genome.fa.s42.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  7  of  24  ( 2843 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)
935062--935153	30	3.2	28	71	17	71	28	9	11	50	1.71
936781--937055	137	2.0	136	96	0	505	29	13	14	42	1.83
937943--937972	13	2.3	13	100	0	60	30	16	13	40	1.87
940326--940491	51	3.3	51	77	1	163	28	25	13	32	1.93
940478--940549	28	2.6	28	90	0	108	23	33	19	23	1.97
940584--940659	28	2.8	27	86	9	102	21	31	21	26	1.98
940466--940706	108	2.2	109	86	4	337	26	26	14	32	1.95
940642--940759	51	2.3	51	84	8	143	30	24	11	33	1.90
940693--940877	79	2.3	79	82	1	228	28	24	13	34	1.93
942521--942559	20	2.0	20	100	0	78	25	35	5	33	1.78
944202--944248	21	2.3	21	76	23	55	42	4	19	34	1.70
944369--944394	13	2.0	13	100	0	52	38	15	15	30	1.88
946458--946488	15	2.1	15	93	0	53	12	22	16	48	1.80
948293--948337	21	2.1	21	84	8	56	22	20	4	53	1.63
952002--952060	28	2.1	28	90	0	91	49	1	13	35	1.52
952485--953456	156	6.3	156	78	5	814	27	14	17	40	1.88
952588--953408	155	5.3	155	78	6	689	26	14	17	41	1.88
952657--953425	309	2.5	312	80	2	870	27	14	17	40	1.88
955659--955880	107	2.1	107	82	3	268	46	18	11	23	1.81
956868--956942	20	3.8	20	80	0	87	36	14	9	40	1.78
958604--958632	10	2.7	11	94	5	51	34	13	0	51	1.42
960235--960304	22	3.3	21	90	5	115	28	12	8	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962664--963242	79	7.3	79	77	7	489	28	21	12	37	1.90
962667--963240	237	2.4	235	80	2	603	28	21	12	37	1.90
971362--971576	96	2.2	97	84	1	288	28	27	12	32	1.92
971351--971598	96	2.6	96	71	11	220	30	26	10	32	1.90
977669--977827	27	5.8	27	90	1	219	24	30	15	30	1.95
977665--978296	28	22.1	28	77	10	367	29	28	16	25	1.96
977844--978291	84	5.2	84	83	5	416	31	27	17	23	1.97
978237--978333	34	3.0	31	76	8	95	27	25	17	28	1.98
979494--979540	17	2.9	16	84	9	60	76	0	21	2	0.89
979494--979538	23	1.9	24	86	4	65	75	0	22	2	0.91
981136--981342	96	2.1	97	85	1	281	28	28	11	31	1.92
981163--981371	96	2.2	94	73	13	212	30	25	10	33	1.89
982652--982725	32	2.4	31	86	6	96	22	28	9	39	1.85
983112--983263	55	2.6	58	86	7	193	25	25	20	29	1.99
982717--983590	62	14.2	61	77	10	681	24	22	18	34	1.96
983411--983595	63	3.0	63	81	6	216	27	21	17	34	1.95
983982--984050	20	3.8	20	69	25	71	34	11	11	42	1.78
984004--984064	13	5.2	13	72	22	53	31	11	14	42	1.81
983982--984082	53	1.9	53	83	4	132	32	12	12	41	1.82
983984--984063	33	2.4	33	100	0	160	32	12	12	42	1.80
991041--991090	20	2.6	18	84	15	57	84	16	0	0	0.63
992367--992699	122	2.7	122	86	7	446	24	32	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992367--992631	30	8.7	30	89	4	397	24	33	14	27	1.95
992368--992731	152	2.4	151	84	5	455	23	32	14	29	1.94
992619--993512	60	14.0	58	76	16	542	19	31	12	36	1.89
992527--993527	33	31.3	33	78	11	783	19	32	13	35	1.90
993540--993957	49	8.9	48	75	12	239	25	25	19	30	1.98
993647--993759	39	2.9	39	87	0	172	25	28	23	23	1.99
993725--993962	101	2.4	98	83	2	287	24	24	18	32	1.97
993725--994015	101	2.9	99	78	11	245	23	25	17	32	1.97
993736--994062	150	2.2	148	80	4	345	23	25	17	33	1.96
996644--997223	62	9.5	60	78	8	503	25	21	19	33	1.97
997312--997652	61	5.6	60	80	2	353	25	21	19	33	1.97
997571--997744	86	2.0	86	82	0	213	26	25	19	28	1.99
997510--997806	148	2.0	147	82	1	362	25	24	18	31	1.98
997692--998036	122	2.8	123	82	6	414	26	21	17	33	1.96
997692--998043	183	1.9	184	84	2	476	26	21	18	33	1.96
997692--998036	61	5.6	61	81	3	363	26	21	17	33	1.96
1001422--1001810	79	4.9	78	78	4	404	29	23	10	36	1.88
1001664--1001939	130	2.1	130	81	4	315	30	21	11	36	1.89
1001744--1001864	51	2.4	51	84	5	156	28	22	11	37	1.89
1001811--1001967	79	2.0	79	82	7	196	29	19	14	37	1.90
1003475--1003512	16	2.5	15	91	8	60	0	18	0	81	0.69
1003475--1003517	15	2.8	16	82	10	54	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003486--1003534	24	2.0	24	84	7	64	2	18	2	77	0.96
1003471--1003536	26	2.5	26	80	7	71	3	16	1	78	0.95
1004551--1004610	30	2.0	30	93	0	102	30	3	11	55	1.52
1005143--1005173	15	2.1	15	94	5	55	25	6	16	51	1.68
1005344--1005449	53	2.0	53	88	0	158	33	4	15	46	1.66
1005416--1005495	22	3.6	22	78	6	81	40	11	8	40	1.72
1005515--1005588	21	3.5	21	78	10	71	20	5	24	50	1.69
1005730--1005787	21	2.8	20	82	15	64	22	6	25	44	1.77
1005723--1005796	21	3.6	19	74	20	60	22	5	27	44	1.74
1005934--1005960	2	13.5	2	100	0	54	51	0	0	48	1.00
1006377--1006419	21	2.0	23	81	9	54	44	9	11	34	1.73
1008670--1008746	20	3.8	20	83	6	102	31	14	12	41	1.83
1016620--1016729	54	2.0	54	96	3	204	27	41	3	27	1.72
1022763--1022817	13	4.3	12	84	11	65	83	10	3	1	0.84
1022755--1022806	17	3.1	16	83	10	59	84	11	3	0	0.74
1022755--1022817	24	2.6	24	80	7	65	82	11	4	1	0.88
1022763--1022817	12	4.3	13	80	15	53	83	10	3	1	0.84
1024073--1024351	28	9.6	29	80	5	280	28	28	16	26	1.97
1024073--1024351	57	4.8	57	81	5	276	28	28	16	26	1.97
1024078--1024351	85	3.2	86	82	4	282	29	28	16	25	1.97
1025235--1025311	20	3.8	20	84	6	111	29	18	12	38	1.88
1027480--1027716	97	2.4	97	94	0	402	29	30	12	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031967--1032005	15	2.8	13	78	14	51	30	5	2	61	1.31
1033912--1033986	20	3.8	20	78	0	87	34	13	12	40	1.81
1033912--1033989	40	2.0	39	87	2	111	34	12	12	39	1.82
1049281--1049927	59	10.8	57	77	13	386	29	34	16	19	1.94
1049281--1049677	117	3.4	116	81	9	425	28	33	16	21	1.95
1049281--1049832	29	18.6	29	77	13	418	29	34	16	20	1.94
1049468--1050104	31	20.7	32	82	10	628	29	35	17	16	1.92
1050796--1050847	12	4.7	10	80	17	50	84	11	3	0	0.74
1050804--1050858	12	4.5	11	80	15	56	83	10	3	1	0.84
1050804--1050835	13	2.5	13	89	0	55	90	9	0	0	0.45
1050796--1050858	23	2.6	25	83	14	78	82	11	4	1	0.88
1052117--1052395	28	9.6	29	80	5	280	28	28	16	26	1.97
1052117--1052395	57	4.8	57	81	5	276	28	28	16	26	1.97
1052122--1052395	85	3.2	86	82	4	282	29	28	16	25	1.97
1053277--1053353	20	3.8	20	84	6	111	29	18	12	38	1.88
1055521--1055757	97	2.4	97	94	0	402	29	30	12	27	1.93
1058652--1058726	20	3.8	20	78	0	87	34	13	12	40	1.81
1058652--1058729	40	2.0	39	87	2	111	34	12	12	39	1.82
1061054--1061128	20	3.8	20	78	0	87	34	13	12	40	1.81
1061054--1061131	40	2.0	39	87	2	111	34	12	12	39	1.82
1075135--1075180	13	3.6	12	88	11	65	84	10	2	2	0.79
1076403--1077294	32	29.2	32	89	5	966	30	33	17	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077822--1077896	20	3.8	20	78	0	87	34	13	12	40	1.81
1077822--1077899	40	2.0	39	87	2	111	34	12	12	39	1.82
1081913--1081950	13	2.9	13	96	0	67	31	15	18	34	1.92
1082019--1082065	20	2.3	20	72	13	51	34	12	19	34	1.89
1082421--1082487	37	1.9	35	88	11	102	32	13	25	28	1.93
1085635--1085659	13	1.9	13	100	0	50	36	16	16	32	1.90
1086924--1087038	56	2.1	56	100	0	230	29	12	29	28	1.93
1087586--1087623	13	2.9	13	96	0	67	31	15	18	34	1.92
1087692--1087738	20	2.3	20	72	13	51	34	12	19	34	1.89
1088094--1088160	37	1.9	35	88	11	102	32	13	25	28	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24