genome.fa.s64.2.7.7.80.10.50.1000.38.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  38  of  45  ( 5312 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)
6689454--6689484	8	3.8	8	95	4	53	12	0	25	61	1.32
6689682--6689719	13	2.9	13	88	0	58	31	18	15	34	1.92
6691572--6691635	32	2.0	33	81	3	76	28	1	23	46	1.61
6692143--6692181	20	2.0	19	95	5	69	35	20	12	30	1.90
6692191--6692215	13	1.9	13	100	0	50	32	16	16	36	1.90
6692297--6692360	33	2.0	32	87	3	92	40	20	12	26	1.88
6693755--6693794	13	3.1	13	86	10	55	32	15	17	35	1.91
6695742--6695782	20	2.0	21	85	4	57	29	0	19	51	1.47
6695745--6695793	19	2.5	20	76	6	55	34	0	24	40	1.55
6696400--6696424	13	1.9	13	100	0	50	32	16	20	32	1.94
6696380--6696442	33	1.9	32	93	3	108	31	14	17	36	1.90
6696493--6696546	20	2.7	20	85	0	63	44	11	9	35	1.72
6705850--6705889	20	2.0	21	90	5	64	42	7	15	35	1.75
6706061--6706109	21	2.4	22	83	10	59	30	20	0	48	1.50
6706070--6706109	20	2.0	20	85	14	55	30	22	0	47	1.52
6708340--6708391	19	2.7	19	87	3	68	25	15	17	42	1.88
6709538--6709609	28	2.6	28	88	0	99	23	19	34	22	1.96
6709598--6709722	52	2.4	52	78	6	146	33	11	24	31	1.90
6712098--6712123	13	2.0	13	100	0	52	38	15	15	30	1.88
6712077--6712143	33	2.0	33	88	0	98	43	16	14	25	1.86
6712163--6712230	19	3.9	18	76	23	83	38	14	11	35	1.83
6712185--6712209	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6712166--6712228	32	2.0	32	96	0	117	36	15	12	34	1.86
6712505--6712555	20	2.6	19	87	12	68	33	15	17	33	1.92
6715760--6716046	92	3.1	91	79	6	283	40	8	18	33	1.80
6719353--6719433	15	5.1	15	70	14	56	59	1	8	30	1.35
6719354--6719402	15	2.9	17	79	14	57	59	0	10	30	1.31
6724956--6724993	16	2.5	15	83	8	51	50	0	2	47	1.15
6725518--6725647	66	2.0	65	89	1	197	56	10	0	33	1.38
6725529--6725681	66	2.3	65	81	6	175	55	13	0	30	1.43
6726623--6726813	74	2.6	73	85	5	233	54	6	1	37	1.37
6727371--6727418	14	3.4	14	83	11	62	64	2	0	33	1.05
6727371--6727428	29	2.0	28	83	9	73	60	1	0	37	1.07
6728996--6729034	20	1.9	21	89	5	62	46	0	2	51	1.14
6730960--6731012	22	2.3	23	90	3	81	69	0	16	13	1.18
6731657--6731702	23	2.0	23	95	0	83	71	13	6	8	1.29
6740203--6740254	22	2.4	22	96	3	97	48	5	7	38	1.56
6740393--6740458	26	2.5	26	77	18	66	56	6	4	33	1.44
6746805--6746880	20	3.8	19	77	16	73	39	14	13	32	1.85
6746805--6746902	41	2.4	40	81	6	108	39	15	11	33	1.83
6746866--6746905	20	2.0	20	90	0	62	35	17	5	42	1.71
6750935--6750983	23	2.1	24	85	7	66	26	2	8	63	1.34
6751624--6751664	20	2.0	20	86	9	57	43	4	4	46	1.46
6753348--6753395	16	2.9	16	76	11	53	52	4	0	43	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6753801--6753844	21	2.0	21	82	8	52	40	2	2	54	1.25
6754363--6754401	2	19.5	2	100	0	78	51	0	0	48	1.00
6754666--6754705	17	2.3	17	87	12	55	52	2	0	45	1.14
6755186--6755220	14	2.4	15	90	4	54	2	11	2	82	0.88
6755254--6755285	16	2.1	16	94	5	57	37	6	0	56	1.25
6755810--6755871	3	20.7	3	96	0	115	64	0	0	35	0.94
6755995--6756059	16	4.1	16	88	2	87	38	0	1	60	1.07
6756295--6756333	16	2.4	17	91	4	62	41	0	0	58	0.98
6756301--6756390	43	2.2	40	84	11	112	44	0	1	54	1.07
6756342--6756378	15	2.4	16	82	13	51	45	0	2	51	1.15
6757715--6757753	13	3.1	13	81	7	53	69	0	0	30	0.89
6757715--6757763	23	2.0	25	88	7	75	71	0	2	26	0.97
6767518--6767592	20	3.8	20	80	3	80	40	12	13	34	1.81
6767515--6767592	40	2.0	39	87	2	111	39	12	12	34	1.82
6773389--6773439	24	2.1	25	82	10	61	43	0	0	56	0.99
6773624--6773671	16	2.9	16	78	6	51	56	0	4	39	1.19
6774275--6774333	28	2.1	28	90	3	93	35	0	10	54	1.34
6774274--6774334	27	2.3	26	86	8	86	37	0	9	52	1.35
6775330--6775376	20	2.3	21	92	3	78	57	0	4	38	1.18
6775653--6775677	2	12.5	2	100	0	50	48	0	52	0	1.00
6776843--6776890	24	2.0	23	84	4	60	52	4	8	35	1.51
6781730--6781758	15	1.9	15	100	0	58	41	6	6	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6783063--6783091	2	14.5	2	100	0	58	51	0	0	48	1.00
6785643--6785778	51	2.7	51	89	2	202	27	18	11	43	1.83
6785623--6785730	20	4.8	20	72	22	90	27	18	11	42	1.84
6786640--6786678	21	2.0	21	85	10	55	23	20	10	46	1.81
6794778--6794836	29	2.0	29	100	0	118	28	10	13	47	1.75
6794782--6794845	29	2.2	29	88	5	94	28	15	10	45	1.80
6797034--6797078	19	2.4	19	88	7	65	44	11	13	31	1.78
6797043--6797079	19	1.9	19	100	0	74	40	10	10	37	1.75
6799076--6799100	13	1.9	13	100	0	50	32	8	12	48	1.69
6799681--6799705	13	1.9	13	100	0	50	32	16	16	36	1.90
6800272--6800336	34	1.9	34	87	0	94	32	12	23	32	1.91
6800767--6801162	166	2.4	165	79	7	417	45	7	13	33	1.72
6802515--6802566	19	2.7	20	78	6	61	36	9	17	36	1.82
6807364--6807394	16	1.9	16	93	0	53	25	16	19	38	1.92
6807952--6808108	58	2.7	56	76	10	156	26	7	14	50	1.69
6808030--6808174	28	5.1	29	66	15	104	27	7	13	51	1.68
6808144--6808253	57	1.9	59	83	3	143	24	10	16	48	1.78
6809013--6809116	39	2.7	39	82	5	122	36	5	20	37	1.76
6809315--6809631	91	3.5	91	77	8	281	40	5	17	36	1.73
6809723--6809749	12	2.2	12	100	0	54	18	14	0	66	1.25
6815602--6815745	77	1.9	76	85	2	200	54	15	2	27	1.52
6816788--6816976	72	2.6	71	86	12	258	55	10	0	33	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6817533--6817580	14	3.7	12	77	20	51	58	6	2	33	1.35
6817533--6817564	12	2.4	14	90	10	50	62	6	3	28	1.34
6818756--6818797	12	3.6	12	93	3	68	66	0	0	33	0.92
6823465--6823529	11	5.7	12	77	20	68	7	21	0	70	1.11
6823464--6823531	23	3.0	23	79	20	81	7	22	0	70	1.11
6823858--6824494	165	3.8	164	81	5	701	51	9	10	27	1.68
6823858--6824569	165	4.3	165	80	6	662	51	9	10	27	1.67
6823858--6824581	330	2.2	329	80	6	854	51	9	10	28	1.67
6827989--6828199	31	6.7	31	68	13	117	45	15	18	20	1.85
6834575--6834675	50	2.1	49	83	8	129	34	17	25	21	1.96
6834747--6835260	28	17.9	28	88	2	659	22	18	30	28	1.97
6836475--6836525	11	4.3	11	83	14	57	3	1	11	82	0.89
6850320--6850444	20	5.7	20	71	18	97	42	12	16	28	1.84
6851325--6851378	20	2.7	19	83	11	63	29	22	9	38	1.85
6852649--6852689	17	2.4	16	84	11	55	2	19	0	78	0.87
6852654--6852694	15	2.7	16	81	11	50	2	21	0	75	0.92
6852654--6852696	17	2.5	17	88	7	61	2	20	0	76	0.89
6866831--6866904	1	74.0	1	75	0	67	87	8	4	0	0.65
6866832--6866902	9	7.9	9	82	6	81	87	8	4	0	0.66
6866830--6866904	19	4.0	19	78	18	77	86	9	4	0	0.68
6866830--6866904	27	2.7	27	86	12	98	86	9	4	0	0.68
6866831--6866904	28	2.6	29	85	10	100	87	8	4	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6866833--6866904	36	2.0	37	88	2	110	87	8	4	0	0.66
6867875--6868409	55	9.4	54	85	8	608	27	27	20	25	1.99
6867879--6868409	110	4.7	109	88	5	677	27	27	20	25	1.99
6868025--6868216	27	7.0	27	60	5	80	28	25	21	25	1.99
6867878--6868409	165	3.1	164	86	6	701	27	27	20	25	1.99
6868450--6868668	60	3.6	61	82	6	277	25	28	21	25	1.99
6868450--6868668	121	1.8	121	86	5	318	25	28	21	25	1.99
6868690--6868794	42	2.5	42	84	4	131	17	25	13	43	1.85
6868811--6868910	42	2.4	42	81	8	116	18	29	11	42	1.84
6869663--6869689	13	2.1	13	100	0	54	29	14	7	48	1.71

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