genome.fa.s5.2.7.7.80.10.50.1000.183.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  183  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)
55907320--55907485	57	3.1	50	68	21	129	44	1	3	50	1.30
55906990--55907587	232	2.5	239	90	3	935	42	1	4	50	1.33
55907539--55907573	18	2.0	17	88	5	52	45	0	0	54	0.99
55907730--55907826	45	2.2	45	85	5	126	32	28	6	31	1.82
55907806--55907838	16	2.1	16	100	0	66	21	36	6	36	1.78
55908480--55908517	2	19.0	2	100	0	76	50	0	0	50	1.00
55908794--55908848	26	2.1	26	82	0	65	43	3	20	32	1.69
55916839--55917405	126	4.5	125	85	2	726	30	17	22	29	1.96
55916839--55917405	251	2.3	250	88	2	798	30	17	22	29	1.96
55920189--55920221	7	4.7	7	100	0	66	57	15	0	27	1.38
55920388--55920426	20	2.0	20	85	10	53	53	7	2	35	1.43
55921358--55921455	51	1.9	51	83	4	126	45	2	24	27	1.64
55921417--55921489	11	6.5	11	72	24	64	43	0	27	28	1.55
55921419--55921486	33	2.1	33	86	5	93	44	0	27	27	1.55
55921417--55921489	22	3.3	22	83	16	89	43	0	27	28	1.55
55927701--55928201	44	11.0	44	76	8	396	29	19	17	32	1.95
55927857--55928199	178	1.9	179	84	3	463	30	21	16	30	1.96
55959795--55959829	5	7.0	5	100	0	70	80	0	0	20	0.72
55965912--55965950	9	4.3	9	84	12	53	76	0	23	0	0.78
55965912--55965953	13	3.2	13	93	3	66	76	0	23	0	0.79
55974435--55974544	37	3.0	37	93	1	177	24	20	16	38	1.93
55974519--55974776	52	5.1	52	89	6	393	26	23	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55974508--55974768	98	2.6	98	91	3	405	27	23	14	34	1.94
55978774--55978802	13	2.1	14	93	6	51	55	13	0	31	1.39
55983466--55983535	22	3.2	22	95	0	131	32	28	0	38	1.57
55983485--55983587	52	2.0	51	88	5	154	33	31	0	34	1.58
55983507--55983565	30	2.0	30	89	0	91	32	32	0	35	1.58
55983537--55983578	22	1.9	22	90	0	66	33	30	0	35	1.58
55983621--55983676	29	2.0	28	89	10	87	39	0	3	57	1.16
55983622--55983683	29	2.1	29	85	11	83	38	0	3	58	1.15
55983775--55983807	15	2.3	15	89	5	50	27	0	6	66	1.15
55985958--55986259	51	6.1	50	86	8	358	46	21	0	31	1.56
55985970--55986274	74	4.1	74	89	7	460	46	21	0	30	1.58
55985970--55986259	23	12.0	23	83	10	373	46	21	0	31	1.56
55987107--55987371	124	2.1	124	86	2	372	31	23	15	30	1.95
55991882--55992105	93	2.4	94	80	5	236	23	17	16	42	1.88
55992147--55992251	38	2.7	39	82	1	131	19	25	18	37	1.94
55993360--55993406	15	3.1	15	76	11	51	44	8	0	46	1.33
55996918--55997412	94	5.3	94	83	2	548	28	22	16	32	1.96
55997265--55997548	138	2.1	138	88	1	417	27	21	17	32	1.96
55997167--55997639	232	2.0	232	86	2	655	28	21	17	32	1.96
55997399--55998692	94	13.8	94	83	1	1387	28	20	18	32	1.96
55998150--55998293	44	3.1	44	68	18	112	25	24	18	31	1.97
55998438--55998579	44	3.1	44	71	21	146	28	21	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55998382--55998554	50	3.6	49	69	19	146	28	20	20	30	1.98
55998476--55998649	50	3.6	47	71	16	124	29	21	17	30	1.97
56006544--56006679	32	4.4	31	70	22	106	55	2	8	33	1.46
56006533--56006590	21	2.9	19	80	17	64	56	0	10	32	1.33
56006502--56006702	92	2.2	92	98	0	384	54	4	6	33	1.47
56006488--56006647	3	51.3	3	65	16	58	56	5	6	32	1.46
56006625--56006682	21	2.9	19	80	17	64	56	0	10	32	1.33
56006835--56006900	23	2.8	24	86	4	98	54	6	12	27	1.60
56007290--56007320	12	2.6	12	100	0	62	58	6	0	35	1.24
56008817--56008856	21	1.9	21	85	10	55	27	7	25	40	1.82
56026730--56026774	23	2.0	23	100	0	90	44	13	17	24	1.85
56027719--56027766	20	2.3	21	78	7	53	58	4	6	31	1.42
56032326--56032909	289	2.0	287	87	2	837	30	16	10	42	1.82
56038343--56038555	40	5.2	40	95	2	381	34	27	9	28	1.89
56042933--56042963	16	1.9	16	93	0	53	48	16	19	16	1.81
56044687--56044728	20	2.1	20	86	0	57	33	30	21	14	1.93
56049868--56049896	2	14.5	2	100	0	58	48	0	0	51	1.00
56054101--56054252	78	1.9	79	80	9	177	34	23	15	26	1.95
56055140--56055181	13	3.5	13	75	18	54	50	0	0	50	1.00
56055136--56055181	23	2.1	21	92	8	74	47	0	0	52	1.00
56065037--56065076	21	1.9	21	85	10	55	27	10	17	45	1.80
56066956--56067000	22	2.1	22	87	4	65	33	2	2	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56067722--56067770	24	2.0	26	84	8	66	40	6	8	44	1.59
56071340--56071395	28	2.0	28	96	0	103	32	26	7	33	1.84
56075939--56076002	30	2.2	29	81	10	76	29	28	6	35	1.82
56075946--56076002	30	1.9	30	85	3	80	29	24	7	38	1.82
56083664--56083690	7	3.9	7	100	0	54	44	0	0	55	0.99
56085436--56085484	25	1.9	26	87	4	73	63	8	0	28	1.23
56092037--56092137	43	2.4	42	85	5	123	20	29	10	38	1.87
56099163--56099197	17	2.0	18	88	5	54	48	5	2	42	1.41
56099697--56099797	43	2.4	42	85	5	123	20	29	10	38	1.87
56102928--56102990	7	8.4	7	77	16	56	36	0	49	14	1.44
56102939--56102980	9	5.0	9	77	16	54	40	0	47	11	1.40
56102933--56102983	16	3.1	16	82	17	61	39	0	47	13	1.43
56102929--56102979	24	2.1	25	85	10	79	37	0	50	11	1.39
56102944--56102990	16	3.1	15	91	8	78	38	0	48	12	1.41
56103513--56103548	19	2.0	18	89	10	56	55	5	5	33	1.46
56106957--56106994	20	1.9	20	89	10	60	60	5	0	34	1.19
56113771--56113808	16	2.5	15	87	8	51	44	0	44	10	1.38
56114344--56114379	19	2.0	18	89	10	56	55	5	5	33	1.46
56118992--56119022	12	2.6	12	94	0	53	32	41	19	6	1.77
56119014--56119111	41	2.4	41	98	1	187	23	22	33	20	1.97
56136410--56136449	21	1.9	21	90	10	64	55	7	12	25	1.63
56138088--56138136	26	1.9	25	83	4	62	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56138265--56138314	19	2.6	19	84	6	57	70	0	6	24	1.10
56139511--56139549	20	2.0	20	94	0	69	69	10	2	17	1.28
56140005--56140069	32	2.1	32	91	2	105	55	3	7	33	1.44
56140472--56140502	9	3.4	9	90	0	53	25	12	22	38	1.90
56140555--56140591	9	4.1	9	92	0	65	45	13	10	29	1.77
56141530--56141560	5	6.2	5	100	0	62	22	19	19	38	1.93
56146032--56146057	5	5.2	5	100	0	52	42	19	19	19	1.90
56146810--56146869	30	2.0	30	83	3	75	41	0	38	20	1.52
56156425--56156626	51	4.0	51	92	1	336	30	24	13	30	1.94
56156425--56156626	101	2.0	101	93	0	341	30	24	13	30	1.94
56156710--56156742	17	1.9	17	88	11	50	45	21	0	33	1.52
56168394--56168455	22	2.8	22	76	13	65	54	0	1	43	1.09
56169664--56169689	2	13.0	2	100	0	52	50	0	0	50	1.00
56170701--56170756	28	2.0	27	83	13	69	39	1	23	35	1.65
56182496--56182761	9	28.6	9	66	20	86	62	3	1	32	1.19
56182581--56182725	29	5.1	30	73	19	105	64	2	1	32	1.14
56183182--56183228	20	2.3	21	85	10	62	34	2	4	59	1.29
56183774--56183806	16	2.0	17	88	5	50	45	0	9	45	1.35
56183574--56184028	250	1.8	247	84	4	623	38	8	7	45	1.64
56184007--56184079	30	2.6	28	75	16	69	38	1	8	52	1.40
56184190--56184222	17	2.0	17	88	5	50	39	0	0	60	0.97
56200835--56201005	43	4.0	43	72	11	154	21	17	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56208592--56208792	109	1.9	106	88	3	303	32	18	17	30	1.95
56222368--56222394	6	4.5	6	100	0	54	37	0	33	29	1.58
56234038--56234066	3	9.7	3	100	0	58	68	0	0	31	0.89
56262712--56262768	26	2.2	26	84	3	71	52	0	0	47	1.00
56269621--56269753	40	3.4	39	70	11	92	28	15	22	33	1.94
56272004--56272038	18	1.9	18	94	0	61	45	17	8	28	1.77
56275401--56275432	2	15.5	2	93	6	55	46	0	3	50	1.17
56283714--56283743	2	15.0	2	92	0	51	0	53	0	46	1.00
56286173--56286222	18	2.6	19	84	15	68	58	0	2	40	1.10
56286204--56286231	11	2.5	11	100	0	56	57	0	0	42	0.99

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