genome.fa.s12.2.7.7.80.10.50.1000.48.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  48  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)
13136450--13136710	117	2.2	116	82	6	330	24	26	11	37	1.90
13139117--13139293	50	3.7	50	82	14	257	24	20	32	22	1.98
13139201--13139282	40	2.0	40	100	0	164	24	21	30	23	1.99
13139278--13139305	14	2.0	14	100	0	56	14	21	42	21	1.88
13152082--13152208	63	2.0	63	96	0	236	41	12	23	22	1.88
13153354--13153384	3	10.3	3	100	0	62	0	32	0	67	0.91
13158329--13158371	21	2.0	21	90	0	68	39	13	27	18	1.89
13159193--13159254	30	2.1	30	100	0	124	25	19	6	48	1.72
13160982--13161384	68	6.0	68	80	4	366	29	21	15	34	1.93
13160982--13161327	68	5.1	68	80	4	369	28	21	15	34	1.94
13160982--13161332	135	2.6	135	82	1	427	29	21	15	33	1.94
13161221--13161334	34	3.4	34	67	13	90	32	22	13	31	1.92
13174714--13174756	21	2.0	21	86	8	61	39	13	4	41	1.66
13175228--13175264	19	1.9	19	88	0	56	54	8	5	32	1.53
13178957--13178990	16	2.1	16	88	0	50	20	17	38	23	1.93
13181133--13181207	19	3.8	19	86	6	114	36	12	17	34	1.87
13185239--13185273	12	2.9	12	86	0	52	17	17	8	57	1.64
13186107--13186156	6	8.5	6	77	18	52	84	4	12	0	0.76
13187396--13188189	88	9.0	88	90	0	1147	25	24	26	23	2.00
13188308--13188469	45	3.6	45	79	2	157	30	20	24	24	1.99
13188995--13189109	19	5.8	19	92	4	176	37	10	15	36	1.82
13188995--13189116	40	3.2	38	86	11	176	37	9	16	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13194982--13195047	33	2.0	33	93	0	114	25	13	22	37	1.91
13197275--13197338	3	21.0	3	96	3	119	65	0	1	32	1.02
13201784--13201810	3	9.0	3	100	0	54	0	33	0	66	0.92
13202370--13202409	20	2.0	20	85	9	55	70	2	17	10	1.27
13204296--13204422	70	1.9	66	85	9	175	33	12	9	44	1.75
13210134--13210190	28	1.9	28	82	10	69	36	15	26	21	1.93
13220368--13220403	18	2.0	18	89	10	56	8	0	8	83	0.82
13220369--13220409	10	4.1	10	83	0	55	7	0	7	85	0.75
13229970--13230032	32	1.9	33	83	3	83	55	11	6	26	1.59
13236629--13236695	34	1.9	35	87	3	100	32	8	11	46	1.72
13238235--13238259	6	4.2	6	100	0	50	64	0	0	36	0.94
13241618--13241642	10	2.5	10	100	0	50	16	12	0	72	1.13
13247941--13248150	31	6.8	31	78	2	98	38	17	15	28	1.91
13247941--13248150	62	3.4	62	76	9	160	38	17	15	28	1.91
13252979--13253012	3	11.3	3	100	0	68	32	0	0	67	0.91
13259336--13259381	18	2.6	17	83	10	56	43	2	19	34	1.63
13276071--13276182	50	2.2	50	79	0	125	27	25	26	20	1.99
13287475--13287518	22	2.0	21	83	12	54	40	0	0	59	0.98
13297090--13297174	3	28.3	3	97	0	161	32	0	1	65	1.00
13299400--13299483	31	2.7	29	87	9	105	61	1	3	33	1.20
13299407--13299493	31	2.8	31	84	11	99	56	1	3	39	1.24
13300321--13300397	31	2.5	31	93	0	136	28	15	12	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13300733--13300766	8	3.8	9	88	11	52	32	2	0	64	1.08
13300732--13300766	18	2.0	17	94	5	61	34	2	0	62	1.10
13310353--13310377	4	6.2	4	100	0	50	0	0	24	76	0.80
13316489--13316565	24	3.2	24	75	14	68	25	5	2	66	1.26
13332176--13332202	13	2.1	13	100	0	54	14	18	0	66	1.25
13334087--13334225	39	3.6	39	86	1	181	46	20	2	30	1.65
13342855--13342879	5	5.0	5	100	0	50	20	0	0	80	0.72
13346460--13346528	29	2.4	30	78	7	79	52	4	5	37	1.46
13351250--13351717	233	2.0	232	96	0	855	28	13	16	42	1.85
13352787--13352853	34	1.9	35	87	3	100	47	10	7	34	1.66
13353918--13353948	16	1.9	16	93	0	53	51	0	0	48	1.00
13355872--13355921	20	2.7	17	75	19	55	30	10	24	36	1.88
13357767--13357794	2	14.0	2	100	0	56	50	0	50	0	1.00
13362292--13362346	20	2.8	20	80	2	67	41	9	18	30	1.81
13363590--13363646	29	2.0	29	92	0	96	33	12	14	40	1.83
13363720--13363797	40	2.0	40	89	0	120	21	26	29	21	1.99
13363982--13364046	11	5.8	12	74	18	68	24	30	1	43	1.64
13364006--13364105	51	2.0	51	88	4	148	26	27	2	45	1.65
13364292--13364334	19	2.3	19	96	4	79	37	9	16	37	1.81
13364293--13364381	21	4.0	23	81	17	91	41	8	12	37	1.74
13364293--13364381	44	2.0	44	86	6	126	41	8	12	37	1.74
13364293--13364372	21	3.7	21	83	15	92	41	10	11	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13364571--13364609	19	2.0	21	85	10	55	15	10	5	69	1.34
13364817--13364868	16	3.1	16	83	8	59	28	0	1	69	0.99
13364816--13364866	25	2.0	25	85	7	68	27	0	1	70	0.98
13364830--13364868	19	2.2	19	86	13	57	30	0	0	69	0.89
13369265--13369290	8	3.2	8	100	0	52	76	0	11	11	1.01
13376329--13377233	22	41.0	22	71	12	499	45	26	1	25	1.61
13376358--13377233	43	20.5	43	74	10	544	45	26	1	26	1.62
13376419--13376492	26	3.0	26	72	25	63	45	28	0	25	1.53
13376467--13376570	38	2.8	38	83	5	140	49	26	0	24	1.51
13376542--13377196	64	10.1	65	76	9	315	46	25	1	26	1.62
13376844--13376879	8	4.5	8	89	0	54	55	27	0	16	1.42
13376846--13376879	16	2.2	16	94	5	61	55	29	0	14	1.40
13380696--13381385	126	5.5	126	86	2	854	29	21	16	31	1.96
13381500--13381537	9	4.2	9	89	0	58	57	26	0	15	1.38
13381500--13381537	18	2.1	18	100	0	76	57	26	0	15	1.38
13394381--13394431	26	2.0	26	84	0	66	35	3	23	37	1.74
13394769--13394807	18	2.0	20	85	9	55	64	2	0	33	1.08
13398049--13398077	13	2.2	13	100	0	58	0	0	6	93	0.36
13398338--13398629	55	5.2	55	78	6	289	49	14	8	27	1.72
13398339--13398632	116	2.6	116	82	3	321	49	13	8	27	1.72
13400119--13400178	30	2.0	31	83	9	79	45	0	35	20	1.51
13400817--13400858	20	2.2	19	86	4	57	42	7	7	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13405858--13406001	33	4.3	33	70	10	103	29	17	25	27	1.97
13405856--13406086	101	2.3	101	96	0	426	29	16	25	28	1.97
13405923--13406083	33	4.8	32	72	11	126	29	16	25	28	1.96
13406151--13406183	12	2.8	12	86	13	50	9	18	18	54	1.69
13409423--13409893	188	2.5	186	88	2	667	32	17	22	27	1.96
13410093--13410117	13	1.9	13	100	0	50	12	8	16	64	1.49
13411413--13411441	12	2.4	12	100	0	58	20	0	20	58	1.39
13415365--13415406	19	2.2	19	84	16	52	38	0	28	33	1.58
13415960--13416006	19	2.4	19	89	3	67	70	8	10	10	1.35
13419940--13420133	42	4.6	43	85	2	223	28	16	23	31	1.96
13419944--13420133	85	2.2	84	82	6	222	28	16	24	30	1.97
13430394--13430780	44	9.0	44	71	16	240	27	22	20	29	1.99
13430898--13431049	42	3.7	42	76	20	135	26	25	19	29	1.98
13442998--13443054	21	2.8	20	76	7	60	75	5	3	15	1.12
13443257--13443303	23	2.0	23	91	0	76	59	6	6	27	1.46
13450669--13450730	33	1.9	32	93	3	106	35	4	22	37	1.76
13453754--13453802	24	2.0	25	88	4	73	34	0	2	63	1.06
13453818--13453859	21	2.0	22	90	4	68	80	4	11	2	0.95
13462964--13463077	56	2.0	56	84	3	149	39	13	16	30	1.87
13473668--13473846	88	2.0	88	95	0	322	18	20	14	46	1.83
13476059--13476211	22	7.0	22	90	0	225	32	14	26	26	1.94
13478328--13478404	37	2.1	37	97	0	145	28	15	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13491287--13491348	20	3.0	21	79	11	67	9	24	22	43	1.83
13493761--13493970	110	1.9	109	96	0	384	37	19	11	31	1.88
13496248--13496402	44	3.6	42	84	4	134	29	22	21	26	1.99
13496283--13496404	44	2.8	44	89	2	183	28	21	19	30	1.98
13496283--13496482	44	4.5	43	78	13	169	27	24	19	30	1.98
13508556--13508779	111	2.0	112	96	1	414	40	19	10	30	1.84
13508975--13509020	17	2.6	17	86	13	58	69	4	2	23	1.17
13509234--13509287	20	2.7	20	76	2	63	51	0	7	40	1.30
13510764--13510901	40	3.5	39	72	11	102	38	18	20	22	1.93
13510935--13511026	40	2.3	41	88	5	134	20	20	29	29	1.98

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