genome.fa.s17.2.7.7.80.10.50.1000.54.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  54  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)
15372760--15372799	19	2.1	19	90	0	62	62	15	10	12	1.54
15372767--15372807	19	2.2	19	86	4	57	68	12	9	9	1.40
15384127--15384185	30	2.0	30	89	0	91	28	3	8	59	1.43
15385025--15385059	14	2.4	15	85	9	54	48	2	5	42	1.41
15385991--15386021	5	6.2	5	100	0	62	61	19	0	19	1.35
15393143--15393178	16	2.2	16	100	0	72	19	5	25	50	1.69
15394801--15394835	16	2.1	17	89	5	54	22	8	14	54	1.67
15397450--15397491	20	2.1	20	86	8	59	2	26	19	52	1.58
15401206--15401275	6	11.7	6	95	0	104	55	0	25	18	1.43
15401423--15401495	26	2.8	26	78	0	83	42	10	16	30	1.82
15408083--15408212	43	3.0	43	86	0	179	21	16	28	33	1.95
15417696--15417728	18	1.9	17	88	11	50	54	0	3	42	1.15
15419221--15419276	28	2.0	27	96	0	85	16	25	19	39	1.91
15419226--15419283	28	2.1	28	90	0	71	18	25	18	36	1.95
15419540--15419729	51	3.7	51	76	2	157	27	25	10	36	1.88
15428394--15428441	21	2.3	22	82	10	64	29	22	4	43	1.72
15431870--15431898	9	3.3	9	95	4	51	34	10	24	31	1.89
15432251--15432341	42	2.2	42	84	4	112	24	20	34	20	1.97
15434950--15434975	6	4.3	6	100	0	52	30	15	38	15	1.88
15439656--15439703	16	3.0	16	81	6	53	12	37	25	25	1.91
15444967--15445051	25	3.4	25	79	7	86	23	20	24	31	1.98
15450460--15450514	26	2.0	29	82	10	71	32	0	20	47	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15456315--15456420	52	2.0	52	98	0	203	43	14	9	33	1.77
15456450--15456534	28	3.0	28	96	0	152	38	20	22	18	1.93
15477158--15477342	101	1.8	102	85	3	266	24	15	27	32	1.95
15477150--15477340	51	3.8	52	76	7	196	24	15	27	32	1.95
15477568--15477599	16	2.0	16	93	0	55	59	0	15	25	1.36
15482909--15483092	101	1.8	102	86	3	273	23	17	27	31	1.97
15482906--15483091	51	3.7	49	78	5	185	23	17	28	31	1.97
15483318--15483349	16	2.0	16	93	0	55	59	0	15	25	1.36
15487300--15487342	5	8.2	5	80	19	52	18	4	2	74	1.10
15487507--15487562	14	4.3	13	74	12	53	16	7	1	75	1.11
15488957--15489026	6	11.5	6	79	1	50	15	4	7	72	1.22
15493434--15493468	12	2.9	12	91	0	52	85	14	0	0	0.59
15493434--15493468	11	3.1	11	91	4	52	85	14	0	0	0.59
15493462--15493492	15	2.1	15	93	0	53	77	0	9	12	0.99
15498500--15498524	10	2.5	10	100	0	50	72	8	0	20	1.10
15499654--15499713	18	3.4	18	74	4	68	28	10	20	41	1.84
15500374--15500422	17	2.9	17	87	0	62	34	2	18	44	1.61
15504275--15504365	44	2.1	44	95	0	164	28	10	13	47	1.76
15507261--15507371	46	2.4	47	86	1	143	28	21	17	32	1.96
15507290--15507383	46	2.0	46	85	0	125	28	20	18	32	1.96
15514514--15514547	5	6.8	5	86	0	50	26	0	0	73	0.83
15515709--15515737	14	2.0	15	93	6	51	31	0	6	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15515976--15516019	24	1.9	23	82	17	56	38	2	4	54	1.33
15518624--15527480	393	22.6	395	96	1	16442	37	11	20	30	1.88
15537500--15545642	782	10.4	789	96	1	14871	37	12	20	30	1.89
15537500--15545642	392	20.8	395	95	1	14847	37	12	20	30	1.89
15546588--15546640	26	2.0	26	100	0	106	41	22	11	24	1.86
15547417--15547468	26	1.9	28	81	14	65	40	3	1	53	1.30
15554070--15554119	25	2.0	25	96	0	91	24	6	20	50	1.70
15561174--15561261	40	2.2	40	85	0	113	27	21	11	39	1.87
15561193--15561261	20	3.5	20	79	0	84	26	21	13	39	1.90
15561255--15561316	20	3.1	20	75	9	72	22	24	19	33	1.97
15565606--15565703	45	2.2	46	83	7	121	28	19	10	41	1.84
15569865--15569899	6	5.8	6	100	0	70	65	17	0	17	1.27
15569939--15569968	9	3.3	9	95	0	51	26	10	26	36	1.88
15585005--15585037	9	3.9	9	84	15	52	78	0	0	21	0.75
15585006--15585036	16	1.9	16	100	0	62	77	0	0	22	0.77
15585004--15585053	21	2.3	20	83	10	55	74	4	2	20	1.08
15585296--15585330	18	1.9	18	88	0	52	68	0	2	28	1.04
15588010--15588051	15	2.7	16	82	14	52	52	2	0	45	1.13
15588019--15588060	15	2.9	15	82	10	52	52	0	0	47	1.00
15588129--15588299	15	11.6	15	65	20	67	50	4	1	43	1.28
15588149--15588299	28	5.1	28	62	20	67	50	3	1	43	1.28
15588368--15588419	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15588488--15588539	15	3.6	15	80	12	56	53	1	0	44	1.11
15588608--15588659	15	3.6	15	80	12	56	53	1	0	44	1.11
15588013--15588784	120	6.4	120	97	0	1413	50	5	2	42	1.37
15588825--15588885	28	2.2	28	85	5	81	50	3	0	45	1.17
15588800--15589007	91	2.3	90	88	4	299	46	4	3	45	1.41
15588844--15588982	47	3.0	47	67	17	128	46	5	2	45	1.39
15590366--15590415	7	7.0	7	77	4	55	60	4	0	36	1.16
15593300--15593332	10	3.5	10	92	8	52	24	6	6	63	1.40
15593843--15593905	23	2.7	23	83	16	94	53	22	7	15	1.67
15598385--15598536	43	3.6	43	74	10	143	32	25	17	23	1.97
15608307--15608336	9	3.3	9	95	0	51	53	0	0	46	1.00
15612302--15612335	17	2.0	17	100	0	68	41	23	5	29	1.78
15612301--15612341	17	2.6	16	88	11	66	36	29	4	29	1.78
15613394--15613787	126	3.1	126	89	2	594	28	17	17	36	1.92
15613864--15613970	34	3.2	33	82	6	117	42	13	1	42	1.54
15613983--15614075	41	2.3	40	87	3	132	40	33	1	24	1.62
15614612--15614662	22	2.3	22	83	10	59	27	1	9	60	1.39
15619534--15619567	8	4.1	8	85	7	50	88	0	0	11	0.52
15619534--15619567	17	1.9	18	94	5	61	88	0	0	11	0.52
15632394--15632487	49	1.9	49	89	4	145	45	20	19	14	1.85
15633817--15634265	44	10.3	44	73	6	211	31	18	22	26	1.97
15633796--15634284	262	1.9	262	92	0	816	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15634245--15634423	90	2.0	90	88	0	268	32	20	22	24	1.98
15634897--15635320	44	9.8	44	70	7	206	31	19	22	26	1.97
15634876--15635320	218	2.0	218	92	0	728	32	18	22	25	1.97
15635281--15635459	90	2.0	90	87	0	259	31	20	22	25	1.98
15637765--15637801	5	7.8	5	82	11	51	16	2	0	81	0.81
15637757--15637801	15	3.1	14	84	12	56	17	6	0	75	1.01
15639142--15639171	7	4.3	7	100	0	60	43	0	0	56	0.99
15639585--15639644	29	2.1	29	81	6	68	13	23	33	30	1.93
15653202--15653241	21	2.0	20	85	14	55	45	2	7	45	1.45
15660861--15660924	18	3.5	17	73	14	56	34	17	6	42	1.74
15683040--15683166	31	4.1	31	69	11	80	45	15	8	29	1.76
15683021--15683143	62	2.0	62	82	6	151	45	16	9	28	1.79
15683029--15683199	93	1.8	93	88	0	261	43	16	10	29	1.81
15683413--15683442	2	15.0	2	100	0	60	50	50	0	0	1.00
15684815--15685524	348	2.0	348	97	0	1341	35	14	12	37	1.83
15687786--15687891	53	2.0	52	85	1	140	32	12	15	40	1.84
15688064--15688100	18	2.1	18	100	0	74	37	5	5	51	1.48
15689818--15689954	68	2.0	67	98	1	265	28	13	24	33	1.93
15692928--15693078	70	2.2	70	81	2	169	32	12	21	33	1.91
15692970--15693078	35	3.1	34	80	5	110	33	11	20	33	1.89
15693001--15693078	17	4.4	18	69	6	61	33	7	21	37	1.82
15694079--15694129	23	2.2	24	85	3	68	17	9	9	62	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15695428--15695454	14	1.9	14	100	0	54	48	0	7	44	1.31
15695739--15695925	40	4.6	40	74	13	141	16	19	27	37	1.92
15695758--15695913	82	1.9	80	81	10	183	17	18	26	37	1.93
15696774--15696820	21	2.2	21	92	0	76	34	23	23	19	1.97
15706513--15706575	25	2.6	23	77	18	65	74	3	4	17	1.12
15706513--15706571	26	2.3	27	85	5	77	74	3	5	16	1.13
15708091--15708226	40	3.4	39	74	11	132	14	15	31	38	1.88
15719389--15719576	35	5.4	35	68	12	118	34	23	19	23	1.97
15719354--15719612	70	3.7	69	85	5	317	34	23	16	24	1.95
15727879--15727908	13	2.2	14	94	5	53	43	0	13	43	1.43

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