genome.fa.s6.2.7.7.80.10.50.1000.55.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  55  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)
15567125--15567188	28	2.3	27	76	7	65	29	25	25	20	1.99
15567373--15567572	32	6.3	32	81	2	224	37	20	20	22	1.94
15567789--15567832	23	1.9	23	95	0	79	43	27	6	22	1.78
15567848--15568411	27	21.1	27	82	4	527	20	20	21	37	1.95
15567848--15568411	80	7.0	80	82	5	466	20	20	21	37	1.95
15571612--15571644	14	2.4	14	94	0	57	18	15	15	51	1.77
15574159--15574209	13	3.9	13	80	10	68	37	27	5	29	1.80
15582953--15584460	138	11.0	138	86	3	1944	39	7	7	45	1.61
15582953--15584460	275	5.5	274	85	4	1930	39	7	7	45	1.61
15584099--15584312	67	3.1	67	62	18	152	42	8	7	41	1.64
15589389--15589650	26	10.1	27	81	9	271	40	19	15	25	1.90
15590443--15590483	19	2.3	18	87	8	57	48	19	2	29	1.61
15590452--15590493	19	2.2	20	91	4	68	38	21	2	38	1.67
15601544--15601579	18	2.0	18	100	0	72	27	27	22	22	1.99
15602220--15602407	26	7.2	26	79	5	202	38	19	16	25	1.92
15602223--15602452	52	4.4	53	79	11	217	39	19	15	25	1.91
15602632--15602683	27	1.9	27	84	0	68	21	23	23	32	1.98
15609918--15609961	12	3.7	12	87	9	63	70	6	9	13	1.33
15610974--15611018	24	1.9	23	86	13	65	71	2	17	8	1.23
15611090--15611128	18	2.3	18	86	8	55	69	2	15	12	1.30
15616209--15616470	26	10.0	26	75	3	213	40	18	15	25	1.90
15616212--15616476	52	5.1	52	82	5	268	41	18	15	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15620730--15620812	25	3.3	24	75	6	69	22	19	24	33	1.97
15634360--15634646	50	5.8	50	86	1	344	21	28	21	28	1.99
15637256--15637385	32	4.1	32	97	0	251	35	6	3	54	1.43
15639386--15639660	33	8.1	33	69	24	180	32	29	21	17	1.95
15639386--15639636	102	2.4	103	93	0	423	32	29	20	17	1.96
15639599--15639669	33	2.2	33	92	0	115	39	30	18	11	1.86
15645125--15645194	35	2.0	35	97	0	131	42	24	2	30	1.69
15646713--15647080	102	3.6	102	88	0	574	30	29	20	18	1.97
15649753--15649788	15	2.4	15	90	0	54	36	36	19	8	1.82
15656513--15656569	25	2.3	25	78	0	69	22	21	28	28	1.99
15658583--15658638	27	2.1	27	90	6	87	46	14	23	16	1.83
15658627--15658988	27	13.5	27	86	1	478	32	19	23	24	1.97
15659131--15659190	27	2.3	26	75	16	61	20	21	21	36	1.95
15659239--15659472	32	7.3	32	80	4	186	20	20	20	38	1.93
15659236--15659473	96	2.5	95	74	4	219	19	20	21	39	1.93
15659465--15659529	22	3.0	21	76	13	69	18	18	18	44	1.87
15659523--15659574	26	2.0	26	88	0	77	19	30	17	32	1.95
15661779--15661850	28	2.5	29	80	8	85	30	6	12	50	1.66
15661779--15661859	29	2.8	30	79	7	87	32	6	12	49	1.65
15664271--15664326	29	2.0	28	89	3	85	32	1	8	57	1.40
15664311--15664348	18	2.1	18	85	9	51	34	0	0	65	0.93
15666108--15666157	21	2.4	21	70	12	50	28	6	24	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15667346--15667386	20	2.0	20	86	9	57	14	26	21	36	1.93
15680010--15680183	51	3.5	50	74	9	151	27	21	21	29	1.99
15680055--15680144	46	2.0	46	88	0	135	30	18	18	32	1.96
15680010--15680253	97	2.5	98	85	2	305	27	23	18	29	1.98
15697586--15697647	7	9.0	7	82	8	74	66	0	19	14	1.26
15697586--15697647	20	3.0	21	86	6	74	66	0	19	14	1.26
15697587--15697644	13	4.3	13	84	6	71	67	0	18	13	1.23
15698927--15699063	42	3.2	43	63	17	102	29	24	21	24	1.99
15698867--15699378	87	5.9	87	90	0	754	28	23	23	24	1.99
15699592--15699737	50	2.9	51	74	3	143	32	23	20	23	1.98
15700363--15700398	13	2.7	13	91	4	54	80	2	13	2	0.93
15709045--15709835	394	2.0	394	88	2	1162	35	12	18	33	1.89
15712281--15712305	13	1.9	13	100	0	50	72	16	8	4	1.24
15714727--15714763	13	2.6	15	87	8	51	18	0	5	75	0.99
15722656--15722705	25	2.0	25	92	0	82	32	12	16	40	1.84
15723768--15723798	16	2.0	16	93	6	55	19	6	19	54	1.65
15726708--15726789	29	2.8	30	66	17	73	30	9	13	46	1.75
15728104--15728151	13	3.6	13	80	2	60	75	6	4	14	1.16
15728192--15728242	12	3.8	13	90	10	77	72	0	7	19	1.08
15728192--15728242	13	3.8	13	85	12	68	72	0	7	19	1.08
15739036--15739126	39	2.3	39	92	0	146	47	20	3	28	1.66
15742788--15743028	49	4.7	50	80	7	211	26	22	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15763458--15763826	103	3.6	103	93	1	614	33	29	19	17	1.95
15768296--15768508	77	2.8	74	87	4	282	23	17	26	32	1.97
15769424--15769476	23	2.3	23	93	0	97	32	26	20	20	1.98
15776157--15776289	46	2.9	46	85	0	158	33	24	18	24	1.97
15778533--15778572	21	1.9	21	100	0	80	52	5	20	22	1.65
15778526--15778552	14	1.9	14	100	0	54	48	7	22	22	1.75
15785267--15785331	32	2.1	32	97	2	123	47	12	9	30	1.72
15787613--15787675	23	2.5	25	73	24	60	55	0	0	44	0.99
15787764--15787892	64	2.0	64	92	0	213	38	14	5	41	1.69
15788721--15789136	126	3.3	125	92	0	670	32	19	21	27	1.97
15792032--15792241	116	1.8	116	86	2	305	47	4	6	41	1.48
15792436--15792482	21	2.2	21	84	0	58	14	19	31	34	1.92
15792821--15792886	30	2.2	30	82	15	75	9	15	42	33	1.78
15793386--15793411	7	3.7	7	100	0	52	57	15	0	26	1.38
15794549--15794573	10	2.5	10	100	0	50	76	0	0	24	0.80
15794552--15794613	30	2.1	30	90	6	99	58	1	3	37	1.24
15794613--15794638	11	2.4	11	100	0	52	38	0	38	23	1.55
15803333--15803381	24	2.0	24	100	0	98	48	18	4	28	1.66
15803958--15803995	19	2.0	19	100	0	76	21	36	10	31	1.87
15804451--15804625	68	2.6	68	87	0	242	23	21	17	37	1.94
15805069--15805509	29	15.4	29	80	8	412	39	21	14	24	1.91
15808306--15808413	41	2.6	42	91	1	173	29	21	25	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15808306--15808538	42	5.6	40	80	7	207	27	18	24	30	1.98
15808309--15808543	84	2.8	85	82	5	273	26	19	24	30	1.98
15811209--15811238	15	2.0	15	93	0	51	36	20	3	40	1.69
15826618--15826748	50	2.6	50	81	0	136	29	24	27	19	1.98
15832863--15833093	50	4.5	50	79	4	196	27	21	27	22	1.99
15837419--15837456	19	2.0	19	85	10	51	13	21	44	21	1.85
15837678--15837927	27	9.3	27	77	8	138	40	23	16	20	1.91
15837673--15837928	54	4.8	54	75	9	220	39	23	16	20	1.91
15837705--15837928	81	2.8	80	79	8	240	40	22	16	20	1.91
15846690--15846718	6	4.8	6	100	0	58	17	31	0	51	1.45
15848177--15848219	21	2.0	21	100	0	86	37	4	23	34	1.76
15857681--15857789	24	4.6	24	80	6	116	49	4	24	21	1.68
15865422--15865483	24	2.7	23	85	5	88	46	3	25	24	1.67
15865422--15865490	24	2.9	23	80	6	84	46	4	26	23	1.71
15869527--15869568	20	2.1	20	95	0	75	76	7	0	16	1.00
15870311--15870757	44	10.2	44	67	11	216	27	25	17	28	1.98
15870271--15870755	132	3.7	132	92	0	781	28	25	17	27	1.98
15870734--15871508	44	17.5	44	77	1	722	27	23	16	32	1.96
15870734--15871542	89	9.1	89	91	0	1185	27	23	17	32	1.96
15875149--15875194	24	1.9	24	82	8	58	41	6	21	30	1.78
15875225--15875250	13	2.0	13	100	0	52	46	15	7	30	1.74
15878116--15878157	20	2.1	20	95	0	75	76	7	0	16	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15883147--15883212	29	2.3	28	79	7	71	27	13	10	48	1.75
15887525--15887590	30	2.3	28	76	7	69	51	0	3	45	1.16
15888288--15888353	26	2.5	26	78	9	73	31	3	1	63	1.19
15891614--15891704	48	1.9	47	88	2	137	39	28	13	18	1.88
15891675--15891714	21	1.9	21	84	0	53	40	27	12	20	1.88
15891920--15891957	15	2.4	16	82	4	51	31	23	10	34	1.89
15893944--15893974	16	1.9	16	93	0	53	61	22	3	12	1.46
15894164--15894208	22	2.0	22	87	8	65	51	20	0	28	1.48
15897079--15897160	26	3.2	25	75	16	78	31	25	15	26	1.96
15897094--15897163	25	2.8	25	83	12	90	34	24	17	24	1.96

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