genome.fa.s4.2.7.7.80.10.50.1000.97.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  97  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)
30077110--30077294	79	2.3	81	84	7	236	24	22	27	25	2.00
30077111--30077294	40	4.6	40	83	9	216	24	22	27	25	2.00
30077163--30077327	79	2.1	79	84	6	210	26	21	27	25	1.99
30079606--30079764	43	3.7	43	82	10	182	22	20	27	30	1.98
30082216--30082249	13	2.6	13	100	0	68	0	38	38	23	1.55
30098187--30098245	28	2.1	28	96	0	109	22	10	22	45	1.81
30103246--30103332	12	7.4	11	77	13	77	17	4	1	77	1.01
30103253--30103332	5	14.8	5	73	21	56	17	5	1	76	1.03
30103246--30103312	28	2.3	30	82	10	84	14	4	1	79	0.97
30103245--30103331	35	2.5	35	81	12	106	17	4	1	77	1.01
30103245--30103312	6	11.5	6	84	4	77	14	4	1	79	0.96
30103261--30103322	17	3.7	16	83	10	70	17	4	1	75	1.05
30106238--30106270	13	2.6	13	90	4	50	39	0	12	48	1.40
30106761--30106937	52	3.5	51	86	4	234	26	28	15	29	1.96
30109877--30109908	12	2.7	12	90	0	55	15	6	15	62	1.51
30122825--30122862	19	2.0	19	85	10	51	68	0	10	21	1.19
30123589--30123620	14	2.4	13	90	10	55	62	12	6	18	1.50
30129256--30129478	79	2.8	78	82	9	256	24	26	22	26	2.00
30129256--30129478	39	5.7	40	85	8	257	24	26	22	26	2.00
30134540--30134657	27	4.4	27	81	7	123	44	17	12	24	1.84
30135056--30135161	34	3.1	34	75	11	94	25	22	23	28	1.99
30139103--30139315	40	5.6	40	86	8	293	27	26	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30147068--30147329	40	6.6	40	92	1	411	26	26	21	25	2.00
30162444--30162557	26	4.3	27	78	9	110	46	17	12	23	1.82
30162957--30163061	34	3.1	34	75	10	92	25	21	23	28	1.99
30167016--30167239	40	5.6	40	81	6	265	28	25	21	24	1.99
30167032--30167239	83	2.6	80	85	3	274	29	25	20	23	1.99
30175142--30175365	40	5.6	40	82	6	265	26	26	21	24	2.00
30175142--30175362	83	2.7	80	84	4	284	26	27	22	23	2.00
30177537--30177660	54	2.3	53	85	1	158	30	14	16	38	1.88
30177558--30177660	27	3.9	27	83	1	127	31	14	14	39	1.86
30177694--30177773	27	3.0	27	81	0	97	42	20	11	26	1.85
30199944--30200000	27	2.2	27	84	12	75	38	15	1	43	1.57
30199961--30200121	84	2.0	81	81	6	189	36	18	3	42	1.66
30199943--30200122	13	13.4	13	65	19	84	36	18	2	42	1.65
30201551--30201577	9	3.0	9	100	0	54	33	22	0	44	1.53
30207145--30207288	75	1.9	75	91	0	234	36	13	21	28	1.91
30211534--30211586	26	2.0	26	85	0	70	24	13	16	45	1.83
30213154--30213320	48	3.5	46	80	9	167	29	30	14	25	1.95
30213260--30213420	73	2.2	73	90	0	268	24	27	19	28	1.99
30216902--30217041	37	3.8	37	96	0	253	24	32	19	24	1.98
30217202--30217510	48	6.4	48	94	0	537	31	27	6	34	1.83
30221581--30222114	47	11.1	47	87	5	717	30	12	30	26	1.93
30221584--30222114	145	3.7	145	88	5	628	30	12	30	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30221924--30221998	23	3.2	23	62	23	57	29	10	32	28	1.90
30222088--30222178	46	2.0	46	84	0	119	32	9	31	25	1.89
30222327--30222467	37	3.8	37	95	0	237	26	18	29	25	1.98
30226986--30227025	21	1.9	21	84	0	53	37	10	0	52	1.35
30233660--30233687	4	7.0	4	100	0	56	75	0	0	25	0.81
30233700--30233733	17	2.0	17	88	11	52	23	26	14	35	1.94
30235046--30235098	23	2.4	22	76	20	56	9	18	1	69	1.25
30237461--30237488	4	7.0	4	100	0	56	75	0	0	25	0.81
30237939--30238013	18	4.2	18	89	0	114	32	14	24	29	1.95
30245086--30245184	43	2.3	43	75	10	103	31	28	14	26	1.95
30247550--30247587	16	2.3	17	83	16	53	31	2	0	65	1.06
30254932--30255086	81	1.9	82	84	4	206	27	16	7	48	1.74
30259526--30259802	143	1.9	143	86	1	394	32	18	21	27	1.97
30261857--30262320	38	11.0	38	70	19	271	30	23	15	30	1.95
30261864--30262240	85	4.4	85	92	0	628	30	23	15	31	1.95
30261987--30262283	47	6.7	46	72	15	225	31	22	14	31	1.93
30262157--30262290	48	2.8	48	87	1	171	31	22	15	30	1.95
30262072--30262320	133	1.9	132	86	2	356	30	23	15	30	1.95
30267536--30267863	38	7.9	38	67	22	126	32	24	13	29	1.94
30267543--30267919	85	4.4	85	89	1	567	31	24	14	29	1.94
30267676--30267825	47	3.4	47	74	16	183	32	26	13	28	1.93
30267796--30267999	38	4.9	38	70	20	140	29	24	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30267831--30267969	48	2.9	48	83	1	181	30	22	15	30	1.95
30270167--30270206	16	2.4	17	84	15	57	32	2	0	65	1.06
30275480--30275505	13	2.0	13	100	0	52	0	38	23	38	1.55
30276344--30276469	41	3.1	40	89	4	182	34	21	23	20	1.97
30276345--30276469	39	3.1	41	89	5	191	34	21	24	20	1.97
30277084--30277132	24	2.0	24	100	0	98	53	0	4	42	1.20
30278275--30278324	17	2.9	17	93	0	91	6	30	4	60	1.39
30282930--30283012	43	2.0	43	85	2	114	30	12	27	30	1.92
30282941--30283066	43	2.9	44	78	14	136	26	13	27	32	1.94
30283416--30283588	47	3.7	47	74	9	156	24	31	19	24	1.98
30303749--30303920	93	1.8	93	87	2	256	27	29	20	21	1.98
30303741--30303913	46	3.7	46	74	14	167	28	29	19	21	1.98
30307816--30307991	46	3.8	45	76	11	169	24	20	25	29	1.99
30307813--30307984	93	1.8	93	88	2	265	25	20	25	28	1.99
30313604--30313827	79	2.8	78	83	8	258	25	27	21	25	2.00
30313604--30313827	40	5.7	40	86	6	262	25	27	21	25	2.00
30321812--30321852	20	2.0	20	100	0	82	34	0	19	46	1.50
30347509--30347651	40	3.6	40	80	9	166	24	21	27	25	1.99
30347876--30348472	47	12.6	47	94	2	1023	32	8	29	29	1.86
30347876--30348472	143	4.2	141	94	2	1023	32	8	29	29	1.86
30347876--30348472	96	6.3	94	96	0	1023	32	8	29	29	1.86
30349924--30350355	40	10.8	40	91	0	657	25	21	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30350531--30350582	25	2.1	25	82	7	61	32	7	28	30	1.85
30354235--30354376	40	3.5	41	78	9	150	23	20	27	28	1.99
30354238--30354409	80	2.2	79	80	7	179	26	19	26	27	1.99
30354601--30355668	47	22.6	47	96	1	1895	32	8	29	29	1.86
30354601--30355668	143	7.5	141	96	1	1895	32	8	29	29	1.86
30354601--30355668	190	5.6	188	96	1	1895	32	8	29	29	1.86
30362360--30362473	43	2.7	42	80	2	138	28	25	17	28	1.98
30378539--30378728	55	3.5	53	76	3	146	37	18	23	20	1.94
30382669--30382849	40	4.6	40	80	6	199	25	27	21	25	1.99
30388690--30388867	27	6.6	27	82	3	178	30	28	14	26	1.95
30388711--30388866	82	1.9	81	86	3	224	30	28	14	26	1.95
30405438--30405701	40	6.6	40	90	2	363	26	28	22	23	1.99
30416149--30416237	5	16.8	5	74	19	67	76	1	4	17	1.02
30416149--30416242	25	3.8	24	74	16	84	76	1	4	18	1.00
30421597--30421629	13	2.6	13	90	4	50	48	12	0	39	1.40
30422803--30422911	37	2.9	37	93	0	173	27	30	18	23	1.98
30423090--30423431	47	7.1	47	82	6	423	27	29	11	31	1.92
30423090--30423409	147	2.2	148	86	5	447	27	28	12	31	1.92
30423090--30423431	100	3.5	98	90	3	512	27	29	11	31	1.92
30425611--30425789	85	2.1	85	98	0	349	26	27	8	37	1.85
30427543--30427881	40	8.5	40	94	0	579	26	29	21	22	1.99
30427641--30427830	23	9.3	23	59	25	68	25	30	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30429135--30429243	37	2.9	37	88	0	155	28	29	17	24	1.97
30429452--30429793	47	7.1	47	83	6	432	26	29	12	31	1.92
30429452--30429771	147	2.2	148	87	5	465	26	28	12	32	1.93
30429452--30429793	100	3.5	98	91	3	521	26	29	12	31	1.92
30431978--30432155	85	2.1	85	97	0	338	26	28	8	37	1.85
30460294--30460361	12	5.4	12	72	16	57	66	1	5	26	1.23
30460334--30460359	6	4.3	6	100	0	52	69	0	0	30	0.89
30461539--30461648	56	2.0	56	98	0	211	26	17	15	40	1.89
30465878--30465915	17	2.1	19	90	9	62	0	23	0	76	0.79
30472708--30472792	44	2.0	43	83	6	109	23	20	25	30	1.98

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