genome.fa.s2.2.7.7.80.10.50.1000.176.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   205   206   

This is table  176  of  206  ( 24623 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)
53600344--53600436	44	2.1	46	91	4	154	36	30	4	29	1.77
53600418--53600470	16	3.3	16	86	0	70	24	30	3	41	1.72
53601585--53601631	11	4.2	11	81	13	51	23	0	6	70	1.10
53605781--53605814	3	11.3	3	100	0	68	32	0	0	67	0.91
53605849--53605906	29	2.0	29	82	0	71	43	3	3	50	1.36
53605947--53605984	18	2.1	19	90	5	60	39	10	0	50	1.37
53605941--53606002	26	2.5	25	84	7	74	37	11	0	51	1.38
53605961--53606010	26	1.9	26	87	0	73	34	14	0	52	1.42
53609270--53609343	10	6.7	10	75	17	58	83	9	6	0	0.80
53609271--53609343	11	6.4	12	78	13	75	84	8	6	0	0.76
53609832--53609881	7	7.0	7	82	17	59	70	0	16	14	1.18
53609833--53609863	13	2.3	13	94	5	53	74	0	12	12	1.08
53611734--53611771	18	2.1	19	85	5	51	50	2	10	36	1.51
53611708--53611757	26	1.9	26	87	0	73	52	0	14	34	1.42
53611909--53611942	3	11.3	3	100	0	68	67	0	0	32	0.91
53613792--53614011	48	4.6	48	73	12	170	36	10	10	41	1.75
53616016--53616059	21	2.1	22	91	8	74	63	11	0	25	1.27
53616050--53616527	104	4.6	103	76	15	432	57	14	0	27	1.41
53616050--53616527	208	2.3	206	84	10	609	57	14	0	27	1.41
53616571--53616632	27	2.2	29	80	11	76	54	12	0	32	1.38
53616571--53616631	28	2.2	28	85	5	79	55	13	0	31	1.38
53616653--53616700	4	12.5	4	83	16	50	2	20	0	77	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53616667--53616701	18	1.9	18	94	0	61	2	25	0	71	1.00
53620037--53620063	3	9.0	3	100	0	54	33	0	33	33	1.58
53633904--53633928	6	4.2	6	100	0	50	36	48	0	16	1.46
53636229--53636262	16	2.2	16	89	5	52	82	0	14	2	0.79
53636225--53636265	19	2.2	19	86	8	57	82	0	14	2	0.76
53636224--53636266	22	1.9	23	90	4	70	81	0	16	2	0.79
53645437--53645470	16	2.1	16	94	0	59	67	5	0	26	1.13
53645703--53645736	13	2.6	13	85	0	50	38	8	20	32	1.84
53646244--53646273	3	10.0	3	100	0	60	33	66	0	0	0.92
53648161--53648284	35	3.5	35	68	2	97	26	24	28	20	1.99
53651702--53651749	22	2.2	21	82	10	53	56	12	4	27	1.54
53653948--53653972	11	2.3	11	100	0	50	28	8	16	48	1.74
53655284--53655313	15	2.0	15	100	0	60	46	0	26	26	1.53
53658011--53658061	18	2.8	18	79	5	59	47	37	3	11	1.59
53663329--53663475	53	2.8	53	93	1	242	42	19	23	14	1.87
53664789--53665169	44	8.8	44	73	6	188	29	17	23	29	1.97
53664746--53665239	218	2.3	217	89	1	772	28	18	24	28	1.98
53665370--53665828	44	10.7	43	69	9	263	31	22	21	25	1.98
53665352--53665873	129	4.0	129	88	2	760	31	21	21	25	1.98
53665370--53665828	85	5.3	85	69	10	279	31	22	21	25	1.98
53671157--53671199	10	4.1	10	82	11	50	58	4	0	37	1.19
53672738--53672806	27	2.5	28	78	21	76	52	1	2	43	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53672744--53672776	15	2.1	16	88	5	50	51	0	0	48	1.00
53676483--53676607	62	2.0	62	92	0	205	31	21	16	30	1.96
53679448--53679496	23	2.1	23	100	0	98	44	8	4	42	1.53
53683990--53684040	25	2.1	23	85	7	66	60	0	1	37	1.08
53685306--53685348	23	1.9	22	90	4	68	62	0	2	34	1.08
53686381--53686418	18	2.1	19	95	5	69	39	0	0	60	0.97
53686355--53686420	18	3.5	19	75	18	66	36	3	0	60	1.12
53686425--53686475	19	2.7	19	81	6	59	33	1	5	58	1.33
53692687--53692736	23	2.1	24	85	10	68	40	8	2	50	1.43
53697499--53697530	4	8.0	4	92	0	55	46	25	3	25	1.67
53699142--53699191	24	2.0	27	88	11	79	52	14	0	34	1.42
53706710--53706739	14	2.1	14	93	0	51	53	16	0	30	1.44
53708411--53708461	14	3.7	14	77	12	52	72	0	27	0	0.85
53709896--53709946	12	4.2	12	73	14	50	49	0	0	50	1.00
53709902--53709987	26	3.3	26	78	13	88	52	2	1	44	1.21
53711297--53711445	73	2.0	73	100	0	298	26	22	25	25	2.00
53713969--53714020	16	3.2	16	94	0	95	25	1	36	36	1.67
53714001--53714091	45	2.0	45	87	2	130	27	5	28	38	1.79
53714001--53714114	45	2.7	43	81	10	128	30	5	28	35	1.79
53714256--53714290	18	2.0	17	88	5	52	54	0	0	45	0.99
53714376--53714410	18	2.0	17	88	5	52	54	0	0	45	0.99
53715948--53716078	67	1.9	69	87	3	194	51	9	8	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53722478--53722515	20	1.9	20	94	0	67	42	13	2	42	1.57
53724021--53724160	42	3.4	41	86	3	169	16	23	16	43	1.87
53724014--53724141	63	2.1	61	86	2	175	17	21	15	44	1.86
53724021--53724160	21	6.9	21	83	1	153	16	23	16	43	1.87
53727466--53727655	90	2.1	90	99	0	371	24	14	17	43	1.87
53729782--53729848	32	2.1	32	91	0	107	32	23	0	43	1.54
53729782--53729837	16	3.5	16	92	0	94	33	26	0	39	1.57
53730565--53730595	15	2.1	15	93	0	53	22	3	6	67	1.28
53730686--53730742	24	2.5	22	77	11	60	42	3	3	50	1.36
53733596--53733669	37	2.0	37	97	0	139	35	13	9	41	1.77
53734660--53734701	18	2.3	18	100	0	84	19	4	9	66	1.38
53736115--53736180	33	2.0	33	100	0	132	33	9	12	45	1.73
53738661--53738741	29	2.8	29	88	0	126	35	22	11	30	1.89
53739535--53739566	13	2.5	13	100	0	64	28	18	15	37	1.92
53746093--53746221	69	1.9	69	95	0	231	48	6	13	31	1.69
53746612--53746657	18	2.7	17	80	9	58	56	0	13	30	1.37
53752288--53752316	3	9.7	3	100	0	58	68	0	0	31	0.89
53755161--53755190	11	2.9	10	90	9	51	70	13	6	10	1.34
53757550--53757619	24	2.9	25	72	6	72	15	21	22	40	1.91
53757662--53757731	25	2.7	26	78	6	81	27	27	17	28	1.97
53760483--53760528	23	2.0	23	91	8	76	39	21	8	30	1.84
53766477--53766538	25	2.5	25	73	5	63	17	19	19	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53766640--53766714	25	3.0	25	74	20	66	24	28	20	28	1.99
53769456--53769495	16	2.5	16	91	0	62	47	2	7	42	1.45
53769498--53769528	16	2.0	15	93	6	53	32	0	9	58	1.31
53769565--53769603	16	2.4	16	91	0	60	35	0	10	53	1.35
53769490--53769633	75	1.9	74	91	1	234	40	4	9	44	1.59
53779637--53780271	132	4.8	132	80	1	664	33	14	14	37	1.86
53786287--53786331	22	2.0	23	91	8	76	53	8	6	31	1.58
53795367--53795391	10	2.5	10	100	0	50	56	12	0	32	1.36
53804944--53805306	46	8.6	45	77	18	379	34	14	21	28	1.93
53804944--53805262	82	3.9	82	95	0	548	35	14	21	28	1.93
53805062--53805306	128	2.0	123	84	9	315	34	15	22	27	1.94
53811061--53811122	26	2.2	28	86	8	83	48	24	4	22	1.70
53811628--53811673	24	1.9	24	86	0	65	32	8	39	19	1.82
53821459--53821529	26	2.8	26	86	2	108	35	23	25	15	1.94
53821331--53821544	24	8.6	26	69	16	105	34	20	25	19	1.96
53821599--53821672	25	3.0	25	75	9	71	35	20	29	14	1.93
53821602--53821672	24	3.0	23	77	8	70	35	19	29	15	1.93
53824429--53824477	24	2.0	24	96	0	89	34	0	30	34	1.58
53826208--53826255	19	2.4	19	77	19	53	45	2	4	47	1.33
53826295--53826329	15	2.3	15	90	0	52	71	0	8	20	1.11
53827455--53827494	19	2.0	20	85	9	55	37	0	32	30	1.58
53842913--53842957	12	3.8	12	78	0	54	37	0	44	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53843174--53843444	75	3.7	75	75	14	265	40	10	5	43	1.64
53843174--53843445	73	3.7	73	77	11	266	40	10	5	43	1.64
53849433--53849479	23	2.0	23	100	0	94	40	12	12	34	1.82
53856637--53856749	41	2.8	41	81	0	136	19	19	25	35	1.95
53863996--53864152	41	3.8	41	83	0	197	18	21	26	33	1.96
53865235--53865260	2	13.0	2	100	0	52	50	0	0	50	1.00
53870665--53870749	32	2.6	33	77	5	93	44	18	10	25	1.82
53870765--53870804	14	2.9	14	84	0	53	42	17	7	32	1.77
53870730--53870796	34	1.9	35	87	3	100	44	13	10	31	1.77
53874498--53874642	49	3.0	49	79	4	157	24	19	24	31	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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206