genome.fa.s4.2.7.7.80.10.50.1000.177.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  177  of  255  ( 30512 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)
58454513--58454571	30	2.0	30	82	0	73	32	11	27	28	1.92
58454910--58455131	46	4.8	44	75	13	171	27	20	29	23	1.99
58458727--58458942	118	1.8	118	79	2	254	31	24	18	25	1.97
58460161--58460219	26	2.2	28	82	14	79	55	0	3	40	1.16
58461040--58461093	28	1.9	28	84	0	72	48	3	1	46	1.30
58461797--58461845	25	2.0	24	88	4	71	55	0	4	40	1.19
58463822--58463951	58	2.3	58	93	2	228	45	4	10	40	1.58
58494854--58494983	43	3.0	43	81	7	122	24	16	30	28	1.96
58494887--58494983	44	2.2	43	85	5	124	26	15	30	26	1.96
58495980--58496020	22	1.9	22	90	5	66	17	29	41	12	1.85
58497224--58497392	46	3.7	44	78	13	155	24	30	17	26	1.97
58497175--58497446	94	2.9	94	75	14	276	25	29	18	26	1.98
58503649--58503683	17	2.1	17	94	0	61	40	28	0	31	1.57
58510418--58510495	39	2.0	39	100	0	156	46	15	5	33	1.68
58514019--58514255	43	5.6	43	78	7	236	27	17	22	32	1.96
58514019--58514255	86	2.8	85	88	3	338	27	17	22	32	1.96
58514024--58514256	129	1.8	125	80	7	281	27	17	22	32	1.96
58521633--58521772	43	3.3	43	87	4	176	26	15	25	32	1.95
58534857--58534911	29	2.0	28	86	10	78	20	7	7	65	1.41
58541276--58541300	9	2.8	9	100	0	50	8	48	0	44	1.32
58542536--58542579	22	2.0	22	86	0	61	52	0	0	47	1.00
58542599--58542640	13	2.9	14	80	13	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58542603--58542639	15	2.3	17	86	13	60	56	0	0	43	0.99
58542672--58542728	15	3.5	15	71	17	51	47	1	3	47	1.29
58543024--58543115	32	2.8	32	78	1	103	53	18	4	23	1.62
58546023--58546054	2	16.0	2	100	0	64	50	0	50	0	1.00
58546725--58546771	14	3.2	15	79	11	53	63	0	0	36	0.94
58548527--58548651	42	3.0	42	85	2	162	17	33	25	23	1.96
58550554--58550595	18	2.4	17	84	15	50	33	2	2	61	1.21
58550561--58550604	23	1.9	23	90	9	72	34	2	0	63	1.07
58553886--58553935	25	2.0	25	100	0	100	32	24	16	28	1.96
58556913--58556945	13	2.4	14	90	5	50	27	0	3	69	1.03
58569873--58569902	15	2.0	15	93	0	51	50	6	3	40	1.45
58575291--58575373	39	2.1	39	93	0	139	38	2	4	54	1.35
58575301--58575381	39	2.1	39	100	0	162	38	2	4	54	1.35
58575461--58575508	25	2.0	24	87	4	69	33	0	4	62	1.14
58575467--58575511	23	2.0	23	82	8	56	33	0	4	62	1.15
58581616--58581713	49	2.0	49	95	0	178	35	7	15	41	1.74
58583985--58584204	42	5.2	42	86	0	260	48	16	20	15	1.82
58584045--58584109	21	3.0	22	74	17	82	50	18	15	15	1.78
58584010--58584214	42	4.9	42	88	0	275	47	15	20	16	1.82
58586106--58586130	11	2.3	11	100	0	50	40	20	0	40	1.52
58586446--58586546	22	4.5	22	82	2	130	42	10	9	36	1.73
58586463--58586553	45	2.0	45	97	0	173	38	9	8	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58588331--58588355	13	1.9	13	100	0	50	20	32	32	16	1.94
58597397--58597570	43	4.1	42	78	7	156	29	14	22	32	1.94
58597997--58598074	33	2.4	33	86	4	104	42	17	17	21	1.89
58601204--58601250	19	2.4	20	85	3	69	55	6	0	38	1.26
58606885--58607196	93	3.4	92	85	4	398	42	15	23	18	1.88
58606885--58607196	46	6.7	47	88	2	391	42	15	23	18	1.88
58606884--58607196	140	2.3	138	84	3	405	42	15	23	18	1.88
58607279--58607322	13	3.4	13	77	0	52	38	2	22	36	1.67
58608177--58608243	18	3.6	19	78	6	75	49	13	8	28	1.72
58608354--58608384	6	5.2	6	92	0	53	48	16	19	16	1.81
58608372--58608484	47	2.4	47	87	1	154	43	23	16	15	1.87
58612001--58612307	76	4.0	78	87	1	413	33	16	12	37	1.86
58612316--58612559	84	2.9	84	85	4	307	35	11	7	45	1.68
58613897--58613969	31	2.3	32	83	6	87	41	0	5	53	1.24
58614269--58614302	11	3.0	11	87	8	50	76	0	23	0	0.79
58614626--58614669	22	1.9	24	86	9	65	52	2	20	25	1.58
58615347--58615453	38	2.7	39	72	7	92	23	20	25	30	1.98
58617331--58617508	27	6.6	27	85	3	214	30	28	14	26	1.95
58617331--58617508	82	2.2	81	84	3	232	30	28	14	26	1.95
58622707--58622764	23	2.5	23	100	0	116	46	43	3	6	1.47
58623266--58623312	15	3.1	15	73	11	51	51	12	2	34	1.52
58623646--58625970	467	5.0	467	98	0	4427	31	19	8	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58626323--58626356	4	8.2	4	87	6	50	0	29	0	70	0.87
58626402--58626433	13	2.5	13	100	0	64	15	6	0	78	0.95
58636714--58636756	21	2.0	21	82	8	52	58	0	6	34	1.25
58642901--58643492	299	2.0	299	96	0	1094	30	23	15	29	1.96
58647521--58647611	47	1.9	47	81	0	110	39	19	14	26	1.90
58650873--58650968	38	2.6	38	79	14	101	47	1	14	36	1.51
58652903--58653351	44	10.2	43	74	8	330	29	25	17	27	1.97
58652903--58653351	88	5.1	87	75	6	386	29	25	17	27	1.97
58652903--58653350	132	3.4	132	94	0	797	29	25	17	27	1.97
58666888--58666984	38	2.6	38	79	14	103	48	1	14	36	1.51
58669023--58669076	20	2.7	21	72	18	53	44	1	0	53	1.11
58676216--58676251	18	2.0	18	89	10	56	52	2	5	38	1.39
58677038--58677089	21	2.5	22	81	9	56	34	1	5	57	1.33
58677025--58677098	31	2.4	30	80	6	87	36	1	4	58	1.26
58677077--58677110	17	2.1	17	88	5	52	35	0	0	64	0.94
58677168--58677221	15	3.8	14	79	11	56	29	0	1	68	1.00
58679738--58679784	25	2.0	23	83	8	58	44	0	0	55	0.99
58681336--58681407	32	2.3	32	80	7	85	58	1	4	36	1.26
58681525--58681660	25	5.4	26	69	15	81	59	2	7	30	1.39
58681521--58681561	22	1.9	22	90	5	66	60	0	4	34	1.18
58681589--58681691	26	4.0	25	71	7	82	59	3	5	31	1.39
58687258--58687289	8	4.0	8	100	0	64	50	25	25	0	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58687899--58687943	20	2.3	20	84	3	56	31	17	24	26	1.97
58687967--58688108	61	2.3	61	82	8	155	28	20	25	25	1.99
58689701--58689895	3	66.7	3	71	9	127	27	6	2	63	1.30
58689868--58690592	142	5.1	140	86	7	877	30	3	6	59	1.41
58690225--58690286	32	1.9	32	86	0	88	25	1	1	70	1.05
58690332--58690374	18	2.5	18	88	7	63	39	0	6	53	1.28
58695188--58695218	7	4.4	7	95	0	53	32	0	22	45	1.53
58695868--58695906	19	2.1	19	85	0	51	41	2	5	51	1.38
58700175--58700224	25	2.0	25	100	0	100	32	16	16	36	1.90
58700487--58700549	32	2.0	32	100	0	126	34	23	3	38	1.71
58703708--58703767	31	1.9	31	100	0	120	16	20	41	21	1.90
58706112--58706503	85	4.6	85	91	0	631	27	18	25	28	1.98
58707412--58707500	28	3.3	27	89	7	135	35	22	23	17	1.95
58708727--58708776	18	2.9	16	75	18	55	64	0	32	4	1.12
58710476--58710507	12	2.6	13	90	9	50	18	6	25	50	1.70
58714137--58714213	37	2.1	37	97	0	145	20	10	14	54	1.69
58714702--58714752	21	2.4	22	83	12	70	37	0	5	56	1.23
58715260--58715305	20	2.3	20	88	0	65	47	0	2	50	1.13
58715487--58715516	10	3.0	10	95	0	51	53	0	0	46	1.00
58724479--58724510	15	2.1	15	94	0	55	68	9	6	15	1.36
58727568--58727675	42	2.5	43	80	1	119	29	25	14	30	1.95
58736573--58736736	42	3.9	42	73	3	132	29	24	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58737455--58737480	9	2.9	9	100	0	52	69	19	0	11	1.18
58743739--58743771	16	1.9	18	88	11	52	12	6	21	60	1.53
58749659--58749728	15	5.1	14	75	13	65	42	1	0	55	1.08
58752093--58752131	19	2.1	19	100	0	78	30	43	0	25	1.55
58757687--58757712	13	2.0	13	100	0	52	15	53	15	15	1.73
58770188--58770216	12	2.5	12	94	5	51	72	0	0	27	0.85
58771782--58771832	20	2.6	19	85	11	68	21	17	11	49	1.79
58776145--58776275	44	3.0	44	83	4	131	34	17	19	28	1.95
58776272--58777079	143	5.7	143	84	1	935	30	18	22	28	1.97
58776494--58776982	44	10.4	44	67	14	179	29	19	23	27	1.98

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255