genome.fa.s9.2.7.7.80.10.50.1000.205.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  205  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)
64793783--64793845	28	2.2	28	86	5	83	33	12	26	26	1.93
64799218--64799271	24	2.2	24	83	3	63	62	3	3	29	1.29
64807715--64807744	8	3.6	8	91	8	51	0	13	0	86	0.57
64815334--64815528	50	3.9	50	74	6	153	24	17	23	34	1.96
64815328--64815531	100	2.0	100	85	1	275	23	17	23	35	1.95
64815650--64815773	44	2.8	45	80	7	130	28	21	20	29	1.98
64815694--64816122	175	2.5	175	90	0	671	27	19	19	33	1.96
64815549--64815948	219	1.8	219	94	1	712	28	20	18	33	1.96
64815567--64816249	219	3.1	216	77	6	502	27	20	18	33	1.96
64816044--64816273	44	5.2	44	75	6	203	26	20	19	33	1.96
64815694--64816273	88	6.6	88	72	5	388	27	19	19	33	1.96
64816242--64816517	129	2.1	129	89	1	419	24	22	21	31	1.98
64816351--64816714	173	2.1	173	96	0	674	24	24	20	30	1.98
64818953--64818986	6	5.7	6	89	0	50	8	0	14	76	1.01
64818953--64818987	12	2.8	12	95	4	61	8	0	14	77	0.99
64818951--64818990	18	2.3	17	87	8	62	7	0	12	80	0.91
64834153--64834192	2	20.0	2	89	0	62	45	0	2	52	1.14
64844951--64845002	24	2.2	24	82	6	61	65	3	1	28	1.21
64846206--64846231	7	3.7	7	100	0	52	30	0	26	42	1.56
64847794--64847880	29	3.0	30	79	5	106	32	6	14	45	1.72
64852411--64852444	15	2.3	15	100	0	68	20	20	20	38	1.94
64853542--64853579	10	3.8	10	85	0	58	0	7	2	89	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64853544--64853579	18	1.9	19	94	5	65	0	8	2	88	0.59
64853542--64853579	20	1.9	20	94	0	67	0	7	2	89	0.57
64854605--64854651	10	4.6	10	82	12	60	72	0	6	21	1.07
64854614--64854661	22	2.1	23	88	3	71	72	0	4	22	1.01
64854619--64854654	17	2.1	17	89	0	54	72	0	5	22	1.05
64859204--64859349	34	4.3	34	81	1	159	32	13	13	41	1.83
64859456--64859651	45	4.4	44	73	7	153	25	18	21	34	1.96
64860729--64860795	31	2.2	31	78	10	75	37	16	5	40	1.73
64866995--64867209	96	2.2	96	80	2	225	40	3	17	39	1.66
64867253--64867539	126	2.3	126	88	1	432	33	19	19	27	1.96
64870918--64870958	21	2.0	21	85	0	55	2	24	41	31	1.68
64873091--64873155	11	5.9	11	78	12	71	44	0	30	24	1.54
64873088--64873158	22	3.2	22	86	5	99	47	0	29	22	1.51
64873091--64873155	33	2.0	33	88	11	98	44	0	30	24	1.54
64889518--64889566	25	2.0	25	87	0	71	34	18	10	36	1.85
64890165--64890245	40	2.0	42	82	4	103	23	20	28	27	1.99
64890348--64890658	97	3.2	95	87	3	444	42	2	17	37	1.63
64890707--64890747	19	2.2	19	86	8	57	51	2	2	43	1.28
64896739--64896777	17	2.3	17	90	0	60	23	23	28	25	1.99
64902616--64902660	20	2.2	20	92	0	72	37	2	8	51	1.46
64904856--64905003	58	2.6	54	78	12	138	41	2	2	54	1.26
64904883--64905017	58	2.3	57	84	5	173	43	2	2	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64905184--64905235	16	3.2	16	75	5	52	30	23	3	42	1.72
64906538--64906598	28	2.2	28	93	0	104	22	32	21	22	1.98
64906611--64906714	34	3.1	34	84	1	138	27	17	25	28	1.97
64907936--64907982	21	2.2	21	92	0	76	44	4	12	38	1.62
64912048--64912106	30	2.0	30	93	0	100	30	20	13	35	1.91
64912302--64912453	69	2.2	69	84	0	196	28	25	17	28	1.97
64923685--64923730	9	5.1	9	86	0	56	34	10	39	15	1.82
64927528--64927750	111	2.0	110	94	0	392	31	13	4	51	1.59
64929980--64930021	18	2.3	18	91	0	66	21	33	21	23	1.97
64931596--64931686	45	2.0	45	100	0	182	32	13	17	36	1.88
64935129--64935153	5	5.0	5	100	0	50	80	0	0	20	0.72
64936245--64936282	20	1.9	20	94	0	67	21	28	10	39	1.86
64939121--64939184	32	2.0	32	87	0	92	20	15	20	43	1.87
64942107--64942142	4	8.8	4	87	6	54	72	0	2	25	0.98
64942464--64942532	29	2.4	29	88	4	97	59	2	5	31	1.36
64943689--64943723	18	1.9	18	88	0	52	20	22	28	28	1.98
64944419--64944482	32	2.0	32	87	0	92	31	23	18	26	1.98
64944451--64945272	89	9.3	88	76	5	737	30	24	15	29	1.96
64944451--64945270	44	18.5	44	74	6	645	30	24	15	29	1.96
64944449--64945271	133	6.2	133	89	1	1276	30	24	16	29	1.96
64944359--64945271	398	2.3	397	88	4	1333	29	24	15	29	1.96
64957346--64957374	14	2.1	14	100	0	58	44	0	13	41	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64957406--64957452	2	23.5	2	100	0	94	48	0	0	51	1.00
64957545--64957580	17	2.1	17	100	0	72	55	0	22	22	1.44
64957670--64957702	3	11.0	3	100	0	66	66	0	0	33	0.92
64958153--64958195	23	1.9	22	90	4	68	41	13	4	39	1.66
64958153--64958250	19	4.8	19	82	9	97	39	15	8	36	1.77
64958187--64958249	21	3.1	21	86	9	103	39	14	9	36	1.78
64965824--64965866	22	2.0	22	86	8	63	18	27	4	48	1.68
64970430--64970538	35	3.0	35	71	19	105	42	1	7	48	1.41
64970746--64970834	44	2.0	44	86	4	124	39	29	3	28	1.73
64970735--64970852	46	2.7	43	77	13	102	38	28	4	27	1.75
64971534--64971597	16	4.1	16	89	2	85	35	3	35	25	1.72
64971811--64971852	15	2.7	16	82	14	52	52	2	0	45	1.13
64971820--64971861	15	2.9	15	82	10	52	52	0	0	47	1.00
64971814--64972181	120	3.1	120	93	3	607	51	4	1	42	1.32
64971930--64971981	15	3.6	15	80	12	56	53	1	0	44	1.11
64972071--64972117	18	2.6	18	90	6	69	57	0	0	42	0.98
64972179--64972217	20	2.0	20	84	0	51	43	2	12	41	1.56
64972491--64972526	12	3.1	12	92	4	56	30	2	0	66	1.06
64982186--64982242	12	4.8	12	82	0	60	26	47	12	14	1.79
64982188--64982287	24	4.2	24	74	7	69	29	46	11	14	1.78
64990173--64990207	16	2.1	17	89	5	54	45	0	11	42	1.40
64990196--64990230	18	1.9	18	94	0	61	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64998068--64998204	69	2.0	69	85	0	184	34	23	24	18	1.96
64999356--65000186	434	1.9	434	99	0	1635	38	20	7	33	1.80
65001087--65001204	42	2.8	42	82	6	114	30	27	19	22	1.98
65006644--65006701	18	2.8	20	80	15	57	43	1	1	53	1.21
65022353--65022403	25	2.0	25	92	0	84	39	9	0	50	1.35
65024561--65024621	30	2.0	30	100	0	122	59	9	0	31	1.30
65032567--65032605	20	2.0	19	85	5	51	48	5	5	41	1.47
65035458--65035507	20	2.5	19	81	12	55	52	2	0	46	1.12
65035471--65035514	20	2.2	20	84	4	54	50	4	2	43	1.35
65038915--65039100	43	4.3	43	91	0	293	32	32	16	17	1.93
65039946--65040056	19	5.8	19	86	0	168	38	9	13	37	1.78
65039953--65040056	38	2.7	38	96	0	190	39	9	12	38	1.76
65039959--65040082	19	6.2	21	81	4	93	39	8	13	38	1.75
65042922--65042967	24	1.9	24	86	0	65	45	17	26	10	1.81
65045207--65045242	8	4.5	8	86	13	56	88	11	0	0	0.50
65045206--65045242	9	4.4	9	86	13	53	89	10	0	0	0.49
65045204--65045242	16	2.6	16	92	8	64	89	10	0	0	0.48
65046924--65047686	132	5.8	132	91	0	1188	29	18	22	29	1.98
65048009--65048126	57	2.1	55	90	3	182	41	6	13	38	1.71
65048016--65048142	19	6.5	19	83	6	155	41	6	11	40	1.67
65048016--65048108	38	2.4	38	98	0	177	40	7	11	39	1.70
65056332--65056384	21	2.8	18	85	8	61	54	18	13	13	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65056530--65056736	14	14.4	14	69	13	73	46	30	1	20	1.61
65056625--65056678	7	7.6	7	81	4	63	50	31	0	18	1.48
65056917--65057279	41	8.9	41	87	1	451	29	30	18	21	1.97
65056917--65057279	163	2.2	164	84	1	460	29	30	18	21	1.97
65069549--65069586	20	2.0	19	90	10	60	50	10	7	31	1.66
65071942--65072131	29	6.7	29	75	8	142	21	16	11	51	1.76
65073085--65073174	37	2.4	36	81	7	101	28	6	20	44	1.76
65074166--65074227	20	3.1	20	83	0	70	50	8	6	35	1.58
65081232--65081271	18	2.0	21	86	13	59	62	0	2	35	1.09
65084352--65084536	101	1.8	102	88	5	286	24	16	27	31	1.97

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