genome.fa.s15.2.7.7.80.10.50.1000.178.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  178  of  222  ( 26535 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)
56989703--56989727	2	12.5	2	100	0	50	48	0	0	52	1.00
56992038--56995287	434	7.6	433	81	5	3613	35	13	15	34	1.87
56996764--56996810	22	2.0	23	88	8	69	21	6	0	72	1.07
56997900--56997950	25	2.1	25	85	3	68	31	9	15	43	1.80
57001665--57001726	3	21.0	3	72	21	51	62	0	6	30	1.20
57001665--57001715	21	2.4	22	87	12	72	62	0	7	29	1.23
57001681--57001735	16	3.5	16	79	18	62	61	1	5	30	1.29
57003551--57003857	71	4.5	69	85	10	363	34	19	17	28	1.95
57003856--57003904	1	49.0	1	100	0	98	100	0	0	0	0.00
57029053--57029094	6	7.0	6	78	10	50	0	21	0	78	0.75
57029056--57029099	22	2.0	22	86	8	63	0	25	0	75	0.81
57033672--57033722	24	2.1	24	88	0	75	37	3	9	49	1.55
57038070--57038177	41	2.7	41	88	1	155	18	19	29	32	1.96
57038534--57038587	22	2.5	21	84	3	72	24	0	25	50	1.50
57038534--57038622	7	12.6	7	72	2	61	23	0	28	48	1.51
57038491--57038623	21	6.3	21	74	8	83	25	0	27	46	1.58
57038637--57038700	21	3.0	21	76	19	69	21	0	42	35	1.54
57039420--57039500	39	2.1	39	83	2	101	38	18	22	20	1.94
57052785--57053270	73	6.5	74	84	8	569	31	19	17	31	1.95
57065799--57065871	21	3.5	20	77	18	69	61	1	6	30	1.30
57065814--57065856	15	2.9	15	78	21	54	65	0	4	30	1.13
57069161--57069233	36	2.0	36	100	0	146	45	19	10	24	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57071405--57072503	94	11.9	94	82	5	1117	34	17	21	26	1.96
57071480--57072175	44	14.9	44	64	19	189	34	17	20	26	1.96
57071405--57072503	187	5.9	188	80	5	1157	34	17	21	26	1.96
57071405--57072448	281	3.8	281	81	4	1126	33	18	21	26	1.96
57071914--57072052	50	2.9	49	69	17	123	37	15	20	26	1.93
57072079--57072434	93	4.0	85	76	11	322	33	19	21	25	1.97
57072728--57072752	5	5.0	5	100	0	50	60	40	0	0	0.97
57073022--57073068	24	1.9	25	82	4	60	70	10	17	2	1.26
57073082--57073106	12	2.1	12	100	0	50	84	0	8	8	0.79
57074160--57074212	27	1.9	27	84	3	70	18	9	0	71	1.12
57077380--57077444	3	21.7	3	82	0	76	64	4	3	27	1.28
57079274--57079914	132	4.9	132	90	0	944	27	24	18	30	1.98
57079300--57079891	44	13.5	44	66	19	200	28	23	18	29	1.98
57079921--57080039	44	2.7	46	77	6	136	24	23	24	27	2.00
57079901--57080038	45	3.1	45	77	6	154	21	24	23	30	1.99
57081274--57081308	13	2.8	13	95	4	63	0	20	0	80	0.72
57081274--57081323	22	2.3	22	89	3	84	0	18	0	82	0.68
57081278--57081333	9	5.9	9	85	8	58	1	14	1	82	0.84
57084035--57084086	19	2.7	20	82	5	63	46	11	17	25	1.81
57085996--57086040	14	3.2	14	81	9	56	73	2	2	22	1.05
57085997--57086043	17	2.9	17	78	12	55	74	2	2	21	1.03
57086224--57086315	3	30.7	3	84	0	112	63	3	3	30	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57087061--57087102	21	2.0	22	85	4	59	71	7	9	11	1.31
57087518--57090945	433	7.9	433	85	2	4315	35	14	15	35	1.88
57087518--57090945	867	4.0	863	85	2	4378	35	14	15	35	1.88
57095178--57095216	18	2.2	18	100	0	78	5	53	0	41	1.23
57100054--57100087	18	1.9	18	88	5	52	55	2	2	38	1.30
57103879--57103930	26	2.0	26	81	11	61	65	3	1	28	1.21
57106164--57106237	37	2.0	38	86	7	107	56	1	4	37	1.27
57106206--57106252	17	2.6	18	78	18	53	65	0	4	29	1.11
57115113--57115156	21	2.1	21	83	8	54	36	0	6	56	1.26
57132557--57132591	18	2.0	17	94	5	61	51	0	0	48	1.00
57132675--57132711	16	2.2	17	86	13	51	54	0	2	43	1.14
57132572--57132762	61	3.2	61	69	12	178	47	6	3	42	1.46
57132795--57132831	16	2.2	17	86	13	51	54	0	2	43	1.14
57132538--57132829	59	4.9	58	67	12	166	47	4	3	43	1.41
57132537--57132832	120	2.5	120	94	2	515	47	4	3	44	1.40
57132839--57133054	91	2.4	91	92	1	353	46	3	2	47	1.33
57132814--57133054	47	5.3	47	68	16	148	47	2	2	46	1.32
57132966--57133014	17	3.1	16	83	13	57	55	0	0	44	0.99
57132873--57133015	44	3.2	44	69	18	132	49	2	1	46	1.22
57132971--57133020	18	3.0	17	85	8	59	56	2	0	42	1.11
57133133--57133172	14	2.9	14	84	0	53	35	7	15	42	1.75
57133141--57133207	34	1.9	35	84	3	91	34	8	10	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57133156--57133195	20	2.0	20	85	0	53	32	10	7	50	1.64
57140804--57140885	19	4.3	18	76	14	58	30	1	3	64	1.18
57140957--57141175	10	22.4	10	67	21	60	35	1	3	59	1.23
57141035--57141099	20	3.2	19	80	10	67	32	1	4	61	1.26
57141053--57141112	30	2.0	31	87	9	88	31	0	5	63	1.16
57141062--57141120	30	2.0	30	86	6	84	33	0	5	61	1.18
57147924--57147968	25	1.9	22	86	13	63	22	13	26	37	1.91
57150422--57150465	18	2.5	18	88	3	63	72	6	2	18	1.17
57164328--57164371	23	1.9	22	82	17	54	36	25	0	38	1.56
57164416--57164504	45	2.0	45	90	0	142	33	22	17	25	1.96
57164511--57164644	51	2.6	51	79	2	153	32	28	15	23	1.95
57176338--57176403	19	3.3	19	87	6	69	75	7	0	16	1.02
57176345--57176402	19	2.9	19	92	5	89	74	6	0	18	1.04
57176346--57176418	13	5.4	14	72	9	53	72	5	2	19	1.16
57177275--57177370	48	2.0	48	89	4	149	44	18	20	15	1.86
57178021--57178088	35	1.9	35	90	0	109	51	8	14	25	1.71
57178655--57179413	88	8.6	88	87	0	991	27	26	24	22	2.00
57178655--57179415	263	2.9	263	86	1	1038	26	26	24	22	2.00
57178834--57179411	44	13.2	44	63	8	165	26	26	25	22	2.00
57179445--57179698	44	5.9	43	80	8	259	27	18	25	28	1.98
57179448--57179717	88	3.1	86	82	4	296	28	19	23	28	1.98
57179532--57179732	44	4.6	43	79	3	134	29	18	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57179492--57179744	132	1.9	128	79	7	278	30	18	23	27	1.98
57179776--57180161	88	4.4	88	85	1	497	25	24	26	24	2.00
57179914--57180052	44	3.2	44	69	8	120	25	25	23	25	2.00
57180184--57180598	44	9.6	45	72	10	172	28	20	24	27	1.99
57180361--57180464	40	2.6	40	89	3	147	27	22	20	29	1.98
57180233--57180735	213	2.4	211	81	5	550	28	20	24	26	1.99
57180186--57180735	257	2.1	256	86	4	761	28	20	24	26	1.99
57180186--57180750	44	13.1	45	71	15	163	28	19	24	26	1.99
57182174--57182220	16	2.9	16	76	14	51	14	4	6	74	1.17
57189541--57189605	8	7.8	9	83	10	52	60	3	0	36	1.13
57189553--57189605	8	6.6	8	86	8	65	64	1	0	33	1.05
57189552--57189606	7	7.3	7	82	11	56	63	1	0	34	1.05
57189552--57189606	15	3.6	15	80	11	67	63	1	0	34	1.05
57189552--57189614	15	4.1	15	80	10	56	63	1	0	34	1.04
57191349--57191423	38	2.0	38	97	0	141	26	20	10	42	1.84
57192796--57192873	22	3.5	22	75	10	70	66	3	5	24	1.29
57194675--57194702	14	2.0	14	100	0	56	14	0	7	78	0.95
57207001--57207043	19	2.3	19	84	8	52	67	2	13	16	1.33
57209987--57210022	16	2.2	16	90	9	56	61	0	0	38	0.96
57211906--57212026	45	2.7	45	88	0	179	21	24	23	30	1.99
57211990--57212391	217	1.9	217	87	1	599	27	24	18	30	1.98
57211945--57212318	173	2.2	173	79	8	388	27	24	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57212257--57212367	44	2.5	44	87	8	163	33	19	16	30	1.94
57213024--57213055	14	2.3	14	94	0	55	40	9	18	31	1.83
57216679--57216721	18	2.4	18	88	0	59	41	44	2	11	1.53
57226188--57226241	3	18.0	3	100	0	108	33	0	0	66	0.92
57226466--57226523	28	2.1	28	100	0	116	32	6	0	60	1.23
57227713--57227799	36	2.5	35	94	1	147	58	4	2	34	1.31
57227739--57227858	29	4.2	29	71	13	88	60	5	0	34	1.25
57227778--57227858	29	3.0	26	80	16	94	62	3	0	33	1.12
57230374--57230449	36	2.1	36	80	11	84	51	1	9	38	1.42
57230968--57231025	22	2.6	22	81	7	64	41	17	5	36	1.72

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