genome.fa.s223.2.7.7.80.10.50.1000.22.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  22  of  26  ( 3021 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)
3504203--3505386	296	4.0	296	92	1	1723	43	10	13	32	1.78
3505355--3505435	39	2.1	39	90	0	126	35	9	13	40	1.78
3506328--3506386	29	2.0	29	100	0	118	27	10	0	62	1.27
3507439--3507486	22	2.2	21	82	10	53	60	8	0	31	1.26
3508923--3508948	11	2.4	11	100	0	52	30	7	15	46	1.74
3509117--3509784	166	4.0	168	78	10	537	31	10	8	49	1.67
3509224--3509784	166	3.4	165	80	9	608	30	10	9	49	1.69
3509224--3509860	166	3.8	162	77	10	526	30	10	8	49	1.68
3509230--3509841	332	1.8	333	80	7	733	30	10	8	49	1.68
3510333--3510378	10	4.7	9	85	15	56	82	0	17	0	0.67
3511563--3511604	3	14.0	3	100	0	84	66	0	0	33	0.92
3515331--3516790	309	4.7	308	82	5	1544	38	21	17	22	1.93
3515332--3516790	155	9.5	154	80	5	1409	38	21	17	22	1.93
3518184--3518279	25	3.5	25	72	20	84	10	33	18	37	1.85
3518213--3518343	33	3.9	34	77	8	108	10	32	16	40	1.83
3519185--3519216	13	2.3	15	89	10	50	59	0	6	34	1.23
3519200--3519262	19	3.3	19	76	8	65	53	1	4	39	1.31
3519417--3519745	166	2.0	165	81	8	391	53	8	10	27	1.64
3520290--3520326	19	1.9	19	88	0	56	27	8	2	62	1.37
3523513--3523540	10	2.8	10	100	0	56	10	7	50	32	1.64
3524224--3524274	20	2.5	21	83	3	68	35	15	5	43	1.71
3525752--3525776	5	5.0	5	100	0	50	20	0	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529798--3529822	1	25.0	1	100	0	50	0	0	0	100	0.00
3530972--3530999	3	9.3	3	100	0	56	0	35	0	64	0.94
3531715--3531790	23	3.4	22	76	8	64	51	1	1	46	1.17
3532370--3532441	27	2.7	27	80	8	83	30	6	15	47	1.72
3537491--3537554	10	6.3	10	79	15	69	28	1	1	68	1.07
3537485--3537525	17	2.4	17	79	0	55	29	4	2	63	1.28
3537488--3537552	19	3.3	18	75	22	60	27	1	1	69	1.07
3539318--3539358	20	2.0	22	85	9	59	60	0	0	39	0.96
3540320--3540353	2	17.0	2	93	0	59	50	2	0	47	1.16
3540695--3540729	3	11.7	3	100	0	70	34	0	0	65	0.93
3548445--3548474	2	15.5	2	93	6	53	53	0	0	46	1.00
3548523--3548558	2	18.0	2	100	0	72	50	0	0	50	1.00
3550047--3550075	11	2.5	12	94	5	51	65	0	3	31	1.09
3550103--3550166	30	2.1	31	82	8	78	56	1	4	37	1.30
3551779--3551821	16	2.5	18	88	7	63	48	4	4	41	1.44
3552302--3552328	2	13.5	2	100	0	54	48	0	0	51	1.00
3552554--3552612	28	2.1	28	84	12	77	44	0	0	55	0.99
3552539--3552600	22	2.9	20	72	11	52	38	0	0	61	0.96
3552565--3552608	22	2.0	22	86	0	61	43	0	0	56	0.99
3558226--3558257	2	16.0	2	93	0	55	50	3	46	0	1.17
3558420--3558470	18	2.8	18	74	11	59	39	1	1	56	1.22
3558452--3558483	14	2.4	14	94	5	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558561--3558618	30	1.9	30	86	6	82	60	0	0	39	0.97
3558858--3558925	20	3.5	20	67	15	52	48	1	0	50	1.10
3559081--3559177	12	7.5	12	70	21	63	61	0	0	38	0.96
3559086--3559178	11	8.5	11	70	20	52	61	0	0	38	0.96
3559114--3559155	18	2.3	19	83	4	50	64	0	0	35	0.94
3559286--3559337	5	10.0	5	75	8	50	75	0	23	1	0.91
3559286--3559344	11	5.5	11	81	6	59	74	0	22	3	0.96
3559355--3559471	19	5.8	20	72	18	91	36	0	0	63	0.95
3559390--3559452	10	6.3	10	76	12	58	39	0	0	60	0.97
3559402--3559438	17	2.1	18	90	5	58	35	0	0	64	0.94
3559446--3559475	12	2.5	12	94	0	51	30	0	0	70	0.88
3559783--3559843	25	2.4	27	81	10	74	36	0	0	63	0.94
3559837--3559885	21	2.3	21	85	3	62	28	2	4	65	1.22
3560395--3560425	3	10.0	3	93	6	53	32	0	3	64	1.09
3561877--3562016	73	1.9	73	81	8	169	44	6	9	40	1.62
3564299--3564339	22	1.9	21	85	5	55	41	0	0	58	0.98
3574193--3574277	46	1.9	43	85	7	116	48	0	1	50	1.08
3574712--3574750	18	2.2	18	90	0	60	48	25	0	25	1.51
3574755--3574795	19	2.2	19	100	0	82	75	9	14	0	1.04
3576697--3576763	12	6.0	11	73	19	50	44	0	0	55	0.99
3576703--3576746	20	2.2	20	84	8	54	40	0	0	59	0.98
3576710--3576781	32	2.3	31	79	13	76	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)
3576758--3576809	19	2.7	19	96	0	95	50	3	0	46	1.20
3577878--3577956	28	2.6	30	71	18	74	45	0	7	46	1.31
3578391--3578425	18	1.9	18	88	11	54	25	0	2	71	1.00
3579002--3579043	17	2.5	17	88	0	57	57	0	0	42	0.99
3579133--3579188	21	2.7	19	79	17	58	37	0	0	62	0.95
3581939--3581989	15	3.4	15	78	10	59	43	1	0	54	1.11
3581971--3582024	22	2.2	25	84	12	69	48	1	0	50	1.11
3582391--3582436	24	1.9	24	86	0	65	41	10	6	41	1.66
3582996--3583030	18	2.0	17	88	5	52	74	0	2	22	0.95
3585151--3585194	21	2.1	21	91	0	70	50	18	9	22	1.75
3586141--3586462	165	2.0	164	96	0	590	47	15	12	24	1.80
3591337--3591370	12	2.8	12	90	4	50	67	2	0	29	1.05
3592123--3592170	17	2.8	18	84	15	66	33	2	0	64	1.05
3593619--3593679	29	2.1	29	87	6	88	31	1	0	67	1.01
3595210--3595242	16	1.9	18	88	11	52	51	0	0	48	1.00
3595639--3595694	26	2.1	27	84	12	73	57	1	1	39	1.20
3596277--3596305	2	14.5	2	100	0	58	51	0	0	48	1.00
3596413--3596456	14	3.5	13	77	22	58	38	0	0	61	0.96
3596407--3596453	24	1.9	24	91	4	76	38	0	0	61	0.96
3605897--3605922	2	13.0	2	100	0	52	50	0	0	50	1.00
3606210--3606245	19	1.9	19	88	5	56	0	16	0	83	0.65
3609863--3609951	13	6.8	13	68	16	51	35	1	0	62	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3609847--3609931	40	2.3	38	84	11	113	37	0	0	62	0.96
3609903--3609951	24	2.0	24	88	8	71	32	2	0	65	1.04
3609908--3609963	24	2.2	25	84	9	69	28	5	0	66	1.14
3610269--3610306	14	2.8	13	88	7	58	18	0	0	81	0.69
3610266--3610304	19	2.1	19	90	0	60	20	0	0	79	0.73
3612696--3612729	3	11.3	3	100	0	68	64	0	0	35	0.94
3613246--3613278	17	1.9	17	93	0	57	63	0	0	36	0.95
3613244--3613338	23	4.3	22	71	21	74	57	0	1	41	1.05
3613239--3613362	41	3.0	42	81	14	134	54	0	1	42	1.15
3613287--3613353	23	2.9	22	80	8	71	55	0	0	44	0.99
3613538--3613577	19	2.2	18	90	4	62	40	0	2	57	1.12
3613524--3613605	32	2.5	31	79	11	76	39	2	1	57	1.20
3614486--3614538	22	2.4	22	83	0	70	47	0	0	52	1.00
3614535--3614578	18	2.5	17	77	3	52	61	0	0	38	0.96
3615476--3615510	13	2.5	14	90	9	54	48	0	0	51	1.00
3615470--3615510	21	1.9	22	85	5	57	48	0	0	51	1.00
3615833--3616000	82	2.0	82	98	0	327	29	17	14	38	1.89
3617436--3617485	16	3.2	16	80	13	59	42	0	0	58	0.98
3617430--3617479	22	2.2	23	86	10	68	40	0	0	60	0.97
3619351--3619383	3	11.3	3	93	6	59	66	0	0	33	0.92
3622958--3623014	19	3.3	17	77	15	55	47	1	0	50	1.11
3624816--3624856	20	2.1	20	86	4	57	36	4	0	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3632395--3632507	37	3.1	37	100	0	226	26	31	15	26	1.95
3634366--3634398	15	2.1	16	88	5	50	30	0	3	66	1.06
3636286--3636317	12	2.8	12	86	13	50	65	0	0	34	0.93
3636336--3636386	27	1.9	26	84	4	66	47	1	1	49	1.24
3636389--3636449	29	2.2	26	81	18	70	57	0	3	39	1.15
3636615--3636657	15	2.9	15	86	6	61	37	2	0	60	1.10
3636663--3636702	21	2.0	21	85	5	55	70	0	0	30	0.88
3646490--3646539	18	2.8	17	85	14	66	18	6	0	76	0.99
3646490--3646539	9	5.6	9	75	15	50	18	6	0	76	0.99
3646498--3646548	17	2.8	18	85	5	59	19	7	0	72	1.08

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