genome.fa.s9.2.7.7.80.10.50.1000.140.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  140  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)
46721594--46721677	24	3.6	25	75	16	81	52	1	0	46	1.08
46730546--46730585	3	13.3	3	84	10	55	67	0	0	32	0.91
46730548--46730599	12	4.1	12	81	16	52	69	1	0	28	0.99
46731103--46731152	21	2.4	21	96	0	91	38	12	10	40	1.76
46731439--46732355	132	7.0	132	92	1	1457	25	24	19	30	1.98
46731467--46732309	44	19.2	44	64	9	189	25	24	19	30	1.98
46740018--46740057	3	13.3	3	84	10	55	67	0	0	32	0.91
46740020--46740071	12	4.1	12	81	16	52	69	1	0	28	0.99
46740340--46740443	55	1.9	55	84	5	142	14	22	4	58	1.55
46740575--46740624	21	2.4	21	96	0	91	38	12	10	40	1.76
46747196--46747257	26	2.5	26	87	7	94	46	4	11	37	1.61
46749327--46749378	26	2.0	26	100	0	104	42	7	11	38	1.70
46751491--46751542	26	2.0	26	100	0	104	42	7	11	38	1.70
46753596--46753649	26	2.1	26	100	0	108	25	11	16	46	1.80
46755657--46755718	26	2.5	26	87	7	94	46	4	11	37	1.61
46757779--46757840	26	2.5	26	87	7	94	46	4	11	37	1.61
46759911--46759961	26	2.0	26	96	0	93	45	5	11	37	1.65
46770570--46770621	26	2.0	26	96	0	95	44	7	9	38	1.66
46771280--46771343	22	2.9	22	97	0	119	25	25	14	35	1.93
46776874--46776925	26	2.0	26	100	0	104	42	7	11	38	1.70
46778996--46779047	26	2.0	26	100	0	104	42	7	11	38	1.70
46781117--46781168	26	2.0	26	100	0	104	42	7	11	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46789689--46789740	26	2.0	26	96	0	95	44	7	11	36	1.70
46796000--46796051	26	2.0	26	100	0	104	42	7	11	38	1.70
46800215--46800264	26	1.9	26	100	0	100	44	6	14	36	1.69
46802336--46802385	26	1.9	26	100	0	100	44	6	14	36	1.69
46804455--46804504	26	1.9	26	100	0	100	44	6	14	36	1.69
46806571--46806622	26	2.0	26	100	0	104	42	7	11	38	1.70
46808775--46808826	26	2.0	26	100	0	104	42	7	11	38	1.70
46810906--46810957	26	2.0	26	100	0	104	42	7	11	38	1.70
46815146--46815197	26	2.0	26	100	0	104	42	7	11	38	1.70
46817217--46817268	26	2.0	26	96	0	95	40	9	11	38	1.74
46837800--46838060	145	1.8	145	91	3	436	36	17	9	36	1.83
46843532--46843583	26	2.0	26	100	0	104	42	7	11	38	1.70
46845653--46845703	26	2.0	26	100	0	102	43	5	11	39	1.66
46849720--46849771	26	2.0	26	92	0	86	42	7	11	38	1.70
46850430--46851724	645	2.0	641	94	0	2277	32	18	14	34	1.92
46852407--46852468	26	2.6	23	85	14	65	48	6	8	37	1.59
46852418--46852469	26	2.0	26	100	0	104	46	7	7	38	1.61
46854511--46854562	26	2.0	26	96	0	95	42	7	13	36	1.73
46854868--46854928	26	2.3	26	97	0	113	45	8	8	37	1.64
46862819--46862870	26	2.0	26	92	0	86	40	9	13	36	1.77
46868213--46868264	26	2.0	26	96	0	95	42	9	9	38	1.70
46872389--46872472	24	3.3	24	77	14	71	53	3	3	39	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46872444--46872485	18	2.4	18	80	4	50	54	2	9	33	1.46
46874045--46874383	89	3.9	87	73	13	279	27	23	20	28	1.99
46873913--46874468	217	2.6	217	93	0	914	28	23	19	28	1.98
46873913--46874383	44	10.9	44	73	16	281	27	23	19	29	1.98
46886233--46886271	15	2.6	15	80	15	53	58	7	7	25	1.52
46888744--46888795	26	2.0	26	100	0	104	42	7	11	38	1.70
46889924--46889985	29	2.1	29	100	0	124	22	22	6	48	1.73
46890879--46890932	26	2.1	26	100	0	108	40	7	11	40	1.69
46893220--46893260	3	13.7	3	89	0	64	68	4	0	26	1.10
46894683--46894718	15	2.5	14	86	8	54	44	8	0	47	1.33
46899678--46899731	24	2.2	24	96	0	99	27	14	31	25	1.95
46899769--46899834	26	2.5	26	85	7	89	37	24	22	15	1.92
46905624--46905662	5	7.8	5	94	0	69	2	15	0	82	0.79
46912823--46912848	2	13.0	2	100	0	52	50	0	0	50	1.00
46929252--46929405	80	1.9	79	90	1	245	38	14	7	38	1.76
46932318--46932343	6	4.3	6	100	0	52	50	0	0	50	1.00
46939374--46939402	13	2.2	13	100	0	58	44	6	24	24	1.77
46939861--46939962	19	5.2	19	70	16	64	57	8	17	15	1.63
46939866--46939956	40	2.3	40	79	5	105	60	8	14	16	1.58
46940181--46940254	22	3.5	22	76	10	64	63	4	13	18	1.45
46940201--46940257	21	2.7	22	76	17	66	61	5	17	15	1.52
46940201--46940268	21	3.2	20	75	10	57	58	7	17	16	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46946139--46946168	15	2.0	15	93	0	51	83	0	16	0	0.65
46951283--46951341	23	2.4	25	78	16	70	42	0	15	42	1.46
46951461--46951555	41	2.4	38	80	11	111	26	17	21	34	1.95
46951475--46951577	41	2.6	41	90	3	156	26	15	20	37	1.92
46952303--46952330	13	2.2	13	100	0	56	25	0	21	53	1.46
46963482--46963583	45	2.3	45	85	0	141	43	16	16	23	1.88
46964825--46964856	5	6.4	5	100	0	64	59	0	0	40	0.97
46970615--46970668	19	2.7	21	77	11	60	46	14	0	38	1.45
46970628--46970891	136	1.9	136	86	3	370	40	9	5	44	1.60
46971207--46971245	2	19.5	2	100	0	78	48	0	0	51	1.00
46971272--46971300	3	9.7	3	100	0	58	65	0	0	34	0.93
46972612--46972636	1	25.0	1	100	0	50	0	0	0	100	0.00
46977816--46977853	17	2.2	18	85	4	51	28	7	15	47	1.74
46978518--46978591	22	3.4	22	84	0	85	39	18	4	37	1.70
46978560--46978609	22	2.3	22	82	0	55	42	22	4	32	1.72
46978518--46978609	44	2.1	44	85	0	121	39	20	5	34	1.76
46982546--46982624	25	3.2	25	83	7	81	27	16	24	31	1.96
46982578--46982636	25	2.4	25	85	0	82	37	13	20	28	1.91
46996207--46996259	16	3.3	16	70	19	56	13	20	9	56	1.64
46996207--46996277	32	2.2	32	97	0	133	15	21	11	52	1.74
46996240--46996329	41	2.2	41	91	0	144	20	20	8	51	1.73
46997292--46997348	6	9.5	6	90	0	87	17	31	0	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46997283--46997344	12	5.2	12	88	3	81	17	27	0	54	1.43
46997292--46997348	18	3.2	18	89	0	96	17	31	0	50	1.46
47001363--47001538	39	4.5	39	77	2	149	22	23	15	38	1.92
47002979--47003060	40	2.0	40	100	0	164	40	7	8	43	1.63
47002979--47003038	20	3.0	20	68	18	61	40	6	6	46	1.56
47002994--47003058	20	3.2	20	71	16	71	40	9	7	43	1.65
47004146--47004201	28	2.0	28	100	0	112	35	17	7	39	1.78
47009011--47009056	17	2.7	18	86	10	69	50	0	4	45	1.21
47009238--47009276	19	2.0	20	85	5	53	43	0	5	51	1.24
47009481--47009533	23	2.3	23	78	18	56	28	1	0	69	0.99
47009503--47009538	19	1.9	18	88	5	54	30	2	0	66	1.06
47010938--47011251	156	2.0	156	96	0	574	37	17	23	21	1.93
47011482--47011624	65	2.2	64	86	4	198	38	9	2	49	1.49
47014033--47014069	12	3.1	12	100	0	74	43	16	0	40	1.48
47016224--47016270	24	1.9	25	87	12	71	51	2	0	46	1.13
47017467--47017526	26	2.3	26	94	0	102	50	6	15	28	1.69
47017911--47018000	38	2.4	38	77	16	91	47	1	4	46	1.29
47018488--47018528	19	2.1	20	86	4	57	56	2	9	31	1.45
47020129--47020352	114	2.0	114	90	0	349	33	8	18	39	1.81
47022414--47022457	22	2.0	22	100	0	88	50	18	0	31	1.47
47022674--47022814	20	7.0	20	71	12	92	39	21	27	12	1.89
47026569--47026608	21	1.9	21	94	0	71	40	5	17	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47029981--47030065	40	2.0	43	88	6	131	50	9	0	40	1.35
47030703--47030759	22	2.5	22	77	13	62	68	1	26	3	1.15
47030704--47030753	18	2.6	18	81	9	55	70	2	26	2	1.09
47030714--47030755	21	2.0	22	90	4	68	69	2	28	0	1.01
47030703--47030760	24	2.6	22	76	17	57	67	1	27	3	1.17
47033725--47033791	27	2.4	27	90	2	107	55	8	0	35	1.32
47035779--47035822	16	2.8	15	83	10	61	59	2	2	36	1.23
47036096--47036234	27	5.8	25	75	16	118	53	12	2	31	1.50
47036096--47036234	49	3.0	49	87	6	191	53	12	2	31	1.50
47036172--47036234	21	2.9	22	95	4	119	57	14	0	28	1.38

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