oyster.v9_M.fa.s10.2.7.7.80.10.50.500.3.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: scaffold77
Parameters: 2 7 7 80 10 50 500
Length:  1619719

Tables:   1   2   3   4   

This is table  3  of  4  ( 471 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)
822067--823292	433	2.8	435	92	2	2005	31	17	16	35	1.91
824003--824977	438	2.2	435	86	3	1377	29	17	15	37	1.91
826347--826512	60	2.7	61	87	5	228	45	15	21	18	1.86
828516--828704	51	3.6	51	86	4	243	23	17	23	35	1.95
830797--830822	2	13.0	2	100	0	52	50	0	0	50	1.00
831185--831238	2	27.0	2	100	0	108	50	0	50	0	1.00
831413--831463	24	2.1	24	100	0	102	31	11	7	49	1.68
837760--837793	2	17.0	2	93	0	59	0	47	0	52	1.00
843196--843287	21	4.4	21	86	5	123	23	17	19	39	1.92
843196--843287	42	2.2	42	94	0	157	23	17	19	39	1.92
843366--843523	21	7.6	21	76	7	151	39	18	15	27	1.90
843421--843523	41	2.5	42	81	7	120	40	17	13	28	1.87
843575--843701	21	6.0	21	81	0	146	28	13	16	41	1.86
843578--843701	42	3.0	42	93	0	203	29	13	16	41	1.86
843575--843695	63	1.9	63	84	0	161	28	12	16	42	1.85
843795--843888	42	2.2	42	86	0	125	42	15	15	25	1.87
843795--843889	21	4.5	21	78	10	104	42	15	16	25	1.88
846400--846439	21	1.9	21	89	0	62	12	5	7	75	1.18
855858--855883	13	2.0	13	100	0	52	15	15	23	46	1.83
859417--860482	182	5.9	182	90	2	1601	24	26	27	21	1.99
862972--862999	2	14.0	2	100	0	56	0	50	0	50	1.00
872634--873500	182	4.8	181	82	4	983	23	26	25	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
872648--873500	366	2.3	363	83	4	1054	23	26	25	24	2.00
878019--878053	2	17.5	2	100	0	70	51	0	48	0	1.00
878113--878141	2	14.5	2	100	0	58	51	0	48	0	1.00
879244--879289	22	2.1	21	92	4	74	0	17	41	41	1.49
879237--879292	22	2.4	24	79	11	71	0	17	39	42	1.50
880455--880991	166	3.2	164	82	4	603	34	14	21	29	1.93
894202--894226	12	2.1	12	100	0	50	32	16	16	36	1.90
904418--904756	169	2.0	169	99	0	669	37	15	12	34	1.84
916346--916372	13	2.1	13	100	0	54	33	7	22	37	1.82
917348--917376	15	1.9	15	100	0	58	34	13	20	31	1.92
920718--920765	2	24.0	2	100	0	96	50	0	50	0	1.00
923942--923993	2	26.0	2	96	0	95	0	48	0	51	1.00
932416--932488	2	36.5	2	100	0	146	0	49	0	50	1.00
936668--937657	166	6.1	165	80	6	962	33	15	22	29	1.94
938011--938049	3	13.0	3	94	0	69	35	0	30	33	1.58
950452--950529	4	19.5	4	97	0	147	25	23	0	51	1.49
953572--953601	14	2.1	14	100	0	60	26	13	23	36	1.92
954622--954700	2	39.5	2	97	0	149	49	0	49	1	1.09
970518--970584	33	2.1	32	82	2	80	35	14	16	32	1.90
979681--979711	16	1.9	16	93	0	53	61	0	25	12	1.32
985036--985085	3	16.7	3	100	0	100	32	0	34	34	1.58
999157--999419	29	9.1	29	90	0	400	35	39	12	12	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000622--1000659	12	3.2	12	84	0	58	47	13	7	31	1.71
1004113--1004155	22	2.0	22	85	0	59	25	18	9	46	1.79
1004001--1004281	139	2.0	139	99	0	553	25	20	15	37	1.93
1014400--1014720	29	11.1	29	89	0	471	35	39	12	12	1.81
1015923--1015960	12	3.2	12	84	0	58	47	13	7	31	1.71
1019414--1019456	22	2.0	22	85	0	59	25	18	9	46	1.79
1019302--1019582	139	2.0	139	99	0	553	25	20	15	37	1.93
1022334--1022391	2	29.0	2	100	0	116	0	50	0	50	1.00
1039265--1039314	2	25.0	2	91	0	82	0	46	0	54	1.00
1039364--1039391	1	28.0	1	100	0	56	0	0	0	100	0.00
1042164--1042204	3	13.7	3	100	0	82	34	34	0	31	1.58
1042205--1042265	3	20.3	3	74	0	50	36	0	31	32	1.58
1042211--1042255	18	2.5	18	88	0	63	40	0	31	28	1.57
1042204--1042255	21	2.5	21	83	0	68	40	0	30	28	1.57
1047504--1047544	20	2.0	20	100	0	82	29	31	19	19	1.96
1050511--1050538	14	2.0	14	100	0	56	42	14	0	42	1.45
1053975--1054518	180	3.0	180	94	1	943	29	15	18	36	1.92
1055775--1056540	24	30.3	24	78	14	685	38	15	5	40	1.71
1055822--1056540	78	9.1	77	81	9	640	38	15	5	40	1.71
1055918--1056526	54	11.9	55	75	12	280	38	15	5	40	1.70
1055798--1056509	102	7.0	101	82	11	778	38	15	5	40	1.71
1060936--1061158	37	6.0	37	80	6	272	13	14	22	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060943--1061158	111	1.9	111	86	5	303	13	13	22	50	1.76
1061122--1061188	26	2.6	26	90	0	107	10	14	23	50	1.74
1061126--1061210	26	3.3	26	85	3	82	10	11	24	52	1.69
1063123--1063216	49	1.9	49	87	8	138	40	7	10	41	1.68
1067771--1068099	165	2.0	165	95	0	595	36	18	16	28	1.92
1070576--1070609	15	2.3	15	94	0	59	26	8	29	35	1.87
1072217--1072262	2	23.5	2	95	4	85	0	47	0	52	1.00
1075524--1075580	2	28.5	2	100	0	114	0	49	0	50	1.00
1079997--1080041	2	22.5	2	100	0	90	0	48	0	51	1.00
1087379--1087444	22	3.0	22	88	0	105	40	7	15	36	1.75
1092529--1092581	8	6.6	8	91	0	88	0	37	24	37	1.56
1092529--1092584	4	14.0	4	80	0	58	0	35	25	39	1.56
1092535--1092584	12	4.2	12	89	0	73	0	34	26	40	1.56
1109183--1109213	12	2.6	12	94	0	53	19	0	54	25	1.44
1109977--1110056	28	2.9	28	86	0	115	38	22	13	25	1.91
1112196--1112375	21	8.6	21	87	3	238	33	21	10	35	1.87
1112196--1112484	42	6.7	42	77	8	258	32	18	10	38	1.85
1112192--1112375	63	2.9	63	87	2	264	33	20	10	34	1.88
1112392--1112483	21	4.4	21	77	10	98	29	15	8	46	1.75
1112392--1112526	63	2.1	63	80	2	146	27	14	9	48	1.75
1123187--1123249	22	2.8	22	87	2	81	28	11	14	46	1.78
1124738--1124767	15	2.0	15	93	0	51	20	16	13	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127214--1127283	4	17.8	4	83	2	70	0	32	27	40	1.57
1127435--1128301	166	5.2	166	91	1	1242	32	16	25	25	1.96
1127435--1128301	333	2.6	332	88	3	1235	32	16	25	25	1.96
1129766--1129794	2	14.5	2	100	0	58	0	48	0	51	1.00
1137014--1137041	14	2.0	14	100	0	56	35	7	14	42	1.73
1139476--1139515	21	1.9	21	89	0	62	27	12	17	42	1.85
1139668--1139705	20	1.9	20	88	0	58	47	13	15	23	1.81
1139690--1139743	21	2.6	21	82	5	65	31	18	14	35	1.91
1166211--1166266	28	2.0	28	86	13	80	58	10	14	16	1.62
1167337--1167392	28	2.0	28	86	13	80	58	10	14	16	1.62
1167508--1167583	28	2.7	28	95	0	134	31	10	14	43	1.79
1167747--1167790	22	2.0	22	86	0	61	40	20	11	27	1.86
1169380--1169450	34	2.1	34	86	0	97	32	22	9	35	1.87
1175434--1175473	21	1.9	20	85	10	53	50	5	20	25	1.68
1184956--1184980	13	1.9	13	100	0	50	12	8	32	48	1.69
1185515--1185962	164	2.7	165	77	4	445	31	19	18	30	1.96
1186570--1187200	166	3.8	166	87	4	900	27	25	14	32	1.95
1189326--1190206	146	6.0	144	88	3	1146	29	22	18	29	1.97
1189326--1190206	293	3.0	291	88	3	1256	29	22	18	29	1.97
1193404--1193536	62	2.1	62	91	0	221	28	12	15	42	1.84
1221767--1221988	31	7.2	31	92	0	354	43	24	17	14	1.86
1222361--1222671	31	10.1	31	78	0	291	47	22	12	16	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222411--1222671	62	4.2	62	84	1	335	47	24	13	14	1.80
1226260--1226289	15	2.0	15	93	0	51	13	16	30	40	1.87
1227828--1227868	2	20.5	2	100	0	82	0	48	0	51	1.00
1229135--1229190	29	1.9	29	100	0	112	14	37	28	19	1.91
1230928--1230960	11	3.0	11	95	0	57	36	0	24	39	1.56
1232244--1232835	71	8.4	70	85	2	659	14	25	21	38	1.91
1232244--1232837	24	25.1	24	84	2	668	13	25	21	38	1.91
1234213--1234254	22	1.9	22	85	9	59	57	9	14	19	1.64
1234665--1234759	29	3.3	29	98	0	181	32	10	14	42	1.80
1242580--1242876	159	1.9	158	100	0	585	37	15	18	27	1.92

Tables:   1   2   3   4