genome.fa.s12.2.7.7.80.10.50.1000.107.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  107  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)
31323572--31323754	71	2.6	71	87	1	260	25	22	21	30	1.99
31324580--31324625	22	2.1	21	84	11	58	26	0	19	54	1.44
31326382--31326415	15	2.3	15	89	0	50	47	5	26	20	1.73
31328519--31328564	19	2.6	18	77	16	51	39	0	0	60	0.97
31328766--31328804	20	2.0	20	84	0	51	41	12	23	23	1.88
31331806--31331863	28	2.0	28	83	9	73	46	0	3	50	1.18
31331972--31332060	38	2.3	38	88	5	124	39	1	5	53	1.32
31333565--31333593	5	5.8	5	100	0	58	79	0	0	20	0.74
31334162--31334204	21	2.0	21	86	0	59	30	2	13	53	1.53
31334167--31334215	21	2.3	21	78	0	53	30	2	14	53	1.52
31346284--31346316	11	3.1	11	91	4	50	9	15	9	66	1.43
31347041--31347170	61	2.1	61	78	5	138	39	13	3	44	1.59
31347575--31347628	24	2.3	24	87	3	74	57	1	1	38	1.20
31347556--31347630	24	3.4	22	73	20	66	62	2	1	33	1.17
31347589--31347631	12	3.5	13	78	9	54	60	0	0	39	0.97
31354459--31354498	18	2.2	19	86	4	55	52	20	2	25	1.59
31354981--31355005	2	12.5	2	100	0	50	52	0	0	48	1.00
31355303--31355581	149	1.9	145	86	7	395	44	5	8	41	1.58
31355304--31355628	145	2.3	144	82	9	380	44	4	9	41	1.57
31356937--31356971	3	11.7	3	100	0	70	68	0	0	31	0.90
31360532--31360603	28	2.6	28	88	0	99	29	26	12	31	1.93
31362771--31362842	24	3.0	23	80	15	67	20	26	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31365986--31366015	12	2.5	12	88	0	51	56	0	26	16	1.40
31382914--31382944	15	2.0	16	93	6	55	58	0	6	35	1.24
31385577--31386031	126	3.6	126	90	2	698	29	17	24	28	1.97
31389033--31389418	53	7.3	53	93	2	650	42	3	9	43	1.56
31389332--31389409	18	4.4	17	69	18	52	47	5	3	43	1.43
31389515--31389696	21	8.2	21	68	17	91	21	0	29	48	1.50
31389519--31389639	22	5.6	21	73	14	86	22	0	29	47	1.51
31389519--31389639	43	2.8	43	79	13	122	22	0	29	47	1.51
31389521--31389666	65	2.2	63	82	9	168	22	0	29	47	1.51
31389623--31389666	14	3.2	13	87	9	61	27	0	27	45	1.54
31389719--31389862	22	6.6	21	71	10	74	27	0	24	47	1.57
31389728--31389846	43	2.7	43	78	8	134	26	0	24	48	1.57
31389736--31389874	65	2.1	65	78	2	145	28	0	23	48	1.56
31389846--31389912	21	3.3	20	76	15	66	31	0	20	47	1.51
31389736--31389977	22	11.1	21	66	18	72	27	0	23	48	1.54
31389942--31389990	15	3.4	14	78	18	55	20	0	26	53	1.46
31389960--31390280	22	14.0	22	67	15	118	23	0	26	49	1.54
31390071--31390115	21	2.2	20	84	4	54	26	0	24	48	1.51
31389917--31390175	116	2.2	117	81	8	314	24	0	23	50	1.54
31390076--31390140	28	2.3	30	79	15	75	24	0	26	49	1.51
31390218--31390250	16	2.1	16	88	5	50	21	0	33	45	1.52
31390226--31390281	15	3.7	15	79	11	60	21	0	30	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31390218--31390274	23	2.5	23	80	11	64	22	0	29	47	1.52
31390233--31390293	30	2.1	29	93	3	104	21	0	26	52	1.47
31390241--31390291	15	3.4	16	76	13	63	19	0	27	52	1.46
31395694--31395732	12	3.2	12	92	0	69	48	17	15	17	1.81
31407456--31407485	15	2.0	15	93	0	51	50	0	10	40	1.36
31418477--31418501	7	3.6	7	100	0	50	24	12	16	48	1.79
31419272--31419296	2	12.5	2	100	0	50	0	0	48	52	1.00
31419337--31419374	1	38.0	1	100	0	76	0	0	0	100	0.00
31426404--31426447	16	2.7	16	82	3	52	31	2	2	63	1.19
31428888--31428931	23	1.9	23	86	9	63	45	13	13	27	1.81
31429580--31429652	29	2.5	29	88	0	101	19	42	24	13	1.87
31436796--31436971	61	2.9	59	79	10	185	23	12	30	33	1.92
31443949--31443997	24	2.0	24	92	0	80	26	4	2	67	1.19
31446741--31446805	29	2.2	29	83	0	85	32	15	9	43	1.78
31447577--31447607	14	2.2	14	94	0	53	48	12	0	38	1.42
31451519--31451559	6	6.8	6	97	0	64	9	0	4	85	0.73
31451516--31451562	18	2.5	19	86	6	69	12	0	4	82	0.80
31451686--31451716	7	4.4	7	100	0	62	25	0	0	74	0.82
31464407--31464444	15	2.5	15	95	0	67	21	28	0	50	1.49
31465299--31465337	16	2.3	18	86	8	55	41	7	12	38	1.72
31465297--31465352	18	3.1	19	77	17	64	44	7	12	35	1.70
31466110--31466147	15	2.5	16	87	8	53	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31466122--31466172	20	2.7	18	80	11	57	0	31	0	68	0.90
31466262--31466321	15	4.2	15	78	16	56	1	23	0	75	0.90
31466242--31466326	28	3.0	29	76	19	74	2	25	0	71	0.98
31466274--31466323	18	2.8	18	88	8	75	0	22	0	78	0.76
31466277--31466326	15	3.4	15	84	13	68	0	22	0	78	0.76
31467761--31467807	6	7.8	6	90	0	67	55	8	0	36	1.31
31467761--31467807	12	3.9	12	94	0	76	55	8	0	36	1.31
31468505--31468539	17	2.1	17	88	0	52	5	11	5	77	1.12
31468560--31468591	16	1.9	17	93	6	57	53	3	0	43	1.16
31468556--31468617	25	2.5	25	79	7	72	50	3	0	46	1.17
31468714--31468764	14	3.4	14	76	12	57	54	1	1	41	1.22
31470205--31470237	17	1.9	17	88	11	50	39	3	0	57	1.14
31470438--31470482	19	2.3	19	85	11	56	35	4	2	57	1.31
31483045--31483518	44	10.9	43	72	11	274	29	20	22	27	1.99
31483047--31483513	87	5.4	87	70	13	275	29	20	22	27	1.99
31483087--31483333	133	1.9	133	83	3	327	28	21	22	26	1.99
31485189--31485301	41	2.7	41	80	4	127	30	16	23	30	1.96
31486419--31486449	3	10.3	3	92	0	53	32	3	0	64	1.09
31491860--31491934	28	2.7	28	89	0	105	32	1	21	45	1.60
31498040--31498141	30	3.4	29	79	5	123	45	0	18	35	1.57
31498006--31498141	60	2.3	60	83	6	161	43	2	19	34	1.64
31498634--31498658	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31501891--31501943	18	2.9	18	82	0	70	13	22	20	43	1.86
31506565--31506603	16	2.4	16	82	0	51	35	15	17	30	1.91
31508846--31508904	30	2.0	30	89	0	91	42	6	8	42	1.61
31517169--31517209	19	2.0	21	86	9	59	51	29	9	9	1.67
31522538--31522582	23	2.0	23	82	8	56	33	0	4	62	1.15
31523955--31524009	11	5.4	11	74	22	57	60	1	0	38	1.08
31523941--31523984	21	2.1	21	87	8	63	54	2	0	43	1.12
31523942--31524009	10	6.7	10	73	21	61	57	2	0	39	1.14
31524159--31524200	20	2.1	20	86	8	59	61	2	7	28	1.35
31525837--31525895	29	2.0	29	100	0	118	22	10	10	57	1.61
31530435--31530513	13	5.6	13	77	14	68	39	1	46	12	1.50
31530445--31530580	43	3.1	43	92	2	218	34	4	51	9	1.55
31530640--31530695	24	2.3	24	93	0	94	50	0	8	41	1.34
31530626--31530836	29	7.2	29	85	10	297	49	0	9	39	1.42
31530626--31530836	88	2.4	85	87	9	302	49	0	9	39	1.42
31531711--31531763	21	2.5	21	93	0	88	30	39	9	20	1.84
31536552--31536598	19	2.4	19	82	10	60	42	2	0	55	1.12
31536579--31536636	11	5.4	11	74	17	59	37	3	0	58	1.15
31536544--31536651	31	3.6	31	91	6	170	38	2	0	58	1.13
31536619--31536658	21	1.9	21	89	0	62	37	2	0	60	1.11
31536618--31536676	22	2.8	21	80	14	59	40	1	3	54	1.27
31541658--31541727	20	3.6	19	81	14	81	34	0	8	57	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31552575--31552638	2	32.0	2	96	0	119	51	0	0	48	1.00
31553588--31553619	2	16.0	2	100	0	64	50	0	0	50	1.00
31555143--31555199	30	1.9	30	100	0	114	14	10	22	52	1.71
31561329--31561366	18	2.2	18	90	4	60	60	10	2	26	1.43
31561407--31561434	2	14.0	2	100	0	56	50	0	0	50	1.00
31561564--31561623	30	2.0	29	81	9	68	53	10	1	35	1.44
31566098--31566166	34	2.0	34	91	5	113	46	13	2	37	1.58
31578806--31578897	24	3.8	24	79	1	85	17	25	20	36	1.94
31578874--31578921	25	1.9	25	86	0	69	31	25	12	31	1.92
31584047--31584101	28	2.0	28	92	0	92	43	14	7	34	1.73

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