genome.fa.s26.2.7.7.80.10.50.1000.160.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: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  160  of  204  ( 24404 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)
48358441--48358550	54	2.0	54	94	0	193	47	26	7	19	1.75
48360468--48360512	22	2.0	22	82	0	54	26	28	15	28	1.96
48361060--48361412	42	8.2	43	86	3	444	24	27	19	29	1.98
48361060--48361429	43	8.6	42	86	3	454	24	27	19	29	1.98
48361074--48361429	85	4.2	85	87	2	482	25	26	18	28	1.98
48368398--48368490	47	2.0	47	91	0	150	39	20	21	18	1.92
48375466--48375504	18	2.2	18	90	0	60	79	0	20	0	0.73
48378260--48378379	42	2.8	42	81	2	134	28	15	23	32	1.95
48378921--48379055	48	2.8	48	83	1	180	23	14	16	45	1.84
48378925--48379074	48	3.1	48	80	2	167	24	16	16	42	1.88
48383175--48383220	18	2.8	18	84	15	64	0	30	41	28	1.56
48386609--48386685	38	2.0	38	82	5	93	53	5	32	9	1.55
48390010--48390053	22	1.9	24	90	9	74	40	13	0	45	1.44
48403727--48404234	44	11.6	44	69	11	208	29	20	18	31	1.96
48403653--48404240	175	3.4	175	92	0	960	29	19	18	31	1.96
48412339--48412382	19	2.3	19	84	7	54	40	11	22	25	1.87
48422470--48422561	46	2.0	46	100	0	184	30	17	13	39	1.87
48423727--48423809	20	4.3	19	73	16	64	59	0	0	40	0.98
48423768--48423809	20	2.0	21	95	4	77	57	0	0	42	0.99
48430314--48430410	38	2.6	38	83	3	115	42	30	13	13	1.83
48430378--48430432	22	2.5	22	93	0	92	43	32	12	10	1.78
48430339--48430455	60	2.0	60	89	3	182	42	30	12	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48434847--48434884	20	1.9	20	89	10	60	63	7	0	28	1.23
48434852--48434893	19	2.2	19	83	8	50	69	7	2	21	1.25
48435429--48435475	18	2.6	18	82	0	58	51	0	2	46	1.13
48445888--48445913	12	2.2	12	100	0	52	23	23	7	46	1.78
48446072--48446130	27	2.2	27	77	11	68	38	25	15	20	1.91
48446207--48446261	24	2.3	24	87	0	74	30	25	29	14	1.95
48453338--48453363	12	2.2	12	100	0	52	23	23	7	46	1.78
48455710--48455741	12	2.5	13	90	10	57	50	0	0	50	1.00
48455804--48455843	3	13.3	3	94	0	71	0	30	0	70	0.88
48455905--48455937	13	2.5	13	100	0	66	24	9	18	48	1.76
48457665--48457754	37	2.4	37	87	3	128	41	14	13	31	1.84
48474338--48474376	6	6.5	6	87	0	60	15	0	5	79	0.90
48475862--48475902	13	3.3	13	81	18	52	36	0	12	51	1.40
48476169--48476226	30	1.9	30	89	0	89	20	41	27	10	1.85
48477006--48477097	45	2.0	45	97	0	175	17	17	9	55	1.68
48486454--48486511	22	2.7	21	82	10	80	44	18	3	32	1.67
48496912--48497290	189	2.0	186	95	1	686	30	11	21	37	1.88
48522737--48522772	16	2.2	16	95	0	63	27	0	33	38	1.57
48523149--48523297	15	10.1	15	66	20	57	50	4	1	43	1.31
48522895--48523204	152	2.0	154	92	3	518	43	3	4	48	1.40
48523143--48523428	111	2.5	111	86	10	379	50	4	2	42	1.36
48523138--48523503	111	3.3	108	81	11	333	49	3	2	43	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48523438--48523641	90	2.3	89	84	10	247	45	3	4	46	1.40
48523563--48523603	17	2.4	18	88	8	59	46	0	7	46	1.30
48533618--48533656	12	3.1	12	79	13	51	46	2	0	51	1.14
48533692--48533720	5	5.8	5	100	0	58	62	0	0	37	0.96
48536402--48536566	21	7.9	21	79	6	156	47	13	19	19	1.83
48536402--48536568	42	4.0	42	78	6	185	46	14	19	19	1.83
48538734--48538767	15	2.2	15	89	5	50	64	8	8	17	1.47
48543462--48543541	25	3.2	25	80	5	81	35	23	22	18	1.96
48546700--48546734	16	2.2	16	100	0	70	40	11	22	25	1.88
48548368--48548406	19	2.1	19	100	0	78	25	5	15	53	1.62
48550679--48550720	12	3.5	12	75	12	50	64	2	9	23	1.35
48550673--48550724	24	2.2	24	100	0	104	61	5	7	25	1.45
48553010--48553041	11	2.8	11	95	4	55	43	0	12	43	1.42
48553269--48553321	23	2.3	23	93	0	97	20	20	26	32	1.98
48558433--48558471	18	2.2	17	86	13	53	33	0	20	46	1.51
48558697--48558794	23	4.3	23	90	2	162	20	21	26	31	1.98
48558699--48558787	45	2.0	45	95	0	160	19	22	26	31	1.97
48560376--48560421	23	2.0	23	87	4	67	63	2	0	34	1.07
48564729--48564770	17	2.5	18	85	11	54	23	2	11	61	1.42
48565317--48565514	97	2.1	94	90	2	306	32	37	5	23	1.78
48569202--48569235	2	17.0	2	100	0	68	0	50	0	50	1.00
48577705--48577804	42	2.4	42	91	0	155	36	12	27	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48583785--48583960	88	2.0	88	97	0	334	39	11	16	32	1.85
48585013--48585162	51	3.1	51	82	13	199	32	15	24	28	1.95
48585064--48585164	43	2.3	44	86	1	141	33	14	22	28	1.94
48585133--48585195	31	2.0	31	90	0	99	38	19	15	26	1.92
48588275--48588326	27	1.9	27	84	7	70	40	17	23	19	1.91
48588862--48588949	29	3.0	28	76	3	86	21	22	13	42	1.88
48589915--48589987	3	24.3	3	100	0	146	67	0	0	32	0.91
48592205--48592242	15	2.4	17	91	8	62	44	2	0	52	1.14
48594492--48594530	19	2.1	19	90	0	60	51	0	0	48	1.00
48597072--48597121	11	4.1	13	78	17	54	60	2	0	38	1.09
48597090--48597127	20	1.9	20	84	10	51	65	5	0	28	1.14
48597290--48597333	13	3.4	13	78	12	54	31	0	0	68	0.90
48597527--48597568	17	2.4	18	92	4	68	69	0	2	28	1.01
48598584--48598635	15	3.4	14	80	15	59	42	1	0	55	1.10
48599312--48599347	14	2.6	13	91	8	54	63	0	2	33	1.08
48613109--48613138	14	2.1	14	93	0	51	40	3	26	30	1.72
48616299--48616362	29	2.1	29	91	5	101	70	10	1	17	1.24
48617428--48617483	19	2.9	21	76	17	66	30	1	1	66	1.12
48624296--48624416	30	4.0	30	81	0	143	28	15	20	34	1.94
48625734--48626376	319	2.0	319	92	1	1067	30	17	12	39	1.87
48628288--48628316	3	9.7	3	100	0	58	68	0	0	31	0.89
48629486--48629528	20	2.3	19	88	8	61	13	2	23	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48629897--48630360	54	9.2	54	64	18	198	29	21	18	30	1.97
48629885--48630347	153	3.1	151	78	8	521	28	21	18	31	1.97
48630167--48630322	49	3.1	49	68	12	143	31	20	20	27	1.97
48630167--48630376	103	2.0	103	94	0	366	31	20	19	29	1.97
48630058--48630519	246	1.9	246	90	0	746	29	21	19	29	1.98
48630270--48632192	143	13.4	143	85	1	2427	28	21	19	30	1.98
48633573--48633629	28	2.0	28	100	0	114	24	3	10	61	1.44
48633577--48633636	28	2.2	28	90	3	95	28	1	11	58	1.43
48634253--48634360	43	2.5	43	77	8	121	20	16	31	31	1.95
48641412--48641443	3	10.7	3	100	0	64	68	0	0	31	0.90
48642630--48642681	20	2.6	19	74	20	52	13	3	25	57	1.53
48646046--48646090	22	2.0	23	83	12	58	22	6	17	53	1.67
48646819--48646870	26	2.0	26	100	0	104	15	19	11	53	1.71
48654230--48654639	202	2.0	202	94	0	721	27	20	20	31	1.97
48655817--48655888	36	2.0	36	81	2	83	31	23	8	36	1.85
48664820--48666264	730	2.0	728	92	0	2408	35	19	21	23	1.96
48678735--48678872	59	2.3	61	81	6	156	39	5	10	43	1.64
48687042--48687076	16	2.2	16	89	0	52	40	5	28	25	1.78
48687316--48687385	22	3.3	22	76	6	81	55	5	0	38	1.24
48687963--48688002	11	3.8	10	83	9	53	0	15	2	82	0.77
48687963--48688002	21	1.9	21	90	10	64	0	15	2	82	0.77
48691446--48691528	35	2.4	35	93	0	139	43	2	18	36	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48702269--48702316	25	1.9	25	82	0	60	54	0	0	45	0.99
48703709--48703758	17	2.7	20	78	18	70	10	0	44	46	1.37
48708335--48708384	17	2.7	20	78	18	70	10	0	44	46	1.37
48715124--48715165	19	2.3	19	87	4	59	61	2	4	30	1.29
48720702--48720760	29	2.0	29	83	6	73	38	3	6	50	1.45
48723388--48723633	35	7.0	35	80	3	255	34	33	4	26	1.78
48723388--48723633	105	2.3	105	84	2	307	34	33	4	26	1.78
48725618--48725675	30	1.9	30	89	0	89	41	3	24	31	1.71
48725887--48725918	13	2.5	13	94	0	55	31	0	12	56	1.37
48726013--48726254	50	4.7	50	86	4	297	26	24	29	19	1.99

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204