genome.fa.s26.2.7.7.80.10.50.1000.17.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  17  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)
5078990--5079031	22	1.9	22	90	0	66	33	0	33	33	1.58
5078981--5079083	52	2.0	51	83	9	129	34	0	32	33	1.58
5079033--5079124	22	4.2	23	82	8	111	42	0	27	30	1.56
5079033--5079124	44	2.1	44	85	4	123	42	0	27	30	1.56
5082018--5082219	101	2.0	101	99	0	395	44	5	7	42	1.57
5082297--5082338	17	2.3	18	88	12	59	69	0	0	30	0.89
5085472--5085529	30	1.9	30	82	6	73	65	3	3	27	1.25
5085625--5085687	26	2.5	26	77	12	76	52	0	6	41	1.27
5086679--5086711	12	2.8	12	90	9	50	75	0	9	15	1.03
5087833--5087886	19	2.8	19	82	2	63	53	5	3	37	1.42
5089161--5089195	10	3.5	10	84	0	52	77	2	2	17	1.02
5089956--5090000	20	2.2	21	88	4	65	51	8	0	40	1.33
5089745--5090195	151	3.0	151	83	9	555	44	9	3	42	1.54
5094687--5095034	122	2.8	120	79	14	334	36	13	6	43	1.70
5094765--5095034	122	2.2	120	90	2	407	35	12	6	44	1.68
5097036--5097091	25	2.2	25	87	0	85	42	3	0	53	1.18
5097050--5097091	11	3.1	14	77	22	54	38	4	0	57	1.20
5097050--5097111	11	5.1	13	74	18	53	35	3	0	61	1.12
5097039--5097107	25	2.8	25	84	2	77	42	2	0	55	1.15
5099675--5099743	30	2.4	29	85	9	97	46	21	7	24	1.77
5104453--5104651	105	1.9	108	84	3	269	28	17	19	35	1.94
5105389--5105432	18	2.4	18	77	11	54	50	2	2	45	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5105602--5105653	22	2.3	24	75	21	58	48	0	1	50	1.12
5112034--5112103	34	2.1	34	91	0	113	12	5	10	71	1.30
5112035--5112097	11	5.6	11	83	3	63	12	6	9	71	1.30
5112044--5112103	11	5.4	11	84	4	66	13	5	11	70	1.33
5113457--5113538	40	2.1	40	97	2	157	34	7	7	51	1.58
5118267--5118338	29	2.4	29	82	15	85	43	13	15	27	1.85
5125594--5125658	29	2.3	29	81	7	80	58	0	1	40	1.07
5125886--5125925	19	2.1	19	90	0	62	17	15	10	57	1.64
5131407--5131439	17	1.9	17	100	0	66	36	6	12	45	1.66
5134218--5134268	26	2.0	26	88	7	77	74	0	0	25	0.82
5138148--5138241	38	2.5	38	76	10	102	28	19	13	38	1.90
5146931--5146977	24	2.0	24	86	0	67	48	17	4	29	1.65
5155149--5155182	13	2.7	12	90	9	50	8	0	41	50	1.34
5165010--5165056	25	1.9	24	95	4	85	40	27	6	25	1.80
5172606--5172721	57	2.0	57	98	0	223	31	13	18	37	1.90
5181804--5182762	471	2.0	471	99	0	1891	38	18	11	30	1.87
5182926--5182996	25	2.8	26	75	10	76	28	26	14	30	1.95
5182971--5183175	72	2.8	72	86	0	266	35	21	16	25	1.95
5184211--5184247	15	2.5	15	86	0	56	48	0	0	51	1.00
5199810--5199874	19	3.3	19	80	16	62	24	6	3	66	1.29
5199810--5199877	10	7.0	9	76	17	57	23	5	2	67	1.26
5200454--5200478	13	1.9	13	100	0	50	24	24	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5200391--5200507	61	1.9	61	83	0	153	23	19	14	41	1.89
5201031--5201062	15	2.0	17	88	11	50	34	3	6	56	1.40
5207148--5207186	2	19.5	2	89	0	60	53	2	0	43	1.14
5208779--5208886	43	2.5	43	77	7	119	25	21	22	30	1.98
5208985--5209145	50	3.2	50	69	0	142	24	22	22	30	1.99
5208944--5209224	100	2.8	98	85	4	364	26	20	22	30	1.98
5209241--5209852	169	3.6	169	89	0	909	27	25	17	29	1.97
5209661--5209761	51	2.0	51	84	0	130	28	25	16	28	1.97
5209988--5210765	87	9.0	87	80	3	780	24	23	22	29	1.99
5210250--5210770	173	3.0	173	89	0	799	24	23	22	28	1.99
5212017--5212042	13	2.0	13	100	0	52	15	15	0	69	1.20
5223010--5223072	26	2.5	25	80	12	58	61	4	4	28	1.36
5223668--5223784	28	4.3	29	65	19	72	42	0	7	48	1.37
5223625--5223792	80	2.1	80	98	1	329	39	1	8	50	1.42
5224969--5225043	37	2.0	37	89	0	114	46	2	2	48	1.30
5225063--5225175	49	2.3	48	79	13	115	59	1	7	31	1.35
5225340--5225387	19	2.5	18	83	16	53	31	0	4	64	1.12
5225341--5225421	28	2.9	27	72	18	69	29	1	2	66	1.12
5225397--5225450	20	2.8	19	77	2	54	31	3	1	62	1.23
5225609--5225767	81	2.0	81	81	6	187	32	9	15	42	1.79
5231525--5231563	20	2.0	20	85	10	53	64	0	0	35	0.94
5234058--5234135	24	3.2	23	77	15	77	35	23	28	12	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5234070--5234135	24	2.7	24	86	9	89	37	22	27	12	1.90
5234182--5234243	27	2.3	27	100	0	124	32	19	27	20	1.97
5234732--5234759	11	2.5	11	100	0	56	53	7	0	39	1.28
5234924--5234959	18	1.9	19	88	5	56	36	2	2	58	1.27
5236489--5236564	30	2.7	27	73	16	64	19	2	14	63	1.42
5239363--5239494	66	2.0	65	97	1	246	21	18	38	20	1.93
5240126--5240269	69	2.1	70	81	10	163	34	4	2	59	1.28
5240696--5240908	72	2.9	72	91	1	336	28	17	17	36	1.93
5250629--5250813	46	4.0	46	89	1	273	28	24	9	37	1.87
5252037--5252085	17	2.9	17	90	3	73	51	18	0	30	1.47
5255395--5255447	20	2.8	20	75	16	58	62	1	1	33	1.17
5255475--5255510	16	2.2	17	95	5	65	50	0	0	50	1.00
5255547--5255617	3	23.3	3	78	13	74	61	2	5	29	1.33
5255578--5255640	18	3.4	17	83	14	63	63	1	4	30	1.24
5257149--5258265	44	25.6	44	72	8	737	28	20	19	30	1.97
5257061--5258308	129	9.6	128	76	7	794	28	20	19	30	1.97
5257111--5258222	217	5.1	217	80	4	1231	28	20	19	30	1.97
5257066--5258308	44	28.7	41	68	14	192	28	20	19	30	1.97
5257101--5258308	173	6.9	174	77	8	796	28	20	19	30	1.97
5259755--5259816	29	2.2	29	88	8	92	11	14	0	74	1.08
5259758--5259816	20	2.9	22	80	16	74	11	15	0	72	1.11
5260615--5260641	6	4.5	6	100	0	54	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5264755--5264813	26	2.3	25	80	11	66	64	1	3	30	1.20
5264746--5264815	28	2.5	28	84	11	81	65	1	2	30	1.15
5264765--5264819	20	2.8	20	76	15	60	61	1	1	34	1.17
5264847--5264882	16	2.2	17	95	5	65	50	0	0	50	1.00
5264918--5264988	3	23.3	3	76	13	65	60	4	5	29	1.38
5264949--5265011	18	3.4	17	83	14	63	63	1	4	30	1.24
5267410--5267884	261	1.8	261	88	0	727	30	16	25	27	1.96
5267802--5267933	51	2.6	51	79	3	131	31	15	26	26	1.95
5267911--5267953	21	2.1	21	86	4	61	39	6	30	23	1.81
5267860--5267995	72	1.9	72	86	3	193	30	13	27	27	1.94
5267670--5267991	174	1.9	174	84	2	432	30	14	26	28	1.95
5268034--5268147	51	2.2	51	87	3	158	32	17	21	28	1.96
5268212--5268798	132	4.5	132	86	5	746	29	21	24	24	1.99
5268308--5268603	44	6.7	44	67	14	155	28	22	25	23	2.00
5268793--5268878	45	1.9	45	88	4	129	31	13	26	27	1.94
5270350--5270598	50	4.8	50	83	5	259	20	28	23	26	1.99
5270349--5270598	100	2.4	104	87	6	348	21	28	23	26	1.99
5270693--5270723	13	2.4	13	94	0	53	54	12	0	32	1.38
5271712--5271950	41	5.8	41	87	6	283	28	24	20	27	1.99
5273777--5273834	30	1.9	30	89	0	89	31	24	3	41	1.71
5285850--5285884	9	3.8	9	92	3	52	14	2	8	74	1.17
5287013--5287824	403	2.0	403	99	0	1606	33	27	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5289283--5289610	106	3.1	106	83	2	392	32	18	17	32	1.94
5290554--5290618	17	3.8	16	71	18	51	67	3	3	26	1.20
5290581--5290635	25	2.1	27	86	6	78	65	1	5	27	1.25
5290631--5290680	24	2.1	24	81	3	57	60	6	0	34	1.21
5291020--5291065	20	2.2	20	85	11	58	10	26	10	52	1.69
5291721--5291826	39	2.6	41	80	4	108	19	27	28	24	1.99
5291925--5291977	9	5.7	10	82	10	60	62	1	1	33	1.17
5291925--5291977	18	2.8	19	82	5	72	62	1	1	33	1.17
5291945--5291987	19	2.3	19	84	8	52	65	2	0	32	1.06
5292525--5292562	16	2.4	16	95	0	67	26	0	0	73	0.83

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