genome.fa.s258.2.7.7.80.10.50.1000.14.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  14  of  25  ( 2900 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)
3186959--3187016	10	5.8	10	76	17	50	31	0	0	68	0.89
3186957--3187030	21	3.3	22	77	9	78	29	1	0	68	0.97
3196434--3196472	19	2.0	21	85	10	55	69	2	0	28	1.02
3202347--3202380	3	11.3	3	100	0	68	67	0	0	32	0.91
3210258--3210293	2	18.0	2	100	0	72	50	0	0	50	1.00
3210620--3210659	21	1.9	21	85	10	55	42	5	32	20	1.73
3216219--3216244	2	13.0	2	100	0	52	0	0	50	50	1.00
3220092--3220140	2	24.5	2	87	0	71	46	2	4	46	1.33
3220874--3220903	2	14.5	2	93	6	51	46	3	0	50	1.18
3221417--3221459	16	2.6	17	82	10	54	53	2	0	44	1.13
3221436--3221522	28	3.1	26	71	22	70	57	0	1	41	1.06
3221435--3221523	30	3.2	27	73	17	85	56	0	1	42	1.06
3221570--3221614	16	2.6	18	80	20	60	66	6	4	22	1.33
3222498--3222540	18	2.3	18	84	11	52	0	20	0	79	0.74
3223145--3223289	75	1.9	75	98	0	281	51	11	6	31	1.62
3223695--3223779	32	2.6	34	78	12	88	51	0	2	45	1.13
3229811--3229863	26	2.0	27	85	10	74	62	0	1	35	1.06
3235713--3235804	46	2.0	46	89	0	139	50	11	8	29	1.69
3238108--3238159	22	2.3	24	80	12	65	46	0	0	53	1.00
3240055--3240118	23	2.8	23	74	6	60	48	1	1	48	1.20
3241899--3241967	36	1.9	36	82	8	88	43	0	5	50	1.26
3242066--3242105	9	4.2	9	90	9	62	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3242055--3242084	15	2.0	15	93	0	51	30	0	0	70	0.88
3242687--3242746	19	3.2	18	77	15	59	46	0	0	53	1.00
3242777--3242848	35	2.1	34	84	7	92	47	0	2	50	1.15
3245722--3245762	2	20.5	2	100	0	82	48	0	0	51	1.00
3247056--3247246	66	2.9	66	86	3	242	31	20	23	24	1.98
3250003--3250045	23	2.0	22	86	9	61	39	0	4	55	1.20
3253759--3253790	3	10.7	3	93	0	55	62	0	34	3	1.11
3254013--3254305	3	96.0	3	76	6	243	58	0	40	0	1.08
3254286--3254385	51	2.0	50	84	7	130	43	15	20	22	1.88
3254314--3254409	48	1.9	49	83	6	122	43	15	15	25	1.86
3260708--3260753	23	2.0	23	100	0	92	34	21	8	34	1.84
3267675--3267708	2	16.5	2	87	6	50	50	2	0	47	1.16
3269051--3269078	3	9.3	3	100	0	56	32	0	0	67	0.91
3277151--3277192	6	6.8	6	82	12	50	85	14	0	0	0.59
3277154--3277186	14	2.4	14	94	0	57	84	15	0	0	0.61
3277151--3277192	20	2.1	20	90	0	66	85	14	0	0	0.59
3282795--3282820	2	13.0	2	100	0	52	50	0	0	50	1.00
3284083--3284108	2	13.0	2	100	0	52	50	0	0	50	1.00
3284225--3284255	2	15.5	2	100	0	62	51	0	0	48	1.00
3285239--3285275	18	2.0	19	89	5	58	5	40	0	54	1.24
3287837--3287864	2	14.0	2	100	0	56	50	0	0	50	1.00
3288089--3288121	13	2.6	13	90	4	50	51	6	0	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3290299--3290379	40	2.0	40	100	0	162	37	12	4	45	1.63
3290680--3290731	24	2.2	21	78	21	59	46	0	0	53	1.00
3290705--3290809	33	3.2	33	69	15	83	51	0	0	48	1.00
3290728--3290828	34	3.1	34	74	17	88	54	0	0	45	0.99
3290811--3290848	5	8.0	5	82	11	53	57	0	0	42	0.98
3290752--3290829	29	2.5	31	75	19	83	56	0	0	43	0.99
3290752--3290848	28	3.3	29	73	16	83	55	0	0	44	0.99
3293972--3294029	21	2.9	21	80	12	52	62	0	0	37	0.96
3294580--3294625	18	2.4	19	79	13	51	43	0	0	56	0.99
3294875--3294932	23	2.6	24	76	13	61	65	0	0	34	0.93
3295627--3295679	11	4.9	11	72	4	54	45	0	0	54	0.99
3295627--3295679	21	2.5	22	96	3	99	45	0	0	54	0.99
3295765--3295795	14	2.2	14	94	0	53	25	0	3	70	1.02
3295931--3295974	11	3.9	11	82	14	54	75	0	4	20	0.98
3295921--3295969	23	2.1	23	88	7	73	75	0	4	20	0.96
3302088--3302188	53	1.9	52	82	9	125	39	0	1	57	1.17
3302503--3302538	18	2.1	18	94	5	65	55	0	0	44	0.99
3303227--3303278	13	4.0	13	80	7	52	55	0	5	38	1.24
3310358--3310391	2	17.0	2	93	0	59	0	50	2	47	1.16
3314731--3314783	18	2.9	18	76	18	56	47	0	0	52	1.00
3318227--3318268	21	2.0	21	85	0	57	4	50	4	40	1.45
3319391--3319429	2	19.5	2	100	0	78	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323555--3323592	2	19.0	2	100	0	76	0	50	0	50	1.00
3324738--3324766	2	14.5	2	100	0	58	48	0	0	51	1.00
3332782--3332807	3	8.7	3	100	0	52	30	34	0	34	1.58
3339249--3339278	3	10.0	3	100	0	60	66	0	33	0	0.92
3343071--3343140	22	3.2	22	61	15	54	40	15	7	37	1.75
3343046--3343176	44	3.0	45	95	3	239	38	20	8	32	1.83
3346127--3346168	19	2.2	20	87	8	61	38	7	2	52	1.42
3346612--3346660	3	16.3	3	83	8	64	65	2	2	30	1.15
3354151--3354179	2	14.5	2	100	0	58	48	0	0	51	1.00
3356893--3356917	3	8.3	3	100	0	50	32	68	0	0	0.90
3358748--3358781	16	2.2	16	89	5	52	50	0	0	50	1.00
3358780--3358826	18	2.6	18	86	10	60	29	0	0	70	0.88
3359669--3359699	12	2.6	12	94	0	53	67	0	9	22	1.19
3359909--3359948	17	2.3	17	86	4	53	47	0	0	52	1.00
3360165--3360197	8	4.1	8	88	11	50	0	9	0	90	0.44
3360165--3360197	9	3.9	9	92	7	52	0	9	0	90	0.44
3360165--3360197	17	2.0	16	94	5	57	0	9	0	90	0.44
3366546--3366661	56	2.1	56	83	0	142	30	25	18	25	1.98
3368496--3368554	17	3.4	18	68	15	52	50	0	0	49	1.00
3369793--3369818	3	8.7	3	100	0	52	69	0	0	30	0.89
3371575--3371635	27	2.3	26	82	17	74	50	0	1	47	1.10
3371714--3371795	5	16.0	5	71	14	51	64	0	3	31	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371748--3371784	10	3.5	11	89	10	60	64	0	0	35	0.94
3371748--3371795	21	2.3	21	85	7	62	66	0	0	33	0.92
3371752--3371796	16	2.8	16	86	6	56	68	0	0	31	0.89
3372126--3372187	27	2.3	27	81	13	74	48	0	1	50	1.10
3372360--3372429	5	14.2	5	77	18	58	67	0	0	32	0.91
3372337--3372426	11	8.1	11	74	7	74	64	2	3	30	1.22
3372364--3372426	13	4.5	14	71	17	51	68	0	0	31	0.90
3372493--3372554	11	6.1	11	73	19	55	66	0	0	33	0.92
3372504--3372569	16	4.2	16	78	7	73	65	0	1	33	1.02
3373335--3373372	14	2.8	14	84	4	51	39	0	0	60	0.97
3373778--3373815	15	2.4	16	86	4	51	57	0	0	42	0.98
3376854--3376878	6	4.2	6	100	0	50	32	32	36	0	1.58
3380703--3380745	18	2.4	18	84	3	61	67	0	2	30	1.03
3380793--3380825	17	1.9	17	88	11	50	45	0	6	48	1.27
3380903--3380972	29	2.4	31	74	18	76	45	2	1	50	1.25
3380939--3380994	24	2.5	22	83	13	71	39	0	0	60	0.97
3381525--3381549	2	12.5	2	100	0	50	48	0	0	52	1.00
3387408--3387583	91	1.9	91	98	0	343	41	20	17	21	1.90
3394324--3394375	12	3.7	15	82	17	51	76	0	21	1	0.87
3394344--3394379	12	2.8	12	91	8	54	86	0	13	0	0.58
3405077--3405120	21	2.2	20	83	4	52	25	11	0	63	1.27
3405497--3405551	3	19.3	3	85	10	64	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)
3405575--3405619	18	2.6	18	78	3	56	57	0	11	31	1.33
3405775--3405880	36	3.0	35	80	18	123	52	0	1	44	1.18
3420253--3420315	26	2.5	24	82	10	65	52	0	3	44	1.17
3420756--3420818	33	1.9	33	96	0	117	33	9	3	53	1.49
3425127--3425334	50	4.2	50	87	0	290	32	17	19	31	1.95
3429708--3429845	52	2.7	50	86	4	195	32	21	15	31	1.94
3441780--3442271	271	1.8	269	95	0	903	23	15	21	40	1.91
3446025--3446075	2	25.5	2	100	0	102	50	0	0	49	1.00
3456368--3456407	2	20.0	2	100	0	80	50	0	50	0	1.00
3459903--3459944	2	21.5	2	85	4	59	52	0	0	47	1.00

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