genome.fa.s11.2.7.7.80.10.50.1000.32.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  32  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)
10357218--10357256	6	6.3	6	82	5	51	56	15	10	17	1.66
10357218--10357249	12	2.7	12	100	0	64	56	15	9	18	1.66
10365983--10366017	17	2.1	17	100	0	70	34	28	0	37	1.58
10374930--10375102	84	2.1	84	98	0	337	29	10	15	44	1.80
10387457--10387666	102	2.1	102	94	0	366	40	7	14	37	1.74
10388268--10388326	31	1.9	31	100	0	118	30	13	20	35	1.91
10408561--10408599	20	2.0	20	89	0	60	66	0	33	0	0.92
10410577--10410612	5	7.2	5	87	12	56	80	0	2	16	0.83
10410970--10411066	28	3.8	28	72	22	88	52	1	6	40	1.33
10411251--10411347	40	2.4	41	84	6	126	35	10	16	38	1.83
10411250--10411321	19	3.7	19	89	7	108	34	12	15	37	1.85
10411520--10411551	4	8.0	4	92	0	55	25	3	0	71	1.00
10417009--10418027	88	11.6	88	92	0	1552	25	23	26	24	2.00
10417956--10418297	133	2.6	132	82	3	305	29	16	25	28	1.97
10417998--10418340	44	7.8	44	83	4	363	30	15	24	29	1.96
10417998--10418340	177	1.9	175	91	2	553	30	15	24	29	1.96
10418053--10418382	131	2.5	133	85	4	447	30	15	24	29	1.96
10418001--10418382	177	2.2	176	87	3	529	30	15	24	29	1.96
10418714--10418791	21	3.7	21	76	17	81	35	8	16	38	1.80
10422013--10422048	2	18.5	2	94	5	65	50	0	0	50	1.00
10422864--10422906	17	2.5	17	85	11	52	53	11	2	32	1.50
10427110--10427142	13	2.6	13	90	4	50	51	3	0	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10428265--10428298	17	2.0	17	94	0	59	55	0	0	44	0.99
10429318--10429342	7	3.6	7	100	0	50	0	28	12	60	1.32
10429340--10429379	20	2.0	21	85	5	55	10	7	5	77	1.11
10429375--10429419	23	2.0	23	86	8	65	11	6	8	73	1.25
10429400--10429424	12	2.1	12	100	0	50	16	0	8	76	1.02
10429419--10429478	31	1.9	31	83	6	77	35	0	3	61	1.12
10429450--10429496	22	2.1	23	88	4	69	38	0	0	61	0.96
10429473--10429507	13	2.6	13	90	4	52	37	0	0	62	0.95
10429473--10429511	14	2.9	13	81	7	51	35	0	0	64	0.94
10429445--10429532	35	2.5	35	81	5	106	40	0	0	59	0.98
10429623--10429661	16	2.4	16	95	0	69	38	2	0	58	1.12
10436028--10436085	26	2.6	20	70	27	53	62	6	15	15	1.53
10437563--10437609	20	2.3	20	81	3	58	53	12	23	10	1.70
10438112--10438157	24	1.9	24	81	0	56	39	28	17	15	1.90
10439626--10439656	12	2.5	13	94	5	55	83	0	9	6	0.79
10440142--10440191	9	6.5	8	82	17	54	78	0	10	12	0.98
10440152--10440200	21	2.3	21	86	13	66	75	0	10	14	1.04
10440151--10440198	14	3.4	14	80	11	53	77	0	10	12	1.00
10441711--10442227	167	3.1	167	83	1	669	27	19	26	25	1.99
10442171--10442366	100	2.0	100	81	2	232	29	21	21	27	1.99
10442375--10442539	85	2.0	84	86	1	231	29	20	20	30	1.97
10442376--10442569	85	2.3	84	81	5	221	28	19	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10443812--10443871	3	20.3	3	80	16	72	31	1	0	66	1.01
10443888--10443935	25	2.0	24	87	4	69	35	6	6	52	1.52
10443932--10443965	11	2.8	12	91	8	52	32	0	0	67	0.91
10443974--10444012	18	2.2	17	86	4	51	35	7	0	56	1.28
10444200--10444228	13	2.1	14	93	6	51	41	6	0	51	1.28
10446184--10446217	16	2.1	17	88	5	52	44	2	0	52	1.16
10452272--10452394	44	2.7	43	82	9	131	60	3	28	7	1.39
10452312--10452404	26	4.0	25	66	22	67	64	1	27	6	1.25
10456424--10456463	21	2.0	21	85	5	55	60	7	2	30	1.38
10457955--10458019	29	2.2	28	81	10	69	29	4	3	63	1.30
10459845--10459894	7	6.4	8	84	11	52	68	2	8	22	1.26
10461472--10461580	44	2.5	44	83	3	130	32	19	18	30	1.95
10464481--10464561	24	3.4	23	72	11	65	34	22	27	16	1.95
10464493--10464561	24	2.9	24	75	10	70	39	20	24	15	1.92
10467480--10467520	21	2.0	21	86	9	59	41	4	9	43	1.59
10474180--10474237	29	2.0	30	93	3	100	34	12	10	43	1.76
10482946--10483055	19	5.8	19	87	0	166	35	10	15	38	1.83
10483171--10483211	18	2.3	19	79	12	50	56	0	36	7	1.27
10484125--10484319	98	2.0	98	95	0	354	27	10	25	36	1.89
10489154--10489699	132	4.1	132	97	0	988	29	21	25	23	1.99
10489228--10489718	44	11.2	44	66	12	193	28	21	25	24	1.99
10489230--10490274	132	7.9	132	90	3	868	28	19	24	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10489253--10490095	264	3.2	262	85	5	974	29	19	24	26	1.99
10489649--10490111	44	10.5	45	65	7	162	28	18	23	29	1.98
10489154--10490274	396	2.8	393	82	6	1186	29	19	24	26	1.98
10489649--10490274	264	2.4	264	92	1	1019	28	17	23	29	1.97
10490274--10490560	44	6.6	44	76	10	218	27	21	23	27	1.99
10490745--10490854	19	5.8	19	87	0	166	35	10	15	38	1.83
10490975--10491013	21	1.9	20	89	5	60	58	0	38	2	1.12
10491920--10492111	98	2.0	98	94	0	339	27	10	23	37	1.89
10494783--10494808	11	2.4	11	100	0	52	53	0	7	38	1.30
10494774--10494867	43	2.3	42	85	7	129	64	0	2	32	1.05
10494768--10494839	30	2.3	30	81	9	74	59	0	2	37	1.12
10494809--10494851	12	3.5	12	78	6	50	65	0	0	34	0.93
10497397--10497500	31	3.1	31	74	24	102	60	0	2	36	1.12
10497397--10497488	11	8.9	11	71	18	65	59	0	2	38	1.09
10497397--10497580	40	4.5	40	87	8	255	61	0	2	35	1.10
10499908--10499932	12	2.1	12	100	0	50	68	0	8	24	1.16
10502551--10502581	10	2.9	11	90	9	55	45	19	6	29	1.75
10509612--10509688	9	8.4	9	81	8	84	24	9	25	40	1.85
10509848--10509872	12	2.1	12	100	0	50	16	24	36	24	1.94
10511537--10511575	20	1.9	21	84	5	53	35	7	2	53	1.43
10512377--10512450	29	2.5	30	78	14	82	43	14	14	27	1.85
10516993--10517710	108	6.6	107	90	4	1068	33	19	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10516993--10517710	217	3.3	215	91	3	1104	33	19	16	30	1.94
10516971--10517710	325	2.3	323	90	3	1139	33	18	17	30	1.94
10520461--10521060	44	13.8	44	71	12	355	28	22	19	30	1.98
10520505--10520797	85	3.4	85	76	8	302	27	22	19	29	1.98
10520371--10520671	129	2.3	129	91	0	476	27	22	19	29	1.98
10520682--10520972	129	2.3	129	92	0	474	28	22	18	30	1.97
10520408--10520971	304	1.9	304	94	0	993	28	22	18	30	1.97
10521113--10521363	87	2.9	87	86	1	324	26	22	22	28	1.99
10522032--10522087	28	2.0	28	100	0	112	25	32	7	35	1.83
10522029--10522081	15	3.7	15	71	28	53	24	28	7	39	1.82
10522632--10522678	21	2.2	21	88	0	67	25	38	10	25	1.88
10523637--10523677	6	7.0	6	84	15	59	0	19	0	80	0.71
10523644--10523677	17	2.1	16	94	5	59	0	20	0	79	0.73
10537108--10537176	28	2.5	27	82	15	79	44	2	0	52	1.16
10537622--10537652	2	15.5	2	100	0	62	51	0	0	48	1.00
10539141--10539216	30	2.5	31	81	10	86	60	3	1	34	1.23
10539121--10539216	31	3.2	30	74	14	92	59	3	2	35	1.25
10542874--10542919	19	2.3	21	78	14	53	32	0	2	65	1.05
10552828--10552866	20	2.0	20	85	10	53	46	0	2	51	1.14
10552822--10552924	44	2.3	46	79	12	126	53	0	2	42	1.22
10552871--10552921	26	1.9	27	84	11	70	52	1	1	43	1.23
10552848--10552935	24	3.9	23	75	14	94	52	1	2	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10558003--10558050	24	2.0	24	91	0	78	16	37	2	43	1.60
10558954--10559012	15	3.7	16	73	8	57	16	0	30	52	1.44
10566528--10566605	39	2.0	39	94	0	138	23	17	15	43	1.87
10568799--10568857	6	9.0	6	87	10	64	74	0	0	25	0.82
10568800--10568859	7	8.7	7	87	10	88	75	0	0	25	0.81
10568800--10568860	27	2.2	28	88	5	90	75	0	0	24	0.80
10574264--10574355	22	4.0	23	77	12	75	36	18	27	17	1.93
10574258--10574367	25	4.6	25	78	11	99	37	18	26	18	1.93
10575356--10575402	23	2.0	23	91	0	76	42	10	4	42	1.59
10589136--10589165	11	2.6	11	94	5	51	60	0	3	36	1.14

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