genome.fa.s19.2.7.7.80.10.50.1000.5.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1733 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)
579196--579253	14	4.2	14	84	2	73	39	15	10	34	1.81
579961--579994	2	17.0	2	100	0	68	50	0	0	50	1.00
580479--580508	14	2.1	14	93	0	51	56	0	0	43	0.99
580483--580528	18	2.6	18	80	13	58	47	0	0	52	1.00
580468--580525	23	2.5	23	78	13	64	50	0	0	50	1.00
581677--581853	95	1.9	95	87	3	266	44	7	11	35	1.70
595372--595442	12	6.1	11	79	12	70	35	0	1	63	1.03
595372--595442	23	3.0	22	80	10	79	35	0	1	63	1.03
597045--597117	23	3.1	24	76	9	71	42	0	0	57	0.98
597273--597331	26	2.2	28	81	6	77	52	5	1	40	1.33
601097--601126	2	15.0	2	100	0	60	50	0	0	50	1.00
604717--604746	2	15.0	2	100	0	60	50	0	0	50	1.00
606367--606439	32	2.3	32	80	0	83	24	15	16	43	1.86
606367--606417	16	3.2	16	80	0	57	19	15	21	43	1.88
606390--606436	16	3.0	15	87	6	58	27	17	12	42	1.85
607266--607319	16	3.4	16	89	0	90	14	16	25	42	1.87
607265--607335	32	2.2	31	83	11	90	15	16	25	42	1.88
607629--607686	31	1.9	31	89	10	93	24	0	3	72	1.00
609796--609859	27	2.3	27	78	7	67	57	3	1	37	1.24
610495--610523	14	2.1	14	93	6	51	72	0	3	24	1.00
610627--610666	13	3.2	13	79	13	57	75	0	0	25	0.81
611432--611474	3	14.0	3	85	4	59	62	0	2	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615907--615947	5	8.2	5	91	0	55	19	0	53	26	1.45
615903--615945	10	4.3	10	93	0	68	20	0	48	30	1.50
615907--615947	15	2.7	15	92	0	64	19	0	53	26	1.45
620372--620411	17	2.4	17	86	0	53	2	25	0	72	0.97
620555--620588	16	2.1	16	89	10	52	76	0	20	2	0.92
622782--622813	14	2.3	14	94	0	55	40	0	3	56	1.15
623605--623683	24	3.3	24	83	0	95	45	6	21	26	1.75
623719--623783	32	2.0	33	90	3	105	40	12	15	32	1.84
625936--625992	20	3.0	18	73	16	53	50	10	1	36	1.47
625936--625992	19	3.0	19	78	12	64	50	10	1	36	1.47
626030--626151	47	2.6	46	80	5	147	46	12	3	37	1.58
625922--626105	67	2.8	65	80	3	190	47	11	3	38	1.56
626129--626262	19	6.9	19	69	17	62	50	11	2	36	1.51
626124--626174	20	2.6	19	78	6	66	50	17	0	31	1.46
625954--626182	114	2.0	115	81	5	268	46	13	3	36	1.59
626352--626390	20	2.0	20	89	0	60	46	15	7	30	1.74
629195--629242	22	2.3	22	82	10	66	52	10	2	35	1.48
629249--629289	22	1.9	21	85	14	57	43	7	0	48	1.30
630094--630127	13	2.5	14	90	4	52	20	0	5	73	1.04
633961--634009	16	2.9	17	78	6	55	57	0	4	38	1.18
634485--634570	43	2.0	42	90	2	136	37	9	0	53	1.33
634691--634725	18	1.9	18	94	0	61	28	14	0	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634655--634758	54	2.0	52	83	11	131	36	7	0	54	1.36
634652--634776	54	2.3	55	77	10	123	35	8	0	56	1.35
634795--634869	36	2.1	36	87	5	107	50	0	0	49	1.00
634788--634895	56	1.9	56	83	7	139	50	0	0	49	1.07
635434--635513	42	1.9	42	84	5	108	57	3	6	32	1.41
635465--635535	37	1.9	37	82	5	90	54	4	9	30	1.52
635334--635763	234	1.8	236	83	5	575	50	4	8	37	1.52
636363--636402	21	1.9	21	85	10	55	32	5	0	62	1.17
637510--637555	2	23.0	2	100	0	92	50	0	0	50	1.00
638168--638244	27	2.9	27	86	0	109	29	7	18	44	1.78
642679--642757	27	2.9	27	94	0	131	24	10	20	45	1.81
642687--642774	27	3.4	26	87	7	117	25	7	20	46	1.77
648092--648133	20	2.1	20	100	0	84	42	9	26	21	1.83
655085--655290	78	2.6	78	82	2	234	29	16	29	24	1.97
655244--655313	28	2.5	27	84	6	86	25	18	32	22	1.97
655301--655690	51	7.4	52	72	11	240	32	11	25	29	1.92
655323--655526	107	1.9	107	83	2	264	35	11	24	28	1.91
655323--655487	56	3.0	54	85	7	201	36	10	24	27	1.89
655191--655693	267	1.9	267	89	2	796	32	12	26	28	1.93
658032--658098	33	2.0	33	85	0	89	41	16	16	25	1.88
658221--658276	21	2.7	21	97	0	103	35	19	10	33	1.87
659068--659208	28	5.1	27	62	15	65	21	19	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659021--659900	59	15.2	59	88	5	1089	24	20	28	26	1.99
660900--660949	12	4.4	11	85	14	66	0	4	8	88	0.64
673332--673517	79	2.4	78	82	2	221	31	16	29	23	1.96
673469--673540	28	2.6	28	88	0	99	23	19	34	22	1.96
673528--673920	51	7.4	52	71	13	275	32	11	25	30	1.92
673528--673753	107	2.1	103	83	5	274	33	11	25	29	1.91
673736--673811	27	2.8	28	85	2	100	22	21	32	23	1.98
673418--673920	267	1.9	267	91	1	821	31	12	26	28	1.93
676289--676314	13	2.0	13	100	0	52	38	15	15	30	1.88
676268--676334	33	2.0	33	88	0	98	43	16	14	25	1.86
676352--676423	19	4.2	17	74	25	80	38	12	11	37	1.79
676376--676400	13	1.9	13	100	0	50	32	16	16	36	1.90
676357--676419	32	2.0	32	93	0	108	36	14	12	36	1.84
682781--682845	27	2.5	24	73	22	60	69	3	0	27	1.03
682765--682843	13	6.0	13	75	17	74	69	2	0	27	1.01
683677--683727	21	2.5	20	81	9	59	35	0	0	64	0.94
683683--683737	14	3.3	18	72	23	50	32	0	1	65	1.03
684423--684492	13	5.6	13	70	26	53	34	0	0	65	0.93
684404--684493	28	3.2	29	77	12	89	38	0	1	60	1.04
684422--684492	21	3.4	21	76	19	78	35	0	0	64	0.94
687580--687625	2	23.0	2	100	0	92	50	0	0	50	1.00
693193--693360	85	2.0	86	91	2	275	31	13	10	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693207--693379	85	2.0	84	84	6	224	31	16	10	41	1.83
694257--694298	21	2.0	21	85	4	57	33	23	7	35	1.82
694464--694584	55	2.2	55	98	0	233	43	9	10	35	1.73
698607--698658	27	1.9	27	88	0	77	26	17	30	25	1.97
700803--700986	50	3.7	50	90	0	260	41	11	16	30	1.84
701372--701505	49	2.8	48	74	8	119	36	12	11	39	1.79
704661--705044	156	2.5	153	77	7	364	23	14	19	42	1.88
711467--711570	30	3.5	30	74	11	106	23	26	13	36	1.92
711630--711928	61	5.0	59	70	17	197	25	23	10	40	1.87
711466--712267	121	6.7	119	79	5	740	25	23	10	39	1.87
711466--712183	241	3.0	239	82	5	822	25	24	10	39	1.87
711467--712288	362	2.3	359	80	4	875	25	23	10	39	1.87
711462--712302	60	14.0	59	70	12	383	25	24	10	39	1.87
713805--714474	155	4.3	153	77	4	562	41	18	14	25	1.89
714128--714522	155	2.5	155	81	1	416	41	18	13	25	1.88
714952--714977	13	2.0	13	100	0	52	15	0	7	76	0.99
715104--715402	165	1.8	167	81	5	374	42	9	8	39	1.68
716319--716365	7	6.4	7	84	15	60	0	17	0	82	0.66
716320--716360	15	2.7	15	92	3	64	0	19	0	80	0.71
716841--717468	167	3.8	163	81	8	636	51	9	11	27	1.69
718911--719214	165	1.8	166	84	3	416	28	10	7	52	1.64
718955--719284	165	2.0	166	79	8	361	29	12	6	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719855--719890	12	2.9	13	88	12	58	75	0	25	0	0.81
719856--719903	11	4.4	11	82	17	55	75	0	22	2	0.91
719863--719921	12	5.4	11	75	20	52	69	0	22	8	1.15
719853--719891	13	3.0	13	88	11	62	74	0	25	0	0.82
724674--724728	26	2.1	26	86	6	76	65	0	1	32	1.03
725953--726013	13	4.6	13	76	17	63	47	1	0	50	1.10
727639--727683	24	1.9	24	86	4	65	33	0	0	66	0.92
727851--728299	249	1.8	246	84	6	611	47	7	8	36	1.62
728468--728501	15	2.2	16	89	5	52	47	0	5	47	1.26
729260--729308	2	24.5	2	95	0	89	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15