genome.fa.s4.2.7.7.80.10.50.1000.14.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  14  of  253  ( 30316 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)
4098029--4098192	30	5.5	30	89	1	224	26	48	3	21	1.67
4098045--4098127	18	5.3	18	61	31	55	24	49	3	22	1.66
4098750--4098811	2	32.5	2	73	15	51	40	1	1	56	1.19
4098750--4098813	14	4.5	14	76	18	69	39	1	1	57	1.17
4098757--4098836	31	2.6	31	82	7	85	36	3	3	56	1.35
4098825--4098883	25	2.5	24	78	10	68	33	8	6	50	1.59
4098841--4098889	25	2.0	25	91	0	80	34	8	6	51	1.57
4099045--4099092	16	3.1	15	90	6	69	31	2	2	64	1.16
4099045--4099096	8	6.5	8	82	8	61	30	1	1	65	1.14
4101367--4101407	22	1.9	22	90	5	66	58	0	0	41	0.98
4110671--4110708	18	2.1	19	85	5	51	60	0	7	31	1.25
4110738--4110803	24	2.8	24	73	13	64	56	1	15	27	1.48
4110813--4110856	6	7.5	6	97	2	81	68	0	0	31	0.90
4110815--4110862	18	2.8	17	87	12	71	66	0	2	31	1.03
4111084--4111117	3	11.3	3	93	0	59	67	0	0	32	0.91
4111291--4111344	21	2.6	21	82	11	58	64	3	3	27	1.27
4111352--4111392	21	2.0	21	90	0	64	65	0	7	26	1.18
4113582--4113626	21	2.1	21	84	8	56	53	0	2	44	1.13
4114501--4114550	25	2.0	25	100	0	100	20	24	12	44	1.85
4114576--4114618	21	2.2	19	83	8	50	51	0	0	48	1.00
4114757--4114783	8	3.4	8	100	0	54	62	0	22	14	1.31
4117836--4117923	43	2.0	43	84	4	115	37	4	7	50	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119637--4119677	13	3.1	14	82	10	50	48	14	17	19	1.81
4129296--4129341	18	2.6	18	96	0	83	13	26	10	50	1.74
4131860--4131983	62	2.0	62	96	0	230	29	11	20	38	1.88
4133949--4133992	21	2.1	21	95	0	79	18	0	15	65	1.27
4147972--4148041	36	1.9	36	88	0	104	48	10	8	32	1.67
4153309--4153347	20	2.0	20	100	0	78	25	25	15	33	1.95
4153721--4153762	21	2.0	21	95	0	75	28	26	4	40	1.76
4164981--4165017	15	2.5	16	87	12	53	45	10	24	18	1.81
4169129--4169183	26	2.0	28	86	6	78	63	5	0	30	1.17
4171401--4171447	22	2.1	22	96	0	85	31	19	12	36	1.89
4172344--4172388	23	1.9	24	86	4	65	60	0	0	40	0.97
4175387--4175727	160	2.2	151	88	7	488	35	13	11	39	1.81
4177713--4177759	24	2.0	24	87	8	69	40	6	6	46	1.55
4177854--4177908	26	2.1	25	83	6	65	21	16	21	40	1.91
4178101--4178150	20	2.5	21	83	9	68	46	6	2	46	1.39
4178224--4178256	12	2.8	12	95	0	57	63	0	12	24	1.28
4179639--4179695	30	1.9	30	82	13	73	47	3	0	49	1.18
4179869--4179934	26	2.5	26	77	0	69	37	24	6	31	1.80
4185747--4185778	16	2.1	16	88	11	50	59	18	0	21	1.38
4195914--4195939	7	3.7	7	100	0	52	57	0	0	42	0.98
4196292--4196340	13	4.0	13	74	15	59	61	0	6	32	1.21
4196326--4196367	22	2.0	21	86	9	59	61	0	2	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4196305--4196371	20	3.2	20	83	12	75	59	0	4	35	1.18
4196449--4196498	19	2.7	19	84	6	68	68	2	4	26	1.18
4197431--4197480	21	2.4	21	100	0	100	20	18	32	30	1.96
4199292--4199342	24	2.1	24	88	0	75	39	5	5	49	1.51
4199302--4199348	24	2.0	24	91	0	76	42	6	4	46	1.48
4205837--4205882	24	1.9	24	86	8	67	41	6	4	47	1.49
4206247--4206286	19	2.0	20	90	4	64	45	7	0	47	1.31
4207832--4207885	26	2.1	26	96	0	99	29	7	5	57	1.49
4208632--4208864	128	1.8	128	87	1	351	30	16	17	36	1.92
4209373--4209429	17	3.5	15	84	15	53	38	10	15	35	1.82
4209373--4209451	36	2.1	38	90	9	126	37	10	16	35	1.82
4209373--4209451	19	4.2	19	90	9	126	37	10	16	35	1.82
4215503--4215542	17	2.4	16	87	4	53	67	0	32	0	0.91
4217631--4217862	46	4.8	51	82	11	281	41	13	23	20	1.88
4217631--4217862	96	2.4	96	91	0	356	41	13	23	20	1.88
4219012--4219075	21	3.4	19	78	8	60	84	0	9	6	0.78
4219011--4219075	13	5.2	12	75	12	60	84	0	9	6	0.77
4219011--4219073	27	2.4	27	81	7	76	84	0	9	6	0.79
4220023--4220806	84	9.4	84	86	5	1088	30	22	22	24	1.99
4220025--4220806	250	3.1	249	88	4	1082	30	22	22	24	1.99
4220027--4220806	334	2.3	334	91	1	1260	30	22	22	25	1.99
4220617--4220750	41	3.2	41	68	17	105	32	20	20	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4221467--4221564	19	5.2	19	91	7	155	38	10	16	34	1.82
4221473--4221564	36	2.4	36	92	7	130	38	10	15	35	1.82
4221486--4221542	17	3.5	15	84	15	53	38	10	15	35	1.82
4225356--4225431	23	3.3	23	73	12	68	32	5	3	57	1.39
4225590--4225700	3	36.7	3	73	5	71	32	9	1	55	1.43
4225640--4225705	23	2.9	22	78	17	64	34	13	1	50	1.51
4225810--4225847	18	2.1	18	90	0	58	36	10	0	52	1.36
4241258--4241364	18	5.9	18	85	6	146	35	14	12	38	1.83
4241258--4241364	35	3.0	35	94	4	178	35	14	12	38	1.83
4241766--4242474	207	3.4	207	92	0	1123	30	23	16	29	1.96
4242599--4242890	84	3.4	84	83	4	388	23	20	23	32	1.98
4243836--4243878	8	5.6	8	78	10	54	0	13	0	86	0.58
4243836--4243880	21	2.3	19	88	11	72	0	13	0	86	0.57
4249242--4249308	29	2.4	28	82	12	75	59	2	4	32	1.32
4249625--4249742	35	3.3	35	93	3	191	36	15	11	36	1.84
4252456--4252573	59	2.0	59	100	0	236	37	13	28	20	1.91
4254507--4254686	20	9.2	20	86	6	181	37	27	21	14	1.92
4254506--4254686	39	4.7	39	84	4	215	37	27	20	14	1.92
4254507--4254686	59	3.1	59	87	3	240	37	27	21	14	1.92
4254955--4255008	27	2.0	28	85	7	76	31	18	20	29	1.96
4258562--4258591	14	2.1	14	93	0	51	46	36	0	16	1.47
4258591--4258635	23	2.0	23	81	0	54	42	11	4	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4264811--4264840	16	1.9	15	93	6	51	60	0	0	40	0.97
4264818--4264867	22	2.3	20	86	10	64	68	2	0	30	1.01
4265075--4265107	17	2.0	17	88	5	50	36	0	3	60	1.12
4265045--4265107	16	3.8	17	72	16	51	39	1	3	55	1.25
4267665--4267711	23	2.0	23	100	0	94	44	0	29	25	1.54
4275677--4275714	6	6.3	6	100	0	76	52	15	0	31	1.43
4276553--4276676	43	2.9	42	76	2	122	36	20	20	22	1.95
4276783--4276856	34	2.2	34	82	0	85	48	14	9	27	1.75
4276803--4276879	34	2.3	35	77	6	86	42	14	11	31	1.81
4277638--4277663	13	2.0	13	100	0	52	53	7	15	23	1.67
4278667--4278704	16	2.4	16	86	4	51	68	5	0	26	1.11
4288866--4288915	21	2.4	21	75	0	55	48	28	0	24	1.52
4288905--4288978	34	2.2	34	90	0	112	39	32	6	21	1.80
4289665--4289707	15	2.8	15	78	3	50	48	4	11	34	1.60
4290782--4290838	17	3.2	17	72	7	51	57	0	3	38	1.16
4291373--4291542	28	5.8	30	90	5	269	25	50	3	20	1.64
4292043--4292152	25	4.7	23	68	17	66	36	3	2	57	1.31
4292098--4292150	22	2.4	23	84	9	74	35	3	0	60	1.15
4292175--4292233	25	2.5	24	78	10	68	33	8	6	50	1.59
4292191--4292239	25	2.0	25	91	0	80	34	8	6	51	1.57
4305567--4305739	29	5.9	30	83	8	230	24	48	4	22	1.69
4305573--4305739	59	2.8	60	89	5	261	23	49	4	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306394--4306458	23	2.8	23	75	13	62	30	4	6	58	1.43
4306421--4306473	21	2.6	21	76	8	56	32	3	7	56	1.45
4306542--4306604	19	3.4	18	79	14	67	26	4	1	66	1.20
4315044--4315242	67	3.0	66	88	7	282	26	17	23	32	1.97
4315394--4316275	70	11.8	74	76	18	778	28	16	19	35	1.94
4315112--4316302	70	15.7	76	75	17	713	28	16	20	34	1.94
4315031--4316276	450	2.8	443	83	11	1382	28	16	20	34	1.94
4316025--4316073	25	2.0	25	88	8	73	20	10	32	36	1.86
4315760--4316199	156	2.8	156	80	14	450	28	15	18	37	1.92
4315043--4316273	230	5.5	221	79	16	1165	28	16	20	34	1.95

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