genome.fa.s17.2.7.7.80.10.50.1000.144.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  144  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)
44476658--44476780	42	2.9	43	80	6	151	26	14	26	32	1.95
44482015--44482066	18	2.8	18	85	11	70	17	23	25	34	1.96
44488702--44488825	40	3.1	40	74	1	124	35	15	24	25	1.94
44489293--44489341	14	3.4	14	88	2	71	22	0	38	38	1.54
44489352--44489393	15	2.8	15	82	13	59	21	0	42	35	1.53
44489374--44489414	21	1.9	22	85	5	57	24	2	39	34	1.69
44489603--44489637	15	2.4	15	90	4	54	20	0	40	40	1.52
44489632--44489688	14	3.9	15	81	4	73	21	0	43	35	1.52
44489624--44489664	21	2.0	20	85	4	55	19	0	41	39	1.52
44489401--44490115	284	2.5	291	84	7	920	29	2	26	41	1.69
44489888--44489947	13	4.4	14	78	16	54	25	0	35	40	1.56
44489952--44490000	7	6.9	7	76	4	53	20	2	46	30	1.62
44489948--44489990	15	2.9	15	86	3	61	18	2	46	32	1.62
44490475--44490825	175	2.0	176	97	0	659	38	10	9	41	1.71
44493654--44493701	23	2.1	23	100	0	96	39	43	4	12	1.62
44502663--44502768	50	2.1	51	81	10	119	54	5	0	38	1.30
44503015--44503046	16	1.9	17	93	6	57	18	6	28	46	1.73
44503100--44503133	16	2.1	17	88	5	52	44	0	0	55	0.99
44511232--44511288	10	5.2	11	74	21	57	21	35	0	43	1.52
44511249--44511304	22	2.5	22	97	2	103	28	32	0	39	1.57
44511276--44511379	51	2.0	51	98	0	199	29	26	0	43	1.55
44512524--44512548	7	3.6	7	100	0	50	28	0	12	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44513197--44513233	18	2.1	18	89	0	56	27	35	5	32	1.79
44513462--44513509	9	5.3	9	94	0	87	43	22	33	0	1.54
44513761--44514600	23	34.5	23	77	16	770	47	22	0	29	1.57
44513869--44513966	29	3.6	29	84	16	154	47	22	0	29	1.51
44513884--44514612	125	5.9	124	80	12	633	46	22	0	30	1.56
44514606--44514826	116	1.9	116	93	1	381	39	9	9	41	1.70
44517858--44518235	126	3.0	125	87	4	537	33	22	14	29	1.94
44533700--44533746	21	2.2	22	88	3	69	23	19	36	21	1.95
44536546--44536595	25	2.0	26	84	4	66	38	16	12	34	1.85
44538541--44538587	22	2.1	22	100	0	94	29	38	0	31	1.58
44539375--44539428	21	2.6	21	76	5	56	33	0	11	55	1.35
44541188--44541246	29	2.0	30	83	3	75	22	25	3	49	1.65
44548688--44548726	19	2.1	19	95	0	69	38	17	5	38	1.72
44551088--44551145	27	2.1	27	83	0	71	34	6	17	41	1.76
44553477--44553523	11	4.2	11	86	2	67	17	31	0	51	1.46
44553489--44553535	22	2.1	22	88	0	67	21	31	0	46	1.51
44553501--44553626	51	2.5	51	86	2	182	30	25	0	43	1.60
44555864--44555977	25	4.7	25	69	20	98	37	1	15	44	1.57
44555977--44556852	29	29.4	29	88	4	1189	47	31	0	20	1.54
44556000--44556084	41	2.1	41	90	0	134	43	35	1	20	1.59
44556030--44556062	12	2.8	12	90	4	50	33	45	0	21	1.52
44556850--44557006	55	2.9	55	97	0	296	40	10	5	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44557376--44557410	15	2.2	16	95	5	63	37	14	28	20	1.91
44560047--44560398	124	2.8	124	90	4	548	33	21	14	30	1.94
44570578--44570708	42	3.1	42	79	0	145	40	16	24	19	1.90
44570563--44570645	21	4.0	21	68	9	55	38	18	27	15	1.91
44574685--44574710	13	2.0	13	100	0	52	30	7	23	38	1.83
44582740--44582909	43	3.9	43	75	13	143	23	16	28	31	1.96
44586103--44586133	7	4.4	7	95	0	53	74	0	16	9	1.07
44587549--44587595	24	2.0	24	86	0	67	48	0	27	23	1.51
44590558--44590713	41	3.8	41	95	0	276	29	20	22	27	1.98
44590928--44590990	31	2.0	31	87	6	90	26	9	23	39	1.86
44598200--44598305	41	2.6	41	96	0	194	31	20	20	27	1.98
44615807--44615963	43	3.7	42	72	12	133	22	17	28	31	1.97
44619092--44619139	13	3.8	13	80	5	62	79	0	12	8	0.94
44619090--44619144	7	7.7	7	73	18	51	78	0	14	7	0.96
44620514--44620560	24	2.0	24	86	0	67	48	0	27	23	1.51
44623501--44623656	41	3.8	41	97	0	285	29	21	22	26	1.99
44623869--44623931	33	1.9	32	87	3	90	25	9	23	41	1.85
44629966--44630156	93	2.1	93	100	0	382	24	12	16	46	1.81
44631231--44631386	41	3.8	41	97	0	285	29	21	22	26	1.99
44631601--44631664	33	2.0	32	87	3	92	26	9	23	40	1.85
44640529--44640564	7	5.1	7	96	0	54	22	13	27	36	1.92
44642069--44642132	24	2.7	24	82	0	74	48	1	32	17	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44642257--44642323	31	2.2	29	77	12	73	35	13	11	38	1.82
44646377--44646479	51	2.0	51	96	0	188	44	22	19	13	1.85
44649379--44649585	112	1.8	114	83	4	276	32	22	11	32	1.90
44650726--44650768	4	10.8	4	81	18	54	74	0	2	23	0.93
44650735--44650790	10	5.2	11	85	12	64	78	0	1	19	0.84
44650735--44650790	16	3.4	17	85	9	71	78	0	1	19	0.84
44650725--44650790	16	3.8	18	75	22	61	77	0	3	19	0.90
44654423--44654467	14	3.2	14	87	12	74	48	6	26	17	1.72
44654816--44654886	27	2.6	28	86	6	94	43	9	1	45	1.46
44659486--44659530	23	2.0	23	90	0	72	46	0	0	53	1.00
44664491--44664516	3	8.7	3	100	0	52	34	0	65	0	0.93
44665505--44665552	25	1.9	25	95	0	87	18	20	20	39	1.92
44676293--44676350	30	1.9	30	83	13	75	46	3	0	50	1.18
44685244--44685311	27	2.4	28	78	7	75	36	1	2	58	1.22
44685274--44685324	25	1.9	27	88	11	61	35	0	1	62	1.06
44685305--44685344	12	3.2	12	85	3	53	27	0	0	72	0.85
44685244--44685325	27	3.0	28	71	20	66	32	1	2	63	1.15
44686069--44686178	52	2.1	53	93	1	186	24	15	17	42	1.88
44698131--44698305	87	2.0	87	95	0	314	26	24	9	39	1.85
44698445--44698474	15	2.1	15	93	6	53	83	0	0	16	0.65
44698445--44698474	7	4.1	7	91	8	51	83	0	0	16	0.65
44709675--44709701	14	1.9	14	100	0	54	44	22	3	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44713536--44713570	9	4.0	9	85	7	54	48	0	0	51	1.00
44713531--44713568	17	2.2	18	95	4	69	47	0	2	50	1.15
44713539--44713602	28	2.2	29	81	10	78	42	0	3	54	1.16
44716931--44716978	25	1.9	25	100	0	96	33	25	6	35	1.81
44716956--44717050	42	2.2	44	88	3	140	38	17	4	38	1.70
44717030--44717065	15	2.4	15	100	0	72	41	11	0	47	1.39
44717254--44717309	16	3.5	16	92	7	96	33	10	0	55	1.35
44720065--44720130	22	3.2	22	70	16	77	30	6	15	48	1.69
44720171--44720225	17	3.0	18	70	15	58	34	1	16	47	1.57
44720156--44720227	17	4.1	16	73	15	54	31	1	15	51	1.52
44720074--44720225	37	4.0	36	87	7	196	32	5	15	46	1.69
44720231--44720313	9	8.8	9	82	10	85	22	7	28	40	1.81
44720223--44720312	29	3.2	29	90	3	139	24	7	27	40	1.83
44720223--44720313	38	2.4	37	83	8	121	24	7	27	40	1.82
44720341--44720422	29	2.7	30	72	9	78	35	10	17	36	1.85
44721921--44721957	16	2.3	16	86	13	58	40	0	0	59	0.97
44721943--44722028	18	4.7	18	67	26	56	53	0	0	46	1.00
44722094--44722118	9	2.8	9	100	0	50	44	0	8	48	1.32
44722778--44722974	98	2.0	98	90	0	313	37	21	9	31	1.86
44724603--44724644	17	2.5	17	88	0	57	2	16	38	42	1.61
44741608--44741804	98	2.0	98	93	0	340	37	22	10	30	1.87
44749222--44749255	15	2.2	16	90	10	54	23	0	8	67	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44752584--44752629	20	2.2	21	88	7	76	47	17	0	34	1.48
44752584--44752630	11	4.5	11	84	12	64	46	17	0	36	1.48
44752620--44752663	22	2.0	22	86	8	63	52	6	6	34	1.55
44752611--44752666	27	2.1	27	93	0	94	53	7	7	32	1.55
44752588--44752658	6	13.2	6	76	16	50	49	12	2	35	1.56
44752649--44752699	18	3.1	18	78	18	65	64	3	7	23	1.37
44756048--44756364	40	7.9	40	94	0	544	26	20	28	23	1.99
44763118--44763243	63	2.0	63	96	0	234	47	15	16	19	1.83
44764106--44764167	26	2.4	26	94	2	108	14	24	14	46	1.82
44765737--44765922	41	4.5	41	93	0	309	24	27	19	28	1.98

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