genome.fa.s23.2.7.7.80.10.50.1000.10.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  10  of  167  ( 19959 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)
3165398--3165464	33	2.0	33	100	0	134	32	8	16	41	1.79
3165570--3165615	23	2.0	23	100	0	92	43	17	13	26	1.85
3181257--3181401	57	2.6	56	80	8	152	57	10	8	23	1.60
3191459--3191582	48	2.6	48	82	7	135	36	26	16	20	1.94
3196034--3196104	35	2.0	35	86	0	97	36	9	23	29	1.87
3198935--3199002	29	2.3	28	80	12	73	55	1	2	39	1.24
3213642--3213699	27	2.1	27	83	0	71	31	34	24	10	1.89
3214649--3214706	30	1.9	30	89	0	89	13	34	1	50	1.52
3219634--3219702	35	2.0	34	97	0	120	21	23	24	28	1.98
3225323--3225352	8	3.6	8	95	4	51	33	3	10	53	1.51
3232998--3233112	30	3.8	30	89	0	167	26	47	4	21	1.69
3232998--3233112	60	1.9	60	92	0	194	26	47	4	21	1.69
3233673--3233831	25	6.1	25	73	11	99	32	6	3	57	1.41
3233752--3233842	23	3.9	24	77	11	82	34	6	4	54	1.46
3233965--3234016	8	6.5	8	78	8	52	28	1	1	67	1.12
3233965--3234012	16	3.1	15	84	6	60	29	2	2	66	1.14
3233954--3234013	14	4.0	15	76	18	54	30	1	1	66	1.11
3240668--3240867	100	2.0	100	100	0	400	30	14	24	32	1.94
3243747--3243786	8	5.1	8	84	6	55	32	2	2	62	1.22
3243747--3243786	16	2.6	16	92	4	64	32	2	2	62	1.22
3245465--3245499	6	5.8	6	89	0	52	20	14	14	51	1.76
3246220--3246299	41	1.9	42	85	7	110	23	26	31	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3249255--3249279	2	12.5	2	100	0	50	0	0	48	52	1.00
3256915--3256977	32	2.0	32	87	0	90	25	1	17	55	1.51
3257311--3257380	25	2.8	25	71	18	63	55	1	1	41	1.17
3257330--3257382	25	2.2	25	83	9	67	58	1	0	39	1.09
3257375--3257423	17	2.7	17	81	9	53	53	10	8	28	1.63
3262548--3262572	13	1.9	13	100	0	50	64	0	4	32	1.12
3264864--3264918	27	2.0	27	85	7	74	45	3	5	45	1.44
3272283--3272317	17	2.1	16	89	5	52	31	0	20	48	1.50
3276323--3276374	16	3.1	16	84	15	61	63	1	0	34	1.06
3276322--3276377	9	6.1	10	78	17	52	62	1	0	35	1.06
3276323--3276382	19	3.3	18	76	19	54	60	1	1	36	1.17
3281841--3281879	6	6.5	6	100	0	78	33	0	66	0	0.92
3290657--3290859	46	4.3	48	88	7	265	35	14	21	28	1.92
3290591--3290859	98	2.7	98	93	0	457	34	14	22	28	1.93
3290823--3290968	37	4.0	37	93	1	242	36	16	21	24	1.94
3295246--3295326	16	5.1	16	75	0	81	34	0	6	59	1.23
3295192--3295326	32	4.2	31	73	11	103	34	0	8	57	1.34
3295387--3295422	17	2.1	17	89	0	54	55	2	0	41	1.14
3298331--3298366	17	2.1	17	94	0	63	75	5	0	19	1.00
3298339--3298376	17	2.2	17	86	9	51	78	7	2	10	1.04
3301110--3301135	3	8.7	3	100	0	52	69	0	30	0	0.89
3303888--3304036	52	2.8	52	84	3	183	24	14	28	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308904--3308980	38	2.0	38	92	0	127	18	14	28	38	1.89
3311968--3312062	40	2.4	40	96	0	181	29	15	26	28	1.96
3311968--3312082	40	2.9	39	90	5	169	30	15	26	26	1.96
3316745--3316810	29	2.2	31	89	5	100	39	6	7	46	1.57
3331254--3331331	29	2.7	28	82	11	95	24	16	30	28	1.97
3331286--3331611	174	1.9	174	89	1	510	29	14	24	30	1.95
3338908--3338985	29	2.7	28	84	11	104	25	15	30	28	1.96
3338938--3339265	174	1.9	174	97	0	620	30	14	24	31	1.94
3341067--3341230	85	1.9	86	86	3	224	24	31	19	25	1.98
3341552--3341612	25	2.4	25	80	5	68	54	3	0	42	1.17
3341793--3341818	10	2.6	10	100	0	52	69	0	0	30	0.89
3345895--3345963	34	2.0	34	100	0	138	14	26	5	53	1.63
3346005--3346190	94	2.0	91	94	3	327	32	8	16	42	1.78
3346401--3346465	24	2.7	25	78	7	80	43	3	4	49	1.39
3350356--3350410	17	2.9	20	79	20	73	9	10	3	76	1.13
3350459--3350493	17	1.9	19	88	11	56	20	2	11	65	1.37
3356455--3356546	40	2.3	40	83	3	116	38	34	11	15	1.84
3364799--3364865	33	2.0	33	97	0	125	31	11	13	43	1.80
3371588--3371773	60	3.1	60	72	9	166	38	13	24	23	1.91
3371609--3371758	30	5.0	30	75	5	135	36	12	25	25	1.91
3371640--3371813	90	1.9	90	81	1	206	37	12	24	25	1.91
3374712--3374766	14	4.2	13	77	11	51	52	1	1	43	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3375086--3375156	32	2.2	32	85	7	99	67	0	1	30	0.99
3375072--3375155	32	2.8	29	77	13	89	66	0	2	30	1.04
3375171--3375235	26	2.4	26	82	12	69	53	0	3	43	1.16
3375191--3375266	26	2.9	26	79	11	84	48	0	3	47	1.20
3377002--3377049	20	2.5	19	87	12	71	25	2	2	70	1.09
3403517--3403590	6	12.8	6	78	8	64	77	0	2	20	0.90
3403532--3403587	3	19.7	3	85	10	82	73	0	0	26	0.84
3403532--3403583	11	4.6	11	97	2	95	73	0	0	26	0.84
3411791--3411823	13	2.6	13	90	4	50	48	12	0	39	1.40
3412855--3412888	11	3.2	11	87	4	52	0	23	11	64	1.26
3414036--3414194	52	3.1	51	80	8	178	27	16	26	30	1.97
3414988--3415042	20	2.8	20	83	8	76	21	36	29	12	1.91
3421837--3421897	24	2.4	25	78	13	72	78	1	11	8	1.02
3423998--3424035	14	2.5	16	83	12	53	76	2	7	13	1.11
3445157--3445205	24	2.0	24	88	0	71	24	30	20	24	1.98
3447843--3447887	15	2.8	15	83	10	54	44	0	0	55	0.99
3449539--3449768	10	24.3	9	64	20	62	58	4	3	33	1.33
3449663--3449747	31	2.8	29	79	16	93	57	5	1	35	1.30
3449710--3449765	20	2.9	19	82	10	69	60	3	3	32	1.31
3450477--3450547	19	3.8	18	73	14	56	32	0	2	64	1.08
3450467--3450547	28	2.9	25	77	18	81	33	1	3	61	1.21
3450497--3450537	20	2.1	19	86	13	57	29	0	4	65	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3451538--3451585	24	2.0	24	100	0	96	29	20	12	37	1.90
3453198--3453252	19	2.7	20	86	11	67	63	3	3	29	1.28
3466221--3466318	50	2.0	50	97	0	187	40	10	9	39	1.71
3466909--3466944	8	4.5	8	92	0	54	16	2	0	80	0.83
3467494--3467533	17	2.3	18	86	4	64	27	5	12	55	1.58
3469780--3469828	23	2.1	23	85	7	64	65	10	6	18	1.43
3470604--3470640	18	2.0	19	89	5	58	72	5	8	13	1.24
3470820--3470859	21	1.9	21	84	0	53	5	15	57	22	1.57
3474601--3474630	15	1.9	16	93	6	53	36	3	6	53	1.44
3476736--3476774	19	2.1	19	85	4	53	51	2	2	43	1.29
3481301--3481338	16	2.4	16	82	8	51	52	5	0	42	1.24
3486864--3486906	18	2.4	17	81	11	50	55	0	2	41	1.12
3501911--3501980	35	2.0	35	91	0	113	41	14	15	28	1.86
3510227--3510278	26	2.0	26	100	0	104	38	3	15	42	1.65
3512932--3512981	26	1.9	26	95	0	91	38	4	18	40	1.69
3515346--3515392	20	2.4	18	82	10	58	25	0	4	70	1.05
3521989--3522056	17	4.1	16	79	5	64	50	38	1	10	1.46
3529823--3529961	70	2.0	69	98	1	269	30	10	15	43	1.81
3532749--3532794	24	1.9	24	86	0	65	50	0	2	47	1.13
3536360--3536400	21	1.9	22	85	5	57	29	0	7	63	1.21
3537871--3537918	24	2.0	24	84	8	62	47	4	2	45	1.33
3537943--3538004	27	2.3	27	81	10	72	58	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546171--3548163	995	2.0	995	99	0	3977	27	15	23	32	1.95
3559420--3559471	25	2.1	25	100	0	104	32	19	7	40	1.80
3561392--3561416	10	2.5	10	100	0	50	60	0	28	12	1.32
3564371--3564452	43	1.9	43	82	9	105	52	10	3	32	1.54
3564720--3565027	147	2.1	147	80	5	345	40	8	10	39	1.70
3570543--3570650	44	2.4	44	87	3	144	29	23	13	33	1.93
3572919--3572952	15	2.2	16	89	5	52	50	2	0	47	1.16
3574243--3574286	16	2.8	16	85	0	61	27	0	13	59	1.35
3579650--3579679	14	2.1	14	93	0	51	40	23	6	30	1.80
3585470--3585510	18	2.4	17	84	8	57	34	0	0	65	0.93

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   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   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167