genome.fa.s17.2.7.7.80.10.50.1000.93.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  93  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)
29252976--29253026	17	3.2	15	81	15	50	62	1	1	33	1.17
29255435--29255481	20	2.3	21	79	17	55	29	17	27	25	1.97
29257350--29257430	12	6.8	12	69	17	53	12	24	1	61	1.38
29257365--29257420	18	3.0	20	68	26	59	10	26	0	62	1.28
29257460--29257506	15	3.1	15	84	9	60	12	17	0	70	1.17
29258552--29258615	12	5.5	11	73	12	56	3	14	3	79	0.97
29258551--29258627	22	3.4	21	79	13	82	5	14	3	76	1.10
29258603--29258643	17	2.4	16	88	8	55	14	7	4	73	1.22
29260137--29260183	20	2.3	20	85	7	60	27	17	29	25	1.97
29275549--29275632	13	5.8	14	70	25	50	10	20	0	69	1.18
29275549--29275604	24	2.1	27	81	18	66	12	19	0	67	1.22
29275582--29275642	20	3.2	19	81	9	70	13	18	0	68	1.20
29275569--29275657	45	2.0	44	80	10	101	11	21	1	66	1.30
29280567--29280623	22	2.6	22	88	2	80	42	17	3	36	1.67
29280595--29280647	19	3.0	17	84	10	70	37	18	7	35	1.80
29280580--29280636	22	2.8	20	89	7	80	40	17	5	36	1.72
29288345--29288391	20	2.3	20	86	13	62	59	4	2	34	1.29
29289868--29289941	28	2.6	28	91	0	121	9	33	17	39	1.82
29290019--29290331	44	7.3	43	76	4	215	23	24	21	30	1.99
29290058--29290306	87	2.8	86	80	5	236	24	22	22	30	1.99
29290060--29290331	131	2.1	131	91	0	436	23	25	20	30	1.99
29290295--29290572	46	6.3	46	72	11	197	28	22	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29290580--29290843	44	5.9	44	75	7	194	26	23	21	28	1.99
29290295--29290739	166	2.6	171	82	8	516	27	22	21	28	1.99
29290666--29290785	46	2.6	46	93	0	204	30	24	19	25	1.98
29292192--29292243	7	7.7	7	79	12	56	11	17	0	71	1.15
29292193--29292227	13	2.6	14	86	4	54	11	17	0	71	1.14
29292191--29292243	20	2.7	20	82	11	72	11	16	0	71	1.13
29293206--29293241	16	2.2	16	90	0	54	2	11	0	86	0.68
29297905--29297951	20	2.3	20	86	13	62	59	4	2	34	1.29
29318294--29318336	17	2.6	16	82	13	52	18	9	0	72	1.11
29322564--29322677	58	1.9	59	87	5	169	49	8	2	39	1.48
29323152--29323189	18	2.1	19	85	5	51	36	0	0	63	0.95
29326230--29326273	22	2.0	22	81	0	52	38	11	0	50	1.39
29326722--29326776	29	2.0	29	89	7	87	40	0	7	52	1.29
29327557--29327887	161	2.1	161	98	0	637	42	19	5	32	1.73
29328090--29328354	131	2.0	131	93	0	449	36	24	12	25	1.91
29332389--29332414	11	2.4	11	100	0	52	15	0	0	84	0.62
29339425--29339489	19	3.4	19	69	12	60	55	10	3	30	1.50
29339412--29339491	39	2.1	39	95	0	142	53	10	5	31	1.55
29342113--29342581	113	4.1	114	82	5	547	31	18	23	25	1.97
29342170--29342599	227	1.9	228	87	3	636	32	18	23	25	1.97
29342379--29342877	188	2.7	186	87	3	730	31	18	23	27	1.97
29342698--29342861	74	2.2	73	83	6	195	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29342900--29342944	17	2.7	17	90	10	67	35	0	4	60	1.17
29343669--29343699	15	2.0	16	93	6	55	70	0	0	29	0.87
29346505--29347279	18	43.7	18	78	10	710	48	15	2	33	1.57
29346519--29347129	27	22.6	27	86	3	728	50	14	2	33	1.55
29346505--29347287	63	12.5	63	80	10	665	49	15	2	33	1.57
29347171--29347235	25	2.6	25	83	9	71	46	21	0	32	1.52
29347241--29347286	7	6.0	7	90	9	56	52	17	0	30	1.45
29352623--29352688	21	3.1	21	84	0	87	34	19	40	4	1.72
29352675--29352700	12	2.2	12	100	0	52	42	15	42	0	1.47
29353119--29353207	43	2.1	43	83	8	110	31	15	23	29	1.95
29353137--29353430	42	6.9	42	83	4	272	25	22	19	31	1.98
29353136--29353428	85	3.4	85	80	5	234	25	22	19	31	1.98
29353188--29353430	85	2.9	85	83	1	274	24	23	18	33	1.96
29353578--29354595	436	2.3	435	94	0	1768	26	22	14	35	1.94
29358390--29358442	6	8.5	6	77	8	52	13	5	5	75	1.16
29358469--29358496	3	9.3	3	100	0	56	32	0	0	67	0.91
29358574--29358604	15	2.1	14	94	5	53	35	0	0	64	0.94
29363274--29363802	87	6.1	87	86	0	691	25	23	20	29	1.99
29365471--29365514	16	2.6	17	89	7	63	6	9	4	79	1.04
29373534--29373567	18	1.9	18	88	5	52	35	2	2	58	1.28
29373548--29373616	20	3.0	24	61	16	56	40	7	2	49	1.45
29383807--29383940	20	6.7	20	65	13	69	17	30	15	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29383728--29383999	40	6.8	40	78	5	255	19	27	14	37	1.91
29383725--29383940	80	2.7	79	86	3	299	19	28	14	36	1.92
29383777--29384012	120	2.0	119	85	5	316	19	28	14	36	1.92
29383725--29383977	80	3.2	78	82	5	283	19	28	15	36	1.92
29395901--29395956	25	2.2	26	79	17	73	62	1	1	33	1.16
29396622--29396663	22	2.1	19	86	13	57	52	0	2	45	1.13
29397496--29397548	16	3.3	16	91	0	88	37	3	33	24	1.74
29397530--29397622	44	2.1	46	91	4	154	29	5	29	36	1.79
29397530--29397635	46	2.5	44	82	11	123	29	5	30	34	1.80
29397781--29397833	18	3.0	17	91	5	79	56	1	1	39	1.21
29407504--29407553	26	2.0	24	84	7	64	56	2	6	36	1.36
29407524--29407573	14	3.4	14	76	15	55	60	8	2	30	1.37
29407524--29407583	31	2.0	30	90	3	93	60	8	1	30	1.36
29409523--29409621	39	2.5	39	83	0	117	42	22	6	29	1.77
29419894--29419922	12	2.3	13	94	5	51	20	6	6	65	1.40
29427228--29427405	48	3.7	48	87	0	259	25	26	20	27	1.99
29430394--29430470	18	4.5	16	76	19	59	53	28	1	16	1.52
29431969--29432017	23	2.1	24	77	11	57	57	0	4	38	1.18
29433477--29433553	39	1.9	39	84	7	102	40	15	22	22	1.91
29433611--29433817	41	5.0	41	85	1	236	19	15	26	38	1.92
29434202--29434229	14	2.0	14	100	0	56	28	0	35	35	1.58
29434256--29434294	7	5.4	7	81	6	51	17	2	46	33	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29434254--29434294	15	2.8	15	88	3	57	17	2	46	34	1.61
29434104--29435038	326	2.9	314	83	10	1086	27	2	26	42	1.67
29435336--29435384	19	2.6	18	80	9	53	71	6	2	20	1.18
29435336--29435383	25	1.9	25	82	0	60	72	6	2	18	1.15
29435369--29435467	47	2.1	48	90	1	155	45	8	2	44	1.44
29437169--29437195	14	1.9	14	100	0	54	29	11	7	51	1.64
29437382--29437458	22	3.5	22	73	16	79	31	12	16	38	1.87
29437375--29437441	19	3.3	19	73	18	71	28	13	17	40	1.88
29437746--29437819	23	3.2	24	79	16	93	44	4	4	47	1.41
29437744--29437836	22	4.3	21	78	10	82	41	3	4	50	1.38
29437796--29437843	19	2.6	17	78	18	51	35	0	2	62	1.07
29437744--29437836	44	2.1	42	84	13	118	41	3	4	50	1.38
29437778--29437839	21	2.8	22	72	20	58	38	1	3	56	1.25
29437814--29437855	19	2.2	19	83	8	50	38	4	0	57	1.20
29437966--29437990	12	2.1	12	100	0	50	52	16	0	32	1.44
29438013--29438228	9	25.3	9	67	17	113	46	22	2	29	1.64
29438042--29438208	34	5.0	33	71	19	121	46	21	2	29	1.64
29438062--29438228	25	6.7	25	75	9	153	46	22	1	29	1.60
29438076--29438177	16	6.8	14	70	24	66	48	21	0	29	1.57
29438074--29438208	12	10.8	12	67	23	75	46	22	0	30	1.57
29438065--29438177	41	3.0	38	79	17	144	47	20	1	30	1.60
29438037--29438177	75	1.9	75	86	2	203	47	20	2	29	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29438062--29438202	75	1.9	75	83	2	185	46	21	1	30	1.60
29438105--29438301	30	6.8	29	70	21	112	45	20	1	32	1.58
29438196--29438355	66	2.5	62	79	10	164	46	19	0	33	1.54
29440109--29440254	66	2.2	66	85	4	188	39	14	28	17	1.89
29440488--29440776	150	1.9	150	96	0	533	27	13	21	37	1.91
29440745--29440998	43	5.9	43	85	2	312	25	17	31	25	1.97
29442258--29442318	19	3.3	17	72	17	50	44	3	4	47	1.41
29442179--29442621	232	1.9	233	85	4	611	38	8	6	46	1.60
29442179--29442671	232	2.1	234	82	6	589	38	7	6	47	1.58
29449947--29449983	17	2.2	17	90	0	56	45	21	8	24	1.78

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