genome.fa.s9.2.7.7.80.10.50.1000.107.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  107  of  226  ( 27023 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)
36776800--36776877	28	2.8	28	84	7	104	32	11	1	55	1.44
36779576--36779602	8	3.4	8	100	0	54	25	14	37	22	1.93
36781207--36781256	12	4.1	12	76	5	55	46	6	16	32	1.71
36781323--36781360	18	2.1	18	85	9	51	60	7	15	15	1.57
36782689--36782749	22	3.1	20	84	13	74	73	0	8	18	1.07
36787392--36787429	18	2.1	18	85	9	51	60	7	15	15	1.57
36789998--36790125	30	4.3	30	84	4	143	34	25	4	35	1.77
36795559--36795593	2	17.5	2	100	0	70	48	0	0	51	1.00
36795748--36795840	42	2.2	42	86	1	125	29	20	21	29	1.98
36802238--36802605	76	5.0	75	72	8	220	29	19	22	27	1.98
36802225--36802483	71	3.6	70	71	11	207	30	21	22	25	1.99
36802241--36802559	147	2.2	147	80	0	370	29	20	22	27	1.98
36804569--36804747	3	59.7	3	95	0	322	65	0	34	0	0.93
36819855--36819916	26	2.4	26	94	2	108	46	16	4	32	1.68
36823635--36823686	21	2.8	17	74	20	50	21	11	3	63	1.43
36823700--36823724	13	1.9	13	100	0	50	16	4	0	80	0.87
36825887--36825924	20	1.9	20	94	0	67	57	0	0	42	0.98
36825895--36825936	18	2.2	20	83	8	52	61	2	2	33	1.21
36826412--36826452	19	2.2	18	91	4	64	34	2	0	63	1.08
36826419--36826463	19	2.4	19	85	7	56	40	2	0	57	1.11
36826498--36826546	18	2.9	17	77	19	50	32	2	0	65	1.04
36827756--36827821	20	3.4	19	83	8	71	34	0	10	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36827756--36827821	19	3.3	20	79	12	75	34	0	10	54	1.35
36828936--36828986	11	4.6	11	87	4	68	21	33	1	43	1.64
36828990--36829031	11	3.8	11	87	0	66	19	19	7	54	1.66
36830183--36830207	7	3.6	7	100	0	50	28	0	12	60	1.32
36831275--36831361	44	2.0	45	88	6	133	36	0	13	49	1.43
36831329--36831396	25	2.7	25	93	0	109	44	1	11	42	1.50
36831386--36831878	23	19.8	23	73	18	249	45	26	0	28	1.58
36831624--36831683	21	2.9	21	90	5	86	48	21	0	30	1.51
36831412--36831810	29	15.3	29	76	18	311	44	26	0	27	1.59
36835036--36835389	126	2.8	126	92	0	591	31	22	16	29	1.96
36836392--36836434	22	2.0	21	82	13	52	48	4	2	44	1.36
36837027--36837062	18	2.0	18	88	0	54	19	2	8	69	1.27
36837684--36837727	17	2.4	18	77	7	54	27	0	2	70	0.99
36839626--36839673	3	16.0	3	95	0	87	31	2	0	66	1.03
36861024--36861350	29	11.2	29	82	3	352	21	25	14	39	1.90
36861022--36861375	87	4.1	87	87	0	474	22	24	13	39	1.90
36863124--36863179	19	2.9	19	79	20	64	75	3	12	8	1.17
36864825--36864861	15	2.3	17	90	9	60	56	5	5	32	1.45
36871236--36871313	38	2.0	39	90	2	122	46	10	11	32	1.74
36875833--36875877	19	2.2	21	84	7	58	37	0	8	53	1.32
36880856--36880961	41	2.6	41	93	0	176	34	16	17	31	1.92
36884539--36884578	18	2.2	18	90	0	62	25	2	7	65	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36884598--36884635	16	2.4	16	90	0	58	31	0	34	34	1.58
36884849--36884889	15	2.6	16	81	14	50	53	2	0	43	1.13
36884847--36885057	107	2.0	108	95	0	379	49	6	1	42	1.36
36884952--36884997	16	2.9	16	78	12	51	52	2	0	45	1.13
36884952--36885006	15	3.7	15	79	13	53	52	1	0	45	1.11
36884850--36885113	107	2.5	107	86	6	335	50	5	1	42	1.34
36884952--36885130	61	3.0	60	68	12	152	51	3	1	42	1.30
36888104--36888165	21	3.0	20	70	23	56	58	3	33	4	1.36
36888410--36888464	22	2.6	22	86	8	71	49	0	0	50	1.00
36900057--36900101	18	2.6	17	83	13	56	40	8	17	33	1.81
36908197--36908257	25	2.4	25	78	10	63	37	3	1	57	1.25
36920928--36920957	2	15.0	2	100	0	60	50	0	0	50	1.00
36929679--36929730	8	6.1	8	79	18	52	57	3	0	38	1.17
36929677--36929718	19	2.2	19	87	8	59	52	2	0	45	1.13
36929680--36929749	27	2.6	27	77	11	72	58	4	1	35	1.26
36929847--36929875	6	4.8	6	100	0	58	34	0	13	51	1.42
36929989--36930045	20	3.0	20	84	7	73	22	1	5	70	1.17
36932634--36932681	25	2.0	24	84	12	62	27	2	14	56	1.50
36933750--36933801	24	2.2	24	89	0	77	50	9	3	36	1.54
36938174--36938225	24	2.2	24	89	0	77	50	9	3	36	1.54
36941024--36941048	12	2.1	12	100	0	50	44	0	8	48	1.32
36941917--36942029	41	2.8	41	91	0	181	28	21	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36946848--36946983	43	3.2	43	87	4	159	32	30	16	21	1.95
36946848--36947042	43	4.6	41	77	8	153	32	27	15	24	1.96
36950137--36950202	21	3.0	22	80	8	73	24	3	48	24	1.65
36950211--36950502	123	2.6	108	74	16	309	34	11	13	40	1.81
36950247--36950480	123	1.9	124	93	0	407	33	12	13	40	1.82
36951435--36951477	14	3.0	14	79	3	50	32	48	0	18	1.48
36951430--36951480	21	2.4	21	86	0	66	33	43	0	23	1.54
36951451--36951632	96	1.9	96	90	0	292	42	28	1	27	1.65
36951441--36951652	96	2.2	95	85	4	291	42	30	1	25	1.64
36951729--36951762	15	2.3	15	85	5	52	35	29	0	35	1.58
36952182--36952324	41	3.5	42	77	6	141	29	27	20	22	1.99
36971563--36971640	42	1.9	40	82	7	95	21	30	26	20	1.98
36973297--36973347	25	2.0	25	88	7	77	62	3	3	29	1.31
36977541--36977602	20	3.3	19	73	17	58	32	4	1	61	1.27
36977551--36977617	17	3.8	17	71	13	55	28	5	1	64	1.26
36981515--36981586	20	3.7	19	83	9	83	54	6	1	37	1.36
36981565--36981617	24	2.2	25	86	3	72	50	3	0	45	1.19
36981568--36981618	26	1.9	27	84	11	70	50	3	0	45	1.20
36981548--36981640	44	2.2	44	83	11	122	51	3	1	44	1.24
36982792--36982887	43	2.2	43	85	3	122	32	13	22	31	1.93
36984870--36984969	42	2.4	42	87	0	146	24	28	11	37	1.89
36988603--36988701	30	3.3	30	82	2	128	29	10	34	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36988616--36988702	29	3.0	29	89	1	129	27	10	35	26	1.89
36990772--36990812	2	20.5	2	100	0	82	51	0	48	0	1.00
36993220--36993252	17	2.0	17	88	5	50	48	0	0	51	1.00
36999584--36999656	29	2.5	29	95	0	128	45	13	9	31	1.76
37005049--37005108	10	5.9	10	84	9	68	10	3	3	83	0.88
37005047--37005120	20	3.5	21	83	9	89	13	5	2	78	1.03
37006302--37006374	29	2.5	29	95	0	128	45	13	9	31	1.76
37006761--37006786	13	2.0	13	100	0	52	46	23	15	15	1.83
37009313--37009342	16	1.9	15	93	6	51	36	3	26	33	1.73
37010148--37010181	6	5.8	6	96	3	61	70	11	0	17	1.16
37010194--37010238	23	2.0	24	86	8	67	53	4	0	42	1.21
37015344--37015378	17	2.0	18	94	5	63	45	5	14	34	1.68
37016601--37017071	237	2.0	239	94	0	820	30	24	8	36	1.86
37019008--37019057	25	2.0	25	96	0	91	40	16	10	34	1.81
37019609--37019747	25	5.7	24	73	7	93	35	22	24	17	1.96
37019658--37019748	24	3.8	24	78	7	103	37	24	25	13	1.91
37019658--37019760	24	4.2	24	75	10	102	36	23	25	14	1.93
37019670--37019788	48	2.4	49	80	8	136	36	21	24	17	1.95
37027386--37027475	25	3.7	24	72	8	74	38	18	24	17	1.92
37027426--37027515	24	3.7	24	68	12	76	42	22	22	13	1.88
37028848--37028910	25	2.6	25	80	16	78	20	25	15	38	1.92
37031680--37031865	93	2.0	93	98	0	363	39	18	11	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37034312--37034358	25	1.9	25	87	12	71	65	8	12	12	1.46
37035282--37035322	19	2.2	19	90	0	64	65	12	0	21	1.25
37035541--37035619	30	2.6	28	78	9	77	27	24	26	21	1.99
37035729--37035831	26	4.0	26	84	5	109	35	25	20	18	1.95
37035769--37035838	26	2.7	26	90	0	113	32	25	22	18	1.97
37036031--37036417	27	14.4	27	82	5	417	22	15	18	43	1.87
37038921--37039185	90	3.0	90	78	10	267	34	20	15	29	1.94
37040857--37040983	63	2.0	63	96	0	236	34	13	20	31	1.91
37042886--37042929	18	2.5	18	82	10	56	63	9	0	27	1.24
37047786--37047885	50	2.0	50	84	0	128	40	1	12	47	1.47

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226