genome.fa.s4.2.7.7.80.10.50.1000.15.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  15  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)
4077693--4077776	26	3.2	26	96	0	150	34	5	23	35	1.80
4079563--4079848	137	2.1	136	96	0	412	25	18	23	32	1.97
4082007--4082039	16	2.1	16	88	11	50	60	12	6	21	1.53
4083261--4083290	15	1.9	16	93	6	53	10	3	33	53	1.51
4083662--4084617	205	4.7	205	90	1	1468	29	22	17	30	1.97
4093025--4093057	16	2.1	16	88	11	50	57	12	6	24	1.57
4094266--4094295	15	1.9	16	93	6	53	10	3	33	53	1.51
4095226--4095258	10	3.4	10	87	4	50	18	6	0	75	1.00
4095967--4096036	3	23.7	3	74	8	54	34	4	2	58	1.32
4096074--4096164	26	3.5	26	71	15	71	28	9	1	60	1.36
4096340--4096540	3	67.3	3	72	5	122	30	8	1	58	1.38
4096530--4096564	18	1.9	18	88	0	52	20	11	8	60	1.57
4098215--4098263	25	2.0	25	95	0	89	46	0	18	34	1.49
4099621--4099680	29	2.1	28	87	6	84	45	5	0	50	1.23
4099670--4099706	17	2.1	17	90	5	56	45	0	0	54	1.00
4106838--4106892	21	2.6	22	91	8	96	23	9	40	27	1.85
4107173--4107253	36	2.3	34	80	18	94	51	4	2	40	1.37
4109019--4109067	19	2.9	16	82	17	55	36	0	2	61	1.08
4112297--4112370	29	2.6	29	81	12	82	60	1	1	36	1.13
4112596--4112631	18	2.0	18	94	0	63	47	2	0	50	1.15
4112652--4112727	29	2.6	30	76	4	82	34	0	1	64	1.02
4113350--4113399	17	3.0	16	82	5	55	68	2	2	28	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4113350--4113412	26	2.4	27	87	10	80	69	3	1	25	1.12
4113453--4113556	51	2.0	51	96	0	190	45	6	6	41	1.57
4114538--4114585	19	2.6	18	84	15	55	27	0	6	66	1.15
4116359--4116387	15	1.9	15	100	0	58	37	6	48	6	1.57
4117225--4117270	20	2.3	21	82	14	62	26	17	28	28	1.98
4126405--4126455	25	2.0	26	84	3	68	72	0	1	25	0.95
4129756--4129800	23	1.9	24	86	4	65	51	2	2	44	1.26
4129798--4129861	20	3.0	20	81	6	65	37	0	3	59	1.13
4134206--4134234	14	2.1	14	100	0	58	20	6	6	65	1.40
4138186--4138273	45	2.0	45	93	0	149	21	17	17	44	1.87
4141054--4141099	24	1.9	24	86	0	65	45	4	8	41	1.55
4142626--4142712	39	2.2	38	84	14	104	56	1	1	41	1.14
4142661--4142699	18	2.2	18	85	0	51	56	0	0	43	0.99
4145838--4145877	16	2.5	16	88	8	55	25	10	2	62	1.39
4145847--4145939	27	3.6	27	74	16	72	23	12	2	61	1.43
4146017--4146059	3	14.3	3	100	0	86	32	0	0	67	0.91
4151193--4151288	48	2.0	48	91	4	158	43	12	18	25	1.85
4159848--4159888	18	2.3	18	87	8	57	17	31	29	21	1.96
4162941--4163048	26	4.2	26	93	0	189	34	25	8	32	1.86
4163314--4163385	29	2.6	29	84	4	94	26	27	22	23	1.99
4163319--4163438	29	4.2	28	78	6	89	29	28	19	23	1.98
4163396--4163439	15	3.0	15	83	3	54	29	22	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4166883--4167174	132	2.2	131	79	4	293	34	21	18	25	1.96
4181332--4181413	26	3.2	26	84	6	112	31	6	24	37	1.80
4189741--4189777	18	2.1	18	100	0	74	21	0	40	37	1.54
4190164--4190223	23	2.5	24	86	5	86	21	5	5	68	1.29
4198182--4198223	22	1.9	21	85	9	57	26	2	2	69	1.13
4198322--4198416	31	3.1	29	80	15	118	33	6	1	58	1.30
4205873--4206188	89	3.4	89	74	12	235	32	18	21	27	1.97
4205920--4206100	98	1.8	98	83	2	238	32	16	21	29	1.95
4206019--4206136	45	2.6	45	82	1	139	27	19	22	30	1.98
4209097--4209142	21	2.1	22	92	4	76	17	4	6	71	1.24
4209640--4209679	13	3.0	13	81	3	53	35	5	2	57	1.34
4217230--4217275	24	2.0	23	91	4	74	30	15	2	52	1.55
4223988--4224037	21	2.3	22	86	6	66	18	6	8	68	1.36
4224330--4224398	30	2.4	28	75	11	68	30	5	5	57	1.45
4224504--4224547	23	2.0	22	95	4	79	34	4	13	47	1.63
4227206--4227271	19	3.2	21	87	6	64	36	19	9	34	1.84
4227223--4227320	19	5.2	19	88	7	146	35	15	9	39	1.79
4227223--4227317	36	2.5	36	91	6	145	35	14	9	40	1.79
4229025--4229132	26	4.2	26	91	0	180	31	7	24	37	1.83
4231927--4231965	18	2.2	17	86	13	53	33	0	20	46	1.51
4231970--4232117	75	2.0	75	98	0	287	37	7	21	33	1.82
4232266--4232363	23	4.3	23	90	2	162	20	21	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4232268--4232356	45	2.0	45	95	0	160	19	22	26	31	1.97
4237484--4237522	18	2.2	17	86	13	53	33	0	20	46	1.51
4237527--4237674	75	2.0	75	98	0	287	37	7	21	33	1.82
4237823--4237920	23	4.3	23	90	2	162	20	21	26	31	1.98
4237825--4237913	45	2.0	45	95	0	160	19	22	26	31	1.97
4245065--4245172	26	4.2	26	93	0	189	32	7	24	36	1.83
4248373--4248484	45	2.5	45	77	1	118	29	16	26	26	1.97
4248495--4248582	45	2.0	45	81	0	104	30	17	25	27	1.97
4248759--4248845	44	2.0	44	81	0	102	29	14	25	29	1.95
4256160--4256209	21	2.3	22	82	6	57	20	2	8	70	1.23
4263111--4263187	39	2.0	39	92	0	127	33	27	18	20	1.96
4277293--4277613	3	106.0	3	67	12	131	60	4	6	28	1.40
4277756--4277801	23	2.0	23	91	4	74	63	0	8	28	1.24
4279474--4279842	43	8.5	44	78	2	212	20	24	20	33	1.97
4279518--4279895	87	4.4	87	83	2	510	21	23	20	33	1.97
4279562--4279892	43	7.7	43	74	6	292	22	22	20	33	1.97
4281689--4281803	30	3.8	30	90	0	185	25	48	3	22	1.66
4282289--4282418	23	5.5	23	67	22	74	34	4	2	58	1.31
4282303--4282506	25	8.2	25	69	14	84	35	6	2	55	1.41
4282657--4282704	16	3.1	15	90	6	69	31	2	2	64	1.16
4282657--4282708	8	6.5	8	82	8	61	30	1	1	65	1.14
4290196--4290372	72	2.5	71	84	2	214	28	14	22	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4290376--4290578	79	2.8	72	82	9	225	29	14	20	35	1.92
4290390--4290573	71	2.5	71	83	8	208	30	14	21	33	1.93
4290732--4290873	72	2.0	73	91	4	234	22	15	23	38	1.92
4290865--4291449	74	7.8	73	78	10	561	28	16	21	33	1.95
4290937--4291409	160	3.0	159	83	7	567	27	16	21	34	1.95
4290724--4291449	233	3.2	225	82	9	805	27	16	22	33	1.95
4291116--4291449	150	2.2	146	87	5	465	28	16	22	31	1.96
4292161--4292335	30	5.8	30	93	0	296	24	49	3	22	1.65
4292818--4292947	23	5.5	23	67	22	74	34	4	2	58	1.31
4292824--4293058	25	9.5	24	70	15	99	34	6	3	55	1.43
4293148--4293227	16	5.1	15	76	19	74	30	2	1	66	1.13
4293180--4293231	8	6.5	8	82	8	61	30	1	1	65	1.14
4303056--4303489	3	143.7	3	66	14	160	58	2	9	29	1.41
4303409--4303454	23	2.0	23	91	4	74	63	0	8	28	1.24
4304261--4304302	5	8.2	5	86	5	57	80	2	2	14	0.90
4304261--4304302	16	2.7	16	88	3	59	80	2	2	14	0.90
4306014--4306057	23	1.9	23	95	0	79	40	18	15	25	1.90
4309277--4309342	31	2.1	31	91	5	107	39	7	12	40	1.71
4313924--4313997	34	2.2	34	90	0	112	39	32	6	21	1.80
4314685--4314727	15	2.8	15	78	3	50	48	4	11	34	1.60
4315801--4315857	17	3.2	17	72	7	51	57	0	3	38	1.16
4316390--4316474	30	2.8	30	92	0	143	24	49	3	22	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4316956--4317037	23	3.5	23	72	12	62	35	3	3	57	1.34
4317031--4317107	2	40.5	2	74	14	56	38	2	0	58	1.12
4317018--4317108	16	5.6	17	72	16	77	37	3	1	58	1.22
4317037--4317109	25	3.0	23	82	9	76	36	2	0	60	1.11
4317008--4317123	54	2.1	54	80	9	121	35	5	1	57	1.31
4317122--4317207	25	3.6	25	80	7	83	31	6	5	55	1.50
4317076--4317214	23	5.8	24	69	16	74	33	6	4	55	1.45
4323843--4323880	16	2.4	16	83	12	51	28	0	5	65	1.14
4326341--4326671	19	17.6	18	68	19	106	45	11	12	30	1.77
4326588--4326638	25	2.0	25	84	7	66	52	13	11	21	1.72

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