genome.fa.s1.2.7.7.80.10.50.1000.126.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   

This is table  126  of  316  ( 37835 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)
39945435--39945539	17	5.9	17	73	18	81	56	1	5	36	1.34
39945480--39945531	23	2.3	22	80	9	59	55	1	5	36	1.35
39947702--39947774	32	2.2	32	85	7	94	31	2	5	60	1.34
39947688--39947798	53	2.1	50	80	12	118	35	3	3	57	1.33
39947747--39947817	24	3.2	22	75	13	56	36	5	2	54	1.38
39947771--39947822	24	2.2	24	82	0	59	40	9	0	50	1.35
39947781--39947871	26	3.3	26	77	13	85	37	7	3	51	1.47
39951817--39951879	30	2.1	31	87	3	92	44	1	6	47	1.38
39955601--39955676	31	2.5	31	72	12	75	31	17	13	38	1.88
39968425--39968457	16	2.0	17	88	5	50	60	3	0	36	1.12
39972144--39972203	16	3.7	16	73	10	50	53	1	0	45	1.10
39972175--39972208	12	2.8	12	95	0	59	47	2	0	50	1.16
39972147--39972263	62	1.9	59	83	8	146	50	3	3	42	1.36
39972295--39972332	20	1.9	19	89	5	58	52	0	5	42	1.24
39981587--39981644	31	1.9	29	86	13	82	39	3	5	51	1.41
39997655--39997702	16	2.8	17	84	6	53	68	6	2	22	1.23
39997676--39997707	16	2.1	16	94	5	57	65	6	0	28	1.16
40000447--40000517	24	3.0	24	83	4	90	23	32	19	23	1.98
40001501--40001542	22	1.9	22	85	9	59	54	7	0	38	1.28
40002233--40002285	24	2.2	25	86	3	72	7	13	3	75	1.15
40002297--40002331	14	2.5	14	90	0	52	20	5	11	62	1.48
40002405--40002502	48	2.0	48	96	0	178	29	4	6	60	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40005489--40005516	3	9.3	3	100	0	56	67	0	0	32	0.91
40005281--40005529	125	2.0	127	83	7	319	57	6	6	30	1.48
40006611--40006649	16	2.4	16	100	0	78	7	7	53	30	1.57
40006850--40006875	13	2.0	13	100	0	52	7	0	30	61	1.24
40008899--40008975	40	1.9	39	84	7	102	29	0	3	66	1.10
40010233--40010337	27	3.9	27	82	7	115	33	21	24	20	1.97
40010726--40010755	8	3.8	8	90	0	51	3	26	26	43	1.70
40011933--40012040	26	4.2	26	92	0	180	36	23	7	33	1.83
40017153--40017199	23	2.0	23	100	0	94	12	38	0	48	1.41
40022729--40022753	13	1.9	13	100	0	50	0	12	0	88	0.53
40030482--40030520	18	2.2	18	95	0	69	64	12	0	23	1.28
40030861--40030908	23	2.2	22	85	7	62	31	4	4	60	1.35
40038794--40038835	19	2.2	19	100	0	84	52	4	9	33	1.55
40039307--40039497	47	3.9	48	84	5	208	24	16	29	29	1.97
40039309--40039516	93	2.1	97	81	8	237	25	16	28	29	1.97
40049571--40049615	18	2.5	18	88	0	63	35	15	28	20	1.93
40050138--40050171	13	2.6	13	95	0	59	35	8	23	32	1.86
40059156--40059192	18	2.1	18	89	0	56	35	0	43	21	1.53
40059319--40059382	29	2.2	29	80	5	76	32	50	1	15	1.54
40059348--40059418	37	1.9	37	94	0	124	30	52	0	16	1.45
40059804--40059840	19	2.0	18	94	5	65	32	0	0	67	0.91
40059692--40059831	63	2.2	64	80	12	155	25	4	5	64	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40059812--40059864	14	3.7	14	82	5	54	37	1	1	58	1.20
40061998--40062038	21	2.0	21	90	9	66	41	24	17	17	1.89
40064621--40064668	13	3.8	13	80	20	57	72	0	27	0	0.84
40064639--40064694	17	3.4	17	82	4	62	78	1	19	0	0.84
40064611--40064693	28	3.2	26	77	14	82	78	1	20	0	0.82
40064647--40064698	26	2.0	27	85	11	72	78	3	17	0	0.89
40065950--40066563	133	4.6	133	89	2	908	29	21	22	26	1.99
40065950--40066551	268	2.3	267	89	2	924	29	21	22	26	1.99
40066765--40066828	29	2.2	29	86	5	94	31	48	1	18	1.58
40066794--40066864	37	1.9	37	97	0	133	29	52	0	18	1.46
40067150--40067277	60	2.1	62	84	7	163	27	4	5	62	1.37
40067252--40067288	19	2.0	18	94	5	65	32	0	0	67	0.91
40067138--40067279	62	2.3	63	80	10	166	26	4	5	64	1.34
40067252--40067309	11	5.1	12	72	16	52	37	0	1	60	1.07
40067260--40067290	14	2.2	14	94	0	53	32	0	0	67	0.91
40086384--40086408	13	1.9	13	100	0	50	0	0	8	92	0.40
40092493--40092539	23	2.0	23	95	0	85	38	14	12	34	1.85
40095361--40095403	20	2.2	20	86	0	59	48	0	4	46	1.22
40095589--40095665	23	2.9	27	70	21	81	44	5	6	44	1.52
40096861--40096888	13	2.2	13	100	0	56	28	17	14	39	1.89
40108098--40108135	13	2.8	14	88	4	60	44	0	2	52	1.14
40108927--40109024	41	2.4	41	89	1	151	17	33	26	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40111517--40111720	40	5.1	40	82	8	220	24	27	23	25	2.00
40119471--40119694	40	5.7	40	87	6	280	24	27	23	25	2.00
40119471--40119694	79	2.8	77	83	10	272	24	27	23	25	2.00
40121296--40121552	101	2.6	101	87	4	366	29	28	13	28	1.94
40123552--40123585	18	1.9	18	88	5	52	11	29	0	58	1.33
40125385--40125409	13	1.9	13	100	0	50	40	12	0	48	1.40
40127464--40127506	6	7.2	6	89	0	50	41	0	32	25	1.56
40127650--40127699	26	1.9	26	92	8	84	40	10	18	32	1.83
40131937--40132015	29	2.7	29	86	5	106	27	32	15	24	1.95
40135773--40135910	55	2.6	53	78	6	161	35	18	25	20	1.95
40135731--40135931	108	1.8	110	86	4	291	32	17	27	21	1.96
40140500--40140561	14	4.8	13	77	16	58	77	1	17	3	0.98
40140498--40140561	11	5.3	12	71	14	51	78	1	17	3	0.96
40140498--40140561	6	10.7	6	74	12	51	78	1	17	3	0.96
40142449--40142670	40	5.6	40	91	1	349	23	23	26	26	2.00
40143101--40143136	3	12.0	3	100	0	72	66	0	0	33	0.92
40151742--40151783	14	3.2	13	87	12	59	19	4	0	76	0.96
40151746--40151788	17	2.6	17	85	3	61	20	6	0	72	1.08
40153489--40153553	6	10.8	6	91	0	94	16	1	9	72	1.18
40153489--40153556	18	3.8	18	94	0	109	16	1	8	73	1.15
40159758--40159917	41	3.9	41	81	2	214	28	28	21	20	1.98
40168034--40168183	41	3.7	41	83	3	196	30	28	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40176669--40176701	17	1.9	17	88	11	50	42	3	12	42	1.57
40177706--40177730	13	1.9	13	100	0	50	24	0	0	76	0.80
40181294--40181518	49	4.5	49	87	2	297	28	27	17	25	1.98
40181293--40181525	99	2.3	100	84	2	308	28	27	18	25	1.98
40184995--40185170	46	3.8	45	79	12	205	21	21	27	30	1.98
40184992--40185162	93	1.8	93	94	0	306	21	21	28	29	1.98
40190584--40190652	24	3.0	23	65	12	61	42	13	20	24	1.87
40190572--40190928	45	7.9	45	75	8	217	42	17	20	19	1.89
40190717--40190881	46	3.6	46	83	2	163	44	16	20	17	1.86
40192885--40192909	8	3.1	8	100	0	50	60	16	0	24	1.36
40196050--40196234	40	4.7	40	87	6	243	25	27	22	24	2.00
40196050--40196234	79	2.3	81	86	6	254	25	27	22	24	2.00
40203943--40204121	48	3.7	48	83	1	180	27	18	27	25	1.98
40206697--40206784	45	2.0	45	93	0	149	37	25	12	25	1.91
40206716--40206786	21	3.2	21	63	18	54	39	25	12	22	1.89
40208372--40208450	31	2.5	31	97	0	149	25	26	18	29	1.98
40208474--40208554	42	1.9	42	89	0	126	37	18	13	30	1.90
40210111--40210295	79	2.3	81	84	7	236	24	22	27	25	2.00
40210112--40210295	40	4.6	40	83	9	216	24	22	27	25	2.00
40210164--40210328	79	2.1	79	84	6	210	26	21	27	25	1.99
40218005--40218189	79	2.3	81	84	7	236	24	22	27	25	2.00
40218006--40218189	40	4.6	40	83	9	216	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40218058--40218222	79	2.1	79	84	6	210	26	21	27	25	1.99
40219697--40219816	52	2.3	52	90	2	190	25	22	23	28	1.99
40219681--40219816	26	5.3	26	84	3	154	26	22	21	30	1.99
40219866--40219932	20	3.3	20	89	4	100	31	17	10	40	1.84
40220639--40220703	27	2.4	27	79	5	69	23	24	16	35	1.95
40220754--40221003	27	9.2	27	73	10	143	32	9	18	40	1.82
40220847--40221003	54	2.9	54	78	5	183	29	10	20	40	1.85
40221002--40221197	27	7.3	27	90	0	284	39	7	23	29	1.82
40221002--40221197	81	2.4	81	93	0	320	39	7	23	29	1.82
40222339--40222405	25	2.7	25	100	0	134	37	25	14	22	1.93

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316