genome.fa.s1.2.7.7.80.10.50.1000.167.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  167  of  187  ( 22383 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)
49285321--49285352	15	2.1	15	94	0	55	37	12	25	25	1.91
49289702--49289736	13	2.7	13	100	0	70	45	0	14	40	1.45
49290277--49290317	2	20.5	2	100	0	82	48	0	0	51	1.00
49290450--49290565	41	2.8	41	85	0	142	29	19	23	27	1.98
49292096--49292179	21	3.7	23	76	12	82	42	1	4	51	1.30
49292122--49292216	46	2.0	47	84	11	124	45	1	2	51	1.20
49292166--49292276	58	1.9	57	87	5	161	40	0	2	55	1.20
49292450--49292481	16	2.0	16	93	0	55	28	21	6	43	1.77
49295077--49295126	26	1.9	26	100	0	100	24	18	16	42	1.89
49304352--49304391	18	2.2	18	86	0	53	32	42	10	15	1.79
49307934--49307970	14	2.6	14	91	4	56	86	0	0	13	0.57
49307934--49307969	8	4.8	8	86	13	58	88	0	0	11	0.50
49308565--49308620	13	4.5	13	76	13	64	33	0	16	50	1.45
49309287--49309312	9	2.9	9	100	0	52	57	0	23	19	1.40
49312055--49312139	43	2.0	43	88	0	125	38	15	10	35	1.82
49316103--49316127	13	1.9	13	100	0	50	16	0	0	84	0.63
49316884--49316942	17	3.5	17	77	11	59	67	3	6	22	1.29
49324248--49324292	22	2.0	23	91	4	74	66	2	2	28	1.15
49324765--49324796	8	4.0	8	100	0	64	75	0	0	25	0.81
49328855--49328879	8	3.1	8	100	0	50	76	0	0	24	0.80
49337858--49338020	57	2.9	58	85	3	197	30	20	8	41	1.82
49339138--49339272	66	2.0	69	88	4	204	30	12	20	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49363601--49363632	16	2.0	16	93	0	55	25	15	0	59	1.36
49363858--49363998	51	2.8	50	79	10	153	29	30	17	23	1.97
49377519--49377657	69	2.0	67	87	2	197	41	2	5	51	1.38
49387451--49387496	23	2.0	22	83	4	56	41	13	2	43	1.55
49389054--49389138	42	2.0	42	93	0	143	37	9	10	42	1.72
49389432--49389457	4	6.5	4	100	0	52	23	0	0	76	0.78
49394098--49394138	15	2.6	17	85	11	52	19	0	2	78	0.87
49406714--49406758	3	15.0	3	100	0	90	33	0	0	66	0.92
49407492--49407532	16	2.7	16	85	7	50	73	2	7	17	1.17
49408139--49408500	152	2.4	152	87	3	509	44	9	4	41	1.57
49414820--49414876	27	2.1	27	83	0	69	40	17	7	35	1.77
49416280--49416316	14	2.6	14	95	4	65	29	13	27	29	1.94
49419219--49419276	4	14.5	4	77	0	62	25	27	1	44	1.64
49430107--49430168	32	2.0	32	90	3	99	29	16	11	43	1.82
49432626--49433536	469	1.9	468	89	3	1404	33	25	16	24	1.96
49437952--49438217	137	1.9	137	81	6	324	24	19	24	31	1.98
49446359--49446383	6	4.2	6	100	0	50	0	32	0	68	0.90
49454341--49454518	45	4.0	45	81	7	211	23	13	24	38	1.91
49454335--49454510	90	2.0	88	86	4	246	23	13	25	36	1.92
49456861--49457441	69	8.4	69	72	9	324	37	24	18	19	1.94
49456937--49457376	137	3.2	139	79	5	365	37	23	18	20	1.94
49456905--49457479	71	8.3	71	73	8	378	37	23	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49465215--49465250	16	2.3	15	85	4	54	0	72	0	27	0.85
49471323--49471364	13	3.3	13	87	9	52	35	0	0	64	0.94
49471323--49471371	22	2.3	22	82	10	57	38	0	0	61	0.96
49471486--49471531	20	2.4	18	89	10	74	65	15	2	17	1.37
49475372--49475422	16	3.3	16	75	10	52	41	1	1	54	1.22
49475807--49475836	11	2.9	10	90	9	51	46	0	0	53	1.00
49475978--49476051	33	2.3	33	88	2	105	33	10	20	35	1.87
49478166--49478213	22	2.1	23	85	14	64	14	27	16	41	1.87
49478196--49478285	22	4.1	22	80	5	94	11	24	23	41	1.87
49478175--49478293	44	2.7	43	79	7	123	11	24	21	42	1.86
49479496--49479583	24	3.7	24	81	1	97	12	18	25	44	1.84
49503094--49503139	21	2.3	21	81	7	60	47	15	6	30	1.70
49505963--49506016	25	2.2	25	83	12	67	55	0	3	40	1.17
49506678--49506736	30	2.0	30	86	6	84	47	11	8	32	1.70
49522162--49522209	24	2.0	24	100	0	96	41	4	25	29	1.74
49524476--49524544	20	3.5	20	89	0	111	46	24	20	8	1.79
49525984--49526084	50	2.0	50	90	0	157	33	15	24	25	1.95
49526164--49526224	27	2.3	27	83	8	79	34	14	24	26	1.94
49526314--49526380	27	2.5	27	100	0	134	41	11	26	19	1.86
49526299--49526453	27	5.7	27	79	3	123	40	8	23	28	1.83
49527878--49527958	26	3.2	25	77	15	85	33	9	13	43	1.77
49527892--49527974	26	3.2	26	78	13	82	30	10	15	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49530835--49530883	20	2.5	20	83	6	64	20	28	16	34	1.94
49530835--49530898	20	3.2	20	74	12	51	23	26	15	34	1.95
49546149--49546199	25	2.0	25	92	0	84	33	19	15	31	1.93
49546599--49546639	14	2.8	14	88	7	55	63	4	2	29	1.28
49547636--49547708	36	2.0	36	100	0	146	34	13	16	35	1.88
49553599--49553642	22	2.0	22	82	4	54	59	6	4	29	1.44
49554018--49554062	23	1.9	24	81	4	56	60	6	2	31	1.35
49555707--49555794	27	3.3	27	90	0	140	42	21	18	18	1.90
49555968--49556022	26	2.1	26	89	0	83	21	16	21	40	1.91
49557348--49557575	27	8.4	27	87	3	280	18	17	21	43	1.88
49557349--49557575	54	4.2	54	86	2	321	18	17	21	43	1.88
49557348--49557575	81	2.8	81	87	0	330	18	17	21	43	1.88
49565495--49565539	23	2.0	23	100	0	90	33	26	22	17	1.96
49565766--49565804	18	2.2	17	86	13	53	46	20	0	33	1.51
49572863--49572961	23	4.3	23	93	0	162	34	26	19	20	1.96
49573186--49573224	18	2.2	17	86	13	53	46	20	0	33	1.51
49592779--49592809	16	2.0	16	93	6	55	48	0	0	51	1.00
49592778--49592823	23	2.1	22	88	8	67	52	0	0	47	1.00
49599229--49599308	41	2.0	41	89	0	124	18	30	16	35	1.93
49604494--49604587	45	2.1	45	87	0	134	29	24	18	27	1.98
49604589--49604729	51	2.8	51	83	4	185	33	28	16	21	1.95
49608168--49608193	10	2.6	10	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49608607--49608640	12	2.8	12	90	4	50	73	2	2	20	1.09
49608733--49608780	19	2.5	20	76	13	55	56	2	2	39	1.23
49609693--49610333	103	6.3	103	87	6	864	30	0	14	53	1.45
49612633--49612790	75	2.2	73	85	4	203	28	6	11	53	1.61
49625214--49625434	121	1.8	121	99	0	433	26	24	11	37	1.90
49628695--49628797	43	2.4	43	83	3	118	33	23	15	27	1.95
49639152--49639193	17	2.5	17	80	7	50	52	0	4	42	1.22
49655550--49655628	33	2.4	33	100	0	158	34	27	7	30	1.85
49655910--49655941	17	1.9	16	93	6	55	34	31	12	21	1.91
49659923--49660115	50	3.9	49	80	4	192	28	20	27	23	1.99
49661830--49661906	20	3.8	20	68	0	55	35	22	22	20	1.96
49684922--49684961	21	1.9	21	85	10	55	37	5	12	45	1.64
49692446--49692508	28	2.2	30	82	5	76	34	1	49	14	1.53
49692468--49692514	7	6.2	8	88	11	57	34	0	53	12	1.39
49692463--49692514	14	3.7	14	80	14	63	32	0	53	13	1.40
49692464--49692508	23	2.0	21	87	8	63	33	0	55	11	1.35
49692457--49692514	21	2.8	20	80	14	64	32	0	53	13	1.40
49693922--49694074	22	7.0	22	90	0	225	26	26	14	32	1.94
49695093--49695130	20	1.9	20	89	10	60	60	5	0	34	1.19
49703290--49703317	14	2.0	14	100	0	56	57	0	7	35	1.26
49703661--49703721	20	3.0	19	81	18	70	72	6	6	14	1.26
49719324--49719414	47	1.9	47	97	0	173	45	10	23	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49722184--49722241	31	1.9	29	83	13	73	53	5	3	37	1.40
49724185--49724344	27	5.9	27	75	5	126	19	28	18	33	1.96
49724186--49724338	54	2.8	54	77	0	153	18	28	18	33	1.95
49731190--49731949	128	5.9	128	92	0	1153	25	25	19	29	1.98
49731177--49732061	384	2.3	383	86	2	1182	26	24	19	30	1.98
49731189--49732226	128	8.0	127	86	4	1067	26	24	18	29	1.98
49733600--49733646	13	3.4	14	91	5	69	12	17	0	70	1.17
49733606--49733652	15	3.3	15	80	17	55	14	14	0	70	1.18
49733600--49733646	20	2.2	21	88	7	69	12	17	0	70	1.17
49733600--49733646	7	6.7	7	88	9	69	12	17	0	70	1.17

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