genome.fa.s20.2.7.7.80.10.50.1000.134.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  134  of  186  ( 22216 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)
44144677--44144752	37	2.1	37	83	14	95	43	23	7	25	1.80
44148504--44148556	19	2.8	19	77	2	63	35	3	1	58	1.27
44153694--44153917	40	5.6	40	86	6	310	25	26	23	24	2.00
44153694--44153917	83	2.8	80	88	4	317	25	26	23	24	2.00
44156069--44156116	20	2.5	20	93	3	80	41	4	14	39	1.65
44160653--44160678	11	2.4	11	100	0	52	61	7	7	23	1.49
44161129--44161188	28	2.2	27	79	5	66	60	5	3	31	1.35
44163094--44163202	44	2.5	44	84	0	137	25	27	14	32	1.95
44163144--44163481	178	1.9	178	88	0	514	27	26	17	28	1.98
44164653--44164678	13	2.0	13	100	0	52	15	0	0	84	0.62
44168801--44168868	27	2.4	29	78	9	79	54	5	7	32	1.52
44173228--44173275	24	2.0	24	100	0	96	20	20	25	33	1.97
44174446--44174667	46	4.7	49	77	11	205	24	28	18	27	1.98
44176452--44176516	27	2.4	27	75	14	71	24	23	18	33	1.96
44176801--44176922	45	2.7	45	79	2	129	23	20	13	42	1.87
44178573--44178921	181	1.9	181	96	0	644	30	10	22	36	1.87
44185604--44185660	26	2.2	26	90	0	87	38	26	7	28	1.82
44185687--44185712	11	2.4	11	100	0	52	26	26	7	38	1.83
44191489--44191515	14	1.9	14	100	0	54	59	0	40	0	0.98
44192943--44193271	27	12.2	27	89	3	511	26	23	11	38	1.88
44193276--44193471	27	7.3	27	85	0	248	35	18	19	26	1.95
44193670--44193752	27	3.1	26	87	5	112	19	21	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44193840--44193898	22	2.7	22	81	0	64	20	25	22	32	1.98
44194063--44194136	27	2.8	27	85	6	89	17	24	21	36	1.95
44194254--44194439	6	30.8	6	75	17	163	20	15	14	50	1.78
44194254--44194416	30	5.4	30	91	0	236	20	15	14	49	1.80
44199441--44200028	294	2.0	294	87	1	838	32	25	13	28	1.93
44208148--44208210	32	2.0	32	96	0	117	50	6	9	33	1.60
44220352--44220539	90	2.1	89	80	8	213	44	17	6	31	1.75
44220609--44220717	39	2.9	38	80	8	116	65	0	3	31	1.10
44220617--44220715	19	5.2	19	80	6	101	65	0	4	30	1.11
44220589--44220741	29	5.3	29	74	10	120	61	1	3	33	1.23
44220616--44220726	10	11.6	10	72	11	72	63	0	3	33	1.12
44220651--44220730	39	2.1	39	85	0	106	58	1	5	35	1.28
44220690--44220752	28	2.3	27	78	13	67	61	3	4	30	1.32
44220933--44221039	18	5.7	19	71	16	73	41	1	0	56	1.17
44220983--44221030	10	4.9	10	76	5	53	45	0	0	54	0.99
44220980--44221040	19	3.1	19	77	15	61	47	0	0	52	1.00
44226892--44226929	3	12.7	3	94	0	67	31	0	2	65	1.06
44230426--44230546	43	2.9	42	82	2	152	32	15	23	28	1.95
44245806--44245905	48	2.1	48	92	0	164	35	29	16	20	1.94
44246287--44246312	5	5.2	5	100	0	52	61	0	0	38	0.96
44247268--44247306	21	1.9	20	89	5	60	51	17	0	30	1.46
44261497--44261810	47	6.7	47	75	16	196	25	29	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44261501--44261626	49	2.6	47	85	7	148	25	30	19	24	1.98
44261494--44261715	49	4.7	47	76	15	135	25	30	18	25	1.98
44264897--44265115	47	4.7	46	76	14	150	26	29	16	26	1.97
44264975--44265110	47	2.9	47	88	7	188	26	29	16	27	1.97
44280785--44280959	49	3.5	48	84	6	251	29	26	17	26	1.98
44280781--44280964	100	1.8	100	97	2	352	29	26	18	25	1.98
44287022--44287136	43	2.7	43	78	9	137	32	23	17	26	1.97
44288467--44288511	22	2.0	22	83	8	56	40	4	0	55	1.20
44288887--44288938	24	2.1	25	86	10	72	7	34	1	55	1.39
44302992--44303041	25	2.0	25	100	0	100	36	16	16	32	1.90
44310657--44310698	12	3.5	12	93	6	68	7	42	26	23	1.80
44311700--44311837	40	3.5	40	89	0	213	32	18	30	18	1.95
44311718--44311779	20	3.1	20	67	17	56	35	16	32	16	1.91
44313991--44314023	17	2.0	17	88	5	50	57	6	12	24	1.57
44314023--44314133	49	2.4	47	78	6	127	27	18	9	45	1.79
44315849--44315959	40	2.8	40	83	1	98	25	28	23	22	1.99
44315872--44316016	40	3.6	40	85	4	184	23	26	24	26	2.00
44326381--44326427	17	2.8	17	73	23	53	61	0	2	36	1.08
44328809--44328834	13	2.0	13	100	0	52	46	0	0	53	1.00
44331705--44331745	21	2.0	21	100	0	82	9	14	24	51	1.72
44336257--44336314	28	2.1	28	100	0	116	46	20	3	29	1.67
44337399--44337441	14	3.0	14	86	10	52	76	0	11	11	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44337405--44337448	15	3.1	14	87	6	54	77	0	15	6	0.97
44342608--44342642	16	2.2	16	94	0	61	48	14	22	14	1.79
44342857--44342971	29	4.0	28	82	5	124	28	13	31	26	1.94
44345786--44345831	19	2.4	19	92	0	74	21	15	26	36	1.93
44347176--44347210	8	4.4	8	92	0	61	42	22	25	8	1.82
44347169--44347210	16	2.6	16	92	0	66	45	21	23	9	1.81
44347434--44347548	29	4.0	29	83	5	144	29	15	29	25	1.96
44351112--44351203	45	2.0	45	93	0	157	38	19	21	20	1.94
44352830--44352856	14	1.9	14	100	0	54	29	0	0	70	0.88
44357087--44357142	25	2.3	24	81	3	67	35	1	1	60	1.17
44357103--44357147	21	2.1	21	84	8	56	37	2	2	57	1.23
44358277--44358319	20	2.1	21	86	4	61	62	9	2	25	1.37
44358844--44358889	15	2.9	16	72	15	51	26	26	0	47	1.52
44360148--44360180	17	1.9	18	88	11	52	42	6	3	48	1.43
44365958--44366473	125	4.1	125	82	2	599	28	15	16	38	1.90
44366000--44366473	250	1.9	252	85	2	659	28	16	16	39	1.90
44366529--44366640	34	3.4	33	78	6	127	42	15	0	41	1.52
44368861--44369002	40	3.6	40	78	6	137	26	17	23	31	1.97
44372689--44372721	11	3.1	11	82	8	50	63	0	9	27	1.24
44372696--44372815	20	6.2	19	75	13	95	65	1	5	28	1.23
44372689--44372815	10	12.8	10	70	16	77	63	1	5	29	1.26
44373855--44373918	11	6.4	10	71	8	51	23	3	1	71	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44373853--44373915	29	2.2	28	83	10	83	26	3	1	68	1.14
44373846--44374014	29	5.8	28	70	16	80	31	2	1	65	1.13
44373884--44373997	20	5.8	18	74	18	77	33	1	1	63	1.15
44373884--44373997	9	11.7	9	71	17	77	33	1	1	63	1.15
44374448--44374489	22	1.9	22	90	0	66	28	19	21	30	1.97
44377721--44377756	19	1.9	19	88	5	56	63	19	5	11	1.46
44381498--44381549	14	3.5	14	70	14	50	38	3	25	32	1.74
44381486--44381553	31	2.2	31	100	0	136	35	2	27	33	1.72
44381486--44381535	17	3.1	17	66	16	52	34	2	30	34	1.69
44385030--44385061	13	2.5	13	100	0	64	25	31	18	25	1.98
44388134--44388176	10	4.4	10	82	5	61	62	6	2	27	1.33
44388168--44388199	16	2.0	17	88	11	50	56	0	6	37	1.25
44388169--44388217	17	2.9	17	75	9	55	55	2	6	36	1.37
44388496--44388544	24	2.0	24	84	4	62	61	0	2	36	1.08
44388839--44388872	9	3.8	9	88	0	50	32	2	2	61	1.26
44388941--44389010	35	2.0	35	83	10	90	37	5	0	57	1.23
44389964--44390033	35	2.0	35	97	0	131	38	20	18	22	1.93
44397880--44397921	17	2.4	19	84	11	54	40	0	2	57	1.12
44398040--44398073	17	2.0	17	100	0	68	29	11	11	47	1.76
44398846--44398883	6	6.3	6	85	11	51	47	0	2	50	1.15
44402326--44402352	14	1.9	14	100	0	54	25	0	0	74	0.83
44407227--44407296	28	2.6	27	83	2	86	31	8	8	51	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44410629--44410660	15	2.1	16	94	5	57	71	0	15	12	1.14
44417452--44417494	22	1.9	23	90	4	70	23	53	2	20	1.57
44417702--44417754	27	2.0	27	88	0	79	30	15	16	37	1.90
44426723--44426817	15	6.5	15	71	16	67	6	31	2	60	1.34
44428207--44428268	30	2.1	30	100	0	124	51	0	12	35	1.40
44428682--44428715	18	1.9	17	88	5	50	50	8	0	41	1.34
44430335--44430385	18	2.8	18	74	14	50	66	5	3	23	1.30
44432774--44433571	176	4.5	176	85	3	918	28	24	16	31	1.96
44433214--44433295	43	1.9	43	87	0	119	31	25	9	32	1.88
44434718--44434944	49	4.7	49	89	3	354	15	19	19	44	1.86

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