genome.fa.s12.2.7.7.80.10.50.1000.84.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  84  of  120  ( 14336 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)
25029703--25029796	19	4.7	21	87	11	135	37	8	13	40	1.76
25029702--25029796	40	2.4	38	91	5	145	36	8	14	40	1.77
25030962--25031003	19	2.2	20	86	4	59	33	7	9	50	1.62
25031245--25031439	98	2.0	98	95	0	354	28	10	24	36	1.89
25033813--25033850	11	3.5	11	85	7	51	47	2	2	47	1.30
25033788--25033907	50	2.4	49	84	6	143	59	0	1	38	1.13
25033829--25033943	40	2.9	40	87	6	162	60	1	2	34	1.20
25036528--25036577	3	16.7	3	100	0	100	68	0	0	32	0.90
25037229--25037300	30	2.4	30	81	4	83	0	30	5	63	1.17
25038917--25038958	22	1.9	22	85	0	57	54	2	2	40	1.26
25054423--25054505	42	2.0	42	90	0	130	27	21	24	26	1.99
25063083--25063116	17	1.9	17	88	5	50	70	0	29	0	0.87
25063083--25063128	18	2.5	18	85	3	56	67	0	32	0	0.91
25069922--25069946	13	1.9	13	100	0	50	20	16	32	32	1.94
25073749--25073991	50	4.8	50	93	0	405	20	31	23	25	1.98
25074086--25074116	13	2.4	13	94	0	53	54	12	0	32	1.38
25079096--25079158	29	2.2	29	82	5	74	20	23	4	50	1.67
25079086--25079146	29	2.1	29	100	0	122	16	24	3	55	1.56
25081334--25081576	50	4.8	50	93	0	405	20	31	23	25	1.98
25081671--25081701	13	2.4	13	94	0	53	54	12	0	32	1.38
25083152--25083253	43	2.4	43	96	0	186	18	25	34	21	1.96
25083933--25084002	35	2.0	35	94	0	122	48	8	12	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25092000--25092146	73	2.0	73	98	0	285	28	25	14	31	1.95
25092334--25092543	104	2.0	104	97	0	393	33	21	10	33	1.89
25097119--25097190	25	2.9	25	83	4	92	31	19	25	23	1.98
25097528--25097569	21	2.0	21	85	0	57	40	21	0	38	1.53
25097939--25098070	68	2.0	66	90	3	210	54	11	8	25	1.64
25099145--25099240	49	2.0	49	100	0	192	21	19	18	39	1.92
25106197--25106262	3	22.0	3	100	0	132	33	0	0	66	0.92
25108470--25108613	74	2.0	73	88	1	216	34	16	19	29	1.94
25110326--25110371	23	2.0	23	86	0	65	36	8	2	52	1.45
25111608--25111700	3	31.3	3	75	6	82	63	4	4	27	1.32
25112510--25112548	6	6.2	6	85	8	51	79	0	2	17	0.84
25117459--25117483	11	2.3	11	100	0	50	24	8	20	48	1.76
25128931--25129003	32	2.5	27	74	19	83	26	2	17	53	1.57
25128944--25129004	32	1.9	32	93	0	104	27	3	16	52	1.59
25130287--25130333	20	2.3	21	92	7	80	48	17	10	23	1.77
25143051--25143094	20	2.2	20	83	4	52	59	0	2	38	1.10
25146277--25146664	50	8.2	49	64	22	116	27	18	18	35	1.94
25146280--25146606	94	3.5	94	82	3	363	27	18	18	36	1.94
25146435--25146647	94	2.3	92	88	3	311	29	17	17	34	1.94
25146478--25146647	48	3.6	48	72	16	165	30	17	17	35	1.92
25146830--25147003	44	3.8	44	70	18	124	28	20	18	32	1.96
25146770--25147436	94	7.1	94	82	3	684	29	18	18	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25146771--25147439	282	2.4	281	82	5	832	29	18	18	33	1.95
25155789--25155830	19	2.3	18	87	4	57	33	7	9	50	1.62
25159312--25159343	17	1.9	16	93	6	55	21	0	12	65	1.25
25164631--25164710	29	2.7	29	84	3	88	30	10	20	40	1.85
25165308--25165355	22	2.3	20	82	13	53	20	0	22	56	1.43
25170823--25170890	25	2.7	26	82	11	79	20	27	16	35	1.94
25171561--25171611	25	2.0	25	100	0	102	37	3	23	35	1.74
25173710--25173804	26	3.7	26	74	17	81	38	17	23	20	1.93
25177164--25177762	312	1.9	311	92	2	1015	27	11	22	38	1.89
25182807--25182843	18	2.1	18	94	0	65	29	13	10	45	1.77
25194846--25194971	55	2.3	56	88	1	191	30	11	25	31	1.92
25194846--25194970	28	4.5	28	90	2	189	30	12	25	32	1.92
25195142--25195180	2	20.0	2	94	5	71	51	0	0	48	1.00
25195744--25196924	93	12.7	93	93	1	1199	27	15	18	38	1.91
25195744--25197070	23	57.0	23	71	10	640	27	14	18	39	1.90
25195862--25197040	116	10.1	116	71	13	472	27	14	18	39	1.90
25196913--25197070	47	3.4	47	83	0	210	29	11	16	42	1.83
25197065--25197101	2	18.5	2	100	0	74	48	0	0	51	1.00
25196795--25197070	116	2.4	115	89	3	331	28	13	17	40	1.88
25198166--25198216	20	2.6	19	84	9	66	45	15	13	25	1.83
25198435--25198477	22	1.9	23	85	4	61	39	13	2	44	1.57
25201577--25201675	30	3.5	29	73	19	84	53	3	3	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25201626--25201670	16	2.7	18	77	16	53	62	2	2	33	1.20
25202869--25202905	3	12.3	3	100	0	74	0	32	0	67	0.91
25204599--25204758	29	5.3	29	70	8	131	27	25	12	35	1.92
25204598--25204736	32	4.5	31	71	11	108	26	25	11	36	1.90
25204598--25204758	61	2.6	61	88	0	250	27	24	12	34	1.92
25208111--25208200	19	4.5	18	72	22	65	30	2	1	66	1.11
25208105--25208200	10	9.4	10	72	20	65	31	2	1	65	1.11
25208154--25208209	29	1.9	29	82	7	69	25	7	0	67	1.15
25208182--25208231	25	2.0	25	81	14	59	32	8	0	60	1.26
25220036--25220320	142	2.0	142	99	0	561	38	16	14	31	1.88
25237494--25237520	3	9.0	3	100	0	54	66	0	33	0	0.92
25237884--25237926	22	2.0	22	86	9	61	32	2	20	44	1.65
25244213--25244251	20	2.0	20	90	10	62	48	15	5	30	1.66
25257436--25257477	21	2.0	21	85	0	57	42	9	11	35	1.74
25257564--25257605	21	2.0	21	81	9	50	42	9	7	40	1.65
25261892--25261922	16	1.9	16	93	0	53	25	16	25	32	1.96
25267407--25267506	50	2.0	49	88	7	150	28	16	9	47	1.76
25279538--25279595	21	2.8	21	86	0	80	27	13	27	31	1.94
25283027--25283065	18	2.1	19	85	4	53	33	2	2	61	1.23
25284644--25284712	33	2.1	32	81	7	77	62	2	4	30	1.29
25285568--25285687	60	2.0	60	81	0	141	26	15	25	32	1.96
25287394--25287437	19	2.3	19	80	7	54	25	4	6	63	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25288873--25288912	21	1.9	21	85	10	55	45	7	7	40	1.61
25289167--25289228	27	2.3	27	94	0	106	40	0	0	59	0.97
25289174--25289228	10	5.9	10	73	14	55	41	0	0	58	0.98
25289220--25289259	21	1.9	21	89	0	62	37	2	0	60	1.11
25289219--25289277	22	2.8	21	80	14	59	40	1	3	54	1.27
25293659--25293718	30	2.0	31	86	3	86	21	38	0	40	1.54
25294478--25294503	5	5.2	5	100	0	52	19	19	19	42	1.90
25295549--25295661	43	2.6	44	84	1	156	24	18	25	30	1.98
25303385--25303592	43	4.9	43	79	9	203	23	15	27	33	1.95
25303428--25303595	85	2.0	84	81	9	198	23	16	27	32	1.96
25305776--25305857	30	2.7	30	88	0	119	36	20	17	25	1.94
25310530--25310762	40	5.9	38	76	7	153	33	16	28	21	1.95
25310573--25310764	80	2.4	80	91	1	296	34	15	28	21	1.94
25310573--25310764	40	4.8	39	81	5	233	34	15	28	21	1.94
25323765--25323949	40	4.6	40	79	6	196	34	18	28	18	1.95
25323765--25323949	80	2.3	80	82	3	221	34	18	28	18	1.95
25333828--25334045	27	8.1	27	85	0	265	41	23	18	16	1.89
25341764--25341807	22	2.0	22	95	0	79	22	15	36	25	1.94
25341770--25341820	22	2.3	22	86	0	66	27	17	35	19	1.94
25350717--25350826	54	2.0	54	100	0	220	45	18	12	23	1.83
25350986--25351080	40	2.4	40	81	0	109	33	20	21	25	1.97
25355239--25355282	19	2.3	19	84	7	54	50	6	18	25	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25356393--25356553	40	4.0	40	84	1	198	34	13	31	21	1.92
25357301--25357344	22	2.0	21	86	4	61	25	6	2	65	1.28
25360805--25360852	20	2.4	20	85	0	78	10	29	20	39	1.86
25361960--25362013	20	2.7	20	88	2	72	44	16	9	29	1.79
25364709--25364940	42	5.5	41	75	7	205	24	15	25	35	1.94
25364709--25364909	43	4.7	42	77	7	201	23	16	24	34	1.95
25364709--25364943	85	2.8	85	88	0	319	24	15	24	35	1.94
25368578--25368632	19	3.2	17	74	20	51	76	0	3	20	0.94
25373810--25373933	41	3.0	41	88	1	196	40	19	23	16	1.91
25373810--25373960	81	1.9	80	89	8	234	41	19	23	15	1.90

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