genome.fa.s17.2.7.7.80.10.50.1000.169.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  169  of  185  ( 22116 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)
51620406--51620434	5	6.0	5	96	4	51	20	0	0	79	0.74
51622190--51622263	37	2.0	37	94	0	130	39	17	25	17	1.91
51624611--51624636	5	5.2	5	100	0	52	19	0	0	80	0.71
51634393--51634458	19	3.4	19	66	22	55	42	10	1	45	1.48
51634392--51634474	40	2.1	40	97	0	157	42	9	2	45	1.50
51634645--51634677	16	2.1	16	94	0	57	33	3	0	63	1.10
51635421--51635507	44	2.0	44	93	0	147	27	12	18	41	1.87
51638597--51638772	37	4.8	37	94	0	289	38	13	21	26	1.91
51638735--51638858	46	2.8	46	91	3	200	33	16	22	27	1.96
51642868--51643077	56	4.0	54	72	16	179	32	10	12	43	1.78
51642939--51643112	44	3.7	44	74	15	168	32	13	12	41	1.82
51642885--51643117	99	2.3	100	88	0	342	32	12	13	41	1.82
51643040--51643126	44	2.0	44	88	0	129	33	14	13	37	1.86
51649229--51649256	7	4.0	7	100	0	56	42	0	0	57	0.99
51650848--51651223	186	2.0	186	97	0	707	21	23	15	39	1.91
51678491--51678517	13	2.1	13	100	0	54	62	7	22	7	1.46
51683472--51683498	2	13.5	2	100	0	54	0	48	0	51	1.00
51685343--51685409	25	2.8	24	81	4	89	41	1	0	56	1.08
51685391--51685421	11	2.8	11	95	0	53	58	0	0	41	0.98
51691056--51691095	13	3.5	12	80	19	50	50	0	0	50	1.00
51697390--51697425	16	2.2	16	100	0	72	38	16	0	44	1.48
51697626--51697652	11	2.5	11	100	0	54	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51698161--51698201	21	1.9	22	90	5	66	34	0	19	46	1.50
51698855--51698934	25	3.2	25	92	5	128	21	27	20	31	1.98
51704041--51704117	25	3.2	25	83	5	79	19	27	15	37	1.92
51705715--51705749	18	1.9	18	88	11	54	37	5	0	57	1.23
51706100--51706157	20	2.9	19	78	14	64	74	3	3	18	1.11
51710847--51710887	21	2.0	21	90	0	64	21	9	4	63	1.44
51710992--51711039	22	2.3	20	79	10	51	72	4	0	22	1.01
51711778--51711808	14	2.1	15	94	5	55	22	12	3	61	1.46
51714451--51714481	15	2.1	15	93	0	53	41	0	3	54	1.16
51714666--51714749	29	2.9	28	77	10	80	71	4	21	2	1.16
51715075--51715119	23	1.9	24	86	13	67	55	2	22	20	1.54
51715373--51715417	24	1.9	23	82	13	56	51	0	15	33	1.44
51719282--51719324	23	2.0	23	90	9	72	65	4	20	9	1.40
51719647--51719710	30	2.2	29	88	8	94	53	4	4	37	1.43
51719656--51719714	29	2.0	30	96	3	111	54	5	3	37	1.39
51725798--51725841	19	2.3	19	84	7	54	59	0	4	36	1.18
51726625--51726662	21	2.0	20	85	15	53	36	0	7	55	1.29
51728669--51728738	31	2.3	31	92	5	115	47	8	18	25	1.77
51734570--51734603	16	2.1	16	100	0	68	47	0	23	29	1.52
51737851--51737890	20	2.0	20	100	0	80	30	15	15	40	1.87
51743511--51743585	31	2.4	32	93	2	125	28	10	16	45	1.80
51753202--51753244	5	8.2	5	82	17	52	76	0	20	2	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51753192--51753244	16	3.2	16	80	17	56	73	0	22	3	0.99
51756040--51756085	19	2.5	19	80	16	60	30	2	0	67	1.03
51757469--51757502	6	5.7	6	100	0	68	52	0	47	0	1.00
51761608--51761651	3	14.7	3	100	0	88	65	0	0	34	0.93
51777211--51777244	17	2.0	17	100	0	68	11	17	17	52	1.73
51779490--51779526	4	9.2	4	100	0	74	24	0	0	75	0.80
51782229--51782262	15	2.1	17	89	10	54	47	0	0	52	1.00
51783106--51783157	18	3.0	18	81	10	56	63	3	0	32	1.12
51787575--51787616	17	2.3	18	80	12	50	64	2	0	33	1.07
51791025--51791105	32	2.5	32	91	0	135	24	25	35	13	1.92
51791091--51791135	18	2.6	18	92	3	74	20	31	35	13	1.91
51791823--51791856	18	1.9	18	88	5	52	26	0	11	61	1.30
51794717--51794783	21	3.2	21	76	0	71	41	13	25	19	1.88
51794716--51794827	42	2.7	42	84	2	136	42	16	22	17	1.88
51794765--51794832	21	3.2	21	72	0	64	48	19	17	14	1.81
51801662--51801829	40	4.2	40	83	4	106	25	27	23	23	2.00
51801685--51801829	40	3.6	40	85	4	193	23	26	24	25	2.00
51806985--51807062	22	3.6	21	79	5	66	58	16	10	14	1.62
51807010--51807060	21	2.4	22	86	3	68	58	19	9	11	1.60
51810147--51810186	21	1.9	21	85	10	55	55	22	0	22	1.44
51811304--51811337	18	1.9	17	88	5	50	64	2	0	32	1.08
51812525--51812607	40	2.0	42	88	6	125	59	2	16	21	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51812839--51812874	13	2.7	13	91	4	54	13	13	58	13	1.64
51813583--51813663	22	3.7	22	88	0	99	33	20	28	17	1.95
51813659--51813707	20	2.3	22	86	6	66	36	18	26	18	1.94
51814603--51814639	15	2.4	17	82	17	53	35	5	0	59	1.20
51817662--51817715	28	1.9	28	96	0	99	38	12	16	31	1.87
51818224--51818261	19	2.0	19	100	0	76	31	5	21	42	1.75
51818461--51818537	29	2.6	30	79	4	84	24	12	15	46	1.81
51836575--51836605	15	2.1	15	100	0	62	58	0	6	35	1.24
51836575--51836612	15	2.6	14	88	12	51	57	0	7	34	1.28
51838039--51838080	9	4.8	9	83	16	52	64	0	4	30	1.14
51838335--51838366	11	2.9	11	95	0	55	18	31	0	50	1.48
51838333--51838385	22	2.4	22	87	6	72	20	30	3	45	1.69
51840088--51840148	30	2.0	30	83	0	77	31	42	13	13	1.82
51843902--51844180	126	2.2	126	93	0	470	27	21	18	32	1.97
51845074--51845110	16	2.3	16	100	0	74	37	5	35	21	1.77
51845092--51845186	44	2.1	45	82	5	113	33	6	28	31	1.82
51849523--51849564	17	2.6	16	85	14	52	9	14	0	76	1.02
51850500--51850554	24	2.3	22	77	17	56	9	9	7	74	1.22
51850535--51850564	15	1.9	16	93	6	53	20	10	3	66	1.35
51850594--51850678	23	3.7	22	77	12	73	40	0	2	57	1.11
51850641--51850685	23	2.1	21	84	12	56	51	0	0	48	1.00
51850830--51850879	22	2.2	22	85	3	64	52	4	0	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51850936--51850970	7	5.0	7	100	0	70	57	0	0	42	0.99
51857703--51857874	40	4.3	40	88	2	222	25	27	21	25	1.99
51857705--51857927	40	5.6	39	83	5	216	25	27	21	25	1.99
51857703--51857927	80	2.8	79	80	7	240	25	27	21	25	1.99
51857859--51857936	40	1.9	41	82	10	97	26	28	20	24	1.99
51864379--51864440	31	2.0	32	87	6	92	70	4	11	12	1.30
51864395--51864455	31	2.0	31	81	12	72	73	6	9	9	1.24
51864444--51864480	11	3.3	11	92	7	65	81	8	2	8	0.97
51864444--51864481	12	3.2	12	85	7	60	81	7	2	7	0.96
51865272--51865329	17	3.4	17	74	25	59	46	1	1	50	1.22
51865350--51865429	40	2.0	41	92	2	135	53	0	1	45	1.08
51865465--51865548	18	4.6	18	69	15	64	38	2	0	59	1.10
51865460--51865563	19	5.5	19	71	17	74	35	2	0	60	1.18
51872566--51872631	29	2.2	30	83	5	80	56	10	12	21	1.65
51873302--51873329	13	2.2	13	100	0	56	60	0	0	39	0.97
51884115--51884143	14	2.1	14	100	0	58	20	27	6	44	1.77
51902797--51903341	108	5.0	108	93	0	901	37	26	5	29	1.80
51904296--51904838	205	2.6	211	77	12	537	26	12	18	42	1.86
51913309--51913387	29	2.8	30	77	12	69	25	25	11	37	1.89
51913319--51913387	28	2.5	27	86	11	95	26	27	13	33	1.93
51918198--51918336	46	3.0	46	91	2	208	30	25	8	35	1.86
51921537--51921579	21	2.0	21	100	0	86	23	13	20	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51923861--51923918	20	2.8	20	89	7	73	65	0	5	29	1.14
51923868--51923918	20	2.5	20	93	6	84	60	0	5	33	1.21
51924008--51924079	35	2.2	33	82	12	85	18	30	15	36	1.91
51925244--51925276	3	11.0	3	100	0	66	33	66	0	0	0.92
51926707--51926787	31	2.6	31	84	7	85	43	3	6	46	1.46
51929772--51929831	31	1.9	31	89	0	93	43	5	13	38	1.66
51930858--51930911	25	2.2	25	89	0	81	57	0	1	40	1.09
51931250--51931341	10	9.1	10	76	14	75	59	0	2	38	1.09
51931255--51931397	21	7.2	20	68	21	72	63	0	2	33	1.09
51931255--51931350	11	9.2	11	72	20	64	62	0	2	35	1.07

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