genome.fa.s17.2.7.7.80.10.50.1000.170.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  170  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)
51931297--51931402	38	2.7	38	88	2	158	66	0	2	31	1.06
51940719--51940797	30	2.7	30	92	7	128	35	21	2	40	1.67
51940722--51940834	30	3.9	29	79	11	124	32	25	3	38	1.73
51941435--51941471	8	4.9	8	90	3	51	70	0	29	0	0.88
51941459--51941510	12	4.3	12	79	18	63	78	0	21	0	0.74
51941448--51941506	14	4.3	14	79	12	61	74	0	25	0	0.82
51941965--51942002	20	1.9	20	88	0	58	36	13	7	42	1.73
51942148--51942327	16	10.5	16	65	28	52	32	13	11	42	1.80
51942147--51942215	17	3.9	17	71	26	54	34	11	13	40	1.80
51942145--51942204	19	3.3	19	70	29	58	43	11	11	33	1.77
51942110--51942212	36	2.9	35	84	8	122	39	11	13	34	1.81
51942155--51942334	17	10.3	18	74	10	81	29	14	12	43	1.81
51942157--51942324	69	2.4	69	89	4	239	31	13	11	43	1.80
51942120--51942324	34	5.9	35	75	8	159	33	13	11	41	1.81
51942287--51942340	16	3.2	16	77	10	54	35	12	11	40	1.79
51942304--51942359	18	3.2	18	85	7	62	42	12	8	35	1.74
51951505--51951557	10	5.4	9	84	10	61	86	11	1	0	0.64
51951505--51951567	25	2.5	25	87	7	83	85	9	4	0	0.72
51951513--51951557	15	3.1	14	90	9	72	88	11	0	0	0.50
51952447--51954341	76	24.7	76	87	6	2437	27	16	20	35	1.94
51952447--51954341	548	3.5	536	86	6	2626	27	16	20	35	1.94
51953712--51953813	34	3.0	34	100	0	204	17	17	38	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51954526--51954681	30	5.2	30	78	10	151	33	24	3	38	1.74
51955271--51955321	19	2.7	20	82	11	54	80	0	9	9	0.91
51955740--51955777	20	1.9	20	94	0	67	36	10	7	44	1.68
51955885--51955980	36	2.8	35	82	6	106	43	11	11	33	1.77
51955924--51956100	16	10.4	16	66	27	64	32	13	11	42	1.80
51955923--51956099	17	10.3	16	71	17	72	33	13	11	41	1.80
51955890--51956099	34	6.1	34	78	7	192	35	13	11	40	1.80
51955890--51956057	70	2.4	69	83	6	198	36	13	11	38	1.81
51955933--51956099	70	2.4	69	90	5	248	31	13	11	43	1.80
51956724--51956755	15	2.1	15	94	0	55	43	25	0	31	1.55
51957226--51957369	71	2.0	71	98	0	279	38	11	15	35	1.83
51959401--51959438	16	2.2	18	86	9	53	28	0	2	68	1.03
51961593--51961959	36	10.1	36	67	10	156	24	20	21	34	1.97
51961819--51961933	35	3.3	35	68	7	88	25	22	22	29	1.99
51961701--51962003	71	4.2	72	84	4	308	24	21	20	33	1.97
51962829--51962874	22	2.1	21	84	11	58	26	0	19	54	1.44
51966787--51966832	19	2.6	18	77	16	51	39	0	0	60	0.97
51967156--51967282	63	2.0	63	98	0	245	34	22	4	37	1.75
51970150--51970207	28	2.0	28	83	9	73	46	0	3	50	1.18
51970325--51970405	38	2.1	38	88	6	117	39	0	6	54	1.26
51971893--51971923	7	4.4	7	100	0	62	61	0	0	38	0.96
51971893--51971931	21	1.9	20	89	5	60	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51972499--51972541	21	2.0	21	86	0	59	30	2	13	53	1.53
51972504--51972552	21	2.3	21	78	0	53	30	2	14	53	1.52
51973359--51973427	33	2.1	33	83	5	86	46	5	4	43	1.47
51985566--51985591	13	2.0	13	100	0	52	53	0	0	46	1.00
51992858--51992897	18	2.2	19	86	4	55	52	20	2	25	1.59
51995285--51995319	3	11.7	3	87	0	52	68	5	0	25	1.11
51998329--51998437	41	2.6	41	91	1	164	24	23	28	22	2.00
51999935--51999983	25	2.0	25	88	8	73	46	0	2	51	1.12
52001603--52001727	41	3.0	41	85	1	151	27	18	21	32	1.97
52004353--52004447	24	4.0	25	79	10	92	14	23	24	37	1.92
52005806--52005856	6	8.2	6	93	2	75	62	0	21	15	1.32
52011585--52011628	20	2.3	19	76	7	52	52	0	11	36	1.38
52021160--52021611	126	3.6	126	91	0	737	29	17	23	28	1.97
52024613--52024937	53	6.3	46	78	10	229	41	3	10	44	1.56
52024647--52024937	53	5.5	53	88	4	435	42	3	9	44	1.54
52024645--52024937	106	2.8	106	95	1	507	42	4	9	44	1.55
52024613--52024937	159	2.1	151	88	6	474	41	3	10	44	1.56
52025040--52025112	22	3.3	22	75	7	76	23	0	31	45	1.53
52025034--52025296	22	11.9	22	64	14	69	25	0	25	47	1.57
52025153--52025263	21	5.2	21	70	9	64	26	0	24	48	1.57
52025324--52025604	21	13.4	21	67	13	114	24	0	25	49	1.56
52025283--52025356	14	5.3	14	70	6	51	22	0	28	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52025322--52025423	41	2.4	43	85	7	131	23	0	28	48	1.52
52025190--52025545	185	1.9	186	85	6	490	23	0	25	49	1.56
52025512--52025629	22	5.4	21	76	7	92	24	0	23	51	1.48
52025467--52025603	44	3.1	43	77	9	118	25	0	24	48	1.56
52025563--52025658	50	1.9	50	87	4	140	25	0	20	54	1.45
52025613--52025689	22	3.5	21	76	1	64	22	1	22	54	1.52
52025733--52025765	16	2.1	16	88	5	50	21	0	33	45	1.52
52025748--52025819	37	2.0	35	86	10	101	26	0	23	50	1.50
52025733--52025803	15	4.7	15	75	13	56	23	0	28	47	1.52
52033171--52033204	17	1.9	18	88	5	52	55	11	2	29	1.50
52048121--52048147	13	2.1	13	100	0	54	22	0	0	77	0.76
52060205--52060319	46	2.5	46	83	5	137	33	21	19	26	1.97
52060331--52060705	41	8.7	41	71	12	216	29	18	23	29	1.98
52060329--52060618	41	6.6	45	76	10	246	28	18	23	28	1.98
52060416--52060650	43	5.4	44	73	10	160	30	19	22	27	1.98
52060198--52060619	175	2.5	170	91	3	652	29	19	22	27	1.98
52060416--52060705	130	2.2	130	87	6	428	30	18	23	28	1.97
52062797--52062825	5	6.0	5	96	4	51	20	0	0	79	0.74
52065949--52065978	15	1.9	16	93	6	53	26	16	0	56	1.40
52078610--52078640	3	10.0	3	93	6	53	35	0	0	64	0.94
52087170--52087241	29	2.5	29	83	0	90	19	40	23	16	1.91
52094382--52094559	62	2.9	60	79	10	198	23	12	30	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52094382--52094559	61	2.9	63	82	7	222	23	12	30	33	1.91
52101537--52101585	24	2.0	24	92	0	80	26	4	2	67	1.19
52104336--52104415	29	2.7	29	86	5	97	30	12	12	45	1.79
52104336--52104426	30	3.0	29	79	4	92	30	14	10	43	1.80
52105206--52105236	14	2.2	14	94	0	53	48	12	0	38	1.42
52106059--52106116	30	1.9	30	82	0	71	15	31	36	17	1.91
52107278--52107308	7	4.6	7	96	4	55	45	0	0	54	0.99
52107334--52107362	11	2.7	11	94	5	51	37	0	0	62	0.96
52108430--52108514	25	3.4	25	91	0	134	17	24	21	36	1.94
52108431--52108560	50	2.8	47	83	6	140	17	25	17	39	1.92
52108469--52108560	22	4.0	23	81	12	84	18	27	16	38	1.92
52111276--52111498	79	2.8	79	82	9	267	25	27	21	25	2.00
52111276--52111498	39	5.7	40	85	8	257	25	27	21	25	2.00
52111276--52111496	118	1.9	119	82	11	285	24	27	21	25	1.99
52114676--52114708	12	2.6	13	85	9	50	12	0	3	84	0.72
52115988--52116029	21	1.9	23	85	9	61	54	2	0	42	1.13
52122378--52122448	30	2.3	31	79	13	76	53	7	0	39	1.28
52134869--52134893	2	12.5	2	100	0	50	52	0	0	48	1.00
52135088--52135120	17	1.9	17	88	11	50	57	0	3	39	1.14
52136571--52136621	14	3.4	14	76	12	57	41	1	0	56	1.10
52136718--52136778	26	2.5	24	76	10	68	47	0	3	49	1.18
52136744--52136775	17	1.9	17	93	6	57	43	0	3	53	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52136796--52136830	17	2.1	17	88	0	52	77	5	11	5	1.12
52137528--52137580	6	8.8	6	91	0	79	35	0	9	54	1.33
52139021--52139087	19	3.3	19	80	16	73	74	0	23	1	0.90
52139021--52139066	18	2.5	19	92	3	76	78	0	21	0	0.76
52139014--52139076	15	3.9	16	84	11	76	76	0	22	1	0.88
52139179--52139231	16	3.1	17	84	13	56	75	0	24	0	0.80
52139705--52139759	23	2.6	21	78	16	60	21	1	1	74	1.01
52139992--52140047	16	3.1	19	77	17	64	35	12	7	44	1.70
52140001--52140046	18	2.5	19	80	16	53	39	13	6	41	1.70
52140007--52140045	18	2.3	18	86	8	55	38	12	7	41	1.72

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