oyster.v9_M.fa.s6.2.7.7.80.10.50.500.3.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: scaffold419
Parameters: 2 7 7 80 10 50 500
Length:  1725835

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 535 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)
641291--642469	31	38.0	31	84	1	1432	39	9	15	35	1.80
650143--650396	125	2.0	125	90	4	404	31	12	22	32	1.92
651686--651734	2	24.5	2	100	0	98	51	0	48	0	1.00
652234--652316	5	16.0	5	76	5	58	55	26	13	4	1.58
652234--652289	20	2.8	20	97	0	103	57	28	10	3	1.49
652499--652525	2	13.5	2	100	0	54	51	0	48	0	1.00
662691--662734	3	15.0	3	95	4	81	68	0	0	31	0.90
665614--665643	9	3.2	9	90	9	51	33	10	10	46	1.71
676058--676580	29	18.1	29	95	0	843	34	10	19	35	1.87
679373--679482	22	5.0	22	79	0	112	39	24	8	28	1.84
686738--686873	53	2.6	53	84	4	175	22	19	19	38	1.93
687563--687589	4	6.8	4	100	0	54	0	0	25	74	0.83
716711--716775	29	2.2	29	86	0	85	29	20	18	32	1.96
723416--723506	42	2.1	43	93	4	157	42	36	12	8	1.73
723500--723585	45	1.9	45	92	0	145	47	34	6	10	1.65
723500--723600	45	2.2	45	87	0	139	46	34	6	11	1.68
738802--738917	40	3.0	40	90	7	170	59	18	7	13	1.58
738802--738917	36	3.1	36	88	7	153	59	18	7	13	1.58
742570--742601	4	8.5	4	86	13	50	53	21	25	0	1.46
742821--742883	30	2.1	30	93	3	108	23	47	12	15	1.80
750423--750601	38	4.8	37	93	3	263	37	23	14	24	1.92
750461--750557	17	5.2	17	65	26	54	37	26	12	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750546--750660	59	1.9	59	84	10	155	39	19	16	25	1.92
750725--750751	12	2.2	12	100	0	54	0	22	18	59	1.38
761773--761817	21	2.1	21	87	0	63	2	35	17	44	1.62
765117--765302	26	7.2	26	95	2	331	39	11	18	31	1.86
765117--765302	77	2.4	78	94	1	331	39	11	18	31	1.86
765117--765302	103	1.8	103	97	0	354	39	11	18	31	1.86
769977--770087	4	27.8	4	98	0	177	54	0	19	25	1.44
769981--770125	12	12.1	12	94	0	155	60	0	14	24	1.34
770085--770125	4	10.2	4	100	0	82	75	0	0	24	0.80
771335--771390	2	28.0	2	100	0	112	50	0	50	0	1.00
777287--777453	55	3.1	52	73	13	151	49	24	11	14	1.77
785026--785061	12	3.0	12	100	0	72	41	33	0	25	1.55
791689--791744	28	2.1	28	86	6	80	33	64	1	0	1.04
793382--793494	36	3.1	36	92	3	172	26	17	28	27	1.98
793468--793571	27	3.9	27	100	0	208	25	11	32	30	1.91
793732--794601	51	17.4	51	73	14	545	30	18	19	31	1.96
793732--794259	106	5.2	106	80	11	624	30	19	19	30	1.96
793925--794051	41	3.0	41	95	4	236	29	14	18	37	1.91
794224--794343	43	2.9	41	83	7	163	31	16	16	35	1.92
794306--794601	106	2.8	106	89	4	444	30	19	18	31	1.96
797706--797944	36	6.7	36	89	1	329	30	29	23	16	1.96
797702--797944	71	3.4	71	90	0	342	29	30	23	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
797706--797944	107	2.2	107	90	1	381	30	29	23	16	1.96
815522--815599	2	39.0	2	97	0	147	48	0	51	0	1.00
817352--817378	2	13.5	2	100	0	54	48	51	0	0	1.00
821511--821558	21	2.3	21	92	0	78	43	12	20	22	1.86
821977--822033	18	3.1	18	80	14	62	52	8	1	36	1.43
822238--822385	15	9.3	15	71	18	86	47	12	4	36	1.60
822248--822430	50	3.8	49	75	15	168	46	12	4	37	1.61
822342--822376	18	1.9	18	94	0	61	51	8	0	40	1.33
822242--822464	98	2.3	98	87	7	316	46	11	5	36	1.62
822301--822432	15	8.3	15	70	17	61	45	12	3	37	1.61
822690--822742	20	2.6	20	84	0	70	41	15	3	39	1.65
823391--824004	177	3.5	176	85	4	765	33	25	17	23	1.96
823686--823725	19	2.1	19	90	0	62	37	37	2	22	1.68
824050--824087	6	6.3	6	88	11	60	18	50	31	0	1.47
836931--836999	35	2.0	34	97	0	120	31	23	15	27	1.95
843575--845068	99	15.1	99	86	5	1986	30	21	14	32	1.93
861885--861924	2	20.0	2	100	0	80	0	0	50	50	1.00
864904--864956	2	26.5	2	100	0	106	0	0	49	50	1.00
866246--866301	2	28.0	2	100	0	112	50	50	0	0	1.00
904888--904937	26	1.9	26	87	0	73	24	16	32	28	1.96
909604--909915	96	3.2	96	96	0	552	36	12	19	31	1.89
910855--910951	21	4.7	21	82	5	108	36	21	14	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
911178--911225	21	2.3	21	96	0	87	39	27	6	27	1.80
912707--912922	96	2.2	96	90	3	337	35	12	20	31	1.90
916385--916464	21	3.8	21	91	6	110	31	15	8	45	1.76
916380--916825	42	10.7	42	75	15	342	31	13	11	43	1.80
916386--916825	63	7.0	62	77	13	372	31	14	11	43	1.80
916436--916495	31	1.9	31	100	0	120	31	10	11	46	1.73
916467--916819	21	16.5	21	83	6	324	32	14	11	42	1.81
916415--916516	52	2.0	52	100	0	204	30	11	10	47	1.74
919861--919935	21	3.7	21	84	10	102	40	10	36	13	1.79
919861--919914	18	2.8	18	91	8	81	40	11	38	9	1.73
919861--919935	39	1.9	39	91	0	123	40	10	36	13	1.79
919930--919967	15	2.8	14	88	11	53	36	7	42	13	1.73
921306--921341	2	18.0	2	88	0	54	50	0	47	2	1.15
921608--921992	178	2.2	174	79	8	408	40	9	20	29	1.84
922005--922046	2	21.0	2	100	0	84	50	0	50	0	1.00
922211--922260	2	24.5	2	91	4	82	52	0	46	2	1.12
922608--922667	2	30.0	2	100	0	120	50	0	50	0	1.00
922822--922857	2	18.0	2	88	11	56	50	0	47	2	1.15
923557--923604	2	24.0	2	100	0	96	50	0	50	0	1.00
923755--923802	2	24.0	2	100	0	96	50	0	50	0	1.00
924319--924374	2	28.0	2	100	0	112	50	0	50	0	1.00
924465--924538	2	37.0	2	94	0	130	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924836--924869	2	17.0	2	93	0	59	47	0	52	0	1.00
924847--924917	32	2.1	34	84	5	92	56	0	38	5	1.23
924845--924923	34	2.4	33	80	15	85	56	0	37	5	1.21
925169--925229	2	30.5	2	84	0	77	49	6	42	1	1.38
927602--927670	2	34.5	2	100	0	138	0	0	49	50	1.00
936596--936681	3	28.7	3	100	0	172	67	0	32	0	0.91
938156--938207	2	26.0	2	84	0	68	1	46	3	48	1.31
941046--941095	2	25.0	2	100	0	100	0	50	0	50	1.00
941579--941617	16	2.6	16	88	8	55	25	28	12	33	1.93
941950--941979	15	2.0	15	93	0	51	50	13	0	36	1.42
942192--942229	20	1.9	20	89	10	60	36	10	5	47	1.61
942337--942385	25	2.0	25	87	0	71	44	14	6	34	1.70
948395--948437	20	2.1	20	91	0	68	44	6	6	41	1.58
948533--948592	26	2.4	25	85	2	75	46	6	5	41	1.52
955584--955614	16	1.9	16	100	0	62	45	12	19	22	1.84
963006--963044	17	2.3	17	90	0	60	25	17	30	25	1.97
963745--964129	21	18.5	21	73	16	252	26	8	8	56	1.57
963767--964124	62	5.8	60	78	11	287	26	8	8	57	1.55
963745--964129	41	9.3	40	74	14	268	26	8	8	56	1.57
971555--972696	326	3.5	325	91	0	1836	30	24	19	26	1.98
972675--972718	22	2.0	22	95	0	79	52	4	15	27	1.63
978665--978721	1	57.0	1	92	0	96	96	1	0	0	0.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979433--979478	2	23.0	2	100	0	92	0	0	50	50	1.00
979466--979584	59	2.0	59	96	0	220	26	15	26	31	1.96
980161--980235	3	25.3	3	88	8	109	33	1	1	64	1.11
981620--981675	28	1.9	28	85	7	76	39	10	7	42	1.67
994946--995005	2	30.0	2	100	0	120	50	0	50	0	1.00
996243--996311	2	34.5	2	100	0	138	0	49	0	50	1.00
1011192--1011219	14	2.0	14	100	0	56	42	7	14	35	1.73
1012964--1013008	23	2.0	22	87	12	65	40	15	4	40	1.67
1019687--1019712	8	3.2	8	100	0	52	65	11	11	11	1.48
1026163--1026200	17	2.4	17	86	8	53	21	18	10	50	1.76

Tables:   1   2   3   4   5