genome.fa.s7.2.7.7.80.10.50.1000.9.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: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Length:  92880876

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  9  of  290  ( 34756 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)
2986319--2986382	26	2.4	28	81	7	78	45	1	3	50	1.27
2986319--2986384	27	2.5	26	82	5	78	43	1	3	51	1.26
2986534--2986581	16	2.8	18	78	15	57	41	0	0	58	0.98
2986828--2986904	22	3.5	20	73	15	57	51	3	0	44	1.19
2986828--2986918	23	4.1	22	72	17	64	52	3	0	43	1.17
2986901--2986952	18	2.9	18	74	5	52	67	1	3	26	1.18
2986996--2987020	9	2.8	9	100	0	50	84	0	8	8	0.79
2987325--2987499	91	1.9	89	96	2	323	38	15	25	20	1.91
3005439--3005738	149	2.0	149	88	0	447	40	17	15	27	1.90
3006466--3006784	53	6.0	53	95	0	557	39	18	15	26	1.90
3008392--3008456	25	2.5	26	77	5	69	46	0	4	49	1.22
3014358--3014563	106	1.9	106	90	0	322	40	16	16	26	1.89
3015612--3015649	20	1.9	20	94	0	67	26	28	15	28	1.96
3016134--3016246	59	1.9	58	84	12	151	38	11	16	32	1.85
3034152--3034200	23	2.1	23	85	7	64	36	4	2	57	1.30
3034602--3034631	14	2.1	15	93	6	53	70	6	13	10	1.34
3042546--3042574	15	2.0	15	93	6	51	75	6	17	0	1.01
3044203--3044367	39	4.2	39	82	4	199	23	27	24	24	2.00
3044206--3044367	78	2.1	78	88	2	236	22	27	25	24	2.00
3046349--3046569	110	2.0	110	98	0	424	45	18	15	20	1.85
3048771--3048798	4	7.0	4	100	0	56	0	25	0	75	0.81
3050247--3050286	20	2.0	20	90	0	62	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050233--3050298	35	1.9	34	87	6	98	33	7	12	46	1.69
3052983--3053044	19	3.2	19	93	4	97	38	9	16	35	1.81
3058207--3058249	11	3.8	11	90	3	68	88	0	11	0	0.52
3058207--3058251	16	2.8	16	84	15	58	88	0	11	0	0.50
3058207--3058257	27	2.0	26	84	7	68	84	0	13	1	0.71
3058443--3058596	78	2.0	79	98	1	301	33	19	21	25	1.97
3059315--3059636	132	2.4	132	85	3	434	31	15	25	27	1.96
3059421--3060206	350	2.2	352	91	1	1249	29	15	26	28	1.96
3059421--3060206	176	4.5	176	91	1	1236	29	15	26	28	1.96
3059421--3060250	44	18.9	44	74	14	535	29	15	26	28	1.96
3060303--3060581	44	6.2	44	71	9	199	30	17	24	27	1.97
3060303--3060581	134	2.1	134	94	0	486	30	17	24	27	1.97
3060645--3060793	45	3.3	45	82	3	167	33	13	28	24	1.93
3061152--3061230	19	4.2	19	90	9	126	37	10	16	35	1.82
3061142--3061229	36	2.4	36	80	17	119	38	10	15	35	1.82
3070747--3070786	18	2.2	19	86	4	55	42	2	0	55	1.13
3082017--3082075	29	2.0	29	96	0	109	49	8	6	35	1.60
3082994--3083037	17	2.6	17	81	0	52	47	2	4	45	1.35
3083902--3083946	23	1.9	23	81	4	54	40	2	6	51	1.41
3089049--3089557	253	2.0	253	97	0	964	34	17	21	26	1.96
3093939--3094006	34	2.0	34	100	0	136	44	17	11	26	1.83
3094995--3095071	27	2.8	26	75	14	84	61	12	7	18	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096947--3097047	45	2.3	45	83	8	118	53	1	13	30	1.51
3099315--3099349	18	1.9	18	88	0	52	77	2	20	0	0.90
3103143--3103193	22	2.3	22	83	10	68	37	0	13	49	1.43
3110602--3110656	23	2.4	23	84	6	67	43	5	1	49	1.36
3113689--3113731	8	5.2	8	78	15	52	69	0	2	27	1.00
3113683--3113731	3	17.3	3	76	19	52	69	0	2	28	1.00
3113682--3113727	11	3.8	11	81	18	56	69	0	2	28	1.00
3113683--3113731	14	3.5	14	83	10	57	69	0	2	28	1.00
3113701--3113776	20	3.7	21	77	10	68	59	6	1	32	1.32
3117573--3117605	15	2.1	16	94	5	59	84	0	15	0	0.61
3117576--3117605	11	2.9	10	95	5	51	86	0	13	0	0.57
3133657--3133842	56	3.2	56	69	18	169	40	1	6	51	1.39
3133615--3133853	121	2.0	121	94	0	424	40	1	9	48	1.45
3134011--3134041	14	2.2	14	94	0	53	29	0	0	70	0.87
3134269--3134301	14	2.4	14	90	10	50	66	0	3	30	1.06
3136932--3136989	30	2.0	29	89	3	89	43	6	12	37	1.69
3136937--3136996	30	2.0	30	87	3	86	48	5	11	35	1.61
3146150--3146265	57	2.0	57	100	0	232	28	10	6	54	1.60
3148307--3148370	28	2.3	28	86	5	94	51	3	0	45	1.17
3152727--3152832	54	1.9	57	84	9	148	49	5	3	41	1.44
3157531--3157574	16	2.8	16	83	16	56	65	4	0	29	1.12
3161280--3161314	17	2.1	17	88	0	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3164383--3164695	157	2.0	157	99	0	617	43	19	14	22	1.87
3175352--3175391	20	2.0	20	100	0	80	60	5	30	5	1.40
3175355--3175400	20	2.3	20	88	7	67	63	4	28	4	1.33
3175356--3175403	18	2.5	19	86	6	62	64	4	25	6	1.35
3177705--3177739	11	3.4	11	92	7	56	71	8	0	20	1.11
3177686--3177749	20	3.2	20	74	10	60	67	6	0	26	1.14
3179722--3179770	15	3.3	15	78	18	50	24	0	4	71	1.03
3179722--3179773	26	2.0	26	89	10	81	23	0	3	73	1.00
3179722--3179773	25	2.0	25	89	10	79	23	0	3	73	1.00
3184250--3184433	94	2.0	94	90	0	287	45	17	23	13	1.84
3186534--3186582	22	2.3	22	92	3	82	16	10	22	51	1.74
3197043--3197100	28	2.1	28	100	0	116	34	18	13	32	1.91
3199263--3199300	13	2.6	15	88	12	53	42	2	0	55	1.14
3201081--3201138	28	2.1	28	100	0	116	34	18	13	32	1.91
3204193--3204248	28	2.0	28	100	0	112	32	10	14	42	1.80
3205005--3205245	117	2.1	117	99	0	473	27	18	16	38	1.92
3217879--3217977	33	3.0	33	93	0	171	17	10	41	31	1.82
3222651--3222712	30	2.2	28	83	11	74	40	8	1	50	1.42
3225780--3225830	24	2.1	24	88	0	75	43	11	19	25	1.85
3227960--3228018	17	3.1	20	79	18	72	54	1	0	44	1.10
3227965--3228020	20	3.0	19	82	17	73	51	0	0	48	1.00
3235831--3235898	33	2.2	30	82	12	75	45	1	22	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239431--3239502	19	3.5	19	67	22	56	40	9	4	45	1.56
3239425--3239509	42	2.0	42	95	0	152	40	9	3	47	1.53
3241561--3241735	46	3.8	46	78	13	205	29	29	20	20	1.98
3241569--3241739	93	1.8	93	93	0	297	28	29	21	20	1.98
3244733--3244800	33	2.2	30	82	12	75	45	1	22	30	1.61
3246985--3247074	15	6.1	15	70	15	62	32	7	1	58	1.34
3246985--3247046	3	21.0	3	74	9	56	29	6	1	62	1.29
3247122--3247171	16	3.1	17	77	11	52	34	6	4	56	1.43
3247149--3247179	16	1.9	16	93	0	53	38	6	3	51	1.44
3247303--3247451	3	48.7	3	71	10	79	28	6	2	61	1.35
3247492--3247538	19	2.3	20	92	7	78	25	4	2	68	1.19
3250233--3250288	25	2.2	25	80	0	67	57	16	3	23	1.55
3250504--3250618	25	4.5	25	72	15	92	64	3	5	26	1.31
3250926--3250992	22	3.2	21	68	12	57	59	5	5	28	1.45
3253591--3253628	17	2.2	18	90	4	60	55	2	2	39	1.28
3255344--3255368	6	4.2	6	100	0	50	0	0	64	36	0.94
3256175--3256219	18	2.3	20	85	11	58	26	0	2	71	0.98
3256516--3256559	20	2.1	21	84	12	56	63	0	2	34	1.07
3261761--3261813	26	2.1	25	86	10	72	37	3	0	58	1.16
3266873--3266919	21	2.2	22	92	3	78	21	19	38	21	1.94
3271330--3271362	16	2.1	16	100	0	66	24	6	12	57	1.57
3272887--3272920	10	3.5	10	92	4	52	20	5	2	70	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3273645--3273696	22	2.4	22	90	0	77	34	1	15	48	1.56
3274743--3274787	22	2.0	22	91	0	72	33	2	15	48	1.57
3286550--3286590	21	2.0	21	90	0	64	19	29	21	29	1.98
3292065--3292112	24	2.0	24	88	8	71	50	0	0	50	1.00
3292300--3292330	13	2.5	13	94	5	55	16	22	9	51	1.73
3294429--3294483	27	2.2	24	84	15	67	40	9	5	45	1.59
3294773--3294802	16	1.9	15	93	6	51	73	3	0	23	0.98
3298096--3298139	21	2.1	21	87	8	63	65	9	2	22	1.32
3301816--3301872	28	2.0	28	100	0	114	33	7	10	49	1.64
3308841--3308866	5	5.2	5	100	0	52	80	0	0	19	0.71

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290