genome.fa.s16.2.7.7.80.10.50.1000.19.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  19  of  175  ( 20966 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)
5088408--5088503	20	4.6	20	74	14	70	0	37	0	62	0.95
5088434--5088498	10	6.6	10	77	8	62	0	33	0	66	0.92
5088452--5088506	13	3.9	13	77	13	56	0	34	0	65	0.93
5088539--5088604	27	2.4	27	87	0	96	6	34	33	25	1.81
5089158--5089217	27	2.1	29	84	6	79	13	0	36	50	1.42
5089203--5089540	96	3.5	96	80	6	348	37	2	18	41	1.64
5090914--5090962	21	2.3	22	82	10	66	2	22	42	32	1.65
5093091--5093139	22	2.2	21	82	10	62	48	0	28	22	1.50
5093091--5093139	11	4.5	10	78	16	53	48	0	28	22	1.50
5094263--5094318	16	3.5	16	85	4	78	42	5	21	30	1.75
5094497--5094620	58	2.1	58	88	2	178	53	3	0	43	1.17
5098092--5098165	21	3.7	21	89	10	120	39	9	13	37	1.77
5098091--5098172	40	2.2	37	84	8	112	39	8	14	37	1.77
5098098--5098165	19	3.5	19	91	4	100	39	8	13	38	1.75
5098724--5098775	25	2.1	25	85	7	70	32	3	5	57	1.40
5099343--5099379	19	1.9	19	88	0	56	32	5	8	54	1.53
5099619--5099813	98	2.0	98	95	0	354	28	10	24	36	1.88
5103492--5103554	32	2.0	32	96	0	117	26	19	14	39	1.90
5104115--5104162	20	2.4	19	86	10	69	87	8	0	4	0.66
5105498--5105709	44	4.8	43	67	12	126	28	20	26	24	1.99
5105428--5105816	132	2.9	131	93	0	661	29	21	25	24	1.99
5105801--5106358	44	12.9	43	74	10	349	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5105804--5106409	217	2.8	217	94	0	1068	29	20	23	27	1.99
5106575--5106693	19	5.9	21	80	16	135	36	8	14	40	1.76
5106574--5106693	38	3.0	39	86	9	163	36	8	15	40	1.77
5106574--5106667	19	4.8	19	87	5	143	37	9	15	37	1.81
5107215--5107266	25	2.1	25	85	7	70	32	3	5	57	1.40
5107832--5107868	19	1.9	19	88	0	56	32	5	8	54	1.53
5108108--5108302	98	2.0	98	95	0	354	27	10	25	36	1.88
5109891--5109940	26	1.9	26	95	0	91	60	30	0	10	1.30
5110352--5110385	11	3.1	11	91	0	50	20	0	38	41	1.53
5111061--5111092	17	1.9	16	93	6	55	21	3	0	75	0.95
5111061--5111092	8	3.9	8	92	8	55	21	3	0	75	0.95
5114440--5114496	19	2.9	21	80	17	61	70	7	1	21	1.20
5117973--5118022	7	7.1	7	100	0	100	28	0	0	72	0.86
5118179--5118224	6	7.7	6	97	0	65	41	0	0	58	0.98
5118179--5118224	3	15.3	3	81	0	56	41	0	0	58	0.98
5118343--5118368	4	6.5	4	100	0	52	23	0	0	76	0.78
5118819--5119012	107	1.8	107	90	2	318	31	17	18	32	1.94
5123983--5124070	44	2.0	44	97	0	167	39	29	5	25	1.78
5126417--5126459	2	21.5	2	100	0	86	48	0	51	0	1.00
5128745--5128777	12	2.8	12	95	0	57	54	0	9	36	1.32
5136619--5136680	31	2.1	30	82	17	76	29	14	8	48	1.72
5136859--5136972	50	2.3	50	84	3	140	33	21	21	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5136866--5136960	25	3.8	25	77	15	97	35	20	21	23	1.96
5136859--5136970	25	4.5	25	75	12	95	33	21	21	24	1.98
5145536--5145568	11	3.1	11	86	8	50	30	0	33	36	1.58
5145538--5145579	21	2.0	21	90	0	66	35	0	23	40	1.55
5150968--5151018	22	2.3	22	81	18	61	60	5	5	27	1.43
5154121--5154182	30	2.1	30	81	6	72	40	3	4	51	1.39
5154793--5154832	18	2.2	19	86	13	57	5	37	0	57	1.21
5174922--5174955	16	2.1	16	94	0	59	11	35	0	52	1.38
5175824--5175857	11	3.1	11	100	0	68	35	11	8	44	1.72
5176097--5176739	321	2.0	321	98	0	1241	29	13	17	39	1.89
5177385--5177424	20	2.0	20	85	0	53	50	15	10	25	1.74
5185036--5185789	376	2.0	375	98	0	1463	40	17	15	27	1.89
5186934--5186984	25	2.1	24	82	13	61	25	1	13	58	1.46
5190920--5190987	31	2.2	32	79	12	79	57	2	4	35	1.34
5191629--5191686	26	2.2	27	88	11	86	32	6	0	60	1.23
5202253--5202485	41	5.7	41	87	2	297	23	27	20	28	1.99
5202264--5202485	123	1.8	123	87	2	329	23	27	20	28	1.99
5208872--5208939	27	2.5	26	71	15	66	45	2	10	41	1.53
5209298--5209344	8	6.4	7	81	16	51	55	0	2	42	1.12
5209306--5209352	16	3.0	16	84	6	60	55	2	0	42	1.12
5209306--5209350	21	2.1	21	88	8	65	55	2	0	42	1.12
5217162--5217247	40	2.2	40	97	0	163	36	15	17	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5219150--5219191	18	2.3	19	83	4	59	71	7	2	19	1.20
5219645--5219716	17	4.4	17	68	28	66	59	0	1	38	1.06
5219635--5219740	12	10.4	11	71	23	81	57	0	3	38	1.17
5219644--5219750	48	2.2	47	88	8	153	57	0	2	39	1.13
5230705--5230745	22	1.9	21	85	14	57	53	12	2	31	1.51
5232246--5232273	10	2.8	10	100	0	56	32	0	28	39	1.57
5242824--5242863	17	2.4	17	86	0	53	60	0	7	32	1.25
5246238--5246274	9	4.1	9	85	0	56	48	13	8	29	1.71
5246949--5246981	17	2.1	16	88	11	50	30	6	0	63	1.18
5247308--5247335	5	5.6	5	100	0	56	21	17	21	39	1.93
5250772--5250874	9	11.4	9	83	4	118	42	21	8	27	1.82
5251821--5251867	20	2.3	20	81	0	58	48	19	23	8	1.75
5258478--5258551	27	2.8	26	72	10	69	32	13	22	31	1.93
5259022--5259089	28	2.4	28	87	0	91	17	29	20	32	1.96
5262182--5262218	17	2.1	18	85	14	51	70	2	2	24	1.14
5263482--5263588	54	2.0	54	88	3	162	36	15	23	24	1.94
5281888--5281944	30	1.9	30	82	13	73	47	3	0	49	1.18
5282790--5282840	21	2.5	20	72	18	50	64	3	1	29	1.22
5282863--5282887	11	2.3	11	100	0	50	76	0	0	24	0.80
5284325--5284359	17	2.0	18	88	5	54	20	2	8	68	1.29
5285119--5285275	42	3.7	42	80	5	174	17	21	17	43	1.87
5285119--5285277	21	7.6	21	69	5	97	16	22	17	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5287660--5287704	2	22.5	2	100	0	90	0	48	0	51	1.00
5289298--5289337	16	2.7	14	85	11	53	42	5	0	52	1.23
5298706--5298753	19	2.5	19	86	0	69	31	29	20	18	1.97
5303217--5303265	22	2.2	22	81	0	62	65	4	4	26	1.29
5303242--5303283	19	2.2	19	86	0	57	64	0	4	30	1.14
5303250--5303355	54	1.9	54	83	11	135	62	1	6	29	1.31
5303491--5303545	9	5.9	9	75	8	56	30	1	3	63	1.22
5303491--5303617	19	6.8	18	69	13	80	38	2	1	57	1.21
5303495--5303602	55	2.0	55	82	10	132	41	2	1	53	1.26
5304651--5304680	14	2.2	13	94	5	51	30	16	0	53	1.44
5317595--5317840	26	9.4	26	75	0	195	21	14	26	38	1.91
5327286--5327333	17	2.7	17	87	9	62	37	2	2	58	1.22
5333838--5333866	3	9.7	3	100	0	58	31	0	0	68	0.89
5333972--5333996	7	3.6	7	100	0	50	24	0	0	76	0.80
5334858--5334902	22	2.1	21	87	4	63	13	17	26	42	1.86
5334972--5335262	43	6.8	43	90	0	440	27	32	18	22	1.97
5340183--5340267	39	2.2	39	86	0	116	21	21	18	38	1.93
5340675--5340714	21	1.9	21	85	10	55	40	37	0	22	1.54
5340900--5340938	16	2.4	17	95	4	71	46	0	0	53	1.00
5341144--5341210	28	2.4	29	80	7	75	49	25	0	25	1.51
5341180--5341232	22	2.4	23	81	12	58	49	20	1	28	1.60
5341089--5341210	7	17.6	7	68	11	63	45	29	0	23	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5341521--5341566	20	2.4	20	82	7	51	63	4	4	28	1.33
5341573--5341681	41	2.7	41	91	0	173	32	28	21	18	1.96
5342950--5343683	156	4.6	157	89	2	1026	34	13	12	39	1.82
5356561--5356585	13	1.9	13	100	0	50	32	4	24	40	1.73
5360939--5361008	6	11.0	6	71	17	52	75	1	15	7	1.08
5360939--5360994	24	2.4	23	88	5	85	76	1	12	8	1.08
5360936--5361008	17	4.2	17	78	18	71	75	1	16	6	1.09
5362797--5362839	14	3.3	13	90	6	61	30	25	13	30	1.94
5363266--5363293	3	9.3	3	100	0	56	32	0	0	67	0.91
5363499--5363534	19	1.9	18	88	5	54	22	8	11	58	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