genome.fa.s14.2.7.7.80.10.50.1000.12.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   

This is table  12  of  213  ( 25468 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)
3452281--3452382	41	2.5	41	90	3	152	25	19	26	28	1.99
3455741--3455792	24	2.2	24	85	0	68	50	5	5	38	1.51
3460073--3460112	18	2.1	20	90	9	66	65	0	35	0	0.93
3460211--3460277	25	2.7	25	80	0	71	38	32	5	22	1.78
3465888--3465990	18	5.8	18	76	15	81	45	10	12	31	1.76
3465894--3465959	16	3.9	16	78	13	53	48	10	13	27	1.75
3466014--3466067	18	3.1	16	79	12	54	44	7	3	44	1.49
3466060--3466112	17	3.3	16	82	7	63	52	9	9	28	1.64
3466079--3466335	17	14.1	17	70	12	118	44	10	12	33	1.76
3466095--3466161	22	3.0	22	84	2	80	40	7	5	46	1.57
3466140--3466302	35	4.7	35	73	14	113	44	9	14	32	1.76
3466280--3466335	18	3.1	19	76	7	62	41	14	10	33	1.80
3466330--3466380	18	2.9	17	77	8	57	47	7	9	35	1.66
3466874--3466939	9	8.0	8	88	10	73	0	19	0	80	0.72
3466885--3466918	7	4.7	7	92	7	59	0	14	0	85	0.60
3466876--3466927	15	3.3	15	89	5	77	0	17	0	82	0.66
3466884--3466941	14	4.3	14	75	14	59	0	17	0	82	0.66
3466875--3466941	13	5.2	13	73	18	52	0	17	0	82	0.68
3467072--3467097	11	2.4	11	100	0	52	0	11	7	80	0.89
3467229--3467265	14	2.8	13	91	4	56	0	35	0	64	0.94
3467220--3467264	21	2.1	22	87	4	65	0	31	0	68	0.89
3467325--3467367	19	2.3	19	88	11	63	0	30	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3467321--3467369	10	5.2	10	80	9	59	0	30	0	69	0.89
3467615--3467731	30	3.9	29	77	11	94	44	3	21	30	1.69
3467630--3467731	30	3.4	30	83	2	125	44	3	21	30	1.70
3467727--3467755	15	1.9	15	100	0	58	24	0	0	75	0.80
3468008--3468257	53	4.7	54	90	6	386	35	18	15	30	1.92
3468267--3468299	13	2.4	14	95	5	59	69	9	9	12	1.36
3468260--3468307	14	3.5	14	85	5	62	62	8	10	18	1.52
3468383--3469690	72	18.3	72	91	4	1992	33	19	17	30	1.94
3468383--3469678	145	9.1	144	93	3	2027	33	18	17	30	1.94
3482065--3482110	3	15.0	3	82	13	58	0	36	0	63	0.95
3482079--3482107	10	2.9	10	100	0	58	0	37	0	62	0.96
3482065--3482110	13	3.7	13	81	18	62	0	36	0	63	0.95
3482166--3482218	10	5.5	10	82	6	65	0	30	0	69	0.88
3482170--3482216	19	2.6	19	87	12	64	0	29	0	70	0.88
3482456--3482572	30	3.9	29	77	11	94	44	3	21	30	1.69
3482471--3482572	30	3.4	30	83	2	125	44	3	21	30	1.70
3482570--3482606	17	2.2	17	95	0	65	18	0	0	81	0.70
3484086--3484115	15	1.9	16	93	6	53	46	46	0	6	1.29
3485629--3485662	8	4.2	8	88	11	52	26	8	2	61	1.40
3485870--3486190	109	3.0	108	92	1	527	29	16	19	34	1.93
3488970--3489018	25	1.9	27	84	12	68	20	16	8	55	1.66
3489690--3489761	6	11.7	6	82	10	56	69	6	8	15	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3489690--3489741	12	4.3	12	90	0	68	67	5	11	15	1.40
3489726--3489771	21	2.2	21	88	0	65	78	6	4	10	1.08
3489740--3489839	51	1.9	53	84	8	134	74	6	11	9	1.23
3490277--3490316	20	2.0	20	90	0	62	27	10	15	47	1.77
3490256--3490332	14	5.0	15	71	20	52	32	9	16	41	1.80
3491368--3491398	13	2.5	13	94	5	55	67	0	16	16	1.23
3492647--3492992	86	4.1	86	90	2	529	32	21	21	25	1.98
3493215--3494459	87	14.3	88	69	8	553	30	19	22	27	1.98
3493299--3494512	174	7.0	174	96	0	2205	30	19	22	26	1.98
3494829--3494858	15	1.9	16	93	6	53	46	46	0	6	1.29
3496373--3496406	8	4.2	8	88	11	52	26	8	2	61	1.40
3496437--3496481	23	2.0	23	86	0	63	17	2	11	68	1.29
3496619--3496931	109	2.9	109	92	0	511	30	15	19	34	1.93
3497995--3498027	6	5.7	6	96	3	59	51	12	0	36	1.39
3510866--3510931	32	2.3	28	82	15	73	24	3	19	53	1.60
3521616--3521673	24	2.4	23	81	13	64	43	0	1	55	1.10
3521629--3521679	24	2.3	21	76	23	52	39	0	1	58	1.09
3524291--3524324	15	2.3	15	89	0	50	58	8	14	17	1.61
3524952--3525015	30	2.1	31	82	5	76	43	7	10	37	1.69
3526545--3526859	129	2.5	129	86	3	431	23	19	23	33	1.97
3530839--3530867	3	9.7	3	100	0	58	65	0	0	34	0.93
3531264--3531303	16	2.5	17	80	11	50	20	0	7	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3536422--3536525	54	1.9	54	98	0	199	39	18	23	19	1.92
3558463--3558502	20	2.1	19	85	4	53	60	0	10	30	1.30
3563151--3563206	19	2.9	19	71	10	51	17	0	5	76	0.96
3563760--3563825	26	2.4	27	78	12	73	36	3	0	60	1.12
3564863--3564895	16	2.1	16	88	11	50	42	0	9	48	1.35
3565410--3565454	22	2.0	22	100	0	90	22	28	13	35	1.92
3565844--3565876	17	1.9	17	93	0	57	51	0	6	42	1.26
3568584--3568614	5	6.2	5	100	0	62	19	38	19	22	1.93
3569258--3569320	30	2.1	30	87	0	90	26	3	14	55	1.54
3570623--3570748	28	4.5	28	89	0	180	30	12	26	30	1.93
3571874--3571985	23	4.8	23	73	9	84	28	16	13	41	1.87
3571874--3572034	70	2.3	69	81	7	182	27	14	17	40	1.89
3573290--3573320	3	10.3	3	100	0	62	67	0	0	32	0.91
3576816--3576926	18	6.2	18	84	0	150	34	15	23	27	1.94
3583315--3583351	10	3.5	11	85	14	51	56	0	2	40	1.13
3584596--3584628	16	2.1	16	88	11	50	42	0	9	48	1.35
3585544--3585576	17	1.9	17	93	0	57	51	0	6	42	1.26
3589288--3589350	30	2.1	30	96	0	117	26	3	12	57	1.51
3590294--3590344	3	17.0	3	100	0	102	66	0	0	33	0.92
3591083--3591112	15	1.9	15	93	6	51	43	3	0	53	1.17
3592010--3592050	16	2.3	18	84	12	50	17	7	0	75	1.02
3595284--3595321	19	2.0	20	89	5	60	34	5	13	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596738--3596771	17	2.0	17	94	0	59	44	50	0	5	1.26
3601378--3601411	17	2.0	17	94	0	59	44	50	0	5	1.26
3602603--3602637	13	2.5	15	90	9	56	51	0	0	48	1.00
3602576--3602652	35	2.2	35	78	15	81	53	0	2	44	1.14
3602755--3602790	17	2.1	17	89	0	54	44	0	0	55	0.99
3602907--3602953	20	2.4	21	79	13	64	25	8	4	61	1.43
3606388--3606451	29	2.3	28	81	10	69	57	0	6	35	1.24
3614371--3614444	37	2.0	37	100	0	148	29	27	16	27	1.97
3616361--3616396	16	2.1	16	90	10	54	55	0	0	44	0.99
3617207--3617242	16	2.1	16	90	10	54	44	0	0	55	0.99
3628304--3628350	25	1.9	24	83	12	60	31	6	2	59	1.34
3632192--3632388	98	2.0	98	92	0	331	37	24	9	28	1.87
3633841--3633953	19	5.8	19	91	4	190	37	15	9	38	1.80
3633841--3633952	40	2.8	40	97	2	210	37	14	9	38	1.79
3633834--3633953	59	2.1	56	90	6	188	37	15	9	38	1.79
3634588--3634619	13	2.5	13	94	0	55	31	0	12	56	1.37
3634714--3634955	50	4.7	50	86	4	297	26	24	29	19	1.99
3634714--3634963	100	2.4	103	88	6	364	26	24	29	20	1.99
3636463--3636565	44	2.3	44	80	15	115	33	21	14	31	1.93
3636515--3637311	132	6.0	132	93	0	1371	29	23	18	28	1.98
3636483--3637103	44	14.1	44	64	10	144	29	22	18	29	1.97
3642188--3642384	98	2.0	98	93	0	340	37	24	10	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3643233--3643282	22	2.2	22	89	3	73	62	6	2	30	1.31
3643434--3643631	72	2.8	71	76	10	208	26	20	24	28	1.99
3644452--3644493	13	3.3	13	80	6	50	16	2	30	50	1.58
3644621--3644709	14	6.4	14	71	11	58	21	1	30	47	1.58
3644624--3644705	21	3.9	19	74	13	56	21	1	30	46	1.59
3645143--3645382	115	2.1	116	89	3	378	30	18	19	31	1.96
3645244--3645953	261	2.7	261	92	2	1142	27	18	21	32	1.96
3646510--3646587	34	2.3	34	93	0	129	29	11	14	44	1.80
3646924--3647080	73	2.1	74	96	3	300	50	1	6	41	1.36
3647120--3647346	19	12.5	19	68	23	100	46	19	0	32	1.56

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213