genome.fa.s10.2.7.7.80.10.50.1000.10.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   168   169   170   171   172   

This is table  10  of  172  ( 20562 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)
3055018--3055099	41	2.0	41	97	0	155	41	20	4	32	1.74
3059256--3059386	67	2.0	66	93	1	226	26	32	19	21	1.97
3064943--3065019	40	1.9	41	86	2	111	49	1	7	41	1.40
3068942--3069023	32	2.6	32	96	0	155	42	13	7	36	1.72
3069141--3069352	62	3.4	62	96	1	379	49	8	10	32	1.66
3072664--3072895	117	2.0	112	84	11	294	44	1	3	50	1.29
3072664--3072794	44	3.0	44	71	15	114	45	0	3	49	1.25
3072842--3072875	17	2.0	17	100	0	68	41	0	0	58	0.98
3072842--3072892	16	3.2	15	83	8	57	41	1	0	56	1.10
3074306--3074353	19	2.6	18	81	12	53	35	2	6	56	1.36
3081810--3081847	20	1.9	19	89	5	58	42	0	0	57	0.98
3083353--3083377	13	1.9	13	100	0	50	64	16	4	16	1.44
3085342--3085419	9	9.2	9	68	13	58	32	1	2	64	1.15
3096786--3096832	21	2.2	21	84	0	67	72	14	6	6	1.25
3097793--3097833	21	1.9	22	95	5	75	60	0	0	39	0.96
3098978--3099023	17	2.7	17	82	0	56	39	0	0	60	0.97
3099007--3099054	11	4.4	11	74	10	53	35	2	0	62	1.07
3099015--3099069	22	2.5	21	83	13	67	34	1	3	60	1.25
3109729--3109763	15	2.4	15	90	4	54	48	0	8	42	1.33
3129432--3129477	22	2.1	22	83	0	56	58	0	2	39	1.10
3134306--3134347	18	2.4	18	84	4	59	38	9	0	52	1.34
3137847--3138425	310	1.9	312	84	3	781	46	10	9	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3140315--3140350	14	2.6	14	86	0	54	27	0	11	61	1.30
3140285--3140332	25	2.0	25	91	4	80	35	0	12	52	1.40
3141185--3141219	15	2.3	16	90	9	56	85	0	14	0	0.59
3141187--3141222	18	2.0	18	89	10	56	83	0	16	0	0.65
3141184--3141222	15	2.7	14	80	7	51	82	0	17	0	0.68
3145145--3145198	24	2.2	24	96	0	99	29	11	16	42	1.83
3151183--3151260	29	2.7	28	76	21	72	41	0	7	51	1.31
3156264--3156294	16	1.9	16	93	0	53	25	25	0	48	1.52
3165850--3165915	31	2.1	32	85	2	89	28	13	10	46	1.76
3169258--3169282	12	2.1	12	100	0	50	32	16	28	24	1.96
3176182--3176212	9	3.3	9	95	4	53	12	0	0	87	0.55
3184827--3184873	20	2.3	20	88	0	67	59	0	0	40	0.97
3184828--3184912	30	2.8	29	81	13	84	61	0	1	37	1.04
3184820--3184882	11	5.8	11	70	22	53	57	0	0	42	0.99
3184848--3184939	39	2.3	40	92	7	154	66	0	1	32	0.99
3185500--3185533	11	3.1	11	82	0	50	67	5	0	26	1.13
3186326--3186359	16	2.1	16	88	0	50	41	8	0	50	1.34
3187734--3188273	276	2.0	264	90	4	855	42	13	12	31	1.82
3190192--3190339	60	2.5	58	78	4	172	27	14	18	39	1.90
3191015--3191042	6	4.7	6	100	0	56	17	32	17	32	1.94
3193596--3193670	38	2.0	37	97	2	141	26	14	40	18	1.90
3216221--3216282	31	2.1	29	87	6	88	37	6	9	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3216242--3216347	31	3.5	29	73	10	79	36	10	8	44	1.69
3238916--3238999	37	2.3	37	91	4	134	45	5	9	39	1.61
3241074--3241114	19	2.2	19	90	0	64	46	9	19	24	1.80
3244667--3244705	20	2.0	20	84	0	51	38	12	2	46	1.56
3249773--3249811	20	2.0	20	89	0	60	41	10	2	46	1.51
3251781--3251819	20	2.0	20	89	0	60	41	10	2	46	1.51
3255907--3255972	33	2.0	33	81	0	78	45	4	0	50	1.22
3256700--3256760	30	2.0	31	83	3	79	36	8	6	49	1.59
3262430--3262627	102	2.0	100	85	6	265	39	5	6	47	1.53
3278013--3278087	35	2.1	35	97	0	141	42	26	14	16	1.86
3282935--3283010	31	2.5	31	84	0	98	42	10	28	18	1.83
3288717--3288749	17	2.0	17	88	5	50	69	6	3	21	1.24
3292524--3292995	236	2.0	236	96	0	863	38	14	12	34	1.84
3300581--3300626	21	2.3	21	81	7	60	26	10	8	54	1.64
3303401--3303439	3	13.0	3	100	0	78	66	0	0	33	0.92
3312139--3312175	18	2.1	18	90	10	58	62	5	0	32	1.18
3315063--3315092	14	2.1	14	93	0	51	56	0	3	40	1.16
3315131--3315182	21	2.5	21	72	12	52	61	3	5	28	1.37
3326005--3326110	45	2.4	44	83	10	119	23	31	17	27	1.97
3326126--3326577	44	10.3	43	63	12	125	28	24	18	28	1.98
3326123--3326628	132	3.8	131	93	1	836	28	24	18	28	1.98
3334678--3334752	23	3.3	23	86	3	116	32	26	21	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3336075--3336527	132	3.5	132	87	3	652	29	22	18	28	1.98
3337673--3337711	7	5.6	7	82	11	53	12	17	0	69	1.19
3338657--3338694	19	2.0	19	90	10	60	57	5	21	15	1.57
3340573--3340612	19	2.0	20	85	4	55	47	7	20	25	1.75
3340646--3340671	13	2.0	13	100	0	52	46	15	7	30	1.74
3342579--3342611	3	11.0	3	100	0	66	66	0	0	33	0.92
3352311--3352360	25	2.0	25	100	0	100	24	20	20	36	1.95
3355319--3355577	107	2.4	106	83	7	317	38	15	16	28	1.90
3355882--3356166	110	2.7	107	78	6	292	37	15	13	33	1.87
3358815--3358845	13	2.4	13	100	0	62	41	6	9	41	1.63
3368262--3368288	12	2.2	12	100	0	54	51	25	7	14	1.68
3373221--3373281	26	2.4	25	81	13	70	37	21	22	18	1.94
3374444--3374468	11	2.3	11	100	0	50	8	0	0	92	0.40
3374456--3374508	27	2.0	27	92	0	88	28	1	0	69	0.99
3374460--3374518	27	2.2	27	81	3	66	27	1	5	66	1.22
3375781--3375835	18	2.9	19	75	20	53	45	0	30	23	1.53
3376169--3376237	26	2.6	27	90	6	115	40	10	0	49	1.37
3376297--3376373	27	2.9	27	86	3	93	24	27	28	19	1.99
3376454--3376490	11	3.5	11	88	7	58	70	0	29	0	0.88
3376517--3376555	19	2.0	21	85	10	55	23	0	10	66	1.22
3376889--3376919	12	2.6	12	94	0	53	19	0	19	61	1.35
3377473--3377517	18	2.5	18	74	0	54	31	8	46	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379457--3379494	10	3.5	11	85	10	51	78	2	2	15	0.97
3380536--3381639	552	2.0	552	100	0	2208	28	18	25	27	1.98
3385621--3385824	41	5.0	41	92	0	336	24	26	19	29	1.98
3385615--3385831	82	2.6	82	95	1	391	23	27	18	29	1.98
3388757--3388922	40	4.1	40	73	16	135	1	29	0	68	1.00
3388790--3388922	44	3.2	42	77	13	159	2	28	0	69	1.01
3388806--3388893	29	3.1	28	78	13	83	2	29	0	68	1.02
3388844--3388897	19	2.8	19	75	10	56	0	31	0	68	0.90
3388820--3388961	4	35.0	4	70	17	80	2	30	0	66	1.06
3388759--3388960	82	2.5	79	83	11	227	1	31	0	66	1.02
3388829--3388971	74	1.9	72	82	12	175	2	32	0	65	1.05
3388801--3388925	39	2.9	44	80	11	97	2	29	0	68	1.03
3388869--3388958	34	2.8	33	79	16	98	2	32	0	65	1.05
3388918--3388951	13	2.6	13	86	13	52	2	38	0	58	1.13
3389003--3389069	27	2.5	27	95	0	116	14	26	29	28	1.96
3389138--3389205	26	2.6	25	88	4	100	45	0	10	44	1.38
3393092--3393135	21	2.1	21	91	4	72	77	0	6	15	0.97
3399514--3399563	12	4.2	12	84	0	64	50	0	48	2	1.12
3399517--3399548	9	3.6	9	91	0	55	53	0	46	0	1.00
3399514--3399563	24	2.1	24	92	0	82	50	0	48	2	1.12
3406488--3406512	9	2.8	9	100	0	50	44	0	0	56	0.99
3420500--3420582	27	3.1	26	81	6	94	27	21	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3420598--3420747	53	2.8	53	83	5	178	28	8	20	43	1.80
3420621--3420747	27	4.7	27	88	3	177	27	7	22	43	1.79
3420623--3420764	27	5.3	27	83	0	160	27	7	22	42	1.81
3429234--3429267	17	2.0	17	94	0	59	44	50	0	5	1.26
3439272--3439330	28	2.2	28	81	6	77	33	1	5	59	1.29
3450106--3450139	15	2.2	16	89	5	52	50	0	8	41	1.34
3455008--3455037	15	2.0	15	93	0	51	43	26	0	30	1.55
3457144--3457284	40	3.5	40	96	0	255	28	20	23	27	1.99
3458499--3458534	17	2.1	17	94	0	63	30	0	25	44	1.54
3460766--3460818	26	2.1	25	82	10	63	43	0	0	56	0.99

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   168   169   170   171   172