genome.fa.s7.2.7.7.80.10.50.1000.194.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   200   201   202   203   204   

This is table  194  of  204  ( 24458 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)
57369213--57369274	26	2.4	26	75	5	63	35	8	4	51	1.53
57369290--57369319	13	2.3	13	94	0	51	33	3	3	60	1.30
57369782--57370068	110	2.6	109	92	2	470	30	16	21	31	1.95
57371924--57371973	9	5.6	9	79	15	59	54	2	0	44	1.11
57379675--57379714	20	2.0	20	100	0	80	30	0	10	60	1.30
57383381--57383422	21	1.9	23	85	9	61	30	2	0	66	1.04
57398453--57398503	24	2.2	22	82	10	57	41	1	0	56	1.10
57402477--57402544	2	34.0	2	100	0	136	50	0	0	50	1.00
57403296--57403340	24	1.9	23	86	4	63	66	0	2	31	1.04
57403574--57403615	2	21.0	2	100	0	84	50	0	0	50	1.00
57408752--57408785	18	1.9	18	88	5	52	55	5	2	35	1.39
57413895--57415059	297	3.9	296	80	6	1203	35	14	10	38	1.81
57426530--57426571	19	2.2	19	100	0	84	50	19	9	21	1.75
57431910--57431934	2	12.5	2	100	0	50	48	0	0	52	1.00
57436256--57436292	4	8.8	4	88	11	56	75	0	2	21	0.92
57445389--57445454	5	13.2	5	86	0	96	40	19	1	37	1.61
57445569--57445623	23	2.5	22	88	8	85	27	3	23	45	1.69
57451368--57451419	16	3.2	16	83	5	68	9	25	0	65	1.23
57454678--57454735	29	2.0	30	89	3	91	27	22	12	37	1.89
57460304--57460350	18	2.5	19	82	3	60	38	0	0	61	0.96
57462666--57462735	2	35.0	2	85	5	97	48	1	4	45	1.30
57474396--57474428	16	2.0	17	94	5	59	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57478691--57478738	25	1.9	25	91	8	80	33	0	14	52	1.42
57478695--57478747	25	2.0	25	85	7	70	35	0	15	49	1.45
57483257--57483373	24	4.7	24	69	23	82	72	0	26	0	0.90
57483257--57483380	34	3.7	34	75	19	109	71	0	27	0	0.91
57483258--57483387	43	3.1	43	80	13	171	70	0	28	0	0.92
57483255--57483380	10	12.6	10	74	16	84	70	0	28	0	0.93
57483667--57483730	30	2.1	30	100	0	128	73	9	10	6	1.25
57483959--57483997	8	4.9	8	83	0	51	69	2	2	25	1.14
57483956--57483997	16	2.7	15	82	10	57	69	2	2	26	1.13
57483811--57484167	182	2.0	182	92	0	597	54	5	9	30	1.55
57484138--57484167	16	1.9	15	93	6	51	70	6	3	20	1.25
57487078--57487202	27	4.6	27	86	4	171	20	25	32	21	1.98
57488085--57488115	14	2.3	14	94	5	55	16	0	29	54	1.42
57488247--57488294	24	2.0	25	83	4	62	68	6	6	18	1.32
57495932--57495982	25	2.0	25	100	0	102	45	19	7	27	1.78
57497769--57498136	153	2.4	152	86	5	494	25	20	14	39	1.91
57497773--57498186	153	2.7	152	82	5	444	25	21	14	38	1.91
57499681--57499728	25	1.9	25	91	8	80	33	0	14	52	1.42
57501184--57501544	153	2.4	153	88	2	521	24	19	17	38	1.93
57502766--57502791	5	5.2	5	100	0	52	42	19	19	19	1.90
57503424--57503455	16	2.0	17	88	11	50	43	3	25	28	1.69
57503541--57503600	30	2.0	30	83	3	75	45	0	35	20	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57518649--57518708	26	2.4	25	81	8	77	33	0	15	51	1.43
57518656--57518704	26	1.9	25	91	4	80	34	0	14	51	1.43
57520156--57520471	153	2.1	153	86	5	444	25	21	16	36	1.94
57528936--57528963	9	3.1	9	100	0	56	46	10	10	32	1.73
57529176--57529235	30	2.0	31	86	3	86	20	40	0	40	1.52
57529459--57529541	17	4.8	17	72	20	64	37	3	3	55	1.35
57532858--57532891	14	2.5	14	90	4	52	76	2	20	0	0.92
57536675--57536703	12	2.3	13	94	5	51	34	0	6	58	1.25
57536777--57536875	47	2.1	47	100	0	198	43	6	12	38	1.67
57540756--57540837	42	2.0	42	92	0	137	30	21	8	39	1.84
57541091--57541141	25	2.0	25	100	0	102	33	11	11	43	1.78
57552704--57552790	44	2.0	44	83	0	111	28	20	25	25	1.99
57553980--57554062	36	2.3	36	100	0	166	22	19	32	25	1.97
57562555--57562689	43	3.2	43	84	5	132	22	23	20	33	1.97
57562583--57562692	43	2.6	43	88	1	159	21	24	20	33	1.97
57563113--57563171	21	2.8	21	86	0	82	1	50	22	25	1.58
57563552--57563580	13	2.1	14	93	6	51	55	10	0	34	1.34
57563577--57563615	17	2.2	19	86	9	55	58	0	2	38	1.12
57572382--57572495	43	2.7	43	87	1	167	21	24	21	32	1.98
57573400--57573428	13	2.1	14	93	6	51	55	10	0	34	1.34
57573425--57573463	17	2.2	19	86	9	55	58	0	2	38	1.12
57576363--57576568	16	13.1	16	79	14	182	29	0	22	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57576348--57576580	25	9.4	25	85	5	280	29	0	21	48	1.54
57576363--57576568	41	5.0	41	86	8	235	29	0	22	47	1.55
57577685--57577736	26	2.0	25	85	3	68	55	0	11	32	1.36
57579371--57579446	9	9.0	9	68	18	56	31	0	23	44	1.54
57583042--57583098	25	2.3	26	78	9	64	31	0	17	50	1.46
57587008--57587322	46	6.6	46	81	15	347	27	23	14	34	1.94
57587006--57587322	99	3.3	99	91	4	483	27	23	14	34	1.94
57588850--57588886	18	2.1	18	100	0	74	48	16	5	29	1.68
57591713--57591772	24	2.4	23	78	15	57	53	8	3	35	1.48
57594521--57594604	31	2.8	29	87	7	123	27	1	0	71	0.93
57606620--57606702	42	2.0	42	85	4	114	40	9	16	32	1.81
57608071--57608127	28	2.0	28	100	0	114	38	14	3	43	1.62
57612961--57613022	25	2.6	23	76	16	63	33	1	12	51	1.50
57612971--57613018	25	1.9	25	87	8	71	33	2	12	52	1.51
57619793--57619835	22	2.0	22	100	0	86	37	13	25	23	1.92
57624518--57624545	9	3.1	9	100	0	56	57	10	0	32	1.33
57624488--57624629	68	2.1	66	94	2	248	45	9	4	40	1.58
57624488--57624651	68	2.5	66	85	10	198	46	9	4	40	1.55
57624618--57624659	16	2.6	16	84	0	57	45	7	2	45	1.44
57624633--57624687	22	2.5	22	81	0	65	45	1	1	50	1.22
57630898--57630960	20	3.3	20	71	24	64	58	0	0	41	0.98
57630879--57630963	36	2.3	37	88	6	120	60	1	0	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57630903--57630961	18	3.3	18	75	17	68	55	0	0	44	0.99
57630916--57630969	18	3.0	18	71	23	51	57	0	0	42	0.98
57635915--57635997	39	2.1	39	90	0	130	27	13	25	33	1.93
57637697--57637760	33	1.9	33	100	0	128	34	1	3	60	1.22
57638026--57638063	14	2.5	15	83	12	51	18	0	5	76	0.97
57644519--57644543	2	12.5	2	100	0	50	48	0	0	52	1.00
57650583--57650685	19	5.6	19	74	15	99	54	7	6	31	1.55
57650594--57650731	17	8.0	16	72	14	73	50	11	7	31	1.66
57650586--57650724	35	3.9	35	81	8	129	51	11	7	30	1.65
57650631--57650984	35	10.2	35	70	12	165	47	11	11	29	1.75
57650624--57650927	17	17.3	17	70	15	142	48	11	9	30	1.72
57650938--57650983	17	2.7	17	75	0	56	39	6	13	41	1.70
57651460--57651495	8	4.9	8	86	13	51	0	13	0	86	0.58
57651467--57651491	13	1.9	13	100	0	50	0	12	0	88	0.53
57651460--57651507	21	2.3	21	89	7	71	0	16	0	83	0.65
57651669--57651707	18	2.3	16	82	8	51	2	15	30	51	1.57
57651779--57651862	22	3.8	22	87	0	123	29	14	26	29	1.95
57652436--57652573	30	4.7	28	73	13	109	37	4	23	34	1.75
57652520--57652595	30	2.5	30	85	4	100	42	2	25	30	1.69
57664269--57664299	15	2.1	15	100	0	62	41	6	19	32	1.77
57669306--57669352	20	2.4	19	76	13	51	31	2	0	65	1.04
57669290--57669350	32	1.9	32	82	0	77	34	1	0	63	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57669290--57669352	16	3.9	16	75	8	65	34	1	0	63	1.04
57670444--57670494	2	25.5	2	100	0	102	50	0	0	49	1.00
57670851--57671160	9	34.7	9	73	13	239	33	0	19	45	1.57
57671139--57671262	12	9.1	14	68	26	63	37	0	12	50	1.41
57671139--57671255	28	4.3	28	69	23	106	35	0	13	50	1.42
57671155--57671281	40	3.1	41	71	17	138	37	0	12	50	1.41
57671133--57671283	80	1.9	80	98	0	293	35	0	13	50	1.41
57673016--57673167	25	6.3	24	85	9	188	38	20	23	17	1.93
57674198--57674223	11	2.4	11	100	0	52	0	42	7	50	1.31
57674285--57674321	16	2.3	16	95	0	65	59	0	0	40	0.97

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   200   201   202   203   204