genome.fa.s10.2.7.7.80.10.50.1000.97.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  97  of  202  ( 24201 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)
29469947--29469996	25	2.0	26	92	4	84	14	26	22	38	1.91
29470107--29470185	28	2.8	28	82	0	86	22	27	24	25	2.00
29477162--29477543	27	14.3	27	85	2	475	41	18	22	17	1.90
29477162--29477543	53	7.1	54	88	1	475	41	18	22	17	1.90
29477706--29477771	26	2.6	26	80	7	73	10	22	25	40	1.86
29477886--29477963	28	2.8	28	94	0	129	23	25	25	25	2.00
29477885--29478009	28	4.3	28	78	16	110	24	24	24	28	2.00
29486757--29486837	26	3.1	26	85	7	119	18	24	25	30	1.98
29486940--29487029	28	3.2	27	84	7	99	31	17	17	33	1.94
29489280--29489308	14	2.1	14	100	0	58	27	20	31	20	1.98
29500257--29500295	20	2.0	20	100	0	78	43	15	0	41	1.46
29500858--29500909	22	2.4	22	80	0	59	44	19	17	19	1.87
29500901--29501085	32	5.8	32	81	5	196	38	19	17	23	1.93
29500928--29501086	64	2.5	64	90	0	237	38	20	18	22	1.93
29500901--29501084	96	1.9	95	84	3	244	39	19	17	23	1.92
29501099--29501159	26	2.3	26	85	0	77	34	24	22	18	1.96
29501285--29501327	11	3.7	11	79	11	50	53	23	6	16	1.67
29501275--29501408	24	5.6	24	82	0	133	44	20	8	26	1.80
29501426--29501531	27	3.9	27	92	0	185	21	23	22	32	1.98
29501414--29501528	54	2.1	54	86	0	167	24	22	24	28	1.99
29501533--29501587	27	2.1	27	89	3	85	21	30	18	29	1.97
29501579--29501719	54	2.6	53	84	5	185	21	16	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29501547--29501719	27	6.4	27	82	5	165	21	18	19	40	1.92
29502450--29502509	26	2.3	26	97	0	111	25	28	10	36	1.88
29512466--29512499	17	1.9	18	94	5	61	41	5	14	38	1.70
29513965--29514018	5	11.0	5	76	4	56	18	7	0	74	1.05
29513965--29514018	24	2.2	25	87	9	76	18	7	0	74	1.05
29513974--29514026	24	2.2	24	83	6	63	22	5	0	71	1.06
29519698--29519773	21	3.7	21	87	7	120	36	11	10	40	1.76
29519711--29519774	19	3.3	19	93	4	101	37	14	9	39	1.78
29519859--29519952	47	2.0	47	100	0	188	19	12	23	44	1.85
29524048--29524240	51	3.8	51	75	8	187	25	15	26	32	1.95
29528159--29528229	9	8.5	8	78	20	67	70	0	4	25	1.05
29528159--29528229	4	17.0	4	76	23	67	70	0	4	25	1.05
29528165--29528230	13	4.9	13	79	18	73	69	0	4	25	1.07
29551531--29551710	51	3.6	50	75	6	168	25	18	27	28	1.98
29555023--29555058	18	2.0	18	100	0	72	33	27	16	22	1.95
29555375--29555441	33	2.0	35	82	8	86	47	1	2	47	1.26
29559602--29559665	32	2.0	32	100	0	128	34	3	12	50	1.56
29562297--29562533	50	4.8	49	84	3	307	19	33	20	26	1.97
29562554--29562646	44	2.1	44	91	0	150	24	20	11	43	1.85
29564131--29564217	45	2.0	43	81	4	102	45	6	4	42	1.51
29564626--29564657	16	2.0	16	100	0	64	37	6	12	43	1.68
29569953--29570075	42	3.0	40	77	12	131	32	26	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29572417--29572455	21	1.9	19	85	10	51	30	5	15	48	1.66
29572807--29572831	9	2.8	9	100	0	50	32	12	20	36	1.89
29594410--29594490	40	2.0	41	85	7	112	24	20	24	29	1.99
29605365--29605428	25	2.6	25	92	0	101	26	10	14	48	1.76
29605415--29605447	15	2.2	15	100	0	66	18	18	9	54	1.69
29605390--29605472	40	2.1	40	95	0	148	22	14	13	49	1.78
29605430--29605483	25	2.2	25	96	0	99	22	12	16	48	1.80
29605361--29605483	65	1.9	65	94	0	219	24	13	14	47	1.79
29609705--29609902	51	3.9	50	81	8	222	25	17	27	29	1.97
29619904--29620092	51	3.8	49	78	6	209	24	17	28	29	1.98
29620122--29620357	33	6.8	33	70	23	162	20	19	27	32	1.97
29626342--29626391	18	2.7	18	84	6	55	4	22	4	70	1.21
29626346--29626391	19	2.4	20	82	17	62	4	23	2	69	1.17
29642797--29642826	14	2.1	14	100	0	60	33	20	23	23	1.97
29644105--29644322	109	2.0	109	98	0	418	47	6	19	26	1.73
29644353--29644394	16	2.6	16	92	7	68	0	35	0	64	0.94
29644365--29644419	16	3.1	19	82	12	55	1	32	0	65	1.03
29648760--29648814	28	2.0	28	85	0	74	40	9	25	25	1.85
29650215--29650262	17	2.8	17	90	6	71	56	14	6	22	1.61
29652217--29652458	50	4.7	52	74	7	156	26	26	20	26	1.99
29654907--29655038	27	5.0	26	84	7	70	18	18	22	39	1.92
29654925--29655049	27	4.7	26	90	3	178	18	18	22	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29658433--29658550	27	4.4	27	83	4	130	20	15	18	45	1.85
29658433--29658550	54	2.2	54	84	0	155	20	15	18	45	1.85
29661228--29661252	4	6.2	4	100	0	50	24	0	0	76	0.80
29665677--29665742	23	3.0	23	82	4	82	53	0	4	42	1.21
29669021--29669171	42	3.6	43	78	7	157	22	17	25	34	1.96
29682509--29682559	23	2.3	21	83	12	59	47	0	7	45	1.32
29706579--29706611	16	2.0	17	88	5	50	39	15	12	33	1.84
29709183--29709240	30	1.9	30	89	0	89	15	24	27	32	1.95
29709268--29709351	35	2.3	36	75	4	89	26	17	30	25	1.97
29715883--29715915	16	2.1	16	88	11	50	60	0	3	36	1.12
29732198--29732263	20	3.2	20	67	12	60	25	4	10	59	1.50
29733507--29733531	12	2.1	12	100	0	50	20	32	16	32	1.94
29740695--29740799	52	2.0	52	89	10	162	57	0	1	40	1.16
29740695--29740887	40	4.8	39	85	6	235	60	0	2	37	1.13
29740695--29740877	11	17.9	11	69	21	89	59	0	2	37	1.14
29741486--29741527	16	2.6	16	80	0	57	50	0	0	50	1.00
29746474--29746751	46	6.6	45	85	10	292	29	21	13	35	1.92
29746606--29746712	36	3.0	36	97	0	196	31	19	10	38	1.85
29772281--29772375	38	2.4	38	84	6	111	50	10	3	35	1.53
29772278--29772375	40	2.5	40	83	6	121	50	10	3	36	1.52
29790155--29790228	12	6.0	12	75	10	60	29	17	9	43	1.81
29797521--29797565	22	2.0	22	86	0	63	51	11	0	37	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29797697--29797760	27	2.4	27	87	10	103	25	23	4	46	1.71
29804719--29804746	11	2.5	11	100	0	56	42	7	28	21	1.79
29804698--29804797	51	2.0	51	90	4	157	46	2	28	24	1.64
29809522--29809560	20	2.0	20	90	10	62	43	0	7	48	1.31
29810246--29810310	32	2.1	32	97	2	123	47	12	9	30	1.72
29813424--29813842	107	4.0	106	88	3	603	30	18	18	32	1.95
29825446--29825980	44	12.2	44	69	7	173	31	20	21	27	1.98
29825443--29826373	131	7.1	129	71	12	481	31	20	21	27	1.98
29825577--29826211	87	7.2	88	70	11	241	31	20	21	27	1.97
29825536--29826377	44	19.4	42	69	12	290	30	20	21	27	1.98
29825445--29826339	218	4.1	218	93	1	1490	31	19	21	27	1.98
29826354--29826524	44	4.0	43	67	15	138	30	21	22	24	1.99
29828607--29829025	107	4.0	106	85	3	576	29	18	18	33	1.95
29834243--29834307	32	2.1	32	97	2	123	47	12	9	30	1.72
29839586--29839692	8	11.8	8	72	26	56	51	7	1	39	1.41
29839616--29839705	19	4.8	19	79	20	118	52	8	1	37	1.40
29839581--29839695	36	3.0	36	75	22	119	51	6	2	39	1.43
29843981--29844137	57	2.8	58	83	5	205	40	17	5	36	1.73
29856858--29856951	45	2.1	45	93	0	161	30	24	19	25	1.98
29856955--29857139	101	1.8	101	84	5	257	30	27	17	25	1.97
29856954--29857175	101	2.2	101	79	5	225	30	27	15	26	1.96
29858762--29858798	18	2.1	18	100	0	74	40	5	21	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29859118--29859169	25	2.1	25	82	13	63	57	3	5	32	1.40
29860315--29860340	8	3.2	8	100	0	52	11	23	34	30	1.90
29862911--29862940	16	1.9	15	93	6	51	46	6	0	46	1.29
29866032--29866152	54	2.2	55	76	8	131	23	28	24	22	1.99
29867972--29868026	27	2.1	26	89	3	83	61	5	1	30	1.29
29876191--29877118	463	2.0	463	99	0	1829	32	20	12	34	1.90
29881194--29881241	16	2.9	17	78	15	55	41	2	2	54	1.24
29881291--29881317	14	1.9	14	100	0	54	37	22	25	14	1.93
29885359--29885407	9	5.4	9	82	7	55	24	0	2	73	0.94
29885359--29885408	26	1.9	26	87	0	73	24	0	4	72	1.02

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