genome.fa.s9.2.7.7.80.10.50.1000.99.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   256   
          257   258   259   

This is table  99  of  259  ( 31025 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)
32223926--32224081	82	1.9	81	88	3	233	29	28	15	26	1.96
32245801--32245862	30	2.1	29	90	3	97	32	24	16	27	1.96
32248652--32248733	41	2.0	41	100	0	164	36	26	2	34	1.70
32257214--32257278	33	2.0	33	100	0	130	36	24	9	29	1.86
32261367--32261423	5	11.0	5	75	20	55	3	17	1	77	1.00
32261367--32261423	16	3.7	14	82	15	60	3	17	1	77	1.00
32261365--32261434	20	3.3	20	73	18	63	4	18	1	75	1.04
32262285--32262351	11	5.6	11	83	16	73	14	5	7	71	1.28
32262284--32262351	12	5.6	12	84	8	84	14	5	7	72	1.26
32263974--32264058	30	2.8	30	78	0	98	29	16	24	29	1.97
32267447--32267507	20	3.0	20	92	0	104	34	11	21	32	1.89
32267563--32267738	24	7.4	24	96	1	284	28	22	21	27	1.99
32267946--32268009	31	2.1	31	87	0	92	39	14	21	25	1.91
32270568--32270631	30	2.2	29	94	2	110	35	23	15	25	1.94
32276158--32276473	40	7.9	40	91	1	492	26	20	28	24	1.99
32284480--32284796	40	7.9	40	91	1	492	26	20	29	23	1.99
32286594--32286760	46	3.6	46	77	12	162	23	19	26	31	1.98
32286584--32286755	93	1.8	93	86	2	247	23	19	27	30	1.98
32286985--32287022	19	2.0	20	85	15	53	36	0	23	39	1.55
32288135--32288196	28	2.2	28	91	0	97	29	8	30	32	1.86
32289266--32289298	12	2.6	13	85	9	50	45	0	45	9	1.35
32291308--32291377	29	2.4	28	75	17	70	32	20	1	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32298175--32298351	27	6.5	27	84	3	185	26	14	28	29	1.95
32298175--32298330	82	1.9	81	87	6	226	26	14	28	29	1.95
32298171--32298351	82	2.2	81	82	4	222	27	14	28	29	1.96
32302324--32302367	19	2.5	17	82	10	52	52	0	9	38	1.33
32304735--32304792	20	2.9	20	97	0	107	34	12	20	32	1.90
32304739--32304792	11	5.3	11	70	17	53	35	12	20	31	1.90
32304843--32304915	23	3.1	23	92	3	119	28	20	19	31	1.97
32304842--32304936	24	4.0	24	86	6	131	28	21	21	29	1.98
32307908--32307949	21	2.0	21	100	0	84	38	4	14	42	1.66
32308017--32308129	20	5.2	20	67	21	59	14	32	17	35	1.90
32308027--32308084	28	2.1	28	96	0	107	13	29	18	37	1.90
32308055--32308160	40	2.7	40	89	2	160	16	32	17	33	1.92
32308061--32308159	20	4.9	20	74	4	83	14	32	19	34	1.91
32308626--32308686	29	2.1	29	100	0	122	36	9	13	40	1.77
32309849--32309903	29	1.9	28	92	3	92	20	18	25	36	1.94
32311713--32311772	23	2.6	23	94	0	102	25	21	16	36	1.94
32311689--32311812	23	5.3	23	80	8	94	28	21	16	33	1.95
32313987--32314243	140	1.8	140	92	0	433	36	17	15	31	1.91
32318841--32318891	27	1.9	26	88	4	75	19	25	17	37	1.94
32320957--32321032	38	2.0	38	100	0	152	39	10	28	21	1.86
32320970--32321032	21	3.2	21	69	17	71	38	11	28	22	1.88
32326055--32326106	27	2.0	26	84	3	68	17	26	21	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32326145--32326204	27	2.3	26	85	2	75	21	23	20	35	1.96
32336437--32336479	18	2.4	18	77	14	52	46	6	9	37	1.63
32347726--32347817	42	2.2	42	96	0	166	39	21	11	27	1.89
32347971--32348059	25	3.6	25	89	3	126	25	22	23	28	1.99
32348987--32349038	27	1.9	27	84	7	70	34	13	13	38	1.84
32349050--32349219	27	6.3	26	84	2	178	27	8	22	41	1.83
32349051--32349200	81	1.9	81	87	2	221	28	7	22	42	1.80
32349232--32349321	27	3.3	27	93	0	153	38	11	25	24	1.88
32350983--32351057	27	2.8	27	87	4	107	40	17	10	32	1.84
32351070--32351266	27	7.3	27	85	0	268	31	23	8	36	1.84
32351070--32351265	54	3.6	54	91	0	302	31	23	8	36	1.84
32351164--32351357	27	7.2	27	80	3	95	36	25	7	30	1.84
32351070--32351295	54	4.2	54	86	1	258	32	23	8	36	1.85
32351281--32351384	27	3.9	27	84	2	120	41	24	7	26	1.82
32351369--32351725	27	13.3	27	86	2	468	32	19	21	26	1.97
32351315--32351726	54	7.6	54	85	2	454	33	19	20	26	1.97
32351315--32351725	81	5.1	81	83	3	447	33	19	20	26	1.97
32352072--32352130	22	2.7	22	81	5	66	20	27	22	30	1.98
32352495--32352561	6	10.8	6	78	12	73	17	14	14	52	1.75
32352529--32352570	18	2.3	18	84	8	50	16	16	16	50	1.79
32354841--32354897	28	2.0	28	83	6	71	31	24	21	22	1.98
32354985--32355076	42	2.2	42	96	0	166	39	21	11	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32355224--32355318	25	3.8	25	94	0	154	25	23	25	26	2.00
32355188--32355319	50	2.6	50	79	11	146	25	21	22	30	1.99
32356128--32356192	27	2.4	27	82	5	78	21	24	18	35	1.96
32356334--32356528	54	3.6	51	81	7	201	29	10	21	38	1.87
32356226--32356486	27	9.6	27	80	5	213	30	8	20	41	1.81
32356333--32356528	81	2.4	81	80	7	211	29	10	20	38	1.87
32356518--32356661	27	5.3	27	85	3	191	40	6	21	30	1.79
32356498--32356675	81	2.2	81	76	9	186	38	8	20	33	1.83
32358423--32358521	29	3.5	28	79	9	103	28	28	17	26	1.97
32358751--32358790	16	2.5	16	87	0	62	10	20	20	50	1.76
32362947--32363036	45	2.0	45	95	0	162	25	21	22	31	1.98
32363900--32364084	27	6.9	27	82	4	151	41	18	15	24	1.89
32363899--32364082	54	3.4	52	82	5	183	40	19	15	24	1.90
32363899--32364084	81	2.3	81	83	1	221	40	19	15	24	1.90
32365488--32365660	46	3.7	46	77	14	194	22	20	27	29	1.99
32365485--32365655	93	1.8	93	93	2	299	22	21	28	28	1.99
32373028--32373200	46	3.7	46	75	13	183	21	21	28	28	1.98
32373025--32373195	93	1.8	93	92	0	288	21	21	29	28	1.98
32376147--32376284	27	5.1	27	79	3	152	35	15	20	28	1.93
32376943--32376994	27	2.0	26	84	3	68	17	26	21	34	1.95
32382900--32383045	27	5.4	27	84	3	168	36	17	20	26	1.94
32383761--32383819	27	2.2	26	84	3	73	22	23	18	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32387963--32388021	29	2.0	30	86	3	84	28	23	6	40	1.80
32388746--32388778	11	3.0	11	100	0	66	63	0	0	36	0.95
32391026--32391114	43	2.1	42	85	6	117	30	21	19	29	1.97
32401261--32401290	15	2.0	15	100	0	60	26	33	0	40	1.57
32403104--32403248	40	3.6	40	84	4	175	26	24	24	23	2.00
32411150--32411294	40	3.6	40	85	4	184	26	24	25	23	2.00
32412942--32413091	42	3.5	43	78	8	146	31	25	18	25	1.97
32421163--32421267	23	4.4	24	91	3	160	29	20	20	30	1.97
32421315--32421381	20	3.3	20	91	0	107	34	20	11	32	1.90
32421418--32421465	25	1.9	25	82	0	60	25	14	25	35	1.94
32423501--32423594	25	3.8	25	79	8	102	24	22	25	27	2.00
32425035--32425059	13	1.9	13	100	0	50	40	12	0	48	1.40
32425015--32425053	19	2.1	19	85	9	53	33	12	5	48	1.63
32439299--32439378	29	2.8	28	85	7	108	27	33	15	23	1.94
32439299--32439378	28	2.8	28	85	7	108	27	33	15	23	1.94
32439598--32439640	16	2.7	16	88	0	59	11	13	16	58	1.64
32449265--32449344	28	2.8	28	81	7	90	28	31	15	25	1.95
32468806--32468903	27	3.5	28	90	2	135	26	13	28	31	1.94
32468834--32468916	27	3.0	27	87	5	96	30	12	25	32	1.92
32468806--32468917	28	4.0	27	83	6	98	28	12	25	33	1.92
32477051--32477274	112	2.0	112	95	0	403	26	5	23	44	1.75
32484450--32484519	33	2.1	34	86	2	97	21	22	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32487593--32487724	48	2.8	47	78	9	133	18	17	30	34	1.94
32489245--32489413	25	7.0	24	83	9	202	27	21	21	29	1.99
32489471--32489527	9	5.9	9	73	15	51	35	21	8	35	1.84
32489459--32489529	20	3.5	20	94	0	124	32	21	11	35	1.89
32489464--32489518	11	5.4	11	70	16	55	30	20	12	36	1.90
32489566--32489613	25	1.9	25	86	0	69	25	16	25	33	1.96
32490898--32491021	56	2.3	54	81	5	133	31	7	17	43	1.76
32490898--32491166	55	4.9	54	77	8	190	31	8	18	41	1.81
32490980--32491159	53	3.3	54	83	1	182	30	8	19	41	1.81
32490890--32491173	27	10.4	27	77	6	187	32	8	19	39	1.82

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   256   
          257   258   259