genome.fa.s13.2.7.7.80.10.50.1000.143.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  143  of  199  ( 23770 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)
43005354--43005395	20	2.1	20	100	0	84	19	14	19	47	1.82
43006299--43006434	40	3.4	40	75	6	123	37	21	22	18	1.94
43006465--43006705	41	5.9	41	87	1	331	24	21	24	29	1.99
43010118--43010162	19	2.3	20	75	20	51	26	22	8	42	1.83
43012057--43012096	19	2.1	19	86	9	55	12	15	5	67	1.38
43014269--43014913	133	4.9	133	89	3	906	28	18	24	27	1.98
43015014--43015252	44	5.5	44	71	8	152	28	21	21	28	1.99
43015879--43015913	18	1.9	18	100	0	70	17	22	0	60	1.37
43018443--43018483	21	2.0	21	85	0	55	26	2	43	26	1.67
43019833--43020052	75	2.9	75	84	5	293	45	11	6	35	1.67
43019991--43020114	62	2.0	62	87	1	178	51	12	3	32	1.56
43019924--43020173	137	1.8	134	87	7	369	48	12	6	33	1.65
43020191--43020252	21	2.9	22	79	11	67	27	43	1	27	1.64
43020963--43021008	2	23.0	2	100	0	92	50	0	0	50	1.00
43024009--43024337	43	7.6	43	85	2	410	21	16	30	30	1.96
43024018--43024337	173	1.8	173	85	2	446	21	17	30	30	1.96
43024431--43024473	22	2.0	22	90	0	68	44	27	18	9	1.80
43025200--43025251	21	2.5	21	84	6	70	55	11	15	17	1.68
43026937--43026981	23	2.0	23	91	8	74	33	8	17	40	1.81
43031124--43031215	29	3.3	27	75	14	80	36	2	2	58	1.22
43031108--43031169	20	3.3	19	76	17	67	38	1	1	58	1.18
43031121--43031210	30	3.1	29	79	17	91	37	2	2	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43034591--43034641	23	2.2	23	82	3	57	47	19	15	17	1.83
43050921--43051304	192	2.0	191	95	0	696	32	19	13	34	1.91
43054662--43054956	41	7.2	41	83	2	315	25	18	26	30	1.98
43054662--43054956	123	2.4	121	85	3	374	25	18	26	30	1.98
43055132--43055315	14	12.9	14	69	16	74	23	1	28	46	1.62
43056214--43056248	12	2.9	12	100	0	70	60	0	0	40	0.97
43059670--43059897	43	5.3	43	84	3	289	26	18	26	28	1.98
43059669--43059893	87	2.6	85	84	3	290	26	18	26	28	1.98
43062342--43062377	5	7.0	5	96	3	63	58	0	0	41	0.98
43065836--43065873	13	2.9	14	88	11	62	13	0	36	50	1.42
43065856--43065956	21	4.8	22	78	9	63	13	0	30	54	1.46
43065837--43065956	7	17.4	7	67	8	50	13	0	32	53	1.46
43066268--43066306	20	2.0	20	89	0	60	48	25	5	20	1.70
43066714--43066798	21	4.1	20	69	14	55	48	31	1	18	1.56
43066947--43066990	20	2.1	21	87	4	63	40	31	2	25	1.68
43066961--43067016	28	2.0	28	86	6	78	44	30	0	25	1.54
43066993--43067036	13	3.4	13	87	6	54	52	31	0	15	1.44
43066984--43067051	20	3.4	20	76	12	59	47	33	0	19	1.50
43066959--43067051	7	13.7	7	70	10	59	46	32	0	21	1.52
43076245--43076282	20	1.9	20	100	0	76	78	0	15	5	0.91
43078927--43079000	35	2.1	35	87	0	103	24	6	20	48	1.73
43082709--43082766	30	1.9	30	85	3	80	25	6	17	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43083077--43083115	2	20.0	2	94	5	71	48	0	0	51	1.00
43087830--43087903	19	3.6	20	77	12	87	51	2	1	44	1.24
43088006--43088066	32	1.9	32	93	0	104	49	1	8	40	1.42
43089487--43089586	49	2.0	49	98	0	191	23	2	23	52	1.58
43100570--43100713	44	3.3	44	79	3	139	27	22	21	28	1.99
43100878--43101488	44	13.6	45	73	7	219	30	22	16	31	1.95
43100878--43101488	89	6.8	88	74	7	412	30	22	16	31	1.95
43100917--43101488	133	4.3	133	77	4	465	30	22	15	31	1.95
43113431--43113585	51	3.1	50	85	2	193	20	30	23	25	1.98
43113550--43113622	37	2.0	37	97	0	137	19	26	24	30	1.98
43113499--43113664	87	1.9	88	93	1	289	19	29	24	25	1.99
43113587--43113717	56	2.5	54	86	7	171	23	27	21	27	1.99
43114056--43114113	30	1.9	30	86	6	82	29	24	5	41	1.76
43116035--43116077	5	8.2	5	82	10	50	72	9	0	18	1.11
43116121--43116185	3	21.0	3	72	12	51	61	1	7	29	1.33
43124605--43124671	33	2.0	33	94	0	116	47	2	26	22	1.65
43127095--43127165	35	2.0	35	97	0	133	38	28	11	22	1.88
43129136--43129334	103	1.9	103	90	0	317	31	9	12	46	1.74
43141062--43141114	25	2.1	27	89	10	85	56	24	0	18	1.42
43154076--43154115	17	2.4	17	87	8	55	45	7	15	32	1.74
43154133--43154189	16	3.6	16	90	0	87	45	3	3	47	1.37
43154163--43154224	22	2.7	23	90	5	90	48	1	1	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43154863--43154931	34	2.0	34	100	0	138	11	21	17	49	1.78
43157374--43157427	16	3.4	16	82	10	65	27	22	3	46	1.69
43157382--43157435	16	3.4	16	85	10	74	25	24	1	48	1.61
43168842--43168879	19	2.0	20	85	15	53	36	2	2	57	1.26
43177977--43178001	6	4.2	6	100	0	50	0	16	0	84	0.63
43178229--43178266	14	2.4	17	87	12	55	52	0	0	47	1.00
43178246--43178284	12	3.4	11	80	13	51	46	2	0	51	1.14
43180933--43181075	51	2.8	51	81	6	182	34	27	16	21	1.95
43180929--43181105	51	3.5	49	74	9	158	33	27	15	24	1.95
43184424--43184474	23	2.1	24	82	7	59	35	25	0	39	1.56
43184693--43185013	25	12.8	25	71	3	180	35	16	27	20	1.94
43184694--43184957	50	5.3	50	86	0	350	36	16	26	20	1.93
43186552--43186603	3	17.0	3	84	4	68	30	3	1	63	1.23
43186670--43186699	14	2.1	14	93	0	51	46	13	0	40	1.43
43190023--43190076	22	2.5	22	84	0	81	40	16	25	16	1.89
43193325--43193365	19	2.1	20	86	4	57	51	2	14	31	1.56
43193778--43193890	37	2.9	39	80	11	142	24	16	23	35	1.95
43194834--43195053	110	2.0	110	89	1	334	24	21	33	20	1.97
43199572--43199608	16	2.2	17	81	18	51	51	0	0	48	1.00
43199576--43199610	16	2.2	16	90	10	54	48	0	0	51	1.00
43204043--43204085	19	2.4	17	85	14	52	34	13	13	37	1.85
43204592--43204787	44	4.5	43	71	14	141	27	26	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43204516--43204905	131	3.0	130	88	2	573	26	24	19	28	1.99
43204903--43205161	89	2.9	89	87	1	376	24	21	25	28	1.99
43204984--43205122	44	3.1	44	72	10	138	21	23	25	29	1.99
43204939--43205078	45	3.1	45	71	10	124	22	23	23	30	1.99
43205241--43205365	44	2.9	44	81	1	144	28	23	18	29	1.98
43205286--43205698	181	2.3	180	82	7	480	27	20	18	33	1.96
43205698--43205954	44	5.8	44	73	13	215	27	22	17	31	1.97
43206255--43206304	24	2.1	24	100	0	100	28	20	14	38	1.91
43206690--43206757	28	2.4	28	90	9	104	32	0	0	67	0.91
43214392--43214427	14	2.6	14	90	0	54	25	22	11	41	1.86
43217969--43218336	73	5.0	73	86	1	513	28	19	25	25	1.99
43220365--43220442	29	2.6	30	77	4	77	34	6	5	53	1.48
43223005--43223190	43	4.4	42	85	4	230	20	16	29	33	1.95
43223025--43223188	43	3.8	43	88	5	244	21	17	29	31	1.96
43223868--43223992	61	2.0	61	89	0	187	26	26	16	31	1.96
43227766--43227827	28	2.2	27	78	16	63	40	1	4	53	1.32
43229892--43229948	24	2.4	24	96	0	105	43	19	15	21	1.87
43234559--43234605	11	3.9	11	80	20	58	42	2	0	55	1.12
43234559--43234604	12	3.8	12	81	13	58	41	2	0	56	1.11
43237984--43238092	25	4.4	25	76	10	107	30	22	25	21	1.99
43237976--43238092	50	2.3	50	81	5	130	30	22	24	22	1.99
43239103--43239142	21	2.0	19	90	9	62	70	17	0	12	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43239575--43239601	13	2.1	13	100	0	54	14	7	0	77	0.97
43240361--43240726	26	14.3	26	71	16	108	28	6	5	59	1.44
43243291--43243327	17	2.1	18	85	14	51	32	0	13	54	1.40
43243819--43243855	9	4.1	9	92	0	65	45	13	10	29	1.77
43243904--43243964	30	2.0	31	90	3	97	19	40	0	39	1.52
43259749--43259783	15	2.4	14	86	9	52	22	0	37	40	1.55
43259763--43259834	28	2.5	29	81	2	83	20	0	43	36	1.53
43259778--43259834	14	4.0	14	78	10	62	19	0	45	35	1.50
43259770--43259810	21	2.0	20	85	4	55	19	0	41	39	1.52
43259799--43259846	22	2.2	22	88	7	71	16	2	47	33	1.58

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