genome.fa.s4.2.7.7.80.10.50.1000.132.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  132  of  255  ( 30512 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)
42421063--42421097	2	18.0	2	88	5	54	51	45	0	2	1.16
42430356--42430500	43	3.4	41	74	13	125	26	24	20	28	1.99
42432600--42432646	13	3.6	13	94	0	85	31	38	29	0	1.58
42433570--42433937	46	7.8	45	74	10	215	24	30	19	25	1.98
42433723--42433937	94	2.3	94	86	4	283	25	29	18	26	1.98
42442360--42442391	6	5.3	6	92	0	55	46	31	3	18	1.65
42444250--42444363	43	2.7	43	82	5	133	32	22	17	27	1.96
42449904--42449962	27	2.2	27	85	11	77	23	22	8	45	1.79
42452541--42452777	119	2.0	118	85	5	318	35	12	31	20	1.90
42459536--42459715	40	4.6	40	80	5	197	25	25	23	26	2.00
42466638--42466779	38	3.6	39	84	7	182	26	21	27	25	1.99
42466651--42466812	78	2.1	77	82	7	195	27	20	27	24	1.99
42473713--42473896	40	4.7	40	82	8	209	25	21	27	25	2.00
42473765--42473929	79	2.1	79	82	8	194	26	21	27	24	1.99
42485435--42485461	13	2.1	13	100	0	54	55	29	7	7	1.55
42485957--42485999	16	2.9	14	77	16	50	39	4	20	34	1.74
42493574--42493701	38	3.3	39	82	7	156	26	26	21	25	1.99
42493588--42493775	38	5.1	40	78	15	169	27	27	21	23	1.99
42493684--42493776	32	2.8	33	76	12	100	29	26	21	22	1.99
42501712--42501903	40	4.8	40	89	1	278	26	28	20	25	1.99
42504148--42504291	40	3.6	40	83	3	191	24	25	23	27	2.00
42504112--42504291	80	2.3	79	85	3	229	25	25	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42512907--42512936	15	2.1	15	93	6	53	33	0	6	60	1.23
42513917--42514312	41	9.7	41	79	1	391	23	29	13	33	1.93
42514183--42514290	20	5.3	20	64	8	56	19	28	14	37	1.92
42518716--42518868	42	3.6	42	78	1	146	26	26	16	30	1.97
42530343--42530483	55	2.6	55	81	0	147	26	29	27	15	1.96
42535916--42535940	13	1.9	13	100	0	50	12	8	16	64	1.49
42535930--42535964	16	2.1	17	89	5	54	17	11	14	57	1.66
42542707--42542827	46	2.6	47	87	10	160	23	27	20	28	1.99
42543999--42544055	22	2.6	22	86	5	80	12	35	33	19	1.89
42546358--42546529	93	1.8	93	94	0	308	27	29	21	21	1.99
42546351--42546526	46	3.8	46	78	12	207	28	28	21	21	1.98
42550281--42550599	48	6.6	48	76	5	216	24	27	18	29	1.98
42554895--42554992	42	2.3	42	89	3	153	31	23	14	30	1.94
42556699--42556830	42	3.1	41	79	8	140	31	23	16	28	1.96
42563395--42563508	43	2.7	42	83	2	138	27	28	14	30	1.95
42573565--42573595	14	2.2	14	94	0	53	48	3	0	48	1.17
42574935--42574961	12	2.2	12	100	0	54	44	7	25	22	1.79
42575959--42576040	6	13.7	6	71	10	60	75	2	4	17	1.08
42575964--42576040	32	2.3	34	82	10	97	74	2	5	18	1.13
42575978--42576040	26	2.3	27	89	5	92	76	1	3	19	1.01
42575959--42576042	22	3.9	21	76	16	73	75	2	4	17	1.09
42575978--42576042	27	2.4	25	85	12	85	75	1	3	20	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42583278--42583325	25	1.9	25	86	0	69	37	25	12	25	1.91
42583373--42583428	11	5.5	11	71	16	57	35	12	19	32	1.89
42583362--42583428	20	3.3	20	93	0	116	34	11	20	32	1.90
42583477--42583645	24	7.0	24	91	2	250	28	23	21	26	1.99
42584718--42584837	48	2.5	48	84	5	147	28	22	15	34	1.94
42588425--42588607	79	2.3	81	84	7	232	24	22	27	25	2.00
42588426--42588609	40	4.6	40	83	9	216	23	22	28	25	2.00
42588478--42588632	79	2.0	79	84	7	208	25	21	27	25	1.99
42590607--42590639	13	2.6	13	90	4	50	48	12	0	39	1.40
42595487--42595545	30	2.0	30	96	0	109	45	11	6	35	1.67
42602244--42602666	54	8.0	53	76	14	329	22	24	15	37	1.93
42602281--42602727	208	2.1	210	95	0	799	23	23	15	36	1.94
42602653--42602821	47	3.6	47	94	0	293	26	23	13	36	1.92
42602960--42603044	44	1.9	44	83	4	109	25	23	11	38	1.89
42604796--42604827	15	2.1	15	94	0	55	34	9	21	34	1.86
42613600--42613745	78	1.9	78	98	0	283	30	21	19	28	1.98
42621870--42622094	40	5.6	40	90	1	344	24	23	26	25	2.00
42629196--42629374	85	2.1	85	100	0	358	37	8	27	26	1.85
42630540--42630724	40	4.7	40	82	7	191	25	22	26	25	2.00
42630593--42630757	79	2.1	79	82	6	192	26	20	27	26	1.99
42633094--42633318	40	5.6	40	91	1	353	24	24	26	25	2.00
42637478--42637527	20	2.5	20	83	6	66	42	14	14	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42640784--42640831	16	3.0	16	87	6	62	58	0	2	39	1.10
42640804--42640843	18	2.2	18	90	0	62	72	2	0	25	0.97
42640804--42640895	9	9.3	9	70	18	51	68	1	2	28	1.08
42640829--42640866	12	3.2	12	92	0	58	73	2	2	21	1.07
42640813--42640895	42	2.0	42	83	9	107	68	1	2	27	1.09
42641080--42641206	9	13.2	9	67	25	57	32	3	2	61	1.27
42641084--42641117	11	3.2	11	83	8	52	23	2	0	73	0.97
42641126--42641206	9	8.5	10	71	22	59	34	1	2	61	1.17
42641155--42641216	27	2.2	28	88	5	90	38	0	0	61	0.96
42644021--42644070	22	2.3	22	82	6	66	36	2	0	62	1.07
42645693--42645739	3	15.7	3	100	0	94	34	0	0	65	0.93
42647647--42647700	27	2.0	27	85	7	74	66	1	0	31	1.02
42649527--42649562	12	3.0	12	87	0	54	25	0	0	75	0.81
42649770--42649820	23	2.2	23	82	0	66	74	11	7	5	1.21
42654321--42654457	44	3.1	44	82	3	150	44	14	20	20	1.86
42654366--42654534	44	3.8	44	76	12	157	46	11	18	23	1.81
42656195--42656220	12	2.2	12	100	0	52	42	15	7	34	1.75
42657835--42658108	48	5.7	48	78	1	271	30	17	27	24	1.97
42657838--42658161	96	3.4	95	80	2	380	31	18	26	23	1.97
42657838--42658108	144	1.9	144	80	0	317	30	17	27	23	1.97
42665580--42665927	48	7.3	48	75	7	305	29	18	26	25	1.98
42665609--42665879	96	2.8	96	86	2	350	28	18	28	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42674429--42674465	16	2.3	17	81	13	51	35	0	8	56	1.29
42674435--42674464	16	1.9	16	93	6	53	33	0	10	56	1.32
42686635--42686806	93	1.8	93	93	0	299	27	29	22	20	1.99
42686628--42686803	46	3.8	46	78	12	207	28	28	21	20	1.98
42694356--42694403	19	2.5	19	93	6	80	37	4	16	41	1.68
42695676--42695719	19	2.5	17	82	17	54	61	2	2	34	1.21
42696197--42696400	54	3.7	58	72	15	178	31	18	19	30	1.96
42696155--42696516	108	3.2	109	82	6	413	33	18	19	28	1.95
42696259--42696454	54	3.6	54	69	5	144	30	17	20	32	1.95
42702759--42703040	49	5.9	47	71	19	197	58	1	14	25	1.43
42702759--42703088	75	4.5	74	78	12	311	57	1	13	26	1.44
42702759--42703121	27	15.1	22	66	24	125	58	1	13	26	1.42
42702978--42703088	26	4.3	26	68	16	79	57	0	10	30	1.39
42702860--42703078	118	1.9	117	91	0	357	56	1	14	27	1.47
42703059--42703128	21	3.3	20	72	18	61	67	0	7	25	1.16
42703072--42703105	17	1.9	18	88	5	52	70	0	0	29	0.87
42702866--42703121	118	2.2	117	85	2	334	58	0	13	26	1.41
42703053--42703134	43	1.9	43	85	7	114	63	0	6	30	1.19
42703132--42703215	5	15.6	5	74	9	60	57	1	21	20	1.48
42703138--42703215	16	4.8	16	82	7	95	56	1	21	20	1.49
42702789--42703184	193	2.1	192	79	9	423	57	1	14	26	1.45
42703141--42703231	32	2.8	32	88	3	119	58	1	21	18	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42703132--42703215	11	7.8	10	72	12	60	57	1	21	20	1.48
42703132--42703232	16	6.2	16	79	4	67	59	0	20	18	1.44
42703518--42703558	18	2.3	18	86	0	64	73	0	4	21	1.02
42704083--42704121	13	3.0	13	85	11	53	25	2	5	66	1.25
42707865--42707894	16	1.9	16	93	6	53	70	6	3	20	1.25
42708492--42708785	107	2.8	105	78	8	317	30	15	19	34	1.93
42708494--42708754	107	2.5	106	84	3	321	31	15	18	34	1.92
42708494--42708843	106	3.3	106	80	4	287	32	15	19	31	1.93
42708494--42708843	107	3.3	107	80	4	273	32	15	19	31	1.93
42710605--42710667	25	2.6	23	80	14	65	52	6	1	39	1.37

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255