genome.fa.s6.2.7.7.80.10.50.1000.124.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  124  of  168  ( 20060 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)
35994705--35994793	42	2.1	42	83	4	108	24	13	28	33	1.93
35994780--35994943	75	2.2	75	95	2	294	28	10	21	40	1.86
35994909--35995071	43	3.8	42	88	4	227	20	20	32	26	1.97
35994911--35995071	85	1.9	87	88	5	247	21	20	32	25	1.97
35995431--35995477	3	15.7	3	86	0	67	34	0	2	63	1.06
35997350--35997404	28	2.0	27	92	3	92	21	23	25	29	1.99
35997306--35997436	33	4.1	33	74	15	105	24	25	23	26	2.00
35999592--35999717	42	2.9	44	77	10	136	32	25	17	24	1.97
36008656--36008708	25	2.1	26	89	3	81	50	13	16	18	1.77
36011382--36011406	13	1.9	13	100	0	50	8	0	24	68	1.16
36012782--36012814	12	2.8	12	90	4	50	36	3	9	51	1.49
36012536--36012882	114	3.0	114	95	0	622	40	4	13	41	1.64
36012985--36013014	6	5.0	6	100	0	60	66	16	0	16	1.25
36013232--36013381	41	3.7	41	88	0	210	30	17	27	25	1.97
36018713--36018746	17	2.0	17	88	11	52	14	32	29	23	1.94
36022455--36022509	24	2.3	24	87	0	83	32	14	29	23	1.94
36022417--36022586	25	6.9	25	73	9	82	32	20	27	19	1.96
36024824--36024862	16	2.4	16	86	4	51	33	10	12	43	1.77
36025948--36025991	22	2.0	22	91	8	72	50	9	2	38	1.47
36038077--36038130	22	2.5	20	77	13	54	59	12	1	25	1.44
36039648--36039678	14	2.2	14	100	0	62	48	0	19	32	1.49
36044947--36044978	4	7.8	4	96	3	55	21	0	3	75	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36061856--36061920	31	2.1	31	85	2	85	53	9	12	24	1.67
36061874--36061940	29	2.2	28	80	17	73	52	8	11	26	1.68
36062583--36062614	2	16.0	2	100	0	64	50	0	0	50	1.00
36064370--36064439	32	2.2	32	97	0	131	32	20	27	20	1.97
36065555--36065579	6	4.2	6	100	0	50	64	0	20	16	1.30
36065867--36066172	109	2.8	109	89	2	458	33	19	16	30	1.94
36066428--36066516	39	2.2	39	80	11	101	56	2	2	39	1.24
36066459--36066515	13	4.4	13	71	8	53	57	1	1	38	1.19
36066602--36066629	13	2.2	13	100	0	56	60	7	0	32	1.24
36066654--36066685	2	16.0	2	100	0	64	50	0	0	50	1.00
36066804--36066834	3	10.3	3	100	0	62	67	0	0	32	0.91
36067989--36068030	20	2.0	21	82	13	52	7	4	35	52	1.50
36068552--36069089	175	3.1	175	89	4	811	27	20	20	31	1.98
36068570--36069081	87	5.9	86	76	9	475	27	21	19	31	1.97
36068801--36069259	218	2.1	219	88	2	672	28	21	20	30	1.98
36068572--36069259	44	15.7	43	69	9	279	27	21	19	31	1.97
36070448--36070490	7	6.0	7	84	15	61	13	13	0	72	1.13
36070448--36070492	22	2.0	22	95	4	81	13	13	0	73	1.10
36070450--36070483	16	2.1	16	100	0	68	11	11	0	76	1.02
36075546--36075851	109	2.8	108	88	1	418	33	18	16	30	1.94
36076107--36076202	41	2.3	41	84	10	115	56	2	3	38	1.27
36076283--36076310	13	2.2	13	100	0	56	60	7	0	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36078164--36078201	19	1.9	21	89	10	62	7	2	36	52	1.45
36079961--36079991	15	2.1	15	100	0	62	38	0	6	54	1.26
36080198--36080252	28	1.9	29	85	10	78	40	0	1	58	1.09
36080174--36080588	120	3.4	120	93	1	686	42	1	4	51	1.30
36080725--36080820	45	2.2	44	85	9	133	37	28	3	31	1.73
36080806--36080854	16	3.1	16	87	0	80	22	34	4	38	1.73
36090388--36090437	22	2.3	22	80	16	59	58	2	4	36	1.29
36090488--36090530	20	2.2	19	80	8	50	53	9	2	34	1.46
36098517--36098544	14	2.0	14	100	0	56	21	0	7	71	1.09
36116530--36116561	3	10.7	3	100	0	64	31	0	0	68	0.90
36116692--36116780	18	4.9	18	77	20	96	37	1	1	60	1.11
36117853--36117890	18	2.1	18	90	9	60	34	15	18	31	1.92
36120467--36120494	12	2.3	12	100	0	56	53	17	7	21	1.67
36122098--36122128	2	15.5	2	100	0	62	51	0	0	48	1.00
36126566--36126640	34	2.1	36	87	7	109	57	9	18	14	1.64
36126506--36126716	114	1.8	117	83	7	286	52	16	12	18	1.75
36130786--36130841	21	2.7	21	88	0	85	28	32	8	30	1.88
36135405--36135447	18	2.4	18	84	0	59	46	6	39	6	1.58
36135941--36136108	84	2.0	85	80	1	194	25	16	22	36	1.94
36143306--36143345	19	2.2	18	90	4	62	15	27	5	52	1.63
36146845--36146894	25	2.0	24	85	11	66	62	0	8	30	1.24
36146856--36146894	12	3.2	12	82	17	53	61	0	7	30	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36147820--36147861	16	2.5	17	88	3	59	7	4	35	52	1.50
36148254--36148610	44	8.1	44	67	9	138	28	23	18	29	1.98
36148224--36148942	132	5.4	132	88	3	952	27	24	18	28	1.98
36156580--36156621	16	2.5	17	88	3	59	7	4	35	52	1.50
36159636--36159716	42	1.9	42	92	0	135	32	12	16	39	1.85
36163210--36163242	17	1.9	17	100	0	66	42	9	0	48	1.35
36167997--36168022	2	13.0	2	100	0	52	50	0	0	50	1.00
36168215--36168249	14	2.4	15	85	4	54	37	8	0	54	1.31
36178509--36178570	31	2.0	31	96	0	115	40	9	3	46	1.53
36182154--36182217	3	22.0	3	87	6	51	56	0	42	1	1.09
36186722--36186797	17	4.5	18	69	14	63	68	1	1	28	1.06
36186714--36186794	20	4.2	19	75	12	76	65	2	1	30	1.13
36186719--36186795	10	7.8	10	71	18	63	67	1	1	29	1.07
36186719--36186799	18	4.3	18	72	9	54	69	1	1	28	1.04
36186805--36186853	25	2.0	24	88	4	71	57	4	0	38	1.18
36188329--36188380	24	2.4	21	77	20	61	42	3	1	51	1.31
36188336--36188381	24	2.0	23	91	4	74	43	4	2	50	1.34
36201948--36201978	15	2.1	15	93	0	53	35	29	6	29	1.82
36206923--36207048	44	2.8	46	78	9	132	31	20	23	23	1.98
36209793--36210352	205	2.7	205	91	1	924	36	15	15	32	1.89
36211008--36211037	2	15.0	2	100	0	60	50	0	0	50	1.00
36213797--36213822	6	4.3	6	100	0	52	0	0	46	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36226264--36226296	15	2.2	15	89	10	50	63	0	0	36	0.95
36227777--36227811	8	4.4	8	100	0	70	54	0	0	45	0.99
36227777--36227820	16	2.8	16	89	6	54	54	0	2	43	1.12
36229015--36229072	29	2.0	30	86	3	82	20	41	0	37	1.53
36229676--36229757	26	3.2	26	98	0	155	23	32	12	31	1.91
36232930--36232958	2	14.5	2	100	0	58	48	0	0	51	1.00
36232998--36233131	38	3.6	38	80	6	114	44	4	11	39	1.60
36235096--36235261	88	1.9	88	81	7	203	24	23	24	27	2.00
36234839--36235378	220	2.5	219	92	1	893	25	25	20	28	1.99
36236331--36236367	7	5.4	7	84	15	51	0	13	0	86	0.57
36236331--36236366	10	3.5	10	85	7	54	0	13	0	86	0.58
36241740--36241788	20	2.3	21	80	16	57	57	2	6	34	1.35
36241816--36241893	33	2.4	33	77	0	93	48	3	10	37	1.55
36247882--36247973	37	2.5	37	82	8	116	32	22	1	43	1.61
36247882--36247974	36	2.5	35	81	13	107	32	23	1	43	1.61
36248288--36248331	22	1.9	24	90	9	74	25	20	0	54	1.45
36249058--36249096	12	3.4	11	80	13	51	46	2	0	51	1.14
36258041--36258090	25	2.0	25	84	0	64	42	6	8	44	1.58
36266376--36266484	24	4.4	25	83	6	98	31	22	26	20	1.98
36266397--36266568	49	3.4	49	75	10	143	34	21	24	19	1.96
36266370--36266568	25	8.0	25	75	11	124	33	21	24	20	1.97
36266632--36266714	24	3.4	24	79	1	76	32	20	27	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36268811--36268882	36	2.0	36	83	2	92	27	27	11	33	1.91
36274778--36274819	20	2.2	20	82	4	50	54	7	9	28	1.59
36284895--36286208	201	6.7	199	77	7	1114	30	21	18	30	1.97
36286602--36286852	99	2.5	99	88	1	351	24	29	18	27	1.98
36286814--36286934	33	3.7	33	76	12	115	23	28	23	24	1.99
36286807--36286934	66	1.9	66	84	3	168	24	28	21	25	1.99
36286602--36286896	99	3.0	99	81	4	238	24	28	20	27	1.99
36293511--36293550	17	2.4	17	87	8	55	35	2	2	60	1.24
36298951--36298984	18	2.0	18	88	11	54	58	0	0	41	0.98
36298959--36298991	18	1.9	17	88	11	50	54	0	0	45	0.99

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