genome.fa.s8.2.7.7.80.10.50.1000.176.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  176  of  190  ( 22705 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)
51202251--51202597	114	3.0	113	84	6	434	24	22	24	28	1.99
51202053--51202446	203	2.0	198	88	2	590	23	21	26	28	1.99
51202251--51202640	114	3.4	115	83	6	415	23	21	24	30	1.99
51202979--51203011	14	2.3	15	94	5	59	30	0	33	36	1.58
51203220--51203259	14	2.8	14	84	3	53	17	0	45	37	1.49
51203638--51203677	21	1.9	21	84	0	53	10	2	40	47	1.50
51203645--51203695	14	3.7	14	76	5	50	9	0	41	49	1.36
51203645--51203695	20	2.5	21	90	3	77	9	0	41	49	1.36
51203884--51203918	2	17.5	2	100	0	70	51	0	0	48	1.00
51204652--51205045	147	2.7	146	76	6	368	25	14	23	35	1.94
51207166--51207223	18	3.2	19	83	13	68	39	3	1	55	1.27
51207374--51207522	13	11.5	13	72	12	110	40	9	3	46	1.53
51207425--51207497	37	2.0	37	97	0	137	38	8	4	49	1.52
51211320--51211369	16	3.4	16	73	21	63	46	18	2	34	1.60
51211303--51211369	28	2.4	28	92	2	107	46	16	2	34	1.62
51211383--51211527	28	5.0	28	74	15	114	44	15	2	37	1.59
51211258--51211588	158	2.1	157	96	0	608	43	15	1	39	1.57
51211478--51211527	16	3.4	16	68	21	54	44	18	4	34	1.68
51211635--51212032	9	45.8	9	73	13	325	45	21	1	31	1.59
51211635--51212028	34	11.4	34	75	11	306	46	21	1	31	1.59
51211658--51212028	43	8.5	43	75	12	339	46	21	1	31	1.58
51211639--51211960	88	3.7	88	91	3	483	47	20	0	31	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51211945--51211975	16	1.9	16	93	0	53	48	22	0	29	1.51
51217630--51217694	21	3.1	21	86	0	76	35	16	41	6	1.74
51218209--51218252	22	2.0	22	86	0	61	47	27	15	9	1.76
51218585--51218616	15	2.1	15	100	0	64	46	6	0	46	1.27
51224923--51224961	18	2.1	19	85	4	53	43	15	15	25	1.86
51226775--51226817	20	2.1	21	86	4	61	74	13	0	11	1.07
51227888--51227991	54	1.9	53	88	5	156	24	24	19	32	1.97
51228721--51228779	26	2.3	26	96	0	109	42	3	15	38	1.63
51229172--51229214	18	2.4	18	88	0	59	41	44	2	11	1.53
51229499--51229523	12	2.1	12	100	0	50	16	24	36	24	1.94
51230573--51230612	16	2.5	16	87	0	53	22	17	47	12	1.81
51230695--51230748	24	2.2	24	96	0	99	33	0	42	24	1.55
51231041--51231078	20	1.9	20	94	0	67	57	7	0	34	1.28
51231279--51231312	15	2.2	16	89	5	52	38	2	0	58	1.13
51231450--51231512	28	2.2	28	83	8	83	47	38	0	14	1.44
51231591--51231633	22	2.0	22	90	4	70	51	30	2	16	1.57
51232087--51232301	114	1.9	115	81	2	263	29	20	22	27	1.99
51232373--51233081	114	6.4	114	84	9	952	24	20	19	35	1.96
51232373--51233081	329	2.2	328	89	2	1048	24	20	19	35	1.96
51232740--51233058	101	3.0	101	84	8	406	22	21	19	36	1.95
51232625--51233058	215	2.0	216	91	2	712	22	21	19	35	1.96
51232866--51233122	114	2.3	113	85	5	304	24	19	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51243383--51243411	15	2.0	15	93	6	51	27	3	27	41	1.72
51249189--51249221	15	2.3	15	90	10	52	0	21	0	78	0.75
51249862--51249900	20	2.0	20	100	0	78	48	20	15	15	1.81
51252178--51252221	21	2.0	23	86	8	65	0	31	0	68	0.90
51252600--51252627	7	4.0	7	100	0	56	0	14	14	71	1.15
51255119--51255233	43	2.7	43	85	5	153	28	29	19	22	1.98
51265301--51265339	20	1.9	21	89	5	62	71	0	12	15	1.14
51270802--51270844	14	3.1	14	80	12	52	62	0	0	37	0.95
51291616--51291658	17	2.5	17	85	7	52	44	2	0	53	1.13
51334256--51334340	17	5.1	16	67	24	52	32	1	4	61	1.24
51334256--51334340	16	5.1	17	68	26	58	32	1	4	61	1.24
51334910--51334948	19	2.1	19	90	0	60	23	0	17	58	1.38
51340821--51340926	55	1.9	56	82	5	135	37	18	3	39	1.69
51342409--51342435	2	13.5	2	100	0	54	48	0	0	51	1.00
51349284--51349311	8	3.5	8	100	0	56	39	10	10	39	1.75
51356795--51356828	3	11.3	3	93	0	59	0	29	35	35	1.58
51360680--51360746	33	2.0	33	91	5	109	49	14	14	20	1.79
51362166--51362211	19	2.5	17	80	16	56	43	2	2	52	1.25
51362291--51362344	21	2.7	19	77	8	54	29	1	3	64	1.21
51363322--51363359	18	2.1	18	85	9	51	21	10	15	52	1.72
51385896--51385926	15	2.1	15	94	5	55	29	0	0	70	0.87
51385911--51385950	20	2.0	20	85	0	53	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51388165--51388205	18	2.2	20	86	8	59	65	9	0	24	1.22
51388286--51388350	30	2.2	30	88	5	96	60	13	3	23	1.48
51388380--51388422	22	2.0	22	85	0	59	55	9	13	20	1.66
51405284--51405315	2	16.0	2	100	0	64	50	0	50	0	1.00
51406236--51406842	174	3.5	173	87	4	820	35	9	11	42	1.74
51406808--51408669	201	9.4	202	78	8	1666	37	10	10	42	1.73
51406679--51408373	592	2.9	592	84	3	2119	36	10	11	42	1.74
51407400--51408669	204	6.4	202	79	9	1181	37	9	10	42	1.72
51407403--51408509	396	2.8	390	85	5	1305	36	10	10	43	1.73
51410184--51410221	18	2.0	19	85	10	51	60	5	2	31	1.33
51411537--51411574	17	2.1	19	80	14	53	34	2	5	57	1.35
51411539--51411579	18	2.3	18	87	4	57	34	2	4	58	1.32
51412115--51412157	22	2.0	22	85	0	59	58	11	11	18	1.63
51413446--51413535	46	2.0	46	88	0	135	47	5	20	26	1.71
51417407--51417536	64	2.0	64	100	0	260	27	19	16	36	1.93
51420996--51421041	16	2.9	16	93	0	83	39	4	34	21	1.73
51421020--51421110	45	2.0	44	89	6	139	32	4	27	35	1.77
51421023--51421127	44	2.5	40	75	18	106	36	3	27	32	1.75
51421374--51421425	15	3.6	15	80	12	56	53	1	0	44	1.11
51421258--51421790	120	4.4	121	96	0	912	49	5	3	42	1.40
51421731--51422013	91	3.0	93	85	6	333	48	3	3	45	1.35
51421772--51421939	47	3.7	46	70	18	143	47	4	2	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51421831--51421891	28	2.2	28	85	5	81	50	3	0	45	1.17
51421806--51422013	91	2.3	91	93	0	344	46	4	3	46	1.39
51421831--51421973	44	3.2	43	68	16	119	48	3	2	46	1.31
51421856--51421994	47	3.0	47	68	17	137	49	4	2	43	1.34
51425082--51425107	13	2.0	13	100	0	52	53	7	0	38	1.30
51426915--51426981	30	2.2	30	97	0	125	56	17	14	10	1.66
51428384--51428743	133	2.7	134	82	6	444	28	21	15	34	1.94
51430639--51430749	37	3.0	37	98	1	213	26	18	13	41	1.88
51432431--51432480	3	16.7	3	100	0	100	32	0	0	68	0.90
51432723--51432817	30	3.2	29	68	21	81	36	10	11	41	1.76
51432716--51432829	58	2.0	58	94	0	201	39	10	9	40	1.73
51432943--51432987	23	1.9	24	81	4	56	46	2	6	44	1.42
51434114--51434164	26	2.2	24	78	21	56	60	5	0	33	1.21
51437189--51437240	22	2.4	22	74	6	52	61	3	5	28	1.37
51437249--51437281	14	2.3	15	89	5	50	66	21	6	6	1.35
51438558--51438599	14	3.1	14	80	16	52	59	0	0	40	0.97
51439480--51439529	27	1.9	25	88	8	73	74	4	0	22	0.99
51439491--51439544	18	2.9	18	81	10	65	72	3	0	24	1.01
51445848--51445903	25	2.1	27	84	15	73	60	0	0	39	0.97
51453118--51453310	50	3.8	50	90	0	305	26	22	30	20	1.98
51462858--51462884	11	2.5	11	100	0	54	55	0	0	44	0.99
51464721--51464829	42	2.6	41	76	4	119	40	15	27	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51476998--51477054	28	2.1	27	83	9	71	61	0	3	35	1.13
51477028--51477062	17	2.1	17	88	0	52	65	0	5	28	1.15
51480433--51480464	9	3.6	9	91	0	55	46	12	9	31	1.73
51480548--51480596	19	2.5	19	87	9	64	55	8	0	36	1.30
51496150--51496288	42	3.3	41	80	4	152	42	18	23	15	1.89
51496189--51496260	21	3.4	21	67	7	65	43	16	25	15	1.87
51497918--51498020	51	2.0	51	92	0	170	38	18	7	34	1.80
51498298--51498352	27	2.0	27	100	0	110	30	21	10	36	1.88
51500241--51500274	17	2.0	17	94	0	59	11	26	5	55	1.58
51504820--51504864	20	2.2	21	88	4	65	64	4	2	28	1.25

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