genome.fa.s10.2.7.7.80.10.50.1000.177.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  177  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)
54974643--54974677	3	11.7	3	93	0	61	68	28	0	2	1.04
54974670--54974758	3	29.3	3	93	2	151	65	3	0	31	1.09
54974805--54974843	20	2.0	21	85	10	55	66	10	0	23	1.22
54974867--54974895	10	2.7	11	89	10	51	0	27	0	72	0.85
54974989--54975073	27	3.1	27	84	0	116	16	28	28	27	1.97
54975121--54975190	27	2.5	28	90	6	108	47	2	10	40	1.52
54977606--54977677	31	2.3	29	84	13	83	45	9	22	22	1.81
54978665--54978692	3	9.3	3	100	0	56	32	35	0	32	1.58
54986106--54986141	18	2.1	18	89	5	56	52	16	0	30	1.44
54986361--54986484	42	3.0	41	84	7	169	29	28	16	26	1.97
54991848--54991914	29	2.2	32	81	7	77	50	1	2	44	1.26
54995701--54995870	42	4.0	42	83	6	193	34	25	14	24	1.94
54995650--54995870	85	2.6	83	80	6	246	34	25	15	24	1.95
54997286--54997348	31	2.0	31	90	6	101	33	6	12	47	1.67
55000618--55000671	20	2.7	20	97	0	99	25	31	29	12	1.93
55001030--55001065	18	1.9	19	88	5	56	44	22	13	19	1.86
55002733--55002780	2	24.0	2	100	0	96	50	0	0	50	1.00
55005055--55005089	18	2.0	17	88	5	52	54	0	0	45	0.99
55004942--55005258	157	2.0	157	96	0	589	44	3	4	47	1.40
55005192--55005233	15	2.7	16	82	14	52	52	2	0	45	1.13
55005201--55005242	15	2.9	15	82	10	52	52	0	0	47	1.00
55004997--55005343	157	2.2	154	80	7	342	46	4	3	45	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55005408--55005455	26	1.9	25	84	16	64	52	2	0	45	1.12
55005363--55005591	92	2.5	92	81	9	229	48	3	3	44	1.38
55012254--55012297	22	2.0	22	86	8	63	29	0	0	70	0.88
55012612--55012653	12	3.2	13	83	10	50	28	0	7	64	1.20
55014770--55014803	2	17.5	2	93	6	61	47	0	0	52	1.00
55016243--55016275	2	17.0	2	87	6	50	51	0	3	45	1.16
55027595--55027627	6	5.3	6	92	7	57	15	0	45	39	1.46
55027815--55028101	124	2.3	124	88	0	448	32	18	20	29	1.96
55031201--55031326	48	2.6	48	93	1	207	45	7	3	42	1.52
55031201--55031498	49	6.5	49	76	12	260	45	7	4	42	1.51
55031290--55031357	31	2.2	31	89	2	102	41	7	5	45	1.56
55031195--55031582	128	3.0	128	86	7	504	45	7	3	43	1.49
55031201--55031693	177	2.8	177	95	0	882	45	8	3	42	1.51
55031320--55031495	49	3.6	49	96	0	316	46	7	3	42	1.50
55031503--55031674	49	3.5	49	94	1	301	45	8	2	43	1.50
55031396--55031644	127	2.0	127	90	4	362	46	8	3	41	1.50
55031503--55031683	97	1.9	94	88	6	276	46	8	2	41	1.49
55033952--55034026	22	3.4	22	94	0	132	48	0	26	25	1.52
55033952--55034027	10	7.0	10	78	15	80	48	0	26	25	1.51
55035851--55035950	33	3.1	31	79	11	85	50	1	8	41	1.39
55035866--55035952	33	2.7	32	77	12	95	47	1	9	42	1.43
55037167--55037191	13	1.9	13	100	0	50	4	0	32	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55037806--55037998	44	4.3	44	78	7	185	26	21	20	31	1.98
55037843--55037996	44	3.5	44	81	1	200	27	22	20	29	1.98
55037774--55038001	89	2.6	89	83	0	276	26	22	19	31	1.98
55046253--55046282	10	3.0	10	100	0	60	10	50	0	40	1.36
55048495--55048576	37	2.2	37	93	0	146	23	28	35	13	1.92
55050118--55050517	43	9.3	43	87	2	554	25	28	20	26	1.99
55050118--55050517	171	2.3	172	87	1	561	25	28	20	26	1.99
55050118--55050551	214	2.0	214	85	2	577	25	29	19	25	1.99
55053381--55053441	26	2.3	26	97	2	113	36	8	8	47	1.63
55055456--55055488	16	2.1	16	88	11	50	57	0	0	42	0.98
55055589--55055637	14	3.4	14	83	5	62	44	32	2	20	1.63
55055795--55055832	17	2.2	18	95	4	69	39	0	0	60	0.97
55055794--55055864	27	2.6	29	73	13	78	40	5	0	53	1.24
55055872--55056234	41	8.9	41	90	0	555	31	29	20	18	1.96
55060694--55060741	23	2.1	23	100	0	78	29	4	20	45	1.70
55060706--55060993	28	10.2	28	79	14	263	31	1	22	44	1.62
55060743--55060939	51	3.8	52	81	14	235	31	1	22	44	1.60
55060765--55060817	23	2.3	21	96	0	70	33	1	18	45	1.61
55060864--55060970	34	3.4	33	86	10	152	32	0	24	42	1.55
55060864--55060986	62	2.0	61	88	1	183	33	0	21	43	1.59
55063091--55063124	15	2.3	15	90	5	52	67	5	0	26	1.13
55063321--55063362	22	1.9	22	90	0	66	33	0	33	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55063334--55063392	30	2.0	30	96	0	109	32	0	35	32	1.58
55063312--55063414	52	2.0	51	84	5	136	33	0	32	33	1.65
55063363--55063433	22	3.2	22	90	7	108	36	1	28	33	1.66
55068241--55068311	35	2.0	35	100	0	142	22	16	11	49	1.78
55068759--55068816	29	2.0	30	86	3	82	37	0	41	20	1.53
55072428--55072707	139	2.0	139	97	0	533	45	15	11	27	1.80
55075153--55075188	6	6.0	6	100	0	72	66	0	0	33	0.92
55079475--55079500	12	2.2	12	100	0	52	69	0	0	30	0.89
55081596--55081707	4	28.0	4	100	0	224	50	25	0	25	1.50
55084224--55084260	13	2.7	14	91	4	58	40	10	5	43	1.63
55090261--55090367	40	2.7	40	82	0	133	30	19	22	27	1.98
55090174--55090478	155	2.0	154	92	0	502	30	17	23	28	1.97
55090300--55090596	117	2.6	118	84	3	370	31	15	23	28	1.96
55090177--55090692	273	1.9	269	88	3	768	30	17	24	28	1.97
55090534--55090644	40	2.8	40	80	6	125	30	20	23	25	1.99
55090783--55090836	21	2.6	22	80	11	60	24	0	25	50	1.50
55090799--55090842	14	3.1	15	81	12	58	20	0	27	52	1.47
55090791--55090842	21	2.5	21	87	0	68	21	0	28	50	1.49
55090810--55090851	14	3.0	14	85	0	57	19	0	30	50	1.48
55091066--55091171	43	2.5	43	84	3	133	19	1	33	45	1.62
55091105--55091164	29	2.1	28	87	3	84	18	1	35	45	1.60
55091015--55091164	7	21.6	7	77	9	110	18	1	33	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55091069--55091172	36	2.9	36	81	8	122	20	1	32	45	1.62
55091109--55091172	29	2.2	29	80	2	76	18	1	34	45	1.59
55092302--55092512	43	4.9	43	79	5	185	28	18	23	28	1.98
55092325--55092595	43	6.3	43	81	6	307	26	17	24	31	1.97
55095084--55095119	12	2.9	12	91	4	54	16	27	0	55	1.42
55095084--55095119	18	1.9	19	88	5	56	16	27	0	55	1.42
55096526--55096577	23	2.3	22	90	6	77	40	7	1	50	1.42
55096518--55096581	23	2.7	23	81	16	76	37	6	3	53	1.42
55096601--55096635	12	2.9	12	86	0	52	40	14	0	45	1.45
55098482--55098932	221	2.0	221	93	0	767	41	22	6	29	1.79
55101831--55101877	18	2.4	19	82	10	51	25	6	10	57	1.56
55111635--55111681	18	2.4	19	82	10	51	25	4	10	59	1.49
55112824--55112865	22	2.0	22	86	13	61	35	4	16	42	1.69
55115130--55115171	17	2.5	17	96	3	77	23	7	30	38	1.82
55116840--55116979	38	3.7	38	79	6	149	19	25	27	27	1.99
55116840--55116987	76	1.9	76	81	10	178	20	25	27	27	1.99
55126285--55126322	9	4.2	9	83	9	51	65	2	0	31	1.06
55127164--55127245	17	4.9	16	70	8	56	20	18	30	30	1.96
55128652--55128676	2	12.5	2	100	0	50	48	0	0	52	1.00
55129932--55129958	8	3.4	8	100	0	54	55	0	22	22	1.44
55134656--55134696	20	2.0	20	95	0	73	26	9	17	46	1.79
55144244--55145068	276	3.0	276	87	3	1148	46	7	20	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55147897--55147927	6	5.2	6	100	0	62	16	0	0	83	0.64
55151230--55151309	39	2.1	39	100	0	160	25	25	7	42	1.80
55152507--55152852	171	2.0	174	84	2	455	27	14	19	37	1.91
55153386--55153419	14	2.4	14	90	5	50	44	5	8	41	1.60
55158208--55158236	14	2.1	14	100	0	58	44	13	13	27	1.82
55158437--55158461	6	4.2	6	100	0	50	0	68	0	32	0.90
55161112--55161168	30	1.9	30	92	0	96	61	12	5	21	1.50
55166509--55166621	25	4.6	25	80	4	113	32	19	27	20	1.97
55166925--55166958	15	2.2	16	89	5	52	47	14	0	38	1.45
55166943--55167002	30	2.0	30	100	0	120	40	23	3	33	1.71

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