oyster.v9_M.fa.s18.2.7.7.80.10.50.500.3.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: scaffold1179
Parameters: 2 7 7 80 10 50 500
Length:  1367275

Tables:   1   2   3   4   

This is table  3  of  4  ( 402 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)
607643--607667	1	25.0	1	100	0	50	0	0	0	100	0.00
608433--608470	6	6.3	6	88	11	60	0	31	50	18	1.47
608608--609156	177	3.1	175	87	4	715	25	16	24	33	1.95
608689--609156	181	2.6	177	90	1	675	25	16	23	33	1.96
609794--609837	20	2.2	20	91	0	70	40	4	13	40	1.65
609899--609952	28	1.9	28	85	14	76	29	1	16	51	1.55
610058--610107	15	3.2	15	77	5	55	42	8	6	44	1.58
620155--620185	2	15.5	2	100	0	62	0	51	0	48	1.00
622757--622806	21	2.4	21	89	0	73	38	16	18	28	1.91
627473--627523	18	2.9	18	85	2	59	0	33	1	64	1.05
637024--637058	17	2.1	17	100	0	70	28	25	17	28	1.97
637128--637329	108	1.9	107	83	1	260	31	21	15	32	1.94
645162--645235	2	37.0	2	100	0	148	50	0	50	0	1.00
645780--645814	2	17.5	2	100	0	70	48	0	51	0	1.00
647948--647981	11	3.1	11	91	8	52	76	23	0	0	0.79
656073--656097	11	2.3	11	100	0	50	8	8	20	64	1.46
661013--661040	1	28.0	1	100	0	56	0	0	0	100	0.00
663741--663765	11	2.3	11	100	0	50	8	40	8	44	1.63
668198--668248	12	4.2	12	82	7	50	84	7	1	5	0.85
668200--668248	21	2.2	21	85	10	62	83	8	2	6	0.87
675545--675589	19	2.4	19	81	7	56	33	6	6	53	1.53
677793--677832	2	20.0	2	100	0	80	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
686130--686160	16	2.0	15	93	6	53	45	6	0	48	1.28
686329--686380	22	2.2	24	87	12	74	44	3	7	44	1.51
687177--687254	35	2.2	36	83	2	95	35	24	7	32	1.84
694737--694791	2	27.5	2	100	0	110	49	0	50	0	1.00
695080--695115	2	18.0	2	100	0	72	50	0	50	0	1.00
697509--697602	7	13.4	7	74	21	65	0	2	13	84	0.72
697515--697602	1	88.0	1	70	0	59	0	1	13	85	0.66
697515--697602	10	8.4	10	79	13	97	0	1	13	85	0.66
697517--697589	27	2.7	27	93	0	128	0	0	16	83	0.64
699206--699259	2	27.0	2	100	0	108	50	0	50	0	1.00
707676--707728	27	2.0	27	92	0	88	37	5	13	43	1.67
708003--709373	19	72.2	19	75	5	939	38	19	20	21	1.94
708351--709332	300	3.2	300	90	3	1427	37	18	21	22	1.94
716354--716384	16	1.9	16	93	0	53	67	0	19	12	1.22
722863--722903	13	3.2	13	83	13	50	82	12	2	2	0.86
727483--727534	20	2.8	18	77	11	59	25	11	21	42	1.86
731939--731963	13	1.9	13	100	0	50	20	8	0	72	1.10
735492--735535	22	2.0	22	95	0	79	38	11	9	40	1.73
736103--736141	20	1.9	20	100	0	78	30	0	23	46	1.53
736378--736403	12	2.2	12	100	0	52	42	15	0	42	1.47
761774--761804	2	15.5	2	100	0	62	0	48	0	51	1.00
766285--766335	2	25.5	2	100	0	102	49	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
767113--767157	2	22.5	2	100	0	90	0	48	0	51	1.00
787029--787061	17	1.9	17	88	11	50	6	27	12	54	1.60
796573--796625	16	3.3	16	83	0	70	20	13	16	49	1.79
808443--808568	61	2.1	61	96	0	234	50	4	7	37	1.53
812506--812555	2	25.0	2	100	0	100	50	0	50	0	1.00
846137--846163	14	1.9	14	100	0	54	29	14	29	25	1.95
849252--849292	2	20.5	2	89	0	64	51	0	43	4	1.23
852457--852491	16	2.2	16	100	0	70	22	5	5	65	1.36
853909--853950	2	21.0	2	100	0	84	50	0	50	0	1.00
856219--856545	165	2.0	165	95	1	593	27	25	14	32	1.94
859915--859959	2	22.5	2	100	0	90	48	0	0	51	1.00
878278--878314	18	2.1	18	94	0	65	54	5	18	21	1.64
880996--881038	20	2.1	20	95	0	77	20	11	27	39	1.88
887917--887951	12	2.9	12	100	0	70	51	14	17	17	1.77
889381--890153	177	4.4	176	87	2	953	23	16	26	33	1.96
889594--889633	19	2.1	19	90	0	62	22	2	37	37	1.68
889948--889987	19	2.1	19	85	0	53	22	5	35	37	1.76
890722--891152	214	2.0	214	97	0	817	37	5	13	44	1.66
891252--891497	98	2.5	99	80	7	241	39	6	10	43	1.67
891870--891915	16	3.0	15	84	12	58	30	13	28	28	1.94
892491--892611	31	3.9	31	94	0	206	28	14	7	48	1.71
899430--899493	31	2.1	31	82	5	76	10	17	39	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
902398--902434	14	2.6	14	82	0	56	37	16	18	27	1.92
903166--903226	30	2.0	30	96	0	113	22	24	27	24	2.00
903931--904039	51	2.2	51	85	3	150	33	12	20	33	1.90
905810--905943	19	6.5	20	70	16	87	38	10	11	39	1.75
905795--905943	42	3.6	41	80	4	147	38	11	12	37	1.79
905795--905943	41	3.6	42	78	9	144	38	11	12	37	1.79
913689--913727	20	1.9	20	89	0	60	33	15	10	41	1.81
919451--919712	63	4.1	63	89	5	416	17	19	14	48	1.82
932337--932415	32	2.4	32	95	2	140	26	27	18	26	1.98
932337--932441	32	3.2	32	89	1	120	23	27	20	28	1.99
960289--960332	1	44.0	1	93	0	70	95	2	2	0	0.31
984883--985020	70	1.9	72	80	2	163	31	11	15	41	1.83
985047--985554	17	29.9	17	89	2	716	23	26	12	37	1.91
1009785--1009827	2	21.5	2	95	0	77	51	0	48	0	1.00
1017182--1017222	21	2.0	21	85	0	55	34	12	12	41	1.80
1029890--1029921	16	2.0	16	93	0	55	65	12	0	21	1.25
1034667--1034701	11	3.1	11	91	4	52	0	0	14	85	0.59
1034667--1034701	12	3.0	11	91	8	52	0	0	14	85	0.59
1035503--1035557	2	27.5	2	100	0	110	0	50	0	49	1.00
1036787--1036832	2	23.0	2	100	0	92	50	0	50	0	1.00
1040758--1040787	14	2.1	14	100	0	60	33	13	13	40	1.83
1045231--1045284	21	2.6	21	78	0	63	44	14	12	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050028--1050092	32	2.0	33	90	6	105	44	9	6	40	1.61
1051159--1051183	13	1.9	13	100	0	50	44	24	0	32	1.54
1066773--1066829	2	29.0	2	96	3	107	49	0	50	0	1.00
1070026--1070103	21	3.7	21	80	10	77	37	11	8	42	1.73
1070019--1070126	43	2.5	42	76	11	110	38	9	9	42	1.69
1070078--1070161	22	3.6	22	65	21	55	40	7	9	42	1.65
1077663--1078701	166	6.3	165	84	4	1361	26	23	15	34	1.95
1089320--1089354	15	2.3	15	90	0	52	22	8	14	54	1.67
1097048--1097082	16	2.2	16	89	0	52	37	5	25	31	1.80
1098329--1098435	47	2.3	47	91	4	171	35	21	0	42	1.60
1098337--1098407	20	3.2	20	68	24	61	30	22	0	46	1.52
1102620--1103022	161	2.5	161	91	1	641	34	20	15	29	1.93
1106837--1106879	18	2.3	18	84	4	50	2	46	2	48	1.27
1110993--1111026	17	1.9	18	94	5	61	20	52	5	20	1.67
1112050--1112084	14	2.5	14	90	0	52	25	11	28	34	1.91
1113192--1113243	24	2.2	24	89	0	77	30	11	38	19	1.87
1115115--1115150	12	3.0	12	91	0	54	0	33	25	41	1.55
1130001--1130088	27	3.2	27	67	20	83	37	11	7	43	1.70
1129992--1130103	55	2.0	55	100	0	224	41	8	8	41	1.68
1131057--1131086	14	2.1	14	93	0	51	46	13	3	36	1.60
1148854--1148886	16	2.1	16	94	0	57	39	6	6	48	1.53
1149011--1149069	2	29.5	2	100	0	118	0	49	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173967--1174538	165	3.5	164	86	3	739	35	20	14	29	1.92
1173967--1174538	160	3.5	161	86	2	761	35	20	14	29	1.92
1176473--1176503	14	2.2	14	100	0	62	29	16	0	54	1.42
1184311--1184361	2	25.5	2	100	0	102	50	0	49	0	1.00
1188847--1188881	18	1.9	18	94	0	61	37	8	17	37	1.80
1191301--1191334	16	2.1	16	100	0	68	44	26	23	5	1.76
1191342--1191403	31	2.0	31	96	0	115	24	25	25	24	2.00
1192252--1192313	31	2.0	31	96	0	115	22	24	25	27	2.00
1192321--1192368	16	3.0	16	100	0	96	6	25	25	43	1.77
1195981--1196073	2	46.5	2	100	0	186	0	50	0	49	1.00

Tables:   1   2   3   4