genome.fa.s17.2.7.7.80.10.50.1000.17.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  17  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)
4568850--4568882	14	2.3	15	94	5	59	36	33	0	30	1.58
4569316--4569594	41	7.0	41	87	6	410	27	28	24	19	1.98
4569622--4569781	40	4.0	41	79	8	159	21	20	22	36	1.95
4570297--4570345	21	2.2	23	82	7	57	59	2	0	38	1.09
4576393--4576424	16	2.0	16	100	0	64	25	0	0	75	0.81
4579753--4579798	20	2.2	21	88	3	67	56	0	6	36	1.25
4581866--4581892	13	2.1	13	100	0	54	33	22	14	29	1.94
4584797--4584827	16	1.9	16	100	0	62	45	16	38	0	1.47
4593218--4593306	46	1.9	46	86	4	126	37	16	14	31	1.89
4597863--4597920	29	2.0	29	100	0	116	24	24	20	31	1.98
4600183--4600229	16	2.9	17	84	9	62	23	0	27	48	1.51
4600295--4600523	96	2.4	96	89	3	363	41	2	18	38	1.63
4600570--4600860	126	2.3	125	89	1	456	34	17	19	28	1.95
4602477--4602582	52	2.1	52	84	5	137	29	7	5	57	1.49
4602565--4602630	17	3.7	17	74	18	71	31	3	1	63	1.19
4602565--4602637	21	3.8	20	72	18	73	31	2	2	63	1.23
4607803--4608077	33	7.5	33	67	22	138	33	26	18	21	1.96
4607803--4608081	75	3.7	75	91	0	441	32	27	18	21	1.97
4609588--4609613	7	3.7	7	100	0	52	57	15	0	26	1.38
4609603--4609640	20	1.9	20	100	0	76	47	13	10	28	1.76
4610742--4610786	24	1.9	24	90	4	74	55	4	8	31	1.51
4610784--4610826	11	3.9	11	93	0	68	39	0	32	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4611017--4611058	21	2.0	21	85	0	57	14	26	23	35	1.93
4613416--4613450	18	1.9	18	88	0	52	22	28	2	45	1.67
4613697--4613760	21	3.0	21	67	0	56	34	40	17	7	1.78
4613881--4613977	34	2.9	34	98	0	185	45	5	6	43	1.51
4613987--4614164	58	3.1	55	72	15	153	39	6	5	48	1.52
4615467--4615760	126	2.3	126	92	0	489	26	21	19	32	1.97
4615795--4616098	96	3.2	95	85	5	398	39	18	2	38	1.66
4616139--4616180	7	6.0	7	88	8	59	54	42	0	2	1.13
4616140--4616181	21	2.0	21	90	9	68	52	42	0	4	1.22
4617996--4618056	31	2.0	31	90	0	95	31	9	16	42	1.81
4620927--4620980	27	2.0	27	100	0	108	18	3	37	40	1.69
4623542--4623619	33	2.4	32	80	6	84	26	23	17	32	1.97
4624780--4624929	75	2.0	75	97	0	282	24	26	15	34	1.95
4634922--4634992	30	2.4	30	83	9	83	45	7	2	45	1.45
4640268--4640335	9	7.4	9	86	3	91	22	10	27	39	1.86
4640495--4640519	12	2.1	12	100	0	50	16	24	36	24	1.94
4640696--4640721	5	5.2	5	100	0	52	61	0	0	38	0.96
4641121--4641169	25	2.0	25	100	0	98	48	4	8	38	1.52
4644270--4644294	10	2.5	10	100	0	50	12	8	20	60	1.57
4653940--4654028	26	3.7	25	78	11	105	38	2	4	55	1.33
4657513--4657558	14	3.4	14	76	11	60	63	0	6	30	1.20
4657516--4657569	26	2.1	26	96	0	99	59	1	7	31	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4659274--4659311	3	12.7	3	100	0	76	68	0	0	31	0.90
4659489--4659521	3	10.7	3	93	6	57	66	0	3	30	1.06
4660678--4660703	4	6.5	4	100	0	52	0	23	0	76	0.78
4661108--4661309	44	4.7	44	75	8	198	25	23	21	29	1.99
4661083--4661269	88	2.2	83	82	6	214	26	23	21	28	1.99
4661106--4661306	85	2.3	87	80	5	221	24	24	20	29	1.99
4661357--4662327	197	4.9	197	87	2	1136	24	20	21	33	1.97
4661357--4662327	98	9.8	98	84	2	1129	24	20	21	33	1.97
4661457--4662324	49	17.6	48	67	7	411	24	19	21	34	1.97
4669678--4669724	22	2.1	22	84	7	60	36	2	4	57	1.30
4669819--4669928	40	2.8	40	73	18	133	50	8	4	37	1.53
4669868--4669924	28	2.1	27	86	3	78	49	7	3	40	1.47
4669978--4670034	16	3.6	16	90	0	87	45	3	3	47	1.37
4670008--4670069	22	2.7	23	90	5	90	48	1	1	48	1.21
4671814--4671885	31	2.3	31	78	0	81	23	15	15	45	1.84
4672857--4672886	3	10.0	3	100	0	60	33	0	0	66	0.92
4674282--4674346	30	2.2	30	86	5	87	30	13	9	46	1.75
4681372--4681402	16	1.9	16	100	0	62	45	16	38	0	1.47
4685782--4685835	25	2.0	28	82	10	69	48	1	1	48	1.23
4690107--4690131	2	12.5	2	100	0	50	48	0	0	52	1.00
4691481--4691529	21	2.4	20	77	12	55	32	4	0	63	1.13
4693725--4693790	31	2.1	31	83	5	80	34	10	13	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693948--4694045	31	3.4	31	69	16	100	25	10	13	51	1.72
4697185--4697270	21	4.1	21	74	3	75	18	22	13	45	1.85
4697194--4697287	42	2.2	42	88	0	125	15	24	17	42	1.88
4697194--4697281	21	4.2	21	77	0	86	17	25	15	42	1.88
4697206--4697329	42	3.0	42	84	2	144	12	25	18	43	1.85
4703092--4703116	13	1.9	13	100	0	50	28	0	0	72	0.86
4703126--4703163	17	2.2	17	100	0	76	23	26	10	39	1.87
4709481--4709511	5	6.2	5	100	0	62	61	0	0	38	0.96
4710802--4710844	18	2.4	18	72	0	50	23	4	0	72	1.04
4717223--4717321	51	1.9	52	81	2	119	43	17	22	17	1.88
4718618--4719636	44	23.0	44	79	4	1046	31	14	24	29	1.95
4718618--4719636	89	11.5	88	82	4	1055	31	14	24	29	1.95
4718618--4719636	133	7.7	132	80	4	1037	31	14	24	29	1.95
4720284--4720328	22	2.0	23	83	8	58	8	46	26	17	1.78
4724977--4725056	3	26.3	3	87	2	106	58	0	5	36	1.20
4728217--4728264	16	3.0	16	79	11	62	29	25	6	39	1.80
4729296--4729386	43	2.1	43	97	0	173	32	9	10	46	1.72
4730868--4731025	43	3.7	44	78	6	155	24	18	26	30	1.98
4730905--4730994	42	2.1	44	85	4	121	24	17	25	32	1.97
4734977--4735458	23	20.6	23	71	9	339	41	16	16	26	1.88
4734958--4735473	70	7.3	69	84	9	643	41	16	15	26	1.88
4734977--4735473	47	10.6	47	70	9	295	41	15	15	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4734928--4735473	140	3.9	140	87	4	778	41	16	15	26	1.88
4749885--4749921	16	2.3	16	95	0	65	43	0	0	56	0.99
4750770--4750857	20	4.3	21	69	19	62	15	1	5	77	1.02
4750770--4750863	9	9.6	9	68	21	55	15	1	5	77	1.00
4761397--4761510	42	2.7	43	86	6	153	21	21	22	35	1.96
4766332--4766580	50	4.8	50	85	4	284	20	29	24	26	1.99
4766331--4766580	100	2.4	104	88	6	357	20	29	24	26	1.99
4766674--4766705	13	2.5	13	94	0	55	56	12	0	31	1.37
4773919--4774167	50	4.8	50	84	4	275	20	28	24	26	1.99
4773918--4774167	100	2.4	104	87	6	348	20	28	24	26	1.99
4774262--4774293	13	2.5	13	94	0	55	56	12	0	31	1.37
4796994--4797026	16	2.1	16	100	0	66	57	12	6	24	1.57
4799340--4799530	97	1.9	99	92	2	323	45	6	17	30	1.74
4810141--4810199	18	3.2	18	81	13	59	67	1	5	25	1.20
4819457--4819643	90	2.1	90	93	0	320	31	8	12	48	1.71
4824103--4824187	42	2.0	43	97	2	163	60	9	2	28	1.41
4841022--4841216	97	2.0	97	87	4	277	38	16	14	29	1.89
4842955--4843011	26	2.2	26	81	6	62	50	3	3	42	1.36
4854055--4854228	65	2.6	65	74	11	149	20	16	18	44	1.86
4858401--4858451	22	2.3	22	93	0	84	60	13	5	19	1.53
4862619--4862652	16	2.1	16	94	0	59	35	5	20	38	1.77
4866082--4866126	22	2.1	21	84	8	56	26	8	8	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4868264--4868306	16	2.5	18	77	7	54	41	2	0	55	1.12
4868517--4868605	44	2.0	46	84	8	121	37	3	17	41	1.67
4868784--4868833	23	2.3	23	82	6	59	30	2	4	64	1.23
4875999--4876025	7	3.9	7	100	0	54	59	11	14	14	1.62
4876484--4876617	70	1.9	69	89	1	205	41	12	11	34	1.79
4878809--4878860	24	2.2	24	89	0	77	51	9	5	32	1.58
4883914--4883965	12	4.4	12	81	11	63	42	7	21	28	1.80
4885149--4885191	18	2.4	18	88	0	59	41	44	2	11	1.53
4885295--4885379	9	9.4	9	85	0	107	27	8	21	43	1.80
4893716--4893760	20	2.2	20	92	0	72	35	0	4	60	1.17

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