genome.fa.s1092.2.7.7.80.10.50.1000.3.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: Scaffold1092
Parameters: 2 7 7 80 10 50 1000
Length:  788722

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 529 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)
399717--399882	61	2.8	61	83	1	210	35	11	28	24	1.90
400632--400675	20	2.1	20	87	8	61	29	18	9	43	1.80
402977--403366	79	4.9	78	82	4	451	29	24	11	35	1.90
402977--403366	157	2.5	156	84	5	475	29	24	11	35	1.90
402977--403439	236	2.0	235	79	7	501	28	23	12	34	1.92
405228--405286	14	4.1	15	72	12	52	5	0	13	81	0.85
405205--405265	25	2.4	25	81	15	63	4	4	11	78	1.06
405232--405284	7	7.9	7	76	16	58	1	0	15	83	0.74
410097--410131	14	2.4	15	95	4	63	34	0	2	62	1.10
410097--410131	15	2.4	14	90	4	52	34	0	2	62	1.10
410672--410746	22	3.6	20	77	13	80	42	0	0	57	0.98
414095--414191	31	3.2	31	63	19	76	31	14	17	36	1.90
414085--414201	61	1.9	60	94	1	207	28	15	17	38	1.91
415558--415588	15	2.1	15	100	0	62	35	12	19	32	1.90
415938--415965	2	14.0	2	100	0	56	50	0	0	50	1.00
429751--430008	55	4.6	55	79	12	283	27	28	18	24	1.98
429776--430001	117	1.9	117	85	5	314	28	27	18	24	1.98
429812--430232	212	2.0	214	88	6	629	26	28	18	27	1.98
429893--430169	156	1.8	150	85	7	387	26	27	18	27	1.98
430044--430279	61	3.9	60	88	5	341	26	27	19	27	1.99
430044--430282	122	2.0	122	90	5	385	25	27	19	27	1.99
430263--430539	42	6.4	43	78	9	269	21	26	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430302--430448	45	3.3	45	84	9	212	22	29	10	37	1.88
430263--430496	87	2.7	87	91	0	387	22	27	12	38	1.90
431224--431251	13	2.2	13	100	0	56	28	14	14	42	1.84
431266--431320	20	2.8	20	91	0	92	30	14	12	41	1.83
433824--433920	51	1.9	51	82	0	122	29	22	11	36	1.89
433782--434016	130	1.8	130	81	7	298	27	27	13	31	1.94
436158--436234	34	2.4	31	86	6	100	35	27	9	28	1.87
436170--436276	34	3.0	35	77	9	119	28	27	9	35	1.87
436912--437024	50	2.3	49	92	1	181	27	16	15	40	1.88
436912--437045	49	2.7	49	89	3	189	27	16	14	41	1.88
439378--439679	79	3.8	78	76	9	274	27	23	14	35	1.93
439613--439725	51	2.2	51	84	3	138	30	23	11	33	1.90
440839--440902	32	2.0	33	90	3	103	43	12	14	29	1.81
441844--441919	35	2.1	36	92	2	127	27	13	30	28	1.94
443431--443491	32	1.9	32	83	6	79	31	9	13	45	1.75
444623--444674	21	2.6	21	82	14	58	17	25	0	57	1.40
446290--446366	31	2.4	31	87	8	102	31	27	7	33	1.85
446288--446420	34	4.0	34	79	6	130	31	24	9	34	1.88
449858--449887	9	3.3	9	100	0	60	20	13	10	56	1.65
453453--453529	33	2.3	33	82	4	93	32	15	9	42	1.78
453972--454126	50	3.1	50	72	11	136	32	16	14	36	1.89
454242--454324	34	2.4	34	83	0	94	26	14	15	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454270--454485	34	6.4	32	67	15	103	30	16	17	35	1.92
454181--454496	136	2.3	134	80	1	344	30	15	16	37	1.90
457021--457071	27	2.0	26	85	11	70	23	39	17	19	1.92
462107--462138	17	1.9	17	93	6	57	21	0	0	78	0.76
463203--463256	21	2.6	21	81	0	63	1	14	50	33	1.54
463214--463258	18	2.5	18	81	0	54	2	15	51	31	1.56
463675--463716	22	1.9	22	90	0	66	7	14	38	40	1.73
464542--464756	8	26.0	8	70	21	54	19	1	6	73	1.11
464550--464603	10	5.2	10	82	12	56	12	0	7	79	0.92
464626--464755	25	5.0	25	76	12	111	15	1	6	76	1.07
464686--464755	33	2.1	33	82	10	81	18	0	5	75	0.99
468652--468703	21	2.5	21	81	6	61	36	13	13	36	1.84
468756--468803	20	2.4	20	82	0	60	33	12	14	39	1.84
470284--470351	19	3.9	19	74	21	76	35	10	14	39	1.80
470286--470348	32	2.0	32	93	0	108	34	11	15	38	1.83
470382--470445	20	3.2	20	86	0	92	21	14	15	48	1.80
472954--473155	51	4.0	51	75	3	174	28	25	12	33	1.92
472972--473119	52	2.9	52	83	6	171	28	26	12	32	1.93
486870--486989	52	2.3	52	94	0	204	31	16	15	35	1.91
486870--487009	52	2.7	51	87	4	192	32	16	16	34	1.91
486998--487022	13	1.9	13	100	0	50	36	16	16	32	1.90
487061--487118	20	3.0	20	84	2	73	46	13	10	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489981--490032	10	5.2	10	76	6	52	82	3	13	0	0.80
491003--492007	176	5.7	177	88	5	1357	25	30	20	24	1.99
491003--492007	237	4.3	238	88	5	1373	25	30	20	24	1.99
492731--492807	21	3.7	21	89	3	111	35	12	16	35	1.88
492843--492910	19	3.9	19	78	21	85	35	11	14	38	1.83
492864--492888	13	1.9	13	100	0	50	36	16	16	32	1.90
492845--492907	32	2.0	32	96	0	117	34	12	15	36	1.86
492950--492975	13	2.0	13	100	0	52	30	15	15	38	1.88
492930--492996	33	2.0	33	88	0	98	25	14	16	43	1.86
495320--495454	51	2.6	51	81	9	164	31	25	10	32	1.89
495469--495614	52	2.8	52	85	1	186	28	24	13	33	1.93
495335--495588	134	1.9	132	84	7	345	29	25	12	32	1.92
496840--496890	20	2.5	20	87	6	68	35	13	15	35	1.87
496877--496904	13	2.2	13	100	0	56	32	14	14	39	1.86
496840--496896	20	2.9	19	85	10	64	33	12	15	38	1.85
496892--496944	20	2.6	20	78	3	61	41	15	15	28	1.87
503214--503252	13	3.0	13	92	0	69	30	20	15	33	1.94
503693--503737	20	2.1	22	92	8	76	20	48	26	4	1.68
505116--505168	21	2.5	21	90	0	79	32	1	39	26	1.67
505677--505733	20	2.8	20	83	0	69	38	14	15	31	1.87
505722--505774	20	2.6	21	84	3	72	39	15	16	28	1.89
505826--505851	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505806--505873	33	2.1	32	88	2	100	35	16	14	33	1.89
510381--510423	21	2.0	21	82	13	52	11	13	41	32	1.81
510352--510472	64	1.9	64	84	3	163	10	14	39	34	1.81
510447--510504	29	2.0	29	89	0	89	15	8	41	34	1.78
510534--510584	26	2.0	26	96	0	93	15	15	43	25	1.86
511410--511435	11	2.4	11	100	0	52	34	0	0	65	0.93
511951--513309	43	31.8	43	74	5	826	36	18	26	17	1.93
511996--513309	85	15.4	85	78	4	1063	36	18	26	18	1.94
522669--522736	33	2.1	32	83	10	84	39	16	11	32	1.84
523404--523445	22	2.0	20	86	9	57	38	23	4	33	1.76
525215--525240	13	2.0	13	100	0	52	30	15	15	38	1.88
525301--525373	20	3.6	20	81	3	101	31	19	13	35	1.91
525279--525373	41	2.3	42	96	1	174	29	17	12	40	1.87
527833--527871	13	3.0	13	96	0	69	35	15	17	30	1.91
527857--527935	20	3.7	20	70	20	70	45	16	12	25	1.82
529950--529980	15	2.1	15	93	0	53	12	22	16	48	1.80
534042--534067	13	2.0	13	100	0	52	30	15	15	38	1.88
534128--534200	20	3.6	20	81	3	101	31	19	13	35	1.91
534106--534200	41	2.3	42	96	1	174	29	17	12	40	1.87
535161--535210	21	2.4	21	83	9	59	48	0	20	32	1.50
535168--535210	21	2.0	22	86	4	61	51	0	20	27	1.48
541473--541552	33	2.4	33	93	0	133	32	18	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541488--541553	20	3.7	20	69	26	74	34	18	16	30	1.93
541622--541648	13	2.1	13	100	0	54	40	14	14	29	1.86
546173--546522	174	2.0	174	100	0	700	40	20	8	30	1.82
547258--547311	23	2.3	23	81	9	56	3	16	33	46	1.65
547320--547381	26	2.4	25	82	12	72	14	20	43	20	1.87
548254--548278	8	3.1	8	100	0	50	52	12	24	12	1.72
548441--548520	7	11.0	7	75	11	63	21	0	2	76	0.91
548438--548519	8	9.8	8	75	18	53	19	0	2	78	0.87
548449--548520	19	3.7	19	77	15	67	20	0	2	76	0.91
548446--548507	22	2.9	22	80	11	74	22	0	3	74	0.96

Tables:   1   2   3   4   5