genome.fa.s13.2.7.7.80.10.50.1000.119.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  119  of  199  ( 23770 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)
36193602--36193645	21	2.1	21	86	0	61	20	34	6	38	1.79
36193531--36194240	123	5.5	123	73	12	591	28	24	17	29	1.97
36193357--36194240	261	3.4	261	88	1	1254	28	25	16	29	1.97
36193623--36194091	138	3.5	137	73	11	459	28	25	16	29	1.97
36193735--36193885	51	3.0	51	76	0	167	29	26	17	27	1.97
36193863--36193906	21	2.1	21	86	0	61	20	34	6	38	1.79
36194601--36194658	24	2.4	24	91	0	98	31	24	12	32	1.91
36214596--36214689	3	31.3	3	95	0	152	62	1	3	32	1.18
36216522--36216621	51	2.0	51	91	0	164	31	25	13	31	1.93
36216655--36217395	123	5.8	124	71	13	530	28	24	15	30	1.96
36216894--36217040	51	2.9	51	79	2	152	28	24	15	31	1.96
36216522--36217395	261	3.3	261	85	1	1126	29	24	15	30	1.96
36217574--36217622	24	2.0	24	92	0	80	32	22	10	34	1.88
36228145--36228199	3	18.3	3	100	0	110	67	0	0	32	0.91
36231939--36231991	17	3.2	17	76	10	56	45	1	5	47	1.37
36234434--36234471	3	12.7	3	100	0	76	34	31	0	34	1.58
36234470--36234510	3	13.7	3	100	0	82	65	0	0	34	0.93
36235342--36235385	19	2.3	19	88	0	61	9	20	13	56	1.64
36236013--36236150	51	2.7	51	82	0	168	27	22	18	31	1.97
36236065--36236755	123	5.4	122	73	14	501	27	24	16	31	1.96
36235886--36236771	261	3.4	261	87	1	1231	27	24	16	31	1.96
36236539--36236680	51	2.8	51	78	0	149	26	25	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36236658--36236701	21	2.1	21	86	0	61	20	34	4	40	1.73
36237135--36237196	24	2.6	24	87	2	90	32	24	8	35	1.85
36245245--36245286	18	2.3	18	100	0	84	33	28	4	33	1.78
36249853--36249901	21	2.3	21	100	0	98	14	53	10	22	1.71
36253152--36253249	43	2.2	44	90	1	162	27	16	25	30	1.96
36260927--36261024	40	2.5	40	93	0	169	26	16	21	35	1.94
36269938--36270220	139	2.0	139	94	0	494	50	7	24	17	1.70
36275200--36275240	3	13.7	3	94	0	64	60	0	4	34	1.18
36276063--36276104	19	2.2	19	86	0	57	7	16	16	59	1.58
36276528--36276628	51	2.0	51	86	3	141	28	21	17	31	1.96
36276645--36276786	51	2.8	51	81	0	158	28	24	16	30	1.96
36276764--36276807	21	2.1	21	91	0	70	20	31	6	40	1.79
36276243--36276877	261	2.4	260	88	1	930	28	24	15	31	1.96
36277243--36277298	24	2.3	24	93	0	94	32	21	10	35	1.88
36278264--36278353	46	2.0	46	82	6	112	12	23	18	45	1.83
36294040--36294138	43	2.3	44	87	1	146	26	18	25	30	1.98
36298037--36298145	57	1.9	57	83	7	141	38	24	15	21	1.92
36302004--36302098	40	2.4	40	90	0	154	28	15	22	33	1.95
36312870--36312922	17	3.2	17	76	10	56	45	1	5	47	1.37
36315391--36315425	3	11.7	3	100	0	70	34	0	31	34	1.58
36315424--36315480	3	19.0	3	100	0	114	66	0	0	33	0.92
36316478--36316578	51	2.0	51	86	0	139	28	24	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36316590--36316727	51	2.7	51	80	0	159	28	21	18	31	1.97
36317000--36317100	51	2.0	51	86	0	139	26	22	17	32	1.97
36317024--36317182	87	1.8	87	83	0	210	27	23	20	28	1.99
36317112--36317258	51	2.9	51	82	0	186	26	25	18	29	1.98
36317236--36317279	21	2.1	21	91	0	70	20	31	6	40	1.79
36317713--36317770	24	2.4	24	91	0	89	32	24	8	34	1.86
36334787--36334885	43	2.3	44	87	1	146	28	14	25	32	1.94
36342667--36342764	40	2.5	40	93	0	160	27	17	21	33	1.96
36354343--36354384	19	2.2	19	86	0	57	4	16	21	57	1.58
36355010--36355151	51	2.8	51	81	2	142	28	23	18	28	1.98
36355036--36355765	123	5.7	122	73	12	552	28	24	16	30	1.96
36354893--36355773	261	3.4	260	86	1	1215	28	24	16	30	1.96
36355184--36355754	138	4.4	135	74	10	476	28	24	15	30	1.96
36355541--36355682	51	2.8	51	79	0	158	27	25	16	30	1.97
36355613--36355754	72	2.0	72	84	0	185	27	27	15	29	1.96
36356136--36356193	24	2.4	24	94	0	98	31	24	10	34	1.89
36359739--36359800	3	20.7	3	93	0	61	56	4	6	32	1.46
36366322--36366440	3	39.7	3	96	0	157	59	2	5	32	1.32
36367229--36367274	19	2.4	19	85	0	65	4	17	21	56	1.58
36367784--36367888	51	2.1	51	90	0	165	27	24	15	32	1.95
36367973--36368109	72	1.9	72	81	3	168	28	23	13	35	1.92
36367953--36368413	123	3.6	123	73	11	388	28	22	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36367773--36368559	261	3.0	261	85	0	1056	28	23	16	31	1.96
36368075--36368559	138	3.6	136	74	11	464	28	23	17	31	1.96
36368334--36368492	87	1.8	87	84	0	219	28	22	20	28	1.99
36368432--36368624	51	3.8	51	81	0	224	29	26	14	29	1.95
36368427--36368619	102	1.9	102	89	0	296	29	25	15	30	1.96
36368418--36368638	102	2.2	102	82	3	291	31	24	17	26	1.97
36369001--36369058	24	2.4	24	91	0	98	32	22	8	36	1.85
36379547--36379639	40	2.3	40	88	3	143	24	15	21	38	1.92
36384783--36384815	17	2.0	17	88	5	50	54	21	3	21	1.58
36388427--36388460	17	1.9	18	88	5	52	67	20	5	5	1.33
36395787--36395819	11	3.1	11	91	4	50	42	0	0	57	0.98
36398052--36398134	28	2.9	29	74	3	78	37	25	14	22	1.92
36400881--36401163	139	2.0	139	94	0	494	50	7	24	17	1.70
36409335--36409395	18	3.4	17	72	28	54	42	24	9	22	1.84
36409335--36409411	15	4.4	16	72	24	50	41	23	10	24	1.85
36409333--36409405	37	2.0	37	91	0	119	42	26	9	21	1.83
36415141--36415176	15	2.5	14	86	8	54	44	8	0	47	1.33
36420509--36420548	20	2.0	20	100	0	80	15	20	35	30	1.93
36421676--36421734	7	8.8	6	82	17	64	20	1	0	77	0.85
36421677--36421734	13	4.2	13	87	10	80	18	1	0	79	0.82
36421698--36421733	4	9.8	4	82	17	51	22	0	0	77	0.76
36431124--36431197	36	2.1	36	100	0	148	27	27	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36432755--36432925	27	6.4	27	87	3	213	18	17	20	43	1.88
36432755--36432925	80	2.1	80	86	2	236	18	17	20	43	1.88
36432755--36432925	53	3.2	53	88	5	256	18	17	20	43	1.88
36443073--36443257	41	4.5	41	81	5	194	22	21	28	27	1.99
36443070--36443256	82	2.3	81	80	6	214	23	21	28	26	1.99
36443306--36443475	41	4.1	41	88	4	218	21	17	30	31	1.96
36443306--36443475	81	2.1	83	84	4	220	21	17	30	31	1.96
36446564--36446638	22	3.4	22	96	0	132	33	13	24	29	1.93
36447110--36447303	87	2.2	87	90	0	298	38	17	31	12	1.88
36448282--36448324	21	2.0	21	86	0	59	18	55	11	13	1.68
36465310--36465460	43	3.5	42	78	11	155	25	17	27	29	1.98
36468902--36468955	18	2.9	18	86	2	72	40	46	1	11	1.50
36469736--36469809	36	2.0	37	97	2	141	37	13	13	35	1.84
36474950--36475169	26	8.5	26	83	1	217	19	11	26	43	1.84
36498271--36498367	17	5.7	17	68	22	60	39	2	5	53	1.35
36498341--36498457	62	1.9	59	89	5	180	41	5	4	48	1.45
36501911--36501960	13	3.6	14	81	10	59	72	0	4	24	1.02
36501920--36501960	19	2.2	19	86	8	57	73	0	4	21	1.02
36502912--36502961	2	26.5	2	76	11	52	52	0	0	48	1.00
36502900--36502933	16	2.1	16	89	10	52	50	0	0	50	1.00
36502891--36502962	37	1.9	37	86	5	101	54	0	0	45	0.99
36502905--36502973	31	2.2	30	82	10	77	53	2	0	43	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36503856--36503964	39	2.8	39	92	1	175	52	25	2	19	1.59
36504086--36504160	37	2.0	37	92	0	105	40	4	10	45	1.58
36507664--36507738	10	7.9	9	72	19	55	36	1	2	60	1.20
36511224--36511506	106	2.7	108	81	3	306	37	20	10	31	1.86
36524012--36524057	21	2.2	21	92	0	74	23	19	4	52	1.64
36530673--36530710	16	2.2	18	86	9	53	50	2	21	26	1.62
36532877--36532991	57	2.0	57	100	0	230	42	5	15	36	1.70
36537502--36537551	19	2.7	18	82	14	57	24	2	6	68	1.23
36539472--36539642	54	3.2	53	74	18	192	51	4	8	35	1.52
36539470--36539686	106	2.0	106	98	0	416	51	4	8	35	1.52

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