genome.fa.s4.2.7.7.80.10.50.1000.170.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  170  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)
55797494--55797764	48	5.6	48	78	3	249	27	21	28	22	1.99
55797496--55797769	96	2.9	94	81	3	341	27	21	28	22	1.99
55797485--55797766	144	2.0	144	84	4	372	26	20	29	23	1.99
55799523--55799601	37	2.1	37	88	4	115	25	30	18	25	1.98
55799720--55800118	47	8.4	47	91	1	609	28	29	9	32	1.88
55799720--55800114	192	2.1	190	92	1	650	28	29	9	32	1.88
55811158--55811222	32	2.0	32	100	0	130	55	6	12	26	1.60
55812994--55813101	26	4.2	26	95	0	180	33	7	23	36	1.83
55819518--55819635	51	2.3	51	88	2	166	22	18	26	33	1.97
55827922--55828091	46	3.7	46	77	17	190	21	22	28	27	1.99
55827919--55828089	93	1.8	93	93	2	299	21	22	28	27	1.99
55831327--55831403	19	4.1	19	78	11	86	40	5	1	53	1.32
55831319--55831405	19	4.7	19	71	14	74	41	4	1	52	1.29
55840877--55840911	18	1.9	18	94	0	61	31	11	20	37	1.88
55840961--55840997	9	4.1	9	89	0	56	48	13	8	29	1.71
55849986--55850043	25	2.3	25	82	5	64	20	15	31	32	1.94
55853242--55853351	43	2.6	42	81	2	139	28	16	26	29	1.97
55860761--55860876	43	2.7	42	82	2	142	30	13	23	32	1.93
55882045--55882069	13	1.9	13	100	0	50	40	24	4	32	1.73
55890618--55890655	13	2.8	13	88	4	58	42	0	13	44	1.43
55890669--55890720	10	5.1	10	75	11	52	21	5	1	71	1.17
55890671--55890720	20	2.5	21	81	15	61	20	6	2	72	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55891444--55891478	13	2.5	14	86	13	54	25	8	5	60	1.49
55892558--55892596	21	1.9	20	89	5	60	23	25	38	12	1.90
55893700--55893971	46	5.8	48	76	11	233	22	31	19	26	1.98
55899753--55899798	14	3.3	14	90	6	67	32	28	2	36	1.69
55906469--55906639	46	3.7	46	79	6	184	22	29	19	28	1.98
55906274--55906642	94	3.9	95	72	15	295	24	29	18	27	1.98
55906274--55906639	140	2.6	144	77	8	385	24	29	18	27	1.98
55915435--55915688	48	5.3	47	80	3	195	29	29	15	25	1.96
55915486--55915712	96	2.4	96	84	4	271	31	28	16	23	1.96
55915486--55915719	48	4.9	48	82	2	229	31	28	16	24	1.96
55920263--55920455	54	3.6	53	76	12	187	36	17	23	22	1.95
55920268--55920416	55	2.8	51	83	10	165	35	17	22	24	1.95
55928026--55928232	40	5.2	40	85	4	249	29	28	19	22	1.98
55930272--55930502	95	2.5	92	75	10	227	34	17	25	22	1.96
55930460--55930668	54	3.9	53	77	10	208	36	18	22	22	1.95
55946723--55946950	48	4.8	46	83	7	208	27	30	16	25	1.96
55946759--55946950	96	2.0	96	89	0	294	28	29	16	25	1.97
55954734--55954775	20	2.1	20	100	0	84	16	23	26	33	1.96
55958952--55958996	21	2.1	21	88	8	65	15	8	4	71	1.28
55959159--55959219	32	1.9	31	83	3	77	31	11	3	54	1.52
55962831--55963008	27	6.6	27	76	6	137	26	15	28	30	1.96
55962886--55963008	55	2.3	54	82	1	138	25	15	30	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55978118--55978295	27	6.6	27	76	6	137	26	15	28	30	1.96
55978173--55978295	55	2.3	54	82	1	138	25	15	30	29	1.96
55983906--55983943	18	2.1	18	90	0	58	21	34	13	31	1.91
55987856--55988037	3	62.3	3	68	15	51	30	8	1	59	1.36
55987901--55987974	18	4.4	17	75	13	80	28	4	0	67	1.09
55987909--55987961	21	2.7	20	88	11	74	30	3	0	66	1.10
55988003--55988040	17	2.2	17	95	0	67	34	7	0	57	1.28
55988003--55988037	14	2.4	15	85	9	54	34	8	0	57	1.29
55988063--55988135	17	4.1	18	84	10	80	26	6	1	65	1.25
55988067--55988135	35	2.0	34	83	11	86	26	7	1	65	1.27
55988049--55988114	19	3.0	24	68	32	65	24	7	0	68	1.15
55988202--55988283	3	27.3	3	81	4	85	31	6	2	59	1.35
55988191--55988287	12	8.5	11	79	8	74	30	5	2	61	1.29
55999174--55999214	14	2.9	14	85	3	55	68	4	2	24	1.22
55999293--55999333	19	2.2	19	100	0	82	56	0	4	39	1.21
56011038--56011113	26	2.9	28	75	14	74	46	9	0	44	1.35
56011051--56011113	12	5.0	12	73	17	56	46	7	0	46	1.32
56013982--56014112	40	3.3	40	83	2	156	43	25	17	12	1.85
56017355--56017552	96	2.1	96	96	0	360	42	8	18	30	1.79
56022584--56022702	61	2.0	61	98	0	229	62	4	9	24	1.43
56036320--56036405	43	2.0	43	84	13	115	27	30	18	23	1.98
56044372--56044457	43	2.0	43	84	8	113	27	29	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56054703--56054730	14	2.0	14	100	0	56	85	0	0	14	0.59
56056722--56056756	12	3.0	12	87	8	54	48	0	17	34	1.47
56057674--56057786	33	3.5	32	81	7	131	37	13	23	25	1.91
56060616--56060731	31	3.8	30	84	5	160	27	15	27	29	1.96
56060831--56060891	27	2.3	27	82	0	68	44	13	21	21	1.86
56060933--56061007	34	2.2	34	83	4	80	28	14	26	30	1.95
56062068--56062119	19	2.6	19	76	11	50	28	7	17	46	1.75
56063107--56063252	37	3.9	37	92	0	220	25	31	19	23	1.98
56063399--56063583	48	3.8	48	87	4	264	30	26	6	36	1.82
56063505--56063746	47	5.1	47	86	2	272	26	28	9	34	1.88
56063668--56063747	25	3.3	25	66	16	69	30	27	8	33	1.87
56067784--56068135	40	8.8	40	84	0	461	25	27	21	24	1.99
56067784--56068130	160	2.2	160	96	0	649	25	27	22	24	2.00
56069404--56069549	37	3.9	37	93	0	229	25	32	19	22	1.98
56069696--56069879	48	3.8	48	87	4	271	29	26	7	36	1.83
56069802--56070043	47	5.1	47	87	4	267	26	28	10	34	1.89
56069943--56070014	22	3.1	22	64	24	58	23	29	13	33	1.93
56069965--56070044	25	3.3	25	66	16	69	30	27	8	33	1.87
56073510--56073539	15	2.0	15	93	0	51	23	26	16	33	1.96
56082516--56082594	25	3.3	25	61	10	65	32	5	29	32	1.79
56082512--56082783	47	5.8	47	93	1	458	31	8	30	28	1.87
56082511--56082783	92	2.9	93	93	1	458	31	8	30	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56082902--56082979	37	2.1	37	90	0	120	24	17	32	25	1.97
56085740--56085803	30	2.2	29	94	2	110	34	21	17	26	1.95
56091108--56091285	27	6.6	27	85	3	214	27	15	27	29	1.96
56091105--56091285	82	2.2	81	85	2	238	27	15	27	29	1.96
56099021--56099103	34	2.4	34	82	9	98	25	21	27	25	1.99
56108309--56108532	40	5.6	39	91	4	292	23	23	28	25	2.00
56108305--56108555	40	6.3	39	83	11	234	24	22	27	25	2.00
56108309--56108555	79	3.1	79	85	7	281	23	23	27	25	2.00
56109970--56110154	41	4.6	40	75	11	173	26	28	21	24	1.99
56109998--56110101	39	2.6	39	84	3	127	28	28	17	25	1.97
56109970--56110155	80	2.3	82	79	7	202	26	27	20	24	1.99
56111319--56111497	85	2.1	85	98	0	349	26	26	8	37	1.85
56117956--56118159	40	5.1	40	79	8	211	25	27	22	25	2.00
56119324--56119502	85	2.1	85	98	0	349	26	26	8	38	1.85
56122908--56122954	22	2.1	23	92	4	78	40	8	29	21	1.83
56130405--56130467	25	2.5	25	100	0	126	61	0	0	38	0.96
56131340--56131416	37	2.1	37	90	0	118	40	5	10	44	1.61
56134442--56134493	26	2.0	26	85	14	72	38	0	1	59	1.08
56139464--56139504	20	2.0	20	100	0	82	43	9	24	21	1.83
56141865--56141913	8	5.8	8	83	11	62	73	14	2	10	1.18
56141862--56141917	16	3.2	17	78	12	69	73	12	1	12	1.18
56141865--56141917	18	3.0	19	86	8	69	73	13	1	11	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56141913--56141987	17	4.7	17	71	25	58	65	1	9	24	1.30
56151451--56151608	40	4.0	40	88	0	226	30	29	17	23	1.97
56159395--56159541	79	1.8	79	94	1	258	27	27	20	23	1.99
56159395--56159541	40	3.7	40	96	0	260	27	27	20	23	1.99
56161038--56161068	15	2.1	15	100	0	62	12	19	6	61	1.53
56163253--56163374	47	2.6	45	82	12	140	27	20	30	22	1.98
56163253--56163424	92	1.8	93	82	4	222	28	21	29	20	1.98
56165125--56165195	30	2.4	30	95	0	124	29	8	23	38	1.85
56174243--56174281	19	2.1	19	85	9	53	23	15	7	53	1.67
56177583--56177631	23	2.1	23	92	0	80	46	20	14	18	1.83

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