genome.fa.s106.2.7.7.80.10.50.1000.22.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  22  of  27  ( 3135 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)
3796192--3796227	2	18.0	2	94	0	63	47	0	0	52	1.00
3797616--3797654	18	2.2	18	90	4	62	56	0	0	43	0.99
3797653--3797694	13	3.2	13	78	18	50	35	2	2	59	1.23
3797658--3797700	9	4.8	9	77	11	52	34	0	2	62	1.08
3797690--3797741	19	2.8	19	74	11	54	51	0	3	44	1.19
3798537--3798574	14	2.5	15	87	8	51	34	0	0	65	0.93
3798537--3798584	15	3.3	14	77	11	51	39	0	0	60	0.97
3798811--3798869	28	2.0	31	83	9	79	57	1	1	38	1.19
3799512--3799546	2	17.5	2	100	0	70	51	0	0	48	1.00
3799886--3799918	15	2.1	16	88	5	50	30	0	3	66	1.06
3799884--3799940	22	2.7	21	81	10	62	31	0	1	66	1.02
3805631--3805655	4	6.2	4	100	0	50	72	0	0	28	0.86
3808389--3808422	17	2.0	17	94	0	59	38	0	2	58	1.13
3808513--3808568	11	4.7	12	79	14	62	35	0	0	64	0.94
3808518--3808568	25	2.1	25	89	10	79	37	0	0	62	0.95
3808527--3808595	20	3.5	21	77	13	67	31	0	1	66	1.00
3808527--3808597	25	2.9	24	80	14	65	30	0	2	66	1.06
3809146--3809202	16	3.6	16	78	0	60	33	3	5	57	1.38
3809266--3809346	16	5.1	15	74	22	53	44	2	0	53	1.14
3809593--3809705	54	2.1	55	86	1	156	50	17	14	17	1.78
3815937--3815971	2	17.5	2	100	0	70	48	0	0	51	1.00
3819412--3819441	2	15.0	2	92	0	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3821230--3821297	15	4.7	15	73	14	61	52	0	1	45	1.09
3821217--3821303	43	2.0	42	91	2	138	51	1	1	45	1.16
3821194--3821288	20	4.6	21	70	14	72	53	1	1	44	1.14
3821607--3821748	27	5.2	29	64	18	74	38	0	0	60	1.02
3821625--3821690	18	3.7	17	75	13	53	45	0	0	54	0.99
3821666--3821732	20	3.4	19	81	8	62	37	1	0	61	1.05
3821678--3821750	33	2.3	32	81	15	89	32	1	0	65	1.01
3821680--3821734	20	2.7	20	88	5	74	32	1	0	65	1.03
3822458--3822503	22	2.1	22	91	0	74	26	2	21	50	1.60
3825691--3825782	16	5.8	16	71	5	78	25	15	20	39	1.91
3825680--3825777	32	3.0	32	76	4	81	23	14	20	41	1.89
3826304--3826334	16	1.9	16	93	0	53	70	0	0	29	0.87
3826508--3826561	19	2.7	20	80	8	56	42	3	0	53	1.18
3826592--3826679	16	5.5	16	70	14	56	19	15	21	43	1.88
3827890--3827957	28	2.3	30	82	12	79	50	1	0	48	1.10
3827872--3827985	31	3.9	30	74	17	89	44	0	0	54	1.06
3827949--3828009	29	2.1	29	87	0	86	34	1	1	62	1.15
3828101--3828133	16	2.0	17	94	5	59	36	24	0	39	1.56
3829900--3829948	18	2.7	18	78	9	55	40	0	2	57	1.10
3830365--3830457	32	3.0	31	80	14	88	39	0	0	60	0.97
3830378--3830445	16	4.2	17	75	21	74	39	0	0	60	0.97
3830925--3830950	13	2.0	13	100	0	52	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3830925--3830962	14	2.8	14	88	4	51	31	0	0	68	0.90
3831014--3831061	18	2.8	16	81	6	51	52	4	0	43	1.20
3831264--3831302	14	2.7	15	88	11	55	89	2	7	0	0.56
3831271--3831305	9	3.7	10	88	11	56	91	0	8	0	0.42
3832796--3832845	4	12.8	4	87	4	75	24	0	22	54	1.45
3832799--3832844	23	2.0	23	91	0	74	26	0	21	52	1.47
3836164--3836201	20	2.0	18	90	10	58	55	0	10	34	1.34
3836602--3836638	18	2.1	18	94	0	65	48	0	0	51	1.00
3836605--3836649	18	2.4	18	85	3	54	51	2	0	46	1.13
3836637--3836669	16	2.0	17	88	5	50	57	6	0	36	1.23
3839079--3839110	2	16.0	2	100	0	64	50	0	0	50	1.00
3842841--3842947	52	2.1	52	98	0	205	40	21	6	31	1.79
3844597--3844621	7	3.6	7	100	0	50	28	0	0	72	0.86
3844909--3844967	26	2.3	25	85	5	82	49	0	0	50	1.00
3844949--3844989	19	2.2	19	76	20	50	41	0	2	56	1.13
3845717--3845811	44	2.2	44	86	7	131	54	1	5	38	1.30
3845796--3845838	18	2.4	17	81	11	50	48	0	6	44	1.29
3846010--3846076	22	3.0	21	76	20	64	62	0	4	32	1.15
3846070--3846122	18	2.6	21	74	22	58	56	0	0	43	0.99
3846080--3846125	18	2.5	19	82	10	60	58	0	0	41	0.98
3848919--3848998	32	2.6	32	75	16	89	57	0	1	41	1.07
3848942--3848992	15	3.3	15	74	15	50	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3848925--3849033	31	3.4	33	75	16	88	55	0	0	43	1.05
3850935--3850973	18	2.2	18	100	0	78	30	17	15	35	1.91
3854484--3854555	18	3.9	18	78	8	65	54	0	0	45	0.99
3854869--3854897	13	2.1	14	93	6	51	44	3	0	51	1.18
3855779--3855868	30	3.3	27	71	17	78	57	0	1	41	1.06
3856186--3856247	23	2.7	23	73	9	63	64	8	4	22	1.40
3857014--3857126	59	1.9	59	83	5	149	49	7	12	30	1.67
3858117--3858207	31	2.9	31	91	1	146	62	4	0	32	1.15
3858219--3858282	4	17.2	4	75	15	50	0	20	0	79	0.73
3858219--3858280	27	2.3	27	86	8	81	0	19	0	80	0.71
3858219--3858282	7	8.6	8	74	17	50	0	20	0	79	0.73
3859018--3859054	18	2.1	19	85	10	51	37	18	5	37	1.74
3866373--3866406	2	17.0	2	100	0	68	50	0	0	50	1.00
3873380--3873408	13	2.2	13	100	0	58	55	0	0	44	0.99
3877568--3877600	2	16.5	2	100	0	66	51	0	0	48	1.00
3886433--3886483	26	2.0	26	88	7	77	54	1	1	41	1.22
3886503--3886538	17	2.1	17	89	0	54	38	0	0	61	0.96
3886503--3886544	17	2.6	16	82	14	50	40	0	0	59	0.97
3886652--3886723	32	2.2	33	85	2	92	59	5	2	31	1.35
3887654--3887692	20	1.9	21	84	5	53	69	7	0	23	1.14
3887803--3887831	15	1.9	15	100	0	58	3	6	0	89	0.57
3888765--3888881	60	2.0	60	91	0	189	16	20	29	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3894810--3894867	20	2.8	21	76	7	66	58	0	0	41	0.98
3894808--3894867	21	2.8	23	73	16	67	58	0	0	41	0.98
3895379--3895408	6	5.0	6	95	0	51	86	0	13	0	0.57
3895757--3895796	16	2.4	16	83	4	53	35	0	0	65	0.93
3896432--3896471	21	1.9	21	85	10	55	52	0	0	47	1.00
3896622--3896719	33	2.8	35	74	20	89	46	0	1	52	1.07
3899692--3899741	23	2.2	23	82	7	57	62	2	0	36	1.07
3900390--3900416	3	9.0	3	100	0	54	0	33	0	66	0.92
3903045--3903102	18	3.2	18	65	0	53	27	6	25	39	1.81
3903033--3903102	36	1.9	36	100	0	140	31	5	28	34	1.81
3907567--3907619	26	2.0	26	96	0	97	26	13	18	41	1.87
3913968--3913992	1	25.0	1	100	0	50	0	100	0	0	0.00
3922235--3922266	2	16.5	2	93	6	57	46	0	0	53	1.00
3926994--3927018	2	12.5	2	100	0	50	52	48	0	0	1.00
3935548--3935578	2	15.5	2	93	0	53	48	0	3	48	1.17
3936360--3936410	21	2.5	19	77	20	57	47	1	0	50	1.12
3936634--3936691	14	3.9	15	78	13	57	43	0	0	56	0.99
3936645--3936684	20	1.9	20	85	10	53	50	0	0	50	1.00
3936830--3936884	15	3.5	15	80	5	56	54	0	0	45	0.99
3936862--3936930	16	4.4	16	77	17	65	52	0	2	44	1.16
3937548--3937590	20	2.1	21	82	4	52	62	2	0	34	1.08
3937665--3937695	2	15.5	2	100	0	62	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)
3940592--3940646	28	2.0	27	86	6	76	45	0	0	54	0.99
3940604--3940646	14	3.0	15	76	13	54	46	0	0	53	1.00
3940604--3940649	15	3.3	14	75	22	51	45	0	0	54	0.99
3943767--3943816	3	16.7	3	91	0	82	34	4	0	62	1.14
3945473--3945554	33	2.5	33	91	0	128	37	29	4	28	1.78
3945626--3945655	3	10.0	3	100	0	60	33	33	0	33	1.58
3949644--3949700	24	2.4	25	79	8	64	61	0	0	38	0.96
3949828--3949866	12	3.2	12	85	3	51	28	0	0	71	0.86
3949820--3949982	21	7.4	22	67	23	62	30	1	3	64	1.21
3949821--3949885	16	4.0	16	75	11	60	30	0	3	66	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