oyster.v9_M.fa.s40.2.7.7.80.10.50.500.3.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: scaffold425
Parameters: 2 7 7 80 10 50 500
Length:  1118264

Tables:   1   2   3   

This is table  3  of  3  ( 355 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)
837183--837327	47	3.1	47	96	2	274	20	17	20	40	1.91
838511--838750	47	5.1	47	99	0	471	20	18	20	39	1.92
842860--842909	21	2.4	22	80	10	68	10	6	12	72	1.28
846738--846780	18	2.4	18	76	0	50	27	23	16	32	1.96
853098--853139	2	21.0	2	100	0	84	0	50	0	50	1.00
859246--859383	21	6.6	21	82	6	172	33	36	15	14	1.89
859246--859386	63	2.2	63	92	0	228	33	36	16	14	1.89
859581--859624	18	2.4	18	100	0	88	47	36	11	4	1.60
859567--859709	15	9.5	15	76	8	94	48	34	9	7	1.65
859598--859711	30	3.9	30	74	6	117	47	34	10	7	1.67
859603--859691	27	3.2	27	79	4	97	47	34	10	7	1.66
859672--859734	18	3.5	18	76	8	65	53	33	7	4	1.51
865041--865081	20	2.0	20	90	0	64	24	9	26	39	1.86
867597--867704	21	5.4	21	84	10	147	12	2	32	52	1.52
867583--867671	39	2.3	39	88	0	133	10	5	32	51	1.59
867603--867704	39	2.6	40	86	9	131	10	2	32	53	1.50
867604--867706	18	5.4	18	81	6	98	10	2	33	52	1.51
867775--867851	21	3.7	21	91	0	127	7	1	36	54	1.38
868015--868055	22	1.9	22	85	5	57	41	7	9	41	1.66
868623--868684	2	31.0	2	100	0	124	0	50	0	50	1.00
869683--869777	34	2.8	34	95	0	163	22	23	15	38	1.92
886418--886451	17	2.0	17	88	0	50	52	5	5	35	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
891755--891792	2	19.0	2	100	0	76	50	0	50	0	1.00
892388--892427	2	20.0	2	100	0	80	50	0	50	0	1.00
893018--893060	2	21.5	2	100	0	86	51	0	48	0	1.00
893746--893845	25	3.7	26	73	18	96	17	8	5	70	1.30
893768--893861	27	3.4	27	68	18	84	21	8	3	67	1.32
893739--893860	57	2.1	57	96	0	226	19	9	4	67	1.35
895812--895845	18	1.9	17	93	0	50	44	23	0	32	1.54
906620--906666	4	11.8	4	81	0	58	0	40	25	34	1.56
906621--906666	8	5.8	8	89	0	65	0	39	26	34	1.57
906629--906666	12	3.2	12	100	0	76	0	39	26	34	1.57
906752--907132	166	2.3	166	97	0	717	32	16	26	24	1.96
915509--915544	4	9.0	4	93	0	63	0	27	25	47	1.52
925893--925926	12	2.6	13	90	9	52	29	0	8	61	1.26
933097--933451	31	11.6	29	80	8	327	32	8	28	30	1.87
933105--933500	62	6.5	62	79	5	389	32	8	28	31	1.86
936534--936567	16	2.1	16	100	0	68	47	0	20	32	1.51
939553--939596	4	11.0	4	80	9	54	47	25	27	0	1.52
940353--940428	25	3.0	25	98	0	143	46	19	14	19	1.84
942183--942271	21	4.3	21	94	1	137	31	21	4	42	1.73
942192--942269	21	3.8	21	96	1	140	29	23	5	42	1.75
942246--942335	43	2.1	42	85	6	119	36	14	11	37	1.82
942318--942411	21	4.2	21	83	12	125	43	5	22	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942687--942720	17	2.0	17	94	0	59	26	44	5	23	1.76
942943--943011	21	3.3	21	87	0	102	34	17	7	40	1.77
942988--943235	42	6.0	42	71	6	148	34	12	12	41	1.80
943059--943205	21	7.1	21	84	7	149	31	14	11	42	1.81
943159--943212	21	2.6	21	90	0	90	29	22	3	44	1.70
943210--943282	20	3.6	20	86	1	101	43	5	17	32	1.72
944298--944672	32	11.8	32	71	12	129	26	17	20	34	1.95
944287--944684	64	6.3	64	75	9	296	26	17	20	34	1.95
944295--944614	96	3.4	96	87	4	400	26	18	20	34	1.95
947941--947975	1	35.0	1	100	0	70	0	100	0	0	0.00
961222--961275	2	27.0	2	96	0	99	51	0	48	0	1.00
970285--970324	20	2.0	20	85	0	53	7	0	10	82	0.84
973108--973187	39	2.1	39	97	0	151	31	13	30	25	1.94
974874--974927	24	2.2	25	83	3	74	40	9	14	35	1.78
984723--984779	18	3.1	18	80	14	62	52	8	1	36	1.43
984989--985137	15	9.4	15	71	18	97	46	12	4	36	1.61
985000--985182	50	3.8	49	76	13	175	46	12	4	36	1.62
985094--985128	18	1.9	18	94	0	61	51	8	0	40	1.33
984989--985216	98	2.4	98	87	7	317	46	11	5	36	1.63
985053--985199	15	9.3	15	71	15	73	44	12	4	37	1.64
985175--985241	32	2.1	32	82	0	80	46	7	8	37	1.64
985327--985380	28	1.9	28	85	14	76	51	16	1	29	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985442--985494	20	2.6	20	85	5	72	39	15	3	41	1.65
986151--986845	177	3.9	177	88	3	934	33	25	16	24	1.96
986619--986658	19	2.1	19	85	0	53	40	37	2	20	1.66
986164--986937	177	4.3	172	85	5	696	33	25	17	24	1.96
986286--986949	354	1.9	352	84	4	906	33	25	16	24	1.96
986983--987020	6	6.3	6	88	11	60	18	50	31	0	1.47
990894--991031	50	2.8	50	96	1	260	24	19	23	31	1.98
991517--991557	14	3.0	13	89	7	55	48	17	17	17	1.81
993225--993255	15	2.1	15	100	0	62	35	12	6	45	1.68
999893--999938	2	23.0	2	100	0	92	50	0	50	0	1.00
1002981--1003015	17	2.1	16	89	10	52	45	2	0	51	1.16
1013114--1013310	33	6.0	33	86	1	263	38	17	13	30	1.88
1013132--1013311	66	2.8	66	92	1	292	38	16	14	30	1.89
1013114--1013304	99	1.9	99	89	0	292	39	16	13	30	1.87
1013766--1013826	18	3.2	18	80	13	68	8	34	0	57	1.29
1013769--1013820	21	2.3	24	80	19	83	7	34	0	57	1.27
1014091--1014132	12	3.5	12	75	12	50	2	28	4	64	1.26
1019295--1019376	24	3.2	26	62	13	62	46	9	7	36	1.65
1019280--1019383	50	2.1	50	98	0	199	46	8	8	36	1.66
1024075--1024247	58	3.1	58	65	17	166	43	16	15	24	1.86
1024024--1024269	109	2.3	109	100	0	492	44	15	15	24	1.85
1041842--1041878	2	18.5	2	100	0	74	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045153--1045302	51	2.9	51	97	2	275	4	8	43	44	1.54
1045153--1045302	17	8.8	17	87	5	223	4	8	43	44	1.54
1056737--1056810	2	37.0	2	100	0	148	50	0	50	0	1.00
1063782--1063811	2	15.0	2	100	0	60	50	0	50	0	1.00
1064827--1064853	2	13.5	2	100	0	54	0	48	0	51	1.00
1064868--1064917	2	25.0	2	100	0	100	0	50	0	50	1.00
1068968--1069855	44	20.4	44	83	3	1145	23	11	24	40	1.88
1068968--1070109	132	8.8	132	82	6	1390	23	11	24	40	1.88
1069826--1069885	30	2.0	30	86	0	84	21	15	30	33	1.94
1069761--1069973	112	1.9	114	86	5	304	22	13	25	39	1.90
1069856--1070109	44	5.8	44	87	2	343	22	12	24	40	1.88
1069656--1070060	200	2.0	204	92	2	674	22	12	25	39	1.89
1069856--1070109	87	2.9	88	85	4	345	22	12	24	40	1.88
1069856--1070109	131	1.9	132	85	4	352	22	12	24	40	1.88
1071094--1071157	2	32.0	2	96	0	119	0	48	0	51	1.00
1074786--1074824	10	4.1	10	83	9	55	15	10	15	58	1.62
1075283--1075570	47	6.1	47	98	0	558	55	18	19	6	1.63
1077593--1077627	17	2.1	17	88	0	52	45	14	22	17	1.84
1077685--1077714	12	2.5	12	94	0	51	50	3	0	46	1.18
1078091--1078181	30	3.0	30	95	0	155	25	25	25	24	2.00
1078105--1078182	15	5.2	15	64	11	52	25	25	25	23	2.00
1084073--1084113	21	1.9	22	95	5	75	29	12	56	2	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086575--1086630	2	28.0	2	100	0	112	0	50	0	50	1.00
1103045--1103101	28	2.0	28	82	0	69	33	15	14	36	1.88
1105157--1105511	178	2.0	177	100	0	701	22	24	18	33	1.96
1114176--1114207	2	16.0	2	100	0	64	50	0	50	0	1.00
1116594--1116648	2	27.5	2	100	0	110	0	49	0	50	1.00

Tables:   1   2   3

The End!