genome.fa.s61.2.7.7.80.10.50.1000.4.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: Scaffold61
Parameters: 2 7 7 80 10 50 1000
Length:  1437555

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1115 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)
474453--474525	20	3.6	20	81	3	101	35	13	19	31	1.91
474471--474546	21	3.7	21	80	3	100	42	11	17	28	1.84
474453--474546	41	2.3	41	98	0	179	39	12	18	29	1.88
474585--474610	13	2.0	13	100	0	52	38	15	15	30	1.88
474567--474629	32	2.0	32	87	6	92	39	15	15	28	1.89
478346--478370	13	1.9	13	100	0	50	36	16	16	32	1.90
479930--480002	20	3.6	20	81	3	101	35	13	19	31	1.91
479948--480023	21	3.7	21	80	3	100	42	11	17	28	1.84
479930--480023	41	2.3	41	98	0	179	39	12	18	29	1.88
480062--480087	13	2.0	13	100	0	52	38	15	15	30	1.88
481433--481547	52	2.2	52	90	0	185	41	16	20	20	1.90
481617--481659	17	2.4	18	88	3	61	20	4	0	74	1.00
492598--492674	19	3.8	19	75	16	75	44	11	12	31	1.79
492722--492775	20	2.7	20	88	2	81	35	18	9	37	1.83
493100--493727	30	21.5	29	77	9	412	26	28	12	32	1.93
493101--493700	28	20.6	28	77	10	458	26	28	12	32	1.93
493101--493700	58	10.3	56	78	9	458	26	28	12	32	1.93
493568--493705	59	2.3	59	82	8	156	28	24	13	34	1.93
493713--493900	32	5.9	31	80	3	187	31	28	15	23	1.96
493713--493893	96	1.9	96	80	4	213	31	29	14	24	1.95
493936--494140	105	2.0	105	86	1	286	27	20	12	39	1.88
493904--494334	52	8.2	52	78	4	339	27	20	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497468--498086	155	4.0	151	73	7	429	41	17	13	26	1.87
503557--503701	20	7.1	20	81	9	136	34	13	20	31	1.91
503557--503693	41	3.4	41	87	6	190	35	13	19	32	1.90
504598--504988	28	13.4	29	86	6	467	23	17	30	28	1.97
506201--506238	16	2.3	17	90	4	60	7	0	7	84	0.79
506201--506260	20	3.0	20	79	13	70	5	0	10	85	0.75
510999--511072	19	3.7	19	87	5	85	36	17	16	29	1.92
511590--511633	19	2.4	19	84	3	54	34	34	2	29	1.70
511602--511642	19	2.2	19	95	0	73	26	36	2	34	1.70
513462--513490	13	2.2	13	100	0	58	41	17	13	27	1.87
519537--519567	13	2.4	13	94	0	53	35	12	16	35	1.87
519517--519583	33	2.0	32	83	11	82	32	17	11	37	1.87
519612--519668	19	2.9	19	89	5	78	35	17	15	31	1.92
519653--519712	13	5.1	13	69	22	60	40	16	16	26	1.90
519666--519731	20	3.7	20	73	26	83	39	18	18	24	1.92
519634--519731	33	3.0	33	95	1	171	39	17	17	25	1.91
533804--534010	20	9.7	20	73	14	119	38	11	17	31	1.86
533852--534010	40	3.9	40	74	10	144	37	11	18	32	1.86
533932--534015	21	4.0	22	81	12	95	34	10	21	33	1.88
534380--534413	9	3.7	9	88	4	50	2	8	2	85	0.80
535524--535743	78	2.8	80	84	4	259	33	13	24	28	1.93
535730--535799	28	2.5	28	83	4	88	24	22	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535670--535912	107	2.2	108	84	5	321	29	15	27	27	1.96
535836--535910	31	2.6	29	85	10	91	25	18	29	26	1.98
538209--538259	20	2.5	20	87	0	66	49	11	11	27	1.74
538871--539786	61	15.0	62	86	4	1202	30	19	25	24	1.98
552836--552911	33	2.3	33	93	0	134	31	15	14	38	1.88
552856--552911	13	4.8	13	71	24	52	30	14	16	39	1.88
552835--552900	20	3.7	20	69	26	65	33	16	13	36	1.88
552836--552933	33	3.0	33	86	3	108	31	17	14	36	1.90
555015--555054	17	2.4	17	91	0	62	35	2	22	40	1.68
555406--555451	22	2.2	20	84	7	56	52	0	13	34	1.40
555563--555588	13	2.0	13	100	0	52	38	15	15	30	1.88
561525--561575	19	2.6	20	78	6	59	39	15	13	31	1.87
563340--563365	13	2.0	13	100	0	52	30	15	15	38	1.88
563426--563498	20	3.6	20	81	3	101	31	19	13	35	1.91
563404--563498	41	2.3	42	96	1	174	29	17	12	40	1.87
564105--564150	16	2.8	16	93	6	74	30	39	2	28	1.69
565956--565994	13	3.0	13	96	0	69	35	15	17	30	1.91
565980--566058	20	3.7	20	70	20	70	45	16	12	25	1.82
568067--568104	15	2.5	15	91	0	58	13	21	15	50	1.78
572168--572193	13	2.0	13	100	0	52	30	15	15	38	1.88
572255--572327	20	3.6	20	81	3	101	31	19	13	35	1.91
572232--572327	41	2.3	42	94	3	167	29	17	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575156--575242	21	4.2	21	76	8	81	32	12	16	39	1.86
582974--583008	17	2.1	17	89	10	54	62	8	0	28	1.24
584590--584622	2	16.5	2	100	0	66	51	0	0	48	1.00
586275--586364	45	2.0	45	97	0	171	32	11	3	53	1.53
586949--586980	16	2.1	15	94	5	55	56	0	0	43	0.99
587661--587711	21	2.4	22	90	6	79	39	1	0	58	1.09
587674--587718	20	2.2	20	88	7	65	35	0	0	64	0.94
587700--587736	11	3.1	12	88	11	58	48	0	0	51	1.00
587681--587780	44	2.2	45	81	10	107	47	0	0	53	1.00
587716--587762	18	2.6	18	80	6	51	46	0	0	53	1.00
587699--587780	23	3.5	23	67	14	60	48	0	0	51	1.00
591672--591697	13	2.0	13	100	0	52	38	15	15	30	1.88
591855--591897	21	2.2	19	83	8	50	62	18	2	16	1.43
591923--591947	12	2.1	12	100	0	50	60	24	0	16	1.36
595161--595216	28	2.0	29	89	3	87	35	21	23	19	1.96
595250--595319	28	2.5	27	86	9	88	24	15	35	24	1.94
595309--595528	52	4.3	51	78	2	206	33	10	25	30	1.89
595199--595699	263	1.9	263	88	4	769	31	12	26	29	1.93
595513--595585	27	2.7	27	85	12	96	20	19	34	26	1.96
598053--598078	13	2.0	13	100	0	52	38	15	15	30	1.88
598034--598098	33	2.0	33	87	0	94	41	16	15	26	1.88
598118--598185	19	3.9	18	76	23	83	36	16	11	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598140--598164	13	1.9	13	100	0	50	32	16	16	36	1.90
598121--598183	32	2.0	32	96	0	117	34	17	12	34	1.88
598982--599697	176	4.1	176	88	4	985	24	20	29	26	1.99
598982--599672	55	11.8	60	82	8	804	24	20	29	26	1.99
613161--613232	28	2.6	28	82	10	85	25	16	34	23	1.95
613220--613441	52	4.3	51	81	2	237	33	10	25	30	1.90
613112--613609	263	1.9	262	88	2	757	32	12	26	28	1.92
613424--613496	27	2.7	27	81	12	87	21	23	32	21	1.98
615964--615989	13	2.0	13	100	0	52	38	15	15	30	1.88
615943--616009	33	2.0	33	88	0	98	43	16	14	25	1.86
616029--616096	19	3.9	18	76	23	83	36	16	11	35	1.85
616051--616075	13	1.9	13	100	0	50	32	16	16	36	1.90
616032--616094	32	2.0	32	96	0	117	34	17	12	34	1.88
616132--616210	21	3.8	20	85	5	95	34	15	13	36	1.87
616642--616759	34	3.4	34	81	4	94	31	21	14	33	1.93
616664--616764	34	3.0	34	82	2	123	27	22	13	35	1.92
618625--619035	64	6.5	64	81	5	372	24	16	26	32	1.96
618625--619062	32	13.7	31	75	7	310	23	16	26	33	1.96
618625--619062	128	3.4	127	81	2	443	23	16	26	33	1.96
619065--619336	88	3.1	88	75	6	219	29	12	30	27	1.92
619065--619682	29	20.9	29	75	7	386	29	12	30	27	1.93
619255--619654	118	3.4	115	80	8	358	29	12	30	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619166--619628	89	5.2	86	74	12	287	30	11	30	27	1.92
621172--621226	26	2.1	26	83	6	67	12	9	7	70	1.32
622670--622927	78	3.3	79	83	6	287	34	13	23	28	1.93
622662--623204	79	6.9	77	78	6	396	33	13	24	27	1.93
622672--623204	158	3.4	157	78	6	483	33	13	24	28	1.93
623144--623306	51	3.2	51	83	1	166	34	12	22	30	1.91
625606--625741	70	1.9	70	88	2	202	42	16	15	25	1.87
630384--630455	27	2.7	27	82	4	74	29	18	30	22	1.97
631949--631973	13	1.9	13	100	0	50	36	16	16	32	1.90
632036--632063	13	2.2	13	100	0	56	28	21	17	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10