genome.fa.s36.2.7.7.80.10.50.1000.24.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   

This is table  24  of  28  ( 3342 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)
3662262--3662303	13	2.9	14	83	16	50	50	4	0	45	1.23
3668676--3668738	27	2.2	30	83	16	80	57	0	3	39	1.15
3669021--3669073	3	17.7	3	100	0	106	32	0	0	67	0.91
3671281--3671312	15	2.1	15	100	0	64	31	25	18	25	1.98
3677177--3677211	16	2.2	16	94	0	61	48	2	0	48	1.16
3677229--3677267	20	2.0	21	90	10	64	48	5	0	46	1.24
3678046--3678085	20	2.0	20	95	0	71	42	0	10	47	1.37
3680579--3680617	19	2.1	18	85	4	51	28	5	20	46	1.72
3685316--3685345	3	10.0	3	100	0	60	33	0	0	66	0.92
3686756--3686799	19	2.3	19	80	7	54	54	0	0	45	0.99
3686754--3686810	21	2.7	21	75	2	60	50	0	0	49	1.00
3686768--3686800	17	1.9	17	88	11	50	63	0	0	36	0.95
3687265--3687309	13	3.4	13	78	6	54	51	0	0	48	1.00
3687251--3687350	27	3.4	28	75	21	98	50	0	1	49	1.07
3687277--3687338	31	2.0	32	87	9	92	51	0	0	48	1.00
3698220--3698266	2	23.5	2	100	0	94	51	0	0	48	1.00
3710446--3710481	16	2.2	16	100	0	72	50	8	25	16	1.73
3713213--3714613	692	2.0	688	83	6	1761	33	17	18	30	1.94
3715333--3715362	13	2.2	14	94	5	53	80	0	6	13	0.91
3716278--3716329	22	2.5	22	78	6	63	44	0	0	55	0.99
3716264--3716330	32	2.0	34	88	5	102	43	0	0	56	0.99
3716793--3716821	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3719826--3719856	16	1.9	16	93	0	53	0	9	0	90	0.46
3720001--3720050	25	2.0	26	84	4	66	42	0	4	54	1.19
3720001--3720049	24	2.0	26	84	8	66	40	0	4	55	1.19
3720611--3720661	22	2.4	21	83	3	57	52	1	0	45	1.12
3730386--3730417	2	16.0	2	100	0	64	50	0	50	0	1.00
3741316--3741360	18	2.7	17	86	10	58	48	0	0	51	1.00
3742150--3742179	14	2.1	14	93	0	51	20	0	6	73	1.05
3742603--3742650	19	2.5	20	86	10	64	14	4	4	77	1.08
3743521--3744008	247	2.0	247	95	0	879	39	12	7	41	1.70
3744389--3744433	18	2.7	17	86	10	58	48	0	0	51	1.00
3744430--3744474	12	3.8	12	88	8	65	33	0	0	66	0.92
3744415--3744474	23	2.6	23	84	7	68	36	0	0	63	0.95
3744428--3744474	11	4.0	11	86	10	58	34	0	0	65	0.93
3744410--3744476	18	3.8	18	70	16	50	40	0	0	59	0.97
3745228--3745258	14	2.3	14	94	5	55	22	0	0	77	0.77
3745688--3745735	19	2.5	20	86	10	64	14	4	4	77	1.08
3746248--3746276	3	10.0	3	92	7	51	68	0	0	31	0.89
3746607--3747093	247	2.0	247	94	1	861	39	12	7	41	1.71
3747643--3747673	13	2.3	14	94	5	55	38	0	3	58	1.15
3747640--3747674	14	2.5	15	86	13	56	37	0	2	60	1.12
3755718--3755763	2	23.0	2	95	0	83	52	0	47	0	1.00
3756005--3756036	11	2.8	12	90	9	50	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3756338--3756396	29	2.0	29	87	6	84	66	0	0	33	0.92
3756686--3756727	21	1.9	23	85	9	61	64	2	0	33	1.07
3756655--3756727	31	2.5	27	76	23	76	65	1	0	32	1.01
3756668--3756804	33	4.4	33	73	14	107	62	0	0	37	1.01
3756742--3756792	14	3.6	14	81	7	59	64	0	0	35	0.94
3756684--3756763	16	4.4	19	68	19	53	61	1	0	37	1.04
3756732--3756833	34	3.0	33	73	12	89	59	0	0	38	1.10
3757216--3757272	9	6.0	9	80	11	60	54	0	3	42	1.17
3757907--3757965	28	2.1	28	84	12	77	44	0	1	54	1.10
3758326--3758366	15	2.8	15	82	17	59	39	0	0	60	0.96
3758326--3758367	16	2.9	15	86	13	61	40	0	0	59	0.97
3758396--3758422	14	1.9	14	100	0	54	66	0	0	33	0.92
3758523--3758565	17	2.4	18	88	3	61	34	0	0	65	0.93
3758514--3758567	26	2.0	27	86	10	76	33	0	1	64	1.04
3758678--3758752	27	2.8	26	79	15	73	57	0	1	41	1.07
3758692--3758759	28	2.3	30	78	19	81	52	0	1	45	1.09
3759204--3759251	20	2.4	21	83	13	66	56	0	0	43	0.99
3759198--3759259	31	2.0	31	84	9	81	58	0	0	41	0.98
3759204--3759249	19	2.3	20	85	10	60	56	0	0	43	0.99
3759200--3759299	15	6.5	15	73	12	55	63	2	0	35	1.06
3759746--3759778	17	1.9	17	93	0	57	36	0	0	63	0.95
3760050--3760079	12	2.5	12	94	0	51	73	3	0	23	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3760372--3760418	23	2.0	23	87	0	67	29	8	4	57	1.48
3760418--3760511	27	3.5	26	72	17	75	42	2	0	55	1.12
3760426--3760532	17	5.9	17	67	26	51	41	2	0	55	1.21
3760394--3760509	55	2.1	56	80	9	130	42	2	0	54	1.20
3760447--3760490	22	2.0	23	90	4	72	45	0	0	54	0.99
3760767--3760801	18	1.9	18	88	11	54	62	0	0	37	0.95
3761543--3761595	26	2.0	26	96	0	97	24	15	5	54	1.62
3761705--3761734	3	10.0	3	100	0	60	33	0	0	66	0.92
3769034--3769124	40	2.3	40	81	7	105	37	10	4	47	1.59
3769501--3769530	15	2.0	15	100	0	60	40	26	0	33	1.57
3771493--3771531	15	2.5	16	79	4	53	58	0	0	41	0.98
3775481--3775566	20	4.6	19	66	20	56	43	1	0	55	1.07
3775641--3775709	13	4.9	14	72	19	54	60	0	1	37	1.06
3775661--3775699	18	2.3	17	86	8	53	66	0	0	33	0.92
3776348--3776391	22	2.0	21	82	4	52	50	0	0	50	1.00
3776597--3776645	17	2.9	17	82	11	57	61	0	8	30	1.25
3776631--3776713	31	2.8	28	73	20	80	51	0	3	44	1.18
3776683--3776716	16	2.1	17	88	5	52	58	0	0	41	0.98
3776680--3776731	27	1.9	27	81	14	63	57	0	1	40	1.10
3778792--3778863	27	2.7	26	79	16	76	47	1	1	50	1.18
3778802--3778863	14	4.9	13	76	9	51	48	1	0	50	1.10
3778801--3778863	25	2.4	25	84	10	74	49	1	0	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3786780--3786823	12	3.3	12	77	22	52	68	2	0	29	1.02
3786784--3786823	16	2.5	17	84	15	59	67	2	0	30	1.04
3787835--3787883	24	2.1	23	84	3	62	48	0	0	51	1.00
3787836--3787873	20	1.9	20	84	10	51	50	0	0	50	1.00
3787849--3787945	21	3.9	25	67	24	62	49	2	0	48	1.12
3787858--3788034	81	2.1	85	92	5	299	52	1	0	46	1.08
3788540--3788574	2	17.5	2	100	0	70	48	0	0	51	1.00
3794758--3794795	10	3.7	10	80	19	51	39	0	0	60	0.97
3798660--3798709	23	2.2	23	96	0	91	46	8	10	36	1.67
3799011--3799084	36	2.1	36	97	0	139	21	21	28	28	1.99
3810927--3810970	17	2.4	18	81	14	54	45	0	0	54	0.99
3810934--3810980	17	2.9	15	77	22	51	40	0	0	59	0.97
3813157--3813182	2	13.0	2	100	0	52	50	0	50	0	1.00
3815851--3815912	22	2.8	22	74	16	65	41	0	1	56	1.09
3815943--3815993	19	2.7	20	81	9	70	47	1	0	50	1.12
3823465--3823549	44	1.9	44	100	0	170	32	25	14	27	1.94
3829786--3829866	22	3.4	23	77	16	78	43	0	1	55	1.07
3829781--3829869	47	2.0	44	82	14	110	43	0	1	55	1.07
3837820--3837859	17	2.4	17	86	0	53	72	0	10	17	1.11
3838294--3838323	4	7.5	4	92	0	51	50	20	0	30	1.49
3839125--3839157	13	2.6	13	90	4	50	75	0	3	21	0.93
3840371--3840458	31	3.1	28	72	23	76	44	2	0	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3842510--3842551	16	2.7	16	77	3	50	66	0	0	33	0.92
3843347--3843423	32	2.5	30	79	18	88	46	1	0	51	1.09
3843366--3843411	17	2.8	16	79	20	51	50	2	0	47	1.13
3843420--3843482	24	2.6	25	81	13	71	33	4	0	61	1.17
3844967--3845013	14	3.4	14	82	8	60	59	0	0	40	0.97
3845105--3845143	17	2.3	17	81	0	51	61	0	0	38	0.96
3845360--3845409	3	16.7	3	95	0	91	64	0	2	34	1.05
3845713--3845754	19	2.1	21	86	8	61	33	0	0	66	0.92
3845720--3845815	15	6.2	16	70	14	76	42	0	0	57	0.98
3845720--3845788	30	2.4	28	83	11	88	40	0	0	59	0.97

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