genome.fa.s29.2.7.7.80.10.50.1000.24.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  24  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)
3698416--3698494	24	3.2	23	72	13	59	77	10	10	2	1.09
3698416--3698481	26	2.5	26	82	4	71	78	9	9	3	1.05
3700985--3701057	27	2.7	27	86	2	92	20	20	35	23	1.96
3703527--3703552	13	2.0	13	100	0	52	38	15	15	30	1.88
3703506--3703572	33	2.0	33	85	0	89	44	16	13	25	1.84
3703592--3703653	18	3.7	18	71	22	62	33	14	12	38	1.84
3703613--3703637	13	1.9	13	100	0	50	32	16	16	36	1.90
3703595--3703656	32	2.0	31	93	3	106	35	16	12	35	1.87
3703592--3703658	19	3.9	19	76	23	76	37	14	11	35	1.84
3703694--3703770	21	3.7	21	85	3	102	36	16	11	35	1.86
3704439--3706277	55	31.9	55	82	10	1493	25	20	27	26	1.99
3704541--3704626	27	3.1	27	63	21	70	23	15	30	31	1.95
3704943--3706320	59	23.6	59	86	6	1646	25	20	28	25	1.99
3704443--3706279	343	5.3	339	88	5	2365	25	20	27	26	1.99
3705267--3705348	26	2.9	29	65	23	75	20	20	29	29	1.98
3706553--3707057	62	8.3	61	77	7	440	25	23	18	32	1.97
3706784--3707299	123	4.3	123	77	12	428	26	23	18	31	1.97
3707080--3707294	62	3.4	63	77	10	215	25	23	17	33	1.96
3706951--3707168	111	2.0	109	86	5	305	27	25	18	28	1.98
3706909--3707228	173	1.9	170	85	5	446	27	23	18	30	1.98
3707060--3707228	62	2.7	63	83	4	200	28	22	17	31	1.97
3707382--3707482	52	1.9	52	83	0	130	25	20	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3708131--3708183	20	2.6	20	87	3	70	45	13	13	28	1.80
3708131--3708204	21	3.6	20	83	3	76	41	14	14	28	1.86
3712694--3712942	47	5.3	47	80	3	266	24	21	17	37	1.94
3712693--3712918	95	2.4	95	85	1	319	25	22	17	34	1.96
3712871--3713021	76	2.0	76	90	0	239	19	22	15	42	1.89
3712948--3713137	47	4.0	47	90	0	254	22	25	13	38	1.91
3712827--3713068	123	2.0	123	85	1	333	21	23	14	40	1.91
3712959--3713239	47	6.0	47	82	4	214	22	24	14	37	1.92
3712959--3713239	94	3.0	93	81	3	305	22	24	14	37	1.92
3714640--3715254	165	3.8	164	77	6	566	29	10	9	50	1.69
3715406--3715446	17	2.5	17	84	4	57	31	19	2	46	1.63
3715479--3715879	162	2.5	157	90	2	622	34	12	11	40	1.80
3719202--3719430	98	2.3	95	86	5	307	34	12	25	27	1.91
3721744--3721805	32	1.9	32	90	0	97	45	9	17	27	1.80
3721756--3721824	32	2.2	32	84	5	86	46	14	13	26	1.81
3721776--3721899	52	2.4	52	90	0	185	45	12	14	27	1.82
3724814--3724860	21	2.3	21	85	10	62	31	12	12	42	1.81
3727159--3727223	10	7.0	9	77	10	53	10	3	10	75	1.15
3732364--3732440	31	2.5	31	91	2	120	27	22	10	40	1.86
3741326--3741376	27	1.9	26	88	4	75	25	15	35	23	1.94
3746243--3746355	58	1.9	58	92	0	190	36	14	23	25	1.93
3746467--3746954	30	16.8	29	81	4	425	28	15	26	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3746514--3747769	29	42.8	28	75	12	460	30	13	27	27	1.95
3746514--3747455	88	10.7	85	75	10	417	29	14	27	27	1.95
3746465--3746876	145	2.8	145	81	6	433	28	15	25	30	1.96
3746434--3746954	58	8.9	58	78	5	437	28	15	26	30	1.96
3746921--3747806	29	29.9	29	77	8	670	31	12	29	26	1.93
3746938--3747794	148	5.8	147	78	7	703	31	12	29	26	1.93
3746921--3747767	207	4.1	205	77	9	717	31	12	29	26	1.93
3746942--3747784	60	14.2	58	75	11	367	32	12	29	25	1.93
3750480--3750547	19	3.9	19	78	21	76	35	11	16	36	1.85
3750482--3750544	32	2.0	32	93	0	108	34	12	17	34	1.88
3750501--3750525	13	1.9	13	100	0	50	36	16	16	32	1.90
3750587--3750612	13	2.0	13	100	0	52	30	15	15	38	1.88
3750567--3750633	33	2.0	33	88	0	98	25	14	16	43	1.86
3750620--3750696	31	2.5	31	100	0	154	31	15	15	37	1.89
3753126--3753193	27	2.5	27	87	2	91	25	29	20	25	1.99
3753180--3753349	52	3.3	50	76	11	164	30	25	12	31	1.93
3753333--3753409	28	2.8	28	87	0	100	23	33	19	23	1.97
3753011--3753416	212	1.9	212	87	4	604	28	26	13	31	1.94
3753363--3753565	79	2.6	79	80	3	212	25	30	15	29	1.96
3765962--3766024	1	63.0	1	75	0	54	87	6	6	0	0.68
3765962--3766024	21	3.0	20	82	8	81	87	6	6	0	0.68
3765964--3766023	26	2.3	26	85	5	86	86	6	6	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767039--3767128	26	3.3	26	68	14	74	28	33	17	20	1.95
3766992--3767400	55	7.3	55	87	6	545	27	28	20	22	1.99
3767244--3767326	27	3.0	28	64	22	75	28	31	20	19	1.97
3768219--3768286	19	3.9	19	78	21	76	35	11	16	36	1.85
3768221--3768283	32	2.0	32	93	0	108	34	12	17	34	1.88
3768240--3768264	13	1.9	13	100	0	50	36	16	16	32	1.90
3768326--3768351	13	2.0	13	100	0	52	30	15	15	38	1.88
3768306--3768372	33	2.0	33	88	0	98	25	14	16	43	1.86
3770884--3771053	52	3.3	53	75	12	163	30	24	12	33	1.92
3771037--3771113	28	2.8	28	87	0	100	23	33	19	23	1.97
3770717--3771128	212	1.9	212	86	4	591	28	26	13	31	1.93
3771067--3771268	78	2.6	78	79	3	210	25	29	15	28	1.96
3770775--3771184	107	3.8	107	73	13	261	27	26	14	31	1.95
3774345--3774390	17	2.5	19	82	6	60	13	17	4	65	1.42
3774781--3775581	166	4.8	165	84	5	920	49	9	10	30	1.68
3774777--3775583	332	2.4	330	83	6	1042	49	9	10	30	1.68
3775516--3775540	13	1.9	13	100	0	50	64	4	16	16	1.44
3776832--3776867	17	2.2	17	90	5	56	38	11	13	36	1.81
3780033--3780161	52	2.5	52	94	0	222	30	17	17	35	1.92
3780033--3780181	52	2.9	51	88	4	210	31	16	17	34	1.93
3780170--3780194	13	1.9	13	100	0	50	36	16	16	32	1.90
3780235--3780301	33	2.0	33	88	0	98	40	14	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3780257--3780281	13	1.9	13	100	0	50	32	16	16	36	1.90
3784786--3784881	32	3.0	32	85	1	120	29	15	15	39	1.88
3784929--3784955	13	2.1	13	100	0	54	29	14	14	40	1.86
3784941--3784995	20	2.8	20	80	0	65	38	9	14	38	1.78
3785426--3785516	35	2.7	33	80	9	105	32	10	24	31	1.90
3789879--3789904	13	2.0	13	100	0	52	38	15	15	30	1.88
3789861--3789924	32	2.0	33	90	3	103	39	18	14	28	1.90
3792119--3792163	21	2.1	21	84	8	56	53	4	20	22	1.63
3795688--3795733	21	2.2	20	81	11	58	32	19	4	43	1.71
3798094--3798119	13	2.0	13	100	0	52	38	15	15	30	1.88
3798075--3798139	32	2.0	33	90	3	105	40	18	13	27	1.89
3798973--3799041	35	1.9	36	88	5	104	24	13	14	47	1.79
3801709--3801749	21	2.0	20	90	4	64	51	9	12	26	1.70
3803557--3803638	42	2.0	42	95	0	146	23	18	14	43	1.86
3805037--3805740	79	8.9	79	86	2	767	26	25	13	34	1.93
3805037--3805740	237	3.0	236	84	4	861	26	25	13	34	1.93
3808281--3808312	13	2.5	13	100	0	64	34	15	15	34	1.90
3810403--3810498	32	2.8	33	81	15	108	33	23	12	30	1.92
3810978--3811008	10	3.1	10	90	0	53	41	6	29	22	1.78
3813351--3813397	23	2.0	24	83	4	60	59	19	4	17	1.53
3814271--3814331	21	2.9	22	75	20	67	18	24	3	54	1.58
3815962--3816008	24	2.0	24	100	0	94	38	29	10	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3823814--3823873	16	3.8	16	70	14	52	35	3	5	56	1.37
3823837--3823880	16	2.6	17	79	13	56	34	2	4	59	1.30
3824447--3824509	31	1.9	31	87	9	90	50	0	0	49	1.00
3824648--3824689	2	21.0	2	100	0	84	50	0	0	50	1.00
3827289--3827322	13	2.6	13	85	0	50	32	0	0	67	0.91
3827309--3827370	26	2.3	27	83	5	81	41	0	4	53	1.22
3827320--3827428	43	2.6	42	79	11	109	44	0	3	52	1.19
3827384--3827442	16	3.7	15	80	8	64	50	1	0	47	1.11
3828606--3828872	136	2.0	136	91	1	437	50	8	5	34	1.58
3829174--3829221	22	2.2	22	84	0	60	62	0	2	35	1.07

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