genome.fa.s16.2.7.7.80.10.50.1000.105.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  105  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)
33479163--33479202	15	2.5	17	76	19	50	42	2	17	37	1.63
33479534--33479642	43	2.6	42	80	10	116	30	17	20	32	1.95
33483852--33483886	18	1.9	18	94	0	61	28	11	20	40	1.87
33488444--33488488	19	2.4	19	88	7	65	28	8	26	35	1.87
33490579--33490708	27	4.9	27	83	0	154	30	22	7	39	1.82
33490583--33490734	54	2.8	54	83	0	178	32	21	7	38	1.82
33490685--33490930	27	9.2	27	76	9	184	40	21	8	29	1.83
33490699--33490907	53	3.9	52	81	6	161	40	21	9	29	1.83
33490699--33490853	79	2.0	80	85	3	215	41	21	9	28	1.83
33490694--33490992	27	11.1	27	77	10	166	40	19	9	30	1.83
33491045--33491105	27	2.3	27	80	5	70	34	19	26	19	1.96
33491918--33492011	25	3.8	25	91	1	145	26	27	22	23	1.99
33492230--33492370	31	4.5	31	94	0	246	27	17	27	26	1.98
33492231--33492431	93	2.2	93	81	8	223	28	19	26	25	1.99
33495595--33495695	40	2.5	40	85	3	132	22	17	22	36	1.95
33500361--33500428	29	2.3	29	80	5	75	29	29	11	29	1.92
33500250--33500575	174	1.9	174	95	0	589	31	24	13	30	1.94
33500530--33500608	29	2.7	30	82	13	110	29	30	15	25	1.96
33507394--33507589	30	6.5	31	77	10	183	21	25	12	40	1.89
33507353--33507644	120	2.4	119	83	4	374	22	25	14	38	1.92
33507575--33507644	29	2.4	29	87	0	113	22	27	12	37	1.91
33513471--33513614	74	1.9	74	94	2	254	27	27	25	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33514837--33514895	30	2.0	30	82	0	73	22	20	16	40	1.91
33514886--33515051	30	5.5	30	77	11	128	24	25	12	37	1.90
33514871--33515077	90	2.3	89	80	6	222	23	25	14	37	1.92
33514839--33515060	120	1.9	120	82	0	273	23	23	14	37	1.93
33517075--33517123	21	2.3	21	78	0	62	26	30	4	38	1.75
33523889--33523987	28	3.6	27	81	9	119	31	12	28	28	1.92
33524920--33525203	47	6.0	47	90	2	403	27	13	16	43	1.84
33530130--33530164	16	2.2	16	89	0	52	42	0	5	51	1.25
33532477--33532525	25	2.0	25	87	0	71	32	18	22	26	1.97
33540249--33540280	3	10.7	3	93	0	55	34	3	0	62	1.11
33541073--33541142	3	23.3	3	100	0	140	65	0	0	34	0.93
33547969--33548129	49	3.3	49	86	2	216	23	23	20	32	1.98
33547969--33548129	25	6.5	25	76	16	140	23	23	20	32	1.98
33550956--33551010	27	2.0	27	82	6	67	47	1	7	43	1.41
33551170--33551212	16	2.6	17	82	14	54	41	2	0	55	1.12
33559746--33559866	59	2.1	59	93	3	208	54	7	4	33	1.47
33561782--33561844	30	2.1	31	93	3	110	66	0	3	30	1.07
33564171--33564226	26	2.2	24	87	6	76	57	5	0	37	1.22
33564288--33564339	27	1.9	27	88	0	77	44	3	3	48	1.39
33564979--33565040	31	2.0	31	87	6	90	29	1	1	67	1.09
33566926--33567219	59	5.0	59	94	1	491	31	4	9	53	1.54
33570662--33570737	34	2.3	34	88	2	109	36	19	0	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33572868--33572949	25	3.4	23	66	16	58	28	12	18	41	1.86
33573688--33573712	13	1.9	13	100	0	50	56	8	16	20	1.65
33574494--33574523	6	5.0	6	100	0	60	50	0	0	50	1.00
33577623--33577919	91	3.3	91	96	0	533	46	3	3	47	1.36
33577623--33577953	44	7.3	46	68	20	205	45	3	3	47	1.35
33577946--33578134	59	3.2	58	67	19	163	42	2	4	50	1.35
33577935--33578230	120	2.5	120	94	1	522	43	2	5	49	1.36
33578057--33578092	18	2.1	18	89	5	56	38	0	0	61	0.96
33578180--33578221	15	2.9	15	82	10	52	47	0	0	52	1.00
33578530--33578571	18	2.3	18	87	0	57	11	2	7	78	1.04
33583989--33584089	25	4.0	25	75	10	98	29	28	19	21	1.98
33591750--33591819	25	2.8	25	80	6	88	28	27	22	21	1.99
33594394--33594429	16	2.2	17	90	5	56	30	0	2	66	1.06
33594360--33594527	83	2.0	83	97	0	318	38	6	11	43	1.67
33594477--33594512	16	2.2	17	90	5	56	27	0	5	66	1.13
33597678--33597893	43	5.0	43	84	5	278	29	30	17	23	1.97
33598245--33598290	21	2.2	21	84	0	56	0	41	19	39	1.52
33603848--33603917	9	8.0	9	79	9	74	34	0	18	47	1.49
33603852--33603917	34	1.9	34	81	6	80	33	0	18	48	1.48
33603999--33604031	13	2.5	13	95	0	57	33	9	0	57	1.30
33605242--33605294	24	2.2	24	96	0	97	49	3	3	43	1.38
33605722--33605757	17	2.1	17	94	0	63	38	11	38	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33605998--33606065	33	2.1	33	94	0	118	35	27	4	32	1.77
33606687--33606726	15	2.8	14	85	7	53	37	2	35	25	1.69
33606701--33606757	23	2.4	22	80	13	60	36	1	42	19	1.62
33606720--33606773	23	2.3	23	84	6	65	38	1	38	20	1.63
33606877--33607259	116	3.3	115	78	4	403	33	18	15	31	1.93
33607019--33607286	116	2.3	115	82	4	279	29	21	16	32	1.95
33608269--33608425	41	3.8	40	85	3	215	27	24	19	28	1.99
33609596--33609633	19	2.0	19	100	0	76	26	31	10	31	1.90
33610217--33610267	25	2.0	26	84	3	68	39	11	9	39	1.75
33610466--33610561	17	5.6	17	68	24	69	52	4	2	41	1.32
33610466--33610577	20	6.1	18	72	17	79	52	3	1	41	1.29
33614628--33614691	24	2.7	23	76	13	58	39	1	6	53	1.36
33620628--33620737	42	2.6	42	88	0	157	18	32	26	22	1.97
33626190--33626574	51	7.6	50	77	3	351	29	26	15	29	1.96
33626190--33626574	102	3.8	102	91	0	583	29	26	15	29	1.96
33627043--33627105	28	2.1	28	82	8	72	31	20	4	42	1.73
33630835--33630921	39	2.2	39	87	0	120	34	17	29	18	1.94
33630855--33630918	19	3.3	19	68	12	58	34	17	31	17	1.93
33630849--33630923	39	1.9	39	94	0	132	33	17	30	18	1.94
33633844--33633989	40	3.7	40	84	7	181	26	27	22	23	2.00
33641769--33641862	41	2.3	41	89	5	138	27	27	21	23	1.99
33649926--33649997	25	2.9	25	81	6	74	18	27	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33650005--33650060	27	2.1	27	83	3	69	19	25	16	39	1.91
33657836--33657918	25	3.3	25	75	0	85	19	30	18	32	1.95
33657800--33657947	74	2.0	75	80	11	169	18	28	17	35	1.93
33657911--33657980	24	2.8	24	72	14	61	18	25	20	35	1.95
33681207--33681289	25	3.3	24	75	9	69	30	24	21	24	1.99
33702740--33702773	17	2.0	17	88	0	50	29	26	32	11	1.92
33716789--33716981	90	2.1	90	98	0	368	30	14	5	49	1.67
33718648--33718682	16	2.3	15	90	5	52	57	5	2	34	1.37
33718802--33718923	60	2.0	60	88	3	183	54	13	0	31	1.45
33718916--33719368	19	22.3	19	68	23	143	56	14	0	29	1.41
33718916--33719019	23	4.9	22	84	13	139	52	17	0	29	1.44
33718917--33719026	42	2.6	42	97	0	211	52	17	0	30	1.45
33718972--33719163	27	7.0	27	76	16	182	56	14	0	29	1.38
33719102--33719153	8	6.1	8	82	12	68	57	13	0	28	1.36
33719068--33719264	40	5.0	42	70	20	97	58	11	0	29	1.34
33718977--33719343	115	3.4	111	87	8	528	56	13	0	29	1.37
33719198--33719364	40	4.1	40	70	21	141	56	13	0	29	1.41
33719113--33719365	101	2.4	101	88	3	371	57	13	0	29	1.39
33719373--33719445	27	2.7	27	89	0	119	17	28	23	30	1.97
33725297--33725346	25	2.0	25	100	0	100	20	24	40	16	1.91
33726482--33726538	28	2.0	28	93	0	96	40	15	10	33	1.82
33728680--33728732	3	17.7	3	88	0	79	37	1	0	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33729225--33729607	109	3.5	109	88	1	568	30	16	20	32	1.95
33730662--33731083	109	3.8	110	86	4	582	30	16	19	32	1.95
33732058--33732115	29	2.0	29	100	0	116	34	17	10	37	1.84
33732437--33732482	21	2.2	21	100	0	92	17	13	0	69	1.19
33734949--33734991	20	2.2	20	83	8	52	9	20	4	65	1.40
33735325--33735353	7	4.1	7	100	0	58	0	72	0	27	0.85
33746051--33746080	14	2.1	14	93	0	51	83	0	3	13	0.77
33762855--33762901	22	2.1	22	84	0	58	19	17	10	53	1.72
33764394--33764459	31	2.1	31	88	5	98	46	9	10	33	1.70
33775665--33775704	20	2.0	20	90	0	62	27	10	12	50	1.72

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