genome.fa.s99.2.7.7.80.10.50.1000.4.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: Scaffold99
Parameters: 2 7 7 80 10 50 1000
Length:  1377724

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

This is table  4  of  10  ( 1130 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)
416715--416951	32	7.2	31	84	7	258	20	33	10	35	1.88
416715--416951	64	3.6	65	87	6	291	20	33	10	35	1.88
416787--416993	96	2.2	91	76	12	216	22	33	11	33	1.89
416985--417136	32	4.7	32	86	4	207	29	33	19	17	1.95
416985--417136	33	4.7	32	87	2	196	29	33	19	17	1.95
416985--417136	65	2.3	65	91	0	241	29	33	19	17	1.95
417142--417502	43	8.0	43	83	9	452	24	25	19	30	1.98
417142--417554	91	4.5	91	93	1	664	24	25	19	30	1.98
417343--417409	21	3.1	21	62	26	50	26	28	17	26	1.98
417456--417606	52	2.9	52	91	1	230	20	25	19	34	1.96
418389--418441	19	2.7	20	88	2	81	32	9	16	41	1.81
418484--418508	13	1.9	13	100	0	50	32	16	16	36	1.90
418517--418645	52	2.5	52	93	0	222	36	19	17	27	1.94
427251--427369	42	2.8	42	92	0	193	8	46	2	42	1.47
427284--427359	12	6.9	11	75	15	52	9	48	2	39	1.49
427275--427360	24	3.8	24	72	17	85	10	45	2	41	1.51
427266--427336	18	3.6	18	69	20	52	9	43	2	43	1.52
429189--429255	33	2.0	33	88	0	98	40	14	11	32	1.83
429211--429235	13	1.9	13	100	0	50	32	16	16	36	1.90
433091--433227	32	4.4	32	86	4	174	23	30	16	29	1.96
433247--433442	32	6.0	32	87	5	241	21	31	11	35	1.89
433247--433442	64	3.0	64	88	3	266	21	31	11	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433476--433595	33	3.7	33	84	2	161	29	32	20	18	1.96
433601--433938	49	7.0	44	72	16	187	22	25	18	33	1.97
433643--433938	53	5.8	53	78	8	289	22	25	18	34	1.96
433601--433947	102	3.5	100	85	5	433	23	25	18	33	1.97
434702--434756	21	2.6	21	100	0	110	47	14	10	27	1.78
434828--434855	13	2.2	13	100	0	56	28	14	17	39	1.89
437292--438733	727	2.0	724	92	0	2409	29	21	18	29	1.97
439349--440350	61	16.4	61	87	2	1338	28	19	25	25	1.99
439411--440354	245	3.9	245	90	0	1422	29	19	25	25	1.98
439349--440354	184	5.5	183	87	2	1351	28	19	26	25	1.99
441526--441582	13	3.9	13	76	24	60	35	14	17	33	1.90
441506--441601	19	5.7	18	71	28	86	35	12	16	35	1.87
441506--441606	32	3.1	32	95	1	175	35	11	16	35	1.86
441644--441668	13	1.9	13	100	0	50	32	16	16	36	1.90
447478--447515	12	3.1	12	85	14	51	81	15	2	0	0.80
448701--448973	30	8.9	30	83	8	311	24	29	15	30	1.96
448701--448941	92	2.6	93	85	8	325	24	28	16	30	1.96
448947--449435	34	15.3	33	73	15	314	21	34	12	32	1.90
448975--449404	61	6.9	61	80	9	415	20	34	12	32	1.90
448975--449393	121	3.4	122	77	10	436	20	33	12	32	1.90
449164--449316	30	5.0	31	76	11	111	21	35	14	28	1.92
449286--449435	36	4.3	36	83	5	191	22	34	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448742--449383	95	6.9	94	75	14	395	21	32	13	31	1.92
449286--449435	70	2.1	70	96	0	273	22	34	10	32	1.89
448808--449500	34	21.8	33	74	16	216	21	32	13	31	1.93
449423--449514	32	2.8	33	90	3	150	29	29	20	20	1.98
449426--449530	33	3.2	31	84	6	129	29	32	19	19	1.96
449553--449605	28	1.9	27	81	11	63	32	35	16	15	1.90
449586--449746	34	4.7	33	78	9	144	19	31	11	37	1.87
449575--449746	68	2.5	69	83	6	204	19	31	11	37	1.87
449714--449785	27	2.6	28	88	4	101	25	31	15	27	1.95
449714--449841	28	4.6	28	79	5	109	29	31	15	23	1.95
449863--450144	49	5.8	49	77	10	231	26	26	17	29	1.98
449950--450139	98	1.9	99	85	6	260	24	27	18	29	1.98
450204--450562	154	2.3	154	92	1	585	23	26	15	34	1.95
451210--451276	31	2.1	32	91	2	109	37	10	14	37	1.81
451314--451338	13	1.9	13	100	0	50	32	16	16	36	1.90
454608--454653	14	3.4	13	85	11	65	2	2	8	86	0.72
464792--464818	4	6.8	4	100	0	54	77	0	0	22	0.76
466560--466688	62	2.1	63	83	4	163	42	14	15	27	1.86
467785--468413	49	13.1	49	77	9	503	25	24	17	31	1.97
467952--468166	39	5.0	40	74	16	146	28	26	18	26	1.98
467859--468413	136	4.0	137	83	6	574	26	24	17	31	1.97
468041--468215	88	2.0	88	92	1	289	27	25	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470057--470084	13	2.2	13	100	0	56	39	17	14	28	1.89
470019--470074	20	2.8	20	97	0	103	41	14	16	28	1.87
470037--470104	33	2.1	33	88	5	102	41	14	13	30	1.84
474411--474435	13	1.9	13	100	0	50	36	16	16	32	1.90
474391--474457	19	3.8	19	72	22	65	35	11	13	38	1.82
474497--474522	13	2.0	13	100	0	52	30	15	15	38	1.88
474477--474543	33	2.0	33	88	0	98	25	14	16	43	1.86
475058--475087	10	3.1	10	95	4	53	76	23	0	0	0.78
476891--477279	52	7.4	51	68	15	177	29	24	12	33	1.91
477104--477282	52	3.4	52	80	6	218	30	25	11	32	1.91
477262--477336	28	2.7	28	85	4	89	24	33	18	24	1.97
476891--477386	264	1.9	264	86	3	712	28	25	13	33	1.93
489920--489967	14	3.4	14	82	2	51	85	6	8	0	0.74
490952--491974	61	17.2	61	89	4	1356	25	29	19	25	1.99
492455--492529	21	3.6	21	85	3	98	34	12	18	34	1.88
492567--492634	19	3.9	19	78	21	85	35	11	14	38	1.83
492588--492612	13	1.9	13	100	0	50	36	16	16	32	1.90
492569--492631	32	2.0	32	96	0	117	34	12	15	36	1.86
492654--492708	20	2.8	20	82	0	74	23	14	16	45	1.84
493221--493249	10	3.0	10	95	5	51	79	20	0	0	0.74
495165--495236	27	2.6	28	82	8	94	23	31	20	23	1.98
495220--495443	52	4.3	52	80	7	222	29	25	11	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495054--495552	264	1.9	265	87	3	729	28	25	13	32	1.93
501240--501648	213	1.9	212	86	2	588	31	18	21	28	1.97
503731--503964	61	3.8	61	87	4	287	29	19	26	25	1.98
503889--504046	81	2.0	81	98	0	307	34	17	24	24	1.96
503786--504168	203	1.9	204	87	1	572	30	18	24	25	1.98
503970--504504	61	8.7	61	86	2	750	29	19	26	24	1.98
503828--504106	142	2.0	142	86	4	393	32	18	24	25	1.97
503970--504501	184	2.9	184	87	1	773	29	19	26	24	1.99
503970--504504	245	2.2	244	90	1	820	29	19	26	24	1.98
505462--505522	1	61.0	1	76	0	59	0	1	9	88	0.58
505462--505522	16	3.6	16	83	14	70	0	1	9	88	0.58
505462--505522	17	3.6	16	85	12	77	0	1	9	88	0.58
505462--505522	19	3.3	18	88	6	86	0	1	9	88	0.58
505462--505514	12	4.6	11	88	4	70	0	1	9	88	0.58
517236--517619	79	4.9	78	77	6	353	33	13	25	27	1.93
517236--517619	158	2.4	157	80	3	441	33	13	25	27	1.93
517558--517672	51	2.3	51	81	3	133	31	11	27	29	1.91
519514--519543	13	2.3	13	100	0	60	40	13	16	30	1.87
519465--519593	62	2.1	63	89	1	197	38	15	17	27	1.90
520531--520667	61	2.2	61	87	2	186	38	12	26	22	1.90
520614--520859	52	4.8	50	76	7	221	34	16	23	25	1.95
520624--520859	104	2.3	101	82	6	271	34	16	23	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520865--521504	32	20.0	30	84	10	742	21	19	28	30	1.97
520865--521497	96	6.6	95	86	7	858	21	19	28	30	1.97
521674--521745	28	2.6	28	75	2	65	29	19	25	26	1.99
523083--523168	9	10.5	8	71	21	63	3	2	12	81	0.92
523086--523169	17	5.0	16	76	16	73	4	2	13	79	0.98
523083--523161	6	13.8	6	72	15	53	3	2	12	81	0.94
530019--530072	19	2.8	19	100	0	108	25	14	16	42	1.87
532149--532191	20	2.1	20	82	4	50	9	27	44	18	1.80
532625--532661	13	2.8	13	91	0	56	40	16	13	29	1.86
534363--534388	13	2.0	13	100	0	52	38	15	15	30	1.88

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