genome.fa.s320.2.7.7.80.10.50.1000.4.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

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

This is table  4  of  17  ( 1971 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)
466163--466199	16	2.4	16	90	4	58	21	0	29	48	1.50
468241--468445	61	3.4	61	73	6	164	41	12	9	37	1.75
468349--468567	121	1.8	121	80	2	269	44	12	7	35	1.71
468465--468623	61	2.6	61	95	0	282	45	11	6	35	1.67
468396--468748	183	1.9	182	81	2	422	43	14	7	34	1.73
475724--475772	25	1.9	25	83	4	62	51	2	2	44	1.24
475859--475917	18	3.2	18	79	13	66	50	0	0	49	1.00
477049--478416	228	6.0	228	80	3	1185	30	22	24	23	1.99
477049--478415	456	3.0	451	81	3	1441	30	22	24	23	1.99
477049--478415	684	2.0	684	81	2	1580	30	22	24	23	1.99
478506--478545	21	1.9	21	94	0	71	55	17	5	22	1.61
479222--479349	43	2.9	44	89	5	190	35	25	17	22	1.95
482648--482721	13	5.8	13	70	19	50	39	1	2	56	1.22
483833--483857	13	1.9	13	100	0	50	36	16	16	32	1.90
499091--499125	14	2.5	14	90	0	52	34	8	14	42	1.76
502204--502384	52	3.5	52	95	0	299	30	17	17	35	1.92
502393--502417	13	1.9	13	100	0	50	36	16	16	32	1.90
503456--504361	49	18.7	49	86	4	1250	30	17	26	25	1.97
503456--504361	336	2.7	336	93	2	1510	30	17	26	25	1.97
504354--504472	33	3.7	33	88	8	176	18	18	36	26	1.94
504466--504900	33	13.9	33	73	15	293	31	13	34	20	1.92
504499--504771	60	4.4	60	77	15	155	31	13	33	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504620--504896	27	9.1	28	74	15	180	30	14	35	20	1.92
504648--504900	63	4.0	65	74	17	196	30	13	35	20	1.91
504533--504799	121	2.2	119	85	6	349	29	14	34	21	1.93
504448--504900	91	4.8	91	82	8	364	31	13	34	21	1.92
504533--504898	121	3.0	117	81	9	337	30	13	34	21	1.92
504533--504898	124	3.0	119	81	10	361	30	13	34	21	1.92
504899--505200	31	9.7	31	73	8	193	28	16	29	25	1.97
504840--505201	92	3.9	92	77	9	337	29	16	29	24	1.97
504840--505201	62	5.9	61	76	10	292	29	16	29	24	1.97
504963--505201	125	1.9	122	84	7	313	28	17	29	24	1.97
513278--513426	52	2.9	51	88	4	226	30	16	18	33	1.94
513415--513439	13	1.9	13	100	0	50	36	16	16	32	1.90
513480--513546	33	2.0	33	88	0	98	40	14	11	32	1.83
513502--513526	13	1.9	13	100	0	50	32	16	16	36	1.90
513856--513887	14	2.4	14	90	10	50	37	15	15	31	1.89
514151--514407	32	8.0	32	80	8	283	30	28	17	22	1.97
514153--514423	64	4.2	64	86	3	334	29	29	16	23	1.97
514153--514407	96	2.6	97	81	6	313	30	28	18	23	1.97
514421--514503	43	1.9	43	90	0	130	25	26	18	30	1.98
514456--514909	52	8.8	52	72	9	279	25	23	16	33	1.95
514421--514853	101	4.3	98	76	8	333	25	24	17	32	1.96
514501--514853	154	2.3	153	85	3	460	25	24	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516808--516904	41	2.3	40	78	5	104	34	17	13	35	1.89
519345--520254	466	2.0	463	91	4	1492	51	13	2	32	1.54
519345--520254	162	5.9	154	91	6	1417	51	13	2	32	1.54
520275--520310	18	2.0	18	100	0	72	50	5	5	38	1.49
527103--527208	56	1.9	56	82	3	133	37	19	16	26	1.92
527894--527928	15	2.3	15	90	9	54	45	25	17	11	1.81
528947--529010	28	2.3	28	78	10	69	46	3	3	46	1.34
529856--530590	93	7.9	93	82	3	831	33	16	19	30	1.94
530781--530832	27	1.9	27	96	0	95	26	5	21	46	1.74
530838--530914	16	4.7	16	76	9	75	29	1	15	53	1.50
532082--532304	99	2.2	97	83	8	254	52	5	13	28	1.63
534885--534992	30	3.6	29	78	7	99	47	7	0	44	1.37
535022--535099	29	2.7	28	86	6	93	62	6	0	30	1.20
535353--535427	20	3.8	20	78	0	87	34	13	12	40	1.81
535353--535430	40	2.0	39	87	2	111	34	12	12	39	1.82
544456--544500	22	2.0	22	87	8	65	40	2	0	57	1.11
545765--545805	6	6.8	6	88	0	64	65	0	0	34	0.93
546855--546896	2	21.0	2	100	0	84	50	0	50	0	1.00
553333--553394	24	2.6	23	76	14	63	56	0	0	43	0.99
557268--557587	78	4.1	79	81	3	378	28	25	11	35	1.90
557287--557597	157	2.0	157	85	2	428	29	24	11	34	1.91
560280--560316	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563539--563581	18	2.3	19	80	8	52	20	6	2	69	1.23
564438--564477	17	2.4	17	87	4	55	22	2	0	75	0.93
564438--564494	16	3.5	16	83	7	62	24	1	0	73	0.92
581056--581092	18	2.0	19	89	5	58	29	18	5	45	1.72
581294--581328	17	2.1	17	100	0	70	40	28	11	20	1.87
581437--581512	39	1.9	39	89	0	116	38	7	6	47	1.59
582112--582162	21	2.5	20	78	9	59	25	1	13	58	1.46
582679--582708	15	1.9	16	93	6	53	40	3	6	50	1.45
585455--585497	2	21.5	2	85	0	59	48	0	6	44	1.29
590140--590179	15	2.6	16	88	8	64	70	0	0	30	0.88
592158--592183	7	3.7	7	100	0	52	0	11	0	88	0.52
592566--592612	24	2.0	24	83	8	60	46	17	8	27	1.76
592566--592632	27	2.6	25	83	6	73	46	17	7	28	1.75
597050--597178	27	4.9	27	86	4	138	47	20	8	23	1.78
597050--597178	55	2.4	53	82	5	136	47	20	8	23	1.78
600486--600528	20	2.2	20	87	8	61	48	0	0	51	1.00
602125--602154	6	5.0	6	91	0	51	50	16	3	30	1.62
607098--607169	2	36.0	2	91	0	108	45	1	2	50	1.25
608065--608092	2	14.0	2	100	0	56	50	0	0	50	1.00
609789--609822	2	17.0	2	100	0	68	50	0	0	50	1.00
611910--611941	2	16.0	2	93	0	55	46	0	3	50	1.17
619131--619158	2	14.0	2	100	0	56	0	0	50	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619158--619203	2	23.0	2	100	0	92	50	0	50	0	1.00
623462--623513	22	2.3	23	80	6	61	61	0	1	36	1.07
623635--623669	18	1.9	18	88	0	52	57	2	11	28	1.48
624497--624536	20	2.0	21	85	5	55	37	0	0	62	0.95
624504--624605	25	3.5	30	74	18	83	32	0	0	66	0.98
624509--624576	24	2.9	24	73	16	70	32	0	0	67	0.91
624538--624605	31	2.3	29	82	10	75	30	0	1	67	0.99
624631--624660	15	2.0	15	93	0	51	63	0	0	36	0.95
624906--624946	20	2.0	20	85	4	55	17	12	2	68	1.31
626951--626977	3	9.0	3	100	0	54	33	0	0	66	0.92
627687--627712	2	13.0	2	100	0	52	50	0	0	50	1.00
628788--628821	15	2.3	15	90	10	52	8	2	0	88	0.62
629358--629408	26	2.0	26	84	0	66	50	11	5	31	1.62
630661--630867	47	4.3	51	72	18	172	42	3	16	37	1.67
630666--630846	95	1.9	95	86	2	256	41	3	16	38	1.65
631611--631686	35	2.0	35	83	16	91	50	0	0	50	1.00
635555--635719	45	3.6	45	72	16	140	19	18	21	41	1.91
635535--635713	93	1.9	93	88	0	268	19	17	21	40	1.91
635639--635750	45	2.5	43	73	13	109	17	16	24	41	1.90
639276--639424	52	2.9	51	86	4	217	31	16	18	33	1.93
639413--639437	13	1.9	13	100	0	50	36	16	16	32	1.90
639478--639544	33	2.0	33	85	0	89	40	13	11	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639500--639524	13	1.9	13	100	0	50	32	16	16	36	1.90
646619--646659	17	2.4	18	76	12	50	34	0	2	63	1.08
646617--646680	29	2.1	31	85	5	87	40	0	1	57	1.08
646889--646928	21	1.9	21	90	10	64	60	0	0	40	0.97
646883--646932	15	3.6	14	76	15	50	62	0	0	38	0.96
650696--650744	18	2.8	17	87	6	62	59	2	2	36	1.21
653357--653396	14	2.7	16	74	18	50	40	0	0	60	0.97
654128--654157	14	2.1	14	93	0	51	16	3	6	73	1.18
654214--654246	16	1.9	18	88	11	52	72	0	0	27	0.85
654506--654530	13	1.9	13	100	0	50	16	4	0	80	0.87

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