genome.fa.s29.2.7.7.80.10.50.1000.33.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   

This is table  33  of  34  ( 4030 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)
5263168--5263641	157	3.1	155	77	11	433	37	22	19	21	1.95
5263343--5263641	144	2.1	144	84	4	379	35	22	20	21	1.96
5265143--5265233	25	3.6	25	80	0	92	10	25	17	46	1.81
5267720--5267988	84	3.2	82	70	13	208	45	10	24	19	1.81
5267607--5268148	167	3.2	165	81	6	621	43	12	25	18	1.85
5268118--5268291	84	2.1	84	98	0	339	35	16	28	19	1.93
5268296--5268709	84	4.9	82	81	5	429	35	14	29	21	1.92
5268381--5268691	43	7.4	43	65	13	146	35	14	29	20	1.93
5268296--5268694	168	2.4	168	83	3	518	35	14	29	21	1.93
5269158--5269511	37	8.9	37	71	17	144	35	15	27	20	1.94
5269121--5269614	123	4.0	123	75	12	364	36	15	27	20	1.93
5269121--5269350	80	2.9	80	84	1	291	36	15	28	20	1.93
5269121--5269583	203	2.3	203	84	1	588	36	15	28	20	1.93
5269320--5269590	80	3.3	80	81	9	332	36	15	27	20	1.93
5272474--5272602	52	2.5	52	100	0	258	27	17	18	35	1.94
5272666--5272727	32	1.9	33	93	3	108	37	14	14	33	1.87
5273587--5273653	22	3.1	22	64	20	59	31	16	23	28	1.96
5273565--5273653	43	2.1	43	95	0	160	31	16	23	28	1.96
5274428--5274742	154	2.1	152	80	5	348	39	22	16	21	1.92
5274429--5274961	150	3.5	151	77	6	468	40	20	16	22	1.91
5275142--5275743	79	7.6	79	81	4	570	34	13	24	27	1.93
5275145--5275743	236	2.5	236	82	4	670	34	13	24	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5278075--5278140	21	3.2	20	70	21	55	45	12	15	27	1.81
5280863--5280888	13	2.0	13	100	0	52	30	15	15	38	1.88
5283426--5283451	13	2.0	13	100	0	52	38	15	15	30	1.88
5283437--5283516	20	3.8	20	76	15	79	42	13	15	28	1.85
5289626--5289651	13	2.0	13	100	0	52	30	15	15	38	1.88
5290869--5292363	61	24.3	61	79	5	1496	25	23	19	32	1.98
5290865--5292363	248	6.1	241	79	7	1364	25	23	19	32	1.97
5292347--5292572	42	5.4	43	77	9	200	21	23	12	42	1.87
5292351--5292572	84	2.7	81	82	11	256	22	22	12	42	1.87
5292630--5292737	42	2.5	42	88	4	155	19	28	14	37	1.92
5295930--5296277	79	4.4	77	80	9	355	28	24	12	35	1.91
5298558--5298582	13	1.9	13	100	0	50	36	16	16	32	1.90
5298538--5298604	33	2.0	33	88	0	98	32	11	14	40	1.83
5298645--5298669	13	1.9	13	100	0	50	32	16	16	36	1.90
5298677--5298808	52	2.5	53	92	2	223	32	18	16	31	1.94
5301690--5301831	71	2.0	71	97	0	266	26	26	16	31	1.96
5309898--5310510	317	1.9	317	99	0	1208	33	17	20	28	1.95
5312977--5313080	1	104.0	1	76	0	100	88	11	0	0	0.52
5312975--5313088	11	10.5	11	82	12	137	86	13	0	0	0.56
5312980--5313088	28	3.9	27	82	16	134	87	12	0	0	0.55
5312977--5313084	30	3.7	28	81	17	130	87	12	0	0	0.53
5314447--5314589	30	4.9	30	78	8	141	30	27	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5314593--5314683	35	2.6	36	77	8	100	20	27	12	39	1.88
5314657--5315027	58	6.2	59	71	13	242	29	29	15	25	1.96
5314650--5315003	30	11.9	29	75	10	218	27	29	15	27	1.96
5314657--5314880	88	2.6	86	83	3	261	29	29	17	22	1.97
5314865--5314956	35	2.7	36	80	8	111	20	29	11	38	1.89
5314445--5315003	263	2.1	263	93	3	947	27	28	15	28	1.96
5314930--5315027	28	3.4	28	87	2	124	35	30	16	17	1.92
5314930--5315053	28	4.3	28	82	7	117	36	31	15	16	1.90
5315170--5315258	43	2.1	43	93	0	151	26	23	17	31	1.97
5315080--5315311	92	2.4	95	83	9	292	26	24	16	32	1.96
5315212--5315333	52	2.3	55	84	4	169	26	24	13	36	1.92
5315212--5315349	52	2.6	52	82	3	168	26	24	14	34	1.94
5316193--5316217	13	1.9	13	100	0	50	36	16	16	32	1.90
5316173--5316239	33	2.0	33	88	0	98	32	11	14	40	1.83
5316313--5316441	52	2.5	52	92	0	204	35	18	15	30	1.92
5319328--5319469	71	2.0	71	98	0	275	23	24	18	33	1.97
5324174--5324249	32	2.4	32	86	4	111	28	14	13	43	1.83
5326001--5326036	18	2.0	18	100	0	72	33	0	16	50	1.46
5326629--5326837	97	2.1	97	80	4	233	25	22	16	34	1.95
5330336--5330417	28	2.9	28	83	7	96	25	17	32	24	1.96
5330400--5330785	52	7.4	51	71	12	219	33	12	24	29	1.93
5330492--5330621	51	2.5	52	84	1	172	33	14	24	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5330663--5330785	51	2.3	53	87	6	171	31	11	24	32	1.91
5333149--5333174	13	2.0	13	100	0	52	38	15	15	30	1.88
5333128--5333194	33	2.0	33	88	0	98	43	16	14	25	1.86
5333305--5333361	21	2.7	21	91	0	87	38	15	10	35	1.82
5333817--5334161	154	2.2	153	81	4	401	38	20	17	24	1.93
5335643--5336092	168	2.7	167	92	3	735	51	8	10	29	1.66
5337084--5337109	13	2.0	13	100	0	52	30	15	15	38	1.88
5337807--5337850	21	2.1	21	83	8	54	25	31	4	38	1.76
5341750--5341780	15	2.1	15	93	0	53	12	22	16	48	1.80
5343587--5343631	21	2.1	21	84	8	56	22	20	4	53	1.63
5351476--5352216	156	4.8	154	82	3	768	38	21	17	22	1.93
5351662--5352233	311	1.8	312	83	2	740	38	21	17	22	1.93
5352244--5352631	158	2.4	157	83	5	474	38	19	17	23	1.92
5354144--5354173	10	3.0	10	90	0	51	0	16	0	83	0.65
5354135--5354182	22	2.2	22	85	7	62	0	18	2	79	0.84
5354980--5355448	166	2.8	166	84	4	597	53	8	10	27	1.63
5356809--5357112	167	1.8	167	86	2	439	45	13	22	19	1.84
5357238--5357354	43	2.7	44	85	4	175	35	15	28	21	1.94
5357385--5357528	42	3.4	41	74	12	123	29	17	29	22	1.97
5357392--5357883	43	11.6	42	70	10	191	31	17	31	19	1.95
5357452--5357666	42	5.1	42	70	14	136	31	17	31	19	1.95
5357549--5357706	85	1.9	84	80	6	185	34	20	28	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5357577--5357752	85	2.1	85	84	8	225	31	21	30	16	1.95
5357460--5357884	43	10.0	43	72	9	219	31	18	31	19	1.96
5357951--5358180	43	5.4	43	82	5	232	39	18	23	17	1.92
5357951--5358131	86	2.1	86	87	2	256	39	18	23	18	1.92
5358146--5358988	43	19.8	43	73	5	381	33	18	27	20	1.96
5358738--5358988	85	3.0	85	75	4	247	33	18	27	21	1.96
5358957--5359169	42	5.0	42	76	7	182	36	18	28	16	1.93
5358955--5359169	84	2.5	84	76	11	213	36	18	27	16	1.93
5359742--5359940	89	2.2	88	89	2	301	34	14	25	26	1.94
5360844--5360879	15	2.4	15	90	9	56	0	11	0	88	0.50
5361222--5361269	24	2.0	23	84	11	62	8	6	2	83	0.88
5364496--5364548	19	2.7	20	91	2	90	32	11	16	39	1.85
5364537--5364562	13	2.0	13	100	0	52	38	15	15	30	1.88
5364634--5364762	52	2.5	52	92	0	213	34	16	19	30	1.94
5367840--5368810	156	6.3	155	81	4	879	38	20	17	23	1.93
5367868--5368793	305	3.0	306	82	5	974	38	20	17	23	1.93
5370219--5370258	21	1.9	21	90	10	64	0	17	2	80	0.83
5371036--5371462	165	2.6	166	84	2	545	50	8	12	28	1.70
5374158--5374852	30	23.5	30	77	7	360	24	30	13	30	1.94
5374158--5374736	60	9.8	60	78	6	448	25	30	14	30	1.94
5374158--5374864	90	8.0	89	76	7	499	24	30	14	30	1.94
5374400--5374556	58	2.6	59	81	3	154	26	27	12	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5374687--5374878	58	3.3	58	74	12	178	22	29	13	34	1.92
5374937--5375773	52	16.2	51	77	8	403	27	22	13	37	1.91
5375086--5375232	50	3.1	43	84	10	100	26	19	13	40	1.89
5374958--5375805	105	8.2	104	80	3	768	26	22	13	37	1.92
5376548--5376585	20	1.9	20	100	0	76	26	15	10	47	1.78
5378746--5378929	98	1.9	97	85	5	255	29	27	9	33	1.88
5382877--5382901	13	1.9	13	100	0	50	36	16	16	32	1.90
5382963--5382987	13	1.9	13	100	0	50	32	16	16	36	1.90
5382942--5383007	32	2.0	33	88	2	98	39	15	12	33	1.84
5390164--5390255	34	2.7	35	76	6	98	39	13	13	34	1.83

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