genome.fa.s6.2.7.7.80.10.50.1000.119.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  119  of  168  ( 20060 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)
34565937--34565989	27	2.0	27	100	0	106	26	30	24	18	1.98
34573309--34573613	103	3.0	103	92	2	488	31	26	20	20	1.98
34574679--34574712	11	2.8	12	91	8	52	35	8	11	44	1.72
34588051--34588091	13	3.2	12	83	10	55	56	2	2	39	1.26
34592032--34592060	14	2.1	14	100	0	58	37	6	20	34	1.80
34600611--34600700	39	2.3	40	81	11	105	20	26	27	25	1.99
34607131--34607184	2	27.0	2	100	0	108	50	0	0	50	1.00
34610595--34610652	29	2.0	29	100	0	116	34	27	10	27	1.89
34617228--34617272	15	2.8	17	80	13	58	64	0	35	0	0.94
34621716--34621936	111	2.0	111	82	5	268	23	25	25	25	2.00
34629938--34630133	103	1.9	103	82	2	250	34	16	23	25	1.95
34633470--34633535	20	3.1	22	78	12	66	57	1	0	40	1.08
34633482--34633511	16	1.9	15	93	6	51	63	0	0	36	0.95
34633466--34633568	29	3.4	29	74	23	90	59	1	0	38	1.09
34633487--34633567	10	8.4	9	78	15	58	56	2	0	40	1.12
34633986--34634018	16	1.9	18	88	11	52	30	0	3	66	1.06
34634082--34634130	25	1.9	26	83	4	64	28	2	4	65	1.22
34634094--34634132	17	2.4	16	82	4	51	23	0	5	71	1.05
34634377--34634406	2	15.0	2	100	0	60	50	0	0	50	1.00
34638874--34638905	16	2.1	16	94	5	57	28	0	0	71	0.86
34640420--34640449	15	1.9	16	93	6	53	36	0	13	50	1.42
34641283--34641335	10	5.3	10	81	0	61	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34641269--34641363	30	3.2	30	95	3	165	35	0	0	64	0.94
34643003--34643071	25	2.7	25	88	2	102	47	2	10	39	1.52
34643067--34643203	18	7.7	18	68	22	76	45	29	0	24	1.59
34643092--34643422	29	11.8	29	78	11	311	44	28	0	27	1.55
34643074--34643232	47	3.5	47	85	10	240	44	30	0	25	1.59
34643107--34643243	41	3.2	41	83	12	195	43	33	0	22	1.54
34643136--34643167	6	5.5	6	92	7	57	37	46	0	15	1.46
34643162--34643203	18	2.3	18	100	0	84	47	26	0	26	1.52
34643296--34643337	18	2.3	18	91	0	66	47	21	0	30	1.51
34643180--34643603	75	5.5	73	83	9	383	45	26	0	28	1.54
34643417--34643602	29	7.3	27	71	25	138	45	26	0	28	1.54
34643400--34643478	17	4.9	17	69	20	71	46	22	0	30	1.52
34643369--34643507	46	3.0	45	95	1	224	46	24	0	28	1.53
34643492--34643582	46	2.0	46	95	0	164	46	25	0	28	1.53
34643521--34643561	17	2.3	18	91	4	66	46	24	0	29	1.53
34643598--34643844	55	4.3	55	80	14	300	38	10	5	45	1.63
34643707--34643741	18	1.9	18	94	0	61	37	8	2	51	1.47
34643763--34643862	10	9.5	10	70	21	71	41	10	4	45	1.56
34643707--34643854	65	2.3	64	88	8	210	38	9	4	47	1.57
34646969--34647316	124	2.8	124	92	1	583	31	20	16	31	1.95
34661167--34661307	41	3.4	41	86	0	192	24	22	21	31	1.99
34661630--34661671	2	21.0	2	95	0	75	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34666630--34666836	46	4.6	46	92	2	341	29	22	14	32	1.94
34670572--34670638	35	1.9	34	85	8	91	23	13	19	43	1.86
34674252--34674284	15	2.2	15	94	0	57	0	30	27	42	1.56
34678334--34678608	67	4.1	67	81	3	311	26	23	18	32	1.97
34678339--34678601	134	2.0	134	84	4	352	25	22	19	33	1.97
34683063--34683099	19	1.9	19	100	0	74	24	32	5	37	1.78
34685473--34685514	15	2.8	15	88	0	66	42	23	33	0	1.55
34686564--34686670	39	2.8	38	91	2	178	52	26	1	19	1.56
34686802--34686864	17	3.5	17	69	12	54	34	3	12	49	1.57
34686799--34686873	37	2.0	37	94	0	132	36	4	14	45	1.64
34687526--34687569	21	2.0	22	86	4	63	63	4	27	4	1.33
34691119--34691160	3	13.7	3	85	14	59	30	2	0	66	1.04
34691287--34691320	17	2.0	17	88	0	50	35	11	2	50	1.54
34691915--34692172	98	2.6	97	86	6	272	29	10	22	37	1.87
34691978--34692174	98	2.0	98	96	0	367	27	10	24	37	1.88
34693759--34693916	39	3.9	39	78	13	160	23	12	6	58	1.56
34695008--34695034	14	1.9	14	100	0	54	11	22	0	66	1.22
34705425--34705464	14	2.9	14	84	0	53	47	17	2	32	1.61
34705390--34705456	34	1.9	35	93	3	118	50	13	4	31	1.61
34706242--34706284	15	2.8	16	82	10	54	2	30	20	46	1.63
34719961--34719989	15	1.9	15	100	0	58	17	20	13	48	1.81
34720103--34720165	31	2.0	31	100	0	126	31	36	6	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34724310--34724359	20	2.5	20	77	3	57	42	0	32	26	1.56
34724945--34724983	14	2.8	14	92	0	60	64	10	2	23	1.37
34728278--34728325	24	2.0	24	87	0	69	29	10	12	47	1.74
34732682--34732709	13	2.2	13	100	0	56	39	10	28	21	1.87
34733113--34733150	20	1.9	20	94	0	67	39	0	10	50	1.37
34733112--34733150	8	4.9	8	90	0	51	41	0	10	48	1.37
34734106--34734135	11	2.7	11	89	0	51	83	6	6	3	0.90
34734636--34734672	17	2.2	17	90	9	58	54	0	0	45	1.00
34738788--34739102	168	1.9	168	86	2	454	28	11	15	45	1.80
34745938--34745989	24	2.2	24	82	6	61	69	5	3	21	1.26
34753594--34753754	2	82.0	2	67	12	57	39	6	1	52	1.36
34754040--34754066	3	9.0	3	100	0	54	33	0	0	66	0.92
34754636--34754680	22	2.0	22	83	8	56	51	8	2	37	1.46
34760252--34760367	51	2.3	51	80	7	121	57	6	5	30	1.47
34760626--34760674	3	16.3	3	85	8	64	67	2	0	30	1.02
34760655--34760686	12	2.7	12	95	0	55	71	6	0	21	1.07
34760625--34760686	27	2.3	27	83	5	72	66	3	0	30	1.08
34760900--34760938	19	2.0	21	85	10	55	69	5	10	15	1.34
34761135--34761189	21	2.6	21	94	0	101	38	9	10	41	1.72
34761110--34761184	21	3.5	20	81	12	78	38	12	9	40	1.75
34763504--34763573	29	2.4	29	78	4	70	48	0	4	47	1.21
34767884--34767977	47	2.0	47	97	0	179	36	8	24	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34772038--34772095	29	2.0	30	86	10	84	60	0	3	36	1.14
34773125--34773165	21	2.0	21	90	0	64	24	19	29	26	1.98
34774017--34774093	38	2.0	39	97	2	147	11	20	20	46	1.82
34777283--34777337	28	2.0	28	85	7	76	41	7	16	34	1.76
34782369--34782492	56	2.2	57	84	4	171	27	28	24	20	1.99
34783524--34783640	25	4.7	25	79	4	119	34	18	25	21	1.96
34783519--34783618	50	2.0	50	86	0	137	36	19	25	20	1.95
34783519--34783640	50	2.4	49	81	5	136	35	18	25	20	1.95
34786654--34786761	25	4.3	25	81	0	108	18	28	16	36	1.93
34786652--34786761	50	2.2	50	82	8	125	19	28	16	36	1.93
34786654--34786777	25	5.0	25	80	2	90	19	27	18	34	1.95
34787490--34787600	2	55.5	2	94	0	195	48	48	1	0	1.18
34788164--34788303	40	3.5	40	74	6	133	32	23	17	27	1.96
34789231--34789295	4	15.0	4	76	17	51	29	4	0	66	1.12
34789231--34789295	9	7.5	8	73	21	51	29	4	0	66	1.12
34789231--34789299	22	3.0	23	82	16	72	28	5	0	65	1.16
34789250--34789295	14	3.4	14	76	8	51	32	2	0	65	1.05
34789244--34789298	26	2.1	27	86	10	78	29	5	0	65	1.15
34789253--34789306	26	2.1	25	86	3	72	35	3	0	61	1.14
34789263--34789320	26	2.2	26	81	6	64	39	5	1	53	1.33
34791212--34792053	45	18.4	44	72	10	476	28	18	17	35	1.94
34791459--34792053	140	4.3	140	78	6	567	28	19	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34791689--34791786	51	1.9	51	82	0	124	28	17	17	36	1.92
34800863--34800896	16	2.2	16	89	5	52	8	0	8	82	0.85
34800856--34800897	14	2.9	14	76	16	50	11	0	9	78	0.96
34801222--34801519	165	1.8	163	80	5	359	42	7	7	42	1.60
34818413--34818448	2	18.0	2	100	0	72	50	0	0	50	1.00
34820904--34820977	28	2.6	28	91	0	121	39	28	6	25	1.81
34820902--34820977	14	5.4	14	69	12	57	38	27	7	26	1.84
34823155--34823229	29	2.6	30	68	10	75	56	0	0	44	0.99
34823415--34823502	44	2.0	44	86	8	124	37	6	20	35	1.79
34826974--34827044	19	3.7	19	88	0	115	38	12	9	39	1.77

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