genome.fa.s65.2.7.7.80.10.50.1000.3.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

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

This is table  3  of  17  ( 1956 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)
430176--430231	20	2.8	21	81	8	71	53	0	0	46	1.00
430176--430233	21	2.8	20	86	5	71	53	0	0	46	1.00
430867--430922	28	2.0	29	82	10	71	42	0	1	55	1.10
431006--431065	20	3.1	18	75	13	57	51	0	1	46	1.10
431049--431090	14	3.0	14	83	10	59	64	0	0	35	0.94
431118--431218	32	3.2	32	77	15	88	57	0	0	40	1.12
431157--431216	8	7.0	8	80	17	59	60	0	0	40	0.97
431429--431467	3	13.0	3	100	0	78	66	0	0	33	0.92
432903--432931	14	2.1	14	100	0	58	72	0	0	27	0.85
433491--433541	16	3.1	16	77	5	57	41	0	0	58	0.98
434844--434894	6	8.2	6	84	2	57	45	3	1	49	1.32
435375--435447	18	4.0	20	72	13	59	56	0	0	43	0.99
435375--435450	16	4.9	16	67	20	54	56	0	0	43	0.99
443582--443628	23	2.0	23	100	0	94	31	17	21	29	1.96
444230--444256	2	13.5	2	100	0	54	51	0	0	48	1.00
444741--444793	2	26.5	2	96	0	97	49	0	50	0	1.00
445744--445778	2	17.5	2	100	0	70	51	0	0	48	1.00
447133--447166	13	2.6	13	90	9	52	67	0	0	32	0.91
447656--447720	16	4.2	16	75	11	64	40	0	0	60	0.97
447659--447722	30	2.1	31	85	2	85	37	0	0	62	0.95
447659--447706	10	4.8	10	77	10	53	37	0	0	62	0.95
453550--453654	32	3.4	31	79	10	117	41	6	3	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454311--454390	43	1.9	39	82	9	97	42	5	11	41	1.62
454561--454593	3	11.0	3	87	12	50	30	3	0	66	1.06
455201--455243	22	2.0	22	90	9	70	46	0	0	53	1.00
455210--455246	19	1.9	19	89	10	58	45	0	0	54	1.00
459002--459048	23	2.1	22	84	4	58	38	2	10	48	1.50
459189--459225	17	2.2	17	90	0	56	56	0	0	43	0.99
459198--459298	19	5.2	19	62	17	55	47	0	0	51	1.07
459234--459302	28	2.3	29	79	20	81	46	0	0	53	1.00
463134--463168	13	2.6	13	86	4	52	25	0	0	74	0.82
465126--465172	24	1.9	23	83	12	58	17	14	29	38	1.89
469457--469488	13	2.6	13	85	14	50	0	87	0	12	0.54
469489--469522	2	17.0	2	93	0	59	0	52	0	47	1.00
470205--470233	13	2.1	14	93	6	51	72	0	0	27	0.85
471286--471321	16	2.2	17	90	5	56	69	0	0	30	0.89
482742--482789	24	2.0	22	84	15	60	47	2	0	50	1.12
483707--483753	2	23.5	2	91	0	76	46	0	0	53	1.00
485231--485304	31	2.4	31	86	4	96	33	2	16	47	1.61
486864--486923	15	4.1	15	79	10	61	38	0	0	61	0.96
486888--486925	7	5.3	7	82	17	51	44	0	0	55	0.99
486873--486936	29	2.2	30	82	2	85	39	0	0	60	0.97
489949--489990	15	2.8	16	82	7	52	52	0	0	47	1.00
490642--490702	18	3.4	18	80	13	65	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490739--490772	18	1.9	17	94	5	59	47	2	0	50	1.16
491302--491340	2	19.5	2	94	0	69	48	0	2	48	1.15
491764--491833	35	2.0	35	100	0	140	40	14	11	34	1.82
500631--500667	2	18.5	2	100	0	74	51	0	0	48	1.00
501138--501190	8	6.6	8	74	8	54	60	1	0	37	1.08
504133--504157	4	6.2	4	100	0	50	76	0	24	0	0.80
505482--505521	21	1.9	21	84	0	53	47	0	0	52	1.00
506028--506083	30	2.0	28	86	10	78	48	0	0	51	1.00
514499--514528	2	15.0	2	92	0	51	46	0	3	50	1.18
514595--514623	14	2.1	14	93	6	51	68	3	0	27	1.05
515116--515147	16	2.0	16	93	0	55	53	0	0	46	1.00
518760--518788	2	14.5	2	100	0	58	51	0	48	0	1.00
520516--520542	2	13.5	2	100	0	54	0	48	0	51	1.00
534676--534711	17	2.1	17	90	10	56	50	0	0	50	1.00
537822--537863	18	2.3	19	84	8	52	57	0	2	40	1.12
537828--537864	18	2.0	18	89	5	56	54	0	0	45	1.00
537828--537894	28	2.4	29	85	7	95	53	1	0	44	1.09
537929--537967	18	2.2	19	86	9	55	53	0	0	46	1.00
538637--538769	18	7.8	18	67	25	67	57	0	1	40	1.13
538626--538760	32	4.3	33	74	20	130	56	0	1	41	1.14
538628--538767	13	10.5	13	65	20	67	57	0	1	40	1.13
538650--538767	47	2.5	45	79	12	123	56	0	1	40	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538715--538791	36	2.1	36	84	15	97	64	0	2	32	1.07
538733--538791	19	3.4	18	84	11	79	66	0	3	30	1.08
539133--539166	5	6.6	5	86	6	50	17	0	0	82	0.67
539136--539166	16	1.9	16	93	0	53	16	0	0	83	0.64
539259--539301	19	2.3	19	80	4	52	67	4	0	27	1.10
539658--539742	26	3.3	26	71	12	84	41	12	10	35	1.78
539653--539755	52	2.0	52	94	0	179	41	14	11	32	1.82
539814--539882	16	4.0	17	68	21	54	44	1	0	53	1.09
539811--539874	33	1.9	34	84	9	87	45	1	0	53	1.10
539848--539932	25	3.6	25	73	13	72	37	2	0	60	1.10
539785--539910	52	2.5	51	73	12	123	41	1	0	57	1.08
539904--539946	13	3.3	13	83	0	50	37	0	2	60	1.10
539914--539953	19	2.1	19	86	9	55	42	0	2	55	1.13
539895--539944	26	1.9	26	83	0	64	34	0	2	64	1.05
540813--540850	20	1.9	20	94	0	67	52	0	0	47	1.00
540799--540851	20	2.7	18	78	16	52	47	0	3	49	1.19
541377--541432	23	2.3	26	79	14	66	48	1	0	50	1.11
541422--541454	17	2.1	17	88	11	52	45	3	0	51	1.16
542793--542830	2	19.0	2	100	0	76	50	0	0	50	1.00
548757--548809	26	2.0	26	100	0	106	35	11	11	41	1.77
549053--549126	20	4.1	18	67	25	57	25	5	6	62	1.42
549039--549148	54	2.0	54	100	0	220	27	5	7	60	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550476--550513	17	2.2	17	86	13	51	47	5	0	47	1.24
550587--550656	26	2.7	24	81	14	77	65	2	1	30	1.15
550689--550723	16	2.2	16	94	0	61	0	20	0	80	0.72
550690--550724	4	9.0	4	87	6	54	0	22	0	77	0.78
550823--550932	20	5.4	20	71	18	77	62	0	0	36	1.01
550823--550856	11	3.2	11	83	8	52	70	0	0	29	0.87
550835--550964	60	2.3	58	79	14	144	57	0	0	41	1.04
550897--550961	10	7.2	9	77	10	62	55	0	0	44	0.99
550906--550964	17	3.4	17	88	2	82	55	0	0	44	0.99
552409--552456	21	2.3	21	81	0	60	58	6	4	31	1.42
552472--552542	31	2.3	30	83	9	81	66	1	0	32	1.01
552451--552549	51	2.0	47	81	11	110	65	2	0	32	1.04
552568--552606	17	2.2	18	86	4	53	0	28	2	69	1.02
552556--552614	22	2.9	20	76	23	61	0	27	1	71	0.96
554575--554623	19	2.6	19	73	0	53	42	0	0	57	0.99
554946--554976	4	7.8	4	100	0	62	48	0	0	51	1.00
555202--555256	24	2.2	25	87	9	78	65	1	0	32	1.03
555203--555260	14	4.5	13	76	12	57	65	1	0	32	1.03
564649--564696	23	2.1	23	96	0	87	22	25	20	31	1.98
567581--567605	7	3.6	7	100	0	50	24	0	0	76	0.80
567744--567788	21	2.1	21	83	0	54	53	2	0	44	1.13
568039--568310	141	2.0	136	80	10	309	32	6	5	54	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572649--572685	2	18.5	2	100	0	74	48	0	51	0	1.00
573957--573982	2	13.0	2	100	0	52	50	0	50	0	1.00
590760--590854	50	1.9	48	93	4	163	35	12	30	21	1.90
594362--594406	15	3.1	14	81	12	56	37	0	2	60	1.09
596381--596417	18	2.0	20	84	10	51	59	2	0	37	1.12
596471--596517	17	2.7	18	87	12	71	68	0	2	29	1.02
597323--597378	24	2.2	26	81	9	71	35	0	0	64	0.94
598291--598318	2	14.0	2	100	0	56	50	0	0	50	1.00
599122--599151	14	2.1	14	93	0	51	46	0	0	53	1.00
599960--600000	2	20.5	2	100	0	82	51	0	0	48	1.00

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