genome.fa.s6.2.7.7.80.10.50.1000.151.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  151  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)
44634273--44634311	19	2.1	19	85	0	51	38	2	0	58	1.12
44643044--44643069	7	3.7	7	100	0	52	15	11	0	73	1.11
44644306--44644348	20	2.1	21	86	4	61	41	0	0	58	0.98
44653664--44653742	9	8.8	9	81	4	88	36	18	11	32	1.87
44653657--44653742	18	4.8	18	85	0	100	38	18	10	32	1.85
44653657--44653742	27	3.2	27	84	0	109	38	18	10	32	1.85
44653858--44653892	13	2.7	13	95	0	61	11	0	45	42	1.40
44659704--44659775	35	2.1	35	100	0	144	41	11	8	38	1.71
44662035--44662069	18	1.9	17	88	11	52	71	5	0	22	1.07
44662907--44663025	58	2.1	56	87	6	177	70	10	10	9	1.34
44663325--44663374	15	3.3	15	83	8	57	8	10	44	38	1.68
44663795--44664036	41	5.7	41	69	11	164	27	24	20	27	1.99
44663889--44664124	43	5.4	43	72	11	167	27	22	22	28	1.99
44663833--44664129	87	3.4	87	74	6	314	27	23	20	28	1.99
44663916--44664035	46	2.7	46	82	6	133	27	25	20	26	1.99
44663788--44664130	174	2.0	174	94	0	605	26	23	20	29	1.99
44678579--44678783	107	1.9	107	89	4	315	39	4	20	36	1.74
44679819--44679861	3	14.3	3	100	0	86	0	0	32	67	0.91
44682355--44682379	2	12.5	2	100	0	50	52	0	0	48	1.00
44703017--44703215	99	2.0	99	96	0	362	26	16	17	39	1.90
44706652--44706717	20	3.4	18	73	12	51	28	0	4	66	1.11
44706652--44706703	19	2.7	19	85	8	61	28	0	3	67	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44713096--44713148	22	2.4	21	78	6	52	69	1	7	20	1.22
44716879--44716919	11	3.7	11	80	0	55	60	9	9	19	1.55
44717852--44717905	28	1.9	28	85	7	74	37	5	11	46	1.63
44718294--44718378	2	43.0	2	93	6	147	50	0	1	48	1.08
44718500--44718911	2	206.0	2	91	1	639	47	1	2	47	1.26
44722556--44722742	43	4.3	43	85	8	213	29	21	23	24	1.99
44723179--44723240	12	5.2	12	96	0	88	8	35	14	41	1.75
44723229--44723269	21	2.0	21	85	0	55	4	46	14	34	1.66
44728727--44728939	9	24.2	9	70	15	151	31	1	20	46	1.61
44728772--44728810	19	2.1	19	85	9	53	30	0	17	51	1.46
44728791--44728910	25	4.7	25	83	4	141	30	0	20	47	1.56
44729052--44729092	13	2.8	15	85	14	59	34	0	19	46	1.50
44729051--44729129	16	5.0	16	76	13	74	34	1	16	48	1.55
44729181--44729227	21	2.2	21	85	7	60	55	2	2	40	1.24
44729188--44729228	21	2.0	21	90	4	66	53	0	2	43	1.13
44729177--44729230	20	2.5	22	76	17	58	55	1	1	40	1.21
44734412--44734610	41	4.9	40	72	4	137	34	23	24	18	1.96
44734451--44734608	82	1.9	82	85	0	217	35	23	23	17	1.95
44735159--44735235	29	2.6	29	83	4	91	48	14	12	24	1.79
44742742--44742787	15	3.1	14	84	9	56	34	15	2	47	1.57
44749308--44749362	5	11.0	5	100	0	110	60	0	0	40	0.97
44750860--44750889	6	4.8	6	95	4	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44752179--44752222	19	2.3	19	88	0	61	56	27	2	13	1.49
44754636--44754694	31	1.9	31	93	3	102	54	0	10	35	1.34
44755222--44755275	25	2.3	23	77	20	58	35	0	3	61	1.14
44755740--44755872	60	2.2	60	90	1	203	32	1	10	55	1.43
44756169--44756279	53	2.1	54	86	1	152	45	13	9	30	1.76
44757138--44757205	35	1.9	35	90	0	109	23	7	4	64	1.37
44757138--44757194	18	3.2	18	73	14	64	26	5	1	66	1.22
44757140--44757196	17	3.3	17	69	13	53	26	5	1	66	1.22
44760431--44760588	43	3.7	43	82	9	200	31	27	18	22	1.97
44760419--44760576	84	1.9	84	86	5	230	30	28	18	22	1.98
44765097--44765138	10	4.2	10	84	9	59	0	26	0	73	0.83
44765097--44765138	15	2.8	15	88	0	66	0	26	0	73	0.83
44765138--44765165	5	5.6	5	100	0	56	17	39	0	42	1.50
44765500--44765526	2	13.5	2	100	0	54	0	0	48	51	1.00
44774091--44774132	20	2.0	20	86	4	57	45	0	4	50	1.23
44776316--44776351	2	18.0	2	94	0	63	47	0	0	52	1.00
44783945--44784028	41	2.1	40	95	4	152	46	13	13	27	1.79
44789664--44789835	40	4.5	40	78	19	197	62	0	2	34	1.08
44789712--44789762	9	5.4	9	77	9	57	74	0	0	25	0.82
44789712--44789763	10	5.4	10	76	15	56	75	0	0	25	0.81
44789701--44789774	28	2.5	30	93	6	125	67	0	1	31	0.99
44789664--44789834	70	2.4	71	85	6	249	63	0	2	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44789670--44789803	10	13.4	10	66	20	50	65	0	1	32	1.02
44789664--44789715	10	4.9	11	79	11	56	57	0	1	40	1.10
44794587--44794645	31	1.9	31	89	6	93	40	0	13	45	1.43
44794926--44794975	24	2.1	24	92	0	82	30	6	18	46	1.73
44798661--44798735	31	2.4	32	80	12	93	54	2	4	38	1.33
44798705--44798755	22	2.4	21	80	3	57	54	0	0	45	0.99
44801881--44801937	29	2.0	29	82	6	71	35	1	10	52	1.46
44805049--44805085	15	2.4	16	86	13	51	27	8	2	62	1.37
44807715--44807878	81	2.0	80	98	1	319	29	12	9	48	1.72
44807862--44808330	153	3.0	154	92	2	762	31	12	13	42	1.80
44810414--44810450	15	2.5	15	95	0	65	86	2	10	0	0.67
44818567--44818610	22	2.0	22	86	0	61	15	20	13	50	1.78
44826642--44826674	2	16.5	2	87	12	50	51	0	3	45	1.16
44843681--44843742	29	2.1	29	100	0	124	27	16	16	40	1.89
44855202--44855274	33	2.2	33	83	11	89	27	6	17	47	1.73
44859866--44859898	14	2.4	14	95	5	59	30	15	6	48	1.69
44871226--44871267	13	3.1	13	80	19	50	59	2	0	38	1.10
44875916--44876005	39	2.2	41	92	3	148	54	5	1	38	1.31
44877501--44877558	3	19.7	3	82	10	75	32	0	3	63	1.11
44878249--44878292	23	1.9	24	90	9	74	54	2	20	22	1.56
44878543--44878589	24	2.0	23	84	12	60	51	4	14	29	1.62
44878892--44878936	22	2.0	23	86	4	65	13	4	37	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44879121--44879215	47	2.0	47	97	0	181	33	1	14	50	1.50
44879430--44879480	2	25.5	2	91	0	84	49	0	1	49	1.12
44881733--44881806	11	6.6	11	76	3	58	64	6	1	27	1.26
44884482--44884506	13	1.9	13	100	0	50	76	8	0	16	1.02
44886823--44886884	24	2.7	22	77	15	63	61	4	3	30	1.33
44887098--44887148	25	2.0	27	84	7	70	45	1	5	47	1.38
44891115--44891145	6	5.2	6	100	0	62	64	16	0	19	1.29
44893295--44893319	12	2.1	12	100	0	50	8	8	52	32	1.60
44894182--44894532	170	2.1	170	89	1	533	30	17	19	31	1.95
44900016--44900092	14	5.0	15	71	20	52	42	14	9	33	1.77
44900032--44900071	20	2.0	20	90	0	62	50	12	10	27	1.72
44900020--44900086	34	1.9	35	90	3	109	46	13	8	31	1.74
44900317--44900393	36	2.1	36	100	0	154	29	6	10	53	1.60
44900317--44900407	36	2.5	36	91	3	121	29	6	12	51	1.64
44906072--44906120	23	2.1	23	88	7	73	44	2	6	46	1.39
44906333--44906370	20	1.9	20	88	0	58	39	0	2	57	1.12
44906586--44906617	16	2.0	16	100	0	64	62	12	18	6	1.50
44907485--44907585	41	2.6	37	78	7	112	25	13	25	34	1.93
44911627--44911680	24	2.2	24	100	0	108	22	20	7	50	1.73
44911670--44911712	19	2.2	20	84	12	63	32	18	0	48	1.48
44912066--44912119	18	3.1	17	81	7	72	35	20	0	44	1.52
44912069--44912134	18	3.7	17	75	20	64	36	19	0	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44912066--44912142	36	2.2	36	84	11	97	37	19	0	42	1.51
44912829--44912880	12	4.2	12	76	9	50	1	15	3	78	0.98
44913188--44913259	33	2.2	32	85	11	94	52	8	0	38	1.32
44913318--44913366	23	2.1	23	92	7	82	51	6	0	42	1.27
44913356--44913380	9	2.8	9	100	0	50	68	8	0	24	1.16
44913328--44913379	23	2.3	23	83	6	61	59	5	0	34	1.21
44920753--44920795	21	2.0	21	100	0	86	34	13	13	37	1.85
44923316--44923371	22	2.5	23	82	2	69	51	1	1	44	1.22
44923347--44923386	16	2.5	16	91	0	62	47	2	7	42	1.45
44923459--44923486	9	3.1	9	100	0	56	32	0	10	57	1.33

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