genome.fa.s12.2.7.7.80.10.50.1000.118.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  118  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)
34490612--34490781	33	4.8	33	73	14	108	40	12	15	31	1.84
34490612--34490777	18	9.2	17	68	19	88	40	12	15	31	1.84
34490906--34490938	5	6.6	5	100	0	66	63	0	0	36	0.95
34491102--34491175	10	7.5	10	78	17	75	0	18	0	81	0.70
34491096--34491175	37	2.1	38	88	6	119	0	18	0	81	0.70
34491095--34491173	27	2.8	27	85	12	90	0	20	0	79	0.73
34491102--34491175	30	2.5	30	89	8	107	0	18	0	81	0.70
34494453--34494509	29	2.0	29	82	6	71	24	10	8	56	1.61
34500990--34501040	2	26.0	2	92	4	86	50	0	0	49	1.00
34504404--34504433	5	6.0	5	100	0	60	0	20	0	80	0.72
34514713--34514768	2	29.0	2	86	13	82	50	0	1	48	1.11
34519619--34519647	2	14.5	2	100	0	58	48	0	0	51	1.00
34521312--34521354	2	21.5	2	100	0	86	51	0	0	48	1.00
34523243--34523284	16	2.6	17	85	7	52	7	9	9	73	1.24
34523817--34524178	153	2.4	154	85	1	458	33	12	17	37	1.87
34527043--34527088	7	6.4	7	85	9	58	0	84	2	13	0.71
34527044--34527085	8	5.5	8	86	8	52	0	88	2	9	0.61
34527042--34527085	23	2.0	23	90	4	72	0	84	2	13	0.73
34527819--34527858	5	7.8	5	86	13	55	82	0	17	0	0.67
34528507--34528591	31	2.8	30	77	7	82	28	12	15	43	1.83
34531265--34531303	18	2.1	19	86	13	55	64	0	2	33	1.08
34532733--34532781	22	2.2	22	85	7	64	30	6	8	55	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34536710--34536765	29	1.9	29	85	0	76	35	21	8	33	1.85
34539906--34539961	21	2.5	22	72	18	62	41	1	8	48	1.45
34545319--34545395	31	2.5	31	89	0	118	27	11	11	49	1.74
34545317--34545451	31	4.3	31	73	15	107	25	14	13	47	1.80
34547991--34548051	31	2.1	30	80	14	74	52	4	3	39	1.39
34551345--34551370	11	2.4	11	100	0	52	38	7	0	53	1.30
34551714--34551776	30	2.0	32	87	6	94	30	17	9	42	1.81
34552632--34552678	22	2.2	21	85	11	60	46	0	0	53	1.00
34554919--34554961	15	2.8	15	78	3	50	60	0	0	39	0.97
34555317--34555427	49	2.3	49	100	0	222	34	10	9	45	1.73
34563067--34563234	85	2.0	83	96	2	309	43	3	11	41	1.59
34563223--34563257	16	2.1	17	89	5	54	54	0	0	45	0.99
34563827--34563923	48	2.0	48	100	0	194	38	4	12	45	1.61
34577141--34577186	22	2.2	22	84	7	60	45	0	0	54	0.99
34587144--34587295	30	5.1	30	83	6	175	34	17	3	44	1.67
34587144--34587271	59	2.2	60	88	4	188	33	17	3	46	1.64
34587638--34587679	9	4.8	9	85	8	52	83	0	16	0	0.65
34587638--34587677	19	2.1	20	90	9	66	85	0	15	0	0.61
34587786--34587842	28	2.0	30	83	13	75	73	8	15	1	1.16
34587788--34587836	16	3.1	16	76	5	55	77	10	12	0	0.99
34587970--34588016	12	3.8	13	81	18	64	80	0	19	0	0.70
34587970--34588017	13	3.9	12	81	13	62	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34588459--34588608	18	8.1	18	73	12	115	30	13	10	45	1.77
34588476--34588519	24	1.9	22	90	9	70	43	6	9	40	1.63
34588501--34588578	35	2.2	35	84	4	95	26	11	12	48	1.75
34589435--34589462	14	2.0	14	100	0	56	64	0	0	35	0.94
34590344--34590382	20	1.9	21	84	5	53	71	2	2	23	1.10
34590982--34591026	17	2.9	15	81	12	63	37	0	2	60	1.09
34591075--34591120	23	2.0	23	86	0	65	26	23	34	15	1.94
34591279--34591350	8	8.4	8	71	14	54	47	15	1	36	1.54
34591305--34591408	27	3.7	27	74	20	115	52	12	0	33	1.45
34591340--34591426	22	3.7	22	80	16	104	52	13	1	32	1.48
34591332--34591431	49	2.0	49	90	3	157	53	13	1	33	1.46
34591957--34591997	19	2.2	19	95	0	73	51	17	0	31	1.46
34592014--34592116	27	3.8	27	93	0	179	23	37	22	16	1.93
34598176--34598230	25	2.2	26	87	9	78	74	9	0	16	1.06
34598755--34598790	18	2.0	18	88	0	54	0	16	2	80	0.83
34599489--34599544	23	2.4	23	77	11	60	26	1	5	66	1.23
34610799--34610856	30	1.9	30	82	10	73	43	13	12	31	1.81
34610960--34610992	17	1.9	17	93	0	57	30	3	3	63	1.24
34611679--34611787	53	2.0	54	92	3	184	44	10	12	32	1.76
34614418--34614466	20	2.5	19	83	3	53	28	2	6	63	1.30
34617039--34617085	19	2.5	19	73	13	51	68	4	2	25	1.19
34624537--34624572	15	2.4	15	95	0	63	44	2	11	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34626804--34626870	25	2.8	23	75	16	73	28	19	8	43	1.81
34626815--34626896	25	3.1	25	74	19	85	34	17	7	41	1.77
34631161--34631214	28	1.9	28	88	7	83	31	20	16	31	1.95
34631161--34631223	28	2.2	28	83	10	76	30	20	19	30	1.97
34631471--34631589	51	2.2	55	83	5	147	29	13	21	35	1.92
34639714--34639757	19	2.2	21	84	8	56	72	6	0	20	1.07
34649841--34649888	21	2.3	21	92	0	78	27	20	27	25	1.99
34651648--34651708	32	1.9	31	90	3	95	32	8	16	42	1.78
34655286--34655332	19	2.3	20	89	7	69	65	8	0	25	1.20
34655286--34655332	21	2.3	21	89	7	71	65	8	0	25	1.20
34655758--34655879	65	1.9	65	84	3	165	23	17	17	41	1.89
34670109--34670171	29	2.2	29	94	0	108	50	7	17	23	1.72
34670195--34670253	28	2.1	29	93	3	102	25	13	15	45	1.82
34670635--34670665	16	1.9	16	100	0	62	45	0	9	45	1.36
34678568--34678697	51	2.4	55	78	7	144	31	12	19	36	1.89
34680095--34680131	19	1.9	19	100	0	74	43	16	2	37	1.62
34683111--34683316	72	2.9	72	88	0	295	44	11	11	33	1.76
34684016--34684055	20	2.0	20	85	0	53	47	0	0	52	1.00
34684135--34684215	40	2.0	40	92	2	137	45	7	1	45	1.39
34690300--34690345	18	2.6	18	89	0	65	50	8	15	26	1.73
34692324--34692367	18	2.4	18	85	11	54	20	0	9	70	1.14
34699052--34699209	73	2.2	73	97	0	298	35	20	12	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34702846--34702949	52	2.0	52	98	0	199	32	14	13	39	1.85
34704693--34704819	43	3.0	42	80	10	159	23	18	27	29	1.98
34711021--34711062	20	2.1	20	91	8	68	42	7	4	45	1.52
34711252--34711773	207	2.6	197	81	10	610	50	5	7	36	1.55
34711677--34711711	14	2.6	13	86	8	52	74	2	2	20	1.08
34713428--34713453	13	2.0	13	100	0	52	23	23	23	30	1.99
34717621--34717679	25	2.3	24	83	11	57	59	6	6	27	1.48
34717950--34717997	14	3.2	14	74	25	53	0	18	10	70	1.15
34721976--34722020	21	2.3	20	85	14	60	66	6	0	26	1.16
34726751--34726807	27	2.2	26	81	9	62	43	3	8	43	1.52
34733471--34733535	29	2.2	29	83	0	94	50	12	15	21	1.76
34735165--34735212	19	2.4	19	86	6	60	62	8	2	27	1.35
34738540--34738578	18	2.2	18	85	0	51	10	5	12	71	1.28
34746711--34747156	114	3.9	114	86	2	635	26	23	24	25	2.00
34751584--34751798	75	2.9	75	94	0	376	29	19	15	34	1.93
34759314--34759380	18	3.8	17	92	4	98	8	34	40	16	1.80
34762569--34762947	43	8.9	43	88	1	512	26	33	18	20	1.96
34766940--34766969	15	2.0	15	93	0	51	30	0	0	70	0.88
34767493--34767523	14	2.2	14	94	0	53	35	29	0	35	1.58
34767460--34767537	22	3.6	22	77	3	86	37	33	0	29	1.58
34767793--34768005	7	29.9	7	70	11	92	46	33	1	19	1.59
34768179--34768436	41	6.3	41	84	8	328	30	27	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34768473--34768680	40	5.2	40	92	1	253	19	25	24	31	1.98
34768687--34768712	12	2.2	12	100	0	52	46	30	15	7	1.74
34769169--34769210	21	2.0	21	90	0	66	21	26	11	40	1.88
34777646--34777671	7	3.7	7	100	0	52	30	26	0	42	1.56
34781289--34781320	2	16.0	2	100	0	64	50	0	0	50	1.00
34781548--34781583	2	18.0	2	100	0	72	50	0	0	50	1.00
34786356--34786394	20	1.9	21	84	5	53	17	10	15	56	1.66
34791475--34791514	22	1.9	20	90	10	62	15	7	2	75	1.14
34798114--34798154	2	20.5	2	100	0	82	48	0	0	51	1.00
34800522--34800603	19	4.3	19	90	0	137	37	10	14	36	1.82

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