genome.fa.s17.2.7.7.80.10.50.1000.105.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  105  of  185  ( 22116 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)
33255023--33255089	29	2.4	28	78	9	75	65	0	19	14	1.27
33255044--33255102	29	2.1	28	81	9	66	61	0	18	20	1.35
33257143--33257194	27	1.9	27	92	0	86	42	15	21	21	1.89
33261267--33261311	20	2.2	20	84	7	56	77	4	11	6	1.09
33274295--33274348	28	2.0	28	88	3	83	85	1	0	12	0.69
33290521--33290833	40	7.8	40	91	2	457	25	22	29	23	1.99
33290521--33290833	82	3.9	79	89	4	448	25	22	29	23	1.99
33302464--33302751	47	6.2	47	90	2	422	27	30	9	32	1.88
33302620--33302862	123	2.0	123	94	0	423	27	30	8	32	1.87
33302714--33302781	29	2.3	30	92	5	111	23	32	10	33	1.88
33302667--33302815	76	2.0	76	95	0	271	26	31	8	32	1.87
33302743--33302870	47	2.7	47	95	0	229	28	32	8	31	1.87
33304439--33304577	40	3.5	38	75	11	127	24	26	23	25	2.00
33304881--33304959	29	2.7	29	86	5	106	27	32	15	24	1.95
33304941--33305086	43	3.4	43	100	0	292	26	35	15	22	1.94
33307166--33307480	47	7.3	40	70	22	139	28	30	8	31	1.87
33307098--33307386	47	6.2	47	91	1	431	27	30	9	32	1.88
33307098--33307386	140	2.1	140	88	1	429	27	30	9	32	1.88
33307255--33307497	123	2.0	123	94	0	423	27	30	8	32	1.87
33307349--33307416	29	2.3	30	92	5	111	23	32	10	33	1.88
33307302--33307450	76	2.0	76	95	0	271	26	31	8	32	1.87
33307378--33307505	47	2.7	47	95	0	229	28	32	8	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33309074--33309212	40	3.5	38	75	11	127	24	26	23	25	2.00
33309515--33309590	28	2.6	29	85	4	100	27	32	15	23	1.95
33309574--33309714	43	3.4	43	95	4	247	26	34	15	22	1.94
33311795--33312109	47	7.3	40	70	22	139	28	30	8	31	1.87
33311727--33312015	47	6.2	47	91	1	431	27	30	9	32	1.88
33311727--33312015	140	2.1	140	88	1	429	27	30	9	32	1.88
33311884--33312126	123	2.0	123	94	0	423	27	30	8	32	1.87
33311978--33312045	29	2.3	30	92	5	111	23	32	10	33	1.88
33311931--33312079	76	2.0	76	95	0	271	26	31	8	32	1.87
33312007--33312134	47	2.7	47	95	0	229	28	32	8	31	1.87
33315469--33315574	40	2.6	40	80	5	108	23	25	21	29	1.99
33315910--33315988	29	2.7	29	86	5	106	27	32	15	24	1.95
33315970--33316072	43	2.4	43	100	0	206	26	35	15	22	1.94
33318082--33318369	47	6.2	47	91	2	431	27	30	9	32	1.88
33318082--33318369	93	3.1	94	90	2	431	27	30	9	32	1.88
33318285--33318433	76	2.0	76	95	0	271	26	31	8	32	1.87
33318238--33318480	123	2.0	123	94	0	423	27	30	8	32	1.87
33318332--33318399	29	2.3	30	92	5	111	23	32	10	33	1.88
33318361--33318488	47	2.7	47	95	0	229	28	32	8	31	1.87
33321829--33321934	40	2.6	40	80	5	108	23	25	21	29	1.99
33322270--33322348	29	2.7	29	86	5	106	27	32	15	24	1.95
33322330--33322432	43	2.4	43	100	0	206	26	35	15	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33324441--33324864	47	9.1	47	92	1	647	28	31	8	31	1.88
33324729--33324800	23	3.2	23	64	18	60	31	33	4	30	1.77
33328669--33328770	21	5.0	21	71	4	91	46	11	6	35	1.67
33329182--33329215	13	2.6	13	85	0	50	32	20	20	26	1.97
33336219--33336258	10	3.8	10	81	12	53	57	5	0	37	1.21
33336270--33336313	18	2.4	19	85	14	65	36	0	0	63	0.95
33339279--33339562	41	6.8	40	81	9	293	21	16	26	35	1.94
33339280--33339515	83	2.8	84	94	0	402	21	16	26	36	1.94
33343724--33343830	31	3.4	31	70	20	105	43	16	9	29	1.79
33343705--33343835	64	2.0	64	100	0	262	41	16	10	32	1.82
33361930--33362085	82	1.9	82	97	0	294	32	20	12	34	1.90
33362537--33362561	12	2.1	12	100	0	50	52	16	8	24	1.70
33363482--33363685	40	5.1	39	78	7	196	23	26	16	33	1.95
33363483--33363685	80	2.5	79	81	2	244	23	27	16	33	1.95
33364396--33364559	42	3.9	42	92	0	265	33	25	21	20	1.97
33364387--33364586	84	2.3	85	87	3	276	34	26	19	20	1.96
33364394--33364595	42	4.8	43	88	1	230	33	26	19	19	1.96
33364524--33364644	43	2.8	42	82	8	138	31	32	16	19	1.94
33368796--33369292	147	3.4	148	96	1	903	32	15	16	36	1.90
33369899--33369969	14	4.9	14	73	14	56	35	40	0	23	1.55
33369924--33369962	7	5.4	7	81	6	51	35	46	0	17	1.49
33369925--33369986	22	2.9	22	80	2	63	38	43	0	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33369981--33370018	14	2.7	15	80	12	53	42	28	0	28	1.56
33370280--33370310	7	4.4	7	91	0	53	41	29	0	29	1.56
33370488--33370628	71	2.0	72	88	1	212	24	25	18	31	1.98
33370537--33371088	114	4.9	114	91	0	842	25	27	20	26	1.99
33379466--33379496	13	2.4	13	100	0	62	41	19	6	32	1.77
33384157--33384368	40	5.3	40	86	5	243	25	20	27	25	1.99
33392132--33392341	40	5.3	40	88	5	232	25	20	27	25	1.99
33392080--33392376	80	3.7	80	81	6	230	26	20	27	24	1.99
33394107--33394194	44	2.0	44	84	4	115	38	9	19	32	1.83
33398648--33398755	35	3.2	33	70	18	98	30	3	0	64	1.17
33398670--33398725	27	2.1	26	83	12	69	30	1	0	67	1.01
33398612--33398819	33	6.5	32	70	14	106	26	4	1	67	1.20
33398620--33398803	22	8.4	22	66	18	73	26	4	1	67	1.19
33398580--33398841	32	8.4	31	68	22	113	28	4	2	64	1.27
33398579--33398797	65	3.4	65	89	2	350	27	5	2	64	1.27
33398750--33398807	23	2.5	24	81	10	68	20	5	1	72	1.13
33398633--33398820	30	5.9	30	74	14	162	26	4	1	67	1.17
33398707--33398878	89	2.0	87	84	9	224	27	6	2	63	1.30
33400938--33401458	125	4.2	124	88	2	735	32	22	17	28	1.96
33402200--33402258	30	2.0	30	83	6	75	37	8	10	44	1.69
33402397--33402475	29	2.7	30	80	9	83	49	12	3	34	1.59
33402401--33402475	30	2.5	29	80	8	80	48	13	4	34	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33417512--33417774	40	6.6	40	88	3	325	25	20	27	26	1.99
33425533--33425756	40	5.6	39	85	5	202	26	20	27	25	1.99
33425539--33425706	80	2.1	80	87	2	239	26	22	27	24	2.00
33425486--33425748	120	2.2	120	82	4	309	25	21	27	25	1.99
33425487--33425783	80	3.7	80	81	6	221	26	21	27	24	1.99
33430616--33430641	7	3.7	7	100	0	52	23	0	0	76	0.78
33432645--33432697	18	2.9	18	77	8	54	60	0	1	37	1.08
33432788--33432827	20	2.0	20	90	0	62	50	12	10	27	1.72
33439138--33439171	17	1.9	18	88	5	52	64	0	20	14	1.28
33439115--33439245	52	2.5	52	86	2	183	56	6	12	23	1.61
33455657--33455698	22	1.9	23	90	9	70	30	0	2	66	1.04
33458130--33458212	21	4.0	21	89	9	125	55	1	0	43	1.07
33458145--33458213	7	10.2	6	93	6	66	53	1	0	44	1.09
33458130--33458212	14	5.9	14	88	9	125	55	1	0	43	1.07
33458226--33458272	14	3.5	13	77	13	51	38	2	0	59	1.09
33464501--33464551	25	2.0	25	96	0	93	50	7	17	23	1.72
33464498--33464586	30	3.1	30	84	12	116	42	6	24	25	1.79
33469067--33469152	25	3.0	29	86	11	117	44	6	23	25	1.78
33469298--33469348	2	25.5	2	95	0	93	0	47	0	52	1.00
33469847--33469880	17	2.0	17	88	0	50	17	11	0	70	1.16
33481002--33481225	121	1.9	121	82	1	288	26	25	15	33	1.95
33491293--33491324	16	2.0	16	100	0	64	25	12	0	62	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33495221--33495302	27	3.0	26	80	7	92	25	25	12	36	1.91
33499873--33499926	23	2.3	23	87	0	81	38	7	27	25	1.83
33504948--33505000	25	2.2	24	89	3	79	37	22	22	16	1.94
33507792--33508145	41	8.7	41	81	0	341	22	27	14	35	1.93
33507792--33508130	82	4.1	82	82	2	376	22	27	14	35	1.93
33507953--33508019	21	3.2	21	71	12	75	17	31	19	31	1.95
33507792--33508130	123	2.8	122	82	2	419	22	27	14	35	1.93
33513216--33513292	32	2.4	32	97	2	147	45	2	23	28	1.66
33517775--33517813	20	2.0	20	89	0	60	43	12	12	30	1.81
33522349--33522386	17	2.2	17	86	13	51	26	13	0	60	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