genome.fa.s2.2.7.7.80.10.50.1000.177.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  177  of  206  ( 24623 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)
53875118--53875217	49	2.0	49	86	0	137	28	25	19	28	1.98
53881893--53881920	14	2.0	14	100	0	56	57	0	0	42	0.99
53881879--53881911	10	3.3	10	95	0	57	51	0	0	48	1.00
53886390--53886489	49	2.0	49	86	0	137	28	25	19	28	1.98
53893253--53893283	10	3.1	10	100	0	62	48	0	0	51	1.00
53893302--53893386	32	2.6	33	79	5	102	44	17	10	27	1.81
53893379--53893418	20	2.0	20	85	0	53	50	10	10	30	1.69
53893367--53893433	34	1.9	35	87	3	100	46	11	8	32	1.72
53893402--53893443	14	3.0	14	82	0	57	42	16	9	30	1.80
53897694--53897793	49	2.0	49	86	0	137	28	25	19	28	1.98
53902729--53902754	2	13.0	2	100	0	52	50	0	0	50	1.00
53913775--53913827	22	2.4	22	80	0	61	18	28	1	50	1.57
53913845--53913901	25	2.3	23	82	8	60	28	5	5	61	1.39
53914472--53914507	15	2.3	16	90	4	56	25	0	2	72	0.98
53922463--53922519	3	19.0	3	100	0	114	66	0	0	33	0.92
53926548--53926648	37	2.8	37	89	1	159	37	12	21	27	1.90
53926611--53926734	46	2.8	46	91	3	200	33	16	22	28	1.95
53926742--53926875	67	2.0	67	100	0	268	34	14	20	29	1.93
53935134--53935192	19	3.1	19	87	2	73	10	25	23	40	1.86
53935151--53935232	19	4.2	19	78	10	85	8	25	25	40	1.84
53939442--53939510	30	2.3	30	90	2	104	39	7	10	43	1.66
53939696--53939735	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53944226--53944266	21	2.0	21	90	0	64	58	21	14	4	1.55
53946015--53946297	111	2.6	110	90	2	426	29	15	21	33	1.94
53947262--53947434	69	2.5	69	83	3	222	36	19	20	23	1.95
53952476--53952526	24	2.1	25	85	3	68	17	27	21	33	1.96
53952487--53952539	24	2.2	24	82	0	61	18	26	22	32	1.97
53963445--53963493	6	8.0	6	90	4	71	48	51	0	0	1.00
53963644--53963698	24	2.3	24	78	15	60	45	10	38	5	1.63
53966885--53966934	22	2.3	22	85	0	64	22	8	2	68	1.26
53968932--53968959	2	14.0	2	100	0	56	0	50	0	50	1.00
53979326--53979374	23	2.0	25	84	7	66	46	0	8	44	1.33
53979998--53980027	15	2.0	15	93	0	51	53	23	13	10	1.69
53986366--53986563	105	1.9	101	83	4	252	32	15	23	28	1.95
53986399--53986595	105	1.9	105	80	2	234	32	15	24	27	1.95
53987876--53987913	20	1.9	20	94	0	67	28	5	13	52	1.61
53988970--53989034	22	3.0	22	72	0	67	69	4	21	4	1.25
53989902--53990038	40	3.5	39	71	12	111	26	17	24	32	1.97
53991370--53991404	17	2.1	17	94	0	61	14	28	14	42	1.84
53993403--53993456	30	1.9	27	82	14	65	37	11	25	25	1.89
54002601--54002761	33	4.8	32	71	11	117	31	16	24	27	1.97
54002583--54002773	101	1.9	101	94	0	337	30	16	24	27	1.97
54005852--54005890	18	2.2	17	86	13	53	33	0	20	46	1.51
54006116--54006214	23	4.3	23	92	0	153	20	20	27	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54007926--54007971	23	2.0	23	91	4	76	26	19	2	52	1.58
54009096--54009258	43	3.8	43	80	11	192	31	27	18	22	1.97
54011129--54011163	15	2.3	15	90	0	52	25	0	14	60	1.35
54016439--54016476	20	1.9	20	94	0	67	23	7	15	52	1.69
54029778--54029810	16	2.1	16	100	0	66	24	30	18	27	1.98
54038025--54038084	20	3.1	20	79	13	63	73	0	20	6	1.05
54056805--54057066	132	2.0	132	91	0	425	23	20	17	38	1.93
54058785--54058810	2	13.0	2	100	0	52	50	0	0	50	1.00
54059911--54059957	19	2.4	20	85	3	60	42	2	8	46	1.46
54063857--54063960	51	2.1	50	92	1	172	39	2	21	36	1.68
54067882--54068121	90	2.7	90	84	3	306	25	6	14	54	1.63
54068170--54068198	15	1.9	15	100	0	58	24	6	0	68	1.13
54070419--54070471	22	2.4	22	80	0	61	11	15	47	26	1.79
54070841--54071248	51	7.1	52	74	19	248	33	6	1	58	1.36
54070825--54071248	112	3.6	116	78	11	472	33	7	1	58	1.36
54070891--54071247	62	6.0	60	80	10	376	32	6	2	58	1.37
54071092--54071134	21	2.0	22	90	4	70	27	2	2	67	1.15
54071118--54071252	64	2.1	65	91	1	218	31	8	0	60	1.31
54073864--54073899	14	2.6	14	86	13	56	66	0	2	30	1.06
54079069--54079095	7	3.9	7	100	0	54	88	0	11	0	0.50
54080018--54080051	17	1.9	18	88	5	52	47	2	0	50	1.16
54081485--54081519	2	17.5	2	87	0	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54081478--54081513	18	2.0	18	94	0	63	47	0	0	52	1.00
54081482--54081526	12	3.8	12	84	0	63	44	0	0	55	0.99
54085833--54085880	18	2.5	20	80	10	55	72	2	12	12	1.20
54086327--54086372	11	4.4	11	89	10	78	21	8	26	43	1.81
54086331--54086425	9	10.2	9	80	6	66	25	10	22	42	1.85
54086327--54086372	20	2.2	21	92	7	76	21	8	26	43	1.81
54086318--54086381	31	2.1	31	84	0	83	21	9	23	45	1.81
54091375--54091444	30	2.4	30	81	9	81	64	7	1	27	1.28
54109434--54109462	2	14.5	2	100	0	58	51	48	0	0	1.00
54115370--54115409	16	2.4	17	83	4	55	47	2	0	50	1.14
54125811--54125883	38	1.9	38	86	5	103	31	8	6	53	1.57
54127526--54127650	50	2.5	49	75	8	126	39	20	20	19	1.93
54127534--54127630	25	3.8	26	80	8	85	37	21	21	19	1.95
54130046--54130136	41	2.2	41	80	7	94	56	4	3	36	1.36
54130111--54130434	60	5.5	59	81	9	355	52	4	12	31	1.56
54130118--54130434	122	2.7	120	84	7	400	53	3	11	31	1.55
54130329--54130434	53	2.0	53	85	5	142	52	3	10	33	1.53
54131437--54131776	170	2.0	171	91	0	556	44	11	15	28	1.82
54138938--54138988	15	3.7	13	80	17	50	29	1	0	68	1.00
54144190--54144228	19	2.1	19	95	0	69	38	2	10	48	1.51
54152522--54152568	24	2.0	24	82	0	58	40	4	25	29	1.75
54152693--54152831	41	3.7	38	72	19	121	68	6	22	2	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54152678--54152827	73	2.1	73	96	0	273	68	6	21	4	1.28
54153255--54153288	17	1.9	18	88	5	52	41	0	23	35	1.55
54153604--54153637	10	3.4	10	95	0	59	2	0	47	50	1.16
54155244--54155432	27	7.1	26	78	11	179	42	21	15	20	1.88
54155227--54155434	54	3.9	54	81	4	242	43	21	14	20	1.87
54155244--54155448	81	2.5	81	78	11	231	42	20	16	20	1.89
54161314--54161381	21	3.3	22	71	17	56	45	14	22	17	1.85
54161307--54161410	42	2.5	42	84	3	129	43	17	21	18	1.88
54161329--54161393	21	3.1	21	77	0	76	44	16	21	16	1.86
54161494--54161518	11	2.3	11	100	0	50	24	24	0	52	1.48
54167263--54167338	27	2.9	26	84	5	91	34	19	6	39	1.78
54167481--54167514	17	1.9	17	88	5	50	23	23	0	52	1.47
54176412--54176678	136	2.0	135	93	1	464	35	19	5	39	1.76
54176782--54176869	21	4.2	21	69	5	61	42	17	22	18	1.89
54176725--54176845	42	2.9	42	81	4	120	39	16	25	18	1.91
54180916--54180962	23	2.0	23	87	8	67	21	17	19	42	1.89
54196522--54196575	19	3.1	18	76	10	58	62	1	0	35	1.06
54204512--54204559	20	2.4	21	80	16	57	43	0	0	56	0.99
54206045--54206208	88	1.9	88	90	0	265	15	25	26	31	1.96
54207120--54207317	105	1.9	101	85	6	272	26	24	16	32	1.96
54211813--54211858	13	3.5	13	90	0	74	26	36	19	17	1.94
54211813--54211866	26	2.1	26	86	6	74	22	37	22	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54213569--54213651	42	2.0	42	83	9	107	45	18	20	15	1.85
54213613--54213694	42	2.0	42	85	4	112	42	19	20	17	1.89
54213603--54213739	21	6.6	21	67	8	82	43	16	20	19	1.89
54221216--54221248	14	2.4	14	90	10	50	45	18	0	36	1.49
54222565--54222780	76	2.8	76	87	0	306	33	20	18	26	1.96
54235304--54235337	11	2.8	13	91	8	54	44	11	8	35	1.72
54236346--54236653	103	3.0	103	91	0	481	21	17	27	33	1.96
54241216--54241257	21	2.0	21	86	9	59	73	2	0	23	0.94
54241227--54241263	15	2.6	14	88	12	58	78	0	0	21	0.75
54241231--54241263	15	2.3	15	94	5	59	75	0	0	24	0.80

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