genome.fa.s23.2.7.7.80.10.50.1000.13.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  13  of  218  ( 26060 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)
4829016--4842169	454	29.0	454	99	0	26272	39	17	13	29	1.87
4842844--4842899	2	28.0	2	96	0	103	48	0	51	0	1.00
4844994--4845046	13	4.1	13	73	9	54	33	5	20	39	1.76
4845533--4845557	13	1.9	13	100	0	50	48	12	8	32	1.69
4855659--4855701	17	2.6	17	80	20	56	74	0	0	25	0.82
4855658--4855705	22	2.1	22	85	11	62	72	0	0	27	0.84
4866772--4866808	17	2.2	17	90	9	58	59	2	5	32	1.34
4874183--4874226	22	2.0	22	86	8	63	65	6	0	27	1.17
4879326--4879375	18	2.8	18	81	0	64	40	46	2	12	1.52
4879516--4879591	9	8.4	9	73	5	64	30	6	18	44	1.75
4879522--4879592	18	3.9	18	75	12	74	29	5	18	46	1.72
4879510--4879592	27	3.0	27	80	1	94	28	7	18	45	1.75
4881677--4881747	5	13.4	5	77	14	63	22	1	1	74	0.97
4881872--4881934	12	5.5	11	78	14	56	11	6	3	79	1.03
4886591--4886640	21	2.7	18	80	17	57	58	2	4	36	1.29
4886571--4886633	10	6.4	10	77	14	60	55	3	3	38	1.32
4886588--4886650	17	3.5	17	75	21	58	57	1	3	38	1.24
4886736--4886796	9	6.6	9	72	7	50	67	4	0	27	1.11
4887162--4887220	21	2.8	20	87	10	75	37	3	1	57	1.25
4887169--4887259	10	9.1	10	70	21	57	35	2	2	60	1.21
4887180--4887259	30	2.7	30	86	5	110	36	1	2	60	1.18
4887162--4887258	20	4.8	20	78	13	76	36	3	2	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4887240--4887306	30	2.3	27	82	12	80	26	7	2	62	1.36
4901531--4901577	14	3.4	14	77	11	51	23	0	6	70	1.10
4901961--4902041	27	3.0	27	87	3	110	30	25	30	12	1.92
4902037--4902378	19	16.7	19	66	26	127	32	0	14	53	1.44
4902124--4902378	27	10.0	27	63	25	108	31	0	14	53	1.45
4902265--4902426	19	8.1	20	71	20	108	31	0	15	52	1.47
4902295--4902404	8	12.4	8	69	19	58	34	0	15	49	1.51
4902419--4902540	60	2.0	60	87	3	174	31	0	13	54	1.46
4902573--4902653	38	2.2	38	95	2	146	56	1	2	39	1.20
4902690--4902731	16	2.7	15	85	7	57	38	2	2	57	1.25
4902862--4903027	27	7.2	21	75	19	95	53	14	0	31	1.45
4902889--4902997	8	12.4	8	68	21	58	49	15	0	33	1.51
4902915--4903028	19	6.1	19	71	19	89	53	13	0	33	1.40
4902915--4902997	27	3.1	27	92	1	141	51	13	0	34	1.41
4902968--4903035	19	3.5	20	83	15	81	55	13	0	30	1.38
4902915--4903053	67	2.0	71	80	14	157	55	13	0	30	1.39
4904050--4904119	25	2.7	27	75	16	76	57	7	5	30	1.49
4904032--4904119	29	3.0	29	71	18	74	55	7	5	30	1.52
4904137--4904172	3	12.3	3	88	5	56	69	2	0	27	1.02
4905380--4905412	17	1.9	17	88	11	50	57	3	0	39	1.14
4907751--4907884	23	6.0	23	89	2	157	38	23	20	18	1.94
4907751--4907884	69	2.0	66	85	7	180	38	23	20	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4907750--4907885	46	3.0	45	86	5	186	37	22	19	19	1.94
4911834--4911973	45	3.0	46	82	4	176	50	17	5	26	1.66
4913362--4913485	37	3.2	40	74	12	130	33	25	16	24	1.96
4917376--4917433	30	1.9	30	89	0	89	41	3	24	31	1.71
4917645--4917676	13	2.5	13	94	0	55	31	0	12	56	1.37
4917771--4918062	50	5.7	50	88	3	379	26	23	30	19	1.98
4920305--4920458	51	3.0	51	98	1	292	45	18	7	28	1.77
4920404--4920514	33	3.4	34	82	10	115	43	17	8	31	1.78
4923563--4923649	28	3.1	28	69	17	74	42	1	2	54	1.20
4923700--4923963	137	1.9	136	86	3	379	46	3	4	45	1.40
4923903--4924116	50	4.2	51	62	20	122	46	5	3	44	1.41
4923715--4924151	156	3.1	137	82	10	459	46	5	3	44	1.42
4924009--4924057	15	2.9	18	80	20	61	44	0	0	55	0.99
4924009--4924063	15	3.4	16	80	16	53	43	0	1	54	1.10
4923828--4924156	156	2.1	157	96	0	606	46	6	3	43	1.44
4924209--4924299	45	2.0	45	85	2	121	37	28	6	27	1.82
4924280--4924331	16	3.2	16	97	0	95	40	34	0	25	1.56
4927603--4927647	18	2.4	19	92	3	74	37	13	0	48	1.42
4933302--4933379	19	3.8	19	72	18	59	60	1	1	37	1.13
4933312--4933359	23	2.1	23	84	7	62	64	0	0	35	0.94
4933352--4933396	19	2.4	19	84	0	54	62	4	4	28	1.34
4933418--4933456	19	2.2	17	86	9	51	56	2	2	38	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933945--4933996	24	2.2	23	86	10	70	30	3	1	63	1.23
4949297--4949626	44	7.6	44	74	12	240	30	21	21	26	1.98
4949297--4949665	44	8.5	43	72	10	200	31	20	21	27	1.98
4949467--4949666	87	2.3	88	81	6	217	30	21	21	27	1.98
4949347--4949788	218	2.0	214	79	6	464	30	20	22	26	1.98
4961816--4961895	36	2.3	35	82	6	92	55	5	3	36	1.40
4962063--4962106	17	2.6	17	82	3	54	45	2	11	40	1.53
4964339--4964387	24	2.0	25	88	8	73	36	0	0	63	0.95
4964363--4964435	9	7.7	9	75	11	65	35	0	2	61	1.10
4964336--4964397	26	2.4	27	76	15	76	43	0	0	56	0.99
4964316--4964406	43	2.0	47	83	12	120	37	0	3	59	1.14
4964372--4964435	20	3.2	20	86	6	87	35	0	3	60	1.12
4974369--4974406	18	2.1	18	90	0	58	44	34	13	7	1.72
4974366--4974418	27	2.0	27	85	7	72	43	33	13	9	1.76
4974342--4974406	15	4.1	15	73	11	58	43	36	15	4	1.67
4978794--4978931	68	2.0	67	95	1	249	43	7	6	42	1.60
4988009--4988106	28	3.6	27	71	17	69	60	1	6	32	1.28
4988008--4988076	29	2.4	28	80	7	77	59	1	7	31	1.33
5015977--5016069	44	2.1	44	90	6	143	34	4	24	36	1.75
5016178--5016310	56	2.3	56	82	10	153	51	3	0	43	1.24
5020375--5020438	32	2.0	32	100	0	128	40	18	9	31	1.83
5024397--5024437	14	2.9	15	75	10	50	43	12	4	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5036035--5036070	18	2.0	18	100	0	72	38	5	0	55	1.23
5038747--5038820	37	2.0	36	97	2	139	32	5	16	45	1.70
5038754--5038811	17	3.2	17	68	13	53	31	3	15	50	1.61
5038819--5038849	9	3.4	9	95	0	53	25	9	22	41	1.84
5053790--5053840	19	2.8	18	82	14	52	64	3	0	31	1.11
5061095--5061134	8	5.4	8	88	11	59	75	0	12	12	1.06
5061091--5061135	15	3.2	13	90	9	63	71	0	13	15	1.15
5061091--5061133	21	2.1	20	95	4	77	72	0	13	13	1.13
5062392--5062825	44	10.4	42	68	14	202	28	18	22	29	1.97
5062437--5062782	80	4.2	80	68	16	233	28	18	23	30	1.97
5062392--5062904	124	4.1	124	91	1	785	29	17	22	30	1.97
5064480--5064516	3	12.0	3	88	5	56	32	2	0	64	1.07
5065017--5065412	109	3.6	108	88	2	524	34	15	17	33	1.91
5075404--5075536	56	2.3	56	82	10	153	43	0	3	51	1.24
5075645--5075737	45	2.1	44	90	6	143	36	24	4	34	1.75
5086697--5087011	41	7.7	41	86	0	432	23	26	20	28	1.99
5105747--5105809	30	2.0	31	81	6	74	22	19	11	47	1.80
5110609--5110760	41	3.7	41	93	0	259	24	30	19	25	1.98
5116572--5116596	11	2.3	11	100	0	50	44	0	16	40	1.47
5118350--5118567	113	1.9	113	80	9	248	32	14	23	29	1.94
5119224--5119260	7	5.3	7	100	0	74	13	0	59	27	1.35
5119223--5119282	14	4.4	14	86	12	56	16	0	50	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119224--5119285	20	3.0	20	85	2	61	14	0	50	35	1.43
5122006--5122041	16	2.2	16	90	0	54	27	8	8	55	1.58
5122101--5122239	67	2.1	67	98	0	269	36	4	13	45	1.64
5122459--5122493	17	2.1	17	88	0	52	45	14	0	40	1.45
5122495--5122553	13	4.5	13	87	8	75	40	10	1	47	1.47
5123208--5123438	9	26.4	9	71	14	171	46	20	1	31	1.61
5123250--5123309	25	2.3	25	88	5	84	50	21	0	28	1.49
5123242--5123316	34	2.2	34	87	0	105	49	21	1	28	1.58
5123271--5123342	35	2.0	36	86	10	103	50	20	0	29	1.49
5123249--5123416	62	2.7	62	78	13	179	46	20	1	31	1.59

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