genome.fa.s15.2.7.7.80.10.50.1000.168.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  168  of  222  ( 26535 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)
53824416--53824515	47	2.1	47	85	1	139	36	20	21	23	1.96
53826249--53826301	16	3.3	16	89	0	79	39	1	24	33	1.66
53826467--53826600	58	2.3	57	85	2	178	50	3	0	45	1.19
53826609--53826651	21	2.0	21	86	9	59	62	2	0	34	1.08
53835645--53835687	18	2.4	18	81	14	61	46	4	9	39	1.57
53836124--53836305	28	6.5	28	92	2	269	25	12	28	32	1.93
53843746--53843788	21	2.0	22	90	4	70	27	6	6	58	1.50
53848436--53848543	37	2.9	36	78	16	107	40	2	3	52	1.33
53850627--53850811	101	1.8	102	87	3	275	24	15	27	32	1.96
53850627--53850813	51	3.7	51	85	3	236	24	15	27	32	1.95
53850802--53850896	45	2.3	39	76	16	93	25	15	26	32	1.96
53850815--53850909	45	2.1	45	88	0	145	26	18	24	30	1.98
53854994--53855035	21	2.0	21	86	9	59	21	16	21	40	1.91
53860035--53860078	9	4.9	9	88	0	61	31	4	38	25	1.76
53869212--53869980	381	2.0	381	99	0	1529	35	16	17	30	1.92
53871875--53871947	24	3.0	24	85	0	92	32	20	30	16	1.95
53877152--53877189	5	7.6	5	93	0	67	21	2	18	57	1.52
53878105--53878159	17	3.2	17	76	0	56	18	3	3	74	1.11
53883728--53883762	18	1.9	18	94	0	61	28	34	14	22	1.93
53883913--53883972	21	2.7	23	78	14	65	35	10	13	41	1.78
53883995--53884219	111	2.0	112	92	2	373	31	19	14	34	1.92
53884249--53884283	17	2.1	17	100	0	70	34	42	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53884348--53884406	30	2.0	30	89	0	91	25	25	16	32	1.97
53884358--53884411	15	3.7	15	78	4	58	25	25	18	29	1.98
53890101--53890197	24	4.0	24	90	0	158	11	47	5	36	1.62
53890985--53891017	8	4.0	8	96	4	57	0	15	24	60	1.35
53893949--53894018	27	2.5	28	79	6	81	25	2	20	51	1.61
53895217--53895253	17	2.1	18	85	14	51	67	2	0	29	1.04
53902971--53903134	80	2.0	81	96	1	303	34	15	10	39	1.82
53903716--53903806	48	1.9	47	90	2	146	39	26	15	18	1.90
53903777--53903816	21	1.9	21	89	0	62	42	27	12	17	1.85
53903974--53904023	7	7.1	7	100	0	100	42	28	0	30	1.56
53924516--53924555	16	2.5	16	91	0	71	35	5	32	27	1.79
53924537--53924629	44	2.1	44	86	6	125	31	5	27	35	1.80
53927701--53927730	13	2.3	13	94	0	51	66	16	10	6	1.41
53937197--53937383	60	3.0	60	79	12	168	40	16	4	38	1.70
53937482--53937520	19	2.1	18	85	4	51	76	7	0	15	0.99
53940480--53940508	12	2.5	12	94	5	51	0	0	13	86	0.58
53952995--53953613	44	14.1	43	75	6	485	29	16	24	28	1.97
53952990--53953613	133	4.7	132	90	1	973	30	16	24	28	1.97
53953151--53953534	175	2.2	176	81	6	445	29	16	25	28	1.97
53952990--53953605	263	2.3	264	90	1	975	30	16	24	28	1.96
53953604--53953972	88	4.2	88	90	0	549	29	26	23	20	1.99
53953714--53953857	44	3.3	43	63	8	101	25	24	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53954241--53954396	44	3.7	41	76	11	129	27	19	24	28	1.99
53954328--53954437	45	2.5	44	79	5	105	30	24	22	22	1.99
53957276--53957324	23	2.2	23	85	3	64	18	8	2	71	1.21
53961202--53961241	18	2.2	18	86	0	53	22	0	17	60	1.37
53961681--53961730	15	3.3	15	80	0	55	20	10	32	38	1.85
53963443--53963502	25	2.3	26	85	2	77	28	6	13	51	1.66
53963473--53963526	28	1.9	28	88	0	81	27	5	18	48	1.70
53964200--53964251	21	2.5	21	84	6	70	38	40	11	9	1.74
53976120--53976150	10	3.1	10	95	0	53	64	19	16	0	1.29
53977775--53977813	21	2.0	20	85	10	53	30	7	2	58	1.39
53979160--53979203	23	1.9	23	90	0	70	52	0	6	40	1.28
53981599--53981645	9	5.0	9	82	10	58	25	0	2	72	0.96
53984786--53984832	21	2.2	21	80	0	58	40	2	2	55	1.24
53985071--53985106	11	3.4	11	84	7	56	36	0	2	61	1.11
53986745--53987077	108	3.0	110	85	4	465	35	16	15	32	1.90
53987136--53987174	21	1.9	20	84	5	51	76	5	10	7	1.13
53987349--53987417	36	1.9	35	82	8	86	55	1	7	36	1.37
53989131--53989451	44	7.3	43	66	20	157	28	23	17	29	1.97
53989122--53989444	132	2.4	132	93	0	538	28	24	17	29	1.97
53989483--53991432	89	21.9	89	88	0	2700	22	23	25	29	1.99
53989495--53991718	89	25.0	90	85	4	554	22	23	25	29	1.99
53996673--53996998	108	3.0	109	89	4	503	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53997167--53997192	4	6.5	4	100	0	52	73	0	0	26	0.84
53997286--53997354	36	1.9	35	82	8	86	55	1	7	36	1.37
53997583--53997639	22	2.6	22	75	13	55	64	0	10	24	1.24
53999759--54000050	50	5.8	50	73	0	233	26	26	19	27	1.99
53999744--54000041	100	3.0	100	88	0	425	25	26	20	27	1.99
54001528--54001562	6	5.7	6	90	6	52	0	20	0	80	0.72
54001528--54001562	13	2.8	12	87	8	52	0	20	0	80	0.72
54013516--54013604	25	3.1	30	81	15	116	25	24	6	42	1.79
54013526--54013572	15	3.1	15	73	11	51	27	21	8	42	1.81
54028359--54028551	67	3.0	63	76	20	202	43	3	4	49	1.37
54028457--54028501	22	2.1	21	83	4	54	48	0	4	46	1.22
54034006--54034098	37	2.5	35	77	16	98	41	3	2	52	1.29
54034057--54034189	61	2.2	58	83	9	162	42	3	3	50	1.35
54034057--54034215	61	2.6	60	79	11	148	42	4	4	48	1.43
54035106--54035144	10	4.1	9	86	6	51	35	0	2	61	1.10
54042534--54042798	40	6.7	40	86	5	279	25	27	21	25	1.99
54042730--54042807	40	1.9	41	82	10	97	26	28	20	24	1.99
54060968--54061026	28	2.0	30	83	6	77	1	25	3	69	1.13
54062039--54062151	46	2.5	46	89	0	163	19	19	15	46	1.85
54062028--54062293	45	5.8	46	76	5	182	21	18	16	42	1.89
54062718--54062748	16	1.9	16	93	0	53	32	22	0	45	1.53
54068900--54069105	45	4.6	45	76	7	186	23	17	13	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54068934--54069003	21	3.2	21	64	25	54	28	17	11	42	1.83
54073366--54073405	22	1.9	21	85	10	55	42	22	10	25	1.84
54077917--54077950	17	2.0	17	94	0	59	38	0	2	58	1.13
54078036--54078187	18	9.0	17	73	17	129	40	0	1	57	1.12
54078051--54078109	26	2.3	25	85	8	82	40	0	1	57	1.09
54078064--54078119	15	4.0	15	73	17	57	44	0	0	55	0.99
54077895--54078207	120	2.6	119	91	3	488	42	1	3	52	1.28
54078036--54078187	35	4.5	35	71	17	124	40	0	1	57	1.12
54078332--54078438	45	2.6	40	77	17	110	31	29	4	33	1.78
54078344--54078440	45	2.2	45	88	5	144	31	29	5	32	1.80
54078420--54078452	16	2.1	16	100	0	66	21	36	6	36	1.78
54079079--54079103	11	2.3	11	100	0	50	40	8	0	52	1.31
54081737--54081781	23	2.0	23	86	4	65	37	6	17	37	1.76
54091699--54091731	16	2.1	16	100	0	66	33	12	18	36	1.88
54091872--54091946	33	2.3	33	97	0	141	53	8	0	38	1.31
54102881--54102986	53	2.0	53	92	0	176	22	24	19	33	1.97
54106655--54107262	305	2.0	305	92	0	1018	33	19	14	32	1.92
54110309--54110348	20	2.0	20	100	0	80	60	5	15	20	1.53
54110600--54110649	17	2.9	17	93	0	91	24	26	6	44	1.76
54125622--54125671	17	2.9	17	93	0	91	24	26	6	44	1.76
54127726--54127935	69	3.0	69	77	2	206	36	20	18	24	1.95
54129446--54129757	69	4.5	69	84	2	403	36	22	21	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54144590--54144651	32	1.9	32	90	6	99	22	17	29	30	1.97
54148336--54148390	28	2.0	26	82	6	65	20	9	9	61	1.52
54148350--54148401	27	1.9	27	84	7	70	19	5	15	59	1.56
54148350--54148401	26	2.0	27	81	11	63	19	5	15	59	1.56
54148566--54148608	18	2.3	19	88	8	61	16	6	4	72	1.24
54148578--54148622	14	2.9	16	78	21	51	17	6	4	71	1.25
54156080--54156195	27	4.3	27	85	2	72	21	16	22	39	1.92
54156095--54156350	27	9.5	27	85	1	298	19	15	19	45	1.85
54156095--54156350	82	3.2	81	85	5	313	19	15	19	45	1.85
54160102--54160151	26	1.9	26	88	8	75	16	22	26	36	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   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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222