genome.fa.s12.2.7.7.80.10.50.1000.92.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   

This is table  92  of  128  ( 15303 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)
30209606--30209663	24	2.3	26	82	17	77	48	1	6	43	1.40
30217541--30217570	2	15.0	2	100	0	60	0	50	0	50	1.00
30219120--30219169	25	2.0	25	100	0	100	32	16	12	40	1.84
30223121--30223147	4	6.8	4	100	0	54	25	0	74	0	0.83
30236144--30236228	24	3.5	24	71	9	91	48	10	9	31	1.70
30236140--30236254	49	2.4	48	92	4	187	46	12	8	32	1.71
30238439--30238464	6	4.3	6	100	0	52	34	15	19	30	1.93
30244977--30246667	845	2.0	846	99	0	3366	32	14	21	31	1.93
30248785--30248974	54	3.5	54	100	0	380	25	17	25	32	1.97
30253507--30253575	30	2.5	27	75	17	70	60	0	1	37	1.06
30254856--30254891	18	1.9	19	88	5	56	55	2	0	41	1.14
30254872--30254922	21	2.5	20	84	9	59	49	3	0	47	1.20
30262607--30262656	2	25.0	2	100	0	100	50	0	0	50	1.00
30265054--30265182	49	2.6	49	91	1	204	24	13	28	32	1.94
30266123--30266169	22	2.1	22	88	0	67	46	8	6	38	1.60
30273042--30273165	51	2.4	51	95	0	221	32	14	25	27	1.95
30273141--30273166	7	3.7	7	100	0	52	42	11	30	15	1.82
30289811--30289864	18	2.9	20	86	13	80	55	3	0	40	1.17
30289925--30289963	9	4.3	9	83	9	53	51	0	0	48	1.00
30289928--30289957	8	3.6	8	91	8	51	46	0	0	53	1.00
30289925--30289957	17	1.9	17	93	0	57	48	0	0	51	1.00
30290150--30290513	121	3.0	121	95	0	658	42	16	10	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30290498--30290537	21	1.9	21	94	0	71	55	12	12	20	1.69
30292644--30292715	32	2.2	31	76	9	72	63	13	8	13	1.50
30300122--30300174	14	3.8	14	77	7	63	41	0	5	52	1.25
30300913--30300959	15	3.2	15	75	6	60	23	2	4	70	1.16
30300913--30300958	14	3.2	14	78	3	56	23	2	4	69	1.17
30302948--30302998	17	3.0	17	94	0	84	35	11	11	41	1.78
30303714--30303950	119	2.0	119	96	1	440	33	19	5	41	1.74
30304318--30304374	28	2.0	29	86	10	82	31	12	1	54	1.48
30309557--30309624	26	2.6	26	95	2	118	42	10	0	47	1.37
30309695--30309761	27	2.5	27	85	4	82	29	25	28	16	1.97
30309910--30309935	10	2.6	10	100	0	52	26	0	7	65	1.20
30310164--30310189	4	6.5	4	100	0	52	26	0	23	50	1.50
30312520--30312588	4	17.2	4	75	11	61	1	33	0	65	1.02
30312633--30312708	27	2.8	27	85	0	107	14	30	28	26	1.95
30312751--30312802	27	1.9	27	96	0	95	32	0	5	61	1.20
30314621--30315692	216	5.0	216	87	1	1378	31	14	25	27	1.95
30322379--30322436	24	2.4	25	85	2	73	53	1	5	39	1.33
30323265--30323295	14	2.2	14	94	0	53	51	32	0	16	1.44
30323615--30323657	19	2.3	19	79	0	50	65	2	9	23	1.34
30323914--30323971	20	2.8	20	80	10	73	51	5	0	43	1.24
30323914--30323973	21	2.9	22	79	16	67	51	5	0	43	1.23
30326106--30326191	31	2.9	30	76	8	86	36	12	10	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30329198--30330312	557	2.0	557	100	0	2230	31	20	19	28	1.97
30332262--30332303	18	2.3	18	87	0	57	30	33	26	9	1.88
30336337--30336438	51	2.0	51	86	3	143	24	25	1	48	1.62
30336325--30336426	11	9.5	11	73	12	79	22	28	1	47	1.62
30341926--30342227	126	2.4	126	88	1	462	26	20	19	32	1.97
30344683--30344742	25	2.4	25	97	0	111	31	45	10	13	1.76
30358175--30358223	22	2.2	22	92	0	80	18	53	14	14	1.74
30363830--30363863	18	1.9	18	88	5	52	20	47	26	5	1.73
30367862--30367913	26	2.0	26	96	0	95	21	0	21	57	1.41
30390217--30390390	80	2.2	81	86	3	235	43	22	16	17	1.88
30390218--30390389	27	6.4	27	84	1	211	43	22	16	17	1.88
30390796--30390873	29	2.7	29	92	4	122	30	11	14	43	1.80
30392729--30392768	21	2.0	21	85	5	55	50	12	7	30	1.68
30401240--30401285	24	1.9	24	82	8	58	32	10	8	47	1.69
30403351--30403388	15	2.5	15	87	12	51	52	2	0	44	1.14
30403787--30403853	23	2.8	24	82	13	77	28	19	14	37	1.91
30408276--30408304	9	3.2	9	100	0	58	44	0	44	10	1.38
30408266--30408297	16	2.0	16	93	0	55	46	0	40	12	1.42
30408297--30408325	15	1.9	15	100	0	58	34	3	41	20	1.69
30411627--30411767	51	2.8	51	83	5	171	31	24	17	26	1.97
30413090--30413206	51	2.3	51	79	1	128	20	32	23	23	1.98
30413249--30413278	13	2.3	13	94	0	51	50	13	3	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30415929--30416244	67	4.7	67	84	0	364	23	28	17	31	1.97
30418696--30418829	29	4.7	29	84	5	166	34	24	11	29	1.91
30418696--30418825	58	2.3	58	89	4	192	35	23	12	28	1.91
30422353--30422545	50	3.7	51	81	10	196	26	21	29	23	1.99
30422409--30422594	50	3.8	49	81	7	164	27	22	27	22	1.99
30437723--30438018	41	7.2	41	83	1	333	34	15	28	21	1.94
30437723--30438018	82	3.6	82	86	1	369	34	15	28	21	1.94
30437723--30438013	123	2.4	123	85	2	379	34	15	27	21	1.94
30443542--30443670	67	1.9	67	88	0	195	31	30	16	22	1.96
30447642--30447735	43	2.2	43	94	0	161	29	25	25	19	1.98
30450164--30450197	17	2.0	17	94	0	59	26	17	8	47	1.77
30453646--30453706	29	2.1	29	84	9	79	49	11	6	32	1.65
30473520--30473554	17	2.0	18	88	5	54	42	11	25	20	1.85
30474478--30474507	12	2.5	12	94	0	51	23	40	30	6	1.80
30475184--30475251	26	2.6	26	83	0	73	22	27	22	27	1.99
30476411--30476684	140	2.0	140	86	0	386	23	27	27	21	1.99
30483679--30483711	13	2.5	13	90	9	50	51	24	3	21	1.62
30484264--30484305	21	2.0	21	86	9	59	45	19	23	11	1.83
30485862--30485887	13	2.0	13	100	0	52	23	15	7	53	1.67
30489850--30489904	13	4.2	13	85	0	65	54	10	3	30	1.52
30490523--30490647	62	2.0	63	98	1	243	37	12	16	33	1.86
30491239--30491284	20	2.3	20	96	0	83	45	21	23	8	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30516767--30516824	20	2.8	20	75	17	57	43	5	1	50	1.35
30518493--30518542	22	2.3	22	89	0	73	24	32	2	42	1.66
30521022--30521048	13	2.1	13	100	0	54	55	7	14	22	1.64
30524195--30524238	21	2.1	21	82	0	52	27	11	31	29	1.91
30526354--30526387	16	2.2	16	89	5	52	58	14	2	23	1.50
30528295--30528400	29	3.6	29	94	5	185	39	11	0	49	1.39
30529246--30529280	17	2.1	17	100	0	70	11	51	5	31	1.61
30531380--30531412	16	2.0	17	94	5	59	24	30	6	39	1.79
30534921--30534953	17	1.9	17	100	0	66	24	27	6	42	1.78
30536184--30536273	21	4.1	22	81	7	67	56	16	25	1	1.47
30536199--30536273	21	3.5	22	85	3	91	54	17	26	1	1.51
30539677--30539845	51	3.3	49	80	9	162	24	14	29	31	1.94
30539707--30539851	50	2.9	51	85	4	204	23	15	29	31	1.96
30539765--30539846	26	3.2	26	63	27	66	23	14	29	32	1.94
30546472--30546521	16	3.3	16	69	25	54	32	20	10	38	1.85
30546469--30546527	29	2.0	29	100	0	118	32	20	10	37	1.86
30550687--30551001	173	1.8	174	82	4	413	28	15	19	35	1.93
30554349--30554421	23	3.2	23	82	7	103	34	24	19	21	1.96
30554640--30554680	18	2.3	18	88	12	59	46	19	0	34	1.50
30554640--30554680	17	2.4	17	88	12	57	46	19	0	34	1.50
30563871--30563938	9	7.4	9	85	3	82	23	11	25	39	1.88
30571113--30571212	49	2.0	49	80	3	112	27	18	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30574373--30574488	50	2.3	50	84	0	151	26	23	31	18	1.98
30574753--30574801	20	2.5	20	81	15	66	57	6	24	12	1.58
30599808--30599837	15	2.0	15	93	0	51	53	10	6	30	1.60
30626028--30626153	43	2.9	43	87	4	191	31	13	18	36	1.89
30626387--30627219	416	2.0	416	100	0	1666	35	16	13	34	1.87
30644858--30644918	9	6.3	9	72	12	50	42	0	3	54	1.17
30644857--30644914	19	3.0	19	82	5	71	43	0	3	53	1.17
30644968--30645041	36	2.1	36	100	0	148	40	18	10	29	1.85
30645745--30645805	30	2.0	30	100	0	122	57	19	9	13	1.63
30655335--30655386	13	4.0	13	76	16	54	78	3	17	0	0.89

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128