genome.fa.s12.2.7.7.80.10.50.1000.55.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: 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  55  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)
15473688--15473808	57	2.1	57	80	8	131	21	0	43	34	1.53
15473709--15473795	36	2.4	36	81	5	88	21	0	45	32	1.52
15473745--15473808	28	2.2	29	86	2	85	21	0	42	35	1.54
15473681--15473808	7	18.0	7	70	15	57	21	0	42	35	1.53
15474157--15474211	19	2.8	19	74	12	58	38	5	0	56	1.23
15474433--15474459	14	1.9	14	100	0	54	37	0	55	7	1.28
15478042--15478170	43	3.0	43	86	0	177	21	18	28	31	1.97
15481236--15481277	2	21.0	2	100	0	84	50	0	0	50	1.00
15486504--15492281	703	8.2	702	84	2	6772	34	13	22	30	1.92
15493690--15493719	14	2.1	14	100	0	60	46	6	13	33	1.69
15494801--15494831	16	1.9	16	93	0	53	51	3	0	45	1.17
15501156--15501402	50	4.8	50	80	3	235	23	27	20	28	1.99
15513211--15513246	17	2.2	17	95	5	65	41	25	13	19	1.88
15517429--15517467	19	2.1	19	95	0	69	35	25	7	30	1.84
15517864--15518102	40	6.0	40	74	8	166	36	17	27	17	1.93
15517862--15518088	80	2.8	80	77	9	194	37	17	28	15	1.91
15517864--15518086	120	1.9	120	80	3	261	37	17	28	16	1.91
15526252--15526788	27	20.0	27	82	8	465	19	16	21	43	1.89
15526251--15526787	81	6.7	81	82	3	609	19	16	21	43	1.89
15530119--15530204	39	2.2	39	91	0	136	16	32	17	33	1.92
15530132--15530196	20	3.3	20	70	12	62	16	38	16	27	1.91
15530119--15530231	39	2.9	39	84	5	113	17	31	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15534108--15534339	29	8.0	29	72	6	173	24	28	12	34	1.92
15534123--15534365	59	4.2	58	88	2	353	25	28	11	34	1.91
15534123--15534382	116	2.2	117	90	1	414	25	28	11	34	1.91
15535649--15535711	30	2.1	30	85	5	83	17	17	7	57	1.63
15542927--15544582	416	4.0	415	96	0	2981	29	20	10	39	1.85
15547894--15547931	18	2.2	18	90	9	62	21	5	2	71	1.19
15553576--15553801	27	8.4	27	83	2	258	41	18	16	23	1.90
15553650--15553854	27	7.6	27	81	4	83	37	18	19	25	1.94
15553792--15553897	53	2.0	53	83	10	137	33	16	22	27	1.96
15553792--15553895	26	3.9	27	82	2	113	33	17	22	26	1.96
15553955--15554049	24	4.0	24	85	0	136	26	6	23	44	1.77
15553958--15554087	24	5.4	23	82	9	95	24	6	23	45	1.76
15554203--15554260	26	2.2	26	78	0	62	22	20	22	34	1.97
15554259--15554429	32	5.4	32	82	6	204	22	19	19	38	1.93
15554257--15554431	64	2.7	65	86	5	241	22	20	19	38	1.94
15554421--15554471	22	2.4	22	83	3	59	19	17	17	45	1.86
15554687--15554751	33	2.0	33	84	0	85	23	24	16	35	1.95
15562502--15562654	22	7.0	22	90	0	225	26	26	14	32	1.94
15580156--15580222	33	2.0	33	100	0	134	17	26	2	52	1.59
15580453--15580696	50	4.9	50	83	2	260	22	27	21	28	1.99
15580501--15580744	100	2.4	103	84	4	296	22	27	22	27	1.99
15588393--15588454	31	2.0	31	96	0	115	43	12	17	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15588714--15588793	41	2.0	40	87	2	115	30	25	20	25	1.99
15592738--15592781	18	2.4	17	78	14	52	22	22	0	54	1.45
15599585--15599660	27	2.7	28	82	8	84	52	3	18	25	1.62
15599602--15599680	27	2.9	27	81	7	90	53	6	17	22	1.67
15609979--15610013	17	2.1	17	94	0	61	54	8	11	25	1.64
15614454--15615181	208	3.5	208	88	1	1041	30	18	21	29	1.97
15615900--15615944	7	6.3	7	82	5	54	24	2	37	35	1.68
15615899--15615944	15	3.1	15	79	17	60	23	2	39	34	1.67
15618643--15618722	9	8.9	9	70	15	58	45	16	1	37	1.55
15618660--15618690	16	1.9	16	100	0	62	45	22	0	32	1.53
15618723--15618779	19	3.2	19	76	19	68	42	0	1	56	1.10
15618786--15619213	18	22.4	20	65	22	120	50	18	0	30	1.53
15618862--15619334	9	54.0	9	68	16	156	49	18	1	30	1.56
15618868--15619332	34	14.1	34	71	15	201	49	18	1	30	1.56
15618862--15619034	96	1.8	95	96	1	319	53	17	1	27	1.53
15618968--15619332	25	14.3	26	77	11	253	48	19	1	30	1.56
15618952--15619332	16	22.2	17	74	16	251	48	19	1	30	1.55
15625244--15625554	43	7.3	43	82	3	315	29	18	25	26	1.98
15628484--15628527	20	2.2	20	84	8	54	70	6	0	22	1.11
15630186--15630215	11	2.7	11	94	0	51	43	0	26	30	1.55
15630406--15630444	20	1.9	21	84	5	53	38	2	28	30	1.70
15631706--15631751	23	2.0	22	83	4	56	50	0	2	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15648508--15648589	38	2.2	38	97	0	155	28	3	21	46	1.68
15648509--15648571	18	3.2	21	63	17	53	30	3	20	46	1.66
15662428--15662690	42	6.3	42	85	0	364	21	19	21	37	1.95
15663515--15663798	148	1.9	147	89	5	437	42	4	9	43	1.55
15663780--15663827	20	2.5	19	80	12	53	33	4	12	50	1.59
15670962--15671005	21	2.1	21	82	0	52	63	0	6	29	1.20
15671012--15671068	24	2.5	23	75	8	55	52	1	5	40	1.34
15671012--15671071	23	2.7	22	75	10	59	55	1	5	38	1.32
15671199--15671232	3	11.3	3	100	0	68	67	0	0	32	0.91
15671257--15671313	6	9.2	6	77	7	51	73	5	5	15	1.19
15672694--15673272	50	11.6	50	73	3	459	23	20	23	32	1.98
15672674--15673294	100	6.2	100	89	1	917	23	21	23	32	1.98
15673406--15673678	44	6.0	44	70	16	171	28	22	16	32	1.96
15673349--15673634	142	2.0	142	91	0	464	28	22	16	32	1.95
15673411--15673830	186	2.3	186	90	0	660	28	21	17	33	1.96
15675138--15675173	14	2.5	15	86	13	58	13	16	0	69	1.19
15676001--15676072	34	2.2	33	89	2	108	6	9	11	72	1.29
15675994--15676071	40	2.0	38	82	9	95	6	10	11	71	1.29
15680417--15680457	16	2.7	15	76	23	50	53	12	4	29	1.58
15680450--15680509	23	2.7	23	72	12	61	53	1	5	40	1.33
15680638--15680686	3	16.3	3	100	0	98	67	0	0	32	0.91
15680711--15680767	6	9.2	6	81	7	60	75	5	5	14	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15685809--15685841	15	2.2	15	94	0	57	63	12	9	15	1.51
15690480--15690566	43	2.0	43	95	0	156	29	9	22	37	1.86
15707273--15707542	134	2.0	134	93	0	459	27	27	12	31	1.93
15712212--15712263	28	1.9	27	92	7	88	26	26	25	21	1.99
15715194--15715263	26	2.7	26	88	0	95	25	27	24	22	2.00
15719927--15719988	32	2.0	32	87	9	92	56	22	0	20	1.42
15720608--15720652	19	2.4	19	80	0	54	13	53	8	24	1.68
15723859--15723890	2	16.0	2	100	0	64	50	0	0	50	1.00
15724154--15724183	2	15.0	2	100	0	60	50	0	0	50	1.00
15724697--15724735	19	2.1	19	85	9	53	46	0	2	51	1.14
15726405--15726441	2	18.5	2	100	0	74	51	0	0	48	1.00
15727217--15727328	35	3.1	35	68	14	111	26	11	8	53	1.64
15727231--15727341	36	3.1	36	67	14	111	27	10	8	54	1.63
15727214--15727364	72	2.1	72	97	0	284	29	12	7	50	1.68
15727231--15727348	37	3.3	36	67	18	102	28	11	7	51	1.66
15731118--15731159	21	2.0	21	85	0	57	26	19	26	28	1.98
15733349--15733415	34	2.0	34	84	0	89	37	17	11	32	1.87
15735566--15735592	1	27.0	1	100	0	54	0	0	0	100	0.00
15738506--15738581	27	2.8	27	89	0	116	22	26	27	23	1.99
15738664--15738727	4	15.5	4	78	18	69	73	0	23	3	0.97
15738660--15738727	22	3.0	22	86	4	91	70	0	26	2	1.01
15738667--15738727	18	3.6	17	77	14	65	73	0	22	3	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15738671--15738728	14	4.1	14	74	12	57	74	0	22	3	0.97
15742722--15742852	68	1.9	68	87	0	190	30	12	22	33	1.92
15742740--15743368	68	9.2	68	71	7	302	34	11	22	31	1.90
15742793--15743100	136	2.3	136	82	3	352	33	12	22	32	1.90
15742675--15743058	34	11.3	34	65	17	127	32	13	21	33	1.92
15742981--15743241	142	1.8	142	83	3	346	35	11	21	30	1.90
15743222--15743267	17	2.8	16	80	9	56	34	4	19	41	1.71
15745607--15745684	16	4.4	18	75	19	76	53	1	1	43	1.16
15745610--15745675	28	2.5	26	85	9	80	56	1	1	40	1.18
15754258--15754282	10	2.5	10	100	0	50	76	8	8	8	1.18

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