genome.fa.s11.2.7.7.80.10.50.1000.158.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  158  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)
47799706--47799743	20	1.9	20	84	10	51	73	0	5	21	1.02
47806519--47806604	23	3.5	23	68	20	75	32	19	4	43	1.72
47806522--47806628	51	2.1	51	96	0	196	36	18	5	39	1.75
47806745--47806843	51	1.9	51	89	0	153	35	32	8	24	1.85
47813417--47813465	19	2.5	19	76	3	53	44	8	32	14	1.74
47815047--47815092	16	2.8	16	84	15	67	71	0	2	26	0.97
47821340--47821386	24	2.0	24	84	16	62	59	4	27	8	1.45
47831823--47831866	20	2.2	20	83	0	52	27	27	13	31	1.94
47832598--47832640	5	8.4	5	97	2	77	18	2	0	79	0.85
47837255--47837309	27	2.0	27	85	0	74	38	18	23	20	1.93
47837447--47837530	27	3.1	27	83	5	107	23	11	22	41	1.87
47849192--47849234	22	2.0	22	86	9	61	30	9	2	58	1.42
47851136--47851184	24	2.1	24	92	3	82	34	26	24	14	1.94
47853802--47853853	15	3.5	15	76	10	61	13	13	44	28	1.82
47856941--47857123	29	6.3	29	83	0	213	23	28	12	36	1.90
47856939--47857118	87	2.1	87	91	0	288	23	28	11	36	1.90
47858988--47859217	43	5.3	43	87	0	325	30	30	18	20	1.96
47859418--47859477	18	3.4	18	64	13	52	40	10	6	43	1.64
47862049--47862115	21	3.1	21	78	6	64	35	44	1	17	1.58
47862342--47862374	14	2.3	15	94	5	59	36	27	0	36	1.57
47863477--47863759	41	6.9	41	90	0	440	27	27	22	21	1.99
47872209--47872236	12	2.3	12	100	0	56	35	14	10	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47872243--47872359	13	9.1	13	72	15	73	23	13	9	53	1.68
47872297--47872360	23	2.7	22	79	11	65	20	14	10	54	1.69
47874257--47874469	115	1.9	113	90	5	340	31	12	22	33	1.91
47878024--47878069	24	1.9	24	86	8	67	69	2	2	26	1.11
47885973--47886008	18	1.9	18	88	5	54	61	2	0	36	1.11
47891347--47891372	2	13.0	2	100	0	52	50	0	0	50	1.00
47895809--47895850	7	6.0	7	81	8	50	45	14	0	40	1.45
47902860--47902988	22	5.9	22	89	0	186	32	14	25	27	1.95
47926793--47926831	19	2.1	19	85	4	53	51	2	0	46	1.14
47934641--47934688	6	8.0	6	88	0	69	64	0	18	16	1.29
47934642--47934688	18	2.6	18	89	0	76	65	0	17	17	1.27
47934834--47934908	26	2.9	26	78	9	82	42	12	13	32	1.80
47936466--47936518	27	2.0	27	88	0	79	32	13	7	47	1.70
47936537--47936569	17	1.9	18	88	11	52	42	3	12	42	1.57
47938813--47938934	57	2.1	57	81	4	147	45	5	22	27	1.75
47952036--47952076	19	2.1	20	86	4	57	31	9	2	56	1.45
47952545--47952600	25	2.3	25	82	14	73	30	5	0	64	1.16
47952545--47952599	26	2.1	27	86	10	78	29	5	0	65	1.15
47952554--47952607	26	2.1	25	86	3	72	35	3	0	61	1.14
47953617--47953660	18	2.4	18	100	0	88	43	11	27	18	1.84
47961866--47962024	52	3.2	52	92	5	258	25	8	22	43	1.82
47961918--47962262	116	2.9	116	94	2	600	26	9	21	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47961824--47962140	168	1.9	162	92	3	535	26	11	19	42	1.84
47962150--47962267	52	2.3	52	100	0	236	27	6	22	43	1.78
47962464--47962490	2	13.5	2	100	0	54	48	0	0	51	1.00
47965162--47965369	91	2.3	91	88	2	301	45	3	3	46	1.39
47965660--47965769	45	2.6	44	84	8	140	32	29	4	33	1.78
47965748--47965785	16	2.4	16	90	0	58	34	34	0	31	1.58
47965899--47965950	24	2.2	24	92	0	86	51	7	1	38	1.42
47968500--47968541	22	2.0	22	90	9	70	30	7	0	61	1.22
47974838--47974893	9	6.3	9	80	19	73	80	8	0	10	0.91
47974838--47974893	16	3.2	17	81	16	69	80	8	0	10	0.91
47974837--47974893	19	3.1	18	79	18	64	80	8	0	10	0.90
47974835--47974893	18	3.3	19	84	15	81	77	10	0	11	0.98
47974838--47974886	25	1.9	25	87	4	71	81	8	0	10	0.87
47975768--47975799	8	4.1	8	92	8	57	75	0	12	12	1.06
47975768--47975808	15	2.8	15	92	3	66	70	0	14	14	1.16
47976999--47977137	45	3.1	45	74	10	149	31	21	23	23	1.98
47977147--47978340	50	23.8	50	81	3	1371	32	22	19	26	1.97
47977147--47978478	50	26.6	50	77	5	1276	32	22	19	25	1.98
47978786--47979243	132	3.5	132	92	1	724	30	19	24	25	1.98
47980940--47981001	22	2.9	22	90	4	92	32	8	0	59	1.26
47982234--47982263	6	5.0	6	100	0	60	16	0	33	50	1.46
47985962--47986069	34	3.2	32	75	8	117	40	0	16	42	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47986140--47986404	126	2.1	126	86	4	365	36	14	17	30	1.90
47998223--47998263	2	20.5	2	100	0	82	0	48	0	51	1.00
48004811--48004869	17	3.5	17	83	4	84	62	0	0	37	0.95
48004832--48004885	24	2.2	24	83	9	65	64	0	1	33	1.04
48004824--48004850	8	3.4	8	100	0	54	77	0	0	22	0.76
48004840--48004898	26	2.3	26	85	5	77	62	0	1	35	1.05
48004840--48004898	24	2.4	24	83	8	75	62	0	1	35	1.05
48004793--48004905	33	3.3	35	75	20	114	61	0	1	36	1.06
48005167--48005205	20	1.9	21	89	5	62	48	5	0	46	1.24
48005231--48005314	23	3.6	23	67	19	57	47	1	2	48	1.22
48010675--48010821	41	3.6	41	88	1	206	31	19	25	23	1.97
48010798--48010849	26	2.0	26	84	0	68	21	17	30	30	1.96
48010865--48010973	41	2.6	43	73	7	116	23	14	24	36	1.93
48013869--48013985	41	2.8	42	80	7	114	37	24	17	20	1.93
48013869--48014011	42	3.4	42	78	4	146	37	23	17	22	1.94
48013993--48014042	26	1.9	26	88	8	75	28	32	18	22	1.97
48014019--48014166	41	3.6	40	83	5	199	22	23	19	33	1.97
48013952--48014078	67	1.9	68	84	11	172	30	24	18	26	1.98
48028163--48028238	9	8.4	9	81	5	91	38	22	11	27	1.89
48028163--48028238	18	4.2	18	86	0	107	38	22	11	27	1.89
48028341--48028384	18	2.4	18	88	0	61	13	2	43	40	1.57
48030049--48030100	26	2.0	26	100	0	104	23	15	15	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48031227--48031260	14	2.5	14	95	4	61	14	0	35	50	1.44
48032757--48032874	57	2.1	58	85	1	157	45	5	19	29	1.71
48041136--48041179	20	2.2	20	88	11	65	70	4	4	20	1.23
48042735--48042882	39	3.8	39	75	3	138	37	19	15	27	1.92
48045574--48045624	16	3.2	16	94	0	84	35	5	35	23	1.79
48045856--48045892	17	2.1	18	90	10	58	54	0	0	45	1.00
48045976--48046012	16	2.2	17	86	13	51	54	0	2	43	1.14
48045834--48046468	120	5.3	120	95	1	1087	48	4	2	44	1.35
48046098--48046132	18	2.0	17	88	5	52	54	0	0	45	0.99
48046216--48046252	16	2.2	17	86	13	51	54	0	2	43	1.14
48046573--48046662	45	2.0	44	87	6	128	31	5	28	34	1.80
48046807--48046848	15	2.7	16	82	14	52	52	2	0	45	1.13
48046816--48046857	15	2.9	15	82	10	52	52	0	0	47	1.00
48060843--48060880	16	2.4	16	91	4	60	10	0	36	52	1.36
48060865--48060956	34	2.6	34	85	8	114	28	1	26	44	1.61
48060982--48061088	34	3.1	34	75	10	110	40	0	14	44	1.46
48060980--48061104	34	3.7	33	72	8	99	38	0	14	47	1.44
48061183--48061561	126	3.0	126	85	5	498	36	15	19	28	1.93
48064622--48064669	25	1.9	25	83	8	62	58	4	0	37	1.18
48064618--48064673	25	2.3	23	77	16	60	53	3	0	42	1.18
48065088--48065124	18	2.1	18	89	0	56	43	8	24	24	1.81
48066592--48066643	25	2.1	24	82	10	61	67	1	1	28	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48070364--48070407	19	2.4	18	81	7	52	40	15	9	34	1.79
48072371--48072515	68	2.1	68	82	2	166	37	12	20	29	1.89
48081114--48081172	14	4.0	15	80	8	59	13	1	5	79	0.97
48081100--48081175	14	5.1	14	75	15	55	17	2	3	76	1.06
48093035--48093165	67	2.0	67	95	0	235	27	32	19	21	1.97
48096338--48096380	22	2.0	21	82	8	52	53	4	34	6	1.49
48107720--48107795	10	7.5	11	72	19	51	40	2	1	55	1.22
48107720--48107793	38	2.0	37	84	7	96	40	2	1	55	1.22
48110736--48110773	14	2.7	14	95	0	67	26	55	5	13	1.59
48114458--48114540	18	4.6	18	76	5	78	46	24	14	14	1.81

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