genome.fa.s25.2.7.7.80.10.50.1000.172.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  172  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)
50182596--50182685	46	2.0	46	93	4	157	38	28	4	27	1.76
50182665--50182701	16	2.3	16	100	0	74	21	35	5	37	1.77
50184484--50184530	21	2.2	21	96	0	85	27	23	25	23	2.00
50191570--50191649	25	3.4	25	63	16	62	33	26	6	33	1.81
50196091--50196136	24	1.9	24	82	8	58	45	4	47	2	1.34
50203043--50203094	22	2.3	23	83	9	63	42	1	3	51	1.31
50205511--50205607	11	9.7	10	66	23	53	25	1	5	68	1.17
50205509--50205591	20	4.3	19	76	14	64	27	1	4	66	1.19
50205509--50205591	38	2.2	38	82	10	98	27	1	4	66	1.19
50207359--50207386	7	4.0	7	100	0	56	14	42	0	42	1.45
50211178--50211243	15	4.1	16	76	17	66	53	3	0	43	1.16
50212160--50212198	20	2.0	20	85	5	53	35	0	7	56	1.28
50213019--50213055	18	2.1	18	100	0	74	51	21	5	21	1.68
50218022--50218061	5	8.2	5	88	5	64	20	2	0	77	0.88
50218022--50218058	19	1.9	19	94	0	65	18	2	0	78	0.87
50218900--50218934	16	2.1	18	89	10	56	51	0	48	0	1.00
50218931--50218985	27	2.0	28	89	6	87	80	0	16	3	0.86
50219224--50219282	26	2.3	26	82	5	75	22	42	30	5	1.75
50219679--50219716	20	1.9	20	100	0	76	34	15	10	39	1.82
50219831--50219878	18	2.8	17	78	6	60	31	18	10	39	1.85
50219955--50220028	35	2.1	35	89	0	112	33	13	10	41	1.79
50219977--50220028	17	3.0	17	75	13	61	30	13	11	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50219982--50220131	44	3.4	42	75	9	149	25	13	15	46	1.82
50220141--50220189	17	2.9	17	84	6	55	28	10	8	53	1.63
50220149--50220239	17	5.2	16	76	15	83	30	8	9	50	1.66
50220170--50220207	19	2.0	20	94	5	69	23	5	10	60	1.50
50220153--50220226	36	2.0	37	82	7	89	27	8	9	55	1.60
50220219--50220297	19	4.1	20	83	9	110	39	11	10	39	1.75
50220228--50220297	20	3.7	19	83	16	92	38	11	11	38	1.78
50220149--50220251	53	1.9	53	82	3	127	30	8	10	50	1.67
50221709--50221746	18	2.2	18	81	9	53	52	0	0	47	1.00
50222822--50222872	6	8.2	6	77	14	50	43	3	0	52	1.19
50222877--50222977	50	2.0	50	82	3	123	32	4	4	57	1.42
50234943--50234993	18	2.9	18	74	14	52	29	31	0	39	1.57
50264517--50264571	27	1.9	29	85	10	78	34	1	0	63	1.05
50264517--50264579	30	2.1	29	83	13	76	33	1	0	65	1.03
50267942--50268003	29	2.1	30	84	6	81	32	8	16	43	1.77
50269133--50269194	29	2.2	28	85	5	90	27	12	14	45	1.82
50291179--50291220	19	2.2	20	82	4	50	54	11	0	33	1.37
50291316--50291343	14	2.0	14	100	0	56	14	21	21	42	1.88
50303427--50303468	16	2.5	17	85	14	52	61	4	2	30	1.29
50303427--50303474	18	2.8	16	81	18	53	62	4	4	29	1.32
50303556--50303592	18	2.0	19	89	5	58	51	0	0	48	1.00
50303786--50303839	9	5.7	9	75	12	54	29	3	3	62	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50303776--50303841	20	3.3	20	85	4	89	25	6	3	65	1.30
50303776--50303851	20	3.8	21	82	6	79	26	5	2	65	1.27
50303692--50303938	125	2.0	126	87	5	365	34	4	3	58	1.34
50303917--50303983	21	3.2	20	77	14	64	31	5	1	61	1.29
50303940--50303984	21	2.3	21	88	11	69	35	4	0	60	1.17
50304387--50304421	18	1.9	18	94	0	61	42	2	0	54	1.15
50324301--50324340	19	2.2	18	86	4	53	62	12	2	22	1.42
50328714--50328780	34	1.9	35	87	3	100	34	7	10	47	1.66
50331305--50331356	25	2.1	25	92	7	88	38	9	26	25	1.86
50332224--50332324	28	3.4	30	82	11	104	32	1	0	65	1.04
50332222--50332296	30	2.5	28	85	10	96	33	2	0	64	1.08
50332232--50332320	41	2.1	42	88	10	130	34	2	0	62	1.07
50332273--50332343	28	2.4	31	86	11	103	32	1	1	64	1.11
50332232--50332342	39	2.8	38	80	12	107	33	1	0	63	1.11
50337819--50337897	40	2.0	40	100	0	158	55	7	17	18	1.65
50337914--50337961	21	2.3	22	82	7	64	41	10	0	47	1.37
50337914--50337970	21	2.7	21	78	5	62	36	12	0	50	1.40
50344286--50344373	41	2.2	40	89	2	131	25	18	20	36	1.95
50345408--50345451	17	2.6	17	92	3	72	29	0	20	50	1.49
50346202--50346431	46	5.0	46	91	1	363	36	8	25	30	1.85
50352826--50352864	21	1.9	20	94	5	69	76	0	23	0	0.78
50352835--50352869	17	2.1	17	89	10	54	74	0	25	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50353749--50353879	41	3.3	40	78	5	117	26	18	20	34	1.96
50353740--50353830	37	2.4	37	81	7	101	27	18	19	34	1.96
50363576--50363614	20	1.9	21	89	5	62	25	2	2	69	1.14
50365640--50365678	17	2.3	18	83	16	57	20	12	0	66	1.24
50365643--50365681	16	2.5	15	88	12	60	23	12	0	64	1.28
50368203--50368227	5	5.0	5	100	0	50	60	0	0	40	0.97
50370853--50370911	21	2.8	22	79	7	68	49	15	18	16	1.80
50370858--50370924	21	3.2	21	77	8	64	43	16	22	17	1.88
50372342--50372404	33	2.0	33	84	6	85	44	7	14	33	1.74
50373502--50373584	25	3.2	25	63	9	67	46	6	8	38	1.59
50373491--50373597	53	2.0	53	100	0	214	47	5	7	39	1.55
50373501--50373587	28	3.2	28	61	9	72	48	5	8	37	1.57
50374646--50374694	20	2.5	19	80	9	53	34	6	10	48	1.62
50376525--50376582	21	2.8	21	76	7	55	36	13	12	37	1.82
50387692--50388027	167	2.0	167	97	0	636	31	31	10	26	1.90
50389571--50389630	31	1.9	31	82	0	75	20	21	11	46	1.82
50390238--50390277	17	2.4	16	84	12	53	35	5	2	57	1.34
50390298--50390341	22	2.0	22	86	0	61	47	0	0	52	1.00
50391196--50391235	13	3.0	13	85	3	53	72	2	0	25	0.97
50395255--50395335	39	2.1	39	90	0	126	50	8	17	23	1.73
50401455--50401492	19	2.0	19	100	0	76	31	0	0	68	0.90
50410785--50410827	11	4.0	11	84	3	61	30	2	46	20	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50410785--50410827	21	2.0	21	90	4	68	30	2	46	20	1.63
50414869--50414943	18	4.2	18	89	0	105	36	17	20	26	1.94
50420198--50420231	17	2.0	17	88	0	50	23	23	14	38	1.92
50422064--50422107	20	2.3	19	84	4	52	50	2	9	38	1.47
50422403--50422451	24	2.1	24	84	3	64	53	10	8	28	1.63
50431296--50431427	56	2.4	56	93	0	228	44	11	15	28	1.81
50433302--50433336	15	2.3	15	90	5	52	82	2	14	0	0.77
50433331--50433360	12	2.5	12	94	0	51	73	16	10	0	1.09
50439233--50439324	23	3.9	23	78	15	89	30	21	26	21	1.99
50439576--50439634	29	2.0	29	100	0	118	30	10	10	49	1.70
50446173--50446286	41	2.8	41	91	0	183	34	21	15	28	1.94
50448436--50448475	19	2.1	19	90	0	62	30	20	0	50	1.49
50448669--50448850	39	4.4	39	78	12	184	40	19	19	21	1.92
50448662--50448850	84	2.2	87	85	6	269	40	19	19	21	1.91
50448662--50448850	45	4.4	45	80	11	223	40	19	19	21	1.91
50457543--50457606	22	2.9	22	85	0	92	18	21	17	42	1.89
50464602--50464674	36	2.0	36	94	0	128	35	24	12	27	1.91
50465891--50466017	61	2.1	61	86	1	175	40	4	14	40	1.66
50469173--50469208	6	5.8	6	93	3	54	77	0	2	19	0.88
50471424--50471457	2	17.0	2	100	0	68	50	0	0	50	1.00
50480340--50480373	16	2.0	17	88	11	52	70	0	0	29	0.87
50485512--50485560	16	3.1	16	74	8	55	42	6	8	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50488061--50488164	4	25.5	4	96	3	190	26	0	24	49	1.51
50488292--50488324	17	1.9	17	100	0	66	36	12	27	24	1.91
50504248--50504277	2	15.0	2	100	0	60	0	0	50	50	1.00
50512308--50512344	16	2.2	17	90	4	58	37	2	54	5	1.38
50517431--50517482	24	2.2	24	85	0	68	38	3	7	50	1.50
50534620--50534687	33	2.1	33	94	0	118	36	25	16	22	1.94
50540008--50540080	22	3.1	22	79	13	67	19	4	0	76	0.94
50540008--50540073	5	13.0	5	80	16	57	19	3	0	77	0.90
50540008--50540073	17	4.0	16	76	18	64	19	3	0	77	0.90
50541093--50541131	20	2.0	20	89	0	60	84	2	7	5	0.84

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