genome.fa.s16.2.7.7.80.10.50.1000.18.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_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  18  of  170  ( 20315 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)
4894240--4894315	10	7.4	11	75	20	58	61	0	2	35	1.10
4894272--4894345	19	3.8	19	82	10	78	63	0	2	33	1.09
4894263--4894315	10	5.1	10	82	13	63	66	0	1	32	1.03
4894214--4894334	40	3.0	40	83	10	131	61	0	2	35	1.15
4905289--4905329	22	1.9	21	85	14	57	53	12	2	31	1.51
4906832--4906859	10	2.8	10	100	0	56	32	0	28	39	1.57
4920833--4920869	9	4.1	9	85	0	56	48	13	8	29	1.71
4921543--4921588	18	2.6	18	96	3	85	32	4	0	63	1.14
4925591--4925675	9	9.4	9	83	5	100	43	22	8	25	1.81
4925590--4925684	18	5.3	18	82	5	111	44	22	7	26	1.79
4925591--4925684	27	3.5	27	81	5	118	43	22	7	26	1.79
4926631--4926677	20	2.3	20	85	0	67	46	21	23	8	1.78
4933177--4933232	24	2.3	24	75	0	58	19	21	32	26	1.97
4933282--4933358	27	2.9	27	79	9	86	28	14	27	29	1.95
4933829--4933896	28	2.4	28	92	0	109	16	29	23	30	1.96
4936989--4937025	17	2.1	18	85	14	51	70	2	2	24	1.14
4938289--4938395	54	2.0	54	88	3	162	36	15	23	24	1.94
4944954--4944995	17	2.4	19	80	15	54	45	4	0	50	1.23
4948297--4948325	14	2.1	14	100	0	58	34	24	20	20	1.97
4956667--4956723	30	1.9	30	82	13	73	47	3	0	49	1.18
4957568--4957618	21	2.5	20	72	18	50	64	3	1	29	1.22
4959106--4959140	17	2.0	18	88	5	54	20	2	8	68	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4959962--4960035	21	3.5	21	66	10	53	17	18	17	45	1.85
4959900--4960056	42	3.7	43	80	6	160	17	22	16	43	1.88
4962442--4962474	2	16.5	2	100	0	66	0	48	0	51	1.00
4964070--4964109	16	2.7	14	85	11	53	42	5	0	52	1.23
4970702--4970743	19	2.2	19	100	0	84	45	19	4	30	1.71
4973519--4973566	19	2.5	19	89	0	69	33	31	18	16	1.94
4978029--4978077	22	2.2	22	81	0	62	65	4	4	26	1.29
4978054--4978095	19	2.2	19	86	0	57	64	0	4	30	1.14
4978062--4978167	54	1.9	54	83	11	135	62	1	6	29	1.31
4978302--4978407	19	5.7	18	70	15	74	36	1	1	59	1.19
4978360--4978417	19	3.1	19	74	18	66	44	3	0	51	1.18
4979469--4979498	14	2.2	13	94	5	51	30	16	0	53	1.44
4979915--4979940	7	3.7	7	100	0	52	42	0	0	57	0.98
4992431--4992675	26	9.4	26	75	2	123	21	13	26	38	1.91
4992436--4992660	78	2.9	79	79	1	229	20	14	28	37	1.91
4992431--4992673	52	4.7	52	79	0	198	20	13	26	38	1.90
5002081--5002128	17	2.7	17	87	9	62	37	2	2	58	1.22
5008805--5008829	7	3.6	7	100	0	50	24	0	0	76	0.80
5010859--5011592	156	4.6	157	88	3	985	34	13	12	39	1.82
5020876--5020928	16	3.2	16	94	5	97	24	0	37	37	1.56
5020909--5020999	45	2.0	45	85	2	121	27	6	28	37	1.82
5021144--5021198	15	3.4	16	80	16	53	54	1	0	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5021150--5021198	16	2.9	18	80	20	61	55	0	0	44	0.99
5021246--5021458	67	3.1	67	65	20	163	46	4	3	46	1.38
5021051--5021378	156	2.1	156	96	0	602	42	3	6	46	1.46
5021320--5021354	18	2.0	17	88	5	52	54	0	0	45	0.99
5021237--5021496	137	1.9	137	91	1	387	44	4	4	46	1.42
5021258--5021536	137	2.0	135	82	8	332	45	5	3	45	1.44
5024806--5025076	64	4.0	64	70	18	213	33	9	8	48	1.67
5024725--5025036	145	2.2	145	95	0	552	34	10	8	46	1.67
5031298--5031322	13	1.9	13	100	0	50	32	4	24	40	1.73
5035676--5035745	6	11.0	6	71	17	52	75	1	15	7	1.08
5035676--5035731	24	2.4	23	88	5	85	76	1	12	8	1.08
5035673--5035745	17	4.2	17	78	18	71	75	1	16	6	1.09
5037535--5037577	14	3.3	13	90	6	61	30	25	13	30	1.94
5038004--5038040	3	12.3	3	100	0	74	32	0	0	67	0.91
5038247--5038282	19	1.9	18	88	5	54	22	8	11	58	1.59
5040757--5040789	17	2.0	17	88	5	50	33	12	3	51	1.54
5041742--5041886	67	2.2	67	96	0	263	42	10	11	35	1.76
5042179--5042450	43	6.1	42	81	11	294	26	25	18	28	1.98
5042250--5042438	87	2.2	86	89	2	290	26	25	19	29	1.98
5042804--5042935	66	2.0	66	88	2	194	15	25	17	42	1.88
5048302--5048474	9	19.0	9	82	4	213	31	2	17	47	1.60
5048315--5048474	37	4.4	37	92	2	252	31	1	18	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5048655--5048746	39	2.3	39	96	1	166	63	0	2	34	1.07
5048736--5048830	40	2.3	39	89	8	145	66	0	3	30	1.07
5048652--5048822	10	16.9	10	72	16	77	61	0	2	35	1.11
5048649--5048781	11	12.9	11	74	19	74	60	0	2	36	1.09
5049030--5049085	9	6.2	9	85	8	78	32	1	19	46	1.61
5049139--5049208	12	6.0	12	80	6	81	31	2	17	48	1.61
5049301--5049357	9	6.7	9	76	9	57	43	1	12	42	1.52
5049303--5049334	16	2.0	16	93	0	55	40	0	12	46	1.42
5049487--5049544	29	2.0	29	100	0	116	41	3	24	31	1.71
5053654--5053694	22	1.9	21	85	14	57	56	24	0	19	1.42
5053718--5053787	16	4.4	16	67	16	56	50	21	1	27	1.57
5053721--5053796	23	3.3	23	73	23	86	48	22	1	27	1.58
5054221--5054334	41	2.8	40	88	5	165	40	28	15	15	1.88
5075118--5075187	8	8.5	8	76	17	72	84	0	14	1	0.70
5075119--5075187	25	2.8	25	80	8	86	84	0	14	1	0.70
5075116--5075188	18	3.8	19	86	13	89	83	0	15	1	0.71
5076128--5076181	24	2.2	24	83	6	65	37	11	20	31	1.88
5076475--5076677	45	4.5	45	79	0	183	31	20	23	25	1.98
5076454--5076680	90	2.5	88	76	7	233	30	21	22	25	1.98
5076617--5076757	76	1.9	76	86	3	203	35	19	20	24	1.96
5076719--5077021	44	6.9	44	69	15	151	29	26	22	21	1.99
5076697--5077020	89	3.7	89	88	1	465	30	25	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5077179--5077372	44	4.6	41	75	6	154	28	22	18	30	1.97
5077220--5077514	44	6.7	44	74	10	194	31	20	19	28	1.97
5077175--5077547	129	2.8	129	83	4	428	31	21	19	28	1.97
5079298--5079322	13	1.9	13	100	0	50	28	0	16	56	1.41
5079441--5079517	37	2.1	37	85	0	100	29	7	5	57	1.49
5082243--5082270	14	2.0	14	100	0	56	28	35	28	7	1.84
5083783--5083824	20	2.0	21	86	4	59	38	11	0	50	1.40
5084440--5084575	73	1.9	73	87	6	204	30	19	15	34	1.93
5087479--5087548	9	7.8	9	96	0	113	22	10	28	38	1.87
5093462--5093504	22	2.0	22	86	9	61	41	0	2	55	1.12
5093988--5094017	13	2.4	13	94	5	53	0	26	0	73	0.84
5096860--5096940	33	2.6	30	81	13	92	40	1	2	55	1.21
5097967--5098005	7	5.6	7	90	0	60	15	20	12	51	1.76
5097967--5098014	21	2.3	21	88	0	69	12	22	14	50	1.77
5109728--5109834	50	2.1	50	80	0	124	26	21	30	21	1.98
5110124--5110162	12	3.2	12	85	7	53	53	7	23	15	1.67
5112517--5112673	64	2.5	64	83	0	197	22	29	22	24	1.99
5130831--5130868	20	1.9	20	89	10	60	42	13	5	39	1.66
5134426--5134478	24	2.2	24	89	0	79	52	7	3	35	1.48
5136677--5136762	40	2.3	36	80	13	93	32	5	9	52	1.57
5140295--5140340	23	1.9	25	86	8	69	26	4	6	63	1.38
5140021--5141106	320	3.4	322	93	2	1871	29	12	7	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5141007--5141203	98	2.0	98	83	8	251	27	13	7	51	1.67
5140857--5141361	257	2.0	254	89	5	768	30	12	6	50	1.65
5141727--5141789	5	13.4	5	77	9	53	0	33	0	66	0.92
5141735--5141804	14	4.7	14	71	23	54	1	31	0	67	1.00
5141712--5141795	32	2.6	32	80	12	91	1	32	0	66	0.99
5141704--5141803	42	2.4	43	85	8	127	1	31	0	68	0.97
5141749--5141804	28	2.0	28	89	0	85	1	32	0	66	1.03
5141755--5141814	28	2.1	28	81	0	66	1	36	0	61	1.06
5144656--5145424	163	4.8	160	69	17	552	31	12	7	49	1.67
5145325--5145522	98	2.0	99	86	5	278	28	13	7	51	1.66

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