genome.fa.s60.2.7.7.80.10.50.1000.7.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

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

This is table  7  of  21  ( 2419 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)
890189--890214	12	2.2	12	100	0	52	84	0	7	7	0.77
892676--892701	12	2.2	12	100	0	52	15	26	7	50	1.71
894525--894570	23	1.9	25	83	16	62	32	2	0	65	1.05
894618--894666	14	3.8	14	84	10	61	63	0	2	34	1.06
897530--897566	17	2.2	17	95	0	65	35	5	0	59	1.20
900472--900545	23	3.3	23	70	22	66	58	0	1	40	1.07
900457--900562	45	2.3	46	75	12	108	54	0	0	43	1.13
902846--902891	23	2.0	23	100	0	92	21	0	26	52	1.47
904942--904992	2	25.5	2	100	0	102	50	0	0	49	1.00
906878--906923	2	23.0	2	100	0	92	0	50	0	50	1.00
907733--907781	13	3.6	13	78	8	53	69	2	0	28	1.00
907742--907816	28	2.6	29	75	8	82	70	0	2	26	1.00
909061--909119	23	2.5	24	78	10	59	32	1	5	61	1.28
915981--916489	165	3.1	165	96	0	928	30	16	17	35	1.92
918407--918749	173	2.0	173	98	0	659	34	25	19	20	1.96
923038--923166	52	2.5	52	79	0	141	28	29	16	25	1.97
923077--923191	52	2.2	52	80	0	131	27	31	15	25	1.96
928103--929560	743	2.0	742	95	0	2650	32	12	22	32	1.92
929867--929900	17	2.0	17	94	0	59	79	0	11	8	0.94
930647--930729	33	2.5	33	84	0	112	50	0	37	12	1.40
941149--941175	2	13.5	2	100	0	54	48	0	0	51	1.00
944009--944070	31	2.0	31	84	12	83	33	4	8	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944715--944753	2	19.5	2	83	0	51	43	0	5	51	1.24
945203--945227	1	25.0	1	100	0	50	0	100	0	0	0.00
945595--945632	2	19.0	2	100	0	76	50	0	0	50	1.00
946776--946841	27	2.5	26	79	15	75	53	0	1	45	1.09
947099--947125	2	13.5	2	100	0	54	48	0	0	51	1.00
949869--949908	2	20.0	2	100	0	80	50	0	0	50	1.00
950961--950994	2	17.0	2	100	0	68	0	50	0	50	1.00
950994--951020	2	13.5	2	100	0	54	48	0	0	51	1.00
951392--951443	14	3.4	14	74	23	50	48	0	1	50	1.12
951382--951443	16	3.8	16	77	14	63	45	0	1	53	1.10
951462--951522	28	2.1	29	82	8	72	29	8	0	62	1.24
951921--951958	20	2.0	20	85	15	53	52	0	0	47	1.00
951921--951958	19	1.9	19	85	15	51	52	0	0	47	1.00
952539--952591	26	2.1	26	82	3	63	35	0	0	64	0.94
953922--953950	11	2.7	11	94	5	51	24	0	0	75	0.80
954450--954501	24	2.1	26	85	7	72	48	3	0	48	1.20
954457--954506	26	2.0	24	84	7	64	44	4	2	50	1.32
957845--957890	17	2.6	18	80	16	51	43	0	6	50	1.28
958127--958160	18	1.9	17	88	5	50	47	0	2	50	1.16
958647--958697	14	3.4	15	78	13	52	60	0	0	39	0.97
958709--958788	23	3.6	23	73	20	71	53	2	0	43	1.14
958709--958756	23	2.0	24	88	11	73	56	2	0	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959825--959849	1	25.0	1	100	0	50	0	100	0	0	0.00
962971--963081	11	10.3	11	68	20	56	45	0	0	54	1.06
962960--963007	22	2.1	23	88	3	71	37	0	0	62	0.95
962976--963048	22	3.1	22	73	21	67	41	1	0	57	1.07
962977--963127	15	9.9	15	72	15	62	45	2	0	51	1.20
962978--963081	27	4.1	26	75	19	87	46	0	0	52	1.07
962971--963056	32	2.7	33	77	14	90	43	1	0	55	1.07
962977--963083	6	18.7	6	71	22	63	45	0	0	53	1.06
963092--963125	16	2.2	15	94	5	59	47	5	0	47	1.26
963113--963155	21	2.0	21	86	4	59	44	0	0	55	0.99
963115--963182	26	2.5	26	81	11	66	51	1	1	45	1.19
963981--964017	4	9.2	4	93	0	65	51	0	48	0	1.00
973279--973320	19	2.2	19	86	4	57	64	0	4	30	1.14
974337--974378	22	1.9	22	85	9	59	33	0	0	66	0.92
974341--974416	28	2.8	28	75	15	70	38	1	0	60	1.05
974473--974547	17	4.0	18	76	13	62	26	0	5	68	1.11
974948--974998	24	2.1	24	81	0	57	41	1	1	54	1.22
975693--975719	2	13.5	2	100	0	54	48	0	0	51	1.00
976864--976906	21	2.0	21	86	8	61	41	0	2	55	1.12
976891--976943	25	2.0	27	85	7	74	33	0	1	64	1.05
977601--977701	40	2.5	39	90	4	157	51	2	0	44	1.23
978045--978094	22	2.2	22	89	7	73	40	0	2	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978277--978342	29	2.4	27	83	14	75	51	0	1	46	1.10
978292--978342	27	2.0	26	85	11	70	54	0	1	43	1.11
978817--978843	2	13.5	2	100	0	54	51	0	0	48	1.00
981104--981184	26	3.1	25	75	15	67	53	0	1	45	1.08
984501--984527	14	1.9	14	100	0	54	70	0	0	29	0.88
984534--984613	18	4.5	19	69	26	59	47	1	1	50	1.17
984522--984591	31	2.2	33	84	5	90	48	0	2	48	1.16
984689--984729	2	20.5	2	100	0	82	0	48	0	51	1.00
991844--992136	156	1.9	156	91	0	478	38	7	14	39	1.74
992320--992356	19	1.9	19	100	0	74	59	0	0	40	0.97
996187--996263	39	2.0	39	94	0	136	14	27	10	48	1.76
997235--997286	25	2.1	25	100	0	104	19	28	11	40	1.86
998174--998210	2	18.5	2	100	0	74	0	48	0	51	1.00
998210--998245	2	18.0	2	100	0	72	50	0	0	50	1.00
998285--998331	17	2.7	18	81	15	62	29	2	0	68	1.02
998878--998931	21	2.7	20	85	5	81	61	1	0	37	1.07
999005--999047	23	2.0	22	86	9	61	39	0	0	60	0.97
1002222--1002272	18	2.7	19	79	17	61	39	0	0	60	0.97
1002221--1002281	14	4.6	14	73	17	51	42	0	0	57	0.98
1002743--1002820	20	3.8	20	72	11	59	28	6	5	60	1.43
1006163--1006214	21	2.5	21	83	0	68	50	0	5	44	1.26
1006212--1006342	21	6.2	21	67	22	69	54	4	2	38	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009215--1009490	151	1.9	147	83	6	358	48	4	7	39	1.53
1011065--1011115	18	2.8	18	74	11	50	33	5	1	58	1.33
1012018--1012071	10	5.1	10	86	8	63	29	0	1	68	1.00
1012018--1012071	23	2.5	22	80	11	67	29	0	1	68	1.00
1012093--1012149	21	2.6	22	78	10	64	28	5	5	61	1.39
1012113--1012154	21	2.0	22	90	4	68	28	2	4	64	1.26
1014836--1014927	42	2.2	42	96	0	175	27	22	16	33	1.95
1016075--1016145	16	4.4	15	71	13	52	64	1	2	30	1.16
1016048--1016367	142	2.3	138	80	6	367	57	5	5	31	1.45
1016385--1016414	15	1.9	16	93	6	53	53	0	3	43	1.17
1024713--1024757	17	2.6	17	89	0	63	42	0	4	53	1.21
1024785--1024834	17	3.1	17	83	11	52	56	0	0	44	0.99
1029936--1029976	21	1.9	23	85	14	61	82	0	17	0	0.66
1032780--1032857	38	2.1	38	100	0	156	50	0	21	28	1.49
1033151--1033188	14	2.6	15	88	12	53	78	0	0	21	0.74
1033158--1033191	10	3.4	10	88	12	52	79	0	0	20	0.73
1036113--1036156	23	1.9	22	82	17	54	54	0	2	43	1.12
1037091--1037118	2	14.0	2	100	0	56	50	0	0	50	1.00
1038786--1038849	17	3.7	17	81	4	74	46	3	1	48	1.27
1044171--1044217	17	2.8	17	87	3	69	40	10	8	40	1.70
1044171--1044232	16	3.8	16	79	8	63	38	11	8	41	1.70
1047667--1047712	20	2.4	19	85	7	58	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048024--1048081	29	1.9	30	83	13	75	55	5	3	36	1.39
1048185--1048788	318	1.9	312	88	3	897	52	12	8	26	1.68
1049409--1049448	6	6.7	6	83	11	55	2	15	0	82	0.77
1049395--1049448	13	4.2	12	79	13	54	3	12	0	83	0.78
1049389--1049448	11	5.3	11	75	20	52	3	16	0	80	0.85
1049394--1049448	25	2.2	26	78	15	62	3	14	0	81	0.82
1050313--1050352	21	1.9	21	94	0	71	57	17	7	17	1.62
1054952--1054993	5	9.0	5	87	10	54	78	0	0	21	0.75
1057862--1057905	23	1.9	22	82	17	54	54	0	2	43	1.12
1060533--1060596	17	3.7	17	81	4	74	46	3	1	48	1.27

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