genome.fa.s13.2.7.7.80.10.50.1000.114.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  114  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)
34651823--34651866	24	1.9	22	95	4	70	18	20	13	47	1.82
34651830--34651884	24	2.3	24	84	6	67	23	18	14	43	1.87
34653304--34653366	23	2.7	22	76	16	65	19	7	20	52	1.70
34657319--34657562	47	5.3	47	83	10	263	48	3	3	44	1.35
34657411--34657456	16	2.9	17	78	12	53	47	0	0	52	1.00
34657405--34657450	18	2.8	17	84	15	53	50	0	0	50	1.00
34657319--34657547	91	2.5	91	77	17	238	48	3	3	44	1.35
34657544--34657713	59	2.8	61	72	7	186	43	2	3	50	1.34
34657644--34657673	15	1.9	16	93	6	53	43	0	6	50	1.28
34657932--34657968	16	2.3	16	95	0	65	21	32	5	40	1.76
34658844--34658924	37	2.2	37	88	0	117	34	9	16	39	1.81
34664712--34664747	19	1.9	18	88	5	54	25	5	0	69	1.10
34664749--34664802	21	2.6	21	79	8	65	46	3	1	48	1.30
34664776--34664831	29	1.9	29	82	13	71	46	3	3	46	1.37
34670733--34670810	30	2.5	30	89	4	111	71	2	0	25	0.98
34670756--34670811	6	9.2	6	82	9	69	78	0	0	21	0.75
34675222--34675434	104	2.0	104	95	0	381	34	11	14	39	1.81
34675661--34675714	23	2.3	23	90	0	81	44	9	1	44	1.46
34678703--34678731	13	2.1	14	93	6	51	41	20	6	31	1.79
34693695--34693749	25	2.2	25	83	0	65	29	20	10	40	1.86
34698869--34698913	22	2.1	21	84	12	56	40	2	0	57	1.11
34706109--34706179	16	4.4	16	87	0	70	40	5	23	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34706333--34706383	26	2.0	26	88	3	77	41	0	7	50	1.31
34706385--34706513	57	2.2	56	79	8	125	54	4	0	40	1.27
34710081--34710268	33	5.7	33	73	9	116	20	17	16	45	1.86
34719227--34719490	138	1.9	138	90	3	424	44	6	9	40	1.62
34719478--34719616	75	1.9	75	87	6	210	33	11	8	46	1.71
34719534--34719575	22	2.0	22	86	13	61	40	4	9	45	1.58
34720173--34720237	27	2.4	27	86	0	103	12	18	38	30	1.88
34720173--34720264	27	3.4	27	80	5	96	15	17	35	31	1.91
34723965--34724001	17	2.2	17	95	0	65	24	2	21	51	1.61
34725230--34725507	46	6.0	46	95	0	484	35	8	26	28	1.87
34729539--34729583	21	2.2	20	81	11	56	48	22	4	24	1.68
34739193--34739370	95	1.9	95	96	0	329	30	11	18	39	1.86
34743919--34743951	14	2.4	14	85	5	50	72	0	9	18	1.10
34746489--34746534	19	2.5	19	86	10	60	39	6	2	52	1.40
34746814--34746858	19	2.3	20	85	11	58	31	4	2	62	1.27
34752080--34752120	22	1.9	21	85	5	55	12	17	9	60	1.57
34758730--34758803	27	2.7	26	75	8	76	31	13	28	27	1.94
34758967--34759084	27	4.4	26	80	9	94	38	13	25	22	1.91
34786259--34786312	19	2.8	19	88	2	72	9	9	5	75	1.17
34786322--34786352	14	2.2	14	94	0	53	19	6	12	61	1.53
34788116--34788167	19	2.6	19	80	19	54	30	1	1	65	1.14
34793103--34793141	20	2.0	20	84	0	51	53	5	23	17	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34796810--34796839	15	2.0	15	100	0	60	33	6	6	53	1.53
34798760--34798823	3	21.7	3	93	3	112	70	0	29	0	0.88
34798886--34798974	3	29.7	3	100	0	178	67	0	32	0	0.91
34809137--34809177	20	2.0	20	90	0	64	26	14	24	34	1.94
34810567--34810601	11	3.1	11	91	4	52	37	45	0	17	1.48
34817356--34817396	20	2.0	20	90	0	64	31	14	19	34	1.92
34862683--34862757	29	2.6	29	95	0	132	26	17	22	33	1.96
34863024--34863077	11	4.8	12	74	19	53	27	27	1	42	1.66
34863039--34863136	51	1.9	51	85	4	135	26	23	3	46	1.66
34864279--34864311	7	4.7	7	100	0	66	27	0	15	57	1.38
34864932--34864971	18	2.2	18	86	0	53	17	30	7	45	1.76
34865229--34865275	21	2.2	21	85	7	60	36	36	25	2	1.68
34865524--34865587	15	4.5	15	71	11	62	45	31	1	21	1.62
34865566--34866103	22	24.7	22	84	4	673	43	31	0	23	1.60
34865563--34865592	15	2.0	15	93	0	51	50	33	0	16	1.46
34865566--34866103	43	12.4	43	82	7	608	43	31	0	23	1.60
34865517--34866100	65	9.0	65	84	5	675	43	31	0	24	1.60
34865566--34866103	87	6.2	87	85	5	646	43	31	0	23	1.60
34869250--34869817	125	4.5	125	84	3	730	30	22	17	29	1.96
34869250--34869817	252	2.3	249	86	2	773	30	22	17	29	1.96
34882789--34882817	10	2.7	11	94	5	51	65	0	0	34	0.93
34882945--34882999	28	2.0	28	89	7	85	56	3	0	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34886854--34886905	12	4.4	12	74	13	54	26	5	17	50	1.69
34886866--34886917	23	2.3	23	93	0	86	30	7	13	48	1.71
34890070--34890108	20	2.0	20	85	5	53	53	7	10	28	1.62
34890487--34890519	17	2.0	17	88	5	50	45	0	0	54	0.99
34901415--34901464	26	1.9	26	87	0	73	60	4	28	8	1.43
34901502--34901528	6	4.5	6	100	0	54	85	0	0	14	0.61
34908057--34908090	13	2.6	13	85	0	50	17	20	41	20	1.91
34919607--34919638	16	2.0	16	93	0	55	25	15	0	59	1.36
34919776--34919860	46	1.9	43	85	7	116	32	28	16	22	1.95
34919866--34920056	51	3.8	51	78	8	210	30	27	16	24	1.97
34919860--34920082	101	2.2	103	78	7	242	30	28	15	25	1.96
34922121--34922154	16	2.1	16	94	0	59	61	0	0	38	0.96
34926492--34926787	147	2.0	147	90	4	463	30	13	14	41	1.84
34927597--34927649	14	3.8	14	76	0	52	43	47	0	9	1.36
34927597--34927649	21	2.5	20	76	8	52	43	47	0	9	1.36
34927878--34927910	15	2.3	15	89	5	50	33	33	3	30	1.73
34928317--34928516	41	4.9	41	83	0	247	29	26	22	22	1.99
34940900--34940993	43	2.2	43	86	0	134	43	22	12	21	1.86
34941381--34941414	14	2.4	14	90	0	50	38	2	11	47	1.55
34941560--34941586	9	3.0	9	100	0	54	33	0	0	66	0.92
34944745--34944780	18	1.9	19	88	5	56	11	5	5	77	1.10
34945582--34945626	21	2.0	21	87	8	63	35	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34950815--34950873	6	9.7	6	85	3	64	67	13	6	11	1.40
34950811--34950874	31	2.1	31	91	5	103	68	12	7	10	1.38
34953091--34953938	44	19.3	43	64	8	160	27	27	24	21	1.99
34953077--34953962	88	10.1	88	88	0	1205	27	26	24	21	1.99
34953953--34954479	128	4.1	127	91	1	849	31	19	23	25	1.98
34955928--34955972	21	2.0	21	87	8	63	35	2	0	62	1.08
34957896--34957941	23	2.0	23	86	0	65	34	23	4	36	1.75
34958064--34958123	24	2.4	25	78	10	61	28	5	3	63	1.31
34958142--34958206	25	2.6	26	70	7	62	50	4	1	43	1.32
34967064--34967137	37	2.0	37	100	0	148	29	10	21	37	1.88
34967899--34967933	18	1.9	18	88	0	52	17	48	0	34	1.47
34968410--34968440	5	6.4	5	96	3	55	64	19	0	16	1.29
34968736--34968775	6	6.3	6	94	5	62	15	20	0	65	1.28
34970107--34970300	97	2.0	96	96	1	361	36	30	10	22	1.88
34972414--34972446	17	1.9	17	100	0	66	24	27	6	42	1.78
34975646--34975790	41	3.5	40	84	3	175	24	28	20	26	1.99
34975740--34975886	41	3.6	41	89	1	215	34	23	17	24	1.95
34976149--34976615	61	7.3	63	70	18	254	41	15	5	37	1.70
34976307--34976590	65	4.4	65	68	17	212	41	14	4	39	1.66
34976205--34976615	194	2.1	195	96	0	761	41	15	5	37	1.69
34978897--34978946	17	2.9	17	93	0	91	24	26	8	42	1.82
34985582--34985636	6	9.2	6	100	0	110	16	0	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34993608--34993643	18	2.0	18	94	0	63	58	0	0	41	0.98
35010769--35010813	6	7.2	6	87	7	54	17	22	0	60	1.37
35010769--35010813	13	3.6	12	82	8	54	17	22	0	60	1.37
35010769--35010813	19	2.4	19	85	7	56	17	22	0	60	1.37
35010884--35010931	19	2.6	19	90	3	71	14	16	0	68	1.21
35024044--35024273	93	2.4	92	81	4	262	40	2	15	41	1.61
35024094--35024273	93	1.9	96	87	3	267	42	2	16	37	1.63
35024859--35024901	18	2.4	18	88	0	59	44	9	27	18	1.80
35025556--35025581	7	3.7	7	100	0	52	57	15	0	26	1.38
35026752--35026786	11	3.2	11	91	0	61	40	0	34	25	1.56

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