genome.fa.s226.2.7.7.80.10.50.1000.4.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: Scaffold226
Parameters: 2 7 7 80 10 50 1000
Length:  1170647

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 925 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)
343818--343879	20	3.0	19	72	13	52	64	1	0	33	1.03
343902--343959	31	1.9	30	82	10	73	62	3	0	34	1.12
343838--344004	75	2.3	75	91	3	277	56	9	1	32	1.42
344194--344281	38	2.4	37	83	9	99	55	2	1	40	1.20
346173--346274	36	2.8	36	91	2	161	50	5	0	44	1.26
346348--346378	6	5.0	6	96	4	53	19	16	32	32	1.94
357193--357234	19	2.0	21	86	13	61	38	0	0	61	0.96
357858--357931	20	3.7	20	76	3	60	33	14	13	37	1.86
361946--361985	20	2.0	20	85	4	55	52	0	5	42	1.23
362598--362626	2	14.5	2	100	0	58	48	0	0	51	1.00
362731--362799	18	3.8	18	75	17	63	55	0	5	39	1.24
362928--362990	29	2.2	31	80	13	80	55	0	0	44	0.99
363376--363471	20	4.8	19	72	17	61	57	0	0	42	0.98
363382--363430	24	2.0	24	84	11	64	55	0	0	44	0.99
363408--363470	18	3.4	19	75	18	69	60	0	0	39	0.97
363408--363471	19	3.4	19	70	23	55	59	0	0	40	0.97
365013--365059	16	3.0	15	77	19	51	46	0	0	53	1.00
365071--365109	13	3.1	13	85	3	53	66	0	2	30	1.05
366813--366860	25	1.9	25	83	8	62	45	4	0	50	1.21
367028--367072	22	2.0	23	83	16	58	53	0	0	46	1.00
367025--367083	30	2.0	30	86	6	84	52	0	0	47	1.00
367053--367101	25	2.0	26	88	8	75	55	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367451--367490	20	2.0	20	90	9	64	42	0	0	57	0.98
367572--367627	2	29.5	2	77	10	55	46	1	1	50	1.22
373779--373834	18	3.1	18	78	14	62	42	0	0	57	0.99
380496--380574	32	2.7	27	74	22	79	41	1	3	53	1.27
380584--380622	17	2.3	18	82	13	55	30	0	0	69	0.89
380991--381051	25	2.5	24	82	10	72	55	0	0	44	0.99
382122--382220	17	5.1	18	68	22	58	55	2	1	41	1.18
383009--383072	34	1.9	33	84	9	85	53	0	0	46	1.00
383143--383184	3	14.3	3	95	5	77	35	0	0	64	0.94
383470--383522	15	3.7	15	72	23	51	52	0	0	47	1.00
384342--384391	13	3.6	14	79	15	59	56	0	0	44	0.99
384363--384441	5	16.0	5	70	17	58	59	0	0	40	0.97
384353--384408	16	3.3	16	75	18	51	57	0	0	42	0.99
384353--384443	35	2.8	33	82	14	102	58	0	0	41	0.98
384362--384480	13	8.6	13	69	20	55	57	1	0	39	1.14
384301--384443	30	4.5	31	72	20	100	59	0	1	38	1.11
384948--384986	21	2.0	20	85	10	53	53	0	0	46	1.00
386843--386884	22	1.9	22	95	0	75	19	35	26	19	1.95
387001--387177	40	4.5	39	72	16	134	59	0	3	36	1.14
386993--387098	30	3.6	29	73	10	90	61	0	3	34	1.14
386993--387098	31	3.6	31	75	15	84	61	0	3	34	1.14
387055--387201	75	2.0	74	89	1	222	59	0	2	37	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387111--387176	29	2.3	30	75	19	77	60	0	1	37	1.06
387106--387237	19	7.3	19	62	21	52	58	0	1	39	1.13
394281--394348	33	2.1	33	97	0	127	25	11	19	44	1.84
394765--394795	2	15.5	2	100	0	62	48	0	0	51	1.00
398608--398718	22	5.0	22	64	20	52	50	1	0	47	1.11
402004--402035	16	2.0	16	100	0	64	43	0	0	56	0.99
402510--402560	21	2.4	22	74	12	52	49	0	0	50	1.00
403630--403681	22	2.3	23	75	15	54	13	13	1	71	1.24
404479--404507	2	14.5	2	100	0	58	51	0	0	48	1.00
407180--407209	15	1.9	16	93	6	53	23	0	0	76	0.78
407410--407441	2	16.0	2	93	0	55	53	0	0	46	1.00
408338--408398	22	2.8	21	69	18	52	63	1	0	34	1.04
408297--408516	115	1.9	116	85	4	311	55	2	3	38	1.32
409274--409363	32	2.8	33	81	9	105	46	0	0	53	1.00
409274--409362	33	2.7	33	83	8	103	46	0	0	53	1.00
409274--409372	33	3.0	32	79	13	96	47	0	0	52	1.00
409375--409404	15	1.9	16	93	6	53	46	6	0	46	1.29
409609--409655	5	9.8	5	77	9	53	42	2	2	53	1.25
409853--409920	21	3.3	20	76	11	57	50	4	0	45	1.22
410726--410782	28	2.0	29	89	6	89	52	12	5	29	1.60
411858--411883	2	13.0	2	100	0	52	50	0	0	50	1.00
412182--412221	2	20.0	2	100	0	80	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412639--412664	2	13.0	2	100	0	52	50	0	0	50	1.00
413858--413939	5	15.2	5	73	22	60	43	0	2	53	1.13
413854--413927	11	6.9	11	72	20	50	44	0	1	54	1.08
413858--413959	22	4.5	22	70	21	68	44	0	1	53	1.11
413914--413973	32	1.9	31	86	3	84	43	0	3	53	1.17
413859--413960	25	4.5	23	75	20	74	45	0	1	52	1.12
415352--415382	3	10.3	3	92	0	53	64	32	3	0	1.09
415832--415870	6	6.5	6	87	0	51	66	12	0	20	1.24
422195--422241	23	2.1	22	92	7	78	65	0	0	34	0.93
422189--422256	21	3.5	20	72	20	63	58	0	1	39	1.07
422462--422512	20	2.6	21	78	12	54	35	0	1	62	1.06
422523--422586	28	2.2	28	83	2	83	67	0	0	32	0.91
422570--422656	26	2.9	31	75	21	94	52	0	0	47	1.00
423647--423679	2	16.5	2	100	0	66	51	0	0	48	1.00
431521--431564	20	2.1	21	87	4	63	40	0	0	59	0.98
431684--431722	15	2.7	15	84	4	53	28	0	0	71	0.86
431673--431739	15	4.4	16	72	9	52	34	1	0	64	1.03
431863--431892	12	2.4	13	94	5	53	63	0	0	36	0.95
432841--432878	20	1.9	20	94	0	67	47	0	7	44	1.32
436829--436908	20	4.1	20	68	18	69	46	0	1	52	1.08
437040--437069	12	2.4	12	94	5	51	53	0	0	46	1.00
437749--437797	16	3.3	15	80	8	55	36	8	6	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438107--438133	2	13.5	2	100	0	54	51	0	0	48	1.00
438628--438693	19	3.4	19	85	8	80	45	1	0	53	1.09
438997--439042	14	3.4	14	79	11	51	34	0	0	65	0.93
439729--439798	15	4.5	15	75	16	63	60	4	4	31	1.36
439781--439859	17	4.7	17	80	11	83	60	3	1	34	1.23
439781--439850	17	4.1	18	82	12	85	62	2	1	32	1.18
439781--439850	35	2.0	36	78	13	60	62	2	1	32	1.18
440076--440103	2	14.0	2	100	0	56	50	0	0	50	1.00
446699--446840	11	13.0	11	63	22	59	42	0	1	54	1.14
446727--446848	25	5.0	24	69	21	69	44	0	1	54	1.10
446745--446851	14	7.5	14	71	21	71	44	0	0	54	1.06
447650--447686	2	18.5	2	100	0	74	48	0	0	51	1.00
447804--447854	22	2.3	23	80	10	61	43	0	0	56	0.99
448164--448222	19	3.0	20	78	7	77	45	0	0	54	0.99
448217--448262	22	2.1	22	88	8	67	39	0	0	60	0.97
451554--451614	21	3.0	20	79	9	70	36	0	0	63	0.94
451531--451614	40	2.1	39	82	10	100	40	0	1	58	1.06
451814--451858	21	2.2	20	88	4	63	31	0	0	68	0.89
451931--452105	32	5.6	31	74	14	137	56	0	1	42	1.09
452049--452131	7	10.9	7	72	20	51	60	0	1	38	1.05
452014--452146	6	21.5	6	68	19	53	59	0	0	39	1.03
452080--452137	28	2.0	29	87	9	84	60	0	1	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451942--452125	93	2.0	91	85	7	246	57	0	1	40	1.08
460196--460231	19	1.9	19	88	5	56	22	22	22	33	1.97
466445--466477	10	3.2	10	91	8	57	57	0	0	42	0.98
466445--466475	11	2.9	11	95	4	55	58	0	0	41	0.98
466445--466494	21	2.3	21	83	13	57	54	0	0	46	1.00
466482--466546	17	4.0	15	72	21	51	58	1	0	40	1.07
466481--466552	18	4.3	17	77	19	71	58	1	0	40	1.07
466581--466629	23	2.1	24	88	3	73	48	0	4	46	1.20
466885--466963	29	3.0	27	76	18	85	48	0	0	51	1.00
473819--473848	2	14.5	2	93	6	51	50	0	3	46	1.18

Tables:   1   2   3   4   5   6   7   8