genome.fa.s10.2.7.7.80.10.50.1000.158.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  158  of  202  ( 24201 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)
49380440--49380480	21	2.0	21	85	0	55	43	17	12	26	1.84
49383349--49383537	93	2.0	93	95	0	342	32	15	15	35	1.89
49388376--49388407	17	1.9	16	93	6	55	78	0	15	6	0.95
49390486--49390521	2	18.0	2	100	0	72	0	50	0	50	1.00
49410525--49410821	152	2.0	152	100	0	594	29	20	9	40	1.83
49411255--49411444	45	4.2	45	81	6	163	34	24	15	26	1.95
49415707--49415739	2	16.5	2	100	0	66	51	0	0	48	1.00
49421199--49421395	98	2.0	98	91	0	322	38	23	10	27	1.87
49421913--49421964	24	2.0	24	85	10	68	67	0	9	23	1.20
49422012--49422058	25	2.0	24	87	8	69	57	4	8	29	1.48
49422696--49422768	19	3.8	19	81	0	101	32	16	10	39	1.83
49423018--49423545	44	12.2	44	69	12	261	27	21	20	31	1.98
49422980--49423545	217	2.6	216	94	0	961	27	21	20	30	1.98
49423568--49423746	44	4.1	44	64	13	125	24	22	21	31	1.98
49423538--49423993	132	3.5	132	92	0	716	24	23	19	32	1.97
49423538--49424136	264	2.4	246	86	5	822	24	23	19	32	1.98
49423880--49424107	114	2.0	114	94	1	404	21	26	18	32	1.97
49425342--49425384	20	2.2	20	86	0	59	9	18	0	72	1.11
49425348--49425393	20	2.2	21	84	7	58	6	21	0	71	1.08
49429477--49429673	98	2.0	98	92	0	331	38	25	9	26	1.86
49430965--49431039	19	3.8	19	84	6	105	32	16	13	38	1.87
49430976--49431038	21	3.1	21	81	9	94	34	14	11	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49437098--49437140	19	2.3	19	95	0	77	32	4	20	41	1.73
49437107--49437148	19	2.2	19	95	0	75	33	4	21	40	1.74
49440508--49440686	44	4.1	44	90	2	279	50	11	8	28	1.69
49452113--49452200	44	2.0	45	86	2	124	40	4	5	48	1.47
49452650--49452703	14	3.9	14	77	15	51	31	5	0	62	1.18
49454544--49454581	20	1.9	20	88	0	58	36	28	13	21	1.91
49455597--49455765	59	2.8	60	86	0	223	42	11	5	40	1.63
49455930--49456010	6	13.5	6	92	5	137	50	1	1	46	1.17
49459037--49459091	17	3.2	17	82	12	69	70	1	1	25	1.06
49459041--49459091	4	13.2	4	83	8	54	70	1	1	25	1.08
49460666--49461195	94	5.8	95	71	10	236	30	18	16	34	1.93
49460666--49461610	44	20.8	44	72	10	422	29	18	17	34	1.94
49461302--49461609	45	6.9	46	77	5	233	27	19	17	36	1.94
49468595--49468642	15	3.3	14	77	8	51	25	0	29	45	1.53
49468596--49468678	14	5.9	14	72	8	60	24	1	27	46	1.60
49468843--49468893	7	7.1	7	80	4	57	17	0	39	43	1.49
49468852--49468893	22	1.9	22	90	0	66	21	0	33	45	1.52
49469256--49469333	41	2.0	39	87	7	113	52	5	3	38	1.42
49469393--49469671	126	2.2	126	82	3	350	34	16	18	30	1.93
49469772--49469812	20	2.0	20	95	0	73	24	43	0	31	1.54
49470664--49470704	13	3.2	13	86	6	66	14	2	29	53	1.54
49470665--49470701	12	2.9	13	88	8	58	16	2	29	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49471358--49471423	33	2.0	33	96	0	123	43	16	6	33	1.73
49471728--49471766	20	2.0	20	89	0	60	35	5	2	56	1.35
49471836--49472134	9	33.0	9	70	11	139	42	19	2	36	1.62
49471845--49472089	56	4.3	56	85	5	328	42	20	1	36	1.62
49471832--49472077	61	4.0	61	79	9	209	42	19	1	36	1.61
49471828--49472077	117	2.1	116	87	2	358	42	19	1	36	1.61
49477952--49478163	43	5.0	43	86	6	288	31	23	20	24	1.98
49477948--49478162	86	2.5	87	90	3	321	31	23	20	25	1.98
49478349--49478385	4	9.2	4	87	0	56	70	2	2	24	1.14
49478462--49478519	20	2.9	19	82	17	73	67	1	3	27	1.17
49478552--49478602	18	2.7	19	72	22	54	70	1	7	19	1.21
49484889--49484913	10	2.5	10	100	0	50	80	8	0	12	0.92
49492800--49492846	17	2.8	17	90	3	69	27	0	17	55	1.42
49494052--49494235	46	4.0	46	90	2	282	35	8	25	30	1.86
49494052--49494235	91	2.0	92	89	3	282	35	8	25	30	1.86
49496125--49496159	6	5.8	6	100	0	70	51	31	0	17	1.45
49497044--49497075	16	2.1	16	94	5	57	68	0	31	0	0.90
49503814--49503855	15	2.5	17	82	14	52	57	7	2	33	1.39
49506672--49506706	18	1.9	18	88	11	54	40	0	8	51	1.33
49510430--49510497	22	3.1	21	71	19	66	32	16	16	35	1.91
49510630--49510670	22	1.9	21	85	5	55	58	0	2	39	1.11
49513362--49513399	19	2.0	19	94	0	67	31	13	26	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49518029--49518079	19	2.7	19	84	0	66	37	29	5	27	1.80
49519347--49519463	38	3.1	38	83	0	153	35	31	18	13	1.90
49521092--49521152	18	3.3	18	78	15	63	73	0	22	3	0.97
49521504--49521547	20	2.2	21	88	8	65	18	6	4	70	1.27
49522221--49522249	12	2.4	12	100	0	58	37	6	0	55	1.27
49524381--49524470	44	2.0	44	100	0	180	45	31	6	16	1.73
49527741--49527785	21	2.1	22	84	12	58	66	8	11	13	1.44
49530596--49530791	35	5.7	34	85	2	257	38	18	22	19	1.93
49530583--49530795	69	3.1	69	92	0	345	40	17	22	19	1.91
49531053--49531091	15	2.8	13	82	14	51	38	12	5	43	1.65
49536958--49536995	20	1.9	20	88	0	58	42	10	7	39	1.69
49537339--49537369	14	2.1	15	94	5	55	54	9	0	35	1.33
49544692--49544763	25	2.8	25	83	8	76	33	22	26	18	1.96
49544717--49544917	25	7.8	26	70	13	89	34	20	25	19	1.96
49556253--49556310	25	2.3	24	82	8	71	29	22	25	22	1.99
49556350--49556407	25	2.3	25	87	0	89	37	18	27	15	1.92
49556392--49556465	25	2.9	27	75	15	75	33	18	24	22	1.97
49562120--49562181	33	1.9	32	90	3	97	30	19	4	45	1.71
49562493--49562548	24	2.5	23	80	11	62	58	7	5	28	1.46
49572108--49572137	12	2.5	12	94	0	51	16	30	30	23	1.96
49573362--49573454	25	3.7	25	75	5	80	25	19	26	27	1.99
49577312--49577358	17	2.7	18	77	9	53	40	2	2	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49588934--49589036	51	2.1	50	90	3	163	47	11	9	31	1.72
49591039--49591081	18	2.6	16	85	7	59	62	0	2	34	1.08
49591039--49591081	17	2.6	15	82	17	50	62	0	2	34	1.08
49593112--49593156	19	2.6	16	83	16	54	31	24	0	44	1.54
49593663--49593714	5	10.2	5	78	12	52	25	25	15	34	1.95
49606244--49606286	21	2.0	22	86	8	63	58	0	0	41	0.98
49606279--49606327	19	2.7	19	81	9	57	59	2	2	36	1.21
49608618--49608661	23	1.9	23	85	0	61	27	6	11	54	1.61
49613533--49614494	325	3.0	323	86	3	1358	33	12	16	38	1.86
49615249--49615313	32	2.1	32	97	2	123	47	12	9	30	1.72
49620370--49620429	32	1.9	32	93	3	104	46	13	6	33	1.69
49620596--49620735	70	2.0	70	100	0	280	34	17	17	31	1.93
49622475--49622524	20	2.5	19	80	6	55	38	0	8	54	1.30
49622475--49622526	19	2.7	19	84	3	59	38	0	7	53	1.30
49642270--49642337	35	2.0	34	94	2	118	60	19	2	17	1.49
49644171--49644205	18	1.9	18	88	0	52	62	2	0	34	1.10
49647022--49647059	12	3.0	13	84	7	60	18	28	23	28	1.98
49647451--49647501	21	2.7	19	76	11	52	39	15	11	33	1.84
49647742--49647830	34	2.6	34	75	7	81	26	17	24	30	1.98
49649796--49649833	16	2.4	16	86	4	51	15	2	2	78	0.97
49658862--49659129	123	2.2	125	79	9	282	42	9	8	39	1.68
49662429--49662510	39	2.1	39	81	4	94	39	0	2	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49662658--49662696	14	2.6	14	88	8	51	38	17	10	33	1.84
49667671--49667701	9	3.4	9	90	0	53	25	12	22	38	1.90
49667995--49668054	30	2.0	31	90	3	95	20	35	0	45	1.51
49672477--49672661	85	2.2	85	92	0	298	27	16	16	39	1.90
49681732--49681777	23	2.0	23	95	0	83	34	15	13	36	1.86
49682147--49682194	23	2.1	23	100	0	96	33	8	25	33	1.86
49688983--49689038	5	10.6	5	92	7	85	17	1	0	80	0.80
49690368--49690400	17	1.9	17	88	11	50	18	39	18	24	1.92
49700696--49700824	14	9.2	14	71	15	79	31	0	5	62	1.24
49701949--49701977	8	3.6	8	100	0	58	65	0	0	34	0.93

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