genome.fa.s16.2.7.7.80.10.50.1000.126.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  126  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)
39417598--39417624	13	2.1	13	100	0	54	22	7	22	48	1.75
39419452--39419508	28	2.0	28	83	6	71	33	10	1	54	1.45
39419454--39419509	7	8.0	7	77	15	62	30	10	1	57	1.43
39420856--39420896	15	2.6	16	82	14	50	51	2	0	46	1.14
39427922--39427998	40	1.9	40	94	0	136	36	16	20	25	1.94
39440070--39440128	17	3.5	17	72	22	54	76	6	16	0	1.00
39446435--39446485	17	3.3	15	75	19	52	35	0	1	62	1.06
39448056--39448128	30	2.4	30	76	0	83	45	5	20	28	1.73
39448182--39448521	156	2.2	155	82	1	430	32	12	21	32	1.92
39451517--39451742	59	3.8	59	88	1	337	51	7	5	34	1.55
39453658--39453687	12	2.4	13	88	11	53	66	0	0	33	0.92
39455551--39455577	5	5.4	5	100	0	54	40	0	18	40	1.51
39456305--39456381	34	2.3	34	79	4	84	15	9	23	51	1.71
39456224--39456509	107	2.7	107	91	0	464	25	7	22	44	1.78
39456426--39456484	23	2.6	22	86	13	84	18	8	20	52	1.71
39457661--39457749	37	2.4	37	92	0	151	42	14	7	34	1.75
39457964--39458029	33	2.0	33	96	0	123	42	16	6	34	1.73
39458982--39459036	24	2.3	24	96	0	101	14	21	36	27	1.93
39461020--39461058	16	2.5	15	84	12	51	41	0	0	58	0.98
39461047--39461199	47	3.3	45	70	15	125	44	3	4	47	1.39
39461207--39461395	59	3.2	57	68	12	157	42	2	3	50	1.34
39461196--39461493	120	2.5	120	93	1	499	42	2	4	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39461317--39461351	18	2.0	17	88	5	52	45	0	0	54	0.99
39465854--39465986	60	2.2	60	89	0	194	25	15	30	27	1.96
39470266--39470295	8	3.8	8	95	0	51	76	0	0	23	0.78
39473351--39473399	21	2.3	21	76	16	55	51	6	4	38	1.46
39474544--39474600	29	2.0	29	85	0	78	26	12	28	33	1.92
39482643--39482708	18	3.6	18	78	10	62	31	3	3	62	1.26
39483096--39483121	7	3.7	7	100	0	52	88	0	0	11	0.52
39483138--39483179	7	6.1	7	91	5	59	76	0	0	23	0.79
39483138--39483179	13	3.1	13	83	10	57	76	0	0	23	0.79
39483688--39483731	20	2.2	20	83	0	52	40	0	0	59	0.98
39483696--39483733	20	2.0	20	89	5	60	39	0	0	60	0.97
39488645--39488674	15	1.9	16	93	6	53	26	0	0	73	0.84
39488768--39488854	41	2.1	42	81	12	110	32	1	4	62	1.23
39488824--39488911	32	2.8	30	79	17	83	31	0	4	63	1.14
39489101--39489151	22	2.3	22	76	6	59	50	5	0	43	1.26
39492055--39492094	20	2.0	20	100	0	80	25	30	10	35	1.88
39498598--39498632	2	17.5	2	100	0	70	51	48	0	0	1.00
39500265--39500320	21	2.7	21	75	10	69	55	3	3	37	1.35
39500322--39500377	20	2.6	22	83	8	62	37	0	0	62	0.95
39500336--39500394	10	6.0	10	75	9	50	42	0	0	57	0.98
39500336--39500412	40	1.9	40	86	5	111	38	0	0	61	0.96
39500906--39501080	69	2.5	68	83	5	201	44	25	6	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39506563--39506664	25	4.2	25	77	12	88	36	22	24	16	1.94
39509182--39509268	23	3.7	23	80	4	95	36	16	13	33	1.88
39515291--39515341	25	2.0	25	84	0	66	27	19	23	29	1.98
39516542--39516620	41	1.9	41	89	0	122	30	30	16	22	1.96
39521297--39521335	20	2.0	20	94	0	69	43	10	12	33	1.77
39522671--39522721	21	2.5	20	81	6	57	35	0	21	43	1.53
39523153--39523305	24	6.2	24	75	11	105	15	25	23	35	1.94
39523153--39523294	48	2.9	50	78	5	146	15	25	23	35	1.94
39525707--39525741	18	2.0	18	88	5	54	37	2	2	57	1.29
39528900--39528933	2	17.0	2	93	0	59	47	0	2	50	1.16
39530507--39530590	3	28.0	3	92	0	141	66	0	30	2	1.04
39537077--39537117	3	14.0	3	84	5	57	2	26	0	70	0.99
39537199--39537238	20	2.0	20	90	0	62	30	27	17	25	1.97
39537271--39537341	31	2.3	31	80	7	83	21	8	19	50	1.73
39538143--39538177	18	1.9	18	88	0	52	51	0	2	45	1.16
39539283--39539328	14	3.0	16	75	18	53	58	8	0	32	1.28
39539283--39539330	15	3.3	14	74	8	51	58	8	0	33	1.28
39546608--39546681	27	2.6	28	83	8	87	29	18	12	39	1.87
39546608--39546682	28	2.6	28	79	10	80	29	18	12	40	1.87
39550319--39550483	41	4.0	41	83	9	201	31	25	15	27	1.96
39550293--39550483	42	4.6	41	83	8	217	30	25	15	28	1.96
39553297--39553520	76	3.0	72	85	5	286	44	7	7	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39553493--39553545	5	10.6	5	100	0	106	60	18	0	20	1.36
39554040--39554368	167	2.0	166	96	0	604	26	19	22	31	1.98
39556992--39557028	18	2.1	18	89	0	56	51	0	13	35	1.41
39558388--39558429	14	3.1	14	75	6	50	21	4	7	66	1.35
39559666--39559737	36	2.0	36	83	2	92	29	26	11	33	1.91
39564756--39564825	36	2.0	35	88	2	104	31	21	11	35	1.89
39568411--39568465	27	2.0	27	82	6	67	27	34	7	30	1.84
39568485--39568552	27	2.5	27	88	4	93	14	33	14	36	1.87
39571298--39571445	50	2.9	51	79	15	146	43	12	13	30	1.80
39571325--39571461	50	2.7	51	81	15	169	42	11	13	32	1.80
39575108--39575173	22	2.9	23	68	20	66	21	21	13	43	1.86
39575002--39575182	46	4.0	46	84	2	204	24	23	11	40	1.88
39579821--39579849	14	2.0	15	93	6	51	55	6	3	34	1.44
39580361--39580589	112	2.0	112	96	1	424	42	24	14	17	1.87
39585584--39585703	45	2.7	46	82	3	172	25	23	10	40	1.86
39589325--39589384	27	2.2	27	84	0	75	15	31	23	30	1.95
39589336--39589410	27	2.8	27	85	0	87	14	32	22	30	1.94
39589495--39589664	46	3.7	45	81	3	198	25	21	10	42	1.83
39589496--39589664	91	1.8	92	85	1	241	26	20	10	43	1.83
39593931--39593990	28	2.1	28	100	0	120	28	10	3	58	1.46
39596499--39596901	109	3.7	109	92	2	675	34	19	15	31	1.93
39596499--39596903	220	1.8	219	93	1	695	34	19	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39597013--39597051	18	2.2	17	90	4	60	74	7	5	12	1.20
39597387--39597412	3	8.7	3	100	0	52	65	0	0	34	0.93
39598836--39599359	50	10.5	50	75	9	408	23	20	24	31	1.98
39598836--39599359	100	5.2	100	84	3	472	23	20	24	31	1.98
39598896--39599314	150	2.8	150	84	1	518	23	20	25	31	1.98
39598837--39599315	150	3.2	150	81	3	493	23	20	24	31	1.98
39611144--39611441	111	2.7	110	90	3	449	34	19	15	31	1.93
39611549--39611587	18	2.2	17	90	4	60	74	7	5	12	1.20
39611922--39611974	3	17.7	3	100	0	106	66	0	0	33	0.92
39614678--39614712	18	1.9	18	88	0	52	17	5	8	68	1.35
39622248--39622300	18	2.9	18	77	5	63	35	20	1	41	1.64
39628658--39628710	18	2.9	18	77	5	63	35	20	1	41	1.64
39629648--39629682	18	2.0	18	94	5	63	14	45	28	11	1.79
39636516--39636558	16	2.5	17	85	7	52	53	0	2	44	1.13
39639205--39639238	17	1.9	18	88	5	52	32	0	5	61	1.20
39641031--39641095	18	3.6	18	83	4	78	7	41	7	43	1.62
39641064--39641106	18	2.4	18	92	0	68	9	46	6	37	1.63
39646474--39646532	10	6.1	10	78	7	59	61	1	1	35	1.16
39646474--39646532	19	3.0	20	73	9	59	61	1	1	35	1.16
39647661--39647703	19	2.1	21	87	8	63	48	0	4	46	1.22
39662170--39662229	21	2.9	21	85	9	86	13	23	16	46	1.82
39665346--39665437	20	4.7	20	71	10	64	11	31	21	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39684195--39684220	10	2.6	10	100	0	52	0	26	11	61	1.30
39690103--39690183	26	3.1	26	87	3	92	20	19	22	37	1.95
39700654--39700704	24	2.2	24	86	13	72	19	9	7	62	1.50
39700711--39700741	16	1.9	16	93	0	53	22	6	3	67	1.28
39700867--39701183	109	2.9	109	90	1	496	31	16	17	34	1.92
39704496--39704526	16	1.9	16	93	0	53	22	6	3	67	1.28
39704651--39704967	109	2.9	109	90	0	503	31	16	17	34	1.92
39707801--39707831	13	2.4	13	100	0	62	38	0	6	54	1.26
39708294--39708324	16	1.9	16	93	0	53	22	6	3	67	1.28
39708450--39708766	109	2.9	109	92	2	532	30	17	18	33	1.94

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