genome.fa.s20.2.7.7.80.10.50.1000.31.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  31  of  199  ( 23844 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)
9953584--9953676	44	2.1	44	87	4	132	35	5	23	35	1.78
9953824--9953856	17	1.9	17	93	0	57	66	0	0	33	0.92
9953997--9954318	152	2.1	153	97	0	610	46	6	10	36	1.64
9955308--9955346	20	2.0	20	94	0	69	25	15	23	35	1.94
9955459--9955511	23	2.3	24	75	15	58	64	0	0	35	0.94
9955452--9955529	17	4.3	17	70	20	59	60	0	1	38	1.05
9959396--9959461	29	2.3	29	83	0	87	31	7	15	45	1.74
9962284--9962344	9	6.8	9	92	0	95	24	9	27	37	1.87
9986230--9986261	1	32.0	1	100	0	64	100	0	0	0	0.00
9987160--9987693	44	12.2	45	75	5	439	27	18	26	28	1.98
9987158--9987693	132	4.1	132	94	0	914	27	18	26	28	1.98
9989757--9989797	17	2.4	18	84	8	50	39	2	4	53	1.35
9991568--9991690	43	2.9	42	85	7	158	38	19	21	21	1.94
9991670--9991705	18	2.0	18	94	0	63	55	13	16	13	1.69
9992165--9992204	12	3.3	12	96	0	71	2	40	17	40	1.63
9992162--9992257	21	4.4	21	76	7	84	2	42	18	36	1.62
9997700--9997942	9	26.8	9	77	1	252	31	2	16	49	1.58
9997979--9998076	32	3.2	32	84	8	116	31	0	13	55	1.39
9998033--9998103	27	2.9	23	80	14	63	32	2	14	50	1.57
9998055--9998117	9	6.7	9	75	10	63	34	4	15	44	1.68
9997906--9998176	49	5.4	49	69	17	132	33	1	12	51	1.51
9998253--9998402	62	2.4	61	81	4	167	48	10	5	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9998334--9998371	16	2.4	16	91	4	60	52	5	0	42	1.24
9998368--9998395	13	2.2	13	100	0	56	46	7	7	39	1.59
9998364--9998413	17	3.2	17	81	18	72	52	6	6	36	1.51
9999396--9999450	30	1.9	29	82	10	69	58	9	3	29	1.46
10001347--10001434	28	3.1	28	79	11	99	36	43	1	19	1.59
10001339--10001412	22	3.4	22	76	12	64	37	43	0	18	1.51
10001578--10001616	20	1.9	21	89	5	62	25	53	2	17	1.56
10001576--10001678	35	2.9	35	77	5	93	33	43	0	21	1.59
10002315--10002636	114	2.8	113	77	6	301	30	22	17	29	1.96
10006489--10006518	15	2.0	15	93	0	51	10	6	10	73	1.25
10008283--10008314	15	2.2	15	94	5	57	53	6	3	37	1.42
10008306--10008346	19	2.2	19	86	4	57	48	12	14	24	1.78
10011272--10012603	443	3.0	443	99	0	2603	42	17	13	26	1.87
10012891--10012929	16	2.6	16	88	12	64	48	5	5	41	1.47
10017431--10017532	40	2.6	39	84	3	132	29	24	19	26	1.98
10017560--10017709	40	3.8	40	87	0	219	28	19	22	30	1.98
10018626--10018773	75	2.0	76	90	1	235	30	10	12	46	1.75
10021004--10021060	29	1.9	30	92	3	98	49	10	7	33	1.64
10023084--10023198	30	3.8	30	91	0	185	24	49	3	22	1.65
10023760--10023818	24	2.5	24	80	2	75	33	3	0	62	1.12
10023851--10023899	25	2.0	25	95	0	89	34	10	6	48	1.62
10024048--10024090	16	2.7	15	92	7	68	32	0	2	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10024048--10024094	8	5.9	8	82	9	60	31	0	2	65	1.04
10024650--10024677	14	2.0	14	100	0	56	14	35	35	14	1.86
10025676--10025711	12	3.0	12	87	0	54	25	25	5	44	1.75
10034238--10034423	70	2.6	69	83	5	237	25	15	24	34	1.94
10034448--10034781	88	3.8	88	89	3	465	25	17	21	35	1.95
10034678--10034711	14	2.4	14	90	0	50	20	17	2	58	1.51
10034448--10034927	179	2.9	176	80	11	485	27	17	21	34	1.95
10034711--10035010	150	2.0	151	87	5	437	29	17	21	32	1.96
10034711--10035010	77	4.0	77	85	7	377	29	17	21	32	1.96
10035126--10035263	71	1.9	71	94	0	240	34	16	18	31	1.93
10035035--10035387	155	2.2	156	84	8	450	30	16	18	34	1.93
10035268--10035509	78	3.2	75	85	6	316	26	16	19	37	1.93
10035486--10035527	14	2.9	15	85	7	59	14	14	7	64	1.48
10035489--10035538	14	3.6	14	81	7	57	20	12	4	64	1.43
10035519--10035888	73	4.8	73	72	16	289	28	16	21	33	1.95
10035335--10035844	176	2.9	177	85	7	656	26	16	19	36	1.93
10035667--10035694	14	2.0	14	100	0	56	14	21	7	57	1.61
10035609--10035775	91	1.8	90	87	6	248	27	17	20	34	1.95
10035684--10035925	76	3.2	74	84	6	310	28	16	21	33	1.95
10035129--10036000	416	2.1	406	86	6	1209	27	16	19	35	1.94
10035905--10035955	14	3.6	14	77	12	50	19	11	3	64	1.41
10035919--10035952	16	2.1	16	88	0	50	17	8	2	70	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10035831--10036092	106	2.5	102	82	6	305	25	16	17	40	1.89
10036086--10036334	75	3.3	74	83	7	288	24	18	20	35	1.95
10036316--10036379	27	2.3	28	86	2	94	23	14	3	59	1.49
10036317--10036378	14	4.5	14	81	4	72	22	12	3	61	1.46
10037126--10037270	30	4.8	30	93	0	236	24	48	3	23	1.66
10037831--10037988	25	6.1	25	71	12	81	31	6	3	57	1.43
10037820--10037957	27	5.3	27	72	10	81	31	7	3	57	1.43
10037835--10037888	15	3.5	16	73	19	51	33	3	0	62	1.12
10037909--10037999	23	3.9	24	75	11	73	32	6	5	54	1.49
10038120--10038162	16	2.7	15	92	7	68	32	0	2	65	1.06
10038120--10038166	8	5.9	8	82	9	60	31	0	2	65	1.04
10038912--10038953	19	2.1	21	86	8	61	61	0	2	35	1.09
10039642--10039855	88	2.5	86	85	7	290	39	20	7	32	1.81
10039959--10039983	12	2.1	12	100	0	50	52	8	0	40	1.31
10040175--10040260	18	5.0	17	71	18	54	29	3	1	66	1.16
10040329--10040511	88	2.1	90	88	5	275	34	10	20	34	1.87
10049050--10049159	40	2.8	39	80	4	139	35	22	23	18	1.96
10049049--10049174	40	3.2	39	78	4	126	36	20	21	21	1.95
10049222--10049334	41	2.8	41	81	5	156	23	20	27	29	1.99
10049698--10049748	7	7.1	7	80	4	57	21	0	29	49	1.50
10049653--10049744	22	4.3	22	75	16	77	23	1	29	45	1.60
10049640--10049837	14	13.9	14	70	16	102	21	1	31	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10049759--10049838	7	11.1	7	73	15	65	18	0	36	45	1.50
10051250--10051388	43	3.2	43	75	6	147	30	16	23	29	1.96
10052856--10052905	22	2.3	21	86	6	73	64	2	0	34	1.05
10054598--10054631	15	2.3	15	90	5	52	50	0	8	41	1.34
10059357--10059393	13	2.8	13	91	0	56	24	16	29	29	1.96
10069930--10069986	28	2.0	28	96	0	105	40	17	12	29	1.86
10079468--10079504	18	2.0	19	89	5	58	37	10	13	37	1.80
10085435--10085472	18	2.1	18	85	9	51	42	0	2	55	1.14
10088551--10088698	78	1.9	78	88	1	226	50	9	9	31	1.67
10094740--10094981	50	4.8	50	89	1	351	19	31	23	25	1.98
10095319--10095375	30	1.9	29	85	3	78	29	24	3	42	1.71
10107360--10107401	11	3.6	11	81	12	57	59	7	0	33	1.25
10108709--10108743	17	2.0	18	88	5	54	20	45	22	11	1.82
10111673--10111785	25	4.5	25	75	10	97	30	23	15	30	1.96
10111673--10111785	50	2.3	50	84	0	136	30	23	15	30	1.96
10111937--10111997	31	2.0	30	82	17	74	45	6	18	29	1.74
10112385--10112447	30	2.1	30	93	0	108	30	6	12	50	1.65
10117286--10117320	18	1.9	18	88	0	52	57	2	37	2	1.29
10119678--10119711	14	2.5	14	90	4	52	29	29	8	32	1.87
10124971--10125031	31	2.0	31	90	0	95	49	9	3	37	1.52
10130935--10131140	57	3.6	57	80	3	236	45	15	17	21	1.85
10131351--10131390	16	2.6	16	80	4	55	42	0	5	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10133572--10133720	57	2.6	57	87	2	201	24	16	13	46	1.82
10135918--10135958	20	2.0	20	90	9	66	36	17	9	36	1.82
10143516--10143540	13	1.9	13	100	0	50	40	0	0	60	0.97
10145133--10145158	5	5.2	5	100	0	52	23	0	0	76	0.78
10146617--10146654	19	2.1	19	85	5	51	47	13	0	39	1.42
10149323--10149356	17	2.0	17	94	0	59	44	50	0	5	1.26
10153962--10153995	17	2.0	17	94	0	59	44	50	0	5	1.26
10156615--10156665	3	16.3	3	88	8	75	29	1	3	64	1.22
10156786--10156840	24	2.2	24	83	3	74	41	5	1	50	1.36
10160970--10161013	21	2.1	21	86	0	61	13	18	27	40	1.88

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199