genome.fa.s3.2.7.7.80.10.50.1000.15.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: Chr8
Parameters: 2 7 7 80 10 50 1000
Length:  70076365

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   

This is table  15  of  210  ( 25174 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)
5129071--5129121	24	2.3	22	80	10	59	37	9	3	49	1.55
5130151--5130205	25	2.2	25	83	6	67	29	1	12	56	1.47
5134142--5134378	106	2.2	106	93	4	399	43	7	10	38	1.68
5137681--5137814	17	7.7	18	74	6	114	47	9	12	30	1.74
5137681--5137821	35	4.1	35	75	1	122	46	10	13	29	1.76
5137869--5137917	17	2.8	17	76	14	55	44	10	12	32	1.75
5138400--5138441	7	6.0	7	83	10	59	0	19	0	80	0.70
5138401--5138445	15	3.0	16	84	9	60	0	17	0	82	0.68
5138675--5138756	12	7.3	11	77	14	71	1	18	1	79	0.87
5138668--5138762	18	5.5	17	77	17	81	2	17	1	78	0.90
5138685--5138759	15	5.3	14	75	15	66	1	18	1	78	0.89
5138689--5138762	6	12.3	6	77	13	73	1	18	1	78	0.90
5138668--5138759	28	3.3	26	82	11	103	2	17	1	79	0.89
5138677--5138763	25	3.5	24	79	17	90	1	20	1	77	0.91
5138668--5138755	22	4.0	21	78	16	81	2	17	1	79	0.90
5139296--5139416	30	4.1	29	75	11	93	42	3	19	33	1.68
5139345--5139417	30	2.4	30	88	0	110	46	4	17	31	1.67
5139682--5140567	78	11.5	76	85	7	1005	33	21	16	28	1.95
5139602--5140567	230	4.2	228	83	7	1087	33	21	16	28	1.95
5139572--5140567	77	13.0	76	83	7	972	33	21	16	27	1.95
5140197--5140589	73	5.2	73	85	5	430	35	20	16	27	1.94
5139562--5140567	152	6.5	148	81	9	943	33	21	16	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5141443--5141509	27	2.4	27	82	7	73	1	10	7	80	0.96
5141464--5141518	12	4.2	12	82	15	65	0	5	10	83	0.79
5141553--5142431	439	2.0	438	95	0	1589	23	24	19	32	1.98
5149228--5149437	35	6.0	34	76	10	165	44	10	13	31	1.76
5149243--5149437	17	11.1	17	75	9	176	45	10	13	31	1.77
5149921--5149966	12	3.4	13	83	16	58	0	17	0	82	0.67
5149923--5149957	10	3.9	9	85	14	54	0	20	0	80	0.72
5149920--5149968	13	3.7	13	76	15	55	0	20	0	79	0.73
5150035--5150066	16	2.0	16	93	0	55	6	28	43	21	1.77
5150211--5150290	6	13.5	6	84	11	67	6	17	0	76	0.99
5150226--5150292	28	2.4	27	82	9	73	5	19	0	74	1.02
5150245--5150294	15	3.2	16	86	11	68	2	22	0	76	0.89
5150250--5150293	19	2.3	20	84	11	65	0	20	0	79	0.73
5150251--5150294	7	6.4	7	84	10	56	0	22	0	77	0.77
5150887--5150964	30	2.6	29	74	6	84	46	3	17	32	1.67
5150956--5150990	17	2.1	17	88	0	52	14	0	8	77	0.99
5150960--5150991	9	3.8	9	88	12	50	12	0	6	81	0.87
5151888--5151925	20	1.9	20	84	10	51	28	10	2	57	1.45
5156755--5156794	17	2.3	18	87	8	57	70	17	2	10	1.27
5156757--5156795	18	2.2	17	86	4	51	71	17	2	7	1.21
5158761--5158793	5	6.4	5	96	3	57	78	0	18	3	0.87
5179220--5179266	22	2.1	21	81	14	51	21	4	2	72	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5180643--5180685	22	1.9	23	86	13	63	6	20	2	69	1.23
5183525--5183558	15	2.2	16	89	5	52	70	17	0	11	1.16
5183668--5183710	12	3.6	12	77	0	50	23	58	4	13	1.55
5183670--5183722	24	2.2	24	82	0	70	26	58	3	11	1.49
5183738--5183853	9	12.9	9	64	13	51	20	47	14	17	1.82
5183733--5183878	27	5.4	27	94	0	229	21	47	13	17	1.82
5183723--5183911	81	2.4	78	82	5	243	24	48	11	14	1.77
5191909--5191974	19	3.6	18	77	18	64	66	4	0	28	1.11
5191912--5191965	19	2.9	18	83	10	65	64	3	0	31	1.11
5191909--5191964	18	3.1	19	82	12	64	64	5	0	30	1.16
5198242--5198335	49	1.9	49	86	0	134	39	26	7	26	1.82
5205018--5205194	88	2.0	88	90	2	275	22	20	9	47	1.79
5221981--5222036	27	2.0	28	83	13	71	21	14	0	64	1.29
5226385--5226451	15	4.5	15	70	23	52	49	1	0	49	1.10
5226759--5226789	14	2.2	14	94	0	53	70	0	3	25	1.02
5232064--5232098	2	17.5	2	90	0	52	51	2	0	45	1.16
5235960--5235997	20	1.9	20	100	0	76	60	5	7	26	1.46
5237814--5238258	221	2.0	223	99	0	876	27	13	17	42	1.86
5241848--5241898	20	2.5	20	84	6	59	56	0	0	43	0.99
5243711--5243780	30	2.3	30	92	0	113	61	0	20	18	1.35
5245281--5245406	45	2.7	46	78	14	132	43	2	10	43	1.51
5245852--5245887	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253025--5253075	24	2.1	24	85	0	66	47	15	5	31	1.70
5259026--5259066	4	10.2	4	89	0	55	29	2	24	43	1.67
5274911--5274973	2	31.5	2	96	0	117	50	0	49	0	1.00
5287268--5287336	9	7.7	9	91	0	102	23	2	23	50	1.62
5287260--5287336	18	4.3	18	84	0	100	23	3	24	48	1.68
5287260--5287336	27	2.9	27	90	0	118	23	3	24	48	1.68
5287547--5287615	9	7.7	9	91	0	102	23	2	23	50	1.62
5287539--5287615	18	4.3	18	84	0	100	23	3	24	48	1.68
5287539--5287615	27	2.9	27	90	0	118	23	3	24	48	1.68
5287094--5287652	279	2.0	279	99	0	1109	38	11	12	38	1.79
5287789--5287909	50	2.3	53	88	4	185	34	23	23	19	1.96
5287932--5287956	13	1.9	13	100	0	50	36	0	0	64	0.94
5296871--5297652	51	15.8	50	79	9	759	28	15	24	31	1.96
5296871--5297637	97	7.8	96	81	5	729	28	15	24	31	1.96
5296904--5297637	148	5.0	148	81	6	794	29	15	23	31	1.95
5297608--5298093	143	3.4	143	86	1	677	29	19	22	28	1.98
5297956--5298161	44	4.8	44	73	8	181	27	21	25	25	1.99
5299592--5299636	23	2.0	23	86	8	65	6	4	20	68	1.29
5299739--5299785	3	16.0	3	86	4	69	31	2	2	63	1.18
5299747--5299798	9	6.0	8	86	4	50	26	3	1	67	1.18
5303446--5303487	21	2.0	22	86	9	61	54	9	14	21	1.68
5308954--5308979	12	2.2	12	100	0	52	30	30	0	38	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5308952--5309073	51	2.4	51	90	4	183	27	30	0	41	1.56
5309074--5309138	30	2.2	31	94	5	116	36	0	0	63	0.95
5310032--5310056	7	3.6	7	100	0	50	28	0	12	60	1.32
5310708--5310742	18	1.9	18	88	0	52	25	34	8	31	1.86
5326145--5326988	124	6.8	124	99	0	1652	32	22	14	30	1.94
5327136--5327196	29	2.1	28	81	3	68	45	16	13	24	1.83
5330250--5330274	4	6.2	4	100	0	50	52	24	0	24	1.48
5332164--5332206	14	3.1	14	80	6	52	27	2	0	69	1.00
5332484--5332523	20	2.0	20	85	0	53	35	2	5	57	1.34
5334318--5334438	60	2.0	60	98	0	233	35	11	9	43	1.73
5337920--5337969	17	3.1	16	77	11	57	70	0	0	30	0.88
5337919--5337977	17	3.5	18	71	19	56	67	0	0	32	0.91
5351096--5351136	17	2.4	18	88	8	59	51	4	0	43	1.23
5352316--5352376	28	2.1	29	87	3	88	52	8	3	36	1.48
5352494--5352533	19	2.3	19	87	12	59	37	0	0	62	0.95
5356437--5356491	29	1.9	28	85	10	76	25	16	7	50	1.70
5358572--5358596	12	2.1	12	100	0	50	48	0	0	52	1.00
5359963--5360009	24	2.0	24	84	16	62	51	17	0	31	1.46
5360359--5361023	333	2.0	336	88	3	1000	38	17	4	39	1.70
5361006--5361096	5	17.4	5	71	18	53	3	24	2	70	1.14
5361606--5361642	18	2.0	19	89	5	58	45	0	0	54	1.00
5361608--5361650	19	2.3	19	84	8	52	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5365929--5365968	14	2.8	14	80	3	53	65	2	0	32	1.06
5367011--5367072	29	2.1	30	85	8	83	43	11	4	40	1.62
5368602--5368667	24	2.8	24	79	4	71	36	18	28	16	1.93
5368659--5368726	28	2.4	28	87	0	91	45	17	14	22	1.85
5371020--5371052	2	16.5	2	93	0	57	54	45	0	0	0.99
5375985--5376067	29	2.7	31	71	14	82	21	8	13	56	1.63
5377018--5377064	22	2.1	23	88	4	69	63	4	0	31	1.13
5379563--5379815	84	3.0	84	85	0	335	37	16	20	25	1.93
5385796--5385873	39	2.0	39	100	0	156	20	10	15	53	1.70
5388059--5388141	38	2.4	32	78	21	112	34	18	13	33	1.89

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