genome.fa.s22.2.7.7.80.10.50.1000.23.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  23  of  172  ( 20605 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)
5628920--5628956	17	2.1	18	90	5	58	48	0	10	40	1.38
5629217--5629273	25	2.2	26	78	3	62	50	1	8	38	1.44
5629502--5629737	42	5.6	42	90	1	339	23	22	20	33	1.97
5629814--5629845	14	2.3	14	94	0	55	59	18	9	12	1.59
5630071--5630111	21	2.0	21	95	0	73	4	43	19	31	1.72
5630073--5630119	21	2.2	21	88	0	67	4	42	21	31	1.72
5635580--5636024	26	17.2	25	91	3	638	32	0	20	46	1.54
5635580--5636024	51	8.6	51	93	2	732	32	0	20	46	1.54
5636193--5636338	69	2.1	70	93	5	249	41	6	2	49	1.41
5636224--5636332	35	3.0	35	63	27	82	38	8	2	50	1.47
5636550--5636631	13	6.2	13	69	8	58	46	2	9	41	1.50
5636563--5636662	40	2.5	40	95	0	173	46	3	10	41	1.53
5636568--5636645	23	3.7	23	68	25	71	48	3	7	39	1.50
5636596--5636776	57	3.2	57	96	0	344	41	1	11	45	1.50
5636541--5636840	97	3.1	101	87	8	369	43	2	10	44	1.50
5636727--5636807	23	3.8	23	70	26	79	45	2	8	43	1.48
5636710--5636816	40	2.7	40	98	0	205	42	1	10	44	1.49
5638972--5639405	84	5.1	84	94	3	733	28	19	20	32	1.96
5638972--5639405	172	2.5	172	95	1	777	28	19	20	32	1.96
5641915--5642172	114	2.3	113	91	0	417	25	26	17	29	1.98
5642119--5642226	40	2.7	40	92	0	180	20	29	15	34	1.94
5642304--5642352	12	4.1	12	81	0	53	65	6	4	24	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5645568--5645601	16	2.1	17	88	5	52	52	5	5	35	1.50
5648341--5648885	114	4.8	112	74	9	404	30	17	25	26	1.97
5648988--5649023	18	2.0	18	89	10	56	25	0	5	69	1.10
5649329--5649355	14	1.9	14	100	0	54	29	0	25	44	1.54
5649966--5650028	7	8.9	7	89	3	90	1	0	57	41	1.08
5649966--5650040	21	3.5	21	81	1	87	2	0	52	45	1.15
5652278--5652313	16	2.2	16	95	0	63	27	11	5	55	1.57
5652659--5652693	17	2.1	17	88	0	52	45	14	0	40	1.45
5652695--5652753	13	4.5	13	87	8	75	40	10	1	47	1.47
5653033--5653094	13	4.8	13	86	11	83	43	9	1	45	1.46
5653435--5653565	9	15.0	9	69	15	87	45	19	2	32	1.63
5653370--5653461	39	2.4	38	85	5	114	48	15	2	33	1.57
5653410--5653495	18	4.7	17	72	24	68	46	17	2	33	1.61
5653481--5653538	25	2.3	25	84	0	80	46	18	1	32	1.60
5659082--5659152	21	3.4	20	84	3	79	32	18	45	4	1.69
5659554--5659716	42	3.8	42	85	2	236	23	18	22	34	1.96
5659532--5659712	85	2.1	85	83	2	229	25	18	23	33	1.97
5659554--5659724	85	2.0	87	89	2	265	23	17	22	35	1.95
5661041--5661073	3	10.7	3	93	6	57	33	0	0	66	0.92
5661211--5661249	16	2.3	16	91	8	60	38	7	5	48	1.54
5661269--5661336	2	33.0	2	73	16	50	42	2	4	50	1.37
5661269--5661368	10	9.6	10	72	14	60	37	4	3	56	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5661269--5661328	22	2.7	22	84	5	68	41	3	5	50	1.41
5665904--5665951	9	5.8	9	72	18	50	75	0	10	14	1.06
5665906--5665958	17	3.2	16	84	10	72	77	0	9	13	0.99
5665908--5665960	23	2.3	23	84	12	65	73	0	11	15	1.09
5667158--5667950	186	4.3	187	91	2	1240	28	16	26	28	1.97
5667158--5667939	140	5.6	140	91	1	1225	28	16	26	28	1.97
5667158--5667950	46	17.0	46	91	2	1208	28	16	26	28	1.97
5668406--5668664	52	5.3	52	65	19	180	30	16	24	27	1.97
5667946--5668709	95	8.0	95	95	0	1357	29	18	23	28	1.98
5668695--5668973	132	2.1	133	77	7	293	33	17	22	25	1.96
5669765--5669790	12	2.2	12	100	0	52	0	30	61	7	1.24
5669780--5669842	20	3.2	20	97	0	117	4	36	50	7	1.53
5670525--5670563	16	2.3	16	91	8	60	38	7	5	48	1.54
5670583--5670681	10	9.8	10	73	18	55	36	4	3	56	1.34
5670583--5670642	22	2.7	22	84	5	68	41	3	5	50	1.41
5673846--5673879	16	2.1	17	88	5	52	52	5	5	35	1.50
5675647--5676080	144	3.0	144	96	0	789	27	20	18	33	1.96
5679556--5680267	46	14.6	51	80	8	749	29	18	24	27	1.98
5679556--5680272	97	7.4	97	87	3	862	29	18	24	27	1.98
5679514--5680269	143	5.2	139	84	4	609	29	19	24	27	1.98
5692262--5700222	97	82.1	97	73	10	2490	30	17	22	28	1.97
5692291--5693493	46	25.2	46	69	11	431	29	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5693744--5693869	46	2.7	46	80	3	137	34	19	19	27	1.95
5693744--5700767	51	145.0	46	71	11	2927	30	17	22	28	1.97
5693737--5700761	148	48.3	148	72	10	3150	30	17	22	28	1.97
5697669--5698215	245	2.2	245	83	2	670	30	18	22	28	1.97
5698466--5698584	50	2.4	51	80	8	127	35	16	17	30	1.93
5698567--5698735	90	1.9	90	86	2	241	28	19	23	28	1.98
5700094--5700769	97	7.0	96	77	5	571	31	16	22	29	1.96
5700051--5700364	143	2.2	143	84	7	390	31	15	22	29	1.95
5693744--5700769	194	36.3	194	73	9	3603	30	17	22	28	1.97
5700796--5701014	44	5.0	44	80	6	237	31	23	21	24	1.98
5701891--5702894	97	10.4	97	84	0	1200	29	17	23	28	1.97
5702929--5703108	44	4.1	44	77	5	193	30	21	21	26	1.98
5704749--5704805	27	2.1	28	83	3	71	21	7	15	56	1.63
5708591--5708626	17	2.1	17	89	5	54	19	2	11	66	1.35
5712914--5713121	94	2.2	94	84	3	276	30	16	19	33	1.94
5713338--5714105	89	8.6	89	86	2	988	23	22	24	29	1.99
5715359--5715416	5	11.4	5	82	17	75	0	20	0	79	0.74
5715353--5715413	17	3.4	18	84	15	65	0	22	0	77	0.78
5715359--5715416	29	2.1	29	90	6	93	0	20	0	79	0.74
5719266--5719341	35	2.2	35	97	0	143	57	2	6	32	1.38
5719724--5719760	19	1.9	19	88	0	56	59	5	2	32	1.34
5721473--5721776	144	2.1	144	88	2	450	29	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5731873--5731911	13	2.9	14	84	7	53	66	12	12	7	1.43
5733802--5733844	6	7.2	6	97	0	77	2	18	13	65	1.38
5734936--5734982	19	2.5	19	86	6	60	23	19	12	44	1.85
5737533--5737564	6	5.3	6	92	0	55	68	12	3	15	1.32
5737516--5737554	21	2.0	20	90	10	62	74	12	0	12	1.08
5737533--5737594	18	3.6	18	81	14	60	72	6	9	11	1.27
5738838--5739973	87	13.1	87	89	0	1594	30	21	22	25	1.99
5738985--5739381	45	9.2	43	62	19	128	30	22	21	24	1.99
5738838--5739970	260	4.4	261	92	0	1768	30	21	22	25	1.99
5738838--5739973	347	3.3	347	88	0	1698	30	21	22	25	1.99
5738941--5739772	45	19.2	43	61	18	118	29	21	23	25	1.99
5741081--5741366	101	2.8	101	93	1	475	24	17	26	31	1.97
5741081--5741366	51	5.7	50	76	5	236	24	17	26	31	1.97
5741288--5741368	26	3.2	26	64	22	62	23	13	27	35	1.92
5741376--5741582	43	4.9	42	79	9	233	24	16	24	34	1.96
5741376--5741584	85	2.5	85	94	0	366	24	17	24	33	1.96
5743237--5743405	50	3.4	49	69	10	137	28	22	22	26	1.99
5745017--5745049	16	2.1	16	94	0	57	18	3	3	75	1.06
5746061--5746097	6	6.2	6	96	0	56	5	18	10	64	1.43
5747357--5747563	109	1.9	108	87	5	303	36	19	14	28	1.92
5748291--5748342	26	2.0	26	100	0	104	53	3	0	42	1.19
5748586--5748632	15	3.2	15	84	3	51	70	0	2	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5749314--5749356	22	2.0	22	81	9	52	9	44	37	9	1.69
5750708--5750886	92	1.9	92	100	0	358	36	7	11	43	1.70
5751118--5751184	20	3.2	21	77	14	77	37	0	0	62	0.95
5751119--5751174	9	5.8	9	80	15	67	37	0	0	62	0.95
5751119--5751200	29	2.7	30	78	15	80	37	0	0	62	0.96
5759326--5759355	15	2.0	15	100	0	60	26	6	40	26	1.81
5762555--5762587	2	16.5	2	100	0	66	48	0	0	51	1.00
5762994--5763311	107	3.0	106	85	3	458	31	18	17	32	1.94
5765627--5765706	40	2.0	40	100	0	160	35	15	12	37	1.85
5767657--5767853	98	2.0	98	94	2	342	36	23	10	29	1.88

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