genome.fa.s13.2.7.7.80.10.50.1000.155.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  155  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)
46368074--46368125	24	2.2	24	100	0	104	61	5	7	25	1.45
46369769--46369814	23	2.0	23	87	4	67	63	2	0	34	1.07
46374070--46374111	17	2.5	18	85	11	54	23	2	11	61	1.42
46374659--46374856	97	2.1	94	88	4	290	32	39	5	22	1.77
46376164--46376192	2	14.5	2	100	0	58	0	48	0	51	1.00
46389863--46390035	88	2.0	88	95	0	310	38	11	17	32	1.86
46393106--46393169	31	2.1	31	87	0	92	28	14	18	39	1.90
46393137--46393288	44	3.5	44	92	0	252	30	23	15	30	1.95
46394944--46395021	29	2.7	29	77	0	84	19	24	16	39	1.91
46395987--46396065	3	26.3	3	100	0	158	67	0	0	32	0.91
46398329--46398364	16	2.2	16	90	0	54	63	2	0	33	1.08
46400553--46400591	19	2.1	19	90	0	60	51	0	0	48	1.00
46405787--46405815	3	9.7	3	100	0	58	68	0	0	31	0.89
46406373--46406402	14	2.1	14	93	0	51	80	0	3	16	0.85
46407426--46407482	18	3.3	18	70	25	52	40	1	0	57	1.09
46408593--46408623	14	2.1	15	94	5	55	6	3	6	83	0.88
46421946--46421975	14	2.1	14	93	0	51	40	3	26	30	1.72
46423600--46423635	2	18.0	2	94	0	63	47	0	0	52	1.00
46425147--46425210	29	2.1	29	88	5	92	70	12	1	15	1.24
46433123--46433243	30	4.0	30	80	0	134	30	14	20	33	1.93
46437118--46437221	3	34.7	3	98	0	118	67	9	0	23	1.20
46438397--46438439	20	2.3	19	92	8	70	13	0	23	62	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46438704--46441022	143	16.2	142	80	7	2135	28	21	19	30	1.98
46438884--46439014	54	2.4	54	87	0	190	29	22	14	32	1.94
46439108--46439280	54	3.3	55	68	14	166	30	19	20	30	1.97
46438741--46439156	197	2.1	197	87	0	609	28	22	18	31	1.97
46439067--46439276	103	2.0	103	93	0	357	30	19	20	30	1.97
46438933--46439419	246	2.0	246	87	1	708	30	20	19	30	1.97
46440226--46440356	44	3.0	44	76	5	131	26	23	21	28	1.99
46443054--46443183	43	3.0	43	78	8	147	21	15	30	32	1.94
46445023--46445071	5	10.0	5	86	8	66	0	14	2	83	0.73
46445025--46445073	15	3.4	14	86	13	73	0	12	2	85	0.68
46450275--46450318	3	14.7	3	100	0	88	68	0	0	31	0.90
46455688--46455739	26	2.0	26	100	0	104	15	19	11	53	1.71
46463137--46463545	202	2.0	202	96	0	755	27	20	19	32	1.97
46476711--46476817	11	10.4	11	72	23	56	58	0	3	37	1.16
46476678--46476833	39	3.8	39	86	9	206	62	0	3	34	1.12
46476720--46476788	18	3.7	17	70	19	57	59	0	1	39	1.06
46485086--46485223	59	2.3	61	81	6	156	39	5	10	43	1.64
46495459--46495484	7	3.7	7	100	0	52	42	0	0	57	0.98
46499172--46499643	92	5.1	92	99	0	928	40	6	4	48	1.50
46499745--46500039	9	34.0	9	69	13	145	46	19	3	30	1.67
46499756--46499826	37	1.9	37	100	0	142	50	16	2	29	1.60
46499733--46499873	55	2.6	55	88	0	210	49	17	4	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46499858--46499979	16	8.0	16	68	20	82	45	18	5	29	1.73
46499878--46499925	25	1.9	25	86	0	69	43	25	4	27	1.72
46505627--46505773	66	2.2	66	84	4	181	40	16	29	14	1.88
46505744--46505788	21	2.1	21	91	0	72	37	17	42	2	1.62
46505752--46505852	21	4.8	21	82	0	67	35	18	41	3	1.69
46506207--46506458	86	2.9	87	88	2	366	22	17	31	28	1.96
46506207--46506565	43	8.3	43	74	4	267	21	19	30	28	1.97
46506207--46506458	87	2.9	86	88	2	362	22	17	31	28	1.96
46506656--46506699	21	2.1	21	95	0	79	38	29	20	11	1.87
46506799--46506869	22	3.3	22	78	4	90	56	5	0	38	1.23
46509569--46509613	22	2.0	22	100	0	90	37	31	8	22	1.85
46510645--46510686	21	2.0	21	81	9	50	33	4	0	61	1.17
46510755--46510823	29	2.4	29	76	9	70	28	2	2	65	1.22
46510954--46511036	35	2.4	35	93	0	139	43	2	18	36	1.63
46521758--46521805	25	1.9	25	82	0	60	52	0	2	45	1.12
46523780--46523839	29	2.1	29	100	0	120	23	13	16	46	1.82
46529475--46529513	19	2.1	19	85	0	51	64	2	5	28	1.28
46529723--46529781	29	2.0	30	83	6	77	40	1	13	44	1.54
46535043--46535101	29	2.0	29	83	6	73	38	3	6	50	1.45
46537731--46537976	35	7.0	35	80	3	264	34	33	4	26	1.78
46537731--46537976	105	2.3	105	85	2	316	34	33	4	26	1.78
46548254--46548283	4	7.5	4	100	0	60	0	23	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46550166--46550205	19	2.1	19	90	0	62	15	10	12	62	1.54
46552009--46552053	17	2.6	18	80	16	51	33	2	0	64	1.06
46553555--46553622	25	2.6	27	88	9	104	38	10	1	50	1.46
46553964--46554004	3	13.7	3	100	0	82	0	0	31	68	0.90
46554108--46554199	44	2.1	44	100	0	184	42	7	8	41	1.64
46554890--46554924	18	1.9	18	100	0	70	34	2	40	22	1.69
46554889--46554927	18	2.4	16	84	16	53	30	2	43	23	1.67
46557203--46557231	6	4.8	6	100	0	58	17	17	17	48	1.82
46557231--46557257	11	2.5	11	100	0	54	40	14	7	37	1.74
46557541--46557611	35	2.0	35	94	0	124	38	9	29	22	1.86
46560365--46560440	26	2.9	26	67	21	68	52	10	5	31	1.58
46560455--46560488	17	1.9	18	88	5	52	67	2	0	29	1.05
46560496--46560543	10	4.7	10	74	5	51	0	25	0	75	0.81
46560496--46560558	31	2.1	29	85	11	83	0	26	0	73	0.84
46560515--46560661	41	3.6	41	74	15	124	0	30	0	69	0.89
46560555--46560688	10	14.5	10	68	24	50	0	32	0	67	0.91
46560504--46560687	36	5.1	36	78	13	166	0	31	0	68	0.90
46560561--46560658	14	6.6	14	71	15	81	0	30	0	69	0.89
46560562--46560692	4	33.0	4	73	21	73	0	32	0	67	0.91
46560543--46560680	18	7.5	18	67	19	72	0	33	0	66	0.92
46560552--46560691	75	2.0	68	88	9	208	0	32	0	67	0.91
46560851--46560897	23	2.0	23	87	8	67	55	0	10	34	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46560851--46560897	24	1.9	25	86	4	69	55	0	10	34	1.35
46565481--46565574	44	2.1	44	100	0	188	37	13	6	42	1.70
46565499--46565569	22	3.2	22	63	21	58	42	12	7	38	1.70
46565553--46565596	22	2.0	22	86	4	63	43	11	4	40	1.61
46566185--46566209	13	1.9	13	100	0	50	40	28	8	24	1.83
46568952--46569009	25	2.4	25	80	5	66	53	5	1	39	1.33
46571974--46572069	48	2.0	48	93	0	165	38	8	21	31	1.83
46575803--46575842	21	1.9	21	89	0	62	55	0	7	37	1.29
46576987--46577044	21	2.6	22	83	5	73	34	15	5	44	1.69
46580949--46580975	13	2.1	13	100	0	54	14	7	7	70	1.32
46585978--46586029	26	2.0	26	96	0	95	23	19	9	48	1.78
46586358--46586406	25	2.0	26	84	11	68	36	10	8	44	1.68
46592646--46592775	64	2.0	64	84	0	170	23	19	23	33	1.97
46592750--46592827	26	3.1	25	75	18	65	19	20	23	37	1.95
46600670--46600713	22	2.0	22	86	8	63	31	9	2	56	1.43
46601046--46601363	107	3.0	107	87	0	456	31	19	17	32	1.95
46606994--46607124	45	2.9	45	77	6	140	27	25	24	22	2.00
46606994--46607158	45	3.7	45	75	6	129	26	24	24	24	2.00
46607120--46607685	95	6.0	95	94	0	956	28	17	23	30	1.97
46607596--46607951	132	2.7	132	93	0	595	32	17	23	26	1.97
46607665--46607851	44	4.2	44	65	10	121	35	16	21	26	1.94
46609844--46610155	106	2.9	105	90	0	489	31	19	17	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46610882--46610950	31	2.3	30	82	12	79	34	8	8	47	1.65
46611156--46611180	7	3.6	7	100	0	50	28	12	16	44	1.83
46614823--46615050	126	1.8	126	97	0	429	28	17	22	32	1.96
46618082--46618321	116	2.1	116	95	0	426	43	10	7	38	1.67
46618315--46618669	22	15.2	22	73	24	145	28	0	26	44	1.57
46618347--46618589	21	10.5	22	72	20	101	26	0	28	44	1.55
46618389--46618544	29	5.2	29	71	13	136	27	0	28	44	1.55
46618326--46618640	94	3.3	95	94	2	555	27	0	27	44	1.54
46618486--46618544	28	2.1	29	96	3	111	28	0	27	44	1.55
46618537--46618596	21	2.9	21	95	5	104	26	0	25	48	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