genome.fa.s31.2.7.7.80.10.50.1000.5.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

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

This is table  5  of  16  ( 1858 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)
609422--609569	28	5.2	28	66	18	72	47	12	12	27	1.77
609518--609626	48	2.2	48	86	1	146	52	12	8	26	1.67
609577--609718	29	4.9	29	66	16	71	50	14	9	25	1.74
609411--609725	164	1.9	161	85	3	425	48	13	10	26	1.75
610075--610231	46	3.4	46	79	4	158	37	21	9	31	1.85
613227--613277	20	2.5	20	84	9	59	37	11	19	31	1.88
614233--614258	13	2.0	13	100	0	52	38	15	15	30	1.88
614247--614285	20	1.9	21	94	5	71	25	15	23	35	1.94
614246--614398	71	2.2	70	96	1	288	26	15	17	39	1.90
614318--614356	20	1.9	21	89	5	62	28	15	20	35	1.93
614267--614418	71	2.2	71	90	3	200	27	16	16	39	1.90
615011--615053	22	1.9	23	85	4	61	34	30	0	34	1.58
628943--629245	58	5.3	57	72	15	182	26	9	18	45	1.80
629034--629246	114	1.9	115	81	5	252	28	8	16	46	1.77
629168--629275	58	1.9	56	81	7	128	30	11	12	46	1.76
630579--630634	29	1.9	29	85	0	76	35	3	3	57	1.34
632526--632605	28	2.9	28	79	20	96	51	2	0	46	1.14
632718--632763	20	2.2	20	84	7	56	63	0	2	34	1.07
632697--632776	31	2.5	32	80	6	83	61	1	2	35	1.18
633046--633089	16	2.8	15	83	10	61	31	0	0	68	0.90
633099--633177	9	8.6	9	75	19	56	32	0	2	64	1.07
633098--633148	24	2.1	25	85	3	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633539--633586	20	2.5	20	75	3	53	45	0	2	52	1.12
637386--637451	22	3.0	22	84	4	98	50	9	12	28	1.70
637547--637623	35	2.2	35	97	0	145	51	6	7	33	1.56
638005--638077	21	3.4	21	76	14	76	26	8	27	38	1.84
638038--638083	21	2.2	21	88	0	65	21	15	23	39	1.92
639237--639321	42	2.0	43	86	6	120	55	12	1	30	1.45
640986--641011	4	6.5	4	100	0	52	76	0	0	23	0.78
641262--641311	20	2.5	20	81	18	68	60	0	0	40	0.97
641578--641701	10	12.6	10	69	24	61	43	0	0	55	1.05
641608--641671	16	4.1	16	76	13	62	48	0	0	51	1.00
641637--641703	9	6.8	10	78	20	54	37	1	0	61	1.05
641583--641666	25	3.5	24	73	12	82	47	0	0	52	1.00
641657--641691	17	1.9	17	88	11	52	37	2	0	60	1.12
641570--641702	40	3.4	41	74	16	106	42	0	0	57	1.04
641656--641707	12	4.2	12	82	9	61	32	1	0	65	1.04
641977--642027	22	2.4	22	80	3	59	43	0	5	50	1.26
642891--642938	24	2.0	23	88	4	69	66	2	6	25	1.26
642891--642948	25	2.4	24	82	5	64	63	3	6	25	1.35
651438--651471	2	17.0	2	100	0	68	50	0	0	50	1.00
658887--659057	51	3.3	51	79	4	198	32	11	26	29	1.92
659040--659115	27	2.8	28	88	6	102	21	21	34	23	1.97
661590--661615	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661569--661635	33	2.0	33	88	0	98	43	16	14	25	1.86
661655--661722	19	3.9	18	76	23	83	38	14	11	35	1.83
661677--661701	13	1.9	13	100	0	50	32	16	16	36	1.90
661658--661720	32	2.0	32	96	0	117	36	15	12	34	1.86
661778--661834	21	2.7	21	97	0	105	36	19	10	33	1.86
661837--661876	21	1.9	21	100	0	80	10	2	0	87	0.63
661840--661879	20	2.0	20	100	0	80	10	5	0	85	0.75
663836--663877	17	2.4	18	84	7	52	42	0	4	52	1.22
664225--664255	16	1.9	16	93	0	53	61	0	0	38	0.96
666440--666478	2	19.5	2	100	0	78	48	0	51	0	1.00
667117--667151	2	17.5	2	100	0	70	51	0	0	48	1.00
667673--667703	1	31.0	1	100	0	62	0	100	0	0	0.00
672107--672174	34	2.0	34	97	0	127	45	19	11	23	1.83
672141--672605	205	2.2	209	91	3	771	43	20	10	25	1.83
673542--673577	2	18.0	2	94	0	63	47	0	2	50	1.15
673740--673794	22	2.5	23	75	16	62	41	0	0	58	0.98
674311--674372	28	2.2	28	83	11	74	30	3	1	64	1.19
674710--674787	12	7.5	11	73	20	53	47	1	1	50	1.17
675234--675307	21	3.6	20	75	15	62	40	0	4	55	1.19
676630--676695	21	3.1	22	82	8	75	43	0	0	56	0.99
676650--676703	22	2.4	22	81	9	65	38	0	0	61	0.96
676860--676906	24	1.9	25	95	4	87	21	25	4	48	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
677072--677135	2	32.0	2	100	0	128	50	0	0	50	1.00
679172--679229	23	2.7	23	82	12	70	55	1	0	43	1.10
679290--679492	51	3.7	53	77	11	196	37	1	7	53	1.38
679781--679826	6	7.7	6	90	0	56	52	2	0	45	1.13
679790--679823	3	11.3	3	87	0	50	58	0	0	41	0.98
682934--683057	52	2.4	51	93	4	205	29	17	18	34	1.94
682934--683077	52	2.8	50	84	13	177	30	17	18	33	1.94
683066--683090	13	1.9	13	100	0	50	36	16	16	32	1.90
683136--683200	33	2.0	33	87	0	94	36	15	12	35	1.85
683999--684398	171	2.3	171	92	3	647	36	14	24	24	1.93
684375--684442	22	3.1	21	66	26	52	30	17	25	26	1.97
684247--684990	49	15.1	49	79	9	777	33	16	24	25	1.96
684409--685927	49	30.7	52	77	12	1090	33	16	24	24	1.96
684314--685927	199	8.2	191	85	9	1507	33	16	24	24	1.96
684574--684641	22	3.1	21	66	26	52	30	17	25	26	1.97
685131--685198	22	3.1	21	66	26	52	30	17	25	26	1.97
685330--685397	22	3.1	21	66	26	52	30	17	25	26	1.97
684142--685741	756	2.1	756	99	0	3173	34	16	24	24	1.95
685924--686124	33	6.2	32	85	7	280	19	17	34	27	1.95
686107--686966	34	25.3	34	85	9	1023	31	12	34	20	1.90
686127--686976	307	2.8	307	93	2	1405	32	12	34	20	1.90
686979--687091	31	3.6	31	83	10	133	27	17	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689740--689941	77	2.6	78	82	5	230	29	16	29	25	1.97
689896--689969	28	2.6	28	85	10	98	22	18	33	24	1.97
689955--690179	55	4.3	54	78	12	204	33	11	24	30	1.90
689955--690179	106	2.1	104	83	6	267	33	11	24	30	1.90
689846--690346	266	1.9	266	90	1	799	31	12	26	28	1.93
690162--690237	27	2.8	28	85	2	100	22	21	32	23	1.98
689955--690343	51	7.4	52	70	13	258	32	12	25	29	1.92
692686--692742	21	2.8	21	91	2	89	45	12	17	24	1.83
692760--692830	19	4.2	17	74	25	78	38	14	11	36	1.81
692784--692808	13	1.9	13	100	0	50	32	16	16	36	1.90
692765--692827	32	2.0	32	93	0	108	34	15	12	36	1.86
693332--693696	55	6.8	54	83	9	451	21	21	29	28	1.98
693521--693614	47	2.0	47	91	4	154	18	22	28	30	1.97
693332--693696	157	2.3	161	88	5	526	21	21	29	28	1.98
693465--693665	102	2.0	102	89	3	307	18	21	29	29	1.97
694624--694668	10	4.5	10	89	8	65	0	0	15	84	0.62
694613--694654	18	2.3	18	87	0	57	0	2	11	85	0.68
694630--694667	11	3.5	11	92	3	60	0	0	10	89	0.49
694604--694665	29	2.1	29	85	5	81	0	4	11	83	0.78
694630--694668	10	3.8	10	93	6	69	0	0	12	87	0.55
707067--707269	78	2.6	78	83	2	228	28	16	30	25	1.97
707224--707299	28	2.7	28	87	0	98	25	21	32	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707145--707349	107	1.9	108	81	10	251	29	17	28	24	1.97
707283--707457	56	3.3	53	81	11	184	34	13	24	28	1.92
707332--707588	131	2.0	130	81	8	306	33	11	25	29	1.91
707468--707589	50	2.3	52	83	9	142	32	9	23	33	1.88
709929--709985	21	2.8	21	89	2	80	47	12	15	24	1.80
710026--710082	21	2.7	21	97	0	105	36	19	10	33	1.86
713730--713804	20	3.8	20	76	0	87	32	13	12	42	1.80
713730--713807	40	2.0	39	87	2	111	32	12	12	42	1.81
714433--714460	13	2.2	13	100	0	56	28	14	17	39	1.89
714413--714478	33	2.0	33	88	5	98	30	16	13	39	1.87

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