genome.fa.s74.2.7.7.80.10.50.1000.21.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  21  of  24  ( 2862 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)
3977528--3977581	16	3.4	16	82	10	58	48	0	0	51	1.00
3977546--3977580	17	2.1	16	89	5	52	42	0	0	57	0.99
3979557--3979594	8	4.9	8	87	6	51	89	0	10	0	0.49
3989556--3989598	19	2.2	20	87	8	61	51	0	11	37	1.39
3989556--3989622	21	3.1	21	76	16	66	52	0	10	37	1.36
3989556--3989622	20	3.1	22	78	14	61	52	0	10	37	1.36
4001891--4001921	15	2.1	15	93	0	53	77	0	0	22	0.77
4003232--4003270	2	20.0	2	89	5	62	46	0	0	53	1.00
4003530--4003564	16	2.2	16	95	5	63	42	0	0	57	0.99
4007019--4007056	13	3.0	13	84	3	51	55	0	0	44	0.99
4007307--4007344	19	2.1	19	90	9	62	47	0	0	52	1.00
4007324--4007383	31	2.0	31	84	12	81	38	0	0	61	0.96
4012956--4012994	2	19.5	2	100	0	78	0	51	0	48	1.00
4015676--4015731	24	2.2	26	81	15	73	48	0	0	51	1.00
4015682--4015725	15	3.0	15	80	6	54	47	0	0	52	1.00
4017811--4017870	15	3.9	15	74	12	52	60	0	1	38	1.07
4017805--4017865	28	2.2	28	85	11	81	62	0	1	36	1.05
4017988--4018015	2	14.0	2	100	0	56	50	0	0	50	1.00
4018601--4018625	1	25.0	1	100	0	50	0	0	0	100	0.00
4021458--4021519	31	2.0	31	93	0	106	58	12	9	19	1.62
4028784--4028851	21	3.2	20	72	17	57	44	0	0	55	0.99
4028887--4028941	23	2.5	21	80	11	65	43	1	1	52	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4029479--4029555	22	3.6	21	77	6	75	55	0	1	42	1.07
4029511--4029595	38	2.2	37	82	12	100	49	0	1	49	1.08
4029532--4029593	17	3.4	17	72	20	54	46	0	0	53	1.00
4030419--4030455	18	2.1	18	100	0	74	10	16	10	62	1.55
4041249--4041278	14	2.1	14	93	0	51	43	10	0	46	1.37
4041659--4041690	2	16.0	2	93	0	55	46	0	3	50	1.17
4043577--4043611	16	2.1	17	89	5	54	42	0	14	42	1.45
4044430--4044473	18	2.4	18	81	7	54	38	2	0	59	1.10
4045819--4045852	2	17.0	2	88	11	52	47	2	0	50	1.16
4053880--4053917	2	19.0	2	100	0	76	50	0	0	50	1.00
4059686--4059733	3	16.0	3	95	0	87	66	2	0	31	1.03
4062246--4062286	21	2.0	21	85	9	57	46	2	4	46	1.37
4068460--4068493	12	2.8	12	86	0	50	17	26	5	50	1.69
4068969--4068993	2	12.5	2	100	0	50	48	0	0	52	1.00
4070060--4070108	24	2.0	24	96	0	89	32	4	28	34	1.76
4071938--4071971	2	17.0	2	100	0	68	50	0	0	50	1.00
4072847--4072932	15	5.7	15	83	0	73	18	39	2	39	1.64
4072899--4072935	3	12.3	3	100	0	74	32	35	0	32	1.58
4075024--4075072	2	24.5	2	95	0	89	48	2	48	0	1.12
4076316--4076348	9	3.8	9	88	8	50	12	0	6	81	0.85
4076318--4076357	17	2.4	17	86	0	53	17	0	5	77	0.94
4083547--4083574	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4084002--4084035	3	11.3	3	100	0	68	32	0	0	67	0.91
4084715--4084760	21	2.1	22	84	11	60	54	4	4	36	1.40
4087137--4087271	68	2.0	68	100	0	270	16	17	17	48	1.81
4091301--4091331	2	15.5	2	93	0	53	48	3	0	48	1.17
4092981--4093014	2	17.0	2	100	0	68	0	50	0	50	1.00
4095316--4095408	20	5.1	19	75	12	72	43	1	1	54	1.14
4095534--4095601	35	1.9	36	84	3	93	27	8	10	52	1.65
4095571--4095668	52	1.9	51	83	6	126	42	4	5	47	1.44
4095901--4095943	15	3.0	14	76	6	50	60	2	0	37	1.10
4095886--4095965	30	2.7	29	84	7	90	56	2	0	41	1.13
4096468--4096493	2	13.0	2	100	0	52	50	0	0	50	1.00
4101260--4101296	15	2.5	15	86	0	56	43	0	5	51	1.24
4101241--4101301	20	2.9	21	78	7	61	47	1	4	45	1.34
4101394--4101511	53	2.2	53	95	0	209	32	12	14	40	1.84
4101394--4101529	53	2.6	53	90	4	195	33	12	13	39	1.83
4102551--4102611	27	2.1	30	88	8	92	42	0	0	57	0.98
4102551--4102598	13	3.6	13	78	13	53	37	0	0	62	0.95
4102555--4102601	14	3.5	13	80	8	58	36	0	0	63	0.94
4102600--4102642	17	2.4	19	77	18	56	67	0	0	32	0.91
4102828--4102877	14	3.5	14	82	15	66	64	0	0	36	0.94
4102835--4102878	8	5.9	8	75	24	51	61	0	0	38	0.96
4103544--4103576	3	11.0	3	93	0	57	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103548--4103591	6	7.3	6	86	0	52	54	0	0	45	0.99
4104904--4104951	11	4.3	11	84	10	53	35	0	0	64	0.94
4104912--4105045	9	15.1	9	68	22	61	38	0	0	60	1.02
4104917--4104972	6	9.5	6	74	18	55	35	0	0	64	0.94
4104914--4104953	11	3.2	13	86	13	57	32	0	0	67	0.91
4104956--4105035	30	2.5	32	82	13	94	41	0	1	57	1.07
4106606--4106635	2	15.0	2	100	0	60	50	0	0	50	1.00
4116131--4116165	13	2.8	13	91	4	54	25	2	0	71	1.00
4116210--4116275	15	4.0	16	72	12	53	50	1	1	46	1.20
4116951--4116987	17	2.2	17	95	0	65	59	0	5	35	1.20
4117357--4117387	16	1.9	16	93	0	53	35	0	6	58	1.24
4126234--4126271	20	2.0	20	85	10	53	52	5	0	42	1.24
4130175--4130225	22	2.4	22	80	9	61	37	1	5	54	1.36
4130329--4130404	38	2.0	38	100	0	152	42	13	7	36	1.73
4131776--4131824	18	2.7	20	72	15	52	46	0	0	53	1.00
4131768--4131829	23	2.7	23	71	0	61	48	0	0	51	1.00
4132062--4132119	19	2.9	19	78	17	55	44	1	1	51	1.21
4135715--4135923	50	4.2	50	96	0	382	29	19	22	28	1.98
4140325--4140583	50	5.2	50	95	0	464	30	18	20	29	1.97
4144118--4144143	2	13.0	2	100	0	52	50	0	0	50	1.00
4145752--4145793	18	2.6	16	82	17	59	50	0	0	50	1.00
4145789--4145830	22	2.0	20	90	9	66	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145979--4146006	3	9.3	3	100	0	56	67	0	0	32	0.91
4146013--4146048	15	2.2	17	90	9	58	50	0	2	47	1.15
4147690--4148007	166	1.9	167	97	0	602	37	16	11	33	1.86
4149326--4149362	2	18.5	2	100	0	74	51	0	0	48	1.00
4150232--4150275	22	2.0	22	81	0	52	54	0	0	45	0.99
4160234--4160276	19	2.3	18	80	11	50	41	0	0	58	0.98
4160281--4160361	33	2.5	33	80	9	89	48	3	0	48	1.19
4160312--4160362	26	2.0	25	85	11	68	43	1	0	54	1.11
4164023--4164055	5	6.4	5	93	6	57	81	0	0	18	0.68
4164023--4164052	11	2.8	11	95	5	53	83	0	0	16	0.65
4164020--4164055	16	2.2	16	100	0	72	80	0	0	19	0.71
4164385--4164410	12	2.2	12	100	0	52	50	0	0	50	1.00
4165891--4165930	2	20.5	2	84	5	55	50	2	2	45	1.28
4165890--4165929	21	1.9	21	94	0	71	50	2	2	45	1.28
4166773--4166801	2	14.5	2	100	0	58	48	0	0	51	1.00
4169036--4169072	11	3.2	11	85	14	56	35	0	2	62	1.10
4169041--4169065	13	1.9	13	100	0	50	32	0	4	64	1.12
4169566--4169627	25	2.6	25	77	12	67	53	1	0	45	1.10
4171715--4171751	18	2.0	19	89	5	58	24	16	37	21	1.93
4172922--4172979	18	3.4	18	74	11	59	41	1	0	56	1.09
4172929--4173004	28	2.8	27	82	9	102	43	3	0	52	1.19
4172938--4172989	10	5.5	10	77	11	56	40	3	0	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4173148--4173203	27	2.0	28	82	3	69	28	10	0	60	1.30
4174211--4174247	3	12.3	3	100	0	74	32	0	0	67	0.91
4174883--4174909	2	13.5	2	100	0	54	48	0	0	51	1.00
4175155--4175303	50	3.0	50	78	7	160	30	10	10	48	1.72
4179562--4179635	20	3.7	20	94	3	123	39	10	18	31	1.86
4180386--4180483	32	3.2	30	82	7	101	24	18	26	30	1.98
4180501--4180900	28	14.3	28	78	3	356	25	17	28	28	1.98
4180413--4180900	56	8.8	55	77	7	310	24	17	28	28	1.97
4187503--4187528	3	8.7	3	100	0	52	34	0	0	65	0.93
4187610--4187655	19	2.4	19	82	7	58	65	4	28	2	1.23

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