genome.fa.s7.2.7.7.80.10.50.1000.183.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  183  of  204  ( 24458 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)
54057732--54057776	20	2.3	19	88	7	63	31	0	0	68	0.89
54058588--54058647	20	3.0	21	72	22	65	41	0	0	58	0.98
54066504--54066606	27	3.8	27	88	2	145	18	28	36	16	1.92
54066659--54066712	22	2.4	22	79	17	58	68	1	25	3	1.16
54069803--54069833	5	6.2	5	100	0	62	22	58	19	0	1.40
54071711--54071828	57	2.1	56	80	1	128	41	5	12	40	1.65
54094815--54094864	23	2.3	22	80	12	59	40	2	2	56	1.22
54095556--54095589	17	2.0	17	88	11	52	41	0	2	55	1.15
54099916--54099968	23	2.3	23	96	0	97	26	24	1	47	1.62
54099909--54099970	23	2.4	26	74	20	67	25	25	3	45	1.69
54100342--54100571	46	5.0	46	96	0	408	30	21	15	33	1.94
54104516--54104555	20	2.0	20	85	5	53	37	2	7	52	1.43
54105298--54105336	21	1.9	20	84	5	51	53	5	2	38	1.37
54113547--54113588	10	4.0	10	87	9	57	83	0	14	2	0.75
54118705--54118771	32	2.0	35	82	8	86	49	1	1	47	1.19
54119119--54119165	24	2.0	25	87	8	71	48	0	6	44	1.28
54119657--54119701	23	2.0	23	95	0	81	48	0	6	44	1.29
54119645--54119714	23	2.6	27	74	23	76	45	1	4	48	1.30
54122716--54122740	13	1.9	13	100	0	50	16	12	0	72	1.13
54136745--54136797	24	2.2	23	83	12	63	43	1	0	54	1.11
54138139--54138169	2	15.5	2	100	0	62	51	0	0	48	1.00
54147308--54147355	18	2.5	20	76	13	55	33	22	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54146346--54148652	952	2.4	958	92	2	3777	30	12	22	34	1.91
54153836--54153994	56	2.8	56	96	1	284	33	13	16	35	1.88
54156248--54156305	20	2.8	21	81	5	73	32	5	24	37	1.77
54164720--54164754	18	1.9	18	88	0	52	77	8	11	2	1.10
54170538--54170582	22	2.0	22	91	0	72	46	6	20	26	1.75
54170882--54170907	11	2.4	11	100	0	52	61	0	0	38	0.96
54174204--54174246	20	2.2	20	86	0	59	44	6	0	48	1.29
54179835--54179877	20	2.1	21	86	4	61	30	0	9	60	1.28
54181534--54181608	27	2.8	27	78	9	82	44	0	17	38	1.49
54183185--54183210	6	4.3	6	100	0	52	0	50	0	50	1.00
54187506--54187537	16	2.1	16	94	5	57	18	28	18	34	1.95
54188423--54188464	13	2.9	14	80	13	50	54	4	0	40	1.21
54188423--54188463	15	2.9	15	82	17	52	56	4	0	39	1.21
54188483--54188548	24	2.8	23	75	11	62	50	1	3	45	1.26
54190742--54190839	21	4.7	20	67	18	58	27	25	29	17	1.97
54191042--54191184	30	4.8	30	81	0	133	16	37	32	14	1.89
54191042--54191170	60	2.1	61	81	2	154	15	37	32	14	1.88
54197101--54197148	19	2.5	19	83	13	62	37	0	6	56	1.25
54202210--54202272	27	2.5	26	76	19	69	44	3	0	52	1.17
54202887--54203006	63	1.9	62	81	8	145	55	14	6	23	1.62
54204840--54204905	28	2.5	26	82	9	80	45	4	4	45	1.44
54206993--54207052	25	2.3	26	80	11	70	38	0	1	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54207004--54207052	25	1.9	25	87	4	71	36	0	0	63	0.95
54211135--54211228	48	2.0	47	89	4	145	29	29	1	39	1.64
54229605--54229680	24	3.1	24	90	5	109	21	23	18	36	1.95
54235201--54235253	27	2.0	27	81	7	63	28	9	13	49	1.73
54240358--54240391	18	1.9	17	94	5	59	55	0	0	44	0.99
54240693--54240735	23	1.9	22	86	13	61	39	0	6	53	1.28
54247285--54247340	26	2.2	26	96	0	103	25	21	7	46	1.76
54247601--54247640	19	2.1	19	95	0	71	40	5	20	35	1.74
54254833--54254874	17	2.4	18	92	4	68	47	4	19	28	1.69
54255384--54255419	17	2.1	17	100	0	72	27	38	11	22	1.88
54256365--54256410	22	2.1	21	84	11	58	36	2	4	56	1.31
54256442--54256511	16	4.7	16	71	16	69	52	10	1	35	1.44
54256438--54256590	43	3.6	42	77	15	172	49	8	3	38	1.50
54256474--54256524	16	2.8	19	67	27	56	50	11	0	37	1.39
54256457--54256608	76	2.0	76	86	7	211	48	7	4	38	1.53
54256544--54256600	28	2.1	27	86	3	78	49	7	3	40	1.47
54256597--54256636	17	2.4	17	87	8	55	45	7	15	32	1.74
54256654--54256710	16	3.6	16	90	0	87	45	3	3	47	1.37
54256684--54256733	22	2.2	23	89	3	75	46	2	2	50	1.24
54257249--54257445	98	2.0	98	96	0	367	37	23	10	28	1.88
54260372--54260410	5	7.8	5	86	11	53	82	2	2	12	0.89
54260369--54260410	15	2.8	15	82	13	59	80	4	2	11	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54266828--54266864	17	2.2	16	90	4	56	51	5	0	43	1.24
54266983--54267047	25	2.7	24	76	13	62	43	0	6	50	1.27
54267924--54267951	14	2.0	14	100	0	56	21	14	14	50	1.78
54271454--54271531	3	26.0	3	100	0	156	33	0	0	66	0.92
54275399--54275458	20	3.0	20	92	0	102	30	23	13	33	1.93
54283522--54284210	100	6.9	100	85	1	925	30	21	23	24	1.99
54283522--54284210	200	3.4	200	92	1	1094	30	21	23	24	1.99
54283573--54284236	50	13.3	50	69	3	384	30	21	23	24	1.99
54285986--54286052	3	22.3	3	100	0	134	32	0	0	67	0.91
54292063--54292088	13	2.0	13	100	0	52	53	0	0	46	1.00
54292282--54292338	20	3.0	20	84	10	82	43	3	0	52	1.18
54294276--54294322	23	2.0	24	83	4	60	21	6	2	70	1.20
54296914--54296956	16	2.5	17	88	7	61	39	2	2	55	1.25
54296912--54296956	20	2.2	20	84	7	56	40	2	2	55	1.24
54296985--54297017	15	2.3	15	89	5	50	60	12	6	21	1.53
54301560--54301584	13	1.9	13	100	0	50	24	0	12	64	1.27
54304790--54304818	13	2.1	14	93	6	51	44	3	0	51	1.18
54305079--54305211	60	2.2	60	83	12	159	30	11	2	55	1.47
54309028--54309066	15	2.7	15	88	4	53	48	0	2	48	1.15
54313337--54313379	8	5.2	8	85	2	59	53	0	0	46	1.00
54313334--54313395	8	7.3	9	79	15	53	59	0	0	40	0.97
54314014--54314061	25	1.9	25	87	8	71	18	10	27	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54314023--54314061	13	3.1	13	85	7	53	17	7	28	46	1.76
54319186--54319254	21	3.1	21	69	15	66	30	7	8	53	1.59
54322659--54322688	12	2.5	12	94	0	51	56	0	26	16	1.40
54322660--54322695	18	1.9	19	94	5	65	55	0	25	19	1.43
54326044--54326081	20	1.9	20	100	0	76	36	2	0	60	1.11
54326571--54326621	12	4.3	12	77	2	59	37	0	0	62	0.95
54334517--54334541	13	1.9	13	100	0	50	24	0	12	64	1.27
54341238--54341297	30	2.0	30	100	0	120	40	3	6	50	1.45
54346670--54346836	89	1.9	89	88	2	255	28	13	16	41	1.86
54354672--54354727	22	2.5	23	85	8	80	30	35	0	33	1.58
54354675--54354773	52	1.9	51	87	2	144	35	33	0	31	1.58
54354806--54354861	29	2.0	29	89	3	87	39	1	1	57	1.20
54354806--54354862	28	2.0	28	86	6	80	40	1	1	56	1.20
54354809--54354869	29	2.1	28	84	3	77	39	1	1	57	1.18
54354960--54354993	15	2.3	15	90	5	52	26	0	5	67	1.13
54354958--54355015	24	2.3	23	78	21	64	25	0	6	67	1.16
54357412--54357676	124	2.1	125	88	2	392	30	23	15	29	1.96
54373162--54373205	17	2.6	18	82	10	65	18	2	31	47	1.61
54374612--54374719	49	2.3	47	79	7	132	28	17	9	44	1.80
54384067--54384096	2	15.0	2	100	0	60	0	50	0	50	1.00
54385910--54385975	13	5.1	13	80	7	80	39	25	4	30	1.76
54386781--54386818	20	1.9	20	94	0	67	34	2	0	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54386782--54386829	20	2.4	20	86	6	62	37	2	0	60	1.09
54389190--54389386	98	2.0	98	95	0	358	37	24	10	27	1.89
54389909--54389964	21	2.6	21	74	2	58	57	0	10	32	1.33
54393241--54393314	38	2.0	38	87	7	109	29	17	21	31	1.96
54399016--54399074	31	2.0	30	86	6	84	42	11	8	37	1.72
54399009--54399077	31	2.4	27	79	13	75	40	13	8	37	1.75
54402400--54402445	22	2.1	22	100	0	92	32	8	13	45	1.73
54406107--54406144	14	2.7	14	80	11	51	44	0	0	55	0.99
54409729--54409789	26	2.3	26	75	13	61	54	0	1	44	1.10
54415732--54415783	18	2.7	21	74	17	58	57	1	0	40	1.10

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