oyster.v9_M.fa.s3.2.7.7.80.10.50.500.3.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: scaffold150
Parameters: 2 7 7 80 10 50 500
Length:  1854615

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 642 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)
759758--760279	167	3.2	165	84	8	677	27	25	15	30	1.96
759758--760241	170	3.0	159	83	10	604	28	27	14	29	1.95
760619--761702	166	6.5	166	87	1	1482	26	24	15	34	1.95
762931--762976	8	6.4	8	76	23	57	36	26	36	0	1.57
762934--762975	4	10.8	4	79	5	50	33	26	40	0	1.56
762942--762969	12	2.3	12	100	0	56	32	25	42	0	1.55
767281--767328	4	12.0	4	81	0	60	41	25	33	0	1.55
767284--767328	8	5.6	8	94	0	81	40	24	35	0	1.56
791370--791519	75	2.0	75	100	0	300	24	6	28	41	1.80
799113--799152	21	1.9	21	89	0	62	30	25	5	40	1.77
803356--803380	13	1.9	13	100	0	50	16	16	28	40	1.89
806091--806165	2	37.5	2	97	0	141	0	49	1	49	1.09
807894--808478	168	3.5	169	90	3	837	27	23	13	35	1.93
809033--809069	18	2.1	18	89	0	56	43	24	13	18	1.86
810218--810252	17	2.1	16	89	5	52	40	11	11	37	1.77
810439--810529	30	3.0	30	95	0	164	24	26	25	24	2.00
813125--813574	162	2.8	162	83	7	540	39	14	16	29	1.88
815589--816082	186	2.7	180	89	3	731	36	17	14	30	1.90
817483--817614	20	7.0	20	70	13	75	46	12	3	38	1.57
831425--831452	12	2.3	12	100	0	56	46	14	0	39	1.44
836294--836615	160	2.0	159	92	0	527	36	17	12	33	1.87
837602--837626	13	1.9	13	100	0	50	44	8	16	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
839820--839855	16	2.2	16	95	0	63	22	13	27	36	1.92
840568--840617	16	3.1	16	85	2	64	36	12	30	22	1.90
840665--840714	15	3.1	15	85	8	55	28	22	28	22	1.99
843272--843306	2	17.5	2	93	0	61	48	0	2	48	1.16
850951--850985	2	17.5	2	100	0	70	48	0	51	0	1.00
856688--856727	2	20.5	2	94	5	73	47	0	52	0	1.00
865028--865590	146	3.9	146	86	3	753	31	19	20	28	1.97
892832--892926	31	3.1	31	89	0	154	21	22	22	34	1.97
901458--901534	22	3.5	22	81	10	86	35	15	19	29	1.93
905325--905394	35	2.0	35	97	0	131	30	5	20	44	1.74
907605--907641	8	4.6	8	93	0	65	0	35	24	40	1.55
907605--907644	4	10.0	4	83	0	53	0	32	25	42	1.55
911668--911712	10	4.5	10	91	0	63	33	20	17	28	1.95
924041--924108	2	34.0	2	100	0	136	0	50	0	50	1.00
924533--924557	13	1.9	13	100	0	50	40	36	16	8	1.77
926533--927269	326	2.3	326	93	0	1244	29	24	19	26	1.98
927843--927867	13	1.9	13	100	0	50	8	16	36	40	1.77
931946--931990	14	3.1	14	84	12	63	46	6	31	15	1.72
931943--931991	16	3.2	16	85	11	75	44	6	30	18	1.74
932904--932939	12	3.0	12	100	0	72	25	25	8	41	1.83
933068--933157	29	3.1	29	93	6	164	30	21	23	25	1.99
933713--933827	21	5.5	21	91	4	160	24	15	19	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
933912--933961	21	2.4	21	86	0	64	42	18	14	26	1.87
934009--934145	21	6.6	21	86	2	188	29	13	18	39	1.88
934009--934191	63	2.9	62	83	6	201	28	14	18	37	1.91
934024--934188	42	4.0	42	84	3	136	29	13	18	38	1.89
934270--934361	21	4.4	21	87	5	141	36	20	16	26	1.93
934420--934513	21	4.5	21	73	5	73	27	15	14	41	1.87
934604--934688	21	4.0	21	76	0	89	42	16	15	25	1.87
934604--934685	42	2.0	42	90	0	128	41	15	15	26	1.88
934740--934878	21	6.7	21	79	1	145	28	15	19	36	1.92
934975--935046	21	3.4	21	85	11	103	38	18	16	26	1.91
934955--935046	42	2.2	42	88	7	134	41	17	17	23	1.90
938993--939032	2	20.0	2	100	0	80	50	0	50	0	1.00
955115--955176	32	1.9	32	96	0	115	37	6	19	37	1.78
955600--955654	2	27.5	2	100	0	110	0	49	0	50	1.00
957779--957803	7	3.6	7	100	0	50	12	0	0	88	0.53
968119--968294	59	3.1	59	84	11	258	20	18	15	45	1.85
968125--968292	53	3.1	53	89	6	239	20	19	16	43	1.88
972612--972674	29	2.2	29	100	0	126	38	25	22	14	1.92
973661--973702	14	3.0	14	100	0	84	21	14	21	42	1.88
979853--979918	16	4.1	16	92	0	105	0	31	25	42	1.55
979852--979911	4	15.0	4	92	0	93	0	30	25	45	1.54
979942--981071	167	6.8	167	92	2	1781	30	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979942--981071	499	2.3	500	91	2	1824	30	17	15	36	1.91
982557--982594	18	2.1	18	90	0	58	50	13	7	28	1.69
985695--985738	3	15.0	3	83	4	54	31	34	2	31	1.70
986985--987037	27	2.0	27	84	0	70	32	18	18	30	1.96
991385--991457	35	2.1	35	100	0	146	23	19	34	23	1.97
991338--991508	86	2.0	86	98	0	333	21	19	32	26	1.97
996705--996737	16	2.1	16	88	11	50	51	0	9	39	1.34
998018--998084	7	9.6	7	83	0	89	35	14	22	26	1.93
1000482--1000533	2	26.0	2	100	0	104	50	0	50	0	1.00
1001343--1001409	7	9.6	7	83	0	89	26	22	14	35	1.93
1001343--1001409	21	3.2	21	86	0	98	26	22	14	35	1.93
1008632--1009133	180	2.8	180	96	1	925	30	14	18	36	1.91
1027614--1027644	16	1.9	16	93	0	53	16	41	0	41	1.48
1044295--1044335	19	2.2	19	90	0	64	48	7	14	29	1.71
1055934--1056251	75	4.2	75	98	0	609	28	13	28	29	1.95
1064527--1064551	13	1.9	13	100	0	50	24	24	16	36	1.94
1065930--1065978	17	3.1	16	80	11	55	26	20	10	42	1.84
1066978--1067096	30	4.0	30	91	0	193	15	44	15	24	1.85
1069846--1069877	15	2.1	15	94	0	55	0	43	0	56	0.99
1081633--1082110	16	29.6	16	77	5	381	15	1	49	33	1.52
1081616--1082107	32	15.2	32	83	4	443	16	1	49	33	1.52
1081819--1081869	23	2.2	23	82	0	66	21	0	50	27	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081786--1081901	55	2.1	55	90	0	178	18	0	50	31	1.47
1082462--1082542	4	20.2	4	100	0	162	50	0	24	24	1.49
1084941--1084981	2	20.5	2	94	0	73	0	46	0	53	1.00
1088134--1088172	2	19.5	2	100	0	78	48	0	51	0	1.00
1089013--1089050	2	19.0	2	100	0	76	50	0	50	0	1.00
1094956--1094982	2	13.5	2	100	0	54	0	48	0	51	1.00
1108153--1108236	5	17.8	5	79	16	67	0	1	15	83	0.71
1108151--1108235	20	3.9	22	82	17	97	0	1	15	83	0.71
1108170--1108225	1	56.0	1	78	0	58	0	0	10	89	0.49
1108153--1108236	28	3.0	28	85	5	107	0	1	15	83	0.71
1116238--1116572	40	8.0	40	74	11	233	31	13	18	36	1.89
1120261--1120300	11	3.3	12	86	10	55	10	0	10	80	0.92
1121914--1122351	224	1.9	227	86	2	632	29	16	13	40	1.87
1121819--1122526	389	1.8	386	88	3	985	29	16	14	39	1.89
1122122--1122632	165	3.1	166	86	2	726	28	17	14	40	1.88
1123014--1124254	146	8.5	145	88	4	1748	29	22	18	29	1.97
1123014--1124239	292	4.2	292	95	1	2093	29	22	17	30	1.97
1130001--1130129	60	2.1	60	87	2	179	34	15	20	29	1.93
1130188--1130221	13	2.6	13	90	0	50	35	11	20	32	1.89
1130275--1130315	20	2.0	20	90	0	64	31	17	14	36	1.90
1142965--1143014	24	2.1	24	88	0	73	2	4	12	82	0.90
1143124--1143156	17	1.9	17	100	0	66	21	48	6	24	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146580--1147322	177	4.2	177	91	1	1014	23	17	26	32	1.96
1147473--1147762	157	1.8	157	88	4	442	24	17	24	33	1.96
1148140--1148175	15	2.4	15	90	0	54	36	5	13	44	1.68
1148141--1148305	50	3.3	50	70	6	147	35	7	12	45	1.69
1148388--1148466	15	5.3	15	75	14	74	49	12	2	35	1.54
1148514--1148581	20	3.4	20	83	4	75	39	2	8	48	1.49
1150871--1150908	2	19.0	2	94	0	67	47	0	2	50	1.15
1152061--1152259	25	8.0	25	93	2	346	41	29	9	20	1.83
1155212--1155610	43	9.3	43	94	0	690	32	19	22	25	1.97
1155519--1155715	105	1.9	105	92	0	331	32	20	18	28	1.96

Tables:   1   2   3   4   5   6