genome.fa.s2.2.7.7.80.10.50.1000.132.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   200   201   202   203   204   205   206   

This is table  132  of  206  ( 24623 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)
40041424--40041604	87	2.1	87	84	1	227	23	27	13	35	1.92
40041393--40041582	58	3.3	58	74	10	163	23	27	13	35	1.92
40045698--40045819	23	5.3	23	84	0	163	32	24	18	23	1.97
40045698--40045819	46	2.7	46	93	0	199	32	24	18	23	1.97
40050192--40050216	12	2.1	12	100	0	50	8	32	36	24	1.84
40056151--40056221	36	2.0	36	83	5	90	22	21	14	42	1.88
40063786--40063834	26	2.0	24	84	8	62	36	4	18	40	1.70
40066544--40066572	12	2.3	13	94	5	51	20	6	6	65	1.40
40071570--40071639	34	2.1	34	91	0	113	35	18	15	30	1.92
40072661--40072757	42	2.3	42	74	0	104	23	18	31	25	1.97
40074882--40074910	14	2.1	14	93	6	51	13	6	0	79	0.93
40082318--40082479	41	4.0	41	89	3	236	25	24	20	29	1.99
40082318--40082479	82	2.0	82	92	0	270	25	24	20	29	1.99
40083222--40083274	12	4.2	12	77	13	52	43	7	3	45	1.50
40086087--40086163	22	3.5	22	94	0	136	28	24	19	27	1.99
40094803--40094844	22	1.9	22	85	9	59	38	7	0	54	1.28
40094894--40094960	25	2.6	26	81	9	84	25	4	2	67	1.24
40100541--40100580	21	1.9	21	94	0	71	27	30	22	20	1.98
40101122--40101680	143	3.9	143	87	1	764	29	20	22	27	1.99
40103256--40103319	22	2.9	22	82	13	62	35	6	0	57	1.24
40103349--40103425	26	3.0	25	80	3	73	24	3	6	64	1.34
40104593--40104637	19	2.4	19	84	0	54	26	11	6	55	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40104886--40104918	16	1.9	18	88	11	52	57	0	0	42	0.98
40104886--40104918	9	3.9	9	88	11	52	57	0	0	42	0.98
40104948--40104974	13	2.1	13	100	0	54	62	0	0	37	0.95
40114690--40114874	101	1.8	102	87	3	275	24	18	27	29	1.98
40114690--40114874	51	3.7	50	82	6	196	24	18	27	29	1.98
40114690--40114882	102	1.9	101	86	3	271	24	19	27	28	1.98
40121627--40121667	20	1.9	23	85	14	61	48	14	12	24	1.78
40123744--40123904	82	2.0	82	97	0	304	27	6	16	49	1.69
40135196--40135233	19	2.0	19	94	0	67	39	5	5	50	1.48
40138309--40138581	110	2.5	110	81	2	289	35	14	23	26	1.94
40142513--40142735	114	2.0	114	96	0	410	37	11	18	32	1.87
40144890--40144929	17	2.4	17	83	8	55	37	0	0	62	0.95
40150662--40150736	37	2.0	37	100	0	150	34	10	12	42	1.77
40166206--40166241	16	2.2	17	90	5	56	75	2	0	22	0.94
40167545--40167594	20	2.5	20	78	12	59	46	6	6	42	1.53
40167656--40167720	19	3.4	19	75	12	53	38	6	15	40	1.72
40168475--40168508	18	1.9	18	88	5	52	73	0	14	11	1.10
40170686--40170802	50	2.3	50	86	0	153	26	23	29	20	1.99
40171078--40171116	20	2.0	20	89	0	60	53	2	25	17	1.56
40174589--40174627	5	7.6	5	82	5	51	41	0	17	41	1.50
40175065--40175175	25	4.5	25	73	18	99	18	23	26	32	1.97
40175072--40175210	73	1.9	73	80	11	160	19	23	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40180901--40181050	79	1.9	79	92	0	255	34	10	19	35	1.86
40185838--40185899	27	2.3	27	97	0	115	40	32	6	20	1.78
40188178--40188202	12	2.1	12	100	0	50	48	8	0	44	1.32
40189729--40189903	78	2.2	79	85	2	235	33	26	20	19	1.96
40189729--40189905	40	4.5	40	82	2	214	33	26	20	19	1.97
40198002--40198050	25	2.0	25	87	0	71	36	12	18	32	1.88
40200727--40200783	27	2.1	27	90	0	87	36	21	12	29	1.90
40205027--40205117	43	2.1	43	86	6	123	36	9	9	43	1.71
40205370--40205634	43	6.2	43	82	1	273	25	18	28	27	1.98
40205428--40205632	85	2.4	86	84	0	268	28	18	25	26	1.98
40205972--40206012	21	2.0	22	85	9	59	29	14	0	56	1.39
40224138--40224206	16	4.3	16	96	0	129	39	5	34	20	1.76
40224186--40224282	44	2.2	44	88	5	142	30	5	29	34	1.79
40226075--40226141	33	2.0	33	100	0	134	50	25	2	20	1.62
40227250--40227283	14	2.3	15	95	5	61	58	2	26	11	1.47
40227260--40227304	19	2.2	22	88	11	69	64	0	26	8	1.23
40232301--40232423	50	2.5	50	90	0	201	21	17	30	30	1.96
40232518--40232649	66	2.0	66	92	0	219	40	4	28	25	1.75
40234577--40234645	35	2.0	35	88	0	102	47	0	26	26	1.52
40234962--40235003	16	2.6	16	79	20	52	11	19	0	69	1.19
40234964--40235012	16	3.0	17	74	17	50	10	16	0	73	1.09
40236155--40236189	14	2.5	14	95	0	61	34	11	20	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40236728--40236776	19	2.6	19	80	0	53	30	6	10	53	1.59
40237824--40237860	18	2.1	18	89	0	56	18	18	21	40	1.91
40240582--40240606	2	12.5	2	100	0	50	48	0	0	52	1.00
40242307--40242336	6	5.0	6	95	0	51	46	3	16	33	1.64
40243670--40243707	17	2.1	19	85	9	53	71	5	0	23	1.07
40244613--40244672	31	1.9	31	93	0	102	26	3	30	40	1.72
40248120--40248182	30	2.1	30	93	0	108	31	6	25	36	1.81
40265184--40265213	12	2.4	13	94	5	53	66	6	6	20	1.38
40288517--40288567	20	2.5	20	83	0	75	37	7	0	54	1.29
40288515--40288675	54	3.1	52	72	15	118	34	8	3	53	1.50
40288458--40288675	108	2.0	106	86	4	303	34	7	4	53	1.50
40288988--40289019	16	2.0	16	93	0	55	59	0	6	34	1.23
40289918--40290101	96	1.9	96	92	0	305	33	17	14	35	1.90
40298766--40298792	12	2.2	12	100	0	54	7	7	7	77	1.12
40304316--40304361	8	5.1	9	84	10	51	23	2	0	73	0.94
40306109--40306165	6	9.5	6	84	0	78	15	0	5	78	0.91
40314698--40314751	25	2.2	24	80	9	65	20	27	18	33	1.96
40315015--40315059	24	1.9	23	86	13	65	42	4	20	33	1.72
40317001--40317228	50	4.6	50	81	2	244	20	30	21	27	1.98
40317194--40317262	34	2.0	34	97	0	129	17	36	21	24	1.95
40317140--40317307	84	2.0	84	95	0	300	19	36	19	24	1.95
40317228--40317325	50	2.0	50	93	0	169	20	31	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40322197--40322230	17	1.9	18	88	5	52	32	5	0	61	1.20
40337114--40337174	32	1.9	32	93	3	106	27	3	8	60	1.41
40337290--40337320	11	2.8	11	90	0	53	67	0	0	32	0.91
40342150--40342298	24	6.5	23	70	18	87	62	2	0	34	1.14
40342155--40342309	28	5.5	28	67	14	102	61	2	0	34	1.14
40342164--40342256	41	2.3	40	82	8	118	63	2	0	34	1.07
40344806--40344873	16	4.3	16	73	16	52	48	0	5	45	1.26
40344850--40344884	17	2.1	17	89	5	54	51	0	0	48	1.00
40348345--40348378	11	3.0	11	86	4	50	55	8	0	35	1.31
40348670--40348716	20	2.4	19	86	10	60	51	0	10	38	1.37
40357752--40358120	103	3.6	103	94	1	605	29	29	20	20	1.97
40358449--40358512	30	2.2	29	81	10	76	29	28	6	35	1.82
40358456--40358512	30	1.9	30	85	3	80	29	24	7	38	1.82
40366946--40367100	73	2.1	73	90	4	242	45	9	11	33	1.73
40367088--40367275	87	2.1	88	84	3	236	47	9	6	36	1.62
40369558--40369643	38	2.2	38	76	10	93	65	1	1	32	1.08
40369553--40369614	26	2.3	26	88	2	88	61	1	0	37	1.06
40376239--40376278	20	2.0	20	100	0	80	50	5	20	25	1.68
40377028--40377344	152	2.1	152	92	1	528	42	15	8	33	1.78
40385199--40385251	26	2.3	23	79	20	65	75	3	3	16	1.10
40391110--40391154	23	2.0	23	91	8	74	40	17	8	33	1.81
40394226--40394513	50	5.6	50	83	3	326	24	21	30	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40396528--40396662	25	5.6	25	77	10	115	39	20	23	17	1.92
40397732--40397772	5	7.8	5	84	10	55	60	0	0	39	0.96
40397732--40397773	16	2.6	16	92	0	75	61	0	0	38	0.96
40397738--40397767	8	3.8	8	90	0	51	60	0	0	40	0.97
40398426--40398476	23	2.2	23	92	0	84	41	21	9	27	1.84
40400398--40400438	21	1.9	22	90	5	66	41	0	12	46	1.41
40409406--40409489	41	2.0	41	100	0	168	30	16	11	40	1.85
40418549--40418660	25	4.5	25	85	0	161	22	23	24	30	1.99
40426000--40426128	54	2.4	54	82	0	150	26	27	13	32	1.94
40427396--40427434	20	2.0	20	90	10	62	15	23	5	56	1.59

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   200   201   202   203   204   205   206