genome.fa.s17.2.7.7.80.10.50.1000.25.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  25  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)
6933921--6933961	20	2.1	20	86	4	57	60	17	0	21	1.35
6934205--6934322	56	2.1	56	82	3	139	41	16	22	19	1.90
6934222--6934369	58	2.6	56	87	8	192	38	18	25	18	1.93
6934829--6934866	20	1.9	20	100	0	76	60	5	5	28	1.40
6937174--6937329	43	3.6	43	85	3	199	28	16	24	31	1.96
6939192--6939667	52	9.2	51	86	8	626	24	23	0	51	1.52
6939321--6939405	29	3.1	29	60	25	67	24	24	0	50	1.49
6939191--6939667	105	4.6	103	86	9	668	24	23	0	51	1.52
6939433--6939507	24	3.3	24	62	27	63	21	29	0	49	1.50
6939430--6939621	44	4.0	44	77	20	204	25	26	0	48	1.51
6939191--6939621	149	2.8	151	92	5	683	24	23	0	51	1.52
6939191--6939667	202	2.3	205	88	6	698	24	23	0	51	1.52
6939480--6939667	53	3.6	53	90	5	233	23	23	0	52	1.51
6942694--6942915	115	1.9	115	88	1	338	32	19	13	33	1.92
6942964--6943114	61	2.5	59	81	9	166	19	21	19	40	1.92
6947344--6947386	21	2.1	21	86	4	61	67	2	0	30	1.03
6947686--6947723	18	2.2	18	85	4	51	60	5	5	28	1.40
6949632--6949687	6	9.7	6	81	14	73	14	3	0	82	0.81
6950339--6950369	12	2.6	12	94	0	53	29	6	3	61	1.37
6953089--6953120	16	2.0	16	100	0	64	18	12	18	50	1.78
6953503--6953529	12	2.2	12	100	0	54	44	0	7	48	1.31
6957908--6957948	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6963138--6963192	26	2.1	26	83	6	67	25	16	1	56	1.50
6965311--6965354	23	1.9	23	81	9	54	54	11	4	29	1.56
6965931--6965989	30	2.1	29	81	9	68	50	11	6	30	1.65
6971415--6971454	20	2.0	21	90	5	64	7	20	5	67	1.34
6972094--6972649	44	12.7	44	67	16	228	28	24	18	28	1.98
6972099--6972649	219	2.5	219	94	0	967	29	24	18	28	1.98
6972726--6972914	43	4.3	43	84	2	225	23	25	20	30	1.99
6974122--6974169	7	6.9	7	77	17	55	16	16	0	66	1.25
6974124--6974162	6	6.2	6	85	8	51	15	17	0	66	1.25
6974124--6974159	13	2.8	13	95	0	63	13	16	0	69	1.19
6975105--6975175	21	3.1	22	82	9	81	9	5	4	80	1.01
6975105--6975164	24	2.5	25	84	10	81	8	5	5	81	0.97
6976898--6976941	20	2.2	20	87	0	61	6	25	2	65	1.28
6979618--6979684	33	2.0	33	97	0	125	40	1	23	34	1.64
6980094--6980144	19	2.7	18	85	11	59	62	3	1	31	1.24
6981110--6981145	14	2.6	14	90	0	54	25	25	2	47	1.65
6987911--6988001	44	2.1	44	91	4	148	27	10	10	50	1.71
6997930--6997955	5	5.2	5	100	0	52	38	19	19	23	1.93
6997904--6997955	26	2.0	26	81	7	61	34	15	26	23	1.94
6998476--6998521	16	2.6	17	80	19	51	45	0	32	21	1.52
7003262--7003305	24	1.9	24	90	9	74	36	0	2	61	1.09
7003339--7003479	68	2.1	67	78	14	146	47	9	4	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7003399--7003426	9	3.1	9	100	0	56	57	10	0	32	1.33
7003369--7003506	68	2.1	66	91	2	222	45	7	4	42	1.53
7007100--7007143	23	1.9	23	86	9	63	68	2	20	9	1.28
7007098--7007146	25	1.9	25	83	4	62	67	2	20	10	1.30
7013636--7013664	6	4.8	6	100	0	58	31	34	0	34	1.58
7025125--7025955	289	2.9	285	79	6	762	31	25	18	24	1.98
7025978--7026022	23	2.0	23	86	0	63	28	13	17	40	1.88
7027831--7027892	12	5.2	11	79	14	61	30	1	3	64	1.19
7027851--7027908	15	3.8	15	73	24	50	24	5	1	68	1.19
7027843--7027903	30	2.0	30	84	12	81	26	4	1	67	1.20
7039172--7039285	56	2.0	56	94	0	201	18	7	28	45	1.77
7042931--7042984	23	2.4	23	87	6	76	59	7	1	31	1.36
7042934--7043004	3	23.3	3	74	8	63	61	5	1	30	1.27
7043467--7043504	11	3.2	12	88	11	60	47	0	52	0	1.00
7047289--7047323	13	2.8	13	91	4	54	42	0	5	51	1.25
7048551--7048608	25	2.3	25	85	5	73	15	22	22	39	1.91
7048601--7048675	22	3.4	22	90	3	107	13	28	14	44	1.83
7052410--7052487	24	3.3	23	70	22	56	34	3	1	60	1.23
7053137--7053166	10	3.0	10	90	0	51	43	0	0	56	0.99
7054195--7054235	13	3.3	13	80	13	59	51	0	7	41	1.30
7054178--7054235	24	2.4	24	91	2	89	51	0	8	39	1.33
7059674--7059706	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7061931--7061968	3	13.0	3	94	5	69	0	31	0	68	0.90
7066368--7066406	19	2.1	19	85	4	53	46	15	0	38	1.46
7066875--7066933	31	1.9	31	92	0	100	23	23	1	50	1.58
7067024--7067102	22	3.5	22	78	5	77	40	16	26	16	1.89
7067017--7067193	25	7.3	25	83	5	161	36	15	25	21	1.93
7071466--7071522	26	2.1	27	84	9	73	0	29	3	66	1.08
7073356--7073419	21	3.0	21	95	0	119	14	31	18	35	1.91
7076038--7076085	25	1.9	25	100	0	96	35	14	20	29	1.93
7078633--7078688	26	2.2	26	93	0	94	44	12	26	16	1.83
7078770--7078804	15	2.4	15	90	4	54	48	0	8	42	1.33
7078829--7078876	10	4.9	10	76	2	53	25	6	2	66	1.26
7080770--7080827	30	1.9	30	100	0	116	27	6	24	41	1.80
7089992--7090062	36	1.9	37	85	5	99	33	15	8	42	1.77
7094251--7094517	84	3.3	84	65	20	235	39	14	21	24	1.91
7094232--7094544	156	2.0	156	100	0	626	39	14	21	23	1.91
7101230--7101668	220	2.0	220	96	0	806	28	20	13	38	1.89
7102166--7102447	33	8.4	33	71	19	174	33	28	19	18	1.96
7102236--7102348	60	1.9	60	94	0	199	32	30	19	16	1.94
7102166--7102447	135	2.1	135	93	1	476	33	28	19	18	1.96
7105430--7105472	20	2.2	20	95	0	77	48	0	11	39	1.40
7108321--7108365	22	2.1	22	87	4	65	40	0	4	55	1.20
7108332--7108376	22	2.1	21	88	12	65	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7108350--7108385	17	2.1	18	89	5	56	41	0	2	55	1.14
7113845--7113886	18	2.4	19	76	15	54	64	2	0	33	1.07
7113845--7113888	17	2.5	18	75	17	56	63	2	0	34	1.07
7114490--7114530	20	2.0	20	90	0	64	26	7	12	53	1.64
7114976--7115016	21	2.0	20	85	4	55	24	2	21	51	1.60
7115661--7115694	17	2.1	17	88	5	52	35	2	11	50	1.54
7116325--7116379	20	2.6	21	77	16	51	58	5	1	34	1.32
7120303--7120364	12	5.9	10	77	18	56	64	4	3	27	1.29
7120317--7120348	3	10.7	3	93	0	55	65	0	3	31	1.08
7121951--7122274	43	7.6	41	75	9	251	27	21	20	30	1.98
7134893--7134954	12	5.9	10	77	18	56	64	4	3	27	1.29
7134907--7134938	3	10.7	3	93	0	55	65	0	3	31	1.08
7140559--7140667	57	1.9	58	90	1	175	22	23	14	39	1.91
7148239--7148265	8	3.4	8	100	0	54	33	0	0	66	0.92
7153954--7154006	26	2.0	26	82	7	63	52	0	1	45	1.11
7153963--7154006	10	4.6	9	81	13	52	52	0	0	47	1.00
7156501--7156539	20	2.0	20	90	5	62	51	0	25	23	1.49
7156643--7156702	30	2.0	31	86	3	86	40	0	40	20	1.52
7156915--7156950	9	4.0	9	85	0	54	30	11	16	41	1.83
7156916--7156950	18	1.9	18	94	0	61	31	11	17	40	1.85
7165825--7165865	21	2.0	21	90	0	64	19	29	21	29	1.98
7172105--7172165	27	2.3	26	83	13	79	50	1	1	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7172400--7172439	18	2.2	18	86	8	55	67	12	0	20	1.22
7172505--7172582	32	2.4	34	85	10	108	58	10	3	26	1.48
7175073--7175105	13	2.4	14	85	10	50	42	24	9	24	1.83
7175611--7175644	13	2.5	14	90	4	52	0	11	2	85	0.71
7180364--7180420	29	2.0	28	90	6	89	63	0	24	12	1.29
7183824--7183853	15	1.9	16	93	6	53	26	6	6	60	1.47
7188968--7189005	20	1.9	19	89	5	58	26	15	13	44	1.83
7197758--7197796	20	2.0	20	90	5	62	5	25	0	69	1.09
7206444--7206515	23	3.1	23	70	20	69	43	19	1	36	1.60
7206478--7206555	36	2.2	36	93	2	131	43	20	1	34	1.60

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