genome.fa.s14.2.7.7.80.10.50.1000.45.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   
          209   210   211   212   213   

This is table  45  of  213  ( 25468 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)
12095268--12095317	24	2.2	23	89	7	75	34	4	6	56	1.43
12099243--12099272	16	1.9	15	93	6	51	63	0	0	36	0.95
12099298--12099322	13	1.9	13	100	0	50	56	4	0	40	1.18
12100210--12100245	18	2.0	18	94	0	63	41	0	5	52	1.24
12105701--12105735	15	2.2	16	90	5	54	77	0	8	14	0.99
12109342--12109396	27	2.0	27	100	0	110	41	14	29	14	1.85
12125144--12125438	91	3.3	91	84	3	339	30	25	16	27	1.97
12130771--12130796	13	2.0	13	100	0	52	38	15	7	38	1.76
12137723--12137747	5	5.0	5	100	0	50	40	60	0	0	0.97
12138993--12139019	6	4.5	6	100	0	54	85	0	0	14	0.61
12145839--12145865	12	2.2	12	100	0	54	0	18	0	81	0.69
12146158--12146190	5	6.4	5	93	6	57	21	0	0	78	0.75
12146158--12146220	15	4.1	16	76	15	62	20	1	1	76	0.96
12146158--12146217	20	3.0	20	79	18	63	20	1	1	76	0.96
12145941--12147378	726	2.0	732	92	2	2379	19	22	10	47	1.79
12148232--12148279	6	7.8	6	86	4	69	16	0	4	79	0.89
12148223--12148263	7	6.0	7	86	11	50	17	0	2	80	0.82
12148223--12148272	19	2.5	19	90	6	73	18	0	4	78	0.91
12148223--12148280	25	2.2	27	84	9	84	17	0	6	75	1.01
12158651--12158704	16	3.4	16	89	0	54	35	31	0	33	1.58
12162366--12162524	41	3.9	41	85	6	214	27	22	29	20	1.98
12162351--12162565	41	5.2	41	83	5	202	29	20	27	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12169394--12169418	12	2.1	12	100	0	50	44	16	8	32	1.76
12176204--12176441	41	5.8	41	79	3	219	18	18	26	36	1.94
12176202--12176439	82	2.9	82	78	3	273	18	18	26	36	1.93
12184409--12184433	13	1.9	13	100	0	50	72	4	0	24	1.02
12184743--12184774	2	16.0	2	100	0	64	0	50	0	50	1.00
12196447--12196495	24	2.0	25	92	4	82	46	6	4	42	1.47
12203822--12203879	28	2.2	26	81	12	64	36	1	5	56	1.32
12208131--12208167	6	6.2	6	90	0	56	0	59	0	40	0.97
12208131--12208167	18	2.1	18	100	0	74	0	59	0	40	0.97
12208227--12208276	25	2.0	25	92	0	82	4	36	4	56	1.37
12211154--12211209	21	2.6	22	91	5	89	28	32	8	30	1.88
12223623--12223843	111	2.0	111	90	0	352	33	17	16	32	1.92
12225996--12226205	44	4.8	44	84	3	280	25	25	19	30	1.98
12225996--12226209	87	2.4	87	88	2	313	25	24	19	30	1.98
12238083--12238303	111	2.0	111	93	1	381	32	16	17	33	1.92
12240128--12240178	27	1.9	26	88	4	75	17	0	11	70	1.16
12248228--12248264	19	2.0	18	89	5	56	54	0	18	27	1.44
12248261--12248293	5	6.6	5	92	0	57	24	0	39	36	1.56
12255198--12255316	43	2.7	42	78	6	139	28	27	17	26	1.98
12255787--12255873	17	5.1	17	70	13	61	49	12	11	26	1.75
12255793--12255902	34	3.2	34	78	7	114	45	12	11	30	1.78
12256522--12256584	17	3.6	17	80	2	63	1	19	0	79	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12256516--12256605	29	2.9	29	77	15	92	2	20	0	77	0.87
12256530--12256607	38	2.1	38	82	4	95	2	16	0	80	0.82
12256513--12256606	17	5.4	17	72	17	59	2	19	0	78	0.85
12256757--12256794	10	3.8	10	83	13	51	0	0	13	86	0.56
12256759--12256797	19	2.1	18	90	4	60	0	0	15	84	0.62
12256804--12256828	6	4.2	6	100	0	50	0	0	48	52	1.00
12256824--12256865	12	3.5	12	96	0	75	0	21	59	19	1.38
12256885--12256915	14	2.3	13	94	5	53	12	0	0	87	0.55
12256915--12256953	3	12.3	3	89	10	60	0	30	0	69	0.89
12256914--12256953	10	4.1	10	81	18	57	0	30	0	70	0.88
12256918--12256951	7	5.1	7	92	7	54	0	29	0	70	0.87
12257016--12257074	20	2.8	21	76	21	61	0	38	0	61	0.96
12257019--12257072	18	2.8	21	81	13	62	0	38	0	61	0.96
12257025--12257074	11	4.4	11	77	7	55	0	36	0	64	0.94
12257299--12257451	29	5.2	30	87	3	213	39	4	22	33	1.74
12257310--12257452	59	2.4	58	92	1	232	39	4	21	34	1.73
12257444--12257479	17	2.1	18	89	5	56	13	0	8	77	0.98
12258422--12258478	28	2.0	28	90	6	89	38	5	0	56	1.22
12260187--12260275	45	2.0	46	80	10	103	33	12	25	28	1.92
12260298--12260355	24	2.4	24	88	0	89	36	8	22	32	1.85
12260896--12261294	44	8.8	44	75	11	297	29	19	22	28	1.98
12260805--12261395	230	2.6	230	91	0	950	29	18	22	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12261790--12261860	32	2.2	32	82	12	83	38	4	4	53	1.40
12262368--12262502	71	1.9	71	90	3	218	30	17	19	32	1.95
12266873--12266988	25	4.6	25	87	0	151	18	27	20	32	1.97
12266881--12266979	50	2.0	50	93	0	171	18	28	19	34	1.95
12271660--12271702	22	1.9	23	86	13	63	9	6	6	76	1.15
12274235--12274278	21	2.0	22	83	12	56	38	2	11	47	1.52
12275034--12275405	43	8.7	43	89	4	495	22	18	28	30	1.97
12278470--12278499	16	1.9	15	93	6	51	30	13	3	53	1.56
12280682--12280832	69	2.2	69	83	2	187	39	5	16	38	1.73
12282586--12282650	22	3.0	22	85	14	91	24	30	0	44	1.54
12282587--12282653	11	6.2	10	85	11	80	25	29	0	44	1.54
12282590--12282662	33	2.2	33	80	9	87	28	27	0	43	1.55
12282592--12282662	22	3.2	22	70	7	56	29	26	0	43	1.55
12282650--12282713	28	2.4	28	84	5	78	39	3	1	56	1.25
12283828--12283866	7	5.6	7	96	0	69	28	0	17	53	1.44
12285082--12285200	61	2.0	61	84	0	157	29	10	8	52	1.64
12288254--12288672	126	3.3	126	91	0	658	28	20	18	32	1.96
12288711--12288888	96	1.9	95	84	5	243	44	16	2	37	1.60
12296638--12296812	90	1.9	90	82	0	215	27	20	16	35	1.94
12301758--12302130	105	3.6	105	94	1	624	19	20	29	30	1.97
12308869--12309241	105	3.6	105	94	1	624	19	20	29	30	1.97
12311373--12311405	7	4.7	7	96	0	57	9	57	3	30	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12320708--12320836	45	2.9	45	85	0	177	25	19	14	40	1.90
12322184--12322225	22	1.9	22	85	9	59	21	7	4	66	1.35
12328926--12328959	17	2.1	17	94	5	61	41	0	0	58	0.98
12332819--12332851	16	1.9	17	88	11	50	42	0	30	27	1.56
12332942--12333002	31	1.9	32	83	3	79	42	0	37	19	1.52
12334323--12334364	19	2.3	19	79	4	50	57	0	7	35	1.26
12334946--12334997	27	1.9	27	100	0	104	51	9	11	26	1.68
12341301--12341338	19	2.0	19	89	0	58	23	44	0	31	1.54
12347321--12347517	10	20.6	9	68	15	67	31	4	3	60	1.30
12347456--12347498	18	2.4	18	76	0	50	30	0	0	69	0.88
12348207--12348262	17	3.3	17	75	5	51	60	1	3	33	1.24
12349375--12349433	31	1.9	31	86	6	84	5	27	16	50	1.66
12351162--12351220	23	2.6	22	86	13	84	16	8	22	52	1.70
12352029--12352092	31	2.1	31	96	0	119	32	17	0	50	1.46
12352116--12352204	37	2.4	37	94	0	151	42	13	6	37	1.71
12352419--12352484	33	2.0	33	100	0	132	42	15	6	36	1.71
12355500--12355707	91	2.3	91	92	0	335	45	3	4	46	1.39
12355622--12355682	28	2.2	28	85	5	81	45	0	3	50	1.17
12355540--12355726	47	4.1	43	71	18	121	45	2	3	48	1.34
12355574--12355726	47	3.3	45	71	18	136	45	2	4	47	1.37
12355761--12356079	66	5.2	64	67	20	250	41	2	6	49	1.44
12355723--12356140	120	3.5	120	94	1	721	41	2	5	49	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12355796--12356103	61	5.1	61	67	19	241	41	1	7	49	1.42
12355968--12356019	15	3.6	15	80	12	56	44	0	1	53	1.11
12355797--12356100	59	5.1	59	65	21	202	41	1	7	49	1.42
12356097--12356138	15	2.7	16	82	14	52	45	0	2	52	1.13
12356088--12356129	15	2.9	15	82	10	52	47	0	0	52	1.00
12358087--12358146	29	2.1	28	81	6	68	45	18	11	25	1.83
12358283--12358316	10	3.4	10	83	0	50	70	5	0	23	1.09
12358302--12358376	29	2.6	28	85	8	105	54	6	5	33	1.49
12358622--12358660	19	2.2	17	86	9	51	58	2	0	38	1.12
12358829--12359063	19	11.9	19	65	21	69	27	3	5	63	1.33

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   
          209   210   211   212   213