genome.fa.s12.2.7.7.80.10.50.1000.89.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  89  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)
26481065--26481859	65	12.2	67	80	9	678	23	1	30	44	1.62
26482431--26482473	18	2.4	18	84	0	59	46	9	27	16	1.77
26483091--26483221	7	18.7	7	98	0	253	58	13	0	28	1.36
26484424--26484499	11	6.8	12	81	15	92	44	0	30	25	1.54
26484365--26484462	51	1.9	51	83	4	126	46	2	24	26	1.63
26484424--26484500	33	2.3	33	86	10	120	45	0	29	24	1.54
26486629--26486865	93	2.5	93	85	4	289	35	14	10	38	1.82
26497038--26497077	21	2.0	20	85	5	53	75	2	20	2	1.04
26499079--26499167	34	2.6	34	81	10	110	14	15	25	43	1.85
26499146--26499236	45	2.0	45	97	0	173	24	14	23	38	1.91
26507465--26507820	71	5.0	71	81	3	401	25	16	25	32	1.96
26509832--26509922	45	2.0	44	85	2	119	30	5	29	34	1.80
26510067--26510108	15	2.7	16	82	14	52	52	2	0	45	1.13
26510076--26510117	15	2.9	15	82	10	52	52	0	0	47	1.00
26510065--26510386	107	3.0	107	96	1	592	48	5	1	43	1.38
26510170--26510215	16	2.9	16	78	12	51	52	2	0	45	1.13
26510170--26510224	15	3.7	15	79	13	53	52	1	0	45	1.11
26510437--26510711	47	5.9	45	69	22	187	47	2	2	46	1.32
26510394--26510732	91	3.6	94	89	5	315	48	2	2	46	1.30
26510496--26510730	44	5.2	43	71	20	194	48	2	2	45	1.29
26510471--26510729	91	2.8	91	97	0	482	47	2	3	46	1.32
26511727--26511762	17	2.1	17	100	0	72	41	16	0	41	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26513290--26513350	27	2.3	27	85	0	77	22	4	31	40	1.75
26518779--26518821	18	2.3	19	84	15	63	39	4	0	55	1.20
26520303--26520334	14	2.1	16	88	11	50	43	0	3	53	1.16
26521582--26521708	61	2.1	60	85	8	168	61	18	6	13	1.53
26525562--26525663	47	2.2	47	86	10	138	41	0	26	32	1.56
26527073--26527110	20	2.0	20	89	5	60	5	31	21	42	1.75
26532412--26532465	21	2.6	21	82	5	65	9	22	18	50	1.75
26533664--26533712	22	2.3	22	92	3	82	73	12	14	0	1.10
26542077--26542423	189	1.8	189	86	2	500	38	19	23	18	1.93
26549685--26549716	16	1.9	17	93	6	57	56	3	0	40	1.15
26576309--26576348	19	2.1	19	90	0	62	22	30	25	22	1.99
26577105--26577158	15	3.5	15	78	16	58	44	5	7	42	1.55
26582310--26582473	25	6.6	25	73	6	82	23	14	25	37	1.92
26582334--26582729	50	7.9	50	82	1	400	25	14	24	36	1.93
26582356--26582731	25	15.0	25	71	7	226	24	14	24	36	1.93
26591033--26591392	27	13.4	27	79	6	288	18	19	19	42	1.90
26591033--26591392	54	6.7	54	79	4	370	18	19	19	42	1.90
26591033--26591392	81	4.5	82	81	4	385	18	19	19	42	1.90
26599932--26600381	51	8.9	51	75	6	387	30	14	25	29	1.95
26599931--26600381	102	4.4	102	87	2	581	30	14	25	29	1.95
26601721--26601789	11	6.4	11	75	14	54	62	0	2	34	1.10
26601711--26601778	31	2.2	31	97	0	127	60	0	2	36	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26601804--26601829	11	2.4	11	100	0	52	53	0	7	38	1.30
26606243--26606347	51	2.2	46	86	8	138	53	9	4	32	1.54
26613211--26613375	43	3.8	43	91	1	242	32	27	15	24	1.95
26617895--26617950	28	2.0	28	89	0	85	48	17	14	19	1.81
26633041--26633093	3	17.7	3	100	0	106	66	0	0	33	0.92
26637077--26637128	25	2.1	25	92	0	86	44	23	7	25	1.79
26642587--26642673	2	43.5	2	100	0	174	49	0	0	50	1.00
26647092--26647126	15	2.3	15	95	0	61	51	17	14	17	1.77
26649818--26649866	24	2.0	24	100	0	98	38	16	16	28	1.90
26650564--26650668	45	2.3	46	83	4	133	28	20	21	28	1.99
26650567--26650808	44	5.4	45	75	7	172	30	19	21	28	1.97
26650746--26650883	73	1.9	73	83	5	181	27	23	24	24	2.00
26650861--26650993	44	3.0	44	84	2	160	33	18	18	28	1.95
26651027--26651456	225	1.9	222	81	5	508	33	16	21	28	1.95
26651379--26651502	44	2.8	44	76	10	137	30	19	20	29	1.97
26651563--26651831	89	3.0	89	79	6	294	28	23	23	24	2.00
26651841--26652254	131	3.1	131	85	1	569	29	20	24	25	1.99
26652538--26652568	14	2.2	14	94	0	53	70	16	0	12	1.16
26652681--26652738	19	2.7	22	84	10	68	36	8	17	37	1.80
26653513--26653538	2	13.0	2	100	0	52	50	0	0	50	1.00
26656327--26656489	89	1.8	89	81	7	206	33	20	12	33	1.90
26656757--26656866	30	3.8	30	75	9	97	34	8	1	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26656883--26656942	19	3.1	19	76	11	59	33	1	0	65	1.03
26657961--26658007	22	2.2	21	92	3	76	59	6	21	12	1.55
26662886--26662937	23	2.3	23	89	0	77	3	13	7	75	1.17
26662890--26662939	21	2.3	21	93	3	82	6	12	8	74	1.22
26662891--26662957	22	3.1	22	81	10	59	4	14	7	73	1.22
26664213--26664342	49	2.7	49	92	0	224	39	23	14	23	1.91
26664256--26664338	27	3.3	27	68	16	86	40	21	12	25	1.88
26664246--26664326	26	3.2	26	66	16	80	43	18	16	22	1.88
26667070--26667161	25	3.7	25	81	8	100	32	18	25	23	1.97
26668681--26668711	9	3.4	9	90	0	53	25	12	22	38	1.90
26669005--26669064	30	2.0	31	86	3	86	20	40	0	40	1.52
26669869--26669894	5	5.2	5	100	0	52	19	19	19	42	1.90
26676023--26676080	28	2.1	28	90	0	89	32	12	6	48	1.67
26676732--26676808	3	25.7	3	100	0	154	0	33	0	66	0.92
26680972--26681327	143	2.5	143	89	4	542	53	4	8	33	1.51
26683346--26683440	47	2.0	47	97	0	181	26	7	34	31	1.84
26687444--26687468	11	2.3	11	100	0	50	8	28	8	56	1.57
26691844--26691883	20	2.0	20	95	0	71	32	25	12	30	1.92
26701852--26701908	3	18.7	3	78	10	53	33	8	0	57	1.29
26704086--26704184	52	2.0	48	82	7	117	27	14	17	41	1.87
26708195--26708225	2	15.5	2	100	0	62	51	0	0	48	1.00
26713566--26713604	2	19.0	2	94	5	69	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26714874--26714898	12	2.1	12	100	0	50	16	0	0	84	0.63
26715202--26715505	113	2.7	113	88	1	432	33	16	22	27	1.95
26716694--26716786	21	4.4	21	87	0	123	36	18	41	3	1.66
26717173--26717297	43	3.0	43	90	3	184	24	21	20	33	1.97
26719318--26719374	27	2.1	27	83	6	71	52	1	12	33	1.49
26719517--26719566	20	2.6	19	78	6	55	28	0	10	62	1.27
26721667--26721691	12	2.1	12	100	0	50	76	8	8	8	1.18
26724317--26724346	15	2.0	15	93	0	51	46	3	6	43	1.46
26727817--26727869	21	2.5	21	100	0	106	28	43	9	18	1.81
26728151--26728268	57	2.1	58	86	1	166	39	15	21	23	1.91
26735221--26735495	41	6.7	41	91	0	433	28	20	28	22	1.99
26735796--26735865	35	2.0	35	85	0	95	41	11	14	32	1.81
26742403--26742623	41	5.4	41	94	0	388	28	20	29	21	1.98
26745231--26745308	40	2.0	40	82	10	97	33	24	2	39	1.69
26746541--26746605	24	2.9	23	78	17	73	44	1	0	53	1.09
26747486--26747627	25	5.7	25	70	12	112	37	22	14	25	1.92
26747479--26747629	50	3.0	50	85	2	205	38	21	14	25	1.92
26749988--26750018	16	1.9	16	93	0	53	38	3	35	22	1.71
26750187--26750228	15	2.7	16	82	14	52	52	2	0	45	1.13
26750196--26750237	15	2.9	15	82	10	52	52	0	0	47	1.00
26750185--26750721	120	4.5	120	94	0	898	48	5	2	43	1.40
26750447--26750481	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26754255--26754388	19	6.7	21	78	10	77	40	14	6	38	1.72
26754255--26754312	22	2.6	22	81	7	64	41	17	5	36	1.72
26754291--26754401	19	5.8	19	89	0	177	37	13	9	39	1.76
26754291--26754394	38	2.7	38	98	0	199	38	12	8	40	1.74
26754730--26755030	132	2.3	131	92	2	487	28	24	18	28	1.98
26755131--26755985	132	6.5	132	94	0	1440	29	24	17	28	1.97
26755180--26755512	44	7.6	45	64	14	129	28	24	18	29	1.98
26755708--26755902	44	4.4	44	67	12	121	29	25	15	29	1.96
26761485--26761518	4	8.2	4	87	6	50	73	0	2	23	0.97
26761485--26761520	13	2.8	13	91	4	56	72	0	2	25	0.98

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