genome.fa.s74.2.7.7.80.10.50.1000.19.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  19  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)
3706293--3706350	30	1.9	31	85	3	82	24	25	15	34	1.95
3706318--3706406	46	1.9	46	95	0	160	23	25	11	39	1.88
3706370--3707243	27	32.0	27	93	1	1469	21	35	14	27	1.93
3706370--3707243	82	10.7	81	94	1	1469	21	35	14	27	1.93
3706370--3707243	109	8.0	108	94	1	1469	21	35	14	27	1.93
3707226--3708209	32	31.8	32	89	4	1327	30	32	18	18	1.95
3707235--3708157	399	2.3	399	98	0	1758	30	32	18	17	1.95
3708242--3708360	49	2.5	47	80	9	127	19	29	22	28	1.98
3709046--3709090	22	2.0	23	82	4	56	48	15	17	17	1.81
3709445--3709485	11	3.5	11	81	12	55	78	0	19	2	0.87
3715321--3715353	9	3.7	9	95	0	57	45	18	33	3	1.65
3716902--3716940	2	19.5	2	94	0	69	48	0	0	51	1.00
3718652--3718709	29	1.9	31	86	6	84	50	3	5	41	1.42
3720316--3720361	2	23.0	2	100	0	92	50	0	0	50	1.00
3721662--3721692	2	15.5	2	100	0	62	51	0	48	0	1.00
3722571--3722684	56	2.0	56	87	0	165	35	13	14	35	1.86
3725721--3725754	2	17.5	2	87	6	52	44	0	0	55	0.99
3726183--3726208	2	13.0	2	100	0	52	50	0	0	50	1.00
3726600--3726635	2	18.0	2	94	0	63	47	0	0	52	1.00
3727120--3727172	2	26.5	2	88	0	79	47	0	3	49	1.19
3729699--3729733	13	2.7	13	86	0	52	25	0	0	74	0.82
3735953--3735991	20	2.0	20	84	0	51	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737038--3737068	2	15.5	2	93	0	53	48	3	0	48	1.17
3743245--3743278	15	2.3	15	89	0	50	29	0	0	70	0.87
3743838--3743890	15	3.5	15	82	7	63	49	0	0	50	1.00
3744039--3744088	22	2.3	22	86	6	66	38	0	4	58	1.17
3744049--3744115	32	2.0	33	83	11	84	38	0	1	59	1.06
3745753--3745777	2	12.5	2	100	0	50	52	0	48	0	1.00
3749619--3749660	21	2.0	21	86	13	61	40	0	0	59	0.97
3750080--3750118	20	2.0	20	89	0	60	53	0	0	46	1.00
3751255--3751296	18	2.3	19	87	4	59	42	0	0	57	0.99
3752733--3752761	3	9.7	3	100	0	58	34	0	34	31	1.58
3753126--3753159	17	1.9	18	88	5	52	29	0	2	67	1.05
3753525--3753568	15	2.7	16	77	19	54	65	0	4	29	1.12
3753742--3753787	14	3.4	14	77	20	53	58	2	0	39	1.10
3753767--3753848	28	2.9	29	81	13	91	62	2	1	34	1.16
3754233--3754258	10	2.6	10	100	0	52	57	0	0	42	0.98
3755050--3755082	9	3.3	10	87	12	50	30	0	0	69	0.88
3755075--3755158	28	3.0	28	81	8	82	48	0	0	51	1.00
3755141--3755181	17	2.5	16	88	11	57	51	2	2	43	1.28
3755724--3755770	18	2.6	18	83	10	51	8	27	0	63	1.23
3756062--3756106	23	2.0	23	86	0	63	68	2	0	28	1.01
3756743--3756779	15	2.5	15	91	4	58	24	2	0	72	0.97
3758713--3758855	20	7.2	20	69	14	80	50	1	0	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3758754--3758815	32	1.9	33	86	3	90	53	1	0	45	1.10
3760546--3760600	22	2.6	21	77	11	58	61	1	0	36	1.06
3760649--3760677	14	2.0	15	93	6	51	37	0	0	62	0.96
3764765--3764797	2	16.5	2	93	0	57	48	48	3	0	1.17
3764797--3764834	2	19.0	2	94	0	67	50	2	0	47	1.15
3767243--3767271	6	4.8	6	100	0	58	48	0	34	17	1.47
3767431--3767488	11	4.7	13	75	12	52	62	0	0	37	0.96
3768722--3768787	21	3.1	21	68	8	53	7	48	12	31	1.68
3769361--3769391	14	2.3	14	94	5	55	16	64	6	12	1.47
3770608--3770657	2	25.0	2	100	0	100	50	0	0	50	1.00
3773700--3773755	20	2.8	20	86	13	71	62	1	0	35	1.06
3773804--3773888	17	4.8	18	68	15	54	30	1	1	67	1.06
3773801--3773848	14	3.3	15	81	18	57	25	0	0	75	0.81
3773803--3773881	35	2.2	35	80	13	90	30	1	1	67	1.07
3773865--3773978	55	2.1	55	81	0	129	36	2	2	57	1.26
3774026--3774189	5	32.0	5	65	16	50	33	0	0	65	0.97
3774022--3774112	19	5.1	17	72	16	53	34	1	0	64	1.01
3774054--3774156	19	5.3	19	71	19	70	33	0	0	66	0.99
3774062--3774141	10	7.7	11	82	13	75	31	1	0	67	0.99
3774030--3774189	39	4.2	39	77	16	138	33	0	0	65	0.97
3774096--3774141	22	2.0	23	88	12	69	30	0	0	69	0.89
3774029--3774190	27	6.1	27	70	20	94	33	0	0	65	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3774058--3774189	51	2.5	51	80	14	139	33	0	0	65	0.98
3774052--3774196	33	4.4	32	73	17	91	35	0	0	64	0.99
3774058--3774187	67	2.0	66	82	10	158	33	0	0	65	0.98
3774200--3774237	20	1.9	20	84	10	51	50	0	5	44	1.24
3775995--3776023	2	14.5	2	100	0	58	0	51	0	48	1.00
3777198--3777223	2	13.0	2	100	0	52	50	0	0	50	1.00
3778119--3778161	21	2.0	21	81	0	50	51	0	2	46	1.13
3778124--3778216	29	3.1	29	73	14	89	47	0	0	52	1.00
3778176--3778219	17	2.6	16	82	13	52	43	0	0	56	0.99
3778133--3778214	21	4.0	21	74	13	64	46	0	0	53	1.00
3778134--3778220	18	5.1	18	71	19	69	47	0	0	52	1.00
3784802--3784867	34	1.9	34	96	0	123	27	13	16	42	1.86
3792448--3792495	24	2.0	24	100	0	96	16	16	12	54	1.72
3796957--3796992	18	2.0	18	94	0	63	30	0	0	69	0.89
3797254--3797400	2	79.0	2	72	20	106	50	2	2	44	1.30
3797244--3797309	35	1.9	35	87	6	100	42	0	3	54	1.15
3797283--3797411	29	4.3	29	75	17	104	52	3	2	41	1.32
3797682--3797757	29	2.8	28	79	13	79	68	1	3	26	1.15
3798130--3798163	17	2.0	17	88	0	50	70	0	0	29	0.87
3798222--3798288	7	9.6	7	75	12	57	40	2	4	52	1.37
3798233--3798367	2	72.5	2	71	19	87	44	2	3	48	1.35
3801496--3801525	7	4.3	7	95	0	51	73	10	13	3	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3801670--3801700	2	15.5	2	100	0	62	48	0	0	51	1.00
3803030--3803059	7	4.3	7	91	0	51	66	0	3	30	1.07
3803127--3803201	22	3.4	22	76	5	71	45	1	0	53	1.08
3811715--3811748	2	17.0	2	100	0	68	0	0	50	50	1.00
3817050--3817098	2	24.5	2	91	0	80	0	48	4	46	1.20
3817896--3817937	18	2.3	19	84	12	52	30	2	0	66	1.04
3817949--3817982	17	2.0	17	88	0	50	50	2	5	41	1.42
3818475--3818519	16	2.6	17	82	13	56	55	0	0	44	0.99
3822904--3822982	29	2.8	28	79	14	83	43	0	1	55	1.07
3822944--3823019	25	3.0	26	72	18	63	47	0	0	52	1.00
3823412--3823441	2	15.0	2	100	0	60	50	0	0	50	1.00
3823478--3823502	2	12.5	2	100	0	50	0	48	0	52	1.00
3823742--3823771	14	2.1	15	93	6	53	30	0	0	70	0.88
3824122--3824211	23	3.9	23	80	9	94	36	2	1	60	1.17
3824136--3824211	22	3.3	23	77	12	84	39	0	1	59	1.06
3824167--3824318	32	4.4	33	65	22	87	42	1	0	54	1.16
3824148--3824439	108	2.6	111	85	10	379	45	1	0	52	1.16
3824148--3824459	113	2.8	110	78	15	327	44	1	0	53	1.16
3824583--3824626	14	3.1	14	90	3	61	50	0	0	50	1.00
3825396--3825451	14	4.0	14	75	13	53	55	0	0	44	0.99
3825414--3825480	21	3.1	21	78	20	68	49	0	1	49	1.10
3826958--3826990	9	3.7	9	91	0	57	87	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3826958--3826992	14	2.5	14	86	13	54	85	0	14	0	0.59
3827659--3827704	2	23.0	2	100	0	92	50	0	0	50	1.00
3828029--3828071	13	3.4	13	77	3	52	60	0	11	27	1.31
3828127--3828163	17	2.2	18	85	9	51	70	0	0	29	0.88
3831130--3831156	1	27.0	1	100	0	54	100	0	0	0	0.00
3832522--3832642	11	10.8	11	67	19	63	36	0	2	61	1.10
3832542--3832576	12	2.8	13	91	8	56	28	0	0	71	0.86
3832513--3832643	68	1.9	68	90	3	210	37	0	2	60	1.10
3832993--3833029	18	2.1	17	90	5	56	48	2	0	48	1.15
3833133--3833184	15	3.3	17	70	26	51	36	0	1	61	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