genome.fa.s17.2.7.7.80.10.50.1000.22.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  22  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)
6292627--6292898	88	3.1	88	90	1	431	24	22	22	29	1.99
6299329--6299375	20	2.3	20	86	13	62	59	4	2	34	1.29
6305017--6305058	10	4.1	10	87	3	57	33	0	19	47	1.49
6313827--6313897	21	3.4	21	84	0	97	15	14	35	35	1.88
6316360--6316474	27	4.3	27	79	5	90	28	24	12	34	1.91
6316379--6316474	27	3.6	27	86	0	120	30	21	13	34	1.92
6319856--6319893	11	3.5	11	96	0	67	50	15	7	26	1.72
6320045--6320174	45	2.9	45	79	12	151	27	21	16	34	1.94
6320948--6321135	92	2.0	92	94	0	331	37	9	12	40	1.75
6324398--6324427	14	2.1	15	93	6	53	60	6	0	33	1.23
6326788--6326814	2	13.5	2	100	0	54	51	0	48	0	1.00
6331565--6331652	41	2.2	41	82	8	101	59	0	35	5	1.21
6334993--6335265	139	2.0	139	84	2	361	25	21	15	37	1.93
6335421--6335474	16	3.4	16	82	2	65	72	3	3	20	1.16
6335534--6335572	20	2.0	19	85	14	53	71	5	0	23	1.05
6335830--6335902	35	2.1	35	82	10	87	24	8	0	67	1.18
6336301--6336359	20	3.1	18	84	15	75	54	6	1	37	1.37
6336301--6336368	19	3.5	19	80	15	77	54	7	1	36	1.37
6336338--6336405	18	3.8	18	71	7	50	58	2	0	38	1.13
6337659--6337696	15	2.4	17	82	13	53	65	0	13	21	1.26
6341108--6341188	29	2.8	30	83	9	105	49	1	1	48	1.17
6341128--6341174	15	3.1	15	79	14	60	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6341108--6341180	31	2.5	28	86	8	101	46	0	1	52	1.09
6344713--6344754	13	3.2	13	80	10	50	61	9	2	26	1.39
6345475--6345540	30	2.2	30	86	5	98	45	0	1	53	1.09
6346139--6346194	25	2.2	26	83	6	69	25	1	5	67	1.21
6348712--6348754	20	2.2	19	84	12	52	51	2	2	44	1.27
6349387--6349457	27	2.6	27	88	6	108	28	0	0	71	0.86
6349666--6349730	34	1.9	34	83	0	85	23	12	18	46	1.82
6351934--6351979	20	2.2	20	92	3	74	65	0	2	32	1.05
6360257--6360361	20	5.3	20	68	4	79	54	9	17	19	1.69
6360254--6360366	39	2.9	39	97	0	208	53	8	17	19	1.69
6360277--6360341	19	3.4	19	71	12	69	55	7	16	20	1.65
6361255--6361299	20	2.2	20	80	0	54	40	8	0	51	1.33
6361192--6361396	98	2.1	99	89	1	313	35	8	3	52	1.49
6361290--6361347	24	2.4	24	77	8	64	39	6	1	51	1.39
6361318--6361367	16	3.1	17	80	8	59	38	6	4	52	1.45
6363032--6363117	9	9.6	9	81	5	102	40	22	9	27	1.84
6363032--6363117	27	3.2	27	88	3	120	40	22	9	27	1.84
6369126--6369224	49	2.0	49	100	0	198	40	10	22	27	1.86
6389827--6389851	7	3.6	7	100	0	50	60	0	0	40	0.97
6391458--6391489	15	2.1	16	94	5	57	6	56	37	0	1.25
6391490--6391550	22	2.7	22	89	5	86	45	0	1	52	1.10
6391525--6391567	16	2.7	16	96	0	77	41	0	6	51	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6391496--6391550	23	2.4	23	87	3	85	49	0	1	49	1.11
6391569--6391688	59	2.1	59	88	1	188	42	5	8	44	1.56
6391752--6391796	23	2.0	23	91	8	76	57	2	0	40	1.11
6400652--6400704	23	2.4	22	76	20	56	9	18	1	69	1.25
6404612--6404660	23	2.1	23	96	0	89	26	26	12	34	1.92
6407211--6407254	23	1.9	23	95	0	79	6	9	13	70	1.33
6408322--6408351	9	3.2	9	90	9	51	56	0	0	43	0.99
6417602--6417660	31	2.0	29	83	6	73	35	6	11	45	1.67
6424202--6424256	26	2.1	26	89	0	83	38	23	20	18	1.93
6424909--6424948	20	2.0	20	85	0	53	37	15	2	45	1.59
6426020--6426067	25	1.9	25	82	0	60	50	4	2	43	1.33
6448526--6448619	37	2.6	36	81	8	109	32	22	1	43	1.60
6448526--6448620	36	2.6	35	80	12	102	32	23	1	43	1.61
6448899--6448932	17	1.9	18	88	5	52	35	23	0	41	1.55
6449308--6449358	9	5.9	8	80	15	57	0	27	1	70	0.98
6449308--6449358	13	3.9	12	78	16	57	0	27	1	70	0.98
6449308--6449361	18	3.1	18	91	2	83	0	27	1	70	0.98
6449670--6449742	31	2.5	27	77	16	74	46	1	1	50	1.18
6449670--6449725	17	3.2	17	76	16	60	50	0	1	48	1.11
6449705--6449743	12	3.4	11	80	13	51	46	2	0	51	1.14
6450671--6450779	10	10.9	10	75	14	73	56	0	0	42	1.05
6450686--6450748	29	2.2	28	86	8	83	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6450706--6450767	29	2.1	29	85	5	81	62	0	1	35	1.05
6450675--6450797	39	3.2	38	90	5	201	61	0	0	37	1.02
6455241--6455266	11	2.4	11	100	0	52	15	7	0	76	0.99
6456130--6456186	11	5.4	11	82	18	68	40	3	0	56	1.17
6456128--6456201	30	2.4	32	88	6	116	43	2	0	54	1.14
6456141--6456179	18	2.0	20	90	9	64	43	2	0	53	1.14
6456169--6456208	21	1.9	21	89	0	62	37	2	0	60	1.11
6456168--6456222	21	2.5	20	80	13	56	38	1	3	56	1.28
6463311--6463487	93	1.9	92	82	3	221	31	20	16	30	1.95
6463876--6464072	104	1.9	104	80	8	231	31	21	13	32	1.92
6463940--6464250	104	3.0	104	78	0	327	29	19	17	34	1.94
6467791--6467824	12	2.8	12	100	0	68	23	17	0	58	1.38
6467817--6467925	11	10.3	11	70	11	75	22	27	2	46	1.65
6467827--6467923	22	4.6	22	74	10	94	23	26	3	46	1.67
6467841--6467938	51	1.9	51	83	4	126	25	24	3	46	1.67
6472492--6472902	125	3.3	125	91	0	662	29	18	18	33	1.95
6477968--6478003	16	2.2	16	100	0	72	25	0	36	38	1.56
6477984--6478074	45	2.0	45	85	2	121	27	6	28	37	1.82
6478239--6478275	19	2.0	19	85	15	51	54	0	0	45	1.00
6478269--6478456	61	3.1	58	67	23	138	48	6	3	42	1.44
6478317--6478502	59	3.1	58	68	19	148	51	3	3	41	1.36
6478219--6478508	120	2.4	119	88	5	440	49	4	2	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6484922--6484998	38	2.0	38	100	0	154	29	10	20	38	1.86
6485586--6485629	21	2.0	23	86	8	65	13	9	0	77	0.99
6485595--6485654	25	2.4	24	83	8	75	8	8	3	80	1.02
6488210--6488398	93	2.1	91	84	4	245	18	14	11	55	1.68
6488485--6488588	33	3.4	33	72	22	127	25	6	21	46	1.76
6488478--6488593	57	2.0	57	100	0	232	24	6	20	48	1.74
6513256--6513293	18	2.1	19	85	5	51	18	0	0	81	0.69
6513268--6513294	14	1.9	14	100	0	54	11	0	0	88	0.50
6514063--6514105	22	2.0	22	85	0	59	41	2	2	53	1.26
6514648--6514682	16	2.1	16	89	10	52	71	2	25	0	1.00
6517832--6518059	62	3.7	62	92	1	386	35	5	9	49	1.58
6518332--6518418	33	2.6	33	78	3	95	22	16	42	18	1.89
6521089--6521137	26	1.9	25	87	4	71	2	28	0	69	1.00
6522452--6522576	56	2.2	56	95	0	223	23	24	16	36	1.94
6526404--6526459	23	2.4	23	96	3	103	25	26	21	26	1.99
6527088--6527129	20	2.1	20	100	0	84	33	4	38	23	1.76
6530342--6530366	13	1.9	13	100	0	50	48	20	8	24	1.76
6530554--6530656	41	2.5	41	82	3	118	29	24	18	28	1.98
6530592--6530687	41	2.3	41	85	1	120	34	20	16	28	1.95
6533213--6533268	16	3.5	16	85	0	85	30	28	5	35	1.80
6533842--6533928	20	4.3	20	73	1	84	41	21	25	11	1.87
6538512--6538670	24	7.0	24	72	11	127	30	25	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6538471--6538622	64	2.4	64	88	0	214	30	24	18	26	1.98
6548376--6548407	7	4.6	7	100	0	64	56	0	12	31	1.37
6548515--6548560	19	2.4	19	79	17	51	45	0	10	43	1.39
6548616--6548685	36	1.9	36	97	0	131	14	15	28	41	1.86
6550461--6550494	17	2.0	17	88	0	50	44	14	8	32	1.76
6555234--6555289	28	2.0	28	100	0	112	50	21	17	10	1.77
6558750--6558806	3	19.3	3	83	3	71	3	1	61	33	1.23
6560087--6560146	31	1.9	31	86	0	84	46	18	10	25	1.79
6568554--6568608	22	2.4	23	93	6	94	54	0	9	36	1.32
6569734--6569767	9	3.8	9	92	0	59	23	8	29	38	1.85

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