genome.fa.s12.2.7.7.80.10.50.1000.99.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  99  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)
29206547--29206641	21	4.7	19	74	15	68	62	4	1	32	1.22
29206999--29207057	28	2.1	29	83	3	75	33	3	5	57	1.37
29217025--29217071	11	4.1	11	83	8	58	72	0	2	25	0.96
29229490--29229527	11	3.3	12	82	14	53	36	0	0	63	0.95
29229648--29229707	30	2.0	30	93	0	102	56	13	3	26	1.52
29230997--29231033	9	4.1	9	85	0	56	48	13	8	29	1.71
29234053--29234079	5	5.4	5	100	0	54	18	18	18	44	1.87
29234478--29234527	22	2.3	22	96	0	91	8	30	8	54	1.58
29236586--29236623	18	2.2	18	95	4	69	34	0	0	65	0.93
29236813--29236858	18	2.6	18	86	6	58	43	0	2	54	1.12
29236395--29236986	238	2.5	238	93	3	1016	42	1	4	52	1.28
29236395--29236999	120	5.1	118	93	3	1009	42	0	4	52	1.28
29237138--29237230	45	2.1	44	86	6	125	36	27	2	33	1.69
29237219--29237283	16	4.1	16	87	0	103	24	30	4	40	1.75
29237212--29237279	32	2.1	32	97	0	127	26	27	2	42	1.70
29244405--29244460	2	28.0	2	88	0	85	48	3	1	46	1.30
29245678--29245702	13	1.9	13	100	0	50	48	4	0	48	1.20
29246545--29246600	23	2.4	23	90	3	85	44	5	3	46	1.43
29249836--29249869	17	2.1	16	88	5	50	44	5	0	50	1.26
29249888--29249940	23	2.3	23	90	0	88	39	16	11	32	1.85
29251995--29252086	23	3.9	23	75	15	80	20	26	21	31	1.98
29254688--29254734	22	2.0	25	84	12	64	46	0	17	36	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29262634--29262661	2	14.0	2	100	0	56	50	0	0	50	1.00
29271892--29271927	6	6.0	6	86	0	54	61	0	22	16	1.35
29271846--29271992	75	1.9	76	80	11	169	49	6	17	26	1.70
29278294--29278335	22	2.0	21	85	4	57	54	4	0	40	1.21
29279791--29279843	3	17.7	3	100	0	106	67	0	0	32	0.91
29281539--29281596	26	2.3	26	84	3	82	27	17	15	39	1.90
29294390--29294680	151	1.9	151	89	1	449	25	28	18	26	1.98
29297712--29297757	25	1.9	23	86	8	65	54	4	2	39	1.32
29299342--29299381	14	2.9	14	84	0	53	42	17	7	32	1.77
29299307--29299373	34	1.9	35	84	3	91	46	10	8	34	1.70
29301329--29301354	5	5.2	5	100	0	52	80	0	0	19	0.71
29301839--29301882	18	2.4	19	88	3	63	20	11	0	68	1.20
29304669--29304731	16	3.9	16	72	8	56	73	0	1	25	0.93
29304688--29304733	22	2.0	22	83	4	56	76	0	0	23	0.79
29304679--29304728	15	3.4	15	76	17	52	70	0	2	28	0.99
29309079--29309274	51	3.9	50	77	4	196	30	28	17	23	1.97
29310581--29310634	16	3.4	15	87	10	72	40	7	24	27	1.81
29311263--29311312	2	25.0	2	100	0	100	50	0	0	50	1.00
29313644--29313680	17	2.2	17	100	0	74	67	5	16	10	1.38
29323377--29323415	2	20.0	2	94	5	71	51	0	0	48	1.00
29325878--29325914	3	12.7	3	83	16	51	67	0	32	0	0.91
29325878--29325910	17	1.9	17	88	11	50	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29325941--29325973	12	2.5	13	90	9	50	72	0	21	6	1.05
29325878--29325973	14	6.8	14	70	16	56	63	1	29	6	1.25
29332929--29332957	2	14.5	2	100	0	58	48	0	0	51	1.00
29332986--29333045	18	3.2	19	80	20	72	38	0	5	56	1.21
29332989--29333042	19	2.9	17	82	17	56	38	0	5	55	1.23
29333029--29333061	13	2.5	13	95	0	57	18	0	12	69	1.18
29342259--29342333	38	2.0	38	94	0	132	32	12	6	49	1.66
29344556--29344608	23	2.3	23	100	0	106	30	26	20	22	1.98
29344695--29344723	8	3.6	8	100	0	58	34	27	13	24	1.93
29344828--29344866	18	2.2	17	86	13	53	46	20	0	33	1.51
29348853--29348908	19	3.1	18	82	7	60	50	5	0	44	1.25
29348845--29348905	28	2.2	28	82	5	70	47	6	0	45	1.28
29351495--29351618	43	2.9	43	82	0	167	34	26	15	23	1.94
29361310--29361358	19	2.5	19	96	3	89	16	0	6	77	0.96
29361310--29361363	6	8.3	6	78	13	54	16	0	7	75	1.01
29361310--29361363	13	4.2	12	77	13	54	16	0	7	75	1.01
29364078--29364153	36	2.1	35	85	2	98	40	38	0	21	1.53
29364137--29364171	15	2.4	14	86	9	52	42	31	0	25	1.55
29364151--29364221	22	3.3	22	70	18	58	42	26	1	29	1.64
29364690--29364778	40	2.3	40	90	3	137	24	22	23	29	1.99
29367135--29367179	18	2.5	18	82	7	56	51	0	2	46	1.13
29367135--29367174	18	2.1	18	90	9	62	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29371024--29371056	17	1.9	17	93	0	57	9	0	27	63	1.24
29371181--29371342	80	2.0	80	100	0	324	24	29	18	27	1.98
29375524--29375551	10	2.8	10	100	0	56	75	0	17	7	1.03
29375495--29375542	24	2.0	24	83	0	60	70	4	18	6	1.25
29380008--29380183	72	2.4	72	81	0	208	25	17	23	34	1.96
29384248--29384282	12	2.9	12	91	0	61	40	0	40	20	1.52
29390282--29390316	12	2.8	12	86	4	52	40	2	0	57	1.14
29391701--29391734	17	2.0	17	94	0	59	61	0	5	32	1.20
29399735--29399763	3	9.7	3	100	0	58	0	0	31	68	0.89
29401185--29401258	34	2.1	35	82	7	89	60	5	5	28	1.41
29401581--29401682	47	2.2	48	96	3	190	53	13	10	21	1.70
29418122--29418148	7	3.9	7	100	0	54	85	0	0	14	0.61
29419907--29419993	43	2.0	43	88	4	131	33	21	4	40	1.74
29420945--29421018	36	2.1	35	84	2	94	56	9	4	29	1.49
29423202--29423251	24	2.1	24	88	0	73	54	4	4	38	1.38
29424346--29424392	12	3.7	13	80	11	53	38	2	0	59	1.09
29425933--29425963	2	15.5	2	100	0	62	48	0	0	51	1.00
29426135--29426169	18	2.0	17	94	5	61	68	0	2	28	1.04
29433744--29433898	43	3.6	43	74	6	109	32	26	16	24	1.96
29434418--29434456	19	2.0	20	85	9	55	51	28	0	20	1.48
29437824--29437868	23	2.0	23	86	4	65	37	6	17	37	1.76
29440523--29440567	19	2.4	19	85	7	56	26	24	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29445126--29445593	45	10.5	45	80	6	350	30	19	23	25	1.98
29445167--29445555	90	4.3	90	80	6	439	30	20	24	24	1.98
29445118--29445593	90	5.3	89	79	6	408	31	19	23	25	1.98
29445119--29445617	135	3.7	132	82	3	554	31	19	23	26	1.98
29445814--29446227	132	3.1	131	85	5	548	29	18	25	26	1.98
29452993--29453124	45	2.9	45	89	0	183	33	17	25	24	1.96
29453012--29453079	21	3.1	21	69	10	64	35	22	22	20	1.96
29455416--29455462	20	2.3	20	82	7	60	29	8	0	61	1.25
29456403--29456445	17	2.5	17	85	7	61	41	9	4	44	1.57
29458703--29458762	31	2.0	31	93	3	104	41	13	5	40	1.66
29459621--29459925	123	2.4	124	84	5	375	34	14	23	28	1.93
29467507--29467540	6	5.7	6	100	0	68	32	0	0	67	0.91
29467509--29467549	18	2.3	18	87	8	57	36	2	0	60	1.10
29469965--29470004	16	2.5	16	87	0	53	32	2	0	65	1.06
29471696--29471786	27	3.2	28	83	10	114	43	10	26	18	1.83
29471697--29471785	28	3.2	28	84	7	110	42	11	26	19	1.84
29471730--29471777	13	3.5	13	72	10	51	37	12	31	18	1.88
29471734--29471813	30	2.8	28	81	7	97	45	12	25	17	1.83
29471734--29471843	58	1.9	58	83	7	143	45	10	25	19	1.81
29473437--29473536	52	1.9	52	100	0	200	30	8	7	55	1.56
29474525--29474643	21	5.7	21	72	0	76	47	20	18	14	1.83
29474515--29474643	42	3.1	41	82	4	143	46	19	18	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29474602--29474657	21	2.7	21	86	5	69	48	16	17	17	1.82
29479784--29479810	2	13.5	2	100	0	54	48	0	0	51	1.00
29480423--29480457	2	18.0	2	94	5	63	51	0	0	48	1.00
29480425--29480457	17	1.9	17	100	0	66	51	0	0	48	1.00
29480730--29480861	43	3.1	42	83	8	160	31	28	19	19	1.97
29481748--29481848	49	2.1	48	90	7	161	43	11	3	40	1.60
29483739--29483839	42	2.4	42	83	3	123	45	17	21	14	1.85
29483739--29483868	21	6.2	21	70	10	86	46	16	21	16	1.84
29483739--29483868	42	3.1	41	77	4	118	46	16	21	16	1.84
29494559--29494651	24	3.9	24	70	16	66	31	20	16	32	1.94

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