genome.fa.s446.2.7.7.80.10.50.1000.21.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: Scaffold446
Parameters: 2 7 7 80 10 50 1000
Length:  3567220

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  21  of  22  ( 2549 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)
3349343--3354369	476	10.6	476	85	3	6264	35	13	19	31	1.91
3350591--3354150	159	22.4	156	66	14	566	34	13	20	31	1.91
3354242--3354527	158	1.8	158	91	0	473	38	15	17	29	1.89
3354242--3354629	158	2.5	157	82	6	428	38	14	18	28	1.90
3353764--3355005	633	2.0	635	86	1	1763	36	13	18	31	1.90
3355265--3355362	49	2.0	49	83	0	124	28	6	19	45	1.74
3354803--3355830	525	2.0	527	84	4	1369	35	12	19	32	1.89
3357187--3357284	49	2.0	49	95	0	178	27	9	21	41	1.83
3358553--3358754	79	2.6	79	81	3	219	29	16	29	25	1.97
3358706--3358782	28	2.8	28	83	0	82	23	22	33	20	1.97
3358766--3358894	51	2.5	52	81	11	149	33	9	24	33	1.87
3361244--3361269	13	2.0	13	100	0	52	38	15	15	30	1.88
3361223--3361289	33	2.0	33	88	0	98	43	16	14	25	1.86
3361309--3361376	19	3.9	18	76	23	83	38	14	11	35	1.83
3361331--3361355	13	1.9	13	100	0	50	32	16	16	36	1.90
3361312--3361374	32	2.0	32	96	0	117	36	15	12	34	1.86
3361412--3361472	20	3.0	20	95	4	106	31	9	19	39	1.84
3362085--3363012	55	16.4	55	85	6	1205	25	20	27	27	1.99
3362131--3362220	26	3.3	26	66	19	67	20	18	33	27	1.96
3362157--3362245	29	3.2	29	65	26	82	21	19	31	28	1.97
3362084--3363012	171	5.5	171	94	2	1531	25	20	27	27	1.99
3362085--3363012	226	4.1	218	85	7	1176	25	20	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3362872--3362957	27	3.1	27	62	15	68	24	18	29	27	1.98
3364017--3364046	11	2.7	11	94	0	51	0	10	3	86	0.67
3376343--3376542	79	2.5	79	82	4	206	29	16	29	25	1.97
3376497--3376573	28	2.8	28	83	0	82	23	22	33	20	1.97
3376557--3376685	51	2.5	52	79	11	140	33	10	24	32	1.88
3379035--3379060	13	2.0	13	100	0	52	38	15	15	30	1.88
3379014--3379080	33	2.0	33	85	0	89	43	14	14	26	1.85
3379100--3379167	19	3.9	18	76	23	83	38	14	11	35	1.83
3379122--3379146	13	1.9	13	100	0	50	32	16	16	36	1.90
3379103--3379165	32	2.0	32	96	0	117	36	15	12	34	1.86
3379203--3379280	21	3.8	21	96	1	140	30	8	19	41	1.82
3379626--3381774	477	4.5	476	85	3	2787	35	12	19	32	1.90
3379620--3381774	954	2.3	953	87	2	3137	35	12	19	32	1.90
3384169--3385288	55	19.9	54	84	6	1154	27	29	19	23	1.98
3384175--3385288	110	9.9	110	84	8	1281	27	29	19	23	1.98
3384169--3385288	165	6.6	165	81	9	1278	27	29	19	23	1.98
3386073--3386140	19	3.9	19	76	21	76	36	11	14	36	1.83
3386075--3386137	32	2.0	32	93	0	108	36	12	15	34	1.86
3386094--3386118	13	1.9	13	100	0	50	36	16	16	32	1.90
3386162--3386226	33	2.0	33	87	0	94	27	15	13	43	1.85
3388571--3388904	51	6.4	52	69	11	191	30	26	11	31	1.92
3388680--3388752	27	2.6	28	86	2	94	23	35	21	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388735--3388903	52	3.3	52	80	2	162	30	24	11	33	1.91
3388571--3388963	211	1.9	211	88	3	594	29	27	12	30	1.93
3390666--3390745	25	3.2	25	63	16	67	26	10	21	42	1.84
3390663--3390760	49	2.0	49	95	0	178	26	10	21	41	1.85
3391012--3391677	159	4.2	158	65	16	345	34	13	19	31	1.91
3389937--3391238	527	2.5	525	87	2	1841	33	12	19	33	1.90
3390720--3395187	476	9.3	478	72	12	2311	35	13	19	31	1.90
3390766--3392168	478	3.0	462	91	2	2087	34	13	20	31	1.91
3392155--3392304	78	1.9	80	90	2	241	45	8	19	26	1.79
3392233--3395183	476	6.2	475	87	1	4022	36	13	19	31	1.90
3392442--3394998	159	16.2	157	66	15	734	35	13	19	31	1.91
3398352--3398476	20	5.7	20	81	18	151	43	11	16	28	1.83
3399022--3399670	28	23.2	28	80	5	519	26	16	29	27	1.97
3399289--3400062	82	9.4	82	80	7	597	29	15	28	26	1.96
3399428--3400044	27	22.5	27	82	4	538	30	15	28	25	1.96
3399501--3400062	247	2.3	245	86	4	763	30	14	29	25	1.95
3402668--3408227	476	11.7	476	85	2	7243	35	13	19	31	1.91
3402716--3407692	159	31.4	158	66	12	867	35	13	19	31	1.91
3408993--3409018	13	2.0	13	100	0	52	30	15	15	38	1.88
3411564--3411589	13	2.0	13	100	0	52	38	15	15	30	1.88
3413670--3413700	15	2.1	15	93	0	53	12	22	16	48	1.80
3415504--3415548	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417766--3417791	13	2.0	13	100	0	52	30	15	15	38	1.88
3418423--3421660	951	3.4	944	84	3	4019	35	13	19	32	1.90
3418423--3421664	476	6.8	477	86	2	4012	35	13	19	32	1.90
3421666--3421745	33	2.4	32	85	10	99	50	0	1	48	1.08
3421671--3421745	32	2.2	34	84	13	102	49	0	1	49	1.09
3421700--3421750	26	1.9	27	84	11	70	50	0	0	49	1.00
3421685--3421735	16	3.2	15	72	22	50	50	0	0	49	1.00
3421693--3421762	8	9.1	8	70	23	53	50	0	0	50	1.00
3421727--3421766	11	3.5	12	77	22	50	52	0	0	47	1.00
3422013--3422073	19	3.6	17	74	17	56	47	1	0	50	1.10
3422058--3422104	21	2.3	21	85	10	62	68	0	0	31	0.90
3422058--3422096	10	3.8	10	87	12	53	66	0	0	33	0.92
3422506--3422547	22	1.9	22	85	9	59	52	4	2	40	1.35
3423370--3423403	6	5.7	6	92	0	59	47	17	0	35	1.48
3423370--3423417	18	2.7	18	87	3	62	45	14	0	39	1.45
3424298--3424327	1	30.0	1	93	0	51	0	96	3	0	0.21
3424777--3424803	2	13.5	2	100	0	54	48	0	0	51	1.00
3424819--3424895	30	2.5	29	79	12	84	49	0	1	49	1.09
3426383--3426408	13	2.0	13	100	0	52	30	15	15	38	1.88
3428782--3428828	21	2.3	21	76	23	55	42	4	19	34	1.70
3428949--3428987	13	3.0	13	96	0	69	35	15	17	30	1.91
3428973--3429051	20	3.7	20	78	15	77	44	15	15	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431066--3431096	15	2.1	15	93	0	53	12	22	16	48	1.80
3432900--3432944	21	2.1	21	84	8	56	22	20	6	51	1.70
3435402--3435427	13	2.0	13	100	0	52	30	15	15	38	1.88
3435382--3435445	32	2.0	33	87	3	94	28	14	17	40	1.88
3438703--3438867	84	2.0	84	82	7	201	24	19	3	52	1.62
3440920--3440945	13	2.0	13	100	0	52	30	15	15	38	1.88
3441776--3441813	20	1.9	20	94	0	67	34	10	13	42	1.78
3441848--3441912	20	3.6	20	73	26	81	27	12	15	44	1.82
3441868--3441926	13	4.0	13	73	26	55	28	13	15	42	1.85
3441848--3441925	33	2.4	33	100	0	156	28	12	15	43	1.83
3445267--3445412	52	2.8	52	89	4	215	30	16	17	35	1.92
3445473--3445540	20	3.8	20	74	25	87	35	17	11	35	1.87
3445495--3445519	13	1.9	13	100	0	50	32	16	16	36	1.90
3445475--3445539	33	2.0	33	100	0	130	33	18	12	35	1.88
3445785--3447637	476	3.9	476	85	2	2411	34	13	19	32	1.90
3446120--3447294	159	7.4	157	67	13	382	34	13	19	32	1.91
3448128--3448787	159	4.2	159	67	16	409	33	13	21	32	1.92
3447780--3450312	476	5.3	474	83	3	3076	34	13	20	31	1.91
3448856--3448896	20	2.0	20	100	0	82	29	0	34	36	1.58
3449306--3449999	159	4.4	159	70	9	430	35	12	19	32	1.89
3451723--3451762	20	2.0	20	85	0	53	22	15	10	52	1.71
3453221--3454883	476	3.5	474	88	2	2330	34	14	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3457400--3457451	24	2.2	23	93	3	86	30	3	25	40	1.73
3454930--3462962	475	16.9	476	84	3	9803	35	12	19	32	1.90
3459019--3462962	159	24.9	161	65	15	574	34	12	19	32	1.90
3463798--3463835	20	1.9	19	89	5	58	28	15	15	39	1.89
3463973--3464021	22	2.2	22	82	7	55	48	8	8	34	1.62
3471198--3471238	20	2.0	21	95	4	75	34	19	12	34	1.89
3471219--3471245	13	2.1	13	100	0	54	40	14	14	29	1.86
3471628--3471676	20	2.5	20	100	0	98	36	0	20	42	1.52
3471656--3473184	475	3.2	473	85	2	1984	35	12	19	32	1.90
3476606--3479129	947	2.7	948	84	3	3159	35	13	19	32	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22