genome.fa.s37.2.7.7.80.10.50.1000.4.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: Scaffold37
Parameters: 2 7 7 80 10 50 1000
Length:  836391

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 678 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)
472084--472150	20	3.3	20	74	17	68	59	0	0	40	0.97
472262--472291	8	3.6	8	95	4	51	86	0	0	13	0.57
473555--473581	2	13.5	2	100	0	54	0	51	0	48	1.00
475734--475799	32	2.1	32	85	2	89	57	1	0	40	1.08
475751--475809	16	3.8	16	84	2	75	52	1	1	44	1.21
475853--475947	31	3.4	31	67	27	102	33	1	13	51	1.48
475852--475954	52	2.0	52	100	0	206	33	0	13	52	1.47
475990--476107	32	3.8	32	77	11	111	54	2	3	39	1.31
475990--476107	16	7.5	16	66	10	64	54	2	3	39	1.31
476223--476261	20	2.0	19	90	5	60	74	2	0	23	0.94
476829--476874	15	2.9	15	78	12	56	50	0	0	50	1.00
476824--476877	16	3.4	16	76	19	58	48	0	0	51	1.00
477394--477429	15	2.3	16	95	4	65	0	16	0	83	0.65
477807--477852	21	2.2	21	88	0	65	76	4	0	19	0.96
478223--478260	7	5.1	7	90	9	58	0	15	0	84	0.63
478216--478266	19	2.6	19	90	3	75	0	15	0	84	0.63
478223--478260	15	2.5	15	95	0	67	0	15	0	84	0.63
478219--478264	4	11.8	4	84	11	60	0	17	0	82	0.67
478495--478552	28	2.0	30	83	12	77	43	0	0	56	0.99
479083--479118	2	18.0	2	100	0	72	50	0	0	50	1.00
479709--479744	17	2.1	18	94	5	65	58	0	0	41	0.98
480121--480179	27	2.2	28	84	6	77	42	1	0	55	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480136--480241	32	3.4	30	80	12	117	43	1	0	54	1.11
480234--480269	16	2.2	16	90	0	54	30	0	0	69	0.89
480207--480280	22	3.5	21	73	10	62	36	0	0	63	0.95
488689--488718	2	15.0	2	100	0	60	50	0	0	50	1.00
488858--488909	20	2.7	20	81	3	61	48	0	3	48	1.20
489579--489654	40	1.9	38	89	5	116	43	5	5	46	1.48
489596--489663	20	3.4	20	89	0	109	41	4	7	47	1.51
489742--489819	36	2.3	34	82	14	90	51	5	3	39	1.42
489864--489933	16	4.2	16	72	15	54	72	0	4	22	1.01
489858--489901	17	2.6	16	78	7	52	63	0	2	34	1.07
490248--490300	18	2.6	21	74	20	58	41	0	9	49	1.35
490337--490387	20	2.5	20	100	0	102	47	3	17	31	1.66
491651--491703	27	1.9	28	92	3	90	64	1	0	33	1.05
494803--494896	47	2.0	46	97	2	179	44	5	4	45	1.45
495277--495319	3	14.0	3	95	4	77	65	0	0	34	0.93
499501--499583	41	2.0	42	92	2	141	42	8	21	27	1.82
502672--502725	16	3.5	15	75	14	56	53	0	1	44	1.11
502676--502727	21	2.5	20	71	3	50	51	0	1	46	1.12
502770--502804	17	2.1	17	94	0	61	65	0	0	34	0.93
510185--510243	20	3.0	20	87	7	77	33	0	0	66	0.92
511609--511658	23	2.3	22	83	13	59	68	0	0	32	0.90
514507--514556	2	25.0	2	95	0	91	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514740--514765	2	13.0	2	100	0	52	50	0	0	50	1.00
516321--516360	19	2.1	19	90	9	64	35	5	2	57	1.34
524596--524666	19	3.8	19	71	15	51	39	0	0	60	0.97
524588--524680	28	3.5	27	76	15	88	36	0	0	63	0.95
524635--524685	19	2.7	20	87	6	70	33	0	0	66	0.92
524658--524705	21	2.4	19	82	6	51	31	4	0	64	1.12
524788--524829	12	3.6	12	78	18	52	57	0	0	42	0.99
524788--524854	23	3.1	23	79	10	70	58	0	0	41	0.98
525994--526067	24	3.1	24	76	3	78	47	0	0	52	1.00
526008--526107	24	4.4	23	70	18	75	54	0	0	46	1.00
530595--530619	6	4.2	6	100	0	50	48	0	0	52	1.00
531056--531119	13	4.4	14	68	27	53	43	0	0	56	0.99
531653--531716	32	2.0	33	81	9	78	43	1	0	54	1.09
533145--533176	2	16.0	2	100	0	64	50	0	0	50	1.00
533773--533809	2	18.5	2	100	0	74	51	0	0	48	1.00
535853--535879	2	13.5	2	100	0	54	51	0	0	48	1.00
536003--536035	14	2.4	14	85	5	50	75	0	21	3	0.93
537768--537807	15	2.6	15	84	15	55	55	0	0	45	0.99
539966--540024	6	9.7	6	83	10	59	8	35	0	55	1.30
541263--541301	2	19.5	2	89	0	60	48	5	0	46	1.24
541263--541301	12	3.2	12	96	0	69	48	5	0	46	1.24
541586--541640	22	2.6	21	77	11	58	30	0	3	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543086--543117	16	2.0	16	93	0	55	12	15	0	71	1.14
543156--543190	18	2.0	17	88	5	52	57	0	0	42	0.99
543582--543613	16	2.0	16	93	0	55	40	6	0	53	1.26
544495--544520	10	2.6	10	100	0	52	65	7	0	26	1.20
544602--544655	2	27.5	2	86	3	74	51	1	0	46	1.11
547820--547853	2	17.0	2	100	0	68	50	0	0	50	1.00
547984--548046	32	2.0	32	96	0	117	30	19	7	42	1.79
550843--550878	3	12.0	3	100	0	72	33	0	0	66	0.92
551175--551213	20	2.0	20	85	10	53	51	0	0	48	1.00
551603--551638	18	2.1	18	94	5	65	52	0	0	47	1.00
554820--554860	18	2.3	18	86	0	55	34	0	0	65	0.93
558452--558491	14	2.6	16	88	7	57	25	7	2	65	1.32
558453--558491	16	2.6	14	88	8	51	25	7	2	64	1.33
560084--560127	13	3.5	13	90	6	72	70	0	4	25	1.06
560180--560208	2	14.5	2	100	0	58	48	0	0	51	1.00
560632--560670	14	2.7	15	88	4	62	43	0	0	56	0.99
561436--561478	13	3.2	13	76	3	50	65	2	0	32	1.06
561961--562000	15	2.7	15	88	3	55	60	0	0	40	0.97
562049--562102	21	2.5	22	82	5	67	42	3	0	53	1.18
562049--562097	22	2.3	21	85	3	62	44	4	0	51	1.20
562848--562876	14	2.1	14	100	0	58	44	0	0	55	0.99
563259--563286	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568212--568236	2	12.5	2	100	0	50	52	0	0	48	1.00
568688--568728	9	4.4	9	87	6	55	39	0	0	60	0.96
568688--568728	5	8.8	5	84	15	61	39	0	0	60	0.96
568688--568744	28	2.0	28	89	0	87	35	1	3	59	1.25
568872--568922	23	2.3	21	80	9	57	62	1	1	33	1.17
568973--569016	21	2.0	21	83	12	54	38	2	0	59	1.10
571634--571854	110	2.0	110	95	0	399	21	15	18	44	1.86
576071--576102	2	17.0	2	87	12	50	50	0	0	50	1.00
576795--576938	16	8.9	16	80	4	155	49	2	6	40	1.44
576795--576927	49	2.7	49	84	1	169	48	2	7	41	1.44
577057--577095	16	2.4	17	83	12	55	51	2	7	38	1.44
577130--577243	16	7.1	16	75	5	59	55	3	2	38	1.31
577019--577164	69	2.1	69	80	6	163	45	2	8	43	1.48
577131--577243	32	3.5	31	79	3	109	54	3	2	38	1.31
577182--577242	16	3.7	17	80	6	72	55	1	1	40	1.19
577631--577663	3	11.3	3	87	6	50	66	0	0	33	0.92
578019--578082	14	4.9	13	74	18	53	46	0	3	50	1.17
578232--578291	19	3.2	18	72	21	52	68	3	5	23	1.24
578713--578743	16	1.9	16	100	0	62	54	0	0	45	0.99
578715--578751	16	2.3	16	90	0	56	54	2	2	40	1.29
578747--578800	22	2.5	22	79	5	58	53	5	1	38	1.35
578769--578828	16	3.8	16	82	4	68	56	6	0	36	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580103--580136	17	2.1	16	94	5	59	52	0	0	47	1.00
580324--580351	3	9.3	3	100	0	56	67	0	0	32	0.91
582000--582028	2	14.5	2	100	0	58	51	0	0	48	1.00
582072--582125	23	2.2	25	80	9	67	40	0	0	59	0.98
583242--583279	14	2.4	16	87	12	53	50	0	5	44	1.24
584453--584526	32	2.3	32	79	6	87	48	5	5	40	1.49
589792--589844	21	2.6	21	76	23	51	28	5	1	64	1.27
593749--593874	37	3.1	42	78	12	147	46	10	11	31	1.73
595896--595972	37	2.1	36	81	11	86	29	5	14	50	1.64
600865--600901	3	12.7	3	94	5	67	32	0	0	67	0.91

Tables:   1   2   3   4   5   6