genome.fa.s20.2.7.7.80.10.50.1000.119.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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  ( 23844 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)
33922510--33922549	21	2.0	20	86	13	57	65	7	0	27	1.20
33922550--33922601	22	2.4	22	81	12	54	50	1	3	44	1.31
33925734--33925814	28	2.9	28	74	7	65	38	7	4	49	1.53
33936364--33936389	11	2.4	11	100	0	52	15	7	7	69	1.35
33940174--33940203	15	2.0	15	93	0	51	23	40	23	13	1.90
33945785--33945823	6	6.5	6	84	0	51	76	5	0	17	0.96
33947446--33947495	17	2.9	17	80	11	57	72	0	12	16	1.13
33947458--33947511	18	2.8	19	74	25	51	68	0	11	20	1.19
33947428--33947534	51	2.1	48	80	10	117	69	2	9	18	1.28
33951383--33951449	12	5.6	11	76	13	53	74	2	4	17	1.11
33955974--33956049	23	3.2	25	73	16	81	46	5	0	48	1.24
33955983--33956048	23	2.9	23	76	10	82	46	4	0	48	1.22
33955976--33956049	22	3.4	22	75	14	82	45	5	0	48	1.25
33959540--33959589	21	2.4	21	93	0	82	34	6	26	34	1.81
33962482--33962532	3	16.7	3	76	11	50	60	3	3	31	1.33
33964123--33964812	44	15.7	44	72	10	403	27	21	18	31	1.97
33964502--33964837	181	1.9	181	93	0	582	26	22	16	33	1.96
33965140--33965187	24	2.0	24	95	0	87	29	27	12	31	1.93
33967962--33968467	47	10.6	47	92	3	796	33	8	29	29	1.86
33967962--33968467	96	5.3	94	94	1	796	33	8	29	29	1.86
33970927--33971013	45	1.9	45	90	0	138	17	22	19	40	1.91
33971977--33972015	11	3.6	11	82	6	53	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)
33972663--33972763	52	1.9	52	95	0	184	30	26	12	29	1.93
33972943--33972994	25	2.1	25	82	10	63	63	5	9	21	1.45
33973909--33973955	19	2.5	20	86	6	62	44	10	19	25	1.82
33976133--33976178	19	2.4	20	78	10	51	63	6	2	28	1.31
33976357--33976392	16	2.3	15	90	4	54	63	0	8	27	1.23
33977997--33978049	27	2.0	27	88	0	79	24	28	13	33	1.93
33985109--33985231	28	4.4	28	90	2	176	34	27	11	26	1.91
34006248--34006277	5	6.0	5	100	0	60	60	0	40	0	0.97
34006655--34006699	16	2.8	16	96	0	81	24	0	20	55	1.43
34006772--34006804	3	11.0	3	100	0	66	33	0	0	66	0.92
34007043--34007086	14	3.3	13	87	12	63	29	2	6	61	1.34
34007032--34007086	26	2.0	28	89	6	87	30	1	9	58	1.40
34012046--34012072	14	1.9	14	100	0	54	22	14	7	55	1.64
34012220--34012259	21	1.9	21	84	0	53	35	22	10	32	1.87
34012696--34012724	13	2.1	14	93	6	51	55	0	0	44	0.99
34013156--34013238	3	27.7	3	97	0	157	0	33	0	66	0.92
34015391--34015433	21	2.0	21	82	8	52	51	20	2	25	1.60
34021314--34021354	18	2.2	19	91	4	66	41	34	4	19	1.73
34031554--34031578	12	2.1	12	100	0	50	8	8	16	68	1.38
34037607--34037894	44	6.5	43	84	3	324	30	18	18	32	1.95
34037607--34037894	88	3.3	88	86	1	380	30	18	18	32	1.95
34037607--34037894	132	2.2	133	85	0	389	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34045800--34045850	19	2.7	20	85	11	63	43	3	21	31	1.71
34045893--34045940	19	2.4	19	86	6	60	50	14	0	35	1.44
34052223--34052300	40	2.0	40	84	5	104	39	23	17	19	1.92
34052265--34052340	40	1.9	38	86	5	107	30	22	23	23	1.99
34052831--34052963	7	18.7	7	71	11	65	20	0	33	45	1.51
34052920--34052961	15	2.9	15	79	13	52	16	0	35	47	1.47
34054421--34054764	41	8.4	41	91	0	499	23	27	19	29	1.98
34057650--34057735	43	2.0	43	97	0	163	34	15	13	36	1.87
34059775--34059832	29	2.0	29	96	0	107	44	12	13	29	1.80
34061152--34061407	43	6.0	42	74	7	187	24	13	29	32	1.93
34061158--34061388	86	2.7	84	82	3	230	23	13	29	32	1.93
34061160--34061451	129	2.3	129	79	6	308	25	14	28	31	1.95
34064182--34064324	51	2.8	51	85	6	200	22	16	29	32	1.95
34064246--34064326	26	3.2	26	65	28	73	22	14	29	33	1.94
34064550--34064581	16	2.0	16	93	0	55	59	0	15	25	1.36
34067099--34067176	31	2.6	30	85	4	104	53	10	15	20	1.70
34081504--34081552	9	5.4	9	77	0	53	8	42	16	32	1.77
34083626--34083719	13	7.1	13	83	4	116	53	5	5	36	1.47
34083626--34083719	27	3.5	26	82	4	116	53	5	5	36	1.47
34083626--34083719	40	2.3	40	92	0	152	53	5	5	36	1.47
34089706--34089730	13	1.9	13	100	0	50	36	0	16	48	1.46
34092931--34093275	172	2.0	172	95	0	627	38	21	12	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34096430--34096553	43	2.9	43	80	9	135	34	28	17	19	1.95
34102407--34102448	17	2.4	17	84	11	50	66	2	2	28	1.16
34103438--34103475	19	2.0	20	89	5	60	73	7	15	2	1.17
34103603--34103657	23	2.3	25	79	20	64	3	18	7	70	1.25
34107426--34107472	23	2.0	23	84	8	60	38	2	2	57	1.23
34107491--34107522	7	4.6	7	100	0	64	12	0	0	87	0.54
34112133--34112165	14	2.3	15	94	5	59	57	0	3	39	1.14
34117876--34118061	59	3.1	59	67	22	145	50	3	3	43	1.34
34117889--34117954	16	4.5	15	71	21	50	53	0	1	45	1.09
34117780--34118105	120	2.7	119	92	1	519	47	4	3	44	1.40
34117815--34118005	61	3.2	60	71	19	198	47	6	2	43	1.42
34118009--34118248	44	5.3	43	68	22	154	49	2	2	45	1.30
34118057--34118287	47	5.0	47	70	17	207	46	3	3	46	1.36
34118014--34118287	91	3.0	91	96	1	496	48	3	2	45	1.33
34122727--34122828	53	1.9	53	95	0	186	59	13	19	6	1.56
34143978--34144016	19	2.0	21	85	10	55	69	5	10	15	1.34
34144192--34144236	23	2.0	22	91	4	72	40	17	4	37	1.70
34144189--34144268	19	4.0	19	85	10	97	40	16	7	36	1.77
34144578--34144910	174	1.9	176	84	4	451	27	21	20	30	1.98
34144624--34145089	217	2.1	219	87	3	654	27	22	20	29	1.98
34144883--34145769	84	10.3	84	67	14	270	28	23	20	28	1.99
34144706--34145692	217	4.6	214	82	7	837	27	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34144623--34145865	390	3.2	385	82	5	1393	27	22	20	28	1.99
34144878--34145260	173	2.2	173	93	1	653	27	24	20	27	1.99
34144878--34145386	173	2.9	172	85	7	554	27	23	20	28	1.99
34145786--34145903	44	2.7	43	80	16	125	26	25	19	28	1.99
34145405--34145865	171	2.7	171	86	5	585	28	22	20	28	1.98
34145786--34145903	45	2.6	45	80	16	122	26	25	19	28	1.99
34145976--34146388	132	3.1	131	91	2	659	24	23	21	30	1.99
34146026--34146342	44	7.2	44	63	14	134	25	23	20	30	1.99
34151790--34151835	23	2.0	23	95	0	83	39	15	8	36	1.78
34151824--34151879	21	2.8	19	82	10	76	37	16	8	37	1.80
34151835--34151878	21	2.1	21	100	0	88	38	13	9	38	1.77
34154702--34154727	3	8.7	3	100	0	52	65	0	0	34	0.93
34154890--34156402	531	2.8	527	84	6	1868	36	12	15	35	1.85
34156575--34156875	41	7.4	41	86	3	392	17	20	32	29	1.96
34157316--34157350	14	2.5	14	90	9	54	22	2	45	28	1.67
34157538--34157586	14	3.4	14	83	5	62	22	0	38	38	1.54
34157658--34157705	19	2.4	21	79	10	55	14	0	41	43	1.45
34161836--34161998	43	3.8	43	84	6	188	24	17	27	30	1.97
34161860--34161998	43	3.2	43	88	2	190	24	17	28	29	1.98
34162926--34165072	548	3.9	545	83	4	2636	36	11	15	35	1.84
34168820--34168959	50	2.8	51	84	7	187	25	15	30	30	1.95
34168965--34169057	46	2.1	43	82	9	107	26	17	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34172044--34172073	9	3.3	9	95	0	51	6	3	0	90	0.56
34172779--34172917	30	4.6	30	81	2	163	41	3	23	32	1.71
34172779--34172918	61	2.3	59	87	2	190	41	3	22	32	1.71
34173206--34173519	74	4.2	75	84	5	388	36	20	16	26	1.94
34173206--34173520	147	2.1	149	84	5	424	36	20	16	26	1.94
34173792--34173843	19	2.7	21	77	14	58	11	25	13	50	1.75
34195266--34195302	12	3.1	12	92	0	56	16	16	0	67	1.23
34200847--34200890	20	2.2	20	95	0	79	31	2	20	45	1.64
34205768--34205850	28	3.0	29	73	19	86	68	1	6	24	1.19
34205838--34205862	8	3.1	8	100	0	50	64	0	0	36	0.94

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