genome.fa.s1.2.7.7.80.10.50.1000.172.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  172  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)
51303799--51303859	12	5.2	12	84	4	70	4	14	3	77	1.07
51303817--51303859	6	7.3	6	92	5	70	0	16	2	81	0.79
51308439--51308477	20	2.0	20	85	10	53	58	15	0	25	1.37
51311248--51311299	26	2.0	26	96	0	95	34	21	19	25	1.96
51316241--51316308	32	2.1	32	100	0	136	44	5	19	30	1.74
51334803--51334987	96	1.9	95	85	4	255	35	13	18	32	1.90
51336919--51337004	45	1.9	45	88	4	129	31	25	17	25	1.97
51340075--51340114	12	3.2	12	86	13	62	7	10	15	67	1.41
51340075--51340112	14	2.9	14	92	7	62	7	10	15	65	1.45
51346616--51346645	14	2.1	14	93	0	51	40	0	43	16	1.48
51349196--51349251	27	2.0	28	89	6	87	57	5	3	33	1.39
51368161--51368201	16	2.7	15	76	23	50	46	0	24	29	1.53
51369396--51369429	11	2.9	12	86	8	52	8	38	29	23	1.85
51372472--51372550	24	3.2	25	77	10	74	29	20	25	25	1.99
51382549--51382593	22	2.0	23	83	12	58	42	26	0	31	1.56
51389797--51389827	15	2.1	15	93	0	53	35	25	32	6	1.82
51392372--51392494	58	2.1	58	84	0	156	38	11	23	26	1.89
51392372--51392499	29	4.4	29	79	7	134	38	10	24	26	1.88
51392487--51392601	29	3.9	29	79	4	106	40	13	21	23	1.89
51398072--51398128	25	2.3	25	93	0	96	28	19	21	31	1.97
51402593--51402836	40	6.1	40	85	4	280	21	28	15	34	1.94
51402595--51402822	120	1.9	120	85	2	316	21	29	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51405743--51405780	19	2.0	19	90	10	60	39	0	39	21	1.53
51406215--51406262	23	2.2	23	81	7	55	60	2	8	29	1.37
51417155--51417183	12	2.3	13	94	5	51	20	6	6	65	1.40
51421950--51421983	13	2.7	13	90	4	52	47	2	0	50	1.16
51423478--51423523	21	2.2	21	88	7	67	73	6	4	15	1.19
51423483--51423544	25	2.5	24	86	2	79	69	4	6	19	1.29
51424422--51424465	14	3.1	14	78	12	54	65	0	9	25	1.21
51434982--51435389	41	9.7	40	78	9	379	23	16	25	35	1.95
51435024--51435344	84	3.8	83	90	3	502	22	15	24	36	1.94
51442503--51442556	22	2.5	21	76	8	54	24	1	14	59	1.46
51444706--51444743	19	2.0	19	85	10	51	23	36	0	39	1.55
51446179--51446219	22	1.9	22	85	5	57	48	9	9	31	1.69
51447120--51447153	17	2.0	17	94	0	59	58	8	11	20	1.59
51455309--51455350	16	2.7	15	85	7	57	47	2	0	50	1.14
51455908--51455967	24	2.4	25	81	8	70	40	3	0	56	1.16
51459990--51460174	101	1.8	101	88	5	284	24	17	27	30	1.97
51459984--51460172	51	3.8	50	79	5	188	24	17	28	30	1.97
51463011--51463303	50	5.7	50	84	4	320	23	29	20	26	1.99
51463032--51463310	100	2.8	100	85	4	364	22	29	20	26	1.99
51463011--51463310	150	2.0	151	83	7	376	23	30	20	27	1.98
51470833--51470888	18	2.8	20	78	15	71	25	33	3	37	1.73
51473425--51473462	18	2.1	18	95	0	67	23	10	23	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51483947--51483986	21	1.9	21	89	0	62	35	10	12	42	1.76
51485119--51485162	23	2.0	23	86	8	65	36	4	4	54	1.41
51485155--51485196	22	2.0	22	90	4	68	26	4	14	54	1.59
51489000--51489055	24	2.3	24	93	0	94	21	16	16	46	1.84
51490753--51490799	20	2.3	20	92	0	76	25	21	0	53	1.46
51497419--51497525	41	2.6	41	76	2	99	24	29	13	32	1.93
51504615--51504730	41	2.8	41	82	10	130	21	27	15	35	1.94
51520944--51521050	54	2.0	54	98	0	205	28	14	10	45	1.78
51523198--51523432	50	4.6	50	79	5	197	22	26	22	27	1.99
51530318--51530508	50	3.7	50	81	4	211	23	27	20	27	1.99
51530318--51530504	100	1.8	103	82	6	245	23	28	20	27	1.99
51533406--51533447	21	2.0	20	82	13	50	45	14	7	33	1.72
51537810--51537871	30	2.1	30	84	6	81	46	11	9	32	1.72
51556653--51556689	18	2.1	18	90	5	58	29	16	21	32	1.95
51561628--51561680	22	2.4	22	87	0	70	33	11	18	35	1.87
51562769--51562803	7	5.0	7	92	0	52	51	14	20	14	1.76
51563542--51563588	24	1.9	24	86	4	67	34	2	38	25	1.68
51564037--51564192	27	5.8	27	80	1	161	46	20	12	20	1.82
51564037--51564192	53	2.9	54	80	9	167	46	20	12	20	1.82
51564560--51564676	28	4.2	28	88	1	173	22	19	24	33	1.97
51569713--51569805	25	3.7	25	79	0	87	32	20	22	24	1.98
51573330--51573354	5	5.0	5	100	0	50	60	0	40	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51578268--51578295	12	2.3	12	100	0	56	28	42	21	7	1.79
51579526--51579617	25	3.7	25	80	2	87	23	17	22	35	1.95
51594760--51594804	13	3.6	13	76	11	58	53	8	8	28	1.62
51594757--51594805	24	2.0	24	100	0	98	53	8	8	30	1.60
51595466--51595511	21	2.3	20	78	14	51	45	17	6	30	1.73
51607786--51607962	51	3.5	48	78	9	167	30	33	3	32	1.76
51607822--51607965	51	2.8	51	88	0	198	31	31	4	31	1.79
51611597--51611653	30	1.9	30	85	0	78	19	26	35	19	1.95
51618402--51618426	13	1.9	13	100	0	50	32	4	24	40	1.73
51639028--51639083	20	2.8	20	83	8	69	10	30	21	37	1.87
51642502--51642537	18	2.1	18	89	5	56	36	16	5	41	1.72
51649405--51649448	23	1.9	23	90	0	70	61	4	2	31	1.28
51649409--51649451	11	3.8	11	80	17	52	65	2	2	30	1.18
51667831--51667874	22	1.9	24	81	9	56	27	15	13	43	1.85
51667822--51667972	69	2.2	69	98	0	293	34	17	15	32	1.91
51673896--51673972	26	3.0	25	83	5	91	40	10	18	31	1.84
51675147--51675190	13	3.5	13	81	3	54	59	0	0	40	0.98
51676463--51676506	5	9.0	5	87	2	63	36	2	20	40	1.65
51676914--51676959	16	2.9	16	100	0	92	32	0	13	54	1.39
51676904--51676945	10	4.6	10	77	22	56	30	0	14	54	1.40
51695379--51695426	16	3.1	16	84	3	62	35	22	4	37	1.74
51695386--51695428	15	2.8	15	85	3	59	30	25	4	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51708135--51708327	51	3.8	51	81	2	192	33	26	15	25	1.95
51708132--51708325	102	1.9	102	85	4	266	32	26	14	25	1.95
51711909--51711955	25	1.9	25	86	4	69	14	23	21	40	1.90
51712139--51712187	25	2.0	25	95	0	89	22	26	20	30	1.98
51716606--51716655	22	2.3	22	83	10	59	18	8	6	68	1.36
51722634--51722690	6	9.3	6	83	9	71	78	1	19	0	0.83
51723954--51724089	44	3.1	44	69	8	141	26	19	27	27	1.99
51723953--51724124	88	2.0	88	95	0	308	26	19	26	27	1.99
51723970--51724114	45	3.3	45	71	3	150	26	17	28	27	1.97
51724154--51724693	267	2.0	267	87	1	778	28	19	25	26	1.99
51724707--51725169	44	10.6	44	68	13	217	30	20	21	27	1.98
51724925--51725161	130	1.8	129	80	6	282	29	22	19	27	1.98
51724879--51725200	174	1.9	174	81	7	395	28	20	22	28	1.98
51726763--51726823	28	2.2	28	85	8	81	40	0	3	55	1.16
51727251--51727317	10	7.3	10	71	25	51	17	0	2	79	0.86
51727269--51727326	14	4.1	15	75	20	63	18	0	5	75	0.98
51727256--51727317	26	2.4	26	100	0	124	17	0	3	79	0.87
51727716--51727752	19	1.9	19	88	0	56	64	2	2	29	1.21
51732022--51732088	30	2.2	31	81	7	75	16	16	10	56	1.66
51735545--51735614	29	2.5	26	80	14	86	30	24	22	22	1.99
51735563--51735631	29	2.4	29	92	2	113	33	26	21	18	1.97
51735563--51735641	29	2.7	29	79	11	90	31	26	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51742245--51742538	50	5.9	50	85	0	338	21	28	21	28	1.99
51753455--51753565	57	1.9	58	83	5	145	29	22	18	29	1.97
51753738--51753988	53	4.7	52	78	5	234	27	24	12	35	1.92
51753743--51753988	106	2.3	106	84	4	309	28	23	13	34	1.92
51759945--51760051	25	4.3	25	76	9	94	32	19	25	22	1.97
51761671--51761724	24	2.2	24	83	6	65	37	37	7	18	1.79
51766644--51766674	3	10.3	3	92	0	53	67	0	32	0	0.91
51771199--51771369	29	5.9	28	80	4	162	25	24	12	37	1.90
51771210--51771369	87	1.8	87	89	0	248	25	26	10	37	1.88
51775097--51775347	30	8.4	30	80	4	186	38	12	23	25	1.90

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