genome.fa.s12.2.7.7.80.10.50.1000.116.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  116  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)
33826319--33826362	22	2.0	22	86	8	63	56	2	0	40	1.11
33826317--33826366	24	2.0	24	88	3	73	54	2	0	44	1.11
33827466--33827499	18	1.9	18	88	5	52	61	5	2	29	1.34
33834908--33834950	2	21.5	2	100	0	86	48	0	0	51	1.00
33836031--33836086	29	1.9	29	82	7	69	17	44	21	16	1.86
33836996--33837020	13	1.9	13	100	0	50	24	8	28	40	1.83
33839553--33839637	41	2.1	41	95	0	152	45	14	30	9	1.76
33839713--33839759	23	2.0	23	91	0	76	48	23	27	0	1.51
33841321--33841365	21	2.1	21	91	0	72	24	22	28	24	1.99
33842179--33842355	75	2.3	76	88	1	248	24	17	25	32	1.97
33842257--33842459	104	2.0	103	91	1	325	22	19	26	32	1.97
33842362--33842495	33	3.7	34	73	18	128	20	20	27	31	1.97
33842149--33842494	179	1.9	179	91	2	570	23	19	26	30	1.98
33844333--33844392	9	6.9	9	80	12	63	0	26	0	73	0.84
33844339--33844392	3	18.3	3	76	3	56	0	27	0	72	0.85
33844344--33844392	12	4.2	12	84	5	73	0	28	0	71	0.86
33854599--33854639	2	20.5	2	89	0	64	51	48	0	0	1.00
33861375--33861399	12	2.1	12	100	0	50	32	16	16	36	1.90
33869940--33869974	18	1.9	18	100	0	70	37	0	5	57	1.23
33871341--33871378	16	2.4	16	86	4	51	42	0	2	55	1.14
33873951--33873981	16	1.9	16	93	0	53	64	9	12	12	1.50
33876287--33876803	255	2.0	255	98	0	1007	35	20	13	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33906686--33906730	22	2.0	24	91	8	76	53	0	22	24	1.46
33909540--33909584	11	3.9	12	77	16	51	24	31	2	42	1.67
33909553--33909652	51	2.0	51	84	4	130	26	25	4	45	1.71
33910696--33911135	128	3.5	126	86	2	539	30	22	16	30	1.96
33912324--33912361	18	2.1	18	85	9	51	26	0	0	73	0.83
33918387--33918508	10	11.6	10	74	17	79	70	0	29	0	0.88
33918384--33918540	34	4.7	34	76	15	141	68	0	31	0	0.95
33918374--33918547	69	2.6	67	82	8	210	67	0	31	0	0.95
33918372--33918509	31	4.8	31	75	17	120	68	0	31	0	0.90
33918983--33919222	120	2.0	116	82	9	290	55	7	8	28	1.59
33923299--33923347	25	1.9	26	83	4	64	57	12	0	30	1.36
33923427--33923463	10	3.6	10	88	3	56	0	29	0	70	0.88
33923537--33923631	27	3.5	27	82	2	102	18	28	33	18	1.95
33924228--33924284	16	3.6	16	95	0	87	29	0	36	33	1.58
33924519--33924653	15	8.9	15	65	24	61	50	3	2	43	1.32
33924579--33924669	44	2.1	43	81	6	103	53	3	2	40	1.29
33924738--33924773	17	2.2	16	86	13	56	47	0	5	47	1.25
33924742--33924787	17	2.5	20	86	13	71	45	2	6	45	1.41
33924794--33924988	93	2.1	92	88	4	286	47	4	4	44	1.41
33931494--33931591	43	2.3	43	92	0	160	33	29	17	19	1.95
33933356--33933510	7	21.7	7	74	11	91	45	34	1	18	1.60
33933356--33933412	8	7.8	8	74	16	52	38	43	0	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33933360--33933412	15	3.6	15	84	2	63	35	47	0	16	1.48
33933925--33933978	21	2.5	21	82	8	56	61	1	0	37	1.07
33933997--33934186	41	4.7	40	87	5	247	28	28	21	22	1.99
33934254--33934387	40	3.3	40	83	5	146	19	19	20	40	1.92
33934915--33934963	14	3.4	14	76	13	55	30	2	0	67	1.02
33934922--33935009	29	2.9	30	86	11	119	32	2	1	63	1.14
33944486--33944548	27	2.3	27	79	15	76	26	25	20	26	1.99
33965724--33965775	24	2.2	24	85	0	68	53	9	3	32	1.51
33967173--33967209	5	7.4	5	87	0	56	78	2	2	16	0.98
33967163--33967209	15	3.1	15	84	0	67	76	4	6	12	1.12
33968431--33968470	17	2.4	16	88	8	62	60	5	2	32	1.32
33968585--33968706	60	2.0	60	88	3	183	54	12	0	32	1.44
33968694--33968742	21	2.3	22	92	7	91	59	12	0	28	1.34
33968716--33968863	61	2.4	61	93	1	253	56	13	0	29	1.42
33968842--33968964	19	6.2	19	67	22	65	54	13	1	30	1.48
33968781--33969028	80	3.1	80	94	2	442	56	12	0	30	1.42
33968683--33968942	141	1.8	142	94	1	468	56	12	0	30	1.40
33968917--33968965	21	2.3	22	89	7	82	57	12	2	28	1.46
33968781--33969024	82	3.0	82	95	1	438	56	12	0	29	1.41
33970204--33970228	13	1.9	13	100	0	50	16	0	0	84	0.63
33975443--33975503	22	2.7	21	78	16	52	50	0	3	45	1.17
33980232--33980286	29	1.9	29	92	3	94	41	20	14	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33983258--33983300	23	1.9	22	85	4	59	9	0	25	65	1.22
33985698--33985789	19	4.8	19	71	14	66	67	2	1	29	1.09
33986222--33986275	19	2.7	19	78	13	56	35	0	3	61	1.14
33986240--33986339	48	2.2	44	81	16	114	34	4	5	57	1.39
33986357--33986447	8	10.6	8	70	20	51	30	2	1	65	1.11
33986326--33986414	26	3.3	27	77	17	80	34	1	1	62	1.10
33986348--33986402	26	2.2	25	90	9	85	29	1	0	69	0.99
33986418--33986447	15	2.1	15	93	6	53	30	0	0	70	0.88
33990524--33990624	50	2.0	50	100	0	202	27	26	13	31	1.94
34002577--34002627	19	2.6	19	85	14	61	58	5	0	35	1.22
34011270--34011294	2	12.5	2	100	0	50	52	0	0	48	1.00
34017299--34017329	15	2.0	16	93	6	55	58	0	0	41	0.98
34023295--34023380	30	2.9	29	80	13	77	39	1	8	51	1.39
34023397--34023426	12	2.6	12	94	5	53	50	6	0	43	1.28
34023520--34023605	31	2.9	30	75	5	84	39	10	12	37	1.78
34026232--34026266	18	1.9	18	94	0	61	48	5	8	37	1.58
34033695--34033726	2	16.5	2	93	6	57	46	0	0	53	1.00
34043319--34043351	2	16.5	2	100	0	66	51	0	0	48	1.00
34046811--34046868	29	2.0	29	90	3	91	43	13	1	41	1.55
34047722--34047838	31	3.9	30	71	18	82	41	5	15	37	1.69
34067993--34068274	125	2.3	125	84	4	363	34	23	13	28	1.93
34074279--34074324	14	3.2	14	81	3	56	69	4	0	26	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34074269--34074324	29	1.9	29	85	7	78	67	3	3	25	1.22
34075763--34075970	110	1.9	110	93	3	364	21	23	17	37	1.93
34082493--34082542	24	2.1	24	96	0	91	46	26	14	14	1.81
34083341--34083397	28	2.1	27	90	6	89	24	0	22	52	1.47
34083347--34083408	28	2.2	28	91	0	97	22	0	24	53	1.46
34083772--34083815	17	2.5	17	88	3	61	47	9	6	36	1.62
34088562--34088593	2	16.0	2	100	0	64	0	50	0	50	1.00
34090815--34090854	16	2.5	16	83	0	53	60	0	5	35	1.19
34093220--34093279	31	1.9	31	93	0	102	30	10	13	46	1.75
34094883--34094963	31	2.6	32	82	5	87	55	11	7	25	1.61
34098826--34099266	223	2.0	223	86	0	623	32	17	13	36	1.88
34114729--34114798	36	2.0	35	91	2	113	32	8	27	31	1.87
34115100--34115191	48	1.9	48	86	0	130	21	14	19	44	1.86
34119918--34119988	35	2.0	35	89	5	108	30	8	28	32	1.87
34120287--34120380	48	2.0	48	89	0	143	18	14	22	44	1.86
34125123--34125524	43	9.5	42	82	5	414	20	35	27	15	1.94
34125106--34125524	85	4.9	85	83	4	391	20	36	27	15	1.93
34125123--34125520	127	3.1	127	84	4	469	20	35	27	15	1.93
34136560--34136948	193	2.0	193	98	0	751	40	13	11	34	1.81
34147786--34147821	2	18.0	2	100	0	72	50	0	0	50	1.00
34149337--34149375	21	1.9	20	89	5	60	30	51	0	17	1.46
34149379--34149409	3	10.3	3	92	0	53	0	64	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34149476--34149555	39	2.1	39	90	4	126	32	43	3	20	1.69
34155053--34155087	17	2.1	17	88	0	52	57	20	0	22	1.41
34158647--34158697	26	2.0	26	100	0	102	39	23	3	33	1.73
34159106--34159153	24	2.0	24	95	0	87	25	25	6	43	1.77
34159151--34159390	101	2.4	101	89	0	363	28	25	15	31	1.95
34160353--34160409	16	3.6	16	95	0	87	28	0	38	33	1.57
34160649--34160683	18	2.0	17	88	5	52	54	0	0	45	0.99
34167499--34167568	33	2.1	33	86	5	97	27	32	5	34	1.80
34168132--34168168	2	18.5	2	100	0	74	51	0	0	48	1.00
34168265--34168352	43	2.1	41	93	4	149	27	9	7	55	1.59

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