genome.fa.s4.2.7.7.80.10.50.1000.102.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  102  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)
31870250--31870495	51	4.9	50	82	8	259	24	18	26	30	1.98
31870199--31870482	152	1.9	151	82	7	353	24	18	26	30	1.98
31873124--31873241	55	2.1	55	84	6	159	26	22	13	38	1.91
31873866--31873920	20	2.8	20	88	0	83	29	16	29	25	1.97
31874809--31874838	16	1.9	15	93	6	51	43	33	3	20	1.68
31876367--31876402	13	2.8	13	88	12	56	16	2	5	75	1.12
31876369--31876402	14	2.5	14	95	4	61	11	2	5	79	1.02
31877470--31877576	56	1.9	56	84	3	144	25	18	13	42	1.86
31878208--31878254	20	2.3	20	88	0	67	31	19	27	21	1.97
31878423--31878550	51	2.5	51	79	5	125	28	14	27	29	1.95
31884987--31885089	34	2.9	34	80	8	125	33	8	15	42	1.78
31884987--31885071	37	2.4	37	84	5	104	32	9	14	43	1.77
31885134--31885174	9	4.4	9	81	6	55	21	0	19	58	1.39
31885134--31885174	19	2.2	19	86	4	57	21	0	19	58	1.39
31889118--31889220	34	2.9	34	83	8	134	33	8	14	42	1.77
31889265--31889323	9	6.4	9	84	3	82	22	1	20	55	1.52
31893746--31893917	93	1.8	93	93	0	299	28	29	20	21	1.98
31893739--31893914	46	3.8	46	77	12	198	29	28	20	21	1.98
31898165--31898220	30	1.9	28	85	7	76	12	30	3	53	1.55
31901490--31902009	47	11.1	47	93	2	803	31	9	30	28	1.88
31902127--31902205	37	2.1	37	88	0	113	24	17	31	26	1.97
31903602--31903643	13	3.1	14	83	6	52	19	4	9	66	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31907863--31907914	23	2.3	22	75	21	54	9	23	1	65	1.32
31912536--31912690	42	3.7	42	79	7	147	25	14	25	33	1.95
31918888--31918960	36	2.0	36	100	0	146	42	24	2	30	1.69
31930554--31930822	48	5.7	48	77	7	248	23	28	20	28	1.98
31941773--31941938	40	4.2	40	92	2	273	27	27	22	22	1.99
31949819--31949970	79	1.9	78	94	1	268	29	26	20	23	1.99
31949809--31949973	40	4.2	40	89	3	255	27	26	21	23	1.99
31954416--31954593	27	6.6	27	84	3	205	29	28	15	26	1.96
31954437--31954592	82	1.9	81	88	3	233	29	28	15	26	1.96
31961123--31961240	47	2.5	47	94	0	200	23	15	28	32	1.95
31965042--31965223	64	2.9	63	76	11	183	28	17	30	23	1.97
31982247--31982306	31	1.9	31	96	0	111	25	16	25	33	1.96
31993270--31993447	40	4.5	40	88	6	222	24	24	27	24	2.00
32001267--32001484	40	5.5	39	88	5	246	23	22	27	25	2.00
32001263--32001484	80	2.8	80	83	7	283	24	22	27	25	2.00
32014429--32014475	24	1.9	25	91	4	78	51	12	4	31	1.59
32015334--32015374	21	2.0	21	90	0	64	36	21	12	29	1.90
32016156--32016180	13	1.9	13	100	0	50	36	8	16	40	1.77
32023564--32023688	17	7.5	17	66	22	70	54	2	3	40	1.29
32027346--32027379	9	3.8	9	84	0	50	47	0	2	50	1.16
32028670--32028694	13	1.9	13	100	0	50	40	32	16	12	1.84
32030101--32030156	28	2.0	29	89	3	87	21	39	19	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32031731--32031755	13	1.9	13	100	0	50	16	32	16	36	1.90
32033727--32033758	16	2.0	16	100	0	64	25	25	25	25	2.00
32041700--32041902	49	4.2	49	81	10	220	30	20	28	20	1.98
32054096--32054146	24	2.1	24	92	0	84	25	27	29	17	1.98
32059073--32059348	142	1.9	142	83	5	353	27	19	28	25	1.99
32066410--32066529	41	3.2	41	65	24	118	13	35	0	50	1.47
32066367--32066529	71	2.3	72	91	2	265	12	33	2	50	1.54
32069609--32069672	33	1.9	33	93	0	110	26	14	20	39	1.90
32070136--32070167	16	2.0	16	100	0	64	37	0	0	62	0.95
32070119--32070200	26	3.1	26	73	3	74	47	0	3	48	1.19
32070366--32070420	16	3.4	16	79	0	65	36	27	3	32	1.74
32072375--32072558	40	4.6	40	83	6	205	23	21	27	27	1.99
32072375--32072555	80	2.3	81	84	9	230	23	21	27	27	1.99
32084611--32084877	40	6.8	39	85	4	342	24	21	28	25	1.99
32092853--32093140	40	7.3	40	77	12	265	25	19	27	27	1.99
32095881--32095920	21	1.9	21	100	0	80	25	25	25	25	2.00
32095841--32095962	61	2.0	61	96	0	226	25	23	26	24	2.00
32095902--32096002	40	2.5	40	84	4	134	23	20	29	25	1.99
32097885--32098035	61	2.5	62	86	6	218	31	13	20	33	1.92
32102692--32102752	30	2.0	30	87	0	86	39	8	22	29	1.83
32105135--32105344	49	4.5	48	76	11	193	24	29	20	26	1.99
32105177--32105344	92	1.8	92	83	7	227	23	29	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32113613--32113755	38	3.5	38	78	15	160	30	14	25	29	1.95
32113526--32113770	86	2.9	86	85	0	321	30	14	25	29	1.95
32120286--32120371	43	2.0	43	100	0	172	34	32	2	30	1.71
32121086--32121145	30	2.0	30	90	0	93	28	25	8	38	1.84
32130903--32131036	48	2.8	48	84	5	191	31	16	21	30	1.95
32132865--32132949	43	2.0	43	81	4	100	29	22	17	30	1.97
32140508--32140610	43	2.4	43	83	3	127	32	25	17	25	1.97
32145371--32145457	43	2.0	44	93	2	149	27	31	21	19	1.98
32155359--32155501	42	3.4	43	78	7	132	27	24	16	30	1.97
32155355--32155517	42	3.9	42	78	4	123	30	24	14	30	1.95
32158002--32158094	34	2.8	33	77	4	89	30	23	21	24	1.99
32172088--32172113	13	2.0	13	100	0	52	30	0	7	61	1.24
32185538--32185638	30	3.2	30	66	30	84	42	16	16	23	1.88
32185525--32185655	65	2.0	65	98	0	253	41	17	15	25	1.88
32186698--32186737	21	1.9	21	85	10	55	60	5	15	20	1.53
32187242--32187423	40	4.6	40	87	2	242	23	20	26	29	1.99
32193955--32193994	21	1.9	21	85	10	55	60	5	15	20	1.53
32194502--32194683	40	4.6	40	88	2	251	23	21	26	29	1.99
32199762--32199941	37	4.8	37	90	4	279	25	31	18	24	1.98
32199762--32199941	77	2.4	75	89	5	283	25	31	18	24	1.98
32200111--32200527	48	8.7	48	96	0	735	30	29	7	32	1.85
32201510--32201608	50	2.1	45	73	19	103	34	11	12	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32201525--32201624	50	2.0	50	100	0	200	36	10	10	44	1.72
32207373--32207619	27	9.2	27	86	0	316	28	22	8	40	1.82
32207373--32207619	54	4.6	54	90	0	352	28	22	8	40	1.82
32207342--32207619	81	3.4	81	85	2	346	29	23	8	39	1.84
32207622--32207819	27	7.3	28	79	5	185	37	17	19	26	1.93
32207624--32207819	81	2.4	81	79	5	209	37	17	18	26	1.93
32207624--32207820	54	3.7	55	83	6	251	37	17	18	26	1.93
32208022--32208100	27	3.0	26	87	5	104	20	21	21	36	1.95
32208188--32208246	22	2.7	22	81	0	64	20	25	22	32	1.98
32208430--32208604	6	28.8	6	75	15	164	20	17	13	48	1.81
32208430--32208593	73	2.2	73	95	2	294	20	17	14	48	1.81
32208497--32208625	30	4.3	30	86	6	163	19	17	13	48	1.80
32215056--32215086	14	2.2	14	94	0	53	32	32	25	9	1.88
32221148--32221181	16	2.1	16	88	5	50	8	0	14	76	1.01
32228939--32229065	50	2.5	50	83	2	157	30	17	31	20	1.95
32229037--32229179	43	3.3	43	77	9	130	26	15	25	32	1.95
32235978--32236162	40	4.7	40	84	6	225	25	28	22	23	2.00
32235978--32236162	79	2.3	81	82	9	229	25	28	22	23	2.00
32244758--32244881	47	2.6	48	86	6	157	30	18	29	21	1.97
32249042--32249156	6	18.8	6	72	13	92	47	12	19	20	1.81
32249047--32249156	31	3.6	31	90	2	177	47	12	19	20	1.82
32249274--32249347	27	2.8	27	78	13	82	36	20	24	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32249298--32249355	27	2.1	27	84	6	73	36	25	20	17	1.94
32249512--32249570	22	2.7	22	81	0	64	32	22	25	20	1.98
32249663--32249739	27	2.8	28	86	3	95	37	19	20	22	1.94
32249941--32250135	27	7.2	27	79	4	187	27	20	17	35	1.94
32249939--32250135	54	3.6	54	83	2	243	26	19	17	35	1.95
32250140--32250603	27	17.2	27	81	4	515	41	9	21	27	1.84
32254623--32254853	50	4.5	49	81	9	230	25	17	27	29	1.97
32254623--32254853	55	4.5	51	81	8	208	25	17	27	29	1.97
32257209--32257269	15	4.1	16	81	12	76	8	16	18	57	1.63
32262182--32262446	46	5.7	46	77	11	220	28	19	29	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