genome.fa.s12.2.7.7.80.10.50.1000.90.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  90  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)
26771263--26771391	64	2.0	64	92	3	215	32	11	29	26	1.91
26772188--26772452	140	1.9	140	99	0	521	24	16	26	33	1.96
26772719--26772942	58	3.9	58	84	3	256	35	8	19	36	1.82
26773005--26773290	69	4.1	69	76	3	236	18	22	24	34	1.96
26782957--26782985	5	5.8	5	100	0	58	58	0	41	0	0.98
26785122--26785153	2	16.0	2	100	0	64	50	50	0	0	1.00
26786215--26786260	2	23.0	2	90	0	74	47	2	2	47	1.26
26789025--26789066	17	2.4	17	84	11	50	71	0	16	11	1.14
26791272--26791320	22	2.4	22	80	19	61	16	12	14	57	1.66
26791870--26791917	23	2.1	23	88	7	71	52	16	2	29	1.56
26793194--26793246	25	2.2	24	86	3	70	33	22	24	18	1.97
26793231--26793383	64	2.4	64	89	0	234	37	22	16	23	1.94
26802937--26802976	19	2.1	19	100	0	80	22	5	25	47	1.71
26807407--26807445	19	2.1	19	100	0	78	23	5	25	46	1.73
26809051--26809113	24	2.6	24	80	9	74	39	11	15	33	1.83
26809234--26809603	54	6.9	54	82	4	372	39	13	21	25	1.90
26809255--26809601	108	3.2	108	81	2	419	39	13	21	25	1.90
26809258--26809602	161	2.1	162	84	2	460	39	14	21	24	1.91
26826981--26827159	87	2.1	87	94	0	313	26	11	25	36	1.89
26828690--26828921	114	2.0	113	97	0	437	39	14	7	37	1.75
26829864--26829921	17	3.2	17	76	16	55	51	0	24	24	1.48
26829998--26830057	30	2.0	31	86	3	86	40	0	40	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26830193--26830233	21	2.0	21	85	9	57	43	0	31	24	1.54
26830271--26830298	9	3.1	9	100	0	56	32	10	10	46	1.73
26830489--26830599	31	3.7	30	78	8	100	33	10	14	41	1.80
26831481--26831530	26	1.9	26	83	0	64	34	6	4	56	1.43
26835041--26835132	30	3.4	29	78	18	92	53	4	1	41	1.28
26835040--26835106	29	2.3	29	82	12	77	56	4	1	37	1.29
26835055--26835131	24	3.0	24	80	16	66	55	3	0	40	1.18
26835774--26835840	32	2.1	32	83	8	82	49	4	5	40	1.48
26836103--26836143	13	3.2	13	83	16	50	36	29	14	19	1.92
26848756--26848797	22	1.9	22	85	0	57	57	23	9	9	1.60
26853634--26853780	19	7.4	19	73	18	104	29	1	14	54	1.48
26853616--26853807	101	1.8	106	88	9	297	29	1	14	54	1.49
26853598--26853811	101	2.1	98	79	9	234	29	1	14	54	1.48
26856261--26856312	26	2.0	26	100	0	104	34	19	11	34	1.88
26859306--26859366	27	2.3	27	82	0	77	24	31	21	22	1.98
26860098--26860123	11	2.4	11	100	0	52	38	15	7	38	1.76
26866951--26867141	36	5.0	36	81	12	229	28	20	13	37	1.90
26867023--26867173	46	3.5	46	78	17	205	28	21	12	37	1.90
26866987--26867173	82	2.3	82	93	0	320	28	21	11	37	1.89
26866908--26867136	118	2.0	115	92	2	386	28	20	13	37	1.90
26869642--26869789	73	2.0	73	92	0	242	20	20	14	44	1.86
26884421--26884447	11	2.5	11	100	0	54	25	33	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26888039--26888189	19	7.8	19	92	2	257	37	10	15	36	1.82
26888040--26888196	59	2.7	59	95	3	277	38	10	14	36	1.80
26888205--26888279	37	2.0	37	100	0	150	30	16	10	42	1.81
26895085--26895567	133	3.6	133	92	1	774	27	19	24	28	1.99
26895583--26895693	19	5.8	19	93	0	195	37	10	15	36	1.82
26897024--26897219	98	2.0	98	95	0	356	28	9	25	37	1.87
26902815--26902888	18	3.9	19	80	7	80	64	9	2	22	1.36
26902913--26902956	18	2.4	18	84	0	52	50	2	0	47	1.13
26903091--26903139	17	2.8	18	75	12	57	22	2	6	69	1.21
26912380--26912418	20	2.0	19	85	14	53	28	28	2	41	1.69
26918810--26918934	50	2.4	52	77	5	130	35	14	14	36	1.87
26921376--26921428	21	2.5	21	90	0	79	15	24	39	20	1.91
26922950--26923108	36	4.6	35	68	11	103	28	18	25	28	1.98
26923015--26923108	33	2.8	33	78	4	98	26	20	27	25	1.99
26922879--26923108	70	3.3	70	87	0	318	29	17	23	28	1.97
26923295--26923356	28	2.2	29	85	8	83	41	14	19	24	1.88
26926591--26926622	16	1.9	17	93	6	57	75	3	18	3	1.08
26927533--26927644	25	4.7	24	78	12	108	17	21	19	41	1.91
26932575--26932605	16	1.9	16	93	0	53	9	9	9	70	1.33
26937503--26937539	18	2.1	18	89	0	56	13	16	29	40	1.86
26963686--26963921	46	5.6	45	80	13	231	35	12	21	30	1.91
26963727--26963830	36	2.9	36	94	0	181	39	9	20	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26966770--26966821	20	2.7	20	88	5	72	44	0	7	48	1.31
26966784--26966823	20	2.0	20	100	0	80	35	0	10	55	1.34
26967523--26967560	19	2.1	19	90	5	60	39	0	5	55	1.23
26968115--26968144	12	2.5	12	94	0	51	53	0	10	36	1.35
26969382--26969549	23	7.3	23	87	2	223	30	23	22	23	1.99
26969382--26969549	69	2.4	69	91	0	273	30	23	22	23	1.99
26973549--26973601	3	18.0	3	84	3	72	32	3	1	62	1.24
26973968--26974012	2	22.5	2	100	0	90	51	0	0	48	1.00
26974313--26974623	109	2.9	109	89	1	457	30	16	19	33	1.94
26975582--26975640	25	2.3	26	82	8	68	69	1	0	28	0.98
26981501--26981695	98	2.0	98	92	0	327	36	25	9	28	1.87
26981968--26981992	9	2.8	9	100	0	50	68	8	0	24	1.16
26983006--26983050	23	2.0	23	91	4	74	48	15	4	31	1.65
26983039--26983131	19	4.8	19	90	5	150	36	15	10	37	1.82
26983039--26983131	40	2.4	38	92	3	150	36	15	10	37	1.82
26993322--26993380	22	2.7	22	84	7	68	33	0	38	27	1.57
26993425--26993486	25	2.5	24	79	7	70	12	0	32	54	1.38
26993425--26993485	12	4.9	12	76	7	50	13	0	32	54	1.39
26993627--26993671	6	7.2	6	83	16	56	77	0	2	20	0.87
26993616--26993676	17	3.7	15	77	16	50	78	3	1	16	0.96
26993622--26993665	17	2.4	19	88	7	65	79	2	2	15	0.93
26993627--26993695	29	2.4	29	76	11	70	73	0	4	21	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27003864--27003895	2	16.0	2	93	0	55	53	0	0	46	1.00
27011152--27011249	51	1.9	51	89	4	153	32	11	20	35	1.88
27011491--27011528	19	2.0	19	100	0	76	36	15	10	36	1.82
27016587--27016650	24	2.7	24	77	0	74	35	1	9	53	1.43
27024663--27024838	50	3.6	50	77	4	171	22	22	22	32	1.98
27026535--27028700	884	2.5	881	88	1	3175	37	16	13	31	1.88
27029124--27029242	13	8.5	15	65	13	65	27	16	24	31	1.97
27029115--27029246	28	4.7	28	79	1	131	26	18	24	31	1.97
27029239--27029374	24	5.7	24	75	5	87	33	16	19	30	1.93
27029310--27029391	23	3.5	24	77	9	89	32	15	19	31	1.93
27029364--27029586	58	3.8	58	80	6	218	37	12	17	32	1.87
27029564--27029608	18	2.6	18	89	3	65	35	8	22	33	1.85
27029755--27029797	16	2.8	16	78	3	52	27	23	20	27	1.99
27029804--27029863	15	3.9	16	77	16	65	20	11	33	35	1.88
27031966--27032003	20	1.9	20	88	0	58	57	0	7	34	1.28
27033371--27033412	22	1.9	22	85	0	57	26	2	9	61	1.39
27037402--27037453	16	3.2	16	91	0	77	28	1	36	32	1.69
27037434--27037524	45	2.0	44	82	2	110	32	6	27	32	1.83
27037673--27037723	20	2.9	18	76	23	56	56	0	0	43	0.99
27037784--27037829	16	2.9	16	78	12	51	52	2	0	45	1.13
27037784--27037838	15	3.7	15	79	13	53	52	1	0	45	1.11
27038001--27038253	91	2.8	91	98	0	479	46	2	3	47	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27042593--27042637	18	2.5	18	100	0	90	20	17	20	42	1.90
27044902--27045105	40	5.1	40	82	0	246	41	25	18	14	1.89
27053918--27053957	19	2.0	20	85	4	55	45	5	7	42	1.54
27056876--27056967	43	2.1	43	85	0	121	6	18	18	56	1.62
27057544--27057585	22	2.0	22	85	4	59	54	23	4	16	1.61
27059438--27059523	27	3.2	27	78	6	102	22	25	15	37	1.93
27064809--27064976	54	3.1	54	63	13	130	49	20	9	20	1.76
27064775--27064983	106	2.0	106	95	0	373	48	20	10	20	1.79
27071625--27071715	41	2.3	40	83	5	105	29	26	18	25	1.98
27072212--27072265	12	4.2	12	74	21	56	44	9	3	42	1.54

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