genome.fa.s8.2.7.7.80.10.50.1000.112.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  112  of  190  ( 22705 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)
34042227--34042261	18	1.9	18	94	0	61	51	2	8	37	1.47
34042189--34042370	55	3.3	55	89	3	251	48	5	9	36	1.60
34042368--34042716	29	13.2	28	72	19	247	26	0	27	45	1.56
34042407--34042447	17	2.3	18	87	8	66	29	0	21	48	1.50
34042365--34042507	75	1.9	75	95	0	259	27	0	26	44	1.59
34042511--34042827	47	6.5	47	90	8	501	27	0	26	46	1.53
34042453--34042810	153	2.3	152	97	0	680	27	0	26	46	1.53
34042830--34042893	25	2.5	26	87	2	103	37	12	1	48	1.51
34043302--34043336	18	1.9	18	88	0	52	31	8	34	25	1.86
34043990--34044014	7	3.6	7	100	0	50	60	12	0	28	1.32
34045096--34045147	10	5.1	10	81	4	59	71	0	0	28	0.87
34045096--34045160	31	2.1	31	97	0	121	67	0	0	32	0.91
34045185--34045268	29	3.1	29	62	22	74	41	0	28	29	1.56
34045162--34045274	51	2.2	51	96	0	208	41	0	30	28	1.56
34045246--34045296	22	2.3	22	100	0	102	39	0	33	27	1.57
34047573--34047674	28	3.4	29	68	16	82	49	3	15	31	1.63
34047590--34047686	28	3.2	28	68	16	77	48	3	14	34	1.59
34047563--34047686	62	2.0	62	95	0	221	48	4	15	32	1.63
34052637--34052669	16	2.1	16	100	0	66	39	24	6	30	1.79
34060472--34060510	20	2.0	21	85	10	55	41	10	15	33	1.81
34061839--34061897	28	2.1	28	100	0	118	35	20	3	40	1.69
34065938--34065980	22	1.9	23	85	4	61	37	6	2	53	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34070484--34070570	45	2.0	44	84	11	115	72	9	6	11	1.28
34070511--34070627	18	6.3	18	79	8	101	70	10	4	15	1.31
34070504--34070621	12	9.4	12	77	15	87	70	11	3	15	1.29
34070505--34070607	6	16.7	6	84	9	118	68	12	2	15	1.31
34071493--34071519	13	2.1	13	100	0	54	70	0	14	14	1.17
34071488--34071536	21	2.3	21	86	10	64	71	0	14	14	1.15
34071488--34071528	7	5.7	7	86	13	57	73	0	14	12	1.11
34071487--34071528	15	2.9	15	82	17	61	73	0	14	11	1.09
34072801--34073039	120	2.0	120	92	0	397	33	19	20	26	1.97
34073266--34073366	44	2.3	44	84	0	121	30	23	18	26	1.98
34073498--34074045	44	12.6	43	69	10	231	32	18	20	28	1.96
34073543--34074158	217	2.8	217	92	0	1045	32	18	20	28	1.96
34073489--34074130	44	14.8	44	69	12	195	32	18	20	28	1.96
34075705--34075747	22	1.9	23	85	4	61	37	6	2	53	1.41
34085747--34085822	29	2.6	29	95	0	134	52	14	10	22	1.72
34085747--34085844	29	3.3	29	88	5	117	52	13	12	22	1.73
34093125--34093164	5	8.0	5	94	0	62	65	0	0	35	0.93
34093125--34093163	20	2.0	20	94	0	69	66	0	0	33	0.92
34094235--34094331	48	2.0	48	100	0	194	20	19	30	28	1.97
34097766--34098021	41	6.3	41	85	4	293	24	23	24	27	2.00
34097742--34098021	123	2.3	122	83	3	348	24	22	25	27	2.00
34098313--34098354	21	2.0	21	86	4	59	30	0	19	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34098406--34098439	14	2.3	15	90	5	52	35	0	29	35	1.58
34099083--34099116	16	2.1	16	88	5	50	70	2	2	23	1.15
34103623--34103670	22	2.0	23	84	11	62	54	2	2	41	1.24
34103695--34103877	43	4.3	43	88	2	246	20	17	30	31	1.96
34103682--34103877	85	2.3	84	84	2	284	21	16	29	32	1.95
34105153--34105196	21	2.0	22	86	4	63	36	4	13	45	1.64
34105386--34105430	23	2.0	23	81	0	54	22	0	15	62	1.33
34105505--34105541	2	19.0	2	88	5	58	45	0	0	54	1.00
34105738--34105814	37	2.1	37	80	11	86	37	9	1	51	1.42
34106101--34106162	2	34.5	2	79	20	75	50	0	0	50	1.00
34106102--34106162	23	2.6	25	73	26	69	50	0	0	49	1.00
34106099--34106179	9	8.5	10	76	15	66	45	0	1	53	1.08
34108205--34108247	23	1.9	22	86	13	61	51	0	11	37	1.39
34111483--34111592	54	2.0	54	89	3	168	25	44	1	28	1.64
34113595--34113635	21	2.0	21	85	0	55	43	19	21	14	1.87
34115155--34115195	2	20.5	2	94	0	73	53	0	0	46	1.00
34117744--34117788	22	2.0	22	82	0	54	40	4	4	51	1.42
34120758--34120798	8	5.1	8	81	0	55	65	2	0	31	1.05
34123213--34123249	19	2.0	19	89	5	58	40	5	2	51	1.39
34123232--34123276	22	2.0	22	82	0	54	40	4	4	51	1.42
34125465--34125558	25	3.8	25	78	0	80	20	27	18	34	1.95
34125523--34125578	24	2.3	25	90	3	87	16	23	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34125523--34125591	24	2.8	24	80	6	59	15	24	20	39	1.92
34136971--34137006	17	2.1	18	89	5	56	16	2	13	66	1.36
34137909--34137939	2	15.5	2	93	0	53	48	3	0	48	1.17
34139801--34139961	43	3.7	43	84	9	213	33	26	19	20	1.97
34142998--34143023	8	3.2	8	100	0	52	38	0	0	61	0.96
34143229--34143306	35	2.2	35	84	8	97	43	8	2	44	1.49
34146918--34147061	58	2.5	57	82	6	168	45	0	2	51	1.18
34147221--34147276	16	3.5	16	82	4	69	32	21	7	39	1.80
34154975--34155076	48	2.1	48	88	0	150	25	33	18	22	1.97
34158404--34158448	18	2.5	18	82	7	56	40	17	4	37	1.70
34162062--34162205	70	2.1	70	97	0	270	39	11	11	37	1.78
34173452--34173945	249	2.0	248	93	2	841	28	13	19	38	1.90
34174135--34174206	22	3.3	22	94	0	117	30	16	27	25	1.97
34186266--34186326	20	3.0	20	65	9	52	21	34	18	26	1.96
34186189--34186326	40	3.5	40	90	0	213	21	30	18	29	1.97
34189061--34189113	24	2.2	24	83	6	63	47	5	1	45	1.37
34190134--34190274	69	2.0	69	93	0	237	35	17	11	36	1.85
34201464--34201529	13	5.1	13	80	7	80	37	22	6	33	1.79
34205892--34205957	25	2.7	25	92	2	107	12	36	30	21	1.90
34208925--34209107	99	1.9	98	84	6	246	42	14	10	32	1.80
34209540--34209694	41	3.8	40	90	3	229	32	23	20	23	1.98
34216939--34217114	46	3.8	46	90	0	271	30	25	9	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34219571--34219716	41	3.6	41	83	0	168	36	15	26	21	1.93
34219611--34219679	20	3.4	20	72	4	66	36	14	27	21	1.93
34219571--34219724	81	1.9	81	83	1	200	38	14	25	21	1.92
34222969--34223120	35	4.3	35	86	0	178	14	12	33	39	1.84
34227636--34227744	32	3.4	32	80	8	114	44	9	7	38	1.64
34227780--34227845	32	2.1	32	97	0	123	50	4	15	30	1.64
34230072--34230132	11	5.5	11	77	11	61	44	0	24	31	1.54
34231368--34231434	35	1.9	35	93	0	116	44	4	25	25	1.72
34242865--34242936	29	2.5	27	80	17	74	31	2	1	63	1.17
34242874--34242976	38	2.6	39	87	7	156	33	2	0	63	1.16
34261069--34261242	46	3.8	46	96	0	285	29	25	9	35	1.87
34261226--34261255	13	2.3	13	94	0	51	46	33	3	16	1.64
34261180--34261301	59	2.1	59	92	0	199	31	27	8	32	1.86
34262540--34262587	17	2.9	17	90	3	71	54	18	0	27	1.44
34268986--34269024	20	1.9	21	89	5	62	56	12	7	23	1.62
34274245--34274277	6	5.5	6	100	0	66	15	18	48	18	1.81
34276667--34276695	15	1.9	15	100	0	58	89	3	6	0	0.57
34279413--34279541	43	3.0	43	80	10	154	32	27	16	23	1.96
34283804--34283847	23	1.9	23	85	0	61	31	9	20	38	1.84
34287931--34288050	62	1.9	62	94	0	213	43	14	17	25	1.86
34298529--34298608	36	2.2	36	95	0	142	35	36	16	12	1.86
34300672--34300727	25	2.2	27	78	12	64	53	5	1	39	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34300622--34300756	68	2.0	69	86	1	191	50	5	4	39	1.47
34303292--34303330	2	19.5	2	94	0	69	48	2	0	48	1.15
34305420--34305487	21	3.2	21	85	0	64	16	22	16	45	1.85
34305453--34305506	21	2.7	21	88	5	76	12	25	16	44	1.84
34309151--34309310	28	5.7	27	78	11	117	37	0	19	43	1.51
34309390--34310063	126	5.4	125	87	2	906	39	15	17	27	1.90
34309563--34309608	14	3.2	14	78	3	56	45	2	17	34	1.61
34309390--34310063	251	2.7	252	87	2	944	39	15	17	27	1.90
34310145--34310193	25	2.0	25	91	0	80	55	0	16	28	1.42
34312294--34312327	18	1.9	18	88	5	52	29	2	5	61	1.34

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