genome.fa.s89.2.7.7.80.10.50.1000.23.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  23  of  27  ( 3236 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)
3882920--3882970	23	2.3	23	83	10	61	50	0	1	47	1.12
3885574--3885604	15	2.1	15	100	0	62	54	0	0	45	0.99
3885870--3885967	30	3.2	29	83	11	108	36	1	4	58	1.24
3885952--3885976	12	2.1	12	100	0	50	56	0	0	44	0.99
3885962--3886006	23	2.0	22	82	4	54	42	0	2	55	1.12
3885982--3886014	17	1.9	17	88	11	50	45	0	6	48	1.27
3887496--3887556	24	2.5	24	83	0	77	13	39	8	39	1.74
3888137--3888307	82	2.1	81	94	2	306	29	15	17	36	1.91
3896759--3896795	13	2.8	13	95	0	65	27	24	21	27	1.99
3897401--3897512	53	2.1	53	85	8	147	37	17	22	22	1.94
3897918--3897943	3	8.7	3	100	0	52	34	0	0	65	0.93
3898133--3898171	2	19.5	2	94	0	69	46	0	2	51	1.14
3898912--3898970	16	3.7	15	75	11	55	66	5	1	27	1.22
3899051--3899114	23	2.8	23	79	9	67	65	3	3	28	1.23
3899088--3899133	17	2.6	18	86	10	67	71	6	0	21	1.08
3899161--3899207	19	2.5	19	73	13	51	42	4	10	42	1.59
3899423--3899486	30	2.1	31	85	2	85	51	0	0	48	1.00
3899873--3899944	21	2.9	25	72	21	71	70	0	0	29	0.87
3900241--3900306	23	2.8	23	80	15	82	65	0	3	31	1.08
3900240--3900310	11	6.6	11	72	15	60	64	0	2	32	1.08
3900223--3900318	19	5.4	19	72	18	73	63	0	4	32	1.13
3900567--3900625	16	3.7	15	75	11	55	66	5	1	27	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3908073--3908099	12	2.2	12	100	0	54	44	0	55	0	0.99
3908783--3908812	2	15.0	2	100	0	60	50	0	0	50	1.00
3910611--3910635	3	8.3	3	100	0	50	64	36	0	0	0.94
3918278--3918338	28	2.3	27	85	5	79	57	1	1	39	1.18
3925235--3925274	18	2.2	18	86	4	53	37	0	0	62	0.95
3928763--3928824	31	2.0	31	96	0	115	25	19	24	30	1.98
3937055--3937169	56	2.1	56	91	3	187	28	24	20	26	1.99
3938122--3938167	19	2.5	18	89	3	65	21	23	13	41	1.88
3938176--3938206	16	1.9	16	93	0	53	29	9	9	51	1.66
3941895--3941939	18	2.5	18	82	17	58	20	26	13	40	1.89
3958306--3958512	103	2.0	103	92	0	342	45	17	13	23	1.84
3970090--3970135	21	2.2	21	84	7	58	52	2	0	45	1.13
3973812--3973860	19	2.6	19	90	3	73	46	0	2	51	1.12
3974588--3974632	23	1.9	24	86	4	65	57	2	2	37	1.23
3975359--3975401	19	2.2	20	84	12	63	62	0	0	37	0.95
3977030--3977063	15	2.2	16	89	5	52	61	0	0	38	0.96
3977345--3977394	24	2.1	23	82	14	57	34	14	2	50	1.54
3977458--3977493	20	1.9	20	88	11	58	33	0	0	66	0.92
3977466--3977508	21	2.1	20	83	12	52	41	0	0	58	0.98
3977594--3977643	19	2.5	20	84	15	68	56	0	0	44	0.99
3988825--3988870	23	1.9	25	86	8	69	45	0	0	54	0.99
3989400--3989533	67	2.0	67	97	0	250	41	9	8	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3990493--3990537	22	2.0	23	82	8	56	53	4	2	40	1.33
3990504--3990554	26	1.9	27	84	4	68	52	7	0	39	1.30
3990673--3990699	2	13.5	2	100	0	54	51	0	0	48	1.00
3994432--3994492	25	2.3	27	86	5	90	50	0	0	49	1.00
3997153--3997366	107	2.0	107	100	0	428	44	5	6	42	1.53
3999517--3999553	3	12.3	3	100	0	74	32	0	0	67	0.91
4001748--4001772	2	12.5	2	100	0	50	52	0	0	48	1.00
4004793--4004839	19	2.4	20	85	3	69	42	0	2	55	1.12
4005522--4005574	22	2.4	23	84	12	67	50	0	1	47	1.12
4005920--4005947	14	2.0	14	100	0	56	64	0	0	35	0.94
4006553--4006619	14	4.8	13	72	16	55	65	0	1	32	1.02
4006551--4006625	14	5.3	15	69	19	54	60	0	1	38	1.06
4006572--4006614	13	3.3	13	78	12	52	62	0	0	37	0.95
4014475--4014517	14	3.1	14	89	0	59	39	0	2	58	1.11
4014475--4014517	8	5.4	8	88	0	50	39	0	2	58	1.11
4024247--4024271	1	25.0	1	100	0	50	0	0	100	0	0.00
4027988--4028023	17	2.1	17	100	0	72	50	5	16	27	1.68
4033814--4033887	31	2.3	33	83	6	98	36	1	1	60	1.13
4034396--4034420	13	1.9	13	100	0	50	40	4	0	56	1.18
4034534--4034598	25	2.7	24	86	6	87	46	3	13	36	1.60
4034981--4035033	15	3.7	15	85	5	65	33	0	0	66	0.92
4035067--4035106	21	1.9	21	89	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4035075--4035141	16	4.3	15	75	19	57	28	0	0	71	0.86
4035085--4035118	18	1.9	18	94	5	61	23	0	0	76	0.79
4035077--4035139	22	2.9	22	86	6	76	26	0	0	73	0.84
4042810--4043202	202	1.9	202	100	0	786	35	14	16	33	1.90
4045482--4045507	13	2.0	13	100	0	52	15	30	23	30	1.95
4059888--4059925	14	2.5	16	83	12	53	60	13	0	26	1.33
4060306--4060526	34	6.5	33	81	9	257	41	26	7	24	1.81
4060308--4060526	68	3.2	67	84	3	287	41	26	7	25	1.81
4060306--4060526	102	2.2	101	88	1	343	41	26	7	24	1.81
4064942--4065059	34	3.5	34	79	9	132	42	23	5	27	1.77
4069094--4069159	34	1.9	33	82	11	80	46	0	3	50	1.16
4069103--4069165	21	2.8	23	76	13	69	49	0	1	49	1.10
4069348--4069398	17	3.1	17	83	10	70	45	0	0	54	0.99
4069337--4069387	21	2.5	20	79	14	61	49	0	0	50	1.00
4069370--4069426	29	2.0	27	86	6	78	40	0	1	57	1.09
4070247--4070280	16	2.1	16	88	0	50	64	0	0	35	0.94
4070583--4070646	27	2.3	27	86	7	85	25	7	20	46	1.77
4071189--4071241	15	3.4	15	76	5	52	43	3	0	52	1.19
4071453--4071531	30	2.6	30	86	11	99	40	6	1	51	1.35
4072563--4072652	28	3.4	27	80	8	87	25	7	21	45	1.78
4077136--4077225	28	3.4	27	80	8	87	25	7	21	45	1.78
4078524--4078561	2	19.0	2	88	0	58	50	5	0	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4081574--4081612	2	19.5	2	100	0	78	51	0	0	48	1.00
4082169--4082259	33	2.7	34	84	3	103	40	0	13	46	1.43
4082183--4082241	13	4.5	13	74	18	50	42	0	13	44	1.44
4082190--4082320	7	18.9	7	73	20	73	44	1	9	44	1.46
4084317--4084355	18	2.2	18	85	0	51	35	2	0	61	1.10
4084765--4084811	21	2.2	21	88	0	67	25	14	19	40	1.90
4084879--4084937	27	2.2	27	79	14	68	32	0	1	66	1.02
4085000--4085082	33	2.6	33	90	5	127	42	4	3	49	1.41
4085144--4085169	2	13.0	2	100	0	52	50	0	0	50	1.00
4086090--4086181	44	2.1	44	86	8	125	34	5	18	41	1.74
4087382--4087444	22	3.0	22	73	15	60	53	0	31	14	1.41
4088972--4089063	44	2.1	44	89	0	139	32	8	19	39	1.82
4091723--4091825	53	1.9	54	82	5	129	37	24	12	25	1.90
4091722--4091841	53	2.2	53	78	8	127	38	22	13	25	1.91
4094432--4094536	30	3.6	29	74	7	95	53	0	3	41	1.25
4094455--4094508	23	2.2	24	87	6	74	55	1	1	40	1.21
4094455--4094498	22	2.0	23	86	4	63	54	0	2	43	1.12
4096095--4096128	17	2.1	17	88	5	52	64	0	32	2	1.08
4098121--4098239	7	16.9	7	70	11	64	47	2	5	43	1.40
4098126--4098178	27	2.0	25	89	7	79	50	1	9	37	1.46
4099203--4099234	16	2.0	16	93	0	55	46	0	0	53	1.00
4100832--4100869	18	2.1	19	85	5	51	15	5	5	73	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4101028--4101058	2	15.5	2	100	0	62	48	0	0	51	1.00
4102914--4102984	27	2.7	26	84	4	97	26	7	12	53	1.64
4103047--4103080	13	2.6	13	85	0	50	11	38	8	41	1.73
4107440--4107511	26	2.7	26	85	10	83	23	8	15	52	1.69
4107471--4107526	26	2.2	26	80	6	60	26	7	12	53	1.64
4108933--4108985	20	2.7	20	77	11	63	41	0	7	50	1.30
4109162--4109205	7	6.0	7	79	10	52	47	0	0	52	1.00
4109162--4109207	15	3.0	16	76	23	62	50	0	0	50	1.00
4113712--4113772	19	3.3	19	74	4	70	57	0	3	39	1.15
4113701--4113772	37	1.9	37	85	0	99	59	0	2	37	1.12

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