genome.fa.s138.2.7.7.80.10.50.1000.3.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1296 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)
382988--383036	19	2.4	19	80	13	53	30	20	4	44	1.70
391258--392431	42	27.9	42	77	4	865	14	29	18	37	1.90
391262--392431	126	9.3	126	78	4	1002	14	29	18	37	1.91
391259--392431	168	7.0	169	78	4	1032	14	29	18	37	1.90
392869--392926	21	2.7	21	81	5	62	68	1	1	27	1.08
393007--393123	25	4.8	25	72	19	113	26	19	6	47	1.75
393073--393142	14	5.2	14	75	19	69	24	21	7	47	1.76
393042--393222	89	2.0	88	81	10	208	27	22	9	41	1.84
393800--393865	31	2.2	30	89	5	105	25	39	18	16	1.91
393883--393931	22	2.2	22	88	0	71	30	36	12	20	1.89
405386--405436	12	4.2	12	73	11	50	84	9	3	1	0.83
406643--407358	28	25.1	28	82	6	803	29	30	17	23	1.97
406643--407355	86	8.3	85	84	4	862	29	30	17	23	1.97
406643--407358	114	6.3	114	88	3	928	29	30	17	23	1.97
406643--407354	142	5.0	141	85	4	892	29	30	17	23	1.97
413633--413681	6	8.0	6	97	2	89	32	0	48	18	1.48
416043--416113	13	5.6	13	70	17	51	40	2	1	54	1.23
417994--418030	18	2.0	19	89	5	58	59	10	0	29	1.31
420889--420920	3	10.3	3	93	6	55	68	0	0	31	0.90
420984--421051	22	3.1	23	77	8	61	55	1	0	42	1.08
422159--422189	9	3.6	9	95	4	55	93	0	6	0	0.35
425794--425830	14	2.5	15	83	16	51	16	8	13	62	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432128--432152	2	12.5	2	100	0	50	0	52	0	48	1.00
433055--433104	17	3.1	17	75	16	52	48	0	0	52	1.00
438004--438058	24	2.4	24	85	8	71	63	0	0	36	0.95
438699--438742	23	1.9	23	86	9	63	36	0	2	61	1.09
445284--445314	15	2.1	15	100	0	62	35	19	6	38	1.77
445652--445848	92	2.1	92	83	3	236	34	17	8	39	1.80
445916--446359	165	2.7	163	81	6	466	33	16	7	41	1.77
446344--446471	39	3.4	38	71	16	115	40	11	2	45	1.53
447204--447236	2	16.5	2	93	0	57	48	0	3	48	1.17
447331--447379	18	2.7	18	80	0	62	46	0	0	53	1.00
448008--448062	23	2.4	23	81	0	65	54	3	5	36	1.41
448130--448199	33	2.1	34	83	5	88	34	2	2	60	1.26
448187--448238	25	2.0	26	81	3	61	36	1	1	59	1.19
450220--450260	21	2.0	21	85	9	57	41	9	7	41	1.66
453247--453344	19	5.8	18	67	28	72	35	11	15	37	1.83
453249--453346	32	3.0	32	92	1	151	36	11	15	36	1.83
453421--453536	52	2.2	52	95	0	205	33	17	19	29	1.95
453504--453560	20	2.9	20	94	2	98	38	12	17	31	1.87
453452--453612	72	2.2	72	94	1	279	36	16	18	29	1.93
467436--467583	21	7.0	21	80	13	162	83	13	3	0	0.78
467437--467572	34	4.1	33	77	16	122	84	11	3	0	0.74
467439--467575	41	3.3	38	81	16	150	83	12	3	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467437--467572	1	136.0	1	69	0	83	84	11	3	0	0.74
469021--469204	86	2.1	87	81	4	219	33	30	15	19	1.93
469017--469204	28	6.5	28	76	11	173	32	31	15	20	1.93
469090--469219	28	4.5	29	78	12	124	33	27	19	19	1.96
469223--469593	49	7.8	49	77	8	374	25	25	18	30	1.98
469228--469582	92	3.8	92	88	3	480	26	25	18	30	1.98
470287--470311	13	1.9	13	100	0	50	36	16	16	32	1.90
470267--470332	32	2.0	33	94	2	116	34	12	16	36	1.86
470373--470397	13	1.9	13	100	0	50	32	16	16	36	1.90
470406--470690	52	5.5	52	94	0	489	34	17	18	28	1.94
477415--477455	20	2.0	21	90	4	66	34	9	19	36	1.85
483776--483825	21	2.4	22	83	9	61	34	18	0	48	1.48
485958--485983	13	2.0	13	100	0	52	30	15	15	38	1.88
486051--486080	13	2.3	13	94	0	51	33	20	13	33	1.91
489626--489673	22	2.2	23	85	10	66	45	6	8	39	1.59
489768--489826	19	3.1	19	85	2	73	27	11	13	47	1.78
489795--489835	19	2.2	19	95	0	73	31	14	12	41	1.83
489897--489951	20	2.8	20	85	0	74	36	10	21	30	1.88
490190--490255	35	2.0	34	85	14	93	16	16	12	54	1.71
495374--495407	17	2.1	17	88	5	52	29	0	14	55	1.40
498339--498423	30	2.8	30	68	7	73	45	7	7	40	1.58
498609--498678	31	2.2	33	89	5	108	61	2	1	34	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498640--498753	59	1.9	61	85	3	160	57	3	2	35	1.29
498640--498771	59	2.2	59	81	5	133	56	3	3	36	1.36
499037--499078	11	4.0	11	81	12	61	69	0	0	30	0.89
499035--499079	20	2.3	20	96	3	83	64	0	0	35	0.94
504657--504856	100	2.0	100	99	0	391	38	21	10	30	1.87
507148--507201	15	3.5	15	75	7	54	59	1	24	14	1.46
508518--508561	16	2.7	17	82	10	56	68	0	0	31	0.90
508538--508578	19	2.0	22	86	13	61	68	4	0	26	1.10
509835--509880	22	2.0	23	83	4	58	32	0	6	60	1.22
510573--510606	17	2.0	17	88	0	50	52	0	0	47	1.00
511475--511538	30	2.4	27	76	20	71	34	0	4	60	1.17
511498--511579	36	2.2	37	87	6	114	36	0	2	60	1.10
511578--511645	28	2.5	27	79	9	66	33	1	4	60	1.26
512217--512280	7	8.9	7	73	17	51	31	3	0	65	1.08
512217--512258	14	3.0	14	86	6	59	33	2	0	64	1.07
512243--512267	9	2.8	9	100	0	50	32	0	0	68	0.90
512546--512598	20	2.6	19	85	5	61	47	1	3	47	1.31
518031--518068	20	2.0	20	89	5	60	28	0	23	47	1.52
522619--522644	2	13.0	2	100	0	52	50	0	0	50	1.00
523409--523444	19	1.9	18	88	5	54	55	0	0	44	0.99
523423--523506	42	2.0	40	84	8	107	55	0	0	44	0.99
523468--523531	20	3.2	20	79	12	62	60	1	1	35	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531373--531409	2	18.5	2	100	0	74	51	0	0	48	1.00
537507--537553	25	1.9	24	83	12	60	40	2	0	57	1.11
537559--537598	17	2.4	17	87	4	64	52	0	0	47	1.00
538073--538103	14	2.1	15	94	5	55	77	6	0	16	0.97
538736--538776	11	3.6	11	83	6	55	78	0	0	21	0.76
538737--538769	6	5.7	6	85	7	50	81	0	0	18	0.68
538824--538890	14	5.1	14	74	17	54	46	0	1	52	1.09
540102--540206	49	2.1	49	96	1	192	46	5	20	27	1.73
542964--543014	27	1.9	27	92	4	86	27	15	21	35	1.94
553796--553835	21	1.9	21	100	0	80	32	10	17	40	1.83
553871--553938	19	3.9	19	78	21	85	35	11	14	38	1.83
553892--553916	13	1.9	13	100	0	50	36	16	16	32	1.90
553873--553935	32	2.0	32	96	0	117	34	12	15	36	1.86
553979--554005	13	2.1	13	100	0	54	29	14	25	29	1.95
553959--554023	33	2.0	33	87	0	94	26	15	18	40	1.90
556363--556704	52	6.5	53	71	17	212	29	25	12	32	1.93
556480--556548	27	2.5	27	88	2	93	24	31	21	21	1.98
556688--556763	27	2.8	28	80	11	86	25	35	17	22	1.95
556368--556770	211	1.9	212	89	3	625	28	27	13	31	1.94
556426--556820	107	3.7	106	74	11	333	27	27	14	30	1.95
563630--563663	17	2.0	17	88	0	50	50	17	26	5	1.69
569324--569362	13	2.9	13	92	3	60	84	7	7	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569324--569381	14	4.0	14	78	12	55	84	8	6	0	0.78
570364--571426	55	19.3	55	91	3	1669	28	31	20	19	1.97
570504--570591	29	3.1	29	61	26	71	26	35	19	19	1.95
570889--570976	29	3.1	29	61	26	71	26	35	19	19	1.95
571054--571141	29	3.1	29	61	26	71	26	35	19	19	1.95
572028--572084	21	2.7	21	97	0	105	33	10	19	36	1.86
572140--572207	19	3.9	19	78	21	85	35	11	14	38	1.83
572161--572185	13	1.9	13	100	0	50	36	16	16	32	1.90
572142--572204	32	2.0	32	96	0	117	34	12	15	36	1.86
572248--572274	13	2.1	13	100	0	54	29	14	25	29	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11