	12	40	26	1.88
470146--470334	30	6.3	30	75	2	155	19	11	43	25	1.85
470786--471955	30	38.9	30	68	8	455	20	12	40	26	1.88
471468--471657	100	1.9	100	87	0	281	19	13	40	26	1.88
480691--480723	16	2.1	16	88	5	50	15	24	6	54	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487590--487689	52	1.9	53	93	2	175	25	7	7	61	1.47
487884--488016	52	2.5	52	98	1	257	24	7	6	60	1.48
497095--497134	20	2.0	20	100	0	80	35	20	15	30	1.93
502067--502166	2	50.0	2	87	0	146	2	45	4	49	1.32
503755--503793	2	19.5	2	100	0	78	48	0	51	0	1.00
509585--509616	15	2.1	15	94	0	55	50	0	50	0	1.00
511580--512014	167	2.6	165	79	6	457	29	21	15	33	1.94
520270--520300	4	7.8	4	92	0	53	25	22	0	51	1.48
520264--520300	12	3.0	12	92	4	56	24	21	0	54	1.45
520298--520330	4	8.2	4	100	0	66	27	48	0	24	1.51
521970--522008	2	19.5	2	100	0	78	0	51	0	48	1.00
523700--523883	72	2.6	72	92	0	296	38	15	14	32	1.88
526773--527082	68	4.6	68	92	0	530	34	26	17	21	1.95
538488--538522	2	17.5	2	93	0	61	51	0	2	45	1.16
539846--539965	44	2.7	45	94	2	215	24	30	16	29	1.97
550617--550664	10	4.8	10	84	0	60	33	0	2	64	1.05
550619--550653	18	1.9	18	94	0	61	37	0	2	60	1.12
557490--557545	2	28.0	2	92	0	94	1	46	1	50	1.22
570076--570121	2	23.5	2	93	4	76	45	0	2	52	1.13
570852--570882	2	15.5	2	100	0	62	0	51	0	48	1.00
577152--577180	11	2.7	11	94	5	51	6	0	93	0	0.36
586042--586082	2	20.5	2	100	0	82	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586635--586666	1	32.0	1	93	0	55	0	0	3	96	0.20
586632--586666	13	2.8	13	95	4	63	0	0	5	94	0.32
591630--591672	2	21.5	2	100	0	86	0	48	0	51	1.00
597843--597873	14	2.2	14	100	0	62	45	6	0	48	1.28
598654--600073	37	38.2	37	91	1	2232	16	24	29	28	1.97
598654--600073	373	3.8	372	96	0	2506	16	24	29	28	1.97
628001--628716	322	2.2	313	82	6	823	32	15	24	27	1.95
628001--628716	166	4.5	163	83	5	763	32	15	24	27	1.95
647948--647987	19	2.1	19	90	0	62	22	27	22	27	1.99
650121--650227	53	2.0	53	98	0	205	37	9	14	38	1.79
651068--651102	2	17.5	2	100	0	70	48	0	51	0	1.00
671031--671060	14	2.1	14	100	0	60	63	6	23	6	1.43
679483--679522	2	20.0	2	100	0	80	0	50	0	50	1.00
698373--698403	15	2.1	15	100	0	62	0	38	0	61	0.96
702265--702301	5	7.8	5	93	6	60	59	0	40	0	0.97
712218--712252	2	17.5	2	100	0	70	0	51	0	48	1.00
714231--714263	1	33.0	1	100	0	66	0	100	0	0	0.00
718204--718238	2	17.5	2	100	0	70	0	51	0	48	1.00
724491--724515	12	2.1	12	100	0	50	24	24	24	28	2.00
729923--729955	1	33.0	1	100	0	66	0	100	0	0	0.00
729955--730001	2	23.5	2	100	0	94	0	51	0	48	1.00
738505--738533	2	14.5	2	100	0	58	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
738659--738833	72	2.5	71	92	3	291	34	24	12	28	1.92
741007--741038	2	16.0	2	100	0	64	50	0	50	0	1.00
742685--742744	2	30.5	2	96	3	113	48	0	51	0	1.00
749664--749697	16	2.1	16	94	0	59	44	5	0	50	1.26
770042--770100	2	29.5	2	100	0	118	49	0	50	0	1.00
773730--773818	2	44.5	2	100	0	178	49	0	50	0	1.00
775316--775426	55	2.0	55	96	0	204	45	10	7	36	1.67
781460--781492	14	2.4	14	90	10	50	60	12	9	18	1.57
785239--785273	3	11.7	3	100	0	70	68	0	31	0	0.90
785786--785978	21	9.3	21	87	3	230	56	6	9	27	1.56
785786--785978	83	2.3	82	90	1	296	56	6	9	27	1.56
785787--785978	62	3.1	62	90	2	296	56	6	9	27	1.56
796098--796417	158	2.0	158	98	0	622	29	18	17	34	1.94
797836--797882	2	23.5	2	100	0	94	0	51	0	48	1.00
801218--801298	4	20.2	4	100	0	162	50	0	24	24	1.49
812998--813044	2	23.5	2	100	0	94	51	0	48	0	1.00
820703--820785	2	41.5	2	100	0	166	49	0	50	0	1.00
822430--822470	4	10.2	4	83	0	55	0	24	4	70	1.06
825332--825703	29	12.8	29	94	0	645	28	23	8	39	1.85
829836--829916	2	40.5	2	94	0	144	0	49	0	50	1.00
834285--834328	6	7.3	6	85	14	56	0	0	15	84	0.63
834296--834325	7	4.4	7	91	8	53	0	0	13	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
834291--834328	13	3.0	13	96	3	69	0	0	15	84	0.63
837726--837750	13	1.9	13	100	0	50	0	0	8	92	0.40
839873--840328	174	2.6	170	80	9	472	29	15	19	36	1.92
839873--840399	179	3.0	176	78	10	622	30	15	18	35	1.92
840619--840884	132	2.0	132	99	0	523	28	20	18	32	1.96
842339--842888	177	3.1	177	94	1	951	22	16	28	32	1.95
842515--842554	19	2.1	19	90	0	62	22	2	37	37	1.68
843597--843632	15	2.4	15	90	0	54	36	5	13	44	1.68
843709--843812	15	6.4	15	72	23	50	36	1	12	49	1.52
843598--843762	50	3.3	49	75	3	161	35	7	11	44	1.70
848328--848359	6	5.3	6	92	0	55	0	31	46	21	1.52
848497--849198	177	4.0	177	95	0	1224	22	16	27	33	1.96
848684--848723	19	2.1	19	85	0	53	20	2	37	40	1.66
848861--848900	19	2.1	19	85	0	53	20	2	37	40	1.66
849046--849360	158	2.0	158	86	2	445	23	18	22	35	1.96
850125--850178	28	1.9	28	85	14	76	27	1	16	53	1.53
850125--850198	15	5.1	15	76	15	66	31	1	13	54	1.48
851266--851311	16	3.0	15	84	12	58	30	15	26	28	1.96
862201--862232	2	16.0	2	93	0	55	50	3	0	46	1.17
866190--866217	2	14.0	2	100	0	56	50	0	0	50	1.00
869077--869118	17	2.5	17	84	0	57	21	0	28	50	1.49
884895--884921	12	2.2	12	100	0	54	48	7	18	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
887494--887566	33	2.2	33	92	2	130	26	16	26	31	1.96
895243--895278	2	18.0	2	100	0	72	0	50	0	50	1.00
897808--897849	9	4.4	9	85	11	57	28	2	0	69	1.01
897807--897851	10	4.6	10	80	5	56	28	2	0	68	1.01
898171--898602	40	10.8	40	93	1	695	44	23	0	30	1.60
903499--903564	2	33.0	2	100	0	132	0	50	0	50	1.00
906525--906569	2	22.5	2	100	0	90	51	0	48	0	1.00
910471--910520	2	25.5	2	95	4	93	0	52	0	48	1.00
912057--912081	12	2.1	12	100	0	50	48	16	12	24	1.79
912844--912891	8	6.1	8	86	11	55	0	0	16	83	0.65

Tables:   1   2   3