genome.fa.s90.2.7.7.80.10.50.1000.2.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: scaffold643.1
Parameters: 2 7 7 80 10 50 1000
Length:  856865

Tables:   1   2   3   4   

This is table  2  of  4  ( 403 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)
314221--314249	14	2.0	15	93	6	51	51	20	0	27	1.47
316475--316583	36	3.0	36	93	0	191	27	20	14	37	1.92
316547--316665	46	2.6	46	94	0	202	28	21	12	36	1.90
318289--318335	24	1.9	24	86	4	67	36	0	38	25	1.56
319338--319693	27	13.2	27	81	3	351	44	20	15	19	1.86
319338--319693	81	4.4	79	83	3	408	44	20	15	19	1.86
319928--320004	26	3.0	26	84	3	102	16	22	25	35	1.95
320097--320190	28	3.4	28	81	7	120	23	24	22	29	1.99
320932--321037	55	1.9	55	92	0	176	40	15	17	26	1.89
320932--321053	55	2.2	55	86	2	165	41	13	18	25	1.88
322862--323209	27	12.9	27	79	1	320	44	20	14	19	1.87
322851--323209	109	3.3	109	79	5	370	44	20	14	20	1.86
323464--323513	26	2.0	24	81	11	57	16	18	26	40	1.90
323616--323707	28	3.3	28	83	7	116	25	21	22	30	1.99
325345--325420	23	3.3	23	90	1	118	30	26	21	22	1.99
333886--333945	30	2.0	30	93	0	102	50	15	3	31	1.60
334944--335008	33	2.0	32	93	0	103	21	26	10	40	1.86
335173--335274	50	2.0	50	100	0	204	19	11	17	50	1.76
339304--339407	49	2.1	49	92	0	172	31	7	8	51	1.61
340789--340831	21	2.0	21	86	8	61	34	0	6	58	1.25
340860--341060	28	6.9	28	67	19	83	42	0	3	53	1.21
340796--341034	119	2.0	119	97	1	453	42	0	4	51	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340966--341013	18	2.7	18	87	6	62	43	0	2	54	1.12
342942--342982	18	2.2	20	82	8	50	65	7	0	26	1.18
346172--346235	31	2.0	33	93	6	114	31	17	9	42	1.81
347119--347160	19	2.2	19	86	4	57	40	0	9	50	1.35
348940--348980	18	2.2	18	87	12	57	65	9	2	21	1.34
358076--358141	24	2.8	24	86	2	89	7	13	30	48	1.70
358076--358190	23	4.8	24	72	5	90	8	16	28	46	1.77
365996--366060	27	2.4	27	81	0	76	49	35	7	7	1.60
366014--366069	21	2.7	21	80	0	58	53	30	8	7	1.59
368693--368738	24	1.9	24	91	8	76	39	0	0	60	0.97
368835--368862	9	3.1	9	100	0	56	57	10	0	32	1.33
368805--369082	68	4.1	68	97	0	515	46	9	4	39	1.57
368903--368930	9	3.1	9	100	0	56	57	10	0	32	1.33
369071--369112	16	2.6	16	92	0	66	42	7	2	47	1.43
387162--387203	14	2.9	14	82	3	57	42	14	7	35	1.73
387932--387981	13	3.7	13	76	10	55	38	0	2	60	1.09
391198--391254	28	2.0	28	90	6	89	36	10	26	26	1.89
392247--392316	35	2.0	35	94	0	122	35	15	14	34	1.88
393652--393683	15	2.1	15	100	0	64	50	12	12	25	1.75
394063--394196	58	2.3	58	81	2	144	40	13	26	20	1.89
395528--395566	16	2.5	16	83	4	53	23	2	10	64	1.37
397180--397227	17	2.8	16	78	12	51	37	0	16	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397736--397814	21	3.9	21	78	3	81	15	26	15	43	1.86
406026--406089	29	2.1	31	82	5	78	62	0	3	34	1.11
406889--406921	16	2.1	16	94	0	57	33	0	0	66	0.92
406889--407152	10	28.0	9	68	15	101	32	2	5	59	1.34
413728--413788	25	2.5	24	81	7	68	42	1	0	55	1.09
419174--419212	18	2.2	17	86	13	53	33	0	20	46	1.51
419441--419498	23	2.5	23	88	0	89	22	20	25	31	1.98
436413--436462	20	2.6	19	78	6	57	56	0	0	44	0.99
437183--437237	26	2.2	25	83	3	65	29	1	5	63	1.27
439079--439155	18	4.1	20	78	9	83	68	0	5	25	1.10
439079--439162	10	9.0	9	71	19	57	67	1	4	26	1.17
439432--439530	26	3.5	27	73	17	85	35	1	0	63	1.01
439456--439515	19	3.2	18	84	13	77	31	1	0	66	1.01
439436--439529	10	9.9	10	71	14	74	34	1	0	64	1.00
457545--457613	30	2.3	30	87	5	95	52	17	8	21	1.71
458343--458388	22	2.0	23	84	12	60	71	2	26	0	0.97
460806--460880	30	2.5	29	79	10	80	46	4	14	34	1.63
464166--464232	34	1.9	35	96	3	127	40	22	16	20	1.91
468826--468981	78	2.0	78	100	0	312	34	11	28	25	1.91
469397--469437	21	2.0	21	85	9	57	36	4	7	51	1.51
469739--469778	20	2.1	19	86	13	55	50	2	0	47	1.14
470196--470290	10	9.6	10	76	19	76	37	1	1	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470220--470282	8	8.0	8	73	16	60	38	1	0	60	1.07
470227--470285	31	2.0	29	90	6	91	40	1	0	57	1.09
470178--470290	39	2.9	38	89	2	163	35	0	0	62	1.07
475853--475901	21	2.3	21	85	3	62	34	2	4	59	1.28
475889--475952	19	3.3	19	95	2	110	34	0	6	59	1.23
475916--475981	32	2.0	34	94	5	118	36	0	6	57	1.23
475959--475988	9	3.3	9	95	0	51	36	0	6	56	1.26
475903--476022	41	2.9	39	71	15	91	35	1	5	56	1.33
480655--480697	22	2.0	21	86	4	59	23	4	2	69	1.18
480896--480923	11	2.5	11	100	0	56	60	0	0	39	0.97
486702--486813	56	2.0	56	100	0	224	39	12	8	39	1.75
487851--487903	7	7.1	7	83	8	52	64	0	1	33	1.05
487850--487911	31	2.0	31	87	6	90	64	0	1	33	1.03
488848--488880	13	2.5	13	90	0	57	48	0	6	45	1.27
488848--488891	13	3.4	13	84	9	54	52	4	6	36	1.49
501033--501061	15	1.9	15	100	0	58	68	0	10	20	1.18
503190--503241	26	2.0	26	96	0	95	38	7	32	21	1.82
516926--516983	27	2.1	27	81	6	64	60	0	0	39	0.97
516934--516984	27	1.9	26	84	4	66	58	0	0	41	0.98
521943--521995	3	17.7	3	92	0	88	66	1	1	30	1.13
522797--522830	14	2.2	16	90	10	54	41	2	5	50	1.42
526798--526841	20	2.1	21	83	4	54	63	0	9	27	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528089--528291	102	2.0	102	99	0	397	31	33	7	28	1.86
529837--529897	21	2.9	21	82	0	77	42	9	21	26	1.84
530078--530121	18	2.5	17	82	13	54	47	2	2	47	1.27
530078--530127	19	2.7	18	81	9	57	46	2	4	48	1.32
530111--530153	20	2.2	20	87	4	61	27	0	9	62	1.25
531793--531830	11	3.5	11	79	13	51	60	0	2	36	1.11
535578--535621	24	1.9	24	86	9	65	61	4	4	29	1.36
540543--540594	27	1.9	27	88	7	79	26	34	11	26	1.91
541296--541325	15	2.1	15	93	6	53	23	13	0	63	1.29
542208--542395	94	2.0	94	100	0	376	40	5	9	44	1.60
548872--549001	19	6.9	18	69	15	68	63	1	2	32	1.16
548858--549000	9	15.4	9	68	17	71	65	1	2	31	1.13
548893--549012	20	6.2	20	68	13	58	65	2	1	30	1.16
560142--560168	2	13.5	2	100	0	54	0	0	48	51	1.00
574635--574687	21	2.4	23	81	6	56	32	3	3	60	1.32
574747--574786	7	5.9	7	83	16	57	47	15	0	37	1.45
574743--574797	20	2.7	20	83	8	67	45	18	1	34	1.60
574747--574787	13	3.1	13	80	19	57	46	17	0	36	1.48
580476--580578	36	2.9	36	71	11	86	39	11	28	20	1.87
580799--580838	19	2.0	20	85	4	55	42	10	20	27	1.83
583845--583901	20	2.9	19	79	7	60	52	0	0	47	1.00
584438--584485	24	2.0	24	87	0	69	56	4	8	31	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584579--584635	29	1.9	30	86	10	82	40	8	7	43	1.63
586636--586664	3	10.0	3	92	7	51	68	0	0	31	0.89
587227--587269	9	4.8	9	94	0	68	23	9	27	39	1.85
587430--587454	12	2.1	12	100	0	50	16	24	36	24	1.94
592845--592975	42	3.1	42	65	23	112	37	5	8	48	1.56
592808--592975	84	2.0	83	96	1	309	38	4	7	49	1.51
593363--593398	15	2.3	15	90	4	54	52	0	0	47	1.00
596760--596893	41	3.3	41	86	2	182	26	20	12	39	1.89
601910--602029	42	2.9	42	76	5	125	22	15	18	43	1.88
601911--602120	42	5.0	41	69	13	122	22	15	18	43	1.87

Tables:   1   2   3   4