genome.fa.s12.2.7.7.80.10.50.1000.67.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  67  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)
19913609--19913665	20	2.8	21	76	7	55	22	28	0	49	1.50
19914365--19914627	138	1.9	137	81	0	319	33	25	21	19	1.97
19917649--19917877	28	8.3	28	88	1	302	28	23	24	23	2.00
19925175--19925281	26	4.1	26	90	0	151	37	21	20	20	1.95
19925534--19925872	27	12.6	27	85	2	369	19	19	18	42	1.90
19925504--19925737	81	2.9	81	84	3	222	18	19	20	41	1.91
19925534--19925872	81	4.2	81	84	2	412	19	19	18	42	1.90
19934071--19934102	12	2.7	12	95	0	55	46	15	18	18	1.84
19935984--19936013	14	2.1	14	93	0	51	10	6	13	70	1.34
19937769--19937828	16	3.8	16	76	12	61	41	5	1	51	1.33
19937755--19937829	16	4.7	16	71	12	55	44	4	1	50	1.29
19942257--19942594	51	6.7	51	80	4	362	28	15	26	28	1.96
19942257--19942600	102	3.4	101	87	3	453	29	15	26	28	1.96
19944521--19944649	62	2.2	58	86	6	170	50	3	3	41	1.39
19947625--19947650	7	3.7	7	100	0	52	0	0	26	73	0.84
19950509--19950580	29	2.5	29	82	6	85	27	15	20	36	1.93
19951074--19951098	13	1.9	13	100	0	50	56	8	16	20	1.65
19953654--19953751	47	2.1	47	100	0	196	18	6	25	50	1.70
19953666--19953740	23	3.2	23	67	10	71	22	8	21	48	1.76
19954760--19954824	16	4.1	16	95	0	103	35	3	36	24	1.71
19955048--19955089	15	2.9	15	82	10	52	52	0	0	47	1.00
19955227--19955443	44	4.9	44	66	19	144	45	4	3	47	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19955227--19955472	91	2.8	89	93	1	413	46	3	3	46	1.36
19956906--19956966	23	2.7	23	94	0	104	14	19	21	44	1.86
19960974--19961025	15	3.6	15	80	12	56	44	0	0	55	0.99
19960849--19961258	120	3.4	120	95	0	732	42	2	4	50	1.36
19961007--19961205	66	3.2	66	68	21	210	41	3	5	50	1.41
19961099--19961154	15	4.1	14	80	14	64	39	0	0	60	0.97
19961090--19961151	15	3.8	18	72	25	57	38	0	0	61	0.96
19961214--19961255	15	2.9	15	82	10	52	47	0	0	52	1.00
19980692--19980793	48	2.1	48	87	7	145	39	0	48	11	1.47
19980829--19980895	30	2.2	30	78	0	71	35	11	23	28	1.91
19980923--19980960	20	1.9	20	94	0	67	31	7	26	34	1.85
19982420--19982506	39	2.3	38	85	2	111	25	35	12	26	1.92
19984089--19984206	23	5.1	23	93	0	209	32	24	22	21	1.98
19984653--19984714	30	2.1	29	82	8	72	33	22	6	37	1.80
19985641--19985694	14	4.0	14	73	7	58	64	1	0	33	1.04
19985643--19985686	22	2.0	23	86	4	63	65	2	0	31	1.05
19986144--19986185	21	2.0	20	90	4	66	50	9	7	33	1.62
19989110--19989219	54	2.0	54	87	7	157	43	6	20	29	1.77
19989120--19989235	54	2.1	57	80	4	130	50	5	19	25	1.68
19993931--19993979	26	1.9	26	87	4	73	26	4	18	51	1.64
19994432--19994458	10	2.7	10	100	0	54	29	7	0	62	1.22
20000013--20000050	20	1.9	20	84	10	51	57	0	10	31	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20009930--20009976	16	3.0	15	77	20	51	44	2	0	53	1.12
20009928--20009976	10	4.6	11	73	16	50	44	2	0	53	1.12
20009928--20009976	22	2.3	23	83	16	70	44	2	0	53	1.12
20019545--20019574	9	3.3	9	90	0	51	56	6	0	36	1.26
20019562--20019617	29	1.9	29	85	0	76	44	14	8	32	1.76
20021722--20021917	50	3.8	50	82	5	196	26	20	29	22	1.99
20026401--20026640	50	4.7	50	78	5	171	27	22	27	22	1.99
20029522--20029987	41	11.4	41	93	0	752	22	28	20	28	1.99
20036083--20036267	50	3.7	50	84	2	246	27	22	27	22	1.99
20041681--20041760	38	2.1	38	92	0	133	32	6	17	43	1.74
20042689--20042867	50	3.6	50	81	6	209	30	21	26	21	1.98
20044830--20044888	30	2.0	29	83	9	75	57	8	13	20	1.62
20063076--20063316	49	4.8	49	75	5	169	22	27	21	28	1.99
20064026--20064050	11	2.3	11	100	0	50	76	8	0	16	1.02
20070444--20070489	20	2.3	20	79	17	60	13	23	6	56	1.60
20074744--20074810	21	3.3	21	74	18	70	26	35	4	32	1.77
20082103--20082132	14	2.1	14	93	0	51	76	6	6	10	1.15
20083227--20083334	55	2.0	55	81	0	126	33	18	21	26	1.96
20084378--20084415	19	2.0	19	85	10	51	21	42	0	36	1.53
20094063--20094100	19	2.0	19	85	10	51	21	42	0	36	1.53
20101147--20101197	25	2.0	25	100	0	102	43	19	29	7	1.79
20105179--20105233	27	2.0	27	92	0	92	34	25	18	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20111288--20111363	11	6.6	11	83	8	89	36	51	3	7	1.50
20111278--20111339	22	2.8	22	90	4	74	38	50	1	9	1.45
20111299--20111374	36	2.1	36	90	0	116	35	51	2	10	1.50
20111288--20111363	22	3.3	22	82	10	98	36	51	3	7	1.50
20113616--20113673	25	2.3	25	82	5	64	67	10	5	17	1.38
20115569--20115615	14	3.3	14	82	5	58	51	4	2	42	1.33
20120459--20120517	29	2.1	29	87	3	84	32	6	8	52	1.58
20121351--20121424	3	25.3	3	91	5	125	0	32	1	66	1.00
20121914--20121963	17	3.0	17	73	2	57	8	10	0	82	0.86
20126815--20126960	43	3.5	42	78	8	145	36	24	17	21	1.94
20126815--20126960	42	3.5	42	78	6	152	36	24	17	21	1.94
20126967--20127074	40	2.7	41	91	2	182	21	25	20	33	1.97
20126899--20127030	67	2.0	68	83	7	171	28	27	18	25	1.98
20127219--20127295	38	2.0	38	100	0	154	51	10	19	18	1.74
20128361--20128437	23	3.3	23	87	0	109	48	11	1	38	1.48
20137055--20137113	27	2.2	27	81	6	66	59	11	0	28	1.33
20140380--20140426	19	2.6	18	78	15	53	46	2	6	44	1.40
20140380--20140429	17	2.7	19	76	11	52	46	2	6	46	1.39
20141572--20141604	11	3.3	10	88	12	50	15	3	0	81	0.80
20142188--20142223	3	12.0	3	100	0	72	33	0	0	66	0.92
20142762--20142794	10	3.4	10	87	4	50	30	0	0	69	0.88
20149253--20149301	20	2.5	19	84	12	64	18	20	8	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20149346--20149386	21	2.0	21	85	9	57	39	17	12	31	1.86
20157409--20157453	23	2.0	22	87	8	65	22	22	6	48	1.73
20159166--20159214	20	2.5	20	72	0	53	34	22	24	18	1.96
20162119--20162229	55	2.0	54	94	1	195	41	20	15	22	1.90
20163572--20163628	20	2.8	20	89	0	78	22	29	0	47	1.52
20164278--20164577	40	7.6	40	87	2	363	45	27	13	13	1.81
20173097--20173288	49	3.9	49	78	4	165	27	22	28	21	1.99
20173096--20173281	48	3.8	49	79	6	155	27	23	27	21	1.99
20177769--20177823	21	2.6	22	82	8	78	25	7	38	29	1.83
20182379--20182442	31	2.1	31	100	0	128	37	25	6	31	1.81
20183758--20184032	147	1.9	146	92	0	388	47	19	5	28	1.71
20188731--20188792	25	2.3	26	86	8	81	61	1	3	33	1.22
20188745--20188791	17	2.7	18	77	9	53	61	0	2	36	1.08
20188719--20188783	15	4.7	14	74	14	55	58	3	4	33	1.34
20188765--20188803	11	3.7	10	86	10	51	56	2	2	38	1.27
20193868--20193926	3	19.3	3	75	16	50	64	1	5	28	1.24
20194148--20194191	20	2.1	21	84	12	56	68	4	9	18	1.34
20194382--20194435	19	2.8	19	91	0	81	35	20	9	35	1.85
20194404--20194445	19	2.3	18	84	8	50	33	21	14	30	1.93
20194599--20194638	15	3.0	14	86	13	50	47	0	0	52	1.00
20194861--20194919	21	2.7	22	78	7	75	42	0	1	55	1.09
20194852--20194964	59	1.9	59	85	7	158	45	0	2	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20194911--20194968	23	2.6	22	73	15	57	50	0	1	48	1.11
20194949--20194979	16	1.9	16	93	0	53	58	0	0	41	0.98
20194859--20194979	58	2.1	58	80	10	131	47	0	1	50	1.10
20195322--20195356	18	1.9	18	88	0	52	65	0	0	34	0.93
20195394--20195431	16	2.5	15	87	8	51	63	5	0	31	1.17
20208504--20208543	20	2.0	20	90	0	62	27	10	15	47	1.77
20208483--20208559	14	5.0	15	71	20	52	32	9	16	41	1.80
20228836--20228873	17	2.2	18	90	9	62	52	2	0	44	1.14
20229332--20229398	33	2.0	33	100	0	134	56	2	2	37	1.30
20229639--20229673	15	2.3	15	90	0	52	17	8	22	51	1.72

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