genome.fa.s4.2.7.7.80.10.50.1000.70.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   

This is table  70  of  82  ( 9773 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)
25408190--25408233	23	1.9	23	95	0	79	22	13	29	34	1.93
25408189--25408248	23	2.7	23	84	2	77	20	13	33	33	1.91
25408586--25408622	19	1.9	19	100	0	74	27	0	29	43	1.55
25412306--25412386	22	3.7	22	85	6	112	46	23	9	19	1.80
25412308--25412386	21	3.7	21	86	3	104	46	24	10	18	1.80
25414250--25414292	18	2.3	19	88	11	63	44	4	0	51	1.22
25414250--25414304	18	2.9	18	81	8	56	47	3	0	49	1.19
25414278--25414372	45	2.1	46	86	5	131	47	3	5	44	1.41
25415049--25415095	21	2.3	22	85	10	64	53	0	2	44	1.12
25415773--25416153	113	3.4	112	79	10	311	54	4	1	39	1.29
25415858--25416153	112	2.6	113	83	6	348	55	4	1	38	1.30
25416056--25416281	64	3.5	65	73	20	217	57	2	1	39	1.20
25416093--25416272	42	4.2	42	65	21	115	60	2	1	36	1.16
25415858--25416312	112	3.9	113	76	10	328	55	3	1	39	1.27
25416133--25416199	19	3.3	19	75	20	64	58	1	0	40	1.07
25416122--25416309	22	8.7	21	72	17	84	55	2	1	41	1.19
25417970--25418016	20	2.3	21	81	3	60	51	0	8	40	1.33
25419865--25419907	22	2.0	22	81	9	52	18	27	4	48	1.68
25420970--25421006	18	2.1	18	94	0	65	48	10	13	27	1.75
25425438--25425518	39	2.1	39	95	4	146	27	7	7	58	1.52
25426384--25426431	18	2.5	20	86	6	73	47	2	0	50	1.12
25426380--25426454	10	7.4	10	71	18	57	46	1	1	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25426406--25426499	45	2.1	45	90	4	145	46	1	5	46	1.32
25427182--25427252	35	2.0	36	86	8	101	42	2	0	54	1.14
25427241--25427291	22	2.4	22	71	15	52	41	1	1	54	1.22
25434111--25434168	2	29.0	2	100	0	116	50	0	0	50	1.00
25440658--25440726	28	2.5	28	90	0	111	57	5	15	20	1.58
25442581--25442639	28	2.1	28	87	3	84	62	1	10	25	1.36
25445635--25445663	15	1.9	15	100	0	58	72	20	0	6	1.07
25445633--25445666	10	3.4	10	87	0	50	67	20	0	11	1.21
25448258--25448541	145	2.0	146	96	0	525	32	20	14	33	1.92
25449223--25449326	53	2.0	53	90	0	163	25	21	16	37	1.93
25454627--25454680	26	2.1	26	96	0	99	46	5	0	48	1.25
25457790--25457826	2	18.5	2	100	0	74	51	0	0	48	1.00
25460748--25460799	8	5.9	8	80	14	50	78	1	1	17	0.93
25462078--25462126	17	2.9	16	81	9	53	65	8	0	26	1.20
25462078--25462126	18	2.7	18	82	14	57	65	8	0	26	1.20
25466347--25466409	30	2.1	30	100	0	126	33	11	12	42	1.78
25471852--25471884	2	16.5	2	100	0	66	51	0	0	48	1.00
25478758--25478832	39	2.0	37	97	2	132	33	2	20	42	1.66
25484449--25484672	112	2.0	110	86	5	310	22	22	10	44	1.83
25494178--25494205	6	4.7	6	100	0	56	0	50	0	50	1.00
25502038--25502105	34	2.0	34	88	0	100	58	10	7	23	1.56
25503376--25503405	2	15.0	2	92	0	51	0	46	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25506919--25507086	84	2.0	83	92	1	282	23	20	13	41	1.88
25510346--25510421	2	39.5	2	78	12	70	50	0	0	46	1.02
25510673--25510698	3	8.7	3	100	0	52	34	0	0	65	0.93
25511584--25511631	25	1.9	25	86	0	69	58	2	4	35	1.29
25520837--25521005	85	2.0	85	89	3	261	34	13	8	42	1.76
25525925--25526002	39	2.0	39	85	5	104	29	26	16	26	1.97
25540681--25540711	2	15.5	2	100	0	62	0	48	0	51	1.00
25540715--25540753	2	19.5	2	100	0	78	48	0	0	51	1.00
25553470--25553516	24	1.9	25	86	4	69	65	0	0	34	0.93
25553454--25553513	30	2.0	31	90	3	95	60	0	1	38	1.07
25553470--25553537	25	2.7	26	80	13	63	61	0	1	36	1.05
25554472--25554539	29	2.3	29	82	7	84	33	2	1	61	1.20
25554682--25554720	20	2.0	20	85	5	53	53	0	2	43	1.14
25554687--25554742	28	1.9	29	92	7	96	53	0	1	44	1.11
25554668--25554754	30	2.9	30	81	10	115	55	0	1	43	1.07
25565305--25565346	2	21.0	2	95	0	75	52	0	0	47	1.00
25565587--25565628	21	2.0	21	95	0	75	14	54	4	26	1.59
25575808--25575939	66	2.0	66	95	0	237	47	8	13	30	1.72
25580351--25580386	18	2.0	18	94	0	63	30	11	13	44	1.79
25591733--25591947	114	1.9	114	91	0	349	26	6	40	26	1.80
25591843--25592508	141	4.7	141	83	6	806	23	6	41	28	1.80
25591843--25592508	291	2.3	280	84	5	847	23	6	41	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25604955--25605037	34	2.4	34	83	0	103	40	22	12	24	1.88
25620637--25620665	6	4.8	6	100	0	58	0	17	0	82	0.66
25657154--25657191	13	3.0	13	80	7	51	13	15	10	60	1.59
25662023--25662070	24	2.0	24	84	8	62	31	0	2	66	1.03
25666286--25666350	28	2.4	27	82	7	78	41	3	3	52	1.32
25666837--25666915	41	1.9	41	82	7	97	46	2	0	50	1.14
25666866--25666968	26	4.0	26	66	16	63	46	0	0	52	1.07
25669822--25669868	24	2.0	24	95	0	85	46	25	6	21	1.74
25669900--25670012	45	2.5	45	88	0	154	30	16	19	32	1.94
25670020--25670094	29	2.7	28	79	4	80	38	13	10	37	1.79
25669999--25670094	29	3.3	28	74	10	77	37	13	11	37	1.81
25670768--25670984	118	1.8	118	87	3	312	41	5	3	48	1.44
25672662--25672691	15	2.0	15	93	0	51	36	6	0	56	1.26
25672904--25673021	59	2.0	59	93	0	200	50	11	1	35	1.49
25673085--25673285	100	2.0	100	99	0	393	39	15	18	26	1.90
25674280--25674309	2	15.0	2	100	0	60	50	0	50	0	1.00
25674345--25674380	2	18.0	2	100	0	72	50	0	50	0	1.00
25678666--25678700	17	2.1	17	89	5	54	45	2	0	51	1.16
25679554--25680130	286	2.0	291	88	3	853	33	6	10	48	1.63
25680564--25680598	9	3.9	9	89	10	54	54	0	2	42	1.15
25684151--25684204	20	2.7	19	75	13	56	37	0	0	62	0.95
25688665--25688699	4	8.8	4	100	0	70	77	0	0	22	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25703096--25703126	13	2.4	13	94	0	53	77	3	3	16	1.03
25721933--25722093	75	2.1	76	83	9	200	22	9	13	54	1.67
25741783--25741829	2	23.5	2	95	0	85	48	0	2	48	1.13
25759596--25759632	18	2.1	18	89	0	56	75	0	21	2	0.92
25759696--25759738	8	5.2	8	91	2	68	30	0	0	69	0.88
25760557--25760690	29	4.6	28	74	10	110	37	8	14	38	1.78
25761382--25761661	29	9.8	29	74	6	196	37	10	16	36	1.82
25761381--25761643	57	4.6	57	76	10	171	37	10	16	35	1.83
25761381--25761615	86	2.7	84	75	8	215	37	10	17	35	1.84
25761552--25761674	58	2.1	58	89	0	183	39	10	13	36	1.80
25766859--25766890	6	5.5	6	96	3	57	31	18	34	15	1.93
25778603--25778640	7	5.7	7	93	6	62	13	0	0	86	0.56
25778604--25778640	6	5.8	6	96	3	56	13	0	0	86	0.57
25800728--25800784	22	2.4	25	82	8	75	29	35	1	33	1.68
25800734--25800786	22	2.4	22	90	0	79	28	37	1	32	1.68
25802557--25803103	271	2.0	272	96	1	1017	31	17	15	36	1.91
25804434--25804483	25	2.0	25	100	0	100	28	4	16	52	1.61
25804873--25804899	6	4.5	6	100	0	54	51	0	48	0	1.00
25808602--25808679	1	78.0	1	81	0	93	5	91	0	2	0.48
25808601--25808679	27	2.9	27	92	5	124	6	89	0	2	0.52
25808602--25808679	32	2.5	31	87	6	111	5	91	0	2	0.48
25811601--25811638	14	2.6	14	91	4	58	76	2	21	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25821463--25821542	2	42.0	2	83	14	107	50	0	0	48	1.01
25825784--25825896	41	2.7	41	80	9	106	47	0	3	47	1.25
25825924--25825985	27	2.2	28	85	2	81	35	4	0	59	1.19
25825959--25826001	22	1.9	23	85	4	61	39	4	0	55	1.20
25825835--25826131	117	2.5	117	85	5	377	37	3	2	57	1.26
25826040--25826095	28	1.9	28	89	7	85	39	1	0	58	1.08
25826043--25826114	28	3.0	23	72	20	65	41	2	1	54	1.23
25826422--25826466	16	2.7	16	82	6	54	51	0	0	48	1.00
25830382--25830452	35	2.0	36	91	5	110	2	40	0	54	1.15
25835393--25836089	347	2.0	346	96	0	1297	38	13	19	28	1.90

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82