genome.fa.s11.2.7.7.80.10.50.1000.172.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  172  of  210  ( 25152 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)
51482195--51482236	22	1.9	22	95	0	75	33	0	35	30	1.58
51482208--51482266	30	2.0	30	93	0	100	33	0	35	30	1.58
51482238--51482283	22	2.1	22	100	0	92	39	0	30	30	1.57
51483112--51483168	9	5.8	10	73	22	50	66	1	1	29	1.12
51484036--51484065	14	2.1	15	93	6	53	56	0	0	43	0.99
51484111--51484146	18	1.9	18	88	5	54	58	2	0	38	1.13
51487861--51487896	18	1.9	18	88	5	54	58	2	0	38	1.13
51498045--51498089	16	2.8	16	77	12	56	62	0	0	37	0.96
51498506--51498578	9	7.8	9	70	18	51	35	0	2	61	1.10
51499274--51499333	30	1.9	32	87	12	90	46	0	3	50	1.18
51503519--51503553	12	2.8	13	86	8	54	42	17	8	31	1.79
51503775--51503831	30	1.9	30	82	13	73	47	3	0	49	1.18
51511767--51511810	22	2.1	21	84	12	56	61	2	0	36	1.09
51512972--51513012	20	2.0	20	85	0	55	29	2	0	68	1.03
51519258--51519291	12	2.8	12	95	4	59	64	0	0	35	0.94
51520938--51521047	44	2.5	44	86	0	148	33	21	19	25	1.97
51520948--51521774	143	5.8	143	83	2	957	29	21	18	31	1.97
51520971--51521774	286	2.8	286	85	1	1056	28	21	18	31	1.97
51523031--51523119	45	2.0	45	97	0	169	33	21	21	23	1.97
51527321--51527623	33	8.5	33	68	24	152	21	18	27	32	1.96
51527251--51527520	102	2.6	103	91	3	429	19	19	28	32	1.96
51527456--51527594	43	3.5	43	75	22	183	22	17	27	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51527419--51527630	76	2.8	76	96	0	379	22	18	27	31	1.97
51535343--51535382	20	2.0	20	85	0	53	25	10	12	52	1.70
51535328--51535394	34	1.9	35	87	3	100	29	8	13	47	1.73
51537697--51537731	16	2.2	16	89	0	52	54	0	5	40	1.24
51542425--51542494	22	3.0	22	67	18	52	31	7	2	58	1.40
51543830--51543895	29	2.3	29	81	0	78	40	19	16	22	1.91
51547624--51547695	22	3.3	22	94	0	117	30	16	27	25	1.97
51549606--51549652	2	23.5	2	100	0	94	51	0	0	48	1.00
51550411--51550441	5	6.0	5	92	7	53	80	0	0	19	0.71
51556716--51556753	19	2.1	17	90	9	58	31	2	0	65	1.06
51556760--51556806	23	2.0	23	91	0	76	29	12	25	31	1.93
51557649--51557719	36	2.0	36	97	0	133	40	8	14	36	1.76
51557948--51557993	21	2.2	21	88	0	65	2	47	19	30	1.61
51560584--51560655	14	5.5	13	72	18	60	40	36	0	23	1.55
51560588--51560643	21	2.6	21	91	2	94	37	39	0	23	1.55
51560583--51560640	7	8.1	7	82	3	71	36	37	0	25	1.57
51560825--51560877	7	7.4	7	82	2	61	33	41	1	22	1.65
51560948--51560980	14	2.4	14	89	0	57	51	27	0	21	1.48
51560920--51561012	39	2.4	40	83	5	127	48	22	2	26	1.62
51563374--51563403	14	2.2	14	94	5	53	6	13	0	80	0.91
51563472--51563496	10	2.5	10	100	0	50	84	8	8	0	0.79
51564500--51564568	29	2.3	29	85	5	84	47	15	14	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51566630--51566701	29	2.5	28	81	16	78	62	6	5	25	1.42
51578889--51578925	2	18.5	2	100	0	74	48	0	0	51	1.00
51589634--51589695	27	2.4	25	84	10	79	41	3	0	54	1.16
51589807--51590315	19	25.3	19	68	24	207	30	0	13	55	1.44
51589832--51590272	80	5.5	80	79	14	382	30	0	12	56	1.43
51589911--51590132	101	2.2	99	93	3	390	30	0	13	56	1.37
51589810--51590198	181	2.1	181	95	0	697	30	0	12	56	1.41
51589972--51590315	141	2.4	141	78	10	389	29	0	13	55	1.43
51590111--51590331	61	3.6	61	80	11	249	31	0	11	55	1.42
51590235--51590314	42	1.9	42	100	0	160	31	0	16	52	1.44
51590308--51590425	56	2.0	59	83	6	152	33	0	11	53	1.44
51590542--51590578	16	2.4	16	90	4	58	32	2	5	59	1.34
51590666--51590724	27	2.2	27	84	0	73	28	33	18	18	1.95
51593603--51593910	110	2.8	109	88	2	442	32	19	17	30	1.95
51594260--51594332	36	2.0	36	100	0	146	45	8	13	32	1.73
51594431--51594567	3	45.7	3	89	0	211	61	0	4	34	1.16
51596152--51596176	13	1.9	13	100	0	50	32	36	0	32	1.58
51597159--51597187	2	14.5	2	100	0	58	51	0	0	48	1.00
51597409--51597499	45	2.0	46	89	4	141	30	1	0	68	0.97
51597462--51597489	14	2.0	14	100	0	56	14	0	0	85	0.59
51598758--51598789	15	2.1	15	94	0	55	62	9	6	21	1.47
51601432--51601493	9	6.7	9	79	3	52	20	41	3	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51601452--51601477	10	2.6	10	100	0	52	30	46	0	23	1.53
51613385--51613409	12	2.1	12	100	0	50	24	36	24	16	1.94
51613570--51613645	9	8.4	9	86	0	107	43	23	7	25	1.80
51613758--51613794	13	2.8	13	100	0	74	10	0	48	40	1.38
51614659--51614718	27	2.2	27	93	0	102	38	6	0	55	1.27
51614785--51614835	18	2.7	19	78	6	68	37	13	0	49	1.43
51614844--51614930	27	3.3	26	93	3	138	55	0	3	41	1.17
51619266--51619295	5	6.0	5	92	0	51	56	0	3	40	1.16
51625060--51625087	14	2.0	14	100	0	56	50	0	7	42	1.30
51626680--51626731	24	2.1	25	82	7	61	30	9	7	51	1.62
51637901--51637925	10	2.5	10	100	0	50	8	24	8	60	1.52
51640035--51640060	8	3.2	8	100	0	52	38	34	0	26	1.57
51645454--51645507	15	3.7	15	73	12	58	62	5	5	25	1.39
51645444--51645502	28	2.1	28	100	0	118	62	6	6	23	1.44
51650165--51650220	17	3.3	16	80	9	58	48	0	8	42	1.34
51651443--51651540	48	2.0	48	98	0	187	36	7	19	36	1.79
51651515--51651551	14	2.8	13	88	8	56	43	5	13	37	1.67
51651807--51652048	67	3.6	68	83	7	294	19	21	17	42	1.90
51651807--51652048	35	7.1	35	84	5	307	19	21	17	42	1.90
51651807--51652038	102	2.3	102	95	0	410	18	22	17	40	1.91
51664021--51664047	13	2.1	13	100	0	54	59	0	0	40	0.98
51665459--51665530	32	2.2	34	80	16	89	63	2	5	27	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51665879--51666032	82	1.9	82	81	5	186	48	8	6	37	1.60
51666885--51666909	2	12.5	2	100	0	50	48	0	0	52	1.00
51669958--51670031	38	1.9	38	86	8	105	29	22	9	37	1.86
51674303--51674424	48	2.5	48	74	2	120	38	18	16	27	1.91
51675036--51675096	29	2.1	29	96	0	113	16	29	36	18	1.92
51679834--51679886	27	2.0	27	81	7	63	33	9	13	43	1.76
51683011--51683058	25	1.9	25	91	0	78	47	6	12	33	1.66
51684319--51684357	19	2.0	21	90	10	64	10	12	0	76	1.01
51685465--51685524	26	2.4	25	75	5	59	38	8	3	50	1.49
51688616--51688674	27	2.2	27	90	3	93	16	16	23	42	1.89
51688715--51688866	27	5.4	27	72	14	119	21	17	18	43	1.88
51697058--51697212	53	2.9	53	82	0	202	38	13	20	27	1.90
51697341--51697544	28	7.3	27	68	18	96	30	14	25	28	1.95
51697330--51697544	56	3.8	55	78	9	202	32	14	25	27	1.95
51697330--51697419	28	3.2	28	73	16	87	37	11	24	26	1.89
51697494--51697578	31	2.9	28	77	10	82	30	20	25	23	1.98
51698269--51698360	5	18.8	5	95	4	170	58	0	0	41	0.98
51706711--51706760	22	2.3	22	100	0	100	28	32	0	40	1.57
51706819--51706869	10	4.9	11	76	11	54	31	0	0	68	0.90
51706806--51706869	30	2.1	31	94	2	112	34	0	0	65	0.93
51707949--51707973	7	3.6	7	100	0	50	28	0	12	60	1.32
51708625--51708659	18	1.9	18	88	0	52	25	34	8	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51711196--51711534	126	2.7	124	90	2	534	33	20	15	30	1.94
51711916--51712002	45	1.9	45	92	0	147	33	26	17	22	1.96
51712006--51712198	51	3.8	50	79	3	217	30	27	18	23	1.98
51712013--51712197	101	1.8	101	88	3	282	30	27	18	23	1.98
51722157--51722468	42	7.4	41	82	7	333	31	19	23	25	1.98
51722176--51722468	84	3.5	84	86	4	387	32	19	23	24	1.97
51722904--51722940	12	3.1	12	96	0	65	2	40	16	40	1.62
51722925--51722993	21	3.3	21	85	0	93	1	42	20	36	1.61
51726352--51726758	9	45.7	9	82	5	481	33	1	16	48	1.55
51726361--51726758	54	7.6	54	85	9	531	33	1	16	48	1.55

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   207   208   
          209   210