genome.fa.s12.2.7.7.80.10.50.1000.115.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  115  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)
33477664--33477903	128	1.9	128	97	0	453	36	13	17	32	1.89
33479940--33480287	174	2.0	175	84	4	461	23	11	20	44	1.84
33484644--33484742	32	3.1	32	85	4	128	39	10	12	38	1.76
33492812--33492890	36	2.2	36	93	0	131	49	18	10	21	1.77
33499250--33499285	4	9.0	4	93	0	63	27	0	22	50	1.50
33502566--33502605	19	2.2	18	90	4	62	37	0	5	57	1.21
33502565--33502614	19	2.6	19	75	12	57	40	0	4	56	1.18
33502680--33502724	21	2.1	21	83	0	54	60	2	0	37	1.09
33511140--33511198	31	2.0	30	86	6	84	45	15	6	32	1.72
33511135--33511201	31	2.3	27	80	14	80	43	13	7	35	1.72
33513571--33513637	31	2.3	27	80	14	80	35	7	13	43	1.72
33514865--33514911	2	24.0	2	87	12	71	51	2	0	46	1.13
33522911--33522957	20	2.2	22	88	7	71	48	0	0	51	1.00
33525115--33525142	4	7.0	4	100	0	56	0	25	0	75	0.81
33526340--33526376	3	12.3	3	94	0	65	0	29	0	70	0.88
33530685--33530722	16	2.4	16	86	8	51	55	2	0	42	1.14
33530649--33530711	32	2.0	32	81	12	76	39	3	4	52	1.38
33533067--33533096	2	15.0	2	100	0	60	50	0	0	50	1.00
33533311--33533390	31	2.6	30	84	5	90	51	13	2	32	1.55
33534430--33534501	30	2.3	31	81	11	85	38	11	9	40	1.74
33545616--33545658	22	2.0	22	100	0	86	37	13	25	23	1.92
33547442--33547726	138	2.1	138	99	0	561	38	16	7	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33560469--33560516	13	3.6	13	75	13	53	2	12	4	81	0.93
33564884--33564938	24	2.2	24	84	12	67	27	5	3	63	1.33
33571629--33572064	51	8.6	52	76	8	335	31	26	16	26	1.96
33571674--33572060	151	2.5	153	81	4	408	31	26	15	26	1.96
33571731--33572060	102	3.3	102	86	2	407	31	26	14	27	1.95
33579821--33579909	33	2.7	33	83	0	124	38	22	4	34	1.75
33581194--33581410	107	2.0	107	94	1	382	31	18	11	38	1.87
33582220--33582284	33	2.0	33	84	0	85	32	4	23	40	1.75
33582417--33582452	16	2.2	16	90	9	56	19	2	0	77	0.88
33588484--33588572	33	2.7	33	83	0	124	34	4	22	38	1.75
33600302--33600426	31	4.1	31	76	6	119	41	14	19	24	1.88
33600349--33600498	82	1.8	81	82	4	194	41	19	18	20	1.91
33600453--33600563	29	3.8	29	70	13	91	42	18	18	19	1.90
33600432--33600557	60	2.1	60	86	2	173	41	19	19	20	1.91
33600448--33600586	60	2.3	60	82	4	165	41	17	18	22	1.91
33600482--33600689	85	2.4	91	76	8	207	39	16	19	25	1.91
33602457--33602488	14	2.3	14	100	0	64	6	15	46	31	1.71
33607580--33607611	14	2.3	14	100	0	64	6	15	46	31	1.71
33609843--33610108	134	2.0	134	85	1	356	42	7	19	30	1.79
33611522--33611575	19	2.8	19	80	2	54	70	1	0	27	0.98
33611850--33611967	19	6.5	17	70	25	66	34	0	0	63	1.06
33611849--33611967	9	13.0	9	69	21	70	35	0	0	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33611910--33611947	20	1.9	20	88	0	58	42	0	0	57	0.98
33613834--33613885	22	2.4	21	81	12	61	48	1	1	48	1.24
33615682--33615746	33	2.0	33	84	0	85	43	21	6	29	1.77
33620930--33621014	6	14.2	6	87	0	98	40	1	1	57	1.14
33620931--33621013	21	4.0	21	87	0	121	40	1	1	56	1.15
33631598--33631649	24	2.2	24	82	6	61	51	1	15	30	1.54
33634594--33634704	39	2.8	39	93	0	186	36	3	21	37	1.71
33639559--33639624	33	2.0	33	87	0	96	42	21	4	31	1.73
33642293--33642357	33	2.0	33	81	6	78	27	6	21	44	1.76
33645335--33645400	33	2.0	33	84	0	87	39	22	4	33	1.75
33646949--33646978	2	15.0	2	100	0	60	50	0	0	50	1.00
33647535--33647560	2	13.0	2	100	0	52	50	0	0	50	1.00
33648373--33648405	16	2.1	16	94	0	57	54	0	0	45	0.99
33650888--33651012	31	4.1	31	77	6	119	41	14	19	24	1.88
33651039--33651143	29	3.6	29	76	10	104	42	20	17	19	1.89
33651018--33651143	60	2.1	60	87	0	180	41	20	18	19	1.91
33651016--33651241	29	7.6	29	64	15	86	38	18	21	21	1.93
33651214--33651293	31	2.7	29	73	7	79	42	13	18	25	1.87
33653158--33653203	23	2.0	23	100	0	92	17	30	13	39	1.87
33655409--33655670	136	1.9	136	83	5	336	44	8	17	29	1.78
33657167--33657213	20	2.3	20	88	0	76	63	2	0	34	1.06
33657194--33657247	27	2.0	28	85	7	76	64	1	1	31	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33659626--33659711	21	4.2	20	74	14	68	36	0	1	62	1.03
33662831--33662869	2	19.5	2	100	0	78	51	0	48	0	1.00
33663014--33663089	30	2.5	30	83	10	84	28	21	7	42	1.81
33663545--33663575	7	4.4	7	95	0	53	9	3	0	87	0.66
33663533--33663575	13	3.2	13	83	6	50	11	4	2	81	0.93
33670157--33670192	2	18.5	2	94	5	65	52	0	47	0	1.00
33670347--33670431	30	2.8	30	94	0	143	24	23	7	44	1.78
33673327--33673351	10	2.5	10	100	0	50	0	8	0	92	0.40
33674772--33674838	3	22.3	3	100	0	134	32	0	0	67	0.91
33676996--33677216	43	5.1	43	89	1	311	24	18	26	31	1.97
33681406--33681451	16	2.8	17	76	6	58	52	2	8	36	1.45
33681555--33681585	16	1.9	16	93	0	53	35	6	9	48	1.62
33683157--33683217	22	2.9	22	70	18	58	29	0	6	63	1.19
33684141--33684187	21	2.0	24	84	15	64	46	2	0	51	1.13
33692888--33692924	14	2.6	15	83	12	51	40	0	0	59	0.97
33693891--33693915	2	12.5	2	100	0	50	48	0	0	52	1.00
33707641--33707673	16	2.0	16	94	5	57	60	0	0	39	0.97
33710238--33710284	2	23.5	2	100	0	94	48	0	0	51	1.00
33713009--33713185	43	4.1	43	83	2	214	28	27	16	26	1.97
33716642--33716710	31	2.2	31	89	0	102	42	8	13	36	1.75
33728325--33728374	21	2.4	21	93	0	82	4	48	16	32	1.64
33729942--33730080	46	3.0	45	86	2	188	27	23	10	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33740596--33740649	27	2.0	27	82	10	65	51	3	1	42	1.30
33740986--33741030	21	2.0	23	83	8	58	60	4	8	26	1.46
33741392--33741435	22	2.0	23	81	4	54	38	6	2	52	1.41
33745896--33745974	39	2.0	39	100	0	158	10	32	7	49	1.65
33746677--33746843	83	2.0	83	98	0	325	21	23	14	40	1.90
33752552--33752657	43	2.5	44	77	7	101	29	14	29	27	1.95
33752838--33752884	19	2.5	19	77	16	53	48	0	14	36	1.44
33755255--33755386	40	3.3	40	80	9	142	25	14	28	32	1.94
33755271--33755391	41	3.0	40	80	7	120	23	14	28	32	1.95
33759621--33759679	11	5.2	11	75	19	50	61	3	3	32	1.29
33766620--33766848	51	4.5	51	71	8	171	27	15	27	29	1.96
33766620--33766848	102	2.2	102	88	1	343	27	15	27	29	1.96
33774794--33774840	18	2.6	18	100	0	94	48	6	21	23	1.72
33774815--33774906	45	2.0	45	85	0	121	42	9	25	22	1.84
33775688--33775723	18	2.0	18	88	0	54	30	13	36	19	1.91
33786730--33786787	29	2.0	29	93	6	100	51	8	0	39	1.33
33787471--33787568	37	2.6	37	96	0	178	46	0	13	39	1.43
33787473--33787568	19	5.2	19	78	5	115	47	0	13	38	1.43
33788241--33788307	29	2.3	29	92	2	109	46	0	10	43	1.38
33788352--33788376	2	12.5	2	100	0	50	52	0	0	48	1.00
33792192--33792230	21	1.9	19	85	10	51	20	23	0	56	1.42
33795014--33795051	15	2.5	16	83	12	53	21	2	0	76	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33797850--33797887	17	2.2	17	86	9	51	52	13	0	34	1.40
33806388--33806763	90	4.3	87	73	11	259	52	18	10	18	1.73
33820552--33820600	24	2.0	24	100	0	98	38	12	28	20	1.89
33820675--33820721	23	2.1	23	84	7	62	44	2	0	53	1.12
33821236--33821298	21	3.0	21	76	0	63	30	22	20	26	1.98
33823369--33823399	7	4.4	7	100	0	62	12	0	38	48	1.42
33824176--33824221	13	3.4	14	82	8	51	69	0	4	26	1.07
33825192--33825240	21	2.4	21	86	3	64	32	28	26	12	1.92
33825224--33825281	23	2.7	21	77	12	73	32	22	25	18	1.97
33826317--33826360	3	14.7	3	83	9	54	59	2	0	38	1.10

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