genome.fa.s17.2.7.7.80.10.50.1000.45.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  45  of  185  ( 22116 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)
12674664--12675067	61	6.8	58	69	12	264	50	4	0	43	1.28
12674664--12675141	120	4.0	120	95	0	805	50	4	1	43	1.29
12674923--12675076	18	8.9	18	66	18	76	54	2	0	42	1.19
12679918--12679965	14	3.4	14	79	2	51	10	29	2	58	1.43
12686418--12686450	16	2.1	16	100	0	66	36	6	36	21	1.78
12686673--12686714	15	2.9	15	82	10	52	52	0	0	47	1.00
12686667--12686908	120	2.0	120	96	0	448	49	6	1	42	1.37
12686779--12686825	16	3.0	16	78	12	53	51	2	0	46	1.13
12686725--12686912	61	3.1	61	68	17	174	48	6	2	42	1.42
12686667--12686955	120	2.4	119	89	5	370	50	5	1	42	1.36
12686778--12687263	182	2.6	185	82	10	569	47	4	3	45	1.37
12686949--12687247	91	3.3	91	91	2	492	45	3	4	46	1.38
12687063--12687207	44	3.2	44	68	21	120	47	2	3	46	1.33
12687076--12687121	18	2.7	18	86	6	60	47	2	4	45	1.34
12687025--12687259	47	5.1	46	65	13	126	46	4	3	45	1.42
12688592--12688637	20	2.3	20	92	0	74	45	17	28	8	1.78
12690648--12690685	3	12.7	3	83	10	51	68	0	28	2	1.03
12690650--12690684	17	2.0	18	88	5	54	71	0	25	2	1.00
12690635--12690685	27	2.0	25	84	7	66	66	0	27	5	1.14
12690983--12691033	22	2.2	22	86	6	66	43	0	15	41	1.47
12690994--12691036	22	2.0	22	100	0	86	39	0	13	46	1.44
12693856--12693908	28	1.9	28	84	3	72	43	5	3	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12695959--12696004	24	1.9	24	86	0	65	50	8	2	39	1.46
12696020--12696091	35	2.1	35	94	0	126	29	16	6	47	1.73
12704559--12704584	5	5.2	5	100	0	52	42	19	19	19	1.90
12704674--12704699	5	5.2	5	100	0	52	38	19	19	23	1.93
12704648--12704699	26	2.0	26	81	7	61	34	15	26	23	1.94
12705068--12705115	19	2.6	19	78	18	57	60	0	2	37	1.09
12705616--12705649	9	3.8	9	92	0	59	29	11	14	44	1.81
12705701--12705731	9	3.4	9	90	0	53	38	22	12	25	1.90
12708099--12708194	48	2.0	48	84	9	126	40	2	1	56	1.18
12708297--12708406	49	2.2	49	91	3	177	39	22	4	33	1.75
12713179--12713214	15	2.5	14	82	8	54	75	2	8	13	1.15
12717875--12717922	24	2.0	24	100	0	96	29	16	16	37	1.91
12719479--12719516	15	2.5	15	87	8	51	50	5	2	42	1.39
12744998--12745032	10	3.4	10	84	7	52	31	2	0	65	1.07
12744998--12745049	21	2.5	20	84	9	61	34	1	1	61	1.18
12745696--12745726	11	2.7	12	90	10	55	25	0	0	74	0.82
12751851--12751921	12	6.4	10	73	16	52	14	2	5	77	1.06
12754200--12754249	21	2.4	21	96	0	91	34	14	14	38	1.85
12755387--12755425	14	2.8	14	88	11	62	43	0	7	48	1.31
12755387--12755425	9	4.2	9	81	18	53	43	0	7	48	1.31
12759789--12759839	3	17.0	3	91	0	84	64	1	0	33	1.05
12759903--12759964	23	2.9	22	84	13	76	53	0	6	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12760044--12760124	42	1.9	43	82	7	103	64	4	3	27	1.31
12762942--12762981	20	2.0	21	85	5	55	47	5	0	47	1.24
12763075--12763104	15	2.0	15	93	0	51	86	3	10	0	0.67
12763716--12763746	15	2.1	15	100	0	62	19	25	6	48	1.72
12764384--12764422	13	3.1	13	86	13	55	66	0	0	33	0.92
12772984--12773021	17	2.2	18	85	4	51	55	0	0	44	0.99
12773989--12774065	28	2.9	26	83	7	100	67	1	0	31	0.99
12774007--12774065	28	2.1	28	100	0	118	72	0	0	27	0.84
12781470--12781892	43	9.8	43	84	0	515	26	29	21	22	1.99
12782207--12782255	21	2.3	21	86	6	64	4	40	18	36	1.70
12782210--12782407	87	2.3	86	88	4	283	10	31	19	38	1.86
12782292--12782342	21	2.4	21	86	0	66	3	41	17	37	1.68
12787886--12787926	16	2.7	15	92	7	73	43	0	14	41	1.45
12787950--12787985	19	1.9	19	88	5	56	36	2	13	47	1.58
12787951--12788106	50	3.3	50	73	15	184	40	1	12	45	1.52
12788001--12788163	43	3.6	43	73	15	150	41	2	11	44	1.54
12788044--12788106	16	3.9	15	82	14	72	39	1	12	46	1.52
12787870--12788152	93	3.1	92	92	2	478	39	2	12	44	1.57
12788767--12788802	15	2.5	15	90	4	56	63	8	16	11	1.49
12790624--12790659	13	2.6	14	86	8	56	33	0	0	66	0.92
12791652--12791899	73	3.4	73	94	1	424	33	19	18	29	1.96
12792980--12793073	41	2.3	41	83	3	127	20	25	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12793044--12793351	41	7.5	41	82	6	336	33	21	24	21	1.97
12793044--12793350	124	2.5	122	82	6	350	32	21	24	21	1.98
12793465--12793555	41	2.2	41	80	7	105	15	24	24	36	1.94
12793547--12793571	12	2.1	12	100	0	50	32	36	24	8	1.84
12801909--12801984	31	2.4	32	87	8	104	32	2	0	64	1.07
12803784--12803958	58	3.0	59	89	3	255	33	6	9	50	1.60
12806222--12806272	22	2.3	22	100	0	102	27	33	0	39	1.57
12807448--12807472	7	3.6	7	100	0	50	28	0	12	60	1.32
12808590--12808710	25	5.0	25	73	15	110	42	0	13	44	1.43
12808569--12808736	71	2.4	67	86	8	239	39	0	13	47	1.43
12808757--12809436	23	28.0	23	81	10	616	50	21	4	23	1.66
12808767--12809436	51	13.8	46	83	8	712	50	21	4	23	1.66
12809349--12809459	23	4.9	20	83	10	71	50	26	1	21	1.59
12808766--12809436	74	9.2	69	81	8	678	50	21	4	23	1.66
12809433--12809464	16	1.9	17	93	6	57	43	37	0	18	1.51
12809478--12809693	115	1.9	115	88	6	330	40	10	6	42	1.67
12812610--12812973	123	2.9	124	89	1	568	33	20	15	30	1.93
12818015--12818071	22	2.8	20	73	21	57	50	1	5	42	1.35
12818092--12818132	20	2.0	20	85	0	55	46	0	0	53	1.00
12818244--12818280	13	2.6	15	87	12	60	62	0	10	27	1.28
12818724--12818796	4	18.2	4	100	0	146	24	0	24	50	1.49
12820685--12820715	16	1.9	16	93	0	53	22	0	35	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12821326--12821364	21	1.9	20	89	5	60	25	7	2	64	1.33
12821783--12821872	33	2.6	35	77	15	89	55	0	0	44	0.99
12822721--12822765	4	11.2	4	100	0	90	24	24	0	51	1.49
12824994--12825045	19	2.7	19	96	0	95	46	3	19	30	1.68
12831071--12831119	18	3.1	15	78	18	55	26	4	2	67	1.19
12836179--12836404	42	5.4	42	86	3	289	27	22	19	30	1.98
12836919--12836955	2	18.5	2	100	0	74	51	48	0	0	1.00
12838343--12838431	25	3.6	24	82	7	99	16	28	17	37	1.92
12857726--12857855	22	5.9	22	82	8	133	15	14	21	48	1.80
12857774--12857900	68	1.9	67	84	9	170	15	14	22	48	1.81
12857847--12857896	22	2.3	22	86	13	68	20	18	16	46	1.85
12857860--12857920	20	2.9	21	82	4	70	16	18	22	42	1.89
12857752--12857921	88	1.9	86	81	9	200	15	15	22	46	1.83
12860068--12860539	64	7.2	63	68	14	224	34	14	15	35	1.88
12860068--12860808	131	5.7	131	86	3	877	34	14	15	34	1.88
12866766--12866798	15	2.2	15	94	0	57	24	30	27	18	1.98
12869512--12869545	17	1.9	18	88	5	52	47	11	8	32	1.71
12875792--12875825	5	6.6	5	96	3	59	76	0	0	23	0.79
12880986--12881034	20	2.4	20	93	3	80	38	16	0	44	1.48
12882809--12882926	58	2.0	58	91	0	191	60	9	9	21	1.55
12885987--12886011	12	2.1	12	100	0	50	84	0	16	0	0.63
12886037--12886061	13	1.9	13	100	0	50	80	0	4	16	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12892146--12892192	23	2.0	23	87	0	67	40	6	10	42	1.65
12893200--12893309	22	4.6	25	75	15	108	19	25	18	37	1.94
12893200--12893276	25	3.2	25	85	5	88	19	25	18	36	1.94
12896277--12896309	18	1.9	18	88	11	52	75	18	6	0	1.00
12898753--12898807	26	2.1	26	100	0	110	29	7	23	40	1.81
12899589--12899635	23	2.0	23	91	0	76	42	4	10	42	1.59
12899726--12899790	26	2.4	27	82	14	80	66	3	29	1	1.16
12902336--12902370	16	2.2	16	89	0	52	17	17	22	42	1.88
12904953--12905003	6	8.2	6	81	16	59	66	0	19	13	1.24
12906242--12906267	7	3.7	7	100	0	52	11	0	0	88	0.52

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