genome.fa.s18.2.7.7.80.10.50.1000.9.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  9  of  208  ( 24943 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)
3605287--3605332	21	2.2	21	84	7	58	50	0	0	50	1.00
3607264--3607302	18	2.2	18	86	9	53	43	17	0	38	1.50
3614011--3614062	24	2.2	24	82	6	61	55	1	1	40	1.22
3621965--3622010	20	2.3	20	85	7	58	28	4	19	47	1.68
3623907--3623950	21	2.1	21	86	0	61	2	22	47	27	1.63
3626082--3626134	11	5.0	10	80	13	54	50	1	26	20	1.58
3626085--3626134	22	2.3	22	83	12	68	54	2	26	18	1.54
3629374--3629402	2	14.5	2	100	0	58	51	48	0	0	1.00
3632428--3632473	24	2.0	24	82	4	58	45	2	4	47	1.34
3646213--3646485	125	2.2	124	86	2	377	32	21	15	30	1.94
3647647--3647830	10	19.0	9	67	19	52	61	1	4	32	1.25
3647661--3647830	19	8.6	19	64	17	60	60	1	4	33	1.26
3647670--3647750	30	2.8	30	83	9	96	59	0	1	39	1.05
3647646--3647749	30	3.7	29	78	12	92	63	0	1	33	1.12
3648584--3648620	3	12.3	3	100	0	74	32	0	0	67	0.91
3648659--3648702	22	2.0	23	86	4	63	9	11	2	77	1.08
3657902--3657930	14	2.0	15	93	6	51	41	10	0	48	1.37
3667475--3667525	26	2.0	26	100	0	102	43	15	9	31	1.80
3676613--3676642	15	1.9	16	93	6	53	30	0	3	66	1.07
3684056--3684124	33	2.1	34	97	2	131	27	21	2	47	1.65
3688304--3688377	37	2.0	37	100	0	148	32	5	2	59	1.34
3695718--3695782	24	2.8	24	85	2	87	26	10	20	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3697434--3697507	33	2.2	33	82	0	85	24	20	17	37	1.93
3699362--3699415	25	2.2	24	87	6	81	57	0	1	40	1.09
3699735--3699842	15	7.2	15	69	12	87	43	7	23	25	1.79
3699728--3699842	30	3.8	30	97	0	203	44	6	23	25	1.78
3704428--3704535	15	7.2	15	71	12	87	43	7	22	26	1.79
3704421--3704535	30	3.8	30	95	0	194	44	6	22	26	1.78
3705403--3705491	44	2.0	47	86	6	130	32	5	4	57	1.42
3707497--3707526	15	2.0	15	100	0	60	53	6	33	6	1.53
3711945--3712072	45	3.0	44	83	8	149	18	18	22	39	1.92
3711914--3712073	39	4.0	39	79	10	160	19	18	21	40	1.92
3713270--3713322	27	2.0	27	85	7	72	58	9	32	0	1.30
3722389--3722460	35	2.1	35	100	0	144	25	5	25	44	1.75
3723113--3723168	9	6.1	9	72	12	51	42	3	1	51	1.29
3723113--3723179	7	7.9	8	76	23	50	47	2	1	47	1.26
3734794--3734940	64	2.3	65	90	6	230	40	15	17	26	1.89
3736545--3736579	17	2.0	17	88	5	52	22	5	0	71	1.07
3736765--3736800	16	2.2	16	90	0	54	30	0	30	38	1.58
3737015--3737069	15	3.4	16	80	16	53	54	1	0	43	1.10
3737021--3737069	16	2.9	18	80	20	61	55	0	0	44	0.99
3736922--3737392	156	3.0	156	94	0	798	43	3	6	47	1.45
3737191--3737225	18	2.0	17	88	5	52	54	0	0	45	0.99
3745303--3745347	19	2.4	19	88	7	65	42	0	13	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3745428--3745537	46	2.5	46	92	4	181	33	15	24	26	1.95
3748331--3748381	27	1.9	27	92	4	86	31	31	21	15	1.95
3748255--3748561	103	3.0	102	90	1	472	32	27	18	21	1.96
3748434--3748483	26	1.9	26	95	0	91	30	30	24	16	1.96
3748255--3748561	102	3.0	102	90	1	472	32	27	18	21	1.96
3749627--3749660	11	2.8	12	91	8	52	35	8	11	44	1.72
3750292--3750316	8	3.1	8	100	0	50	64	0	0	36	0.94
3751263--3751396	40	3.4	39	74	7	128	26	17	23	32	1.97
3754903--3754940	20	1.9	20	88	0	58	42	7	5	44	1.56
3755715--3755744	15	2.0	15	100	0	60	86	0	13	0	0.57
3773234--3773312	40	2.0	40	82	7	99	54	1	2	41	1.22
3799719--3799798	11	7.4	11	73	12	76	40	1	0	58	1.06
3799710--3799799	20	4.2	20	77	9	90	37	1	0	61	1.04
3799739--3799798	11	5.4	11	82	9	77	41	1	0	56	1.09
3799707--3799799	22	4.4	20	80	10	89	38	1	0	60	1.04
3802082--3802140	22	2.7	23	75	17	63	42	6	8	42	1.61
3813229--3813271	23	2.0	23	81	9	54	65	2	0	32	1.06
3813512--3813561	21	2.4	21	93	0	82	32	38	8	22	1.83
3828659--3828694	3	12.3	3	94	5	65	33	0	0	66	0.92
3837716--3837748	15	2.1	17	88	11	52	42	24	0	33	1.55
3838923--3838957	14	2.4	14	90	4	52	45	0	2	51	1.16
3847747--3847840	27	3.5	27	94	4	156	39	12	0	47	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3847887--3847965	26	3.0	26	83	7	97	29	22	30	17	1.97
3848039--3848108	19	3.7	19	82	3	97	37	10	0	52	1.35
3848044--3848114	37	1.9	37	100	0	142	39	11	0	49	1.39
3848323--3848383	19	3.1	20	75	15	65	36	8	0	55	1.30
3848330--3848390	20	3.2	19	84	9	79	34	6	0	59	1.24
3848519--3848604	27	3.2	26	85	4	102	19	26	23	30	1.98
3848640--3848738	28	3.7	28	90	4	143	50	0	9	40	1.34
3849997--3850037	6	6.8	6	100	0	82	31	34	17	17	1.93
3850260--3850337	31	2.7	30	77	11	83	32	6	2	58	1.37
3852911--3852953	11	3.8	12	82	17	56	25	23	2	48	1.62
3852947--3853044	51	1.9	51	83	4	126	28	22	3	45	1.67
3853040--3853074	17	2.1	17	88	0	52	34	2	0	62	1.10
3854178--3854224	7	6.7	7	100	0	94	27	0	14	57	1.38
3854800--3854859	27	2.2	27	90	0	93	26	31	16	25	1.96
3856992--3857067	23	3.3	23	94	0	134	21	19	26	32	1.97
3859509--3859801	126	2.3	125	83	5	369	30	20	19	30	1.97
3860626--3860711	31	2.8	30	78	7	91	39	3	2	54	1.30
3868649--3868710	30	2.1	28	85	5	79	30	6	14	48	1.69
3884664--3884702	21	1.9	21	89	5	62	76	10	2	10	1.10
3884788--3884834	20	2.3	21	85	14	71	59	0	40	0	0.97
3884788--3884841	26	2.0	27	85	3	74	57	0	40	1	1.09
3885146--3885177	17	1.9	17	93	6	57	75	6	9	9	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885164--3887016	159	11.6	159	88	4	2630	53	8	8	29	1.61
3885648--3885688	18	2.3	18	95	0	73	41	4	12	41	1.64
3885164--3887016	473	3.9	471	88	5	2668	53	8	8	29	1.61
3885164--3887016	633	2.9	628	89	3	2726	53	8	8	29	1.61
3890220--3890367	37	3.9	37	71	15	113	50	11	4	33	1.59
3890276--3890322	23	2.0	23	84	8	60	59	14	2	23	1.46
3890224--3890365	76	1.9	76	88	2	214	52	11	4	30	1.59
3890184--3890407	76	2.9	74	73	9	207	49	12	4	33	1.61
3890911--3890944	5	6.8	5	93	0	59	55	0	2	41	1.15
3890906--3890964	10	6.1	10	80	7	50	47	0	1	50	1.11
3890910--3890968	20	2.8	21	80	12	68	50	0	1	47	1.11
3892039--3892141	22	4.4	23	80	12	104	15	24	20	39	1.91
3892945--3892985	13	3.3	13	76	13	50	2	34	0	63	1.08
3893013--3893051	9	4.1	10	83	12	55	0	25	0	74	0.82
3893672--3893720	18	2.7	18	81	9	55	34	14	10	40	1.79
3895782--3895819	20	1.9	20	100	0	76	65	0	5	28	1.14
3895782--3895819	11	3.6	11	79	13	53	65	0	5	28	1.14
3896161--3896195	18	1.9	18	100	0	70	11	28	0	60	1.32
3897449--3897476	7	4.0	7	100	0	56	42	14	14	28	1.84
3899154--3899347	61	3.2	61	71	11	191	43	2	5	48	1.38
3899112--3899378	120	2.2	120	93	0	453	43	1	4	49	1.33
3899322--3899356	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3899504--3899608	44	2.5	40	76	15	113	31	29	4	34	1.78
3899502--3899611	45	2.6	44	81	8	131	31	29	5	33	1.80
3903878--3903912	18	1.9	18	88	11	54	37	0	2	60	1.12
3903966--3904001	15	2.4	15	100	0	72	16	30	36	16	1.91
3904189--3904260	8	8.4	8	71	14	54	47	13	1	37	1.52
3904215--3904318	27	3.7	27	75	20	115	52	11	0	35	1.38
3904228--3904331	16	6.1	16	70	16	50	53	11	0	34	1.37
3904242--3904335	49	1.9	49	95	0	170	53	12	0	34	1.39
3904250--3904335	22	3.7	22	82	14	118	53	12	0	33	1.39
3904392--3904640	134	1.9	134	96	0	462	33	1	14	51	1.50

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