oyster.v9_M.fa.s15.2.7.7.80.10.50.500.3.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: scaffold591
Parameters: 2 7 7 80 10 50 500
Length:  1432801

Tables:   1   2   3   4   

This is table  3  of  4  ( 480 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)
733170--733372	72	2.8	72	80	12	220	34	25	8	31	1.86
733324--733487	78	2.1	78	86	2	222	32	23	11	32	1.91
733324--733515	78	2.5	80	80	8	209	30	23	11	33	1.90
734658--734699	18	2.3	19	80	12	52	45	2	2	50	1.27
734668--734704	18	2.1	18	100	0	74	43	0	0	56	0.99
736280--736312	1	33.0	1	100	0	66	100	0	0	0	0.00
736671--736716	2	23.0	2	100	0	92	0	50	0	50	1.00
736960--737011	9	5.3	9	74	17	50	44	7	15	32	1.75
738370--738403	2	17.0	2	100	0	68	50	0	50	0	1.00
745991--746040	2	25.0	2	95	0	91	48	0	52	0	1.00
754777--754826	20	2.5	20	93	0	82	28	34	14	24	1.93
763190--763216	14	1.9	14	100	0	54	33	7	7	51	1.58
768036--768290	28	9.1	28	85	0	312	36	21	12	28	1.91
770461--770927	31	14.7	31	87	7	627	36	27	17	18	1.93
770462--770927	64	7.3	63	88	7	576	36	27	17	18	1.93
792013--792042	15	1.9	16	93	6	53	43	0	3	53	1.17
792707--792743	2	18.5	2	100	0	74	0	51	0	48	1.00
797334--797379	2	23.5	2	93	4	76	0	45	0	54	0.99
798766--798800	18	1.9	18	88	0	52	48	14	2	34	1.58
800606--800650	2	22.5	2	100	0	90	0	48	0	51	1.00
800681--800708	12	2.3	12	100	0	56	42	0	14	42	1.45
805526--805558	1	33.0	1	100	0	66	0	100	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
805910--805966	2	28.5	2	96	0	105	0	52	0	47	1.00
813371--813436	2	33.0	2	93	0	114	51	0	46	1	1.10
813885--813921	4	9.2	4	100	0	74	0	24	24	51	1.49
813919--813946	2	14.0	2	100	0	56	0	50	0	50	1.00
822716--823070	172	2.1	172	100	0	710	32	17	15	34	1.92
830289--830318	8	3.6	8	95	4	51	26	0	10	63	1.26
831170--831288	5	24.0	5	82	11	147	57	21	16	4	1.55
831536--831592	2	29.0	2	96	3	107	49	0	50	0	1.00
832240--832303	30	2.1	30	97	0	119	37	6	21	34	1.79
832589--832635	2	23.5	2	100	0	94	0	48	0	51	1.00
832870--833005	5	26.4	5	81	10	159	5	16	21	56	1.59
834826--834859	18	1.9	18	88	5	52	52	2	14	29	1.56
838063--838091	1	29.0	1	100	0	58	0	100	0	0	0.00
843203--843379	30	5.9	30	76	3	142	25	33	19	21	1.97
843206--843363	60	2.6	60	86	0	217	24	32	20	23	1.98
855838--855889	18	2.9	18	82	0	59	34	17	13	34	1.89
859078--859108	14	2.2	14	100	0	62	38	12	12	35	1.82
870472--870514	21	2.0	21	90	0	68	18	18	11	51	1.76
882526--882564	2	19.5	2	100	0	78	51	0	48	0	1.00
886426--886555	55	2.3	55	88	2	179	24	19	22	33	1.97
887455--887484	15	2.0	15	93	0	51	10	26	33	30	1.89
889076--889105	15	2.0	15	93	0	51	10	26	33	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
889187--889250	2	32.0	2	100	0	128	50	0	50	0	1.00
889840--889959	58	2.1	57	82	4	143	30	10	16	43	1.81
892422--892541	33	3.6	33	94	0	213	31	40	11	16	1.85
900256--900305	25	2.0	25	96	0	91	32	14	32	22	1.93
911325--911371	23	2.0	25	91	8	80	42	19	8	29	1.80
913856--913948	15	5.4	15	68	26	60	25	39	16	18	1.91
913869--913933	21	3.4	21	70	24	70	26	38	18	16	1.92
913856--914040	36	5.1	36	93	1	291	24	37	17	19	1.93
916325--916417	15	5.4	15	68	26	60	25	39	16	18	1.91
916338--916402	21	3.4	21	70	24	70	26	38	18	16	1.92
916410--916474	21	3.4	20	68	24	59	26	33	20	20	1.96
916325--916545	36	6.1	36	95	0	352	25	37	18	19	1.94
921528--921564	11	3.4	11	92	0	65	27	16	0	56	1.40
922118--922179	32	1.9	33	90	3	99	43	4	11	40	1.62
922909--924234	166	8.1	166	82	4	1404	32	15	22	29	1.95
927690--927731	21	2.0	21	95	0	75	19	11	14	54	1.70
929971--930028	22	2.6	22	91	0	89	44	29	17	8	1.78
929973--930069	11	8.7	11	74	4	79	48	25	13	12	1.77
947151--947181	4	7.8	4	92	0	53	22	0	0	77	0.77
947182--947242	2	30.5	2	100	0	122	50	0	49	0	1.00
953122--953182	2	30.5	2	100	0	122	50	0	49	0	1.00
955457--955881	166	2.6	166	94	0	733	32	14	24	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957675--957733	30	2.0	30	93	0	100	38	3	15	42	1.63
967461--967547	30	2.8	30	87	5	102	22	18	26	32	1.97
967461--967580	33	3.8	30	78	12	116	24	17	25	32	1.97
994676--994779	52	2.0	52	98	0	199	39	17	12	30	1.87
1000605--1000710	51	2.1	51	98	0	203	50	12	12	25	1.75
1001167--1001206	20	2.0	20	90	0	62	35	10	17	37	1.83
1001480--1001549	2	35.5	2	97	2	133	48	0	51	0	1.00
1010095--1010159	2	32.5	2	100	0	130	0	50	0	49	1.00
1020659--1020744	2	43.5	2	97	2	165	50	0	50	0	1.00
1023631--1023657	13	2.1	13	100	0	54	85	14	0	0	0.61
1024974--1025054	21	3.9	21	81	3	101	38	14	19	27	1.91
1024975--1025054	42	1.9	42	89	5	126	37	15	20	27	1.92
1025133--1025273	21	6.7	21	80	6	151	29	15	14	40	1.87
1025133--1025273	63	2.2	63	86	2	185	29	15	14	40	1.87
1025133--1025273	42	3.4	42	80	2	167	29	15	14	40	1.87
1029662--1029742	21	3.9	21	83	3	92	39	14	18	27	1.90
1029663--1029742	42	1.9	42	87	5	117	38	15	18	27	1.91
1029821--1030257	21	20.8	21	82	0	399	32	15	15	36	1.90
1046364--1046871	21	24.2	21	77	2	428	36	16	14	32	1.88
1046946--1047032	21	4.2	21	82	1	113	27	17	12	42	1.85
1051229--1051255	2	13.5	2	100	0	54	0	48	0	51	1.00
1051505--1051544	5	8.0	5	88	0	53	2	5	35	57	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051511--1051549	20	1.9	20	89	0	60	2	10	33	53	1.48
1052615--1053523	169	5.4	168	85	4	1150	31	18	17	31	1.95
1052615--1053410	334	2.4	334	86	4	1127	32	18	17	32	1.94
1057915--1057970	20	2.8	20	86	2	67	32	14	37	16	1.88
1058004--1058618	166	3.6	167	87	3	826	30	13	25	30	1.94
1058004--1058636	334	1.9	335	84	5	832	31	13	25	30	1.94
1062026--1062064	20	1.9	20	100	0	78	51	7	10	30	1.64
1062673--1062712	19	2.1	19	90	0	62	20	5	35	40	1.74
1062659--1063042	175	2.2	175	83	2	477	26	15	25	33	1.95
1062845--1062886	19	2.2	19	86	0	57	28	4	33	33	1.78
1063922--1063956	16	2.2	16	94	0	61	37	14	11	37	1.82
1065364--1065582	44	5.1	44	63	18	147	31	18	15	35	1.91
1065303--1065644	85	4.0	85	97	0	648	31	16	17	35	1.92
1065323--1065623	41	7.1	41	61	18	107	31	15	18	34	1.92
1073526--1074711	167	7.1	167	93	1	1981	25	16	19	38	1.92
1073526--1074711	500	2.4	500	92	1	2020	25	16	19	38	1.92
1073526--1074711	333	3.6	332	93	1	1998	25	16	19	38	1.92
1074884--1074917	4	8.8	4	87	6	52	29	26	44	0	1.55
1074881--1074922	12	3.7	12	84	9	61	33	26	40	0	1.56
1100979--1101030	26	2.0	26	100	0	104	46	3	7	42	1.51
1101577--1101603	11	2.5	11	100	0	54	37	33	0	29	1.58
1104175--1104267	33	2.9	32	88	3	141	36	4	22	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109730--1109988	129	2.0	129	100	0	518	32	12	15	40	1.84
1112954--1112992	2	19.5	2	100	0	78	51	0	48	0	1.00
1125533--1125605	2	36.5	2	100	0	146	49	0	50	0	1.00
1125656--1125699	15	2.9	15	82	0	52	13	34	27	25	1.93
1125858--1125901	15	2.9	15	82	0	52	13	34	27	25	1.93
1127459--1127502	19	2.3	19	100	0	88	25	40	15	18	1.90
1138745--1138809	31	2.1	31	97	0	121	24	24	16	33	1.96
1139738--1140166	36	12.0	36	90	1	675	31	19	16	32	1.94
1140495--1140705	84	2.4	89	84	12	273	23	17	22	36	1.95
1140672--1140728	23	2.5	23	94	0	96	21	19	15	43	1.87

Tables:   1   2   3   4