genome.fa.s4.2.7.7.80.10.50.1000.104.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  104  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)
32691902--32691991	28	3.3	26	89	4	117	20	21	22	36	1.95
32691902--32692008	27	4.0	26	86	6	124	21	22	19	36	1.95
32703887--32703919	15	2.2	16	89	10	52	24	0	21	54	1.45
32704727--32704757	15	2.1	15	93	0	53	29	0	22	48	1.51
32712911--32713012	27	3.8	28	83	5	120	40	21	8	29	1.83
32712965--32713025	27	2.3	27	82	5	70	39	16	16	27	1.90
32712911--32713025	54	2.1	54	82	3	133	40	19	11	29	1.86
32713386--32713444	22	2.7	22	83	0	73	22	27	22	28	1.99
32715216--32715537	159	2.0	159	89	0	491	20	20	28	30	1.98
32718559--32718753	56	3.5	56	86	2	275	34	23	13	28	1.93
32719900--32719928	14	2.0	15	93	6	51	51	20	0	27	1.47
32726048--32726158	27	4.1	26	84	7	132	15	22	23	38	1.92
32726048--32726158	54	2.1	54	86	3	152	15	22	23	38	1.92
32727759--32728688	465	2.0	465	95	0	1689	27	15	33	23	1.95
32734360--32734472	27	4.2	27	83	11	126	14	23	23	39	1.90
32734360--32734472	54	2.1	54	85	6	149	14	23	23	39	1.90
32739574--32739731	43	3.7	42	73	7	113	29	24	21	25	1.99
32740164--32740264	50	2.0	50	92	0	166	29	23	13	32	1.94
32743133--32743192	28	2.1	28	90	0	93	26	10	31	31	1.89
32743148--32743203	28	2.0	28	85	0	76	28	10	25	35	1.89
32743858--32743899	21	2.0	21	95	0	75	23	7	14	54	1.64
32746081--32746134	27	2.0	28	85	7	76	31	18	20	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32754558--32754709	27	5.6	27	92	3	232	26	13	28	30	1.94
32754558--32754709	55	2.8	55	93	0	250	26	13	28	30	1.94
32762230--32762407	27	6.6	27	83	3	205	26	15	28	29	1.96
32762231--32762386	82	1.9	81	88	3	233	26	15	28	29	1.96
32762227--32762407	82	2.2	81	83	2	229	27	15	27	29	1.96
32765790--32765964	56	3.1	54	83	8	208	24	13	29	32	1.94
32765811--32765964	28	5.6	27	90	6	227	25	14	28	31	1.95
32784371--32784491	39	3.1	38	80	7	93	44	9	9	35	1.71
32784400--32784491	39	2.4	38	89	3	139	44	9	8	36	1.68
32785382--32785525	38	3.8	38	79	1	164	16	18	26	38	1.91
32785382--32785525	76	1.9	76	85	5	202	16	18	26	38	1.91
32786220--32786655	238	1.8	238	86	2	624	23	21	28	25	1.99
32788849--32788894	16	2.7	18	77	16	53	78	10	4	6	1.08
32794187--32794276	41	2.2	41	89	0	135	30	31	13	25	1.94
32801940--32802098	27	5.9	27	81	11	175	33	20	25	19	1.96
32801958--32802101	54	2.7	54	91	4	229	34	22	25	18	1.96
32806090--32806159	27	2.6	27	95	2	113	31	28	12	27	1.93
32806090--32806187	28	3.5	28	90	2	135	31	28	13	26	1.94
32811704--32811776	24	2.8	28	74	20	84	35	15	23	26	1.94
32811800--32811998	51	3.9	51	88	1	283	33	15	23	28	1.94
32813280--32813655	48	7.9	48	75	10	276	27	19	28	23	1.98
32813243--32813648	46	8.6	49	76	12	286	28	19	28	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32818347--32818427	25	3.2	25	81	6	101	34	19	23	22	1.96
32819306--32819337	12	2.6	13	90	9	50	50	25	6	18	1.70
32824764--32824962	100	2.0	100	91	0	326	32	10	21	36	1.86
32850532--32850595	31	2.1	31	90	0	101	25	23	15	35	1.94
32850788--32850903	24	5.0	24	88	11	170	27	21	21	29	1.99
32850961--32851017	9	5.9	9	73	15	51	35	21	8	35	1.84
32850957--32851019	20	3.2	20	95	0	117	31	19	12	36	1.89
32851056--32851103	25	1.9	25	86	0	69	25	16	25	33	1.96
32858552--32858615	31	2.1	31	87	0	92	25	21	15	37	1.93
32858808--32858927	24	5.0	24	86	10	165	28	21	20	30	1.98
32858829--32858926	47	2.1	47	92	5	162	29	20	19	30	1.97
32858981--32859023	20	2.2	20	100	0	86	32	18	11	37	1.87
32859060--32859107	25	1.9	25	82	0	60	25	14	25	35	1.94
32861359--32861530	93	1.8	93	94	0	308	29	29	20	21	1.98
32861352--32861527	46	3.8	46	77	12	207	30	28	19	21	1.98
32876014--32876133	40	3.0	40	96	0	213	30	24	20	24	1.99
32883624--32883711	40	2.2	40	91	0	140	32	20	20	26	1.97
32889024--32889061	19	2.0	19	85	10	51	2	13	0	84	0.73
32889026--32889055	7	4.1	7	95	4	51	0	13	0	86	0.57
32890857--32890886	16	1.9	16	93	6	53	36	30	0	33	1.58
32891052--32891211	42	3.8	42	80	3	169	28	27	13	30	1.94
32895311--32895486	46	3.8	46	73	14	164	21	20	28	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32895307--32895479	93	1.9	93	90	2	276	21	20	28	28	1.98
32901126--32901287	42	3.8	42	82	1	198	25	21	16	35	1.94
32904520--32904682	43	3.8	43	84	2	195	29	15	25	30	1.96
32908175--32908288	42	2.7	43	86	1	149	24	15	27	32	1.96
32909158--32909183	13	2.0	13	100	0	52	30	0	15	53	1.42
32914742--32914913	46	3.7	46	77	14	192	20	20	29	29	1.98
32914735--32914906	93	1.8	93	95	2	310	20	22	29	27	1.99
32922892--32923065	46	3.8	46	78	13	203	20	20	29	29	1.98
32922887--32923058	93	1.8	93	93	0	299	20	20	29	29	1.98
32925539--32925602	29	2.2	28	79	15	69	68	1	7	21	1.23
32928311--32928360	9	5.7	9	77	13	50	64	2	0	34	1.05
32935536--32935576	3	13.3	3	94	5	73	31	0	0	68	0.90
32935534--32935576	22	2.0	22	100	0	86	32	0	0	67	0.91
32935539--32935576	19	2.0	19	100	0	76	31	0	0	68	0.90
32937600--32937661	26	2.4	25	79	15	72	30	0	6	62	1.20
32939169--32939221	20	2.5	20	80	17	63	50	0	1	47	1.12
32939882--32939935	24	2.2	24	86	0	72	33	1	7	57	1.37
32944580--32944639	27	2.3	27	94	2	104	16	23	25	35	1.95
32951918--32952067	82	1.8	81	88	4	230	26	16	28	29	1.96
32951914--32952094	82	2.2	81	83	2	229	27	15	27	29	1.96
32951917--32952094	27	6.6	27	83	3	205	26	15	28	29	1.96
32952052--32952105	27	2.0	27	85	0	72	29	14	25	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32959968--32960145	27	6.6	27	83	3	205	26	15	28	29	1.96
32959969--32960124	82	1.9	81	88	3	233	26	15	28	29	1.96
32959965--32960145	82	2.2	81	83	2	229	27	15	27	29	1.96
32963351--32963428	28	2.8	28	76	1	68	38	19	17	24	1.93
32963565--32963628	27	2.4	27	81	5	76	17	21	23	37	1.94
32964171--32964215	23	2.0	23	95	0	81	15	20	22	42	1.89
32964178--32964279	23	4.4	23	78	7	98	23	19	19	37	1.94
32964421--32964505	20	4.3	20	87	1	118	36	5	15	42	1.71
32967438--32967607	46	3.7	46	76	12	168	28	20	30	20	1.97
32973951--32974135	79	2.3	82	84	7	238	25	27	22	24	2.00
32973932--32974135	40	5.1	40	82	8	238	25	27	22	25	2.00
32980934--32981118	79	2.3	82	84	7	238	25	27	22	24	2.00
32980915--32981118	40	5.1	40	82	8	238	25	27	22	25	2.00
32988672--32988701	15	1.9	16	93	6	53	6	23	0	70	1.11
32989599--32989707	46	2.4	44	84	7	130	33	16	25	24	1.96
32989505--32989707	93	2.2	91	80	8	207	31	17	29	22	1.97
32996531--32996555	10	2.5	10	100	0	50	12	8	16	64	1.49
32996933--32996979	20	2.2	21	85	11	69	21	27	29	21	1.98
32996939--32996978	20	2.0	20	95	0	71	15	27	35	22	1.94
33006826--33006990	49	3.5	47	80	8	151	27	30	18	24	1.98
33006823--33007090	46	5.7	46	78	9	233	26	29	17	26	1.98
33014014--33014333	48	6.7	48	73	8	267	25	19	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33014001--33014283	144	2.0	144	80	4	329	25	18	30	25	1.98
33021472--33021665	100	1.9	101	91	1	318	30	26	18	25	1.98
33027305--33027571	48	5.6	48	80	3	281	27	20	30	21	1.98
33028999--33029151	48	3.3	48	83	5	192	24	26	23	25	2.00
33029080--33029177	42	2.3	43	92	3	171	22	22	25	29	1.99
33033133--33033172	15	2.7	15	96	3	73	25	32	22	20	1.98
33038207--33038389	73	2.5	73	96	0	330	30	27	15	26	1.96
33048141--33048364	40	5.6	40	90	1	308	26	28	20	24	1.99
33048144--33048403	80	3.3	80	86	3	276	26	28	20	24	1.99
33048139--33048403	120	2.2	118	81	4	307	27	28	20	24	1.99

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