genome.fa.s17.2.7.7.80.10.50.1000.110.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  110  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)
34590383--34590446	19	3.4	19	80	6	76	26	1	0	71	0.94
34590385--34590466	20	4.2	20	78	12	73	25	2	1	70	1.06
34591245--34591307	26	2.5	26	87	7	85	33	1	1	63	1.13
34591430--34591483	26	2.1	25	82	3	63	37	1	9	51	1.45
34603267--34603334	30	2.3	30	84	0	91	60	0	1	38	1.06
34603658--34603726	27	2.4	29	83	7	88	33	1	1	63	1.12
34603902--34604119	91	2.4	91	85	2	287	36	9	18	34	1.84
34603902--34604148	91	2.7	88	80	9	239	34	9	18	38	1.83
34605407--34605931	285	1.8	287	81	7	663	35	14	11	38	1.82
34605241--34606381	291	3.9	290	75	10	810	35	14	12	37	1.83
34605703--34606381	293	2.3	289	81	6	716	36	14	11	37	1.82
34616594--34616740	57	2.5	56	80	9	152	31	20	25	21	1.98
34616805--34616939	67	2.0	67	92	0	225	22	18	31	28	1.97
34627956--34628456	44	11.3	44	79	4	488	29	23	15	31	1.95
34627956--34628495	89	6.1	89	83	6	673	29	23	15	30	1.96
34627961--34628456	265	1.9	266	88	4	750	29	23	15	31	1.95
34628574--34628900	44	7.4	44	65	13	143	28	23	17	31	1.97
34628510--34628972	132	3.5	132	91	1	714	28	22	19	29	1.98
34629772--34629796	13	1.9	13	100	0	50	56	8	24	12	1.62
34633062--34633101	19	2.0	20	85	4	55	47	7	20	25	1.75
34642879--34642937	31	1.9	31	86	6	84	28	1	11	57	1.44
34643156--34643180	10	2.5	10	100	0	50	92	0	0	8	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34643880--34643913	17	2.0	17	88	11	52	67	0	32	0	0.91
34643957--34643999	17	2.4	19	88	7	63	53	0	44	2	1.13
34644456--34644519	33	1.9	33	100	0	128	42	1	12	43	1.52
34645966--34645996	14	2.2	14	94	0	53	32	19	6	41	1.77
34646659--34646704	6	7.7	6	87	0	65	21	45	30	2	1.64
34646858--34646931	33	2.2	33	82	0	85	24	40	8	27	1.83
34647257--34647357	48	2.1	48	88	1	150	53	11	4	29	1.58
34650834--34651101	33	7.7	33	74	18	208	31	26	20	20	1.98
34650843--34651074	108	2.1	108	95	0	410	33	26	19	20	1.97
34653517--34653558	16	2.6	16	96	0	75	66	16	0	16	1.25
34658589--34658618	13	2.3	13	94	0	51	43	0	56	0	0.99
34670573--34670784	108	1.9	110	86	3	304	26	16	7	49	1.72
34671201--34671252	24	2.1	25	86	10	72	36	11	19	32	1.87
34671575--34672263	44	15.7	44	82	4	759	29	21	25	23	1.99
34671575--34672263	219	3.1	219	95	0	1227	29	21	25	23	1.99
34671575--34672263	175	3.9	176	85	4	815	29	21	25	23	1.99
34673244--34673466	43	5.2	42	79	6	216	30	26	17	24	1.97
34673240--34673466	85	2.7	85	81	4	242	31	26	17	24	1.97
34679063--34679088	13	2.0	13	100	0	52	53	7	7	30	1.57
34679126--34679473	54	6.0	54	69	19	195	43	2	3	50	1.31
34679293--34679327	18	2.0	17	88	5	52	45	0	0	54	0.99
34679172--34679588	120	3.5	120	95	1	730	43	2	5	49	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34679425--34679471	16	3.0	16	78	12	53	46	0	2	51	1.13
34679364--34679551	61	3.1	61	68	17	183	42	2	6	48	1.42
34679536--34679577	15	2.9	15	82	10	52	47	0	0	52	1.00
34679800--34679846	16	2.9	16	87	0	67	21	31	4	42	1.72
34683929--34684012	22	3.9	21	72	6	69	45	25	1	28	1.61
34683997--34684035	14	2.8	14	84	0	60	46	30	0	23	1.53
34688474--34688581	51	2.1	52	96	1	200	34	24	9	32	1.87
34689632--34689704	28	2.5	30	82	8	80	60	9	9	20	1.56
34692158--34692184	14	1.9	14	100	0	54	29	37	14	18	1.91
34707876--34708126	43	5.9	43	78	6	224	26	27	17	29	1.98
34707876--34708060	85	2.2	86	82	6	234	26	28	17	28	1.97
34707876--34708100	85	2.6	83	78	9	213	27	27	16	28	1.97
34707899--34708148	85	3.0	85	78	5	249	27	27	16	29	1.97
34708045--34708148	43	2.5	43	80	3	122	34	25	14	25	1.94
34708412--34708502	43	2.1	43	85	2	121	43	10	12	32	1.77
34712229--34712277	22	2.3	23	80	20	61	48	26	2	22	1.61
34712293--34712341	7	7.0	7	80	0	62	44	36	0	18	1.50
34712293--34712346	14	3.9	14	90	0	81	46	33	0	20	1.51
34712391--34712434	7	6.3	7	80	19	56	43	38	0	18	1.50
34712393--34712434	15	2.9	15	86	6	61	45	38	0	16	1.48
34712470--34712580	7	15.7	7	73	9	64	48	28	2	19	1.63
34712811--34712905	40	2.3	40	94	1	163	60	2	2	35	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34713057--34713168	39	2.8	40	83	2	136	21	24	19	34	1.96
34713171--34713326	75	2.1	75	100	0	312	32	23	15	28	1.95
34715185--34715348	43	3.8	43	91	0	258	25	28	19	26	1.99
34715185--34715410	86	2.6	86	82	3	233	25	28	18	28	1.98
34717908--34717978	21	3.4	21	94	0	124	1	49	16	32	1.55
34719708--34720112	9	46.3	9	65	20	114	31	1	18	48	1.59
34719737--34719974	25	9.9	25	73	14	134	31	1	18	49	1.57
34719752--34720086	16	20.9	16	67	20	104	30	2	18	49	1.59
34719865--34719975	44	2.5	44	94	2	195	29	0	18	52	1.46
34719925--34720003	28	2.8	28	77	7	72	29	1	18	50	1.55
34720005--34720065	25	2.4	25	80	0	68	31	3	18	47	1.64
34720327--34720360	17	2.0	17	94	0	59	55	0	0	44	0.99
34720356--34720444	18	4.8	18	79	14	101	43	1	11	43	1.47
34720349--34720426	39	2.0	41	94	5	142	46	0	10	43	1.37
34720361--34720453	22	4.4	22	66	21	65	44	1	12	41	1.50
34720354--34720448	39	2.4	39	81	18	117	44	1	11	43	1.47
34720428--34720609	47	4.0	46	77	14	209	43	3	14	38	1.62
34721276--34721327	19	2.7	19	93	0	95	38	19	13	28	1.89
34723298--34723407	37	3.0	36	80	7	114	39	36	3	20	1.71
34723276--34723370	21	4.7	21	70	13	83	38	36	3	21	1.69
34723618--34723651	14	2.4	14	100	0	68	44	0	11	44	1.40
34724425--34724515	21	4.1	21	69	14	58	40	41	1	16	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34724790--34724827	14	2.8	13	88	7	58	44	5	13	36	1.66
34724791--34724865	29	2.6	27	76	12	69	46	5	10	37	1.61
34725802--34725831	14	2.1	14	100	0	60	33	6	36	23	1.81
34729060--34729115	20	2.7	21	81	13	53	69	7	12	10	1.36
34729071--34729115	21	2.1	23	88	12	69	68	8	8	13	1.38
34731223--34731261	13	2.9	13	88	7	60	38	12	5	43	1.65
34731224--34731261	14	2.8	13	88	7	58	39	13	5	42	1.66
34732829--34733144	116	2.8	113	78	7	323	28	25	20	25	1.99
34732717--34733144	114	3.7	114	78	5	344	27	26	21	24	1.99
34734777--34734820	18	2.4	18	80	0	52	50	9	20	20	1.75
34735393--34735609	41	5.3	41	85	0	227	24	20	25	29	1.99
34735706--34735756	26	2.0	26	84	0	66	58	5	11	23	1.55
34736016--34736048	14	2.3	15	94	5	59	30	0	33	36	1.58
34736072--34736125	21	2.5	20	77	11	54	20	0	44	35	1.52
34737335--34737390	22	2.5	23	80	8	71	25	46	1	26	1.63
34737635--34737684	23	2.1	23	92	3	82	62	20	4	14	1.47
34741272--34741387	43	2.7	43	80	7	121	23	14	25	37	1.93
34749062--34749129	16	4.2	16	92	0	109	26	0	38	35	1.57
34749110--34749200	45	2.0	44	87	6	130	32	5	27	34	1.80
34749345--34749386	15	2.7	16	82	14	52	52	2	0	45	1.13
34749354--34749395	15	2.9	15	82	10	52	52	0	0	47	1.00
34749343--34749553	107	2.0	108	95	0	379	49	5	1	43	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34749448--34749493	16	2.9	16	78	12	51	52	2	0	45	1.13
34749448--34749502	15	3.7	15	79	13	53	52	1	0	45	1.11
34749346--34749609	107	2.5	107	86	6	335	50	4	1	43	1.33
34750353--34750379	13	2.1	13	100	0	54	22	0	29	48	1.51
34754840--34754871	16	2.0	16	93	0	55	53	0	0	46	1.00
34754842--34754915	16	4.9	16	72	20	54	48	0	0	51	1.00
34754843--34754907	18	3.7	18	76	12	55	47	0	0	52	1.00
34756881--34757066	50	3.8	50	75	4	139	28	20	27	22	1.99
34761289--34761337	20	2.5	20	81	15	66	12	24	6	57	1.58
34767012--34767079	31	2.3	29	80	10	75	45	19	8	26	1.79

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