genome.fa.s162.2.7.7.80.10.50.1000.3.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: Scaffold162
Parameters: 2 7 7 80 10 50 1000
Length:  1959167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1418 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)
405393--405608	122	1.8	121	83	6	289	25	25	15	32	1.95
405616--405753	43	3.1	43	89	5	186	26	25	17	30	1.97
405811--405937	67	1.9	68	86	1	184	23	25	12	38	1.90
405153--405929	364	2.2	358	90	1	1241	24	25	15	33	1.96
406579--406645	33	2.0	33	88	0	98	34	11	13	40	1.81
406599--406623	13	1.9	13	100	0	50	36	16	16	32	1.90
406689--406713	13	1.9	13	100	0	50	32	16	16	36	1.90
406722--406846	52	2.4	52	94	0	214	36	18	18	27	1.94
412302--412354	20	2.6	21	90	6	90	39	13	18	28	1.88
412302--412375	21	3.6	20	88	3	94	37	12	18	31	1.88
412343--412535	91	2.1	91	93	1	325	35	12	16	36	1.86
416045--416070	13	2.0	13	100	0	52	38	15	15	30	1.88
416024--416090	33	2.0	33	88	0	98	43	16	14	25	1.86
416108--416179	19	4.2	17	74	25	80	38	12	11	37	1.79
416132--416156	13	1.9	13	100	0	50	32	16	16	36	1.90
416113--416175	32	2.0	32	93	0	108	36	14	12	36	1.84
423562--423659	4	24.5	4	89	0	97	38	0	11	50	1.38
423563--423659	26	3.7	26	91	0	131	38	0	11	50	1.38
423562--423655	34	2.8	34	95	0	161	38	0	11	50	1.39
423744--423775	2	16.0	2	93	0	55	46	0	0	53	1.00
426152--426199	21	2.3	22	79	13	57	29	2	0	68	1.01
429549--429584	17	2.1	17	90	10	56	75	5	0	19	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432720--432772	20	2.6	20	81	3	61	45	11	15	28	1.80
432809--432946	52	2.7	51	82	2	170	31	13	13	42	1.81
435566--435606	21	2.0	21	85	9	57	36	12	21	29	1.90
438421--438445	13	1.9	13	100	0	50	32	16	16	36	1.90
444755--444793	13	3.0	13	100	0	78	30	15	15	38	1.88
444925--444965	22	2.0	20	86	13	57	31	21	4	41	1.74
446644--446699	21	2.7	21	88	0	85	37	0	30	32	1.58
447256--447280	13	1.9	13	100	0	50	32	16	16	36	1.90
447268--447322	20	2.7	21	85	2	76	38	14	18	29	1.90
447372--447396	13	1.9	13	100	0	50	32	16	16	36	1.90
450053--450150	4	24.5	4	89	0	97	38	0	11	50	1.38
450053--450146	34	2.8	34	93	3	156	38	0	11	50	1.39
450236--450291	2	28.0	2	96	0	103	48	0	0	51	1.00
452684--452731	21	2.3	22	79	13	57	29	0	0	70	0.87
459607--459631	13	1.9	13	100	0	50	36	16	16	32	1.90
459586--459652	33	2.0	34	91	2	109	34	11	16	37	1.85
459693--459717	13	1.9	13	100	0	50	32	16	16	36	1.90
459672--459737	32	2.0	33	91	2	107	36	15	12	36	1.84
460358--460455	49	2.0	49	87	0	142	30	21	26	21	1.98
460475--460714	49	4.8	52	78	10	234	32	16	25	25	1.96
460577--460714	43	3.1	43	81	11	177	31	17	26	24	1.97
460524--460714	92	2.0	93	89	4	294	32	16	25	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460714--461002	33	8.9	33	86	7	412	17	17	34	29	1.94
460714--461002	32	8.9	33	87	4	408	17	17	34	29	1.94
460719--461003	98	2.9	97	92	2	464	17	17	34	30	1.94
461074--461339	32	8.1	33	84	8	337	31	12	36	19	1.89
461071--461615	31	17.2	31	81	12	273	31	14	32	21	1.94
461013--461615	62	9.5	63	80	10	359	31	14	32	21	1.93
461309--461639	62	5.3	61	87	6	463	29	16	29	24	1.97
461114--461642	124	4.2	125	82	9	542	30	15	31	22	1.95
461309--461639	31	10.7	30	85	8	400	29	16	29	24	1.97
462872--462903	12	2.7	12	90	0	55	6	6	12	75	1.19
462856--462917	29	2.1	29	82	8	72	4	4	14	75	1.13
468243--468384	51	2.8	51	87	6	216	35	7	23	33	1.82
468323--468498	79	2.2	80	90	1	273	31	13	26	29	1.93
468399--468693	52	5.6	51	72	13	249	32	12	25	28	1.92
468371--468574	107	1.9	107	85	5	286	29	14	27	28	1.95
471036--471097	21	3.0	21	83	6	74	40	12	12	33	1.82
471113--471171	13	4.1	13	75	23	55	33	15	15	35	1.89
471114--471191	32	2.4	32	91	0	120	33	14	15	37	1.87
471158--471219	19	3.2	20	80	8	74	25	12	16	45	1.83
472308--472374	25	2.6	25	88	9	100	79	0	17	2	0.86
473990--474028	13	3.0	13	92	0	69	33	15	15	35	1.89
474148--474210	33	1.9	33	90	9	103	39	11	15	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474148--474210	32	1.9	32	90	9	101	39	11	15	33	1.83
474311--474351	22	2.0	21	85	9	57	41	4	7	46	1.53
475091--475137	23	2.0	23	100	0	94	53	12	4	29	1.58
476739--476802	26	2.5	26	97	0	119	15	17	43	23	1.87
477806--477843	10	3.8	10	86	10	51	23	0	0	76	0.79
477805--477865	23	2.6	24	82	7	72	21	1	0	77	0.86
477806--477865	10	5.6	10	76	20	50	21	1	0	76	0.87
477805--477866	33	1.9	32	87	9	90	20	1	0	77	0.85
477805--477868	11	5.3	12	73	17	53	20	1	0	78	0.84
478396--478441	25	1.9	25	82	8	60	6	26	0	67	1.15
479639--479823	95	1.9	96	90	1	291	23	16	29	30	1.96
479674--479914	31	7.7	32	79	7	201	22	16	29	30	1.96
479674--479920	125	2.0	126	89	2	381	24	16	29	29	1.96
479895--481336	62	23.4	62	86	1	1822	28	19	26	26	1.99
481312--481394	30	2.8	30	76	10	89	21	21	24	32	1.98
482585--482631	22	2.2	21	88	3	67	10	8	2	78	1.04
482592--482653	22	2.8	23	80	11	67	9	11	6	72	1.27
482585--482653	22	3.2	22	78	13	65	10	10	5	73	1.23
483026--483092	31	2.2	31	97	0	125	32	19	2	44	1.66
487966--488025	24	2.6	22	80	12	75	20	3	0	76	0.92
488177--488201	2	12.5	2	100	0	50	52	0	0	48	1.00
490940--490994	20	2.8	20	88	0	74	36	14	14	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496039--496241	102	2.0	102	94	0	352	33	12	14	39	1.84
496426--496493	20	3.8	20	72	25	78	36	16	11	35	1.85
496424--496509	13	7.5	13	69	28	79	37	16	12	33	1.87
496424--496525	33	3.1	33	91	2	161	38	17	11	32	1.86
496553--496608	19	2.8	20	84	12	80	37	17	10	33	1.85
496553--496614	20	3.2	19	86	11	81	37	17	11	33	1.86
496575--496639	32	2.0	33	90	3	105	43	15	12	29	1.83
504333--504371	18	2.2	18	95	0	69	35	17	33	12	1.88
510686--510825	70	2.0	70	97	0	262	23	25	9	42	1.84
511183--511286	21	5.1	21	77	15	87	12	43	0	44	1.42
511211--511274	12	5.8	12	75	25	70	10	43	0	45	1.39
511202--511292	9	10.1	9	73	13	80	12	42	0	45	1.41
520401--520468	20	3.8	20	72	25	78	36	16	11	35	1.85
520399--520484	13	7.5	13	69	28	79	37	16	12	33	1.87
520399--520500	33	3.1	33	91	2	161	38	17	11	32	1.86
520526--520581	19	2.8	20	84	12	80	37	17	10	33	1.85
520526--520587	20	3.2	19	86	11	81	37	17	11	33	1.86
520548--520612	32	2.0	33	90	3	105	43	15	12	29	1.83
528302--528340	18	2.2	18	95	0	69	35	17	33	12	1.88
534656--534795	70	2.0	70	97	0	262	23	25	9	42	1.84
535154--535257	21	5.1	21	77	15	87	12	43	0	44	1.42
535182--535245	12	5.8	12	75	25	70	10	43	0	45	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535173--535263	9	10.1	9	73	13	80	12	42	0	45	1.41
539184--539217	16	2.1	16	100	0	68	17	11	23	47	1.81
540351--540381	13	2.4	13	100	0	62	38	12	16	32	1.86
540329--540397	33	2.1	33	89	5	104	37	18	11	31	1.87
540425--540482	19	3.1	18	83	11	71	32	17	13	36	1.89
541678--541719	13	3.5	13	75	18	54	4	30	4	59	1.39
541669--541722	23	2.3	23	100	0	108	3	29	3	62	1.29
545795--546090	148	2.0	148	99	0	583	39	14	27	18	1.89
546045--546305	141	1.9	136	87	4	378	38	15	21	25	1.92
546548--546603	27	2.1	27	89	0	85	21	25	19	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12