genome.fa.s57.2.7.7.80.10.50.1000.5.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  5  of  27  ( 3137 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)
503375--503474	19	5.3	19	77	4	76	45	15	4	36	1.65
503375--503467	39	2.5	37	82	3	114	44	16	4	35	1.67
503470--503507	20	1.9	20	94	0	67	47	13	7	31	1.71
504499--504523	13	1.9	13	100	0	50	32	20	16	32	1.94
504512--504565	19	2.8	19	81	10	65	33	12	18	35	1.89
504481--504542	32	1.9	33	87	9	92	29	17	16	37	1.92
514901--514960	23	2.8	21	75	12	59	60	1	1	36	1.17
515363--515721	125	2.9	123	84	9	466	42	2	1	53	1.23
515629--515654	13	2.0	13	100	0	52	30	0	0	69	0.89
516324--516718	183	2.1	186	83	5	500	41	8	16	33	1.79
516326--516718	95	4.3	93	84	4	444	41	8	16	33	1.79
517533--517588	19	2.8	20	81	5	78	32	16	17	33	1.92
517573--517688	32	3.4	32	68	19	99	37	15	16	31	1.90
517534--517707	71	2.5	71	95	3	307	34	14	18	32	1.92
521265--521295	16	1.9	16	93	0	53	35	9	0	54	1.33
526039--526064	13	2.0	13	100	0	52	38	15	15	30	1.88
526019--526084	33	2.0	33	88	5	98	31	16	13	37	1.88
526113--526159	20	2.4	20	85	3	69	36	12	19	31	1.89
526659--526711	25	2.1	25	89	0	79	30	7	9	52	1.61
528179--528216	16	2.5	16	87	8	53	44	2	0	52	1.14
528220--528277	27	2.1	28	81	18	68	46	3	1	48	1.29
529148--529203	20	2.8	19	82	15	60	42	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529166--529204	20	2.0	20	90	10	62	43	0	0	56	0.99
529265--529334	15	4.9	15	75	16	60	62	1	0	35	1.04
529287--529335	16	3.1	16	77	11	57	59	0	0	40	0.98
529265--529344	30	2.8	29	78	10	85	65	1	0	33	1.01
529265--529355	30	3.1	28	75	14	78	65	2	0	31	1.04
533873--533936	18	3.0	20	74	26	60	60	0	0	39	0.97
533892--533938	18	2.5	20	90	10	73	59	0	0	40	0.97
534797--534914	57	2.1	57	85	0	155	49	8	9	33	1.65
535891--535966	31	2.4	31	95	2	134	31	18	19	30	1.96
539351--539469	51	2.3	52	81	11	138	30	10	25	34	1.89
539195--539415	79	2.8	79	89	4	322	32	13	24	29	1.93
539403--539622	78	2.8	79	80	4	266	33	13	23	30	1.93
539195--539625	208	2.1	209	83	5	552	33	13	24	29	1.93
542021--542072	20	2.6	20	90	0	77	44	11	13	30	1.79
542090--542119	13	2.3	13	94	0	51	40	10	16	33	1.82
542174--542229	21	2.7	21	100	0	112	35	14	17	32	1.90
550043--550071	14	2.1	14	100	0	58	48	20	0	31	1.50
550149--550173	2	12.5	2	100	0	50	48	0	0	52	1.00
551829--551864	14	2.4	15	90	9	56	16	2	16	63	1.42
554435--554493	15	4.0	15	78	10	59	33	18	20	27	1.96
555461--555783	81	3.9	82	80	7	352	22	25	16	36	1.94
556277--556720	231	1.9	231	87	0	656	25	20	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559414--559457	20	2.1	22	87	8	65	68	0	0	31	0.90
560068--560110	3	14.3	3	100	0	86	65	0	0	34	0.93
563543--563652	51	2.2	51	78	14	113	49	0	2	48	1.15
563680--563740	22	2.8	22	80	11	72	54	0	0	45	1.00
563879--563908	7	4.3	7	100	0	60	46	0	0	53	1.00
563898--563949	27	2.0	26	85	11	70	42	0	1	55	1.10
563932--563982	18	2.7	19	81	6	68	35	0	0	64	0.94
563990--564029	19	2.2	18	86	4	53	50	0	0	50	1.00
568117--568230	56	2.0	56	94	0	201	50	4	5	39	1.45
568259--568322	29	2.1	31	85	5	87	64	0	3	32	1.10
568455--568504	23	2.2	23	89	3	75	52	8	0	40	1.31
569165--569202	3	12.7	3	94	0	67	63	2	0	34	1.09
570648--570704	19	3.0	20	79	5	55	64	1	1	31	1.13
570778--570815	19	2.0	19	94	0	67	34	0	5	60	1.19
571436--571508	25	2.8	26	78	17	73	63	0	0	36	0.95
573911--573938	13	2.2	13	100	0	56	42	0	0	57	0.99
577155--577184	10	3.1	10	90	9	53	60	0	0	40	0.97
578577--578629	14	3.7	14	77	20	56	52	0	0	47	1.00
578584--578633	15	3.3	15	73	15	50	54	0	0	46	1.00
578857--578932	25	3.0	25	72	14	66	39	1	0	59	1.06
578858--578946	43	2.0	44	82	4	108	41	2	0	56	1.12
579062--579116	27	2.0	28	86	10	78	56	1	1	40	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581134--581233	16	6.0	17	71	16	68	43	0	1	56	1.06
581179--581236	20	3.1	20	79	16	54	44	0	0	55	0.99
587477--587503	2	13.5	2	100	0	54	51	0	0	48	1.00
588247--588289	2	21.5	2	85	0	59	44	0	6	48	1.29
589930--589981	27	1.9	27	84	0	68	50	1	0	48	1.12
590694--590747	21	2.6	21	75	0	54	53	0	1	44	1.11
591468--591517	22	2.2	24	82	13	70	46	0	2	52	1.12
595729--595770	2	21.5	2	81	13	52	52	2	0	45	1.13
595716--595770	29	2.0	27	85	7	74	52	3	1	41	1.29
596662--596706	17	2.6	17	89	6	65	55	0	0	44	0.99
596999--597032	15	2.1	16	89	10	52	41	0	11	47	1.40
598105--598143	19	2.1	19	90	4	62	51	0	0	48	1.00
598931--598967	2	18.5	2	100	0	74	51	0	0	48	1.00
599055--599110	23	2.5	23	81	16	64	39	0	1	58	1.08
599055--599092	12	3.4	11	86	13	51	39	0	0	60	0.97
599667--599697	9	3.4	9	95	0	53	90	0	3	6	0.55
600295--600348	13	3.9	13	72	13	54	38	3	0	57	1.17
600329--600365	18	2.0	19	94	5	67	35	0	0	64	0.94
600295--600365	29	2.4	31	80	4	83	36	2	0	60	1.11
600510--600544	17	2.0	18	88	5	54	51	0	0	48	1.00
600510--600552	22	2.0	22	86	13	63	51	0	0	48	1.00
606710--606745	7	5.1	7	96	0	54	33	30	27	8	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607304--607336	2	16.5	2	100	0	66	0	48	0	51	1.00
610545--610594	15	3.4	15	80	5	66	68	2	0	30	1.01
610554--610593	21	1.9	21	90	10	64	67	0	0	32	0.91
610542--610621	29	2.7	29	88	3	106	60	1	0	38	1.05
610548--610597	14	3.5	14	81	5	64	68	2	0	30	1.01
613074--613108	17	2.1	17	88	0	52	37	0	0	62	0.95
613107--613164	18	3.5	17	77	15	59	63	1	0	34	1.04
617389--617456	30	2.2	32	82	12	88	60	0	0	39	0.97
617418--617474	26	2.2	25	79	11	62	52	0	0	47	1.00
618141--618206	30	2.3	30	86	5	91	43	4	0	51	1.22
619187--619219	2	16.5	2	100	0	66	48	0	0	51	1.00
619810--619845	16	2.2	17	90	9	58	61	2	0	36	1.11
619939--619988	24	2.1	24	85	7	66	40	4	16	40	1.67
620420--620453	17	2.1	16	88	5	50	55	2	2	38	1.30
621025--621070	15	2.9	16	78	21	60	63	0	0	36	0.95
621530--621595	29	2.3	29	86	5	89	45	0	0	54	0.99
621530--621598	22	3.0	23	74	16	70	46	0	0	53	1.00
621530--621601	25	2.7	27	80	15	80	45	0	0	54	0.99
622248--622279	2	15.5	2	93	6	55	50	3	0	46	1.17
622967--623015	17	2.9	17	79	11	57	42	0	4	53	1.20
622987--623033	22	2.1	22	92	4	76	38	2	0	59	1.09
623165--623230	16	4.0	17	78	5	73	66	0	1	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623165--623224	22	2.7	23	80	14	81	68	0	1	30	0.99
623162--623261	28	3.5	28	77	15	82	63	0	1	36	1.02
623206--623273	32	2.1	32	88	2	100	58	0	0	41	0.98
623172--623261	5	19.2	5	71	15	59	62	0	1	36	1.03
623223--623300	18	4.6	18	76	7	74	53	0	0	46	1.00
623220--623335	26	4.8	24	71	24	84	56	0	0	43	0.99
623177--623325	36	3.9	38	72	18	112	58	0	0	40	1.03
623293--623350	29	2.0	29	83	6	73	58	1	0	39	1.08
624090--624142	19	2.8	18	78	10	52	52	5	1	39	1.36
624083--624143	18	3.3	18	73	8	59	49	4	1	44	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27