genome.fa.s9.2.7.7.80.10.50.1000.182.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  182  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)
58286238--58286375	25	5.7	25	74	14	128	42	13	2	42	1.55
58286777--58286811	18	1.9	18	94	0	61	34	8	31	25	1.86
58287449--58287473	7	3.6	7	100	0	50	60	12	0	28	1.32
58288665--58288765	11	8.6	11	68	23	64	45	0	30	23	1.53
58288700--58288755	22	2.5	22	88	2	85	42	0	30	26	1.56
58288716--58288765	10	4.6	11	77	22	61	46	0	34	20	1.51
58288616--58288733	51	2.3	51	87	7	168	47	0	22	29	1.52
58288977--58289040	29	2.2	28	81	10	76	50	12	14	23	1.76
58289536--58289577	19	2.2	19	86	0	57	2	26	21	50	1.61
58289554--58289682	25	5.2	25	92	0	213	2	24	26	47	1.64
58289539--58289654	50	2.5	44	78	15	133	2	23	25	49	1.63
58289654--58289692	19	2.1	19	95	0	69	0	25	23	51	1.49
58291628--58291678	26	2.0	26	84	0	66	43	17	3	35	1.68
58294841--58294901	26	2.4	24	81	13	68	37	4	1	55	1.31
58294839--58294901	25	2.4	27	82	10	69	36	4	1	57	1.30
58297965--58298015	24	2.3	21	87	12	68	29	17	11	41	1.85
58297972--58298020	24	2.0	24	100	0	98	26	16	16	40	1.89
58298224--58298326	42	2.4	41	80	7	116	29	22	20	28	1.98
58298245--58298497	43	5.9	43	83	3	276	28	27	18	25	1.98
58298245--58298497	130	2.0	128	85	3	346	28	27	18	25	1.98
58300016--58300058	13	3.3	13	80	0	50	37	2	4	55	1.33
58303093--58303131	7	5.6	7	84	0	51	30	48	0	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58303278--58303339	7	8.9	7	83	0	79	32	51	0	16	1.44
58303489--58303521	14	2.3	15	94	5	59	36	33	0	30	1.58
58303926--58304075	41	3.7	41	94	0	248	28	29	20	22	1.98
58304114--58304267	40	3.8	40	84	2	175	22	22	19	35	1.96
58306918--58306944	13	2.1	13	100	0	54	37	7	14	40	1.74
58308241--58308302	28	2.2	27	78	16	63	40	1	4	53	1.32
58314155--58314194	14	2.8	14	88	11	55	80	0	5	15	0.88
58314154--58314195	21	2.0	21	86	9	59	78	0	4	16	0.91
58315443--58315719	129	2.1	129	93	0	473	30	21	23	24	1.99
58315710--58316074	44	8.5	44	74	6	266	27	16	24	31	1.96
58315704--58316067	85	4.2	85	73	7	286	28	16	23	31	1.96
58315688--58316080	129	3.0	128	91	2	608	28	17	23	30	1.97
58316123--58316305	50	3.7	50	79	1	215	34	24	17	23	1.96
58316120--58316332	50	4.3	50	76	2	205	36	22	17	23	1.95
58316114--58316367	100	2.5	100	85	3	334	35	22	18	23	1.96
58317940--58318001	28	2.2	27	78	16	63	40	1	4	53	1.32
58323291--58323369	27	2.9	28	83	5	99	25	24	15	35	1.94
58324043--58324139	49	2.0	49	89	0	149	24	26	7	41	1.81
58324958--58325003	3	16.3	3	86	8	53	30	2	0	67	1.03
58328068--58328129	26	2.5	25	82	17	76	54	0	3	41	1.16
58329362--58329507	56	2.6	57	80	6	165	38	15	20	26	1.92
58333324--58333354	3	10.3	3	100	0	62	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58333650--58333694	19	2.3	20	84	7	65	62	6	0	31	1.21
58333689--58333715	13	2.1	13	100	0	54	62	0	0	37	0.95
58334048--58334121	21	3.7	20	77	12	62	22	4	4	68	1.23
58334028--58334109	19	4.2	19	74	11	69	24	3	3	68	1.22
58334028--58334121	40	2.4	38	81	10	109	23	4	3	69	1.21
58333955--58334101	9	15.4	9	65	25	54	27	6	2	63	1.33
58336649--58336692	20	2.2	20	84	8	54	29	2	2	65	1.16
58337171--58337195	11	2.3	11	100	0	50	48	0	0	52	1.00
58337376--58337418	3	14.3	3	100	0	86	67	0	0	32	0.91
58342038--58342063	5	5.2	5	100	0	52	42	19	19	19	1.90
58345401--58345811	225	1.8	225	89	2	655	24	26	15	34	1.95
58368077--58368226	41	3.7	40	91	4	230	21	21	28	28	1.98
58368073--58368226	82	1.9	81	91	4	256	20	21	29	28	1.98
58368771--58368803	7	4.7	7	96	0	57	3	0	57	39	1.14
58368766--58368803	14	2.7	14	87	0	58	7	0	52	39	1.31
58368917--58368991	7	10.4	7	80	5	69	18	0	40	41	1.51
58368968--58368997	15	2.0	15	93	0	51	26	0	43	30	1.55
58371125--58371186	31	2.0	31	96	0	115	12	17	22	46	1.82
58373102--58373368	43	6.2	44	83	3	289	19	17	33	28	1.95
58373102--58373368	86	3.1	87	83	4	321	19	17	33	28	1.95
58373853--58373935	25	3.3	25	79	0	76	4	26	15	53	1.62
58374509--58374537	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58375540--58375574	18	1.9	18	88	0	52	51	5	5	37	1.50
58384199--58384231	14	2.4	14	90	5	50	54	0	6	39	1.25
58384196--58384359	84	1.9	85	86	6	235	51	6	7	34	1.56
58384416--58384450	17	2.1	17	100	0	70	25	11	17	45	1.81
58399621--58399712	45	2.0	45	93	0	157	34	15	18	31	1.92
58399633--58399707	22	3.4	22	69	10	71	34	16	21	28	1.94
58401785--58401834	23	2.2	23	82	13	59	16	2	10	72	1.21
58411647--58411687	20	2.0	20	95	0	73	4	7	39	48	1.52
58414337--58414391	27	2.3	21	70	30	56	30	1	14	52	1.52
58415351--58415452	48	2.1	49	87	5	145	35	6	8	49	1.61
58416698--58416838	47	3.1	47	68	20	134	46	3	3	46	1.37
58416775--58416887	37	3.3	36	65	26	91	47	3	7	41	1.48
58416758--58416904	65	2.3	65	94	4	253	46	3	5	44	1.43
58416884--58416928	17	2.9	16	87	9	58	42	0	0	57	0.98
58416822--58416974	47	3.3	48	71	13	158	45	2	4	47	1.37
58416972--58417022	16	3.3	15	81	13	50	47	1	0	50	1.12
58416972--58417022	15	3.2	16	81	15	54	47	1	0	50	1.12
58416928--58417260	120	2.8	119	90	4	426	44	3	4	47	1.38
58416982--58417170	59	3.2	59	67	14	170	43	3	4	48	1.40
58416971--58417260	120	2.4	120	97	0	544	44	2	4	48	1.37
58417092--58417126	18	2.0	17	88	5	52	42	0	2	54	1.15
58417031--58417218	63	3.1	61	69	22	196	41	3	6	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58417048--58417231	61	3.0	61	67	20	186	42	2	6	48	1.41
58417212--58417246	18	2.0	17	88	5	52	45	0	0	54	0.99
58417406--58417493	44	2.0	46	86	4	126	36	26	5	31	1.80
58425808--58425857	26	2.0	25	84	4	64	18	4	26	52	1.63
58433528--58433566	20	1.9	21	85	15	55	41	2	2	53	1.28
58433755--58433802	24	2.0	24	83	4	60	47	8	0	43	1.33
58434294--58434347	21	2.6	21	91	5	83	24	9	37	29	1.86
58435270--58435331	22	2.8	22	92	0	97	35	14	25	24	1.93
58437826--58437854	13	2.2	13	100	0	58	31	6	0	62	1.22
58437901--58437933	16	2.0	17	88	5	50	45	0	6	48	1.27
58444500--58444526	13	2.1	13	100	0	54	22	7	37	33	1.82
58447223--58447280	30	1.9	30	85	0	80	43	1	24	31	1.64
58447493--58447523	13	2.4	13	94	0	53	32	0	12	54	1.38
58447618--58447859	50	4.7	50	84	3	268	28	23	28	19	1.99
58447618--58447867	100	2.4	103	85	5	335	27	23	28	20	1.99
58453039--58453096	30	1.9	30	85	0	80	43	3	22	31	1.70
58453309--58453339	13	2.4	13	94	0	53	32	0	12	54	1.38
58453434--58453675	50	4.7	50	86	3	286	27	23	28	19	1.98
58453434--58453683	100	2.4	103	87	5	353	27	23	28	20	1.99
58465798--58465845	22	2.2	22	81	7	53	37	16	6	39	1.74
58470122--58470174	17	3.4	17	70	24	62	54	13	0	32	1.39
58470124--58470182	29	2.0	29	100	0	118	55	10	0	33	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58473503--58473537	17	1.9	19	88	11	56	80	0	0	20	0.72
58473503--58473544	17	2.3	19	84	12	52	78	0	4	16	0.91
58474321--58474387	29	2.3	29	81	2	80	28	16	16	38	1.90
58474700--58474953	124	2.1	123	87	2	366	30	16	22	30	1.96
58480889--58480922	15	2.3	15	90	5	52	67	5	0	26	1.13
58481118--58481159	22	1.9	22	90	0	66	33	0	33	33	1.58
58481131--58481189	30	2.0	30	89	0	91	35	0	33	30	1.58
58481109--58481211	52	2.0	51	84	5	136	34	0	32	33	1.58
58481161--58481230	22	3.2	22	91	0	113	40	0	28	31	1.57
58482031--58482255	112	2.0	111	97	0	423	48	10	10	30	1.72

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