genome.fa.s15.2.7.7.80.10.50.1000.16.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   214   215   216   217   218   219   220   221   222   

This is table  16  of  222  ( 26535 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)
5289281--5289324	19	2.3	19	84	7	54	65	4	4	25	1.30
5292606--5292703	46	2.2	45	98	1	187	31	8	6	54	1.55
5296345--5296414	35	2.0	35	100	0	140	34	8	17	40	1.80
5297747--5297899	82	1.9	82	83	5	202	33	26	18	20	1.96
5297747--5297903	41	3.8	41	83	5	183	34	26	18	21	1.96
5300875--5300947	23	3.2	23	77	14	71	20	19	16	43	1.88
5303252--5303409	41	3.9	41	81	5	158	34	25	18	20	1.96
5303978--5304039	31	2.0	31	100	0	124	45	9	3	41	1.53
5306424--5306496	23	3.2	23	77	14	71	20	19	16	43	1.88
5308801--5308959	41	3.9	41	84	4	187	33	25	18	22	1.96
5309544--5309589	13	3.0	16	70	23	53	41	10	4	43	1.59
5309529--5309589	30	2.0	31	96	3	115	44	9	3	42	1.54
5309531--5309582	13	3.6	13	74	20	50	46	7	1	44	1.43
5311968--5312032	23	2.9	23	80	15	82	20	18	18	43	1.89
5323260--5323896	99	6.4	99	95	0	1132	33	25	19	21	1.96
5325216--5325262	3	15.7	3	95	0	67	34	6	0	59	1.23
5325697--5325750	22	2.4	23	75	3	56	31	9	7	51	1.61
5332827--5332853	5	5.4	5	100	0	54	59	0	0	40	0.98
5335893--5335941	24	2.0	26	88	8	75	59	6	6	28	1.46
5336500--5336543	14	2.8	16	86	13	56	47	0	0	52	1.00
5336909--5336945	13	3.0	13	84	7	51	54	0	0	45	1.00
5336937--5337005	24	2.9	23	87	8	86	56	0	5	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5336913--5337005	23	4.0	23	81	5	98	54	0	4	40	1.20
5344006--5344105	42	2.4	42	96	0	182	37	16	28	19	1.92
5354981--5355047	30	2.2	31	78	5	73	28	19	14	37	1.91
5355915--5355979	30	2.2	30	85	0	85	38	16	18	26	1.92
5359904--5359972	29	2.5	29	80	15	83	49	0	0	50	1.00
5359904--5359975	26	2.7	26	76	16	74	50	0	0	50	1.00
5359904--5359977	17	3.9	19	72	22	59	50	0	0	50	1.00
5363728--5363752	11	2.3	11	100	0	50	40	0	0	60	0.97
5375192--5375233	21	1.9	23	85	9	61	33	11	19	35	1.88
5378908--5378940	11	3.3	10	88	12	50	57	0	42	0	0.98
5386397--5386452	18	3.1	19	76	20	57	69	5	5	19	1.28
5388479--5389525	132	7.9	132	95	0	1846	29	25	16	27	1.97
5396188--5396221	15	2.3	15	94	0	59	58	11	14	14	1.63
5401444--5401656	106	2.0	106	86	1	293	29	16	14	40	1.87
5404530--5404575	24	2.0	23	83	12	58	58	15	2	23	1.48
5405984--5406021	18	2.1	19	90	5	60	60	5	0	34	1.19
5410984--5411226	10	24.8	9	66	22	75	35	3	3	56	1.35
5411102--5411183	19	4.3	19	72	15	71	34	3	3	58	1.33
5411095--5411194	29	3.5	28	74	15	96	35	3	3	59	1.28
5411095--5411175	39	2.1	39	84	9	103	34	3	2	59	1.29
5411629--5411684	29	1.9	29	85	7	78	33	5	1	58	1.31
5411636--5411691	20	2.9	18	80	19	60	30	7	3	58	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5411784--5411835	19	2.6	19	87	6	68	36	1	1	59	1.19
5410782--5412373	653	2.5	649	81	6	1786	35	6	12	45	1.69
5412281--5412327	20	2.3	20	88	0	67	29	0	4	65	1.11
5414398--5414426	10	2.7	11	94	5	51	20	0	27	51	1.47
5419059--5419160	24	4.3	24	83	5	136	26	13	10	49	1.75
5419990--5420048	31	1.9	31	92	0	100	22	22	3	52	1.61
5420140--5420241	22	4.3	23	80	13	102	39	20	24	15	1.92
5424855--5424934	41	2.0	41	92	0	133	27	21	20	31	1.98
5425189--5425242	12	4.2	12	77	13	63	44	9	3	42	1.54
5427874--5427961	22	3.9	22	74	12	79	38	19	25	17	1.92
5427873--5427999	25	5.3	24	77	12	120	40	20	22	16	1.91
5430400--5430449	24	2.1	24	96	0	91	42	4	22	32	1.72
5434157--5434315	84	1.9	84	82	7	198	32	28	16	22	1.96
5434161--5434324	43	3.9	42	74	15	149	32	29	17	20	1.95
5438909--5438981	5	13.8	5	77	17	60	39	1	4	54	1.28
5438909--5438983	17	4.2	17	77	15	73	40	1	4	54	1.27
5438909--5438983	24	3.2	23	79	9	80	40	1	4	54	1.27
5438989--5439022	17	2.0	17	94	0	59	79	0	17	2	0.86
5438989--5439022	9	3.9	9	84	7	52	79	0	17	2	0.86
5439951--5440065	44	2.6	44	85	2	149	35	13	22	27	1.92
5439951--5440084	46	3.0	45	82	4	153	35	14	23	26	1.93
5445838--5445903	8	7.4	8	72	21	51	57	4	4	33	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5446475--5446523	26	2.0	25	84	8	64	53	0	8	38	1.31
5448946--5448981	17	2.1	17	100	0	72	47	25	0	27	1.52
5450197--5450335	40	3.5	40	96	0	251	28	22	20	28	1.99
5452675--5452753	39	2.0	39	100	0	158	35	16	12	35	1.87
5457076--5457114	20	1.9	21	89	5	62	43	20	2	33	1.65
5458789--5458846	28	2.1	28	90	0	89	48	15	0	36	1.45
5458797--5458856	28	2.1	28	81	0	66	50	16	0	33	1.46
5462406--5462578	43	4.0	43	87	0	240	26	30	21	22	1.99
5462605--5462837	43	5.4	43	91	1	333	19	22	29	28	1.98
5462605--5462837	86	2.7	86	91	1	369	19	22	29	28	1.98
5466774--5467007	16	15.2	15	66	27	93	41	1	11	45	1.51
5466777--5466876	43	2.4	40	79	14	112	42	1	10	47	1.44
5466799--5466943	40	3.0	50	68	30	152	41	1	11	46	1.48
5466796--5466956	43	3.6	43	77	13	173	42	1	11	44	1.50
5466768--5467017	91	2.7	93	91	2	416	40	2	12	45	1.53
5467620--5467655	15	2.5	15	90	4	56	63	8	16	11	1.49
5471764--5471857	41	2.3	41	79	3	118	22	24	23	29	1.99
5471828--5472076	41	6.2	40	84	8	312	31	24	25	18	1.98
5471828--5472060	78	3.0	77	83	6	297	32	24	24	18	1.97
5471828--5472076	81	3.1	79	84	9	319	31	24	25	18	1.98
5472146--5472235	41	2.2	40	80	11	94	15	23	24	36	1.94
5472792--5472856	32	2.0	32	100	0	130	47	21	9	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5473281--5473361	41	2.0	41	92	0	135	25	11	23	39	1.88
5473360--5473398	20	2.0	20	84	0	51	53	2	2	41	1.28
5474933--5474997	18	3.3	19	70	19	53	44	0	0	55	0.99
5482828--5482897	28	2.7	26	76	14	74	31	1	2	64	1.17
5483156--5483190	17	2.2	17	90	10	56	11	5	25	57	1.56
5485314--5485410	22	4.3	23	88	5	153	31	25	21	20	1.98
5492680--5492777	23	4.3	23	88	2	153	31	25	21	21	1.98
5492687--5492775	45	2.0	45	93	0	151	31	25	22	20	1.98
5498374--5498399	11	2.4	11	100	0	52	61	0	0	38	0.96
5501036--5501083	16	3.1	15	90	6	69	64	2	2	31	1.16
5501032--5501087	24	2.3	24	81	6	69	66	1	1	30	1.12
5501032--5501083	8	6.5	8	82	8	61	65	1	1	30	1.14
5501279--5501386	50	2.2	48	78	15	121	52	3	8	35	1.49
5501292--5501351	28	2.2	27	82	8	68	55	3	6	35	1.43
5501237--5501386	25	6.0	26	74	13	93	52	4	8	34	1.51
5501313--5501399	25	3.3	27	67	15	67	55	2	5	36	1.37
5501406--5501451	25	1.9	25	86	8	69	60	0	4	34	1.16
5501943--5502055	30	3.8	30	89	0	172	23	3	47	24	1.67
5501943--5502055	60	1.9	60	92	0	190	23	3	47	24	1.67
5502802--5502851	14	3.6	14	81	7	57	64	4	12	20	1.43
5502874--5503074	76	2.7	75	84	3	273	33	20	14	31	1.93
5503061--5503088	14	2.0	14	100	0	56	57	7	21	14	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5503070--5503293	74	3.0	73	90	1	340	32	22	17	27	1.96
5503218--5503386	93	1.8	92	87	6	252	34	20	16	28	1.95
5502823--5503708	239	3.7	238	92	3	1376	34	21	16	27	1.95
5503347--5503548	73	2.8	73	92	1	336	33	22	16	27	1.95
5503532--5503563	14	2.3	14	94	0	55	65	9	12	12	1.47
5503385--5503692	161	1.9	158	87	4	449	33	22	16	26	1.95
5513602--5513649	16	3.1	15	90	6	69	64	2	2	31	1.16
5513598--5513653	24	2.3	24	81	6	69	66	1	1	30	1.12
5513598--5513649	8	6.5	8	82	8	61	65	1	1	30	1.14
5513764--5513822	23	2.8	20	71	24	59	55	6	5	32	1.48

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   214   215   216   217   218   219   220   221   222