genome.fa.s143.2.7.7.80.10.50.1000.5.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: Scaffold143
Parameters: 2 7 7 80 10 50 1000
Length:  1221646

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 905 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)
559485--559510	13	2.0	13	100	0	52	30	15	15	38	1.88
562032--562147	51	2.3	51	100	0	232	29	30	12	27	1.93
562239--562309	27	2.6	26	86	10	90	25	35	18	21	1.95
562081--562572	212	2.3	211	93	3	828	29	27	13	30	1.94
561888--562360	263	1.8	262	94	0	838	30	27	12	29	1.93
562339--562438	52	1.9	53	89	2	157	31	26	10	33	1.89
562339--562462	53	2.4	51	78	11	144	31	27	10	30	1.90
562445--562519	28	2.7	28	87	0	96	24	33	18	24	1.97
562475--562697	79	2.8	78	78	8	211	25	28	15	30	1.96
564947--564983	2	18.5	2	88	0	56	45	2	2	48	1.30
567563--567663	13	7.9	13	70	20	54	63	0	0	35	1.01
567557--567645	17	5.4	17	67	20	55	62	0	1	35	1.02
567602--567627	7	3.7	7	100	0	52	84	0	0	15	0.62
567800--567832	17	2.1	16	88	11	50	39	0	3	57	1.14
567921--567965	21	2.1	21	84	8	56	42	0	0	57	0.98
568097--568180	37	2.3	35	78	6	96	71	1	14	13	1.21
578151--578205	19	2.8	20	81	13	69	29	16	16	38	1.90
578234--578287	20	2.7	20	88	0	72	37	16	12	33	1.87
579501--579567	19	3.8	19	74	22	74	37	11	16	34	1.85
579502--579564	32	2.0	32	93	0	108	36	12	17	33	1.88
579521--579545	13	1.9	13	100	0	50	36	16	16	32	1.90
583703--583773	21	3.3	21	67	18	56	40	15	18	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585533--586138	49	12.6	49	76	12	497	30	19	26	23	1.98
585833--586229	49	8.9	40	73	16	163	28	20	26	24	1.99
585918--586079	88	1.8	88	91	0	270	26	20	27	24	1.99
585732--586232	137	3.7	136	88	2	693	29	19	26	23	1.98
586054--586227	88	2.0	88	85	4	237	29	20	25	24	1.99
586259--586435	29	6.1	30	87	5	240	23	16	29	29	1.96
586259--586435	59	3.1	58	85	7	243	23	16	29	29	1.96
587855--587912	17	3.5	17	85	2	73	3	3	12	81	0.95
587868--587954	16	5.7	14	72	12	57	3	4	10	81	0.95
587846--587954	15	7.1	14	73	12	74	2	5	11	80	0.97
587845--587954	21	4.9	21	71	19	80	2	6	10	80	1.00
598797--598824	12	2.3	12	100	0	56	32	10	32	25	1.90
602707--602888	49	3.7	49	73	5	152	33	18	25	22	1.96
603290--603320	15	2.1	15	93	0	53	45	0	25	29	1.54
607414--607439	13	2.0	13	100	0	52	30	15	15	38	1.88
607487--607541	20	2.7	21	85	2	76	30	20	10	38	1.87
609532--609574	20	2.1	20	86	4	59	9	30	44	16	1.79
610015--610052	13	2.9	13	96	0	67	31	15	18	34	1.92
613975--614019	22	2.1	21	84	8	56	22	15	6	55	1.63
613970--614019	21	2.3	20	80	10	55	22	14	6	58	1.58
616239--616263	13	1.9	13	100	0	50	32	20	16	32	1.94
617876--617928	13	4.1	13	82	0	61	35	11	13	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620415--620469	19	2.8	20	91	2	85	30	16	16	36	1.91
620517--620544	13	2.2	13	100	0	56	32	14	14	39	1.86
620498--620567	33	2.1	33	89	0	104	34	14	14	37	1.86
625660--625711	19	2.6	21	90	6	81	42	11	15	30	1.82
625764--625789	13	2.0	13	100	0	52	30	15	15	38	1.88
626883--627071	94	1.9	94	86	8	263	23	31	18	26	1.98
626992--627466	55	8.4	55	84	6	537	27	28	20	23	1.99
626995--627466	116	4.2	111	87	5	580	27	28	20	23	1.99
627561--627660	42	2.4	42	80	8	116	18	28	13	41	1.87
629161--630029	79	11.0	78	89	2	1265	33	14	25	26	1.94
629981--630056	27	2.8	28	85	2	100	22	21	32	23	1.98
629904--630105	107	1.9	107	83	6	266	29	15	28	27	1.96
629161--630156	237	4.2	231	85	8	956	33	14	25	27	1.94
630036--630273	102	2.3	103	86	2	327	32	11	26	29	1.92
630036--630273	51	4.6	51	82	3	273	32	11	26	29	1.92
632584--632627	20	2.1	21	95	4	81	34	13	20	31	1.92
632605--632630	13	2.0	13	100	0	52	38	15	15	30	1.88
632617--632679	21	3.0	21	100	0	126	28	19	9	42	1.82
632688--632768	32	2.6	32	88	2	119	35	16	12	35	1.86
632704--632766	19	3.6	19	70	24	66	38	15	11	34	1.83
633101--633152	19	2.6	21	90	6	81	42	13	15	28	1.85
635565--635679	51	2.2	52	84	4	144	26	25	13	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635618--635920	79	3.8	79	84	2	376	28	25	14	32	1.94
635618--635920	158	1.9	159	85	3	414	28	25	14	32	1.94
635856--636071	51	4.2	51	77	1	216	29	26	11	32	1.91
639216--639292	20	3.8	20	77	6	82	32	14	11	41	1.82
645878--646133	81	3.2	78	84	6	284	29	9	30	30	1.89
646092--646161	28	2.5	28	88	4	97	18	15	32	32	1.93
646010--646349	109	3.1	108	87	2	495	30	12	27	29	1.92
646201--646269	28	2.5	28	82	0	93	21	14	30	33	1.93
646248--646431	80	2.3	81	85	5	241	30	11	27	29	1.92
646234--646442	80	2.6	78	82	6	240	31	11	27	29	1.92
648706--648765	20	3.0	20	80	0	66	38	10	16	35	1.82
655666--656202	28	18.7	29	84	7	629	21	16	32	29	1.95
655666--656176	58	8.9	56	84	5	639	22	17	31	28	1.96
655666--656176	143	3.6	142	86	5	667	22	17	31	28	1.96
657453--657519	7	8.9	7	76	12	53	2	1	13	82	0.86
657453--657520	8	8.8	8	73	12	61	2	1	13	82	0.86
671394--671448	20	2.8	20	86	8	76	34	16	10	38	1.84
671344--671530	71	2.6	71	91	1	304	39	14	14	31	1.86
671469--671519	20	2.5	20	83	0	66	39	15	9	35	1.81
674873--674910	19	2.0	19	100	0	76	31	10	26	31	1.90
688526--688550	13	1.9	13	100	0	50	36	16	16	32	1.90
688591--688657	33	2.0	33	88	0	98	40	14	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688613--688637	13	1.9	13	100	0	50	32	16	16	36	1.90
689255--690113	43	17.9	51	76	16	473	31	17	25	25	1.97
689384--689451	22	3.1	22	62	19	52	29	19	26	25	1.98
689362--690985	43	35.1	43	74	15	1183	31	17	25	25	1.97
689405--690985	95	16.5	95	84	8	1912	31	17	25	25	1.97
689905--689972	22	3.1	22	62	19	52	29	20	25	25	1.99
690241--690985	187	4.0	187	91	2	1184	30	18	25	25	1.98
689205--690985	873	2.0	869	94	2	3104	31	17	25	24	1.97
691004--691200	37	5.3	37	98	0	385	33	10	35	20	1.87
691178--691387	31	6.9	30	83	8	255	26	17	31	24	1.97
691178--691385	61	3.4	61	97	0	380	25	17	31	25	1.97
692329--692357	11	2.5	12	94	5	51	0	3	6	89	0.57
698269--698338	12	5.9	11	80	15	70	82	10	4	2	0.90
698271--698325	19	2.8	19	83	8	67	85	9	3	1	0.79
699556--699854	28	10.5	28	92	2	409	27	33	19	19	1.96
699936--700058	49	2.6	46	81	7	131	21	27	19	30	1.98
700736--700792	20	2.8	20	89	5	80	31	15	14	38	1.87
704059--704194	51	2.7	50	84	6	166	41	13	14	30	1.85
704110--704287	71	2.5	72	88	1	261	41	12	15	30	1.85
704164--704214	20	2.5	20	87	0	66	41	15	9	33	1.80
704232--704282	20	2.6	19	81	3	66	41	11	11	35	1.78
709539--709579	19	2.2	19	95	4	75	31	0	21	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
710446--710509	33	1.9	34	90	3	103	29	14	17	39	1.88
710564--710622	20	3.0	20	85	2	75	37	10	18	33	1.85
711800--711936	50	2.7	52	84	4	172	40	13	16	29	1.87
712000--712054	20	2.7	20	88	2	74	32	23	7	36	1.82
712574--713367	69	11.0	70	76	8	545	36	15	24	23	1.93
712574--713043	216	2.2	217	82	3	588	37	15	24	22	1.93
712904--713152	78	3.2	78	82	4	290	39	14	22	23	1.91
716535--716559	13	1.9	13	100	0	50	36	16	16	32	1.90
716612--716708	19	5.7	19	71	26	92	38	15	12	34	1.85
716607--716706	32	3.1	32	97	0	182	37	16	12	35	1.85

Tables:   1   2   3   4   5   6   7   8