genome.fa.s17.2.7.7.80.10.50.1000.155.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  155  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)
47823909--47824102	99	2.0	99	88	2	291	36	11	10	41	1.76
47825280--47825321	11	3.8	11	87	0	57	21	19	7	52	1.69
47825483--47825536	15	3.4	15	76	14	54	27	1	5	64	1.26
47827613--47827660	25	1.9	25	100	0	96	45	0	14	39	1.45
47827703--47828161	23	20.2	23	77	12	430	48	25	0	25	1.53
47827703--47828162	68	6.8	67	79	11	467	48	25	0	26	1.53
47827748--47828161	158	2.6	159	82	9	538	48	25	0	25	1.53
47827703--47828161	91	5.0	91	80	12	498	48	25	0	25	1.53
47828156--47828515	116	3.1	115	92	1	603	39	8	6	44	1.63
47828332--47828515	55	3.2	54	66	14	145	40	8	5	44	1.60
47828274--47828462	61	3.2	61	65	14	169	40	8	7	42	1.64
47830701--47831048	124	2.8	124	92	0	572	33	20	16	29	1.95
47833504--47833530	6	4.5	6	100	0	54	55	14	14	14	1.70
47838734--47838769	12	2.9	13	88	12	58	69	0	0	30	0.89
47847603--47847630	6	4.7	6	100	0	56	14	50	0	35	1.43
47852227--47852269	22	2.0	22	81	9	52	55	4	13	25	1.58
47855213--47855245	3	11.0	3	100	0	66	33	0	0	66	0.92
47862485--47862528	22	2.0	22	86	8	63	34	0	0	65	0.93
47865082--47865106	6	4.2	6	100	0	50	16	0	0	84	0.63
47873086--47873122	4	9.2	4	93	0	65	27	0	24	48	1.51
47875963--47876140	51	3.5	51	75	5	155	24	14	28	33	1.94
47875956--47876140	101	1.8	102	87	3	275	24	14	27	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47876144--47876238	45	2.1	45	94	3	165	28	18	23	29	1.98
47879348--47879378	3	10.3	3	100	0	62	64	0	35	0	0.94
47880435--47880473	20	2.0	20	89	0	60	53	7	0	38	1.30
47884964--47885015	22	2.3	23	93	3	88	42	0	21	36	1.53
47885589--47885660	27	2.6	27	84	8	92	34	6	5	52	1.52
47886794--47886846	21	2.7	21	80	11	67	26	20	20	32	1.98
47886796--47886847	18	2.7	19	82	8	61	26	21	19	32	1.97
47887345--47887391	24	1.9	25	82	4	60	55	2	4	38	1.31
47891190--47891240	21	2.4	21	83	3	66	7	5	7	78	1.09
47891664--47891893	120	1.9	120	84	0	307	32	20	15	31	1.94
47901974--47902078	50	2.1	50	96	0	192	54	5	1	38	1.35
47902345--47902379	18	1.9	18	100	0	70	22	11	37	28	1.89
47902642--47902668	14	1.9	14	100	0	54	22	0	11	66	1.22
47906714--47906789	31	2.3	34	74	19	81	11	11	0	76	1.03
47916983--47917050	30	2.2	31	86	2	93	27	11	14	45	1.80
47917071--47917179	45	2.4	45	81	3	139	26	19	12	41	1.87
47922165--47922200	18	2.0	18	88	0	54	55	2	0	41	1.14
47923038--47923064	5	5.4	5	100	0	54	81	0	0	18	0.69
47923791--47923825	18	2.0	17	94	5	61	57	0	0	42	0.99
47924710--47925164	43	10.6	42	78	8	318	24	25	20	29	1.99
47924710--47925154	86	5.2	86	79	7	381	23	25	20	30	1.99
47924710--47925111	43	9.3	43	80	6	327	22	26	20	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47924710--47925164	129	3.6	126	78	6	418	24	25	20	29	1.99
47925234--47925263	14	2.1	14	100	0	60	53	33	0	13	1.40
47925475--47925529	21	2.6	21	79	0	65	9	45	14	30	1.76
47925514--47925676	87	1.9	87	87	5	240	13	28	16	41	1.86
47931708--47931763	27	2.1	27	100	0	94	50	3	3	42	1.37
47932191--47932248	19	3.1	19	78	11	66	62	5	0	32	1.18
47932199--47932248	9	5.4	9	77	13	57	64	4	0	32	1.12
47933048--47933078	16	1.9	16	93	0	53	32	6	25	35	1.82
47934604--47934648	23	2.0	23	82	8	56	40	31	6	22	1.80
47935552--47935665	41	2.8	41	79	2	104	27	29	26	16	1.97
47935755--47936101	113	3.1	113	88	0	514	27	22	22	27	1.99
47944320--47944370	26	2.0	26	96	0	93	29	35	23	11	1.90
47944226--47944448	103	2.2	104	92	2	369	31	31	18	17	1.95
47944777--47944840	30	2.2	29	81	10	76	29	28	6	35	1.82
47944784--47944840	30	1.9	30	85	3	80	29	24	7	38	1.82
47950080--47950117	14	2.7	15	88	8	53	39	2	15	42	1.61
47950109--47950146	19	2.0	19	100	0	76	26	10	15	47	1.78
47950222--47950264	18	2.4	18	92	0	68	44	2	2	51	1.27
47950227--47950269	18	2.6	16	79	13	50	46	0	2	51	1.13
47951464--47951518	27	2.0	27	86	6	76	49	18	5	27	1.69
47954504--47954538	16	2.2	16	94	0	61	45	40	0	14	1.45
47955283--47955328	15	3.1	15	70	17	51	54	13	8	23	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47955591--47955645	28	2.0	28	88	0	83	47	5	3	43	1.44
47955946--47955996	15	3.4	15	76	7	50	72	1	0	25	0.95
47966684--47966721	19	2.0	20	89	5	60	60	2	0	36	1.11
47975423--47975477	25	2.2	25	80	3	67	60	5	0	34	1.20
47975576--47975618	22	2.0	22	90	0	68	60	16	16	6	1.56
47981524--47981562	5	7.6	5	82	5	51	35	0	23	41	1.55
47989719--47989779	32	1.9	32	90	3	97	19	19	6	54	1.66
48009236--48009298	30	2.1	30	96	0	117	31	6	38	23	1.80
48013684--48013907	106	2.1	106	97	1	423	38	16	11	33	1.85
48014694--48014741	3	16.3	3	79	12	55	70	0	2	27	0.98
48023818--48023864	24	2.0	24	84	16	62	51	17	0	31	1.46
48024585--48024660	7	10.7	7	80	16	77	55	1	1	42	1.16
48026452--48026481	2	15.0	2	100	0	60	50	0	0	50	1.00
48037107--48037269	43	3.8	45	77	8	151	32	22	14	30	1.93
48037107--48037269	87	1.9	87	85	10	226	32	22	14	30	1.93
48037086--48037288	87	2.3	87	76	18	224	31	23	15	30	1.95
48039386--48039423	15	2.5	16	83	12	53	60	5	0	34	1.19
48040795--48041327	126	4.3	126	85	2	707	30	17	22	29	1.97
48044491--48045241	43	17.0	43	70	14	273	25	0	27	47	1.54
48044491--48045241	21	34.0	22	69	14	302	25	0	27	47	1.54
48044660--48044922	15	17.9	15	63	19	67	23	0	30	46	1.53
48044559--48044795	88	2.7	85	76	12	230	26	0	24	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48044785--48044824	8	5.2	8	87	6	57	15	0	35	50	1.44
48044783--48044978	7	26.9	7	70	11	117	20	0	34	44	1.52
48044772--48044851	22	3.1	28	76	23	93	21	0	33	45	1.52
48044798--48044900	36	2.9	36	78	7	102	22	0	33	43	1.53
48044829--48044966	59	2.3	58	91	2	213	21	0	34	44	1.52
48044863--48044964	15	6.8	15	75	15	77	19	0	33	47	1.50
48044941--48045027	28	3.0	29	71	8	70	24	0	26	49	1.50
48045025--48045241	87	2.5	86	86	3	285	25	0	28	46	1.53
48045240--48045269	15	2.0	15	93	0	51	13	0	36	50	1.42
48045820--48045861	18	2.3	18	83	0	57	47	7	28	16	1.73
48046613--48046651	20	2.0	20	90	10	62	56	5	2	35	1.35
48047649--48047703	11	4.9	11	75	20	60	41	0	30	27	1.56
48047649--48047703	22	2.5	22	83	16	69	41	0	30	27	1.56
48054486--48054520	18	2.0	17	88	5	52	20	0	2	77	0.90
48055102--48055159	30	2.0	29	82	3	71	31	5	10	53	1.57
48057460--48057484	11	2.3	11	100	0	50	84	0	16	0	0.63
48059186--48059218	16	2.1	16	94	0	57	39	6	33	21	1.78
48059379--48059570	55	3.3	54	72	18	188	51	4	1	43	1.28
48059499--48059532	17	2.0	17	100	0	68	58	0	0	41	0.98
48059359--48059824	120	3.9	120	95	1	834	52	4	1	42	1.29
48059590--48059646	26	2.1	29	83	9	75	59	0	0	40	0.97
48059582--48059636	15	3.8	15	77	20	55	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48059618--48059664	18	2.6	19	80	12	55	57	2	0	40	1.11
48059618--48059806	56	3.3	55	69	20	170	52	4	1	41	1.32
48059799--48059839	21	2.0	21	100	0	82	56	9	0	34	1.32
48062318--48062346	14	2.1	14	100	0	58	34	0	20	44	1.52
48063695--48063722	9	3.1	9	100	0	56	57	0	0	42	0.99
48064123--48064157	2	17.5	2	93	0	61	51	0	0	48	1.00
48064123--48064179	8	7.2	8	82	4	53	52	1	1	43	1.21
48064864--48064917	19	2.8	19	94	0	99	37	16	9	37	1.81
48064841--48064917	38	1.9	40	87	10	113	38	16	7	36	1.78
48065202--48065306	42	2.5	42	87	4	140	49	1	8	40	1.44

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