genome.fa.s17.2.7.7.80.10.50.1000.15.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  15  of  173  ( 20651 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)
3956926--3957118	88	2.3	83	81	6	217	28	20	23	26	1.99
3956889--3957087	44	4.6	43	77	7	188	29	21	24	25	1.99
3957492--3957517	4	6.5	4	100	0	52	76	0	23	0	0.78
3958674--3958709	3	11.7	3	94	5	63	30	2	0	66	1.06
3958887--3958927	3	13.7	3	100	0	82	31	0	0	68	0.90
3960632--3960685	26	2.1	26	96	0	99	31	7	1	59	1.36
3960643--3960688	14	3.4	14	76	11	60	30	6	0	63	1.20
3964173--3964261	26	3.7	25	78	11	105	55	4	2	38	1.33
3973907--3973931	10	2.5	10	100	0	50	60	20	8	12	1.57
3977032--3977080	25	2.0	25	100	0	98	38	8	4	48	1.52
3977480--3977505	5	5.2	5	100	0	52	38	0	0	61	0.96
3977682--3977706	12	2.1	12	100	0	50	24	36	24	16	1.94
3977866--3977933	9	7.4	9	86	3	91	39	27	10	22	1.86
3978412--3978455	23	2.0	20	83	12	52	29	4	0	65	1.12
3983209--3983279	30	2.4	30	83	9	83	45	2	7	45	1.45
3993272--3993421	75	2.0	75	97	0	282	34	15	26	24	1.95
3994585--3994703	33	3.6	33	68	6	89	30	17	25	26	1.97
3997221--3997274	27	2.0	27	100	0	108	40	37	3	18	1.69
4000145--4000205	31	2.0	31	90	0	95	42	16	9	31	1.81
4002020--4002061	21	2.0	21	90	9	68	4	0	42	52	1.22
4002021--4002076	14	4.0	14	76	15	53	5	0	39	55	1.23
4002021--4002062	7	6.0	7	83	10	59	2	0	42	54	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4002103--4002407	96	3.2	95	85	5	416	38	2	18	40	1.66
4002441--4002734	126	2.3	126	92	0	489	32	19	21	26	1.97
4004224--4004320	34	2.9	34	98	0	185	43	6	5	45	1.51
4007375--4007417	11	3.9	11	93	0	68	27	32	0	39	1.57
4007415--4007459	24	1.9	24	90	4	74	31	8	4	55	1.51
4008561--4008598	20	1.9	20	100	0	76	28	10	13	47	1.76
4008588--4008613	7	3.7	7	100	0	52	26	0	15	57	1.38
4010200--4010399	33	5.5	33	69	22	123	21	18	27	33	1.96
4010121--4010399	75	3.7	75	91	0	441	21	18	27	32	1.97
4015572--4015637	17	3.7	17	74	18	71	63	1	3	31	1.19
4015572--4015645	17	4.2	17	73	19	62	64	1	2	31	1.15
4015620--4015725	50	2.1	52	84	5	137	57	5	7	29	1.49
4017342--4017632	126	2.3	125	89	1	456	28	19	17	34	1.95
4017679--4017907	96	2.4	96	89	3	363	38	18	2	41	1.63
4017973--4018019	16	2.9	17	84	9	62	48	27	0	23	1.51
4020282--4020339	29	2.0	29	100	0	116	31	20	24	24	1.98
4024896--4024984	46	1.9	46	86	4	126	31	14	16	37	1.89
4032757--4032804	22	2.2	22	81	7	53	39	2	2	56	1.23
4032798--4032845	24	2.0	24	83	0	60	62	0	8	29	1.24
4033375--4033405	16	1.9	16	100	0	62	0	38	16	45	1.47
4036310--4036336	13	2.1	13	100	0	54	29	14	22	33	1.94
4038406--4038451	21	2.2	21	88	3	67	36	6	0	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4041781--4041812	16	2.0	16	100	0	64	75	0	0	25	0.81
4043354--4043397	24	1.9	22	81	9	52	38	9	13	38	1.77
4047852--4047917	25	2.9	23	77	8	64	36	0	3	60	1.12
4047889--4047928	21	1.9	21	84	0	53	35	0	2	62	1.09
4048445--4048604	40	4.0	41	79	8	159	36	22	20	21	1.95
4048632--4048916	41	7.0	41	90	1	446	19	24	28	27	1.99
4049352--4049384	14	2.3	15	94	5	59	30	0	33	36	1.58
4049603--4049654	7	7.4	7	84	0	59	23	0	44	32	1.54
4049603--4049661	21	2.8	21	81	0	64	25	0	42	32	1.55
4049597--4049661	14	4.6	14	74	14	62	27	0	40	32	1.57
4050111--4050137	13	2.1	13	100	0	54	55	7	7	29	1.55
4054132--4054222	43	2.1	43	87	2	130	35	10	9	43	1.73
4054497--4054700	42	4.8	43	83	4	195	22	16	31	28	1.96
4054492--4054658	86	2.0	84	85	5	228	22	16	31	29	1.96
4054770--4054814	22	2.1	22	87	4	65	42	26	17	13	1.86
4056342--4056392	21	2.4	21	96	0	93	45	17	27	9	1.80
4057601--4057666	25	2.9	23	77	8	64	36	0	3	60	1.12
4057638--4057677	21	1.9	21	84	0	53	35	0	2	62	1.09
4066222--4066265	23	1.9	23	86	9	63	38	22	4	34	1.75
4067685--4067817	45	3.0	44	80	11	150	30	26	17	25	1.97
4067648--4067820	43	4.0	43	77	14	169	28	27	17	25	1.98
4074847--4074889	15	2.9	14	76	10	50	53	25	0	20	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4078267--4078328	31	2.0	31	93	0	106	25	8	16	50	1.72
4082592--4082626	15	2.3	15	90	0	52	48	2	8	40	1.49
4083254--4084388	500	2.3	492	79	5	1180	36	11	13	38	1.81
4086465--4086526	22	2.7	22	90	5	88	48	1	1	48	1.21
4086500--4086556	16	3.6	16	90	0	87	47	3	3	45	1.37
4086539--4086680	70	2.0	70	100	0	284	40	9	2	46	1.52
4086837--4086883	22	2.1	22	84	7	60	57	4	2	36	1.30
4088591--4088638	19	2.5	19	89	3	69	37	0	6	56	1.25
4089959--4090015	21	2.6	22	91	8	82	42	15	7	35	1.75
4089968--4090015	21	2.3	21	100	0	96	43	16	8	31	1.78
4099821--4100176	52	7.1	52	86	7	459	35	14	21	28	1.93
4099880--4100187	46	6.3	46	88	5	346	35	13	21	28	1.92
4099821--4100187	203	1.8	203	92	0	617	35	14	22	28	1.93
4100151--4100259	37	3.0	37	86	2	159	35	15	22	25	1.94
4100950--4100996	19	2.6	18	80	12	51	44	0	4	51	1.21
4100956--4101003	19	2.5	19	89	3	69	37	0	6	56	1.25
4105896--4105942	21	2.2	22	92	3	78	21	19	38	21	1.94
4108669--4108714	11	4.5	11	76	15	53	76	8	0	15	1.02
4108672--4108711	20	2.0	21	85	5	55	80	5	0	15	0.88
4108847--4108882	15	2.3	16	90	4	56	25	2	2	69	1.15
4109178--4109235	30	1.9	30	100	0	116	60	8	6	24	1.51
4118756--4118796	22	1.9	22	95	5	75	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4118785--4118885	11	9.9	11	69	23	69	53	0	2	42	1.22
4118771--4118818	17	2.9	17	73	20	57	56	0	0	43	0.99
4118785--4118895	40	2.8	40	95	0	195	54	0	2	41	1.20
4121579--4121757	71	2.5	72	80	9	206	40	17	12	29	1.87
4121651--4121754	23	4.5	23	71	2	82	42	17	15	25	1.88
4121767--4121817	2	25.5	2	87	0	75	45	0	1	52	1.12
4121767--4121817	14	3.6	14	94	0	84	45	0	1	52	1.12
4122720--4122833	43	2.6	42	82	10	149	30	25	18	25	1.98
4124684--4124735	16	3.1	17	86	10	63	28	3	0	67	1.08
4124678--4124745	12	6.3	11	88	11	65	29	4	0	66	1.11
4124674--4124726	3	18.0	3	84	11	74	32	1	0	66	1.03
4132592--4132629	18	2.1	19	90	5	60	52	5	21	21	1.66
4136761--4136794	16	2.1	16	94	0	59	44	0	0	55	0.99
4136767--4136825	17	3.7	16	72	19	52	42	1	1	54	1.20
4136813--4136864	16	3.2	16	76	10	52	55	0	0	44	0.99
4136803--4136864	32	1.9	32	83	0	79	51	0	0	48	1.00
4140244--4140281	20	2.0	20	84	5	51	26	7	2	63	1.35
4141704--4141771	30	2.2	31	86	2	93	32	19	22	26	1.97
4141637--4141851	89	2.4	86	82	5	252	39	17	19	23	1.92
4143214--4143248	15	2.3	15	90	5	52	20	0	0	80	0.72
4143214--4143248	16	2.2	16	90	5	54	20	0	0	80	0.72
4149558--4149671	41	2.9	37	69	10	93	28	26	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4149905--4149979	19	4.0	19	69	20	68	37	25	1	36	1.65
4150983--4151046	2	36.0	2	74	22	63	54	0	0	45	0.99
4150986--4151047	5	12.2	5	86	11	74	56	0	0	43	0.99
4151436--4151493	23	2.4	25	82	8	75	39	17	12	31	1.86
4151484--4151590	23	4.6	23	80	2	115	40	17	16	25	1.91
4151451--4151590	70	2.0	69	88	4	210	40	18	15	26	1.90
4151451--4151590	23	6.0	23	75	6	113	40	18	15	26	1.90
4151510--4151604	47	2.0	47	85	0	127	40	17	15	26	1.90
4152523--4152643	43	2.8	43	79	14	142	28	25	20	24	1.99
4154477--4154501	3	8.3	3	100	0	50	32	0	32	36	1.58

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