genome.fa.s25.2.7.7.80.10.50.1000.160.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  160  of  196  ( 23409 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)
46965935--46965967	6	5.5	6	100	0	66	0	69	0	30	0.88
46969783--46970118	126	2.7	126	91	0	548	31	16	20	31	1.95
46973229--46973253	10	2.5	10	100	0	50	48	0	8	44	1.32
46973236--46973573	111	3.0	110	96	2	604	47	5	12	35	1.64
46973574--46974020	29	14.8	30	82	12	301	22	0	31	45	1.53
46973573--46974020	93	4.9	92	85	9	539	22	0	31	45	1.53
46973607--46974020	122	3.4	122	92	2	652	22	0	31	45	1.53
46973983--46974038	23	2.4	24	84	6	78	23	1	30	44	1.63
46974084--46974132	25	1.9	25	87	4	71	38	16	4	40	1.67
46974531--46974565	18	1.9	18	88	0	52	31	8	34	25	1.86
46975217--46975241	7	3.6	7	100	0	50	60	12	0	28	1.32
46976200--46976230	15	2.0	16	93	6	55	67	6	0	25	1.14
46976323--46976371	10	4.8	10	77	5	53	67	0	0	32	0.91
46976323--46976387	31	2.1	31	97	0	121	64	0	0	35	0.94
46976329--46976370	21	2.0	21	85	0	57	64	0	0	35	0.94
46980745--46980846	52	2.0	52	90	0	159	30	11	23	34	1.91
46987701--46987753	25	2.2	26	83	10	67	56	5	1	35	1.34
46991017--46991045	14	2.1	14	100	0	58	41	27	17	13	1.87
46994267--46994500	116	2.0	117	93	0	398	38	15	10	35	1.83
46995846--46995879	16	2.1	16	88	0	50	50	14	17	17	1.79
46998213--46998250	17	2.2	17	81	9	51	50	0	0	50	1.00
46998584--46998633	26	1.9	26	95	0	91	38	6	0	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46999619--46999646	14	2.0	14	100	0	56	35	7	0	57	1.26
47000064--47000140	27	2.9	27	96	0	136	14	31	29	24	1.94
47000198--47000259	28	2.2	27	88	8	97	50	0	6	43	1.28
47000660--47000711	20	2.5	21	79	14	63	40	0	5	53	1.25
47001390--47001451	27	2.2	28	85	5	90	24	24	6	45	1.76
47013758--47013872	61	1.9	61	85	0	158	37	6	15	40	1.75
47015142--47015194	23	2.3	23	93	0	97	32	26	20	20	1.98
47015420--47015458	18	2.2	17	86	13	53	46	20	0	33	1.51
47017049--47017089	21	1.9	22	95	5	75	39	0	2	58	1.11
47020431--47020488	17	3.6	17	78	15	61	68	0	31	0	0.89
47020640--47020707	22	3.2	22	89	6	104	27	1	10	60	1.38
47020640--47020865	21	10.4	20	67	24	104	31	1	11	55	1.46
47020595--47020810	103	2.0	107	82	8	264	32	1	11	54	1.45
47021000--47021080	37	2.2	37	95	2	144	55	2	2	39	1.26
47024232--47024273	21	2.0	22	90	4	68	0	28	2	69	1.01
47024234--47024283	18	2.6	18	84	9	55	2	28	2	68	1.12
47024344--47024421	27	2.9	27	80	3	86	23	33	25	17	1.96
47025070--47025181	56	2.0	56	96	3	208	18	20	19	41	1.91
47026151--47026196	17	2.8	17	75	18	53	47	0	0	52	1.00
47030363--47030452	21	4.5	20	72	14	78	60	3	2	34	1.26
47030385--47030463	38	2.1	38	100	0	158	59	5	2	32	1.33
47033139--47033233	39	2.4	39	96	0	172	4	20	38	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47033193--47033284	24	3.7	24	78	8	94	6	18	42	32	1.76
47034679--47034764	19	4.5	19	68	18	54	46	1	0	52	1.08
47035556--47035608	16	3.4	16	75	17	58	60	0	0	39	0.97
47035552--47035607	29	1.9	29	89	7	87	58	0	0	41	0.98
47041693--47041881	39	4.8	38	70	15	118	33	4	12	49	1.60
47044696--47044751	8	7.1	8	79	4	69	26	1	23	48	1.61
47046902--47047202	157	1.9	156	87	6	441	32	10	8	48	1.67
47047153--47047369	119	1.8	119	85	2	310	33	8	5	51	1.57
47047252--47047752	152	3.3	151	80	7	589	30	10	6	52	1.61
47046971--47047523	271	2.0	275	88	5	834	32	9	6	50	1.62
47048081--47048130	19	2.6	19	75	15	57	0	38	0	62	0.96
47048107--47048153	14	3.3	14	81	3	58	0	34	0	65	0.93
47048286--47048360	5	15.4	5	71	18	52	62	0	36	1	1.04
47048282--47048343	10	5.6	11	75	21	58	59	0	38	1	1.07
47048301--47048371	20	3.5	20	84	5	90	66	0	32	1	1.01
47048286--47048360	24	3.3	24	75	17	79	62	0	36	1	1.04
47048696--47049548	153	5.7	149	80	10	943	52	7	10	29	1.62
47048696--47049556	303	2.9	296	88	5	1236	52	7	10	29	1.62
47049158--47049553	138	2.8	140	81	14	416	51	6	12	29	1.64
47052900--47053069	43	4.0	42	79	14	197	22	18	28	30	1.97
47052912--47053069	84	1.9	84	85	7	223	22	19	28	29	1.98
47053230--47053261	16	1.9	17	93	6	57	40	0	21	37	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47055867--47056075	76	2.7	77	76	8	219	49	11	4	34	1.58
47055867--47056070	37	5.3	38	71	16	125	50	11	4	34	1.58
47055940--47055986	23	2.0	23	84	8	60	59	14	2	23	1.46
47056655--47056700	21	2.1	22	84	11	60	71	15	6	6	1.27
47057337--47057366	11	2.6	12	89	10	53	40	0	33	26	1.57
47059103--47059178	9	9.1	8	75	18	59	51	1	0	47	1.09
47059110--47059225	25	4.7	25	66	25	59	50	3	0	45	1.18
47059217--47059306	22	4.0	22	74	16	69	53	2	0	44	1.13
47059855--47059912	23	2.5	22	83	5	62	12	10	3	74	1.19
47059929--47059971	18	2.2	20	88	8	63	39	0	0	60	0.97
47060024--47060071	14	3.9	13	74	23	50	47	0	0	52	1.00
47060017--47060074	23	2.5	23	86	8	73	44	0	0	55	0.99
47060104--47060154	22	2.3	22	93	3	84	52	0	0	47	1.00
47060176--47060217	21	2.0	22	90	4	68	50	0	0	50	1.00
47060176--47060224	21	2.3	21	85	3	62	48	2	2	46	1.25
47060245--47060294	22	2.3	22	86	6	66	58	2	0	40	1.10
47060290--47060334	24	1.9	23	86	4	63	80	4	6	8	1.03
47063544--47063578	17	2.1	17	88	0	52	0	20	14	65	1.26
47074690--47074722	11	2.8	12	81	9	50	69	0	0	30	0.88
47075983--47076076	44	2.1	44	90	0	143	30	10	19	39	1.85
47077951--47078007	14	4.2	13	75	20	55	40	26	7	26	1.81
47078233--47078314	43	1.9	43	85	9	114	31	29	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47084133--47084187	29	2.0	27	83	13	69	27	10	3	58	1.49
47086337--47086362	6	4.3	6	100	0	52	15	50	0	34	1.45
47087437--47087466	7	4.3	7	95	0	51	0	3	43	53	1.17
47112909--47112981	11	6.6	11	77	3	76	26	30	1	42	1.64
47112907--47112981	22	3.4	22	84	12	100	25	29	1	44	1.63
47112907--47112981	33	2.3	32	84	6	96	25	29	1	44	1.63
47114274--47114309	16	2.2	17	90	5	56	33	0	0	66	0.92
47115248--47115272	12	2.1	12	100	0	50	48	16	24	12	1.79
47128167--47128205	20	2.0	20	84	0	51	61	0	0	38	0.96
47128276--47128343	30	2.2	30	79	7	75	50	2	0	47	1.16
47131287--47131341	23	2.4	23	100	0	110	47	3	0	49	1.19
47131506--47131540	19	1.9	18	88	11	54	51	2	0	45	1.16
47131510--47131548	18	2.2	18	86	9	53	51	2	0	46	1.14
47137756--47137793	19	2.1	19	85	5	51	57	15	2	23	1.51
47146006--47146036	4	7.8	4	100	0	62	25	51	0	22	1.48
47148890--47148933	23	1.9	23	86	9	63	36	2	0	61	1.09
47148907--47148943	18	2.2	18	85	9	51	45	0	2	51	1.15
47157217--47157264	21	2.2	22	85	3	62	58	6	6	29	1.47
47157321--47157536	112	1.9	113	92	2	364	50	8	6	33	1.60
47160685--47161054	184	2.1	174	82	7	429	33	18	22	24	1.97
47163315--47163349	18	1.9	18	88	0	52	48	17	8	25	1.75
47163393--47163451	31	1.9	30	83	10	75	20	33	0	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47163707--47163737	16	1.9	16	100	0	62	22	32	0	45	1.53
47163724--47163769	20	2.2	21	77	11	51	17	36	0	45	1.49
47178290--47178350	31	2.0	31	87	6	88	47	8	8	36	1.63
47179125--47179166	22	1.9	22	90	0	66	38	0	26	35	1.57
47185564--47185630	32	2.1	32	94	0	116	17	28	40	13	1.88
47197934--47197979	16	2.9	16	83	0	56	17	2	8	71	1.21
47197932--47197980	20	2.5	20	80	6	64	16	4	10	69	1.32
47198534--47198755	107	2.1	106	88	3	322	31	18	16	33	1.93
47201117--47201451	74	4.5	74	87	2	440	29	20	17	32	1.95
47201748--47201884	73	1.9	73	90	0	220	29	27	19	24	1.99

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196