genome.fa.s9.2.7.7.80.10.50.1000.14.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  14  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)
3957879--3958141	40	6.6	40	87	3	318	26	28	20	24	1.99
3965253--3965308	28	2.0	28	96	0	103	32	12	14	41	1.83
3965599--3965722	43	2.9	43	79	7	119	25	17	23	33	1.97
3972448--3972490	21	2.0	21	86	0	59	51	9	20	18	1.74
3972721--3972844	43	2.9	42	82	2	140	26	16	23	33	1.95
3977715--3977740	13	2.0	13	100	0	52	76	0	23	0	0.78
3983968--3984005	16	2.4	16	95	4	69	28	13	26	31	1.93
3990503--3990685	55	3.1	55	64	19	143	53	2	8	35	1.47
3990492--3990741	122	2.0	122	99	0	491	54	2	9	33	1.45
3990723--3990777	17	3.4	16	80	9	67	60	0	3	36	1.15
3990928--3990965	18	2.1	19	90	5	60	52	2	2	42	1.29
3990923--3990968	19	2.3	20	82	14	60	54	2	2	41	1.25
4000630--4000667	17	2.5	15	80	19	51	39	10	15	34	1.82
4000609--4000699	19	4.9	19	88	8	143	37	10	15	36	1.83
4000988--4001023	17	2.1	18	89	5	56	33	2	0	63	1.08
4009467--4009742	44	6.3	44	82	3	306	32	14	23	28	1.95
4009577--4009769	88	2.2	88	79	3	210	33	16	24	25	1.96
4009521--4009769	132	1.9	133	80	4	297	31	15	25	27	1.96
4009731--4010022	78	3.8	78	87	3	419	32	18	23	25	1.97
4009731--4010091	78	4.5	77	84	8	411	32	18	24	25	1.97
4010039--4010146	45	2.4	45	85	0	144	33	13	27	25	1.94
4010498--4010641	18	7.9	18	92	4	229	36	11	15	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4010498--4010641	35	4.0	37	90	8	242	36	11	15	36	1.83
4010498--4010641	53	2.7	54	96	3	272	36	11	15	36	1.83
4010498--4010664	18	8.8	22	88	10	111	36	10	15	37	1.81
4018951--4019002	25	2.0	26	82	10	63	25	15	23	36	1.93
4020481--4020545	32	2.0	32	96	0	121	40	24	6	29	1.79
4023637--4023668	15	2.1	15	94	0	55	21	15	6	56	1.62
4024604--4024645	5	8.6	5	84	5	59	23	0	0	76	0.79
4024606--4024643	10	3.9	10	96	3	69	26	0	0	73	0.83
4035908--4036112	17	11.8	17	66	19	77	34	2	3	59	1.29
4035913--4035958	24	1.9	24	86	8	67	30	6	0	63	1.20
4035905--4036013	5	21.4	5	70	20	57	35	2	1	59	1.22
4059964--4060174	40	5.3	40	82	2	221	28	27	20	23	1.99
4097866--4098151	96	3.0	96	94	0	482	34	18	34	11	1.88
4099792--4099902	56	2.0	55	98	1	213	28	13	9	48	1.73
4102973--4103028	29	1.9	29	85	0	76	39	17	0	42	1.50
4103013--4103265	130	2.0	122	82	11	302	33	8	5	52	1.56
4103152--4103216	20	3.6	18	80	10	60	27	1	3	67	1.14
4106246--4106280	17	2.0	17	88	5	52	65	0	0	34	0.93
4109611--4109733	33	3.8	33	70	12	112	27	24	21	26	1.99
4109644--4109744	34	3.2	33	68	16	95	28	23	21	25	1.99
4109617--4109762	62	2.4	62	92	1	240	28	23	21	25	1.99
4109652--4109744	33	3.1	28	70	16	87	27	23	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109660--4109763	29	3.4	29	71	17	95	27	24	22	25	1.99
4110051--4110120	25	2.8	25	88	0	104	25	20	24	30	1.99
4111053--4111159	27	3.9	27	74	13	92	30	6	17	44	1.74
4111116--4111272	27	5.8	27	77	8	140	29	8	21	40	1.83
4111117--4111272	81	1.9	81	84	5	208	29	8	20	41	1.83
4111271--4111603	27	12.4	27	84	2	393	41	9	21	27	1.84
4111271--4111603	81	4.1	81	87	2	447	41	9	21	27	1.84
4114714--4114813	39	2.6	38	77	4	103	31	30	23	16	1.96
4119972--4120045	37	2.0	37	100	0	148	54	13	5	27	1.61
4120043--4120085	19	2.3	18	80	4	50	34	13	0	51	1.42
4123762--4123892	42	3.1	42	82	4	167	26	16	25	30	1.97
4123817--4123928	42	2.7	42	81	5	129	30	15	25	28	1.96
4125843--4126015	69	2.5	70	81	4	199	34	20	16	28	1.95
4127862--4127901	10	3.4	13	77	22	52	50	15	0	35	1.44
4127861--4127906	23	2.0	23	91	8	76	50	15	0	34	1.44
4127864--4127913	23	2.2	23	85	7	66	54	12	0	34	1.38
4130737--4130774	8	4.6	8	90	3	58	13	0	0	86	0.56
4135438--4135596	43	3.7	44	81	5	191	30	13	23	32	1.93
4136430--4136474	21	2.2	20	81	14	56	40	4	22	33	1.74
4146876--4146957	22	3.5	23	80	12	80	36	21	19	21	1.95
4146897--4146966	23	3.1	23	73	19	65	37	22	21	18	1.94
4146876--4146969	45	2.0	47	83	4	120	39	21	19	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4149667--4149841	92	1.9	93	83	4	228	25	31	18	25	1.97
4154548--4154576	13	2.2	13	100	0	58	51	20	0	27	1.47
4156279--4156451	46	3.7	45	75	13	147	28	17	28	24	1.97
4158083--4158447	147	2.5	147	79	3	419	32	16	22	28	1.96
4168305--4168334	12	2.5	12	94	0	51	30	50	16	3	1.62
4170470--4170651	27	6.7	27	82	6	156	26	15	28	29	1.96
4170470--4170651	53	3.4	54	76	8	174	26	15	28	29	1.96
4181770--4181901	47	2.8	48	84	1	176	33	25	16	24	1.96
4185850--4185894	22	2.1	23	84	12	60	40	6	8	44	1.62
4187100--4187187	29	3.0	30	76	14	85	54	6	3	35	1.44
4204175--4204228	21	2.6	21	84	0	63	16	35	29	18	1.93
4206143--4206260	59	2.0	59	100	0	236	32	11	23	32	1.91
4208561--4208604	16	2.7	16	86	10	54	29	2	0	68	1.02
4208849--4208888	21	1.9	21	85	10	55	32	5	2	60	1.32
4208913--4208963	17	2.8	17	85	8	57	27	5	1	64	1.27
4211396--4211505	51	2.2	51	85	3	141	29	13	9	48	1.73
4213635--4213695	31	2.0	30	84	6	79	47	8	1	42	1.43
4219332--4219399	29	2.4	28	81	13	84	48	2	1	47	1.26
4223808--4223914	49	2.2	49	83	6	128	24	15	32	27	1.96
4223853--4224009	80	2.0	80	88	0	233	24	15	33	26	1.95
4225474--4225521	22	2.1	24	88	7	73	45	0	0	54	0.99
4227989--4228035	22	2.2	21	84	3	58	34	10	23	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4231978--4232015	19	2.0	19	94	0	67	31	23	10	34	1.89
4236706--4236944	123	1.9	123	85	6	324	28	24	19	27	1.99
4236705--4236955	41	6.1	41	88	6	289	28	24	18	28	1.98
4245028--4245079	25	2.0	28	85	11	74	50	1	19	28	1.58
4246649--4246693	23	2.0	23	86	8	65	37	8	11	42	1.72
4253543--4253619	30	2.6	30	80	0	91	29	22	16	31	1.96
4255997--4256047	26	2.0	26	84	0	66	41	1	5	50	1.37
4256096--4256146	12	3.9	13	85	12	61	27	5	0	66	1.14
4256088--4256149	15	4.0	15	74	15	63	29	6	0	64	1.18
4256086--4256149	8	8.1	8	78	16	53	29	6	0	64	1.18
4256094--4256177	12	6.9	12	76	15	57	32	5	0	61	1.20
4256211--4256284	32	2.3	33	83	6	89	52	0	5	41	1.24
4256205--4256284	33	2.5	31	81	8	88	51	0	5	43	1.23
4257338--4257385	21	2.2	22	92	3	80	45	0	6	47	1.27
4257350--4257447	46	2.2	46	85	9	130	46	5	5	42	1.47
4259136--4259191	22	2.5	23	76	2	60	37	1	0	60	1.07
4261583--4261617	4	8.8	4	100	0	70	77	0	22	0	0.78
4261584--4261632	8	6.9	7	90	9	57	77	0	22	0	0.77
4262298--4262338	21	2.0	21	90	9	66	68	0	0	31	0.90
4265397--4265458	17	3.6	18	72	23	62	32	3	0	64	1.09
4276438--4276487	22	2.3	22	86	10	68	30	4	4	62	1.32
4277131--4277169	20	2.0	20	100	0	78	51	15	7	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4282312--4282371	31	2.0	31	90	3	95	46	5	6	41	1.52
4284336--4284410	37	2.0	37	94	0	132	28	10	29	32	1.90
4285136--4285204	21	3.4	21	71	15	72	36	1	7	55	1.37
4285191--4285221	15	2.1	14	94	5	53	35	3	6	54	1.42
4292615--4292683	21	3.4	21	73	15	72	37	1	5	55	1.33
4296254--4296292	16	2.4	16	78	0	51	35	17	15	30	1.91
4302565--4302607	20	2.2	19	87	4	59	48	6	2	41	1.43
4305060--4305109	20	2.4	22	83	9	61	54	6	0	40	1.25
4324446--4324496	25	2.0	25	100	0	102	35	15	19	29	1.93
4324698--4324772	31	2.4	31	88	0	114	30	26	17	25	1.97

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