genome.fa.s9.2.7.7.80.10.50.1000.171.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   256   
          257   258   259   

This is table  171  of  259  ( 31025 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)
55560872--55560953	28	2.9	28	94	0	137	25	8	29	36	1.86
55576454--55576568	56	2.1	56	90	4	180	44	13	14	26	1.83
55577933--55578007	29	2.6	29	76	14	82	50	6	12	30	1.65
55579008--55579069	29	2.1	30	84	6	81	40	3	9	46	1.53
55579310--55579395	42	2.0	42	100	0	172	46	16	9	27	1.77
55584218--55584289	32	2.3	31	95	4	135	37	6	25	30	1.82
55585228--55585318	36	2.5	37	89	5	148	27	16	3	52	1.59
55589765--55589918	63	2.8	50	66	25	130	29	22	10	37	1.87
55599192--55599247	22	2.6	22	86	5	71	46	0	0	53	1.00
55599255--55599293	13	2.9	14	85	14	55	53	0	0	46	1.00
55599809--55599846	13	2.8	14	88	8	60	34	21	7	36	1.82
55601220--55601461	27	8.9	28	81	7	277	28	22	9	39	1.85
55601219--55601461	54	4.5	54	84	4	337	27	23	9	39	1.85
55601220--55601462	81	3.0	80	85	6	339	27	22	9	39	1.85
55601471--55601666	27	7.3	27	84	0	230	36	18	18	25	1.94
55601865--55601947	27	3.1	26	86	5	103	19	20	21	38	1.93
55602035--55602093	22	2.7	22	81	0	64	20	25	22	32	1.98
55602258--55602331	27	2.8	27	85	6	89	18	22	20	37	1.94
55602449--55602646	6	32.7	6	73	16	151	21	16	13	48	1.79
55602449--55602635	30	6.4	30	84	9	233	21	16	13	48	1.80
55602449--55602635	85	2.2	85	96	0	338	21	16	13	48	1.80
55605712--55605740	11	2.6	11	100	0	58	37	6	6	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55613130--55613318	27	7.0	27	85	0	234	35	19	21	23	1.96
55613503--55613555	26	2.0	26	85	0	70	16	22	20	39	1.92
55623095--55623179	32	2.7	32	84	0	116	29	25	18	25	1.98
55624234--55624345	18	6.2	18	75	6	93	36	16	11	35	1.85
55624234--55624345	36	3.1	36	79	5	127	36	16	11	35	1.85
55624228--55624345	54	2.2	54	78	0	137	35	16	11	37	1.84
55624672--55624704	17	1.9	17	88	11	50	30	18	0	51	1.46
55624769--55625037	135	2.0	132	81	9	314	44	13	2	38	1.59
55625252--55625284	13	2.3	15	90	10	52	54	0	0	45	0.99
55625377--55625415	4	9.2	4	83	10	51	43	2	0	53	1.14
55629940--55629973	17	2.0	17	88	0	50	55	14	0	29	1.40
55637830--55637877	24	2.0	25	91	4	80	22	22	18	35	1.96
55642365--55642441	40	2.0	39	84	5	102	35	32	16	15	1.91
55642896--55642928	17	1.9	17	100	0	66	12	42	27	18	1.85
55645762--55645838	40	1.9	40	97	0	145	37	23	5	33	1.77
55647423--55647464	22	2.1	19	86	13	57	45	0	0	54	0.99
55647423--55647461	16	2.5	15	83	8	51	46	0	0	53	1.00
55648031--55648062	15	2.1	15	100	0	64	43	12	18	25	1.85
55649085--55649121	9	4.1	9	89	0	56	29	8	13	48	1.71
55649174--55649206	9	3.7	9	91	0	57	39	24	12	24	1.89
55649174--55649208	18	1.9	18	100	0	70	37	22	11	28	1.89
55649456--55649513	25	2.3	26	82	11	68	37	3	3	55	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55652406--55652446	21	2.0	21	85	4	57	34	2	2	60	1.23
55656119--55656183	28	2.4	28	86	2	96	41	23	9	26	1.84
55656130--55656197	28	2.4	28	82	4	75	39	22	8	29	1.84
55662511--55662798	41	7.0	41	85	1	319	33	20	23	22	1.97
55662810--55662922	53	2.1	54	81	1	129	46	34	0	17	1.54
55663049--55663099	15	3.5	15	75	2	50	23	1	27	47	1.63
55663632--55663711	7	11.3	7	76	12	74	77	2	0	20	0.88
55663632--55663673	13	3.2	13	80	9	50	78	4	0	16	0.91
55663656--55663734	8	10.4	8	82	10	85	73	1	0	25	0.91
55663649--55663736	37	2.4	37	83	11	117	72	1	0	26	0.91
55663649--55663739	15	6.1	15	79	5	87	72	1	0	26	0.91
55663803--55663840	18	2.2	16	90	9	58	73	0	2	23	0.95
55670129--55670169	19	2.2	19	86	4	57	21	2	4	70	1.18
55675744--55675804	30	2.0	30	87	0	86	39	6	22	31	1.80
55676515--55676664	67	2.2	67	81	8	171	32	17	28	21	1.96
55676539--55676722	67	2.8	64	77	8	194	29	17	29	22	1.97
55678573--55678807	50	4.7	50	79	6	269	26	17	26	29	1.97
55684503--55684532	2	15.0	2	92	0	51	0	46	0	53	1.00
55698057--55698110	25	2.2	25	83	6	65	27	22	18	31	1.97
55702294--55702339	25	1.9	23	86	8	65	28	0	8	63	1.24
55705659--55706024	180	2.0	180	95	0	660	40	13	11	34	1.80
55715120--55715222	44	2.3	45	86	3	136	30	22	13	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55722482--55722586	44	2.3	44	85	3	129	29	22	13	34	1.92
55729606--55729740	43	3.1	43	64	17	107	11	32	5	50	1.62
55729621--55729757	44	3.1	44	65	14	120	9	32	7	51	1.62
55729601--55729777	87	2.0	87	96	0	327	9	32	6	51	1.59
55734811--55734945	55	2.5	55	82	2	155	16	25	30	27	1.97
55737002--55737089	46	1.9	46	88	0	122	27	30	22	19	1.98
55744476--55744563	46	1.9	46	85	0	113	28	30	21	19	1.97
55765227--55765679	142	3.2	141	81	4	527	24	16	22	36	1.94
55765228--55765687	213	2.2	213	81	2	521	23	16	23	36	1.94
55765228--55765687	71	6.5	71	81	1	472	23	16	23	36	1.94
55770379--55770418	12	3.2	12	89	3	53	12	5	2	80	0.98
55773414--55773796	48	8.0	48	95	1	682	34	6	28	31	1.82
55773937--55774039	37	2.8	37	93	0	179	23	19	32	25	1.98
55775319--55775612	119	2.5	120	93	0	491	25	20	26	27	1.99
55775326--55775612	40	7.2	40	93	0	477	25	20	27	26	1.99
55775700--55775799	28	3.6	27	81	8	119	21	16	30	33	1.94
55775639--55775806	57	2.9	57	84	0	210	23	17	28	30	1.97
55779328--55779656	48	6.9	48	96	0	604	34	6	28	30	1.82
55779799--55779899	37	2.7	37	92	3	168	22	18	33	24	1.97
55781492--55781525	17	2.0	17	88	0	50	32	5	0	61	1.20
55781816--55781871	26	2.1	27	86	3	78	30	5	0	64	1.16
55782104--55782166	25	2.5	24	84	10	72	30	1	7	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55782128--55782180	25	2.2	24	82	3	61	30	7	5	56	1.50
55800948--55801008	29	2.1	29	100	0	122	27	9	34	27	1.89
55801267--55801318	27	2.0	27	85	7	72	63	5	0	30	1.18
55801296--55801347	22	2.4	22	84	9	63	71	9	0	19	1.13
55801300--55801347	21	2.3	20	82	10	53	72	10	0	16	1.10
55810126--55810277	27	5.6	27	92	3	232	30	28	13	27	1.94
55810126--55810302	55	3.2	55	89	0	246	31	29	12	26	1.93
55818125--55818276	27	5.6	27	92	3	232	30	28	13	27	1.94
55818125--55818301	55	3.2	55	89	0	246	31	29	12	26	1.93
55839202--55839243	20	2.2	19	87	12	59	38	0	4	57	1.20
55840270--55840351	40	2.0	40	85	0	110	35	7	15	41	1.75
55840610--55840650	18	2.2	19	86	4	57	21	26	12	39	1.89
55856368--55856408	21	2.0	20	85	4	55	63	4	12	19	1.46
55858645--55858687	5	8.0	5	80	14	50	20	0	2	76	0.89
55862462--55862615	47	3.3	47	88	0	245	27	30	7	33	1.85
55870134--55870175	20	2.1	20	86	8	59	4	26	11	57	1.54
55870363--55870457	47	2.0	47	95	0	172	33	13	13	38	1.84
55872041--55872085	21	2.1	21	84	8	56	31	6	13	48	1.68
55873326--55873366	4	10.2	4	89	0	64	70	4	0	24	1.06
55873325--55873366	12	3.5	12	96	0	75	69	7	0	23	1.13
55874133--55874161	12	2.3	13	94	5	51	27	0	0	72	0.85
55879582--55879656	20	3.8	20	89	6	102	37	8	18	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55879589--55879641	11	5.2	11	76	15	60	35	7	18	37	1.80
55879706--55879803	26	3.8	26	94	1	162	26	23	23	26	2.00
55880739--55880865	67	1.9	67	88	6	195	32	17	23	26	1.97
55887685--55887741	9	5.8	10	76	15	57	36	8	19	35	1.83
55887684--55887758	20	3.8	20	91	6	111	37	9	18	34	1.83
55887703--55887758	11	5.5	11	71	16	57	37	10	19	32	1.86
55887808--55887879	26	2.8	26	93	2	119	27	19	22	30	1.98
55888969--55889001	13	2.5	13	100	0	66	30	33	30	6	1.82
55889978--55890186	42	4.9	43	69	11	126	32	24	13	29	1.94
55919592--55919939	40	8.7	40	95	0	606	30	20	27	22	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   256   
          257   258   259