genome.fa.s8.2.7.7.80.10.50.1000.80.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  80  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)
23074426--23074480	20	2.8	20	88	0	83	30	25	10	32	1.90
23076365--23076503	68	2.0	68	95	0	251	48	8	25	17	1.75
23079010--23079102	47	2.0	46	97	2	177	27	26	12	32	1.93
23080520--23080645	56	2.2	56	87	4	182	23	28	9	38	1.86
23081698--23081771	36	2.1	36	81	0	85	41	14	18	24	1.89
23102894--23103142	27	9.2	27	89	3	358	43	21	19	15	1.87
23103500--23103595	28	3.4	28	88	8	140	25	23	22	28	2.00
23106127--23106184	20	2.9	20	75	10	64	36	17	29	17	1.92
23106107--23106205	40	2.5	40	86	3	137	33	15	29	22	1.94
23108235--23108293	14	4.0	15	74	12	59	3	22	1	72	1.08
23108285--23108330	18	2.6	17	80	10	56	8	2	6	82	0.91
23109831--23109877	20	2.3	20	85	7	60	25	17	29	27	1.97
23131770--23131798	12	2.5	12	94	5	51	41	20	0	37	1.53
23131914--23131941	12	2.3	12	100	0	56	35	32	25	7	1.83
23133102--23133904	243	3.3	243	92	1	1272	24	24	11	39	1.88
23136778--23136816	19	2.0	20	90	5	62	25	28	10	35	1.89
23136780--23136825	20	2.3	19	85	7	56	28	30	10	30	1.91
23139226--23139323	6	16.0	6	66	19	51	74	1	18	6	1.08
23139251--23139322	13	5.7	13	77	20	57	73	1	16	8	1.14
23139244--23139322	38	2.1	38	85	4	106	73	1	17	7	1.13
23139248--23139331	39	2.2	39	82	4	98	73	2	16	7	1.15
23147565--23147592	10	2.8	10	100	0	56	17	0	42	39	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23150878--23151024	27	5.5	26	77	14	149	31	16	24	27	1.96
23150834--23151046	53	4.0	53	76	7	189	31	17	23	27	1.97
23152118--23152331	27	7.9	27	95	0	365	25	21	14	38	1.91
23152644--23152695	25	2.1	25	100	0	104	38	25	0	36	1.56
23153372--23153411	21	1.9	21	90	10	64	30	5	27	37	1.78
23155084--23155198	27	4.3	27	78	0	104	31	14	22	31	1.94
23156371--23156404	16	2.2	16	89	5	52	50	11	8	29	1.69
23163865--23163902	18	2.1	19	90	5	60	5	15	2	76	1.08
23171607--23171666	28	2.2	28	87	3	86	55	15	5	25	1.60
23182500--23182583	23	3.7	23	83	0	105	16	17	29	35	1.93
23187367--23187399	18	1.9	18	88	11	52	30	15	12	42	1.83
23188637--23188662	9	2.9	9	100	0	52	11	0	0	88	0.52
23189734--23189834	52	1.9	52	89	0	157	25	16	22	34	1.95
23199011--23199091	40	2.0	40	100	0	162	45	19	17	17	1.85
23207709--23207767	25	2.3	26	77	5	68	59	5	5	30	1.41
23208270--23208369	3	33.0	3	79	9	96	60	2	6	32	1.32
23209932--23210350	44	9.7	44	69	14	228	26	20	20	31	1.98
23209900--23210350	172	2.6	171	88	2	605	27	20	20	31	1.97
23219603--23219653	25	2.0	25	88	0	75	11	25	21	41	1.87
23222337--23222425	3	30.3	3	85	6	112	62	1	2	33	1.15
23222326--23222423	12	8.6	12	78	15	82	62	2	2	33	1.18
23238920--23239241	85	3.8	84	86	2	398	34	25	16	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23238920--23239241	84	3.8	84	86	3	400	34	25	16	23	1.95
23238920--23239239	169	1.9	167	86	2	453	35	25	16	22	1.95
23239217--23239267	26	2.0	26	92	0	84	29	29	19	21	1.98
23246579--23246879	85	3.6	84	80	4	318	33	23	17	25	1.96
23246621--23246855	43	5.5	42	71	12	147	34	23	17	23	1.96
23251454--23251504	15	3.0	17	76	15	52	76	3	0	19	0.94
23253768--23253911	28	5.2	28	77	2	123	27	31	11	29	1.91
23269204--23269255	24	2.2	24	96	0	95	26	38	5	28	1.79
23276314--23276441	28	4.6	28	80	0	132	26	31	13	28	1.94
23284107--23284138	7	4.6	7	100	0	64	31	0	12	56	1.37
23285820--23285857	3	12.7	3	100	0	76	68	0	0	31	0.90
23291729--23291771	22	1.9	23	85	4	61	48	0	4	46	1.22
23294069--23294253	19	9.2	19	77	17	153	55	12	0	31	1.41
23294069--23294251	40	4.5	40	74	17	180	56	12	0	30	1.41
23294085--23294270	101	1.9	100	93	1	318	56	12	0	30	1.41
23294069--23294150	21	4.0	21	92	7	141	56	14	0	29	1.39
23294320--23294345	12	2.2	12	100	0	52	46	15	0	38	1.46
23294423--23294454	8	4.2	8	84	15	50	0	40	0	59	0.97
23294415--23294462	14	3.4	14	91	5	71	0	37	0	62	0.95
23294580--23294638	27	2.2	27	100	0	118	15	32	22	30	1.94
23308353--23308392	2	21.5	2	80	14	50	50	0	0	50	1.00
23308392--23308416	2	12.5	2	100	0	50	52	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23308751--23308816	29	2.3	29	100	0	132	24	9	6	60	1.49
23309803--23309838	12	2.8	12	91	8	54	30	0	0	69	0.89
23309786--23309847	31	2.0	31	84	6	81	30	1	0	67	1.00
23311352--23311394	18	2.4	18	88	0	59	23	23	9	44	1.82
23312701--23312845	9	15.7	9	71	16	109	64	0	1	33	1.07
23312701--23312845	19	7.8	18	73	13	109	64	0	1	33	1.07
23312717--23312814	28	3.4	30	75	14	91	63	0	2	34	1.06
23312700--23312855	20	8.3	19	74	14	83	64	1	1	32	1.12
23313097--23313179	38	2.2	37	81	8	98	34	2	0	62	1.08
23313097--23313207	9	11.5	10	69	18	67	36	2	0	61	1.10
23313097--23313217	19	6.3	19	77	13	88	34	2	0	61	1.15
23313131--23313218	10	9.0	10	72	15	51	36	1	1	61	1.11
23314935--23314960	5	5.2	5	100	0	52	19	0	0	80	0.71
23321412--23321437	11	2.4	11	100	0	52	34	23	30	11	1.90
23324740--23324806	30	2.2	29	79	7	71	26	32	11	28	1.92
23330994--23331035	21	2.0	21	86	9	59	19	9	16	54	1.69
23338460--23338543	20	4.4	18	68	24	57	40	19	0	40	1.51
23338455--23338552	31	3.4	30	66	24	75	40	19	0	39	1.52
23338433--23338544	57	2.0	56	91	1	179	39	20	0	40	1.53
23338437--23338586	56	2.6	57	86	3	187	36	20	1	42	1.61
23339006--23339064	31	1.9	30	82	3	73	30	27	3	38	1.73
23341519--23341567	25	2.0	25	83	0	62	38	0	16	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23341963--23342090	43	3.0	43	90	3	206	52	3	20	24	1.61
23343772--23343811	18	2.2	19	86	4	55	60	0	2	37	1.11
23344534--23344575	22	1.9	22	90	0	66	28	11	7	52	1.64
23348867--23348925	29	2.0	30	90	3	93	49	13	6	30	1.68
23352037--23352069	17	1.9	17	93	0	57	15	3	3	78	0.99
23356751--23356884	68	2.0	68	86	2	189	50	5	3	41	1.43
23358431--23358466	14	2.6	14	90	0	54	72	8	5	13	1.27
23359629--23359726	49	2.0	49	95	0	178	31	19	7	41	1.78
23363605--23363646	17	2.5	17	84	3	50	26	21	11	40	1.88
23366560--23366612	22	2.3	24	77	6	56	39	16	18	24	1.91
23373181--23373209	14	2.1	14	100	0	58	20	17	6	55	1.65
23387781--23387819	17	2.2	17	86	4	51	38	0	5	56	1.22
23393739--23393772	5	6.8	5	100	0	68	17	0	0	82	0.67
23394737--23394830	47	2.0	47	85	4	127	39	13	8	38	1.76
23396983--23397124	25	5.8	25	66	12	82	18	24	22	34	1.96
23396983--23397119	73	1.9	73	84	6	188	18	24	22	34	1.96
23402679--23402757	29	2.8	27	82	16	90	22	16	21	39	1.92
23402800--23402992	29	6.7	29	82	4	169	25	17	18	38	1.93
23402846--23402992	58	2.6	56	86	4	188	22	19	19	38	1.93
23407215--23407263	16	3.1	16	93	0	89	36	6	34	22	1.79
23407245--23407346	39	2.6	40	85	6	145	33	5	29	31	1.81
23407472--23407513	15	2.7	16	82	14	52	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23407481--23407522	15	2.9	15	82	10	52	52	0	0	47	1.00
23407586--23407907	91	3.4	96	88	8	354	48	2	2	45	1.30
23407663--23407910	91	2.7	91	96	0	453	47	2	2	46	1.31
23407629--23407902	47	5.9	49	72	18	214	47	2	2	46	1.32
23410491--23410562	33	2.2	33	80	5	83	54	12	27	5	1.60
23410589--23410625	19	1.9	19	94	0	65	45	10	43	0	1.39
23412789--23412832	18	2.3	19	85	14	56	61	2	4	31	1.28
23415301--23415542	121	2.0	121	97	0	457	31	18	23	26	1.97
23425798--23425826	15	2.0	15	93	6	51	68	0	3	27	1.05
23426457--23426515	31	1.9	31	82	6	75	10	27	11	50	1.71

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