genome.fa.s13.2.7.7.80.10.50.1000.53.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  53  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)
15595465--15595499	2	17.5	2	100	0	70	48	0	0	51	1.00
15602180--15602231	12	4.1	12	74	13	50	36	7	0	55	1.29
15602187--15602237	27	1.9	26	92	4	84	33	5	1	58	1.33
15602189--15602246	27	2.1	27	81	6	64	36	8	3	51	1.49
15605368--15605468	49	2.1	49	100	0	202	31	13	22	31	1.93
15607148--15607201	22	2.5	22	68	0	54	64	9	7	18	1.45
15610213--15610241	12	2.3	13	94	5	51	58	13	6	20	1.58
15613177--15613201	12	2.1	12	100	0	50	44	8	16	32	1.76
15618329--15618387	25	2.4	25	94	0	100	42	23	18	15	1.88
15618257--15618518	131	2.0	131	98	0	506	44	21	18	15	1.87
15618460--15618538	25	3.2	25	90	0	122	40	21	18	18	1.92
15633214--15633246	17	1.9	17	88	11	50	42	3	12	42	1.57
15635347--15635388	13	2.9	14	80	13	50	45	2	0	52	1.13
15635424--15635456	9	3.9	9	88	11	52	42	0	0	57	0.98
15641954--15642013	26	2.3	26	85	0	75	30	33	16	20	1.94
15645566--15645607	13	2.9	14	80	13	50	52	0	2	45	1.13
15645638--15645683	14	3.0	16	75	12	60	52	4	0	43	1.21
15648258--15648375	61	1.9	61	81	6	141	43	11	0	44	1.45
15651029--15651072	9	4.6	9	85	8	52	29	2	4	63	1.26
15651029--15651072	19	2.3	19	84	11	54	29	2	4	63	1.26
15651038--15651081	19	2.4	18	82	14	54	25	4	6	63	1.38
15653439--15653472	10	3.6	10	84	15	54	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15653521--15653612	38	2.4	39	82	8	109	38	6	0	55	1.26
15653526--15653653	48	2.7	49	80	12	140	36	6	1	55	1.35
15653732--15653766	16	2.1	17	94	5	63	31	0	0	68	0.90
15653753--15653796	23	2.0	22	81	4	52	27	0	6	65	1.17
15655156--15655185	2	15.5	2	93	6	53	50	0	0	50	1.00
15656090--15656136	20	2.3	20	85	7	60	51	4	4	40	1.41
15656719--15656758	16	2.5	16	87	0	53	65	2	10	22	1.35
15659612--15659685	25	3.0	25	83	0	94	28	18	27	25	1.98
15661193--15661486	44	6.6	44	79	2	257	31	18	15	34	1.93
15661193--15661486	89	3.3	88	83	4	315	31	18	15	34	1.93
15662295--15662340	21	2.1	22	84	11	60	58	0	0	41	0.98
15664072--15664268	108	1.8	108	86	3	288	30	13	19	36	1.91
15664053--15664268	53	4.0	53	79	7	256	28	14	20	36	1.92
15680651--15680870	109	2.0	109	100	0	440	38	12	12	36	1.81
15682920--15682960	19	2.1	19	86	9	55	63	4	0	31	1.15
15685868--15685904	18	2.1	17	90	5	56	48	2	0	48	1.15
15685873--15685907	9	3.9	9	84	0	52	51	2	0	45	1.16
15689732--15689838	25	4.3	25	71	8	83	37	15	22	24	1.93
15689732--15689829	50	2.0	50	81	0	115	38	16	21	23	1.92
15695203--15695291	27	3.3	27	82	0	97	47	8	22	21	1.78
15712674--15712734	30	2.0	30	96	0	113	27	24	13	34	1.93
15728411--15728463	25	2.2	24	86	6	72	50	18	16	13	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15728812--15728865	24	2.2	24	90	0	81	50	9	3	37	1.52
15733238--15733289	24	2.2	24	92	0	86	51	9	1	36	1.46
15738041--15738080	18	2.1	18	86	9	53	25	2	10	62	1.39
15747237--15747305	29	2.3	29	83	9	86	49	1	4	44	1.31
15748479--15748521	19	2.3	19	80	19	54	41	0	0	58	0.98
15748847--15748897	25	2.1	25	88	3	77	33	13	5	47	1.67
15754038--15754125	45	2.0	45	90	0	140	38	15	22	22	1.92
15762134--15762188	27	2.0	27	89	0	83	29	3	16	50	1.62
15762161--15762221	32	1.9	32	96	0	113	27	3	18	50	1.62
15763478--15763520	18	2.4	18	96	0	77	51	0	2	46	1.13
15772451--15772531	25	3.2	25	85	0	81	17	29	17	35	1.93
15772486--15772541	25	2.2	25	87	0	76	21	26	19	32	1.97
15774957--15775004	16	3.0	16	75	0	51	66	4	2	27	1.21
15781695--15781757	30	2.2	29	83	8	76	46	7	4	41	1.54
15791135--15791179	23	1.9	24	86	13	67	71	2	4	22	1.15
15802298--15802491	50	3.9	50	79	2	210	27	15	24	31	1.96
15802298--15802491	101	1.9	101	82	2	246	27	15	24	31	1.96
15803590--15803705	40	2.9	40	75	5	99	39	18	15	26	1.90
15803751--15804057	41	7.5	41	91	0	452	19	21	25	33	1.97
15804525--15804596	22	3.2	22	75	9	74	23	1	43	31	1.63
15804536--15804580	15	3.0	16	76	23	53	22	0	44	33	1.53
15804766--15804802	15	2.5	15	91	4	58	32	0	32	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15804398--15804990	301	2.0	297	85	5	813	29	2	26	41	1.69
15805284--15805329	19	2.5	19	89	3	67	78	2	2	17	0.96
15809493--15809631	43	3.2	43	82	4	174	25	16	29	28	1.97
15809469--15809630	86	1.9	85	84	6	220	24	16	29	30	1.96
15813222--15813246	13	1.9	13	100	0	50	32	8	16	44	1.76
15814216--15814451	51	4.7	48	76	11	197	26	17	25	30	1.97
15814216--15814491	101	2.7	101	82	6	328	27	16	25	31	1.96
15831564--15831605	18	2.5	17	85	11	59	23	7	30	38	1.82
15833659--15833694	16	2.2	16	95	0	63	25	16	19	38	1.92
15839484--15839668	101	1.8	102	90	3	302	23	18	27	30	1.98
15839482--15839666	51	3.7	50	78	9	196	23	18	27	30	1.98
15839590--15839670	26	3.2	26	64	22	71	22	13	29	34	1.92
15839672--15839766	45	2.1	45	90	0	154	27	18	23	30	1.98
15844341--15844468	29	4.4	29	85	2	168	27	14	21	36	1.92
15844297--15844468	57	3.0	58	82	3	186	28	13	19	37	1.91
15844334--15844487	29	5.4	29	82	5	125	25	16	21	36	1.94
15846267--15846417	56	2.6	58	80	8	162	30	23	23	22	1.99
15846305--15846421	28	4.2	28	88	0	162	31	23	23	21	1.98
15846530--15846631	26	3.9	26	79	5	125	41	23	17	17	1.90
15846783--15846976	27	7.2	26	80	6	165	20	21	19	39	1.93
15846783--15846976	82	2.4	81	79	9	223	20	21	19	39	1.93
15849362--15849396	18	1.9	18	94	0	61	48	2	17	31	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15851046--15851115	34	2.1	34	97	0	131	34	20	2	42	1.66
15851292--15851352	31	2.0	31	83	0	77	21	24	19	34	1.96
15851323--15851347	13	1.9	13	100	0	50	16	32	20	32	1.94
15856239--15856276	18	2.1	18	90	0	58	57	5	5	31	1.43
15857076--15857109	18	1.9	17	88	5	50	20	5	0	73	1.04
15857203--15857276	23	3.2	23	79	9	78	31	1	2	64	1.15
15857302--15857351	17	3.0	17	76	2	57	22	4	4	70	1.21
15860927--15860958	16	2.0	16	93	0	55	25	21	6	46	1.74
15865265--15865363	27	3.7	27	86	0	108	32	14	27	26	1.94
15865285--15865376	27	3.4	27	86	0	112	36	13	25	25	1.91
15868062--15868100	20	2.0	20	94	0	69	15	23	2	58	1.49
15868302--15868543	50	4.7	50	78	6	193	24	27	20	27	1.99
15868649--15868693	22	2.1	21	83	4	54	51	11	4	33	1.58
15873258--15873301	23	2.0	22	86	13	63	45	20	18	15	1.85
15880444--15880583	27	5.2	27	78	8	151	35	15	23	25	1.94
15880564--15880643	27	3.0	27	87	7	110	36	6	26	31	1.81
15882097--15882164	27	2.5	27	90	4	102	27	13	25	33	1.93
15882145--15882218	30	2.6	28	80	6	85	33	17	25	22	1.96
15882234--15882308	31	2.5	30	84	4	89	37	20	20	22	1.94
15883726--15883775	26	1.9	26	87	0	73	40	10	20	30	1.85
15884997--15885061	21	3.1	21	75	6	51	44	16	21	16	1.86
15885017--15885131	42	2.7	43	78	16	134	43	19	20	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15886546--15886699	27	5.8	27	83	3	190	38	12	23	25	1.90
15886546--15886699	26	5.8	27	83	3	172	38	12	23	25	1.90
15886557--15886699	53	2.7	53	86	8	177	37	13	23	25	1.92
15890609--15890639	16	1.9	16	93	0	53	29	16	25	29	1.96
15890721--15890780	27	2.3	27	88	2	86	20	26	21	31	1.98
15893663--15893722	20	3.0	20	76	11	61	38	5	5	51	1.45
15893765--15893798	12	2.8	12	90	0	50	47	2	2	47	1.32
15898615--15898667	20	2.7	20	81	0	70	7	26	20	45	1.78
15901905--15901947	20	2.2	20	83	8	52	51	2	25	20	1.60
15903121--15903174	21	2.5	22	80	11	60	25	5	20	48	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