genome.fa.s117.2.7.7.80.10.50.1000.4.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  4  of  18  ( 2101 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)
475438--475492	28	1.9	29	85	3	76	20	0	7	72	1.07
475443--475493	19	2.7	19	82	14	70	17	0	5	76	0.98
475448--475512	21	3.2	20	79	14	78	21	0	4	73	1.00
475466--475524	10	6.3	9	75	11	57	23	0	3	72	0.99
475524--475595	23	3.2	23	78	9	76	33	1	12	52	1.48
475897--475963	31	2.1	32	91	8	111	19	13	4	62	1.47
476138--476184	15	3.1	15	81	0	58	42	2	0	55	1.12
476222--476296	16	4.7	16	73	5	71	40	6	2	50	1.43
476224--476304	32	2.6	32	86	2	110	41	6	3	48	1.46
477751--477789	20	2.0	19	85	5	51	58	5	0	35	1.20
477767--477805	17	2.4	17	86	4	53	53	2	0	43	1.14
478326--478383	17	3.4	18	74	11	59	53	0	0	46	1.00
482104--482134	13	2.4	13	88	0	53	35	12	16	35	1.87
482175--482247	20	3.7	19	87	7	85	38	17	15	28	1.90
488996--490057	57	18.5	57	74	6	675	32	19	14	32	1.92
489023--489892	115	7.6	114	76	6	415	32	20	14	32	1.93
489880--490093	114	1.9	114	87	1	313	34	18	14	32	1.91
495890--495935	11	4.4	11	79	17	53	69	0	2	28	1.00
495867--495929	27	2.3	28	75	8	67	66	1	3	28	1.16
495920--495957	15	2.4	17	91	8	62	57	0	5	36	1.21
495947--496012	32	2.0	33	85	8	91	50	3	4	42	1.38
496041--496088	15	3.3	14	77	11	51	62	2	0	35	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496041--496083	23	1.9	23	85	4	61	62	2	0	34	1.08
496930--496970	21	1.9	22	90	5	66	34	0	0	65	0.93
496925--496983	29	2.1	28	84	6	75	35	0	0	64	0.94
502588--502716	52	2.5	52	94	0	231	29	17	17	35	1.93
502802--502866	19	3.7	19	75	23	79	38	16	12	32	1.86
502821--502845	13	1.9	13	100	0	50	32	16	16	36	1.90
502798--502864	32	2.1	32	97	0	125	37	17	11	32	1.87
504957--504994	19	2.1	19	85	9	53	50	5	5	39	1.48
512046--512070	2	12.5	2	100	0	50	0	48	0	52	1.00
512070--512102	2	16.5	2	100	0	66	48	0	0	51	1.00
512100--512127	4	7.0	4	100	0	56	25	0	25	50	1.50
513515--513552	2	19.0	2	100	0	76	50	0	0	50	1.00
515175--515251	30	2.6	30	85	0	100	31	9	12	46	1.73
515828--515887	22	2.7	22	84	7	86	35	5	15	45	1.68
515828--515914	44	2.0	44	84	4	113	35	8	13	42	1.74
515941--515997	20	2.8	21	84	7	73	28	5	17	49	1.68
516149--516199	20	2.5	22	78	18	56	33	3	11	50	1.57
516221--516322	45	2.3	45	82	0	114	34	7	24	33	1.84
516273--516312	21	1.9	21	84	0	53	15	12	35	37	1.85
516513--516574	20	3.2	20	84	11	76	29	6	19	45	1.75
516521--516584	20	3.0	22	84	6	80	32	7	20	39	1.81
516665--516712	16	3.2	16	69	22	50	33	6	8	52	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517209--517271	23	2.9	21	79	9	72	41	19	4	34	1.72
517747--517826	29	2.7	30	90	1	117	51	13	5	30	1.63
517987--518040	22	2.5	22	90	3	92	44	27	7	20	1.78
518082--518112	16	1.9	16	100	0	62	51	0	0	48	1.00
518083--518118	16	2.2	16	90	0	54	52	2	0	44	1.15
518217--518278	20	3.0	20	76	4	70	45	27	6	20	1.76
518321--518384	34	1.9	33	87	3	92	48	4	4	42	1.45
518513--518643	22	5.9	22	70	7	84	44	10	6	38	1.64
519081--519193	30	3.8	30	76	3	93	54	11	3	30	1.53
521419--521453	16	2.2	16	89	0	52	8	8	31	51	1.63
521451--521491	16	2.5	16	96	4	73	17	12	24	46	1.82
522346--522406	16	3.8	15	75	12	50	13	14	27	44	1.83
522383--522414	17	1.9	17	93	6	57	12	12	28	46	1.78
531910--532038	52	2.5	52	98	0	249	30	17	17	34	1.94
531910--532058	52	2.9	51	93	4	237	31	17	18	32	1.94
532047--532071	13	1.9	13	100	0	50	36	16	16	32	1.90
532133--532157	13	1.9	13	100	0	50	32	16	16	36	1.90
532112--532177	32	2.0	33	94	2	116	36	16	12	34	1.86
536232--536271	17	2.3	18	83	12	57	2	25	0	72	0.97
537007--537591	297	2.0	288	91	3	945	27	16	24	31	1.97
537754--537858	32	3.2	32	74	5	111	26	18	27	27	1.98
537754--537934	32	5.8	31	72	11	97	24	17	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537795--538310	28	18.0	27	77	8	393	25	16	27	30	1.97
537794--538492	84	8.2	84	78	6	514	26	16	28	28	1.97
538328--538532	28	7.4	28	88	1	304	28	15	32	24	1.95
538494--538573	41	2.0	41	89	0	124	27	13	35	23	1.93
538466--538601	69	2.0	69	89	0	209	27	13	33	25	1.93
538438--538713	97	3.0	95	76	16	317	28	14	32	24	1.94
538533--538796	85	3.2	82	85	4	325	31	15	29	24	1.95
538533--538796	28	9.6	27	80	8	273	31	15	29	24	1.95
538535--538796	55	4.7	54	84	6	276	30	14	29	24	1.95
540145--540204	21	2.8	21	83	11	77	6	8	6	78	1.10
540830--540912	19	4.7	19	81	17	115	32	12	18	37	1.87
540831--540893	32	2.0	32	100	0	126	33	12	19	34	1.89
540850--540874	13	1.9	13	100	0	50	36	16	16	32	1.90
540965--540989	13	1.9	13	100	0	50	32	16	16	36	1.90
540998--541073	32	2.4	32	95	0	134	32	19	19	27	1.96
550036--550077	17	2.4	17	88	4	57	2	19	0	78	0.86
550809--550846	17	2.1	19	90	9	62	60	0	0	39	0.97
552873--552916	18	2.4	18	84	0	61	36	20	11	31	1.88
554813--554859	14	3.3	14	81	3	58	72	0	25	2	0.96
554957--555005	20	2.5	20	100	0	98	28	4	10	57	1.50
556198--556260	15	4.0	15	74	15	56	53	0	0	46	1.00
556642--556681	6	6.3	6	85	8	53	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557773--557825	21	2.5	22	77	17	67	69	9	0	20	1.15
558457--558491	18	1.9	18	88	0	52	11	5	5	77	1.12
558543--558573	14	2.2	14	94	0	53	58	0	0	41	0.98
559565--559589	7	3.6	7	100	0	50	56	0	0	44	0.99
560019--560062	15	2.9	14	83	16	52	63	2	2	31	1.19
560191--560226	2	18.0	2	94	0	63	0	47	0	52	1.00
563608--563746	63	2.2	63	84	5	174	43	9	12	34	1.74
566629--566653	13	1.9	13	100	0	50	36	16	16	32	1.90
566606--566673	33	2.1	33	89	8	104	32	14	16	36	1.89
568721--568763	20	2.1	20	82	4	50	11	27	44	16	1.82
569205--569256	13	4.0	13	92	0	86	34	21	13	30	1.92
575395--575465	20	3.6	20	92	5	110	26	12	18	42	1.86
576381--576453	20	3.6	20	79	17	96	34	13	19	32	1.91
576399--576474	21	3.7	21	76	16	86	40	11	17	30	1.85
576381--576474	41	2.3	41	96	0	170	38	12	18	30	1.88
576513--576538	13	2.0	13	100	0	52	38	15	15	30	1.88
578752--578796	21	2.1	21	84	8	56	53	4	20	22	1.63
582645--582722	20	3.6	21	74	15	70	26	14	15	43	1.85
582711--582735	13	1.9	13	100	0	50	36	16	16	32	1.90
584498--584679	87	2.1	87	100	0	364	39	3	28	28	1.72
591245--591319	20	3.8	20	78	0	87	34	13	12	40	1.81
591245--591322	40	2.0	39	87	2	111	34	12	12	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593519--593762	96	2.5	96	97	0	461	25	29	15	30	1.95
603155--603184	15	1.9	16	93	6	53	10	30	33	26	1.89
606679--608222	28	53.9	29	89	3	2210	28	32	17	21	1.96
606678--608222	627	2.5	626	92	2	2517	28	32	17	21	1.96
608748--608822	20	3.8	20	78	0	87	34	13	12	40	1.81
608748--608825	40	2.0	39	87	2	111	34	12	12	39	1.82
617073--618005	42	22.2	42	83	3	1038	38	18	29	12	1.89
625336--625380	22	2.0	23	82	4	56	44	2	20	33	1.63
638322--638358	2	19.0	2	94	5	67	51	0	0	48	1.00
641685--641716	16	1.9	17	93	6	57	40	3	0	56	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18