genome.fa.s11.2.7.7.80.10.50.1000.159.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  159  of  210  ( 25152 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)
48117821--48117876	29	1.9	29	89	7	87	41	14	8	35	1.77
48117901--48117937	19	1.9	19	88	0	56	35	18	8	37	1.81
48125362--48125394	13	2.3	15	90	10	52	12	0	9	78	0.95
48128099--48128158	30	2.0	30	100	0	120	20	3	13	63	1.43
48135381--48135417	9	4.0	10	86	13	53	48	8	10	32	1.67
48142993--48143030	19	2.0	19	94	0	67	36	18	10	34	1.85
48144318--48144342	6	4.2	6	100	0	50	16	16	68	0	1.22
48145006--48145071	32	2.1	32	97	0	123	42	12	10	34	1.77
48147965--48148004	18	2.2	18	86	8	55	45	0	0	55	0.99
48151743--48151783	21	2.0	21	85	9	57	26	7	14	51	1.69
48152168--48152280	38	3.1	36	87	6	163	8	22	11	57	1.61
48154190--48154277	28	3.2	27	71	18	83	44	2	0	53	1.13
48154343--48154391	14	3.3	15	81	16	50	44	0	4	51	1.20
48154277--48154510	120	1.9	121	94	2	418	42	2	6	48	1.42
48154630--48154742	45	2.6	46	80	15	136	32	27	4	35	1.77
48154722--48154770	16	3.1	16	87	0	71	24	34	4	36	1.75
48156269--48156335	27	2.5	27	97	0	125	31	23	32	11	1.91
48156405--48156448	21	2.1	21	95	0	79	29	0	11	59	1.32
48156538--48156581	16	2.8	16	78	0	52	56	4	2	36	1.32
48156614--48156695	38	2.2	38	97	0	155	39	2	3	54	1.31
48156728--48156849	60	2.0	60	85	6	167	53	13	0	31	1.46
48156837--48156976	21	6.2	21	73	20	113	53	15	0	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48156864--48156967	8	12.4	8	66	20	52	50	15	0	33	1.51
48156911--48157050	19	7.1	19	73	19	108	54	12	0	33	1.38
48156890--48156967	27	3.1	27	89	10	114	52	12	0	34	1.40
48156911--48157049	61	2.3	63	78	12	157	54	12	0	33	1.37
48157046--48157112	27	2.5	27	97	0	125	11	32	23	31	1.91
48158966--48159024	28	2.1	28	80	0	64	54	3	6	35	1.44
48159310--48159335	10	2.6	10	100	0	52	53	7	0	38	1.30
48159428--48159457	13	2.3	13	94	0	51	56	6	13	23	1.60
48162018--48162042	11	2.3	11	100	0	50	28	0	16	56	1.41
48163132--48163163	2	16.0	2	100	0	64	0	50	0	50	1.00
48166317--48166398	42	2.0	42	90	4	130	39	17	12	31	1.86
48167857--48167882	12	2.2	12	100	0	52	69	15	0	15	1.20
48168086--48168150	33	2.0	33	84	6	87	61	29	4	4	1.36
48168119--48168156	12	3.2	12	77	7	51	71	23	2	2	1.12
48168118--48168181	23	2.7	24	82	4	85	62	31	3	3	1.26
48169077--48169139	30	2.1	31	87	3	92	33	0	49	17	1.47
48174226--48174750	50	10.5	50	73	3	383	23	19	22	33	1.97
48174274--48174782	101	5.1	100	80	6	537	23	20	23	32	1.98
48174274--48174783	200	2.5	200	88	2	738	23	20	23	32	1.97
48174768--48175483	131	5.5	131	91	0	1137	26	23	21	28	1.99
48175423--48175507	44	1.9	44	85	4	118	27	25	21	25	1.99
48175440--48175963	44	12.0	43	80	4	503	21	25	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48175486--48175965	88	5.5	88	90	1	577	21	25	20	32	1.98
48177257--48177301	23	2.0	23	86	8	65	15	8	0	75	1.03
48192556--48192755	63	3.2	63	79	7	192	27	28	19	25	1.98
48202040--48202064	12	2.1	12	100	0	50	24	52	8	16	1.70
48204299--48204362	29	2.1	31	83	13	80	45	9	3	42	1.52
48204223--48204423	62	3.2	59	74	17	181	50	5	3	40	1.42
48208867--48208896	12	2.6	11	90	10	51	40	3	10	46	1.54
48213712--48213807	30	3.2	30	95	0	165	19	31	36	12	1.89
48214332--48214467	40	3.4	40	77	10	125	36	16	28	18	1.93
48220199--48220238	18	2.2	18	86	13	55	62	5	12	20	1.48
48221130--48221295	40	4.2	39	76	5	145	33	16	27	22	1.95
48221130--48221295	80	2.1	80	83	0	206	33	16	27	22	1.95
48223484--48223516	2	16.5	2	100	0	66	51	0	0	48	1.00
48226187--48226236	21	2.3	23	83	13	61	70	2	0	28	0.99
48234541--48234598	30	1.9	30	100	0	116	24	22	13	39	1.90
48242875--48242914	16	2.4	17	91	4	64	0	12	2	85	0.71
48243903--48243966	25	2.6	25	78	9	60	50	3	3	43	1.33
48251042--48251073	17	1.9	17	93	6	57	34	0	0	65	0.93
48255418--48255666	50	4.8	50	86	3	318	20	29	22	26	1.99
48255417--48255666	100	2.4	104	89	5	373	21	29	22	26	1.99
48255761--48255792	13	2.5	13	94	0	55	56	12	0	31	1.37
48264584--48264615	17	1.9	17	93	6	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48267168--48267210	15	2.6	16	85	10	52	53	13	4	27	1.60
48268409--48268453	13	3.4	14	85	11	60	2	24	0	73	0.95
48268423--48268474	21	2.5	20	78	9	59	3	23	1	71	1.13
48273429--48273462	11	3.2	11	87	4	52	26	20	11	41	1.87
48277160--48277191	15	2.1	15	94	0	55	40	6	9	43	1.62
48278831--48278912	25	3.3	25	81	10	89	39	17	13	30	1.88
48282487--48282531	17	2.6	18	80	13	51	66	2	6	24	1.27
48284559--48284961	44	8.6	45	67	14	179	26	24	20	28	1.99
48284514--48284962	143	3.2	143	88	1	634	26	24	19	29	1.99
48289496--48289554	29	2.0	29	93	0	100	20	22	8	49	1.75
48291809--48291861	24	2.2	25	82	3	63	11	18	24	45	1.82
48294106--48294158	3	17.7	3	80	7	63	66	3	3	26	1.26
48296935--48296985	18	2.8	19	79	8	61	45	1	13	39	1.55
48297383--48297493	42	2.7	42	84	1	143	42	19	22	15	1.89
48297411--48297474	21	3.0	21	65	0	56	48	20	18	12	1.80
48301557--48301582	10	2.6	10	100	0	52	11	34	11	42	1.77
48305154--48305189	5	6.8	5	93	6	54	25	0	0	75	0.81
48321992--48322452	138	3.3	138	84	1	550	32	22	16	28	1.96
48329284--48329431	73	2.0	73	92	0	242	41	16	10	31	1.83
48329300--48329450	73	2.1	72	85	5	196	43	13	11	31	1.80
48342400--48342476	38	2.0	38	94	0	136	32	41	0	25	1.56
48342850--48342976	20	6.3	20	81	0	155	35	20	33	11	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48342850--48342976	60	2.1	60	89	0	191	35	20	33	11	1.88
48346627--48346821	50	3.9	50	78	2	169	22	28	21	27	1.99
48351026--48351070	21	2.1	22	91	4	74	26	17	22	33	1.96
48351700--48351816	28	4.1	28	82	3	119	50	5	19	23	1.70
48352959--48353000	21	2.0	21	95	0	75	45	0	7	47	1.30
48353337--48353376	17	2.3	18	87	8	57	47	12	5	35	1.63
48353872--48353944	29	2.7	27	72	16	69	28	5	0	65	1.14
48353955--48354013	20	2.9	20	82	9	75	30	1	3	64	1.20
48353930--48354040	22	5.2	21	73	15	77	30	3	1	63	1.21
48354117--48354208	30	3.1	30	81	4	80	27	9	22	40	1.85
48354162--48354236	29	2.6	29	89	2	107	26	8	18	46	1.77
48355837--48355974	41	3.5	39	77	2	141	39	18	20	21	1.93
48356013--48356231	41	5.3	41	87	7	282	21	21	28	28	1.99
48356359--48356386	14	2.0	14	100	0	56	0	42	0	57	0.99
48360093--48360254	43	3.8	43	84	4	193	25	18	26	29	1.98
48360912--48360947	16	2.2	16	95	0	63	25	2	36	36	1.70
48360933--48361018	44	1.9	44	83	6	111	27	5	31	34	1.81
48361183--48361217	18	2.0	17	88	5	52	54	0	0	45	0.99
48361143--48361369	55	4.3	52	65	17	128	46	3	3	46	1.35
48361070--48361386	157	2.0	157	96	0	589	44	3	5	47	1.41
48361320--48361361	15	2.7	16	82	14	52	52	2	0	45	1.13
48361329--48361370	15	2.9	15	82	10	52	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48361123--48361444	157	2.1	155	82	6	375	46	4	3	45	1.40
48361323--48361730	120	3.4	120	92	6	681	50	5	2	42	1.39
48361433--48361615	39	4.7	38	66	22	94	51	4	1	41	1.33
48361771--48361818	26	1.9	25	84	16	64	52	2	0	45	1.12
48361761--48361954	92	2.1	92	86	7	270	46	4	4	44	1.41
48366884--48366979	23	4.2	23	89	5	142	46	25	8	19	1.77
48366945--48366991	22	2.1	22	84	7	60	59	19	4	17	1.53
48367720--48367754	17	2.1	17	94	5	63	68	8	11	11	1.39
48374748--48374850	53	1.9	53	81	11	122	31	8	2	57	1.44
48378362--48378419	9	6.7	9	79	13	50	82	10	0	6	0.83

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   207   208   
          209   210