genome.fa.s5.2.7.7.80.10.50.1000.175.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  175  of  208  ( 24913 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)
53486303--53486369	34	1.9	35	90	3	109	49	11	7	31	1.67
53486300--53486377	14	5.1	15	71	19	54	46	12	7	33	1.71
53486825--53486864	20	1.9	22	90	10	66	62	7	0	30	1.23
53487147--53487322	82	2.2	78	86	8	230	34	8	17	39	1.80
53488124--53488219	50	1.9	50	82	4	122	41	16	3	38	1.64
53488382--53488429	25	2.0	24	91	4	78	60	0	4	35	1.16
53488503--53488549	25	1.9	24	86	4	67	42	2	0	55	1.12
53514389--53514421	10	3.0	11	86	13	50	27	0	0	72	0.85
53514485--53514546	27	2.3	27	97	0	115	29	22	33	14	1.94
53514659--53514809	49	3.1	49	82	7	193	30	1	13	54	1.48
53514659--53514809	27	6.1	24	69	19	114	30	1	13	54	1.48
53514661--53514756	27	3.7	27	81	13	139	32	1	13	53	1.47
53514852--53514889	19	2.0	19	89	0	58	36	5	7	50	1.54
53516929--53517004	24	3.0	24	75	14	64	23	3	5	67	1.29
53520918--53521058	51	2.8	51	81	0	156	26	18	24	29	1.98
53521053--53521147	45	2.1	45	90	0	154	25	16	25	32	1.96
53523601--53523693	3	31.0	3	95	0	168	64	2	0	33	1.06
53524345--53524418	9	8.6	9	70	14	57	0	24	4	71	1.03
53524374--53524417	17	2.6	17	92	3	72	0	20	4	75	0.98
53524566--53524597	17	1.9	16	93	6	55	50	0	0	50	1.00
53524570--53524625	17	3.5	17	76	11	57	58	0	0	41	0.98
53528101--53528243	60	2.3	62	84	7	186	32	22	13	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53528224--53528425	50	3.9	50	78	6	176	24	22	19	33	1.97
53528190--53528451	53	5.0	51	74	11	176	27	22	17	33	1.96
53532968--53532996	7	4.1	7	100	0	58	72	0	0	27	0.85
53537331--53537357	14	1.9	14	100	0	54	48	0	0	51	1.00
53538428--53538462	9	4.0	9	85	7	54	40	0	0	60	0.97
53538724--53538760	14	2.6	15	83	12	51	21	0	32	45	1.52
53538833--53538889	28	2.1	27	83	3	69	17	3	29	49	1.63
53541946--53541997	24	2.2	24	89	0	77	55	9	1	32	1.43
53543911--53543962	24	2.2	24	89	0	77	55	9	1	32	1.43
53544072--53544119	22	2.2	22	85	7	62	10	10	8	70	1.33
53544280--53544333	17	3.1	17	73	10	56	35	0	3	61	1.14
53544731--53544767	18	2.0	19	89	5	58	54	18	0	27	1.44
53545873--53545919	20	2.3	21	79	20	55	29	0	27	42	1.56
53545933--53545970	19	2.1	19	85	14	53	42	2	18	36	1.64
53547770--53547838	29	2.4	29	80	4	77	59	4	2	33	1.32
53548241--53548274	17	2.1	17	88	5	52	35	0	0	64	0.94
53553859--53553884	2	13.0	2	100	0	52	50	0	0	50	1.00
53554094--53554248	71	2.2	71	83	2	186	27	25	22	24	2.00
53561440--53561724	42	6.8	42	91	3	430	35	22	20	22	1.96
53561441--53561724	83	3.4	84	90	4	423	34	22	20	22	1.96
53564107--53564238	7	18.9	7	75	6	106	30	45	0	23	1.58
53564110--53564234	14	8.9	14	83	6	148	30	44	0	24	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53564337--53564375	12	3.1	12	86	13	60	30	53	0	15	1.42
53564315--53564380	33	2.0	33	84	0	87	33	46	0	19	1.50
53564322--53564375	26	2.1	26	85	0	72	31	48	0	20	1.50
53564337--53564380	14	3.3	14	93	6	74	31	52	0	15	1.44
53564769--53564974	114	1.8	114	80	6	247	31	23	14	31	1.94
53564796--53565196	188	2.1	188	91	0	640	30	22	15	31	1.95
53564978--53565575	227	2.6	227	87	4	848	29	20	16	33	1.94
53564996--53565580	114	5.1	112	73	9	513	29	20	16	33	1.94
53574199--53574324	43	2.9	43	80	12	134	19	19	29	31	1.96
53574971--53575005	15	2.3	15	90	9	54	25	0	22	51	1.48
53575257--53575438	47	3.9	47	97	0	337	32	12	15	39	1.84
53582610--53582646	18	2.0	19	89	5	58	62	13	0	24	1.31
53582868--53582892	8	3.1	8	100	0	50	60	0	0	40	0.97
53582976--53583111	73	1.9	73	85	0	191	26	26	24	22	2.00
53584214--53584337	25	4.9	26	71	7	87	38	16	26	18	1.91
53588622--53588647	7	3.7	7	100	0	52	61	0	0	38	0.96
53603018--53603116	31	3.4	30	67	23	75	27	5	5	62	1.37
53603987--53604191	111	1.9	108	85	5	286	29	16	21	32	1.95
53609891--53610353	44	10.7	43	68	12	187	30	19	21	28	1.97
53609874--53610216	175	2.0	176	92	0	571	31	19	20	28	1.97
53610064--53610353	129	2.2	129	91	0	472	30	18	21	28	1.97
53610463--53610673	44	4.8	44	81	3	264	29	22	25	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53610505--53610666	87	1.9	87	89	2	254	29	22	24	24	1.99
53610370--53610674	131	2.3	131	92	0	502	30	23	22	22	1.99
53611746--53611782	13	3.0	13	80	15	51	13	5	5	75	1.15
53612467--53612506	3	13.0	3	84	5	53	32	2	2	62	1.22
53612467--53612571	31	3.5	30	70	21	78	27	4	4	62	1.35
53620730--53620975	132	1.9	132	91	1	404	29	22	17	30	1.97
53620948--53622002	89	11.9	89	89	1	1515	27	23	18	31	1.97
53623310--53623357	20	2.3	21	89	10	73	14	16	0	68	1.21
53623310--53623357	13	3.5	14	86	11	64	14	16	0	68	1.21
53623310--53623357	7	7.0	7	81	13	64	14	16	0	68	1.21
53634928--53634953	13	2.0	13	100	0	52	46	15	7	30	1.74
53637004--53637042	3	13.0	3	84	10	53	64	0	2	33	1.08
53636994--53637048	24	2.4	24	80	17	71	65	0	5	29	1.15
53638323--53638370	23	2.1	23	88	0	69	29	16	2	52	1.56
53641844--53641894	6	8.5	6	100	0	102	15	0	0	84	0.63
53643426--53643462	17	2.2	16	90	4	56	5	27	5	62	1.39
53649963--53650013	23	2.2	23	92	0	84	27	9	21	41	1.84
53650474--53650601	64	2.0	64	84	3	168	33	23	19	23	1.97
53652665--53652693	11	2.5	12	94	5	51	41	0	24	34	1.55
53653028--53653186	86	1.9	84	83	12	209	24	18	26	30	1.98
53653028--53653186	42	3.7	43	79	9	182	24	18	26	30	1.98
53653493--53653537	17	2.6	18	76	16	51	44	0	20	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53657757--53657942	93	2.0	93	94	0	327	44	9	12	33	1.76
53662700--53662743	21	2.0	22	86	4	63	22	29	13	34	1.93
53683380--53683411	3	10.7	3	100	0	64	0	31	0	68	0.90
53687825--53687898	28	2.5	29	73	8	78	62	2	4	31	1.28
53687844--53687916	10	7.2	10	79	10	51	63	2	2	31	1.23
53687945--53687989	18	2.4	19	81	3	56	24	6	0	68	1.13
53688104--53688223	10	12.4	10	70	8	88	35	2	0	61	1.15
53688103--53688190	30	2.9	29	86	8	106	35	2	1	61	1.16
53688103--53688221	19	6.3	19	74	8	91	36	2	0	60	1.16
53688403--53688595	88	2.1	90	81	8	223	34	5	21	38	1.77
53688832--53688871	21	2.0	21	90	5	64	12	35	5	47	1.63
53698880--53698938	27	2.2	28	81	9	77	45	30	0	23	1.53
53699469--53699512	22	1.9	24	86	9	65	29	15	0	54	1.42
53700098--53700130	10	3.3	10	84	16	50	60	0	0	39	0.97
53700098--53700143	20	2.3	20	88	3	67	60	2	0	36	1.09
53703049--53703233	5	37.0	5	98	0	334	37	20	2	40	1.64
53712445--53712471	2	13.5	2	100	0	54	48	0	0	51	1.00
53713984--53714040	27	2.1	28	83	9	73	57	7	12	22	1.58
53715016--53715109	44	2.1	44	98	0	179	39	11	19	29	1.87
53732063--53732180	27	4.4	27	83	4	141	33	11	27	27	1.92
53734522--53734549	14	2.0	14	100	0	56	50	21	0	28	1.49
53734689--53734833	47	2.9	48	83	8	166	35	23	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53736786--53736849	32	2.0	32	96	0	119	31	17	28	23	1.97
53744262--53744491	50	4.5	50	79	7	205	23	28	19	28	1.98
53754027--53754116	33	2.7	33	84	3	119	46	16	21	15	1.84
53756082--53756115	17	2.1	15	89	10	50	67	2	0	29	1.05
53756440--53756486	23	2.0	23	83	0	58	29	4	2	63	1.25
53758311--53758363	27	2.0	27	100	0	106	15	24	33	26	1.95
53758315--53758565	33	7.4	33	69	22	139	19	21	28	31	1.97
53758313--53758541	103	2.2	102	95	0	404	19	21	28	30	1.97
53765784--53765952	70	2.3	72	88	7	236	19	20	29	30	1.97
53765784--53765964	69	2.5	70	84	6	238	19	20	30	29	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