genome.fa.s119.2.7.7.80.10.50.1000.4.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: Scaffold119
Parameters: 2 7 7 80 10 50 1000
Length:  3173904

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  4  of  20  ( 2346 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)
518652--518677	3	8.7	3	100	0	52	65	0	0	34	0.93
519923--519950	3	9.3	3	100	0	56	67	0	0	32	0.91
523321--523352	9	3.4	10	91	8	50	0	15	0	84	0.63
523321--523352	5	6.8	5	89	10	50	0	15	0	84	0.63
523321--523352	14	2.3	15	89	10	50	0	15	0	84	0.63
524697--524729	16	2.1	16	100	0	66	21	24	6	48	1.72
528804--528846	14	3.1	14	75	24	54	58	0	0	41	0.98
529475--529504	15	1.9	15	93	6	51	53	0	13	33	1.40
534042--534092	25	2.0	25	85	11	68	35	1	0	62	1.06
534029--534092	31	2.1	29	82	5	74	37	1	0	60	1.06
534513--534542	15	1.9	16	93	6	53	36	0	0	63	0.95
534564--534686	31	3.6	32	80	14	115	43	1	0	53	1.16
534566--534683	37	3.3	35	80	12	123	44	1	0	52	1.16
534657--534704	21	2.2	22	92	3	80	47	2	0	50	1.12
534619--534747	58	2.2	57	88	2	186	44	3	0	51	1.25
534566--534707	37	3.9	36	75	12	87	45	2	0	51	1.18
534746--534796	25	2.1	25	85	7	70	37	0	1	60	1.08
534718--534783	35	1.9	34	84	3	87	36	3	3	57	1.29
538158--538205	9	5.4	9	85	2	62	85	2	12	0	0.69
538158--538205	17	2.7	17	77	6	51	85	2	12	0	0.69
539230--539281	21	2.4	22	81	9	63	38	5	11	44	1.65
539390--539462	20	3.7	19	87	7	85	28	16	16	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540297--540463	58	2.9	58	90	0	244	26	10	17	44	1.81
544037--544100	19	3.8	17	75	25	64	34	12	18	34	1.89
544023--544115	32	2.9	32	90	1	143	33	15	18	33	1.92
544056--544080	13	1.9	13	100	0	50	36	16	16	32	1.90
544151--544178	13	2.2	13	100	0	56	28	14	17	39	1.89
544131--544197	33	2.0	33	88	5	100	29	16	13	40	1.87
545106--545152	21	2.3	20	79	13	51	21	17	17	44	1.86
552690--552823	58	2.3	58	87	5	182	26	11	14	46	1.80
552719--552813	29	3.3	28	65	16	68	28	7	15	48	1.72
555977--556042	33	2.0	33	87	0	96	39	10	16	33	1.83
556076--556128	27	2.0	27	92	0	88	35	18	13	32	1.90
556100--556154	19	2.8	20	78	8	67	36	14	12	36	1.84
561383--561469	47	1.9	45	82	15	108	52	0	1	45	1.08
563379--563430	25	2.1	24	86	10	70	71	3	9	15	1.27
564836--564874	19	2.1	19	90	0	60	43	0	15	41	1.46
565361--565405	18	2.5	19	85	7	58	37	2	2	57	1.23
565402--565456	27	2.0	28	89	3	85	63	5	0	30	1.17
565412--565505	40	2.3	41	82	8	113	62	6	0	30	1.20
566959--566988	2	15.0	2	100	0	60	0	50	0	50	1.00
572427--572456	15	2.0	15	93	0	51	56	0	3	40	1.16
572426--572459	15	2.4	14	85	9	50	55	0	2	41	1.15
572531--572631	48	2.1	47	80	12	116	44	2	0	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572550--572631	27	3.3	27	77	16	104	42	3	0	53	1.18
572559--572665	48	2.3	47	82	9	121	39	5	0	55	1.24
576969--577279	58	5.5	56	86	3	304	14	18	33	33	1.91
577016--577279	58	4.6	58	87	3	343	14	19	32	32	1.92
583785--583834	18	2.8	18	75	19	50	64	0	0	36	0.94
583762--583825	19	3.3	19	75	16	60	60	0	0	39	0.97
583794--583832	12	3.1	13	88	7	62	66	0	0	33	0.92
583763--583832	25	2.8	24	76	10	68	61	0	0	38	0.96
588259--588289	16	1.9	16	93	0	53	22	3	0	74	0.96
591135--591176	21	1.9	23	85	9	61	52	0	7	40	1.29
593287--593352	2	33.0	2	100	0	132	50	0	50	0	1.00
593830--593870	2	20.5	2	100	0	82	48	0	0	51	1.00
594107--594155	25	2.0	25	84	8	64	48	2	2	46	1.25
594184--594241	26	2.2	25	82	11	64	50	5	0	44	1.24
594409--594457	19	2.6	18	80	6	53	55	2	2	40	1.23
594535--594573	20	2.0	20	90	5	62	43	2	0	53	1.14
595924--595979	28	2.0	28	83	10	71	42	3	3	50	1.37
596738--596770	15	2.2	15	94	0	57	18	9	0	72	1.10
604644--604685	22	1.9	22	90	0	66	42	11	0	45	1.41
609284--609323	2	20.0	2	100	0	80	0	50	0	50	1.00
611206--611243	2	19.0	2	100	0	76	50	0	0	50	1.00
612407--612445	15	2.6	15	84	11	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612493--612518	2	13.0	2	100	0	52	50	0	0	50	1.00
617513--617554	21	2.0	21	86	4	59	38	0	0	61	0.96
617549--617599	19	2.8	18	77	20	52	45	0	1	52	1.12
617513--617597	18	4.6	18	71	19	59	41	0	1	57	1.06
618063--618127	18	3.6	19	71	26	61	41	0	1	56	1.08
618036--618162	33	3.9	32	82	12	127	40	0	0	58	1.04
618233--618276	22	1.9	24	86	9	65	68	4	0	27	1.09
618555--618636	32	2.6	31	77	7	94	52	6	3	37	1.44
622402--622446	23	2.0	22	87	12	65	44	0	0	55	0.99
626785--626827	2	21.5	2	95	0	77	51	46	0	2	1.13
627240--627282	2	21.5	2	95	0	77	51	0	0	48	1.00
630694--630727	2	18.0	2	88	11	54	50	0	0	50	1.00
631987--632021	12	2.8	13	86	8	54	31	0	0	68	0.90
632081--632151	21	3.4	21	81	13	67	60	0	0	39	0.97
632102--632147	20	2.2	21	80	3	58	60	0	0	39	0.97
633487--633577	4	22.8	4	83	0	83	37	0	12	50	1.40
633478--633577	16	6.4	16	77	13	100	37	0	13	50	1.41
633491--633575	18	4.6	18	91	5	143	36	0	12	50	1.41
633481--633577	22	4.9	22	77	22	124	36	0	13	50	1.42
637342--637386	2	22.5	2	100	0	90	51	0	0	48	1.00
650256--650602	79	4.4	79	80	5	321	27	23	12	36	1.91
650256--650614	158	2.3	156	82	5	411	27	22	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652651--652688	4	9.5	4	88	0	58	21	2	2	73	1.07
654708--654754	20	2.4	20	92	3	78	21	21	19	38	1.94
661240--661659	210	2.0	210	100	0	840	30	19	21	28	1.97
664194--664700	61	8.3	61	81	5	553	26	26	18	28	1.98
664194--664700	120	4.2	120	82	5	556	26	26	18	28	1.98
664195--664700	181	2.8	176	85	6	654	26	25	18	29	1.98
664682--664768	45	1.9	46	80	2	104	20	21	12	44	1.85
664723--664991	41	6.7	41	74	10	207	20	22	13	43	1.86
664756--664902	77	1.9	78	90	1	233	19	23	8	47	1.77
665602--665658	20	2.8	20	91	0	96	24	21	8	45	1.80
668051--668221	51	3.3	50	75	7	171	33	11	25	29	1.91
668204--668279	27	2.8	28	88	6	102	21	21	34	23	1.97
670751--670776	13	2.0	13	100	0	52	38	15	15	30	1.88
670730--670796	33	2.0	33	88	0	98	43	16	14	25	1.86
670816--670883	19	3.9	18	76	23	83	38	14	11	35	1.83
670838--670862	13	1.9	13	100	0	50	32	16	16	36	1.90
670819--670881	32	2.0	32	96	0	117	36	15	12	34	1.86
670939--670995	21	2.7	21	97	0	105	36	19	10	33	1.86
671000--671055	1	56.0	1	94	0	85	3	1	0	94	0.35
671005--671058	27	2.0	27	100	0	108	7	3	0	88	0.61
671651--672273	55	11.3	54	91	5	932	20	20	30	29	1.98
671651--672273	165	3.8	165	94	1	1072	20	20	30	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673255--673307	1	53.0	1	76	0	52	0	1	9	88	0.58
673255--673307	9	6.1	9	82	6	65	0	1	9	88	0.58
673241--673292	24	2.2	24	82	0	59	0	9	7	82	0.84
673255--673306	19	2.8	18	85	8	68	0	1	9	88	0.59
673255--673307	24	2.3	23	87	6	72	0	1	9	88	0.58
681348--681380	1	33.0	1	100	0	66	100	0	0	0	0.00
685790--685960	51	3.3	50	75	7	171	33	11	25	29	1.91
685943--686018	27	2.8	28	88	6	102	21	21	34	23	1.97
688490--688515	13	2.0	13	100	0	52	38	15	15	30	1.88
688469--688535	33	2.0	33	88	0	98	43	16	14	25	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20