genome.fa.s26.2.7.7.80.10.50.1000.179.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  179  of  221  ( 26413 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)
53466011--53466066	21	2.7	21	94	0	94	3	44	19	32	1.68
53471485--53471651	9	18.4	9	80	1	190	32	1	16	49	1.57
53471485--53471812	27	11.6	27	79	10	264	32	1	14	51	1.53
53471680--53471732	8	6.0	8	79	16	52	30	0	11	58	1.33
53471679--53471785	32	3.6	29	84	10	135	33	0	12	54	1.38
53471679--53471752	37	2.0	37	81	5	87	35	0	10	54	1.36
53471688--53471812	20	5.6	23	74	18	63	33	1	12	52	1.49
53471764--53471826	9	6.7	9	75	10	63	34	4	15	44	1.68
53472043--53472080	16	2.4	16	91	4	60	52	5	0	42	1.24
53472077--53472104	13	2.2	13	100	0	56	46	7	7	39	1.59
53472090--53472122	17	1.9	17	93	0	57	54	6	3	36	1.41
53472928--53473003	37	2.1	37	97	0	143	47	10	9	32	1.70
53473142--53473196	30	1.9	29	82	10	69	58	9	3	29	1.46
53473567--53473613	17	2.7	17	80	3	58	57	23	4	14	1.55
53475702--53475909	116	1.8	114	79	8	242	28	21	19	30	1.97
53487996--53488057	20	3.2	20	64	13	58	30	19	14	35	1.92
53490545--53490579	16	2.2	16	94	0	61	45	14	20	20	1.85
53494135--53494320	46	4.1	46	75	6	153	28	13	11	46	1.78
53502217--53502249	17	1.9	17	100	0	66	42	9	0	48	1.35
53502674--53502730	21	2.7	21	78	7	71	35	22	3	38	1.72
53503244--53503302	16	3.7	15	72	22	50	57	5	1	35	1.31
53503274--53503326	25	2.2	24	82	3	61	64	7	0	28	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53507616--53507779	90	1.8	90	85	0	229	39	8	33	18	1.81
53509812--53509847	17	2.2	16	90	5	54	66	2	0	30	1.06
53512450--53512555	41	2.6	41	96	0	194	31	24	21	22	1.98
53519693--53519731	17	2.2	18	86	4	53	23	2	7	66	1.30
53521685--53521738	30	1.9	26	82	14	63	42	0	11	46	1.39
53522720--53522765	16	2.8	17	80	9	60	47	0	2	50	1.13
53525435--53525467	13	2.4	14	90	5	50	9	12	0	78	0.95
53526316--53526363	19	2.6	18	81	15	53	70	2	14	12	1.25
53534623--53534671	19	2.6	19	76	0	62	28	6	22	42	1.77
53534883--53534952	27	2.7	27	91	4	108	52	0	5	41	1.25
53535753--53535795	15	2.9	15	86	10	54	67	4	0	27	1.10
53540216--53540246	9	3.4	9	90	0	53	25	12	22	38	1.90
53540300--53540336	9	4.1	9	92	0	65	45	13	10	29	1.77
53540550--53540609	30	2.0	31	83	3	77	18	41	0	40	1.50
53549193--53549246	18	3.1	18	80	12	60	62	0	1	35	1.06
53550913--53550945	4	8.2	4	100	0	66	51	24	0	24	1.48
53551196--53551237	22	1.9	22	90	0	66	35	28	7	28	1.84
53558546--53558722	34	5.1	34	69	5	131	20	26	24	28	1.99
53558544--53558726	69	2.7	69	84	1	242	20	26	25	27	1.99
53568999--53569039	21	2.0	21	90	0	64	29	21	29	19	1.98
53573091--53573169	29	2.8	27	80	12	79	34	1	10	54	1.42
53573097--53573155	31	2.0	29	86	6	82	33	1	10	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53580521--53580603	43	1.9	43	85	0	112	56	13	15	14	1.67
53583645--53583680	5	7.2	5	100	0	72	0	19	0	80	0.71
53586240--53586555	79	4.0	79	88	0	398	20	18	24	37	1.94
53586751--53586898	76	1.9	76	87	5	219	45	20	11	21	1.82
53588144--53588202	24	2.5	24	86	8	84	32	22	27	18	1.97
53588146--53588215	24	2.9	24	85	6	70	31	24	27	17	1.97
53588224--53588288	25	2.6	25	75	0	67	35	20	26	18	1.95
53590471--53590507	2	18.5	2	100	0	74	51	0	48	0	1.00
53590800--53590851	18	2.8	19	77	8	63	42	1	5	50	1.37
53597566--53597756	36	5.0	36	81	12	229	37	13	19	29	1.90
53597530--53597720	82	2.3	82	94	0	328	37	12	20	29	1.89
53604478--53604519	14	3.2	13	83	12	50	57	2	4	35	1.33
53604809--53604839	15	2.0	16	93	6	55	58	9	0	32	1.31
53608272--53608351	30	2.7	28	71	17	72	42	16	0	41	1.48
53617248--53617289	21	2.0	21	85	0	57	40	2	19	38	1.64
53617724--53617795	26	2.8	25	70	6	72	19	23	19	37	1.94
53617835--53617979	49	2.9	50	80	9	138	20	22	20	37	1.95
53617876--53617942	25	2.7	25	76	2	64	19	23	20	35	1.95
53617909--53617979	25	2.8	25	76	0	79	21	23	18	36	1.95
53621915--53622206	139	2.1	139	94	0	512	20	23	32	23	1.98
53623318--53623344	14	1.9	14	100	0	54	51	7	18	22	1.70
53624902--53624929	12	2.3	12	100	0	56	50	0	25	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53628857--53628940	43	2.0	43	82	0	105	23	21	19	35	1.96
53631330--53631368	20	1.9	21	89	5	62	35	5	2	56	1.35
53632036--53632071	14	2.6	14	95	0	63	38	5	25	30	1.78
53634433--53634473	19	2.2	19	86	8	57	70	7	12	9	1.33
53635463--53635671	91	2.3	91	82	4	242	39	21	9	29	1.84
53635795--53635850	18	3.0	19	71	5	60	64	3	5	26	1.32
53636080--53636117	12	3.1	12	82	17	51	81	2	0	15	0.80
53636160--53636224	19	3.3	20	73	14	64	30	4	4	60	1.37
53636201--53636298	29	3.4	29	74	13	96	32	5	2	60	1.30
53636180--53636344	10	17.4	10	65	19	59	28	4	3	63	1.30
53636218--53636297	27	2.9	28	83	5	108	32	5	1	61	1.26
53636170--53636323	56	2.7	54	76	6	155	28	5	3	62	1.32
53636155--53636344	56	3.3	55	71	11	143	29	4	3	62	1.31
53636283--53636323	18	2.2	18	91	4	64	19	4	2	73	1.13
53636533--53636571	15	2.6	15	95	0	69	17	0	12	69	1.19
53642146--53642261	56	2.1	56	100	0	232	47	17	11	24	1.80
53647427--53647503	29	2.7	29	95	0	136	27	11	12	48	1.76
53654618--53654642	12	2.1	12	100	0	50	64	8	8	20	1.46
53655033--53655073	15	2.4	18	80	15	52	34	7	0	58	1.26
53655162--53655195	5	6.6	5	93	6	59	17	0	0	82	0.67
53659035--53659093	30	2.0	30	93	0	100	57	10	3	28	1.48
53664756--53664828	32	2.3	32	97	0	137	27	1	19	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53664929--53665021	48	1.9	48	100	0	186	36	15	25	22	1.93
53666161--53666206	19	2.4	19	85	3	65	56	4	4	34	1.39
53681675--53681730	21	2.7	21	88	0	85	26	5	35	32	1.79
53682448--53682541	29	3.2	29	96	3	179	36	9	0	54	1.33
53684720--53684771	23	2.1	27	86	13	76	50	7	7	34	1.60
53685013--53685068	23	2.5	22	78	18	53	21	5	5	67	1.31
53685013--53685065	24	2.2	23	78	21	56	22	5	5	66	1.35
53686549--53686596	23	2.1	23	84	7	62	41	6	2	50	1.39
53697573--53697631	29	2.0	29	87	6	84	28	13	8	49	1.71
53704452--53704530	18	4.4	18	80	14	76	56	0	1	41	1.07
53704481--53704537	18	3.2	17	80	7	60	54	0	0	45	0.99
53704455--53704583	37	3.5	37	76	15	104	58	1	1	37	1.17
53704450--53704584	19	7.2	19	70	15	93	60	1	1	36	1.15
53704757--53704861	28	3.7	28	80	12	124	31	3	1	62	1.23
53704783--53704891	10	11.2	10	68	14	59	26	3	1	67	1.17
53704783--53704984	9	21.6	9	66	17	58	31	2	1	63	1.18
53704736--53704903	58	2.9	58	84	6	198	29	5	2	62	1.30
53704956--53704988	10	3.3	10	95	0	57	36	0	0	63	0.95
53704751--53704984	19	12.4	19	67	14	83	32	3	2	62	1.24
53704995--53705158	85	2.0	84	83	2	213	32	9	17	39	1.83
53708593--53708644	21	2.5	21	73	14	54	36	5	0	57	1.23
53723681--53724072	191	2.0	195	92	3	648	29	18	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53725504--53725561	28	2.1	28	96	0	107	31	13	8	46	1.74
53730399--53730726	113	2.9	110	83	1	395	21	20	20	37	1.95
53733852--53733919	22	3.1	22	66	16	59	51	10	0	38	1.36
53734068--53734106	20	2.0	20	94	0	69	64	2	10	23	1.37
53734117--53734158	17	2.5	17	92	3	68	69	0	11	19	1.19
53734117--53734151	16	2.2	16	94	0	61	71	0	14	14	1.15
53734612--53734711	5	18.4	5	70	15	65	51	0	18	31	1.46
53734613--53734703	11	8.7	11	73	15	77	49	0	17	32	1.47
53734612--53734680	28	2.5	28	88	4	104	53	0	15	30	1.43
53734630--53734711	32	2.5	33	92	4	130	48	0	19	31	1.49

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