genome.fa.s4.2.7.7.80.10.50.1000.138.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  138  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)
44533434--44533464	14	2.2	14	100	0	62	32	0	0	67	0.91
44533384--44533519	68	2.0	69	83	9	172	34	2	1	61	1.20
44533365--44533521	9	17.4	9	66	16	60	33	3	1	61	1.22
44535069--44536172	293	3.8	291	75	9	963	36	14	11	37	1.83
44535602--44536172	290	2.0	289	80	6	658	36	14	12	36	1.84
44537772--44537805	16	2.1	16	100	0	68	23	17	20	38	1.93
44540135--44540341	53	3.8	53	76	3	198	37	17	24	20	1.94
44546436--44546577	53	2.6	54	79	2	160	35	19	24	21	1.96
44549439--44549527	28	3.1	28	95	1	160	32	0	20	47	1.50
44551849--44551878	15	2.0	15	93	0	51	43	6	10	40	1.64
44552837--44552879	19	2.2	20	83	4	52	34	0	20	44	1.52
44553321--44553584	46	5.6	48	80	8	165	31	18	26	23	1.97
44553367--44553535	94	1.8	92	83	5	223	33	16	26	24	1.96
44556932--44557074	65	2.2	66	92	1	234	25	23	18	31	1.98
44556932--44557074	33	4.4	32	73	10	110	25	23	18	31	1.98
44569456--44569495	21	2.0	20	90	5	62	35	0	22	42	1.54
44569461--44569503	21	2.1	21	83	12	54	32	2	20	44	1.65
44572965--44572995	12	2.7	12	95	5	55	0	0	29	70	0.87
44573083--44573122	12	3.5	11	87	12	55	87	0	12	0	0.54
44578778--44578952	93	1.9	94	84	3	237	33	8	30	27	1.87
44578778--44578952	47	3.7	47	86	3	228	33	8	30	27	1.87
44580327--44580678	40	8.8	40	89	0	481	24	20	28	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44587423--44587597	93	1.9	94	84	3	237	33	8	30	27	1.87
44587423--44587597	47	3.7	47	86	3	228	33	8	30	27	1.87
44588971--44589322	40	8.8	40	89	0	481	24	20	28	27	1.99
44596092--44596815	47	14.8	48	85	8	862	32	8	29	29	1.87
44596470--44596507	19	2.0	19	100	0	76	21	10	36	31	1.87
44596421--44596556	68	2.0	68	97	0	254	29	8	30	32	1.86
44596372--44596605	117	2.0	117	98	0	450	30	8	29	31	1.86
44598200--44598276	32	2.4	32	82	0	100	44	5	24	25	1.75
44609211--44609250	15	2.7	15	92	7	64	27	20	32	20	1.97
44612288--44612321	5	6.6	5	93	6	59	17	0	0	82	0.67
44612288--44612322	16	2.2	16	100	0	70	17	0	0	82	0.66
44633789--44634091	80	3.8	79	88	3	385	26	28	20	24	1.99
44633819--44634091	120	2.3	120	87	4	381	27	29	20	23	1.99
44633789--44634038	40	6.3	40	94	0	394	26	29	20	23	1.99
44634023--44634100	40	1.9	41	82	10	97	26	28	21	23	1.99
44636613--44636790	27	6.6	27	83	3	205	26	15	28	29	1.96
44636614--44636769	82	1.9	81	88	3	233	26	15	28	29	1.96
44636610--44636790	82	2.2	81	83	2	229	27	15	27	29	1.96
44642568--44642665	42	2.3	42	82	8	119	31	21	18	28	1.97
44642568--44642761	43	4.5	43	80	6	196	30	23	17	28	1.96
44662144--44662202	27	2.3	26	82	11	68	47	1	0	50	1.11
44664620--44664685	14	4.6	14	76	12	64	33	1	1	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44664620--44664687	12	4.8	13	73	20	57	33	1	1	63	1.13
44670937--44670989	16	3.4	16	76	19	51	47	1	0	50	1.12
44672807--44672833	6	4.5	6	100	0	54	18	18	14	48	1.82
44672876--44672982	47	2.3	47	91	0	169	15	19	22	42	1.89
44673110--44673195	18	4.7	18	79	1	91	37	9	13	39	1.78
44673112--44673195	36	2.3	37	85	2	116	38	9	13	39	1.77
44677445--44677526	26	3.2	26	96	0	155	36	26	6	30	1.81
44682720--44682749	16	1.9	15	93	6	51	33	23	0	43	1.54
44682961--44683086	50	2.5	50	83	1	146	30	30	15	23	1.95
44683122--44683183	31	2.0	31	90	0	97	32	30	9	27	1.89
44683156--44683319	50	3.2	48	82	7	193	33	29	14	23	1.93
44683186--44683267	26	3.2	26	62	19	64	29	29	17	24	1.97
44686462--44686548	21	4.0	23	80	10	92	37	25	21	14	1.92
44686918--44686975	15	3.8	15	88	2	89	51	12	0	36	1.39
44695280--44695482	41	5.0	41	84	3	230	24	24	19	32	1.97
44695300--44695483	81	2.3	81	84	2	226	23	24	20	32	1.98
44704233--44704359	60	2.1	62	88	2	186	38	11	12	37	1.80
44706648--44706718	31	2.3	31	80	2	81	43	22	11	22	1.85
44708191--44708243	24	2.2	24	86	0	70	24	15	9	50	1.73
44711389--44711437	23	2.1	23	92	0	80	53	8	12	26	1.66
44711831--44711859	6	4.8	6	100	0	58	82	0	0	17	0.66
44712344--44712403	18	3.2	18	76	4	57	61	5	5	28	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44719400--44719460	30	2.0	30	83	0	77	13	27	31	27	1.94
44727538--44727687	55	2.8	54	80	4	149	26	15	29	28	1.96
44727510--44727687	27	6.6	27	77	6	146	25	15	28	30	1.96
44727511--44727666	82	1.9	81	81	6	190	25	16	28	30	1.96
44729071--44729189	32	3.7	32	78	2	132	21	22	21	35	1.96
44740520--44740609	43	2.1	41	89	4	135	30	33	24	12	1.92
44740581--44740683	38	2.7	38	89	0	143	31	27	19	22	1.98
44744189--44744275	33	2.6	33	88	0	120	24	28	21	25	1.99
44744650--44744841	27	7.2	27	81	5	194	27	18	19	34	1.95
44744650--44744758	51	2.1	52	82	5	130	26	19	19	34	1.95
44744650--44744841	81	2.4	80	86	4	255	27	18	19	34	1.95
44744824--44744909	27	3.2	27	81	0	100	29	12	23	34	1.92
44747641--44747670	14	2.1	14	100	0	60	50	6	0	43	1.28
44748151--44748328	27	6.6	27	85	3	207	27	14	28	29	1.95
44748152--44748307	82	1.9	81	88	3	233	27	14	28	29	1.95
44755435--44755612	27	6.6	27	84	3	196	27	14	28	29	1.95
44755436--44755591	82	1.9	81	86	3	224	27	14	28	29	1.95
44755432--44755612	82	2.2	81	82	2	220	27	14	27	29	1.96
44759610--44759838	46	5.0	45	86	4	278	38	14	24	22	1.92
44759615--44759838	93	2.4	92	84	3	288	38	14	24	21	1.91
44760596--44760635	16	2.5	16	91	0	71	30	35	10	25	1.88
44762012--44762087	38	2.0	38	97	0	143	35	22	13	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44766789--44766888	51	2.0	51	85	0	137	30	29	18	23	1.97
44766910--44767016	43	2.5	42	77	3	117	33	26	14	25	1.95
44768522--44768644	63	2.0	62	91	1	201	26	14	25	34	1.94
44776518--44776839	46	6.8	47	77	10	254	27	17	29	25	1.97
44776481--44776793	46	6.6	48	79	11	240	27	17	29	25	1.98
44788227--44788299	20	3.7	19	72	5	65	31	6	19	42	1.77
44788874--44788943	19	3.9	17	71	21	54	60	4	0	35	1.17
44788911--44788943	10	3.4	10	87	8	50	66	0	0	33	0.92
44788910--44788950	19	2.2	19	86	0	55	63	2	0	34	1.08
44789216--44789253	13	2.8	13	88	4	58	42	0	13	44	1.43
44789267--44789326	10	6.0	10	82	7	68	21	6	3	68	1.28
44793001--44793044	12	3.6	12	77	17	54	22	4	0	72	1.02
44793000--44793035	17	2.1	17	90	10	56	22	2	0	75	0.94
44792971--44793044	25	2.9	24	88	10	94	20	6	0	72	1.06
44794296--44794332	10	3.7	10	85	0	56	86	0	13	0	0.57
44794903--44794940	13	2.8	14	84	15	53	44	0	10	44	1.38
44794953--44795004	10	5.1	10	83	2	59	23	5	1	69	1.20
44796383--44796416	17	1.9	18	94	5	61	26	11	5	55	1.58
44796674--44796720	20	2.3	20	81	0	58	55	8	4	31	1.49
44796703--44796776	10	7.9	9	76	13	69	68	2	1	27	1.10
44796703--44796776	19	3.9	18	74	13	69	68	2	1	27	1.10
44797398--44797446	20	2.3	21	82	10	64	34	0	6	59	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44797534--44797586	17	2.9	19	86	8	67	33	1	0	64	1.05
44797715--44797741	10	2.7	10	100	0	54	18	0	0	81	0.69
44797715--44797758	20	2.1	21	83	4	54	22	0	4	72	1.02
44798281--44798332	24	2.2	24	89	0	77	55	9	1	32	1.43
44800252--44800303	24	2.2	24	92	0	86	57	9	0	32	1.31
44804895--44804936	22	1.9	22	90	0	66	38	11	2	47	1.53
44806649--44806673	6	4.2	6	100	0	50	20	0	0	80	0.72
44806745--44806788	22	2.0	22	86	0	61	52	0	0	47	1.00
44806808--44806849	13	2.9	14	80	13	50	54	0	0	45	0.99
44806812--44806848	16	2.3	16	86	13	58	59	0	0	40	0.97

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