genome.fa.s26.2.7.7.80.10.50.1000.14.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: 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  14  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)
4360927--4360980	23	2.3	24	87	3	74	40	1	0	57	1.09
4360943--4361007	33	2.0	31	85	11	87	38	3	1	56	1.24
4360945--4361012	17	4.1	17	70	14	52	39	2	1	55	1.24
4361613--4361658	19	2.5	19	79	10	51	56	6	10	26	1.58
4366386--4366414	5	5.8	5	100	0	58	20	20	20	37	1.94
4368343--4368390	16	3.1	15	90	6	69	64	2	2	31	1.16
4368339--4368390	8	6.5	8	82	8	61	65	1	1	30	1.14
4368338--4368394	24	2.4	24	79	5	71	64	1	3	29	1.20
4368505--4368558	23	2.5	22	75	13	60	57	5	5	31	1.45
4368521--4368606	25	3.7	24	79	10	81	55	5	6	31	1.50
4368622--4368684	16	4.1	16	75	19	53	61	0	3	34	1.12
4368632--4368765	25	5.6	25	71	11	93	58	2	3	35	1.28
4370201--4370248	16	3.1	15	90	6	69	64	2	2	31	1.16
4370197--4370248	8	6.5	8	82	8	61	65	1	1	30	1.14
4370195--4370252	24	2.4	24	80	5	73	65	1	3	29	1.19
4370361--4370414	23	2.5	22	75	13	60	57	5	5	31	1.45
4370377--4370462	25	3.7	24	79	10	81	55	5	6	31	1.50
4370488--4370621	25	5.6	25	71	11	93	58	2	3	35	1.28
4371101--4371233	30	4.4	30	88	1	171	21	3	47	27	1.68
4372092--4372154	14	4.5	14	78	7	65	58	4	14	22	1.54
4372019--4372244	117	1.9	118	84	4	305	42	16	17	23	1.88
4372210--4372244	14	2.5	14	95	0	61	62	5	17	14	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372409--4372471	14	4.5	14	82	7	65	61	3	12	22	1.45
4372412--4372444	15	2.2	15	94	0	57	69	0	9	21	1.15
4372428--4372471	13	3.3	13	81	6	52	63	4	13	18	1.46
4372454--4373159	75	9.1	75	72	15	402	33	20	18	28	1.96
4372030--4372595	317	1.8	307	88	7	838	37	19	17	25	1.93
4372679--4372713	14	2.5	14	95	0	61	60	0	20	20	1.37
4372603--4372790	89	2.1	91	87	3	272	35	17	19	27	1.94
4372865--4373153	146	2.0	147	91	0	472	32	20	16	30	1.95
4373200--4373926	74	9.9	74	86	2	908	31	19	16	32	1.94
4373191--4373939	297	2.6	292	88	3	1076	32	19	16	31	1.94
4373979--4374113	71	1.9	71	87	3	200	34	22	14	28	1.93
4385325--4385918	70	8.2	70	86	10	711	29	17	18	34	1.94
4385325--4386152	216	3.7	210	79	14	740	28	18	19	34	1.95
4385898--4385932	14	2.5	14	95	0	61	20	20	0	60	1.37
4385840--4386009	89	1.9	90	90	2	270	27	20	20	32	1.97
4385911--4386154	76	3.3	75	90	4	361	24	20	21	34	1.97
4386137--4386180	13	3.3	13	81	6	52	18	13	4	63	1.46
4386137--4386199	14	4.5	14	82	7	65	22	12	3	61	1.45
4386164--4386196	15	2.2	15	94	0	57	21	9	0	69	1.15
4386364--4386398	14	2.5	14	95	0	61	14	17	5	62	1.49
4386453--4386496	13	3.3	13	81	6	52	18	13	6	61	1.54
4386453--4386515	14	4.5	14	78	7	65	22	14	4	58	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4386365--4386603	117	2.1	115	82	5	284	24	17	15	42	1.88
4387382--4387434	18	3.3	18	65	29	55	24	49	3	22	1.66
4387368--4387455	30	3.0	30	96	1	160	27	48	3	20	1.65
4387368--4387498	59	2.2	59	82	8	151	26	47	3	22	1.68
4388055--4388113	14	4.1	13	76	21	55	33	3	0	62	1.12
4388049--4388106	25	2.4	24	85	2	80	36	3	0	60	1.14
4388145--4388192	24	2.0	25	87	4	71	35	8	6	50	1.58
4389581--4389619	20	2.0	20	84	0	51	30	10	5	53	1.56
4389741--4389788	13	3.8	13	80	2	53	33	4	0	62	1.14
4389704--4389787	17	4.5	17	74	21	62	29	3	0	66	1.08
4391659--4391687	5	5.8	5	100	0	58	37	20	20	20	1.94
4397048--4397115	17	4.1	17	70	14	52	55	1	2	39	1.24
4397053--4397117	33	2.0	31	85	11	87	56	1	3	38	1.24
4397080--4397134	24	2.3	24	84	6	67	56	0	1	41	1.10
4397110--4397149	17	2.4	16	88	12	55	50	0	0	50	1.00
4406802--4406838	19	1.9	19	89	10	58	16	27	2	54	1.56
4419121--4419154	13	2.8	12	86	8	50	14	0	0	85	0.60
4419831--4419865	15	2.4	15	95	4	63	34	2	5	57	1.37
4426734--4427259	88	6.0	88	80	1	543	27	25	24	22	1.99
4426787--4427018	44	5.3	44	64	4	117	25	26	25	22	2.00
4426804--4426947	44	3.2	45	67	5	123	28	27	25	18	1.98
4426767--4427301	175	3.1	174	81	3	547	28	25	24	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4427312--4427409	44	2.2	44	85	0	124	27	18	22	31	1.97
4427395--4427599	44	4.8	44	72	12	149	31	20	20	27	1.97
4427523--4427639	44	2.6	45	78	14	136	31	18	22	27	1.97
4428378--4428409	17	1.9	16	93	6	55	12	0	0	87	0.54
4429093--4429127	15	2.4	15	95	4	63	34	2	5	57	1.37
4429687--4429718	16	2.1	16	94	5	57	25	6	3	65	1.31
4430836--4430900	26	2.4	27	89	5	114	66	0	0	33	0.92
4434356--4434416	24	2.4	25	86	8	79	60	0	32	6	1.22
4442214--4442308	48	2.0	48	91	0	154	31	16	21	30	1.95
4443391--4443421	5	6.2	5	100	0	62	41	19	19	19	1.90
4444085--4444109	13	1.9	13	100	0	50	56	0	32	12	1.36
4448053--4448539	172	2.8	172	82	5	536	39	18	11	30	1.86
4460901--4461068	31	5.5	30	74	8	160	40	2	3	52	1.34
4460907--4461071	61	2.7	60	90	3	258	41	3	3	52	1.34
4460927--4461078	30	5.0	30	74	8	137	40	2	4	51	1.36
4462219--4462295	9	8.6	9	88	0	109	23	11	25	38	1.89
4462219--4462295	27	2.9	27	92	0	127	23	11	25	38	1.89
4462639--4462694	26	2.2	25	81	12	69	42	8	14	33	1.77
4469559--4469608	24	2.0	26	88	7	77	26	2	0	72	0.96
4470675--4470747	33	2.2	33	97	2	139	28	2	23	45	1.67
4473048--4473086	10	4.0	10	83	6	53	69	0	0	30	0.89
4473048--4473111	29	2.1	32	85	8	89	64	1	0	34	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4473047--4473120	28	2.6	29	80	2	87	59	1	0	39	1.06
4473122--4473146	6	4.2	6	100	0	50	52	0	0	48	1.00
4474794--4474833	21	1.9	21	89	0	62	30	2	0	67	1.04
4480151--4480184	16	2.2	15	89	5	50	52	0	2	44	1.16
4480381--4480439	28	2.3	27	83	16	72	45	1	0	52	1.10
4485513--4485553	20	2.0	20	90	0	64	34	14	0	51	1.43
4486453--4486489	14	2.6	15	91	8	60	13	0	35	51	1.41
4513883--4513962	15	5.4	15	79	7	92	10	15	13	61	1.57
4513874--4513953	30	2.7	30	80	7	99	11	15	15	58	1.63
4513878--4513962	45	1.9	44	85	7	118	9	14	16	60	1.59
4516472--4516617	52	3.0	48	77	10	145	24	17	29	28	1.98
4526225--4526279	21	2.6	21	82	0	74	25	9	36	29	1.87
4530419--4530468	25	2.0	25	96	0	91	62	4	30	4	1.32
4530723--4530819	49	2.0	48	89	2	149	40	21	17	20	1.92
4531045--4531117	36	2.0	36	91	0	119	41	16	9	32	1.81
4535863--4535959	49	2.0	48	85	2	131	40	19	17	22	1.92
4536185--4536257	36	2.0	36	91	0	119	41	16	9	32	1.81
4538137--4538181	11	3.9	11	77	11	54	40	2	0	57	1.11
4539947--4539985	18	2.1	18	85	4	51	23	10	20	46	1.81
4540579--4540610	12	2.7	12	95	0	55	9	3	6	81	0.97
4547480--4547550	29	2.4	30	80	15	78	57	4	2	35	1.33
4551678--4551703	3	8.7	3	100	0	52	34	0	34	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4556312--4556350	16	2.4	16	86	0	60	38	5	28	28	1.78
4556492--4556613	56	2.2	56	79	8	140	51	4	0	42	1.29
4559694--4559900	43	4.8	43	78	5	202	22	26	20	30	1.98
4559694--4559897	86	2.4	88	83	5	245	23	26	21	29	1.99
4559711--4559916	87	2.4	86	82	5	245	24	26	18	30	1.98
4562024--4562118	9	11.2	9	69	17	69	32	1	21	45	1.59
4562022--4562118	25	3.9	24	73	16	90	32	1	20	45	1.58
4562057--4562163	34	3.3	34	75	11	91	28	3	23	43	1.71
4562329--4562714	9	44.7	9	64	18	117	34	2	17	45	1.63
4562355--4562441	25	3.5	25	75	0	75	33	5	18	42	1.74

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