genome.fa.s12.2.7.7.80.10.50.1000.117.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  117  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)
34185672--34185778	52	2.1	51	89	5	162	20	11	26	42	1.85
34186887--34186915	6	4.8	6	100	0	58	51	48	0	0	1.00
34188034--34188079	25	1.9	24	86	8	67	4	19	2	73	1.10
34198487--34198533	2	23.5	2	100	0	94	48	0	0	51	1.00
34204408--34204499	38	2.3	40	85	7	125	40	1	6	52	1.35
34206477--34206740	147	1.8	145	83	4	350	26	14	24	34	1.94
34207397--34207502	53	2.0	53	100	0	212	35	3	24	35	1.74
34215945--34216109	86	1.9	86	82	4	208	33	19	23	23	1.97
34216152--34216187	14	2.5	14	90	4	54	66	0	0	33	0.92
34216157--34216187	10	3.0	10	95	4	53	67	0	0	32	0.91
34218632--34219345	205	3.5	205	86	2	925	18	16	12	52	1.74
34219430--34219696	112	2.4	111	81	9	305	20	10	13	54	1.69
34223210--34223237	2	14.0	2	100	0	56	50	0	0	50	1.00
34223545--34223581	2	18.0	2	94	5	65	48	2	0	48	1.15
34224059--34224099	22	1.9	21	85	5	55	39	24	7	29	1.82
34233655--34233991	125	2.7	125	90	0	530	28	13	21	35	1.92
34234939--34235215	46	6.0	46	92	0	446	29	26	9	35	1.87
34236622--34236662	18	2.3	18	86	0	64	41	4	31	21	1.74
34237316--34237341	7	3.7	7	100	0	52	57	15	0	26	1.38
34238478--34238631	39	3.3	49	83	16	211	44	0	27	27	1.59
34238504--34238586	28	3.1	28	65	21	79	43	0	27	28	1.55
34238602--34238658	22	2.5	22	94	2	96	42	0	29	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34238643--34238677	10	3.2	11	88	12	54	45	0	37	17	1.48
34239327--34240040	175	4.1	175	86	2	941	22	12	21	43	1.85
34240290--34240345	25	2.2	26	78	9	62	50	17	3	28	1.63
34243445--34243512	31	2.2	31	86	0	100	52	17	5	23	1.66
34249024--34249096	31	2.4	31	83	0	101	53	17	6	21	1.67
34250745--34250792	13	3.3	15	80	16	57	52	0	0	47	1.00
34250725--34250940	109	2.0	109	100	0	432	37	5	4	53	1.44
34250854--34250901	13	3.3	15	80	16	57	52	0	0	47	1.00
34252036--34252084	3	16.3	3	100	0	98	67	0	0	32	0.91
34262275--34262330	30	1.9	28	85	7	76	28	1	3	66	1.19
34268410--34268465	29	1.9	29	85	7	78	25	16	17	41	1.89
34270111--34270135	13	1.9	13	100	0	50	8	16	0	76	1.02
34270832--34271548	44	16.4	45	68	13	309	28	21	18	31	1.97
34270818--34271113	134	2.2	134	91	1	477	29	21	17	30	1.97
34271083--34271375	129	2.3	129	90	1	464	29	21	18	31	1.97
34271221--34271498	87	3.2	85	76	11	303	29	21	18	30	1.97
34271221--34271550	174	1.9	175	92	0	554	29	20	19	30	1.97
34270767--34271628	303	2.8	303	90	2	1282	29	21	18	30	1.97
34271396--34271628	129	1.8	127	91	1	385	30	21	18	29	1.97
34272121--34272765	85	7.4	85	73	10	462	28	21	18	31	1.97
34272060--34272761	44	16.0	44	67	13	200	28	21	18	31	1.97
34272058--34272583	175	3.0	175	94	0	910	28	21	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34272080--34272507	44	9.7	46	70	14	231	28	21	18	31	1.97
34272509--34272629	41	2.8	43	72	13	115	30	21	17	30	1.96
34272058--34272758	350	2.0	348	82	6	864	28	21	18	31	1.97
34284321--34284345	13	1.9	13	100	0	50	40	44	0	16	1.47
34284733--34284758	2	13.0	2	100	0	52	50	0	0	50	1.00
34296275--34296306	15	2.1	15	100	0	64	28	31	0	40	1.57
34308368--34308622	87	2.9	87	82	5	320	46	18	11	23	1.81
34310376--34310405	15	2.1	15	93	6	53	36	0	0	63	0.95
34313069--34313169	31	3.3	31	75	0	94	23	19	20	35	1.96
34319681--34319713	15	2.2	15	89	10	50	3	27	18	51	1.60
34322937--34322975	18	2.2	18	86	9	53	53	0	0	46	1.00
34328175--34328312	69	2.0	69	91	0	222	33	13	9	44	1.75
34328787--34328831	18	2.4	18	85	3	63	35	6	11	46	1.66
34329419--34329451	17	1.9	17	88	11	50	42	3	0	54	1.15
34334242--34334300	30	1.9	31	89	3	93	47	16	6	28	1.72
34346515--34346777	132	2.0	131	87	4	377	28	16	19	34	1.94
34352553--34352594	18	2.2	19	84	16	52	30	2	2	64	1.19
34358258--34358299	2	21.0	2	100	0	84	50	0	0	50	1.00
34359366--34359427	22	2.7	24	82	9	76	48	1	1	48	1.21
34359403--34359442	16	2.5	16	91	0	62	47	2	7	42	1.45
34359453--34359631	68	2.9	59	82	13	241	39	5	9	45	1.60
34359431--34359601	68	2.5	68	94	1	301	39	4	8	47	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34359702--34359741	20	2.0	20	85	9	55	57	2	0	40	1.12
34361136--34361235	24	4.6	22	73	22	70	61	4	0	35	1.15
34361150--34361225	19	3.8	21	74	24	74	59	3	0	36	1.16
34361145--34361223	40	2.1	37	86	9	106	58	3	0	37	1.16
34361218--34361262	9	4.7	9	81	10	54	71	2	2	24	1.09
34363908--34363932	13	1.9	13	100	0	50	68	0	8	24	1.16
34366542--34366599	29	2.0	30	86	3	82	46	10	15	27	1.78
34367849--34367882	17	1.9	18	94	5	61	70	0	0	29	0.87
34369472--34369536	33	2.0	33	87	0	94	15	13	6	64	1.47
34369629--34369666	19	2.0	19	100	0	76	31	15	10	42	1.81
34369683--34369736	22	2.4	23	75	12	58	37	1	3	57	1.27
34370340--34370370	12	2.6	12	94	0	53	58	9	9	22	1.59
34370593--34370745	58	2.6	59	76	10	150	30	22	14	32	1.94
34374390--34374414	12	2.1	12	100	0	50	60	24	8	8	1.52
34374402--34375006	263	2.3	262	88	1	863	35	19	15	29	1.93
34378206--34378251	22	2.1	22	95	0	83	28	8	19	43	1.80
34391093--34391131	20	2.0	20	89	0	60	66	2	2	28	1.18
34398349--34398381	11	3.1	11	91	4	50	33	0	0	66	0.92
34398873--34398911	7	5.6	7	100	0	78	15	0	15	69	1.20
34400281--34400320	14	2.9	14	84	0	53	32	7	17	42	1.77
34400304--34400343	20	2.0	20	90	0	62	27	10	12	50	1.72
34400289--34400355	34	1.9	35	87	3	100	32	8	11	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34402089--34402126	4	9.2	4	94	5	67	47	0	0	52	1.00
34402192--34402218	4	6.8	4	100	0	54	51	0	0	48	1.00
34403233--34403262	2	15.0	2	100	0	60	50	0	0	50	1.00
34403628--34403674	21	2.3	21	85	3	60	34	2	6	57	1.36
34410299--34410360	25	2.5	25	94	0	106	33	19	20	25	1.96
34415814--34416285	147	3.2	147	90	0	712	28	19	23	27	1.99
34423518--34423552	12	2.9	12	95	0	61	65	2	25	5	1.28
34427601--34427660	30	2.0	30	83	6	77	31	15	11	41	1.82
34433813--34433838	6	4.3	6	100	0	52	50	15	0	34	1.45
34435320--34435352	16	2.1	16	88	11	50	42	0	9	48	1.35
34438079--34438129	15	3.1	16	80	11	50	43	1	0	54	1.11
34438090--34438147	26	2.4	23	76	20	64	43	3	0	53	1.17
34438093--34438147	24	2.2	25	84	12	78	41	3	0	54	1.18
34438163--34438200	14	2.5	15	87	8	51	60	0	0	39	0.97
34438182--34438223	20	2.0	22	90	9	70	47	0	0	52	1.00
34438289--34438345	15	3.5	15	71	17	51	49	1	1	47	1.22
34440135--34440258	64	1.9	64	91	0	203	29	29	12	28	1.93
34442056--34442096	15	2.7	15	80	0	55	26	9	2	60	1.40
34444179--34444241	20	2.9	23	69	23	55	4	60	6	28	1.42
34445627--34445703	14	5.0	15	71	20	52	42	14	9	33	1.77
34445643--34445682	20	2.0	20	90	0	62	50	12	10	27	1.72
34445631--34445697	34	1.9	35	90	3	109	46	13	8	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34446181--34446229	16	3.1	15	75	18	55	71	0	0	28	0.86
34446164--34446233	23	2.9	24	83	12	74	65	2	0	31	1.07
34446179--34446231	15	3.5	14	73	16	52	69	0	0	30	0.88
34464581--34464793	110	1.9	110	86	0	300	39	23	10	26	1.86
34470671--34470711	16	2.7	15	85	7	64	29	21	24	24	1.99
34471786--34471840	24	2.3	24	84	6	67	40	0	3	56	1.17
34471812--34471882	32	2.3	28	77	17	70	42	1	5	50	1.34
34471982--34472037	29	1.9	29	85	7	78	28	12	16	42	1.84
34473455--34473805	90	3.8	90	83	6	431	22	17	25	34	1.95
34473738--34473876	70	2.0	70	85	0	188	23	19	20	37	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