genome.fa.s193.2.7.7.80.10.50.1000.4.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: Scaffold193
Parameters: 2 7 7 80 10 50 1000
Length:  3104049

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

This is table  4  of  18  ( 2130 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)
499286--499359	29	2.5	29	78	17	80	58	0	0	41	0.98
499298--499383	32	2.7	32	79	17	99	63	0	0	36	0.94
499306--499380	29	2.6	31	82	15	90	64	0	0	36	0.94
499325--499417	40	2.3	40	85	3	125	58	0	0	41	0.98
499281--499380	28	3.5	29	75	15	84	61	0	0	39	0.96
500098--500141	18	2.5	18	85	10	56	63	4	0	31	1.14
504653--504841	94	2.0	93	96	1	351	29	13	13	43	1.82
507427--507475	19	2.6	19	93	0	80	24	12	14	48	1.77
507950--508015	35	1.9	34	93	3	114	31	13	24	30	1.94
509628--509680	21	2.4	21	78	6	52	54	7	16	20	1.66
514237--514354	32	3.7	32	94	1	202	32	11	16	38	1.86
514271--514327	13	3.9	13	76	24	60	35	14	15	35	1.88
514252--514344	19	5.6	18	70	27	80	32	11	18	37	1.87
519609--519670	32	1.9	33	90	3	99	27	16	16	40	1.89
521958--522059	50	2.0	50	90	0	159	25	21	13	39	1.90
530315--530356	21	1.9	22	85	9	59	40	11	9	38	1.75
530453--530514	32	1.9	33	90	3	99	30	16	12	40	1.86
532633--532673	21	1.9	22	85	5	57	58	0	17	24	1.38
532654--532695	15	2.8	15	78	10	50	47	2	19	30	1.62
534510--534596	44	2.0	44	93	0	147	27	11	14	45	1.80
536793--536857	33	2.0	33	87	0	94	29	16	12	41	1.85
544157--544291	63	2.1	63	85	10	179	27	12	11	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552392--552431	12	3.3	12	89	0	53	62	2	10	25	1.39
552559--552731	79	2.2	79	82	6	199	33	11	26	28	1.91
552587--553030	79	5.6	78	78	8	373	40	11	20	27	1.87
552587--553057	158	3.0	156	77	7	459	40	11	20	27	1.87
552775--553056	80	3.5	80	79	3	212	41	12	18	27	1.86
555445--555564	51	2.3	52	86	1	170	45	12	10	30	1.76
563635--563800	54	3.1	54	97	0	305	48	8	9	34	1.65
563903--563943	14	3.1	14	75	13	50	51	0	0	48	1.00
567178--567202	2	12.5	2	100	0	50	52	0	0	48	1.00
573566--573798	78	3.0	77	79	5	234	42	14	9	34	1.78
574085--574161	29	2.6	28	78	8	73	53	16	6	23	1.66
577299--577331	17	1.9	17	93	0	57	3	9	0	87	0.63
583835--583872	18	2.1	19	85	5	51	44	2	2	50	1.30
585371--585405	2	18.0	2	94	5	63	48	0	0	51	1.00
587120--587154	2	17.5	2	87	0	52	45	0	0	54	0.99
589084--589204	61	2.0	60	90	4	190	19	11	13	55	1.68
591958--592003	21	2.2	21	100	0	92	45	6	8	39	1.61
594750--594778	15	1.9	15	100	0	58	34	6	0	58	1.25
598264--598388	52	2.4	52	95	0	223	28	17	18	36	1.94
598264--598408	52	2.8	52	88	4	186	31	17	17	34	1.93
598465--598529	20	3.6	20	73	26	81	46	12	12	29	1.78
598460--598562	33	3.1	33	94	0	170	41	13	11	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598485--598542	13	3.9	13	73	26	53	39	13	13	32	1.85
610003--610042	2	20.0	2	100	0	80	50	0	0	50	1.00
613193--613232	21	1.9	21	94	0	71	27	27	2	42	1.68
616146--616226	29	2.8	29	81	11	94	44	18	18	18	1.87
616332--616594	59	4.5	59	71	7	160	46	17	17	18	1.85
616611--616931	58	5.5	59	71	10	194	48	14	16	19	1.81
618866--618941	40	1.9	40	91	0	125	56	10	7	25	1.60
621103--621224	59	2.1	58	82	10	144	37	2	1	58	1.21
621565--621601	15	2.4	16	86	9	58	45	0	0	54	1.00
626121--626408	50	5.9	50	79	16	281	53	1	2	42	1.24
626058--626183	66	1.9	66	86	8	168	53	0	1	44	1.10
626146--626276	43	3.0	43	88	6	151	51	0	2	45	1.19
626121--626378	139	1.8	142	84	9	357	53	1	2	42	1.23
626664--626727	22	2.9	22	83	0	83	37	4	4	53	1.43
626878--626937	22	2.7	22	86	0	66	38	11	8	41	1.72
628332--628705	164	2.3	166	83	3	470	29	10	8	52	1.64
633716--633746	2	15.5	2	100	0	62	51	0	0	48	1.00
634423--634457	18	2.0	18	94	5	63	45	14	11	28	1.79
635160--635227	8	8.1	8	73	23	52	61	0	0	38	0.96
635153--635229	17	4.5	16	75	16	50	61	0	0	38	0.96
635161--635235	27	2.9	26	80	18	77	61	1	0	37	1.05
635181--635225	5	9.8	5	77	18	53	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635161--635225	13	5.1	13	72	23	57	63	0	0	36	0.95
635574--635617	16	2.8	16	92	0	70	47	18	11	22	1.80
636379--636419	16	2.6	16	96	0	73	36	21	14	26	1.93
639536--639589	28	1.9	28	85	7	74	46	1	0	51	1.11
641402--641589	67	2.8	66	77	8	200	36	23	23	15	1.93
646781--646926	66	2.2	65	81	3	157	21	19	21	37	1.94
649513--650435	308	3.0	308	90	1	1438	39	13	15	30	1.87
651306--651358	20	2.7	19	76	5	52	33	13	9	43	1.76
652330--652546	81	2.7	81	84	2	258	36	10	23	29	1.88
652189--652546	160	2.2	159	79	8	386	34	10	24	29	1.89
654688--654759	20	3.8	20	70	19	64	44	12	12	30	1.79
654687--654760	35	2.1	36	87	2	105	43	13	12	31	1.81
657234--657296	28	2.2	30	80	11	69	41	0	3	55	1.16
657553--657686	50	2.6	51	91	1	207	27	17	14	41	1.88
658576--658621	21	2.3	21	81	7	60	19	19	15	45	1.85
661071--661111	19	2.1	19	86	4	55	56	0	7	36	1.27
662105--662146	16	2.6	16	81	11	50	35	30	19	14	1.91
662048--662186	69	2.0	69	88	2	208	35	25	17	22	1.95
662060--662204	69	2.1	69	82	5	168	37	23	17	21	1.94
662271--662310	15	2.7	15	84	0	53	50	32	10	7	1.64
662636--662660	13	1.9	13	100	0	50	32	16	16	36	1.90
662693--662836	73	2.0	73	85	0	198	31	21	9	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664874--664932	21	2.8	21	86	0	73	61	0	22	16	1.35
666133--666158	13	2.0	13	100	0	52	30	15	15	38	1.88
666197--666272	21	3.7	21	76	3	91	27	17	11	43	1.84
666219--666290	20	3.5	20	81	3	99	30	19	13	36	1.91
666197--666290	41	2.3	41	96	0	170	28	18	12	40	1.87
668735--668773	13	3.0	13	96	0	69	35	15	17	30	1.91
668759--668837	20	3.7	20	75	18	70	45	15	13	25	1.83
674945--674970	13	2.0	13	100	0	52	30	15	15	38	1.88
675009--675084	21	3.7	21	76	3	91	27	17	11	43	1.84
675031--675102	20	3.5	20	81	3	99	30	19	13	36	1.91
675009--675102	41	2.3	41	96	0	170	28	18	12	40	1.87
678093--678131	19	2.0	21	85	10	55	48	7	20	23	1.75
678263--678481	51	4.3	51	77	9	194	35	10	23	30	1.89
681069--681131	19	3.7	18	74	24	64	34	17	12	34	1.88
681061--681133	32	2.3	32	92	4	121	34	17	12	35	1.88
681088--681112	13	1.9	13	100	0	50	32	16	16	36	1.90
681100--681161	19	3.2	19	73	13	63	27	16	14	41	1.87
681238--681280	22	1.9	23	85	4	61	18	0	2	79	0.85
681254--681296	13	3.5	12	81	12	52	23	0	0	76	0.78
683550--683629	32	2.5	32	77	4	81	78	1	16	3	0.95
683582--683629	12	3.9	12	80	2	51	81	0	14	4	0.84
683550--683608	20	3.0	20	80	7	66	81	1	15	1	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683560--683629	24	3.0	23	79	14	72	78	1	17	2	0.94
683568--683608	22	2.0	22	90	9	68	85	2	12	0	0.70
684200--684242	21	2.0	21	95	0	77	44	6	0	48	1.29
684721--684754	4	8.5	4	100	0	68	47	0	0	52	1.00
684879--684907	2	14.5	2	100	0	58	0	51	0	48	1.00
685324--685391	30	2.3	30	89	0	100	44	5	1	48	1.36
685286--685414	29	4.4	30	80	5	131	40	4	0	54	1.27
685474--685523	20	2.5	21	75	12	52	56	0	0	44	0.99
686038--686069	16	2.0	16	100	0	64	31	0	0	68	0.90
686310--686338	2	14.5	2	100	0	58	51	0	0	48	1.00

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